PeakID	Chr	Start	End	Strand	Peak Score	Focus Ratio/Region Size	Annotation	Detailed Annotation	Distance to TSS	Nearest PromoterID	Entrez ID	Nearest Unigene	Nearest Refseq	Nearest Ensembl	Gene Name	Gene Alias	Gene Description	Gene Type	/home/h1bennet/strains/data/ATAC/control_cohort2/balbcj_Male_Kupffer_ATAC_Chow_healthyoung_BALB1_TDT_l20210213_TCATGAGC_CTCTCTAT_S15_L001_trim30.balbcj.bowtie2_shifted_from_BALBCJ.sam	/home/h1bennet/strains/data/ATAC/control_cohort2/balbcj_Male_Kupffer_ATAC_Chow_healthyoung_BALB2_TDT_l20210213_CCTGAGAT_TATCCTCT_S16_L001_trim30.balbcj.bowtie2_shifted_from_BALBCJ.sam	/home/h1bennet/strains/data/ATAC/control_cohort2/balbcj_Male_Kupffer_ATAC_Chow_healthyoung_BALB3_TDT_l20210213_TAGCGAGT_GTAAGGAG_S17_L001_trim30.balbcj.bowtie2_shifted_from_BALBCJ.sam	/home/h1bennet/strains/data/ATAC/control_cohort2/balbcj_Male_Kupffer_ATAC_Chow_healthyoung_BALB4_TDT_l20210213_GTAGCTCC_ACTGCATA_S18_L001_trim30.balbcj.bowtie2_shifted_from_BALBCJ.sam	/home/h1bennet/strains/data/ATAC/control_cohort2/c57bl6j_Male_Kupffer_ATAC_Chow_healthyoung_C571_TDT_l20210213_TACTACGC_AAGGAGTA_S19_L001_trim30	/home/h1bennet/strains/data/ATAC/control_cohort2/c57bl6j_Male_Kupffer_ATAC_Chow_healthyoung_C572_TDT_l20210213_AGGCTCCG_CTAAGCCT_S20_L001_trim30	/home/h1bennet/strains/data/ATAC/control_cohort2/c57bl6j_Male_Kupffer_ATAC_Chow_healthyoung_C573_TDT_l20210213_GCAGCGTA_CGTCTAAT_S21_L001_trim30	/home/h1bennet/strains/data/ATAC/control_cohort2/c57bl6j_Male_Kupffer_ATAC_Chow_healthyoung_C574_TDT_l20210213_CTGCGCAT_TCTCTCCG_S22_L001_trim30
Merged-chr4-102649140-3	chr4	102649035	102649235	+	639.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	59292.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	12.5	15.0	15.5	100.0	2.0	1.0	0.0	0.0
Merged-chr4-53228673-4	chr4	53228573	53228773	+	909.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17523.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	17.0	13.5	15.5	225.5	37.0	13.5	11.5	7.5
Merged-chr12-35983688-4	chr12	35983574	35983774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9251.0	NM_011783	23795.0	Mm.7244	NM_011783	ENSMUSG00000020581	Agr2	Agr2h|Gob-4|HAG-2|XAG-2|mAG-2	anterior gradient 2	protein-coding	58.0	64.0	56.5	1115.0	49.5	37.0	49.5	31.5
Merged-chr17-32113672-4	chr17	32113567	32113767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22244.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	60.5	121.0	80.5	1667.5	221.5	82.0	97.5	95.5
Merged-chr2-84622975-4	chr2	84622907	84623107	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355067, intron 1 of 15)	intron (NM_001355067, intron 1 of 15)	26473.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	35.0	98.5	73.0	660.0	69.5	34.5	28.5	12.0
Merged-chr9-110666114-4	chr9	110666016	110666216	+	856.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	9613.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	9.0	17.0	9.5	210.0	37.5	12.0	18.0	26.0
Merged-chr17-70748167-4	chr17	70748039	70748239	+	930.0380859999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	98638.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	4.0	12.5	13.5	107.0	25.5	12.0	11.5	23.5
Merged-chr11-87422581-4	chr11	87422474	87422674	+	878.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031386, intron 1 of 30)	intron (NM_031386, intron 1 of 30)	-5017.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	9.5	11.5	6.5	126.5	33.5	12.5	9.0	10.0
Merged-chr11-98729438-4	chr11	98729323	98729523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011869)	promoter-TSS (NM_011869)	12.0	NM_001361995	23989.0	Mm.246493	NM_011869	ENSMUSG00000017210	Med24	911GSE|AU040102|AW547152|D11Ertd307e|DRIP100|Gse2|Pparb2|Pparbp2|R75526|Thrap4|Trap100	mediator complex subunit 24	protein-coding	48.0	71.0	26.5	431.0	112.0	32.5	42.5	30.5
Merged-chr4-58040267-4	chr4	58040154	58040354	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31130.0	NM_026132	67402.0	Mm.87357	NM_026132	ENSMUSG00000038709	Txndc8	4930429J24Rik|Sptrx-3|Sptrx3|Trx6	thioredoxin domain containing 8	protein-coding	18.5	34.0	24.0	473.0	62.5	28.5	13.5	25.0
Merged-chr10-82935183-4	chr10	82935083	82935283	+	822.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50314.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	18.5	17.5	9.5	125.5	26.5	5.5	14.5	24.5
Merged-chr2-156720129-4	chr2	156720030	156720230	+	961.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042488)	promoter-TSS (NM_001042488)	779.0	NR_040505	74846.0	Mm.443946	NR_040505	ENSMUSG00000086638	4930405A21Rik	-	RIKEN cDNA 4930405A21 gene	ncRNA	33.5	41.0	14.5	163.0	84.0	37.5	20.0	15.0
Merged-chr9-111290032-4	chr9	111289947	111290147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18202.0	NM_175266	77781.0	Mm.209005	NM_175266	ENSMUSG00000046785	Epm2aip1	A930003G21Rik|mKIAA0766	EPM2A (laforin) interacting protein 1	protein-coding	33.0	46.5	20.0	388.0	105.5	38.5	49.5	42.0
Merged-chr3-107895840-4	chr3	107895758	107895958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010360)	promoter-TSS (NM_010360)	4.0	NM_010360	14866.0	Mm.282351	NM_010360	ENSMUSG00000004032	Gstm5	-	glutathione S-transferase, mu 5	protein-coding	45.0	56.0	49.0	598.5	67.0	24.5	44.0	35.5
Merged-chr19-36909943-2	chr19	36909843	36910043	+	697.025024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9656.0	NM_028263	72514.0	Mm.41674	NM_028263	ENSMUSG00000047632	Fgfbp3	2610306H15Rik|Fgf-bp3	fibroblast growth factor binding protein 3	protein-coding	3.5	10.5	3.0	43.5	27.0	4.5	7.5	6.0
Merged-chr12-112578845-4	chr12	112578769	112578969	+	821.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9915.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	16.5	13.5	19.5	271.5	31.0	15.0	15.5	20.5
Merged-chr15-8716682-6	chr15	8716558	8716758	+	856.511108	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5851.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	7.5	6.5	10.0	101.5	25.5	14.0	17.5	5.5
Merged-chr6-127330404-4	chr6	127330312	127330512	+	970.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22445.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	21.5	25.0	28.0	420.5	61.5	16.5	21.5	14.5
Merged-chr17-28528178-4	chr17	28528077	28528277	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2684.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	20.0	16.5	7.0	339.0	38.0	22.0	21.0	25.0
Merged-chr13-9783906-4	chr13	9783806	9784006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18585.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	60.5	100.5	72.5	985.5	130.0	37.0	45.5	45.0
Merged-chr6-125685618-4	chr6	125685527	125685727	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 50 of 51)	intron (NM_011708, intron 50 of 51)	-4792.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	19.5	43.5	19.0	543.5	77.0	15.0	25.0	25.0
Merged-chr2-181364905-1	chr2	181364805	181365005	+	570.0	f0_c57.idr	promoter-TSS (NM_144894)	promoter-TSS (NM_144894)	-26.0	NM_144894	229007.0	Mm.87720	NM_144894	ENSMUSG00000027582	Zgpat	1500006I01Rik|BC021513	zinc finger, CCCH-type with G patch domain	protein-coding	1.5	9.0	12.5	61.0	26.5	4.5	10.5	15.0
Merged-chr9-78039238-4	chr9	78039148	78039348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12710.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	51.0	79.0	35.0	542.5	136.5	29.5	37.5	48.5
Merged-chr6-136465207-4	chr6	136465097	136465297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-49628.0	NM_001201390	100502936.0	Mm.21182	NM_001201390	ENSMUSG00000045291	E330021D16Rik	C85549	RIKEN cDNA E330021D16 gene	protein-coding	18.0	31.5	21.0	341.5	99.0	34.0	37.0	46.0
Merged-chr4-46585177-3	chr4	46585118	46585318	+	815.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 1 of 11)	intron (NM_001164804, intron 1 of 11)	16711.0	NM_001164804	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	11.0	7.0	7.5	107.0	3.5	2.5	1.0	4.0
Merged-chr7-12949651-4	chr7	12949570	12949770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16168.0	NM_001362140	243834.0	Mm.133086	NM_178732	ENSMUSG00000004500	Zfp324	A930002M05|D430030K24Rik|ZF5128	zinc finger protein 324	protein-coding	379.0	509.5	375.5	6113.5	826.0	295.5	391.5	275.5
Merged-chr7-101896314-4	chr7	101896238	101896438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027532)	promoter-TSS (NM_027532)	7.0	NM_001291349	75430.0	Mm.284491	NM_027532	ENSMUSG00000030649	Anapc15	3200002M19Rik|6330414C15Rik|APC15	anaphase prompoting complex C subunit 15	protein-coding	125.0	174.5	96.0	1462.0	282.5	131.0	132.5	98.5
Merged-chr17-29513351-4	chr17	29513257	29513457	+	917.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22312.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	20.5	10.0	6.0	111.5	55.0	19.5	31.0	21.5
Merged-chr5-53437436-4	chr5	53437318	53437518	+	970.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118361.0	NM_001080928	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	15.0	21.0	15.5	209.0	34.0	14.0	18.0	15.5
Merged-chr1-173423085-4	chr1	173422982	173423182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 1 of 8)	intron (NM_001013779, intron 1 of 8)	2478.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	35.0	68.0	16.5	428.5	104.0	37.0	36.5	27.5
Merged-chr3-54111343-3	chr3	54111252	54111452	+	661.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44705.0	NM_001253683	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	3.0	3.0	12.0	128.0	15.0	5.0	13.5	5.0
Merged-chr12-52318657-3	chr12	52318540	52318740	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	161969.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	8.0	12.0	16.0	298.5	23.0	5.0	8.0	6.0
Merged-chr15-51449845-4	chr15	51449739	51449939	+	901.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-54229.0	NR_045092	100502643.0	Mm.131987	NR_045092	ENSMUSG00000115654	Gm19303	-	predicted gene, 19303	ncRNA	8.5	12.5	22.5	334.0	20.5	9.0	24.5	23.0
Merged-chr6-108146626-4	chr6	108146531	108146731	+	908.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145937, intron 6 of 8)	intron (NM_145937, intron 6 of 8)	38952.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	8.5	4.0	2.0	229.5	32.5	11.0	11.5	15.5
Merged-chr11-98795143-4	chr11	98795023	98795223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361932)	promoter-TSS (NM_001361932)	-393.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	24.5	51.0	25.0	322.5	84.5	39.0	20.0	38.5
Merged-chr6-56797746-4	chr6	56797654	56797854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145958)	promoter-TSS (NM_145958)	59.0	NM_001362210	210973.0	Mm.57295	NM_145958	ENSMUSG00000059486	Kbtbd2	BC022962|Bklhd1|mKIAA1489	kelch repeat and BTB (POZ) domain containing 2	protein-coding	152.5	274.5	162.0	2165.0	450.5	169.0	177.0	137.5
Merged-chr3-58689384-3	chr3	58689285	58689485	+	870.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009174, intron 1 of 1)	Lx|LINE|L1	3003.0	NM_009174	20439.0	Mm.2847	NM_009174	ENSMUSG00000036432	Siah2	AA415433|Sinh2	siah E3 ubiquitin protein ligase 2	protein-coding	3.0	12.5	6.5	76.0	7.5	6.0	6.5	6.5
Merged-chr3-20028816-4	chr3	20028743	20028943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 4 of 16)	intron (NM_080634, intron 4 of 16)	6467.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	41.0	76.0	76.0	1336.0	99.5	23.5	36.5	36.5
Merged-chr13-73467184-4	chr13	73467076	73467276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145376)	promoter-TSS (NM_145376)	-207.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	78.5	129.5	104.0	1069.0	202.5	80.5	114.0	85.0
Merged-chr6-29513468-4	chr6	29513361	29513561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5509.0	NM_001029985	333088.0	Mm.332961	NM_001029985	ENSMUSG00000059022	Kcp	AW060220|CRIM-2|Crim2|Gm793|KCP-1	kielin/chordin-like protein	protein-coding	74.5	59.0	57.0	857.0	111.0	39.5	78.0	55.5
Merged-chr16-90316060-4	chr16	90315958	90316158	+	854.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-31555.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	10.0	19.5	7.5	277.0	13.5	15.0	11.5	15.5
Merged-chr16-23550572-2	chr16	23550472	23550672	+	845.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29757.0	NM_001359083	17174.0	Mm.1213	NM_008555	ENSMUSG00000022887	Masp1	AW048060|CCPII|Crarf|Masp1/3	mannan-binding lectin serine peptidase 1	protein-coding	1.0	7.5	9.0	55.0	7.0	7.5	7.5	10.0
Merged-chr7-139224944-4	chr7	139224827	139225027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143755, intron 6 of 8)	intron (NM_001143755, intron 6 of 8)	-11620.0	NM_001162540	57740.0	Mm.65336	NM_021302	ENSMUSG00000015981	Stk32c	PKE|Pkek|YANK3	serine/threonine kinase 32C	protein-coding	34.5	55.5	26.5	592.5	210.0	59.0	50.0	68.5
Merged-chr2-94438231-4	chr2	94438137	94438337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001349003)	promoter-TSS (NM_001349003)	-51.0	NM_001349003	11800.0	Mm.181824	NM_007466	ENSMUSG00000027193	Api5	AAC-11|AI196452|API-5	apoptosis inhibitor 5	protein-coding	149.0	206.5	155.5	2757.5	358.0	141.5	164.0	183.5
Merged-chr18-65495973-4	chr18	65495897	65496097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	65000.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	54.5	149.0	97.5	796.0	84.5	35.5	26.5	7.5
Merged-chr2-165027374-1	chr2	165027274	165027474	+	763.0	f0_balb.idr	intron (NM_144892, intron 1 of 7)	intron (NM_144892, intron 1 of 7)	7405.0	NM_144892	228869.0	Mm.233080	NM_144892	ENSMUSG00000039804	Ncoa5	CIA	nuclear receptor coactivator 5	protein-coding	9.0	6.0	7.0	160.5	23.0	1.5	7.5	19.5
Merged-chr8-125227422-4	chr8	125227399	125227599	+	876.830322	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 10 of 12)	intron (NM_174854, intron 10 of 12)	173304.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	11.0	8.5	15.0	181.5	16.0	7.5	7.5	14.5
Merged-chr6-39567737-4	chr6	39567616	39567816	+	738.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6160.0	NM_178873	57869.0	Mm.247957	NM_178873	ENSMUSG00000046947	Adck2	AA408112|BB006057	aarF domain containing kinase 2	protein-coding	12.5	11.5	10.5	93.5	15.0	7.5	5.0	6.5
Merged-chr9-78553165-3	chr9	78553048	78553248	+	905.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172773, intron 8 of 10)	intron (NM_172773, intron 8 of 10)	34897.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	8.0	9.5	6.0	126.0	17.5	4.0	4.0	9.5
Merged-chr11-95838886-5	chr11	95838841	95839041	+	897.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163464, intron 1 of 7)	intron (NM_001163464, intron 1 of 7)	-3354.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	4.5	30.0	6.5	105.0	25.5	9.5	15.5	3.5
Merged-chr9-57723383-4	chr9	57723291	57723491	+	686.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153799, intron 3 of 6)	intron (NM_153799, intron 3 of 6)	14822.0	NM_153799	353190.0	Mm.268104	NM_153799	ENSMUSG00000038957	Edc3	AA517853|Lsm16|Yjdc	enhancer of mRNA decapping 3	protein-coding	18.0	10.0	6.5	132.5	26.0	9.0	6.5	16.5
Merged-chr16-23284627-4	chr16	23284540	23284740	+	979.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	intron (NM_001252505, intron 2 of 7)	-5830.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	22.5	30.0	7.0	237.5	29.5	15.5	16.5	23.0
Merged-chr11-82915153-3	chr11	82915051	82915251	+	703.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178680, intron 5 of 19)	intron (NM_178680, intron 5 of 19)	3898.0	NM_178680	217012.0	Mm.295205	NM_178680	ENSMUSG00000018845	Unc45b	AA445617|Cmya4|D230041A13Rik|Unc45	unc-45 myosin chaperone B	protein-coding	9.5	8.5	0.5	114.0	27.0	4.5	7.5	7.0
Merged-chr3-27302905-4	chr3	27302792	27302992	+	900.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14185.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	14.0	31.0	9.0	137.0	26.5	17.5	12.5	9.5
Merged-chr13-20171240-1	chr13	20171140	20171340	+	802.25	f0_balb.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	80733.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	12.0	8.0	9.5	200.0	24.5	3.0	7.0	4.0
Merged-chr8-78510393-4	chr8	78510291	78510491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104094, intron 1 of 9)	intron (NR_104094, intron 1 of 9)	1063.0	NM_001282108	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	18.0	34.5	27.5	430.5	45.0	21.5	27.0	33.0
Merged-chr13-44518386-4	chr13	44518269	44518469	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78642.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	30.0	67.0	32.5	261.5	117.0	40.5	30.5	17.0
Merged-chr2-129197848-3	chr2	129197785	129197985	+	951.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159593)	promoter-TSS (NM_001159593)	-888.0	NM_015747	20515.0	Mm.272675	NM_015747	ENSMUSG00000027397	Slc20a1	AI607883|Glvr-1|Glvr1	solute carrier family 20, member 1	protein-coding	3.5	10.5	3.0	77.0	26.5	5.0	10.5	11.0
Merged-chr2-29004177-4	chr2	29004071	29004271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166705, intron 1 of 5)	intron (NM_001166705, intron 1 of 5)	50895.0	NM_001166705	329375.0	Mm.425079	NM_001085514	ENSMUSG00000079502	Cfap77	1700101E01Rik|Gm823	cilia and flagella associated protein 77	protein-coding	17.0	45.5	31.5	334.5	95.0	29.0	44.5	32.0
Merged-chr10-37320243-4	chr10	37320129	37320329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-181303.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	65.5	130.5	73.0	487.0	193.5	79.5	87.5	52.5
Merged-chr11-70983005-4	chr11	70982901	70983101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007573)	promoter-TSS (NM_007573)	25.0	NM_007573	12261.0	Mm.30049	NM_007573	ENSMUSG00000018446	C1qbp	AA407365|AA986492|D11Wsu182e|HABP1|P32|gC1qBP	complement component 1, q subcomponent binding protein	protein-coding	65.5	115.0	47.0	731.5	144.0	72.0	59.0	49.0
Merged-chr1-64615088-4	chr1	64615023	64615223	+	919.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025964, exon 2 of 3)	exon (NM_025964, exon 2 of 3)	2045.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	5.5	12.0	13.5	164.0	35.5	8.0	12.5	14.0
Merged-chr4-136884706-4	chr4	136884644	136884844	+	852.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009777, intron 1 of 2)	intron (NM_009777, intron 1 of 2)	1433.0	NM_009777	12260.0	Mm.2570	NM_009777	ENSMUSG00000036905	C1qb	-	complement component 1, q subcomponent, beta polypeptide	protein-coding	6.5	7.0	22.5	154.0	24.0	5.5	7.0	9.0
Merged-chr1-88433698-4	chr1	88433609	88433809	+	935.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26699.0	NM_029269	75396.0	Mm.173058	NM_029269	ENSMUSG00000026295	Spp2	0610038O04Rik|pp-24|spp24	secreted phosphoprotein 2	protein-coding	14.5	34.0	11.5	325.5	59.0	10.0	35.0	18.5
Merged-chr14-75182650-2	chr14	75182550	75182750	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	46225.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	2.5	11.0	2.0	36.5	21.0	5.5	12.5	6.5
Merged-chr6-127246035-4	chr6	127245904	127246104	+	852.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61963.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	13.5	7.0	8.0	108.5	59.5	14.0	24.0	11.5
Merged-chr9-98351583-4	chr9	98351481	98351681	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	intron (NM_001357445, intron 1 of 3)	55011.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	49.5	79.0	43.0	729.0	32.0	8.0	18.5	7.0
Merged-chr15-97672320-3	chr15	97672207	97672407	+	759.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33515.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	6.0	5.5	4.5	72.0	10.5	2.5	2.5	7.5
Merged-chr13-81241290-4	chr13	81241198	81241398	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	intron (NM_054053, intron 85 of 89)	277224.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	29.0	36.0	60.5	741.5	55.0	28.0	23.5	17.5
Merged-chr5-107360088-2	chr5	107359988	107360188	+	813.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_054054, intron 13 of 18)	intron (NM_054054, intron 13 of 18)	28894.0	NM_054054	114642.0	Mm.182836	NM_054054	ENSMUSG00000029279	Brdt	7420412D09Rik|Brd6|Fsrg3	bromodomain, testis-specific	protein-coding	2.0	5.0	15.0	73.0	9.5	8.5	5.0	10.0
Merged-chr10-125995069-4	chr10	125994979	125995179	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177152, intron 4 of 18)	ORR1E|LTR|ERVL-MaLR	28860.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	23.5	27.0	26.0	284.5	62.0	20.0	43.5	16.5
Merged-chr11-70459484-2	chr11	70459384	70459584	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348337)	promoter-TSS (NM_001348337)	51.0	NM_001029929	574428.0	Mm.425692	NM_001029929	ENSMUSG00000040829	Zmynd15	-	zinc finger, MYND-type containing 15	protein-coding	4.5	40.0	16.0	123.0	39.5	14.0	8.5	19.0
Merged-chr13-41432501-4	chr13	41432402	41432602	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	54858.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	34.5	49.0	17.0	309.5	48.0	20.5	23.0	38.0
Merged-chr5-74253929-4	chr5	74253872	74254072	+	831.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	intron (NM_001114660, intron 5 of 8)	58646.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	3.5	4.5	13.5	77.0	19.0	8.0	11.0	16.5
Merged-chr15-83166806-4	chr15	83166706	83166906	+	989.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029787, intron 1 of 8)	intron (NM_029787, intron 1 of 8)	5402.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	23.0	15.5	17.0	290.0	56.0	28.0	26.0	30.0
Merged-chr10-68714505-4	chr10	68714387	68714587	+	742.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	-9259.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	7.5	4.5	2.5	137.5	18.5	7.0	25.0	12.5
Merged-chr15-76701449-4	chr15	76701341	76701541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027122)	promoter-TSS (NM_027122)	-101.0	NM_027122	69572.0	Mm.34920	NM_027122	ENSMUSG00000019080	Mfsd3	2310010G13Rik	major facilitator superfamily domain containing 3	protein-coding	67.5	102.0	51.0	651.5	205.5	44.5	77.5	66.0
Merged-chr5-101909718-4	chr5	101909640	101909840	+	945.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 27 of 66)	intron (NM_172882, intron 27 of 66)	144610.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	17.5	27.0	24.0	200.0	18.0	7.0	35.5	32.0
Merged-chr3-85542977-2	chr3	85542877	85543077	+	812.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-31152.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	9.0	6.5	5.0	74.0	27.0	1.0	14.5	1.5
Merged-chr4-106387015-3	chr4	106386906	106387106	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183225, intron 32 of 67)	L2a|LINE|L2	70793.0	NM_183225	329908.0	Mm.234544	NM_183225	ENSMUSG00000028514	Usp24	2700066K03Rik|2810030C21Rik|AI414051|B130021E18|C79851	ubiquitin specific peptidase 24	protein-coding	25.0	30.0	27.5	482.0	14.5	4.5	13.0	4.0
Merged-chr6-72544545-6	chr6	72544437	72544637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271415)	promoter-TSS (NM_001271415)	0.0	NM_001271415	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	17.0	29.0	27.0	123.5	21.5	16.5	7.0	20.5
Merged-chr11-117718957-3	chr11	117718852	117719052	+	830.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 4 of 21)	intron (NM_198022, intron 4 of 21)	60696.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	8.5	10.5	16.0	275.5	27.0	4.0	6.5	20.0
Merged-chr7-55870488-4	chr7	55870355	55870555	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	B2_Mm2|SINE|B2	28384.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	8.5	23.5	16.0	153.5	49.5	15.0	21.0	18.0
Merged-chr6-5589834-4	chr6	5589721	5589921	+	943.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93543.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	27.5	20.5	10.0	383.5	59.0	21.0	16.0	26.5
Merged-chr4-115828972-2	chr4	115828888	115829088	+	860.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175308, intron 1 of 3)	intron (NM_175308, intron 1 of 3)	896.0	NM_175308	100465.0	Mm.35571	NM_175308	ENSMUSG00000028709	Mob3c	AW822253|D130076I06Rik|Mobkl2c	MOB kinase activator 3C	protein-coding	5.0	5.0	6.5	64.5	5.0	5.0	1.0	6.5
Merged-chr6-119358304-3	chr6	119358193	119358393	+	999.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355692, intron 6 of 7)	intron (NM_001355692, intron 6 of 7)	-27527.0	NM_172492	211187.0	Mm.121498	NM_172492	ENSMUSG00000055003	Lrtm2	A230084J22|AI841794	leucine-rich repeats and transmembrane domains 2	protein-coding	18.0	10.5	25.0	401.0	14.5	7.0	7.0	8.5
Merged-chr14-31001601-4	chr14	31001484	31001684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026911)	promoter-TSS (NM_026911)	82.0	NM_026911	69019.0	Mm.28852	NM_026911	ENSMUSG00000021917	Spcs1	1810004F21Rik	signal peptidase complex subunit 1 homolog (S. cerevisiae)	protein-coding	51.5	65.0	59.5	420.5	98.5	41.5	39.5	64.5
Merged-chr8-112011378-4	chr8	112011287	112011487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130868)	promoter-TSS (NM_001130868)	28.0	NM_020584	57321.0	Mm.213064	NM_020584	ENSMUSG00000033430	Terf2ip	Rap1	telomeric repeat binding factor 2, interacting protein	protein-coding	60.0	91.0	74.5	1121.0	207.0	61.0	90.0	78.0
Merged-chr18-49643925-4	chr18	49643819	49644019	+	913.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111682.0	NM_001170960	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	14.0	21.0	14.0	365.0	45.5	5.5	19.5	16.0
Merged-chr10-122534804-5	chr10	122534681	122534881	+	935.711121	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35110.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	9.0	14.5	10.0	160.5	21.5	9.0	12.0	16.5
Merged-chr4-141500770-4	chr4	141500665	141500865	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	37832.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	3.0	14.0	2.0	101.0	66.5	22.0	26.5	33.5
Merged-chr6-115675922-4	chr6	115675780	115675980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152134)	promoter-TSS (NR_152134)	8.0	NM_001356334	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	26.0	63.5	36.0	357.5	79.5	17.0	41.0	19.5
Merged-chr2-48689283-4	chr2	48689183	48689383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124826.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	34.5	58.0	32.5	510.5	97.5	22.5	35.0	42.0
Merged-chr9-62913697-7	chr9	62913612	62913812	+	976.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 6 of 13)	MIRc|SINE|MIR	-51688.0	NR_003965	677044.0	Mm.422004	NR_003965	ENSMUSG00000074250	Gm10653	-	ribsomal protein S2 pseudogene	pseudo	21.5	20.5	17.5	286.0	29.0	9.0	15.5	16.5
Merged-chr11-116534440-4	chr11	116534355	116534555	+	873.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011451)	promoter-TSS (NM_011451)	-285.0	NM_011451	20698.0	Mm.20944	NM_011451	ENSMUSG00000061878	Sphk1	1110006G24Rik|Sk1|Spk1	sphingosine kinase 1	protein-coding	16.5	29.5	4.0	72.5	43.5	12.0	11.5	11.0
Merged-chr8-13595003-4	chr8	13594913	13595113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 7 of 23)	intron (NM_009025, intron 7 of 23)	-32552.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	134.5	168.0	199.5	2706.0	350.5	113.5	161.5	177.5
Merged-chr15-50697919-4	chr15	50697808	50698008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	191141.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	103.0	167.5	81.5	1374.5	250.0	99.5	78.5	81.5
Merged-chr14-33185541-4	chr14	33185426	33185626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146022)	promoter-TSS (NM_001146022)	-460.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	146.5	205.0	124.5	2101.5	365.5	153.5	147.0	168.5
Merged-chr10-59236127-4	chr10	59236023	59236223	+	982.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14201.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	26.0	68.5	30.5	328.0	102.0	40.0	32.0	16.0
Merged-chr19-38020377-4	chr19	38020285	38020485	+	909.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 3 of 53)	intron (NM_001302140, intron 3 of 53)	23192.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	28.5	27.5	7.5	284.5	33.0	6.0	9.5	18.5
Merged-chr4-148662278-3	chr4	148662082	148662282	+	701.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085505, intron 5 of 10)	intron (NM_001085505, intron 5 of 10)	18865.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	1.5	5.0	4.5	58.0	29.5	5.0	6.5	7.0
Merged-chr10-60933042-4	chr10	60932939	60933139	+	938.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033616, intron 1 of 2)	intron (NR_033616, intron 1 of 2)	5093.0	NR_033616	73616.0	Mm.159038	NR_033616	ENSMUSG00000037247	Pldi	1700125F08Rik|Poldi	polymorphic derived intron containing	ncRNA	10.0	20.0	7.5	136.5	54.0	23.5	24.5	20.5
Merged-chr17-27970420-3	chr17	27970323	27970523	+	689.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	61117.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	8.0	20.0	13.5	190.0	6.5	0.5	1.0	4.5
Merged-chr4-63668493-3	chr4	63668402	63668602	+	946.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34081.0	NR_151544	102632940.0	Mm.399154	NR_151544	ENSMUSG00000086817	Gm11482	-	predicted gene 11482	ncRNA	12.5	11.0	20.0	191.5	16.5	13.0	8.0	7.0
Merged-chr14-20067509-4	chr14	20067421	20067621	+	900.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15651.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	11.5	8.0	10.0	224.0	29.5	17.5	16.0	14.0
Merged-chr12-28638944-3	chr12	28638835	28639035	+	862.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-2982.0	NM_011300	20115.0	Mm.279839	NM_011300	ENSMUSG00000061477	Rps7	Mtu|Rps7A|S7	ribosomal protein S7	protein-coding	0.0	0.0	0.0	0.0	23.0	8.0	10.5	13.5
Merged-chr8-35645582-4	chr8	35645482	35645682	+	995.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-56562.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	21.5	19.0	33.0	675.5	34.5	16.0	24.0	18.5
Merged-chr10-51452324-2	chr10	51452220	51452420	+	977.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1VL1|LINE|L1	-28292.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	9.0	6.5	6.0	48.0	18.5	4.5	4.0	8.0
Merged-chr2-34610591-4	chr2	34610365	34610565	+	917.880981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290625, intron 10 of 11)	B4A|SINE|B4	144767.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	6.0	7.0	4.5	66.5	18.5	7.0	3.0	4.0
Merged-chr19-32179703-4	chr19	32179586	32179786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	31327.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	105.0	197.5	81.5	826.0	152.0	65.0	49.0	34.0
Merged-chr7-113308903-3	chr7	113308794	113308994	+	903.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357070, intron 18 of 19)	(TG)n|Simple_repeat|Simple_repeat	60445.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	10.5	11.0	12.5	100.5	24.5	5.0	8.0	6.0
Merged-chr3-95676589-1	chr3	95676489	95676689	+	854.0	f0_balb.idr	3' UTR (NM_144899, exon 18 of 18)	3' UTR (NM_144899, exon 18 of 18)	11328.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	9.0	17.0	4.5	114.0	12.0	6.5	0.0	17.5
Merged-chr3-108840650-4	chr3	108840582	108840782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011504)	promoter-TSS (NM_011504)	-180.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	80.5	152.0	60.5	915.5	219.5	93.0	87.0	92.0
Merged-chr4-132809872-4	chr4	132809725	132809925	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13461.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	13.5	24.5	18.0	281.5	28.0	6.0	28.5	26.5
Merged-chr17-34586966-2	chr17	34586866	34587066	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010929, intron 28 of 29)	CpG	-2840.0	NM_134116	106512.0	Mm.26584	NM_134116	ENSMUSG00000034786	Gpsm3	AA960287|AGS4	G-protein signalling modulator 3 (AGS3-like, C. elegans)	protein-coding	15.0	13.0	6.5	147.5	45.5	17.5	17.5	12.5
Merged-chr12-54835196-4	chr12	54835083	54835283	+	902.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27694.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	18.0	7.5	13.0	224.0	36.0	14.0	14.5	9.0
Merged-chr17-6960917-4	chr17	6960817	6961017	+	943.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147155, intron 1 of 3)	CpG	239.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	11.5	17.5	10.5	142.5	41.0	16.0	10.5	21.0
Merged-chr11-43569436-3	chr11	43569339	43569539	+	617.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045530, intron 3 of 5)	intron (NM_001045530, intron 3 of 5)	32123.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	7.5	10.5	5.0	73.0	13.5	6.0	7.0	5.5
Merged-chr16-33418076-3	chr16	33417969	33418169	+	971.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358569, intron 1 of 8)	MTE2b|LTR|ERVL-MaLR	17624.0	NM_001358569	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	7.0	11.0	22.0	213.5	14.0	1.0	6.5	8.0
Merged-chr11-78267991-4	chr11	78267876	78268076	+	886.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002004, intron 11 of 38)	intron (NM_001002004, intron 11 of 38)	6222.0	NM_001002004	72503.0	Mm.237103	NM_001002004	ENSMUSG00000010277	2610507B11Rik	AU022687|D11Bhm178e|D11Bhm179e|E1|Kiaa0100|mKIAA0100	RIKEN cDNA 2610507B11 gene	protein-coding	13.0	13.5	14.0	172.0	33.0	6.0	10.0	14.5
Merged-chr7-74555628-3	chr7	74555553	74555753	+	907.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023908)	promoter-TSS (NM_023908)	-873.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	2.0	2.5	2.0	41.0	28.0	6.0	13.5	12.0
Merged-chr1-106351173-3	chr1	106351064	106351264	+	776.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 10 of 16)	MTE2a|LTR|ERVL-MaLR	179295.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	4.0	15.5	8.5	56.0	19.5	12.0	12.0	5.5
Merged-chr13-19952448-3	chr13	19952359	19952559	+	629.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-128202.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	5.0	6.5	6.5	78.5	2.0	0.0	4.0	2.5
Merged-chr4-117189497-4	chr4	117189350	117189550	+	812.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-6826.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	6.5	5.0	5.5	55.5	22.0	8.5	3.5	22.0
Merged-chr2-180126344-3	chr2	180126238	180126438	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144500, intron 1 of 13)	intron (NM_144500, intron 1 of 13)	6972.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	42.5	42.5	73.5	1244.5	9.0	1.5	5.5	8.5
Merged-chr16-90279234-4	chr16	90279129	90279329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 1 of 19)	intron (NM_001346799, intron 1 of 19)	5257.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	39.5	66.0	34.5	734.0	62.0	23.0	47.0	42.5
Merged-chr11-22759899-4	chr11	22759793	22759993	+	902.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99842.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	15.5	27.5	13.5	158.5	27.5	8.0	11.0	4.0
Merged-chr1-157549880-4	chr1	157549770	157549970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159986, intron 12 of 25)	intron (NM_001159986, intron 12 of 25)	23700.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	40.5	50.0	30.5	1171.0	105.0	29.5	57.5	44.5
Merged-chr14-66186751-4	chr14	66186647	66186847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 5 of 30)	intron (NM_001162366, intron 5 of 30)	27077.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	63.5	77.0	29.5	523.0	133.5	64.0	58.0	57.0
Merged-chr5-122547534-4	chr5	122547400	122547600	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45275.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	23.5	21.5	25.5	287.0	22.5	12.0	4.5	24.5
Merged-chr2-181187239-4	chr2	181187129	181187329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356427)	promoter-TSS (NM_001356427)	-18.0	NM_025598	66496.0	Mm.213943	NM_025598	ENSMUSG00000016344	Ppdpf	0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik	pancreatic progenitor cell differentiation and proliferation factor	protein-coding	143.5	236.5	183.0	2513.0	475.0	171.0	225.0	169.0
Merged-chr12-84275496-4	chr12	84275394	84275594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-9802.0	NM_029880	77219.0	Mm.246127	NM_029880	ENSMUSG00000072946	Ptgr2	1810016I24Rik|9130222H03Rik|9630002F03Rik|AI838763|B830026H24Rik|PGR-2|PRG-2|Zadh1	prostaglandin reductase 2	protein-coding	120.5	149.5	82.0	1473.0	236.0	59.5	99.0	106.0
Merged-chr4-136034679-2	chr4	136034564	136034764	+	603.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13015.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	5.5	6.5	7.0	67.5	7.0	4.5	0.5	4.0
Merged-chr5-54211950-4	chr5	54211843	54212043	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138049.0	NR_038045	330086.0	Mm.254449	NM_177871	ENSMUSG00000105912	Gm10440	D130065D13	predicted gene 10440	ncRNA	20.5	30.5	13.0	335.5	52.0	23.5	27.5	14.5
Merged-chr1-106101257-3	chr1	106101145	106101345	+	762.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70279.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	7.0	8.5	6.0	79.5	17.0	3.5	10.5	9.5
Merged-chr14-106439488-1	chr14	106439388	106439588	+	662.0	f0_balb.idr	intron (NR_045938, intron 2 of 3)	intron (NR_045938, intron 2 of 3)	47032.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	4.5	9.5	9.0	99.0	12.5	6.5	6.0	4.0
Merged-chr14-25484252-4	chr14	25484148	25484348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	25063.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	154.0	220.0	117.0	2224.0	276.5	107.5	144.0	115.5
Merged-chr6-71633000-4	chr6	71632871	71633071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173001)	promoter-TSS (NM_173001)	-54.0	NM_001362200	104263.0	Mm.260479	NM_173001	ENSMUSG00000053470	Kdm3a	1700105C21Rik|C230043E16Rik|JHDM2a|Jmjd1|Jmjd1a|KDM2A|TGSA|Tsga	lysine (K)-specific demethylase 3A	protein-coding	197.5	263.0	199.5	2838.0	485.0	198.0	223.5	200.0
Merged-chr4-132260573-4	chr4	132260496	132260696	+	828.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122992, intron 1 of 10)	intron (NM_001122992, intron 1 of 10)	953.0	NM_020273	56809.0	Mm.103489	NM_020273	ENSMUSG00000028901	Gmeb1	1110050A04Rik|AI256615|AI481278	glucocorticoid modulatory element binding protein 1	protein-coding	10.0	11.0	14.0	84.5	27.5	9.0	5.0	13.0
Merged-chr3-84155803-4	chr3	84155701	84155901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029797)	promoter-TSS (NM_029797)	-15.0	NM_029797	76915.0	Mm.274829	NM_029797	ENSMUSG00000033752	Mnd1	2610034E18Rik|AI591601|Gaj	meiotic nuclear divisions 1	protein-coding	195.0	364.0	213.5	3650.5	378.0	126.0	229.0	153.0
Merged-chr7-5099960-3	chr7	5099875	5100075	+	823.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16936.0	NM_001145013	192658.0	Mm.28764	NM_138954	ENSMUSG00000035191	Rfpl4	D7Ertd486e|Rfpl4a	ret finger protein-like 4	protein-coding	15.0	25.5	14.5	301.0	15.5	11.5	4.5	11.0
Merged-chr17-64945841-4	chr17	64945726	64945926	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109755.0	NM_030031	78057.0	Mm.109380	NM_030031	ENSMUSG00000024088	4930583I09Rik	-	RIKEN cDNA 4930583I09 gene	protein-coding	19.5	20.5	29.5	480.0	16.5	4.5	11.0	6.0
Merged-chr3-147071158-4	chr3	147071054	147071254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	218787.0	NM_001302957	70892.0	Mm.187793	NM_027594	ENSMUSG00000036745	Ttll7	1110049N09Rik|4921517B04Rik|C630030B20|mTTLL7	tubulin tyrosine ligase-like family, member 7	protein-coding	61.0	93.0	45.0	704.0	132.5	48.5	50.5	41.0
Merged-chr10-17796258-4	chr10	17796154	17796354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138628)	promoter-TSS (NM_138628)	35.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	43.0	51.5	36.0	503.0	101.5	61.0	40.0	40.0
Merged-chr9-63031577-4	chr9	63031478	63031678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50699.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	49.0	69.0	34.0	829.0	108.0	33.0	47.0	56.0
Merged-chr13-5779593-4	chr13	5779483	5779683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78509.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	86.0	118.5	43.0	1087.0	177.5	75.0	83.5	62.5
Merged-chr2-51089067-4	chr2	51088974	51089174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60037.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	35.5	49.0	34.5	616.5	96.5	28.0	57.0	33.5
Merged-chr3-121307750-4	chr3	121307624	121307824	+	924.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024178, intron 2 of 3)	intron (NM_024178, intron 2 of 3)	15984.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	15.0	20.0	12.5	259.5	33.5	3.0	14.5	15.5
Merged-chr13-101736218-4	chr13	101736128	101736328	+	779.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	31989.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	8.5	3.5	11.0	45.5	27.0	11.5	7.5	5.0
Merged-chr3-84228717-4	chr3	84228619	84228819	+	969.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271726, intron 1 of 11)	intron (NM_001271726, intron 1 of 11)	-7842.0	NM_030706	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	19.0	21.5	13.5	435.5	50.0	22.5	23.5	15.5
Merged-chr13-78201715-3	chr13	78201604	78201804	+	778.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045195, intron 1 of 2)	intron (NR_045195, intron 1 of 2)	-2831.0	NM_010151	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	5.5	5.0	10.0	143.5	12.0	7.0	12.5	10.0
Merged-chr13-37331183-4	chr13	37331098	37331298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14147.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	29.5	28.5	58.0	701.0	88.0	21.0	46.0	41.0
Merged-chr3-126673257-3	chr3	126673159	126673359	+	740.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	MTA_Mm|LTR|ERVL-MaLR	76308.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	3.0	8.0	14.0	84.5	23.5	4.5	13.0	19.5
Merged-chr18-15201716-4	chr18	15201630	15201830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50284.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	50.0	41.0	60.0	1048.5	113.0	33.5	91.0	61.5
Merged-chr19-46321890-1	chr19	46321790	46321990	+	560.0	f0_c57.idr	intron (NM_001347454, intron 6 of 17)	intron (NM_001347454, intron 6 of 17)	4976.0	NM_001347454	73728.0	Mm.268532	NM_028627	ENSMUSG00000037126	Psd	1110007H17Rik|A930015K15|Efa6|Efa6a|Psdl|mKIAA2011	pleckstrin and Sec7 domain containing	protein-coding	2.0	3.0	1.5	61.5	19.5	5.5	9.5	6.5
Merged-chr14-66223824-4	chr14	66223725	66223925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-10001.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	145.0	244.5	170.0	2215.0	335.0	125.0	148.5	148.5
Merged-chr13-51845685-4	chr13	51845578	51845778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011817)	promoter-TSS (NM_011817)	-997.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	34.0	47.0	26.0	503.0	128.5	29.5	47.0	54.0
Merged-chr7-45333667-4	chr7	45333582	45333782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175130)	promoter-TSS (NM_175130)	98.0	NM_175130	68667.0	Mm.439890	NM_175130	ENSMUSG00000038260	Trpm4	1110030C19Rik|AW047689|LTRPC4|LTrpC-4|TRPM4B	transient receptor potential cation channel, subfamily M, member 4	protein-coding	40.5	97.0	56.5	656.5	91.5	51.5	29.5	43.5
Merged-chr11-23498073-4	chr11	23497962	23498162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290655)	promoter-TSS (NM_001290655)	-23.0	NM_172391	268390.0	Mm.13148	NM_172391	ENSMUSG00000020288	Ahsa2	-	AHA1, activator of heat shock protein ATPase 2	protein-coding	253.0	484.0	298.0	3661.0	682.0	274.0	311.5	249.5
Merged-chr10-117072531-4	chr10	117072412	117072612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177798, exon 10 of 10)	3' UTR (NM_177798, exon 10 of 10)	-8660.0	NM_007636	12461.0	Mm.247788	NM_007636	ENSMUSG00000034024	Cct2	Cctb	chaperonin containing Tcp1, subunit 2 (beta)	protein-coding	19.5	22.5	41.0	445.0	57.0	16.0	39.0	35.5
Merged-chr19-46864276-4	chr19	46864174	46864374	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102471, intron 4 of 6)	intron (NM_001102471, intron 4 of 6)	98077.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	38.0	54.0	32.0	480.0	67.0	19.0	44.5	33.5
Merged-chr17-73971538-4	chr17	73971451	73971651	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21355.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	13.0	38.0	33.5	712.5	80.0	43.5	34.0	56.0
Merged-chr19-12475566-4	chr19	12475462	12475662	+	988.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172442, intron 7 of 8)	intron (NM_172442, intron 7 of 8)	14783.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	24.5	12.5	14.5	292.5	78.0	29.5	41.5	47.0
Merged-chr7-67444817-6	chr7	67444631	67444831	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71873.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	9.5	15.0	13.5	117.0	27.5	11.0	10.5	7.5
Merged-chr2-6569276-2	chr2	6569176	6569376	+	556.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 11 of 15)	intron (NM_001110232, intron 11 of 15)	152386.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	6.0	12.5	8.0	37.5	5.0	3.0	4.0	8.5
Merged-chr9-118041781-4	chr9	118041669	118041869	+	771.1750490000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286507, intron 1 of 6)	intron (NM_001286507, intron 1 of 6)	1247.0	NM_013727	27215.0	Mm.92705	NM_013727	ENSMUSG00000039285	Azi2	AA410145|AZ2	5-azacytidine induced gene 2	protein-coding	8.5	11.5	8.0	145.0	17.0	3.0	12.0	10.5
Merged-chr7-101907129-4	chr7	101907046	101907246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081679)	promoter-TSS (NM_001081679)	-787.0	NM_001081679	791260.0	Mm.475469	NM_001081679	ENSMUSG00000078630	Tomt	Comt2|F930017I19Rik	transmembrane O-methyltransferase	protein-coding	63.5	71.0	54.0	949.0	118.5	20.0	49.5	73.0
Merged-chr5-129887420-4	chr5	129887313	129887513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024166)	promoter-TSS (NM_024166)	57.0	NM_024166	14004.0	Mm.30133	NM_024166	ENSMUSG00000070493	Chchd2	AL033347|Etohi6	coiled-coil-helix-coiled-coil-helix domain containing 2	protein-coding	153.0	246.5	184.0	2346.0	528.5	211.0	225.0	182.5
Merged-chr3-51378258-2	chr3	51378158	51378358	+	691.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	18289.0	NR_028121	67749.0	Mm.273339	NM_026358	ENSMUSG00000037161	Mgarp	4930583H14Rik|AI195347|CESP-1|HUMMR|Osap|Qsap	mitochondria localized glutamic acid rich protein	protein-coding	4.0	6.0	2.5	35.0	9.0	6.5	8.0	8.0
Merged-chr6-86365572-4	chr6	86365474	86365674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025591)	promoter-TSS (NM_025591)	-109.0	NM_025591	66488.0	Mm.422972	NM_025591	ENSMUSG00000057497	Fam136a	2010309E21Rik|AW124904|Hyccin	family with sequence similarity 136, member A	protein-coding	199.5	322.5	182.5	2652.5	506.5	217.5	242.0	224.5
Merged-chr16-84835373-4	chr16	84835282	84835482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302216)	promoter-TSS (NM_001302216)	243.0	NM_016755	11957.0	Mm.353	NM_016755	ENSMUSG00000022890	Atp5j	CF6	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F	protein-coding	53.0	80.5	82.0	701.0	176.5	69.0	96.5	97.0
Merged-chr2-121885668-4	chr2	121885559	121885759	+	916.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205371, intron 1 of 9)	(A)n|Simple_repeat|Simple_repeat	17954.0	NM_001205371	319996.0	Mm.292109	NM_177054	ENSMUSG00000060227	Casc4	D130060C09Rik|VGFG2573	cancer susceptibility candidate 4	protein-coding	16.0	31.0	26.5	321.0	22.5	9.0	11.5	22.0
Merged-chr12-86803888-4	chr12	86803771	86803971	+	916.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	69502.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	20.0	14.5	33.5	268.0	34.5	14.5	21.5	16.5
Merged-chr17-62558389-4	chr17	62558297	62558497	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	322920.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	20.5	17.5	23.0	549.5	59.0	12.0	37.5	22.5
Merged-chr6-50685229-4	chr6	50685157	50685357	+	810.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30864.0	NM_021892	60531.0	Mm.157158	NM_021892	ENSMUSG00000029831	Npvf	Rfrp	neuropeptide VF precursor	protein-coding	12.5	9.0	6.5	111.5	31.0	14.5	9.0	7.0
Merged-chr11-85713686-4	chr11	85713599	85713799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045875, intron 1 of 5)	intron (NR_045875, intron 1 of 5)	6045.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	130.0	135.0	149.0	2371.5	259.0	113.0	144.0	118.0
Merged-chr8-13965107-3	chr8	13964988	13965188	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361630, intron 2 of 3)	intron (NM_001361630, intron 2 of 3)	9689.0	NM_173744	72148.0	Mm.5727	NM_173744	ENSMUSG00000050052	Tdrp	2610019F03Rik	testis development related protein	protein-coding	10.5	3.5	24.5	90.5	18.5	6.5	7.5	10.0
Merged-chr10-58408189-4	chr10	58408097	58408297	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359116, intron 3 of 9)	MTD|LTR|ERVL-MaLR	13824.0	NM_001346676	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	4.5	25.5	24.5	281.0	35.0	16.5	13.5	11.0
Merged-chr19-46522073-4	chr19	46521971	46522171	+	949.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	20423.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	20.5	10.0	13.0	192.5	43.5	13.0	20.0	25.5
Merged-chr11-43412948-4	chr11	43412854	43413054	+	929.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13027.0	NM_013917	30939.0	Mm.6856	NM_013917	ENSMUSG00000020415	Pttg1	AW555095|C87862|Pttg|Pttg3	pituitary tumor-transforming gene 1	protein-coding	9.5	20.5	8.0	217.5	42.0	15.5	22.0	13.0
Merged-chr6-72881824-1	chr6	72881724	72881924	+	630.0	f0_balb.idr	intron (NM_019715, intron 1 of 6)	MTD|LTR|ERVL-MaLR	17468.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	11.0	7.0	3.5	75.0	12.0	9.5	5.5	6.0
Merged-chr9-123840492-4	chr9	123840388	123840588	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110253, intron 3 of 17)	intron (NM_001110253, intron 3 of 17)	11173.0	NM_148925	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	23.0	135.5	42.0	480.0	61.5	29.5	23.5	18.0
Merged-chr9-77911676-4	chr9	77911571	77911771	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5694.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	48.0	49.5	19.5	254.0	103.5	48.5	46.0	43.0
Merged-chr11-19920475-4	chr11	19920349	19920549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3993.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	70.5	168.0	105.5	1450.5	254.5	92.0	131.5	93.5
Merged-chr9-65565048-4	chr9	65564916	65565116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 2 of 5)	RMER15|LTR|ERVL	15071.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	96.5	100.0	93.5	1335.5	115.5	53.0	59.0	79.5
Merged-chr18-62224903-4	chr18	62224802	62225002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44802.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	26.0	56.5	18.5	428.0	71.0	21.5	60.5	38.0
Merged-chr2-24104076-4	chr2	24103981	24104181	+	905.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-7486.0	NR_110359	227606.0	Mm.301625	NM_199059	ENSMUSG00000061809	Tbpl2	Gm348|Trf3	TATA box binding protein like 2	protein-coding	19.0	13.5	15.5	332.5	22.0	17.5	17.5	16.5
Merged-chr4-142166129-4	chr4	142166083	142166283	+	864.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109684, intron 1 of 6)	intron (NM_001109684, intron 1 of 6)	44025.0	NM_144531	71529.0	Mm.255986	NM_144531	ENSMUSG00000040606	Kazn	2310007B04Rik|9030409G11Rik|AI256607|AI666764|AW061099|Kaz|Kazrin	kazrin, periplakin interacting protein	protein-coding	7.0	10.0	10.5	39.5	19.5	9.5	8.0	12.5
Merged-chr19-3688683-4	chr19	3688585	3688785	+	709.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2121.0	NM_008513	16973.0	Mm.274581	NM_008513	ENSMUSG00000024913	Lrp5	BMND1|HBM|LR3|LRP7|OPPG|mKIAA4142	low density lipoprotein receptor-related protein 5	protein-coding	8.0	7.0	5.5	111.5	21.0	5.0	10.0	14.0
Merged-chr1-82924801-4	chr1	82924693	82924893	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85333.0	NM_001347077	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	29.0	23.5	32.0	498.5	48.5	16.5	21.0	11.0
Merged-chr6-142757704-4	chr6	142757609	142757809	+	880.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009908, intron 1 of 7)	intron (NM_009908, intron 1 of 7)	1023.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	7.0	13.5	10.0	245.0	32.0	5.0	15.5	20.0
Merged-chr11-8660987-4	chr11	8660875	8661075	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	B1F|SINE|Alu	3560.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	26.5	27.0	21.0	471.5	31.0	10.5	18.0	15.0
Merged-chr4-88872833-2	chr4	88872733	88872933	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7368.0	NM_177348	230405.0	Mm.246593	NM_177348	ENSMUSG00000045364	Ifne	Ifn-tau-1|Ifne1|Ifnt1|Infe1	interferon epsilon	protein-coding	7.0	8.5	10.5	60.0	4.0	1.5	4.0	3.5
Merged-chr7-113193228-4	chr7	113193112	113193312	+	910.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14253.0	NM_001243048	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	14.5	27.5	37.0	500.0	28.0	14.0	25.5	16.0
Merged-chr16-77014911-3	chr16	77014822	77015022	+	907.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 1 of 23)	intron (NM_013918, intron 1 of 23)	853.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	8.0	4.0	9.0	79.0	15.0	7.5	6.0	9.5
Merged-chr10-20948446-2	chr10	20948346	20948546	+	972.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-4101.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	6.0	7.0	5.0	37.0	8.0	2.0	11.0	6.5
Merged-chr2-5691982-4	chr2	5691908	5692108	+	938.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	-15962.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	28.0	40.0	42.0	606.5	24.0	15.0	28.0	27.5
Merged-chr1-151997784-4	chr1	151997677	151997877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 2 of 5)	intron (NM_197990, intron 2 of 5)	92543.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	56.0	59.0	44.0	790.0	140.5	25.0	44.5	37.5
Merged-chr5-76954695-3	chr5	76954594	76954794	+	685.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356974, intron 1 of 8)	RMER6A|LTR|ERVK	-3116.0	NM_172146	231327.0	Mm.202337	NM_172146	ENSMUSG00000029246	Ppat	5730454C12Rik|AA408689|AA675351|AI507113|C79945	phosphoribosyl pyrophosphate amidotransferase	protein-coding	7.0	6.0	1.0	98.5	9.0	4.5	7.0	7.5
Merged-chr11-11686211-4	chr11	11686107	11686307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001301868, exon 1 of 8)	5' UTR (NM_001301868, exon 1 of 8)	282.0	NM_001025597	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	101.0	157.0	116.5	2050.5	314.0	143.5	150.5	137.0
Merged-chr7-105691061-4	chr7	105690955	105691155	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	45529.0	NM_025897	101867.0	Mm.231400	NM_025897	ENSMUSG00000030888	Rrp8	1500003O22Rik|2900001K19Rik|AW538116	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	protein-coding	19.5	36.5	26.0	496.5	49.0	12.0	23.5	31.0
Merged-chr16-76410498-4	chr16	76410419	76410619	+	903.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36692.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	8.0	16.5	24.0	343.0	28.0	4.5	9.5	11.0
Merged-chr15-79441824-11	chr15	79441675	79441875	+	901.0985109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289899)	promoter-TSS (NM_001289899)	43.0	NM_001289899	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	11.0	6.5	13.0	71.5	34.0	11.0	12.5	22.0
Merged-chr6-124297505-4	chr6	124297390	124297590	+	897.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_A|LTR|ERVK	-7161.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	5.0	26.5	28.0	51.0	16.0	13.0	11.0	11.5
Merged-chr18-38247416-3	chr18	38247339	38247539	+	984.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015475, intron 1 of 3)	Lx8|LINE|L1	2759.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	2.5	7.0	7.0	130.0	6.5	4.5	8.0	9.0
Merged-chr1-119504328-4	chr1	119504235	119504435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022327, intron 1 of 4)	intron (NM_022327, intron 1 of 4)	447.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	65.5	64.0	61.0	1015.5	158.0	44.0	75.0	69.0
Merged-chr3-27194519-2	chr3	27194419	27194619	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	PB1D10|SINE|Alu	11515.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	5.5	7.0	11.0	73.5	8.5	7.0	3.5	7.5
Merged-chr17-78418142-4	chr17	78418046	78418246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285946)	promoter-TSS (NM_001285946)	6.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	72.5	112.5	89.5	1262.5	249.0	101.5	115.5	99.5
Merged-chr12-24651868-4	chr12	24651756	24651956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178357, intron 1 of 3)	CpG	485.0	NM_178357	194655.0	Mm.9616	NM_178357	ENSMUSG00000020653	Klf11	9830142A17|D12Ertd427e|Tieg2|Tieg2b|Tieg3	Kruppel-like factor 11	protein-coding	217.5	347.0	213.0	3079.0	397.5	151.5	194.0	149.5
Merged-chr19-55643620-4	chr19	55643500	55643700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045318, exon 3 of 4)	non-coding (NR_045318, exon 3 of 4)	58604.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	242.5	298.0	234.0	2849.0	548.5	228.0	229.0	224.5
Merged-chr15-78119910-4	chr15	78119799	78119999	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007583)	promoter-TSS (NM_007583)	-619.0	NM_007583	12300.0	Mm.277338	NM_007583	ENSMUSG00000019146	Cacng2	AW060990|B230105C07Rik|B930041E13Rik|stargazer|stargazin|stg|wag|waggler	calcium channel, voltage-dependent, gamma subunit 2	protein-coding	9.0	11.0	13.0	125.0	44.0	8.0	16.0	16.0
Merged-chr2-130129870-3	chr2	130129756	130129956	+	999.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289747, intron 2 of 13)	ORR1D2|LTR|ERVL-MaLR	6581.0	NM_177726	241636.0	Mm.83437	NM_177726	ENSMUSG00000027403	Tgm6	TGM3L|TGY	transglutaminase 6	protein-coding	3.0	5.0	1.0	64.0	45.0	14.0	34.5	33.0
Merged-chr10-80320572-4	chr10	80320486	80320686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025521)	promoter-TSS (NM_025521)	-38.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	44.0	51.5	37.5	555.0	122.5	41.5	56.0	44.5
Merged-chr4-116827986-4	chr4	116827879	116828079	+	950.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6471.0	NM_146256	242642.0	Mm.279897	NM_146256	ENSMUSG00000043155	Hpdl	A830048M07Rik|BC034099|Gloxd1	4-hydroxyphenylpyruvate dioxygenase-like	protein-coding	11.5	20.5	6.5	163.0	46.0	4.0	17.5	16.0
Merged-chr11-69097627-4	chr11	69097525	69097725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1324.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	55.0	105.0	49.5	707.0	113.0	42.0	40.5	51.0
Merged-chr5-86190931-4	chr5	86190823	86191023	+	781.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310653, intron 1 of 1)	intron (NM_001310653, intron 1 of 1)	6978.0	NM_001310653	14715.0	Mm.26791	NM_010323	ENSMUSG00000029255	Gnrhr	-	gonadotropin releasing hormone receptor	protein-coding	7.0	10.0	10.0	91.5	50.5	17.5	24.5	13.5
Merged-chr4-11076200-4	chr4	11076097	11076297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085493)	promoter-TSS (NM_001085493)	8.0	NM_001085493	76947.0	Mm.275265	NM_001085493	ENSMUSG00000050323	Ndufaf6	2310030N02Rik	NADH dehydrogenase (ubiquinone) complex I, assembly factor 6	protein-coding	93.5	104.0	55.0	1038.0	177.5	68.5	75.5	63.5
Merged-chr12-38780287-4	chr12	38780180	38780380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007960, exon 1 of 13)	5' UTR (NM_007960, exon 1 of 13)	198.0	NM_007960	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	72.0	125.5	67.0	1165.5	254.0	96.5	82.5	69.0
Merged-chr14-31641108-4	chr14	31641023	31641223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025295)	promoter-TSS (NM_025295)	66.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	96.5	121.5	119.5	1081.0	130.5	59.0	76.0	98.0
Merged-chr18-12972214-4	chr18	12972098	12972298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008378, exon 1 of 11)	5' UTR (NM_008378, exon 1 of 11)	275.0	NM_008378	16210.0	Mm.8154	NM_008378	ENSMUSG00000024423	Impact	E430016J11Rik	impact, RWD domain protein	protein-coding	74.0	149.0	67.0	915.5	206.0	79.0	71.0	87.0
Merged-chr8-117303778-4	chr8	117303683	117303883	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-45387.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	20.0	30.5	10.0	327.5	43.0	16.0	29.0	26.5
Merged-chr13-108316864-3	chr13	108316781	108316981	+	704.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178683, intron 1 of 10)	intron (NM_178683, intron 1 of 10)	544.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	6.0	7.5	8.5	152.0	14.5	6.0	9.5	9.5
Merged-chr2-128241094-1	chr2	128240994	128241194	+	643.0	f0_balb.idr	Intergenic	Intergenic	113519.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	13.0	28.0	14.0	63.0	7.5	8.5	4.5	5.0
Merged-chr4-117544805-3	chr4	117544713	117544913	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5511.0	NM_001356404	140546.0	Mm.235891	NM_080469	ENSMUSG00000033423	Eri3	PINT1|Prnpip1	exoribonuclease 3	protein-coding	8.0	4.0	4.0	106.0	16.5	8.5	11.5	12.5
Merged-chr4-141978709-3	chr4	141978607	141978807	+	858.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 5 of 31)	intron (NM_177868, intron 5 of 31)	-4285.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	6.0	12.5	1.0	55.0	20.5	11.0	8.5	11.0
Merged-chr3-105932713-4	chr3	105932623	105932823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033780)	promoter-TSS (NM_001033780)	-59.0	NM_001033780	433638.0	Mm.239081	NM_001033780	ENSMUSG00000074342	I830077J02Rik	-	RIKEN cDNA I830077J02 gene	protein-coding	33.0	49.5	23.0	565.0	62.5	33.5	28.0	41.5
Merged-chr12-32767052-4	chr12	32766950	32767150	+	920.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53285.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	17.5	11.5	13.0	251.0	43.5	10.5	14.5	22.0
Merged-chr2-57175457-2	chr2	57175357	57175557	+	799.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_040356, intron 1 of 2)	intron (NR_040356, intron 1 of 2)	6297.0	NR_040356	767815.0	Mm.188065	NR_040356	ENSMUSG00000084938	BB557941	-	expressed sequence BB557941	ncRNA	9.0	9.0	7.5	189.0	14.5	4.5	6.0	12.5
Merged-chr11-88864657-4	chr11	88864577	88864777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042541)	promoter-TSS (NM_001042541)	-91.0	NM_001042541	11640.0	Mm.2969	NM_009648	ENSMUSG00000018428	Akap1	AKAP121|AKAP84|Akap|C76494|C81186|DAKAP1|S-AKAP84	A kinase (PRKA) anchor protein 1	protein-coding	84.5	112.5	95.5	1083.5	150.0	55.5	72.0	66.5
Merged-chr4-136149743-8	chr4	136149633	136149833	+	889.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	5911.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	5.5	11.5	4.0	1.0	20.5	6.0	5.0	10.0
Merged-chr10-117435126-4	chr10	117435035	117435235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12300.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	24.0	27.0	18.0	476.0	32.0	22.0	19.0	21.5
Merged-chr4-149841112-4	chr4	149841013	149841213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66846.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	27.5	48.0	30.0	280.0	90.5	25.5	31.0	29.5
Merged-chr3-138493914-4	chr3	138493821	138494021	+	947.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4539.0	NM_175224	75624.0	Mm.26833	NM_175224	ENSMUSG00000005813	Metap1	1700029C17Rik|AW047992|mKIAA0094	methionyl aminopeptidase 1	protein-coding	49.5	43.5	47.0	729.5	33.5	19.5	21.0	3.0
Merged-chr10-105957631-4	chr10	105957546	105957746	+	859.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116167.0	NM_025602	52713.0	Mm.339224	NM_025602	ENSMUSG00000019897	Ccdc59	2300004H16Rik|D10Ertd718e	coiled-coil domain containing 59	protein-coding	21.5	17.5	23.5	411.0	23.5	6.0	8.5	6.0
Merged-chr1-107228030-3	chr1	107227940	107228140	+	718.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1VL4|LINE|L1	50331.0	NM_201363	381286.0	Mm.337362	NM_201363	ENSMUSG00000073601	Serpinb3c	1110001H02Rik|1110013A16Rik|Scca2|Serpinb4	serine (or cysteine) peptidase inhibitor, clade B, member 3C	protein-coding	5.5	6.0	8.0	123.5	3.0	5.0	2.0	4.0
Merged-chr8-66440161-4	chr8	66440051	66440251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 6 of 7)	intron (NM_175188, intron 6 of 7)	46379.0	NM_025465	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	32.0	69.5	43.5	554.5	80.5	27.0	34.0	28.5
Merged-chr10-37236139-4	chr10	37236045	37236245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97219.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	68.0	88.0	85.5	990.0	152.0	50.5	45.5	34.0
Merged-chr19-4439453-3	chr19	4439321	4439521	+	728.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045990)	promoter-TSS (NR_045990)	22.0	NM_007485	11854.0	Mm.27701	NM_007485	ENSMUSG00000041845	Rhod	AI326383|Arhd|Rho|RhoHP1|RhoM	ras homolog family member D	protein-coding	11.0	3.5	2.5	17.0	14.0	12.5	6.0	10.0
Merged-chr6-46144667-4	chr6	46144592	46144792	+	972.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 8 of 23)	A-rich|Low_complexity|Low_complexity	1084631.0	NM_001004357	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	26.5	26.0	46.0	623.5	58.0	21.5	14.0	27.5
Merged-chr14-51084013-4	chr14	51083928	51084128	+	942.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7049.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	28.0	26.0	14.0	263.0	53.5	18.0	16.0	9.0
Merged-chr8-82863304-4	chr8	82863215	82863415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177378)	promoter-TSS (NM_177378)	-41.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	22.5	25.0	31.0	251.0	44.0	21.0	31.5	24.0
Merged-chr8-39644749-4	chr8	39644637	39644837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2059.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	68.0	97.5	42.0	1204.0	127.5	58.5	30.0	29.0
Merged-chr5-34336300-4	chr5	34336199	34336399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011278)	promoter-TSS (NM_011278)	49.0	NM_011278	19822.0	Mm.21281	NM_011278	ENSMUSG00000029110	Rnf4	AU018689|Gtrgeo8|SNURF	ring finger protein 4	protein-coding	155.0	306.0	154.0	1835.5	437.0	177.5	152.0	134.0
Merged-chr3-87000346-3	chr3	87000287	87000487	+	957.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1047.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	4.5	8.5	6.5	236.5	13.0	6.5	12.0	9.0
Merged-chr4-132983174-4	chr4	132983061	132983261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010208, intron 1 of 12)	intron (NM_010208, intron 1 of 12)	9066.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	119.0	220.0	82.0	1117.5	302.0	132.5	84.5	79.5
Merged-chr2-148752488-4	chr2	148752372	148752572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177655, intron 2 of 3)	intron (NM_177655, intron 2 of 3)	2111.0	NM_177655	228756.0	Mm.189390	NM_177655	ENSMUSG00000055177	Cstl1	RCET1|RCET2|RCET3	cystatin-like 1	protein-coding	30.0	43.5	26.5	418.0	88.0	36.5	43.5	49.5
Merged-chr2-116897017-4	chr2	116896913	116897113	+	929.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3139.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	10.0	13.0	9.5	148.5	20.0	20.5	22.5	8.0
Merged-chr18-82855827-4	chr18	82855725	82855925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125720)	promoter-TSS (NR_125720)	-72.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	52.5	68.5	72.5	1248.0	153.5	64.5	75.0	77.5
Merged-chr2-91650107-4	chr2	91649995	91650195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033451)	promoter-TSS (NM_001033451)	-23.0	NR_027372	228359.0	Mm.22413	NM_146124	ENSMUSG00000027247	Arhgap1	B230365D05Rik|C76222|Cdc42GAP|p50rhoGAP	Rho GTPase activating protein 1	protein-coding	133.5	172.5	99.0	1603.0	329.0	127.5	119.5	129.0
Merged-chr11-20930821-4	chr11	20930730	20930930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99722.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	81.0	83.5	61.5	1097.0	153.5	64.0	55.0	52.5
Merged-chr6-97456433-4	chr6	97456327	97456527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	2859.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	123.5	178.5	174.0	2512.5	237.0	93.0	120.0	100.5
Merged-chr11-118211989-4	chr11	118211907	118212107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	735.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	104.5	99.0	189.5	2322.5	230.5	64.0	132.0	75.0
Merged-chr3-52007595-2	chr3	52007495	52007695	+	871.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	97411.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	6.0	4.5	6.5	39.0	8.5	3.5	8.0	5.5
Merged-chr5-8055855-4	chr5	8055749	8055949	+	816.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080974)	promoter-TSS (NM_001080974)	-693.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	18.0	9.5	7.5	320.5	19.5	10.5	10.0	8.5
Merged-chr7-98289752-3	chr7	98289648	98289848	+	874.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360615, intron 1 of 10)	B2_Mm2|SINE|B2	19794.0	NM_001360616	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	5.0	9.5	12.0	73.5	37.0	14.0	6.0	13.5
Merged-chr7-19308035-7	chr7	19307839	19308039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347586, intron 1 of 4)	intron (NM_001347586, intron 1 of 4)	2106.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	45.0	83.0	37.0	429.5	188.5	80.5	52.0	43.5
Merged-chr5-110639711-3	chr5	110639608	110639808	+	657.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13674.0	NM_153570	100608.0	Mm.29960	NM_153570	ENSMUSG00000033294	Noc4l	AI326906	NOC4 like	protein-coding	6.0	13.0	7.5	40.5	10.5	8.5	3.5	6.0
Merged-chr17-70829801-4	chr17	70829718	70829918	+	976.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER45B|DNA|hAT-Tip100	16959.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	20.5	23.5	10.5	286.5	33.0	19.5	23.0	29.0
Merged-chr11-75636721-4	chr11	75636622	75636822	+	995.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008916, intron 3 of 11)	intron (NM_008916, intron 3 of 11)	5702.0	NM_008916	19062.0	Mm.1458	NM_008916	ENSMUSG00000006127	Inpp5k	C62|Pps|SKIP	inositol polyphosphate 5-phosphatase K	protein-coding	39.0	34.0	12.5	292.0	54.5	17.0	37.0	18.5
Merged-chr16-57280369-4	chr16	57280290	57280490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027651, intron 3 of 7)	intron (NM_027651, intron 3 of 7)	12461.0	NM_027651	71027.0	Mm.158563	NM_027651	ENSMUSG00000022753	Tmem30c	4933401B01Rik|4933409A18Rik|Cdc50c	transmembrane protein 30C	protein-coding	42.5	34.5	49.5	885.0	149.5	34.0	68.5	42.0
Merged-chr15-58986013-1	chr15	58985913	58986113	+	801.5	f0_balb.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	52203.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	8.5	8.0	8.5	202.0	2.5	0.0	5.0	4.0
Merged-chr7-145308424-4	chr7	145308327	145308527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145379, exon 3 of 3)	exon (NM_145379, exon 3 of 3)	-6408.0	NM_203490	211578.0	Mm.370299	NM_203490	ENSMUSG00000051207	Mrgprd	Gm499|Mgrd|MrgD|TGR7	MAS-related GPR, member D	protein-coding	38.0	45.5	37.0	638.0	120.5	32.0	55.5	36.0
Merged-chr4-99177146-4	chr4	99177037	99177237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16797.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	24.0	63.5	35.0	951.5	76.0	21.5	39.5	24.5
Merged-chr13-113612134-2	chr13	113612034	113612234	+	703.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	6430.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	5.5	12.5	5.0	24.0	12.0	8.5	4.0	7.5
Merged-chr12-40470531-4	chr12	40470455	40470655	+	945.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	24502.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	16.0	17.0	5.5	164.0	91.0	13.0	21.0	20.5
Merged-chr1-183094954-4	chr1	183094850	183095050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278218, intron 8 of 8)	intron (NM_001278218, intron 8 of 8)	52607.0	NM_001278220	68897.0	Mm.327216	NM_026866	ENSMUSG00000030768	Disp1	1190008H24Rik|DispA	dispatched RND transporter family member 1	protein-coding	37.5	42.0	54.0	637.0	66.0	19.5	48.0	51.0
Merged-chr3-89835657-4	chr3	89835566	89835766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172530, intron 2 of 5)	intron (NM_172530, intron 2 of 5)	4296.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	28.0	42.5	33.0	550.5	74.0	24.0	41.5	35.5
Merged-chr12-108765052-4	chr12	108764975	108765175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28236.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	73.5	119.0	82.5	1478.5	161.5	48.5	76.5	66.0
Merged-chr10-117300570-3	chr10	117300464	117300664	+	816.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7696.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	5.0	13.0	2.0	134.0	11.0	9.5	6.0	10.0
Merged-chr5-41550151-2	chr5	41550016	41550216	+	761.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	157575.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	0.5	1.5	5.5	56.0	13.5	7.0	14.5	24.0
Merged-chr10-111411750-4	chr10	111411656	111411856	+	939.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61471.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	18.5	14.5	15.5	258.0	45.0	7.5	21.5	27.5
Merged-chr7-24474101-3	chr7	24473999	24474199	+	902.166626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011113, intron 5 of 6)	intron (NM_011113, intron 5 of 6)	-7924.0	NM_153112	260299.0	Mm.178322	NM_153112	ENSMUSG00000054793	Cadm4	Igdf4c|Igsf4c|Tsll2	cell adhesion molecule 4	protein-coding	11.5	13.5	8.0	164.0	37.5	5.5	7.0	7.0
Merged-chr14-51052857-2	chr14	51052757	51052957	+	795.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2694.0	NM_001011877	497113.0	Mm.379741	NM_001011877	ENSMUSG00000059648	Rnase11	Raj1	ribonuclease, RNase A family, 11 (non-active)	protein-coding	4.5	9.0	6.5	168.5	14.5	4.0	0.0	8.0
Merged-chr9-106296935-4	chr9	106296828	106297028	+	903.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 7 of 10)	intron (NM_027354, intron 7 of 10)	15867.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	13.5	15.0	9.0	36.0	117.5	58.5	89.5	48.0
Merged-chr15-103339547-4	chr15	103339438	103339638	+	908.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013866, intron 1 of 7)	intron (NM_013866, intron 1 of 7)	548.0	NM_013866	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	9.5	9.0	11.5	159.0	19.0	6.5	12.5	20.0
Merged-chr12-111377199-2	chr12	111377099	111377299	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_183016, exon 1 of 37)	exon (NM_183016, exon 1 of 37)	519.0	NM_183016	217866.0	Mm.27397	NM_183016	ENSMUSG00000021279	Cdc42bpb	MRCKb	CDC42 binding protein kinase beta	protein-coding	14.5	17.0	20.5	154.5	26.0	21.0	10.5	26.0
Merged-chr8-69193474-4	chr8	69193386	69193586	+	947.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15560.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	7.0	12.5	6.5	150.0	43.0	18.5	26.0	19.5
Merged-chr3-103279120-4	chr3	103279044	103279244	+	884.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053170)	promoter-TSS (NM_053170)	-149.0	NM_001079830	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	16.5	23.5	11.5	150.5	22.5	6.5	9.0	18.0
Merged-chr9-78006799-4	chr9	78006707	78006907	+	793.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45151.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	7.0	8.5	18.5	115.0	16.5	12.0	15.0	8.0
Merged-chr16-8738968-4	chr16	8738880	8739080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003918)	promoter-TSS (NM_001003918)	-638.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	56.5	87.0	49.0	907.0	142.5	57.0	80.0	63.5
Merged-chr5-88601432-4	chr5	88601329	88601529	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289777, intron 3 of 14)	Tigger7|DNA|TcMar-Tigger	17916.0	NM_001359209	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	17.5	17.0	10.5	247.0	62.5	6.5	29.0	8.0
Merged-chr5-91960163-3	chr5	91960061	91960261	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026557, intron 1 of 8)	Charlie1a|DNA|hAT-Charlie	2395.0	NR_073442	68098.0	Mm.159453	NM_026557	ENSMUSG00000029397	Rchy1	ARNIP|CHIMP|Pirh2|Zfp363|Znf363	ring finger and CHY zinc finger domain containing 1	protein-coding	12.0	19.5	11.0	170.5	33.0	2.0	5.0	10.0
Merged-chr2-34741974-4	chr2	34741870	34742070	+	935.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151469, intron 2 of 26)	intron (NR_151469, intron 2 of 26)	13262.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	13.5	16.0	9.0	173.0	42.0	13.5	6.5	12.5
Merged-chr2-118703070-4	chr2	118703006	118703206	+	750.708313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081971, exon 1 of 1)	exon (NM_001081971, exon 1 of 1)	857.0	NM_001081971	383787.0	Mm.35758	NM_001081971	ENSMUSG00000078137	Ankrd63	Gm1337	ankyrin repeat domain 63	protein-coding	4.5	6.0	7.0	56.5	12.5	6.5	4.5	17.0
Merged-chr14-45663729-4	chr14	45663600	45663800	+	929.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5557.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	9.0	20.0	2.5	104.0	114.0	34.0	27.0	20.5
Merged-chr2-167361817-4	chr2	167361711	167361911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12633.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	50.0	56.5	34.5	618.0	112.0	39.0	35.0	32.0
Merged-chr8-122465148-4	chr8	122465053	122465253	+	953.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033142)	TTS (NM_001033142)	-4461.0	NM_013914	30927.0	Mm.103673	NM_013914	ENSMUSG00000006587	Snai3	AI643946|Smuc|Zfp293	snail family zinc finger 3	protein-coding	7.0	12.5	19.0	216.5	40.0	22.0	46.5	26.5
Merged-chr8-47688674-4	chr8	47688578	47688778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-13519.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	59.5	69.0	65.0	1083.5	94.5	16.5	32.5	26.0
Merged-chr19-34471962-4	chr19	34471838	34472038	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3197.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	33.0	55.0	22.0	333.5	81.0	25.0	19.0	19.5
Merged-chr3-95433639-4	chr3	95433532	95433732	+	964.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009709)	promoter-TSS (NM_009709)	-758.0	NM_009709	11863.0	Mm.250265	NM_009709	ENSMUSG00000015522	Arnt	D3Ertd557e|Drnt|ESTM42|Hif1b|W08714|bHLHe2|mKIAA4051	aryl hydrocarbon receptor nuclear translocator	protein-coding	12.0	26.0	11.5	186.5	45.5	14.5	14.5	15.5
Merged-chr12-79319486-4	chr12	79319388	79319588	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 5 of 10)	L1MEc|LINE|L1	22137.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	17.5	42.5	14.5	294.5	59.5	29.0	30.0	20.5
Merged-chr2-103547332-3	chr2	103547232	103547432	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18978.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	4.5	10.0	6.0	127.5	13.5	8.5	10.0	13.0
Merged-chr9-119352266-4	chr9	119352205	119352405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5076.0	NM_001199568	102448.0	Mm.219497	NM_001033209	ENSMUSG00000035769	Xylb	AI132223|AI327421	xylulokinase homolog (H. influenzae)	protein-coding	17.5	37.0	17.0	215.0	59.5	32.0	36.0	18.5
Merged-chr3-95653840-4	chr3	95653767	95653967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4854.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	136.5	154.0	90.5	1361.5	274.0	97.5	115.0	84.5
Merged-chr6-54171904-1	chr6	54171804	54172004	+	874.3333130000001	f0_balb.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	-92954.0	NM_001311133	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	10.5	5.0	13.5	257.5	4.0	1.5	2.0	4.0
Merged-chr5-146221453-4	chr5	146221363	146221563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256086)	promoter-TSS (NM_001256086)	-6.0	NM_028774	74132.0	Mm.26696	NM_028774	ENSMUSG00000029634	Rnf6	1200013I08Rik|5730419H05Rik|AA537053	ring finger protein (C3H2C3 type) 6	protein-coding	29.5	37.5	23.0	350.5	111.0	26.0	52.5	28.0
Merged-chr11-54113057-4	chr11	54112957	54113157	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136076, intron 5 of 15)	intron (NM_001136076, intron 5 of 15)	12133.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	28.0	63.0	33.5	704.5	43.5	16.5	25.5	17.5
Merged-chr17-73949774-4	chr17	73949655	73949855	+	900.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 1 of 35)	intron (NM_011723, intron 1 of 35)	441.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	36.5	50.0	33.0	782.0	69.5	35.5	22.5	38.0
Merged-chr2-165982703-4	chr2	165982602	165982802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9935.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	38.5	89.0	47.5	656.0	168.0	66.5	49.5	56.0
Merged-chr4-154927327-5	chr4	154927265	154927465	+	889.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178931, intron 1 of 7)	intron (NM_178931, intron 1 of 7)	712.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	6.0	8.0	1.0	55.5	21.5	14.0	11.5	9.0
Merged-chr11-121705307-4	chr11	121705177	121705377	+	767.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 1 of 3)	intron (NM_144797, intron 1 of 3)	2850.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	7.5	8.5	9.5	98.5	18.5	10.0	2.5	7.0
Merged-chr8-26066613-4	chr8	26066547	26066747	+	742.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207659, intron 13 of 21)	intron (NM_207659, intron 13 of 21)	-15962.0	NR_110583	76604.0	Mm.437190	NR_110583	ENSMUSG00000085437	1700047A11Rik	4930554C15Rik	RIKEN cDNA 1700047A11 gene	ncRNA	9.0	13.5	12.0	111.0	21.5	10.0	3.5	9.5
Merged-chr17-15706154-4	chr17	15706059	15706259	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 1 of 35)	intron (NM_007690, intron 1 of 35)	1192.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	15.0	41.0	13.5	143.0	81.0	20.0	18.5	16.0
Merged-chr12-113146849-3	chr12	113146694	113146894	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5218.0	NM_007763	12925.0	Mm.272368	NM_007763	ENSMUSG00000006360	Crip1	CRHP|CRP1|Crip	cysteine-rich protein 1 (intestinal)	protein-coding	47.0	55.0	20.0	280.0	24.0	5.0	7.5	4.0
Merged-chr3-87566306-4	chr3	87566197	87566397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40719.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	38.0	54.5	57.5	725.5	239.5	121.5	137.5	95.5
Merged-chr5-121400346-4	chr5	121400255	121400455	+	995.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172722, intron 1 of 23)	intron (NM_172722, intron 1 of 23)	2373.0	NM_172722	231713.0	Mm.33919	NM_172722	ENSMUSG00000042719	Naa25	4833422K13Rik|A630046C11|AI450868|C330023M02Rik|Mdm20	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	protein-coding	43.5	35.5	17.0	408.5	91.5	32.5	37.5	29.5
Merged-chr9-14698113-4	chr9	14698047	14698247	+	858.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	35125.0	NR_152172	665374.0	Mm.387249	NR_152172	ENSMUSG00000111085	Gm7607	EG665374	predicted gene 7607	ncRNA	6.0	9.0	6.5	111.0	25.5	12.0	28.0	11.5
Merged-chr6-129533428-6	chr6	129533323	129533523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045270)	promoter-TSS (NR_045270)	-139.0	NR_045270	100504641.0	Mm.398286	NR_045270	ENSMUSG00000097675	1700101I11Rik	-	RIKEN cDNA 1700101I11 gene	ncRNA	18.0	50.0	34.5	379.5	60.5	41.5	40.5	32.0
Merged-chr5-100750789-4	chr5	100750689	100750889	+	907.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31073.0	NM_152803	15442.0	Mm.265786	NM_152803	ENSMUSG00000035273	Hpse	HSE1|Hpa|Hpr1	heparanase	protein-coding	15.0	22.5	35.0	417.0	26.0	8.0	11.0	26.5
Merged-chr1-13328586-4	chr1	13328520	13328720	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	43809.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	17.0	22.0	10.0	282.0	39.0	8.0	6.0	10.0
Merged-chr6-115362203-3	chr6	115362097	115362297	+	866.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308354)	promoter-TSS (NM_001308354)	-152.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	8.5	6.0	10.5	117.0	10.0	8.0	11.5	12.0
Merged-chr13-44937216-2	chr13	44937116	44937316	+	693.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 7 of 9)	MTD|LTR|ERVL-MaLR	64880.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	2.5	11.0	4.0	58.0	17.0	7.0	6.5	8.0
Merged-chr19-15999487-3	chr19	15999393	15999593	+	772.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045355, intron 2 of 2)	L1_Rod|LINE|L1	14418.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	1.5	0.0	1.0	52.0	46.0	6.5	13.0	12.0
Merged-chr2-32606415-2	chr2	32606315	32606515	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110347)	promoter-TSS (NR_110347)	-570.0	NM_001289547	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	6.0	12.0	7.5	41.0	14.0	7.0	7.5	8.0
Merged-chr6-113306614-4	chr6	113306540	113306740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282126)	promoter-TSS (NM_001282126)	-497.0	NM_030178	78783.0	Mm.356059	NM_030178	ENSMUSG00000001632	Brpf1	4833438B11Rik|4930540D11Rik|Brpf2	bromodomain and PHD finger containing, 1	protein-coding	462.5	724.5	431.5	7020.5	949.0	433.0	493.0	431.5
Merged-chr6-145249550-4	chr6	145249459	145249659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045598)	promoter-TSS (NR_045598)	672.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	27.0	62.0	49.0	573.5	88.0	51.0	54.0	60.5
Merged-chr6-6542339-4	chr6	6542234	6542434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	36324.0	NM_009169	20422.0	Mm.2469	NM_009169	ENSMUSG00000042541	Sem1	DSS1|Shfdg1|Shfg|Shfm1	SEM1, 26S proteasome complex subunit	protein-coding	73.0	111.5	55.5	1086.5	151.0	70.0	111.0	94.0
Merged-chr10-121510130-4	chr10	121510108	121510308	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33958.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	24.0	23.0	30.5	500.5	26.0	10.5	15.0	17.5
Merged-chr1-55215630-4	chr1	55215535	55215735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028713, intron 1 of 8)	intron (NM_028713, intron 1 of 8)	11147.0	NM_001356288	74013.0	Mm.292050	NM_028713	ENSMUSG00000025978	Rftn2	2700010E02Rik|3222401M22Rik	raftlin family member 2	protein-coding	40.5	58.0	63.0	909.0	109.5	56.5	92.5	71.0
Merged-chr13-65113011-4	chr13	65112954	65113154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133680)	promoter-TSS (NM_133680)	-72.0	NM_133680	66631.0	Mm.239196	NM_133680	ENSMUSG00000038212	Mfsd14b	5730414C17Rik|AU045608|AW539692|Hiatl1	major facilitator superfamily domain containing 14B	protein-coding	62.5	113.5	68.0	1232.5	232.5	82.5	98.5	73.0
Merged-chr11-11462050-4	chr11	11461933	11462133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001185153, intron 1 of 7)	CpG	386.0	NM_015785	53604.0	Mm.9500	NM_015785	ENSMUSG00000020193	Zpbp	4930486K01Rik|Iam38|Sp38	zona pellucida binding protein	protein-coding	75.5	109.5	88.0	1379.0	301.5	139.5	149.0	149.5
Merged-chr15-77537680-2	chr15	77537583	77537783	+	815.533325	f0_c57.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-4368.0	NM_175391	108956.0	Mm.86391	NM_175391	ENSMUSG00000044309	Apol7c	2210421G13Rik	apolipoprotein L 7c	protein-coding	4.0	8.0	5.0	47.0	61.0	27.0	13.0	16.5
Merged-chr5-134394808-3	chr5	134394704	134394904	+	621.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081462, intron 9 of 29)	intron (NM_001081462, intron 9 of 29)	61458.0	NM_001081465	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	7.0	11.0	3.5	84.0	13.5	4.5	5.5	5.5
Merged-chr14-62761284-4	chr14	62761188	62761388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008715)	promoter-TSS (NM_008715)	-176.0	NM_008715	18130.0	Mm.319684	NM_008715	ENSMUSG00000035161	Ints6	2900075H24Rik|AI480962|DICE1|Ddx26|HDB|Notch2l	integrator complex subunit 6	protein-coding	295.5	391.0	205.0	3405.0	679.0	319.5	299.0	252.5
Merged-chr16-21925500-4	chr16	21925392	21925592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172821, intron 11 of 12)	intron (NM_172821, intron 11 of 12)	22060.0	NM_025693	66664.0	Mm.46480	NM_025693	ENSMUSG00000022856	Tmem41a	2900010K02Rik|5730578N08Rik	transmembrane protein 41a	protein-coding	24.0	29.0	14.0	385.0	74.5	23.5	24.5	26.5
Merged-chr2-27475700-4	chr2	27475616	27475816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113574)	promoter-TSS (NM_001113574)	-43.0	NM_001113574	67382.0	Mm.28721	NM_023336	ENSMUSG00000026918	Brd3	2410084F24Rik|AW060456|Fsrg2|ORFX|RINGL3	bromodomain containing 3	protein-coding	104.0	146.5	72.5	1390.5	238.0	76.5	146.5	95.0
Merged-chr18-61938451-1	chr18	61938351	61938551	+	638.5	f0_balb.idr	Intergenic	Intergenic	-14624.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	3.0	11.5	4.0	79.5	14.5	6.5	7.0	8.5
Merged-chr3-81961477-3	chr3	81961396	81961596	+	890.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019911, exon 10 of 12)	exon (NM_019911, exon 10 of 12)	14232.0	NM_019911	56720.0	Mm.258622	NM_019911	ENSMUSG00000028011	Tdo2	AA407491|TDO|TO|chky	tryptophan 2,3-dioxygenase	protein-coding	0.5	2.0	2.0	20.0	20.0	15.5	16.0	13.0
Merged-chr2-77238804-4	chr2	77238713	77238913	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 3 of 17)	intron (NM_175465, intron 3 of 17)	41779.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	18.0	36.0	34.5	764.5	93.5	15.5	31.0	54.5
Merged-chr14-54754128-4	chr14	54754038	54754238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	27748.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	32.0	46.0	22.0	504.5	106.0	29.5	32.0	53.5
Merged-chr9-107551612-4	chr9	107551527	107551727	+	869.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243748)	promoter-TSS (NM_001243748)	72.0	NM_001243748	56289.0	Mm.12091	NM_019713	ENSMUSG00000010067	Rassf1	123F2|AA536941|AU044980|NORE2A|RDA32|REH3P21|Rassf1A|Rassf1B|Rassf1C	Ras association (RalGDS/AF-6) domain family member 1	protein-coding	20.5	16.5	8.5	149.5	26.0	14.0	12.0	14.5
Merged-chr7-126898277-4	chr7	126898198	126898398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028389)	promoter-TSS (NM_028389)	-20.0	NM_028389	68742.0	Mm.248646	NM_026827	ENSMUSG00000060538	Tmem219	1110032O16Rik|2900045G02Rik|IGFBP-3R	transmembrane protein 219	protein-coding	61.5	129.0	44.5	807.5	234.5	85.5	100.0	76.5
Merged-chr1-62701211-4	chr1	62701119	62701319	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2098.0	NM_001077406	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	21.0	48.0	26.5	394.0	69.5	13.5	37.5	28.5
Merged-chr12-59061388-4	chr12	59061268	59061468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030057, exon 1 of 6)	5' UTR (NM_030057, exon 1 of 6)	104.0	NM_001306218	78232.0	Mm.290070	NM_030057	ENSMUSG00000020993	Trappc6b	5830498C14Rik|C79212	trafficking protein particle complex 6B	protein-coding	84.0	127.0	123.5	1343.5	185.5	97.0	130.0	93.0
Merged-chr4-62729391-3	chr4	62729283	62729483	+	898.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	55409.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	4.5	29.0	9.5	73.5	7.0	1.5	2.0	7.0
Merged-chr6-145101162-3	chr6	145101125	145101325	+	931.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14411.0	NM_001281980	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	5.5	7.0	6.5	103.0	7.0	4.5	4.5	10.5
Merged-chr13-9560865-2	chr13	9560765	9560965	+	843.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 9 of 36)	intron (NM_001081426, intron 9 of 36)	202945.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	7.5	5.0	6.0	181.5	6.5	3.5	3.0	1.5
Merged-chr2-146134478-3	chr2	146134377	146134577	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87520.0	NM_016889	53626.0	Mm.379070	NM_016889	ENSMUSG00000068154	Insm1	IA-1	insulinoma-associated 1	protein-coding	15.0	34.0	18.0	289.5	21.0	3.0	7.5	11.0
Merged-chr18-82876403-4	chr18	82876288	82876488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20491.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	79.0	118.5	40.5	489.0	167.0	68.0	51.0	38.0
Merged-chr1-36987321-4	chr1	36987210	36987410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M7|LINE|L1	-47783.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	44.0	100.0	37.5	563.5	123.5	43.5	60.0	32.5
Merged-chr3-32508977-8	chr3	32508892	32509092	+	961.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1558.0	NM_001161818	67778.0	Mm.285620	NM_144519	ENSMUSG00000027667	Zfp639	6230400O18Rik|ANC-2H01|ZASC1|Znf639	zinc finger protein 639	protein-coding	9.5	15.5	14.5	68.0	27.0	6.5	10.5	8.0
Merged-chr1-31050442-2	chr1	31050367	31050567	+	840.333374	f0_c57.idr|f1_c57bl6.idr	intron (NR_136907, intron 1 of 3)	intron (NR_136907, intron 1 of 3)	45987.0	NR_136907	102634473.0	Mm.484482	NR_136907	ENSMUSG00000100371	Gm29669	-	predicted gene 29669	ncRNA	4.5	3.0	9.0	129.5	35.0	16.5	30.0	27.5
Merged-chr2-103008369-4	chr2	103008278	103008478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65135.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	92.0	130.5	53.0	1131.5	146.0	63.0	92.0	79.0
Merged-chr2-122454192-4	chr2	122454105	122454305	+	853.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356532, intron 10 of 17)	intron (NM_001356532, intron 10 of 17)	13385.0	NM_001356532	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	11.5	12.5	21.0	436.5	23.0	4.0	11.5	21.5
Merged-chr10-19008027-4	chr10	19007943	19008143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166402, intron 2 of 7)	intron (NM_001166402, intron 2 of 7)	3920.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	30.0	83.5	34.0	606.0	174.0	52.5	53.5	51.5
Merged-chr7-110258490-3	chr7	110258413	110258613	+	770.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 3 of 11)	PB1D10|SINE|Alu	36810.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	6.0	20.5	6.0	81.0	28.0	1.0	5.0	4.0
Merged-chr5-38483712-4	chr5	38483619	38483819	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012363)	promoter-TSS (NM_001012363)	-334.0	NM_001012363	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	12.5	17.5	23.5	200.0	27.5	15.5	24.5	15.0
Merged-chr6-66896377-4	chr6	66896288	66896488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177557)	promoter-TSS (NM_001177557)	-9.0	NM_001177559	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	103.0	101.5	105.0	1396.5	191.0	79.5	108.5	75.0
Merged-chr11-11691867-4	chr11	11691775	11691975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301863, intron 1 of 7)	intron (NM_001301863, intron 1 of 7)	1698.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	44.5	74.0	57.0	916.5	160.5	39.5	66.0	63.5
Merged-chr13-58996667-4	chr13	58996585	58996785	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	188988.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	12.0	16.5	23.5	229.5	22.5	6.5	14.5	18.0
Merged-chr13-49684164-4	chr13	49684056	49684256	+	981.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172015, intron 1 of 33)	intron (NM_172015, intron 1 of 33)	2026.0	NM_172015	105148.0	Mm.21118	NM_172015	ENSMUSG00000037851	Iars	2510016L12Rik|AI327140|AU044614|E430001P04Rik|ILRS	isoleucine-tRNA synthetase	protein-coding	21.5	23.0	8.5	296.5	43.5	17.5	24.5	15.5
Merged-chr8-72548398-4	chr8	72548299	72548499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027485)	promoter-TSS (NM_027485)	-89.0	NM_027485	70625.0	Mm.235885	NM_027485	ENSMUSG00000045248	Med26	5730493L18Rik|AI414941|AW495270|Crsp7	mediator complex subunit 26	protein-coding	261.5	407.0	275.5	4049.5	552.5	242.0	273.0	283.0
Merged-chr8-117282326-4	chr8	117282237	117282437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	25318.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	49.0	88.5	90.5	1127.0	130.5	26.5	43.0	63.0
Merged-chr5-77265256-4	chr5	77265159	77265359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011263)	promoter-TSS (NM_011263)	-235.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	82.5	110.0	114.5	1603.0	158.5	52.5	90.0	64.5
Merged-chr3-27766249-4	chr3	27766146	27766346	+	962.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55794.0	NM_173182	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	17.0	20.0	22.0	379.5	45.5	22.5	26.0	14.0
Merged-chr11-77686677-4	chr11	77686612	77686812	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024205, intron 1 of 3)	intron (NM_001024205, intron 1 of 3)	573.0	NM_001024205	68564.0	Mm.428996	NM_001024205	ENSMUSG00000037857	Nufip2	1110001M19Rik|9530056D24Rik|AI256692|AI461731|PIG1|mKIAA1321	nuclear fragile X mental retardation protein interacting protein 2	protein-coding	15.5	31.5	12.0	111.0	51.5	32.0	23.5	32.5
Merged-chr4-134919845-4	chr4	134919747	134919947	+	890.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3778.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	10.0	4.5	12.0	138.0	22.5	14.0	9.0	12.0
Merged-chr7-118637634-3	chr7	118637516	118637716	+	902.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028930, intron 1 of 17)	ORR1D2|LTR|ERVL-MaLR	3880.0	NM_028930	74424.0	Mm.11068	NM_028930	ENSMUSG00000030650	Tmc5	4932443L08Rik|AU016085	transmembrane channel-like gene family 5	protein-coding	3.0	5.5	2.0	54.5	32.0	8.5	17.5	10.5
Merged-chr17-69223320-4	chr17	69223228	69223428	+	867.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 3 of 21)	intron (NM_001355736, intron 3 of 21)	53878.0	NR_045428	69750.0	Mm.439063	NR_045428	ENSMUSG00000100572	2410021H03Rik	-	RIKEN cDNA 2410021H03 gene	ncRNA	16.0	29.0	15.5	132.0	20.5	9.5	13.0	7.5
Merged-chr8-116978953-4	chr8	116978805	116979005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357254)	promoter-TSS (NM_001357254)	54.0	NM_027103	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	172.5	261.0	373.0	2499.0	387.0	188.0	190.5	242.0
Merged-chr9-62374967-4	chr9	62374868	62375068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 5 of 6)	intron (NM_009672, intron 5 of 6)	33625.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	44.5	46.5	28.0	442.0	50.0	23.0	36.5	29.5
Merged-chr17-43573890-4	chr17	43573822	43574022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	5471.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	91.5	128.0	162.0	1516.0	282.0	100.5	92.5	95.5
Merged-chr7-127111685-4	chr7	127111588	127111788	+	768.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133686, intron 1 of 3)	B1F|SINE|Alu	10341.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	18.5	10.5	7.0	141.5	17.5	13.5	14.5	6.5
Merged-chr11-54520481-4	chr11	54520387	54520587	+	723.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2358.0	NM_001252494	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	3.0	9.0	9.5	107.0	13.5	9.0	11.5	7.5
Merged-chr9-72957511-3	chr9	72957408	72957608	+	717.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1277.0	NM_026314	67685.0	Mm.31817	NM_026314	ENSMUSG00000092192	Dyx1c1	1700010I24Rik|Dnaaf4|EKN1|b2b811.1Clo|b2b811Clo	dyslexia susceptibility 1 candidate 1	protein-coding	10.0	10.0	4.0	103.5	21.0	8.0	5.0	5.5
Merged-chr6-28424013-3	chr6	28423904	28424104	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007480, intron 1 of 5)	intron (NM_007480, intron 1 of 5)	400.0	NM_007480	11844.0	Mm.389075	NM_007480	ENSMUSG00000020440	Arf5	-	ADP-ribosylation factor 5	protein-coding	23.5	23.0	17.0	175.5	42.5	14.0	22.0	22.5
Merged-chr12-4161509-3	chr12	4161403	4161603	+	898.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 2 of 21)	URR1B|DNA|hAT-Charlie	27350.0	NM_138305	104111.0	Mm.489807	NM_138305	ENSMUSG00000020654	Adcy3	AC3|mKIAA0511	adenylate cyclase 3	protein-coding	12.5	13.0	16.5	130.5	23.0	15.0	7.5	7.5
Merged-chr10-127603860-4	chr10	127603692	127603892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	17356.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	27.0	48.5	30.0	301.5	53.5	31.5	24.5	38.0
Merged-chr18-73821733-1	chr18	73821633	73821833	+	595.0	f1_balb.idr	Intergenic	Intergenic	-6341.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	4.5	1.0	0.5	9.0	7.5	6.5	5.5	5.5
Merged-chr2-30268676-3	chr2	30268567	30268767	+	736.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252571, intron 1 of 9)	intron (NM_001252571, intron 1 of 9)	1848.0	NM_001252570	227696.0	Mm.297949	NM_172267	ENSMUSG00000079484	Phyhd1	-	phytanoyl-CoA dioxygenase domain containing 1	protein-coding	12.0	7.5	8.0	68.5	12.0	2.5	4.5	10.0
Merged-chr14-118813213-3	chr14	118813116	118813316	+	643.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160097, intron 1 of 3)	intron (NM_001160097, intron 1 of 3)	25345.0	NM_001160097	58187.0	Mm.390755	NM_021386	ENSMUSG00000022132	Cldn10	6720456I16Rik|Cldn10a|Cldn10b|D14Ertd728e	claudin 10	protein-coding	5.0	8.5	8.0	121.0	2.0	0.0	3.5	2.5
Merged-chr5-62521230-3	chr5	62521136	62521336	+	844.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	244941.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	1.0	2.0	3.0	77.5	48.5	21.5	8.5	25.5
Merged-chr1-153931415-1	chr1	153931315	153931515	+	623.0	f0_balb.idr	Intergenic	Lx7|LINE|L1	31486.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	7.0	4.5	4.5	115.0	7.5	1.5	4.0	7.5
Merged-chr4-62667398-4	chr4	62667314	62667514	+	739.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-6560.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	7.5	7.5	8.5	73.5	32.5	12.5	18.0	21.5
Merged-chr7-135689925-4	chr7	135689847	135690047	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081117, exon 14 of 14)	3' UTR (NM_001081117, exon 14 of 14)	26432.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	10.5	7.0	9.5	131.0	58.0	7.5	21.0	7.5
Merged-chr4-148497824-3	chr4	148497732	148497932	+	865.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039554, intron 2 of 4)	intron (NM_001039554, intron 2 of 4)	2630.0	NM_001039554	654812.0	Mm.388929	NM_001039554	ENSMUSG00000028989	Angptl7	-	angiopoietin-like 7	protein-coding	13.5	12.0	14.0	204.5	2.0	3.0	0.5	0.0
Merged-chr12-8345045-3	chr12	8344934	8345134	+	822.638855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31601.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	9.0	7.5	13.0	213.5	21.5	11.0	5.0	3.5
Merged-chr9-64340647-4	chr9	64340548	64340748	+	956.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172519)	promoter-TSS (NM_172519)	125.0	NM_001177784	213550.0	Mm.268341	NM_172519	ENSMUSG00000032396	Dis3l	AV340375	DIS3 like exosome 3'-5' exoribonuclease	protein-coding	27.0	24.0	25.5	324.0	54.0	9.5	21.0	26.5
Merged-chr2-6378939-4	chr2	6378841	6379041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 1 of 13)	intron (NM_181399, intron 1 of 13)	26205.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	64.5	68.0	72.5	1392.0	152.0	42.0	78.5	70.0
Merged-chr4-26345913-6	chr4	26345809	26346009	+	792.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172865, intron 1 of 4)	intron (NM_172865, intron 1 of 4)	743.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	4.5	8.5	11.5	120.0	18.5	2.0	9.5	7.0
Merged-chr2-128125914-4	chr2	128125804	128126004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207680)	promoter-TSS (NM_207680)	-134.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	139.5	247.0	111.0	1519.0	327.0	113.5	80.5	116.0
Merged-chr6-39206136-4	chr6	39205998	39206198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033430, intron 1 of 19)	CpG	675.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	16.5	34.0	12.5	265.5	45.5	15.0	16.5	22.5
Merged-chr2-155563112-4	chr2	155563006	155563206	+	991.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008180)	TTS (NM_008180)	-6176.0	NR_040613	74945.0	Mm.401956	NR_040613	ENSMUSG00000086529	Acss2os	4930471I20Rik	acyl-CoA synthetase short-chain family member 2, opposite strand	ncRNA	13.5	39.5	16.5	521.5	64.0	26.0	19.0	19.5
Merged-chr8-18568760-4	chr8	18568657	18568857	+	865.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26374.0	NM_173189	244329.0	Mm.235296	NM_173189	ENSMUSG00000039842	Mcph1	5430437K10Rik|BRIT1|D030046N04Rik|MCT|Tg(HLA-A2.1)1Enge	microcephaly, primary autosomal recessive 1	protein-coding	10.5	21.5	31.0	544.5	16.0	7.5	16.0	10.5
Merged-chr14-19713243-4	chr14	19713131	19713331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-38026.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	90.5	89.5	70.0	1001.0	153.0	58.0	81.0	72.0
Merged-chr9-22962546-4	chr9	22962447	22962647	+	795.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-260529.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	6.0	8.5	9.0	313.0	22.0	7.0	9.5	8.0
Merged-chr7-73569230-4	chr7	73569129	73569329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10834.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	33.5	68.0	22.0	349.5	85.0	37.5	40.5	25.5
Merged-chr6-34867819-4	chr6	34867746	34867946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197986, intron 1 of 1)	intron (NM_197986, intron 1 of 1)	4700.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	68.5	85.5	63.0	950.0	113.5	31.5	29.0	39.0
Merged-chr19-43523628-4	chr19	43523515	43523715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 1 of 8)	intron (NM_010324, intron 1 of 8)	990.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	77.5	93.0	121.0	1963.5	282.5	67.0	143.5	111.0
Merged-chr9-61443579-4	chr9	61443461	61443661	+	925.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71195.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	14.0	27.0	14.5	291.0	25.0	1.5	13.0	31.0
Merged-chr8-70868714-4	chr8	70868615	70868815	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026964, intron 4 of 4)	CpG	4775.0	NM_026964	234388.0	Mm.295791	NM_026964	ENSMUSG00000007721	Ccdc124	1810023B24Rik	coiled-coil domain containing 124	protein-coding	31.5	62.0	20.5	611.0	37.0	14.0	12.5	15.5
Merged-chr3-103140239-3	chr3	103140142	103140342	+	900.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356383)	promoter-TSS (NM_001356383)	-84.0	NM_001356383	329727.0	Mm.293641	NM_177857	ENSMUSG00000007379	Dennd2c	A930010I20Rik	DENN/MADD domain containing 2C	protein-coding	11.0	21.5	11.0	189.0	15.0	5.0	9.0	9.5
Merged-chr4-53806616-3	chr4	53806516	53806716	+	796.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY3-int|LTR|ERVK	-19429.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	15.5	21.5	39.0	197.5	6.5	5.5	4.5	0.0
Merged-chr5-8893725-4	chr5	8893641	8893841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008830)	promoter-TSS (NM_008830)	20.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	66.5	51.5	44.5	986.0	88.5	29.5	48.5	28.0
Merged-chr9-87171254-4	chr9	87171156	87171356	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101482, intron 2 of 3)	intron (NM_001101482, intron 2 of 3)	22028.0	NM_001359955	244958.0	Mm.335337	NM_001101482	ENSMUSG00000042761	Mrap2	BB633055	melanocortin 2 receptor accessory protein 2	protein-coding	10.0	13.5	9.0	178.5	33.5	3.5	13.0	12.0
Merged-chr4-123917979-4	chr4	123917857	123918057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017475, intron 1 of 6)	CpG	524.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	16.5	22.0	19.5	308.0	61.5	13.0	30.5	29.0
Merged-chr5-142367590-6	chr5	142367509	142367709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-33888.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	72.5	113.0	71.0	545.5	202.5	117.5	94.5	126.0
Merged-chr3-15470300-4	chr3	15470196	15470396	+	708.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43869.0	NM_001002898	320832.0	Mm.330924	NM_178792	ENSMUSG00000095788	Sirpb1a	9930027N05Rik|SIRP-beta|Sirpb|Sirpb1	signal-regulatory protein beta 1A	protein-coding	12.0	14.0	22.0	0.0	32.5	7.0	9.0	14.0
Merged-chr2-84370561-4	chr2	84370472	84370672	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018782, intron 6 of 15)	intron (NM_018782, intron 6 of 15)	54694.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	39.0	53.0	68.0	467.5	35.5	23.0	24.0	17.5
Merged-chr4-108461750-4	chr4	108461661	108461861	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175472, intron 2 of 30)	intron (NM_175472, intron 2 of 30)	2335.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	36.0	25.5	15.5	428.0	76.0	19.5	32.0	13.0
Merged-chr19-44144474-4	chr19	44144374	44144574	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028607, intron 2 of 4)	intron (NM_028607, intron 2 of 4)	1972.0	NM_028607	73689.0	Mm.124685	NM_028607	ENSMUSG00000057506	Bloc1s2	2410089B13Rik|BLOS2|Bloc1s2a	biogenesis of lysosomal organelles complex-1, subunit 2	protein-coding	19.5	21.5	19.0	235.0	28.5	8.5	14.5	15.5
Merged-chr5-123079858-4	chr5	123079754	123079954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039723, intron 1 of 11)	intron (NM_001039723, intron 1 of 11)	3579.0	NM_001039723	330189.0	Mm.391872	NM_001039723	ENSMUSG00000054434	Tmem120b	-	transmembrane protein 120B	protein-coding	37.0	92.0	54.5	593.0	94.5	28.5	18.5	34.0
Merged-chr18-84952095-4	chr18	84952000	84952200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025969)	promoter-TSS (NM_025969)	-576.0	NM_025969	67105.0	Mm.250617	NM_025969	ENSMUSG00000024645	Timm21	1700034H14Rik|2700002I20Rik	translocase of inner mitochondrial membrane 21	protein-coding	45.0	74.0	44.0	811.5	204.5	76.5	76.5	83.5
Merged-chr7-48788984-4	chr7	48788899	48789099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028031)	promoter-TSS (NM_028031)	-4.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	88.5	142.0	72.0	1297.5	221.5	68.5	136.0	92.0
Merged-chr15-53386914-4	chr15	53386805	53387005	+	924.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40722.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	11.5	14.5	19.0	337.0	28.0	13.5	26.0	24.0
Merged-chr2-79428875-4	chr2	79428775	79428975	+	851.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001048176, exon 1 of 13)	exon (NM_001048176, exon 1 of 13)	113.0	NM_001048176	228094.0	Mm.440704	NM_001033295	ENSMUSG00000075256	Cerkl	Gm1958|Rp26	ceramide kinase-like	protein-coding	7.0	17.0	3.5	207.0	27.0	15.0	15.5	23.5
Merged-chr2-113911366-1	chr2	113911266	113911466	+	779.0	f0_balb.idr	Intergenic	Intergenic	-62705.0	NM_181416	228482.0	Mm.45753	NM_181416	ENSMUSG00000041219	Arhgap11a	6530401L14Rik|mKIAA0013	Rho GTPase activating protein 11A	protein-coding	5.0	12.0	14.0	149.0	0.0	0.5	1.0	4.0
Merged-chr7-122298756-4	chr7	122298659	122298859	+	887.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	MIRb|SINE|MIR	9634.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	29.0	8.0	12.5	325.5	26.0	10.0	14.5	20.0
Merged-chr3-41363598-3	chr3	41363570	41363770	+	755.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129529.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	8.0	5.0	8.0	190.0	1.5	0.0	0.5	0.0
Merged-chr14-20253484-3	chr14	20253388	20253588	+	869.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15674.0	NM_029006	74571.0	Mm.105571	NM_029006	ENSMUSG00000023387	Kcnk16	4731413G05Rik|TALK-1|TALK1	potassium channel, subfamily K, member 16	protein-coding	10.0	30.0	18.0	177.5	7.5	6.5	3.5	12.0
Merged-chr2-6718349-4	chr2	6718250	6718450	+	857.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	3312.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	15.0	13.0	16.5	271.5	30.5	9.0	15.5	13.0
Merged-chr6-42421694-4	chr6	42421606	42421806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12829.0	NM_207028	387353.0	Mm.377914	NM_207028	ENSMUSG00000048284	Tas2r126	T2R12|T2R26|Tas2r26|Tas2r41|mGR26|mt2r35	taste receptor, type 2, member 126	protein-coding	106.0	154.5	102.5	1520.5	250.5	103.5	95.5	107.5
Merged-chr8-36533520-3	chr8	36533415	36533615	+	785.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44324.0	NM_176952	319582.0	Mm.180924	NM_176952	ENSMUSG00000039620	6430573F11Rik	Kiaa1456|TRM9L|Trmt9b	RIKEN cDNA 6430573F11 gene	protein-coding	7.0	10.0	9.5	91.0	9.5	10.5	5.0	9.5
Merged-chr17-63374386-4	chr17	63374298	63374498	+	953.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 5 of 8)	MTA_Mm|LTR|ERVL-MaLR	-61425.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	14.0	30.0	15.0	156.5	64.5	18.5	12.5	6.0
Merged-chr13-102860318-3	chr13	102860236	102860436	+	844.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	100081.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	4.0	14.0	9.5	227.5	9.5	7.0	9.5	5.5
Merged-chr10-96075612-4	chr10	96075516	96075716	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134953.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	21.0	65.0	15.5	403.0	70.5	25.5	30.0	28.0
Merged-chr4-134765249-4	chr4	134765142	134765342	+	972.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	B1_Mus2|SINE|Alu	2762.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	18.0	36.5	12.0	240.5	64.0	20.0	29.5	17.5
Merged-chr1-60977872-4	chr1	60977777	60977977	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017480)	promoter-TSS (NM_017480)	-37.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	14.5	10.0	9.0	266.5	31.5	7.0	5.5	14.0
Merged-chr8-11008993-4	chr8	11008877	11009077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081212)	promoter-TSS (NM_001081212)	-547.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	284.0	403.5	272.5	4175.0	708.0	288.0	347.5	306.5
Merged-chr6-130937066-3	chr6	130936970	130937170	+	866.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_3-LTR_MM|LTR|ERVK	310292.0	NM_001170851	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	21.5	24.0	14.5	254.5	11.0	3.0	7.0	5.5
Merged-chr3-85592892-4	chr3	85592793	85592993	+	720.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144896, intron 2 of 12)	intron (NM_144896, intron 2 of 12)	18764.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	4.5	9.5	5.0	109.5	29.0	4.5	10.5	5.5
Merged-chr17-31003436-4	chr17	31003345	31003545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177465, intron 20 of 21)	intron (NM_177465, intron 20 of 21)	48762.0	NM_177465	52020.0	Mm.25923	NM_177465	ENSMUSG00000054134	Umodl1	D17Ertd488e	uromodulin-like 1	protein-coding	13.5	36.0	30.5	461.5	59.0	15.5	33.0	31.0
Merged-chr3-52017929-4	chr3	52017836	52018036	+	946.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	87070.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	31.0	94.0	27.0	143.5	97.5	48.0	38.0	17.0
Merged-chr1-131691619-4	chr1	131691536	131691736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145509, intron 1 of 5)	intron (NM_145509, intron 1 of 5)	2941.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	124.5	137.0	155.0	2634.0	319.5	110.0	193.5	159.0
Merged-chr7-118855751-4	chr7	118855657	118855857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168220)	promoter-TSS (NM_001168220)	-18.0	NM_001081446	434232.0	Mm.458509	NM_001081446	ENSMUSG00000073856	Iqck	A230094G09Rik	IQ motif containing K	protein-coding	77.5	115.5	54.5	1031.5	225.0	101.5	123.5	76.5
Merged-chr2-169958927-4	chr2	169958826	169959026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	4261.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	96.0	75.0	117.5	1301.0	133.0	39.5	99.0	91.0
Merged-chr11-77981857-4	chr11	77981744	77981944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174852)	promoter-TSS (NM_174852)	-972.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	99.5	180.5	76.0	1289.0	319.0	118.0	120.0	124.0
Merged-chr10-20770205-4	chr10	20770130	20770330	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45152.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	23.5	23.0	19.0	371.0	74.0	12.5	23.5	22.5
Merged-chr1-136137780-4	chr1	136137705	136137905	+	862.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	6415.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	5.0	9.5	9.0	153.5	16.5	15.5	8.5	13.0
Merged-chr4-102576552-2	chr4	102576452	102576652	+	639.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 6 of 14)	ID4|SINE|ID	6492.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	5.5	20.0	2.5	35.0	18.5	5.0	5.5	6.5
Merged-chr19-26605964-5	chr19	26605925	26606125	+	959.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 1 of 32)	CpG	865.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	1.5	14.5	24.0	211.0	24.0	13.5	13.5	10.0
Merged-chr15-75616488-4	chr15	75616323	75616523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011759)	promoter-TSS (NM_011759)	-261.0	NM_001044718	22701.0	Mm.87210	NM_011759	ENSMUSG00000047003	Zfp41	CTfin92|Zfp-41	zinc finger protein 41	protein-coding	126.5	177.5	95.0	1898.5	217.0	109.5	159.0	120.5
Merged-chr7-55961676-4	chr7	55961569	55961769	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015495)	promoter-TSS (NR_015495)	824.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	12.5	14.0	3.5	155.5	41.0	15.0	21.5	33.5
Merged-chr10-91123452-4	chr10	91123314	91123514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133668, intron 2 of 7)	intron (NM_133668, intron 2 of 7)	549.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	28.0	52.5	64.0	435.5	81.5	32.5	42.5	56.0
Merged-chr11-50174786-4	chr11	50174706	50174906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026543)	promoter-TSS (NM_026543)	-45.0	NM_026543	68067.0	Mm.40828	NM_026543	ENSMUSG00000020381	Mrnip	2900016G09Rik|3010026O09Rik|AI851514|AW475975	MRN complex interacting protein	protein-coding	158.0	227.0	124.0	1963.0	302.5	100.5	167.0	101.0
Merged-chr14-79549635-4	chr14	79549537	79549737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 2 of 8)	intron (NM_007920, intron 2 of 8)	33963.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	61.0	71.0	39.0	815.5	148.0	40.5	39.0	44.0
Merged-chr11-121744048-10	chr11	121743966	121744166	+	961.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41639.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	15.0	21.0	8.0	165.0	22.5	9.5	11.5	10.0
Merged-chr10-80171126-4	chr10	80171045	80171245	+	734.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007705, exon 7 of 7)	3' UTR (NM_007705, exon 7 of 7)	-1799.0	NM_027207	69770.0	Mm.302754	NM_027207	ENSMUSG00000035595	1600002K03Rik	-	RIKEN cDNA 1600002K03 gene	protein-coding	8.0	8.5	10.0	94.0	24.0	8.0	12.5	10.5
Merged-chr8-109863606-4	chr8	109863515	109863715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009677, exon 24 of 24)	3' UTR (NM_009677, exon 24 of 24)	-4988.0	NM_001122594	244650.0	Mm.23494	NM_001122594	ENSMUSG00000031732	Phlpp2	AI481772|C130044A18Rik|Phlppl	PH domain and leucine rich repeat protein phosphatase 2	protein-coding	55.5	66.0	39.0	919.5	123.5	36.5	67.5	43.0
Merged-chr10-40258590-4	chr10	40258487	40258687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026113)	promoter-TSS (NM_026113)	-875.0	NM_001359492	67371.0	Mm.64104	NM_026113	ENSMUSG00000019837	Gtf3c6	2410016F19Rik|AU019813	general transcription factor IIIC, polypeptide 6, alpha	protein-coding	47.0	107.5	71.5	886.5	176.5	45.5	73.0	76.5
Merged-chr11-8535051-4	chr11	8534971	8535171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 10 of 30)	intron (NM_001083587, intron 10 of 30)	129464.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	24.0	39.0	21.5	435.0	96.0	30.5	52.0	56.0
Merged-chr3-102702074-2	chr3	102701958	102702158	+	685.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32712.0	NM_027533	70747.0	Mm.27469	NM_027533	ENSMUSG00000027858	Tspan2	6330415F13Rik|B230119D02Rik|tspan-2	tetraspanin 2	protein-coding	7.0	14.5	2.5	44.5	5.5	5.5	10.0	10.5
Merged-chr5-88564042-2	chr5	88563942	88564142	+	720.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289775)	promoter-TSS (NM_001289775)	-998.0	NM_001289774	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	0.0	3.0	6.5	60.0	14.0	4.5	7.0	13.0
Merged-chr2-145746823-3	chr2	145746737	145746937	+	759.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	intron (NR_033220, intron 3 of 3)	-39279.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	7.0	25.0	17.5	233.0	2.0	2.0	5.5	6.5
Merged-chr11-16637877-4	chr11	16637766	16637966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114337.0	NM_207655	13649.0	Mm.8534	NM_007912	ENSMUSG00000020122	Egfr	9030024J15Rik|AI552599|Erbb|Errb1|Errp|Wa5|wa-2|wa2	epidermal growth factor receptor	protein-coding	117.5	127.5	155.0	1724.5	337.0	113.0	146.5	136.0
Merged-chr4-10923391-4	chr4	10923285	10923485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48887.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	175.0	205.5	184.0	3498.5	407.0	147.0	187.0	126.0
Merged-chr4-19927203-4	chr4	19927111	19927311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4645.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	44.0	51.5	35.0	565.0	90.0	19.5	51.0	41.5
Merged-chr4-139310751-4	chr4	139310622	139310822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025337)	promoter-TSS (NM_025337)	-14.0	NM_145384	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	30.0	70.5	19.5	584.0	95.0	46.5	35.5	54.0
Merged-chr5-135472616-4	chr5	135472515	135472715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	72507.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	130.0	170.5	111.5	1817.0	305.0	109.5	140.5	105.5
Merged-chr6-149120068-3	chr6	149119942	149120142	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18362.0	NM_177192	320560.0	Mm.426874	NM_177192	ENSMUSG00000030313	Dennd5b	9330160C06Rik|AI852444|D030011O10Rik|Gm17524	DENN/MADD domain containing 5B	protein-coding	8.0	19.0	9.0	129.0	31.0	4.0	7.5	7.0
Merged-chr3-90472424-4	chr3	90472323	90472523	+	862.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-3778.0	NM_026374	67781.0	Mm.227258	NM_026374	ENSMUSG00000001016	Ilf2	6230405A16Rik|TEG-267|Tex261|Tex267	interleukin enhancer binding factor 2	protein-coding	11.5	19.0	5.0	214.0	25.5	11.0	29.5	6.0
Merged-chr14-47294491-3	chr14	47294375	47294575	+	914.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3799.0	NM_178684	218975.0	Mm.212297	NM_178684	ENSMUSG00000021840	Mapk1ip1l	9130202B12|C130032J12Rik	mitogen-activated protein kinase 1 interacting protein 1-like	protein-coding	8.5	20.0	6.5	103.5	33.5	6.0	18.0	14.0
Merged-chr5-101968675-4	chr5	101968580	101968780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 5 of 66)	intron (NM_172882, intron 5 of 66)	101241.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	148.5	241.5	176.0	2845.0	411.5	168.5	200.0	171.0
Merged-chr11-118146552-4	chr11	118146437	118146637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17318.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	79.0	106.0	50.5	1111.0	144.0	76.5	40.5	49.5
Merged-chr2-163580352-3	chr2	163580246	163580446	+	964.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21968.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	14.5	24.5	13.5	134.5	7.5	2.5	4.0	10.5
Merged-chr10-59237346-2	chr10	59237246	59237446	+	850.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15424.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	8.0	7.0	6.0	61.5	7.0	1.5	4.0	6.0
Merged-chr8-88667976-4	chr8	88667871	88668071	+	739.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 4 of 12)	intron (NM_145857, intron 4 of 12)	20624.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	7.5	7.5	6.5	126.0	24.0	9.0	4.5	21.0
Merged-chr10-58341884-3	chr10	58341774	58341974	+	602.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026148, intron 1 of 9)	intron (NM_026148, intron 1 of 9)	-10089.0	NM_001359116	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	11.5	12.5	9.0	89.0	40.5	5.0	6.0	6.5
Merged-chr1-86525395-4	chr1	86525295	86525495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1162.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	121.5	153.0	69.5	944.0	256.5	106.5	126.5	92.5
Merged-chr15-79941141-4	chr15	79941033	79941233	+	860.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8487.0	NM_144811	52609.0	Mm.323442	NM_144811	ENSMUSG00000053411	Cbx7	1600014J01Rik|AI851678|D15Ertd417e	chromobox 7	protein-coding	17.5	21.5	4.0	91.5	50.0	13.5	15.5	12.5
Merged-chr4-120666491-4	chr4	120666409	120666609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019563)	promoter-TSS (NM_019563)	-54.0	NM_019563	56222.0	Mm.272646	NM_019563	ENSMUSG00000070803	Cited4	MRG-2|Mrg2	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 4	protein-coding	40.5	55.5	28.0	687.0	101.0	29.0	45.5	39.0
Merged-chr18-39489367-5	chr18	39489287	39489487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2142.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	43.0	74.5	62.0	474.0	77.0	33.5	41.5	46.0
Merged-chr14-25790830-3	chr14	25790726	25790926	+	954.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21970.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	11.5	18.0	24.0	249.5	35.5	6.5	7.0	9.0
Merged-chr11-116615941-5	chr11	116615935	116616135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	8217.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	32.0	103.5	56.0	493.0	110.5	75.0	49.0	43.5
Merged-chr13-112398313-4	chr13	112398214	112398414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65756.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	120.0	157.5	86.5	1143.0	261.5	111.5	121.5	104.0
Merged-chr3-33956443-4	chr3	33956307	33956507	+	814.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63672.0	NM_008053	14359.0	Mm.259021	NM_008053	ENSMUSG00000027680	Fxr1	1110050J02Rik|9530073J07Rik|AI851072|Fxr1h|Fxr1p	fragile X mental retardation gene 1, autosomal homolog	protein-coding	8.0	16.0	6.0	190.5	43.5	3.5	5.5	7.0
Merged-chr6-124279610-3	chr6	124279503	124279703	+	970.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25048.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	16.0	14.5	23.5	448.5	11.0	4.0	10.5	3.0
Merged-chr7-28209139-4	chr7	28209049	28209249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	28833.0	NM_001271370	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	57.5	72.0	38.5	749.0	78.0	44.5	50.0	62.5
Merged-chr9-46218323-3	chr9	46218244	46218444	+	815.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 21 of 24)	intron (NM_027498, intron 21 of 24)	-10286.0	NM_009692	11806.0	Mm.26743	NM_009692	ENSMUSG00000032083	Apoa1	Alp-1|Apoa-1|Brp-14|Ltw-1|Lvtw-1|Sep-1|Sep-2|Sep2|apo-AI|apoA-I	apolipoprotein A-I	protein-coding	4.5	16.5	8.5	72.5	9.5	0.0	5.5	8.0
Merged-chr6-29529206-4	chr6	29529090	29529290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252382)	promoter-TSS (NM_001252382)	-92.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	104.5	169.0	106.0	1647.5	267.5	113.5	154.0	110.0
Merged-chr2-119016017-4	chr2	119015897	119016097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13396.0	NM_199310	269336.0	Mm.292465	NM_199310	ENSMUSG00000039983	Ccdc32	Gm631	coiled-coil domain containing 32	protein-coding	137.0	176.0	131.5	2489.5	276.5	83.0	131.5	119.5
Merged-chr13-119442304-1	chr13	119442204	119442404	+	565.0	f0_balb.idr	intron (NM_145457, intron 4 of 10)	MTC|LTR|ERVL-MaLR	13402.0	NM_145457	218693.0	Mm.490243	NM_145457	ENSMUSG00000025451	Paip1	PAIP-1	polyadenylate binding protein-interacting protein 1	protein-coding	10.0	5.0	7.0	61.0	12.5	7.0	4.0	6.0
Merged-chr16-87575908-2	chr16	87575828	87576028	+	701.25	f0_balb.idr|f1_c57bl6.idr	intron (NM_144854, intron 3 of 4)	intron (NM_144854, intron 3 of 4)	22598.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	10.5	9.0	7.5	103.5	1.5	0.5	5.5	2.0
Merged-chr9-108342524-4	chr9	108342418	108342618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3438.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	174.0	245.5	158.5	2132.0	400.5	174.5	171.5	227.5
Merged-chr1-151035140-4	chr1	151035053	151035253	+	799.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41718.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	10.5	2.5	2.0	111.5	33.0	8.0	11.0	11.5
Merged-chr7-24364992-4	chr7	24364893	24365093	+	908.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5270.0	NM_001163510	16534.0	Mm.9911	NM_008433	ENSMUSG00000054342	Kcnn4	IK1|IKCA1|KCA4|KCa3.1|SK4|SKCas|mIKCa1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	protein-coding	11.5	12.5	9.5	142.0	37.0	12.5	10.0	22.5
Merged-chr6-134016435-4	chr6	134016309	134016509	+	787.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-19291.0	NM_001303102	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	11.0	13.0	2.5	35.5	23.5	18.0	6.5	7.0
Merged-chr3-95263417-4	chr3	95263318	95263518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173347, intron 4 of 7)	intron (NM_173347, intron 4 of 7)	-12225.0	NM_134253	171388.0	Mm.331209	NM_134253	ENSMUSG00000028115	Bnipl	1700128A13Rik|BNIP-S|BNIPL1|BNIPL2|PP73|PP753	BCL2/adenovirus E1B 19kD interacting protein like	protein-coding	33.0	59.5	45.5	738.0	89.5	32.5	48.5	51.5
Merged-chr18-61638124-4	chr18	61638000	61638200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1553.0	NR_045420	545261.0	Mm.426593	NR_045420	ENSMUSG00000098098	Bvht	Braveheart|Gm20748	braveheart long non-coding RNA	ncRNA	42.5	82.5	30.5	568.0	123.0	54.0	40.5	44.0
Merged-chr4-120925042-4	chr4	120924947	120925147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160043)	promoter-TSS (NM_001160043)	-42.0	NM_001160043	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	67.0	111.5	52.5	850.0	206.5	91.0	81.5	63.0
Merged-chr3-137865751-4	chr3	137865658	137865858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316995, intron 3 of 4)	CpG-9623	1271.0	NM_016750	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	94.0	138.5	50.5	855.5	199.5	100.5	103.5	64.0
Merged-chr18-6136099-4	chr18	6135996	6136196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029277)	promoter-TSS (NM_029277)	2.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	215.0	299.5	191.5	2273.5	475.5	214.0	173.5	174.0
Merged-chr15-100599529-4	chr15	100599432	100599632	+	949.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304965, intron 1 of 10)	CpG	452.0	NM_001304965	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	20.5	12.0	6.5	128.0	32.0	6.5	14.5	20.5
Merged-chr13-97559091-4	chr13	97558976	97559176	+	946.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046157)	promoter-TSS (NR_046157)	-924.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	21.5	43.5	9.5	339.5	58.0	16.5	10.0	17.5
Merged-chr19-16599526-2	chr19	16599426	16599626	+	733.200012	f1_balb.idr|f1_c57bl6.idr	intron (NM_008137, intron 3 of 6)	intron (NM_008137, intron 3 of 6)	163859.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	8.0	8.5	7.0	29.0	20.0	5.0	3.5	7.0
Merged-chr17-71003392-2	chr17	71003292	71003492	+	861.625	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026064)	promoter-TSS (NM_026064)	-859.0	NM_026064	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	4.5	2.5	3.0	42.5	16.0	5.5	4.5	9.0
Merged-chr6-65141123-3	chr6	65141034	65141234	+	927.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 1 of 5)	intron (NM_019455, intron 1 of 5)	3596.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	5.0	8.0	9.5	207.5	19.0	2.5	7.0	4.0
Merged-chr1-136018031-4	chr1	136017924	136018124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160146)	promoter-TSS (NM_001160146)	23.0	NM_025439	66241.0	Mm.41773	NM_025439	ENSMUSG00000026411	Tmem9	1500015G18Rik|AW545782	transmembrane protein 9	protein-coding	44.5	79.0	39.5	567.0	86.5	32.5	52.0	25.0
Merged-chr4-135918988-7	chr4	135918886	135919086	+	999.4127199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009924, exon 2 of 2)	3' UTR (NM_009924, exon 2 of 2)	-1740.0	NM_024243	71665.0	Mm.439940	NM_024243	ENSMUSG00000028673	Fuca1	0610006A03Rik|9530055J05Rik|Afuc|Fuca	fucosidase, alpha-L- 1, tissue	protein-coding	15.0	13.5	19.0	253.5	55.5	22.0	8.0	24.0
Merged-chr3-54358573-4	chr3	54358460	54358660	+	908.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2547.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	10.0	16.0	9.0	116.0	11.0	7.5	17.0	14.0
Merged-chr17-34605808-4	chr17	34605719	34605919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163379)	promoter-TSS (NM_001163379)	-42.0	NM_001163379	55979.0	Mm.8684	NM_018862	ENSMUSG00000034254	Agpat1	1-AGP|1-AGPAT|AW047140	1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha)	protein-coding	67.5	104.0	46.5	564.5	204.0	59.5	82.0	63.5
Merged-chr15-38710971-4	chr15	38710860	38711060	+	952.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17556.0	NR_131206	105463124.0	Mm.432448	NR_131206	ENSMUSG00000115620	Gm45924	Borg	predicted gene, 45924	ncRNA	20.0	21.0	46.0	688.0	58.0	12.0	43.0	50.0
Merged-chr6-83838398-4	chr6	83838291	83838491	+	773.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-6650.0	NM_146169	232164.0	Mm.404420	NM_146169	ENSMUSG00000045896	Paip2b	-	poly(A) binding protein interacting protein 2B	protein-coding	12.0	17.5	8.0	77.5	35.0	9.0	13.0	7.0
Merged-chr5-135806815-4	chr5	135806709	135806909	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11297.0	NM_021403	58212.0	Mm.271230	NM_021403	ENSMUSG00000039860	Srrm3	2900083I11Rik|AB041661|SRm300-like|Srrm2l	serine/arginine repetitive matrix 3	protein-coding	20.5	28.0	13.0	168.0	62.5	24.0	22.5	32.0
Merged-chr7-135914125-1	chr7	135914025	135914225	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-197746.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	16.0	32.0	9.5	210.0	34.5	17.0	10.0	18.0
Merged-chr4-115848211-4	chr4	115848080	115848280	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285487, intron 2 of 14)	intron (NM_001285487, intron 2 of 14)	8982.0	NM_001355174	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	9.0	10.5	10.0	131.5	48.0	5.0	13.0	25.0
Merged-chr15-97884409-4	chr15	97884297	97884497	+	903.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009504, intron 3 of 9)	intron (NM_009504, intron 3 of 9)	23899.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	14.0	21.5	13.0	131.0	40.5	14.0	26.5	21.0
Merged-chr5-115273989-3	chr5	115273861	115274061	+	833.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-1066.0	NM_001302449	50849.0	Mm.30051	NM_016698	ENSMUSG00000041740	Rnf10	AA675014|RIE2|mKIAA0262	ring finger protein 10	protein-coding	11.0	9.5	9.5	92.5	5.0	5.0	4.5	1.5
Merged-chr2-84715333-4	chr2	84715233	84715433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144887)	promoter-TSS (NM_144887)	-169.0	NM_144887	228136.0	Mm.288508	NM_144887	ENSMUSG00000034075	Zdhhc5	1110032A17Rik|AI451382|Zisp	zinc finger, DHHC domain containing 5	protein-coding	274.0	381.0	249.5	3701.5	623.0	206.0	283.5	183.0
Merged-chr5-99237347-4	chr5	99237222	99237422	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145839, intron 4 of 13)	intron (NM_145839, intron 4 of 13)	15605.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	17.0	47.0	13.5	256.5	43.5	18.5	17.5	24.5
Merged-chr17-28518199-4	chr17	28518098	28518298	+	904.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12663.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	48.0	15.5	21.5	619.0	20.0	18.5	14.0	16.5
Merged-chr7-35145283-3	chr7	35145171	35145371	+	902.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25978.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	13.0	12.0	9.5	272.0	20.5	6.5	11.0	9.0
Merged-chr10-82858651-4	chr10	82858568	82858768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015762)	promoter-TSS (NM_015762)	-538.0	NM_001042513	50493.0	Mm.210155	NM_015762	ENSMUSG00000020250	Txnrd1	TR|TR1|TrxR1	thioredoxin reductase 1	protein-coding	72.5	129.5	90.0	716.5	225.5	97.0	90.0	68.0
Merged-chr4-101692996-4	chr4	101692905	101693105	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24402.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	64.5	22.0	45.0	725.0	59.5	32.0	35.0	29.5
Merged-chr6-17640952-4	chr6	17640861	17641061	+	860.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	intron (NM_007604, intron 1 of 9)	3951.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	4.5	9.5	9.5	123.5	25.5	5.0	18.5	19.0
Merged-chr12-84847684-4	chr12	84847602	84847802	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 3 of 34)	intron (NM_013589, intron 3 of 34)	-28100.0	NR_028577	100303738.0	Mm.479389	NR_028577	ENSMUSG00000092130	D030025P21Rik	-	RIKEN cDNA D030025P21 gene	ncRNA	23.5	53.0	43.5	250.0	47.0	19.5	23.0	18.5
Merged-chr5-142960351-3	chr5	142960260	142960460	+	660.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007984)	promoter-TSS (NM_007984)	5.0	NM_007984	14086.0	Mm.289707	NM_007984	ENSMUSG00000029581	Fscn1	AI663989|Fan1|fascin-1	fascin actin-bundling protein 1	protein-coding	8.5	6.5	8.5	146.0	17.5	6.0	6.5	6.0
Merged-chr5-32854335-4	chr5	32854230	32854430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194340)	promoter-TSS (NM_194340)	-100.0	NM_194340	215476.0	Mm.248721	NM_194340	ENSMUSG00000054280	Prr14l	6030436E02Rik|C330019G07Rik|Prl14l	proline rich 14-like	protein-coding	82.5	182.5	102.5	1272.5	275.5	101.0	103.5	104.5
Merged-chr3-126695538-4	chr3	126695439	126695639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 3 of 18)	intron (NM_001025438, intron 3 of 18)	98588.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	33.5	46.0	45.5	1150.5	138.5	46.0	65.0	82.5
Merged-chr13-13415615-3	chr13	13415516	13415716	+	917.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21986.0	NM_010917	18073.0	Mm.4691	NM_010917	ENSMUSG00000005397	Nid1	A630025O17|Nid|entactin|entactin-1|nidogen-1	nidogen 1	protein-coding	13.0	9.5	11.0	198.0	51.5	8.5	7.0	8.5
Merged-chr14-65781747-3	chr14	65781652	65781852	+	700.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-24159.0	NM_023209	52033.0	Mm.24337	NM_023209	ENSMUSG00000022033	Pbk	2810434B10Rik|AW538537|D14Ertd732e|TOPK	PDZ binding kinase	protein-coding	8.5	5.0	7.5	146.5	2.5	0.0	2.0	6.0
Merged-chr7-43668829-3	chr7	43668716	43668916	+	955.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-3215.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	5.0	13.5	3.0	63.5	32.0	15.5	14.5	13.0
Merged-chr15-99139773-2	chr15	99139673	99139873	+	924.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_139140, intron 1 of 12)	intron (NM_139140, intron 1 of 12)	12928.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	1.5	4.0	2.5	62.0	18.0	10.5	4.5	7.5
Merged-chr7-29231625-4	chr7	29231527	29231727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033525, intron 1 of 2)	intron (NM_001033525, intron 1 of 2)	895.0	NM_001033525	52150.0	Mm.24877	NM_001033525	ENSMUSG00000046410	Kcnk6	D7Ertd764e|Toss|Twik2	potassium inwardly-rectifying channel, subfamily K, member 6	protein-coding	23.0	44.5	42.5	622.5	58.0	11.0	31.0	28.5
Merged-chr4-132167644-4	chr4	132167548	132167748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23162.0	NM_013622	18386.0	Mm.5243	NM_013622	ENSMUSG00000050511	Oprd1	DOR|DOR-1|Nbor|mDOR	opioid receptor, delta 1	protein-coding	33.0	42.5	32.0	533.5	102.0	62.5	50.5	44.5
Merged-chr5-113636494-4	chr5	113636398	113636598	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	7105.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	8.0	14.0	12.0	174.0	39.5	16.0	10.0	6.0
Merged-chr5-123080318-4	chr5	123080237	123080437	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039723, intron 1 of 11)	intron (NM_001039723, intron 1 of 11)	4062.0	NM_001039723	330189.0	Mm.391872	NM_001039723	ENSMUSG00000054434	Tmem120b	-	transmembrane protein 120B	protein-coding	33.0	38.5	14.0	467.0	75.5	24.0	26.5	27.5
Merged-chr10-84571305-4	chr10	84571211	84571411	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5636.0	NM_146008	216198.0	Mm.296142	NM_146008	ENSMUSG00000020034	Tcp11l2	E430026E19Rik	t-complex 11 (mouse) like 2	protein-coding	32.5	17.5	20.5	424.0	85.5	33.5	38.5	36.0
Merged-chr7-99089098-4	chr7	99089007	99089207	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 4 of 14)	intron (NM_178635, intron 4 of 14)	52037.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	39.5	61.0	36.5	526.5	60.0	21.0	16.5	24.5
Merged-chr2-79653733-4	chr2	79653637	79653837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080558, intron 9 of 17)	intron (NM_080558, intron 9 of 17)	18312.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	107.5	66.5	143.5	2396.0	233.5	67.0	142.5	146.0
Merged-chr11-3452375-4	chr11	3452266	3452466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028317)	promoter-TSS (NR_028317)	-71.0	NR_028317	71523.0	Mm.72795	NM_027820	ENSMUSG00000034587	8430429K09Rik	-	RIKEN cDNA 8430429K09 gene	ncRNA	154.0	267.0	122.5	2264.0	450.0	151.5	183.0	156.0
Merged-chr14-33447294-4	chr14	33447186	33447386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016700)	promoter-TSS (NM_016700)	-128.0	NM_016700	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	218.5	349.0	262.0	2698.0	714.0	259.5	327.5	205.0
Merged-chr4-138041743-4	chr4	138041638	138041838	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	43913.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	53.5	69.5	49.0	726.0	67.5	14.0	27.0	24.0
Merged-chr8-11450882-3	chr8	11450802	11451002	+	877.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27027.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	6.5	9.5	5.5	152.0	28.5	3.0	7.5	8.5
Merged-chr3-10351424-4	chr3	10351308	10351508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331015)	promoter-TSS (NM_001331015)	-91.0	NM_001331014	66361.0	Mm.371617	NM_025512	ENSMUSG00000039795	Zfand1	2310008M20Rik|AW048890	zinc finger, AN1-type domain 1	protein-coding	236.5	386.5	336.0	3684.5	646.5	193.5	341.0	232.0
Merged-chr7-126725853-4	chr7	126725752	126725952	+	955.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-21036.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	22.0	26.0	9.0	303.5	40.5	17.0	7.0	19.0
Merged-chr3-101800595-3	chr3	101800507	101800707	+	806.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35616.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	8.0	9.0	7.5	75.0	19.5	4.5	8.5	6.5
Merged-chr2-18892941-3	chr2	18892832	18893032	+	842.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 3 of 9)	intron (NM_008845, intron 3 of 9)	-91114.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	4.5	13.5	2.5	140.5	15.0	6.5	5.5	7.0
Merged-chr17-6001570-4	chr17	6001470	6001670	+	984.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357667, intron 4 of 24)	intron (NM_001357667, intron 4 of 24)	-6010.0	NM_001290698	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	20.5	33.0	21.5	340.5	31.0	19.5	16.5	17.5
Merged-chr15-64278970-4	chr15	64278873	64279073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	33700.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	36.5	55.5	33.5	615.5	67.5	34.5	32.5	48.0
Merged-chr18-9828162-3	chr18	9828058	9828258	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	120510.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	26.0	26.0	36.0	556.5	5.5	5.5	5.5	2.0
Merged-chr10-8505807-4	chr10	8505708	8505908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 1 of 7)	intron (NM_177387, intron 1 of 7)	13017.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	32.5	43.0	22.0	430.0	60.0	28.0	30.0	25.5
Merged-chr5-53591229-4	chr5	53591169	53591369	+	872.9208369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359152, intron 1 of 9)	intron (NM_001359152, intron 1 of 9)	783.0	NM_001080927	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	6.5	11.0	6.0	79.0	19.0	11.0	13.0	20.5
Merged-chr1-39636362-3	chr1	39636257	39636457	+	911.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170597, intron 2 of 3)	intron (NM_170597, intron 2 of 3)	14825.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	11.0	8.5	9.0	146.0	11.5	4.5	5.0	6.5
Merged-chr10-26374239-4	chr10	26374207	26374407	+	964.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347467)	promoter-TSS (NM_001347467)	-235.0	NM_001359254	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	19.5	14.5	27.5	233.0	28.5	18.0	10.0	11.0
Merged-chr7-79721535-4	chr7	79721432	79721632	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001113471, exon 9 of 9)	exon (NM_001113471, exon 9 of 9)	-7346.0	NM_001291222	16576.0	Mm.101633	NM_010626	ENSMUSG00000050382	Kif7	-	kinesin family member 7	protein-coding	18.5	20.0	17.0	210.5	19.5	17.0	20.5	19.5
Merged-chr9-63757159-5	chr9	63757120	63757320	+	822.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	CpG	774.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	5.5	4.5	9.0	18.5	8.5	5.0	5.0	7.5
Merged-chr17-65608951-4	chr17	65608848	65609048	+	972.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355402, intron 1 of 6)	Lx8|LINE|L1	4607.0	NM_001355402	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	16.5	19.5	27.5	288.0	44.5	15.5	9.5	24.5
Merged-chr2-70977785-4	chr2	70977692	70977892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 5 of 9)	intron (NM_145524, intron 5 of 9)	40582.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	61.0	68.0	87.0	1392.0	117.5	52.5	56.5	83.5
Merged-chr15-25392632-4	chr15	25392526	25392726	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	L1MC1|LINE|L1	21138.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	26.0	34.0	27.5	239.5	51.0	13.0	20.0	31.5
Merged-chr5-105868810-2	chr5	105868710	105868910	+	868.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7758.0	NR_030777	54367.0	Mm.248876	NM_018759	ENSMUSG00000029290	Zfp326	5730470H14Rik|ZAN75|Znf326	zinc finger protein 326	protein-coding	2.0	6.0	5.0	23.5	12.5	11.0	7.0	6.0
Merged-chr1-64933214-4	chr1	64933162	64933362	+	888.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	intron (NM_001039493, intron 2 of 7)	23562.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	13.5	16.0	16.0	162.0	16.0	7.0	10.0	14.5
Merged-chr11-100714736-3	chr11	100714646	100714846	+	884.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029307)	TTS (NM_029307)	896.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	9.0	10.5	1.0	50.0	23.0	5.0	9.0	12.5
Merged-chr11-95844903-4	chr11	95844802	95845002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023121, intron 2 of 3)	intron (NM_023121, intron 2 of 3)	1657.0	NM_001284397	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	32.0	28.5	49.5	365.5	57.5	19.5	30.5	30.0
Merged-chr8-91313401-4	chr8	91313307	91313507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173431)	promoter-TSS (NM_173431)	-118.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	377.5	608.5	495.5	7859.0	918.0	329.5	500.0	392.0
Merged-chr2-57117757-4	chr2	57117649	57117849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 1 of 7)	intron (NM_001139509, intron 1 of 7)	-2711.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	20.0	37.5	22.0	338.0	61.0	22.0	48.5	23.5
Merged-chr4-21847577-4	chr4	21847479	21847679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025669)	promoter-TSS (NM_025669)	-4.0	NM_025669	66625.0	Mm.100117	NM_025669	ENSMUSG00000028248	Pnisr	5730406M06Rik|AA673174|Pinsr|Sfrs18|Srsf18	PNN interacting serine/arginine-rich	protein-coding	47.5	48.5	30.5	573.5	129.0	47.5	74.5	50.5
Merged-chr13-114460806-3	chr13	114460721	114460921	+	649.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1870.0	NM_008046	14313.0	Mm.4913	NM_008046	ENSMUSG00000021765	Fst	AL033346|FS	follistatin	protein-coding	2.5	11.0	3.0	97.0	12.5	7.0	9.5	7.5
Merged-chr14-84444442-3	chr14	84444356	84444556	+	826.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013753, exon 1 of 4)	5' UTR (NM_001013753, exon 1 of 4)	893.0	NM_001013753	219228.0	Mm.153643	NM_001013753	ENSMUSG00000035566	Pcdh17	C030033F14Rik|Gm78	protocadherin 17	protein-coding	7.0	6.5	9.5	85.5	5.5	1.5	1.5	11.0
Merged-chr12-84009870-2	chr12	84009770	84009970	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_012006, exon 1 of 3)	exon (NM_012006, exon 1 of 3)	368.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	11.5	13.0	7.0	72.0	29.0	7.5	9.0	8.5
Merged-chr3-95283461-3	chr3	95283362	95283562	+	899.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_199475, exon 1 of 10)	5' UTR (NM_199475, exon 1 of 10)	527.0	NM_199475	75007.0	Mm.279287	NM_133858	ENSMUSG00000038712	Mindy1	1810005H09Rik|4930504E06Rik|AA562754|AA960384|AW561904|Fam63a|cI-40|mKIAA1390|ni	MINDY lysine 48 deubiquitinase 1	protein-coding	15.0	20.0	11.0	190.5	35.5	15.5	12.5	21.5
Merged-chr3-31139229-4	chr3	31139115	31139315	+	816.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10705.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	7.5	11.0	4.0	101.0	30.0	20.0	10.0	7.0
Merged-chr6-29768328-4	chr6	29768214	29768414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021414)	promoter-TSS (NM_021414)	-129.0	NM_021414	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	215.5	397.0	196.0	2926.0	496.0	152.5	247.5	218.0
Merged-chr10-20663171-4	chr10	20663095	20663295	+	941.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	intron (NM_013875, intron 1 of 12)	61883.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	15.5	10.5	10.0	314.0	28.0	3.5	17.5	8.5
Merged-chr11-79291386-4	chr11	79291299	79291499	+	906.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-36704.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	22.5	18.5	6.0	131.0	36.0	13.5	11.0	10.5
Merged-chr13-23575274-2	chr13	23575174	23575374	+	743.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178204)	promoter-TSS (NM_178204)	-489.0	NM_178204	319149.0	Mm.347699	NM_178204	ENSMUSG00000099583	Hist1h3d	H3-b	histone cluster 1, H3d	protein-coding	3.5	8.0	4.5	33.5	29.5	10.5	7.0	9.0
Merged-chr10-13300765-1	chr10	13300665	13300865	+	1000.0	f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	23524.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	17.5	41.5	14.5	191.0	49.0	26.0	23.0	13.0
Merged-chr7-131362812-4	chr7	131362699	131362899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026655)	promoter-TSS (NM_026655)	-73.0	NR_152380	68277.0	Mm.121122	NM_026655	ENSMUSG00000040177	2310057M21Rik	3110040E10Rik|AI429544	RIKEN cDNA 2310057M21 gene	protein-coding	71.0	69.5	46.5	1050.0	133.0	54.0	80.5	47.5
Merged-chr4-119540451-4	chr4	119540367	119540567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290696, intron 1 of 11)	intron (NM_001290696, intron 1 of 11)	806.0	NM_172699	230700.0	Mm.259227	NM_172699	ENSMUSG00000032998	Foxj3	C330039G02Rik|Fhd6	forkhead box J3	protein-coding	29.0	43.5	14.5	400.5	93.0	39.0	27.0	46.0
Merged-chr2-153239213-4	chr2	153239120	153239320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018807, intron 1 of 2)	intron (NM_018807, intron 1 of 2)	2138.0	NM_018807	54711.0	Mm.103199	NM_018807	ENSMUSG00000051413	Plagl2	AU018672|AW552839|mKIAA0198	pleiomorphic adenoma gene-like 2	protein-coding	47.5	93.5	53.0	591.5	87.0	45.0	34.5	41.0
Merged-chr2-69884029-2	chr2	69883964	69884164	+	800.25	f1_balb.idr|f1_c57bl6.idr	intron (NR_110977, intron 1 of 5)	B2_Mm2|SINE|B2	1551.0	NM_029280	75422.0	Mm.10508	NM_029280	ENSMUSG00000051730	Mettl5	2810410A08Rik	methyltransferase like 5	protein-coding	9.0	10.5	8.0	11.5	20.0	12.5	7.0	12.0
Merged-chr11-59578357-3	chr11	59578297	59578497	+	894.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6659.0	NM_001011789	257962.0	Mm.377316	NM_001011789	ENSMUSG00000059610	Olfr222	MOR256-45P	olfactory receptor 222	protein-coding	13.5	5.5	5.0	88.5	12.0	7.0	5.0	6.5
Merged-chr7-6357741-3	chr7	6357640	6357840	+	854.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-5568.0	NM_001025163	330463.0	Mm.136456	NM_177888	ENSMUSG00000055150	Zfp78	A330079D15|KRAB12|Zfp77	zinc finger protein 78	protein-coding	5.5	14.0	6.0	48.0	17.5	3.0	11.5	11.0
Merged-chr7-143295657-6	chr7	143295501	143295701	+	775.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_001461, exon 1 of 1)	non-coding (NR_001461, exon 1 of 1)	946.0	NR_001461	63830.0	Mm.356096	NR_001461	ENSMUSG00000101609	Kcnq1ot1	Kvlqt1-as|Lit1|Tssc8	KCNQ1 overlapping transcript 1	ncRNA	8.0	13.0	11.5	59.0	28.5	2.0	10.0	11.0
Merged-chr10-17775690-2	chr10	17775590	17775790	+	916.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20529.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	8.5	23.0	4.5	21.5	10.5	2.0	4.0	6.0
Merged-chr11-117881122-4	chr11	117881029	117881229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7603.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	42.5	41.0	57.5	971.0	67.0	21.0	27.5	44.0
Merged-chr3-100160799-4	chr3	100160666	100160866	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175552, intron 2 of 26)	intron (NM_175552, intron 2 of 26)	1641.0	NM_175552	269470.0	Mm.24591	NM_175552	ENSMUSG00000033285	Wdr3	AW546279|D030020G18Rik	WD repeat domain 3	protein-coding	23.0	31.0	44.5	405.5	48.0	12.0	11.0	14.0
Merged-chr10-81433061-4	chr10	81432952	81433152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5879.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	137.5	203.0	97.5	2107.0	334.0	132.5	215.0	144.0
Merged-chr12-32724662-4	chr12	32724548	32724748	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95687.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	33.0	59.0	37.0	550.5	72.0	15.5	24.5	36.0
Merged-chr6-83634810-3	chr6	83634712	83634912	+	885.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21304.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	17.0	10.0	7.0	126.0	10.5	6.5	5.5	7.0
Merged-chr6-48829820-4	chr6	48829711	48829911	+	880.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11177.0	NM_023056	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	20.0	25.5	13.5	112.0	29.0	9.5	16.0	7.0
Merged-chr16-85133668-4	chr16	85133601	85133801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	40006.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	87.5	170.0	102.0	1145.5	232.5	85.5	132.5	42.5
Merged-chr1-134801964-4	chr1	134801849	134802049	+	836.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081307, intron 18 of 23)	intron (NM_001081307, intron 18 of 23)	1772.0	NR_015606	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	16.5	12.0	7.5	257.5	27.0	7.5	7.5	7.0
Merged-chr10-85002216-3	chr10	85002109	85002309	+	758.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183172, intron 9 of 9)	intron (NM_183172, intron 9 of 9)	84596.0	NM_183172	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	13.5	5.0	21.0	179.5	8.5	2.5	7.5	7.5
Merged-chr8-111536045-2	chr8	111535945	111536145	+	733.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168621)	promoter-TSS (NM_001168621)	-595.0	NM_001168622	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	7.5	8.5	4.5	61.5	21.5	6.0	21.0	6.5
Merged-chr11-121793707-4	chr11	121793614	121793814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-36504.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	52.0	96.5	35.5	409.0	66.0	40.5	30.5	10.5
Merged-chr9-120826400-3	chr9	120826264	120826464	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88886.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	90.0	112.0	67.0	1002.5	2.5	2.0	0.0	0.5
Merged-chr8-86881411-4	chr8	86881303	86881503	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	3855.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	44.0	42.0	22.5	311.5	79.0	40.5	25.5	14.0
Merged-chr13-75794368-4	chr13	75794259	75794459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45526.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	99.5	127.0	60.5	616.5	177.0	102.0	79.5	54.0
Merged-chr10-42269552-4	chr10	42269464	42269664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	7178.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	30.0	96.5	85.5	1313.0	112.5	36.5	46.5	41.0
Merged-chr17-48337048-4	chr17	48336946	48337146	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9355.0	NM_031254	83433.0	Mm.261623	NM_031254	ENSMUSG00000023992	Trem2	TREM-2|Trem2a|Trem2b|Trem2c	triggering receptor expressed on myeloid cells 2	protein-coding	10.5	32.0	8.0	284.5	67.0	23.0	34.0	29.0
Merged-chr2-152709274-4	chr2	152709175	152709375	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001159551)	TTS (NM_001159551)	22127.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	27.0	29.5	20.0	397.0	68.0	14.0	33.0	34.0
Merged-chr15-6360349-3	chr15	6360256	6360456	+	927.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	-26392.0	NM_023118	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	7.5	17.0	5.0	129.5	18.5	8.0	11.0	8.0
Merged-chr16-57550319-4	chr16	57550203	57550403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	1061.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	93.5	134.5	73.0	1270.5	249.5	91.0	97.0	81.5
Merged-chr4-126114203-4	chr4	126114110	126114310	+	851.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 1 of 10)	intron (NM_028800, intron 1 of 10)	10253.0	NM_001145827	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	9.0	17.5	3.5	80.5	26.0	20.5	27.0	16.0
Merged-chr17-70968371-4	chr17	70968257	70968457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22159.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	16.0	32.5	20.5	311.5	51.0	28.0	18.0	26.0
Merged-chr18-3507864-4	chr18	3507800	3508000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026505)	promoter-TSS (NM_026505)	-57.0	NM_026505	68010.0	Mm.284863	NM_026505	ENSMUSG00000024232	Bambi	2610003H06Rik	BMP and activin membrane-bound inhibitor	protein-coding	319.5	439.5	358.0	6217.5	746.5	279.0	456.0	251.0
Merged-chr8-68117709-4	chr8	68117612	68117812	+	683.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143138.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	5.0	13.0	9.5	118.5	18.5	4.5	8.5	12.0
Merged-chr8-94397474-4	chr8	94397362	94397562	+	874.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	11033.0	NM_022331	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	6.0	30.5	3.0	103.0	32.5	9.5	12.0	23.5
Merged-chr17-6008038-6	chr17	6007950	6008150	+	824.972229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001113351, exon 7 of 25)	exon (NM_001113351, exon 7 of 25)	470.0	NM_001290698	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	16.0	3.5	7.0	114.5	12.5	6.0	5.5	12.5
Merged-chr11-115612939-4	chr11	115612835	115613035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243586)	promoter-TSS (NM_001243586)	34.0	NM_001243584	69674.0	Mm.390387	NM_027162	ENSMUSG00000020743	Mif4gd	1110014L05Rik|2310075G12Rik	MIF4G domain containing	protein-coding	29.0	44.0	15.0	202.0	76.5	34.0	24.5	31.5
Merged-chr13-24613626-2	chr13	24613526	24613726	+	681.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286101)	promoter-TSS (NM_001286101)	-980.0	NM_001286101	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	10.0	11.5	7.5	80.0	19.0	5.5	11.5	5.0
Merged-chr14-64186018-4	chr14	64185931	64186131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 4 of 4)	AmnSINE1|SINE|Deu	81708.0	NM_028525	73382.0	Mm.481055	NM_028525	ENSMUSG00000021966	Prss52	1700049K14Rik|Tesp3	protease, serine 52	protein-coding	84.5	148.5	110.5	1672.0	241.5	83.5	88.0	76.5
Merged-chr2-155369717-4	chr2	155369617	155369817	+	914.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-12139.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	19.5	14.0	23.0	258.0	42.5	18.0	22.5	26.5
Merged-chr19-47538988-4	chr19	47538892	47539092	+	937.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67A|LTR|ERV1	-1873.0	NM_175360	108689.0	Mm.218048	NM_175360	ENSMUSG00000042694	Stn1	0610009H20Rik|2310057J23Rik|AAF-44|AAF44|AI413458|Obfc1|RPA-32	STN1, CST complex subunit	protein-coding	22.5	36.0	14.5	255.5	59.5	19.0	14.5	12.0
Merged-chr3-88454889-4	chr3	88454779	88454979	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163489, intron 1 of 14)	intron (NM_001163489, intron 1 of 14)	882.0	NM_013658	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	16.5	42.5	17.5	239.0	74.5	22.5	30.0	39.5
Merged-chr17-85393232-3	chr17	85393128	85393328	+	755.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028576, intron 4 of 10)	intron (NM_028576, intron 4 of 10)	225168.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	5.0	10.0	4.5	112.5	18.5	5.0	4.0	5.5
Merged-chr5-117414091-4	chr5	117413857	117414057	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312914)	promoter-TSS (NM_001312914)	-45.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	15.0	6.0	10.0	75.0	27.5	8.5	15.0	11.0
Merged-chr10-33951296-4	chr10	33951248	33951448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153113)	promoter-TSS (NR_153113)	-89.0	NR_153113	72580.0	Mm.248081	NM_028287	ENSMUSG00000039531	Zufsp	2700019D07Rik	zinc finger with UFM1-specific peptidase domain	protein-coding	70.5	161.5	76.5	1308.5	247.0	86.0	105.5	93.5
Merged-chr2-166676649-4	chr2	166676557	166676757	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	37175.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	4.5	15.5	13.5	228.0	74.0	14.0	11.5	20.5
Merged-chr2-30603982-2	chr2	30603882	30604082	+	966.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_030137, intron 1 of 1)	intron (NM_030137, intron 1 of 1)	8938.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	5.5	4.0	4.0	59.0	8.0	9.0	8.0	5.0
Merged-chr18-56467356-4	chr18	56467281	56467481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	35249.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	17.0	30.0	20.0	500.0	75.0	25.0	26.0	43.0
Merged-chr12-38904674-4	chr12	38904568	38904768	+	847.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	120957.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	15.0	18.5	20.5	501.5	18.5	9.0	14.5	8.5
Merged-chr12-80109850-3	chr12	80109774	80109974	+	858.714294	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007564, exon 2 of 2)	exon (NM_007564, exon 2 of 2)	3139.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	21.0	10.5	2.5	22.0	16.0	13.0	4.5	18.5
Merged-chr12-32163849-4	chr12	32163730	32163930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44508.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	82.5	101.5	87.5	1424.0	215.5	69.0	129.5	160.5
Merged-chr2-68879811-4	chr2	68879702	68879902	+	932.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	(TG)n|Simple_repeat|Simple_repeat	18361.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	22.5	24.0	9.5	214.5	63.5	10.0	14.5	33.0
Merged-chr8-119358966-2	chr8	119358866	119359066	+	854.2000119999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14428.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	8.0	9.0	7.0	57.0	16.0	3.0	5.0	5.5
Merged-chr13-59557382-4	chr13	59557287	59557487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284218)	promoter-TSS (NM_001284218)	-40.0	NM_023328	67269.0	Mm.153008	NM_023328	ENSMUSG00000021557	Agtpbp1	1700020N17Rik|2310001G17Rik|2900054O13Rik|4930445M19Rik|5730402G09Rik|CCP1|Nna1|nmf243|pcd	ATP/GTP binding protein 1	protein-coding	63.0	75.5	57.5	805.0	273.0	72.0	107.0	99.5
Merged-chr4-6357587-4	chr4	6357474	6357674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8106.0	NM_016807	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	92.5	170.5	96.0	1491.5	270.0	99.5	130.5	86.0
Merged-chr9-109046449-4	chr9	109046340	109046540	+	832.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357932, intron 2 of 5)	(CCTG)n|Simple_repeat|Simple_repeat	-4656.0	NM_001357935	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	8.0	18.5	13.5	40.5	27.0	19.0	12.0	12.5
Merged-chr15-59646396-3	chr15	59646297	59646497	+	855.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2257.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	8.0	10.5	0.5	65.5	22.0	7.5	7.5	9.0
Merged-chr14-121455729-3	chr14	121455624	121455824	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49530.0	NM_053079	56643.0	Mm.155618	NM_053079	ENSMUSG00000025557	Slc15a1	D630032F02|PECT1|PEPT1	solute carrier family 15 (oligopeptide transporter), member 1	protein-coding	3.0	5.5	15.0	111.5	23.0	8.5	16.5	7.0
Merged-chr18-39619503-4	chr18	39619408	39619608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132263.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	75.5	145.0	98.0	981.0	211.5	100.5	69.5	48.5
Merged-chr5-147871672-4	chr5	147871562	147871762	+	952.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025624, intron 4 of 5)	intron (NM_025624, intron 4 of 5)	11034.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	13.0	13.5	27.0	523.5	62.0	13.5	21.5	28.5
Merged-chr8-79374591-4	chr8	79374499	79374699	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	24869.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	14.5	20.5	29.5	520.5	49.5	9.5	33.0	31.5
Merged-chr11-106751655-4	chr11	106751562	106751762	+	863.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271372, exon 2 of 7)	exon (NM_001271372, exon 2 of 7)	436.0	NM_001033435	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	18.5	17.0	14.5	190.0	58.0	10.5	5.5	11.5
Merged-chr2-156967325-6	chr2	156967224	156967424	+	819.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355394, intron 1 of 15)	intron (NM_001355394, intron 1 of 15)	24379.0	NM_001355391	29812.0	Mm.279256	NM_013865	ENSMUSG00000027634	Ndrg3	4833415O14Rik|AI747193|Ndr3	N-myc downstream regulated gene 3	protein-coding	11.0	25.0	5.0	78.5	17.5	11.5	8.0	7.0
Merged-chr19-40638743-4	chr19	40638641	40638841	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-21029.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	32.0	24.5	32.0	526.5	39.5	12.5	28.0	22.0
Merged-chr10-62602206-5	chr10	62602087	62602287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019553, exon 1 of 15)	exon (NM_019553, exon 1 of 15)	111.0	NM_019553	56200.0	Mm.413275	NM_019553	ENSMUSG00000020075	Ddx21	AI255159|AL022742|D10Ertd645e|D10Wsu42e	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	protein-coding	59.5	111.0	87.0	855.5	171.0	106.0	85.5	66.0
Merged-chr16-16983336-4	chr16	16983238	16983438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011949)	promoter-TSS (NM_011949)	-44.0	NM_001357115	26413.0	Mm.196581	NM_011949	ENSMUSG00000063358	Mapk1	9030612K14Rik|AA407128|AU018647|C78273|ERK|Erk2|MAPK2|PRKM2|Prkm1|p41mapk|p42mapk	mitogen-activated protein kinase 1	protein-coding	100.0	170.5	76.0	1447.5	255.0	73.5	109.0	99.5
Merged-chr6-124273395-4	chr6	124273289	124273489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31262.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	161.0	152.5	184.0	1621.0	172.5	98.0	119.0	84.0
Merged-chr18-75262700-8	chr18	75262605	75262805	+	906.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027727, intron 16 of 16)	intron (NM_027727, intron 16 of 16)	34612.0	NR_045394	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	4.0	6.0	2.0	48.0	9.5	8.0	5.5	5.5
Merged-chr12-79138120-4	chr12	79138018	79138218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	MLT1A1|LTR|ERVL-MaLR	7330.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	95.0	89.5	79.0	1408.0	110.5	27.5	40.0	43.0
Merged-chr2-129514491-4	chr2	129514362	129514562	+	984.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	intron (NM_177653, intron 1 of 6)	22140.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	22.0	25.5	6.5	200.5	46.5	33.0	19.5	13.0
Merged-chr13-20212866-4	chr13	20212775	20212975	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 4 of 21)	MIRb|SINE|MIR	122368.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	36.0	32.5	17.5	453.5	66.0	28.5	33.0	39.5
Merged-chr4-102588839-4	chr4	102588731	102588931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177982, intron 1 of 9)	intron (NM_001177982, intron 1 of 9)	-1012.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	27.0	56.5	36.0	494.5	96.0	21.5	40.0	23.5
Merged-chr7-138919744-4	chr7	138919646	138919846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10240.0	NM_009760	12176.0	Mm.378890	NM_009760	ENSMUSG00000078566	Bnip3	Nip3	BCL2/adenovirus E1B interacting protein 3	protein-coding	82.0	110.5	77.0	1176.0	142.5	46.5	65.5	66.5
Merged-chr12-113146256-4	chr12	113146162	113146362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347443)	TTS (NM_001347443)	5657.0	NM_001347443	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	26.0	43.5	21.0	287.5	70.5	27.0	23.5	31.0
Merged-chr14-61172887-4	chr14	61172806	61173006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172809, intron 2 of 9)	CpG	34449.0	NM_015788	50720.0	Mm.440703	NM_015788	ENSMUSG00000048279	Sacs	A230052M14|DNAJC29|E130115J16Rik	sacsin	protein-coding	151.0	332.5	175.0	2761.0	399.0	173.0	160.5	155.5
Merged-chr10-79889588-4	chr10	79889499	79889699	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	-1254.0	NM_001329541	11537.0	Mm.4407	NM_013459	ENSMUSG00000061780	Cfd	Adn|DF	complement factor D (adipsin)	protein-coding	21.0	30.0	11.5	384.0	49.5	14.0	13.5	28.5
Merged-chr13-45693690-4	chr13	45693578	45693778	+	931.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 5 of 6)	intron (NM_001199304, intron 5 of 6)	186234.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	26.0	33.0	12.5	448.0	49.0	8.5	20.0	43.0
Merged-chr1-97673031-4	chr1	97672931	97673131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11013.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	61.0	65.5	53.0	1013.5	119.0	46.0	58.5	37.5
Merged-chr8-117257368-5	chr8	117257300	117257500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163262, exon 1 of 21)	exon (NM_001163262, exon 1 of 21)	381.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	17.5	25.0	26.0	340.5	47.0	27.0	16.5	37.5
Merged-chr4-127148033-4	chr4	127147954	127148154	+	954.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21150.0	NM_198618	242667.0	Mm.331885	NM_198618	ENSMUSG00000042388	Dlgap3	BC058433|DAP-3|DAP3|Prpl8|Sapap3	DLG associated protein 3	protein-coding	21.5	35.0	13.0	108.5	40.5	15.5	17.5	15.5
Merged-chr19-53783808-3	chr19	53783695	53783895	+	777.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	Lx9|LINE|L1	106489.0	NM_001170847	73713.0	Mm.313695	NM_001170847	ENSMUSG00000043639	Rbm20	1110018J23Rik|2010003H22Rik|AI646761	RNA binding motif protein 20	protein-coding	4.0	8.5	4.5	112.5	17.5	9.0	18.0	22.5
Merged-chr14-52100506-5	chr14	52100224	52100424	+	757.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360183, intron 1 of 8)	MER5A|DNA|hAT-Charlie	3697.0	NM_001360178	15381.0	Mm.427321	NM_016884	ENSMUSG00000060373	Hnrnpc	AL022939|D14Wsu171e|Hnrpc|Hnrpc1|Hnrpc2|hnRNPC1|hnRNPC2|hnrnp-C	heterogeneous nuclear ribonucleoprotein C	protein-coding	1.0	8.5	2.5	65.5	14.0	9.5	5.0	9.5
Merged-chr5-142819596-2	chr5	142819496	142819696	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2209.0	NM_001122730	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	11.0	5.0	5.5	47.5	11.5	5.0	10.0	8.0
Merged-chr8-126583215-3	chr8	126583090	126583290	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10246.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	18.5	21.0	6.5	93.5	17.0	4.0	2.0	8.5
Merged-chr5-99221045-4	chr5	99220916	99221116	+	907.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 13 of 13)	RMER19C|LTR|ERVK	31911.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	14.5	29.5	11.5	119.5	35.5	22.0	15.5	9.0
Merged-chr11-58640650-3	chr11	58640545	58640745	+	646.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039047, exon 1 of 6)	exon (NM_001039047, exon 1 of 6)	180.0	NM_001039047	216781.0	Mm.339507	NM_001039047	ENSMUSG00000037124	Trim58	Gm16|Gm1783	tripartite motif-containing 58	protein-coding	10.5	6.5	10.0	108.5	4.0	6.0	2.5	8.5
Merged-chr6-97857905-4	chr6	97857788	97857988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	50830.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	53.0	88.5	60.5	993.0	145.0	45.5	55.0	33.0
Merged-chr2-141012108-3	chr2	141012004	141012204	+	679.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 4 of 18)	intron (NM_001013802, intron 4 of 18)	-340628.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	7.0	13.5	12.5	106.5	13.0	0.5	6.0	19.5
Merged-chr19-42177172-3	chr19	42177052	42177252	+	860.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164531, intron 2 of 11)	intron (NM_001164531, intron 2 of 11)	6585.0	NM_001164531	319740.0	Mm.287359	NM_177319	ENSMUSG00000018820	Zfyve27	2210011N02Rik|9530077C24Rik|AI426636|AI593546|AI835681	zinc finger, FYVE domain containing 27	protein-coding	8.5	10.0	17.0	168.0	15.0	4.0	3.5	11.5
Merged-chr4-71338816-4	chr4	71338726	71338926	+	933.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-803898.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	9.5	22.0	18.0	259.5	41.0	6.5	21.0	18.5
Merged-chr9-57640641-4	chr9	57640560	57640760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 2 of 14)	intron (NM_001304761, intron 2 of 14)	4993.0	NM_007783	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	74.0	64.0	112.5	1583.0	88.5	29.0	71.5	68.0
Merged-chr9-51077190-4	chr9	51077136	51077336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033534)	promoter-TSS (NM_001033534)	-142.0	NM_001033534	244864.0	Mm.335152	NM_001033534	ENSMUSG00000060594	Layn	E030012M19Rik|Gm511	layilin	protein-coding	56.5	153.0	29.0	551.0	39.0	27.5	23.5	20.5
Merged-chr15-27673292-4	chr15	27673177	27673377	+	925.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	8265.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	21.5	27.0	14.5	257.0	28.0	4.0	13.0	19.5
Merged-chr15-55563920-4	chr15	55563824	55564024	+	885.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168250, intron 4 of 16)	intron (NM_001168250, intron 4 of 16)	6516.0	NM_001168250	105837.0	Mm.390829	NM_134092	ENSMUSG00000022369	Mtbp	AI429604|MDM2BP	Mdm2, transformed 3T3 cell double minute p53 binding protein	protein-coding	11.5	18.5	10.5	181.5	55.5	10.5	11.0	13.0
Merged-chr6-126996556-4	chr6	126996450	126996650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18992.0	NM_010204	14177.0	Mm.3403	NM_010204	ENSMUSG00000000183	Fgf6	Fgf-6|HSTF-2	fibroblast growth factor 6	protein-coding	78.0	129.5	94.5	979.0	182.0	60.5	75.5	45.5
Merged-chr12-38779512-4	chr12	38779401	38779601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007960)	promoter-TSS (NM_007960)	-581.0	NM_001347379	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	65.0	107.5	74.5	855.0	177.5	53.5	94.0	52.5
Merged-chr3-37361211-4	chr3	37361099	37361299	+	883.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008006, intron 1 of 2)	intron (NM_008006, intron 1 of 2)	12546.0	NM_008006	14173.0	Mm.473689	NM_008006	ENSMUSG00000037225	Fgf2	Fgf-2|Fgfb|bFGF	fibroblast growth factor 2	protein-coding	15.0	10.0	15.5	258.5	31.5	14.5	15.5	12.0
Merged-chr3-67430069-4	chr3	67429911	67430111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138591)	promoter-TSS (NM_138591)	-104.0	NM_138591	28030.0	Mm.122466	NM_138591	ENSMUSG00000027774	Gfm1	AW545374|D3Wsu133e|Gfm	G elongation factor, mitochondrial 1	protein-coding	38.5	58.0	57.0	649.5	95.0	31.0	46.5	46.0
Merged-chr12-59216393-3	chr12	59216292	59216492	+	938.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033156, intron 1 of 3)	intron (NM_001033156, intron 1 of 3)	3091.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	13.0	17.0	20.0	273.0	55.0	2.5	10.0	8.5
Merged-chr9-37329656-2	chr9	37329556	37329756	+	694.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081429, intron 4 of 15)	intron (NM_001081429, intron 4 of 15)	18736.0	NM_001081429	245902.0	Mm.390150	NM_001081429	ENSMUSG00000034303	Ccdc15	A630039F14Rik|D030074L19	coiled-coil domain containing 15	protein-coding	5.0	6.5	1.0	113.5	13.5	7.0	10.0	11.0
Merged-chr4-120287935-4	chr4	120287832	120288032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194060)	promoter-TSS (NM_194060)	-671.0	NM_194060	329934.0	Mm.277090	NM_194060	ENSMUSG00000052135	Foxo6	-	forkhead box O6	protein-coding	26.0	61.0	24.5	444.5	77.5	36.5	50.5	43.0
Merged-chr1-46873980-4	chr1	46873880	46874080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356417, intron 2 of 10)	intron (NM_001356417, intron 2 of 10)	-20362.0	NM_172653	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	41.0	66.0	65.5	1180.0	107.5	34.5	84.5	47.0
Merged-chr4-84862128-4	chr4	84862024	84862224	+	996.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-22185.0	NM_175275	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	22.0	25.0	19.0	300.0	69.0	18.5	38.0	21.0
Merged-chr1-75236461-4	chr1	75236357	75236557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159885)	promoter-TSS (NM_001159885)	34.0	NM_178055	56812.0	Mm.489660	NM_020266	ENSMUSG00000026203	Dnajb2	2700059H22Rik|Dnajb10|Hsj1|mDj8	DnaJ heat shock protein family (Hsp40) member B2	protein-coding	118.5	199.0	143.0	1877.0	372.5	140.5	195.0	132.5
Merged-chr2-84627429-4	chr2	84627338	84627538	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	intron (NM_007615, intron 1 of 19)	22042.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	38.5	36.0	49.0	650.0	52.0	15.0	27.0	17.5
Merged-chr7-47035625-4	chr7	47035508	47035708	+	884.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-15032.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	19.0	19.0	17.0	335.0	15.0	12.0	27.0	14.5
Merged-chr10-77626909-4	chr10	77626792	77626992	+	774.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019803, intron 1 of 5)	intron (NM_019803, intron 1 of 5)	4571.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	12.5	9.5	4.5	150.5	22.5	5.5	7.0	12.5
Merged-chr18-38415831-6	chr18	38415754	38415954	+	991.257935	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3053.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	10.0	25.0	34.5	293.0	35.0	14.5	21.0	19.5
Merged-chr7-19491943-2	chr7	19491843	19492043	+	773.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	16388.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	7.0	14.5	13.5	84.0	15.5	4.0	6.0	5.0
Merged-chr5-113647379-4	chr5	113647282	113647482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	3008.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	98.0	81.5	115.0	2019.5	210.0	56.0	114.0	77.5
Merged-chr2-164823442-4	chr2	164823352	164823552	+	892.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028028, intron 1 of 1)	intron (NM_028028, intron 1 of 1)	766.0	NM_028028	71971.0	Mm.161149	NM_028028	ENSMUSG00000017764	Zswim1	2410003H12Rik|AI850991|BB046916	zinc finger SWIM-type containing 1	protein-coding	8.5	23.0	9.5	158.0	10.0	11.5	14.5	15.0
Merged-chr9-65790268-3	chr9	65790157	65790357	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 2 of 9)	intron (NM_172536, intron 2 of 9)	37307.0	NM_172536	214812.0	Mm.139231	NM_172536	ENSMUSG00000040524	Zfp609	9830165N24|BC016271|Znf609|mKIAA0295	zinc finger protein 609	protein-coding	14.0	6.0	8.5	169.0	13.0	2.0	2.0	3.0
Merged-chr7-19849786-4	chr7	19849647	19849847	+	898.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2256.0	NM_001270489	100502736.0	Mm.445354	NM_001270489	ENSMUSG00000092216	Gm19345	-	predicted gene, 19345	protein-coding	10.0	15.5	6.5	135.5	29.5	12.0	6.0	12.0
Merged-chr12-17507302-4	chr12	17507212	17507412	+	869.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37561.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	8.0	19.5	9.5	58.5	46.0	16.0	13.0	14.0
Merged-chr9-121317136-4	chr9	121317072	121317272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	19670.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	50.0	74.5	77.5	832.0	131.5	40.5	48.5	64.0
Merged-chr1-184174632-4	chr1	184174534	184174734	+	835.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140253.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	13.5	9.0	4.0	158.5	12.0	5.5	17.5	12.5
Merged-chr18-9212178-3	chr18	9212083	9212283	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008058)	promoter-TSS (NM_008058)	-673.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	44.0	35.0	35.5	727.0	17.0	4.5	6.5	7.5
Merged-chr19-55655021-4	chr19	55654929	55655129	+	973.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	47175.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	34.0	46.5	27.0	420.5	46.5	18.5	12.0	23.0
Merged-chr13-41601204-4	chr13	41601122	41601322	+	958.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-4994.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	20.0	22.0	19.0	573.5	41.0	13.5	20.5	21.5
Merged-chr1-136635952-4	chr1	136635890	136636090	+	928.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11089.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	13.0	17.0	14.5	347.0	19.0	7.0	18.0	14.0
Merged-chr6-17598685-4	chr6	17598601	17598801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38309.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	48.0	66.5	38.5	421.5	166.0	43.0	81.0	35.5
Merged-chr4-86666965-2	chr4	86666871	86667071	+	582.0	f0_balb.idr|f1_balb.idr	intron (NM_007408, intron 3 of 7)	B1F|SINE|Alu	3088.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	12.0	7.5	12.0	40.0	9.5	5.5	1.0	0.5
Merged-chr12-3235856-3	chr12	3235768	3235968	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015551)	promoter-TSS (NR_015551)	77.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	73.5	96.5	78.5	777.0	165.5	81.5	76.5	53.0
Merged-chr10-115316025-3	chr10	115315945	115316145	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024454)	promoter-TSS (NM_024454)	-454.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	25.0	45.0	44.5	420.0	53.5	13.5	26.0	38.0
Merged-chr17-35190183-4	chr17	35190024	35190224	+	823.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1684.0	NM_010734	16988.0	Mm.19379	NM_010734	ENSMUSG00000073412	Lst1	B144	leukocyte specific transcript 1	protein-coding	10.5	7.5	10.0	52.0	9.5	6.5	6.0	9.0
Merged-chr12-32146677-4	chr12	32146580	32146780	+	803.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61658.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	7.0	7.0	10.0	219.0	17.5	14.0	12.0	17.0
Merged-chr10-42876348-3	chr10	42876247	42876447	+	798.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359265, intron 1 of 6)	intron (NM_001359265, intron 1 of 6)	15835.0	NM_001359264	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	8.0	14.0	10.0	124.0	15.0	3.5	4.5	2.5
Merged-chr13-36282279-2	chr13	36282179	36282379	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 3 of 5)	intron (NM_001039189, intron 3 of 5)	164636.0	NM_001039189	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	6.0	4.0	5.0	45.5	13.5	6.5	7.5	7.0
Merged-chr4-133468252-4	chr4	133468153	133468353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11880.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	160.0	228.0	115.0	1461.5	287.5	100.0	113.0	101.5
Merged-chr13-42103801-4	chr13	42103721	42103921	+	964.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	51800.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	17.5	27.5	13.0	185.5	28.5	11.0	7.0	25.5
Merged-chr7-16628291-4	chr7	16628204	16628404	+	925.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136929, intron 2 of 2)	intron (NR_136929, intron 2 of 2)	-13311.0	NM_172739	232906.0	Mm.28646	NM_172739	ENSMUSG00000058230	Arhgap35	6430596G11Rik|AI841135|Grlf1|mKIAA1722|p190A|p190RhoGAP	Rho GTPase activating protein 35	protein-coding	8.5	20.0	12.5	263.5	43.5	14.0	19.0	25.5
Merged-chr1-125473401-4	chr1	125473292	125473492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37665.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	78.5	80.5	67.0	1163.5	169.5	54.0	66.5	62.0
Merged-chr15-51877409-4	chr15	51877329	51877529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030132)	promoter-TSS (NM_030132)	-12.0	NM_030132	78581.0	Mm.176347	NM_030132	ENSMUSG00000022313	Utp23	1700010I21Rik|AI662478|BB238373|D530033C11Rik	UTP23 small subunit processome component	protein-coding	157.0	222.5	140.0	2564.0	383.5	130.0	176.5	143.0
Merged-chr5-114597849-4	chr5	114597752	114597952	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004180, intron 2 of 2)	B4|SINE|B4	29601.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	47.0	47.0	32.5	583.5	85.5	16.5	27.5	47.5
Merged-chr11-98816945-4	chr11	98816840	98817040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138660, intron 3 of 13)	intron (NM_138660, intron 3 of 13)	-6851.0	NR_033551	100037262.0	Mm.442062	NR_033551	ENSMUSG00000075576	Gm12359	-	predicted gene 12359	ncRNA	44.0	71.5	49.0	791.0	117.5	34.5	44.5	45.5
Merged-chr11-17008693-4	chr11	17008604	17008804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019549)	promoter-TSS (NM_019549)	14.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	170.0	307.0	173.5	2209.5	507.0	189.0	219.0	142.0
Merged-chr6-77335742-3	chr6	77335641	77335841	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145732, intron 8 of 18)	ORR1E|LTR|ERVL-MaLR	46734.0	NR_045141	70753.0	Mm.490700	NR_045141	ENSMUSG00000108077	6330415B21Rik	-	RIKEN cDNA 6330415B21 gene	ncRNA	24.5	33.5	27.0	639.0	11.5	8.0	4.5	5.5
Merged-chr4-128806892-4	chr4	128806865	128807065	+	938.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081098)	promoter-TSS (NM_001081098)	-853.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	9.5	15.5	7.0	191.0	25.5	7.0	12.5	16.5
Merged-chr12-100200222-5	chr12	100200124	100200324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313934)	promoter-TSS (NM_001313934)	80.0	NM_001313934	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	71.5	121.5	129.0	1513.0	224.0	85.0	94.5	89.5
Merged-chr2-91091586-4	chr2	91091444	91091644	+	801.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-5134.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	8.0	8.5	9.5	93.5	14.0	5.0	4.5	2.5
Merged-chr10-75229227-4	chr10	75229135	75229335	+	899.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145826, intron 3 of 18)	URR1A|DNA|hAT-Charlie	16845.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	10.0	11.0	16.5	309.5	27.0	9.0	14.5	12.0
Merged-chr12-8501941-7	chr12	8501869	8502069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1960.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	8.5	30.0	21.5	259.5	36.5	9.0	13.5	24.5
Merged-chr3-31417163-4	chr3	31417081	31417281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106862.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	75.0	43.5	99.5	1285.0	74.5	20.5	33.5	28.0
Merged-chr6-35539231-2	chr6	35539131	35539331	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008098, intron 1 of 3)	CpG	657.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	6.5	15.0	11.5	115.0	12.0	2.5	9.5	21.5
Merged-chr12-80065258-4	chr12	80065156	80065356	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47757.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	32.0	39.5	13.0	354.5	67.5	28.0	26.5	23.0
Merged-chr7-126655903-4	chr7	126655799	126655999	+	904.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029339, intron 1 of 9)	ORR1B1|LTR|ERVL-MaLR	6590.0	NM_029339	75565.0	Mm.45686	NM_029339	ENSMUSG00000030714	Sgf29	1700023O11Rik|9530025I05Rik|Ccdc101	SAGA complex associated factor 29	protein-coding	14.5	31.5	14.5	336.0	24.5	3.0	14.0	9.0
Merged-chr7-79920643-4	chr7	79920540	79920740	+	977.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009682)	promoter-TSS (NM_009682)	0.0	NM_009682	11778.0	Mm.220173	NM_009682	ENSMUSG00000063801	Ap3s2	[s]3B	adaptor-related protein complex 3, sigma 2 subunit	protein-coding	20.0	32.0	20.0	289.5	55.5	22.0	22.0	14.5
Merged-chr12-102437691-2	chr12	102437608	102437808	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_011175, intron 1 of 13)	B1_Mur2|SINE|Alu	2105.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	22.5	40.0	29.5	366.0	88.5	31.5	26.5	26.5
Merged-chr1-43827134-1	chr1	43827034	43827234	+	561.0	f0_balb.idr	intron (NM_026430, intron 1 of 14)	intron (NM_026430, intron 1 of 14)	574.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	12.5	11.5	20.0	146.0	19.0	7.5	3.0	12.0
Merged-chr6-126921718-4	chr6	126921601	126921801	+	777.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207210, intron 1 of 14)	intron (NM_207210, intron 1 of 14)	138.0	NM_207210	101320.0	Mm.44896	NM_207210	ENSMUSG00000030345	Dyrk4	AW049118|Dyrk4a|Dyrk4b	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4	protein-coding	12.5	9.5	12.0	115.0	21.5	4.0	8.5	8.0
Merged-chr16-36674600-4	chr16	36674493	36674693	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8516.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	12.0	10.0	24.0	262.5	36.0	3.5	18.5	7.0
Merged-chr5-16947651-2	chr5	16947551	16947751	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	393750.0	NM_001289461	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	5.0	0.0	2.5	89.0	19.5	4.5	6.0	7.5
Merged-chr2-122163941-4	chr2	122163848	122164048	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080510, intron 1 of 6)	intron (NM_080510, intron 1 of 6)	3248.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	29.0	26.0	28.0	307.0	47.0	14.5	23.5	29.0
Merged-chr1-94582213-4	chr1	94582104	94582304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-215238.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	100.0	78.0	108.5	2203.0	200.5	82.0	84.0	70.5
Merged-chr1-154677919-4	chr1	154677824	154678024	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009782, intron 3 of 46)	intron (NM_009782, intron 3 of 46)	47996.0	NM_009782	12290.0	Mm.267517	NM_009782	ENSMUSG00000004110	Cacna1e	A430040I15|BII|Cach6|Cacnl1a6|Cav2.3|Cchra1|alpha1E	calcium channel, voltage-dependent, R type, alpha 1E subunit	protein-coding	9.0	12.5	6.0	92.0	25.0	11.0	5.0	12.5
Merged-chr18-25883562-4	chr18	25883452	25883652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129395.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	99.5	157.0	146.0	2654.0	275.5	106.0	157.0	146.5
Merged-chr5-43234601-6	chr5	43234551	43234751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175937, exon 1 of 11)	exon (NM_175937, exon 1 of 11)	703.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	14.5	25.5	31.5	234.5	40.5	19.0	23.5	33.5
Merged-chr7-44453503-4	chr7	44453394	44453594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198250, intron 2 of 2)	intron (NM_198250, intron 2 of 2)	11007.0	NM_198250	272381.0	Mm.44173	NM_198250	ENSMUSG00000047085	Lrrc4b	A830007M12|Lrig4	leucine rich repeat containing 4B	protein-coding	27.0	50.0	23.5	346.0	63.5	26.5	35.0	26.0
Merged-chr15-86446303-3	chr15	86446212	86446412	+	947.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358062, intron 8 of 9)	MTC|LTR|ERVL-MaLR	168637.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	15.0	13.0	15.5	298.0	19.5	2.5	13.5	12.0
Merged-chr2-129308323-7	chr2	129308238	129308438	+	834.780945	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040371)	TTS (NR_040371)	1634.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	1.5	15.5	4.0	39.0	18.5	15.0	10.0	8.0
Merged-chr3-14533837-4	chr3	14533735	14533935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028915)	promoter-TSS (NM_028915)	47.0	NM_001163580	71710.0	Mm.257449	NM_028915	ENSMUSG00000027550	Lrrcc1	1200008A14Rik|4932441F23Rik|AI195358|AI447421	leucine rich repeat and coiled-coil domain containing 1	protein-coding	48.5	37.5	38.0	657.5	88.5	31.5	40.5	28.0
Merged-chr10-87016567-4	chr10	87016484	87016684	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8642.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	9.5	9.0	9.0	269.5	33.5	5.5	10.0	16.5
Merged-chr12-34432010-4	chr12	34431910	34432110	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 6 of 27)	intron (NM_001271386, intron 6 of 27)	96879.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	14.5	25.0	14.5	228.0	27.0	17.0	15.0	7.0
Merged-chr11-95749837-4	chr11	95749725	95749925	+	942.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_201609, exon 1 of 5)	exon (NM_201609, exon 1 of 5)	758.0	NM_201609	268469.0	Mm.389038	NM_201609	ENSMUSG00000075595	Zfp652	9530033F24Rik|ZNF652	zinc finger protein 652	protein-coding	16.0	25.5	10.0	357.0	51.5	6.5	11.5	20.5
Merged-chr4-114925382-4	chr4	114925230	114925430	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015758, exon 1 of 1)	exon (NM_015758, exon 1 of 1)	683.0	NM_015758	30923.0	Mm.377122	NM_015758	ENSMUSG00000044518	Foxe3	FREAC8|dyl|rct	forkhead box E3	protein-coding	6.0	13.0	12.5	154.5	15.5	2.5	9.0	7.5
Merged-chr4-141536764-5	chr4	141536645	141536845	+	811.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 1 of 14)	CpG	1852.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	6.5	18.0	8.5	92.5	7.0	1.5	1.5	6.5
Merged-chr7-19694030-2	chr7	19693930	19694130	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1371.0	NM_007469	11812.0	Mm.182440	NM_007469	ENSMUSG00000040564	Apoc1	Apo-CIB|ApoC-IB|apo-CI|apoC-I	apolipoprotein C-I	protein-coding	29.5	21.5	24.0	346.0	56.5	18.0	24.0	27.5
Merged-chr10-26836738-4	chr10	26836702	26836902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	64290.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	25.5	27.0	21.5	437.0	41.0	21.5	19.0	19.5
Merged-chr4-130807034-4	chr4	130806917	130807117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	14480.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	39.5	36.0	37.0	674.5	68.5	19.0	30.0	32.5
Merged-chr13-113444678-4	chr13	113444597	113444797	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR40b|LTR|ERVL	58147.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	17.0	30.0	28.5	474.0	49.0	19.0	28.0	17.5
Merged-chr13-29985659-1	chr13	29985559	29985759	+	549.0	f0_balb.idr	exon (NM_010093, exon 1 of 7)	exon (NM_010093, exon 1 of 7)	404.0	NM_010093	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	12.0	11.5	4.5	105.5	28.5	9.5	6.0	13.0
Merged-chr10-59266269-4	chr10	59266174	59266374	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C2|LTR|ERVK	44352.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	25.5	44.0	15.0	322.0	77.0	30.0	22.5	25.0
Merged-chr2-90535271-3	chr2	90535166	90535366	+	783.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	ID4|SINE|ID	45381.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	6.5	2.0	7.0	126.5	23.0	14.0	9.5	11.5
Merged-chr7-24531626-7	chr7	24531512	24531712	+	956.761902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153134, exon 2 of 3)	exon (NM_153134, exon 2 of 3)	964.0	NM_153134	210146.0	Mm.41108	NM_153134	ENSMUSG00000041037	Irgq	AF322649|FKSG27|Irgq1	immunity-related GTPase family, Q	protein-coding	11.0	28.0	25.5	81.0	34.0	18.5	7.5	13.0
Merged-chr14-56778449-4	chr14	56778412	56778612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360420)	promoter-TSS (NM_001360420)	-194.0	NM_025682	66645.0	Mm.20129	NM_025682	ENSMUSG00000021938	Pspc1	5730470C09Rik|AI327109|AI449052|PSP1	paraspeckle protein 1	protein-coding	89.0	145.5	134.0	1344.0	163.5	77.5	98.5	118.0
Merged-chr17-83267699-4	chr17	83267579	83267779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52396.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	204.5	228.5	165.0	3207.5	445.5	146.0	202.0	173.0
Merged-chr11-3194219-4	chr11	3194120	3194320	+	972.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030207)	promoter-TSS (NM_030207)	-757.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	39.5	7.5	19.0	194.5	40.0	17.5	11.0	31.0
Merged-chr2-132599295-4	chr2	132599166	132599366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 1 of 3)	intron (NR_033469, intron 1 of 3)	1070.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	182.0	239.0	212.5	2205.0	360.5	171.5	185.0	166.0
Merged-chr10-62215715-2	chr10	62215615	62215815	+	955.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_197996, intron 1 of 7)	intron (NM_197996, intron 1 of 7)	15503.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	5.0	5.5	13.0	51.0	7.5	4.0	2.5	3.5
Merged-chr19-46901564-3	chr19	46901458	46901658	+	702.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029810, intron 5 of 17)	intron (NM_029810, intron 5 of 17)	60793.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	15.5	16.0	6.0	135.0	12.5	3.0	6.0	6.5
Merged-chr15-64061338-4	chr15	64061206	64061406	+	980.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144846)	promoter-TSS (NM_144846)	-858.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	25.5	71.0	22.5	420.0	108.0	36.5	38.0	15.0
Merged-chr4-80311302-4	chr4	80311199	80311399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-522914.0	NM_031202	22178.0	Mm.30438	NM_031202	ENSMUSG00000005994	Tyrp1	Oca3|TRP-1|TRP1|Tyrp|b|brown|isa	tyrosinase-related protein 1	protein-coding	111.0	104.0	90.5	1405.0	189.5	69.5	126.5	88.5
Merged-chr18-23436544-4	chr18	23436445	23436645	+	889.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361217, intron 1 of 20)	intron (NM_001361217, intron 1 of 20)	21136.0	NM_001361217	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	24.0	32.0	46.5	781.0	19.0	10.5	20.5	14.0
Merged-chr11-83593024-4	chr11	83592916	83593116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009139)	promoter-TSS (NM_009139)	71.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	58.5	60.5	40.5	730.0	87.0	32.0	48.0	26.5
Merged-chr2-27765101-4	chr2	27765019	27765219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54536.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	57.0	122.0	60.5	905.0	189.0	78.5	75.5	84.5
Merged-chr7-143021957-4	chr7	143021854	143022054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_110354, exon 5 of 5)	non-coding (NR_110354, exon 5 of 5)	16295.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	48.5	104.5	61.5	892.5	180.5	47.5	109.5	72.0
Merged-chr12-99393106-4	chr12	99392999	99393199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 1 of 5)	CpG	56975.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	46.5	105.5	75.5	1270.0	161.5	56.0	69.5	64.0
Merged-chr2-32967493-4	chr2	32967400	32967600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4199.0	NR_002898	104367.0	Mm.250030	NR_002898	ENSMUSG00000065124	Snora65	MBII-351|Rnu65	small nucleolar RNA, H/ACA box 65	snoRNA	26.0	40.5	27.0	326.0	78.5	30.0	37.0	40.5
Merged-chr6-47175810-4	chr6	47175707	47175907	+	845.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 20 of 23)	intron (NM_001004357, intron 20 of 23)	-68589.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	9.0	14.0	16.5	135.5	31.0	9.5	16.0	16.0
Merged-chr19-61152315-3	chr19	61152201	61152401	+	624.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR50A|LTR|ERVK	-11461.0	NR_131954	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	5.0	9.0	4.0	28.5	35.5	7.5	8.5	10.5
Merged-chr2-112454980-4	chr2	112454894	112455094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133749)	promoter-TSS (NM_133749)	-31.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	145.0	217.0	149.0	3001.0	545.5	177.0	184.5	181.0
Merged-chr7-80114765-4	chr7	80114706	80114906	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173011, intron 1 of 10)	intron (NM_173011, intron 1 of 10)	544.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	17.5	20.5	24.0	231.5	42.5	14.0	8.5	24.0
Merged-chr19-5151510-4	chr19	5151494	5151694	+	888.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153129, intron 10 of 23)	intron (NM_153129, intron 10 of 23)	-33186.0	NM_008451	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	18.5	25.5	7.0	230.5	12.5	5.5	3.0	11.0
Merged-chr5-90685205-1	chr5	90685105	90685305	+	816.666687	f0_balb.idr	Intergenic	Intergenic	-44678.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	5.0	12.0	15.0	184.0	10.5	1.5	1.0	0.0
Merged-chr8-119425825-4	chr8	119425714	119425914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11348.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	97.0	139.5	105.0	1712.5	234.0	71.0	99.0	70.5
Merged-chr4-137993409-4	chr4	137993303	137993503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172703)	promoter-TSS (NM_172703)	-53.0	NM_001256198	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	61.0	81.0	61.5	676.5	191.0	109.5	69.0	91.0
Merged-chr17-5929176-4	chr17	5929030	5929230	+	851.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025664, intron 17 of 17)	intron (NM_025664, intron 17 of 17)	-12150.0	NM_001113353	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	7.5	9.5	10.0	103.0	22.5	9.0	4.5	7.5
Merged-chr7-30194696-1	chr7	30194596	30194796	+	1000.0	f1_balb.idr	intron (NM_009795, intron 1 of 10)	intron (NM_009795, intron 1 of 10)	457.0	NM_009795	12336.0	Mm.439782	NM_009795	ENSMUSG00000001794	Capns1	Capa-4|Capa4|Capn4|Cdps|Css1|D7Ertd146e	calpain, small subunit 1	protein-coding	10.5	18.5	11.0	184.5	25.0	10.5	19.5	5.5
Merged-chr3-89331047-4	chr3	89330944	89331144	+	678.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6984.0	NM_007910	13639.0	Mm.16332	NM_007910	ENSMUSG00000028040	Efna4	EFL-4|Epl4|LERK-4	ephrin A4	protein-coding	1.5	14.0	5.0	87.0	23.5	9.5	9.0	11.5
Merged-chr2-128124158-4	chr2	128124043	128124243	+	924.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028765)	TTS (NM_028765)	-1895.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	12.5	30.0	9.5	176.5	41.5	9.0	7.5	15.0
Merged-chr2-164760600-4	chr2	164760500	164760700	+	790.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133763, intron 8 of 12)	MTD|LTR|ERVL-MaLR	-9329.0	NM_026785	68612.0	Mm.89830	NM_026785	ENSMUSG00000001403	Ube2c	1110015A16Rik|D2Ertd695e	ubiquitin-conjugating enzyme E2C	protein-coding	12.0	14.0	7.0	81.0	34.5	4.0	27.5	19.5
Merged-chr15-81810270-4	chr15	81810201	81810401	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153484, intron 1 of 3)	intron (NM_153484, intron 1 of 3)	-1113.0	NM_017376	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	18.5	23.5	34.0	302.5	53.0	14.0	19.5	19.5
Merged-chr2-4461038-4	chr2	4460951	4461151	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	RSINE1|SINE|B4	60075.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	0.5	10.5	7.0	80.0	96.5	22.0	35.5	34.5
Merged-chr4-108369413-4	chr4	108369316	108369516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099303, intron 2 of 2)	intron (NM_001099303, intron 2 of 2)	14239.0	NM_001099303	545667.0	Mm.380025	NM_001099303	ENSMUSG00000059816	Fam159a	Shisal2a	family with sequence similarity 159, member A	protein-coding	77.5	102.0	73.5	1766.5	185.0	62.0	104.0	75.5
Merged-chr7-141266542-4	chr7	141266511	141266711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252600)	promoter-TSS (NM_001252600)	-187.0	NM_001252600	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	44.0	39.5	32.0	471.0	105.0	37.5	42.0	31.5
Merged-chr11-116110789-4	chr11	116110707	116110907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172570)	promoter-TSS (NM_172570)	-572.0	NM_172570	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	150.5	191.5	114.0	1554.0	261.0	134.5	111.5	107.5
Merged-chr2-25582588-4	chr2	25582476	25582676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001024616)	TTS (NM_001024616)	-2477.0	NM_001005424	381353.0	Mm.379511	NM_001005424	ENSMUSG00000029419	Gm996	Ajm1	predicted gene 996	protein-coding	59.0	88.0	38.5	752.5	172.0	47.5	66.0	51.0
Merged-chr17-80062324-4	chr17	80062218	80062418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144802)	promoter-TSS (NM_144802)	-50.0	NM_144802	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	171.5	210.0	235.5	3440.0	459.0	203.0	233.0	223.5
Merged-chr8-13840320-4	chr8	13840216	13840416	+	957.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2227.0	NM_153093	231201.0	Mm.423959	NM_153093	ENSMUSG00000057116	AF366264	Susp4	cDNA sequence AF366264	protein-coding	16.0	17.0	16.5	261.0	26.5	16.5	8.0	26.0
Merged-chr14-31434222-5	chr14	31434184	31434384	+	911.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 1 of 8)	intron (NM_011894, intron 1 of 8)	1816.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	10.5	13.0	9.0	157.5	15.0	5.5	9.5	14.0
Merged-chr1-165701056-4	chr1	165700950	165701150	+	900.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	7044.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	13.0	31.0	12.0	134.0	75.0	18.5	12.5	10.5
Merged-chr6-108341327-3	chr6	108341229	108341429	+	960.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 5 of 61)	intron (NM_010585, intron 5 of 61)	128233.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	20.0	22.0	19.5	363.0	4.0	2.5	1.0	7.0
Merged-chr15-98580288-2	chr15	98580188	98580388	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001201322, intron 1 of 3)	intron (NM_001201322, intron 1 of 3)	9284.0	NM_001201322	73863.0	Mm.66894	NM_001201322	ENSMUSG00000022993	4930415O20Rik	-	RIKEN cDNA 4930415O20 gene	protein-coding	7.0	12.0	5.5	45.5	16.0	10.5	12.5	7.0
Merged-chr17-69156809-4	chr17	69156752	69156952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013813, exon 1 of 22)	5' UTR (NM_013813, exon 1 of 22)	108.0	NM_013813	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	36.0	43.5	39.0	500.5	48.5	19.0	40.5	32.5
Merged-chr17-24960822-4	chr17	24960693	24960893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198937)	promoter-TSS (NM_198937)	-170.0	NM_198937	52009.0	Mm.371601	NM_198937	ENSMUSG00000024165	Jpt2	2810430B18Rik|AL022629|C16orf34|D17Ertd441e|Hn1l	Jupiter microtubule associated homolog 2	protein-coding	282.5	359.0	242.5	3895.5	520.0	253.5	236.0	187.0
Merged-chr6-54681643-4	chr6	54681562	54681762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289740)	promoter-TSS (NM_001289740)	38.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	138.5	198.5	117.0	2293.0	294.5	99.0	171.0	89.5
Merged-chr2-122569656-4	chr2	122569590	122569790	+	843.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41587.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	10.0	16.0	6.5	121.0	27.0	12.5	10.0	12.0
Merged-chr7-101412890-4	chr7	101412747	101412947	+	987.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027180)	TTS (NM_027180)	-8844.0	NM_001008548	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	28.5	30.5	15.5	221.0	33.0	25.0	19.0	20.5
Merged-chr11-86687567-2	chr11	86687467	86687667	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001098810, intron 1 of 1)	intron (NM_001098810, intron 1 of 1)	3486.0	NM_001098810	217057.0	Mm.24868	NM_175004	ENSMUSG00000072582	Ptrh2	A230072I16Rik|Bit1|CGI-147	peptidyl-tRNA hydrolase 2	protein-coding	5.5	14.5	1.0	20.5	15.5	6.0	5.5	9.0
Merged-chr2-25622031-4	chr2	25621931	25622131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109993)	promoter-TSS (NM_001109993)	-26.0	NM_001109993	51875.0	Mm.271147	NM_001040130	ENSMUSG00000026939	Tmem141	1110065P14Rik|AI663999|D2Ertd217e	transmembrane protein 141	protein-coding	117.0	177.0	101.5	1830.0	239.5	117.5	114.0	100.5
Merged-chr5-3387387-4	chr5	3387293	3387493	+	938.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	43500.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	36.5	47.0	30.0	623.0	34.5	28.5	13.5	24.5
Merged-chr19-16140804-4	chr19	16140701	16140901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	intron (NM_008139, intron 1 of 6)	7970.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	103.5	161.0	97.5	1542.5	255.0	86.0	62.0	84.0
Merged-chr4-3649204-4	chr4	3649109	3649309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7297.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	93.0	134.5	96.5	1867.5	135.5	36.0	124.0	102.0
Merged-chr9-124143847-4	chr9	124143775	124143975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22332.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	37.0	65.5	30.0	534.5	119.0	43.0	41.5	47.5
Merged-chr5-67607896-4	chr5	67607757	67607957	+	921.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033415)	promoter-TSS (NM_001033415)	-26.0	NM_001033415	330096.0	Mm.442747	NM_001033415	ENSMUSG00000050010	Shisa3	D830007B15Rik	shisa family member 3	protein-coding	12.0	10.0	18.0	218.0	21.5	10.5	16.0	17.0
Merged-chr9-24770563-3	chr9	24770472	24770672	+	810.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194263, intron 2 of 7)	intron (NM_194263, intron 2 of 7)	3731.0	NM_020496	57246.0	Mm.31452	NM_020496	ENSMUSG00000031965	Tbx20	9430010M06Rik|AL022859|Tbx12	T-box 20	protein-coding	6.5	3.0	9.5	173.0	6.5	5.0	9.0	7.0
Merged-chr6-85915997-6	chr6	85915863	85916063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023160)	promoter-TSS (NM_023160)	-8.0	NM_001362065	69786.0	Mm.218434	NM_176842	ENSMUSG00000054226	Tprkb	0610033G21Rik|1810034M08Rik|Cgi-121|DRWMS1|mDRWMS1	Tp53rk binding protein	protein-coding	33.5	88.0	47.5	273.5	132.0	66.0	71.0	93.0
Merged-chr15-88837497-3	chr15	88837466	88837666	+	809.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	17920.0	NM_029720	76737.0	Mm.292567	NM_029720	ENSMUSG00000023272	Creld2	5730592L21Rik|C85758	cysteine-rich with EGF-like domains 2	protein-coding	14.0	12.0	1.5	186.0	8.0	5.0	7.5	11.5
Merged-chr10-39413529-4	chr10	39413434	39413634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	L1MB2|LINE|L1	43735.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	64.0	47.5	71.0	1353.5	89.5	20.0	42.5	39.0
Merged-chr14-118098463-4	chr14	118098364	118098564	+	956.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	34301.0	NM_029578	76355.0	Mm.251537	NM_029578	ENSMUSG00000022130	Tgds	2610017J16Rik|2610025M23Rik|AI648925	TDP-glucose 4,6-dehydratase	protein-coding	12.0	18.0	10.5	231.0	53.0	19.0	44.0	29.0
Merged-chr13-23622558-4	chr13	23622491	23622691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015787)	promoter-TSS (NM_015787)	-33.0	NM_015787	50709.0	Mm.170587	NM_015787	ENSMUSG00000051627	Hist1h1e	H1-4|H1.4|H1e|H1f4|H1s-4|H1var2	histone cluster 1, H1e	protein-coding	101.0	125.0	60.5	1389.5	236.0	87.5	160.5	132.0
Merged-chr15-80707210-4	chr15	80707114	80707314	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4099.0	NM_144812	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	7.0	19.5	4.0	205.5	43.0	9.0	12.5	6.5
Merged-chr12-36039598-4	chr12	36039503	36039703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	2875.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	133.0	185.0	135.5	2518.0	313.0	139.0	130.0	124.5
Merged-chr2-3327543-4	chr2	3327445	3327645	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001290370, exon 12 of 12)	3' UTR (NM_001290370, exon 12 of 12)	5083.0	NM_001013376	227522.0	Mm.293948	NM_001013376	ENSMUSG00000049950	Rpp38	C330006A15Rik	ribonuclease P/MRP 38 subunit	protein-coding	31.0	76.0	21.5	847.5	119.0	30.0	64.0	52.0
Merged-chr3-95174340-4	chr3	95174215	95174415	+	971.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011351)	TTS (NM_011351)	9976.0	NM_011351	20360.0	Mm.23662	NM_011351	ENSMUSG00000038777	Sema6c	Semay|mKIAA1869	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C	protein-coding	29.5	17.0	15.0	190.0	34.5	17.5	15.0	16.0
Merged-chr11-22632109-4	chr11	22632014	22632214	+	917.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119831.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	10.0	14.5	14.0	180.0	28.5	9.0	18.5	7.0
Merged-chr1-85658707-4	chr1	85658598	85658798	+	892.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013673, intron 1 of 19)	intron (NM_013673, intron 1 of 19)	8710.0	NM_001313714	20684.0	Mm.290906	NM_013673	ENSMUSG00000026222	Sp100	A430075G10Rik	nuclear antigen Sp100	protein-coding	17.0	17.0	11.5	217.5	36.0	15.0	12.5	14.0
Merged-chr18-61098345-4	chr18	61098261	61098461	+	767.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3B|LINE|L1	-7211.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	9.5	9.0	8.5	145.0	21.0	4.0	6.0	11.5
Merged-chr9-66341731-2	chr9	66341631	66341831	+	975.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus4|LINE|L1	-8719.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	0.5	5.0	4.0	49.5	11.5	4.5	5.5	6.5
Merged-chr9-59585006-4	chr9	59584892	59585092	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175235, intron 2 of 11)	intron (NM_175235, intron 2 of 11)	-4296.0	NM_001361099	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	7.5	23.0	1.0	182.5	43.5	11.5	6.0	17.5
Merged-chr6-21949541-4	chr6	21949440	21949640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023626)	promoter-TSS (NM_023626)	-31.0	NM_001311061	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	388.0	549.0	345.0	5727.5	864.0	335.0	340.5	344.0
Merged-chr5-64503666-4	chr5	64503565	64503765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	26657.0	NR_045413	77382.0	Mm.366742	NR_045411	ENSMUSG00000105352	C030018K13Rik	-	RIKEN cDNA C030018K13 gene	ncRNA	42.5	31.5	55.0	715.0	79.0	24.5	30.5	44.5
Merged-chr9-95699396-4	chr9	95699294	95699494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR87|LTR|ERVL?	50964.0	NM_001311123	22063.0	Mm.149633	NM_011643	ENSMUSG00000032839	Trpc1	Mtrp1|Trp1|Trrp1	transient receptor potential cation channel, subfamily C, member 1	protein-coding	53.0	134.0	39.5	801.0	205.0	76.0	88.5	51.0
Merged-chr11-94989849-4	chr11	94989746	94989946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1366.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	45.0	51.0	29.5	461.5	97.5	26.0	45.0	39.0
Merged-chr9-79793519-4	chr9	79793423	79793623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133718)	promoter-TSS (NM_133718)	-93.0	NM_133718	69981.0	Mm.486324	NM_133718	ENSMUSG00000032328	Tmem30a	2010200I23Rik|AW540225|Cdc50a|D9Wsu20e	transmembrane protein 30A	protein-coding	259.0	392.5	304.0	3556.0	588.0	263.5	319.0	206.5
Merged-chr7-19321605-4	chr7	19321496	19321696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-11551.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	219.0	363.5	247.5	2877.0	692.0	270.0	297.5	273.5
Merged-chr16-91727537-4	chr16	91727422	91727622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026994, intron 1 of 11)	intron (NM_026994, intron 1 of 11)	1280.0	NM_026994	66609.0	Mm.109823	NM_026994	ENSMUSG00000058240	Cryzl1	2210407J23Rik|2410006O11Rik|QOH-1	crystallin, zeta (quinone reductase)-like 1	protein-coding	95.5	147.5	66.5	1335.0	249.0	98.0	74.5	108.5
Merged-chr10-119063583-4	chr10	119063502	119063702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13103.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	117.5	133.5	131.0	2300.5	309.5	147.0	183.0	133.5
Merged-chr13-42301416-4	chr13	42301302	42301502	+	982.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010104)	promoter-TSS (NM_010104)	-74.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	15.0	18.5	10.5	282.0	34.5	15.0	21.0	23.0
Merged-chr8-3672136-4	chr8	3672061	3672261	+	955.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357661, intron 1 of 1)	intron (NM_001357661, intron 1 of 1)	230.0	NM_001357661	100503924.0	Mm.415621	NM_001357661	ENSMUSG00000089665	Fcor	2400009B08Rik	Foxo1 corepressor	protein-coding	21.5	24.5	34.0	226.5	22.5	12.0	20.5	10.0
Merged-chr7-144923167-3	chr7	144923073	144923273	+	824.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357868, intron 4 of 4)	intron (NM_001357868, intron 4 of 4)	8073.0	NM_001347537	72284.0	Mm.273049	NM_028184	ENSMUSG00000031072	Oraov1	2210010N10Rik|TAOS1	oral cancer overexpressed 1	protein-coding	7.0	12.5	3.5	111.0	10.5	7.0	5.0	15.5
Merged-chr2-150782545-4	chr2	150782450	150782650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-4246.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	72.5	86.0	97.5	1240.5	101.5	33.0	75.5	51.5
Merged-chr2-163472642-4	chr2	163472537	163472737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028122)	promoter-TSS (NR_028122)	-8.0	NM_173397	228859.0	Mm.242917	NM_173397	ENSMUSG00000048486	Fitm2	AI414861|D930001I22Rik|Fit2	fat storage-inducing transmembrane protein 2	protein-coding	58.0	77.5	45.0	806.5	143.5	54.5	66.5	56.0
Merged-chr11-62224142-4	chr11	62224059	62224259	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-24825.0	NM_007413	11541.0	Mm.40740	NM_007413	ENSMUSG00000018500	Adora2b	A2BAR|A2BR|A2b|AA2BR|AI480866|AI605384	adenosine A2b receptor	protein-coding	21.5	30.0	28.0	308.5	44.5	25.5	20.0	23.5
Merged-chr6-83711174-4	chr6	83711086	83711286	+	818.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011912)	promoter-TSS (NM_011912)	-78.0	NM_011912	24113.0	Mm.307165	NM_011912	ENSMUSG00000034777	Vax2	Dres93	ventral anterior homeobox 2	protein-coding	10.5	13.0	5.5	104.0	21.5	4.5	7.0	12.5
Merged-chr2-124579470-4	chr2	124579394	124579594	+	944.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-30802.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	22.5	15.5	17.5	324.0	29.5	5.0	16.5	10.0
Merged-chr4-3786878-3	chr4	3786770	3786970	+	889.6555789999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 12 of 12)	intron (NM_001111096, intron 12 of 12)	48785.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	6.5	11.0	5.5	127.5	12.0	5.5	10.0	11.0
Merged-chr5-35747030-4	chr5	35746935	35747135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7048.0	NM_001359895	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	45.5	52.5	51.5	808.5	87.5	29.5	47.5	50.0
Merged-chr14-19778114-1	chr14	19778014	19778214	+	811.0	f0_balb.idr	exon (NM_008695, exon 5 of 21)	exon (NM_008695, exon 5 of 21)	26857.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	11.5	10.0	16.0	173.0	8.0	4.5	7.0	5.5
Merged-chr11-103984247-4	chr11	103984110	103984310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001304574, exon 5 of 5)	3' UTR (NM_001304574, exon 5 of 5)	17339.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	109.0	174.5	131.0	1620.5	262.0	117.5	100.0	104.5
Merged-chr2-34943912-4	chr2	34943809	34944009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001326601, exon 10 of 10)	exon (NM_001326601, exon 10 of 10)	17863.0	NM_009421	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	39.5	51.5	37.5	963.0	101.0	23.0	44.0	30.0
Merged-chr1-161076447-4	chr1	161076293	161076493	+	971.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131030, intron 2 of 4)	B1F2|SINE|Alu	5626.0	NR_131029	70454.0	Mm.248212	NM_027429	ENSMUSG00000026708	Cenpl	2610300B10Rik|AW121806|AW550697|CENP-L	centromere protein L	protein-coding	10.0	30.0	31.0	324.0	68.0	28.5	35.0	41.5
Merged-chr12-35047110-4	chr12	35047017	35047217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014973)	promoter-TSS (NM_001014973)	-72.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	68.5	119.0	76.5	1324.0	301.0	81.0	119.0	94.5
Merged-chr15-100604723-4	chr15	100604570	100604770	+	946.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4686.0	NM_001304965	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	18.0	26.0	3.0	198.0	31.0	4.5	8.5	24.5
Merged-chr18-6501448-3	chr18	6501374	6501574	+	921.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007935, intron 1 of 13)	B3|SINE|B2	-10617.0	NM_001276350	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	14.0	28.0	8.5	94.0	26.5	18.0	17.0	14.0
Merged-chr2-30134629-4	chr2	30134536	30134736	+	884.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146252, intron 1 of 11)	intron (NM_146252, intron 1 of 11)	890.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	7.0	24.0	3.5	218.0	23.5	7.0	12.0	12.5
Merged-chr14-103929983-4	chr14	103929906	103930106	+	974.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85530.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	21.0	15.0	16.5	326.0	45.0	20.5	11.5	19.5
Merged-chr19-46075928-4	chr19	46075842	46076042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053086)	promoter-TSS (NM_053086)	95.0	NM_001039351	70769.0	Mm.402190	NM_053086	ENSMUSG00000015176	Nolc1	NOPP130|NOPP140|P130	nucleolar and coiled-body phosphoprotein 1	protein-coding	204.5	279.0	111.5	1902.0	500.0	207.0	168.5	160.5
Merged-chr1-138160501-1	chr1	138160401	138160601	+	564.0	f0_balb.idr	intron (NM_001268286, intron 2 of 28)	Lx9|LINE|L1	14625.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	6.5	7.0	6.5	129.5	10.0	9.0	3.5	9.5
Merged-chr19-36348305-4	chr19	36348190	36348390	+	945.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30777.0	NM_029508	76073.0	Mm.259180	NM_029508	ENSMUSG00000024805	Pcgf5	0610009F02Rik|1110054A01Rik|5830406C17Rik|5830443C21Rik|9530023M17Rik|AI324127	polycomb group ring finger 5	protein-coding	16.0	28.5	34.5	294.5	42.0	11.0	16.0	10.5
Merged-chr6-54595185-4	chr6	54595067	54595267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164361)	promoter-TSS (NM_001164361)	56.0	NM_001164361	231999.0	Mm.35416	NM_001001335	ENSMUSG00000005225	Plekha8	6330400G01|AA517676|BC052360|Fapp-2|Fapp2	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 8	protein-coding	115.5	164.5	109.5	2061.0	212.5	83.0	106.0	109.0
Merged-chr1-59899821-3	chr1	59899716	59899916	+	872.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13190.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	11.0	5.0	5.0	197.0	29.5	3.5	8.5	7.5
Merged-chr4-88471735-3	chr4	88471623	88471823	+	649.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32797.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	9.0	9.5	10.0	84.5	19.0	3.0	4.5	11.0
Merged-chr11-70812651-6	chr11	70812562	70812762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045526)	promoter-TSS (NM_001045526)	-101.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	21.0	25.5	10.0	158.5	35.5	23.5	9.0	30.0
Merged-chr7-121281043-4	chr7	121280955	121281155	+	955.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111241.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	37.5	15.0	12.5	401.0	41.5	10.5	19.0	22.0
Merged-chr3-52361055-4	chr3	52360957	52361157	+	898.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92720.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	12.0	28.0	13.0	218.5	24.0	5.5	15.0	13.5
Merged-chr2-158502488-1	chr2	158502388	158502588	+	739.0	f1_balb.idr	promoter-TSS (NM_145635)	promoter-TSS (NM_145635)	-124.0	NM_145635	246747.0	Mm.28800	NM_145635	ENSMUSG00000044405	Adig	SMAF-1|Smaf1	adipogenin	protein-coding	7.0	5.0	6.5	35.0	3.5	3.5	3.5	4.5
Merged-chr7-143757120-4	chr7	143757033	143757233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9860.0	NM_203492	381974.0	Mm.297839	NM_203492	ENSMUSG00000050276	Mrgprg	Gm1098|Mrgg	MAS-related GPR, member G	protein-coding	18.0	52.0	41.5	417.0	66.5	20.5	30.5	43.0
Merged-chr13-60650145-4	chr13	60650021	60650221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	47910.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	65.5	56.0	57.0	947.5	105.0	47.5	40.5	30.0
Merged-chr6-50252878-4	chr6	50252765	50252965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018769, intron 1 of 9)	MLTR11B|LTR|ERVK	8904.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	60.0	71.0	126.0	1584.5	96.0	36.0	76.0	66.0
Merged-chr11-94161442-4	chr11	94161352	94161552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50002.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	58.0	100.0	50.5	859.5	99.0	38.5	51.5	40.5
Merged-chr17-34644726-4	chr17	34644636	34644836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019873)	promoter-TSS (NM_019873)	-147.0	NM_019873	56299.0	Mm.10025	NM_019873	ENSMUSG00000033739	Fkbpl	DIR1|NG7|Ppiase-X|Wisp39	FK506 binding protein-like	protein-coding	108.0	131.0	61.5	848.5	219.5	90.5	84.0	51.5
Merged-chr3-79565231-6	chr3	79565164	79565364	+	861.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	2415.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	24.0	29.5	19.5	261.0	76.0	34.0	25.5	37.5
Merged-chr4-151933632-4	chr4	151933511	151933711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172704)	promoter-TSS (NM_172704)	-109.0	NM_172704	230935.0	Mm.21353	NM_172704	ENSMUSG00000039768	Dnajc11	E030019A03Rik	DnaJ heat shock protein family (Hsp40) member C11	protein-coding	122.0	186.0	140.0	1555.0	405.0	142.0	142.0	148.5
Merged-chr7-73558623-4	chr7	73558531	73558731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037569)	promoter-TSS (NR_037569)	-236.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	360.0	534.5	448.5	5298.0	914.0	382.5	412.0	339.0
Merged-chr18-88894225-4	chr18	88894141	88894341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018821)	promoter-TSS (NM_018821)	-34.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	132.0	175.5	120.0	1932.0	264.0	123.0	187.5	102.0
Merged-chr5-140702292-4	chr5	140702208	140702408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028833)	promoter-TSS (NM_028833)	70.0	NM_028833	74239.0	Mm.179704	NM_028833	ENSMUSG00000036555	Iqce	1700028P05Rik|mKIAA1023	IQ motif containing E	protein-coding	54.0	64.5	40.5	642.5	129.0	48.5	42.0	39.5
Merged-chr2-153586736-4	chr2	153586636	153586836	+	867.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46045.0	NM_001195390	99311.0	Mm.294478	NM_133850	ENSMUSG00000056941	Commd7	2310010I22Rik|AW060956|mU3	COMM domain containing 7	protein-coding	11.0	19.0	6.5	153.5	32.0	14.0	17.0	19.0
Merged-chr2-102896608-1	chr2	102896508	102896708	+	562.0	f0_c57.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	5057.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	6.5	0.5	1.5	53.5	22.5	6.5	13.5	6.5
Merged-chr14-31188897-4	chr14	31188803	31189003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 7 of 13)	intron (NM_001347583, intron 7 of 13)	17923.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	104.0	207.5	125.0	1591.5	267.5	93.5	110.5	113.0
Merged-chr5-29258542-4	chr5	29258456	29258656	+	929.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020295, intron 11 of 16)	intron (NM_020295, intron 11 of 16)	62563.0	NR_110371	56874.0	Mm.87352	NM_021470	ENSMUSG00000029130	Rnf32	1700009J01Rik|2700025B22Rik|4930542N22Rik|Lmbr2	ring finger protein 32	protein-coding	15.0	34.0	11.0	261.5	38.0	12.0	31.5	28.5
Merged-chr13-105377209-4	chr13	105377110	105377310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66483.0	NM_008308	15550.0	Mm.4716	NM_008308	ENSMUSG00000021721	Htr1a	Gpcr18	5-hydroxytryptamine (serotonin) receptor 1A	protein-coding	45.0	90.5	25.5	703.5	138.5	39.5	63.0	45.5
Merged-chr5-146772168-4	chr5	146772076	146772276	+	980.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	22780.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	15.0	28.0	16.5	313.5	50.5	21.0	19.0	15.0
Merged-chr9-78471221-2	chr9	78471117	78471317	+	943.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026658, intron 11 of 11)	B2_Mm1a|SINE|B2	10507.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	10.5	8.0	8.0	8.5	20.5	6.0	8.0	6.0
Merged-chr3-59186572-3	chr3	59186493	59186693	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302203, intron 1 of 2)	intron (NM_001302203, intron 1 of 2)	8511.0	NM_001302203	84111.0	Mm.60267	NM_032399	ENSMUSG00000051431	Gpr87	-	G protein-coupled receptor 87	protein-coding	5.0	5.0	13.0	120.5	20.0	5.5	3.5	7.0
Merged-chr10-81173284-4	chr10	81173179	81173379	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3352.0	NM_007907	13629.0	Mm.2903	NM_007907	ENSMUSG00000034994	Eef2	Ef-2	eukaryotic translation elongation factor 2	protein-coding	44.5	46.5	15.0	605.5	88.5	39.5	34.5	44.5
Merged-chr6-140577607-4	chr6	140577497	140577697	+	693.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144920, intron 22 of 30)	intron (NM_144920, intron 22 of 30)	-45066.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	6.0	7.5	12.0	62.5	20.0	4.0	9.5	6.5
Merged-chr6-88627539-3	chr6	88627387	88627587	+	677.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278671)	promoter-TSS (NM_001278671)	-39.0	NM_001278671	74589.0	Mm.196226	NM_029013	ENSMUSG00000033182	Kbtbd12	4833415F11Rik|4933428M03Rik|Klhdc6	kelch repeat and BTB (POZ) domain containing 12	protein-coding	13.5	7.5	7.0	108.5	9.5	2.0	1.0	5.0
Merged-chr3-66985834-4	chr3	66985739	66985939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356273)	promoter-TSS (NM_001356273)	-128.0	NM_001356273	66880.0	Mm.316418	NM_025822	ENSMUSG00000034544	Rsrc1	1200013F24Rik|SRrp53	arginine/serine-rich coiled-coil 1	protein-coding	43.5	61.5	75.0	580.5	95.0	39.5	46.5	46.5
Merged-chr4-154942845-4	chr4	154942755	154942955	+	858.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14778.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	17.5	33.5	20.0	162.5	36.0	10.5	9.5	8.5
Merged-chr6-34876816-3	chr6	34876758	34876958	+	944.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135611, intron 1 of 3)	intron (NM_001135611, intron 1 of 3)	1207.0	NM_199145	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	15.0	11.5	21.5	151.5	10.5	3.0	9.5	6.5
Merged-chr3-45284080-3	chr3	45283983	45284183	+	902.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045172, intron 6 of 8)	intron (NR_045172, intron 6 of 8)	94177.0	NR_045172	72511.0	Mm.140700	NR_045172	ENSMUSG00000097040	2610316D01Rik	-	RIKEN cDNA 2610316D01 gene	ncRNA	11.0	11.0	8.0	122.5	14.5	3.5	4.5	9.5
Merged-chr8-105966101-4	chr8	105966003	105966203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253804)	promoter-TSS (NM_001253804)	12.0	NM_001253804	20498.0	Mm.292447	NM_009195	ENSMUSG00000017765	Slc12a4	AW546649|KCC1|RBCKCC1	solute carrier family 12, member 4	protein-coding	47.5	59.5	30.0	529.5	62.5	32.5	40.0	36.5
Merged-chr1-128103195-4	chr1	128103103	128103303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027678)	promoter-TSS (NM_027678)	-103.0	NM_181750	226412.0	Mm.221041	NM_181750	ENSMUSG00000056211	R3hdm1	R3hdm	R3H domain containing 1	protein-coding	338.5	507.0	375.0	5597.0	834.5	307.0	407.5	308.0
Merged-chr3-96636737-4	chr3	96636637	96636837	+	850.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162387, exon 2 of 5)	exon (NM_001162387, exon 2 of 5)	890.0	NM_001162388	18632.0	Mm.20901	NM_011069	ENSMUSG00000028102	Pex11b	PEX11beta|Pex11pbeta	peroxisomal biogenesis factor 11 beta	protein-coding	5.5	8.0	5.5	254.5	23.5	11.5	7.5	18.0
Merged-chr3-138521456-4	chr3	138521355	138521555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4736.0	NM_007917	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	25.5	32.5	33.5	463.5	74.5	39.0	34.0	39.0
Merged-chr1-152613836-4	chr1	152613710	152613910	+	986.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	11407.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	46.5	50.5	42.0	665.5	52.5	13.5	13.0	16.0
Merged-chr14-46742577-3	chr14	46742473	46742673	+	711.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-17968.0	NM_001360041	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	9.5	22.5	15.0	203.0	13.5	2.5	9.5	3.0
Merged-chr7-24608287-4	chr7	24608195	24608395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023154, intron 6 of 7)	intron (NM_023154, intron 6 of 7)	-3033.0	NM_001102613	232970.0	Mm.333663	NM_001102613	ENSMUSG00000074277	Phldb3	EG232970|Gm10102	pleckstrin homology like domain, family B, member 3	protein-coding	62.5	104.0	47.0	1047.5	213.0	63.5	123.5	70.0
Merged-chr5-140748559-4	chr5	140748452	140748652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 5 of 7)	intron (NM_173405, intron 5 of 7)	24425.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	72.5	64.0	62.0	1085.5	91.5	28.0	37.5	53.0
Merged-chr12-31499785-7	chr12	31499643	31499843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134048)	promoter-TSS (NM_134048)	-127.0	NM_001253848	104836.0	Mm.273270	NM_134048	ENSMUSG00000020659	Cbll1	AI467391|Hakai|c-Cbl-like	Casitas B-lineage lymphoma-like 1	protein-coding	47.5	88.5	96.0	895.0	131.5	55.5	47.0	82.0
Merged-chr9-90272738-4	chr9	90272652	90272852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1983.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	91.5	109.5	114.5	1826.5	365.5	110.5	193.0	149.5
Merged-chr10-80570916-6	chr10	80570679	80570879	+	943.086121	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_078477, intron 1 of 1)	intron (NM_078477, intron 1 of 1)	6517.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	1.5	6.0	3.0	14.5	12.0	7.0	6.0	5.5
Merged-chr11-114830190-4	chr11	114830037	114830237	+	916.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21395.0	NM_001110337	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	9.5	13.5	11.0	111.5	29.5	12.0	6.0	9.0
Merged-chr10-24823967-5	chr10	24823859	24824059	+	969.904785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134005, intron 4 of 24)	intron (NM_134005, intron 4 of 24)	12236.0	NM_134005	209558.0	Mm.338425	NM_134005	ENSMUSG00000019989	Enpp3	AI876438|CD203c	ectonucleotide pyrophosphatase/phosphodiesterase 3	protein-coding	9.5	29.5	16.5	159.0	45.0	30.0	15.0	14.5
Merged-chr12-76404188-4	chr12	76404109	76404309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008301)	promoter-TSS (NM_008301)	33.0	NM_001002012	15512.0	Mm.296181	NM_008301	ENSMUSG00000059970	Hspa2	70kDa|HSP70.2|HSP70A2|Hsp70-2	heat shock protein 2	protein-coding	312.0	402.5	329.5	4795.5	820.5	352.0	366.0	354.0
Merged-chr15-83086100-4	chr15	83085993	83086193	+	886.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14112.0	NM_023475	68607.0	Mm.30056	NM_023475	ENSMUSG00000058586	Serhl	0610008B10Rik|1110019M09Rik|AU019786	serine hydrolase-like	protein-coding	12.0	34.5	18.5	152.0	66.0	9.5	13.0	33.0
Merged-chr19-4031120-2	chr19	4031020	4031220	+	702.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	6792.0	NM_013541	14870.0	Mm.299292	NM_013541	ENSMUSG00000060803	Gstp1	GstpiB	glutathione S-transferase, pi 1	protein-coding	10.0	5.0	6.5	37.0	21.0	2.0	3.0	9.0
Merged-chr4-65545716-4	chr4	65545625	65545825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207109, intron 17 of 22)	Lx9|LINE|L1	-59261.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	79.5	71.5	98.5	1151.5	144.0	48.5	67.5	69.5
Merged-chr17-28192853-3	chr17	28192744	28192944	+	947.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357995, intron 2 of 13)	intron (NM_001357995, intron 2 of 13)	-14934.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	3.0	4.0	2.0	31.5	25.0	8.5	13.0	10.5
Merged-chr13-78237307-4	chr13	78237203	78237403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045195)	TTS (NR_045195)	-38430.0	NM_010151	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	26.5	38.0	42.0	351.0	71.0	17.0	25.5	33.0
Merged-chr12-33158426-4	chr12	33158296	33158496	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	intron (NM_028139, intron 2 of 3)	10710.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	12.5	23.5	4.0	72.5	59.0	13.5	10.0	22.0
Merged-chr11-121801370-4	chr11	121801283	121801483	+	957.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-28835.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	9.0	17.0	26.0	328.0	41.0	4.0	27.5	17.5
Merged-chr13-45001609-4	chr13	45001458	45001658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 1 of 9)	intron (NM_025772, intron 1 of 9)	538.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	63.5	103.0	74.0	881.5	110.0	39.5	31.5	51.0
Merged-chr5-117904164-4	chr5	117904051	117904251	+	942.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 8 of 27)	intron (NM_008712, intron 8 of 27)	37312.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	11.5	14.0	20.0	285.5	38.0	15.0	22.0	12.5
Merged-chr7-71873110-3	chr7	71873034	71873234	+	915.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36561.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	10.0	8.5	12.5	130.5	0.5	0.5	4.5	4.5
Merged-chr15-55106733-4	chr15	55106617	55106817	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045093, intron 4 of 4)	intron (NR_045093, intron 4 of 4)	-5600.0	NM_145470	97998.0	Mm.295397	NM_145470	ENSMUSG00000022419	Deptor	Depdc6	DEP domain containing MTOR-interacting protein	protein-coding	21.0	29.5	14.5	342.5	44.5	18.0	29.0	14.5
Merged-chr12-85599318-4	chr12	85599220	85599420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030887)	promoter-TSS (NM_030887)	-96.0	NM_030887	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	121.5	242.5	168.0	2573.0	316.5	141.5	204.0	114.5
Merged-chr7-132610659-4	chr7	132610563	132610763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029609)	promoter-TSS (NM_029609)	20.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	64.0	158.0	114.0	977.5	169.5	87.5	78.5	70.0
Merged-chr4-133814839-2	chr4	133814747	133814947	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59884.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	13.5	30.0	9.0	87.0	20.5	15.0	8.0	18.0
Merged-chr5-115897270-4	chr5	115897193	115897393	+	945.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007708, intron 8 of 46)	intron (NM_007708, intron 8 of 46)	51637.0	NM_007708	12704.0	Mm.8321	NM_007708	ENSMUSG00000029516	Cit	C030025P15Rik|CRIK|CRIK-SK|Cit-k	citron	protein-coding	13.5	31.0	16.0	210.0	34.5	7.5	13.0	21.5
Merged-chr1-105748532-3	chr1	105748429	105748629	+	723.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173187, intron 26 of 28)	intron (NM_173187, intron 26 of 28)	-32194.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	13.0	8.5	9.5	55.0	20.5	8.5	6.5	8.5
Merged-chr5-75155879-3	chr5	75155780	75155980	+	678.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083316)	promoter-TSS (NM_001083316)	-286.0	NM_001083316	18595.0	Mm.221403	NM_011058	ENSMUSG00000029231	Pdgfra	AI115593|CD140a|Pdgfr-2	platelet derived growth factor receptor, alpha polypeptide	protein-coding	5.0	9.0	9.5	91.0	13.5	1.5	4.0	9.0
Merged-chr11-84798108-2	chr11	84798008	84798208	+	987.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21407.0	NM_145433	217038.0	Mm.280825	NM_145433	ENSMUSG00000018405	Mrm1	A530065E19Rik	mitochondrial rRNA methyltransferase 1	protein-coding	6.5	3.0	0.5	54.0	25.0	12.5	8.0	10.0
Merged-chr6-135011575-4	chr6	135011474	135011674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026360)	promoter-TSS (NM_026360)	-38.0	NM_026360	67755.0	Mm.166524	NM_026360	ENSMUSG00000030204	Ddx47	4930588A18Rik|C77285	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	protein-coding	113.5	139.5	80.5	1402.0	252.5	76.0	119.5	106.5
Merged-chr15-78810343-4	chr15	78810204	78810404	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G|LTR|ERVL-MaLR	-7262.0	NM_130859	105844.0	Mm.17629	NM_130859	ENSMUSG00000033170	Card10	AI449026|Bimp1|Carma3	caspase recruitment domain family, member 10	protein-coding	11.0	26.5	8.5	227.0	27.5	14.5	24.5	11.5
Merged-chr3-31097975-3	chr3	31097846	31098046	+	828.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011386, exon 2 of 7)	exon (NM_011386, exon 2 of 7)	2888.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	3.5	11.0	2.5	43.0	13.0	7.5	9.0	12.0
Merged-chr17-8920557-3	chr17	8920467	8920667	+	828.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 3 of 21)	intron (NM_001347321, intron 3 of 21)	-67766.0	NM_025851	66931.0	Mm.67591	NM_025851	ENSMUSG00000023873	1700010I14Rik	-	RIKEN cDNA 1700010I14 gene	protein-coding	8.5	11.0	17.5	235.5	2.5	3.0	0.5	4.0
Merged-chr2-37443254-4	chr2	37443086	37443286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146121)	promoter-TSS (NM_146121)	-65.0	NM_199025	320633.0	Mm.383299	NM_199025	ENSMUSG00000050714	Zbtb26	A630026F21Rik	zinc finger and BTB domain containing 26	protein-coding	118.0	166.0	90.0	1564.5	315.0	107.5	131.0	91.5
Merged-chr14-8109157-3	chr14	8109073	8109273	+	745.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	RMER15|LTR|ERVL	10962.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	2.5	4.0	2.5	119.5	8.5	7.0	10.5	5.5
Merged-chr6-72929999-2	chr6	72929899	72930099	+	566.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	28233.0	NM_001039392	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	0.0	8.5	6.5	19.5	17.0	9.0	7.5	8.5
Merged-chr1-167349322-4	chr1	167349245	167349445	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019993)	promoter-TSS (NM_019993)	-646.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	8.0	24.0	19.0	48.0	44.5	13.5	21.0	11.0
Merged-chr10-68738428-2	chr10	68738328	68738528	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	MTE2a|LTR|ERVL-MaLR	14682.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	8.0	4.5	11.0	64.5	10.5	1.0	5.5	4.0
Merged-chr12-100764911-3	chr12	100764807	100765007	+	668.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14150.0	NM_001361023	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	6.5	6.0	5.0	129.5	14.0	6.5	6.5	10.0
Merged-chr4-129794127-3	chr4	129793969	129794169	+	980.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26410.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	6.5	14.5	3.5	65.5	47.0	11.5	7.5	12.0
Merged-chr2-4480359-2	chr2	4480259	4480459	+	636.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 3 of 23)	RMER1B|Other|Other	79383.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	0.0	3.5	9.0	30.0	19.5	5.0	8.5	14.5
Merged-chr4-43925802-4	chr4	43925634	43925834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016678, intron 12 of 20)	intron (NM_016678, intron 12 of 20)	-31968.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	46.5	92.5	39.0	403.0	149.5	57.0	59.5	56.0
Merged-chr3-95672663-4	chr3	95672561	95672761	+	940.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13940.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	22.5	27.0	18.5	353.5	43.5	12.0	13.0	22.0
Merged-chr2-32876875-3	chr2	32876764	32876964	+	787.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146119, intron 1 of 13)	intron (NM_146119, intron 1 of 13)	730.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	6.5	10.0	18.5	129.0	10.5	2.5	5.0	4.5
Merged-chr13-42328739-4	chr13	42328641	42328841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27265.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	123.0	128.0	162.0	1573.0	220.0	138.0	150.0	167.5
Merged-chr10-80679751-3	chr10	80679647	80679847	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3454.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	7.0	7.5	5.0	85.5	16.5	4.5	4.0	10.5
Merged-chr13-42015693-4	chr13	42015597	42015797	+	933.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36324.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	14.5	30.5	10.0	176.5	35.0	18.5	21.5	9.0
Merged-chr10-78426567-4	chr10	78426479	78426679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007793, intron 1 of 2)	intron (NM_007793, intron 1 of 2)	909.0	NM_007793	13014.0	Mm.6095	NM_007793	ENSMUSG00000005054	Cstb	AA960480|Stfb	cystatin B	protein-coding	45.5	66.0	33.5	480.5	97.5	40.5	30.0	44.5
Merged-chr14-21981643-4	chr14	21981529	21981729	+	891.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7972.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	7.0	14.5	8.0	153.0	39.5	5.5	20.5	17.5
Merged-chr4-129875597-2	chr4	129875497	129875697	+	846.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30629.0	NR_045190	319894.0	Mm.59196	NR_045190	ENSMUSG00000086369	E330017L17Rik	-	RIKEN cDNA E330017L17 gene	ncRNA	8.0	8.0	4.5	54.5	14.0	1.0	7.5	2.5
Merged-chr11-100344487-4	chr11	100344377	100344577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	10070.0	NM_010257	14459.0	Mm.4767	NM_010257	ENSMUSG00000017165	Gast	GAS	gastrin	protein-coding	114.5	125.5	76.5	818.5	199.0	99.5	82.5	90.5
Merged-chr11-70598705-3	chr11	70598592	70598792	+	817.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 2 of 30)	intron (NM_016713, intron 2 of 30)	-17202.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	8.5	11.0	5.5	98.5	22.5	3.0	2.0	2.0
Merged-chr12-111416925-4	chr12	111416842	111417042	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028807)	promoter-TSS (NM_028807)	-488.0	NM_001289487	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	17.0	76.0	34.0	295.5	107.5	40.5	53.5	22.0
Merged-chr19-5406590-1	chr19	5406490	5406690	+	1000.0	f0_c57.idr	promoter-TSS (NR_015545)	promoter-TSS (NR_015545)	-225.0	NR_015545	74931.0	Mm.388511	NR_015545	ENSMUSG00000086938	4930481A15Rik	-	RIKEN cDNA 4930481A15 gene	ncRNA	0.0	0.0	0.0	0.0	73.0	14.0	29.0	20.0
Merged-chr8-110075633-1	chr8	110075533	110075733	+	675.0	f0_balb.idr	Intergenic	Intergenic	-4101.0	NM_175480	234725.0	Mm.87487	NM_175480	ENSMUSG00000044676	Zfp612	B230354B21Rik	zinc finger protein 612	protein-coding	9.0	10.0	6.5	131.0	4.0	1.0	2.0	6.5
Merged-chr19-37178029-4	chr19	37177894	37178094	+	907.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045329, intron 2 of 2)	intron (NR_045329, intron 2 of 2)	-1931.0	NM_001290826	208922.0	Mm.391176	NM_198300	ENSMUSG00000039652	Cpeb3	4831444O18Rik|CPE-BP3|mKIAA0940	cytoplasmic polyadenylation element binding protein 3	protein-coding	6.0	7.5	14.0	52.5	20.5	4.5	13.5	8.0
Merged-chr9-55244307-4	chr9	55244207	55244407	+	845.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	intron (NM_032002, intron 3 of 7)	35372.0	NM_028049	71999.0	Mm.276429	NM_028049	ENSMUSG00000032309	Fbxo22	0610033L19Rik|1600016C16Rik	F-box protein 22	protein-coding	17.5	11.5	13.0	189.0	28.0	7.0	8.0	7.5
Merged-chr8-25715437-3	chr8	25715331	25715531	+	815.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081269, exon 23 of 23)	3' UTR (NM_001081269, exon 23 of 23)	-4617.0	NR_121642	71910.0	Mm.385055	NM_028000	ENSMUSG00000031570	Plpp5	1810019D05Rik|2310022A04Rik|AW045471|Ppapdc1|Ppapdc1b	phospholipid phosphatase 5	protein-coding	8.5	11.5	5.0	105.5	7.0	5.0	1.0	1.0
Merged-chr8-77388391-3	chr8	77388281	77388481	+	734.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 11 of 22)	intron (NM_030113, intron 11 of 22)	-128675.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	3.5	7.0	8.0	95.0	10.5	4.5	5.0	6.5
Merged-chr18-23754571-4	chr18	23754486	23754686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 1 of 7)	intron (NM_001162941, intron 1 of 7)	861.0	NM_001162941	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	64.5	81.5	48.0	733.5	360.0	126.5	132.5	124.0
Merged-chr3-60501275-4	chr3	60501212	60501412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001253710, exon 1 of 8)	5' UTR (NM_001253710, exon 1 of 8)	133.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	54.5	66.5	54.0	700.5	138.5	73.0	54.5	46.0
Merged-chr10-67097033-7	chr10	67096906	67097106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204915)	promoter-TSS (NM_001204915)	-18.0	NM_178606	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	22.5	50.0	33.0	403.0	67.5	31.5	30.0	34.0
Merged-chr5-31772766-3	chr5	31772656	31772856	+	684.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 3 of 11)	L1ME1|LINE|L1	74706.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	9.5	13.5	4.0	89.0	24.5	8.5	7.0	10.5
Merged-chr7-140127208-3	chr7	140127139	140127339	+	881.357178	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153783, intron 2 of 6)	intron (NM_153783, intron 2 of 6)	1554.0	NM_153783	212503.0	Mm.486735	NM_153783	ENSMUSG00000025464	Paox	2410012F02Rik|AI118225|Pao	polyamine oxidase (exo-N4-amino)	protein-coding	11.5	7.0	5.0	99.5	16.5	4.0	3.0	6.5
Merged-chr4-40217986-4	chr4	40217882	40218082	+	796.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172689, intron 10 of 17)	B2_Mm1a|SINE|B2	21843.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	3.0	12.5	13.5	153.5	30.5	9.5	14.5	12.5
Merged-chr13-44416198-3	chr13	44416089	44416289	+	975.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23538.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	17.0	22.5	9.0	238.5	18.0	8.0	6.5	8.5
Merged-chr9-20952856-5	chr9	20952712	20952912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199433)	promoter-TSS (NM_001199433)	167.0	NM_010066	13433.0	Mm.128580	NM_010066	ENSMUSG00000004099	Dnmt1	Cxxc9|Dnmt|Dnmt1o|MCMT|MTase|Met-1|Met1|MommeD2|m.MmuI	DNA methyltransferase (cytosine-5) 1	protein-coding	41.0	78.5	72.5	601.0	108.0	40.5	35.5	44.5
Merged-chr5-117360745-4	chr5	117360630	117360830	+	946.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 1 of 8)	intron (NM_021539, intron 1 of 8)	3425.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	25.0	15.0	22.0	624.0	63.5	14.0	10.5	24.5
Merged-chr4-141419565-4	chr4	141419456	141419656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1223.0	NM_013868	29818.0	Mm.46181	NM_013868	ENSMUSG00000006221	Hspb7	27kDa|Hsp25-2|cvHsp	heat shock protein family, member 7 (cardiovascular)	protein-coding	49.5	60.0	43.0	580.5	86.0	53.0	55.0	45.5
Merged-chr10-8792571-4	chr10	8792466	8792666	+	967.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 4 of 19)	intron (NM_175155, intron 4 of 19)	93504.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	31.0	34.5	16.0	414.5	58.0	18.5	29.5	18.5
Merged-chr8-85299719-5	chr8	85299611	85299811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022997)	promoter-TSS (NM_022997)	79.0	NR_028268	56452.0	Mm.29709	NM_019716	ENSMUSG00000031697	Orc6	6720420I10Rik|Orc6l	origin recognition complex, subunit 6	protein-coding	73.5	87.0	83.0	771.5	163.0	72.0	75.0	84.0
Merged-chr9-63377850-4	chr9	63377744	63377944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011840)	promoter-TSS (NM_011840)	8.0	NM_011840	23938.0	Mm.325746	NM_011840	ENSMUSG00000058444	Map2k5	AI324775|AI428457|MEK5|Mapkk5|Prkmk5	mitogen-activated protein kinase kinase 5	protein-coding	41.5	48.0	49.0	508.5	73.5	32.0	23.0	38.5
Merged-chr16-46022697-4	chr16	46022546	46022746	+	750.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12233.0	NM_001134480	433022.0	Mm.380993	NM_001134480	ENSMUSG00000087141	Plcxd2	AW494639|EG433022	phosphatidylinositol-specific phospholipase C, X domain containing 2	protein-coding	8.0	11.5	11.0	142.5	16.0	11.5	3.5	5.5
Merged-chr15-103342627-4	chr15	103342517	103342717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2531.0	NM_013866	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	26.0	47.5	6.5	272.5	73.5	19.0	21.0	12.5
Merged-chr12-85487050-4	chr12	85487053	85487253	+	879.131226	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13263.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	6.5	7.5	6.5	75.5	16.5	6.0	12.0	11.0
Merged-chr2-136678858-3	chr2	136678748	136678948	+	890.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34602.0	NM_011428	20614.0	Mm.45953	NM_011428	ENSMUSG00000027273	Snap25	Bdr|GENA70|SNAP-25|SUP|sp	synaptosomal-associated protein 25	protein-coding	16.5	19.5	17.5	272.5	6.0	0.0	0.0	6.5
Merged-chr3-100430518-4	chr3	100430394	100430594	+	899.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040543, intron 2 of 2)	intron (NR_040543, intron 2 of 2)	4089.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	1.0	8.0	16.0	228.5	31.5	11.0	9.5	8.5
Merged-chr10-44005884-4	chr10	44005785	44005985	+	781.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1039.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	10.0	15.0	5.0	103.0	31.5	11.5	12.0	13.0
Merged-chr13-34082742-4	chr13	34082669	34082869	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-4761.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	34.0	142.0	53.0	211.5	84.5	49.0	26.5	16.5
Merged-chr12-32897699-4	chr12	32897619	32897819	+	923.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56070.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	14.5	27.0	17.0	163.0	34.5	8.0	9.5	10.5
Merged-chr6-126853236-4	chr6	126853128	126853328	+	988.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009650, exon 1 of 6)	5' UTR (NM_009650, exon 1 of 6)	130.0	NM_009650	11642.0	Mm.87748	NM_009650	ENSMUSG00000030344	Akap3	Prka3	A kinase (PRKA) anchor protein 3	protein-coding	19.5	19.0	30.0	351.0	38.5	10.0	13.5	26.0
Merged-chr2-172437778-4	chr2	172437672	172437872	+	974.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2806.0	NM_025542	66404.0	Mm.25157	NM_025542	ENSMUSG00000027502	Rtf2	1700067C04Rik|2410001C21Rik|5730427M17Rik|AA589417|Rtfdc1	replication termination factor 2	protein-coding	23.0	35.5	36.0	479.5	40.0	9.5	22.5	20.0
Merged-chr7-44837092-4	chr7	44836961	44837161	+	968.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171024, intron 4 of 8)	intron (NM_001171024, intron 4 of 8)	773.0	NM_010215	14204.0	Mm.2565	NM_010215	ENSMUSG00000074141	Il4i1	Fig1|Fig1-ps|LAAO|LAO	interleukin 4 induced 1	protein-coding	11.0	20.0	7.5	40.5	33.5	12.5	9.0	6.0
Merged-chr19-6857486-4	chr19	6857355	6857555	+	866.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081291, exon 3 of 27)	exon (NM_001081291, exon 3 of 27)	756.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	3.5	11.5	8.5	8.5	26.5	8.0	4.5	8.0
Merged-chr4-35120315-4	chr4	35120207	35120407	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-31748.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	14.5	42.0	17.5	152.0	59.5	9.0	34.5	15.5
Merged-chr5-22898776-3	chr5	22898686	22898886	+	930.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	MIR3|SINE|MIR	-151902.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	3.0	1.0	0.0	3.5	97.0	31.5	34.0	34.0
Merged-chr13-70637775-3	chr13	70637680	70637880	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144837)	promoter-TSS (NM_144837)	-146.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	78.5	105.5	92.0	1307.5	185.0	77.0	96.0	100.5
Merged-chr11-29885386-4	chr11	29885281	29885481	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 5 of 41)	intron (NM_146016, intron 5 of 41)	-59713.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	25.0	32.5	11.0	383.0	63.5	26.5	23.5	30.0
Merged-chr1-144004245-4	chr1	144004151	144004351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009061)	promoter-TSS (NM_009061)	-102.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	347.5	542.0	353.0	5519.0	894.0	377.5	534.5	346.5
Merged-chr2-179976840-4	chr2	179976735	179976935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033782)	promoter-TSS (NR_033782)	-18.0	NR_033782	66730.0	Mm.31773	NR_033782	ENSMUSG00000085704	4921531C22Rik	-	RIKEN cDNA 4921531C22 gene	ncRNA	79.0	179.5	53.5	1011.0	244.5	94.5	93.0	64.5
Merged-chr7-80202115-4	chr7	80202007	80202207	+	963.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	3666.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	21.0	26.5	32.5	772.0	39.5	13.0	17.5	29.0
Merged-chr4-126554665-4	chr4	126554571	126554771	+	906.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-2309.0	NM_175554	269582.0	Mm.243962	NM_175554	ENSMUSG00000042489	Clspn	B130025E01|C85083|E130314M08Rik	claspin	protein-coding	12.0	17.5	8.5	217.0	45.5	19.5	17.0	14.5
Merged-chr4-107314334-4	chr4	107314225	107314425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145550)	promoter-TSS (NM_145550)	-38.0	NM_145550	230584.0	Mm.29118	NM_145550	ENSMUSG00000057375	Yipf1	C030002N13Rik	Yip1 domain family, member 1	protein-coding	91.0	127.5	80.5	1433.0	181.5	56.5	98.0	71.5
Merged-chr19-41374777-4	chr19	41374677	41374877	+	980.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	10293.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	17.5	28.0	20.0	216.5	51.0	15.0	30.5	9.0
Merged-chr7-73596609-4	chr7	73596489	73596689	+	957.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-38194.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	20.5	37.5	15.5	223.5	61.5	15.0	26.0	15.0
Merged-chr13-43554826-4	chr13	43554723	43554923	+	955.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081059, intron 2 of 8)	intron (NM_001081059, intron 2 of 8)	5368.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	48.5	33.0	19.5	223.0	41.0	5.5	10.0	19.5
Merged-chr8-26963520-4	chr8	26963420	26963620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13816.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	148.5	270.5	161.0	2342.5	348.0	142.5	162.5	117.0
Merged-chr7-139950554-4	chr7	139950485	139950685	+	870.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6729.0	NM_009482	22286.0	Mm.10205	NM_009482	ENSMUSG00000047751	Utf1	AI505934	undifferentiated embryonic cell transcription factor 1	protein-coding	9.0	10.0	17.0	115.0	27.5	4.0	9.5	17.0
Merged-chr14-76959069-2	chr14	76958958	76959158	+	823.916626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	77559.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	12.0	20.0	17.0	267.5	2.5	5.0	5.0	3.0
Merged-chr4-45408788-4	chr4	45408682	45408882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001009949)	promoter-TSS (NM_001009949)	-16.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	92.5	165.0	65.0	1401.0	393.5	158.0	187.5	187.0
Merged-chr10-80051963-9	chr10	80051860	80052060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110342, intron 2 of 6)	intron (NR_110342, intron 2 of 6)	-1528.0	NM_008162	625249.0	Mm.332810	NM_008162	ENSMUSG00000075706	Gpx4	GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx	glutathione peroxidase 4	protein-coding	36.5	42.0	36.5	611.0	55.0	23.5	19.5	41.0
Merged-chr10-43996408-4	chr10	43996300	43996500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172393, intron 2 of 19)	intron (NM_172393, intron 2 of 19)	8446.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	109.0	142.0	105.5	1228.5	243.5	107.5	110.0	60.5
Merged-chr1-72429399-4	chr1	72429300	72429500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045533, intron 3 of 3)	intron (NM_001045533, intron 3 of 3)	107164.0	NM_001045533	381270.0	Mm.337023	NM_001045533	ENSMUSG00000039372	March4	BC056494|mKIAA1399	membrane-associated ring finger (C3HC4) 4	protein-coding	70.5	87.5	92.5	1747.5	221.5	52.5	72.0	55.0
Merged-chr13-51323284-4	chr13	51323181	51323381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-85337.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	47.0	56.0	68.5	1022.0	76.5	35.5	57.5	44.0
Merged-chr16-75855631-4	chr16	75855534	75855734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53632.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	226.0	316.5	204.0	3640.5	546.5	196.0	213.0	179.5
Merged-chr6-88904955-8	chr6	88904872	88905072	+	952.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011906, intron 1 of 11)	intron (NM_011906, intron 1 of 11)	2721.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	12.5	10.5	24.5	342.0	28.0	6.0	8.5	11.0
Merged-chr2-122156192-5	chr2	122156229	122156429	+	952.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	intron (NM_026251, intron 2 of 17)	-4371.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	5.0	20.5	5.5	91.0	25.0	5.0	3.5	11.5
Merged-chr9-24510674-4	chr9	24510575	24510775	+	902.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7535.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	17.5	16.0	12.0	399.0	26.0	4.0	7.5	11.0
Merged-chr10-19691470-1	chr10	19691370	19691570	+	787.0	f0_balb.idr	Intergenic	Intergenic	-21117.0	NM_172786	237313.0	Mm.234667	NM_172786	ENSMUSG00000020007	Il20ra	E230031K19	interleukin 20 receptor, alpha	protein-coding	3.5	7.0	8.5	99.0	7.5	5.0	5.0	6.0
Merged-chr5-43103219-1	chr5	43103119	43103319	+	746.0	f0_balb.idr	Intergenic	B4A|SINE|B4	-130244.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	9.5	8.0	4.5	185.0	0.5	2.0	4.0	1.0
Merged-chr18-52270614-3	chr18	52270519	52270719	+	978.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-60917.0	NM_026286	67634.0	Mm.179144	NM_026286	ENSMUSG00000024510	Ftmt	4930447C24Rik|FerH|Fth3|MtF	ferritin mitochondrial	protein-coding	22.0	18.5	28.5	434.5	1.5	1.5	13.0	5.5
Merged-chr9-56744562-3	chr9	56744464	56744664	+	658.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181074, intron 2 of 6)	intron (NM_181074, intron 2 of 6)	51746.0	NM_001361118	235402.0	Mm.246605	NM_181074	ENSMUSG00000049556	Lingo1	4930471K13Rik|AV148400|LERN1|LINGO-1|Lrrn6a|UNQ201	leucine rich repeat and Ig domain containing 1	protein-coding	2.0	8.5	11.0	82.5	14.5	5.5	8.0	6.0
Merged-chr14-7987103-4	chr14	7987004	7987204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007870, intron 2 of 7)	intron (NM_007870, intron 2 of 7)	7078.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	63.0	70.0	69.5	819.0	194.0	47.5	50.0	58.0
Merged-chr11-64065381-3	chr11	64065278	64065478	+	909.4722289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178379, intron 3 of 6)	intron (NM_178379, intron 3 of 6)	14094.0	NM_178379	70383.0	Mm.340211	NM_178379	ENSMUSG00000042148	Cox10	2410004F01Rik|AU042636	cytochrome c oxidase assembly protein 10	protein-coding	1.0	3.5	0.0	85.5	74.0	8.5	36.0	16.0
Merged-chr4-133650188-4	chr4	133650083	133650283	+	908.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	-16754.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	13.0	18.5	10.5	197.5	51.5	17.5	18.5	15.5
Merged-chr5-76524842-4	chr5	76524762	76524962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4445.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	24.5	50.5	59.5	661.0	86.0	39.0	50.5	43.0
Merged-chr5-136202007-2	chr5	136201907	136202107	+	995.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3053.0	NM_025774	66801.0	Mm.425295	NM_025774	ENSMUSG00000039737	Prkrip1	8430424D23Rik|C114	Prkr interacting protein 1 (IL11 inducible)	protein-coding	7.0	8.0	5.5	40.0	15.0	7.5	9.5	9.0
Merged-chr4-59441449-4	chr4	59441285	59441485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-2752.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	45.0	50.5	45.0	624.5	103.0	30.0	38.0	40.0
Merged-chr8-115632378-4	chr8	115632273	115632473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74521.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	51.5	30.0	20.0	257.0	72.5	29.0	29.0	9.0
Merged-chr19-43931113-3	chr19	43930997	43931197	+	919.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 1 of 15)	intron (NM_028029, intron 1 of 15)	9101.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	19.0	17.0	16.0	193.5	8.5	9.5	6.5	7.5
Merged-chr14-51026925-3	chr14	51026829	51027029	+	780.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14938.0	NM_183032	328401.0	Mm.99528	NM_183032	ENSMUSG00000052382	Rnase9	ESRL|Rak1	ribonuclease, RNase A family, 9 (non-active)	protein-coding	15.0	20.5	8.5	186.0	48.5	9.0	9.0	6.5
Merged-chr13-67378258-1	chr13	67378158	67378358	+	628.0	f1_c57bl6.idr	Intergenic	RLTR13B3|LTR|ERVK	-2495.0	NM_001001186	408065.0	Mm.461583	NM_001001186	ENSMUSG00000078995	Zfp456	BC065418|Rslcan-13	zinc finger protein 456	protein-coding	0.0	0.0	0.5	0.0	30.0	6.0	8.5	7.0
Merged-chr15-99820108-4	chr15	99820017	99820217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023063)	promoter-TSS (NM_023063)	32.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	37.5	45.0	21.0	406.0	130.0	44.5	46.0	37.5
Merged-chr12-12225841-4	chr12	12225735	12225935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36304.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	113.0	152.0	144.0	2073.5	442.5	157.0	158.5	178.0
Merged-chr8-107096551-4	chr8	107096465	107096665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286200)	promoter-TSS (NM_001286200)	-20.0	NR_104410	21750.0	Mm.6402	NM_009353	ENSMUSG00000031921	Terf2	TRF2	telomeric repeat binding factor 2	protein-coding	95.0	180.0	88.0	1642.5	319.5	121.5	148.0	114.5
Merged-chr11-72467198-4	chr11	72467120	72467320	+	956.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153060, intron 2 of 12)	MIRc|SINE|MIR	7807.0	NM_001276383	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	20.5	34.5	32.0	239.5	33.0	12.0	23.5	21.5
Merged-chr2-155382185-4	chr2	155382098	155382298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178111, intron 1 of 3)	CpG	342.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	117.0	173.5	64.0	1385.5	265.5	88.5	101.0	118.5
Merged-chr13-102645028-3	chr13	102644934	102645134	+	852.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48513.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	6.0	9.0	4.5	69.5	9.5	5.0	6.5	7.5
Merged-chr12-86241788-4	chr12	86241707	86241907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324488)	promoter-TSS (NM_001324488)	-51.0	NM_027405	70373.0	Mm.252967	NM_027405	ENSMUSG00000021254	Gpatch2l	1700020O03Rik|4732487G21Rik|A630090I05Rik|Kiaa1152	G patch domain containing 2 like	protein-coding	249.0	396.5	195.0	2743.0	459.0	161.5	205.0	162.0
Merged-chr13-73937835-4	chr13	73937741	73937941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027182)	promoter-TSS (NM_027182)	30.0	NM_001308041	105246.0	Mm.278509	NM_001024508	ENSMUSG00000057649	Brd9	AL022779	bromodomain containing 9	protein-coding	101.5	141.5	145.0	1386.0	217.0	122.5	137.0	120.5
Merged-chr5-67823848-4	chr5	67823711	67823911	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	23620.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	17.0	12.5	17.0	345.0	34.5	14.5	16.5	25.0
Merged-chr10-51571415-4	chr10	51571324	51571524	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	19036.0	NM_029894	77296.0	Mm.30588	NM_029894	ENSMUSG00000019909	Fam162b	9430073N08Rik	family with sequence similarity 162, member B	protein-coding	20.0	24.0	23.5	334.0	22.5	7.5	17.0	18.5
Merged-chr8-72474604-2	chr8	72474479	72474679	+	948.0	f0_balb.idr|f0_c57.idr	intron (NM_001359024, intron 2 of 17)	intron (NM_001359024, intron 2 of 17)	654.0	NM_001359024	27967.0	Mm.30136	NM_138585	ENSMUSG00000052488	Cherp	5730408I11Rik|D8Wsu96e|DAN16|Scaf6	calcium homeostasis endoplasmic reticulum protein	protein-coding	9.0	24.0	13.0	223.5	33.0	16.5	19.5	25.0
Merged-chr16-90385861-3	chr16	90385761	90385961	+	939.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015755)	promoter-TSS (NM_015755)	-536.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	8.5	14.5	5.0	146.0	7.5	9.5	6.5	17.0
Merged-chr2-79339262-3	chr2	79339165	79339365	+	862.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048176, intron 10 of 12)	intron (NM_001048176, intron 10 of 12)	83839.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	10.0	11.0	6.0	96.0	14.0	3.0	4.0	6.5
Merged-chr11-50244658-4	chr11	50244548	50244748	+	810.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6116.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	9.0	19.5	15.5	85.0	27.0	16.5	7.0	10.5
Merged-chr6-57691682-4	chr6	57691548	57691748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025574, intron 1 of 1)	intron (NM_025574, intron 1 of 1)	430.0	NM_025574	66459.0	Mm.44201	NM_025574	ENSMUSG00000043162	Pyurf	2610022G08Rik|AI847956|Prey	Pigy upstream reading frame	protein-coding	48.0	73.0	63.0	903.0	138.0	54.0	72.0	41.0
Merged-chr8-18946050-4	chr8	18945970	18946170	+	818.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176951, intron 2 of 6)	intron (NM_176951, intron 2 of 6)	4801.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	4.5	12.5	8.5	170.0	20.0	9.5	10.5	5.0
Merged-chr16-91852439-3	chr16	91852308	91852508	+	867.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 21 of 28)	intron (NM_001110275, intron 21 of 28)	79222.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	12.0	15.0	7.5	95.5	12.5	9.0	7.5	6.0
Merged-chr6-124477578-4	chr6	124477495	124477695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12811.0	NM_153508	232370.0	Mm.193701	NM_153508	ENSMUSG00000008153	Clstn3	CSTN3|Cs3|Cst-3|alc-beta	calsyntenin 3	protein-coding	33.5	72.0	39.5	448.5	102.0	43.0	43.0	34.5
Merged-chr17-10874486-6	chr17	10874442	10874642	+	828.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	34183.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	7.0	9.0	6.0	51.5	12.0	7.0	11.0	14.0
Merged-chr11-67586548-4	chr11	67586470	67586670	+	913.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109657)	promoter-TSS (NM_001109657)	70.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	8.0	37.5	31.0	220.5	31.5	12.0	16.0	24.5
Merged-chr6-146746751-4	chr6	146746657	146746857	+	894.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346666, intron 1 of 11)	intron (NM_001346666, intron 1 of 11)	21827.0	NM_172734	232533.0	Mm.322121	NM_172734	ENSMUSG00000001630	Stk38l	4930473A22Rik|Ndr2|Ndr54	serine/threonine kinase 38 like	protein-coding	6.5	9.0	10.0	147.5	28.5	11.0	21.0	11.5
Merged-chr4-126537008-4	chr4	126536895	126537095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3537.0	NM_153177	76850.0	Mm.86705	NM_153177	ENSMUSG00000042500	Ago4	5730550L01Rik|AI481660|Eif2c4	argonaute RISC catalytic subunit 4	protein-coding	50.0	108.0	60.0	1087.0	139.0	43.0	80.5	49.0
Merged-chr17-53488798-4	chr17	53488688	53488888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025887, intron 2 of 5)	ID_B1|SINE|B4	9554.0	NM_025887	271457.0	Mm.329123	NM_025887	ENSMUSG00000017831	Rab5a	2410015H04Rik|AI663973|AU021172|nnyRab5a	RAB5A, member RAS oncogene family	protein-coding	86.0	137.5	174.0	2225.5	218.5	57.5	131.0	122.5
Merged-chr13-98589101-4	chr13	98589006	98589206	+	946.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	48304.0	NM_026685	68344.0	Mm.28766	NM_026685	ENSMUSG00000046082	Tmem174	0610009B10Rik|AA986094	transmembrane protein 174	protein-coding	11.0	18.0	16.0	196.5	75.5	6.5	35.0	13.0
Merged-chr8-123750452-4	chr8	123750336	123750536	+	929.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16478.0	NR_040702	234863.0	Mm.246601	NR_040702	ENSMUSG00000110599	6030466F02Rik	-	RIKEN cDNA 6030466F02 gene	ncRNA	11.0	68.5	36.0	217.5	27.0	14.0	16.5	3.5
Merged-chr4-132962822-4	chr4	132962705	132962905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11290.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	43.5	68.0	39.5	593.0	119.5	51.0	58.0	36.5
Merged-chr11-19493444-5	chr11	19493305	19493505	+	969.753357	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	428130.0	NR_046037	74059.0	Mm.292321	NR_046037	ENSMUSG00000086025	4933406G16Rik	-	RIKEN cDNA 4933406G16 gene	ncRNA	10.0	4.5	17.0	204.5	30.5	13.0	7.0	15.5
Merged-chr4-89311042-4	chr4	89310940	89311140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007670)	promoter-TSS (NM_007670)	-8.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	93.0	183.0	131.0	1887.0	273.0	81.0	121.0	123.0
Merged-chr9-119963436-4	chr9	119963322	119963522	+	947.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028735, intron 21 of 28)	intron (NM_028735, intron 21 of 28)	19601.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	6.0	27.0	13.5	171.0	34.0	4.5	13.0	15.0
Merged-chr16-3706895-4	chr16	3706809	3707009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001161790)	TTS (NM_001161790)	11215.0	NM_001161790	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	55.0	109.0	83.5	793.5	158.5	59.5	61.0	45.5
Merged-chr5-20228075-3	chr5	20227969	20228169	+	813.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 5 of 22)	intron (NM_001170746, intron 5 of 22)	320551.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	11.5	6.5	11.0	167.0	10.0	10.0	5.0	2.5
Merged-chr5-128981847-2	chr5	128981718	128981918	+	794.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8418.0	NM_001359022	13852.0	Mm.260716	NM_007941	ENSMUSG00000029428	Stx2	AW538950|Epim|G1-536-1|Syn-2|repro34	syntaxin 2	protein-coding	5.5	7.5	9.5	38.0	6.5	4.5	10.0	5.0
Merged-chr1-191907655-4	chr1	191907573	191907773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030669)	promoter-TSS (NR_030669)	-146.0	NR_030669	98736.0	Mm.379232	NM_001024489	ENSMUSG00000055833	1700034H15Rik	4930557M11Rik|BB016121	RIKEN cDNA 1700034H15 gene	ncRNA	25.0	42.5	25.5	371.0	36.5	11.0	7.5	10.5
Merged-chr18-50130601-4	chr18	50130515	50130715	+	826.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008292, intron 2 of 23)	intron (NM_008292, intron 2 of 23)	2414.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	15.5	0.0	6.5	118.0	30.5	13.5	7.0	11.5
Merged-chr9-13577879-2	chr9	13577779	13577979	+	874.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42110.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	5.0	5.0	8.5	52.0	11.5	4.5	6.0	8.0
Merged-chr6-48602011-4	chr6	48601931	48602131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	8148.0	NM_001079904	58887.0	Mm.219183	NM_175099	ENSMUSG00000052751	Repin1	AI425994|Ap4|E430037F08Rik|Zfp-464|Zfp464	replication initiator 1	protein-coding	118.5	181.5	127.0	2196.0	261.5	141.0	158.5	111.0
Merged-chr8-117067174-4	chr8	117067079	117067279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 6 of 42)	intron (NM_029686, intron 6 of 42)	15270.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	60.0	47.5	79.5	871.5	172.5	49.5	93.5	72.0
Merged-chr15-13393458-4	chr15	13393366	13393566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-219791.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	100.5	109.5	122.5	2199.5	214.5	88.5	105.0	84.5
Merged-chr19-4201282-2	chr19	4201182	4201382	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011237, intron 2 of 10)	intron (NM_011237, intron 2 of 10)	321.0	NM_011237	19367.0	Mm.277629	NM_011237	ENSMUSG00000024824	Rad9a	Rad9	RAD9 checkpoint clamp component A	protein-coding	7.5	12.0	11.0	45.0	10.5	6.0	3.5	12.0
Merged-chr16-31201320-4	chr16	31201228	31201428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030138)	promoter-TSS (NM_030138)	-90.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	293.0	460.0	317.5	3704.5	702.5	267.5	320.0	248.5
Merged-chr4-99829214-4	chr4	99829144	99829344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145549)	promoter-TSS (NM_145549)	-126.0	NM_026348	67733.0	Mm.257094	NM_026348	ENSMUSG00000028549	Itgb3bp	4930471O16Rik|AU022583	integrin beta 3 binding protein (beta3-endonexin)	protein-coding	19.5	22.0	34.0	253.0	47.0	18.5	12.5	23.0
Merged-chr13-24614582-4	chr13	24614511	24614711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286101)	promoter-TSS (NM_001286101)	5.0	NM_178658	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	15.0	38.5	17.5	363.5	38.0	17.0	22.5	22.0
Merged-chr1-128615634-3	chr1	128615559	128615759	+	980.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23360.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	27.5	16.0	27.0	440.5	18.5	5.5	6.0	4.0
Merged-chr15-79524862-4	chr15	79524773	79524973	+	973.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134090, exon 3 of 5)	exon (NM_134090, exon 3 of 5)	8044.0	NM_152806	67040.0	Mm.29644	NM_152806	ENSMUSG00000055065	Ddx17	2610007K22Rik|A430025E01Rik|AI047725|C80929|Gm926|p72	DEAD (Asp-Glu-Ala-Asp) box polypeptide 17	protein-coding	8.5	24.5	15.0	162.0	43.0	18.5	6.5	6.5
Merged-chr14-20372052-4	chr14	20371952	20372152	+	978.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024512, intron 7 of 13)	MTD|LTR|ERVL-MaLR	16858.0	NM_134081	108671.0	Mm.2871	NM_134081	ENSMUSG00000021811	Dnajc9	5330419I01Rik|AU020082	DnaJ heat shock protein family (Hsp40) member C9	protein-coding	31.5	41.5	30.0	629.5	56.5	22.0	35.5	15.5
Merged-chr8-126592846-4	chr8	126592753	126592953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164598, exon 1 of 2)	exon (NM_001164598, exon 1 of 2)	583.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	17.0	38.0	30.0	146.0	43.0	21.0	20.5	29.5
Merged-chr8-56054049-3	chr8	56053928	56054128	+	773.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080438, intron 4 of 9)	intron (NM_080438, intron 4 of 9)	113203.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	3.0	1.0	6.0	152.0	5.5	13.5	12.0	5.0
Merged-chr13-23698465-4	chr13	23698345	23698545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178208)	promoter-TSS (NM_178208)	13.0	NM_178208	319155.0	Mm.261662	NM_178208	ENSMUSG00000060678	Hist1h4c	-	histone cluster 1, H4c	protein-coding	132.0	231.5	195.5	1949.5	507.0	180.5	213.5	192.0
Merged-chr8-82401279-4	chr8	82401187	82401387	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	1299.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	20.0	43.5	27.0	395.0	91.5	35.5	30.0	19.5
Merged-chr9-44551331-4	chr9	44551238	44551438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24917.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	27.5	52.0	28.0	537.0	62.5	22.0	45.0	34.0
Merged-chr7-44360103-4	chr7	44360022	44360222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027049)	TTS (NM_027049)	14908.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	40.0	70.0	32.0	605.0	106.0	55.0	35.0	33.0
Merged-chr19-55825675-3	chr19	55825600	55825800	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-69621.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	16.5	7.0	10.0	146.0	1.5	6.0	2.5	3.0
Merged-chr5-88675441-6	chr5	88675311	88675511	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178700, intron 1 of 9)	CpG	169.0	NM_001098476	231413.0	Mm.332474	NM_178700	ENSMUSG00000044221	Grsf1	BB232551|C80280|D5Wsu31e	G-rich RNA sequence binding factor 1	protein-coding	13.0	28.0	29.0	297.0	40.0	14.5	17.5	21.0
Merged-chr6-54034617-4	chr6	54034490	54034690	+	639.512512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5342.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	8.0	5.0	4.5	70.5	24.0	7.5	9.5	9.5
Merged-chr13-107056528-4	chr13	107056434	107056634	+	961.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	33964.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	23.5	35.0	7.0	213.0	68.5	17.5	18.5	14.5
Merged-chr6-35544517-4	chr6	35544422	35544622	+	956.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I-int|LTR|ERVL-MaLR	-4634.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	18.5	31.0	9.5	363.0	48.0	9.0	15.5	13.0
Merged-chr11-51263044-4	chr11	51262928	51263128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007714)	promoter-TSS (NM_007714)	29.0	NM_001358282	193286.0	Mm.80975	NM_177567	ENSMUSG00000045942	BC049762	4930503F14	cDNA sequence BC049762	protein-coding	159.0	222.0	98.0	2049.0	394.5	188.5	163.0	166.0
Merged-chr2-35109897-2	chr2	35109797	35109997	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_012018, intron 1 of 43)	intron (NM_012018, intron 1 of 43)	405.0	NM_012018	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	43.0	58.5	53.5	554.0	93.0	44.5	36.5	43.0
Merged-chr11-49201270-3	chr11	49201171	49201371	+	900.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2229.0	NM_001024846	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	12.0	10.5	8.5	124.0	27.5	1.0	6.5	8.0
Merged-chr7-4502824-4	chr7	4502641	4502841	+	896.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1061.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	6.0	4.5	16.0	29.5	20.5	5.0	14.0	21.5
Merged-chr19-4811703-4	chr19	4811620	4811820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019869)	promoter-TSS (NM_019869)	-86.0	NM_019869	56275.0	Mm.276338	NM_019869	ENSMUSG00000006456	Rbm14	1300007E16Rik|PSP2|Sytip|p16|p16K	RNA binding motif protein 14	protein-coding	168.0	264.0	134.5	2294.5	420.5	149.5	132.5	147.0
Merged-chr2-106003285-4	chr2	106003178	106003378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033993, exon 1 of 4)	non-coding (NR_033993, exon 1 of 4)	271.0	NM_026992	99349.0	Mm.25661	NM_026992	ENSMUSG00000027166	Dnajc24	1700030A21Rik|2610027M02Rik|AV066965|AW240712|Dph4|MmDjC7|Zcsl3	DnaJ heat shock protein family (Hsp40) member C24	protein-coding	106.0	179.0	104.5	2060.5	374.0	117.5	140.5	104.5
Merged-chr7-89403808-4	chr7	89403701	89403901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008055)	promoter-TSS (NM_008055)	421.0	NM_001360746	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	34.5	67.0	39.0	572.0	62.0	27.5	28.0	26.0
Merged-chr18-58563765-4	chr18	58563670	58563870	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081072, intron 1 of 9)	intron (NM_001081072, intron 1 of 9)	7530.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	32.5	59.0	37.5	657.5	82.5	21.5	17.5	24.0
Merged-chr16-33625740-3	chr16	33625621	33625821	+	702.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 8 of 11)	ORR1F|LTR|ERVL-MaLR	-58745.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	9.0	20.0	6.5	92.0	13.5	6.5	5.5	5.5
Merged-chr4-107738041-2	chr4	107737904	107738104	+	615.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-53842.0	NM_019872	56296.0	Mm.141324	NM_019872	ENSMUSG00000028610	Dmrtb1	Dmrt6|Prp13	DMRT-like family B with proline-rich C-terminal, 1	protein-coding	6.0	7.0	2.5	27.0	14.0	7.5	9.5	5.5
Merged-chr15-27926651-4	chr15	27926555	27926755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	99193.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	48.0	75.5	23.5	296.5	142.0	47.5	48.0	38.5
Merged-chr3-95042614-4	chr3	95042516	95042716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008951)	promoter-TSS (NM_008951)	-2.0	NM_008951	19185.0	Mm.2261	NM_008951	ENSMUSG00000005625	Psmd4	Af1|Mcb1|angiocidin	proteasome (prosome, macropain) 26S subunit, non-ATPase, 4	protein-coding	128.0	163.0	66.5	1352.5	252.5	113.0	132.5	109.5
Merged-chr2-143917806-4	chr2	143917694	143917894	+	870.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019771, intron 1 of 3)	intron (NM_019771, intron 1 of 3)	2463.0	NM_019771	56431.0	Mm.28919	NM_019771	ENSMUSG00000015932	Dstn	2610043P17Rik|ADF|AU042046|Dsn|corn1|sid23p	destrin	protein-coding	14.0	16.5	6.0	137.0	24.5	13.0	5.5	4.5
Merged-chr6-56653309-4	chr6	56653228	56653428	+	882.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51371.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	26.0	18.0	26.5	183.5	21.5	8.0	17.0	10.5
Merged-chr1-72428743-4	chr1	72428664	72428864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001045533, exon 4 of 4)	exon (NM_001045533, exon 4 of 4)	107800.0	NM_001045533	381270.0	Mm.337023	NM_001045533	ENSMUSG00000039372	March4	BC056494|mKIAA1399	membrane-associated ring finger (C3HC4) 4	protein-coding	35.0	40.0	58.0	970.5	55.5	29.0	31.5	39.0
Merged-chr8-94187514-4	chr8	94187412	94187612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8423.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	44.5	44.5	43.0	597.5	116.5	19.5	52.5	44.0
Merged-chr2-26962916-4	chr2	26962808	26963008	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207234, intron 1 of 7)	intron (NM_207234, intron 1 of 7)	1478.0	NM_207234	227656.0	Mm.291874	NM_207234	ENSMUSG00000052406	Rexo4	Gm111|Rex4|Xpmc2h	REX4, 3'-5' exonuclease	protein-coding	20.5	58.5	14.5	296.0	79.5	11.5	42.5	37.0
Merged-chr8-116946581-6	chr8	116946465	116946665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177700, intron 1 of 3)	intron (NM_177700, intron 1 of 3)	3172.0	NM_177700	234776.0	Mm.259736	NM_177700	ENSMUSG00000047388	Atmin	Asciz|gpg6|mKIAA0431	ATM interactor	protein-coding	25.5	22.5	32.0	466.5	33.0	19.5	28.0	28.0
Merged-chr17-78366282-4	chr17	78366200	78366400	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 13 of 16)	intron (NM_015800, intron 13 of 16)	51852.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	32.5	34.5	75.0	997.0	39.5	17.0	40.5	41.5
Merged-chr6-43849395-4	chr6	43849293	43849493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-183115.0	NM_001311111	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	79.5	159.0	103.5	658.0	125.5	65.5	47.0	35.5
Merged-chr16-77016177-4	chr16	77016080	77016280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 1 of 23)	intron (NM_013918, intron 1 of 23)	2111.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	43.0	42.0	23.0	730.0	121.5	27.5	44.0	32.5
Merged-chr17-78604128-1	chr17	78604028	78604228	+	730.0	f0_balb.idr	intron (NM_001197028, intron 8 of 12)	intron (NM_001197028, intron 8 of 12)	96065.0	NM_028813	74199.0	Mm.292983	NM_028813	ENSMUSG00000024076	Vit	1700052E02Rik|1700110E08Rik|2810429K11Rik|AKH|akhirin	vitrin	protein-coding	5.0	11.0	6.5	101.5	14.0	1.5	8.5	2.0
Merged-chr15-58244317-1	chr15	58244217	58244417	+	620.0	f0_balb.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-29425.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	4.0	9.5	5.0	101.5	20.5	7.5	9.5	8.5
Merged-chr11-114209076-4	chr11	114208982	114209182	+	955.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10824.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	14.5	13.5	17.0	228.5	56.0	10.0	23.5	32.0
Merged-chr13-55421286-4	chr13	55421181	55421381	+	914.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021489, exon 8 of 14)	exon (NM_021489, exon 8 of 14)	5523.0	NM_021489	58992.0	Mm.42224	NM_021489	ENSMUSG00000021492	F12	FXII|HAF	coagulation factor XII (Hageman factor)	protein-coding	12.0	10.5	11.0	154.5	41.5	24.5	24.5	17.0
Merged-chr13-85489901-4	chr13	85489795	85489995	+	954.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200409.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	16.0	23.5	23.5	464.5	57.5	23.0	13.0	31.5
Merged-chr8-41243288-1	chr8	41243188	41243388	+	615.0	f0_c57.idr	intron (NM_023662, intron 1 of 37)	intron (NM_023662, intron 1 of 37)	3529.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	3.0	0.0	1.0	10.5	29.5	9.5	4.5	5.0
Merged-chr19-46305661-4	chr19	46305571	46305771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177370)	promoter-TSS (NM_001177370)	-24.0	NM_019408	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	171.5	285.0	113.5	1652.0	454.5	182.5	146.0	159.0
Merged-chr9-82976138-3	chr9	82976039	82976239	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081216)	promoter-TSS (NM_001081216)	-650.0	NM_001081216	83946.0	Mm.221688	NM_031879	ENSMUSG00000032253	Phip	2810004D21Rik|4632404O06Rik|Ndrp|Wdr11	pleckstrin homology domain interacting protein	protein-coding	71.5	119.0	48.0	669.5	198.0	61.5	51.5	45.0
Merged-chr10-14055574-4	chr10	14055488	14055688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	89209.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	103.0	152.0	117.5	1944.5	143.0	66.5	68.0	81.5
Merged-chr1-30950016-7	chr1	30949926	30950126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002688)	promoter-TSS (NR_002688)	-271.0	NM_011200	19243.0	Mm.491181	NM_011200	ENSMUSG00000026064	Ptp4a1	AA415290|AU019864|C130021B01|Prl-1	protein tyrosine phosphatase 4a1	protein-coding	217.0	325.5	287.5	2876.0	308.5	204.0	157.0	177.5
Merged-chr2-167864444-4	chr2	167864346	167864546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67881.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	67.5	98.0	68.5	892.5	163.5	64.0	77.5	84.0
Merged-chr1-184536640-4	chr1	184536543	184536743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040472, intron 2 of 5)	intron (NR_040472, intron 2 of 5)	21048.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	99.5	94.5	65.5	950.5	118.5	48.5	54.0	43.5
Merged-chr8-26768351-3	chr8	26768250	26768450	+	806.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56073.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	14.5	13.0	15.5	237.0	16.0	5.5	13.5	10.5
Merged-chr15-87108417-4	chr15	87108332	87108532	+	775.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-435867.0	NM_001252310	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	4.0	4.0	7.0	114.0	17.5	4.5	10.5	11.0
Merged-chr18-66437534-4	chr18	66437434	66437634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21070.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	37.5	55.0	32.0	574.5	106.0	35.0	39.0	34.5
Merged-chr4-139213331-4	chr4	139213240	139213440	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	19229.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	9.0	17.0	8.0	187.0	46.0	15.5	22.5	15.5
Merged-chr16-36934356-4	chr16	36934287	36934487	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008225)	promoter-TSS (NM_008225)	-596.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	16.5	30.5	5.5	95.5	46.0	18.5	13.5	15.5
Merged-chr6-129182610-2	chr6	129182510	129182710	+	756.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_053109, intron 1 of 4)	ID_B1|SINE|B4	1995.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	2.0	7.0	5.5	42.5	9.5	11.5	7.5	8.5
Merged-chr17-48322545-4	chr17	48322444	48322644	+	960.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177083, intron 5 of 5)	intron (NM_177083, intron 5 of 5)	6382.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	23.5	25.0	13.5	294.5	31.0	15.5	11.5	14.5
Merged-chr14-25789402-4	chr14	25789311	25789511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20555.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	44.0	53.0	33.5	736.5	78.5	43.0	51.0	32.0
Merged-chr6-148534612-4	chr6	148534555	148534755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79654.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	143.0	186.0	187.5	2430.0	312.0	129.0	151.5	136.0
Merged-chr15-50696124-4	chr15	50695988	50696188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	192961.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	57.5	137.0	52.0	634.5	104.5	31.5	46.5	37.5
Merged-chr7-122453998-3	chr7	122453903	122454103	+	865.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 3 of 16)	intron (NM_001316672, intron 3 of 16)	164878.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	8.0	4.5	6.5	145.0	4.0	0.0	0.0	3.5
Merged-chr14-73123957-4	chr14	73123865	73124065	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18545.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	13.0	5.0	6.0	154.5	40.5	12.5	8.5	14.0
Merged-chr12-110454351-4	chr12	110454261	110454461	+	910.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135001, intron 2 of 13)	intron (NM_001135001, intron 2 of 13)	7182.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	8.0	16.0	12.0	160.5	33.5	8.0	6.5	18.5
Merged-chr2-75985247-4	chr2	75985124	75985324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3257.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	35.5	47.0	32.5	447.5	103.5	38.5	44.5	39.0
Merged-chr16-4939086-4	chr16	4938978	4939178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025839)	promoter-TSS (NM_025839)	-33.0	NM_001316715	66911.0	Mm.428698	NM_025839	ENSMUSG00000022516	Nudt16l1	1110001K21Rik|5330437I08Rik|Sdos	nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1	protein-coding	63.0	105.5	56.5	687.5	149.0	55.5	71.5	49.0
Merged-chr19-37146348-4	chr19	37146207	37146407	+	878.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 2 of 10)	B1F1|SINE|Alu	-27536.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	9.0	11.5	9.5	219.5	22.5	5.0	5.5	11.0
Merged-chr15-95824428-4	chr15	95824337	95824537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_155276)	TTS (NR_155276)	5635.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	94.0	145.5	100.5	1521.5	160.0	57.5	91.5	74.5
Merged-chr9-96393321-4	chr9	96393230	96393430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-28899.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	62.0	102.5	54.0	1306.5	197.0	77.5	124.0	83.0
Merged-chr6-125127993-3	chr6	125127895	125128095	+	927.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346610, intron 37 of 38)	intron (NM_001346610, intron 37 of 38)	-3888.0	NM_138747	110109.0	Mm.29203	NM_138747	ENSMUSG00000038279	Nop2	120kDa|A530002O17|Nol1	NOP2 nucleolar protein	protein-coding	10.0	12.0	8.0	26.0	57.5	11.0	4.5	22.0
Merged-chr10-127536636-7	chr10	127536490	127536690	+	785.019043	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2031.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	6.5	12.0	10.0	66.0	17.5	4.5	2.5	4.5
Merged-chr11-48924016-3	chr11	48923906	48924106	+	695.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045540, intron 1 of 2)	intron (NM_001045540, intron 1 of 2)	3176.0	NM_001045540	620913.0	Mm.452174	NM_001045540	ENSMUSG00000048852	Gm12185	Irgb2b1	predicted gene 12185	protein-coding	7.5	7.0	5.5	85.5	5.5	2.5	6.5	10.0
Merged-chr5-115475862-3	chr5	115475786	115475986	+	877.9166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8411.0	NM_001167691	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	8.5	7.5	3.5	69.0	31.0	16.5	13.5	10.0
Merged-chr2-69861591-4	chr2	69861501	69861701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355265)	promoter-TSS (NM_001355265)	39.0	NM_009278	20823.0	Mm.10508	NM_009278	ENSMUSG00000068882	Ssb	SS-B	Sjogren syndrome antigen B	protein-coding	84.0	94.5	44.5	1038.0	214.5	56.0	88.5	70.5
Merged-chr11-98149733-4	chr11	98149665	98149865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028149)	promoter-TSS (NM_028149)	-149.0	NM_028149	72194.0	Mm.218350	NM_028149	ENSMUSG00000020883	Fbxl20	2610511F20Rik|4632423N09Rik|AI849362|AL117906|C86145|Fbl2|Scr|mKIAA4147	F-box and leucine-rich repeat protein 20	protein-coding	30.0	75.0	27.5	485.5	101.5	38.5	36.0	61.0
Merged-chr9-42908918-4	chr9	42908819	42909019	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175481, intron 1 of 20)	intron (NM_175481, intron 1 of 20)	35452.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	63.0	30.5	113.0	1694.0	112.0	18.0	61.5	49.5
Merged-chr9-106234197-3	chr9	106234105	106234305	+	970.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020559, intron 10 of 10)	intron (NM_020559, intron 10 of 10)	11607.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	6.5	14.5	6.0	243.0	41.0	2.0	4.0	9.0
Merged-chr2-25422029-4	chr2	25421903	25422103	+	855.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1239.0	NM_001289453	14347.0	Mm.1203	NM_013524	ENSMUSG00000036587	Fut7	AI853193|FTVII|Fuc-TVII|FucT-VII	fucosyltransferase 7	protein-coding	1.5	7.0	2.5	24.5	23.5	8.0	5.0	15.0
Merged-chr13-48965128-3	chr13	48965023	48965223	+	842.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033268, intron 1 of 17)	Tigger15a|DNA|TcMar-Tigger	2705.0	NM_001033268	218236.0	Mm.426571	NM_001033268	ENSMUSG00000038014	Fam120a	C9orf10|Ossa	family with sequence similarity 120, member A	protein-coding	3.0	4.0	5.5	196.5	35.0	6.0	4.5	10.5
Merged-chr14-120318459-2	chr14	120318359	120318559	+	707.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 1 of 8)	intron (NM_001360376, intron 1 of 8)	12007.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	2.0	5.5	6.5	118.0	12.0	12.0	5.5	8.0
Merged-chr2-32536998-4	chr2	32536895	32537095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153560, intron 1 of 10)	intron (NM_153560, intron 1 of 10)	1636.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	71.0	79.0	58.5	979.5	83.5	38.0	47.5	60.5
Merged-chr3-9711209-3	chr3	9711110	9711310	+	813.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	-101125.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	1.5	9.0	8.5	104.0	7.5	5.5	8.0	5.0
Merged-chr3-65533193-4	chr3	65533059	65533259	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178892, intron 2 of 5)	intron (NM_178892, intron 2 of 5)	-3745.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	4.5	24.5	9.0	254.5	42.0	14.5	11.5	9.5
Merged-chr16-92402722-3	chr16	92402612	92402812	+	655.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-2634.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	8.0	7.0	6.0	6.5	8.5	5.0	5.0	2.5
Merged-chr10-43672605-4	chr10	43672499	43672699	+	940.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73559.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	16.0	20.0	24.5	286.5	28.5	12.0	23.0	29.5
Merged-chr2-122377984-4	chr2	122377866	122378066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9048.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	57.0	89.5	57.0	569.5	88.0	35.5	72.0	57.5
Merged-chr5-120775472-4	chr5	120775366	120775566	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145226, intron 1 of 15)	intron (NM_145226, intron 1 of 15)	2193.0	NM_145226	246727.0	Mm.204887	NM_145226	ENSMUSG00000032661	Oas3	Oasl10	2'-5' oligoadenylate synthetase 3	protein-coding	26.0	31.5	15.5	456.0	32.0	26.0	20.5	19.5
Merged-chr7-38227321-2	chr7	38227221	38227421	+	748.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_024413, intron 1 of 1)	intron (NM_024413, intron 1 of 1)	673.0	NM_024413	72287.0	Mm.333798	NM_024413	ENSMUSG00000074170	Plekhf1	1810013P09Rik|APPD|LAPF|PHAFIN1|ZFYVE15	pleckstrin homology domain containing, family F (with FYVE domain) member 1	protein-coding	7.0	8.5	6.5	55.0	7.5	5.5	7.5	5.5
Merged-chr5-95925730-3	chr5	95925632	95925832	+	578.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31207.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	6.5	13.0	9.0	86.5	7.0	0.5	2.5	3.0
Merged-chr15-66103570-4	chr15	66103452	66103652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	-126748.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	31.5	28.5	19.0	478.5	65.0	21.5	22.0	27.5
Merged-chr10-111837001-4	chr10	111836918	111837118	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37358.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	11.5	5.5	12.5	250.0	28.0	17.0	20.5	9.5
Merged-chr7-75551152-4	chr7	75551059	75551259	+	946.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 2 of 36)	intron (NM_029332, intron 2 of 36)	95625.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	13.0	38.0	14.0	188.5	62.5	15.5	19.0	31.0
Merged-chr3-10292784-4	chr3	10292716	10292916	+	905.2374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029310, intron 1 of 5)	intron (NM_029310, intron 1 of 5)	8367.0	NM_001357159	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	16.0	10.0	22.0	220.0	27.0	5.5	16.0	14.0
Merged-chr13-77045505-1	chr13	77045405	77045605	+	683.0	f0_balb.idr	intron (NM_134071, intron 20 of 20)	intron (NM_134071, intron 20 of 20)	89963.0	NM_134071	105377.0	Mm.209730	NM_134071	ENSMUSG00000021597	Slf1	2700017A04Rik|AW545819|Ankrd32|Brctd1|Brctx|C730024G01Rik	SMC5-SMC6 complex localization factor 1	protein-coding	10.0	23.0	7.0	134.5	15.5	1.0	4.0	1.0
Merged-chr15-55388288-4	chr15	55388194	55388394	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 13 of 47)	intron (NM_181277, intron 13 of 47)	80544.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	23.0	16.5	31.0	376.0	36.0	25.0	30.0	13.5
Merged-chr4-126103295-4	chr4	126103198	126103398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145827)	promoter-TSS (NM_001145827)	-659.0	NM_028800	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	111.5	173.5	97.0	1324.5	300.5	116.5	125.5	102.5
Merged-chr3-37140770-3	chr3	37140687	37140887	+	968.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14833.0	NM_008366	16183.0	Mm.14190	NM_008366	ENSMUSG00000027720	Il2	Il-2	interleukin 2	protein-coding	9.0	5.5	7.0	231.0	25.0	4.0	10.0	8.0
Merged-chr10-8000150-3	chr10	8000068	8000268	+	893.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-44045.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	5.0	14.5	8.5	195.5	22.0	5.5	7.5	11.0
Merged-chr17-36193772-4	chr17	36193662	36193862	+	832.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3611.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	14.0	13.5	5.5	110.0	23.0	10.0	9.5	8.5
Merged-chr6-140624794-4	chr6	140624687	140624887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309437)	promoter-TSS (NM_001309437)	-122.0	NM_001309437	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	20.5	122.5	34.0	241.5	141.0	38.0	30.0	23.5
Merged-chr9-41052241-2	chr9	41052132	41052332	+	584.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	B1_Mur1|SINE|Alu	27274.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	2.5	6.0	2.5	26.5	26.5	5.5	9.5	6.5
Merged-chr16-85152646-4	chr16	85152545	85152745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	URR1B|DNA|hAT-Charlie	21062.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	80.5	128.5	109.0	1085.0	288.0	108.5	130.0	97.0
Merged-chr15-81514385-4	chr15	81514289	81514489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48073.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	134.0	160.0	123.0	1573.5	261.0	97.5	129.0	88.0
Merged-chr13-119327068-4	chr13	119326959	119327159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2F|LTR|ERVL	81952.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	27.0	37.5	47.0	715.5	69.0	18.5	41.0	37.5
Merged-chr11-76780327-4	chr11	76780239	76780439	+	905.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007754, exon 21 of 21)	3' UTR (NM_007754, exon 21 of 21)	-16761.0	NM_001356321	53334.0	Mm.20931	NM_016810	ENSMUSG00000010392	Gosr1	AI414660|AI426320|BB145494|GOS-28|GOSRI|GS28	golgi SNAP receptor complex member 1	protein-coding	11.0	10.5	12.5	268.0	32.5	12.5	12.5	20.5
Merged-chr19-56720450-4	chr19	56720356	56720556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1916.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	80.5	120.5	101.0	621.5	136.5	71.0	58.5	43.5
Merged-chr10-60274077-4	chr10	60273980	60274180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3548.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	44.0	48.0	36.0	755.5	119.5	52.0	53.5	52.0
Merged-chr18-64887647-4	chr18	64887559	64887759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114386)	promoter-TSS (NM_001114386)	-97.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	36.5	49.5	41.0	772.0	86.5	23.5	39.5	19.0
Merged-chr1-74439696-4	chr1	74439601	74439801	+	975.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176972, intron 25 of 25)	intron (NM_176972, intron 25 of 25)	30317.0	NM_009509	22349.0	Mm.471601	NM_009509	ENSMUSG00000026175	Vil1	Vil	villin 1	protein-coding	20.5	32.0	17.5	307.0	50.5	16.5	20.5	15.5
Merged-chr8-70841285-4	chr8	70841177	70841377	+	915.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_032397)	TTS (NM_032397)	-1557.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	20.0	24.0	8.5	173.0	39.5	13.0	12.0	18.0
Merged-chr1-181950913-4	chr1	181950809	181951009	+	866.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010135, intron 3 of 14)	intron (NM_010135, intron 3 of 14)	69071.0	NM_010135	13800.0	Mm.87759	NM_008680	ENSMUSG00000022995	Enah	Mena|NDPP-1|Ndpp1|WBP8	ENAH actin regulator	protein-coding	8.5	9.0	10.5	204.5	52.5	7.5	11.5	16.5
Merged-chr11-20232253-4	chr11	20232098	20232298	+	989.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172260, intron 5 of 6)	intron (NM_172260, intron 5 of 6)	17226.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	36.0	22.0	47.0	456.5	62.5	10.0	28.5	25.5
Merged-chr5-123699393-3	chr5	123699281	123699481	+	857.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027494, exon 14 of 14)	3' UTR (NM_027494, exon 14 of 14)	-15020.0	NM_001359222	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	8.5	7.0	7.0	92.5	20.5	7.0	19.0	9.5
Merged-chr1-155147442-4	chr1	155147358	155147558	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355062)	promoter-TSS (NM_001355062)	-644.0	NM_008209	15064.0	Mm.7580	NM_008209	ENSMUSG00000026471	Mr1	H2ls	major histocompatibility complex, class I-related	protein-coding	39.5	28.5	42.0	682.5	90.5	18.5	22.5	32.5
Merged-chr5-148552686-4	chr5	148552610	148552810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011908)	promoter-TSS (NM_011908)	78.0	NM_011908	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	114.0	200.5	130.5	1645.5	331.0	185.5	138.0	91.0
Merged-chr2-16228302-3	chr2	16228192	16228392	+	842.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 37 of 38)	intron (NM_001310455, intron 37 of 38)	-128012.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	9.0	13.0	11.5	292.5	20.0	6.0	14.0	9.0
Merged-chr11-114821465-3	chr11	114821360	114821560	+	786.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22536.0	NM_181749	217302.0	Mm.269127	NM_181749	ENSMUSG00000034677	Gpr142	PGR2	G protein-coupled receptor 142	protein-coding	10.5	9.5	5.5	95.5	15.5	5.5	7.0	14.5
Merged-chr19-10199002-4	chr19	10198899	10199099	+	755.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001271615)	TTS (NM_001271615)	4944.0	NM_001271615	14156.0	Mm.2952	NM_007999	ENSMUSG00000024742	Fen1	AW538437|FEN-1	flap structure specific endonuclease 1	protein-coding	17.0	13.0	12.5	92.5	41.0	14.0	11.0	12.0
Merged-chr9-85357615-4	chr9	85357522	85357722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30472.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	45.5	44.0	33.5	576.5	143.5	37.5	65.0	44.5
Merged-chr4-8912183-1	chr4	8912083	8912283	+	1000.0	f0_c57.idr	Intergenic	Intergenic	160859.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	19.0	20.5	9.0	126.0	47.5	26.0	26.5	13.5
Merged-chr8-125560992-4	chr8	125560894	125561094	+	995.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	8869.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	37.0	44.5	43.5	492.0	43.0	15.0	12.0	19.0
Merged-chr15-64278295-4	chr15	64278195	64278395	+	918.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	34378.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	9.5	21.0	13.5	270.0	34.5	8.0	15.0	20.0
Merged-chr2-60172799-4	chr2	60172698	60172898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37138.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	49.5	56.5	57.0	1145.5	78.5	45.5	46.5	40.0
Merged-chr4-42950272-4	chr4	42950175	42950375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355440)	promoter-TSS (NM_001355440)	-121.0	NM_001355440	56323.0	Mm.20437	NM_019874	ENSMUSG00000036052	Dnajb5	1110058L06Rik|AI462558|Hsc40|Hsp40-3	DnaJ heat shock protein family (Hsp40) member B5	protein-coding	99.0	133.5	65.5	1024.5	184.5	82.0	105.0	74.5
Merged-chr2-155373455-4	chr2	155373345	155373545	+	905.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	-8411.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	33.0	38.0	25.0	407.0	22.0	5.5	9.5	13.0
Merged-chr13-45094016-3	chr13	45093892	45094092	+	744.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91896.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	0.0	0.0	0.0	1.5	52.5	8.0	12.5	19.5
Merged-chr17-21845827-4	chr17	21845711	21845911	+	864.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029281)	promoter-TSS (NM_029281)	-52.0	NM_029281	75424.0	Mm.271252	NM_029281	ENSMUSG00000069743	Zfp820	2610036F08Rik	zinc finger protein 820	protein-coding	15.0	10.0	11.5	122.5	24.5	6.0	12.5	4.5
Merged-chr5-24814160-4	chr5	24814064	24814264	+	992.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053075, intron 2 of 7)	intron (NM_053075, intron 2 of 7)	28197.0	NM_053075	19744.0	Mm.319175	NM_053075	ENSMUSG00000028945	Rheb	Rheb1	Ras homolog enriched in brain	protein-coding	15.0	25.0	14.0	306.5	60.5	11.5	23.0	24.0
Merged-chr11-101553783-4	chr11	101553685	101553885	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008676, intron 1 of 23)	intron (NM_008676, intron 1 of 23)	1131.0	NM_001252223	17966.0	Mm.784	NM_008676	ENSMUSG00000017119	Nbr1	mKIAA0049	neighbor of Brca1 gene 1	protein-coding	24.0	33.5	13.5	184.0	48.5	8.5	5.5	16.5
Merged-chr12-99884474-4	chr12	99884343	99884543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028354)	promoter-TSS (NM_028354)	-72.0	NM_028354	104884.0	Mm.312323	NM_028354	ENSMUSG00000021177	Tdp1	2810481F14Rik|4921509N21Rik|AI838772|AW493413|E430034L06Rik|MLZ-501|SCAN1	tyrosyl-DNA phosphodiesterase 1	protein-coding	102.5	136.5	45.5	1246.5	196.0	70.0	54.5	48.5
Merged-chr8-85559356-4	chr8	85559267	85559467	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-4096.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	14.5	21.0	10.0	269.0	39.5	17.5	15.0	19.0
Merged-chr7-80440957-3	chr7	80440821	80441021	+	844.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-35485.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	10.5	13.0	8.5	101.5	10.5	5.0	8.5	5.0
Merged-chr5-115347764-4	chr5	115347662	115347862	+	983.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007748, intron 2 of 2)	intron (NM_007748, intron 2 of 2)	1193.0	NM_007748	12861.0	Mm.43415	NM_007748	ENSMUSG00000041697	Cox6a1	VIaL	cytochrome c oxidase subunit VIa polypeptide 1	protein-coding	10.5	47.5	23.0	247.0	63.5	19.0	20.0	32.0
Merged-chr1-64530874-6	chr1	64530746	64530946	+	899.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-1958.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	5.0	7.5	12.0	57.0	33.5	15.0	15.0	10.0
Merged-chr1-43467128-4	chr1	43467024	43467224	+	843.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	21373.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	10.0	21.5	14.0	235.5	47.5	14.5	6.0	10.5
Merged-chr5-118560854-4	chr5	118560782	118560982	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 1 of 30)	CpG-11438	163.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	34.5	36.5	28.5	394.5	60.0	15.5	18.0	20.0
Merged-chr7-111082402-5	chr7	111082326	111082526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013507, intron 1 of 21)	CpG	604.0	NM_001040131	13690.0	Mm.185453	NM_013507	ENSMUSG00000005610	Eif4g2	DAP-5|E130105L11Rik|Nat1|Natm1|p97	eukaryotic translation initiation factor 4, gamma 2	protein-coding	46.0	81.5	74.0	777.5	145.5	65.0	52.0	99.5
Merged-chr9-21241513-4	chr9	21241409	21241609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2177.0	NM_001110306	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	37.5	41.5	11.5	337.0	64.5	21.0	24.5	30.5
Merged-chr11-106066123-6	chr11	106066041	106066241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027346)	promoter-TSS (NM_027346)	34.0	NM_027346	70207.0	Mm.343857	NM_027346	ENSMUSG00000001983	Taco1	2310066I18Rik|Ccdc44	translational activator of mitochondrially encoded cytochrome c oxidase I	protein-coding	36.5	57.5	43.0	401.0	122.0	43.0	55.0	55.0
Merged-chr9-99109800-4	chr9	99109709	99109909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 2 of 23)	intron (NM_029094, intron 2 of 23)	30402.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	93.0	86.5	90.5	1591.5	184.0	41.0	77.5	57.5
Merged-chr7-143069233-4	chr7	143069145	143069345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001115085)	promoter-TSS (NM_001115085)	-123.0	NM_020285	56844.0	Mm.139675	NM_020285	ENSMUSG00000045752	Tssc4	AA241958|ESTM671070	tumor-suppressing subchromosomal transferable fragment 4	protein-coding	264.5	476.5	337.5	3851.0	777.5	373.0	420.5	354.0
Merged-chr1-37890504-4	chr1	37890422	37890622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026913)	promoter-TSS (NM_026913)	45.0	NM_027098	107734.0	Mm.26614	NM_027098	ENSMUSG00000026087	Mrpl30	2310001L22Rik|L30mt|MRP-L28|MRP-L30|Rpml28	mitochondrial ribosomal protein L30	protein-coding	103.0	142.0	87.5	911.0	189.5	94.0	84.5	71.5
Merged-chr12-78219356-4	chr12	78219208	78219408	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7347.0	NM_172952	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	16.0	22.5	14.0	268.0	44.5	22.0	13.0	11.5
Merged-chr2-132586065-3	chr2	132585964	132586164	+	915.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7816.0	NM_001355652	74182.0	Mm.211211	NM_027096	ENSMUSG00000027346	Gpcpd1	2310004G06Rik|2310032D16Rik|AU015213|Gde5|Prei4|mKIAA1434	glycerophosphocholine phosphodiesterase 1	protein-coding	5.0	13.0	12.0	248.0	12.0	2.0	7.5	7.0
Merged-chr10-67483611-4	chr10	67483518	67483718	+	907.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54251.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	13.5	17.0	12.5	228.0	36.5	9.5	11.5	18.0
Merged-chr11-20112977-4	chr11	20112865	20113065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146243)	promoter-TSS (NM_146243)	-14.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	221.5	328.5	226.5	3060.0	617.5	283.0	332.5	252.0
Merged-chr8-85500680-4	chr8	85500592	85500792	+	956.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 2 of 11)	intron (NM_173866, intron 2 of 11)	8075.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	14.0	18.5	10.0	217.5	46.5	15.5	12.5	22.5
Merged-chr16-43405302-4	chr16	43405207	43405407	+	790.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	MIR|SINE|MIR	14889.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	13.0	13.5	8.0	241.5	22.5	4.0	6.0	10.5
Merged-chr11-98551135-4	chr11	98551027	98551227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166494)	promoter-TSS (NM_001166494)	30.0	NM_001166494	69376.0	Mm.55996	NM_027061	ENSMUSG00000017195	Zpbp2	1700017D11Rik|2610022C02Rik|ZPBPL	zona pellucida binding protein 2	protein-coding	39.0	55.5	15.0	342.5	59.0	16.0	25.0	30.0
Merged-chr1-80453230-4	chr1	80453143	80453343	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040460, intron 2 of 2)	intron (NR_040460, intron 2 of 2)	7311.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	40.5	20.5	43.5	394.0	59.5	19.5	22.5	28.0
Merged-chr4-101657401-4	chr4	101657288	101657488	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175036, intron 3 of 3)	(A)n|Simple_repeat|Simple_repeat	9605.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	18.0	24.5	26.0	425.5	48.5	17.0	29.5	33.0
Merged-chr15-27726518-1	chr15	27726418	27726618	+	587.5	f0_balb.idr	Intergenic	Intergenic	-44976.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	9.5	8.0	6.5	77.0	14.5	3.0	2.5	9.0
Merged-chr6-127351870-4	chr6	127351779	127351979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-43912.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	60.5	144.5	89.0	657.5	145.5	64.0	54.5	36.5
Merged-chr9-106685855-4	chr9	106685731	106685931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011573)	promoter-TSS (NM_011573)	-15.0	NM_011573	21767.0	Mm.22266	NM_011573	ENSMUSG00000040813	Tex264	TEG-264	testis expressed gene 264	protein-coding	63.0	104.0	50.5	613.5	176.5	59.0	50.0	73.5
Merged-chr5-142816715-5	chr5	142816635	142816835	+	790.580017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178242, intron 1 of 15)	CpG-11746	652.0	NM_178242	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	4.5	7.0	3.5	66.0	14.5	6.5	7.5	9.0
Merged-chr6-16943700-4	chr6	16943594	16943794	+	856.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45253.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	15.0	5.0	16.5	317.0	26.5	6.5	14.0	12.5
Merged-chr5-137333603-4	chr5	137333487	137333687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031406)	promoter-TSS (NM_031406)	-5.0	NM_031406	83704.0	Mm.235625	NM_031406	ENSMUSG00000037344	Slc12a9	CIP1	solute carrier family 12 (potassium/chloride transporters), member 9	protein-coding	26.5	37.0	23.0	310.0	99.0	24.0	39.0	30.0
Merged-chr13-58475649-3	chr13	58475554	58475754	+	945.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72311.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	14.5	35.0	11.0	110.5	28.0	25.5	9.0	12.5
Merged-chr18-46198229-3	chr18	46198159	46198359	+	911.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178872, intron 1 of 9)	CpG	559.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	12.5	22.0	16.0	199.5	46.0	17.5	14.5	11.5
Merged-chr14-63144336-4	chr14	63144251	63144451	+	876.1166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010191)	TTS (NM_010191)	21889.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	25.0	27.0	10.5	279.5	18.5	10.0	9.5	19.5
Merged-chr11-63046555-4	chr11	63046443	63046643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15116.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	245.0	333.5	175.5	2837.0	549.0	233.5	261.5	231.5
Merged-chr6-54327843-4	chr6	54327702	54327902	+	936.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030024, intron 1 of 1)	CpG	790.0	NM_030024	78004.0	Mm.41984	NM_030024	ENSMUSG00000045725	Prr15	E130201N16Rik|G90	proline rich 15	protein-coding	14.0	28.5	2.5	128.5	33.0	6.0	11.5	18.0
Merged-chr3-116815568-2	chr3	116815468	116815668	+	638.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7402.0	NM_001081326	77559.0	Mm.237099	NM_001081326	ENSMUSG00000033400	Agl	1110061O17Rik|9430004C13Rik|9630046L06Rik|AI850929|C77197	amylo-1,6-glucosidase, 4-alpha-glucanotransferase	protein-coding	6.5	7.0	15.0	85.5	10.5	6.5	4.5	12.5
Merged-chr3-69607070-4	chr3	69606986	69607186	+	976.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8126.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	46.5	67.5	27.5	716.5	83.5	47.5	16.5	36.5
Merged-chr11-17907058-4	chr11	17906965	17907165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46810.0	NM_026576	68145.0	Mm.178684	NM_026576	ENSMUSG00000016984	Etaa1	5730466H23Rik|AA672646	Ewing tumor-associated antigen 1	protein-coding	47.0	35.5	67.5	788.5	67.5	24.5	46.0	22.0
Merged-chr2-120153721-4	chr2	120153614	120153814	+	985.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 1 of 5)	intron (NM_133838, intron 1 of 5)	861.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	52.0	40.5	35.0	705.5	66.0	13.5	33.5	31.5
Merged-chr14-104547460-4	chr14	104547369	104547569	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24803.0	NM_026047	72486.0	Mm.291811	NM_026047	ENSMUSG00000022120	Rnf219	2610206B13Rik|2810449K13Rik|AI451544	ring finger protein 219	protein-coding	12.5	15.5	19.0	313.5	36.0	8.0	16.5	22.0
Merged-chr14-30888409-4	chr14	30888243	30888443	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018746, intron 2 of 22)	intron (NM_018746, intron 2 of 22)	1867.0	NM_001289632	16427.0	Mm.34819	NM_018746	ENSMUSG00000021922	Itih4	ITI-HC4|Itih-4|PK-120	inter alpha-trypsin inhibitor, heavy chain 4	protein-coding	4.5	16.0	12.0	75.5	13.5	6.5	3.5	5.0
Merged-chr1-155058734-4	chr1	155058624	155058824	+	932.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24540.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	20.0	14.5	5.0	177.0	33.0	11.0	9.0	28.0
Merged-chr13-23552146-2	chr13	23552046	23552246	+	848.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175655)	promoter-TSS (NM_175655)	-503.0	NM_175655	319157.0	Mm.442307	NM_175655	ENSMUSG00000069274	Hist1h4f	-	histone cluster 1, H4f	protein-coding	2.5	12.0	5.0	88.0	22.5	6.0	7.5	13.0
Merged-chr6-42382269-4	chr6	42382201	42382401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9033.0	NM_023580	13835.0	Mm.133330	NM_023580	ENSMUSG00000029859	Epha1	5730453L17Rik|AL033318|Eph|Esk	Eph receptor A1	protein-coding	195.0	161.5	150.0	2790.5	368.0	113.5	222.5	200.0
Merged-chr5-118380673-5	chr5	118380588	118380788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135461.0	NM_001081236	76792.0	Mm.103428	NM_001081236	ENSMUSG00000032840	2410131K14Rik	-	RIKEN cDNA 2410131K14 gene	protein-coding	11.5	20.5	16.0	198.0	35.0	19.0	16.5	19.0
Merged-chr3-55122606-4	chr3	55122490	55122690	+	849.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144988, intron 3 of 7)	ORR1F|LTR|ERVL-MaLR	10424.0	NM_001144987	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	10.5	7.5	16.5	169.0	27.0	10.5	4.5	13.5
Merged-chr10-99443648-4	chr10	99443545	99443745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-165526.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	81.0	84.0	65.5	996.0	127.0	30.0	64.5	47.0
Merged-chr15-63978218-3	chr15	63978121	63978321	+	887.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	MTC|LTR|ERVL-MaLR	19845.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	1.0	11.5	6.0	83.0	6.5	4.5	5.5	5.5
Merged-chr12-44266663-4	chr12	44266562	44266762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2492.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	29.0	75.0	41.5	285.0	199.0	58.0	53.5	27.0
Merged-chr2-148487089-4	chr2	148486975	148487175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43540.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	61.0	61.5	66.5	1152.0	92.5	32.0	37.5	54.0
Merged-chr19-47508877-4	chr19	47508793	47508993	+	917.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175360, intron 8 of 9)	intron (NM_175360, intron 8 of 9)	-4089.0	NR_045322	100503104.0	Mm.442735	NR_045322	ENSMUSG00000097990	Gm19557	-	predicted gene, 19557	ncRNA	17.0	17.5	13.5	316.5	21.5	14.5	9.0	19.5
Merged-chr4-132959668-4	chr4	132959551	132959751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14444.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	98.5	135.0	87.0	1115.5	247.5	93.0	99.0	86.0
Merged-chr15-73732228-4	chr15	73732124	73732324	+	992.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166388, intron 1 of 5)	intron (NM_001166388, intron 1 of 5)	7294.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	19.5	22.0	22.0	199.5	51.5	16.0	22.0	18.5
Merged-chr2-52949462-4	chr2	52949341	52949541	+	898.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	91573.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	14.0	7.0	10.5	197.5	36.0	7.5	7.0	7.0
Merged-chr10-43742876-4	chr10	43742770	43742970	+	939.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-3288.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	9.5	16.0	13.5	176.0	29.0	12.5	17.5	13.5
Merged-chr14-120275633-4	chr14	120275534	120275734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207515)	promoter-TSS (NM_207515)	-35.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	171.0	255.5	139.0	2243.5	405.5	133.0	201.5	124.5
Merged-chr11-101008286-4	chr11	101008196	101008396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1156.0	NM_016920	11975.0	Mm.340818	NM_016920	ENSMUSG00000019302	Atp6v0a1	AA959968|ATP6a1|Atp6n1|Atp6n1a|Atpv0a1|Vpp-1|Vpp1	ATPase, H+ transporting, lysosomal V0 subunit A1	protein-coding	40.0	66.0	27.5	496.0	118.0	37.5	28.5	62.5
Merged-chr6-32184741-4	chr6	32184628	32184828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 22 of 31)	intron (NM_175750, intron 22 of 31)	134440.0	NM_029587	76382.0	Mm.23510	NM_029587	ENSMUSG00000029766	1700012A03Rik	AI429084	RIKEN cDNA 1700012A03 gene	protein-coding	154.5	171.0	158.0	2930.0	297.5	88.0	139.5	107.0
Merged-chr2-117314003-4	chr2	117313901	117314101	+	934.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 2 of 16)	intron (NM_011246, intron 2 of 16)	28876.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	13.5	27.5	8.0	207.5	70.5	6.0	25.5	17.0
Merged-chr15-78587475-4	chr15	78587369	78587569	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5880.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	39.5	60.5	25.0	279.5	118.0	19.0	41.5	22.0
Merged-chr8-41019870-4	chr8	41019738	41019938	+	974.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015457, intron 2 of 2)	B3|SINE|B2	2370.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	15.5	23.5	22.5	216.5	38.0	13.0	32.5	23.5
Merged-chr16-93028878-4	chr16	93028761	93028961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-202787.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	119.0	178.5	98.5	1475.0	251.0	115.5	127.5	100.5
Merged-chr2-165969022-4	chr2	165968930	165969130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23607.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	77.5	161.5	63.5	878.5	195.0	97.5	109.5	86.5
Merged-chr11-118980548-4	chr11	118980450	118980650	+	957.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-7631.0	NM_001359574	238011.0	Mm.244114	NM_001030291	ENSMUSG00000046697	Enpp7	Alk-SMase|Gm254	ectonucleotide pyrophosphatase/phosphodiesterase 7	protein-coding	14.0	27.5	6.5	184.0	54.5	12.5	19.0	23.0
Merged-chr10-91168346-3	chr10	91168318	91168518	+	884.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080129, intron 1 of 8)	B1_Mus1|SINE|Alu	2132.0	NM_001283048	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	9.5	8.0	9.5	113.5	6.5	3.0	4.5	1.5
Merged-chr2-69015393-4	chr2	69015287	69015487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 4 of 10)	intron (NM_001347161, intron 4 of 10)	-120413.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	91.5	106.5	105.5	1985.0	179.5	53.0	74.5	103.5
Merged-chr11-70656557-3	chr11	70656472	70656672	+	851.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276285)	promoter-TSS (NM_001276285)	-604.0	NM_001136062	13808.0	Mm.251322	NM_007933	ENSMUSG00000060600	Eno3	Eno-3|MSE	enolase 3, beta muscle	protein-coding	6.5	11.0	8.5	90.5	20.0	7.5	3.5	13.0
Merged-chr1-170286179-1	chr1	170286079	170286279	+	655.0	f0_balb.idr	non-coding (NR_153837, exon 3 of 3)	non-coding (NR_153837, exon 3 of 3)	8861.0	NR_153837	26904.0	Mm.57009	NM_012009	ENSMUSG00000102418	Sh2d1b1	EAT-2|EAT-2A|Eat2|Eat2a|Sh2d1b	SH2 domain containing 1B1	protein-coding	8.5	5.0	5.0	83.5	16.5	0.5	5.5	9.0
Merged-chr12-104751642-4	chr12	104751518	104751718	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148948, intron 1 of 26)	CpG	334.0	NM_148948	192119.0	Mm.21135	NM_148948	ENSMUSG00000041415	Dicer1	1110006F08Rik|D12Ertd7e|mKIAA0928	dicer 1, ribonuclease type III	protein-coding	15.5	18.0	12.5	226.0	31.5	15.0	22.0	22.5
Merged-chr7-4865867-2	chr7	4865764	4865964	+	944.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026158, intron 1 of 5)	intron (NM_026158, intron 1 of 5)	315.0	NM_026158	67441.0	Mm.41385	NM_026158	ENSMUSG00000052605	Isoc2b	0610042E07Rik|AI553388|Isoc2	isochorismatase domain containing 2b	protein-coding	0.0	5.0	0.0	30.5	20.0	10.0	6.0	8.0
Merged-chr10-111118551-4	chr10	111118457	111118657	+	871.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-46245.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	10.0	16.0	7.5	161.5	46.5	7.0	12.5	10.5
Merged-chr8-120697805-4	chr8	120697716	120697916	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29496.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	39.0	31.0	35.5	589.5	57.5	15.0	27.0	19.0
Merged-chr6-53589943-4	chr6	53589792	53589992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172728, intron 1 of 6)	intron (NM_172728, intron 1 of 6)	16518.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	50.0	53.0	44.0	577.5	96.5	50.0	52.5	34.5
Merged-chr1-61001892-4	chr1	61001802	61002002	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23988.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	28.5	52.5	30.5	373.0	40.5	13.0	16.5	24.0
Merged-chr4-86588385-4	chr4	86588288	86588488	+	688.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173400, intron 12 of 16)	B3|SINE|B2	-1818.0	NR_028545	100217448.0	Mm.453533	NR_028545	ENSMUSG00000088958	Scarna8	MBI-57	small Cajal body-specific RNA 8	ncRNA	7.5	8.5	1.0	96.5	27.0	6.5	10.5	8.0
Merged-chr15-51689723-4	chr15	51689625	51689825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	175736.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	57.0	51.5	50.0	1169.5	110.0	48.0	65.0	39.0
Merged-chr16-50779586-4	chr16	50779480	50779680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3829.0	NR_131006	78639.0	Mm.160109	NR_131005	ENSMUSG00000092276	1700116B05Rik	-	RIKEN cDNA 1700116B05 gene	ncRNA	39.5	79.0	34.0	695.0	131.0	54.0	89.0	57.0
Merged-chr14-20804482-1	chr14	20804382	20804582	+	571.0	f0_balb.idr	Intergenic	Intergenic	10243.0	NR_153779	102631887.0	Mm.122292	NR_153779	ENSMUSG00000114241	Gm30108	-	predicted gene, 30108	ncRNA	6.0	8.5	5.5	102.5	10.0	1.5	2.0	4.0
Merged-chr11-88197412-3	chr11	88197313	88197513	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291270, intron 1 of 4)	intron (NM_001291270, intron 1 of 4)	3307.0	NM_001291270	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	42.5	34.5	25.0	387.0	14.0	7.0	2.5	10.5
Merged-chr15-96729245-3	chr15	96729149	96729349	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29521.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	8.0	14.0	2.0	78.0	15.5	8.5	6.0	12.0
Merged-chr11-51755682-2	chr11	51755582	51755782	+	839.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290785, intron 1 of 22)	intron (NM_001290785, intron 1 of 22)	1152.0	NM_001290785	77371.0	Mm.33878	NM_175255	ENSMUSG00000036391	Sec24a	-	Sec24 related gene family, member A (S. cerevisiae)	protein-coding	5.0	6.0	7.0	48.5	21.0	3.5	3.5	8.0
Merged-chr6-94222382-3	chr6	94222308	94222508	+	953.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130996, intron 1 of 1)	intron (NR_130996, intron 1 of 1)	15034.0	NR_130996	78178.0	Mm.452749	NR_130996	ENSMUSG00000045095	4930511A08Rik	-	RIKEN cDNA 4930511A08 gene	ncRNA	10.5	32.0	13.5	198.5	7.0	2.0	2.0	1.0
Merged-chr8-126920568-4	chr8	126920499	126920699	+	938.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25322.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	16.0	15.0	22.0	200.0	36.5	5.5	13.5	19.5
Merged-chr1-92749601-3	chr1	92749501	92749701	+	949.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82044.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	11.5	7.0	14.0	257.0	25.0	3.5	7.5	7.0
Merged-chr3-27439344-4	chr3	27439257	27439457	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 24 of 26)	intron (NM_001356953, intron 24 of 26)	68006.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	25.5	18.5	37.0	500.0	49.5	16.5	22.5	16.5
Merged-chr19-38027040-4	chr19	38026948	38027148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 1 of 53)	intron (NM_001302140, intron 1 of 53)	16529.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	48.0	42.5	20.5	454.5	39.5	20.5	26.5	39.0
Merged-chr4-66894815-3	chr4	66894727	66894927	+	985.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67276.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	15.0	19.5	17.5	305.0	8.5	1.0	2.5	3.0
Merged-chr13-43365549-4	chr13	43365443	43365643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5173.0	NM_178848	68346.0	Mm.35325	NM_178848	ENSMUSG00000054021	Sirt5	0610012J09Rik|1500032M05Rik|AV001953	sirtuin 5	protein-coding	26.0	33.5	33.0	435.0	34.0	15.5	20.0	16.5
Merged-chr1-151819411-4	chr1	151819285	151819485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311166, exon 20 of 20)	3' UTR (NM_001311166, exon 20 of 20)	64011.0	NM_001311166	66967.0	Mm.337691	NM_001039644	ENSMUSG00000043019	Edem3	2310050N11Rik	ER degradation enhancer, mannosidase alpha-like 3	protein-coding	77.5	122.0	84.5	1592.0	188.5	50.5	78.0	87.5
Merged-chr7-55855797-4	chr7	55855688	55855888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	intron (NM_001164661, intron 2 of 31)	13717.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	82.5	129.5	104.0	1324.0	121.0	48.0	100.5	60.5
Merged-chr8-60968710-4	chr8	60968605	60968805	+	918.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007711, intron 1 of 11)	Lx8|LINE|L1	-13906.0	NM_173876	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	10.0	26.5	21.5	243.5	33.0	6.0	18.5	10.5
Merged-chr9-95546975-4	chr9	95546953	95547153	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12764.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	9.0	15.0	5.0	110.5	41.0	7.0	11.0	9.5
Merged-chr18-39369569-4	chr18	39369469	39369669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 21 of 21)	intron (NM_001361073, intron 21 of 21)	117676.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	74.5	115.0	84.0	1378.5	200.0	64.5	98.5	83.5
Merged-chr1-184049239-4	chr1	184049129	184049329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022019, intron 2 of 3)	intron (NM_022019, intron 2 of 3)	14848.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	32.0	51.5	32.0	604.0	126.5	26.0	52.5	41.0
Merged-chr16-31944199-4	chr16	31944102	31944302	+	914.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172822, intron 2 of 2)	intron (NM_172822, intron 2 of 2)	4319.0	NR_027897	106264.0	Mm.347369	NM_025320	ENSMUSG00000107002	0610012G03Rik	AI839730	RIKEN cDNA 0610012G03 gene	ncRNA	13.0	30.0	17.5	261.5	63.5	21.0	12.5	19.0
Merged-chr10-19562823-3	chr10	19562718	19562918	+	846.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29131.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	5.0	7.0	18.5	101.5	13.5	2.5	8.0	7.0
Merged-chr7-80406379-3	chr7	80406241	80406441	+	688.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081454)	promoter-TSS (NM_001081454)	-905.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	8.0	7.5	8.0	76.5	11.0	2.0	2.5	3.0
Merged-chr10-80967587-3	chr10	80967481	80967681	+	678.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	33784.0	NM_001038655	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	1.5	6.5	11.0	61.5	48.0	6.5	9.0	5.5
Merged-chr1-171018886-4	chr1	171018784	171018984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144559)	promoter-TSS (NM_144559)	-42.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	27.0	44.0	39.0	521.5	78.0	26.0	42.0	45.5
Merged-chr2-151039402-4	chr2	151039291	151039491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026086)	promoter-TSS (NM_026086)	-12.0	NM_026086	67311.0	Mm.480682	NM_026086	ENSMUSG00000053916	Nanp	1600031M04Rik|Hdhd4	N-acetylneuraminic acid phosphatase	protein-coding	113.0	110.0	75.5	1006.5	246.5	72.5	94.5	99.0
Merged-chr14-50824316-4	chr14	50824173	50824373	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009351, exon 55 of 55)	exon (NM_009351, exon 55 of 55)	16357.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	5.0	11.5	8.0	207.5	132.0	36.0	53.5	61.5
Merged-chr5-21056719-3	chr5	21056620	21056820	+	946.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356591)	promoter-TSS (NM_001356591)	-809.0	NM_011203	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	3.0	10.0	10.0	154.0	18.5	8.5	8.5	13.0
Merged-chr8-84815742-4	chr8	84815665	84815865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033145, exon 2 of 2)	non-coding (NR_033145, exon 2 of 2)	7058.0	NM_201227	23863.0	Mm.304252	NM_201227	ENSMUSG00000053226	Dand5	Cerl-2|Cerl2|Cerr2|Dte|GREM3|coco	DAN domain family member 5, BMP antagonist	protein-coding	70.5	71.5	40.0	546.5	102.5	31.0	53.0	50.5
Merged-chr1-80660626-4	chr1	80660536	80660736	+	804.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	4716.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	9.5	11.5	9.0	264.0	26.0	1.5	15.5	16.0
Merged-chr10-39386374-4	chr10	39386272	39386472	+	897.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 1 of 13)	intron (NM_001122893, intron 1 of 13)	16573.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	23.5	39.5	29.0	512.5	16.0	10.0	11.5	8.0
Merged-chr17-64615640-4	chr17	64615547	64615747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	13998.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	40.5	52.5	33.5	793.0	127.5	29.5	20.0	37.5
Merged-chr10-82764067-4	chr10	82763928	82764128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010914, exon 1 of 8)	5' UTR (NM_010914, exon 1 of 8)	113.0	NM_010914	18045.0	Mm.245998	NM_010914	ENSMUSG00000020248	Nfyb	AA985999|Cbf-A	nuclear transcription factor-Y beta	protein-coding	203.0	241.5	208.0	2902.0	545.0	205.0	271.5	195.5
Merged-chr4-32982850-3	chr4	32982786	32982986	+	906.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027491)	promoter-TSS (NM_027491)	-112.0	NM_027491	52187.0	Mm.300814	NM_027491	ENSMUSG00000028278	Rragd	5730543C08Rik|AI467523|C030003H22Rik|D4Ertd174e	Ras-related GTP binding D	protein-coding	19.0	18.5	10.5	158.5	15.5	8.0	6.5	6.5
Merged-chr13-17018073-3	chr13	17017964	17018164	+	857.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138654, intron 12 of 13)	Lx5b|LINE|L1	676701.0	NM_138654	192136.0	Mm.364180	NM_138654	ENSMUSG00000055137	Sugct	5033411D12Rik|D17907	succinyl-CoA glutarate-CoA transferase	protein-coding	54.5	49.0	74.0	1111.0	1.0	0.5	0.0	0.0
Merged-chr10-91124069-4	chr10	91123959	91124159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133668)	promoter-TSS (NM_133668)	-96.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	245.5	382.5	204.5	3385.0	637.5	244.0	295.5	258.0
Merged-chr11-114927737-4	chr11	114927654	114927854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347651, intron 2 of 3)	intron (NM_001347651, intron 2 of 3)	6632.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	41.0	84.5	50.5	151.5	139.5	47.5	53.5	31.0
Merged-chr16-36720393-4	chr16	36720308	36720508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285791, intron 5 of 6)	intron (NM_001285791, intron 5 of 6)	26430.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	24.5	37.5	37.0	430.5	50.0	18.5	37.5	26.5
Merged-chr3-95674961-4	chr3	95674857	95675057	+	945.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	12960.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	10.0	11.0	9.5	111.0	42.5	10.5	8.0	13.0
Merged-chr17-57172385-3	chr17	57172235	57172435	+	857.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	21846.0	NM_019418	50930.0	Mm.483369	NM_019418	ENSMUSG00000005824	Tnfsf14	HVEM-L|HVEML|LIGHT|LTg|Ly113|Tnlg1d	tumor necrosis factor (ligand) superfamily, member 14	protein-coding	6.0	6.0	5.0	58.0	6.0	2.5	0.0	3.5
Merged-chr17-34124376-3	chr17	34124285	34124485	+	920.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010386, intron 1 of 5)	(T)n|Simple_repeat|Simple_repeat	-1133.0	NM_001360530	14998.0	Mm.16373	NM_010386	ENSMUSG00000037649	H2-DMa	H-2Ma|H2-Ma	histocompatibility 2, class II, locus DMa	protein-coding	3.5	9.5	3.0	39.5	69.0	32.5	24.0	20.5
Merged-chr15-78778645-4	chr15	78778480	78778680	+	890.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130859, intron 17 of 20)	intron (NM_130859, intron 17 of 20)	-5135.0	NM_008595	17305.0	Mm.149235	NM_008595	ENSMUSG00000018169	Mfng	AW546563	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	5.0	11.0	4.0	52.0	24.0	6.0	7.0	6.5
Merged-chr2-160645843-4	chr2	160645736	160645936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009408)	promoter-TSS (NM_009408)	-61.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	288.0	510.0	305.5	3517.5	862.5	387.5	372.0	357.0
Merged-chr7-16925010-2	chr7	16924910	16925110	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007590)	promoter-TSS (NM_007590)	-978.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	8.0	5.0	9.0	49.5	23.0	5.0	9.5	15.5
Merged-chr18-62054195-1	chr18	62054095	62054295	+	666.666687	f0_balb.idr	Intergenic	Intergenic	101120.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	8.0	9.5	8.0	103.5	1.0	1.5	1.0	3.0
Merged-chr5-146293523-4	chr5	146293419	146293619	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153599, intron 7 of 12)	intron (NM_153599, intron 7 of 12)	62269.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	29.5	44.0	44.5	826.5	64.5	16.0	32.0	24.0
Merged-chr13-17838643-3	chr13	17838544	17838744	+	911.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33547.0	NM_027118	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	14.0	8.5	1.5	199.0	14.5	4.5	9.0	4.5
Merged-chr4-45530086-4	chr4	45530096	45530296	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033306, exon 1 of 6)	exon (NM_001033306, exon 1 of 6)	632.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	15.0	25.5	30.0	240.5	41.0	29.0	13.5	28.0
Merged-chr18-35740515-4	chr18	35740418	35740618	+	962.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289592)	promoter-TSS (NM_001289592)	36.0	NM_028261	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	22.5	20.0	5.0	272.5	42.0	23.0	16.0	20.5
Merged-chr5-100635138-6	chr5	100635014	100635214	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39142.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	30.5	26.5	32.5	322.0	66.5	22.0	20.5	34.0
Merged-chr14-20794064-4	chr14	20793973	20794173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039138)	promoter-TSS (NM_001039138)	15.0	NM_001039138	12325.0	Mm.235182	NM_178597	ENSMUSG00000021820	Camk2g	Camkg	calcium/calmodulin-dependent protein kinase II gamma	protein-coding	88.5	143.5	81.0	1386.5	276.5	118.0	119.0	70.5
Merged-chr2-117346715-4	chr2	117346621	117346821	+	828.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-3844.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	22.5	7.0	8.0	72.0	26.5	8.5	16.5	8.0
Merged-chr16-4469780-3	chr16	4469678	4469878	+	839.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49280.0	NM_009624	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	3.5	14.5	6.0	104.5	18.0	7.5	8.5	5.0
Merged-chr4-145229307-4	chr4	145229217	145229417	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	17553.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	20.5	28.5	41.5	670.5	53.5	15.5	34.0	37.5
Merged-chr4-11031934-4	chr4	11031850	11032050	+	741.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24331.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	7.0	14.5	9.0	248.5	16.5	3.5	3.0	13.0
Merged-chr6-128479945-4	chr6	128479859	128480059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028593, intron 2 of 4)	intron (NR_028593, intron 2 of 4)	41202.0	NR_028593	791299.0	Mm.297516	NR_028592	ENSMUSG00000059659	Gm10069	-	predicted gene 10069	ncRNA	51.0	77.0	51.5	882.0	184.5	55.5	94.0	63.0
Merged-chr8-70610280-4	chr8	70610169	70610369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1955.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	177.5	263.0	150.5	2650.5	429.0	169.0	219.0	143.0
Merged-chr10-81997369-4	chr10	81997263	81997463	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-50760.0	NM_001319203	408062.0	Mm.391409	NM_001024626	ENSMUSG00000061371	Zfp873	-	zinc finger protein 873	protein-coding	19.0	46.5	18.0	287.5	90.5	31.0	31.0	38.0
Merged-chr7-24462431-4	chr7	24462346	24462546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011113)	promoter-TSS (NM_011113)	-37.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	49.5	78.0	39.0	675.0	94.0	41.0	51.0	51.0
Merged-chr6-83038826-4	chr6	83038745	83038945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013586, intron 4 of 13)	intron (NM_013586, intron 4 of 13)	4621.0	NM_013586	16950.0	Mm.380433	NM_013586	ENSMUSG00000000693	Loxl3	Lor2|Loxl2	lysyl oxidase-like 3	protein-coding	43.5	94.0	34.5	808.5	226.5	72.0	110.0	82.0
Merged-chr14-32174336-4	chr14	32174243	32174443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033988, intron 6 of 9)	intron (NM_001033988, intron 6 of 9)	8554.0	NM_019744	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	43.5	88.0	94.0	831.0	155.5	41.0	47.0	63.5
Merged-chr11-104442403-6	chr11	104442325	104442525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081045)	promoter-TSS (NM_001081045)	-134.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	16.5	25.5	15.5	180.0	91.0	40.5	43.5	30.0
Merged-chr15-99875495-4	chr15	99875386	99875586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113545)	promoter-TSS (NM_001113545)	-30.0	NM_001113545	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	93.0	125.0	42.5	839.0	159.5	65.5	83.5	65.5
Merged-chr5-30666723-4	chr5	30666628	30666828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302130)	promoter-TSS (NM_001302130)	-158.0	NM_007681	12615.0	Mm.290563	NM_007681	ENSMUSG00000029177	Cenpa	Cenp-A	centromere protein A	protein-coding	194.0	238.0	191.5	3337.5	352.0	166.5	158.5	166.5
Merged-chr1-165194485-4	chr1	165194364	165194564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145512)	promoter-TSS (NM_145512)	-26.0	NR_151712	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	76.0	89.0	73.0	879.0	134.0	31.5	53.5	51.0
Merged-chr8-41283839-4	chr8	41283744	41283944	+	773.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 16 of 37)	intron (NM_023662, intron 16 of 37)	44085.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	9.0	6.5	2.0	144.0	31.5	7.0	10.5	6.5
Merged-chr2-152105511-4	chr2	152105408	152105608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029688)	promoter-TSS (NM_029688)	-16.0	NM_029688	76650.0	Mm.218639	NM_029688	ENSMUSG00000032802	Srxn1	1700127B04Rik|AI854065|AW488194|Npn3|Srx|Srx1|TX01	sulfiredoxin 1 homolog (S. cerevisiae)	protein-coding	121.5	163.0	117.5	1394.0	238.0	98.5	103.5	84.5
Merged-chr17-78891227-4	chr17	78891140	78891340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163625, intron 4 of 6)	MTE2a|LTR|ERVL-MaLR	-8668.0	NM_011163	19106.0	Mm.378990	NM_011163	ENSMUSG00000024079	Eif2ak2	2310047A08Rik|4732414G15Rik|AI467567|AI747578|Pkr|Prkr|Tik	eukaryotic translation initiation factor 2-alpha kinase 2	protein-coding	29.5	24.0	71.5	727.5	253.0	117.0	100.5	144.0
Merged-chr6-26393121-3	chr6	26393019	26393219	+	558.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	461693.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	8.5	2.0	17.0	104.0	7.5	5.0	5.0	10.0
Merged-chr9-111055082-1	chr9	111054982	111055182	+	751.0	f0_balb.idr	3' UTR (NM_001302376, exon 3 of 3)	3' UTR (NM_001302376, exon 3 of 3)	2162.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	14.5	18.0	7.0	76.5	25.5	4.0	4.0	0.5
Merged-chr11-109651020-4	chr11	109650959	109651159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021880, exon 1 of 11)	5' UTR (NM_021880, exon 1 of 11)	138.0	NM_001313976	19084.0	Mm.30039	NM_021880	ENSMUSG00000020612	Prkar1a	1300018C22Rik|RIalpha|Tse-1|Tse1	protein kinase, cAMP dependent regulatory, type I, alpha	protein-coding	56.5	85.5	105.5	859.0	164.5	61.5	74.0	94.0
Merged-chr5-66087207-4	chr5	66087110	66087310	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	10969.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	40.5	40.0	15.5	549.5	115.5	38.0	35.0	29.5
Merged-chr2-156065488-8	chr2	156065395	156065595	+	981.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139151, exon 1 of 12)	exon (NM_139151, exon 1 of 12)	282.0	NM_139151	245865.0	Mm.330713	NM_139151	ENSMUSG00000038180	Spag4	1700041K21Rik|MNCb-0953|Sun4|mKIAA4118	sperm associated antigen 4	protein-coding	15.0	25.0	23.5	228.0	27.0	8.5	12.0	17.5
Merged-chr17-31122049-2	chr17	31121949	31122149	+	900.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7562.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	7.0	10.0	5.5	20.5	9.0	6.5	6.5	6.0
Merged-chr17-25797155-4	chr17	25797053	25797253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133719)	promoter-TSS (NM_133719)	-108.0	NM_133719	70083.0	Mm.41925	NM_133719	ENSMUSG00000002274	Metrn	1810034B16Rik|EyeLinc16|Hyrac	meteorin, glial cell differentiation regulator	protein-coding	47.0	54.0	30.5	466.5	92.0	33.5	27.0	35.0
Merged-chr6-113741631-4	chr6	113741530	113741730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024206)	promoter-TSS (NM_024206)	-949.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	46.0	86.5	45.5	653.0	104.0	54.0	63.5	46.5
Merged-chr1-134091677-2	chr1	134091577	134091777	+	864.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12522.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	5.0	4.5	7.5	10.5	5.0	6.0	1.0	4.0
Merged-chr2-154712414-4	chr2	154712327	154712527	+	838.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55401.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	8.5	9.0	7.5	138.5	24.0	11.5	13.5	6.5
Merged-chr11-77984419-6	chr11	77984268	77984468	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174852, intron 2 of 14)	CpG-2283	1552.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	8.5	12.5	9.5	106.5	21.5	9.0	5.0	10.0
Merged-chr17-30574744-3	chr17	30574639	30574839	+	992.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172618, intron 1 of 11)	intron (NM_172618, intron 1 of 11)	1548.0	NM_172618	224671.0	Mm.41220	NM_027060	ENSMUSG00000062202	Btbd9	1700023F20Rik|4930402L05|AI464421	BTB (POZ) domain containing 9	protein-coding	6.0	5.0	0.0	34.0	27.5	20.0	15.5	17.0
Merged-chr3-108990330-4	chr3	108990227	108990427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 4 of 10)	intron (NM_001163567, intron 4 of 10)	37280.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	38.5	75.0	60.0	1092.0	55.0	29.0	38.0	33.5
Merged-chr18-77792255-3	chr18	77792154	77792354	+	877.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2296.0	NM_013831	19201.0	Mm.57174	NM_013831	ENSMUSG00000025429	Pstpip2	MAYP|cmo	proline-serine-threonine phosphatase-interacting protein 2	protein-coding	9.0	16.0	7.0	100.5	19.5	5.5	9.0	14.5
Merged-chr1-120535059-2	chr1	120534959	120535159	+	718.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30035.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	7.0	1.0	4.0	69.5	16.0	6.0	9.0	5.0
Merged-chr5-145140941-4	chr5	145140827	145141027	+	832.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033313)	promoter-TSS (NM_001033313)	490.0	NM_001310770	231889.0	Mm.277413	NM_001008705	ENSMUSG00000038722	Bud31	C77604|EDG-2|EDG2|G10	BUD31 homolog	protein-coding	4.0	11.5	4.0	78.5	26.0	10.5	5.5	16.5
Merged-chr8-84840011-2	chr8	84839911	84840111	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001297606, intron 1 of 8)	MIRb|SINE|MIR	654.0	NM_001297607	19358.0	Mm.255539	NM_009010	ENSMUSG00000003813	Rad23a	2310040P19Rik|AL024030|HR23A|mHR23A	RAD23 homolog A, nucleotide excision repair protein	protein-coding	10.0	7.0	6.0	77.5	40.0	5.0	11.0	14.5
Merged-chr9-44552391-4	chr9	44552287	44552487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-25966.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	23.5	38.5	26.0	265.5	123.5	59.0	58.5	37.0
Merged-chr17-17392972-4	chr17	17392879	17393079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025934, intron 9 of 9)	ID_B1|SINE|B4	-9707.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	25.0	52.0	17.5	247.0	69.0	28.5	38.0	26.0
Merged-chr5-43354581-4	chr5	43354554	43354754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119300.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	43.0	44.5	76.5	950.0	149.5	35.5	48.0	64.0
Merged-chr2-128718522-4	chr2	128718437	128718637	+	878.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	19622.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	13.0	11.0	23.5	364.5	24.0	9.0	11.0	11.5
Merged-chr13-94296123-4	chr13	94296019	94296219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10288.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	32.5	58.5	39.5	741.5	71.0	21.0	39.5	49.5
Merged-chr3-108132715-4	chr3	108132591	108132791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010306, intron 1 of 8)	intron (NM_010306, intron 1 of 8)	13461.0	NM_010306	14679.0	Mm.271703	NM_010306	ENSMUSG00000000001	Gnai3	AI158965|AW537698|Galphai3|Gnai-3	guanine nucleotide binding protein (G protein), alpha inhibiting 3	protein-coding	20.5	29.5	17.5	446.0	48.5	14.5	19.5	32.0
Merged-chr4-3678110-4	chr4	3678008	3678208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010747)	promoter-TSS (NM_010747)	-13.0	NM_001111096	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	69.5	127.5	83.0	1329.5	224.5	86.5	152.0	109.5
Merged-chr5-65401758-4	chr5	65401645	65401845	+	862.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024471, intron 7 of 10)	intron (NM_024471, intron 7 of 10)	10248.0	NM_001310612	79464.0	Mm.195776	NM_024471	ENSMUSG00000029199	Lias	2900022L22Rik|4933425M12Rik|7a5ex|C77512|LS|lip-syn	lipoic acid synthetase	protein-coding	15.5	35.5	6.0	93.5	39.0	7.0	9.0	14.5
Merged-chr13-19854235-1	chr13	19854135	19854335	+	739.0	f0_balb.idr	Intergenic	Intergenic	-29978.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	9.0	9.5	4.5	90.0	5.5	6.0	1.5	5.5
Merged-chr10-42031252-4	chr10	42031136	42031336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12854.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	21.5	32.0	36.5	270.0	48.0	16.0	29.5	21.0
Merged-chr1-39736457-1	chr1	39736357	39736557	+	661.0	f0_balb.idr	Intergenic	Intergenic	-15468.0	NM_001145660	619289.0	Mm.334107	NM_001145660	ENSMUSG00000057173	Rfx8	4933400N17Rik	regulatory factor X 8	protein-coding	9.5	6.5	11.0	112.5	2.0	4.0	1.0	3.0
Merged-chr9-99090115-4	chr9	99090006	99090206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 7 of 23)	intron (NM_029094, intron 7 of 23)	50105.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	65.0	91.5	78.5	1078.0	164.0	56.0	69.0	73.0
Merged-chr17-49423057-4	chr17	49422954	49423154	+	970.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5310.0	NM_028464	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	41.5	75.0	45.5	611.5	83.0	24.0	18.0	18.0
Merged-chr16-84814718-4	chr16	84814606	84814806	+	754.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023844, intron 5 of 9)	intron (NM_023844, intron 5 of 9)	20270.0	NM_001358500	11957.0	Mm.353	NM_016755	ENSMUSG00000022890	Atp5j	CF6	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F	protein-coding	6.5	15.0	9.5	114.0	20.0	7.0	16.0	13.0
Merged-chr13-65127545-1	chr13	65127445	65127645	+	579.666687	f0_balb.idr	Intergenic	Intergenic	-14563.0	NM_133680	66631.0	Mm.239196	NM_133680	ENSMUSG00000038212	Mfsd14b	5730414C17Rik|AU045608|AW539692|Hiatl1	major facilitator superfamily domain containing 14B	protein-coding	7.5	5.5	8.5	70.5	4.5	3.0	5.0	4.5
Merged-chr18-36699733-4	chr18	36699643	36699843	+	960.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3818.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	51.0	20.5	49.5	792.5	60.5	10.5	32.5	41.5
Merged-chr2-169929845-5	chr2	169929742	169929942	+	850.3133539999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33345.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	11.0	7.5	0.0	79.5	16.5	8.5	4.5	8.0
Merged-chr4-12140288-4	chr4	12140186	12140386	+	941.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028226, exon 1 of 3)	5' UTR (NM_028226, exon 1 of 3)	169.0	NM_028226	72397.0	Mm.430709	NM_028226	ENSMUSG00000046667	Rbm12b1	3000004N20Rik|Rbm12b|Rbm12ba	RNA binding motif protein 12 B1	protein-coding	18.0	27.0	22.5	164.0	23.0	22.5	14.5	12.0
Merged-chr15-3999356-4	chr15	3999262	3999462	+	846.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045740, intron 2 of 2)	RLTR17|LTR|ERVK	3323.0	NR_045740	328489.0	Mm.447020	NR_045740	ENSMUSG00000097662	Gm2093	100039196|A630020A06	predicted gene 2093	ncRNA	15.0	19.5	8.0	135.5	32.5	15.0	19.5	16.5
Merged-chr12-44933176-4	chr12	44933050	44933250	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	intron (NM_144552, intron 2 of 5)	141333.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	14.5	27.5	19.5	318.5	56.5	15.0	22.0	18.5
Merged-chr5-16502107-4	chr5	16501993	16502193	+	987.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51402.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	27.5	20.0	19.0	565.5	36.0	21.0	24.0	21.0
Merged-chr15-101244136-4	chr15	101244018	101244218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18932.0	NR_045328	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	108.5	128.5	105.5	1111.0	219.5	97.0	97.0	119.0
Merged-chr10-10553147-4	chr10	10553053	10553253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	5054.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	29.0	40.0	21.5	921.0	45.0	4.5	19.0	26.5
Merged-chr4-136505500-4	chr4	136505443	136505643	+	891.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024452, intron 1 of 4)	intron (NM_024452, intron 1 of 4)	35782.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	40.0	14.0	24.5	444.5	44.0	8.5	6.5	8.0
Merged-chr17-6749448-7	chr17	6749299	6749499	+	866.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 6 of 12)	intron (NM_009510, intron 6 of 12)	33381.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	13.0	22.5	10.0	132.5	23.0	10.5	10.5	11.5
Merged-chr10-80561539-7	chr10	80561462	80561662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025852)	promoter-TSS (NM_025852)	-2.0	NM_025852	66932.0	Mm.1116	NM_025852	ENSMUSG00000047417	Rexo1	1700021P10Rik|2610511M11Rik|AW050347|EloA-BP1|Rex1|Tceb3bp1	REX1, RNA exonuclease 1	protein-coding	21.5	28.0	16.5	281.0	50.0	31.0	24.5	44.5
Merged-chr4-58911223-2	chr4	58911123	58911323	+	807.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355697, intron 1 of 49)	intron (NM_001355697, intron 1 of 49)	707.0	NM_001355697	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	2.5	7.5	2.0	61.5	13.5	8.0	6.0	8.0
Merged-chr17-12039412-4	chr17	12039298	12039498	+	978.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016694, intron 10 of 11)	intron (NM_016694, intron 10 of 11)	-79886.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	22.5	53.5	14.5	601.5	47.0	35.0	33.5	14.0
Merged-chr18-60792143-4	chr18	60792035	60792235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-11714.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	49.5	71.5	48.0	773.0	137.5	52.5	65.0	83.0
Merged-chr3-81932658-4	chr3	81932556	81932756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177662)	promoter-TSS (NM_177662)	55.0	NM_177662	229445.0	Mm.254642	NM_177662	ENSMUSG00000028015	Ctso	A330105D01Rik|AI118514	cathepsin O	protein-coding	26.0	46.5	61.5	748.0	100.0	31.0	50.5	36.5
Merged-chr17-33503682-3	chr17	33503588	33503788	+	899.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20397.0	NR_137628	224697.0	Mm.29304	NM_172619	ENSMUSG00000024299	Adamts10	9430006O18|AW045948|Adam-ts10|Adamts-10|Znmp	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 10	protein-coding	4.5	10.5	8.0	178.0	5.0	4.0	2.5	5.5
Merged-chr1-171037109-3	chr1	171036981	171037181	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Asp-GAY|tRNA|tRNA	18155.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	7.5	9.5	9.0	117.5	20.5	4.5	7.5	13.5
Merged-chr6-82774541-4	chr6	82774439	82774639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013820)	promoter-TSS (NM_013820)	-85.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	300.5	491.0	316.5	4761.0	641.5	252.0	287.5	217.5
Merged-chr2-77285148-3	chr2	77285032	77285232	+	847.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4540.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	8.0	11.5	5.0	81.0	20.0	2.5	10.0	6.5
Merged-chr13-117224527-3	chr13	117224433	117224633	+	796.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010330, intron 1 of 8)	intron (NM_010330, intron 1 of 8)	3960.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	16.0	6.0	16.0	139.5	10.5	2.5	2.0	3.5
Merged-chr11-84442405-2	chr11	84442305	84442505	+	705.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019816, intron 12 of 12)	intron (NM_019816, intron 12 of 12)	71096.0	NM_019816	56321.0	Mm.257482	NM_019816	ENSMUSG00000018697	Aatf	4933415H02Rik|5830465M17Rik|Che-1|Trb	apoptosis antagonizing transcription factor	protein-coding	5.0	9.0	5.5	139.0	12.0	0.5	1.0	6.0
Merged-chr9-121419829-3	chr9	121419712	121419912	+	845.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357968, intron 1 of 14)	intron (NM_001357968, intron 1 of 14)	16366.0	NM_001357968	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	3.5	12.0	8.0	57.5	12.5	4.5	7.0	9.5
Merged-chr2-104001296-4	chr2	104001237	104001437	+	730.012512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175161, intron 3 of 4)	intron (NM_175161, intron 3 of 4)	-26462.0	NM_020593	57443.0	Mm.143768	NM_020593	ENSMUSG00000027180	Fbxo3	1200002G09Rik|1700026K02Rik|AI046358|Fba	F-box protein 3	protein-coding	9.0	5.5	13.0	69.5	5.5	4.5	12.5	10.0
Merged-chr18-49832602-4	chr18	49832516	49832716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081371)	promoter-TSS (NM_001081371)	-381.0	NM_001081371	240283.0	Mm.257790	NM_001081371	ENSMUSG00000037416	Dmxl1	C630007L23Rik|D030030C22	Dmx-like 1	protein-coding	236.0	331.5	219.0	3696.0	565.5	262.0	334.0	264.0
Merged-chr11-59518399-4	chr11	59518317	59518517	+	980.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11777.0	NM_172941	268417.0	Mm.239793	NM_172941	ENSMUSG00000020472	Zkscan17	Nizp1|Zfp496|Znf496	zinc finger with KRAB and SCAN domains 17	protein-coding	20.5	28.0	15.5	379.0	77.5	12.0	21.5	34.5
Merged-chr6-71149727-3	chr6	71149600	71149800	+	887.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5320.0	NM_178413	232078.0	Mm.37547	NM_178413	ENSMUSG00000054474	Thnsl2	BC051244|TSH2	threonine synthase-like 2 (bacterial)	protein-coding	9.5	11.5	8.0	72.5	18.0	4.0	8.5	7.5
Merged-chr5-63812462-4	chr5	63812384	63812584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029554)	promoter-TSS (NM_029554)	-11.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	41.0	62.0	54.0	767.5	121.0	36.5	52.0	61.5
Merged-chr17-25678158-4	chr17	25678144	25678344	+	975.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38928.0	NM_022422	64337.0	Mm.171123	NM_022422	ENSMUSG00000025739	Gng13	1500031D04Rik|AB030194|Ggamma13	guanine nucleotide binding protein (G protein), gamma 13	protein-coding	13.5	14.0	20.5	72.0	29.5	10.5	10.0	17.5
Merged-chr3-135192083-4	chr3	135191975	135192175	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20488.0	NM_173762	229841.0	Mm.161470	NM_173762	ENSMUSG00000045328	Cenpe	312kDa|AU019344|BC049989|C530022J18|CENP-E|Kif10	centromere protein E	protein-coding	21.0	21.5	25.5	856.5	33.0	12.0	24.5	39.0
Merged-chr10-15671905-4	chr10	15671814	15672014	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119863.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	14.0	24.5	27.0	366.5	57.0	22.5	30.0	22.0
Merged-chr10-62504068-4	chr10	62503971	62504171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	intron (NM_001358965, intron 2 of 3)	3686.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	103.0	183.5	85.0	1997.5	253.0	88.0	119.0	105.0
Merged-chr9-113800839-4	chr9	113800752	113800952	+	814.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286603, intron 1 of 4)	intron (NM_001286603, intron 1 of 4)	7522.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	5.5	10.0	15.0	289.5	30.5	9.0	13.0	6.5
Merged-chr6-58999151-4	chr6	58999046	58999246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153574, intron 2 of 17)	intron (NM_153574, intron 2 of 17)	25356.0	NM_153574	58909.0	Mm.28813	NM_153574	ENSMUSG00000037709	Fam13a	AI462012|D430015B01Rik|FAM13A1|Precm1	family with sequence similarity 13, member A	protein-coding	115.0	94.5	120.5	2074.0	171.0	61.5	89.5	72.0
Merged-chr14-25458561-5	chr14	25458459	25458659	+	998.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310666)	promoter-TSS (NM_001310666)	-626.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	7.0	8.5	6.0	75.0	6.5	9.0	4.0	5.0
Merged-chr19-36409626-4	chr19	36409483	36409683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029508, intron 1 of 8)	CpG	30516.0	NM_029508	76073.0	Mm.259180	NM_029508	ENSMUSG00000024805	Pcgf5	0610009F02Rik|1110054A01Rik|5830406C17Rik|5830443C21Rik|9530023M17Rik|AI324127	polycomb group ring finger 5	protein-coding	187.0	220.0	212.5	2502.0	428.0	164.0	184.0	151.0
Merged-chr18-7869044-4	chr18	7868886	7869086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146298)	promoter-TSS (NM_001146298)	154.0	NM_001282093	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	80.5	108.0	133.0	1151.5	181.5	88.5	69.0	95.0
Merged-chr8-70439691-4	chr8	70439582	70439782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004062)	promoter-TSS (NM_001004062)	-109.0	NM_001004062	382056.0	Mm.227767	NM_001004062	ENSMUSG00000003575	Crtc1	AI413414|Mect1|R74955|TORC1|mKIAA0616	CREB regulated transcription coactivator 1	protein-coding	156.0	282.0	120.0	2033.5	389.5	153.5	186.5	151.5
Merged-chr1-131470767-4	chr1	131470629	131470829	+	843.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	56632.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	7.5	30.0	0.5	111.0	28.5	12.0	10.5	9.0
Merged-chr2-163587675-4	chr2	163587572	163587772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14642.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	28.0	61.5	52.0	716.5	65.0	22.0	34.5	28.5
Merged-chr3-116189554-4	chr3	116189434	116189634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59846.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	79.0	128.0	89.5	1469.5	185.5	64.0	68.5	96.5
Merged-chr2-103084700-2	chr2	103084600	103084800	+	721.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355474, intron 2 of 5)	intron (NM_001355474, intron 2 of 5)	11025.0	NM_019735	56369.0	Mm.24772	NM_019735	ENSMUSG00000010911	Apip	APIP2|CGI-29|Mmrp19	APAF1 interacting protein	protein-coding	6.0	5.5	6.0	11.5	16.5	2.0	1.0	4.5
Merged-chr8-70893781-4	chr8	70893684	70893884	+	918.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029751)	TTS (NM_029751)	-1027.0	NM_053248	114479.0	Mm.172923	NM_053248	ENSMUSG00000000792	Slc5a5	NIS	solute carrier family 5 (sodium iodide symporter), member 5	protein-coding	8.5	22.0	9.5	133.5	51.0	21.5	15.5	20.5
Merged-chr7-45570378-4	chr7	45570285	45570485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243052)	promoter-TSS (NM_001243052)	232.0	NM_009737	12036.0	Mm.24210	NM_009737	ENSMUSG00000030826	Bcat2	Bcat(m)|Bcat-2|Eca40	branched chain aminotransferase 2, mitochondrial	protein-coding	43.5	34.0	34.0	445.0	51.0	17.0	19.5	31.0
Merged-chr4-148657867-4	chr4	148657744	148657944	+	790.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085505, intron 3 of 10)	intron (NM_001085505, intron 3 of 10)	14527.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	7.5	6.5	3.0	103.5	23.5	11.0	13.0	22.5
Merged-chr7-30559265-4	chr7	30559124	30559324	+	847.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290569, intron 1 of 8)	intron (NM_001290569, intron 1 of 8)	422.0	NM_029377	75660.0	Mm.379242	NM_029377	ENSMUSG00000036845	Lin37	1810054G18Rik	lin-37 homolog (C. elegans)	protein-coding	19.0	12.5	3.5	32.5	20.5	6.5	12.5	7.5
Merged-chr8-85060096-4	chr8	85060005	85060205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026791)	promoter-TSS (NM_026791)	-14.0	NM_026791	68628.0	Mm.374815	NM_026791	ENSMUSG00000008167	Fbxw9	1110017H11Rik|Fbw9	F-box and WD-40 domain protein 9	protein-coding	39.0	45.5	16.0	480.0	55.0	30.0	26.5	35.5
Merged-chr5-5367715-4	chr5	5367597	5367797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	12554.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	53.5	63.0	45.5	891.0	91.5	30.0	24.0	31.0
Merged-chr12-98290661-4	chr12	98290582	98290782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	22047.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	42.5	32.5	38.5	727.5	94.0	33.5	44.5	38.0
Merged-chr15-41765006-6	chr15	41764905	41765105	+	981.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 3 of 17)	intron (NR_152565, intron 3 of 17)	-23990.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	15.5	25.0	13.0	182.5	28.5	13.5	13.5	19.5
Merged-chr11-86485174-4	chr11	86485072	86485272	+	813.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029788, intron 1 of 8)	CpG	515.0	NM_029788	76892.0	Mm.262707	NM_029788	ENSMUSG00000020521	Rnft1	0610013E23Rik|AV007605	ring finger protein, transmembrane 1	protein-coding	6.5	9.5	9.0	94.0	19.0	7.0	10.0	17.5
Merged-chr1-57606492-3	chr1	57606378	57606578	+	889.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11D|LTR|ERVK	-168383.0	NM_144882	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	3.0	6.0	11.5	163.0	6.0	10.5	9.0	6.5
Merged-chr17-74868522-6	chr17	74868505	74868705	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-136924.0	NM_019919	268977.0	Mm.269747	NM_019919	ENSMUSG00000001870	Ltbp1	9430031G15Rik|9830146M04|Ltbp-1|Ltbp1L|TGF-beta1-BP-1|Tgfb|b2b1000Clo	latent transforming growth factor beta binding protein 1	protein-coding	4.0	5.0	17.0	55.0	16.5	8.5	8.5	11.5
Merged-chr13-40944260-4	chr13	40944172	40944372	+	989.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	RMER10A|LTR|ERVL	26638.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	12.5	48.5	39.0	603.5	40.0	13.0	14.0	22.0
Merged-chr3-104683174-3	chr3	104683089	104683289	+	776.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44525.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	9.5	8.5	0.5	120.5	6.5	5.0	6.0	7.5
Merged-chr10-69870528-2	chr10	69870428	69870628	+	877.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_170729, intron 9 of 40)	intron (NM_170729, intron 9 of 40)	-55004.0	NM_170687	11735.0	Mm.235960	NM_009670	ENSMUSG00000069601	Ank3	2900054D09Rik|AI314020|Ank-3|AnkG|Ankyrin-3|Ankyrin-G	ankyrin 3, epithelial	protein-coding	7.0	11.0	5.0	72.0	14.0	1.5	6.0	8.0
Merged-chr19-32278011-4	chr19	32277904	32278104	+	918.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168525, intron 2 of 9)	intron (NM_001168525, intron 2 of 9)	-66991.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	22.0	20.0	17.5	289.5	25.0	3.5	9.0	8.0
Merged-chr15-98108477-4	chr15	98108393	98108593	+	841.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163487)	promoter-TSS (NM_001163487)	22.0	NM_001163487	18642.0	Mm.272582	NM_021514	ENSMUSG00000033065	Pfkm	AI131669|ATP-PFK|PFK-A|PFK-M|Pfk-4|Pfk4|Pfka|Pfkx	phosphofructokinase, muscle	protein-coding	16.0	23.5	16.0	240.5	29.0	5.5	7.0	14.0
Merged-chr3-84685842-4	chr3	84685744	84685944	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 3 of 6)	intron (NM_177260, intron 3 of 6)	19652.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	38.5	45.5	30.0	565.5	62.5	19.0	17.0	24.5
Merged-chr6-83636105-3	chr6	83636005	83636205	+	954.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20011.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	14.0	6.0	16.0	458.0	24.5	4.0	21.5	11.5
Merged-chr8-110231983-4	chr8	110231859	110232059	+	841.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13999.0	NM_146215	234728.0	Mm.275341	NM_146215	ENSMUSG00000046441	Cmtr2	AU022703|C730036L12Rik|Ftsjd1|MTr2	cap methyltransferase 2	protein-coding	4.0	21.5	10.5	85.5	40.5	12.5	21.5	13.0
Merged-chr11-69881019-4	chr11	69880919	69881119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153143)	promoter-TSS (NM_153143)	-34.0	NM_153143	216858.0	Mm.239498	NM_153143	ENSMUSG00000046731	Kctd11	AF465352|Ren	potassium channel tetramerisation domain containing 11	protein-coding	54.5	65.5	54.0	980.5	118.0	39.0	57.5	57.5
Merged-chr17-6794604-4	chr17	6794511	6794711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11831.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	98.0	121.0	63.5	1297.0	232.5	74.5	107.0	85.0
Merged-chr9-59680162-4	chr9	59680086	59680286	+	852.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011099)	TTS (NM_011099)	23818.0	NM_011099	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	18.0	20.0	11.5	111.5	24.5	13.0	14.5	3.5
Merged-chr5-117483073-4	chr5	117482952	117483152	+	941.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	intron (NM_001312914, intron 1 of 19)	69050.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	20.5	24.0	43.0	448.5	21.0	5.0	10.0	17.0
Merged-chr12-70476958-4	chr12	70476890	70477090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	intron (NR_037248, intron 2 of 4)	23836.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	41.0	51.0	36.0	604.0	79.0	41.5	35.5	44.0
Merged-chr4-3875156-4	chr4	3875014	3875214	+	878.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3009.0	NM_020021	17451.0	Mm.459300	NM_020021	ENSMUSG00000078365	Mos	c-mos	Moloney sarcoma oncogene	protein-coding	8.0	8.5	19.0	117.5	25.5	5.0	9.0	15.0
Merged-chr1-177443236-5	chr1	177443162	177443362	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355101, exon 2 of 4)	5' UTR (NM_001355101, exon 2 of 4)	911.0	NM_001355100	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	11.5	11.0	10.5	117.0	18.5	9.5	11.5	8.5
Merged-chr11-116029495-4	chr11	116029394	116029594	+	955.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172569)	promoter-TSS (NM_172569)	-822.0	NM_001286006	217331.0	Mm.297706	NM_172569	ENSMUSG00000020770	Unk	B230379M23Rik|Unkh|Zc3h5|Zc3hdc5|mKIAA1753	unkempt family zinc finger	protein-coding	14.0	28.5	15.5	138.0	77.0	20.0	14.5	22.0
Merged-chr19-40630270-4	chr19	40630173	40630373	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	L1M4a1|LINE|L1	17907.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	14.0	21.5	15.0	430.5	54.0	28.0	32.0	36.0
Merged-chr5-140740003-4	chr5	140739914	140740114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	15887.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	82.0	78.5	58.0	1605.5	118.5	18.5	39.0	70.0
Merged-chr5-135957721-4	chr5	135957603	135957803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16773.0	NM_001160366	109267.0	Mm.332750	NM_001160366	ENSMUSG00000029699	Ssc4d	C330016E03Rik|S4D-SRCRB|SRCRB-S4D|Srcrb4d	scavenger receptor cysteine rich family, 4 domains	protein-coding	267.5	451.0	216.5	3453.5	524.0	182.5	249.5	206.5
Merged-chr13-104109643-4	chr13	104109551	104109751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029447)	promoter-TSS (NM_029447)	-37.0	NM_029447	75805.0	Mm.127692	NM_029447	ENSMUSG00000021710	Nln	4930472G13Rik|C79345	neurolysin (metallopeptidase M3 family)	protein-coding	250.5	385.5	279.0	4033.5	678.5	217.5	321.0	260.5
Merged-chr12-32890620-4	chr12	32890483	32890683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63206.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	62.0	93.0	85.0	1339.0	112.0	44.0	58.5	83.5
Merged-chr17-34958201-3	chr17	34958094	34958294	+	648.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010478, exon 1 of 1)	exon (NM_010478, exon 1 of 1)	1044.0	NM_010478	15511.0	Mm.372314	NM_010478	ENSMUSG00000090877	Hspa1b	Hsp70|Hsp70-1|Hsp70.1|hsp68	heat shock protein 1B	protein-coding	5.0	17.5	6.0	147.5	7.0	3.5	1.0	2.5
Merged-chr13-85376545-4	chr13	85376393	85376593	+	972.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87007.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	9.0	15.5	20.5	214.5	32.0	23.0	12.5	15.0
Merged-chr10-53616454-1	chr10	53616354	53616554	+	900.0	f0_balb.idr	intron (NM_027830, intron 5 of 13)	intron (NM_027830, intron 5 of 13)	13985.0	NM_027830	71567.0	Mm.278221	NM_027830	ENSMUSG00000058298	Mcm9	9030408O17Rik|Gm235|Mcmdc1	minichromosome maintenance 9 homologous recombination repair factor	protein-coding	17.5	16.0	11.0	168.5	43.5	14.5	16.0	12.0
Merged-chr3-136708461-4	chr3	136708369	136708569	+	930.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	38403.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	13.5	18.5	16.0	185.5	53.5	11.5	24.0	21.5
Merged-chr8-19563310-3	chr8	19563230	19563430	+	905.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68233.0	NM_139220	246080.0	Mm.207067	NM_139220	ENSMUSG00000037790	Defb7	BD-7|Defb15	defensin beta 7	protein-coding	7.5	10.5	13.5	186.5	9.0	4.0	6.0	2.0
Merged-chr7-97174365-4	chr7	97174262	97174462	+	826.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	L1MA4A|LINE|L1	92611.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	24.5	24.5	12.0	220.5	42.5	6.5	14.5	13.5
Merged-chr10-121961601-3	chr10	121961523	121961723	+	680.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	intron (NM_001081037, intron 1 of 21)	85692.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	10.5	6.5	13.5	118.0	2.5	2.0	0.0	1.5
Merged-chr13-37291519-4	chr13	37291412	37291612	+	857.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53833.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	5.0	24.0	9.0	206.5	31.0	13.0	8.0	9.0
Merged-chr10-126919255-4	chr10	126919156	126919356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17885.0	NM_001358970	68876.0	Mm.276769	NM_026858	ENSMUSG00000025436	Atp23	1110068E08Rik|2410012H02Rik|Xrcc6bp1	ATP23 metallopeptidase and ATP synthase assembly factor homolog	protein-coding	53.5	103.0	35.5	536.5	152.0	53.0	43.0	35.5
Merged-chr19-46609812-4	chr19	46609719	46609919	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177812, intron 2 of 4)	intron (NM_001177812, intron 2 of 4)	10713.0	NM_146099	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	24.0	31.0	15.5	437.0	43.5	20.5	23.5	27.0
Merged-chr6-67069406-4	chr6	67069304	67069504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 4 of 6)	Lx5|LINE|L1	-31997.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	68.0	86.0	69.0	887.5	166.5	51.0	66.0	50.0
Merged-chr6-39420172-7	chr6	39420023	39420223	+	980.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311109)	promoter-TSS (NM_001311109)	246.0	NM_018810	54484.0	Mm.270484	NM_018810	ENSMUSG00000029922	Mkrn1	RFP	makorin, ring finger protein, 1	protein-coding	21.0	26.5	18.5	156.0	63.0	23.5	16.0	15.0
Merged-chr4-101296977-4	chr4	101296892	101297092	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-31710.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	18.0	15.0	8.0	213.5	40.0	9.5	5.5	17.0
Merged-chr11-82889927-2	chr11	82889827	82890027	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001277941, intron 2 of 8)	intron (NM_001277941, intron 2 of 8)	697.0	NR_102719	19364.0	Mm.9286	NM_011235	ENSMUSG00000018841	Rad51d	R51H3|Rad51l3|TRAD|Trad-d5	RAD51 paralog D	protein-coding	5.0	20.5	7.5	63.5	15.5	2.0	5.5	8.0
Merged-chr7-116308392-4	chr7	116308340	116308540	+	874.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305185)	promoter-TSS (NM_001305185)	-64.0	NM_001305185	233765.0	Mm.3741	NM_172743	ENSMUSG00000045659	Plekha7	A430081P20Rik|AI414265	pleckstrin homology domain containing, family A member 7	protein-coding	11.5	11.5	10.5	182.5	18.0	9.0	9.5	11.0
Merged-chr11-47020177-3	chr11	47020075	47020275	+	920.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 6 of 7)	intron (NM_011891, intron 6 of 7)	209376.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	9.0	2.5	13.0	145.5	13.5	6.0	10.0	5.0
Merged-chr5-24039640-4	chr5	24039540	24039740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8950.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	115.5	120.0	55.5	1308.0	225.5	81.0	64.0	44.0
Merged-chr8-92854902-4	chr8	92854801	92855001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173014)	promoter-TSS (NM_173014)	-432.0	NM_173014	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	88.0	147.0	80.0	1115.0	191.5	61.0	84.0	77.5
Merged-chr9-40269242-6	chr9	40269122	40269322	+	772.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178227)	promoter-TSS (NM_178227)	6.0	NM_001359700	235281.0	Mm.290083	NM_153522	ENSMUSG00000049281	Scn3b	1110001K16Rik|4833414B02Rik|Scnb3	sodium channel, voltage-gated, type III, beta	protein-coding	7.0	17.5	4.0	86.5	19.5	19.0	18.5	8.5
Merged-chr6-54313603-1	chr6	54313503	54313703	+	745.5	f1_c57bl6.idr	intron (NR_033635, intron 4 of 13)	intron (NR_033635, intron 4 of 13)	-13409.0	NM_030024	78004.0	Mm.41984	NM_030024	ENSMUSG00000045725	Prr15	E130201N16Rik|G90	proline rich 15	protein-coding	2.5	0.0	5.5	46.0	6.0	6.5	5.5	5.5
Merged-chr11-98907641-4	chr11	98907518	98907718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011799)	promoter-TSS (NM_011799)	-271.0	NM_001025779	23834.0	Mm.20912	NM_011799	ENSMUSG00000017499	Cdc6	CDC18L	cell division cycle 6	protein-coding	209.5	324.0	174.0	2433.5	493.0	193.5	163.5	209.5
Merged-chr12-102442822-4	chr12	102442705	102442905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-2992.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	70.5	107.5	69.5	1827.5	146.0	38.5	82.0	45.5
Merged-chr7-137437576-4	chr7	137437463	137437663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023140)	promoter-TSS (NM_023140)	-10.0	NM_001348093	30926.0	Mm.267692	NM_023140	ENSMUSG00000031068	Glrx3	PICOT|Txnl2	glutaredoxin 3	protein-coding	164.0	250.0	142.0	2263.0	356.5	121.0	203.5	122.0
Merged-chr10-96374777-4	chr10	96374670	96374870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	148563.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	112.0	204.5	98.5	1263.5	287.0	87.5	108.5	87.5
Merged-chr4-148818658-2	chr4	148818558	148818758	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027195, intron 1 of 15)	intron (NM_027195, intron 1 of 15)	14266.0	NM_027195	69743.0	Mm.233879	NM_027195	ENSMUSG00000028977	Casz1	2410019P08Rik|AV096627|BC040081|Cst|D4Ertd432e	castor zinc finger 1	protein-coding	5.0	15.0	6.5	66.5	14.5	4.5	4.0	6.0
Merged-chr11-20169166-4	chr11	20169061	20169261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32251.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	49.0	72.0	36.5	773.5	107.5	33.0	41.0	43.0
Merged-chr4-42902332-4	chr4	42902238	42902438	+	896.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14268.0	NM_001355693	230085.0	Mm.240965	NM_172690	ENSMUSG00000036062	Phf24	GINIP|N28178	PHD finger protein 24	protein-coding	10.5	47.5	16.5	175.5	34.0	28.5	7.0	11.5
Merged-chr13-30628844-4	chr13	30628754	30628954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	13811.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	61.5	75.0	79.5	778.5	122.0	37.5	58.0	48.5
Merged-chr10-51530535-3	chr10	51530421	51530621	+	940.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS4-int|LTR|ERV1	39623.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	4.0	7.5	6.0	72.0	31.5	9.0	6.0	14.0
Merged-chr3-105775884-3	chr3	105775746	105775946	+	698.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145541, intron 1 of 7)	MTA_Mm|LTR|ERVL-MaLR	25535.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	7.0	30.5	12.5	0.0	24.5	6.5	7.0	16.0
Merged-chr10-79984398-4	chr10	79984350	79984550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003949)	promoter-TSS (NM_001003949)	-190.0	NM_001003949	216157.0	Mm.29442	NM_001003949	ENSMUSG00000013858	Tmem259	AC087114.7gm2|ORF61|R32184_3|mFLJ00277	transmembrane protein 259	protein-coding	16.0	43.5	23.5	446.5	53.0	25.5	25.0	31.5
Merged-chr8-80032746-2	chr8	80032646	80032846	+	757.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_020259, intron 4 of 12)	intron (NM_020259, intron 4 of 12)	25262.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	6.5	3.5	4.0	79.0	16.0	9.5	8.5	6.0
Merged-chr15-80572534-2	chr15	80572434	80572634	+	906.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289442)	promoter-TSS (NM_001289442)	-63.0	NM_001289442	17444.0	Mm.12947	NM_010815	ENSMUSG00000042351	Grap2	GRAP-2|GRB2L|GRBLG|GRID|Gads|GrbX|Grf40|GrpL|Mona|P38	GRB2-related adaptor protein 2	protein-coding	7.0	4.5	9.0	64.5	15.0	1.5	4.5	6.5
Merged-chr11-21091178-4	chr11	21091091	21091291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023324)	promoter-TSS (NM_023324)	-133.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	267.0	444.0	230.0	3360.0	618.0	331.5	306.5	232.0
Merged-chr18-83828550-4	chr18	83828420	83828620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	258042.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	26.5	77.5	63.0	607.0	127.0	41.0	51.0	38.0
Merged-chr2-26389299-4	chr2	26389192	26389392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173180)	promoter-TSS (NM_173180)	24.0	NM_001085407	68112.0	Mm.253771	NM_026563	ENSMUSG00000026927	Sdccag3	C330016H24Rik|C630038K21Rik	serologically defined colon cancer antigen 3	protein-coding	57.0	63.0	44.0	829.0	121.5	34.0	31.5	43.5
Merged-chr10-80071257-4	chr10	80071163	80071363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359635, intron 5 of 31)	(T)n|Simple_repeat|Simple_repeat	4176.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	163.5	210.5	138.0	2091.5	364.5	161.0	132.0	151.5
Merged-chr2-21186790-7	chr2	21186682	21186882	+	935.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027728, intron 4 of 4)	intron (NM_027728, intron 4 of 4)	18583.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	6.0	10.0	21.0	169.0	40.0	17.5	13.0	14.0
Merged-chr1-171564475-4	chr1	171564388	171564588	+	849.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018729, intron 1 of 8)	MTC-int|LTR|ERVL-MaLR	5295.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	20.5	47.5	16.0	218.5	32.0	13.5	17.5	12.0
Merged-chr13-52236333-4	chr13	52236235	52236435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139594.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	112.5	131.0	110.5	1584.5	224.5	69.0	114.5	100.5
Merged-chr14-60290541-4	chr14	60290451	60290651	+	882.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144843, intron 6 of 13)	intron (NM_144843, intron 6 of 13)	25346.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	10.5	21.0	6.5	185.5	21.5	9.5	13.0	9.5
Merged-chr2-35623199-3	chr2	35623103	35623303	+	964.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290641, intron 1 of 15)	intron (NM_001290641, intron 1 of 15)	1222.0	NM_001114124	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	13.0	20.5	8.5	184.0	18.5	5.0	5.5	6.5
Merged-chr5-122850054-4	chr5	122849954	122850154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030564)	promoter-TSS (NM_030564)	-134.0	NM_030564	80751.0	Mm.388529	NM_030564	ENSMUSG00000029474	Rnf34	AW061037|AW536122|BC004042|C88279|RIFF	ring finger protein 34	protein-coding	176.5	264.0	176.5	2225.5	450.0	180.5	191.0	145.5
Merged-chr19-56740332-4	chr19	56740226	56740426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17954.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	67.0	113.0	80.0	963.0	183.5	67.5	51.0	52.0
Merged-chr2-52676318-3	chr2	52676235	52676435	+	742.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285426)	promoter-TSS (NM_001285426)	-192.0	NM_001285426	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	8.5	11.5	13.0	78.0	11.5	8.0	8.0	17.5
Merged-chr14-105221249-2	chr14	105221149	105221349	+	984.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37424.0	NM_029561	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	1.5	7.0	6.5	65.5	8.0	4.5	4.5	10.5
Merged-chr2-127008702-4	chr2	127008589	127008789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175550)	promoter-TSS (NM_175550)	-22.0	NM_175550	108011.0	Mm.134045	NM_175550	ENSMUSG00000001998	Ap4e1	2310033A20Rik|9930028M04Rik|AV087807	adaptor-related protein complex AP-4, epsilon 1	protein-coding	36.0	67.5	52.0	607.5	84.0	43.5	44.5	65.0
Merged-chr7-97738155-4	chr7	97738082	97738282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175105)	promoter-TSS (NM_175105)	65.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	53.0	58.5	56.0	792.5	90.5	41.0	56.5	23.5
Merged-chr3-144198704-4	chr3	144198608	144198808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161769, intron 2 of 4)	CpG	3624.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	67.0	63.0	36.5	608.5	99.0	27.5	52.5	26.5
Merged-chr17-56884506-4	chr17	56884396	56884596	+	864.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030141, intron 10 of 13)	PB1D7|SINE|Alu	8863.0	NM_030141	78625.0	Mm.160106	NM_030141	ENSMUSG00000024209	1700061G19Rik	1700026H02|AI507598	RIKEN cDNA 1700061G19 gene	protein-coding	4.0	13.5	11.5	170.5	20.5	9.0	10.0	24.0
Merged-chr13-41468469-4	chr13	41468387	41468587	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	18873.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	32.5	40.5	38.5	571.5	36.5	20.0	18.0	37.0
Merged-chr10-110918946-8	chr10	110918838	110919038	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1238.0	NM_007792	13008.0	Mm.2020	NM_007792	ENSMUSG00000020186	Csrp2	AW551867|Crp2|SmLim	cysteine and glycine-rich protein 2	protein-coding	10.5	7.0	4.5	148.0	18.5	9.5	5.0	15.0
Merged-chr2-90496497-3	chr2	90496388	90496588	+	906.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-17314.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	9.0	20.0	5.5	124.5	20.5	7.5	13.0	4.5
Merged-chr7-118102444-2	chr7	118102345	118102545	+	932.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13702.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	2.5	4.5	0.5	50.0	11.0	6.5	8.5	7.0
Merged-chr5-143626389-3	chr5	143626284	143626484	+	856.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011182, intron 1 of 12)	LTR33A_|LTR|ERVL	3937.0	NM_011182	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	3.0	11.5	3.0	93.0	20.5	6.0	4.5	9.0
Merged-chr9-114794702-4	chr9	114794594	114794794	+	838.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 2 of 3)	intron (NM_027294, intron 2 of 3)	-12701.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	11.0	12.5	2.5	106.0	30.5	6.5	10.5	14.0
Merged-chr15-63996696-3	chr15	63996598	63996798	+	958.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	intron (NM_144846, intron 1 of 11)	1368.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	7.0	4.0	13.5	169.5	17.0	5.5	10.5	12.0
Merged-chr5-95914284-4	chr5	95914171	95914371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42668.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	98.0	137.5	87.0	1090.5	155.5	72.5	66.5	47.0
Merged-chr6-122854787-4	chr6	122854684	122854884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009779, intron 1 of 1)	intron (NM_009779, intron 1 of 1)	1373.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	51.5	89.5	60.5	751.5	168.0	64.5	57.5	58.0
Merged-chr8-14879327-4	chr8	14879235	14879435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR31C_MM|LTR|ERVK	-9201.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	31.5	54.0	38.0	501.0	74.0	23.0	35.5	42.0
Merged-chr14-32932650-3	chr14	32932551	32932751	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178791, intron 7 of 7)	intron (NM_178791, intron 7 of 7)	-58731.0	NM_001146021	67580.0	Mm.46115	NM_026253	ENSMUSG00000041673	Lrrc18	4930442L21Rik|MTLR1	leucine rich repeat containing 18	protein-coding	22.5	43.0	16.0	345.0	74.0	21.0	21.0	27.0
Merged-chr13-62129960-4	chr13	62129888	62130088	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039239)	promoter-TSS (NM_001039239)	98.0	NM_001039239	630579.0	Mm.440905	NM_001039239	ENSMUSG00000074867	Zfp808	EG630579|Gm7036	zinc finger protein 808	protein-coding	14.5	32.0	55.5	431.0	75.5	32.5	33.5	50.0
Merged-chr6-149193761-4	chr6	149193658	149193858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30B_MM|LTR|ERV1	-5046.0	NM_001113424	232566.0	Mm.209147	NM_001113424	ENSMUSG00000068250	Amn1	5830467E07Rik|A230083D09|C730024G19Rik	antagonist of mitotic exit network 1	protein-coding	209.5	297.5	180.0	2046.5	507.5	228.0	233.5	163.0
Merged-chr4-130811939-4	chr4	130811854	130812054	+	893.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	19417.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	11.5	15.0	12.5	261.0	28.0	5.0	15.5	12.5
Merged-chr2-173276601-4	chr2	173276531	173276731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022995)	promoter-TSS (NM_022995)	-98.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	92.0	134.5	97.0	1895.0	127.0	45.5	101.5	44.5
Merged-chr15-79741386-4	chr15	79741288	79741488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194342, intron 1 of 16)	intron (NM_194342, intron 1 of 16)	1148.0	NM_194342	223697.0	Mm.202715	NM_194342	ENSMUSG00000042524	Sun2	B230369L08Rik|C030011B15|Unc84b	Sad1 and UNC84 domain containing 2	protein-coding	32.0	45.5	22.0	274.5	78.0	26.5	36.0	34.0
Merged-chr6-15746093-3	chr6	15745994	15746194	+	842.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	25433.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	10.0	7.0	13.5	290.0	12.0	2.5	11.5	3.5
Merged-chr17-78362537-4	chr17	78362441	78362641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 13 of 16)	intron (NM_015800, intron 13 of 16)	55611.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	78.5	78.0	97.0	1496.0	165.5	56.5	72.0	58.5
Merged-chr8-11016360-4	chr8	11016254	11016454	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 1 of 4)	intron (NR_046017, intron 1 of 4)	-7924.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	21.5	24.0	44.0	584.5	54.0	13.0	17.5	64.5
Merged-chr15-98167778-4	chr15	98167694	98167894	+	780.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177716)	promoter-TSS (NM_177716)	-12.0	NM_177716	239650.0	Mm.54140	NM_177716	ENSMUSG00000029875	Ccdc184	5630400A08|AI836003	coiled-coil domain containing 184	protein-coding	9.0	25.5	4.0	78.0	46.0	7.5	12.5	16.0
Merged-chr12-112717303-2	chr12	112717203	112717403	+	603.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4871.0	NM_001024602	217882.0	Mm.23689	NM_001024602	ENSMUSG00000072825	Cep170b	AI466840|AW555464|Kiaa0284|mKIAA0284	centrosomal protein 170B	protein-coding	1.0	7.0	0.0	59.5	26.5	7.5	8.0	4.5
Merged-chr11-69418183-4	chr11	69418099	69418299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4524.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	77.0	217.0	83.0	1084.5	344.0	110.5	125.5	119.0
Merged-chr9-35175922-5	chr9	35175739	35175939	+	966.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027030, exon 1 of 6)	exon (NM_027030, exon 1 of 6)	148.0	NM_027030	69305.0	Mm.229110	NM_027030	ENSMUSG00000032040	Dcps	1700001E16Rik|AA408441	decapping enzyme, scavenger	protein-coding	35.0	58.5	35.5	309.0	78.0	23.5	20.5	23.0
Merged-chr1-150374827-1	chr1	150374727	150374927	+	753.0	f0_balb.idr	exon (NM_145511, exon 11 of 14)	exon (NM_145511, exon 11 of 14)	-18011.0	NM_133780	108989.0	Mm.174256	NM_133780	ENSMUSG00000006005	Tpr	2610029M07Rik|C77892	translocated promoter region, nuclear basket protein	protein-coding	9.5	6.0	10.0	192.5	0.0	0.0	0.0	1.0
Merged-chr15-77627008-2	chr15	77626908	77627108	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16278.0	NM_001143686	328563.0	Mm.17957	NM_001143686	ENSMUSG00000091694	Apol11b	A330102K04Rik	apolipoprotein L 11b	protein-coding	3.5	24.0	3.5	58.5	10.5	11.0	7.0	6.0
Merged-chr1-75234826-4	chr1	75234731	75234931	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1592.0	NM_001159884	56812.0	Mm.489660	NM_020266	ENSMUSG00000026203	Dnajb2	2700059H22Rik|Dnajb10|Hsj1|mDj8	DnaJ heat shock protein family (Hsp40) member B2	protein-coding	16.0	20.5	16.0	275.0	48.0	22.0	21.5	8.0
Merged-chr6-46142295-1	chr6	46142195	46142395	+	717.0	f0_balb.idr	intron (NM_001004357, intron 8 of 23)	ID_B1|SINE|B4	1082234.0	NM_001004357	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	11.0	11.0	11.0	187.0	7.5	9.0	8.5	6.0
Merged-chr17-28313461-4	chr17	28313389	28313589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163820)	promoter-TSS (NM_001163820)	-41.0	NR_028297	72775.0	Mm.201859	NM_028348	ENSMUSG00000007570	Fance	2810451D06Rik|AI415634|AW209126	Fanconi anemia, complementation group E	protein-coding	220.5	260.5	139.0	2368.0	422.0	149.0	192.0	174.5
Merged-chr13-10542912-1	chr13	10542812	10543012	+	612.0	f0_balb.idr	Intergenic	Intergenic	-182109.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	6.0	9.0	5.0	101.5	5.0	5.0	7.5	5.0
Merged-chr1-182283455-4	chr1	182283368	182283568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007853)	promoter-TSS (NM_007853)	-667.0	NM_007853	13244.0	Mm.29648	NM_007853	ENSMUSG00000038633	Degs1	AA536663|Degs|Des1|Mdes	delta(4)-desaturase, sphingolipid 1	protein-coding	58.5	84.5	66.5	924.5	179.0	69.5	63.0	78.0
Merged-chr14-54376108-4	chr14	54376000	54376200	+	964.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 6 of 11)	intron (NM_011405, intron 6 of 11)	15259.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	22.5	31.0	17.0	364.0	36.0	8.0	22.0	14.0
Merged-chr13-116964226-3	chr13	116964125	116964325	+	620.972229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	intron (NM_001081009, intron 3 of 26)	61291.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	3.0	0.0	0.0	49.5	34.5	10.0	9.5	8.0
Merged-chr16-32499869-4	chr16	32499704	32499904	+	724.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199309, intron 6 of 8)	intron (NM_199309, intron 6 of 8)	3523.0	NM_199309	245308.0	Mm.76859	NM_199309	ENSMUSG00000052363	Zdhhc19	Gm1744|Gm616	zinc finger, DHHC domain containing 19	protein-coding	6.5	12.5	8.5	72.5	27.0	9.5	3.5	8.0
Merged-chr11-96890110-4	chr11	96890018	96890218	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26396.0	NM_001308183	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	16.0	24.0	17.5	308.0	68.0	16.0	18.5	28.0
Merged-chr11-103354226-4	chr11	103354129	103354329	+	961.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205236, intron 3 of 17)	intron (NM_001205236, intron 3 of 17)	9463.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	13.0	12.5	19.5	246.5	27.0	2.5	19.5	23.0
Merged-chr15-51899388-3	chr15	51899331	51899531	+	895.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21990.0	NM_030132	78581.0	Mm.176347	NM_030132	ENSMUSG00000022313	Utp23	1700010I21Rik|AI662478|BB238373|D530033C11Rik	UTP23 small subunit processome component	protein-coding	8.0	8.5	5.5	63.5	8.0	2.0	3.0	5.0
Merged-chr9-61349934-4	chr9	61349826	61350026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	-22440.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	169.0	289.0	146.0	2099.0	293.5	145.0	171.5	137.5
Merged-chr11-53457212-3	chr11	53457127	53457327	+	824.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290789)	promoter-TSS (NM_001290789)	22.0	NM_027917	71774.0	Mm.274370	NM_027917	ENSMUSG00000018387	Shroom1	Apx|Shrm1	shroom family member 1	protein-coding	14.5	10.0	9.0	202.0	22.5	2.5	6.5	2.0
Merged-chr11-89031365-4	chr11	89031265	89031465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29383.0	NM_019505	56077.0	Mm.153695	NM_019505	ENSMUSG00000000276	Dgke	C87606|DAGK6|DGK	diacylglycerol kinase, epsilon	protein-coding	27.0	41.5	38.0	509.0	123.0	59.0	69.0	62.5
Merged-chr9-20544631-4	chr9	20544516	20544716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23197.0	NM_001082485	77519.0	Mm.431849	NM_001082485	ENSMUSG00000060510	Zfp266	5330440G10Rik|5730601F06Rik|AW552317	zinc finger protein 266	protein-coding	71.0	77.5	67.0	1124.0	179.5	69.5	94.0	68.5
Merged-chr10-122007899-4	chr10	122007789	122007989	+	938.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	intron (NM_001081037, intron 1 of 21)	39426.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	18.0	49.0	36.0	463.0	29.0	11.5	17.0	18.5
Merged-chr11-34783844-4	chr11	34783726	34783926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033374)	promoter-TSS (NM_033374)	79.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	57.5	48.5	46.5	729.0	81.0	25.5	35.5	34.0
Merged-chr13-34078050-4	chr13	34077958	34078158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009450)	promoter-TSS (NM_009450)	-50.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	140.5	251.5	168.5	2179.0	425.5	138.0	184.0	138.0
Merged-chr15-55113594-4	chr15	55113527	55113727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045093)	promoter-TSS (NR_045093)	-45.0	NR_045093	100503794.0	Mm.360519	NR_045093	ENSMUSG00000053749	Gm9920	-	predicted gene 9920	ncRNA	45.5	79.0	38.5	721.0	180.5	26.0	50.5	40.5
Merged-chr15-97942742-4	chr15	97942666	97942866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-21463.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	47.0	58.0	34.5	553.5	106.0	46.0	29.5	42.0
Merged-chr8-94485476-2	chr8	94485374	94485574	+	854.466675	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033207, intron 11 of 48)	B3A|SINE|B2	12711.0	NM_001033207	434341.0	Mm.334720	NM_001033207	ENSMUSG00000074151	Nlrc5	AI451557|AK220210|NOD27	NLR family, CARD domain containing 5	protein-coding	8.5	4.5	3.5	51.0	8.5	6.0	7.0	13.0
Merged-chr15-24589808-2	chr15	24589708	24589908	+	831.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	823956.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	4.5	0.0	4.0	27.0	6.0	7.5	6.5	4.5
Merged-chr15-73441182-3	chr15	73441055	73441255	+	636.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17964.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	10.0	1.0	5.5	90.0	11.0	4.5	10.0	7.0
Merged-chr13-20508291-2	chr13	20508186	20508386	+	704.583374	f0_balb.idr|f1_balb.idr	intron (NM_198093, intron 1 of 6)	intron (NM_198093, intron 1 of 6)	35296.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	11.5	6.0	15.5	173.0	2.5	0.0	0.5	1.0
Merged-chr2-173021899-4	chr2	173021802	173022002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019547)	promoter-TSS (NM_019547)	0.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	95.5	143.5	58.5	1232.0	256.5	90.5	97.5	77.0
Merged-chr8-77550347-4	chr8	77550246	77550446	+	990.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081240, intron 1 of 11)	MER20|DNA|hAT-Charlie	949.0	NM_001081240	102182.0	Mm.197630	NM_178903	ENSMUSG00000037134	Prmt9	AI931714|Prmt10	protein arginine methyltransferase 9	protein-coding	30.5	21.5	19.0	371.0	66.5	22.0	27.5	13.5
Merged-chr1-55838310-4	chr1	55838194	55838394	+	958.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92947.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	20.0	33.5	19.5	274.0	35.5	9.0	14.5	17.0
Merged-chr9-49109287-3	chr9	49109178	49109378	+	931.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359460, intron 5 of 12)	intron (NM_001359460, intron 5 of 12)	6499.0	NM_030709	80893.0	Mm.72799	NM_030709	ENSMUSG00000032268	Tmprss5	spinesin	transmembrane protease, serine 5 (spinesin)	protein-coding	4.5	14.0	10.5	186.0	5.0	2.0	8.5	4.0
Merged-chr13-56626706-4	chr13	56626600	56626800	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 6 of 16)	L3b|LINE|CR1	17114.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	21.5	21.0	26.5	420.5	23.0	8.0	13.0	11.0
Merged-chr7-116476521-4	chr7	116476413	116476613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27856.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	58.0	86.0	65.0	745.0	206.5	62.0	82.0	53.5
Merged-chr1-136136250-1	chr1	136136150	136136350	+	546.5	f0_c57.idr	intron (NM_001039472, intron 1 of 34)	URR1B|DNA|hAT-Charlie	4860.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	5.0	5.0	5.0	132.5	29.5	8.5	8.5	8.5
Merged-chr8-79160070-4	chr8	79159970	79160170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	RCHARR1|DNA|hAT-Charlie	88513.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	23.5	43.5	25.5	558.5	66.5	23.5	28.0	27.5
Merged-chr10-42860276-4	chr10	42860155	42860355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172938)	promoter-TSS (NM_172938)	-257.0	NM_172938	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	78.0	112.5	76.5	933.5	155.5	49.5	41.0	43.0
Merged-chr10-93311016-3	chr10	93310913	93311113	+	999.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013508, exon 1 of 5)	5' UTR (NM_013508, exon 1 of 5)	146.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	32.0	47.5	19.5	243.5	51.0	5.0	10.0	8.0
Merged-chr8-70720107-4	chr8	70720017	70720217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195253, intron 1 of 3)	intron (NM_001195253, intron 1 of 3)	1574.0	NM_001195253	100502950.0	Mm.52981	NM_001195253	ENSMUSG00000095026	Gm3336	100041434|2410018E23Rik	predicted gene 3336	protein-coding	182.5	287.0	186.0	2620.0	311.5	106.0	98.5	95.0
Merged-chr2-10005398-4	chr2	10005286	10005486	+	918.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027748, intron 2 of 6)	intron (NM_027748, intron 2 of 6)	43223.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	14.5	19.5	11.5	341.5	47.0	12.0	18.0	20.5
Merged-chr15-37135799-3	chr15	37135703	37135903	+	875.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-97233.0	NM_026496	252973.0	Mm.244612	NM_026496	ENSMUSG00000022286	Grhl2	0610015A08Rik|BOM|Tcfcp2l3|clft3	grainyhead like transcription factor 2	protein-coding	8.5	11.0	11.0	114.0	5.5	7.0	3.0	4.5
Merged-chr2-5942681-5	chr2	5942550	5942750	+	748.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081131, exon 1 of 17)	exon (NM_001081131, exon 1 of 17)	142.0	NM_001081131	209692.0	Mm.222517	NM_001081131	ENSMUSG00000025815	Dhtkd1	C330018I04Rik	dehydrogenase E1 and transketolase domain containing 1	protein-coding	2.5	6.5	10.0	107.0	15.0	7.0	7.0	5.5
Merged-chr3-115693682-4	chr3	115693580	115693780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	21375.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	31.5	53.5	46.5	605.5	60.5	26.0	37.5	21.0
Merged-chr2-13576042-4	chr2	13575952	13576152	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011701, intron 2 of 8)	intron (NM_011701, intron 2 of 8)	1741.0	NM_011701	22352.0	Mm.268000	NM_011701	ENSMUSG00000026728	Vim	-	vimentin	protein-coding	22.5	20.5	28.0	289.5	60.5	18.0	19.0	23.0
Merged-chr5-130001542-4	chr5	130001457	130001657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357027, intron 1 of 2)	intron (NM_001357027, intron 1 of 2)	1492.0	NM_010368	110006.0	Mm.3317	NM_010368	ENSMUSG00000025534	Gusb	AI747421|Gur|Gus|Gus-r|Gus-s|Gus-t|Gus-u|Gut|asd|g	glucuronidase, beta	protein-coding	35.5	40.0	34.5	632.5	76.0	25.5	39.0	34.5
Merged-chr11-94160613-4	chr11	94160535	94160735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50819.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	62.5	95.0	38.5	625.5	89.0	41.5	29.0	33.0
Merged-chr9-111070804-4	chr9	111070706	111070906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13288.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	28.0	34.0	44.0	293.5	40.0	21.0	21.0	25.5
Merged-chr10-75516602-4	chr10	75516469	75516669	+	807.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347201, intron 1 of 5)	intron (NM_001347201, intron 1 of 5)	812.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	3.0	10.0	21.0	72.5	14.0	10.5	6.5	15.0
Merged-chr4-89270680-3	chr4	89270591	89270791	+	766.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	11501.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	12.0	18.0	9.0	52.0	18.5	1.0	10.5	7.0
Merged-chr13-101678596-5	chr13	101678416	101678616	+	808.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14114.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	4.0	3.0	7.0	23.5	14.5	4.5	5.0	6.5
Merged-chr14-47351067-4	chr14	47350944	47351144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22816.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	129.5	241.0	196.5	3318.5	326.5	83.0	127.0	169.0
Merged-chr10-22345941-3	chr10	22345839	22346039	+	910.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-15955.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	4.5	6.0	17.0	110.0	8.0	2.5	1.5	4.0
Merged-chr11-69419569-2	chr11	69419469	69419669	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5894.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	10.5	10.0	10.5	70.0	40.5	10.0	20.0	11.0
Merged-chr2-143862786-4	chr2	143862707	143862907	+	829.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009751, exon 1 of 8)	exon (NM_009751, exon 1 of 8)	366.0	NM_009751	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	10.0	15.5	10.5	242.0	37.5	12.5	11.0	7.5
Merged-chr3-61404328-4	chr3	61404218	61404418	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	39811.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	23.0	23.5	30.5	200.0	52.0	17.5	13.5	11.0
Merged-chr19-4283266-4	chr19	4283167	4283367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026720)	promoter-TSS (NM_026720)	-130.0	NM_026720	68423.0	Mm.23642	NM_026720	ENSMUSG00000005986	Ankrd13d	0710001P18Rik|AI430801	ankyrin repeat domain 13 family, member D	protein-coding	188.0	234.5	109.5	1533.0	372.0	169.5	156.5	107.5
Merged-chr1-40330664-3	chr1	40330566	40330766	+	654.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356478, intron 4 of 10)	intron (NM_001356478, intron 4 of 10)	6077.0	NM_133193	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	8.0	8.0	5.5	126.5	46.5	3.0	8.0	4.0
Merged-chr2-143837425-4	chr2	143837351	143837551	+	931.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291061, intron 5 of 7)	intron (NM_001291061, intron 5 of 7)	25722.0	NM_009751	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	14.0	24.0	15.0	188.5	37.5	8.5	13.0	4.0
Merged-chr13-41019161-4	chr13	41019062	41019262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360770, intron 3 of 4)	intron (NM_001360770, intron 3 of 4)	2912.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	71.5	82.0	70.0	1149.5	142.0	48.0	83.5	71.0
Merged-chr16-59471862-4	chr16	59471767	59471967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025910)	promoter-TSS (NM_025910)	92.0	NM_025910	67014.0	Mm.289150	NM_025910	ENSMUSG00000022724	Riox2	1810047J07Rik|2410057H13Rik|3830408E23Rik|AI449204|Mina	ribosomal oxygenase 2	protein-coding	82.0	191.0	206.0	1423.5	203.5	94.0	100.0	100.5
Merged-chr17-79095832-4	chr17	79095756	79095956	+	882.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16D|LTR|ERVL	43950.0	NM_001316729	70536.0	Mm.293870	NM_027455	ENSMUSG00000024084	Qpct	5730422A13Rik	glutaminyl-peptide cyclotransferase (glutaminyl cyclase)	protein-coding	16.5	16.0	11.0	230.5	26.5	4.0	10.0	14.0
Merged-chr9-103230449-4	chr9	103230330	103230530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133977)	promoter-TSS (NM_133977)	-144.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	114.0	104.0	134.0	1964.5	188.5	74.0	92.5	86.0
Merged-chr16-76399873-4	chr16	76399752	76399952	+	963.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26025.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	8.5	40.0	15.0	223.5	77.0	18.0	29.0	17.5
Merged-chr5-63830875-4	chr5	63830791	63830991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	18396.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	12.0	7.5	10.0	231.0	17.5	8.0	17.5	24.5
Merged-chr18-84091728-4	chr18	84091625	84091825	+	934.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146090, intron 1 of 1)	intron (NM_146090, intron 1 of 1)	3567.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	14.5	15.5	8.0	246.5	46.5	11.5	20.5	14.5
Merged-chr5-140608921-4	chr5	140608821	140609021	+	928.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008494, intron 1 of 7)	intron (NM_008494, intron 1 of 7)	1580.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	10.5	23.5	29.5	301.0	29.0	10.5	5.0	12.0
Merged-chr13-94158992-5	chr13	94158935	94159135	+	850.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	101239.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	7.0	19.5	16.0	47.0	15.5	9.5	6.5	5.0
Merged-chr4-147927868-4	chr4	147927777	147927977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011122, intron 6 of 18)	intron (NM_011122, intron 6 of 18)	8899.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	59.5	59.0	43.5	818.0	126.0	57.5	82.0	56.0
Merged-chr4-58546273-4	chr4	58546193	58546393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010336, intron 1 of 3)	intron (NM_010336, intron 1 of 3)	7000.0	NM_172989	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	21.5	29.0	32.5	739.0	85.5	17.5	41.5	52.5
Merged-chr8-108731020-4	chr8	108730926	108731126	+	839.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	16382.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	9.0	13.0	7.5	188.0	21.5	11.5	4.0	12.5
Merged-chr6-72113507-4	chr6	72113413	72113613	+	997.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	MTC|LTR|ERVL-MaLR	9427.0	NR_045163	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	25.5	62.5	15.5	250.5	74.0	50.0	25.0	19.0
Merged-chr5-99459365-4	chr5	99459257	99459457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-206430.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	46.5	74.0	44.0	665.0	63.5	39.0	24.0	35.0
Merged-chr15-58791510-6	chr15	58791429	58791629	+	842.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 3 of 6)	intron (NM_175212, intron 3 of 6)	31898.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	14.5	6.0	4.0	85.0	11.5	7.5	6.0	11.5
Merged-chr7-101571121-4	chr7	101571044	101571244	+	872.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11D|LTR|ERVK	10017.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	10.5	27.5	13.5	158.0	28.0	12.0	8.5	15.5
Merged-chr2-178013495-4	chr2	178013404	178013604	+	700.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-9780.0	NM_001177400	626848.0	Mm.422604	NM_001177399	ENSMUSG00000074519	Zfp971	Etohi1	zinc finger protein 971	protein-coding	5.0	19.0	14.0	92.0	41.0	12.0	12.0	11.5
Merged-chr19-4046018-3	chr19	4045912	4046112	+	586.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3791.0	NM_181796	14869.0	Mm.441542	NM_181796	ENSMUSG00000038155	Gstp2	GSTpiA|Gst-3|Gst3	glutathione S-transferase, pi 2	protein-coding	4.0	10.0	1.5	14.5	21.0	7.0	5.5	15.5
Merged-chr1-136629574-4	chr1	136629470	136629670	+	871.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177643, exon 2 of 2)	3' UTR (NM_177643, exon 2 of 2)	4669.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	14.5	7.0	8.0	129.5	26.5	11.0	15.5	14.0
Merged-chr17-47505056-4	chr17	47504880	47505080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081636)	promoter-TSS (NM_001081636)	-71.0	NM_001081636	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	27.5	43.0	29.5	487.0	48.0	22.0	18.5	25.5
Merged-chr5-125391778-4	chr5	125391665	125391865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1748.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	88.5	121.5	69.0	1151.5	161.0	73.0	69.0	70.0
Merged-chr16-33915233-4	chr16	33915150	33915350	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 9 of 14)	intron (NM_001145884, intron 9 of 14)	51788.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	31.0	22.5	34.0	645.5	32.0	16.0	18.0	23.5
Merged-chr17-50576217-4	chr17	50576113	50576313	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	66666.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	20.5	48.0	22.5	640.5	25.5	19.0	17.5	20.0
Merged-chr10-51518088-4	chr10	51517993	51518193	+	898.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	27195.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	16.5	7.5	20.5	249.5	34.5	9.5	10.0	6.5
Merged-chr16-75983004-3	chr16	75982904	75983104	+	712.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-17780.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	9.0	5.0	13.5	88.0	27.0	4.0	5.0	5.5
Merged-chr11-98682409-4	chr11	98682294	98682494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009439)	promoter-TSS (NM_009439)	-160.0	NM_009439	22123.0	Mm.12194	NM_009439	ENSMUSG00000017221	Psmd3	AI255837|AntP91a|D11Bwg1349e|Psd3|Tstap91a	proteasome (prosome, macropain) 26S subunit, non-ATPase, 3	protein-coding	126.0	231.5	109.0	1106.0	346.0	159.5	147.0	119.5
Merged-chr2-6791737-1	chr2	6791637	6791837	+	568.0	f0_balb.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-70075.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	9.0	6.5	11.0	108.0	7.0	2.5	3.5	4.5
Merged-chr14-77511628-3	chr14	77511522	77511722	+	937.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253759, intron 7 of 19)	Lx5c|LINE|L1	-4754.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	0.0	1.0	0.0	0.0	45.5	14.5	31.5	19.0
Merged-chr17-24687473-4	chr17	24687374	24687574	+	864.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011522, intron 2 of 3)	CpG	2475.0	NM_011522	20974.0	Mm.26032	NM_011522	ENSMUSG00000007021	Syngr3	-	synaptogyrin 3	protein-coding	12.0	21.0	12.0	243.0	26.0	13.5	15.0	10.5
Merged-chr6-33859791-4	chr6	33859679	33859879	+	930.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 13 of 17)	MLT1J|LTR|ERVL-MaLR	-169669.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	10.0	12.0	15.5	188.5	30.5	16.0	16.5	19.0
Merged-chr5-134492016-3	chr5	134491871	134492071	+	839.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 14 of 15)	intron (NM_001039162, intron 14 of 15)	-35255.0	NM_001081464	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	7.0	9.0	7.0	80.5	22.0	4.5	9.0	10.0
Merged-chr19-6085729-4	chr19	6085624	6085824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024231)	promoter-TSS (NM_024231)	627.0	NM_026410	67849.0	Mm.23526	NM_026410	ENSMUSG00000024791	Cdca5	2610036L13Rik|AL024086|AW536684|C85404	cell division cycle associated 5	protein-coding	72.5	71.5	37.5	517.5	154.0	57.0	87.5	46.5
Merged-chr9-124143031-4	chr9	124142968	124143168	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21525.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	5.5	5.5	3.5	126.5	24.0	9.5	4.5	16.0
Merged-chr19-41335023-2	chr19	41334923	41335123	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	B2_Mm1t|SINE|B2	50047.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	4.0	4.0	5.5	35.0	32.0	5.5	6.5	6.5
Merged-chr6-115284316-4	chr6	115284212	115284412	+	895.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32107.0	NM_001356406	110595.0	Mm.255607	NM_080639	ENSMUSG00000030317	Timp4	Timp-4	tissue inhibitor of metalloproteinase 4	protein-coding	24.0	32.0	36.5	343.0	26.5	17.0	13.5	17.0
Merged-chr15-100754264-3	chr15	100754172	100754372	+	891.5888669999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7475.0	NM_021530	59033.0	Mm.209856	NM_021530	ENSMUSG00000023032	Slc4a8	AW493845|C230026C11|NDCBE|kNBC-3	solute carrier family 4 (anion exchanger), member 8	protein-coding	5.0	8.0	3.0	58.0	43.0	24.5	13.0	14.0
Merged-chr7-19699133-4	chr7	19698995	19699195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009696)	promoter-TSS (NM_009696)	93.0	NM_001305843	11816.0	Mm.305152	NM_009696	ENSMUSG00000002985	Apoe	AI255918|Apo-E	apolipoprotein E	protein-coding	67.5	48.5	59.5	604.0	56.0	31.5	39.5	38.0
Merged-chr11-3170984-1	chr11	3170884	3171084	+	1000.0	f0_balb.idr	intron (NM_030207, intron 6 of 32)	RSINE1|SINE|B4	22479.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	27.0	31.0	48.5	359.5	1.0	0.0	0.0	2.0
Merged-chr3-58417035-3	chr3	58416958	58417158	+	986.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081229, exon 1 of 4)	exon (NM_001081229, exon 1 of 4)	2338.0	NM_001347233	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	14.0	19.5	18.5	265.5	31.5	16.5	9.5	16.5
Merged-chr12-8682204-4	chr12	8682103	8682303	+	854.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030723, intron 1 of 20)	MTC|LTR|ERVL-MaLR	7522.0	NM_030723	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	8.5	17.5	11.0	85.0	27.5	24.0	16.5	8.5
Merged-chr1-75142692-4	chr1	75142528	75142728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305232)	promoter-TSS (NM_001305232)	83.0	NM_026977	69171.0	Mm.28193	NM_026977	ENSMUSG00000033159	Cnppd1	1810031K17Rik|AU043960	cyclin Pas1/PHO80 domain containing 1	protein-coding	91.0	113.5	171.5	1255.0	210.0	94.5	105.5	117.5
Merged-chr2-157011169-3	chr2	157011047	157011247	+	937.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164663, exon 15 of 15)	3' UTR (NM_001164663, exon 15 of 15)	-4072.0	NM_025853	66934.0	Mm.25410	NM_025853	ENSMUSG00000027635	Dsn1	1700022L09Rik|AW552447	DSN1 homolog, MIS12 kinetochore complex component	protein-coding	11.5	18.0	8.5	140.5	44.0	7.0	4.5	11.5
Merged-chr1-134414705-4	chr1	134414589	134414789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306069)	promoter-TSS (NM_001306069)	-689.0	NM_028320	72674.0	Mm.259976	NM_028320	ENSMUSG00000026457	Adipor1	2810031L11Rik|ACDCR1|CGI-45|Paqr1	adiponectin receptor 1	protein-coding	33.5	35.5	24.5	686.0	90.5	17.5	18.0	34.5
Merged-chr5-88981816-4	chr5	88981718	88981918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359211, intron 3 of 26)	intron (NM_001359211, intron 3 of 26)	-46148.0	NM_001359212	54403.0	Mm.41044	NM_018760	ENSMUSG00000060961	Slc4a4	AI835705|NBC|NBC1	solute carrier family 4 (anion exchanger), member 4	protein-coding	76.0	175.5	179.0	2173.5	181.5	77.0	119.5	112.0
Merged-chr7-127849290-4	chr7	127849205	127849405	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009294)	TTS (NM_009294)	7497.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	7.0	32.5	19.5	219.0	23.0	8.5	9.5	16.0
Merged-chr7-16614232-4	chr7	16614149	16614349	+	778.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136929, intron 1 of 2)	GC_rich|Low_complexity|Low_complexity	209.0	NR_136929	102634559.0	Mm.421602	NR_136928	ENSMUSG00000100583	Gm29443	-	predicted gene 29443	ncRNA	9.0	18.0	9.0	122.5	34.5	16.5	16.0	10.5
Merged-chr3-137941872-3	chr3	137941771	137941971	+	878.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	23316.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	5.5	11.0	5.5	78.5	18.0	9.0	2.0	1.5
Merged-chr11-106723043-2	chr11	106722932	106723132	+	582.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-7751.0	NM_001305157	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	8.5	8.0	1.0	85.0	13.5	8.0	6.0	15.5
Merged-chr10-78136153-4	chr10	78136075	78136275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33593.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	70.0	143.5	90.5	370.0	296.5	111.5	137.0	51.5
Merged-chr2-129340420-1	chr2	129340320	129340520	+	736.0	f0_balb.idr	Intergenic	Intergenic	-29482.0	NR_015474	329514.0	Mm.207315	NM_177848	ENSMUSG00000074805	Il1bos	9430083I22|Gm14047	interleukin 1 beta, opposite strand	ncRNA	6.0	18.0	13.0	28.0	24.5	6.0	2.0	7.0
Merged-chr15-96285140-2	chr15	96285040	96285240	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2382.0	NM_175251	77044.0	Mm.17166	NM_175251	ENSMUSG00000033237	Arid2	1700124K17Rik|4432409D24Rik|BAF200|zipzap/p200	AT rich interactive domain 2 (ARID, RFX-like)	protein-coding	25.0	28.5	48.0	324.0	69.5	33.0	31.0	47.5
Merged-chr5-76179402-4	chr5	76179311	76179511	+	834.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4469.0	NM_011626	21982.0	Mm.790	NM_011626	ENSMUSG00000029234	Tmem165	AV026557|Tpardl|Tparl|pFT27	transmembrane protein 165	protein-coding	18.0	28.0	11.0	192.0	37.5	16.0	12.0	10.5
Merged-chr17-55958431-4	chr17	55958295	55958495	+	782.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028381)	promoter-TSS (NM_028381)	-792.0	NM_028381	72886.0	Mm.22796	NM_028381	ENSMUSG00000003208	Ccdc94	2900016D05Rik|AI413813	coiled-coil domain containing 94	protein-coding	7.0	10.0	11.5	16.0	18.5	9.5	4.0	5.5
Merged-chr10-21295938-4	chr10	21295847	21296047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145209)	promoter-TSS (NM_001145209)	-32.0	NM_001042593	56422.0	Mm.25527	NM_019702	ENSMUSG00000019977	Hbs1l	2810035F15Rik|AI326327|eRFS	Hbs1-like (S. cerevisiae)	protein-coding	87.5	162.0	78.0	897.0	203.5	76.0	81.0	99.0
Merged-chr1-95449411-3	chr1	95449301	95449501	+	884.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135773.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	18.0	20.0	17.5	242.0	12.5	6.5	14.5	7.5
Merged-chr16-23988766-4	chr16	23988665	23988865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009744)	promoter-TSS (NM_009744)	87.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	69.0	152.5	98.0	712.0	175.0	66.0	48.0	76.5
Merged-chr7-24601131-4	chr7	24601044	24601244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023154, intron 4 of 7)	intron (NM_023154, intron 4 of 7)	-10184.0	NM_001102613	232970.0	Mm.333663	NM_001102613	ENSMUSG00000074277	Phldb3	EG232970|Gm10102	pleckstrin homology like domain, family B, member 3	protein-coding	42.5	47.0	24.0	460.5	66.0	20.5	38.0	26.0
Merged-chr10-22376625-4	chr10	22376549	22376749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14755.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	83.0	99.5	108.0	1238.5	109.5	44.0	73.5	50.5
Merged-chr5-21395368-3	chr5	21395265	21395465	+	888.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	22692.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	9.0	8.0	8.5	163.5	11.0	7.0	6.5	10.0
Merged-chr4-46077045-4	chr4	46076947	46077147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021883, intron 2 of 9)	intron (NM_021883, intron 2 of 9)	37825.0	NM_021883	21916.0	Mm.249594	NM_021883	ENSMUSG00000028328	Tmod1	E-Tmod|Tmod	tropomodulin 1	protein-coding	53.5	81.0	94.0	1413.5	51.5	22.0	41.0	31.0
Merged-chr5-105699322-4	chr5	105699219	105699419	+	847.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122768)	promoter-TSS (NM_001122768)	-650.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	13.5	9.5	6.0	163.0	35.5	13.5	12.0	7.5
Merged-chr12-76948903-4	chr12	76948835	76949035	+	960.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361663, intron 3 of 4)	intron (NM_001361663, intron 3 of 4)	13313.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	16.0	20.5	25.5	315.0	55.5	10.0	11.0	24.0
Merged-chr8-56370816-3	chr8	56370712	56370912	+	884.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76260.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	5.0	8.5	8.0	225.0	5.0	3.0	11.0	7.5
Merged-chr6-145306881-4	chr6	145306784	145306984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56332.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	160.5	188.0	155.0	2503.0	538.5	188.5	304.0	221.0
Merged-chr10-116473381-2	chr10	116473281	116473481	+	746.799988	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_130644, exon 1 of 3)	non-coding (NR_130644, exon 1 of 3)	142.0	NM_021452	58802.0	Mm.440652	NM_021452	ENSMUSG00000054934	Kcnmb4	1700058G18Rik|2900045G12Rik	potassium large conductance calcium-activated channel, subfamily M, beta member 4	protein-coding	5.5	6.0	4.5	45.5	13.0	3.5	3.0	8.5
Merged-chr9-71162708-4	chr9	71162618	71162818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271843)	promoter-TSS (NM_001271843)	-85.0	NM_001271843	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	54.5	46.0	37.0	773.0	134.5	53.0	55.5	54.0
Merged-chr14-121366391-4	chr14	121366269	121366469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 1 of 10)	intron (NM_145465, intron 1 of 10)	12861.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	36.0	31.0	32.5	534.5	58.0	9.0	27.0	19.0
Merged-chr7-81209209-3	chr7	81209151	81209351	+	810.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4553.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	2.0	8.0	1.5	65.5	11.5	5.0	6.0	9.0
Merged-chr8-119844827-4	chr8	119844736	119844936	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4257.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	52.0	42.5	40.5	1201.5	83.5	20.5	48.0	66.0
Merged-chr6-136654615-4	chr6	136654519	136654719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	7274.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	76.5	70.5	79.5	1220.0	205.0	69.0	87.5	123.5
Merged-chr6-29767920-2	chr6	29767827	29768027	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021414)	promoter-TSS (NM_021414)	-516.0	NM_021414	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	38.5	48.0	7.0	265.5	112.0	31.5	37.0	41.5
Merged-chr5-88572087-3	chr5	88572015	88572215	+	737.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289774, intron 1 of 17)	intron (NM_001289774, intron 1 of 17)	7075.0	NM_001289775	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	6.0	8.5	4.5	103.5	15.0	5.0	7.5	9.0
Merged-chr10-53505712-4	chr10	53505607	53505807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037973, intron 3 of 3)	intron (NR_037973, intron 3 of 3)	13282.0	NR_037973	100502868.0	Mm.297722	NR_037973	ENSMUSG00000112739	Gm20597	B230314j19	predicted gene, 20597	ncRNA	67.5	91.5	73.5	1749.0	209.0	52.0	79.0	70.0
Merged-chr8-105332770-4	chr8	105332690	105332890	+	990.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 13 of 21)	intron (NM_177699, intron 13 of 21)	6426.0	NM_025486	66320.0	Mm.29990	NM_025486	ENSMUSG00000014856	Tmem208	1700006C06Rik|2610030K20Rik|Hspc171	transmembrane protein 208	protein-coding	6.5	19.5	25.0	372.5	49.5	4.0	16.0	9.5
Merged-chr6-136831880-4	chr6	136831780	136831980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001039558, exon 2 of 2)	5' UTR (NM_001039558, exon 2 of 2)	3037.0	NM_178776	320135.0	Mm.386899	NM_178776	ENSMUSG00000047515	BC049715	-	cDNA sequence BC049715	protein-coding	32.5	47.0	24.5	713.0	130.0	50.5	63.0	47.5
Merged-chr11-100770989-3	chr11	100770896	100771096	+	810.616638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031871)	promoter-TSS (NM_031871)	-39.0	NM_031871	80860.0	Mm.37308	NM_031871	ENSMUSG00000017747	Ghdc	D11Lgp1e	GH3 domain containing	protein-coding	6.5	17.5	10.5	115.0	13.0	6.5	6.0	5.5
Merged-chr6-70856150-4	chr6	70856051	70856251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313918, intron 1 of 2)	Lx9|LINE|L1	11636.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	34.0	19.0	24.5	221.5	83.5	23.0	23.5	27.0
Merged-chr11-83440467-4	chr11	83440365	83440565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172797)	TTS (NM_172797)	2771.0	NM_025492	66330.0	Mm.44800	NM_025492	ENSMUSG00000035085	1700020L24Rik	-	RIKEN cDNA 1700020L24 gene	protein-coding	35.5	60.5	22.5	444.0	71.0	44.0	37.5	49.5
Merged-chr17-56010926-4	chr17	56010808	56011008	+	954.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026530, intron 3 of 12)	intron (NM_026530, intron 3 of 12)	1707.0	NM_026530	68047.0	Mm.358710	NM_026530	ENSMUSG00000003199	Mpnd	E130307M08Rik	MPN domain containing	protein-coding	11.5	20.5	7.5	134.0	51.0	19.0	9.0	18.0
Merged-chr4-145254577-4	chr4	145254470	145254670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-7700.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	111.5	194.5	109.0	1240.0	273.5	109.0	76.5	112.0
Merged-chr17-8225960-4	chr17	8225912	8226112	+	876.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10031.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	10.0	19.5	15.5	321.5	15.5	8.0	10.0	3.0
Merged-chr14-45666313-1	chr14	45666213	45666413	+	641.5	f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8170.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	5.0	7.5	5.5	17.5	13.5	5.5	0.5	6.5
Merged-chr19-32954448-4	chr19	32954342	32954542	+	955.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	196865.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	11.0	18.5	10.0	140.0	36.5	12.0	19.5	18.0
Merged-chr7-16207700-4	chr7	16207614	16207814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027883, intron 7 of 16)	intron (NM_027883, intron 7 of 16)	14279.0	NM_001285931	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	39.5	58.5	39.0	552.0	471.0	144.5	196.0	149.0
Merged-chr2-6582939-4	chr2	6582843	6583043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 11 of 15)	ORR1E|LTR|ERVL-MaLR	138719.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	22.0	51.5	21.0	682.0	52.5	20.0	27.5	24.5
Merged-chr3-65863502-4	chr3	65863423	65863623	+	943.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94726.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	12.0	27.0	5.0	312.0	53.5	15.0	22.5	19.0
Merged-chr1-182281458-3	chr1	182281441	182281641	+	929.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007853, intron 1 of 2)	intron (NM_007853, intron 1 of 2)	654.0	NM_001360783	13244.0	Mm.29648	NM_007853	ENSMUSG00000038633	Degs1	AA536663|Degs|Des1|Mdes	delta(4)-desaturase, sphingolipid 1	protein-coding	10.5	19.5	11.0	89.0	17.5	8.5	4.0	2.0
Merged-chr2-66192568-3	chr2	66192430	66192630	+	836.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001047604, intron 25 of 28)	intron (NM_001047604, intron 25 of 28)	64087.0	NM_001047604	73668.0	Mm.250868	NM_001047604	ENSMUSG00000034848	Ttc21b	2410066K11Rik|Thm1|aln|mKIAA1992	tetratricopeptide repeat domain 21B	protein-coding	7.0	8.0	6.0	131.5	12.5	8.0	8.5	8.5
Merged-chr17-74527381-4	chr17	74527269	74527469	+	946.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007566)	promoter-TSS (NM_007566)	-926.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	18.0	6.5	8.0	144.5	64.5	11.0	17.5	11.5
Merged-chr6-83053427-2	chr6	83053327	83053527	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_013586)	TTS (NM_013586)	-1094.0	NM_007517	11993.0	Mm.386752	NM_007517	ENSMUSG00000068328	Aup1	AA589454	ancient ubiquitous protein 1	protein-coding	5.5	25.0	3.0	91.0	19.5	5.5	13.0	7.0
Merged-chr10-95941949-4	chr10	95941829	95942029	+	981.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001932, intron 1 of 28)	intron (NM_001001932, intron 1 of 28)	1266.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	28.5	27.5	13.5	507.5	50.0	14.0	19.5	13.0
Merged-chr18-76241353-4	chr18	76241234	76241434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010754)	promoter-TSS (NM_010754)	-367.0	NM_010754	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	105.5	144.0	122.0	1372.5	503.0	185.0	240.0	182.0
Merged-chr9-57421416-4	chr9	57421300	57421500	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152145, intron 3 of 6)	intron (NR_152145, intron 3 of 6)	18336.0	NM_001357913	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	33.5	39.5	17.5	301.0	49.0	26.5	21.5	22.0
Merged-chr12-84130155-4	chr12	84130057	84130257	+	978.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028821, intron 4 of 7)	ORR1G|LTR|ERVL-MaLR	15829.0	NM_001346528	105000.0	Mm.101525	NM_028821	ENSMUSG00000042523	Dnal1	1700010H15Rik|AW121714|Dnalc1|E330027P08Rik	dynein, axonemal, light chain 1	protein-coding	14.0	20.0	29.5	464.5	35.0	20.5	24.5	23.0
Merged-chr3-50381768-3	chr3	50381656	50381856	+	768.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 8 of 11)	intron (NM_011990, intron 8 of 11)	61857.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	12.0	9.5	9.5	213.0	11.5	3.0	6.0	3.0
Merged-chr1-36556735-4	chr1	36556629	36556829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304329, intron 1 of 14)	intron (NM_001304329, intron 1 of 14)	828.0	NM_001304330	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	117.5	182.0	126.5	1430.5	270.0	109.5	132.5	85.0
Merged-chr16-55799051-4	chr16	55798947	55799147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23091.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	176.0	276.0	196.0	2641.0	341.5	161.5	151.5	156.5
Merged-chr4-88794482-3	chr4	88794389	88794589	+	911.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161609).6	promoter-TSS (NM_001161609).6	2.0	NM_001161609	545654.0	Mm.478784	NM_001161609	ENSMUSG00000095101	Gm13285	limitin	predicted gene 13285	protein-coding	0.0	0.0	0.0	2.0	39.5	14.0	22.0	23.5
Merged-chr15-77832211-4	chr15	77832103	77832303	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	9972.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	18.0	21.0	17.5	91.5	40.5	17.0	12.0	5.5
Merged-chr5-140749740-4	chr5	140749639	140749839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 7 of 7)	intron (NM_173405, intron 7 of 7)	25612.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	46.0	107.5	27.0	623.0	103.0	34.0	55.5	43.5
Merged-chr2-29650272-3	chr2	29650179	29650379	+	861.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	L2a|LINE|L2	30559.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	2.5	15.0	1.0	49.5	39.0	13.5	15.0	5.0
Merged-chr18-80196354-4	chr18	80196250	80196450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199197, intron 3 of 5)	Charlie1a|DNA|hAT-Charlie	4269.0	NM_199197	68731.0	Mm.186936	NM_199197	ENSMUSG00000024570	Rbfa	1110032A13Rik|AI595940	ribosome binding factor A	protein-coding	140.0	224.5	145.5	2877.0	380.0	178.5	203.0	177.5
Merged-chr1-138237440-4	chr1	138237352	138237552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-36286.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	36.0	48.0	57.5	647.0	87.5	33.0	29.0	24.5
Merged-chr17-47754371-4	chr17	47754275	47754475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	16444.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	139.0	194.5	131.0	1839.0	373.5	117.0	118.0	99.0
Merged-chr18-36240091-4	chr18	36239988	36240188	+	808.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-41074.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	9.0	10.0	9.0	90.0	29.0	8.5	15.5	11.0
Merged-chr12-86046315-4	chr12	86046204	86046404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081423, intron 33 of 33)	L1MB3|LINE|L1	32737.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	131.5	133.5	146.5	2466.0	260.0	82.0	154.5	122.5
Merged-chr14-62808835-4	chr14	62808737	62808937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045503, intron 2 of 6)	LTR16A|LTR|ERVL	-28853.0	NM_175546	268752.0	Mm.1960	NM_175546	ENSMUSG00000014547	Wdfy2	5830485M08|B130024L21Rik|ProF|ZFYVE22	WD repeat and FYVE domain containing 2	protein-coding	40.5	57.0	37.0	953.0	74.0	21.0	50.0	30.0
Merged-chr1-186221722-3	chr1	186221706	186221906	+	938.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104496.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	10.0	7.0	14.5	115.5	3.0	0.0	0.5	1.0
Merged-chr12-73967291-4	chr12	73967165	73967365	+	807.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178392, intron 1 of 9)	ID_B1|SINE|B4	2735.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	18.5	10.0	18.0	151.5	29.5	12.0	12.5	11.5
Merged-chr15-76626135-4	chr15	76626044	76626244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305668)	promoter-TSS (NM_001305668)	-60.0	NM_001305668	66914.0	Mm.30028	NM_025842	ENSMUSG00000115987	Vps28	1110014J03Rik|CIIA|D730005C08Rik	vacuolar protein sorting 28	protein-coding	38.0	51.5	15.0	389.5	93.0	51.5	30.5	41.0
Merged-chr10-20311586-4	chr10	20311478	20311678	+	861.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153787)	promoter-TSS (NM_153787)	-891.0	NM_001025392	72567.0	Mm.294783	NM_153787	ENSMUSG00000037608	Bclaf1	2610102K23Rik|2700025J07Rik|2810454G14Rik|5730534O06Rik|AI450190|AW556225|Btf|mKIAA0164	BCL2-associated transcription factor 1	protein-coding	10.5	11.5	12.0	164.0	24.0	10.5	8.5	14.5
Merged-chr6-145302447-5	chr6	145302385	145302585	+	995.080017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	51933.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	8.0	12.0	14.5	81.5	62.0	25.0	22.5	29.5
Merged-chr14-55886114-4	chr14	55886020	55886220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027143, intron 2 of 7)	intron (NM_027143, intron 2 of 7)	1178.0	NR_138134	219094.0	Mm.37592	NM_027143	ENSMUSG00000047153	Khnyn	6330555F21|9130227C08Rik|AI605259|Kiaa0323|mKIAA0323	KH and NYN domain containing	protein-coding	66.5	99.0	40.5	1142.5	172.5	70.5	66.5	65.0
Merged-chr13-43094768-3	chr13	43094667	43094867	+	963.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001302636, exon 7 of 13)	exon (NM_001302636, exon 7 of 13)	-28072.0	NM_001005748	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	15.5	16.5	13.5	438.5	20.5	9.0	6.0	11.0
Merged-chr4-97564960-3	chr4	97564869	97565069	+	747.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16974.0	NM_001122952	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	5.5	4.5	8.5	96.0	21.5	6.0	5.0	10.0
Merged-chr1-52366517-3	chr1	52366422	52366622	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133290.0	NM_001113383	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	23.5	19.0	26.0	653.0	2.0	2.5	1.0	1.0
Merged-chr2-166651936-3	chr2	166651828	166652028	+	737.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	61904.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	8.0	9.5	3.0	88.0	9.5	9.5	4.5	9.5
Merged-chr3-105849539-1	chr3	105849439	105849639	+	651.5	f0_balb.idr	Intergenic	Intergenic	-21319.0	NM_027025	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	12.0	9.5	8.0	84.5	1.5	0.0	0.5	3.0
Merged-chr7-104400887-4	chr7	104400769	104400969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42223.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	85.5	149.5	79.5	1094.5	178.5	61.5	75.0	57.5
Merged-chr4-53029199-2	chr4	53029099	53029299	+	972.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17319.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	1.0	5.0	1.5	79.0	8.0	7.5	4.5	4.5
Merged-chr5-66150853-4	chr5	66150724	66150924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291226, exon 1 of 6)	5' UTR (NM_001291226, exon 1 of 6)	154.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	15.5	67.0	25.5	124.0	69.0	43.5	21.5	26.5
Merged-chr5-21131367-4	chr5	21131271	21131471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44908.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	191.0	278.0	174.0	3159.0	379.0	138.5	198.5	179.5
Merged-chr19-45574067-3	chr19	45573934	45574134	+	977.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172639, intron 4 of 5)	intron (NM_172639, intron 4 of 5)	13449.0	NM_172639	226162.0	Mm.21978	NM_172639	ENSMUSG00000041035	Dpcd	Ndac	deleted in primary ciliary dyskinesia	protein-coding	11.0	19.5	6.0	122.0	32.5	4.5	7.5	9.5
Merged-chr5-123277535-3	chr5	123277445	123277645	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49355.0	NM_026000	67151.0	Mm.278997	NM_026000	ENSMUSG00000029440	Psmd9	1500011J20Rik|2610202L11Rik|Bridge-1|P27	proteasome (prosome, macropain) 26S subunit, non-ATPase, 9	protein-coding	22.0	21.5	39.5	337.5	1.5	2.5	3.5	1.5
Merged-chr6-122601387-1	chr6	122601287	122601487	+	722.0	f1_balb.idr	intron (NM_001134391, intron 1 of 7)	intron (NM_001134391, intron 1 of 7)	1057.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	5.0	16.0	7.0	70.0	17.0	8.5	8.5	12.0
Merged-chr5-142931952-3	chr5	142931881	142932081	+	592.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25227.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	8.0	4.5	5.0	65.5	17.5	9.0	6.0	13.0
Merged-chr16-93906457-4	chr16	93906357	93906557	+	838.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028083)	TTS (NM_028083)	22556.0	NM_028083	110749.0	Mm.274222	NM_028083	ENSMUSG00000022945	Chaf1b	2600017H24Rik|C76145|CAF-I p60|CAF-Ip60|CAF1|CAF1A|CAF1P60|MPHOSPH7	chromatin assembly factor 1, subunit B (p60)	protein-coding	6.0	10.0	9.5	69.5	17.5	13.5	12.5	13.5
Merged-chr2-71939107-4	chr2	71938998	71939198	+	819.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42117.0	NM_001204167	56508.0	Mm.196153	NM_019688	ENSMUSG00000049044	Rapgef4	1300003D15Rik|5730402K07Rik|6330581N18Rik|EPAC 2|Epac-2|Epac2|mKIAA4040	Rap guanine nucleotide exchange factor (GEF) 4	protein-coding	7.5	12.0	4.5	83.5	34.5	9.0	14.5	8.0
Merged-chr3-88023482-2	chr3	88023382	88023582	+	806.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_022031, intron 5 of 6)	CpG-9271	4029.0	NM_022031	73940.0	Mm.294467	NM_022031	ENSMUSG00000004894	Hapln2	4930401E20Rik|Bral1	hyaluronan and proteoglycan link protein 2	protein-coding	5.0	5.0	8.0	59.5	13.5	4.0	8.0	12.5
Merged-chr15-58108413-2	chr15	58108322	58108522	+	602.166626	f0_c57.idr|f1_c57bl6.idr	exon (NM_027435, exon 16 of 28)	exon (NM_027435, exon 16 of 28)	26660.0	NM_027435	70472.0	Mm.221758	NM_027435	ENSMUSG00000022360	Atad2	2610509G12Rik	ATPase family, AAA domain containing 2	protein-coding	5.0	1.0	7.5	36.0	20.0	10.5	21.0	10.5
Merged-chr9-57073124-3	chr9	57073022	57073222	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110351, intron 1 of 21)	CpG	1082.0	NM_001110351	20466.0	Mm.15755	NM_011378	ENSMUSG00000042557	Sin3a	AW553200|Sin3|mKIAA4126|mSin3A	transcriptional regulator, SIN3A (yeast)	protein-coding	92.0	135.0	66.5	1031.0	185.0	74.0	104.5	86.0
Merged-chr7-81862553-4	chr7	81862450	81862650	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291282)	promoter-TSS (NM_001291282)	-137.0	NM_001291282	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	33.0	52.5	23.0	386.5	51.0	15.5	22.0	18.5
Merged-chr15-3234301-4	chr15	3234135	3234335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-36532.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	24.0	34.0	39.5	382.5	46.0	26.5	25.5	26.5
Merged-chr17-43060889-3	chr17	43060777	43060977	+	985.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	intron (NM_178589, intron 3 of 5)	44322.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	26.0	10.5	32.0	474.5	17.0	1.0	3.0	5.0
Merged-chr13-47251306-4	chr13	47251208	47251408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	57305.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	36.5	39.0	44.0	871.5	59.0	24.5	25.0	43.0
Merged-chr2-101779227-4	chr2	101779127	101779327	+	989.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	18480.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	24.5	20.5	23.5	457.5	38.5	14.0	37.0	31.5
Merged-chr10-117302041-4	chr10	117301926	117302126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9158.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	75.5	102.5	68.5	857.5	182.5	47.0	45.5	44.0
Merged-chr10-75300046-4	chr10	75299943	75300143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 13 of 15)	intron (NM_153406, intron 13 of 15)	-16834.0	NM_009630	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	98.5	164.0	83.5	1197.0	271.5	106.0	92.5	125.5
Merged-chr8-123318597-4	chr8	123318493	123318693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016925)	promoter-TSS (NM_016925)	-17.0	NM_016925	14087.0	Mm.6536	NM_016925	ENSMUSG00000032815	Fanca	AW208693|FACA	Fanconi anemia, complementation group A	protein-coding	99.0	119.5	78.5	1775.0	254.0	73.5	127.5	88.5
Merged-chr14-48131452-2	chr14	48131337	48131537	+	741.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033602, intron 1 of 5)	intron (NM_033602, intron 1 of 5)	10568.0	NM_033602	93834.0	Mm.296457	NM_033602	ENSMUSG00000021846	Peli2	AW047589|BB129927	pellino 2	protein-coding	26.0	20.0	17.0	255.5	10.0	2.0	8.5	8.0
Merged-chr11-79625026-4	chr11	79624933	79625133	+	941.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 3 of 14)	intron (NM_175543, intron 3 of 14)	-1870.0	NR_003283	790912.0	Mm.447313	NR_003283	ENSMUSG00000087434	Rab11fip4os1	Gm11202	RAB11 family interacting protein 4 (class II), opposite strand 1	ncRNA	13.0	17.5	11.0	180.0	45.5	9.5	15.0	21.0
Merged-chr11-105348003-4	chr11	105347877	105348077	+	859.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008626, exon 26 of 30)	exon (NM_008626, exon 26 of 30)	55331.0	NM_008626	17534.0	Mm.235616	NM_008626	ENSMUSG00000020695	Mrc2	Endo180|mKIAA0709|uPARAP	mannose receptor, C type 2	protein-coding	5.0	14.5	1.0	165.0	26.0	16.0	14.5	15.0
Merged-chr1-55027528-4	chr1	55027437	55027637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031179)	promoter-TSS (NM_031179)	-59.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	217.0	354.0	191.0	2917.5	549.5	233.0	252.5	163.5
Merged-chr8-115423242-4	chr8	115423141	115423341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	283653.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	112.5	170.5	88.5	1126.5	286.0	92.0	113.0	103.0
Merged-chr7-28377542-4	chr7	28377420	28377620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011756, exon 2 of 2)	3' UTR (NM_011756, exon 2 of 2)	1708.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	30.0	120.5	38.0	262.0	142.0	71.0	38.0	26.0
Merged-chr13-105047496-4	chr13	105047377	105047577	+	917.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029879, intron 2 of 5)	intron (NM_029879, intron 2 of 5)	7453.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	28.5	28.0	10.0	324.5	43.0	19.0	17.5	6.0
Merged-chr11-34770752-4	chr11	34770681	34770881	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	13124.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	20.0	21.0	14.5	157.0	27.5	12.0	11.5	15.0
Merged-chr10-60753358-2	chr10	60753258	60753458	+	899.3333130000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023596)	promoter-TSS (NM_023596)	-576.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	5.0	11.5	13.0	90.5	14.0	7.0	9.5	12.0
Merged-chr14-56571923-4	chr14	56571822	56572022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014996)	promoter-TSS (NM_001014996)	-76.0	NM_001014996	219103.0	Mm.212525	NM_001014996	ENSMUSG00000064128	Cenpj	4932437H03Rik|CPAP|Gm81|LAP|LIP1|Sas4	centromere protein J	protein-coding	202.5	225.0	131.0	2617.5	435.5	140.5	166.5	152.5
Merged-chr19-29355719-4	chr19	29355581	29355781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026362, intron 3 of 5)	intron (NM_026362, intron 3 of 5)	6190.0	NM_026362	67759.0	Mm.275511	NM_026362	ENSMUSG00000016495	Plgrkt	1110007H22Rik|5033414D02Rik|AI852040|Plg-R(KT)|Plg-RKT	plasminogen receptor, C-terminal lysine transmembrane protein	protein-coding	34.0	26.5	32.5	265.0	51.5	15.0	19.0	20.0
Merged-chr7-100474844-4	chr7	100474721	100474921	+	822.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009464, intron 1 of 6)	intron (NM_009464, intron 1 of 6)	1830.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	6.0	5.5	12.5	97.5	12.0	10.0	10.0	3.5
Merged-chr14-98956945-3	chr14	98956841	98957041	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89195.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	35.0	28.5	37.0	876.5	14.5	1.0	3.5	11.5
Merged-chr17-53587251-4	chr17	53587154	53587354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190846, intron 1 of 17)	intron (NM_001190846, intron 1 of 17)	3128.0	NM_001190846	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	117.0	106.0	117.5	1755.0	224.5	118.5	107.0	104.0
Merged-chr9-21723539-4	chr9	21723398	21723598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010700)	promoter-TSS (NM_010700)	-78.0	NM_001252658	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	145.5	177.5	80.5	1381.0	265.0	90.0	100.5	101.0
Merged-chr6-30303992-2	chr6	30303877	30304077	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_009459, intron 1 of 6)	CpG	562.0	NM_009459	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	32.0	40.0	27.0	270.5	95.0	31.0	28.0	31.5
Merged-chr4-89271437-2	chr4	89271337	89271537	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10755.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	8.0	6.5	3.5	132.5	16.5	6.0	8.5	4.5
Merged-chr16-19973094-3	chr16	19973005	19973205	+	634.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	intron (NM_183390, intron 1 of 6)	9944.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	8.0	5.5	7.0	121.0	7.0	7.0	3.0	5.5
Merged-chr18-75368571-2	chr18	75368471	75368671	+	990.5	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001042660, exon 1 of 4)	5' UTR (NM_001042660, exon 1 of 4)	1206.0	NM_001042660	17131.0	Mm.34407	NM_008543	ENSMUSG00000025880	Smad7	Madh7	SMAD family member 7	protein-coding	4.5	3.5	11.5	100.5	11.0	5.0	10.5	11.5
Merged-chr4-124936994-4	chr4	124936906	124937106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177573)	promoter-TSS (NM_177573)	-42.0	NM_177573	194268.0	Mm.266907	NM_177573	ENSMUSG00000044730	9930104L06Rik	C1orf109	RIKEN cDNA 9930104L06 gene	protein-coding	114.0	194.0	105.5	1671.5	354.5	111.0	128.0	113.0
Merged-chr18-4922162-3	chr18	4922106	4922306	+	926.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	109720.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	7.5	8.5	7.5	98.0	15.5	6.0	3.5	6.5
Merged-chr8-13501397-4	chr8	13501292	13501492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-6857.0	NM_019521	14456.0	Mm.3982	NM_019521	ENSMUSG00000031451	Gas6	Gas-6	growth arrest specific 6	protein-coding	49.5	65.5	59.5	990.5	98.5	40.0	45.5	63.0
Merged-chr7-125541109-4	chr7	125540989	125541189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-11193.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	17.5	26.5	28.5	316.5	45.0	18.0	29.5	39.5
Merged-chr5-146770361-4	chr5	146770272	146770472	+	859.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	24584.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	10.5	6.5	34.5	323.0	24.5	11.5	14.0	10.5
Merged-chr9-121265577-3	chr9	121265475	121265675	+	990.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177589, intron 4 of 36)	intron (NM_177589, intron 4 of 36)	11597.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	19.0	17.5	17.0	387.5	24.5	4.5	17.0	4.0
Merged-chr4-114970950-4	chr4	114970851	114971051	+	944.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025647, intron 1 of 5)	intron (NM_025647, intron 1 of 5)	16277.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	25.5	15.5	29.5	356.5	46.0	15.5	18.5	22.5
Merged-chr8-22706123-4	chr8	22706021	22706221	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010546, exon 2 of 21)	exon (NM_010546, exon 2 of 21)	462.0	NM_010546	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	10.5	18.0	6.5	142.5	54.5	18.5	17.0	15.5
Merged-chr1-124071890-4	chr1	124071791	124071991	+	934.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26332.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	23.5	16.0	24.0	403.5	31.5	13.0	15.5	18.5
Merged-chr5-110376996-4	chr5	110376911	110377111	+	855.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 11 of 18)	intron (NM_001142642, intron 11 of 18)	10116.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	10.0	10.5	5.5	171.5	32.0	5.0	7.0	15.5
Merged-chr10-13933514-2	chr10	13933414	13933614	+	821.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32561.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	1.5	1.0	0.0	19.0	51.5	15.5	35.0	15.5
Merged-chr4-150898898-4	chr4	150898790	150898990	+	950.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020569, intron 6 of 6)	intron (NM_020569, intron 6 of 6)	11031.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	10.0	13.5	12.0	191.5	48.0	20.0	29.0	18.0
Merged-chr7-141195004-4	chr7	141194914	141195114	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153777)	promoter-TSS (NM_153777)	-129.0	NM_153777	70552.0	Mm.45104	NM_153777	ENSMUSG00000038637	Lrrc56	5730427C23Rik|BB110509|mFLJ00101	leucine rich repeat containing 56	protein-coding	10.5	14.5	8.0	98.5	62.0	16.5	17.0	18.5
Merged-chr8-111033789-4	chr8	111033711	111033911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146217)	promoter-TSS (NM_146217)	-31.0	NM_146217	234734.0	Mm.24174	NM_146217	ENSMUSG00000031960	Aars	AI316495|C76919|sti	alanyl-tRNA synthetase	protein-coding	111.5	189.5	113.5	1602.5	406.5	155.5	149.5	180.0
Merged-chr8-70808447-3	chr8	70808358	70808558	+	844.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008353)	promoter-TSS (NM_008353)	9.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	4.0	4.0	0.0	76.0	26.5	8.5	4.5	7.0
Merged-chr11-107470775-4	chr11	107470651	107470851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145823)	promoter-TSS (NM_145823)	-31.0	NM_145823	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	97.5	160.0	154.0	1565.0	266.0	116.5	171.0	130.0
Merged-chr13-94965249-4	chr13	94965137	94965337	+	828.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11107.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	17.0	11.5	7.0	138.5	39.5	6.5	20.5	11.0
Merged-chr9-66088682-2	chr9	66088582	66088782	+	986.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019727, intron 14 of 14)	intron (NM_019727, intron 14 of 14)	-18951.0	NM_001025612	382083.0	Mm.477103	NM_001025612	ENSMUSG00000039452	Snx22	Gm1120	sorting nexin 22	protein-coding	4.5	11.0	7.0	64.5	5.0	1.5	4.5	3.0
Merged-chr2-73486468-4	chr2	73486359	73486559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289723)	promoter-TSS (NM_001289723)	-706.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	36.5	68.0	17.5	560.0	79.0	29.5	35.5	45.5
Merged-chr11-121804385-4	chr11	121804290	121804490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25828.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	142.5	195.5	134.0	1638.0	266.0	108.0	108.5	96.5
Merged-chr1-161166399-1	chr1	161166299	161166499	+	791.666687	f0_balb.idr	intron (NM_028664, intron 6 of 6)	intron (NM_028664, intron 6 of 6)	-7085.0	NM_001195189	100502590.0	Mm.449990	NM_001195189	ENSMUSG00000049160	Tex50	4930469G21Rik	testis expressed 50	protein-coding	11.5	18.0	11.5	188.0	5.0	2.0	2.5	1.5
Merged-chr11-116198337-1	chr11	116198237	116198437	+	663.5	f0_balb.idr	promoter-TSS (NM_027107)	promoter-TSS (NM_027107)	-518.0	NM_027107	69535.0	Mm.390347	NM_027107	ENSMUSG00000020778	Ten1	2310004N24Rik	TEN1 telomerase capping complex subunit	protein-coding	7.5	6.5	9.5	96.0	12.0	5.5	1.0	5.5
Merged-chr2-167805932-7	chr2	167805825	167806025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114748.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	29.5	49.0	23.0	250.0	53.5	14.0	25.5	37.5
Merged-chr14-121985681-4	chr14	121985533	121985733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 6 of 8)	intron (NM_026861, intron 6 of 8)	-20440.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	38.0	30.5	22.0	716.0	92.5	24.5	19.0	17.5
Merged-chr3-53459673-4	chr3	53459577	53459777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172501, intron 3 of 6)	intron (NM_172501, intron 3 of 6)	3581.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	27.0	33.0	43.5	302.0	50.5	22.5	26.0	23.0
Merged-chr4-88433568-4	chr4	88433473	88433673	+	966.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025760, intron 3 of 6)	intron (NM_025760, intron 3 of 6)	5353.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	10.0	25.5	22.0	306.0	61.5	25.0	28.5	29.5
Merged-chr15-73351215-3	chr15	73351136	73351336	+	765.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358046, intron 2 of 34)	intron (NM_001358046, intron 2 of 34)	71955.0	NM_007982	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	7.0	6.5	17.0	115.0	11.0	4.0	6.0	4.5
Merged-chr12-59131388-4	chr12	59131311	59131511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165253)	promoter-TSS (NM_001165253)	-42.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	168.5	297.0	190.0	2577.5	541.0	203.5	216.5	202.0
Merged-chr4-6373127-4	chr4	6373035	6373235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	7455.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	51.5	67.5	78.5	1402.0	158.5	29.0	79.5	47.5
Merged-chr13-88730444-2	chr13	88730344	88730544	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus4|LINE|L1	-91028.0	NM_010103	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	3.0	3.0	10.5	41.5	20.0	6.5	11.5	5.0
Merged-chr14-40985840-4	chr14	40985737	40985937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	-18941.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	66.5	116.0	76.0	1315.0	175.0	62.5	54.0	59.0
Merged-chr5-45669045-3	chr5	45668957	45669157	+	858.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019438)	promoter-TSS (NM_019438)	651.0	NR_073433	69788.0	Mm.381492	NR_073433	ENSMUSG00000104986	1600023N17Rik	AV119442	RIKEN cDNA 1600023N17 gene	ncRNA	7.5	8.0	10.0	65.5	18.0	8.5	6.5	11.5
Merged-chr12-112761434-4	chr12	112761335	112761535	+	832.270813	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178911, intron 1 of 10)	intron (NM_178911, intron 1 of 10)	780.0	NM_178911	104759.0	Mm.203915	NM_178911	ENSMUSG00000052160	Pld4	AI132321|thss	phospholipase D family, member 4	protein-coding	6.5	7.5	10.0	88.5	13.5	5.5	2.5	7.0
Merged-chr3-88082000-4	chr3	88081923	88082123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033484)	promoter-TSS (NM_001033484)	-28.0	NM_001033484	404710.0	Mm.331133	NM_001033484	ENSMUSG00000028068	Iqgap3	AI593484|D030034H08	IQ motif containing GTPase activating protein 3	protein-coding	42.0	60.5	28.5	556.0	98.5	38.0	42.0	46.0
Merged-chr14-8093587-4	chr14	8093483	8093683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4628.0	NM_145458	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	228.5	305.5	231.5	3063.5	497.0	173.5	214.0	208.5
Merged-chr8-109705492-4	chr8	109705399	109705599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286393)	promoter-TSS (NM_001286393)	-47.0	NM_001286393	75871.0	Mm.180410	NM_029468	ENSMUSG00000031728	Zfp821	4930566A11Rik|Znf821	zinc finger protein 821	protein-coding	81.0	91.0	54.0	980.5	214.5	44.0	91.5	87.5
Merged-chr19-11788028-3	chr19	11787933	11788133	+	900.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 5 of 10)	intron (NM_011502, intron 5 of 10)	17618.0	NM_025606	94063.0	Mm.203928	NM_025606	ENSMUSG00000024683	Mrpl16	2310039D06Rik	mitochondrial ribosomal protein L16	protein-coding	17.5	19.0	11.0	107.0	25.0	8.0	8.0	14.5
Merged-chr12-82234858-3	chr12	82234787	82234987	+	748.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	MLTR14|LTR|ERV1	64871.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	6.5	10.5	5.5	97.0	7.0	4.5	4.0	7.5
Merged-chr4-141766990-4	chr4	141766926	141767126	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172338, intron 11 of 14)	intron (NM_172338, intron 11 of 14)	20351.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	21.5	39.5	22.0	642.5	59.5	24.5	26.5	18.5
Merged-chr17-84391096-3	chr17	84391006	84391206	+	617.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 25 of 37)	ORR1E|LTR|ERVL-MaLR	75102.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	6.5	6.0	5.0	153.5	9.5	3.0	4.5	9.5
Merged-chr1-165210166-2	chr1	165210066	165210266	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR4_I|LTR|ERVK	-15728.0	NR_151712	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	7.5	3.5	3.0	12.5	5.0	4.5	4.5	13.0
Merged-chr17-31223960-2	chr17	31223860	31224060	+	734.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177823, intron 6 of 13)	intron (NM_177823, intron 6 of 13)	15894.0	NM_177823	328795.0	Mm.387930	NM_177823	ENSMUSG00000042345	Ubash3a	5830413C03Rik|C330001M22|Sts-2|TULA|TULA-1	ubiquitin associated and SH3 domain containing, A	protein-coding	2.0	3.5	5.5	66.0	10.0	6.0	6.0	6.0
Merged-chr6-120174448-6	chr6	120174342	120174542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-19381.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	64.5	85.0	87.5	1303.0	28.5	18.5	31.5	33.5
Merged-chr10-37250230-3	chr10	37250144	37250344	+	931.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111318.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	9.0	2.0	8.5	161.5	5.0	5.5	5.5	8.5
Merged-chr10-68141783-3	chr10	68141693	68141893	+	920.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 4 of 9)	intron (NM_023598, intron 4 of 9)	136933.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	22.0	11.5	14.5	153.0	7.5	3.0	2.0	4.5
Merged-chr2-122780612-4	chr2	122780508	122780708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027888, intron 1 of 9)	intron (NR_027888, intron 1 of 9)	-1391.0	NM_021507	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	47.5	45.5	59.0	953.0	93.0	38.5	50.0	46.5
Merged-chr2-93597956-4	chr2	93597874	93598074	+	934.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44460.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	16.0	12.0	22.5	394.0	43.5	11.5	20.5	20.5
Merged-chr4-155491735-4	chr4	155491631	155491831	+	950.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160017, intron 1 of 10)	CpG	370.0	NM_001160016	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	14.5	26.5	31.5	101.5	47.5	16.5	15.0	28.5
Merged-chr7-31127085-4	chr7	31126945	31127145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011322)	promoter-TSS (NM_011322)	-22.0	NM_011322	20266.0	Mm.1418	NM_011322	ENSMUSG00000019194	Scn1b	-	sodium channel, voltage-gated, type I, beta	protein-coding	39.0	48.0	30.0	643.5	114.5	49.0	36.0	47.5
Merged-chr10-100160458-4	chr10	100160369	100160569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144648.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	20.5	28.0	38.5	415.0	38.5	23.5	25.5	25.5
Merged-chr3-90266503-4	chr3	90266393	90266593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201407)	promoter-TSS (NM_201407)	-21.0	NM_201407	229541.0	Mm.30571	NM_201407	ENSMUSG00000042404	Dennd4b	-	DENN/MADD domain containing 4B	protein-coding	69.0	90.5	63.0	1042.0	172.5	49.5	88.5	62.5
Merged-chr6-97296537-1	chr6	97296437	97296637	+	868.0	f1_c57bl6.idr	intron (NM_145148, intron 21 of 23)	B4A|SINE|B4	-43757.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	0.5	3.5	1.0	23.5	8.5	5.0	4.5	10.5
Merged-chr3-32510544-4	chr3	32510456	32510656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144519)	promoter-TSS (NM_144519)	6.0	NM_001161818	67778.0	Mm.285620	NM_144519	ENSMUSG00000027667	Zfp639	6230400O18Rik|ANC-2H01|ZASC1|Znf639	zinc finger protein 639	protein-coding	211.0	348.5	321.0	3707.5	645.0	222.0	318.5	240.0
Merged-chr3-95637392-4	chr3	95637353	95637553	+	907.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	12473.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	20.0	11.5	14.5	242.0	22.0	6.5	6.5	9.0
Merged-chr1-121508944-4	chr1	121508841	121509041	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010483)	TTS (NM_010483)	19524.0	NM_010483	15564.0	Mm.4833	NM_010483	ENSMUSG00000050534	Htr5b	5-Ht5b	5-hydroxytryptamine (serotonin) receptor 5B	protein-coding	12.0	48.5	18.0	425.0	87.5	30.5	35.0	33.5
Merged-chr16-92428329-3	chr16	92428253	92428453	+	917.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-28275.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	10.0	22.5	8.0	150.0	8.5	1.5	3.5	2.5
Merged-chr8-35725887-3	chr8	35725782	35725982	+	753.888916	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	100677.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	12.0	10.0	6.0	217.5	25.5	9.0	10.0	10.5
Merged-chr8-35718569-3	chr8	35718489	35718689	+	728.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	107970.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	1.0	0.0	0.5	28.5	44.0	8.0	24.0	16.0
Merged-chr16-91386142-1	chr16	91386042	91386242	+	687.0	f0_balb.idr	intron (NM_001347258, intron 4 of 7)	intron (NM_001347258, intron 4 of 7)	13359.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	7.0	23.0	11.0	112.5	20.5	8.0	6.0	7.0
Merged-chr6-92943604-3	chr6	92943513	92943713	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	CpG	3031.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	40.0	46.0	62.0	961.5	0.5	0.0	0.0	1.0
Merged-chr3-89796527-4	chr3	89796397	89796597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	22888.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	123.0	166.5	130.5	1881.0	176.0	97.5	143.5	100.5
Merged-chr12-55821099-4	chr12	55820990	55821190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019994, exon 1 of 41)	5' UTR (NM_019994, exon 1 of 41)	426.0	NM_019994	56784.0	Mm.292180	NM_019994	ENSMUSG00000021027	Ralgapa1	2310003F20Rik|4930400K19Rik|AI563624|GRIPE|Garnl1|Tulip1|mKIAA0884	Ral GTPase activating protein, alpha subunit 1	protein-coding	73.5	111.0	76.5	893.0	132.5	61.0	91.5	66.0
Merged-chr5-64336917-4	chr5	64336816	64337016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 16 of 18)	intron (NM_001289514, intron 16 of 18)	106559.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	53.5	32.5	43.0	833.5	112.0	40.0	48.0	55.0
Merged-chr4-46563962-4	chr4	46563842	46564042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 1 of 11)	intron (NM_001164804, intron 1 of 11)	2498.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	287.5	303.5	329.5	3838.5	398.0	152.5	154.0	175.0
Merged-chr9-95559945-4	chr9	95559897	95560097	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198414, exon 1 of 1)	exon (NM_198414, exon 1 of 1)	180.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	13.5	26.0	26.0	263.5	24.5	11.0	15.0	11.0
Merged-chr16-85455353-3	chr16	85455203	85455403	+	834.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144853)	TTS (NM_144853)	95070.0	NM_144853	224405.0	Mm.213203	NM_144853	ENSMUSG00000041134	Cyyr1	-	cysteine and tyrosine-rich protein 1	protein-coding	0.0	0.0	6.5	10.0	39.0	6.5	6.0	15.5
Merged-chr9-88710006-4	chr9	88709910	88710110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359992, intron 2 of 2)	intron (NM_001359992, intron 2 of 2)	9577.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	78.0	94.0	107.5	1106.0	121.5	44.0	56.5	74.0
Merged-chr7-34390925-4	chr7	34390824	34391024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1219.0	NM_025948	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	42.5	38.0	34.0	417.5	52.0	31.5	28.0	31.0
Merged-chr8-108765001-4	chr8	108764904	108765104	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	50360.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	33.0	59.0	33.0	534.5	74.0	29.5	39.0	17.5
Merged-chr2-174312321-3	chr2	174312221	174312421	+	850.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310085, intron 2 of 12)	intron (NM_001310085, intron 2 of 12)	14462.0	NM_001310085	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	9.0	7.0	5.5	96.0	15.5	5.5	9.5	1.5
Merged-chr13-64129793-3	chr13	64129696	64129896	+	786.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001321)	promoter-TSS (NM_001001321)	-466.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	9.0	14.0	14.5	116.0	29.5	7.0	15.5	18.5
Merged-chr4-33243293-3	chr4	33243248	33243448	+	609.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5439.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	5.5	12.0	11.0	81.5	26.5	8.0	6.5	7.5
Merged-chr19-8252526-2	chr19	8252426	8252626	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-33626.0	NM_001347426	236293.0	Mm.440581	NM_172776	ENSMUSG00000075044	Slc22a29	D630002G06Rik	solute carrier family 22. member 29	protein-coding	5.0	6.0	7.5	64.0	14.0	1.0	3.5	10.5
Merged-chr1-34860411-3	chr1	34860313	34860513	+	961.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	MLTR14|LTR|ERV1	10424.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	12.0	19.5	21.0	190.0	16.0	5.5	15.0	11.0
Merged-chr8-104571185-4	chr8	104571073	104571273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20295.0	NM_001024606	382051.0	Mm.290750	NM_001024606	ENSMUSG00000048371	Pdp2	4833426J09Rik|Gm1705|mKIAA1348	pyruvate dehyrogenase phosphatase catalytic subunit 2	protein-coding	36.5	28.5	39.5	359.0	59.5	24.5	26.0	21.0
Merged-chr14-19418821-4	chr14	19418724	19418924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	183763.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	89.0	62.5	83.0	976.5	225.0	108.0	67.0	166.5
Merged-chr2-159593021-4	chr2	159592925	159593125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-354316.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	54.5	50.5	30.0	797.5	53.5	28.0	50.5	47.0
Merged-chr8-35135837-3	chr8	35135721	35135921	+	961.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-170131.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	2.0	4.5	6.0	57.5	61.5	21.5	40.0	21.5
Merged-chr5-140736019-2	chr5	140735919	140736119	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	11892.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	6.5	14.0	7.0	89.0	25.5	8.5	6.0	9.5
Merged-chr7-99101894-4	chr7	99101809	99102009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 3 of 14)	intron (NM_178635, intron 3 of 14)	39235.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	161.5	173.5	119.5	1549.5	260.5	93.0	95.5	117.0
Merged-chr8-27260283-4	chr8	27260184	27260384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007918)	promoter-TSS (NM_007918)	-43.0	NM_007918	13685.0	Mm.6700	NM_007918	ENSMUSG00000031490	Eif4ebp1	4e-bp1|AA959816|PHAS-I	eukaryotic translation initiation factor 4E binding protein 1	protein-coding	107.5	158.0	99.5	1801.0	237.5	91.5	151.5	115.0
Merged-chr17-44777135-4	chr17	44777049	44777249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357320)	promoter-TSS (NM_001357320)	-17.0	NM_001357320	109115.0	Mm.431327	NM_178652	ENSMUSG00000038954	Supt3	2310066G22Rik|AI315192|SPT3|SPT3L|Supt3h	suppressor of Ty 3	protein-coding	189.5	231.0	163.5	2587.5	504.5	214.5	223.0	204.0
Merged-chr17-34204509-4	chr17	34204405	34204605	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011530)	promoter-TSS (NM_011530)	26.0	NM_011530	21355.0	Mm.14814	NM_011530	ENSMUSG00000024339	Tap2	ABC18|AI462429|APT2|Abcb3|Ham-2|Ham2|MTP2|PSF2|RING11|Tap-2|Y1|jas	transporter 2, ATP-binding cassette, sub-family B (MDR/TAP)	protein-coding	28.5	47.5	14.5	371.0	83.0	25.5	33.5	22.0
Merged-chr2-49771249-3	chr2	49771182	49771382	+	917.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008449, exon 26 of 26)	3' UTR (NM_008449, exon 26 of 26)	-16404.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	11.0	12.0	13.5	120.5	13.5	10.5	9.0	6.0
Merged-chr12-33170306-4	chr12	33170196	33170396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	L1MB7|LINE|L1	22610.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	29.5	38.5	27.5	656.0	138.5	43.5	47.0	69.0
Merged-chr10-67124396-3	chr10	67124297	67124497	+	770.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2861.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	5.5	9.0	8.0	82.5	14.5	2.5	3.0	0.5
Merged-chr10-121585320-3	chr10	121585235	121585435	+	873.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019786, intron 1 of 20)	intron (NM_019786, intron 1 of 20)	1459.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	7.5	15.5	10.5	47.0	12.5	9.5	3.0	8.5
Merged-chr9-78437360-2	chr9	78437260	78437460	+	718.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_173386, exon 2 of 5)	exon (NM_173386, exon 2 of 5)	5877.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	5.5	10.0	7.0	78.5	13.5	7.0	4.0	2.5
Merged-chr12-73737132-3	chr12	73737009	73737209	+	909.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 10 of 13)	intron (NM_008856, intron 10 of 13)	152313.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	5.0	10.5	8.0	111.0	15.0	1.0	10.0	8.5
Merged-chr9-94605146-4	chr9	94605050	94605250	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64742.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	21.0	29.5	16.5	421.0	75.5	27.0	31.5	44.0
Merged-chr6-31353641-4	chr6	31353546	31353746	+	949.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45127.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	16.0	22.5	14.0	452.5	49.5	13.5	28.5	21.0
Merged-chr15-85867854-3	chr15	85867747	85867947	+	884.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013882, intron 5 of 10)	intron (NM_013882, intron 5 of 10)	7901.0	NM_013882	29870.0	Mm.20858	NM_013882	ENSMUSG00000022385	Gtse1	B99|Gtse-1	G two S phase expressed protein 1	protein-coding	12.5	11.5	17.0	117.5	12.0	4.0	11.0	6.0
Merged-chr11-97309534-4	chr11	97309422	97309622	+	971.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6194.0	NM_025927	67036.0	Mm.5381	NM_025927	ENSMUSG00000018882	Mrpl45	2600005P05Rik|AU043542|R75241	mitochondrial ribosomal protein L45	protein-coding	57.0	66.5	70.0	675.0	37.5	17.0	13.0	28.0
Merged-chr19-40659171-3	chr19	40659064	40659264	+	865.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009848)	promoter-TSS (NM_009848)	-606.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	6.0	10.5	16.0	113.0	13.5	5.5	5.0	9.5
Merged-chr11-61930845-4	chr11	61930728	61930928	+	923.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019921)	promoter-TSS (NM_019921)	-571.0	NM_019921	56697.0	Mm.274404	NM_019921	ENSMUSG00000047804	Akap10	1500031L16Rik|B130049N18Rik|D-AKAP-2|D-AKAP2|PRKA10	A kinase (PRKA) anchor protein 10	protein-coding	13.5	21.5	9.0	170.5	37.5	11.5	11.5	14.0
Merged-chr12-102369427-10	chr12	102369251	102369451	+	921.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001161365, exon 6 of 10)	exon (NM_001161365, exon 6 of 10)	70462.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	8.5	9.5	25.0	204.0	7.0	2.5	5.0	11.5
Merged-chr6-5167512-4	chr6	5167387	5167587	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011134)	TTS (NM_011134)	26459.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	25.0	26.0	17.0	302.5	62.0	15.5	16.0	21.5
Merged-chr11-69390586-4	chr11	69390466	69390666	+	855.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4780.0	NM_001045525	327951.0	Mm.415669	NM_001045525	ENSMUSG00000044795	Cyb5d1	Gm740	cytochrome b5 domain containing 1	protein-coding	6.0	13.5	12.0	117.0	26.5	9.0	5.0	26.5
Merged-chr11-31818238-3	chr11	31818130	31818330	+	921.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_102310, exon 4 of 4)	non-coding (NR_102310, exon 4 of 4)	6317.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	10.5	17.0	7.0	310.5	5.0	0.5	0.0	2.5
Merged-chr2-167962516-4	chr2	167962420	167962620	+	764.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	30193.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	4.0	11.0	15.0	134.5	20.0	9.0	9.0	8.5
Merged-chr2-39008069-4	chr2	39007968	39008168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028809)	promoter-TSS (NM_028809)	-71.0	NM_028809	74192.0	Mm.38155	NM_028809	ENSMUSG00000026755	Arpc5l	2010015J01Rik|AI852867|ARC16-2|AW555592|AW742746	actin related protein 2/3 complex, subunit 5-like	protein-coding	195.5	185.5	171.5	2811.0	336.5	147.5	215.5	141.5
Merged-chr3-157947087-4	chr3	157947014	157947214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359909, exon 1 of 12)	5' UTR (NM_001359909, exon 1 of 12)	114.0	NM_001013806	433667.0	Mm.265806	NM_001013806	ENSMUSG00000039988	Ankrd13c	AI505652|AU022220	ankyrin repeat domain 13c	protein-coding	122.0	160.5	174.0	1230.5	200.5	90.5	102.0	123.5
Merged-chr2-151974306-4	chr2	151974203	151974403	+	954.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289151)	promoter-TSS (NM_001289151)	-322.0	NM_028666	73847.0	Mm.272444	NM_028666	ENSMUSG00000027459	Fam110a	1700008J10Rik|5430432M24Rik|AI747080	family with sequence similarity 110, member A	protein-coding	25.0	35.0	17.0	139.0	63.5	33.5	24.5	15.0
Merged-chr19-55491483-3	chr19	55491395	55491595	+	874.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 6 of 8)	intron (NM_001360431, intron 6 of 8)	175438.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	1.0	0.0	0.0	0.5	26.0	8.0	15.5	10.5
Merged-chr4-89363503-1	chr4	89363403	89363603	+	718.0	f0_balb.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-52471.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	8.0	8.0	8.0	153.5	4.0	3.5	14.5	4.5
Merged-chr15-50779842-4	chr15	50779735	50779935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	109214.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	54.5	50.0	42.0	992.5	84.5	27.5	35.5	21.0
Merged-chr11-77520783-4	chr11	77520706	77520906	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026185)	TTS (NM_026185)	5689.0	NM_026185	67477.0	Mm.432526	NM_026185	ENSMUSG00000000686	Abhd15	1300007F04Rik	abhydrolase domain containing 15	protein-coding	33.5	48.5	25.5	367.5	90.0	46.0	23.0	29.0
Merged-chr1-172423589-4	chr1	172423474	172423674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	47043.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	37.5	49.0	40.5	663.5	273.5	109.5	119.0	106.0
Merged-chr8-125569075-4	chr8	125568949	125569149	+	978.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	814.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	16.5	32.0	20.5	193.0	55.0	20.5	17.5	16.0
Merged-chr2-152081975-4	chr2	152081864	152082064	+	972.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001160410, exon 1 of 2)	5' UTR (NM_001160410, exon 1 of 2)	435.0	NM_001160410	545474.0	Mm.214317	NM_001160410	ENSMUSG00000060257	Scrt2	AW060659	scratch family zinc finger 2	protein-coding	25.0	17.5	26.5	346.0	49.0	9.5	28.0	28.5
Merged-chr16-44050469-3	chr16	44050433	44050633	+	707.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8525.0	NM_001359085	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	4.5	5.5	8.5	59.0	8.5	5.0	7.5	6.5
Merged-chr7-19077873-5	chr7	19077735	19077935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010058, intron 1 of 4)	intron (NM_010058, intron 1 of 4)	1635.0	NM_010058	13401.0	Mm.2852	NM_010058	ENSMUSG00000030410	Dmwd	DMR-N9|Dm9	dystrophia myotonica-containing WD repeat motif	protein-coding	34.0	34.0	34.0	432.5	98.5	42.0	56.0	39.0
Merged-chr8-64831844-4	chr8	64831741	64831941	+	762.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178633, intron 2 of 14)	intron (NM_178633, intron 2 of 14)	18083.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	14.0	12.0	10.0	239.0	20.5	8.0	32.5	13.5
Merged-chr5-77468652-4	chr5	77468557	77468757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131050, exon 2 of 2)	non-coding (NR_131050, exon 2 of 2)	3169.0	NR_131050	69370.0	Mm.426881	NR_131050	ENSMUSG00000107232	1700017L05Rik	-	RIKEN cDNA 1700017L05 gene	ncRNA	39.0	39.5	24.0	585.0	53.5	36.5	26.0	29.0
Merged-chr8-124250999-4	chr8	124250900	124251100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139272, intron 1 of 15)	intron (NM_139272, intron 1 of 15)	19606.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	27.0	30.5	23.0	449.0	123.5	57.5	95.5	64.0
Merged-chr8-126537487-4	chr8	126537386	126537586	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55950.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	26.0	30.0	13.5	389.0	33.5	13.0	20.0	23.0
Merged-chr15-31627496-4	chr15	31627415	31627615	+	875.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25399.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	5.5	10.5	24.0	98.5	13.5	5.0	10.0	8.0
Merged-chr11-54988991-4	chr11	54988896	54989096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 19 of 24)	L1MB3|LINE|L1	-26056.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	36.0	35.5	33.0	605.0	96.0	36.0	49.0	40.0
Merged-chr10-81408296-2	chr10	81408196	81408396	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 4 of 8)	intron (NM_026756, intron 4 of 8)	-1279.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	4.5	22.0	2.0	76.5	21.0	7.0	4.5	12.5
Merged-chr10-119240543-2	chr10	119240451	119240651	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_027994)	promoter-TSS (NM_027994)	-496.0	NM_027994	71902.0	Mm.203965	NM_027994	ENSMUSG00000020114	Cand1	2310038O07Rik|6330512O03Rik|AI195005|AI846556|D10Ertd516e|Tp120a|mKIAA0829	cullin associated and neddylation disassociated 1	protein-coding	69.5	115.0	64.0	1400.0	259.0	92.0	126.5	108.5
Merged-chr7-43669466-7	chr7	43669348	43669548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2583.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	11.5	53.5	20.0	334.5	85.5	41.5	51.5	53.5
Merged-chr1-131238640-3	chr1	131238543	131238743	+	778.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 1 of 5)	intron (NM_018750, intron 1 of 5)	6535.0	NM_001313731	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	9.0	7.5	11.0	99.5	13.0	6.5	10.0	6.5
Merged-chr10-95670051-3	chr10	95669949	95670149	+	941.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-105903.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	15.0	13.0	8.0	178.5	21.0	5.0	5.0	8.5
Merged-chr13-54824291-5	chr13	54824183	54824383	+	837.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34878.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	6.5	7.5	10.5	88.5	8.5	1.0	4.5	5.5
Merged-chr19-44408373-4	chr19	44408299	44408499	+	900.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009127)	promoter-TSS (NM_009127)	-690.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	5.0	16.5	15.5	165.5	30.5	10.0	12.5	8.5
Merged-chr5-135551121-3	chr5	135551024	135551224	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6002.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	7.0	13.0	9.0	75.0	17.5	5.0	5.0	12.5
Merged-chr3-94431193-4	chr3	94431093	94431293	+	942.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001357711, exon 14 of 14)	3' UTR (NM_001357711, exon 14 of 14)	5458.0	NM_016901	53814.0	Mm.440422	NM_016901	ENSMUSG00000028141	Oaz3	AZ3|Az-3|Oaz-t	ornithine decarboxylase antizyme 3	protein-coding	11.5	27.0	33.5	705.5	37.0	11.0	20.5	36.0
Merged-chr7-30413829-4	chr7	30413739	30413939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011662)	promoter-TSS (NM_011662)	51.0	NM_011662	22177.0	Mm.46301	NM_011662	ENSMUSG00000030579	Tyrobp	DAP12|KARAP|Ly83	TYRO protein tyrosine kinase binding protein	protein-coding	93.0	92.5	100.5	954.5	160.0	46.5	102.5	81.0
Merged-chr17-83272782-4	chr17	83272712	83272912	+	900.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57529.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	10.5	9.0	5.0	121.0	27.0	7.5	14.0	10.0
Merged-chr8-46745693-4	chr8	46745598	46745798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	5953.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	29.5	25.0	14.5	420.0	45.0	18.0	23.0	32.5
Merged-chr7-138848488-2	chr7	138848388	138848588	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026391, intron 2 of 8)	intron (NM_026391, intron 2 of 8)	2102.0	NM_026391	52432.0	Mm.258739	NM_026391	ENSMUSG00000041769	Ppp2r2d	1300017E19Rik|D7Ertd753e|MDS026	protein phosphatase 2, regulatory subunit B, delta	protein-coding	4.0	3.0	1.0	52.5	8.5	5.0	5.5	8.0
Merged-chr10-111508786-2	chr10	111508686	111508886	+	560.416626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_009344)	TTS (NM_009344)	2500.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	1.5	3.0	1.0	54.5	11.0	5.0	4.5	6.5
Merged-chr10-80446431-4	chr10	80446344	80446544	+	857.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12791.0	NM_001164148	21423.0	Mm.3406	NM_011548	ENSMUSG00000020167	Tcf3	A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21	transcription factor 3	protein-coding	22.5	29.0	11.5	106.5	21.5	13.0	6.0	11.5
Merged-chr15-100060614-4	chr15	100060525	100060725	+	898.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	21961.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	21.5	22.5	21.5	257.5	78.5	8.0	13.0	15.5
Merged-chr11-106733994-4	chr11	106733865	106734065	+	865.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger12|DNA|TcMar-Tigger	-17261.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	14.5	11.0	10.5	324.0	21.0	8.0	9.0	14.5
Merged-chr17-73942733-4	chr17	73942631	73942831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 2 of 35)	intron (NM_011723, intron 2 of 35)	7465.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	27.5	38.5	30.5	597.5	60.5	15.0	28.5	24.5
Merged-chr15-103370595-4	chr15	103370462	103370662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3771.0	NM_001314041	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	173.0	376.0	163.5	1692.5	484.0	240.5	210.0	136.0
Merged-chr18-4314109-4	chr18	4314022	4314222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38831.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	216.5	305.5	166.0	2590.5	446.0	168.5	194.5	174.5
Merged-chr7-128237282-4	chr7	128237176	128237376	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146205)	promoter-TSS (NM_146205)	-81.0	NM_146205	233912.0	Mm.475117	NM_146205	ENSMUSG00000042178	Armc5	AW049683|BC032200	armadillo repeat containing 5	protein-coding	26.5	55.5	12.5	379.5	54.0	29.0	24.0	20.5
Merged-chr1-39901449-7	chr1	39901359	39901559	+	931.261902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 1 of 29)	CpG	546.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	13.5	9.0	20.0	116.5	16.5	5.0	8.5	12.5
Merged-chr16-11433983-4	chr16	11433892	11434092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 11 of 20)	intron (NM_028964, intron 11 of 20)	28344.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	81.5	82.5	81.5	1417.0	125.0	46.0	104.5	59.0
Merged-chr11-46799044-3	chr11	46798947	46799147	+	692.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-11752.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	10.0	24.0	7.5	138.5	16.0	9.0	6.0	6.5
Merged-chr1-171619874-4	chr1	171619777	171619977	+	838.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12467.0	NM_001277968	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	5.5	9.0	2.5	212.0	34.5	16.5	11.5	10.5
Merged-chr2-76647289-2	chr2	76647189	76647389	+	735.466675	f1_balb.idr|f1_c57bl6.idr	exon (NM_011871, exon 2 of 8)	exon (NM_011871, exon 2 of 8)	705.0	NM_011871	23992.0	Mm.277250	NM_011871	ENSMUSG00000002731	Prkra	AV120107|PRK|Pact|RAX|lear	protein kinase, interferon inducible double stranded RNA dependent activator	protein-coding	13.5	7.0	2.0	117.5	14.0	12.0	5.5	9.5
Merged-chr6-52012610-4	chr6	52012506	52012706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018773)	promoter-TSS (NM_018773)	-57.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	221.0	323.0	224.5	2287.5	527.5	203.5	207.0	186.5
Merged-chr3-126669011-1	chr3	126668911	126669111	+	735.0	f0_c57.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	72060.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	0.0	0.0	0.0	1.0	21.0	4.5	13.0	7.5
Merged-chr6-53993511-3	chr6	53993414	53993614	+	778.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110484, intron 1 of 3)	intron (NR_110484, intron 1 of 3)	14823.0	NR_110484	320178.0	Mm.320413	NR_110484	ENSMUSG00000108060	4921529L05Rik	4930590G02Rik	RIKEN cDNA 4921529L05 gene	ncRNA	4.0	12.0	4.0	20.0	34.0	9.0	16.5	10.5
Merged-chr3-107771180-4	chr3	107771085	107771285	+	890.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10716.0	NM_001113529	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	11.5	21.5	11.5	235.5	20.5	9.0	16.0	25.5
Merged-chr10-121531743-2	chr10	121531654	121531854	+	896.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55040.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	3.5	11.0	2.0	47.5	6.0	4.5	5.5	6.0
Merged-chr5-77095220-4	chr5	77095117	77095317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159901)	promoter-TSS (NM_001159901)	50.0	NM_001159901	74318.0	Mm.181852	NM_175606	ENSMUSG00000059325	Hopx	1110018K11Rik|1200015P04Rik|2300002F06Rik|AI848177|AW490897|Cameo|Hdop|Hod|Hop|Ob1|Obl|Toto	HOP homeobox	protein-coding	14.5	27.5	23.0	335.0	50.0	25.0	46.0	33.5
Merged-chr16-65470781-4	chr16	65470703	65470903	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-49826.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	23.5	26.5	14.0	361.0	31.0	12.5	17.5	21.5
Merged-chr13-63246664-3	chr13	63246536	63246736	+	971.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	6607.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	10.5	12.5	18.5	128.0	9.0	6.5	3.5	7.5
Merged-chr14-61683069-2	chr14	61682969	61683169	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028264)	promoter-TSS (NR_028264)	-696.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	14.5	16.5	20.5	135.0	38.0	18.0	18.0	20.0
Merged-chr14-31405906-4	chr14	31405792	31405992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	11785.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	39.5	43.5	44.5	737.5	52.5	19.5	21.0	30.5
Merged-chr7-102619813-3	chr7	102619692	102619892	+	780.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR34B_MM|LTR|ERVK	-4805.0	NM_207621	233578.0	Mm.377251	NM_207621	ENSMUSG00000073972	Olfr553	MOR25-2	olfactory receptor 553	protein-coding	4.0	10.0	5.5	212.5	13.0	7.0	6.5	6.0
Merged-chr1-184542504-4	chr1	184542395	184542595	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040472, intron 2 of 5)	intron (NR_040472, intron 2 of 5)	15196.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	29.0	17.0	31.5	539.5	76.0	12.0	34.5	23.0
Merged-chr11-102393413-2	chr11	102393313	102393513	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016759)	promoter-TSS (NM_016759)	10.0	NM_001252347	51799.0	Mm.2560	NM_016759	ENSMUSG00000006575	Rundc3a	RPIP-8|Rap2ip|Rpip8	RUN domain containing 3A	protein-coding	9.5	8.5	4.5	9.0	13.5	15.0	5.0	5.5
Merged-chr16-4939566-3	chr16	4939459	4939659	+	911.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037666)	promoter-TSS (NR_037666)	26.0	NR_037666	100503704.0	Mm.480572	NR_037666	ENSMUSG00000097397	Gm16861	-	predicted gene, 16861	ncRNA	6.5	12.0	8.5	144.0	15.0	8.5	15.5	10.0
Merged-chr1-166360360-4	chr1	166360264	166360464	+	973.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18803.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	23.5	20.0	20.5	474.5	68.0	17.0	35.0	19.0
Merged-chr16-4729209-3	chr16	4729115	4729315	+	909.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136066, intron 1 of 5)	RSINE1|SINE|B4	2854.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	14.5	7.0	7.5	115.0	9.0	2.5	8.0	13.5
Merged-chr11-80085867-4	chr11	80085760	80085960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3540.0	NM_001029856	237877.0	Mm.89551	NM_001029856	ENSMUSG00000017550	Atad5	C130052G03Rik|FRAG1|Gm17	ATPase family, AAA domain containing 5	protein-coding	51.5	59.5	37.0	769.5	92.0	19.0	44.5	39.5
Merged-chr12-25101231-4	chr12	25101134	25101334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5142.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	135.5	176.5	158.5	1992.0	236.0	80.5	104.5	115.0
Merged-chr6-131264372-4	chr6	131264274	131264474	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17012.0	NM_008462	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	9.0	9.0	10.0	185.5	18.0	13.0	17.5	29.5
Merged-chr11-98740680-4	chr11	98740572	98740772	+	840.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1113.0	NM_178060	21833.0	Mm.265917	NM_178060	ENSMUSG00000058756	Thra	6430529J03Rik|AW259572|Erba|Nr1a1|Rvr|T3R[a]|T3Ralpha|Thra1|Thra2|c-erbA-1|c-erbA-alpha|c-erbAalpha	thyroid hormone receptor alpha	protein-coding	11.5	10.0	5.0	87.0	14.5	16.0	16.5	4.5
Merged-chr9-56166365-3	chr9	56166290	56166490	+	768.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5320.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	14.0	15.0	7.5	64.5	14.5	15.5	2.5	2.0
Merged-chr6-135026391-1	chr6	135026291	135026491	+	656.5	f0_balb.idr	Intergenic	Intergenic	14779.0	NM_026360	67755.0	Mm.166524	NM_026360	ENSMUSG00000030204	Ddx47	4930588A18Rik|C77285	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	protein-coding	9.5	11.0	5.0	116.0	2.0	4.0	2.0	7.0
Merged-chr15-80219859-2	chr15	80219759	80219959	+	798.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14221.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	3.5	9.0	6.5	64.5	24.5	12.0	4.5	13.5
Merged-chr4-133570185-3	chr4	133570125	133570325	+	857.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER92B|LTR|ERV1	-4520.0	NM_172876	242691.0	Mm.40110	NM_172876	ENSMUSG00000028850	Gpatch3	D930035B09Rik|Gpatc3	G patch domain containing 3	protein-coding	15.5	17.0	10.5	66.5	6.5	3.0	3.0	4.0
Merged-chr16-30773005-4	chr16	30772882	30773082	+	894.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173259.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	32.5	20.5	15.5	199.0	47.0	22.5	19.0	14.5
Merged-chr5-21043086-4	chr5	21043007	21043207	+	911.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	ORR1F|LTR|ERVL-MaLR	-7860.0	NM_001356590	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	22.5	15.5	15.5	124.0	32.5	16.5	18.0	14.5
Merged-chr9-50553785-4	chr9	50553666	50553866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357222)	promoter-TSS (NM_001357222)	-104.0	NM_001359610	170752.0	Mm.390149	NM_133217	ENSMUSG00000032066	Bco2	B-diox-II|Bcdo2|Bcmo2|CMO2	beta-carotene oxygenase 2	protein-coding	44.0	45.5	22.0	435.0	65.0	18.5	31.0	26.5
Merged-chr2-73160950-3	chr2	73160865	73161065	+	983.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030091, intron 4 of 7)	ORR1D2|LTR|ERVL-MaLR	53482.0	NM_030091	67059.0	Mm.22661	NM_025942	ENSMUSG00000027108	Ola1	2510025G09Rik|2810405J23Rik|2810409H07Rik|Gtpbp9|PTD004	Obg-like ATPase 1	protein-coding	8.5	18.5	12.5	255.0	4.0	3.5	7.0	8.5
Merged-chr10-60832148-3	chr10	60832036	60832236	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359273)	promoter-TSS (NM_001359273)	-555.0	NM_001359273	107449.0	Mm.290433	NM_029770	ENSMUSG00000020099	Unc5b	6330415E02Rik|A630020F16|D10Bwg0792e|Unc5h2	unc-5 netrin receptor B	protein-coding	5.5	10.5	11.0	191.5	12.0	3.0	6.0	13.5
Merged-chr9-104062947-4	chr9	104062712	104062912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175324)	promoter-TSS (NM_175324)	309.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	7.5	9.5	11.5	74.5	28.5	18.0	14.0	18.5
Merged-chr1-144268175-8	chr1	144268049	144268249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-19045.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	42.5	38.5	43.5	483.5	60.0	30.5	33.0	36.5
Merged-chr5-34336969-4	chr5	34336840	34337040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304270)	promoter-TSS (NM_001304270)	8.0	NM_001304270	19822.0	Mm.21281	NM_011278	ENSMUSG00000029110	Rnf4	AU018689|Gtrgeo8|SNURF	ring finger protein 4	protein-coding	18.5	31.0	17.5	354.5	72.0	24.0	36.5	41.5
Merged-chr1-152580615-3	chr1	152580518	152580718	+	846.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	ORR1F|LTR|ERVL-MaLR	44599.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	10.0	11.5	5.5	72.0	20.0	6.5	5.5	3.5
Merged-chr10-53377209-4	chr10	53377108	53377308	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204983, intron 1 of 12)	intron (NM_001204983, intron 1 of 12)	2643.0	NM_001204983	100038725.0	Mm.441403	NM_001204983	ENSMUSG00000038594	Cep85l	Gm9766	centrosomal protein 85-like	protein-coding	4.5	18.0	6.5	93.0	38.0	14.5	16.0	13.5
Merged-chr5-140505511-4	chr5	140505425	140505625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021528)	promoter-TSS (NM_021528)	-84.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	198.0	339.0	160.5	2028.0	499.0	197.0	192.5	149.0
Merged-chr10-44005434-3	chr10	44005349	44005549	+	718.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172393)	promoter-TSS (NM_172393)	-603.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	5.0	6.0	7.5	110.5	11.0	6.5	6.0	2.0
Merged-chr3-135522127-3	chr3	135522022	135522222	+	732.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027288, intron 5 of 16)	intron (NM_027288, intron 5 of 16)	36511.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	9.0	15.0	5.0	97.5	10.5	3.0	1.0	2.0
Merged-chr11-48901057-4	chr11	48900949	48901149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024230, intron 2 of 4)	intron (NM_001024230, intron 2 of 4)	1103.0	NM_001024230	432555.0	Mm.338931	NM_001024230	ENSMUSG00000058163	Gm5431	EG432555|Irgb9b8	predicted gene 5431	protein-coding	34.5	25.0	38.5	332.0	84.0	22.5	22.0	24.5
Merged-chr10-54132845-4	chr10	54132732	54132932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56910.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	36.5	71.5	34.5	663.5	149.0	51.5	47.0	34.5
Merged-chr4-8842440-4	chr4	8842303	8842503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 18 of 36)	L1M5|LINE|L1	91079.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	32.0	33.5	21.0	366.0	135.0	58.5	59.0	58.5
Merged-chr13-91807549-6	chr13	91807427	91807627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145453, intron 1 of 5)	CpG	169.0	NM_145453	69085.0	Mm.52356	NM_145453	ENSMUSG00000021621	Zcchc9	1810019C21Rik	zinc finger, CCHC domain containing 9	protein-coding	56.5	60.0	134.5	1128.0	112.5	57.0	66.0	70.5
Merged-chr10-10429251-4	chr10	10429146	10429346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 9 of 36)	intron (NM_001127353, intron 9 of 36)	43068.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	43.0	68.5	45.0	942.0	129.5	55.0	44.0	62.5
Merged-chr8-94172608-4	chr8	94172491	94172691	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008630)	promoter-TSS (NM_008630)	-27.0	NM_008630	17750.0	Mm.147226	NM_008630	ENSMUSG00000031762	Mt2	AA409533|MT-II|Mt-2	metallothionein 2	protein-coding	22.0	26.0	22.0	287.5	50.5	27.0	12.5	22.5
Merged-chr11-54860713-4	chr11	54860597	54860797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029327)	promoter-TSS (NM_029327)	-106.0	NM_029327	75530.0	Mm.83578	NM_029327	ENSMUSG00000020268	Lyrm7	1700024C24Rik|9330147L21Rik	LYR motif containing 7	protein-coding	205.5	247.5	193.5	2285.0	454.5	183.5	183.0	152.0
Merged-chr5-5180338-3	chr5	5180236	5180436	+	905.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 5 of 14)	intron (NM_011074, intron 5 of 14)	85732.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	13.0	8.0	5.0	193.0	8.0	1.5	5.5	5.5
Merged-chr13-60491828-1	chr13	60491728	60491928	+	562.0	f0_c57.idr	Intergenic	Intergenic	-110119.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	1.0	0.0	1.0	14.5	18.0	12.0	7.5	11.0
Merged-chr17-70831815-4	chr17	70831726	70831926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	14951.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	87.0	101.5	106.5	1159.0	150.0	71.0	81.0	83.0
Merged-chr2-152363605-4	chr2	152363488	152363688	+	937.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033505, intron 2 of 4)	intron (NR_033505, intron 2 of 4)	12978.0	NM_001009948	228777.0	Mm.330667	NM_001009948	ENSMUSG00000059361	Nrsn2	Gm123|Neurensin-2	neurensin 2	protein-coding	18.0	35.5	8.5	244.5	28.5	20.0	15.0	20.0
Merged-chr3-104511964-4	chr3	104511860	104512060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310698)	promoter-TSS (NM_001310698)	-42.0	NM_001310698	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	171.5	281.0	210.5	3157.0	511.0	187.0	239.5	184.0
Merged-chr17-85562686-3	chr17	85562586	85562786	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55710.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	9.0	14.0	35.5	256.0	11.5	4.5	5.5	7.5
Merged-chr1-91755332-3	chr1	91755195	91755395	+	608.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46166.0	NM_007855	13345.0	Mm.9474	NM_007855	ENSMUSG00000007805	Twist2	Dermo1|bHLHa39	twist basic helix-loop-helix transcription factor 2	protein-coding	7.0	6.5	5.5	114.5	5.0	1.0	2.5	0.0
Merged-chr5-33820398-6	chr5	33820251	33820451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-22761.0	NM_175231	107823.0	Mm.19892	NM_175231	ENSMUSG00000057406	Nsd2	5830445G22Rik|9430010A17Rik|AW555663|C130020C13Rik|D030027O06Rik|D930023B08Rik|MMSET|Whsc1|Whsc1l|mKIAA1090	nuclear receptor binding SET domain protein 2	protein-coding	60.5	62.5	38.0	662.0	111.5	44.5	59.5	30.5
Merged-chr3-107205333-4	chr3	107205227	107205427	+	979.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	16405.0	NM_001111143	229697.0	Mm.297051	NM_001111143	ENSMUSG00000046213	Cym	Gm131	chymosin	protein-coding	7.0	16.5	3.0	274.0	39.5	15.0	20.0	20.0
Merged-chr14-52305106-4	chr14	52305030	52305230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019721)	promoter-TSS (NM_019721)	-6.0	NM_019721	56335.0	Mm.271759	NM_019721	ENSMUSG00000022160	Mettl3	2310024F18Rik|M6A|Spo8	methyltransferase like 3	protein-coding	60.5	100.0	54.5	925.0	165.5	56.5	82.0	74.5
Merged-chr17-35821655-4	chr17	35821580	35821780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133662)	promoter-TSS (NM_133662)	-33.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	153.0	328.0	167.0	1173.0	501.0	225.0	199.5	123.0
Merged-chr18-14713525-4	chr18	14713437	14713637	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360823, intron 1 of 5)	intron (NM_001360823, intron 1 of 5)	7386.0	NM_001360823	73677.0	Mm.87277	NM_001163609	ENSMUSG00000036743	Psma8	2410072D24Rik	proteasome (prosome, macropain) subunit, alpha type, 8	protein-coding	17.5	23.5	10.5	393.5	65.0	15.0	18.0	30.0
Merged-chr11-78828507-3	chr11	78828412	78828612	+	672.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001076681, intron 1 of 3)	ID_B1|SINE|B4	1917.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	8.0	7.5	0.0	66.5	14.0	5.5	4.5	5.5
Merged-chr17-53463363-4	chr17	53463255	53463455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172497)	promoter-TSS (NM_172497)	-34.0	NM_172497	211482.0	Mm.60887	NM_172497	ENSMUSG00000023931	Efhb	4921525D22Rik	EF hand domain family, member B	protein-coding	94.5	97.5	55.5	1239.0	204.0	72.0	80.0	59.5
Merged-chr1-178369469-4	chr1	178369368	178369568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31653.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	26.5	54.0	27.5	597.0	105.5	25.5	45.0	35.0
Merged-chr13-52929642-4	chr13	52929533	52929733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016709)	promoter-TSS (NM_016709)	44.0	NM_016709	11992.0	Mm.252034	NM_016709	ENSMUSG00000021460	Auh	C77140|W91705	AU RNA binding protein/enoyl-coenzyme A hydratase	protein-coding	80.0	119.0	67.0	1286.5	246.5	100.0	114.5	81.5
Merged-chr7-120917668-4	chr7	120917562	120917762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025298)	promoter-TSS (NM_025298)	-82.0	NM_025298	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	250.0	341.5	288.5	2261.0	492.0	200.0	196.5	194.0
Merged-chr16-31878754-4	chr16	31878646	31878846	+	803.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013900)	promoter-TSS (NM_013900)	-64.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	10.5	8.0	6.0	115.5	24.5	5.5	11.0	12.0
Merged-chr19-6980527-4	chr19	6980380	6980580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360286)	promoter-TSS (NM_001360286)	-16.0	NM_001166368	14227.0	Mm.4234	NM_008020	ENSMUSG00000056629	Fkbp2	mFKBP13|mFKBP2	FK506 binding protein 2	protein-coding	103.0	196.5	79.5	1036.0	320.0	191.5	161.0	152.5
Merged-chr18-64887218-4	chr18	64887097	64887297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114386)	promoter-TSS (NM_001114386)	-559.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	38.5	56.5	37.0	534.0	123.0	43.5	65.0	34.5
Merged-chr14-121987486-4	chr14	121987396	121987596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 6 of 8)	intron (NM_026861, intron 6 of 8)	-22303.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	54.0	61.0	61.5	778.0	133.5	39.0	74.5	34.0
Merged-chr9-118776762-2	chr9	118776662	118776862	+	877.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 2 of 13)	ORR1C2|LTR|ERVL-MaLR	65070.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	4.0	1.5	4.5	128.5	6.0	6.0	7.5	11.0
Merged-chr4-87812631-4	chr4	87812498	87812698	+	749.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 5 of 10)	intron (NM_027326, intron 5 of 10)	-6275.0	NM_029931	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	7.0	11.5	5.0	124.5	26.5	9.5	11.0	12.5
Merged-chr13-67683574-4	chr13	67683445	67683645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001187)	promoter-TSS (NM_001001187)	-33.0	NM_001001187	408068.0	Mm.435551	NM_175676	ENSMUSG00000048280	Zfp738	3830402I07Rik|6720487G11Rik	zinc finger protein 738	protein-coding	55.0	88.0	64.5	888.0	229.0	78.5	113.0	87.5
Merged-chr3-76025728-3	chr3	76025626	76025826	+	728.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48835.0	NM_178673	213262.0	Mm.379337	NM_178673	ENSMUSG00000034098	Fstl5	9130207J01Rik	follistatin-like 5	protein-coding	12.5	10.0	6.5	223.5	2.0	3.0	10.0	15.5
Merged-chr11-3171468-2	chr11	3171365	3171565	+	953.333374	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 6 of 32)	B1_Mur1|SINE|Alu	21998.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	29.5	15.0	27.0	328.5	0.0	0.0	0.0	1.0
Merged-chr19-46522643-4	chr19	46522564	46522764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	21016.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	128.0	164.0	125.0	1699.0	244.0	85.0	133.0	111.0
Merged-chr7-17002575-4	chr7	17002481	17002681	+	972.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7993.0	NM_001101535	434130.0	Mm.459162	NM_001101535	ENSMUSG00000041117	Ccdc8	-	coiled-coil domain containing 8	protein-coding	10.5	11.5	18.5	181.0	36.5	7.0	17.0	25.0
Merged-chr4-134799476-4	chr4	134799389	134799589	+	942.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31485.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	17.5	28.5	12.0	164.5	30.5	12.0	20.0	12.5
Merged-chr17-23677485-4	chr17	23677394	23677594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013749)	promoter-TSS (NM_013749)	-45.0	NM_013749	27279.0	Mm.28518	NM_013749	ENSMUSG00000023905	Tnfrsf12a	AI255180|C87282|Fn14|HPIP|TWEAK-R|TweakR	tumor necrosis factor receptor superfamily, member 12a	protein-coding	67.0	78.0	48.0	888.5	138.0	33.5	60.5	32.5
Merged-chr1-16329874-3	chr1	16329767	16329967	+	617.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111272, intron 11 of 12)	intron (NM_001111272, intron 11 of 12)	189248.0	NM_001347044	29819.0	Mm.216257	NM_025303	ENSMUSG00000025920	Stau2	-	staufen double-stranded RNA binding protein 2	protein-coding	4.5	5.0	9.5	83.5	27.0	1.0	3.0	5.0
Merged-chr6-50378668-4	chr6	50378563	50378763	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	intron (NM_001163645, intron 2 of 21)	4174.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	24.5	21.5	18.5	229.0	104.0	29.0	27.0	33.5
Merged-chr3-90079530-4	chr3	90079438	90079638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293749)	promoter-TSS (NM_001293749)	17.0	NM_001293749	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	184.0	328.5	167.5	3239.5	385.0	180.0	240.5	157.5
Merged-chr17-26168184-4	chr17	26168101	26168301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159598, intron 2 of 9)	ORR1B1|LTR|ERVL-MaLR	29515.0	NM_001159598	12005.0	Mm.23684	NM_009733	ENSMUSG00000024182	Axin1	AI316800|Axin|Fu|Kb|Ki|fused|kinky|knobbly	axin 1	protein-coding	36.0	28.0	32.0	777.0	28.0	19.5	27.5	35.0
Merged-chr13-51100852-7	chr13	51100733	51100933	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029463)	promoter-TSS (NR_029463)	-47.0	NM_001283028	20729.0	Mm.188432	NM_011462	ENSMUSG00000021395	Spin1	Spin	spindlin 1	protein-coding	13.5	23.5	7.5	108.5	86.5	33.5	33.5	27.0
Merged-chr15-36791827-4	chr15	36791718	36791918	+	958.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253807)	promoter-TSS (NM_001253807)	-886.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	35.5	36.0	23.5	388.5	91.5	9.0	38.0	30.0
Merged-chr1-32249778-4	chr1	32249664	32249864	+	841.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133235, intron 2 of 8)	Lx6|LINE|L1	77042.0	NM_133235	170771.0	Mm.336594	NM_133235	ENSMUSG00000026058	Khdrbs2	6330586C16Rik|Slim1|Slm-1|Slm1|TG-RP135|Tg(LRRK2*R1441G)135Cjli|mSLM-1	KH domain containing, RNA binding, signal transduction associated 2	protein-coding	12.5	9.5	7.5	151.5	19.5	9.5	3.5	24.0
Merged-chr11-46830548-4	chr11	46830443	46830643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 5 of 8)	MLTR14|LTR|ERV1	19744.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	49.5	70.0	36.0	707.0	81.5	20.5	29.0	20.5
Merged-chr1-36948124-4	chr1	36948014	36948214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-8587.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	58.0	67.5	45.5	346.0	111.5	30.5	58.5	51.0
Merged-chr9-96517654-4	chr9	96517562	96517762	+	896.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38987.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	21.5	15.0	18.0	425.0	28.0	12.0	20.5	22.5
Merged-chr5-146921422-4	chr5	146921333	146921533	+	678.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27224.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	1.5	8.5	4.5	114.0	30.0	8.5	11.5	16.0
Merged-chr5-64701946-4	chr5	64701871	64702071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A_|LTR|ERVL	-91272.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	16.5	22.0	35.0	419.5	58.5	24.5	23.5	40.0
Merged-chr19-24174188-3	chr19	24174118	24174318	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198985)	promoter-TSS (NM_001198985)	-29.0	NM_001198985	21873.0	Mm.104744	NM_011597	ENSMUSG00000024812	Tjp2	ZO-2	tight junction protein 2	protein-coding	0.0	0.0	0.5	0.5	57.5	15.0	17.5	11.0
Merged-chr6-136808847-4	chr6	136808727	136808927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177688, exon 1 of 1)	3' UTR (NM_177688, exon 1 of 1)	579.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	17.0	53.0	17.5	278.5	65.0	21.0	47.0	33.0
Merged-chr13-38037956-4	chr13	38037832	38038032	+	860.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027724)	promoter-TSS (NM_027724)	943.0	NM_024242	71340.0	Mm.297130	NM_024242	ENSMUSG00000021428	Riok1	3110046C13Rik|5430416A05Rik|Ad034	RIO kinase 1	protein-coding	8.0	12.5	8.0	113.0	34.5	3.5	7.0	15.5
Merged-chr16-92715640-4	chr16	92715537	92715737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	-18308.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	32.0	40.0	23.0	537.0	59.0	18.5	21.5	41.5
Merged-chr11-103159192-4	chr11	103159085	103159285	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11953.0	NM_001077698	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	22.0	28.0	10.5	244.5	67.5	30.0	26.0	20.5
Merged-chr7-132475258-3	chr7	132475195	132475395	+	772.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	101103.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	4.0	9.5	4.5	68.5	16.5	5.0	8.0	10.0
Merged-chr10-4433615-3	chr10	4433582	4433782	+	846.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024261, intron 1 of 4)	intron (NM_024261, intron 1 of 4)	1077.0	NM_024261	73419.0	Mm.346733	NM_024261	ENSMUSG00000061759	Armt1	1700052N19Rik|AW320013|AW536799	acidic residue methyltransferase 1	protein-coding	5.0	4.5	6.5	50.5	12.0	0.0	2.5	3.0
Merged-chr9-123851066-5	chr9	123851027	123851227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148925, intron 1 of 18)	intron (NM_148925, intron 1 of 18)	534.0	NM_148925	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	17.5	21.5	28.5	251.5	62.0	38.0	25.5	34.0
Merged-chr12-87386090-4	chr12	87386046	87386246	+	877.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011479, intron 1 of 11)	intron (NM_011479, intron 1 of 11)	2209.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	8.0	13.0	9.5	89.5	10.0	5.0	3.0	9.0
Merged-chr16-22120273-2	chr16	22120173	22120373	+	897.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	intron (NM_183029, intron 2 of 15)	43026.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	2.0	6.0	9.0	48.0	16.0	5.5	6.5	7.5
Merged-chr9-107278737-1	chr9	107278637	107278837	+	598.0	f0_c57.idr	intron (NM_001316691, intron 1 of 7)	intron (NM_001316691, intron 1 of 7)	10659.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	0.0	0.0	0.0	6.0	16.0	8.0	7.5	6.0
Merged-chr11-94601985-6	chr11	94601879	94602079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153807)	promoter-TSS (NM_153807)	-193.0	NM_153807	264895.0	Mm.386885	NM_153807	ENSMUSG00000076435	Acsf2	-	acyl-CoA synthetase family member 2	protein-coding	48.5	73.0	56.0	842.5	137.0	39.5	86.5	58.5
Merged-chr9-66831133-4	chr9	66831045	66831245	+	981.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026674, intron 2 of 5)	intron (NM_026674, intron 2 of 5)	3561.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	33.5	53.0	41.5	617.5	57.0	15.5	16.0	26.0
Merged-chr9-70585385-4	chr9	70585289	70585489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152142, intron 15 of 19)	intron (NR_152142, intron 15 of 19)	42674.0	NM_025690	66660.0	Mm.22379	NM_025690	ENSMUSG00000032212	Sltm	5730455C01Rik|5730555F13Rik|9130215G10Rik|Met	SAFB-like, transcription modulator	protein-coding	28.5	67.0	53.0	590.5	94.5	30.5	33.0	39.0
Merged-chr15-67905468-4	chr15	67905363	67905563	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	353393.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	31.5	70.5	18.5	295.0	38.5	21.5	13.5	8.5
Merged-chr3-8778896-4	chr3	8778829	8779029	+	663.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111891.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	10.0	7.5	7.0	94.0	7.5	1.5	11.5	13.5
Merged-chr17-59189751-4	chr17	59189660	59189860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-176438.0	NM_026497	67993.0	Mm.36507	NM_026497	ENSMUSG00000024228	Nudt12	0610016O18Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 12	protein-coding	32.0	67.5	37.5	529.5	45.0	27.5	31.5	12.5
Merged-chr9-89199278-4	chr9	89199182	89199382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007534)	promoter-TSS (NM_007534)	9.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	73.0	126.5	56.5	388.0	164.0	67.5	83.0	43.5
Merged-chr19-45075591-1	chr19	45075491	45075691	+	799.0	f0_balb.idr	promoter-TSS (NM_001362397)	promoter-TSS (NM_001362397)	350.0	NM_001362398	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	9.0	20.5	13.0	127.5	32.5	3.5	9.0	30.5
Merged-chr9-85327356-4	chr9	85327257	85327457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160378)	promoter-TSS (NM_001160378)	-207.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	144.5	225.5	142.0	1976.5	422.5	168.0	183.0	147.0
Merged-chr3-18613614-3	chr3	18613549	18613749	+	739.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-133172.0	NR_040544	73959.0	Mm.60616	NR_040544	ENSMUSG00000102699	4930433B08Rik	-	RIKEN cDNA 4930433B08 gene	ncRNA	5.5	12.0	13.5	40.5	3.5	8.0	8.5	5.0
Merged-chr4-105253802-4	chr4	105253716	105253916	+	946.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96469.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	12.5	22.5	12.5	160.5	52.5	11.5	31.0	14.5
Merged-chr9-107635496-4	chr9	107635391	107635591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008138)	promoter-TSS (NM_008138)	-149.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	247.0	358.0	237.5	2946.0	610.5	262.0	316.0	260.0
Merged-chr15-66820439-4	chr15	66820339	66820539	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	11390.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	22.0	32.0	34.5	319.5	67.5	20.0	27.0	24.0
Merged-chr19-29361881-4	chr19	29361782	29361982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026362)	promoter-TSS (NM_026362)	-11.0	NM_026362	67759.0	Mm.275511	NM_026362	ENSMUSG00000016495	Plgrkt	1110007H22Rik|5033414D02Rik|AI852040|Plg-R(KT)|Plg-RKT	plasminogen receptor, C-terminal lysine transmembrane protein	protein-coding	81.0	164.5	95.0	1696.5	349.0	104.5	121.0	109.5
Merged-chr5-147051065-3	chr5	147050961	147051161	+	972.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	25511.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	16.5	22.0	12.0	162.5	20.5	5.5	6.5	10.0
Merged-chr14-76909725-3	chr14	76909645	76909845	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126872.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	14.5	9.0	4.5	147.0	6.0	2.5	4.5	1.5
Merged-chr12-70999750-4	chr12	70999649	70999849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045055, intron 3 of 3)	intron (NR_045055, intron 3 of 3)	16074.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	166.0	220.5	180.0	2389.0	381.0	145.5	178.5	168.0
Merged-chr15-52953568-1	chr15	52953468	52953668	+	584.0	f0_c57.idr	Intergenic	Intergenic	241123.0	NM_027212	69790.0	Mm.195562	NM_027212	ENSMUSG00000038622	Med30	1810038N03Rik|2510044J04Rik|TRAP25|Thrap6	mediator complex subunit 30	protein-coding	5.0	5.5	2.0	144.5	11.5	10.0	17.0	6.5
Merged-chr2-71327961-4	chr2	71327887	71328087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 4 of 17)	intron (NM_172436, intron 4 of 17)	39567.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	46.5	66.0	46.5	713.5	133.5	39.0	67.0	44.0
Merged-chr19-29436913-2	chr19	29436813	29437013	+	816.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 2 of 5)	intron (NM_021396, intron 2 of 5)	25994.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	3.5	6.0	2.5	40.5	12.5	5.5	6.5	6.0
Merged-chr5-64600098-4	chr5	64599978	64600178	+	916.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045078, intron 3 of 3)	intron (NR_045078, intron 3 of 3)	10621.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	3.0	17.5	10.0	201.0	26.0	5.5	9.5	11.0
Merged-chr12-85474460-3	chr12	85474346	85474546	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010234, intron 1 of 3)	CpG	556.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	189.0	415.5	123.5	1531.0	530.5	230.0	239.5	195.0
Merged-chr6-90597675-4	chr6	90597583	90597783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356412, intron 21 of 22)	intron (NM_001356412, intron 21 of 22)	-7197.0	NM_027868	71699.0	Mm.272633	NM_027868	ENSMUSG00000030089	Slc41a3	1010001P06Rik|AI480742|SLC41A1-L2	solute carrier family 41, member 3	protein-coding	84.0	102.0	130.0	1501.5	231.5	71.0	97.5	107.5
Merged-chr14-22019606-7	chr14	22019513	22019713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028275)	promoter-TSS (NM_028275)	-99.0	NM_028275	76633.0	Mm.489898	NM_028275	ENSMUSG00000063458	Lrmda	1700112E06Rik|2700009F18Rik	leucine rich melanocyte differentiation associated	protein-coding	56.5	123.0	82.0	605.5	123.0	56.0	52.0	44.0
Merged-chr11-22858242-4	chr11	22858142	22858342	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	1493.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	48.5	82.0	37.0	502.0	73.5	49.0	34.5	22.5
Merged-chr7-27447842-4	chr7	27447746	27447946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144923)	promoter-TSS (NM_144923)	-132.0	NM_144923	233016.0	Mm.24021	NM_144923	ENSMUSG00000040466	Blvrb	-	biliverdin reductase B (flavin reductase (NADPH))	protein-coding	344.5	569.0	377.5	4641.5	964.5	393.5	467.5	377.5
Merged-chr12-101759939-4	chr12	101759837	101760037	+	948.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361987, intron 9 of 10)	intron (NM_001361987, intron 9 of 10)	-41414.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	11.0	11.0	7.5	142.0	43.0	15.5	18.0	29.0
Merged-chr5-31887728-4	chr5	31887625	31887825	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 6 of 11)	intron (NM_144541, intron 6 of 11)	189675.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	42.0	22.0	22.5	345.0	68.5	21.5	29.5	34.0
Merged-chr14-17878628-4	chr14	17878531	17878731	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-103013.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	14.5	34.0	18.5	407.5	73.0	14.0	31.0	19.0
Merged-chr4-139166416-4	chr4	139166323	139166523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	14232.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	24.0	23.0	21.0	333.0	168.5	76.0	69.5	70.5
Merged-chr4-53125276-4	chr4	53125175	53125375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	34620.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	80.5	58.0	41.5	973.5	72.5	37.0	44.5	31.0
Merged-chr1-55874928-2	chr1	55874828	55875028	+	848.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56313.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	4.0	3.5	5.0	72.5	18.0	5.0	5.5	4.5
Merged-chr1-182409047-4	chr1	182408930	182409130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173378)	promoter-TSS (NM_173378)	-137.0	NM_173378	209456.0	Mm.287450	NM_173378	ENSMUSG00000026510	Trp53bp2	53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550	transformation related protein 53 binding protein 2	protein-coding	171.0	295.0	173.5	2699.0	534.0	180.0	256.5	192.0
Merged-chr10-80752329-4	chr10	80752265	80752465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2838.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	35.5	128.5	62.0	556.0	153.0	67.0	67.5	49.0
Merged-chr18-4247477-4	chr18	4247372	4247572	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	81640.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	29.0	25.5	23.5	475.5	52.5	14.0	22.0	24.0
Merged-chr9-16237841-2	chr9	16237741	16237941	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	140390.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	3.0	1.5	5.0	106.0	12.0	7.0	7.5	5.0
Merged-chr14-21613289-3	chr14	21613176	21613376	+	933.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017479, intron 3 of 16)	intron (NM_017479, intron 3 of 16)	101300.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	11.5	15.0	16.0	238.5	16.5	6.0	16.0	5.5
Merged-chr7-84689990-4	chr7	84689900	84690100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360577)	promoter-TSS (NM_001360577)	-43.0	NM_001360582	65098.0	Mm.209349	NM_022985	ENSMUSG00000030629	Zfand6	3110005P07Rik|Awp1|Za20d3	zinc finger, AN1-type domain 6	protein-coding	230.0	397.0	232.5	3932.0	709.5	264.0	367.0	242.5
Merged-chr9-107542102-4	chr9	107541983	107542183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019720)	promoter-TSS (NM_019720)	110.0	NM_001357290	56368.0	Mm.24833	NM_019720	ENSMUSG00000037190	Cyb561d2	AW049681|Tsp10	cytochrome b-561 domain containing 2	protein-coding	37.5	47.5	39.0	410.5	65.0	34.5	40.5	37.5
Merged-chr15-96286798-4	chr15	96286682	96286882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175251)	promoter-TSS (NM_175251)	-740.0	NM_175251	77044.0	Mm.17166	NM_175251	ENSMUSG00000033237	Arid2	1700124K17Rik|4432409D24Rik|BAF200|zipzap/p200	AT rich interactive domain 2 (ARID, RFX-like)	protein-coding	103.0	178.0	87.5	1778.0	299.5	111.0	124.0	100.5
Merged-chr14-31128399-4	chr14	31128311	31128511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308091, intron 1 of 1)	intron (NM_001308091, intron 1 of 1)	519.0	NM_001308466	66487.0	Mm.379116	NM_001308091	ENSMUSG00000058351	Smim4	2010107H07Rik|Gm41122	small integral membrane protein 4	protein-coding	24.0	47.5	27.5	372.0	47.5	18.0	22.0	22.0
Merged-chr11-109370043-3	chr11	109369955	109370155	+	796.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010303, intron 2 of 3)	intron (NM_010303, intron 2 of 3)	-6401.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	7.0	10.0	2.5	74.0	21.5	5.5	6.5	8.5
Merged-chr3-52030376-3	chr3	52030310	52030510	+	834.833374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	74596.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	5.5	10.5	14.5	142.0	6.5	7.5	6.0	6.5
Merged-chr8-83739706-2	chr8	83739605	83739805	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	B1_Mur1|SINE|Alu	1606.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	9.0	21.0	10.0	97.5	22.0	8.5	9.5	12.5
Merged-chr19-37048781-3	chr19	37048667	37048867	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 9 of 10)	intron (NM_198300, intron 9 of 10)	122688.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	4.0	1.0	9.5	45.5	47.0	20.0	31.0	35.0
Merged-chr12-112873771-4	chr12	112873684	112873884	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12868.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	18.5	28.5	30.5	199.5	36.5	13.0	21.5	16.0
Merged-chr13-39011939-3	chr13	39011837	39012037	+	915.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41B|LTR|ERVL	-51062.0	NM_001170431	108652.0	Mm.255506	NM_134060	ENSMUSG00000021432	Slc35b3	4921526O06Rik|AI428480|CGI-19|PABST2|PAPST2	solute carrier family 35, member B3	protein-coding	7.0	13.5	22.5	123.5	10.0	5.0	11.0	9.5
Merged-chr15-51730970-4	chr15	51730870	51731070	+	887.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134491.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	10.0	11.5	4.0	53.0	28.5	20.5	6.5	5.0
Merged-chr3-89202885-4	chr3	89202780	89202980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008094)	promoter-TSS (NM_008094)	-45.0	NM_001077411	14466.0	Mm.5031	NM_008094	ENSMUSG00000028048	Gba	GBA1|GC|GCase|GLUC|betaGC	glucosidase, beta, acid	protein-coding	52.5	53.0	31.0	560.5	103.0	34.0	25.0	60.5
Merged-chr11-97555468-4	chr11	97555361	97555561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 1 of 19)	intron (NM_018873, intron 1 of 19)	19665.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	28.0	27.5	20.0	198.0	75.0	19.0	19.0	24.0
Merged-chr8-34965113-2	chr8	34964987	34965187	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_175091, exon 1 of 27)	exon (NM_175091, exon 1 of 27)	603.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	5.5	10.0	11.5	165.5	22.5	9.5	9.0	13.0
Merged-chr19-5366589-5	chr19	5366530	5366730	+	994.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027236)	promoter-TSS (NM_027236)	-183.0	NM_027236	69860.0	Mm.299167	NM_027236	ENSMUSG00000024841	Eif1ad	2010003J03Rik|AI131644	eukaryotic translation initiation factor 1A domain containing	protein-coding	41.0	76.5	35.0	448.5	165.0	55.5	40.0	94.5
Merged-chr19-14692355-4	chr19	14692253	14692453	+	841.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94170.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	10.5	18.5	11.0	146.5	33.5	10.5	14.5	8.5
Merged-chr8-60973656-4	chr8	60973559	60973759	+	822.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007711, intron 1 of 11)	MTC|LTR|ERVL-MaLR	9652.0	NM_173873	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	10.0	14.5	6.0	254.0	38.0	3.5	14.0	13.5
Merged-chr14-54579844-3	chr14	54579731	54579931	+	840.505554	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2170.0	NM_010590	16475.0	Mm.100253	NM_010590	ENSMUSG00000022178	Ajuba	Jub	ajuba LIM protein	protein-coding	4.0	16.0	3.5	54.0	41.5	18.0	21.0	16.0
Merged-chr12-100006960-6	chr12	100006920	100007120	+	871.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	42521.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	10.5	7.5	4.5	134.0	12.5	1.5	0.0	5.0
Merged-chr2-118562591-4	chr2	118562483	118562683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12897.0	NM_138313	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	51.0	89.0	42.5	888.0	98.0	38.5	57.5	65.5
Merged-chr7-88270716-4	chr7	88270618	88270818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7367.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	80.5	100.0	120.5	1296.0	126.0	70.5	83.0	51.0
Merged-chr14-21090543-4	chr14	21090440	21090640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243041, intron 1 of 10)	ORR1D2|LTR|ERVL-MaLR	14388.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	26.0	36.5	20.5	825.5	62.0	24.0	28.5	23.5
Merged-chr5-3195620-4	chr5	3195510	3195710	+	763.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148283.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	2.5	5.0	7.0	103.5	31.5	7.0	7.5	12.0
Merged-chr8-36149544-2	chr8	36149431	36149631	+	796.583374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-6479.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	13.5	15.0	15.5	250.5	1.0	0.5	0.0	0.0
Merged-chr11-103217871-4	chr11	103217753	103217953	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177801, intron 1 of 4)	(CACCG)n|Simple_repeat|Simple_repeat	579.0	NM_177801	328019.0	Mm.189646	NM_177801	ENSMUSG00000044787	Spata32	4933400C05Rik|VAD1.2	spermatogenesis associated 32	protein-coding	16.5	31.5	7.5	225.0	38.0	12.5	9.5	21.5
Merged-chr18-62548851-4	chr18	62548734	62548934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177829)	promoter-TSS (NM_177829)	29.0	NM_134136	107035.0	Mm.21295	NM_134136	ENSMUSG00000042211	Fbxo38	6030410I24Rik|AU044865|AW214031|Moka|SP329	F-box protein 38	protein-coding	248.0	384.5	222.5	3458.5	529.0	187.0	249.5	179.0
Merged-chr14-118947374-4	chr14	118947267	118947467	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008929, intron 1 of 11)	intron (NM_008929, intron 1 of 11)	9435.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	23.5	25.5	17.5	293.5	44.5	15.5	18.0	19.0
Merged-chr2-90903670-3	chr2	90903578	90903778	+	765.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026688, intron 2 of 6)	intron (NM_026688, intron 2 of 6)	1043.0	NM_026688	68349.0	Mm.30113	NM_026688	ENSMUSG00000005510	Ndufs3	0610010M09Rik|CI-30kD	NADH dehydrogenase (ubiquinone) Fe-S protein 3	protein-coding	15.0	6.5	12.5	200.0	17.5	7.5	2.5	5.5
Merged-chr9-114763544-2	chr9	114763444	114763644	+	588.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252479, intron 1 of 3)	intron (NM_001252479, intron 1 of 3)	18449.0	NM_133978	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	5.5	2.5	2.0	59.5	14.0	7.5	11.0	7.5
Merged-chr13-70611239-3	chr13	70611150	70611350	+	751.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144837, intron 10 of 18)	intron (NM_144837, intron 10 of 18)	26384.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	10.0	16.0	5.0	102.0	5.0	5.5	4.0	5.0
Merged-chr13-116951549-4	chr13	116951456	116951656	+	966.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	intron (NM_001081009, intron 3 of 26)	73960.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	28.5	46.5	11.5	135.0	242.0	78.0	41.0	30.5
Merged-chr4-33245099-4	chr4	33245018	33245218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033225)	TTS (NM_001033225)	3669.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	21.0	35.0	54.5	406.0	112.5	25.0	61.0	45.5
Merged-chr3-13561120-3	chr3	13561015	13561215	+	837.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357034, intron 1 of 7)	L1_Mus2|LINE|L1	88316.0	NM_001357036	76897.0	Mm.422625	NM_178631	ENSMUSG00000039717	Ralyl	0710005M24Rik	RALY RNA binding protein-like	protein-coding	6.0	5.0	6.0	137.0	10.5	6.0	12.5	6.0
Merged-chr4-120405118-4	chr4	120405000	120405200	+	772.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159630)	promoter-TSS (NM_001159630)	-181.0	NM_001159630	29871.0	Mm.427014	NM_013883	ENSMUSG00000000085	Scmh1	AI315320|AI851618|Scml1|Scml3	sex comb on midleg homolog 1	protein-coding	6.5	13.0	11.5	80.5	31.5	10.0	12.0	5.5
Merged-chr11-100355483-4	chr11	100355351	100355551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359052, intron 1 of 12)	CpG	677.0	NM_001359052	15114.0	Mm.281700	NM_010404	ENSMUSG00000006930	Hap1	HAP-1	huntingtin-associated protein 1	protein-coding	21.5	30.5	18.5	312.0	34.0	16.0	17.5	22.5
Merged-chr12-35047968-4	chr12	35047838	35048038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	749.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	68.5	87.0	80.0	1119.0	149.5	55.5	83.0	71.5
Merged-chr3-142618866-4	chr3	142618759	142618959	+	948.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010259, exon 11 of 11)	3' UTR (NM_010259, exon 11 of 11)	-1804.0	NM_010260	14469.0	Mm.24038	NM_010260	ENSMUSG00000028270	Gbp2	-	guanylate binding protein 2	protein-coding	19.0	33.0	17.5	113.0	60.0	33.0	16.0	18.5
Merged-chr12-54696937-4	chr12	54696808	54697008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	U1|snRNA|snRNA	-1014.0	NM_025456	66266.0	Mm.156440	NM_025456	ENSMUSG00000054302	Eapp	1810011O16Rik	E2F-associated phosphoprotein	protein-coding	42.0	89.0	34.5	425.5	153.0	55.5	60.5	54.5
Merged-chr1-58860866-4	chr1	58860756	58860956	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58354.0	NM_001277926	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	16.5	20.5	20.0	126.0	55.5	8.5	16.5	10.0
Merged-chr3-68691363-3	chr3	68691282	68691482	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008351)	promoter-TSS (NM_008351)	-42.0	NM_008351	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	9.0	8.0	6.0	79.0	12.0	1.0	6.0	1.0
Merged-chr15-101981144-2	chr15	101981044	101981244	+	806.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23198.0	NM_031170	16691.0	Mm.358618	NM_031170	ENSMUSG00000049382	Krt8	AA960620|AL022697|AU019895|Card2|EndoA|K8|Krt-2.8|Krt2-8	keratin 8	protein-coding	4.5	8.5	9.0	96.0	22.0	2.5	5.5	17.0
Merged-chr5-66114801-4	chr5	66114708	66114908	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-16629.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	12.5	29.5	8.5	107.0	43.0	20.0	9.5	7.0
Merged-chr5-32458949-4	chr5	32458844	32459044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172707)	promoter-TSS (NM_172707)	-26.0	NM_172707	19046.0	Mm.241931	NM_172707	ENSMUSG00000014956	Ppp1cb	1200010B19	protein phosphatase 1, catalytic subunit, beta isoform	protein-coding	340.5	512.5	478.5	4187.0	819.0	354.0	408.0	349.0
Merged-chr11-60878882-4	chr11	60878800	60879000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168507, exon 1 of 3)	5' UTR (NM_001168507, exon 1 of 3)	138.0	NM_173453	216821.0	Mm.28063	NM_173453	ENSMUSG00000043284	Tmem11	5730466P16Rik|AA409091	transmembrane protein 11	protein-coding	132.5	186.5	127.5	1813.0	299.5	116.5	140.0	109.0
Merged-chr8-41043737-4	chr8	41043619	41043819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	intron (NM_001005863, intron 5 of 13)	-1788.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	23.0	41.5	10.5	390.5	56.0	21.5	20.0	21.5
Merged-chr2-32969586-4	chr2	32969488	32969688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	6287.0	NR_002898	104367.0	Mm.250030	NR_002898	ENSMUSG00000065124	Snora65	MBII-351|Rnu65	small nucleolar RNA, H/ACA box 65	snoRNA	65.0	88.0	73.0	1354.5	172.0	51.0	68.5	81.5
Merged-chr14-25749384-3	chr14	25749287	25749487	+	923.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 2 of 3)	intron (NM_001101433, intron 2 of 3)	19469.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	9.5	29.5	11.5	129.5	33.5	6.5	5.5	5.5
Merged-chr4-145361301-4	chr4	145361205	145361405	+	823.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1B-LTR_MM|LTR|ERVK	-46158.0	NM_009401	21941.0	Mm.12810	NM_009401	ENSMUSG00000028602	Tnfrsf8	Cd30|D1S166E|Ki|Ki-1	tumor necrosis factor receptor superfamily, member 8	protein-coding	3.5	7.0	1.0	82.5	35.0	12.0	11.0	18.0
Merged-chr7-34676285-3	chr7	34676194	34676394	+	791.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175140, intron 3 of 3)	intron (NM_175140, intron 3 of 3)	-20785.0	NM_001360818	233107.0	Mm.76761	NM_146188	ENSMUSG00000030499	Kctd15	BC031749	potassium channel tetramerisation domain containing 15	protein-coding	5.0	3.5	7.0	81.0	28.5	6.0	7.0	6.5
Merged-chr17-34118223-8	chr17	34118110	34118310	+	879.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204973, intron 2 of 12)	intron (NM_001204973, intron 2 of 12)	1690.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	10.0	17.0	9.0	95.5	37.5	17.5	9.0	13.5
Merged-chr2-30587403-4	chr2	30587319	30587519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7625.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	33.5	82.0	32.0	400.5	94.0	34.5	27.0	22.5
Merged-chr11-121713755-4	chr11	121713598	121713798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 2 of 3)	intron (NM_144797, intron 2 of 3)	11271.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	24.5	30.5	19.0	456.5	63.0	11.5	20.0	18.0
Merged-chr9-44444622-4	chr9	44444511	44444711	+	909.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-3743.0	NM_001033469	382074.0	Mm.335103	NM_001033469	ENSMUSG00000074397	Foxr1	Foxn5|Gm1115	forkhead box R1	protein-coding	19.5	23.5	11.5	94.0	47.5	24.5	19.0	10.5
Merged-chr2-128762746-3	chr2	128762670	128762870	+	803.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 8 of 18)	MTD|LTR|ERVL-MaLR	-55533.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	1.0	13.0	9.0	93.0	10.5	5.0	7.5	6.0
Merged-chr12-24564599-2	chr12	24564499	24564699	+	863.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7688.0	NM_001161406	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	2.0	6.5	5.5	54.0	13.5	4.5	9.5	10.5
Merged-chr14-66230142-3	chr14	66230055	66230255	+	807.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-16331.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	8.5	7.0	19.0	101.0	9.0	13.5	7.0	5.5
Merged-chr14-61052380-4	chr14	61052274	61052474	+	952.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1-int|LTR|ERVL-MaLR	-5519.0	NM_013869	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	9.5	12.0	18.0	205.0	68.0	19.5	20.0	35.0
Merged-chr6-8508530-4	chr6	8508412	8508612	+	893.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040452, exon 2 of 2)	non-coding (NR_040452, exon 2 of 2)	649.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	8.0	14.5	9.5	177.0	35.5	4.0	10.5	19.0
Merged-chr14-47298167-4	chr14	47298047	47298247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360542)	promoter-TSS (NM_001360542)	-127.0	NM_178684	218975.0	Mm.212297	NM_178684	ENSMUSG00000021840	Mapk1ip1l	9130202B12|C130032J12Rik	mitogen-activated protein kinase 1 interacting protein 1-like	protein-coding	66.0	93.0	43.0	762.0	121.5	38.0	65.5	48.5
Merged-chr13-4618401-4	chr13	4618290	4618490	+	893.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9226.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	11.5	13.5	4.0	181.0	35.0	12.5	13.0	13.0
Merged-chr2-59121236-4	chr2	59121145	59121345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	MTE2a|LTR|ERVL-MaLR	39438.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	22.5	23.5	15.5	256.0	40.5	22.0	25.0	35.0
Merged-chr19-10944138-4	chr19	10944052	10944252	+	917.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023731, intron 2 of 3)	MIR|SINE|MIR	5114.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	11.5	17.5	5.5	125.5	35.0	15.0	27.5	15.0
Merged-chr6-47877595-4	chr6	47877524	47877724	+	978.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146175)	promoter-TSS (NM_146175)	69.0	NM_146175	101095.0	Mm.440186	NM_146175	ENSMUSG00000025821	Zfp282	AI449432|C81429|E430019K09Rik|HUB1	zinc finger protein 282	protein-coding	31.0	49.5	45.5	821.5	65.0	15.0	44.0	36.5
Merged-chr17-79713786-2	chr17	79713686	79713886	+	825.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_009994, exon 2 of 3)	exon (NM_009994, exon 2 of 3)	1255.0	NM_009994	13078.0	Mm.214016	NM_009994	ENSMUSG00000024087	Cyp1b1	CP1B|P4501b1	cytochrome P450, family 1, subfamily b, polypeptide 1	protein-coding	6.5	5.0	7.5	57.0	15.0	0.5	3.0	7.0
Merged-chr11-34063848-4	chr11	34063761	34063961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	intron (NM_010696, intron 3 of 20)	16933.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	78.5	130.5	97.5	951.5	225.5	93.0	78.0	73.0
Merged-chr13-58544229-4	chr13	58544152	58544352	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66625.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	9.0	11.5	13.5	159.5	37.0	16.0	24.0	15.0
Merged-chr11-95232140-2	chr11	95232040	95232240	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29389.0	NM_053093	93670.0	Mm.40085	NM_053093	ENSMUSG00000020872	Tac4	AW489379|PPT-C	tachykinin 4	protein-coding	9.5	7.0	3.5	75.5	13.0	4.5	7.5	16.0
Merged-chr6-113442588-4	chr6	113442500	113442700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205025)	promoter-TSS (NM_001205025)	31.0	NM_001243739	67767.0	Mm.2053	NM_026365	ENSMUSG00000051256	Jagn1	5830427H10Rik	jagunal homolog 1	protein-coding	35.5	57.5	22.0	572.5	63.0	28.5	35.0	42.5
Merged-chr7-45299951-4	chr7	45299816	45300016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17043.0	NM_001033176	76713.0	Mm.425445	NM_001033176	ENSMUSG00000070568	Slc6a21	1700039E15Rik|Gm19188	solute carrier family 6 member 21	protein-coding	28.0	58.0	31.0	477.0	68.0	36.5	45.0	43.0
Merged-chr17-86128452-4	chr17	86128350	86128550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 5 of 20)	L1MC4|LINE|L1	16725.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	111.0	187.0	140.0	2433.0	164.5	59.0	119.0	84.5
Merged-chr9-40991113-3	chr9	40991011	40991211	+	639.833313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_019465, intron 3 of 9)	intron (NM_019465, intron 3 of 9)	13517.0	NM_019465	54698.0	Mm.42791	NM_019465	ENSMUSG00000032021	Crtam	-	cytotoxic and regulatory T cell molecule	protein-coding	7.0	7.5	7.5	182.5	18.5	3.5	8.0	13.0
Merged-chr18-39650553-4	chr18	39650467	39650667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122930.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	64.0	127.5	77.5	962.5	158.5	66.0	67.5	44.0
Merged-chr4-129840254-1	chr4	129840154	129840354	+	939.0	f0_balb.idr	intron (NM_008974, intron 2 of 5)	intron (NM_008974, intron 2 of 5)	19546.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	11.5	5.5	4.5	116.0	9.0	5.0	2.5	2.5
Merged-chr5-90500960-2	chr5	90500860	90501060	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007423, intron 7 of 14)	intron (NM_007423, intron 7 of 14)	10246.0	NM_007423	11576.0	Mm.358570	NM_007423	ENSMUSG00000054932	Afp	-	alpha fetoprotein	protein-coding	11.0	8.0	3.0	121.5	21.5	6.5	7.0	9.0
Merged-chr5-118647606-4	chr5	118647529	118647729	+	931.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	86910.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	43.0	62.0	32.0	852.0	24.5	11.0	16.0	31.0
Merged-chr6-133960876-4	chr6	133960790	133960990	+	922.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74810.0	NM_001303102	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	12.0	15.0	17.5	261.0	42.0	5.0	17.5	13.5
Merged-chr1-65473346-4	chr1	65473252	65473452	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_A|LINE|L1	162095.0	NM_139270	213527.0	Mm.294225	NM_139270	ENSMUSG00000025946	Pth2r	Pthr2	parathyroid hormone 2 receptor	protein-coding	17.0	22.5	18.0	469.5	33.0	6.0	18.0	5.5
Merged-chr1-91038191-4	chr1	91038090	91038290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-15254.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	66.0	99.0	60.5	917.5	167.5	48.5	90.0	43.5
Merged-chr4-112256202-3	chr4	112256105	112256305	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177578, intron 4 of 7)	MTD|LTR|ERVL-MaLR	23960.0	NM_001102474	195564.0	Mm.259652	NM_177578	ENSMUSG00000070868	Skint3	A430090E18Rik|Skint-3	selection and upkeep of intraepithelial T cells 3	protein-coding	0.0	0.0	0.0	0.0	55.5	21.0	43.0	34.5
Merged-chr11-11658999-4	chr11	11658909	11659109	+	887.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26916.0	NM_009578	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	6.5	3.0	18.0	244.0	31.0	5.0	17.0	13.5
Merged-chr4-95162477-4	chr4	95162380	95162580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110258.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	76.0	75.5	81.0	1176.5	221.0	83.0	119.0	112.5
Merged-chr11-117334235-4	chr11	117334113	117334313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113488, intron 1 of 9)	intron (NM_001113488, intron 1 of 9)	1900.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	42.5	38.5	23.5	451.0	88.5	23.0	31.5	34.0
Merged-chr11-103409210-3	chr11	103409140	103409340	+	743.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 1 of 11)	intron (NM_183034, intron 1 of 11)	3424.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	6.5	15.0	8.0	103.5	19.0	4.5	1.5	10.5
Merged-chr17-6079811-4	chr17	6079689	6079889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181392)	promoter-TSS (NM_181392)	-39.0	NM_181392	66467.0	Mm.303441	NM_181392	ENSMUSG00000034345	Gtf2h5	2700017P07Rik|2810432H05Rik|D17Wsu155e	general transcription factor IIH, polypeptide 5	protein-coding	120.0	123.5	104.5	1367.5	330.0	127.5	132.0	172.5
Merged-chr11-87578427-4	chr11	87578321	87578521	+	909.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361936)	promoter-TSS (NM_001361936)	32.0	NM_001284398	18952.0	Mm.2214	NM_011129	ENSMUSG00000020486	Sept4	ARTS|Bh5|Pnutl2	septin 4	protein-coding	17.0	19.5	12.0	155.5	40.5	13.0	10.5	14.5
Merged-chr16-77084872-4	chr16	77084770	77084970	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 17 of 23)	intron (NM_013918, intron 17 of 23)	70801.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	16.5	25.0	15.0	190.5	47.5	24.0	25.0	24.0
Merged-chr9-85326138-4	chr9	85326040	85326240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160379, intron 2 of 2)	AT_rich|Low_complexity|Low_complexity	984.0	NM_001160378	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	46.0	27.5	42.5	456.0	136.0	37.0	59.0	46.0
Merged-chr15-102204115-4	chr15	102204029	102204229	+	942.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289695)	promoter-TSS (NM_001289695)	129.0	NM_001358674	68744.0	Mm.352945	NM_153194	ENSMUSG00000046897	Zfp740	1110034O07Rik|AW548228|Znf740	zinc finger protein 740	protein-coding	10.0	31.0	12.5	185.0	53.0	16.5	15.5	21.0
Merged-chr16-38441809-2	chr16	38441712	38441912	+	917.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	-8667.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	4.5	4.0	24.5	105.0	6.0	10.0	7.0	8.0
Merged-chr1-92957210-3	chr1	92957098	92957298	+	933.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-6608.0	NR_015525	100037260.0	Mm.442236	NR_015525	ENSMUSG00000100632	9430060I03Rik	-	RIKEN cDNA 9430060I03 gene	ncRNA	5.0	13.5	5.0	41.5	32.0	9.0	5.0	12.0
Merged-chr7-141265031-4	chr7	141265015	141265215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252600, exon 4 of 9)	exon (NM_001252600, exon 4 of 9)	1309.0	NM_001252601	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	21.5	19.5	28.0	274.5	67.0	24.5	31.0	42.5
Merged-chr10-39067160-4	chr10	39067061	39067261	+	700.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010681, intron 16 of 37)	B1F1|SINE|Alu	66739.0	NM_001359442	66337.0	Mm.45187	NM_183254	ENSMUSG00000051736	Fam229b	1700025K23Rik	family with sequence similarity 229, member B	protein-coding	4.0	7.5	5.0	141.5	27.0	9.0	12.0	19.5
Merged-chr14-73381833-4	chr14	73381707	73381907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	3482.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	88.5	86.0	116.0	2183.5	206.5	40.0	74.0	74.5
Merged-chr8-66332393-4	chr8	66332286	66332486	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 4 of 7)	Lx8b|LINE|L1	-53915.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	26.0	9.5	29.0	368.5	42.5	14.5	18.0	18.0
Merged-chr2-13270836-3	chr2	13270727	13270927	+	928.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009105, intron 2 of 8)	intron (NM_009105, intron 2 of 8)	588.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	10.5	13.0	12.0	108.0	18.5	10.5	7.0	16.5
Merged-chr11-53859302-4	chr11	53859203	53859403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033332)	promoter-TSS (NR_033332)	-47.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	60.0	59.0	43.0	521.0	130.5	47.5	59.5	42.0
Merged-chr10-40257644-4	chr10	40257538	40257738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026113)	promoter-TSS (NM_026113)	74.0	NM_001359491	67371.0	Mm.64104	NM_026113	ENSMUSG00000019837	Gtf3c6	2410016F19Rik|AU019813	general transcription factor IIIC, polypeptide 6, alpha	protein-coding	49.0	79.5	64.5	886.0	127.5	31.0	43.0	51.0
Merged-chr11-98327548-2	chr11	98327448	98327648	+	775.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_010895, exon 2 of 2)	exon (NM_010895, exon 2 of 2)	2097.0	NM_010895	18013.0	Mm.4814	NM_010895	ENSMUSG00000038255	Neurod2	Ndrf|bHLHa1	neurogenic differentiation 2	protein-coding	5.0	9.5	7.0	24.5	9.5	6.5	2.5	5.5
Merged-chr1-184728909-4	chr1	184728791	184728991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008250, intron 3 of 3)	intron (NM_008250, intron 3 of 3)	3602.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	60.0	132.5	42.0	659.0	187.5	73.5	73.0	41.5
Merged-chr3-36060334-4	chr3	36060266	36060466	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	-5613.0	NM_172678	229211.0	Mm.260997	NM_172678	ENSMUSG00000027710	Acad9	2600017P15Rik|4732402K02|C630012L17Rik|NPD002	acyl-Coenzyme A dehydrogenase family, member 9	protein-coding	13.0	12.0	18.5	189.0	20.0	2.5	6.0	6.5
Merged-chr16-24891694-4	chr16	24891651	24891851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-167888.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	103.0	135.5	91.0	1465.0	157.0	49.0	82.0	78.0
Merged-chr2-72369494-4	chr2	72369378	72369578	+	885.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 5 of 19)	intron (NM_023057, intron 5 of 19)	83777.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	11.5	6.5	11.0	206.5	20.5	9.0	12.5	14.5
Merged-chr11-106704156-4	chr11	106704050	106704250	+	968.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 2 of 14)	intron (NM_001305158, intron 2 of 14)	11131.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	22.0	30.5	19.5	178.5	59.5	22.0	10.5	14.5
Merged-chr7-107594576-4	chr7	107594466	107594666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008905)	promoter-TSS (NM_008905)	-485.0	NM_008905	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	24.5	47.0	25.0	318.5	54.5	23.0	34.0	19.5
Merged-chr2-133552165-4	chr2	133552062	133552262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007553)	promoter-TSS (NM_007553)	3.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	43.0	54.5	50.5	440.5	66.0	26.5	25.0	20.5
Merged-chr18-12729017-4	chr18	12728910	12729110	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028341, intron 9 of 13)	intron (NM_028341, intron 9 of 13)	-12345.0	NM_181731	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	15.0	32.5	46.0	501.5	120.5	40.5	57.0	82.5
Merged-chr19-43801639-4	chr19	43801535	43801735	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013806, intron 7 of 31)	intron (NM_013806, intron 7 of 31)	19327.0	NM_013806	12780.0	Mm.39054	NM_013806	ENSMUSG00000025194	Abcc2	AI173996|Abc30|Cmoat|Mrp2|cMRP	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	protein-coding	16.5	13.5	16.5	194.5	46.0	13.5	19.5	19.5
Merged-chr9-109021965-3	chr9	109021864	109022064	+	925.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 9 of 13)	intron (NR_153430, intron 9 of 13)	-16603.0	NM_001284332	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	9.0	17.5	18.0	108.0	23.0	10.5	11.0	12.5
Merged-chr8-70166891-4	chr8	70166855	70167055	+	819.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045484, intron 8 of 8)	intron (NM_001045484, intron 8 of 8)	-5453.0	NM_145597	234371.0	Mm.23488	NM_145597	ENSMUSG00000002342	Tmem161a	AI428876|BB161850|BC021367	transmembrane protein 161A	protein-coding	4.5	12.0	7.5	95.0	19.0	9.0	8.5	17.5
Merged-chr5-122154806-3	chr5	122154695	122154895	+	779.638855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3484.0	NM_013636	19047.0	Mm.280784	NM_013636	ENSMUSG00000004455	Ppp1cc	PP-1G|PP1|dis2m1	protein phosphatase 1, catalytic subunit, gamma isoform	protein-coding	1.0	10.0	1.0	66.5	33.0	7.0	9.5	10.0
Merged-chr11-98814085-4	chr11	98813985	98814185	+	807.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138660, intron 3 of 13)	HAL1M8|LINE|L1	-3996.0	NR_033551	100037262.0	Mm.442062	NR_033551	ENSMUSG00000075576	Gm12359	-	predicted gene 12359	ncRNA	8.0	22.0	8.5	208.5	18.0	2.5	11.5	13.0
Merged-chr5-99219962-2	chr5	99219863	99220063	+	547.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 13 of 13)	PB1D10|SINE|Alu	32964.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	7.0	11.0	5.0	76.5	18.5	11.0	5.5	2.5
Merged-chr4-128666589-4	chr4	128666485	128666685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	11883.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	95.5	195.5	89.5	718.0	210.0	95.5	86.0	73.0
Merged-chr14-74937094-4	chr14	74936977	74937177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	MER44D|DNA|TcMar-Tigger	10800.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	55.5	59.5	40.0	789.0	129.5	43.0	46.5	31.5
Merged-chr2-12174934-4	chr2	12174828	12175028	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 22 of 29)	intron (NM_001001309, intron 22 of 29)	-126318.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	11.0	13.0	15.0	224.0	35.5	3.5	18.5	10.0
Merged-chr19-4299758-4	chr19	4299675	4299875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	6447.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	25.0	30.5	36.0	422.0	75.5	25.0	28.5	40.5
Merged-chr2-128806782-4	chr2	128806690	128806890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11513.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	86.0	158.0	94.5	1489.0	157.0	92.0	90.0	83.0
Merged-chr17-67353098-4	chr17	67352999	67353199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	1360.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	45.0	54.5	58.5	938.0	161.0	41.5	43.0	50.5
Merged-chr5-103746935-4	chr5	103746839	103747039	+	966.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7223.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	18.5	18.0	12.0	341.5	59.0	21.0	16.5	21.0
Merged-chr14-25759842-4	chr14	25759733	25759933	+	950.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 1 of 3)	intron (NM_001101433, intron 1 of 3)	9023.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	26.5	20.5	45.5	623.0	49.5	21.5	14.0	26.5
Merged-chr3-19305642-3	chr3	19305551	19305751	+	812.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122759, intron 1 of 12)	intron (NM_001122759, intron 1 of 12)	5671.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	4.5	9.5	7.5	119.5	31.5	6.0	4.5	7.5
Merged-chr14-55713600-4	chr14	55713480	55713680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161715)	promoter-TSS (NM_001161715)	-88.0	NM_001161715	21816.0	Mm.41964	NM_019984	ENSMUSG00000022218	Tgm1	2310004J08Rik|Tgase1	transglutaminase 1, K polypeptide	protein-coding	54.5	68.5	40.5	672.5	127.5	53.5	41.5	45.0
Merged-chr6-37871492-4	chr6	37871399	37871599	+	974.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145076, intron 1 of 18)	CpG	688.0	NM_145076	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	17.5	11.0	11.0	198.5	50.5	18.5	9.0	19.0
Merged-chr13-44507254-4	chr13	44507146	44507346	+	696.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67519.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	11.0	25.0	11.0	88.0	26.0	9.5	2.0	10.0
Merged-chr8-71405984-4	chr8	71405874	71406074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172756)	promoter-TSS (NM_172756)	-38.0	NM_001310502	234396.0	Mm.216549	NM_172756	ENSMUSG00000046295	Ankle1	8430438L13Rik|Ankrd41|C430003I23|Lem3	ankyrin repeat and LEM domain containing 1	protein-coding	93.5	118.0	48.5	980.5	211.0	99.5	88.0	87.0
Merged-chr2-12115712-4	chr2	12115632	12115832	+	930.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 28 of 29)	intron (NM_001001309, intron 28 of 29)	-185514.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	11.0	13.0	16.0	319.5	41.0	8.5	20.0	22.5
Merged-chr10-21669046-4	chr10	21668917	21669117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21828.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	34.0	42.5	43.0	448.0	62.0	25.5	31.5	31.0
Merged-chr4-45487952-4	chr4	45487839	45488039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 2 of 5)	intron (NM_001033306, intron 2 of 5)	42889.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	88.5	86.5	114.5	1780.0	181.0	60.5	94.0	82.0
Merged-chr7-132358984-4	chr7	132358885	132359085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41757.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	95.0	142.0	162.5	2745.0	274.0	107.0	174.5	156.0
Merged-chr10-80695373-4	chr10	80695271	80695471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	6449.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	208.0	256.5	146.5	3557.0	396.5	140.0	194.5	173.0
Merged-chr5-76589004-1	chr5	76588904	76589104	+	1000.0	f0_c57.idr	Intergenic	CpG	-2710.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	30.5	25.0	26.5	475.5	80.0	42.5	43.0	37.5
Merged-chr14-66200001-4	chr14	66199907	66200107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 2 of 30)	intron (NM_001162366, intron 2 of 30)	13817.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	56.0	61.0	41.5	1037.5	111.5	39.5	64.0	71.5
Merged-chr5-147564375-4	chr5	147564264	147564464	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010228, exon 30 of 30)	exon (NM_010228, exon 30 of 30)	134208.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	16.0	38.5	13.0	221.0	80.0	15.5	44.0	37.5
Merged-chr17-26584607-4	chr17	26584496	26584696	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	intron (NM_026170, intron 1 of 9)	23084.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	22.5	20.5	18.0	511.5	49.0	31.0	22.0	35.0
Merged-chr4-132588675-4	chr4	132588583	132588783	+	798.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24616.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	17.5	17.0	9.5	175.0	26.0	10.5	4.0	5.0
Merged-chr4-88867580-4	chr4	88867499	88867699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12602.0	NM_177348	230405.0	Mm.246593	NM_177348	ENSMUSG00000045364	Ifne	Ifn-tau-1|Ifne1|Ifnt1|Infe1	interferon epsilon	protein-coding	19.0	22.0	18.0	392.5	59.5	20.5	34.5	24.0
Merged-chr15-36716105-8	chr15	36716008	36716208	+	989.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74824.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	5.5	17.5	2.5	86.5	41.5	24.0	21.5	18.5
Merged-chr17-50795642-4	chr17	50795543	50795743	+	884.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 17 of 21)	intron (NM_028162, intron 17 of 21)	96962.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	19.5	14.0	13.0	185.0	36.0	15.5	12.0	14.5
Merged-chr9-99353113-4	chr9	99353006	99353206	+	901.7958369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177775, intron 1 of 22)	ORR1E|LTR|ERVL-MaLR	5424.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	8.0	25.0	8.0	338.5	28.0	20.0	27.0	27.0
Merged-chr11-87462920-2	chr11	87462820	87463020	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	35329.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	17.5	28.5	16.0	158.5	37.0	8.5	25.5	8.5
Merged-chr5-88721694-4	chr5	88721578	88721778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026735, intron 1 of 5)	C-rich|Low_complexity|Low_complexity	807.0	NM_026735	68473.0	Mm.35764	NM_026735	ENSMUSG00000006262	Mob1b	1110003E08Rik|AU015450|B230364F10|Mobkl1a	MOB kinase activator 1B	protein-coding	35.5	41.5	58.0	662.0	96.5	35.0	52.5	35.0
Merged-chr1-72225996-4	chr1	72225914	72226114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-13700.0	NM_001357488	381269.0	Mm.422636	NM_001005423	ENSMUSG00000039395	Mreg	Gm974|Wdt2|dsu	melanoregulin	protein-coding	34.5	45.5	47.0	513.5	96.0	29.5	53.0	49.0
Merged-chr15-100679242-3	chr15	100679159	100679359	+	895.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 6 of 7)	intron (NM_033612, intron 6 of 7)	8661.0	NM_033612	109901.0	Mm.2131	NM_033612	ENSMUSG00000023031	Cela1	1810009A17Rik|1810062B19Rik|Ela-1|Ela1|PC-TsF	chymotrypsin-like elastase family, member 1	protein-coding	3.5	9.5	7.0	18.5	14.0	7.0	7.5	5.5
Merged-chr17-84293363-4	chr17	84293284	84293484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 29 of 37)	intron (NM_183021, intron 29 of 37)	-105437.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	22.5	27.5	26.0	519.0	47.5	6.0	30.5	21.0
Merged-chr10-34207290-4	chr10	34207143	34207343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172508, exon 1 of 6)	5' UTR (NM_172508, exon 1 of 6)	308.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	44.0	95.0	50.0	606.5	118.5	71.0	68.5	44.0
Merged-chr2-128722433-4	chr2	128722316	128722516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	23501.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	81.5	87.5	51.0	980.0	152.0	62.5	43.5	64.5
Merged-chr3-21991897-4	chr3	21991801	21992001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84751.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	38.0	64.5	59.0	946.5	159.0	38.5	64.0	50.5
Merged-chr5-92348941-4	chr5	92348802	92349002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021274)	promoter-TSS (NM_021274)	-13.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	106.5	232.5	95.0	1028.5	300.0	152.0	119.0	76.0
Merged-chr16-24625741-4	chr16	24625607	24625807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-96148.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	111.5	188.0	88.0	1283.5	236.5	78.0	74.0	85.5
Merged-chr2-28401876-4	chr2	28401777	28401977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46064.0	NM_001005420	241289.0	Mm.330095	NM_001005420	ENSMUSG00000035829	Ppp1r26	Gm347|Kiaa0649|mKIAA0649	protein phosphatase 1, regulatory subunit 26	protein-coding	25.5	47.0	30.5	392.5	77.5	24.5	25.5	37.5
Merged-chr9-104244004-4	chr9	104243889	104244089	+	857.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 2 of 56)	intron (NM_001359740, intron 2 of 56)	18941.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	8.5	26.5	11.5	156.5	24.0	9.0	11.0	9.0
Merged-chr5-98692225-1	chr5	98692125	98692325	+	841.0	f0_balb.idr	intron (NM_001024614, intron 3 of 5)	MLT1C|LTR|ERVL-MaLR	-162190.0	NM_173404	110075.0	Mm.136461	NM_173404	ENSMUSG00000029335	Bmp3	9530029I04Rik	bone morphogenetic protein 3	protein-coding	6.0	8.5	7.5	126.5	8.5	2.0	0.0	7.0
Merged-chr3-146500666-4	chr3	146500585	146500785	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027617)	promoter-TSS (NM_027617)	849.0	NM_010318	14707.0	Mm.140804	NM_010318	ENSMUSG00000068523	Gng5	G(y)5	guanine nucleotide binding protein (G protein), gamma 5	protein-coding	8.0	12.0	31.0	164.0	29.0	16.5	19.0	36.5
Merged-chr13-14039600-4	chr13	14039499	14039699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_130788)	promoter-TSS (NR_130788)	39.0	NR_130788	70430.0	Mm.260209	NM_178337	ENSMUSG00000039233	Tbce	2610206D02Rik|C530005D02Rik|pmn	tubulin-specific chaperone E	protein-coding	76.5	93.5	134.0	1356.0	142.0	70.5	73.5	86.5
Merged-chr14-33193997-4	chr14	33193893	33194093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8927.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	69.0	95.5	63.5	1380.5	169.5	73.0	77.5	76.0
Merged-chr13-99315019-4	chr13	99314909	99315109	+	934.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29669.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	19.5	28.5	17.5	321.0	54.0	19.0	13.0	18.0
Merged-chr3-57651712-4	chr3	57651604	57651804	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175095)	promoter-TSS (NM_175095)	-20.0	NM_175095	52245.0	Mm.21901	NM_175095	ENSMUSG00000036513	Commd2	1190017G07Rik|AI047739|D3Ertd176e|HSPC042	COMM domain containing 2	protein-coding	18.5	51.0	30.5	498.5	61.0	22.5	18.5	35.5
Merged-chr12-79912448-3	chr12	79912342	79912542	+	753.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12291.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	5.0	6.5	7.0	147.5	8.5	5.0	7.0	10.5
Merged-chr4-70601593-3	chr4	70601484	70601684	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66656.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	6.0	13.5	9.5	160.0	8.5	2.5	8.0	4.0
Merged-chr10-83565623-3	chr10	83565526	83565726	+	781.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033375, intron 14 of 32)	intron (NM_001033375, intron 14 of 32)	21685.0	NM_001033375	319277.0	Mm.491194	NM_001033375	ENSMUSG00000034560	Washc4	A230046K03Rik|AA589518|Kiaa1033|mKIAA1033	WASH complex subunit 4	protein-coding	11.5	13.0	9.5	173.5	29.0	7.0	6.0	5.5
Merged-chr8-35557024-4	chr8	35556929	35557129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30769.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	35.5	40.5	53.0	463.5	52.0	33.0	28.0	43.0
Merged-chr1-45902105-4	chr1	45902012	45902212	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	23482.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	36.0	33.0	49.0	720.0	47.0	16.5	25.5	20.5
Merged-chr1-172463528-4	chr1	172463427	172463627	+	961.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11833.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	15.5	11.5	29.5	307.0	55.5	25.0	27.0	35.5
Merged-chr5-43916142-4	chr5	43916057	43916257	+	814.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47348.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	14.5	23.0	6.0	82.0	18.0	6.0	9.5	5.0
Merged-chr6-136451085-4	chr6	136450988	136451188	+	975.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35519.0	NM_001201390	100502936.0	Mm.21182	NM_001201390	ENSMUSG00000045291	E330021D16Rik	C85549	RIKEN cDNA E330021D16 gene	protein-coding	12.0	8.5	13.5	320.0	43.0	11.0	19.0	22.0
Merged-chr17-28513931-4	chr17	28513849	28514049	+	998.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16912.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	32.0	22.5	26.0	329.5	47.0	8.5	22.5	30.0
Merged-chr15-38519438-4	chr15	38519330	38519530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102458)	promoter-TSS (NM_001102458)	-164.0	NM_018745	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	207.0	354.5	221.0	2734.0	656.5	205.0	312.0	196.0
Merged-chr11-74827162-4	chr11	74827050	74827250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3774.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	64.5	63.5	75.5	815.5	62.5	24.5	34.0	45.5
Merged-chr7-126482611-4	chr7	126482529	126482729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4726.0	NM_172745	233870.0	Mm.197829	NM_172745	ENSMUSG00000073838	Tufm	2300002G02Rik|C76308|C76389|EF-TuMT|EFTU	Tu translation elongation factor, mitochondrial	protein-coding	114.0	139.5	130.5	1969.0	251.5	91.5	102.5	88.5
Merged-chr15-81024041-4	chr15	81023953	81024153	+	952.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 4 of 13)	intron (NM_001082536, intron 4 of 13)	46288.0	NM_134091	105835.0	Mm.274943	NM_134091	ENSMUSG00000042303	Sgsm3	1810012I01Rik|AI428557|BB175482|Cip85|R75178|RUSC3|Rutbc3	small G protein signaling modulator 3	protein-coding	17.5	20.5	37.5	459.5	31.0	9.0	26.0	13.5
Merged-chr15-65106113-3	chr15	65106029	65106229	+	685.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-183833.0	NM_009623	11514.0	Mm.1425	NM_009623	ENSMUSG00000022376	Adcy8	AC8|AW060868	adenylate cyclase 8	protein-coding	13.5	8.5	11.5	161.0	5.5	2.0	0.0	3.5
Merged-chr11-113172650-1	chr11	113172550	113172750	+	1000.0	f0_c57.idr	intron (NR_015556, intron 1 of 2)	intron (NR_015556, intron 1 of 2)	29188.0	NR_015556	72386.0	Mm.266961	NR_015556	ENSMUSG00000087259	2610035D17Rik	-	RIKEN cDNA 2610035D17 gene	ncRNA	1.0	2.5	2.0	17.0	28.5	5.5	17.0	12.0
Merged-chr19-21467196-3	chr19	21467098	21467298	+	691.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010266, intron 1 of 13)	intron (NM_010266, intron 1 of 13)	5463.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	7.0	13.5	20.5	299.5	5.0	6.5	10.0	10.0
Merged-chr7-28376516-4	chr7	28376398	28376598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011756)	TTS (NM_011756)	2730.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	103.5	118.0	155.0	1685.5	300.0	118.0	175.0	121.0
Merged-chr15-41751619-4	chr15	41751456	41751656	+	741.924988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 3 of 17)	intron (NR_152565, intron 3 of 17)	-37439.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	10.0	4.5	8.5	134.0	16.5	4.0	2.5	12.5
Merged-chr8-11008081-7	chr8	11007964	11008164	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081212, exon 1 of 2)	exon (NM_001081212, exon 1 of 2)	214.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	20.5	34.5	31.0	420.5	20.0	17.5	19.0	23.5
Merged-chr15-88751498-4	chr15	88751394	88751594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181412)	promoter-TSS (NM_181412)	-217.0	NM_181412	223773.0	Mm.396622	NM_181412	ENSMUSG00000034333	Zbed4	1700009F06Rik	zinc finger, BED type containing 4	protein-coding	155.5	253.0	184.0	2776.5	583.0	194.5	235.5	173.5
Merged-chr3-27317047-4	chr3	27316934	27317134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009425)	promoter-TSS (NM_009425)	-43.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	61.5	85.5	41.0	1045.0	159.0	57.5	74.5	52.5
Merged-chr10-57796290-4	chr10	57796150	57796350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020561, intron 1 of 7)	intron (NM_020561, intron 1 of 7)	1706.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	22.0	26.5	28.5	327.0	44.0	24.0	21.0	29.0
Merged-chr7-132813152-4	chr7	132813035	132813235	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_212473)	promoter-TSS (NM_212473)	61.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	15.5	18.5	25.5	364.5	52.0	15.5	15.5	18.5
Merged-chr5-97959837-3	chr5	97959732	97959932	+	940.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133738, intron 12 of 16)	MLT1E2|LTR|ERVL-MaLR	71130.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	12.5	12.0	16.0	216.0	8.0	1.5	5.0	3.5
Merged-chr8-33593858-1	chr8	33593758	33593958	+	830.0	f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-5763.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	0.0	0.0	2.0	24.5	14.5	4.5	7.0	10.0
Merged-chr7-19210873-4	chr7	19210766	19210966	+	756.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-1672.0	NM_175668	319197.0	Mm.135984	NM_175668	ENSMUSG00000044317	Gpr4	-	G protein-coupled receptor 4	protein-coding	3.0	9.5	3.5	92.0	39.0	7.0	9.0	14.5
Merged-chr8-107057445-1	chr8	107057345	107057545	+	963.5	f1_balb.idr	promoter-TSS (NM_139229)	promoter-TSS (NM_139229)	568.0	NR_028367	66164.0	Mm.334789	NM_025391	ENSMUSG00000031917	Nip7	1110017C15Rik|6330509M23Rik|AA408773|AA410017|PEachy	NIP7, nucleolar pre-rRNA processing protein	protein-coding	6.0	5.0	4.5	95.0	7.0	1.5	3.5	7.5
Merged-chr10-21992154-4	chr10	21992049	21992249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161849)	promoter-TSS (NM_001161849)	-74.0	NM_001161849	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	37.5	46.5	41.0	648.0	63.0	25.0	28.5	31.0
Merged-chr9-21169095-4	chr9	21169024	21169224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	intron (NM_183408, intron 1 of 14)	3410.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	20.5	30.0	7.5	196.0	40.0	28.0	20.5	25.5
Merged-chr4-88537586-4	chr4	88537481	88537681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14787.0	NM_010510	15977.0	Mm.1245	NM_010510	ENSMUSG00000048806	Ifnb1	IFN-beta|IFNB|Ifb	interferon beta 1, fibroblast	protein-coding	95.0	106.0	102.5	1862.5	196.5	54.0	98.5	86.5
Merged-chr4-135494610-4	chr4	135494491	135494691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028995)	promoter-TSS (NM_028995)	-13.0	NM_028995	74552.0	Mm.26548	NM_028995	ENSMUSG00000028803	Nipal3	9130020G22Rik|AI480660|Npal3	NIPA-like domain containing 3	protein-coding	44.0	56.0	41.5	577.0	86.0	21.0	33.5	46.0
Merged-chr10-85957043-1	chr10	85956943	85957143	+	625.0	f0_balb.idr	intron (NM_145422, intron 1 of 11)	intron (NM_145422, intron 1 of 11)	750.0	NM_145422	28088.0	Mm.9257	NM_145422	ENSMUSG00000001783	Rtcb	AI255213|AI463255|D10Wsu52e|FAAP|HSPC117	RNA 2',3'-cyclic phosphate and 5'-OH ligase	protein-coding	2.0	5.0	10.0	78.5	15.0	4.5	8.5	6.5
Merged-chr11-96982517-4	chr11	96982368	96982568	+	889.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4780.0	NM_001080964	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	8.5	8.0	6.5	76.5	13.5	6.5	2.5	17.0
Merged-chr19-12591120-4	chr19	12591031	12591231	+	855.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015503, intron 1 of 1)	intron (NR_015503, intron 1 of 1)	5435.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	5.0	16.0	11.0	76.0	48.0	12.0	30.0	26.0
Merged-chr12-87260683-4	chr12	87260544	87260744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134044, exon 3 of 19)	exon (NM_134044, exon 3 of 19)	3600.0	NM_134044	104799.0	Mm.208750	NM_134044	ENSMUSG00000021038	Vipas39	6720456H09Rik|9330175H22Rik|AI413782|SPE-39|Spe39|Vipar|hSPE-39	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog	protein-coding	31.5	52.0	31.5	540.0	55.5	27.5	24.0	38.0
Merged-chr1-155108574-4	chr1	155108404	155108604	+	859.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8868.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	6.0	14.0	9.0	40.5	19.5	10.5	11.5	4.5
Merged-chr17-44419128-3	chr17	44419025	44419225	+	848.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	230553.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	9.5	16.0	19.5	107.0	23.5	5.0	6.0	10.5
Merged-chr12-78748836-4	chr12	78748741	78748941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019579)	promoter-TSS (NM_019579)	-106.0	NM_019579	56217.0	Mm.425777	NM_019579	ENSMUSG00000021112	Mpp5	3830420B02Rik|AI255216|AI644496|Pals1	membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)	protein-coding	299.0	490.5	278.5	4307.0	765.5	267.0	403.0	288.5
Merged-chr6-42392105-4	chr6	42391997	42392197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-8141.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	70.0	88.5	71.5	1035.5	172.0	67.0	80.5	84.0
Merged-chr9-59659545-4	chr9	59659464	59659664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253883, intron 1 of 10)	intron (NM_001253883, intron 1 of 10)	3196.0	NM_011099	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	46.5	43.0	35.0	324.0	77.5	46.5	21.5	20.0
Merged-chr16-30689852-3	chr16	30689764	30689964	+	760.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	90141.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	7.5	8.5	2.0	44.5	17.0	10.5	12.0	8.0
Merged-chr16-44757361-3	chr16	44757264	44757464	+	722.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-8372.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	11.5	9.0	12.0	198.0	12.5	3.5	4.0	5.5
Merged-chr13-95325315-6	chr13	95325211	95325411	+	936.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028106, exon 1 of 2)	5' UTR (NM_028106, exon 1 of 2)	486.0	NM_028106	72114.0	Mm.3774	NM_028106	ENSMUSG00000041995	Zbed3	0610037K01Rik|2610005H11Rik|AU018975|AU024588	zinc finger, BED type containing 3	protein-coding	12.0	12.5	8.5	300.5	23.5	11.0	14.5	15.0
Merged-chr7-126147375-4	chr7	126147273	126147473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 8 of 23)	PB1D10|SINE|Alu	53128.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	28.5	68.0	29.0	464.5	107.0	48.0	36.5	41.0
Merged-chr8-111937322-4	chr8	111937231	111937431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	-3372.0	NM_026693	93739.0	Mm.371666	NM_026693	ENSMUSG00000031950	Gabarapl2	0610012F20Rik|2900019O08Rik|AI173605|GATE-16|Gef2	gamma-aminobutyric acid (GABA) A receptor-associated protein-like 2	protein-coding	42.0	42.0	29.0	650.5	73.5	26.5	50.5	45.5
Merged-chr6-34682247-4	chr6	34682141	34682341	+	947.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 2 of 13)	intron (NM_001347100, intron 2 of 13)	-27203.0	NM_145575	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	14.5	17.0	15.0	184.5	41.0	19.5	14.0	15.5
Merged-chr2-30135086-4	chr2	30134985	30135185	+	924.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146252, intron 2 of 11)	intron (NM_146252, intron 2 of 11)	1339.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	11.5	34.5	15.0	88.0	36.5	8.0	9.0	27.0
Merged-chr2-144290533-4	chr2	144290436	144290636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B2|LTR|ERVL	19632.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	86.5	124.5	88.0	1593.0	258.0	97.5	138.5	94.0
Merged-chr13-19828272-4	chr13	19828163	19828363	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4006.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	17.5	22.0	17.0	149.0	82.5	26.5	29.0	30.5
Merged-chr1-64907915-3	chr1	64907815	64908015	+	632.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 3 of 7)	intron (NM_001039493, intron 3 of 7)	48909.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	11.0	15.5	13.5	308.0	12.0	3.0	4.0	8.5
Merged-chr12-40271406-4	chr12	40271297	40271497	+	934.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	48033.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	15.0	27.0	22.5	125.5	43.0	17.5	17.5	20.5
Merged-chr16-43381464-4	chr16	43381360	43381560	+	865.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	38736.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	17.5	7.5	24.5	261.5	22.5	6.5	5.5	14.0
Merged-chr5-45855730-4	chr5	45855615	45855815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359873, intron 1 of 4)	intron (NM_001359873, intron 1 of 4)	837.0	NM_001359872	209707.0	Mm.71498	NM_172153	ENSMUSG00000015882	Lcorl	Mlr1	ligand dependent nuclear receptor corepressor-like	protein-coding	21.0	41.0	26.0	412.5	94.0	16.5	44.0	30.5
Merged-chr17-70987001-4	chr17	70986894	70987094	+	687.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	intron (NM_023402, intron 1 of 3)	3522.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	13.5	8.5	9.0	91.0	24.5	5.5	7.5	9.5
Merged-chr1-191026270-4	chr1	191026174	191026374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198025)	promoter-TSS (NM_198025)	-84.0	NM_198025	226844.0	Mm.134053	NM_198025	ENSMUSG00000066595	Flvcr1	9630055N22Rik|FLVCR|Mfsd7b	feline leukemia virus subgroup C cellular receptor 1	protein-coding	218.5	340.5	213.5	3696.5	496.5	183.0	232.5	178.5
Merged-chr1-136117171-3	chr1	136117070	136117270	+	998.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081023, intron 40 of 43)	intron (NM_001081023, intron 40 of 43)	14013.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	4.5	17.5	2.5	65.5	59.0	20.0	21.0	26.0
Merged-chr13-69611625-4	chr13	69611526	69611726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145354)	promoter-TSS (NM_145354)	-163.0	NM_175283	78925.0	Mm.451912	NM_175283	ENSMUSG00000021594	Srd5a1	0610031P22Rik|4930435F02Rik|S5AR 1|Srd5a-1	steroid 5 alpha-reductase 1	protein-coding	520.0	741.0	471.0	6980.0	1130.5	492.5	571.5	433.0
Merged-chr18-4369318-4	chr18	4369230	4369430	+	798.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040328)	TTS (NR_040328)	-6262.0	NM_001361008	67440.0	Mm.49826	NM_026157	ENSMUSG00000024234	Mtpap	0610027A18Rik|AW551379|Papd1	mitochondrial poly(A) polymerase	protein-coding	9.5	10.5	9.0	127.0	30.0	3.5	10.5	9.5
Merged-chr9-32502621-3	chr9	32502510	32502710	+	744.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	38842.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	8.0	9.0	5.0	137.5	22.0	4.5	3.0	7.0
Merged-chr2-31025717-4	chr2	31025613	31025813	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177649)	TTS (NM_001177649)	43434.0	NM_028846	74270.0	Mm.346654	NM_028846	ENSMUSG00000026854	Usp20	1700055M05Rik|AI467231|Vdu2	ubiquitin specific peptidase 20	protein-coding	24.5	32.5	25.0	275.5	33.5	12.5	14.0	22.0
Merged-chr15-93379476-3	chr15	93379377	93379577	+	973.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	18857.0	NM_001347097	67197.0	Mm.293181	NM_026025	ENSMUSG00000022635	Zcrb1	2700088M22Rik|Madp-1	zinc finger CCHC-type and RNA binding motif 1	protein-coding	12.5	10.5	3.0	101.5	25.0	6.0	9.5	17.0
Merged-chr18-38440879-2	chr18	38440779	38440979	+	958.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	21972.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	5.0	2.0	2.0	90.5	5.0	4.5	6.0	7.5
Merged-chr19-38931511-4	chr19	38931383	38931583	+	894.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008234, exon 2 of 22)	exon (NM_008234, exon 2 of 22)	493.0	NM_008234	15201.0	Mm.57223	NM_008234	ENSMUSG00000025001	Hells	AI323785|E130115I21Rik|LSH|Lysh|PASG|YFK8	helicase, lymphoid specific	protein-coding	13.0	14.5	9.0	196.0	47.5	10.0	14.5	11.0
Merged-chr3-138527996-4	chr3	138527889	138528089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007917, intron 2 of 7)	CpG	721.0	NM_001313980	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	17.0	44.5	33.0	463.5	113.5	45.5	39.5	27.5
Merged-chr7-4528154-4	chr7	4528060	4528260	+	842.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033548, intron 4 of 11)	intron (NM_001033548, intron 4 of 11)	4282.0	NM_001033548	436022.0	Mm.425359	NM_001033548	ENSMUSG00000055809	Dnaaf3	6030429G01Rik|b2b1739Clo	dynein, axonemal assembly factor 3	protein-coding	11.5	9.5	5.5	105.5	42.5	10.0	11.5	12.5
Merged-chr12-16210744-3	chr12	16210641	16210841	+	914.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	379029.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	45.0	104.5	54.0	857.0	0.0	0.0	1.0	2.5
Merged-chr5-119240781-1	chr5	119240681	119240881	+	765.5	f0_balb.idr	Intergenic	Intergenic	-40763.0	NR_046033	665194.0	Mm.491047	NR_046033	ENSMUSG00000107334	Gm7538	EG665194	predicted gene 7538	ncRNA	17.0	15.5	10.0	121.5	0.0	0.0	0.0	0.0
Merged-chr19-4100947-3	chr19	4100904	4101104	+	912.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008851, exon 1 of 23)	5' UTR (NM_008851, exon 1 of 23)	382.0	NM_008851	18739.0	Mm.1860	NM_008851	ENSMUSG00000024851	Pitpnm1	DRES9|Mpt-1|Nir-2|PITPnm 1|Pitpnm|R75447|Rd9|RdgB|RdgB1	phosphatidylinositol transfer protein, membrane-associated 1	protein-coding	16.0	6.5	4.5	47.5	11.5	11.0	8.5	8.0
Merged-chr2-5697437-4	chr2	5697343	5697543	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	17319.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	24.0	22.0	19.0	331.5	22.5	6.5	15.0	4.0
Merged-chr1-133163913-4	chr1	133163816	133164016	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	32750.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	21.0	29.5	15.5	438.0	36.0	9.0	32.5	29.5
Merged-chr1-51518870-3	chr1	51518784	51518984	+	601.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151621, intron 3 of 3)	intron (NR_151621, intron 3 of 3)	-40485.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	6.5	5.5	5.0	86.5	6.5	3.5	5.0	2.0
Merged-chr14-70395272-4	chr14	70395154	70395354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021308, intron 15 of 22)	intron (NM_021308, intron 15 of 22)	33840.0	NM_021308	57746.0	Mm.85253	NM_021308	ENSMUSG00000033644	Piwil2	Piwil1l|mili	piwi-like RNA-mediated gene silencing 2	protein-coding	211.0	267.0	254.5	3194.5	383.5	203.0	232.0	193.5
Merged-chr17-44076192-4	chr17	44076098	44076298	+	976.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-2604.0	NM_001168620	83965.0	Mm.30145	NM_032003	ENSMUSG00000023960	Enpp5	AW061004|D17Abb1e|E-NPP 5	ectonucleotide pyrophosphatase/phosphodiesterase 5	protein-coding	26.0	19.0	16.0	247.5	115.5	50.0	45.0	53.0
Merged-chr17-62448271-4	chr17	62448193	62448393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	433024.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	19.0	51.5	23.5	587.0	36.0	3.5	19.5	18.0
Merged-chr4-53159903-4	chr4	53159821	53160021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013454)	promoter-TSS (NM_013454)	-26.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	265.5	437.5	282.0	3497.5	640.0	263.0	290.0	321.0
Merged-chr9-113727198-4	chr9	113727092	113727292	+	882.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-14281.0	NM_001286599	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	13.0	11.0	11.5	238.0	45.5	12.5	9.0	4.0
Merged-chr9-120492177-2	chr9	120492077	120492277	+	788.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026892)	promoter-TSS (NM_026892)	-429.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	7.0	5.0	6.5	48.5	14.0	2.0	5.5	10.0
Merged-chr10-21945032-4	chr10	21944956	21945156	+	956.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 2 of 13)	PB1D9|SINE|Alu	-33616.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	18.5	21.0	10.5	213.0	40.0	21.0	17.0	10.5
Merged-chr6-127143324-4	chr6	127143201	127143401	+	716.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009829, intron 3 of 4)	intron (NM_009829, intron 3 of 4)	-6088.0	NR_040274	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	11.0	22.0	10.0	61.5	20.0	2.5	9.5	9.5
Merged-chr13-13517061-3	chr13	13516935	13517135	+	879.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73374.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	9.0	5.0	3.5	112.5	9.5	17.5	11.0	11.0
Merged-chr9-55392524-3	chr9	55392430	55392630	+	782.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172923, intron 3 of 10)	intron (NM_172923, intron 3 of 10)	65617.0	NM_001357568	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	9.0	11.0	4.0	121.0	23.5	5.5	11.5	8.5
Merged-chr1-92978887-4	chr1	92978783	92978983	+	698.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022320)	promoter-TSS (NM_022320)	-20.0	NM_022320	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	12.5	11.0	2.0	97.5	14.5	8.0	12.0	12.0
Merged-chr1-77868102-4	chr1	77868013	77868213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2D|LTR|ERVL	329023.0	NM_001159520	18505.0	Mm.1371	NM_008781	ENSMUSG00000004872	Pax3	Pax-3|Sp|Splchl2|splotch	paired box 3	protein-coding	36.0	57.0	37.0	1054.5	96.5	41.0	50.0	35.0
Merged-chr7-128049002-4	chr7	128048886	128049086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-13654.0	NM_001082960	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	29.5	30.0	38.5	490.0	34.5	12.0	24.5	26.0
Merged-chr18-4348970-8	chr18	4348891	4349091	+	974.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007746, exon 2 of 8)	exon (NM_007746, exon 2 of 8)	3962.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	7.5	9.0	12.0	182.0	43.0	8.0	12.0	13.0
Merged-chr2-102940381-4	chr2	102940294	102940494	+	907.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-38729.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	14.0	7.0	7.0	230.5	32.5	11.0	7.0	5.5
Merged-chr2-119163339-4	chr2	119163234	119163434	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4454.0	NM_177157	320415.0	Mm.86373	NM_177157	ENSMUSG00000046814	Gchfr	2010323F13Rik|GFRP|P35	GTP cyclohydrolase I feedback regulator	protein-coding	41.0	19.0	25.0	373.0	22.5	6.5	6.0	13.5
Merged-chr16-35939866-4	chr16	35939775	35939975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013371)	promoter-TSS (NM_001013371)	-848.0	NM_001013371	209200.0	Mm.390852	NM_001013371	ENSMUSG00000049502	Dtx3l	AU042200|BC023741	deltex 3-like, E3 ubiquitin ligase	protein-coding	135.5	222.5	152.0	2325.0	343.0	157.5	133.0	124.0
Merged-chr2-146872908-1	chr2	146872808	146873008	+	816.333313	f0_balb.idr	intron (NM_001033298, intron 4 of 13)	intron (NM_001033298, intron 4 of 13)	17019.0	NM_001033298	228730.0	Mm.292352	NM_001033298	ENSMUSG00000074749	Kiz	Gm114|Ncrna00153|Plk1s1	kizuna centrosomal protein	protein-coding	12.0	12.5	15.0	260.0	7.0	1.5	3.5	3.5
Merged-chr17-7928032-4	chr17	7927936	7928136	+	798.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145968, intron 4 of 9)	intron (NM_145968, intron 4 of 9)	2036.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	9.0	16.5	9.0	73.0	31.5	5.0	13.5	12.5
Merged-chr16-55750201-4	chr16	55750129	55750329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71909.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	28.0	37.5	21.0	421.5	70.5	18.0	37.5	22.5
Merged-chr2-18047999-3	chr2	18047882	18048082	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028317, exon 1 of 1)	exon (NM_028317, exon 1 of 1)	467.0	NM_028317	72668.0	Mm.102183	NM_028317	ENSMUSG00000054074	Skida1	2810030E01Rik|5730507N06Rik|BB088113|DLN-1	SKI/DACH domain containing 1	protein-coding	2.5	12.5	4.0	169.0	16.5	9.5	10.5	5.5
Merged-chr7-116504269-4	chr7	116504170	116504370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130479)	promoter-TSS (NM_001130479)	-99.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	380.5	499.5	308.0	5468.5	685.0	317.5	384.5	259.5
Merged-chr4-88722440-5	chr4	88722281	88722481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172871, exon 1 of 1)	5' UTR (NM_172871, exon 1 of 1)	127.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	104.5	155.5	159.0	1531.0	227.0	97.5	103.5	127.5
Merged-chr6-72389697-4	chr6	72389605	72389805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016794, intron 1 of 2)	intron (NM_016794, intron 1 of 2)	962.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	36.5	55.0	30.5	750.5	96.0	22.5	54.5	42.5
Merged-chr11-116592598-4	chr11	116592487	116592687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1100.0	NR_033223	11298.0	Mm.42233	NM_009591	ENSMUSG00000020804	Aanat	AA-NAT|Nat-2|Nat4|Snat	arylalkylamine N-acetyltransferase	protein-coding	36.0	52.0	22.0	470.0	98.0	39.5	35.0	35.5
Merged-chr17-81636965-4	chr17	81636868	81637068	+	935.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	101419.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	12.5	21.0	32.0	871.5	41.0	13.0	26.5	39.0
Merged-chr14-121916479-4	chr14	121916377	121916577	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182806)	promoter-TSS (NM_182806)	-703.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	19.5	19.5	17.5	232.5	66.5	23.5	35.5	14.0
Merged-chr4-75463751-4	chr4	75463642	75463842	+	928.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-185450.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	17.5	13.5	14.5	356.5	38.5	12.0	18.0	13.5
Merged-chr7-135650250-4	chr7	135650118	135650318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015548, intron 2 of 2)	intron (NR_015548, intron 2 of 2)	-1681.0	NM_001316681	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	53.5	56.0	31.5	663.5	77.5	26.0	38.0	23.0
Merged-chr11-9118690-2	chr11	9118590	9118790	+	709.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159402, intron 1 of 8)	intron (NM_001159402, intron 1 of 8)	183.0	NM_001159402	22271.0	Mm.4610	NM_009477	ENSMUSG00000020407	Upp1	AI325217|UPase|UdRPase|Up|Upp	uridine phosphorylase 1	protein-coding	6.5	6.5	5.0	52.5	8.0	1.5	5.5	1.5
Merged-chr10-21200959-4	chr10	21200845	21201045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14001.0	NR_152786	102636600.0	Mm.227606	NR_152786	ENSMUSG00000111005	Gm33619	-	predicted gene, 33619	ncRNA	28.5	83.5	45.0	285.5	82.0	38.0	27.0	23.5
Merged-chr13-43787462-2	chr13	43787362	43787562	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	2350.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	9.5	5.5	4.5	52.5	14.0	8.0	7.0	5.5
Merged-chr12-75727597-4	chr12	75727497	75727697	+	878.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030750, intron 1 of 2)	intron (NM_030750, intron 1 of 2)	8132.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	17.5	13.0	17.0	304.0	27.5	7.5	8.0	15.5
Merged-chr13-97584355-4	chr13	97584259	97584459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_046157)	TTS (NR_046157)	24359.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	36.5	57.5	63.5	576.5	74.0	25.5	36.0	35.5
Merged-chr2-32834679-4	chr2	32834558	32834758	+	820.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113569, intron 1 of 19)	intron (NM_001113569, intron 1 of 19)	12574.0	NM_009295	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	9.5	9.0	4.5	168.0	21.0	7.5	11.0	4.5
Merged-chr13-49108627-4	chr13	49108515	49108715	+	893.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290313, intron 2 of 29)	intron (NM_001290313, intron 2 of 29)	39713.0	NM_029361	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	7.0	14.0	16.0	149.5	41.5	10.0	8.5	18.0
Merged-chr6-58756820-4	chr6	58756720	58756920	+	854.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74645.0	NM_001361967	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	19.5	13.0	11.0	359.5	33.0	18.0	11.0	18.5
Merged-chr16-43432232-3	chr16	43432124	43432324	+	782.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	-12028.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	11.0	12.5	10.0	125.5	15.0	4.0	10.0	5.0
Merged-chr1-160882212-3	chr1	160882118	160882318	+	911.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-24193.0	NM_001024952	381305.0	Mm.329667	NM_001024952	ENSMUSG00000040423	Rc3h1	5730557L09Rik|Gm551|N28103|mKIAA2025	RING CCCH (C3H) domains 1	protein-coding	22.0	16.5	28.0	422.5	5.0	1.0	4.0	2.5
Merged-chr9-44361247-2	chr9	44361100	44361300	+	975.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_027889, intron 1 of 15)	intron (NM_027889, intron 1 of 15)	470.0	NM_001357393	71732.0	Mm.295013	NM_027889	ENSMUSG00000032127	Vps11	1200011A11Rik	VPS11, CORVET/HOPS core subunit	protein-coding	10.5	3.0	8.5	64.0	19.0	6.0	5.0	8.0
Merged-chr8-111933785-4	chr8	111933695	111933895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033321)	promoter-TSS (NM_001033321)	18.0	NM_001357348	234740.0	Mm.87513	NM_001033321	ENSMUSG00000031951	Tmem231	4932417I16Rik|Gm178	transmembrane protein 231	protein-coding	93.0	159.0	92.5	1772.5	303.0	73.0	151.0	111.0
Merged-chr12-29713062-2	chr12	29712973	29713173	+	773.708374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001361657, intron 3 of 24)	intron (NM_001361657, intron 3 of 24)	-26628.0	NR_046080	328075.0	Mm.447832	NR_046080	ENSMUSG00000112663	C630031E19Rik	C630031E19	RIKEN cDNA C630031E19 gene	ncRNA	3.5	3.5	3.5	61.0	34.0	7.5	12.5	12.0
Merged-chr7-24399663-4	chr7	24399577	24399777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028047)	promoter-TSS (NM_028047)	49.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	157.5	254.5	166.0	2671.5	400.5	210.5	222.5	199.0
Merged-chr10-127318248-3	chr10	127318151	127318351	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3713.0	NM_001285785	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	6.5	10.5	11.0	106.5	14.0	8.5	6.5	12.5
Merged-chr2-168578225-3	chr2	168578135	168578335	+	869.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291169, intron 1 of 10)	intron (NM_001291169, intron 1 of 10)	12130.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	27.0	17.5	18.0	417.0	8.5	4.5	9.0	12.0
Merged-chr3-28781196-4	chr3	28781081	28781281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177586)	promoter-TSS (NM_177586)	-96.0	NM_177586	208691.0	Mm.193670	NM_177586	ENSMUSG00000050192	Eif5a2	9630038B20|eIF5AII	eukaryotic translation initiation factor 5A2	protein-coding	172.0	200.0	168.5	2276.0	357.0	171.0	193.0	166.5
Merged-chr5-66190580-4	chr5	66190470	66190670	+	840.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040695, intron 1 of 2)	intron (NR_040695, intron 1 of 2)	765.0	NR_040695	73639.0	Mm.48851	NR_040695	ENSMUSG00000107014	1700126H18Rik	-	RIKEN cDNA 1700126H18 gene	ncRNA	15.5	12.5	9.5	229.0	27.0	11.5	5.5	4.0
Merged-chr6-91712292-2	chr6	91712192	91712392	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	28225.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	2.5	4.0	11.5	80.5	12.0	8.5	4.5	8.0
Merged-chr11-80382969-1	chr11	80382869	80383069	+	575.0	f0_balb.idr	promoter-TSS (NM_011751)	promoter-TSS (NM_011751)	-310.0	NM_001130169	22680.0	Mm.401332	NM_011751	ENSMUSG00000017421	Zfp207	8430401D15Rik|BuGZ|Zep|Znf207	zinc finger protein 207	protein-coding	10.5	20.0	17.5	184.0	25.0	15.0	11.0	16.5
Merged-chr5-140540283-4	chr5	140540173	140540373	+	780.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24794.0	NM_030022	77998.0	Mm.160040	NM_030022	ENSMUSG00000036586	Grifin	E130101O17Rik	galectin-related inter-fiber protein	protein-coding	8.0	12.5	3.5	78.0	22.0	12.5	11.5	8.5
Merged-chr2-35257206-3	chr2	35257138	35257338	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206368, intron 1 of 16)	intron (NM_001206368, intron 1 of 16)	879.0	NM_001206368	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	7.0	9.5	5.5	53.0	4.0	2.5	3.5	2.5
Merged-chr16-49858692-4	chr16	49858599	49858799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 1 of 9)	intron (NM_010581, intron 1 of 9)	3045.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	133.5	159.5	113.5	1882.5	348.5	119.5	162.5	96.5
Merged-chr3-96770166-4	chr3	96770053	96770253	+	928.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026406, intron 3 of 8)	CT-rich|Low_complexity|Low_complexity	42542.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	20.0	10.5	25.5	186.5	70.0	16.0	13.0	26.0
Merged-chr4-106429325-4	chr4	106429247	106429447	+	931.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183225, intron 62 of 67)	intron (NM_183225, intron 62 of 67)	34978.0	NM_153565	100102.0	Mm.133268	NM_153565	ENSMUSG00000044254	Pcsk9	AI415265|AI747682|FH3|HCHOLA3|Narc1|PC9	proprotein convertase subtilisin/kexin type 9	protein-coding	34.5	22.0	48.0	541.5	31.5	8.5	20.0	14.0
Merged-chr4-33033037-3	chr4	33032926	33033126	+	751.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355494, intron 1 of 6)	intron (NM_001355494, intron 1 of 6)	1646.0	NM_001355494	56228.0	Mm.259095	NM_019586	ENSMUSG00000028277	Ube2j1	0710008M05Rik|1110030I22Rik|NCUBE-1|Ncube|Ncube1|Ubc6p	ubiquitin-conjugating enzyme E2J 1	protein-coding	9.5	6.0	16.0	212.0	6.0	6.5	2.0	12.0
Merged-chr7-46999141-4	chr7	46999007	46999207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175318, intron 2 of 5)	intron (NM_175318, intron 2 of 5)	9307.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	33.0	63.5	38.5	673.5	132.5	51.0	58.0	59.0
Merged-chr9-77936104-4	chr9	77936009	77936209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 1 of 7)	intron (NM_134255, intron 1 of 7)	18744.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	38.5	74.5	29.5	563.0	99.0	33.0	30.0	46.0
Merged-chr3-89474086-4	chr3	89474034	89474234	+	816.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	14563.0	NM_027348	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	7.5	14.0	5.5	124.5	9.5	1.0	5.5	4.0
Merged-chr19-3980535-4	chr19	3980457	3980657	+	950.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177438, intron 8 of 9)	intron (NM_001177438, intron 8 of 9)	-6013.0	NM_001302479	71670.0	Mm.29735	NM_027857	ENSMUSG00000024866	Acy3	0610006H10Rik|AA3|AAIII|AW107362|Acy-3|HCBP1	aspartoacylase (aminoacylase) 3	protein-coding	19.0	21.0	9.5	182.0	34.5	17.0	20.5	15.5
Merged-chr17-35023880-4	chr17	35023770	35023970	+	933.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347347, exon 13 of 17)	exon (NM_001347347, exon 13 of 17)	4146.0	NR_028258	78376.0	Mm.390966	NM_023893	ENSMUSG00000036185	Sapcd1	2810436B06Rik|G7d|Ng23	suppressor APC domain containing 1	protein-coding	18.5	44.5	13.0	449.5	64.5	19.0	14.0	26.0
Merged-chr9-46273107-4	chr9	46273017	46273217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011752)	promoter-TSS (NM_011752)	53.0	NM_011752	22687.0	Mm.17519	NM_011752	ENSMUSG00000032078	Zpr1	AI303781|Zfp259|Znf259	ZPR1 zinc finger	protein-coding	84.0	135.5	46.5	1027.0	214.0	74.5	95.5	87.5
Merged-chr7-49764195-4	chr7	49764130	49764330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146053, intron 3 of 5)	intron (NM_001146053, intron 3 of 5)	4718.0	NM_001146052	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	24.0	36.5	35.5	793.5	68.5	21.0	28.5	32.0
Merged-chr13-23518170-4	chr13	23518059	23518259	+	993.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Ser-TCA_|tRNA|tRNA	-12885.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	19.5	42.5	12.0	215.0	79.5	20.5	23.0	21.5
Merged-chr4-8843505-2	chr4	8843405	8843605	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 18 of 36)	intron (NM_001355382, intron 18 of 36)	92181.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	5.0	4.5	6.5	64.5	12.0	4.0	7.5	9.5
Merged-chr9-40320146-3	chr9	40320068	40320268	+	826.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	1155.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	8.0	6.0	11.5	84.5	4.0	1.5	2.5	6.0
Merged-chr15-101974680-4	chr15	101974574	101974774	+	973.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20387.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	10.0	34.5	18.5	412.5	76.0	15.0	18.0	15.5
Merged-chr13-35074264-2	chr13	35074164	35074364	+	633.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-80120.0	NM_001110331	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	8.5	7.0	5.0	50.5	8.5	7.5	5.5	4.5
Merged-chr7-75642527-4	chr7	75642416	75642616	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	186982.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	42.0	36.0	25.0	610.5	34.5	10.0	12.0	3.0
Merged-chr14-14068045-5	chr14	14068010	14068210	+	855.679993	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139227, intron 4 of 11)	intron (NM_139227, intron 4 of 11)	52794.0	NM_025550	66413.0	Mm.27591	NM_025550	ENSMUSG00000021737	Psmd6	2400006A19Rik	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	protein-coding	9.5	12.0	7.5	95.0	15.0	3.0	15.5	14.0
Merged-chr11-50026940-4	chr11	50026848	50027048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 1 of 7)	intron (NM_001290750, intron 1 of 7)	1617.0	NM_001290750	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	64.0	101.5	68.5	964.5	117.0	33.0	54.5	28.5
Merged-chr15-58616899-4	chr15	58616800	58617000	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	201432.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	52.0	36.5	56.0	682.5	81.5	16.5	32.0	37.0
Merged-chr5-53818008-4	chr5	53817888	53818088	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144517, intron 1 of 20)	intron (NM_144517, intron 1 of 20)	8361.0	NM_144517	67249.0	Mm.28823	NM_144517	ENSMUSG00000039178	Tbc1d19	2810453K03Rik	TBC1 domain family, member 19	protein-coding	6.0	15.5	14.0	170.0	53.5	6.0	8.5	17.0
Merged-chr5-86191455-1	chr5	86191355	86191555	+	624.0	f1_c57bl6.idr	intron (NM_001310653, intron 1 of 1)	intron (NM_001310653, intron 1 of 1)	6446.0	NM_001310653	14715.0	Mm.26791	NM_010323	ENSMUSG00000029255	Gnrhr	-	gonadotropin releasing hormone receptor	protein-coding	5.0	4.0	2.5	31.0	21.5	7.5	7.0	8.0
Merged-chr13-49323188-2	chr13	49323088	49323288	+	603.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13980.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	5.0	3.5	5.5	48.5	14.0	8.0	7.0	9.0
Merged-chr7-128133256-3	chr7	128133140	128133340	+	626.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021334, intron 6 of 29)	intron (NM_021334, intron 6 of 29)	3672.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	8.5	7.5	6.0	88.0	16.0	5.0	4.5	11.0
Merged-chr4-12089364-4	chr4	12089243	12089443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356563)	promoter-TSS (NM_001356563)	-27.0	NM_001356563	77604.0	Mm.474129	NM_198957	ENSMUSG00000052137	Rbm12b2	AV299215|C430048L16Rik|Rbm12bb	RNA binding motif protein 12 B2	protein-coding	88.5	136.0	74.0	1740.0	300.0	92.5	147.5	119.0
Merged-chr3-152714068-4	chr3	152713970	152714170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178016)	promoter-TSS (NM_178016)	-30.0	NM_178016	329777.0	Mm.331447	NM_025662	ENSMUSG00000039047	Pigk	3000001O05Rik|Gm38470|PIG-K	phosphatidylinositol glycan anchor biosynthesis, class K	protein-coding	111.5	169.5	75.0	1850.0	318.0	90.0	140.5	162.0
Merged-chr1-151661772-4	chr1	151661669	151661869	+	907.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 5 of 13)	intron (NM_022018, intron 5 of 13)	90396.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	27.5	17.0	15.0	263.5	38.0	7.5	18.0	7.0
Merged-chr2-160356386-4	chr2	160356297	160356497	+	871.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	10668.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	15.5	35.0	15.5	111.0	16.5	10.5	4.0	6.0
Merged-chr15-97830946-3	chr15	97830886	97831086	+	867.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204276, intron 1 of 25)	CpG	781.0	NM_019572	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	11.0	7.0	8.0	126.0	10.5	4.5	1.5	8.5
Merged-chr4-75063502-2	chr4	75063402	75063602	+	734.599976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	214790.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	2.5	4.5	4.0	86.5	10.5	10.5	7.5	6.0
Merged-chr18-84807824-4	chr18	84807729	84807929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43509.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	146.0	243.0	141.0	2364.5	345.5	108.5	166.5	149.0
Merged-chr15-9455394-4	chr15	9455304	9455504	+	824.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029341, intron 1 of 4)	intron (NM_029341, intron 1 of 4)	19376.0	NM_029341	75568.0	Mm.82143	NM_029341	ENSMUSG00000039676	Capsl	1700028N11Rik|AW125205	calcyphosine-like	protein-coding	5.0	4.0	7.0	107.0	33.0	4.5	6.5	16.5
Merged-chr12-55019553-4	chr12	55019470	55019670	+	989.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33234.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	22.5	14.5	16.5	269.5	51.0	25.5	22.0	21.5
Merged-chr18-67406582-4	chr18	67406478	67406678	+	967.654785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027130, intron 16 of 16)	MIR|SINE|MIR	15847.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	10.5	21.5	19.0	365.5	52.5	8.5	29.5	35.5
Merged-chr1-165736281-4	chr1	165736161	165736361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27497.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	60.0	73.5	80.5	1112.5	128.5	49.5	66.0	49.0
Merged-chr19-4334004-4	chr19	4333889	4334089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001984, intron 12 of 20)	intron (NM_001001984, intron 12 of 20)	-27767.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	148.5	151.5	104.5	1672.5	227.0	67.0	91.0	83.0
Merged-chr1-20820380-4	chr1	20820285	20820485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008563)	promoter-TSS (NM_008563)	-73.0	NM_008563	17215.0	Mm.4502	NM_008563	ENSMUSG00000041859	Mcm3	AL033361|C80350|Mcmd|P1|P1-MCM3|p1.m	minichromosome maintenance complex component 3	protein-coding	258.5	367.0	199.5	4141.5	619.0	246.0	274.0	219.0
Merged-chr3-109254154-4	chr3	109254055	109254255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86528.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	45.0	29.5	18.5	367.0	110.5	28.0	29.5	50.5
Merged-chr6-54974748-2	chr6	54974648	54974848	+	859.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2136.0	NM_172729	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	6.0	9.0	6.0	45.5	23.5	7.0	9.0	9.5
Merged-chr14-20112311-2	chr14	20112211	20112411	+	799.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29139.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	2.0	5.0	3.5	41.5	17.0	8.0	4.5	7.5
Merged-chr2-168574092-3	chr2	168574005	168574205	+	830.077759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291169, intron 1 of 10)	intron (NM_001291169, intron 1 of 10)	16260.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	10.5	21.5	12.0	207.0	10.0	5.5	5.0	6.0
Merged-chr2-163858705-3	chr2	163858608	163858808	+	759.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001030292, exon 2 of 2)	exon (NM_001030292, exon 2 of 2)	4958.0	NM_001030292	241769.0	Mm.295337	NM_001030292	ENSMUSG00000035238	Kcnk15	KCNK11|KCNK14|KT3.3|TASK5	potassium channel, subfamily K, member 15	protein-coding	9.5	6.0	0.0	116.5	16.5	6.0	5.5	6.5
Merged-chr4-139236241-4	chr4	139236110	139236310	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	42099.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	9.5	15.5	12.0	218.0	50.0	28.0	56.0	38.5
Merged-chr11-84129588-4	chr11	84129453	84129653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172562)	promoter-TSS (NM_172562)	15.0	NM_172562	217031.0	Mm.45159	NM_172562	ENSMUSG00000018651	Tada2a	AV319371|D030022J10Rik|Tada2l	transcriptional adaptor 2A	protein-coding	58.5	68.0	27.5	490.5	77.0	27.0	35.0	26.0
Merged-chr3-35754021-4	chr3	35753930	35754130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029570)	promoter-TSS (NM_029570)	-33.0	NR_151626	76295.0	Mm.239416	NM_029570	ENSMUSG00000037400	Atp11b	1110019I14Rik|ATPIF|ATPIR|mKIAA0956	ATPase, class VI, type 11B	protein-coding	115.5	118.0	76.5	1306.0	209.0	73.0	98.5	58.5
Merged-chr15-77772966-4	chr15	77772881	77773081	+	911.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 25 of 40)	G-rich|Low_complexity|Low_complexity	-15971.0	NM_001357895	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	21.0	9.5	9.5	259.0	38.0	11.5	13.0	10.5
Merged-chr8-105544035-4	chr8	105543984	105544184	+	782.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013477, intron 1 of 7)	intron (NM_013477, intron 1 of 7)	21980.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	10.0	11.5	4.5	93.5	19.0	3.0	4.5	10.5
Merged-chr5-64210917-4	chr5	64210778	64210978	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	RSINE1|SINE|B4	-19479.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	10.0	24.5	34.0	543.5	43.5	4.5	21.0	14.5
Merged-chr3-153917372-4	chr3	153917272	153917472	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR9A3|LTR|ERVK	-4406.0	NR_028094	19352.0	Mm.277831	NM_011231	ENSMUSG00000038975	Rabggtb	-	Rab geranylgeranyl transferase, b subunit	protein-coding	15.5	16.5	12.0	278.5	11.0	8.0	14.5	19.5
Merged-chr4-141387562-3	chr4	141387475	141387675	+	771.266663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024412, intron 16 of 19)	B3|SINE|B2	10524.0	NM_001146307	12733.0	Mm.167900	NM_024412	ENSMUSG00000033770	Clcnka	C75963|CLC-K1|Clcnk1	chloride channel, voltage-sensitive Ka	protein-coding	7.0	8.0	3.5	23.5	21.0	6.0	11.5	8.5
Merged-chr4-89310646-2	chr4	89310546	89310746	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007670, intron 1 of 1)	CpG	386.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	26.0	52.5	29.0	572.0	55.0	37.5	28.5	24.0
Merged-chr10-80933833-4	chr10	80933729	80933929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3738.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	122.5	175.0	60.5	836.0	203.5	117.0	102.5	72.0
Merged-chr15-85811358-1	chr15	85811258	85811458	+	1000.0	f1_balb.idr	intron (NM_197998, intron 1 of 4)	CpG	339.0	NM_001164626	72355.0	Mm.33706	NM_197998	ENSMUSG00000064284	Cdpf1	2210021J22Rik	cysteine rich, DPF motif domain containing 1	protein-coding	32.5	41.5	41.5	728.0	98.0	34.0	43.5	35.0
Merged-chr1-74250318-4	chr1	74250235	74250435	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 4 of 10)	intron (NM_001357387, intron 4 of 10)	13818.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	18.0	26.0	19.0	406.5	40.5	6.5	10.5	24.0
Merged-chr16-14362869-4	chr16	14362813	14363013	+	863.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 1 of 30)	intron (NM_008576, intron 1 of 30)	1355.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	14.0	10.5	8.5	128.5	27.5	15.5	16.5	8.0
Merged-chr16-4474626-4	chr16	4474492	4474692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B|LTR|ERVL	48483.0	NM_001347162	106393.0	Mm.35811	NM_175347	ENSMUSG00000022519	Srl	9830004M20Rik|AW108387|sar	sarcalumenin	protein-coding	22.5	21.0	31.5	276.5	33.0	13.0	15.5	26.0
Merged-chr5-45668491-2	chr5	45668391	45668591	+	734.333313	f1_balb.idr|f1_c57bl6.idr	TTS (NR_073433)	TTS (NR_073433)	1217.0	NR_073433	69788.0	Mm.381492	NR_073433	ENSMUSG00000104986	1600023N17Rik	AV119442	RIKEN cDNA 1600023N17 gene	ncRNA	1.5	7.5	11.0	78.0	21.0	7.5	8.5	16.5
Merged-chr9-14807437-4	chr9	14807331	14807531	+	732.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310728, intron 9 of 18)	MTC|LTR|ERVL-MaLR	22777.0	NM_018736	17535.0	Mm.149071	NM_018736	ENSMUSG00000031928	Mre11a	Mre11|Mre11b	MRE11A homolog A, double strand break repair nuclease	protein-coding	8.0	17.5	7.5	202.0	31.0	5.5	16.5	10.0
Merged-chr12-91589123-4	chr12	91589008	91589208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175335, intron 1 of 8)	intron (NM_175335, intron 1 of 8)	541.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	14.0	27.0	21.5	277.0	53.0	16.5	16.0	16.5
Merged-chr17-17619240-4	chr17	17619151	17619351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	5238.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	36.0	50.0	27.0	440.5	117.5	49.5	42.0	42.5
Merged-chr7-75822559-4	chr7	75822446	75822646	+	895.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-25792.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	8.0	16.5	8.0	231.5	27.0	6.0	5.0	15.5
Merged-chr1-128724710-4	chr1	128724598	128724798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-132399.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	111.5	123.5	188.5	2267.5	294.0	139.0	134.5	131.5
Merged-chr4-141723467-4	chr4	141723379	141723579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001017966)	promoter-TSS (NM_001017966)	-60.0	NM_001017966	68817.0	Mm.393721	NM_001017966	ENSMUSG00000078515	Ddi2	1110056G13Rik|1700027M01Rik|9130022E05Rik|AI604911|AU040698	DNA-damage inducible protein 2	protein-coding	84.5	133.5	55.0	828.0	253.0	99.0	80.0	82.0
Merged-chr4-132211669-4	chr4	132211567	132211767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145393, intron 1 of 4)	CpG-10406	589.0	NM_145393	213541.0	Mm.23998	NM_145393	ENSMUSG00000040025	Ythdf2	9430020E02Rik|HGRG8|NY-REN-2	YTH domain family 2	protein-coding	17.5	33.0	26.5	194.5	45.0	11.5	21.5	40.0
Merged-chr1-34856254-2	chr1	34856154	34856354	+	753.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	intron (NM_001357425, intron 2 of 8)	6265.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	2.0	3.5	7.0	41.0	17.5	6.0	7.5	8.0
Merged-chr14-121903946-3	chr14	121903885	121904085	+	731.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 1 of 8)	intron (NM_026861, intron 1 of 8)	11789.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	4.5	7.0	12.5	60.0	13.5	5.5	0.5	9.5
Merged-chr5-107359579-4	chr5	107359481	107359681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_054054, exon 12 of 19)	exon (NM_054054, exon 12 of 19)	28387.0	NM_054054	114642.0	Mm.182836	NM_054054	ENSMUSG00000029279	Brdt	7420412D09Rik|Brd6|Fsrg3	bromodomain, testis-specific	protein-coding	43.0	53.0	30.0	599.0	104.5	37.0	69.0	44.5
Merged-chr13-60674481-4	chr13	60674356	60674556	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	72245.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	25.0	25.0	53.0	954.0	57.5	12.5	31.0	37.5
Merged-chr8-61894214-4	chr8	61894127	61894327	+	830.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 1 of 21)	intron (NM_001293772, intron 1 of 21)	8463.0	NM_001081390	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	14.0	14.5	10.5	162.5	33.0	13.0	9.0	8.5
Merged-chr12-33035938-3	chr12	33035833	33036033	+	799.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 18 of 19)	intron (NM_001024478, intron 18 of 19)	56942.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	11.0	12.0	8.5	126.5	11.5	3.5	3.5	6.5
Merged-chr11-20691202-3	chr11	20691082	20691282	+	906.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252503, intron 7 of 7)	intron (NM_001252503, intron 7 of 7)	50374.0	NM_001290545	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	12.5	11.0	8.5	191.0	17.5	9.0	10.5	6.5
Merged-chr9-108460584-4	chr9	108460508	108460708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133744)	promoter-TSS (NM_133744)	90.0	NM_133744	72454.0	Mm.46488	NM_133744	ENSMUSG00000049305	Ccdc71	2600016J21Rik	coiled-coil domain containing 71	protein-coding	13.0	40.5	24.5	251.0	80.0	18.0	20.0	24.5
Merged-chr12-73613305-4	chr12	73613209	73613409	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	28513.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	20.0	37.0	13.5	317.0	39.0	16.5	8.0	29.0
Merged-chr11-116617849-4	chr11	116617731	116617931	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	6421.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	21.5	31.5	33.5	217.0	66.0	13.5	12.0	18.0
Merged-chr1-64543973-2	chr1	64543873	64544073	+	763.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037726, intron 1 of 6)	B2_Mm2|SINE|B2	11169.0	NM_001037726	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	5.0	3.5	5.0	60.0	19.5	10.5	9.0	6.5
Merged-chr11-24049435-4	chr11	24049335	24049535	+	746.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28621.0	NM_016707	14025.0	Mm.53687	NM_016707	ENSMUSG00000000861	Bcl11a	2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809	B cell CLL/lymphoma 11A (zinc finger protein)	protein-coding	3.0	11.0	12.5	120.0	14.5	20.0	6.5	14.5
Merged-chr8-111550389-4	chr8	111550335	111550535	+	954.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	intron (NM_001168623, intron 1 of 4)	12092.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	15.5	11.5	21.0	253.5	32.0	7.0	11.0	7.5
Merged-chr7-98360242-4	chr7	98360128	98360328	+	977.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168540, intron 1 of 2)	intron (NM_001168540, intron 1 of 2)	1060.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	33.5	35.5	26.0	233.5	56.5	14.5	15.5	22.0
Merged-chr6-57706879-2	chr6	57706779	57706979	+	744.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	intron (NM_133737, intron 1 of 8)	4424.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	12.0	8.0	4.5	36.0	12.0	7.0	7.5	8.0
Merged-chr1-39583389-4	chr1	39583298	39583498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb-int|LTR|ERVL-MaLR	-6051.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	44.0	93.5	52.5	1075.5	164.5	54.0	85.5	74.5
Merged-chr8-119817706-4	chr8	119817620	119817820	+	941.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 3 of 3)	(ACCTG)n|Simple_repeat|Simple_repeat	22859.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	13.5	11.5	18.5	478.0	48.5	14.0	24.5	16.0
Merged-chr1-138618113-4	chr1	138618020	138618220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 1 of 9)	intron (NM_021605, intron 1 of 9)	1637.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	68.0	75.5	60.5	845.0	155.5	52.5	86.5	58.5
Merged-chr4-143212660-4	chr4	143212541	143212741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081355)	promoter-TSS (NM_001081355)	68.0	NM_001081355	110593.0	Mm.332020	NM_001081355	ENSMUSG00000057637	Prdm2	4833427P12Rik|E330024L24Rik|Gm1033|Gm19732|KMT8|Riz|Riz1|Znfpr1c1	PR domain containing 2, with ZNF domain	protein-coding	22.5	50.5	39.0	590.0	81.0	33.5	34.0	43.0
Merged-chr13-119325729-4	chr13	119325613	119325813	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83298.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	8.0	5.5	22.5	133.5	13.0	5.0	5.5	7.0
Merged-chr13-55182748-4	chr13	55182632	55182832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27050.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	25.0	37.0	25.5	192.5	107.5	76.0	55.5	66.5
Merged-chr7-98535366-3	chr7	98535252	98535452	+	946.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41130.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	4.0	16.5	4.0	39.0	32.5	13.0	5.0	11.5
Merged-chr14-31272455-1	chr14	31272355	31272555	+	807.5	f0_balb.idr	intron (NM_001033668, intron 53 of 77)	(CAAAA)n|Simple_repeat|Simple_repeat	20966.0	NM_027088	104416.0	Mm.3779	NM_027088	ENSMUSG00000021901	Bap1	2300006C11Rik|AA989761|AW553466|mKIAA0272|uch-x4	Brca1 associated protein 1	protein-coding	4.0	6.5	11.0	151.0	24.0	6.0	11.0	5.5
Merged-chr10-19613389-3	chr10	19613339	19613539	+	925.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-8589.0	NM_178258	237310.0	Mm.331979	NM_178258	ENSMUSG00000039760	Il22ra2	CRF2-10|CRF2-s1|CRF2X|Il-22bp	interleukin 22 receptor, alpha 2	protein-coding	6.5	10.0	14.5	168.0	20.0	7.0	3.5	3.5
Merged-chr3-137848551-4	chr3	137848444	137848644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15943.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	103.5	96.0	107.5	1281.0	189.0	71.5	56.5	73.5
Merged-chr19-10240792-4	chr19	10240718	10240918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033481)	promoter-TSS (NM_001033481)	-70.0	NM_001033481	225908.0	Mm.329716	NM_001033481	ENSMUSG00000036098	Myrf	6030439E18|Gm1804|Gm98|Mrf	myelin regulatory factor	protein-coding	51.5	66.5	43.0	758.0	105.0	74.0	55.5	54.5
Merged-chr9-118666250-4	chr9	118666147	118666347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 8 of 27)	intron (NM_133721, intron 8 of 27)	-45445.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	203.5	275.0	249.5	3477.5	525.0	173.0	339.5	218.0
Merged-chr8-71668272-4	chr8	71668164	71668364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029873, intron 1 of 41)	intron (NM_001029873, intron 1 of 41)	3493.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	68.0	112.0	54.0	857.5	137.0	60.0	114.0	76.5
Merged-chr9-80067623-5	chr9	80067552	80067752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311110, intron 1 of 23)	CpG	749.0	NM_146003	215351.0	Mm.28232	NM_146003	ENSMUSG00000034252	Senp6	2810017C20Rik|E130319N12Rik|Susp1|mKIAA0797	SUMO/sentrin specific peptidase 6	protein-coding	24.5	38.5	50.5	350.0	57.5	25.5	17.5	24.0
Merged-chr2-27560964-4	chr2	27560879	27561079	+	916.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45832.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	20.0	29.0	14.0	272.0	29.5	3.0	10.5	11.5
Merged-chr18-36515234-2	chr18	36515134	36515334	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_010415, exon 2 of 6)	exon (NM_010415, exon 2 of 6)	571.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	16.0	38.0	27.0	234.0	92.0	33.5	17.5	18.0
Merged-chr14-55177472-4	chr14	55177373	55177573	+	781.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44534.0	NM_027790	71412.0	Mm.85484	NM_027790	ENSMUSG00000022209	Dhrs2	5430405K24Rik|Hep27	dehydrogenase/reductase member 2	protein-coding	4.0	8.5	6.0	92.5	20.0	10.0	10.0	11.5
Merged-chr8-33385642-4	chr8	33385542	33385742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098233)	promoter-TSS (NM_001098233)	-115.0	NM_011721	22427.0	Mm.228805	NM_011721	ENSMUSG00000031583	Wrn	AI846146	Werner syndrome RecQ like helicase	protein-coding	126.5	159.0	179.0	1946.5	272.0	104.5	145.5	100.5
Merged-chr2-101177982-4	chr2	101177879	101178079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-446769.0	NM_009020	19374.0	Mm.4988	NM_009020	ENSMUSG00000032864	Rag2	Rag-2	recombination activating gene 2	protein-coding	69.5	74.0	87.0	1711.0	210.0	67.5	76.0	100.5
Merged-chr5-33629771-4	chr5	33629702	33629902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178390)	promoter-TSS (NM_178390)	-167.0	NM_001359463	74504.0	Mm.294695	NM_178390	ENSMUSG00000037339	Fam53a	2410018C17Rik|5430419M09Rik|Dntnp	family with sequence similarity 53, member A	protein-coding	222.0	347.5	209.0	2986.5	598.0	259.0	244.0	183.0
Merged-chr11-115066949-4	chr11	115066850	115067050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4911.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	56.5	132.5	67.5	720.5	172.5	86.0	59.5	83.0
Merged-chr11-71230889-3	chr11	71230805	71231005	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040696)	promoter-TSS (NM_001040696)	-172.0	NM_001040696	637515.0	Mm.390402	NM_001039680	ENSMUSG00000070390	Nlrp1b	Nalp1b	NLR family, pyrin domain containing 1B	protein-coding	0.0	0.0	0.0	0.0	162.5	65.0	68.0	59.5
Merged-chr17-27552824-2	chr17	27552724	27552924	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3750.0	NM_001166536	15361.0	Mm.4438	NM_016660	ENSMUSG00000046711	Hmga1	AL023995|Hmga1a|Hmga1b|Hmgi|Hmgiy|Hmgy	high mobility group AT-hook 1	protein-coding	5.5	7.0	6.0	47.5	13.0	4.5	4.0	11.0
Merged-chr4-10983856-4	chr4	10983762	10983962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23757.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	22.0	30.0	46.5	388.5	78.0	19.5	39.0	36.5
Merged-chr8-39651913-4	chr8	39651810	39652010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-9232.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	93.0	150.5	116.5	1946.5	120.5	36.0	38.5	32.0
Merged-chr14-31593222-4	chr14	31593104	31593304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15821.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	28.5	34.5	25.5	470.5	55.5	22.5	30.5	46.5
Merged-chr3-61309389-4	chr3	61309286	61309486	+	896.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55121.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	14.0	23.5	9.0	185.0	21.5	18.0	11.5	7.5
Merged-chr9-99245593-2	chr9	99245493	99245693	+	557.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_023873, intron 1 of 17)	intron (NM_023873, intron 1 of 17)	2252.0	NM_023873	68121.0	Mm.288739	NM_023873	ENSMUSG00000056267	Cep70	6720484E09Rik|Bite|C030018L16Rik	centrosomal protein 70	protein-coding	11.0	7.0	5.0	38.5	8.0	4.0	0.0	2.5
Merged-chr5-30516573-4	chr5	30516478	30516678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028483, intron 3 of 6)	intron (NM_028483, intron 3 of 6)	29258.0	NM_028483	73259.0	Mm.443299	NM_028483	ENSMUSG00000053194	Cib4	1700041E20Rik	calcium and integrin binding family member 4	protein-coding	32.0	37.5	28.0	410.0	93.5	37.0	36.0	29.0
Merged-chr1-91458399-4	chr1	91458314	91458514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011066, intron 1 of 22)	intron (NM_011066, intron 1 of 22)	914.0	NM_011066	18627.0	Mm.482463	NM_011066	ENSMUSG00000055866	Per2	mKIAA0347|mPer2	period circadian clock 2	protein-coding	34.0	49.0	31.0	483.0	103.0	37.5	60.0	43.5
Merged-chr9-66114498-4	chr9	66114400	66114600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019727, intron 1 of 14)	intron (NM_019727, intron 1 of 14)	10386.0	NM_019727	56440.0	Mm.271891	NM_019727	ENSMUSG00000032382	Snx1	-	sorting nexin 1	protein-coding	42.0	109.0	54.5	584.0	82.5	30.5	41.0	38.5
Merged-chr15-4816978-4	chr15	4816876	4817076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81761.0	NM_001166066	223825.0	Mm.159281	NM_001166066	ENSMUSG00000022155	Mroh2b	4930455B06Rik|Heatr7b2|SPIF	maestro heat-like repeat family member 2B	protein-coding	41.0	27.0	53.0	683.0	76.5	27.0	30.5	22.0
Merged-chr17-31005073-4	chr17	31004981	31005181	+	962.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177465, intron 20 of 21)	intron (NM_177465, intron 20 of 21)	50398.0	NM_177465	52020.0	Mm.25923	NM_177465	ENSMUSG00000054134	Umodl1	D17Ertd488e	uromodulin-like 1	protein-coding	16.5	15.0	17.5	250.5	82.0	16.5	25.5	33.5
Merged-chr15-97786834-4	chr15	97786725	97786925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026353, intron 1 of 2)	intron (NM_026353, intron 1 of 2)	2460.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	89.0	126.5	109.5	647.0	216.5	92.0	48.5	47.0
Merged-chr19-8843139-4	chr19	8843050	8843250	+	940.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008144, intron 3 of 10)	intron (NM_008144, intron 3 of 10)	2647.0	NM_001290823	14705.0	Mm.345134	NM_008144	ENSMUSG00000071657	Bscl2	2900097C17Rik|AI046355|Gng3lg	Berardinelli-Seip congenital lipodystrophy 2 (seipin)	protein-coding	18.5	21.5	21.5	202.5	25.0	11.5	9.5	15.5
Merged-chr11-87423732-2	chr11	87423632	87423832	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_031386, intron 1 of 30)	intron (NM_031386, intron 1 of 30)	-3859.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	12.0	6.5	5.5	39.5	14.5	3.0	4.0	5.0
Merged-chr11-83687304-4	chr11	83687201	83687401	+	922.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16755.0	NM_001081957	100034251.0	Mm.24097	NM_001081957	ENSMUSG00000069792	Wfdc17	Amwap|Gm11428	WAP four-disulfide core domain 17	protein-coding	13.0	11.0	14.5	158.5	36.0	5.0	14.0	8.0
Merged-chr16-4079499-6	chr16	4079437	4079637	+	837.327759	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1727.0	NM_026508	68015.0	Mm.123366	NM_026508	ENSMUSG00000005981	Trap1	2410002K23Rik|HSP75	TNF receptor-associated protein 1	protein-coding	15.0	14.5	11.0	220.5	30.5	16.0	21.0	20.0
Merged-chr15-87116921-3	chr15	87116824	87117024	+	625.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-427375.0	NM_001252310	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	2.0	2.0	4.5	164.5	19.5	8.5	10.0	11.5
Merged-chr13-21750578-4	chr13	21750469	21750669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178211)	promoter-TSS (NM_178211)	-16.0	NM_178211	319160.0	Mm.255646	NM_178211	ENSMUSG00000064288	Hist1h4k	-	histone cluster 1, H4k	protein-coding	22.5	30.5	21.5	325.5	66.0	32.5	33.5	25.5
Merged-chr3-38433722-4	chr3	38433605	38433805	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51111.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	14.0	21.5	19.5	336.5	63.0	18.0	22.5	13.0
Merged-chr14-31196151-3	chr14	31196045	31196245	+	887.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 3 of 13)	B2_Mm2|SINE|B2	10681.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	14.5	9.5	5.5	85.0	20.0	4.5	19.0	13.0
Merged-chr5-23419414-3	chr5	23419302	23419502	+	655.6190190000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14951.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	8.0	7.5	11.0	129.5	17.5	8.0	7.5	8.5
Merged-chr10-37136556-2	chr10	37136456	37136656	+	983.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008538, exon 2 of 2)	exon (NM_008538, exon 2 of 2)	2370.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.0	11.0	10.5	86.5	18.0	10.0	4.0	11.5
Merged-chr8-124896922-4	chr8	124896835	124897035	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111141)	promoter-TSS (NM_001111141)	770.0	NM_198103	102058.0	Mm.347360	NM_198103	ENSMUSG00000074030	Exoc8	AI414418|EXO84|Exo84p|R74783|SEC84	exocyst complex component 8	protein-coding	9.0	13.0	22.5	206.0	21.5	14.0	10.0	16.5
Merged-chr10-98776840-4	chr10	98776763	98776963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-137779.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	37.0	57.0	56.0	954.0	123.0	37.5	48.5	39.0
Merged-chr8-73324512-4	chr8	73324401	73324601	+	900.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	intron (NM_010687, intron 1 of 14)	29039.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	4.0	5.5	11.0	130.5	25.5	6.0	15.0	21.5
Merged-chr6-124829099-4	chr6	124829018	124829218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013700, intron 1 of 19)	intron (NM_013700, intron 1 of 19)	366.0	NM_001326594	22225.0	Mm.3571	NM_013700	ENSMUSG00000038429	Usp5	AA407472|ISOT|ISOT-1|Ucht	ubiquitin specific peptidase 5 (isopeptidase T)	protein-coding	208.0	338.5	202.5	2868.5	485.5	237.5	270.5	212.0
Merged-chr8-88653519-3	chr8	88653424	88653624	+	655.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 2 of 12)	intron (NM_145857, intron 2 of 12)	6177.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	5.5	2.0	4.0	125.0	29.0	9.5	5.5	4.5
Merged-chr18-74213068-3	chr18	74212960	74213160	+	757.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30E_MM|LTR|ERV1	-3152.0	NM_028868	74322.0	Mm.17537	NM_028868	ENSMUSG00000024560	Cxxc1	2410002I16Rik|5830420C16Rik|AI426635|Cfp1|Cgbp|PHF18	CXXC finger 1 (PHD domain)	protein-coding	6.0	10.5	6.5	76.5	25.0	8.0	8.5	2.0
Merged-chr8-94093081-3	chr8	94092982	94093182	+	948.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026116, intron 1 of 16)	intron (NM_026116, intron 1 of 16)	5729.0	NM_026116	67378.0	Mm.292107	NM_026116	ENSMUSG00000031755	Bbs2	2410125H22Rik|AI447581	Bardet-Biedl syndrome 2 (human)	protein-coding	14.0	10.0	12.0	323.5	12.0	7.0	8.0	7.0
Merged-chr11-60333338-3	chr11	60333255	60333455	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359810, intron 1 of 12)	intron (NM_001359810, intron 1 of 12)	19550.0	NM_153080	216810.0	Mm.218875	NM_153080	ENSMUSG00000000538	Tom1l2	2900016I08Rik|A730055F12Rik|AU042072|Srebf1	target of myb1-like 2 (chicken)	protein-coding	6.5	7.5	6.5	145.5	28.0	1.5	19.0	7.5
Merged-chr9-53633639-4	chr9	53633553	53633753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161618, intron 9 of 17)	intron (NM_001161618, intron 9 of 17)	-23303.0	NM_144784	110446.0	Mm.293233	NM_144784	ENSMUSG00000032047	Acat1	6330585C21Rik|Acat	acetyl-Coenzyme A acetyltransferase 1	protein-coding	32.5	38.5	59.5	660.0	117.0	29.0	53.0	42.0
Merged-chr15-103182314-4	chr15	103182211	103182411	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-19027.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	17.5	19.5	13.5	164.0	44.0	13.0	18.5	18.0
Merged-chr5-147459941-4	chr5	147459847	147460047	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 4 of 18)	intron (NM_028291, intron 4 of 18)	29791.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	27.5	12.5	14.0	367.0	41.5	12.5	24.5	30.0
Merged-chr8-115046627-4	chr8	115046544	115046744	+	906.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 8 of 8)	intron (NM_019573, intron 8 of 8)	606992.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	15.5	16.0	10.5	296.0	42.5	10.5	19.0	15.5
Merged-chr8-46936152-4	chr8	46935972	46936172	+	878.034058	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50815.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	9.5	6.0	5.5	57.5	13.5	10.5	5.0	6.5
Merged-chr7-44895948-7	chr7	44895845	44896045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027376)	promoter-TSS (NM_027376)	-134.0	NM_027376	70300.0	Mm.276298	NM_027376	ENSMUSG00000011658	Fuz	2600013E07Rik|b2b1273Clo	fuzzy planar cell polarity protein	protein-coding	38.5	64.5	65.5	520.5	106.0	59.5	42.5	68.5
Merged-chr6-87027211-4	chr6	87027113	87027313	+	876.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020045, intron 7 of 7)	intron (NM_020045, intron 7 of 7)	-15633.0	NM_013528	14583.0	Mm.19893	NM_013528	ENSMUSG00000029992	Gfpt1	2810423A18Rik|AI324119|AI449986|GFA|GFAT|GFAT1|GFAT1m|Gfpt	glutamine fructose-6-phosphate transaminase 1	protein-coding	6.0	21.0	27.5	243.5	37.0	5.5	7.0	14.0
Merged-chr17-71161756-4	chr17	71161635	71161835	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IMPB_01|Satellite|Satellite	-21797.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	14.5	9.5	12.5	147.5	21.5	4.5	11.5	15.0
Merged-chr9-71834921-4	chr9	71834808	71835008	+	634.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	61188.0	NM_001253864	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	12.0	9.5	4.5	89.0	9.0	8.0	12.5	9.0
Merged-chr4-141790064-2	chr4	141790006	141790206	+	803.416626	f0_balb.idr|f1_c57bl6.idr	intron (NM_172338, intron 1 of 14)	intron (NM_172338, intron 1 of 14)	538.0	NM_172338	214063.0	Mm.39102	NM_172338	ENSMUSG00000040697	Dnajc16	2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962	DnaJ heat shock protein family (Hsp40) member C16	protein-coding	14.0	7.0	5.0	82.0	10.5	6.5	3.5	7.5
Merged-chr2-61593083-4	chr2	61592988	61593188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164071)	promoter-TSS (NM_001164071)	-9.0	NR_149324	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	156.5	269.0	156.5	2287.5	451.5	182.5	211.5	181.5
Merged-chr10-4174956-3	chr10	4174845	4175045	+	896.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38175.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	13.0	21.5	20.0	339.5	0.5	0.0	2.0	2.5
Merged-chr19-10287596-3	chr19	10287499	10287699	+	899.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	MLTR14|LTR|ERV1	17278.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	3.0	11.5	7.0	158.5	14.5	5.5	6.0	7.0
Merged-chr6-34368118-4	chr6	34368011	34368211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008012, intron 9 of 9)	intron (NM_008012, intron 9 of 9)	13965.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	143.5	105.0	86.0	1896.0	236.5	61.0	79.0	92.0
Merged-chr19-4163377-4	chr19	4163300	4163500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021485)	promoter-TSS (NM_021485)	-17.0	NR_153659	58988.0	Mm.271937	NM_021485	ENSMUSG00000024830	Rps6kb2	S6K-beta-2|S6K2	ribosomal protein S6 kinase, polypeptide 2	protein-coding	30.0	58.0	48.5	521.0	94.0	31.0	29.0	40.0
Merged-chr4-3574907-4	chr4	3574828	3575028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054089)	promoter-TSS (NM_054089)	49.0	NM_054089	116940.0	Mm.171323	NM_054089	ENSMUSG00000028233	Tgs1	D4Ertd800e|Ncoa6ip|Pimt	trimethylguanosine synthase 1	protein-coding	65.5	124.0	66.0	1163.0	190.0	48.0	74.5	49.0
Merged-chr13-98809234-3	chr13	98809137	98809337	+	832.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	B2_Mm2|SINE|B2	6212.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	4.5	13.0	1.5	53.0	28.5	7.0	17.5	19.5
Merged-chr15-82805399-2	chr15	82805299	82805499	+	618.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11154.0	NM_029562	76279.0	Mm.439931	NM_029562	ENSMUSG00000022445	Cyp2d26	1300006E06Rik	cytochrome P450, family 2, subfamily d, polypeptide 26	protein-coding	4.5	4.0	1.5	40.0	13.0	4.5	8.0	4.5
Merged-chr13-58359160-4	chr13	58359055	58359255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4208.0	NM_175214	75050.0	Mm.385742	NM_175214	ENSMUSG00000060176	Kif27	4930517I18Rik	kinesin family member 27	protein-coding	172.0	246.5	178.0	2736.5	377.0	104.5	159.0	109.5
Merged-chr6-87533233-4	chr6	87533106	87533306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286610)	promoter-TSS (NM_001286610)	53.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	66.0	78.5	86.0	1098.0	118.0	39.5	57.0	75.5
Merged-chr5-113907163-4	chr5	113907050	113907250	+	991.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 1 of 10)	MTC|LTR|ERVL-MaLR	1556.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	47.0	26.5	16.0	256.5	69.0	35.0	28.5	26.5
Merged-chr17-57104576-3	chr17	57104474	57104674	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009404)	promoter-TSS (NM_009404)	-811.0	NM_009404	21950.0	Mm.41171	NM_009404	ENSMUSG00000035678	Tnfsf9	4-1BB-L|4-1BBL|AI848817|Cd137l|Ly63l	tumor necrosis factor (ligand) superfamily, member 9	protein-coding	8.0	14.5	1.0	17.0	65.5	33.0	6.5	8.0
Merged-chr18-80206833-5	chr18	80206840	80207040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178604)	promoter-TSS (NM_178604)	73.0	NM_001042408	27366.0	Mm.172411	NM_025299	ENSMUSG00000057130	Txnl4a	D18Wsu98e|Dim1|Txnl4|U5-15kD|U5-15kDa	thioredoxin-like 4A	protein-coding	64.0	54.0	77.0	864.5	291.5	138.5	115.5	162.0
Merged-chr8-11253720-3	chr8	11253632	11253832	+	871.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009931, intron 2 of 51)	intron (NM_009931, intron 2 of 51)	-59073.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	7.0	10.0	10.0	76.0	16.0	6.0	17.5	9.0
Merged-chr17-44256735-3	chr17	44256637	44256837	+	628.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172621, intron 4 of 5)	intron (NM_172621, intron 4 of 5)	68165.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	6.5	5.5	11.0	104.0	12.5	1.5	3.0	6.0
Merged-chr10-77969882-4	chr10	77969779	77969979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138301)	promoter-TSS (NM_138301)	-7.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	55.5	91.0	77.0	1546.0	227.5	54.0	112.0	95.0
Merged-chr17-5491563-4	chr17	5491489	5491689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1011.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	114.5	155.5	132.5	2456.5	255.0	80.0	152.5	126.0
Merged-chr13-64403676-3	chr13	64403531	64403731	+	565.166687	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-28922.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	7.0	6.0	7.5	92.0	24.5	5.5	6.5	7.5
Merged-chr8-72321956-1	chr8	72321856	72322056	+	1000.0	f1_c57bl6.idr	TTS (NM_008452)	TTS (NM_008452)	2894.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	7.0	16.5	16.0	99.0	55.5	18.0	23.0	23.0
Merged-chr4-119965244-3	chr4	119965137	119965337	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	150559.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	15.0	25.0	27.5	397.5	9.5	4.5	8.5	14.0
Merged-chr17-50872793-4	chr17	50872681	50872881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 14 of 21)	intron (NM_028162, intron 14 of 21)	174100.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	34.5	41.5	28.0	630.5	59.5	29.0	37.0	21.0
Merged-chr8-41039669-4	chr8	41039554	41039754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	intron (NM_001005863, intron 5 of 13)	2277.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	38.5	28.5	36.0	692.0	92.5	20.0	43.0	29.0
Merged-chr16-85124820-4	chr16	85124716	85124916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	48891.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	116.5	122.5	163.5	2283.0	212.0	61.5	145.0	94.5
Merged-chr7-25132112-2	chr7	25132012	25132212	+	973.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163556, intron 1 of 13)	intron (NM_001163556, intron 1 of 13)	348.0	NM_011138	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	6.5	3.0	3.0	118.5	17.5	7.5	8.0	16.0
Merged-chr15-75715085-3	chr15	75714971	75715171	+	876.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008164)	TTS (NM_008164)	10783.0	NM_008164	14787.0	Mm.57052	NM_008164	ENSMUSG00000022580	Rhpn1	BB023497|Grbp|Rhophilin|mKIAA1929	rhophilin, Rho GTPase binding protein 1	protein-coding	3.5	12.0	6.5	101.0	18.5	12.5	9.5	7.5
Merged-chr12-77241031-4	chr12	77240917	77241117	+	756.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045554, intron 1 of 11)	(T)n|Simple_repeat|Simple_repeat	2278.0	NR_045554	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	7.0	5.5	4.0	72.0	18.0	10.0	14.0	11.0
Merged-chr11-52099390-4	chr11	52099274	52099474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019411, intron 1 of 6)	CpG	550.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	36.5	53.0	44.0	329.0	110.5	45.5	53.0	54.5
Merged-chr15-50697300-3	chr15	50697235	50697435	+	957.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	191714.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	6.5	16.5	7.0	171.0	15.5	11.5	8.5	6.5
Merged-chr19-46524846-4	chr19	46524758	46524958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23210.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	70.5	82.5	114.0	1257.0	115.5	36.0	64.0	61.0
Merged-chr10-95322365-4	chr10	95322268	95322468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	1341.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	70.5	100.5	60.5	1312.5	199.5	56.0	83.5	52.0
Merged-chr3-8664727-4	chr3	8664630	8664830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010423, exon 5 of 5)	exon (NM_010423, exon 5 of 5)	2308.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	76.0	73.5	39.5	1151.5	174.5	58.0	98.5	63.0
Merged-chr1-59914087-4	chr1	59913966	59914166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037725, intron 1 of 7)	intron (NM_001037725, intron 1 of 7)	1060.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	140.5	278.5	209.0	2957.5	360.5	124.0	204.5	157.5
Merged-chr15-74939475-4	chr15	74939387	74939587	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-15564.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	43.0	26.5	17.0	509.5	79.0	23.0	33.5	20.5
Merged-chr17-10722798-3	chr17	10722707	10722907	+	921.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	117384.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	10.5	19.0	18.0	239.0	16.5	5.5	11.0	6.0
Merged-chr4-6452633-4	chr4	6452524	6452724	+	877.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	intron (NM_010945, intron 1 of 30)	1647.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	11.0	4.5	10.5	133.5	19.0	9.0	6.5	10.0
Merged-chr5-116023545-3	chr5	116023478	116023678	+	742.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031869, intron 1 of 6)	intron (NM_031869, intron 1 of 6)	850.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	4.5	6.5	9.0	25.5	2.5	1.5	4.0	10.0
Merged-chr14-36316881-3	chr14	36316782	36316982	+	697.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	221917.0	NM_175008	218921.0	Mm.212464	NM_175008	ENSMUSG00000096405	4930474N05Rik	-	RIKEN cDNA 4930474N05 gene	protein-coding	14.0	10.0	12.0	186.5	16.5	1.5	10.5	11.0
Merged-chr9-107976210-2	chr9	107976110	107976310	+	673.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_023738, intron 3 of 23)	intron (NM_023738, intron 3 of 23)	643.0	NM_023738	74153.0	Mm.277125	NM_023738	ENSMUSG00000032596	Uba7	1300004C08Rik|Ube1l	ubiquitin-like modifier activating enzyme 7	protein-coding	9.5	9.5	2.0	34.0	17.5	6.0	4.5	5.0
Merged-chr13-99353327-4	chr13	99353219	99353419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173757, intron 2 of 10)	intron (NM_173757, intron 2 of 10)	8533.0	NM_173757	218506.0	Mm.30208	NM_173757	ENSMUSG00000041632	Mrps27	2610028H14Rik	mitochondrial ribosomal protein S27	protein-coding	205.5	354.0	182.0	3875.0	509.0	214.5	241.0	138.5
Merged-chr1-36596256-4	chr1	36596142	36596342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 10 of 14)	intron (NM_001126046, intron 10 of 14)	-2910.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	18.0	23.0	23.0	584.0	52.0	26.5	32.5	28.0
Merged-chr11-51539808-4	chr11	51539715	51539915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153393, intron 5 of 28)	intron (NM_153393, intron 5 of 28)	-44942.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	64.5	92.5	26.0	756.0	98.5	60.5	70.0	38.5
Merged-chr14-54426879-4	chr14	54426777	54426977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026851)	promoter-TSS (NM_026851)	-32.0	NM_026851	68836.0	Mm.248163	NM_026851	ENSMUSG00000010406	Mrpl52	1110047B07Rik	mitochondrial ribosomal protein L52	protein-coding	57.5	57.5	38.5	605.0	126.0	40.5	44.5	55.0
Merged-chr8-25602140-4	chr8	25602032	25602232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308482)	promoter-TSS (NM_001308482)	-152.0	NM_001001735	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	118.5	188.0	104.5	1580.5	345.5	130.5	168.5	119.5
Merged-chr19-59073259-4	chr19	59073139	59073339	+	949.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 1 of 16)	intron (NM_001114312, intron 1 of 16)	2830.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	17.5	21.5	15.5	234.5	55.0	14.5	18.0	12.5
Merged-chr9-114770430-4	chr9	114770321	114770521	+	907.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252479, intron 1 of 3)	intron (NM_001252479, intron 1 of 3)	11572.0	NM_133978	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	23.0	21.0	26.5	275.0	23.0	11.0	12.5	21.5
Merged-chr2-160044722-4	chr2	160044638	160044838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	28085.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	82.5	138.0	68.5	1010.0	129.5	54.0	57.5	37.5
Merged-chr2-4917547-4	chr2	4917461	4917661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1435.0	NM_010726	16922.0	Mm.391704	NM_010726	ENSMUSG00000026664	Phyh	AI256161|AI265699|Lnap1|PAHX	phytanoyl-CoA hydroxylase	protein-coding	43.5	54.5	31.0	599.5	94.5	36.5	38.0	38.5
Merged-chr11-77454008-5	chr11	77453950	77454150	+	910.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001291190, exon 14 of 14)	exon (NM_001291190, exon 14 of 14)	-9863.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	4.5	9.5	5.0	28.5	7.0	4.0	3.5	2.5
Merged-chr9-7571734-4	chr9	7571632	7571832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310717, intron 1 of 9)	intron (NM_001310717, intron 1 of 9)	336.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	20.0	36.0	20.5	224.0	75.5	34.5	35.0	15.0
Merged-chr3-142560044-1	chr3	142559944	142560144	+	1000.0	f0_c57.idr	promoter-TSS (NM_018734)	promoter-TSS (NM_018734)	0.0	NM_001289492	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	10.0	38.0	8.5	75.5	40.0	13.5	7.0	5.0
Merged-chr1-191184736-7	chr1	191184616	191184816	+	899.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1383.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	6.5	10.5	10.0	68.0	31.5	8.5	3.5	7.0
Merged-chr8-83738907-2	chr8	83738780	83738980	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	B1_Mur2|SINE|Alu	2431.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	6.5	10.0	12.5	48.5	16.0	7.5	11.0	18.0
Merged-chr4-133805303-5	chr4	133805218	133805418	+	905.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4a|LINE|L1	-51707.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	20.5	13.5	13.0	210.0	31.0	6.5	18.5	12.5
Merged-chr15-77841408-4	chr15	77841304	77841504	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	CpG	771.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	17.0	12.5	13.0	187.0	53.0	30.0	19.5	26.0
Merged-chr15-57912141-4	chr15	57912036	57912236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167679)	promoter-TSS (NM_001167679)	-63.0	NM_001081396	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	188.5	308.0	164.0	3277.5	491.0	205.0	256.0	262.5
Merged-chr9-119340008-4	chr9	119339916	119340116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010851)	promoter-TSS (NM_010851)	24.0	NM_010851	17874.0	Mm.213003	NM_010851	ENSMUSG00000032508	Myd88	-	myeloid differentiation primary response gene 88	protein-coding	39.5	85.0	29.0	511.0	138.5	59.0	63.0	43.0
Merged-chr9-21166260-4	chr9	21166161	21166361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	CpG	547.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	15.0	45.0	31.5	396.5	83.5	37.5	34.0	48.0
Merged-chr6-128798903-4	chr6	128798825	128799025	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-10284.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	26.0	30.0	36.5	253.5	89.5	34.0	36.0	50.5
Merged-chr15-96700681-2	chr15	96700581	96700781	+	884.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175121)	promoter-TSS (NM_175121)	-953.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	2.0	4.5	1.0	15.0	6.0	8.0	4.5	6.0
Merged-chr1-164248913-4	chr1	164248813	164249013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054087)	promoter-TSS (NM_054087)	-133.0	NM_001276455	116914.0	Mm.35444	NM_054087	ENSMUSG00000040918	Slc19a2	AV276020|AW322295|DDA1|THTR1|TRMA|ThTr-1	solute carrier family 19 (thiamine transporter), member 2	protein-coding	337.0	439.0	331.0	4582.0	818.5	305.5	396.0	287.5
Merged-chr10-60246714-4	chr10	60246600	60246800	+	892.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27440.0	NM_016803	53374.0	Mm.12866	NM_016803	ENSMUSG00000057337	Chst3	C6ST|C6ST-1|GST-0	carbohydrate (chondroitin 6/keratan) sulfotransferase 3	protein-coding	26.0	32.0	15.0	250.0	39.5	12.0	15.5	8.5
Merged-chr15-96660924-6	chr15	96660782	96660982	+	949.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-17969.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	15.5	22.0	14.0	207.5	16.5	9.5	9.0	7.5
Merged-chr11-78176505-4	chr11	78176417	78176617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080849, intron 1 of 14)	intron (NM_080849, intron 1 of 14)	149.0	NM_080849	140859.0	Mm.23788	NM_080849	ENSMUSG00000017405	Nek8	4632401F23Rik|b2b1449Clo|jck	NIMA (never in mitosis gene a)-related expressed kinase 8	protein-coding	51.5	95.5	68.0	489.0	111.0	43.0	48.0	40.0
Merged-chr11-86257591-4	chr11	86257514	86257714	+	990.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027421)	promoter-TSS (NM_027421)	-46.0	NM_027421	70422.0	Mm.171304	NM_027421	ENSMUSG00000018068	Ints2	2810417D08Rik|AA408260|AI987735|mKIAA1287	integrator complex subunit 2	protein-coding	38.0	30.5	28.0	240.0	103.5	27.5	25.5	26.0
Merged-chr7-137411089-4	chr7	137410956	137411156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029886)	promoter-TSS (NM_029886)	-300.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	99.5	113.0	56.0	1181.5	241.5	99.0	145.5	117.0
Merged-chr7-80575892-4	chr7	80575752	80575952	+	901.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-40733.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	3.0	14.0	4.0	102.5	25.5	8.5	7.5	16.5
Merged-chr15-58472542-4	chr15	58472440	58472640	+	930.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57072.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	26.5	22.0	9.0	415.5	56.5	17.5	17.5	29.0
Merged-chr11-95292176-4	chr11	95292075	95292275	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195003, intron 5 of 14)	intron (NM_001195003, intron 5 of 14)	18071.0	NM_001195004	217127.0	Mm.90213	NM_177619	ENSMUSG00000038909	Kat7	Hbo1|Hboa|Myst2	K(lysine) acetyltransferase 7	protein-coding	16.5	47.5	21.0	461.0	46.5	28.0	19.5	25.0
Merged-chr10-80604228-1	chr10	80604128	80604328	+	631.0	f0_balb.idr	intron (NM_019575, intron 1 of 6)	intron (NM_019575, intron 1 of 6)	1346.0	NM_019575	56214.0	Mm.273170	NM_019575	ENSMUSG00000113949	Scamp4	2410022D05Rik|AI448940|AU022392|AW742369|Sc4	secretory carrier membrane protein 4	protein-coding	13.0	8.0	6.0	129.5	16.5	4.0	2.0	5.0
Merged-chr2-12382812-4	chr2	12382709	12382909	+	973.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355537, intron 8 of 13)	intron (NM_001355537, intron 8 of 13)	36651.0	NM_001355537	66960.0	Mm.34059	NM_024185	ENSMUSG00000026767	Mindy3	1810041E18Rik|2310047O13Rik|5830410F13Rik|AI447827|AW111958|Fam188a	MINDY lysine 48 deubiquitinase 3	protein-coding	32.5	15.0	37.0	651.0	51.5	17.5	18.5	21.0
Merged-chr4-145246891-4	chr4	145246793	145246993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011610)	promoter-TSS (NM_011610)	-23.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	42.5	63.5	43.0	462.5	152.0	44.5	72.5	73.0
Merged-chr6-72933163-4	chr6	72933064	72933264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25068.0	NM_001039392	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	133.0	157.0	140.5	2370.5	324.0	90.0	151.5	133.5
Merged-chr7-132564992-4	chr7	132564880	132565080	+	906.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016978, intron 4 of 9)	intron (NM_016978, intron 4 of 9)	11418.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	8.0	7.5	13.0	214.0	38.0	11.0	18.5	3.0
Merged-chr1-7086177-4	chr1	7086094	7086294	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2726.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	22.5	20.0	16.5	240.0	40.5	18.0	20.0	10.0
Merged-chr7-59163434-4	chr7	59163326	59163526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65324.0	NM_001033962	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	14.0	23.5	29.5	642.0	79.0	19.0	31.0	20.0
Merged-chr3-121841045-4	chr3	121840912	121841112	+	938.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-25710.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	15.0	5.0	9.5	154.0	33.5	8.0	9.0	7.0
Merged-chr4-6369938-4	chr4	6369836	6370036	+	963.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	4256.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	13.5	16.0	14.5	394.0	37.0	8.5	18.5	17.5
Merged-chr1-64120701-6	chr1	64120587	64120787	+	837.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033563, intron 1 of 3)	intron (NM_033563, intron 1 of 3)	702.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	6.5	12.5	8.0	82.0	13.0	11.5	10.0	12.5
Merged-chr11-79891288-3	chr11	79891222	79891422	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71065.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	10.0	8.5	14.0	225.5	7.0	2.0	3.0	8.5
Merged-chr5-148477745-4	chr5	148477674	148477874	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	73899.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	26.0	29.0	31.5	531.0	64.5	10.5	32.0	29.5
Merged-chr17-56884982-4	chr17	56884864	56885064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030141, exon 11 of 14)	exon (NM_030141, exon 11 of 14)	9331.0	NM_030141	78625.0	Mm.160106	NM_030141	ENSMUSG00000024209	1700061G19Rik	1700026H02|AI507598	RIKEN cDNA 1700061G19 gene	protein-coding	30.0	82.0	27.0	379.0	120.5	24.5	33.0	56.5
Merged-chr5-53998369-4	chr5	53998265	53998465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081103)	promoter-TSS (NM_001081103)	-158.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	240.0	305.5	237.0	4336.0	661.5	245.5	291.5	268.0
Merged-chr18-60805889-4	chr18	60805813	60806013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042605, intron 1 of 8)	intron (NM_001042605, intron 1 of 8)	2064.0	NM_010545	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	111.5	193.5	96.0	1656.5	301.5	114.5	108.0	122.5
Merged-chr7-19149407-4	chr7	19149311	19149511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026111)	promoter-TSS (NM_026111)	-215.0	NM_026111	67369.0	Mm.234876	NM_026111	ENSMUSG00000030407	Qpctl	1810019P04Rik|BB101812|gQC	glutaminyl-peptide cyclotransferase-like	protein-coding	262.0	446.0	212.0	3633.0	604.5	251.0	280.5	223.5
Merged-chr7-97211319-4	chr7	97211211	97211411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	114653.0	NM_001177412	244144.0	Mm.297541	NM_001177412	ENSMUSG00000035713	Usp35	Gm1088|Gm493	ubiquitin specific peptidase 35	protein-coding	100.0	159.0	97.5	1446.5	183.5	90.0	89.0	68.0
Merged-chr2-165055190-4	chr2	165055091	165055291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170704)	promoter-TSS (NM_170704)	-445.0	NM_170704	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	62.5	217.5	45.5	473.5	222.0	94.0	78.0	49.0
Merged-chr6-134922964-4	chr6	134922864	134923064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009875, intron 2 of 2)	intron (NM_009875, intron 2 of 2)	2563.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	60.0	94.0	70.5	1039.5	188.5	66.0	114.5	85.5
Merged-chr14-120137926-4	chr14	120137839	120138039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95504.0	NM_001001490	239283.0	Mm.138520	NM_001001490	ENSMUSG00000044819	Oxgr1	Cysltr3|Gm299|Gpr80|Gpr99|P2Y15	oxoglutarate (alpha-ketoglutarate) receptor 1	protein-coding	165.5	249.0	212.0	2761.0	366.5	157.5	185.5	173.5
Merged-chr2-120661953-4	chr2	120661848	120662048	+	946.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	52353.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	12.5	26.5	13.0	264.5	54.5	18.0	15.0	23.5
Merged-chr7-110109342-4	chr7	110109231	110109431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12728.0	NM_001355058	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	53.0	96.0	64.5	788.0	136.5	54.0	46.0	64.5
Merged-chr6-89043065-3	chr6	89042963	89043163	+	995.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53047.0	NR_134978	232217.0	Mm.281744	NM_175017	ENSMUSG00000055403	4933427D06Rik	-	RIKEN cDNA 4933427D06 gene	ncRNA	24.5	25.5	49.0	685.5	4.0	5.5	9.0	12.0
Merged-chr6-115650024-4	chr6	115649936	115650136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029780, intron 1 of 16)	intron (NM_029780, intron 1 of 16)	25852.0	NM_001356334	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	31.0	41.5	28.5	511.5	59.5	18.5	21.5	20.5
Merged-chr5-97345933-4	chr5	97345826	97346026	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46404.0	NM_001033191	97243.0	Mm.11746	NM_001033191	ENSMUSG00000046000	Naa11	Ard1b|Ard2|C80008	N(alpha)-acetyltransferase 11, NatA catalytic subunit	protein-coding	12.0	25.5	23.5	279.5	46.0	10.0	14.0	7.5
Merged-chr7-143480742-2	chr7	143480642	143480842	+	661.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001042760, intron 5 of 10)	intron (NM_001042760, intron 5 of 10)	5626.0	NM_001042760	18400.0	Mm.271740	NM_008767	ENSMUSG00000000154	Slc22a18	AW260131|BWR1A|BWSCR1A|HET|ITM|Impt1|Orctl2|Slc22a1l|TSSC5|p45-BWR1A	solute carrier family 22 (organic cation transporter), member 18	protein-coding	6.0	4.5	1.5	70.0	7.0	6.0	12.5	8.0
Merged-chr8-106964860-1	chr8	106964760	106964960	+	670.333313	f0_balb.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	29110.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	8.5	10.0	8.0	118.5	22.0	1.0	5.5	8.0
Merged-chr15-63545854-4	chr15	63545716	63545916	+	961.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-66208.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	13.5	17.5	25.0	390.0	49.5	14.0	18.5	14.5
Merged-chr15-83128930-3	chr15	83128797	83128997	+	844.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 7 of 7)	intron (NM_001347082, intron 7 of 7)	-6096.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	4.0	12.0	2.0	60.5	32.0	9.5	4.5	9.0
Merged-chr3-87525587-4	chr3	87525455	87525655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012051)	promoter-TSS (NM_012051)	-23.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	65.0	102.0	45.5	936.0	158.5	48.0	80.0	71.5
Merged-chr7-98082623-4	chr7	98082524	98082724	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 18 of 48)	intron (NM_008663, intron 18 of 48)	26624.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	17.0	30.0	22.0	209.0	27.5	4.5	14.5	18.5
Merged-chr10-39458994-4	chr10	39458888	39459088	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 3 of 13)	intron (NM_001122893, intron 3 of 13)	89189.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	24.5	28.0	42.0	795.0	63.0	14.5	46.0	32.0
Merged-chr17-29006985-4	chr17	29006881	29007081	+	901.9208369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357173, intron 1 of 13)	intron (NM_001357173, intron 1 of 13)	1014.0	NM_134115	106504.0	Mm.439986	NM_134115	ENSMUSG00000024006	Stk38	5830476G13Rik|9530097A09Rik|AA617404|Ndr1	serine/threonine kinase 38	protein-coding	13.5	10.0	5.0	192.5	26.5	2.5	9.5	19.5
Merged-chr2-145743474-3	chr2	145743364	145743564	+	790.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	intron (NR_033220, intron 3 of 3)	42269.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	5.0	9.0	6.0	95.5	14.5	6.5	3.5	11.5
Merged-chr11-69124644-4	chr11	69124569	69124769	+	812.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Gln-CAG|tRNA|tRNA	-1708.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	8.5	18.5	6.0	43.5	31.5	9.5	1.0	8.5
Merged-chr6-116228971-4	chr6	116228879	116229079	+	939.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026585, intron 15 of 30)	intron (NM_026585, intron 15 of 30)	20946.0	NM_026585	28006.0	Mm.28524	NM_026585	ENSMUSG00000024104	Washc2	A130095H06|C530005J20Rik|D6Wsu116e|Fam21	WASH complex subunit 2	protein-coding	17.0	20.0	2.5	283.0	29.0	13.0	20.5	14.5
Merged-chr11-119229128-4	chr11	119229012	119229212	+	894.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172443)	promoter-TSS (NM_172443)	540.0	NM_175430	207607.0	Mm.189885	NM_175430	ENSMUSG00000039963	Ccdc40	B930008I02Rik	coiled-coil domain containing 40	protein-coding	26.0	15.0	9.5	94.0	35.0	23.5	13.5	17.5
Merged-chr11-106819671-4	chr11	106819572	106819772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025481)	TTS (NM_025481)	30420.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	94.0	139.5	110.5	1796.0	107.0	43.5	43.5	52.0
Merged-chr5-21515090-4	chr5	21514983	21515183	+	802.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199632, intron 17 of 20)	B1F|SINE|Alu	-28444.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	5.0	3.0	7.5	70.5	18.0	8.5	9.0	8.0
Merged-chr4-127169146-3	chr4	127169045	127169245	+	931.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198618)	promoter-TSS (NM_198618)	-59.0	NM_198618	242667.0	Mm.331885	NM_198618	ENSMUSG00000042388	Dlgap3	BC058433|DAP-3|DAP3|Prpl8|Sapap3	DLG associated protein 3	protein-coding	6.0	25.0	11.0	153.0	16.0	9.0	7.0	9.5
Merged-chr5-117509754-4	chr5	117509657	117509857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 3 of 19)	intron (NM_001312914, intron 3 of 19)	95755.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	24.0	27.0	7.5	261.0	93.5	27.5	38.0	25.0
Merged-chr3-157634584-3	chr3	157634478	157634678	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011196, intron 2 of 2)	intron (NM_011196, intron 2 of 2)	67686.0	NM_011196	19218.0	Mm.30424	NM_011196	ENSMUSG00000040016	Ptger3	EP3|Pgerep3|Ptgerep3	prostaglandin E receptor 3 (subtype EP3)	protein-coding	5.5	9.5	1.0	130.0	11.5	4.5	15.5	4.5
Merged-chr10-117209801-4	chr10	117209699	117209899	+	981.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14708.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	17.5	42.5	15.0	298.5	61.0	20.0	24.0	40.0
Merged-chr7-101302782-3	chr7	101302692	101302892	+	830.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111111)	promoter-TSS (NM_001111111)	-704.0	NR_152152	73683.0	Mm.275744	NM_001111111	ENSMUSG00000047767	Atg16l2	2410118P20Rik	autophagy related 16-like 2 (S. cerevisiae)	protein-coding	6.0	25.0	8.5	34.5	24.5	8.5	7.5	9.5
Merged-chr13-51388280-3	chr13	51388158	51388358	+	800.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-20360.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	6.5	8.5	8.5	122.0	7.5	3.5	3.5	8.5
Merged-chr5-125178652-3	chr5	125178563	125178763	+	943.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253905, intron 1 of 42)	CpG	551.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	10.0	14.5	12.0	102.5	13.5	5.5	11.0	11.0
Merged-chr5-139703058-2	chr5	139702958	139703158	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33275.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	7.5	13.5	6.5	60.0	14.5	4.0	9.0	15.5
Merged-chr12-102448420-3	chr12	102448251	102448451	+	816.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-8538.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	4.5	11.0	7.5	174.5	8.5	4.0	3.0	5.5
Merged-chr4-103313779-4	chr4	103313684	103313884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025909)	promoter-TSS (NM_025909)	-62.0	NM_025909	67013.0	Mm.30021	NM_025909	ENSMUSG00000035069	Oma1	2010001O09Rik|MPRP-1|ZMPOMA1	OMA1 zinc metallopeptidase	protein-coding	138.0	157.0	162.0	2232.5	306.5	120.5	145.0	82.5
Merged-chr10-13946706-4	chr10	13946606	13946806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19369.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	90.0	193.5	112.0	1991.0	239.5	112.0	125.5	85.5
Merged-chr6-38975037-4	chr6	38974929	38975129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	intron (NM_011539, intron 3 of 12)	56043.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	65.5	113.0	117.0	1384.5	138.5	54.0	71.5	96.5
Merged-chr1-155210626-4	chr1	155210555	155210755	+	761.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51952.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	9.0	15.0	7.5	162.0	19.5	3.0	12.0	11.0
Merged-chr5-31494706-4	chr5	31494653	31494853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133756)	promoter-TSS (NM_133756)	12.0	NM_133756	74254.0	Mm.348649	NM_133756	ENSMUSG00000064037	Gpn1	2410004J02Rik|AI449615|MBDIN|NTPBP|Xab1	GPN-loop GTPase 1	protein-coding	51.0	131.5	65.5	1044.5	147.0	60.0	82.5	47.5
Merged-chr11-75514501-3	chr11	75514409	75514609	+	858.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004157, intron 3 of 10)	intron (NM_001004157, intron 3 of 10)	968.0	NM_001004157	380713.0	Mm.10486	NM_001004157	ENSMUSG00000038188	Scarf1	AA986099|SREC|SREC-I|mKIAA0149	scavenger receptor class F, member 1	protein-coding	6.5	12.5	2.0	80.0	14.0	10.5	6.5	6.0
Merged-chr7-97027058-4	chr7	97026958	97027158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 7 of 13)	intron (NM_153591, intron 7 of 13)	-54693.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	88.5	152.5	138.5	1304.5	194.5	92.5	69.5	114.0
Merged-chr5-86100869-4	chr5	86100803	86101003	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310639, intron 7 of 7)	intron (NM_001310639, intron 7 of 7)	29157.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	11.0	16.0	23.5	270.5	16.0	14.5	12.5	8.5
Merged-chr4-32303858-3	chr4	32303761	32303961	+	929.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113574.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	9.5	18.0	18.0	230.5	8.5	3.0	5.0	5.5
Merged-chr16-11006915-4	chr16	11006827	11007027	+	908.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1971.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	7.5	17.0	16.0	172.5	20.5	12.5	11.0	14.5
Merged-chr11-70092225-4	chr11	70092105	70092305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313926)	promoter-TSS (NM_001313926)	-439.0	NM_007493	11890.0	Mm.1357	NM_007493	ENSMUSG00000040963	Asgr2	ASGPR2|Asgr|Asgr-2|HL-2	asialoglycoprotein receptor 2	protein-coding	57.0	80.0	32.0	813.0	150.0	38.0	53.0	74.5
Merged-chr3-139099488-4	chr3	139099407	139099607	+	808.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-24306.0	NM_001356388	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	3.5	9.0	7.5	138.0	26.0	12.0	13.5	15.5
Merged-chr19-47242445-4	chr19	47242352	47242552	+	872.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163480, intron 3 of 5)	intron (NM_001163480, intron 3 of 5)	13609.0	NM_001163480	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	12.0	8.5	3.0	163.0	26.0	7.0	15.0	12.5
Merged-chr9-56995031-4	chr9	56994943	56995143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019651)	promoter-TSS (NM_019651)	75.0	NM_019651	56294.0	Mm.325643	NM_019651	ENSMUSG00000032290	Ptpn9	MEG2	protein tyrosine phosphatase, non-receptor type 9	protein-coding	36.5	50.0	36.5	398.5	74.5	30.5	33.0	43.0
Merged-chr4-118098891-3	chr4	118098792	118098992	+	999.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285520, intron 2 of 11)	Charlie20a|DNA|hAT-Charlie	36054.0	NM_001285520	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	7.5	30.0	19.0	206.5	0.0	0.5	1.5	0.5
Merged-chr14-102995385-4	chr14	102995288	102995488	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	intron (NR_045657, intron 2 of 2)	-12751.0	NM_177715	239217.0	Mm.246466	NM_177715	ENSMUSG00000098557	Kctd12	AU046135|AW538430|Pfet1|Pfetin	potassium channel tetramerisation domain containing 12	protein-coding	29.0	31.5	14.0	224.5	48.5	18.5	27.5	27.0
Merged-chr4-141810047-1	chr4	141809947	141810147	+	776.0	f1_c57bl6.idr	intron (NM_001277932, intron 6 of 7)	intron (NM_001277932, intron 6 of 7)	15958.0	NM_007919	13706.0	Mm.45316	NM_007919	ENSMUSG00000058579	Cela2a	Ela-2|Ela2|Ela2a	chymotrypsin-like elastase family, member 2A	protein-coding	5.0	6.5	6.0	70.0	21.0	8.0	11.0	5.0
Merged-chr10-44634915-4	chr10	44634793	44634993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-176145.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	49.0	50.0	34.5	827.5	69.5	22.5	45.0	34.5
Merged-chr2-153170631-4	chr2	153170528	153170728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	L1ME1|LINE|L1	9327.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	81.0	102.5	106.5	1159.0	117.5	70.5	71.0	46.5
Merged-chr4-28420882-3	chr4	28420791	28420991	+	786.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-392240.0	NM_001290434	13841.0	Mm.257266	NM_010141	ENSMUSG00000028289	Epha7	Cek11|Ebk|Ehk3|Hek11|Mdk1	Eph receptor A7	protein-coding	6.0	14.5	10.0	218.5	6.0	2.0	6.5	2.0
Merged-chr4-155563518-4	chr4	155563430	155563630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159637)	promoter-TSS (NM_001159637)	-285.0	NM_001159637	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	289.0	422.0	228.5	3207.5	682.0	292.0	293.0	222.0
Merged-chr4-101265289-4	chr4	101265188	101265388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146145)	promoter-TSS (NM_146145)	-6.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	186.5	317.0	159.5	2848.5	514.5	195.0	256.0	169.5
Merged-chr18-82470206-4	chr18	82470107	82470307	+	868.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4916.0	NM_001025245	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	13.5	17.0	9.0	324.5	29.5	9.0	29.0	13.0
Merged-chr13-34130497-4	chr13	34130384	34130584	+	804.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023716)	promoter-TSS (NM_023716)	-130.0	NM_023716	73710.0	Mm.379227	NM_023716	ENSMUSG00000045136	Tubb2b	2410129E14Rik|brdp	tubulin, beta 2B class IIB	protein-coding	10.5	23.5	16.0	241.5	16.5	8.0	8.5	2.5
Merged-chr10-45051313-4	chr10	45051195	45051395	+	867.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15919.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	6.0	11.0	3.5	124.5	29.0	10.0	12.5	7.5
Merged-chr18-39145375-4	chr18	39145266	39145466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 10 of 21)	intron (NM_001361073, intron 10 of 21)	152221.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	30.0	43.0	16.5	294.5	19.0	22.5	26.5	23.5
Merged-chr11-94087015-4	chr11	94086961	94087161	+	844.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025428, intron 10 of 26)	B1_Mm|SINE|Alu	42856.0	NM_001025429	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	8.5	11.0	11.5	23.0	26.5	10.5	9.0	9.5
Merged-chr6-124741155-4	chr6	124741053	124741253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013535)	promoter-TSS (NM_013535)	-74.0	NM_013535	14790.0	Mm.439877	NM_013535	ENSMUSG00000072772	Grcc10	2310033H05Rik|C10	gene rich cluster, C10 gene	protein-coding	150.0	280.0	102.0	1449.5	307.5	122.0	98.0	103.0
Merged-chr6-37316996-4	chr6	37316876	37317076	+	738.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17000.0	NM_001347104	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	10.0	5.0	13.0	149.0	8.5	2.5	13.5	12.0
Merged-chr17-13007808-4	chr17	13007697	13007897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013671)	promoter-TSS (NM_013671)	-42.0	NM_013671	20656.0	Mm.290876	NM_013671	ENSMUSG00000006818	Sod2	MnSOD|Sod-2	superoxide dismutase 2, mitochondrial	protein-coding	270.5	424.0	285.0	3768.5	687.0	274.5	335.0	208.5
Merged-chr3-135505664-2	chr3	135505564	135505764	+	887.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_027288, intron 1 of 16)	intron (NM_027288, intron 1 of 16)	20053.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	10.0	2.0	9.5	60.5	10.5	5.0	6.0	4.5
Merged-chr7-114163107-4	chr7	114162955	114163155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-45274.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	7.0	17.5	20.0	145.5	94.5	23.0	44.0	34.5
Merged-chr7-81214147-4	chr7	81214008	81214208	+	956.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 1 of 21)	CpG	304.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	11.5	13.0	17.5	222.0	28.0	9.5	14.0	36.0
Merged-chr4-129855318-7	chr4	129855211	129855411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34603.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	25.5	26.0	25.0	366.5	37.5	26.0	18.0	29.0
Merged-chr7-68070762-4	chr7	68070645	68070845	+	967.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	L1MD|LINE|L1	118488.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	25.0	19.5	32.0	447.0	30.5	12.5	26.5	22.5
Merged-chr2-129544758-2	chr2	129544614	129544814	+	597.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-8112.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	9.0	5.0	9.0	40.0	5.0	1.0	0.0	0.0
Merged-chr6-134067166-3	chr6	134067071	134067271	+	833.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	MTD|LTR|ERVL-MaLR	31471.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	8.0	6.5	7.5	82.0	24.0	10.5	4.0	5.0
Merged-chr12-52480747-4	chr12	52480667	52480867	+	953.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_136881)	promoter-TSS (NR_136881)	-158.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	21.0	26.0	24.5	485.5	42.0	12.0	17.5	18.5
Merged-chr7-74679207-3	chr7	74679110	74679310	+	749.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124430.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	5.5	1.5	5.0	107.5	18.0	4.5	7.0	12.0
Merged-chr11-118379639-6	chr11	118379509	118379709	+	850.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22350.0	NM_011150	19039.0	Mm.3152	NM_011150	ENSMUSG00000033880	Lgals3bp	90K|CyCAP|MAC-2BP|Ppicap|Tango10b	lectin, galactoside-binding, soluble, 3 binding protein	protein-coding	12.5	10.0	8.0	66.5	15.0	3.5	3.0	8.5
Merged-chr2-58489738-4	chr2	58489633	58489833	+	836.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355048, intron 3 of 10)	intron (NM_001355048, intron 3 of 10)	71677.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	13.5	10.5	7.0	225.0	30.5	3.5	12.5	16.0
Merged-chr16-33747665-4	chr16	33747540	33747740	+	919.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 10 of 14)	L1MA6|LINE|L1	-46397.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	8.5	3.0	14.0	199.5	22.0	5.5	11.0	5.5
Merged-chr11-60699705-4	chr11	60699606	60699806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159405)	promoter-TSS (NM_001159405)	16.0	NM_008502	16897.0	Mm.285453	NM_008502	ENSMUSG00000020536	Llgl1	AI325176|Lgl1|Llglh|Mgl1	LLGL1 scribble cell polarity complex component	protein-coding	53.5	57.0	54.5	656.5	112.0	33.5	40.0	51.5
Merged-chr5-146963736-4	chr5	146963616	146963816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256101)	promoter-TSS (NM_001256101)	81.0	NM_001256101	76366.0	Mm.486234	NM_029581	ENSMUSG00000016510	Mtif3	2810012L14Rik|AI414549	mitochondrial translational initiation factor 3	protein-coding	22.5	23.5	20.0	219.5	41.0	6.0	22.0	18.5
Merged-chr2-148523149-4	chr2	148523047	148523247	+	966.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79612.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	18.5	26.0	26.0	385.5	64.0	10.0	31.5	27.0
Merged-chr4-62502265-4	chr4	62502163	62502363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024257)	promoter-TSS (NM_024257)	-63.0	NM_024257	72748.0	Mm.41506	NM_024257	ENSMUSG00000038422	Hdhd3	2810435D12Rik	haloacid dehalogenase-like hydrolase domain containing 3	protein-coding	177.5	244.0	175.0	2571.5	130.5	36.5	78.0	43.0
Merged-chr9-61386025-4	chr9	61385962	61386162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083928, intron 4 of 19)	intron (NM_001083928, intron 4 of 19)	13696.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	102.5	131.0	114.5	1383.0	164.5	76.0	123.5	96.0
Merged-chr9-13671370-4	chr9	13671259	13671459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173776, intron 1 of 3)	intron (NM_173776, intron 1 of 3)	8899.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	44.0	50.5	63.5	967.0	77.5	20.0	39.5	27.0
Merged-chr11-64079533-4	chr11	64079423	64079623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033780)	promoter-TSS (NR_033780)	39.0	NR_033780	66456.0	Mm.124828	NR_033780	ENSMUSG00000087497	2810001G20Rik	AW045514	RIKEN cDNA 2810001G20 gene	ncRNA	56.0	80.0	72.0	1078.0	170.0	65.0	66.5	56.0
Merged-chr12-57297114-1	chr12	57297014	57297214	+	622.0	f0_balb.idr	intron (NM_001164370, intron 1 of 9)	intron (NM_001164370, intron 1 of 9)	66689.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	5.5	4.5	12.0	114.0	8.0	6.0	4.0	11.0
Merged-chr4-133875290-3	chr4	133875180	133875380	+	931.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285506)	promoter-TSS (NM_001285506)	-549.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	14.5	21.0	15.5	114.0	5.5	3.5	1.0	2.0
Merged-chr10-40832391-4	chr10	40832280	40832480	+	955.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027879, exon 15 of 15)	3' UTR (NM_027879, exon 15 of 15)	50763.0	NM_027879	71713.0	Mm.46063	NM_027879	ENSMUSG00000038446	Cdc40	1200003H23Rik|EHB3|PRP17	cell division cycle 40	protein-coding	11.5	18.0	33.0	419.5	55.0	12.0	33.5	27.0
Merged-chr1-120449812-4	chr1	120449716	120449916	+	908.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55208.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	2.5	16.5	12.0	193.0	55.0	19.0	25.5	8.5
Merged-chr2-75964645-4	chr2	75964545	75964745	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13534.0	NM_001081228	620631.0	Mm.389286	NM_001081228	ENSMUSG00000075272	Ttc30a2	-	tetratricopeptide repeat domain 30A2	protein-coding	11.0	13.0	21.0	225.0	48.0	5.0	18.5	18.5
Merged-chr9-37230824-3	chr9	37230730	37230930	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_020258, exon 18 of 18)	3' UTR (NM_020258, exon 18 of 18)	22514.0	NM_001310096	66279.0	Mm.41451	NM_025464	ENSMUSG00000032121	Tmem218	1810021J13Rik|AV004931	transmembrane protein 218	protein-coding	32.0	10.0	32.5	591.5	15.0	2.0	4.5	3.0
Merged-chr1-34472746-4	chr1	34472630	34472830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 12 of 14)	intron (NM_011206, intron 12 of 14)	12984.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	64.5	76.5	48.0	1028.0	146.5	55.0	82.5	69.5
Merged-chr11-59563006-4	chr11	59562888	59563088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 7 of 9)	MTE2b|LTR|ERVL-MaLR	8750.0	NM_001011789	257962.0	Mm.377316	NM_001011789	ENSMUSG00000059610	Olfr222	MOR256-45P	olfactory receptor 222	protein-coding	74.5	99.5	53.5	612.5	107.0	49.0	54.0	46.5
Merged-chr17-50674756-4	chr17	50674663	50674863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 5 of 5)	LTR48B|LTR|ERV1	-23918.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	30.5	55.5	35.5	651.5	69.0	24.5	35.5	20.0
Merged-chr2-126932035-1	chr2	126931935	126932135	+	576.0	f0_balb.idr	intron (NM_023220, intron 1 of 14)	intron (NM_023220, intron 1 of 14)	1200.0	NM_023220	66552.0	Mm.269928	NM_023220	ENSMUSG00000027366	Sppl2a	2010106G01Rik|C130089K23Rik	signal peptide peptidase like 2A	protein-coding	9.5	16.0	2.0	51.0	35.0	21.0	8.0	7.0
Merged-chr10-61451726-4	chr10	61451632	61451832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010124, intron 1 of 2)	intron (NM_010124, intron 1 of 2)	937.0	NM_010124	13688.0	Mm.259516	NM_010124	ENSMUSG00000020091	Eif4ebp2	2810011I19Rik|4E-BP2|AA792569|BC010348|PHAS-II	eukaryotic translation initiation factor 4E binding protein 2	protein-coding	61.0	73.5	35.5	934.5	118.0	44.5	55.5	44.0
Merged-chr19-10100912-3	chr19	10100802	10101002	+	801.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019699, intron 1 of 11)	intron (NM_019699, intron 1 of 11)	601.0	NM_019699	56473.0	Mm.38901	NM_019699	ENSMUSG00000024665	Fads2	2900042M13Rik|Fadsd2	fatty acid desaturase 2	protein-coding	4.5	9.5	3.0	90.0	12.0	4.5	11.0	10.0
Merged-chr19-5875305-4	chr19	5875193	5875393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026169)	promoter-TSS (NM_026169)	-85.0	NM_026169	67457.0	Mm.202092	NM_026169	ENSMUSG00000024816	Frmd8	1200004M23Rik|2310035N23Rik|4931429L16Rik|AU018809	FERM domain containing 8	protein-coding	54.5	74.5	36.5	600.0	169.5	52.5	52.0	45.0
Merged-chr15-79413945-4	chr15	79413858	79414058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10655.0	NM_172608	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	67.5	79.5	30.0	1010.5	131.0	43.0	54.0	64.5
Merged-chr4-126259668-4	chr4	126259574	126259774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2731.0	NM_013718	27096.0	Mm.8392	NM_013718	ENSMUSG00000028847	Trappc3	1110058K12Rik|AI835942|AU019197|Bet3	trafficking protein particle complex 3	protein-coding	59.0	101.5	43.0	631.0	156.0	43.0	52.0	42.0
Merged-chr14-76674122-4	chr14	76674027	76674227	+	778.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3441.0	NR_015485	73272.0	Mm.116804	NR_015485	ENSMUSG00000101009	1700108F19Rik	1700020I02Rik|BB065030	RIKEN cDNA 1700108F19 gene	ncRNA	11.0	7.0	9.0	232.5	21.0	7.0	6.5	14.0
Merged-chr10-95508988-4	chr10	95508898	95509098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6164.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	70.0	146.0	78.5	1170.5	171.5	88.0	71.5	77.0
Merged-chr17-65854231-4	chr17	65854150	65854350	+	932.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198949, intron 6 of 9)	intron (NM_001198949, intron 6 of 9)	30673.0	NM_001198949	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	30.0	50.0	27.5	370.0	31.0	10.5	13.5	21.0
Merged-chr3-79197222-4	chr3	79197109	79197309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15710.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	150.0	210.0	181.0	2601.5	339.5	129.0	189.0	142.5
Merged-chr3-27984585-4	chr3	27984502	27984702	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 1 of 25)	intron (NM_008875, intron 1 of 25)	431.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	20.0	25.0	24.5	632.0	64.5	14.0	21.0	28.5
Merged-chr16-97523288-4	chr16	97523203	97523403	+	872.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR9E|LTR|ERVK	-12778.0	NR_003508	17858.0	Mm.14157	NM_013606	ENSMUSG00000023341	Mx2	AI528743|Mx-2	MX dynamin-like GTPase 2	protein-coding	7.0	21.5	26.0	294.0	16.0	8.0	5.5	4.0
Merged-chr7-43378413-4	chr7	43378316	43378516	+	967.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27075.0	NM_145581	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	14.0	24.5	16.0	211.0	49.5	19.0	23.5	11.0
Merged-chr18-64847114-4	chr18	64846996	64847196	+	859.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40660.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	12.5	16.0	10.5	167.0	38.5	14.0	9.5	23.5
Merged-chr11-96963768-4	chr11	96963671	96963871	+	791.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_003293, exon 6 of 6)	non-coding (NR_003293, exon 6 of 6)	13917.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	14.5	17.0	3.5	98.0	22.0	12.5	11.5	8.0
Merged-chr12-78226443-4	chr12	78226333	78226533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145965)	promoter-TSS (NM_145965)	-222.0	NM_172952	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	84.0	111.0	114.5	1349.5	221.5	83.5	110.5	119.5
Merged-chr1-24679169-4	chr1	24679092	24679292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310483, intron 1 of 15)	intron (NM_001310483, intron 1 of 15)	274.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	23.5	42.0	23.0	263.5	126.0	28.0	53.5	27.5
Merged-chr11-72550348-1	chr11	72550248	72550448	+	786.0	f0_balb.idr	promoter-TSS (NM_029932)	promoter-TSS (NM_029932)	-102.0	NM_029932	77577.0	Mm.46185	NM_029932	ENSMUSG00000020798	Spns3	9830002I17Rik	spinster homolog 3	protein-coding	5.0	11.0	14.0	109.0	11.5	6.0	4.0	4.0
Merged-chr17-12159526-4	chr17	12159420	12159620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 2 of 8)	intron (NM_026644, intron 2 of 8)	40236.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	29.5	77.5	94.0	922.5	132.0	44.0	74.5	85.0
Merged-chr10-79695394-4	chr10	79695276	79695476	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008504)	TTS (NM_008504)	1550.0	NM_001302499	16904.0	Mm.378960	NM_008504	ENSMUSG00000054206	Gzmm	Lmet1|MMET-1	granzyme M (lymphocyte met-ase 1)	protein-coding	11.5	21.0	14.5	218.5	50.5	11.0	22.5	14.0
Merged-chr2-118126083-3	chr2	118125992	118126192	+	751.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011580, exon 22 of 22)	3' UTR (NM_011580, exon 22 of 22)	14216.0	NM_001313914	21825.0	Mm.4159	NM_011580	ENSMUSG00000040152	Thbs1	TSP-1|TSP1|Thbs-1|tbsp1	thrombospondin 1	protein-coding	6.5	15.5	6.5	123.0	22.5	6.5	7.0	12.0
Merged-chr12-17545440-2	chr12	17545341	17545541	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013614, intron 1 of 11)	intron (NM_013614, intron 1 of 11)	568.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	27.0	28.5	31.5	293.0	71.5	30.5	29.5	40.0
Merged-chr10-78412422-4	chr10	78412343	78412543	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010925, intron 1 of 12)	intron (NM_010925, intron 1 of 12)	600.0	NM_010925	18114.0	Mm.38344	NM_010925	ENSMUSG00000061032	Rrp1	AL033305|AL033306|AU018604|NNP-1|Nnp1	ribosomal RNA processing 1 homolog (S. cerevisiae)	protein-coding	13.0	20.0	10.5	108.5	22.0	8.0	18.5	17.5
Merged-chr6-148986154-4	chr6	148986057	148986257	+	910.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39687.0	NM_001361398	56306.0	Mm.18637	NM_019643	ENSMUSG00000039985	Fam60a	Ppcs1|Pptcs1|Sinhcaf|Tera	family with sequence similarity 60, member A	protein-coding	17.5	18.0	13.5	432.0	53.5	27.5	45.0	22.5
Merged-chr8-25017117-4	chr8	25017030	25017230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007404)	promoter-TSS (NM_007404)	-81.0	NM_027194	69742.0	Mm.28626	NM_027194	ENSMUSG00000031556	Tm2d2	2410018G23Rik|Blp1	TM2 domain containing 2	protein-coding	317.5	517.5	317.5	3995.0	704.0	329.0	422.0	278.5
Merged-chr4-33261442-4	chr4	33261355	33261555	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12668.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	31.5	69.0	28.0	234.0	85.0	34.5	22.0	20.0
Merged-chr15-68060866-4	chr15	68060757	68060957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	197999.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	119.0	164.0	111.5	1648.5	256.0	68.0	81.5	70.0
Merged-chr2-103627368-4	chr2	103627248	103627448	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	B3|SINE|B2	61038.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	42.5	46.5	38.5	449.5	61.5	14.5	11.0	18.5
Merged-chr17-5830155-3	chr17	5830053	5830253	+	928.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11227.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	8.0	10.0	7.0	197.0	22.5	5.0	8.0	4.5
Merged-chr14-73390403-4	chr14	73390305	73390505	+	887.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-5116.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	8.5	11.5	11.5	138.0	28.0	7.0	13.5	12.0
Merged-chr4-126210131-4	chr4	126210043	126210243	+	907.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7433.0	NM_146153	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	9.0	12.5	6.0	103.5	42.5	15.0	23.5	23.5
Merged-chr10-67204707-2	chr10	67204607	67204807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 3 of 25)	intron (NM_207221, intron 3 of 25)	18957.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	19.5	13.5	43.5	328.0	37.5	6.0	10.5	12.5
Merged-chr3-98005525-4	chr3	98005441	98005641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7997.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	40.0	51.0	29.5	494.5	83.5	44.5	26.0	26.0
Merged-chr18-77713490-3	chr18	77713309	77713509	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027978)	promoter-TSS (NR_027978)	601.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	5.5	10.5	5.5	128.5	24.5	5.5	7.5	9.5
Merged-chr14-65358943-2	chr14	65358843	65359043	+	935.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 1 of 9)	CpG	267.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	14.0	5.5	10.5	63.5	21.0	6.0	6.5	13.0
Merged-chr7-128128892-4	chr7	128128760	128128960	+	888.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021334)	promoter-TSS (NM_021334)	-708.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	5.0	7.0	2.5	100.0	13.5	5.5	7.0	10.5
Merged-chr7-122459383-4	chr7	122459264	122459464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 5 of 16)	intron (NM_001316672, intron 5 of 16)	170239.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	35.5	67.0	24.0	543.5	88.5	35.5	35.5	26.0
Merged-chr1-134151892-4	chr1	134151792	134151992	+	815.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001284524)	TTS (NM_001284524)	-30512.0	NM_007695	12654.0	Mm.38274	NM_007695	ENSMUSG00000064246	Chil1	AW208766|Brp39|Chi3l1|Gp39	chitinase-like 1	protein-coding	3.0	17.5	7.0	109.0	18.5	9.5	12.5	10.5
Merged-chr17-21962683-4	chr17	21962590	21962790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199048)	promoter-TSS (NM_001199048)	131.0	NM_001025373	74670.0	Mm.26540	NM_001025373	ENSMUSG00000053347	Zfp943	4930432O21Rik	zinc finger prtoein 943	protein-coding	47.5	74.5	71.5	551.0	85.0	33.5	61.5	52.5
Merged-chr17-50393478-4	chr17	50393376	50393576	+	989.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99856.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	9.0	60.5	20.5	198.5	136.0	30.0	34.5	25.0
Merged-chr8-13674887-4	chr8	13674811	13675011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	2676.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	28.0	46.5	44.0	570.0	83.5	26.0	38.5	35.0
Merged-chr10-115383791-4	chr10	115383658	115383858	+	866.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025780, intron 1 of 2)	intron (NM_025780, intron 1 of 2)	677.0	NM_025780	66816.0	Mm.32314	NM_025780	ENSMUSG00000020137	Thap2	2900040O07Rik|9030625G08Rik|AI450385|AI649097	THAP domain containing, apoptosis associated protein 2	protein-coding	9.5	25.0	12.5	271.5	24.5	3.5	10.5	10.0
Merged-chr4-124803080-4	chr4	124802941	124803141	+	742.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008636, intron 1 of 10)	intron (NM_008636, intron 1 of 10)	492.0	NM_008636	17764.0	Mm.272397	NM_008636	ENSMUSG00000028890	Mtf1	MTF-1|Thyls	metal response element binding transcription factor 1	protein-coding	14.0	15.5	9.5	150.0	31.5	12.0	7.5	6.5
Merged-chr10-81384308-4	chr10	81384213	81384413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133964)	promoter-TSS (NM_133964)	-115.0	NM_133964	102115.0	Mm.294975	NM_133964	ENSMUSG00000078440	Dohh	1110033C18Rik|AI585913|AL022869|Hlrc1	deoxyhypusine hydroxylase/monooxygenase	protein-coding	173.0	311.5	210.0	2943.5	430.5	204.5	229.0	200.5
Merged-chr19-6418686-4	chr19	6418602	6418802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205235)	promoter-TSS (NM_001205235)	-36.0	NM_001205235	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	36.5	46.5	26.5	382.5	80.0	26.0	37.0	41.5
Merged-chr13-93772207-4	chr13	93772107	93772307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009712, intron 1 of 7)	intron (NM_009712, intron 1 of 7)	528.0	NM_009712	11881.0	Mm.300178	NM_009712	ENSMUSG00000042082	Arsb	1110007C02Rik|AI480648|As-1|As-1r|As-1s|As-1t|As1|As1-r|As1-s|As1-t|Asr-1|Ast-1	arylsulfatase B	protein-coding	72.5	70.5	36.0	868.0	119.0	46.0	62.0	57.5
Merged-chr13-94868798-4	chr13	94868706	94868906	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6821.0	NM_011021	18420.0	Mm.42051	NM_011021	ENSMUSG00000021685	Otp	-	orthopedia homeobox	protein-coding	33.5	38.5	15.0	432.5	74.0	20.0	29.5	17.0
Merged-chr10-21994618-4	chr10	21994498	21994698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011361)	promoter-TSS (NM_011361)	-68.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	191.0	291.5	209.0	2159.5	357.0	154.0	178.0	156.0
Merged-chr17-43077182-4	chr17	43077058	43077258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 4 of 5)	intron (NM_178589, intron 4 of 5)	60603.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	55.0	71.5	50.5	891.0	97.5	34.5	48.0	34.5
Merged-chr11-111159494-4	chr11	111159411	111159611	+	899.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93347.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	18.0	14.0	6.0	203.5	65.5	22.0	11.0	16.0
Merged-chr2-129333617-2	chr2	129333502	129333702	+	576.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23630.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	0.5	0.0	0.0	0.0	9.5	9.0	8.0	5.0
Merged-chr6-121336781-4	chr6	121336678	121336878	+	796.612488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144512, intron 13 of 14)	intron (NM_144512, intron 13 of 14)	-6298.0	NM_001347433	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	7.5	10.0	13.0	128.5	35.5	3.0	16.0	10.5
Merged-chr19-46486881-4	chr19	46486790	46486990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_015752, exon 12 of 12)	3' UTR (NM_015752, exon 12 of 12)	-14758.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	55.5	48.0	39.0	609.0	113.0	32.0	40.0	44.0
Merged-chr16-11144119-4	chr16	11144022	11144222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027502, intron 19 of 22)	LSU-rRNA_Hsa|rRNA|rRNA	-9590.0	NM_029582	106200.0	Mm.291015	NM_029582	ENSMUSG00000022498	Txndc11	2810408E11Rik|AI427833|EFP1|Txdc11	thioredoxin domain containing 11	protein-coding	136.5	201.0	176.5	199.5	270.0	110.5	124.0	223.5
Merged-chr6-71493932-4	chr6	71493839	71494039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308303)	promoter-TSS (NM_001308303)	62.0	NM_001308303	22644.0	Mm.422969	NM_009543	ENSMUSG00000052656	Rnf103	AW146237|AW212918|Zfp103|kf-1	ring finger protein 103	protein-coding	72.5	128.0	82.0	1338.5	183.0	53.5	86.0	76.5
Merged-chr1-120524369-4	chr1	120524263	120524463	+	984.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19339.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	13.5	60.0	51.5	217.5	203.5	52.0	69.0	58.5
Merged-chr7-51982048-1	chr7	51981948	51982148	+	924.5	f0_balb.idr	intron (NM_001330607, intron 7 of 7)	intron (NM_001330607, intron 7 of 7)	23666.0	NR_027704	75744.0	Mm.386823	NM_001160345	ENSMUSG00000074093	Svip	1700006C13Rik|6620401M08Rik	small VCP/p97-interacting protein	protein-coding	12.0	6.5	11.5	208.5	0.0	0.0	0.5	0.5
Merged-chr11-88203839-2	chr11	88203733	88203933	+	865.625	f0_balb.idr|f0_c57.idr	promoter-TSS (NR_111902)	promoter-TSS (NR_111902)	-555.0	NM_024174	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	11.5	13.5	8.0	175.5	32.0	10.5	26.0	15.5
Merged-chr16-91840364-4	chr16	91840305	91840505	+	863.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 18 of 28)	intron (NM_001110275, intron 18 of 28)	91225.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	6.5	5.5	19.0	135.0	10.0	10.0	7.5	10.0
Merged-chr2-127142336-3	chr2	127142216	127142416	+	928.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355634, intron 1 of 2)	intron (NM_001355634, intron 1 of 2)	274.0	NM_001163528	73338.0	Mm.57559	NM_001163527	ENSMUSG00000074825	Itpripl1	1700041B20Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 1	protein-coding	14.0	12.0	8.0	199.5	11.0	9.0	8.5	10.5
Merged-chr13-26317231-4	chr13	26317122	26317322	+	943.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-4816.0	NR_045933	73576.0	Mm.45473	NR_045933	ENSMUSG00000084811	1700092E19Rik	-	RIKEN cDNA 1700092E19 gene	ncRNA	4.0	20.5	10.5	153.5	43.5	24.0	18.5	9.5
Merged-chr15-77805869-4	chr15	77805848	77806048	+	935.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	36227.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	25.0	20.5	12.0	175.5	53.0	21.5	15.0	14.5
Merged-chr7-120835093-4	chr7	120834993	120835193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7738.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	40.5	49.5	40.0	664.5	145.5	65.0	53.5	54.0
Merged-chr3-95740274-2	chr3	95740174	95740374	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252653)	promoter-TSS (NM_001252653)	-705.0	NM_001252653	13601.0	Mm.3433	NM_007899	ENSMUSG00000028108	Ecm1	AI663821|p85	extracellular matrix protein 1	protein-coding	9.0	20.0	13.5	198.0	29.5	8.5	9.5	9.5
Merged-chr10-77972002-4	chr10	77971901	77972101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2129.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	28.5	51.0	63.5	643.5	92.5	37.5	32.0	31.5
Merged-chr13-8777875-3	chr13	8777771	8777971	+	933.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93173.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	7.0	8.0	11.0	194.0	8.0	6.5	2.0	2.5
Merged-chr19-42156408-3	chr19	42156314	42156514	+	864.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	9025.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	8.0	8.0	7.0	91.5	10.0	1.0	7.0	6.0
Merged-chr1-7077998-3	chr1	7077878	7078078	+	843.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-10942.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	8.0	8.5	7.0	132.0	7.0	0.0	2.0	0.5
Merged-chr7-16615339-4	chr7	16615228	16615428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172739)	promoter-TSS (NM_172739)	-335.0	NM_172739	232906.0	Mm.28646	NM_172739	ENSMUSG00000058230	Arhgap35	6430596G11Rik|AI841135|Grlf1|mKIAA1722|p190A|p190RhoGAP	Rho GTPase activating protein 35	protein-coding	279.0	436.0	335.5	4413.5	645.0	283.5	382.0	266.5
Merged-chr8-109692921-4	chr8	109692831	109693031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155034, intron 1 of 10)	CpG	363.0	NR_155034	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	46.5	83.5	80.0	598.5	121.0	44.5	48.0	70.0
Merged-chr9-61948209-4	chr9	61948124	61948324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1425.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	25.5	67.5	16.5	333.0	102.5	32.5	46.5	30.0
Merged-chr1-61351047-4	chr1	61350961	61351161	+	895.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27371.0	NR_040483	77341.0	Mm.402964	NR_040483	ENSMUSG00000085447	9530026F06Rik	-	RIKEN cDNA 9530026F06 gene	ncRNA	8.0	5.0	22.0	256.5	40.0	8.5	10.5	14.5
Merged-chr15-89182532-5	chr15	89182434	89182634	+	801.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027081, exon 20 of 20)	3' UTR (NM_027081, exon 20 of 20)	-1746.0	NM_138749	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	6.0	3.5	5.5	91.0	8.5	5.5	4.5	7.5
Merged-chr18-88845716-4	chr18	88845626	88845826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48481.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	26.0	25.0	30.0	414.0	69.5	37.0	44.5	34.5
Merged-chr18-10182229-4	chr18	10182110	10182310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009071)	promoter-TSS (NM_009071)	-418.0	NM_009071	19877.0	Mm.6710	NM_009071	ENSMUSG00000024290	Rock1	1110055K06Rik|Rock-I	Rho-associated coiled-coil containing protein kinase 1	protein-coding	236.5	414.5	246.5	3348.5	622.0	298.0	310.5	228.0
Merged-chr5-122219196-4	chr5	122219079	122219279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359454, intron 3 of 7)	intron (NM_001359454, intron 3 of 7)	8892.0	NM_028752	74096.0	Mm.28804	NM_028752	ENSMUSG00000064267	Hvcn1	0610039P13Rik|AI450555|BTS|HV1|Vsop.|mVSOP	hydrogen voltage-gated channel 1	protein-coding	40.5	112.0	57.5	375.5	85.5	24.0	42.0	24.0
Merged-chr4-139238758-3	chr4	139238649	139238849	+	906.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	44638.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	21.5	18.5	12.0	315.5	7.5	4.5	6.5	3.0
Merged-chr11-67657895-3	chr11	67657803	67658003	+	842.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109657, intron 5 of 13)	intron (NM_001109657, intron 5 of 13)	-37423.0	NM_009038	19674.0	Mm.439726	NM_009038	ENSMUSG00000020907	Rcvrn	CAR|S-modulin	recoverin	protein-coding	2.0	14.5	6.0	48.5	37.5	15.0	11.5	11.5
Merged-chr16-33560463-4	chr16	33560368	33560568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 4 of 11)	intron (NM_001083902, intron 4 of 11)	41873.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	71.0	101.0	57.0	1131.5	164.5	68.5	62.0	55.0
Merged-chr4-59416633-3	chr4	59416497	59416697	+	624.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 3 of 16)	intron (NM_001163288, intron 3 of 16)	22036.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	2.5	2.5	4.0	77.5	10.5	7.0	4.5	6.5
Merged-chr14-73139953-4	chr14	73139849	73140049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-2561.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	33.5	61.0	59.0	550.0	78.5	29.0	34.0	49.5
Merged-chr8-84070379-4	chr8	84070266	84070466	+	998.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	intron (NM_009055, intron 1 of 20)	3530.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	14.5	33.0	29.5	235.0	44.5	17.0	21.5	22.0
Merged-chr18-82856608-4	chr18	82856517	82856717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_125720, exon 2 of 3)	non-coding (NR_125720, exon 2 of 3)	720.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	35.0	75.5	25.0	580.5	124.5	63.5	56.5	47.5
Merged-chr6-135065508-4	chr6	135065392	135065592	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181444)	promoter-TSS (NM_181444)	-170.0	NM_181444	232431.0	Mm.23575	NM_181444	ENSMUSG00000046733	Gprc5a	Rai3|Raig1	G protein-coupled receptor, family C, group 5, member A	protein-coding	13.5	35.0	20.5	507.5	10.0	13.5	22.5	19.5
Merged-chr17-45748625-3	chr17	45748522	45748722	+	798.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 1 of 4)	intron (NR_152153, intron 1 of 4)	14116.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	5.0	7.5	2.0	50.5	29.5	8.0	5.5	9.0
Merged-chr7-35127918-4	chr7	35127817	35128017	+	851.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	8624.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	9.0	11.0	7.0	192.0	18.0	9.5	17.5	13.5
Merged-chr12-35539202-3	chr12	35539083	35539283	+	813.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4194.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	6.0	6.0	8.5	215.5	10.0	4.5	10.0	5.5
Merged-chr14-65345662-4	chr14	65345581	65345781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12995.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	121.5	156.5	123.5	1643.5	303.0	105.5	104.5	132.5
Merged-chr9-7837067-4	chr9	7836977	7837177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291503)	promoter-TSS (NM_001291503)	-20.0	NM_007465	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	318.0	438.5	425.5	4435.0	972.5	368.0	438.5	294.5
Merged-chr17-66111617-4	chr17	66111524	66111724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037757)	promoter-TSS (NM_001037757)	-21.0	NM_001037757	68767.0	Mm.296545	NM_026833	ENSMUSG00000024101	Washc1	1110049F14Rik|ORF19|Wash|Wash1	WASH complex subunit 1	protein-coding	114.0	152.5	147.0	1866.5	262.5	81.5	134.5	132.5
Merged-chr13-60724190-4	chr13	60723955	60724155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 11 of 26)	(CA)n|Simple_repeat|Simple_repeat	62309.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	87.5	107.0	94.0	912.5	68.5	29.0	18.0	27.0
Merged-chr9-44462170-4	chr9	44462129	44462329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7462.0	NM_009476	22269.0	Mm.4453	NM_009476	ENSMUSG00000041523	Upk2	AW491716|UPII	uroplakin 2	protein-coding	42.0	63.5	40.5	887.5	119.5	36.5	37.0	49.0
Merged-chr15-65872738-4	chr15	65872627	65872827	+	904.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001356582, exon 23 of 23)	3' UTR (NM_001356582, exon 23 of 23)	39527.0	NM_001347038	18256.0	Mm.41776	NM_010953	ENSMUSG00000015001	Oc90	Ocn-95|PLA2L|Pla2ll|oc95	otoconin 90	protein-coding	29.5	17.0	19.5	267.0	21.5	7.5	13.0	20.0
Merged-chr15-80798026-4	chr15	80797923	80798123	+	784.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177124)	promoter-TSS (NM_177124)	-587.0	NM_177124	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	10.0	15.0	10.5	129.0	28.0	21.5	3.5	10.0
Merged-chr11-98457907-4	chr11	98457783	98457983	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	11049.0	NM_010346	14786.0	Mm.276702	NM_010346	ENSMUSG00000019312	Grb7	mKIAA4028	growth factor receptor bound protein 7	protein-coding	17.0	23.0	9.5	142.0	46.5	13.5	12.0	10.5
Merged-chr17-6986277-3	chr17	6986178	6986378	+	901.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026611, intron 4 of 8).2	intron (NM_026611, intron 4 of 8).2	7418.0	NM_026611	68195.0	Mm.181237	NM_026611	ENSMUSG00000094724	Rnaset2b	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2B	protein-coding	13.0	30.0	13.0	125.5	16.5	11.0	2.5	1.0
Merged-chr9-66213011-3	chr9	66212904	66213104	+	954.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010019, intron 2 of 11)	intron (NM_010019, intron 2 of 11)	54778.0	NM_010019	13143.0	Mm.304472	NM_010019	ENSMUSG00000032380	Dapk2	-	death-associated protein kinase 2	protein-coding	7.0	47.5	7.5	56.0	45.5	12.5	8.5	6.0
Merged-chr15-76239260-4	chr15	76239172	76239372	+	941.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163576, intron 8 of 9)	intron (NM_001163576, intron 8 of 9)	4168.0	NM_001163576	671535.0	Mm.373750	NM_001163575	ENSMUSG00000063268	Parp10	-	poly (ADP-ribose) polymerase family, member 10	protein-coding	13.5	31.0	13.5	243.5	60.0	20.0	12.5	29.0
Merged-chr11-54812947-4	chr11	54812853	54813053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6966.0	NR_040284	432562.0	Mm.406948	NR_040284	ENSMUSG00000086789	Lyrm7os	Gm12228	LYR motif containing 7, opposite strand	ncRNA	74.0	118.5	67.0	1448.0	186.5	46.0	64.0	69.5
Merged-chr10-39171885-4	chr10	39171791	39171991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8097.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	34.0	66.5	39.5	658.5	83.5	44.5	51.5	36.5
Merged-chr6-88066867-4	chr6	88066772	88066972	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-17601.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	11.0	16.5	11.5	180.5	23.5	16.0	15.5	11.5
Merged-chr5-16470505-3	chr5	16470405	16470605	+	886.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82990.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	6.0	10.0	14.5	136.5	2.5	7.0	3.5	8.0
Merged-chr4-59823712-4	chr4	59823610	59823810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	intron (NM_172468, intron 1 of 8)	18060.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	52.5	66.5	62.5	1387.5	59.5	28.0	41.5	34.5
Merged-chr10-99250847-3	chr10	99250715	99250915	+	883.488892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12416.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	14.0	6.5	6.0	114.5	7.0	3.0	1.5	4.0
Merged-chr13-5922902-4	chr13	5922789	5922989	+	878.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61400.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	9.5	15.0	5.0	205.0	44.5	10.0	13.5	11.0
Merged-chr6-112696282-4	chr6	112696171	112696371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167730, intron 1 of 13)	intron (NM_001167730, intron 1 of 13)	399.0	NM_021385	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	29.5	57.0	25.0	408.0	104.5	40.5	34.5	31.5
Merged-chr2-91441848-4	chr2	91441770	91441970	+	881.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 1 of 8)	intron (NM_175123, intron 1 of 8)	2844.0	NM_001311144	228356.0	Mm.386861	NM_175123	ENSMUSG00000040591	1110051M20Rik	AI586322	RIKEN cDNA 1110051M20 gene	protein-coding	18.5	9.5	19.0	273.5	23.5	8.5	19.5	11.0
Merged-chr8-36264849-1	chr8	36264749	36264949	+	566.0	f1_c57bl6.idr	Intergenic	Intergenic	-15333.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	3.0	4.0	2.0	42.5	20.0	6.0	15.0	4.5
Merged-chr11-34058375-4	chr11	34058273	34058473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	MTD|LTR|ERVL-MaLR	11445.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	88.5	148.0	55.5	990.0	267.0	85.5	96.0	75.0
Merged-chr1-86437592-4	chr1	86437463	86437663	+	943.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11234.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	17.5	37.0	14.5	207.5	51.5	23.0	15.0	10.5
Merged-chr3-137942400-4	chr3	137942318	137942518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	23863.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	57.0	106.5	39.5	342.0	141.0	50.0	29.0	22.5
Merged-chr5-20812090-4	chr5	20811986	20812186	+	877.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172992, intron 3 of 17)	intron (NM_172992, intron 3 of 17)	70038.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	8.5	22.0	20.0	414.5	25.0	12.0	6.0	8.5
Merged-chr1-20497752-3	chr1	20497653	20497853	+	869.544434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153179, intron 35 of 66)	(CTG)n|Simple_repeat|Simple_repeat	120304.0	NM_153179	241035.0	Mm.249253	NM_153179	ENSMUSG00000043760	Pkhd1	AI118496|AI182499|FPC|Tigm1	polycystic kidney and hepatic disease 1	protein-coding	15.0	14.0	15.5	277.5	16.0	5.0	7.0	7.0
Merged-chr7-102204726-4	chr7	102204620	102204820	+	944.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287166, intron 1 of 19)	MTD|LTR|ERVL-MaLR	5147.0	NM_001287167	269966.0	Mm.439800	NM_022979	ENSMUSG00000063550	Nup98	4732457F17|AI849286|Nup96	nucleoporin 98	protein-coding	24.5	22.5	12.5	116.5	63.0	20.5	31.0	28.0
Merged-chr3-18625028-6	chr3	18624971	18625171	+	974.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144594.0	NR_040544	73959.0	Mm.60616	NR_040544	ENSMUSG00000102699	4930433B08Rik	-	RIKEN cDNA 4930433B08 gene	ncRNA	15.5	12.5	29.5	200.0	21.0	11.0	5.5	14.5
Merged-chr5-120613397-4	chr5	120613269	120613469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029096)	promoter-TSS (NM_029096)	239.0	NM_028041	71990.0	Mm.24495	NM_028041	ENSMUSG00000029599	Ddx54	2410015A15Rik|AI414901|DP97	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	protein-coding	131.5	184.5	96.5	1325.0	267.0	101.5	124.0	119.5
Merged-chr12-85647498-4	chr12	85647388	85647588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-39232.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	40.5	55.0	49.0	665.0	103.0	21.5	60.0	37.0
Merged-chr17-25282305-4	chr17	25282202	25282402	+	953.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31B2|LTR|ERVK	-7992.0	NM_011665	22196.0	Mm.240044	NM_011665	ENSMUSG00000015120	Ube2i	5830467E05Rik|UBC9|Ubce2i|Ubce9	ubiquitin-conjugating enzyme E2I	protein-coding	26.0	31.5	13.5	314.0	40.5	15.5	16.0	18.0
Merged-chr7-110250896-4	chr7	110250807	110251007	+	889.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 2 of 11)	L1MB8|LINE|L1	29204.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	17.5	11.0	9.5	219.0	23.0	10.5	7.0	18.0
Merged-chr10-5288483-4	chr10	5288380	5288580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347711, intron 55 of 145)	intron (NM_001347711, intron 55 of 145)	-93773.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	63.0	70.0	47.5	988.0	49.5	22.0	37.0	46.0
Merged-chr14-103033615-4	chr14	103033516	103033716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 1 of 2)	intron (NR_045657, intron 1 of 2)	187.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	139.5	287.5	195.0	2594.5	429.0	185.0	197.0	148.5
Merged-chr15-100060990-2	chr15	100060890	100061090	+	926.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	22326.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	9.0	12.0	5.0	118.0	13.5	4.5	7.5	8.5
Merged-chr2-91976206-2	chr2	91976109	91976309	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12646.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	5.0	1.5	0.5	53.5	16.0	7.0	5.0	8.0
Merged-chr6-58611969-4	chr6	58611844	58612044	+	925.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011920, intron 1 of 15)	RMER17C2|LTR|ERVK	15272.0	NM_011920	26357.0	Mm.333096	NM_011920	ENSMUSG00000029802	Abcg2	ABC15|ABCP|AI428558|BCRP|Bcrp1|MXR|MXR1	ATP binding cassette subfamily G member 2 (Junior blood group)	protein-coding	18.0	14.5	15.0	235.0	32.5	18.5	16.5	11.5
Merged-chr4-116246110-3	chr4	116245954	116246154	+	889.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355586, intron 1 of 9)	B2_Mm1t|SINE|B2	23307.0	NM_001355586	18710.0	Mm.253819	NM_181585	ENSMUSG00000028698	Pik3r3	AA414954|p55|p55pik	phosphoinositide-3-kinase regulatory subunit 3	protein-coding	2.0	7.5	6.0	69.0	14.0	10.0	14.5	7.0
Merged-chr7-81199958-4	chr7	81199854	81200054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13850.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	39.0	45.5	41.5	675.0	77.0	24.0	53.0	29.0
Merged-chr8-22059983-3	chr8	22059879	22060079	+	786.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243161)	promoter-TSS (NM_001243161)	95.0	NM_007511	11979.0	Mm.87854	NM_007511	ENSMUSG00000006567	Atp7b	Atp7a|WND|tx	ATPase, Cu++ transporting, beta polypeptide	protein-coding	9.0	17.0	13.5	189.0	29.0	14.5	11.0	8.0
Merged-chr14-75845207-4	chr14	75845128	75845328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045294)	promoter-TSS (NR_045294)	-28.0	NM_009429	22070.0	Mm.297482	NM_009429	ENSMUSG00000060126	Tpt1	TCTP|Trt|p21|p23	tumor protein, translationally-controlled 1	protein-coding	312.0	574.5	379.5	5845.5	921.0	410.5	523.5	371.5
Merged-chr5-72172837-4	chr5	72172728	72172928	+	978.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4639.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	23.0	44.0	19.5	446.0	57.5	32.5	17.5	15.5
Merged-chr7-98836764-4	chr7	98836676	98836876	+	863.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285792, intron 2 of 6)	intron (NM_001285792, intron 2 of 6)	1664.0	NM_001285792	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	13.0	7.5	13.0	206.0	10.0	6.5	9.5	14.5
Merged-chr11-98052757-3	chr11	98052646	98052846	+	908.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146028, intron 1 of 10)	CpG	716.0	NM_146028	217154.0	Mm.181008	NM_146028	ENSMUSG00000017400	Stac2	24b2|24b2/STAC2|AW240854	SH3 and cysteine rich domain 2	protein-coding	12.5	14.0	6.0	124.5	14.5	4.0	5.0	5.0
Merged-chr8-27022562-4	chr8	27022455	27022655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1244.0	NM_153592	244373.0	Mm.277699	NM_153592	ENSMUSG00000031483	Erlin2	BC036333|C87251|Spfh2	ER lipid raft associated 2	protein-coding	34.5	37.0	24.0	594.0	111.5	30.5	29.5	27.0
Merged-chr10-127636823-4	chr10	127636707	127636907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6179.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	73.5	116.5	70.5	777.5	158.5	35.0	44.0	64.5
Merged-chr16-91441656-4	chr16	91441550	91441750	+	905.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-23454.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	5.5	16.5	6.5	194.0	39.5	13.0	17.5	20.0
Merged-chr16-48829279-3	chr16	48829175	48829375	+	697.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12419.0	NM_023881	57263.0	Mm.21123	NM_023881	ENSMUSG00000022650	Retnlb	9030012B21Rik|Fizz2|RELMbeta|Relmb|Xcp3	resistin like beta	protein-coding	6.0	4.5	10.0	112.0	19.5	1.0	5.5	3.0
Merged-chr5-121220190-4	chr5	121220082	121220282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181421)	promoter-TSS (NM_181421)	-37.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	46.5	73.0	22.5	624.5	127.5	55.0	51.5	54.5
Merged-chr17-26538241-4	chr17	26538146	26538346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23266.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	65.0	112.0	70.5	950.5	218.5	57.0	58.5	78.0
Merged-chr10-63024755-3	chr10	63024641	63024841	+	858.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001079824)	promoter-TSS (NM_001079824)	229.0	NM_026085	67307.0	Mm.368563	NM_026085	ENSMUSG00000020072	Pbld2	3110049J23Rik|Mawbp	phenazine biosynthesis-like protein domain containing 2	protein-coding	9.5	7.5	13.0	77.0	17.5	4.0	11.0	12.0
Merged-chr5-125393254-4	chr5	125393149	125393349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3232.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	282.5	412.5	300.5	4373.0	770.0	366.0	402.5	362.0
Merged-chr1-39846819-2	chr1	39846719	39846919	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_040465, intron 1 of 4)	intron (NR_040465, intron 1 of 4)	511.0	NR_040465	73426.0	Mm.396239	NR_040465	ENSMUSG00000101634	1700066B17Rik	-	RIKEN cDNA 1700066B17 gene	ncRNA	3.5	12.0	5.5	30.5	27.0	5.5	16.0	7.0
Merged-chr19-44295406-2	chr19	44295306	44295506	+	810.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009128, intron 2 of 5)	intron (NM_009128, intron 2 of 5)	1730.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	1.5	0.0	3.5	18.5	10.5	5.0	7.0	7.5
Merged-chr13-83715186-4	chr13	83715049	83715249	+	855.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6232.0	NR_152244	320203.0	Mm.245636	NM_177100	ENSMUSG00000050334	C130071C03Rik	2810449C10Rik|ECONEXIN|EyeLinc1|Visc-1	RIKEN cDNA C130071C03 gene	ncRNA	12.5	20.0	22.0	230.0	25.5	6.5	10.5	17.0
Merged-chr4-42999879-4	chr4	42999765	42999965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009503, intron 1 of 16)	CpG	642.0	NM_009503	269523.0	Mm.245976	NM_009503	ENSMUSG00000028452	Vcp	3110001E05|CDC48|p97|p97/VCP	valosin containing protein	protein-coding	32.0	69.5	90.0	531.0	111.5	48.5	40.0	74.0
Merged-chr6-39592651-4	chr6	39592548	39592748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358797)	promoter-TSS (NM_001358797)	83.0	NR_152450	68198.0	Mm.29415	NM_026612	ENSMUSG00000002416	Ndufb2	1810011O01Rik|8kDa|AGGG|AI325567|CI-AGGG	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2	protein-coding	94.5	153.0	136.5	1268.0	163.5	74.0	90.0	82.5
Merged-chr2-65238673-3	chr2	65238558	65238758	+	811.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027225)	promoter-TSS (NM_027225)	-32.0	NM_027225	319876.0	Mm.34159	NM_027225	ENSMUSG00000034903	Cobll1	1810047P18Rik|Coblr1|D430044D16Rik	Cobl-like 1	protein-coding	5.0	14.5	14.5	120.5	15.0	4.5	5.5	6.5
Merged-chr17-33358870-4	chr17	33358760	33358960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207541)	promoter-TSS (NM_207541)	18.0	NM_207541	224694.0	Mm.170029	NM_207541	ENSMUSG00000003929	Zfp81	AA409460|AA409461|C330034P10Rik|D330034E10Rik|Hszfp36|KRAB13|Zfp78	zinc finger protein 81	protein-coding	26.0	58.0	25.5	507.0	113.5	47.0	46.0	35.5
Merged-chr13-44660006-4	chr13	44659918	44660118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70756.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	141.0	251.5	119.5	1472.0	283.0	125.0	111.5	116.5
Merged-chr14-77905962-4	chr14	77905851	77906051	+	814.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 1 of 11)	intron (NM_029495, intron 1 of 11)	1712.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	10.5	2.0	3.0	114.5	19.5	10.5	8.5	13.5
Merged-chr7-139248257-4	chr7	139248141	139248341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033206)	promoter-TSS (NM_001033206)	-241.0	NM_001033206	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	109.0	168.5	137.0	1365.0	261.5	142.0	119.0	124.5
Merged-chr9-118607368-7	chr9	118607368	118607568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	759.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	13.5	47.0	52.5	368.0	56.5	18.5	46.5	51.0
Merged-chr12-72362091-7	chr12	72361989	72362189	+	993.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153457, intron 1 of 8)	intron (NM_153457, intron 1 of 8)	46965.0	NM_001286448	104001.0	Mm.221275	NM_153457	ENSMUSG00000021087	Rtn1	Nsp	reticulon 1	protein-coding	8.0	19.5	17.0	246.0	36.5	18.0	20.0	24.5
Merged-chr6-35380084-4	chr6	35379980	35380180	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49234.0	NR_040526	73409.0	Mm.69443	NR_040526	ENSMUSG00000107341	1700065J11Rik	-	RIKEN cDNA 1700065J11 gene	ncRNA	23.5	24.0	11.0	311.0	49.0	14.0	23.5	21.0
Merged-chr2-18655013-4	chr2	18654920	18655120	+	912.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-17442.0	NM_147778	12238.0	Mm.249586	NM_147778	ENSMUSG00000051154	Commd3	AW550818|Bup|D2Ertd542e	COMM domain containing 3	protein-coding	11.0	25.0	19.0	259.0	45.0	7.0	19.5	17.0
Merged-chr1-127836811-4	chr1	127836699	127836899	+	971.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011737, intron 2 of 9)	MLT1A0|LTR|ERVL-MaLR	3491.0	NM_011737	22625.0	Mm.246566	NM_011737	ENSMUSG00000051590	Map3k19	Ysk4	mitogen-activated protein kinase kinase kinase 19	protein-coding	14.5	19.0	18.5	300.5	40.5	7.0	17.0	17.5
Merged-chr5-130079402-4	chr5	130079279	130079479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130476)	promoter-TSS (NM_001130476)	9.0	NM_001130476	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	86.0	126.0	64.5	1160.0	224.5	74.5	117.0	71.0
Merged-chr19-11540352-4	chr19	11540256	11540456	+	982.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025658, intron 1 of 6)	intron (NM_025658, intron 1 of 6)	3507.0	NM_025658	66607.0	Mm.441056	NM_025658	ENSMUSG00000024678	Ms4a4d	2210417J23Rik	membrane-spanning 4-domains, subfamily A, member 4D	protein-coding	36.0	26.0	12.0	308.5	60.0	18.0	37.5	26.5
Merged-chr6-115718436-4	chr6	115718333	115718533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40566.0	NM_144805	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	29.5	49.5	18.0	336.0	131.5	34.0	35.0	42.0
Merged-chr9-96535818-4	chr9	96535668	96535868	+	906.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-57093.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	7.5	4.0	3.5	77.0	13.0	8.5	7.5	11.0
Merged-chr6-124415506-1	chr6	124415406	124415606	+	622.0	f0_c57.idr	promoter-TSS (NM_001277330)	promoter-TSS (NM_001277330)	349.0	NM_001360570	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	7.0	6.0	8.0	52.0	27.0	14.0	6.5	10.5
Merged-chr7-16842841-4	chr7	16842755	16842955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252458)	promoter-TSS (NM_001252458)	-47.0	NM_001252458	101540.0	Mm.1881	NM_178900	ENSMUSG00000041187	Prkd2	AI325941|PKD2	protein kinase D2	protein-coding	69.5	117.5	75.0	983.5	141.5	64.0	88.0	63.5
Merged-chr11-53796068-3	chr11	53795961	53796161	+	938.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	25588.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	10.5	11.0	8.5	188.0	12.5	6.5	6.0	21.0
Merged-chr4-147125070-4	chr4	147124971	147125171	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-50795.0	NM_001039209	195531.0	Mm.270762	NM_001039209	ENSMUSG00000078496	Zfp982	Gm13152	zinc finger protein 982	protein-coding	21.0	18.5	39.5	310.5	35.0	28.5	31.5	22.0
Merged-chr3-122474295-1	chr3	122474195	122474395	+	588.666687	f0_balb.idr	intron (NM_013867, intron 3 of 11)	intron (NM_013867, intron 3 of 11)	-9274.0	NM_001355264	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	11.0	8.0	6.5	101.5	7.0	0.5	2.5	3.5
Merged-chr7-139969381-2	chr7	139969281	139969481	+	845.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	9374.0	NM_001347614	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	1.5	4.5	6.0	23.5	11.5	6.0	8.0	5.0
Merged-chr2-11005929-3	chr2	11005831	11006031	+	683.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-166451.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	5.0	13.0	19.0	135.5	2.0	0.0	2.5	0.5
Merged-chr6-120198150-3	chr6	120198069	120198269	+	854.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347432, intron 2 of 3)	intron (NM_001347432, intron 2 of 3)	4346.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	14.0	12.0	2.5	77.0	20.0	11.0	8.5	7.0
Merged-chr10-82083391-5	chr10	82083318	82083518	+	789.609558	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	35291.0	NM_001024626	408062.0	Mm.391409	NM_001024626	ENSMUSG00000061371	Zfp873	-	zinc finger protein 873	protein-coding	8.0	7.5	5.5	117.0	10.0	8.0	5.5	12.5
Merged-chr3-16181413-4	chr3	16181319	16181519	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-1746.0	NM_001358043	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	49.0	63.0	44.0	775.5	43.0	15.5	15.5	15.5
Merged-chr11-72690362-3	chr11	72690261	72690461	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009671, intron 1 of 24)	intron (NM_009671, intron 1 of 24)	359.0	NM_009671	11736.0	Mm.10313	NM_009671	ENSMUSG00000020790	Ankfy1	Ankhzn|ZFYVE14|mKIAA1255	ankyrin repeat and FYVE domain containing 1	protein-coding	23.5	24.5	31.0	280.0	48.0	21.0	22.0	17.0
Merged-chr7-64327156-4	chr7	64327059	64327259	+	895.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172742, intron 13 of 15)	intron (NM_172742, intron 13 of 15)	39489.0	NM_172742	233315.0	Mm.214959	NM_172742	ENSMUSG00000030522	Mtmr10	BB128963|C79734	myotubularin related protein 10	protein-coding	8.5	28.5	11.0	269.5	39.0	9.0	24.0	17.5
Merged-chr8-122835177-3	chr8	122835065	122835265	+	847.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13209.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	6.5	5.0	3.0	79.0	17.5	10.5	10.5	12.5
Merged-chr3-100568771-4	chr3	100568712	100568912	+	768.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010763, intron 12 of 12)	intron (NM_010763, intron 12 of 12)	-79620.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	2.5	6.5	8.0	84.0	7.0	8.5	4.5	8.5
Merged-chr6-83640805-3	chr6	83640700	83640900	+	910.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1-int|LTR|ERVL-MaLR	15316.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	5.0	11.5	12.0	256.0	22.5	7.0	8.0	7.5
Merged-chr6-134115787-4	chr6	134115692	134115892	+	988.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	80092.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	24.0	29.5	16.5	305.5	100.5	36.0	47.0	45.5
Merged-chr3-61415423-4	chr3	61415299	61415499	+	969.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50892.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	7.5	25.5	14.5	136.0	49.5	15.0	11.5	3.0
Merged-chr8-105481602-2	chr8	105481502	105481702	+	802.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175160, intron 5 of 13)	intron (NM_175160, intron 5 of 13)	2825.0	NM_001357252	70796.0	Mm.100917	NM_175160	ENSMUSG00000039199	Zdhhc1	4432412D04Rik|DHHC-1	zinc finger, DHHC domain containing 1	protein-coding	5.0	10.0	6.5	63.0	7.5	0.5	1.0	2.0
Merged-chr19-44554754-4	chr19	44554652	44554852	+	803.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026061, intron 2 of 4)	intron (NM_026061, intron 2 of 4)	690.0	NM_001347447	67264.0	Mm.2060	NM_026061	ENSMUSG00000025204	Ndufb8	2900010I05Rik|AI987932|CI-ASHI	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 8	protein-coding	8.0	3.0	15.0	112.0	10.0	13.0	14.0	9.0
Merged-chr11-115670736-3	chr11	115670641	115670841	+	612.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	28793.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	4.0	9.5	0.5	95.0	6.0	5.5	5.5	7.5
Merged-chr9-108507963-4	chr9	108507880	108508080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133794)	promoter-TSS (NM_133794)	-25.0	NM_133794	97541.0	Mm.272427	NM_133794	ENSMUSG00000032604	Qars	1110018N24Rik|1200016L19Rik|C80286|GLNRS	glutaminyl-tRNA synthetase	protein-coding	111.5	183.0	97.5	1624.5	326.0	119.0	104.5	102.0
Merged-chr14-76171479-4	chr14	76171392	76171592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60601.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	29.0	49.5	27.5	512.5	82.5	25.0	33.5	23.0
Merged-chr6-87876422-3	chr6	87876300	87876500	+	843.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11540.0	NM_017477	54161.0	Mm.258785	NM_017477	ENSMUSG00000030058	Copg1	AU019265|BC056168|Copg|D6Ertd71e|D6Wsu16e	coatomer protein complex, subunit gamma 1	protein-coding	8.0	10.0	13.0	118.0	12.5	2.5	5.5	11.5
Merged-chr1-56971117-3	chr1	56970969	56971169	+	773.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024325)	promoter-TSS (NR_024325)	265.0	NM_139146	212712.0	Mm.145599	NM_139146	ENSMUSG00000038331	Satb2	mKIAA1034	special AT-rich sequence binding protein 2	protein-coding	5.0	10.0	2.0	37.5	8.5	4.5	6.0	6.0
Merged-chr13-52024944-4	chr13	52024842	52025042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71799.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	46.5	42.0	30.0	564.5	55.5	18.5	27.5	22.0
Merged-chr7-125472126-4	chr7	125472031	125472231	+	892.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026330, exon 3 of 8)	exon (NM_026330, exon 3 of 8)	19411.0	NM_001360659	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	8.0	9.0	13.5	156.5	32.0	10.5	11.5	17.0
Merged-chr3-59210135-4	chr3	59210043	59210243	+	909.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028808, exon 2 of 2)	exon (NM_028808, exon 2 of 2)	739.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	12.0	34.0	6.5	87.0	25.5	20.5	14.0	13.5
Merged-chr14-34312690-4	chr14	34312584	34312784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008133, intron 1 of 12)	intron (NM_008133, intron 1 of 12)	1957.0	NM_008133	14661.0	Mm.10600	NM_008133	ENSMUSG00000021794	Glud1	AI118167|Gdh-X|Glud|Gludl	glutamate dehydrogenase 1	protein-coding	21.5	21.0	22.0	381.5	48.5	17.0	19.0	25.5
Merged-chr19-58942994-4	chr19	58942891	58943091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178689)	promoter-TSS (NM_178689)	-434.0	NM_178689	226265.0	Mm.103154	NM_178689	ENSMUSG00000048029	Eno4	6430537H07Rik	enolase 4	protein-coding	13.0	47.5	44.0	616.5	101.0	42.5	34.0	54.0
Merged-chr11-5445659-4	chr11	5445531	5445731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080924)	promoter-TSS (NM_001080924)	-784.0	NM_001080924	407821.0	Mm.216313	NM_001080924	ENSMUSG00000041961	Znrf3	Gm1167	zinc and ring finger 3	protein-coding	66.5	83.0	68.5	962.5	135.5	59.0	53.5	52.5
Merged-chr12-55506161-4	chr12	55506055	55506255	+	690.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13508.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	12.0	14.5	3.5	87.5	36.0	12.5	9.5	12.5
Merged-chr12-21368585-4	chr12	21368577	21368777	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 1 of 18)	intron (NM_001291871, intron 1 of 18)	4955.0	NR_102380	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	3.5	5.5	14.5	146.5	132.5	41.0	56.0	35.5
Merged-chr5-86804692-4	chr5	86804584	86804784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177680, intron 1 of 16)	CpG	418.0	NM_001359907	231386.0	Mm.196325	NM_177680	ENSMUSG00000035851	Ythdc1	A730098D12Rik|C80342|mKIAA1966	YTH domain containing 1	protein-coding	55.5	108.5	98.5	1108.0	174.5	75.5	111.0	81.5
Merged-chr14-65374988-3	chr14	65374893	65375093	+	999.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 1 of 9)	intron (NM_199029, intron 1 of 9)	16317.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	3.5	31.5	21.0	268.5	25.5	6.0	7.0	8.5
Merged-chr1-57377605-4	chr1	57377499	57377699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037999)	promoter-TSS (NR_037999)	-21.0	NM_028546	73467.0	Mm.263673	NM_028546	ENSMUSG00000038323	1700066M21Rik	AI428479	RIKEN cDNA 1700066M21 gene	protein-coding	138.5	188.0	104.5	2267.5	333.5	120.0	172.5	137.0
Merged-chr7-127717196-4	chr7	127717068	127717268	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001301283, exon 3 of 3)	exon (NM_001301283, exon 3 of 3)	4231.0	NM_001301283	13019.0	Mm.389954	NM_007795	ENSMUSG00000042340	Ctf1	CT-1	cardiotrophin 1	protein-coding	22.0	48.0	13.0	338.5	58.0	19.0	13.5	12.5
Merged-chr2-78050736-3	chr2	78050660	78050860	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_108098)	promoter-TSS (NR_108098)	-417.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	5.5	12.0	7.0	204.5	10.0	4.5	9.0	12.0
Merged-chr7-25395289-4	chr7	25395190	25395390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073027, exon 2 of 6)	non-coding (NR_073027, exon 2 of 6)	577.0	NR_015569	654804.0	Mm.389841	NM_001039540	ENSMUSG00000053714	4732471J01Rik	-	RIKEN cDNA 4732471J01 gene	ncRNA	39.0	58.5	38.5	587.5	120.0	27.5	41.5	41.0
Merged-chr11-46462183-4	chr11	46462109	46462309	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134250, intron 3 of 6)	intron (NM_134250, intron 3 of 6)	7278.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	25.0	52.5	32.5	557.0	50.0	20.0	31.5	18.0
Merged-chr15-78257392-4	chr15	78257299	78257499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 7 of 9)	RSINE1|SINE|B4	12588.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	43.5	57.0	52.0	601.5	78.0	27.5	42.0	36.0
Merged-chr2-83941003-4	chr2	83940907	83941107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027964, intron 1 of 8)	intron (NM_027964, intron 1 of 8)	219.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	24.5	43.5	24.5	232.5	51.5	21.0	24.5	24.5
Merged-chr3-69721935-4	chr3	69721822	69722022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133787)	promoter-TSS (NM_133787)	-133.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	130.5	225.0	130.5	1861.0	341.0	130.5	154.5	139.0
Merged-chr12-3355246-4	chr12	3355110	3355310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-9922.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	41.0	81.5	32.0	475.0	132.5	44.0	50.5	45.5
Merged-chr4-132760491-4	chr4	132760397	132760597	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3326.0	NM_133888	100340.0	Mm.287187	NM_133888	ENSMUSG00000028885	Smpdl3b	1110054A24Rik|AU045240|Asml3b	sphingomyelin phosphodiesterase, acid-like 3B	protein-coding	51.5	66.0	36.0	644.0	67.5	29.5	33.5	22.5
Merged-chr14-106687597-2	chr14	106687489	106687689	+	644.466675	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-201069.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	12.0	14.0	11.0	510.5	3.5	0.5	2.0	2.0
Merged-chr11-44380853-4	chr11	44380644	44380844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-19319.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	11.0	8.0	15.0	58.5	35.5	9.0	16.5	23.5
Merged-chr16-5011414-4	chr16	5011315	5011515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133185, intron 5 of 10)	intron (NM_133185, intron 5 of 10)	2138.0	NM_133185	66049.0	Mm.27792	NM_133185	ENSMUSG00000022540	Rogdi	0610011C19Rik|AU020118|C76152|Lzf	rogdi homolog	protein-coding	34.0	39.0	35.0	290.5	75.5	19.5	20.5	19.0
Merged-chr1-92217414-4	chr1	92217310	92217510	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-37069.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	13.0	34.0	29.5	291.0	91.5	21.5	25.0	23.5
Merged-chr5-20943743-6	chr5	20943622	20943822	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	intron (NM_001080977, intron 1 of 7)	-7267.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	13.5	21.0	16.5	46.5	32.0	10.5	11.5	14.0
Merged-chr4-99061691-3	chr4	99061576	99061776	+	753.866638	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 11 of 47)	intron (NM_026082, intron 11 of 47)	30722.0	NM_013913	30924.0	Mm.28341	NM_013913	ENSMUSG00000028553	Angptl3	hypl	angiopoietin-like 3	protein-coding	2.5	6.0	4.0	88.5	23.0	10.5	5.0	14.5
Merged-chr8-13162320-4	chr8	13162224	13162424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010684, intron 1 of 8)	intron (NM_010684, intron 1 of 8)	3163.0	NM_010684	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	38.0	57.5	41.5	372.5	81.0	23.0	33.5	34.5
Merged-chr12-54986377-4	chr12	54986279	54986479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013815)	promoter-TSS (NM_013815)	-43.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	100.5	185.5	84.0	1324.0	286.5	97.0	90.0	95.0
Merged-chr3-34081290-4	chr3	34081197	34081397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286972)	promoter-TSS (NM_001286972)	57.0	NM_001026211	67713.0	Mm.274266	NM_026332	ENSMUSG00000027679	Dnajc19	1810055D05Rik|AA959924|Tim14	DnaJ heat shock protein family (Hsp40) member C19	protein-coding	78.5	109.5	93.5	1086.0	218.5	93.0	92.0	99.0
Merged-chr9-42128190-4	chr9	42128076	42128276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3879.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	30.5	49.0	38.0	514.5	143.5	47.5	76.0	31.0
Merged-chr9-20699364-3	chr9	20699278	20699478	+	664.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357639, intron 1 of 5)	LTR33A_|LTR|ERVL	27625.0	NM_001357635	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	9.0	1.5	4.5	84.0	11.0	5.0	6.5	6.0
Merged-chr13-83524334-3	chr13	83524212	83524412	+	952.638855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347568)	promoter-TSS (NM_001347568)	-431.0	NM_001347567	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	12.5	17.5	8.5	235.5	7.5	3.0	7.5	4.0
Merged-chr3-27291155-4	chr3	27291058	27291258	+	973.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-25919.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	18.5	44.0	14.5	146.0	117.0	32.5	34.0	24.0
Merged-chr17-74430673-4	chr17	74430570	74430770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 8 of 8)	MLT1J|LTR|ERVL-MaLR	28438.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	30.5	40.5	43.5	649.0	53.5	21.0	24.0	29.0
Merged-chr19-53904033-4	chr19	53903909	53904109	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168491, intron 1 of 11)	CpG	658.0	NM_001168491	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	15.0	11.0	19.0	296.0	18.5	17.0	8.5	15.0
Merged-chr2-160084934-4	chr2	160084847	160085047	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68294.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	37.5	35.5	31.5	522.0	60.0	10.5	16.5	12.0
Merged-chr17-70849877-4	chr17	70849783	70849983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164076)	promoter-TSS (NM_001164076)	-93.0	NM_001164076	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	89.0	145.0	100.0	1112.0	204.0	115.0	111.5	122.0
Merged-chr11-46812628-4	chr11	46812510	46812710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 1 of 8)	intron (NM_178759, intron 1 of 8)	1811.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	89.0	157.5	120.0	1390.0	204.5	69.0	79.0	40.5
Merged-chr13-67108697-4	chr13	67108592	67108792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256052, intron 2 of 6)	intron (NM_001256052, intron 2 of 6)	5336.0	NM_001256052	432770.0	Mm.124021	NM_001256052	ENSMUSG00000074824	Rslcan18	mszf51	regulator of sex-limitation candidate 18	protein-coding	163.0	197.5	124.5	2514.5	360.5	131.0	187.0	119.0
Merged-chr3-89250665-2	chr3	89250565	89250765	+	790.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_025327)	TTS (NM_025327)	4192.0	NM_001310625	66059.0	Mm.177991	NM_025327	ENSMUSG00000042747	Krtcap2	0610010I12Rik|Kcp2	keratinocyte associated protein 2	protein-coding	4.5	9.5	5.0	39.0	13.5	4.5	1.5	6.0
Merged-chr12-70227003-4	chr12	70226946	70227146	+	924.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045174)	promoter-TSS (NR_045174)	637.0	NM_133198	110095.0	Mm.256926	NM_133198	ENSMUSG00000021069	Pygl	-	liver glycogen phosphorylase	protein-coding	9.5	17.5	19.0	150.0	18.5	8.5	7.5	14.5
Merged-chr17-32114238-2	chr17	32114138	32114338	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22815.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	7.5	6.0	15.5	91.5	6.0	0.5	4.0	5.5
Merged-chr11-73138336-4	chr11	73138246	73138446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010353)	promoter-TSS (NM_010353)	-52.0	NM_010353	14841.0	Mm.42045	NM_010353	ENSMUSG00000050107	Haspin	Gsg2	histone H3 associated protein kinase	protein-coding	81.5	130.0	65.0	917.0	194.0	81.0	91.0	63.5
Merged-chr4-63594041-4	chr4	63593919	63594119	+	874.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6745.0	NM_001354647	670833.0	Mm.32213	NM_001354647	ENSMUSG00000084782	Gm11213	-	predicted gene 11213	protein-coding	5.5	8.0	8.5	187.0	28.5	7.5	16.0	14.0
Merged-chr9-21237257-4	chr9	21237150	21237350	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016679, exon 1 of 5)	exon (NM_016679, exon 1 of 5)	2082.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	29.5	28.0	21.5	352.0	46.0	26.5	22.5	16.5
Merged-chr10-30600667-4	chr10	30600574	30600774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028604)	promoter-TSS (NM_028604)	26.0	NM_028604	73681.0	Mm.294503	NM_028604	ENSMUSG00000019792	Trmt11	2410075D05Rik|3110045I18Rik|AW213713	tRNA methyltransferase 11	protein-coding	59.0	54.5	51.5	1099.0	175.0	38.0	53.0	46.5
Merged-chr2-52573730-4	chr2	52573670	52573870	+	859.679199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	-15159.0	NM_001285427	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	5.0	7.5	11.0	140.5	18.0	10.5	8.5	5.5
Merged-chr14-70176745-2	chr14	70176645	70176845	+	751.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253736)	promoter-TSS (NM_001253736)	70.0	NM_001253736	213019.0	Mm.283968	NM_145978	ENSMUSG00000022090	Pdlim2	4732462F18Rik|Slim	PDZ and LIM domain 2	protein-coding	12.0	7.0	1.5	57.5	8.5	11.0	6.5	8.5
Merged-chr19-4042317-4	chr19	4042229	4042429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181796)	promoter-TSS (NM_181796)	-108.0	NM_181796	14869.0	Mm.441542	NM_181796	ENSMUSG00000038155	Gstp2	GSTpiA|Gst-3|Gst3	glutathione S-transferase, pi 2	protein-coding	67.5	89.5	76.0	710.0	88.5	41.5	32.5	55.0
Merged-chr5-129874126-4	chr5	129874014	129874214	+	907.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_145487, intron 2 of 8)	intron (NR_145487, intron 2 of 8)	4974.0	NR_145486	18682.0	Mm.3159	NM_011079	ENSMUSG00000025537	Phkg1	Phkg	phosphorylase kinase gamma 1	protein-coding	6.0	13.0	8.5	232.5	26.0	7.5	21.0	7.5
Merged-chr1-64191727-4	chr1	64191635	64191835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70346.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	39.0	99.5	46.5	799.5	128.5	42.0	30.0	35.0
Merged-chr8-13624968-3	chr8	13624861	13625061	+	969.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 2 of 23)	intron (NM_009025, intron 2 of 23)	52626.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	15.0	8.5	17.5	323.0	10.5	8.5	4.5	4.0
Merged-chr11-101910412-2	chr11	101910312	101910512	+	999.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16058.0	NM_010791	17285.0	Mm.3404	NM_010791	ENSMUSG00000001493	Meox1	AI385561|D330041M02Rik|Mox-1|Mox1	mesenchyme homeobox 1	protein-coding	5.5	4.5	1.5	115.0	24.5	8.0	8.5	6.5
Merged-chr13-5870516-4	chr13	5870419	5870619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011803)	TTS (NM_011803)	9030.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	73.5	125.5	60.5	877.5	217.5	87.0	97.5	58.5
Merged-chr4-149306926-5	chr4	149306900	149307100	+	885.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008441, intron 1 of 20)	intron (NM_008441, intron 1 of 20)	698.0	NM_207682	16561.0	Mm.402393	NM_008441	ENSMUSG00000063077	Kif1b	A530096N05Rik|AI448212|AI506502|D4Mil1e|KIF1Bp130|KIF1Bp204	kinesin family member 1B	protein-coding	8.5	6.0	14.0	95.5	26.5	15.0	4.0	10.5
Merged-chr1-166788138-4	chr1	166788053	166788253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106308.0	NM_001347135	240894.0	Mm.246610	NM_172844	ENSMUSG00000026560	Fmo9	4831428F09Rik	flavin containing monooxygenase 9	protein-coding	45.5	56.5	76.5	1006.5	104.5	48.0	51.5	48.5
Merged-chr9-123851976-6	chr9	123851888	123852088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148925)	promoter-TSS (NM_148925)	-89.0	NM_001110253	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	74.5	84.0	147.0	2073.5	204.5	72.5	115.5	116.5
Merged-chr6-108566750-4	chr6	108566646	108566846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56421.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	69.5	82.0	70.5	1144.5	149.0	70.0	102.5	75.0
Merged-chr5-90900386-4	chr5	90900274	90900474	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3525.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	16.0	32.0	23.5	289.0	55.5	15.0	10.5	17.0
Merged-chr5-65490015-4	chr5	65489913	65490113	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	intron (NM_133697, intron 1 of 4)	2822.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	24.0	69.0	40.5	551.0	112.0	20.5	42.5	37.0
Merged-chr5-77229170-4	chr5	77229081	77229281	+	841.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17710.0	NM_001289768	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	13.0	13.0	12.0	106.0	47.5	4.0	12.0	13.5
Merged-chr11-104441738-4	chr11	104441615	104441815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 2 of 14)	GA-rich|Low_complexity|Low_complexity	576.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	33.0	46.0	30.5	338.5	83.5	35.0	36.5	36.0
Merged-chr8-78820107-4	chr8	78820016	78820216	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001191004, intron 1 of 4)	MIR3|SINE|MIR	1036.0	NM_001191004	78651.0	Mm.28694	NM_030145	ENSMUSG00000031683	Lsm6	1500031N17Rik|2410088K19Rik|AI747288	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	25.5	19.5	21.0	202.5	56.0	18.0	21.0	26.5
Merged-chr12-84020742-4	chr12	84020627	84020827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11225.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	57.0	67.0	60.0	528.5	117.5	51.5	41.0	45.0
Merged-chr3-52029864-4	chr3	52029767	52029967	+	782.762512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	75139.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	9.5	15.5	8.0	163.5	32.5	6.5	13.0	13.0
Merged-chr14-118713538-4	chr14	118713450	118713650	+	941.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-7331.0	NM_001033336	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	7.0	9.0	16.0	181.0	28.5	6.5	14.5	14.5
Merged-chr16-17718030-4	chr16	17717927	17718127	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285886, intron 1 of 16)	intron (NM_001285886, intron 1 of 16)	4873.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	13.0	30.0	7.0	117.5	22.5	10.5	9.0	15.0
Merged-chr17-34001211-4	chr17	34001082	34001282	+	872.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347346)	promoter-TSS (NM_001347346)	-835.0	NM_001347346	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	10.5	10.0	1.5	44.0	68.5	21.5	10.0	25.5
Merged-chr15-59787303-3	chr15	59787187	59787387	+	778.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7672.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	7.0	3.5	3.5	33.0	10.5	4.5	5.0	7.5
Merged-chr12-111038460-4	chr12	111038395	111038595	+	848.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1303.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	11.5	9.0	11.0	98.5	25.5	10.0	7.0	22.5
Merged-chr17-74459206-4	chr17	74459105	74459305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033367)	promoter-TSS (NM_001033367)	-97.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	86.5	166.5	69.0	1043.0	230.0	77.0	83.5	87.5
Merged-chr2-59969361-3	chr2	59969274	59969474	+	846.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001001182, exon 7 of 36)	exon (NM_001001182, exon 7 of 36)	-86768.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	6.5	2.0	2.0	100.5	18.0	5.0	5.5	5.0
Merged-chr2-153351529-3	chr2	153351429	153351629	+	938.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039939, intron 1 of 11)	intron (NM_001039939, intron 1 of 11)	5390.0	NM_001039939	228790.0	Mm.330677	NM_001039939	ENSMUSG00000042548	Asxl1	mKIAA0978	additional sex combs like 1	protein-coding	12.5	9.5	9.5	163.0	18.0	3.0	8.0	6.0
Merged-chr7-45103832-4	chr7	45103735	45103935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010189)	promoter-TSS (NM_010189)	-13.0	NM_010189	14132.0	Mm.3303	NM_010189	ENSMUSG00000003420	Fcgrt	FcRn	Fc receptor, IgG, alpha chain transporter	protein-coding	151.5	216.0	174.5	2590.0	259.0	97.0	166.0	107.5
Merged-chr2-160091276-4	chr2	160091174	160091374	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74621.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	43.0	56.0	16.0	379.0	43.0	23.5	26.5	11.0
Merged-chr3-135628192-4	chr3	135628085	135628285	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 6 of 24)	intron (NM_008689, intron 6 of 24)	63362.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	17.5	19.5	16.5	383.5	46.5	16.5	30.5	23.0
Merged-chr9-99163010-4	chr9	99162901	99163101	+	814.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-22790.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	11.5	10.0	7.0	116.5	36.0	8.0	20.0	12.0
Merged-chr9-22478352-3	chr9	22478255	22478455	+	953.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178415, intron 2 of 22)	intron (NM_178415, intron 2 of 22)	2640.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	14.0	17.0	18.0	245.5	27.0	2.5	6.0	7.5
Merged-chr2-5613804-4	chr2	5613692	5613892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	62254.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	24.5	78.5	37.5	399.0	102.0	35.0	32.5	28.0
Merged-chr5-139734975-4	chr5	139734881	139735081	+	952.212524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174850, intron 1 of 16)	intron (NM_174850, intron 1 of 16)	1352.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	8.0	18.5	14.5	210.0	62.5	21.5	13.0	21.5
Merged-chr6-128856431-4	chr6	128856338	128856538	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254946, intron 2 of 2)	RMER17C-int|LTR|ERVK	-30123.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	38.5	23.0	30.0	764.5	35.0	14.5	25.5	34.5
Merged-chr14-31397287-2	chr14	31397187	31397387	+	843.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	20390.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	12.0	9.0	7.0	83.0	7.5	6.0	2.0	2.0
Merged-chr10-88794904-3	chr10	88794805	88795005	+	979.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175158, intron 22 of 61)	intron (NM_175158, intron 22 of 61)	31909.0	NM_175158	70683.0	Mm.29631	NM_175158	ENSMUSG00000004356	Utp20	3830408P06Rik|AA617408|Drim|mDRIM|mDRIN	UTP20 small subunit processome component	protein-coding	31.5	20.5	17.0	330.5	17.0	7.5	13.0	23.0
Merged-chr2-102887256-4	chr2	102887156	102887356	+	957.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	14409.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	28.0	38.5	30.5	306.0	79.5	32.0	15.0	17.5
Merged-chr11-11564491-3	chr11	11564383	11564583	+	667.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63355.0	NM_001305143	102631730.0	Mm.159430	NM_001305143	ENSMUSG00000062511	4930512M02Rik	-	RIKEN cDNA 4930512M02 gene	protein-coding	7.0	8.5	9.0	109.0	17.5	4.0	1.5	5.5
Merged-chr18-32834192-3	chr18	32834081	32834281	+	964.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045381, intron 1 of 4)	intron (NR_045381, intron 1 of 4)	-3044.0	NM_001110016	225348.0	Mm.38816	NM_144863	ENSMUSG00000038299	Wdr36	5730444A13Rik|Ta-wdrp	WD repeat domain 36	protein-coding	20.0	26.5	18.0	258.5	1.0	2.0	0.5	0.5
Merged-chr15-80711147-4	chr15	80711041	80711241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144812)	promoter-TSS (NM_144812)	-172.0	NM_144812	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	189.5	255.5	131.5	1949.0	384.5	167.5	149.0	119.0
Merged-chr14-48459098-4	chr14	48458992	48459192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310584, intron 4 of 16)	intron (NM_001310584, intron 4 of 16)	12740.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	79.0	76.0	76.5	1609.5	219.5	56.0	96.0	59.5
Merged-chr14-105177369-4	chr14	105177258	105177458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134077)	promoter-TSS (NM_134077)	-31.0	NM_134077	74213.0	Mm.474531	NM_134077	ENSMUSG00000022119	Rbm26	1700009P03Rik|AI447318|C230097K14Rik|C86225|MLZ-393|Pro1777|Se70-2	RNA binding motif protein 26	protein-coding	114.5	220.5	102.5	1827.5	369.5	131.0	169.0	93.0
Merged-chr11-94321652-4	chr11	94321561	94321761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361574, intron 1 of 9)	CpG	302.0	NR_155069	67684.0	Mm.30927	NM_026313	ENSMUSG00000020863	Luc7l3	3300001P08Rik|Luc7a	LUC7-like 3 (S. cerevisiae)	protein-coding	38.0	72.5	21.0	462.0	106.0	42.5	42.5	55.5
Merged-chr6-54019421-3	chr6	54019388	54019588	+	611.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20444.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	1.0	1.0	8.5	70.0	7.5	4.5	6.5	6.5
Merged-chr14-65381729-4	chr14	65381632	65381832	+	998.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 1 of 9)	intron (NM_199029, intron 1 of 9)	23056.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	21.5	46.5	14.5	363.5	61.0	17.5	21.5	28.5
Merged-chr5-65108353-4	chr5	65108269	65108469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347355, intron 1 of 10)	intron (NM_001347355, intron 1 of 10)	801.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	43.0	47.5	39.0	688.0	111.5	29.5	47.5	39.5
Merged-chr5-146832993-4	chr5	146832928	146833128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019647, exon 1 of 6)	5' UTR (NM_019647, exon 1 of 6)	138.0	NM_019647	19933.0	Mm.316592	NM_019647	ENSMUSG00000041453	Rpl21	8430440E03Rik|L21	ribosomal protein L21	protein-coding	66.0	101.0	54.5	618.0	113.5	78.0	54.0	60.0
Merged-chr14-31494627-4	chr14	31494544	31494744	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028932)	promoter-TSS (NM_028932)	114.0	NM_001359850	67011.0	Mm.291731	NM_025907	ENSMUSG00000021891	Mettl6	1600013P15Rik|AI467521|AU020711	methyltransferase like 6	protein-coding	22.0	48.0	14.0	338.0	51.5	26.5	28.0	33.5
Merged-chr2-22806504-3	chr2	22806378	22806578	+	756.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	32151.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	15.0	15.0	8.0	112.5	26.0	6.0	6.0	13.0
Merged-chr11-51263537-3	chr11	51263468	51263668	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358279)	promoter-TSS (NM_001358279)	94.0	NM_001358281	193286.0	Mm.80975	NM_177567	ENSMUSG00000045942	BC049762	4930503F14	cDNA sequence BC049762	protein-coding	9.0	19.0	32.0	276.5	37.0	20.0	9.0	29.0
Merged-chr18-9619855-4	chr18	9619752	9619952	+	801.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007593)	promoter-TSS (NM_007593)	-383.0	NM_007593	26369.0	Mm.195831	NM_007593	ENSMUSG00000050996	Cetn1	caltractin	centrin 1	protein-coding	11.0	6.0	9.0	143.0	21.5	12.0	15.5	13.5
Merged-chr18-21718406-1	chr18	21718306	21718506	+	801.0	f0_balb.idr	Intergenic	L1MB7|LINE|L1	-66038.0	NM_001081403	225266.0	Mm.436836	NM_001081403	ENSMUSG00000042514	Klhl14	6330403N15Rik|AI785250|printor	kelch-like 14	protein-coding	15.5	8.5	9.0	333.0	3.5	0.0	1.5	2.0
Merged-chr7-16219654-1	chr7	16219554	16219754	+	740.0	f0_balb.idr	intron (NM_001285931, intron 1 of 16)	intron (NM_001285931, intron 1 of 16)	2339.0	NM_001285931	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	8.5	8.5	14.0	261.5	0.0	0.5	2.5	1.5
Merged-chr17-12768869-7	chr17	12768706	12768906	+	839.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	900.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	1.5	3.0	3.0	47.0	19.0	7.5	6.0	4.5
Merged-chr11-29173525-4	chr11	29173433	29173633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134034, intron 1 of 15)	intron (NM_134034, intron 1 of 15)	626.0	NM_134034	104570.0	Mm.276386	NM_134034	ENSMUSG00000020463	Ppp4r3b	AW011752|AW557776|Smek2|mKIAA1387	protein phosphatase 4 regulatory subunit 3B	protein-coding	39.5	47.5	32.0	541.0	83.0	25.5	40.0	38.0
Merged-chr7-110630387-4	chr7	110630287	110630487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009627)	TTS (NM_009627)	2730.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	24.0	23.0	16.5	263.5	44.0	19.5	34.5	21.5
Merged-chr1-165682161-4	chr1	165682039	165682239	+	935.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	25955.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	15.0	28.0	11.5	142.5	44.5	10.5	19.5	11.0
Merged-chr11-115250260-3	chr11	115250099	115250299	+	841.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010350, exon 15 of 15)	exon (NM_010350, exon 15 of 15)	17044.0	NM_010350	14813.0	Mm.39090	NM_010350	ENSMUSG00000020734	Grin2c	GluN2C|NMDAR2C|NR2C	glutamate receptor, ionotropic, NMDA2C (epsilon 3)	protein-coding	5.5	8.0	8.0	96.0	3.5	4.0	2.0	2.0
Merged-chr3-95282474-4	chr3	95282367	95282567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199475)	promoter-TSS (NM_199475)	-391.0	NM_173347	229589.0	Mm.14155	NM_173347	ENSMUSG00000015711	Prune1	9230112O05Rik|C130058A12|DRES-17|HTCD37|PRUNEM1|Prune|Prune-M1	prune exopolyphosphatase	protein-coding	20.0	47.5	27.0	279.5	73.0	25.0	32.5	21.0
Merged-chr8-46151692-6	chr8	46151603	46151803	+	919.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11948.0	NM_025747	66756.0	Mm.133623	NM_025747	ENSMUSG00000031631	Cfap97	1110068E21Rik|4933411K20Rik|AW049273|Kiaa1430	cilia and flagella associated protein 97	protein-coding	17.5	14.5	15.5	138.5	27.5	9.0	12.5	23.5
Merged-chr12-51377427-4	chr12	51377327	51377527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029825)	promoter-TSS (NM_029825)	-86.0	NM_001306178	76983.0	Mm.216511	NM_029825	ENSMUSG00000020952	Scfd1	3110021P21Rik|RA410|STXBP1L2	Sec1 family domain containing 1	protein-coding	155.0	239.5	174.0	3133.5	326.0	114.5	160.5	153.5
Merged-chr17-12252338-4	chr17	12252234	12252434	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357722, intron 11 of 25)	RLTR44A|LTR|ERVK	66326.0	NM_011948	26407.0	Mm.28587	NM_011948	ENSMUSG00000014426	Map3k4	D17Rp17|D17Rp17e|MAPKKK4|MEKK 4|MTK1|Mek4b|Mekk4|RP17|Rp17a|Tas|mKIAA0213	mitogen-activated protein kinase kinase kinase 4	protein-coding	16.5	18.0	17.0	128.5	63.5	25.0	34.5	26.0
Merged-chr4-116075255-7	chr4	116075087	116075287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025641)	promoter-TSS (NM_025641)	-82.0	NM_153521	230654.0	Mm.3655	NM_153521	ENSMUSG00000028703	Lrrc41	AA409966|AW555107|D630045E04Rik|D730026A16Rik|MUF1	leucine rich repeat containing 41	protein-coding	62.0	101.0	48.5	883.0	163.5	60.0	53.0	69.0
Merged-chr18-12121413-4	chr18	12121308	12121508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289666, exon 1 of 15)	exon (NM_001289666, exon 1 of 15)	129.0	NR_110356	338363.0	Mm.271567	NM_178801	ENSMUSG00000049411	Tmem241	6030446N20Rik	transmembrane protein 241	protein-coding	90.0	149.0	170.0	1467.5	106.5	53.0	48.5	77.5
Merged-chr15-97774363-3	chr15	97774240	97774440	+	910.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6674.0	NM_001357630	223864.0	Mm.24028	NM_144850	ENSMUSG00000022469	Rapgef3	2310016P22Rik|9330170P05Rik|Epac|Epac1	Rap guanine nucleotide exchange factor (GEF) 3	protein-coding	15.5	16.0	15.0	189.0	18.0	4.0	4.5	6.0
Merged-chr1-134415392-4	chr1	134415304	134415504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306069)	promoter-TSS (NM_001306069)	26.0	NM_028320	72674.0	Mm.259976	NM_028320	ENSMUSG00000026457	Adipor1	2810031L11Rik|ACDCR1|CGI-45|Paqr1	adiponectin receptor 1	protein-coding	206.5	313.0	216.5	2744.0	532.0	229.5	296.5	247.5
Merged-chr8-61575321-4	chr8	61575247	61575447	+	758.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	15822.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	6.5	15.5	13.5	174.5	20.5	8.5	15.5	10.5
Merged-chr10-80017028-3	chr10	80016936	80017136	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347074, exon 1 of 23)	exon (NM_001347074, exon 1 of 23)	121.0	NM_001347074	70719.0	Mm.243954	NM_027521	ENSMUSG00000035697	Arhgap45	6330406L22Rik|AW539505|Ha-1|Hmha1	Rho GTPase activating protein 45	protein-coding	19.5	19.5	6.0	102.5	22.0	18.5	9.5	13.5
Merged-chr3-144603753-1	chr3	144603653	144603853	+	677.333313	f0_balb.idr	Intergenic	Intergenic	33326.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	7.5	8.0	15.5	120.0	17.5	8.0	12.5	9.5
Merged-chr14-63124923-3	chr14	63124831	63125031	+	902.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	2469.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	13.5	10.5	7.5	65.0	13.5	4.0	7.5	12.0
Merged-chr7-143470095-2	chr7	143469995	143470195	+	997.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3660.0	NM_008767	18400.0	Mm.271740	NM_008767	ENSMUSG00000000154	Slc22a18	AW260131|BWR1A|BWSCR1A|HET|ITM|Impt1|Orctl2|Slc22a1l|TSSC5|p45-BWR1A	solute carrier family 22 (organic cation transporter), member 18	protein-coding	19.5	12.5	10.5	62.0	16.0	5.5	11.5	10.0
Merged-chr8-110902446-4	chr8	110902347	110902547	+	998.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172283)	promoter-TSS (NM_172283)	41.0	NM_172283	234730.0	Mm.102591	NM_172283	ENSMUSG00000033703	Fuk	1110046B12Rik|AI303278	fucokinase	protein-coding	14.5	20.0	19.0	237.5	58.5	9.5	21.5	30.0
Merged-chr18-50111435-4	chr18	50111336	50111536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16765.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	82.5	170.0	105.5	1832.5	90.0	36.5	66.0	65.5
Merged-chr17-34092801-4	chr17	34092694	34092894	+	981.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046183, intron 2 of 4)	intron (NR_046183, intron 2 of 4)	415.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	27.0	51.5	21.0	195.5	106.5	38.5	30.5	21.0
Merged-chr4-116464811-4	chr4	116464711	116464911	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008641)	promoter-TSS (NM_008641)	-630.0	NM_008641	17776.0	Mm.9287	NM_008641	ENSMUSG00000003810	Mast2	MAST205|Mtssk	microtubule associated serine/threonine kinase 2	protein-coding	22.5	42.0	12.5	244.5	38.0	17.0	19.5	14.5
Merged-chr1-165734491-4	chr1	165734382	165734582	+	965.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	-26388.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	27.0	15.5	19.5	454.0	36.0	14.0	26.0	25.5
Merged-chr2-29620137-4	chr2	29620018	29620218	+	886.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	CpG	398.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	8.5	20.5	15.5	115.0	30.5	20.5	12.5	14.5
Merged-chr14-79508093-3	chr14	79508021	79508221	+	771.883362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	ID4_|SINE|ID	-7553.0	NM_001286412	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	8.0	6.5	11.0	71.0	13.5	2.5	1.0	3.5
Merged-chr1-107565817-3	chr1	107565703	107565903	+	738.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24203.0	NM_011459	20725.0	Mm.83909	NM_011459	ENSMUSG00000026315	Serpinb8	CAP-2|CAP2|NK10|Spi8|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 8	protein-coding	8.0	7.5	7.0	68.5	25.5	3.5	12.0	6.5
Merged-chr17-31594787-4	chr17	31594686	31594886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027493, intron 6 of 11)	L1MD|LINE|L1	30013.0	NM_016670	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	82.0	120.0	69.0	1605.0	242.5	96.0	82.0	102.0
Merged-chr7-98816238-4	chr7	98816144	98816344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-18868.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	84.5	72.5	85.0	1088.5	178.5	64.5	72.5	72.0
Merged-chr10-68446043-3	chr10	68445943	68446143	+	964.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 5 of 7)	intron (NM_028491, intron 5 of 7)	95832.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	9.0	25.0	16.5	315.5	20.0	12.5	18.0	8.0
Merged-chr8-36122777-6	chr8	36122664	36122864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172911, intron 3 of 5)	intron (NM_172911, intron 3 of 5)	27936.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	40.5	84.5	78.5	802.5	111.5	67.0	47.5	76.0
Merged-chr8-22814456-4	chr8	22814359	22814559	+	872.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8805.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	17.5	19.5	10.0	136.5	21.0	11.0	11.0	11.5
Merged-chr12-69500766-4	chr12	69500669	69500869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-25219.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	40.0	37.0	34.5	506.5	63.0	27.5	31.5	38.0
Merged-chr8-34146740-4	chr8	34146658	34146858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026609)	promoter-TSS (NM_026609)	-19.0	NM_026609	68192.0	Mm.34212	NM_026609	ENSMUSG00000031513	Leprotl1	1110067H13Rik|1520402O14Rik|AI854296	leptin receptor overlapping transcript-like 1	protein-coding	94.0	119.0	81.0	1110.5	212.5	66.5	104.5	61.5
Merged-chr15-58141381-4	chr15	58141277	58141477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326599)	promoter-TSS (NM_001326599)	11.0	NM_001326599	76773.0	Mm.26771	NM_029734	ENSMUSG00000022359	Wdyhv1	2410187C16Rik|AU014961|AW550036|Ntaq1	WDYHV motif containing 1	protein-coding	70.5	89.5	62.0	962.5	207.0	83.0	87.0	90.5
Merged-chr2-80524454-4	chr2	80524339	80524539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355411, intron 19 of 30)	intron (NM_001355411, intron 19 of 30)	56743.0	NM_001290745	50884.0	Mm.25203	NM_016965	ENSMUSG00000027002	Nckap1	C79304|H19|Hem-2|Hem2|Nap1|mKIAA0587|mh19|p125Nap1	NCK-associated protein 1	protein-coding	48.5	107.5	72.0	1060.0	113.5	38.0	56.5	45.5
Merged-chr8-125282697-4	chr8	125282581	125282781	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	210152.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	23.5	38.5	40.5	495.0	46.5	17.0	22.0	23.5
Merged-chr8-14888749-4	chr8	14888627	14888827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_012000, exon 1 of 3)	5' UTR (NM_012000, exon 1 of 3)	191.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	174.5	302.5	275.0	2656.5	355.5	188.0	172.0	183.0
Merged-chr3-60486103-4	chr3	60485976	60486176	+	987.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253713, intron 2 of 9)	intron (NM_001253713, intron 2 of 9)	13246.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	22.5	32.5	10.5	410.5	87.0	25.5	14.0	26.0
Merged-chr7-127355975-3	chr7	127355868	127356068	+	596.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-10654.0	NM_146202	233890.0	Mm.23031	NM_146202	ENSMUSG00000047371	Zfp768	BC026432|Znf768	zinc finger protein 768	protein-coding	5.0	9.0	8.0	96.0	16.0	2.5	5.5	5.0
Merged-chr7-16816812-4	chr7	16816734	16816934	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173430)	promoter-TSS (NM_173430)	-102.0	NM_173430	243853.0	Mm.39703	NM_173430	ENSMUSG00000048920	Fkrp	A830029B19Rik|AI842067|AI847300|LGMD1I|MDC1C	fukutin related protein	protein-coding	14.5	18.0	16.0	172.5	32.5	12.5	13.5	15.0
Merged-chr4-63548699-4	chr4	63548594	63548794	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024173, intron 2 of 2)	intron (NM_024173, intron 2 of 2)	3929.0	NM_024173	66290.0	Mm.371615	NM_024173	ENSMUSG00000039105	Atp6v1g1	1810024D14Rik|AA960677|ATP6J|Atp6g1|VAG1|Vma10	ATPase, H+ transporting, lysosomal V1 subunit G1	protein-coding	4.5	8.0	23.0	159.5	28.0	19.5	14.5	13.5
Merged-chr16-91477819-4	chr16	91477722	91477922	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-7393.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	22.5	30.5	18.0	162.0	82.0	16.5	27.5	27.0
Merged-chr10-44233553-2	chr10	44233453	44233653	+	857.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	18128.0	NR_027506	70365.0	Mm.87073	NR_001582	ENSMUSG00000091358	Speer5-ps1	1700007C10Rik|SPEER-5|Speer5-ps	spermatogenesis associated glutamate (E)-rich protein 5, pseudogene 1	pseudo	7.0	14.5	8.5	37.5	14.0	2.0	1.5	2.0
Merged-chr18-82822473-3	chr18	82822381	82822581	+	877.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33416.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	13.0	13.0	3.5	83.0	17.0	10.0	6.5	16.5
Merged-chr4-3810422-3	chr4	3810307	3810507	+	811.827759	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25248.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	6.0	17.5	5.5	76.5	44.5	20.0	8.5	17.0
Merged-chr17-53587840-4	chr17	53587735	53587935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190846, intron 1 of 17)	L2a|LINE|L2	3709.0	NM_001190846	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	29.0	31.5	35.0	310.5	92.5	18.0	20.5	32.5
Merged-chr3-65891805-4	chr3	65891692	65891892	+	896.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66457.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	15.5	28.5	27.5	295.5	26.0	15.0	21.5	12.5
Merged-chr17-56183496-1	chr17	56183396	56183596	+	729.0	f0_balb.idr	intron (NM_080837, intron 1 of 5)	intron (NM_080837, intron 1 of 5)	424.0	NM_080837	28106.0	Mm.294870	NM_080837	ENSMUSG00000019579	Mydgf	D17Wsu104e|Il25|Ly6elg	myeloid derived growth factor	protein-coding	9.0	22.0	8.0	178.5	19.5	12.5	12.0	24.5
Merged-chr10-128743897-4	chr10	128743818	128744018	+	871.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_016811, exon 1 of 24)	5' UTR (NM_016811, exon 1 of 24)	158.0	NM_016811	13139.0	Mm.291235	NM_016811	ENSMUSG00000025357	Dgka	80kDa|AW146112|Dagk1	diacylglycerol kinase, alpha	protein-coding	17.0	9.5	6.5	177.5	19.5	12.5	16.0	9.0
Merged-chr12-102417880-4	chr12	102417768	102417968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 2 of 13)	intron (NM_011175, intron 2 of 13)	21945.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	43.5	62.5	17.5	568.0	79.0	30.0	28.0	33.0
Merged-chr15-96697115-4	chr15	96697023	96697223	+	875.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355633, intron 3 of 14)	intron (NM_001355633, intron 3 of 14)	2605.0	NM_001355633	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	7.5	12.0	3.0	83.0	36.5	11.0	22.5	10.5
Merged-chr3-132753111-4	chr3	132752997	132753197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163455, intron 22 of 25)	intron (NM_001163455, intron 22 of 25)	68953.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	19.5	43.5	50.0	709.5	53.5	27.0	30.0	37.0
Merged-chr12-8493527-4	chr12	8493402	8493602	+	931.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6507.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	18.0	30.5	16.5	495.0	34.5	11.5	14.0	18.0
Merged-chr4-63205721-4	chr4	63205607	63205807	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9705.0	NM_025685	373864.0	Mm.194116	NM_025685	ENSMUSG00000045672	Col27a1	5730512J02Rik|AI449266	collagen, type XXVII, alpha 1	protein-coding	31.5	22.5	19.5	636.5	59.0	18.0	39.0	21.5
Merged-chr14-50908385-4	chr14	50908311	50908511	+	942.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15156.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	17.5	26.0	20.5	267.5	17.5	15.0	14.0	19.0
Merged-chr3-144679759-1	chr3	144679659	144679859	+	666.0	f0_balb.idr	Intergenic	Intergenic	40576.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	9.5	10.0	26.0	270.5	23.5	9.0	7.0	9.5
Merged-chr10-67859089-2	chr10	67858989	67859189	+	795.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53573.0	NM_178679	216049.0	Mm.268346	NM_178679	ENSMUSG00000037855	Zfp365	AI839779|AV340892|DBZ|Su48|Znf365|talanin	zinc finger protein 365	protein-coding	5.0	11.0	8.0	35.0	25.5	2.5	4.0	1.5
Merged-chr10-61423029-4	chr10	61422946	61423146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013611, exon 2 of 3)	exon (NM_013611, exon 2 of 3)	5074.0	NM_013611	18119.0	Mm.57195	NM_013611	ENSMUSG00000037171	Nodal	Tg.413d	nodal	protein-coding	50.0	68.0	53.0	769.0	125.5	28.5	39.5	45.5
Merged-chr12-73589295-4	chr12	73589184	73589384	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 1 of 13)	L1ME2|LINE|L1	4488.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	21.5	26.5	26.0	420.5	38.5	4.5	20.0	19.0
Merged-chr9-121309416-4	chr9	121309324	121309524	+	736.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	11922.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	16.5	5.0	3.5	148.5	22.5	14.0	15.0	10.5
Merged-chr5-149089110-4	chr5	149089022	149089222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36065.0	NM_010439	15289.0	Mm.207047	NM_010439	ENSMUSG00000066551	Hmgb1	HMG-1|Hmg1|SBP-1|p30	high mobility group box 1	protein-coding	52.0	70.5	91.0	1426.5	186.5	57.0	110.5	85.5
Merged-chr1-131967439-3	chr1	131967335	131967535	+	770.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177628, intron 1 of 4)	intron (NM_001177628, intron 1 of 4)	-3174.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	21.5	6.0	8.5	171.5	10.5	2.5	8.5	15.0
Merged-chr12-70111976-4	chr12	70111883	70112083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104398)	promoter-TSS (NR_104398)	52.0	NM_001286080	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	51.0	49.5	53.0	770.5	92.0	34.5	63.0	50.0
Merged-chr15-95763118-4	chr15	95763020	95763220	+	873.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11529.0	NR_131148	629300.0	Mm.247258	NR_131148	ENSMUSG00000115699	Gm6961	EG629300	predicted gene 6961	ncRNA	16.5	15.0	10.0	141.0	38.0	15.0	13.0	11.5
Merged-chr1-64927608-4	chr1	64927505	64927705	+	955.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	intron (NM_001039493, intron 2 of 7)	29219.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	16.0	22.5	30.5	396.0	47.0	15.0	16.5	25.0
Merged-chr14-111674843-3	chr14	111674757	111674957	+	727.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198865)	promoter-TSS (NM_198865)	-258.0	NM_198865	75409.0	Mm.235097	NM_029273	ENSMUSG00000033214	Slitrk5	2610019D03Rik	SLIT and NTRK-like family, member 5	protein-coding	5.0	9.5	9.0	122.0	9.5	4.0	7.0	10.0
Merged-chr15-25859649-4	chr15	25859534	25859734	+	930.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	MLT1A1|LTR|ERVL-MaLR	16336.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	11.5	17.0	18.0	221.5	32.5	8.0	15.0	8.5
Merged-chr6-70714467-4	chr6	70714369	70714569	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77706.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	35.5	43.5	22.0	495.5	58.0	18.0	27.0	24.5
Merged-chr2-167385594-3	chr2	167385528	167385728	+	732.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36082.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	7.5	13.0	4.5	45.5	8.5	3.5	1.5	0.5
Merged-chr12-3740321-4	chr12	3740247	3740447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-66633.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	12.5	56.0	25.5	293.5	50.5	25.0	26.5	27.5
Merged-chr4-16103121-3	chr4	16103017	16103217	+	945.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60526.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	11.0	10.0	18.0	229.5	18.0	0.5	3.5	11.0
Merged-chr4-12499752-4	chr4	12499636	12499836	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-327721.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	23.0	14.5	23.5	490.0	25.5	19.5	21.5	18.5
Merged-chr4-86823366-3	chr4	86823269	86823469	+	697.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_184088, intron 21 of 31)	B3|SINE|B2	33998.0	NM_009096	20104.0	Mm.379007	NM_009096	ENSMUSG00000028495	Rps6	S6R	ribosomal protein S6	protein-coding	4.0	13.0	1.0	94.5	35.0	8.5	6.0	10.0
Merged-chr9-56094971-4	chr9	56094867	56095067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	4991.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	29.0	52.0	23.0	440.0	73.5	29.0	47.5	20.5
Merged-chr2-36271359-4	chr2	36271256	36271456	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40930.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	43.0	37.0	26.0	474.0	45.5	20.0	19.5	18.5
Merged-chr1-170361461-3	chr1	170361357	170361557	+	849.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 4 of 9)	intron (NM_001109985, intron 4 of 9)	52596.0	NM_001039593	76925.0	Mm.33631	NM_001039593	ENSMUSG00000042800	Spata46	1700015E13Rik	spermatogenesis associated 46	protein-coding	12.0	5.5	21.5	278.5	2.0	4.0	4.5	4.0
Merged-chr5-72820268-3	chr5	72820173	72820373	+	918.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	48175.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	11.5	13.5	5.5	125.0	17.5	9.0	6.5	1.0
Merged-chr3-103383356-4	chr3	103383261	103383461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104068.0	NM_053170	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	40.5	69.0	40.0	726.5	90.0	43.0	76.0	50.0
Merged-chr1-131110937-4	chr1	131110832	131111032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13089.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	138.5	236.0	98.5	1208.5	329.5	138.5	149.0	120.5
Merged-chr3-88607065-4	chr3	88606950	88607150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9157.0	NM_001198911	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	74.0	101.0	69.5	519.0	131.0	24.5	51.5	41.0
Merged-chr1-127981228-4	chr1	127981104	127981304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 12 of 20)	intron (NM_001285945, intron 12 of 20)	112431.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	99.5	122.0	156.5	1957.0	254.5	79.5	126.5	116.0
Merged-chr2-104690916-4	chr2	104690818	104691018	+	930.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177190, intron 5 of 9)	MTC|LTR|ERVL-MaLR	21244.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	14.5	28.0	13.5	185.5	40.0	3.5	17.5	15.0
Merged-chr16-57396441-4	chr16	57396355	57396555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	43178.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	49.5	48.5	39.0	763.5	107.0	24.5	28.0	39.5
Merged-chr3-131701142-4	chr3	131701048	131701248	+	831.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135116.0	NM_001289477	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	7.0	11.5	5.5	134.0	65.0	10.5	21.0	16.5
Merged-chr4-40244286-4	chr4	40244165	40244365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57E2|LTR|ERV1	-4440.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	68.0	105.0	60.5	942.5	178.5	73.5	94.5	58.5
Merged-chr2-153084409-4	chr2	153084304	153084504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18449.0	NM_145536	228788.0	Mm.299979	NM_145536	ENSMUSG00000027474	Ccm2l	-	cerebral cavernous malformation 2-like	protein-coding	194.0	373.0	250.0	3450.5	523.0	177.5	270.5	206.5
Merged-chr8-94812896-6	chr8	94812733	94812933	+	894.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011332)	TTS (NM_011332)	2380.0	NM_011332	20295.0	Mm.41988	NM_011332	ENSMUSG00000031780	Ccl17	Abcd-2|Scya17|Scya17l|Tarc	chemokine (C-C motif) ligand 17	protein-coding	3.0	3.0	4.5	60.0	9.5	6.0	5.0	11.5
Merged-chr13-119597798-4	chr13	119597709	119597909	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	intron (NM_001177666, intron 2 of 3)	-26010.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	15.5	21.0	25.5	426.0	81.0	23.5	22.0	32.5
Merged-chr5-64392669-4	chr5	64392590	64392790	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75252.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	31.0	38.5	20.0	168.0	38.5	18.0	15.0	20.0
Merged-chr11-37186308-3	chr11	37186212	37186412	+	855.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-242071.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	8.5	4.5	1.0	81.5	27.0	7.5	9.0	6.5
Merged-chr11-58978062-5	chr11	58977910	58978110	+	904.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290988)	promoter-TSS (NM_001290988)	-83.0	NM_001290988	94091.0	Mm.248049	NM_053168	ENSMUSG00000020455	Trim11	-	tripartite motif-containing 11	protein-coding	29.5	8.0	17.5	385.0	23.0	18.0	1.5	16.0
Merged-chr2-154220130-4	chr2	154220023	154220223	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012392, intron 15 of 15)	intron (NM_001012392, intron 15 of 15)	-3619.0	NM_144890	228802.0	Mm.167411	NM_144890	ENSMUSG00000038572	Bpifb5	Lplunc5	BPI fold containing family B, member 5	protein-coding	35.0	29.0	18.0	277.0	42.0	15.5	24.0	19.5
Merged-chr7-127233155-4	chr7	127233048	127233248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030674)	promoter-TSS (NR_030674)	-18.0	NR_030674	100043580.0	Mm.482209	NR_030674	ENSMUSG00000000486	Gm4532	-	predicted gene 4532	ncRNA	48.0	63.5	58.5	592.5	102.5	60.5	51.5	56.0
Merged-chr5-108485431-4	chr5	108485329	108485529	+	876.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172716, intron 6 of 10)	intron (NM_172716, intron 6 of 10)	24097.0	NM_172716	69587.0	Mm.261218	NM_172716	ENSMUSG00000033623	Pcgf3	2310035N15Rik|AI662857|D630042K08Rik|DONG1|E430039C14|RNF3A|Rnf3	polycomb group ring finger 3	protein-coding	9.0	16.5	13.5	169.5	31.0	11.0	10.5	21.0
Merged-chr7-63913274-2	chr7	63913174	63913374	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	RMER17C|LTR|ERVK	-3583.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	3.5	8.0	3.0	47.0	16.5	4.5	4.5	7.0
Merged-chr15-100049837-4	chr15	100049737	100049937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	11173.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	20.5	48.5	26.0	223.5	88.0	19.0	30.5	24.5
Merged-chr3-115997119-4	chr3	115997040	115997240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023214, intron 2 of 10)	U6|snRNA|snRNA	10266.0	NM_023214	66500.0	Mm.34550	NM_023214	ENSMUSG00000054414	Slc30a7	1810059J10Rik|2610034N15Rik|4833428C12Rik|AI467242|ZnT-7|ZnT7|Zntl2	solute carrier family 30 (zinc transporter), member 7	protein-coding	35.5	43.5	28.5	451.5	86.0	43.0	37.5	50.5
Merged-chr18-62186632-4	chr18	62186516	62186716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	6516.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	32.5	47.5	36.5	451.0	53.0	27.0	18.5	29.5
Merged-chr7-110614871-4	chr7	110614726	110614926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177324)	promoter-TSS (NM_177324)	94.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	37.5	62.0	49.5	369.0	48.0	36.5	34.0	22.0
Merged-chr4-148168532-4	chr4	148168421	148168621	+	957.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7853.0	NM_176848	230904.0	Mm.262287	NM_176848	ENSMUSG00000041556	Fbxo2	FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4	F-box protein 2	protein-coding	17.5	17.0	7.0	163.0	60.0	11.0	10.5	19.0
Merged-chr17-37046052-4	chr17	37045967	37046167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019439, exon 1 of 23)	5' UTR (NM_019439, exon 1 of 23)	101.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	30.5	37.5	39.0	408.5	69.5	28.0	40.5	26.5
Merged-chr15-51955205-4	chr15	51955116	51955316	+	867.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36544.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	9.5	7.5	16.5	279.5	48.0	3.0	10.5	15.5
Merged-chr15-64068510-3	chr15	64068372	64068572	+	851.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-8024.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	6.0	11.0	12.0	60.5	7.5	8.5	12.0	12.5
Merged-chr6-149101505-4	chr6	149101355	149101555	+	787.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177192, exon 1 of 21)	5' UTR (NM_177192, exon 1 of 21)	225.0	NM_177192	320560.0	Mm.426874	NM_177192	ENSMUSG00000030313	Dennd5b	9330160C06Rik|AI852444|D030011O10Rik|Gm17524	DENN/MADD domain containing 5B	protein-coding	4.5	8.5	13.5	70.0	16.5	5.0	7.0	10.0
Merged-chr11-69098809-4	chr11	69098696	69098896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011065)	promoter-TSS (NM_011065)	-153.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	271.0	374.0	222.0	3045.5	574.0	234.0	235.0	213.0
Merged-chr8-94702987-4	chr8	94702881	94703081	+	792.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6739.0	NM_026385	67801.0	Mm.279977	NM_026385	ENSMUSG00000031775	Pllp	0610010I06Rik|AV001002|Plapi|Tm4sf11	plasma membrane proteolipid	protein-coding	8.5	15.5	8.0	67.0	20.5	8.5	11.0	8.5
Merged-chr17-84719304-1	chr17	84719204	84719404	+	570.75	f0_balb.idr	intron (NM_028233, intron 30 of 37)	intron (NM_028233, intron 30 of 37)	36183.0	NM_026180	67470.0	Mm.26581	NM_026180	ENSMUSG00000024254	Abcg8	1300003C16Rik|AI114946|sterolin-2	ATP binding cassette subfamily G member 8	protein-coding	11.0	12.0	13.5	84.5	10.5	1.0	9.0	5.5
Merged-chr11-69763681-1	chr11	69763581	69763781	+	790.0	f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-1837.0	NM_019871	56293.0	Mm.6211	NM_019871	ENSMUSG00000018776	Slc35g3	Amac1	solute carrier family 35, member G3	protein-coding	2.0	6.0	3.0	37.5	17.5	6.5	6.0	7.0
Merged-chr9-70783408-4	chr9	70783313	70783513	+	802.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	104431.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	13.0	33.5	8.5	114.5	22.5	7.0	9.0	15.0
Merged-chr8-69938499-4	chr8	69938395	69938595	+	850.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 2 of 12)	intron (NM_001286450, intron 2 of 12)	35888.0	NM_001113346	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	12.5	13.5	11.5	116.5	20.5	7.0	14.5	13.0
Merged-chr2-165969685-3	chr2	165969572	165969772	+	801.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22965.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	5.0	10.5	3.0	37.0	19.0	7.5	10.5	6.0
Merged-chr8-76899180-4	chr8	76899066	76899266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028579, intron 1 of 1)	intron (NR_028579, intron 1 of 1)	1455.0	NR_028579	102640923.0	Mm.367571	NR_028579	ENSMUSG00000074235	Gm10649	-	predicted gene 10649	ncRNA	94.5	117.5	100.0	1528.0	181.0	82.5	90.5	78.5
Merged-chr4-135947943-3	chr4	135947841	135948041	+	903.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357529, exon 1 of 9)	5' UTR (NM_001357529, exon 1 of 9)	535.0	NM_001357530	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	9.0	11.0	5.0	137.0	20.0	10.0	4.0	5.0
Merged-chr4-45285541-1	chr4	45285441	45285641	+	719.666687	f0_balb.idr	exon (NM_001081172, exon 16 of 16)	exon (NM_001081172, exon 16 of 16)	-11627.0	NM_027266	69934.0	Mm.46761	NM_027266	ENSMUSG00000035601	Trmt10b	2610042J10Rik|Rg9mtd3|Rnmtd3	tRNA methyltransferase 10B	protein-coding	9.5	8.5	5.5	120.5	4.0	1.0	0.0	1.5
Merged-chr4-116644481-3	chr4	116644355	116644555	+	835.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021473, intron 2 of 8)	B3A|SINE|B2	7219.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	5.0	7.5	6.0	53.0	8.0	1.0	3.0	2.5
Merged-chr5-122371870-3	chr5	122371767	122371967	+	864.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026883)	promoter-TSS (NM_026883)	96.0	NM_026883	68948.0	Mm.474469	NM_026883	ENSMUSG00000029463	Fam216a	1500011H22Rik	family with sequence similarity 216, member A	protein-coding	8.0	7.0	9.5	79.0	25.5	10.0	8.5	9.5
Merged-chr15-59823338-3	chr15	59823243	59823443	+	962.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28384.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	6.5	17.0	9.5	255.5	14.0	1.5	2.5	17.5
Merged-chr8-128552286-3	chr8	128552171	128552371	+	766.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133383.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	6.5	6.5	5.0	72.5	2.5	0.5	1.0	2.0
Merged-chr8-70426721-4	chr8	70426633	70426833	+	982.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004062, intron 1 of 13)	intron (NM_001004062, intron 1 of 13)	12840.0	NM_001004062	382056.0	Mm.227767	NM_001004062	ENSMUSG00000003575	Crtc1	AI413414|Mect1|R74955|TORC1|mKIAA0616	CREB regulated transcription coactivator 1	protein-coding	3.0	14.0	18.0	207.5	15.5	7.0	21.0	24.5
Merged-chr12-111469681-4	chr12	111469577	111469777	+	777.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16146.0	NM_001033248	212539.0	Mm.81916	NM_001033248	ENSMUSG00000010529	Gm266	-	predicted gene 266	protein-coding	5.5	15.5	4.0	69.0	24.0	10.5	10.5	8.0
Merged-chr19-59071607-4	chr19	59071496	59071696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 1 of 16)	intron (NM_001114312, intron 1 of 16)	4473.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	42.5	47.5	40.0	618.0	60.5	32.0	45.5	24.0
Merged-chr3-67515177-4	chr3	67515056	67515256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164763, intron 1 of 5)	CpG	367.0	NM_001164763	109222.0	Mm.38002	NM_001164763	ENSMUSG00000049404	Rarres1	5430417P09Rik|AI662122	retinoic acid receptor responder (tazarotene induced) 1	protein-coding	15.5	15.0	11.0	150.0	29.5	16.5	19.5	18.0
Merged-chr8-67997080-3	chr8	67997000	67997200	+	870.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-22526.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	9.5	7.5	14.0	66.5	5.5	6.5	6.5	5.0
Merged-chr1-166409306-4	chr1	166409206	166409406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175170, exon 2 of 6)	5' UTR (NM_175170, exon 2 of 6)	522.0	NM_001142948	71592.0	Mm.192094	NM_175170	ENSMUSG00000040596	Pogk	9130401E23Rik|BASS2|mKIAA1513	pogo transposable element with KRAB domain	protein-coding	60.0	124.0	72.5	437.5	130.0	63.0	37.5	18.0
Merged-chr14-86679049-3	chr14	86678957	86679157	+	735.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019670, intron 27 of 27)	B4|SINE|B4	433087.0	NR_040457	75155.0	Mm.399239	NR_040457	ENSMUSG00000115271	4930529K09Rik	4930507G21Rik	RIKEN cDNA 4930529K09 gene	ncRNA	10.5	12.0	14.5	305.5	1.0	1.0	5.0	2.5
Merged-chr9-65200790-4	chr9	65200693	65200893	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-13897.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	25.5	37.0	23.0	233.5	40.5	23.5	18.5	22.0
Merged-chr18-66469519-3	chr18	66469420	66469620	+	879.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	10916.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	7.0	13.0	8.5	77.5	14.5	5.5	6.5	9.0
Merged-chr11-5788463-4	chr11	5788343	5788543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146308)	promoter-TSS (NM_001146308)	-40.0	NM_001146309	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	136.0	218.0	153.5	2107.0	390.5	146.5	178.5	157.5
Merged-chr1-120948559-4	chr1	120948456	120948656	+	959.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-138849.0	NR_038008	98452.0	Mm.131017	NR_038008	ENSMUSG00000097881	Celrr	AI848258|B230209K01Rik|Celr|Gm818	cerebellum expressed regulatory RNA	ncRNA	11.5	14.5	15.0	216.0	42.5	14.5	20.0	13.0
Merged-chr18-55203485-3	chr18	55203393	55203593	+	669.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-210902.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	11.0	13.0	6.5	92.0	8.0	5.0	3.0	7.0
Merged-chr11-76477784-1	chr11	76477684	76477884	+	633.0	f1_balb.idr	intron (NM_001346670, intron 3 of 21)	intron (NM_001346670, intron 3 of 21)	-9319.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	12.0	7.5	7.0	67.5	4.5	0.0	7.5	2.0
Merged-chr16-14352801-4	chr16	14352706	14352906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8752.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	88.5	142.0	78.0	1021.0	272.0	103.5	96.5	81.5
Merged-chr7-130646933-4	chr7	130646839	130647039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004468, intron 3 of 21)	intron (NM_001004468, intron 3 of 21)	-45617.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	39.0	55.5	35.5	539.5	172.5	61.0	84.5	74.0
Merged-chr2-150749575-1	chr2	150749475	150749675	+	1000.0	f0_balb.idr	intron (NM_001355068, intron 1 of 13)	intron (NM_001355068, intron 1 of 13)	494.0	NM_172117	12497.0	Mm.275524	NM_172117	ENSMUSG00000033068	Entpd6	2700026H11Rik|Cd39l2|NTPDase-6	ectonucleoside triphosphate diphosphohydrolase 6	protein-coding	31.0	42.0	25.5	303.5	60.5	34.5	39.5	30.0
Merged-chr10-41450353-4	chr10	41450290	41450490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153398)	promoter-TSS (NM_153398)	32.0	NR_102360	268294.0	Mm.258475	NM_153398	ENSMUSG00000019826	Zbtb24	BC055367|Bif1|Bsg1|ZNF450	zinc finger and BTB domain containing 24	protein-coding	133.5	206.5	133.5	2358.5	400.0	118.5	162.0	163.5
Merged-chr15-93251955-6	chr15	93251819	93252019	+	842.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033275, intron 4 of 7)	intron (NM_001033275, intron 4 of 7)	23260.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	10.5	12.5	7.5	274.0	17.5	2.5	3.5	10.5
Merged-chr1-194672028-4	chr1	194671940	194672140	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008882, intron 3 of 31)	intron (NM_008882, intron 3 of 31)	52211.0	NM_008882	18845.0	Mm.2251	NM_008882	ENSMUSG00000026640	Plxna2	2810428A13Rik|AA589422|AW457381|OCT|PlexA2|Plxn2|mKIAA0463	plexin A2	protein-coding	34.0	34.5	39.0	654.5	60.0	16.0	19.5	15.0
Merged-chr10-67081813-3	chr10	67081703	67081903	+	813.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 1 of 7)	intron (NM_178606, intron 1 of 7)	15185.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	16.5	21.0	5.5	228.5	29.5	2.0	6.5	5.0
Merged-chr3-95675719-4	chr3	95675677	95675877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144899)	TTS (NM_144899)	12140.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	49.0	49.5	45.0	823.5	88.0	27.0	24.5	47.0
Merged-chr1-185329291-4	chr1	185329164	185329364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198653, exon 1 of 23)	exon (NM_198653, exon 1 of 23)	137.0	NM_198653	381314.0	Mm.275841	NM_198653	ENSMUSG00000026618	Iars2	2010002H18Rik|C79125	isoleucine-tRNA synthetase 2, mitochondrial	protein-coding	64.5	84.5	76.5	699.5	122.0	54.0	47.0	47.5
Merged-chr15-31350128-4	chr15	31350035	31350235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	intron (NM_027496, intron 1 of 3)	17624.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	96.5	90.0	153.5	2755.0	156.0	64.0	78.0	79.5
Merged-chr6-17811226-4	chr6	17811147	17811347	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	RLTR40|LTR|ERVK	62077.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	20.0	29.0	21.0	426.0	38.5	17.5	34.0	12.0
Merged-chr11-114542322-3	chr11	114542220	114542420	+	986.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93460.0	NR_027643	319819.0	Mm.50754	NM_177008	ENSMUSG00000062391	4932435O22Rik	-	RIKEN cDNA 4932435O22 gene	ncRNA	3.5	0.0	5.0	11.5	50.5	14.0	18.0	22.0
Merged-chr7-122258160-3	chr7	122258072	122258272	+	878.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30953.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	8.0	5.5	5.5	106.5	8.5	6.5	4.5	11.0
Merged-chr10-41584697-4	chr10	41584589	41584789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 33 of 47)	MLT1L|LTR|ERVL-MaLR	16673.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	36.0	49.0	39.5	547.0	77.5	25.0	27.5	50.0
Merged-chr8-73289865-4	chr8	73289764	73289964	+	900.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	intron (NM_010687, intron 1 of 14)	63676.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	9.0	12.0	17.5	163.0	37.5	6.5	9.0	17.0
Merged-chr5-143059488-3	chr5	143059385	143059585	+	804.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	53535.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	7.5	6.5	10.5	97.5	14.5	6.0	11.5	5.0
Merged-chr1-136605990-4	chr1	136605916	136606116	+	764.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18885.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	8.5	15.5	6.5	238.5	18.0	10.0	20.0	10.5
Merged-chr18-69196958-4	chr18	69196850	69197050	+	924.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147542.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	27.5	38.0	18.5	413.5	33.0	15.5	8.0	13.0
Merged-chr2-27688166-4	chr2	27688068	27688268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	10967.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	128.5	129.0	82.0	1584.0	190.0	61.5	101.0	81.5
Merged-chr18-36561279-4	chr18	36561191	36561391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175375, intron 1 of 33)	CpG-6857	688.0	NM_175375	108857.0	Mm.482287	NM_175375	ENSMUSG00000024483	Ankhd1	1110004O12Rik|4933432B13Rik|9130019P20Rik|A530027J04Rik|A630021B20Rik|AA571404|Mask|mFLJ00246|mKIAA1085	ankyrin repeat and KH domain containing 1	protein-coding	27.5	49.5	34.0	346.0	89.0	31.0	31.0	44.5
Merged-chr6-4544758-1	chr6	4544658	4544858	+	574.333313	f0_balb.idr	Intergenic	Intergenic	39140.0	NM_007743	12843.0	Mm.277792	NM_007743	ENSMUSG00000029661	Col1a2	AA960264|AI325291|Col1a-2|Cola-2|Cola2|oim	collagen, type I, alpha 2	protein-coding	6.5	14.0	8.0	89.5	26.5	4.5	4.0	4.5
Merged-chr8-117233424-4	chr8	117233329	117233529	+	935.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-23590.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	19.5	26.0	18.5	181.5	27.5	17.5	23.0	13.5
Merged-chr7-141327682-4	chr7	141327577	141327777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282076)	promoter-TSS (NM_001282076)	48.0	NM_016874	54006.0	Mm.28392	NM_016874	ENSMUSG00000058886	Deaf1	AU042387|C230009B13Rik|NUDR	DEAF1, transcription factor	protein-coding	109.0	144.5	55.0	969.0	309.5	129.5	111.5	98.5
Merged-chr8-125240753-4	chr8	125240711	125240911	+	921.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 11 of 12)	B3A|SINE|B2	186616.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	12.5	17.0	17.5	124.0	21.5	11.5	12.0	14.5
Merged-chr15-100631675-4	chr15	100631586	100631786	+	887.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033872, intron 2 of 3)	intron (NM_001033872, intron 2 of 3)	3873.0	NM_001285414	207818.0	Mm.26282	NM_174992	ENSMUSG00000053559	Smagp	-	small cell adhesion glycoprotein	protein-coding	7.0	8.5	7.5	144.5	27.0	3.0	13.5	4.0
Merged-chr9-102834888-4	chr9	102834805	102835005	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013649)	promoter-TSS (NM_013649)	-15.0	NM_013649	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	39.5	46.5	29.5	557.5	71.5	21.5	38.0	18.5
Merged-chr4-58288969-4	chr4	58288849	58289049	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037128, intron 1 of 14)	intron (NM_001037128, intron 1 of 14)	2987.0	NM_010944	18198.0	Mm.16148	NM_010944	ENSMUSG00000057280	Musk	Mdk4|Mlk|Nsk1|Nsk2|Nsk3	muscle, skeletal, receptor tyrosine kinase	protein-coding	60.5	54.5	79.5	656.5	29.0	3.5	10.5	12.0
Merged-chr15-27926052-4	chr15	27925937	27926137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	99811.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	181.0	213.0	274.0	4012.0	492.5	144.0	261.5	192.5
Merged-chr9-114843793-3	chr9	114843682	114843882	+	860.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027294, exon 1 of 4)	exon (NM_027294, exon 1 of 4)	370.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	8.5	20.5	5.0	163.5	24.0	4.0	7.5	11.0
Merged-chr2-119547631-4	chr2	119547539	119547739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019769)	promoter-TSS (NM_019769)	-12.0	NM_172857	241624.0	Mm.212773	NM_172857	ENSMUSG00000048647	Exd1	4932702D22Rik|Exdl1|mExd1	exonuclease 3'-5' domain containing 1	protein-coding	180.5	281.5	185.0	2611.0	418.0	173.5	221.0	200.0
Merged-chr8-67917257-3	chr8	67917145	67917345	+	702.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177698, intron 3 of 14)	intron (NM_177698, intron 3 of 14)	-6299.0	NM_030263	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	10.5	8.0	4.5	136.5	15.0	7.0	5.5	8.5
Merged-chr3-69193227-3	chr3	69193133	69193333	+	854.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29186.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	5.5	1.0	3.0	89.0	23.0	9.0	8.5	6.0
Merged-chr18-5101040-3	chr18	5100938	5101138	+	943.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347449, intron 22 of 30)	intron (NM_001347449, intron 22 of 30)	54449.0	NM_001347449	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	9.0	33.5	18.0	406.0	10.0	8.0	8.5	7.5
Merged-chr7-64357662-4	chr7	64357560	64357760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177893, intron 8 of 13)	MLTR14|LTR|ERV1	16435.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	49.5	59.0	101.5	1820.5	105.5	30.5	101.5	65.0
Merged-chr2-155979481-4	chr2	155979382	155979582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130000, intron 19 of 32)	intron (NM_001130000, intron 19 of 32)	22924.0	NM_177217	16328.0	Mm.288729	NM_008383	ENSMUSG00000038241	Cep250	AW490617|B230210E21Rik|Cep2|Inmp	centrosomal protein 250	protein-coding	37.0	72.0	41.5	643.5	63.5	38.0	46.0	50.0
Merged-chr17-23983059-4	chr17	23982960	23983160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7830.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	115.0	139.0	101.0	2041.0	309.5	104.0	154.5	114.0
Merged-chr2-165881119-4	chr2	165881008	165881208	+	972.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 1 of 11)	intron (NM_001252587, intron 1 of 11)	1170.0	NM_001281926	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	15.0	19.0	11.0	230.0	34.5	11.5	5.5	18.0
Merged-chr4-32574714-3	chr4	32574614	32574814	+	762.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 3 of 4)	B3|SINE|B2	-3052.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	3.5	4.0	6.5	134.0	16.0	7.5	6.5	8.0
Merged-chr6-88047997-4	chr6	88047897	88048097	+	927.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2727.0	NM_009005	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	14.0	14.0	11.0	189.5	44.0	6.0	16.5	14.0
Merged-chr11-80177407-4	chr11	80177307	80177507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 10 of 10)	intron (NM_172133, intron 10 of 10)	-6465.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	85.5	116.5	116.5	998.0	212.5	88.0	88.5	97.5
Merged-chr13-51844837-4	chr13	51844714	51844914	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1861.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	14.0	28.5	11.0	194.0	43.0	16.5	25.0	18.5
Merged-chr4-45883429-3	chr4	45883328	45883528	+	686.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305421, intron 17 of 18)	intron (NM_001305421, intron 17 of 18)	-6875.0	NM_198660	381522.0	Mm.54220	NM_198660	ENSMUSG00000035539	Ccdc180	E230008N13Rik|Gm1025	coiled-coil domain containing 180	protein-coding	14.5	8.5	7.5	225.0	1.5	1.0	3.0	4.0
Merged-chr15-68258957-4	chr15	68258845	68259045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145888)	promoter-TSS (NM_001145888)	-89.0	NM_198644	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	130.5	158.5	87.0	1679.0	328.0	115.5	177.0	125.5
Merged-chr14-55757785-3	chr14	55757662	55757862	+	744.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009894, intron 2 of 4)	intron (NM_009894, intron 2 of 4)	662.0	NM_009894	12684.0	Mm.466766	NM_009894	ENSMUSG00000022219	Cideb	1110030C18Rik|AI790179|CIDE-B	cell death-inducing DNA fragmentation factor, alpha subunit-like effector B	protein-coding	8.0	19.0	5.5	81.0	10.0	8.5	4.5	4.5
Merged-chr14-75761294-3	chr14	75761178	75761378	+	768.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026232)	TTS (NM_026232)	-6785.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	2.0	8.5	5.0	51.5	17.0	10.0	7.0	10.5
Merged-chr10-99485762-3	chr10	99485676	99485876	+	759.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123395.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	7.0	5.5	5.0	162.5	12.5	6.0	8.5	5.0
Merged-chr3-19183614-4	chr3	19183527	19183727	+	969.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3693.0	NM_001253390	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	19.0	15.5	16.5	257.0	60.5	13.5	17.0	21.0
Merged-chr2-26498881-4	chr2	26498817	26499017	+	847.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008714, intron 2 of 33)	intron (NM_008714, intron 2 of 33)	4905.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	6.0	11.0	16.0	82.5	21.5	4.5	9.5	3.5
Merged-chr13-47233294-4	chr13	47233166	47233366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 4 of 7)	intron (NM_146042, intron 4 of 7)	39263.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	50.0	41.0	56.0	901.5	73.5	23.5	25.5	28.5
Merged-chr6-114294383-4	chr6	114294289	114294489	+	897.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178703, intron 1 of 15)	intron (NM_178703, intron 1 of 15)	11754.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	12.5	29.5	19.5	68.0	27.5	31.0	13.5	8.0
Merged-chr11-106673661-4	chr11	106673572	106673772	+	888.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 12 of 14)	intron (NM_001305158, intron 12 of 14)	41609.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	18.0	22.5	12.5	176.5	25.0	6.0	9.0	11.5
Merged-chr13-113589735-4	chr13	113589641	113589841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28823.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	293.0	391.0	313.0	4633.5	491.0	211.0	296.5	213.0
Merged-chr18-75837809-1	chr18	75837709	75837909	+	604.333313	f1_c57bl6.idr	intron (NM_145356, intron 1 of 4)	intron (NM_145356, intron 1 of 4)	17631.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	1.0	4.5	3.0	39.0	10.5	6.0	8.5	10.0
Merged-chr2-19716029-4	chr2	19715912	19716112	+	878.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57950.0	NM_027715	71198.0	Mm.83981	NM_027715	ENSMUSG00000043415	Otud1	4933428L19Rik	OTU domain containing 1	protein-coding	5.0	12.5	5.0	143.5	27.0	12.5	16.0	24.0
Merged-chr1-86202830-4	chr1	86202728	86202928	+	928.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 17 of 20)	intron (NM_027456, intron 17 of 20)	48048.0	NM_001310702	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	35.0	36.5	31.5	311.5	25.0	11.0	10.5	11.0
Merged-chr18-76929437-4	chr18	76929328	76929528	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025409)	promoter-TSS (NM_025409)	-599.0	NM_025409	66191.0	Mm.28593	NM_025409	ENSMUSG00000090000	Ier3ip1	1110057H19Rik|AI644142|AL022842|AL022863|AV026606	immediate early response 3 interacting protein 1	protein-coding	30.5	52.0	27.0	600.5	95.5	17.5	48.0	21.0
Merged-chr11-117987288-4	chr11	117987177	117987377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151726, intron 1 of 9)	CpG	420.0	NR_151726	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	47.0	85.5	41.0	508.5	100.5	56.5	35.5	41.0
Merged-chr3-146564486-4	chr3	146564443	146564643	+	861.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32606.0	NM_009474	22262.0	Mm.10865	NM_009474	ENSMUSG00000028186	Uox	AI663847	urate oxidase	protein-coding	7.0	25.0	7.5	214.0	26.5	8.0	8.0	4.5
Merged-chr12-24831573-4	chr12	24831531	24831731	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083341)	promoter-TSS (NM_001083341)	32.0	NM_001083341	67216.0	Mm.167671	NM_026037	ENSMUSG00000020646	Mboat2	2810049G06Rik|AU022889|AW547221|LPCAT4|Moact2|Oact2	membrane bound O-acyltransferase domain containing 2	protein-coding	28.5	60.0	45.5	633.0	40.0	13.5	15.5	25.0
Merged-chr2-11542829-4	chr2	11542735	11542935	+	977.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	B3A|SINE|B2	11094.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	17.5	30.0	10.0	365.5	42.0	26.0	21.0	20.0
Merged-chr5-121409073-4	chr5	121408968	121409168	+	876.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172722, intron 3 of 23)	intron (NM_172722, intron 3 of 23)	11086.0	NM_172722	231713.0	Mm.33919	NM_172722	ENSMUSG00000042719	Naa25	4833422K13Rik|A630046C11|AI450868|C330023M02Rik|Mdm20	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	protein-coding	11.5	10.0	6.0	100.5	18.0	15.0	6.0	22.5
Merged-chr1-33719965-4	chr1	33719866	33720066	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008999)	promoter-TSS (NM_008999)	70.0	NM_008999	19335.0	Mm.86744	NM_008999	ENSMUSG00000004768	Rab23	AW545388|opb|opb2	RAB23, member RAS oncogene family	protein-coding	33.5	38.5	25.5	301.5	34.5	16.0	24.5	29.5
Merged-chr8-23038649-4	chr8	23038666	23038866	+	894.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277284, intron 1 of 42)	intron (NM_001277284, intron 1 of 42)	3667.0	NM_001277284	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	5.0	3.0	6.0	26.5	25.5	17.0	4.5	11.5
Merged-chr4-150011930-4	chr4	150011825	150012025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2902.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	38.0	41.5	30.0	347.5	89.5	33.5	33.0	32.5
Merged-chr4-130360044-4	chr4	130359919	130360119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153160)	promoter-TSS (NM_153160)	-27.0	NM_153160	619605.0	Mm.297196	NM_153160	ENSMUSG00000028772	Zcchc17	2810055E05Rik|HSPC251|LDC4|pNO40|pS1D	zinc finger, CCHC domain containing 17	protein-coding	168.5	273.0	146.0	2042.5	358.5	162.0	128.5	170.5
Merged-chr5-113783863-4	chr5	113783761	113783961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11049.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	48.0	115.0	63.5	637.0	121.5	59.5	54.0	46.5
Merged-chr10-34138238-4	chr10	34138135	34138335	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-10263.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	36.0	39.0	24.5	432.0	79.0	25.5	31.5	20.0
Merged-chr10-20005675-4	chr10	20005570	20005770	+	940.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 2 of 29)	intron (NM_008580, intron 2 of 29)	71144.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	23.0	11.5	15.5	289.0	33.0	22.5	14.5	23.5
Merged-chr2-180920471-2	chr2	180920357	180920557	+	993.5	f0_c57.idr|f1_balb.idr	intron (NM_173761, intron 1 of 4)	CpG	479.0	NM_173761	228994.0	Mm.30205	NM_173761	ENSMUSG00000038848	Ythdf1	2210410K23Rik|8030473O16	YTH domain family 1	protein-coding	12.5	9.0	8.0	85.5	53.0	8.5	17.5	24.0
Merged-chr13-67060350-4	chr13	67060256	67060456	+	796.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166218, intron 1 of 3)	Lx8|LINE|L1	814.0	NM_001166218	78251.0	Mm.297247	NM_001166218	ENSMUSG00000090641	Zfp712	4921504N20Rik|mszf31|mszf89	zinc finger protein 712	protein-coding	4.0	4.0	7.0	70.5	41.5	17.5	23.0	19.5
Merged-chr11-74524373-4	chr11	74524268	74524468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	65790.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	20.5	33.0	14.0	400.0	72.5	18.5	24.5	20.5
Merged-chr5-64811320-3	chr5	64811184	64811384	+	944.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	7761.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	21.5	9.5	10.5	270.0	12.5	10.0	9.0	19.5
Merged-chr16-92713991-4	chr16	92713900	92714100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	-16671.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	47.0	52.5	41.5	964.5	77.0	30.0	49.0	49.5
Merged-chr7-101029581-4	chr7	101029473	101029673	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17520.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	43.5	57.5	29.0	502.5	40.0	16.0	17.0	20.0
Merged-chr12-76376896-4	chr12	76376789	76376989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	intron (NM_178744, intron 1 of 1)	6623.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	31.0	42.5	32.0	521.5	74.0	34.0	51.0	35.5
Merged-chr2-29889664-4	chr2	29889554	29889754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177661)	promoter-TSS (NM_001177661)	-66.0	NM_001177661	18286.0	Mm.330116	NM_013615	ENSMUSG00000026790	Odf2	AI848335|MMTEST29	outer dense fiber of sperm tails 2	protein-coding	157.5	257.0	133.5	1520.5	427.5	185.0	159.5	152.0
Merged-chr6-86370990-2	chr6	86370890	86371090	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026506)	promoter-TSS (NM_026506)	-550.0	NM_026506	68011.0	Mm.276802	NM_026506	ENSMUSG00000057278	Snrpg	2810024K17Rik|AL022803|SMG|sm-G|snRNP-G	small nuclear ribonucleoprotein polypeptide G	protein-coding	7.5	9.5	8.5	111.0	26.0	2.5	4.5	16.0
Merged-chr6-49264039-4	chr6	49263946	49264146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347209)	promoter-TSS (NM_001347209)	6.0	NM_001347209	101214.0	Mm.196598	NM_198102	ENSMUSG00000029817	Tra2a	1500010G04Rik|AL022798|G430041M01Rik|mAWMS1	transformer 2 alpha	protein-coding	86.0	155.0	85.5	1511.5	337.5	97.5	116.0	137.0
Merged-chr7-119920640-4	chr7	119920564	119920764	+	899.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20553.0	NR_126475	73919.0	Mm.46381	NM_029610	ENSMUSG00000030922	Lyrm1	1110065L10Rik|2310004B22Rik|4930404J24Rik	LYR motif containing 1	protein-coding	15.5	7.5	12.5	63.5	44.0	11.0	20.5	27.5
Merged-chr6-28261015-4	chr6	28260931	28261131	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081678, intron 1 of 5)	CpG	570.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	13.5	18.0	21.0	134.5	32.5	5.0	18.5	13.0
Merged-chr8-125012944-4	chr8	125012783	125012983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016909)	promoter-TSS (NM_016909)	-114.0	NM_016909	53424.0	Mm.5248	NM_016909	ENSMUSG00000056820	Tsnax	R74833|Trax	translin-associated factor X	protein-coding	60.5	82.0	73.5	971.5	127.0	48.0	62.0	37.0
Merged-chr14-54937011-3	chr14	54936905	54937105	+	635.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029390, intron 1 of 3)	intron (NM_029390, intron 1 of 3)	508.0	NM_029390	67272.0	Mm.41614	NM_026066	ENSMUSG00000040759	Cmtm5	1500005P16Rik|2900052H21Rik|Cklfsf5	CKLF-like MARVEL transmembrane domain containing 5	protein-coding	6.0	6.0	7.0	90.0	16.5	0.0	6.5	13.5
Merged-chr12-32819512-2	chr12	32819412	32819612	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021524)	promoter-TSS (NM_021524)	-823.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	5.0	11.0	1.5	142.0	21.0	10.0	5.5	11.5
Merged-chr15-50779201-3	chr15	50779131	50779331	+	851.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	109818.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	2.0	10.0	11.5	171.5	10.5	6.5	6.0	5.0
Merged-chr1-93818353-4	chr1	93818250	93818450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025454, exon 8 of 8)	3' UTR (NM_025454, exon 8 of 8)	-6890.0	NM_178882	98314.0	Mm.383401	NM_178882	ENSMUSG00000073609	D2hgdh	AA408776|AA408778|AI325464	D-2-hydroxyglutarate dehydrogenase	protein-coding	35.5	45.5	32.5	470.5	55.0	19.0	27.5	29.5
Merged-chr9-106200102-4	chr9	106200012	106200212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026447)	promoter-TSS (NM_026447)	-879.0	NM_026447	67905.0	Mm.23018	NM_026447	ENSMUSG00000020253	Ppm1m	2810423O19Rik|AW610647|C77250|PP2Ceta	protein phosphatase 1M	protein-coding	38.5	53.0	36.5	489.5	130.5	57.5	55.0	43.5
Merged-chr7-110627444-4	chr7	110627315	110627515	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009627)	promoter-TSS (NM_009627)	-242.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	8.0	20.0	8.0	172.5	36.0	7.0	7.0	14.0
Merged-chr14-21747961-4	chr14	21747850	21748050	+	896.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007268, intron 1 of 7)	intron (NM_001007268, intron 1 of 7)	672.0	NM_001007268	27389.0	Mm.390674	NM_013849	ENSMUSG00000021768	Dusp13	DUSP13A|DUSP13B|Gm1203|LMW-DSP6|MDSP|TMDP|TS-DSP6	dual specificity phosphatase 13	protein-coding	20.0	15.0	19.0	371.5	25.0	15.0	12.0	19.5
Merged-chr1-131915878-4	chr1	131915760	131915960	+	961.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145804, intron 1 of 6)	intron (NM_001145804, intron 1 of 6)	5402.0	NM_175294	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	29.0	42.5	40.5	510.5	53.5	8.5	18.0	18.0
Merged-chr5-8350963-3	chr5	8350862	8351062	+	693.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	17198.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	13.0	6.5	22.5	234.0	15.0	9.5	6.0	5.5
Merged-chr3-20509405-4	chr3	20509317	20509517	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-142240.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	6.0	17.5	14.0	183.5	37.5	13.0	24.5	6.5
Merged-chr6-115995107-4	chr6	115995049	115995249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026376)	promoter-TSS (NM_026376)	-144.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	72.0	85.5	89.5	642.5	115.5	82.5	69.5	63.5
Merged-chr8-79734498-3	chr8	79734407	79734607	+	774.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357237, intron 5 of 5)	intron (NM_001357237, intron 5 of 5)	22658.0	NM_001357236	68999.0	Mm.257445	NM_026904	ENSMUSG00000036977	Anapc10	1500026N15Rik|A830003M23Rik|APC10	anaphase promoting complex subunit 10	protein-coding	12.5	14.5	3.5	133.0	26.5	4.5	5.5	11.5
Merged-chr6-87130265-4	chr6	87130163	87130363	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	25517.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	6.0	18.0	10.5	227.0	33.5	7.0	7.0	12.0
Merged-chr19-32780500-4	chr19	32780426	32780626	+	932.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 2 of 8)	intron (NM_008960, intron 2 of 8)	22949.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	27.5	16.0	12.0	187.0	34.0	14.5	6.0	12.5
Merged-chr2-150779372-4	chr2	150779268	150779468	+	992.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-7428.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	20.5	12.0	29.0	297.5	40.5	8.0	18.0	12.0
Merged-chr6-147042781-4	chr6	147042671	147042871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145573)	promoter-TSS (NM_145573)	1.0	NM_145573	232536.0	Mm.46656	NM_145573	ENSMUSG00000040112	Mrps35	MDSO23|MRP-S28|MRPS28	mitochondrial ribosomal protein S35	protein-coding	71.5	83.5	52.0	1093.5	169.5	71.0	78.0	64.5
Merged-chr5-136642401-3	chr5	136642309	136642509	+	859.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50737.0	NM_001303019	59310.0	Mm.5178	NM_021611	ENSMUSG00000005474	Myl10	1700027I08Rik|Mylc2pl|PLRLC	myosin, light chain 10, regulatory	protein-coding	13.0	21.5	10.5	111.0	18.0	4.5	5.5	10.0
Merged-chr2-18872949-4	chr2	18872867	18873067	+	699.012512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355147, intron 3 of 8)	intron (NM_001355147, intron 3 of 8)	-71149.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	11.5	10.0	0.5	98.0	26.5	12.5	10.5	15.5
Merged-chr16-91452186-6	chr16	91452109	91452309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12895.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	22.0	37.5	17.5	497.5	56.0	22.5	30.0	21.5
Merged-chr2-160348285-4	chr2	160348183	160348383	+	971.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18782.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	6.5	17.0	17.0	213.5	33.0	21.0	26.0	26.0
Merged-chr9-30448630-4	chr9	30448543	30448743	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028874, intron 8 of 10)	intron (NM_028874, intron 8 of 10)	21314.0	NM_028874	102607.0	Mm.35084	NM_028874	ENSMUSG00000031993	Snx19	3526401K03Rik|AI195321|AI848208|mKIAA0254	sorting nexin 19	protein-coding	4.0	13.5	8.0	236.0	29.5	4.5	8.0	16.0
Merged-chr10-25434592-4	chr10	25434494	25434694	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013511, intron 1 of 19)	intron (NM_013511, intron 1 of 19)	26226.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	23.5	28.5	16.5	231.0	32.5	11.5	8.5	6.5
Merged-chr13-60435113-3	chr13	60435018	60435218	+	884.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-166829.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	20.0	16.5	11.0	182.5	16.0	5.5	6.0	2.5
Merged-chr10-63243048-3	chr10	63242832	63243032	+	887.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026101)	promoter-TSS (NM_026101)	-865.0	NM_030114	67345.0	Mm.234437	NM_026101	ENSMUSG00000020064	Herc4	1700056O17Rik|4921531D01Rik|9530080M15Rik|mKIAA1593	hect domain and RLD 4	protein-coding	4.5	6.0	7.0	44.0	24.0	6.0	6.5	3.0
Merged-chr5-136908140-4	chr5	136908061	136908261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026073)	promoter-TSS (NM_026073)	11.0	NM_026073	67286.0	Mm.41779	NM_026073	ENSMUSG00000007987	Ift22	3110017O03Rik|AI835745|AI847427|Rabl5	intraflagellar transport 22	protein-coding	17.0	33.0	23.0	221.0	69.5	24.0	40.5	20.0
Merged-chr11-79278768-4	chr11	79278656	79278856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24061.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	105.5	153.0	92.5	1057.0	204.0	64.0	79.0	74.0
Merged-chr4-89351697-4	chr4	89351596	89351796	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-40664.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	10.0	33.5	20.0	232.5	44.5	21.0	10.5	14.0
Merged-chr9-95783849-4	chr9	95783754	95783954	+	898.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033210, intron 5 of 15)	intron (NM_001033210, intron 5 of 15)	-33496.0	NM_011643	22063.0	Mm.149633	NM_011643	ENSMUSG00000032839	Trpc1	Mtrp1|Trp1|Trrp1	transient receptor potential cation channel, subfamily C, member 1	protein-coding	22.5	13.5	11.5	410.5	27.0	5.0	12.0	11.0
Merged-chr18-32376435-4	chr18	32376392	32376592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083334)	promoter-TSS (NM_001083334)	-725.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	23.5	29.5	24.5	286.0	74.5	19.0	25.0	28.0
Merged-chr14-48465142-3	chr14	48465046	48465246	+	721.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310584, intron 4 of 16)	intron (NM_001310584, intron 4 of 16)	18794.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	4.5	7.5	6.0	98.5	5.5	4.5	8.0	4.5
Merged-chr2-91182927-4	chr2	91182850	91183050	+	868.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145527)	promoter-TSS (NM_145527)	97.0	NM_001177719	228355.0	Mm.36410	NM_145527	ENSMUSG00000040687	Madd	9630059K23Rik|IG20	MAP-kinase activating death domain	protein-coding	7.0	18.0	9.5	130.5	25.0	5.0	7.0	8.5
Merged-chr7-109959199-4	chr7	109959095	109959295	+	889.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021494, intron 1 of 22)	intron (NM_021494, intron 1 of 22)	1227.0	NM_021494	19347.0	Mm.21904	NM_021494	ENSMUSG00000035901	Dennd5a	1500012B19Rik|AJ245569|AW496491|ORF37|Rab6ip1|mKIAA1091	DENN/MADD domain containing 5A	protein-coding	13.0	26.0	10.0	111.5	34.0	14.5	16.5	3.5
Merged-chr4-129742917-4	chr4	129742813	129743013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045036)	promoter-TSS (NR_045036)	-610.0	NR_045036	20218.0	Mm.8256	NM_011317	ENSMUSG00000028790	Khdrbs1	Sam68|p62|p68	KH domain containing, RNA binding, signal transduction associated 1	protein-coding	42.5	48.5	44.5	716.5	129.0	38.5	61.5	44.0
Merged-chr1-136582070-4	chr1	136581958	136582158	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42843.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	27.5	52.5	15.5	469.5	105.5	36.0	32.0	37.5
Merged-chr4-47247020-3	chr4	47246936	47247136	+	847.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 3 of 39)	intron (NM_009928, intron 3 of 39)	39024.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	7.5	12.5	12.5	130.0	18.5	13.0	4.5	8.0
Merged-chr7-120203974-4	chr7	120203880	120204080	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026458)	promoter-TSS (NM_026458)	16.0	NM_026458	67928.0	Mm.158178	NM_026458	ENSMUSG00000062017	Abca14	1700110B15Rik|4930539G24Rik	ATP-binding cassette, sub-family A (ABC1), member 14	protein-coding	17.0	36.5	13.0	418.5	55.5	18.5	46.5	33.0
Merged-chr11-100622924-4	chr11	100622827	100623027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028024)	promoter-TSS (NM_028024)	-28.0	NM_028024	71966.0	Mm.274734	NM_028024	ENSMUSG00000017837	Nkiras2	2410003M04Rik|4930527H08Rik|D630018G21Rik|KBRAS2	NFKB inhibitor interacting Ras-like protein 2	protein-coding	73.5	96.5	65.0	700.5	238.5	77.0	106.5	74.0
Merged-chr15-93519111-4	chr15	93519000	93519200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033217, intron 1 of 7)	CpG	76791.0	NM_001033217	106042.0	Mm.150314	NM_001033217	ENSMUSG00000036158	Prickle1	1110058P22Rik|AW215793|Prickle|b2b019Clo|mpk1	prickle planar cell polarity protein 1	protein-coding	31.5	58.5	65.5	557.0	45.5	15.5	26.0	31.0
Merged-chr5-138195178-4	chr5	138195048	138195248	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177878, exon 1 of 1)	exon (NM_177878, exon 1 of 1)	834.0	NM_177878	330216.0	Mm.19719	NM_177878	ENSMUSG00000049285	Mblac1	-	metallo-beta-lactamase domain containing 1	protein-coding	17.5	36.5	17.5	145.0	36.5	10.0	20.0	17.0
Merged-chr8-56305395-4	chr8	56305315	56305515	+	918.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 3 of 6)	Lx7|LINE|L1	10863.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	18.5	15.0	9.5	391.0	58.0	18.0	9.5	12.0
Merged-chr11-103102180-4	chr11	103102061	103102261	+	910.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152813)	promoter-TSS (NM_152813)	473.0	NM_025988	67131.0	Mm.390367	NM_025988	ENSMUSG00000056938	Acbd4	2010009P05Rik|2010015A21Rik|AI849317	acyl-Coenzyme A binding domain containing 4	protein-coding	15.5	15.0	11.0	138.0	28.0	18.5	7.5	17.0
Merged-chr6-5291014-3	chr6	5290922	5291122	+	654.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183308, intron 1 of 8)	intron (NM_183308, intron 1 of 8)	7351.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	7.0	15.5	4.5	97.5	16.0	6.5	5.0	8.0
Merged-chr18-60638427-4	chr18	60638328	60638528	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14123.0	NM_177340	104027.0	Mm.252321	NM_177340	ENSMUSG00000043079	Synpo	9030217H17Rik|9130229N11|9330140I15Rik|AW046661	synaptopodin	protein-coding	52.0	127.5	43.0	692.5	48.5	12.5	28.0	23.0
Merged-chr6-85029859-3	chr6	85029759	85029959	+	976.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 1 of 21)	intron (NM_177077, intron 1 of 21)	39654.0	NM_177077	75914.0	Mm.159621	NM_177077	ENSMUSG00000033769	Exoc6b	4930569O18Rik|G430127E12Rik|Sec15b|Sec15l2|mKIAA0919	exocyst complex component 6B	protein-coding	11.0	8.5	13.0	255.5	23.0	4.0	6.5	11.5
Merged-chr4-132944922-4	chr4	132944786	132944986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MARNA|DNA|TcMar-Mariner	-22335.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	39.0	43.0	43.5	454.5	66.0	15.5	26.5	20.5
Merged-chr19-18616750-2	chr19	18616545	18616745	+	943.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	15168.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	4.0	1.0	2.0	37.5	16.5	8.0	5.0	4.5
Merged-chr9-85413993-4	chr9	85413864	85414064	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86814.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	16.5	26.5	24.0	492.5	73.5	26.0	32.5	26.0
Merged-chr3-100932384-4	chr3	100932267	100932467	+	900.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001165953, exon 7 of 7)	3' UTR (NM_001165953, exon 7 of 7)	9874.0	NM_001165953	229644.0	Mm.189351	NM_194343	ENSMUSG00000033233	Trim45	4921530N01Rik	tripartite motif-containing 45	protein-coding	16.5	9.0	14.5	131.0	34.0	14.0	12.5	13.5
Merged-chr2-80065326-4	chr2	80065202	80065402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	RMER19C|LTR|ERVK	-26400.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	25.5	29.0	57.5	920.5	55.5	19.0	31.5	32.5
Merged-chr2-50789437-5	chr2	50789391	50789591	+	761.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120193.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	5.5	7.0	5.0	103.5	10.5	6.5	5.0	4.0
Merged-chr2-27739679-4	chr2	27739547	27739747	+	979.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 2 of 9)	intron (NM_001290481, intron 2 of 9)	29064.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	18.5	11.5	24.0	266.0	82.0	22.5	14.0	22.0
Merged-chr15-100669565-4	chr15	100669476	100669676	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001270537)	promoter-TSS (NM_001270537)	-76.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	13.5	31.5	14.0	259.5	48.5	15.0	19.0	30.5
Merged-chr14-54777707-2	chr14	54777609	54777809	+	682.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	4177.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	5.0	4.5	7.0	34.5	17.0	4.0	6.0	6.0
Merged-chr11-58104519-4	chr11	58104414	58104614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356477, intron 1 of 6)	CpG	285.0	NM_001356477	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	80.5	94.5	60.0	994.5	79.0	45.5	38.5	59.0
Merged-chr14-60265146-4	chr14	60265024	60265224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144843)	promoter-TSS (NM_144843)	-81.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	201.5	344.5	169.5	2372.0	406.0	161.5	201.0	166.0
Merged-chr5-41187476-3	chr5	41187375	41187575	+	846.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	520216.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	0.0	0.5	3.5	58.5	19.5	7.5	11.5	16.0
Merged-chr2-28513192-4	chr2	28513085	28513285	+	903.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145834)	promoter-TSS (NM_001145834)	18.0	NM_001145834	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	15.0	19.5	12.0	109.0	36.0	10.5	10.5	7.5
Merged-chr15-89404739-3	chr15	89404648	89404848	+	663.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162880, intron 1 of 2)	intron (NM_001162880, intron 1 of 2)	5515.0	NM_001162882	75459.0	Mm.45462	NM_001162880	ENSMUSG00000078938	Syce3	1700007E06Rik|TSEG-2|TSEG2	synaptonemal complex central element protein 3	protein-coding	7.5	9.0	7.0	65.0	10.0	3.0	7.0	9.0
Merged-chr2-102989972-3	chr2	102989842	102990042	+	885.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83571.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	7.0	6.0	8.5	54.5	5.5	2.5	2.0	4.5
Merged-chr3-65380736-4	chr3	65380632	65380832	+	894.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026155, exon 5 of 5)	3' UTR (NM_026155, exon 5 of 5)	11821.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	17.0	21.5	13.0	325.0	21.5	10.5	13.5	22.5
Merged-chr18-54978842-4	chr18	54978739	54978939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	11341.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	60.5	52.5	23.5	673.5	80.5	29.0	46.0	48.5
Merged-chr7-101550863-4	chr7	101550761	101550961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4941.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	54.5	78.0	63.0	494.0	184.5	61.5	47.0	48.0
Merged-chr15-98484121-4	chr15	98484004	98484204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1421.0	NM_010679	16770.0	Mm.5074	NM_010679	ENSMUSG00000022991	Lalba	AW208827|Lyzg	lactalbumin, alpha	protein-coding	80.0	77.0	65.5	883.5	185.0	69.5	87.0	78.5
Merged-chr13-113269997-4	chr13	113269898	113270098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60339.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	21.5	31.5	14.0	250.0	41.5	8.5	26.0	26.5
Merged-chr17-46160928-4	chr17	46160813	46161013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019581)	promoter-TSS (NM_019581)	-119.0	NM_019581	56055.0	Mm.22147	NM_019581	ENSMUSG00000023952	Gtpbp2	nmf205	GTP binding protein 2	protein-coding	295.5	351.5	207.0	3174.0	502.5	188.0	275.0	219.5
Merged-chr17-13008900-4	chr17	13008801	13009001	+	943.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013671, intron 2 of 4)	intron (NM_013671, intron 2 of 4)	1062.0	NM_013671	20656.0	Mm.290876	NM_013671	ENSMUSG00000006818	Sod2	MnSOD|Sod-2	superoxide dismutase 2, mitochondrial	protein-coding	15.0	25.5	14.0	96.5	28.0	14.0	10.5	13.5
Merged-chr7-28766632-4	chr7	28766523	28766723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122765)	promoter-TSS (NM_001122765)	21.0	NM_001306222	18036.0	Mm.220333	NM_010908	ENSMUSG00000030595	Nfkbib	I(Kappa)B(beta)|I-kappa-B-beta|IKB-beta|IKappaBbeta|IkB|IkBb|NF-kappa-BIB|ikB-B	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, beta	protein-coding	320.0	519.0	407.5	3903.0	850.0	392.0	343.5	343.5
Merged-chr5-36830125-4	chr5	36830007	36830207	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008550, intron 1 of 18)	intron (NM_008550, intron 1 of 18)	542.0	NM_008550	17160.0	Mm.761	NM_008550	ENSMUSG00000029119	Man2b2	mKIAA0935	mannosidase 2, alpha B2	protein-coding	11.0	19.5	15.5	205.0	23.5	10.0	23.5	13.5
Merged-chr2-135562731-3	chr2	135562632	135562832	+	835.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A1|LTR|ERVL	20488.0	NR_015544	320684.0	Mm.421433	NR_015544	ENSMUSG00000085631	9630028H03Rik	-	RIKEN cDNA 9630028H03 gene	ncRNA	6.0	1.0	9.5	119.5	16.5	5.0	10.5	8.5
Merged-chr2-31259096-4	chr2	31258958	31259158	+	951.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019681, intron 1 of 7)	intron (NM_019681, intron 1 of 7)	13135.0	NM_019681	14299.0	Mm.249318	NM_019681	ENSMUSG00000062661	Ncs1	9430075O15Rik|A730032G13Rik|AI836659|Freq|Mfreq|NCS-1	neuronal calcium sensor 1	protein-coding	15.0	19.5	16.5	197.0	27.0	11.5	15.0	27.5
Merged-chr1-184628964-3	chr1	184628880	184629080	+	688.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-71289.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	14.0	12.0	6.0	108.5	19.5	4.5	4.5	8.5
Merged-chr18-64527467-4	chr18	64527354	64527554	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10897.0	NM_001142950	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	34.0	30.0	18.5	434.5	56.0	14.5	28.5	22.0
Merged-chr12-109507876-4	chr12	109507759	109507959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33137.0	NR_027652	17263.0	Mm.289645	NM_144513	ENSMUSG00000021268	Meg3	2900016C05Rik|3110050O07Rik|6330408G06Rik|AI425946|AW108224|D12Bwg1266e|Gtl2|R74756|R75394	maternally expressed 3	ncRNA	28.0	38.5	34.5	443.0	71.0	33.0	39.0	37.0
Merged-chr8-105303579-4	chr8	105303484	105303684	+	792.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148952, intron 7 of 9)	intron (NM_148952, intron 7 of 9)	-2017.0	NM_172760	234683.0	Mm.237966	NM_172760	ENSMUSG00000014791	Elmo3	9930107J06|BC058752|CED-12|Ced12	engulfment and cell motility 3	protein-coding	9.0	3.0	5.5	91.0	28.5	15.5	15.5	15.5
Merged-chr14-30974355-4	chr14	30974236	30974436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011849, exon 8 of 15)	exon (NM_011849, exon 8 of 15)	22959.0	NM_011849	23955.0	Mm.251494	NM_011849	ENSMUSG00000021918	Nek4	Stk2	NIMA (never in mitosis gene a)-related expressed kinase 4	protein-coding	46.0	44.0	34.0	514.0	88.0	33.5	62.5	50.5
Merged-chr4-126131928-4	chr4	126131887	126132087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 6 of 10)	intron (NM_028800, intron 6 of 10)	-16016.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	117.5	171.0	85.0	1831.5	225.5	99.0	157.5	108.0
Merged-chr11-69758263-2	chr11	69758153	69758353	+	1000.0	f0_balb.idr|f0_c57.idr	5' UTR (NM_001291068, exon 1 of 29)	5' UTR (NM_001291068, exon 1 of 29)	380.0	NM_001291068	20020.0	Mm.16533	NM_009089	ENSMUSG00000005198	Polr2a	220kDa|Rpb1|Rpo2-1	polymerase (RNA) II (DNA directed) polypeptide A	protein-coding	125.0	181.0	105.0	1400.0	357.5	123.0	138.5	104.5
Merged-chr16-97962739-4	chr16	97962667	97962867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081684)	promoter-TSS (NM_001081684)	-145.0	NM_001320385	114565.0	Mm.474489	NM_175428	ENSMUSG00000046962	Zbtb21	5430437K12Rik|B430213I24Rik|Zfp295|Znf295|mKIAA1227	zinc finger and BTB domain containing 21	protein-coding	187.5	266.0	180.5	1633.5	508.5	164.0	220.5	145.0
Merged-chr11-117878418-3	chr11	117878335	117878535	+	949.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4909.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	13.0	15.5	13.0	344.0	13.5	8.5	8.5	15.5
Merged-chr17-26705623-4	chr17	26705489	26705689	+	785.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10061.0	NM_029870	77128.0	Mm.275414	NM_029870	ENSMUSG00000048249	Crebrf	A930001N09Rik|LRF	CREB3 regulatory factor	protein-coding	17.0	8.5	9.5	123.0	19.0	9.0	4.0	7.5
Merged-chr16-22657077-4	chr16	22656971	22657171	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_138650, exon 1 of 25)	5' UTR (NM_138650, exon 1 of 25)	160.0	NM_138650	110197.0	Mm.194986	NM_138650	ENSMUSG00000022861	Dgkg	2900055E17Rik|90kDa|AI854428|Dagk3|E430001K23Rik|mKIAA4131	diacylglycerol kinase, gamma	protein-coding	40.5	58.5	57.0	646.0	57.5	18.5	44.0	44.0
Merged-chr3-104541464-4	chr3	104541369	104541569	+	874.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29551.0	NM_001310698	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	23.5	30.5	13.0	438.0	33.5	11.5	6.0	6.5
Merged-chr5-3356081-4	chr5	3355978	3356178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	12185.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	50.5	65.5	22.0	361.5	117.5	56.5	37.0	19.0
Merged-chr10-80142300-4	chr10	80142185	80142385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025313)	promoter-TSS (NM_025313)	10.0	NM_001347092	66043.0	Mm.278560	NM_025313	ENSMUSG00000003072	Atp5d	0610008F14Rik|1500000I11Rik|AA960090|AI876556|AU020773|Atp5f1d|C85518	ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit	protein-coding	135.5	270.0	100.0	1672.5	362.5	116.0	158.0	110.0
Merged-chr12-118302152-4	chr12	118302075	118302275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009239)	promoter-TSS (NM_009239)	-735.0	NM_001166385	20688.0	Mm.34699	NM_009239	ENSMUSG00000025323	Sp4	5730497N03Rik|HF-1b|HF1-b	trans-acting transcription factor 4	protein-coding	577.0	831.5	727.0	10851.0	1249.0	419.0	673.5	460.5
Merged-chr2-48716418-4	chr2	48716309	48716509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97700.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	62.0	76.5	50.0	808.5	119.5	26.5	43.0	39.5
Merged-chr2-154604386-2	chr2	154604286	154604486	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021534)	promoter-TSS (NM_021534)	-713.0	NM_021534	59038.0	Mm.24673	NM_021534	ENSMUSG00000000876	Pxmp4	3010018P03Rik|Pmp24	peroxisomal membrane protein 4	protein-coding	11.5	10.0	9.0	66.5	5.5	6.5	4.5	2.0
Merged-chr13-54504202-4	chr13	54504075	54504275	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176987, intron 1 of 9)	CpG	370.0	NM_176987	319719.0	Mm.376151	NM_176987	ENSMUSG00000043183	Simc1	4732471D19Rik	SUMO-interacting motifs containing 1	protein-coding	13.0	18.5	16.5	122.5	39.5	10.5	18.0	19.0
Merged-chr13-107657829-3	chr13	107657723	107657923	+	876.42218	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-29574.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	16.0	19.5	14.5	233.5	5.0	4.5	8.0	8.0
Merged-chr13-13950827-4	chr13	13950815	13951015	+	846.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3759.0	NM_001362404	97884.0	Mm.21686	NM_178640	ENSMUSG00000039242	B3galnt2	A930105D20Rik|C80633|D230016N13Rik	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2	protein-coding	10.5	2.5	10.0	57.0	10.5	7.0	10.5	9.0
Merged-chr18-23954715-4	chr18	23954629	23954829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027007)	promoter-TSS (NM_027007)	41.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	127.0	147.5	148.5	1500.0	238.5	87.0	135.0	78.5
Merged-chr2-102290234-4	chr2	102290121	102290321	+	952.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103761.0	NM_001290784	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	13.0	29.5	12.0	206.5	59.5	20.5	22.0	27.0
Merged-chr4-8911696-4	chr4	8911643	8911843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GC_rich|Low_complexity|Low_complexity	160419.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	37.5	49.5	47.0	418.5	92.5	45.5	62.5	53.5
Merged-chr3-57667203-4	chr3	57667122	57667322	+	734.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033349)	TTS (NM_001033349)	-15538.0	NM_175095	52245.0	Mm.21901	NM_175095	ENSMUSG00000036513	Commd2	1190017G07Rik|AI047739|D3Ertd176e|HSPC042	COMM domain containing 2	protein-coding	11.0	12.5	6.5	83.0	24.0	6.5	7.0	13.0
Merged-chr3-10289874-2	chr3	10289774	10289974	+	603.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_029310, intron 1 of 5)	intron (NM_029310, intron 1 of 5)	11309.0	NM_001357159	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	13.5	1.0	5.0	72.0	11.5	7.5	7.0	4.5
Merged-chr10-127603170-2	chr10	127603064	127603264	+	993.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	17984.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	14.0	7.5	8.5	124.0	10.0	5.0	11.0	10.0
Merged-chr18-10617814-4	chr18	10617718	10617918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009226)	promoter-TSS (NM_009226)	22.0	NM_009226	20641.0	Mm.603	NM_009226	ENSMUSG00000002477	Snrpd1	AA407109|AL023031|SMD1	small nuclear ribonucleoprotein D1	protein-coding	64.5	77.5	49.5	675.0	108.5	49.5	55.0	51.0
Merged-chr13-63258374-4	chr13	63258264	63258464	+	939.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	18335.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	20.0	20.0	23.0	550.0	33.5	12.0	13.0	11.5
Merged-chr4-141538003-4	chr4	141537808	141538008	+	882.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 1 of 14)	CpG	689.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	11.0	17.0	10.5	112.0	23.0	9.5	7.5	7.5
Merged-chr1-178527327-2	chr1	178527227	178527427	+	804.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1798.0	NM_001161665	269152.0	Mm.129727	NM_177724	ENSMUSG00000026494	Kif26b	4832420M10|BC056349|D230039L06Rik	kinesin family member 26B	protein-coding	6.0	5.0	4.5	131.5	21.5	6.0	8.5	9.0
Merged-chr6-66849111-4	chr6	66849003	66849203	+	975.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43771.0	NM_001166720	546903.0	Mm.484975	NM_001166720	ENSMUSG00000093755	Vmn1r39	EG546903|Gm5993	vomeronasal 1 receptor 39	protein-coding	15.5	35.0	22.5	89.5	71.0	23.0	17.5	15.5
Merged-chr11-82747202-4	chr11	82747108	82747308	+	892.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009839, intron 5 of 13)	intron (NM_009839, intron 5 of 13)	17113.0	NM_009839	12467.0	Mm.4126	NM_009839	ENSMUSG00000020698	Cct6b	CCT-zeta-2|CCTzeta-2|Cctz-2|TCP-1-zeta-2	chaperonin containing Tcp1, subunit 6b (zeta)	protein-coding	10.0	22.5	17.5	262.0	29.0	5.5	10.5	12.5
Merged-chr13-102684896-4	chr13	102684782	102684982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8665.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	20.0	45.0	26.5	519.0	101.5	37.5	39.0	40.5
Merged-chr2-157447327-3	chr2	157447235	157447435	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 2 of 13)	L1M4|LINE|L1	23042.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	48.0	55.0	27.5	280.5	32.0	6.5	3.0	8.0
Merged-chr12-83949956-4	chr12	83949861	83950061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023633)	promoter-TSS (NM_023633)	-647.0	NM_023633	71952.0	Mm.251483	NM_023633	ENSMUSG00000046791	Riox1	2410016O06Rik|MAPJD|NO66	ribosomal oxygenase 1	protein-coding	22.5	38.0	18.0	249.0	50.0	18.5	21.5	19.5
Merged-chr7-102222437-4	chr7	102222338	102222538	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145583)	promoter-TSS (NM_145583)	-590.0	NR_111938	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	18.5	25.5	15.0	229.5	45.0	25.5	28.0	17.5
Merged-chr3-10297359-4	chr3	10297349	10297549	+	912.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029310, intron 1 of 5)	intron (NM_029310, intron 1 of 5)	3734.0	NM_001357159	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	5.5	7.0	8.0	165.0	13.0	4.5	7.5	8.0
Merged-chr3-142521507-4	chr3	142521416	142521616	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153564, exon 11 of 11)	3' UTR (NM_153564, exon 11 of 11)	-8820.0	NM_001083312	229900.0	Mm.45740	NM_145545	ENSMUSG00000040253	Gbp7	9830147J24Rik	guanylate binding protein 7	protein-coding	8.0	45.5	17.0	181.5	38.5	7.5	18.0	19.5
Merged-chr18-38427219-4	chr18	38427144	38427344	+	857.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	8337.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	14.5	6.5	7.0	118.5	20.0	2.5	5.5	19.0
Merged-chr10-7825484-3	chr10	7825404	7825604	+	850.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6966.0	NM_172785	237256.0	Mm.140055	NM_172785	ENSMUSG00000039981	Zc3h12d	D730019B10Rik|TFL	zinc finger CCCH type containing 12D	protein-coding	9.5	5.0	6.0	87.0	15.0	2.0	3.0	6.0
Merged-chr1-26688133-3	chr1	26688018	26688218	+	638.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033764)	promoter-TSS (NM_001033764)	-658.0	NM_001033764	210940.0	Mm.297614	NM_001033764	ENSMUSG00000073722	4931408C20Rik	-	RIKEN cDNA 4931408C20 gene	protein-coding	9.0	6.5	8.5	100.5	15.0	8.0	3.5	6.0
Merged-chr17-74316431-4	chr17	74316378	74316578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146223)	promoter-TSS (NM_001146223)	-45.0	NM_001146223	66310.0	Mm.28536	NM_024428	ENSMUSG00000024067	Dpy30	2810410M20Rik|C87842	dpy-30, histone methyltransferase complex regulatory subunit	protein-coding	127.5	161.5	91.0	1625.0	255.5	98.0	104.0	116.5
Merged-chr8-120709366-4	chr8	120709244	120709444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27014.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	29.5	59.0	32.5	298.0	84.5	23.0	27.5	30.0
Merged-chr2-3961590-4	chr2	3961486	3961686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-56097.0	NM_001347086	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	52.5	50.0	49.5	746.5	85.0	31.5	45.5	63.5
Merged-chr12-12262232-4	chr12	12262164	12262364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	CpG	125.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	29.5	116.0	46.0	448.5	92.5	37.0	37.5	31.0
Merged-chr2-148685969-4	chr2	148685860	148686060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355689, intron 2 of 5)	intron (NM_001355689, intron 2 of 5)	4840.0	NM_028986	74533.0	Mm.136913	NM_028986	ENSMUSG00000027439	Gzf1	8430437G08Rik|Zfp336|mGZF1	GDNF-inducible zinc finger protein 1	protein-coding	116.0	214.5	160.0	1862.5	375.5	122.5	128.0	146.5
Merged-chr15-88129088-3	chr15	88128965	88129165	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-185809.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	62.5	95.0	101.5	1328.5	4.0	0.0	0.0	0.0
Merged-chr6-33515497-4	chr6	33515404	33515604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 9 of 17)	intron (NM_009148, intron 9 of 17)	266376.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	66.0	75.5	55.5	979.5	142.0	48.0	42.0	37.0
Merged-chr11-102556309-4	chr11	102556175	102556375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159492)	promoter-TSS (NM_001159492)	-117.0	NM_001159492	237943.0	Mm.260282	NM_001159492	ENSMUSG00000034621	Gpatch8	5430405G24Rik|AU018890|Fbm1|Gpatc8|mKIAA0553	G patch domain containing 8	protein-coding	68.0	147.0	52.0	731.5	160.5	60.5	66.0	60.5
Merged-chr13-99100674-4	chr13	99100557	99100757	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12736.0	NR_045495	69603.0	Mm.390632	NR_045495	ENSMUSG00000100410	2310020H05Rik	-	RIKEN cDNA 2310020H05 gene	ncRNA	40.0	30.5	33.5	836.0	35.0	25.5	28.5	29.0
Merged-chr3-153250797-4	chr3	153250693	153250893	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	47856.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	14.5	40.5	22.5	425.5	89.0	34.5	56.0	32.0
Merged-chr5-24384688-4	chr5	24384577	24384777	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008713)	TTS (NM_008713)	7466.0	NM_001002897	213948.0	Mm.332252	NM_001002897	ENSMUSG00000038295	Atg9b	Apg912|Apg9l2|Apgdc2|Gm574|Nos3as|eONE|sONE	autophagy related 9B	protein-coding	30.0	40.5	20.0	315.0	32.0	24.5	25.5	24.0
Merged-chr9-61330936-4	chr9	61330843	61331043	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37134.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	16.0	29.0	15.5	412.0	39.0	15.5	30.5	25.5
Merged-chr11-75195233-5	chr11	75195115	75195315	+	915.2999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177708, intron 1 of 1)	CpG	1222.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	12.0	6.5	3.0	99.5	12.5	11.0	5.5	5.5
Merged-chr7-35683990-4	chr7	35683899	35684099	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36517.0	NM_019746	56330.0	Mm.371609	NM_019746	ENSMUSG00000030417	Pdcd5	2200003D22Rik|AA408513|Tfar19	programmed cell death 5	protein-coding	23.5	39.5	23.0	576.0	46.5	4.0	36.0	21.5
Merged-chr2-173783921-4	chr2	173783791	173783991	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019806, exon 6 of 6)	3' UTR (NM_019806, exon 6 of 6)	46320.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	28.0	27.5	43.0	608.5	42.0	18.0	10.0	20.5
Merged-chr2-152414809-4	chr2	152414698	152414898	+	881.582153	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289738)	promoter-TSS (NM_001289738)	246.0	NM_175126	67917.0	Mm.391810	NM_175126	ENSMUSG00000074682	Zcchc3	2810406K24Rik	zinc finger, CCHC domain containing 3	protein-coding	28.5	12.5	6.5	236.5	35.5	7.5	11.0	16.0
Merged-chr7-92832616-4	chr7	92832520	92832720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029494, intron 4 of 4)	Lx6|LINE|L1	41627.0	NM_001355126	74041.0	Mm.26468	NM_028729	ENSMUSG00000030641	Ddias	4632434I11Rik|noxin	DNA damage-induced apoptosis suppressor	protein-coding	57.5	67.5	72.5	1017.0	85.0	24.0	34.5	26.0
Merged-chr19-23136014-4	chr19	23135910	23136110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5216.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	73.0	134.5	75.0	1075.0	179.0	78.0	76.5	67.0
Merged-chr8-70897505-4	chr8	70897413	70897613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029751)	promoter-TSS (NM_029751)	-70.0	NM_029751	76808.0	Mm.379251	NM_029751	ENSMUSG00000045128	Rpl18a	2510019J09Rik	ribosomal protein L18A	protein-coding	188.5	251.5	131.5	2333.5	414.0	146.0	167.5	126.5
Merged-chr1-138963452-6	chr1	138963288	138963488	+	998.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166501)	promoter-TSS (NM_001166501)	-321.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	17.0	26.0	11.0	183.0	45.0	17.5	13.0	18.5
Merged-chr15-68175890-4	chr15	68175786	68175986	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 6 of 13)	intron (NR_152182, intron 6 of 13)	82970.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	50.5	55.0	62.5	955.5	109.0	17.5	47.0	52.0
Merged-chr5-99325995-4	chr5	99325901	99326101	+	992.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-73074.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	25.5	23.0	28.5	531.5	54.0	21.5	35.0	15.0
Merged-chr14-47259133-4	chr14	47259041	47259241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360532, intron 13 of 24)	B1_Mm|SINE|Alu	17716.0	NM_001360532	218973.0	Mm.265615	NM_172598	ENSMUSG00000037572	Wdhd1	A630092E18|AND-1|D630024B06Rik	WD repeat and HMG-box DNA binding protein 1	protein-coding	20.0	42.5	15.5	307.0	54.0	24.0	23.5	26.0
Merged-chr1-35975895-3	chr1	35975805	35976005	+	844.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-92495.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	10.0	7.0	8.5	158.0	14.0	4.0	5.0	11.0
Merged-chr2-90552600-3	chr2	90552515	90552715	+	842.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	L4_A_Mam|LINE|RTE-X	28032.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	8.0	18.0	9.0	86.5	7.5	3.5	5.0	1.5
Merged-chr11-106787681-4	chr11	106787580	106787780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355676, intron 2 of 13)	CpG	814.0	NM_007840	13207.0	Mm.491096	NM_007840	ENSMUSG00000020719	Ddx5	2600009A06Rik|G17P1|HUMP68|Hlr1|p68	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	protein-coding	93.0	166.5	102.0	1541.5	297.5	108.0	104.0	108.0
Merged-chr11-101979584-4	chr11	101979471	101979671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028207, intron 2 of 2)	intron (NM_028207, intron 2 of 2)	5220.0	NM_028207	72349.0	Mm.196295	NM_028207	ENSMUSG00000003518	Dusp3	2210015O03Rik|5031436O03Rik|T-DSP11|VHR	dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related)	protein-coding	58.5	73.5	33.5	691.5	138.0	37.0	49.5	53.5
Merged-chr4-134918610-4	chr4	134918526	134918726	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-3710.0	NM_027935	71817.0	Mm.88349	NM_027935	ENSMUSG00000028822	Tmem50a	3200001F09Rik|CAM|Smp1	transmembrane protein 50A	protein-coding	17.0	13.0	39.5	586.0	49.0	7.5	21.5	37.0
Merged-chr3-103213713-4	chr3	103213614	103213814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	42059.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	60.0	74.5	75.5	617.0	138.0	57.5	104.0	75.5
Merged-chr7-30878153-4	chr7	30878071	30878271	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001043317, intron 3 of 15)	PB1D7|SINE|Alu	857.0	NM_009845	12483.0	Mm.260994	NM_009845	ENSMUSG00000030577	Cd22	A530093D23|Lyb-8|Lyb8	CD22 antigen	protein-coding	25.5	22.0	12.0	309.5	79.0	23.0	25.0	27.0
Merged-chr1-170706257-4	chr1	170706154	170706354	+	895.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081304, exon 16 of 16)	3' UTR (NM_001081304, exon 16 of 16)	61722.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	17.5	23.0	11.5	264.0	26.0	12.5	15.5	20.5
Merged-chr5-18014390-4	chr5	18014279	18014479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	51809.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	184.0	237.5	226.5	3298.5	415.5	196.5	159.0	164.5
Merged-chr2-49411851-4	chr2	49411750	49411950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39636.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	37.5	50.0	43.5	479.0	80.0	34.5	44.0	18.5
Merged-chr1-120076498-4	chr1	120076397	120076597	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-2717.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	22.5	36.0	19.0	383.0	52.0	16.0	18.5	30.5
Merged-chr7-4513416-4	chr7	4513290	4513490	+	878.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360154, intron 4 of 12)	intron (NM_001360154, intron 4 of 12)	2585.0	NM_001277903	21955.0	Mm.358643	NM_011618	ENSMUSG00000064179	Tnnt1	AW146156|Tnt|sTnT|ssTnT	troponin T1, skeletal, slow	protein-coding	11.5	26.5	6.5	126.0	32.5	10.5	11.5	10.0
Merged-chr5-31698559-4	chr5	31698462	31698662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153196)	promoter-TSS (NM_153196)	512.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	183.0	308.5	163.0	1913.0	443.0	174.0	170.5	158.0
Merged-chr2-27350515-4	chr2	27350399	27350599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 1 of 29)	RMER1C|Other|Other	77109.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	111.5	193.0	89.5	1756.5	272.5	90.0	116.5	104.5
Merged-chr9-66375033-4	chr9	66374950	66375150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145617, intron 2 of 77)	intron (NM_145617, intron 2 of 77)	24600.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	21.0	45.0	24.0	452.0	100.0	43.5	30.5	27.5
Merged-chr7-83655410-4	chr7	83655273	83655473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360087, exon 13 of 19)	exon (NM_001360087, exon 13 of 19)	122.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	56.5	97.5	35.0	614.0	142.5	59.5	51.5	35.0
Merged-chr7-80832412-4	chr7	80832313	80832513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	-29082.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	48.0	90.0	55.5	758.0	90.5	30.5	61.5	34.0
Merged-chr13-98807863-4	chr13	98807770	98807970	+	958.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	intron (NM_172591, intron 1 of 25)	7579.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	19.5	26.0	12.0	270.0	50.0	6.5	2.0	16.5
Merged-chr17-78735820-2	chr17	78735757	78735957	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011500, intron 1 of 17)	intron (NM_011500, intron 1 of 17)	703.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	5.0	7.5	8.0	59.5	16.0	10.0	2.0	5.0
Merged-chr2-132111520-4	chr2	132111415	132111615	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	33593.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	33.0	33.5	16.5	192.5	57.5	22.5	18.5	15.5
Merged-chr15-100590721-3	chr15	100590618	100590818	+	793.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304965, intron 3 of 10)	RMER6B|LTR|ERVK	-4353.0	NM_010127	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	6.0	7.5	12.5	49.0	11.0	4.5	6.0	6.5
Merged-chr15-100762113-4	chr15	100762006	100762206	+	962.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021530, intron 1 of 24)	CpG	359.0	NM_021530	59033.0	Mm.209856	NM_021530	ENSMUSG00000023032	Slc4a8	AW493845|C230026C11|NDCBE|kNBC-3	solute carrier family 4 (anion exchanger), member 8	protein-coding	22.0	32.5	14.5	132.0	30.0	15.5	15.5	18.5
Merged-chr11-110372774-4	chr11	110372688	110372888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26314.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	57.5	81.0	55.0	790.0	139.0	42.0	66.0	66.0
Merged-chr17-65853874-4	chr17	65853784	65853984	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198949, intron 7 of 9)	intron (NM_001198949, intron 7 of 9)	31039.0	NM_001198949	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	12.0	20.5	17.0	388.0	27.0	9.0	15.5	11.0
Merged-chr18-67243149-4	chr18	67243065	67243265	+	838.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172630, intron 2 of 10)	PB1D11|SINE|Alu	2665.0	NM_172630	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	11.0	10.5	6.5	216.0	14.0	3.5	14.5	26.0
Merged-chr10-96173117-4	chr10	96173003	96173203	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53104.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	18.5	30.0	24.0	488.5	61.5	12.0	19.5	13.0
Merged-chr12-70969960-4	chr12	70969861	70970061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4662.0	NM_001310595	19167.0	Mm.296338	NM_011184	ENSMUSG00000060073	Psma3	Lmpc8	proteasome (prosome, macropain) subunit, alpha type 3	protein-coding	30.0	47.0	30.0	272.0	64.5	36.0	34.0	32.5
Merged-chr2-120559008-3	chr2	120558904	120559104	+	992.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011743, intron 1 of 21)	ORR1C2|LTR|ERVL-MaLR	4855.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	17.0	15.0	4.5	181.0	20.5	8.5	8.5	14.5
Merged-chr4-119239434-5	chr4	119239351	119239551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019782, intron 5 of 15)	intron (NM_019782, intron 5 of 15)	5622.0	NM_001042411	56401.0	Mm.27961	NM_019782	ENSMUSG00000028641	P3h1	2410024C15Rik|Gros1|Lepre1	prolyl 3-hydroxylase 1	protein-coding	8.5	20.5	19.0	177.0	32.5	24.0	16.0	23.0
Merged-chr8-25007975-4	chr8	25007881	25008081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270996, intron 1 of 21)	intron (NM_001270996, intron 1 of 21)	8941.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	37.5	64.0	39.0	577.5	97.0	31.5	31.5	24.0
Merged-chr12-72844422-4	chr12	72844334	72844534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73331.0	NM_029444	75801.0	Mm.242892	NM_029444	ENSMUSG00000021098	4930447C04Rik	4921504I02Rik|A930035O15Rik|Six6OS|Six6as|Six6os1	RIKEN cDNA 4930447C04 gene	protein-coding	174.5	249.5	218.0	3523.0	521.0	180.0	237.0	195.0
Merged-chr11-61861917-4	chr11	61861818	61862018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6826.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	48.5	56.5	34.0	719.5	81.0	30.0	32.5	35.5
Merged-chr16-4960611-4	chr16	4960509	4960709	+	889.7625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028301, intron 1 of 16)	intron (NM_028301, intron 1 of 16)	3628.0	NM_028301	72615.0	Mm.290628	NM_028301	ENSMUSG00000022515	Anks3	2700067D09Rik|C81345|mKIAA1977	ankyrin repeat and sterile alpha motif domain containing 3	protein-coding	12.5	18.0	20.5	209.0	20.5	8.0	15.5	15.5
Merged-chr6-84587730-4	chr6	84587599	84587799	+	836.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177713, intron 2 of 6)	CpG	6111.0	NM_175475	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	9.0	25.5	8.0	130.5	32.0	11.5	10.0	12.5
Merged-chr17-34637591-2	chr17	34637492	34637692	+	956.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7291.0	NM_019873	56299.0	Mm.10025	NM_019873	ENSMUSG00000033739	Fkbpl	DIR1|NG7|Ppiase-X|Wisp39	FK506 binding protein-like	protein-coding	3.0	12.0	7.0	67.5	14.5	10.5	6.0	8.5
Merged-chr6-129406215-4	chr6	129406119	129406319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001204239)	TTS (NM_001204239)	-2643.0	NM_001205363	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	19.5	25.5	53.0	754.0	77.5	29.0	48.5	45.5
Merged-chr2-91101577-4	chr2	91101474	91101674	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 2 of 4)	intron (NM_011355, intron 2 of 4)	4896.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	13.0	31.5	5.0	196.5	23.5	23.0	21.5	21.5
Merged-chr6-40594992-4	chr6	40594890	40595090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9185.0	NM_001038604	23845.0	Mm.103765	NM_021364	ENSMUSG00000029915	Clec5a	Clecsf5|Ly100|MDL-1|Mdl1	C-type lectin domain family 5, member a	protein-coding	35.5	75.5	45.5	791.5	105.0	49.5	54.5	41.0
Merged-chr13-107023025-3	chr13	107022932	107023132	+	863.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145779)	promoter-TSS (NM_001145779)	462.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	5.5	5.0	7.5	119.5	19.0	7.0	5.0	15.5
Merged-chr4-88438085-4	chr4	88437997	88438197	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025760, intron 1 of 6)	intron (NM_025760, intron 1 of 6)	829.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	22.5	23.5	17.0	457.5	44.0	15.5	29.5	23.5
Merged-chr10-34176258-3	chr10	34176185	34176385	+	693.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 2 of 5)	intron (NM_172508, intron 2 of 5)	31266.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	11.5	1.0	4.0	155.5	18.5	7.0	11.5	6.5
Merged-chr8-126422462-4	chr8	126422376	126422576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174987)	promoter-TSS (NM_174987)	-25.0	NM_174987	67892.0	Mm.31946	NM_174987	ENSMUSG00000051671	Coa6	1810063B05Rik|AI447995	cytochrome c oxidase assembly factor 6	protein-coding	132.5	233.5	103.5	1824.0	393.5	155.5	139.0	160.0
Merged-chr6-140610330-4	chr6	140610234	140610434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-12329.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	66.0	115.5	75.5	1100.5	215.5	56.0	89.5	58.5
Merged-chr6-48676130-3	chr6	48676039	48676239	+	747.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174960)	promoter-TSS (NM_174960)	4.0	NM_174960	317758.0	Mm.116971	NM_174960	ENSMUSG00000051124	Gimap9	A630002K24|BB145400	GTPase, IMAP family member 9	protein-coding	0.0	4.0	1.0	11.0	31.5	6.0	12.0	16.5
Merged-chr9-57910997-4	chr9	57910932	57911132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122873)	promoter-TSS (NM_001122873)	46.0	NM_001122873	69459.0	Mm.41735	NM_027086	ENSMUSG00000055720	Ubl7	2300004C15Rik	ubiquitin-like 7 (bone marrow stromal cell-derived)	protein-coding	42.0	52.5	37.0	617.5	94.0	37.0	62.0	46.0
Merged-chr11-94993470-4	chr11	94993365	94993565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172261, intron 1 of 9)	intron (NM_172261, intron 1 of 9)	2253.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	128.5	167.5	103.0	1620.0	215.0	106.5	150.0	104.0
Merged-chr16-91864287-4	chr16	91864211	91864411	+	871.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 26 of 28)	intron (NM_001110275, intron 26 of 28)	67319.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	7.0	19.5	13.0	174.5	9.5	3.5	13.5	13.0
Merged-chr11-102248807-4	chr11	102248705	102248905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153544)	promoter-TSS (NM_153544)	-77.0	NM_153544	217216.0	Mm.247335	NM_153544	ENSMUSG00000034773	BC030867	-	cDNA sequence BC030867	protein-coding	30.0	57.5	29.5	290.5	131.5	43.0	32.5	27.0
Merged-chr8-11219515-3	chr8	11219403	11219603	+	983.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009931, intron 33 of 51)	intron (NM_009931, intron 33 of 51)	-93302.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	15.5	46.0	47.0	487.5	11.5	7.5	8.0	9.0
Merged-chr2-25498077-4	chr2	25497982	25498182	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027062)	TTS (NM_027062)	2424.0	NM_027062	69379.0	Mm.24596	NM_027062	ENSMUSG00000015083	C8g	-	complement component 8, gamma polypeptide	protein-coding	23.0	22.5	12.5	281.0	46.5	30.0	35.0	17.5
Merged-chr3-108086373-2	chr3	108086273	108086473	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346665)	promoter-TSS (NM_001346665)	293.0	NM_028779	109674.0	Mm.274335	NM_028779	ENSMUSG00000027889	Ampd2	1200014F01Rik|AI552571|Ampd-2|m4521Dajl	adenosine monophosphate deaminase 2	protein-coding	9.5	23.0	15.0	88.0	42.0	12.5	19.5	12.5
Merged-chr2-53007394-3	chr2	53007287	53007487	+	710.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	149519.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	5.5	7.5	2.0	90.5	13.0	5.5	23.0	11.0
Merged-chr11-62866859-4	chr11	62866772	62866972	+	951.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033669, intron 8 of 12)	MIR|SINE|MIR	-12583.0	NM_001356520	67510.0	Mm.9806	NM_026210	ENSMUSG00000014177	Tvp23b	1810036I24Rik|Fam18b|Fam18b1	trans-golgi network vesicle protein 23B	protein-coding	14.0	10.0	15.0	341.5	45.5	16.0	12.5	20.0
Merged-chr4-155505199-4	chr4	155505114	155505314	+	944.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160017, intron 1 of 10)	intron (NM_001160017, intron 1 of 10)	13853.0	NM_001160016	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	22.0	25.5	9.0	298.0	70.5	13.5	22.5	17.0
Merged-chr15-102722196-4	chr15	102722074	102722274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026192)	promoter-TSS (NM_026192)	4.0	NM_026192	67488.0	Mm.71682	NM_026192	ENSMUSG00000023055	Calcoco1	1810009B06Rik|Cocoa|Gcap11|mKIAA1536	calcium binding and coiled coil domain 1	protein-coding	142.5	217.0	124.5	2394.5	363.0	146.5	173.0	140.0
Merged-chr11-16987541-1	chr11	16987441	16987641	+	632.0	f0_balb.idr	exon (NM_019549, exon 6 of 10)	exon (NM_019549, exon 6 of 10)	21177.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	10.5	11.0	8.0	92.5	12.5	5.0	4.5	9.5
Merged-chr18-12936972-4	chr18	12936890	12937090	+	894.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 1 of 27)	RMER6B|LTR|ERVK	4851.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	14.5	17.0	13.0	344.0	33.0	5.5	11.0	4.5
Merged-chr9-37147458-3	chr9	37147356	37147556	+	769.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148950)	promoter-TSS (NM_148950)	-134.0	NM_001029838	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	9.5	8.0	11.5	166.0	13.5	4.0	6.5	1.0
Merged-chr3-126650569-4	chr3	126650475	126650675	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	53624.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	25.0	23.0	7.0	201.0	38.0	8.5	14.5	17.5
Merged-chr11-89024430-4	chr11	89024266	89024466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24963.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	292.0	459.0	299.5	4150.5	629.5	276.0	331.5	251.5
Merged-chr1-72380991-1	chr1	72380891	72381091	+	547.0	f0_balb.idr	intron (NM_001357519, intron 16 of 20)	C-rich|Low_complexity|Low_complexity	73570.0	NM_001357519	22596.0	Mm.246952	NM_009533	ENSMUSG00000026187	Xrcc5	AI314015|CTC85|CTCBF|Ku80|Ku86	X-ray repair complementing defective repair in Chinese hamster cells 5	protein-coding	8.0	7.0	13.0	107.5	1.5	0.0	0.0	0.0
Merged-chr6-91669399-3	chr6	91669319	91669519	+	700.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-14648.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	7.0	10.0	3.5	90.5	15.0	6.0	5.0	5.5
Merged-chr14-59260241-4	chr14	59260111	59260311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164329)	promoter-TSS (NM_001164329)	5.0	NM_001164329	628693.0	Mm.479519	NM_001164329	ENSMUSG00000090881	Gm6904	EG628693	predicted gene 6904	protein-coding	36.0	44.5	48.5	631.5	79.0	26.5	43.0	47.5
Merged-chr12-55486429-3	chr12	55486326	55486526	+	946.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	6221.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	13.5	17.5	8.0	45.0	20.5	12.0	6.5	5.0
Merged-chr7-25619385-4	chr7	25619271	25619471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025504)	promoter-TSS (NM_025504)	-43.0	NM_001290487	66349.0	Mm.159956	NM_025504	ENSMUSG00000057229	Dmac2	2310004L02Rik|Atp5sl|C030044E10Rik	distal membrane arm assembly complex 2	protein-coding	65.0	115.0	48.5	1073.0	142.0	70.0	56.0	76.0
Merged-chr19-47374609-3	chr19	47374529	47374729	+	908.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 3 of 14)	MLT1K|LTR|ERVL-MaLR	89782.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	3.0	12.0	8.5	102.5	11.0	7.5	4.5	5.0
Merged-chr12-10689181-4	chr12	10689077	10689277	+	829.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	242789.0	NR_110487	328061.0	Mm.56067	NR_110487	ENSMUSG00000112792	Gm38407	4931412M21	predicted gene, 38407	ncRNA	2.5	1.0	11.0	135.0	21.5	11.5	14.5	15.0
Merged-chr2-79060528-4	chr2	79060422	79060622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	190844.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	48.0	68.5	37.5	1239.0	139.0	53.0	56.0	43.0
Merged-chr2-145823007-4	chr2	145822929	145823129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	36913.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	32.0	59.0	60.5	867.0	113.0	26.5	61.0	29.5
Merged-chr17-8165740-4	chr17	8165644	8165844	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201230, intron 1 of 11)	CpG	226.0	NM_201230	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	25.5	33.5	32.0	240.0	47.0	15.5	18.0	24.5
Merged-chr14-40947853-6	chr14	40947726	40947926	+	848.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	383.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	7.0	10.0	10.0	179.5	25.5	6.0	8.0	5.0
Merged-chr11-70254607-2	chr11	70254507	70254707	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_007440, exon 2 of 14)	exon (NM_007440, exon 2 of 14)	763.0	NM_001331118	11684.0	Mm.12286	NM_007440	ENSMUSG00000000320	Alox12	9930022G08Rik|Alox12p|P-12LO	arachidonate 12-lipoxygenase	protein-coding	8.0	7.5	7.0	35.5	7.5	4.5	4.5	2.0
Merged-chr11-97433316-3	chr11	97433217	97433417	+	894.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16843.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	8.5	6.0	8.5	66.5	21.0	8.5	12.5	7.5
Merged-chr15-59430560-3	chr15	59430447	59430647	+	989.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 3 of 4)	intron (NM_001164604, intron 3 of 4)	56349.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	18.0	30.5	14.5	265.0	6.5	3.0	3.0	3.0
Merged-chr7-28373865-3	chr7	28373742	28373942	+	993.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1180.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	22.5	31.5	8.5	147.0	43.0	20.5	19.0	23.0
Merged-chr1-143998737-16	chr1	143998500	143998700	+	869.78125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009061)	TTS (NM_009061)	5549.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	8.0	13.0	5.0	57.0	25.5	7.0	5.0	13.0
Merged-chr2-119476983-7	chr2	119476876	119477076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026574, intron 1 of 35)	CpG	653.0	NM_026574	68142.0	Mm.330496	NM_026574	ENSMUSG00000034154	Ino80	2310079N15Rik|4632409L19Rik|Inoc1	INO80 complex subunit	protein-coding	13.0	23.0	27.5	236.0	45.5	18.5	25.5	33.5
Merged-chr1-133129381-4	chr1	133129280	133129480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1786.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	45.0	74.5	35.5	683.5	126.0	30.5	52.5	49.0
Merged-chr5-117147396-3	chr5	117147302	117147502	+	928.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	13814.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	27.5	25.0	14.5	359.5	9.0	1.0	1.0	6.0
Merged-chr7-127386846-3	chr7	127386736	127386936	+	904.8666380000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030226, exon 1 of 3)	exon (NM_030226, exon 1 of 3)	330.0	NM_030226	78921.0	Mm.200950	NM_030226	ENSMUSG00000030823	9130019O22Rik	-	RIKEN cDNA 9130019O22 gene	protein-coding	6.0	24.0	10.0	137.0	33.0	12.0	13.5	15.0
Merged-chr1-193905936-3	chr1	193905828	193906028	+	938.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	316831.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	22.5	24.5	6.5	153.0	23.0	13.0	1.5	2.5
Merged-chr17-29393689-6	chr17	29393536	29393736	+	950.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32722.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	9.0	42.0	7.5	32.0	60.5	12.0	6.5	6.5
Merged-chr1-118759751-2	chr1	118759617	118759817	+	604.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131772.0	NM_023755	81879.0	Mm.24621	NM_023755	ENSMUSG00000026380	Tfcp2l1	1810030F05Rik|4932442M07Rik|AA575098|Cp2l1|Crtr-1|D930018N21Rik|LBP-9|Tcfcp2l1	transcription factor CP2-like 1	protein-coding	5.0	10.0	5.0	84.0	8.0	3.0	5.0	6.0
Merged-chr9-61705810-4	chr9	61705718	61705918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	208692.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	38.0	61.5	25.5	573.5	98.0	54.0	39.0	29.0
Merged-chr12-3658149-3	chr12	3658087	3658287	+	946.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 8 of 17)	L2|LINE|L2	85203.0	NM_007886	13528.0	Mm.286202	NM_007886	ENSMUSG00000071454	Dtnb	-	dystrobrevin, beta	protein-coding	5.5	4.5	5.0	152.5	10.0	3.0	5.0	3.0
Merged-chr6-39226065-4	chr6	39225963	39226163	+	891.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19290.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	11.5	17.0	30.5	337.5	32.0	8.5	5.5	8.5
Merged-chr13-49225802-4	chr13	49225687	49225887	+	945.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9761.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	9.0	26.5	17.5	235.0	26.5	16.0	23.5	9.0
Merged-chr18-38944621-3	chr18	38944544	38944744	+	782.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 4 of 4)	intron (NM_001033789, intron 4 of 4)	-25945.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	5.5	5.5	9.5	112.5	14.0	4.5	8.5	5.0
Merged-chr13-67360599-4	chr13	67360513	67360713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038651)	promoter-TSS (NM_001038651)	-41.0	NM_001038651	629016.0	Mm.440800	NM_001038651	ENSMUSG00000098905	Zfp953	E130120F12Rik	zinc finger protein 953	protein-coding	71.0	98.0	58.0	1290.0	208.5	82.5	101.0	73.5
Merged-chr12-108835943-4	chr12	108835859	108836059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181328)	promoter-TSS (NM_181328)	-83.0	NM_181328	214663.0	Mm.266264	NM_181328	ENSMUSG00000021265	Slc25a29	C030003J19Rik|CACL|mCACL	solute carrier family 25 (mitochondrial carrier, palmitoylcarnitine transporter), member 29	protein-coding	142.5	235.5	140.0	2903.0	356.0	98.0	213.5	125.5
Merged-chr9-3335579-4	chr9	3335476	3335676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026303, intron 1 of 11)	intron (NM_026303, intron 1 of 11)	345.0	NM_026303	67667.0	Mm.116968	NM_026303	ENSMUSG00000025899	Alkbh8	4930562C03Rik|8030431D03Rik|9430088N01Rik|Abh8	alkB homolog 8, tRNA methyltransferase	protein-coding	29.0	42.0	52.5	673.0	38.5	22.5	20.5	36.5
Merged-chr14-16248717-4	chr14	16248622	16248822	+	959.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362433)	promoter-TSS (NM_001362433)	454.0	NM_001359882	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	17.0	29.0	6.0	222.5	48.5	23.5	15.0	14.0
Merged-chr11-70944777-3	chr11	70944671	70944871	+	867.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083331, intron 12 of 16)	intron (NM_001083331, intron 12 of 16)	25202.0	NM_172394	19069.0	Mm.288962	NM_172394	ENSMUSG00000040667	Nup88	Nup84|Prei2	nucleoporin 88	protein-coding	4.5	9.5	4.5	66.5	30.0	7.0	12.5	5.5
Merged-chr16-43930296-4	chr16	43930179	43930379	+	834.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027801, intron 6 of 15)	intron (NM_027801, intron 6 of 15)	40377.0	NM_027801	212153.0	Mm.209835	NM_027801	ENSMUSG00000022701	Ccdc191	2610015P09Rik|8430422M09Rik|AU040712	coiled-coil domain containing 191	protein-coding	9.0	11.0	6.0	153.0	21.0	3.5	12.0	10.5
Merged-chr15-90216329-3	chr15	90216225	90216425	+	764.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-7986.0	NM_001033441	380959.0	Mm.17853	NM_001033441	ENSMUSG00000075470	Alg10b	AA469671|AU045404|AW123895|C85569|Deaf1|Gm917|nse5	asparagine-linked glycosylation 10B (alpha-1,2-glucosyltransferase)	protein-coding	10.5	19.5	14.5	70.5	13.0	0.5	13.5	3.0
Merged-chr14-120324448-4	chr14	120324349	120324549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 1 of 8)	(TCC)n|Simple_repeat|Simple_repeat	17997.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	30.0	25.5	38.5	401.0	95.5	26.0	24.0	38.0
Merged-chr9-75432934-4	chr9	75432842	75433042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8582.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	17.5	34.0	20.0	166.0	126.5	32.0	36.0	40.5
Merged-chr17-17865373-4	chr17	17865275	17865475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10187.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	114.5	134.5	92.0	1338.0	246.5	75.0	95.0	91.0
Merged-chr9-21165219-4	chr9	21165123	21165323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183408)	promoter-TSS (NM_183408)	-491.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	64.5	58.5	51.0	907.5	185.5	66.5	72.5	80.0
Merged-chr13-54758601-4	chr13	54758516	54758716	+	850.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033610)	TTS (NM_033610)	7979.0	NM_001362407	104069.0	Mm.200843	NM_033610	ENSMUSG00000034891	Sncb	AI838531|betaSYN	synuclein, beta	protein-coding	10.0	9.5	6.5	132.5	22.5	11.0	7.0	12.5
Merged-chr10-80180165-4	chr10	80180014	80180214	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007909, intron 1 of 3)	intron (NM_007909, intron 1 of 3)	632.0	NM_007909	13637.0	Mm.1478	NM_007909	ENSMUSG00000003070	Efna2	CEK7L|Elf1|Epl6|Eplg6|Lerk6	ephrin A2	protein-coding	18.5	105.5	46.0	141.5	136.0	48.0	32.0	14.5
Merged-chr10-88379160-4	chr10	88379101	88379301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004164)	promoter-TSS (NM_001004164)	-211.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	99.5	144.5	114.5	1538.0	237.0	78.5	113.0	59.5
Merged-chr13-113615159-4	chr13	113615035	113615235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	3429.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	56.5	100.0	85.0	819.5	251.5	90.0	144.5	80.5
Merged-chr11-48902200-4	chr11	48902105	48902305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024230)	promoter-TSS (NM_001024230)	-53.0	NM_001024230	432555.0	Mm.338931	NM_001024230	ENSMUSG00000058163	Gm5431	EG432555|Irgb9b8	predicted gene 5431	protein-coding	55.0	50.0	26.5	768.0	96.0	19.5	61.0	44.5
Merged-chr15-89231169-3	chr15	89231074	89231274	+	855.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026813, intron 1 of 24)	MLTR11B|LTR|ERVK	19615.0	NM_027805	71474.0	Mm.184055	NM_026813	ENSMUSG00000036561	Ppp6r2	1110033O10Rik|8430411H09Rik|B230107H12Rik|Pp6r2|Saps2	protein phosphatase 6, regulatory subunit 2	protein-coding	6.5	10.5	6.5	62.5	20.5	3.0	8.0	9.5
Merged-chr3-60528015-4	chr3	60527938	60528138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	26859.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	78.5	113.5	62.5	1445.5	216.5	56.0	104.5	106.5
Merged-chr2-69206228-4	chr2	69206130	69206330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305800)	promoter-TSS (NM_001305800)	-17.0	NM_001199123	66442.0	Mm.272969	NM_025565	ENSMUSG00000005233	Spc25	2600017H08Rik|2610205L13Rik|Spbc25	SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae)	protein-coding	198.0	266.5	167.0	3773.0	383.0	133.0	183.5	171.0
Merged-chr5-110840674-4	chr5	110840545	110840745	+	877.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153571)	promoter-TSS (NM_153571)	628.0	NM_016681	50883.0	Mm.279308	NM_016681	ENSMUSG00000029521	Chek2	CHK2|Cds1|HUCDS1|Rad53	checkpoint kinase 2	protein-coding	11.0	8.5	7.5	89.0	25.0	8.0	4.5	6.5
Merged-chr9-37101843-3	chr9	37101734	37101934	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	intron (NM_001029838, intron 1 of 12)	45488.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	8.0	6.5	5.5	115.5	7.0	1.0	0.5	0.5
Merged-chr5-114897609-4	chr5	114897471	114897671	+	879.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011854, exon 1 of 6)	5' UTR (NM_011854, exon 1 of 6)	637.0	NM_001359181	23962.0	Mm.228363	NM_011854	ENSMUSG00000029561	Oasl2	M1204|Mmu-OASL|Oasl	2'-5' oligoadenylate synthetase-like 2	protein-coding	9.5	15.5	10.5	119.5	23.0	22.0	11.5	17.5
Merged-chr13-113602081-4	chr13	113601987	113602187	+	764.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	ORR1B2|LTR|ERVL-MaLR	16477.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	3.5	20.5	10.0	86.5	24.5	6.5	4.5	8.0
Merged-chr11-100343224-4	chr11	100343082	100343282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	8775.0	NM_010257	14459.0	Mm.4767	NM_010257	ENSMUSG00000017165	Gast	GAS	gastrin	protein-coding	59.5	74.0	64.5	481.0	119.0	29.0	42.0	36.5
Merged-chr17-44664094-3	chr17	44663991	44664191	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271627, intron 4 of 7)	intron (NM_001271627, intron 4 of 7)	72085.0	NR_073425	12393.0	Mm.391013	NM_009820	ENSMUSG00000039153	Runx2	AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a	runt related transcription factor 2	protein-coding	10.0	7.5	13.0	357.5	7.5	2.0	2.5	9.0
Merged-chr10-96294911-4	chr10	96294821	96295021	+	793.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	68714.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	15.5	9.5	9.0	184.0	21.5	2.5	12.0	6.5
Merged-chr17-65737306-4	chr17	65737205	65737405	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	35447.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	27.5	35.5	12.0	298.5	57.0	24.0	19.0	29.5
Merged-chr1-36082425-4	chr1	36082327	36082527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	14027.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	76.5	161.0	146.5	2126.5	160.5	61.0	130.5	88.0
Merged-chr12-111444288-4	chr12	111444170	111444370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009396, intron 1 of 11)	intron (NM_009396, intron 1 of 11)	1609.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	77.5	167.0	140.5	1466.5	244.5	68.5	119.5	72.0
Merged-chr14-46915704-4	chr14	46915600	46915800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	32735.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	47.0	36.0	35.5	813.5	56.0	18.0	19.5	25.0
Merged-chr9-107296157-4	chr9	107296050	107296250	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009895)	promoter-TSS (NM_009895)	-509.0	NM_009895	12700.0	Mm.4592	NM_009895	ENSMUSG00000032578	Cish	CIS-1|CIS1|Cis|F17|F23|SOCS	cytokine inducible SH2-containing protein	protein-coding	29.0	58.0	18.5	184.5	64.0	23.0	28.5	25.0
Merged-chr7-116626218-3	chr7	116626120	116626320	+	715.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121851.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	5.5	28.5	10.0	155.5	6.5	7.0	7.5	3.0
Merged-chr19-12009678-4	chr19	12009565	12009765	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27075.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	27.5	24.0	26.0	235.0	31.0	20.5	10.5	15.0
Merged-chr18-60803723-4	chr18	60803623	60803823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010545)	promoter-TSS (NM_010545)	-126.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	173.0	319.5	111.0	1475.5	683.5	228.5	251.0	221.0
Merged-chr16-77315452-4	chr16	77315353	77315553	+	806.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-13875.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	13.0	24.5	5.0	101.0	22.5	7.0	11.0	4.5
Merged-chr12-32765863-4	chr12	32765747	32765947	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54488.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	16.5	18.0	25.0	296.0	57.0	12.0	26.5	26.0
Merged-chr19-32486541-4	chr19	32486465	32486665	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010799, intron 1 of 4)	CpG	796.0	NM_010799	17330.0	Mm.255116	NM_010799	ENSMUSG00000024896	Minpp1	AA408516	multiple inositol polyphosphate histidine phosphatase 1	protein-coding	7.0	19.0	9.5	157.0	22.5	7.0	5.5	13.5
Merged-chr4-149683047-4	chr4	149682955	149683155	+	752.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 1 of 23)	MTB_Mm|LTR|ERVL-MaLR	-6966.0	NM_001164051	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	11.5	17.5	5.0	65.0	34.5	3.0	12.5	6.0
Merged-chr5-150233595-6	chr5	150233480	150233680	+	929.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26350.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	6.0	12.5	13.5	147.0	51.0	18.0	24.5	12.5
Merged-chr9-66974974-4	chr9	66974885	66975085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030717, intron 1 of 5)	CpG	499.0	NM_030717	80907.0	Mm.157882	NM_030717	ENSMUSG00000032370	Lactb	LACT-1|Lact1|Mrpl56	lactamase, beta	protein-coding	103.0	135.5	73.0	1249.0	205.0	56.0	97.5	67.5
Merged-chr5-31096308-1	chr5	31096208	31096408	+	993.0	f1_balb.idr	intron (NM_001347323, intron 1 of 8)	intron (NM_001347323, intron 1 of 8)	-2781.0	NM_011773	22784.0	Mm.1396	NM_011773	ENSMUSG00000029151	Slc30a3	Znt3	solute carrier family 30 (zinc transporter), member 3	protein-coding	2.0	2.5	0.5	8.5	7.5	5.5	5.5	8.5
Merged-chr13-24684693-4	chr13	24684587	24684787	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080381, intron 8 of 14)	intron (NM_001080381, intron 8 of 14)	46039.0	NM_029679	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	12.0	28.0	17.5	371.0	30.5	11.5	13.0	8.0
Merged-chr10-43758385-4	chr10	43758282	43758482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040581, intron 1 of 3)	intron (NR_040581, intron 1 of 3)	12224.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	39.5	36.5	61.0	895.0	69.5	27.5	50.0	45.0
Merged-chr1-184732724-4	chr1	184732610	184732810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008250)	promoter-TSS (NM_008250)	-217.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	91.0	108.0	53.5	1090.5	276.0	105.5	123.5	113.0
Merged-chr13-60627145-4	chr13	60627037	60627237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	24926.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	65.0	70.0	81.5	1548.5	101.0	19.5	54.0	58.5
Merged-chr13-65101479-4	chr13	65101383	65101583	+	931.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083901, intron 2 of 12)	intron (NM_001083901, intron 2 of 12)	11499.0	NM_001083901	66631.0	Mm.239196	NM_133680	ENSMUSG00000038212	Mfsd14b	5730414C17Rik|AU045608|AW539692|Hiatl1	major facilitator superfamily domain containing 14B	protein-coding	25.0	16.5	13.5	203.0	46.5	8.5	15.5	15.5
Merged-chr6-145709993-4	chr6	145709842	145710042	+	878.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93979.0	NM_009449	22147.0	Mm.270295	NM_009449	ENSMUSG00000067338	Tuba3b	M[a]7|Tuba7	tubulin, alpha 3B	protein-coding	19.0	28.0	22.5	364.5	25.5	9.0	7.0	5.5
Merged-chr11-22814117-4	chr11	22814038	22814238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45597.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	55.0	65.0	58.0	1142.5	93.0	36.5	39.5	35.0
Merged-chr2-164815543-4	chr2	164815448	164815648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178375, intron 1 of 1)	intron (NM_178375, intron 1 of 1)	-7138.0	NM_028028	71971.0	Mm.161149	NM_028028	ENSMUSG00000017764	Zswim1	2410003H12Rik|AI850991|BB046916	zinc finger SWIM-type containing 1	protein-coding	37.0	33.5	30.5	489.0	93.0	29.5	43.5	55.5
Merged-chr15-79209251-4	chr15	79209119	79209319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029470, intron 2 of 4)	intron (NR_029470, intron 2 of 4)	-19954.0	NM_008837	18693.0	Mm.259464	NM_008837	ENSMUSG00000068206	Pick1	Prkcabp	protein interacting with C kinase 1	protein-coding	30.5	52.5	42.5	583.0	73.5	47.0	41.5	40.0
Merged-chr4-155705562-4	chr4	155705463	155705663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026899, intron 1 of 4)	CpG	748.0	NM_026899	68991.0	Mm.294770	NM_026899	ENSMUSG00000029038	Ssu72	1190002E22Rik|1500011L16Rik|2610101M12Rik	Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)	protein-coding	30.0	62.5	49.5	362.0	83.0	32.0	40.5	58.0
Merged-chr6-92987953-3	chr6	92987845	92988045	+	974.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	47363.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	15.0	16.0	18.0	207.5	0.5	2.0	1.0	0.0
Merged-chr7-121271273-3	chr7	121271163	121271363	+	876.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-121033.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	12.5	23.5	15.5	118.5	19.5	7.0	14.0	9.0
Merged-chr19-12007844-4	chr19	12007737	12007937	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	28903.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	11.0	31.0	17.5	219.5	73.5	21.0	15.5	21.0
Merged-chr4-126438513-4	chr4	126438397	126438597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001317173, exon 19 of 19)	3' UTR (NM_001317173, exon 19 of 19)	-8955.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	48.0	76.0	71.5	824.5	136.0	79.0	60.0	50.5
Merged-chr1-172046532-2	chr1	172046432	172046632	+	801.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	11064.0	NM_010916	18071.0	Mm.2474	NM_010916	ENSMUSG00000051251	Nhlh1	Hen1|Nscl|Tal2|bHLHa35	nescient helix loop helix 1	protein-coding	14.0	13.0	11.5	128.5	4.0	6.5	2.5	2.5
Merged-chr8-57800024-4	chr8	57799921	57800121	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175032, intron 10 of 11)	intron (NM_175032, intron 10 of 11)	-146966.0	NM_144731	108150.0	Mm.62886	NM_144731	ENSMUSG00000031608	Galnt7	AI225872	polypeptide N-acetylgalactosaminyltransferase 7	protein-coding	14.5	19.0	29.5	683.0	82.0	44.5	30.5	33.5
Merged-chr8-11118175-3	chr8	11118067	11118267	+	838.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109737.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	11.0	14.0	16.5	333.5	11.0	2.0	10.0	5.5
Merged-chr8-73353630-4	chr8	73353536	73353736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010687)	promoter-TSS (NM_010687)	-96.0	NM_010687	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	272.0	365.5	321.0	4194.0	698.0	262.5	391.5	251.5
Merged-chr1-120969701-4	chr1	120969607	120969807	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117698.0	NR_038008	98452.0	Mm.131017	NR_038008	ENSMUSG00000097881	Celrr	AI848258|B230209K01Rik|Celr|Gm818	cerebellum expressed regulatory RNA	ncRNA	18.0	24.5	7.5	569.5	64.5	14.0	39.0	24.0
Merged-chr6-86397723-4	chr6	86397593	86397793	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025823)	promoter-TSS (NM_025823)	-543.0	NM_025823	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	12.0	23.5	21.0	213.5	24.0	14.5	11.5	13.0
Merged-chr11-93988092-4	chr11	93987999	93988199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7992.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	63.5	123.5	83.0	1515.0	269.0	85.0	98.0	103.0
Merged-chr17-66235340-4	chr17	66235245	66235445	+	938.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111825.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	13.0	10.5	21.0	262.5	34.0	4.5	14.5	14.5
Merged-chr5-53826128-4	chr5	53826035	53826235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144517, intron 1 of 20)	intron (NM_144517, intron 1 of 20)	16508.0	NM_144517	67249.0	Mm.28823	NM_144517	ENSMUSG00000039178	Tbc1d19	2810453K03Rik	TBC1 domain family, member 19	protein-coding	27.0	23.0	22.0	452.5	66.0	21.5	52.5	45.5
Merged-chr5-64317424-4	chr5	64317342	64317542	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 13 of 18)	intron (NM_001289514, intron 13 of 18)	87085.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	13.5	33.0	18.5	342.0	33.0	8.0	15.0	12.0
Merged-chr19-29805192-4	chr19	29805091	29805291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172836, intron 1 of 7)	CpG	818.0	NM_172836	240613.0	Mm.313351	NM_172836	ENSMUSG00000046138	9930021J03Rik	Gm9832|mKIAA2026	RIKEN cDNA 9930021J03 gene	protein-coding	29.0	37.0	32.5	434.5	62.0	32.5	29.0	25.0
Merged-chr1-180812626-4	chr1	180812523	180812723	+	919.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008210, intron 1 of 3)	CpG	982.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	7.0	12.0	18.0	65.5	43.5	12.0	17.0	19.0
Merged-chr11-75455472-3	chr11	75455347	75455547	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138950)	promoter-TSS (NM_138950)	-730.0	NM_138950	192652.0	Mm.340378	NM_138950	ENSMUSG00000045374	Wdr81	BC054822|Gm883|mFLJ00182|nur5	WD repeat domain 81	protein-coding	5.0	8.0	10.0	198.0	24.5	6.5	3.0	11.0
Merged-chr19-5512913-4	chr19	5512809	5513009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2392.0	NM_001024560	225861.0	Mm.20071	NM_001024560	ENSMUSG00000056185	Snx32	B930037P14Rik|Snx6b	sorting nexin 32	protein-coding	66.0	123.0	53.5	664.0	174.5	46.5	76.5	56.0
Merged-chr4-120406538-4	chr4	120406438	120406638	+	913.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013883, intron 1 of 16)	intron (NM_013883, intron 1 of 16)	1257.0	NM_013883	29871.0	Mm.427014	NM_013883	ENSMUSG00000000085	Scmh1	AI315320|AI851618|Scml1|Scml3	sex comb on midleg homolog 1	protein-coding	19.0	16.0	15.0	216.0	42.5	13.5	14.5	12.5
Merged-chr10-81138339-4	chr10	81138224	81138424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010731, intron 1 of 2)	intron (NM_010731, intron 1 of 2)	2053.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	74.0	119.0	64.0	880.0	172.0	74.5	65.0	49.0
Merged-chr12-17774991-4	chr12	17774902	17775102	+	899.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361645, intron 2 of 4)	intron (NM_001361645, intron 2 of 4)	84193.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	10.5	16.0	15.5	114.5	50.5	17.0	40.5	25.5
Merged-chr9-4380768-4	chr9	4380693	4380893	+	876.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145609, intron 1 of 2)	intron (NM_145609, intron 1 of 2)	4241.0	NM_145609	78100.0	Mm.206549	NM_145609	ENSMUSG00000041124	Msantd4	8430410K20Rik|Mysantd4	Myb/SANT-like DNA-binding domain containing 4 with coiled-coils	protein-coding	9.0	13.0	24.5	320.5	29.0	9.0	12.0	14.0
Merged-chr4-148448454-4	chr4	148448326	148448526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020009)	promoter-TSS (NM_020009)	-156.0	NM_020009	56717.0	Mm.21158	NM_020009	ENSMUSG00000028991	Mtor	2610315D21Rik|AI327068|FRAP|FRAP2|Frap1|RAFT1|RAPT1|flat	mechanistic target of rapamycin kinase	protein-coding	205.0	320.0	186.5	2679.0	518.5	203.5	216.0	203.5
Merged-chr7-78847278-4	chr7	78847163	78847363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029585)	promoter-TSS (NM_029585)	-52.0	NM_029585	76375.0	Mm.250541	NM_029585	ENSMUSG00000030610	Det1	2610034H20Rik	de-etiolated homolog 1 (Arabidopsis)	protein-coding	76.0	109.5	56.5	1231.0	175.5	68.5	85.0	89.0
Merged-chr19-48063500-4	chr19	48063408	48063608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125796.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	24.0	25.0	58.5	1002.5	11.0	7.0	20.5	30.5
Merged-chr8-23028324-4	chr8	23028179	23028379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110783, intron 1 of 43)	intron (NM_001110783, intron 1 of 43)	-6820.0	NM_001277281	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	19.0	18.5	24.0	269.0	25.0	22.0	18.0	25.0
Merged-chr17-6978799-4	chr17	6978711	6978911	+	961.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026611).2	promoter-TSS (NM_026611).2	-49.0	NM_026611	68195.0	Mm.181237	NM_026611	ENSMUSG00000094724	Rnaset2b	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2B	protein-coding	32.0	77.5	64.5	322.5	72.5	57.5	32.0	24.5
Merged-chr2-90583751-4	chr2	90583639	90583839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3092.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	84.5	81.0	81.5	1318.0	181.5	44.0	76.5	84.0
Merged-chr7-97034387-3	chr7	97034287	97034487	+	940.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 9 of 13)	L2a|LINE|L2	-47364.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	6.5	11.5	4.5	26.0	40.0	11.0	15.5	10.5
Merged-chr12-40445920-4	chr12	40445818	40446018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172575)	promoter-TSS (NM_172575)	-128.0	NM_178845	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	310.0	508.0	361.5	5819.0	827.0	312.5	429.0	356.5
Merged-chr4-123083026-3	chr4	123082916	123083116	+	790.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22145.0	NM_007559	12164.0	Mm.439764	NM_007559	ENSMUSG00000002384	Bmp8b	Op3	bone morphogenetic protein 8b	protein-coding	5.5	22.5	2.0	106.5	15.5	13.5	9.0	8.5
Merged-chr9-21146923-4	chr9	21146833	21147033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016742, intron 1 of 7)	intron (NM_016742, intron 1 of 7)	2973.0	NM_016742	12539.0	Mm.32331	NM_016742	ENSMUSG00000019471	Cdc37	p50|p50Cdc37	cell division cycle 37	protein-coding	76.5	107.5	37.0	903.0	134.0	54.5	53.0	44.5
Merged-chr15-25406182-4	chr15	25406064	25406264	+	877.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	7600.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	13.5	25.5	13.0	214.0	18.0	11.0	10.5	10.5
Merged-chr7-128381217-4	chr7	128381121	128381321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 4 of 4)	intron (NM_026418, intron 4 of 4)	36951.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	48.0	61.5	34.0	935.5	60.5	28.5	37.0	26.0
Merged-chr1-144003472-4	chr1	144003329	144003529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009061, intron 1 of 4)	intron (NM_009061, intron 1 of 4)	720.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	23.0	25.0	17.5	370.0	61.0	12.0	33.5	37.5
Merged-chr17-84838008-4	chr17	84837937	84838137	+	828.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47251.0	NM_028233	72416.0	Mm.217027	NM_028233	ENSMUSG00000024120	Lrpprc	3110001K13Rik|C76645|Gp130|Lrp130|Lsfc	leucine-rich PPR-motif containing	protein-coding	6.0	10.0	9.0	153.0	13.0	5.0	8.5	3.5
Merged-chr11-4236520-4	chr11	4236481	4236681	+	765.5625	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013365)	promoter-TSS (NM_001013365)	-204.0	NM_001013365	18413.0	Mm.131422	NM_001013365	ENSMUSG00000058755	Osm	OncoM	oncostatin M	protein-coding	8.5	6.0	8.0	51.0	4.0	1.5	3.0	0.5
Merged-chr7-25268140-4	chr7	25268049	25268249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302811, intron 1 of 20)	intron (NM_001302811, intron 1 of 20)	450.0	NM_001302811	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	407.5	661.0	467.5	5896.5	1138.0	485.5	546.5	473.5
Merged-chr9-107312976-4	chr9	107312871	107313071	+	969.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16312.0	NM_001317354	12700.0	Mm.4592	NM_009895	ENSMUSG00000032578	Cish	CIS-1|CIS1|Cis|F17|F23|SOCS	cytokine inducible SH2-containing protein	protein-coding	15.5	30.0	17.0	88.0	87.5	31.5	41.0	44.0
Merged-chr12-102730554-4	chr12	102730460	102730660	+	955.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1O|LTR|ERVL-MaLR	13101.0	NM_001142937	64113.0	Mm.291222	NM_022323	ENSMUSG00000096458	Moap1	AA987038|Map-1|Pnma4	modulator of apoptosis 1	protein-coding	10.0	14.5	4.0	197.0	60.5	35.5	20.5	19.5
Merged-chr1-20941562-3	chr1	20941464	20941664	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10062.0	NM_027974	71877.0	Mm.29178	NM_027974	ENSMUSG00000041809	Efhc1	1700029F22Rik|mRib72-1|myoclonin1	EF-hand domain (C-terminal) containing 1	protein-coding	53.0	63.5	44.0	901.0	1.0	0.0	1.0	1.0
Merged-chr12-80867191-3	chr12	80867085	80867285	+	938.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 3 of 6)	intron (NM_001242419, intron 3 of 6)	57262.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	8.0	15.5	11.0	182.0	11.0	1.0	7.0	5.5
Merged-chr11-94401347-1	chr11	94401247	94401447	+	586.0	f0_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	-8371.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	4.5	19.0	10.0	79.0	5.0	2.5	9.0	1.0
Merged-chr9-106476221-4	chr9	106476116	106476316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145619, intron 1 of 10)	intron (NM_145619, intron 1 of 10)	733.0	NM_001311150	235587.0	Mm.273659	NM_145619	ENSMUSG00000023249	Parp3	A930002C11Rik|AW990611|Adprt3|Adprtl3|PARP-3|pADPRT-3	poly (ADP-ribose) polymerase family, member 3	protein-coding	38.0	49.5	28.5	325.0	64.5	24.5	27.0	27.0
Merged-chr4-129365340-4	chr4	129365238	129365438	+	830.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028603, intron 2 of 4)	ID4_|SINE|ID	12690.0	NM_028603	73680.0	Mm.32997	NM_028603	ENSMUSG00000028807	Zbtb8a	2410081M15Rik|AI480941	zinc finger and BTB domain containing 8a	protein-coding	7.5	14.5	6.0	162.5	19.5	5.0	13.0	7.5
Merged-chr16-17911394-4	chr16	17911289	17911489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022408)	promoter-TSS (NM_022408)	-41.0	NM_001081633	27886.0	Mm.256480	NM_022408	ENSMUSG00000003527	Dgcr14	AI462402|D16H22S1269E|Dgcr1|Dgsi|ES2|Es2el|Ess2	DiGeorge syndrome critical region gene 14	protein-coding	111.5	216.5	91.0	1889.5	371.0	155.0	163.5	165.0
Merged-chr1-105171222-4	chr1	105171125	105171325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-184782.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	21.5	36.5	41.0	588.5	80.0	38.5	65.0	44.0
Merged-chr12-112762267-4	chr12	112762184	112762384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178911, intron 1 of 10)	intron (NM_178911, intron 1 of 10)	1629.0	NM_178911	104759.0	Mm.203915	NM_178911	ENSMUSG00000052160	Pld4	AI132321|thss	phospholipase D family, member 4	protein-coding	107.5	109.0	101.0	1582.0	165.5	74.0	86.0	95.5
Merged-chr12-111071257-4	chr12	111071162	111071362	+	963.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198023, intron 2 of 11)	intron (NM_198023, intron 2 of 11)	31464.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	27.0	66.5	16.0	350.5	54.5	21.0	14.0	18.5
Merged-chr4-63840634-4	chr4	63840551	63840751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009403, intron 2 of 3)	intron (NM_009403, intron 2 of 3)	20633.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	41.5	56.5	50.0	952.5	85.5	44.0	46.5	53.5
Merged-chr7-45523000-6	chr7	45522845	45523045	+	949.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008807)	TTS (NM_008807)	3323.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	11.5	1.5	3.0	92.5	22.0	7.0	10.0	15.5
Merged-chr2-165819701-4	chr2	165819598	165819798	+	944.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027230, intron 13 of 23)	intron (NM_027230, intron 13 of 23)	38475.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	14.0	20.5	9.5	138.5	68.5	22.5	13.0	26.5
Merged-chr15-54919366-4	chr15	54919267	54919467	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285994, intron 2 of 25)	intron (NM_001285994, intron 2 of 25)	779.0	NM_015744	18606.0	Mm.250256	NM_015744	ENSMUSG00000022425	Enpp2	ATX|E-NPP 2|Npps2|PD-Ialpha|Pdnp2|lysoPLD	ectonucleotide pyrophosphatase/phosphodiesterase 2	protein-coding	30.5	22.5	27.5	350.0	68.5	25.0	28.0	20.0
Merged-chr5-144963572-4	chr5	144963490	144963690	+	930.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038627, intron 1 of 17)	intron (NM_001038627, intron 1 of 17)	2240.0	NM_001038627	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	26.0	41.5	6.5	138.0	44.5	31.0	15.0	16.5
Merged-chr19-5929752-4	chr19	5929627	5929827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4911.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	77.0	124.5	79.5	881.5	270.5	71.0	81.0	64.0
Merged-chr10-25312066-2	chr10	25311974	25312174	+	668.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12911.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	0.0	0.0	1.5	32.5	27.0	5.5	12.0	17.5
Merged-chr3-135422470-2	chr3	135422370	135422570	+	816.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025902, intron 1 of 2)	intron (NM_025902, intron 1 of 2)	963.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	6.0	4.5	9.0	31.5	12.0	5.5	6.5	1.5
Merged-chr14-77909092-4	chr14	77908989	77909189	+	909.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 1 of 11)	MTD|LTR|ERVL-MaLR	4850.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	16.5	20.0	17.0	211.0	48.5	14.5	16.5	16.5
Merged-chr3-94949962-3	chr3	94949861	94950061	+	869.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA8|LINE|L1	-4147.0	NM_017395	53970.0	Mm.24308	NM_017395	ENSMUSG00000005774	Rfx5	-	regulatory factor X, 5 (influences HLA class II expression)	protein-coding	12.0	13.0	10.0	94.0	23.0	9.5	4.0	8.0
Merged-chr12-98269845-4	chr12	98269742	98269942	+	952.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008152, intron 1 of 1)	intron (NM_008152, intron 1 of 1)	1207.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	21.0	21.0	17.0	248.5	20.0	6.0	22.5	11.0
Merged-chr3-79794349-4	chr3	79794227	79794427	+	682.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	48335.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	6.5	7.5	6.5	63.5	32.5	6.5	13.5	9.0
Merged-chr9-53667507-4	chr9	53667409	53667609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027807)	promoter-TSS (NM_027807)	-2.0	NM_027807	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	57.0	123.0	75.0	1139.0	184.5	58.5	72.5	77.0
Merged-chr5-90366179-2	chr5	90366079	90366279	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030886)	promoter-TSS (NM_030886)	6.0	NM_030886	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	58.0	84.0	73.5	627.0	154.5	69.0	62.5	55.0
Merged-chr2-90565751-2	chr2	90565621	90565821	+	751.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	MIRb|SINE|MIR	14926.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	9.0	8.5	3.5	26.0	14.5	5.0	5.0	10.0
Merged-chr1-193888200-3	chr1	193888102	193888302	+	807.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	334557.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	7.5	14.0	26.5	103.5	8.0	5.0	9.5	3.5
Merged-chr5-105498928-3	chr5	105498827	105499027	+	960.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-20544.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	16.5	29.0	20.5	424.5	15.5	2.0	6.5	4.0
Merged-chr2-140783115-4	chr2	140783026	140783226	+	862.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	MLT1H|LTR|ERVL-MaLR	-111650.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	10.5	23.5	15.0	241.0	27.0	8.5	11.5	14.5
Merged-chr15-59435873-4	chr15	59435786	59435986	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 3 of 4)	intron (NM_001164604, intron 3 of 4)	61688.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	30.0	39.0	17.0	584.0	69.5	28.0	35.0	16.5
Merged-chr7-55909753-4	chr7	55909683	55909883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 22 of 30)	MLT1C|LTR|ERVL-MaLR	52710.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	126.0	163.0	131.0	1922.0	236.0	84.5	121.5	108.0
Merged-chr2-69885608-4	chr2	69885504	69885704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029280)	promoter-TSS (NM_029280)	11.0	NM_029280	75422.0	Mm.10508	NM_029280	ENSMUSG00000051730	Mettl5	2810410A08Rik	methyltransferase like 5	protein-coding	43.0	30.0	36.0	546.5	84.5	26.0	48.5	45.5
Merged-chr7-18991138-4	chr7	18991037	18991237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145579)	promoter-TSS (NM_145579)	-108.0	NM_145579	232934.0	Mm.440069	NM_145579	ENSMUSG00000048481	Mypop	Myodysa|P42pop	Myb-related transcription factor, partner of profilin	protein-coding	91.5	145.5	89.0	953.5	199.0	139.5	106.0	110.0
Merged-chr14-61971284-4	chr14	61971170	61971370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-288897.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	76.5	73.0	55.0	747.0	130.0	37.5	45.0	54.5
Merged-chr6-29166407-4	chr6	29166307	29166507	+	979.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1683.0	NM_133925	68272.0	Mm.40802	NM_026650	ENSMUSG00000029701	Rbm28	2810480G15Rik|AI503051	RNA binding motif protein 28	protein-coding	9.0	45.0	26.0	297.0	43.0	24.0	40.0	19.5
Merged-chr18-25486582-2	chr18	25486482	25486682	+	788.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_155531, intron 12 of 13)	intron (NR_155531, intron 12 of 13)	193166.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	4.5	7.5	0.0	44.0	12.5	6.0	4.5	16.0
Merged-chr16-33186298-4	chr16	33186188	33186388	+	902.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176840, intron 1 of 12)	intron (NM_176840, intron 1 of 12)	1217.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	13.5	14.0	14.0	247.0	26.0	5.5	10.5	19.0
Merged-chr3-36151352-2	chr3	36151252	36151452	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001101478, intron 1 of 3)	CpG	272.0	NM_001101478	241944.0	Mm.260056	NM_001101478	ENSMUSG00000033883	D3Ertd254e	-	DNA segment, Chr 3, ERATO Doi 254, expressed	protein-coding	14.5	27.0	17.0	271.0	39.5	11.0	19.5	15.5
Merged-chr4-139232246-3	chr4	139232143	139232343	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	38132.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	5.0	11.0	0.0	131.0	11.5	4.5	5.0	5.5
Merged-chr5-36563302-4	chr5	36563193	36563393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	19104.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	86.5	119.5	66.0	1099.0	189.0	85.0	115.5	89.0
Merged-chr11-44378099-4	chr11	44377996	44378196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21967.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	119.5	232.0	171.5	1884.5	346.5	127.5	127.5	116.5
Merged-chr7-44072319-3	chr7	44072218	44072418	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20028.0	NM_020268	16619.0	Mm.445911	NM_020268	ENSMUSG00000063177	Klk1b27	Gk27|Klk21l|Klk27|mGK-27	kallikrein 1-related peptidase b27	protein-coding	7.0	8.0	9.0	160.0	0.0	0.0	6.5	3.5
Merged-chr10-118086087-4	chr10	118086045	118086245	+	916.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G1|LTR|ERVL-MaLR	-55642.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	6.5	15.0	23.0	130.5	16.0	3.5	4.0	8.0
Merged-chr10-77519347-4	chr10	77519252	77519452	+	894.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3539.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	17.0	18.5	30.5	166.5	40.5	10.5	15.5	13.0
Merged-chr13-92923762-4	chr13	92923673	92923873	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78986.0	NM_001162945	382793.0	Mm.296770	NM_001162945	ENSMUSG00000021704	Mtx3	4930470O13Rik|AA409304|AI853833|AU067765|EG624619|Gm1194|Gm6514	metaxin 3	protein-coding	25.0	18.0	24.0	520.0	85.5	31.0	66.0	40.5
Merged-chr19-21962841-2	chr19	21962747	21962947	+	686.875	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-176270.0	NM_001035239	226025.0	Mm.131943	NM_177341	ENSMUSG00000052387	Trpm3	6330504P12Rik|9330180E14|AU018608|B930001P07Rik|LTRPC3|MLSN2	transient receptor potential cation channel, subfamily M, member 3	protein-coding	11.5	12.5	8.5	122.5	2.0	0.0	5.0	4.5
Merged-chr17-8838446-4	chr17	8838339	8838539	+	929.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	-11546.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	18.5	36.5	17.5	263.0	35.0	11.0	16.0	2.5
Merged-chr11-51328726-4	chr11	51328629	51328829	+	935.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153393, intron 2 of 28)	intron (NM_153393, intron 2 of 28)	38809.0	NM_153393	237759.0	Mm.154093	NM_153393	ENSMUSG00000063564	Col23a1	2810458L13Rik|AI429655	collagen, type XXIII, alpha 1	protein-coding	15.5	11.5	17.0	294.0	32.0	11.0	17.0	23.5
Merged-chr2-6580320-4	chr2	6580266	6580466	+	907.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 11 of 15)	intron (NM_001110232, intron 11 of 15)	141296.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	6.0	11.5	11.0	277.5	27.5	8.0	12.0	17.5
Merged-chr12-102713361-3	chr12	102713261	102713461	+	901.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8492.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	9.0	6.0	9.0	123.5	15.0	4.0	8.0	9.5
Merged-chr14-70289488-4	chr14	70289386	70289586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008915)	promoter-TSS (NM_008915)	11.0	NM_001360229	19057.0	Mm.439683	NM_008915	ENSMUSG00000022092	Ppp3cc	Calnc|PP2BA gamma	protein phosphatase 3, catalytic subunit, gamma isoform	protein-coding	94.5	103.5	74.0	1047.0	200.5	58.5	104.5	87.0
Merged-chr17-70966240-4	chr17	70966069	70966269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24347.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	58.0	102.0	68.0	681.0	160.5	40.5	42.5	46.5
Merged-chr9-45093968-3	chr9	45093869	45094069	+	878.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 6 of 10)	(TG)n|Simple_repeat|Simple_repeat	14786.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	5.5	8.0	9.0	124.5	6.0	0.0	1.0	4.5
Merged-chr12-89365017-2	chr12	89364917	89365117	+	653.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001198587, intron 9 of 19)	intron (NM_001198587, intron 9 of 19)	411627.0	NM_172544	18191.0	Mm.425766	NM_172544	ENSMUSG00000066392	Nrxn3	-	neurexin III	protein-coding	6.0	1.0	4.0	20.5	14.5	6.0	7.5	5.5
Merged-chr10-70245147-4	chr10	70245084	70245284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025807)	promoter-TSS (NM_025807)	-92.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	23.0	41.5	55.0	536.0	59.5	19.0	29.5	29.0
Merged-chr13-90932914-1	chr13	90932814	90933014	+	988.6666869999999	f0_balb.idr	Intergenic	Intergenic	9792.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	15.0	7.0	23.5	259.5	0.0	0.0	0.0	2.5
Merged-chr11-61104452-4	chr11	61104333	61104533	+	852.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER30|DNA|hAT-Charlie	-36402.0	NM_021349	57916.0	Mm.265915	NM_021349	ENSMUSG00000010142	Tnfrsf13b	1200009E08Rik|Taci	tumor necrosis factor receptor superfamily, member 13b	protein-coding	4.5	18.5	3.0	136.0	24.5	4.5	16.0	10.5
Merged-chr3-51339820-4	chr3	51339721	51339921	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	CpG	823.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	12.0	17.0	13.0	166.5	30.5	7.5	14.5	31.0
Merged-chr9-66620932-4	chr9	66620834	66621034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27819.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	36.0	81.0	27.0	309.5	94.0	33.0	26.0	34.5
Merged-chr11-101687943-4	chr11	101687830	101688030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22389.0	NM_025404	80981.0	Mm.266840	NM_025404	ENSMUSG00000034936	Arl4d	1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5	ADP-ribosylation factor-like 4D	protein-coding	41.0	70.0	44.5	722.5	78.5	39.5	36.0	27.5
Merged-chr19-8798589-4	chr19	8798495	8798695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026329)	promoter-TSS (NM_026329)	-38.0	NM_026329	67710.0	Mm.22117	NM_026329	ENSMUSG00000071662	Polr2g	2410046K11Rik|A230108L04Rik|C76415|RBP7|Rpo2-7l	polymerase (RNA) II (DNA directed) polypeptide G	protein-coding	134.5	213.0	125.0	1474.0	338.5	126.5	159.5	133.5
Merged-chr19-60731087-3	chr19	60730983	60731183	+	882.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24904.0	NM_178421	332397.0	Mm.186390	NM_178421	ENSMUSG00000072437	Nanos1	NOS-1	nanos C2HC-type zinc finger 1	protein-coding	10.0	3.0	3.5	107.5	18.0	5.0	6.5	11.5
Merged-chr13-20728257-2	chr13	20728159	20728359	+	765.166626	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65854.0	NM_001281854	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	5.0	4.0	5.0	132.0	29.5	6.5	12.5	13.5
Merged-chr11-70005713-2	chr11	70005613	70005813	+	750.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_007888, exon 5 of 15)	exon (NM_007888, exon 5 of 15)	5087.0	NM_007888	13543.0	Mm.5114	NM_007888	ENSMUSG00000020888	Dvl2	-	dishevelled segment polarity protein 2	protein-coding	4.0	2.0	2.5	40.5	16.0	8.0	9.5	11.0
Merged-chr4-139206009-4	chr4	139205904	139206104	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	B3A|SINE|B2	11893.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	7.0	9.5	4.5	105.0	47.0	13.0	17.5	24.0
Merged-chr13-38528003-4	chr13	38527924	38528124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289599)	promoter-TSS (NM_001289599)	-110.0	NM_001289599	105245.0	Mm.28622	NM_145367	ENSMUSG00000038991	Txndc5	AL022641|ERp46|PC-TRP	thioredoxin domain containing 5	protein-coding	74.0	72.5	93.5	1058.5	130.0	47.0	94.0	64.0
Merged-chr15-39933610-4	chr15	39933503	39933703	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172814, intron 1 of 6)	intron (NM_172814, intron 1 of 6)	10391.0	NM_001347036	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	23.0	54.5	38.5	375.5	42.5	20.5	16.5	14.5
Merged-chr6-42373074-4	chr6	42372887	42373087	+	910.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023580, intron 1 of 17)	intron (NM_023580, intron 1 of 17)	281.0	NM_023580	13835.0	Mm.133330	NM_023580	ENSMUSG00000029859	Epha1	5730453L17Rik|AL033318|Eph|Esk	Eph receptor A1	protein-coding	6.0	10.5	4.0	87.5	21.5	7.0	6.0	9.0
Merged-chr10-63122768-4	chr10	63122680	63122880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 16 of 19)	intron (NM_182992, intron 16 of 19)	22624.0	NM_016864	53404.0	Mm.228661	NM_016864	ENSMUSG00000036816	Atoh7	Math5|bHLHa13	atonal bHLH transcription factor 7	protein-coding	55.5	80.0	37.5	710.0	137.5	42.0	53.0	37.0
Merged-chr14-51082875-4	chr14	51082716	51082916	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8261.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	26.5	13.5	32.5	91.0	19.0	9.5	12.5	12.0
Merged-chr12-79140984-4	chr12	79140876	79141076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	intron (NM_009705, intron 2 of 7)	10188.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	147.5	255.0	140.0	2182.0	271.5	123.5	109.0	120.5
Merged-chr11-80209023-4	chr11	80208914	80209114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021536)	promoter-TSS (NM_021536)	-41.0	NM_001163354	59040.0	Mm.489674	NM_021536	ENSMUSG00000017686	Rhot1	2210403N23Rik|AA415293|AF244542|AI834919|Arht1|C430039G08Rik|Miro1	ras homolog family member T1	protein-coding	76.5	116.5	82.0	753.0	198.5	68.5	73.5	91.0
Merged-chr1-91096696-4	chr1	91096607	91096807	+	969.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 10 of 22)	intron (NM_008515, intron 10 of 22)	43263.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	11.5	40.5	34.5	470.5	75.0	13.5	37.0	38.0
Merged-chr6-136979600-4	chr6	136979514	136979714	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25091.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	6.5	9.5	17.0	168.0	20.5	5.5	10.5	13.0
Merged-chr11-119709414-4	chr11	119709319	119709519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028898, intron 3 of 33)	intron (NM_028898, intron 3 of 33)	106514.0	NM_028898	74370.0	Mm.209933	NM_028898	ENSMUSG00000025583	Rptor	4932417H02Rik|Rap|Raptor|mKIAA1303	regulatory associated protein of MTOR, complex 1	protein-coding	65.0	67.0	66.5	825.0	100.5	38.5	59.5	53.0
Merged-chr16-4214197-4	chr16	4214086	4214286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025432)	promoter-TSS (NM_001025432)	-782.0	NM_001025432	12914.0	Mm.132238	NM_001025432	ENSMUSG00000022521	Crebbp	AW558298|CBP|CBP/p300|KAT3A|p300/CBP	CREB binding protein	protein-coding	107.0	190.0	105.5	1164.0	242.5	128.5	112.0	111.0
Merged-chr17-29397110-4	chr17	29397051	29397251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36237.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	19.5	37.0	21.0	215.5	62.5	16.0	30.5	23.5
Merged-chr12-99739150-4	chr12	99739052	99739252	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030172, intron 5 of 5)	intron (NM_030172, intron 5 of 5)	-111178.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	15.5	28.0	19.5	207.5	125.0	45.5	46.5	49.5
Merged-chr2-167421541-4	chr2	167421441	167421641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148929)	promoter-TSS (NM_148929)	-169.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	177.5	370.0	255.5	2454.0	590.5	201.5	211.5	223.0
Merged-chr17-31305074-4	chr17	31304960	31305160	+	958.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242427, intron 2 of 19)	intron (NM_001242427, intron 2 of 19)	8836.0	NM_001242427	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	23.0	30.5	20.5	397.5	64.0	11.5	31.0	21.5
Merged-chr11-34783179-4	chr11	34783113	34783313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	692.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	42.0	57.5	23.5	410.5	80.0	24.5	25.5	27.5
Merged-chr13-88821867-4	chr13	88821810	88822010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010103, exon 1 of 10)	5' UTR (NM_010103, exon 1 of 10)	438.0	NM_001037987	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	17.0	8.5	32.5	273.0	79.0	20.0	37.5	21.5
Merged-chr7-80035257-3	chr7	80035140	80035340	+	831.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	9012.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	5.5	7.5	8.0	159.0	14.0	4.5	6.5	1.5
Merged-chr10-118870402-4	chr10	118870272	118870472	+	942.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1469.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	29.0	30.5	8.0	168.5	27.5	18.5	14.5	11.0
Merged-chr17-57335434-4	chr17	57335321	57335521	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-23265.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	13.0	24.0	17.0	189.0	35.0	27.0	16.5	22.0
Merged-chr1-87824624-4	chr1	87824525	87824725	+	903.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009118, intron 9 of 15)	intron (NM_009118, intron 9 of 15)	20945.0	NM_009118	20215.0	Mm.1276	NM_009118	ENSMUSG00000056055	Sag	A930001K18Rik|Arr1|Irbp|arrestin	S-antigen, retina and pineal gland (arrestin)	protein-coding	12.5	17.0	13.5	192.5	14.5	11.0	15.0	20.0
Merged-chr4-46916997-3	chr4	46916897	46917097	+	649.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081141, intron 1 of 18)	intron (NM_001081141, intron 1 of 18)	74717.0	NM_001081141	242425.0	Mm.101909	NM_001081141	ENSMUSG00000039809	Gabbr2	GABABR2|Gb2|Gm425|Gpr51	gamma-aminobutyric acid (GABA) B receptor, 2	protein-coding	7.5	10.5	16.0	173.5	4.0	1.0	3.0	11.0
Merged-chr10-75921432-7	chr10	75921323	75921523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001161853, exon 1 of 9)	5' UTR (NM_001161853, exon 1 of 9)	191.0	NM_011418	20587.0	Mm.279751	NM_011418	ENSMUSG00000000902	Smarcb1	AU020204|Baf47|Ini1|SNF5/INI1|Snf5	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1	protein-coding	44.0	43.0	34.0	431.5	71.0	36.5	28.5	45.0
Merged-chr14-49066506-4	chr14	49066401	49066601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144535)	promoter-TSS (NM_144535)	-48.0	NM_001360070	74385.0	Mm.379235	NM_144535	ENSMUSG00000036291	Ap5m1	4932432K03Rik|Mu5|Mudeng	adaptor-related protein complex 5, mu 1 subunit	protein-coding	106.5	187.5	109.0	2027.0	248.0	114.5	124.5	116.5
Merged-chr5-96997510-4	chr5	96997407	96997607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080708)	promoter-TSS (NM_080708)	-182.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	176.5	276.0	227.5	2258.0	406.0	151.5	206.0	138.0
Merged-chr4-41558689-3	chr4	41558583	41558783	+	881.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	L3|LINE|CR1	10844.0	NM_001159583	71901.0	Mm.39215	NM_027993	ENSMUSG00000028439	Fam219a	2310028H24Rik	family with sequence similarity 219, member A	protein-coding	2.0	3.0	0.5	20.5	18.0	7.0	14.5	28.0
Merged-chr2-148732468-4	chr2	148732388	148732588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019632)	promoter-TSS (NM_019632)	-68.0	NM_019632	17957.0	Mm.274308	NM_019632	ENSMUSG00000027438	Napb	Brp14|E161|I47|SNARE|b-SNAP	N-ethylmaleimide sensitive fusion protein attachment protein beta	protein-coding	77.5	89.0	85.5	1458.5	123.5	33.5	80.5	66.0
Merged-chr11-8589699-4	chr11	8589594	8589794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	intron (NM_001083587, intron 3 of 30)	74841.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	161.5	309.5	162.0	2359.5	335.0	131.5	120.5	97.0
Merged-chr3-88603942-4	chr3	88603835	88604035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12272.0	NM_001198911	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	94.5	169.5	60.5	1099.0	209.5	57.5	81.5	50.5
Merged-chr12-32207058-4	chr12	32206960	32207160	+	838.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146200, intron 1 of 10)	intron (NM_001146200, intron 1 of 10)	1278.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	16.5	17.0	11.5	326.5	22.5	11.5	11.0	9.5
Merged-chr2-160057678-4	chr2	160057562	160057762	+	973.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41009.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	27.5	21.0	20.0	330.5	69.0	12.0	28.5	26.0
Merged-chr15-53104192-4	chr15	53104089	53104289	+	989.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 3 of 10)	intron (NM_010162, intron 3 of 10)	241994.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	17.5	32.5	49.5	601.0	66.0	26.0	64.5	45.0
Merged-chr18-54902720-4	chr18	54902619	54902819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	87461.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	40.0	38.0	41.0	963.5	111.5	44.5	57.0	52.0
Merged-chr3-79233916-3	chr3	79233809	79234009	+	859.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	20990.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	6.0	2.0	1.0	102.5	23.0	9.5	8.0	13.0
Merged-chr8-77423053-4	chr8	77422956	77423156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 5 of 22)	intron (NM_030113, intron 5 of 22)	-94000.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	155.5	179.0	143.5	2782.5	300.5	100.0	164.5	125.5
Merged-chr2-155074397-5	chr2	155074276	155074476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016661, exon 1 of 10)	exon (NM_016661, exon 1 of 10)	121.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	61.0	95.5	90.0	562.0	140.0	46.5	71.0	80.5
Merged-chr7-30562813-3	chr7	30562681	30562881	+	976.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170760)	promoter-TSS (NM_170760)	403.0	NM_025498	66340.0	Mm.86557	NM_025498	ENSMUSG00000036835	Psenen	1700023M09Rik|Pen-2	presenilin enhancer gamma secretase subunit	protein-coding	13.0	8.5	11.0	167.5	21.5	14.0	18.0	17.5
Merged-chr12-26451399-3	chr12	26451310	26451510	+	669.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021384, intron 2 of 5)	intron (NM_021384, intron 2 of 5)	5042.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	6.0	11.5	8.5	41.0	21.5	9.5	7.0	4.0
Merged-chr11-105990435-4	chr11	105990351	105990551	+	969.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_207624)	TTS (NM_207624)	-4224.0	NM_001101453	217246.0	Mm.296699	NM_001101453	ENSMUSG00000101605	Ace3	EG217246	angiotensin I converting enzyme (peptidyl-dipeptidase A) 3	protein-coding	18.5	17.0	44.5	517.5	41.5	14.5	26.5	19.0
Merged-chr2-43921581-3	chr2	43921475	43921675	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 6 of 14)	intron (NM_001301831, intron 6 of 14)	143749.0	NR_040622	320872.0	Mm.445023	NR_040622	ENSMUSG00000085089	Arhgap15os	A430092G05Rik	Rho GTPase activating protein 15, opposite strand	ncRNA	6.0	5.0	6.0	85.0	32.5	6.5	22.5	6.0
Merged-chr17-35121387-4	chr17	35121280	35121480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303476)	promoter-TSS (NM_001303476)	49.0	NM_001303445	13001.0	Mm.378901	NM_009975	ENSMUSG00000024387	Csnk2b	CK II beta	casein kinase 2, beta polypeptide	protein-coding	228.0	376.5	130.5	1884.0	552.5	205.5	171.5	179.5
Merged-chr7-34132628-4	chr7	34132529	34132729	+	972.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207212, exon 1 of 8)	exon (NM_207212, exon 1 of 8)	639.0	NM_207212	101543.0	Mm.422738	NM_207212	ENSMUSG00000036459	Wtip	-	WT1-interacting protein	protein-coding	15.5	26.5	37.0	533.5	67.5	12.5	17.5	17.0
Merged-chr7-75633137-3	chr7	75633041	75633241	+	849.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	Lx9|LINE|L1	177607.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	14.5	26.5	6.5	279.0	15.0	1.0	5.0	5.0
Merged-chr1-174038698-4	chr1	174038618	174038818	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-3215.0	NM_146717	258712.0	Mm.223146	NM_146717	ENSMUSG00000045381	Olfr433	MOR123-1	olfactory receptor 433	protein-coding	35.0	57.0	47.0	359.5	101.5	51.0	31.5	18.0
Merged-chr9-44498615-3	chr9	44498523	44498723	+	852.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030256)	promoter-TSS (NM_030256)	-513.0	NM_030256	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	10.0	23.0	5.5	91.0	31.5	6.0	3.5	7.5
Merged-chr10-62543680-4	chr10	62543572	62543772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16227.0	NM_001358965	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	312.5	545.5	397.0	5727.5	545.0	207.0	323.5	247.5
Merged-chr2-122154085-4	chr2	122154005	122154205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	intron (NM_026251, intron 2 of 17)	6418.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	23.0	37.0	22.5	172.5	103.5	22.5	39.0	25.0
Merged-chr1-91235593-4	chr1	91235502	91235702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-14702.0	NM_001355763	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	46.5	37.0	44.0	599.0	97.5	23.5	38.5	45.5
Merged-chr2-22822488-4	chr2	22822393	22822593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 3 of 13)	intron (NM_019456, intron 3 of 13)	48166.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	28.5	41.5	25.5	782.5	74.0	7.5	31.5	26.5
Merged-chr10-80018881-4	chr10	80018777	80018977	+	831.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027521)	promoter-TSS (NM_027521)	-798.0	NM_027521	70719.0	Mm.243954	NM_027521	ENSMUSG00000035697	Arhgap45	6330406L22Rik|AW539505|Ha-1|Hmha1	Rho GTPase activating protein 45	protein-coding	8.5	15.5	7.0	238.5	33.5	4.5	3.0	15.0
Merged-chr2-181529289-3	chr2	181529200	181529400	+	745.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271584, intron 2 of 5)	intron (NM_001271584, intron 2 of 5)	8815.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	10.5	9.0	6.0	105.5	9.0	1.5	7.0	5.0
Merged-chr16-64941980-4	chr16	64941900	64942100	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008310, intron 2 of 2)	RLTR14|LTR|ERV1	89999.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	9.0	29.0	9.0	130.0	127.0	41.5	41.0	20.0
Merged-chr9-56950867-4	chr9	56950762	56950962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178374)	promoter-TSS (NM_178374)	-62.0	NM_178374	66069.0	Mm.220984	NM_178374	ENSMUSG00000055334	Snupn	0610031A09Rik|Rnut1|Snupn1	snurportin 1	protein-coding	174.0	306.5	141.0	2311.5	430.5	141.5	212.0	224.0
Merged-chr17-56276268-3	chr17	56276141	56276341	+	889.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174989, intron 1 of 1)	intron (NM_174989, intron 1 of 1)	526.0	NM_174989	106759.0	Mm.203952	NM_174989	ENSMUSG00000047123	Ticam1	AW046014|AW547018|TICAM-1|TRIF	toll-like receptor adaptor molecule 1	protein-coding	7.5	12.0	8.0	107.5	18.5	11.5	11.0	14.5
Merged-chr7-140882352-4	chr7	140882255	140882455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177804)	promoter-TSS (NM_001177804)	-39.0	NM_011875	23997.0	Mm.29760	NM_011875	ENSMUSG00000025487	Psmd13	S11	proteasome (prosome, macropain) 26S subunit, non-ATPase, 13	protein-coding	79.0	158.0	52.5	1011.5	224.5	74.0	115.0	81.0
Merged-chr7-106236873-4	chr7	106236794	106236994	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21554.0	NM_029000	74558.0	Mm.458429	NM_029000	ENSMUSG00000045868	Gvin1	9130002C22Rik|9830104F22Rik|Iigs1|VLIG|VLIG-1	GTPase, very large interferon inducible 1	protein-coding	17.0	12.5	13.0	327.0	100.0	13.0	29.0	30.0
Merged-chr12-100202042-4	chr12	100201961	100202161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313934, intron 1 of 5)	AmnSINE1|SINE|Deu	1917.0	NM_001313934	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	67.5	131.0	90.5	1415.0	194.0	78.0	61.5	73.0
Merged-chr14-31830000-2	chr14	31829900	31830100	+	703.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001024604, intron 1 of 27)	CpG	415.0	NM_001024604	105522.0	Mm.37660	NM_001024604	ENSMUSG00000014496	Ankrd28	AI465466|AI604979|E430019N21Rik|mKIAA0379	ankyrin repeat domain 28	protein-coding	16.0	6.5	5.5	93.0	17.0	11.0	4.5	10.0
Merged-chr4-106839058-4	chr4	106838969	106839169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34062.0	NM_001347159	329910.0	Mm.222956	NM_025590	ENSMUSG00000034853	Acot11	1110020M10Rik|2010309H15Rik|AW060409|BFIT|BFIT1|Thea|Them1|mKIAA0707	acyl-CoA thioesterase 11	protein-coding	60.5	86.5	42.5	807.0	179.0	46.5	62.0	69.5
Merged-chr3-145738153-4	chr3	145738074	145738274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20518.0	NM_026993	69219.0	Mm.234247	NM_026993	ENSMUSG00000028194	Ddah1	2410006N07Rik|2510015N06Rik|AI987801|AW050362	dimethylarginine dimethylaminohydrolase 1	protein-coding	83.5	84.5	117.5	1327.0	132.0	47.5	52.0	85.5
Merged-chr2-18765812-4	chr2	18765731	18765931	+	984.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4969.0	NR_126079	100041479.0	Mm.393659	NR_126079	ENSMUSG00000092353	Gm3363	-	predicted gene 3363	ncRNA	22.0	29.0	11.0	208.0	49.0	7.5	18.5	9.0
Merged-chr9-99378208-4	chr9	99378124	99378324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB3_1-LTR_MM|LTR|ERVK	-19694.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	22.5	22.5	37.5	331.0	74.0	15.0	29.5	27.5
Merged-chr2-73912439-2	chr2	73912339	73912539	+	913.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-1113.0	NM_001301722	228033.0	Mm.2966	NM_175015	ENSMUSG00000018770	Atp5g3	6030447M23	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9)	protein-coding	6.0	3.0	3.0	49.0	5.5	8.0	5.0	4.5
Merged-chr11-101552730-4	chr11	101552637	101552837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252223)	promoter-TSS (NM_001252223)	83.0	NM_001252223	17966.0	Mm.784	NM_008676	ENSMUSG00000017119	Nbr1	mKIAA0049	neighbor of Brca1 gene 1	protein-coding	207.5	338.5	186.0	2631.0	559.5	200.0	197.5	214.0
Merged-chr17-46163152-4	chr17	46163089	46163289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357745, intron 1 of 11)	intron (NM_001357745, intron 1 of 11)	1125.0	NM_001357745	56055.0	Mm.22147	NM_019581	ENSMUSG00000023952	Gtpbp2	nmf205	GTP binding protein 2	protein-coding	16.0	30.0	17.5	271.5	71.5	25.5	25.0	35.0
Merged-chr10-93081696-4	chr10	93081646	93081846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347060)	promoter-TSS (NM_001347060)	-150.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	22.0	33.0	16.5	300.0	80.5	44.0	43.5	27.0
Merged-chr7-16098506-4	chr7	16098383	16098583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025898)	promoter-TSS (NM_025898)	-97.0	NM_025898	108124.0	Mm.104540	NM_025898	ENSMUSG00000006024	Napa	1500039N14Rik|AW209189|RA81|SNAP-alpha|SNAPA|SNARE|a-SNAP|hyh	N-ethylmaleimide sensitive fusion protein attachment protein alpha	protein-coding	328.0	453.5	354.0	4352.0	729.5	293.5	353.5	276.5
Merged-chr16-21908668-4	chr16	21908607	21908807	+	814.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172821, exon 7 of 13)	exon (NM_172821, exon 7 of 13)	16738.0	NM_172821	71751.0	Mm.420837	NM_172821	ENSMUSG00000033618	Map3k13	C130026N12Rik|LZK	mitogen-activated protein kinase kinase kinase 13	protein-coding	12.5	15.5	11.0	202.0	16.5	5.0	5.0	12.5
Merged-chr5-115488315-4	chr5	115488207	115488407	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3823.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	28.5	49.5	19.5	537.5	69.0	14.5	25.0	46.5
Merged-chr10-82973767-3	chr10	82973668	82973868	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-11729.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	7.0	19.5	14.5	219.0	1.0	2.5	1.5	0.0
Merged-chr11-98783490-4	chr11	98783421	98783621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8144.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	174.0	222.5	181.0	2332.0	359.0	136.0	148.5	127.5
Merged-chr9-102982610-4	chr9	102982514	102982714	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-25875.0	NM_033314	24059.0	Mm.207106	NM_033314	ENSMUSG00000032548	Slco2a1	2310021C19Rik|Pgt|Slc21a2|mPgt	solute carrier organic anion transporter family, member 2a1	protein-coding	13.5	28.5	21.0	248.5	48.0	10.5	19.0	24.5
Merged-chr6-38650728-4	chr6	38650618	38650818	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12351.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	8.5	9.5	5.5	141.0	35.0	8.5	22.5	6.5
Merged-chr16-38363277-4	chr16	38363167	38363367	+	706.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022318, intron 1 of 3)	Charlie24|DNA|hAT-Charlie	1077.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	7.5	20.5	5.5	89.5	16.0	8.5	9.5	5.0
Merged-chr4-155705022-4	chr4	155704872	155705072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026899, exon 1 of 5)	5' UTR (NM_026899, exon 1 of 5)	157.0	NM_026899	68991.0	Mm.294770	NM_026899	ENSMUSG00000029038	Ssu72	1190002E22Rik|1500011L16Rik|2610101M12Rik	Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)	protein-coding	56.0	126.5	34.5	656.5	138.0	68.5	34.5	53.0
Merged-chr6-113661698-4	chr6	113661623	113661823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	23256.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	75.0	106.5	35.0	711.0	166.0	75.5	73.0	62.0
Merged-chr12-106031776-4	chr12	106031676	106031876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	intron (NM_001029843, intron 1 of 13)	21513.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	29.5	44.0	33.5	578.5	110.0	29.0	29.5	34.0
Merged-chr19-38224167-4	chr19	38224095	38224295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081075)	promoter-TSS (NM_001081075)	-63.0	NM_001081075	70567.0	Mm.30607	NM_001081075	ENSMUSG00000054237	Fra10ac1	5730455O13Rik|AI448293	FRA10AC1 homolog (human)	protein-coding	55.0	55.0	53.5	703.0	123.0	39.5	51.5	34.0
Merged-chr6-121191792-4	chr6	121191691	121191891	+	915.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304773, intron 4 of 4)	intron (NM_001304773, intron 4 of 4)	8124.0	NM_001304773	74043.0	Mm.491240	NM_028730	ENSMUSG00000067825	Pex26	4632428M11Rik	peroxisomal biogenesis factor 26	protein-coding	15.5	11.5	10.0	136.0	52.0	23.5	42.5	11.5
Merged-chr1-133418329-4	chr1	133418217	133418417	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011439, intron 1 of 13)	intron (NM_011439, intron 1 of 13)	5895.0	NM_011439	20668.0	Mm.8575	NM_011439	ENSMUSG00000070643	Sox13	AA407916|AW259412|AW540933|Sox-13	SRY (sex determining region Y)-box 13	protein-coding	7.5	21.0	28.5	286.0	27.0	3.5	11.5	17.0
Merged-chr6-137735080-4	chr6	137734973	137735173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011499)	promoter-TSS (NM_011499)	-9.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	192.0	293.5	248.5	3519.5	722.5	303.0	339.0	278.0
Merged-chr8-26697480-1	chr8	26697380	26697580	+	1000.0	f0_c57.idr	Intergenic	Intergenic	126943.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	17.5	29.5	26.5	284.5	116.5	30.5	43.0	55.5
Merged-chr8-123406968-4	chr8	123406845	123407045	+	857.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008559)	promoter-TSS (NM_008559)	-137.0	NM_008559	17199.0	Mm.324942	NM_008559	ENSMUSG00000074037	Mc1r	Mcr1|Mshra|Tob|e	melanocortin 1 receptor	protein-coding	9.5	19.0	6.0	33.0	33.0	20.5	7.5	9.5
Merged-chr7-115001310-2	chr7	115001209	115001409	+	789.75	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	50035.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	16.0	12.5	25.0	279.5	14.0	10.0	10.5	15.0
Merged-chr18-39185829-3	chr18	39185751	39185951	+	860.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 11 of 21)	intron (NM_001361073, intron 11 of 21)	192706.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	4.0	3.0	5.0	104.5	13.5	6.0	10.5	12.5
Merged-chr9-107757566-3	chr9	107757473	107757673	+	728.3222049999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153191, intron 5 of 23)	intron (NR_153191, intron 5 of 23)	13429.0	NM_148930	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	8.5	13.5	10.5	217.5	0.0	0.0	0.0	1.0
Merged-chr3-95497843-3	chr3	95497738	95497938	+	692.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009709)	TTS (NM_009709)	-1372.0	NM_007802	13038.0	Mm.272085	NM_007802	ENSMUSG00000028111	Ctsk	AI323530|MMS10-Q|Ms10q|catK	cathepsin K	protein-coding	8.0	11.0	9.5	90.5	15.0	5.0	5.5	2.5
Merged-chr13-37680512-4	chr13	37680426	37680626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-145512.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	37.5	115.5	63.0	393.5	112.5	22.5	24.5	24.0
Merged-chr11-32342928-4	chr11	32342836	32343036	+	856.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4875.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	5.0	20.5	7.0	117.0	43.0	16.0	13.5	23.5
Merged-chr5-122627372-4	chr5	122627224	122627424	+	687.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12780.0	NM_009879	12589.0	Mm.10125	NM_009879	ENSMUSG00000029469	Ift81	AW060663|Cdv-1|Cdv-1r|Cdv1	intraflagellar transport 81	protein-coding	3.5	3.5	5.0	52.0	16.0	7.5	5.5	11.0
Merged-chr4-32248508-4	chr4	32248407	32248607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168928.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	42.0	44.0	42.5	469.0	76.0	24.0	32.5	24.5
Merged-chr4-126126937-4	chr4	126126801	126127001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 4 of 10)	intron (NM_028800, intron 4 of 10)	-21102.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	36.0	52.0	65.0	544.5	76.5	26.5	45.0	18.0
Merged-chr7-34380503-4	chr7	34380394	34380594	+	927.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025948, intron 1 of 10)	intron (NM_025948, intron 1 of 10)	9211.0	NM_001360654	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	12.0	13.5	21.5	405.5	54.0	12.0	21.0	39.5
Merged-chr4-16082373-4	chr4	16082302	16082502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-68514.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	30.0	41.0	41.0	636.0	71.0	25.0	19.5	17.0
Merged-chr12-34847492-4	chr12	34847390	34847590	+	878.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 2 of 27)	intron (NM_001271386, intron 2 of 27)	69605.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	15.5	11.5	6.5	198.0	22.5	14.5	17.0	10.0
Merged-chr2-174675864-4	chr2	174675762	174675962	+	929.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099328, intron 3 of 4)	intron (NM_001099328, intron 3 of 4)	32328.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	10.5	21.0	11.0	343.5	39.0	12.5	15.5	18.0
Merged-chr16-76407067-3	chr16	76406965	76407165	+	927.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33238.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	7.5	10.5	14.0	331.5	14.0	9.0	7.5	7.0
Merged-chr2-27770399-8	chr2	27770246	27770446	+	828.752075	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59763.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	13.5	40.5	8.0	34.0	25.5	7.5	8.0	8.0
Merged-chr15-101254114-4	chr15	101254006	101254206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12740.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	132.0	201.5	115.5	1605.5	442.0	144.5	213.5	165.0
Merged-chr8-114473784-4	chr8	114473685	114473885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 4 of 8)	intron (NM_019573, intron 4 of 8)	34133.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	47.5	52.0	40.5	723.5	54.0	25.0	51.5	36.0
Merged-chr11-94544135-4	chr11	94544046	94544246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013381, exon 5 of 9)	exon (NM_001013381, exon 5 of 9)	5061.0	NM_001013381	237926.0	Mm.342275	NM_001013381	ENSMUSG00000039096	Rsad1	B430319G23|BC056485	radical S-adenosyl methionine domain containing 1	protein-coding	33.0	62.0	23.0	484.5	56.5	35.0	47.0	33.0
Merged-chr8-107293962-2	chr8	107293853	107294053	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001286260, intron 1 of 12)	CpG	483.0	NM_133957	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	18.0	30.5	31.5	201.0	37.5	20.5	22.5	28.0
Merged-chr1-172321573-3	chr1	172321472	172321672	+	997.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008429, exon 4 of 4)	3' UTR (NM_008429, exon 4 of 4)	7750.0	NM_008429	16524.0	Mm.261168	NM_008429	ENSMUSG00000038026	Kcnj9	1700085N21Rik|Girk3|Kir3.3|mbGIRK3	potassium inwardly-rectifying channel, subfamily J, member 9	protein-coding	21.0	36.0	19.0	330.0	13.5	7.0	4.0	11.5
Merged-chr7-96413726-3	chr7	96413610	96413810	+	968.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 2 of 32)	intron (NM_011858, intron 2 of 32)	-71746.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	18.0	14.0	16.0	251.5	14.5	7.5	4.5	7.0
Merged-chr13-93755318-4	chr13	93755219	93755419	+	957.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MRLTR33|LTR|ERVK	-16360.0	NM_009712	11881.0	Mm.300178	NM_009712	ENSMUSG00000042082	Arsb	1110007C02Rik|AI480648|As-1|As-1r|As-1s|As-1t|As1|As1-r|As1-s|As1-t|Asr-1|Ast-1	arylsulfatase B	protein-coding	19.5	48.0	28.0	554.5	52.0	13.5	12.5	19.5
Merged-chr7-34302097-4	chr7	34301949	34302149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16440.0	NM_172741	233103.0	Mm.491097	NM_172741	ENSMUSG00000066571	4931406P16Rik	AA553327|mKIAA0355	RIKEN cDNA 4931406P16 gene	protein-coding	21.5	30.5	15.0	392.0	36.0	3.5	17.5	18.5
Merged-chr8-39955681-3	chr8	39955582	39955782	+	903.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6C|LTR|ERVK	-313004.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	11.0	6.5	35.0	464.0	3.0	1.0	1.5	0.5
Merged-chr12-84276537-3	chr12	84276450	84276650	+	707.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-8746.0	NM_029880	77219.0	Mm.246127	NM_029880	ENSMUSG00000072946	Ptgr2	1810016I24Rik|9130222H03Rik|9630002F03Rik|AI838763|B830026H24Rik|PGR-2|PRG-2|Zadh1	prostaglandin reductase 2	protein-coding	6.0	6.5	4.5	78.0	13.0	2.0	1.5	22.0
Merged-chr13-100203575-4	chr13	100203456	100203656	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1434.0	NM_010872	17948.0	Mm.89961	NM_010872	ENSMUSG00000078945	Naip2	Birc1b|Naip-rs6	NLR family, apoptosis inhibitory protein 2	protein-coding	23.0	61.5	29.0	240.5	82.0	57.5	23.0	32.0
Merged-chr1-91092617-4	chr1	91092505	91092705	+	989.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 9 of 22)	intron (NM_008515, intron 9 of 22)	39161.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	13.0	32.0	29.0	436.5	70.0	18.0	27.0	17.0
Merged-chr10-9677131-4	chr10	9677031	9677231	+	967.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1923.0	NM_177271	320825.0	Mm.101115	NM_177271	ENSMUSG00000060487	Samd5	E130306M17Rik	sterile alpha motif domain containing 5	protein-coding	24.5	31.0	16.0	434.0	46.0	15.5	10.0	17.0
Merged-chr4-137373896-4	chr4	137373797	137373997	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16138.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	22.0	23.5	20.0	213.5	58.5	12.0	34.5	30.5
Merged-chr17-64559238-3	chr17	64559135	64559335	+	701.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3645.0	NR_045899	100043582.0	Mm.11170	NR_045899	ENSMUSG00000073377	AU016765	-	expressed sequence AU016765	ncRNA	3.5	7.0	14.0	70.0	21.0	5.5	5.0	13.5
Merged-chr9-90014851-4	chr9	90014780	90014980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357743, intron 23 of 26)	intron (NM_001357743, intron 23 of 26)	-39387.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	30.0	34.0	26.5	678.0	86.0	18.0	45.0	32.0
Merged-chr11-78712797-4	chr11	78712699	78712899	+	945.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-15374.0	NM_008702	18099.0	Mm.9001	NM_008702	ENSMUSG00000017376	Nlk	AI194375	nemo like kinase	protein-coding	6.5	29.0	8.0	239.0	43.5	13.0	25.0	24.0
Merged-chr9-56207317-4	chr9	56207225	56207425	+	906.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172924, exon 7 of 7)	exon (NM_172924, exon 7 of 7)	-46255.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	6.5	18.5	13.0	212.5	31.0	10.0	14.5	9.0
Merged-chr1-36927790-4	chr1	36927690	36927890	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	intron (NM_018872, intron 1 of 40)	11737.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	34.0	57.5	45.0	487.0	68.5	21.5	26.5	17.5
Merged-chr12-111443324-2	chr12	111443224	111443424	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009396, intron 1 of 11)	intron (NM_009396, intron 1 of 11)	663.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	26.0	110.0	42.0	319.5	160.5	82.5	41.0	35.0
Merged-chr6-89050770-4	chr6	89050664	89050864	+	921.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-45346.0	NR_134978	232217.0	Mm.281744	NM_175017	ENSMUSG00000055403	4933427D06Rik	-	RIKEN cDNA 4933427D06 gene	ncRNA	45.5	37.5	63.5	623.5	31.5	10.0	13.5	12.0
Merged-chr17-37028872-4	chr17	37028762	37028962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5464.0	NM_010814	17441.0	Mm.210857	NM_010814	ENSMUSG00000076439	Mog	B230317G11Rik	myelin oligodendrocyte glycoprotein	protein-coding	105.5	141.0	165.0	1575.5	229.0	103.0	123.5	126.0
Merged-chr1-167342029-4	chr1	167341908	167342108	+	943.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7983.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	31.5	28.5	17.5	407.5	28.0	11.0	15.5	17.0
Merged-chr16-31757838-4	chr16	31757754	31757954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252436, intron 1 of 22)	intron (NM_001252436, intron 1 of 22)	3504.0	NM_001252436	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	39.0	65.0	30.0	378.0	88.0	31.0	23.5	24.5
Merged-chr10-10462611-1	chr10	10462511	10462711	+	1000.0	f0_c57.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	9703.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	0.0	4.5	2.0	50.0	55.0	15.5	10.5	7.5
Merged-chr5-135568746-4	chr5	135568709	135568909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	4240.0	NM_019577	56221.0	Mm.31505	NM_019577	ENSMUSG00000004814	Ccl24	CKb-6|MPIF-2|Scya24	chemokine (C-C motif) ligand 24	protein-coding	61.5	55.0	73.0	718.5	115.0	29.5	40.0	36.5
Merged-chr11-102424911-4	chr11	102424804	102425004	+	983.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5418.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	34.5	29.0	10.0	295.5	76.0	31.0	19.0	41.5
Merged-chr4-66826503-4	chr4	66826387	66826587	+	857.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1064.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	16.5	18.5	4.5	202.5	37.0	8.5	12.0	10.5
Merged-chr4-107989146-4	chr4	107989050	107989250	+	956.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146255, intron 2 of 10)	intron (NM_146255, intron 2 of 10)	20816.0	NM_146255	242607.0	Mm.192040	NM_146255	ENSMUSG00000008932	Slc1a7	A930031E15Rik|Eaat5	solute carrier family 1 (glutamate transporter), member 7	protein-coding	24.0	39.0	29.0	416.0	35.0	11.5	14.0	22.5
Merged-chr6-54008973-4	chr6	54008899	54009099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110484, intron 2 of 3)	intron (NR_110484, intron 2 of 3)	30308.0	NR_110484	320178.0	Mm.320413	NR_110484	ENSMUSG00000108060	4921529L05Rik	4930590G02Rik	RIKEN cDNA 4921529L05 gene	ncRNA	25.5	31.0	36.5	478.0	108.5	35.0	54.5	36.5
Merged-chr15-88490462-4	chr15	88490356	88490556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109846.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	88.5	100.0	62.0	1257.5	197.5	78.5	92.5	74.5
Merged-chr10-19559941-4	chr10	19559848	19560048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32001.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	48.0	97.5	78.5	779.0	140.0	46.5	46.5	28.5
Merged-chr18-12128641-4	chr18	12128518	12128718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024182)	promoter-TSS (NM_024182)	-232.0	NM_024182	66878.0	Mm.28551	NM_024182	ENSMUSG00000024404	Riok3	1200013N13Rik|D18Ertd331e|E130306C24Rik|Sudd	RIO kinase 3	protein-coding	156.0	254.0	147.0	2339.5	308.5	107.5	151.5	117.5
Merged-chr17-13306130-2	chr17	13306030	13306230	+	626.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CTGTG)n|Simple_repeat|Simple_repeat	-48442.0	NM_001167578	100041352.0	Mm.432087	NM_001167578	ENSMUSG00000052469	Tcp10c	D17Leh66C|D17Leh66ca|Gm9880|T66C-a|Tcp-10c	t-complex protein 10c	protein-coding	1.5	1.0	1.5	57.0	8.5	5.0	11.0	11.5
Merged-chr7-45935287-4	chr7	45935233	45935433	+	879.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033243, intron 2 of 12)	intron (NM_001033243, intron 2 of 12)	6935.0	NM_001033243	211535.0	Mm.227539	NM_001033243	ENSMUSG00000040189	Ccdc114	-	coiled-coil domain containing 114	protein-coding	6.5	9.5	16.5	102.0	25.5	1.5	13.5	5.5
Merged-chr1-17608124-2	chr1	17608024	17608224	+	602.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_053191, intron 2 of 5)	intron (NM_053191, intron 2 of 5)	6223.0	NM_053191	94227.0	Mm.442452	NM_053191	ENSMUSG00000067780	Pi15	P24TI|P25TI|PI-15|SugarCrisp	peptidase inhibitor 15	protein-coding	5.0	5.5	7.0	42.5	8.5	6.0	3.5	3.5
Merged-chr7-95830077-4	chr7	95829971	95830171	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-341173.0	NM_001310762	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	27.0	29.0	54.0	913.0	30.5	8.0	20.0	5.5
Merged-chr14-55745686-4	chr14	55745585	55745785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026403)	promoter-TSS (NM_026403)	-1.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	90.0	115.0	49.0	1048.0	225.0	91.5	79.5	100.0
Merged-chr5-123749563-4	chr5	123749464	123749664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042421)	promoter-TSS (NM_001042421)	-150.0	NM_001359865	208606.0	Mm.276341	NM_025438	ENSMUSG00000029422	Rsrc2	1500011J06Rik	arginine/serine-rich coiled-coil 2	protein-coding	154.5	258.0	117.0	1491.0	391.0	154.0	119.0	130.0
Merged-chr11-79088506-1	chr11	79088406	79088606	+	1000.0	f0_c57.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	-28670.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	18.0	12.0	35.0	279.5	36.0	10.5	20.0	23.5
Merged-chr14-47000596-4	chr14	47000507	47000707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163433)	promoter-TSS (NM_001163433)	-733.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	51.5	86.5	61.5	807.0	143.5	63.5	50.5	54.5
Merged-chr5-134558322-3	chr5	134558223	134558423	+	884.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013751, exon 1 of 1)	exon (NM_001013751, exon 1 of 1)	1848.0	NM_001013751	214292.0	Mm.425290	NM_001013751	ENSMUSG00000085957	Syna	Gm453|Gm52|syncytin-A	syncytin a	protein-coding	9.5	8.0	7.0	109.5	11.5	3.0	5.5	7.5
Merged-chr10-67200429-4	chr10	67200309	67200509	+	932.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 3 of 25)	intron (NM_207221, intron 3 of 25)	14659.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	18.5	20.0	18.0	178.5	30.0	13.0	15.5	5.5
Merged-chr7-127968351-4	chr7	127968251	127968451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139149, intron 1 of 14)	intron (NM_139149, intron 1 of 14)	872.0	NM_139149	233908.0	Mm.277680	NM_139149	ENSMUSG00000030795	Fus	D430004D17Rik|D930039C12Rik|Fus1|Tls	fused in sarcoma	protein-coding	18.5	37.5	27.5	223.0	71.5	16.0	24.0	29.5
Merged-chr7-46881195-3	chr7	46881094	46881294	+	725.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19931.0	NM_013580	16833.0	Mm.16563	NM_013580	ENSMUSG00000030851	Ldhc	LDH-C4|Ldh-3|Ldh-x|Ldh3|Ldhc4	lactate dehydrogenase C	protein-coding	8.5	14.5	3.0	176.5	17.5	10.0	4.5	7.0
Merged-chr16-17921998-4	chr16	17921928	17922128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	6191.0	NM_153150	13358.0	Mm.229291	NM_153150	ENSMUSG00000003528	Slc25a1	1300019P08Rik|2610100G11Rik|AI194714|Ctp|Dgsj|Slc20a3	solute carrier family 25 (mitochondrial carrier, citrate transporter), member 1	protein-coding	129.0	228.5	148.0	1630.0	358.5	124.0	174.5	130.5
Merged-chr11-120957959-4	chr11	120957853	120958053	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030696, exon 6 of 6)	exon (NM_030696, exon 6 of 6)	8886.0	NM_001038654	80879.0	Mm.28632	NM_030696	ENSMUSG00000025161	Slc16a3	Mct3|Mct4	solute carrier family 16 (monocarboxylic acid transporters), member 3	protein-coding	17.5	27.5	14.5	308.5	42.5	21.0	18.5	26.0
Merged-chr15-103455184-3	chr15	103455095	103455295	+	844.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153505, intron 2 of 30)	intron (NM_153505, intron 2 of 30)	1370.0	NM_153505	105855.0	Mm.30805	NM_153505	ENSMUSG00000022488	Nckap1l	4930568P13Rik|AI463083|Hem1|Hemp1	NCK associated protein 1 like	protein-coding	10.0	6.0	5.5	95.0	8.5	0.0	2.0	2.0
Merged-chr10-119065657-4	chr10	119065588	119065788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15189.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	167.5	171.5	148.5	2218.0	533.0	191.0	239.0	210.0
Merged-chr15-83564351-4	chr15	83564259	83564459	+	834.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009775, intron 1 of 3)	intron (NM_009775, intron 1 of 3)	786.0	NM_009775	12257.0	Mm.1508	NM_009775	ENSMUSG00000041736	Tspo	Bzrp|IBP|PBR|Tspo1	translocator protein	protein-coding	7.5	17.5	11.0	91.5	28.0	9.0	6.5	8.5
Merged-chr8-106697227-3	chr8	106697088	106697288	+	818.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173037, intron 5 of 17)	MTD|LTR|ERVL-MaLR	14120.0	NM_173037	272538.0	Mm.87151	NM_173037	ENSMUSG00000041949	Tango6	AW413431|E330010G16|Tmco7	transport and golgi organization 6	protein-coding	7.0	7.0	6.0	58.0	10.0	4.5	5.0	7.5
Merged-chr15-66708739-4	chr15	66708621	66708821	+	967.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 22 of 47)	MIRc|SINE|MIR	37951.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	17.5	16.5	19.0	308.0	50.0	15.5	19.0	19.5
Merged-chr5-66114320-4	chr5	66114200	66114400	+	941.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-16121.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	10.0	20.0	13.5	250.0	55.0	13.0	13.5	23.0
Merged-chr13-119488981-2	chr13	119488881	119489081	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027974)	promoter-TSS (NR_027974)	121.0	NM_001177666	633640.0	Mm.46679	NM_001039244	ENSMUSG00000074634	Tmem267	EG633640|Gm7120	transmembrane protein 267	protein-coding	16.0	25.5	16.5	467.5	60.5	18.0	20.5	27.5
Merged-chr9-66082175-4	chr9	66082059	66082259	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12428.0	NM_001025612	382083.0	Mm.477103	NM_001025612	ENSMUSG00000039452	Snx22	Gm1120	sorting nexin 22	protein-coding	17.0	74.0	28.0	517.0	117.0	35.0	45.0	42.0
Merged-chr10-53927685-1	chr10	53927585	53927785	+	1000.0	f0_balb.idr	intron (NM_008548, intron 8 of 12)	MTD|LTR|ERVL-MaLR	148111.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	36.0	68.5	39.5	722.5	35.0	11.5	16.0	18.5
Merged-chr17-57335872-4	chr17	57335782	57335982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22804.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	27.5	48.5	22.5	344.0	103.5	38.5	32.5	35.5
Merged-chr9-21235518-4	chr9	21235420	21235620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110307, intron 2 of 5)	intron (NM_001110307, intron 2 of 5)	3812.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	42.0	60.5	39.0	523.0	154.5	41.5	41.5	35.0
Merged-chr3-52269169-3	chr3	52269077	52269277	+	949.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019739, exon 1 of 3)	exon (NM_019739, exon 1 of 3)	840.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	17.0	11.5	21.5	235.0	62.0	13.0	25.5	22.0
Merged-chr8-46791350-3	chr8	46791239	46791439	+	650.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	51594.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	10.0	13.0	5.0	147.0	21.5	2.5	5.5	4.0
Merged-chr17-36083599-3	chr17	36083501	36083701	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008199, intron 2 of 5)	CpG-6344	648.0	NM_008199	14963.0	Mm.477808	NM_008199	ENSMUSG00000073406	H2-Bl	H2-B1|H2-Bl-like	histocompatibility 2, blastocyst	protein-coding	0.0	0.0	0.5	0.5	99.0	41.5	32.0	30.5
Merged-chr5-129501244-4	chr5	129501059	129501259	+	860.78125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172276)	promoter-TSS (NM_172276)	-72.0	NM_001359952	231769.0	Mm.288714	NM_172276	ENSMUSG00000029439	Sfswap	1190005N23Rik|6330437E22Rik|AI197402|AW212079|SWAP|Sfrs8|Srsf8	splicing factor SWAP	protein-coding	2.5	11.0	7.5	109.0	10.0	11.0	8.5	15.5
Merged-chr19-45813427-3	chr19	45813311	45813511	+	604.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145703, intron 1 of 9)	intron (NM_145703, intron 1 of 9)	-1120.0	NM_001276358	80906.0	Mm.213204	NM_030716	ENSMUSG00000025221	Kcnip2	KChIP2	Kv channel-interacting protein 2	protein-coding	13.0	11.0	3.0	80.0	27.5	5.0	5.5	4.5
Merged-chr2-127831929-4	chr2	127831834	127832034	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113179)	promoter-TSS (NM_001113179)	-75.0	NM_009772	12235.0	Mm.2185	NM_009772	ENSMUSG00000027379	Bub1	AL022991|Bub1a|C80208|D2Xrf87	BUB1, mitotic checkpoint serine/threonine kinase	protein-coding	22.0	18.5	8.0	272.0	66.0	17.5	26.5	27.0
Merged-chr7-143829579-4	chr7	143829453	143829653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007856, intron 1 of 8)	intron (NM_007856, intron 1 of 8)	6386.0	NM_007856	13360.0	Mm.249342	NM_007856	ENSMUSG00000058454	Dhcr7	AA409147	7-dehydrocholesterol reductase	protein-coding	48.5	57.0	38.5	462.0	92.5	34.5	36.0	44.0
Merged-chr1-92061874-4	chr1	92061776	92061976	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 2 of 26)	intron (NM_207225, intron 2 of 26)	118465.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	13.5	29.5	31.5	438.0	61.5	10.0	36.0	34.5
Merged-chr17-3557739-6	chr17	3557476	3557676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045302)	promoter-TSS (NR_045302)	137.0	NM_146074	224481.0	Mm.226554	NM_146074	ENSMUSG00000036983	Tfb1m	AI429207	transcription factor B1, mitochondrial	protein-coding	98.5	98.5	140.5	1131.0	179.0	86.5	91.0	100.0
Merged-chr3-61397002-4	chr3	61396903	61397103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32496.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	55.5	71.0	47.5	993.5	157.0	49.0	49.0	53.0
Merged-chr8-68837855-3	chr8	68837744	68837944	+	911.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42711.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	1.5	0.0	0.0	4.0	58.0	26.0	30.0	24.0
Merged-chr2-69613497-4	chr2	69613397	69613597	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27430.0	NM_001081088	14725.0	Mm.23847	NM_001081088	ENSMUSG00000027070	Lrp2	AI315343|AW536255|D230004K18Rik|Gp330|Megalin|b2b1625.2Clo	low density lipoprotein receptor-related protein 2	protein-coding	30.5	50.5	51.0	429.5	98.5	38.5	35.0	23.5
Merged-chr13-41433350-3	chr13	41433261	41433461	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	53999.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	16.5	35.0	23.0	419.0	11.0	4.0	6.0	4.5
Merged-chr16-70394522-4	chr16	70394433	70394633	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 2 of 15)	intron (NM_028803, intron 2 of 15)	80584.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	18.0	20.0	27.5	507.5	176.5	36.5	107.5	85.5
Merged-chr7-101378573-2	chr7	101378473	101378673	+	965.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	451.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	6.0	10.0	6.0	20.0	10.5	2.5	3.0	4.5
Merged-chr8-111370013-2	chr8	111369917	111370117	+	778.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178086, intron 1 of 6)	intron (NM_178086, intron 1 of 6)	23804.0	NM_178086	338521.0	Mm.41083	NM_178086	ENSMUSG00000033579	Fa2h	FAAH|Faxdc1|G630055L08Rik	fatty acid 2-hydroxylase	protein-coding	5.0	3.0	6.0	23.5	11.0	6.5	4.5	7.5
Merged-chr14-74908486-4	chr14	74908401	74908601	+	964.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	39376.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	17.5	23.5	24.5	248.5	38.5	13.0	13.0	17.0
Merged-chr12-111458780-4	chr12	111458679	111458879	+	885.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16118.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	12.0	9.0	4.5	146.0	24.0	5.5	11.5	14.0
Merged-chr4-137468620-4	chr4	137468506	137468706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008305)	promoter-TSS (NM_008305)	-197.0	NM_008305	15530.0	Mm.273662	NM_008305	ENSMUSG00000028763	Hspg2	AI852380|Pcn|Plc|per	perlecan (heparan sulfate proteoglycan 2)	protein-coding	92.0	116.5	56.0	904.5	197.5	54.0	53.0	72.0
Merged-chr14-27388566-4	chr14	27388462	27388662	+	951.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 7 of 10)	intron (NM_027871, intron 7 of 10)	27173.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	13.0	14.0	35.5	480.0	51.5	12.5	26.0	17.0
Merged-chr19-44384650-4	chr19	44384555	44384755	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	23054.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	11.5	33.5	26.0	274.5	40.5	10.5	14.5	7.5
Merged-chr15-72972005-4	chr15	72971896	72972096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029640, intron 8 of 21)	ORR1D2|LTR|ERVL-MaLR	83816.0	NM_029640	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	59.0	65.5	73.5	1122.5	156.0	41.5	55.5	51.5
Merged-chr10-37137153-4	chr10	37137061	37137261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008538, intron 1 of 1)	CpG	1765.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	120.0	213.5	123.5	2064.0	371.0	143.0	180.0	112.0
Merged-chr16-94574149-4	chr16	94574058	94574258	+	989.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	3251.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	13.0	54.0	24.5	208.5	50.5	23.0	30.0	31.0
Merged-chr17-87985040-4	chr17	87984940	87985140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010830, exon 4 of 10)	exon (NM_010830, exon 4 of 10)	9990.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	125.5	213.5	118.0	1463.0	308.5	113.5	169.5	104.5
Merged-chr19-37135671-4	chr19	37135594	37135794	+	818.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290829, intron 3 of 9)	(T)n|Simple_repeat|Simple_repeat	-38149.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	14.5	14.5	6.0	53.0	34.0	2.5	6.0	13.5
Merged-chr19-55585500-5	chr19	55585416	55585616	+	819.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	116688.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	5.0	7.5	15.5	163.0	21.0	7.5	8.5	3.5
Merged-chr3-55353535-6	chr3	55353425	55353625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 3 of 16)	intron (NM_001357475, intron 3 of 16)	-108203.0	NM_001195539	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	26.5	41.0	41.5	525.0	68.5	32.5	35.0	39.5
Merged-chr5-127608738-4	chr5	127608635	127608835	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 2 of 7)	intron (NM_133895, intron 2 of 7)	8657.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	15.5	18.5	22.0	227.5	38.0	9.0	13.0	20.0
Merged-chr10-7142472-4	chr10	7142371	7142571	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 5 of 12)	intron (NM_172546, intron 5 of 12)	69766.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	28.5	37.0	42.5	449.5	55.5	18.5	16.5	21.5
Merged-chr2-173000977-4	chr2	173000872	173001072	+	857.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175112, intron 1 of 11)	intron (NM_175112, intron 1 of 11)	855.0	NM_175112	66679.0	Mm.4113	NM_175112	ENSMUSG00000027509	Rae1	3230401I12Rik|D2Ertd342e|MNRP|MNRP41	ribonucleic acid export 1	protein-coding	15.5	21.5	11.0	230.0	21.0	3.5	12.5	11.5
Merged-chr2-67378768-1	chr2	67378668	67378868	+	601.5	f0_balb.idr	Intergenic	Intergenic	-67234.0	NM_001083919	241431.0	Mm.261043	NM_001024618	ENSMUSG00000027022	Xirp2	2310003D02Rik|2310008C07Rik|A530024P18Rik|AI452089|Cmya3|Gm352|Xin2	xin actin-binding repeat containing 2	protein-coding	6.5	10.5	7.5	139.0	4.0	3.5	3.5	1.5
Merged-chr17-74432770-4	chr17	74432654	74432854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 8 of 8)	MLT1A0|LTR|ERVL-MaLR	26354.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	60.5	60.0	82.5	1387.5	121.0	31.5	57.0	49.5
Merged-chr13-112674225-3	chr13	112674120	112674320	+	903.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 2 of 14)	intron (NM_178746, intron 2 of 14)	13454.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	4.0	4.0	6.0	116.5	44.5	14.0	13.5	15.5
Merged-chr19-53325837-4	chr19	53325771	53325971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	intron (NM_001360348, intron 1 of 5)	-3542.0	NM_010847	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	9.5	21.5	37.5	450.0	55.0	24.5	31.5	17.0
Merged-chr10-7269421-3	chr10	7269326	7269526	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57189.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	7.5	7.5	6.0	133.5	8.5	0.0	1.5	4.0
Merged-chr5-143490169-4	chr5	143490078	143490278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 9 of 14)	intron (NM_144915, intron 9 of 14)	25685.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	44.5	35.0	37.0	826.0	81.0	25.5	30.5	48.0
Merged-chr1-180987973-4	chr1	180987881	180988081	+	797.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29588.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	5.5	10.5	2.0	53.0	23.5	8.5	9.0	13.5
Merged-chr2-168563408-4	chr2	168563288	168563488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	intron (NM_001037177, intron 3 of 6)	26977.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	41.5	75.5	31.5	756.5	58.5	21.0	30.5	31.0
Merged-chr7-28381189-4	chr7	28381112	28381312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1984.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	373.0	572.0	383.5	5622.5	918.5	360.5	501.5	377.0
Merged-chr13-69534109-4	chr13	69534003	69534203	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001169131)	promoter-TSS (NM_001169131)	-239.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	23.0	36.0	39.0	416.0	52.0	10.5	20.5	16.5
Merged-chr5-117884969-2	chr5	117884869	117885069	+	764.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	intron (NM_008712, intron 2 of 27)	18130.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	13.0	11.5	14.5	89.0	19.5	8.5	6.5	8.5
Merged-chr19-60805074-3	chr19	60804961	60805161	+	758.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-6494.0	NM_001360619	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	5.0	13.5	7.5	133.5	9.5	3.0	10.5	6.0
Merged-chr12-98737528-3	chr12	98737382	98737582	+	731.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146199)	promoter-TSS (NM_001146199)	-77.0	NM_001146199	24000.0	Mm.4420	NM_011877	ENSMUSG00000021009	Ptpn21	PTPD1|PTPRL10	protein tyrosine phosphatase, non-receptor type 21	protein-coding	11.0	9.0	19.0	107.5	11.5	1.5	8.5	9.0
Merged-chr8-120437457-4	chr8	120437353	120437553	+	917.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51413.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	11.0	37.5	12.5	216.5	57.0	10.5	14.0	19.0
Merged-chr6-55016310-4	chr6	55016190	55016390	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-21711.0	NM_180678	353172.0	Mm.250004	NM_180678	ENSMUSG00000029777	Gars	GENA202|Gena201|Nmf249|Sgrp23	glycyl-tRNA synthetase	protein-coding	23.0	21.0	35.5	494.0	30.0	19.0	16.5	14.0
Merged-chr1-60042902-4	chr1	60042780	60042980	+	817.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027407, exon 1 of 11)	5' UTR (NM_027407, exon 1 of 11)	242.0	NM_001357296	70375.0	Mm.17834	NM_027407	ENSMUSG00000026018	Ica1l	1700030B17Rik|Als2cr15|b2b3465Clo	islet cell autoantigen 1-like	protein-coding	9.0	7.0	4.5	133.5	18.5	8.0	13.0	9.5
Merged-chr10-99130815-4	chr10	99130704	99130904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 4 of 12)	intron (NR_153333, intron 4 of 12)	22669.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	88.0	90.0	79.5	1669.0	123.0	27.0	82.5	76.5
Merged-chr11-54729534-4	chr11	54729446	54729646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 3 of 5)	ORR1C1|LTR|ERVL-MaLR	58157.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	43.5	105.0	46.0	676.0	117.0	44.0	45.0	59.0
Merged-chr7-127615186-4	chr7	127615099	127615299	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177226)	promoter-TSS (NM_177226)	73.0	NR_155450	320683.0	Mm.156718	NM_177226	ENSMUSG00000045639	Zfp629	9330199A09Rik|Znf629	zinc finger protein 629	protein-coding	13.0	15.0	19.0	134.5	43.5	14.0	19.5	21.0
Merged-chr14-16379518-4	chr14	16379416	16379616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009409, intron 1 of 35)	L1M4|LINE|L1	14310.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	24.0	30.5	32.0	382.5	67.0	29.0	21.5	39.0
Merged-chr6-86849805-2	chr6	86849705	86849905	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028298)	promoter-TSS (NR_028298)	288.0	NM_001040106	269774.0	Mm.221038	NM_177762	ENSMUSG00000057230	Aak1	5530400K14Rik|9630042K20|AU067724|AU067726|BC028270|C79663|D6Ertd245e|R75501|mKIAA1048	AP2 associated kinase 1	protein-coding	4.0	9.5	11.0	96.5	26.5	8.0	7.0	13.0
Merged-chr9-7868992-4	chr9	7868872	7869072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	intron (NM_007464, intron 1 of 8)	4198.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	28.5	64.0	27.0	436.5	111.5	50.0	37.0	49.0
Merged-chr19-5811301-5	chr19	5811295	5811495	+	717.450012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8723.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	4.0	4.0	8.0	87.0	6.0	5.0	4.5	15.5
Merged-chr17-5591788-4	chr17	5591692	5591892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	99192.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	288.0	207.5	364.0	4350.5	501.5	163.5	313.0	227.0
Merged-chr11-117779598-4	chr11	117779494	117779694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_154387)	promoter-TSS (NR_154387)	54.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	119.0	211.0	164.5	1821.5	277.0	88.5	119.0	149.0
Merged-chr12-4450671-2	chr12	4450571	4450771	+	715.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010881, intron 1 of 22)	MLTR14|LTR|ERV1	26511.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	2.0	5.5	3.5	114.0	12.5	6.0	8.5	5.0
Merged-chr12-82223635-4	chr12	82223534	82223734	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 1 of 23)	intron (NM_001167983, intron 1 of 23)	53618.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	23.5	24.5	16.5	355.0	35.5	15.5	25.0	22.5
Merged-chr10-41953809-2	chr10	41953709	41953909	+	638.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 10 of 17)	intron (NM_001034858, intron 10 of 17)	64573.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	8.5	5.5	6.0	50.0	16.5	4.0	1.5	6.5
Merged-chr13-81025504-4	chr13	81025352	81025552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	IAPEY3-int|LTR|ERVK	61378.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	81.5	81.0	70.0	136.5	96.0	47.0	52.0	40.5
Merged-chr5-107869160-4	chr5	107869061	107869261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 1 of 17)	CpG	5946.0	NM_007964	14020.0	Mm.35796	NM_007964	ENSMUSG00000011831	Evi5	NB4S	ecotropic viral integration site 5	protein-coding	70.5	78.5	71.0	1107.0	169.0	70.0	85.5	75.5
Merged-chr13-93013174-4	chr13	93013076	93013276	+	835.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60128.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	1.5	6.0	12.0	166.5	28.5	10.0	8.0	15.5
Merged-chr11-80780094-4	chr11	80779987	80780187	+	902.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177390)	promoter-TSS (NM_177390)	-62.0	NM_177390	338367.0	Mm.151948	NM_177390	ENSMUSG00000035441	Myo1d	9930104H07Rik|AW544947|D11Ertd9e|myosin-1d	myosin ID	protein-coding	13.0	21.0	13.5	230.5	20.0	9.5	14.5	13.5
Merged-chr17-56337425-4	chr17	56337320	56337520	+	778.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172132, intron 1 of 22)	intron (NM_172132, intron 1 of 22)	11370.0	NM_001357909	193796.0	Mm.45047	NM_172132	ENSMUSG00000024201	Kdm4b	4732474L06Rik|Jmjd2b	lysine (K)-specific demethylase 4B	protein-coding	10.5	15.5	8.0	140.5	41.5	7.0	5.5	13.5
Merged-chr16-91841628-4	chr16	91841535	91841735	+	960.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 19 of 28)	intron (NM_001110275, intron 19 of 28)	89995.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	22.5	31.0	24.5	353.0	47.5	15.0	26.0	14.0
Merged-chr14-8255582-3	chr14	8255482	8255682	+	921.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053115, intron 4 of 14)	MER91B|DNA|hAT-Tip100	3257.0	NM_001161667	93732.0	Mm.28700	NM_053115	ENSMUSG00000021751	Acox2	THCCox	acyl-Coenzyme A oxidase 2, branched chain	protein-coding	12.0	17.0	6.0	131.5	17.0	10.5	2.0	4.5
Merged-chr15-33359243-2	chr15	33359143	33359343	+	601.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 4 of 7)	Lx6|LINE|L1	46696.0	NR_033608	73486.0	Mm.483393	NM_028551	ENSMUSG00000058101	1700084J12Rik	-	ribosomal protein L7-like 1 pseudogene	pseudo	5.5	7.0	8.0	118.5	7.5	5.5	2.0	4.5
Merged-chr11-46276915-2	chr11	46276815	46277015	+	663.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 7 of 30)	intron (NM_001252459, intron 7 of 30)	35443.0	NM_001252460	76884.0	Mm.154358	NM_133769	ENSMUSG00000020340	Cyfip2	1500004I01Rik|6430511D02Rik|AA930218|AU022376|Pir121|mKIAA1168	cytoplasmic FMR1 interacting protein 2	protein-coding	7.5	0.5	1.0	40.5	13.5	5.5	6.5	6.0
Merged-chr5-53326325-2	chr5	53326225	53326425	+	718.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59219.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	3.0	10.5	5.0	76.5	13.5	6.0	4.5	6.0
Merged-chr15-58145435-4	chr15	58145260	58145460	+	764.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029734, intron 1 of 5)	intron (NM_029734, intron 1 of 5)	3994.0	NM_001326599	76773.0	Mm.26771	NM_029734	ENSMUSG00000022359	Wdyhv1	2410187C16Rik|AU014961|AW550036|Ntaq1	WDYHV motif containing 1	protein-coding	10.5	13.0	1.0	124.5	18.0	12.5	9.0	8.5
Merged-chr13-59002369-4	chr13	59002267	59002467	+	857.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	194670.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	12.0	13.0	11.0	222.0	23.0	5.0	10.5	10.5
Merged-chr14-78631104-3	chr14	78631011	78631211	+	916.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104044, intron 1 of 27)	B1F|SINE|Alu	-1821.0	NM_001281794	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	19.0	18.5	13.5	174.5	15.0	4.0	5.5	7.5
Merged-chr12-110889812-4	chr12	110889700	110889900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027223)	promoter-TSS (NM_027223)	536.0	NM_001081057	104859.0	Mm.35583	NM_175336	ENSMUSG00000021275	Tecpr2	4930573I19Rik|AI604920|mKIAA0297	tectonin beta-propeller repeat containing 2	protein-coding	61.0	72.0	71.0	1034.0	127.5	47.5	63.5	64.5
Merged-chr6-90490150-1	chr6	90490050	90490250	+	582.5	f0_balb.idr	Intergenic	Intergenic	27574.0	NM_023184	66277.0	Mm.38343	NM_023184	ENSMUSG00000030087	Klf15	1810013I09Rik|AV048136|AW494632|CKLF|KKLF	Kruppel-like factor 15	protein-coding	9.0	5.5	8.5	80.5	10.0	2.5	5.0	8.0
Merged-chr17-17601122-4	chr17	17601009	17601209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	B1F|SINE|Alu	23380.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	37.5	32.5	16.5	382.5	91.0	16.0	47.0	22.5
Merged-chr4-134478204-4	chr4	134478053	134478253	+	918.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER102c|DNA|hAT-Charlie	9833.0	NM_019641	16765.0	Mm.378957	NM_019641	ENSMUSG00000028832	Stmn1	19k|Lag|Lap18|Op18|P18|P19|Pig|Pp17|Pp18|Pp19|Pr22|Smn	stathmin 1	protein-coding	3.5	17.5	6.0	138.0	26.5	13.5	18.5	10.0
Merged-chr4-129504808-3	chr4	129504703	129504903	+	726.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8778.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	15.0	38.0	3.0	83.0	28.0	9.5	11.0	8.5
Merged-chr11-98031617-3	chr11	98031490	98031690	+	808.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4666.0	NM_009078	19921.0	Mm.10247	NM_009078	ENSMUSG00000017404	Rpl19	-	ribosomal protein L19	protein-coding	7.5	7.5	4.5	108.0	14.5	8.5	4.0	6.5
Merged-chr19-21948236-2	chr19	21948154	21948354	+	836.599976	f0_c57.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	169914.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	2.0	2.0	4.0	11.0	63.5	15.0	11.0	5.0
Merged-chr19-10690593-4	chr19	10690487	10690687	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	intron (NM_001361958, intron 1 of 4)	1852.0	NM_001361959	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	42.0	75.0	29.0	197.0	123.5	50.5	36.5	24.0
Merged-chr1-51476260-2	chr1	51476160	51476360	+	776.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_028696, intron 2 of 5)	intron (NM_028696, intron 2 of 5)	2139.0	NM_001310548	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	9.0	20.0	9.5	89.5	21.5	15.0	6.5	8.0
Merged-chr4-154981923-3	chr4	154981824	154982024	+	897.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001305804)	TTS (NM_001305804)	17801.0	NR_131230	269614.0	Mm.30042	NM_172990	ENSMUSG00000029056	Pank4	D030031I12Rik|R75150	pantothenate kinase 4	protein-coding	8.5	10.5	2.0	64.5	51.0	11.5	11.5	18.0
Merged-chr12-111166930-2	chr12	111166830	111167030	+	987.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286122, intron 1 of 9)	CpG	560.0	NM_011632	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	6.5	10.5	14.5	50.5	35.0	8.0	6.0	12.5
Merged-chr10-94417886-4	chr10	94417793	94417993	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	-96964.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	24.5	28.0	16.5	334.5	21.5	13.0	8.5	13.5
Merged-chr14-64070133-2	chr14	64070033	64070233	+	768.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15277.0	NM_001081063	71037.0	Mm.19977	NM_001081063	ENSMUSG00000034623	Prss55	4933401F05Rik	protease, serine 55	protein-coding	8.0	5.0	9.5	57.0	5.0	6.0	4.5	7.0
Merged-chr18-53745144-4	chr18	53745048	53745248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178686)	promoter-TSS (NM_178686)	-601.0	NM_178686	225523.0	Mm.193678	NM_178686	ENSMUSG00000048799	Cep120	A230075C01|AU016693|Ccdc100	centrosomal protein 120	protein-coding	167.5	230.5	134.0	2089.0	424.0	178.5	202.0	193.0
Merged-chr2-70704629-4	chr2	70704588	70704788	+	979.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43179.0	NM_027352	70231.0	Mm.271950	NM_027352	ENSMUSG00000014959	Gorasp2	0610011A07Rik|2410043M02Rik|5730520M13Rik|9430094F20Rik|AW552058|GOLPH2|GRASP55|GRS2|p59	golgi reassembly stacking protein 2	protein-coding	10.5	12.0	14.5	36.0	34.5	10.0	12.5	20.0
Merged-chr5-145117049-4	chr5	145116957	145117157	+	947.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	intron (NM_023142, intron 1 of 9)	2801.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	12.0	26.5	7.0	123.5	49.5	8.0	22.0	16.0
Merged-chr4-136118646-4	chr4	136118540	136118740	+	896.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25182.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	15.0	22.5	7.5	161.5	32.5	12.5	8.0	2.5
Merged-chr10-40302271-4	chr10	40302157	40302357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007444)	promoter-TSS (NM_007444)	-69.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	216.0	237.0	147.5	2546.5	451.5	166.5	227.5	151.0
Merged-chr8-85557332-4	chr8	85557228	85557428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2057.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	19.5	30.0	25.0	355.0	111.5	34.0	32.5	42.0
Merged-chr11-118202680-6	chr11	118202629	118202829	+	889.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	10013.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	22.0	13.5	26.5	397.0	31.0	8.5	26.5	32.5
Merged-chr17-35025176-4	chr17	35024989	35025189	+	862.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023893)	TTS (NM_023893)	2927.0	NR_028258	78376.0	Mm.390966	NM_023893	ENSMUSG00000036185	Sapcd1	2810436B06Rik|G7d|Ng23	suppressor APC domain containing 1	protein-coding	3.5	3.5	1.5	27.5	13.0	4.5	6.5	7.5
Merged-chr3-31135643-3	chr3	31135457	31135657	+	716.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14363.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	7.0	3.0	4.0	66.5	14.0	5.0	5.0	6.5
Merged-chr11-32565356-4	chr11	32565255	32565455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	32089.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	203.5	291.5	291.5	3612.5	422.0	172.0	167.0	167.5
Merged-chr6-125041239-4	chr6	125041155	125041355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133345, intron 1 of 7)	intron (NM_133345, intron 1 of 7)	1407.0	NM_133345	28019.0	Mm.262547	NM_133345	ENSMUSG00000030330	Ing4	D6Wsu147e|D6Xrf92|p29ING4	inhibitor of growth family, member 4	protein-coding	78.0	146.0	67.5	1049.0	230.0	94.5	109.5	88.5
Merged-chr8-48016671-4	chr8	48016529	48016729	+	942.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26078.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	18.5	29.0	15.0	219.5	30.0	8.5	14.0	7.5
Merged-chr13-40968786-4	chr13	40968694	40968894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155347, intron 1 of 4)	LTR41|LTR|ERVL	-32216.0	NM_026550	68083.0	Mm.24789	NM_026550	ENSMUSG00000038683	Pak1ip1	5830431I15Rik|5930415H02Rik|AA419825|AI314040|AW556169|Gdpd1|PIP1	PAK1 interacting protein 1	protein-coding	184.0	327.0	226.5	2932.0	437.5	169.5	164.5	134.0
Merged-chr5-88791644-5	chr5	88791551	88791751	+	638.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26638.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	3.5	9.5	14.5	66.0	18.0	6.0	5.0	6.0
Merged-chr15-79934042-5	chr15	79933977	79934177	+	837.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1431.0	NM_144811	52609.0	Mm.323442	NM_144811	ENSMUSG00000053411	Cbx7	1600014J01Rik|AI851678|D15Ertd417e	chromobox 7	protein-coding	4.5	9.5	1.5	13.5	22.5	7.5	6.5	5.5
Merged-chr14-31183125-4	chr14	31183028	31183228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347583)	TTS (NM_001347583)	-14487.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	44.0	58.0	71.0	760.5	116.0	32.5	52.5	38.0
Merged-chr19-3706414-4	chr19	3706312	3706512	+	779.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1881.0	NM_001358256	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	15.0	10.0	5.0	64.0	27.5	7.0	9.5	2.0
Merged-chr14-73106535-4	chr14	73106441	73106641	+	830.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35969.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	13.5	9.0	8.5	105.0	58.0	16.5	6.0	12.5
Merged-chr10-13201075-4	chr10	13201004	13201204	+	895.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-7967.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	8.0	13.5	9.5	157.0	34.5	12.0	35.0	14.0
Merged-chr8-40965061-3	chr8	40964952	40965152	+	887.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026840, intron 2 of 5)	ORR1F|LTR|ERVL-MaLR	38819.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	4.5	0.0	0.5	7.5	44.0	10.5	17.5	23.0
Merged-chr1-45826358-4	chr1	45826242	45826442	+	863.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31176.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	11.0	14.0	11.0	330.0	39.5	7.5	9.0	16.0
Merged-chr9-106332930-3	chr9	106332831	106333031	+	970.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 10 of 10)	intron (NM_027354, intron 10 of 10)	-35701.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	0.5	3.0	0.0	8.0	65.5	26.5	46.5	41.0
Merged-chr14-122107052-4	chr14	122106976	122107176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015586)	promoter-TSS (NR_015586)	-6.0	NM_080556	68059.0	Mm.275191	NM_080556	ENSMUSG00000025544	Tm9sf2	1500001N15Rik|AA536814|D14Ertd64e|P76	transmembrane 9 superfamily member 2	protein-coding	237.5	343.5	246.5	3848.5	683.5	247.5	293.0	247.5
Merged-chr1-165643896-3	chr1	165643801	165644001	+	765.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9360.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	9.0	12.5	13.0	209.0	16.5	7.5	2.0	9.0
Merged-chr3-65957837-2	chr3	65957737	65957937	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_019937, exon 1 of 11)	exon (NM_019937, exon 1 of 11)	412.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	36.0	76.5	60.5	549.5	131.0	49.0	37.5	49.0
Merged-chr6-116468279-4	chr6	116468157	116468357	+	909.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7079.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	18.5	18.0	14.0	195.5	35.0	15.5	13.5	11.0
Merged-chr4-136143768-4	chr4	136143675	136143875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008321)	promoter-TSS (NM_008321)	-47.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	284.0	434.5	329.0	3451.0	647.5	270.5	368.5	298.0
Merged-chr10-8778117-4	chr10	8778040	8778240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	107930.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	93.0	199.0	152.0	1876.5	215.5	79.0	109.5	77.5
Merged-chr17-7884975-4	chr17	7884875	7885075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41025.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	36.5	70.0	46.0	773.5	84.0	32.5	33.0	47.0
Merged-chr9-110533025-4	chr9	110532900	110533100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081340, intron 1 of 20)	CpG	403.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	17.0	30.0	27.5	272.0	66.0	17.0	28.0	37.0
Merged-chr11-68408325-4	chr11	68408226	68408426	+	801.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21500.0	NM_008744	18208.0	Mm.39095	NM_008744	ENSMUSG00000020902	Ntn1	AI561871|BC019633|Netrin-1	netrin 1	protein-coding	11.5	11.0	12.5	37.0	30.0	7.0	10.0	7.0
Merged-chr2-168978238-4	chr2	168978143	168978343	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040326)	promoter-TSS (NR_040326)	-26.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	28.0	23.0	29.0	546.5	48.5	17.0	27.0	29.0
Merged-chr3-60559980-3	chr3	60559902	60560102	+	907.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	58823.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	10.5	11.0	30.0	350.0	6.0	2.0	4.5	8.5
Merged-chr1-65283021-2	chr1	65282921	65283121	+	555.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28236.0	NM_139270	213527.0	Mm.294225	NM_139270	ENSMUSG00000025946	Pth2r	Pthr2	parathyroid hormone 2 receptor	protein-coding	14.5	4.5	4.5	91.5	24.0	7.0	2.0	4.0
Merged-chr15-98181515-4	chr15	98181404	98181604	+	941.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13698.0	NM_177716	239650.0	Mm.54140	NM_177716	ENSMUSG00000029875	Ccdc184	5630400A08|AI836003	coiled-coil domain containing 184	protein-coding	21.0	47.5	17.5	398.5	43.5	8.0	21.0	12.5
Merged-chr4-47280341-4	chr4	47280241	47280441	+	859.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 17 of 39)	intron (NM_009928, intron 17 of 39)	72329.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	17.0	12.0	5.5	101.5	27.5	15.0	12.5	10.5
Merged-chr2-117019729-1	chr2	117019629	117019829	+	983.0	f1_c57bl6.idr	Intergenic	Intergenic	-101342.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	8.5	25.0	8.5	70.5	25.5	13.5	8.5	2.5
Merged-chr7-125608023-4	chr7	125607952	125608152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021887, intron 1 of 8)	intron (NM_021887, intron 1 of 8)	4623.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	70.5	178.5	66.5	744.0	223.0	72.5	87.0	48.0
Merged-chr17-55726400-4	chr17	55726289	55726489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13753.0	NR_151542	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	50.0	62.5	44.0	722.0	67.0	33.0	38.0	27.5
Merged-chr2-18065321-7	chr2	18065222	18065422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010804, intron 2 of 22)	CpG-7762	737.0	NM_001252561	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	13.5	29.5	12.5	183.0	100.0	40.0	61.0	44.5
Merged-chr1-55505160-4	chr1	55505057	55505257	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	Lx8|LINE|L1	99211.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	28.5	37.0	24.0	388.0	49.0	9.5	22.0	23.0
Merged-chr17-26750127-4	chr17	26750039	26750239	+	931.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029870, intron 4 of 8)	intron (NM_029870, intron 4 of 8)	-30940.0	NM_172149	224630.0	Mm.21795	NM_172149	ENSMUSG00000024191	Bnip1	2010005M06Rik|5930429G21Rik|Sec20	BCL2/adenovirus E1B interacting protein 1	protein-coding	23.5	17.5	20.0	167.5	24.5	10.5	9.5	13.5
Merged-chr7-47014774-4	chr7	47014699	47014899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6385.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	102.0	156.5	92.0	1680.0	212.0	82.0	101.5	91.5
Merged-chr2-118902551-6	chr2	118902413	118902613	+	865.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045523, intron 1 of 6)	CpG	898.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	6.5	2.5	6.0	50.5	19.0	9.5	10.0	11.0
Merged-chr2-118905595-4	chr2	118905512	118905712	+	915.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045523, intron 1 of 6)	intron (NM_001045523, intron 1 of 6)	3997.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	13.0	24.5	11.0	242.0	58.5	31.0	19.0	20.0
Merged-chr6-72109714-4	chr6	72109618	72109818	+	924.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	12110.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	24.5	22.0	13.0	266.5	36.5	7.0	10.0	15.5
Merged-chr3-142278243-4	chr3	142278115	142278315	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 7 of 12)	intron (NM_001190854, intron 7 of 12)	-108790.0	NM_001277216	12167.0	Mm.39089	NM_007560	ENSMUSG00000052430	Bmpr1b	AI385617|ALK-6|AV355320|Acvrlk6|Alk6|BMPR-1B|BMPR-IB|CFK-43a|SKR6	bone morphogenetic protein receptor, type 1B	protein-coding	0.5	0.5	5.5	89.0	177.5	61.0	53.5	69.5
Merged-chr17-80127479-1	chr17	80127379	80127579	+	926.0	f0_c57.idr	promoter-TSS (NM_176963)	promoter-TSS (NM_176963)	8.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	15.0	26.5	8.0	226.0	33.5	11.0	20.5	15.5
Merged-chr1-152692878-3	chr1	152692783	152692983	+	897.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	URR1A|DNA|hAT-Charlie	-57668.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	4.5	5.0	12.0	98.5	10.5	3.5	4.5	7.5
Merged-chr6-93127090-3	chr6	93126975	93127175	+	847.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	186493.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	13.0	7.0	14.0	197.0	9.5	4.5	0.5	0.5
Merged-chr13-73971275-3	chr13	73971145	73971345	+	828.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153830, intron 2 of 9)	intron (NR_153830, intron 2 of 9)	7394.0	NM_027704	71164.0	Mm.66995	NM_027704	ENSMUSG00000069189	Zdhhc11	4933421L13Rik|DHHC-11|Zdhhc20	zinc finger, DHHC domain containing 11	protein-coding	18.5	8.0	8.0	212.0	9.0	10.5	5.0	11.5
Merged-chr7-104465618-3	chr7	104465504	104465704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	promoter-TSS (NM_009099)	promoter-TSS (NM_009099)	-411.0	NM_009099	20128.0	Mm.295578	NM_009099	ENSMUSG00000030921	Trim30a	Rpt-1|Rpt1|Trim30	tripartite motif-containing 30A	protein-coding	35.5	69.5	43.0	550.5	117.5	53.0	53.0	41.0
Merged-chr2-59889905-4	chr2	59889815	59890015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR9A3|LTR|ERVK	-7309.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	23.5	36.0	20.5	520.5	58.0	22.0	28.5	26.5
Merged-chr19-43521393-4	chr19	43521277	43521477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 1 of 8)	(A)n|Simple_repeat|Simple_repeat	3228.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	23.0	36.5	16.5	512.5	128.0	35.5	50.5	60.5
Merged-chr17-44351556-4	chr17	44351455	44351655	+	929.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	162983.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	16.0	12.5	34.5	518.0	33.0	13.0	20.0	19.5
Merged-chr1-57406694-4	chr1	57406556	57406756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302963)	promoter-TSS (NM_001302963)	18.0	NM_001302962	68736.0	Mm.288490	NM_001037742	ENSMUSG00000048495	Tyw5	1110034B05Rik	tRNA-yW synthesizing protein 5	protein-coding	37.0	56.0	47.5	586.5	77.0	27.5	41.0	20.5
Merged-chr19-55840967-4	chr19	55840868	55841068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-54353.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	52.5	52.5	35.5	589.0	125.0	32.5	45.0	35.5
Merged-chr9-22125803-4	chr9	22125708	22125908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007388)	TTS (NM_007388)	4790.0	NM_007388	11433.0	Mm.46354	NM_007388	ENSMUSG00000001348	Acp5	TRACP|TRAP	acid phosphatase 5, tartrate resistant	protein-coding	52.5	68.0	52.5	803.0	101.5	43.5	57.0	45.5
Merged-chr9-64829896-3	chr9	64829796	64829996	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162917, intron 2 of 34)	URR1B|DNA|hAT-Charlie	18885.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	14.0	16.0	6.5	103.0	44.5	12.0	8.5	19.0
Merged-chr15-76351216-4	chr15	76351128	76351328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164608)	promoter-TSS (NM_001164608)	-66.0	NM_001164607	68877.0	Mm.289680	NM_026859	ENSMUSG00000022553	Maf1	1110068E11Rik|AU042856	MAF1 homolog, negative regulator of RNA polymerase III	protein-coding	190.0	285.5	195.5	2464.0	521.0	182.5	172.5	153.0
Merged-chr3-108997485-4	chr3	108997378	108997578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 2 of 10)	intron (NM_001163567, intron 2 of 10)	30129.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	20.5	24.0	30.5	651.0	66.5	19.0	50.5	28.0
Merged-chr4-44167879-4	chr4	44167689	44167889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175201)	promoter-TSS (NM_175201)	167.0	NM_001355181	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	30.5	54.0	39.5	523.0	86.5	47.0	41.0	42.5
Merged-chr8-107435777-4	chr8	107435672	107435872	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025830)	promoter-TSS (NM_025830)	-626.0	NM_025830	66894.0	Mm.390058	NM_025830	ENSMUSG00000031930	Wwp2	1300010O06Rik|AA690238|AIP2|AW554328	WW domain containing E3 ubiquitin protein ligase 2	protein-coding	24.5	25.0	23.0	286.5	77.0	16.5	25.0	21.5
Merged-chr15-8463029-4	chr15	8462932	8463132	+	903.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18569.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	8.5	22.0	21.5	301.5	31.5	16.5	28.0	20.5
Merged-chr9-14769227-6	chr9	14769110	14769310	+	896.14447	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029306, intron 1 of 3)	intron (NM_029306, intron 1 of 3)	1820.0	NM_029306	69325.0	Mm.440453	NM_029306	ENSMUSG00000031927	1700012B09Rik	1700007P19Rik	RIKEN cDNA 1700012B09 gene	protein-coding	19.0	16.5	14.5	279.0	18.0	9.5	10.0	9.5
Merged-chr5-99380400-4	chr5	99380306	99380506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-127479.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	251.5	329.0	291.5	3573.5	484.0	188.5	272.5	192.5
Merged-chr2-181693811-6	chr2	181693687	181693887	+	918.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291208)	promoter-TSS (NM_001291208)	23.0	NM_001291206	56470.0	Mm.274366	NM_026446	ENSMUSG00000002458	Rgs19	2610042F04Rik|AI324841|AW547781|GAIP	regulator of G-protein signaling 19	protein-coding	81.5	129.5	139.0	1191.0	175.5	73.5	83.0	66.5
Merged-chr7-73531740-4	chr7	73531621	73531821	+	957.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	B4A|SINE|B4	10025.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	27.0	26.0	12.5	304.0	48.5	9.5	23.0	16.5
Merged-chr15-99154782-3	chr15	99154672	99154872	+	684.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139140, intron 2 of 12)	RLTR45|LTR|ERVK	27927.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	7.0	14.5	4.0	53.5	23.0	5.0	5.5	10.5
Merged-chr15-38290320-3	chr15	38290227	38290427	+	783.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9573.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	3.0	4.5	14.0	146.5	11.5	5.0	6.0	13.5
Merged-chr2-165034817-4	chr2	165034680	165034880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144892)	promoter-TSS (NM_144892)	-1.0	NM_144892	228869.0	Mm.233080	NM_144892	ENSMUSG00000039804	Ncoa5	CIA	nuclear receptor coactivator 5	protein-coding	37.5	66.0	47.0	495.5	168.5	51.5	50.5	63.0
Merged-chr2-27697309-3	chr2	27697209	27697409	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	-11983.0	NM_001290481	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	8.5	9.5	19.5	142.0	7.0	8.0	2.5	12.0
Merged-chr15-53349112-4	chr15	53349005	53349205	+	865.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA8|LINE|L1	-2922.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	18.5	8.5	15.0	169.0	21.0	9.0	11.0	6.0
Merged-chr19-41825166-2	chr19	41825066	41825266	+	830.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4804.0	NM_008043	14296.0	Mm.4573	NM_008043	ENSMUSG00000067199	Frat1	AW060382	frequently rearranged in advanced T cell lymphomas	protein-coding	7.0	12.0	10.0	49.0	12.5	4.0	2.0	3.5
Merged-chr9-120601652-4	chr9	120601538	120601738	+	834.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24307.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	15.0	9.0	3.0	109.5	21.0	14.0	14.5	11.0
Merged-chr5-111178734-4	chr5	111178635	111178835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267622, intron 5 of 22)	ORR1E|LTR|ERVL-MaLR	-151962.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	56.5	71.0	47.0	1012.0	142.0	42.0	79.0	57.5
Merged-chr7-19578191-4	chr7	19578100	19578300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022409, intron 2 of 2)	intron (NM_022409, intron 2 of 2)	913.0	NM_022409	63872.0	Mm.23310	NM_022409	ENSMUSG00000011267	Zfp296	2210018A16Rik|Znf296	zinc finger protein 296	protein-coding	29.0	25.0	21.5	490.0	58.0	21.5	23.5	18.5
Merged-chr4-55741545-4	chr4	55741436	55741636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-209061.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	73.0	59.0	86.0	1350.5	184.0	42.0	82.5	53.0
Merged-chr9-72133331-4	chr9	72133231	72133431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-21512.0	NM_011544	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	47.0	62.0	52.0	623.0	109.5	44.0	35.0	42.5
Merged-chr10-95514130-4	chr10	95514054	95514254	+	861.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-1008.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	5.0	23.0	13.5	63.5	21.0	5.0	3.5	10.0
Merged-chr1-64717644-4	chr1	64717526	64717726	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001097644, intron 7 of 9)	intron (NM_001097644, intron 7 of 9)	20124.0	NM_001042659	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	16.0	21.0	6.5	256.5	22.5	12.5	9.0	18.0
Merged-chr11-75532585-3	chr11	75532496	75532696	+	829.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173388, exon 2 of 14)	5' UTR (NM_173388, exon 2 of 14)	484.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	1.0	2.5	5.0	73.0	15.5	8.5	4.5	10.5
Merged-chr13-23401812-4	chr13	23401720	23401920	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	22046.0	NM_013924	30946.0	Mm.292094	NM_013924	ENSMUSG00000036376	Abt1	-	activator of basal transcription 1	protein-coding	20.5	34.5	19.0	435.5	33.0	22.5	14.5	8.0
Merged-chr5-140795051-3	chr5	140794946	140795146	+	977.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	intron (NM_010302, intron 1 of 3)	35385.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	14.0	4.5	18.0	252.0	5.5	3.0	0.5	0.0
Merged-chr5-87204520-7	chr5	87204464	87204664	+	976.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	50224.0	NM_053215	112417.0	Mm.160362	NM_053215	ENSMUSG00000057425	Ugt2b37	0610033E06Rik	UDP glucuronosyltransferase 2 family, polypeptide B37	protein-coding	2.5	12.5	16.5	111.5	19.0	5.0	17.5	13.0
Merged-chr5-122131298-4	chr5	122131200	122131400	+	974.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183307, intron 2 of 12)	intron (NM_183307, intron 2 of 12)	3593.0	NM_001289811	330188.0	Mm.386907	NM_183307	ENSMUSG00000043036	Ccdc63	4921511C16Rik	coiled-coil domain containing 63	protein-coding	16.0	26.0	20.5	263.0	32.5	11.0	18.0	28.0
Merged-chr3-88654867-3	chr3	88654772	88654972	+	861.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1730.0	NM_181817	242093.0	Mm.269130	NM_181817	ENSMUSG00000049741	Rxfp4	GPCR142|Gpr100|Rln3r2|SALPR	relaxin family peptide receptor 4	protein-coding	18.5	10.0	6.5	60.5	6.0	6.5	4.5	7.0
Merged-chr15-28420917-4	chr15	28420799	28420999	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133365, intron 66 of 78)	intron (NM_133365, intron 66 of 78)	217133.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	5.0	28.5	23.5	213.0	19.5	13.5	13.5	11.5
Merged-chr11-87443496-4	chr11	87443388	87443588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	15897.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	44.5	145.0	85.0	861.5	127.5	53.5	72.0	57.5
Merged-chr16-27457528-3	chr16	27457421	27457621	+	842.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	68565.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	4.5	12.0	2.5	67.0	15.5	12.0	5.0	6.5
Merged-chr7-30717450-4	chr7	30717325	30717525	+	895.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018731, intron 10 of 21)	intron (NM_018731, intron 10 of 21)	5216.0	NM_001290627	11944.0	Mm.12821	NM_018731	ENSMUSG00000005553	Atp4a	-	ATPase, H+/K+ exchanging, gastric, alpha polypeptide	protein-coding	14.0	45.5	15.0	269.5	23.0	9.5	16.0	11.5
Merged-chr9-61432009-3	chr9	61431914	61432114	+	923.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59648.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	18.0	24.5	17.0	122.0	51.5	8.0	10.0	7.5
Merged-chr5-147911312-4	chr5	147911204	147911404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16489.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	48.0	36.0	27.0	629.5	161.0	56.5	88.0	70.0
Merged-chr5-43787676-3	chr5	43787578	43787778	+	741.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5529.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	16.0	19.5	15.5	106.5	9.5	11.0	5.0	9.0
Merged-chr4-43443284-10	chr4	43443168	43443368	+	882.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011571, exon 1 of 10)	5' UTR (NM_011571, exon 1 of 10)	991.0	NM_011571	21754.0	Mm.485441	NM_011571	ENSMUSG00000028458	Tesk1	AI326901	testis specific protein kinase 1	protein-coding	12.0	10.0	6.5	103.0	16.5	8.5	5.0	15.0
Merged-chr4-117002789-2	chr4	117002689	117002889	+	635.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_175244, exon 18 of 21)	exon (NM_175244, exon 18 of 21)	7441.0	NM_175244	76608.0	Mm.251420	NM_175244	ENSMUSG00000046861	Hectd3	1700064K09Rik|AI467540|AW743312	HECT domain E3 ubiquitin protein ligase 3	protein-coding	5.5	8.5	6.5	68.5	16.0	0.5	3.0	3.5
Merged-chr18-67245635-7	chr18	67245520	67245720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357518, exon 1 of 11)	5' UTR (NM_001357518, exon 1 of 11)	210.0	NM_172630	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	17.0	17.0	30.0	332.0	50.5	18.5	25.5	31.5
Merged-chr13-67637376-4	chr13	67637279	67637479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183146, intron 1 of 3)	intron (NM_183146, intron 1 of 3)	374.0	NM_183146	212281.0	Mm.342918	NM_183146	ENSMUSG00000021510	Zfp729a	A530054K11Rik|Rslcan3	zinc finger protein 729a	protein-coding	12.5	27.5	18.5	265.0	111.0	32.0	58.0	24.5
Merged-chr5-100518310-4	chr5	100518220	100518420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012001)	promoter-TSS (NM_012001)	11.0	NM_001359204	26891.0	Mm.957	NM_012001	ENSMUSG00000035297	Cops4	AW208976|D5Ertd774e|SGN4	COP9 signalosome subunit 4	protein-coding	277.5	411.0	250.5	4374.0	572.0	194.5	321.5	230.0
Merged-chr4-141872247-4	chr4	141872138	141872338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	2682.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	23.5	51.5	46.5	603.0	96.5	30.5	54.5	42.5
Merged-chr10-12997296-4	chr10	12997194	12997394	+	977.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11156.0	NM_175102	66125.0	Mm.29743	NM_175102	ENSMUSG00000078348	Sf3b5	10kDa|1110005L13Rik|AU043053|Sf3b10	splicing factor 3b, subunit 5	protein-coding	16.5	37.5	17.5	408.0	67.5	21.5	35.0	16.5
Merged-chr15-6337688-4	chr15	6337587	6337787	+	915.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	37898.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	30.0	25.5	17.0	611.5	29.5	19.0	7.5	9.5
Merged-chr7-98703548-3	chr7	98703447	98703647	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_144495)	promoter-TSS (NR_144495)	300.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	16.5	28.5	26.0	202.5	26.5	6.5	14.0	18.5
Merged-chr10-128345067-4	chr10	128344950	128345150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026444, intron 1 of 10)	intron (NM_026444, intron 1 of 10)	7323.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	51.0	50.5	33.0	838.5	97.0	27.0	33.0	57.0
Merged-chr18-65800418-5	chr18	65800279	65800479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025468)	promoter-TSS (NM_025468)	-199.0	NM_025468	66286.0	Mm.27800	NM_025468	ENSMUSG00000024516	Sec11c	1810029G24Rik|Sec11l3	SEC11 homolog C, signal peptidase complex subunit	protein-coding	120.5	218.5	209.5	1478.5	356.0	168.5	168.5	131.0
Merged-chr18-32694861-4	chr18	32694766	32694966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045381, intron 4 of 4)	intron (NR_045381, intron 4 of 4)	-120517.0	NM_021367	53603.0	Mm.143716	NM_021367	ENSMUSG00000024379	Tslp	-	thymic stromal lymphopoietin	protein-coding	32.5	28.0	26.5	461.5	64.0	21.0	45.5	26.0
Merged-chr6-116440184-3	chr6	116440077	116440277	+	952.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 3 of 13)	intron (NM_009662, intron 3 of 13)	21001.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	18.0	21.5	14.5	215.0	13.0	2.0	10.0	5.5
Merged-chr1-190170720-4	chr1	190170632	190170832	+	905.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008937)	promoter-TSS (NM_008937)	95.0	NM_008937	19130.0	Mm.132579	NM_008937	ENSMUSG00000010175	Prox1	A230003G05Rik|PROX-1	prospero homeobox 1	protein-coding	23.5	36.0	12.0	483.0	23.0	9.0	19.0	12.0
Merged-chr7-126894941-3	chr7	126894839	126895039	+	700.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026827, intron 3 of 5)	L2c|LINE|L2	3339.0	NM_026827	68742.0	Mm.248646	NM_026827	ENSMUSG00000060538	Tmem219	1110032O16Rik|2900045G02Rik|IGFBP-3R	transmembrane protein 219	protein-coding	7.5	22.5	5.0	26.0	26.5	9.5	6.5	4.5
Merged-chr3-31328007-4	chr3	31327902	31328102	+	924.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17683.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	23.5	24.5	26.5	311.5	39.5	20.5	9.0	14.0
Merged-chr12-101995064-3	chr12	101995056	101995256	+	934.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016856, intron 8 of 14)	(CA)n|Simple_repeat|Simple_repeat	19182.0	NM_016856	51786.0	Mm.716	NM_016856	ENSMUSG00000041781	Cpsf2	100kDa|2610024B04Rik|AI662483|Cpsf|MCPSF|mKIAA1367	cleavage and polyadenylation specific factor 2	protein-coding	0.0	0.0	3.0	8.0	38.5	15.0	22.5	22.5
Merged-chr11-103443962-4	chr11	103443862	103444062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16B_MM|LTR|ERVK	-31298.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	56.5	97.0	35.5	408.0	166.5	70.5	48.0	52.0
Merged-chr11-11682868-4	chr11	11682806	11683006	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3019.0	NM_009578	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	28.0	24.5	11.0	298.5	31.5	12.0	14.0	9.0
Merged-chr5-105731276-2	chr5	105731176	105731376	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	30466.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	13.0	29.0	24.5	302.0	26.0	6.5	7.5	11.5
Merged-chr17-36167833-4	chr17	36167713	36167913	+	985.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081032, intron 2 of 7)	CpG-6350	724.0	NM_001081032	667977.0	Mm.441651	NM_001081032	ENSMUSG00000073402	Gm8909	EG667977|H2-Tw5l|H2-gs17	predicted gene 8909	protein-coding	25.0	27.5	12.5	348.0	54.5	18.0	39.5	23.0
Merged-chr14-30671455-8	chr14	30671358	30671558	+	957.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177815, intron 6 of 12)	intron (NM_177815, intron 6 of 12)	17083.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	11.0	15.0	9.5	147.5	10.5	9.5	8.5	22.5
Merged-chr2-30048849-4	chr2	30048754	30048954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008498)	promoter-TSS (NM_001008498)	25.0	NM_001008498	71820.0	Mm.88053	NM_001008498	ENSMUSG00000039715	Wdr34	3200002I06Rik	WD repeat domain 34	protein-coding	46.0	36.5	34.5	490.5	111.5	41.0	37.5	77.0
Merged-chr15-73492423-3	chr15	73492316	73492516	+	968.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20144.0	NR_152151	105841.0	Mm.322557	NM_001081066	ENSMUSG00000036661	Dennd3	AI447457|E030003N15Rik	DENN/MADD domain containing 3	protein-coding	9.5	23.5	8.0	221.0	18.5	9.5	6.0	6.5
Merged-chr16-22399478-3	chr16	22399369	22399569	+	772.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358428, intron 8 of 12)	intron (NM_001358428, intron 8 of 12)	38899.0	NM_001358428	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	8.0	10.0	17.5	61.5	26.5	11.0	5.0	4.0
Merged-chr10-128412821-4	chr10	128412726	128412926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026259, intron 1 of 7)	intron (NM_026259, intron 1 of 7)	1210.0	NM_026259	67588.0	Mm.294120	NM_026259	ENSMUSG00000025373	Rnf41	2210404G21Rik|4930511A05Rik|4933415P08Rik|D10Ertd722e|FLRF|Nrdp1	ring finger protein 41	protein-coding	31.5	57.0	27.0	732.0	91.5	32.5	48.5	55.5
Merged-chr17-31658851-4	chr17	31658753	31658953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357907)	promoter-TSS (NM_001357907)	-89.0	NM_001357907	108121.0	Mm.379289	NM_024187	ENSMUSG00000061613	U2af1	2010107D16Rik	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 1	protein-coding	177.5	237.5	159.0	2092.5	422.5	194.0	178.5	160.0
Merged-chr6-22453304-4	chr6	22453200	22453400	+	870.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97219.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	12.5	16.5	22.0	323.5	25.0	4.5	6.0	12.0
Merged-chr1-152756639-3	chr1	152756533	152756733	+	697.600037	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081197, exon 2 of 2)	exon (NM_001081197, exon 2 of 2)	6082.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	7.0	4.5	8.0	90.5	20.0	1.0	1.0	4.0
Merged-chr2-50888111-3	chr2	50888019	50888219	+	697.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-21565.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	8.5	5.5	19.0	213.5	9.5	3.5	6.0	5.5
Merged-chr1-166001732-7	chr1	166001515	166001715	+	931.161926	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198932, intron 1 of 15)	CpG	1019.0	NM_011137	18986.0	Mm.245261	NM_011137	ENSMUSG00000026565	Pou2f1	2810482H01Rik|NF-A1|Oct-1|Oct1|Otf-1|Otf1	POU domain, class 2, transcription factor 1	protein-coding	13.5	19.0	14.5	150.5	45.5	8.0	13.0	14.5
Merged-chr10-26373116-4	chr10	26372996	26373196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172787, intron 1 of 21)	intron (NM_172787, intron 1 of 21)	976.0	NM_001359255	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	22.0	22.0	22.0	459.0	79.5	16.5	38.0	27.0
Merged-chr1-54914650-4	chr1	54914551	54914751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	11736.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	33.0	54.5	45.0	727.5	108.0	43.5	39.0	48.5
Merged-chr14-14684940-4	chr14	14684837	14685037	+	986.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18088.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	20.5	23.0	14.0	473.0	40.5	14.5	16.0	24.5
Merged-chr13-99197128-2	chr13	99197028	99197228	+	979.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	12305.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	5.0	9.0	5.0	259.0	9.0	4.0	4.5	5.0
Merged-chr8-69716529-4	chr8	69716424	69716624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359086, exon 1 of 6)	5' UTR (NM_001359086, exon 1 of 6)	378.0	NM_001039967	66869.0	Mm.334581	NM_181274	ENSMUSG00000054648	Zfp869	1200003I07Rik	zinc finger protein 869	protein-coding	97.5	190.5	54.5	1194.5	292.0	102.5	120.0	112.5
Merged-chr3-108444174-4	chr3	108444069	108444269	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011319, intron 1 of 11)	intron (NM_011319, intron 1 of 11)	1090.0	NM_011319	20226.0	Mm.28688	NM_011319	ENSMUSG00000068739	Sars	Sars1|Strs|serRS	seryl-aminoacyl-tRNA synthetase	protein-coding	30.0	28.5	13.5	268.0	46.0	19.0	11.5	26.5
Merged-chr4-124847792-4	chr4	124847714	124847914	+	880.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008636, exon 11 of 11)	3' UTR (NM_008636, exon 11 of 11)	2750.0	NM_001347196	68920.0	Mm.272397	NM_001142727	ENSMUSG00000078570	1110065P20Rik	C530005M16Rik	RIKEN cDNA 1110065P20 gene	protein-coding	17.5	19.5	5.5	116.5	22.5	11.0	16.0	18.0
Merged-chr5-45876471-4	chr5	45876371	45876571	+	908.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-18931.0	NM_001359873	209707.0	Mm.71498	NM_172153	ENSMUSG00000015882	Lcorl	Mlr1	ligand dependent nuclear receptor corepressor-like	protein-coding	8.5	9.0	21.5	144.5	25.5	6.5	6.5	13.0
Merged-chr10-70097038-4	chr10	70096920	70097120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111121)	promoter-TSS (NM_001111121)	-101.0	NM_001111121	76551.0	Mm.281741	NM_001111121	ENSMUSG00000048701	Ccdc6	2810012H18Rik|AA536681|AA960498|AW061011	coiled-coil domain containing 6	protein-coding	77.0	125.0	81.0	1211.0	154.5	47.5	83.5	72.0
Merged-chr1-161998943-4	chr1	161998860	161999060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038619, intron 20 of 20)	intron (NM_001038619, intron 20 of 20)	-6009.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	55.0	54.0	52.5	752.5	128.0	35.5	39.5	51.0
Merged-chr17-28163878-1	chr17	28163778	28163978	+	599.0	f0_c57.idr	intron (NM_001004366, intron 10 of 21)	intron (NM_001004366, intron 10 of 21)	-13318.0	NM_001357995	224656.0	Mm.267359	NM_172617	ENSMUSG00000024220	Zfp523	2810027J07|BC025615|Znf76	zinc finger protein 523	protein-coding	5.5	4.0	2.5	64.0	26.0	11.0	5.5	5.5
Merged-chr13-17695029-4	chr13	17694938	17695138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138654)	promoter-TSS (NM_138654)	-273.0	NM_138654	192136.0	Mm.364180	NM_138654	ENSMUSG00000055137	Sugct	5033411D12Rik|D17907	succinyl-CoA glutarate-CoA transferase	protein-coding	411.5	568.0	409.0	6186.0	993.0	337.5	460.5	354.0
Merged-chr8-90908305-4	chr8	90908211	90908411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	CpG	-23938.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	242.5	376.0	331.0	3467.0	674.0	271.0	349.5	288.5
Merged-chr15-27688321-4	chr15	27688264	27688464	+	957.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6822.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	13.0	8.0	18.0	199.0	21.0	8.0	7.5	13.0
Merged-chr6-3345448-3	chr6	3345327	3345527	+	922.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54144.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	0.5	5.5	1.5	49.5	22.5	18.5	14.5	17.5
Merged-chr19-9140561-3	chr19	9140485	9140685	+	852.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-5019.0	NM_025610	66514.0	Mm.272847	NM_025610	ENSMUSG00000024654	Asrgl1	2410004D18Rik|ALP|ALP1|AU040643|AW060375	asparaginase like 1	protein-coding	11.0	13.5	8.0	103.5	6.0	4.0	1.0	1.5
Merged-chr16-44173646-4	chr16	44173524	44173724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029889, intron 1 of 7)	CpG	227.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	30.5	33.0	27.0	276.5	65.5	17.5	40.0	21.0
Merged-chr5-64291076-3	chr5	64290981	64291181	+	862.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	L1MB8|LINE|L1	60724.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	6.0	10.5	4.5	187.0	14.0	2.0	6.0	8.0
Merged-chr5-31758961-4	chr5	31758853	31759053	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 3 of 11)	intron (NM_144541, intron 3 of 11)	60903.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	30.0	51.5	17.0	531.0	103.0	16.5	35.5	30.5
Merged-chr14-43922327-4	chr14	43922205	43922405	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053112)	TTS (NM_053112)	1063.0	NM_053112	93725.0	Mm.429087	NM_053112	ENSMUSG00000090166	Ear10	Raf2	eosinophil-associated, ribonuclease A family, member 10	protein-coding	28.0	41.5	31.5	182.5	70.0	45.0	45.0	28.0
Merged-chr13-112353647-2	chr13	112353547	112353747	+	975.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 7 of 11)	intron (NM_001168403, intron 7 of 11)	65129.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	5.0	7.5	5.0	106.5	15.0	3.5	9.0	6.0
Merged-chr11-51224192-3	chr11	51224096	51224296	+	963.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3778.0	NR_110444	71297.0	Mm.390420	NR_110444	ENSMUSG00000086646	Platr20	5133400J02Rik	pluripotency associated transcript 20	ncRNA	12.0	10.0	21.0	248.0	20.5	5.0	11.0	11.0
Merged-chr10-34235560-4	chr10	34235471	34235671	+	974.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28020.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	25.5	29.0	5.5	411.5	28.0	20.5	25.5	21.5
Merged-chr1-191963501-3	chr1	191963395	191963595	+	945.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13875.0	NM_001177900	74023.0	Mm.274393	NM_023727	ENSMUSG00000049353	Rd3	3322402L07Rik|rd-3|rd3	retinal degeneration 3	protein-coding	14.0	21.5	9.0	185.0	17.0	0.0	3.0	5.0
Merged-chr6-137757819-4	chr6	137757723	137757923	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172733, intron 1 of 8)	MTC|LTR|ERVL-MaLR	3246.0	NM_172733	232449.0	Mm.29181	NM_172733	ENSMUSG00000030225	Dera	2010002D22Rik|2500002K03Rik|DEOC	deoxyribose-phosphate aldolase (putative)	protein-coding	18.5	27.0	34.0	579.0	51.0	23.0	29.5	16.5
Merged-chr13-63431726-4	chr13	63431614	63431814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042673)	promoter-TSS (NM_001042673)	31.0	NM_001347515	14088.0	Mm.126106	NM_007985	ENSMUSG00000021461	Fancc	Facc	Fanconi anemia, complementation group C	protein-coding	61.5	167.5	96.0	886.0	230.0	93.0	97.5	78.0
Merged-chr9-118871295-2	chr9	118871186	118871386	+	886.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 10 of 13)	intron (NM_001113514, intron 10 of 13)	-55250.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	2.0	9.5	4.0	35.5	18.5	5.5	4.5	8.0
Merged-chr4-82867307-4	chr4	82867222	82867422	+	892.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7649.0	NM_026647	68268.0	Mm.32047	NM_026647	ENSMUSG00000028403	Zdhhc21	9130404H11Rik|AL024349|D130004H04Rik|dep	zinc finger, DHHC domain containing 21	protein-coding	11.0	25.0	17.5	198.5	23.0	14.5	10.5	15.0
Merged-chr19-10034966-3	chr19	10034853	10035053	+	863.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153790, exon 10 of 11)	non-coding (NR_153790, exon 10 of 11)	-6595.0	NM_021890	60527.0	Mm.253875	NM_021890	ENSMUSG00000024664	Fads3	AI464531	fatty acid desaturase 3	protein-coding	3.5	5.5	8.0	69.5	10.0	6.5	10.0	7.0
Merged-chr14-75751244-4	chr14	75751144	75751344	+	871.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177381, intron 1 of 22)	intron (NM_177381, intron 1 of 22)	3249.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	1.5	13.0	6.5	120.5	41.5	12.0	15.0	10.5
Merged-chr13-89488385-4	chr13	89488290	89488490	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52246.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	9.5	11.0	6.0	150.5	139.0	41.0	69.5	34.5
Merged-chr8-10911219-4	chr8	10911085	10911285	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11263.0	NR_102285	71624.0	Mm.139075	NR_102285	ENSMUSG00000109089	4833411C07Rik	-	RIKEN cDNA 4833411C07 gene	ncRNA	25.0	37.5	19.5	344.0	33.0	8.5	19.5	7.0
Merged-chr10-37361158-2	chr10	37361058	37361258	+	637.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-222232.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	8.5	5.0	6.0	73.0	8.0	1.0	2.5	5.5
Merged-chr15-84256472-4	chr15	84256389	84256589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	intron (NM_133167, intron 1 of 12)	24446.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	35.0	65.0	57.0	1024.0	88.0	36.0	48.0	39.5
Merged-chr11-70516519-3	chr11	70516418	70516618	+	925.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1902.0	NM_001013607	327956.0	Mm.244514	NM_001013607	ENSMUSG00000020830	Vmo1	Gm741	vitelline membrane outer layer 1 homolog (chicken)	protein-coding	5.5	13.0	2.0	107.5	15.0	4.5	5.5	9.0
Merged-chr6-128355910-4	chr6	128355806	128356006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011657)	promoter-TSS (NM_011657)	-55.0	NM_011657	22158.0	Mm.291783	NM_011657	ENSMUSG00000001521	Tulp3	2310022L06Rik|AI316887	tubby-like protein 3	protein-coding	18.5	27.0	13.0	209.0	59.0	20.5	41.0	25.5
Merged-chr11-115639144-4	chr11	115639038	115639238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10843.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	115.0	149.5	102.0	1425.5	218.0	97.0	116.0	80.5
Merged-chr1-55667147-4	chr1	55667036	55667236	+	937.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	261190.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	5.0	14.0	6.0	212.0	51.0	13.5	17.0	19.0
Merged-chr7-92903816-4	chr7	92903728	92903928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 2 of 8)	intron (NM_028243, intron 2 of 8)	28575.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	25.0	35.5	18.5	345.5	56.5	39.5	29.5	34.0
Merged-chr15-51952590-4	chr15	51952480	51952680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	39180.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	54.5	84.5	54.5	1048.0	225.5	78.5	86.0	95.0
Merged-chr4-128619203-4	chr4	128619105	128619305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_205823)	promoter-TSS (NM_205823)	-586.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	68.0	74.5	31.5	585.0	136.0	36.5	49.0	66.5
Merged-chr9-65772362-4	chr9	65772275	65772475	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 2 of 9)	intron (NM_172536, intron 2 of 9)	55189.0	NM_172536	214812.0	Mm.139231	NM_172536	ENSMUSG00000040524	Zfp609	9830165N24|BC016271|Znf609|mKIAA0295	zinc finger protein 609	protein-coding	13.5	18.5	4.0	309.0	14.0	19.0	11.5	14.5
Merged-chr1-180811250-4	chr1	180811132	180811332	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008210, intron 2 of 3)	intron (NM_008210, intron 2 of 3)	2373.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	16.5	30.0	8.5	18.5	37.0	15.0	11.5	3.5
Merged-chr3-103916671-4	chr3	103916570	103916770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356557, intron 1 of 6)	intron (NM_001356557, intron 1 of 6)	2550.0	NM_172684	229675.0	Mm.29366	NM_172684	ENSMUSG00000044098	Rsbn1	C230004D03Rik|E330004N01|KDM9|Rosbin|Rsbn|Rsbp|mKIAA3002	rosbin, round spermatid basic protein 1	protein-coding	19.5	31.5	30.0	527.5	89.0	25.5	44.0	36.5
Merged-chr3-51561235-4	chr3	51561146	51561346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080793)	promoter-TSS (NM_080793)	-423.0	NM_080793	73251.0	Mm.192111	NM_080793	ENSMUSG00000037111	Setd7	1600028F23Rik|H3K4MT|KMT7|Set7|Set7/9|mKIAA1717	SET domain containing (lysine methyltransferase) 7	protein-coding	38.5	53.5	33.5	492.5	78.0	43.0	39.5	33.5
Merged-chr8-120104871-4	chr8	120104763	120104963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3391.0	NM_133967	102193.0	Mm.240076	NM_133967	ENSMUSG00000031823	Zdhhc7	AL024087|Gramp2	zinc finger, DHHC domain containing 7	protein-coding	28.0	45.5	50.5	795.0	72.5	15.0	37.0	38.5
Merged-chr17-24936555-2	chr17	24936455	24936655	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001163447, exon 1 of 32)	exon (NM_001163447, exon 1 of 32)	422.0	NM_001163448	30957.0	Mm.43081	NM_013931	ENSMUSG00000024163	Mapk8ip3	BB120594|D17Wsu15e|JIP-3|JSAP1|JSAP1a|JSAP1b|JSAP1c|JSAP1d|Jip3|Syd2|mKIAA1066	mitogen-activated protein kinase 8 interacting protein 3	protein-coding	5.5	14.5	19.5	105.0	27.5	10.0	13.5	21.5
Merged-chr4-135972102-4	chr4	135972000	135972200	+	868.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011942, intron 1 of 9)	intron (NM_011942, intron 1 of 9)	494.0	NM_011942	26394.0	Mm.34302	NM_011942	ENSMUSG00000028670	Lypla2	LysoII	lysophospholipase 2	protein-coding	11.0	10.0	5.0	157.0	25.0	16.5	5.5	12.5
Merged-chr17-6957884-2	chr17	6957772	6957972	+	628.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_147155, intron 2 of 3)	intron (NM_147155, intron 2 of 3)	3284.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	6.5	6.0	6.0	25.0	20.0	1.0	5.5	4.5
Merged-chr5-21136738-4	chr5	21136647	21136847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39532.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	42.5	42.0	51.0	655.5	68.5	51.5	45.0	27.0
Merged-chr1-74227505-4	chr1	74227391	74227591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9026.0	NM_001357387	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	66.0	125.0	72.0	1341.0	179.0	73.5	139.5	107.0
Merged-chr2-13538944-4	chr2	13538823	13539023	+	882.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010067, intron 1 of 10)	intron (NM_010067, intron 1 of 10)	5741.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	13.0	22.0	12.0	106.5	25.0	10.5	20.5	12.5
Merged-chr10-57637830-3	chr10	57637737	57637937	+	823.8222049999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039051, intron 1 of 4)	intron (NM_001039051, intron 1 of 4)	5856.0	NM_001039051	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	11.0	8.5	15.0	296.0	27.0	5.0	4.5	8.5
Merged-chr14-27443992-4	chr14	27443895	27444095	+	901.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028945, intron 6 of 23)	Lx7|LINE|L1	15161.0	NM_001114879	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	14.0	14.0	10.0	327.5	24.0	11.0	21.5	23.0
Merged-chr1-133610384-4	chr1	133610303	133610503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009227)	promoter-TSS (NM_009227)	-123.0	NM_009227	20643.0	Mm.249110	NM_009227	ENSMUSG00000090553	Snrpe	AL022645|C76690|SME	small nuclear ribonucleoprotein E	protein-coding	130.0	200.5	126.5	2007.5	362.0	141.5	155.5	122.5
Merged-chr7-118116222-4	chr7	118116117	118116317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170669)	promoter-TSS (NM_170669)	-70.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	79.0	141.0	81.0	932.0	354.5	121.0	115.5	132.5
Merged-chr8-105362095-4	chr8	105361958	105362158	+	871.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081332, intron 12 of 15)	intron (NM_001081332, intron 12 of 15)	-13323.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	8.0	6.0	6.0	89.5	17.0	11.5	12.5	11.0
Merged-chr7-19443625-3	chr7	19443522	19443722	+	857.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172279, intron 7 of 16)	intron (NM_172279, intron 7 of 16)	14872.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	5.5	11.0	2.0	93.5	18.5	7.0	8.5	9.5
Merged-chr13-73476413-3	chr13	73476324	73476524	+	897.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 1 of 13)	intron (NM_145376, intron 1 of 13)	9041.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	7.0	4.5	11.0	107.0	14.5	3.0	3.5	8.0
Merged-chr6-38982856-4	chr6	38982755	38982955	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 4 of 12)	ORR1D2|LTR|ERVL-MaLR	63869.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	23.5	11.0	12.0	176.5	37.0	13.0	17.0	21.5
Merged-chr5-107437907-4	chr5	107437843	107438043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001255991)	promoter-TSS (NM_001255991)	-54.0	NM_001255991	100503185.0	Mm.366650	NM_001255991	ENSMUSG00000111375	Btbd8	EG627196|Gm16115	BTB (POZ) domain containing 8	protein-coding	69.0	65.5	65.0	882.0	151.0	55.0	77.0	80.5
Merged-chr14-21973337-3	chr14	21973239	21973439	+	871.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63A|DNA|hAT-Blackjack	16262.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	2.0	1.0	10.5	109.5	28.0	7.0	9.5	6.5
Merged-chr2-119263117-1	chr2	119263017	119263217	+	784.0	f0_balb.idr	Intergenic	Intergenic	8109.0	NM_145530	228543.0	Mm.120274	NM_145530	ENSMUSG00000034226	Rhov	A030005A06Rik|Arhv	ras homolog family member V	protein-coding	7.0	6.0	7.5	123.0	4.0	2.0	1.5	6.5
Merged-chr7-96977420-4	chr7	96977334	96977534	+	972.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 5 of 13)	intron (NM_153591, intron 5 of 13)	25907.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	18.5	15.0	9.5	309.5	88.5	20.5	30.5	35.0
Merged-chr4-120934069-3	chr4	120933987	120934187	+	677.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005788, intron 5 of 5)	intron (NM_001005788, intron 5 of 5)	-9082.0	NM_001160043	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	10.5	11.5	12.0	219.5	7.0	0.5	3.5	2.0
Merged-chr2-52884407-4	chr2	52884269	52884469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	MTD|LTR|ERVL-MaLR	26501.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	42.5	37.0	35.0	586.5	74.5	18.5	28.0	37.0
Merged-chr11-59163527-4	chr11	59163524	59163724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001270791, exon 1 of 2)	exon (NM_001270791, exon 1 of 2)	121.0	NM_001270791	216792.0	Mm.266175	NM_173785	ENSMUSG00000049287	Iba57	4930543L23Rik|A230051G13Rik|C1orf69	IBA57 homolog, iron-sulfur cluster assembly	protein-coding	93.5	132.0	136.5	1090.0	212.5	106.5	89.0	104.0
Merged-chr10-17589322-4	chr10	17589223	17589423	+	946.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133905.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	3.0	19.5	14.0	158.5	16.0	12.5	16.0	10.0
Merged-chr16-8433715-2	chr16	8433616	8433816	+	886.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D5|LTR|ERVK	-8580.0	NM_029070	74720.0	Mm.159318	NM_029070	ENSMUSG00000022715	Tmem114	4930511J11Rik|Cldn26	transmembrane protein 114	protein-coding	7.0	15.5	8.5	45.0	12.0	8.0	8.5	8.5
Merged-chr12-21286234-4	chr12	21286080	21286280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018813)	promoter-TSS (NM_018813)	104.0	NM_008403	16413.0	Mm.273333	NM_008403	ENSMUSG00000062352	Itgb1bp1	AI449260|AU019480|Icap1	integrin beta 1 binding protein 1	protein-coding	145.5	248.5	147.0	2079.5	275.0	103.0	115.5	115.5
Merged-chr17-46160282-4	chr17	46160204	46160404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019581)	promoter-TSS (NM_019581)	-728.0	NM_019581	56055.0	Mm.22147	NM_019581	ENSMUSG00000023952	Gtpbp2	nmf205	GTP binding protein 2	protein-coding	118.5	150.0	86.0	1576.0	276.0	90.0	119.5	106.5
Merged-chr11-103117973-2	chr11	103117873	103118073	+	782.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_138753, exon 1 of 1)	exon (NM_138753, exon 1 of 1)	1648.0	NM_138753	192231.0	Mm.8763	NM_138753	ENSMUSG00000048878	Hexim1	7330426E13Rik|CLP-1|Clp1|HIS1	hexamethylene bis-acetamide inducible 1	protein-coding	5.0	10.0	5.0	59.0	7.0	0.5	3.5	4.5
Merged-chr11-77802767-4	chr11	77802668	77802868	+	982.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291214, intron 1 of 38)	intron (NM_001291214, intron 1 of 38)	1470.0	NM_001291215	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	32.0	27.0	16.0	376.5	41.5	12.5	21.0	18.0
Merged-chr18-84588690-2	chr18	84588590	84588790	+	643.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 1 of 8)	intron (NM_001033341, intron 1 of 8)	814.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	5.5	8.0	13.0	72.0	12.0	3.5	7.0	10.0
Merged-chr7-129398905-3	chr7	129398813	129399013	+	802.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	141819.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	4.0	3.0	0.0	150.0	11.0	8.0	12.5	13.5
Merged-chr2-38925773-2	chr2	38925673	38925873	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010264, intron 1 of 10)	CpG	688.0	NM_010264	14536.0	Mm.439703	NM_010264	ENSMUSG00000063972	Nr6a1	1700113M01Rik|Gcnf|NCNF|RTR	nuclear receptor subfamily 6, group A, member 1	protein-coding	6.0	7.0	13.0	77.5	13.0	6.0	5.5	10.5
Merged-chr15-9430077-4	chr15	9429974	9430174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5954.0	NM_029341	75568.0	Mm.82143	NM_029341	ENSMUSG00000039676	Capsl	1700028N11Rik|AW125205	calcyphosine-like	protein-coding	23.0	58.0	35.5	830.5	103.0	35.5	54.5	49.5
Merged-chr18-78142845-4	chr18	78142756	78142956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171011)	promoter-TSS (NM_001171011)	-737.0	NM_001171011	108052.0	Mm.33832	NM_028122	ENSMUSG00000059336	Slc14a1	2610507K20Rik|3021401A05Rik|UT-B|Utb1	solute carrier family 14 (urea transporter), member 1	protein-coding	131.5	148.5	187.0	2586.5	311.0	93.0	174.0	116.5
Merged-chr11-63047264-3	chr11	63047192	63047392	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-14367.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	7.5	6.0	5.5	84.5	15.5	3.0	7.5	6.5
Merged-chr10-127622282-1	chr10	127622182	127622382	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-1134.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	26.5	46.0	48.0	555.5	69.0	28.0	36.0	40.5
Merged-chr6-29621065-2	chr6	29620965	29621165	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11216.0	NM_001347079	320938.0	Mm.276381	NM_177296	ENSMUSG00000012535	Tnpo3	5730544L10Rik|C430013M08Rik|C81142|D6Ertd313e|Trn-SR|mKIAA4133	transportin 3	protein-coding	6.0	8.5	9.0	182.0	9.5	9.0	5.0	6.0
Merged-chr11-55460160-3	chr11	55459945	55460145	+	575.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 1 of 3)	intron (NM_009720, intron 1 of 3)	1163.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	9.5	1.5	2.0	53.0	29.0	13.0	5.5	12.5
Merged-chr4-117190109-4	chr4	117190111	117190311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7587.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	22.5	74.0	67.0	606.5	57.5	24.0	43.0	28.5
Merged-chr11-83560605-4	chr11	83560500	83560700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	18036.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	38.0	51.5	29.0	380.5	59.5	21.0	40.5	24.0
Merged-chr19-56822290-4	chr19	56822160	56822360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3949.0	NM_001002238	83561.0	Mm.247541	NM_031387	ENSMUSG00000025081	Tdrd1	MTR-1	tudor domain containing 1	protein-coding	141.0	229.0	110.5	1714.5	326.5	170.0	154.5	112.5
Merged-chr10-99380285-3	chr10	99380182	99380382	+	701.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117051.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	9.5	17.0	22.5	87.5	16.5	2.0	6.5	3.5
Merged-chr2-118861922-4	chr2	118861809	118862009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019826)	promoter-TSS (NM_019826)	-91.0	NM_019826	56357.0	Mm.6635	NM_019826	ENSMUSG00000027332	Ivd	1300016K07Rik|6720455E18Rik|AI463340	isovaleryl coenzyme A dehydrogenase	protein-coding	155.5	199.0	127.0	2064.0	273.0	86.5	109.5	105.0
Merged-chr15-38374000-4	chr15	38373874	38374074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73263.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	159.0	283.5	176.0	2383.0	404.0	117.0	179.5	96.0
Merged-chr4-103215322-4	chr4	103215205	103215405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356276)	promoter-TSS (NM_001356276)	-129.0	NM_177732	242585.0	Mm.281800	NM_177732	ENSMUSG00000028521	Slc35d1	AI834976|C330011J09|UGTREL7|mKIAA0260	solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1	protein-coding	31.5	30.5	57.0	351.5	54.0	24.0	19.5	19.0
Merged-chr11-117849188-4	chr11	117849098	117849298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009689)	promoter-TSS (NM_009689)	-39.0	NM_001012273	11799.0	Mm.8552	NM_009689	ENSMUSG00000017716	Birc5	AAC-11|Api4|TIAP|survivin40	baculoviral IAP repeat-containing 5	protein-coding	114.5	189.0	73.5	1033.5	229.0	81.0	89.0	74.5
Merged-chr1-74295693-4	chr1	74295597	74295797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027154, intron 1 of 11)	intron (NM_027154, intron 1 of 11)	8639.0	NM_027154	69660.0	Mm.261182	NM_027154	ENSMUSG00000006301	Tmbim1	2310061B02Rik|AA960455|AU024746|C78899|RECS1|Tmbib1|mKIAA4161	transmembrane BAX inhibitor motif containing 1	protein-coding	115.5	218.0	141.0	1260.0	171.0	63.0	54.5	50.0
Merged-chr2-117344116-4	chr2	117344021	117344221	+	937.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1244.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	15.5	13.0	15.5	199.5	31.5	8.0	17.0	20.5
Merged-chr17-56162398-4	chr17	56162298	56162498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025566)	promoter-TSS (NM_025566)	-93.0	NM_025566	66443.0	Mm.2312	NM_025566	ENSMUSG00000044469	Tnfaip8l1	2600017J23Rik|TIPE1	tumor necrosis factor, alpha-induced protein 8-like 1	protein-coding	170.0	366.5	175.0	2190.0	438.0	183.5	226.0	124.0
Merged-chr4-20042079-4	chr4	20041973	20042173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010281)	promoter-TSS (NM_010281)	21.0	NM_010281	14590.0	Mm.20461	NM_010281	ENSMUSG00000073987	Ggh	gamma-GH	gamma-glutamyl hydrolase	protein-coding	105.5	97.5	102.5	1167.0	190.0	46.5	132.0	64.5
Merged-chr2-72979124-5	chr2	72978971	72979171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045269)	promoter-TSS (NR_045269)	210.0	NM_001098425	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	52.0	80.5	84.5	787.5	227.5	72.5	95.5	68.0
Merged-chr17-72788271-4	chr17	72788203	72788403	+	946.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	-48325.0	NM_027166	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	16.0	20.5	6.5	192.0	23.5	3.0	12.5	18.5
Merged-chr4-135406369-4	chr4	135406267	135406467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8140.0	NM_145555	230822.0	Mm.35548	NM_145555	ENSMUSG00000043924	Ncmap	A330049M08Rik|AA545175|Mp11	noncompact myelin associated protein	protein-coding	67.0	58.5	41.0	550.0	47.5	23.5	25.5	22.0
Merged-chr18-66458581-4	chr18	66458481	66458681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021451)	promoter-TSS (NM_021451)	-23.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	153.5	368.5	151.0	2241.5	549.0	196.0	246.0	213.0
Merged-chr10-25131018-3	chr10	25130923	25131123	+	774.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69147.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	6.0	7.5	8.5	161.5	6.5	1.5	5.5	17.5
Merged-chr9-41950884-3	chr9	41950779	41950979	+	789.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126334.0	NM_001357261	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	9.0	19.0	16.0	161.0	9.0	4.0	12.5	3.5
Merged-chr12-86079077-4	chr12	86078981	86079181	+	942.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009368)	promoter-TSS (NM_009368)	-40.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	20.0	16.0	15.5	280.5	36.0	8.0	23.0	25.5
Merged-chr10-92861775-1	chr10	92861675	92861875	+	1000.0	f0_balb.idr	intron (NM_001347060, intron 61 of 67)	intron (NM_001347060, intron 61 of 67)	-139357.0	NM_008682	17997.0	Mm.2998	NM_008682	ENSMUSG00000019988	Nedd1	-	neural precursor cell expressed, developmentally down-regulated gene 1	protein-coding	5.0	5.5	18.0	163.5	2.0	0.0	1.0	3.5
Merged-chr2-181072323-4	chr2	181072212	181072412	+	793.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33135.0	NM_015730	11438.0	Mm.252369	NM_015730	ENSMUSG00000027577	Chrna4	Acra-4|Acra4|EBN1|ENFL1	cholinergic receptor, nicotinic, alpha polypeptide 4	protein-coding	11.5	15.0	8.0	113.0	25.0	11.0	10.0	11.0
Merged-chr8-84567689-4	chr8	84567595	84567795	+	928.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007578, exon 21 of 47)	exon (NM_007578, exon 21 of 47)	95157.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	75.5	80.5	104.0	1408.0	27.0	8.5	14.5	13.0
Merged-chr5-100674155-4	chr5	100673955	100674155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027978, exon 1 of 7)	exon (NM_027978, exon 1 of 7)	201.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	19.0	54.5	45.0	146.5	56.0	16.5	26.5	24.0
Merged-chr11-21225197-4	chr11	21225088	21225288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13844.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	125.5	130.5	112.0	1495.0	254.0	103.5	107.0	106.0
Merged-chr8-34765074-4	chr8	34764970	34765170	+	934.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42540.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	8.0	6.0	11.0	148.5	40.5	7.0	15.0	16.5
Merged-chr14-30672118-4	chr14	30671999	30672199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177815, intron 6 of 12)	intron (NM_177815, intron 6 of 12)	17724.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	37.0	53.5	25.0	523.0	108.5	49.0	38.0	36.5
Merged-chr7-97332252-4	chr7	97332152	97332352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039039)	promoter-TSS (NM_001039039)	-71.0	NM_001039039	622320.0	Mm.334029	NM_001039039	ENSMUSG00000044952	Kctd21	EG622320	potassium channel tetramerisation domain containing 21	protein-coding	188.0	261.5	181.5	2981.5	495.5	196.5	264.0	162.0
Merged-chr7-129759982-4	chr7	129759897	129760097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168134.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	54.5	40.0	58.5	791.5	86.5	22.0	22.5	35.5
Merged-chr5-65357150-4	chr5	65357053	65357253	+	981.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031180, intron 1 of 4)	Charlie21a|DNA|hAT-Charlie	8742.0	NM_031180	83379.0	Mm.45274	NM_031180	ENSMUSG00000029195	Klb	AV071179|betaKlotho	klotho beta	protein-coding	17.0	24.0	33.5	401.5	19.5	17.0	26.5	20.5
Merged-chr3-30600374-3	chr3	30600270	30600470	+	724.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029690)	promoter-TSS (NM_029690)	-500.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	10.5	9.5	3.5	73.0	33.5	9.0	7.0	5.5
Merged-chr7-131371165-4	chr7	131371073	131371273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039534)	promoter-TSS (NM_001039534)	27.0	NM_001039534	214580.0	Mm.272948	NM_177609	ENSMUSG00000063179	Pstk	5430423O14Rik|5730458D16Rik|Gm1099|R75284	phosphoseryl-tRNA kinase	protein-coding	79.0	97.5	90.5	1388.5	164.5	47.5	70.0	64.0
Merged-chr7-96409244-3	chr7	96409160	96409360	+	923.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 2 of 32)	intron (NM_011858, intron 2 of 32)	-67296.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	21.5	13.0	16.5	296.0	6.5	2.0	10.5	9.0
Merged-chr16-93034158-4	chr16	93034069	93034269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-208095.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	44.5	43.0	31.0	567.5	82.5	21.0	40.5	41.0
Merged-chr14-45107242-4	chr14	45107142	45107342	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112183.0	NM_172597	70561.0	Mm.28129	NM_172597	ENSMUSG00000021830	Txndc16	5730420B22Rik|C77647	thioredoxin domain containing 16	protein-coding	25.0	52.0	73.5	971.5	57.0	14.5	36.0	44.0
Merged-chr2-71047377-3	chr2	71047253	71047453	+	814.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	intron (NM_145524, intron 1 of 9)	8253.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	7.0	5.5	4.5	93.0	3.0	1.5	6.5	10.5
Merged-chr8-111659252-4	chr8	111659176	111659376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011742, intron 2 of 3)	MERVL_2A-int|LTR|ERVL	15833.0	NM_011742	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	67.5	109.0	50.0	730.5	134.0	82.5	81.5	72.5
Merged-chr12-54658936-4	chr12	54658856	54659056	+	801.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-2384.0	NM_134054	104725.0	Mm.485026	NM_134054	ENSMUSG00000044408	Sptssa	1110002B05Rik|AA407909|AA409588|AU041967|Ssspta	serine palmitoyltransferase, small subunit A	protein-coding	4.5	22.0	3.5	175.0	26.0	10.0	7.5	10.5
Merged-chr3-149085026-3	chr3	149084927	149085127	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130392.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	22.0	26.5	45.0	752.5	17.0	6.5	14.0	8.0
Merged-chr3-22076723-4	chr3	22076615	22076815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030732)	promoter-TSS (NM_030732)	63.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	81.5	77.5	69.0	1341.0	290.0	86.5	135.5	116.5
Merged-chr4-131921192-3	chr4	131921078	131921278	+	992.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201367)	promoter-TSS (NM_001201367)	-593.0	NM_001201367	623230.0	Mm.421179	NM_001201367	ENSMUSG00000070720	Tmem200b	EG623230	transmembrane protein 200B	protein-coding	13.5	28.0	18.0	140.0	16.0	3.5	5.5	6.0
Merged-chr7-139303462-4	chr7	139303369	139303569	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54987.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	13.0	22.0	7.0	134.0	12.0	15.5	16.0	11.0
Merged-chr11-68459677-4	chr11	68459563	68459763	+	987.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	L1ME2|LINE|L1	27538.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	21.5	41.0	13.0	188.0	72.5	25.5	18.5	17.0
Merged-chr7-113186185-2	chr7	113186085	113186285	+	593.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21280.0	NM_001243048	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	6.0	6.5	5.0	107.5	5.5	4.0	4.0	3.5
Merged-chr6-128437893-4	chr6	128437789	128437989	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028592)	promoter-TSS (NR_028592)	767.0	NM_010219	14228.0	Mm.12758	NM_010219	ENSMUSG00000030357	Fkbp4	AL022792|AW208983|FKBP-4|FKBP-52|FKBP52|FKPB52|p59	FK506 binding protein 4	protein-coding	21.0	18.5	19.5	307.5	34.0	14.0	18.5	27.5
Merged-chr1-152902437-1	chr1	152902337	152902537	+	1000.0	f0_c57.idr	intron (NM_001160257, intron 1 of 23)	CpG	208.0	NM_001359257	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	36.0	40.5	22.5	331.0	92.0	32.5	22.0	52.0
Merged-chr14-33276505-3	chr14	33276426	33276626	+	862.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 3 of 10)	B4A|SINE|B4	59703.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	4.0	10.0	7.5	226.0	8.0	10.0	7.0	9.5
Merged-chr2-166261989-4	chr2	166261860	166262060	+	941.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11948.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	12.0	11.5	20.5	362.5	23.0	4.5	21.0	18.0
Merged-chr18-36281042-4	chr18	36280937	36281137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008989)	promoter-TSS (NM_008989)	-125.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	83.5	129.0	48.5	999.0	238.5	103.5	100.0	128.0
Merged-chr1-151616722-4	chr1	151616643	151616843	+	935.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	RMER19B|LTR|ERVK	45370.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	21.0	19.5	8.5	170.0	37.0	17.5	17.5	9.5
Merged-chr2-91965048-4	chr2	91964942	91965142	+	930.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1479.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	11.5	15.0	6.5	313.5	45.5	10.0	19.5	21.5
Merged-chr1-36580767-4	chr1	36580673	36580873	+	817.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 11 of 14)	intron (NM_001126046, intron 11 of 14)	12559.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	8.5	3.0	13.5	90.5	23.0	11.5	9.5	10.0
Merged-chr2-59645191-1	chr2	59645091	59645291	+	1000.0	f0_balb.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	-1578.0	NM_001290659	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	12.5	7.5	8.0	146.0	12.0	2.0	9.0	7.0
Merged-chr10-8873793-3	chr10	8873690	8873890	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	L2|LINE|L2	12280.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	16.5	13.5	15.5	247.0	30.5	13.5	4.0	11.5
Merged-chr2-127362619-4	chr2	127362500	127362700	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009633)	promoter-TSS (NM_009633)	-686.0	NM_009633	11552.0	Mm.347390	NM_009633	ENSMUSG00000058620	Adra2b	Adra-2b|[a]2B|a2b-AR|alpha2-C2|alpha2B	adrenergic receptor, alpha 2b	protein-coding	21.0	20.5	11.5	200.5	39.0	22.5	26.0	16.5
Merged-chr5-62933810-4	chr5	62933691	62933891	+	839.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119968.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	3.0	4.0	7.0	75.0	27.5	11.5	18.0	15.5
Merged-chr10-37343075-3	chr10	37342955	37343155	+	558.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-204129.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	4.0	4.5	8.5	31.5	16.5	8.5	13.5	7.5
Merged-chr12-79123018-4	chr12	79122908	79123108	+	954.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7780.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	18.0	24.0	10.0	273.0	49.0	12.0	20.5	24.0
Merged-chr15-10714774-4	chr15	10714634	10714834	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166408)	promoter-TSS (NM_001166408)	-102.0	NR_045063	75259.0	Mm.33928	NR_045063	ENSMUSG00000096971	4930556M19Rik	1700009D01Rik|C130022M03Rik	RIKEN cDNA 4930556M19 gene	ncRNA	21.0	20.0	36.5	447.5	24.5	16.5	12.0	22.5
Merged-chr4-40978052-3	chr4	40977951	40978151	+	942.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290448, intron 2 of 15)	intron (NM_001290448, intron 2 of 15)	7108.0	NM_023739	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	10.0	17.0	17.0	256.0	34.0	7.5	8.0	3.5
Merged-chr9-88959152-3	chr9	88959046	88959246	+	605.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009742, intron 1 of 1)	intron (NM_009742, intron 1 of 1)	2226.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	6.0	5.0	6.0	32.5	26.5	4.5	9.5	11.5
Merged-chr10-34172980-5	chr10	34172882	34173082	+	935.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 2 of 5)	intron (NM_172508, intron 2 of 5)	34569.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	5.5	24.5	6.0	110.5	40.5	16.5	12.5	15.0
Merged-chr4-141541026-4	chr4	141540921	141541121	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2424.0	NM_019763	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	47.5	57.0	36.5	357.5	60.5	16.0	26.5	16.0
Merged-chr15-86185077-5	chr15	86185001	86185201	+	992.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155352)	promoter-TSS (NR_155352)	-627.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	16.5	26.5	29.0	305.5	44.5	16.0	17.5	25.5
Merged-chr4-136053047-2	chr4	136052947	136053147	+	878.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025919, intron 1 of 5)	CpG	324.0	NM_025919	67025.0	Mm.276856	NM_025919	ENSMUSG00000059291	Rpl11	2010203J19Rik	ribosomal protein L11	protein-coding	10.5	17.0	18.0	123.5	59.5	25.0	16.0	18.0
Merged-chr4-128984768-4	chr4	128984669	128984869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8455.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	21.0	26.0	32.5	652.5	108.0	19.5	32.0	42.0
Merged-chr1-149955676-4	chr1	149955573	149955773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	5617.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	19.5	32.0	42.0	894.5	50.5	16.5	27.0	27.5
Merged-chr2-129588141-4	chr2	129588016	129588216	+	834.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4723.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	15.0	32.5	5.5	52.5	25.0	15.0	7.0	2.0
Merged-chr2-162998720-4	chr2	162998625	162998825	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291154, intron 9 of 12)	intron (NM_001291154, intron 9 of 12)	7310.0	NM_001291152	27219.0	Mm.26462	NM_013731	ENSMUSG00000017868	Sgk2	AI098171|AW146006|Sgkl	serum/glucocorticoid regulated kinase 2	protein-coding	7.5	20.5	7.5	187.0	38.0	11.5	12.5	10.0
Merged-chr4-127041412-4	chr4	127041301	127041501	+	825.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	19753.0	NM_026670	68310.0	Mm.273806	NM_026670	ENSMUSG00000043872	Zmym1	5830412B09Rik|AW209050	zinc finger, MYM domain containing 1	protein-coding	13.0	11.0	6.0	70.0	33.0	9.0	15.5	8.5
Merged-chr19-16456338-4	chr19	16456239	16456439	+	907.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008137, intron 1 of 6)	intron (NM_008137, intron 1 of 6)	20672.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	11.0	21.5	11.0	285.0	33.0	13.0	18.5	18.5
Merged-chr17-32100301-2	chr17	32100201	32100401	+	944.8000490000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8878.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	5.0	7.0	5.0	70.0	10.0	2.5	3.0	4.5
Merged-chr7-126211110-4	chr7	126211012	126211212	+	923.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-10611.0	NM_028816	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	8.0	21.5	12.5	264.5	40.0	8.0	13.0	18.0
Merged-chr17-43077773-4	chr17	43077659	43077859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 4 of 5)	intron (NM_178589, intron 4 of 5)	61204.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	46.0	76.0	50.5	518.5	92.0	25.5	44.5	34.5
Merged-chr10-21077253-4	chr10	21077156	21077356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177776, intron 6 of 6)	intron (NM_001177776, intron 6 of 6)	36436.0	NM_001177776	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	26.0	35.0	32.0	514.5	66.0	23.5	30.5	28.5
Merged-chr5-43865478-4	chr5	43865370	43865570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3339.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	101.5	121.0	108.0	1369.5	179.5	48.5	78.0	69.5
Merged-chr15-9774925-4	chr15	9774838	9775038	+	899.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44-int|LTR|ERVK	-26070.0	NM_001305044	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	10.5	22.5	8.5	166.0	37.5	14.5	11.5	12.5
Merged-chr15-67088777-3	chr15	67088669	67088869	+	820.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88113.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	13.0	20.0	8.5	111.5	5.0	4.0	4.5	8.0
Merged-chr16-95730017-2	chr16	95729917	95730117	+	586.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27610.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	11.5	4.5	8.5	67.0	14.0	4.0	4.0	11.0
Merged-chr19-10698513-3	chr19	10698412	10698612	+	773.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	intron (NM_001361958, intron 1 of 4)	-2256.0	NM_001361964	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	5.5	19.0	2.0	128.0	11.5	5.0	9.5	7.0
Merged-chr5-66038415-4	chr5	66038329	66038529	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 3 of 6)	intron (NM_139065, intron 3 of 6)	-34144.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	21.0	54.0	33.0	405.5	77.0	16.5	30.0	29.5
Merged-chr11-87853800-2	chr11	87853700	87853900	+	862.166626	f1_balb.idr|f1_c57bl6.idr	exon (NM_001039684, exon 2 of 18)	exon (NM_001039684, exon 2 of 18)	575.0	NM_001039684	380718.0	Mm.24404	NM_001039684	ENSMUSG00000034121	Mks1	AK190930|B8d3|avc6	Meckel syndrome, type 1	protein-coding	6.5	6.0	12.0	36.0	9.0	2.0	7.5	7.5
Merged-chr4-149426622-4	chr4	149426414	149426614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_022022, exon 1 of 27)	5' UTR (NM_022022, exon 1 of 27)	117.0	NM_022022	63958.0	Mm.415260	NM_022022	ENSMUSG00000028960	Ube4b	4930551I19Rik|4933406G05Rik|AU014668|D4Bwg0973e|UFD2|UFD2a|Ufd2p|mKIAA0684	ubiquitination factor E4B	protein-coding	29.0	27.0	38.0	386.5	58.0	33.5	23.0	36.5
Merged-chr14-10453122-4	chr14	10453019	10453219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	intron (NM_001360141, intron 4 of 9)	339.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	57.5	113.5	37.0	633.0	171.5	77.5	65.5	42.5
Merged-chr6-47836225-3	chr6	47836130	47836330	+	875.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173034, intron 1 of 4)	CpG	569.0	NM_173034	272347.0	Mm.169059	NM_027477	ENSMUSG00000062519	Zfp398	5730513I23Rik	zinc finger protein 398	protein-coding	19.5	12.0	26.0	197.0	12.0	4.0	11.0	7.0
Merged-chr2-152197444-4	chr2	152197338	152197538	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29402.0	NM_007788	12995.0	Mm.23692	NM_007788	ENSMUSG00000074698	Csnk2a1	CK2|Csnk2a1-rs4	casein kinase 2, alpha 1 polypeptide	protein-coding	15.5	31.5	3.0	311.5	39.0	11.5	9.0	10.0
Merged-chr6-149174156-4	chr6	149174055	149174255	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153963, intron 1 of 4)	intron (NR_153963, intron 1 of 4)	14557.0	NM_001356344	232566.0	Mm.209147	NM_001113424	ENSMUSG00000068250	Amn1	5830467E07Rik|A230083D09|C730024G19Rik	antagonist of mitotic exit network 1	protein-coding	23.5	23.0	20.0	377.5	27.0	16.0	24.5	22.5
Merged-chr17-45745616-2	chr17	45745516	45745716	+	660.666626	f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 1 of 4)	intron (NR_152153, intron 1 of 4)	11110.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	8.0	10.0	8.5	44.0	14.5	12.5	8.0	8.5
Merged-chr13-13523722-3	chr13	13523632	13523832	+	834.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66677.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	2.0	10.0	2.0	89.0	20.5	6.0	9.0	7.5
Merged-chr10-76442853-4	chr10	76442757	76442957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282992)	promoter-TSS (NM_001282992)	55.0	NM_008787	18541.0	Mm.251794	NM_008787	ENSMUSG00000001151	Pcnt	AW476095|C86676|KEN|Pcnt2|kendrin|m239Asp|m275Asp	pericentrin (kendrin)	protein-coding	308.0	499.5	349.5	4937.0	660.0	269.0	380.5	275.5
Merged-chr2-137116136-3	chr2	137116046	137116246	+	748.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013822, intron 1 of 25)	CpG-8595	374.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	5.5	15.5	18.0	98.0	11.0	4.5	5.0	8.5
Merged-chr7-69993149-3	chr7	69993049	69993249	+	608.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	344673.0	NR_131145	624549.0	Mm.116344	NR_131144	ENSMUSG00000109097	Gm29683	Gm44536	predicted gene, 29683	ncRNA	8.0	4.0	0.5	119.0	14.5	9.0	4.5	8.5
Merged-chr18-73623273-4	chr18	73623186	73623386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	50581.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	27.0	39.5	32.5	579.5	82.0	28.5	47.5	30.0
Merged-chr13-43549959-4	chr13	43549854	43550054	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081059, intron 4 of 8)	intron (NM_001081059, intron 4 of 8)	10237.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	44.0	24.5	27.0	289.0	38.5	16.0	22.5	18.0
Merged-chr2-33452354-3	chr2	33452246	33452446	+	735.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027947, exon 4 of 4)	3' UTR (NM_027947, exon 4 of 4)	16186.0	NM_027947	71834.0	Mm.44186	NM_027947	ENSMUSG00000026788	Zbtb43	1700010E06Rik|Zfp297b|mKIAA0414	zinc finger and BTB domain containing 43	protein-coding	1.0	33.0	1.0	54.0	35.0	9.0	5.5	6.5
Merged-chr9-123924842-4	chr9	123924740	123924940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	43852.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	166.5	249.5	192.0	2042.5	459.0	187.0	231.0	150.5
Merged-chr19-40707687-4	chr19	40707585	40707785	+	981.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	BGLII_B2|LTR|ERVK	47915.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	33.5	20.0	24.0	242.5	40.5	13.5	15.0	14.0
Merged-chr11-115403866-4	chr11	115403752	115403952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361463)	promoter-TSS (NM_001361463)	100.0	NR_154991	68572.0	Mm.271062	NM_026729	ENSMUSG00000018858	Mrpl58	1110001A02Rik|1110002E03Rik|Ict1|MRP-L58	mitochondrial ribosomal protein L58	protein-coding	16.0	37.0	33.0	273.0	41.0	18.5	19.5	19.5
Merged-chr12-29693921-2	chr12	29693819	29694019	+	605.5	f0_balb.idr|f0_c57.idr	intron (NM_001361657, intron 3 of 24)	Lx|LINE|L1	-7474.0	NR_046080	328075.0	Mm.447832	NR_046080	ENSMUSG00000112663	C630031E19Rik	C630031E19	RIKEN cDNA C630031E19 gene	ncRNA	4.0	0.5	8.5	115.5	18.0	5.0	10.0	13.5
Merged-chr1-135680907-4	chr1	135680801	135681001	+	896.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39162.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	8.0	21.0	14.5	156.0	39.5	12.0	16.5	12.0
Merged-chr13-32801948-4	chr13	32801843	32802043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030215)	promoter-TSS (NM_030215)	-87.0	NM_030215	78903.0	Mm.286680	NM_030215	ENSMUSG00000021400	Wrnip1	4833444L21Rik|WHIP|Wrnip	Werner helicase interacting protein 1	protein-coding	280.5	409.5	291.5	4676.5	708.0	293.0	343.0	309.5
Merged-chr7-80340285-4	chr7	80340185	80340385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133952)	promoter-TSS (NM_133952)	-66.0	NM_133952	101869.0	Mm.243024	NM_133952	ENSMUSG00000030533	Unc45a	AW538196	unc-45 myosin chaperone A	protein-coding	104.5	162.5	97.5	1604.5	316.0	104.0	117.0	129.5
Merged-chr8-108662959-3	chr8	108662856	108663056	+	945.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51688.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	11.0	9.5	16.0	245.5	19.5	12.5	5.0	6.0
Merged-chr5-21175254-4	chr5	21175135	21175335	+	935.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1044.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	27.0	37.0	12.5	118.0	53.5	20.0	19.5	17.5
Merged-chr4-122898521-4	chr4	122898412	122898612	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12436.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	22.5	27.0	7.0	117.5	50.0	22.0	18.0	19.0
Merged-chr4-59808637-4	chr4	59808520	59808720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	B3A|SINE|B2	2970.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	22.5	53.0	35.5	598.0	87.0	23.0	39.0	20.0
Merged-chr17-45570098-2	chr17	45569998	45570198	+	631.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008302, intron 6 of 10)	intron (NM_008302, intron 6 of 10)	3163.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	9.5	11.0	4.0	27.0	21.0	6.5	5.5	19.0
Merged-chr9-40731866-1	chr9	40731766	40731966	+	603.5	f0_balb.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	45902.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	10.5	9.5	12.5	90.0	3.0	1.0	1.0	1.5
Merged-chr2-45654874-4	chr2	45654771	45654971	+	882.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-41734.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	12.5	33.5	25.0	206.5	38.5	7.5	25.5	9.0
Merged-chr4-117136195-4	chr4	117136091	117136291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2228.0	NM_001313916	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	93.0	103.5	66.0	1340.0	98.5	50.5	36.0	48.5
Merged-chr7-126626016-4	chr7	126625897	126626097	+	782.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019738)	promoter-TSS (NM_019738)	-527.0	NM_019738	56312.0	Mm.18742	NM_019738	ENSMUSG00000030717	Nupr1	2310032H04Rik|Com1|p8	nuclear protein transcription regulator 1	protein-coding	10.0	19.0	4.5	85.5	18.5	8.0	9.5	16.0
Merged-chr6-33400634-2	chr6	33400534	33400734	+	542.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347089, intron 7 of 9)	L1MB7|LINE|L1	151506.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	0.0	8.5	2.5	8.0	4.5	5.5	4.5	8.5
Merged-chr5-76140479-5	chr5	76140367	76140567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020611, exon 1 of 6)	exon (NM_020611, exon 1 of 6)	194.0	NM_020611	57357.0	Mm.289446	NM_020611	ENSMUSG00000029233	Srd5a3	1110025P14Rik|A430076C09|AV364670|AW987574|D730040M03Rik|H5ar|S5AR 3|Srd5a2l	steroid 5 alpha-reductase 3	protein-coding	141.0	250.5	241.5	2188.5	361.5	174.5	128.5	165.5
Merged-chr3-88043075-4	chr3	88042981	88043181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110809)	promoter-TSS (NM_001110809)	-25.0	NM_025663	66614.0	Mm.46029	NM_025663	ENSMUSG00000028069	Gpatch4	2610029K21Rik|Gpatc4	G patch domain containing 4	protein-coding	38.5	68.5	32.5	684.5	123.5	49.5	42.0	60.5
Merged-chr7-141437653-4	chr7	141437552	141437752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360523)	TTS (NM_001360523)	222.0	NM_026646	68267.0	Mm.33729	NM_026646	ENSMUSG00000019082	Slc25a22	1300006L01Rik|AI060884|Gc1	solute carrier family 25 (mitochondrial carrier, glutamate), member 22	protein-coding	43.0	68.5	40.5	537.0	137.0	35.0	51.5	60.5
Merged-chr16-52056343-4	chr16	52056243	52056443	+	916.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	24794.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	15.0	14.5	22.5	211.0	46.0	10.0	11.0	12.0
Merged-chr6-24527669-4	chr6	24527586	24527786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080847)	promoter-TSS (NM_080847)	4.0	NM_001311068	68202.0	Mm.275780	NM_026614	ENSMUSG00000023089	Ndufa5	2900002J19Rik|CI-13kD-B	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 5	protein-coding	165.0	232.5	146.0	2937.0	283.0	86.5	193.0	98.0
Merged-chr17-31559082-4	chr17	31558984	31559184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-5689.0	NR_027493	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	40.5	56.5	27.5	472.0	76.5	35.5	22.5	32.5
Merged-chr7-66135836-4	chr7	66135736	66135936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 2 of 2)	intron (NM_001081163, intron 2 of 2)	26321.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	81.0	115.5	71.5	1401.5	158.0	54.5	69.0	104.5
Merged-chr5-135956538-5	chr5	135956416	135956616	+	890.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17960.0	NM_001160366	109267.0	Mm.332750	NM_001160366	ENSMUSG00000029699	Ssc4d	C330016E03Rik|S4D-SRCRB|SRCRB-S4D|Srcrb4d	scavenger receptor cysteine rich family, 4 domains	protein-coding	9.0	8.5	16.0	211.5	8.5	1.0	3.5	10.5
Merged-chr10-19941353-4	chr10	19941266	19941466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	6840.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	89.0	108.0	56.5	1114.0	108.5	36.5	48.5	40.5
Merged-chr5-43786773-4	chr5	43786667	43786867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-4618.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	91.0	95.5	102.5	1631.5	120.0	51.5	65.5	50.0
Merged-chr2-103683082-4	chr2	103682989	103683189	+	971.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 2 of 16)	intron (NM_178890, intron 2 of 16)	78181.0	NM_153126	98956.0	Mm.288005	NM_153126	ENSMUSG00000027185	Nat10	AI429152	N-acetyltransferase 10	protein-coding	18.0	12.0	12.5	227.0	73.5	17.5	32.5	26.0
Merged-chr8-94810190-4	chr8	94810081	94810281	+	920.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011332)	promoter-TSS (NM_011332)	-272.0	NM_011332	20295.0	Mm.41988	NM_011332	ENSMUSG00000031780	Ccl17	Abcd-2|Scya17|Scya17l|Tarc	chemokine (C-C motif) ligand 17	protein-coding	12.0	12.5	21.5	181.0	42.5	15.0	23.0	16.5
Merged-chr3-95660386-2	chr3	95660286	95660486	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008562, intron 2 of 2)	intron (NM_008562, intron 2 of 2)	1665.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	4.5	8.5	1.5	53.5	29.5	9.5	5.0	5.5
Merged-chr16-93142314-4	chr16	93142195	93142395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	210894.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	55.5	104.0	33.0	270.5	212.5	97.5	48.0	34.0
Merged-chr10-121613773-4	chr10	121613691	121613891	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359618, intron 6 of 24)	intron (NM_001359618, intron 6 of 24)	12541.0	NM_001081056	73192.0	Mm.25042	NM_001081056	ENSMUSG00000034667	Xpot	1110004L07Rik|3110065H13Rik|AI452076|C79645|EXPORTIN-T	exportin, tRNA (nuclear export receptor for tRNAs)	protein-coding	10.0	11.0	19.5	378.0	32.5	7.0	18.0	19.5
Merged-chr9-107296645-4	chr9	107296541	107296741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009895)	promoter-TSS (NM_009895)	-18.0	NM_009895	12700.0	Mm.4592	NM_009895	ENSMUSG00000032578	Cish	CIS-1|CIS1|Cis|F17|F23|SOCS	cytokine inducible SH2-containing protein	protein-coding	32.0	44.0	48.5	473.5	101.0	47.0	53.0	52.5
Merged-chr13-119809123-4	chr13	119809047	119809247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-18025.0	NM_001302550	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	76.0	112.5	76.0	1593.0	226.5	68.5	108.0	89.5
Merged-chr13-59842366-4	chr13	59842270	59842470	+	912.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-19223.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	14.0	12.5	3.0	142.5	12.0	14.0	25.5	20.5
Merged-chr9-59551230-4	chr9	59551112	59551312	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	11672.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	8.0	30.0	13.5	430.0	31.0	14.0	22.5	18.0
Merged-chr7-49778754-3	chr7	49778653	49778853	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133740, intron 2 of 15)	CpG-13170	395.0	NM_133740	71974.0	Mm.33202	NM_133740	ENSMUSG00000030505	Prmt3	2010005E20Rik|2410018A17Rik|AL033309|Hrmt1l3	protein arginine N-methyltransferase 3	protein-coding	27.5	39.5	49.0	455.0	66.5	25.0	37.5	40.0
Merged-chr1-191071700-4	chr1	191071576	191071776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 4 of 5)	intron (NM_198654, intron 4 of 5)	8655.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	34.5	57.5	38.5	554.0	80.5	35.0	38.5	43.0
Merged-chr11-47171358-4	chr11	47171262	47171462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 3 of 7)	intron (NM_011891, intron 3 of 7)	207940.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	94.0	82.0	126.5	1669.0	128.0	61.0	96.5	71.5
Merged-chr12-71055692-4	chr12	71055591	71055791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081195, intron 11 of 23)	intron (NM_001081195, intron 11 of 23)	39724.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	59.5	73.0	48.5	907.5	101.0	56.5	40.5	28.5
Merged-chr3-96251932-4	chr3	96251852	96252052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5252.0	NM_054045	97114.0	Mm.358797	NM_054045	ENSMUSG00000081058	Hist2h3c2	H3-614|H3.2-614|Hist2h3c2-ps|Hist2h3ca1|M32461	histone cluster 2, H3c2	protein-coding	28.5	29.0	21.0	473.5	41.0	18.5	26.5	15.5
Merged-chr16-5444940-4	chr16	5444851	5445051	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-188995.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	44.0	41.5	22.5	537.0	34.5	10.0	5.5	10.0
Merged-chr7-81274493-3	chr7	81274389	81274589	+	739.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 1 of 21)	L1M3|LINE|L1	60685.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	5.5	14.0	8.5	91.5	6.0	2.5	4.0	7.5
Merged-chr6-116719116-4	chr6	116719007	116719207	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2349.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	22.5	16.0	18.0	261.0	55.0	14.0	39.0	25.5
Merged-chr4-32983475-4	chr4	32983416	32983616	+	957.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027491, exon 1 of 7)	exon (NM_027491, exon 1 of 7)	518.0	NM_027491	52187.0	Mm.300814	NM_027491	ENSMUSG00000028278	Rragd	5730543C08Rik|AI467523|C030003H22Rik|D4Ertd174e	Ras-related GTP binding D	protein-coding	14.5	24.5	20.5	431.0	22.5	12.0	8.0	16.5
Merged-chr2-5706799-4	chr2	5706703	5706903	+	834.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	7959.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	16.5	22.0	7.0	260.0	25.5	9.0	9.0	9.5
Merged-chr6-122571004-4	chr6	122570912	122571112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17203.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	126.5	156.0	152.5	1676.5	219.5	92.5	80.5	103.5
Merged-chr4-8793426-4	chr4	8793329	8793529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 2 of 36)	L1MA4|LINE|L1	42105.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	20.5	24.5	22.5	515.5	45.0	23.5	59.0	36.5
Merged-chr8-41368275-4	chr8	41368177	41368377	+	795.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019734, intron 1 of 13)	intron (NM_019734, intron 1 of 13)	6420.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	8.5	3.0	7.0	85.5	21.5	5.0	8.5	11.0
Merged-chr9-20888233-4	chr9	20888132	20888332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145610)	promoter-TSS (NM_145610)	57.0	NM_145610	235036.0	Mm.2930	NM_145610	ENSMUSG00000004100	Ppan	A230087P06Rik|SSF1	peter pan homolog	protein-coding	142.0	197.0	87.5	1513.5	302.5	120.0	162.5	168.0
Merged-chr14-76942109-3	chr14	76942048	76942248	+	766.305542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94469.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	0.0	4.5	2.0	37.0	24.5	17.5	15.0	15.0
Merged-chr12-5268130-5	chr12	5267960	5268160	+	820.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 2 of 13)	intron (NM_001164493, intron 2 of 13)	107622.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	7.5	4.0	10.5	175.0	12.5	9.0	9.0	6.5
Merged-chr10-117285133-4	chr10	117285032	117285232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2860.0	NM_017372	17105.0	Mm.45436	NM_017372	ENSMUSG00000069516	Lyz2	AI326280|Lys|Lysm|Lyzf2|Lyzs|Lzm|Lzm-s1|Lzp	lysozyme 2	protein-coding	74.5	85.5	69.5	953.0	125.5	52.0	57.5	60.5
Merged-chr6-13875161-4	chr6	13875082	13875282	+	966.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045995, intron 1 of 2)	MTE2a|LTR|ERVL-MaLR	3613.0	NR_045995	76311.0	Mm.367129	NR_045995	ENSMUSG00000097616	1110019D14Rik	-	RIKEN cDNA 1110019D14 gene	ncRNA	17.0	27.5	9.5	272.5	56.0	22.5	27.0	16.0
Merged-chr16-92415888-4	chr16	92415788	92415988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-15810.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	122.5	223.5	239.5	2314.5	229.5	98.5	136.0	119.5
Merged-chr7-79465753-2	chr7	79465653	79465853	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360095, intron 1 of 22)	CpG	520.0	NM_001360095	18975.0	Mm.3616	NM_017462	ENSMUSG00000039176	Polg	AA409516|PolgA	polymerase (DNA directed), gamma	protein-coding	22.5	12.5	33.5	161.5	40.0	13.0	14.5	23.5
Merged-chr6-92092250-4	chr6	92092171	92092371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347342)	promoter-TSS (NM_001347342)	-162.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	277.5	325.0	290.0	4278.5	570.0	259.0	320.5	235.0
Merged-chr11-105420897-4	chr11	105420795	105420995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039242, intron 4 of 5)	L2|LINE|L2	35840.0	NM_172568	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	74.0	146.5	71.0	872.0	200.0	76.5	67.5	46.0
Merged-chr2-167357078-4	chr2	167356972	167357172	+	767.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7894.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	9.0	14.0	5.0	121.0	34.0	9.0	10.0	7.0
Merged-chr16-44118223-4	chr16	44118119	44118319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	21040.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	59.5	57.5	45.5	879.0	139.0	40.5	47.5	25.5
Merged-chr4-74251844-4	chr4	74251744	74251944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144787)	promoter-TSS (NM_144787)	-35.0	NM_144787	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	380.0	507.0	328.0	6471.0	966.5	359.5	452.5	420.5
Merged-chr15-96466676-4	chr15	96466565	96466765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-5822.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	69.0	130.0	76.0	1145.0	69.0	31.0	31.5	26.5
Merged-chr5-92503550-4	chr5	92503427	92503627	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	2130.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	18.5	23.0	20.5	417.5	60.0	13.5	14.0	18.0
Merged-chr4-32057290-2	chr4	32057190	32057390	+	773.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93183.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	4.0	7.0	3.0	52.5	6.0	4.5	5.5	7.0
Merged-chr1-45864690-4	chr1	45864584	45864784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60910.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	60.0	29.5	131.5	1738.5	73.5	22.0	45.5	58.0
Merged-chr9-20644824-4	chr9	20644727	20644927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286530)	promoter-TSS (NM_001286530)	24.0	NR_153859	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	52.5	88.0	35.0	824.5	153.5	37.5	55.5	82.5
Merged-chr9-88405432-2	chr9	88405332	88405532	+	643.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359958, intron 8 of 28)	intron (NM_001359958, intron 8 of 28)	33519.0	NM_001359958	244962.0	Mm.439873	NM_172926	ENSMUSG00000032422	Snx14	B830022K16|C330035N22Rik|YR-14	sorting nexin 14	protein-coding	6.5	2.5	1.0	60.5	8.0	5.0	4.5	7.5
Merged-chr3-81050042-3	chr3	81049950	81050150	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	13634.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	35.5	53.5	45.5	610.5	16.5	6.5	14.0	3.0
Merged-chr19-59026002-8	chr19	59026007	59026207	+	868.0520630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 8 of 16)	intron (NM_001114312, intron 8 of 16)	49962.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	13.0	11.0	13.5	81.0	14.0	11.0	12.5	10.0
Merged-chr2-52496053-2	chr2	52495953	52496153	+	545.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	62558.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	7.0	6.0	8.0	67.5	26.0	0.0	3.0	5.5
Merged-chr4-126753607-4	chr4	126753577	126753777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011986)	promoter-TSS (NM_011986)	88.0	NM_001355412	26562.0	Mm.206206	NM_011986	ENSMUSG00000028833	Ncdn	AU042419|MMS10-AE|Ms10ae|mKIAA0607|norbin	neurochondrin	protein-coding	74.5	102.5	91.5	888.5	180.0	81.5	58.5	81.5
Merged-chr8-46138358-4	chr8	46138173	46138373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14127.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	33.5	64.0	58.5	598.0	90.5	48.5	36.5	34.0
Merged-chr13-23760874-2	chr13	23760794	23760994	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_013550)	TTS (NM_013550)	355.0	NM_178192	326619.0	Mm.228709	NM_178192	ENSMUSG00000060093	Hist1h4a	-	histone cluster 1, H4a	protein-coding	15.5	18.5	19.0	66.0	57.0	36.5	37.5	24.5
Merged-chr6-124805771-4	chr6	124805660	124805860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2901.0	NM_001306051	14794.0	Mm.261906	NM_013539	ENSMUSG00000038451	Spsb2	AI461677|C9|Grcc9|SSB2	splA/ryanodine receptor domain and SOCS box containing 2	protein-coding	103.0	164.0	72.0	1176.5	229.0	99.0	109.5	105.5
Merged-chr18-13787656-3	chr18	13787563	13787763	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360804, intron 5 of 7)	intron (NM_001360804, intron 5 of 7)	185070.0	NM_001360804	225207.0	Mm.40325	NM_145492	ENSMUSG00000024420	Zfp521	B930086A16Rik|Evi3|Znf521	zinc finger protein 521	protein-coding	12.0	10.5	6.0	134.0	10.0	8.0	4.0	4.0
Merged-chr7-44825053-4	chr7	44824962	44825162	+	892.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171024, intron 1 of 8)	intron (NM_001171024, intron 1 of 8)	-8404.0	NR_033136	107503.0	Mm.389890	NM_030693	ENSMUSG00000038539	Atf5	AFTA|Atf7|Atfx|ODA-10	activating transcription factor 5	protein-coding	11.5	17.5	9.0	145.0	41.5	11.5	16.5	13.0
Merged-chr9-99436536-4	chr9	99436440	99436640	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008624, exon 1 of 6)	5' UTR (NM_008624, exon 1 of 6)	172.0	NM_008624	17532.0	Mm.2045	NM_008624	ENSMUSG00000032470	Mras	2900078C09Rik|AI326250	muscle and microspikes RAS	protein-coding	24.5	20.5	25.5	270.0	49.0	10.5	21.0	23.0
Merged-chr1-87007902-3	chr1	87007798	87007998	+	902.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172157, intron 14 of 21)	MIR|SINE|MIR	82030.0	NM_007433	11650.0	Mm.195224	NM_007433	ENSMUSG00000026246	Alppl2	Akp5|C77216|D1Ertd816e|EAP	alkaline phosphatase, placental-like 2	protein-coding	6.0	9.0	8.0	187.5	9.5	1.0	4.5	8.0
Merged-chr1-13374244-6	chr1	13374098	13374298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008678)	promoter-TSS (NM_008678)	-115.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	38.0	31.0	39.5	386.5	50.0	25.5	30.0	30.0
Merged-chr7-114144164-3	chr7	114144064	114144264	+	831.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-26383.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	8.5	18.0	16.0	133.0	3.0	1.0	0.0	1.5
Merged-chr11-119913782-4	chr11	119913716	119913916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085498)	promoter-TSS (NM_001085498)	6.0	NM_001085498	208092.0	Mm.306673	NM_001085498	ENSMUSG00000025371	Chmp6	2400004G01Rik	charged multivesicular body protein 6	protein-coding	18.0	23.5	17.5	193.5	97.0	24.5	25.5	43.5
Merged-chr7-118704432-4	chr7	118704386	118704586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019580, intron 1 of 5)	intron (NM_019580, intron 1 of 5)	1252.0	NM_019580	56209.0	Mm.273142	NM_019580	ENSMUSG00000033917	Gde1	1200003M13Rik|Mir16|RGS16	glycerophosphodiester phosphodiesterase 1	protein-coding	8.5	10.0	25.0	159.0	107.0	42.5	45.0	47.0
Merged-chr4-148140372-8	chr4	148140231	148140431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027985)	promoter-TSS (NM_027985)	-159.0	NM_027985	71890.0	Mm.9648	NM_027985	ENSMUSG00000029003	Mad2l2	2310033C13Rik|G1-453-4|MAD2B|REV7|repro22	MAD2 mitotic arrest deficient-like 2	protein-coding	60.5	125.5	154.5	905.5	152.0	82.0	62.0	79.0
Merged-chr19-32311230-4	chr19	32311119	32311319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	38097.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	47.5	83.5	73.0	829.0	116.5	38.0	37.0	31.5
Merged-chr8-106153148-4	chr8	106153048	106153248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357319, intron 1 of 5)	intron (NM_001357319, intron 1 of 5)	2794.0	NM_001357319	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	126.0	197.0	88.0	1606.0	311.5	81.0	129.0	82.0
Merged-chr2-168981140-4	chr2	168981045	168981245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2876.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	92.5	107.5	87.0	1266.5	279.0	72.0	90.5	114.5
Merged-chr10-75586452-4	chr10	75586409	75586609	+	985.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008116)	TTS (NM_008116)	-2872.0	NM_011820	23887.0	Mm.257927	NM_011820	ENSMUSG00000006344	Ggt5	AI551243|GGL|GGT-REL|Ggtla1	gamma-glutamyltransferase 5	protein-coding	10.5	16.0	7.5	109.0	24.0	4.5	11.0	7.5
Merged-chr8-26950046-3	chr8	26949964	26950164	+	784.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-27272.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	21.5	17.5	10.0	323.0	18.0	1.5	8.0	4.5
Merged-chr5-33378533-4	chr5	33378418	33378618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081101)	promoter-TSS (NM_001081101)	-178.0	NR_153108	71101.0	Mm.132178	NM_027674	ENSMUSG00000037355	Uvssa	4933407H18Rik|D330017J19Rik|Kiaa1530|mKIAA1530	UV stimulated scaffold protein A	protein-coding	180.5	362.0	212.5	2568.0	502.5	229.5	209.0	217.0
Merged-chr11-98710649-4	chr11	98710550	98710750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361995, intron 16 of 25)	intron (NM_001361995, intron 16 of 25)	9337.0	NM_009971	12985.0	Mm.1238	NM_009971	ENSMUSG00000038067	Csf3	Csfg|G-CSF|MGI-IG	colony stimulating factor 3 (granulocyte)	protein-coding	37.0	55.5	47.0	510.5	96.5	34.0	25.5	32.0
Merged-chr4-132076856-3	chr4	132076765	132076965	+	753.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1552.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	5.0	4.0	5.5	65.0	7.5	5.0	5.0	4.5
Merged-chr11-23895236-4	chr11	23895153	23895353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172555)	promoter-TSS (NM_172555)	17.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	105.0	141.0	89.5	1503.5	223.5	60.5	118.0	105.0
Merged-chr8-95888469-4	chr8	95888365	95888565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010325)	promoter-TSS (NM_010325)	-100.0	NM_010325	14719.0	Mm.230169	NM_010325	ENSMUSG00000031672	Got2	AL022787|FABP-pm|Got-2|Kyat4|mAspAT	glutamatic-oxaloacetic transaminase 2, mitochondrial	protein-coding	80.0	119.5	77.0	1191.0	166.5	53.5	96.5	76.0
Merged-chr11-120629579-4	chr11	120629477	120629677	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010756, exon 3 of 3)	exon (NM_010756, exon 3 of 3)	3970.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	15.0	37.0	18.5	285.5	61.5	22.0	43.0	25.0
Merged-chr9-106475118-2	chr9	106475025	106475225	+	646.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_001311150, exon 3 of 11)	exon (NM_001311150, exon 3 of 11)	1824.0	NM_001311150	235587.0	Mm.273659	NM_145619	ENSMUSG00000023249	Parp3	A930002C11Rik|AW990611|Adprt3|Adprtl3|PARP-3|pADPRT-3	poly (ADP-ribose) polymerase family, member 3	protein-coding	9.0	19.0	7.5	60.0	1.0	1.5	1.5	1.0
Merged-chr11-76612815-4	chr11	76612766	76612966	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35127.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	18.0	17.0	9.0	298.5	21.5	9.5	10.0	10.5
Merged-chr5-32013223-4	chr5	32013104	32013304	+	874.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 10 of 11)	intron (NM_144541, intron 10 of 11)	-123268.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	5.5	7.5	8.5	177.0	14.5	5.0	9.5	15.5
Merged-chr5-148820604-2	chr5	148820504	148820704	+	953.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5B|DNA|hAT-Charlie	42641.0	NR_131106	78015.0	Mm.243839	NR_131106	ENSMUSG00000085740	4930505K14Rik	-	RIKEN cDNA 4930505K14 gene	ncRNA	1.5	10.5	4.0	56.5	17.0	5.5	8.5	11.0
Merged-chr4-43262983-4	chr4	43262767	43262967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 38 of 39)	intron (NM_001081413, intron 38 of 39)	-4292.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	30.0	46.0	49.5	445.5	30.5	18.0	36.0	27.5
Merged-chr6-114400596-4	chr6	114400485	114400685	+	844.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317126, intron 1 of 1)	intron (NM_001317126, intron 1 of 1)	2499.0	NM_001317126	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	23.0	45.0	20.5	572.5	22.5	8.0	9.5	7.5
Merged-chr14-60988308-4	chr14	60988156	60988356	+	807.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013869, intron 5 of 9)	intron (NM_013869, intron 5 of 9)	49731.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	7.0	1.0	4.0	48.5	28.5	17.0	9.0	6.0
Merged-chr6-86848647-2	chr6	86848547	86848747	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177762)	promoter-TSS (NM_177762)	793.0	NR_028298	67170.0	Mm.119489	NR_028298	ENSMUSG00000100164	2610306M01Rik	-	RIKEN cDNA 2610306M01 gene	ncRNA	13.0	4.0	4.0	130.0	33.5	5.0	6.0	9.5
Merged-chr4-134704396-4	chr4	134704292	134704492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207237)	promoter-TSS (NM_207237)	-102.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	235.5	317.5	179.5	2832.5	579.5	186.5	214.5	188.5
Merged-chr5-86805632-3	chr5	86805522	86805722	+	571.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177680, intron 1 of 16)	B1_Mur4|SINE|Alu	1356.0	NM_001359907	231386.0	Mm.196325	NM_177680	ENSMUSG00000035851	Ythdc1	A730098D12Rik|C80342|mKIAA1966	YTH domain containing 1	protein-coding	2.0	9.0	4.0	51.5	10.5	11.0	7.0	8.0
Merged-chr10-121409807-3	chr10	121409705	121409905	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_138956)	TTS (NM_138956)	44715.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	17.5	12.0	5.5	113.5	12.5	3.0	4.5	10.0
Merged-chr9-124012877-4	chr9	124012768	124012968	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-9103.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	10.5	37.5	17.5	289.0	34.0	12.5	12.5	12.5
Merged-chr1-66815465-2	chr1	66815365	66815565	+	839.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357156, intron 1 of 14)	intron (NM_001357156, intron 1 of 14)	2130.0	NM_177645	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	1.0	7.0	7.5	58.5	26.0	4.5	8.0	6.5
Merged-chr11-117949822-4	chr11	117949664	117949864	+	875.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	19602.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	10.0	30.0	6.5	105.5	25.0	11.5	11.0	11.5
Merged-chr9-44723153-4	chr9	44723080	44723280	+	948.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153537, intron 4 of 21)	intron (NM_153537, intron 4 of 21)	12018.0	NM_153537	102693.0	Mm.28639	NM_153537	ENSMUSG00000048537	Phldb1	AU041016|D330037A14Rik|Ll5a	pleckstrin homology like domain, family B, member 1	protein-coding	9.5	40.5	17.5	162.0	45.5	24.0	13.0	20.0
Merged-chr11-97629804-4	chr11	97629694	97629894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175332)	promoter-TSS (NM_175332)	-78.0	NM_175332	103551.0	Mm.24506	NM_175332	ENSMUSG00000043439	Epop	AA409164|AI413509|AW539173|E13|E130012A19Rik|esPRC2p48	elongin BC and polycomb repressive complex 2 associated protein	protein-coding	74.5	91.5	68.0	952.5	174.5	61.0	79.5	61.5
Merged-chr12-41438668-4	chr12	41438563	41438763	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	47394.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	17.5	13.0	41.0	815.0	29.5	6.5	18.0	25.0
Merged-chr4-108454827-4	chr4	108454716	108454916	+	900.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4610.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	10.5	14.5	18.0	175.0	19.5	9.0	8.5	19.0
Merged-chr17-78455315-4	chr17	78455213	78455413	+	788.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37161.0	NM_001285940	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	15.0	7.5	7.5	235.0	24.5	17.5	12.0	10.5
Merged-chr6-13598465-4	chr6	13598361	13598561	+	990.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155435, intron 1 of 3)	intron (NR_155435, intron 1 of 3)	9637.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	14.5	47.5	28.5	290.0	58.0	18.0	18.5	8.5
Merged-chr2-104687477-4	chr2	104687404	104687604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177190, intron 7 of 9)	intron (NM_177190, intron 7 of 9)	24658.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	24.5	77.5	46.0	518.0	158.5	53.0	43.0	32.5
Merged-chr9-35038243-2	chr9	35038143	35038343	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78485.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	7.0	12.0	6.0	111.0	30.0	11.0	10.5	14.5
Merged-chr3-97297291-4	chr3	97297157	97297357	+	826.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69893.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	13.0	7.5	15.0	107.5	10.5	5.5	5.5	15.0
Merged-chr10-37222030-4	chr10	37221934	37222134	+	915.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83108.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	15.5	23.5	11.0	128.0	41.5	15.5	17.5	2.0
Merged-chr4-137179015-2	chr4	137178915	137179115	+	846.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13949.0	NR_040443	100503595.0	Mm.421314	NR_040443	ENSMUSG00000085833	Gm13003	-	predicted gene 13003	ncRNA	7.0	8.0	5.5	67.0	15.5	3.0	7.5	10.0
Merged-chr7-110060960-1	chr7	110060860	110061060	+	1000.0	f0_balb.idr	promoter-TSS (NM_009281)	promoter-TSS (NM_009281)	-742.0	NM_009281	20841.0	Mm.10815	NM_009281	ENSMUSG00000061079	Zfp143	AA959806|AU015869|D7Ertd805e|KRAB14|SBF|Staf|Zfp79|Zfp80-rs1|Znf143|pHZ-1	zinc finger protein 143	protein-coding	11.5	19.5	24.0	198.5	39.0	14.5	20.5	22.0
Merged-chr7-73619221-1	chr7	73619121	73619321	+	794.0	f0_balb.idr	Intergenic	Intergenic	-60826.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	20.5	16.5	17.5	103.0	24.5	13.0	10.0	10.5
Merged-chr6-87851131-4	chr6	87851086	87851286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013493)	promoter-TSS (NM_013493)	-80.0	NM_001355195	12785.0	Mm.290251	NM_013493	ENSMUSG00000030057	Cnbp	AA408710|Cnbp1|Znf9	cellular nucleic acid binding protein	protein-coding	157.0	188.5	128.5	1813.5	270.0	109.5	173.0	141.5
Merged-chr1-162622113-3	chr1	162622004	162622204	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17046.0	NM_010865	17926.0	Mm.10694	NM_010865	ENSMUSG00000026697	Myoc	AI957332|GLC1A|TIGR	myocilin	protein-coding	88.0	112.0	104.0	1102.0	7.0	0.0	0.0	1.5
Merged-chr12-33083608-4	chr12	33083516	33083716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 2 of 19)	intron (NM_001024478, intron 2 of 19)	9259.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	43.0	42.5	43.5	548.0	68.5	26.5	30.0	24.0
Merged-chr8-126497757-4	chr8	126497652	126497852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22687.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	144.0	220.5	113.5	2076.5	252.5	94.5	112.5	113.5
Merged-chr1-65195678-3	chr1	65195596	65195796	+	720.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011086, exon 5 of 42)	exon (NM_011086, exon 5 of 42)	9011.0	NM_011086	18711.0	Mm.38370	NM_011086	ENSMUSG00000025949	Pikfyve	5230400C17Rik|Pip5k|Pip5k3|Pipk5k3|PipkIII|p235	phosphoinositide kinase, FYVE type zinc finger containing	protein-coding	9.0	13.0	11.5	105.5	10.0	4.5	15.5	1.5
Merged-chr6-54772219-4	chr6	54772122	54772322	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-44694.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	3.5	12.5	13.0	172.5	73.0	17.0	28.0	25.5
Merged-chr15-66818393-4	chr15	66818212	66818412	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	13517.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	4.0	5.0	10.5	96.5	4.5	5.5	5.0	7.5
Merged-chr4-66796938-4	chr4	66796854	66797054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30597.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	103.5	130.5	98.5	1794.5	207.0	71.5	101.0	87.5
Merged-chr14-57680142-4	chr14	57680029	57680229	+	844.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15173.0	NM_020506	57258.0	Mm.202747	NM_020506	ENSMUSG00000021952	Xpo4	B430309A01Rik|mKIAA1721	exportin 4	protein-coding	11.5	20.5	10.5	255.0	36.0	13.5	13.0	14.5
Merged-chr7-28598260-4	chr7	28598157	28598357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027470)	promoter-TSS (NM_027470)	-73.0	NM_027470	70584.0	Mm.21876	NM_027470	ENSMUSG00000030602	Pak4	5730488L07Rik|AW555722|mKIAA1142	p21 (RAC1) activated kinase 4	protein-coding	123.5	266.0	108.5	2060.0	398.0	138.0	172.5	163.5
Merged-chr16-14361576-4	chr16	14361455	14361655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008576)	promoter-TSS (NM_008576)	-3.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	105.5	190.5	91.5	1298.0	274.0	114.5	153.0	110.5
Merged-chr5-143059007-4	chr5	143058873	143059073	+	714.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	54047.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	13.0	3.5	8.0	65.5	24.0	12.5	8.0	5.5
Merged-chr15-101224164-4	chr15	101224080	101224280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019518)	promoter-TSS (NM_019518)	-27.0	NM_019518	56149.0	Mm.276573	NM_019518	ENSMUSG00000000531	Grasp	tamalin	GRP1 (general receptor for phosphoinositides 1)-associated scaffold protein	protein-coding	56.5	57.5	50.0	505.5	136.0	37.0	92.5	38.0
Merged-chr1-6624748-4	chr1	6624633	6624833	+	955.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001244693, intron 2 of 22)	MTD|LTR|ERVL-MaLR	-105318.0	NR_045189	240690.0	Mm.234612	NM_173868	ENSMUSG00000033740	St18	AV348974|Myt3|NZF-3|Nzf3|mKIAA0535	suppression of tumorigenicity 18	protein-coding	13.0	9.0	14.0	355.5	55.0	12.5	27.0	25.0
Merged-chr19-44373159-4	chr19	44373054	44373254	+	908.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34555.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	14.0	20.0	8.0	228.0	39.5	7.5	17.5	13.5
Merged-chr11-70562908-4	chr11	70562823	70563023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045959)	promoter-TSS (NM_001045959)	42.0	NM_016713	50932.0	Mm.42967	NM_016713	ENSMUSG00000020827	Mink1	B55|MINK|Map4k6|Ysk2	misshapen-like kinase 1 (zebrafish)	protein-coding	27.5	51.5	15.5	337.0	68.5	24.0	26.5	35.0
Merged-chr11-70396458-3	chr11	70396356	70396556	+	798.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029231, intron 12 of 16)	intron (NM_029231, intron 12 of 16)	13575.0	NM_029231	75273.0	Mm.340601	NM_029231	ENSMUSG00000018921	Pelp1	4930563C04Rik|MNAR	proline, glutamic acid and leucine rich protein 1	protein-coding	9.5	27.5	7.5	117.0	20.5	7.0	14.0	11.0
Merged-chr12-54820865-4	chr12	54820820	54821020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25258.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	34.5	45.0	40.0	398.5	55.0	19.5	32.5	28.5
Merged-chr6-119481096-3	chr6	119480998	119481198	+	860.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133940, exon 1 of 1)	3' UTR (NM_133940, exon 1 of 1)	1430.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	10.5	11.5	2.0	49.0	16.0	5.5	4.5	10.0
Merged-chr3-97737333-3	chr3	97737245	97737445	+	940.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 24 of 46)	intron (NM_001039376, intron 24 of 46)	30669.0	NM_178080	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	12.5	18.5	10.5	316.5	16.0	7.0	4.5	9.0
Merged-chr1-71731167-4	chr1	71731065	71731265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77830.0	NR_040308	100042814.0	Mm.405775	NR_040308	ENSMUSG00000073652	Apol7d	Gm15456	apolipoprotein L 7d	ncRNA	69.0	82.0	89.0	967.5	102.5	38.5	64.5	58.0
Merged-chr2-105016974-4	chr2	105016767	105016967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145380, intron 1 of 10)	CpG	160.0	NM_145380	98221.0	Mm.379278	NM_145380	ENSMUSG00000027170	Eif3m	Ga17|Pcid1|Tango7	eukaryotic translation initiation factor 3, subunit M	protein-coding	32.0	37.5	75.0	460.0	60.0	32.5	24.0	56.5
Merged-chr8-104376945-4	chr8	104376803	104377003	+	833.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	L1MC|LINE|L1	18904.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	10.5	9.5	11.0	227.0	24.0	6.0	7.5	14.5
Merged-chr2-45246791-4	chr2	45246676	45246876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129334.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	83.0	88.0	127.0	1543.0	169.0	51.5	68.0	77.0
Merged-chr16-87623929-4	chr16	87623836	87624036	+	831.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1VL4|LINE|L1	70606.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	11.5	12.0	19.0	104.0	29.0	11.0	17.5	15.5
Merged-chr16-4913163-4	chr16	4913055	4913255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 4 of 17)	intron (NM_001357062, intron 4 of 17)	-25956.0	NM_001316715	66911.0	Mm.428698	NM_025839	ENSMUSG00000022516	Nudt16l1	1110001K21Rik|5330437I08Rik|Sdos	nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1	protein-coding	125.0	190.5	104.0	2099.5	333.0	129.0	189.0	98.5
Merged-chr4-149737462-3	chr4	149737372	149737572	+	989.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284270, intron 1 of 10)	intron (NM_001284270, intron 1 of 10)	298.0	NM_001284273	230917.0	Mm.266704	NM_177672	ENSMUSG00000044700	Tmem201	AV028368|D4Ertd429e|Net5|Samp1	transmembrane protein 201	protein-coding	17.5	17.0	16.0	189.5	26.5	9.5	17.5	9.0
Merged-chr19-41777012-3	chr19	41776907	41777107	+	899.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027667, intron 9 of 11)	L1MB2|LINE|L1	25077.0	NM_001163495	71085.0	Mm.21646	NM_027667	ENSMUSG00000025154	Arhgap19	4933411B03Rik|AI120128|AW546831|mFLJ00368	Rho GTPase activating protein 19	protein-coding	9.0	2.5	2.0	28.5	52.5	12.0	17.0	15.5
Merged-chr6-135937550-4	chr6	135937491	135937691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008171, intron 4 of 14)	MIRb|SINE|MIR	235920.0	NM_008171	14812.0	Mm.436649	NM_008171	ENSMUSG00000030209	Grin2b	AW490526|GluN2B|NR2B|Nmdar2b	glutamate receptor, ionotropic, NMDA2B (epsilon 2)	protein-coding	20.5	33.5	37.5	685.0	161.0	57.0	77.0	49.0
Merged-chr8-84848060-5	chr8	84847917	84848117	+	892.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1086.0	NM_007591	12317.0	Mm.1971	NM_007591	ENSMUSG00000003814	Calr	CRT|Calregulin	calreticulin	protein-coding	14.0	9.0	10.0	159.5	32.5	10.0	14.5	16.0
Merged-chr1-120517755-4	chr1	120517660	120517860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12736.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	78.5	116.0	101.0	1322.5	349.0	165.0	183.5	164.0
Merged-chr3-51170419-4	chr3	51170324	51170524	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54023.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	4.5	23.0	4.0	259.5	41.5	14.0	21.5	17.5
Merged-chr3-89196703-4	chr3	89196604	89196804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6221.0	NM_001077411	14466.0	Mm.5031	NM_008094	ENSMUSG00000028048	Gba	GBA1|GC|GCase|GLUC|betaGC	glucosidase, beta, acid	protein-coding	103.5	148.0	99.5	1705.0	263.5	92.0	108.0	103.5
Merged-chr4-129789738-4	chr4	129789649	129789849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30730.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	66.5	87.5	40.5	938.0	160.5	60.0	51.5	50.5
Merged-chr1-156532213-4	chr1	156532115	156532315	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ETnERV-int|LTR|ERVK	-26572.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	18.5	36.0	12.5	342.0	65.0	19.5	18.5	16.5
Merged-chr11-105577481-2	chr11	105577381	105577581	+	624.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-12505.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	3.0	7.5	9.5	41.0	21.0	4.5	8.5	9.0
Merged-chr1-151585842-4	chr1	151585752	151585952	+	749.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	14479.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	12.0	10.5	3.0	111.0	20.0	13.0	14.0	11.5
Merged-chr15-93268225-4	chr15	93268119	93268319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346785, intron 1 of 7)	intron (NM_001346785, intron 1 of 7)	6960.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	50.0	61.5	69.0	833.0	141.0	36.0	55.5	32.5
Merged-chr17-73034608-4	chr17	73034510	73034710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73375.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	166.0	245.0	167.5	2469.0	306.5	101.0	188.5	129.0
Merged-chr15-83174353-4	chr15	83174239	83174439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2131.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	156.5	305.5	155.0	1809.0	431.5	177.5	176.5	151.5
Merged-chr8-70865802-4	chr8	70865684	70865884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	7706.0	NM_026964	234388.0	Mm.295791	NM_026964	ENSMUSG00000007721	Ccdc124	1810023B24Rik	coiled-coil domain containing 124	protein-coding	124.0	211.5	91.5	1161.0	277.5	147.5	129.0	125.5
Merged-chr12-102455879-4	chr12	102455771	102455971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13263.0	NM_001199004	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	22.5	20.0	37.5	664.0	90.0	29.0	64.5	60.0
Merged-chr17-34257842-4	chr17	34257740	34257940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5387.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	191.0	264.0	122.5	1498.0	520.5	177.0	187.0	175.5
Merged-chr2-158133246-4	chr2	158133144	158133344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 4 of 12)	intron (NM_009373, intron 4 of 12)	13148.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	297.0	460.5	353.5	4720.5	641.0	237.0	365.0	296.0
Merged-chr9-106230495-4	chr9	106230447	106230647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7949.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	74.5	146.5	44.5	834.5	157.5	65.0	54.5	49.5
Merged-chr3-52102114-4	chr3	52102002	52102202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	2904.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	293.0	368.5	350.0	3986.5	575.5	249.0	304.0	280.5
Merged-chr3-95283034-4	chr3	95282940	95283140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173347)	promoter-TSS (NM_173347)	105.0	NM_199475	75007.0	Mm.279287	NM_133858	ENSMUSG00000038712	Mindy1	1810005H09Rik|4930504E06Rik|AA562754|AA960384|AW561904|Fam63a|cI-40|mKIAA1390|ni	MINDY lysine 48 deubiquitinase 1	protein-coding	22.0	37.5	25.5	398.0	54.5	17.0	32.5	28.0
Merged-chr4-40183081-3	chr4	40182976	40183176	+	884.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007386, intron 12 of 20)	intron (NM_007386, intron 12 of 20)	39811.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	2.0	13.0	6.0	92.5	15.5	10.5	4.5	9.5
Merged-chr2-129914374-3	chr2	129914281	129914481	+	978.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97959.0	NM_009374	21818.0	Mm.2961	NM_009374	ENSMUSG00000027401	Tgm3	AI893889|TG E|TG(E)|TGE|TGase E|TGase-3|we	transglutaminase 3, E polypeptide	protein-coding	16.0	20.0	5.5	151.0	10.5	1.5	5.5	1.0
Merged-chr10-25319232-1	chr10	25319132	25319332	+	940.0	f0_balb.idr	Intergenic	Intergenic	-20069.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	10.5	3.5	6.0	147.5	12.5	8.5	4.5	8.5
Merged-chr11-6695432-4	chr11	6695328	6695528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	24609.0	NR_046025	626419.0	Mm.390334	NR_046025	ENSMUSG00000086808	Gm11981	-	predicted gene 11981	ncRNA	29.5	42.5	33.0	406.0	57.0	21.5	37.5	27.5
Merged-chr17-37538604-4	chr17	37538489	37538689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8632.0	NM_001005485	545205.0	Mm.383371	NM_001005485	ENSMUSG00000090675	Olfr111	-	olfactory receptor 111	protein-coding	86.0	66.0	120.0	1195.0	186.0	71.5	95.0	78.0
Merged-chr3-105877654-4	chr3	105877552	105877752	+	977.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	L1MEc|LINE|L1	6794.0	NM_001174169	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	18.5	31.0	16.5	346.5	71.5	10.5	21.0	21.0
Merged-chr5-107921584-4	chr5	107921467	107921667	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 2 of 4)	intron (NM_026062, intron 2 of 4)	21039.0	NM_016980	100503670.0	Mm.277897	NM_016980	ENSMUSG00000058558	Rpl5	U21RNA	ribosomal protein L5	protein-coding	24.5	16.0	11.0	207.5	49.0	16.5	22.0	8.5
Merged-chr3-79846779-2	chr3	79846681	79846881	+	705.25	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4119.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	12.0	4.5	1.5	117.0	24.0	10.5	6.5	8.5
Merged-chr6-98140947-3	chr6	98140844	98141044	+	635.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	149161.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	11.0	11.5	13.0	143.5	8.0	9.5	4.0	5.0
Merged-chr11-75150880-4	chr11	75150797	75150997	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 15 of 18)	B4A|SINE|B4	17255.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	6.0	22.5	7.5	184.5	36.0	14.0	22.0	10.5
Merged-chr10-81401364-4	chr10	81401216	81401416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 8 of 8)	intron (NM_026756, intron 8 of 8)	8252.0	NM_001099917	72273.0	Mm.253147	NM_001099917	ENSMUSG00000078439	Smim24	2210404O07Rik	small integral membrane protein 24	protein-coding	28.5	70.5	26.0	525.5	71.0	29.0	23.5	33.0
Merged-chr13-20099710-4	chr13	20099603	20099803	+	799.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	9196.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	14.0	10.0	19.0	376.5	26.5	5.0	17.0	11.0
Merged-chr6-134189956-4	chr6	134189851	134190051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	154251.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	54.5	145.0	90.0	990.5	165.5	71.5	78.0	37.0
Merged-chr18-82774517-3	chr18	82774433	82774633	+	828.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15494.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	1.5	4.0	6.0	111.0	12.5	7.5	7.5	7.0
Merged-chr2-84358827-4	chr2	84358725	84358925	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018782, intron 9 of 15)	intron (NM_018782, intron 9 of 15)	66441.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	25.0	20.5	26.0	348.0	30.5	18.0	20.0	15.5
Merged-chr17-69201143-4	chr17	69201045	69201245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	41789.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	80.5	124.5	92.5	1536.5	224.5	88.0	97.5	83.5
Merged-chr7-15976110-4	chr7	15976013	15976213	+	855.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081418, intron 10 of 13)	intron (NM_001081418, intron 10 of 13)	-8578.0	NM_153068	259300.0	Mm.138215	NM_153068	ENSMUSG00000074364	Ehd2	BC027084|C130052H20Rik	EH-domain containing 2	protein-coding	8.0	18.5	6.5	131.0	27.0	23.5	11.5	11.0
Merged-chr2-152080933-4	chr2	152080830	152081030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160410)	promoter-TSS (NM_001160410)	-599.0	NM_001160410	545474.0	Mm.214317	NM_001160410	ENSMUSG00000060257	Scrt2	AW060659	scratch family zinc finger 2	protein-coding	33.5	27.0	39.0	826.0	74.0	23.0	59.5	36.5
Merged-chr3-100921649-2	chr3	100921549	100921749	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165953)	promoter-TSS (NM_001165953)	-844.0	NM_001165952	229644.0	Mm.189351	NM_194343	ENSMUSG00000033233	Trim45	4921530N01Rik	tripartite motif-containing 45	protein-coding	5.5	14.0	7.0	69.0	25.5	9.5	2.0	14.5
Merged-chr12-85366605-4	chr12	85366501	85366701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 1 of 4)	intron (NM_026775, intron 1 of 4)	8116.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	122.5	192.5	142.0	1519.5	221.0	53.5	127.5	84.5
Merged-chr6-137694542-4	chr6	137694420	137694620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR24|LTR|ERV1	-40562.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	31.0	20.5	23.0	512.0	55.0	7.0	28.0	28.5
Merged-chr1-92985910-6	chr1	92985823	92986023	+	985.172241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_022320, exon 2 of 2)	3' UTR (NM_022320, exon 2 of 2)	7020.0	NM_022320	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	20.0	24.0	34.0	265.5	47.5	8.0	15.5	9.5
Merged-chr5-142401926-4	chr5	142401826	142402026	+	888.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_199068, exon 1 of 9)	exon (NM_199068, exon 1 of 9)	429.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	8.5	18.5	13.0	100.0	10.0	5.5	13.0	16.5
Merged-chr17-70122265-3	chr17	70122160	70122360	+	916.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 2 of 14)	intron (NM_001347411, intron 2 of 14)	153187.0	NM_001347411	224997.0	Mm.311840	NM_027712	ENSMUSG00000003279	Dlgap1	4933422O14Rik|9630002F18|AI845682|AI848168|BB075781|D17Bwg0511e|GKAP/SAPAP|GKPA/SAPAP|Gkap|Sapap1|mKIAA4162	DLG associated protein 1	protein-coding	8.5	14.0	33.5	720.5	4.5	0.0	3.0	1.5
Merged-chr1-131974270-4	chr1	131974162	131974362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145977, intron 1 of 4)	intron (NM_145977, intron 1 of 4)	3653.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	45.0	39.5	41.0	794.5	123.0	46.0	64.0	56.0
Merged-chr1-191741237-4	chr1	191741133	191741333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134829, intron 2 of 7)	intron (NM_001134829, intron 2 of 7)	22838.0	NM_001134829	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	26.5	10.5	18.0	373.5	75.0	28.0	32.5	41.0
Merged-chr1-165751364-4	chr1	165751260	165751460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12398.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	41.0	48.0	28.5	663.5	120.5	35.0	56.5	58.0
Merged-chr4-142065572-3	chr4	142065472	142065672	+	668.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	MIRc|SINE|MIR	-18726.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	6.0	5.0	13.0	116.0	21.0	7.0	2.5	3.0
Merged-chr16-91694899-4	chr16	91694792	91694992	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026994, intron 8 of 11)	intron (NM_026994, intron 8 of 11)	5994.0	NR_040389	100038392.0	Mm.440384	NR_040389	ENSMUSG00000085169	Gm10785	-	predicted gene 10785	ncRNA	7.5	13.0	9.0	43.0	45.0	23.0	21.0	9.5
Merged-chr6-115375083-4	chr6	115374986	115375186	+	805.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 1 of 7)	L3|LINE|CR1	12737.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	13.0	7.5	5.0	85.0	26.0	7.0	7.0	18.5
Merged-chr8-25200530-4	chr8	25200452	25200652	+	780.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177089, intron 1 of 12)	intron (NM_177089, intron 1 of 12)	990.0	NM_199323	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	3.0	8.0	2.0	80.0	7.0	5.0	5.5	5.0
Merged-chr12-10390793-4	chr12	10390681	10390881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023697)	promoter-TSS (NM_023697)	1.0	NM_023697	105014.0	Mm.119343	NM_023697	ENSMUSG00000020621	Rdh14	3110030G19Rik|AW215439|PAN2	retinol dehydrogenase 14 (all-trans and 9-cis)	protein-coding	200.5	278.5	268.5	3680.5	484.5	154.0	241.5	199.0
Merged-chr13-95563795-4	chr13	95563654	95563854	+	789.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38514.0	NM_007974	14063.0	Mm.1614	NM_007974	ENSMUSG00000021678	F2rl1	Gpcr11|PAR-2|Par2	coagulation factor II (thrombin) receptor-like 1	protein-coding	8.0	16.0	12.0	108.5	18.5	11.0	5.0	12.5
Merged-chr19-53394819-4	chr19	53394735	53394935	+	997.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-4201.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	25.0	36.5	27.5	319.5	62.5	30.0	17.0	20.5
Merged-chr5-120907603-4	chr5	120907531	120907731	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145211)	promoter-TSS (NM_145211)	-106.0	NM_145211	246730.0	Mm.14301	NM_145211	ENSMUSG00000052776	Oas1a	L3	2'-5' oligoadenylate synthetase 1A	protein-coding	12.5	19.0	21.5	216.0	41.5	17.0	15.0	13.5
Merged-chr5-115514876-4	chr5	115514781	115514981	+	932.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	8205.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	10.5	16.5	16.0	149.0	11.5	6.5	13.5	8.5
Merged-chr6-124830534-2	chr6	124830434	124830634	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_013538, exon 2 of 6)	exon (NM_013538, exon 2 of 6)	358.0	NM_013538	14793.0	Mm.285723	NM_013538	ENSMUSG00000023505	Cdca3	2410005A12Rik|C8|Grcc8|Tome-1	cell division cycle associated 3	protein-coding	5.0	2.0	4.0	30.5	9.5	8.0	6.5	9.5
Merged-chr17-57249442-4	chr17	57249327	57249527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134125)	promoter-TSS (NM_134125)	-24.0	NM_001242391	106628.0	Mm.37368	NM_134125	ENSMUSG00000019487	Trip10	AI646975|Cip4	thyroid hormone receptor interactor 10	protein-coding	92.5	156.5	39.0	1047.5	199.5	96.5	105.0	44.5
Merged-chr4-134828092-3	chr4	134827962	134828162	+	773.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001355501, exon 4 of 9)	exon (NM_001355501, exon 4 of 9)	25283.0	NM_001355501	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	9.5	8.5	12.0	108.5	12.5	1.0	1.5	3.5
Merged-chr1-183299346-4	chr1	183299234	183299434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181732, intron 1 of 9)	RLTR33|LTR|ERVK	-2041.0	NR_151660	71678.0	Mm.392270	NM_027861	ENSMUSG00000046836	Brox	0610010K06Rik	BRO1 domain and CAAX motif containing	protein-coding	105.0	112.5	207.5	1189.0	118.0	59.5	59.5	196.0
Merged-chr4-98384769-4	chr4	98384666	98384866	+	987.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1501.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	15.0	30.0	17.5	343.0	60.5	27.0	27.5	21.5
Merged-chr11-69129917-3	chr11	69129878	69130078	+	743.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011786, intron 4 of 14)	intron (NM_011786, intron 4 of 14)	3601.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	1.5	0.0	1.0	27.0	37.5	5.5	12.5	8.5
Merged-chr2-52897239-4	chr2	52897179	52897379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	39411.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	96.0	81.0	133.5	1449.0	211.0	85.5	101.0	97.5
Merged-chr7-128062654-4	chr7	128062554	128062754	+	946.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082960)	promoter-TSS (NM_001082960)	14.0	NM_008401	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	36.5	40.5	16.5	454.5	55.5	9.0	29.0	24.5
Merged-chr10-120883024-3	chr10	120882916	120883116	+	857.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 1 of 6)	intron (NM_177092, intron 1 of 6)	15955.0	NM_177092	320183.0	Mm.169755	NM_177092	ENSMUSG00000051236	Msrb3	D430026P16Rik|I-8-23|MsrB2	methionine sulfoxide reductase B3	protein-coding	23.5	67.5	25.5	307.5	11.5	6.0	5.5	3.5
Merged-chr16-4464855-4	chr16	4464716	4464916	+	920.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44318.0	NM_009624	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	21.0	13.0	13.5	302.5	29.5	8.5	9.5	22.0
Merged-chr2-144730553-3	chr2	144730452	144730652	+	855.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	intron (NM_025314, intron 4 of 5)	-93114.0	NM_025490	66328.0	Mm.45377	NM_025490	ENSMUSG00000027431	Scp2d1	1700010M22Rik	SCP2 sterol-binding domain containing 1	protein-coding	10.0	7.0	5.0	86.5	13.0	3.5	3.0	3.5
Merged-chr19-3928139-4	chr19	3928040	3928240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026316, intron 1 of 9)	intron (NM_026316, intron 1 of 9)	1576.0	NM_026316	67689.0	Mm.109341	NM_026316	ENSMUSG00000024885	Aldh3b1	1700001N19Rik|ALDH4|ALDH7	aldehyde dehydrogenase 3 family, member B1	protein-coding	42.5	60.0	39.5	626.5	104.5	35.5	42.0	47.0
Merged-chr15-80561317-4	chr15	80561212	80561412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163189)	promoter-TSS (NM_001163189)	-842.0	NM_001163189	383075.0	Mm.297626	NM_001163189	ENSMUSG00000050439	Enthd1	Gm1242|Gm86	ENTH domain containing 1	protein-coding	28.5	66.0	32.0	512.0	79.5	37.0	24.5	29.0
Merged-chr17-36839225-4	chr17	36839137	36839337	+	934.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025599, intron 2 of 9)	Lx4A|LINE|L1	2091.0	NM_001286726	22670.0	Mm.34587	NM_030698	ENSMUSG00000024457	Trim26	AI462198|Zfp173|Zfp1736	tripartite motif-containing 26	protein-coding	19.0	19.5	10.0	220.0	47.0	13.5	23.5	20.0
Merged-chr10-44474416-4	chr10	44474312	44474512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15664.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	47.0	63.0	55.0	703.5	106.0	24.5	50.0	42.5
Merged-chr18-56572939-4	chr18	56572868	56573068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019996)	promoter-TSS (NM_019996)	-29.0	NM_001127338	110695.0	Mm.30250	NM_138600	ENSMUSG00000053644	Aldh7a1	Atq1|D18Wsu181e	aldehyde dehydrogenase family 7, member A1	protein-coding	107.5	140.5	101.0	2060.0	280.0	96.0	200.5	143.0
Merged-chr7-141228705-4	chr7	141228631	141228831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081118)	promoter-TSS (NM_001081118)	-57.0	NM_001081118	101471.0	Mm.248656	NM_207211	ENSMUSG00000038611	Phrf1	AA673488	PHD and ring finger domains 1	protein-coding	42.0	91.0	48.0	671.5	127.0	78.5	67.0	63.0
Merged-chr12-52006486-4	chr12	52006422	52006622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029545)	promoter-TSS (NM_029545)	-15.0	NM_001347404	328092.0	Mm.2821	NM_029545	ENSMUSG00000020956	Dtd2	4930578F06Rik|6530401N04Rik|B830049N13Rik	D-tyrosyl-tRNA deacylase 2	protein-coding	69.5	76.5	43.0	742.0	164.0	61.0	66.5	57.5
Merged-chr7-80753901-1	chr7	80753801	80754001	+	944.0	f1_c57bl6.idr	intron (NM_016721, intron 11 of 37)	intron (NM_016721, intron 11 of 37)	49430.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	31.5	26.5	17.0	291.0	19.0	5.0	13.0	15.0
Merged-chr17-23968868-2	chr17	23968751	23968951	+	840.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6379.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	5.0	4.0	5.0	58.5	20.0	8.0	9.5	6.5
Merged-chr8-86827390-1	chr8	86827290	86827490	+	673.0	f0_balb.idr	Intergenic	RMER19C|LTR|ERVK	57868.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	8.0	7.0	4.5	113.5	2.0	0.0	0.0	4.0
Merged-chr17-28697534-4	chr17	28697426	28697626	+	973.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	4958.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	45.0	41.0	9.5	218.5	85.0	29.0	22.5	13.5
Merged-chr19-38015750-4	chr19	38015637	38015837	+	992.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 3 of 53)	intron (NM_001302140, intron 3 of 53)	27840.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	99.5	99.0	75.0	1148.0	57.5	30.5	34.0	21.5
Merged-chr3-103858252-3	chr3	103858119	103858319	+	897.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1576.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	2.5	6.0	5.0	52.0	17.5	11.5	5.0	15.0
Merged-chr4-80310844-4	chr4	80310747	80310947	+	981.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-523366.0	NM_031202	22178.0	Mm.30438	NM_031202	ENSMUSG00000005994	Tyrp1	Oca3|TRP-1|TRP1|Tyrp|b|brown|isa	tyrosinase-related protein 1	protein-coding	31.0	16.0	33.0	571.0	60.0	15.5	33.0	21.0
Merged-chr18-62985876-4	chr18	62985758	62985958	+	859.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028017, intron 5 of 11)	MER102c|DNA|hAT-Charlie	7942.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	10.0	12.5	6.0	184.5	47.5	5.0	11.0	26.5
Merged-chr15-80704473-4	chr15	80704388	80704588	+	873.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6825.0	NM_144812	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	14.0	10.0	4.0	112.0	36.0	8.0	16.5	17.5
Merged-chr5-150900886-3	chr5	150900795	150900995	+	638.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-51712.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	7.5	0.0	20.5	277.5	23.5	5.0	8.0	7.5
Merged-chr8-117295022-4	chr8	117294920	117295120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	MTE2b|LTR|ERVL-MaLR	38001.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	39.0	47.0	35.5	603.5	57.5	25.5	34.0	26.5
Merged-chr13-100676338-6	chr13	100676251	100676451	+	823.235718	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168386, intron 1 of 9)	intron (NM_001168386, intron 1 of 9)	6870.0	NM_001168386	76041.0	Mm.23977	NM_183115	ENSMUSG00000048924	Ccdc125	5830436D01Rik|AL023012	coiled-coil domain containing 125	protein-coding	8.5	5.0	5.0	85.0	28.0	16.5	10.5	15.5
Merged-chr9-41051708-4	chr9	41051596	41051796	+	862.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	27810.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	6.5	7.0	7.5	169.0	25.5	15.0	11.5	20.0
Merged-chr12-86950780-4	chr12	86950679	86950879	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173735, intron 1 of 3)	intron (NM_173735, intron 1 of 3)	3436.0	NM_001289432	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	36.0	45.0	29.0	733.5	64.0	17.5	23.5	18.0
Merged-chr6-145289187-4	chr6	145289096	145289296	+	869.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38644.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	9.0	5.0	12.0	216.5	22.0	2.5	14.0	7.5
Merged-chr13-111640491-3	chr13	111640375	111640575	+	800.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45703.0	NM_172593	218613.0	Mm.31012	NM_172593	ENSMUSG00000032727	Mier3	5730509D14|AU015422|D130064H19Rik	MIER family member 3	protein-coding	8.5	11.5	15.5	133.5	11.0	11.0	8.0	11.0
Merged-chr6-47176204-4	chr6	47176110	47176310	+	877.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 20 of 23)	intron (NM_001004357, intron 20 of 23)	-68186.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	15.0	11.0	10.5	232.5	25.5	6.5	13.0	28.0
Merged-chr3-36863663-1	chr3	36863563	36863763	+	1000.0	f0_balb.idr	intron (NM_172679, intron 1 of 85)	intron (NM_172679, intron 1 of 85)	557.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	13.0	17.5	10.5	215.5	24.0	1.0	4.5	10.0
Merged-chr7-90070019-4	chr7	90069938	90070138	+	869.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40879.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	12.0	18.0	15.5	149.0	50.5	14.5	18.5	9.0
Merged-chr12-117853532-4	chr12	117853438	117853638	+	813.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146040, intron 1 of 9)	intron (NM_146040, intron 1 of 9)	9677.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	3.5	15.5	6.5	189.5	26.5	7.5	11.0	8.0
Merged-chr5-65973394-4	chr5	65973303	65973503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081104, intron 4 of 4)	LTR84a|LTR|ERVL	6279.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	87.5	156.0	84.5	1240.5	228.0	109.5	69.0	83.5
Merged-chr6-142715099-4	chr6	142715007	142715207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12833.0	NM_001310143	20928.0	Mm.35670	NM_011511	ENSMUSG00000030249	Abcc9	AI414027|AI449286|SUR2A|SUR2B|Sur2	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	protein-coding	33.0	29.0	46.0	803.5	55.5	18.5	40.5	37.0
Merged-chr12-54959771-4	chr12	54959676	54959876	+	988.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013815, intron 3 of 26)	L1MB4|LINE|L1	26560.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	47.5	52.0	23.0	546.0	66.0	32.0	20.5	24.0
Merged-chr16-91764201-3	chr16	91764108	91764308	+	845.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	34837.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	16.5	18.5	6.5	140.5	22.0	9.5	7.0	9.5
Merged-chr8-94782868-4	chr8	94782762	94782962	+	903.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009142)	TTS (NM_009142)	10682.0	NM_009142	20312.0	Mm.103711	NM_009142	ENSMUSG00000031778	Cx3cl1	AB030188|ABCD-3|AI848747|CX3C|Cxc3|D8Bwg0439e|Scyd1	chemokine (C-X3-C motif) ligand 1	protein-coding	13.5	16.5	6.5	58.5	66.0	17.5	24.0	31.5
Merged-chr2-84967583-4	chr2	84967471	84967671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12890.0	NM_008920	19074.0	Mm.142727	NM_008920	ENSMUSG00000027073	Prg2	EMBP|MBP|mMBP|mMBP-1	proteoglycan 2, bone marrow	protein-coding	29.0	38.0	41.0	669.5	118.5	27.0	34.5	50.0
Merged-chr18-36379503-3	chr18	36379395	36379595	+	873.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081365, intron 2 of 2)	intron (NM_001081365, intron 2 of 2)	30871.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	16.0	6.5	13.0	236.0	3.0	4.0	1.0	7.0
Merged-chr2-61139118-4	chr2	61139033	61139233	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163982.0	NR_045335	100038493.0	Mm.388076	NR_045335	ENSMUSG00000075325	Gm13582	-	predicted gene 13582	ncRNA	42.0	44.0	21.0	579.5	22.0	7.5	17.0	11.5
Merged-chr15-79109334-7	chr15	79109212	79109412	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177461, exon 1 of 16)	exon (NM_177461, exon 1 of 16)	329.0	NM_177461	27008.0	Mm.196480	NM_177461	ENSMUSG00000033039	Micall1	AI448246|D15Mit260|D15N2e|EST573322|EST820961|MIRab13|mKIAA1668	microtubule associated monooxygenase, calponin and LIM domain containing -like 1	protein-coding	12.0	32.5	22.0	150.0	18.5	15.0	10.0	17.0
Merged-chr8-104219282-4	chr8	104219155	104219355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001141922)	TTS (NM_001141922)	29303.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	78.5	90.0	58.0	742.0	92.0	28.5	41.0	40.0
Merged-chr3-54709181-4	chr3	54709069	54709269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019995, exon 11 of 20)	exon (NM_019995, exon 11 of 20)	14046.0	NM_001358015	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	67.0	98.0	76.5	1781.0	180.5	62.0	90.5	67.5
Merged-chr10-34096692-4	chr10	34096600	34096800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178908)	promoter-TSS (NM_178908)	-181.0	NM_178908	103511.0	Mm.66334	NM_178908	ENSMUSG00000049872	Fam26e	BB146404|Calhm5	family with sequence similarity 26, member E	protein-coding	56.5	85.0	63.5	976.0	105.0	32.0	49.5	39.5
Merged-chr2-159646806-4	chr2	159646701	159646901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-300540.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	41.0	49.0	33.5	1097.0	112.5	32.5	59.5	41.0
Merged-chr5-9059566-4	chr5	9059486	9059686	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41151.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	12.5	30.5	25.0	326.0	88.5	14.0	23.5	25.0
Merged-chr1-37860541-4	chr1	37860443	37860643	+	953.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290720, intron 1 of 17)	ORR1B2|LTR|ERVL-MaLR	4539.0	NM_207228	211484.0	Mm.332756	NM_207228	ENSMUSG00000060771	Tsga10	4933432N21Rik|AI843383|Gm217|Mtsga10	testis specific 10	protein-coding	17.5	33.0	14.0	210.5	48.0	13.5	18.5	27.0
Merged-chr13-101801477-4	chr13	101801438	101801638	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33321.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	10.5	12.0	22.0	273.5	24.0	10.5	10.5	21.0
Merged-chr2-45113082-4	chr2	45112977	45113177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355289, exon 2 of 11)	5' UTR (NM_001355289, exon 2 of 11)	175.0	NM_001355290	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	33.0	86.5	24.5	252.5	71.5	47.0	37.0	33.5
Merged-chr15-58750208-4	chr15	58750110	58750310	+	957.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73217.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	10.0	6.0	20.0	155.0	22.0	9.5	22.0	17.5
Merged-chr3-129422005-4	chr3	129421865	129422065	+	937.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11708.0	NR_033594	435755.0	Mm.430561	NR_033594	ENSMUSG00000105712	Pou5f1-rs4	EG435755|Gm5712|Oct4P1|Otf3-rs4|Otf3d	POU domain, class 5, transcription factor 1, related sequence 4	pseudo	7.5	16.5	11.0	246.0	34.0	5.5	14.0	10.0
Merged-chr16-55734527-4	chr16	55734419	55734619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87619.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	26.0	46.0	29.0	484.0	62.5	34.0	23.0	31.5
Merged-chr14-58201476-4	chr14	58201374	58201574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	128788.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	39.0	38.0	24.0	452.0	69.0	26.0	28.5	25.5
Merged-chr3-41599916-4	chr3	41599826	41600026	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130184, intron 6 of 10)	B3|SINE|B2	35046.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	14.5	18.5	15.5	316.0	51.0	8.5	17.5	23.0
Merged-chr18-5320314-4	chr18	5320210	5320410	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360447, intron 1 of 4)	L1M4b|LINE|L1	14129.0	NM_178722	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	21.0	29.5	16.0	249.0	54.0	7.0	24.5	12.0
Merged-chr19-34673718-3	chr19	34673630	34673830	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172838, intron 5 of 6)	intron (NM_172838, intron 5 of 6)	32841.0	NM_008331	15957.0	Mm.439751	NM_008331	ENSMUSG00000034459	Ifit1	ISG56|Ifi56|P56	interferon-induced protein with tetratricopeptide repeats 1	protein-coding	36.0	29.5	20.5	455.5	0.5	0.5	1.0	3.5
Merged-chr1-66701288-2	chr1	66701188	66701388	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025683, intron 1 of 5)	CpG	457.0	NM_001310644	66646.0	Mm.240912	NM_025683	ENSMUSG00000026005	Rpe	2810429B02Rik|5730518J08Rik	ribulose-5-phosphate-3-epimerase	protein-coding	9.5	7.0	21.0	234.0	24.5	12.0	9.5	14.5
Merged-chr9-62955092-4	chr9	62954995	62955195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 1 of 13)	MTE2b|LTR|ERVL-MaLR	25784.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	37.0	60.0	44.0	827.0	77.5	36.0	37.0	36.5
Merged-chr6-99665624-4	chr6	99665561	99665761	+	980.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025829, intron 1 of 6)	intron (NM_025829, intron 1 of 6)	1110.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	15.5	22.0	6.5	201.5	78.0	10.5	16.5	10.5
Merged-chr3-121651912-3	chr3	121651798	121651998	+	869.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5445.0	NR_036458	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	5.0	11.0	4.5	89.5	17.5	3.5	4.0	4.5
Merged-chr11-116853680-2	chr11	116853588	116853788	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_011358)	promoter-TSS (NM_011358)	-74.0	NM_001361585	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	62.0	94.0	62.5	791.5	184.5	77.0	77.5	109.5
Merged-chr5-65722726-4	chr5	65722607	65722807	+	897.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_I-int|LTR|ERV1	-24851.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	8.5	24.0	14.5	79.5	45.0	22.5	9.5	12.0
Merged-chr5-64038715-4	chr5	64038607	64038807	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6266.0	NR_045384	74757.0	Mm.159329	NR_045384	ENSMUSG00000106219	5830416I19Rik	-	RIKEN cDNA 5830416I19 gene	ncRNA	10.0	12.0	12.5	232.0	46.5	16.5	20.0	14.0
Merged-chr8-14816406-3	chr8	14816294	14816494	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 9 of 15)	T-rich|Low_complexity|Low_complexity	-72142.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	9.0	6.0	6.0	146.0	12.5	0.0	4.5	3.5
Merged-chr2-38944193-3	chr2	38944093	38944293	+	739.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172854, intron 2 of 7)	RLTR17|LTR|ERVK	12213.0	NM_172854	241327.0	Mm.103491	NM_172854	ENSMUSG00000046618	Olfml2a	4932431K08Rik|mFLJ00237	olfactomedin-like 2A	protein-coding	11.5	5.0	13.0	71.5	7.0	11.0	5.5	4.5
Merged-chr16-58686324-3	chr16	58686230	58686430	+	804.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16122.0	NM_007757	12892.0	Mm.291519	NM_007757	ENSMUSG00000022742	Cpox	CPX|Cpo|HCP|cac|nct	coproporphyrinogen oxidase	protein-coding	14.5	16.5	20.5	198.0	9.5	10.5	5.0	22.0
Merged-chr13-74029209-4	chr13	74029119	74029319	+	781.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182839, intron 2 of 3)	intron (NM_182839, intron 2 of 3)	19800.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	9.0	17.0	13.0	255.0	28.5	15.5	11.0	10.5
Merged-chr4-3679021-4	chr4	3678919	3679119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	intron (NM_001111096, intron 1 of 12)	898.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	182.0	233.5	147.5	2768.5	397.0	135.0	247.5	183.0
Merged-chr1-135740442-4	chr1	135740347	135740547	+	897.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153810, intron 2 of 3)	(CAAAC)n|Simple_repeat|Simple_repeat	11280.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	11.0	10.0	19.0	122.5	114.0	31.5	30.0	41.5
Merged-chr12-100831187-4	chr12	100831080	100831280	+	938.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361023, intron 2 of 11)	intron (NM_001361023, intron 2 of 11)	52123.0	NM_145448	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	15.0	14.5	14.0	263.5	21.0	15.0	27.5	23.5
Merged-chr9-16114952-3	chr9	16114849	16115049	+	819.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	-240393.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	10.0	5.5	15.0	144.0	21.5	7.5	15.0	13.0
Merged-chr12-73967851-3	chr12	73967753	73967953	+	811.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178392, intron 1 of 9)	intron (NM_178392, intron 1 of 9)	3323.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	26.5	32.0	9.5	131.5	31.0	9.0	5.0	4.5
Merged-chr11-31784463-3	chr11	31784384	31784584	+	842.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	40063.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	11.0	17.5	15.5	449.0	0.5	1.0	2.5	0.0
Merged-chr1-167393822-4	chr1	167393704	167393904	+	969.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025569)	promoter-TSS (NM_025569)	-7.0	NM_025569	66447.0	Mm.218286	NM_025569	ENSMUSG00000026688	Mgst3	2010012L10Rik|2010306B17Rik|2700004G04Rik|AA516734|GST-III	microsomal glutathione S-transferase 3	protein-coding	24.0	26.0	19.5	268.5	39.0	10.5	35.5	24.5
Merged-chr19-57590998-4	chr19	57590904	57591104	+	914.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20030.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	18.0	39.5	15.0	316.5	26.5	17.5	11.0	11.0
Merged-chr4-59003175-4	chr4	59003085	59003285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033165)	promoter-TSS (NM_001033165)	-8.0	NM_001033165	72429.0	Mm.317801	NM_001033165	ENSMUSG00000070972	Dnajc25	2010109C08Rik|2010203O07Rik	DnaJ heat shock protein family (Hsp40) member C25	protein-coding	87.5	124.0	84.0	1483.5	211.5	80.5	103.0	77.5
Merged-chr6-129518205-4	chr6	129518095	129518295	+	843.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081186, exon 5 of 5)	3' UTR (NM_001081186, exon 5 of 5)	5638.0	NM_001081186	330428.0	Mm.44237	NM_001081186	ENSMUSG00000030160	Tmem52b	D630042F21Rik	transmembrane protein 52B	protein-coding	10.5	14.5	8.5	192.0	17.0	9.0	14.5	11.5
Merged-chr6-89628210-4	chr6	89628049	89628249	+	876.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15839.0	NM_001178060	232223.0	Mm.229332	NM_153162	ENSMUSG00000000811	Txnrd3	AI196535|TGR|TR2	thioredoxin reductase 3	protein-coding	8.0	14.5	8.5	120.0	24.0	9.0	4.5	7.0
Merged-chr11-69073550-4	chr11	69073448	69073648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_028566)	TTS (NR_028566)	122.0	NR_028566	100216530.0	Mm.453052	NR_028566	ENSMUSG00000064899	Snord118	MBI-34	small nucleolar RNA, C/D box 118	snoRNA	57.5	123.0	68.0	712.0	128.0	54.5	70.5	54.5
Merged-chr9-54501929-4	chr9	54501850	54502050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172771)	promoter-TSS (NM_172771)	-324.0	NM_172771	235380.0	Mm.93636	NM_172771	ENSMUSG00000041268	Dmxl2	6330586A12|6430411K14Rik|E130119P06Rik|mKIAA0856	Dmx-like 2	protein-coding	133.5	263.5	133.5	1911.0	398.0	139.5	185.0	114.5
Merged-chr1-118498496-4	chr1	118498407	118498607	+	961.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 9 of 39)	intron (NM_001359330, intron 9 of 39)	-39242.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	14.0	20.5	5.0	290.0	46.5	8.5	14.5	24.0
Merged-chr4-40364452-4	chr4	40364363	40364563	+	918.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51231.0	NR_040663	75819.0	Mm.399244	NR_040663	ENSMUSG00000087137	4930509K18Rik	-	RIKEN cDNA 4930509K18 gene	ncRNA	22.0	36.5	29.5	229.0	48.0	13.5	5.5	6.5
Merged-chr17-65558405-4	chr17	65558309	65558509	+	941.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17627.0	NM_001289486	381107.0	Mm.141275	NM_001008973	ENSMUSG00000045036	Tmem232	E130009J12Rik|Gm940|Tes13-L|Tes13-S	transmembrane protein 232	protein-coding	12.5	17.5	7.0	318.0	71.0	15.0	11.5	28.0
Merged-chr8-121104239-4	chr8	121104135	121104335	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172761, intron 4 of 7)	intron (NM_172761, intron 4 of 7)	4144.0	NM_172761	234814.0	Mm.31690	NM_172761	ENSMUSG00000031816	Mthfsd	AW049977|BC052066|C920004D05	methenyltetrahydrofolate synthetase domain containing	protein-coding	5.5	20.0	5.5	141.5	58.5	12.0	10.5	17.5
Merged-chr10-111389103-4	chr10	111389002	111389202	+	752.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84125.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	12.0	6.5	3.0	100.0	23.0	10.5	7.0	11.0
Merged-chr14-122048779-2	chr14	122048679	122048879	+	732.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14105.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	4.0	1.0	8.5	65.5	6.5	5.0	6.0	5.0
Merged-chr7-119881402-2	chr7	119881302	119881502	+	771.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163703, intron 1 of 2)	intron (NM_001163703, intron 1 of 2)	14056.0	NM_173408	233805.0	Mm.31539	NM_173408	ENSMUSG00000048787	Dcun1d3	1700020A13Rik|BC030335	DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)	protein-coding	9.0	4.5	8.0	67.5	18.5	7.0	13.0	5.5
Merged-chr1-174084942-3	chr1	174084839	174085039	+	823.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4099.0	NM_146722	258717.0	Mm.377652	NM_146722	ENSMUSG00000049528	Olfr429	MOR105-1	olfactory receptor 429	protein-coding	10.0	5.0	6.5	192.0	9.5	1.0	4.5	9.0
Merged-chr4-129497281-4	chr4	129497187	129497387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6097.0	NM_001085491	68233.0	Mm.424983	NM_001085491	ENSMUSG00000078554	Fam229a	1700125D06Rik	family with sequence similarity 229, member A	protein-coding	49.0	69.5	31.0	247.5	97.0	43.0	42.0	35.0
Merged-chr15-80521883-2	chr15	80521783	80521983	+	714.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163189, intron 2 of 5)	intron (NM_001163189, intron 2 of 5)	38587.0	NM_001163189	383075.0	Mm.297626	NM_001163189	ENSMUSG00000050439	Enthd1	Gm1242|Gm86	ENTH domain containing 1	protein-coding	6.5	5.0	3.0	115.5	8.0	5.5	5.0	5.0
Merged-chr2-133550642-4	chr2	133550531	133550731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1528.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	56.0	78.0	98.5	1161.0	215.5	55.5	77.0	85.0
Merged-chr10-85388921-1	chr10	85388821	85389021	+	616.0	f0_c57.idr	intron (NM_028709, intron 1 of 16)	intron (NM_028709, intron 1 of 16)	2107.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	0.0	0.0	0.0	0.5	31.5	13.0	11.0	7.0
Merged-chr3-51427969-4	chr3	51427863	51428063	+	801.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053089, intron 1 of 19)	intron (NM_053089, intron 1 of 19)	11947.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	8.0	15.5	9.5	124.0	28.0	11.0	11.0	7.0
Merged-chr6-54285158-4	chr6	54285063	54285263	+	938.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 7 of 12)	intron (NM_001163640, intron 7 of 12)	12341.0	NM_023543	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	31.5	17.5	28.5	321.0	32.5	13.5	35.5	17.5
Merged-chr14-70981264-3	chr14	70981159	70981359	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91152.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	47.5	39.0	46.5	802.5	3.0	2.5	6.0	1.0
Merged-chr5-121389122-4	chr5	121389013	121389213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3498.0	NM_172275	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	114.0	196.0	129.5	1532.5	300.0	93.0	114.0	155.0
Merged-chr15-77343586-3	chr15	77343487	77343687	+	903.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36534.0	NM_053104	93686.0	Mm.202774	NM_053104	ENSMUSG00000033565	Rbfox2	Fbm2|Fxh|Hrnbp2|Rbm9	RNA binding protein, fox-1 homolog (C. elegans) 2	protein-coding	10.5	12.5	5.5	197.5	25.0	8.5	13.0	7.0
Merged-chr12-37251190-1	chr12	37251090	37251290	+	690.5	f0_balb.idr	intron (NM_178767, intron 2 of 12)	intron (NM_178767, intron 2 of 12)	9551.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	5.5	10.0	9.5	150.0	5.0	9.5	11.0	6.5
Merged-chr5-122281370-4	chr5	122281261	122281461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3037.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	46.5	43.5	26.0	463.5	53.0	26.5	27.5	40.5
Merged-chr5-149246197-4	chr5	149246080	149246280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18824.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	118.5	134.5	130.0	2098.0	263.0	77.5	142.0	135.5
Merged-chr7-45123936-2	chr7	45123836	45124036	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_000004)	promoter-TSS (NR_000004)	453.0	NM_013725	27207.0	Mm.196538	NM_013725	ENSMUSG00000003429	Rps11	-	ribosomal protein S11	protein-coding	3.5	15.5	9.5	51.5	15.0	6.0	6.0	11.5
Merged-chr5-25663315-4	chr5	25663215	25663415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42482.0	NM_020570	57434.0	Mm.143767	NM_020570	ENSMUSG00000028933	Xrcc2	4921524O04Rik|8030409M04Rik|RAD51|RecA	X-ray repair complementing defective repair in Chinese hamster cells 2	protein-coding	17.5	28.5	35.5	364.0	38.5	21.5	21.5	24.5
Merged-chr11-79259026-4	chr11	79258936	79259136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-4341.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	12.0	43.5	15.5	193.0	61.5	32.5	20.5	39.5
Merged-chr7-25626115-2	chr7	25626015	25626215	+	877.6666869999999	f1_balb.idr|f1_c57bl6.idr	TTS (NM_025504)	TTS (NM_025504)	-1509.0	NM_001036740	232984.0	Mm.192369	NM_146184	ENSMUSG00000059479	B3gnt8	B3galt7|B7galt7|BC025206	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8	protein-coding	6.5	9.5	6.5	11.0	25.0	1.0	6.0	4.5
Merged-chr13-98027967-1	chr13	98027867	98028067	+	812.799988	f0_balb.idr	intron (NM_012026, intron 9 of 35)	intron (NM_012026, intron 9 of 35)	178198.0	NM_012026	110596.0	Mm.252718	NM_012026	ENSMUSG00000021662	Arhgef28	9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF	Rho guanine nucleotide exchange factor (GEF) 28	protein-coding	13.5	7.5	20.0	84.0	1.5	0.5	0.0	3.0
Merged-chr8-106416915-3	chr8	106416824	106417024	+	644.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011764, intron 1 of 3)	intron (NM_011764, intron 1 of 3)	1585.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	2.5	9.5	2.5	87.0	10.5	7.0	9.0	12.0
Merged-chr5-36726583-4	chr5	36726468	36726668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22111.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	95.0	128.5	94.0	1246.5	215.5	79.5	84.5	92.5
Merged-chr13-114078189-4	chr13	114078092	114078292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 4 of 4)	intron (NM_172595, intron 4 of 4)	73400.0	NR_045836	319803.0	Mm.386896	NM_177004	ENSMUSG00000114213	A430090L17Rik	-	RIKEN cDNA A430090L17 gene	ncRNA	36.5	98.0	66.5	897.5	161.0	64.5	60.5	51.5
Merged-chr4-135963637-4	chr4	135963531	135963731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356493)	promoter-TSS (NM_001356493)	-94.0	NM_001356493	74246.0	Mm.247946	NM_178389	ENSMUSG00000028671	Gale	2310002A12Rik|AI323962	galactose-4-epimerase, UDP	protein-coding	91.5	133.0	53.0	916.5	222.5	106.5	80.0	68.5
Merged-chr2-6726320-4	chr2	6726216	6726416	+	738.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-4654.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	9.0	10.0	4.5	126.5	17.0	7.5	13.0	14.5
Merged-chr11-75158691-3	chr11	75158591	75158791	+	690.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 16 of 18)	(CA)n|Simple_repeat|Simple_repeat	9461.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	9.0	8.0	9.0	96.5	10.5	1.5	4.5	1.0
Merged-chr10-54122018-4	chr10	54121912	54122112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	46090.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	44.0	27.0	57.5	603.0	126.0	30.5	63.0	71.5
Merged-chr6-116083433-4	chr6	116083356	116083556	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	-88451.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	21.5	58.0	15.0	421.0	45.0	18.5	18.0	7.5
Merged-chr3-20017742-4	chr3	20017636	20017836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 8 of 16)	intron (NM_080634, intron 8 of 16)	17574.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	53.5	68.5	68.0	743.5	122.5	56.5	57.5	30.0
Merged-chr7-55911571-4	chr7	55911460	55911660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 22 of 30)	intron (NM_011370, intron 22 of 30)	50933.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	166.5	250.5	254.5	2760.0	538.0	211.5	309.0	229.5
Merged-chr1-39478707-4	chr1	39478602	39478802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357522)	promoter-TSS (NM_001357522)	45.0	NM_018775	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	70.0	88.5	82.5	1057.0	110.5	45.5	68.0	72.5
Merged-chr7-4940354-4	chr7	4940264	4940464	+	951.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173008, intron 12 of 13)	intron (NM_173008, intron 12 of 13)	14520.0	NM_173008	269855.0	Mm.44190	NM_173008	ENSMUSG00000035279	Ssc5d	A430110N23Rik|S5D-SRCRB	scavenger receptor cysteine rich family, 5 domains	protein-coding	12.5	20.5	9.0	287.5	54.5	47.5	18.5	25.0
Merged-chr9-70943589-3	chr9	70943479	70943679	+	851.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324472, intron 1 of 9)	MTE2a|LTR|ERVL-MaLR	8642.0	NM_001324472	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	11.0	15.5	16.5	60.5	13.0	7.5	5.5	4.5
Merged-chr8-105265418-4	chr8	105265318	105265518	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033161)	promoter-TSS (NM_001033161)	770.0	NM_015821	50788.0	Mm.334764	NM_015821	ENSMUSG00000033313	Fbxl8	FBL8	F-box and leucine-rich repeat protein 8	protein-coding	24.5	22.0	20.5	293.5	41.0	17.5	14.0	14.5
Merged-chr8-123518833-4	chr8	123518720	123518920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018855)	promoter-TSS (NM_018855)	-15.0	NM_018855	104346.0	Mm.117265	NM_018855	ENSMUSG00000040220	Gas8	Gas11	growth arrest specific 8	protein-coding	128.0	192.0	132.0	1327.0	340.5	133.0	128.0	121.0
Merged-chr8-22807389-5	chr8	22807257	22807457	+	933.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1703.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	10.5	13.5	9.5	117.5	43.0	20.0	13.5	16.5
Merged-chr12-3771275-4	chr12	3771164	3771364	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027869, intron 16 of 20)	intron (NR_027869, intron 16 of 20)	-35716.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	8.5	23.0	2.0	92.0	27.5	6.5	16.0	7.5
Merged-chr11-100547152-4	chr11	100547052	100547252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 1 of 11)	MIR|SINE|MIR	1520.0	NM_028918	74407.0	Mm.31590	NM_028918	ENSMUSG00000006784	Ttc25	4933404O19Rik	tetratricopeptide repeat domain 25	protein-coding	66.0	90.0	50.0	813.0	156.5	34.5	72.0	87.0
Merged-chr10-14082580-4	chr10	14082447	14082647	+	689.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010437, intron 2 of 8)	LTR88b|LTR|Gypsy?	116168.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	4.0	10.5	6.5	91.0	21.5	6.0	4.5	10.0
Merged-chr15-6579414-4	chr15	6579286	6579486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278269)	promoter-TSS (NM_001278269)	-461.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	81.5	109.0	63.0	814.0	160.5	41.5	51.5	46.0
Merged-chr5-39927748-2	chr5	39927632	39927832	+	678.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-283101.0	NM_010474	15476.0	Mm.12559	NM_010474	ENSMUSG00000051022	Hs3st1	3-Ost|D5Wsu110e|Hsg3ost	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	protein-coding	10.0	11.0	5.5	183.0	17.0	6.0	4.5	13.5
Merged-chr8-11554860-1	chr8	11554760	11554960	+	906.0	f0_c57.idr	promoter-TSS (NM_001302458)	promoter-TSS (NM_001302458)	-902.0	NM_001302458	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	10.5	10.5	14.5	230.0	29.5	15.0	19.5	23.0
Merged-chr17-15808623-4	chr17	15808525	15808725	+	896.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178615, intron 2 of 2)	intron (NM_178615, intron 2 of 2)	17961.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	15.0	13.0	17.0	426.5	36.0	5.0	20.5	14.0
Merged-chr10-67285400-4	chr10	67285283	67285483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001036293)	promoter-TSS (NM_001036293)	-102.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	173.0	268.0	157.0	2043.0	497.5	176.0	158.0	153.0
Merged-chr6-38761448-4	chr6	38761354	38761554	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 2 of 14)	intron (NM_010433, intron 2 of 14)	75857.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	11.0	18.5	13.0	256.0	30.5	11.5	14.5	9.5
Merged-chr18-8757593-2	chr18	8757493	8757693	+	978.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-455263.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	2.0	0.0	0.5	28.5	22.0	6.0	7.0	6.5
Merged-chr17-15724112-3	chr17	15724084	15724284	+	690.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 2 of 35)	B2_Mm1t|SINE|B2	19217.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	0.0	0.0	1.0	0.0	15.0	8.0	5.0	5.5
Merged-chr4-133804619-4	chr4	133804514	133804714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51003.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	57.0	93.5	70.0	800.5	197.0	65.0	68.5	60.5
Merged-chr15-99018270-3	chr15	99018182	99018382	+	725.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11609.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	4.5	7.5	6.0	92.0	2.5	0.0	5.0	8.5
Merged-chr8-115778631-4	chr8	115778538	115778738	+	828.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71744.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	5.0	9.5	8.0	159.0	20.0	11.5	15.5	16.5
Merged-chr2-122408644-4	chr2	122408513	122408713	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-32207.0	NM_172980	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	11.0	18.0	16.0	259.5	31.5	17.5	15.0	22.5
Merged-chr11-55386622-4	chr11	55386536	55386736	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33444.0	NM_009242	20692.0	Mm.291442	NM_009242	ENSMUSG00000018593	Sparc	BM-40|ON	secreted acidic cysteine rich glycoprotein	protein-coding	9.0	21.0	5.0	274.0	61.5	19.5	21.0	26.5
Merged-chr2-34600033-3	chr2	34599929	34600129	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290625, intron 10 of 11)	intron (NM_001290625, intron 10 of 11)	155203.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	7.5	14.5	14.5	143.5	12.0	5.5	10.0	7.5
Merged-chr8-31097198-4	chr8	31097102	31097302	+	921.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357223)	TTS (NM_001357223)	5552.0	NM_001357223	66959.0	Mm.23916	NM_025869	ENSMUSG00000039661	Dusp26	2310043K02Rik|Skrp3	dual specificity phosphatase 26 (putative)	protein-coding	19.0	21.5	9.5	323.5	51.5	19.0	14.0	25.0
Merged-chr11-85525825-3	chr11	85525737	85525937	+	956.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 16 of 25)	intron (NM_138681, intron 16 of 25)	172673.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	18.0	17.0	5.5	140.0	23.5	7.0	5.5	13.5
Merged-chr12-39039950-4	chr12	39039840	39040040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	256229.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	32.5	36.0	63.5	1185.5	71.5	15.0	52.5	39.0
Merged-chr16-16146821-4	chr16	16146709	16146909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146068)	promoter-TSS (NM_146068)	42.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	127.0	178.0	129.0	1645.0	184.5	93.5	101.5	96.5
Merged-chr2-38469371-4	chr2	38469292	38469492	+	882.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42305.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	20.0	10.5	8.5	171.5	46.0	9.5	6.5	11.0
Merged-chr5-100872168-4	chr5	100872071	100872271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172715, intron 3 of 12)	intron (NM_172715, intron 3 of 12)	25942.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	24.0	46.5	34.5	866.5	161.0	53.5	77.0	66.0
Merged-chr9-114730342-4	chr9	114730223	114730423	+	913.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026036)	promoter-TSS (NM_026036)	-880.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	7.5	19.5	14.0	154.0	29.0	10.0	12.0	14.0
Merged-chr1-54798636-4	chr1	54798522	54798722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 2 of 27)	intron (NM_001081433, intron 2 of 27)	127765.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	52.0	68.5	54.0	966.0	138.5	43.5	56.5	57.0
Merged-chr5-135446150-4	chr5	135446049	135446249	+	939.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 8 of 30)	L1MC3|LINE|L1	-51603.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	33.0	15.5	30.5	439.0	37.0	10.0	15.0	22.0
Merged-chr11-69429544-4	chr11	69429449	69429649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 76 of 85)	intron (NM_001081330, intron 76 of 85)	-15874.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	35.5	69.5	35.5	699.5	120.5	41.5	46.0	51.5
Merged-chr6-108232225-3	chr6	108232125	108232325	+	564.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 2 of 61)	intron (NM_010585, intron 2 of 61)	19129.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	4.5	7.0	7.0	75.5	6.5	3.0	3.0	8.0
Merged-chr11-115475650-4	chr11	115475553	115475753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361594)	promoter-TSS (NM_001361594)	-14.0	NM_177778	276905.0	Mm.38019	NM_177778	ENSMUSG00000057219	Armc7	A630084C13|BC023126	armadillo repeat containing 7	protein-coding	51.5	68.0	26.0	641.5	135.5	47.5	63.0	28.0
Merged-chr8-124756867-3	chr8	124756762	124756962	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5053.0	NM_001081120	69627.0	Mm.271600	NM_001081120	ENSMUSG00000043068	Fam89a	2310031A18Rik	family with sequence similarity 89, member A	protein-coding	18.0	57.0	18.5	42.5	22.0	4.0	4.0	2.0
Merged-chr12-116054548-4	chr12	116054452	116054652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019565, intron 1 of 2)	intron (NM_019565, intron 1 of 2)	6828.0	NM_019565	56220.0	Mm.254997	NM_019565	ENSMUSG00000042063	Zfp386	Kzf1|mKIAA4205	zinc finger protein 386 (Kruppel-like)	protein-coding	192.5	170.5	246.0	3667.5	394.5	121.5	180.5	173.0
Merged-chr17-86950424-4	chr17	86950341	86950541	+	764.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2554.0	NM_029121	74915.0	Mm.159369	NM_029121	ENSMUSG00000053375	Atp6v1e2	4930500C14Rik|Atp6e1|E1	ATPase, H+ transporting, lysosomal V1 subunit E2	protein-coding	7.5	33.5	21.5	9.0	40.5	17.0	4.5	2.0
Merged-chr14-14703153-3	chr14	14703056	14703256	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360516, exon 1 of 25)	5' UTR (NM_001360516, exon 1 of 25)	131.0	NM_001360509	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	64.0	93.5	110.5	1159.5	130.0	62.0	41.5	67.5
Merged-chr12-104273731-1	chr12	104273631	104273831	+	843.0	f0_balb.idr	Intergenic	Intergenic	10609.0	NM_001199940	628900.0	Mm.436602	NM_001199940	ENSMUSG00000079014	Serpina3i	2B2|EG628900|Gm6930	serine (or cysteine) peptidase inhibitor, clade A, member 3I	protein-coding	10.0	6.5	12.5	113.5	0.5	3.0	1.0	0.0
Merged-chr5-108031468-4	chr5	108031366	108031566	+	976.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-34208.0	NM_001359088	17765.0	Mm.257149	NM_013827	ENSMUSG00000029267	Mtf2	9230112N11Rik|AA537621|C76717|M96|Pcl2	metal response element binding transcription factor 2	protein-coding	13.5	28.0	11.5	253.0	56.5	24.0	23.5	25.5
Merged-chr8-24419492-4	chr8	24419367	24419567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19479.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	67.5	93.0	62.5	936.5	147.5	74.0	81.5	97.0
Merged-chr4-10952567-4	chr4	10952451	10952651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	55068.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	89.0	127.5	50.0	1040.5	175.0	67.5	54.0	55.5
Merged-chr11-98053383-2	chr11	98053283	98053483	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146028)	promoter-TSS (NM_146028)	79.0	NM_146028	217154.0	Mm.181008	NM_146028	ENSMUSG00000017400	Stac2	24b2|24b2/STAC2|AW240854	SH3 and cysteine rich domain 2	protein-coding	5.0	8.5	8.0	48.5	8.0	0.0	4.0	0.5
Merged-chr7-109170651-4	chr7	109170554	109170754	+	874.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302206)	promoter-TSS (NM_001302206)	-135.0	NM_057173	109594.0	Mm.360145	NM_057173	ENSMUSG00000036111	Lmo1	Rbtn-1|Rbtn1|Ttg1	LIM domain only 1	protein-coding	8.0	20.0	12.5	235.5	31.5	12.5	13.5	5.5
Merged-chr8-3221177-4	chr8	3221088	3221288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330056, intron 2 of 21)	CpG	58429.0	NM_010568	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	65.0	57.5	88.0	1087.5	183.0	60.5	88.5	68.5
Merged-chr16-14112959-4	chr16	14112861	14113061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 26 of 26)	intron (NM_001081154, intron 26 of 26)	46313.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	36.5	66.0	39.5	727.5	110.0	35.5	31.0	45.5
Merged-chr17-71195892-4	chr17	71195778	71195978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	-8776.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	37.0	33.0	36.0	472.0	83.5	34.0	23.5	22.0
Merged-chr6-4086938-4	chr6	4086855	4087055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009748)	promoter-TSS (NM_009748)	-25.0	NM_009748	12068.0	Mm.286457	NM_009748	ENSMUSG00000032757	Bet1	AW555236|Bet-1	Bet1 golgi vesicular membrane trafficking protein	protein-coding	188.5	259.0	159.5	2912.0	494.0	180.5	241.5	186.5
Merged-chr16-91411023-4	chr16	91410918	91411118	+	986.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008349, intron 2 of 6)	MTE2a|LTR|ERVL-MaLR	4783.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	9.5	25.5	38.5	404.5	40.0	8.5	21.0	22.0
Merged-chr9-108336301-3	chr9	108336194	108336394	+	857.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016802, intron 5 of 5)	B1_Mus2|SINE|Alu	-2786.0	NM_001329528	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	11.5	8.0	11.5	75.5	18.0	2.5	7.5	9.5
Merged-chr5-73134023-3	chr5	73133933	73134133	+	734.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028194, intron 5 of 62)	intron (NM_028194, intron 5 of 62)	122585.0	NM_028194	72313.0	Mm.260594	NM_028194	ENSMUSG00000070733	Fryl	2010313D22Rik|2310004H21Rik|2510002A14Rik|9030227G01Rik|mKIAA0826	FRY like transcription coactivator	protein-coding	6.0	9.0	5.5	116.5	2.0	4.0	1.5	0.0
Merged-chr4-47349923-4	chr4	47349811	47350011	+	956.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3311.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	18.0	19.0	28.5	309.5	56.0	17.0	17.5	15.0
Merged-chr11-113683452-3	chr11	113683352	113683552	+	927.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361593)	promoter-TSS (NM_001361593)	699.0	NM_138598	28081.0	Mm.351688	NM_138598	ENSMUSG00000041629	Fam104a	D11Wsu99e	family with sequence similarity 104, member A	protein-coding	10.0	14.5	11.5	145.5	22.0	4.5	7.5	18.0
Merged-chr3-153262938-4	chr3	153262838	153263038	+	932.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	35711.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	18.5	43.5	36.0	526.5	85.5	17.0	29.5	44.0
Merged-chr1-161494534-4	chr1	161494448	161494648	+	923.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183391)	promoter-TSS (NM_183391)	-109.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	16.0	23.0	22.0	408.5	20.5	8.5	16.0	9.5
Merged-chr19-41347516-3	chr19	41347445	41347645	+	881.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	37525.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	5.5	6.0	9.5	91.5	23.5	6.0	7.0	3.5
Merged-chr2-77277873-4	chr2	77277798	77277998	+	861.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 1 of 17)	L1MB7|LINE|L1	2694.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	9.5	26.5	8.0	170.0	29.0	11.5	8.0	16.0
Merged-chr17-25016847-4	chr17	25016748	25016948	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134126, exon 1 of 30)	5' UTR (NM_134126, exon 1 of 30)	762.0	NM_134126	106633.0	Mm.32802	NM_134126	ENSMUSG00000024169	Ift140	AI661311|Tce5|Wdtc2|mKIAA0590	intraflagellar transport 140	protein-coding	24.5	25.5	17.0	192.0	48.0	14.5	15.5	25.5
Merged-chr2-112449775-3	chr2	112449674	112449874	+	714.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5251.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	5.0	7.5	4.5	74.0	28.0	8.0	12.0	5.5
Merged-chr18-38434165-4	chr18	38434027	38434227	+	812.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	RMER6A|LTR|ERVK	15220.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	14.5	7.5	2.0	123.0	12.0	8.0	10.5	10.5
Merged-chr5-135711067-4	chr5	135710973	135711173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	intron (NM_008898, intron 1 of 15)	21928.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	110.0	190.0	115.0	1955.0	240.0	111.5	136.5	123.5
Merged-chr6-145115609-4	chr6	145115536	145115736	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281981)	promoter-TSS (NM_001281981)	0.0	NM_001281980	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	16.5	29.5	11.0	274.5	151.5	46.0	105.5	65.5
Merged-chr17-32349142-4	chr17	32349042	32349242	+	789.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017476, intron 1 of 13)	MER20|DNA|hAT-Charlie	1435.0	NM_017476	54194.0	Mm.281005	NM_017476	ENSMUSG00000002625	Akap8l	HAP95|Nakap95	A kinase (PRKA) anchor protein 8-like	protein-coding	6.0	10.5	3.0	116.5	32.5	15.0	7.5	12.5
Merged-chr2-138246064-4	chr2	138245974	138246174	+	927.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16C|LTR|ERVL	-10510.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	11.5	21.0	27.5	293.0	32.0	7.5	19.5	12.5
Merged-chr16-57549229-4	chr16	57549136	57549336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177871)	promoter-TSS (NM_001177871)	-6.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	81.0	140.5	51.5	1068.5	182.5	95.0	99.5	70.0
Merged-chr5-64371780-4	chr5	64371698	64371898	+	920.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96144.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	16.5	13.5	15.0	378.5	29.0	13.5	13.0	17.5
Merged-chr2-18998248-4	chr2	18998152	18998352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355149)	promoter-TSS (NM_001355149)	-67.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	98.5	130.0	77.0	2240.5	198.0	52.0	117.5	69.0
Merged-chr10-78520776-2	chr10	78520676	78520876	+	669.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53724.0	NM_173751	216136.0	Mm.2644	NM_173751	ENSMUSG00000032763	Ilvbl	5830463I21|AI415009	ilvB (bacterial acetolactate synthase)-like	protein-coding	1.0	2.0	0.5	77.0	10.5	4.5	4.5	4.5
Merged-chr2-167271314-4	chr2	167271224	167271424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30787.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	40.0	50.5	50.5	954.0	129.5	45.5	66.0	62.5
Merged-chr12-69365999-4	chr12	69365893	69366093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6157.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	59.5	105.5	71.0	757.0	169.5	52.0	50.5	49.5
Merged-chr14-75069662-6	chr14	75069558	75069758	+	890.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	53631.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	10.5	13.0	9.0	120.5	12.5	3.5	9.5	13.5
Merged-chr4-19697195-4	chr4	19697094	19697294	+	862.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_074090, intron 1 of 24)	intron (NR_074090, intron 1 of 24)	11810.0	NM_177327	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	10.5	6.5	8.5	167.5	35.0	15.5	16.5	9.5
Merged-chr8-126592147-4	chr8	126592058	126592258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164598, intron 1 of 1)	intron (NM_001164598, intron 1 of 1)	1278.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	88.5	199.5	122.0	2276.0	343.5	96.5	150.0	126.5
Merged-chr11-71817659-4	chr11	71817547	71817747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66632.0	NM_001357965	216881.0	Mm.48648	NM_177618	ENSMUSG00000020811	Wscd1	mKIAA0523	WSC domain containing 1	protein-coding	51.5	50.0	64.0	1177.5	105.0	22.5	42.5	39.0
Merged-chr17-84268750-4	chr17	84268663	84268863	+	837.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 30 of 37)	intron (NM_183021, intron 30 of 37)	-80816.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	18.0	14.0	23.0	320.5	26.0	6.0	14.5	18.5
Merged-chr6-72737773-2	chr6	72737673	72737873	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	intron (NM_001079822, intron 3 of 12)	51272.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	7.0	2.5	7.5	129.0	20.5	14.0	9.0	6.5
Merged-chr7-67528382-7	chr7	67528326	67528526	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028144, intron 8 of 8)	intron (NR_028144, intron 8 of 8)	116810.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	11.0	7.0	7.5	160.5	7.0	9.0	9.5	5.5
Merged-chr1-170907932-4	chr1	170907800	170908000	+	802.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001029984, exon 5 of 6)	exon (NM_001029984, exon 5 of 6)	5041.0	NM_001029984	435653.0	Mm.337931	NM_001029984	ENSMUSG00000070524	Fcrlb	FREB-2|FREB2|FcRL2|Fcrlm2|Fcry|mFCRL2	Fc receptor-like B	protein-coding	8.0	8.5	20.5	107.5	17.5	3.0	2.0	8.0
Merged-chr13-111555477-3	chr13	111555367	111555567	+	918.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-5558.0	NR_151444	102636218.0	Mm.343364	NR_151444	ENSMUSG00000085634	Gm15290	-	predicted gene 15290	ncRNA	9.5	24.5	14.5	219.5	14.0	4.0	5.5	9.0
Merged-chr1-33765738-4	chr1	33765625	33765825	+	947.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359275, intron 14 of 15)	intron (NM_001359275, intron 14 of 15)	-7975.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	11.0	24.0	19.5	346.0	67.5	10.0	11.5	25.5
Merged-chr13-34345105-6	chr13	34344989	34345189	+	858.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033167)	promoter-TSS (NM_001033167)	93.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	14.5	15.5	17.0	222.5	27.5	11.0	8.0	11.0
Merged-chr11-8568012-3	chr11	8567885	8568085	+	786.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	Lx8|LINE|L1	96550.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	11.0	8.0	8.5	85.5	14.5	8.0	1.0	15.0
Merged-chr1-182960266-4	chr1	182960163	182960363	+	984.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016928, intron 1 of 3)	intron (NM_016928, intron 1 of 3)	5475.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	27.0	29.5	27.5	385.0	41.0	20.5	24.5	13.5
Merged-chr5-42978583-4	chr5	42978480	42978680	+	954.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-254883.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	11.0	14.0	16.5	274.5	50.0	6.0	18.5	7.5
Merged-chr5-101959640-4	chr5	101959552	101959752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 6 of 66)	intron (NM_172882, intron 6 of 66)	110269.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	35.0	54.5	57.0	842.5	89.0	41.0	76.0	61.0
Merged-chr10-67979536-4	chr10	67979429	67979629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359318)	promoter-TSS (NM_001359318)	-41.0	NM_001359318	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	130.5	176.0	83.5	1209.0	170.0	74.5	96.5	73.5
Merged-chr3-116893112-4	chr3	116893011	116893211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009146, intron 9 of 16)	MTD|LTR|ERVL-MaLR	31431.0	NM_009146	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	47.5	84.0	72.5	1068.5	215.0	104.0	89.0	107.0
Merged-chr1-93115338-4	chr1	93115254	93115454	+	930.337524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13480.0	NM_001110315	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	11.0	10.5	17.0	231.5	39.0	16.0	14.5	8.5
Merged-chr6-48555248-4	chr6	48555149	48555349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177736, intron 1 of 2)	RLTR42|LTR|ERVK	450.0	NM_177736	243371.0	Mm.290764	NM_177736	ENSMUSG00000073096	Lrrc61	BC027309	leucine rich repeat containing 61	protein-coding	37.5	48.0	46.5	803.5	115.5	56.5	78.0	51.0
Merged-chr8-85026824-4	chr8	85026705	85026905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026760)	promoter-TSS (NM_026760)	-28.0	NM_026760	68544.0	Mm.196005	NM_026760	ENSMUSG00000041203	Trir	1110002H14Rik|2310036O22Rik|AI854688	telomerase RNA component interacting RNase	protein-coding	125.5	248.5	127.5	2112.0	320.5	141.5	145.0	149.5
Merged-chr10-17723545-1	chr10	17723445	17723645	+	1000.0	f0_c57.idr	intron (NM_010828, intron 1 of 1)	CpG	317.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	69.5	204.0	78.5	730.5	317.5	151.0	70.5	61.5
Merged-chr6-4967399-4	chr6	4967301	4967501	+	867.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	64081.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	12.5	14.0	13.0	238.0	24.5	8.5	16.5	8.5
Merged-chr3-69674374-4	chr3	69674289	69674489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47666.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	20.5	22.0	21.0	400.5	85.5	21.0	42.0	28.5
Merged-chr8-113656336-4	chr8	113656256	113656456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001048145)	TTS (NM_001048145)	13143.0	NM_001048145	668110.0	Mm.390078	NM_029139	ENSMUSG00000033409	Syce1l	4930481F22Rik|MMRP|PSESS|mmrp2	synaptonemal complex central element protein 1 like	protein-coding	240.0	375.0	203.0	3627.5	585.0	208.0	276.0	185.5
Merged-chr7-130012276-3	chr7	130012167	130012367	+	687.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50102.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	4.5	7.0	6.5	66.5	6.5	4.5	1.5	6.0
Merged-chr7-122135278-3	chr7	122135169	122135369	+	750.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021608, intron 3 of 5)	intron (NM_021608, intron 3 of 5)	2228.0	NM_021608	59288.0	Mm.478285	NM_021608	ENSMUSG00000030868	Dctn5	4930427E12Rik|C78178|b2b315Clo	dynactin 5	protein-coding	4.0	5.0	5.0	124.0	31.5	6.5	10.5	11.0
Merged-chr6-97797747-3	chr6	97797647	97797847	+	938.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9311.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	14.5	6.0	14.0	197.0	10.5	6.5	11.5	12.5
Merged-chr1-190928575-4	chr1	190928454	190928654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357131)	promoter-TSS (NM_001357131)	49.0	NM_021421	52477.0	Mm.289914	NM_021421	ENSMUSG00000026634	Angel2	2610307I21Rik|5730410O10Rik|AI845692|D1Ertd396e|D1Ertd654e	angel homolog 2	protein-coding	114.5	158.0	116.0	1726.5	263.5	115.5	138.5	115.5
Merged-chr3-86812901-3	chr3	86812807	86813007	+	917.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195500, intron 8 of 11)	intron (NM_001195500, intron 8 of 11)	107977.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	14.0	9.5	7.0	125.0	17.0	3.5	8.0	11.5
Merged-chr7-132799895-3	chr7	132799799	132799999	+	679.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	-12964.0	NM_175268	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	12.0	13.0	13.0	413.0	2.0	2.5	2.5	6.5
Merged-chr10-16637199-4	chr10	16637104	16637304	+	954.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	458578.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	17.5	14.5	10.5	255.0	58.0	16.0	26.5	25.5
Merged-chr6-17612834-4	chr6	17612713	17612913	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24197.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	20.5	14.0	16.5	271.0	54.0	25.0	14.0	21.5
Merged-chr2-101699412-4	chr2	101699222	101699422	+	896.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009424, exon 8 of 8)	3' UTR (NM_009424, exon 8 of 8)	20902.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	4.5	12.5	16.0	120.0	14.5	7.0	3.0	6.5
Merged-chr9-88404324-4	chr9	88404205	88404405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172926, exon 12 of 28)	exon (NM_172926, exon 12 of 28)	34646.0	NM_001359958	244962.0	Mm.439873	NM_172926	ENSMUSG00000032422	Snx14	B830022K16|C330035N22Rik|YR-14	sorting nexin 14	protein-coding	94.5	131.0	119.5	1792.0	230.0	69.5	130.5	94.0
Merged-chr13-88459965-3	chr13	88459860	88460060	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-361512.0	NM_010103	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	40.0	48.0	21.5	385.5	125.5	39.0	40.5	29.0
Merged-chr19-60820569-2	chr19	60820479	60820679	+	681.833374	f0_balb.idr|f1_c57bl6.idr	intron (NM_026437, intron 3 of 8)	intron (NM_026437, intron 3 of 8)	9024.0	NM_001347464	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	18.0	16.5	4.5	123.5	13.0	6.5	5.5	5.0
Merged-chr2-158379922-4	chr2	158379818	158380018	+	881.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175692, intron 3 of 4)	B2_Mm2|SINE|B2	4280.0	NM_175692	319317.0	Mm.294494	NM_175692	ENSMUSG00000044349	Snhg11	A930034L06Rik|AI854265|AL022637|AW319638|E130013N09Rik	small nucleolar RNA host gene 11	protein-coding	14.0	11.5	8.5	176.0	42.0	14.0	8.5	16.0
Merged-chr15-12027979-4	chr15	12027887	12028087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31980.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	27.0	36.5	33.0	570.5	84.0	24.0	29.0	40.0
Merged-chr8-115706886-3	chr8	115706791	115706991	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025577)	promoter-TSS (NM_001025577)	3.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	13.5	8.0	20.0	233.5	39.0	19.5	18.0	41.0
Merged-chr11-22653170-4	chr11	22653095	22653295	+	905.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	140912.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	3.0	5.0	12.5	107.0	23.5	16.0	8.0	18.0
Merged-chr5-21785216-4	chr5	21785136	21785336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009584)	promoter-TSS (NM_009584)	-47.0	NM_011188	19181.0	Mm.2462	NM_011188	ENSMUSG00000028932	Psmc2	-	proteasome (prosome, macropain) 26S subunit, ATPase 2	protein-coding	118.5	155.5	72.0	1712.0	363.5	114.0	190.5	138.0
Merged-chr6-55431102-3	chr6	55431014	55431214	+	964.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-20864.0	NM_001025372	11517.0	Mm.44245	NM_007407	ENSMUSG00000029778	Adcyap1r1	2900024I10Rik|AI846590|PAC1|PAC1R|PACAP1-R	adenylate cyclase activating polypeptide 1 receptor 1	protein-coding	32.0	40.0	28.0	571.5	4.0	0.5	0.5	1.0
Merged-chr8-83131446-1	chr8	83131346	83131546	+	676.0	f0_balb.idr	Intergenic	Intergenic	-33906.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	4.0	12.0	1.0	114.5	20.5	8.5	6.5	4.5
Merged-chr3-19011647-4	chr3	19011546	19011746	+	905.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	151449.0	NM_028840	74252.0	Mm.200383	NM_028840	ENSMUSG00000027599	Armc1	2310016N05Rik|2900046P06Rik|3110009G21Rik|AA409258|AW048872|Arcp|C330014L16Rik	armadillo repeat containing 1	protein-coding	1.0	7.0	9.5	111.0	86.0	19.0	28.0	26.5
Merged-chr8-40609912-3	chr8	40609779	40609979	+	831.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001040699, intron 1 of 13)	B3A|SINE|B2	24913.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	0.5	2.0	8.5	97.5	115.5	35.0	42.5	36.5
Merged-chr13-23760258-4	chr13	23760164	23760364	+	899.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178192)	TTS (NM_178192)	985.0	NM_178192	326619.0	Mm.228709	NM_178192	ENSMUSG00000060093	Hist1h4a	-	histone cluster 1, H4a	protein-coding	12.0	22.0	11.0	128.0	51.0	20.5	30.0	11.0
Merged-chr7-24838889-4	chr7	24838812	24839012	+	900.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045096, intron 10 of 11)	intron (NR_045096, intron 10 of 11)	20117.0	NR_045096	545936.0	Mm.376228	NR_045096	ENSMUSG00000011350	Gm5893	EG545936|Gm477	predicted gene 5893	pseudo	22.5	17.0	34.5	165.5	9.0	15.0	8.5	20.0
Merged-chr5-64376017-4	chr5	64375908	64376108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR79|LTR|ERVL	91934.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	34.5	49.5	27.0	337.0	100.5	42.5	41.5	34.0
Merged-chr8-20424315-4	chr8	20424218	20424418	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028428, intron 1 of 5)	CpG	496.0	NR_028428	381598.0	Mm.359054	NM_001024708	ENSMUSG00000071793	2610005L07Rik	2810038F24Rik|6720476A01Rik	cadherin 11 pseudogene	pseudo	25.0	25.0	43.5	142.5	34.5	14.0	18.0	27.0
Merged-chr15-73595293-4	chr15	73595205	73595405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357747, intron 2 of 7)	intron (NM_001357747, intron 2 of 7)	1221.0	NM_001168255	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	31.0	43.5	14.0	483.0	80.5	36.0	49.5	28.0
Merged-chr6-125603390-4	chr6	125603295	125603495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011708, exon 14 of 52)	exon (NM_011708, exon 14 of 52)	50447.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	59.0	73.5	18.5	463.5	97.5	46.5	61.5	42.5
Merged-chr6-86487401-4	chr6	86487302	86487502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040292, intron 1 of 1)	intron (NR_040292, intron 1 of 1)	825.0	NR_040293	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	56.5	91.5	54.0	876.0	112.5	49.0	56.0	55.0
Merged-chr11-11774209-4	chr11	11774112	11774312	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34750.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	29.5	85.5	36.0	270.5	135.5	44.5	26.0	16.5
Merged-chr11-95354301-4	chr11	95354212	95354412	+	935.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172543, intron 1 of 7)	intron (NM_172543, intron 1 of 7)	17294.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	13.5	22.5	6.5	173.5	54.0	16.0	14.5	21.0
Merged-chr4-107313824-1	chr4	107313724	107313924	+	657.333313	f0_balb.idr	promoter-TSS (NM_145550)	promoter-TSS (NM_145550)	-539.0	NM_145550	230584.0	Mm.29118	NM_145550	ENSMUSG00000057375	Yipf1	C030002N13Rik	Yip1 domain family, member 1	protein-coding	8.5	8.5	13.0	95.0	12.0	4.0	3.5	8.0
Merged-chr11-62808162-4	chr11	62808055	62808255	+	874.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12098.0	NM_053169	94092.0	Mm.117087	NM_053169	ENSMUSG00000047821	Trim16	9130006M08Rik|AI482483|EBBP	tripartite motif-containing 16	protein-coding	14.0	10.5	12.5	173.0	25.5	13.5	14.0	3.5
Merged-chr15-59744670-4	chr15	59744562	59744762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50297.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	124.5	182.0	146.0	1808.5	321.0	137.0	127.5	148.0
Merged-chr7-132304207-4	chr7	132304114	132304314	+	939.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029935, intron 1 of 7)	MTEb|LTR|ERVL-MaLR	-11450.0	NR_028578	100043682.0	Mm.482794	NR_028578	ENSMUSG00000109270	Gm10584	-	predicted gene 10584	ncRNA	10.5	14.0	7.0	156.5	38.5	11.5	18.0	30.5
Merged-chr18-4239086-4	chr18	4238988	4239188	+	920.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73256.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	13.0	7.5	12.0	130.5	32.5	6.5	18.5	11.5
Merged-chr11-110095825-3	chr11	110095754	110095954	+	872.455566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153145)	promoter-TSS (NM_153145)	83.0	NM_153145	217258.0	Mm.344148	NM_153145	ENSMUSG00000041828	Abca8a	-	ATP-binding cassette, sub-family A (ABC1), member 8a	protein-coding	25.0	30.5	24.5	176.5	12.5	6.5	4.5	5.5
Merged-chr15-83432866-1	chr15	83432766	83432966	+	724.333313	f0_balb.idr	promoter-TSS (NM_011862)	promoter-TSS (NM_011862)	-16.0	NM_001159510	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	9.0	13.5	7.0	145.5	15.5	8.5	3.5	6.0
Merged-chr15-97667668-3	chr15	97667599	97667799	+	766.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38123.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	4.5	10.0	12.0	59.5	10.0	5.0	4.5	4.5
Merged-chr3-138519418-4	chr3	138519329	138519529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6762.0	NM_007917	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	69.0	76.5	44.0	813.0	142.0	43.5	68.0	71.0
Merged-chr2-148535758-4	chr2	148535664	148535864	+	815.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92229.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	3.0	7.0	5.0	78.5	26.0	19.0	15.0	13.5
Merged-chr1-66817024-4	chr1	66816934	66817134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357156, intron 1 of 14)	CpG	561.0	NM_177645	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	154.0	178.5	144.0	1585.0	409.0	192.5	155.0	214.5
Merged-chr16-85124071-4	chr16	85123964	85124164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	49643.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	51.0	64.0	70.0	1437.5	104.5	30.0	87.0	57.5
Merged-chr11-117331750-4	chr11	117331635	117331835	+	714.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113488)	promoter-TSS (NM_001113488)	20.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	8.5	5.0	4.0	50.0	6.5	4.5	8.5	5.0
Merged-chr7-43685557-4	chr7	43685446	43685646	+	874.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4872.0	NM_174866	317653.0	Mm.247377	NM_174866	ENSMUSG00000044737	Klk14	GK14	kallikrein related-peptidase 14	protein-coding	18.5	35.5	18.5	403.5	26.5	21.5	8.0	12.0
Merged-chr6-99544102-3	chr6	99543993	99544193	+	823.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23100.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	4.5	11.5	8.5	147.0	18.5	1.0	16.0	9.0
Merged-chr6-127472254-4	chr6	127472147	127472347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181402, intron 4 of 8)	intron (NM_181402, intron 4 of 8)	18620.0	NM_001346512	101187.0	Mm.110818	NM_181402	ENSMUSG00000037997	Parp11	5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11	poly (ADP-ribose) polymerase family, member 11	protein-coding	93.0	113.0	70.0	1384.0	195.0	57.5	92.0	66.0
Merged-chr19-41334714-4	chr19	41334599	41334799	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	50371.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	33.0	31.5	53.0	433.5	57.0	12.0	13.0	45.5
Merged-chr2-117962882-5	chr2	117962745	117962945	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	MTD|LTR|ERVL-MaLR	140917.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	6.5	7.5	28.0	226.5	14.0	12.0	4.5	21.5
Merged-chr6-5038219-3	chr6	5038118	5038318	+	628.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	MTA_Mm|LTR|ERVL-MaLR	134898.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	9.0	12.0	12.0	23.5	17.0	3.0	3.5	10.0
Merged-chr11-5511551-4	chr11	5511452	5511652	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9089.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	30.5	32.0	42.5	877.5	64.5	17.5	23.0	24.0
Merged-chr6-136554977-4	chr6	136554863	136555063	+	933.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	36112.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	40.0	47.5	20.5	356.0	32.0	14.5	9.0	7.5
Merged-chr7-29126714-4	chr7	29126620	29126820	+	955.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1569.0	NM_009109	20190.0	Mm.439745	NM_009109	ENSMUSG00000030592	Ryr1	AI528790|RYR-1|Ryr|skrr	ryanodine receptor 1, skeletal muscle	protein-coding	16.0	29.0	9.0	149.0	48.5	22.5	18.0	18.0
Merged-chr5-66102985-4	chr5	66102879	66103079	+	975.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	B4|SINE|B4	-4800.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	37.5	36.0	29.5	531.0	33.0	13.5	25.0	13.5
Merged-chr12-4599950-3	chr12	4599873	4600073	+	932.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198969, intron 1 of 16)	intron (NM_001198969, intron 1 of 16)	6965.0	NM_001198968	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	6.5	9.0	12.5	254.5	9.5	5.5	8.0	11.0
Merged-chr6-83156411-2	chr6	83156309	83156509	+	744.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_023790)	promoter-TSS (NM_023790)	5.0	NM_027948	71837.0	Mm.17621	NM_027948	ENSMUSG00000030030	1700003E16Rik	AU041756	RIKEN cDNA 1700003E16 gene	protein-coding	4.5	12.5	6.5	121.5	22.0	11.5	13.5	9.0
Merged-chr10-86778786-7	chr10	86778685	86778885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175331)	promoter-TSS (NM_175331)	-220.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	178.0	290.0	284.5	2308.0	325.5	135.0	143.5	197.0
Merged-chr3-88422550-4	chr3	88422446	88422646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281795, intron 1 of 3)	intron (NM_001281795, intron 1 of 3)	2595.0	NM_178696	229517.0	Mm.301740	NM_178696	ENSMUSG00000050144	Slc25a44	6720482A19|B430110G05Rik	solute carrier family 25, member 44	protein-coding	46.0	94.0	38.5	465.0	197.5	71.0	80.5	39.5
Merged-chr11-120457193-4	chr11	120457154	120457354	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152807)	promoter-TSS (NM_152807)	816.0	NM_001356385	66431.0	Mm.45063	NM_025560	ENSMUSG00000039670	Oxld1	1810049H13Rik	oxidoreductase like domain containing 1	protein-coding	24.5	18.5	19.5	208.0	45.0	13.5	10.0	16.0
Merged-chr7-101618516-4	chr7	101618436	101618636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-37375.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	37.5	59.0	30.0	612.5	110.0	23.0	33.0	61.5
Merged-chr2-153338918-3	chr2	153338818	153339018	+	929.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6892.0	NR_040318	72326.0	Mm.400102	NR_040318	ENSMUSG00000073236	2500004C02Rik	-	RIKEN cDNA 2500004C02 gene	ncRNA	12.5	11.5	6.5	157.5	12.0	5.5	6.0	2.0
Merged-chr6-53612265-4	chr6	53612164	53612364	+	873.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 7 of 10)	intron (NM_001327821, intron 7 of 10)	38890.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	12.0	13.0	14.0	354.0	40.5	8.5	19.0	11.5
Merged-chr5-100644050-4	chr5	100643921	100644121	+	817.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30235.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	5.5	6.5	6.0	89.5	34.5	7.0	9.5	9.0
Merged-chr8-124066741-1	chr8	124066641	124066841	+	762.0	f0_balb.idr	Intergenic	Intergenic	43268.0	NM_001029876	382038.0	Mm.334891	NM_001029876	ENSMUSG00000031976	Urb2	C77575|mKIAA0133	URB2 ribosome biogenesis 2 homolog (S. cerevisiae)	protein-coding	8.0	6.0	6.0	124.0	0.0	2.5	2.0	6.0
Merged-chr9-37348368-4	chr9	37348241	37348441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081429)	promoter-TSS (NM_001081429)	51.0	NM_001081429	245902.0	Mm.390150	NM_001081429	ENSMUSG00000034303	Ccdc15	A630039F14Rik|D030074L19	coiled-coil domain containing 15	protein-coding	100.0	156.0	117.5	2306.5	297.5	101.0	142.5	133.5
Merged-chr15-66823148-3	chr15	66823048	66823248	+	949.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	8681.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	9.0	15.5	24.5	266.5	16.5	5.5	11.0	7.0
Merged-chr15-96641627-4	chr15	96641524	96641724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134086, exon 1 of 16)	5' UTR (NM_134086, exon 1 of 16)	338.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	55.0	120.0	65.0	1012.5	202.5	86.5	92.5	77.5
Merged-chr4-132793606-2	chr4	132793506	132793706	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033308, intron 1 of 5)	B2_Mm1a|SINE|B2	2758.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	5.0	12.5	3.5	43.0	17.5	5.5	4.5	16.5
Merged-chr4-45513564-3	chr4	45513468	45513668	+	908.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	17260.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	13.0	17.5	3.0	100.5	13.5	9.5	7.0	5.5
Merged-chr1-4873491-2	chr1	4873391	4873591	+	745.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159750, intron 2 of 9)	MTA_Mm|LTR|ERVL-MaLR	15163.0	NM_001159751	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	7.5	6.5	10.0	48.0	8.5	5.5	9.5	8.0
Merged-chr11-70700261-4	chr11	70700157	70700357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252485)	promoter-TSS (NM_001252485)	-102.0	NM_001252485	103844.0	Mm.101581	NM_213729	ENSMUSG00000057054	Inca1	AI842396	inhibitor of CDK, cyclin A1 interacting protein 1	protein-coding	61.5	106.5	60.0	497.5	137.0	51.5	34.5	55.5
Merged-chr6-17520852-4	chr6	17520760	17520960	+	970.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008591, intron 4 of 21)	intron (NM_008591, intron 4 of 21)	56903.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	17.5	60.5	41.0	698.5	55.0	15.0	21.5	16.5
Merged-chr9-65655650-4	chr9	65655543	65655743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028030, intron 6 of 7)	ID_B1|SINE|B4	-20905.0	NM_010952	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	71.0	110.0	51.0	1149.0	95.0	26.0	79.0	61.0
Merged-chr16-85072415-2	chr16	85072322	85072522	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 5 of 15)	intron (NM_001198825, intron 5 of 15)	100211.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	6.5	15.5	8.5	111.5	32.0	17.5	10.5	21.0
Merged-chr11-49202808-4	chr11	49202689	49202889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009562)	promoter-TSS (NM_009562)	-711.0	NM_001024846	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	36.0	55.5	33.0	337.5	96.5	39.0	29.5	27.5
Merged-chr5-115489025-4	chr5	115488951	115489151	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4567.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	4.5	16.5	13.5	114.0	33.5	20.0	12.0	18.0
Merged-chr12-112942565-1	chr12	112942465	112942665	+	678.0	f0_c57.idr	promoter-TSS (NM_025399)	promoter-TSS (NM_025399)	-423.0	NM_001316724	66174.0	Mm.7070	NM_025399	ENSMUSG00000002804	Nudt14	1110030M18Rik|UGPPase	nudix (nucleoside diphosphate linked moiety X)-type motif 14	protein-coding	11.0	4.5	13.5	109.5	25.0	11.5	10.5	19.0
Merged-chr10-45067142-4	chr10	45067042	45067242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011156)	promoter-TSS (NM_011156)	-72.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	100.0	104.5	74.5	1810.5	182.5	67.0	92.5	81.5
Merged-chr18-83828157-1	chr18	83828057	83828257	+	1000.0	f0_balb.idr	Intergenic	Intergenic	258405.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	29.5	42.0	14.5	205.0	53.5	18.5	27.0	18.0
Merged-chr10-80053510-4	chr10	80053402	80053602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008162)	promoter-TSS (NM_008162)	14.0	NM_008162	625249.0	Mm.332810	NM_008162	ENSMUSG00000075706	Gpx4	GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx	glutathione peroxidase 4	protein-coding	232.5	433.0	264.0	3698.5	728.0	250.5	331.5	232.5
Merged-chr1-171411328-4	chr1	171411235	171411435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305677)	promoter-TSS (NM_001305677)	22.0	NM_001305676	22278.0	Mm.8	NM_009480	ENSMUSG00000026641	Usf1	bHLHb11	upstream transcription factor 1	protein-coding	37.0	48.5	30.0	486.5	151.0	74.0	54.0	52.0
Merged-chr1-184169417-4	chr1	184169323	184169523	+	773.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135042.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	7.0	16.0	19.5	276.0	22.5	11.5	10.0	7.5
Merged-chr10-117941051-5	chr10	117940894	117941094	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045342, intron 3 of 3)	intron (NR_045342, intron 3 of 3)	15535.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	18.0	54.5	21.5	303.5	64.0	27.5	22.0	18.5
Merged-chr5-90908541-3	chr5	90908512	90908712	+	848.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3D|LINE|L1	4713.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	5.5	6.0	7.5	28.5	22.5	3.5	11.5	2.0
Merged-chr10-67247344-3	chr10	67247259	67247459	+	849.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 22 of 25)	B3|SINE|B2	37922.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	9.0	5.5	5.0	24.0	53.0	9.5	10.5	5.0
Merged-chr2-91987749-4	chr2	91987637	91987837	+	926.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011957, intron 8 of 11)	intron (NM_011957, intron 8 of 11)	-24174.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	23.5	20.5	10.0	139.5	46.0	10.0	13.5	24.0
Merged-chr1-171412256-4	chr1	171412159	171412359	+	933.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009480, intron 1 of 9)	intron (NM_009480, intron 1 of 9)	578.0	NM_009480	22278.0	Mm.8	NM_009480	ENSMUSG00000026641	Usf1	bHLHb11	upstream transcription factor 1	protein-coding	12.5	13.0	15.5	142.0	24.0	4.5	11.5	6.5
Merged-chr12-4720044-3	chr12	4719928	4720128	+	736.788879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029107, intron 6 of 7)	intron (NM_029107, intron 6 of 7)	18355.0	NM_029107	74855.0	Mm.269534	NM_029107	ENSMUSG00000079177	Fam228a	4930417G10Rik	family with sequence similarity 228, member A	protein-coding	4.0	17.5	6.5	154.0	15.5	6.0	7.0	7.0
Merged-chr11-55240781-4	chr11	55240690	55240890	+	924.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36450.0	NM_153139	215335.0	Mm.35732	NM_153139	ENSMUSG00000020261	Slc36a1	5830411H19Rik|AI839897|Pat1	solute carrier family 36 (proton/amino acid symporter), member 1	protein-coding	17.0	27.5	19.5	235.5	31.5	9.0	15.5	15.0
Merged-chr15-36933807-4	chr15	36933664	36933864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73638.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	80.0	107.5	136.0	1728.5	157.0	65.0	88.5	78.5
Merged-chr4-120825277-4	chr4	120825182	120825382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357194)	promoter-TSS (NM_001357194)	-73.0	NM_001357194	18046.0	Mm.318389	NM_008692	ENSMUSG00000032897	Nfyc	-	nuclear transcription factor-Y gamma	protein-coding	56.5	93.0	67.0	1022.5	208.0	77.5	89.0	84.5
Merged-chr4-32363701-4	chr4	32363567	32363767	+	963.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53768.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	46.5	80.0	131.0	2233.5	62.0	11.0	30.0	21.5
Merged-chr18-15063000-2	chr18	15062900	15063100	+	683.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001142731, exon 1 of 5)	exon (NM_001142731, exon 1 of 5)	582.0	NM_001142731	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	7.5	7.5	6.0	62.0	6.5	1.0	6.0	0.5
Merged-chr19-41332402-4	chr19	41332270	41332470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	52700.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	85.0	67.5	61.0	919.5	182.5	68.5	76.5	68.5
Merged-chr7-6150921-2	chr7	6150821	6151021	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013012, intron 1 of 2)	intron (NM_001013012, intron 1 of 2)	5050.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	6.5	8.5	3.5	75.0	20.5	5.0	9.5	8.5
Merged-chr16-95709414-2	chr16	95709314	95709514	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 2 of 9)	intron (NM_011809, intron 2 of 9)	7007.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	15.0	14.5	15.5	227.5	30.0	10.0	14.0	23.5
Merged-chr16-87440407-4	chr16	87440310	87440510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016924, intron 1 of 4)	CpG	182.0	NM_016924	53858.0	Mm.162406	NM_016924	ENSMUSG00000041079	Rwdd2b	ORF5	RWD domain containing 2B	protein-coding	80.0	143.5	129.0	1587.0	195.5	80.5	109.5	102.0
Merged-chr11-8624757-4	chr11	8624667	8624867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	CpG	39768.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	28.0	46.5	32.5	597.5	97.0	29.0	38.0	20.0
Merged-chr14-54715125-3	chr14	54714974	54715174	+	885.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2900.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	1.5	7.0	4.5	89.0	19.5	6.0	4.5	5.5
Merged-chr8-26119313-4	chr8	26119212	26119412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207659)	promoter-TSS (NM_207659)	-56.0	NM_001357292	77733.0	Mm.291906	NM_029965	ENSMUSG00000013878	Rnf170	6720407G21Rik|AI481227	ring finger protein 170	protein-coding	169.5	347.0	181.5	2282.0	441.0	218.0	228.5	125.0
Merged-chr3-109448462-4	chr3	109448360	109448560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	L3|LINE|CR1	107777.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	67.5	78.5	54.5	607.0	146.0	58.5	56.0	73.0
Merged-chr7-143832511-4	chr7	143832414	143832614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007856, intron 2 of 8)	intron (NM_007856, intron 2 of 8)	9347.0	NM_007856	13360.0	Mm.249342	NM_007856	ENSMUSG00000058454	Dhcr7	AA409147	7-dehydrocholesterol reductase	protein-coding	41.0	61.0	26.0	443.0	98.5	26.5	38.0	28.0
Merged-chr13-23577105-7	chr13	23576906	23577106	+	887.305969	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178204)	TTS (NM_178204)	1243.0	NM_178204	319149.0	Mm.347699	NM_178204	ENSMUSG00000099583	Hist1h3d	H3-b	histone cluster 1, H3d	protein-coding	7.5	5.5	7.0	62.0	17.5	10.5	9.5	15.0
Merged-chr10-119004096-4	chr10	119003996	119004196	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	46403.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	18.0	35.5	21.5	402.5	40.0	20.0	22.5	20.0
Merged-chr5-146231080-4	chr5	146230953	146231153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359990)	promoter-TSS (NM_001359990)	-197.0	NM_001359990	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	83.0	130.5	102.5	1524.0	178.5	79.5	104.5	79.0
Merged-chr14-101560814-4	chr14	101560724	101560924	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	48367.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	6.5	5.0	10.0	278.0	23.0	9.5	15.5	8.0
Merged-chr1-84465064-4	chr1	84464961	84465161	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 7 of 12)	intron (NM_152915, intron 7 of 12)	-180416.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	22.5	22.0	46.5	447.0	28.5	21.5	15.5	26.0
Merged-chr12-85947336-4	chr12	85947210	85947410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 28 of 32)	intron (NM_001347395, intron 28 of 32)	122360.0	NM_001081423	320244.0	Mm.132172	NM_177114	ENSMUSG00000012609	Ttll5	1700048H13Rik|2310009M18Rik|4930556H18Rik|AI428864|D630041K24Rik|R75373|Stamp|mKIAA0998	tubulin tyrosine ligase-like family, member 5	protein-coding	101.5	124.5	93.0	1517.0	269.0	88.5	107.5	104.0
Merged-chr1-72282782-4	chr1	72282681	72282881	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356516, intron 1 of 6)	intron (NM_001356516, intron 1 of 6)	1540.0	NM_023523	111175.0	Mm.281738	NM_023523	ENSMUSG00000026189	Pecr	2400003B18Rik|TERP	peroxisomal trans-2-enoyl-CoA reductase	protein-coding	18.5	5.5	16.0	279.5	22.0	10.5	14.0	16.0
Merged-chr11-88161816-3	chr11	88161697	88161897	+	858.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198013, intron 1 of 10)	intron (NM_198013, intron 1 of 10)	-7768.0	NM_001172099	103841.0	Mm.374846	NM_198013	ENSMUSG00000018378	Cuedc1	AI841487|C330016O16Rik	CUE domain containing 1	protein-coding	14.5	27.0	7.5	146.0	22.0	2.0	8.0	9.5
Merged-chr14-21848989-4	chr14	21848889	21849089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026965)	promoter-TSS (NM_026965)	-79.0	NM_026965	69156.0	Mm.11827	NM_026965	ENSMUSG00000021773	Comtd1	1810030M08Rik|MT773	catechol-O-methyltransferase domain containing 1	protein-coding	90.0	152.5	79.5	1658.5	247.0	93.5	104.5	89.5
Merged-chr5-90696286-4	chr5	90696185	90696385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55758.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	123.0	149.0	247.5	2645.0	211.5	81.5	124.0	99.5
Merged-chr1-156442288-4	chr1	156442169	156442369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 6 of 15)	intron (NM_009230, intron 6 of 15)	-21354.0	NM_001346967	77352.0	Mm.428709	NM_001033180	ENSMUSG00000026601	Axdnd1	9430070O13Rik|Gm979	axonemal dynein light chain domain containing 1	protein-coding	18.5	37.0	56.0	776.0	67.0	17.5	33.5	34.5
Merged-chr10-14197351-4	chr10	14197219	14197419	+	851.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	230940.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	5.5	3.5	9.0	59.5	19.0	19.5	12.5	5.0
Merged-chr5-76303974-4	chr5	76303874	76304074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305222)	promoter-TSS (NM_001305222)	-472.0	NM_001305222	12753.0	Mm.3552	NM_007715	ENSMUSG00000029238	Clock	5330400M04Rik|KAT13D	circadian locomotor output cycles kaput	protein-coding	116.0	159.5	110.5	1803.0	299.5	112.5	157.5	104.0
Merged-chr3-121163594-3	chr3	121163458	121163658	+	849.166626	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028456, intron 1 of 4)	intron (NM_028456, intron 1 of 4)	8137.0	NM_028456	66568.0	Mm.263163	NM_025637	ENSMUSG00000028133	Rwdd3	2510027J23Rik|3110037C01Rik|AI035684|AI662458|Rsume|X2CR1	RWD domain containing 3	protein-coding	3.0	6.5	0.5	54.5	59.0	11.0	14.0	12.5
Merged-chr12-12223538-4	chr12	12223437	12223637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38602.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	115.5	182.5	135.0	1894.5	323.5	121.0	161.5	128.5
Merged-chr5-76929344-4	chr5	76929248	76929448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172146, intron 1 of 10)	intron (NM_172146, intron 1 of 10)	-21954.0	NM_001356974	67054.0	Mm.182931	NM_025939	ENSMUSG00000029247	Paics	2610511I09Rik|ADE2H1|AIRC|PAIS	phosphoribosylaminoimidazole carboxylase, phosphoribosylaminoribosylaminoimidazole, succinocarboxamide synthetase	protein-coding	24.0	45.0	23.5	494.5	120.5	34.5	63.0	47.0
Merged-chr18-58659442-4	chr18	58659370	58659570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025478)	promoter-TSS (NM_025478)	-12.0	NM_025478	66307.0	Mm.182574	NM_025478	ENSMUSG00000024601	Isoc1	2610034N03Rik	isochorismatase domain containing 1	protein-coding	49.5	59.0	25.0	699.5	84.0	30.0	69.5	36.0
Merged-chr9-90257556-4	chr9	90257439	90257639	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	13230.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	8.0	14.5	27.5	263.5	26.5	10.5	18.0	11.0
Merged-chr10-30770716-4	chr10	30770644	30770844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	intron (NM_001358842, intron 2 of 14)	32582.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	71.0	101.0	70.0	1491.0	128.5	45.0	49.5	46.0
Merged-chr2-5771077-4	chr2	5770969	5771169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56307.0	NM_177343	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	61.5	118.0	84.0	929.5	233.0	105.0	99.5	104.0
Merged-chr11-51889796-3	chr11	51889701	51889901	+	978.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-32171.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	7.5	4.5	8.5	177.0	9.0	4.5	9.5	8.5
Merged-chr19-57356452-3	chr19	57356421	57356621	+	855.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040316, intron 1 of 2)	B3|SINE|B2	4378.0	NR_040316	320879.0	Mm.375089	NR_040316	ENSMUSG00000097785	B230217O12Rik	-	RIKEN cDNA B230217O12 gene	ncRNA	4.5	5.0	5.0	143.5	7.5	3.5	1.5	2.5
Merged-chr19-9939031-4	chr19	9938897	9939097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39464.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	128.0	185.0	155.0	1639.5	314.0	99.0	104.5	97.0
Merged-chr11-85686391-4	chr11	85686317	85686517	+	813.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	ORR1E|LTR|ERVL-MaLR	33327.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	10.0	28.5	14.0	239.0	21.0	8.0	6.0	7.5
Merged-chr19-17314710-4	chr19	17314568	17314768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	24837.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	36.0	29.0	31.0	474.0	57.0	19.5	31.0	35.0
Merged-chr17-27840019-4	chr17	27839918	27840118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011432)	promoter-TSS (NM_011432)	-69.0	NM_011432	20630.0	Mm.103949	NM_011432	ENSMUSG00000024217	Snrpc	Snrp1c|U1-C|U1C	U1 small nuclear ribonucleoprotein C	protein-coding	120.5	194.0	90.0	1264.5	312.0	138.0	86.5	121.5
Merged-chr8-11340496-4	chr8	11340399	11340599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 3 of 47)	intron (NM_009932, intron 3 of 47)	-27673.0	NM_009931	12826.0	Mm.738	NM_009931	ENSMUSG00000031502	Col4a1	Bru|Col4a-1|Raw|Svc	collagen, type IV, alpha 1	protein-coding	48.0	73.5	58.5	1259.5	73.0	39.5	34.0	35.0
Merged-chr5-86065546-5	chr5	86065373	86065573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007683, exon 1 of 19)	5' UTR (NM_007683, exon 1 of 19)	110.0	NM_001345902	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	62.0	96.0	109.5	1016.5	239.5	114.5	99.0	81.0
Merged-chr15-33083219-4	chr15	33083129	33083329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018755)	promoter-TSS (NM_018755)	100.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	58.0	75.0	70.0	997.0	84.0	33.5	60.0	67.5
Merged-chr6-143074161-4	chr6	143074095	143074295	+	972.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362117, intron 7 of 26)	intron (NM_001362117, intron 7 of 26)	25957.0	NM_001362118	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	28.0	36.0	12.5	395.0	47.0	12.0	14.5	20.5
Merged-chr4-126405264-4	chr4	126405156	126405356	+	827.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153402, intron 3 of 18)	intron (NM_153402, intron 3 of 18)	24286.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	9.0	15.5	10.5	301.5	34.5	20.5	10.0	17.5
Merged-chr19-16781711-3	chr19	16781603	16781803	+	737.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173028)	promoter-TSS (NM_173028)	-770.0	NM_173028	271564.0	Mm.211963	NM_173028	ENSMUSG00000046230	Vps13a	4930425F11|4930516E05Rik|4930543C13Rik|9930023P20|Chac|Chorein|D330038K10Rik|mKIAA0986	vacuolar protein sorting 13A	protein-coding	8.0	6.0	6.0	122.0	7.0	6.0	3.0	5.5
Merged-chr8-120108045-4	chr8	120107954	120108154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5A|LINE|L1	-6098.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	47.0	68.0	49.5	926.0	93.5	22.0	72.0	41.0
Merged-chr10-40643455-4	chr10	40643351	40643551	+	941.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133568, intron 3 of 4)	MTC|LTR|ERVL-MaLR	13440.0	NR_133568	70503.0	Mm.252862	NM_027442	ENSMUSG00000063428	Ddo	5330420D20Rik|5730402C02Rik|AI467244	D-aspartate oxidase	protein-coding	15.5	39.5	4.5	85.5	62.5	28.5	43.5	32.0
Merged-chr14-33303617-4	chr14	33303506	33303706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 4 of 10)	intron (NM_153800, intron 4 of 10)	86783.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	20.0	32.5	22.5	230.5	49.5	13.0	17.5	22.5
Merged-chr2-25279342-3	chr2	25279243	25279443	+	888.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175300, intron 8 of 12)	intron (NM_175300, intron 8 of 12)	6877.0	NM_175300	99152.0	Mm.291624	NM_175300	ENSMUSG00000026965	Anapc2	9230107K09Rik|AL024279|Apc2|Emi4|Imi4|mKIAA1406	anaphase promoting complex subunit 2	protein-coding	4.5	11.5	1.0	51.5	27.5	9.5	8.5	10.0
Merged-chr8-3481093-2	chr8	3480993	3481193	+	574.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029598, intron 4 of 8)	B1_Mur4|SINE|Alu	10231.0	NM_029598	76406.0	Mm.74996	NM_029598	ENSMUSG00000040340	Tex45	1700019B03Rik	testis expressed 45	protein-coding	2.0	4.5	0.0	29.0	9.5	7.0	5.5	9.0
Merged-chr19-10278872-4	chr19	10278778	10278978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	25999.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	38.5	88.5	45.5	522.5	113.5	54.0	28.0	35.0
Merged-chr6-58770950-3	chr6	58770853	58771053	+	875.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60512.0	NM_001361967	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	7.0	11.0	9.5	94.0	18.0	5.5	8.0	7.5
Merged-chr1-132338159-4	chr1	132338052	132338252	+	651.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22027.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	11.0	18.5	9.5	50.5	28.5	5.0	13.5	10.5
Merged-chr3-101604112-4	chr3	101604020	101604220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	CpG	587.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	97.5	126.5	113.0	1930.5	318.5	107.0	171.5	154.0
Merged-chr4-123014159-4	chr4	123014060	123014260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2433.0	NM_025873	66966.0	Mm.235030	NM_025873	ENSMUSG00000028653	Trit1	2310075G14Rik|AI314189|AI314635|AV099619|IPPT|IPT|MOD5	tRNA isopentenyltransferase 1	protein-coding	28.5	35.5	27.5	243.0	82.5	29.5	41.0	27.5
Merged-chr7-118480486-3	chr7	118480430	118480630	+	858.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11445.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	8.0	12.5	6.5	107.0	15.0	6.5	4.5	7.5
Merged-chr5-111176729-3	chr5	111176607	111176807	+	970.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267622, intron 5 of 22)	intron (NM_001267622, intron 5 of 22)	-153990.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	29.0	34.5	36.5	445.5	3.5	0.0	1.0	2.5
Merged-chr2-60383401-4	chr2	60383287	60383487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013825)	promoter-TSS (NM_013825)	-156.0	NM_013825	17076.0	Mm.2074	NM_013825	ENSMUSG00000026980	Ly75	CD205|DEC-205|DEC205	lymphocyte antigen 75	protein-coding	56.0	42.5	63.5	703.0	75.5	25.0	30.5	22.0
Merged-chr18-34855446-4	chr18	34855346	34855546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5761.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	27.0	116.0	66.0	669.0	155.0	55.0	66.0	71.0
Merged-chr2-51268696-2	chr2	51268596	51268796	+	564.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_040636, intron 1 of 2)	intron (NR_040636, intron 1 of 2)	26865.0	NR_040636	329404.0	Mm.417725	NR_040636	ENSMUSG00000086349	Gm13497	A730015I17	predicted gene 13497	ncRNA	3.5	5.5	6.5	212.0	13.0	7.0	14.0	7.0
Merged-chr8-67431536-3	chr8	67431439	67431639	+	859.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59219.0	NM_008673	17960.0	Mm.14125	NM_008673	ENSMUSG00000025588	Nat1	Nat-1	N-acetyl transferase 1	protein-coding	11.5	6.5	5.0	96.5	12.5	5.0	9.5	6.0
Merged-chr2-32447366-4	chr2	32447245	32447445	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146118, intron 1 of 10)	intron (NM_146118, intron 1 of 10)	-3112.0	NM_194335	71254.0	Mm.102341	NM_194335	ENSMUSG00000039164	Naif1	2310007O20Rik|4933440H19Rik	nuclear apoptosis inducing factor 1	protein-coding	16.5	19.0	1.0	132.0	34.5	11.5	16.0	10.5
Merged-chr13-102695482-7	chr13	102695392	102695592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360519, intron 1 of 2)	intron (NM_001360519, intron 1 of 2)	1934.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	47.5	34.5	56.0	570.5	100.0	47.0	36.5	64.0
Merged-chr6-87914043-4	chr6	87913941	87914141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173737)	promoter-TSS (NM_173737)	65.0	NM_173737	232210.0	Mm.246241	NM_173737	ENSMUSG00000030060	Hmces	8430410A17Rik|C85376	5-hydroxymethylcytosine (hmC) binding, ES cell specific	protein-coding	39.0	47.5	48.0	554.5	76.0	27.5	27.5	38.5
Merged-chr5-97002482-3	chr5	97002395	97002595	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 1 of 15)	intron (NM_080708, intron 1 of 15)	4806.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	12.0	4.5	12.5	162.5	17.0	3.5	10.0	8.5
Merged-chr1-131126645-3	chr1	131126554	131126754	+	938.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11580.0	NM_145508	226419.0	Mm.39299	NM_145508	ENSMUSG00000016526	Dyrk3	BC006704	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3	protein-coding	15.5	10.5	7.5	208.0	25.5	5.5	8.5	6.5
Merged-chr11-53735283-3	chr11	53735200	53735400	+	892.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14506.0	NM_010558	16191.0	Mm.4461	NM_010558	ENSMUSG00000036117	Il5	Il-5	interleukin 5	protein-coding	6.0	18.5	6.5	98.5	25.0	10.5	3.0	10.5
Merged-chr4-53115457-3	chr4	53115374	53115574	+	810.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	44421.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	6.0	14.0	10.0	222.5	15.5	3.5	6.5	9.5
Merged-chr15-8737475-4	chr15	8737374	8737574	+	896.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-26667.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	14.5	5.5	17.0	121.5	52.0	10.5	11.5	15.5
Merged-chr14-122603350-3	chr14	122603251	122603451	+	830.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 6 of 24)	intron (NR_153443, intron 6 of 24)	69023.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	7.0	14.5	10.5	180.5	17.5	1.5	20.5	10.5
Merged-chr10-115384888-4	chr10	115384793	115384993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033261)	promoter-TSS (NM_001033261)	-66.0	NM_001033261	216345.0	Mm.207621	NM_001033261	ENSMUSG00000034163	Zfc3h1	BC033596|Ccdc131|Psrc2	zinc finger, C3H1-type containing	protein-coding	303.5	473.0	402.5	5605.5	793.5	291.0	406.0	331.5
Merged-chr12-8208239-4	chr12	8208146	8208346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167767, intron 1 of 5)	CpG	119.0	NM_001167767	68832.0	Mm.25608	NM_172401	ENSMUSG00000037669	Ldah	1110057K04Rik|mLDAH	lipid droplet associated hydrolase	protein-coding	88.5	126.5	128.0	1402.5	168.0	82.5	84.5	90.0
Merged-chr6-131290630-4	chr6	131290533	131290733	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025564, intron 1 of 4)	B2_Mm2|SINE|B2	2611.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	7.5	16.5	6.0	114.0	40.0	10.0	31.5	18.0
Merged-chr19-42018083-4	chr19	42017978	42018178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	intron (NM_145500, intron 1 of 2)	-17960.0	NM_020033	56642.0	Mm.143737	NM_020033	ENSMUSG00000025172	Ankrd2	Arpp|mArpp	ankyrin repeat domain 2 (stretch responsive muscle)	protein-coding	53.0	70.0	52.0	717.5	89.0	41.0	38.5	31.0
Merged-chr12-119069962-3	chr12	119069849	119070049	+	914.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103528.0	NM_029961	77706.0	Mm.261496	NM_029961	ENSMUSG00000072791	Abcb5	9230106F14Rik	ATP-binding cassette, sub-family B (MDR/TAP), member 5	protein-coding	5.0	8.0	10.5	139.0	22.5	11.0	5.0	6.5
Merged-chr10-80824075-4	chr10	80823941	80824141	+	925.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2615.0	NM_001301034	18245.0	Mm.398119	NM_008753	ENSMUSG00000035242	Oaz1	AZ-1|AZ1|Antizyme|ODC-Az|Oaz	ornithine decarboxylase antizyme 1	protein-coding	11.0	16.0	6.5	190.0	30.5	15.0	9.5	17.5
Merged-chr10-40384055-4	chr10	40383955	40384155	+	787.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291816, intron 1 of 11)	intron (NM_001291816, intron 1 of 11)	34747.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	8.5	2.5	7.5	160.5	24.0	6.5	4.5	10.0
Merged-chr19-10904989-3	chr19	10904885	10905085	+	824.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134129, intron 15 of 15)	intron (NM_134129, intron 15 of 15)	6340.0	NM_001253844	28000.0	Mm.491104	NM_134129	ENSMUSG00000024735	Prpf19	AA617263|AL024362|D19Wsu55e|NMP200|PSO4|Prp19|Snev	pre-mRNA processing factor 19	protein-coding	15.0	9.5	13.5	156.5	26.5	2.0	4.5	7.0
Merged-chr16-33345201-4	chr16	33345104	33345304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	35532.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	31.5	26.0	28.5	330.5	78.5	25.5	23.5	25.5
Merged-chr14-31172947-4	chr14	31172836	31173036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022656, intron 19 of 20)	intron (NM_022656, intron 19 of 20)	-4295.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	76.0	107.5	107.5	1193.0	154.5	62.0	74.0	50.0
Merged-chr2-4389506-4	chr2	4389416	4389616	+	868.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172475, intron 1 of 22)	intron (NM_172475, intron 1 of 22)	-11460.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	10.0	12.5	11.5	114.0	36.5	10.0	21.0	15.5
Merged-chr17-69475546-4	chr17	69475433	69475633	+	851.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145192, intron 1 of 1)	intron (NM_001145192, intron 1 of 1)	36207.0	NM_001145192	320722.0	Mm.400254	NM_001145192	ENSMUSG00000091636	Akain1	A330050F15Rik	A kinase (PRKA) anchor inhibitor 1	protein-coding	10.5	19.0	11.0	171.0	36.0	14.0	8.5	5.0
Merged-chr3-54317431-4	chr3	54317338	54317538	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 10 of 11)	intron (NM_001253682, intron 10 of 11)	-43669.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	15.5	24.0	15.5	325.0	16.5	10.0	11.5	21.0
Merged-chr16-16302897-4	chr16	16302814	16303014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038046)	promoter-TSS (NR_038046)	-51.0	NR_038046	70120.0	Mm.37486	NM_198246	ENSMUSG00000022792	Yars2	2210023C10Rik|tyrRS	tyrosyl-tRNA synthetase 2 (mitochondrial)	protein-coding	100.5	104.0	91.0	1178.0	214.0	73.0	117.0	87.0
Merged-chr18-73752199-4	chr18	73752092	73752292	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053255, intron 1 of 3)	intron (NM_053255, intron 1 of 3)	2287.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	15.5	10.0	6.5	172.5	53.0	37.0	41.5	25.0
Merged-chr5-118376633-4	chr5	118376539	118376739	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131412.0	NM_001081236	76792.0	Mm.103428	NM_001081236	ENSMUSG00000032840	2410131K14Rik	-	RIKEN cDNA 2410131K14 gene	protein-coding	20.0	61.5	14.5	328.0	42.5	7.5	14.5	12.0
Merged-chr12-58538493-4	chr12	58538398	58538598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-269240.0	NM_025809	66864.0	Mm.280563	NM_025809	ENSMUSG00000045930	Clec14a	1200003C23Rik|AI642649	C-type lectin domain family 14, member a	protein-coding	94.0	90.0	124.5	1631.5	111.0	65.5	54.5	55.5
Merged-chr4-53827003-4	chr4	53826906	53827106	+	952.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028053, intron 1 of 5)	Charlie1b|DNA|hAT-Charlie	961.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	14.5	21.0	24.5	293.5	55.0	21.5	21.5	16.5
Merged-chr1-34463029-4	chr1	34462937	34463137	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 2 of 14)	intron (NM_011206, intron 2 of 14)	3291.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	20.5	28.5	12.5	156.0	51.0	21.5	36.5	25.0
Merged-chr19-9122626-4	chr19	9122531	9122731	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025610, intron 2 of 6)	RLTR49|LTR|ERVK	12935.0	NM_025610	66514.0	Mm.272847	NM_025610	ENSMUSG00000024654	Asrgl1	2410004D18Rik|ALP|ALP1|AU040643|AW060375	asparaginase like 1	protein-coding	54.0	106.5	67.5	557.0	95.0	24.0	42.5	16.5
Merged-chr10-127041294-6	chr10	127041141	127041341	+	883.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010792)	promoter-TSS (NM_010792)	153.0	NM_001205036	100504608.0	Mm.486142	NM_001205036	ENSMUSG00000080115	Mettl21b	Fam119b|eef1akmt3	methyltransferase like 21B	protein-coding	12.0	15.5	8.0	45.5	20.0	11.0	13.0	8.5
Merged-chr5-103425164-4	chr5	103425063	103425263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011204)	promoter-TSS (NM_011204)	-29.0	NM_011204	19249.0	Mm.3414	NM_011204	ENSMUSG00000034573	Ptpn13	AI324989|PTP-BL|PTPL1|Ptpri|RIP	protein tyrosine phosphatase, non-receptor type 13	protein-coding	36.0	28.5	21.5	447.5	54.0	23.0	36.5	25.0
Merged-chr13-44484512-4	chr13	44484417	44484617	+	939.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44790.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	8.0	20.5	8.5	149.0	32.5	10.5	19.5	15.5
Merged-chr9-108284612-4	chr9	108284509	108284709	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5848.0	NM_025449	66257.0	Mm.10407	NM_025449	ENSMUSG00000032606	Nicn1	1500032A17Rik	nicolin 1	protein-coding	7.0	23.5	5.5	194.5	38.5	8.5	20.0	8.5
Merged-chr2-36235092-4	chr2	36234991	36235191	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 2 of 10)	intron (NM_008969, intron 2 of 10)	4665.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	12.5	14.5	25.5	321.0	33.0	13.0	15.5	18.0
Merged-chr2-10048641-4	chr2	10048517	10048717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027748)	promoter-TSS (NM_027748)	-8.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	85.0	143.0	106.5	1483.0	227.5	79.5	114.5	57.0
Merged-chr1-136605511-3	chr1	136605409	136605609	+	660.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19392.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	11.5	22.5	7.5	84.5	6.0	1.5	6.5	8.0
Merged-chr9-111119385-4	chr9	111119287	111119487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027742, intron 1 of 13)	intron (NM_027742, intron 1 of 13)	1276.0	NM_001164838	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	103.5	225.5	71.5	845.0	217.5	84.0	79.5	71.0
Merged-chr10-81358345-3	chr10	81358244	81358444	+	868.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028657, intron 1 of 9)	intron (NM_028657, intron 1 of 9)	853.0	NM_028657	73822.0	Mm.182281	NM_028657	ENSMUSG00000034854	Mfsd12	C19orf28|F630110N24Rik|Wdt1|gr	major facilitator superfamily domain containing 12	protein-coding	7.0	13.5	12.0	58.0	20.0	5.5	9.0	9.0
Merged-chr4-135982207-4	chr4	135982082	135982282	+	888.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025411, intron 3 of 5)	L1MA5|LINE|L1	5062.0	NM_025411	66193.0	Mm.29131	NM_025411	ENSMUSG00000028669	Pithd1	1110049F12Rik|AA408179|Trp26	PITH (C-terminal proteasome-interacting domain of thioredoxin-like) domain containing 1	protein-coding	24.5	20.5	9.0	179.5	23.5	13.5	16.5	14.0
Merged-chr14-51083451-4	chr14	51083365	51083565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7612.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	48.0	84.5	25.5	553.5	160.5	58.5	42.0	44.5
Merged-chr19-5845465-6	chr19	5845371	5845571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003513)	promoter-TSS (NR_003513)	7.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	125.5	175.0	106.5	1198.5	280.5	130.5	116.0	116.0
Merged-chr2-68859856-3	chr2	68859748	68859948	+	895.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1593.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	0.0	15.0	11.5	174.5	25.5	6.5	7.0	4.5
Merged-chr17-35080010-4	chr17	35079912	35080112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163192)	TTS (NM_001163192)	3070.0	NM_027366	70274.0	Mm.250491	NM_027366	ENSMUSG00000013766	Ly6g6e	2310011I02Rik|G6e	lymphocyte antigen 6 complex, locus G6E	protein-coding	14.5	20.5	23.5	382.0	55.5	21.0	20.5	28.5
Merged-chr8-119436250-4	chr8	119436160	119436360	+	949.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027950)	promoter-TSS (NM_027950)	-902.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	15.0	22.5	15.0	59.0	38.5	13.0	15.0	14.5
Merged-chr11-63952246-4	chr11	63952171	63952371	+	742.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-11955.0	NR_131111	78883.0	Mm.410764	NR_131111	ENSMUSG00000086359	9630013K17Rik	-	RIKEN cDNA 9630013K17 gene	ncRNA	14.5	9.5	9.0	75.0	20.5	4.5	14.0	17.0
Merged-chr2-153058555-1	chr2	153058455	153058655	+	823.833313	f1_c57bl6.idr	Intergenic	Intergenic	-7400.0	NM_145536	228788.0	Mm.299979	NM_145536	ENSMUSG00000027474	Ccm2l	-	cerebral cavernous malformation 2-like	protein-coding	0.0	5.5	1.0	0.5	8.5	8.0	7.5	8.0
Merged-chr9-22389288-4	chr9	22389202	22389402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028390)	promoter-TSS (NM_028390)	-96.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	72.0	93.5	82.5	965.0	195.0	47.5	71.0	74.0
Merged-chr7-38074023-4	chr7	38073932	38074132	+	874.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33458.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	9.5	8.5	10.5	177.0	27.5	8.0	5.5	19.5
Merged-chr5-124327591-4	chr5	124327492	124327692	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028310)	promoter-TSS (NM_028310)	380.0	NM_001081323	269702.0	Mm.60224	NM_001081323	ENSMUSG00000038126	Mphosph9	4930548D04Rik|9630025B04Rik|AW413446|AW547060|B930097C17Rik|C87456|MPP-9|MPP9	M-phase phosphoprotein 9	protein-coding	107.0	109.5	42.5	883.5	229.0	100.5	82.5	99.5
Merged-chr7-97361694-4	chr7	97361654	97361854	+	979.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-9863.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	16.0	15.5	6.5	36.0	21.0	7.0	11.5	7.0
Merged-chr15-9111089-4	chr15	9110952	9111152	+	896.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001285980)	TTS (NM_001285980)	29402.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	26.0	11.0	7.5	272.5	19.0	5.0	6.5	13.0
Merged-chr2-13396252-3	chr2	13396169	13396369	+	847.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 28 of 66)	intron (NM_001081084, intron 28 of 66)	95607.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	8.5	19.5	8.5	99.0	23.5	6.5	3.0	2.5
Merged-chr11-87639338-4	chr11	87639237	87639437	+	932.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045527, intron 5 of 5)	CpG	22173.0	NM_001045527	327992.0	Mm.390371	NM_001045527	ENSMUSG00000070345	Hsf5	Gm739|MLZ-220	heat shock transcription factor family member 5	protein-coding	11.0	23.0	28.0	243.0	25.0	8.5	16.5	13.5
Merged-chr15-25531114-4	chr15	25531008	25531208	+	994.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91442.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	34.5	44.5	36.5	328.0	85.5	43.0	25.5	15.5
Merged-chr10-121505452-4	chr10	121505350	121505550	+	935.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29200.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	13.5	10.5	9.0	204.5	45.0	12.5	14.5	22.0
Merged-chr4-132922745-4	chr4	132922627	132922827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163792)	promoter-TSS (NM_001163792)	-176.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	311.5	516.0	220.5	3434.0	733.0	342.0	309.0	298.5
Merged-chr12-16897412-3	chr12	16897313	16897513	+	927.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	MTC|LTR|ERVL-MaLR	2435.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	19.5	22.5	8.0	200.0	12.0	7.5	5.0	7.5
Merged-chr6-51636372-4	chr6	51636272	51636472	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91079.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	28.5	21.5	42.0	500.0	48.0	15.5	22.5	28.5
Merged-chr8-56295312-4	chr8	56295217	56295417	+	810.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 2 of 6)	intron (NM_008278, intron 2 of 6)	765.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	15.5	6.5	11.0	108.0	10.5	10.5	14.0	12.0
Merged-chr11-94348143-4	chr11	94348067	94348267	+	940.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 29 of 30)	intron (NM_029600, intron 29 of 30)	20166.0	NM_146024	71452.0	Mm.141054	NM_027799	ENSMUSG00000020864	Ankrd40	1110011C06Rik|5530600A18Rik|Gcap15	ankyrin repeat domain 40	protein-coding	19.5	22.5	13.5	160.5	28.0	8.0	5.0	22.0
Merged-chr12-32378962-4	chr12	32378935	32379135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162903, exon 1 of 1)	exon (NM_001162903, exon 1 of 1)	246.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	43.0	66.5	67.5	1092.5	145.5	48.5	78.5	58.0
Merged-chr2-124684706-4	chr2	124684610	124684810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31129.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	245.0	370.0	323.0	3620.5	541.5	214.5	300.5	210.0
Merged-chr10-40094982-4	chr10	40094853	40095053	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	B3A|SINE|B2	47301.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	35.5	56.5	58.0	624.5	84.5	32.5	19.0	22.0
Merged-chr7-139388439-2	chr7	139388369	139388569	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001127363)	promoter-TSS (NM_001127363)	-640.0	NM_183144	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	119.5	143.5	133.5	1774.5	323.0	110.5	165.0	157.0
Merged-chr17-26499173-3	chr17	26499034	26499234	+	795.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	9338.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	9.5	9.0	6.5	48.5	16.0	7.0	2.5	9.5
Merged-chr17-24168007-3	chr17	24167892	24168092	+	777.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361534, intron 1 of 3)	intron (NM_001361534, intron 1 of 3)	817.0	NM_001361535	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	7.5	9.0	1.0	80.0	12.5	5.5	4.5	8.5
Merged-chr6-142387131-4	chr6	142387028	142387228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204907)	promoter-TSS (NM_001204907)	-41.0	NM_023042	19691.0	Mm.27407	NM_023042	ENSMUSG00000030243	Recql	RecQ1	RecQ protein-like	protein-coding	194.5	278.5	211.0	3846.5	531.5	206.5	250.5	229.0
Merged-chr4-132786231-1	chr4	132786131	132786331	+	657.5	f0_c57.idr	exon (NM_001033308, exon 4 of 6)	exon (NM_001033308, exon 4 of 6)	10133.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	2.0	0.5	4.5	14.0	29.0	4.5	9.0	17.0
Merged-chr11-58301925-3	chr11	58301836	58302036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-5133.0	NM_182996	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	36.0	58.5	18.5	466.0	82.5	39.5	35.0	27.0
Merged-chr4-116053708-7	chr4	116053605	116053805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028142, exon 1 of 6)	exon (NM_028142, exon 1 of 6)	171.0	NM_028142	72181.0	Mm.282560	NM_028142	ENSMUSG00000028706	Nsun4	2310010O12Rik|2810405F18Rik|AI507900|Shtap	NOL1/NOP2/Sun domain family, member 4	protein-coding	31.5	59.0	47.0	545.0	64.0	45.0	38.5	57.5
Merged-chr11-115004249-4	chr11	115004151	115004351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2371.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	78.5	121.0	106.0	1117.5	161.0	51.5	84.0	90.0
Merged-chr12-8974004-4	chr12	8973981	8974181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159527)	promoter-TSS (NM_001159527)	80.0	NM_172470	74682.0	Mm.87389	NM_172470	ENSMUSG00000066643	Wdr35	4930459M12Rik|4931430C06|mKIAA1336	WD repeat domain 35	protein-coding	40.0	75.0	78.0	672.5	97.5	38.0	65.0	39.0
Merged-chr11-108350984-4	chr11	108350844	108351044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7056.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	31.5	28.0	27.5	564.5	63.0	26.0	51.5	29.5
Merged-chr14-15062931-4	chr14	15062859	15063059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	242144.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	56.0	42.0	83.0	1097.0	97.5	41.0	65.0	66.5
Merged-chr15-83172303-4	chr15	83172208	83172408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029787)	promoter-TSS (NM_029787)	-100.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	219.0	321.0	163.5	2918.0	462.0	242.0	220.5	215.5
Merged-chr15-28024450-6	chr15	28024285	28024485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	CpG	1463.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	20.0	10.0	19.0	235.0	35.5	11.0	13.5	18.0
Merged-chr10-111422818-4	chr10	111422733	111422933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50394.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	42.0	53.0	36.0	758.0	70.0	20.5	56.0	28.0
Merged-chr2-35442283-4	chr2	35442179	35442379	+	969.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	19170.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	11.5	19.0	15.5	137.0	26.5	4.0	11.5	10.5
Merged-chr10-80317214-4	chr10	80317131	80317331	+	926.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011789, exon 14 of 14)	3' UTR (NM_011789, exon 14 of 14)	3317.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	7.5	11.5	9.0	119.5	41.0	22.0	20.5	19.5
Merged-chr2-121955375-4	chr2	121955279	121955479	+	901.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290992)	promoter-TSS (NM_001290992)	-622.0	NM_001290992	329506.0	Mm.249405	NM_212450	ENSMUSG00000033411	Ctdspl2	D2Ertd485e|SCP4	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2	protein-coding	11.0	17.5	26.0	227.0	25.0	16.0	24.5	11.0
Merged-chr19-10820314-4	chr19	10820193	10820393	+	947.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009852, intron 1 of 12)	L1MC4|LINE|L1	9765.0	NM_001037801	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	12.5	17.5	13.0	169.0	33.0	13.5	16.0	22.5
Merged-chr10-4433144-1	chr10	4433044	4433244	+	1000.0	f1_balb.idr	promoter-TSS (NM_025343)	promoter-TSS (NM_025343)	539.0	NM_024261	73419.0	Mm.346733	NM_024261	ENSMUSG00000061759	Armt1	1700052N19Rik|AW320013|AW536799	acidic residue methyltransferase 1	protein-coding	5.0	6.5	5.5	74.5	11.5	6.0	4.0	6.5
Merged-chr1-165707489-3	chr1	165707385	165707585	+	934.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	609.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	5.0	16.5	10.0	95.5	18.0	8.0	5.5	11.0
Merged-chr10-127266819-3	chr10	127266738	127266938	+	897.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027151, intron 1 of 13)	CpG	576.0	NM_001190453	69654.0	Mm.167537	NM_027151	ENSMUSG00000025410	Dctn2	2310042E05Rik|C130077D06Rik|C87049|DCTN-50|GMP23-48K|RBP50|p50	dynactin 2	protein-coding	7.5	8.5	11.0	124.0	33.5	7.0	3.0	16.5
Merged-chr8-123027909-4	chr8	123027805	123028005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	14379.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	87.5	134.0	60.0	629.5	152.0	61.5	60.5	49.5
Merged-chr3-9003259-1	chr3	9003159	9003359	+	562.0	f0_balb.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	945.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	8.0	9.5	11.0	101.5	25.5	8.0	7.0	17.5
Merged-chr12-36119470-4	chr12	36119336	36119536	+	837.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025840, intron 5 of 11)	intron (NM_025840, intron 5 of 11)	29057.0	NR_003649	432649.0	Mm.347860	NM_001014396	ENSMUSG00000059301	Gm5434	EG432649	ubiquitin-conjugating enzyme E2F (putative) pseudogene	pseudo	7.0	6.5	7.5	209.0	47.5	10.0	15.5	18.5
Merged-chr7-145309071-4	chr7	145308949	145309149	+	812.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145379, exon 3 of 3)	3' UTR (NM_145379, exon 3 of 3)	-5786.0	NM_203490	211578.0	Mm.370299	NM_203490	ENSMUSG00000051207	Mrgprd	Gm499|Mgrd|MrgD|TGR7	MAS-related GPR, member D	protein-coding	16.5	9.5	8.5	115.0	29.0	4.5	12.0	6.5
Merged-chr11-61147402-3	chr11	61147284	61147484	+	723.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021349, intron 3 of 3)	CpG	6549.0	NM_021349	57916.0	Mm.265915	NM_021349	ENSMUSG00000010142	Tnfrsf13b	1200009E08Rik|Taci	tumor necrosis factor receptor superfamily, member 13b	protein-coding	4.5	11.0	6.5	91.5	8.5	9.0	10.5	8.5
Merged-chr10-29361907-6	chr10	29361936	29362136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001110196, exon 1 of 3)	5' UTR (NM_001110196, exon 1 of 3)	406.0	NM_026518	68031.0	Mm.28930	NM_026518	ENSMUSG00000038876	Rnf146	2610509H23Rik|Iduna	ring finger protein 146	protein-coding	143.0	180.0	117.0	2123.5	304.0	122.5	174.5	114.5
Merged-chr3-95141639-4	chr3	95141538	95141738	+	944.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027206, intron 1 of 1)	intron (NM_027206, intron 1 of 1)	722.0	NM_027206	69769.0	Mm.34368	NM_027206	ENSMUSG00000013707	Tnfaip8l2	1810019A08Rik|AW610835|TIPE2	tumor necrosis factor, alpha-induced protein 8-like 2	protein-coding	21.0	17.5	14.5	242.5	15.5	7.0	12.5	18.0
Merged-chr19-45737102-3	chr19	45737006	45737206	+	636.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010205, exon 5 of 5)	exon (NM_010205, exon 5 of 5)	5778.0	NM_001166361	14179.0	Mm.4012	NM_010205	ENSMUSG00000025219	Fgf8	Aigf|Fgf-8	fibroblast growth factor 8	protein-coding	4.5	7.0	5.0	104.5	6.0	2.5	3.5	2.0
Merged-chr19-43709851-4	chr19	43709738	43709938	+	957.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053103, intron 5 of 12)	intron (NM_053103, intron 5 of 12)	20149.0	NM_053103	93685.0	Mm.248237	NM_053103	ENSMUSG00000025192	Entpd7	1810012B13Rik|1810020C02Rik|2810003F23Rik|LALP1|Lysal2	ectonucleoside triphosphate diphosphohydrolase 7	protein-coding	13.0	24.5	23.5	91.5	71.0	33.0	43.0	24.0
Merged-chr10-82958508-4	chr10	82958431	82958631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-26966.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	100.0	140.5	156.5	1598.5	284.0	98.5	120.5	104.0
Merged-chr17-29347853-4	chr17	29347741	29347941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019880)	promoter-TSS (NM_019880)	91.0	NM_019880	56462.0	Mm.3224	NM_019880	ENSMUSG00000024012	Mtch1	2310034O17Rik|AI255158|AU018396|C77849|PSAP	mitochondrial carrier 1	protein-coding	166.0	285.0	144.5	1802.0	361.0	132.5	140.0	134.5
Merged-chr2-126483489-3	chr2	126483398	126483598	+	944.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 2 of 27)	intron (NM_001359975, intron 2 of 27)	8055.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	4.5	5.0	13.5	120.0	20.5	5.0	6.5	4.5
Merged-chr10-111226645-3	chr10	111226525	111226725	+	832.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175489, intron 3 of 23)	intron (NM_175489, intron 3 of 23)	61823.0	NM_175489	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	7.5	10.5	7.5	87.0	10.0	2.0	7.5	7.0
Merged-chr9-25167609-4	chr9	25167526	25167726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15845.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	38.0	65.0	32.0	502.5	118.5	54.5	39.0	47.5
Merged-chr12-8993436-4	chr12	8993336	8993536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159527, intron 10 of 26)	B4A|SINE|B4	19435.0	NM_172470	74682.0	Mm.87389	NM_172470	ENSMUSG00000066643	Wdr35	4930459M12Rik|4931430C06|mKIAA1336	WD repeat domain 35	protein-coding	45.0	40.0	31.0	401.5	106.0	21.0	39.0	40.0
Merged-chr9-45229535-4	chr9	45229397	45229597	+	929.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198971, intron 1 of 4)	intron (NM_001198971, intron 1 of 4)	-25422.0	NM_145403	214523.0	Mm.436756	NM_145403	ENSMUSG00000032091	Tmprss4	mCAP2	transmembrane protease, serine 4	protein-coding	13.5	37.0	18.0	89.0	80.5	21.0	16.0	21.5
Merged-chr2-27318441-4	chr2	27318384	27318584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 3 of 29)	intron (NR_133905, intron 3 of 29)	-71181.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	30.5	42.0	21.0	224.5	62.0	16.0	16.5	15.5
Merged-chr1-91540542-4	chr1	91540454	91540654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039126)	promoter-TSS (NM_001039126)	-11.0	NM_001039126	65247.0	Mm.234152	NM_023046	ENSMUSG00000026311	Asb1	1700029O08Rik|1700054C17Rik|AI426616|AI851378|mKIAA1146	ankyrin repeat and SOCS box-containing 1	protein-coding	245.5	359.5	327.5	4023.0	637.0	245.5	318.5	252.0
Merged-chr5-99729098-3	chr5	99729003	99729203	+	843.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030692)	promoter-TSS (NR_030692)	-43.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	12.0	7.5	7.5	125.0	30.0	5.0	5.0	5.0
Merged-chr4-94556788-4	chr4	94556699	94556899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026368)	promoter-TSS (NM_026368)	-3.0	NM_026368	67770.0	Mm.35170	NM_026368	ENSMUSG00000028578	Caap1	5830433M19Rik|AI536248|CAAP	caspase activity and apoptosis inhibitor 1	protein-coding	101.0	153.5	87.5	1828.5	371.0	128.5	143.5	129.5
Merged-chr4-102760228-4	chr4	102760133	102760333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285852)	promoter-TSS (NM_001285852)	98.0	NM_001285859	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	34.0	48.5	27.0	506.5	44.0	9.0	23.5	28.0
Merged-chr14-60443941-1	chr14	60443841	60444041	+	758.5	f0_balb.idr	Intergenic	RMER4A|LTR|ERVK	65655.0	NM_001164705	72125.0	Mm.275499	NM_028113	ENSMUSG00000021986	Amer2	2600011E07Rik|Fam123a	APC membrane recruitment 2	protein-coding	10.0	14.0	11.0	91.0	22.5	10.0	6.0	6.0
Merged-chr17-57334963-4	chr17	57334847	57335047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23739.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	30.5	57.5	18.5	472.5	92.5	38.5	31.5	28.5
Merged-chr2-138311102-4	chr2	138311006	138311206	+	865.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32613.0	NM_145534	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	11.0	10.0	16.5	251.0	20.5	6.5	17.5	12.5
Merged-chr13-4609206-4	chr13	4609121	4609321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018859)	promoter-TSS (NM_018859)	-57.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	170.0	176.0	161.0	3131.5	352.5	128.0	224.5	133.0
Merged-chr5-137286800-4	chr5	137286715	137286915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1439.0	NM_009599	11423.0	Mm.255464	NM_009599	ENSMUSG00000023328	Ache	-	acetylcholinesterase	protein-coding	39.5	49.5	26.5	585.5	75.0	31.0	27.0	31.0
Merged-chr11-61505084-4	chr11	61504991	61505191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013717)	promoter-TSS (NM_013717)	-53.0	NM_013717	27078.0	Mm.261226	NM_013717	ENSMUSG00000001039	B9d1	AW045994|B9|Eppb9	B9 protein domain 1	protein-coding	65.0	78.5	31.5	544.0	147.0	61.5	31.5	69.0
Merged-chr13-35081306-4	chr13	35081195	35081395	+	913.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	86509.0	NR_153831	75197.0	Mm.234091	NR_153831	ENSMUSG00000113906	4930529N20Rik	-	RIKEN cDNA 4930529N20 gene	ncRNA	33.5	29.5	16.0	157.0	38.0	8.5	12.0	7.5
Merged-chr15-51734412-4	chr15	51734304	51734504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131057.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	70.0	62.0	80.0	1052.5	167.5	61.0	65.0	36.5
Merged-chr5-118408189-4	chr5	118408064	118408264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-152555.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	34.0	127.0	40.5	472.5	89.5	24.5	31.0	33.5
Merged-chr16-23557424-4	chr16	23557327	23557527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36612.0	NM_001359083	17174.0	Mm.1213	NM_008555	ENSMUSG00000022887	Masp1	AW048060|CCPII|Crarf|Masp1/3	mannan-binding lectin serine peptidase 1	protein-coding	72.0	103.5	79.0	1344.0	198.0	86.5	120.5	95.0
Merged-chr8-70729377-3	chr8	70729273	70729473	+	753.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201607, intron 3 of 16)	intron (NM_201607, intron 3 of 16)	5309.0	NM_201607	110385.0	Mm.255180	NM_201607	ENSMUSG00000031842	Pde4c	Dpde1|E130301F19Rik|dunce	phosphodiesterase 4C, cAMP specific	protein-coding	8.0	13.5	9.0	17.5	26.0	4.0	3.5	2.0
Merged-chr5-21132129-4	chr5	21132046	21132246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44133.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	138.5	172.0	143.5	2248.0	254.5	99.5	129.5	108.0
Merged-chr14-50955740-3	chr14	50955616	50955816	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123371)	promoter-TSS (NM_001123371)	-425.0	NM_001123371	667034.0	Mm.482171	NM_001123371	ENSMUSG00000068417	Pnp2	-	purine-nucleoside phosphorylase 2	protein-coding	0.0	0.0	0.0	0.5	47.5	25.5	31.0	33.5
Merged-chr6-31209602-4	chr6	31209517	31209717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	intron (NR_110469, intron 1 of 3)	8857.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	19.5	45.5	51.5	1110.5	75.0	23.0	41.5	44.5
Merged-chr16-65450867-4	chr16	65450761	65450961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69768.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	78.0	122.5	55.5	1023.0	236.0	85.0	79.0	64.0
Merged-chr11-102137798-4	chr11	102137704	102137904	+	813.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-7709.0	NM_145829	217214.0	Mm.31686	NM_145829	ENSMUSG00000048217	Nags	1700120E20Rik|argA	N-acetylglutamate synthase	protein-coding	18.5	12.0	15.0	123.5	26.0	5.0	13.0	13.0
Merged-chr3-106552681-2	chr3	106552581	106552781	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286986, intron 2 of 8)	URR1B|DNA|hAT-Charlie	-4879.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	7.0	6.5	8.0	17.0	8.5	6.0	3.0	1.0
Merged-chr10-41674488-4	chr10	41674402	41674602	+	980.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 8 of 47)	B4A|SINE|B4	41961.0	NM_001358562	75973.0	Mm.228517	NM_029493	ENSMUSG00000075225	Ccdc162	5033413D22Rik|Ccdc162p|Gm29096|Gm61|Gm6976	coiled-coil domain containing 162	protein-coding	14.5	20.0	15.0	236.0	46.0	13.5	8.0	7.0
Merged-chr13-85506928-4	chr13	85506881	85507081	+	975.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-217495.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	23.5	10.0	15.0	319.5	33.0	12.5	14.0	16.5
Merged-chr17-56350872-4	chr17	56350778	56350978	+	888.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172132, intron 1 of 22)	intron (NM_172132, intron 1 of 22)	24828.0	NM_001357909	193796.0	Mm.45047	NM_172132	ENSMUSG00000024201	Kdm4b	4732474L06Rik|Jmjd2b	lysine (K)-specific demethylase 4B	protein-coding	12.0	19.5	9.5	129.0	44.0	11.5	10.5	24.5
Merged-chr8-121851145-4	chr8	121851026	121851226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21557.0	NM_145605	234825.0	Mm.209329	NM_145605	ENSMUSG00000040263	Klhdc4	AA408426|AV352552|BC012312|G430025P05Rik	kelch domain containing 4	protein-coding	56.0	83.0	26.5	547.5	110.5	50.5	54.0	68.5
Merged-chr2-22789812-3	chr2	22789707	22789907	+	563.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	L1MB7|LINE|L1	15480.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	7.5	15.0	8.0	99.0	28.5	1.5	4.0	4.0
Merged-chr8-26978409-1	chr8	26978309	26978509	+	1000.0	f0_balb.idr	intron (NM_001110508, intron 2 of 2)	CpG-13923	1073.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	26.0	18.0	19.5	245.0	47.5	38.5	26.5	32.5
Merged-chr16-81454710-4	chr16	81454613	81454813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113208, intron 5 of 17)	intron (NM_001113208, intron 5 of 17)	254016.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	69.0	76.0	48.5	1359.5	156.0	64.0	98.0	74.0
Merged-chr19-11808636-4	chr19	11808529	11808729	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	10774.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	25.5	41.0	16.5	380.0	59.5	17.5	20.5	21.5
Merged-chr10-30200569-4	chr10	30200479	30200679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109747)	promoter-TSS (NM_001109747)	-39.0	NM_001109747	66311.0	Mm.251779	NM_001109747	ENSMUSG00000075266	Cenpw	2610036L11Rik|Cug2	centromere protein W	protein-coding	47.0	89.0	88.0	1335.0	183.0	60.5	101.5	75.0
Merged-chr12-69373146-3	chr12	69373142	69373342	+	898.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007481, exon 2 of 2)	exon (NM_007481, exon 2 of 2)	1092.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	5.0	8.5	8.0	94.0	27.0	8.0	15.0	5.5
Merged-chr4-150388769-3	chr4	150388677	150388877	+	852.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	intron (NM_001085492, intron 1 of 22)	106861.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	13.0	4.0	5.0	76.0	18.0	8.5	6.5	14.0
Merged-chr1-64088896-3	chr1	64088787	64088987	+	794.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033563, intron 1 of 3)	intron (NM_033563, intron 1 of 3)	32502.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	9.0	15.0	11.0	96.5	6.5	0.0	2.5	5.0
Merged-chr4-101357527-4	chr4	101357437	101357637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040640, intron 1 of 3)	intron (NR_040640, intron 1 of 3)	-1289.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	34.0	41.5	28.0	603.5	120.0	34.0	67.0	42.5
Merged-chr6-134243768-4	chr6	134243648	134243848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 5 of 8)	intron (NM_001303102, intron 5 of 8)	-152581.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	28.0	56.0	33.5	372.0	74.0	24.0	41.5	23.5
Merged-chr19-56723473-4	chr19	56723341	56723541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007419, exon 1 of 1)	exon (NM_007419, exon 1 of 1)	1069.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	23.0	28.5	33.5	262.0	40.0	19.5	17.5	30.5
Merged-chr2-33755281-2	chr2	33755181	33755381	+	842.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 7 of 9)	intron (NM_175184, intron 7 of 9)	-50535.0	NR_045729	320482.0	Mm.442057	NR_045729	ENSMUSG00000086484	Nron	A630071L07Rik|Gm24353	non-protein coding RNA, repressor of NFAT	ncRNA	6.5	5.0	8.5	58.0	6.0	5.0	2.5	3.5
Merged-chr5-108660312-1	chr5	108660212	108660412	+	567.0	f0_c57.idr	promoter-TSS (NM_172997)	promoter-TSS (NM_172997)	-19.0	NM_008325	15932.0	Mm.358608	NM_008325	ENSMUSG00000033540	Idua	6030426D08	iduronidase, alpha-L-	protein-coding	4.0	20.5	9.0	70.0	12.5	8.0	14.0	12.5
Merged-chr9-121636397-4	chr9	121636281	121636481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026915, intron 1 of 5)	intron (NM_026915, intron 1 of 5)	5212.0	NM_026915	69032.0	Mm.33351	NM_026915	ENSMUSG00000032530	Lyzl4	1810009N24Rik|AI504271|Lyc4|Lyza	lysozyme-like 4	protein-coding	34.5	28.5	34.5	393.5	55.0	18.5	21.5	25.0
Merged-chr6-72101108-4	chr6	72100989	72101189	+	882.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	3481.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	14.5	8.0	15.5	306.0	23.5	3.0	4.0	8.0
Merged-chr8-86893757-3	chr8	86893627	86893827	+	837.688904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8469.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	16.5	9.5	5.0	121.5	18.0	10.0	3.0	6.0
Merged-chr12-80791949-5	chr12	80791831	80792031	+	826.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	1399.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	10.5	6.5	9.5	74.5	29.0	14.0	9.0	11.5
Merged-chr4-34778390-4	chr4	34778310	34778510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330756)	promoter-TSS (NM_001330756)	-44.0	NM_025471	66291.0	Mm.28071	NM_025471	ENSMUSG00000028295	Smim8	1810030N24Rik|2810406B13Rik	small integral membrane protein 8	protein-coding	187.0	290.5	197.5	3667.0	498.5	174.5	208.0	212.5
Merged-chr15-101165797-4	chr15	101165693	101165893	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8279.0	NM_007395	11479.0	Mm.308467	NM_007395	ENSMUSG00000000532	Acvr1b	6820432J04|ALK-4|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2	activin A receptor, type 1B	protein-coding	27.5	34.5	18.5	250.5	56.5	33.0	28.0	21.0
Merged-chr7-84196445-3	chr7	84196340	84196540	+	944.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44547.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	3.5	9.0	4.0	20.5	28.5	24.0	17.5	10.0
Merged-chr1-87549609-4	chr1	87549572	87549772	+	891.979126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111314, intron 1 of 14)	intron (NM_001111314, intron 1 of 14)	24198.0	NM_001111314	53972.0	Mm.435439	NM_019867	ENSMUSG00000026259	Ngef	Tims2|ephexin	neuronal guanine nucleotide exchange factor	protein-coding	4.5	4.5	5.5	169.0	21.0	8.5	11.0	17.0
Merged-chr18-30530306-4	chr18	30530199	30530399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	257434.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	35.0	34.5	32.5	512.5	82.5	39.5	23.0	36.0
Merged-chr1-84864878-4	chr1	84864782	84864982	+	971.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025386, intron 1 of 3)	intron (NM_025386, intron 1 of 3)	25041.0	NM_025386	66153.0	Mm.381192	NM_025386	ENSMUSG00000073633	Fbxo36	0610008D19Rik|1110020F21Rik|2410002G19Rik|D1Ertd757e	F-box protein 36	protein-coding	23.5	21.0	11.5	199.0	46.0	23.5	21.5	17.0
Merged-chr6-85961856-7	chr6	85961743	85961943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028099)	promoter-TSS (NM_028099)	-176.0	NM_028099	72102.0	Mm.24007	NM_028099	ENSMUSG00000030002	Dusp11	2010300F21Rik|AI481497	dual specificity phosphatase 11 (RNA/RNP complex 1-interacting)	protein-coding	48.0	100.5	69.5	630.0	118.5	53.0	48.5	70.5
Merged-chr19-34553660-4	chr19	34553552	34553752	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355262, intron 1 of 2)	MLT2F|LTR|ERVL	2564.0	NM_001355262	15958.0	Mm.2036	NM_008332	ENSMUSG00000045932	Ifit2	AV302338|Ifi54|P54	interferon-induced protein with tetratricopeptide repeats 2	protein-coding	18.0	8.5	17.5	268.0	39.5	10.5	12.5	14.5
Merged-chr2-28514675-4	chr2	28514559	28514759	+	842.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009058, intron 1 of 17)	intron (NM_009058, intron 1 of 17)	1492.0	NM_001145834	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	5.5	10.0	17.5	77.0	35.0	21.5	3.5	7.0
Merged-chr11-118494265-4	chr11	118494165	118494365	+	925.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024931, intron 13 of 14)	intron (NM_001024931, intron 13 of 14)	17433.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	15.0	11.5	22.5	135.5	30.0	7.5	7.5	18.5
Merged-chr7-127274524-4	chr7	127274420	127274620	+	877.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009266)	promoter-TSS (NM_009266)	-461.0	NM_009266	20768.0	Mm.20294	NM_009266	ENSMUSG00000049091	Sephs2	Sps2|Ysg3	selenophosphate synthetase 2	protein-coding	20.0	31.0	15.0	154.5	18.5	8.0	5.0	7.5
Merged-chr18-77708579-4	chr18	77708483	77708683	+	846.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178670, intron 1 of 4)	intron (NM_178670, intron 1 of 4)	5427.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	14.5	28.5	16.0	166.0	28.0	5.0	10.0	15.5
Merged-chr1-173879026-1	chr1	173878926	173879126	+	602.5	f0_balb.idr	intron (NM_001170853, intron 2 of 9)	intron (NM_001170853, intron 2 of 9)	1161.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	8.0	14.0	6.0	74.0	5.0	4.0	2.0	3.5
Merged-chr15-27630010-4	chr15	27629907	27630107	+	842.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013792, intron 1 of 6)	(TG)n|Simple_repeat|Simple_repeat	686.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	8.0	13.5	7.0	148.0	20.5	14.0	10.0	9.5
Merged-chr14-121409175-3	chr14	121409072	121409272	+	776.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29942.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	8.5	14.5	6.5	252.5	17.0	5.0	15.0	7.0
Merged-chr15-78947851-4	chr15	78947726	78947926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_138579, exon 1 of 24)	5' UTR (NM_138579, exon 1 of 24)	102.0	NM_001039155	110253.0	Mm.123714	NM_138579	ENSMUSG00000033088	Triobp	AI428493|EST478828|Tara|mKIAA1662	TRIO and F-actin binding protein	protein-coding	113.5	162.0	106.0	1563.0	204.5	82.0	85.5	87.5
Merged-chr2-136891534-4	chr2	136891461	136891661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141946)	promoter-TSS (NM_001141946)	-33.0	NR_149746	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	265.5	459.0	276.0	4813.5	838.0	270.5	374.5	291.5
Merged-chr9-104972997-4	chr9	104972883	104973083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 7 of 15)	intron (NM_028719, intron 7 of 15)	-80285.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	111.5	130.0	84.5	1929.0	190.0	50.5	116.0	92.5
Merged-chr13-49162865-3	chr13	49162775	49162975	+	816.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14547.0	NM_001290311	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	11.5	14.5	10.0	133.0	14.0	7.0	6.0	2.0
Merged-chr7-99044581-3	chr7	99044484	99044684	+	739.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	intron (NM_178635, intron 6 of 14)	96560.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	8.0	7.0	3.0	90.0	11.0	5.5	8.0	10.0
Merged-chr9-98329775-4	chr9	98329663	98329863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	intron (NM_001357445, intron 1 of 3)	33193.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	25.5	45.0	21.0	676.5	34.0	20.5	17.5	20.5
Merged-chr12-5119895-4	chr12	5119807	5120007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 5 of 13)	intron (NM_001164493, intron 5 of 13)	202554.0	NM_001362349	320817.0	Mm.210966	NM_001099628	ENSMUSG00000052812	Atad2b	1110014E10Rik|BC032887|C79189|D530031C13Rik	ATPase family, AAA domain containing 2B	protein-coding	57.0	100.0	52.0	1475.5	164.0	43.5	127.5	82.5
Merged-chr11-101627870-4	chr11	101627735	101627935	+	948.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025654)	promoter-TSS (NM_025654)	-114.0	NM_025654	66599.0	Mm.41449	NM_025654	ENSMUSG00000010362	Rdm1	2410008M22Rik|AW212028|Rad52b	RAD52 motif 1	protein-coding	11.5	18.5	8.5	65.5	33.0	12.0	6.5	14.5
Merged-chr3-19214777-4	chr3	19214699	19214899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356295, intron 4 of 7)	intron (NM_001356295, intron 4 of 7)	26504.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	21.0	23.0	30.5	528.5	81.5	10.0	21.5	28.0
Merged-chr3-105709707-4	chr3	105709608	105709808	+	930.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163356, intron 1 of 1)	intron (NM_001163356, intron 1 of 1)	4250.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	13.0	30.0	15.0	192.5	50.0	15.0	14.0	16.5
Merged-chr12-117385508-4	chr12	117385405	117385605	+	958.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48493.0	NR_044987	432713.0	Mm.459210	NR_044987	ENSMUSG00000101930	Gm5441	-	predicted gene 5441	ncRNA	12.0	20.5	11.0	161.5	59.5	16.0	24.0	21.0
Merged-chr14-47649267-4	chr14	47649190	47649390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347524)	promoter-TSS (NM_001347524)	-21.0	NM_001347527	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	49.0	70.5	32.0	724.5	109.0	28.5	26.5	33.0
Merged-chr18-67308437-4	chr18	67308353	67308553	+	823.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053261, intron 3 of 7)	intron (NM_053261, intron 3 of 7)	19230.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	10.5	22.0	6.5	136.0	30.0	10.0	11.0	6.0
Merged-chr14-78701279-3	chr14	78701149	78701349	+	995.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081336, intron 2 of 29)	intron (NM_001081336, intron 2 of 29)	31480.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	15.5	25.5	19.5	373.0	4.5	3.5	3.5	4.0
Merged-chr13-100750950-4	chr13	100750845	100751045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6286.0	NM_025369	66128.0	Mm.306173	NM_025369	ENSMUSG00000061474	Mrps36	1110018B13Rik|S36mt	mitochondrial ribosomal protein S36	protein-coding	22.5	44.5	19.5	252.5	53.5	30.0	28.5	26.5
Merged-chr9-37232611-3	chr9	37232513	37232713	+	924.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020258, intron 17 of 17)	intron (NM_020258, intron 17 of 17)	23125.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	4.5	7.0	21.0	231.0	2.5	0.0	0.0	2.0
Merged-chr14-55863950-4	chr14	55863812	55864012	+	892.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001040072, exon 3 of 8)	exon (NM_001040072, exon 3 of 8)	9797.0	NM_001040072	277154.0	Mm.319347	NM_001040072	ENSMUSG00000075592	Nynrin	AA409373|C80530|mKIAA1305	NYN domain and retroviral integrase containing	protein-coding	15.5	18.0	5.0	102.5	24.5	6.5	3.5	10.0
Merged-chr12-85456010-2	chr12	85455910	85456110	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17880.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	8.5	6.5	10.0	73.0	28.5	20.5	3.5	19.0
Merged-chr2-84938704-4	chr2	84938573	84938773	+	815.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021398, intron 3 of 12)	intron (NM_021398, intron 3 of 12)	2027.0	NM_021398	58207.0	Mm.290729	NM_021398	ENSMUSG00000027074	Slc43a3	Eeg1|SEEEG-1	solute carrier family 43, member 3	protein-coding	5.5	6.5	1.5	34.5	41.5	13.0	10.0	8.0
Merged-chr11-101417393-4	chr11	101417297	101417497	+	961.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144829)	promoter-TSS (NM_144829)	36.0	NM_144829	69684.0	Mm.146283	NM_144829	ENSMUSG00000075528	Aarsd1	1110069E20Rik|2310044P18Rik|AA589600|AlaX|AlaXp-II	alanyl-tRNA synthetase domain containing 1	protein-coding	16.5	16.5	9.5	173.0	52.5	16.5	16.0	21.0
Merged-chr19-43920673-3	chr19	43920587	43920787	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 1 of 15)	intron (NM_028029, intron 1 of 15)	19511.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	5.5	8.0	10.5	203.5	6.5	4.0	6.5	8.5
Merged-chr8-72297166-4	chr8	72297075	72297275	+	961.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21887.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	8.0	16.0	15.0	430.5	28.5	11.0	28.0	18.5
Merged-chr11-74533198-2	chr11	74533098	74533298	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	56960.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	8.0	7.0	7.0	89.0	4.5	1.0	3.0	3.0
Merged-chr12-41024022-4	chr12	41023948	41024148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053122)	promoter-TSS (NM_053122)	-42.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	209.0	325.0	179.0	3798.5	618.0	201.0	295.0	204.0
Merged-chr11-31891238-3	chr11	31891150	31891350	+	918.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290678, intron 2 of 7)	L1MD2|LINE|L1	20310.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	5.0	17.5	5.0	164.5	9.0	12.5	6.5	5.5
Merged-chr19-24992368-2	chr19	24992291	24992491	+	693.833374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-7138.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	4.5	6.0	11.5	114.5	5.5	2.5	0.5	1.5
Merged-chr12-72664827-4	chr12	72664727	72664927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025522)	promoter-TSS (NM_025522)	1.0	NM_025522	66375.0	Mm.289653	NM_025522	ENSMUSG00000021094	Dhrs7	2310016E22Rik|5730564L20Rik|AW061210|Retdsr4|Retsdr4	dehydrogenase/reductase (SDR family) member 7	protein-coding	101.0	115.5	109.5	1927.0	211.0	80.5	114.5	97.5
Merged-chr2-155276863-4	chr2	155276774	155276974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046364, intron 1 of 2)	CpG	510.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	65.0	88.5	46.0	848.5	133.0	50.5	75.5	47.5
Merged-chr4-136890056-2	chr4	136889971	136890171	+	603.5	f0_c57.idr|f1_balb.idr	exon (NM_007574, exon 3 of 3)	exon (NM_007574, exon 3 of 3)	2843.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	1.0	7.5	1.5	18.5	19.0	11.0	5.0	7.5
Merged-chr4-11455363-4	chr4	11455255	11455455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30603.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	99.0	115.5	66.5	1662.0	215.0	82.0	94.5	74.0
Merged-chr3-93552519-4	chr3	93552432	93552632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2585.0	NM_009112	20194.0	Mm.1	NM_009112	ENSMUSG00000041959	S100a10	42C|AA409961|AL024248|CAL12|CLP11|Cal1l|p10|p11	S100 calcium binding protein A10 (calpactin)	protein-coding	25.0	35.0	57.5	602.5	79.5	21.0	30.5	40.5
Merged-chr3-20033794-4	chr3	20033751	20033951	+	809.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 1 of 16)	intron (NM_080634, intron 1 of 16)	1459.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	11.0	15.0	10.0	193.0	21.5	2.0	6.0	6.5
Merged-chr17-10392588-1	chr17	10392488	10392688	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-63628.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	46.5	52.5	47.5	535.5	76.0	30.0	47.0	36.5
Merged-chr17-84957329-3	chr17	84957230	84957430	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159496)	promoter-TSS (NM_001159496)	93.0	NR_027929	68531.0	Mm.249695	NR_027929	ENSMUSG00000097047	1110020A21Rik	2600015P10Rik	RIKEN cDNA 1110020A21 gene	ncRNA	94.5	189.5	161.0	1511.0	363.5	153.0	197.5	133.0
Merged-chr2-59316723-3	chr2	59316628	59316828	+	898.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 9 of 20)	intron (NM_175464, intron 9 of 20)	69954.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	10.5	14.5	15.5	265.0	17.5	8.5	5.5	16.5
Merged-chr1-87230659-4	chr1	87230554	87230754	+	768.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023314, intron 6 of 6)	intron (NM_023314, intron 6 of 6)	16715.0	NM_001039169	26987.0	Mm.227183	NM_023314	ENSMUSG00000026254	Eif4e2	2700069E09Rik|AI036339|AV129531|D0H0S6743E|Eif4el3	eukaryotic translation initiation factor 4E member 2	protein-coding	12.0	20.5	11.0	152.5	25.5	3.5	12.5	10.0
Merged-chr13-101697019-4	chr13	101696914	101697114	+	986.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 7 of 15)	intron (NM_001077495, intron 7 of 15)	-4384.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	19.0	40.5	26.0	284.0	68.5	16.5	16.0	20.5
Merged-chr10-128298421-4	chr10	128298314	128298514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031252)	promoter-TSS (NM_031252)	-330.0	NM_031252	83430.0	Mm.125482	NM_031252	ENSMUSG00000025383	Il23a	IL-23|p19	interleukin 23, alpha subunit p19	protein-coding	123.0	155.0	110.5	1479.0	290.0	116.5	114.5	133.0
Merged-chr6-97429931-4	chr6	97429821	97430021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	MTD|LTR|ERVL-MaLR	29365.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	51.5	52.5	51.0	805.0	65.0	31.0	47.0	65.5
Merged-chr11-12559397-1	chr11	12559297	12559497	+	786.0	f0_balb.idr	Intergenic	Intergenic	-94437.0	NM_001282993	12808.0	Mm.22847	NM_172496	ENSMUSG00000020173	Cobl	-	cordon-bleu WH2 repeat	protein-coding	6.5	10.5	13.5	157.0	19.0	4.5	5.5	11.5
Merged-chr5-92369281-4	chr5	92369185	92369385	+	744.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-5989.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	9.5	13.5	4.0	123.5	31.0	13.0	7.5	7.5
Merged-chr2-22722010-4	chr2	22721908	22722108	+	921.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52319.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	12.0	31.0	8.0	191.0	53.0	12.5	20.0	16.5
Merged-chr4-129033731-3	chr4	129033620	129033820	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24551.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	17.5	83.0	21.5	158.0	107.0	38.5	31.0	24.0
Merged-chr7-30195103-4	chr7	30194968	30195168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009795)	promoter-TSS (NM_009795)	85.0	NM_009795	12336.0	Mm.439782	NM_009795	ENSMUSG00000001794	Capns1	Capa-4|Capa4|Capn4|Cdps|Css1|D7Ertd146e	calpain, small subunit 1	protein-coding	109.5	148.0	90.5	1299.5	228.5	88.0	109.0	65.0
Merged-chr1-59593638-4	chr1	59593493	59593693	+	891.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 12 of 19)	intron (NM_001013771, intron 12 of 19)	69299.0	NM_001357842	381260.0	Mm.486706	NM_001013771	ENSMUSG00000047361	Gm973	AW554518	predicted gene 973	protein-coding	14.0	23.0	17.0	155.5	19.0	11.0	6.5	12.0
Merged-chr5-124025316-4	chr5	124025241	124025441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	6919.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	56.0	97.0	73.5	873.0	157.5	35.5	69.0	62.5
Merged-chr9-107259842-1	chr9	107259742	107259942	+	855.3333130000001	f0_balb.idr	intron (NM_001316691, intron 5 of 7)	intron (NM_001316691, intron 5 of 7)	-27933.0	NM_153413	208869.0	Mm.150259	NM_153413	ENSMUSG00000039716	Dock3	MOCA|PBP|mKIAA0299	dedicator of cyto-kinesis 3	protein-coding	7.5	11.0	11.0	178.5	3.5	0.5	2.0	5.0
Merged-chr8-13677673-4	chr8	13677572	13677772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009025)	promoter-TSS (NM_009025)	-85.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	234.5	366.5	266.0	4589.5	554.5	182.5	299.5	211.0
Merged-chr13-74362333-4	chr13	74362266	74362466	+	966.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001168658, exon 4 of 4)	3' UTR (NM_001168658, exon 4 of 4)	1634.0	NM_001033042	432779.0	Mm.324679	NM_001033042	ENSMUSG00000021579	Lrrc14b	AI595366	leucine rich repeat containing 14B	protein-coding	14.0	20.0	25.0	208.5	38.0	22.0	14.0	27.5
Merged-chr10-78464044-3	chr10	78463958	78464158	+	904.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172134, intron 1 of 10)	intron (NM_172134, intron 1 of 10)	890.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	16.0	7.0	10.5	144.0	13.5	3.5	7.5	14.5
Merged-chr5-103819853-4	chr5	103819756	103819956	+	887.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133919, intron 7 of 19)	intron (NM_133919, intron 7 of 19)	65283.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	9.0	10.5	12.0	181.0	45.0	9.0	13.0	12.0
Merged-chr9-40784194-4	chr9	40784117	40784317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133733)	TTS (NM_133733)	-17056.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	43.5	62.0	48.5	714.5	134.5	43.0	68.5	40.5
Merged-chr8-47867270-3	chr8	47867167	47867367	+	793.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 11 of 22)	intron (NM_133791, intron 11 of 22)	42785.0	NM_029383	75677.0	Mm.390033	NM_029383	ENSMUSG00000038064	Cldn22	2210404A22Rik|5330431C14Rik|9530051B05Rik	claudin 22	protein-coding	8.0	7.0	7.5	103.5	18.5	7.0	13.0	9.5
Merged-chr13-111868100-4	chr13	111867977	111868177	+	941.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_130345, exon 1 of 3)	non-coding (NR_130345, exon 1 of 3)	141.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	12.5	14.0	19.5	182.0	26.5	10.0	6.0	20.0
Merged-chr1-152800877-3	chr1	152800708	152800908	+	674.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 1 of 15)	intron (NM_010877, intron 1 of 15)	655.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	10.0	21.0	6.5	90.5	16.5	3.5	8.5	8.0
Merged-chr2-130907003-2	chr2	130906901	130907101	+	982.6666869999999	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015523)	promoter-TSS (NR_015523)	506.0	NM_009730	11990.0	Mm.119936	NM_009730	ENSMUSG00000027312	Atrn	AW558010|Mgca|mg	attractin	protein-coding	3.5	18.0	7.5	104.5	21.5	11.5	10.0	8.5
Merged-chr9-102717678-4	chr9	102717609	102717809	+	867.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019764)	promoter-TSS (NM_019764)	-95.0	NM_019764	56332.0	Mm.21145	NM_019764	ENSMUSG00000032531	Amotl2	AW549739|C79691|Lccp|MASCOT|mKIAA0989	angiomotin-like 2	protein-coding	8.5	22.0	7.5	341.0	27.0	10.0	14.0	15.0
Merged-chr11-115177975-4	chr11	115177862	115178062	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 3 of 5)	intron (NM_012030, intron 3 of 5)	9354.0	NM_025400	66176.0	Mm.86823	NM_025400	ENSMUSG00000015542	Nat9	1110028N05Rik	N-acetyltransferase 9 (GCN5-related, putative)	protein-coding	19.0	13.5	4.0	197.0	30.0	10.0	8.5	16.0
Merged-chr11-23762862-4	chr11	23762772	23762972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 1 of 9)	intron (NM_009044, intron 1 of 9)	8098.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	50.5	95.0	70.5	1107.5	131.0	41.0	62.0	43.5
Merged-chr9-35570229-4	chr9	35570128	35570328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029762)	promoter-TSS (NM_029762)	-159.0	NM_029762	76832.0	Mm.482285	NM_029762	ENSMUSG00000050555	Hyls1	3010015K02Rik	HYLS1, centriolar and ciliogenesis associated	protein-coding	242.5	359.0	251.5	5012.0	542.5	203.0	306.0	203.5
Merged-chr6-108277116-3	chr6	108276990	108277190	+	964.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	63994.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	16.5	5.0	12.5	155.5	17.5	2.5	5.5	6.5
Merged-chr3-88592154-4	chr3	88592059	88592259	+	793.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	12551.0	NM_025448	66256.0	Mm.7091	NM_025448	ENSMUSG00000041355	Ssr2	1500032E05Rik|AI315033|AU020133|SSR-beta|TLAP|TRAPB|TRAPbeta	signal sequence receptor, beta	protein-coding	5.0	11.5	7.5	90.5	30.0	6.0	8.0	8.5
Merged-chr1-85853489-4	chr1	85853403	85853603	+	995.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41007.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	32.5	42.5	12.5	357.5	71.5	19.0	24.5	18.5
Merged-chr19-17255734-4	chr19	17255628	17255828	+	916.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83777.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	15.0	11.0	15.5	220.5	30.0	6.5	16.5	6.5
Merged-chr10-94093599-3	chr10	94093497	94093697	+	958.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 5 of 20)	intron (NM_053072, intron 5 of 20)	-54334.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	1.0	2.0	3.0	19.5	70.5	29.0	26.0	31.0
Merged-chr8-128594306-4	chr8	128594211	128594411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-91343.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	26.5	38.5	32.5	603.5	45.5	21.5	41.0	29.0
Merged-chr16-93915630-1	chr16	93915530	93915730	+	637.666687	f0_c57.idr	Intergenic	B4|SINE|B4	13937.0	NM_001165925	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	1.0	2.0	2.0	10.5	22.0	10.0	6.5	13.0
Merged-chr9-118632560-4	chr9	118632456	118632656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 3 of 27)	intron (NM_133721, intron 3 of 27)	25847.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	29.5	45.0	44.5	618.5	71.5	29.5	36.0	43.0
Merged-chr12-77060218-4	chr12	77060130	77060330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97982.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	33.5	54.0	85.0	1154.0	84.0	28.5	55.0	39.5
Merged-chr17-5849662-4	chr17	5849515	5849715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025664, intron 1 of 17)	intron (NM_025664, intron 1 of 17)	8235.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	48.0	109.5	19.5	316.0	155.5	52.5	23.5	26.0
Merged-chr19-26749268-3	chr19	26749147	26749347	+	794.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026003, intron 1 of 8)	intron (NM_026003, intron 1 of 8)	844.0	NM_026003	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	13.0	11.5	9.5	133.5	33.5	12.5	8.5	3.0
Merged-chr15-99388244-4	chr15	99388197	99388397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4650.0	NM_026669	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	101.0	153.0	119.0	1482.5	259.0	69.5	101.5	100.5
Merged-chr2-102999318-2	chr2	102999218	102999418	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74195.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	11.5	19.0	8.0	100.0	25.5	4.5	5.0	2.0
Merged-chr8-22593889-4	chr8	22593803	22594003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198998)	promoter-TSS (NM_001198998)	-90.0	NM_011696	22335.0	Mm.227704	NM_011696	ENSMUSG00000008892	Vdac3	-	voltage-dependent anion channel 3	protein-coding	178.0	372.0	186.5	2967.0	613.0	255.5	307.0	186.5
Merged-chr17-46140020-4	chr17	46139919	46140119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029338, intron 2 of 4)	intron (NM_029338, intron 2 of 4)	4179.0	NM_029338	75564.0	Mm.17993	NM_029338	ENSMUSG00000023966	Rsph9	1700027N10Rik	radial spoke head 9 homolog (Chlamydomonas)	protein-coding	35.0	62.5	29.5	327.0	91.0	26.0	37.0	31.5
Merged-chr1-66700333-4	chr1	66700219	66700419	+	976.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025683)	promoter-TSS (NM_025683)	-512.0	NM_025683	66646.0	Mm.240912	NM_025683	ENSMUSG00000026005	Rpe	2810429B02Rik|5730518J08Rik	ribulose-5-phosphate-3-epimerase	protein-coding	15.5	12.0	18.0	209.0	28.5	7.5	15.5	7.0
Merged-chr12-71017105-3	chr12	71017020	71017220	+	943.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081195, exon 2 of 24)	5' UTR (NM_001081195, exon 2 of 24)	1153.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	8.5	6.0	3.0	83.5	12.0	5.5	9.0	13.0
Merged-chr10-60278714-4	chr10	60278669	60278869	+	913.1785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	intron (NM_011179, intron 1 of 14)	1141.0	NM_001146121	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	3.0	6.5	19.0	95.5	22.0	6.0	12.0	25.0
Merged-chr4-132247710-4	chr4	132247603	132247803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122992, intron 3 of 10)	intron (NM_001122992, intron 3 of 10)	13846.0	NM_020273	56809.0	Mm.103489	NM_020273	ENSMUSG00000028901	Gmeb1	1110050A04Rik|AI256615|AI481278	glucocorticoid modulatory element binding protein 1	protein-coding	65.0	84.5	120.0	1603.5	116.0	51.5	71.5	75.5
Merged-chr13-104108701-4	chr13	104108556	104108756	+	907.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029447, intron 1 of 12)	intron (NM_029447, intron 1 of 12)	958.0	NM_029447	75805.0	Mm.127692	NM_029447	ENSMUSG00000021710	Nln	4930472G13Rik|C79345	neurolysin (metallopeptidase M3 family)	protein-coding	18.0	21.5	40.0	494.5	26.5	9.5	7.5	14.0
Merged-chr7-80789263-4	chr7	80789162	80789362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	14069.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	38.5	58.5	21.5	364.0	107.5	41.5	42.5	38.0
Merged-chr8-111338702-4	chr8	111338605	111338805	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029005)	promoter-TSS (NM_029005)	-500.0	NM_029005	74568.0	Mm.207971	NM_029005	ENSMUSG00000012519	Mlkl	9130019I15Rik	mixed lineage kinase domain-like	protein-coding	26.0	61.0	27.0	362.0	61.5	27.5	32.0	16.5
Merged-chr9-83564409-3	chr9	83564307	83564507	+	954.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	16069.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	12.0	27.5	13.0	270.5	7.5	9.0	6.5	7.5
Merged-chr15-31224301-4	chr15	31224214	31224414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146057)	promoter-TSS (NM_146057)	-71.0	NM_146057	223453.0	Mm.222867	NM_146057	ENSMUSG00000039168	Dap	4921531N22Rik|AI789753|AU040360	death-associated protein	protein-coding	169.0	229.5	159.0	2559.5	396.0	166.0	250.0	117.5
Merged-chr5-115268456-3	chr5	115268350	115268550	+	870.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302449, intron 1 of 16)	intron (NM_001302449, intron 1 of 16)	4445.0	NM_001302448	50849.0	Mm.30051	NM_016698	ENSMUSG00000041740	Rnf10	AA675014|RIE2|mKIAA0262	ring finger protein 10	protein-coding	4.0	7.0	11.5	245.5	7.5	5.5	5.0	6.0
Merged-chr15-31472989-4	chr15	31472868	31473068	+	947.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 20 of 25)	PB1D7|SINE|Alu	-19279.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	6.0	16.5	8.5	126.5	19.5	11.5	12.5	16.0
Merged-chr8-45875454-4	chr8	45875347	45875547	+	910.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10038.0	NM_016798	53318.0	Mm.282900	NM_016798	ENSMUSG00000031636	Pdlim3	AI463105|ALP|Actn2lp	PDZ and LIM domain 3	protein-coding	36.5	31.0	33.5	519.0	16.0	10.5	11.5	16.5
Merged-chr7-86881092-3	chr7	86881001	86881201	+	754.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	-34248.0	NM_001105189	637896.0	Mm.389957	NM_001105189	ENSMUSG00000091962	Vmn2r78	-	vomeronasal 2, receptor 78	protein-coding	7.5	4.5	6.5	131.0	17.5	2.0	8.5	5.5
Merged-chr7-130968688-4	chr7	130968593	130968793	+	964.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019564, intron 3 of 8)	intron (NM_019564, intron 3 of 8)	32490.0	NM_019564	56213.0	Mm.30156	NM_019564	ENSMUSG00000006205	Htra1	AI429470|HTRA|L56|Prss11|RSPP11	HtrA serine peptidase 1	protein-coding	18.0	12.0	17.5	233.5	53.5	25.5	33.5	35.5
Merged-chr19-44394135-4	chr19	44394034	44394234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009127)	TTS (NM_009127)	13575.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	22.0	54.5	23.0	577.0	76.0	22.0	28.0	20.5
Merged-chr15-81103870-4	chr15	81103766	81103966	+	980.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	1181.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	22.0	16.0	27.0	457.5	45.0	12.5	17.5	19.0
Merged-chr17-48317299-3	chr17	48317186	48317386	+	869.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177083, intron 2 of 5)	URR1A|DNA|hAT-Charlie	1124.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	6.0	4.5	19.0	92.0	12.5	3.0	8.5	17.0
Merged-chr5-115653117-4	chr5	115653003	115653203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151603, exon 1 of 3)	non-coding (NR_151603, exon 1 of 3)	483.0	NR_151601	75665.0	Mm.233914	NM_001080808	ENSMUSG00000041609	Bicdl1	2210403N09Rik|BICDR-1|Ccdc64	BICD family like cargo adaptor 1	protein-coding	253.5	458.0	296.5	3269.5	624.0	261.0	286.5	237.5
Merged-chr10-62491067-3	chr10	62490985	62491185	+	822.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4280.0	NM_001358543	30930.0	Mm.260703	NM_133672	ENSMUSG00000020078	Vps26a	AA407240|HB58|Vps26	VPS26 retromer complex component A	protein-coding	9.0	9.0	8.0	101.5	17.5	5.5	6.0	5.0
Merged-chr11-50149643-6	chr11	50149481	50149681	+	865.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029745, intron 6 of 20)	intron (NM_029745, intron 6 of 20)	18221.0	NM_029745	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	6.5	2.0	5.5	159.5	8.0	5.5	8.0	4.5
Merged-chr19-29368617-4	chr19	29368492	29368692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 1 of 6)	intron (NM_021893, intron 1 of 6)	1154.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	49.5	94.5	27.5	356.5	159.0	42.5	38.5	18.5
Merged-chr6-128754160-6	chr6	128754090	128754290	+	712.930542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31144.0	NM_001099918	100043861.0	Mm.66911	NM_001099918	ENSMUSG00000079299	Klrb1	4930431A04Rik|Gm4696|Klrb1g|Klrb6|Ly-55|Ly55|NKR-P1G|Nkrp-1e|Nkrp1g	killer cell lectin-like receptor subfamily B member 1	protein-coding	7.0	6.0	4.5	35.0	10.0	3.0	1.0	11.5
Merged-chr2-25224225-2	chr2	25224125	25224325	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_146116, exon 2 of 4)	exon (NM_146116, exon 2 of 4)	477.0	NM_146116	227613.0	Mm.227260	NM_146116	ENSMUSG00000036752	Tubb4b	4930542G03Rik|Tubb2c|Tubb2c1	tubulin, beta 4B class IVB	protein-coding	6.5	12.5	11.0	119.5	26.5	11.0	15.5	23.5
Merged-chr14-60736774-4	chr14	60736677	60736877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310594, intron 1 of 9)	intron (NM_001310594, intron 1 of 9)	3873.0	NM_001310594	219140.0	Mm.149776	NM_001033272	ENSMUSG00000021990	Spata13	C79050|ESTM11|X83327|mFLJ00298	spermatogenesis associated 13	protein-coding	180.0	227.5	146.0	1631.0	309.5	120.5	115.5	76.0
Merged-chr4-133545488-1	chr4	133545388	133545588	+	862.0	f0_balb.idr	intron (NM_010948, intron 1 of 7)	intron (NM_010948, intron 1 of 7)	539.0	NM_010948	18221.0	Mm.69	NM_010948	ENSMUSG00000028851	Nudc	SIG-92|Silg92	nudC nuclear distribution protein	protein-coding	7.5	7.5	22.0	117.5	28.0	11.0	6.0	16.5
Merged-chr15-102963874-2	chr15	102963774	102963974	+	608.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2922.0	NM_010462	209448.0	Mm.31665	NM_010462	ENSMUSG00000022484	Hoxc10	AI506621|Hox-3.6	homeobox C10	protein-coding	11.0	13.0	4.0	50.5	13.5	7.0	5.5	6.0
Merged-chr13-115090201-4	chr13	115090094	115090294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134058)	promoter-TSS (NM_134058)	-36.0	NM_134058	105083.0	Mm.486295	NM_134058	ENSMUSG00000042275	Pelo	AA409897|AI852218	pelota mRNA surveillance and ribosome rescue factor	protein-coding	182.5	215.0	188.0	2812.0	533.5	183.0	216.5	163.0
Merged-chr8-13504410-4	chr8	13504303	13504503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9868.0	NM_019521	14456.0	Mm.3982	NM_019521	ENSMUSG00000031451	Gas6	Gas-6	growth arrest specific 6	protein-coding	44.5	48.0	81.0	1510.5	39.5	20.5	34.5	24.5
Merged-chr17-84270311-4	chr17	84270231	84270431	+	832.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 30 of 37)	B1_Mus1|SINE|Alu	-82384.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	17.0	9.0	7.5	82.0	11.5	5.5	11.0	9.5
Merged-chr5-143043510-4	chr5	143043408	143043608	+	956.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	69512.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	10.0	35.0	11.0	174.5	36.0	11.5	16.0	10.5
Merged-chr15-57893470-6	chr15	57893400	57893600	+	946.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR65|LTR|ERV1	-1082.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	6.0	6.5	11.5	99.0	14.0	7.5	6.0	12.5
Merged-chr8-61686528-1	chr8	61686428	61686628	+	580.0	f0_balb.idr	intron (NM_001293772, intron 9 of 21)	intron (NM_001293772, intron 9 of 21)	73570.0	NM_001293773	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	2.0	8.5	1.0	78.5	7.5	7.0	5.0	5.5
Merged-chr6-97278573-4	chr6	97278477	97278677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-25797.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	25.5	39.0	40.0	232.0	47.0	20.0	27.0	27.0
Merged-chr19-5017029-4	chr19	5016929	5017129	+	944.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6977.0	NM_007854	13340.0	Mm.4930	NM_007854	ENSMUSG00000024891	Slc29a2	Der12|Ent2|Hnp36	solute carrier family 29 (nucleoside transporters), member 2	protein-coding	35.0	74.5	22.5	158.5	102.5	34.5	32.5	14.0
Merged-chr7-112103140-4	chr7	112103056	112103256	+	820.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133758, intron 22 of 27)	intron (NM_133758, intron 22 of 27)	55540.0	NM_001360260	50781.0	Mm.55143	NM_015814	ENSMUSG00000030772	Dkk3	AW061014|C87148|dkk-3|mDkk-3	dickkopf WNT signaling pathway inhibitor 3	protein-coding	3.5	9.0	6.0	182.5	18.5	6.0	14.0	13.0
Merged-chr8-119798345-4	chr8	119798250	119798450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19934.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	54.0	80.0	32.5	661.0	199.0	74.5	70.0	73.0
Merged-chr2-157204527-10	chr2	157204349	157204549	+	907.7700199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001139516)	promoter-TSS (NM_001139516)	85.0	NM_011249	19650.0	Mm.244671	NM_011249	ENSMUSG00000027641	Rbl1	AW547426|PRB1|p107	RB transcriptional corepressor like 1	protein-coding	21.5	31.5	14.0	202.5	43.5	20.0	17.5	18.0
Merged-chr2-26122772-4	chr2	26122695	26122895	+	723.50415	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026495)	promoter-TSS (NM_026495)	16.0	NM_026495	67991.0	Mm.131074	NM_026495	ENSMUSG00000026932	Nacc2	0610020I02Rik|AI448087|Btbd14a|C030048H19Rik	nucleus accumbens associated 2, BEN and BTB (POZ) domain containing	protein-coding	13.5	16.5	7.0	128.5	37.0	8.5	8.5	8.0
Merged-chr16-48812188-3	chr16	48812100	48812300	+	894.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4656.0	NM_023881	57263.0	Mm.21123	NM_023881	ENSMUSG00000022650	Retnlb	9030012B21Rik|Fizz2|RELMbeta|Relmb|Xcp3	resistin like beta	protein-coding	13.0	10.5	12.5	298.5	17.5	6.5	7.5	5.0
Merged-chr6-127338589-4	chr6	127338491	127338691	+	842.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30624.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	9.5	7.0	5.0	206.5	39.5	4.5	12.5	6.0
Merged-chr17-91284144-4	chr17	91284040	91284240	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-191338.0	NM_020252	18189.0	Mm.478418	NM_020252	ENSMUSG00000024109	Nrxn1	1700062G21Rik|9330127H16Rik|A230068P09Rik|mKIAA0578	neurexin I	protein-coding	23.0	19.0	33.5	522.0	76.0	10.0	30.5	33.5
Merged-chr4-59040678-3	chr4	59040636	59040836	+	973.095215	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025277, intron 2 of 2)	intron (NM_025277, intron 2 of 2)	5580.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	23.5	23.0	31.0	203.5	1.5	3.5	1.0	0.0
Merged-chr7-80865044-4	chr7	80864983	80865183	+	767.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009553, intron 2 of 2)	intron (NM_009553, intron 2 of 2)	2975.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	10.5	12.5	8.0	151.0	20.5	5.5	2.5	10.0
Merged-chr17-84180916-5	chr17	84180772	84180972	+	863.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7075.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	8.0	4.5	3.0	59.0	20.0	6.5	6.5	5.5
Merged-chr10-40138187-4	chr10	40138140	40138340	+	819.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	4014.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	11.5	7.0	15.0	228.0	21.5	6.0	7.5	5.0
Merged-chr10-37146213-4	chr10	37146125	37146325	+	782.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7299.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	11.0	18.5	13.5	207.5	29.0	4.5	9.0	7.5
Merged-chr5-64229163-4	chr5	64229056	64229256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	MLT1F2|LTR|ERVL-MaLR	-1201.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	55.5	92.0	119.0	1825.0	97.0	59.5	83.0	66.0
Merged-chr11-98785905-4	chr11	98785820	98786020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9596.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	96.0	165.0	76.5	1009.0	242.0	75.5	96.0	72.0
Merged-chr4-114997244-4	chr4	114997163	114997363	+	800.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2855.0	NM_001304559	20460.0	Mm.3988	NM_009185	ENSMUSG00000028718	Stil	Sil	Scl/Tal1 interrupting locus	protein-coding	11.5	15.0	4.0	143.0	22.0	20.5	13.5	6.0
Merged-chr12-91592316-4	chr12	91592203	91592403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1816.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	164.0	255.0	150.5	2375.5	377.0	130.5	136.5	133.5
Merged-chr14-60757456-4	chr14	60757344	60757544	+	982.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033272, intron 11 of 12)	intron (NM_001033272, intron 11 of 12)	-10690.0	NM_183175	239126.0	Mm.319636	NM_183175	ENSMUSG00000071347	C1qtnf9	9130217G22Rik|CTRP9|Ciqtnf9	C1q and tumor necrosis factor related protein 9	protein-coding	34.0	62.5	17.0	203.0	52.5	19.0	12.0	12.5
Merged-chr12-79168539-3	chr12	79168456	79168656	+	998.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016800, intron 1 of 5)	intron (NM_016800, intron 1 of 5)	3902.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	48.5	56.0	30.0	450.0	0.0	0.0	0.0	0.0
Merged-chr2-155236930-1	chr2	155236830	155237030	+	1000.0	f1_c57bl6.idr	exon (NM_001291108, exon 1 of 4)	exon (NM_001291108, exon 1 of 4)	322.0	NM_001291108	67068.0	Mm.23693	NM_025947	ENSMUSG00000047459	Dynlrb1	2010012N15Rik|2010320M17Rik|9430076K19Rik|AV124457|DNLC2A|Dncl2a|km23-1	dynein light chain roadblock-type 1	protein-coding	15.5	14.0	9.0	113.5	18.5	6.5	6.0	10.0
Merged-chr17-27652385-2	chr17	27652285	27652485	+	946.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-3206.0	NM_011861	23969.0	Mm.4926	NM_011861	ENSMUSG00000040276	Pacsin1	A830061D09Rik|H74|mKIAA1379|syndapin	protein kinase C and casein kinase substrate in neurons 1	protein-coding	6.0	6.0	8.0	69.5	8.0	2.0	4.5	7.0
Merged-chr7-122356671-4	chr7	122356571	122356771	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	L1MB2|LINE|L1	67546.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	24.5	35.5	35.5	590.0	49.5	13.5	25.5	22.0
Merged-chr7-46922133-2	chr7	46922033	46922233	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-2164.0	NM_021884	22088.0	Mm.241334	NM_021884	ENSMUSG00000014402	Tsg101	AI255943|CC2	tumor susceptibility gene 101	protein-coding	5.5	13.0	7.0	51.0	20.0	3.0	5.0	2.0
Merged-chr13-117152887-3	chr13	117152805	117153005	+	833.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	22880.0	NR_046023	623312.0	Mm.131279	NR_046023	ENSMUSG00000114792	Gm6416	-	predicted gene 6416	ncRNA	4.0	9.0	3.0	62.0	17.5	4.5	10.0	12.5
Merged-chr16-57556403-4	chr16	57556285	57556485	+	721.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	7143.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	3.5	9.5	5.5	96.5	16.5	6.0	12.0	6.0
Merged-chr15-50997280-4	chr15	50997179	50997379	+	618.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107238.0	NM_032000	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	2.0	5.5	3.0	115.5	8.5	12.0	13.5	12.0
Merged-chr9-118662048-2	chr9	118661948	118662148	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 7 of 27)	ORR1E|LTR|ERVL-MaLR	-49644.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	6.5	3.0	3.0	101.0	17.0	8.0	6.0	6.0
Merged-chr5-97355346-4	chr5	97355251	97355451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	36979.0	NM_001033191	97243.0	Mm.11746	NM_001033191	ENSMUSG00000046000	Naa11	Ard1b|Ard2|C80008	N(alpha)-acetyltransferase 11, NatA catalytic subunit	protein-coding	50.0	75.5	62.5	773.5	140.0	51.0	79.5	49.0
Merged-chr12-111915008-4	chr12	111914910	111915110	+	964.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6955.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	19.5	25.5	24.0	257.0	36.0	14.5	9.5	27.0
Merged-chr8-120608014-4	chr8	120607886	120608086	+	886.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_197988)	TTS (NM_197988)	-18911.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	8.5	6.5	11.5	78.0	12.5	7.0	7.5	11.0
Merged-chr6-136621004-2	chr6	136620921	136621121	+	778.333374	f0_balb.idr|f1_balb.idr	intron (NM_025806, intron 6 of 10)	intron (NM_025806, intron 6 of 10)	40872.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	17.0	17.0	10.5	157.5	10.0	3.0	5.5	3.0
Merged-chr2-11197198-4	chr2	11197087	11197287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	24805.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	68.0	88.0	67.5	1232.5	192.0	76.0	91.0	78.0
Merged-chr18-36793864-4	chr18	36793786	36793986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025594)	promoter-TSS (NM_025594)	-37.0	NM_025594	66492.0	Mm.251155	NM_025594	ENSMUSG00000001383	Zmat2	2610510D14Rik|2900082I05Rik	zinc finger, matrin type 2	protein-coding	124.5	170.5	80.5	1775.5	362.0	115.0	148.5	88.0
Merged-chr19-41339393-4	chr19	41339310	41339510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	45660.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	125.0	164.5	162.5	2610.0	243.0	69.0	113.5	125.0
Merged-chr10-81182871-4	chr10	81182754	81182954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190474)	promoter-TSS (NM_001190474)	-153.0	NM_001190474	13144.0	Mm.10294	NM_007828	ENSMUSG00000034974	Dapk3	ZIPK|dlk	death-associated protein kinase 3	protein-coding	261.5	423.0	260.5	3610.0	658.0	245.5	308.0	271.0
Merged-chr1-135722294-4	chr1	135722181	135722381	+	922.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360782, intron 1 of 5)	B4A|SINE|B4	2218.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	4.5	19.0	4.5	119.5	64.5	13.5	18.0	15.0
Merged-chr1-191718902-3	chr1	191718757	191718957	+	694.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134829, intron 1 of 7)	CpG	462.0	NM_001134829	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	8.0	2.0	4.0	100.0	11.0	5.0	5.0	12.5
Merged-chr1-64532850-4	chr1	64532743	64532943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009952)	promoter-TSS (NM_009952)	39.0	NM_001037726	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	131.0	274.5	157.5	2334.5	543.0	206.0	262.0	221.5
Merged-chr2-72285865-5	chr2	72285847	72286047	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 1 of 19)	CpG	246.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	11.5	26.5	22.0	264.0	38.0	18.0	18.5	36.5
Merged-chr13-116987434-4	chr13	116987320	116987520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	LTR31|LTR|ERV1	38096.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	41.5	68.0	48.0	911.0	107.0	42.5	49.0	46.0
Merged-chr4-44910301-3	chr4	44910194	44910394	+	974.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138590, intron 6 of 8)	intron (NM_138590, intron 6 of 8)	-71100.0	NM_080289	76238.0	Mm.196574	NM_080289	ENSMUSG00000035637	Grhpr	1110059D05Rik|6430629L09Rik|Glxr	glyoxylate reductase/hydroxypyruvate reductase	protein-coding	7.0	17.5	11.5	303.5	21.5	5.0	23.5	8.5
Merged-chr11-120628069-4	chr11	120627904	120628104	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010756)	TTS (NM_010756)	-3002.0	NM_153056	209011.0	Mm.292957	NM_153056	ENSMUSG00000025138	Sirt7	-	sirtuin 7	protein-coding	14.0	22.5	8.5	82.5	32.0	5.5	7.0	11.0
Merged-chr10-84209679-4	chr10	84209599	84209799	+	943.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	-109002.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	16.5	7.0	6.5	282.5	16.0	6.5	19.0	21.5
Merged-chr5-90897618-4	chr5	90897541	90897741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6258.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	169.0	172.0	116.5	1973.0	332.0	95.5	129.0	106.0
Merged-chr9-85748455-2	chr9	85748368	85748568	+	942.75	f0_balb.idr|f0_c57.idr	intron (NM_175371, intron 1 of 27)	intron (NM_175371, intron 1 of 27)	866.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	18.5	28.0	5.5	95.0	46.0	16.5	19.5	9.5
Merged-chr14-123990023-3	chr14	123989894	123990094	+	933.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045479, intron 1 of 3)	intron (NR_045479, intron 1 of 3)	2359.0	NR_045479	69393.0	Mm.491348	NR_045479	ENSMUSG00000099994	1700024B18Rik	-	RIKEN cDNA 1700024B18 gene	ncRNA	7.0	4.5	6.5	204.0	8.0	7.5	2.0	3.0
Merged-chr7-96730568-4	chr7	96730466	96730666	+	911.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 9 of 32)	intron (NM_011858, intron 9 of 32)	70983.0	NR_045874	791381.0	Mm.402112	NR_045874	ENSMUSG00000053049	Gm15413	-	predicted gene 15413	ncRNA	19.5	9.5	26.5	395.5	25.5	10.5	24.5	9.5
Merged-chr5-115339120-4	chr5	115339014	115339214	+	710.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029645, intron 1 of 2)	B3A|SINE|B2	2047.0	NM_029645	384281.0	Mm.229308	NM_029645	ENSMUSG00000029536	Gatc	2010003O18Rik	glutamyl-tRNA(Gln) amidotransferase, subunit C	protein-coding	9.0	11.0	7.0	133.0	24.0	17.0	6.5	14.0
Merged-chr2-132598705-2	chr2	132598605	132598805	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 1 of 3)	(TTCCC)n|Simple_repeat|Simple_repeat	509.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	1.0	10.0	8.0	58.5	14.5	6.0	6.0	6.5
Merged-chr6-136716277-4	chr6	136716186	136716386	+	976.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 18 of 25)	intron (NM_145067, intron 18 of 25)	-54393.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	22.0	32.5	13.0	389.5	135.5	23.5	36.5	63.5
Merged-chr15-67088303-1	chr15	67088203	67088403	+	561.5	f0_balb.idr	Intergenic	MER53|DNA|hAT	88579.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	9.0	9.0	7.0	58.0	6.0	2.0	4.0	4.5
Merged-chr12-117566540-4	chr12	117566494	117566694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 3 of 27)	intron (NM_175930, intron 3 of 27)	50115.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	12.5	19.5	23.5	209.0	32.0	13.5	21.5	31.0
Merged-chr17-25829012-4	chr17	25829003	25829203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028101)	promoter-TSS (NM_028101)	60.0	NM_028101	72106.0	Mm.277599	NM_028101	ENSMUSG00000025736	Jmjd8	2610003J06Rik	jumonji domain containing 8	protein-coding	17.0	13.5	12.5	131.5	54.0	12.0	14.5	11.5
Merged-chr16-13109770-4	chr16	13109670	13109870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015769)	promoter-TSS (NM_015769)	34.0	NM_015769	50505.0	Mm.287837	NM_015769	ENSMUSG00000022545	Ercc4	AI606920|Xpf	excision repair cross-complementing rodent repair deficiency, complementation group 4	protein-coding	264.0	310.5	235.5	2877.0	518.5	218.5	296.0	205.5
Merged-chr2-29592811-4	chr2	29592704	29592904	+	805.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26916.0	NM_054050	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	9.5	20.5	9.0	236.5	28.5	5.0	12.0	12.5
Merged-chr9-7332040-4	chr9	7331959	7332159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12338.0	NM_001320077	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	58.0	96.5	90.5	1288.5	123.5	60.0	63.0	37.5
Merged-chr9-106429447-4	chr9	106429352	106429552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324534)	promoter-TSS (NM_001324534)	41.0	NM_009082	19944.0	Mm.288696	NM_009082	ENSMUSG00000048758	Rpl29	Rpl43	ribosomal protein L29	protein-coding	75.5	135.5	79.0	620.0	247.0	100.5	91.0	112.0
Merged-chr9-58806118-4	chr9	58806009	58806209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17403.0	NM_001081192	330953.0	Mm.151967	NM_001081192	ENSMUSG00000032338	Hcn4	Bcng3|Hcn3	hyperpolarization-activated, cyclic nucleotide-gated K+ 4	protein-coding	33.5	29.0	17.0	404.5	71.5	23.0	31.5	32.0
Merged-chr2-120381585-4	chr2	120381496	120381696	+	811.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110497, intron 7 of 19)	intron (NM_001110497, intron 7 of 19)	-22300.0	NM_172672	76051.0	Mm.38851	NM_172672	ENSMUSG00000062646	Ganc	5830445O15Rik|9330160A12|mFLJ00088	glucosidase, alpha; neutral C	protein-coding	7.0	9.5	8.5	283.5	31.0	7.5	12.5	13.0
Merged-chr1-171059433-4	chr1	171059307	171059507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010188)	promoter-TSS (NM_010188)	-4.0	NM_010188	14131.0	Mm.22119	NM_010188	ENSMUSG00000059498	Fcgr3	CD16	Fc receptor, IgG, low affinity III	protein-coding	66.0	102.5	77.0	1106.0	192.5	60.5	71.0	59.5
Merged-chr13-20185716-3	chr13	20185609	20185809	+	621.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 2 of 21)	intron (NM_080288, intron 2 of 21)	95202.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	9.0	11.5	6.5	24.5	16.0	9.0	8.5	15.0
Merged-chr7-101649061-4	chr7	101648955	101649155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14713.0	NM_009191	20480.0	Mm.3990	NM_009191	ENSMUSG00000001829	Clpb	AL118244|Skd3	ClpB caseinolytic peptidase B	protein-coding	31.0	42.5	32.0	560.5	60.5	21.5	32.0	26.5
Merged-chr11-119053426-4	chr11	119053319	119053519	+	868.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12506.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	24.5	22.0	10.5	148.5	45.0	11.5	23.0	17.0
Merged-chr16-8836776-3	chr16	8836666	8836866	+	744.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081400, intron 2 of 3)	intron (NM_001081400, intron 2 of 3)	6666.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	6.0	13.5	8.0	116.0	18.5	3.0	5.0	4.5
Merged-chr7-24481942-4	chr7	24481846	24482046	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153112)	promoter-TSS (NM_153112)	-77.0	NM_153112	260299.0	Mm.178322	NM_153112	ENSMUSG00000054793	Cadm4	Igdf4c|Igsf4c|Tsll2	cell adhesion molecule 4	protein-coding	31.5	54.5	17.5	270.5	56.5	20.0	20.0	19.5
Merged-chr1-92975336-3	chr1	92975233	92975433	+	880.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271766)	promoter-TSS (NM_001271766)	-14.0	NM_001271766	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	4.5	21.0	11.0	183.5	9.5	4.5	5.5	5.5
Merged-chr10-17624350-4	chr10	17624258	17624458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98870.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	38.0	57.0	27.0	614.0	84.0	27.0	49.0	19.5
Merged-chr11-20762251-4	chr11	20762175	20762375	+	905.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F3|LINE|L1	-20719.0	NM_181411	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	16.0	22.0	11.0	58.0	41.0	7.5	10.0	4.0
Merged-chr4-133931556-4	chr4	133931449	133931649	+	894.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	36442.0	NM_016957	15331.0	Mm.319660	NM_016957	ENSMUSG00000003038	Hmgn2	HMG-17|Hmg17	high mobility group nucleosomal binding domain 2	protein-coding	38.0	46.5	13.5	284.5	39.0	12.0	11.5	15.5
Merged-chr1-156014952-3	chr1	156014863	156015063	+	733.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160018, intron 8 of 9)	intron (NM_001160018, intron 8 of 9)	19854.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	14.0	7.0	14.0	152.5	13.0	3.5	1.5	4.5
Merged-chr19-12473473-4	chr19	12473347	12473547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172442, intron 7 of 8)	intron (NM_172442, intron 7 of 8)	12668.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	87.5	147.5	78.5	765.0	104.0	49.5	39.0	43.5
Merged-chr4-141642258-4	chr4	141642172	141642372	+	949.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 3 of 18)	intron (NM_001347237, intron 3 of 18)	-18438.0	NM_001013780	384071.0	Mm.295682	NM_001013780	ENSMUSG00000040740	Slc25a34	Gm1369	solute carrier family 25, member 34	protein-coding	26.5	21.0	8.5	180.0	85.0	30.0	31.5	42.0
Merged-chr13-94382683-2	chr13	94382579	94382779	+	852.5	f0_balb.idr|f0_c57.idr	intron (NM_009680, intron 1 of 26)	intron (NM_009680, intron 1 of 26)	23719.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	6.5	10.0	13.5	131.5	28.0	6.0	3.0	13.0
Merged-chr5-64379143-4	chr5	64379037	64379237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88805.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	180.5	299.0	183.0	2743.0	473.5	160.5	181.0	186.0
Merged-chr10-68916330-3	chr10	68916227	68916427	+	882.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	192581.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	7.5	17.0	1.0	110.0	13.5	5.0	4.5	9.0
Merged-chr15-7878242-4	chr15	7878139	7878339	+	893.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081402, intron 17 of 17)	intron (NM_001081402, intron 17 of 17)	62689.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	18.5	11.0	32.5	418.0	22.5	8.0	9.0	6.0
Merged-chr1-182935599-4	chr1	182935500	182935700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19188.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	65.0	54.5	55.5	480.5	99.0	28.5	41.5	36.0
Merged-chr19-7039524-4	chr19	7039442	7039642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016737, intron 1 of 13)	CpG	484.0	NM_016737	20867.0	Mm.258633	NM_016737	ENSMUSG00000024966	Stip1	Hop|Sti1|p60	stress-induced phosphoprotein 1	protein-coding	25.5	37.0	23.5	127.0	59.0	28.5	26.0	31.0
Merged-chr18-65789170-1	chr18	65789070	65789270	+	680.0	f1_c57bl6.idr	Intergenic	Intergenic	-11408.0	NM_025468	66286.0	Mm.27800	NM_025468	ENSMUSG00000024516	Sec11c	1810029G24Rik|Sec11l3	SEC11 homolog C, signal peptidase complex subunit	protein-coding	3.0	3.5	3.0	141.0	18.5	5.5	6.0	12.0
Merged-chr15-36938735-4	chr15	36938645	36938845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	68657.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	26.5	46.5	49.0	385.5	57.5	29.0	24.5	33.5
Merged-chr11-95413883-4	chr11	95413782	95413982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025287)	promoter-TSS (NM_025287)	-201.0	NM_025287	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	181.0	290.0	132.5	1851.0	537.5	199.5	188.0	155.5
Merged-chr5-96163008-3	chr5	96162914	96163114	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1024.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	15.5	22.0	24.0	290.0	38.5	15.0	14.0	15.0
Merged-chr17-87083878-4	chr17	87083754	87083954	+	962.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23825.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	28.0	18.5	18.5	237.0	38.5	17.0	23.0	14.0
Merged-chr18-32377765-3	chr18	32377678	32377878	+	863.2698359999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045403, exon 1 of 3)	non-coding (NR_045403, exon 1 of 3)	506.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	4.5	8.5	12.0	95.5	20.5	3.0	2.5	12.0
Merged-chr1-133382262-3	chr1	133382186	133382386	+	722.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011439)	TTS (NM_011439)	18714.0	NM_175443	214253.0	Mm.52111	NM_175443	ENSMUSG00000070644	Etnk2	4933417N20Rik|AI197444|EKI 2|Eki2|Tuc1	ethanolamine kinase 2	protein-coding	9.0	26.0	5.0	31.5	3.5	7.0	6.0	2.0
Merged-chr11-22710880-4	chr11	22710780	22710980	+	886.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	148855.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	15.0	10.0	14.0	164.0	26.0	17.0	31.5	15.0
Merged-chr7-34195826-4	chr7	34195703	34195903	+	840.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026549, intron 3 of 6)	B2_Mm2|SINE|B2	867.0	NM_026549	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	13.5	9.0	12.0	103.0	27.5	5.5	7.0	11.5
Merged-chr2-160066997-3	chr2	160066910	160067110	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50357.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	13.5	26.0	24.0	446.5	3.5	1.0	1.0	1.0
Merged-chr15-98389971-4	chr15	98389881	98390081	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8464.0	NR_015496	73302.0	Mm.272760	NR_015496	ENSMUSG00000099353	1700031M16Rik	4930413L20Rik	RIKEN cDNA 1700031M16 gene	ncRNA	21.5	31.0	39.5	473.0	59.5	23.0	30.0	18.0
Merged-chr17-85019109-4	chr17	85018991	85019191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159497, intron 5 of 5)	intron (NM_001159497, intron 5 of 5)	-9256.0	NM_009205	20532.0	Mm.227176	NM_009205	ENSMUSG00000024131	Slc3a1	D2H|NBAT|NTAA|RBAT	solute carrier family 3, member 1	protein-coding	76.0	113.5	62.0	1117.5	141.0	79.0	73.0	78.5
Merged-chr12-51939862-4	chr12	51939748	51939948	+	950.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177171, intron 11 of 35)	intron (NM_177171, intron 11 of 35)	31473.0	NM_177171	320487.0	Mm.131941	NM_177171	ENSMUSG00000035181	Heatr5a	C230081H03Rik|D930036F22Rik|mKIAA1316	HEAT repeat containing 5A	protein-coding	15.0	17.0	16.0	440.0	34.0	7.0	18.5	15.5
Merged-chr18-66270834-3	chr18	66270746	66270946	+	942.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178793, intron 2 of 10)	intron (NM_178793, intron 2 of 10)	20992.0	NM_178793	320924.0	Mm.442049	NM_178793	ENSMUSG00000046318	Ccbe1	4933426F18Rik|9430093N24Rik|mKIAA1983	collagen and calcium binding EGF domains 1	protein-coding	8.0	15.0	12.5	176.5	11.5	7.5	4.5	12.5
Merged-chr15-101078360-2	chr15	101078260	101078460	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-23961.0	NM_001214911	668225.0	Mm.385011	NM_001214911	ENSMUSG00000095440	Fignl2	EG668225	fidgetin-like 2	protein-coding	8.5	20.5	4.0	95.0	18.0	6.0	9.5	10.0
Merged-chr18-6773458-4	chr18	6773372	6773572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181070, intron 2 of 6)	intron (NM_181070, intron 2 of 6)	8305.0	NM_001278447	19330.0	Mm.132802	NM_181070	ENSMUSG00000073639	Rab18	AA959686	RAB18, member RAS oncogene family	protein-coding	36.0	42.0	40.5	464.0	135.5	33.5	40.5	40.5
Merged-chr9-40762478-4	chr9	40762340	40762540	+	964.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 2 of 6)	B1_Mus1|SINE|Alu	-38833.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	37.5	54.0	41.0	235.0	67.0	11.0	11.5	14.0
Merged-chr9-65214669-2	chr9	65214569	65214769	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177460)	promoter-TSS (NM_177460)	-21.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	8.0	22.5	4.0	56.0	12.5	4.5	7.0	8.5
Merged-chr19-34747013-4	chr19	34746919	34747119	+	862.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172838)	promoter-TSS (NM_172838)	92.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	17.0	8.5	20.0	327.0	7.5	6.5	14.5	7.5
Merged-chr8-71519206-4	chr8	71519131	71519331	+	779.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7462.0	NM_032398	84094.0	Mm.260768	NM_032398	ENSMUSG00000034845	Plvap	MECA32|Pv1	plasmalemma vesicle associated protein	protein-coding	7.5	23.5	5.5	76.5	38.0	13.0	16.0	5.5
Merged-chr5-63827181-4	chr5	63827077	63827277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	14682.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	84.5	102.0	143.0	1764.0	259.5	77.5	115.0	131.0
Merged-chr14-77033516-4	chr14	77033409	77033609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172488, intron 4 of 7)	intron (NM_172488, intron 4 of 7)	3108.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	94.5	168.5	102.5	1450.0	307.0	115.0	115.0	86.0
Merged-chr11-3185962-4	chr11	3185857	3186057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 4 of 32)	B1_Mur4|SINE|Alu	7506.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	39.0	52.0	55.0	585.5	150.0	68.0	65.0	87.5
Merged-chr13-18795084-4	chr13	18794996	18795196	+	896.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 7 of 28)	intron (NM_172120, intron 7 of 28)	77804.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	9.5	9.0	34.0	332.5	27.0	9.5	18.0	20.0
Merged-chr3-51333447-4	chr3	51333355	51333555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	intron (NM_023502, intron 1 of 9)	7189.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	117.0	162.0	95.5	2166.5	268.0	86.0	139.0	101.5
Merged-chr1-123544597-3	chr1	123544506	123544706	+	800.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199021, intron 5 of 25)	intron (NM_199021, intron 5 of 25)	500953.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	5.0	11.5	8.0	200.5	7.5	4.5	5.5	5.0
Merged-chr7-19416869-2	chr7	19416810	19417010	+	592.0	f0_balb.idr|f1_balb.idr	TTS (NR_073014)	TTS (NR_073014)	4507.0	NR_073014	100503495.0	Mm.410762	NR_073014	ENSMUSG00000040705	A930016O22Rik	-	RIKEN cDNA A930016O22 gene	ncRNA	5.0	6.0	7.0	84.5	2.5	0.5	2.0	8.0
Merged-chr12-73603697-4	chr12	73603559	73603759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	18863.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	63.0	70.5	68.0	892.5	86.0	31.5	32.5	31.0
Merged-chr6-131354611-3	chr6	131354503	131354703	+	806.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33847.0	NM_139117	56449.0	Mm.458000	NM_011733	ENSMUSG00000030189	Ybx3	Csda|Dpba|MSY3|MSY4|Yb2|dbpA|oxyR	Y box protein 3	protein-coding	0.0	2.5	4.0	59.0	35.5	17.5	15.0	9.5
Merged-chr17-5843590-7	chr17	5843508	5843708	+	912.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025664, intron 1 of 17)	intron (NM_025664, intron 1 of 17)	2228.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	6.0	28.0	14.0	166.0	24.5	9.5	8.5	8.0
Merged-chr8-122263548-5	chr8	122263458	122263658	+	765.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18583.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	14.0	15.0	6.0	80.0	15.0	10.5	2.5	5.0
Merged-chr10-82814261-4	chr10	82814164	82814364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038042, intron 1 of 2)	intron (NR_038042, intron 1 of 2)	2141.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	18.5	59.0	47.0	919.0	152.0	29.5	66.0	74.5
Merged-chr17-30070880-2	chr17	30070780	30070980	+	764.799988	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356265, intron 2 of 5)	intron (NM_001356265, intron 2 of 5)	65841.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	4.5	5.5	13.0	173.5	15.0	1.5	3.5	7.0
Merged-chr2-68867357-4	chr2	68867242	68867442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	5901.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	38.0	94.5	40.5	440.5	111.5	44.0	42.5	30.5
Merged-chr4-47235025-4	chr4	47234936	47235136	+	941.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 2 of 39)	intron (NM_009928, intron 2 of 39)	27024.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	15.5	15.5	8.0	250.0	38.5	22.0	29.5	23.5
Merged-chr7-143086520-3	chr7	143086406	143086606	+	888.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020277, intron 5 of 24)	intron (NM_020277, intron 5 of 24)	8136.0	NM_020277	56843.0	Mm.286668	NM_020277	ENSMUSG00000009246	Trpm5	9430099A16Rik|LTrpC-5|Ltrpc5|Mtr1	transient receptor potential cation channel, subfamily M, member 5	protein-coding	4.5	4.5	6.5	89.0	21.5	10.0	10.0	10.5
Merged-chr13-95944056-3	chr13	95943948	95944148	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52126.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	3.5	7.0	9.0	197.0	13.0	5.5	19.0	11.0
Merged-chr11-78183562-4	chr11	78183460	78183660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207523)	promoter-TSS (NM_207523)	24.0	NM_207523	268449.0	Mm.22723	NM_207523	ENSMUSG00000058546	Rpl23a	BC029892|MDA20	ribosomal protein L23A	protein-coding	82.0	112.5	21.5	607.5	144.0	56.5	47.5	42.0
Merged-chr7-73595992-3	chr7	73595898	73596098	+	838.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-37603.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	7.5	14.0	5.5	59.5	12.0	3.5	4.5	4.5
Merged-chr10-4394115-3	chr10	4393942	4394142	+	966.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-5934.0	NM_001033466	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	17.0	7.0	10.5	94.5	9.5	3.0	5.5	5.0
Merged-chr19-29418076-4	chr19	29417977	29418177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 1 of 5)	intron (NM_021396, intron 1 of 5)	7158.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	72.0	145.5	65.0	609.5	181.0	54.5	67.0	45.0
Merged-chr7-143057365-3	chr7	143057297	143057497	+	827.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133655, intron 1 of 7)	intron (NM_133655, intron 1 of 7)	-3711.0	NR_110354	97423.0	Mm.5250	NM_133790	ENSMUSG00000059277	R74862	-	expressed sequence R74862	ncRNA	9.0	5.5	5.5	62.5	9.5	3.5	3.0	3.0
Merged-chr12-102284403-1	chr12	102284303	102284503	+	769.333313	f0_balb.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	762.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	19.5	21.0	7.5	47.5	24.5	5.0	1.5	9.0
Merged-chr5-137585128-2	chr5	137585028	137585228	+	746.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152864, intron 12 of 12)	intron (NR_152864, intron 12 of 12)	10593.0	NR_152864	50765.0	Mm.21757	NM_015799	ENSMUSG00000029716	Tfr2	Trfr2	transferrin receptor 2	protein-coding	8.5	7.0	5.0	46.0	3.5	3.5	5.5	8.5
Merged-chr7-7295739-4	chr7	7295637	7295837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357104, intron 1 of 9)	intron (NM_001357104, intron 1 of 9)	3099.0	NM_001302386	12727.0	Mm.297883	NM_011334	ENSMUSG00000000605	Clcn4	Clc4-2|Clcn4-2|clC-4	chloride channel, voltage-sensitive 4	protein-coding	32.5	56.0	21.0	704.5	75.0	22.0	32.5	20.0
Merged-chr9-105502573-3	chr9	105502493	105502693	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253831, intron 1 of 26)	intron (NM_001253831, intron 1 of 26)	-7460.0	NM_001253836	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	0.0	2.0	0.0	0.0	123.5	32.5	54.5	37.5
Merged-chr5-123906655-4	chr5	123906573	123906773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026603)	promoter-TSS (NM_026603)	-602.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	45.5	97.0	19.5	336.0	154.5	56.0	33.5	41.5
Merged-chr8-34945331-4	chr8	34945227	34945427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 1 of 26)	MTD|LTR|ERVL-MaLR	20363.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	91.0	114.5	80.5	1754.0	220.0	90.5	85.0	88.0
Merged-chr2-32960467-4	chr2	32960379	32960579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199302, intron 1 of 24)	MIRb|SINE|MIR	776.0	NM_199302	227738.0	Mm.248037	NM_199302	ENSMUSG00000026792	Lrsam1	-	leucine rich repeat and sterile alpha motif containing 1	protein-coding	45.5	42.0	36.0	662.5	51.5	28.0	27.5	49.5
Merged-chr7-100501335-2	chr7	100501241	100501441	+	742.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	7983.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	26.0	14.5	11.5	176.5	12.0	13.0	16.0	7.0
Merged-chr1-86524962-2	chr1	86524862	86525062	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1595.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	15.5	25.0	18.5	163.5	52.0	21.0	10.0	19.5
Merged-chr2-132516423-3	chr2	132516305	132516505	+	832.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028286, intron 2 of 3)	ORR1A2|LTR|ERVL-MaLR	25677.0	NR_028286	70371.0	Mm.394667	NR_028286	ENSMUSG00000086379	1700026D11Rik	-	RIKEN cDNA 1700026D11 gene	ncRNA	9.5	12.0	4.5	56.0	4.0	2.5	6.5	11.0
Merged-chr16-91613179-4	chr16	91613065	91613265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	5834.0	NM_001099738	246738.0	Mm.101927	NM_138664	ENSMUSG00000039763	Dnajc28	BC020175|ORF28	DnaJ heat shock protein family (Hsp40) member C28	protein-coding	38.5	54.5	36.0	556.0	122.0	44.0	50.5	43.5
Merged-chr15-98153068-4	chr15	98152964	98153164	+	924.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170711, intron 1 of 3)	intron (NM_001170711, intron 1 of 3)	-7362.0	NM_001170710	78541.0	Mm.200766	NM_030121	ENSMUSG00000048175	Asb8	4930539L19Rik|AI788835|C430011H06Rik	ankyrin repeat and SOCS box-containing 8	protein-coding	19.5	16.5	15.5	121.5	29.5	4.5	17.5	8.5
Merged-chr1-80715706-3	chr1	80715588	80715788	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	42865.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	4.5	7.5	12.0	149.0	19.5	7.5	5.0	3.0
Merged-chr4-136505968-4	chr4	136505868	136506068	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024452, intron 1 of 4)	MTC|LTR|ERVL-MaLR	36207.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	23.5	36.0	21.0	408.0	35.5	11.0	16.0	20.5
Merged-chr1-86527403-4	chr1	86527292	86527492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008972, intron 1 of 4)	CpG-365	835.0	NM_001360830	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	27.0	55.0	19.0	252.0	113.0	57.0	45.0	33.0
Merged-chr1-87634738-2	chr1	87634638	87634838	+	922.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	14426.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	4.5	9.0	7.0	113.5	17.5	4.5	17.5	12.0
Merged-chr7-104287775-5	chr7	104287684	104287884	+	733.853333	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310602, intron 1 of 7)	intron (NM_001310602, intron 1 of 7)	322.0	NM_001310602	667823.0	Mm.482375	NM_001310602	ENSMUSG00000060441	Trim5	EG667823|Gm8833	tripartite motif-containing 5	protein-coding	0.0	0.0	0.0	0.0	17.5	9.5	7.0	6.5
Merged-chr15-57705165-5	chr15	57704972	57705172	+	684.7363280000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	intron (NM_199449, intron 1 of 3)	10405.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	9.0	8.0	5.5	54.5	13.0	16.0	6.5	4.0
Merged-chr1-134962557-4	chr1	134962442	134962642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278115)	promoter-TSS (NM_001278115)	-23.0	NM_026024	67196.0	Mm.284587	NM_026024	ENSMUSG00000026429	Ube2t	2700084L22Rik|C80607	ubiquitin-conjugating enzyme E2T	protein-coding	147.5	187.5	152.5	2188.5	351.0	122.5	176.5	179.5
Merged-chr2-160365658-4	chr2	160365516	160365716	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010658, exon 1 of 1)	3' UTR (NM_010658, exon 1 of 1)	1449.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	21.0	28.0	27.0	392.0	25.5	13.5	12.5	26.5
Merged-chr9-40320645-2	chr9	40320545	40320745	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001357622, exon 1 of 17)	exon (NM_001357622, exon 1 of 17)	678.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	9.0	9.5	6.5	64.5	10.0	2.0	7.0	4.0
Merged-chr1-136129434-3	chr1	136129332	136129532	+	851.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_046167, exon 3 of 4)	non-coding (NR_046167, exon 3 of 4)	1751.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	7.5	16.0	7.0	85.0	16.0	13.5	5.5	9.5
Merged-chr10-79097687-4	chr10	79097580	79097780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359717)	promoter-TSS (NM_001359717)	-80.0	NM_001004362	72128.0	Mm.297854	NM_001004362	ENSMUSG00000060301	2610008E11Rik	-	RIKEN cDNA 2610008E11 gene	protein-coding	213.0	353.0	250.0	4443.0	591.0	221.0	266.5	180.0
Merged-chr2-8674151-3	chr2	8674048	8674248	+	695.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-515367.0	NR_038180	73438.0	Mm.23558	NR_038180	ENSMUSG00000085580	1700061F12Rik	-	RIKEN cDNA 1700061F12 gene	ncRNA	8.5	11.5	4.5	85.0	9.0	4.5	1.5	6.0
Merged-chr7-3289265-4	chr7	3289169	3289369	+	920.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001093764, exon 1 of 3)	5' UTR (NM_001093764, exon 1 of 3)	231.0	NM_001093764	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	7.5	12.5	9.0	110.0	44.0	13.0	16.5	26.0
Merged-chr19-8786328-4	chr19	8786245	8786445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177798)	promoter-TSS (NM_001177798)	-29.0	NM_146092	225895.0	Mm.220886	NM_146092	ENSMUSG00000003680	Taf6l	2810417N14Rik|BB223262|C530024J06Rik|Paf65a	TATA-box binding protein associated factor 6 like	protein-coding	136.5	216.5	107.5	1816.0	341.0	157.0	138.0	93.5
Merged-chr3-8931152-3	chr3	8931053	8931253	+	834.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001025261, exon 8 of 8)	exon (NM_001025261, exon 8 of 8)	-7296.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	14.5	6.5	8.0	185.5	29.5	2.5	2.0	4.0
Merged-chr18-73816608-4	chr18	73816506	73816706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1214.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	110.0	132.0	121.0	2628.0	268.5	66.0	132.0	113.0
Merged-chr13-105306196-3	chr13	105306104	105306304	+	796.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11719.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	10.5	11.0	14.5	240.0	18.0	8.5	12.5	16.0
Merged-chr15-38710381-4	chr15	38710290	38710490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18126.0	NR_131206	105463124.0	Mm.432448	NR_131206	ENSMUSG00000115620	Gm45924	Borg	predicted gene, 45924	ncRNA	168.0	196.5	211.0	3645.0	267.0	115.0	231.5	132.0
Merged-chr14-78790599-3	chr14	78790498	78790698	+	958.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57869.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	8.0	24.5	14.0	165.5	4.5	2.5	3.0	1.0
Merged-chr5-67821441-4	chr5	67821319	67821519	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	C-rich|Low_complexity|Low_complexity	26012.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	35.0	22.5	19.5	465.0	63.5	20.0	18.5	20.5
Merged-chr7-93080022-3	chr7	93079915	93080115	+	729.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021427, exon 1 of 2)	5' UTR (NM_021427, exon 1 of 2)	136.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	11.5	5.0	12.0	146.0	21.5	5.5	5.5	7.5
Merged-chr14-27428784-4	chr14	27428688	27428888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114879)	promoter-TSS (NM_001114879)	-46.0	NM_028945	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	112.0	186.5	107.5	1416.0	361.0	113.5	162.0	133.0
Merged-chr3-75835709-4	chr3	75835594	75835794	+	976.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121255.0	NM_175193	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	20.5	14.5	28.0	303.0	10.0	7.5	16.0	10.0
Merged-chr5-88564899-4	chr5	88564811	88565011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289775)	promoter-TSS (NM_001289775)	-129.0	NM_001289774	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	123.0	173.0	113.0	1610.5	274.0	104.0	121.0	90.5
Merged-chr2-70889232-4	chr2	70889106	70889306	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-63726.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	17.0	14.0	13.5	215.5	64.5	18.0	16.0	18.0
Merged-chr3-105000862-4	chr3	105000758	105000958	+	755.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39149.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	15.5	13.5	13.5	202.0	28.5	12.0	10.0	9.0
Merged-chr17-87302384-5	chr17	87302250	87302450	+	991.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	intron (NM_028639, intron 3 of 19)	19464.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	8.5	11.5	4.0	110.0	23.5	7.0	11.0	13.0
Merged-chr11-121697716-3	chr11	121697610	121697810	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4717.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	6.5	41.5	16.0	241.0	12.0	5.5	6.0	7.0
Merged-chr10-98815037-4	chr10	98814912	98815112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99630.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	48.0	55.5	36.0	451.5	115.0	52.5	43.5	57.5
Merged-chr10-94470886-2	chr10	94470786	94470986	+	853.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	MTC|LTR|ERVL-MaLR	-43971.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	9.0	6.0	6.0	38.0	10.5	4.0	2.5	1.5
Merged-chr2-27427105-4	chr2	27426979	27427179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_133905, exon 1 of 30)	non-coding (NR_133905, exon 1 of 30)	529.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	101.0	125.0	71.5	1328.5	290.0	76.0	110.5	90.0
Merged-chr9-115863035-3	chr9	115862948	115863148	+	776.922241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-46407.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	7.0	8.5	7.0	90.0	13.0	4.0	4.0	2.0
Merged-chr10-15154986-3	chr10	15154885	15155085	+	984.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	394696.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	26.0	12.5	25.0	424.5	16.5	2.5	9.0	2.0
Merged-chr8-105326350-4	chr8	105326261	105326461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177449)	promoter-TSS (NM_177449)	-3.0	NM_025486	66320.0	Mm.29990	NM_025486	ENSMUSG00000014856	Tmem208	1700006C06Rik|2610030K20Rik|Hspc171	transmembrane protein 208	protein-coding	129.5	192.5	89.5	1515.0	295.5	133.0	106.5	127.5
Merged-chr13-5888970-4	chr13	5888868	5889068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27479.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	43.5	57.0	42.0	965.5	123.5	38.5	50.5	62.0
Merged-chr3-136165459-2	chr3	136165356	136165556	+	590.75	f0_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 7 of 16)	intron (NM_001033350, intron 7 of 16)	160610.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	12.5	12.0	6.5	119.0	4.0	0.0	3.0	7.5
Merged-chr1-173419152-4	chr1	173419037	173419237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1467.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	72.0	155.0	61.0	1420.5	371.5	161.0	178.5	160.5
Merged-chr6-113641011-2	chr6	113640911	113641111	+	828.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 1 of 11)	intron (NM_001113553, intron 1 of 11)	2544.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	7.5	6.5	12.0	15.5	12.0	5.0	5.5	7.5
Merged-chr1-86466088-4	chr1	86465982	86466182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	39753.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	32.5	28.5	10.5	386.5	38.5	19.5	38.5	31.5
Merged-chr5-88698816-4	chr5	88698718	88698918	+	757.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22053.0	NM_026735	68473.0	Mm.35764	NM_026735	ENSMUSG00000006262	Mob1b	1110003E08Rik|AU015450|B230364F10|Mobkl1a	MOB kinase activator 1B	protein-coding	5.0	8.0	8.0	156.5	29.0	6.5	12.5	11.0
Merged-chr5-143537255-4	chr5	143537156	143537356	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9225.0	NM_001347530	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	31.0	17.5	24.5	459.0	57.0	26.0	26.5	36.5
Merged-chr3-67568438-4	chr3	67568337	67568537	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14331.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	21.0	27.5	18.5	377.5	31.0	12.5	26.5	22.0
Merged-chr2-90576434-4	chr2	90576310	90576510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	4237.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	42.5	59.0	53.5	695.0	83.5	35.0	32.0	26.0
Merged-chr4-59626109-4	chr4	59626004	59626204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153158)	promoter-TSS (NM_153158)	-107.0	NM_001015681	230259.0	Mm.45688	NM_153158	ENSMUSG00000045071	E130308A19Rik	-	RIKEN cDNA E130308A19 gene	protein-coding	50.5	58.0	36.0	653.0	111.5	29.0	42.5	69.5
Merged-chr16-23287488-4	chr16	23287386	23287586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	intron (NM_001252505, intron 2 of 7)	-2984.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	95.0	140.0	100.5	2212.5	225.0	81.5	134.0	94.5
Merged-chr12-33040971-4	chr12	33040878	33041078	+	974.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 15 of 19)	intron (NM_001024478, intron 15 of 19)	51897.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	23.5	44.0	15.5	413.5	104.5	22.0	18.0	15.0
Merged-chr8-105938017-4	chr8	105937834	105938034	+	988.4027710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013640, intron 1 of 7)	intron (NM_013640, intron 1 of 7)	458.0	NM_013640	19171.0	Mm.787	NM_013640	ENSMUSG00000031897	Psmb10	Mecl-1|Mecl1	proteasome (prosome, macropain) subunit, beta type 10	protein-coding	7.5	13.5	10.5	118.5	19.0	3.0	12.0	6.5
Merged-chr3-59263823-4	chr3	59263712	59263912	+	812.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357008)	promoter-TSS (NM_001357008)	-827.0	NM_001357010	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	12.5	13.0	6.0	103.5	37.5	8.5	14.0	5.5
Merged-chr11-46795817-4	chr11	46795707	46795907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14992.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	70.0	117.5	64.5	885.5	116.5	30.5	46.0	29.0
Merged-chr1-132311671-4	chr1	132311563	132311763	+	893.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4462.0	NM_001195025	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	17.0	8.0	12.0	246.0	38.0	14.5	12.5	5.5
Merged-chr18-70532211-4	chr18	70532084	70532284	+	897.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1863.0	NM_001289515	26447.0	Mm.244352	NM_011972	ENSMUSG00000038425	Poli	Rad30b	polymerase (DNA directed), iota	protein-coding	8.0	5.5	8.5	143.5	41.0	19.0	5.0	8.0
Merged-chr10-79855094-4	chr10	79855001	79855201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029447)	promoter-TSS (NR_029447)	-130.0	NR_029447	414101.0	Mm.401339	NR_029447	ENSMUSG00000091994	E130317F20Rik	-	RIKEN cDNA E130317F20 gene	ncRNA	40.0	185.0	56.0	444.0	159.0	105.5	90.0	59.0
Merged-chr10-93594143-4	chr10	93594037	93594237	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045810, intron 1 of 3)	intron (NR_045810, intron 1 of 3)	-4479.0	NM_027246	69878.0	Mm.259642	NM_027246	ENSMUSG00000020018	Snrpf	2010013O18Rik|SMF|sm-F|snRNP-F	small nuclear ribonucleoprotein polypeptide F	protein-coding	18.0	27.0	9.5	295.0	83.0	34.5	35.0	32.5
Merged-chr11-85842140-4	chr11	85842020	85842220	+	889.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009324)	TTS (NM_009324)	9505.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	34.5	29.0	9.5	321.5	25.5	15.0	11.0	7.5
Merged-chr8-75213931-3	chr8	75213855	75214055	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029182)	promoter-TSS (NM_029182)	11.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	11.5	16.0	10.5	84.5	13.0	10.5	2.0	10.0
Merged-chr19-38021457-1	chr19	38021357	38021557	+	1000.0	f0_balb.idr	intron (NM_001302140, intron 3 of 53)	intron (NM_001302140, intron 3 of 53)	22120.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	5.0	9.0	11.0	135.0	12.0	1.0	0.0	2.0
Merged-chr15-81610480-4	chr15	81610383	81610583	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177821, exon 4 of 31)	exon (NM_177821, exon 4 of 31)	24269.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	26.5	29.5	3.5	383.5	32.0	8.0	29.0	22.0
Merged-chr4-43039065-8	chr4	43038909	43039109	+	883.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	1292.0	NM_001253353	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	8.0	10.0	6.5	72.5	26.5	9.0	7.0	13.0
Merged-chr8-20550553-1	chr8	20550453	20550653	+	1000.0	f0_c57.idr	Intergenic	CpG	-64374.0	NM_001270553	100861668.0	Mm.491087	NM_001270553	ENSMUSG00000095294	Gm21119	-	predicted gene, 21119	protein-coding	6.5	11.5	5.0	29.5	43.0	22.5	20.0	17.5
Merged-chr9-75437758-4	chr9	75437665	75437865	+	860.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3759.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	9.5	8.0	2.5	90.5	43.0	12.5	14.5	6.5
Merged-chr15-77945873-4	chr15	77945795	77945995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017983, intron 7 of 8)	intron (NM_001017983, intron 7 of 8)	10827.0	NM_001168260	239554.0	Mm.295605	NM_001017983	ENSMUSG00000016552	Foxred2	A430097D04Rik|D15Bwg0759e|Gm304	FAD-dependent oxidoreductase domain containing 2	protein-coding	86.5	74.5	80.5	1064.0	107.0	35.0	42.0	62.0
Merged-chr5-5358119-4	chr5	5357985	5358185	+	936.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	22166.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	10.5	12.5	16.5	164.0	27.5	9.5	14.5	15.0
Merged-chr1-131181803-4	chr1	131181724	131181924	+	695.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 3 of 5)	intron (NM_018750, intron 3 of 5)	18361.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	12.5	16.0	6.0	99.0	20.5	5.0	9.0	10.5
Merged-chr15-5302582-4	chr15	5302468	5302668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58381.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	59.5	90.5	69.0	1109.5	125.5	44.0	68.0	81.5
Merged-chr9-40803998-4	chr9	40803887	40804087	+	946.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031165, intron 6 of 8)	intron (NM_031165, intron 6 of 8)	2714.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	18.0	15.5	18.5	144.0	44.0	16.0	19.0	8.0
Merged-chr5-140568467-4	chr5	140568366	140568566	+	948.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3399.0	NM_030022	77998.0	Mm.160040	NM_030022	ENSMUSG00000036586	Grifin	E130101O17Rik	galectin-related inter-fiber protein	protein-coding	18.5	20.5	10.5	140.5	45.5	15.5	8.5	22.5
Merged-chr9-40872203-5	chr9	40872147	40872347	+	827.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1880.0	NM_178245	244813.0	Mm.261652	NM_178245	ENSMUSG00000054360	Bsx	Bsx1a|Bsx1b	brain specific homeobox	protein-coding	6.5	14.0	9.0	57.5	44.0	12.5	15.0	20.5
Merged-chr17-24528075-4	chr17	24527985	24528185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172114)	promoter-TSS (NM_001172114)	-147.0	NM_001172114	224619.0	Mm.275150	NM_153792	ENSMUSG00000052752	Traf7	RFWD1	TNF receptor-associated factor 7	protein-coding	303.5	464.0	335.0	4704.0	764.0	281.0	331.0	280.0
Merged-chr3-115716424-4	chr3	115716326	115716526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1371.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	34.5	36.5	32.5	612.5	77.0	21.0	37.5	36.0
Merged-chr7-28732912-4	chr7	28732813	28733013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310687, intron 3 of 6)	intron (NM_001310687, intron 3 of 6)	7908.0	NM_001360254	24030.0	Mm.358650	NM_011885	ENSMUSG00000045948	Mrps12	AI327385|Rpms12|rps12	mitochondrial ribosomal protein S12	protein-coding	81.5	117.5	67.0	1463.0	195.0	65.5	91.0	76.5
Merged-chr4-3692988-4	chr4	3692890	3693090	+	974.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	ORR1G|LTR|ERVL-MaLR	14869.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	16.0	16.0	5.5	187.5	66.0	19.5	21.5	25.5
Merged-chr9-23651525-3	chr9	23651431	23651631	+	935.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	428455.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	11.0	10.5	6.5	144.0	6.0	0.0	3.0	1.5
Merged-chr9-66856105-3	chr9	66856008	66856208	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 3 of 7)	intron (NM_173413, intron 3 of 7)	-21402.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	16.0	8.0	4.0	184.5	14.0	7.5	12.5	8.5
Merged-chr5-91961568-4	chr5	91961463	91961663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073442, intron 1 of 9)	intron (NR_073442, intron 1 of 9)	993.0	NR_073442	68098.0	Mm.159453	NM_026557	ENSMUSG00000029397	Rchy1	ARNIP|CHIMP|Pirh2|Zfp363|Znf363	ring finger and CHY zinc finger domain containing 1	protein-coding	66.5	63.5	35.5	539.5	153.5	62.5	58.5	48.0
Merged-chr1-134987722-4	chr1	134987609	134987809	+	898.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033409, exon 18 of 18)	exon (NM_001033409, exon 18 of 18)	25144.0	NM_001278115	67196.0	Mm.284587	NM_026024	ENSMUSG00000026429	Ube2t	2700084L22Rik|C80607	ubiquitin-conjugating enzyme E2T	protein-coding	7.0	11.5	9.5	197.0	19.5	3.5	11.0	14.0
Merged-chr19-56600939-4	chr19	56600840	56601040	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52679.0	NM_025811	66866.0	Mm.46346	NM_025811	ENSMUSG00000025078	Nhlrc2	1200003G01Rik|AI835049|AV002846|AW496455	NHL repeat containing 2	protein-coding	48.5	38.5	51.5	618.0	81.5	20.5	44.0	23.0
Merged-chr10-94923467-4	chr10	94923371	94923571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 1 of 30)	intron (NM_018797, intron 1 of 30)	21107.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	73.0	103.0	109.5	1908.5	195.5	46.5	126.5	104.5
Merged-chr16-4679177-4	chr16	4679056	4679256	+	978.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030205, intron 1 of 27)	CpG	564.0	NM_030205	78885.0	Mm.325512	NM_030205	ENSMUSG00000039637	Coro7	0610011B16Rik|AW048373|AW556392	coronin 7	protein-coding	8.0	15.5	19.5	101.5	25.0	18.0	11.5	31.0
Merged-chr17-24454802-4	chr17	24454721	24454921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_125990, intron 1 of 13)	CpG	571.0	NM_001301784	13560.0	Mm.163132	NM_007893	ENSMUSG00000024137	E4f1	p120E4F|phi-AP3	E4F transcription factor 1	protein-coding	71.0	96.0	51.5	747.0	139.5	58.0	50.0	34.5
Merged-chr8-11635824-4	chr8	11635716	11635916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281975)	promoter-TSS (NM_001281975)	-59.0	NM_001281974	102334.0	Mm.12459	NM_133971	ENSMUSG00000031508	Ankrd10	4833425P12Rik|AW549277	ankyrin repeat domain 10	protein-coding	139.0	145.0	96.5	1783.0	264.5	112.0	165.0	91.0
Merged-chr7-16295586-4	chr7	16295492	16295692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8797.0	NM_001136471	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	104.0	212.5	74.5	1540.5	306.0	106.0	113.0	121.5
Merged-chr8-95852497-4	chr8	95852386	95852586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172758, intron 2 of 11)	intron (NM_172758, intron 2 of 11)	1005.0	NM_172758	234595.0	Mm.29267	NM_172758	ENSMUSG00000036534	Slc38a7	D430050E18	solute carrier family 38, member 7	protein-coding	192.5	326.5	177.0	2698.0	446.5	150.0	198.0	198.0
Merged-chr6-115901807-3	chr6	115901708	115901908	+	873.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167763, intron 15 of 28)	intron (NM_001167763, intron 15 of 28)	-30119.0	NM_145383	212541.0	Mm.2965	NM_145383	ENSMUSG00000030324	Rho	Noerg1|Opn2|Ops|RP4	rhodopsin	protein-coding	10.5	17.5	5.0	74.0	11.5	13.0	3.0	8.5
Merged-chr1-156684238-3	chr1	156684131	156684331	+	998.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145413, intron 7 of 7)	LTR41B|LTR|ERVL	-9892.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	27.0	20.5	18.0	393.5	16.5	3.5	1.0	3.5
Merged-chr4-150113074-3	chr4	150112974	150113174	+	876.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6270.0	NM_019741	56485.0	Mm.260220	NM_019741	ENSMUSG00000028976	Slc2a5	AI526984|Glut5|Slc5a	solute carrier family 2 (facilitated glucose transporter), member 5	protein-coding	2.0	4.5	1.5	43.5	35.0	21.0	7.0	8.5
Merged-chr18-20645431-4	chr18	20645340	20645540	+	972.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155534, intron 1 of 2)	RMER5|LTR|ERV1	-19810.0	NM_013697	22139.0	Mm.2108	NM_013697	ENSMUSG00000061808	Ttr	AA408768|AI787086|D17860|prealbumin	transthyretin	protein-coding	12.5	38.5	12.5	266.5	53.5	14.5	20.5	26.0
Merged-chr11-98972373-2	chr11	98972273	98972473	+	985.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361954, intron 6 of 7)	intron (NM_001361954, intron 6 of 7)	7501.0	NM_001361954	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	4.0	8.5	8.0	59.0	33.5	8.0	9.0	10.5
Merged-chr11-79520123-4	chr11	79520028	79520228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077496, intron 1 of 1)	intron (NM_001077496, intron 1 of 1)	3634.0	NM_001077496	216984.0	Mm.439665	NM_001077496	ENSMUSG00000093938	Evi2b	Evi-2|Evi2	ecotropic viral integration site 2b	protein-coding	97.5	134.5	53.5	980.0	199.0	82.0	96.5	67.5
Merged-chr18-62191683-4	chr18	62191590	62191790	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11590.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	26.5	34.5	26.5	695.0	37.5	5.5	13.5	17.5
Merged-chr10-108185437-4	chr10	108185335	108185535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027892, intron 1 of 25)	intron (NM_027892, intron 1 of 25)	23035.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	35.5	51.5	69.5	1124.0	111.0	42.0	65.0	55.0
Merged-chr13-9454909-4	chr13	9454787	9454987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	178362.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	94.0	100.5	95.5	1216.0	180.5	45.5	57.5	63.0
Merged-chr17-87613559-3	chr17	87613452	87613652	+	884.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22427.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	10.0	14.5	27.0	147.0	11.5	10.0	16.5	8.5
Merged-chr5-103821719-2	chr5	103821619	103821819	+	719.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133919, intron 7 of 19)	intron (NM_133919, intron 7 of 19)	67146.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	4.0	5.0	0.5	26.5	7.5	6.5	6.5	5.5
Merged-chr5-24383618-4	chr5	24383524	24383724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001002897)	TTS (NM_001002897)	8519.0	NM_001002897	213948.0	Mm.332252	NM_001002897	ENSMUSG00000038295	Atg9b	Apg912|Apg9l2|Apgdc2|Gm574|Nos3as|eONE|sONE	autophagy related 9B	protein-coding	125.5	159.0	56.5	1029.5	198.5	53.0	78.0	77.5
Merged-chr17-29489722-4	chr17	29489624	29489824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1321.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	61.0	178.0	49.5	311.5	237.0	107.5	67.5	42.5
Merged-chr3-87376335-4	chr3	87376243	87376443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310545)	promoter-TSS (NM_001310545)	-44.0	NM_001310545	229499.0	Mm.255203	NM_153090	ENSMUSG00000059994	Fcrl1	A230020G22Rik|Bxmas1|Bxmh1|Bxmh1b|Fcrh1|Fcrh1l|Fcrh1s|Ifgp1	Fc receptor-like 1	protein-coding	59.0	52.0	31.5	667.0	139.0	57.0	58.0	52.0
Merged-chr2-58532402-4	chr2	58532328	58532528	+	869.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110204, intron 2 of 12)	intron (NM_001110204, intron 2 of 12)	28982.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	9.5	15.0	13.5	186.5	25.5	10.0	11.5	11.0
Merged-chr13-113013496-4	chr13	113013330	113013530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19562.0	NM_001037914	622408.0	Mm.360976	NM_001037914	ENSMUSG00000074651	Mcidas	EG622408|Gm6320|Idas|Mci|Mcin	multiciliate differentiation and DNA synthesis associated cell cycle protein	protein-coding	28.5	28.0	33.5	396.0	63.5	28.0	29.5	23.0
Merged-chr1-84838289-1	chr1	84838189	84838389	+	819.666687	f0_balb.idr	intron (NM_133975, intron 1 of 40)	intron (NM_133975, intron 1 of 40)	1015.0	NM_133975	14897.0	Mm.209265	NM_133975	ENSMUSG00000026219	Trip12	1110036I07Rik|6720416K24Rik|AA410158|Gtl6|TRIP-12	thyroid hormone receptor interactor 12	protein-coding	13.0	6.0	17.5	138.0	26.0	4.0	7.5	10.0
Merged-chr19-25052471-4	chr19	25052355	25052555	+	965.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 2 of 47)	intron (NM_028785, intron 2 of 47)	52926.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	21.5	37.0	19.0	344.0	63.0	9.5	15.0	23.0
Merged-chr8-36995459-4	chr8	36995394	36995594	+	965.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001039220)	TTS (NM_001039220)	1919.0	NM_001039220	621080.0	Mm.373292	NM_001039220	ENSMUSG00000074384	AI429214	-	expressed sequence AI429214	protein-coding	6.5	12.5	21.5	339.0	25.0	5.0	28.0	17.0
Merged-chr19-3437095-2	chr19	3436995	3437195	+	766.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22551.0	NM_010253	14419.0	Mm.4655	NM_010253	ENSMUSG00000024907	Gal	Galn	galanin	protein-coding	3.0	5.5	3.5	9.0	22.0	6.5	7.0	5.0
Merged-chr8-106959757-4	chr8	106959664	106959864	+	943.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	MTC|LTR|ERVL-MaLR	24014.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	23.0	37.0	12.5	168.0	57.0	23.0	27.0	20.0
Merged-chr4-156164590-2	chr4	156164490	156164690	+	659.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_021604)	TTS (NM_021604)	32898.0	NM_021604	11603.0	Mm.273098	NM_021604	ENSMUSG00000041936	Agrn	Agrin|nmf380	agrin	protein-coding	8.0	6.0	5.5	113.5	12.0	0.0	16.0	4.5
Merged-chr3-104511226-2	chr3	104511173	104511373	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001025067, intron 1 of 17)	intron (NM_001025067, intron 1 of 17)	645.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	3.0	10.0	7.5	78.5	29.0	6.5	5.5	13.0
Merged-chr2-171329095-4	chr2	171328994	171329194	+	977.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	597287.0	NM_001163686	76829.0	Mm.41633	NM_029761	ENSMUSG00000027560	Dok5	2700055C10Rik	docking protein 5	protein-coding	17.5	28.0	17.5	658.0	46.5	25.0	22.0	15.5
Merged-chr4-148626997-4	chr4	148626877	148627077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145556)	promoter-TSS (NM_145556)	19.0	NR_027864	230908.0	Mm.22453	NM_145556	ENSMUSG00000041459	Tardbp	1190002A23Rik|C85084|TDP-43|Tdp43	TAR DNA binding protein	protein-coding	81.5	141.0	88.0	749.0	226.0	97.5	83.0	73.0
Merged-chr2-71336501-4	chr2	71336401	71336601	+	837.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 3 of 17)	intron (NM_172436, intron 3 of 17)	31053.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	11.0	20.5	10.0	188.0	16.0	10.0	9.0	13.5
Merged-chr13-9419385-4	chr13	9419286	9419486	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	142861.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	26.5	39.5	35.0	725.0	59.5	16.0	14.5	20.5
Merged-chr9-123986296-4	chr9	123986213	123986413	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7905.0	NM_007718	12770.0	Mm.423532	NM_007718	ENSMUSG00000064039	Ccr1l1	Cmkbr1l1	chemokine (C-C motif) receptor 1-like 1	protein-coding	28.5	29.0	13.0	452.0	73.5	18.5	30.0	32.5
Merged-chr5-66005490-4	chr5	66005381	66005581	+	919.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1196.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	16.0	23.0	10.0	253.0	61.5	10.0	17.5	12.0
Merged-chr2-156189429-3	chr2	156189310	156189510	+	745.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7237.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	10.0	9.5	5.0	116.5	12.5	3.0	6.5	1.5
Merged-chr3-75957011-4	chr3	75956923	75957123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175193)	promoter-TSS (NM_175193)	-74.0	NM_001291069	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	200.5	272.0	221.5	4173.0	376.0	158.5	268.0	209.0
Merged-chr10-44271873-4	chr10	44271772	44271972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358596, intron 1 of 6)	L2|LINE|L2	3533.0	NM_001358596	11793.0	Mm.22264	NM_053069	ENSMUSG00000038160	Atg5	2010107M05Rik|3110067M24Rik|AW319544|Apg5l|Atg5l|C88337|Paddy	autophagy related 5	protein-coding	75.0	134.5	83.5	944.0	232.5	51.5	66.5	58.5
Merged-chr14-43925211-4	chr14	43925117	43925317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-1849.0	NM_053112	93725.0	Mm.429087	NM_053112	ENSMUSG00000090166	Ear10	Raf2	eosinophil-associated, ribonuclease A family, member 10	protein-coding	55.5	84.5	24.5	409.5	119.5	37.5	42.0	35.5
Merged-chr19-7217682-4	chr19	7217595	7217795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007750)	promoter-TSS (NM_007750)	-79.0	NM_007750	12868.0	Mm.14022	NM_007750	ENSMUSG00000035885	Cox8a	COX8L	cytochrome c oxidase subunit VIIIa	protein-coding	153.0	210.5	191.5	2031.0	298.0	109.5	94.0	102.0
Merged-chr18-80257802-4	chr18	80257719	80257919	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025861, intron 2 of 5)	intron (NM_025861, intron 2 of 5)	1513.0	NM_025861	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	20.5	29.5	31.0	436.5	32.0	5.5	19.0	17.0
Merged-chr4-102657419-4	chr4	102657344	102657544	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67601.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	49.0	39.5	49.0	763.5	63.0	24.5	33.5	16.5
Merged-chr4-102290453-3	chr4	102290367	102290567	+	804.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177983, intron 1 of 5)	intron (NM_001177983, intron 1 of 5)	35528.0	NM_019840	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	7.0	6.5	8.0	157.5	13.5	1.0	7.5	11.0
Merged-chr7-133776784-4	chr7	133776692	133776892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025850)	promoter-TSS (NM_025850)	11.0	NM_001286032	101437.0	Mm.199223	NM_133941	ENSMUSG00000030986	Dhx32	3110079L04Rik|4732469F02Rik|AA408140|Ddx32|muDDX32	DEAH (Asp-Glu-Ala-His) box polypeptide 32	protein-coding	63.5	81.5	52.5	1448.0	186.5	74.5	81.0	75.5
Merged-chr14-79481653-4	chr14	79481546	79481746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018765)	promoter-TSS (NM_018765)	-378.0	NM_018765	22380.0	Mm.476813	NM_018765	ENSMUSG00000022023	Wbp4	AW545037|BB101031|FBP21	WW domain binding protein 4	protein-coding	121.0	168.5	126.0	1471.5	291.0	115.0	149.0	123.5
Merged-chr6-122892685-4	chr6	122892616	122892816	+	819.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18159.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	9.5	10.0	10.5	94.5	24.5	7.0	8.5	15.0
Merged-chr17-57017564-4	chr17	57017462	57017662	+	921.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6274.0	NM_133801	98053.0	Mm.24632	NM_133801	ENSMUSG00000002658	Gtf2f1	2810405L04Rik|C76800|RAP74	general transcription factor IIF, polypeptide 1	protein-coding	15.0	22.5	8.5	309.0	38.0	9.0	21.0	36.5
Merged-chr4-135353265-4	chr4	135353166	135353366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130477)	promoter-TSS (NM_001130477)	-52.0	NM_001130477	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	174.0	353.5	161.5	1763.0	463.0	243.5	207.0	182.5
Merged-chr5-52476418-4	chr5	52476326	52476526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4883.0	NM_001256059	100503884.0	Mm.332379	NM_001256059	ENSMUSG00000045790	Ccdc149	Gm447	coiled-coil domain containing 149	protein-coding	96.0	68.5	97.5	2061.5	177.5	65.5	93.0	70.0
Merged-chr6-128630646-1	chr6	128630546	128630746	+	595.333313	f0_balb.idr	Intergenic	Intergenic	-7712.0	NM_010737	17057.0	Mm.16729	NM_010737	ENSMUSG00000030361	Klrb1a	Ly55a|NKR-P1.7|NKR-P1A|NKRP12|Nkrp1-a|Nkrp1a|ly-55A	killer cell lectin-like receptor subfamily B member 1A	protein-coding	10.0	8.0	10.0	78.5	9.0	4.0	8.5	10.0
Merged-chr16-49800464-3	chr16	49800356	49800556	+	843.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55198.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	4.0	15.0	9.5	116.0	26.0	4.5	4.5	5.0
Merged-chr12-73054061-4	chr12	73053986	73054186	+	979.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7374.0	NM_009189	20471.0	Mm.4645	NM_009189	ENSMUSG00000051367	Six1	BB138287	sine oculis-related homeobox 1	protein-coding	28.0	34.5	14.5	566.5	32.0	10.0	17.5	18.5
Merged-chr1-75254447-4	chr1	75254343	75254543	+	945.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359281, intron 12 of 22)	intron (NM_001359281, intron 12 of 22)	9328.0	NM_001359281	19275.0	Mm.2902	NM_008985	ENSMUSG00000026204	Ptprn	IA-2|mIA-A|mKIAA4064	protein tyrosine phosphatase, receptor type, N	protein-coding	19.0	30.5	22.0	289.5	55.0	14.0	24.5	15.0
Merged-chr18-67491025-4	chr18	67490946	67491146	+	951.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_176832, exon 14 of 14)	3' UTR (NM_176832, exon 14 of 14)	26197.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	19.0	17.5	36.5	715.5	35.5	11.5	15.0	20.0
Merged-chr9-95614154-4	chr9	95614022	95614222	+	828.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23506.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	20.0	16.0	15.5	249.0	20.0	9.0	9.5	16.0
Merged-chr15-66810248-4	chr15	66810142	66810342	+	846.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029841, intron 1 of 7)	intron (NM_001029841, intron 1 of 7)	21587.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	16.0	12.0	19.0	255.0	27.0	7.0	6.5	9.5
Merged-chr5-148739338-4	chr5	148739229	148739429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2511.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	34.0	42.0	37.0	324.0	241.0	97.5	126.0	94.0
Merged-chr5-150216262-4	chr5	150216172	150216372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43658.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	22.5	31.5	36.0	509.5	233.0	92.5	117.0	84.0
Merged-chr2-51972287-4	chr2	51972181	51972381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019401, intron 1 of 7)	intron (NM_019401, intron 1 of 7)	927.0	NM_001141949	64685.0	Mm.7491	NM_019401	ENSMUSG00000026946	Nmi	-	N-myc (and STAT) interactor	protein-coding	41.0	48.5	40.5	734.0	72.0	22.0	50.0	33.0
Merged-chr10-128091655-4	chr10	128091592	128091792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1091.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	21.0	53.5	31.0	254.0	85.5	42.5	39.5	35.5
Merged-chr15-59784439-4	chr15	59784347	59784547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10512.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	101.0	156.0	96.5	1334.5	232.5	85.5	99.0	109.0
Merged-chr2-27728144-4	chr2	27728035	27728235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	17552.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	35.5	72.5	55.0	559.5	178.5	47.0	55.5	30.5
Merged-chr8-14643246-4	chr8	14643133	14643333	+	983.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	MTE2a|LTR|ERVL-MaLR	-245303.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	13.0	24.0	18.5	266.5	103.5	32.5	25.5	44.0
Merged-chr18-26015376-4	chr18	26015275	26015475	+	965.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-261218.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	37.0	36.5	43.0	629.5	27.0	18.5	19.0	13.5
Merged-chr11-31734305-4	chr11	31734175	31734375	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62413.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	26.0	19.5	38.5	741.5	38.0	17.0	11.0	23.0
Merged-chr16-13866861-4	chr16	13866760	13866960	+	949.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039533, intron 8 of 22)	intron (NM_001039533, intron 8 of 22)	36285.0	NM_001039533	94184.0	Mm.171484	NM_053181	ENSMUSG00000022680	Pdxdc1	2210010A19Rik|AA415817|Kiaa0251-hp	pyridoxal-dependent decarboxylase domain containing 1	protein-coding	17.0	16.0	24.0	324.0	28.5	13.5	24.5	19.5
Merged-chr15-64186885-4	chr15	64186798	64186998	+	889.095825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	125775.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	9.5	18.0	42.5	418.5	25.0	6.5	20.5	16.5
Merged-chr16-85114098-4	chr16	85114000	85114200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 2 of 15)	MLT1A|LTR|ERVL-MaLR	59607.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	101.0	134.5	115.0	1686.5	187.5	75.5	125.0	91.5
Merged-chr8-104176111-4	chr8	104176030	104176230	+	975.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141925, intron 1 of 4)	intron (NM_001141925, intron 1 of 4)	5617.0	NM_001141925	65115.0	Mm.41849	NM_001141922	ENSMUSG00000031872	Bean1	Bean	brain expressed, associated with Nedd4, 1	protein-coding	12.5	51.5	15.0	320.5	37.5	17.5	26.0	19.0
Merged-chr18-31609846-5	chr18	31609654	31609854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026165, exon 1 of 8)	exon (NM_026165, exon 1 of 8)	176.0	NM_026165	67453.0	Mm.23896	NM_026165	ENSMUSG00000024259	Slc25a46	1200007B05Rik|AI325987	solute carrier family 25, member 46	protein-coding	47.5	49.5	82.5	524.5	70.0	61.0	43.0	58.5
Merged-chr9-103345745-4	chr9	103345655	103345855	+	946.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176979, exon 25 of 28)	exon (NM_176979, exon 25 of 28)	19224.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	4.0	9.5	11.5	179.0	40.0	14.0	15.5	15.0
Merged-chr19-34607875-4	chr19	34607795	34607995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005858)	promoter-TSS (NM_001005858)	-62.0	NM_001005858	667370.0	Mm.271850	NM_001005858	ENSMUSG00000062488	Ifit3b	I830012O16Rik	interferon-induced protein with tetratricopeptide repeats 3B	protein-coding	48.5	54.0	40.5	414.5	151.0	66.0	39.0	34.5
Merged-chr6-90538080-3	chr6	90537996	90538196	+	897.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12697.0	NM_001356412	107747.0	Mm.30035	NM_027406	ENSMUSG00000030088	Aldh1l1	1810048F20Rik|FDH|Fthfd|Neut2	aldehyde dehydrogenase 1 family, member L1	protein-coding	11.5	7.0	13.5	117.0	17.0	3.0	12.5	5.5
Merged-chr7-116625598-4	chr7	116625471	116625671	+	974.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	121202.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	16.5	45.5	36.0	580.5	43.5	11.5	17.5	22.5
Merged-chr11-5444414-3	chr11	5444301	5444501	+	873.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001080924, exon 1 of 9)	exon (NM_001080924, exon 1 of 9)	446.0	NM_001080924	407821.0	Mm.216313	NM_001080924	ENSMUSG00000041961	Znrf3	Gm1167	zinc and ring finger 3	protein-coding	20.5	8.0	8.0	150.5	22.5	19.0	6.5	7.5
Merged-chr15-9748050-3	chr15	9747940	9748140	+	670.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305042, intron 1 of 36)	intron (NM_001305042, intron 1 of 36)	828.0	NM_177123	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	4.5	10.5	8.0	158.0	23.0	5.0	4.5	13.0
Merged-chr15-7137105-4	chr15	7137030	7137230	+	905.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113386, intron 2 of 16)	intron (NM_001113386, intron 2 of 16)	-3412.0	NM_013584	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	8.0	19.5	4.0	324.5	37.0	10.5	11.0	15.0
Merged-chr13-55212572-2	chr13	55212472	55212672	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008739, intron 1 of 22)	CpG	2790.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	13.5	9.0	17.0	87.5	29.0	6.5	7.5	11.5
Merged-chr12-32735461-4	chr12	32735349	32735549	+	972.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	FordPrefect|DNA|hAT-Tip100	-84886.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	26.0	12.0	24.0	441.0	46.0	8.5	26.0	15.5
Merged-chr11-31898758-4	chr11	31898666	31898866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290678, intron 2 of 7)	URR1A|DNA|hAT-Charlie	27826.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	47.5	91.0	57.5	804.0	119.5	38.5	40.5	56.5
Merged-chr14-122376818-4	chr14	122376718	122376918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029556, intron 4 of 7)	intron (NM_029556, intron 4 of 7)	74297.0	NR_033325	328479.0	Mm.86095	NR_033325	ENSMUSG00000064052	Gm5089	6530402A20|C030005G22Rik|EG328479	predicted gene 5089	ncRNA	32.0	38.5	36.5	730.0	94.0	31.5	56.0	46.0
Merged-chr11-69785017-4	chr11	69784913	69785113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029348)	TTS (NM_029348)	10924.0	NM_009601	11443.0	Mm.86425	NM_009601	ENSMUSG00000041189	Chrnb1	Achr-2|Acrb	cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)	protein-coding	48.0	64.0	34.5	735.5	85.0	29.5	42.0	28.0
Merged-chr6-48579494-4	chr6	48579337	48579537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42-int|LTR|ERVK	-6635.0	NM_001347167	71660.0	Mm.28231	NM_027852	ENSMUSG00000009281	Rarres2	0610007L05Rik|AI303516	retinoic acid receptor responder (tazarotene induced) 2	protein-coding	54.0	54.5	59.5	790.0	59.0	28.0	33.5	25.5
Merged-chr19-5925685-3	chr19	5925545	5925745	+	893.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026772)	promoter-TSS (NM_026772)	-829.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	7.5	10.5	7.5	61.5	31.5	8.0	7.0	3.0
Merged-chr17-80775391-4	chr17	80775297	80775497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA9|LINE|L1	-47372.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	93.0	149.0	108.5	1489.5	274.0	116.5	104.5	151.0
Merged-chr4-129031615-4	chr4	129031516	129031716	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26655.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	26.0	37.0	33.0	186.0	63.5	20.5	22.5	20.0
Merged-chr9-48388638-3	chr9	48388542	48388742	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172921, intron 2 of 8)	RLTR19D|LTR|ERVK	26601.0	NM_172921	244853.0	Mm.325522	NM_172921	ENSMUSG00000044229	Nxpe4	C130036J11|D930028F11Rik|Fam55d	neurexophilin and PC-esterase domain family, member 4	protein-coding	3.0	0.5	2.0	6.0	76.5	25.5	31.5	50.5
Merged-chr12-71007058-4	chr12	71006942	71007142	+	899.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045055, intron 3 of 3)	Lx8|LINE|L1	8781.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	12.0	22.0	13.5	243.5	19.5	2.0	16.5	11.0
Merged-chr7-19370192-3	chr7	19370071	19370271	+	823.266663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001010836, exon 4 of 13)	exon (NM_001010836, exon 4 of 13)	8955.0	NM_001010836	333654.0	Mm.333640	NM_001010836	ENSMUSG00000040734	Ppp1r13l	AV260376|IASPP|Nkip1|wa3	protein phosphatase 1, regulatory (inhibitor) subunit 13 like	protein-coding	7.5	12.5	9.0	44.0	20.5	13.0	10.0	11.5
Merged-chr13-22022470-3	chr13	22022371	22022571	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Ser-TCG|tRNA|tRNA	-12730.0	NM_019429	54373.0	Mm.32043	NM_019429	ENSMUSG00000006179	Prss16	AI448615|TSSP	protease, serine 16 (thymus)	protein-coding	24.5	37.0	20.5	287.0	12.0	13.5	11.0	9.5
Merged-chr1-172550707-4	chr1	172550610	172550810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040558)	promoter-TSS (NR_040558)	96.0	NR_040558	71319.0	Mm.123774	NR_040558	ENSMUSG00000085184	4933439K11Rik	-	RIKEN cDNA 4933439K11 gene	ncRNA	29.0	41.5	42.5	715.5	99.5	30.5	65.5	47.0
Merged-chr1-93101149-2	chr1	93101049	93101249	+	707.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001294149, intron 1 of 47)	intron (NM_001294149, intron 1 of 47)	725.0	NM_001294149	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	4.5	9.0	6.5	37.0	14.5	4.0	1.5	5.5
Merged-chr1-36573987-4	chr1	36573915	36574115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-15634.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	35.0	34.5	59.0	1136.0	83.5	25.5	51.5	46.0
Merged-chr5-120503163-2	chr5	120503063	120503263	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023625, intron 1 of 11)	intron (NM_023625, intron 1 of 11)	460.0	NM_023625	71772.0	Mm.100065	NM_023625	ENSMUSG00000029598	Plbd2	1300012G16Rik|AU019810|P76	phospholipase B domain containing 2	protein-coding	7.0	24.5	16.5	140.0	55.5	22.0	10.0	22.5
Merged-chr2-11333460-4	chr2	11333352	11333552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6037.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	56.5	50.5	59.0	1138.5	148.5	44.0	51.0	49.0
Merged-chr8-46868419-4	chr8	46868319	46868519	+	978.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-118468.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	28.5	32.5	19.0	305.0	34.5	13.0	17.0	20.0
Merged-chr1-180231833-4	chr1	180231735	180231935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128605, intron 7 of 10)	L1MB3|LINE|L1	14115.0	NM_011183	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	34.0	72.5	31.0	640.0	110.0	33.5	30.5	39.5
Merged-chr11-69575433-3	chr11	69575343	69575543	+	786.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144824, intron 3 of 9)	B3|SINE|B2	3881.0	NM_144824	216853.0	Mm.31586	NM_144824	ENSMUSG00000041346	Wrap53	BC021790|Wdr79	WD repeat containing, antisense to Trp53	protein-coding	8.5	5.5	5.0	67.0	14.5	5.0	3.0	4.5
Merged-chr8-35587832-4	chr8	35587743	35587943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081279)	promoter-TSS (NM_001081279)	45.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	41.5	42.0	52.0	650.5	85.0	41.5	52.5	31.0
Merged-chr12-24758520-4	chr12	24758400	24758600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50246.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	128.0	153.0	162.0	2605.0	161.0	45.0	124.5	67.0
Merged-chr9-78538765-4	chr9	78538616	78538816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172773, intron 10 of 10)	intron (NM_172773, intron 10 of 10)	49329.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	15.0	28.5	36.0	236.0	40.0	14.0	11.0	26.0
Merged-chr4-141993769-3	chr4	141993648	141993848	+	998.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 2 of 31)	intron (NM_177868, intron 2 of 31)	10756.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	19.5	13.0	19.5	165.0	21.0	5.5	12.5	9.5
Merged-chr3-123103420-4	chr3	123103322	123103522	+	852.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080451, intron 4 of 4)	intron (NM_080451, intron 4 of 4)	-68435.0	NM_001355462	59006.0	Mm.141157	NM_021503	ENSMUSG00000028116	Myoz2	1110012I24Rik|Fatz-2|Myozl2	myozenin 2	protein-coding	10.0	16.5	12.0	161.0	31.5	8.0	15.0	13.5
Merged-chr19-55862710-3	chr19	55862604	55862804	+	691.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-32617.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	4.5	10.0	4.5	130.0	10.5	2.0	4.0	12.0
Merged-chr10-8882718-2	chr10	8882618	8882818	+	999.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	3352.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.5	12.0	6.5	37.0	10.5	5.0	6.0	10.0
Merged-chr2-27075673-3	chr2	27075573	27075773	+	985.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3512.0	NM_025376	66139.0	Mm.330087	NM_025376	ENSMUSG00000009214	Mymk	1110002H13Rik|AI131587|Tmem8c|myomaker	myomaker, myoblast fusion factor	protein-coding	16.0	21.0	22.5	265.0	20.0	7.5	16.5	10.5
Merged-chr5-63831240-4	chr5	63831136	63831336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	18741.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	32.5	28.5	23.0	766.0	77.5	21.0	42.0	26.5
Merged-chr7-43346361-7	chr7	43346252	43346452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-4989.0	NM_001271019	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	32.5	23.0	51.0	601.0	46.5	24.5	29.5	32.5
Merged-chr2-90575245-4	chr2	90575124	90575324	+	941.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	MIRc|SINE|MIR	5423.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	17.0	17.0	8.0	173.5	25.5	13.5	12.0	18.5
Merged-chr6-17615975-4	chr6	17615891	17616091	+	827.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21019.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	7.0	13.5	14.0	47.0	35.5	13.0	13.0	10.0
Merged-chr6-113657163-3	chr6	113657047	113657247	+	897.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	18680.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	15.0	17.0	2.5	64.5	15.0	5.0	6.5	9.0
Merged-chr2-132048355-3	chr2	132048240	132048440	+	782.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-18352.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	9.0	8.0	3.0	112.5	18.5	5.5	8.0	8.5
Merged-chr9-51008630-4	chr9	51008520	51008720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 1 of 15)	CpG	453.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	50.0	69.0	47.5	477.0	98.5	31.0	40.0	60.5
Merged-chr12-85736418-2	chr12	85736318	85736518	+	732.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10121.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	1.0	6.0	1.0	80.0	11.0	4.5	7.0	6.5
Merged-chr15-97908305-4	chr15	97908150	97908350	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009504)	promoter-TSS (NM_009504)	46.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	18.5	16.0	29.0	195.5	49.5	18.0	19.0	14.0
Merged-chr6-29736204-4	chr6	29736075	29736275	+	885.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176996, exon 1 of 12)	exon (NM_176996, exon 1 of 12)	678.0	NM_176996	319757.0	Mm.29279	NM_176996	ENSMUSG00000001761	Smo	E130215L21Rik|Smoh|bnb|smoothened	smoothened, frizzled class receptor	protein-coding	17.0	27.5	29.5	326.5	34.5	11.5	20.5	13.0
Merged-chr16-91406277-4	chr16	91406164	91406364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008349)	promoter-TSS (NM_008349)	29.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	51.5	116.0	99.0	852.0	190.0	73.5	111.5	55.5
Merged-chr18-60732541-3	chr18	60732486	60732686	+	982.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	555.0	NM_001348102	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	10.5	6.0	9.5	178.5	12.5	5.0	0.0	7.0
Merged-chr7-44857258-4	chr7	44857150	44857350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290767)	promoter-TSS (NM_001290767)	104.0	NM_001290766	59047.0	Mm.238254	NM_021549	ENSMUSG00000002963	Pnkp	1810009G08Rik|PNK	polynucleotide kinase 3'- phosphatase	protein-coding	63.0	72.0	47.0	536.0	122.0	39.5	48.5	34.0
Merged-chr4-40148554-4	chr4	40148474	40148674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007386, intron 1 of 20)	intron (NM_007386, intron 1 of 20)	5309.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	114.0	150.0	115.0	2141.0	280.5	58.5	150.0	105.0
Merged-chr9-60602174-4	chr9	60602093	60602293	+	955.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311095, intron 12 of 15)	intron (NM_001311095, intron 12 of 15)	-56311.0	NR_040463	100504561.0	Mm.410770	NR_040463	ENSMUSG00000111761	9230112J17Rik	-	RIKEN cDNA 9230112J17 gene	ncRNA	22.0	28.0	21.5	360.5	29.0	15.0	13.0	20.5
Merged-chr10-19594569-5	chr10	19594424	19594624	+	863.176208	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010511, intron 1 of 6)	intron (NM_010511, intron 1 of 6)	2575.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	12.0	13.0	7.0	121.5	19.5	4.5	3.0	6.5
Merged-chr11-113865867-1	chr11	113865767	113865967	+	543.0	f0_balb.idr	intron (NM_172800, intron 12 of 44)	intron (NM_172800, intron 12 of 44)	-114052.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	6.0	9.5	5.5	92.0	9.0	4.0	3.5	2.5
Merged-chr2-18971762-4	chr2	18971633	18971833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	URR1B|DNA|hAT-Charlie	26388.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	20.0	19.0	24.0	269.0	43.0	27.5	22.5	42.5
Merged-chr12-91789480-3	chr12	91789377	91789577	+	904.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3041.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	10.0	19.5	5.5	189.5	16.5	5.0	12.0	6.5
Merged-chr2-83714958-4	chr2	83714872	83715072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9425.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	41.0	33.0	34.0	324.5	79.0	32.0	31.0	41.0
Merged-chr10-11149328-4	chr10	11149252	11149452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172937)	promoter-TSS (NM_172937)	-78.0	NM_001077707	268281.0	Mm.133101	NM_172937	ENSMUSG00000090112	Shprh	2610103K11Rik|AA450458|AU024614|BC006883|D230017O13Rik|E130018M05	SNF2 histone linker PHD RING helicase	protein-coding	355.0	501.0	307.0	5080.5	905.0	340.0	435.0	284.5
Merged-chr4-86857381-4	chr4	86857263	86857463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009096)	promoter-TSS (NM_009096)	4.0	NM_009096	20104.0	Mm.379007	NM_009096	ENSMUSG00000028495	Rps6	S6R	ribosomal protein S6	protein-coding	185.5	279.0	143.5	2354.5	424.5	176.0	204.0	211.5
Merged-chr10-44527740-3	chr10	44527645	44527845	+	824.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68997.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	5.0	13.5	3.0	88.5	27.0	6.5	9.0	14.5
Merged-chr18-15195263-2	chr18	15195163	15195363	+	751.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43817.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	2.5	2.0	2.5	57.5	8.5	5.0	6.5	6.0
Merged-chr11-76562330-4	chr11	76562210	76562410	+	964.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198894, intron 1 of 22)	intron (NM_198894, intron 1 of 22)	9074.0	NM_198895	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	21.0	21.5	26.0	199.0	34.0	17.0	6.0	14.0
Merged-chr8-46931401-4	chr8	46931306	46931506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3G|LINE|L1	-55481.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	71.0	115.0	91.5	1255.5	154.5	50.5	65.5	63.5
Merged-chr3-116184102-3	chr3	116183987	116184187	+	913.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54399.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	13.5	8.5	12.0	124.0	8.5	1.5	7.0	2.5
Merged-chr4-136179619-3	chr4	136179475	136179675	+	805.416687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177733, intron 2 of 6)	intron (NM_177733, intron 2 of 6)	-1207.0	NM_001305399	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	0.0	0.0	1.0	0.0	36.0	9.0	6.5	10.5
Merged-chr9-107613402-1	chr9	107613302	107613502	+	642.333313	f1_c57bl6.idr	TTS (NM_008138)	TTS (NM_008138)	-4161.0	NM_001291539	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	4.5	4.5	3.0	61.5	9.0	4.5	5.5	11.0
Merged-chr11-76889699-4	chr11	76889604	76889804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-14841.0	NM_025655	66601.0	Mm.25138	NM_025655	ENSMUSG00000020839	Tmigd1	2010002A20Rik|Tmigd	transmembrane and immunoglobulin domain containing 1	protein-coding	62.0	63.5	42.0	571.5	79.0	44.5	38.0	29.5
Merged-chr6-82996938-4	chr6	82996872	82997072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 4 of 9)	intron (NM_033079, intron 4 of 9)	36499.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	105.5	205.0	150.5	1581.0	376.0	160.0	148.5	170.5
Merged-chr18-4922830-4	chr18	4922730	4922930	+	787.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110344.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	11.5	14.5	15.5	83.0	22.5	9.5	9.0	5.0
Merged-chr2-31061382-2	chr2	31061282	31061482	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	35118.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	10.0	25.0	29.5	221.5	27.0	13.5	10.5	11.5
Merged-chr8-71464802-4	chr8	71464712	71464912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053162)	promoter-TSS (NM_053162)	-114.0	NM_053162	94065.0	Mm.29489	NM_053162	ENSMUSG00000034880	Mrpl34	0610007O17Rik|D8Bwg1484e	mitochondrial ribosomal protein L34	protein-coding	227.0	330.0	231.5	2490.0	517.5	227.0	193.5	217.0
Merged-chr7-136381035-4	chr7	136380923	136381123	+	853.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31608.0	NR_040459	330664.0	Mm.127762	NR_040459	ENSMUSG00000109633	C230079O03Rik	C230079O03	RIKEN cDNA C230079O03 gene	ncRNA	0.0	9.5	11.0	144.5	39.5	11.0	8.5	14.5
Merged-chr13-107027422-3	chr13	107027312	107027512	+	775.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015471, intron 2 of 3)	ORR1E|LTR|ERVL-MaLR	4842.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	12.5	22.5	15.5	226.0	10.0	5.0	5.5	12.5
Merged-chr14-79494419-4	chr14	79494323	79494523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	intron (NM_007920, intron 1 of 8)	-13155.0	NM_018765	22380.0	Mm.476813	NM_018765	ENSMUSG00000022023	Wbp4	AW545037|BB101031|FBP21	WW domain binding protein 4	protein-coding	27.0	58.0	22.0	228.5	73.5	24.5	30.0	26.0
Merged-chr15-59653899-3	chr15	59653762	59653962	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144549, intron 2 of 2)	intron (NM_144549, intron 2 of 2)	5208.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	4.5	17.0	4.5	37.5	6.0	3.0	1.5	5.5
Merged-chr19-29101315-4	chr19	29101218	29101418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021525)	promoter-TSS (NM_021525)	-57.0	NM_021525	59028.0	Mm.28630	NM_021525	ENSMUSG00000024785	Rcl1	2310040A02Rik|AI789745|C76567|RPCL1|Rnac	RNA terminal phosphate cyclase-like 1	protein-coding	331.0	424.5	387.5	5828.5	667.5	209.5	429.5	244.0
Merged-chr11-61866507-3	chr11	61866415	61866615	+	876.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11423.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	14.0	7.0	9.0	138.5	13.5	7.5	8.0	11.0
Merged-chr3-96273741-3	chr3	96273624	96273824	+	993.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4024.0	NM_175666	319189.0	Mm.297655	NM_175666	ENSMUSG00000105827	Hist2h2bb	H2b-616	histone cluster 2, H2bb	protein-coding	14.0	22.0	16.0	337.0	7.5	0.5	0.0	2.0
Merged-chr7-126099188-4	chr7	126099120	126099320	+	868.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16809.0	NM_001358885	269994.0	Mm.39599	NM_001101488	ENSMUSG00000046182	Gsg1l	AI852434|C230098I05Rik|G630023A01Rik|Gm637|g1l	GSG1-like	protein-coding	5.5	5.0	18.0	143.0	20.0	8.5	3.5	14.5
Merged-chr1-138288943-4	chr1	138288843	138289043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177397, exon 3 of 3)	3' UTR (NM_177397, exon 3 of 3)	15205.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	24.0	79.0	43.0	893.0	56.5	17.5	35.5	39.0
Merged-chr18-61092095-2	chr18	61091995	61092195	+	799.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13477.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	4.5	5.0	5.5	74.5	11.0	0.0	4.5	8.0
Merged-chr9-78177056-4	chr9	78176993	78177193	+	896.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040401, exon 3 of 4)	non-coding (NR_040401, exon 3 of 4)	1179.0	NR_040401	320295.0	Mm.131285	NR_040401	ENSMUSG00000097574	C920006O11Rik	-	RIKEN cDNA C920006O11 gene	ncRNA	27.5	50.5	24.0	159.0	21.5	7.5	5.5	9.0
Merged-chr13-83731351-1	chr13	83731251	83731451	+	544.0	f1_c57bl6.idr	intron (NR_152244, intron 2 of 4)	CpG	-1142.0	NR_152246	320203.0	Mm.245636	NM_177100	ENSMUSG00000050334	C130071C03Rik	2810449C10Rik|ECONEXIN|EyeLinc1|Visc-1	RIKEN cDNA C130071C03 gene	ncRNA	4.5	9.5	6.0	27.0	3.5	2.5	2.0	1.0
Merged-chr4-137994205-3	chr4	137994086	137994286	+	861.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 2 of 34)	CpG-10542	730.0	NM_172703	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	6.0	8.0	12.0	48.5	17.5	9.0	3.5	8.5
Merged-chr2-136892122-4	chr2	136892024	136892224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141946)	promoter-TSS (NM_001141946)	-44.0	NM_028834	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	179.5	224.0	169.0	2562.5	574.0	154.0	254.5	185.0
Merged-chr17-80131622-3	chr17	80131510	80131710	+	913.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 1 of 6)	intron (NM_176963, intron 1 of 6)	4139.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	8.5	2.5	4.5	147.5	16.5	5.0	6.0	7.0
Merged-chr4-119663198-4	chr4	119663100	119663300	+	909.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-4255.0	NM_008191	14916.0	Mm.278	NM_008191	ENSMUSG00000032978	Guca2b	AV066530|Gcap2|Ugn	guanylate cyclase activator 2b (retina)	protein-coding	25.5	60.5	32.5	452.0	22.5	10.0	29.5	12.5
Merged-chr3-89354990-4	chr3	89354895	89355095	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029974, intron 9 of 15)	MamRep564|Unknown|Unknown	-4967.0	NM_009614	11490.0	Mm.274049	NM_009614	ENSMUSG00000028041	Adam15	AD56|MDC15	a disintegrin and metallopeptidase domain 15 (metargidin)	protein-coding	9.0	21.0	6.5	119.0	32.0	15.5	11.5	6.5
Merged-chr2-170324312-4	chr2	170324264	170324464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31997.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	12.0	20.0	23.5	243.0	66.0	29.5	25.0	40.5
Merged-chr4-154025992-4	chr4	154025886	154026086	+	976.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163722)	promoter-TSS (NM_001163722)	58.0	NM_001163722	68859.0	Mm.477488	NM_001033144	ENSMUSG00000078350	Smim1	0610011H04Rik|1190007F08Rik|2700009I11Rik	small integral membrane protein 1	protein-coding	17.0	14.0	11.0	280.0	29.5	14.0	16.5	18.0
Merged-chr11-90235417-4	chr11	90235319	90235519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14057.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	60.5	87.5	74.5	951.5	143.0	54.0	44.5	58.5
Merged-chr18-88772957-3	chr18	88772857	88773057	+	810.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121250.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	8.0	8.5	8.5	127.0	18.0	5.5	7.0	13.5
Merged-chr7-65371203-1	chr7	65371103	65371303	+	729.0	f0_balb.idr	promoter-TSS (NM_001163574)	promoter-TSS (NM_001163574)	41.0	NM_001163574	21872.0	Mm.4342	NM_009386	ENSMUSG00000030516	Tjp1	ZO1	tight junction protein 1	protein-coding	10.0	13.0	7.0	145.0	13.5	3.5	5.5	9.0
Merged-chr19-4000757-2	chr19	4000657	4000857	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_025529, exon 1 of 4)	exon (NM_025529, exon 1 of 4)	177.0	NM_025529	66387.0	Mm.259222	NM_025529	ENSMUSG00000110949	Nudt8	2310039H17Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 8	protein-coding	24.5	40.0	27.0	280.5	45.0	14.5	21.5	21.5
Merged-chr3-131642987-5	chr3	131642859	131643059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289479, intron 13 of 13)	intron (NM_001289479, intron 13 of 13)	76927.0	NM_001289477	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	37.5	64.0	73.0	584.0	113.0	47.0	53.5	33.5
Merged-chr7-101386104-4	chr7	101386055	101386255	+	920.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027180, exon 2 of 30)	exon (NM_027180, exon 2 of 30)	629.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	11.5	34.0	32.5	207.5	23.5	4.5	8.0	9.0
Merged-chr4-41708531-3	chr4	41708434	41708634	+	812.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4983.0	NM_027278	69961.0	Mm.425182	NM_027278	ENSMUSG00000036114	Rpp25l	2810432D09Rik|AW987258|Rppl25	ribonuclease P/MRP 25 subunit-like	protein-coding	1.5	10.5	4.5	73.0	12.0	6.5	9.5	6.0
Merged-chr14-30550032-4	chr14	30549907	30550107	+	972.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009388, intron 1 of 13)	intron (NM_009388, intron 1 of 13)	876.0	NM_009388	21881.0	Mm.290692	NM_009388	ENSMUSG00000021957	Tkt	p68	transketolase	protein-coding	13.5	20.0	35.0	310.0	31.0	2.5	11.0	23.0
Merged-chr11-95842274-4	chr11	95842215	95842415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284397)	promoter-TSS (NM_001284397)	20.0	NM_001284393	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	59.5	100.5	53.0	737.0	119.5	40.5	44.0	31.0
Merged-chr2-165960042-4	chr2	165959998	165960198	+	759.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32539.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	5.5	5.0	3.0	94.5	21.0	5.0	7.5	11.0
Merged-chr10-78476972-4	chr10	78476890	78477090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12042.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	59.0	71.5	59.0	1103.0	155.0	52.0	57.5	53.0
Merged-chr3-22077443-4	chr3	22077336	22077536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	784.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	67.0	82.0	62.5	827.0	132.0	62.0	37.0	82.5
Merged-chr16-16560297-3	chr16	16560197	16560397	+	926.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139232)	promoter-TSS (NM_139232)	-78.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	9.0	17.5	8.0	141.5	9.0	4.5	2.0	3.5
Merged-chr11-23821126-4	chr11	23821034	23821234	+	941.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50164.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	24.5	30.0	23.0	360.0	32.0	10.5	21.0	8.5
Merged-chr7-19822783-4	chr7	19822682	19822882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033601)	promoter-TSS (NM_033601)	-27.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	56.0	145.5	70.5	840.0	209.0	69.5	68.5	39.0
Merged-chr15-24589226-4	chr15	24589101	24589301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	824563.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	162.5	213.5	149.5	2675.0	343.5	130.5	122.5	106.5
Merged-chr13-23769219-4	chr13	23769130	23769330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5562.0	NM_030609	80838.0	Mm.480242	NM_030609	ENSMUSG00000049539	Hist1h1a	H1.1|H1a|H1f1|H1var3	histone cluster 1, H1a	protein-coding	45.0	42.0	21.5	636.5	76.5	27.5	47.5	50.0
Merged-chr8-109751890-2	chr8	109751790	109751990	+	710.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14151.0	NM_001080930	52335.0	Mm.276770	NM_001080930	ENSMUSG00000069895	Atxn1l	AW558552|Boat|C330011L24Rik|D6Mgi37|D8Ertd587e	ataxin 1-like	protein-coding	8.5	6.0	0.5	28.0	6.5	5.0	13.0	5.0
Merged-chr6-87533808-3	chr6	87533699	87533899	+	715.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286610)	promoter-TSS (NM_001286610)	-540.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	6.5	5.0	9.0	76.5	6.0	2.5	4.0	9.0
Merged-chr18-88911070-3	chr18	88910966	88911166	+	791.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16859.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	10.0	14.0	6.0	91.5	5.5	1.0	2.0	1.0
Merged-chr15-41788837-4	chr15	41788794	41788994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130885)	promoter-TSS (NM_130885)	-101.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	63.0	76.0	100.5	716.0	128.0	70.0	80.0	70.0
Merged-chr3-27202945-4	chr3	27202859	27203059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	19955.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	71.0	74.0	60.0	1205.0	197.0	50.0	82.5	78.0
Merged-chr4-150508865-3	chr4	150508769	150508969	+	953.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085492, exon 9 of 23)	exon (NM_001085492, exon 9 of 23)	143305.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	15.5	24.5	12.0	286.5	45.0	13.5	14.0	11.0
Merged-chr1-181861072-7	chr1	181860976	181861176	+	907.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18675.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	12.5	20.5	15.5	236.5	60.0	21.5	20.5	32.0
Merged-chr3-57847294-9	chr3	57847163	57847363	+	958.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019410, intron 1 of 2)	CpG	494.0	NM_019410	18645.0	Mm.271744	NM_019410	ENSMUSG00000027805	Pfn2	Pfn	profilin 2	protein-coding	6.5	20.5	14.5	142.0	17.5	17.5	11.0	7.0
Merged-chr8-80753507-4	chr8	80753412	80753612	+	840.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14053.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	8.0	21.0	10.5	126.5	33.0	10.0	8.5	8.0
Merged-chr14-51069818-2	chr14	51069718	51069918	+	942.958374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_207558)	TTS (NM_207558)	1624.0	NM_207558	404319.0	Mm.377276	NM_207558	ENSMUSG00000035932	Olfr750	GA_x5J8B7W5WBF-6267395-6266441|GA_x6K02T2PMLR-6808276-6807281|MOR103-18	olfactory receptor 750	protein-coding	7.0	7.5	3.5	79.5	17.0	11.0	9.0	9.0
Merged-chr1-35810748-4	chr1	35810639	35810839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-257661.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	45.5	102.5	61.0	911.5	149.5	40.5	66.0	56.5
Merged-chr5-120515440-4	chr5	120515329	120515529	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	RSINE1|SINE|B4	4237.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	13.5	29.5	18.5	308.0	69.0	17.5	15.0	11.5
Merged-chr15-64102126-3	chr15	64102052	64102252	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 25 of 28)	intron (NM_001276461, intron 25 of 28)	-41704.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	44.5	59.5	48.0	657.5	9.0	6.0	5.0	8.5
Merged-chr16-30512154-4	chr16	30512057	30512257	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172614, exon 10 of 10)	3' UTR (NM_172614, exon 10 of 10)	38421.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	24.5	29.5	21.0	442.0	69.0	26.0	26.0	22.5
Merged-chr17-83640795-4	chr17	83640701	83640901	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8906.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	29.5	33.5	43.0	758.5	73.0	19.0	57.5	46.5
Merged-chr17-50025322-4	chr17	50025258	50025458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 7 of 9)	intron (NM_181397, intron 7 of 9)	165139.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	85.5	101.0	40.5	1146.5	162.5	51.5	69.5	75.5
Merged-chr10-98897724-4	chr10	98897616	98897816	+	975.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16926.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	21.5	17.5	19.5	348.0	45.5	9.5	17.5	27.0
Merged-chr17-28738145-4	chr17	28738048	28738248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168513, intron 9 of 11)	intron (NM_001168513, intron 9 of 11)	-31169.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	73.5	83.5	52.0	686.5	131.5	68.5	72.0	40.0
Merged-chr4-75278316-4	chr4	75278204	75278404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025849)	promoter-TSS (NM_025849)	-12.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	186.0	309.5	165.0	3781.0	607.5	253.5	180.0	232.5
Merged-chr10-80578583-4	chr10	80578515	80578715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1319.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	38.0	40.0	30.5	369.5	113.5	34.5	41.0	41.5
Merged-chr2-144213968-4	chr2	144213863	144214063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-24673.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	132.5	197.0	144.0	2039.0	342.5	124.5	165.0	124.0
Merged-chr2-31761861-4	chr2	31761751	31761951	+	968.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283045, intron 1 of 10)	intron (NM_001283045, intron 1 of 10)	1678.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	38.0	58.5	34.0	384.0	46.0	13.5	15.0	11.0
Merged-chr4-35096260-4	chr4	35096182	35096382	+	913.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-55773.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	20.0	28.5	24.0	469.0	18.0	10.0	8.5	13.0
Merged-chr16-56028678-4	chr16	56028614	56028814	+	884.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356449, intron 1 of 5)	intron (NM_001356449, intron 1 of 5)	1003.0	NM_001356449	76302.0	Mm.310642	NM_001024622	ENSMUSG00000071533	Pcnp	1110018D06Rik|AI647035	PEST proteolytic signal containing nuclear protein	protein-coding	5.0	10.5	7.0	73.5	18.0	12.5	12.0	17.5
Merged-chr17-36257693-7	chr17	36257583	36257783	+	857.119019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026308, exon 2 of 5)	exon (NM_026308, exon 2 of 5)	163.0	NM_026308	67676.0	Mm.27131	NM_026308	ENSMUSG00000024446	Rpp21	0610037N01Rik	ribonuclease P 21 subunit	protein-coding	11.0	9.5	8.5	100.5	21.5	2.5	4.5	12.0
Merged-chr17-46751613-4	chr17	46751515	46751715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028065, intron 1 of 5)	intron (NM_028065, intron 1 of 5)	599.0	NM_001305989	72029.0	Mm.240325	NM_028065	ENSMUSG00000023973	Cnpy3	1600025D17Rik|2410050O22Rik|AI413153|CAG4A|ERDA5|PRAT4A|Tnrc5	canopy FGF signaling regulator 3	protein-coding	74.0	122.0	46.5	1453.0	200.0	57.5	77.5	81.0
Merged-chr7-67524241-3	chr7	67524138	67524338	+	775.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028144, intron 8 of 8)	intron (NR_028144, intron 8 of 8)	120998.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	9.0	20.5	16.5	164.5	7.5	3.0	3.0	10.5
Merged-chr4-35223208-4	chr4	35223108	35223308	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	intron (NM_001081343, intron 1 of 10)	2672.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	14.5	46.5	22.0	79.0	70.0	14.0	17.5	12.5
Merged-chr8-14824655-3	chr8	14824559	14824759	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 11 of 15)	intron (NM_172910, intron 11 of 15)	-63877.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	2.0	0.0	7.0	51.5	70.5	20.5	33.5	23.5
Merged-chr10-81257401-4	chr10	81257253	81257453	+	952.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285854)	promoter-TSS (NM_001285854)	54.0	NM_001285853	17179.0	Mm.2918	NM_010768	ENSMUSG00000004933	Matk	CHK|HYL|Ntk|p56ntk	megakaryocyte-associated tyrosine kinase	protein-coding	7.0	15.0	16.5	106.5	40.5	5.5	10.0	16.5
Merged-chr13-113875925-4	chr13	113875827	113876027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	81419.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	19.0	24.5	35.0	785.5	74.0	24.0	32.5	47.5
Merged-chr15-79357177-4	chr15	79357087	79357287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304832, intron 2 of 2)	intron (NM_001304832, intron 2 of 2)	8785.0	NM_001304832	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	73.5	193.0	31.5	565.5	369.5	142.0	124.0	77.0
Merged-chr5-127616938-2	chr5	127616838	127617038	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_133895, exon 1 of 8)	exon (NM_133895, exon 1 of 8)	454.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	24.5	32.0	26.0	230.5	54.0	23.0	33.0	27.0
Merged-chr10-120882546-4	chr10	120882451	120882651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 1 of 6)	intron (NM_177092, intron 1 of 6)	16420.0	NM_177092	320183.0	Mm.169755	NM_177092	ENSMUSG00000051236	Msrb3	D430026P16Rik|I-8-23|MsrB2	methionine sulfoxide reductase B3	protein-coding	36.5	68.0	37.0	894.5	58.5	18.0	29.0	39.0
Merged-chr5-137741447-6	chr5	137741294	137741494	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347505)	promoter-TSS (NM_001347505)	-226.0	NM_001347505	243300.0	Mm.74750	NM_175521	ENSMUSG00000045348	Nyap1	6430598A04Rik	neuronal tyrosine-phosphorylated phosphoinositide 3-kinase adaptor 1	protein-coding	17.5	14.5	8.5	133.0	38.5	10.0	13.5	13.0
Merged-chr9-42897616-4	chr9	42897546	42897746	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175481, intron 1 of 20)	CpG	46725.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	20.0	20.0	21.5	223.0	30.5	10.5	12.0	21.0
Merged-chr2-91328699-4	chr2	91328544	91328744	+	916.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 3 of 8)	intron (NM_175123, intron 3 of 8)	63529.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	9.5	14.0	7.0	223.5	22.0	10.5	14.0	11.0
Merged-chr7-60004372-4	chr7	60004232	60004432	+	827.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082962, intron 2 of 10)	intron (NM_001082962, intron 2 of 10)	867.0	NM_001349694	20646.0	Mm.274995	NM_013670	ENSMUSG00000102252	Snrpn	2410045I01Rik|HCERN3|Peg4|SMN|sm-D|snRNP-N	small nuclear ribonucleoprotein N	protein-coding	14.5	4.5	4.0	182.5	14.5	10.0	7.0	17.0
Merged-chr19-59024791-4	chr19	59024692	59024892	+	695.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 8 of 16)	ID_B1|SINE|B4	51277.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	8.0	6.5	6.5	178.0	27.0	7.5	4.5	7.0
Merged-chr3-133582163-4	chr3	133582094	133582294	+	914.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37804.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	9.0	16.5	5.0	149.5	36.0	9.0	9.0	10.5
Merged-chr1-131911449-1	chr1	131911349	131911549	+	1000.0	f0_c57.idr	intron (NM_001145804, intron 1 of 6)	intron (NM_001145804, intron 1 of 6)	991.0	NM_175294	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	21.0	17.5	21.0	251.5	66.0	27.0	28.0	22.5
Merged-chr1-127975774-4	chr1	127975662	127975862	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 13 of 20)	intron (NM_001285945, intron 13 of 20)	106989.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	29.5	19.5	28.5	400.0	50.0	24.5	28.0	34.5
Merged-chr1-85988510-4	chr1	85988405	85988605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27450.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	63.0	84.5	65.5	582.0	162.5	89.0	98.0	88.5
Merged-chr6-125082004-4	chr6	125081891	125082091	+	820.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163269, exon 2 of 2)	exon (NM_001163269, exon 2 of 2)	10714.0	NM_001163268	381810.0	Mm.333386	NM_001163268	ENSMUSG00000067714	Lpar5	GPR93|Gm1072|Gpr92|LPA5	lysophosphatidic acid receptor 5	protein-coding	13.5	12.0	6.0	96.0	22.0	11.5	14.0	15.5
Merged-chr10-59967375-4	chr10	59967279	59967479	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15609.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	49.5	20.5	71.5	775.5	71.0	15.0	48.5	31.5
Merged-chr7-4877023-4	chr7	4876923	4877123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101598)	promoter-TSS (NM_001101598)	-30.0	NM_001101598	664994.0	Mm.302624	NM_001101598	ENSMUSG00000086784	Isoc2a	Isoc2	isochorismatase domain containing 2a	protein-coding	213.0	328.5	195.5	3293.0	562.5	220.0	246.0	170.5
Merged-chr9-111295565-3	chr9	111295471	111295671	+	868.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-16168.0	NM_001164659	320429.0	Mm.270754	NM_001164659	ENSMUSG00000062296	Trank1	A230061D21Rik|C030048J01Rik|Gm187|Lba1	tetratricopeptide repeat and ankyrin repeat containing 1	protein-coding	4.5	5.5	3.5	35.0	22.0	12.0	17.5	10.5
Merged-chr10-118868613-2	chr10	118868500	118868700	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001014390, intron 1 of 2)	CpG-1533	303.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	37.5	72.5	39.0	384.0	140.0	88.5	57.0	30.5
Merged-chr13-37964770-4	chr13	37964637	37964837	+	920.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29471.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	14.5	19.5	15.5	200.5	45.5	12.0	14.0	14.5
Merged-chr4-120016898-4	chr4	120016792	120016992	+	943.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-144314.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	14.5	17.0	12.0	239.5	41.0	13.0	19.5	16.0
Merged-chr5-113908852-4	chr5	113908761	113908961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011779)	promoter-TSS (NM_011779)	-155.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	185.0	252.5	136.0	1819.5	443.5	161.5	214.5	150.0
Merged-chr9-46314676-4	chr9	46314581	46314781	+	693.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183104, intron 3 of 12)	intron (NM_183104, intron 3 of 12)	5305.0	NM_183104	74361.0	Mm.159169	NM_183104	ENSMUSG00000056617	4931429L15Rik	-	RIKEN cDNA 4931429L15 gene	protein-coding	7.5	10.0	1.5	78.0	28.5	4.5	5.5	13.0
Merged-chr4-142023412-4	chr4	142023338	142023538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131014, intron 1 of 1)	intron (NR_131014, intron 1 of 1)	5540.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	24.0	33.5	32.5	378.5	63.5	22.0	27.0	42.0
Merged-chr4-145156181-3	chr4	145156084	145156284	+	682.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001276502, exon 18 of 69)	exon (NM_001276502, exon 18 of 69)	34482.0	NM_001276502	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	5.0	12.5	2.5	95.0	24.5	5.0	8.0	11.5
Merged-chr12-72976880-2	chr12	72976780	72976980	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36998.0	NM_011384	20476.0	Mm.57138	NM_011384	ENSMUSG00000021099	Six6	Optx2|Six9	sine oculis-related homeobox 6	protein-coding	3.5	5.5	2.0	119.5	12.5	6.0	10.5	9.5
Merged-chr17-81706777-4	chr17	81706677	81706877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	31610.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	18.5	33.0	30.5	361.5	89.0	44.5	20.0	29.0
Merged-chr18-36530045-3	chr18	36529913	36530113	+	843.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271546, exon 5 of 22)	exon (NM_001271546, exon 5 of 22)	1861.0	NM_001271545	240215.0	Mm.135463	NM_172830	ENSMUSG00000024485	Slc4a9	AE4|D630003B07|D630024F24Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 9	protein-coding	7.0	12.5	13.0	76.5	12.0	6.0	12.0	9.0
Merged-chr1-173420520-4	chr1	173420430	173420630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013779)	promoter-TSS (NM_001013779)	-74.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	98.0	163.5	56.0	1039.5	220.0	78.5	95.0	47.0
Merged-chr15-80134067-4	chr15	80133970	80134170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025609, intron 1 of 10)	intron (NM_025609, intron 1 of 10)	916.0	NM_025609	66513.0	Mm.288245	NM_025609	ENSMUSG00000022414	Tab1	2310012M03Rik|Map3k7ip1|b2b449Clo	TGF-beta activated kinase 1/MAP3K7 binding protein 1	protein-coding	30.0	48.5	24.0	495.5	68.0	26.5	27.5	31.0
Merged-chr11-19943990-2	chr11	19943890	19944090	+	580.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	19548.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	5.0	5.0	7.0	66.5	3.5	0.5	4.0	0.5
Merged-chr7-5062244-4	chr7	5062149	5062349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133671, exon 1 of 12)	5' UTR (NM_133671, exon 1 of 12)	106.0	NM_001205231	22185.0	Mm.360389	NM_133671	ENSMUSG00000030435	U2af2	65kDa	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2	protein-coding	78.0	178.5	110.0	1077.5	254.0	127.5	87.5	111.0
Merged-chr17-57198457-4	chr17	57198358	57198558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-4277.0	NM_019418	50930.0	Mm.483369	NM_019418	ENSMUSG00000005824	Tnfsf14	HVEM-L|HVEML|LIGHT|LTg|Ly113|Tnlg1d	tumor necrosis factor (ligand) superfamily, member 14	protein-coding	18.0	25.0	31.0	294.5	80.5	28.5	36.5	27.5
Merged-chr8-85071679-4	chr8	85071599	85071799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039514)	promoter-TSS (NM_001039514)	-58.0	NM_001039514	330817.0	Mm.193086	NM_201408	ENSMUSG00000060038	Dhps	Dhs	deoxyhypusine synthase	protein-coding	52.0	95.0	53.5	876.0	170.5	58.5	55.5	59.5
Merged-chr2-70990366-4	chr2	70990272	70990472	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 3 of 9)	intron (NM_145524, intron 3 of 9)	28002.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	23.5	31.0	27.0	551.5	77.0	11.5	31.5	43.0
Merged-chr18-90509508-4	chr18	90509412	90509612	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198295)	promoter-TSS (NM_198295)	-642.0	NM_198295	67988.0	Mm.268041	NM_198295	ENSMUSG00000024614	Tmx3	6430411B10Rik|A730024F05Rik|AV259382|Txndc10|mKIAA1830	thioredoxin-related transmembrane protein 3	protein-coding	12.5	12.5	18.0	199.0	32.0	20.0	10.5	19.5
Merged-chr10-99261521-1	chr10	99261421	99261621	+	1000.0	f0_c57.idr	Intergenic	CpG	-1710.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	27.0	36.0	22.5	325.5	84.5	25.5	36.0	17.5
Merged-chr15-97824133-4	chr15	97824038	97824238	+	895.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	7629.0	NM_019572	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	31.0	24.5	20.0	218.5	22.0	12.5	12.5	17.0
Merged-chr11-118148112-4	chr11	118148016	118148216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-18897.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	59.5	54.0	38.5	428.5	90.5	27.5	34.5	29.5
Merged-chr14-123837601-3	chr14	123837513	123837713	+	936.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145467, intron 3 of 10)	intron (NM_145467, intron 3 of 10)	-150022.0	NR_045479	69393.0	Mm.491348	NR_045479	ENSMUSG00000099994	1700024B18Rik	-	RIKEN cDNA 1700024B18 gene	ncRNA	12.5	11.0	20.0	332.5	23.0	4.5	7.0	10.0
Merged-chr14-77897370-3	chr14	77897268	77897468	+	997.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-6871.0	NM_178825	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	4.0	11.5	11.0	70.0	67.5	17.0	26.5	27.0
Merged-chr4-43672285-4	chr4	43672174	43672374	+	889.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355718, intron 1 of 11)	intron (NM_001355718, intron 1 of 11)	3303.0	NM_001355718	242409.0	Mm.171489	NM_001085508	ENSMUSG00000078716	Tmem8b	4930500O05Rik	transmembrane protein 8B	protein-coding	13.5	5.5	5.0	189.5	28.5	6.0	8.5	14.0
Merged-chr18-36296667-4	chr18	36296568	36296768	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3433.0	NM_001267796	109169.0	Mm.426423	NM_001267796	ENSMUSG00000110185	Igip	6330403M23Rik	IgA inducing protein	protein-coding	25.0	29.0	15.0	364.0	55.0	19.0	27.5	21.5
Merged-chr14-77905533-4	chr14	77905451	77905651	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 1 of 11)	intron (NM_029495, intron 1 of 11)	1312.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	11.5	5.5	11.5	150.5	86.5	18.0	20.5	19.5
Merged-chr6-136939609-3	chr6	136939501	136939701	+	843.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301303)	promoter-TSS (NM_001301303)	-74.0	NM_001301303	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	3.0	8.5	6.5	55.5	47.5	15.5	18.0	20.5
Merged-chr10-60407934-2	chr10	60407834	60408034	+	988.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 26 of 68)	intron (NM_001252635, intron 26 of 68)	8208.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	4.5	5.0	5.5	18.5	3.0	1.0	3.0	3.0
Merged-chr17-57078558-4	chr17	57078471	57078671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153551)	promoter-TSS (NM_153551)	-61.0	NM_153551	70785.0	Mm.284447	NM_153551	ENSMUSG00000002668	Dennd1c	4432409M07Rik	DENN/MADD domain containing 1C	protein-coding	48.5	121.5	53.5	994.5	147.0	67.5	93.5	80.0
Merged-chr16-55835976-4	chr16	55835893	55836093	+	962.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030612, intron 2 of 13)	intron (NM_030612, intron 2 of 13)	2648.0	NM_030612	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	18.5	26.0	16.5	80.5	76.5	23.0	16.0	13.0
Merged-chr18-67478716-4	chr18	67478606	67478806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144867, intron 6 of 6)	intron (NM_144867, intron 6 of 6)	13857.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	33.0	48.5	35.0	559.5	75.5	25.0	65.0	36.0
Merged-chr19-46641631-4	chr19	46641513	46641713	+	959.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177813, intron 1 of 3)	intron (NM_001177813, intron 1 of 3)	18212.0	NM_001177813	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	13.0	20.0	33.0	418.0	33.0	10.0	13.5	19.5
Merged-chr6-83317605-4	chr6	83317460	83317660	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008638)	promoter-TSS (NM_008638)	44.0	NM_008638	17768.0	Mm.443	NM_008638	ENSMUSG00000005667	Mthfd2	AW558851|NMDMC	methylenetetrahydrofolate dehydrogenase (NAD+ dependent), methenyltetrahydrofolate cyclohydrolase	protein-coding	20.0	48.5	14.0	284.5	68.0	33.0	29.5	27.0
Merged-chr6-122872990-4	chr6	122872870	122873070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1587.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	102.5	133.0	113.5	1361.0	204.0	97.0	95.0	68.5
Merged-chr10-37195205-4	chr10	37195111	37195311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56285.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	144.0	217.5	195.5	2654.0	296.0	101.5	152.0	134.0
Merged-chr1-186703703-4	chr1	186703610	186703810	+	973.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329107, intron 1 of 7)	intron (NM_001329107, intron 1 of 7)	2279.0	NM_009367	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	31.0	45.0	16.5	534.5	55.5	9.5	18.0	15.0
Merged-chr15-86220374-4	chr15	86220334	86220534	+	949.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 1 of 12)	intron (NM_145476, intron 1 of 12)	5975.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	5.0	10.0	14.5	387.0	17.5	13.5	16.5	22.5
Merged-chr11-4833189-4	chr11	4833068	4833268	+	916.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252253)	promoter-TSS (NM_001252253)	-33.0	NM_001252253	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	5.0	19.0	7.5	174.0	49.5	16.0	20.0	20.5
Merged-chr1-57977022-2	chr1	57976922	57977122	+	634.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6938.0	NM_001159865	51960.0	Mm.339711	NM_030211	ENSMUSG00000054770	Kctd18	4932411A20Rik|6530404F10Rik	potassium channel tetramerisation domain containing 18	protein-coding	4.5	7.0	16.5	93.0	17.5	6.0	3.0	3.5
Merged-chr11-115279929-3	chr11	115279813	115280013	+	970.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-2944.0	NM_007997	14149.0	Mm.4719	NM_007997	ENSMUSG00000018861	Fdxr	AR	ferredoxin reductase	protein-coding	0.0	2.0	1.0	0.0	69.5	17.5	33.5	29.5
Merged-chr5-144252341-4	chr5	144252233	144252433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163709, intron 1 of 2)	intron (NM_001163709, intron 1 of 2)	-2892.0	NM_018772	55950.0	Mm.38011	NM_018772	ENSMUSG00000047843	Bri3	I3	brain protein I3	protein-coding	147.0	149.5	110.5	1258.5	220.5	78.0	78.5	64.5
Merged-chr2-57116106-4	chr2	57116007	57116207	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 1 of 7)	intron (NM_001139509, intron 1 of 7)	-1069.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	14.0	20.0	13.5	231.0	31.0	7.0	19.0	16.5
Merged-chr17-87264142-10	chr17	87264022	87264222	+	764.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139295, intron 1 of 3)	intron (NM_139295, intron 1 of 3)	1825.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	6.0	12.5	15.0	144.0	16.0	7.0	9.5	9.5
Merged-chr14-70647312-2	chr14	70647214	70647414	+	774.666626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_181345)	TTS (NM_181345)	-5046.0	NM_008004	14171.0	Mm.12814	NM_008004	ENSMUSG00000022101	Fgf17	-	fibroblast growth factor 17	protein-coding	7.0	10.5	8.5	104.5	8.5	5.0	6.5	3.0
Merged-chr14-120832013-4	chr14	120831904	120832104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79190.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	43.0	71.5	50.5	732.0	130.0	51.5	80.5	56.5
Merged-chr16-55820690-4	chr16	55820590	55820790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159395, intron 2 of 12)	intron (NM_001159395, intron 2 of 12)	1448.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	19.5	68.5	29.0	146.0	105.0	44.5	47.5	9.5
Merged-chr2-4557229-4	chr2	4557126	4557326	+	756.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 11 of 23)	intron (NM_001177843, intron 11 of 23)	-2528.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	8.5	13.5	18.0	169.5	19.0	3.5	11.0	3.0
Merged-chr4-116175898-4	chr4	116175800	116176000	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2528.0	NM_001099295	67323.0	Mm.45442	NM_001099295	ENSMUSG00000078593	1700042G07Rik	-	RIKEN cDNA 1700042G07 gene	protein-coding	15.0	27.0	10.5	228.0	46.5	24.0	12.5	14.5
Merged-chr8-119605208-4	chr8	119605106	119605306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021441)	promoter-TSS (NM_021441)	34.0	NM_021441	21341.0	Mm.41977	NM_021441	ENSMUSG00000031832	Taf1c	Tafi95|mTAFI95	TATA-box binding protein associated factor, RNA polymerase I, C	protein-coding	57.0	91.0	48.5	858.5	148.5	48.0	42.5	47.5
Merged-chr3-95659550-4	chr3	95659447	95659647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008562, intron 1 of 2)	intron (NM_008562, intron 1 of 2)	826.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	116.0	329.0	107.5	1079.0	337.0	148.5	113.5	129.0
Merged-chr3-101597407-4	chr3	101597302	101597502	+	968.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	7305.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	21.0	14.5	28.5	415.0	69.0	20.0	34.0	33.0
Merged-chr6-124737192-4	chr6	124737100	124737300	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077705, intron 1 of 15)	MIRb|SINE|MIR	1509.0	NM_001077705	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	18.5	12.0	3.0	171.5	129.0	33.5	24.5	49.5
Merged-chr2-79619213-4	chr2	79619116	79619316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16209.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	60.5	84.0	61.0	978.5	47.0	32.5	42.0	64.5
Merged-chr13-23584481-4	chr13	23584363	23584563	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178194, exon 2 of 2)	3' UTR (NM_178194, exon 2 of 2)	1507.0	NM_001290530	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	14.0	23.0	15.0	210.5	36.0	23.0	23.5	26.5
Merged-chr15-36334568-3	chr15	36334456	36334656	+	982.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51409.0	NM_001357631	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	12.5	24.5	38.0	339.0	15.0	5.5	4.0	9.0
Merged-chr2-91495453-4	chr2	91495358	91495558	+	858.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 28 of 37)	intron (NM_172668, intron 28 of 37)	-31304.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	6.5	13.5	5.0	149.5	32.0	7.0	11.5	6.5
Merged-chr4-119131312-1	chr4	119131212	119131412	+	1000.0	f0_balb.idr	intron (NM_011400, intron 2 of 9)	intron (NM_011400, intron 2 of 9)	22567.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	4.5	3.5	8.5	190.5	18.5	5.0	9.0	13.5
Merged-chr8-120745452-4	chr8	120745352	120745552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 3 of 8)	intron (NM_001301811, intron 3 of 8)	6813.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	65.0	43.0	75.0	1615.5	80.0	17.5	56.0	54.5
Merged-chr13-37657514-4	chr13	37657410	37657610	+	925.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168528.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	17.0	19.5	22.0	285.5	30.5	2.5	9.5	13.5
Merged-chr6-83020938-1	chr6	83020838	83021038	+	598.0	f1_balb.idr	intron (NM_033079, intron 7 of 9)	ORR1F|LTR|ERVL-MaLR	12533.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	3.5	6.5	2.5	37.5	6.5	5.5	7.0	6.5
Merged-chr19-42518797-4	chr19	42518719	42518919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177464)	promoter-TSS (NM_177464)	14.0	NM_177464	52013.0	Mm.254169	NM_177464	ENSMUSG00000025184	R3hcc1l	1700036B12Rik|AI450607|C10orf28|D19Ertd386e|GIDRP86|Gidrp88	R3H domain and coiled-coil containing 1 like	protein-coding	86.5	144.0	91.5	1076.5	171.0	67.0	104.5	77.5
Merged-chr12-3283164-4	chr12	3283070	3283270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	intron (NM_016676, intron 1 of 5)	26799.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	30.0	40.0	21.0	373.5	43.0	18.5	21.0	17.5
Merged-chr14-65598464-4	chr14	65598362	65598562	+	865.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5350.0	NM_028811	74195.0	Mm.29719	NM_028811	ENSMUSG00000022031	Elp3	2610507P14Rik|KAT9	elongator acetyltransferase complex subunit 3	protein-coding	17.5	14.5	8.0	213.5	23.0	9.5	5.0	15.0
Merged-chr6-97511064-2	chr6	97510973	97511173	+	703.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-23253.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	3.0	9.5	16.0	64.5	28.0	4.5	7.5	12.0
Merged-chr7-28437142-4	chr7	28437031	28437231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022024)	promoter-TSS (NM_022024)	-316.0	NM_022024	63986.0	Mm.194536	NM_022024	ENSMUSG00000060791	Gmfg	0610039G16Rik|2310057N07Rik|AI324845	glia maturation factor, gamma	protein-coding	86.5	141.0	100.5	1310.5	230.5	105.0	126.5	95.5
Merged-chr19-40345844-2	chr19	40345755	40345955	+	766.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034963, intron 11 of 22)	intron (NM_001034963, intron 11 of 22)	56455.0	NM_001034964	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	7.5	7.0	6.5	188.5	2.5	7.0	2.5	1.0
Merged-chr14-52009015-4	chr14	52008911	52009111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001253695, exon 3 of 5)	exon (NM_001253695, exon 3 of 5)	5547.0	NM_001253695	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	36.5	57.0	23.0	674.0	93.0	26.0	48.5	52.0
Merged-chr5-23844165-4	chr5	23844072	23844272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025394)	promoter-TSS (NM_025394)	-27.0	NM_025394	66169.0	Mm.291868	NM_025394	ENSMUSG00000028998	Tomm7	1110020J08Rik|AW047273|Tom7	translocase of outer mitochondrial membrane 7	protein-coding	126.0	194.5	80.5	1918.0	420.0	162.5	182.5	157.5
Merged-chr10-117831080-4	chr10	117830990	117831190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	14884.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	54.0	50.0	40.0	656.5	104.0	30.5	44.5	36.0
Merged-chr17-20945266-4	chr17	20945156	20945356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016891)	promoter-TSS (NM_016891)	-198.0	NM_016891	51792.0	Mm.294138	NM_016891	ENSMUSG00000007564	Ppp2r1a	6330556D22Rik|PP2A|PR65	protein phosphatase 2, regulatory subunit A, alpha	protein-coding	545.0	849.5	688.0	8571.5	1416.5	552.0	639.0	552.0
Merged-chr10-84402018-4	chr10	84401934	84402134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 2 of 6)	intron (NM_001004363, intron 2 of 6)	38437.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	58.0	110.5	93.0	1164.5	158.0	70.0	86.0	81.5
Merged-chr8-126542280-3	chr8	126542224	126542424	+	955.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51112.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	11.0	3.5	10.5	200.0	15.5	6.0	8.0	14.5
Merged-chr17-77969404-4	chr17	77969301	77969501	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	-230847.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	12.5	31.0	23.5	289.0	39.5	24.0	20.5	12.5
Merged-chr16-32666425-4	chr16	32666329	32666529	+	858.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033493, exon 2 of 3)	non-coding (NR_033493, exon 2 of 3)	1768.0	NR_033493	675921.0	Mm.404316	NR_033493	ENSMUSG00000075265	Tnk2os	Gm10818	tyrosine kinase, non-receptor 2, opposite strand	ncRNA	11.0	21.5	13.5	99.5	24.5	17.5	15.0	14.5
Merged-chr8-104384188-4	chr8	104384091	104384291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	intron (NM_153582, intron 1 of 3)	11616.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	31.5	26.5	63.0	885.0	65.0	20.0	39.5	39.0
Merged-chr5-144256730-4	chr5	144256606	144256806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163709, intron 2 of 2)	intron (NM_001163709, intron 2 of 2)	1481.0	NM_018772	55950.0	Mm.38011	NM_018772	ENSMUSG00000047843	Bri3	I3	brain protein I3	protein-coding	74.5	146.0	98.5	915.0	255.0	98.0	70.5	68.5
Merged-chr8-13338687-4	chr8	13338585	13338785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291766)	promoter-TSS (NM_001291766)	-66.0	NM_001291765	21781.0	Mm.925	NM_009361	ENSMUSG00000038482	Tfdp1	Dp1|Drtf1	transcription factor Dp 1	protein-coding	80.0	168.0	88.5	1364.5	230.5	104.5	130.5	78.5
Merged-chr10-57793153-4	chr10	57793051	57793251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1393.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	47.5	76.5	61.5	795.5	183.0	52.0	63.5	61.0
Merged-chr2-25592013-4	chr2	25591923	25592123	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024616, intron 7 of 14)	intron (NM_001024616, intron 7 of 14)	-11924.0	NM_001005424	381353.0	Mm.379511	NM_001005424	ENSMUSG00000029419	Gm996	Ajm1	predicted gene 996	protein-coding	14.5	20.5	22.0	381.0	40.0	6.5	17.5	22.5
Merged-chr3-36862211-4	chr3	36862120	36862320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172679)	promoter-TSS (NM_172679)	-886.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	28.5	29.5	25.0	414.0	81.5	28.0	35.5	44.5
Merged-chr7-121469601-4	chr7	121469495	121469695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081327, intron 1 of 1)	G-rich|Low_complexity|Low_complexity	77299.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	28.5	21.5	29.0	635.5	94.0	23.5	53.5	20.5
Merged-chr13-24697077-3	chr13	24696979	24697179	+	914.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080381, intron 13 of 14)	UCON28c|Unknown|Unknown	58431.0	NM_029679	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	6.5	11.0	4.5	191.0	10.5	4.0	13.0	4.5
Merged-chr4-99270144-3	chr4	99270044	99270244	+	863.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75997.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	4.0	21.5	5.0	77.5	52.5	14.5	33.5	19.0
Merged-chr4-55655526-4	chr4	55655428	55655628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123053.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	40.5	49.5	43.0	917.0	46.0	19.5	44.0	33.0
Merged-chr18-83938351-4	chr18	83938255	83938455	+	685.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148207.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	13.5	9.5	8.5	141.5	21.0	3.5	14.0	17.5
Merged-chr14-31930626-4	chr14	31930545	31930745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G1|LTR|ERVL-MaLR	-98458.0	NM_030166	78754.0	Mm.40681	NM_030166	ENSMUSG00000021903	Galnt15	4631401E18Rik|Galntl2|mpp-GalNAc-T15	polypeptide N-acetylgalactosaminyltransferase 15	protein-coding	53.5	46.0	46.0	983.5	146.0	45.5	74.0	91.0
Merged-chr6-142571391-3	chr6	142571285	142571485	+	916.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008428, exon 1 of 3)	5' UTR (NM_008428, exon 1 of 3)	229.0	NM_001330363	16523.0	Mm.1482	NM_008428	ENSMUSG00000030247	Kcnj8	AI448900|Kir6.1|gnite|slmbr|sltr|uKATP-1	potassium inwardly-rectifying channel, subfamily J, member 8	protein-coding	8.0	12.5	17.0	164.5	12.5	6.0	6.0	9.0
Merged-chr6-146638678-4	chr6	146638581	146638781	+	847.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3898.0	NM_025315	108098.0	Mm.26212	NM_025315	ENSMUSG00000030291	Med21	0610007L03Rik|AI449604|D19234|D6Ertd782e|Srb7|Surb7	mediator complex subunit 21	protein-coding	2.0	10.0	4.0	164.0	53.0	16.0	35.5	21.5
Merged-chr8-109737735-4	chr8	109737590	109737790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080930)	promoter-TSS (NM_001080930)	49.0	NM_001080930	52335.0	Mm.276770	NM_001080930	ENSMUSG00000069895	Atxn1l	AW558552|Boat|C330011L24Rik|D6Mgi37|D8Ertd587e	ataxin 1-like	protein-coding	52.5	68.5	40.0	566.0	108.0	39.0	40.5	51.0
Merged-chr8-122980091-4	chr8	122979986	122980186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	62198.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	42.0	61.0	26.5	486.5	58.5	26.0	27.0	29.0
Merged-chr8-46849567-4	chr8	46849463	46849663	+	908.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109818.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	11.0	25.0	20.0	133.5	34.0	11.0	10.5	17.0
Merged-chr5-139331913-3	chr5	139331831	139332031	+	819.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6467.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	7.0	16.5	2.5	124.5	7.5	14.5	11.0	7.5
Merged-chr7-110930619-4	chr7	110930529	110930729	+	800.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194464, intron 2 of 20)	intron (NM_194464, intron 2 of 20)	15558.0	NM_010826	17540.0	Mm.250023	NM_010826	ENSMUSG00000005611	Mrvi1	BB115629|Irag|Ris1	MRV integration site 1	protein-coding	6.5	14.0	6.0	89.0	22.0	10.0	8.5	13.5
Merged-chr16-91012051-4	chr16	91011941	91012141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164483)	promoter-TSS (NM_001164483)	-733.0	NM_001164483	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	42.0	57.5	28.5	583.0	115.5	59.0	54.0	37.5
Merged-chr8-120736298-4	chr8	120736202	120736402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008320)	promoter-TSS (NM_008320)	-56.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	122.0	161.0	98.5	1635.5	331.5	99.0	154.5	134.5
Merged-chr18-58530596-4	chr18	58530498	58530698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25642.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	24.0	27.0	34.5	502.0	59.0	17.5	22.0	42.0
Merged-chr14-61968721-4	chr14	61968674	61968874	+	866.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-286401.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	12.0	11.0	17.0	135.5	13.0	12.5	4.5	9.0
Merged-chr9-59734021-4	chr9	59733910	59734110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001172071)	TTS (NM_001172071)	16639.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	31.0	54.5	29.5	554.0	80.5	24.0	22.0	29.5
Merged-chr14-103343415-4	chr14	103343262	103343462	+	711.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 1 of 84)	intron (NM_207215, intron 1 of 84)	3438.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	11.5	3.0	5.0	62.5	16.5	6.0	7.5	9.0
Merged-chr8-83201152-4	chr8	83201050	83201250	+	882.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111304, intron 1 of 20)	(TTTTTA)n|Simple_repeat|Simple_repeat	35798.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	8.0	3.5	8.5	83.0	86.5	21.5	18.0	37.0
Merged-chr7-97125520-4	chr7	97125406	97125606	+	843.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	43755.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	7.5	5.5	4.5	250.0	44.0	7.0	12.5	11.0
Merged-chr3-136671076-9	chr3	136670892	136671092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	CpG	926.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	20.5	22.5	32.5	222.5	56.5	22.0	28.5	40.5
Merged-chr4-115738712-8	chr4	115738585	115738785	+	923.59375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172698, exon 1 of 12)	exon (NM_172698, exon 1 of 12)	612.0	NM_172698	230648.0	Mm.283565	NM_172698	ENSMUSG00000034210	Efcab14	4732418C07Rik	EF-hand calcium binding domain 14	protein-coding	2.0	5.5	12.5	78.0	7.5	4.5	10.5	9.5
Merged-chr17-26509215-2	chr17	26509115	26509315	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013642)	promoter-TSS (NM_013642)	-743.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	21.0	49.5	12.5	417.0	88.5	37.5	50.0	53.0
Merged-chr11-111097306-2	chr11	111097206	111097406	+	902.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31142.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	3.0	2.5	1.5	47.5	16.5	8.5	12.0	11.0
Merged-chr4-43046200-4	chr4	43046111	43046311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172691)	promoter-TSS (NM_172691)	9.0	NR_045567	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	95.0	121.5	64.0	924.0	155.0	60.0	74.0	63.5
Merged-chr2-101782172-1	chr2	101782072	101782272	+	573.0	f0_balb.idr	intron (NM_001355625, intron 1 of 8)	MTD|LTR|ERVL-MaLR	15535.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	7.0	4.0	11.0	67.5	13.0	7.5	10.5	11.0
Merged-chr6-34041025-4	chr6	34040939	34041139	+	846.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028886, intron 3 of 19)	MER5A|DNA|hAT-Charlie	11591.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	6.5	8.5	2.0	167.0	30.5	12.0	14.5	17.0
Merged-chr13-94164498-3	chr13	94164423	94164623	+	807.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	106727.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	10.0	14.0	12.0	143.0	5.0	1.0	3.0	4.0
Merged-chr11-5737330-4	chr11	5737247	5737447	+	808.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	MER44B|DNA|TcMar-Tigger	3829.0	NM_001361590	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	3.5	22.0	10.0	93.5	41.5	9.0	8.5	5.5
Merged-chr19-36083103-4	chr19	36082997	36083197	+	905.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019428)	promoter-TSS (NM_019428)	-619.0	NM_019428	54364.0	Mm.277891	NM_019428	ENSMUSG00000024800	Rpp30	Rnasep2|TSG15	ribonuclease P/MRP 30 subunit	protein-coding	2.5	14.0	14.0	174.0	28.5	11.5	19.5	10.5
Merged-chr14-118180414-4	chr14	118180304	118180504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43277.0	NM_021434	58245.0	Mm.275411	NM_021434	ENSMUSG00000022131	Gpr180	AB041545|E130016I23Rik|Itr	G protein-coupled receptor 180	protein-coding	28.5	35.0	38.5	479.5	55.5	20.0	29.5	25.5
Merged-chr2-103583475-4	chr2	103583366	103583566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	17156.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	60.5	94.0	55.5	1193.0	138.0	65.0	68.5	64.5
Merged-chr5-20257327-1	chr5	20257227	20257427	+	595.0	f0_balb.idr	intron (NM_001170746, intron 6 of 22)	intron (NM_001170746, intron 6 of 22)	349809.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	7.5	7.0	5.5	70.0	1.0	1.0	1.5	4.5
Merged-chr7-5051675-4	chr7	5051629	5051829	+	976.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026900, intron 1 of 1)	CpG	197.0	NM_026900	68992.0	Mm.41484	NM_026900	ENSMUSG00000055633	Zfp580	1500015O20Rik|AI838225|Znf580	zinc finger protein 580	protein-coding	13.0	14.5	18.0	255.5	38.0	18.0	13.5	15.5
Merged-chr7-144981849-4	chr7	144981711	144981911	+	975.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41886.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	20.0	21.0	20.0	222.5	30.5	4.0	11.0	10.0
Merged-chr5-88727924-3	chr5	88727826	88728026	+	921.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026735, intron 1 of 5)	L1MC4|LINE|L1	7055.0	NM_026735	68473.0	Mm.35764	NM_026735	ENSMUSG00000006262	Mob1b	1110003E08Rik|AU015450|B230364F10|Mobkl1a	MOB kinase activator 1B	protein-coding	5.0	4.0	11.0	114.5	40.0	5.0	9.5	7.5
Merged-chr18-61536700-7	chr18	61536588	61536788	+	991.347595	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177828)	promoter-TSS (NM_177828)	-152.0	NM_177828	328967.0	Mm.488098	NM_177828	ENSMUSG00000045094	Arhgef37	4933429F08Rik	Rho guanine nucleotide exchange factor (GEF) 37	protein-coding	7.5	8.5	15.0	114.0	31.0	11.0	9.0	19.0
Merged-chr16-76370249-4	chr16	76370152	76370352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	2797.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	42.5	50.5	22.0	508.0	107.5	32.0	48.0	48.0
Merged-chr1-191172641-2	chr1	191172541	191172741	+	571.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 2 of 3)	B3|SINE|B2	-7824.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	5.5	16.0	1.0	25.0	18.5	5.0	6.5	5.0
Merged-chr10-91138475-4	chr10	91138380	91138580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-14517.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	84.5	116.0	69.0	1185.0	248.5	87.0	146.5	86.0
Merged-chr18-69439529-1	chr18	69439429	69439629	+	651.5	f0_balb.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	93369.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	7.0	8.0	7.5	145.0	7.0	1.5	1.5	9.0
Merged-chr7-140137653-4	chr7	140137539	140137739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199301)	promoter-TSS (NM_199301)	75.0	NM_199301	212508.0	Mm.296088	NM_199301	ENSMUSG00000039018	Mtg1	Gm169|Gtpbp7	mitochondrial ribosome-associated GTPase 1	protein-coding	120.5	136.5	127.5	1724.5	269.5	102.5	122.0	94.5
Merged-chr17-83708002-3	chr17	83707917	83708117	+	869.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 1 of 16)	B1F1|SINE|Alu	1854.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	8.0	3.0	3.0	133.5	15.0	6.0	7.0	12.5
Merged-chr14-47186712-4	chr14	47186597	47186797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008102, intron 1 of 5)	intron (NM_008102, intron 1 of 5)	2716.0	NM_008102	14528.0	Mm.10651	NM_008102	ENSMUSG00000037580	Gch1	GTP-CH|GTP-CH-I|GTPCH|Gch	GTP cyclohydrolase 1	protein-coding	39.5	66.0	25.5	684.5	62.5	22.5	24.0	28.0
Merged-chr17-34057426-3	chr17	34057319	34057519	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001317722, exon 36 of 65)	exon (NM_001317722, exon 36 of 65)	18281.0	NM_001317722	12815.0	Mm.20230	NM_009926	ENSMUSG00000024330	Col11a2	-	collagen, type XI, alpha 2	protein-coding	0.0	0.0	0.0	8.5	394.5	133.5	125.5	97.0
Merged-chr4-87653619-4	chr4	87653495	87653695	+	953.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	152728.0	NM_001286158	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	25.5	21.0	26.5	567.5	51.0	11.0	17.0	24.0
Merged-chr18-34932069-4	chr18	34931984	34932184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144866)	promoter-TSS (NM_144866)	-81.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	324.5	563.0	404.0	4303.5	922.5	393.5	483.5	363.0
Merged-chr19-5849317-4	chr19	5849222	5849422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3842.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	47.5	38.0	52.5	469.0	92.5	26.5	22.0	41.0
Merged-chr14-55783314-9	chr14	55783152	55783352	+	884.815735	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080435, intron 2 of 25)	intron (NM_080435, intron 2 of 25)	820.0	NM_080435	104110.0	Mm.287010	NM_080435	ENSMUSG00000022220	Adcy4	mKIAA4004	adenylate cyclase 4	protein-coding	11.0	5.0	4.5	52.5	24.5	7.5	9.0	12.0
Merged-chr3-84922015-6	chr3	84921928	84922128	+	883.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177774, intron 3 of 12)	intron (NM_001177774, intron 3 of 12)	-30183.0	NM_080428	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	7.0	8.0	10.5	140.5	15.0	4.0	4.5	12.0
Merged-chr4-106909192-2	chr4	106909141	106909341	+	747.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2229.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	9.5	5.0	5.0	53.5	11.5	5.0	2.5	5.5
Merged-chr2-6162894-3	chr2	6162761	6162961	+	633.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29978.0	NR_033471	100038358.0	Mm.353975	NR_033470	ENSMUSG00000102887	Gm10857	AU015850	predicted gene 10857	ncRNA	8.0	11.5	10.5	113.0	1.5	3.0	1.0	3.5
Merged-chr2-129586292-4	chr2	129586195	129586395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6544.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	138.5	221.0	160.5	2690.5	262.5	122.0	166.5	128.0
Merged-chr15-79396948-4	chr15	79396877	79397077	+	912.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172608, intron 1 of 8)	intron (NM_172608, intron 1 of 8)	5942.0	NM_001253817	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	26.5	57.0	19.0	250.0	27.5	20.0	3.5	10.0
Merged-chr5-42984963-4	chr5	42984859	42985059	+	840.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-248504.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	4.5	19.5	5.0	213.5	27.5	3.5	8.0	13.5
Merged-chr19-34583420-4	chr19	34583298	34583498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010501)	promoter-TSS (NM_010501)	-131.0	NM_010501	15959.0	Mm.426079	NM_010501	ENSMUSG00000074896	Ifit3	Ifi49|P49	interferon-induced protein with tetratricopeptide repeats 3	protein-coding	27.5	29.5	24.5	123.0	59.0	21.5	21.5	24.5
Merged-chr5-31882476-4	chr5	31882376	31882576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 6 of 11)	intron (NM_144541, intron 6 of 11)	184426.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	41.0	46.0	26.5	599.0	69.5	21.5	21.5	35.5
Merged-chr2-164071209-4	chr2	164071085	164071285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291155)	promoter-TSS (NM_001291155)	-16.0	NM_001291155	67145.0	Mm.23173	NM_025996	ENSMUSG00000018322	Tomm34	2610100K07Rik|TOM34	translocase of outer mitochondrial membrane 34	protein-coding	183.0	256.0	155.5	1988.0	436.0	181.5	229.5	178.0
Merged-chr12-36188450-3	chr12	36188377	36188577	+	968.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146033, intron 7 of 9)	intron (NM_146033, intron 7 of 9)	29741.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	13.5	15.0	20.0	350.0	9.5	0.0	1.5	3.0
Merged-chr10-128526054-4	chr10	128525950	128526150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011843)	promoter-TSS (NM_011843)	-191.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	304.5	401.5	273.5	3575.5	675.5	275.0	279.0	294.0
Merged-chr11-21024700-4	chr11	21024599	21024799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66625.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	59.5	79.5	32.0	854.0	153.0	39.0	71.5	47.0
Merged-chr6-31208420-4	chr6	31208318	31208518	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	intron (NR_110469, intron 1 of 3)	10056.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	46.0	72.0	39.0	718.5	97.0	13.5	38.0	22.5
Merged-chr8-121877455-3	chr8	121877359	121877559	+	968.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30227.0	NM_011404	20539.0	Mm.22374	NM_011404	ENSMUSG00000040010	Slc7a5	4F2LC|D0H16S474E|LAT1|TA1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 5	protein-coding	0.0	0.5	0.0	30.0	82.5	15.0	44.5	42.0
Merged-chr5-104042916-4	chr5	104042860	104043060	+	899.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3904.0	NM_028794	74167.0	Mm.241484	NM_028794	ENSMUSG00000029310	Nudt9	1190002C07Rik|ADPR-PPase|AI462474	nudix (nucleoside diphosphate linked moiety X)-type motif 9	protein-coding	16.5	9.0	6.5	84.5	17.5	14.5	8.0	13.0
Merged-chr2-167754073-4	chr2	167753969	167754169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62892.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	278.0	487.5	305.5	4106.5	645.5	279.0	309.5	247.5
Merged-chr1-135283526-4	chr1	135283444	135283644	+	956.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 1 of 9)	CpG	540.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	10.5	26.0	22.0	179.5	52.5	17.5	12.5	23.0
Merged-chr3-68666599-4	chr3	68666480	68666680	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24064.0	NM_001159424	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	4.0	15.5	9.5	395.0	21.0	8.0	22.0	11.0
Merged-chr3-62159206-4	chr3	62159121	62159321	+	807.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-179556.0	NM_001081295	622434.0	Mm.153974	NM_001081295	ENSMUSG00000036885	Arhgef26	4631416L12Rik|8430436L14Rik|AI303572|AW491953|SGEF	Rho guanine nucleotide exchange factor (GEF) 26	protein-coding	35.5	43.5	23.5	2.0	34.0	14.0	14.5	47.5
Merged-chr7-122206332-4	chr7	122206239	122206439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13157.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	59.0	80.0	47.0	1015.0	154.0	52.0	86.0	81.5
Merged-chr2-11687674-2	chr2	11687574	11687774	+	648.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008367, intron 7 of 7)	intron (NM_008367, intron 7 of 7)	-17619.0	NM_001271498	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	8.0	0.5	6.0	36.5	12.5	7.5	8.0	9.5
Merged-chr6-98997906-4	chr6	98997812	98998012	+	845.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 8 of 17)	intron (NM_001197321, intron 8 of 17)	30386.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	4.0	9.0	15.5	193.5	5.0	7.0	10.0	11.0
Merged-chr4-41464645-2	chr4	41464545	41464745	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025539)	promoter-TSS (NM_025539)	203.0	NM_024241	109242.0	Mm.370288	NM_024241	ENSMUSG00000028438	Kif24	4933425J19Rik|9430029L23Rik	kinesin family member 24	protein-coding	30.0	39.0	46.5	440.0	85.5	49.0	37.0	54.0
Merged-chr4-99929890-4	chr4	99929775	99929975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028132, intron 1 of 10)	CpG	424.0	NM_028132	72157.0	Mm.217764	NM_028132	ENSMUSG00000025791	Pgm2	2610020G18Rik|AA407108|AI098105|Pgm-2|Pgm1	phosphoglucomutase 2	protein-coding	28.5	35.0	47.0	409.5	77.0	24.5	30.5	37.5
Merged-chr19-45018043-4	chr19	45017926	45018126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130526)	promoter-TSS (NM_001130526)	-109.0	NM_001130526	226154.0	Mm.28204	NM_145503	ENSMUSG00000035342	Lzts2	BC014695|LAPSER1|mKIAA1813	leucine zipper, putative tumor suppressor 2	protein-coding	35.5	26.0	16.5	437.5	68.5	25.5	30.0	24.0
Merged-chr14-87415940-4	chr14	87415841	87416041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172605)	promoter-TSS (NM_172605)	-642.0	NM_172605	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	157.0	198.5	161.5	2759.0	406.0	138.5	210.0	174.0
Merged-chr4-137739335-3	chr4	137739224	137739424	+	615.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	14863.0	NR_138592	110351.0	Mm.180763	NM_029563	ENSMUSG00000041351	Rap1gap	1300019I11Rik|2310004O14Rik|AI427470|ARPP-90|Gap|Rap1GAP1|Rap1ga1	Rap1 GTPase-activating protein	protein-coding	5.0	7.5	8.5	92.0	13.0	5.0	5.5	10.0
Merged-chr18-46360067-3	chr18	46359961	46360161	+	844.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48133.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	10.5	11.5	7.0	151.5	9.0	3.5	4.5	10.0
Merged-chr4-144998416-1	chr4	144998316	144998516	+	852.0	f0_balb.idr	intron (NM_001276465, intron 67 of 69)	intron (NM_001276465, intron 67 of 69)	105279.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	10.0	18.0	17.5	169.0	13.5	5.5	6.0	6.5
Merged-chr5-21411510-4	chr5	21411430	21411630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 1 of 18)	intron (NM_029195, intron 1 of 18)	13147.0	NM_029195	75172.0	Mm.426695	NM_029195	ENSMUSG00000064280	Ccdc146	4930528G09Rik|mKIAA1505	coiled-coil domain containing 146	protein-coding	150.0	234.0	155.0	2250.5	448.0	179.0	154.5	147.5
Merged-chr4-101650587-4	chr4	101650468	101650668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175036, intron 1 of 3)	intron (NM_175036, intron 1 of 3)	2785.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	45.0	54.0	20.5	585.5	74.0	47.5	30.0	28.5
Merged-chr2-169958419-4	chr2	169958317	169958517	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	4770.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	6.5	18.5	20.5	186.5	31.0	14.0	11.0	12.5
Merged-chr9-92457466-3	chr9	92457355	92457555	+	928.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178711)	promoter-TSS (NM_178711)	77.0	NM_178711	235527.0	Mm.55289	NM_178711	ENSMUSG00000032377	Plscr4	AV245873	phospholipid scramblase 4	protein-coding	11.0	10.5	9.5	225.5	3.0	0.5	2.5	4.5
Merged-chr9-24505250-4	chr9	24505176	24505376	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2136.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	24.0	21.0	28.5	245.0	58.0	20.5	38.5	30.5
Merged-chr13-63563354-6	chr13	63563259	63563459	+	913.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008957, intron 2 of 23)	CpG	2376.0	NM_008957	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	10.0	11.5	11.5	167.5	27.5	2.5	5.5	14.0
Merged-chr5-64267487-1	chr5	64267387	64267587	+	885.0	f0_balb.idr	intron (NM_001289514, intron 5 of 18)	intron (NM_001289514, intron 5 of 18)	37130.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	6.0	7.0	12.5	145.5	14.0	3.0	0.5	3.5
Merged-chr8-61558449-3	chr8	61558347	61558547	+	874.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	32722.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	11.5	10.0	8.5	180.0	21.0	6.0	14.5	13.5
Merged-chr13-100852079-2	chr13	100851979	100852179	+	779.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-18652.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	4.0	5.5	2.5	32.0	33.0	5.0	4.5	4.5
Merged-chr15-28374608-4	chr15	28374522	28374722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133365, intron 52 of 78)	intron (NM_133365, intron 52 of 78)	170856.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	288.5	439.0	231.5	3292.0	580.0	248.0	261.0	190.5
Merged-chr16-25053084-4	chr16	25052995	25053195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6544.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	126.5	126.5	107.0	2175.5	166.0	62.5	72.0	66.0
Merged-chr5-90778548-3	chr5	90778449	90778649	+	645.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6114.0	NM_019932	56744.0	Mm.332490	NM_019932	ENSMUSG00000029373	Pf4	Cxcl4|Scyb4	platelet factor 4	protein-coding	8.0	9.5	11.0	70.5	16.5	2.0	5.5	5.0
Merged-chr2-70838750-4	chr2	70838713	70838913	+	743.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13333.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	5.0	7.5	7.0	110.5	21.5	6.0	7.0	9.0
Merged-chr7-142342021-3	chr7	142341916	142342116	+	977.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	ORR1E|LTR|ERVL-MaLR	30243.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	13.0	48.5	10.5	146.0	48.5	21.5	10.5	16.0
Merged-chr17-50170096-4	chr17	50170018	50170218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 1 of 9)	(CA)n|Simple_repeat|Simple_repeat	20379.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	34.0	63.0	27.0	531.5	144.0	52.5	53.0	44.5
Merged-chr11-97942578-4	chr11	97942491	97942691	+	973.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163608, intron 7 of 13)	intron (NM_001163608, intron 7 of 13)	43855.0	NM_028199	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	18.5	54.5	17.0	214.0	100.0	36.5	34.5	33.5
Merged-chr10-61399565-4	chr10	61399465	61399665	+	857.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16042.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	7.5	15.5	1.0	141.0	29.5	8.5	26.5	19.5
Merged-chr15-77970955-4	chr15	77970809	77971009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018749)	promoter-TSS (NM_018749)	-85.0	NM_018749	55944.0	Mm.3955	NM_018749	ENSMUSG00000016554	Eif3d	66/67kDa|AA407891|Eif3s7|eIF3p66	eukaryotic translation initiation factor 3, subunit D	protein-coding	48.5	112.5	55.0	641.0	196.5	71.0	56.5	75.5
Merged-chr9-74935472-4	chr9	74935334	74935534	+	963.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17446.0	NM_001359816	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	7.0	13.0	6.0	305.0	40.5	4.5	21.0	17.5
Merged-chr2-166294329-4	chr2	166294222	166294422	+	976.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033467, intron 2 of 2)	intron (NR_033467, intron 2 of 2)	20414.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	14.5	28.5	4.5	140.5	42.0	8.5	17.0	8.5
Merged-chr9-119343272-3	chr9	119343146	119343346	+	868.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357516, intron 3 of 10)	intron (NM_001357516, intron 3 of 10)	1952.0	NM_001357516	113868.0	Mm.205266	NM_130864	ENSMUSG00000036138	Acaa1a	Acaa|Acaa1|D9Ertd25e|PTL	acetyl-Coenzyme A acyltransferase 1A	protein-coding	23.5	37.0	17.0	120.5	9.0	6.0	5.5	5.0
Merged-chr5-46347577-4	chr5	46347490	46347690	+	714.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-415181.0	NR_110478	78106.0	Mm.243807	NR_110478	ENSMUSG00000106602	4930405L22Rik	-	RIKEN cDNA 4930405L22 gene	ncRNA	6.0	7.5	5.0	131.5	20.5	6.0	7.0	11.5
Merged-chr17-65785898-2	chr17	65785774	65785974	+	750.75	f1_balb.idr|f1_c57bl6.idr	intron (NR_152099, intron 2 of 20)	RLTR13D2|LTR|ERVK	2519.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	3.0	7.5	7.0	42.5	21.0	6.0	6.0	7.0
Merged-chr7-138846218-4	chr7	138846121	138846321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026391)	promoter-TSS (NM_026391)	46.0	NM_001045483	69546.0	Mm.31598	NM_027115	ENSMUSG00000041775	Mapk1ip1	2310009E07Rik|AU043776|MISS	mitogen-activated protein kinase 1 interacting protein 1	protein-coding	132.5	125.5	108.5	1448.5	264.0	112.0	123.0	93.5
Merged-chr2-113824100-4	chr2	113824009	113824209	+	758.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009162, intron 2 of 5)	intron (NM_009162, intron 2 of 5)	4982.0	NM_009162	20394.0	Mm.4836	NM_009162	ENSMUSG00000023236	Scg5	7B2|AI325031|Sgne-1|Sgne1	secretogranin V	protein-coding	7.0	13.0	10.0	127.0	31.0	9.0	14.0	12.5
Merged-chr18-61571015-6	chr18	61570930	61571130	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357500, intron 4 of 9)	intron (NM_001357500, intron 4 of 9)	15757.0	NM_146087	93687.0	Mm.26908	NM_146087	ENSMUSG00000024576	Csnk1a1	2610208K14Rik|4632404G05Rik|5430427P18Rik|CK1a|Csnk1a	casein kinase 1, alpha 1	protein-coding	9.0	14.5	14.0	173.0	38.0	15.5	11.5	16.5
Merged-chr6-108695463-3	chr6	108695374	108695574	+	956.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34540.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	21.0	13.0	8.0	176.5	21.5	2.5	5.5	4.5
Merged-chr18-30584053-4	chr18	30583947	30584147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	311182.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	30.0	33.0	20.0	258.0	146.5	45.5	43.0	53.0
Merged-chr13-119631893-4	chr13	119631792	119631992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020279, intron 1 of 2)	CpG	8073.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	48.0	71.5	46.5	749.0	181.5	43.0	69.5	55.0
Merged-chr12-108766643-4	chr12	108766550	108766750	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26661.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	26.0	15.0	24.0	276.0	25.5	11.5	25.5	22.0
Merged-chr4-8916408-3	chr4	8916287	8916487	+	827.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	165063.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	5.0	5.5	2.5	39.5	29.5	14.0	14.0	8.0
Merged-chr15-38289153-4	chr15	38289056	38289256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	10744.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	120.5	129.0	109.5	1181.5	216.5	69.5	87.0	89.0
Merged-chr10-12955999-3	chr10	12955898	12956098	+	797.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029075, intron 1 of 2)	intron (NM_029075, intron 1 of 2)	8261.0	NM_029075	74732.0	Mm.248648	NM_029075	ENSMUSG00000039232	Stx11	5830405C08Rik	syntaxin 11	protein-coding	12.0	22.0	2.0	95.0	47.0	6.5	7.5	5.0
Merged-chr12-80110418-2	chr12	80110318	80110518	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_007564, exon 2 of 2)	exon (NM_007564, exon 2 of 2)	2595.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	11.0	9.0	6.5	29.0	22.0	13.0	3.0	6.0
Merged-chr11-49203411-4	chr11	49203301	49203501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009562)	promoter-TSS (NM_009562)	-99.0	NM_001024846	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	106.5	242.0	129.5	1502.5	388.0	196.0	160.0	171.0
Merged-chr15-66286857-3	chr15	66286679	66286879	+	616.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152923)	promoter-TSS (NM_152923)	-555.0	NM_152923	110862.0	Mm.255585	NM_152923	ENSMUSG00000056258	Kcnq3	-	potassium voltage-gated channel, subfamily Q, member 3	protein-coding	4.5	9.5	10.5	93.0	9.0	5.5	0.5	1.5
Merged-chr17-10856067-4	chr17	10855972	10856172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	15713.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	35.0	53.5	34.0	676.0	138.5	51.0	43.0	38.5
Merged-chr1-36569558-4	chr1	36569487	36569687	+	892.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-11206.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	16.0	19.5	14.0	159.0	27.0	13.0	13.0	9.5
Merged-chr17-5574855-4	chr17	5574737	5574937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	MLT1H1|LTR|ERVL-MaLR	82237.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	81.0	117.5	102.0	1937.5	178.0	66.5	135.0	103.0
Merged-chr14-63119722-4	chr14	63119633	63119833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-2729.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	76.0	94.0	89.0	1600.5	159.0	46.5	77.5	91.5
Merged-chr9-123985094-3	chr9	123984992	123985192	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-6684.0	NM_007718	12770.0	Mm.423532	NM_007718	ENSMUSG00000064039	Ccr1l1	Cmkbr1l1	chemokine (C-C motif) receptor 1-like 1	protein-coding	20.0	23.0	19.5	345.0	27.0	6.0	10.5	27.5
Merged-chr7-80069521-7	chr7	80069335	80069535	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045695, intron 2 of 2)	intron (NR_045695, intron 2 of 2)	5822.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	30.0	38.0	19.5	178.0	40.5	7.0	9.0	9.0
Merged-chr6-17590446-2	chr6	17590371	17590571	+	654.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46539.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	0.0	0.0	0.0	10.5	23.0	11.0	9.5	15.5
Merged-chr2-25211426-4	chr2	25211327	25211527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021393)	promoter-TSS (NM_021393)	62.0	NM_021393	58202.0	Mm.116418	NM_021393	ENSMUSG00000013465	Nelfb	A730008L03Rik|AB041607|AI663983|Cobra1|Nelf-b	negative elongation factor complex member B	protein-coding	70.5	102.0	48.5	1085.5	144.0	58.0	49.0	46.5
Merged-chr8-71701122-2	chr8	71701023	71701223	+	908.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028189, intron 1 of 2)	intron (NM_028189, intron 1 of 2)	677.0	NM_028189	72297.0	Mm.290837	NM_028189	ENSMUSG00000031803	B3gnt3	2210008L19Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 3	protein-coding	9.0	6.0	5.5	34.5	15.0	4.0	6.5	4.5
Merged-chr1-184034824-2	chr1	184034724	184034924	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028516)	promoter-TSS (NM_028516)	443.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	14.0	13.5	21.5	152.0	35.5	26.5	12.5	22.0
Merged-chr4-65604990-4	chr4	65604852	65605052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161782)	promoter-TSS (NM_001161782)	-34.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	52.5	60.0	53.5	688.0	111.5	44.0	72.5	50.0
Merged-chr5-21056179-4	chr5	21056094	21056294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356591)	promoter-TSS (NM_001356591)	-283.0	NM_011203	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	272.0	407.0	282.0	4401.5	690.0	300.0	394.0	285.5
Merged-chr2-126476287-4	chr2	126476194	126476394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 3 of 27)	intron (NM_001359975, intron 3 of 27)	15259.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	97.5	157.0	147.0	2223.5	214.0	87.0	100.0	115.5
Merged-chr11-83064142-4	chr11	83064041	83064241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011408)	promoter-TSS (NM_011408)	-971.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	135.5	150.0	94.0	898.5	255.5	109.0	82.5	64.5
Merged-chr5-139382137-3	chr5	139382056	139382256	+	953.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	1517.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	5.5	19.5	32.0	295.0	6.5	2.5	8.5	16.0
Merged-chr15-101381941-3	chr15	101381847	101382047	+	811.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11822.0	NM_028770	74127.0	Mm.440055	NM_028770	ENSMUSG00000037185	Krt80	1200016G03Rik|2310041I20Rik|Kb20	keratin 80	protein-coding	12.0	28.0	17.0	120.5	7.5	2.0	7.0	5.5
Merged-chr16-33956358-3	chr16	33956255	33956455	+	890.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009471, exon 6 of 6)	3' UTR (NM_009471, exon 6 of 6)	10683.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	15.5	13.5	12.0	217.0	19.0	6.0	17.0	9.0
Merged-chr2-19659134-3	chr2	19659044	19659244	+	878.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027715, exon 1 of 1)	exon (NM_027715, exon 1 of 1)	1082.0	NM_027715	71198.0	Mm.83981	NM_027715	ENSMUSG00000043415	Otud1	4933428L19Rik	OTU domain containing 1	protein-coding	4.5	22.0	8.5	109.0	25.5	9.0	8.0	7.5
Merged-chr10-67290184-4	chr10	67290083	67290283	+	807.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-4902.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	8.0	18.5	12.5	108.5	27.0	7.5	24.0	10.5
Merged-chr8-34154793-8	chr8	34154701	34154901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026432, exon 1 of 6)	exon (NM_026432, exon 1 of 6)	238.0	NM_026432	67887.0	Mm.290353	NM_026432	ENSMUSG00000031532	Saraf	1810045K07Rik|Tmem66	store-operated calcium entry-associated regulatory factor	protein-coding	33.5	59.0	56.0	524.5	102.5	49.5	40.5	49.0
Merged-chr2-127080463-2	chr2	127080363	127080563	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 1 of 7)	RMER15|LTR|ERVL	9806.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	12.0	19.5	10.0	211.5	26.0	13.5	8.5	17.5
Merged-chr4-56222225-4	chr4	56222092	56222292	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	519233.0	NM_025271	11471.0	Mm.251434	NM_025271	ENSMUSG00000070980	Actl7b	Gm26657|Tact1	actin-like 7b	protein-coding	37.0	36.5	11.5	339.0	90.5	21.5	23.0	19.0
Merged-chr15-53345640-4	chr15	53345500	53345700	+	856.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010162, exon 1 of 11)	5' UTR (NM_010162, exon 1 of 11)	583.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.0	13.0	3.5	95.5	18.5	7.0	4.5	10.5
Merged-chr17-71118202-4	chr17	71118099	71118299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 33 of 36)	intron (NM_001083934, intron 33 of 36)	-65333.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	37.0	43.5	40.5	1055.0	67.5	24.5	49.0	40.5
Merged-chr9-107545797-3	chr9	107545699	107545899	+	835.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_018879)	TTS (NM_018879)	-1511.0	NM_053253	114602.0	Mm.28331	NM_053253	ENSMUSG00000010044	Zmynd10	Blu	zinc finger, MYND domain containing 10	protein-coding	4.0	20.5	0.0	24.0	24.0	14.5	11.5	16.0
Merged-chr7-110908813-1	chr7	110908713	110908913	+	592.0	f0_balb.idr	intron (NM_194464, intron 10 of 20)	HAL1b|LINE|L1	3828.0	NR_045267	100504184.0	Mm.441327	NR_045267	ENSMUSG00000087160	Gm16336	-	predicted gene 16336	ncRNA	8.0	3.0	4.5	98.5	20.0	8.0	8.0	5.0
Merged-chr4-133117715-2	chr4	133117615	133117815	+	863.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12918.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	4.5	1.0	2.0	54.5	13.5	8.0	7.0	8.0
Merged-chr5-32464861-3	chr5	32464760	32464960	+	626.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172707, intron 1 of 7)	intron (NM_172707, intron 1 of 7)	5890.0	NM_172707	19046.0	Mm.241931	NM_172707	ENSMUSG00000014956	Ppp1cb	1200010B19	protein phosphatase 1, catalytic subunit, beta isoform	protein-coding	6.0	21.0	14.5	92.0	13.5	7.5	12.5	4.0
Merged-chr10-86929153-4	chr10	86929075	86929275	+	947.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 25 of 68)	intron (NM_138673, intron 25 of 68)	78767.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	21.0	15.0	16.5	828.0	23.5	14.5	30.0	8.0
Merged-chr15-67039615-4	chr15	67039559	67039759	+	974.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70018.0	NM_008681	17988.0	Mm.30837	NM_008681	ENSMUSG00000005125	Ndrg1	CAP43|CMT4D|DRG1|HMSNL|NMSL|Ndr1|Ndrl|PROXY1|RTP|TDD5	N-myc downstream regulated gene 1	protein-coding	33.0	56.0	57.5	542.0	37.0	16.0	20.0	24.0
Merged-chr18-11687023-3	chr18	11686924	11687124	+	900.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081223, intron 4 of 18)	intron (NM_001081223, intron 4 of 18)	29675.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	0.5	2.5	2.0	39.0	44.5	11.5	14.5	21.0
Merged-chr5-122145925-4	chr5	122145848	122146048	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-7886.0	NM_183307	330188.0	Mm.386907	NM_183307	ENSMUSG00000043036	Ccdc63	4921511C16Rik	coiled-coil domain containing 63	protein-coding	29.0	19.5	10.5	290.0	58.0	15.0	28.5	25.5
Merged-chr6-94283891-4	chr6	94283718	94283918	+	932.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286784)	promoter-TSS (NM_001286784)	99.0	NM_010367	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	99.0	130.5	130.5	1735.0	19.0	13.5	19.5	15.5
Merged-chr4-102574427-4	chr4	102574329	102574529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 6 of 14)	intron (NM_019840, intron 6 of 14)	4369.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	230.0	290.0	254.5	2892.0	535.0	192.5	302.0	148.0
Merged-chr13-52602248-4	chr13	52602129	52602329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	Tigger17a|DNA|TcMar-Tigger	5347.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	41.5	116.5	67.5	560.5	130.0	40.0	48.5	24.0
Merged-chr1-91080518-4	chr1	91080421	91080621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 6 of 22)	intron (NM_008515, intron 6 of 22)	27077.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	245.5	532.5	354.5	4200.0	707.0	255.0	347.0	249.5
Merged-chr13-14618974-4	chr13	14618863	14619063	+	895.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008944, intron 3 of 7)	B3|SINE|B2	5721.0	NM_008944	19166.0	Mm.252255	NM_008944	ENSMUSG00000015671	Psma2	Lmpc3	proteasome (prosome, macropain) subunit, alpha type 2	protein-coding	3.5	11.5	4.5	193.0	30.5	7.5	9.0	12.5
Merged-chr16-17001243-1	chr16	17001143	17001343	+	596.0	f0_balb.idr	intron (NM_001038663, intron 1 of 7)	ORR1B2|LTR|ERVL-MaLR	17861.0	NM_001038663	26413.0	Mm.196581	NM_011949	ENSMUSG00000063358	Mapk1	9030612K14Rik|AA407128|AU018647|C78273|ERK|Erk2|MAPK2|PRKM2|Prkm1|p41mapk|p42mapk	mitogen-activated protein kinase 1	protein-coding	8.5	5.5	9.5	87.5	6.0	6.0	0.5	6.0
Merged-chr3-88651823-4	chr3	88651704	88651904	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_181817)	TTS (NM_181817)	1338.0	NM_181817	242093.0	Mm.269130	NM_181817	ENSMUSG00000049741	Rxfp4	GPCR142|Gpr100|Rln3r2|SALPR	relaxin family peptide receptor 4	protein-coding	22.5	35.5	11.0	260.0	33.5	15.5	15.0	22.5
Merged-chr2-39003962-2	chr2	39003862	39004062	+	823.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025592, intron 3 of 3)	intron (NM_025592, intron 3 of 3)	1169.0	NM_025592	66489.0	Mm.345333	NM_025592	ENSMUSG00000062997	Rpl35	2410039E09Rik	ribosomal protein L35	protein-coding	6.0	5.0	4.5	55.0	8.5	6.5	0.0	6.5
Merged-chr16-49854316-4	chr16	49854227	49854427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1327.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	97.0	126.5	116.0	1822.0	230.5	82.5	125.0	69.5
Merged-chr2-32694233-4	chr2	32694112	32694312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010236)	promoter-TSS (NM_010236)	-37.0	NM_010236	14287.0	Mm.3830	NM_010236	ENSMUSG00000009566	Fpgs	AA408187	folylpolyglutamyl synthetase	protein-coding	168.5	249.0	178.0	2362.0	399.0	134.0	191.5	130.5
Merged-chr9-108518200-4	chr9	108518103	108518303	+	966.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175143, intron 1 of 9)	intron (NM_175143, intron 1 of 9)	1116.0	NM_175143	69232.0	Mm.335449	NM_175143	ENSMUSG00000006673	Qrich1	2610028H07Rik|b2b2404Clo	glutamine-rich 1	protein-coding	11.5	22.5	22.5	141.0	48.0	12.0	20.5	29.0
Merged-chr11-77786413-4	chr11	77786250	77786450	+	986.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011586, intron 1 of 39)	intron (NM_011586, intron 1 of 39)	9115.0	NM_001291212	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	33.5	37.5	40.0	542.0	29.5	25.5	18.5	25.0
Merged-chr19-59042884-4	chr19	59042780	59042980	+	983.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 3 of 16)	intron (NM_001114312, intron 3 of 16)	33189.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	24.0	42.5	22.5	531.5	70.5	16.0	45.0	15.0
Merged-chr16-16526347-4	chr16	16526232	16526432	+	887.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	1079.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	5.0	8.0	7.5	161.5	32.5	11.0	11.0	17.5
Merged-chr7-99147107-4	chr7	99147001	99147201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-5957.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	96.0	131.0	69.5	1158.0	262.5	101.5	107.0	96.5
Merged-chr14-102983334-4	chr14	102983234	102983434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_039592)	promoter-TSS (NR_039592)	-697.0	NM_177715	239217.0	Mm.246466	NM_177715	ENSMUSG00000098557	Kctd12	AU046135|AW538430|Pfet1|Pfetin	potassium channel tetramerisation domain containing 12	protein-coding	78.0	129.0	106.5	1619.0	170.5	76.0	84.5	77.5
Merged-chr4-130899541-4	chr4	130899449	130899649	+	971.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13785.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	15.5	36.5	32.0	569.5	39.0	13.0	26.5	38.0
Merged-chr5-5809453-4	chr5	5809359	5809559	+	983.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60142.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	12.0	45.0	30.0	403.0	40.0	25.0	20.0	26.5
Merged-chr11-19839126-4	chr11	19839019	19839219	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-85323.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	19.5	31.0	22.0	347.5	48.5	14.0	25.0	19.0
Merged-chr14-70076853-4	chr14	70076770	70076970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289925)	promoter-TSS (NM_001289925)	-575.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	96.0	218.5	81.5	1125.0	314.0	126.0	159.0	112.0
Merged-chr13-69528606-2	chr13	69528534	69528734	+	671.5	f0_balb.idr|f1_balb.idr	intron (NM_198600, intron 1 of 12)	intron (NM_198600, intron 1 of 12)	5230.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	5.0	6.0	7.0	130.0	11.5	3.0	4.0	3.0
Merged-chr11-93885293-4	chr11	93885212	93885412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134012)	promoter-TSS (NM_134012)	454.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	31.0	38.5	23.0	335.5	65.0	32.5	25.5	36.0
Merged-chr4-134930807-4	chr4	134930693	134930893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026780)	promoter-TSS (NM_026780)	-187.0	NM_026780	68592.0	Mm.29989	NM_026780	ENSMUSG00000028821	Syf2	1110018L13Rik|Cbpin|D4Bwg1551e|Gcipip|Ntc31|mp29|p29	SYF2 homolog, RNA splicing factor (S. cerevisiae)	protein-coding	152.0	280.0	121.5	1604.5	397.0	156.0	133.5	125.5
Merged-chr4-53027326-6	chr4	53027234	53027434	+	775.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	15454.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	4.5	7.5	4.5	91.0	8.5	16.5	1.5	13.5
Merged-chr6-22494111-4	chr6	22494019	22494219	+	946.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138038.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	30.5	29.5	19.0	382.0	65.5	17.5	14.0	14.0
Merged-chr7-6155663-4	chr7	6155553	6155753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013012, intron 1 of 2)	CpG	318.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	98.0	132.0	80.0	1464.0	309.0	109.5	133.5	149.0
Merged-chr11-118457159-4	chr11	118457070	118457270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-2175.0	NR_045902	100126224.0	Mm.441989	NR_045902	ENSMUSG00000086514	Gm11747	-	predicted gene 11747	ncRNA	225.5	333.0	213.5	2913.5	611.5	215.5	213.0	217.5
Merged-chr16-36776221-2	chr16	36776124	36776324	+	586.75	f0_balb.idr|f1_balb.idr	intron (NM_001145899, intron 3 of 6)	intron (NM_001145899, intron 3 of 6)	8738.0	NM_001145899	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	1.5	17.0	9.0	104.5	17.5	8.5	5.0	7.5
Merged-chr19-37137357-4	chr19	37137277	37137477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290829, intron 3 of 9)	intron (NM_001290829, intron 3 of 9)	-36466.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	47.0	90.0	38.5	1179.5	72.5	17.5	32.5	45.5
Merged-chr18-3004902-2	chr18	3004802	3005002	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	118510.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	5.0	13.0	8.5	46.5	6.5	4.0	3.5	12.0
Merged-chr6-134863369-4	chr6	134863270	134863470	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24415.0	NR_074084	14760.0	Mm.4787	NM_008157	ENSMUSG00000032641	Gpr19	-	G protein-coupled receptor 19	protein-coding	27.0	19.0	17.0	270.0	114.5	33.5	41.5	42.0
Merged-chr13-46669479-4	chr13	46669385	46669585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033192)	promoter-TSS (NM_001033192)	-37.0	NM_001033192	97863.0	Mm.275934	NM_001033192	ENSMUSG00000069237	Fam8a1	C78339	family with sequence similarity 8, member A1	protein-coding	40.0	47.0	25.0	349.0	99.5	31.0	55.5	36.0
Merged-chr14-105164928-4	chr14	105164839	105165039	+	953.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134077, intron 1 of 20)	MTEa|LTR|ERVL-MaLR	12388.0	NM_134077	74213.0	Mm.474531	NM_134077	ENSMUSG00000022119	Rbm26	1700009P03Rik|AI447318|C230097K14Rik|C86225|MLZ-393|Pro1777|Se70-2	RNA binding motif protein 26	protein-coding	31.0	13.0	26.0	554.5	43.0	10.0	26.0	19.5
Merged-chr4-132079764-4	chr4	132079635	132079835	+	912.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4422.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	9.0	14.0	7.0	136.0	32.5	22.0	15.5	21.5
Merged-chr15-59887978-4	chr15	59887787	59887987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92928.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	25.5	51.0	17.0	366.0	52.0	22.5	16.5	27.0
Merged-chr6-145801078-3	chr6	145800981	145801181	+	960.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7302.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	9.0	20.0	16.0	165.0	5.5	3.5	4.0	1.5
Merged-chr6-124857608-3	chr6	124857507	124857707	+	872.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013534)	promoter-TSS (NM_013534)	80.0	NM_013534	14789.0	Mm.35708	NM_013534	ENSMUSG00000023191	P3h3	BC016431|Grcb|Leprel2	prolyl 3-hydroxylase 3	protein-coding	7.0	10.5	4.5	128.5	13.0	4.5	7.0	7.0
Merged-chr2-59396859-3	chr2	59396759	59396959	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10177.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	13.5	11.0	8.0	101.5	11.0	4.5	11.0	10.5
Merged-chr1-131096995-4	chr1	131096892	131097092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	CpG	851.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	112.0	200.5	152.0	1353.5	218.5	89.5	168.0	86.0
Merged-chr7-145124462-3	chr7	145124362	145124562	+	752.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	83657.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	11.5	5.0	8.5	165.0	21.0	4.0	5.5	4.5
Merged-chr17-50993817-4	chr17	50993708	50993908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 3 of 21)	intron (NM_028162, intron 3 of 21)	165570.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	173.5	213.5	150.0	2862.0	327.0	149.0	173.0	153.0
Merged-chr14-55697460-4	chr14	55697338	55697538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-15621.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	50.5	89.0	45.0	737.0	150.0	47.0	53.5	51.0
Merged-chr7-122138442-4	chr7	122138358	122138558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021608, intron 4 of 5)	intron (NM_021608, intron 4 of 5)	5417.0	NM_021608	59288.0	Mm.478285	NM_021608	ENSMUSG00000030868	Dctn5	4930427E12Rik|C78178|b2b315Clo	dynactin 5	protein-coding	44.0	35.0	49.0	588.0	80.0	39.5	35.0	40.0
Merged-chr16-38455526-4	chr16	38455437	38455637	+	925.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2848.0	NM_007414	11544.0	Mm.20047	NM_007414	ENSMUSG00000002844	Adprh	Arh1	ADP-ribosylarginine hydrolase	protein-coding	12.0	23.5	11.0	133.0	26.0	9.0	13.0	9.0
Merged-chr7-89236300-4	chr7	89236199	89236399	+	919.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 5 of 14)	intron (NM_001360746, intron 5 of 14)	102488.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	25.5	32.5	52.5	736.5	57.0	13.5	10.5	12.5
Merged-chr4-149407631-4	chr4	149407526	149407726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022022, intron 1 of 26)	intron (NM_022022, intron 1 of 26)	19005.0	NM_022022	63958.0	Mm.415260	NM_022022	ENSMUSG00000028960	Ube4b	4930551I19Rik|4933406G05Rik|AU014668|D4Bwg0973e|UFD2|UFD2a|Ufd2p|mKIAA0684	ubiquitination factor E4B	protein-coding	59.5	51.5	87.0	999.0	59.5	18.0	49.5	27.0
Merged-chr1-51494069-4	chr1	51493970	51494170	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15671.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	40.5	40.0	58.5	932.0	60.5	24.5	25.0	15.5
Merged-chr8-3670583-2	chr8	3670479	3670679	+	587.25	f0_balb.idr|f0_c57.idr	TTS (NM_001357661)	TTS (NM_001357661)	1812.0	NM_001357661	100503924.0	Mm.415621	NM_001357661	ENSMUSG00000089665	Fcor	2400009B08Rik	Foxo1 corepressor	protein-coding	9.5	11.0	8.0	83.5	22.0	6.0	12.5	15.0
Merged-chr6-58990577-3	chr6	58990485	58990685	+	896.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153574, intron 2 of 17)	intron (NM_153574, intron 2 of 17)	33917.0	NM_153574	58909.0	Mm.28813	NM_153574	ENSMUSG00000037709	Fam13a	AI462012|D430015B01Rik|FAM13A1|Precm1	family with sequence similarity 13, member A	protein-coding	7.0	5.0	8.5	114.5	6.0	5.0	4.0	5.5
Merged-chr2-122610283-3	chr2	122610170	122610370	+	883.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025961, intron 1 of 8)	intron (NM_025961, intron 1 of 8)	1007.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	15.0	17.0	14.5	258.5	17.0	6.5	8.5	13.5
Merged-chr18-82868314-2	chr18	82868214	82868414	+	676.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12417.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	3.5	15.0	8.5	43.5	17.5	6.0	7.0	7.0
Merged-chr19-5718216-2	chr19	5718107	5718307	+	899.25	f0_c57.idr|f1_c57bl6.idr	exon (NM_001114597, exon 9 of 19)	exon (NM_001114597, exon 9 of 19)	8110.0	NM_001114595	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	0.0	0.5	0.0	0.0	55.0	8.0	10.0	15.5
Merged-chr18-74778966-7	chr18	74778880	74779080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028560)	promoter-TSS (NR_028560)	-232.0	NM_177470	52538.0	Mm.245724	NM_177470	ENSMUSG00000036880	Acaa2	0610011L04Rik|AI255831|AI265397|D18Ertd240e	acetyl-Coenzyme A acyltransferase 2 (mitochondrial 3-oxoacyl-Coenzyme A thiolase)	protein-coding	84.0	151.0	117.0	1244.5	196.5	63.5	96.0	88.0
Merged-chr2-122070184-4	chr2	122070082	122070282	+	915.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145531, intron 26 of 39)	intron (NM_145531, intron 26 of 39)	41599.0	NM_001256055	100042807.0	Mm.329403	NM_001256055	ENSMUSG00000043424	Eif3j2	Eif3j-2|Gm9781|eIF3 p35|eIF3j-B	eukaryotic translation initiation factor 3, subunit J2	protein-coding	12.0	27.0	20.0	393.5	41.5	10.0	15.5	18.0
Merged-chr10-7063174-4	chr10	7063059	7063259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39974.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	112.0	122.0	131.5	1927.5	219.5	61.0	102.5	94.0
Merged-chr4-129513605-4	chr4	129513509	129513709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010807)	promoter-TSS (NM_010807)	28.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	138.5	275.5	97.0	1003.5	488.5	223.5	181.0	134.0
Merged-chr6-108098678-4	chr6	108098586	108098786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33641.0	NM_178391	74729.0	Mm.56539	NM_178391	ENSMUSG00000034639	Setmar	5830404F24Rik|Etet2	SET domain without mariner transposase fusion	protein-coding	52.0	39.0	30.0	510.0	98.0	20.0	34.0	31.0
Merged-chr8-18595037-4	chr8	18594938	18595138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173189)	promoter-TSS (NM_173189)	-93.0	NM_173189	244329.0	Mm.235296	NM_173189	ENSMUSG00000039842	Mcph1	5430437K10Rik|BRIT1|D030046N04Rik|MCT|Tg(HLA-A2.1)1Enge	microcephaly, primary autosomal recessive 1	protein-coding	68.0	97.5	110.0	973.0	104.0	54.0	67.0	46.5
Merged-chr13-49309267-4	chr13	49309172	49309372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015759)	promoter-TSS (NM_015759)	-64.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	77.0	116.0	109.0	1230.0	220.0	91.5	94.5	108.0
Merged-chr1-64448199-4	chr1	64448098	64448298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84606.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	29.5	28.5	57.0	462.0	72.5	23.5	30.5	41.0
Merged-chr2-151632276-5	chr2	151632196	151632396	+	717.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291076, intron 1 of 5)	CpG-8656	297.0	NM_198214	241727.0	Mm.39312	NM_198214	ENSMUSG00000027457	Snph	6430515A01|AW045671|AW556958|AW743098|mKIAA0374	syntaphilin	protein-coding	5.5	13.0	8.0	45.0	4.0	5.0	2.5	11.0
Merged-chr8-117245550-2	chr8	117245450	117245650	+	571.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-11469.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	3.0	5.0	9.0	53.5	13.5	9.5	8.0	12.0
Merged-chr9-77709177-4	chr9	77709093	77709293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45342.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	35.0	40.5	27.0	625.0	92.0	19.0	40.0	38.5
Merged-chr13-102694255-5	chr13	102694151	102694351	+	921.8800050000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360519, intron 1 of 2)	intron (NM_001360519, intron 1 of 2)	693.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	2.5	2.5	8.0	52.0	19.5	9.5	9.0	15.0
Merged-chr9-55149887-4	chr9	55149793	55149993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346658)	promoter-TSS (NM_001346658)	-190.0	NM_001346658	109161.0	Mm.207894	NM_180600	ENSMUSG00000032307	Ube2q2	3010021M21Rik	ubiquitin-conjugating enzyme E2Q family member 2	protein-coding	20.5	33.0	30.5	210.0	41.5	15.5	16.0	39.5
Merged-chr19-46047620-3	chr19	46047518	46047718	+	659.455566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-2307.0	NM_001113408	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	6.0	12.0	6.0	150.0	16.0	8.0	10.0	10.5
Merged-chr8-80880535-4	chr8	80880424	80880624	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301298)	promoter-TSS (NM_001301298)	-5.0	NM_001301298	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	31.0	38.5	19.0	295.5	34.0	12.0	23.5	19.5
Merged-chr2-26550040-4	chr2	26549934	26550134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31022.0	NM_178444	353156.0	Mm.268933	NM_178444	ENSMUSG00000026921	Egfl7	VE-statin|Zneu1	EGF-like domain 7	protein-coding	68.5	94.0	50.5	810.5	78.0	39.5	52.0	37.5
Merged-chr12-80812092-4	chr12	80812008	80812208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	21576.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	41.5	63.5	49.5	485.0	87.0	34.0	30.5	31.5
Merged-chr16-33573933-4	chr16	33573830	33574030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 4 of 11)	MIR3|SINE|MIR	55335.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	160.0	278.5	131.5	1788.0	411.0	158.5	152.5	109.0
Merged-chr11-5740771-4	chr11	5740679	5740879	+	925.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	CpG	397.0	NM_001361590	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	20.0	25.5	20.5	126.0	36.0	16.5	19.0	19.0
Merged-chr15-57694582-4	chr15	57694490	57694690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199449)	promoter-TSS (NM_199449)	-77.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	48.0	94.0	32.5	699.0	188.0	52.5	58.0	52.0
Merged-chr9-110692665-3	chr9	110692572	110692772	+	923.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 2 of 6)	URR1B|DNA|hAT-Charlie	36169.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	19.0	22.5	33.0	196.0	15.0	3.0	5.5	5.0
Merged-chr19-53895011-4	chr19	53894912	53895112	+	899.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011050, intron 1 of 11)	intron (NM_011050, intron 1 of 11)	2781.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	14.0	6.0	10.0	246.0	26.0	11.5	12.5	11.0
Merged-chr19-56556174-4	chr19	56556047	56556247	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025811, intron 2 of 10)	intron (NM_025811, intron 2 of 10)	7886.0	NM_025811	66866.0	Mm.46346	NM_025811	ENSMUSG00000025078	Nhlrc2	1200003G01Rik|AI835049|AV002846|AW496455	NHL repeat containing 2	protein-coding	16.0	22.0	24.5	537.0	45.0	14.5	22.5	21.5
Merged-chr14-27315500-3	chr14	27315370	27315570	+	899.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 2 of 10)	G-rich|Low_complexity|Low_complexity	-20567.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	10.0	10.0	6.0	64.5	8.5	1.0	3.0	2.0
Merged-chr5-107866603-4	chr5	107866512	107866712	+	964.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 1 of 17)	HAL1|LINE|L1	8495.0	NM_007964	14020.0	Mm.35796	NM_007964	ENSMUSG00000011831	Evi5	NB4S	ecotropic viral integration site 5	protein-coding	24.5	32.0	19.5	629.0	58.5	10.5	24.5	19.0
Merged-chr2-128751123-4	chr2	128751050	128751250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 5 of 18)	(A)n|Simple_repeat|Simple_repeat	52235.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	34.0	68.0	30.5	504.5	83.5	32.5	35.0	43.0
Merged-chr17-24644094-4	chr17	24643963	24644163	+	792.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023055, intron 2 of 6)	intron (NM_023055, intron 2 of 6)	894.0	NM_023449	65962.0	Mm.21587	NM_023055	ENSMUSG00000002504	Slc9a3r2	0610011L07Rik|1200011K07Rik|2010007A20Rik|E3karp|NHERF-2|Nherf2|Octs2|Sip-1|Sip1|Sryip1|Tka-1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 2	protein-coding	7.0	11.5	11.5	88.5	20.5	6.0	9.0	11.0
Merged-chr16-59499379-1	chr16	59499279	59499479	+	770.0	f0_balb.idr	intron (NM_174848, intron 16 of 18)	intron (NM_174848, intron 16 of 18)	27604.0	NM_025910	67014.0	Mm.289150	NM_025910	ENSMUSG00000022724	Riox2	1810047J07Rik|2410057H13Rik|3830408E23Rik|AI449204|Mina	ribosomal oxygenase 2	protein-coding	5.0	6.0	6.5	94.5	5.5	0.5	0.0	1.0
Merged-chr11-85524394-4	chr11	85524332	85524532	+	813.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 16 of 25)	intron (NM_138681, intron 16 of 25)	171268.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	4.0	6.5	8.5	195.5	29.0	11.0	13.5	17.0
Merged-chr12-117378628-1	chr12	117378528	117378728	+	861.6666869999999	f0_balb.idr	Intergenic	Intergenic	-41616.0	NR_044987	432713.0	Mm.459210	NR_044987	ENSMUSG00000101930	Gm5441	-	predicted gene 5441	ncRNA	11.0	14.0	17.5	168.5	1.0	1.0	5.5	1.0
Merged-chr9-20869356-3	chr9	20869279	20869479	+	834.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175687, exon 2 of 8)	exon (NM_175687, exon 2 of 8)	737.0	NM_175687	319278.0	Mm.249932	NM_175687	ENSMUSG00000038884	A230050P20Rik	RyDEN	RIKEN cDNA A230050P20 gene	protein-coding	17.5	11.5	17.5	143.5	14.5	18.5	3.5	15.5
Merged-chr15-82126825-4	chr15	82126750	82126950	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310435)	TTS (NM_001310435)	-1072.0	NM_172428	76457.0	Mm.440373	NM_172428	ENSMUSG00000068114	Ccdc134	2310042L06Rik|AW208859	coiled-coil domain containing 134	protein-coding	23.5	20.5	15.0	508.0	97.0	32.0	65.5	47.5
Merged-chr5-77217444-3	chr5	77217332	77217532	+	881.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5961.0	NM_001289768	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	4.5	8.0	3.0	147.5	42.5	10.5	10.0	17.5
Merged-chr1-16104421-2	chr1	16104318	16104518	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_011291)	promoter-TSS (NM_011291)	15.0	NM_011291	19989.0	Mm.319659	NM_011291	ENSMUSG00000043716	Rpl7	Rpl7a|Surf-3	ribosomal protein L7	protein-coding	29.5	51.0	22.0	289.5	126.5	48.5	35.0	34.5
Merged-chr4-135495180-1	chr4	135495080	135495280	+	739.0	f0_balb.idr	promoter-TSS (NM_028995)	promoter-TSS (NM_028995)	-211.0	NM_001361484	74552.0	Mm.26548	NM_028995	ENSMUSG00000028803	Nipal3	9130020G22Rik|AI480660|Npal3	NIPA-like domain containing 3	protein-coding	6.5	5.5	8.0	130.0	13.5	6.0	13.0	6.5
Merged-chr16-38198396-4	chr16	38198303	38198503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347232, intron 7 of 11)	MTC|LTR|ERVL-MaLR	96421.0	NM_010936	18171.0	Mm.8509	NM_010936	ENSMUSG00000022809	Nr1i2	PXR|PXR.1|PXR.2|PXR1|SXR|mPXR	nuclear receptor subfamily 1, group I, member 2	protein-coding	18.5	48.0	25.5	449.5	88.5	47.5	26.5	12.5
Merged-chr5-99297787-4	chr5	99297695	99297895	+	932.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030692, exon 4 of 4)	non-coding (NR_030692, exon 4 of 4)	-44868.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	10.5	25.0	20.0	277.0	22.5	12.0	14.5	19.0
Merged-chr1-194978219-3	chr1	194978130	194978330	+	878.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1271.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	12.5	10.5	9.5	82.0	25.5	3.5	8.0	6.5
Merged-chr17-73031322-3	chr17	73031240	73031440	+	933.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-76645.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	2.0	1.0	0.0	21.5	37.5	22.0	17.0	20.0
Merged-chr2-14234211-4	chr2	14234119	14234319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 1 of 29)	LTR16C|LTR|ERVL	4805.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	55.0	91.0	27.5	728.5	131.0	54.0	63.5	37.0
Merged-chr2-173356242-3	chr2	173356125	173356325	+	930.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-79692.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	9.5	5.5	6.0	120.5	20.0	3.0	2.0	2.5
Merged-chr5-65937125-3	chr5	65937037	65937237	+	864.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-29987.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	10.0	11.0	6.0	93.0	10.5	3.5	9.5	9.0
Merged-chr15-64382674-5	chr15	64382597	64382797	+	773.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 1 of 28)	CpG	222.0	NM_001276461	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	7.5	9.5	11.5	229.0	18.5	5.5	6.5	15.0
Merged-chr1-54837862-4	chr1	54837736	54837936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	88551.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	72.0	75.5	72.5	1090.5	82.0	44.5	58.0	55.5
Merged-chr14-62800204-3	chr14	62800103	62800303	+	973.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045503, intron 2 of 6)	MLT2B4|LTR|ERVL	-37487.0	NM_175546	268752.0	Mm.1960	NM_175546	ENSMUSG00000014547	Wdfy2	5830485M08|B130024L21Rik|ProF|ZFYVE22	WD repeat and FYVE domain containing 2	protein-coding	5.5	10.0	18.5	175.0	10.0	3.5	6.0	4.0
Merged-chr11-69097131-4	chr11	69097012	69097212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1837.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	224.5	199.5	140.5	1950.5	306.5	146.5	144.0	135.5
Merged-chr9-70848585-3	chr9	70848471	70848671	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	86237.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	9.0	17.5	14.0	180.5	10.5	9.0	5.0	6.5
Merged-chr16-25053739-3	chr16	25053630	25053830	+	885.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5909.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	6.0	13.5	2.0	69.0	24.5	6.0	9.5	6.0
Merged-chr17-28525049-3	chr17	28524948	28525148	+	869.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-5813.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	7.0	4.0	2.5	111.0	16.5	10.0	4.5	11.0
Merged-chr6-87017117-3	chr6	87016994	87017194	+	868.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020045, intron 3 of 7)	B3A|SINE|B2	7258.0	NM_020045	56748.0	Mm.23809	NM_020045	ENSMUSG00000029993	Nfu1	0610006G17Rik|CGI-33|Hirip5	NFU1 iron-sulfur cluster scaffold	protein-coding	12.0	17.5	13.0	56.5	16.5	3.0	5.0	4.0
Merged-chr3-84480432-3	chr3	84480316	84480516	+	748.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205355)	promoter-TSS (NM_001205355)	23.0	NM_001033301	229474.0	Mm.331107	NM_001033301	ENSMUSG00000041842	Fhdc1	6330505N24Rik|Gm126	FH2 domain containing 1	protein-coding	6.5	5.0	5.5	73.5	13.5	2.5	0.5	7.0
Merged-chr1-136581540-6	chr1	136581399	136581599	+	916.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-43402.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	14.0	6.5	4.0	67.0	14.0	8.0	4.5	9.5
Merged-chr13-41359021-4	chr13	41358921	41359121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017464)	promoter-TSS (NM_017464)	-20.0	NM_017464	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	88.5	117.0	66.5	1442.0	199.0	67.0	93.5	67.5
Merged-chr10-37386398-4	chr10	37386294	37386494	+	875.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-247468.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	15.5	15.0	9.0	178.0	33.5	6.5	14.5	11.5
Merged-chr10-85125856-4	chr10	85125730	85125930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028832, intron 2 of 2)	L2|LINE|L2	2197.0	NM_028832	74238.0	Mm.255401	NM_028832	ENSMUSG00000049038	Mterf2	1700007D05Rik|Mterfd3	mitochondrial transcription termination factor 2	protein-coding	34.0	30.0	29.5	738.0	77.0	18.5	52.5	44.0
Merged-chr17-68223433-4	chr17	68223385	68223585	+	826.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50312.0	NM_177278	320858.0	Mm.137356	NM_177278	ENSMUSG00000041565	L3mbtl4	A730037L19Rik|D930040M24Rik	L3MBTL4 histone methyl-lysine binding protein	protein-coding	2.5	13.5	15.5	135.0	16.0	14.5	6.0	8.0
Merged-chr1-180794356-4	chr1	180794294	180794494	+	815.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	19211.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	7.0	23.5	8.5	74.0	17.0	9.0	6.0	19.0
Merged-chr7-28383096-4	chr7	28383035	28383235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3907.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	297.0	409.5	385.5	4852.0	654.0	279.0	372.0	272.5
Merged-chr11-67085655-4	chr11	67085550	67085750	+	789.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099635, intron 10 of 40)	intron (NM_001099635, intron 10 of 40)	7350.0	NM_001099635	17883.0	Mm.340090	NM_001099635	ENSMUSG00000020908	Myh3	MyHC-emb|Myhs-e|Myhse	myosin, heavy polypeptide 3, skeletal muscle, embryonic	protein-coding	2.0	9.5	3.5	98.0	20.5	7.5	11.5	8.0
Merged-chr8-70673255-4	chr8	70673166	70673366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015816)	promoter-TSS (NM_015816)	35.0	NM_015816	50783.0	Mm.248188	NM_015816	ENSMUSG00000031848	Lsm4	-	LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	231.0	406.0	132.0	2531.5	565.5	222.5	222.0	191.0
Merged-chr15-81466672-4	chr15	81466543	81466743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019712, intron 1 of 4)	CpG	327.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	59.5	85.5	45.0	894.5	201.5	68.5	93.5	86.0
Merged-chr10-91181792-4	chr10	91181712	91181912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10193.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	100.0	164.0	104.5	1670.0	339.5	125.5	177.5	141.0
Merged-chr4-145585279-3	chr4	145585210	145585410	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001324416, exon 1 of 4)	5' UTR (NM_001324416, exon 1 of 4)	110.0	NM_001324416	433801.0	Mm.276881	NM_001013808	ENSMUSG00000078502	Gm13212	-	predicted gene 13212	protein-coding	3.5	8.0	3.0	6.5	104.0	38.0	32.5	25.0
Merged-chr3-97230352-3	chr3	97230274	97230474	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3010.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	5.0	4.0	4.0	94.0	10.5	5.0	8.5	11.0
Merged-chr17-63864891-2	chr17	63864791	63864991	+	807.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	intron (NM_001037997, intron 1 of 18)	910.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	4.0	2.5	9.0	78.5	6.5	8.0	5.0	5.5
Merged-chr14-74704023-4	chr14	74703888	74704088	+	947.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172812, intron 2 of 2)	intron (NM_172812, intron 2 of 2)	-28309.0	NM_001285423	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	11.0	24.5	23.5	397.0	28.5	20.5	29.5	20.0
Merged-chr9-21367659-4	chr9	21367531	21367731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010561)	promoter-TSS (NM_010561)	-240.0	NM_001042708	16201.0	Mm.440026	NM_010561	ENSMUSG00000032178	Ilf3	MBII-26|MPHOSPH4|NF90|NFAR	interleukin enhancer binding factor 3	protein-coding	181.0	285.0	105.5	1822.0	465.5	221.5	127.0	161.0
Merged-chr17-35209944-2	chr17	35209848	35210048	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-4597.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	30.5	41.5	26.0	454.5	87.5	23.5	29.0	33.5
Merged-chr10-91139675-4	chr10	91139583	91139783	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15720.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	22.0	48.5	27.5	348.0	51.0	18.0	16.5	8.5
Merged-chr3-127498371-3	chr3	127498275	127498475	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	740.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	1.5	4.0	3.0	25.0	52.5	14.0	22.5	30.5
Merged-chr18-24045859-4	chr18	24045760	24045960	+	808.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-25047.0	NM_021559	59057.0	Mm.417427	NM_021559	ENSMUSG00000051469	Zfp24	3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf24	zinc finger protein 24	protein-coding	13.0	8.5	4.0	127.5	19.5	9.0	12.5	8.5
Merged-chr1-60158598-4	chr1	60158486	60158686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-22013.0	NM_173444	269198.0	Mm.205224	NM_173444	ENSMUSG00000073664	Nbeal1	2310076G13Rik|A530050O19Rik|A530083I02Rik|AI662228|ALS2CR17	neurobeachin like 1	protein-coding	25.0	39.5	27.0	393.0	90.0	17.5	38.5	36.5
Merged-chr14-20179238-3	chr14	20179131	20179331	+	570.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021542, intron 1 of 4)	intron (NM_021542, intron 1 of 4)	2551.0	NM_021542	16529.0	Mm.68998	NM_021542	ENSMUSG00000023243	Kcnk5	KCNK5b|TASK-2	potassium channel, subfamily K, member 5	protein-coding	6.0	23.0	10.5	113.5	13.5	3.5	7.0	7.0
Merged-chr2-152805068-4	chr2	152804973	152805173	+	991.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	23416.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	25.5	19.5	19.5	278.0	29.5	17.5	17.5	19.0
Merged-chr11-5485989-4	chr11	5485958	5486158	+	842.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34583.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	10.0	9.5	7.5	138.5	32.5	4.0	6.0	2.0
Merged-chr12-101740250-4	chr12	101740142	101740342	+	981.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21719.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	30.0	13.5	57.0	687.5	61.5	20.0	56.0	44.5
Merged-chr18-53238574-4	chr18	53238462	53238662	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7100.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	39.5	36.0	48.0	814.0	46.5	17.0	30.0	27.5
Merged-chr1-182983163-4	chr1	182983089	182983289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28401.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	46.5	43.5	56.5	677.0	51.0	32.0	30.0	33.0
Merged-chr5-135780628-4	chr5	135780546	135780746	+	751.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008617, intron 1 of 8)	intron (NM_008617, intron 1 of 8)	1997.0	NM_008617	17448.0	Mm.297096	NM_008617	ENSMUSG00000019179	Mdh2	MDH|Mdh-2|Mor-1|Mor1	malate dehydrogenase 2, NAD (mitochondrial)	protein-coding	14.0	3.5	9.5	162.5	18.5	9.0	9.0	12.5
Merged-chr1-52801854-4	chr1	52801700	52801900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008384, intron 1 of 5)	intron (NM_008384, intron 1 of 5)	15888.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	55.0	46.0	67.0	758.5	174.0	48.5	71.0	70.5
Merged-chr10-86706313-4	chr10	86706165	86706365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011631)	promoter-TSS (NM_011631)	454.0	NM_001003939	103220.0	Mm.440762	NM_153595	ENSMUSG00000044937	Ttc41	AI449705|AU041509|Gnn	tetratricopeptide repeat domain 41	protein-coding	61.0	68.5	53.0	726.5	98.5	32.5	40.0	41.0
Merged-chr11-120046933-2	chr11	120046847	120047047	+	946.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001198785, exon 1 of 14)	exon (NM_001198785, exon 1 of 14)	198.0	NM_001198785	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	9.0	10.5	9.5	52.5	9.0	3.0	4.5	5.0
Merged-chr11-116782812-4	chr11	116782722	116782922	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGGGG)n|Simple_repeat|Simple_repeat	-7315.0	NM_011371	20445.0	Mm.436887	NM_011371	ENSMUSG00000009588	St6galnac1	Siat7a	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1	protein-coding	60.0	111.0	26.5	339.0	62.0	17.5	16.0	9.0
Merged-chr7-118533185-8	chr7	118533101	118533301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001304758, exon 1 of 7)	exon (NM_001304758, exon 1 of 7)	155.0	NM_001304758	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	35.0	68.5	70.5	688.0	143.0	82.5	55.5	83.0
Merged-chr5-108105692-3	chr5	108105591	108105791	+	861.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152817, intron 16 of 16)	intron (NR_152817, intron 16 of 16)	26929.0	NM_001347383	73130.0	Mm.363960	NM_028876	ENSMUSG00000063406	Tmed5	3110020O18Rik|4432412D15Rik|p24gamma2	transmembrane p24 trafficking protein 5	protein-coding	3.5	8.0	6.0	101.0	25.5	6.0	7.5	8.0
Merged-chr17-34879686-4	chr17	34879591	34879791	+	926.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013484, intron 3 of 17)	intron (NM_013484, intron 3 of 17)	2409.0	NM_013484	12263.0	Mm.283217	NM_013484	ENSMUSG00000024371	C2	-	complement component 2 (within H-2S)	protein-coding	16.5	23.5	6.0	218.0	76.5	13.0	14.0	7.5
Merged-chr13-20091440-4	chr13	20091373	20091573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	CpG	966.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	37.0	60.5	63.5	631.5	117.5	74.5	51.0	67.0
Merged-chr10-75773465-4	chr10	75773339	75773539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010027)	promoter-TSS (NM_010027)	-65.0	NM_010027	13202.0	Mm.298947	NM_010027	ENSMUSG00000001666	Ddt	C78655	D-dopachrome tautomerase	protein-coding	87.0	122.0	77.0	1821.0	262.0	99.5	121.0	97.0
Merged-chr4-46602184-4	chr4	46602082	46602282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164804)	promoter-TSS (NM_001164804)	-253.0	NM_001164804	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	57.5	72.0	55.5	717.5	113.5	57.0	49.5	48.0
Merged-chr1-155158639-4	chr1	155158560	155158760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021433)	promoter-TSS (NM_021433)	-43.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	184.5	288.0	191.0	2694.0	441.5	160.5	178.5	159.0
Merged-chr6-51534019-4	chr6	51533923	51534123	+	944.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361581, intron 1 of 6)	intron (NM_001361581, intron 1 of 6)	9763.0	NM_001361580	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	24.0	39.5	25.5	152.0	49.0	20.0	13.0	12.0
Merged-chr8-122315687-4	chr8	122315593	122315793	+	801.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009569, intron 3 of 9)	intron (NM_009569, intron 3 of 9)	33552.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	11.5	11.5	13.0	249.0	21.0	3.0	11.5	8.5
Merged-chr2-167942475-3	chr2	167942405	167942605	+	796.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	10178.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	5.0	7.5	16.0	49.5	17.0	4.5	4.5	8.5
Merged-chr17-62574742-4	chr17	62574619	62574819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	306598.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	138.0	135.0	172.5	2680.5	361.0	113.5	133.5	173.5
Merged-chr7-137411631-4	chr7	137411547	137411747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029886)	promoter-TSS (NM_029886)	-891.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	82.0	111.0	70.0	1450.5	187.0	52.5	103.0	96.0
Merged-chr4-142095757-4	chr4	142095648	142095848	+	948.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11444.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	25.0	29.0	35.5	562.0	31.5	5.5	13.5	17.5
Merged-chr15-90649534-3	chr15	90649434	90649634	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033851, intron 1 of 3)	intron (NM_001033851, intron 1 of 3)	29854.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	6.5	17.0	23.5	416.0	8.5	0.0	0.5	2.0
Merged-chr14-20479950-4	chr14	20479859	20480059	+	953.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009674, exon 1 of 13)	5' UTR (NM_009674, exon 1 of 13)	174.0	NM_001110794	11750.0	Mm.280231	NM_009674	ENSMUSG00000021814	Anxa7	AI265384|AI316497|Anx7|synexin	annexin A7	protein-coding	17.5	31.5	10.5	275.0	24.5	15.5	17.5	19.0
Merged-chr12-111699463-4	chr12	111699377	111699577	+	953.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13476.0	NM_001324481	70369.0	Mm.44239	NM_027404	ENSMUSG00000049792	Bag5	1600025G07Rik|4930405J06Rik|Bag-5	BCL2-associated athanogene 5	protein-coding	21.0	45.0	38.5	475.5	36.0	14.0	38.5	14.5
Merged-chr14-20827625-4	chr14	20827531	20827731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9031.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	24.0	55.5	23.5	277.0	154.5	27.5	52.0	36.0
Merged-chr5-30009542-2	chr5	30009442	30009642	+	890.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3572.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	2.5	3.0	2.0	62.5	31.0	6.0	4.5	7.0
Merged-chr16-76053751-4	chr16	76053632	76053832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52948.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	71.0	84.5	84.0	1666.5	118.0	44.0	74.5	73.0
Merged-chr15-35870513-3	chr15	35870413	35870613	+	836.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177151, intron 44 of 61)	intron (NM_177151, intron 44 of 61)	67733.0	NM_053071	12864.0	Mm.548	NM_053071	ENSMUSG00000014313	Cox6c	-	cytochrome c oxidase subunit VIc	protein-coding	11.0	12.0	10.5	131.0	17.0	7.5	10.0	11.5
Merged-chr14-70205107-4	chr14	70204990	70205190	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271408)	promoter-TSS (NM_001271408)	-467.0	NM_001271408	20410.0	Mm.5068	NM_011366	ENSMUSG00000022091	Sorbs3	SCAM-1|SH3P3|Sh3d4|vinexin-g	sorbin and SH3 domain containing 3	protein-coding	42.0	32.5	34.5	529.5	27.5	12.5	27.0	25.0
Merged-chr2-29802642-4	chr2	29802553	29802753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011989)	promoter-TSS (NM_011989)	-27.0	NM_011989	26569.0	Mm.330113	NM_011989	ENSMUSG00000059316	Slc27a4	BB144259|FATP4	solute carrier family 27 (fatty acid transporter), member 4	protein-coding	71.5	117.0	69.5	1079.5	128.5	51.0	82.5	48.5
Merged-chr14-59365486-4	chr14	59365385	59365585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199015)	promoter-TSS (NM_199015)	5.0	NM_199015	219132.0	Mm.479285	NM_199015	ENSMUSG00000068245	Phf11d	D14Ertd668e|Phf11|Phf11l	PHD finger protein 11D	protein-coding	131.5	163.0	145.5	2399.5	287.0	118.0	138.0	126.0
Merged-chr18-8638185-4	chr18	8638083	8638283	+	986.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-574673.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	10.5	7.5	25.0	280.5	135.5	42.0	67.0	65.5
Merged-chr2-164443223-4	chr2	164443105	164443305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011521)	promoter-TSS (NM_011521)	-17.0	NM_011521	20971.0	Mm.3815	NM_011521	ENSMUSG00000017009	Sdc4	AA959608|AW108331|S4|Synd4|ryudocan|syndecan-4	syndecan 4	protein-coding	82.0	277.0	104.5	372.0	327.5	114.5	87.0	43.5
Merged-chr11-70020896-4	chr11	70020794	70020994	+	969.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007864, intron 1 of 19)	intron (NM_007864, intron 1 of 19)	2289.0	NM_007864	13385.0	Mm.27256	NM_007864	ENSMUSG00000020886	Dlg4	Dlgh4|PSD-95|PSD95|SAP90|SAP90A	discs large MAGUK scaffold protein 4	protein-coding	18.0	34.0	15.5	173.5	74.0	11.0	43.0	21.5
Merged-chr5-124446031-5	chr5	124445926	124446126	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310727)	promoter-TSS (NM_001310727)	527.0	NM_001310723	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	5.0	13.0	8.5	93.5	11.0	8.5	1.5	10.0
Merged-chr10-58406072-4	chr10	58405967	58406167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359116, intron 2 of 9)	ORR1E|LTR|ERVL-MaLR	11694.0	NM_001346676	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	66.5	84.5	61.0	1026.5	165.0	66.0	70.5	67.0
Merged-chr15-78583518-3	chr15	78583403	78583603	+	888.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1914.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	7.5	10.5	7.5	103.5	1.5	1.5	0.5	2.5
Merged-chr11-31851257-1	chr11	31851157	31851357	+	687.0	f0_balb.idr	Intergenic	Intergenic	-19683.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	8.0	7.5	7.0	119.0	16.0	5.0	0.0	1.0
Merged-chr10-80678338-4	chr10	80678240	80678440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2047.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	93.0	80.0	57.0	1136.0	144.5	49.0	80.5	64.0
Merged-chr13-12047250-4	chr13	12047132	12047332	+	861.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023868, intron 1 of 104)	intron (NM_023868, intron 1 of 104)	59713.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	13.5	6.0	6.5	213.0	27.5	9.5	11.5	13.5
Merged-chr1-153790852-1	chr1	153790752	153790952	+	625.333313	f0_balb.idr	intron (NM_001243223, intron 17 of 20)	intron (NM_001243223, intron 17 of 20)	41426.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	7.0	9.0	9.0	130.0	4.0	1.0	8.0	7.0
Merged-chr2-60178349-4	chr2	60178259	60178459	+	945.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31577.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	13.0	31.0	15.0	122.0	49.5	18.5	18.0	22.5
Merged-chr11-34010996-4	chr11	34010913	34011113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-17820.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	180.0	311.5	196.5	1903.5	519.0	191.0	227.0	188.5
Merged-chr12-84773083-4	chr12	84772973	84773173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023409)	promoter-TSS (NM_023409)	39.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	376.5	650.5	390.5	5097.5	936.5	370.5	502.5	341.5
Merged-chr8-84709305-4	chr8	84709172	84709372	+	969.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081982, intron 9 of 9)	intron (NM_001081982, intron 9 of 9)	7815.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	10.5	37.5	16.5	247.0	32.5	5.5	19.0	9.5
Merged-chr2-73371350-3	chr2	73371191	73371391	+	888.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276444, intron 4 of 15)	intron (NM_001276444, intron 4 of 15)	15189.0	NM_001276443	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	5.5	6.5	8.0	114.0	5.5	7.0	6.0	5.5
Merged-chr1-172632627-3	chr1	172632519	172632719	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026725, exon 1 of 2)	exon (NM_026725, exon 1 of 2)	355.0	NM_026725	68440.0	Mm.33024	NM_026725	ENSMUSG00000026544	Dusp23	1300005N15Rik|LDP-3	dual specificity phosphatase 23	protein-coding	28.0	47.5	44.0	384.5	83.5	34.5	52.5	40.5
Merged-chr4-130308661-3	chr4	130308574	130308774	+	752.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010174)	promoter-TSS (NM_010174)	-104.0	NM_010174	14077.0	Mm.388886	NM_010174	ENSMUSG00000028773	Fabp3	Fabph-1|Fabph-4|Fabph1|Fabph4|H-FABP|Mdgi	fatty acid binding protein 3, muscle and heart	protein-coding	5.5	17.5	10.0	100.0	12.0	9.5	7.0	11.0
Merged-chr11-77491280-4	chr11	77491216	77491416	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1638.0	NM_172945	268445.0	Mm.39296	NM_172945	ENSMUSG00000037907	Ankrd13b	AW124583|B930093C12Rik	ankyrin repeat domain 13b	protein-coding	15.5	15.5	15.5	189.0	38.5	6.0	16.5	15.5
Merged-chr2-52483689-4	chr2	52483590	52483790	+	944.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	-58816.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	17.5	38.5	22.5	271.5	53.0	16.0	8.5	13.0
Merged-chr16-35903174-4	chr16	35903091	35903291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31809.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	37.0	49.5	27.5	402.5	122.5	52.0	39.0	51.5
Merged-chr5-92256706-4	chr5	92256605	92256805	+	935.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011148)	promoter-TSS (NM_011148)	-427.0	NM_011148	19023.0	Mm.87155	NM_011148	ENSMUSG00000029410	Ppef2	-	protein phosphatase, EF hand calcium-binding domain 2	protein-coding	21.0	19.5	28.0	463.5	27.5	11.5	9.0	15.0
Merged-chr9-89704507-3	chr9	89704419	89704619	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025360, intron 1 of 2)	intron (NM_025360, intron 1 of 2)	524.0	NM_025360	66111.0	Mm.27606	NM_025360	ENSMUSG00000032353	Tmed3	1200002G13Rik|AW546672|P24b	transmembrane p24 trafficking protein 3	protein-coding	9.0	13.0	10.0	97.5	18.0	5.5	7.0	12.5
Merged-chr18-67725199-2	chr18	67725099	67725299	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127177)	promoter-TSS (NM_001127177)	-578.0	NM_008977	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	3.5	19.5	6.0	64.5	30.0	10.0	5.0	9.0
Merged-chr8-76899690-2	chr8	76899585	76899785	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NR_028579, intron 1 of 1)	CpG	936.0	NR_028579	102640923.0	Mm.367571	NR_028579	ENSMUSG00000074235	Gm10649	-	predicted gene 10649	ncRNA	26.0	36.0	32.5	318.0	39.0	13.0	34.5	19.0
Merged-chr16-95658992-4	chr16	95658894	95659094	+	752.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43413.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	9.5	4.5	4.5	94.0	23.0	9.5	8.5	7.5
Merged-chr15-59064124-4	chr15	59064030	59064230	+	854.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 1 of 14)	intron (NM_144800, intron 1 of 14)	17896.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	13.0	17.5	9.5	181.0	25.0	6.0	8.5	4.5
Merged-chr5-79812221-4	chr5	79812148	79812348	+	872.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MURVY-int|LTR|ERV1	-1208323.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	11.5	9.5	12.5	270.5	21.0	6.5	13.0	10.0
Merged-chr10-118178996-2	chr10	118178881	118179081	+	779.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-25983.0	NM_016971	50929.0	Mm.103585	NM_016971	ENSMUSG00000074695	Il22	IL-22|IL-22a|ILTIFa|Iltif	interleukin 22	protein-coding	15.5	8.0	15.5	298.5	4.5	10.5	7.5	14.5
Merged-chr17-35919127-4	chr17	35919074	35919274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357740)	promoter-TSS (NM_001357740)	-98.0	NM_001357740	52040.0	Mm.29385	NM_175934	ENSMUSG00000039220	Ppp1r10	2610025H06Rik|Cat53|D17Ertd808e|Fb19|Pnuts	protein phosphatase 1, regulatory subunit 10	protein-coding	58.5	104.0	33.0	711.5	202.5	54.0	70.5	73.0
Merged-chr3-40540820-4	chr3	40540727	40540927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175515)	promoter-TSS (NM_175515)	60.0	NM_175515	380614.0	Mm.105309	NM_175515	ENSMUSG00000060798	Intu	9230116I04Rik|9430087H23Rik|Pdzd6|Pdzk6|mKIAA1284	inturned planar cell polarity protein	protein-coding	74.5	104.0	78.5	1278.5	133.5	48.5	63.0	51.0
Merged-chr17-27018034-4	chr17	27017959	27018159	+	784.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001251881)	promoter-TSS (NM_001251881)	24.0	NM_001251881	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	9.0	12.5	9.0	106.0	28.5	9.0	7.5	11.5
Merged-chr12-100131906-2	chr12	100131806	100132006	+	815.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290303, intron 10 of 13)	intron (NM_001290303, intron 10 of 13)	19575.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	4.0	5.0	9.5	85.0	13.0	9.0	4.5	4.5
Merged-chr13-102688362-4	chr13	102688277	102688477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR104_Mam|LTR|Gypsy	-5170.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	80.0	129.5	117.5	1947.5	249.0	92.5	114.5	74.5
Merged-chr19-45675981-4	chr19	45675874	45676074	+	991.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15781.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	15.5	28.5	21.5	482.5	45.5	8.5	17.5	28.0
Merged-chr3-63976148-4	chr3	63976065	63976265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033300)	promoter-TSS (NM_001033300)	22.0	NM_001033300	229363.0	Mm.331051	NM_001033300	ENSMUSG00000027823	Gmps	670032|AA591640|AI047208|Gm9479	guanine monophosphate synthetase	protein-coding	95.5	125.0	107.0	1655.5	242.5	91.5	152.5	111.0
Merged-chr3-139025266-4	chr3	139025174	139025374	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 2 of 13)	intron (NM_001356388, intron 2 of 13)	49927.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	22.5	31.5	20.5	309.0	63.5	26.0	17.0	10.5
Merged-chr1-134784632-4	chr1	134784542	134784742	+	780.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081307, intron 18 of 23)	intron (NM_001081307, intron 18 of 23)	19079.0	NR_015606	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	3.0	11.5	7.0	135.0	32.0	10.5	4.5	7.5
Merged-chr3-95645455-4	chr3	95645359	95645559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13262.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	95.0	137.5	42.5	860.0	167.0	74.5	63.5	47.5
Merged-chr2-52378009-3	chr2	52377896	52378096	+	902.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-39198.0	NM_010889	17996.0	Mm.389247	NM_010889	ENSMUSG00000026950	Neb	AI595938	nebulin	protein-coding	9.0	17.5	4.5	55.0	26.0	9.0	13.0	10.5
Merged-chr12-79534353-3	chr12	79534253	79534453	+	623.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	237002.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	11.0	7.5	6.0	60.0	5.0	5.0	3.5	0.0
Merged-chr7-120948297-4	chr7	120948219	120948419	+	956.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025298)	TTS (NM_025298)	30575.0	NM_001164096	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	18.5	35.5	23.0	466.5	52.5	11.5	22.0	27.0
Merged-chr3-88740064-4	chr3	88739961	88740161	+	838.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	23207.0	NR_028056	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	5.0	9.5	7.0	90.5	57.5	15.0	4.0	10.5
Merged-chr9-44191359-4	chr9	44191261	44191461	+	910.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	intron (NM_007619, intron 2 of 15)	42685.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	11.5	14.5	15.0	181.5	31.5	16.0	8.0	11.0
Merged-chr18-82863203-4	chr18	82863126	82863326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	7329.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	49.0	49.0	35.5	728.0	116.0	29.5	44.5	47.5
Merged-chr7-141016987-4	chr7	141016909	141017109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033632)	promoter-TSS (NM_001033632)	-117.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	66.0	101.0	106.0	1580.0	180.5	71.5	105.0	113.5
Merged-chr19-10204756-4	chr19	10204693	10204893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271615)	promoter-TSS (NM_001271615)	591.0	NM_026919	69038.0	Mm.375100	NM_026919	ENSMUSG00000036372	Tmem258	1810006K21Rik	transmembrane protein 258	protein-coding	62.5	76.0	56.5	532.0	106.5	31.0	45.5	48.5
Merged-chr6-145305782-3	chr6	145305682	145305882	+	845.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17B_Mm|LTR|ERVK	55230.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	5.0	5.5	4.5	58.0	16.5	9.0	4.0	14.5
Merged-chr10-93487573-2	chr10	93487473	93487673	+	865.583374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-1195.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	29.5	21.0	14.5	293.5	5.5	0.0	2.0	2.5
Merged-chr14-14352767-2	chr14	14352667	14352867	+	932.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_008369, intron 10 of 11)	intron (NM_008369, intron 10 of 11)	6272.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	1.0	2.5	4.0	41.5	5.5	8.5	5.5	4.5
Merged-chr12-112594675-4	chr12	112594587	112594787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 1 of 22)	intron (NM_198411, intron 1 of 22)	5903.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	45.5	90.5	48.0	844.0	101.0	39.5	57.0	55.0
Merged-chr14-104027266-4	chr14	104027197	104027397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045953)	promoter-TSS (NR_045953)	-155.0	NR_045953	73877.0	Mm.399172	NR_045953	ENSMUSG00000115727	4930432J09Rik	-	RIKEN cDNA 4930432J09 gene	ncRNA	46.0	85.5	45.5	1176.5	118.5	46.5	64.5	42.0
Merged-chr15-86161125-4	chr15	86161019	86161219	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 3 of 12)	L1M4|LINE|L1	-24609.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	35.5	24.0	24.5	632.0	95.5	16.0	36.0	31.0
Merged-chr17-87571814-4	chr17	87571702	87571902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64177.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	37.0	83.5	29.5	637.5	111.0	39.5	50.5	50.5
Merged-chr7-111015108-4	chr7	111015014	111015214	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13837.0	NM_009431	22083.0	Mm.255858	NM_009431	ENSMUSG00000005609	Ctr9	AA409336|Sh2bp1|Tsbp|Tsp|mKIAA0155	CTR9 homolog, Paf1/RNA polymerase II complex component	protein-coding	16.5	30.5	11.5	220.0	74.5	20.5	29.5	27.5
Merged-chr13-54592007-3	chr13	54591909	54592109	+	903.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347512)	TTS (NM_001347512)	1778.0	NM_025933	67044.0	Mm.29353	NM_025933	ENSMUSG00000025868	Higd2a	2010110M21Rik|AA690237	HIG1 domain family, member 2A	protein-coding	13.0	6.5	10.0	103.0	14.0	3.5	11.5	11.5
Merged-chr3-25713334-3	chr3	25713239	25713439	+	732.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357095, intron 4 of 6)	RLTR26|LTR|ERVK	440647.0	NM_001163387	192167.0	Mm.316080	NM_138666	ENSMUSG00000063887	Nlgn1	6330415N05Rik|BB179718|NL1|Nlg1|mKIAA1070	neuroligin 1	protein-coding	11.0	13.5	10.5	152.5	11.5	5.0	5.0	7.5
Merged-chr4-43000581-4	chr4	43000465	43000665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009503)	promoter-TSS (NM_009503)	-58.0	NM_009503	269523.0	Mm.245976	NM_009503	ENSMUSG00000028452	Vcp	3110001E05|CDC48|p97|p97/VCP	valosin containing protein	protein-coding	312.0	459.0	282.0	4297.0	743.5	351.5	386.5	312.0
Merged-chr10-77509812-4	chr10	77509706	77509906	+	731.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133998, intron 2 of 5)	intron (NM_133998, intron 2 of 5)	6007.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	9.0	13.5	1.0	137.5	24.0	6.5	12.5	11.0
Merged-chr6-89449478-2	chr6	89449378	89449578	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	MTB_Mm|LTR|ERVL-MaLR	-86865.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	5.0	8.0	4.0	51.5	16.5	7.5	7.0	7.5
Merged-chr11-78246194-4	chr11	78246081	78246281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009297)	promoter-TSS (NM_009297)	430.0	NM_001359106	20316.0	Mm.20755	NM_009143	ENSMUSG00000002064	Sdf2	AI853825	stromal cell derived factor 2	protein-coding	38.5	85.0	45.5	506.5	155.5	44.5	44.0	50.0
Merged-chr5-142441776-3	chr5	142441679	142441879	+	806.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 2 of 8)	Tigger7|DNA|TcMar-Tigger	-22152.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	4.5	15.5	5.5	79.0	10.5	2.5	0.5	6.0
Merged-chr17-80553833-4	chr17	80553741	80553941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360144, intron 3 of 9)	intron (NM_001360144, intron 3 of 9)	9993.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	37.5	64.5	43.5	787.0	102.0	48.0	68.0	47.5
Merged-chr3-116422926-3	chr3	116422834	116423034	+	906.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173553, intron 1 of 13)	intron (NM_001173553, intron 1 of 13)	1098.0	NM_001080818	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	10.0	18.0	8.5	138.0	13.0	6.0	4.5	2.5
Merged-chr18-62228500-4	chr18	62228373	62228573	+	932.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48373.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	20.5	23.5	28.0	147.5	28.0	9.0	13.0	13.0
Merged-chr17-28515980-3	chr17	28515849	28516049	+	878.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14912.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	7.5	6.0	10.5	77.5	7.5	2.0	6.0	3.0
Merged-chr7-110860308-3	chr7	110860202	110860402	+	993.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053247, intron 1 of 5)	intron (NM_053247, intron 1 of 5)	2651.0	NM_053247	114332.0	Mm.396078	NM_053247	ENSMUSG00000030787	Lyve1	1200012G08Rik|Crsbp-1|Lyve-1|Xlkd1	lymphatic vessel endothelial hyaluronan receptor 1	protein-coding	18.0	23.5	4.5	306.0	37.0	5.0	8.5	8.0
Merged-chr1-106317131-4	chr1	106317021	106317221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 3 of 16)	intron (NM_133821, intron 3 of 16)	145252.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	53.0	68.0	70.5	1127.0	119.5	39.0	57.5	46.0
Merged-chr12-99561451-4	chr12	99561341	99561541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2400.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	72.5	86.5	23.5	501.0	105.0	50.5	29.0	45.5
Merged-chr2-117989361-4	chr2	117989229	117989429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	121873.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	35.5	53.5	64.5	618.0	66.0	27.5	56.0	55.5
Merged-chr9-62844982-3	chr9	62844883	62845083	+	765.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033175, intron 2 of 6)	intron (NM_001033175, intron 2 of 6)	6196.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	6.5	4.5	8.5	99.0	8.5	3.0	11.5	11.0
Merged-chr11-95844190-4	chr11	95844105	95844305	+	881.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023121, intron 2 of 3)	B3|SINE|B2	960.0	NM_001284397	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	10.5	15.0	7.5	148.5	27.5	8.5	14.5	8.5
Merged-chr1-174048430-4	chr1	174048336	174048536	+	828.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1939.0	NM_146716	258711.0	Mm.377648	NM_146716	ENSMUSG00000047048	Olfr432	MOR123-2	olfactory receptor 432	protein-coding	3.5	20.0	16.0	125.5	28.5	11.5	9.5	7.0
Merged-chr15-58324236-4	chr15	58324109	58324309	+	980.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177755)	promoter-TSS (NM_177755)	-40.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	63.0	121.0	40.5	557.0	115.0	20.0	27.0	17.0
Merged-chr11-22843046-4	chr11	22842957	22843157	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	16678.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	14.0	15.0	26.0	449.5	62.0	8.0	11.0	25.0
Merged-chr8-84813254-4	chr8	84813172	84813372	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9551.0	NM_201227	23863.0	Mm.304252	NM_201227	ENSMUSG00000053226	Dand5	Cerl-2|Cerl2|Cerr2|Dte|GREM3|coco	DAN domain family member 5, BMP antagonist	protein-coding	8.5	12.0	5.0	69.0	32.5	19.0	14.5	8.5
Merged-chr6-115480122-2	chr6	115480025	115480225	+	784.0	f0_balb.idr|f0_c57.idr	intron (NM_001308354, intron 7 of 7)	intron (NM_001308354, intron 7 of 7)	58059.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	5.0	18.5	8.0	201.0	39.5	21.0	15.0	20.0
Merged-chr9-121352408-4	chr9	121352316	121352516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	-14542.0	NM_001357973	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	27.0	50.0	53.5	447.0	92.5	26.5	32.0	47.5
Merged-chr4-145270331-4	chr4	145270199	145270399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009401, intron 12 of 12)	intron (NM_009401, intron 12 of 12)	-23429.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	165.5	163.0	160.0	2037.5	225.5	78.0	124.0	106.0
Merged-chr12-35067839-3	chr12	35067738	35067938	+	795.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	20649.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	10.0	9.5	11.5	104.0	11.0	7.5	4.5	7.0
Merged-chr7-126585716-4	chr7	126585617	126585817	+	829.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146311)	promoter-TSS (NM_001146311)	100.0	NM_001146311	12752.0	Mm.268930	NM_009907	ENSMUSG00000030720	Cln3	AI323623	ceroid lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease)	protein-coding	17.0	7.5	11.5	139.5	17.5	16.5	5.0	8.0
Merged-chr1-191351267-4	chr1	191351172	191351372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144880)	TTS (NM_144880)	25307.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	34.5	55.5	54.0	536.5	105.0	41.0	35.0	28.5
Merged-chr1-36038962-4	chr1	36038868	36039068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29432.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	44.0	44.5	35.5	649.0	128.5	31.0	49.5	64.5
Merged-chr4-132563499-4	chr4	132563419	132563619	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081211)	promoter-TSS (NM_001081211)	-548.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	24.0	37.0	17.0	281.5	42.0	11.5	9.0	7.0
Merged-chr7-129859860-3	chr7	129859764	129859964	+	952.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102301.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	12.0	23.0	19.5	529.0	10.5	0.5	7.5	0.5
Merged-chr17-47629507-4	chr17	47629393	47629593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1197.0	NM_198421	224836.0	Mm.59393	NM_198421	ENSMUSG00000090115	Usp49	C330046L10Rik|Gm545	ubiquitin specific peptidase 49	protein-coding	58.5	132.5	43.0	573.0	199.0	67.5	53.0	52.5
Merged-chr14-62760115-10	chr14	62760039	62760239	+	962.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045503)	promoter-TSS (NR_045503)	-362.0	NR_045503	71000.0	Mm.399410	NR_045503	ENSMUSG00000097775	4931440J10Rik	-	RIKEN cDNA 4931440J10 gene	ncRNA	14.0	20.0	8.0	178.0	23.5	20.0	13.0	18.5
Merged-chr7-65500893-3	chr7	65500882	65501082	+	851.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81049.0	NR_131060	407810.0	Mm.249337	NR_131060	ENSMUSG00000086662	BC046251	-	cDNA sequence BC046251	ncRNA	8.5	7.0	13.5	203.0	5.5	0.0	6.5	4.5
Merged-chr6-65516877-4	chr6	65516772	65516972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73526.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	16.5	60.0	36.0	304.5	140.5	35.5	41.0	22.5
Merged-chr11-116031221-4	chr11	116031102	116031302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286006, intron 1 of 15)	intron (NM_001286006, intron 1 of 15)	886.0	NM_172569	217331.0	Mm.297706	NM_172569	ENSMUSG00000020770	Unk	B230379M23Rik|Unkh|Zc3h5|Zc3hdc5|mKIAA1753	unkempt family zinc finger	protein-coding	46.0	86.0	24.5	377.0	158.5	43.0	35.5	42.5
Merged-chr19-3914717-4	chr19	3914629	3914829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026316, intron 9 of 9)	intron (NM_026316, intron 9 of 9)	-1955.0	NM_001271444	225887.0	Mm.44227	NM_144870	ENSMUSG00000059734	Ndufs8	BC021616|CI-23kD|TYKY	NADH dehydrogenase (ubiquinone) Fe-S protein 8	protein-coding	66.5	119.0	60.5	899.5	167.0	49.0	65.5	52.0
Merged-chr17-30027889-4	chr17	30027786	30027986	+	987.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151443, intron 1 of 4)	intron (NR_151443, intron 1 of 4)	22847.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	26.5	26.5	21.0	232.5	76.0	15.5	20.0	13.5
Merged-chr14-45239211-4	chr14	45239120	45239320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027518, intron 1 of 6)	intron (NM_027518, intron 1 of 6)	19503.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	37.0	43.5	45.5	865.0	104.5	36.5	38.0	44.0
Merged-chr1-160792945-4	chr1	160792860	160793060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013862)	promoter-TSS (NM_013862)	-22.0	NM_013862	29809.0	Mm.25833	NM_013862	ENSMUSG00000026721	Rabgap1l	5830411O09Rik|8430421H08Rik|9630005B12Rik|AW049894|HHL|Hh1|mKIAA0471	RAB GTPase activating protein 1-like	protein-coding	54.0	79.0	95.0	902.5	44.5	16.5	31.5	27.5
Merged-chr16-35768954-3	chr16	35768862	35769062	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153550, exon 1 of 9)	exon (NM_153550, exon 1 of 9)	394.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	17.0	28.5	23.5	377.5	32.5	26.0	12.0	19.5
Merged-chr3-67557926-2	chr3	67557824	67558024	+	788.083374	f0_balb.idr|f0_c57.idr	Intergenic	Lx8|LINE|L1	-24844.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	8.0	8.5	0.5	101.5	100.0	15.0	14.5	23.5
Merged-chr11-20533410-4	chr11	20533317	20533517	+	788.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9836.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	13.5	13.0	9.0	82.5	32.0	11.5	14.0	2.0
Merged-chr13-10107052-4	chr13	10106927	10107127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 3 of 4)	intron (NM_033269, intron 3 of 4)	253776.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	40.0	34.0	35.5	689.0	45.0	22.5	60.0	32.5
Merged-chr16-85117628-4	chr16	85117528	85117728	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 2 of 15)	intron (NM_001198825, intron 2 of 15)	56079.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	22.5	18.0	21.0	524.5	14.5	11.5	16.0	35.0
Merged-chr13-94301236-7	chr13	94301118	94301318	+	949.897949	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15387.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	17.5	16.0	19.0	358.5	17.0	6.5	5.0	13.0
Merged-chr1-67044146-3	chr1	67044049	67044249	+	814.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5277.0	NM_021295	14768.0	Mm.20522	NM_021295	ENSMUSG00000026000	Lancl1	AW124738|Gpr69|Gpr69a|p40	LanC (bacterial lantibiotic synthetase component C)-like 1	protein-coding	6.5	8.0	16.0	128.0	5.5	2.5	8.5	4.0
Merged-chr4-59044967-4	chr4	59044878	59045078	+	911.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	9822.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	17.0	16.5	26.0	369.5	45.0	11.0	9.5	18.5
Merged-chr15-59524234-4	chr15	59524145	59524345	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-124409.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	18.5	11.5	15.0	441.5	69.0	14.5	12.5	19.5
Merged-chr7-75596247-4	chr7	75596144	75596344	+	926.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 5 of 36)	intron (NM_029332, intron 5 of 36)	140710.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	28.5	31.0	18.5	507.0	28.0	5.5	11.5	11.5
Merged-chr3-98061309-4	chr3	98061259	98061459	+	834.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	47821.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	5.0	15.5	1.0	108.5	25.5	9.0	8.5	9.0
Merged-chr1-9769771-4	chr1	9769688	9769888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040462, intron 2 of 3)	RMER4B|LTR|ERVK	-21406.0	NM_173443	70675.0	Mm.274493	NM_173443	ENSMUSG00000045210	Vcpip1	4932442A08|5730421J18Rik|5730538E15Rik|VCIP135|mKIAA1850	valosin containing protein (p97)/p47 complex interacting protein 1	protein-coding	23.0	40.5	18.5	298.5	88.0	25.0	44.5	28.0
Merged-chr17-35799168-2	chr17	35799068	35799268	+	771.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44D|DNA|TcMar-Tigger	-22545.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	7.0	12.0	1.5	44.5	7.5	7.5	5.5	10.0
Merged-chr11-35297589-4	chr11	35297501	35297701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011412, intron 4 of 35)	intron (NM_011412, intron 4 of 35)	176145.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	35.5	43.5	21.5	729.5	181.0	62.0	85.0	67.0
Merged-chr1-16079243-4	chr1	16079135	16079335	+	793.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305227, intron 3 of 5)	intron (NM_001305227, intron 3 of 5)	14090.0	NM_001243238	75799.0	Mm.78557	NM_001243238	ENSMUSG00000067795	4930444P10Rik	-	RIKEN cDNA 4930444P10 gene	protein-coding	7.5	9.5	11.5	192.5	23.5	12.5	14.0	14.0
Merged-chr15-8682760-3	chr15	8682674	8682874	+	703.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 3 of 9)	intron (NM_148938, intron 3 of 9)	28033.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	6.0	8.5	7.0	60.0	23.5	8.0	8.5	11.0
Merged-chr6-53289375-3	chr6	53289280	53289480	+	803.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 1 of 10)	intron (NM_001327821, intron 1 of 10)	2077.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	6.0	7.5	2.5	108.5	21.5	12.5	11.0	10.0
Merged-chr13-101742863-4	chr13	101742769	101742969	+	938.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	25348.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	10.0	25.5	17.5	289.5	36.0	22.5	18.5	16.0
Merged-chr16-31755208-4	chr16	31755104	31755304	+	778.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252436, intron 1 of 22)	intron (NM_001252436, intron 1 of 22)	854.0	NM_001252436	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	9.5	18.5	12.5	206.5	31.0	9.0	11.5	2.0
Merged-chr16-32419659-4	chr16	32419567	32419767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025329)	promoter-TSS (NM_025329)	-35.0	NR_154990	66061.0	Mm.302693	NM_025329	ENSMUSG00000014075	Tctex1d2	0610012D17Rik|2410011K15Rik	Tctex1 domain containing 2	protein-coding	178.0	280.0	165.5	2275.5	415.5	154.0	189.0	183.5
Merged-chr3-75297631-4	chr3	75297565	75297765	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27587.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	7.5	7.5	3.0	157.5	25.0	10.5	15.0	10.0
Merged-chr18-31789079-4	chr18	31788971	31789171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357480)	promoter-TSS (NM_001357480)	-54.0	NM_001357480	69241.0	Mm.279898	NM_027002	ENSMUSG00000024258	Polr2d	2310002G05Rik|2610028L19Rik|HSRBP4|RBP4	polymerase (RNA) II (DNA directed) polypeptide D	protein-coding	114.5	164.5	90.5	1966.5	268.5	118.0	125.5	110.0
Merged-chr11-96413989-1	chr11	96413889	96414089	+	1000.0	f0_balb.idr	Intergenic	Intergenic	48231.0	NM_008266	15407.0	Mm.890	NM_008266	ENSMUSG00000018973	Hoxb1	Hox-2.9	homeobox B1	protein-coding	5.0	31.5	16.0	185.5	0.5	0.5	1.5	6.0
Merged-chr6-72414277-4	chr6	72414191	72414391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019802)	promoter-TSS (NM_019802)	-17.0	NM_019802	56316.0	Mm.19937	NM_019802	ENSMUSG00000053460	Ggcx	-	gamma-glutamyl carboxylase	protein-coding	122.0	166.5	73.0	1589.0	316.5	114.5	128.0	102.0
Merged-chr11-32346480-2	chr11	32346380	32346580	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1331.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	6.5	3.5	1.5	84.0	15.5	11.0	5.0	10.5
Merged-chr7-35026077-4	chr7	35025972	35026172	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 11 of 14)	intron (NM_008820, intron 11 of 14)	30494.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	13.5	34.0	14.0	376.5	53.5	19.5	35.5	37.5
Merged-chr9-108474769-3	chr9	108474683	108474883	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5079.0	NM_008483	16779.0	Mm.27560	NM_008483	ENSMUSG00000052911	Lamb2	AW211941|Lamb-2|Lams|npht	laminin, beta 2	protein-coding	13.5	19.5	6.5	128.5	17.5	16.5	8.5	9.0
Merged-chr6-87553801-3	chr6	87553730	87553930	+	679.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20571.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	5.0	10.0	10.5	71.5	9.5	4.0	1.0	6.5
Merged-chr17-80727632-4	chr17	80727566	80727766	+	951.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360278, intron 1 of 33)	CpG	359.0	NM_001360278	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	14.5	12.0	19.0	290.5	34.0	17.5	16.0	16.0
Merged-chr13-23879830-4	chr13	23879737	23879937	+	804.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121611, intron 8 of 12)	intron (NR_121611, intron 8 of 12)	9564.0	NM_001170638	20504.0	Mm.2656	NM_009198	ENSMUSG00000021335	Slc17a1	NAPI-1|Napi1|Npt1	solute carrier family 17 (sodium phosphate), member 1	protein-coding	12.5	30.0	21.0	223.5	36.5	11.5	26.5	13.5
Merged-chr8-106507901-1	chr8	106507801	106508001	+	598.5	f0_balb.idr	Intergenic	CpG	-2951.0	NM_007665	12560.0	Mm.4658	NM_007665	ENSMUSG00000061048	Cdh3	AI385538|Cadp|Cdhp|P-cadherin|Pcad	cadherin 3	protein-coding	7.5	4.5	9.0	64.5	14.5	1.0	5.5	3.0
Merged-chr3-127789505-1	chr3	127789405	127789605	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_145133)	promoter-TSS (NM_145133)	-367.0	NM_145133	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	8.5	10.5	11.0	47.0	25.0	15.0	6.5	17.0
Merged-chr14-20348133-4	chr14	20348006	20348206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360365)	promoter-TSS (NM_001360365)	15.0	NM_027475	70601.0	Mm.35105	NM_027475	ENSMUSG00000021810	Ecd	5730461K03Rik|Hsgt1	ecdysoneless cell cycle regulator	protein-coding	111.5	194.5	98.0	1285.0	213.5	110.0	94.5	122.5
Merged-chr17-34894363-4	chr17	34894287	34894487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198886)	promoter-TSS (NM_198886)	-172.0	NM_198886	193736.0	Mm.161119	NM_198886	ENSMUSG00000049823	Zbtb12	BC020447|Bat-9|Bat9|G10|NG35	zinc finger and BTB domain containing 12	protein-coding	104.5	116.5	50.0	1252.0	259.0	126.5	84.0	76.0
Merged-chr10-127324707-4	chr10	127324609	127324809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359657)	promoter-TSS (NM_001359657)	-933.0	NM_001359657	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	46.0	44.0	18.0	378.0	119.5	32.5	36.0	56.5
Merged-chr3-19188226-4	chr3	19188133	19188333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356295)	promoter-TSS (NM_001356295)	-62.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	173.5	230.0	193.0	3377.0	459.0	159.0	275.0	168.5
Merged-chr5-31194111-4	chr5	31194038	31194238	+	938.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127355)	promoter-TSS (NM_001127355)	834.0	NM_153680	266781.0	Mm.6118	NM_153680	ENSMUSG00000029146	Snx17	5830447M19Rik|AI790646|D5Ertd260e|b2b1625.1Clo|mKIAA0064	sorting nexin 17	protein-coding	10.0	19.5	9.0	232.0	25.0	12.0	12.5	13.0
Merged-chr1-23466389-4	chr1	23466312	23466512	+	837.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83237.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	9.0	9.0	6.5	115.0	24.0	5.5	6.0	12.5
Merged-chr3-9666554-2	chr3	9666454	9666654	+	928.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56469.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	9.0	1.0	5.5	58.5	18.5	5.0	5.5	5.0
Merged-chr12-24675553-3	chr12	24675425	24675625	+	891.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004455, intron 1 of 4)	intron (NM_001004455, intron 1 of 4)	6270.0	NM_138686	12879.0	Mm.52265	NM_138686	ENSMUSG00000062563	Cys1	2900006B19Rik|AV218859|Ccap|ck|cpk	cystin 1	protein-coding	6.0	11.5	3.0	79.5	17.0	6.5	8.5	7.5
Merged-chr15-81142355-4	chr15	81142248	81142448	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 1 of 13)	intron (NM_001082536, intron 1 of 13)	-37301.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	41.0	70.5	15.5	417.0	79.0	20.0	31.5	33.0
Merged-chr19-32789737-4	chr19	32789639	32789839	+	871.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 2 of 8)	intron (NM_008960, intron 2 of 8)	32162.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	12.5	8.5	10.0	305.0	23.5	4.5	14.0	12.0
Merged-chr16-18249517-4	chr16	18249427	18249627	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011239)	promoter-TSS (NM_011239)	644.0	NM_001081000	15547.0	Mm.271798	NM_008307	ENSMUSG00000022721	Trmt2a	Htf9c	TRM2 tRNA methyltransferase 2A	protein-coding	20.0	28.0	28.0	309.0	55.0	14.5	38.5	27.5
Merged-chr11-6475228-7	chr11	6475225	6475425	+	989.464294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011221, exon 1 of 1)	exon (NM_011221, exon 1 of 1)	751.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	21.5	9.5	18.5	242.5	52.0	27.5	27.5	20.5
Merged-chr3-105892045-4	chr3	105891940	105892140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-12381.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	31.5	29.5	21.0	283.5	49.5	17.0	22.0	25.5
Merged-chr2-68472076-4	chr2	68471956	68472156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016866)	promoter-TSS (NM_016866)	-75.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	50.0	54.0	38.0	817.5	71.0	40.5	63.5	35.0
Merged-chr9-31198803-4	chr9	31198715	31198915	+	928.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357698, intron 1 of 17)	intron (NM_001357698, intron 1 of 17)	13033.0	NM_001357698	11804.0	Mm.19133	NM_009691	ENSMUSG00000031996	Aplp2	AI790698|APLP-2|CDEBP	amyloid beta (A4) precursor-like protein 2	protein-coding	9.0	16.5	8.5	175.5	37.5	14.0	17.0	10.5
Merged-chr2-164953418-3	chr2	164953311	164953511	+	935.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013599, exon 11 of 13)	exon (NM_013599, exon 11 of 13)	5192.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	8.0	9.5	4.0	58.5	25.5	15.0	19.0	24.5
Merged-chr6-145308012-4	chr6	145307901	145308101	+	892.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	57449.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	6.5	12.0	14.5	102.5	23.5	11.5	9.5	17.0
Merged-chr16-32130357-4	chr16	32130273	32130473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30571.0	NM_025892	66994.0	Mm.22990	NM_025892	ENSMUSG00000035790	Cep19	1500031L02Rik|AI428934|AL022620	centrosomal protein 19	protein-coding	64.0	134.5	63.5	869.0	167.5	46.5	55.0	58.5
Merged-chr2-118745665-4	chr2	118745574	118745774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301269)	promoter-TSS (NM_001301269)	-84.0	NM_001301269	100043272.0	Mm.398072	NM_001301269	ENSMUSG00000074918	Inafm2	5430417L22Rik	InaF motif containing 2	protein-coding	51.5	64.5	38.5	723.5	125.5	59.5	69.5	47.5
Merged-chr2-61607106-2	chr2	61607006	61607206	+	709.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_149323, intron 2 of 9)	intron (NR_149323, intron 2 of 9)	14009.0	NR_149323	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	4.5	5.0	3.0	47.5	15.0	4.5	7.5	5.0
Merged-chr9-15302218-1	chr9	15302118	15302318	+	727.0	f0_c57.idr	promoter-TSS (NM_133732)	promoter-TSS (NM_133732)	-611.0	NM_133732	70984.0	Mm.261842	NM_133732	ENSMUSG00000031938	4931406C07Rik	-	RIKEN cDNA 4931406C07 gene	protein-coding	6.0	9.0	7.5	15.0	14.0	13.5	14.5	9.0
Merged-chr4-149485241-4	chr4	149485147	149485347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133435)	promoter-TSS (NM_133435)	18.0	NM_001356322	69151.0	Mm.464434	NM_026963	ENSMUSG00000028990	Lzic	1810030J04Rik|AW047580	leucine zipper and CTNNBIP1 domain containing	protein-coding	71.5	87.5	56.5	1068.5	133.0	49.0	76.5	69.0
Merged-chr10-93799740-4	chr10	93799618	93799818	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31837.0	NM_001206851	327799.0	Mm.491598	NM_183199	ENSMUSG00000020020	Usp44	E430004F17Rik	ubiquitin specific peptidase 44	protein-coding	2.0	9.5	8.5	132.5	120.5	20.5	20.5	31.0
Merged-chr10-25116221-3	chr10	25116112	25116312	+	929.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83958.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	8.0	10.0	18.0	214.5	20.5	5.0	5.0	4.0
Merged-chr15-78851962-4	chr15	78851878	78852078	+	937.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025622, intron 2 of 3)	intron (NM_025622, intron 2 of 3)	3551.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	10.5	17.0	6.5	176.0	65.0	35.0	23.5	19.5
Merged-chr8-108748406-3	chr8	108748306	108748506	+	928.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	33762.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	14.0	12.5	17.0	248.5	22.0	6.5	7.0	8.5
Merged-chr3-8969725-4	chr3	8969620	8969820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-5574.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	80.0	107.0	116.5	2203.5	225.0	83.5	132.5	123.5
Merged-chr2-62664240-4	chr2	62664151	62664351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145523)	promoter-TSS (NM_145523)	-76.0	NM_145523	227960.0	Mm.219877	NM_145523	ENSMUSG00000026893	Gca	5133401E04Rik|AI573844	grancalcin	protein-coding	94.5	156.0	109.5	1773.0	239.0	112.5	116.5	86.5
Merged-chr8-106936817-3	chr8	106936658	106936858	+	820.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	1008.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	2.0	7.5	3.0	44.5	5.5	5.0	4.5	7.5
Merged-chr15-73147921-4	chr15	73147834	73148034	+	866.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	37013.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	8.0	8.0	8.5	146.5	32.0	19.5	11.5	14.0
Merged-chr19-17244391-2	chr19	17244276	17244476	+	932.375	f0_balb.idr|f1_balb.idr	Intergenic	RLTR11A|LTR|ERVK	95129.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	9.5	9.0	13.0	231.5	0.5	0.0	1.0	1.5
Merged-chr2-148522251-4	chr2	148522139	148522339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78704.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	158.5	168.0	226.0	2856.0	358.5	144.0	183.5	134.0
Merged-chr2-121171584-2	chr2	121171484	121171684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290819)	promoter-TSS (NM_001290819)	416.0	NM_001290824	51885.0	Mm.383499	NM_153387	ENSMUSG00000027263	Tubgcp4	4932441P04Rik|76p|D2Ertd435e|GCP-4	tubulin, gamma complex associated protein 4	protein-coding	12.0	6.0	4.5	98.0	17.0	11.5	6.5	8.0
Merged-chr11-72042401-4	chr11	72042311	72042511	+	890.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144526)	promoter-TSS (NM_144526)	-91.0	NM_144526	109212.0	Mm.33118	NM_144526	ENSMUSG00000020808	Pimreg	2610008F03Rik|6720460F02Rik|AI115087|CATS|Fam64a	PICALM interacting mitotic regulator	protein-coding	12.0	16.5	7.0	140.5	31.5	22.0	13.0	13.0
Merged-chr3-27345707-4	chr3	27345616	27345816	+	975.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25635.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	13.0	46.5	27.5	160.5	81.0	34.0	31.0	11.5
Merged-chr19-17176878-4	chr19	17176796	17176996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 10 of 19)	A-rich|Low_complexity|Low_complexity	162609.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	46.0	55.5	33.5	809.5	142.0	32.5	46.5	42.5
Merged-chr17-3160864-4	chr17	3160760	3160960	+	977.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134123, intron 4 of 19)	CT-rich|Low_complexity|Low_complexity	45888.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	24.5	32.0	29.0	448.5	40.5	12.5	25.0	21.0
Merged-chr7-45396416-4	chr7	45396328	45396528	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009224)	promoter-TSS (NM_009224)	-686.0	NR_126538	20637.0	Mm.216386	NM_009224	ENSMUSG00000063511	Snrnp70	2700022N21Rik|3200002N22Rik|AI325098|R74807|Rnu1p70|Rnulp70|Snrp70|Srnp70|U1-70|U1-70K	small nuclear ribonucleoprotein 70 (U1)	protein-coding	10.5	22.5	11.0	17.0	36.0	16.0	13.0	8.5
Merged-chr6-86585293-4	chr6	86585218	86585418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42856.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	199.5	365.5	201.0	2453.0	559.0	264.5	230.0	201.5
Merged-chr5-145116535-4	chr5	145116430	145116630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	intron (NM_023142, intron 1 of 9)	2274.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	159.0	260.5	137.0	2271.0	426.5	137.0	198.0	161.0
Merged-chr11-86908046-4	chr11	86907964	86908164	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	85698.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	25.5	24.5	19.0	193.5	49.5	15.5	18.0	24.5
Merged-chr14-33398269-4	chr14	33398183	33398383	+	977.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310452, intron 4 of 10)	intron (NM_001310452, intron 4 of 10)	12741.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	24.5	44.0	48.0	565.0	96.5	19.5	52.5	28.5
Merged-chr13-81132098-4	chr13	81131943	81132143	+	953.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	167969.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	11.0	14.5	12.0	96.0	15.5	8.5	7.5	5.5
Merged-chr3-79886033-3	chr3	79885968	79886168	+	792.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133187, exon 1 of 4)	5' UTR (NM_133187, exon 1 of 4)	138.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	6.0	7.5	12.0	93.0	7.0	7.5	6.5	5.0
Merged-chr14-32085565-5	chr14	32085378	32085578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104305)	promoter-TSS (NR_104305)	-192.0	NR_104305	105638.0	Mm.2519	NM_172254	ENSMUSG00000021905	Dph3	DELGIP1|DelgipP1|Desr1|KTI11|Zcsl2	diphthamine biosynthesis 3	protein-coding	69.0	85.5	97.5	735.0	172.0	99.0	85.5	103.5
Merged-chr8-75063641-4	chr8	75063539	75063739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136259, intron 12 of 15)	intron (NM_001136259, intron 12 of 15)	29953.0	NM_011622	21968.0	Mm.1967	NM_011622	ENSMUSG00000042870	Tom1	-	target of myb1 trafficking protein	protein-coding	80.0	171.0	146.0	1727.5	243.5	93.0	139.0	112.0
Merged-chr6-124756179-4	chr6	124756113	124756313	+	868.744446	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007881, intron 1 of 9)	G-rich|Low_complexity|Low_complexity	274.0	NM_007881	13498.0	Mm.333380	NM_007881	ENSMUSG00000004263	Atn1	Atr1|Drpla|atrophin-1	atrophin 1	protein-coding	8.0	6.5	14.0	95.5	35.5	10.5	10.0	12.0
Merged-chr18-34119193-4	chr18	34119093	34119293	+	919.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101791.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	19.5	11.5	16.0	236.0	37.0	13.5	15.5	22.0
Merged-chr2-117027341-4	chr2	117027246	117027446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93725.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	27.0	56.0	54.0	441.0	67.0	22.0	27.0	24.5
Merged-chr2-131262449-4	chr2	131262356	131262556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355683)	promoter-TSS (NM_001355683)	-44.0	NM_001355683	74450.0	Mm.101264	NM_153501	ENSMUSG00000037514	Pank2	4933409I19Rik|AI642621	pantothenate kinase 2	protein-coding	145.0	175.0	95.5	1760.5	260.0	112.5	145.0	101.5
Merged-chr13-24613184-3	chr13	24613069	24613269	+	629.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286100, intron 1 of 22)	intron (NM_001286100, intron 1 of 22)	-1437.0	NM_001286101	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	10.0	9.0	9.0	210.5	10.5	4.0	7.5	3.5
Merged-chr3-89801644-4	chr3	89801525	89801725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28016.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	71.5	147.5	57.5	725.0	166.0	54.5	83.0	48.5
Merged-chr3-40523491-4	chr3	40523382	40523582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040445)	promoter-TSS (NR_040445)	-570.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	29.0	50.5	23.5	487.0	92.5	25.5	37.0	38.5
Merged-chr2-125859117-4	chr2	125859021	125859221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009939)	promoter-TSS (NM_009939)	12.0	NM_175154	69976.0	Mm.20216	NM_175154	ENSMUSG00000027207	Galk2	2810017M24Rik|AI327030|Gk2	galactokinase 2	protein-coding	120.5	181.0	92.0	1758.0	356.0	104.0	157.0	130.5
Merged-chr2-29624476-4	chr2	29624364	29624564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	4744.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	40.5	56.5	15.5	580.5	96.5	45.5	42.5	51.5
Merged-chr8-25537904-4	chr8	25537801	25538001	+	984.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079909, intron 2 of 16)	intron (NM_001079909, intron 2 of 16)	18182.0	NR_110510	102633315.0	Mm.437828	NR_110510	ENSMUSG00000086134	Gm16159	-	predicted gene 16159	ncRNA	21.0	15.5	49.0	527.0	49.0	16.0	33.5	36.0
Merged-chr13-58543379-4	chr13	58543292	58543492	+	936.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67485.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	12.0	13.5	6.5	189.0	37.0	15.0	25.5	14.5
Merged-chr3-21937442-4	chr3	21937354	21937554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139198.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	33.5	71.0	58.0	935.0	112.5	38.5	34.0	66.0
Merged-chr3-144706562-3	chr3	144706439	144706639	+	906.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 4 of 10)	intron (NM_001282037, intron 4 of 10)	13796.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	7.0	14.5	22.0	102.5	13.0	6.0	3.5	5.5
Merged-chr4-155197863-4	chr4	155197763	155197963	+	835.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	24672.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	14.0	17.0	20.5	323.5	21.5	27.5	14.0	14.5
Merged-chr7-99711384-1	chr7	99711284	99711484	+	641.0	f0_balb.idr	promoter-TSS (NM_175316)	promoter-TSS (NM_175316)	-44.0	NM_175316	101488.0	Mm.11249	NM_175316	ENSMUSG00000030737	Slco2b1	AI060904|AI852653|OATP-B|Slc21a9	solute carrier organic anion transporter family, member 2b1	protein-coding	7.0	6.5	8.5	91.0	0.5	0.5	0.5	5.0
Merged-chr7-5047493-4	chr7	5047405	5047605	+	720.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-4027.0	NM_026900	68992.0	Mm.41484	NM_026900	ENSMUSG00000055633	Zfp580	1500015O20Rik|AI838225|Znf580	zinc finger protein 580	protein-coding	3.0	8.0	5.0	88.5	35.5	11.5	10.0	8.0
Merged-chr12-76378708-2	chr12	76378608	76378808	+	825.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	ID_B1|SINE|B4	8442.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	5.0	5.5	9.0	66.0	10.5	1.5	6.0	6.0
Merged-chr8-119353507-5	chr8	119353405	119353605	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	8967.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	13.5	22.5	21.0	223.0	33.5	7.5	10.0	13.5
Merged-chr11-70432491-4	chr11	70432372	70432572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271360)	promoter-TSS (NM_001271360)	-108.0	NM_001271360	216869.0	Mm.203747	NM_145429	ENSMUSG00000060216	Arrb2	AI326910|AW122872|Arr3	arrestin, beta 2	protein-coding	208.5	319.0	182.5	2149.5	603.0	231.5	253.0	204.5
Merged-chr13-21479168-4	chr13	21479063	21479263	+	949.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039115, exon 1 of 3)	exon (NM_001039115, exon 1 of 3)	314.0	NM_001039115	544922.0	Mm.441300	NM_001039115	ENSMUSG00000054931	Zkscan4	AI841875|Gm11272	zinc finger with KRAB and SCAN domains 4	protein-coding	54.5	41.5	39.5	699.0	33.0	10.5	17.5	26.5
Merged-chr17-29497223-4	chr17	29497092	29497292	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6147.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	11.5	31.0	5.5	24.5	45.0	17.0	11.5	4.0
Merged-chr4-55529488-2	chr4	55529388	55529588	+	856.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_010637, intron 4 of 4)	intron (NM_010637, intron 4 of 4)	2987.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	8.0	5.0	5.0	42.5	10.0	2.0	2.0	1.5
Merged-chr7-83649011-3	chr7	83648944	83649144	+	953.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 15 of 18)	intron (NM_001360088, intron 15 of 18)	6451.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	13.0	9.0	17.5	263.5	18.0	2.0	6.5	13.0
Merged-chr7-140942525-2	chr7	140942425	140942625	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_145387, exon 2 of 14)	exon (NM_145387, exon 2 of 14)	1134.0	NM_145387	212974.0	Mm.260139	NM_145387	ENSMUSG00000062031	Pgghg	5730511L01Rik|Athl1|BC023151	protein glucosylgalactosylhydroxylysine glucosidase	protein-coding	3.0	9.5	6.5	62.0	24.5	7.0	9.0	11.0
Merged-chr15-40047400-3	chr15	40047296	40047496	+	848.68335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155348, intron 1 of 2)	MLT1A1|LTR|ERVL-MaLR	2208.0	NR_155348	102636079.0	Mm.421381	NR_155348	ENSMUSG00000115142	Gm33251	-	predicted gene, 33251	ncRNA	6.0	9.0	8.5	208.0	17.0	6.0	8.5	10.5
Merged-chr12-27313140-3	chr12	27313029	27313229	+	855.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29589.0	NM_009234	20666.0	Mm.41702	NM_009234	ENSMUSG00000063632	Sox11	1110038H03Rik|6230403H02Rik|AI836553|end1	SRY (sex determining region Y)-box 11	protein-coding	14.0	25.0	7.0	269.0	1.0	1.5	0.0	0.0
Merged-chr5-113835216-4	chr5	113835105	113835305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4704.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	55.0	79.0	47.5	883.0	116.5	44.0	47.0	50.5
Merged-chr6-124805336-1	chr6	124805236	124805436	+	1000.0	f0_c57.idr	Intergenic	PB1D10|SINE|Alu	-3325.0	NM_001306051	14794.0	Mm.261906	NM_013539	ENSMUSG00000038451	Spsb2	AI461677|C9|Grcc9|SSB2	splA/ryanodine receptor domain and SOCS box containing 2	protein-coding	17.5	27.0	24.5	321.5	75.5	14.5	25.0	26.5
Merged-chr8-12755516-3	chr8	12755421	12755621	+	827.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1495.0	NM_015804	50770.0	Mm.257837	NM_015804	ENSMUSG00000031441	Atp11a	4930558F19Rik|AU040868|Atpc1h|Ih	ATPase, class VI, type 11A	protein-coding	12.0	9.0	4.0	91.0	14.5	7.0	10.5	8.0
Merged-chr11-53560150-3	chr11	53560051	53560251	+	995.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7218.0	NM_008443	16568.0	Mm.88694	NM_008443	ENSMUSG00000018395	Kif3a	Kif3|Kifl|Kns3	kinesin family member 3A	protein-coding	17.5	52.0	30.5	194.0	22.0	8.5	20.5	10.5
Merged-chr16-3743122-2	chr16	3743010	3743210	+	696.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_148924)	promoter-TSS (NM_148924)	-989.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	12.0	25.5	4.0	101.0	21.0	13.0	9.0	17.0
Merged-chr1-132794655-4	chr1	132794571	132794771	+	808.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52874.0	NM_001160317	269116.0	Mm.326702	NM_182716	ENSMUSG00000026442	Nfasc	AA387016|D430023G06Rik|NF|mKIAA0756	neurofascin	protein-coding	13.0	11.0	13.5	272.5	18.5	3.0	15.0	15.0
Merged-chr7-102032690-3	chr7	102032594	102032794	+	927.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029211, intron 4 of 8)	MTC|LTR|ERVL-MaLR	-14539.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	13.5	8.0	7.5	154.5	24.0	4.5	8.5	6.5
Merged-chr16-58685732-4	chr16	58685577	58685777	+	843.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15469.0	NM_007757	12892.0	Mm.291519	NM_007757	ENSMUSG00000022742	Cpox	CPX|Cpo|HCP|cac|nct	coproporphyrinogen oxidase	protein-coding	8.5	5.0	16.0	102.5	14.5	6.0	5.5	14.5
Merged-chr14-103376955-4	chr14	103376859	103377059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30159.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	28.5	27.0	31.5	524.0	85.0	20.5	32.5	26.0
Merged-chr1-165120526-4	chr1	165120430	165120630	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28600.0	NR_040480	75857.0	Mm.109021	NR_040480	ENSMUSG00000102408	4930568G15Rik	-	RIKEN cDNA 4930568G15 gene	ncRNA	15.0	27.5	16.5	290.0	50.5	13.0	19.0	19.0
Merged-chr8-122870518-4	chr8	122870421	122870621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	22147.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	41.0	58.0	46.0	498.5	106.5	43.5	53.5	29.0
Merged-chr8-33929341-4	chr8	33929243	33929443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042675, intron 1 of 6)	intron (NM_001042675, intron 1 of 6)	520.0	NM_019733	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	70.5	224.5	108.0	1188.5	409.5	143.0	130.5	93.0
Merged-chr1-52170253-4	chr1	52170160	52170360	+	766.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081081, intron 14 of 17)	B3A|SINE|B2	50638.0	NM_001205313	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	12.0	20.0	19.5	176.0	15.0	11.5	11.0	2.0
Merged-chr10-43504525-4	chr10	43504428	43504628	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359600, intron 3 of 3)	intron (NM_001359600, intron 3 of 3)	11363.0	NM_001359600	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	35.5	113.5	24.5	337.5	88.0	39.0	23.0	14.5
Merged-chr16-21192798-3	chr16	21192681	21192881	+	875.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12014.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	1.0	8.0	7.0	111.5	11.5	5.0	4.5	7.0
Merged-chr5-90777780-4	chr5	90777670	90777870	+	927.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5335.0	NM_019932	56744.0	Mm.332490	NM_019932	ENSMUSG00000029373	Pf4	Cxcl4|Scyb4	platelet factor 4	protein-coding	32.5	17.0	30.5	293.5	29.5	10.0	18.5	6.5
Merged-chr11-36942156-4	chr11	36942053	36942253	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011856, intron 1 of 28)	intron (NM_011856, intron 1 of 28)	2088.0	NM_001290702	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	34.5	36.0	14.5	705.5	100.5	30.5	42.5	46.0
Merged-chr11-88087091-4	chr11	88087007	88087207	+	770.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10951.0	NR_045499	70393.0	Mm.386799	NR_045499	ENSMUSG00000018378	2210416O15Rik	-	RIKEN cDNA 2210416O15 gene	ncRNA	10.5	11.0	8.0	69.0	32.5	7.0	12.0	12.0
Merged-chr6-120540082-3	chr6	120539980	120540180	+	765.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8781.0	NM_144815	214932.0	Mm.255322	NM_144815	ENSMUSG00000058979	Hdhd5	A930002G03Rik|Cecr5	haloacid dehalogenase like hydrolase domain containing 5	protein-coding	9.5	14.0	11.0	307.0	15.0	10.0	10.5	8.5
Merged-chr5-73293730-3	chr5	73293570	73293770	+	762.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023429, intron 1 of 8)	intron (NM_023429, intron 1 of 8)	876.0	NM_001159888	68095.0	Mm.247039	NM_023429	ENSMUSG00000029152	Ociad1	6030432N09Rik|AI481327|AW557942|Asrij|B230209J16Rik|BB021357|Emi2|Imi2|OCIA|TPA018	OCIA domain containing 1	protein-coding	1.5	9.5	6.5	74.0	28.5	7.0	14.0	6.5
Merged-chr13-48513468-4	chr13	48513356	48513556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164575)	promoter-TSS (NM_001164575)	-20.0	NM_001164576	67911.0	Mm.251375	NM_026450	ENSMUSG00000050954	Zfp169	1700025J14Rik|4930429A13Rik|BE688704	zinc finger protein 169	protein-coding	70.0	89.0	41.5	1057.0	149.0	56.0	75.0	40.0
Merged-chr10-117879369-6	chr10	117879251	117879451	+	947.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33377.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	7.5	10.0	14.0	161.0	27.5	5.0	5.5	12.5
Merged-chr1-37030794-2	chr1	37030694	37030894	+	867.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91267.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	7.0	20.5	5.0	49.0	24.5	4.0	2.5	3.5
Merged-chr9-21195260-2	chr9	21195160	21195360	+	764.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 6 of 14)	intron (NM_183408, intron 6 of 14)	-1445.0	NM_019798	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	4.5	5.0	4.5	62.0	13.5	1.0	6.5	7.5
Merged-chr3-96026839-3	chr3	96026708	96026908	+	734.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013841, intron 13 of 14)	RMER6A|LTR|ERVK	-30969.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	7.5	9.0	17.5	205.5	11.0	0.5	7.0	4.5
Merged-chr19-11820023-4	chr19	11819916	11820116	+	878.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152220)	promoter-TSS (NM_152220)	-613.0	NR_153434	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	10.0	28.0	11.5	80.5	50.5	19.0	17.5	9.5
Merged-chr10-11319746-3	chr10	11319635	11319835	+	875.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23710.0	NM_010146	13853.0	Mm.89946	NM_010146	ENSMUSG00000055493	Epm2a	TG-B|Tg(TcraK,TcrbK)TG-BFlv	epilepsy, progressive myoclonic epilepsy, type 2 gene alpha	protein-coding	5.0	15.0	25.0	273.0	18.5	2.0	6.5	5.5
Merged-chr12-42187249-3	chr12	42187138	42187338	+	902.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B|LINE|L1	-701181.0	NM_010733	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	9.5	8.0	9.5	152.5	3.5	3.0	3.5	3.0
Merged-chr3-10247325-2	chr3	10247225	10247425	+	865.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357159, intron 4 of 4)	intron (NM_001357159, intron 4 of 4)	6900.0	NM_001357161	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	7.5	6.0	15.0	52.0	12.0	3.5	11.5	5.0
Merged-chr11-5009888-4	chr11	5009788	5009988	+	782.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 2 of 22)	intron (NM_001243043, intron 2 of 22)	23064.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	25.0	18.0	30.5	361.5	16.0	10.0	16.0	10.0
Merged-chr19-5054047-3	chr19	5053949	5054149	+	772.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145495, intron 9 of 9)	intron (NM_145495, intron 9 of 9)	3241.0	NM_145495	225870.0	Mm.271922	NM_145495	ENSMUSG00000024883	Rin1	-	Ras and Rab interactor 1	protein-coding	10.0	16.5	6.0	65.5	32.0	5.0	6.0	8.5
Merged-chr2-72850035-4	chr2	72849960	72850160	+	787.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36343.0	NR_102349	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	7.0	14.0	3.5	65.5	43.0	10.5	6.5	15.0
Merged-chr17-5511657-4	chr17	5511555	5511755	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	19055.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	25.0	59.5	23.5	161.0	72.5	17.0	23.0	12.5
Merged-chr9-99229610-4	chr9	99229486	99229686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001244762, exon 5 of 5)	exon (NM_001244762, exon 5 of 5)	7653.0	NM_001244762	623459.0	Mm.260891	NM_001244762	ENSMUSG00000096316	Faiml	EG623459|Gm6432	Fas apoptotic inhibitory molecule like	protein-coding	62.0	153.0	56.0	679.0	143.5	60.0	60.5	38.5
Merged-chr3-127932655-3	chr3	127932554	127932754	+	808.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040552, intron 3 of 4)	intron (NR_040552, intron 3 of 4)	16483.0	NR_040552	329753.0	Mm.119720	NR_040552	ENSMUSG00000104763	9830132P13Rik	9830132P13	RIKEN cDNA 9830132P13 gene	ncRNA	9.0	11.0	15.5	125.5	20.0	5.5	19.5	9.5
Merged-chr7-140912430-4	chr7	140912347	140912547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6383.0	NR_015583	212965.0	Mm.387212	NR_015583	ENSMUSG00000109628	BC024386	BC039766	cDNA sequence BC023486	ncRNA	33.0	47.0	40.0	349.0	58.5	26.0	45.5	33.5
Merged-chr13-116985070-3	chr13	116984971	116985171	+	842.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	RMER16|LTR|ERVK	40445.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	3.5	5.0	10.0	81.5	15.0	6.5	9.0	15.0
Merged-chr8-128558187-3	chr8	128558084	128558284	+	970.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-127470.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	28.0	50.0	27.5	600.0	18.5	1.5	8.5	7.5
Merged-chr9-10668802-4	chr9	10668688	10668888	+	845.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033359, intron 1 of 20)	intron (NM_001033359, intron 1 of 20)	235938.0	NM_001033359	244682.0	Mm.187021	NM_001033359	ENSMUSG00000039488	Cntn5	6720426O10Rik|A830025P08Rik|Gm507|NB-2	contactin 5	protein-coding	12.5	6.0	8.5	431.0	20.0	9.0	20.5	16.5
Merged-chr10-44698184-3	chr10	44698086	44698286	+	789.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-239438.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	5.5	5.5	12.5	63.0	15.5	5.0	8.0	9.0
Merged-chr12-110706988-4	chr12	110706890	110707090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10595.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	158.5	269.0	176.5	2455.5	371.0	160.0	182.0	174.0
Merged-chr18-69345944-4	chr18	69345758	69345958	+	863.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361126)	promoter-TSS (NM_001361126)	137.0	NM_001361127	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	5.5	9.5	13.5	65.5	14.5	4.0	7.0	2.5
Merged-chr8-25785277-4	chr8	25785149	25785349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026121)	promoter-TSS (NM_026121)	-40.0	NM_026121	67384.0	Mm.118400	NM_026121	ENSMUSG00000037316	Bag4	2410112I15Rik|SODD	BCL2-associated athanogene 4	protein-coding	155.0	207.5	126.0	2572.5	333.0	165.5	176.0	169.0
Merged-chr4-109271973-4	chr4	109271877	109272077	+	969.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8298.0	NM_007943	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	13.5	26.0	11.0	341.0	40.0	16.5	19.0	19.0
Merged-chr3-157635859-4	chr3	157635766	157635966	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011196, intron 2 of 2)	intron (NM_011196, intron 2 of 2)	68974.0	NM_011196	19218.0	Mm.30424	NM_011196	ENSMUSG00000040016	Ptger3	EP3|Pgerep3|Ptgerep3	prostaglandin E receptor 3 (subtype EP3)	protein-coding	36.0	41.0	22.0	287.5	49.5	14.0	17.5	22.5
Merged-chr15-36719435-4	chr15	36719338	36719538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71494.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	63.0	138.5	94.0	1109.5	234.5	81.0	119.5	106.5
Merged-chr2-103955879-4	chr2	103955791	103955991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-2104.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	49.0	70.5	37.5	921.0	66.5	26.0	52.5	36.5
Merged-chr12-35049251-3	chr12	35049146	35049346	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	2057.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	6.0	9.0	18.0	238.5	17.0	2.0	1.5	13.0
Merged-chr7-97018165-4	chr7	97018071	97018271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 6 of 13)	intron (NM_153591, intron 6 of 13)	-63580.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	27.5	28.5	31.5	452.0	136.0	37.0	58.5	62.5
Merged-chr3-144352798-2	chr3	144352698	144352898	+	688.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147543.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	8.0	6.0	6.0	80.5	14.0	2.0	7.5	3.5
Merged-chr6-51756009-4	chr6	51755932	51756132	+	853.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	210739.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	14.5	19.5	13.5	124.0	19.0	14.0	4.5	17.5
Merged-chr3-37502751-4	chr3	37502658	37502858	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021343, intron 14 of 15)	intron (NM_021343, intron 14 of 15)	82808.0	NM_021343	57815.0	Mm.172679	NM_021343	ENSMUSG00000027722	Spata5	2510048F20Rik|C78064|Spaf	spermatogenesis associated 5	protein-coding	9.5	8.0	4.0	204.5	35.5	10.0	13.0	10.0
Merged-chr2-79713802-4	chr2	79713708	79713908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110980, intron 2 of 2)	intron (NR_110980, intron 2 of 2)	6028.0	NM_001290743	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	71.0	131.0	113.5	2077.5	271.0	71.5	90.0	68.0
Merged-chr18-55282485-3	chr18	55282370	55282570	+	921.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-289879.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	0.0	0.0	0.0	0.0	40.0	22.0	15.5	7.5
Merged-chr13-119378570-2	chr13	119378470	119378670	+	721.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008710, intron 7 of 16)	intron (NM_008710, intron 7 of 16)	30441.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	4.0	5.0	7.0	84.5	26.0	6.5	8.5	9.5
Merged-chr1-192753493-4	chr1	192753406	192753606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 2 of 11)	intron (NM_144881, intron 2 of 11)	17713.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	55.0	72.5	38.5	1178.0	161.0	52.0	74.0	67.0
Merged-chr14-65414501-4	chr14	65414386	65414586	+	900.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010932, intron 1 of 3)	Lx4A|LINE|L1	10986.0	NM_001205075	18155.0	Mm.16347	NM_010932	ENSMUSG00000045731	Pnoc	N/OFQ|Npnc1|OFQ/N	prepronociceptin	protein-coding	8.5	22.0	8.0	19.5	34.0	16.0	6.5	18.0
Merged-chr15-38300013-2	chr15	38299895	38300095	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001357677)	promoter-TSS (NM_001357677)	-95.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	59.5	69.5	79.0	626.0	190.5	49.5	61.5	79.0
Merged-chr11-93885781-4	chr11	93885697	93885897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134012)	promoter-TSS (NM_134012)	-31.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	165.5	263.5	93.0	1611.5	294.0	191.0	168.0	128.5
Merged-chr11-59541526-4	chr11	59541416	59541616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359638)	promoter-TSS (NM_001359638)	-53.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	171.0	303.5	128.0	1522.5	375.5	186.0	151.5	124.5
Merged-chr11-19027398-3	chr11	19027304	19027504	+	983.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8435.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	22.0	22.0	21.0	280.5	15.5	9.0	11.0	13.5
Merged-chr2-172477940-3	chr2	172477858	172478058	+	949.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5404.0	NM_029608	76426.0	Mm.46148	NM_029608	ENSMUSG00000027505	Fam209	1700029J11Rik	family with sequence similarity 209	protein-coding	13.5	9.0	12.5	190.0	5.5	5.0	3.0	7.0
Merged-chr15-101240939-4	chr15	101240859	101241059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15773.0	NR_045328	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	28.0	47.5	29.5	527.0	65.5	28.5	37.5	36.5
Merged-chr12-32709589-4	chr12	32709495	32709695	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-110740.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	28.0	51.0	44.5	405.5	69.5	26.5	31.0	12.5
Merged-chr10-127746050-4	chr10	127745938	127746138	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198035, exon 2 of 2)	3' UTR (NM_198035, exon 2 of 2)	5760.0	NM_007412	11536.0	Mm.2857	NM_007412	ENSMUSG00000058396	Gpr182	AM-R|Admr|G10-D|Gpcr17|Gpcr22|MB10|NOW	G protein-coupled receptor 182	protein-coding	12.0	16.0	15.5	251.0	45.0	5.0	20.5	13.5
Merged-chr10-20919808-4	chr10	20919709	20919909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B2|LTR|ERVK	-32738.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	36.5	45.5	54.5	812.5	84.0	18.5	47.0	48.0
Merged-chr1-156681973-2	chr1	156681862	156682062	+	635.0	f0_balb.idr|f1_balb.idr	intron (NM_145413, intron 7 of 7)	L1ME4c|LINE|L1	-7623.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	5.0	17.0	6.0	89.5	12.0	5.0	1.0	3.0
Merged-chr14-23825093-4	chr14	23824980	23825180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253364, intron 1 of 27)	intron (NM_001253364, intron 1 of 27)	179125.0	NM_001253375	16531.0	Mm.343607	NM_010610	ENSMUSG00000063142	Kcnma1	5730414M22Rik|BKCa|MaxiK|Slo|Slo1|mSlo|mSlo1	potassium large conductance calcium-activated channel, subfamily M, alpha member 1	protein-coding	48.0	70.0	60.5	1344.0	124.0	37.0	47.0	73.0
Merged-chr7-89332377-3	chr7	89332286	89332486	+	618.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	intron (NM_001360746, intron 2 of 14)	6401.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	5.5	7.5	7.0	110.5	18.5	8.0	6.0	3.5
Merged-chr11-22784671-3	chr11	22784593	22784793	+	582.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75042.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	6.0	10.5	15.0	96.0	9.5	2.0	1.5	6.5
Merged-chr6-87809320-4	chr6	87809219	87809419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	intron (NR_104478, intron 1 of 2)	438.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	108.5	189.5	136.0	1824.0	234.0	98.0	90.0	113.5
Merged-chr8-105564939-4	chr8	105564790	105564990	+	979.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013477, intron 1 of 7)	B2_Mm1t|SINE|B2	1174.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	24.5	32.5	11.5	191.0	58.0	14.0	20.0	29.5
Merged-chr16-55967044-4	chr16	55966944	55967144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024218, intron 2 of 5)	intron (NM_024218, intron 2 of 5)	769.0	NM_024218	68193.0	Mm.29221	NM_024218	ENSMUSG00000098274	Rpl24	0610008L05Rik|Bst	ribosomal protein L24	protein-coding	27.0	56.5	23.0	130.0	90.0	43.5	23.5	15.0
Merged-chr11-62005083-4	chr11	62004993	62005193	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310526, intron 1 of 7)	intron (NM_001310526, intron 1 of 7)	48330.0	NM_001310526	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	21.0	42.5	26.0	375.5	79.5	15.5	18.0	32.5
Merged-chr13-23746558-4	chr13	23746423	23746623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175664)	promoter-TSS (NM_175664)	-211.0	NM_175664	319178.0	Mm.390567	NM_175664	ENSMUSG00000075031	Hist1h2bb	H2b-143	histone cluster 1, H2bb	protein-coding	150.5	186.5	107.5	1667.5	310.5	134.0	139.0	139.0
Merged-chr17-56819715-2	chr17	56819615	56819815	+	749.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009056, intron 1 of 16)	intron (NM_009056, intron 1 of 16)	11293.0	NM_009056	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	5.0	5.0	4.0	65.0	20.0	4.5	7.0	10.5
Merged-chr9-21017327-2	chr9	21017227	21017427	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010493, intron 1 of 6)	intron (NM_010493, intron 1 of 6)	1387.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	6.5	29.0	5.5	30.5	26.5	6.0	3.5	8.5
Merged-chr12-100728805-3	chr12	100728705	100728905	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-3685.0	NM_153587	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	18.5	17.0	1.5	130.5	22.0	5.0	5.5	8.5
Merged-chr13-35955998-3	chr13	35955899	35956099	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11907.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	14.0	13.0	18.5	164.5	7.5	5.5	3.5	15.0
Merged-chr11-17160436-4	chr11	17160323	17160523	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 1 of 5)	intron (NM_024459, intron 1 of 5)	1125.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	20.0	32.0	16.5	245.5	62.5	15.0	25.0	25.5
Merged-chr17-29660603-4	chr17	29660493	29660693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028791)	promoter-TSS (NM_028791)	-2.0	NM_028791	74157.0	Mm.390979	NM_028791	ENSMUSG00000024019	Cmtr1	1300018I05Rik|AI451264|Ftsjd2|MTr1	cap methyltransferase 1	protein-coding	117.5	224.0	123.0	1617.0	397.0	147.0	146.5	126.0
Merged-chr11-61470263-3	chr11	61470161	61470361	+	872.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15170.0	NM_001347545	76293.0	Mm.272278	NM_029568	ENSMUSG00000042436	Mfap4	1110007F23Rik	microfibrillar-associated protein 4	protein-coding	5.0	6.5	5.0	93.5	2.0	0.5	9.5	5.0
Merged-chr6-30616838-4	chr6	30616752	30616952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144537, intron 4 of 11)	intron (NM_144537, intron 4 of 11)	5842.0	NM_144537	74649.0	Mm.159276	NM_144537	ENSMUSG00000029788	Cpa5	4930430M09Rik	carboxypeptidase A5	protein-coding	53.5	83.0	61.0	754.0	145.5	24.5	45.5	40.5
Merged-chr6-142339186-4	chr6	142339090	142339290	+	952.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6507.0	NM_183165	232491.0	Mm.490474	NM_183165	ENSMUSG00000041671	Pyroxd1	-	pyridine nucleotide-disulphide oxidoreductase domain 1	protein-coding	10.5	22.0	16.0	112.0	61.0	16.0	20.5	20.0
Merged-chr4-53714159-4	chr4	53714029	53714229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139309)	promoter-TSS (NM_139309)	-53.0	NM_139309	246179.0	Mm.247210	NM_139309	ENSMUSG00000028414	Fktn	D830030O17Rik|Fcmd	fukutin	protein-coding	65.5	101.5	64.5	1030.0	149.0	72.5	82.0	80.5
Merged-chr19-28454815-3	chr19	28454714	28454914	+	905.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175459, intron 4 of 10)	intron (NM_175459, intron 4 of 10)	-223410.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	10.0	9.0	18.5	278.0	5.5	2.0	6.0	1.5
Merged-chr16-21691857-4	chr16	21691759	21691959	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	intron (NM_001001881, intron 1 of 1)	2806.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	13.5	18.5	18.0	331.0	45.0	14.0	11.0	12.0
Merged-chr15-86169241-4	chr15	86169146	86169346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-16482.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	47.5	78.0	31.0	397.0	111.0	45.0	23.0	24.0
Merged-chr13-5803033-4	chr13	5802941	5803141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55051.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	102.0	225.0	134.0	1559.0	373.0	138.0	158.5	100.5
Merged-chr13-5873971-4	chr13	5873851	5874051	+	815.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12462.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	10.5	22.5	11.5	67.0	29.5	19.0	8.0	5.0
Merged-chr17-33910158-4	chr17	33910062	33910262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045146)	promoter-TSS (NR_045146)	561.0	NM_001199733	13163.0	Mm.271809	NM_007829	ENSMUSG00000002307	Daxx	-	Fas death domain-associated protein	protein-coding	51.0	72.0	48.0	594.5	162.0	55.0	49.5	68.5
Merged-chr2-93187513-4	chr2	93187421	93187621	+	973.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356535)	promoter-TSS (NM_001356535)	-27.0	NM_001356536	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	15.0	22.0	14.0	169.5	62.5	18.5	37.5	21.0
Merged-chr11-94392558-1	chr11	94392458	94392658	+	983.6666869999999	f0_c57.idr	intron (NM_029600, intron 1 of 30)	intron (NM_029600, intron 1 of 30)	418.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	19.5	20.0	14.5	193.0	43.5	16.0	18.0	18.0
Merged-chr9-48493936-3	chr9	48493842	48494042	+	903.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144948, intron 2 of 4)	ID_B1|SINE|B4	1388.0	NM_001326355	67010.0	Mm.76911	NM_144948	ENSMUSG00000042396	Rbm7	1200007M24Rik|1500011D06Rik|AU041934|AW554393	RNA binding motif protein 7	protein-coding	6.5	8.5	5.5	40.0	39.0	4.5	1.5	12.0
Merged-chr7-25179810-3	chr7	25179721	25179921	+	871.988892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	24752.0	NR_045848	434147.0	Mm.59171	NM_001033781	ENSMUSG00000074274	D930028M14Rik	EG434147	RIKEN cDNA D930028M14 gene	ncRNA	7.0	14.5	7.5	145.0	24.0	5.5	3.5	7.0
Merged-chr2-169089282-1	chr2	169089182	169089382	+	797.0	f0_balb.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	111013.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	5.0	10.5	5.0	164.0	5.0	3.5	4.0	9.0
Merged-chr14-61690342-3	chr14	61690244	61690444	+	797.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7971.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	11.0	31.0	11.5	17.5	16.0	6.0	8.0	3.5
Merged-chr12-69214550-4	chr12	69214439	69214639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011133, intron 6 of 18)	intron (NM_011133, intron 6 of 18)	13651.0	NM_011133	18974.0	Mm.9199	NM_011133	ENSMUSG00000020974	Pole2	-	polymerase (DNA directed), epsilon 2 (p59 subunit)	protein-coding	17.5	41.5	15.5	299.5	98.0	25.0	29.0	28.5
Merged-chr2-158409734-4	chr2	158409620	158409820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291138)	promoter-TSS (NM_001291138)	-133.0	NM_001291137	228850.0	Mm.398185	NM_177227	ENSMUSG00000027652	Ralgapb	AI507211|B230339M05Rik|p170	Ral GTPase activating protein, beta subunit (non-catalytic)	protein-coding	101.0	172.5	90.0	1165.0	256.0	132.0	129.0	118.5
Merged-chr7-127776537-4	chr7	127776448	127776648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178029)	promoter-TSS (NM_178029)	-841.0	NM_178029	233904.0	Mm.435494	NM_010940	ENSMUSG00000042308	Setd1a	BC010250|KMT2F|Nsccn1|mKIAA0339|mNSC1	SET domain containing 1A	protein-coding	18.0	41.0	24.5	316.0	69.5	21.5	25.5	24.0
Merged-chr9-66886451-2	chr9	66886351	66886551	+	979.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	33254.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	5.5	8.5	9.0	60.5	6.5	7.5	2.5	7.0
Merged-chr5-35730044-4	chr5	35729946	35730146	+	923.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194344)	promoter-TSS (NM_194344)	-770.0	NM_194344	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	26.0	32.0	11.0	216.0	46.5	3.0	11.5	14.0
Merged-chr6-38533678-4	chr6	38533582	38533782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1179.0	NM_025363	66117.0	Mm.158971	NM_025363	ENSMUSG00000019689	Fmc1	1110001J03Rik	formation of mitochondrial complex V assembly factor 1	protein-coding	224.0	384.5	247.5	3567.0	556.5	305.0	286.0	243.0
Merged-chr7-30972790-4	chr7	30972719	30972919	+	789.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038860)	promoter-TSS (NR_038860)	650.0	NM_001164185	54135.0	Mm.4067	NM_017405	ENSMUSG00000001247	Lsr	ILDR3|Lisch7	lipolysis stimulated lipoprotein receptor	protein-coding	14.0	8.5	12.0	169.0	20.0	9.0	9.5	13.0
Merged-chr1-106231521-4	chr1	106231419	106231619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	Lx7|LINE|L1	59650.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	128.0	226.5	130.5	2171.0	343.0	98.5	123.5	111.5
Merged-chr12-17000120-4	chr12	17000006	17000206	+	972.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172574)	promoter-TSS (NM_172574)	12.0	NM_172574	217430.0	Mm.379451	NM_172574	ENSMUSG00000045679	Pqlc3	C78076|E030024M05Rik	PQ loop repeat containing	protein-coding	46.0	78.0	43.0	733.0	47.0	12.5	16.5	15.5
Merged-chr18-32375615-4	chr18	32375512	32375712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045403, intron 1 of 2)	intron (NR_045403, intron 1 of 2)	-1605.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	24.5	29.0	23.5	399.5	86.0	26.0	44.5	36.0
Merged-chr18-46604486-4	chr18	46604377	46604577	+	731.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010120, intron 2 of 2)	intron (NM_010120, intron 2 of 2)	6773.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	5.5	16.5	8.5	111.0	22.5	7.0	6.0	15.0
Merged-chr1-135688141-4	chr1	135688043	135688243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-31920.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	41.5	37.0	22.0	568.0	53.0	20.0	34.0	29.5
Merged-chr16-13644664-3	chr16	13644581	13644781	+	888.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358452, intron 11 of 22)	L1MC4|LINE|L1	23489.0	NM_001358452	74108.0	Mm.182350	NM_028761	ENSMUSG00000022685	Parn	1200003I18Rik|DAN	poly(A)-specific ribonuclease (deadenylation nuclease)	protein-coding	9.5	6.5	10.0	196.5	15.5	8.0	2.0	7.0
Merged-chr2-169756480-3	chr2	169756351	169756551	+	738.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	122805.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	0.0	2.0	0.0	7.0	98.5	19.0	19.5	17.0
Merged-chr12-32280317-4	chr12	32280200	32280400	+	848.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGA)n|Simple_repeat|Simple_repeat	-71651.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	11.0	11.5	8.0	154.0	21.5	16.5	13.5	6.0
Merged-chr9-65541858-4	chr9	65541760	65541960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38227.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	110.5	195.5	102.5	1329.0	327.0	143.0	169.5	151.5
Merged-chr11-80080491-2	chr11	80080391	80080591	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_018776, intron 1 of 7)	intron (NM_018776, intron 1 of 7)	500.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	6.5	10.0	5.0	44.0	24.0	8.0	9.5	16.5
Merged-chr6-51384179-4	chr6	51384136	51384336	+	754.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110455, intron 1 of 2)	intron (NR_110455, intron 1 of 2)	4526.0	NR_110455	625167.0	Mm.389772	NR_110455	ENSMUSG00000107660	Gm6559	EG625167	predicted gene 6559	ncRNA	3.5	9.0	8.5	63.5	18.5	6.0	7.5	10.0
Merged-chr6-128850113-4	chr6	128850024	128850224	+	978.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001254946, exon 3 of 3)	exon (NM_001254946, exon 3 of 3)	-23809.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	14.0	25.5	11.0	221.0	48.5	8.0	14.5	15.5
Merged-chr5-135702787-4	chr5	135702690	135702890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	L1MC4a|LINE|L1	13645.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	102.0	160.0	93.0	1322.0	262.0	106.5	89.0	115.0
Merged-chr19-8829850-4	chr19	8829727	8829927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081196, exon 11 of 14)	exon (NM_001081196, exon 11 of 14)	-7640.0	NM_001136064	14705.0	Mm.345134	NM_008144	ENSMUSG00000071657	Bscl2	2900097C17Rik|AI046355|Gng3lg	Berardinelli-Seip congenital lipodystrophy 2 (seipin)	protein-coding	43.0	65.0	74.0	718.0	79.5	21.0	37.5	26.0
Merged-chr6-127151010-4	chr6	127150883	127151083	+	836.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009829)	promoter-TSS (NM_009829)	65.0	NM_009829	12444.0	Mm.333406	NM_009829	ENSMUSG00000000184	Ccnd2	2600016F06Rik|AI256817|BF642806|C86853|Vin-1|Vin1|cD2	cyclin D2	protein-coding	16.0	14.5	5.5	75.5	42.0	5.5	6.5	8.0
Merged-chr16-92867887-4	chr16	92867771	92867971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-41797.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	30.0	40.0	22.0	424.5	98.5	18.5	40.0	31.5
Merged-chr2-61593623-4	chr2	61593508	61593708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149324, intron 1 of 9)	intron (NR_149324, intron 1 of 9)	511.0	NR_149323	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	125.5	210.0	155.5	1691.5	310.5	124.5	137.5	133.0
Merged-chr17-73416521-4	chr17	73416418	73416618	+	861.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-17222.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	12.5	14.5	14.5	196.5	25.5	9.0	11.5	13.0
Merged-chr7-31097796-4	chr7	31097686	31097886	+	969.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001276269)	TTS (NM_001276269)	13211.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	17.0	14.5	16.5	301.5	74.0	27.0	31.0	22.5
Merged-chr14-73374497-4	chr14	73374397	73374597	+	873.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	10792.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	10.5	15.5	12.0	303.5	41.0	21.0	14.5	7.0
Merged-chr17-71135279-4	chr17	71135177	71135377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48255.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	128.5	110.0	191.5	2943.5	280.0	69.0	130.5	120.5
Merged-chr6-125071284-4	chr6	125071248	125071448	+	979.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163268)	promoter-TSS (NM_001163268)	71.0	NM_001163268	381810.0	Mm.333386	NM_001163268	ENSMUSG00000067714	Lpar5	GPR93|Gm1072|Gpr92|LPA5	lysophosphatidic acid receptor 5	protein-coding	11.5	30.0	20.5	299.0	43.0	6.5	12.0	25.5
Merged-chr7-92725618-3	chr7	92725520	92725720	+	774.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15839.0	NR_015510	666737.0	Mm.473620	NR_015510	ENSMUSG00000074024	4632427E13Rik	AU015482	RIKEN cDNA 4632427E13 gene	ncRNA	3.0	10.0	4.0	201.5	36.0	5.0	6.5	15.0
Merged-chr7-99974777-3	chr7	99974674	99974874	+	745.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	intron (NM_175388, intron 1 of 5)	5684.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	14.0	11.5	8.5	71.0	4.0	5.0	1.5	0.0
Merged-chr4-120885400-4	chr4	120885301	120885501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 4 of 7)	B4A|SINE|B4	30602.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	45.5	30.0	27.0	544.5	70.5	29.5	30.5	35.5
Merged-chr5-120511152-4	chr5	120511065	120511265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133221)	promoter-TSS (NM_133221)	-27.0	NM_001177595	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	184.0	328.5	140.5	2324.0	515.5	181.0	259.5	126.5
Merged-chr17-24162875-4	chr17	24162807	24163007	+	895.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001361535)	TTS (NM_001361535)	826.0	NM_172935	245847.0	Mm.87319	NM_172935	ENSMUSG00000036820	Amdhd2	5730457F11Rik	amidohydrolase domain containing 2	protein-coding	16.5	19.0	10.5	207.0	24.0	9.0	4.5	12.0
Merged-chr14-30479556-4	chr14	30479473	30479673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133761)	promoter-TSS (NM_133761)	8.0	NM_133761	75901.0	Mm.28733	NM_133761	ENSMUSG00000021962	Dcp1a	1110066A22Rik|4930568L04Rik|AU019772|D14Ertd817e|Mitc1|SMIF	decapping mRNA 1A	protein-coding	94.5	166.0	102.0	1286.5	215.5	72.5	116.5	86.0
Merged-chr9-114743647-3	chr9	114743548	114743748	+	932.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026036, intron 3 of 3)	intron (NM_026036, intron 3 of 3)	12445.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	30.5	31.0	30.5	484.0	4.0	1.5	2.0	9.5
Merged-chr7-105726590-4	chr7	105726494	105726694	+	884.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	9990.0	NM_025897	101867.0	Mm.231400	NM_025897	ENSMUSG00000030888	Rrp8	1500003O22Rik|2900001K19Rik|AW538116	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	protein-coding	20.5	15.5	10.5	218.0	30.5	6.5	22.0	11.0
Merged-chr10-117418139-4	chr10	117418039	117418239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29296.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	52.5	69.5	64.0	938.0	163.5	57.0	68.0	60.5
Merged-chr15-101113383-4	chr15	101113297	101113497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2358.0	NM_144790	208258.0	Mm.152952	NM_144790	ENSMUSG00000047034	Ankrd33	A930021G21Rik|Panky|Panky-a	ankyrin repeat domain 33	protein-coding	47.0	87.0	59.0	933.5	116.5	62.0	45.5	63.5
Merged-chr13-46162221-2	chr13	46162121	46162321	+	670.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111500.0	NM_001005422	380842.0	Mm.188108	NM_001005422	ENSMUSG00000063529	Stmnd1	Gm1574	stathmin domain containing 1	protein-coding	5.5	7.5	4.5	55.5	18.0	5.0	12.0	8.0
Merged-chr1-176248284-1	chr1	176248184	176248384	+	594.0	f0_balb.idr	intron (NM_001357846, intron 1 of 8)	intron (NM_001357846, intron 1 of 8)	27028.0	NM_001357846	319455.0	Mm.338001	NM_176916	ENSMUSG00000055214	Pld5	B230365F16Rik	phospholipase D family, member 5	protein-coding	6.5	8.0	4.5	97.0	7.5	1.0	1.5	1.5
Merged-chr1-92981274-3	chr1	92981180	92981380	+	931.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022320, intron 1 of 1)	intron (NM_022320, intron 1 of 1)	2377.0	NM_022320	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	5.0	7.0	13.0	283.0	7.5	2.5	4.5	6.5
Merged-chr4-53158100-4	chr4	53157974	53158174	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	1821.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	19.0	17.0	13.0	114.5	34.5	8.0	6.0	11.0
Merged-chr12-55421460-4	chr12	55421344	55421544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	22619.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	58.5	62.5	32.5	712.5	82.0	35.5	55.0	46.5
Merged-chr8-22895828-4	chr8	22895728	22895928	+	820.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 3 of 17)	intron (NM_001081149, intron 3 of 17)	36289.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	10.5	10.0	4.5	146.5	14.5	12.5	15.5	11.5
Merged-chr15-79243372-4	chr15	79243262	79243462	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045558, intron 6 of 12)	intron (NM_001045558, intron 6 of 12)	11386.0	NM_020516	57274.0	Mm.441697	NM_020516	ENSMUSG00000032988	Slc16a8	Mct3	solute carrier family 16 (monocarboxylic acid transporters), member 8	protein-coding	23.5	30.5	18.5	345.0	122.0	46.5	52.5	27.0
Merged-chr17-32546070-2	chr17	32545970	32546170	+	706.924988	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356302, intron 6 of 11)	L1_Mus3|LINE|L1	9513.0	NM_001356303	70101.0	Mm.30504	NM_024442	ENSMUSG00000048440	Cyp4f16	2310021J05Rik|AI746515	cytochrome P450, family 4, subfamily f, polypeptide 16	protein-coding	6.0	13.0	9.0	25.0	9.0	17.0	9.5	5.0
Merged-chr15-64311910-4	chr15	64311818	64312018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	755.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	34.5	76.5	48.0	558.0	126.0	46.0	62.0	41.0
Merged-chr17-45630208-6	chr17	45630163	45630363	+	875.3472289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001013767)	TTS (NM_001013767)	-28161.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	4.5	11.0	4.5	27.5	20.0	2.0	4.0	5.5
Merged-chr8-24554652-4	chr8	24554530	24554730	+	953.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145949, intron 2 of 9)	intron (NM_145949, intron 2 of 9)	21703.0	NM_145949	209176.0	Mm.219580	NM_145949	ENSMUSG00000031549	Ido2	AI265623|C230043N17Rik|Ido-2|Indol1	indoleamine 2,3-dioxygenase 2	protein-coding	10.0	24.5	22.0	278.5	34.5	12.5	15.0	16.0
Merged-chr8-123477323-2	chr8	123477223	123477423	+	823.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054070)	promoter-TSS (NM_054070)	-539.0	NM_054070	114896.0	Mm.287475	NM_054070	ENSMUSG00000031967	Afg3l1	1700047G05Rik|3110061K15Rik	AFG3-like AAA ATPase 1	protein-coding	8.0	5.5	5.5	42.0	6.0	0.5	1.0	5.5
Merged-chr9-121372197-3	chr9	121372097	121372297	+	687.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357973, intron 1 of 5)	intron (NM_001357973, intron 1 of 5)	5239.0	NM_175114	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	10.5	9.5	7.5	124.5	22.5	9.0	4.0	9.0
Merged-chr14-20842810-4	chr14	20842705	20842905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008873, exon 11 of 11)	3' UTR (NM_008873, exon 11 of 11)	6143.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	46.5	82.0	33.0	605.0	149.5	55.5	56.5	54.0
Merged-chr1-91099072-4	chr1	91098975	91099175	+	947.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 10 of 22)	intron (NM_008515, intron 10 of 22)	45631.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	21.0	21.0	19.0	223.5	33.0	13.5	26.5	20.0
Merged-chr1-82283286-4	chr1	82283209	82283409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010570, intron 1 of 1)	CpG	8130.0	NM_010570	16367.0	Mm.4952	NM_010570	ENSMUSG00000055980	Irs1	G972R|IRS-1	insulin receptor substrate 1	protein-coding	63.0	84.0	97.5	1021.0	96.5	51.5	68.0	60.0
Merged-chr4-105169136-3	chr4	105169044	105169244	+	902.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 1 of 5)	intron (NM_080555, intron 1 of 5)	11797.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	5.5	3.5	10.0	277.0	16.5	8.0	9.0	6.5
Merged-chr13-43512949-3	chr13	43512842	43513042	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-31969.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	30.5	56.5	24.0	282.5	12.5	4.5	13.0	6.0
Merged-chr18-82821666-4	chr18	82821559	82821759	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID|SINE|ID	-34238.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	14.0	30.0	25.0	344.0	54.0	13.0	9.0	17.0
Merged-chr16-30948423-4	chr16	30948292	30948492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	133040.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	82.5	136.5	49.0	800.0	101.0	53.0	48.5	39.0
Merged-chr5-65867945-4	chr5	65867833	65868033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081105, intron 1 of 2)	MER63D|DNA|hAT-Blackjack	4364.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	50.0	82.0	72.5	864.5	99.0	33.5	69.5	55.0
Merged-chr8-26693951-4	chr8	26693851	26694051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	130472.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	23.5	53.0	33.0	304.5	151.5	58.5	44.0	46.5
Merged-chr5-137826587-4	chr5	137826483	137826683	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153510, intron 4 of 6)	intron (NM_153510, intron 4 of 6)	9695.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	8.0	26.5	11.0	79.5	26.0	11.0	16.5	4.0
Merged-chr13-97486036-4	chr13	97485868	97486068	+	769.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110430, intron 2 of 2)	intron (NR_110430, intron 2 of 2)	3267.0	NR_110431	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	7.5	4.5	10.0	88.5	11.0	6.0	6.5	4.5
Merged-chr1-131253875-3	chr1	131253800	131254000	+	922.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019777)	TTS (NM_019777)	-8722.0	NM_018750	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	7.5	15.5	3.5	22.5	25.0	15.5	7.5	6.5
Merged-chr9-49120176-4	chr9	49120065	49120265	+	842.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17386.0	NM_030709	80893.0	Mm.72799	NM_030709	ENSMUSG00000032268	Tmprss5	spinesin	transmembrane protease, serine 5 (spinesin)	protein-coding	9.0	8.5	20.0	171.0	18.5	5.5	16.5	10.5
Merged-chr3-84693045-3	chr3	84692950	84693150	+	697.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 6 of 6)	intron (NM_177260, intron 6 of 6)	26858.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	6.0	9.5	7.0	98.5	23.0	4.0	0.0	4.0
Merged-chr2-117984777-3	chr2	117984675	117984875	+	974.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	126427.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	6.0	14.0	7.5	205.0	24.5	6.0	6.5	16.0
Merged-chr12-25090460-8	chr12	25090240	25090440	+	698.395813	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5752.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	20.0	34.0	6.5	37.0	9.5	8.0	7.0	9.0
Merged-chr2-168557050-4	chr2	168556966	168557166	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	intron (NM_001037177, intron 3 of 6)	33299.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	26.0	20.0	14.5	323.5	39.5	4.0	8.0	15.5
Merged-chr1-131378178-3	chr1	131378032	131378232	+	788.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	intron (NM_001081011, intron 4 of 22)	-98569.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	5.0	17.5	7.0	28.5	10.0	6.0	3.5	2.5
Merged-chr13-119434542-1	chr13	119434442	119434642	+	569.0	f0_balb.idr	intron (NM_145457, intron 2 of 10)	intron (NM_145457, intron 2 of 10)	5640.0	NM_145457	218693.0	Mm.490243	NM_145457	ENSMUSG00000025451	Paip1	PAIP-1	polyadenylate binding protein-interacting protein 1	protein-coding	6.0	7.0	5.0	149.0	18.5	3.5	8.0	11.5
Merged-chr14-61698907-3	chr14	61698817	61699017	+	894.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16544.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	11.0	17.0	14.5	222.5	13.0	2.0	3.5	11.5
Merged-chr11-4080423-4	chr11	4080316	4080516	+	867.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	15015.0	NM_026443	67900.0	Mm.41719	NM_026443	ENSMUSG00000004748	Mtfp1	1700020C11Rik|2610507A21Rik|AV005788|Mtp18	mitochondrial fission process 1	protein-coding	14.0	19.0	13.5	105.0	43.0	13.5	19.0	15.5
Merged-chr11-117198260-4	chr11	117198177	117198377	+	949.6979369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1384.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	13.5	29.0	11.0	231.0	70.0	13.5	17.5	15.0
Merged-chr5-149286161-3	chr5	149286048	149286248	+	850.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009663, intron 4 of 4)	intron (NM_009663, intron 4 of 4)	21144.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	10.5	5.0	8.0	186.0	21.0	7.0	8.5	6.5
Merged-chr13-117223296-4	chr13	117223206	117223406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010330, intron 1 of 8)	MIR|SINE|MIR	2733.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	48.5	53.0	42.5	594.5	108.0	46.5	61.0	35.5
Merged-chr10-57486821-4	chr10	57486667	57486867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045353)	promoter-TSS (NR_045353)	382.0	NM_008297	15500.0	Mm.261395	NM_008297	ENSMUSG00000019878	Hsf2	AI661205	heat shock factor 2	protein-coding	22.5	31.5	42.5	443.5	67.0	21.0	22.5	28.5
Merged-chr4-86396879-4	chr4	86396788	86396988	+	918.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029967, intron 22 of 27)	intron (NM_029967, intron 22 of 27)	161415.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	34.5	24.5	34.5	324.0	25.0	29.0	24.5	7.5
Merged-chr4-44071947-3	chr4	44071841	44072041	+	807.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015828, intron 1 of 11)	intron (NM_015828, intron 1 of 11)	776.0	NM_001357539	50798.0	Mm.256718	NM_015828	ENSMUSG00000028479	Gne	2310066H07Rik|DMRV|GLCNE|IBM2|NM|Uae1	glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase	protein-coding	5.5	6.5	11.5	69.0	8.5	1.5	11.5	7.5
Merged-chr3-136799105-4	chr3	136799003	136799203	+	858.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 2 of 13)	intron (NM_008913, intron 2 of 13)	129037.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	12.0	10.0	6.0	152.0	25.0	4.0	12.0	6.0
Merged-chr8-104344309-7	chr8	104344170	104344370	+	881.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024217, intron 2 of 4)	intron (NM_024217, intron 2 of 4)	3676.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	7.5	9.0	4.5	102.0	20.5	11.5	11.0	14.0
Merged-chr15-38374897-3	chr15	38374803	38375003	+	768.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74192.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	8.0	7.5	8.0	114.0	18.5	2.0	2.5	8.0
Merged-chr14-20082343-2	chr14	20082243	20082443	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026209, intron 1 of 1)	RMER10B|LTR|ERVL	829.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	15.0	8.5	8.0	142.5	33.0	10.5	5.5	19.0
Merged-chr4-62329109-3	chr4	62329005	62329205	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 13 of 27)	intron (NM_001355385, intron 13 of 27)	31491.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	17.0	20.5	15.0	263.5	64.0	25.0	14.0	20.5
Merged-chr4-44166860-3	chr4	44166763	44166963	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038993, intron 1 of 11)	intron (NM_001038993, intron 1 of 11)	675.0	NM_175201	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	10.5	21.5	6.5	100.5	16.0	11.5	7.5	11.5
Merged-chr15-73023077-4	chr15	73023003	73023203	+	982.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029640, intron 6 of 21)	intron (NM_029640, intron 6 of 21)	32709.0	NM_029640	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	16.0	16.5	13.5	263.5	46.5	23.0	24.0	17.5
Merged-chr11-78382870-3	chr11	78382764	78382964	+	805.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008238, intron 1 of 8)	intron (NM_008238, intron 1 of 8)	3744.0	NM_008238	15218.0	Mm.4496	NM_008238	ENSMUSG00000002057	Foxn1	D11Bhm185e|Fkh19|HFH-11|Hfh11|Whn|nu|nude	forkhead box N1	protein-coding	11.0	30.0	21.0	104.0	12.0	4.5	2.0	1.0
Merged-chr2-145161306-4	chr2	145161219	145161419	+	793.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6456.0	NM_001356497	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	7.5	7.0	3.0	112.0	28.5	5.0	7.5	13.5
Merged-chr4-130802230-4	chr4	130802123	130802323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	9686.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	107.5	112.5	86.0	1095.5	188.0	70.0	72.0	112.5
Merged-chr15-93310376-2	chr15	93310276	93310476	+	664.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_024189, intron 2 of 3)	MTC|LTR|ERVL-MaLR	26559.0	NR_028315	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	1.5	11.0	14.5	65.5	13.0	11.5	17.5	8.0
Merged-chr3-144718015-4	chr3	144717912	144718112	+	868.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 1 of 10)	intron (NM_001282037, intron 1 of 10)	2323.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	10.5	18.0	17.5	94.0	38.0	13.0	17.0	10.0
Merged-chr14-33205613-4	chr14	33205491	33205691	+	893.70343	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11232.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	11.5	5.5	10.5	138.5	26.0	12.5	11.5	8.5
Merged-chr12-16881915-4	chr12	16881828	16882028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13050.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	64.0	149.5	85.5	853.0	216.0	130.5	99.0	81.5
Merged-chr17-45623667-4	chr17	45623569	45623769	+	914.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-21567.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	31.0	36.0	7.5	201.0	75.0	29.5	31.5	29.0
Merged-chr5-67814661-4	chr5	67814543	67814743	+	906.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009727, exon 2 of 36)	exon (NM_009727, exon 2 of 36)	32788.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	11.0	24.5	30.0	313.0	51.0	7.5	11.0	23.0
Merged-chr3-136834057-4	chr3	136833971	136834171	+	882.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 2 of 13)	intron (NM_008913, intron 2 of 13)	164005.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	10.5	31.0	11.0	139.5	27.5	8.5	13.5	10.5
Merged-chr5-100500023-4	chr5	100499913	100500113	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359914, intron 1 of 13)	CpG	626.0	NM_172714	231506.0	Mm.212568	NM_172714	ENSMUSG00000035310	Lin54	AI461788	lin-54 homolog (C. elegans)	protein-coding	9.0	26.0	21.0	230.5	51.0	25.0	14.0	21.0
Merged-chr18-60807442-4	chr18	60807328	60807528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042605, intron 1 of 8)	intron (NM_001042605, intron 1 of 8)	3579.0	NM_010545	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	145.5	240.0	129.0	1948.0	319.5	134.0	114.0	116.0
Merged-chr11-84442781-3	chr11	84442682	84442882	+	806.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019816, intron 11 of 12)	intron (NM_019816, intron 11 of 12)	70719.0	NM_019816	56321.0	Mm.257482	NM_019816	ENSMUSG00000018697	Aatf	4933415H02Rik|5830465M17Rik|Che-1|Trb	apoptosis antagonizing transcription factor	protein-coding	17.0	13.0	14.5	268.5	13.5	9.5	8.5	4.5
Merged-chr2-14604281-6	chr2	14604267	14604467	+	646.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023116)	promoter-TSS (NM_023116)	61.0	NM_023116	12296.0	Mm.313930	NM_023116	ENSMUSG00000057914	Cacnb2	AW060387|CAB2|Cavbeta2|Cchb2	calcium channel, voltage-dependent, beta 2 subunit	protein-coding	9.5	6.5	8.0	63.5	11.5	2.0	5.5	4.5
Merged-chr7-80786939-4	chr7	80786832	80787032	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	16399.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	24.5	57.0	16.0	330.5	50.0	17.5	17.5	24.5
Merged-chr11-53233745-2	chr11	53233645	53233845	+	843.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66734.0	NM_008300	15525.0	Mm.239865	NM_008300	ENSMUSG00000020361	Hspa4	70kDa|AI317151|APG-2|Hsp110|Hsp70RY|mKIAA4025	heat shock protein 4	protein-coding	1.0	4.0	3.5	73.0	10.5	7.0	6.0	11.5
Merged-chr1-80646808-4	chr1	80646715	80646915	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	18537.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	4.5	9.0	23.5	331.5	23.0	5.0	14.0	9.5
Merged-chr1-182520203-3	chr1	182520130	182520330	+	934.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2620.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	13.5	11.0	9.0	209.0	12.0	6.0	8.0	4.0
Merged-chr6-17307552-3	chr6	17307456	17307656	+	759.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243064)	promoter-TSS (NM_001243064)	-84.0	NM_001243064	12389.0	Mm.28278	NM_007616	ENSMUSG00000007655	Cav1	Cav|Cav-1	caveolin 1, caveolae protein	protein-coding	9.5	15.0	22.5	156.0	12.5	4.0	12.0	4.5
Merged-chr2-35336398-3	chr2	35336346	35336546	+	869.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	563.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	6.0	11.5	10.0	71.5	17.5	8.0	7.5	8.0
Merged-chr3-22034751-4	chr3	22034657	22034857	+	802.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41895.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	13.5	11.0	7.0	149.0	35.5	15.5	24.0	9.0
Merged-chr15-78869984-4	chr15	78869887	78870087	+	844.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7203.0	NM_145929	106039.0	Mm.251331	NM_145929	ENSMUSG00000033128	Gga1	4930406E12Rik|AU016030|AW209092	golgi associated, gamma adaptin ear containing, ARF binding protein 1	protein-coding	9.0	21.0	5.0	133.0	24.5	17.0	6.0	13.0
Merged-chr1-119492420-4	chr1	119492330	119492530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022327, intron 1 of 4)	RLTR26B_MM|LTR|ERVK	12352.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	29.5	26.5	33.5	544.5	55.0	20.5	43.0	20.0
Merged-chr14-76429076-4	chr14	76428970	76429170	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207652, intron 1 of 2)	intron (NM_207652, intron 1 of 2)	13249.0	NM_207652	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	51.0	56.0	56.5	986.5	101.0	17.0	38.5	18.0
Merged-chr1-66863323-4	chr1	66863212	66863412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007381)	promoter-TSS (NM_007381)	-3.0	NM_007381	11363.0	Mm.2445	NM_007381	ENSMUSG00000026003	Acadl	AA960361|AU018452|C79855|LCAD	acyl-Coenzyme A dehydrogenase, long-chain	protein-coding	91.5	136.0	127.5	2025.5	234.5	76.0	137.0	79.5
Merged-chr2-151009311-4	chr2	151009210	151009410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207204)	promoter-TSS (NM_207204)	88.0	NM_207204	78177.0	Mm.120911	NM_207204	ENSMUSG00000068115	Ninl	4930519N13Rik|Gm1004|Gm1634|mKIAA0980	ninein-like	protein-coding	19.5	31.0	38.0	240.0	36.0	30.0	22.5	23.5
Merged-chr11-116274546-2	chr11	116274452	116274652	+	972.5	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146032)	promoter-TSS (NM_146032)	-335.0	NM_146032	217337.0	Mm.29655	NM_146032	ENSMUSG00000020780	Srp68	2610024I03Rik	signal recognition particle 68	protein-coding	14.5	9.5	4.5	127.0	14.0	4.5	3.5	9.5
Merged-chr16-75886479-4	chr16	75886395	75886595	+	928.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 2 of 7)	intron (NM_023380, intron 2 of 7)	22771.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	11.0	29.5	13.5	206.0	32.0	18.5	21.0	12.5
Merged-chr14-54712175-4	chr14	54712075	54712275	+	747.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207131)	promoter-TSS (NM_207131)	-1.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	8.5	10.5	13.0	120.0	16.5	12.5	4.0	13.0
Merged-chr9-106199231-4	chr9	106199105	106199305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026447)	promoter-TSS (NM_026447)	28.0	NM_026447	67905.0	Mm.23018	NM_026447	ENSMUSG00000020253	Ppm1m	2810423O19Rik|AW610647|C77250|PP2Ceta	protein phosphatase 1M	protein-coding	61.0	86.0	59.0	658.0	113.5	43.5	49.0	49.5
Merged-chr18-38992366-2	chr18	38992266	38992466	+	988.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175164)	promoter-TSS (NM_175164)	-779.0	NM_001361073	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	9.0	8.0	10.0	109.0	15.5	8.0	4.5	13.0
Merged-chr10-60279491-2	chr10	60279391	60279591	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	intron (NM_011179, intron 1 of 14)	1863.0	NM_001146121	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	7.5	5.0	5.5	77.0	16.0	2.5	3.5	15.0
Merged-chr9-106447636-4	chr9	106447543	106447743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110272)	promoter-TSS (NM_001110272)	35.0	NM_001359225	68644.0	Mm.268925	NM_145919	ENSMUSG00000042210	Abhd14a	1110013B16Rik|AW558221|Dorz1	abhydrolase domain containing 14A	protein-coding	132.5	195.5	113.5	2094.0	284.5	121.5	120.5	123.5
Merged-chr2-168904383-4	chr2	168904253	168904453	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51234.0	NM_009564	22722.0	Mm.2095	NM_009564	ENSMUSG00000027551	Zfp64	-	zinc finger protein 64	protein-coding	15.5	12.0	0.5	133.0	32.0	7.5	8.0	20.0
Merged-chr11-120159013-4	chr11	120158907	120159107	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-7656.0	NM_001164798	72055.0	Mm.253403	NM_024249	ENSMUSG00000061306	Slc38a10	1810073N04Rik	solute carrier family 38, member 10	protein-coding	25.0	41.0	16.5	351.0	52.5	26.5	29.5	21.0
Merged-chr11-59540318-4	chr11	59540197	59540397	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1272.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	36.5	23.5	20.5	429.5	52.0	22.0	27.0	30.5
Merged-chr19-46330193-4	chr19	46330113	46330313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133694, exon 4 of 4)	exon (NM_133694, exon 4 of 4)	2029.0	NM_133694	68431.0	Mm.19973	NM_133694	ENSMUSG00000025226	Fbxl15	0710008C12Rik|Fbxo37	F-box and leucine-rich repeat protein 15	protein-coding	46.5	81.5	37.0	776.5	119.5	56.0	65.0	46.5
Merged-chr1-165661908-4	chr1	165661797	165661997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 2 of 5)	intron (NM_001038846, intron 2 of 5)	-27356.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	248.0	420.0	299.0	3837.5	543.0	181.0	239.5	172.0
Merged-chr9-16229106-4	chr9	16229022	16229222	+	949.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	149109.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	16.0	15.0	8.0	247.0	63.0	12.5	19.0	10.0
Merged-chr1-92910717-4	chr1	92910625	92910825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_138577)	promoter-TSS (NR_138577)	-36.0	NR_138577	75995.0	Mm.46179	NR_138577	ENSMUSG00000097251	5033417F24Rik	6330419D11Rik	RIKEN cDNA 5033417F24 gene	ncRNA	36.5	46.5	36.0	697.0	87.0	24.5	61.0	32.5
Merged-chr12-85659526-4	chr12	85659395	85659595	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27225.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	20.5	26.5	18.5	217.5	22.0	13.0	9.0	15.5
Merged-chr19-11999470-4	chr19	11999355	11999555	+	927.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	33611.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	14.5	12.0	13.5	309.0	36.5	7.5	29.5	13.5
Merged-chr6-90422696-4	chr6	90422593	90422793	+	889.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173775, intron 2 of 16)	intron (NM_173775, intron 2 of 16)	5787.0	NM_173775	243538.0	Mm.386876	NM_173775	ENSMUSG00000048794	Cfap100	AW048498|C030041G11Rik|C230069K22Rik|Ccdc37	cilia and flagella associated protein 100	protein-coding	10.0	9.5	5.5	208.0	23.5	7.5	18.5	15.0
Merged-chr7-141294872-3	chr7	141294774	141294974	+	718.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007878, exon 4 of 4)	3' UTR (NM_007878, exon 4 of 4)	2868.0	NM_007878	13491.0	Mm.41075	NM_007878	ENSMUSG00000025496	Drd4	AW125663|D4R|Drd-4	dopamine receptor D4	protein-coding	10.0	6.5	7.0	99.5	15.5	6.5	7.5	8.0
Merged-chr11-59306955-3	chr11	59306858	59307058	+	610.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139298)	promoter-TSS (NM_139298)	28.0	NM_139298	216795.0	Mm.218794	NM_139298	ENSMUSG00000000126	Wnt9a	Wnt14	wingless-type MMTV integration site family, member 9A	protein-coding	12.5	11.0	8.5	120.0	17.5	3.5	10.0	6.0
Merged-chr2-58574262-3	chr2	58574173	58574373	+	759.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 1 of 7)	MIR3|SINE|MIR	6939.0	NM_001289660	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	7.5	7.0	3.5	106.5	14.0	7.5	10.5	7.5
Merged-chr5-134176545-7	chr5	134176468	134176668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033572, exon 1 of 11)	exon (NM_033572, exon 1 of 11)	199.0	NM_033572	94254.0	Mm.29508	NM_033572	ENSMUSG00000061979	Rcc1l	5730496C04Rik|AU019812|Wbscr16	reculator of chromosome condensation 1 like	protein-coding	26.5	27.0	32.5	191.5	31.5	12.5	16.5	28.0
Merged-chr13-67831096-4	chr13	67831006	67831206	+	881.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045194)	promoter-TSS (NR_045194)	0.0	NM_001309374	102637366.0	Mm.121460	NM_001015506	ENSMUSG00000058246	Gm10037	EG328280|Rslcan24	predicted gene 10037	protein-coding	4.5	11.0	7.5	40.0	81.0	26.5	21.5	25.0
Merged-chr13-49198958-4	chr13	49198879	49199079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11432.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	128.5	182.5	159.5	2720.5	429.0	142.0	180.0	168.5
Merged-chr14-65064803-4	chr14	65064705	65064905	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360385, intron 3 of 5)	RMER10B|LTR|ERVL	33301.0	NM_018788	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	16.5	15.5	29.0	387.5	67.5	23.5	34.0	33.0
Merged-chr11-97883682-4	chr11	97883583	97883783	+	947.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081435, intron 1 of 10)	CpG	471.0	NM_001081435	72973.0	Mm.245939	NM_001081435	ENSMUSG00000070336	Fbxo47	2900052P03Rik|Gm1562	F-box protein 47	protein-coding	17.5	31.5	13.5	187.5	57.0	24.0	16.5	12.5
Merged-chr11-76579110-1	chr11	76579010	76579210	+	724.0	f0_balb.idr	Intergenic	Intergenic	-1371.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	11.0	6.5	9.0	128.0	0.0	0.0	2.5	4.0
Merged-chr6-136988723-2	chr6	136988636	136988836	+	720.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	34213.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	4.0	4.0	5.0	51.5	48.0	12.0	29.5	7.5
Merged-chr9-56264463-4	chr9	56264382	56264582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 3 of 6)	intron (NM_172924, intron 3 of 6)	-103412.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	25.5	34.5	18.0	277.0	74.5	29.0	22.5	36.5
Merged-chr4-43251489-1	chr4	43251389	43251589	+	600.0	f1_c57bl6.idr	intron (NM_001081413, intron 26 of 39)	intron (NM_001081413, intron 26 of 39)	-15670.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	2.5	2.5	0.0	91.5	17.5	7.0	7.0	6.5
Merged-chr7-126144518-4	chr7	126144427	126144627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 8 of 23)	MTD|LTR|ERVL-MaLR	55974.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	58.0	112.5	43.0	862.0	142.0	50.5	61.0	50.0
Merged-chr6-29171225-4	chr6	29171147	29171347	+	917.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101443, exon 5 of 5)	exon (NM_001101443, exon 5 of 5)	-6523.0	NM_133925	68272.0	Mm.40802	NM_026650	ENSMUSG00000029701	Rbm28	2810480G15Rik|AI503051	RNA binding motif protein 28	protein-coding	13.0	28.0	13.0	234.0	41.5	22.5	21.5	17.0
Merged-chr6-86487973-4	chr6	86487858	86488058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040292, exon 1 of 2)	non-coding (NR_040292, exon 1 of 2)	269.0	NR_040293	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	18.5	33.5	43.5	321.0	57.5	25.5	39.0	31.5
Merged-chr16-20672713-4	chr16	20672628	20672828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304432)	promoter-TSS (NM_001304432)	1.0	NM_001304432	208643.0	Mm.260256	NM_145941	ENSMUSG00000045983	Eif4g1	E030015G23Rik|eIF-4-gamma 1|eIF-4G 1|eIF-4G1|eIF4GI	eukaryotic translation initiation factor 4, gamma 1	protein-coding	160.5	235.5	130.0	1768.5	348.0	145.0	133.0	107.0
Merged-chr6-100670600-4	chr6	100670497	100670697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181590, intron 1 of 10)	CpG	560.0	NM_181590	72171.0	Mm.256022	NM_181590	ENSMUSG00000035378	Shq1	2810403P18Rik|Grim-1	SHQ1 homolog (S. cerevisiae)	protein-coding	25.0	44.0	31.0	428.0	51.5	24.5	31.5	28.0
Merged-chr17-34263213-4	chr17	34263123	34263323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207105)	promoter-TSS (NM_207105)	-4.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	64.5	96.5	55.5	671.0	300.5	84.0	92.0	104.5
Merged-chr11-76474661-4	chr11	76474552	76474752	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 3 of 21)	PB1|SINE|Alu	-6187.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	14.0	11.5	10.0	282.0	30.0	14.5	16.0	9.5
Merged-chr3-127789934-4	chr3	127789826	127790026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145133)	promoter-TSS (NM_145133)	54.0	NM_145133	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	144.5	279.0	149.5	1265.0	367.0	109.0	141.5	96.0
Merged-chr5-45497739-4	chr5	45497629	45497829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024434, intron 4 of 12)	intron (NM_024434, intron 4 of 12)	4355.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	29.0	32.0	66.0	742.5	74.0	22.0	28.0	25.0
Merged-chr10-43841242-4	chr10	43841130	43841330	+	979.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	15323.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	22.0	36.0	36.5	320.0	66.5	14.0	35.5	20.5
Merged-chr16-17939020-4	chr16	17938932	17939132	+	953.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10813.0	NM_153150	13358.0	Mm.229291	NM_153150	ENSMUSG00000003528	Slc25a1	1300019P08Rik|2610100G11Rik|AI194714|Ctp|Dgsj|Slc20a3	solute carrier family 25 (mitochondrial carrier, citrate transporter), member 1	protein-coding	16.5	29.5	9.5	334.0	45.5	8.5	25.0	19.5
Merged-chr10-117807684-6	chr10	117807579	117807779	+	895.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-14974.0	NM_134010	103468.0	Mm.12568	NM_134010	ENSMUSG00000052798	Nup107	AW541137|C76801	nucleoporin 107	protein-coding	4.5	13.5	16.5	148.5	17.5	7.5	6.0	8.5
Merged-chr7-80045580-2	chr7	80045479	80045679	+	675.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	19351.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	1.0	7.5	4.0	48.5	15.5	7.0	9.0	4.5
Merged-chr11-4240489-3	chr11	4240397	4240597	+	838.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001013365, exon 3 of 3)	3' UTR (NM_001013365, exon 3 of 3)	3712.0	NM_001013365	18413.0	Mm.131422	NM_001013365	ENSMUSG00000058755	Osm	OncoM	oncostatin M	protein-coding	22.5	27.0	19.0	586.0	12.5	4.0	6.5	4.0
Merged-chr11-20113411-2	chr11	20113306	20113506	+	1000.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_146243)	promoter-TSS (NM_146243)	-455.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	30.0	72.0	34.0	701.5	113.0	45.5	31.5	33.5
Merged-chr15-25862144-4	chr15	25862049	25862249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	intron (NM_001034851, intron 1 of 8)	18851.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	42.5	39.5	38.0	900.5	83.0	19.5	31.5	44.0
Merged-chr7-16192550-4	chr7	16192425	16192625	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17130.0	NR_102730	17537.0	Mm.360516	NM_008627	ENSMUSG00000041420	Meis3	AI573393|Mrg2	Meis homeobox 3	protein-coding	10.0	12.0	10.5	107.0	30.0	10.5	14.5	4.5
Merged-chr3-86960712-1	chr3	86960612	86960812	+	895.0	f0_balb.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-25874.0	NM_001289449	12480.0	Mm.389465	NM_007640	ENSMUSG00000041750	Cd1d2	CD1.2|Cd1b|Ly-38	CD1d2 antigen	protein-coding	9.0	5.0	8.0	70.5	1.5	0.5	3.5	0.0
Merged-chr6-22409077-4	chr6	22409003	22409203	+	911.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53022.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	8.0	13.5	22.5	248.5	10.5	12.5	8.0	5.0
Merged-chr9-65364366-3	chr9	65364265	65364465	+	970.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111145, intron 1 of 6)	intron (NM_001111145, intron 1 of 6)	3305.0	NM_001111145	208080.0	Mm.291862	NM_001111145	ENSMUSG00000086228	Ubap1l	Gm514	ubiquitin-associated protein 1-like	protein-coding	10.0	27.0	27.5	282.0	8.0	4.5	3.0	1.5
Merged-chr5-19891890-4	chr5	19891794	19891994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	L2a|LINE|L2	-15624.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	102.5	147.5	128.5	2043.5	303.5	86.0	151.0	103.0
Merged-chr18-12237089-4	chr18	12236992	12237192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008720)	promoter-TSS (NM_008720)	-706.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	38.0	49.5	32.0	458.0	116.5	37.0	36.5	41.0
Merged-chr2-119242489-3	chr2	119242400	119242600	+	866.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016907, intron 2 of 10)	intron (NM_016907, intron 2 of 10)	5140.0	NM_016907	20732.0	Mm.104955	NM_016907	ENSMUSG00000027315	Spint1	HAI-1	serine protease inhibitor, Kunitz type 1	protein-coding	0.0	1.0	4.0	6.5	19.5	13.5	7.0	12.0
Merged-chr2-130525243-3	chr2	130525150	130525350	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 7 of 21)	intron (NM_001355161, intron 7 of 21)	38499.0	NR_040348	321014.0	Mm.442588	NR_040348	ENSMUSG00000060029	4930473A02Rik	-	RIKEN cDNA 4930473A02 gene	ncRNA	24.0	19.5	34.0	266.0	40.0	10.5	16.0	17.5
Merged-chr10-128092550-7	chr10	128092458	128092658	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054078)	promoter-TSS (NM_054078)	-225.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	14.5	23.0	22.0	165.0	52.5	24.5	33.0	33.0
Merged-chr15-28395889-4	chr15	28395801	28396001	+	912.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133365, intron 58 of 78)	(TTC)n|Simple_repeat|Simple_repeat	192135.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	11.5	12.5	18.0	410.5	56.0	18.5	23.5	13.5
Merged-chr10-9717183-4	chr10	9717077	9717277	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32455.0	NR_038036	620417.0	Mm.378085	NR_038036	ENSMUSG00000111901	Gm6150	-	predicted gene 6150	ncRNA	28.5	68.0	53.0	510.5	62.5	26.5	43.0	15.0
Merged-chr10-77267209-4	chr10	77267112	77267312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030262, exon 8 of 9)	exon (NM_030262, exon 8 of 9)	7912.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	32.0	73.0	70.5	693.0	96.5	31.0	64.5	73.5
Merged-chr11-86717675-3	chr11	86717575	86717775	+	802.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 14 of 31)	intron (NM_001003908, intron 14 of 31)	33594.0	NM_001098810	217057.0	Mm.24868	NM_175004	ENSMUSG00000072582	Ptrh2	A230072I16Rik|Bit1|CGI-147	peptidyl-tRNA hydrolase 2	protein-coding	18.0	10.0	12.0	189.0	11.5	7.5	9.5	13.5
Merged-chr9-47652748-4	chr9	47652639	47652839	+	708.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	122387.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	18.0	18.5	11.0	265.0	23.0	9.5	7.0	14.5
Merged-chr7-138885770-3	chr7	138885666	138885866	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23740.0	NM_009760	12176.0	Mm.378890	NM_009760	ENSMUSG00000078566	Bnip3	Nip3	BCL2/adenovirus E1B interacting protein 3	protein-coding	9.5	14.0	13.5	368.5	16.0	1.0	10.5	16.0
Merged-chr10-95361384-4	chr10	95361287	95361487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045337, intron 2 of 2)	intron (NR_045337, intron 2 of 2)	25111.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	21.5	57.0	33.5	266.5	65.5	27.5	37.0	27.5
Merged-chr15-99116563-4	chr15	99116454	99116654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10291.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	19.0	43.5	62.5	629.5	61.5	24.0	24.5	23.5
Merged-chr9-74825279-1	chr9	74825179	74825379	+	767.666687	f0_balb.idr	Intergenic	Intergenic	-23158.0	NR_045284	100503019.0	Mm.482658	NR_045284	ENSMUSG00000066477	Gm16551	-	predicted gene 16551	ncRNA	11.5	7.0	9.5	141.0	10.0	3.0	4.5	0.5
Merged-chr15-64040954-4	chr15	64040853	64041053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	18811.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	122.0	217.5	142.0	2115.5	249.0	103.0	107.5	104.0
Merged-chr1-151595082-4	chr1	151594977	151595177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	23704.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	86.5	69.5	59.0	1110.0	92.0	25.0	28.5	36.5
Merged-chr11-8630028-4	chr11	8629943	8630143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	intron (NM_001083587, intron 1 of 30)	34492.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	41.5	48.0	53.0	783.0	122.0	28.0	47.0	50.5
Merged-chr2-90940379-4	chr2	90940278	90940478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017368)	promoter-TSS (NM_017368)	-19.0	NM_198683	13046.0	Mm.29495	NM_017368	ENSMUSG00000005506	Celf1	1600010O03Rik|AA407467|Brunol2|CUG-BP|CUG-BP1|CUGBP|Cugbp1|D2Wsu101e|HNAB50|NAB50	CUGBP, Elav-like family member 1	protein-coding	86.5	115.0	48.5	1103.0	151.5	61.0	69.0	53.0
Merged-chr4-45297134-4	chr4	45297028	45297228	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027266)	promoter-TSS (NM_027266)	-40.0	NM_027266	69934.0	Mm.46761	NM_027266	ENSMUSG00000035601	Trmt10b	2610042J10Rik|Rg9mtd3|Rnmtd3	tRNA methyltransferase 10B	protein-coding	17.0	24.5	10.0	187.5	47.0	16.0	22.0	20.0
Merged-chr4-66830581-5	chr4	66830374	66830574	+	832.34668	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021297, intron 1 of 2)	Lx2|LINE|L1	2923.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	5.5	6.5	6.0	38.0	8.0	2.5	2.0	6.0
Merged-chr2-117936747-3	chr2	117936629	117936829	+	758.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	114801.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	4.5	11.0	10.0	105.0	9.5	3.0	1.5	7.0
Merged-chr6-129471579-4	chr6	129471469	129471669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020008, intron 1 of 5)	intron (NM_020008, intron 1 of 5)	1210.0	NM_001309637	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	47.5	77.5	101.5	815.5	116.0	51.0	58.0	67.5
Merged-chr14-34514297-2	chr14	34514197	34514397	+	956.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_030062, intron 2 of 2)	intron (NM_030062, intron 2 of 2)	8504.0	NM_030062	78243.0	Mm.117483	NM_030062	ENSMUSG00000021797	9230112D13Rik	-	RIKEN cDNA 9230112D13 gene	protein-coding	5.0	8.0	5.5	89.5	19.0	1.0	10.0	9.5
Merged-chr15-100664106-4	chr15	100664016	100664216	+	902.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270537, intron 1 of 10)	intron (NM_001270537, intron 1 of 10)	5384.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	9.0	27.0	18.0	183.5	22.0	12.5	12.0	6.5
Merged-chr14-67920114-1	chr14	67920014	67920214	+	618.0	f0_balb.idr	intron (NM_177780, intron 1 of 51)	intron (NM_177780, intron 1 of 51)	13458.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	11.0	12.5	5.0	80.5	18.0	3.5	6.0	6.0
Merged-chr10-44457344-4	chr10	44457218	44457418	+	986.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007548, intron 1 of 6)	intron (NM_007548, intron 1 of 6)	1430.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	14.5	27.0	33.5	386.0	37.0	11.0	18.0	21.0
Merged-chr10-89462024-4	chr10	89461905	89462105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009108, intron 7 of 8)	intron (NM_009108, intron 7 of 8)	-18038.0	NM_001033331	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	44.5	63.0	45.5	679.5	95.0	46.5	48.5	42.0
Merged-chr8-88668764-4	chr8	88668676	88668876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 4 of 12)	intron (NM_145857, intron 4 of 12)	21429.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	195.5	210.0	180.5	2770.0	469.0	151.0	241.0	193.5
Merged-chr12-79444878-2	chr12	79444778	79444978	+	697.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	147527.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	5.0	8.0	6.5	41.5	7.0	6.5	7.0	13.5
Merged-chr3-144617936-4	chr3	144617832	144618032	+	912.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47505.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	11.0	16.5	17.0	153.0	28.5	3.5	3.0	11.0
Merged-chr13-55022892-4	chr13	55022798	55022998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1513.0	NM_001033245	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	47.0	75.0	39.0	645.0	100.5	47.0	42.0	40.0
Merged-chr2-35661555-3	chr2	35661454	35661654	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001114125, exon 3 of 17)	exon (NM_001114125, exon 3 of 17)	-30440.0	NM_001001602	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	21.0	8.0	20.0	185.5	15.0	4.5	11.0	9.0
Merged-chr4-95784358-4	chr4	95784267	95784467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 8 of 10)	L2|LINE|L2	182668.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	15.5	21.5	24.5	734.5	57.0	11.0	34.0	23.0
Merged-chr3-59130570-6	chr3	59130513	59130713	+	891.255554	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001287124, exon 1 of 2)	5' UTR (NM_001287124, exon 1 of 2)	149.0	NM_001287124	140795.0	Mm.439021	NM_133200	ENSMUSG00000036381	P2ry14	A330108O13Rik|Gpr105|P2Y14	purinergic receptor P2Y, G-protein coupled, 14	protein-coding	14.5	10.0	15.5	242.5	17.0	10.5	11.5	15.0
Merged-chr10-76531465-4	chr10	76531344	76531544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146006)	promoter-TSS (NM_146006)	-161.0	NM_146006	16987.0	Mm.55075	NM_146006	ENSMUSG00000033105	Lss	2810025N20Rik|D10Ertd116e|Osc	lanosterol synthase	protein-coding	206.0	323.5	239.5	3159.5	500.0	179.5	255.5	176.0
Merged-chr11-61931202-2	chr11	61931102	61931302	+	944.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019921)	promoter-TSS (NM_019921)	-945.0	NM_019921	56697.0	Mm.274404	NM_019921	ENSMUSG00000047804	Akap10	1500031L16Rik|B130049N18Rik|D-AKAP-2|D-AKAP2|PRKA10	A kinase (PRKA) anchor protein 10	protein-coding	5.0	9.0	1.5	50.0	9.0	7.0	5.5	11.5
Merged-chr5-72259534-4	chr5	72259434	72259634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 10 of 22)	intron (NR_003966, intron 10 of 22)	56191.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	52.0	50.0	46.0	823.0	107.5	20.5	38.0	45.5
Merged-chr15-53462238-2	chr15	53462138	53462338	+	994.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_177225, intron 4 of 4)	intron (NM_177225, intron 4 of 4)	-116055.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	6.0	5.5	8.0	47.5	7.0	0.0	4.0	2.5
Merged-chr5-124475434-4	chr5	124475333	124475533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 1 of 3)	intron (NM_030259, intron 1 of 3)	2802.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	138.0	258.5	164.0	2262.5	444.5	176.5	176.5	130.0
Merged-chr6-17800393-4	chr6	17800271	17800471	+	656.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	51201.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	5.0	9.5	14.5	105.0	22.0	10.0	6.5	13.5
Merged-chr17-45686309-4	chr17	45686190	45686390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198167)	promoter-TSS (NM_198167)	-59.0	NM_026732	68463.0	Mm.379158	NM_026732	ENSMUSG00000023939	Mrpl14	1110006I11Rik|AI846816|MRP-L32|Rpml32	mitochondrial ribosomal protein L14	protein-coding	72.0	149.5	68.5	753.5	270.5	101.0	78.5	84.0
Merged-chr19-10171970-4	chr19	10171874	10172074	+	805.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-10914.0	NM_146094	76267.0	Mm.30158	NM_146094	ENSMUSG00000010663	Fads1	0710001O03Rik|A930006B21Rik|AI317215|DSD	fatty acid desaturase 1	protein-coding	7.5	12.5	8.5	98.5	21.0	5.0	13.5	14.0
Merged-chr19-36932814-4	chr19	36932718	36932918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080706, intron 1 of 37)	intron (NM_001080706, intron 1 of 37)	6739.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	38.5	78.0	52.5	1064.0	184.5	43.5	108.0	62.0
Merged-chr3-41463105-3	chr3	41463032	41463232	+	690.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30067.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	8.0	11.5	9.5	245.0	1.5	1.5	3.5	7.5
Merged-chr8-111636479-3	chr8	111636380	111636580	+	858.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-6158.0	NM_027570	52815.0	Mm.27589	NM_027570	ENSMUSG00000031958	Ldhd	4733401P21Rik|D8Bwg1320e	lactate dehydrogenase D	protein-coding	6.0	32.0	10.5	179.0	12.0	7.5	10.5	9.0
Merged-chr14-70101537-4	chr14	70101435	70101635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021328, intron 1 of 8)	intron (NM_021328, intron 1 of 8)	1442.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	75.0	100.5	71.0	1031.5	177.5	69.5	96.5	82.5
Merged-chr1-191278517-4	chr1	191278379	191278579	+	798.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39639.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	14.0	26.0	9.0	154.0	21.0	9.5	9.0	3.5
Merged-chr11-117306859-4	chr11	117306743	117306943	+	797.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-24872.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	24.0	9.5	9.0	164.5	16.5	10.0	15.0	13.5
Merged-chr19-28678125-6	chr19	28678044	28678244	+	914.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045330)	promoter-TSS (NR_045330)	-80.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	8.5	6.5	12.0	71.0	9.0	4.5	8.5	14.5
Merged-chr1-156996657-4	chr1	156996556	156996756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57030.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	50.0	61.5	48.0	763.5	118.0	47.0	66.0	44.5
Merged-chr2-6721184-4	chr2	6721108	6721308	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	454.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	23.5	25.0	12.0	454.5	42.5	26.5	25.0	39.0
Merged-chr7-121059757-3	chr7	121059680	121059880	+	930.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021554, intron 4 of 4)	intron (NM_021554, intron 4 of 4)	14750.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	9.5	14.5	11.0	211.5	15.5	3.0	15.0	4.0
Merged-chr10-50609687-3	chr10	50609590	50609790	+	728.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 3 of 41)	intron (NM_198007, intron 3 of 41)	17021.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	9.5	2.5	5.5	120.0	16.0	5.0	5.0	5.5
Merged-chr2-14242581-4	chr2	14242449	14242649	+	960.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 2 of 29)	intron (NM_008625, intron 2 of 29)	13135.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	20.0	18.0	34.5	363.5	27.5	19.5	25.0	20.0
Merged-chr6-76513209-4	chr6	76513105	76513305	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-729272.0	NR_155299	74342.0	Mm.292568	NM_028880	ENSMUSG00000060780	Lrrtm1	4632401D06Rik|AW125451	leucine rich repeat transmembrane neuronal 1	protein-coding	30.5	57.0	55.0	1119.5	37.5	13.5	11.0	20.5
Merged-chr19-36768294-4	chr19	36768187	36768387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31683.0	NM_016854	53412.0	Mm.24724	NM_016854	ENSMUSG00000067279	Ppp1r3c	PTG|Ppp1r5	protein phosphatase 1, regulatory (inhibitor) subunit 3C	protein-coding	35.5	75.5	51.5	693.5	163.5	35.5	55.0	69.5
Merged-chr6-89364574-3	chr6	89364472	89364672	+	938.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1959.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	15.5	19.5	22.5	176.5	26.5	14.5	8.5	6.0
Merged-chr4-125089979-3	chr4	125089889	125090089	+	670.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151472, intron 3 of 7)	intron (NR_151472, intron 3 of 7)	4855.0	NR_151472	70088.0	Mm.291214	NM_027310	ENSMUSG00000028863	Meaf6	2310005N01Rik|2810036M01Rik	MYST/Esa1-associated factor 6	protein-coding	8.5	7.0	8.5	160.5	21.0	1.5	9.5	9.5
Merged-chr4-32571208-4	chr4	32571101	32571301	+	940.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_026843, intron 1 of 4)	intron (NR_026843, intron 1 of 4)	461.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	8.5	15.5	20.5	250.0	36.5	9.0	23.5	16.5
Merged-chr2-102883203-3	chr2	102883115	102883315	+	857.56665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	18450.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	6.0	32.5	6.0	76.0	32.0	15.0	13.0	2.5
Merged-chr10-117821996-4	chr10	117821920	117822120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 3 of 7)	intron (NM_024457, intron 3 of 7)	23954.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	34.5	46.5	30.5	589.0	87.5	27.0	22.5	27.5
Merged-chr2-52423447-6	chr2	52423417	52423617	+	872.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182994, intron 1 of 5)	intron (NM_182994, intron 1 of 5)	1357.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	10.5	2.5	9.0	50.5	11.0	7.5	5.0	5.5
Merged-chr14-69804862-4	chr14	69804771	69804971	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153514, intron 1 of 9)	intron (NM_153514, intron 1 of 9)	674.0	NM_153514	246710.0	Mm.102367	NM_153514	ENSMUSG00000022075	Rhobtb2	Dbc2|E130206H14Rik|mKIAA0717	Rho-related BTB domain containing 2	protein-coding	19.0	33.0	13.0	310.0	53.5	12.5	23.5	14.5
Merged-chr15-66577976-3	chr15	66577866	66578066	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081409, intron 1 of 20)	CpG	394.0	NM_001081409	239510.0	Mm.267473	NM_178718	ENSMUSG00000072501	Phf20l1	CGI-72|E130113K22Rik	PHD finger protein 20-like 1	protein-coding	30.5	47.0	45.0	385.5	69.0	23.0	26.0	40.5
Merged-chr9-108608180-4	chr9	108608157	108608357	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151664, intron 12 of 15)	B1_Mus1|SINE|Alu	-10645.0	NR_151688	74443.0	Mm.226534	NM_028944	ENSMUSG00000006675	P4htm	4933406E20Rik|AI853847|BB128974|HIF-PH4|HPH-4|P4H-TM|Ph-4	prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum)	protein-coding	21.5	20.0	21.5	59.5	31.5	8.5	13.0	16.5
Merged-chr5-31488094-4	chr5	31487990	31488190	+	946.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026296, exon 2 of 2)	exon (NM_026296, exon 2 of 2)	2231.0	NM_026296	67656.0	Mm.23355	NM_026296	ENSMUSG00000029138	4930548H24Rik	AI427865	RIKEN cDNA 4930548H24 gene	protein-coding	20.5	17.5	9.5	323.0	33.5	16.0	21.0	16.0
Merged-chr3-37360798-4	chr3	37360692	37360892	+	841.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008006, intron 1 of 2)	intron (NM_008006, intron 1 of 2)	12139.0	NM_008006	14173.0	Mm.473689	NM_008006	ENSMUSG00000037225	Fgf2	Fgf-2|Fgfb|bFGF	fibroblast growth factor 2	protein-coding	4.5	6.5	16.0	134.5	22.5	7.5	16.5	18.5
Merged-chr15-91178833-4	chr15	91178737	91178937	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 4 of 9)	intron (NM_011994, intron 4 of 9)	13170.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	25.5	18.0	38.5	689.5	68.0	18.0	19.5	28.0
Merged-chr1-184730895-4	chr1	184730794	184730994	+	751.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008250, intron 1 of 3)	intron (NM_008250, intron 1 of 3)	1599.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	8.5	13.0	14.0	46.0	28.5	21.0	3.5	9.5
Merged-chr11-54091862-4	chr11	54091750	54091950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9074.0	NM_001136076	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	89.5	157.5	90.5	1304.5	256.0	116.5	98.0	110.0
Merged-chr15-100048356-4	chr15	100048251	100048451	+	943.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	9687.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	19.0	16.0	11.5	199.0	51.0	13.5	21.0	31.5
Merged-chr12-111743521-4	chr12	111743421	111743621	+	857.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163388, intron 4 of 5)	L1MB3|LINE|L1	-15328.0	NM_001361612	16593.0	Mm.278357	NM_008450	ENSMUSG00000021288	Klc1	AI874768|Kns2	kinesin light chain 1	protein-coding	12.0	15.5	10.0	144.0	27.0	3.5	10.5	13.0
Merged-chr1-66862882-4	chr1	66862793	66862993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007381, intron 1 of 10)	CpG	416.0	NM_007381	11363.0	Mm.2445	NM_007381	ENSMUSG00000026003	Acadl	AA960361|AU018452|C79855|LCAD	acyl-Coenzyme A dehydrogenase, long-chain	protein-coding	77.0	114.5	94.0	1465.5	177.5	53.5	76.5	63.0
Merged-chr15-83134418-4	chr15	83134248	83134448	+	963.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 3 of 7)	intron (NM_001347082, intron 3 of 7)	-11547.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	6.0	10.5	8.0	88.0	34.5	2.0	6.0	9.0
Merged-chr14-121423115-4	chr14	121422997	121423197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43867.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	70.0	82.0	70.0	1276.5	155.5	38.5	75.0	59.0
Merged-chr11-69662755-4	chr11	69662664	69662864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301710)	promoter-TSS (NM_001301710)	-115.0	NM_011900	24070.0	Mm.89579	NM_011900	ENSMUSG00000018761	Mpdu1	LEC35|SL15|Supl15h	mannose-P-dolichol utilization defect 1	protein-coding	154.0	249.5	161.0	2021.5	491.0	148.0	162.0	151.5
Merged-chr11-34833675-4	chr11	34833582	34833782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027411)	promoter-TSS (NM_027411)	-41.0	NM_027411	70385.0	Mm.194368	NM_027411	ENSMUSG00000069910	Spdl1	1700018I02Rik|2600001J17Rik|2810049B11Rik|AA409762|Ccdc99	spindle apparatus coiled-coil protein 1	protein-coding	67.0	144.0	42.0	876.0	269.0	106.0	76.0	62.5
Merged-chr10-8124297-3	chr10	8124194	8124394	+	793.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168171.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	8.5	24.5	17.0	197.5	4.5	3.5	9.5	3.5
Merged-chr11-63925481-4	chr11	63925379	63925579	+	961.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3195.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	19.0	19.0	7.5	174.0	63.0	15.5	38.0	28.5
Merged-chr14-47299044-4	chr14	47298938	47299138	+	921.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178684, intron 1 of 3)	intron (NM_178684, intron 1 of 3)	764.0	NM_001360542	218975.0	Mm.212297	NM_178684	ENSMUSG00000021840	Mapk1ip1l	9130202B12|C130032J12Rik	mitogen-activated protein kinase 1 interacting protein 1-like	protein-coding	22.5	16.0	11.0	230.5	54.5	8.0	20.0	9.5
Merged-chr10-43751080-4	chr10	43750982	43751182	+	915.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040581, intron 1 of 3)	intron (NR_040581, intron 1 of 3)	4924.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	15.0	24.0	10.5	418.5	52.0	12.0	12.0	19.5
Merged-chr13-54822140-3	chr13	54822044	54822244	+	826.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32739.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	13.0	9.0	9.5	98.0	21.5	2.0	6.0	8.0
Merged-chr10-68275548-4	chr10	68275472	68275672	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	3154.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	30.5	120.0	17.0	238.5	140.5	83.5	37.5	33.0
Merged-chr10-80150473-3	chr10	80150380	80150580	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347117, intron 2 of 7)	CpG-1261	798.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	8.5	3.0	5.5	70.5	25.5	18.5	6.5	17.5
Merged-chr2-45114091-4	chr2	45113974	45114174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355289)	promoter-TSS (NM_001355289)	-795.0	NM_015753	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	28.5	69.5	29.0	228.0	111.0	38.0	47.0	44.5
Merged-chr2-170220582-2	chr2	170220482	170220682	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77907.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	11.0	9.0	1.5	50.0	18.5	8.0	5.0	6.5
Merged-chr2-50670583-4	chr2	50670501	50670701	+	788.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-239083.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	9.0	22.0	6.5	121.0	17.5	2.5	8.5	10.5
Merged-chr7-27651158-4	chr7	27651077	27651277	+	904.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2747.0	NM_028417	73032.0	Mm.44095	NM_028417	ENSMUSG00000007944	Ttc9b	2900074C18Rik	tetratricopeptide repeat domain 9B	protein-coding	15.5	18.5	9.0	191.0	69.5	19.0	12.5	12.0
Merged-chr10-59865241-4	chr10	59865170	59865370	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14321.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	17.5	36.0	14.5	393.0	56.5	18.0	39.0	21.0
Merged-chr15-25355523-4	chr15	25355428	25355628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58236.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	112.5	112.0	96.0	1950.5	305.5	79.0	127.0	109.5
Merged-chr19-46148536-4	chr19	46148435	46148635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008852)	promoter-TSS (NM_008852)	-210.0	NM_008852	18742.0	Mm.6255	NM_008852	ENSMUSG00000025229	Pitx3	Ptx3|ak	paired-like homeodomain transcription factor 3	protein-coding	39.0	70.5	40.0	488.5	63.0	23.0	28.5	21.5
Merged-chr11-120351135-3	chr11	120351027	120351227	+	854.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_038126)	TTS (NR_038126)	2449.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	8.0	7.5	7.5	69.0	7.0	3.5	5.0	13.5
Merged-chr2-36216677-4	chr2	36216584	36216784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-13742.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	56.0	53.5	67.5	889.5	169.5	47.0	77.0	55.5
Merged-chr1-191186002-7	chr1	191185931	191186131	+	973.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2698.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	15.5	19.0	9.5	108.5	22.0	6.0	10.5	21.5
Merged-chr2-152724147-3	chr2	152724049	152724249	+	875.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12102.0	NM_010495	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	15.0	17.5	2.5	141.0	18.0	9.0	20.0	7.5
Merged-chr5-110770202-2	chr5	110770102	110770302	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152254)	promoter-TSS (NR_152254)	515.0	NM_029337	75560.0	Mm.270487	NM_029337	ENSMUSG00000029505	Ep400	1700020J09Rik|AU023439|mDomino|mKIAA1498|p400	E1A binding protein p400	protein-coding	20.0	30.5	24.0	403.5	69.5	21.5	30.0	26.0
Merged-chr17-79355715-4	chr17	79355560	79355760	+	869.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026514)	promoter-TSS (NM_026514)	-569.0	NM_026514	260409.0	Mm.140601	NM_026514	ENSMUSG00000036533	Cdc42ep3	3200001F04Rik|AA986861|Borg2|Cep3|UB1	CDC42 effector protein (Rho GTPase binding) 3	protein-coding	8.5	14.0	9.0	112.0	26.0	5.5	7.5	10.0
Merged-chr19-11513701-4	chr19	11513605	11513805	+	965.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4854.0	NM_027209	69774.0	Mm.436639	NM_027209	ENSMUSG00000024677	Ms4a6b	1810027D10Rik	membrane-spanning 4-domains, subfamily A, member 6B	protein-coding	24.0	33.5	23.0	319.5	72.5	14.5	26.5	20.0
Merged-chr15-58745653-4	chr15	58745547	58745747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77780.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	103.0	122.0	78.5	1355.0	265.5	82.5	109.0	112.5
Merged-chr15-99088472-4	chr15	99088354	99088554	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024702)	promoter-TSS (NM_001024702)	-726.0	NM_001024702	239659.0	Mm.309917	NM_001024702	ENSMUSG00000001076	C1ql4	C1qtnf11|CTRP11	complement component 1, q subcomponent-like 4	protein-coding	41.0	30.5	8.5	328.0	78.5	25.5	31.0	30.5
Merged-chr11-44545388-4	chr11	44545287	44545487	+	988.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 4 of 5)	intron (NM_001166553, intron 4 of 5)	26010.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	31.0	20.5	27.0	507.5	57.0	28.0	38.0	23.0
Merged-chr11-78803941-7	chr11	78803837	78804037	+	991.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22658.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	8.5	15.5	14.5	168.0	13.0	15.5	12.5	19.0
Merged-chr6-38432697-4	chr6	38432681	38432881	+	838.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1144.0	NM_177185	320538.0	Mm.302831	NM_177185	ENSMUSG00000038538	Ubn2	2900060J04Rik|6030408G03Rik|BC060116|D130059P03Rik|mKIAA2030	ubinuclein 2	protein-coding	15.0	13.5	9.5	56.5	24.0	4.5	9.0	14.5
Merged-chr9-116175255-4	chr9	116175177	116175377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009371)	promoter-TSS (NM_009371)	86.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	140.5	270.5	139.0	1987.0	308.5	145.5	169.5	132.5
Merged-chr1-23983284-4	chr1	23983188	23983388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	22352.0	NM_026503	68002.0	Mm.250424	NM_026503	ENSMUSG00000026154	Sdhaf4	1110058L19Rik|1700001E18Rik|C6orf57	succinate dehydrogenase complex assembly factor 4	protein-coding	50.5	107.0	57.0	1069.0	194.0	52.5	73.5	54.5
Merged-chr3-86142707-4	chr3	86142619	86142819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016959)	promoter-TSS (NM_016959)	-51.0	NM_016959	20091.0	Mm.391785	NM_016959	ENSMUSG00000028081	Rps3a1	Rps3a	ribosomal protein S3A1	protein-coding	223.5	353.5	201.0	3189.0	541.5	236.0	262.5	237.0
Merged-chr8-3353548-4	chr8	3353446	3353646	+	964.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033378, exon 1 of 11)	5' UTR (NM_001033378, exon 1 of 11)	131.0	NM_001033378	319493.0	Mm.234565	NM_001033378	ENSMUSG00000074497	A430078G23Rik	-	RIKEN cDNA A430078G23 gene	protein-coding	12.5	18.5	29.5	292.0	34.5	11.5	24.5	17.0
Merged-chr9-47634939-4	chr9	47634861	47635061	+	947.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	104609.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	9.5	21.5	7.0	130.5	98.0	29.0	26.5	22.0
Merged-chr16-4625829-4	chr16	4625747	4625947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025571)	promoter-TSS (NM_025571)	-901.0	NM_025571	66449.0	Mm.354760	NM_025571	ENSMUSG00000014301	Pam16	2010110I09Rik|AV006767|CGI-136|Magmas|Tim16|Timm16	presequence translocase-asssociated motor 16 homolog (S. cerevisiae)	protein-coding	22.0	29.0	5.0	413.0	65.5	17.0	23.5	17.5
Merged-chr2-91485021-5	chr2	91484960	91485160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 16 of 37)	L1_Rod|LINE|L1	27529.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	18.5	30.5	37.0	389.0	108.0	26.5	33.0	38.5
Merged-chr4-11123772-4	chr4	11123681	11123881	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151526)	promoter-TSS (NR_151526)	-177.0	NR_151526	100503518.0	Mm.102270	NR_151526	ENSMUSG00000086765	Gm11827	-	predicted gene 11827	ncRNA	43.0	23.5	49.5	784.0	45.0	14.0	40.5	35.5
Merged-chr18-53177354-4	chr18	53177238	53177438	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357463, intron 1 of 15)	intron (NM_001357463, intron 1 of 15)	1046.0	NM_026386	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	23.5	15.0	11.5	410.0	43.0	23.5	24.5	18.0
Merged-chr10-8744087-2	chr10	8743987	8744187	+	885.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 12 of 19)	MTEb|LTR|ERVL-MaLR	141983.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	8.0	5.0	6.0	24.0	10.5	2.0	1.5	1.5
Merged-chr8-125558831-4	chr8	125558730	125558930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	11033.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	21.0	49.5	30.0	626.0	75.0	25.0	28.5	36.5
Merged-chr9-27000195-4	chr9	27000077	27000277	+	927.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025862)	promoter-TSS (NM_025862)	500.0	NM_001326361	77862.0	Mm.16925	NM_144543	ENSMUSG00000035443	Thyn1	D730042P09Rik|HSPC144|MDS012|MY105|Thy28	thymocyte nuclear protein 1	protein-coding	8.5	20.0	14.0	255.5	32.5	7.0	16.5	24.0
Merged-chr6-33929802-6	chr6	33929720	33929920	+	810.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 17 of 17)	intron (NM_009148, intron 17 of 17)	-99628.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	7.0	22.0	11.5	74.0	13.0	7.0	15.0	7.5
Merged-chr16-73098976-3	chr16	73098886	73099086	+	750.416687	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	435837.0	NM_019413	19876.0	Mm.310772	NM_019413	ENSMUSG00000022883	Robo1	AW494633|AW742721|DUTT1|Gm310	roundabout guidance receptor 1	protein-coding	10.0	17.5	10.5	152.0	20.5	8.5	16.0	11.5
Merged-chr17-12371458-4	chr17	12371337	12371537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7172.0	NM_008877	18815.0	Mm.971	NM_008877	ENSMUSG00000059481	Plg	AI649309|Pg	plasminogen	protein-coding	27.0	104.0	29.5	280.5	89.5	37.0	20.0	15.5
Merged-chr15-81178053-1	chr15	81177953	81178153	+	849.0	f0_balb.idr	intron (NM_001082536, intron 1 of 13)	intron (NM_001082536, intron 1 of 13)	12704.0	NM_001082536	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	5.5	14.0	5.5	151.5	14.0	5.0	6.0	1.0
Merged-chr19-5448771-2	chr19	5448671	5448871	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010235, intron 1 of 3)	CpG	1073.0	NM_010235	14283.0	Mm.6215	NM_010235	ENSMUSG00000024912	Fosl1	AW538199|Fra1|fra-1	fos-like antigen 1	protein-coding	7.5	9.5	6.0	83.0	9.0	5.0	3.5	8.5
Merged-chr14-67072467-4	chr14	67072397	67072597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205188)	promoter-TSS (NM_001205188)	-26.0	NM_001205188	71978.0	Mm.273997	NM_028032	ENSMUSG00000022052	Ppp2r2a	2410004D02Rik|mKIAA1541	protein phosphatase 2, regulatory subunit B, alpha	protein-coding	57.5	104.0	59.0	694.5	193.0	57.0	76.0	79.0
Merged-chr3-153293060-1	chr3	153292960	153293160	+	804.200012	f0_balb.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	5589.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	11.0	15.5	16.0	159.5	19.5	3.0	7.0	3.5
Merged-chr2-166650636-4	chr2	166650529	166650729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	63203.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	33.5	64.5	38.5	928.5	70.5	30.5	45.0	29.0
Merged-chr15-75832257-3	chr15	75832132	75832332	+	953.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172121, intron 3 of 11)	ID_B1|SINE|B4	9676.0	NM_172121	223642.0	Mm.209800	NM_172121	ENSMUSG00000075600	Zc3h3	BC049953|Kiaa0150|Smicl|Zc3hdc3	zinc finger CCCH type containing 3	protein-coding	9.0	7.5	8.5	119.0	14.0	6.0	2.5	5.5
Merged-chr15-31565303-4	chr15	31565202	31565402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3531.0	NM_181588	69574.0	Mm.28108	NM_181588	ENSMUSG00000022235	Cmbl	2310016A09Rik	carboxymethylenebutenolidase-like (Pseudomonas)	protein-coding	56.0	63.5	53.5	1077.5	93.5	41.0	48.0	40.5
Merged-chr16-24348182-4	chr16	24348036	24348236	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45214.0	NM_178665	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	42.0	43.5	77.5	920.0	53.0	14.5	50.5	41.5
Merged-chr11-102138546-4	chr11	102138448	102138648	+	830.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6965.0	NM_145829	217214.0	Mm.31686	NM_145829	ENSMUSG00000048217	Nags	1700120E20Rik|argA	N-acetylglutamate synthase	protein-coding	7.5	16.0	5.0	114.0	25.0	7.0	8.5	10.5
Merged-chr1-57852873-4	chr1	57852754	57852954	+	918.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164566, intron 1 of 11)	intron (NM_001164566, intron 1 of 11)	7283.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	44.5	69.0	17.0	485.5	28.0	8.0	14.0	6.5
Merged-chr18-76241864-4	chr18	76241774	76241974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010754, exon 1 of 11)	5' UTR (NM_010754, exon 1 of 11)	173.0	NM_010754	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	56.5	73.5	73.0	874.5	171.0	46.5	75.0	37.0
Merged-chr12-84408228-4	chr12	84408164	84408364	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028377)	promoter-TSS (NM_028377)	765.0	NM_007647	12499.0	Mm.10211	NM_007647	ENSMUSG00000021236	Entpd5	AI196558|AI987697|Cd39l4|ER-UDPase|NTPDase-5|NTPDase5|Pcph|mNTPase	ectonucleoside triphosphate diphosphohydrolase 5	protein-coding	34.0	33.0	13.0	426.5	45.0	21.0	24.5	21.0
Merged-chr14-59556326-4	chr14	59556233	59556433	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41626.0	NM_001168537	71891.0	Mm.439850	NM_027986	ENSMUSG00000021982	Cdadc1	2310010M10Rik|AI449174|AI463398|BB130816|NYD-SP15	cytidine and dCMP deaminase domain containing 1	protein-coding	21.5	21.0	23.5	484.5	41.5	23.5	26.0	47.0
Merged-chr7-98872148-3	chr7	98872046	98872246	+	933.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33301.0	NM_001285795	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	8.5	22.0	16.5	248.0	9.0	3.5	3.5	7.0
Merged-chr13-105380093-4	chr13	105379967	105380167	+	874.392822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	-63626.0	NM_008308	15550.0	Mm.4716	NM_008308	ENSMUSG00000021721	Htr1a	Gpcr18	5-hydroxytryptamine (serotonin) receptor 1A	protein-coding	6.5	18.5	6.5	53.5	12.0	8.5	9.5	5.5
Merged-chr2-73039466-4	chr2	73039342	73039542	+	991.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58996.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	22.5	26.5	61.5	453.0	86.0	14.0	26.0	27.5
Merged-chr15-81081501-4	chr15	81081366	81081566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	23581.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	38.5	65.0	58.0	684.0	143.0	25.0	56.5	49.0
Merged-chr11-54888238-1	chr11	54888138	54888338	+	673.333313	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-14616.0	NM_001329860	14778.0	Mm.200916	NM_008161	ENSMUSG00000018339	Gpx3	AA960521|EGPx|GPx|GSHPx-3|GSHPx-P	glutathione peroxidase 3	protein-coding	8.0	18.0	15.0	32.5	1.0	3.0	2.5	3.0
Merged-chr4-126890063-4	chr4	126889968	126890168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357201, exon 20 of 28)	exon (NM_001357201, exon 20 of 28)	77855.0	NM_001357201	67785.0	Mm.165401	NM_001114399	ENSMUSG00000042446	Zmym4	6330503C17Rik|AI480785|AW493829|CDIR|D630001M21|MYM|Zfp262|Znf262|mKIAA0425	zinc finger, MYM-type 4	protein-coding	26.0	30.5	48.0	937.5	75.0	40.0	63.0	45.5
Merged-chr9-58552847-4	chr9	58552765	58552965	+	886.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11925.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	16.0	39.5	9.0	118.0	26.0	14.0	12.5	4.5
Merged-chr11-114908239-4	chr11	114908149	114908349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	18208.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	60.5	51.0	79.0	669.5	146.0	32.0	58.0	65.0
Merged-chr5-122778998-4	chr5	122778920	122779120	+	947.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199676, intron 1 of 16)	CpG	390.0	NM_001199676	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	19.0	20.5	13.5	170.0	26.5	11.0	14.0	19.5
Merged-chr10-13199413-3	chr10	13199264	13199464	+	851.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-6227.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	12.5	16.0	5.0	158.0	11.0	1.0	2.0	4.0
Merged-chr1-74702481-3	chr1	74702359	74702559	+	905.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-11076.0	NM_024264	104086.0	Mm.85083	NM_024264	ENSMUSG00000026170	Cyp27a1	1300013A03Rik|Cyp27	cytochrome P450, family 27, subfamily a, polypeptide 1	protein-coding	8.5	7.0	8.5	180.5	18.5	2.0	5.5	10.5
Merged-chr6-71950829-4	chr6	71950728	71950928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009088, exon 18 of 34)	exon (NM_009088, exon 18 of 34)	41775.0	NM_009088	20019.0	Mm.135581	NM_009088	ENSMUSG00000049553	Polr1a	194kDa|2900087K15Rik|3010014K16Rik|RPA194|Rpo1-4|mRPA1	polymerase (RNA) I polypeptide A	protein-coding	43.5	33.0	58.5	766.5	112.5	41.5	32.5	54.0
Merged-chr12-52398087-4	chr12	52397984	52398184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82525.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	46.0	42.0	98.5	899.0	107.0	27.5	56.0	26.5
Merged-chr9-21155010-4	chr9	21154901	21155101	+	824.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-5095.0	NM_016742	12539.0	Mm.32331	NM_016742	ENSMUSG00000019471	Cdc37	p50|p50Cdc37	cell division cycle 37	protein-coding	8.5	11.5	7.0	172.0	39.0	11.5	2.0	10.0
Merged-chr19-6241530-4	chr19	6241390	6241590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194348)	promoter-TSS (NM_194348)	-178.0	NM_194348	329015.0	Mm.277384	NM_194348	ENSMUSG00000024773	Atg2a	1810013C15Rik|A830054M12|BC023754|mKIAA0404	autophagy related 2A	protein-coding	243.0	387.5	220.0	2895.5	525.5	195.5	162.0	184.5
Merged-chr6-125444066-2	chr6	125443990	125444190	+	653.333374	f0_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	50670.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	8.5	22.5	13.5	70.5	8.0	1.0	2.0	0.0
Merged-chr11-80302814-4	chr11	80302712	80302912	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139228, intron 2 of 8)	intron (NM_139228, intron 2 of 8)	1900.0	NM_139228	246104.0	Mm.194148	NM_139228	ENSMUSG00000017692	Rhbdl3	AI847581|Rhbdl4|Rhomr1|Vrho	rhomboid like 3	protein-coding	16.5	26.0	3.5	133.5	33.5	7.5	11.0	6.5
Merged-chr11-61854409-7	chr11	61854313	61854513	+	972.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013881, intron 1 of 26)	CpG	679.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	15.5	23.5	24.0	255.0	49.0	15.5	12.5	28.0
Merged-chr19-40589445-4	chr19	40589332	40589532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019698)	promoter-TSS (NM_019698)	-969.0	NM_153554	56454.0	Mm.233117	NM_019698	ENSMUSG00000025007	Aldh18a1	2810433K04Rik|AI429789|Pycs	aldehyde dehydrogenase 18 family, member A1	protein-coding	38.5	63.0	34.5	626.0	151.5	60.0	57.5	29.0
Merged-chr5-129021038-6	chr5	129020998	129021198	+	893.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009391, intron 4 of 6)	intron (NM_009391, intron 4 of 6)	942.0	NM_009391	19384.0	Mm.297440	NM_009391	ENSMUSG00000029430	Ran	-	RAN, member RAS oncogene family	protein-coding	6.5	5.5	8.5	65.5	19.0	10.0	8.0	9.5
Merged-chr10-41896588-4	chr10	41896487	41896687	+	895.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013370, intron 4 of 9)	L1MC2|LINE|L1	9148.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	14.5	11.0	4.5	236.5	36.0	13.0	2.5	9.5
Merged-chr4-136160313-4	chr4	136160228	136160428	+	880.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11946.0	NM_177733	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	4.5	15.5	5.5	100.0	38.5	9.0	15.0	19.5
Merged-chr16-30009800-3	chr16	30009704	30009904	+	965.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033631, intron 1 of 2)	intron (NR_033631, intron 1 of 2)	1137.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	3.0	10.5	13.0	210.0	10.5	4.5	4.5	9.0
Merged-chr1-181840184-4	chr1	181840079	181840279	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133815, intron 1 of 13)	intron (NM_133815, intron 1 of 13)	2222.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	41.0	43.5	36.5	673.5	57.0	13.0	29.0	46.0
Merged-chr10-78156901-4	chr10	78156792	78156992	+	925.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	12876.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	11.0	20.5	10.5	262.5	30.0	3.5	15.5	12.5
Merged-chr5-108066192-3	chr5	108066157	108066357	+	942.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253880, intron 1 of 12)	intron (NM_001253880, intron 1 of 12)	583.0	NR_152817	17765.0	Mm.257149	NM_013827	ENSMUSG00000029267	Mtf2	9230112N11Rik|AA537621|C76717|M96|Pcl2	metal response element binding transcription factor 2	protein-coding	7.0	10.0	4.5	150.5	12.5	0.0	5.5	10.0
Merged-chr17-10335201-5	chr17	10335083	10335283	+	971.338074	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10581.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	14.5	53.5	17.0	191.0	36.5	10.0	5.5	6.0
Merged-chr13-42574354-4	chr13	42574257	42574457	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106442.0	NM_001302635	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	31.5	44.5	13.0	402.5	72.5	23.0	51.5	47.5
Merged-chr7-26264052-3	chr7	26263956	26264156	+	690.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2775.0	NM_001167540	100312477.0	Mm.480246	NM_001167540	ENSMUSG00000046130	Vmn1r184	-	vomeronasal 1 receptor, 184	protein-coding	6.0	5.0	13.0	107.0	2.0	2.5	0.5	3.0
Merged-chr5-139285540-4	chr5	139285426	139285626	+	956.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	32029.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	23.5	27.0	13.5	261.0	34.5	17.5	12.0	21.0
Merged-chr8-104403778-3	chr8	104403677	104403877	+	700.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7970.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	6.5	8.5	3.0	113.5	31.0	9.0	8.0	4.5
Merged-chr9-44396897-4	chr9	44396800	44397000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293630)	promoter-TSS (NM_001293630)	-27.0	NM_001293631	14385.0	Mm.30087	NM_008063	ENSMUSG00000032114	Slc37a4	100043178|G6PT|G6pt1|GSD-1b|mG6PT	solute carrier family 37 (glucose-6-phosphate transporter), member 4	protein-coding	320.5	489.5	257.0	3834.5	704.5	314.5	344.5	206.5
Merged-chr19-53403951-4	chr19	53403890	53404090	+	923.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-13356.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	16.0	24.5	33.5	285.5	29.5	20.0	7.5	6.5
Merged-chr9-40631343-4	chr9	40631232	40631432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-54632.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	42.5	44.0	26.0	687.5	59.0	28.0	42.0	44.0
Merged-chr9-70208279-3	chr9	70208190	70208390	+	779.1777950000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	940.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	7.5	11.5	10.0	111.0	18.0	2.0	3.5	11.5
Merged-chr12-8359616-3	chr12	8359461	8359661	+	954.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	46128.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	1.0	3.5	0.0	22.0	39.0	12.5	8.5	9.5
Merged-chr9-57440757-3	chr9	57440636	57440836	+	897.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357914)	promoter-TSS (NM_001357914)	-622.0	NM_001357916	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	11.0	4.5	5.5	116.5	8.5	6.0	4.5	7.5
Merged-chr1-105746697-4	chr1	105746577	105746777	+	948.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173187, intron 26 of 28)	intron (NM_173187, intron 26 of 28)	-34046.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	21.0	19.5	25.0	342.0	53.0	14.5	13.5	22.0
Merged-chr9-103092405-4	chr9	103092313	103092513	+	950.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19661.0	NM_173781	270192.0	Mm.490252	NM_173781	ENSMUSG00000032549	Rab6b	9630015C03|AI844641|C330006L04Rik|D9Bwg0185e	RAB6B, member RAS oncogene family	protein-coding	19.0	21.0	14.0	95.0	57.5	19.0	25.5	31.5
Merged-chr8-83106192-2	chr8	83106098	83106298	+	792.333374	f0_balb.idr|f1_balb.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-59154.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	10.0	12.0	16.5	89.0	26.0	1.5	0.0	4.5
Merged-chr16-49797076-1	chr16	49796976	49797176	+	618.0	f0_c57.idr	Intergenic	ERV3-16A3_LTR|LTR|ERVL	-58578.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	9.0	10.0	6.0	47.0	17.5	3.0	7.0	0.5
Merged-chr8-83741281-4	chr8	83741173	83741373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163031)	promoter-TSS (NM_001163031)	38.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	300.0	419.0	257.0	2911.5	468.0	207.0	297.0	203.5
Merged-chr13-59975423-3	chr13	59975283	59975483	+	910.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54328.0	NR_046142	328263.0	Mm.123405	NR_046142	ENSMUSG00000114531	A530065N20Rik	A530065N20	RIKEN cDNA A530046M15 gene	ncRNA	10.0	14.5	5.0	103.5	6.0	2.0	3.0	2.5
Merged-chr1-36571776-4	chr1	36571668	36571868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-13387.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	194.0	256.5	261.5	4159.0	490.5	135.0	288.0	163.5
Merged-chr8-84012594-4	chr8	84012497	84012697	+	858.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291292)	promoter-TSS (NM_001291292)	-877.0	NM_001291292	70134.0	Mm.41017	NM_001291292	ENSMUSG00000074217	2210011C24Rik	-	RIKEN cDNA 2210011C24 gene	protein-coding	9.0	17.5	8.5	209.5	29.0	10.0	9.5	14.0
Merged-chr10-96188969-2	chr10	96188869	96189069	+	910.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37238.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	6.0	13.0	6.0	75.0	22.5	8.5	4.0	1.5
Merged-chr6-134263583-3	chr6	134263534	134263734	+	807.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 8 of 8)	intron (NM_001303102, intron 8 of 8)	-132695.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	6.5	24.0	7.0	114.0	34.0	6.5	5.5	4.5
Merged-chr5-38509014-4	chr5	38508921	38509121	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-6869.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	20.5	18.5	25.5	180.5	64.5	21.0	17.5	14.0
Merged-chr18-69576517-4	chr18	69576412	69576612	+	975.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	230352.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	21.5	23.5	17.5	293.5	31.5	14.5	11.0	15.0
Merged-chr10-111446456-4	chr10	111446358	111446558	+	967.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26769.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	10.5	14.5	24.5	401.5	46.5	5.5	17.0	36.0
Merged-chr10-68844844-4	chr10	68844758	68844958	+	936.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121112.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	11.0	14.0	30.0	219.5	37.5	24.5	30.5	52.5
Merged-chr7-45062555-7	chr7	45062419	45062619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022999)	promoter-TSS (NM_022999)	90.0	NM_025533	66394.0	Mm.272139	NM_025533	ENSMUSG00000003421	Nosip	2310061K06Rik|CGI-25	nitric oxide synthase interacting protein	protein-coding	35.0	55.5	24.0	278.5	73.0	23.0	18.0	34.5
Merged-chr8-70572677-2	chr8	70572578	70572778	+	645.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	-21803.0	NM_023627	71780.0	Mm.29357	NM_023627	ENSMUSG00000019139	Isyna1	1300017C10Rik|AU018670	myo-inositol 1-phosphate synthase A1	protein-coding	5.0	7.0	6.0	170.0	9.5	2.5	3.0	4.0
Merged-chr4-46553952-4	chr4	46553862	46554062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 2 of 11)	intron (NM_001164804, intron 2 of 11)	12478.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	33.0	31.0	41.5	553.5	76.0	27.0	39.5	46.0
Merged-chr11-75679941-4	chr11	75679836	75680036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277221, intron 1 of 1)	intron (NM_001277221, intron 1 of 1)	677.0	NM_001277221	12928.0	Mm.280125	NM_133656	ENSMUSG00000017776	Crk	Crk-I|Crk-II|Crk-III|Crk3|CrkIII|Crko|c-Crk|p38	v-crk avian sarcoma virus CT10 oncogene homolog	protein-coding	29.5	61.0	47.5	562.0	96.0	36.0	46.0	55.5
Merged-chr9-121718387-4	chr9	121718300	121718500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010918)	promoter-TSS (NM_010918)	-781.0	NM_010918	18087.0	Mm.32842	NM_010918	ENSMUSG00000032525	Nktr	5330401F18Rik|D9Wsu172e	natural killer tumor recognition sequence	protein-coding	47.5	47.0	26.5	581.0	157.5	43.5	42.5	36.5
Merged-chr16-36675528-4	chr16	36675417	36675617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9440.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	20.0	38.5	13.5	546.0	82.0	29.5	35.5	37.0
Merged-chr13-48516116-4	chr13	48516014	48516214	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2678.0	NM_001164576	67911.0	Mm.251375	NM_026450	ENSMUSG00000050954	Zfp169	1700025J14Rik|4930429A13Rik|BE688704	zinc finger protein 169	protein-coding	13.0	18.0	14.5	323.5	44.5	10.5	6.0	10.5
Merged-chr9-119328755-2	chr9	119328655	119328855	+	561.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6328.0	NM_133985	108737.0	Mm.293565	NM_133985	ENSMUSG00000036737	Oxsr1	2210022N24Rik|2810422B09Rik|AI462649|AW209236|Osr1|mKIAA1101	oxidative-stress responsive 1	protein-coding	4.0	3.0	4.5	75.5	13.0	6.5	7.5	9.0
Merged-chr7-19797386-4	chr7	19797297	19797497	+	868.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023224)	promoter-TSS (NM_023224)	-588.0	NM_023224	80794.0	Mm.81698	NM_023224	ENSMUSG00000040525	Cblc	2310076I21Rik|2310079L19Rik|Cbl3	Casitas B-lineage lymphoma c	protein-coding	19.5	17.0	4.0	169.5	56.5	13.5	16.0	19.5
Merged-chr11-119087498-4	chr11	119087406	119087606	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1269.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	9.0	8.0	11.0	65.0	20.0	5.5	6.5	14.0
Merged-chr9-69989908-4	chr9	69989800	69990000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008238, intron 1 of 9)	CpG	434.0	NM_001008238	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	88.0	134.0	85.0	1206.0	171.5	74.5	101.5	77.0
Merged-chr2-17741685-4	chr2	17741596	17741796	+	912.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10628.0	NM_028757	74103.0	Mm.120298	NM_028757	ENSMUSG00000053702	Nebl	1200007O21Rik|A630080F05Rik|BB140644|D830029A09Rik|Lnebl	nebulette	protein-coding	15.0	34.0	14.0	113.0	41.0	15.0	18.0	12.0
Merged-chr15-79514130-3	chr15	79514028	79514228	+	762.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2280.0	NM_134090	105785.0	Mm.298199	NM_134090	ENSMUSG00000010830	Kdelr3	AI173274	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	protein-coding	9.5	19.0	8.0	89.5	25.5	1.0	6.5	6.0
Merged-chr3-88490845-4	chr3	88490779	88490979	+	796.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002011, intron 1 of 11)	intron (NM_001002011, intron 1 of 11)	2433.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	12.5	11.5	10.0	132.0	39.0	10.5	4.0	6.5
Merged-chr5-23440003-1	chr5	23439903	23440103	+	580.0	f0_balb.idr	intron (NM_026984, intron 1 of 25)	intron (NM_026984, intron 1 of 25)	5574.0	NM_026984	69188.0	Mm.205190	NM_026984	ENSMUSG00000029004	Kmt2e	1810033J14Rik|9530077A04Rik|D230038D11Rik|Mll5|NKp44L	lysine (K)-specific methyltransferase 2E	protein-coding	8.0	10.0	1.5	76.5	8.0	10.0	8.0	6.0
Merged-chr2-109959324-4	chr2	109959246	109959446	+	913.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172671, intron 1 of 17)	intron (NM_172671, intron 1 of 17)	41699.0	NM_172671	107515.0	Mm.277351	NM_172671	ENSMUSG00000050199	Lgr4	9130225G07|A330106J01Rik|A930009A08Rik|Gpr48	leucine-rich repeat-containing G protein-coupled receptor 4	protein-coding	18.5	12.0	13.0	211.5	52.0	13.5	22.5	12.5
Merged-chr17-43550207-4	chr17	43550096	43550296	+	779.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-6557.0	NM_001254953	100043332.0	Mm.17626	NM_001254953	ENSMUSG00000096140	Ankrd66	AU041848|D730048J04Rik|Gm4368	ankyrin repeat domain 66	protein-coding	15.0	22.0	12.5	146.5	19.0	6.0	12.0	13.5
Merged-chr12-101082930-4	chr12	101082820	101083020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_038047, exon 1 of 4)	non-coding (NR_038047, exon 1 of 4)	469.0	NR_038049	319760.0	Mm.440198	NM_176997	ENSMUSG00000097121	D130020L05Rik	9430007L23Rik	RIKEN cDNA D130020L05 gene	ncRNA	19.5	55.5	39.0	289.0	83.5	10.5	21.5	37.0
Merged-chr12-72086584-2	chr12	72086484	72086684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001205067, intron 1 of 6)	B1_Mus2|SINE|Alu	745.0	NM_024205	104771.0	Mm.258935	NM_024205	ENSMUSG00000005078	Jkamp	1200003C05Rik|2310047L11Rik|Jamp	JNK1/MAPK8-associated membrane protein	protein-coding	8.0	5.5	11.0	154.5	17.0	13.0	4.5	6.0
Merged-chr1-189701224-3	chr1	189701124	189701324	+	792.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13138.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	5.5	5.0	6.0	84.0	25.0	17.0	10.5	11.5
Merged-chr3-41582539-4	chr3	41582445	41582645	+	902.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130184, intron 2 of 10)	intron (NM_001130184, intron 2 of 10)	17665.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	17.0	30.0	11.5	332.0	43.0	10.0	11.0	14.5
Merged-chr2-3668905-4	chr2	3668797	3668997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44561.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	111.0	140.0	113.5	1919.0	256.0	83.5	126.0	96.5
Merged-chr17-57290977-4	chr17	57290875	57291075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	intron (NM_001163816, intron 1 of 25)	11875.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	66.5	151.0	75.0	787.5	225.0	81.5	50.5	58.0
Merged-chr18-34863522-16	chr18	34863401	34863601	+	971.6145630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007913, exon 2 of 2)	exon (NM_007913, exon 2 of 2)	2294.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	30.0	118.5	7.0	94.0	146.5	92.5	13.5	15.0
Merged-chr3-76001377-3	chr3	76001271	76001471	+	962.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-44422.0	NM_001291069	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	12.5	6.5	13.5	203.5	17.0	3.5	8.0	13.0
Merged-chr10-111004331-4	chr10	111004228	111004428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359624, intron 1 of 16)	MTE2a|LTR|ERVL-MaLR	5681.0	NM_001359622	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	19.5	40.5	32.5	575.0	75.0	24.5	29.5	21.5
Merged-chr3-9947885-4	chr3	9947783	9947983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64702.0	NM_001272097	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	35.0	40.0	23.0	517.5	85.5	25.0	34.5	27.5
Merged-chr11-97357792-3	chr11	97357689	97357889	+	964.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4762.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	4.5	5.0	0.5	62.5	55.0	20.5	12.5	6.0
Merged-chr6-17694446-8	chr6	17694241	17694441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289626, exon 1 of 15)	exon (NM_001289626, exon 1 of 15)	347.0	NM_001289625	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	32.5	42.0	41.5	475.5	109.0	43.0	41.5	38.0
Merged-chr15-24621649-4	chr15	24621553	24621753	+	820.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	792111.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	8.0	8.0	12.0	251.5	27.5	5.0	12.0	19.0
Merged-chr2-102360749-3	chr2	102360650	102360850	+	868.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020267, intron 2 of 4)	intron (NM_020267, intron 2 of 4)	40150.0	NM_020267	80985.0	Mm.315002	NM_020267	ENSMUSG00000027189	Trim44	Dipb|Mc7	tripartite motif-containing 44	protein-coding	6.0	10.5	14.5	235.5	8.0	2.5	8.0	15.5
Merged-chr19-4865335-3	chr19	4865221	4865421	+	799.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013456, exon 12 of 21)	exon (NM_013456, exon 12 of 21)	10192.0	NM_019861	56464.0	Mm.29561	NM_019861	ENSMUSG00000083282	Ctsf	AI481912	cathepsin F	protein-coding	12.0	11.5	6.0	140.5	19.0	2.5	3.5	5.0
Merged-chr18-12168024-4	chr18	12167913	12168113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029623)	promoter-TSS (NM_029623)	-717.0	NM_029623	76482.0	Mm.196596	NM_029623	ENSMUSG00000024410	3110002H16Rik	2400010D15Rik|Mic-1|Mic1|Rmc1|Wdr98	RIKEN cDNA 3110002H16 gene	protein-coding	22.0	36.0	14.5	313.0	65.0	39.0	30.5	29.0
Merged-chr4-115835717-4	chr4	115835601	115835801	+	960.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175308, exon 4 of 4)	3' UTR (NM_175308, exon 4 of 4)	-3497.0	NM_001285488	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	8.5	17.0	11.5	234.0	35.0	4.0	16.0	17.0
Merged-chr2-136948137-4	chr2	136948022	136948222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149746, intron 4 of 8)	intron (NR_149746, intron 4 of 8)	48771.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	59.0	68.5	86.5	1247.0	100.0	61.5	65.0	39.5
Merged-chr17-28226224-4	chr17	28226136	28226336	+	946.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027185, exon 9 of 11)	exon (NM_027185, exon 9 of 11)	-6518.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	21.5	19.5	12.0	167.5	45.5	12.5	19.5	28.0
Merged-chr11-115612356-2	chr11	115612256	115612456	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001243586, exon 1 of 5)	5' UTR (NM_001243586, exon 1 of 5)	147.0	NM_027162	69674.0	Mm.390387	NM_027162	ENSMUSG00000020743	Mif4gd	1110014L05Rik|2310075G12Rik	MIF4G domain containing	protein-coding	5.5	6.5	5.0	21.5	17.0	5.0	3.5	6.0
Merged-chr2-160208477-4	chr2	160208383	160208583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119011.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	36.0	28.5	43.5	519.5	71.0	40.5	23.5	57.5
Merged-chr13-47265345-4	chr13	47265259	47265459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71356.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	28.5	39.5	32.0	560.0	68.0	18.5	33.5	30.0
Merged-chr10-68239241-1	chr10	68239141	68239341	+	1000.0	f0_balb.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	39485.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	31.0	40.5	24.5	273.0	83.5	11.0	16.0	15.5
Merged-chr2-60855211-4	chr2	60855144	60855344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	26194.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	137.5	209.0	121.0	1907.0	320.5	126.0	189.5	130.0
Merged-chr12-70753111-3	chr12	70752990	70753190	+	881.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72424.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	6.0	5.0	10.0	181.5	5.5	1.5	1.0	4.5
Merged-chr2-160361319-2	chr2	160361219	160361419	+	927.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5746.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	14.5	28.5	16.0	211.5	22.5	12.0	6.5	15.0
Merged-chr19-45076841-3	chr19	45076718	45076918	+	965.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001362398, exon 3 of 6)	exon (NM_001362398, exon 3 of 6)	731.0	NM_001362397	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	3.0	8.0	3.0	82.5	14.5	5.0	12.5	11.0
Merged-chr13-105291995-4	chr13	105291886	105292086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 1 of 7)	MMVL30-int|LTR|ERV1	1028.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	42.0	36.0	55.0	907.0	105.5	33.0	28.5	40.5
Merged-chr10-84935766-4	chr10	84935685	84935885	+	960.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013441, intron 2 of 8)	intron (NM_001013441, intron 2 of 8)	18172.0	NM_183172	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	16.5	30.0	13.0	362.5	45.0	11.5	30.5	16.5
Merged-chr9-58253155-4	chr9	58253053	58253253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026942)	promoter-TSS (NM_026942)	-11.0	NR_028146	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	96.5	168.5	87.5	1281.0	297.5	110.0	153.5	84.0
Merged-chr11-8628922-4	chr11	8628824	8629024	+	926.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	intron (NM_001083587, intron 1 of 30)	35611.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	12.0	12.0	11.5	258.0	45.0	7.5	16.0	15.0
Merged-chr2-129592716-4	chr2	129592619	129592819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291021)	promoter-TSS (NM_001291021)	-120.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	173.5	223.5	190.5	2420.5	475.5	185.0	228.5	186.5
Merged-chr5-139736413-4	chr5	139736314	139736514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174850)	promoter-TSS (NM_174850)	-81.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	151.5	257.5	82.5	1866.5	319.5	135.5	158.5	99.5
Merged-chr17-81665123-4	chr17	81665015	81665215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	73272.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	44.0	106.0	48.5	786.5	121.0	45.0	53.0	32.5
Merged-chr11-20899129-4	chr11	20899029	20899229	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68021.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	21.0	32.0	26.0	331.0	42.5	15.5	23.0	23.0
Merged-chr6-137405910-4	chr6	137405813	137406013	+	975.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 12 of 26)	intron (NM_011216, intron 12 of 26)	-4808.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	22.5	22.0	28.0	394.0	64.0	14.5	22.5	19.0
Merged-chr19-37448438-4	chr19	37448327	37448527	+	894.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13586.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	20.0	22.5	15.5	241.0	25.0	13.5	8.5	23.0
Merged-chr10-54060023-4	chr10	54059911	54060111	+	978.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	intron (NM_008548, intron 2 of 12)	15785.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	20.5	25.0	23.0	461.0	57.5	13.5	19.5	16.0
Merged-chr9-44094246-4	chr9	44094148	44094348	+	741.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016808, exon 13 of 13)	3' UTR (NM_016808, exon 13 of 13)	-7522.0	NM_001190314	259172.0	Mm.227110	NM_147126	ENSMUSG00000034739	Mfrp	rd6	membrane frizzled-related protein	protein-coding	5.5	11.5	6.5	119.0	12.5	9.0	5.0	16.0
Merged-chr5-140649148-4	chr5	140649045	140649245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175274)	promoter-TSS (NM_175274)	-114.0	NM_175274	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	147.5	222.0	96.5	1538.5	375.0	127.0	177.0	121.0
Merged-chr7-4647500-4	chr7	4647429	4647629	+	885.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172894, intron 1 of 23)	intron (NM_172894, intron 1 of 23)	11421.0	NM_172894	243819.0	Mm.258670	NM_172894	ENSMUSG00000052296	Ppp6r1	2010309P17Rik|AI836219|B430201G11Rik|D030074N20Rik|Pp6r1|Saps1|mKIAA1115	protein phosphatase 6, regulatory subunit 1	protein-coding	8.5	8.0	7.5	162.0	37.0	11.5	11.0	10.5
Merged-chr4-133879370-3	chr4	133879244	133879444	+	757.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009097, intron 2 of 21)	intron (NM_009097, intron 2 of 21)	-4613.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	12.0	16.0	11.5	84.0	14.5	8.5	11.0	6.5
Merged-chr7-43642492-1	chr7	43642392	43642592	+	1000.0	f0_c57.idr	intron (NM_028236, intron 4 of 5)	B1_Mus1|SINE|Alu	7753.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	18.0	47.5	24.5	143.5	62.0	36.5	35.5	39.0
Merged-chr2-78580232-4	chr2	78580122	78580322	+	969.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-288825.0	NM_009454	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	31.0	72.0	37.5	1037.5	27.0	19.0	27.5	23.0
Merged-chr2-132151803-4	chr2	132151695	132151895	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-6475.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	20.0	54.5	24.5	58.5	34.0	25.5	14.5	8.0
Merged-chr17-67345979-3	chr17	67345879	67346079	+	876.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	B4|SINE|B4	8480.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	10.0	20.0	9.5	75.5	31.0	7.0	4.5	12.5
Merged-chr11-58917098-3	chr11	58916998	58917198	+	833.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138678)	promoter-TSS (NM_138678)	-959.0	NM_138678	192194.0	Mm.22540	NM_138678	ENSMUSG00000020490	Btnl10	BUTR-1|Butr1	butyrophilin-like 10	protein-coding	7.0	13.0	9.0	52.5	29.5	12.5	11.0	7.5
Merged-chr14-31781690-4	chr14	31781518	31781718	+	649.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024604, intron 1 of 27)	intron (NM_001024604, intron 1 of 27)	48797.0	NM_001024604	105522.0	Mm.37660	NM_001024604	ENSMUSG00000014496	Ankrd28	AI465466|AI604979|E430019N21Rik|mKIAA0379	ankyrin repeat domain 28	protein-coding	14.0	7.0	10.5	78.0	6.5	1.0	14.5	7.5
Merged-chr13-60658280-4	chr13	60658242	60658442	+	768.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	L1_Mus1|LINE|L1	56131.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	10.5	9.5	9.5	49.0	24.5	4.5	14.5	7.0
Merged-chr4-62662649-2	chr4	62662549	62662749	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-11325.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	7.5	16.5	14.5	133.0	24.5	7.0	11.0	16.5
Merged-chr14-55677701-4	chr14	55677585	55677785	+	983.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177992, intron 8 of 9)	intron (NM_177992, intron 8 of 9)	4132.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	36.0	33.0	27.5	467.5	56.0	15.0	38.0	28.0
Merged-chr4-122849517-4	chr4	122849458	122849658	+	787.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 5 of 8)	intron (NM_008917, intron 5 of 8)	13331.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	8.5	10.5	8.0	119.0	34.0	3.5	8.5	10.5
Merged-chr6-65528083-4	chr6	65527983	65528183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-62315.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	85.5	47.0	73.0	1223.0	193.0	50.5	84.0	49.5
Merged-chr7-19498498-3	chr7	19498407	19498607	+	802.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9824.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	11.5	18.5	11.5	145.5	11.0	3.5	7.0	18.0
Merged-chr12-69198077-8	chr12	69197977	69198177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033222, exon 2 of 2)	non-coding (NR_033222, exon 2 of 2)	352.0	NM_027269	109065.0	Mm.107180	NM_027269	ENSMUSG00000020973	Dnaaf2	Ktu|TU54|kintoun|mknt	dynein, axonemal assembly factor 2	protein-coding	19.5	15.0	33.0	410.0	61.5	18.0	26.5	33.5
Merged-chr1-85841058-5	chr1	85840959	85841159	+	833.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355046, intron 5 of 9)	ID4|SINE|ID	47042.0	NM_001355047	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	9.5	10.5	9.0	196.0	17.5	12.5	10.5	14.0
Merged-chr2-145804778-4	chr2	145804680	145804880	+	864.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	L1MB3|LINE|L1	18664.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	12.0	15.5	12.0	345.0	21.0	11.0	13.0	12.5
Merged-chr15-101268078-2	chr15	101267978	101268178	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010444, intron 1 of 6)	intron (NM_010444, intron 1 of 6)	1232.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	16.0	65.0	14.5	69.0	144.0	89.5	13.0	15.5
Merged-chr3-106553583-4	chr3	106553485	106553685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286986, intron 2 of 8)	intron (NM_001286986, intron 2 of 8)	-5783.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	85.0	95.5	73.0	1428.0	167.0	61.0	73.5	62.0
Merged-chr15-77626655-4	chr15	77626564	77626764	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16622.0	NM_001143686	328563.0	Mm.17957	NM_001143686	ENSMUSG00000091694	Apol11b	A330102K04Rik	apolipoprotein L 11b	protein-coding	21.0	67.0	6.0	263.0	72.0	15.5	14.5	21.5
Merged-chr19-31756272-3	chr19	31756198	31756398	+	697.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013833, intron 1 of 17)	intron (NM_001013833, intron 1 of 17)	8735.0	NM_001013833	19091.0	Mm.381170	NM_011160	ENSMUSG00000052920	Prkg1	AW125416|CGKI|Gm19690|Prkg1b|Prkgr1b	protein kinase, cGMP-dependent, type I	protein-coding	12.5	7.5	5.0	83.0	12.0	3.0	3.5	8.5
Merged-chr3-38519602-3	chr3	38519499	38519699	+	671.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-34783.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	11.0	6.5	12.0	110.5	27.5	1.0	7.5	6.0
Merged-chr4-137857339-3	chr4	137857267	137857467	+	959.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4870.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	24.0	24.5	11.0	253.0	9.5	5.0	18.0	8.0
Merged-chr4-137724327-4	chr4	137724203	137724403	+	973.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_138592)	promoter-TSS (NR_138592)	-158.0	NR_138592	110351.0	Mm.180763	NM_029563	ENSMUSG00000041351	Rap1gap	1300019I11Rik|2310004O14Rik|AI427470|ARPP-90|Gap|Rap1GAP1|Rap1ga1	Rap1 GTPase-activating protein	protein-coding	39.5	18.0	15.0	314.5	62.5	12.5	10.0	25.5
Merged-chr17-35200630-4	chr17	35200521	35200721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278601, intron 2 of 2)	intron (NM_001278601, intron 2 of 2)	1386.0	NM_013693	21926.0	Mm.1293	NM_013693	ENSMUSG00000024401	Tnf	DIF|TNF-a|TNF-alpha|TNFSF2|TNFalpha|Tnfa|Tnfsf1a|Tnlg1f	tumor necrosis factor	protein-coding	78.5	135.5	55.0	963.5	225.0	85.5	62.5	64.0
Merged-chr9-122294544-4	chr9	122294439	122294639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133979)	promoter-TSS (NM_133979)	-116.0	NM_133979	102566.0	Mm.87676	NM_133979	ENSMUSG00000037949	Ano10	AI604832|Tmem16k	anoctamin 10	protein-coding	290.0	437.0	289.5	3630.5	803.0	327.0	396.0	277.0
Merged-chr4-128981313-4	chr4	128981198	128981398	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11926.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	37.5	42.5	22.5	218.0	60.0	12.0	5.5	18.0
Merged-chr13-43772039-4	chr13	43771959	43772159	+	914.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13053.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	8.5	11.0	17.0	203.0	13.5	7.5	15.5	13.0
Merged-chr2-35729704-4	chr2	35729616	35729816	+	992.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001114125, exon 17 of 17)	3' UTR (NM_001114125, exon 17 of 17)	32984.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	15.0	19.5	21.5	381.0	37.0	7.5	25.5	17.0
Merged-chr15-99122634-7	chr15	99122550	99122750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	-4195.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	26.5	50.0	30.5	123.5	70.5	29.5	24.5	28.5
Merged-chr11-54957151-4	chr11	54957052	54957252	+	881.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199275, intron 1 of 18)	intron (NM_001199275, intron 1 of 18)	5788.0	NM_021327	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	20.5	13.5	13.0	220.0	42.5	11.0	11.5	4.0
Merged-chr4-133816383-3	chr4	133816314	133816514	+	872.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58317.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	11.0	9.5	5.5	133.5	8.5	9.5	3.0	12.0
Merged-chr14-26643429-4	chr14	26643322	26643522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	intron (NM_007479, intron 1 of 5)	5288.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	50.0	86.0	33.5	822.0	135.5	53.5	64.5	48.0
Merged-chr12-28750047-1	chr12	28749947	28750147	+	1000.0	f1_c57bl6.idr	intron (NM_001161410, intron 1 of 11)	intron (NM_001161410, intron 1 of 11)	347.0	NM_001161410	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	12.0	4.5	4.0	114.0	17.0	9.5	4.5	6.5
Merged-chr1-10280380-4	chr1	10280280	10280480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47710.0	NM_001102430	211673.0	Mm.229141	NM_001102430	ENSMUSG00000067851	Arfgef1	ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200	ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited)	protein-coding	34.0	41.5	24.0	551.0	96.0	30.0	43.5	44.0
Merged-chr11-118363231-4	chr11	118363150	118363350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7839.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	39.0	116.5	63.5	492.0	121.5	53.5	33.0	56.5
Merged-chr7-102224672-2	chr7	102224572	102224772	+	645.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_111938, intron 2 of 4)	intron (NR_111938, intron 2 of 4)	1644.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	6.0	4.5	4.5	81.5	20.0	3.0	2.5	3.5
Merged-chr17-10317397-4	chr17	10317307	10317507	+	814.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021881, intron 1 of 6)	intron (NM_021881, intron 1 of 6)	1954.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	12.5	37.5	4.5	117.0	20.5	8.5	8.5	8.5
Merged-chr15-103272738-4	chr15	103272621	103272821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357748)	promoter-TSS (NM_001357748)	-167.0	NM_019817	56447.0	Mm.29473	NM_019817	ENSMUSG00000060992	Copz1	5930435A22Rik|AA407760|D4Ertd360e	coatomer protein complex, subunit zeta 1	protein-coding	281.5	432.5	273.0	3816.5	706.5	278.5	313.0	258.5
Merged-chr3-98014069-2	chr3	98013969	98014169	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	531.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	13.5	23.0	16.5	218.5	44.0	13.5	13.5	22.5
Merged-chr3-68708395-4	chr3	68708270	68708470	+	989.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16946.0	NM_008351	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	13.5	39.0	15.5	273.0	93.0	46.0	25.5	29.5
Merged-chr9-78586987-3	chr9	78586862	78587062	+	865.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172773, intron 1 of 10)	intron (NM_172773, intron 1 of 10)	1083.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	9.0	8.0	15.0	97.5	11.5	0.5	3.0	3.5
Merged-chr16-5013591-4	chr16	5013480	5013680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133185)	promoter-TSS (NM_133185)	-27.0	NM_133185	66049.0	Mm.27792	NM_133185	ENSMUSG00000022540	Rogdi	0610011C19Rik|AU020118|C76152|Lzf	rogdi homolog	protein-coding	198.0	339.5	170.5	3216.5	534.5	226.5	241.0	185.5
Merged-chr7-127228965-3	chr7	127228825	127229025	+	918.095215	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-4136.0	NM_001360912	233887.0	Mm.258371	NM_146201	ENSMUSG00000045598	Zfp553	2600009K23Rik|AI431057|BC026401|C330013F15Rik|Znf48	zinc finger protein 553	protein-coding	4.0	13.0	12.0	103.0	14.5	8.0	4.5	11.5
Merged-chr10-94943809-4	chr10	94943756	94943956	+	844.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_018797, exon 1 of 31)	exon (NM_018797, exon 1 of 31)	722.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	9.5	4.5	2.5	158.0	21.5	5.0	14.0	11.0
Merged-chr1-177714197-4	chr1	177714100	177714300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-15614.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	26.0	27.5	26.0	505.0	47.5	21.0	19.0	19.0
Merged-chr10-67549252-7	chr10	67549162	67549362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005419)	promoter-TSS (NM_001005419)	-307.0	NM_001005419	211488.0	Mm.297250	NM_001005419	ENSMUSG00000057134	Ado	Gm237	2-aminoethanethiol (cysteamine) dioxygenase	protein-coding	26.5	44.5	29.0	419.0	85.5	38.0	36.0	41.0
Merged-chr3-105904457-4	chr3	105904430	105904630	+	889.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009631, exon 1 of 2)	5' UTR (NM_009631, exon 1 of 2)	109.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	11.0	3.0	4.0	138.5	20.0	6.5	6.5	10.5
Merged-chr11-82612198-4	chr11	82612097	82612297	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21156.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	20.0	36.5	19.0	276.5	54.5	19.5	32.0	33.0
Merged-chr3-19515713-1	chr3	19515613	19515813	+	552.0	f0_balb.idr	intron (NM_025489, intron 1 of 4)	intron (NM_025489, intron 1 of 4)	7118.0	NM_025489	66326.0	Mm.45615	NM_025489	ENSMUSG00000027606	Dnajc5b	1700008A05Rik	DnaJ heat shock protein family (Hsp40) member C5 beta	protein-coding	6.0	10.0	6.0	79.5	5.5	0.0	0.5	2.0
Merged-chr1-36614788-3	chr1	36614703	36614903	+	855.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201365, intron 6 of 9)	MTD|LTR|ERVL-MaLR	-21471.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	9.5	16.0	13.5	172.5	17.0	8.5	16.0	5.0
Merged-chr10-61336282-3	chr10	61336213	61336413	+	765.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013753, intron 18 of 19)	intron (NM_013753, intron 18 of 19)	38477.0	NM_011073	18646.0	Mm.240313	NM_011073	ENSMUSG00000037202	Prf1	Pfn|Pfp|Prf-1	perforin 1 (pore forming protein)	protein-coding	12.5	16.5	3.5	66.5	22.0	9.0	6.5	13.5
Merged-chr13-54687767-4	chr13	54687662	54687862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146025)	promoter-TSS (NM_001146025)	46.0	NM_001146025	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	157.5	232.0	95.5	1691.0	394.0	157.0	162.0	149.5
Merged-chr15-25843169-4	chr15	25843062	25843262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034851)	promoter-TSS (NM_001034851)	-136.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	121.0	180.0	115.0	2379.0	220.5	88.0	145.0	104.0
Merged-chr13-13394234-4	chr13	13394131	13394331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031999)	promoter-TSS (NM_031999)	-607.0	NM_031999	83924.0	Mm.379269	NM_031999	ENSMUSG00000021306	Gpr137b	AI788917|AU016435|AW546472|C730041E01|C80550|C80741|D13Abb1e|Tm7sf1	G protein-coupled receptor 137B	protein-coding	32.5	31.5	62.0	512.0	75.0	17.5	35.5	26.0
Merged-chr12-3855869-2	chr12	3855769	3855969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 3 of 22)	intron (NM_007872, intron 3 of 22)	6375.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	13.5	18.0	14.0	257.0	34.5	6.5	19.5	20.5
Merged-chr2-155295705-2	chr2	155295608	155295808	+	906.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004721, intron 10 of 11)	intron (NM_001004721, intron 10 of 11)	19344.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	2.0	6.0	0.0	76.0	12.0	9.0	8.5	12.0
Merged-chr9-35187682-4	chr9	35187568	35187768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001177847, exon 7 of 7)	3' UTR (NM_001177847, exon 7 of 7)	-11681.0	NM_027030	69305.0	Mm.229110	NM_027030	ENSMUSG00000032040	Dcps	1700001E16Rik|AA408441	decapping enzyme, scavenger	protein-coding	30.5	75.5	43.0	391.5	174.0	44.5	57.0	37.5
Merged-chr6-116668894-2	chr6	116668794	116668994	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	intron (NM_178045, intron 1 of 10)	4942.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	21.0	43.5	12.0	82.5	48.0	37.0	28.0	12.0
Merged-chr19-16780457-4	chr19	16780370	16780570	+	895.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173028, intron 1 of 71)	CpG	463.0	NM_173028	271564.0	Mm.211963	NM_173028	ENSMUSG00000046230	Vps13a	4930425F11|4930516E05Rik|4930543C13Rik|9930023P20|Chac|Chorein|D330038K10Rik|mKIAA0986	vacuolar protein sorting 13A	protein-coding	20.0	15.5	26.5	236.0	33.5	10.5	12.0	32.0
Merged-chr18-80478232-4	chr18	80478135	80478335	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26D_MM|LTR|ERVK	-8568.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	33.0	20.5	21.5	302.0	45.5	12.0	39.0	28.0
Merged-chr19-12556487-4	chr19	12556388	12556588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17022.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	26.5	62.5	19.5	514.5	64.5	30.0	25.5	43.5
Merged-chr9-96554752-4	chr9	96554658	96554858	+	917.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053268, intron 17 of 23)	intron (NM_053268, intron 17 of 23)	-76083.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	12.0	15.5	8.5	205.5	45.5	1.5	18.0	16.5
Merged-chr15-66034070-3	chr15	66033963	66034163	+	768.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	-57259.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	7.5	9.5	10.5	90.0	18.5	7.5	4.0	11.5
Merged-chr13-23751503-4	chr13	23751402	23751602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178203)	promoter-TSS (NM_178203)	414.0	NM_175660	319172.0	Mm.423402	NM_175660	ENSMUSG00000061615	Hist1h2ab	H2A.1|H2a-53	histone cluster 1, H2ab	protein-coding	24.0	38.0	26.0	288.5	85.5	30.5	52.5	23.5
Merged-chr10-86705621-4	chr10	86705532	86705732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011631)	promoter-TSS (NM_011631)	-179.0	NM_001003910	103220.0	Mm.440762	NM_153595	ENSMUSG00000044937	Ttc41	AI449705|AU041509|Gnn	tetratricopeptide repeat domain 41	protein-coding	354.0	465.0	395.5	4425.0	861.5	356.0	452.5	367.0
Merged-chr16-35874622-4	chr16	35874512	35874712	+	903.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR84b|LTR|ERVL	-3230.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	15.0	25.5	12.0	266.5	61.0	15.0	16.0	22.0
Merged-chr5-23787632-4	chr5	23787533	23787733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177323)	promoter-TSS (NM_177323)	-78.0	NM_177323	72772.0	Mm.133300	NM_177323	ENSMUSG00000028999	Rint1	1500019C06Rik|2810450M21Rik|Rint-1	RAD50 interactor 1	protein-coding	69.5	101.0	75.5	1321.0	248.0	94.5	96.0	77.0
Merged-chr16-32643867-4	chr16	32643768	32643968	+	774.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016788)	promoter-TSS (NM_016788)	-775.0	NM_001110147	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	15.0	15.5	13.0	185.0	32.5	10.0	16.0	8.5
Merged-chr17-45564414-4	chr17	45564319	45564519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357105, intron 1 of 3)	intron (NM_001357105, intron 1 of 3)	483.0	NM_001357105	73836.0	Mm.289716	NM_028662	ENSMUSG00000037089	Slc35b2	1110003M08Rik|AA407792|AI842275|PAPST1|Slc35b1	solute carrier family 35, member B2	protein-coding	44.5	61.5	40.0	414.5	127.5	37.0	46.0	31.5
Merged-chr2-174437080-4	chr2	174436994	174437194	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022325, intron 2 of 5)	intron (NM_022325, intron 2 of 5)	1945.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	20.0	24.5	16.0	238.5	44.0	23.5	15.0	25.0
Merged-chr10-81290043-2	chr10	81289943	81290143	+	980.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001282095, intron 1 of 20)	intron (NM_001282095, intron 1 of 20)	1224.0	NM_013769	27375.0	Mm.27984	NM_013769	ENSMUSG00000034917	Tjp3	-	tight junction protein 3	protein-coding	1.0	9.5	0.5	29.5	26.0	7.5	5.0	9.5
Merged-chr13-5844890-3	chr13	5844789	5844989	+	863.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13203.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	8.0	18.0	7.5	10.0	37.5	10.0	3.0	13.0
Merged-chr7-29859996-4	chr7	29859894	29860094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172740)	promoter-TSS (NM_172740)	15.0	NM_172740	233058.0	Mm.297657	NM_172740	ENSMUSG00000058402	Zfp420	B230119D13|B230312I18Rik|mszf59-1|mszf70	zinc finger protein 420	protein-coding	50.5	82.0	38.5	900.5	201.5	66.5	107.5	67.0
Merged-chr10-105841259-4	chr10	105841147	105841347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025602)	promoter-TSS (NM_025602)	133.0	NM_001359642	216292.0	Mm.250875	NM_207522	ENSMUSG00000036009	Mettl25	-	methyltransferase like 25	protein-coding	165.0	235.0	288.0	2651.5	329.0	161.0	177.0	174.5
Merged-chr5-29195840-3	chr5	29195743	29195943	+	923.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289757)	promoter-TSS (NM_001289757)	-150.0	NM_001289757	56874.0	Mm.87352	NM_021470	ENSMUSG00000029130	Rnf32	1700009J01Rik|2700025B22Rik|4930542N22Rik|Lmbr2	ring finger protein 32	protein-coding	10.0	5.5	11.0	131.0	6.0	3.0	3.0	8.5
Merged-chr10-53344098-4	chr10	53344013	53344213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001141927, exon 3 of 3)	3' UTR (NM_001141927, exon 3 of 3)	6427.0	NM_001141927	18821.0	Mm.34145	NM_023129	ENSMUSG00000038583	Pln	Plb	phospholamban	protein-coding	29.5	49.0	22.0	871.0	128.5	22.0	57.5	44.5
Merged-chr4-120053273-4	chr4	120053254	120053454	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-107852.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	15.5	31.5	23.0	265.0	48.0	13.0	26.0	27.0
Merged-chr19-3699943-3	chr19	3699848	3700048	+	842.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8345.0	NM_001358256	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	9.0	13.0	7.0	53.0	32.0	12.5	7.0	31.5
Merged-chr7-63997260-1	chr7	63997160	63997360	+	696.5	f0_balb.idr	Intergenic	Intergenic	-58345.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	7.5	5.5	14.0	119.0	13.5	3.5	5.5	9.0
Merged-chr18-57878152-4	chr18	57878033	57878233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009194)	promoter-TSS (NM_009194)	-545.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	41.5	68.0	48.0	593.5	154.0	55.0	47.5	54.5
Merged-chr11-23769825-4	chr11	23769726	23769926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 1 of 9)	intron (NM_009044, intron 1 of 9)	1144.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	61.5	106.5	80.0	1240.0	191.0	62.5	112.5	62.5
Merged-chr19-57762703-3	chr19	57762601	57762801	+	964.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181415, intron 24 of 28)	intron (NM_181415, intron 24 of 28)	151667.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	8.0	21.0	12.0	235.5	17.5	9.0	13.5	10.0
Merged-chr6-121224084-4	chr6	121223988	121224188	+	939.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017379, intron 4 of 4)	intron (NM_017379, intron 4 of 4)	13354.0	NM_017379	53857.0	Mm.32884	NM_017379	ENSMUSG00000030137	Tuba8	-	tubulin, alpha 8	protein-coding	22.5	14.5	24.0	241.0	57.5	18.5	24.5	13.5
Merged-chr19-26666554-4	chr19	26666471	26666671	+	886.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 10 of 32)	intron (NM_011416, intron 10 of 32)	61411.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	25.0	19.0	25.5	421.5	42.0	11.5	22.5	23.5
Merged-chr8-104111969-3	chr8	104111894	104112094	+	802.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 1 of 11)	B3|SINE|B2	-6121.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	6.0	7.0	6.0	31.0	25.5	11.5	7.5	2.0
Merged-chr12-111525064-3	chr12	111524898	111525098	+	643.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13103.0	NM_178041	217869.0	Mm.271222	NM_173363	ENSMUSG00000021282	Eif5	2810011H21Rik|D12Ertd549e	eukaryotic translation initiation factor 5	protein-coding	5.5	18.5	10.0	19.5	6.0	2.5	2.0	8.0
Merged-chr16-36590086-4	chr16	36590002	36590202	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-27968.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	11.5	19.0	18.0	205.0	30.0	8.5	20.5	8.5
Merged-chr13-43496811-4	chr13	43496729	43496929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15856.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	27.5	31.5	23.0	411.5	107.5	42.0	32.0	25.5
Merged-chr4-88315243-4	chr4	88315174	88315374	+	808.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 21 of 43)	(TCCC)n|Simple_repeat|Simple_repeat	123652.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	11.0	12.5	12.0	104.0	38.0	7.5	8.5	10.5
Merged-chr16-90738347-4	chr16	90738288	90738488	+	878.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029844)	promoter-TSS (NM_029844)	64.0	NM_029844	77037.0	Mm.22455	NM_029844	ENSMUSG00000039956	Mrap	1110025G12Rik|C21ORF61|Falp|ORF61	melanocortin 2 receptor accessory protein	protein-coding	12.5	11.0	10.0	218.5	23.5	7.5	9.0	17.0
Merged-chr10-67026085-2	chr10	67025985	67026185	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_110511, intron 2 of 6)	ID_B1|SINE|B4	21010.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	32.0	43.0	42.5	832.0	98.0	49.0	65.0	42.5
Merged-chr14-55591097-4	chr14	55591006	55591206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011190)	promoter-TSS (NM_011190)	-5.0	NM_001029855	19188.0	Mm.371573	NM_011190	ENSMUSG00000079197	Psme2	AA589371|AI788882|PA28b	proteasome (prosome, macropain) activator subunit 2 (PA28 beta)	protein-coding	236.0	358.0	231.5	2977.5	587.0	205.0	280.5	214.0
Merged-chr19-56400406-4	chr19	56400321	56400521	+	865.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007611, intron 1 of 6)	ORR1F|LTR|ERVL-MaLR	3292.0	NM_007611	12369.0	Mm.35687	NM_007611	ENSMUSG00000025076	Casp7	AI314680|CMH-1|ICE-IAP3|Mch3|caspase-7|mCASP-7	caspase 7	protein-coding	11.0	15.0	11.0	184.0	19.5	11.5	20.5	19.0
Merged-chr11-82175000-4	chr11	82174904	82175104	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4808.0	NM_011329	20290.0	Mm.1283	NM_011329	ENSMUSG00000020702	Ccl1	BF534335|I-309|P500|Scya1|Tca-3|Tca3	chemokine (C-C motif) ligand 1	protein-coding	7.5	17.0	4.5	85.0	53.5	18.5	10.0	15.5
Merged-chr13-54694133-4	chr13	54694040	54694240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027395)	promoter-TSS (NR_027395)	-180.0	NR_027396	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	342.5	512.0	354.5	3987.0	864.5	391.5	464.0	318.0
Merged-chr8-105708211-4	chr8	105708114	105708314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198299)	promoter-TSS (NM_198299)	-46.0	NM_198299	102124.0	Mm.276087	NM_198299	ENSMUSG00000013155	Enkd1	AI606951|E130303B06Rik	enkurin domain containing 1	protein-coding	19.5	28.0	12.5	269.0	64.0	37.5	32.5	25.5
Merged-chr1-193173109-3	chr1	193173009	193173209	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181048)	promoter-TSS (NM_181048)	-360.0	NM_001160360	319266.0	Mm.482460	NM_181048	ENSMUSG00000079144	A130010J15Rik	-	RIKEN cDNA A130010J15 gene	protein-coding	39.5	54.0	30.5	633.5	67.0	17.0	57.0	37.0
Merged-chr3-41905824-4	chr3	41905736	41905936	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	163218.0	NM_027271	73852.0	Mm.29006	NM_027271	ENSMUSG00000025766	D3Ertd751e	2810009O15Rik|4930415G15Rik	DNA segment, Chr 3, ERATO Doi 751, expressed	protein-coding	40.5	58.5	89.5	1362.0	31.0	12.0	32.0	17.0
Merged-chr5-41842832-4	chr5	41842673	41842873	+	901.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081422, intron 1 of 26)	intron (NM_001081422, intron 1 of 26)	1542.0	NM_001310601	665775.0	Mm.158726	NM_001081422	ENSMUSG00000061755	Bod1l	A230054D04Rik|AI853319|FAM44A|mKIAA1327	biorientation of chromosomes in cell division 1-like	protein-coding	5.0	9.0	3.0	100.0	22.0	5.5	9.0	12.5
Merged-chr16-38457370-4	chr16	38457268	38457468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1565.0	NM_001359898	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	128.5	221.5	160.5	2052.5	337.5	157.5	126.5	131.0
Merged-chr11-118220857-4	chr11	118220759	118220959	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	-8117.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	15.5	35.0	10.5	262.5	44.0	13.5	19.0	26.5
Merged-chr10-99199712-4	chr10	99199585	99199785	+	940.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63546.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	11.0	17.5	12.0	150.0	37.5	9.5	14.0	5.0
Merged-chr5-3309417-3	chr5	3309330	3309530	+	868.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34463.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	15.0	3.0	7.0	115.5	4.5	7.0	8.0	5.5
Merged-chr2-128782392-4	chr2	128782273	128782473	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 13 of 18)	intron (NM_008587, intron 13 of 18)	-35930.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	32.5	47.0	58.0	728.5	48.5	14.0	27.0	11.0
Merged-chr18-26740501-4	chr18	26740363	26740563	+	873.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-986306.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	10.0	14.5	15.0	224.5	25.0	6.5	13.5	13.0
Merged-chr8-84908672-4	chr8	84908575	84908775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010062)	promoter-TSS (NM_010062)	51.0	NM_010062	13423.0	Mm.350831	NM_010062	ENSMUSG00000003812	Dnase2a	Dnase2	deoxyribonuclease II alpha	protein-coding	190.0	368.0	212.5	2977.0	488.5	183.0	227.5	169.0
Merged-chr8-33673836-4	chr8	33673738	33673938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 4 of 12)	intron (NM_010344, intron 4 of 12)	20600.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	26.0	47.0	44.0	557.0	333.0	86.5	112.5	139.5
Merged-chr15-74968377-4	chr15	74968270	74968470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13264.0	NM_001164040	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	32.5	47.0	22.5	444.0	124.5	31.5	47.5	41.5
Merged-chr2-23021793-4	chr2	23021675	23021875	+	992.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	RMER19B|LTR|ERVK	18466.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	12.0	24.0	43.5	278.0	37.5	15.0	21.5	21.5
Merged-chr6-116487019-4	chr6	116486932	116487132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-6579.0	NM_146912	258914.0	Mm.391507	NM_146912	ENSMUSG00000053391	Olfr211	MOR253-9	olfactory receptor 211	protein-coding	43.5	60.5	20.0	727.5	84.0	42.5	60.5	26.0
Merged-chr8-72244791-3	chr8	72244684	72244884	+	879.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007456, intron 1 of 11)	intron (NM_007456, intron 1 of 11)	4766.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	9.0	10.5	8.5	224.5	2.5	1.5	2.5	10.0
Merged-chr8-84423138-3	chr8	84423028	84423228	+	986.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252060, intron 1 of 47)	intron (NM_001252060, intron 1 of 47)	7764.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	34.0	17.0	19.5	634.5	0.0	0.0	0.0	0.0
Merged-chr14-64949961-4	chr14	64949876	64950076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253731)	promoter-TSS (NM_001253731)	-69.0	NM_153414	210925.0	Mm.71332	NM_153414	ENSMUSG00000021975	Ints9	BC028953|D14Ertd231e	integrator complex subunit 9	protein-coding	167.5	211.5	171.5	2539.0	338.0	143.0	159.0	138.0
Merged-chr5-111219850-3	chr5	111219750	111219950	+	980.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267622, intron 6 of 22)	intron (NM_001267622, intron 6 of 22)	-110847.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	12.5	28.0	22.0	467.0	20.0	2.5	5.0	7.0
Merged-chr2-136532201-3	chr2	136532098	136532298	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175667)	promoter-TSS (NM_175667)	-123.0	NM_175667	319196.0	Mm.477841	NM_175667	ENSMUSG00000074771	Ankef1	AV276460|Ankrd5	ankyrin repeat and EF-hand domain containing 1	protein-coding	38.0	36.0	63.0	812.0	8.5	6.0	4.5	4.0
Merged-chr13-112995772-4	chr13	112995673	112995873	+	696.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037914, intron 3 of 6)	intron (NM_001037914, intron 3 of 6)	1905.0	NM_001037914	622408.0	Mm.360976	NM_001037914	ENSMUSG00000074651	Mcidas	EG622408|Gm6320|Idas|Mci|Mcin	multiciliate differentiation and DNA synthesis associated cell cycle protein	protein-coding	3.5	11.0	5.5	95.5	13.5	5.5	11.5	10.0
Merged-chr17-29399380-4	chr17	29399284	29399484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38470.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	37.5	117.0	70.0	713.5	142.5	63.0	88.5	45.0
Merged-chr2-164878720-4	chr2	164878653	164878853	+	989.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146129)	promoter-TSS (NM_146129)	-615.0	NM_146129	228866.0	Mm.241134	NM_146129	ENSMUSG00000039849	Pcif1	2310022K11Rik|C20orf67|F730014I05Rik	PDX1 C-terminal inhibiting factor 1	protein-coding	23.0	15.5	16.5	219.0	47.0	16.0	13.0	22.5
Merged-chr15-95794439-2	chr15	95794336	95794536	+	652.5	f0_balb.idr|f0_c57.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	3593.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	13.0	18.5	6.5	75.0	31.0	10.0	6.0	13.0
Merged-chr10-86916006-2	chr10	86915906	86916106	+	776.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 31 of 68)	MTC|LTR|ERVL-MaLR	91936.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	3.0	6.0	5.0	29.5	12.0	5.5	9.0	7.0
Merged-chr2-23172486-4	chr2	23172380	23172580	+	862.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013771, intron 5 of 18)	ID_B1|SINE|B4	15975.0	NM_013771	27377.0	Mm.23335	NM_013771	ENSMUSG00000026775	Yme1l1	FtsH1|Ftsh	YME1-like 1 (S. cerevisiae)	protein-coding	12.0	5.0	8.5	247.5	27.0	10.5	8.0	30.5
Merged-chr4-120032532-4	chr4	120032456	120032656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-128650.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	70.0	190.5	138.0	983.0	131.5	47.0	67.0	47.5
Merged-chr14-57423504-2	chr14	57423404	57423604	+	665.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009376)	promoter-TSS (NM_009376)	-567.0	NM_009376	21821.0	Mm.4653	NM_009376	ENSMUSG00000040040	Ift88	AW552028|Tg737|Tg737Rpw|TgN737Rpw|Ttc10|flexo|fxo|orpk|polaris	intraflagellar transport 88	protein-coding	6.5	8.5	7.5	43.0	15.0	7.0	3.5	9.0
Merged-chr1-184729439-4	chr1	184729331	184729531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008250, intron 3 of 3)	intron (NM_008250, intron 3 of 3)	3062.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	50.5	49.5	33.5	751.0	98.5	30.0	41.5	49.0
Merged-chr16-94206084-4	chr16	94205995	94206195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 6 of 10)	intron (NM_001360045, intron 6 of 10)	84196.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	24.0	21.5	36.5	357.0	55.0	18.5	29.0	23.5
Merged-chr1-88699605-4	chr1	88699509	88699709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177305, exon 1 of 1)	3' UTR (NM_177305, exon 1 of 1)	2582.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	27.5	55.5	28.5	266.0	45.5	7.0	18.5	18.0
Merged-chr7-90068074-4	chr7	90067978	90068178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38919.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	83.5	112.0	95.0	1710.0	96.5	30.5	57.5	39.0
Merged-chr4-142084038-7	chr4	142083949	142084149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027137)	promoter-TSS (NR_027137)	-249.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	38.5	59.5	52.0	431.0	78.0	27.0	28.5	33.5
Merged-chr18-30272809-4	chr18	30272708	30272908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181414)	promoter-TSS (NM_181414)	-57.0	NM_181414	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	185.5	271.5	178.0	3746.0	361.5	147.0	232.0	134.0
Merged-chr5-134106055-4	chr5	134105967	134106167	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030719, intron 1 of 8)	ORR1E|LTR|ERVL-MaLR	6319.0	NM_030719	80909.0	Mm.45218	NM_030719	ENSMUSG00000015944	Gatsl2	7530428J21Rik|AW742413|Castor2|Gats|Gatsl1	GATS protein-like 2	protein-coding	18.0	32.0	23.5	311.5	66.5	17.0	26.0	23.0
Merged-chr13-37873687-4	chr13	37873495	37873695	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	-14839.0	NR_033218	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	20.0	23.0	16.5	273.5	45.5	15.0	11.5	9.5
Merged-chr8-6114686-1	chr8	6114586	6114786	+	577.5	f0_c57.idr	Intergenic	Intergenic	-1009399.0	NM_011388	20494.0	Mm.3500	NM_011388	ENSMUSG00000023073	Slc10a2	9130221J18Rik|AI605518|ASBT|IBAT|ISBT	solute carrier family 10, member 2	protein-coding	0.0	0.0	0.0	16.5	26.0	13.0	9.5	11.5
Merged-chr8-84638806-3	chr8	84638721	84638921	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007578, exon 46 of 47)	exon (NM_007578, exon 46 of 47)	24031.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	17.0	20.0	11.5	235.0	32.0	12.0	8.5	3.0
Merged-chr15-102246290-6	chr15	102246185	102246385	+	984.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001042727, exon 1 of 8)	5' UTR (NM_001042727, exon 1 of 8)	215.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	10.0	16.0	17.0	122.5	27.0	13.5	4.5	15.5
Merged-chr12-70477413-2	chr12	70477313	70477513	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	AT_rich|Low_complexity|Low_complexity	24259.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	18.0	18.5	11.5	272.5	81.5	21.0	24.0	24.5
Merged-chr1-95591267-4	chr1	95591168	95591368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009183, exon 5 of 5)	3' UTR (NM_009183, exon 5 of 5)	76326.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	24.0	25.0	29.0	488.0	64.5	9.5	27.0	24.5
Merged-chr3-115902504-4	chr3	115902405	115902605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027193, intron 4 of 7)	intron (NM_027193, intron 4 of 7)	14322.0	NM_027193	69740.0	Mm.5915	NM_027193	ENSMUSG00000033554	Dph5	2410012M04Rik|AU045680|C80186	diphthamide biosynthesis 5	protein-coding	79.0	85.0	72.5	1342.5	177.5	54.0	96.0	75.5
Merged-chr5-30959404-3	chr5	30959303	30959503	+	884.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016703, exon 2 of 9)	exon (NM_016703, exon 2 of 9)	924.0	NM_001294302	50907.0	Mm.272414	NM_016703	ENSMUSG00000045302	Preb	C85705	prolactin regulatory element binding	protein-coding	5.0	15.0	4.5	205.0	12.0	3.5	11.0	10.0
Merged-chr4-143211751-6	chr4	143211607	143211807	+	832.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256380, intron 1 of 7)	intron (NM_001256380, intron 1 of 7)	1002.0	NM_001081355	110593.0	Mm.332020	NM_001081355	ENSMUSG00000057637	Prdm2	4833427P12Rik|E330024L24Rik|Gm1033|Gm19732|KMT8|Riz|Riz1|Znfpr1c1	PR domain containing 2, with ZNF domain	protein-coding	7.0	11.5	8.5	47.0	21.0	8.5	2.0	2.5
Merged-chr13-64107824-3	chr13	64107717	64107917	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001321, intron 7 of 11)	intron (NM_001001321, intron 7 of 11)	-18616.0	NM_008291	15487.0	Mm.5109	NM_008291	ENSMUSG00000033122	Hsd17b3	-	hydroxysteroid (17-beta) dehydrogenase 3	protein-coding	2.0	2.0	1.5	37.5	68.5	10.0	29.0	34.0
Merged-chr15-98477888-3	chr15	98477801	98478001	+	943.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4782.0	NM_010679	16770.0	Mm.5074	NM_010679	ENSMUSG00000022991	Lalba	AW208827|Lyzg	lactalbumin, alpha	protein-coding	9.0	4.0	10.5	210.0	21.0	5.5	6.5	15.5
Merged-chr14-55605017-4	chr14	55604907	55605107	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159418, intron 1 of 8)	B1_Mur1|SINE|Alu	428.0	NM_001159418	16391.0	Mm.2032	NM_008394	ENSMUSG00000002325	Irf9	Irf-9|Isgf3g|p48	interferon regulatory factor 9	protein-coding	8.0	13.5	12.0	164.0	38.5	9.0	13.0	15.5
Merged-chr19-32170402-2	chr19	32170302	32170502	+	790.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	40611.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	4.0	6.5	2.5	15.5	13.5	8.0	4.5	10.0
Merged-chr7-99044004-1	chr7	99043904	99044104	+	726.0	f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	L1MC4|LINE|L1	97140.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	2.0	4.5	4.0	65.5	10.5	5.5	5.5	4.5
Merged-chr4-6369635-1	chr4	6369535	6369735	+	578.0	f0_balb.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	3955.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	7.5	4.0	6.0	89.5	15.5	7.0	7.5	8.5
Merged-chr8-19980011-4	chr8	19979908	19980108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270553, intron 6 of 9)	CpG	250432.0	NM_001039553	626415.0	Mm.425517	NM_001039553	ENSMUSG00000096265	4930467E23Rik	TSAP	RIKEN cDNA 4930467E23 gene	protein-coding	136.0	109.0	124.0	1730.5	104.5	23.5	36.0	40.5
Merged-chr19-55253777-5	chr19	55253623	55253823	+	973.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027976, exon 1 of 22)	5' UTR (NM_027976, exon 1 of 22)	354.0	NM_027976	433256.0	Mm.292056	NM_027976	ENSMUSG00000024981	Acsl5	1700030F05Rik|ACS2|ACS5|Facl5	acyl-CoA synthetase long-chain family member 5	protein-coding	22.5	69.0	37.0	271.5	45.5	17.0	21.5	26.5
Merged-chr9-55390404-3	chr9	55390304	55390504	+	841.8777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172923, intron 3 of 10)	RCHARR1|DNA|hAT-Charlie	63491.0	NM_001357568	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	15.0	17.0	26.5	229.5	13.5	2.5	5.5	5.5
Merged-chr4-151861978-4	chr4	151861875	151862075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195565)	promoter-TSS (NM_001195565)	-207.0	NM_001195565	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	428.0	640.0	438.5	6307.5	1029.5	474.0	482.5	434.0
Merged-chr7-117470302-2	chr7	117470199	117470399	+	982.833374	f0_balb.idr|f0_c57.idr	intron (NM_175645, intron 1 of 11)	intron (NM_175645, intron 1 of 11)	89320.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	26.5	30.5	26.0	443.0	38.0	13.0	12.5	15.5
Merged-chr13-37721612-3	chr13	37721503	37721703	+	721.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104435.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	5.0	15.5	3.0	124.5	5.0	5.0	6.5	6.0
Merged-chr14-71209205-3	chr14	71209100	71209300	+	857.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42073.0	NR_046075	100043132.0	Mm.399336	NR_046075	ENSMUSG00000115139	Gm4251	-	predicted gene 4251	ncRNA	12.5	23.5	19.5	439.5	0.0	1.0	0.0	1.0
Merged-chr13-33004635-4	chr13	33004525	33004725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009256)	promoter-TSS (NM_009256)	84.0	NM_009256	20723.0	Mm.245041	NM_009256	ENSMUSG00000045827	Serpinb9	BB283241|CAP-3|CAP3|PI-9|PI9|Spi6|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9	protein-coding	127.0	117.0	109.5	1719.0	294.5	93.5	183.0	102.5
Merged-chr2-167230319-3	chr2	167230212	167230412	+	875.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008968, intron 1 of 9)	L1MB5|LINE|L1	10225.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	11.0	6.5	8.5	206.5	18.5	8.5	5.5	10.5
Merged-chr16-32171155-4	chr16	32171046	32171246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5552.0	NM_001347181	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	113.5	195.0	105.0	1341.5	267.5	91.5	112.5	96.5
Merged-chr19-46598943-4	chr19	46598837	46599037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177812)	promoter-TSS (NM_001177812)	-169.0	NM_001177812	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	247.5	404.0	220.5	3344.5	629.0	246.5	233.0	221.5
Merged-chr7-3617363-4	chr7	3617266	3617466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025348)	promoter-TSS (NM_025348)	-7.0	NM_025348	66091.0	Mm.17851	NM_025348	ENSMUSG00000035674	Ndufa3	1010001M12Rik|1700022J01Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 3	protein-coding	37.5	40.5	32.5	524.5	105.5	40.0	44.5	44.5
Merged-chr16-95840050-4	chr16	95839948	95840148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040485, intron 3 of 3)	intron (NR_040485, intron 3 of 3)	58665.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	21.0	27.5	14.0	470.0	44.5	22.0	12.0	23.5
Merged-chr5-92308890-3	chr5	92308824	92309024	+	727.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172713, intron 1 of 21)	B3|SINE|B2	1100.0	NM_172713	231452.0	Mm.86564	NM_172713	ENSMUSG00000029415	Sdad1	4931421J16|AA591032|AW538460	SDA1 domain containing 1	protein-coding	6.5	15.5	8.5	164.5	5.5	1.0	0.5	9.5
Merged-chr10-87908985-4	chr10	87908874	87909074	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111274, intron 2 of 4)	intron (NM_001111274, intron 2 of 4)	47863.0	NM_001111276	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	37.0	38.5	81.5	1097.0	46.5	15.0	54.0	41.0
Merged-chr5-42967099-4	chr5	42966985	42967185	+	900.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-266378.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	8.5	12.5	23.0	237.5	23.0	4.5	13.0	7.5
Merged-chr3-109008351-4	chr3	109008250	109008450	+	800.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 1 of 10)	intron (NM_001163567, intron 1 of 10)	19257.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	10.0	12.5	11.5	83.5	34.0	3.0	20.0	9.5
Merged-chr9-102520408-4	chr9	102520300	102520500	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024291, intron 3 of 10)	intron (NM_024291, intron 3 of 10)	14262.0	NM_024291	16716.0	Mm.101692	NM_024291	ENSMUSG00000035606	Ky	CD1|D9Mgc44e|ky	kyphoscoliosis peptidase	protein-coding	15.0	39.5	22.0	180.5	63.0	18.5	22.5	9.5
Merged-chr17-27909328-4	chr17	27909241	27909441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026836)	promoter-TSS (NM_026836)	35.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	38.0	59.5	31.5	641.5	101.0	50.5	33.0	49.5
Merged-chr13-14630230-4	chr13	14630140	14630340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001104646)	promoter-TSS (NM_001104646)	-5.0	NM_001104646	105351.0	Mm.41450	NM_134067	ENSMUSG00000039182	AW209491	-	expressed sequence AW209491	protein-coding	76.0	93.0	83.0	1593.5	154.5	69.0	73.5	53.0
Merged-chr9-113931668-4	chr9	113931581	113931781	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001083319, exon 2 of 17)	exon (NM_001083319, exon 2 of 17)	747.0	NM_013699	22221.0	Mm.28052	NM_013699	ENSMUSG00000009741	Ubp1	Cp2b|LBP-1a|LBP-1b|NF2d9	upstream binding protein 1	protein-coding	15.0	27.5	23.0	303.0	42.5	15.0	15.0	21.5
Merged-chr2-103958362-4	chr2	103958264	103958464	+	905.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142337, intron 1 of 3)	L2b|LINE|L2	369.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	24.0	22.0	24.0	187.5	49.5	10.5	16.0	18.5
Merged-chr11-116784405-4	chr11	116784297	116784497	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8890.0	NM_011371	20445.0	Mm.436887	NM_011371	ENSMUSG00000009588	St6galnac1	Siat7a	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1	protein-coding	74.5	90.5	57.5	1080.0	42.0	7.5	16.5	20.0
Merged-chr6-125334584-4	chr6	125334483	125334683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 3 of 11)	L1MB7|LINE|L1	13243.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	70.0	111.5	63.5	881.0	161.5	60.5	72.0	69.5
Merged-chr2-154765846-4	chr2	154765721	154765921	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25289.0	NM_001139512	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	4.5	11.0	13.5	114.5	52.0	19.5	13.0	33.5
Merged-chr2-109890845-4	chr2	109890758	109890958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011699)	promoter-TSS (NM_011699)	-20.0	NM_011699	22343.0	Mm.235300	NM_011699	ENSMUSG00000027162	Lin7c	9130007B12Rik|AI303698|AU019331|AW125731|D2Ertd520e|LIN-7-C|LIN-7C|MALS-3|Veli3	lin-7 homolog C (C. elegans)	protein-coding	122.5	141.5	93.0	1758.0	286.0	91.5	145.5	129.0
Merged-chr18-44393583-4	chr18	44393443	44393643	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 1 of 10)	intron (NM_027490, intron 1 of 10)	13043.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	11.0	21.0	15.0	96.5	46.0	30.5	13.0	7.0
Merged-chr8-56067062-1	chr8	56066962	56067162	+	766.5	f0_balb.idr	intron (NM_080438, intron 5 of 9)	intron (NM_080438, intron 5 of 9)	126237.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	11.0	9.5	16.0	147.5	17.0	5.5	6.5	11.5
Merged-chr6-3355058-3	chr6	3354965	3355165	+	885.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	44506.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	4.0	2.0	4.0	82.0	43.5	14.0	14.5	17.5
Merged-chr19-4989198-4	chr19	4989074	4989274	+	847.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153553, intron 1 of 7)	intron (NM_153553, intron 1 of 7)	797.0	NM_153553	225872.0	Mm.287867	NM_153553	ENSMUSG00000045903	Npas4	LE-PAS|Nxf	neuronal PAS domain protein 4	protein-coding	5.0	13.5	4.5	114.0	32.0	13.0	12.0	17.0
Merged-chr3-144044642-4	chr3	144044555	144044755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	157677.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	103.0	153.5	112.0	1529.5	290.5	97.5	113.5	91.5
Merged-chr1-143917784-4	chr1	143917682	143917882	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86367.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	28.0	40.5	30.0	585.5	53.0	18.5	17.5	19.5
Merged-chr10-19554029-4	chr10	19553937	19554137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37912.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	22.0	27.0	24.5	545.0	58.5	21.5	18.0	23.5
Merged-chr1-16505108-4	chr1	16505000	16505200	+	886.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347044, intron 4 of 13)	RMER1C|Other|Other	14015.0	NM_001347044	29819.0	Mm.216257	NM_025303	ENSMUSG00000025920	Stau2	-	staufen double-stranded RNA binding protein 2	protein-coding	11.0	16.5	18.0	491.5	15.5	8.0	15.5	17.0
Merged-chr10-123360671-3	chr10	123360559	123360759	+	951.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252387, intron 1 of 4)	intron (NM_001252387, intron 1 of 4)	96583.0	NM_001252387	268354.0	Mm.51939	NM_182807	ENSMUSG00000044071	Fam19a2	6330575M02|FAM19A2 TAFA-2|Sam2|TAFA2|Tafa-2	family with sequence similarity 19, member A2	protein-coding	19.0	28.5	27.0	593.0	0.5	1.0	1.5	0.0
Merged-chr3-56575595-2	chr3	56575492	56575692	+	839.166626	f0_balb.idr|f1_balb.idr	Intergenic	GSAT_MM|Satellite|Satellite	-391891.0	NM_030595	26422.0	Mm.384353	NM_030595	ENSMUSG00000027799	Nbea	Lyst2|mKIAA1544	neurobeachin	protein-coding	17.0	11.5	10.5	324.0	5.0	2.0	0.5	6.5
Merged-chr11-69846513-4	chr11	69846407	69846607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023564)	promoter-TSS (NM_023564)	-110.0	NM_023564	70310.0	Mm.28874	NM_023564	ENSMUSG00000019461	Plscr3	2210403O21Rik|2610037N06Rik|ESTM3|X83310	phospholipid scramblase 3	protein-coding	66.0	100.5	60.5	659.0	101.5	51.0	48.5	69.0
Merged-chr15-13171303-4	chr15	13171200	13171400	+	810.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007666, intron 1 of 11)	intron (NM_007666, intron 1 of 11)	2375.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	11.5	32.5	26.0	85.5	35.0	3.5	6.5	6.5
Merged-chr2-174471025-3	chr2	174470918	174471118	+	956.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025531, intron 1 of 5)	intron (NM_025531, intron 1 of 5)	1923.0	NM_025531	66390.0	Mm.182294	NM_025531	ENSMUSG00000016257	Prelid3b	2310042G06Rik|AA407013|Slmo2	PRELI domain containing 3B	protein-coding	15.5	19.5	14.0	195.5	17.5	8.5	5.5	21.5
Merged-chr14-57856239-3	chr14	57856107	57856307	+	641.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360097, intron 7 of 13)	B2_Mm2|SINE|B2	29968.0	NM_026401	67840.0	Mm.319530	NM_026401	ENSMUSG00000021967	Mrpl57	2610025P17Rik|AV005697|Mrp63	mitochondrial ribosomal protein L57	protein-coding	7.0	9.5	6.5	71.0	14.0	1.0	5.0	3.5
Merged-chr10-120665906-4	chr10	120665790	120665990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99842.0	NR_038000	70874.0	Mm.427286	NR_038000	ENSMUSG00000044544	4921513I03Rik	-	RIKEN cDNA 4921513I03 gene	ncRNA	16.0	21.5	30.0	416.5	70.0	17.5	33.0	21.5
Merged-chr13-60670793-4	chr13	60670706	60670906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	68595.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	119.5	177.0	79.5	2042.5	289.5	125.0	117.5	114.5
Merged-chr19-21653727-2	chr19	21653627	21653827	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025423)	promoter-TSS (NM_025423)	418.0	NM_146096	226016.0	Mm.28796	NM_146096	ENSMUSG00000047368	Abhd17b	5730446C15Rik|Cgi67|Fam108b|Fam108b1	abhydrolase domain containing 17B	protein-coding	22.5	31.5	25.5	216.5	55.5	17.5	19.0	15.0
Merged-chr10-128058473-2	chr10	128058373	128058573	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019766)	promoter-TSS (NM_019766)	-509.0	NM_019766	56351.0	Mm.305816	NM_019766	ENSMUSG00000071072	Ptges3	5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177	prostaglandin E synthase 3	protein-coding	8.0	5.5	9.5	89.5	17.5	6.5	4.5	6.0
Merged-chr2-144004943-4	chr2	144004845	144005045	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133626, intron 1 of 2)	intron (NM_133626, intron 1 of 2)	6318.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	17.5	34.0	24.5	337.5	43.0	18.0	23.0	17.0
Merged-chr11-68431850-4	chr11	68431831	68432031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177320)	promoter-TSS (NM_177320)	-194.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	51.0	69.5	60.5	429.0	111.5	59.5	38.0	45.5
Merged-chr1-87214337-4	chr1	87214263	87214463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001039169, exon 1 of 7)	5' UTR (NM_001039169, exon 1 of 7)	424.0	NM_001039169	26987.0	Mm.227183	NM_023314	ENSMUSG00000026254	Eif4e2	2700069E09Rik|AI036339|AV129531|D0H0S6743E|Eif4el3	eukaryotic translation initiation factor 4E member 2	protein-coding	57.5	69.5	60.0	660.5	106.5	44.0	48.5	45.5
Merged-chr2-94158151-4	chr2	94158027	94158227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019657)	promoter-TSS (NM_019657)	-218.0	NM_019657	56348.0	Mm.22505	NM_019657	ENSMUSG00000027195	Hsd17b12	2610510O05Rik|AI172963|KIK-I|Kik1	hydroxysteroid (17-beta) dehydrogenase 12	protein-coding	427.5	714.0	569.5	7589.5	1308.5	463.0	656.5	457.0
Merged-chr3-79286271-4	chr3	79286196	79286396	+	821.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59080.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	9.0	6.5	9.0	79.5	21.5	9.0	10.0	10.0
Merged-chr3-51797027-4	chr3	51796973	51797173	+	819.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	135894.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	15.0	6.5	7.5	146.5	18.5	8.0	14.5	16.5
Merged-chr7-44952201-4	chr7	44952091	44952291	+	904.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077591, intron 5 of 10)	intron (NM_001077591, intron 5 of 10)	8951.0	NM_011651	22116.0	Mm.84502	NM_011651	ENSMUSG00000059891	Tsks	Stk22s1|Tssks1	testis-specific serine kinase substrate	protein-coding	18.5	19.0	10.0	121.0	39.0	11.5	20.5	19.0
Merged-chr11-69124264-4	chr11	69124137	69124337	+	946.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033041)	TTS (NM_033041)	-2140.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	20.0	35.5	2.5	147.0	51.5	13.0	20.5	13.0
Merged-chr3-116638147-4	chr3	116638027	116638227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008246, intron 8 of 11)	intron (NM_008246, intron 8 of 11)	-23540.0	NM_030016	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	51.5	66.0	55.0	861.5	96.0	27.0	33.0	33.5
Merged-chr6-119472869-4	chr6	119472750	119472950	+	858.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 1 of 4)	ERVL-int|LTR|ERVL	-5639.0	NM_001271758	22419.0	Mm.321818	NM_009525	ENSMUSG00000030170	Wnt5b	AW545702|Wnt-5b	wingless-type MMTV integration site family, member 5B	protein-coding	18.5	3.5	14.0	174.0	10.5	9.0	9.5	10.0
Merged-chr2-11438423-4	chr2	11438336	11438536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39936.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	43.5	38.0	59.5	727.0	52.0	18.5	30.5	44.5
Merged-chr19-6288173-4	chr19	6288073	6288273	+	899.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 2 of 4)	intron (NM_010119, intron 2 of 4)	11277.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	13.5	38.5	10.5	68.5	26.0	13.5	18.0	6.0
Merged-chr3-95228266-4	chr3	95228127	95228327	+	791.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172395)	promoter-TSS (NM_172395)	-197.0	NM_172395	57912.0	Mm.28189	NM_172395	ENSMUSG00000046722	Cdc42se1	1300002M12Rik|AW558204|Cdcse1|SCIP1|Spec1	CDC42 small effector 1	protein-coding	5.5	5.5	9.5	162.0	20.5	9.0	5.0	12.5
Merged-chr9-95514487-1	chr9	95514387	95514587	+	601.0	f0_c57.idr	Intergenic	MERVL-int|LTR|ERVL	-2491.0	NM_001357974	67958.0	Mm.292742	NM_026476	ENSMUSG00000032407	U2surp	2610101N10Rik|AU023006|Sr140	U2 snRNP-associated SURP domain containing	protein-coding	3.0	5.0	7.0	31.5	30.0	9.0	6.0	6.5
Merged-chr15-38620391-3	chr15	38620292	38620492	+	937.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR53_Mm|LTR|ERVK	-25458.0	NR_045757	69679.0	Mm.416890	NR_045757	ENSMUSG00000102106	2310043O21Rik	-	RIKEN cDNA 2310043O21 gene	ncRNA	3.5	8.5	7.5	180.0	26.0	6.0	8.0	11.5
Merged-chr18-80708197-4	chr18	80708141	80708341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164112)	promoter-TSS (NM_001164112)	-68.0	NM_001164112	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	108.0	150.0	79.5	1247.5	283.0	100.0	107.0	130.5
Merged-chr19-29806600-4	chr19	29806502	29806702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172836)	promoter-TSS (NM_172836)	-593.0	NM_172836	240613.0	Mm.313351	NM_172836	ENSMUSG00000046138	9930021J03Rik	Gm9832|mKIAA2026	RIKEN cDNA 9930021J03 gene	protein-coding	175.5	309.5	149.0	2758.0	602.0	182.5	207.5	174.0
Merged-chr2-58197058-4	chr2	58196934	58197134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	33060.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	66.0	72.0	64.5	1394.0	159.0	47.5	74.5	55.0
Merged-chr1-93668939-4	chr1	93668849	93669049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16626.0	NM_016778	51800.0	Mm.3295	NM_016778	ENSMUSG00000026278	Bok	matador|mtd	BCL2-related ovarian killer	protein-coding	58.0	72.0	50.5	735.0	70.0	36.5	56.5	42.0
Merged-chr7-126797740-6	chr7	126797613	126797813	+	936.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177308, exon 2 of 9)	exon (NM_001177308, exon 2 of 9)	1465.0	NM_001177307	11674.0	Mm.275831	NM_007438	ENSMUSG00000030695	Aldoa	Aldo-1|Aldo1	aldolase A, fructose-bisphosphate	protein-coding	4.0	7.5	2.0	27.0	15.0	5.5	4.5	13.0
Merged-chr3-52268348-4	chr3	52268221	52268421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019739)	promoter-TSS (NM_019739)	-16.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	95.0	112.0	56.0	989.0	226.0	99.5	119.0	100.5
Merged-chr4-129987894-4	chr4	129987817	129988017	+	935.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199696, intron 1 of 28)	CpG	2839.0	NM_173071	230775.0	Mm.262241	NM_173071	ENSMUSG00000028782	Adgrb2	Bai2	adhesion G protein-coupled receptor B2	protein-coding	14.5	20.0	15.5	138.0	33.5	12.5	16.5	7.5
Merged-chr11-79863596-3	chr11	79863492	79863692	+	920.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98795.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	7.5	12.5	19.0	187.0	24.5	3.0	8.0	9.5
Merged-chr9-57537725-6	chr9	57537642	57537842	+	885.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166364, exon 1 of 5)	exon (NM_001166364, exon 1 of 5)	214.0	NM_001166364	78323.0	Mm.25814	NM_175273	ENSMUSG00000032305	Fam219b	2310046O06Rik|AI594866	family with sequence similarity 219, member B	protein-coding	16.5	18.0	21.5	89.5	46.0	15.5	9.0	20.0
Merged-chr5-105701575-4	chr5	105701452	105701652	+	825.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	742.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	18.0	18.0	16.5	101.0	23.0	19.5	7.5	15.0
Merged-chr16-30308846-3	chr16	30308721	30308921	+	786.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008148, exon 2 of 2)	exon (NM_008148, exon 2 of 2)	1960.0	NM_008148	14729.0	Mm.3519	NM_008148	ENSMUSG00000047953	Gp5	GPV	glycoprotein 5 (platelet)	protein-coding	7.5	7.0	2.5	32.5	20.0	6.5	13.0	7.0
Merged-chr15-30611331-2	chr15	30611282	30611482	+	632.625	f0_balb.idr|f0_c57.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-427744.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	6.0	10.5	5.5	110.5	15.0	7.5	16.5	6.5
Merged-chr5-30105078-2	chr5	30104978	30105178	+	937.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167879)	promoter-TSS (NM_001167879)	-118.0	NM_001167879	242915.0	Mm.332287	NM_001167879	ENSMUSG00000044576	Garem2	Fam59b|Gareml|Gm444	GRB2 associated regulator of MAPK1 subtype 2	protein-coding	5.0	9.5	20.5	55.5	16.0	2.5	3.0	1.5
Merged-chr7-98818745-4	chr7	98818641	98818841	+	982.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16371.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	20.5	29.0	21.0	328.0	60.0	25.5	16.5	30.0
Merged-chr19-56265288-3	chr19	56265185	56265385	+	781.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-22627.0	NM_001329936	226243.0	Mm.25791	NM_146101	ENSMUSG00000025075	Habp2	AI035669|FSAP|HABP|HGFAL|PHBP	hyaluronic acid binding protein 2	protein-coding	11.0	23.5	10.5	151.5	19.0	2.0	5.0	8.5
Merged-chr2-164835038-4	chr2	164834938	164835138	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038492, intron 5 of 14)	intron (NM_001038492, intron 5 of 14)	1265.0	NM_008906	19025.0	Mm.359633	NM_008906	ENSMUSG00000017760	Ctsa	AU019505|PPCA|Ppgb	cathepsin A	protein-coding	20.0	19.5	17.0	358.5	65.0	18.5	19.5	18.0
Merged-chr7-121981646-4	chr7	121981499	121981699	+	975.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033318)	promoter-TSS (NM_001033318)	94.0	NM_001033318	233824.0	Mm.442015	NM_001033318	ENSMUSG00000034951	Cog7	5630400E24Rik|Gm167	component of oligomeric golgi complex 7	protein-coding	18.5	23.0	8.0	180.5	47.5	27.5	21.5	36.5
Merged-chr16-91695360-4	chr16	91695264	91695464	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026994, intron 7 of 11)	intron (NM_026994, intron 7 of 11)	6466.0	NR_040389	100038392.0	Mm.440384	NR_040389	ENSMUSG00000085169	Gm10785	-	predicted gene 10785	ncRNA	15.0	18.0	7.0	51.0	29.0	11.5	9.0	5.0
Merged-chr9-115733356-4	chr9	115733278	115733478	+	885.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-176077.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	11.5	11.5	10.5	69.0	31.0	13.0	19.5	18.0
Merged-chr17-12031435-4	chr17	12031388	12031588	+	771.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016694, intron 10 of 11)	intron (NM_016694, intron 10 of 11)	-87796.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	5.0	5.0	8.0	59.5	9.0	8.5	7.0	14.5
Merged-chr14-13960190-1	chr14	13960090	13960290	+	633.0	f0_balb.idr	intron (NM_001359900, intron 1 of 8)	RSINE1|SINE|B4	1123.0	NM_001285780	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	6.5	6.5	9.0	66.0	15.0	3.0	3.5	9.5
Merged-chr4-46580921-3	chr4	46580793	46580993	+	885.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 1 of 11)	MMTV-int|LTR|ERVK	-14453.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	0.0	0.0	0.0	0.0	59.5	35.5	25.0	18.0
Merged-chr1-93070691-2	chr1	93070591	93070791	+	813.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001294150, intron 9 of 46)	intron (NM_001294150, intron 9 of 46)	11789.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	5.0	9.0	8.0	47.5	10.5	12.5	10.5	7.5
Merged-chr15-25751740-3	chr15	25751662	25751862	+	945.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 19 of 40)	intron (NM_019472, intron 19 of 40)	-1444.0	NM_001353142	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	5.0	10.5	15.0	251.5	13.5	2.0	6.5	5.5
Merged-chr19-32770095-3	chr19	32769997	32770197	+	894.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 1 of 8)	intron (NM_008960, intron 1 of 8)	12520.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	13.0	12.0	11.0	91.5	20.0	6.0	4.0	3.0
Merged-chr11-115675781-4	chr11	115675694	115675894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	23740.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	24.5	19.5	32.5	547.0	63.5	22.5	19.0	29.5
Merged-chr13-67729134-4	chr13	67729043	67729243	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145622)	promoter-TSS (NM_145622)	30.0	NM_145622	235907.0	Mm.440123	NM_145622	ENSMUSG00000071281	Zfp65	KRAB5|Zfp71-rs1|pz114	zinc finger protein 65	protein-coding	24.0	21.0	35.0	447.0	77.0	17.0	37.0	39.5
Merged-chr15-62043381-4	chr15	62043277	62043477	+	906.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	4120.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	13.0	19.5	7.5	100.5	33.0	15.5	27.5	20.5
Merged-chr7-141379747-4	chr7	141379650	141379850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12410.0	NM_011528	21351.0	Mm.29182	NM_011528	ENSMUSG00000025503	Taldo1	-	transaldolase 1	protein-coding	52.5	96.5	42.5	666.5	148.0	63.5	69.0	68.5
Merged-chr11-86995869-4	chr11	86995774	86995974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-2112.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	86.5	143.0	62.5	1085.5	204.0	82.5	56.0	94.5
Merged-chr13-17977398-2	chr13	17977298	17977498	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	15953.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	4.5	7.0	4.5	77.5	16.0	4.0	5.5	5.0
Merged-chr2-27009998-4	chr2	27009919	27010119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029862)	promoter-TSS (NM_029862)	93.0	NM_001243239	381356.0	Mm.150270	NM_029862	ENSMUSG00000015488	Cacfd1	5930434B04Rik|mFwe	calcium channel flower domain containing 1	protein-coding	76.5	120.5	98.5	835.5	157.5	71.5	66.5	77.0
Merged-chr17-23979701-4	chr17	23979601	23979801	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4471.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	17.5	30.5	24.0	381.5	94.0	48.5	57.5	42.0
Merged-chr6-37430078-4	chr6	37430003	37430203	+	823.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	12045.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	11.0	13.5	12.0	317.0	26.5	5.5	11.0	5.0
Merged-chr17-47784604-4	chr17	47784488	47784688	+	935.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-1156.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	19.5	22.5	16.0	317.5	26.0	21.5	20.5	13.0
Merged-chr2-154703041-4	chr2	154702966	154703166	+	682.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46040.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	10.0	13.5	8.5	65.0	25.0	13.5	4.5	16.0
Merged-chr10-99181095-3	chr10	99180958	99181158	+	796.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	72923.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	6.5	9.0	5.5	57.5	9.5	3.0	2.0	7.0
Merged-chr9-107569055-4	chr9	107568958	107569158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010489)	promoter-TSS (NM_010489)	-105.0	NM_010489	15587.0	Mm.4834	NM_010489	ENSMUSG00000010047	Hyal2	AI256841|AU020858|AW555733	hyaluronoglucosaminidase 2	protein-coding	32.5	62.5	45.5	447.0	65.0	38.5	48.0	44.5
Merged-chr17-64600860-7	chr17	64600693	64600893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008549)	promoter-TSS (NM_008549)	-856.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	116.5	190.0	238.5	1816.0	376.5	157.5	186.0	157.5
Merged-chr3-123335069-4	chr3	123334961	123335161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027135, intron 10 of 22)	intron (NM_027135, intron 10 of 22)	50929.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	39.5	46.0	65.5	838.5	89.5	30.0	41.5	26.5
Merged-chr13-56335558-3	chr13	56335437	56335637	+	777.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27363.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	16.5	4.0	22.0	141.5	18.0	8.0	11.5	13.0
Merged-chr17-43518918-4	chr17	43518855	43519055	+	931.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-16182.0	NM_008585	17287.0	Mm.5346	NM_008585	ENSMUSG00000023914	Mep1a	AI098089|AW107200|Mep-1|Mep-1a|Mep1	meprin 1 alpha	protein-coding	8.5	17.5	16.5	138.0	21.0	6.0	4.5	8.5
Merged-chr4-55960237-4	chr4	55960137	55960337	+	890.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-427762.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	18.5	46.5	20.5	478.5	25.0	8.0	18.0	9.5
Merged-chr5-148503606-3	chr5	148503455	148503655	+	782.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48118.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	11.0	13.5	5.5	102.0	5.5	7.5	11.0	7.0
Merged-chr17-56005539-2	chr17	56005439	56005639	+	862.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102313)	promoter-TSS (NR_102313)	67.0	NR_102313	106766.0	Mm.204991	NM_145934	ENSMUSG00000038781	Stap2	AW049765|STAP-2	signal transducing adaptor family member 2	protein-coding	6.0	10.5	5.5	48.5	3.5	3.5	3.0	1.0
Merged-chr2-45622942-2	chr2	45622842	45623042	+	918.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73663.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	4.0	5.0	2.5	83.0	10.5	6.0	6.0	9.5
Merged-chr6-46143342-3	chr6	46143247	46143447	+	712.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 8 of 23)	intron (NM_001004357, intron 8 of 23)	1083286.0	NM_001004357	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	5.0	2.0	9.5	115.0	6.5	5.5	7.5	5.0
Merged-chr18-61229841-3	chr18	61229735	61229935	+	970.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146086, intron 1 of 21)	intron (NM_146086, intron 1 of 21)	9336.0	NM_146086	225600.0	Mm.391106	NM_146086	ENSMUSG00000024575	Pde6a	Pdea|nmf282	phosphodiesterase 6A, cGMP-specific, rod, alpha	protein-coding	3.0	4.0	9.0	78.5	37.5	8.0	12.5	25.5
Merged-chr3-96579942-3	chr3	96579834	96580034	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027241, intron 6 of 7)	intron (NM_027241, intron 6 of 7)	-13133.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	15.5	14.5	16.5	323.0	52.0	19.5	21.5	22.0
Merged-chr6-73711002-4	chr6	73710911	73711111	+	920.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-239990.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	43.0	35.5	33.0	602.5	24.5	6.5	11.5	8.5
Merged-chr4-150914560-4	chr4	150914481	150914681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4660.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	162.0	289.5	131.5	2393.0	434.5	188.0	193.5	145.5
Merged-chr3-95888862-4	chr3	95888765	95888965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346514, exon 3 of 6)	exon (NM_001346514, exon 3 of 6)	3140.0	NM_153513	229600.0	Mm.89556	NM_153513	ENSMUSG00000038543	BC028528	L259	cDNA sequence BC028528	protein-coding	33.5	72.5	38.5	583.0	112.0	45.0	27.5	43.0
Merged-chr17-24351969-4	chr17	24351874	24352074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013855)	promoter-TSS (NM_013855)	-49.0	NM_013855	27410.0	Mm.239470	NM_013855	ENSMUSG00000024130	Abca3	1810036E22Rik|ABC-C|Abc3	ATP-binding cassette, sub-family A (ABC1), member 3	protein-coding	144.0	250.0	80.5	2024.5	275.0	117.5	100.5	120.5
Merged-chr8-4370349-4	chr8	4370248	4370448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20760.0	NM_009138	20300.0	Mm.7275	NM_009138	ENSMUSG00000023235	Ccl25	A130072A22Rik|AI852536|CKb15|Scya25|TECK	chemokine (C-C motif) ligand 25	protein-coding	66.5	91.5	65.0	1169.0	183.5	68.5	114.0	80.0
Merged-chr9-88858970-4	chr9	88858866	88859066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037982)	promoter-TSS (NR_037982)	-96.0	NR_037983	319673.0	Mm.149040	NR_037982	ENSMUSG00000097177	9330159M07Rik	1700096K11Rik|mU50hg-a	RIKEN cDNA 9330159M07 gene	ncRNA	246.5	317.5	256.5	2285.0	351.0	110.0	179.5	165.5
Merged-chr11-20332795-4	chr11	20332713	20332913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018861)	promoter-TSS (NM_018861)	-100.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	128.5	178.5	126.5	2100.0	324.5	126.5	179.5	129.0
Merged-chr8-119574571-4	chr8	119574487	119574687	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026648)	promoter-TSS (NM_026648)	613.0	NM_175185	72552.0	Mm.36756	NM_175185	ENSMUSG00000034189	Hsdl1	2700067E09Rik	hydroxysteroid dehydrogenase like 1	protein-coding	11.5	4.5	10.5	276.5	20.0	13.5	10.0	11.5
Merged-chr15-59016594-7	chr15	59016479	59016679	+	975.0326539999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	T-rich|Low_complexity|Low_complexity	65447.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	5.5	8.5	6.5	63.5	13.5	10.0	3.5	20.5
Merged-chr11-58328297-2	chr11	58328175	58328375	+	649.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001256520, intron 1 of 2)	MER67B|LTR|ERV1	2064.0	NM_001256520	319475.0	Mm.72124	NM_178761	ENSMUSG00000049755	Zfp672	4930488P06Rik|4930511N19Rik|Znf672	zinc finger protein 672	protein-coding	2.5	4.5	3.5	133.5	24.0	6.5	5.5	9.5
Merged-chr11-85374929-1	chr11	85374829	85375029	+	1000.0	f0_balb.idr	intron (NM_138681, intron 6 of 25)	intron (NM_138681, intron 6 of 25)	21765.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	6.5	17.5	5.5	236.0	11.0	2.0	2.0	0.0
Merged-chr13-9261933-4	chr13	9261833	9262033	+	989.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14592.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	28.0	42.0	39.0	677.0	51.0	16.0	16.0	22.0
Merged-chr13-58478615-4	chr13	58478517	58478717	+	983.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75274.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	24.0	17.5	36.5	743.0	31.0	23.5	29.0	29.0
Merged-chr6-125587289-3	chr6	125587180	125587380	+	627.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 6 of 51)	intron (NM_011708, intron 6 of 51)	34332.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	9.0	11.5	9.0	126.5	17.0	4.5	8.0	20.0
Merged-chr6-47188432-4	chr6	47188331	47188531	+	861.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 20 of 23)	intron (NM_001004357, intron 20 of 23)	-55965.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	20.0	39.5	28.0	393.5	23.5	8.0	13.5	10.5
Merged-chr10-19015411-4	chr10	19015309	19015509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009397)	promoter-TSS (NM_009397)	1.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	262.5	453.5	313.0	2917.5	568.5	275.0	230.5	224.0
Merged-chr13-119836671-4	chr13	119836566	119836766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6449.0	NM_001001449	380878.0	Mm.327311	NM_001001449	ENSMUSG00000094237	AF067063	-	cDNA sequence AF067063	protein-coding	70.5	76.0	33.5	552.0	169.5	65.0	65.5	46.0
Merged-chr10-40372522-4	chr10	40372416	40372616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291816, intron 1 of 11)	intron (NM_001291816, intron 1 of 11)	23208.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	53.5	64.5	64.5	762.0	65.5	22.0	35.0	48.0
Merged-chr6-100210919-4	chr6	100210853	100211053	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76405.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	20.0	16.5	16.0	301.5	32.0	16.5	15.5	15.0
Merged-chr1-154274909-3	chr1	154274814	154275014	+	747.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEg|LINE|L1	-18008.0	NR_040629	78112.0	Mm.401935	NR_040629	ENSMUSG00000099933	4930452N14Rik	-	RIKEN cDNA 4930452N14 gene	ncRNA	4.0	9.5	9.0	161.0	17.0	8.0	5.0	11.5
Merged-chr9-22519726-3	chr9	22519619	22519819	+	729.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360259, intron 5 of 22)	intron (NM_001360259, intron 5 of 22)	44004.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	17.5	9.5	6.0	103.5	11.0	3.0	4.5	12.0
Merged-chr11-110986281-4	chr11	110986175	110986375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010604, intron 1 of 1)	intron (NM_010604, intron 1 of 1)	-11212.0	NM_001252209	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	15.0	45.0	26.0	532.0	62.0	28.5	26.5	24.0
Merged-chr7-141409074-4	chr7	141408953	141409153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172116, intron 7 of 7)	intron (NM_172116, intron 7 of 7)	5072.0	NM_172116	213350.0	Mm.290953	NM_172116	ENSMUSG00000051007	Gatd1	BC023835|D230016J19Rik|Pddc1	glutamine amidotransferase like class 1 domain containing 1	protein-coding	26.0	42.0	19.0	477.0	61.5	32.5	46.0	21.0
Merged-chr3-87769097-4	chr3	87768989	87769189	+	921.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289601)	promoter-TSS (NM_001289601)	-136.0	NM_152799	73182.0	Mm.158962	NM_028460	ENSMUSG00000028073	Pear1	3110045G13Rik|Jedi-1|Megf12	platelet endothelial aggregation receptor 1	protein-coding	13.5	28.5	11.5	209.0	22.0	4.5	15.5	9.0
Merged-chr7-80261213-4	chr7	80261124	80261324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028053)	promoter-TSS (NR_028053)	9.0	NM_031375	83485.0	Mm.21175	NM_031375	ENSMUSG00000047084	Ngrn	AW552001	neugrin, neurite outgrowth associated	protein-coding	30.0	27.5	15.5	360.0	82.0	37.0	33.5	45.0
Merged-chr7-131801539-3	chr7	131801459	131801659	+	898.3444820000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164901.0	NM_173410	233919.0	Mm.208740	NM_173410	ENSMUSG00000040125	Gpr26	9630036A11Rik|A730021D22	G protein-coupled receptor 26	protein-coding	19.5	12.0	9.0	202.0	20.0	13.5	7.5	5.0
Merged-chr13-37622806-4	chr13	37622677	37622877	+	897.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-203261.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	9.0	16.0	6.5	180.5	21.5	4.0	7.5	13.0
Merged-chr4-41738503-4	chr4	41738401	41738601	+	759.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001286551)	TTS (NM_001286551)	2858.0	NM_001286540	18391.0	Mm.425181	NM_011014	ENSMUSG00000036078	Sigmar1	Oprs1|Sig1R|sigma1R	sigma non-opioid intracellular receptor 1	protein-coding	8.0	17.5	1.5	188.5	26.5	13.5	10.0	11.0
Merged-chr11-70002081-2	chr11	70001981	70002181	+	939.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_007888, intron 1 of 14)	B3|SINE|B2	1455.0	NM_007888	13543.0	Mm.5114	NM_007888	ENSMUSG00000020888	Dvl2	-	dishevelled segment polarity protein 2	protein-coding	7.5	8.0	3.0	58.5	30.0	9.0	10.0	8.5
Merged-chr2-165946365-4	chr2	165946255	165946455	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-46282.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	15.5	25.5	29.0	301.5	96.5	34.5	29.0	39.0
Merged-chr2-131166026-4	chr2	131165916	131166116	+	825.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B4|LTR|ERVL	-5935.0	NM_026091	67326.0	Mm.27711	NM_026091	ENSMUSG00000027327	1700037H04Rik	-	RIKEN cDNA 1700037H04 gene	protein-coding	4.5	6.5	12.0	162.0	24.5	6.5	15.5	19.0
Merged-chr5-92486927-4	chr5	92486805	92487005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	Lx8|LINE|L1	18752.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	140.5	171.0	121.0	1415.5	266.5	122.0	129.5	89.5
Merged-chr9-59537854-4	chr9	59537731	59537931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1709.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	16.5	15.0	27.5	417.5	32.0	25.0	21.0	34.5
Merged-chr5-100615736-3	chr5	100615641	100615841	+	838.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43536.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	6.0	11.0	6.0	57.5	42.0	16.5	6.5	2.0
Merged-chr4-149047485-2	chr4	149047385	149047585	+	604.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019781, intron 2 of 8)	intron (NM_019781, intron 2 of 8)	52327.0	NM_019781	56273.0	Mm.184172	NM_019781	ENSMUSG00000028975	Pex14	Pex14p|R75137	peroxisomal biogenesis factor 14	protein-coding	10.5	5.0	7.0	46.0	6.5	1.0	0.5	5.0
Merged-chr3-79075230-4	chr3	79075113	79075313	+	921.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 19 of 23)	intron (NM_001099624, intron 19 of 23)	69674.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	17.0	19.5	22.0	343.0	36.0	7.5	17.0	14.0
Merged-chr13-92722609-3	chr13	92722514	92722714	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72204.0	NM_011582	21828.0	Mm.20865	NM_011582	ENSMUSG00000021702	Thbs4	TSP4	thrombospondin 4	protein-coding	1.5	1.0	1.0	44.5	83.5	21.5	45.5	49.0
Merged-chr10-59265817-4	chr10	59265718	59265918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43896.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	99.0	159.0	70.5	1710.0	242.5	95.0	99.5	70.5
Merged-chr8-33930763-5	chr8	33930718	33930918	+	989.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286168)	promoter-TSS (NM_001286168)	-955.0	NM_001042675	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	16.5	31.5	16.5	114.0	61.5	28.0	16.5	18.5
Merged-chr9-118489808-4	chr9	118489658	118489858	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11569.0	NM_010136	13813.0	Mm.200692	NM_010136	ENSMUSG00000032446	Eomes	C77258|TBR-2|Tbr2	eomesodermin	protein-coding	7.0	15.5	18.5	130.5	23.5	6.5	19.0	18.5
Merged-chr2-164909757-4	chr2	164909644	164909844	+	836.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199027, intron 2 of 27)	intron (NM_199027, intron 2 of 27)	2006.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	10.0	22.0	6.0	106.5	30.0	7.0	13.0	10.5
Merged-chr2-129370369-7	chr2	129370295	129370495	+	953.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008361, intron 1 of 6)	intron (NM_008361, intron 1 of 6)	493.0	NR_015474	329514.0	Mm.207315	NM_177848	ENSMUSG00000074805	Il1bos	9430083I22|Gm14047	interleukin 1 beta, opposite strand	ncRNA	13.5	23.5	19.0	38.0	54.0	36.0	21.0	10.0
Merged-chr7-143044696-2	chr7	143044596	143044796	+	862.6666869999999	f0_balb.idr|f1_balb.idr	intron (NR_110355, intron 1 of 4)	MT2A|LTR|ERVL	-8054.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	15.5	34.5	15.0	192.0	4.5	6.0	3.5	8.0
Merged-chr11-83578534-4	chr11	83578443	83578643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011338)	promoter-TSS (NM_011338)	93.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	63.5	69.5	90.0	973.5	94.0	48.5	35.0	53.0
Merged-chr8-119779528-4	chr8	119779432	119779632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1116.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	24.5	40.5	21.0	428.5	80.0	35.5	28.0	31.5
Merged-chr2-30782587-4	chr2	30782500	30782700	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19137.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	25.0	39.5	18.5	299.0	40.0	16.5	31.5	25.0
Merged-chr15-103239959-4	chr15	103239880	103240080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002885)	promoter-TSS (NR_002885)	-128.0	NM_001076789	12419.0	Mm.262059	NM_007626	ENSMUSG00000009575	Cbx5	2610029O15Rik|C75991|HP1|Hp1a|Hp1alpha	chromobox 5	protein-coding	111.0	202.0	81.5	1432.0	350.5	162.5	126.0	130.5
Merged-chr15-39217413-3	chr15	39217338	39217538	+	861.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256383, intron 1 of 25)	LTR41B|LTR|ERVL	19152.0	NM_053271	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	3.0	9.5	2.0	95.5	8.5	5.0	6.5	5.0
Merged-chr4-88035590-3	chr4	88035508	88035708	+	792.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2201.0	NM_027326	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	16.0	7.5	10.5	55.0	23.0	3.0	3.5	12.5
Merged-chr10-127165143-4	chr10	127165034	127165234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008080)	promoter-TSS (NM_008080)	-22.0	NR_045166	14421.0	Mm.386762	NM_008080	ENSMUSG00000006731	B4galnt1	4933429D13Rik|Gal-NAc-T|GalNAc-T|GalNAcT|Galgt1|Ggm-2|Ggm2	beta-1,4-N-acetyl-galactosaminyl transferase 1	protein-coding	8.5	38.0	30.0	229.0	79.5	14.5	25.0	19.0
Merged-chr18-36286306-6	chr18	36286216	36286416	+	858.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008989, intron 1 of 1)	intron (NM_008989, intron 1 of 1)	5154.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	6.5	7.0	2.0	137.5	20.5	9.5	10.0	10.5
Merged-chr6-29485279-4	chr6	29485170	29485370	+	973.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029985, intron 32 of 37)	intron (NM_001029985, intron 32 of 37)	13833.0	NM_001145360	668210.0	Mm.420607	NM_001145360	ENSMUSG00000090685	Gm9047	EG668210	predicted gene 9047	protein-coding	13.5	19.0	6.5	141.0	29.5	19.5	19.5	9.0
Merged-chr1-75192070-4	chr1	75191970	75192170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026187)	promoter-TSS (NM_026187)	-60.0	NR_109938	245860.0	Mm.238266	NM_001003917	ENSMUSG00000033124	Atg9a	AU019532|Apg9l1|Atg9|Atg9l1	autophagy related 9A	protein-coding	217.5	396.0	239.0	3794.5	624.0	249.5	310.5	247.0
Merged-chr5-76048277-4	chr5	76048146	76048346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69818.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	48.0	65.0	42.5	864.0	85.5	30.0	40.0	33.5
Merged-chr17-27178224-3	chr17	27178122	27178322	+	967.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A2B_MM|LTR|ERVK	-10458.0	NM_173027	271424.0	Mm.209679	NM_173027	ENSMUSG00000024210	Ip6k3	D830007E07Rik|Ihpk3	inositol hexaphosphate kinase 3	protein-coding	21.0	16.0	9.5	245.0	21.5	11.5	5.0	11.5
Merged-chr7-114453388-4	chr7	114453286	114453486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 1 of 15)	intron (NM_011055, intron 1 of 15)	38132.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	44.5	53.0	44.5	688.0	177.5	59.5	63.5	50.0
Merged-chr11-115643521-4	chr11	115643442	115643642	+	834.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008163)	TTS (NM_008163)	-15247.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	7.5	16.5	12.5	91.0	30.0	18.5	11.5	12.5
Merged-chr6-129236018-4	chr6	129235892	129236092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040268, intron 2 of 3)	MLTR14|LTR|ERV1	2053.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	153.0	236.5	206.5	2719.0	416.0	119.5	154.0	152.0
Merged-chr2-158189610-4	chr2	158189535	158189735	+	880.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001131021, intron 14 of 15)	ORR1D2|LTR|ERVL-MaLR	-2373.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	8.5	27.0	9.5	120.0	31.0	8.0	13.5	19.5
Merged-chr2-129502847-1	chr2	129502747	129502947	+	625.5	f0_balb.idr	intron (NM_177653, intron 1 of 6)	RLTR18-int|LTR|ERVK	33755.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	3.0	7.5	6.5	100.5	10.0	4.5	7.0	10.5
Merged-chr8-85081018-3	chr8	85080932	85081132	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026399)	promoter-TSS (NM_026399)	69.0	NM_001001493	414077.0	Mm.35790	NM_001001493	ENSMUSG00000059355	Wdr83os	-	WD repeat domain 83 opposite strand	protein-coding	10.5	24.0	5.0	75.5	21.0	3.5	11.0	13.5
Merged-chr16-95929779-4	chr16	95929718	95929918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040484)	promoter-TSS (NR_040484)	-741.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	44.5	33.0	33.0	501.5	49.5	18.0	49.0	27.0
Merged-chr4-41713463-4	chr4	41713349	41713549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027278)	promoter-TSS (NM_027278)	68.0	NM_027278	69961.0	Mm.425182	NM_027278	ENSMUSG00000036114	Rpp25l	2810432D09Rik|AW987258|Rppl25	ribonuclease P/MRP 25 subunit-like	protein-coding	27.0	57.5	45.5	387.0	64.5	25.5	22.0	34.0
Merged-chr18-34378188-4	chr18	34378084	34378284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	-4769.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	38.0	23.5	37.0	627.5	65.0	25.5	25.5	51.0
Merged-chr1-155972514-4	chr1	155972482	155972682	+	969.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039184, intron 1 of 37)	intron (NM_001039184, intron 1 of 37)	673.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	14.0	24.5	20.0	105.5	47.5	25.5	14.0	7.0
Merged-chr5-92352428-2	chr5	92352328	92352528	+	785.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	RLTR13D2|LTR|ERVK	-3539.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	8.5	5.0	7.5	17.5	14.0	10.5	11.0	6.5
Merged-chr15-100080996-4	chr15	100080879	100081079	+	888.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 3 of 3)	RSINE1|SINE|B4	42315.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	12.0	10.5	13.5	148.5	26.0	15.0	11.5	21.0
Merged-chr10-88441414-4	chr10	88441310	88441510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 19 of 20)	L1MB5|LINE|L1	-18177.0	NM_011517	20962.0	Mm.297977	NM_011517	ENSMUSG00000020059	Sycp3	Cor1|Scp3	synaptonemal complex protein 3	protein-coding	128.0	254.0	198.0	2348.5	426.5	167.0	152.5	159.0
Merged-chr7-97749062-4	chr7	97748949	97749149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-10802.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	41.5	34.0	20.0	442.0	117.0	33.0	38.5	54.5
Merged-chr3-107142977-4	chr3	107142895	107143095	+	976.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40148.0	NM_001081140	242151.0	Mm.245155	NM_001081140	ENSMUSG00000042861	Kcna10	Gm1962|Kcna8|Kv1.8	potassium voltage-gated channel, shaker-related subfamily, member 10	protein-coding	25.0	21.0	33.0	827.0	60.5	13.0	43.5	36.5
Merged-chr11-115512898-4	chr11	115512793	115512993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008258, intron 1 of 4)	intron (NM_008258, intron 1 of 4)	1500.0	NM_008258	15374.0	Mm.1775	NM_008258	ENSMUSG00000020737	Jpt1	Hn1	Jupiter microtubule associated homolog 1	protein-coding	59.5	107.0	47.5	1159.5	192.0	46.0	75.0	55.5
Merged-chr16-8738078-6	chr16	8737970	8738170	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003918, intron 1 of 30)	CpG	272.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	12.0	12.0	17.0	134.0	25.0	9.5	17.0	23.5
Merged-chr6-116458981-4	chr6	116458875	116459075	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 1 of 13)	intron (NM_009662, intron 1 of 13)	2203.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	20.0	14.5	20.5	449.0	35.5	12.5	23.0	16.5
Merged-chr9-66917614-4	chr9	66917513	66917713	+	888.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	2092.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	14.0	42.5	25.5	102.0	60.0	19.0	11.0	3.5
Merged-chr16-36588116-3	chr16	36587985	36588185	+	898.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-25951.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	7.0	10.0	8.5	158.5	23.0	4.0	3.5	14.5
Merged-chr10-115351120-3	chr10	115351012	115351212	+	880.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359472, intron 3 of 6)	ORR1B2|LTR|ERVL-MaLR	11137.0	NM_001359470	67226.0	Mm.29647	NM_133683	ENSMUSG00000069520	Tmem19	2810428F02Rik|AW125171	transmembrane protein 19	protein-coding	7.5	3.0	7.5	8.0	25.5	4.5	6.5	9.5
Merged-chr1-55837583-2	chr1	55837483	55837683	+	631.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93658.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	0.5	4.0	5.0	154.5	12.0	6.0	4.5	11.0
Merged-chr4-150265123-2	chr4	150265051	150265251	+	649.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16765.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	0.0	1.5	0.0	52.0	14.0	5.0	7.0	11.0
Merged-chr5-102001118-4	chr5	102001012	102001212	+	980.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	68809.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	40.5	57.0	32.5	676.0	46.5	15.0	20.0	23.0
Merged-chr11-75677991-4	chr11	75677845	75678045	+	722.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1314.0	NM_001277219	12928.0	Mm.280125	NM_133656	ENSMUSG00000017776	Crk	Crk-I|Crk-II|Crk-III|Crk3|CrkIII|Crko|c-Crk|p38	v-crk avian sarcoma virus CT10 oncogene homolog	protein-coding	7.5	9.5	4.5	50.5	18.5	8.5	9.5	11.5
Merged-chr4-130784960-4	chr4	130784867	130785067	+	935.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7570.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	17.0	26.0	13.5	269.0	36.5	6.5	22.0	11.5
Merged-chr4-107167918-1	chr4	107167818	107168018	+	566.0	f0_balb.idr	intron (NM_025617, intron 2 of 4)	intron (NM_025617, intron 2 of 4)	10448.0	NM_025617	66526.0	Mm.246956	NM_025617	ENSMUSG00000028619	Tceanc2	2210010B22Rik|2210012G02Rik|6330404A07Rik|AU015593|Tdeanc2	transcription elongation factor A (SII) N-terminal and central domain containing 2	protein-coding	6.0	11.0	7.0	82.0	6.5	3.0	3.0	6.0
Merged-chr4-42947041-4	chr4	42946943	42947143	+	942.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2824.0	NM_001355438	56323.0	Mm.20437	NM_019874	ENSMUSG00000036052	Dnajb5	1110058L06Rik|AI462558|Hsc40|Hsp40-3	DnaJ heat shock protein family (Hsp40) member B5	protein-coding	22.0	30.0	11.5	142.0	75.5	16.0	15.0	12.0
Merged-chr2-156992137-4	chr2	156992035	156992235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013865)	promoter-TSS (NM_013865)	-24.0	NM_180956	29812.0	Mm.279256	NM_013865	ENSMUSG00000027634	Ndrg3	4833415O14Rik|AI747193|Ndr3	N-myc downstream regulated gene 3	protein-coding	139.0	193.0	99.0	1465.5	305.5	107.5	110.5	137.0
Merged-chr11-80163640-3	chr11	80163552	80163752	+	799.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 5 of 10)	intron (NM_172133, intron 5 of 10)	9490.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	4.5	9.0	9.5	109.0	22.0	10.0	6.5	4.0
Merged-chr10-69352948-4	chr10	69352846	69353046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007659)	promoter-TSS (NM_007659)	-34.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	147.5	151.5	105.5	2147.5	351.0	140.0	129.0	117.0
Merged-chr13-58158745-4	chr13	58158653	58158853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198004, intron 1 of 4)	B3|SINE|B2	1104.0	NM_198004	75731.0	Mm.293919	NM_198004	ENSMUSG00000050002	Idnk	5133401N09Rik	idnK gluconokinase homolog (E. coli)	protein-coding	26.0	42.0	18.0	399.0	117.5	32.5	24.5	27.5
Merged-chr4-63586321-4	chr4	63586198	63586398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001356354)	TTS (NM_001356354)	14466.0	NM_001354647	670833.0	Mm.32213	NM_001354647	ENSMUSG00000084782	Gm11213	-	predicted gene 11213	protein-coding	32.5	68.0	54.5	636.5	70.0	32.5	26.5	53.5
Merged-chr16-90386930-3	chr16	90386842	90387042	+	920.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 1 of 10)	CpG	545.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	4.5	13.5	8.0	120.0	12.0	5.5	3.5	11.0
Merged-chr6-30354945-4	chr6	30354863	30355063	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36057.0	NM_172735	232679.0	Mm.29780	NM_172735	ENSMUSG00000039130	Zc3hc1	1110054L24Rik|AU018540|AU019789|HSPC216|Nipa	zinc finger, C3HC type 1	protein-coding	26.5	24.0	29.5	289.0	51.5	8.0	21.0	19.5
Merged-chr11-17727814-3	chr11	17727708	17727908	+	939.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	226067.0	NM_026576	68145.0	Mm.178684	NM_026576	ENSMUSG00000016984	Etaa1	5730466H23Rik|AA672646	Ewing tumor-associated antigen 1	protein-coding	17.0	10.5	17.5	450.0	4.0	11.0	7.5	3.0
Merged-chr9-15279969-4	chr9	15279878	15280078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144933)	promoter-TSS (NM_144933)	-111.0	NM_144933	234959.0	Mm.44151	NM_144933	ENSMUSG00000031935	Med17	77kDa|C330002H14Rik|Crsp6|Trap80	mediator complex subunit 17	protein-coding	178.0	229.5	188.5	2894.5	467.0	163.0	219.5	156.5
Merged-chr11-94328413-4	chr11	94328324	94328524	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027799, intron 1 of 4)	CpG	423.0	NM_146024	71452.0	Mm.141054	NM_027799	ENSMUSG00000020864	Ankrd40	1110011C06Rik|5530600A18Rik|Gcap15	ankyrin repeat domain 40	protein-coding	15.0	29.5	16.5	210.0	27.0	20.5	8.5	19.5
Merged-chr16-62786792-4	chr16	62786684	62786884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178925)	promoter-TSS (NM_178925)	-68.0	NM_178925	106338.0	Mm.26321	NM_178925	ENSMUSG00000050312	Nsun3	6720484A09Rik|AU022521	NOL1/NOP2/Sun domain family member 3	protein-coding	245.5	389.0	161.0	3773.0	631.0	205.0	250.5	221.0
Merged-chr17-48275639-4	chr17	48275510	48275710	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172623)	TTS (NM_172623)	11315.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	9.0	12.0	29.0	333.0	67.0	20.0	38.0	40.5
Merged-chr14-21742039-4	chr14	21741960	21742160	+	910.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007268, intron 5 of 7)	intron (NM_001007268, intron 5 of 7)	819.0	NM_013849	27389.0	Mm.390674	NM_013849	ENSMUSG00000021768	Dusp13	DUSP13A|DUSP13B|Gm1203|LMW-DSP6|MDSP|TMDP|TS-DSP6	dual specificity phosphatase 13	protein-coding	17.0	13.5	13.5	186.0	49.5	14.5	10.0	13.5
Merged-chr6-37197015-3	chr6	37196914	37197114	+	923.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	102962.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	13.0	8.0	18.5	275.0	14.5	7.5	8.5	15.0
Merged-chr1-34838488-4	chr1	34838380	34838580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 1 of 6)	ORR1B1|LTR|ERVL-MaLR	4570.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	47.0	57.0	60.0	1119.0	120.0	39.5	64.0	69.5
Merged-chr4-128820664-3	chr4	128820565	128820765	+	741.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Zaphod3|DNA|hAT-Tip100	-14553.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	3.5	12.5	9.5	94.5	33.5	5.0	4.5	5.0
Merged-chr11-103262593-4	chr11	103262494	103262694	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	4807.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	19.5	40.0	25.0	240.5	65.5	21.0	17.0	18.0
Merged-chr9-70007997-1	chr9	70007897	70008097	+	835.25	f0_balb.idr	3' UTR (NM_016787, exon 11 of 11)	3' UTR (NM_016787, exon 11 of 11)	-4551.0	NM_001282084	235459.0	Mm.293117	NM_199151	ENSMUSG00000033543	Gtf2a2	TFIIA-gamma|TfIIg|Tfiia2	general transcription factor II A, 2	protein-coding	15.0	24.5	7.5	130.5	8.5	3.0	5.0	10.5
Merged-chr10-37106436-4	chr10	37106342	37106542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32484.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	21.5	45.5	19.0	412.5	61.5	24.0	31.5	18.0
Merged-chr19-58978914-4	chr19	58978810	58979010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175172, intron 14 of 14)	intron (NM_175172, intron 14 of 14)	-35238.0	NM_001327998	73442.0	Mm.39739	NM_175199	ENSMUSG00000025092	Hspa12a	1700063D12Rik|AI118035|AI840429|AW048913|AW556406|D5Mgi40|Gm19925|mKIAA0417	heat shock protein 12A	protein-coding	32.0	50.0	55.5	427.0	67.0	18.5	31.5	25.5
Merged-chr6-54954425-3	chr6	54954337	54954537	+	902.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	RLTR11A2|LTR|ERVK	17224.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	1.0	1.5	0.0	0.5	32.5	9.5	8.0	10.5
Merged-chr9-114748546-4	chr9	114748412	114748612	+	824.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026036, exon 4 of 4)	3' UTR (NM_026036, exon 4 of 4)	17309.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	10.0	5.0	4.0	64.5	7.0	11.5	8.0	11.0
Merged-chr6-42339418-4	chr6	42339303	42339503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-10425.0	NM_001289619	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	27.5	40.5	42.0	814.0	88.5	20.0	36.0	31.5
Merged-chr13-111778722-4	chr13	111778611	111778811	+	955.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	30282.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	6.0	4.0	22.5	133.5	33.5	9.5	12.0	5.0
Merged-chr9-88692448-3	chr9	88692353	88692553	+	602.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359992, intron 2 of 2)	intron (NM_001359992, intron 2 of 2)	27134.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	5.0	10.5	8.0	79.0	10.0	1.5	4.0	7.5
Merged-chr1-33757801-4	chr1	33757697	33757897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145392)	promoter-TSS (NM_145392)	-47.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	22.5	30.5	36.5	365.0	64.5	25.0	35.0	30.5
Merged-chr7-75371134-3	chr7	75371027	75371227	+	938.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61865.0	NM_153579	64176.0	Mm.273082	NM_153579	ENSMUSG00000053025	Sv2b	A830038F04Rik|AI850768|mKIAA0735	synaptic vesicle glycoprotein 2 b	protein-coding	10.0	12.0	11.5	202.0	10.0	2.5	3.5	6.5
Merged-chr7-28374872-4	chr7	28374756	28374956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-2194.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	36.0	51.0	32.0	434.0	107.5	49.0	37.0	57.5
Merged-chr17-15826064-3	chr17	15825993	15826193	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178615, exon 1 of 3)	exon (NM_178615, exon 1 of 3)	493.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	26.0	22.5	58.5	486.0	68.5	23.5	40.5	35.5
Merged-chr7-16296973-4	chr7	16296852	16297052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10157.0	NM_001136471	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	49.5	94.5	36.5	518.5	261.0	107.0	100.5	82.0
Merged-chr10-80922100-4	chr10	80922039	80922239	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3894.0	NM_010722	16907.0	Mm.7362	NM_010722	ENSMUSG00000062075	Lmnb2	-	lamin B2	protein-coding	13.5	20.0	18.5	225.0	35.5	9.5	21.0	16.5
Merged-chr17-42939667-3	chr17	42939567	42939767	+	917.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63243.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	2.0	7.0	2.0	65.5	36.5	12.5	6.5	12.0
Merged-chr14-98814019-3	chr14	98813925	98814125	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	232111.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	18.5	55.5	37.0	575.5	11.0	8.0	8.0	5.5
Merged-chr11-69949026-4	chr11	69948918	69949118	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009204)	promoter-TSS (NM_009204)	-821.0	NM_001359114	20528.0	Mm.10661	NM_009204	ENSMUSG00000018566	Slc2a4	GT2|Glut-4|Glut4|twgy	solute carrier family 2 (facilitated glucose transporter), member 4	protein-coding	28.0	24.0	15.5	143.5	54.0	15.5	20.0	19.0
Merged-chr17-29998570-4	chr17	29998449	29998649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6490.0	NM_148926	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	28.0	93.5	38.5	409.0	167.0	47.5	47.0	67.0
Merged-chr2-167146102-3	chr2	167146003	167146203	+	856.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008420, intron 1 of 1)	B3|SINE|B2	42715.0	NM_008420	16500.0	Mm.205341	NM_008420	ENSMUSG00000050556	Kcnb1	Kcr1-1|Kv2.1|Shab	potassium voltage gated channel, Shab-related subfamily, member 1	protein-coding	5.0	3.0	12.5	123.5	12.5	6.0	7.5	12.5
Merged-chr16-45032829-4	chr16	45032743	45032943	+	901.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-61168.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	16.0	23.0	7.5	399.5	37.0	13.0	10.5	9.0
Merged-chr16-91640384-4	chr16	91640299	91640499	+	841.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357351, intron 4 of 21)	intron (NM_001357351, intron 4 of 21)	6573.0	NM_010256	14450.0	Mm.4505	NM_010256	ENSMUSG00000022962	Gart	Gaps|Prgs	phosphoribosylglycinamide formyltransferase	protein-coding	8.0	4.5	3.0	150.0	57.0	16.5	27.5	15.0
Merged-chr14-21137103-2	chr14	21137003	21137203	+	784.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 3 of 10)	intron (NM_134079, intron 3 of 10)	60951.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	4.5	11.0	2.0	91.5	20.0	6.5	5.0	5.0
Merged-chr7-35067984-4	chr7	35067882	35068082	+	803.924988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-11416.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	21.0	14.5	10.0	206.5	21.0	9.5	8.0	16.5
Merged-chr19-46837464-3	chr19	46837353	46837553	+	843.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102471, intron 1 of 6)	intron (NM_001102471, intron 1 of 6)	75844.0	NM_001102471	94219.0	Mm.306903	NM_033569	ENSMUSG00000064105	Cnnm2	AU015877|AW048635|Acdp2|Clp2	cyclin M2	protein-coding	13.5	24.0	18.0	262.0	10.5	10.5	11.5	5.5
Merged-chr4-140975646-4	chr4	140975556	140975756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355515, intron 5 of 7)	intron (NM_001355515, intron 5 of 7)	-11217.0	NM_029097	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	122.0	169.0	138.0	2158.5	271.0	80.0	164.0	127.5
Merged-chr11-68863949-4	chr11	68863839	68864039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10808.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	70.0	69.0	50.5	594.0	98.0	50.0	59.0	42.5
Merged-chr2-140863702-4	chr2	140863591	140863791	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 4 of 18)	intron (NM_001013802, intron 4 of 18)	-192215.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	8.5	23.0	26.0	142.0	42.0	18.0	10.5	20.0
Merged-chr14-70392769-7	chr14	70392653	70392853	+	996.0476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021308, intron 16 of 22)	intron (NM_021308, intron 16 of 22)	36341.0	NM_021308	57746.0	Mm.85253	NM_021308	ENSMUSG00000033644	Piwil2	Piwil1l|mili	piwi-like RNA-mediated gene silencing 2	protein-coding	41.0	30.0	24.5	250.0	43.5	29.0	18.0	14.5
Merged-chr5-21676155-4	chr5	21676035	21676235	+	774.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359964, intron 2 of 4)	intron (NM_001359964, intron 2 of 4)	25261.0	NM_001359964	242864.0	Mm.153292	NM_178728	ENSMUSG00000044968	Napepld	A530089G06|Mbldc1|NAPE-PLD	N-acyl phosphatidylethanolamine phospholipase D	protein-coding	13.0	7.0	11.0	109.0	22.5	8.0	7.0	8.5
Merged-chr4-9643168-3	chr4	9643075	9643275	+	982.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	542.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	5.5	1.5	4.0	45.5	32.5	10.0	19.0	16.5
Merged-chr3-144570820-2	chr3	144570720	144570920	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011828)	promoter-TSS (NM_011828)	393.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	34.5	43.5	65.5	449.0	87.5	39.0	36.0	52.5
Merged-chr7-48944973-2	chr7	48944873	48945073	+	711.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-14100.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	6.0	8.0	5.0	38.0	4.0	2.5	1.5	3.0
Merged-chr10-75667593-10	chr10	75667541	75667741	+	999.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 29 of 36)	CpG	-23633.0	NM_027890	71733.0	Mm.247956	NM_027890	ENSMUSG00000006342	Susd2	1200011D11Rik	sushi domain containing 2	protein-coding	23.0	41.0	45.5	427.5	46.0	18.5	36.5	36.0
Merged-chr1-59764055-4	chr1	59763901	59764101	+	993.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007561)	promoter-TSS (NM_007561)	-278.0	NM_007561	12168.0	Mm.7106	NM_007561	ENSMUSG00000067336	Bmpr2	2610024H22Rik|AL117858|AW546137|BB189135|BMP-2|BMPR-2|BMPR-II|BMPRII|BRK-3|Gm20272	bone morphogenetic protein receptor, type II (serine/threonine kinase)	protein-coding	18.0	21.5	18.5	247.5	35.5	14.5	21.5	18.0
Merged-chr2-144527518-4	chr2	144527421	144527621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029763)	promoter-TSS (NM_029763)	-107.0	NM_001360362	241688.0	Mm.442156	NM_172859	ENSMUSG00000037259	Dzank1	2810039F03Rik|6330439K17Rik|Ankrd64	double zinc ribbon and ankyrin repeat domains 1	protein-coding	119.0	170.0	182.0	2207.0	324.0	122.0	146.5	140.5
Merged-chr3-87358888-4	chr3	87358877	87359077	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 1 of 5)	intron (NM_009690, intron 1 of 5)	1096.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	4.5	13.5	10.5	87.5	16.0	9.5	9.5	13.5
Merged-chr19-38819263-4	chr19	38819176	38819376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021315)	promoter-TSS (NM_021315)	-39.0	NM_021315	57753.0	Mm.86482	NM_021315	ENSMUSG00000024999	Noc3l	AF233884|Fad24	NOC3 like DNA replication regulator	protein-coding	122.5	166.5	132.5	2292.0	262.5	80.0	130.0	118.5
Merged-chr4-120872583-3	chr4	120872490	120872690	+	849.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_182929, exon 2 of 8)	5' UTR (NM_182929, exon 2 of 8)	17791.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	17.5	39.5	12.0	260.0	19.5	6.5	4.5	10.0
Merged-chr2-117412311-4	chr2	117412309	117412509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69532.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	16.0	22.5	12.0	130.0	51.0	18.5	16.5	20.5
Merged-chr5-96948979-3	chr5	96948877	96949077	+	896.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27705.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	17.0	21.5	23.0	255.5	13.0	2.0	11.5	10.0
Merged-chr2-69109438-4	chr2	69109326	69109526	+	821.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172856, exon 10 of 10)	3' UTR (NM_172856, exon 10 of 10)	-26374.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	14.0	17.5	8.0	166.0	26.5	4.5	13.5	6.5
Merged-chr18-37955590-4	chr18	37955503	37955703	+	958.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153793)	promoter-TSS (NM_153793)	44.0	NM_153793	225392.0	Mm.233516	NM_153793	ENSMUSG00000044024	Rell2	4631403P03Rik|ependolin	RELT-like 2	protein-coding	18.5	10.5	11.5	248.0	30.0	14.5	20.0	28.5
Merged-chr17-15743535-3	chr17	15743421	15743621	+	858.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 17 of 35)	intron (NM_007690, intron 17 of 35)	38554.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	11.5	18.5	15.0	250.0	8.5	1.5	2.0	0.0
Merged-chr10-25324172-3	chr10	25324090	25324290	+	812.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-25027.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	6.5	8.5	9.0	160.5	2.0	4.0	5.5	5.5
Merged-chr3-51195470-4	chr3	51195368	51195568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28979.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	194.0	336.0	285.0	3546.5	504.5	224.0	301.0	188.5
Merged-chr12-119356916-4	chr12	119356826	119357026	+	820.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86484.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	6.5	5.5	7.0	134.0	26.0	6.0	9.5	10.0
Merged-chr7-128418232-4	chr7	128418153	128418353	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026418)	promoter-TSS (NM_026418)	-81.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	12.0	21.0	28.5	453.5	41.0	12.0	13.0	27.5
Merged-chr6-54679360-3	chr6	54679243	54679443	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-2281.0	NM_001289741	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	93.0	117.5	104.0	1733.0	6.0	0.0	0.5	2.0
Merged-chr5-122114438-3	chr5	122114348	122114548	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183307, intron 9 of 12)	intron (NM_183307, intron 9 of 12)	13497.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	12.0	16.5	5.5	127.5	17.0	9.5	9.0	12.5
Merged-chr10-68241205-4	chr10	68241111	68241311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	37515.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	174.0	236.0	227.0	2606.0	289.5	116.5	181.0	173.5
Merged-chr9-90259535-3	chr9	90259440	90259640	+	703.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	11229.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	12.5	6.0	8.0	28.0	4.5	1.5	2.0	9.5
Merged-chr9-70239346-3	chr9	70239241	70239441	+	969.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	31991.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	18.5	17.0	7.0	167.5	41.5	0.5	10.5	7.0
Merged-chr10-127739560-5	chr10	127739489	127739689	+	980.18573	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198035)	promoter-TSS (NM_198035)	51.0	NM_198035	320080.0	Mm.27258	NM_198035	ENSMUSG00000044617	Zbtb39	7030401O21Rik|mKIAA0352	zinc finger and BTB domain containing 39	protein-coding	21.5	26.5	18.5	142.0	25.5	11.5	22.5	13.5
Merged-chr8-113635384-4	chr8	113635265	113635465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173015)	promoter-TSS (NM_173015)	-221.0	NM_001048143	270096.0	Mm.74689	NM_173015	ENSMUSG00000078908	Mon1b	5031407H10|5033413H12Rik	MON1 homolog B, secretory traffciking associated	protein-coding	384.5	676.0	497.5	6606.0	1055.5	420.5	529.0	385.0
Merged-chr17-43265393-4	chr17	43265309	43265509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4938.0	NM_133776	77596.0	Mm.159950	NM_133776	ENSMUSG00000041293	Adgrf1	5031409J19Rik|Gpr110|KPG_009	adhesion G protein-coupled receptor F1	protein-coding	20.0	55.0	21.5	533.5	60.0	19.0	30.0	37.0
Merged-chr6-125684797-4	chr6	125684703	125684903	+	817.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 50 of 51)	intron (NM_011708, intron 50 of 51)	-5616.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	12.0	22.5	7.5	161.5	31.0	5.5	9.0	14.0
Merged-chr13-115150889-6	chr13	115150810	115151010	+	804.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48946.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	10.0	5.5	12.5	148.5	15.5	4.0	7.0	7.5
Merged-chr11-45926879-4	chr11	45926761	45926961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18074.0	NM_028185	72290.0	Mm.249827	NM_028185	ENSMUSG00000044847	Lsm11	2210404M20Rik|AV079530	U7 snRNP-specific Sm-like protein LSM11	protein-coding	40.0	58.0	51.5	387.5	98.0	36.0	26.0	56.0
Merged-chr4-129808537-2	chr4	129808452	129808652	+	664.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-11927.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	2.0	4.0	0.0	16.0	28.0	8.0	5.5	8.0
Merged-chr3-122943770-2	chr3	122943670	122943870	+	762.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_133857, intron 14 of 15)	intron (NM_133857, intron 14 of 15)	19373.0	NM_024461	67704.0	Mm.24219	NM_024461	ENSMUSG00000054091	1810037I17Rik	5730414I01Rik|Aln	RIKEN cDNA 1810037I17 gene	protein-coding	7.0	17.5	12.0	47.5	13.0	13.0	7.5	4.0
Merged-chr7-122021132-4	chr7	122021004	122021204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028758)	promoter-TSS (NM_028758)	94.0	NM_028758	74105.0	Mm.29619	NM_028758	ENSMUSG00000030872	Gga2	1200007E24Rik|mKIAA1080	golgi associated, gamma adaptin ear containing, ARF binding protein 2	protein-coding	54.0	53.5	36.5	456.0	82.5	33.0	39.5	37.5
Merged-chr16-50630640-4	chr16	50630558	50630758	+	863.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040566, intron 3 of 4)	intron (NR_040566, intron 3 of 4)	-39504.0	NM_027046	69339.0	Mm.422869	NM_027046	ENSMUSG00000050685	Ccdc54	1700007N18Rik|AI644412|BB013989|NYD-SP17	coiled-coil domain containing 54	protein-coding	9.0	18.0	15.5	180.0	26.5	12.5	11.5	9.5
Merged-chr2-167420833-4	chr2	167420748	167420948	+	767.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148929)	promoter-TSS (NM_148929)	-862.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	3.5	8.0	8.5	88.5	13.0	18.5	10.0	9.5
Merged-chr5-64834436-4	chr5	64834336	64834536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30913.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	157.5	240.5	133.5	1498.5	311.5	122.5	98.0	67.5
Merged-chr4-154935192-4	chr4	154935111	154935311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7134.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	80.5	142.0	78.0	1270.5	241.0	103.5	73.0	141.5
Merged-chr14-63193741-7	chr14	63193586	63193786	+	995.9428710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201610)	promoter-TSS (NM_201610)	-161.0	NM_201610	382913.0	Mm.239490	NM_201610	ENSMUSG00000035121	Neil2	Gm1212|NEH2	nei like 2 (E. coli)	protein-coding	23.5	17.5	25.5	210.0	48.0	17.0	9.0	24.5
Merged-chr11-120352807-4	chr11	120352674	120352874	+	969.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4096.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	19.5	26.5	7.5	243.5	39.0	21.0	15.5	28.5
Merged-chr5-117417619-4	chr5	117417527	117417727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	intron (NM_001312914, intron 1 of 19)	3625.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	88.5	173.5	105.0	2239.5	269.5	97.0	176.0	131.5
Merged-chr7-83600074-4	chr7	83599921	83600121	+	842.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177695, exon 8 of 23)	exon (NM_177695, exon 8 of 23)	15090.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	7.5	7.5	7.0	102.5	17.0	7.5	7.5	12.0
Merged-chr17-28621893-4	chr17	28621790	28621990	+	804.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016795, intron 2 of 15)	CpG	631.0	NM_016795	20815.0	Mm.15252	NM_016795	ENSMUSG00000004865	Srpk1	AU017960	serine/arginine-rich protein specific kinase 1	protein-coding	8.0	16.0	7.5	64.0	22.0	7.0	11.0	6.5
Merged-chr5-24452505-4	chr5	24452402	24452602	+	807.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139153, exon 1 of 18)	exon (NM_139153, exon 1 of 18)	325.0	NM_139153	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	14.0	5.5	11.5	102.0	24.0	9.5	4.5	16.5
Merged-chr16-92959166-2	chr16	92959066	92959266	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133092.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	3.0	3.0	3.5	160.0	12.0	7.0	12.0	11.0
Merged-chr1-85703816-4	chr1	85703726	85703926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013673, intron 17 of 19)	intron (NM_013673, intron 17 of 19)	32780.0	NM_177055	319997.0	Mm.116691	NM_177055	ENSMUSG00000052760	A630001G21Rik	-	RIKEN cDNA A630001G21 gene	protein-coding	198.0	318.5	158.5	2463.0	448.5	183.0	221.5	201.0
Merged-chr3-119933444-4	chr3	119933336	119933536	+	986.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-150048.0	NM_019550	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	22.0	31.5	15.5	234.5	48.0	15.5	15.5	10.0
Merged-chr8-36185373-3	chr8	36185293	36185493	+	916.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29383.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	16.0	13.0	23.0	315.0	8.0	2.0	5.0	2.0
Merged-chr10-121370209-4	chr10	121370075	121370275	+	878.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	intron (NM_029364, intron 1 of 13)	5085.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	11.0	14.5	4.5	215.5	26.0	11.0	15.0	9.5
Merged-chr19-10803937-4	chr19	10803837	10804037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009852, intron 1 of 12)	intron (NM_009852, intron 1 of 12)	26121.0	NM_001037801	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	21.5	35.0	18.5	382.0	53.5	16.0	30.0	31.5
Merged-chr10-80117203-6	chr10	80117132	80117332	+	850.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301853, intron 1 of 8)	CpG	1429.0	NM_001301854	20869.0	Mm.44231	NM_011492	ENSMUSG00000003068	Stk11	AA408040|Lkb1|Par-4|R75140	serine/threonine kinase 11	protein-coding	10.5	14.0	9.0	219.5	22.5	9.5	23.5	13.0
Merged-chr5-138161050-4	chr5	138160948	138161148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012002)	promoter-TSS (NM_012002)	-54.0	NM_012002	26893.0	Mm.3981	NM_012002	ENSMUSG00000019494	Cops6	Sgn3|VIP/MOV34	COP9 signalosome subunit 6	protein-coding	42.5	34.5	30.0	343.0	113.0	24.5	49.0	20.5
Merged-chr8-88692090-3	chr8	88691998	88692198	+	646.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4930.0	NM_001128170	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	5.0	11.0	6.0	101.0	6.5	0.0	2.0	4.5
Merged-chr1-149856932-4	chr1	149856835	149857035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 14 of 17)	intron (NM_008869, intron 14 of 17)	65504.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	17.5	29.0	35.0	351.0	91.0	33.5	37.5	54.0
Merged-chr7-107609819-4	chr7	107609710	107609910	+	943.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163557, intron 1 of 25)	intron (NM_001163557, intron 1 of 25)	2966.0	NM_001163557	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	15.0	45.0	16.5	129.0	85.0	32.0	28.0	22.0
Merged-chr2-145741793-4	chr2	145741704	145741904	+	984.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	intron (NR_033220, intron 3 of 3)	40609.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	11.5	26.5	17.5	275.5	51.0	15.0	21.0	9.0
Merged-chr1-95674240-3	chr1	95674144	95674344	+	851.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-6650.0	NM_001159745	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	4.5	16.0	5.5	303.0	10.0	4.5	11.0	7.0
Merged-chr11-75655924-4	chr11	75655811	75656011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080775)	promoter-TSS (NM_001080775)	-104.0	NM_001080775	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	94.0	127.5	80.0	926.0	200.5	82.0	71.5	89.5
Merged-chr1-65176369-3	chr1	65176225	65176425	+	884.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111320, intron 1 of 8)	RMER15|LTR|ERVL	2817.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	4.5	5.0	5.0	31.5	4.0	2.5	1.0	1.0
Merged-chr7-92837380-4	chr7	92837261	92837461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029494)	TTS (NM_029494)	36886.0	NM_001355126	74041.0	Mm.26468	NM_028729	ENSMUSG00000030641	Ddias	4632434I11Rik|noxin	DNA damage-induced apoptosis suppressor	protein-coding	90.5	146.5	79.5	1547.5	195.5	61.5	84.5	73.0
Merged-chr2-163928633-4	chr2	163928548	163928748	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9965.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	69.0	75.5	87.5	1174.5	35.5	14.0	20.5	22.5
Merged-chr7-99434975-4	chr7	99434850	99435050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362168, intron 4 of 17)	intron (NM_001362168, intron 4 of 17)	-31054.0	NM_028145	72184.0	Mm.153585	NM_028145	ENSMUSG00000035298	Klhl35	2810406K13Rik	kelch-like 35	protein-coding	69.5	47.0	43.0	850.0	80.0	39.5	43.0	40.5
Merged-chr6-97469330-2	chr6	97469227	97469427	+	991.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-10041.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	7.0	6.5	5.0	128.0	30.0	7.0	6.0	6.0
Merged-chr17-34849765-2	chr17	34849669	34849869	+	776.5	f0_c57.idr|f1_balb.idr	promoter-TSS (NM_001045864)	promoter-TSS (NM_001045864)	435.0	NM_021337	108077.0	Mm.18845	NM_021337	ENSMUSG00000040356	Skiv2l	4930534J06Rik|AW214248|Ddx13|SKI|Ski2w	superkiller viralicidic activity 2-like (S. cerevisiae)	protein-coding	5.0	8.5	4.5	23.5	24.0	4.5	1.5	8.0
Merged-chr9-123801761-3	chr9	123801663	123801863	+	796.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110253, intron 14 of 17)	intron (NM_001110253, intron 14 of 17)	-4714.0	NM_030712	80901.0	Mm.124289	NM_030712	ENSMUSG00000048521	Cxcr6	BB217514|BONZO|STRL33	chemokine (C-X-C motif) receptor 6	protein-coding	8.0	5.5	9.5	69.0	16.0	5.0	6.0	5.0
Merged-chr15-76825720-4	chr15	76825637	76825837	+	902.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-7567.0	NM_198420	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	23.5	18.0	10.0	176.0	47.5	13.5	7.0	15.0
Merged-chr2-167129342-2	chr2	167129248	167129448	+	847.041626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008420, intron 1 of 1)	intron (NM_008420, intron 1 of 1)	59470.0	NM_008420	16500.0	Mm.205341	NM_008420	ENSMUSG00000050556	Kcnb1	Kcr1-1|Kv2.1|Shab	potassium voltage gated channel, Shab-related subfamily, member 1	protein-coding	6.0	6.0	7.0	55.0	9.5	4.0	7.5	13.5
Merged-chr17-55702556-2	chr17	55702468	55702668	+	626.25	f0_balb.idr|f1_balb.idr	intron (NR_151542, intron 3 of 16)	intron (NR_151542, intron 3 of 16)	10068.0	NM_028370	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	8.0	10.5	6.0	140.0	16.5	9.0	6.0	2.5
Merged-chr16-24626337-4	chr16	24626226	24626426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-95529.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	75.5	140.0	85.5	689.5	151.5	79.0	52.0	66.5
Merged-chr4-139330768-4	chr4	139330659	139330859	+	948.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20015.0	NM_025337	110198.0	Mm.482154	NM_025337	ENSMUSG00000028743	Akr7a5	0610025K21Rik|Afar|Afar1|Akr7a2	aldo-keto reductase family 7, member A5 (aflatoxin aldehyde reductase)	protein-coding	26.0	33.0	13.0	92.0	120.0	38.5	36.0	53.0
Merged-chr19-12571103-3	chr19	12570992	12571192	+	723.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2418.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	0.5	0.0	0.0	10.5	48.5	10.5	16.5	10.5
Merged-chr18-78808088-4	chr18	78807997	78808197	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053099, intron 4 of 5)	MIRb|SINE|MIR	-211147.0	NM_207651	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	14.0	20.0	13.0	238.5	42.5	8.5	28.5	11.0
Merged-chr18-74216098-4	chr18	74215999	74216199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028868)	promoter-TSS (NM_028868)	-113.0	NM_028868	74322.0	Mm.17537	NM_028868	ENSMUSG00000024560	Cxxc1	2410002I16Rik|5830420C16Rik|AI426635|Cfp1|Cgbp|PHF18	CXXC finger 1 (PHD domain)	protein-coding	322.0	420.5	290.5	4507.0	736.0	336.0	324.0	231.0
Merged-chr12-85437744-4	chr12	85437649	85437849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36141.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	68.0	112.5	53.0	982.0	232.5	68.5	77.0	89.5
Merged-chr3-152463615-3	chr3	152463516	152463716	+	995.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001346655)	TTS (NM_001346655)	66932.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	6.0	6.0	11.5	271.0	20.0	17.0	7.5	9.5
Merged-chr10-121477611-3	chr10	121477510	121477710	+	927.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1360.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	5.0	16.5	17.0	278.5	9.0	4.5	4.5	11.5
Merged-chr8-122928979-4	chr8	122928880	122929080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	80606.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	66.0	46.0	26.5	615.0	96.5	41.5	33.0	31.5
Merged-chr10-127165814-3	chr10	127165674	127165874	+	876.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001244618)	promoter-TSS (NM_001244618)	-57.0	NM_027739	14421.0	Mm.386762	NM_008080	ENSMUSG00000006731	B4galnt1	4933429D13Rik|Gal-NAc-T|GalNAc-T|GalNAcT|Galgt1|Ggm-2|Ggm2	beta-1,4-N-acetyl-galactosaminyl transferase 1	protein-coding	4.5	8.0	6.5	106.5	18.0	6.0	4.5	10.5
Merged-chr7-114530779-3	chr7	114530679	114530879	+	821.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011055, exon 13 of 16)	exon (NM_011055, exon 13 of 16)	32193.0	NR_110407	244209.0	Mm.108037	NM_177382	ENSMUSG00000030670	Cyp2r1	-	cytochrome P450, family 2, subfamily r, polypeptide 1	protein-coding	18.0	15.5	9.5	178.5	18.0	3.5	7.0	5.5
Merged-chr9-37656155-1	chr9	37656055	37656255	+	646.0	f0_balb.idr	intron (NM_025289, intron 1 of 8)	intron (NM_025289, intron 1 of 8)	1157.0	NM_025289	21376.0	Mm.28689	NM_025289	ENSMUSG00000011114	Tbrg1	AA408552|AA409675|Niam|Tb-5|mFLJ00213	transforming growth factor beta regulated gene 1	protein-coding	4.5	6.5	9.5	78.5	12.5	2.0	3.0	5.0
Merged-chr19-46531837-1	chr19	46531737	46531937	+	557.0	f0_balb.idr	intron (NM_019718, intron 5 of 5)	intron (NM_019718, intron 5 of 5)	30189.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	7.5	11.5	9.0	96.5	1.0	1.5	1.0	3.5
Merged-chr10-37136208-3	chr10	37136102	37136302	+	864.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008538, exon 2 of 2)	exon (NM_008538, exon 2 of 2)	2724.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.5	1.0	1.0	88.5	19.5	9.5	5.0	4.5
Merged-chr13-32934757-1	chr13	32934657	32934857	+	665.0	f0_c57.idr	Intergenic	MLTR25C|LTR|ERVK	-30756.0	NM_011454	20708.0	Mm.36526	NM_011454	ENSMUSG00000042842	Serpinb6b	NK13|Spi12|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 6b	protein-coding	10.0	9.0	3.5	34.0	20.5	6.5	4.5	16.5
Merged-chr13-108158668-4	chr13	108158566	108158766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362403)	promoter-TSS (NM_001362403)	-41.0	NM_001127346	75597.0	Mm.276040	NM_001127346	ENSMUSG00000068184	Ndufaf2	1810058I14Rik|C86051|Ndufa12l|mimitin	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 2	protein-coding	156.5	231.5	156.0	2397.0	403.5	124.5	202.0	153.0
Merged-chr6-29758661-2	chr6	29758561	29758761	+	604.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_176996, intron 9 of 11)	intron (NM_176996, intron 9 of 11)	-9782.0	NM_021414	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	0.0	6.0	3.0	64.0	15.5	12.5	10.0	7.0
Merged-chr18-3330641-2	chr18	3330541	3330741	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110851, intron 1 of 4)	intron (NM_001110851, intron 1 of 4)	-3050.0	NM_001110850	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	7.5	9.5	6.5	52.0	11.0	5.0	7.0	5.5
Merged-chr16-32124537-4	chr16	32124457	32124657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24755.0	NM_025892	66994.0	Mm.22990	NM_025892	ENSMUSG00000035790	Cep19	1500031L02Rik|AI428934|AL022620	centrosomal protein 19	protein-coding	52.0	135.0	26.5	832.5	184.0	53.5	57.0	52.5
Merged-chr19-16773754-2	chr19	16773654	16773854	+	720.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173028, intron 1 of 71)	intron (NM_173028, intron 1 of 71)	7179.0	NM_173028	271564.0	Mm.211963	NM_173028	ENSMUSG00000046230	Vps13a	4930425F11|4930516E05Rik|4930543C13Rik|9930023P20|Chac|Chorein|D330038K10Rik|mKIAA0986	vacuolar protein sorting 13A	protein-coding	6.5	9.0	9.5	66.5	4.0	6.0	1.5	8.5
Merged-chr11-59839825-4	chr11	59839726	59839926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011991)	promoter-TSS (NM_011991)	-59.0	NM_011991	26572.0	Mm.40	NM_011991	ENSMUSG00000019373	Cops3	Csn3|Sgn3	COP9 signalosome subunit 3	protein-coding	55.5	81.0	36.5	734.5	115.5	46.0	65.0	62.0
Merged-chr15-58822895-2	chr15	58822795	58822995	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_175212, exon 1 of 7)	exon (NM_175212, exon 1 of 7)	532.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	4.5	15.0	17.5	95.5	25.0	9.0	11.0	12.5
Merged-chr2-27743615-2	chr2	27743515	27743715	+	863.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 4 of 9)	intron (NM_001290481, intron 4 of 9)	33032.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	6.0	5.0	6.0	51.5	4.0	0.5	2.5	2.5
Merged-chr7-83615968-1	chr7	83615868	83616068	+	835.0	f0_c57.idr	exon (NM_177695, exon 18 of 23)	exon (NM_177695, exon 18 of 23)	-16049.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	8.0	13.5	5.5	38.0	11.0	12.5	13.5	9.0
Merged-chr16-37597541-4	chr16	37597434	37597634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027778, intron 3 of 12)	intron (NR_027778, intron 3 of 12)	17381.0	NM_013547	15233.0	Mm.157442	NM_013547	ENSMUSG00000022821	Hgd	Hgo|aku	homogentisate 1, 2-dioxygenase	protein-coding	48.0	68.0	47.5	929.0	160.0	70.0	65.5	72.0
Merged-chr1-182506746-3	chr1	182506653	182506853	+	920.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009794, intron 2 of 20)	intron (NM_009794, intron 2 of 20)	10857.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	13.5	21.0	10.0	168.5	20.5	7.5	8.5	11.0
Merged-chr13-51908761-4	chr13	51908668	51908868	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62093.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	15.5	45.0	21.5	382.5	36.0	17.5	12.0	14.5
Merged-chr5-100798655-4	chr5	100798537	100798737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081107)	promoter-TSS (NM_001081107)	-37.0	NM_001081107	191578.0	Mm.21469	NM_180984	ENSMUSG00000035266	Helq	AU021725|D430018E21Rik|Hel308	helicase, POLQ-like	protein-coding	26.5	47.5	30.5	453.5	56.0	16.0	27.0	33.0
Merged-chr12-84761450-4	chr12	84761315	84761515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023409, intron 2 of 3)	MLTR14|LTR|ERV1	11697.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	138.5	225.5	104.5	978.0	276.0	122.5	80.5	67.5
Merged-chr8-105384384-4	chr8	105384264	105384464	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301173, intron 15 of 15)	intron (NM_001301173, intron 15 of 15)	8983.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	15.5	20.5	26.0	228.0	65.0	12.0	16.5	19.0
Merged-chr18-39542035-4	chr18	39541927	39542127	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54782.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	18.0	23.5	14.0	290.5	47.5	17.5	10.5	20.5
Merged-chr17-27907744-4	chr17	27907623	27907823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026836, exon 2 of 6)	5' UTR (NM_026836, exon 2 of 6)	1519.0	NM_026836	68776.0	Mm.267998	NM_026836	ENSMUSG00000024218	Taf11	1110038O14Rik|AI115401|AL024207|AW552398|PRO214|TAF2I|TAFII28	TATA-box binding protein associated factor 11	protein-coding	25.5	54.0	24.0	433.0	82.5	40.0	27.5	27.0
Merged-chr4-11026450-4	chr4	11026310	11026510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-18791.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	51.0	72.0	42.0	803.5	137.5	51.5	55.0	39.5
Merged-chr2-58485237-4	chr2	58485159	58485359	+	807.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355048, intron 3 of 10)	intron (NM_001355048, intron 3 of 10)	76151.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	10.0	3.5	3.5	155.0	22.0	10.0	5.0	11.5
Merged-chr4-103321905-5	chr4	103321708	103321908	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025909, exon 3 of 9)	exon (NM_025909, exon 3 of 9)	7962.0	NM_025909	67013.0	Mm.30021	NM_025909	ENSMUSG00000035069	Oma1	2010001O09Rik|MPRP-1|ZMPOMA1	OMA1 zinc metallopeptidase	protein-coding	10.0	15.5	6.0	149.0	18.0	5.0	8.0	10.0
Merged-chr13-37325685-4	chr13	37325570	37325770	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19675.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	24.5	46.0	14.0	119.5	68.5	32.5	22.5	21.0
Merged-chr18-53267788-4	chr18	53267678	53267878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	MMAR1|DNA|TcMar-Mariner	22116.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	125.5	135.0	202.0	2452.0	324.5	93.5	174.5	141.0
Merged-chr15-7134659-3	chr15	7134546	7134746	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113386, intron 2 of 16)	intron (NM_001113386, intron 2 of 16)	5074.0	NM_001358593	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	4.0	5.0	5.5	134.0	19.0	5.5	6.5	10.5
Merged-chr7-66226072-4	chr7	66225969	66226169	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	116554.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	15.0	33.0	19.5	362.5	95.5	15.5	26.0	27.0
Merged-chr13-112735243-4	chr13	112735134	112735334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178746, exon 15 of 15)	3' UTR (NM_178746, exon 15 of 15)	-65543.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	71.0	110.5	54.0	706.5	61.5	14.5	28.5	25.5
Merged-chr5-145205310-4	chr5	145205194	145205394	+	977.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001167944, exon 1 of 4)	5' UTR (NM_001167944, exon 1 of 4)	735.0	NM_001359188	22757.0	Mm.332842	NM_016683	ENSMUSG00000055991	Zkscan5	AI132486|AI326970|Zfp95|hKraba1	zinc finger with KRAB and SCAN domains 5	protein-coding	12.5	27.5	10.5	214.0	41.0	16.5	14.0	14.5
Merged-chr14-73105577-4	chr14	73105467	73105667	+	842.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36943.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	18.5	18.5	12.5	208.5	22.0	5.0	10.0	9.0
Merged-chr10-24164322-4	chr10	24164215	24164415	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	14998.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	33.0	30.0	25.0	473.5	52.5	30.0	34.0	19.5
Merged-chr6-124478547-4	chr6	124478442	124478642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13758.0	NM_153508	232370.0	Mm.193701	NM_153508	ENSMUSG00000008153	Clstn3	CSTN3|Cs3|Cst-3|alc-beta	calsyntenin 3	protein-coding	50.0	94.0	30.0	498.5	144.5	50.0	37.5	46.5
Merged-chr10-115330001-2	chr10	115329901	115330101	+	882.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-14410.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	2.0	5.5	4.5	31.5	18.5	8.5	5.5	19.0
Merged-chr17-87142392-1	chr17	87142292	87142492	+	616.0	f1_balb.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	34713.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	3.5	1.5	1.0	37.0	6.0	6.5	6.0	8.0
Merged-chr16-32595383-4	chr16	32595279	32595479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13517.0	NM_011638	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	46.5	88.0	43.5	806.0	141.0	53.0	50.0	52.5
Merged-chr9-83537649-4	chr9	83537557	83537757	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-10681.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	9.0	34.0	21.5	62.5	46.5	21.5	14.0	9.0
Merged-chr16-35756065-3	chr16	35755969	35756169	+	934.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	intron (NM_153550, intron 1 of 8)	13287.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	6.5	15.0	6.0	130.0	11.5	10.5	5.5	10.0
Merged-chr12-102381839-4	chr12	102381694	102381894	+	959.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 7 of 9)	MER63A|DNA|hAT-Blackjack	58019.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	16.5	24.5	26.5	252.0	43.0	17.0	16.0	13.5
Merged-chr6-120917461-4	chr6	120917344	120917544	+	901.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007544)	promoter-TSS (NM_007544)	-620.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	12.5	11.5	11.5	68.0	35.0	24.0	11.5	23.5
Merged-chr14-61803932-2	chr14	61803825	61804025	+	686.0	f0_balb.idr|f1_balb.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-121552.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	11.0	2.5	1.0	81.5	6.0	10.0	6.0	5.5
Merged-chr12-12172301-3	chr12	12172202	12172402	+	938.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89837.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	1.0	1.5	18.0	216.5	28.0	7.5	6.5	15.0
Merged-chr13-76018700-4	chr13	76018647	76018847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178916)	promoter-TSS (NM_178916)	-35.0	NM_001131069	218341.0	Mm.266515	NM_178916	ENSMUSG00000043190	Rfesd	AI256775|D030068K09	Rieske (Fe-S) domain containing	protein-coding	125.5	159.5	124.0	1506.5	437.5	192.0	238.0	164.5
Merged-chr6-51432802-2	chr6	51432702	51432902	+	787.25	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010903, exon 1 of 4)	5' UTR (NM_010903, exon 1 of 4)	133.0	NM_010903	18025.0	Mm.42138	NM_010903	ENSMUSG00000029832	Nfe2l3	Nrf3	nuclear factor, erythroid derived 2, like 3	protein-coding	5.0	8.5	9.5	41.0	16.0	3.5	5.0	4.5
Merged-chr19-44545823-2	chr19	44545723	44545923	+	834.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033343)	promoter-TSS (NM_001033343)	25.0	NM_001033343	240667.0	Mm.329873	NM_001033343	ENSMUSG00000051984	Sec31b	Gm341|Sec31l2	Sec31 homolog B (S. cerevisiae)	protein-coding	6.0	12.0	4.5	55.5	1.5	2.5	2.0	4.0
Merged-chr7-30091411-3	chr7	30091281	30091481	+	778.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152814)	promoter-TSS (NM_152814)	-871.0	NM_152814	72556.0	Mm.441512	NM_152814	ENSMUSG00000078768	Zfp566	2700043M03Rik|mszf4	zinc finger protein 566	protein-coding	4.5	3.5	8.5	75.5	38.0	7.0	15.5	7.5
Merged-chr8-104247953-4	chr8	104247885	104248085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045642, intron 1 of 8)	intron (NR_045642, intron 1 of 8)	573.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	14.5	18.5	31.0	208.5	40.5	10.0	13.0	21.5
Merged-chr15-102234063-4	chr15	102233965	102234165	+	881.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011244)	TTS (NM_011244)	-2130.0	NM_013566	16421.0	Mm.58	NM_013566	ENSMUSG00000001281	Itgb7	Ly69	integrin beta 7	protein-coding	8.5	12.0	14.5	117.0	25.5	11.0	12.5	8.5
Merged-chr1-160234052-4	chr1	160233951	160234151	+	900.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038621, intron 6 of 8)	intron (NM_001038621, intron 6 of 8)	-21159.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	39.5	55.0	44.0	594.0	21.5	6.5	9.5	7.5
Merged-chr17-35841446-4	chr17	35841309	35841509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001010833)	promoter-TSS (NM_001010833)	-89.0	NM_001010833	240087.0	Mm.218511	NM_001010833	ENSMUSG00000061607	Mdc1	6820401C03|AA413496|Nfbd1|mKIAA0170	mediator of DNA damage checkpoint 1	protein-coding	301.0	525.5	260.0	3637.0	759.0	319.5	303.0	242.5
Merged-chr7-135710467-4	chr7	135710376	135710576	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081117, intron 4 of 13)	intron (NM_001081117, intron 4 of 13)	5903.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	21.5	36.0	11.0	247.5	67.5	22.5	22.0	22.5
Merged-chr11-75573341-4	chr11	75573241	75573441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173388, exon 14 of 14)	3' UTR (NM_173388, exon 14 of 14)	-14738.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	94.5	119.0	103.5	1324.0	148.0	61.5	109.0	101.5
Merged-chr12-116436373-4	chr12	116436298	116436498	+	981.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 17 of 28)	Lx8|LINE|L1	30996.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	13.5	27.0	36.0	279.0	55.5	33.5	37.0	27.5
Merged-chr6-30856144-4	chr6	30856041	30856241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149738, intron 10 of 24)	ORR1B1|LTR|ERVL-MaLR	40653.0	NR_149738	54160.0	Mm.39896	NM_017478	ENSMUSG00000025607	Copg2	AW227625|gamma-2-COP	coatomer protein complex, subunit gamma 2	protein-coding	47.0	60.5	28.0	730.5	142.5	29.0	54.0	63.5
Merged-chr11-70580204-2	chr11	70580104	70580304	+	799.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 1 of 30)	PB1|SINE|Alu	17323.0	NM_016713	50932.0	Mm.42967	NM_016713	ENSMUSG00000020827	Mink1	B55|MINK|Map4k6|Ysk2	misshapen-like kinase 1 (zebrafish)	protein-coding	7.5	6.5	4.5	31.0	4.0	8.5	5.0	6.0
Merged-chr16-33380817-4	chr16	33380764	33380964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011749)	promoter-TSS (NM_011749)	89.0	NM_011749	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	51.5	67.5	35.0	544.5	100.0	47.0	36.0	36.5
Merged-chr11-97660417-4	chr11	97660321	97660521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2991.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	88.5	125.5	57.5	814.0	261.0	104.5	139.5	102.0
Merged-chr17-33555597-6	chr17	33555492	33555692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053214)	promoter-TSS (NM_053214)	-115.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	65.0	104.0	73.0	813.5	113.0	45.0	62.5	48.0
Merged-chr2-119251032-4	chr2	119250929	119251129	+	927.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13669.0	NM_016907	20732.0	Mm.104955	NM_016907	ENSMUSG00000027315	Spint1	HAI-1	serine protease inhibitor, Kunitz type 1	protein-coding	17.5	19.5	4.5	170.0	12.5	7.5	13.5	14.5
Merged-chr6-125548642-4	chr6	125548542	125548742	+	910.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4306.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	9.5	14.0	15.5	339.0	30.5	11.5	15.5	12.5
Merged-chr9-118661596-1	chr9	118661496	118661696	+	988.0	f1_balb.idr	intron (NM_133721, intron 7 of 27)	intron (NM_133721, intron 7 of 27)	-50096.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	4.0	2.5	1.0	25.0	8.0	9.0	6.0	6.0
Merged-chr2-4554958-4	chr2	4554847	4555047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 11 of 23)	(TTTTTG)n|Simple_repeat|Simple_repeat	-4807.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	43.5	47.0	27.5	610.0	80.0	32.0	52.5	42.5
Merged-chr9-99212859-4	chr9	99212732	99212932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	24407.0	NM_001244762	623459.0	Mm.260891	NM_001244762	ENSMUSG00000096316	Faiml	EG623459|Gm6432	Fas apoptotic inhibitory molecule like	protein-coding	79.0	117.0	71.0	924.0	201.0	70.5	72.0	93.0
Merged-chr5-43181664-4	chr5	43181569	43181769	+	972.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	intron (NR_028417, intron 5 of 7)	-51794.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	21.0	15.0	33.0	417.5	91.0	23.5	30.5	23.5
Merged-chr1-151917914-4	chr1	151917840	151918040	+	888.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 4 of 5)	intron (NM_197990, intron 4 of 5)	162566.0	NM_001311166	66967.0	Mm.337691	NM_001039644	ENSMUSG00000043019	Edem3	2310050N11Rik	ER degradation enhancer, mannosidase alpha-like 3	protein-coding	13.0	11.5	22.0	444.5	33.5	10.5	14.0	29.5
Merged-chr2-109278838-4	chr2	109278729	109278929	+	862.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029790)	promoter-TSS (NM_029790)	-539.0	NM_029790	76894.0	Mm.330451	NM_029790	ENSMUSG00000057234	Mettl15	0610027B03Rik|AI303697|AW049952|Mett5d1	methyltransferase like 15	protein-coding	5.0	8.0	9.0	100.5	32.5	6.0	10.0	11.0
Merged-chr3-38235587-3	chr3	38235480	38235680	+	685.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27461.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	7.0	10.5	8.0	108.0	8.5	2.0	5.5	0.5
Merged-chr14-55696781-4	chr14	55696706	55696906	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-14989.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	11.0	27.0	24.0	391.0	54.0	14.5	22.5	25.5
Merged-chr11-110970659-4	chr11	110970552	110970752	+	971.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010604, intron 1 of 1)	MIRb|SINE|MIR	2619.0	NM_001252207	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	28.5	24.5	19.5	397.0	50.0	16.5	15.5	14.0
Merged-chr16-92865592-4	chr16	92865499	92865699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39525.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	110.0	126.0	76.5	1500.0	201.0	78.0	69.5	57.5
Merged-chr5-141084498-4	chr5	141084406	141084606	+	983.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-83910.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	20.5	23.5	10.5	230.0	63.5	28.0	31.5	26.5
Merged-chr14-46742912-4	chr14	46742836	46743036	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-17605.0	NM_001360041	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	21.5	35.0	32.5	520.0	34.5	6.0	14.0	19.0
Merged-chr5-124623184-4	chr5	124623138	124623338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026486, intron 14 of 18)	intron (NM_026486, intron 14 of 18)	-5814.0	NM_011596	21871.0	Mm.1158	NM_011596	ENSMUSG00000038023	Atp6v0a2	8430408C20Rik|AI385560|ATP6a2|AW489264|Atp6n1d|Atp6n2|C76904|ISF|J6B7|SHIF|Stv1|TJ6M|TJ6s|Tj6|V-ATPase 116 kDa|V-ATPase a2	ATPase, H+ transporting, lysosomal V0 subunit A2	protein-coding	19.5	36.0	30.5	350.5	66.5	17.5	20.5	20.0
Merged-chr11-83020867-4	chr11	83020785	83020985	+	963.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167743)	promoter-TSS (NM_001167743)	-75.0	NM_181545	276950.0	Mm.491599	NM_181545	ENSMUSG00000035208	Slfn8	-	schlafen 8	protein-coding	20.5	28.0	7.5	265.0	59.0	17.0	12.0	22.5
Merged-chr5-74471967-4	chr5	74471865	74472065	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 3 of 8)	intron (NM_001114660, intron 3 of 8)	59777.0	NM_178672	212986.0	Mm.134147	NM_178672	ENSMUSG00000062110	Scfd2	E430013M20Rik|STXBP1L1	Sec1 family domain containing 2	protein-coding	17.5	16.0	19.0	277.5	69.0	19.0	17.5	17.5
Merged-chr7-104314894-3	chr7	104314806	104315006	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040749)	promoter-TSS (NR_040749)	-125.0	NR_040749	622070.0	Mm.486406	NR_040749	ENSMUSG00000087175	Gm15133	-	predicted gene 15133	ncRNA	0.0	0.0	0.0	0.0	204.5	70.5	65.0	66.5
Merged-chr12-32017776-4	chr12	32017672	32017872	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011158, intron 2 of 10)	intron (NM_011158, intron 2 of 10)	43507.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	9.5	9.5	15.5	141.5	48.5	28.5	33.5	34.5
Merged-chr1-184614925-4	chr1	184614808	184615008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57217.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	99.5	122.5	69.0	1078.0	193.0	75.0	72.0	86.0
Merged-chr5-113773490-2	chr5	113773390	113773590	+	835.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025526, intron 1 of 4)	intron (NM_025526, intron 1 of 4)	678.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	8.5	6.0	4.5	53.5	13.5	4.5	1.5	8.0
Merged-chr1-182504430-4	chr1	182504334	182504534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009794, intron 2 of 20)	intron (NM_009794, intron 2 of 20)	13176.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	66.0	183.0	72.5	982.5	172.5	78.0	85.5	74.5
Merged-chr18-33816791-3	chr18	33816625	33816825	+	981.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013512, intron 18 of 23)	intron (NM_013512, intron 18 of 23)	21833.0	NR_038151	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	3.0	5.5	10.5	73.5	13.5	4.5	13.0	9.0
Merged-chr6-71494491-2	chr6	71494391	71494591	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001308303, exon 1 of 4)	5' UTR (NM_001308303, exon 1 of 4)	614.0	NM_001308303	22644.0	Mm.422969	NM_009543	ENSMUSG00000052656	Rnf103	AW146237|AW212918|Zfp103|kf-1	ring finger protein 103	protein-coding	13.5	20.5	31.0	231.5	37.0	26.5	8.5	23.0
Merged-chr11-98777455-4	chr11	98777348	98777548	+	878.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2071.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	5.0	15.5	22.0	60.5	25.5	12.5	9.5	16.5
Merged-chr6-131293265-4	chr6	131293124	131293324	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025564)	promoter-TSS (NM_025564)	20.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	21.0	53.0	21.5	425.5	85.0	28.0	17.0	25.5
Merged-chr14-58563300-4	chr14	58563209	58563409	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	490623.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	19.0	43.5	15.0	248.0	138.0	42.5	64.5	46.0
Merged-chr6-122309893-4	chr6	122309781	122309981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010749, intron 1 of 6)	intron (NM_010749, intron 1 of 6)	1161.0	NM_010749	17113.0	Mm.249225	NM_010749	ENSMUSG00000007458	M6pr	CD-MPR|Mpr46	mannose-6-phosphate receptor, cation dependent	protein-coding	77.0	125.5	77.5	827.0	246.0	80.5	69.5	59.5
Merged-chr17-70968983-7	chr17	70968873	70969073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21543.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	26.5	46.5	9.0	248.5	81.0	14.5	25.5	36.0
Merged-chr11-114884129-4	chr11	114884020	114884220	+	930.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5921.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	20.0	26.0	19.0	221.5	29.5	16.5	13.0	10.0
Merged-chr12-85421007-4	chr12	85420923	85421123	+	860.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46306.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	20.5	24.0	12.0	151.0	28.0	9.5	16.0	6.5
Merged-chr5-135463581-4	chr5	135463504	135463704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	-69058.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	38.5	43.0	33.5	606.0	52.5	15.0	21.0	28.5
Merged-chr11-84179576-4	chr11	84179460	84179660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12084.0	NM_001037932	628813.0	Mm.390389	NM_001037932	ENSMUSG00000051452	Gm11437	AI463690	predicted gene 11437	protein-coding	333.0	444.5	303.5	3880.0	687.5	260.0	328.5	245.0
Merged-chr16-15862912-1	chr16	15862812	15863012	+	995.3333130000001	f0_balb.idr	exon (NM_029354, exon 1 of 3)	exon (NM_029354, exon 1 of 3)	457.0	NM_029354	72083.0	Mm.22351	NM_029354	ENSMUSG00000022671	Mzt2	2410018G20Rik|2610001E06Rik|Fam128|Fam128b	mitotic spindle organizing protein 2	protein-coding	12.0	20.5	20.0	227.5	35.5	13.0	16.5	23.0
Merged-chr2-124616031-13	chr2	124615707	124615907	+	836.211548	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	5511.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	8.0	11.5	8.0	76.0	26.5	8.0	9.0	11.5
Merged-chr4-155732781-4	chr4	155732661	155732861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026899, intron 4 of 4)	intron (NM_026899, intron 4 of 4)	-2043.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	47.5	97.5	62.5	1025.0	116.5	56.0	78.5	64.5
Merged-chr19-14598357-4	chr19	14598266	14598466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302950)	promoter-TSS (NM_001302950)	-183.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	473.0	758.5	546.5	6094.0	1077.5	453.5	509.0	349.0
Merged-chr11-83704556-2	chr11	83704456	83704656	+	816.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081957, intron 1 of 2)	intron (NM_001081957, intron 1 of 2)	500.0	NM_001081957	100034251.0	Mm.24097	NM_001081957	ENSMUSG00000069792	Wfdc17	Amwap|Gm11428	WAP four-disulfide core domain 17	protein-coding	5.5	11.0	6.0	55.0	28.5	2.0	4.0	3.5
Merged-chr10-80179583-1	chr10	80179483	80179683	+	629.0	f0_balb.idr	5' UTR (NM_007909, exon 1 of 4)	5' UTR (NM_007909, exon 1 of 4)	101.0	NM_007909	13637.0	Mm.1478	NM_007909	ENSMUSG00000003070	Efna2	CEK7L|Elf1|Epl6|Eplg6|Lerk6	ephrin A2	protein-coding	9.5	5.0	6.0	85.0	10.0	5.0	3.5	5.0
Merged-chr1-40087671-4	chr1	40087581	40087781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360800, intron 1 of 8)	MER5A|DNA|hAT-Charlie	1588.0	NM_001360800	16178.0	Mm.1349	NM_010555	ENSMUSG00000026073	Il1r2	CD121b|Il1r-2	interleukin 1 receptor, type II	protein-coding	39.5	71.5	48.5	588.5	107.5	44.0	58.5	60.5
Merged-chr2-131210421-4	chr2	131210279	131210479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291032)	promoter-TSS (NM_001291032)	19.0	NR_110992	69596.0	Mm.2937	NM_027129	ENSMUSG00000068264	Ap5s1	0610038L13Rik|2310035K24Rik|AW060727|sigma5	adaptor-related protein 5 complex, sigma 1 subunit	protein-coding	121.5	275.5	193.0	1989.0	413.5	192.0	185.5	218.0
Merged-chr3-51216167-2	chr3	51216067	51216267	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-8280.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	7.0	11.5	9.0	62.0	9.5	6.0	11.5	3.5
Merged-chr1-95668542-4	chr1	95668413	95668613	+	885.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009183)	promoter-TSS (NM_009183)	-919.0	NM_001159745	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	7.0	14.0	15.5	170.5	24.0	2.5	4.0	10.0
Merged-chr10-128186107-4	chr10	128186019	128186219	+	825.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5822.0	NM_001039080	56516.0	Mm.42247	NM_019711	ENSMUSG00000040043	Rbms2	2610315E04Rik|Scr3	RNA binding motif, single stranded interacting protein 2	protein-coding	17.0	16.5	5.0	85.0	14.0	5.5	20.5	3.0
Merged-chr8-110847501-1	chr8	110847401	110847601	+	765.0	f0_balb.idr	promoter-TSS (NM_133953)	promoter-TSS (NM_133953)	477.0	NM_133973	102339.0	Mm.272930	NM_133973	ENSMUSG00000031753	Cog4	AW554810|D8Ertd515e	component of oligomeric golgi complex 4	protein-coding	9.0	8.5	2.0	134.5	11.5	6.5	7.0	14.5
Merged-chr5-123907157-4	chr5	123907110	123907310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026603)	promoter-TSS (NM_026603)	-65.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	111.5	238.0	98.5	872.5	412.5	168.5	135.5	143.5
Merged-chr14-31166260-4	chr14	31166192	31166392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138672, intron 1 of 68)	intron (NM_138672, intron 1 of 68)	2349.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	181.0	199.5	229.0	2361.0	233.0	106.5	117.5	97.5
Merged-chr14-49022346-4	chr14	49022280	49022480	+	655.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207214, intron 13 of 17)	L2a|LINE|L2	-44169.0	NM_001360070	74385.0	Mm.379235	NM_144535	ENSMUSG00000036291	Ap5m1	4932432K03Rik|Mu5|Mudeng	adaptor-related protein complex 5, mu 1 subunit	protein-coding	4.0	4.0	9.0	73.5	5.0	10.5	7.5	9.5
Merged-chr6-29264541-4	chr6	29264451	29264651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7937.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	114.0	162.0	110.0	1431.0	240.0	88.5	95.5	101.0
Merged-chr9-64775666-4	chr9	64775568	64775768	+	965.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35343.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	36.5	38.0	57.5	785.5	14.5	19.0	24.0	12.0
Merged-chr2-150851465-4	chr2	150851352	150851552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 2 of 12)	intron (NR_151505, intron 2 of 12)	-8882.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	76.0	112.0	78.5	1965.0	175.5	31.5	83.5	83.0
Merged-chr2-168005883-3	chr2	168005768	168005968	+	797.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080708, intron 2 of 21)	intron (NM_001080708, intron 2 of 21)	4725.0	NM_001080708	69553.0	Mm.68454	NM_001080708	ENSMUSG00000074577	Ripor3	2310033K02Rik|Fam65c|Gm124	RIPOR family member 3	protein-coding	6.5	8.0	12.5	218.5	8.0	5.0	4.0	4.0
Merged-chr12-106030626-4	chr12	106030527	106030727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	intron (NM_001029843, intron 1 of 13)	20364.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	49.5	33.5	35.5	718.0	108.5	45.0	52.0	52.5
Merged-chr4-72165865-4	chr4	72165792	72165992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285531, intron 6 of 6)	intron (NM_001285531, intron 6 of 6)	35001.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	52.0	73.0	36.0	901.0	110.0	22.5	64.5	42.5
Merged-chr7-82802486-4	chr7	82802391	82802591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46847.0	NR_046004	77800.0	Mm.444811	NR_046004	ENSMUSG00000086690	4933406J10Rik	A930009F24Rik	RIKEN cDNA 4933406J10 gene	ncRNA	72.5	65.5	111.5	2005.5	262.0	63.5	92.5	89.0
Merged-chr2-145806888-4	chr2	145806766	145806966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	20750.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	26.5	30.0	47.0	388.5	57.5	22.5	31.5	20.5
Merged-chr10-91082094-4	chr10	91082003	91082203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027078)	promoter-TSS (NM_027078)	640.0	NM_001042558	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	24.0	36.0	39.0	503.0	107.5	27.5	52.0	60.0
Merged-chr13-48842443-4	chr13	48842347	48842547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011078, intron 1 of 21)	ORR1F|LTR|ERVL-MaLR	28438.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	47.0	67.5	29.5	1100.5	87.5	37.0	59.0	65.5
Merged-chr11-98358365-4	chr11	98358279	98358479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021547)	promoter-TSS (NM_021547)	11.0	NM_021547	59045.0	Mm.265546	NM_021547	ENSMUSG00000018167	Stard3	Mln64|es64	START domain containing 3	protein-coding	56.0	56.5	50.5	617.0	125.0	52.0	48.5	45.0
Merged-chr11-103418735-4	chr11	103418630	103418830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6066.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	50.5	131.0	100.5	1173.5	272.5	77.5	135.0	97.0
Merged-chr11-120467605-4	chr11	120467501	120467701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008244)	promoter-TSS (NM_008244)	-1.0	NM_197995	70317.0	Mm.485046	NM_197995	ENSMUSG00000057594	Arl16	2600005N12Rik	ADP-ribosylation factor-like 16	protein-coding	196.5	268.5	154.5	2251.5	422.5	178.0	166.0	153.0
Merged-chr10-120876421-4	chr10	120876328	120876528	+	925.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 1 of 6)	MLT1I|LTR|ERVL-MaLR	18799.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	21.5	27.0	28.0	259.0	24.5	6.5	9.5	10.5
Merged-chr15-78597042-4	chr15	78596951	78597151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028195)	promoter-TSS (NM_028195)	4.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	73.0	96.0	80.5	1196.0	174.5	54.5	74.0	57.5
Merged-chr6-142746948-4	chr6	142746858	142747058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9728.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	61.5	72.5	77.0	1278.0	189.0	51.0	67.0	93.0
Merged-chr19-42152158-4	chr19	42152072	42152272	+	917.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_183195)	TTS (NM_183195)	4783.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	14.5	17.5	11.5	230.0	35.0	12.5	12.0	20.0
Merged-chr11-61497806-4	chr11	61497704	61497904	+	692.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-3538.0	NM_001291034	23939.0	Mm.38172	NM_011841	ENSMUSG00000001034	Mapk7	BMK-1|BMK1|ERK-5|ERK5|Erk5-T|PRKM7|b2b2346Clo	mitogen-activated protein kinase 7	protein-coding	3.5	10.5	7.0	137.5	23.5	15.0	8.0	9.0
Merged-chr12-73667769-4	chr12	73667687	73667887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	82991.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	96.5	112.0	96.5	1336.5	210.0	60.5	86.0	82.5
Merged-chr10-127731587-3	chr10	127731466	127731666	+	762.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001199971, exon 8 of 8)	3' UTR (NM_001199971, exon 8 of 8)	6174.0	NM_009312	21334.0	Mm.2374	NM_009312	ENSMUSG00000025400	Tac2	PPT-B|Tac3	tachykinin 2	protein-coding	10.0	12.0	4.0	159.0	14.5	7.0	14.0	5.0
Merged-chr19-5425600-3	chr19	5425486	5425686	+	891.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024176)	promoter-TSS (NM_024176)	442.0	NM_001256515	107242.0	Mm.329658	NM_134149	ENSMUSG00000047423	AI837181	Bles03|N28173	expressed sequence AI837181	protein-coding	12.5	11.0	6.5	49.0	28.0	14.0	8.5	4.5
Merged-chr8-95713786-4	chr8	95713683	95713883	+	808.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001195006, exon 15 of 15)	3' UTR (NM_001195006, exon 15 of 15)	-2130.0	NM_001035123	66083.0	Mm.261321	NM_001035123	ENSMUSG00000031671	Setd6	0610039J04Rik|3110004G14Rik|AI413388|C76402	SET domain containing 6	protein-coding	5.0	16.5	5.0	133.0	37.5	13.0	9.5	11.0
Merged-chr2-165927542-2	chr2	165927451	165927651	+	694.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-42713.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	13.5	15.0	25.5	247.5	26.0	9.0	7.0	7.0
Merged-chr11-114669130-4	chr11	114669017	114669217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048058, intron 2 of 3)	CpG-2790	336.0	NM_001048058	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	34.0	76.5	25.5	483.0	118.0	49.0	49.5	49.5
Merged-chr18-9556046-4	chr18	9555951	9556151	+	938.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63418.0	NM_007593	26369.0	Mm.195831	NM_007593	ENSMUSG00000050996	Cetn1	caltractin	centrin 1	protein-coding	17.5	28.0	14.5	184.5	42.5	16.0	12.5	18.5
Merged-chr14-18893843-3	chr14	18893744	18893944	+	995.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360328)	promoter-TSS (NM_001360328)	-73.0	NM_144839	218793.0	Mm.23551	NM_144839	ENSMUSG00000058317	Ube2e2	BC016265	ubiquitin-conjugating enzyme E2E 2	protein-coding	16.5	31.0	13.0	502.0	15.0	6.0	11.5	8.5
Merged-chr5-34525808-4	chr5	34525700	34525900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011893)	promoter-TSS (NM_011893)	16.0	NM_011893	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	78.5	70.5	72.5	1390.0	218.5	69.5	107.5	88.0
Merged-chr7-83724737-4	chr7	83724607	83724807	+	836.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 1 of 18)	intron (NM_001360088, intron 1 of 18)	7691.0	NM_001360087	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	4.5	15.5	10.5	44.0	25.5	9.0	3.5	6.0
Merged-chr18-49834155-4	chr18	49834055	49834255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081371, intron 1 of 42)	intron (NM_001081371, intron 1 of 42)	1158.0	NM_001081371	240283.0	Mm.257790	NM_001081371	ENSMUSG00000037416	Dmxl1	C630007L23Rik|D030030C22	Dmx-like 1	protein-coding	67.5	63.0	91.0	1641.5	96.0	21.0	45.0	41.0
Merged-chr7-44850410-4	chr7	44850321	44850521	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_030488)	TTS (NR_030488)	414.0	NM_001253920	67605.0	Mm.148007	NM_026270	ENSMUSG00000011096	Akt1s1	1110012J22Rik|AI227026|Lobe|Lobel|PRAS40	AKT1 substrate 1 (proline-rich)	protein-coding	24.0	30.5	32.0	261.0	52.5	13.0	24.5	31.0
Merged-chr8-106060022-2	chr8	106059929	106060129	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_010901, intron 1 of 9)	CpG	426.0	NM_010901	18021.0	Mm.383185	NM_010901	ENSMUSG00000031902	Nfatc3	C80703|D8Ertd281e|NFAT4|NFATx	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3	protein-coding	22.0	39.0	21.5	300.0	42.5	32.5	21.0	25.5
Merged-chr6-39007337-4	chr6	39007207	39007407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 5 of 12)	L2c|LINE|L2	60279.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	31.0	63.5	33.0	734.0	70.0	30.5	54.0	44.5
Merged-chr4-130902390-4	chr4	130902278	130902478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10956.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	45.0	50.0	69.5	1268.0	97.0	27.0	41.5	47.5
Merged-chr4-41356937-4	chr4	41356835	41357035	+	841.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355508, intron 1 of 6)	B4|SINE|B4	4972.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	7.0	9.0	11.0	141.0	21.0	7.0	8.5	5.5
Merged-chr14-31376114-4	chr14	31376024	31376224	+	921.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 6 of 7)	intron (NM_001347585, intron 6 of 7)	39486.0	NM_009796	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	14.0	10.0	12.0	237.0	47.5	10.0	16.0	13.0
Merged-chr5-105732194-4	chr5	105732080	105732280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	CpG	31370.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	25.0	40.5	27.0	487.5	76.0	23.5	23.5	30.0
Merged-chr10-118038550-3	chr10	118038455	118038655	+	953.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103232.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	11.5	6.5	7.5	215.0	2.5	0.0	0.0	1.0
Merged-chr11-70650595-4	chr11	70650500	70650700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316728, intron 8 of 9)	intron (NM_001316728, intron 8 of 9)	3313.0	NM_027445	70510.0	Mm.261818	NM_027445	ENSMUSG00000040746	Rnf167	0610010G05Rik|5730408C10Rik|AU019305|AV328608	ring finger protein 167	protein-coding	23.5	29.0	12.5	226.0	51.0	21.5	23.0	8.5
Merged-chr1-165587895-4	chr1	165587800	165588000	+	910.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46641.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	31.0	16.5	28.5	662.0	12.5	7.0	13.0	19.5
Merged-chr13-45031931-4	chr13	45031835	45032035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29839.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	33.5	40.5	41.5	891.0	46.5	18.0	30.0	26.0
Merged-chr4-132883823-4	chr4	132883761	132883961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133887, intron 1 of 8)	intron (NM_133887, intron 1 of 8)	597.0	NM_133887	100226.0	Mm.28237	NM_133887	ENSMUSG00000028879	Stx12	AI850350|AU041521|Stx13	syntaxin 12	protein-coding	26.5	23.0	26.0	517.0	56.0	14.0	45.0	27.0
Merged-chr5-129670126-4	chr5	129670039	129670239	+	817.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172462)	promoter-TSS (NM_172462)	-51.0	NM_172462	22648.0	Mm.135067	NM_172462	ENSMUSG00000051034	Zfp11	6720465D24|Krox-6|Zfp-11	zinc finger protein 11	protein-coding	8.5	21.0	5.5	174.0	21.5	13.5	15.0	14.5
Merged-chr8-56615264-4	chr8	56615151	56615351	+	767.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64117.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	9.0	16.5	20.5	147.0	19.0	9.0	13.0	11.5
Merged-chr15-74960940-4	chr15	74960844	74961044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5838.0	NM_001164040	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	73.5	96.5	52.0	954.0	201.0	52.0	64.0	95.5
Merged-chr14-64627346-4	chr14	64627254	64627454	+	962.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-25177.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	41.0	62.5	34.5	581.0	34.5	3.5	11.0	10.5
Merged-chr7-145112600-4	chr7	145112497	145112697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95522.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	97.5	128.5	94.5	1705.0	202.0	69.5	97.5	74.5
Merged-chr6-120197010-3	chr6	120196886	120197086	+	710.833374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347432, intron 1 of 3)	intron (NM_001347432, intron 1 of 3)	3163.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	9.0	9.5	6.5	104.0	8.5	4.0	3.5	12.0
Merged-chr11-103308084-4	chr11	103307990	103308190	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	36612.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	13.5	32.0	19.5	483.5	41.0	16.0	18.0	17.5
Merged-chr10-117846077-4	chr10	117846007	117846207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024457)	promoter-TSS (NM_024457)	-133.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	189.5	285.0	181.5	2821.0	497.0	214.5	247.0	215.5
Merged-chr4-84545375-3	chr4	84545289	84545489	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172870, intron 2 of 5)	CpG	129697.0	NM_172870	242509.0	Mm.190774	NM_172870	ENSMUSG00000028487	Bnc2	5031434M05Rik|8430420F16Rik	basonuclin 2	protein-coding	18.5	30.0	33.5	240.0	20.0	5.0	15.0	19.0
Merged-chr11-59537640-2	chr11	59537540	59537740	+	859.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3929.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	5.0	5.0	5.0	49.5	10.0	5.5	0.5	2.5
Merged-chr11-44425942-3	chr11	44425813	44426013	+	881.833374	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25850.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	0.0	1.0	2.0	52.0	42.0	11.0	10.5	20.5
Merged-chr5-34660264-4	chr5	34660154	34660354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029278)	promoter-TSS (NM_029278)	-106.0	NM_029278	75416.0	Mm.40292	NM_029278	ENSMUSG00000036693	Nop14	2610033H07Rik|Nol14	NOP14 nucleolar protein	protein-coding	230.0	386.5	231.0	2987.0	675.5	285.0	239.0	228.0
Merged-chr15-38074721-2	chr15	38074608	38074808	+	559.5	f0_balb.idr|f1_balb.idr	intron (NM_001112721, intron 1 of 58)	intron (NM_001112721, intron 1 of 58)	4146.0	NM_001112721	70790.0	Mm.476840	NM_027553	ENSMUSG00000037487	Ubr5	Edd|Edd1	ubiquitin protein ligase E3 component n-recognin 5	protein-coding	6.0	8.0	7.0	78.5	26.0	2.0	4.0	5.0
Merged-chr12-85123250-4	chr12	85123147	85123347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030225, intron 9 of 14)	intron (NM_030225, intron 9 of 14)	12414.0	NM_030225	78920.0	Mm.296221	NM_030225	ENSMUSG00000004789	Dlst	1600017E01Rik|4632413C10Rik|4930529O08Rik|DLTS	dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)	protein-coding	55.0	66.0	62.0	1099.5	61.0	22.5	48.5	30.5
Merged-chr5-93032850-3	chr5	93032762	93032962	+	820.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	12160.0	NM_175270	78088.0	Mm.245085	NM_175270	ENSMUSG00000045314	Sowahb	5730467H21Rik|Ankrd56	sosondowah ankyrin repeat domain family member B	protein-coding	26.0	31.0	50.0	500.5	22.5	5.5	3.0	11.0
Merged-chr8-46852670-6	chr8	46852567	46852767	+	958.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112922.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	9.5	9.5	16.0	186.0	19.5	14.0	12.0	8.0
Merged-chr4-126259173-2	chr4	126259073	126259273	+	992.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-2854.0	NM_001145970	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	2.0	3.0	0.5	13.5	6.0	4.5	9.0	7.0
Merged-chr8-84701384-4	chr8	84701272	84701472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008535)	promoter-TSS (NM_008535)	-85.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	51.5	44.0	39.0	562.0	87.5	31.0	26.5	44.0
Merged-chr16-30385671-4	chr16	30385603	30385803	+	922.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128096, intron 2 of 33)	intron (NM_001128096, intron 2 of 33)	2827.0	NM_001128094	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	12.5	17.0	12.0	224.5	40.0	9.5	10.0	10.5
Merged-chr14-56885405-4	chr14	56885294	56885494	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1209.0	NM_177627	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	26.5	51.0	19.0	203.0	82.5	32.5	18.0	40.0
Merged-chr14-26437775-4	chr14	26437674	26437874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 16 of 22)	intron (NM_001310445, intron 16 of 22)	80227.0	NR_038005	71106.0	Mm.158564	NR_038005	ENSMUSG00000021874	4933413J09Rik	GCSE	RIKEN cDNA 4933413J09 gene	ncRNA	89.5	156.0	107.5	1588.5	144.0	68.0	93.0	73.0
Merged-chr5-64391614-4	chr5	64391530	64391730	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76312.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	77.5	83.5	54.0	959.5	67.5	20.5	24.0	11.5
Merged-chr19-6243037-1	chr19	6242937	6243137	+	584.0	f0_balb.idr	intron (NM_194348, intron 1 of 39)	intron (NM_194348, intron 1 of 39)	1369.0	NM_194348	329015.0	Mm.277384	NM_194348	ENSMUSG00000024773	Atg2a	1810013C15Rik|A830054M12|BC023754|mKIAA0404	autophagy related 2A	protein-coding	5.5	8.0	6.0	78.5	18.0	4.5	6.0	17.5
Merged-chr9-123539289-4	chr9	123539172	123539372	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357485, intron 1 of 19)	intron (NM_001357485, intron 1 of 19)	9519.0	NM_030692	83493.0	Mm.273671	NM_030692	ENSMUSG00000025240	Sacm1l	SAC1|Sac1p|mKIAA0851	SAC1 suppressor of actin mutations 1-like (yeast)	protein-coding	7.0	14.5	5.5	116.0	43.0	15.5	14.0	14.0
Merged-chr3-116206127-3	chr3	116206034	116206234	+	814.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47350.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	8.0	19.0	28.5	604.0	22.0	9.5	5.5	18.0
Merged-chr14-59598000-4	chr14	59597902	59598102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168535)	promoter-TSS (NM_001168535)	-43.0	NM_001168536	71891.0	Mm.439850	NM_027986	ENSMUSG00000021982	Cdadc1	2310010M10Rik|AI449174|AI463398|BB130816|NYD-SP15	cytidine and dCMP deaminase domain containing 1	protein-coding	62.0	87.5	30.0	861.5	150.5	82.5	70.5	81.5
Merged-chr4-136185577-4	chr4	136185493	136185693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177733, intron 5 of 6)	intron (NM_177733, intron 5 of 6)	4811.0	NM_001305399	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	23.5	45.5	16.0	360.5	85.0	30.5	34.5	26.5
Merged-chr11-44470574-4	chr11	44470458	44470658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024475)	promoter-TSS (NM_024475)	-10.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	125.0	214.5	138.5	1746.0	315.0	132.0	145.0	115.5
Merged-chr11-3267268-2	chr11	3267168	3267368	+	663.375	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007879)	promoter-TSS (NM_007879)	-805.0	NM_007879	13494.0	Mm.3250	NM_007879	ENSMUSG00000020457	Drg1	AA408859|AI132520|DRG-1|NEDD-3|Nedd3	developmentally regulated GTP binding protein 1	protein-coding	4.0	6.5	7.0	49.5	9.5	9.5	4.5	7.5
Merged-chr2-74825889-4	chr2	74825811	74826011	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016804)	promoter-TSS (NM_016804)	99.0	NM_016804	53375.0	Mm.292613	NM_016804	ENSMUSG00000027099	Mtx2	1500012G02Rik	metaxin 2	protein-coding	20.5	16.0	31.0	420.0	45.5	14.5	19.5	27.5
Merged-chr11-107482616-2	chr11	107482534	107482734	+	938.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_025894, intron 1 of 10)	intron (NM_025894, intron 1 of 10)	3106.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	5.0	5.0	5.5	102.5	15.0	12.0	11.5	10.5
Merged-chr3-146177931-4	chr3	146177853	146178053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 7 of 13)	intron (NM_001005846, intron 7 of 13)	27779.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	25.5	26.5	18.0	284.0	44.0	27.5	15.0	29.5
Merged-chr3-132087255-4	chr3	132087181	132087381	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	intron (NM_020265, intron 1 of 3)	1989.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	29.5	25.0	29.5	240.0	8.0	13.0	7.0	16.0
Merged-chr6-34619663-4	chr6	34619545	34619745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	intron (NM_001347100, intron 1 of 13)	21141.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	36.5	39.5	43.5	651.5	143.0	42.0	42.0	59.5
Merged-chr11-51619623-4	chr11	51619538	51619738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026631)	promoter-TSS (NM_026631)	-135.0	NM_026631	52530.0	Mm.28203	NM_026631	ENSMUSG00000001056	Nhp2	2410130M07Rik|D11Ertd175e|Nola2	NHP2 ribonucleoprotein	protein-coding	192.5	343.0	123.5	1815.5	597.0	285.5	198.5	199.5
Merged-chr2-124610440-4	chr2	124610320	124610520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172537, exon 1 of 17)	5' UTR (NM_172537, exon 1 of 17)	124.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	268.0	319.0	404.0	5347.0	563.0	185.5	383.0	261.0
Merged-chr3-96661031-4	chr3	96660897	96661097	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302471, intron 27 of 29)	intron (NM_001302471, intron 27 of 29)	-9134.0	NM_001356539	213121.0	Mm.39732	NM_001081139	ENSMUSG00000038354	Ankrd35	4732436F15Rik	ankyrin repeat domain 35	protein-coding	20.5	52.5	25.0	221.0	44.0	13.0	16.5	20.5
Merged-chr2-80617578-1	chr2	80617478	80617678	+	551.0	f0_balb.idr	exon (NM_024438, exon 1 of 4)	exon (NM_024438, exon 1 of 4)	364.0	NM_024438	68082.0	Mm.306818	NM_024438	ENSMUSG00000027001	Dusp19	5930436K22Rik|C79103|SKRP1|TS-DSP1	dual specificity phosphatase 19	protein-coding	9.5	15.0	12.0	78.5	8.0	8.5	8.5	9.0
Merged-chr10-120166030-4	chr10	120165931	120166131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 7 of 11)	intron (NM_001359184, intron 7 of 11)	35566.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	24.0	41.5	18.5	179.5	180.5	48.0	99.5	62.0
Merged-chr3-9829247-4	chr3	9829165	9829365	+	837.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	MIRb|SINE|MIR	4414.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	9.5	12.5	9.5	116.0	34.5	8.5	12.5	8.5
Merged-chr4-141507077-4	chr4	141506990	141507190	+	817.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	31507.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	13.5	9.0	3.0	103.0	26.0	8.5	10.5	22.0
Merged-chr17-57228216-4	chr17	57228091	57228291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009778)	promoter-TSS (NM_009778)	-55.0	NM_009778	12266.0	Mm.19131	NM_009778	ENSMUSG00000024164	C3	AI255234|ASP|HSE-MSF|Plp	complement component 3	protein-coding	55.0	108.5	51.5	509.0	235.5	62.5	65.0	45.5
Merged-chr10-127668244-4	chr10	127668134	127668334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045171, intron 1 of 1)	intron (NR_045171, intron 1 of 1)	1111.0	NR_045171	72243.0	Mm.482902	NR_045171	ENSMUSG00000040195	1700012D01Rik	-	RIKEN cDNA 1700012D01 gene	ncRNA	44.0	75.0	50.0	525.0	178.5	74.5	89.0	80.5
Merged-chr4-101685348-4	chr4	101685259	101685459	+	976.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32048.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	22.0	27.5	15.0	152.5	91.0	41.5	48.0	36.0
Merged-chr5-96807419-4	chr5	96807340	96807540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013470, intron 2 of 12)	intron (NM_013470, intron 2 of 12)	14055.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	51.0	69.0	32.5	677.5	108.0	33.5	61.5	60.0
Merged-chr9-13761145-3	chr9	13761039	13761239	+	780.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_024025, intron 1 of 15)	ID_B1|SINE|B4	11958.0	NM_023858	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	10.0	14.0	12.5	258.5	4.0	7.0	7.0	11.5
Merged-chr6-89312680-3	chr6	89312564	89312764	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26939.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	11.0	7.0	8.5	153.5	8.5	2.0	2.5	3.0
Merged-chr11-23810988-3	chr11	23810893	23811093	+	818.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40023.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	5.5	7.5	7.5	83.0	6.5	3.5	12.5	8.0
Merged-chr19-10914512-4	chr19	10914405	10914605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009580, intron 11 of 11)	intron (NM_009580, intron 11 of 11)	6096.0	NM_009580	22786.0	Mm.24767	NM_009580	ENSMUSG00000024734	Zp1	-	zona pellucida glycoprotein 1	protein-coding	38.5	105.5	44.0	514.0	117.0	40.5	53.0	39.5
Merged-chr15-99045086-4	chr15	99045005	99045205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-10069.0	NM_001163588	19132.0	Mm.2477	NM_013639	ENSMUSG00000023484	Prph	Prph1	peripherin	protein-coding	23.5	50.5	22.0	417.5	43.0	35.5	20.0	21.0
Merged-chr2-129626071-4	chr2	129625973	129626173	+	949.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355158, intron 7 of 8)	intron (NM_001355158, intron 7 of 8)	30611.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	18.5	18.0	7.0	232.0	30.5	9.0	33.0	17.0
Merged-chr4-98923299-4	chr4	98923196	98923396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146144)	promoter-TSS (NM_146144)	-514.0	NM_001301414	230484.0	Mm.371692	NM_146144	ENSMUSG00000028560	Usp1	-	ubiquitin specific peptidase 1	protein-coding	421.0	677.0	440.5	6837.5	1037.5	466.5	495.5	449.0
Merged-chr10-44146880-3	chr10	44146772	44146972	+	766.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23575.0	NR_001582	70365.0	Mm.87073	NR_001582	ENSMUSG00000091358	Speer5-ps1	1700007C10Rik|SPEER-5|Speer5-ps	spermatogenesis associated glutamate (E)-rich protein 5, pseudogene 1	pseudo	7.5	4.0	5.0	86.5	12.0	4.5	8.0	4.5
Merged-chr2-154374220-4	chr2	154374120	154374320	+	916.1375119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1501.0	NM_025876	66971.0	Mm.289427	NM_025876	ENSMUSG00000027487	Cdk5rap1	2310066P17Rik	CDK5 regulatory subunit associated protein 1	protein-coding	13.0	29.0	19.0	153.0	36.5	13.5	12.5	7.5
Merged-chr10-59235371-4	chr10	59235276	59235476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	13454.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	30.0	59.0	46.0	522.5	67.0	36.5	26.5	39.5
Merged-chr2-129175809-4	chr2	129175728	129175928	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4845.0	NR_045264	100048701.0	Mm.428544	NR_045264	ENSMUSG00000084826	AI847159	-	expressed sequence AI847159	ncRNA	23.5	34.5	13.5	346.0	85.5	28.5	20.5	33.5
Merged-chr16-11000040-4	chr16	10999947	11000147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6926.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	207.5	323.5	310.5	3419.0	407.5	124.5	234.5	165.5
Merged-chr8-72836096-4	chr8	72835975	72836175	+	953.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317391, intron 13 of 15)	intron (NM_001317391, intron 13 of 15)	74416.0	NM_007975	14065.0	Mm.12948	NM_007975	ENSMUSG00000050147	F2rl3	PAR4	coagulation factor II (thrombin) receptor-like 3	protein-coding	16.5	22.0	14.5	351.0	48.0	14.0	35.0	20.0
Merged-chr12-33017009-4	chr12	33016892	33017092	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58B|DNA|hAT-Charlie	62806.0	NM_198710	19027.0	Mm.246304	NM_013635	ENSMUSG00000020570	Sypl	AI314763|AI604763|D12Ertd446e|PanI|Pphn|Sypl1	synaptophysin-like protein	protein-coding	9.0	7.5	13.0	154.0	31.5	7.0	8.5	15.0
Merged-chr9-70421571-4	chr9	70421452	70421652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007630)	promoter-TSS (NM_007630)	2.0	NM_007630	12442.0	Mm.22592	NM_007630	ENSMUSG00000032218	Ccnb2	CycB2	cyclin B2	protein-coding	41.5	50.0	27.0	244.5	73.0	35.0	36.0	36.5
Merged-chr7-27474704-4	chr7	27474610	27474810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133210, intron 1 of 1)	intron (NM_133210, intron 1 of 1)	870.0	NM_133210	170742.0	Mm.200120	NM_133210	ENSMUSG00000055200	Sertad3	AW124805|D1Mgi51|Rbt1|Sei3	SERTA domain containing 3	protein-coding	221.5	312.0	197.5	3109.0	464.5	168.5	245.0	187.5
Merged-chr7-3693665-4	chr7	3693584	3693784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029934)	promoter-TSS (NM_029934)	74.0	NM_001164205	66078.0	Mm.379100	NM_024168	ENSMUSG00000035585	Tsen34	0610027F08Rik|Leng5	tRNA splicing endonuclease subunit 34	protein-coding	129.5	222.5	120.0	2360.0	329.0	94.5	164.5	120.0
Merged-chr12-70227728-4	chr12	70227621	70227821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045174)	promoter-TSS (NR_045174)	-38.0	NM_133198	110095.0	Mm.256926	NM_133198	ENSMUSG00000021069	Pygl	-	liver glycogen phosphorylase	protein-coding	133.5	182.5	123.0	2261.0	293.5	92.5	132.5	102.0
Merged-chr6-137302749-4	chr6	137302657	137302857	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 1 of 26)	intron (NM_011216, intron 1 of 26)	50458.0	NM_001164401	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	6.0	18.5	14.0	258.0	60.0	9.5	32.5	37.5
Merged-chr7-110727253-2	chr7	110727153	110727353	+	724.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40953.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	9.0	9.0	6.0	46.0	8.0	11.5	5.0	2.5
Merged-chr10-62324046-4	chr10	62323925	62324125	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 4 of 21)	Lx5b|LINE|L1	16396.0	NM_001146100	15275.0	Mm.196605	NM_010438	ENSMUSG00000037012	Hk1	BB404130|Hk-1|Hk1-s|dea|mHk1-s	hexokinase 1	protein-coding	7.5	31.0	16.5	252.5	48.5	15.0	27.0	25.5
Merged-chr5-14049226-3	chr5	14049131	14049331	+	949.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011348, intron 1 of 16)	L3|LINE|CR1	23955.0	NM_011348	20349.0	Mm.134093	NM_011348	ENSMUSG00000063531	Sema3e	6430702L12|AA408817|Semah|mKIAA0331	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E	protein-coding	14.0	16.0	8.5	152.5	8.5	1.5	2.0	1.0
Merged-chr9-124014367-1	chr9	124014267	124014467	+	878.6666869999999	f0_balb.idr	Intergenic	Intergenic	-7604.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	12.0	6.0	13.5	164.5	5.0	3.5	2.0	2.0
Merged-chr6-135296539-4	chr6	135296436	135296636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13848.0	NM_029595	76400.0	Mm.293018	NM_029595	ENSMUSG00000047104	Pbp2	1700023A18Rik|AI326308|Pebp-2|Pebp2	phosphatidylethanolamine binding protein 2	protein-coding	97.0	120.0	100.5	1491.5	182.0	83.0	100.0	92.0
Merged-chr17-26506228-4	chr17	26506121	26506321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013642, exon 4 of 4)	3' UTR (NM_013642, exon 4 of 4)	2251.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	103.0	111.5	122.0	1389.5	178.5	101.5	121.5	78.5
Merged-chr13-5769858-4	chr13	5769745	5769945	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88247.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	23.0	36.5	22.0	310.5	31.0	11.0	17.0	11.5
Merged-chr9-107986575-4	chr9	107986470	107986670	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026597)	promoter-TSS (NM_026597)	-654.0	NM_026597	68176.0	Mm.76166	NM_026597	ENSMUSG00000042106	Fam212a	6230427J02Rik|Inka1	family with sequence similarity 212, member A	protein-coding	17.0	25.0	10.5	119.0	54.5	21.0	20.0	10.5
Merged-chr3-84679075-4	chr3	84678981	84679181	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 1 of 6)	intron (NM_177260, intron 1 of 6)	12889.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	20.0	39.0	44.0	892.0	48.5	14.0	21.0	40.0
Merged-chr4-133451744-4	chr4	133451654	133451854	+	793.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28379.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	11.0	13.0	5.0	85.0	24.0	8.0	7.0	5.5
Merged-chr10-80245860-4	chr10	80245774	80245974	+	962.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023431)	TTS (NM_023431)	-3578.0	NM_029272	75406.0	Mm.28712	NM_029272	ENSMUSG00000020153	Ndufs7	1010001M04Rik	NADH dehydrogenase (ubiquinone) Fe-S protein 7	protein-coding	10.0	23.5	3.0	241.5	43.0	18.5	7.5	19.0
Merged-chr1-85809460-4	chr1	85809352	85809552	+	811.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355046, intron 2 of 9)	intron (NM_001355046, intron 2 of 9)	15435.0	NM_001355047	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	15.0	27.0	16.0	397.5	59.5	15.5	14.0	27.5
Merged-chr16-21687525-4	chr16	21687431	21687631	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	Lx8|LINE|L1	7134.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	11.0	11.5	11.0	129.0	31.5	13.0	6.5	8.5
Merged-chr4-53232591-1	chr4	53232491	53232691	+	742.0	f0_balb.idr	Intergenic	Intergenic	-13605.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	6.0	8.5	7.5	189.0	12.0	10.0	2.5	7.0
Merged-chr5-28311069-1	chr5	28310969	28311169	+	671.5	f0_c57.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-6120.0	NM_028234	381626.0	Mm.304075	NM_028234	ENSMUSG00000048271	Rbm33	3200001K10Rik|6430512A10Rik|AA386890|Prr8	RNA binding motif protein 33	protein-coding	3.0	0.5	3.5	31.0	28.5	10.5	5.0	13.5
Merged-chr5-105059826-2	chr5	105059726	105059926	+	719.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6265.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	5.0	3.0	6.0	46.0	11.0	10.5	7.0	10.5
Merged-chr6-7844614-4	chr6	7844494	7844694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_052993)	promoter-TSS (NM_052993)	-630.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	282.0	465.0	309.0	4180.0	755.0	286.0	436.0	238.5
Merged-chr1-39576026-5	chr1	39575936	39576136	+	905.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033135, intron 1 of 6)	intron (NM_001033135, intron 1 of 6)	1311.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	8.0	5.5	33.0	243.5	36.5	5.0	15.0	17.5
Merged-chr6-73709804-4	chr6	73709722	73709922	+	816.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-238801.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	8.5	20.0	14.0	393.0	26.5	12.0	15.0	9.0
Merged-chr19-29494589-4	chr19	29494511	29494711	+	971.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	27376.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	13.0	32.0	21.0	249.0	44.0	24.0	21.0	23.5
Merged-chr11-69586074-4	chr11	69585950	69586150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127233, intron 1 of 10)	intron (NM_001127233, intron 1 of 10)	5691.0	NM_001127233	22059.0	Mm.222	NM_011640	ENSMUSG00000059552	Trp53	Tp53|bbl|bfy|bhy|p44|p53	transformation related protein 53	protein-coding	93.5	118.5	44.5	963.0	149.0	75.5	77.0	67.5
Merged-chr6-137747669-4	chr6	137747538	137747738	+	901.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011499, intron 7 of 9)	intron (NM_011499, intron 7 of 9)	-6939.0	NM_172733	232449.0	Mm.29181	NM_172733	ENSMUSG00000030225	Dera	2010002D22Rik|2500002K03Rik|DEOC	deoxyribose-phosphate aldolase (putative)	protein-coding	9.0	5.5	5.0	98.0	20.0	7.0	8.0	8.0
Merged-chr4-130799238-9	chr4	130799213	130799413	+	883.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	6776.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	13.5	12.0	28.5	340.5	22.5	10.5	25.0	24.5
Merged-chr11-98787538-2	chr11	98787438	98787638	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7978.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	3.0	7.0	3.5	38.5	13.5	7.0	6.0	6.5
Merged-chr2-57116785-4	chr2	57116689	57116889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 1 of 7)	CpG	-1751.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	67.0	99.5	128.5	2050.5	254.5	80.0	208.0	148.5
Merged-chr3-89393788-4	chr3	89393695	89393895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040404)	promoter-TSS (NR_040404)	-417.0	NM_009565	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	187.0	252.5	163.5	2449.0	460.0	176.0	269.0	172.0
Merged-chr11-4202582-4	chr11	4202481	4202681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	B3|SINE|B2	-15670.0	NM_028022	71962.0	Mm.7852	NM_028022	ENSMUSG00000020424	Gatsl3	2410008K03Rik|Castor1	GATS protein-like 3	protein-coding	38.5	57.0	36.5	672.0	99.0	23.0	48.5	28.0
Merged-chr18-5592727-4	chr18	5592630	5592830	+	816.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033552)	promoter-TSS (NR_033552)	83.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	6.5	19.5	14.0	175.5	24.0	5.5	14.5	7.0
Merged-chr15-3232757-4	chr15	3232658	3232858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38009.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	35.5	19.5	28.5	774.0	44.0	10.0	18.5	25.5
Merged-chr8-120179185-4	chr8	120179068	120179268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1699.0	NM_001033980	436062.0	Mm.334852	NM_001033980	ENSMUSG00000042269	Fam92b	1700120B06Rik	family with sequence similarity 92, member B	protein-coding	35.0	53.5	68.5	422.0	67.5	39.5	25.0	21.5
Merged-chr5-92525099-4	chr5	92524951	92525151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19394.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	68.0	64.0	71.5	1461.5	137.0	32.5	60.0	55.5
Merged-chr16-58521416-2	chr16	58521316	58521516	+	747.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	intron (NM_001357433, intron 1 of 10)	2010.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	4.0	17.5	6.5	69.5	15.5	6.0	5.0	8.0
Merged-chr13-81107641-4	chr13	81107547	81107747	+	896.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	143573.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	20.0	10.5	16.0	217.0	21.0	6.0	15.5	18.0
Merged-chr6-124854906-3	chr6	124854816	124855016	+	947.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013534, exon 4 of 15)	exon (NM_013534, exon 4 of 15)	2771.0	NM_013534	14789.0	Mm.35708	NM_013534	ENSMUSG00000023191	P3h3	BC016431|Grcb|Leprel2	prolyl 3-hydroxylase 3	protein-coding	12.5	12.5	14.5	208.0	15.0	9.5	7.5	16.5
Merged-chr9-67838935-3	chr9	67838832	67839032	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-1464.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	30.0	25.5	22.0	308.0	24.5	3.5	7.0	8.0
Merged-chr17-67343133-4	chr17	67343049	67343249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	11310.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	140.0	231.5	202.0	2610.0	328.5	126.5	124.5	134.5
Merged-chr14-66868746-4	chr14	66868653	66868853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009955)	promoter-TSS (NM_009955)	-97.0	NM_001034881	432870.0	Mm.425890	NM_001034881	ENSMUSG00000075553	Gm5464	EG432870	predicted gene 5464	protein-coding	161.0	194.5	123.5	2285.5	378.5	160.5	177.0	159.5
Merged-chr13-49341501-4	chr13	49341415	49341615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029791)	promoter-TSS (NM_029791)	-34.0	NM_001039179	76895.0	Mm.197387	NM_029791	ENSMUSG00000037933	Bicd2	-	BICD cargo adaptor 2	protein-coding	156.0	271.5	160.5	2776.0	439.5	175.5	248.0	182.5
Merged-chr2-90749850-4	chr2	90749765	90749965	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018828, intron 2 of 16)	ORR1B1|LTR|ERVL-MaLR	4495.0	NM_018828	55935.0	Mm.489638	NM_018828	ENSMUSG00000008200	Fnbp4	FBP30|Fnbp30|mKIAA1014	formin binding protein 4	protein-coding	6.5	31.0	9.5	339.5	65.0	18.5	19.0	32.0
Merged-chr2-27732999-3	chr2	27732899	27733099	+	891.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	22416.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	12.5	8.0	8.0	70.5	43.0	11.0	11.5	9.5
Merged-chr9-111731975-3	chr9	111731874	111732074	+	763.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41626.0	NM_001324546	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	10.5	28.5	20.0	274.0	5.0	2.0	1.0	3.5
Merged-chr5-139380566-4	chr5	139380464	139380664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030258)	promoter-TSS (NM_030258)	-75.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	154.5	219.0	127.5	2170.5	281.5	101.5	125.5	115.0
Merged-chr3-19628222-4	chr3	19628136	19628336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16224.0	NM_001081281	381485.0	Mm.35419	NM_001081281	ENSMUSG00000060913	Trim55	D830041C10Rik|Murf2|Rnf29	tripartite motif-containing 55	protein-coding	60.5	78.5	54.0	882.5	149.0	88.5	64.0	71.0
Merged-chr2-136680013-1	chr2	136679913	136680113	+	875.25	f0_balb.idr	Intergenic	Intergenic	-33437.0	NM_011428	20614.0	Mm.45953	NM_011428	ENSMUSG00000027273	Snap25	Bdr|GENA70|SNAP-25|SUP|sp	synaptosomal-associated protein 25	protein-coding	23.5	13.5	13.5	289.0	2.0	4.0	3.0	4.0
Merged-chr7-102313366-3	chr7	102313276	102313476	+	629.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 1 of 11)	intron (NM_009287, intron 1 of 11)	45552.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	5.5	10.0	4.5	76.5	7.5	12.5	15.5	10.0
Merged-chr17-47884973-1	chr17	47884873	47885073	+	624.0	f1_c57bl6.idr	intron (NM_028767, intron 3 of 16)	ID_B1|SINE|B4	39659.0	NM_028767	74123.0	Mm.240062	NM_028767	ENSMUSG00000023991	Foxp4	1200010K03Rik|2310007G05Rik|mFKHLA	forkhead box P4	protein-coding	7.0	11.0	10.5	102.5	2.5	0.0	2.0	1.0
Merged-chr14-121873347-4	chr14	121873249	121873449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4921.0	NR_131002	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	77.0	49.5	50.0	835.0	70.5	50.0	67.5	51.5
Merged-chr8-34849048-3	chr8	34848949	34849149	+	744.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 18 of 26)	intron (NM_175091, intron 18 of 26)	41439.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	10.0	7.5	7.5	205.5	9.5	0.0	2.0	1.5
Merged-chr14-49063066-4	chr14	49062968	49063168	+	894.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207214, intron 1 of 17)	intron (NM_207214, intron 1 of 17)	-3481.0	NM_001360070	74385.0	Mm.379235	NM_144535	ENSMUSG00000036291	Ap5m1	4932432K03Rik|Mu5|Mudeng	adaptor-related protein complex 5, mu 1 subunit	protein-coding	23.5	25.5	7.5	174.0	30.0	4.5	9.0	12.5
Merged-chr8-54562346-4	chr8	54562246	54562446	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029569, intron 1 of 6)	intron (NM_029569, intron 1 of 6)	12015.0	NM_029569	76294.0	Mm.33171	NM_029569	ENSMUSG00000031519	Asb5	1110018D09Rik	ankyrin repeat and SOCs box-containing 5	protein-coding	10.5	19.5	13.0	457.5	21.0	9.5	26.5	24.0
Merged-chr2-102917616-4	chr2	102917506	102917706	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15941.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	19.5	18.0	27.5	517.0	45.5	17.0	17.5	20.0
Merged-chr4-32569405-2	chr4	32569304	32569504	+	988.25	f1_balb.idr|f1_c57bl6.idr	intron (NR_026843, intron 1 of 4)	intron (NR_026843, intron 1 of 4)	2258.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	12.0	6.0	5.0	56.0	5.5	3.5	2.5	7.0
Merged-chr15-101453446-4	chr15	101453300	101453500	+	967.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025487, intron 4 of 4)	intron (NM_025487, intron 4 of 4)	5655.0	NM_025487	66322.0	Mm.158111	NM_025487	ENSMUSG00000063971	Krt88	1700011A15Rik	keratin 88	protein-coding	7.0	11.5	14.0	228.0	14.5	9.0	6.5	15.5
Merged-chr9-95170295-4	chr9	95170201	95170401	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 14 of 15)	intron (NM_177909, intron 14 of 15)	236969.0	NM_018763	54371.0	Mm.212446	NM_018763	ENSMUSG00000033350	Chst2	AI428561|AW121776|C130041E03Rik|Chts2|GST-2|GlcNAc6ST|Gn6st	carbohydrate sulfotransferase 2	protein-coding	29.5	88.0	40.0	459.0	32.0	15.0	17.0	16.0
Merged-chr12-8384087-2	chr12	8383986	8384186	+	997.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70653.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	7.5	7.0	5.5	117.0	19.0	2.0	6.5	18.5
Merged-chr13-45394365-7	chr13	45394247	45394447	+	893.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153789, intron 2 of 6)	intron (NM_153789, intron 2 of 6)	4605.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	6.0	17.0	9.5	76.0	24.5	14.5	1.5	8.0
Merged-chr18-37806298-3	chr18	37806209	37806409	+	799.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033581)	promoter-TSS (NM_033581)	-101.0	NM_033581	93706.0	Mm.247203	NM_033581	ENSMUSG00000102918	Pcdhgc3	PC43|Pcdh2	protocadherin gamma subfamily C, 3	protein-coding	16.0	12.0	6.5	165.0	14.5	9.0	6.0	12.0
Merged-chr2-45118303-3	chr2	45118195	45118395	+	890.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355288)	promoter-TSS (NM_001355288)	-853.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	2.5	21.0	9.0	47.0	22.0	7.5	11.5	5.0
Merged-chr5-139150072-4	chr5	139149974	139150174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081265)	promoter-TSS (NM_001081265)	-73.0	NM_001359098	19085.0	Mm.306163	NM_008923	ENSMUSG00000025855	Prkar1b	AI385716|RIbeta	protein kinase, cAMP dependent regulatory, type I beta	protein-coding	205.5	332.0	168.0	2511.5	620.0	212.0	215.5	232.0
Merged-chr18-89089183-4	chr18	89089086	89089286	+	930.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175542, intron 35 of 48)	ORR1E|LTR|ERVL-MaLR	-108241.0	NM_178687	225825.0	Mm.139293	NM_178687	ENSMUSG00000034028	Cd226	BC051526|DNAM-1|DNAM1|Pta1|TLiSA1	CD226 antigen	protein-coding	5.5	13.0	8.0	288.5	33.5	13.5	12.0	21.5
Merged-chr7-34167952-4	chr7	34167841	34168041	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016682, intron 1 of 16)	MIR|SINE|MIR	588.0	NM_016682	50995.0	Mm.27560	NM_016682	ENSMUSG00000052997	Uba2	AA986091|Arx|Sae2|UBA1|Ubl1a2|Uble1b	ubiquitin-like modifier activating enzyme 2	protein-coding	16.0	19.0	18.0	221.0	33.0	9.5	9.5	12.5
Merged-chr12-100199482-4	chr12	100199367	100199567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009790)	promoter-TSS (NM_009790)	32.0	NM_009790	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	123.0	164.5	99.0	1364.5	298.0	110.0	119.5	107.0
Merged-chr11-17257608-4	chr11	17257492	17257692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330649)	promoter-TSS (NM_001330649)	45.0	NM_020558	57316.0	Mm.287982	NM_020558	ENSMUSG00000000581	C1d	1110036E10Rik|AI875855|SUN-CoR	C1D nuclear receptor co-repressor	protein-coding	88.0	108.0	84.0	1087.0	297.0	86.5	94.5	88.0
Merged-chr1-69689182-4	chr1	69689093	69689293	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3233.0	NM_011770	22779.0	Mm.106343	NM_011770	ENSMUSG00000025997	Ikzf2	A730095J18Rik|Helios|Zfpn1a2|Znfn1a2	IKAROS family zinc finger 2	protein-coding	27.5	37.5	24.0	493.5	62.0	19.0	27.5	23.5
Merged-chr10-80433686-4	chr10	80433603	80433803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164151)	promoter-TSS (NM_001164151)	-50.0	NM_001164148	21423.0	Mm.3406	NM_011548	ENSMUSG00000020167	Tcf3	A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21	transcription factor 3	protein-coding	73.0	87.5	45.5	716.0	157.0	86.5	55.5	89.5
Merged-chr9-15717568-3	chr9	15717517	15717717	+	940.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172289, intron 1 of 10)	intron (NM_172289, intron 1 of 10)	7879.0	NM_172289	234967.0	Mm.138815	NM_172289	ENSMUSG00000043885	Slc36a4	6330573I15Rik|PAT4	solute carrier family 36 (proton/amino acid symporter), member 4	protein-coding	10.0	7.0	20.0	198.0	16.0	4.5	7.0	16.5
Merged-chr4-119083011-4	chr4	119082918	119083118	+	852.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13907.0	NR_131914	433751.0	Mm.224312	NR_131914	ENSMUSG00000066060	Gm12866	-	predicted gene 12866	ncRNA	7.0	10.0	6.5	175.5	28.5	17.0	26.0	14.0
Merged-chr17-25792354-4	chr17	25792257	25792457	+	946.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285982)	promoter-TSS (NM_001285982)	30.0	NM_001285982	214917.0	Mm.26783	NM_145410	ENSMUSG00000057411	Fam173a	-	family with sequence similarity 173, member A	protein-coding	17.5	23.5	14.0	163.0	29.5	11.5	10.5	20.5
Merged-chr11-51935252-4	chr11	51935145	51935345	+	943.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-32386.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	12.0	19.0	17.5	215.5	57.5	21.5	24.5	22.5
Merged-chr9-80723850-3	chr9	80723760	80723960	+	976.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-258422.0	NM_022016	63859.0	Mm.422780	NM_022016	ENSMUSG00000032343	Impg1	A930015H12Rik|IMP150|SPACR	interphotoreceptor matrix proteoglycan 1	protein-coding	25.5	17.0	29.0	739.0	2.0	0.0	0.0	0.5
Merged-chr9-15010469-4	chr9	15010375	15010575	+	972.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019482, intron 2 of 4)	intron (NM_019482, intron 2 of 4)	35003.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	26.5	28.5	28.5	610.0	41.5	18.0	13.5	25.5
Merged-chr16-57960073-3	chr16	57959969	57960169	+	702.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205332.0	NM_007739	12837.0	Mm.130388	NM_007739	ENSMUSG00000068196	Col8a1	Col8a-1	collagen, type VIII, alpha 1	protein-coding	5.5	9.5	10.5	138.5	0.0	0.0	0.0	1.0
Merged-chr17-22424863-3	chr17	22424759	22424959	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331197, intron 1 of 5)	RLTR9E|LTR|ERVK	657.0	NM_001331198	74149.0	Mm.30767	NM_198003	ENSMUSG00000071266	Zfp946	1300003B13Rik	zinc finger protein 946	protein-coding	13.0	11.5	4.0	141.0	20.0	6.5	9.0	7.0
Merged-chr10-62287867-4	chr10	62287768	62287968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 13 of 21)	intron (NM_010438, intron 13 of 21)	35430.0	NM_009314	21337.0	Mm.8054	NM_009314	ENSMUSG00000020081	Tacr2	Nk2r|Skr|Tac2r	tachykinin receptor 2	protein-coding	109.5	85.5	129.0	1948.5	152.0	57.0	105.5	83.5
Merged-chr1-182140552-4	chr1	182140448	182140648	+	838.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15811.0	NM_012058	27058.0	Mm.273196	NM_012058	ENSMUSG00000026511	Srp9	9kDa	signal recognition particle 9	protein-coding	10.5	12.5	6.5	118.0	35.5	9.0	12.0	11.5
Merged-chr5-117417163-4	chr5	117417071	117417271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	MTC|LTR|ERVL-MaLR	3169.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	96.5	122.0	132.5	1376.0	273.0	109.5	142.0	142.0
Merged-chr8-106612282-1	chr8	106612182	106612382	+	858.0	f0_balb.idr	intron (NM_009864, intron 2 of 15)	ID2|SINE|ID	8932.0	NM_009864	12550.0	Mm.35605	NM_009864	ENSMUSG00000000303	Cdh1	AA960649|ARC-1|E-cad|Ecad|L-CAM|UVO|Um	cadherin 1	protein-coding	14.5	7.0	15.5	154.0	17.0	5.5	5.0	7.5
Merged-chr2-124264538-3	chr2	124264430	124264630	+	973.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 2 of 20)	intron (NM_001290997, intron 2 of 20)	-42172.0	NR_040612	75946.0	Mm.415059	NR_040612	ENSMUSG00000086954	4930583P06Rik	-	RIKEN cDNA 4930583P06 gene	ncRNA	13.0	7.5	17.0	369.0	13.5	6.0	12.5	2.0
Merged-chr1-156615763-4	chr1	156615657	156615857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	56970.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	120.5	151.0	76.5	1602.0	194.5	43.5	61.0	84.5
Merged-chr1-135699600-6	chr1	135699522	135699722	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20441.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	20.0	46.5	12.5	222.5	23.5	10.5	16.0	11.5
Merged-chr13-24791504-4	chr13	24791411	24791611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-10146.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	134.5	205.0	228.0	2893.0	346.5	150.5	181.5	163.0
Merged-chr7-30445537-4	chr7	30445481	30445681	+	893.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007467)	promoter-TSS (NM_007467)	1.0	NM_007467	11803.0	Mm.2381	NM_007467	ENSMUSG00000006651	Aplp1	-	amyloid beta (A4) precursor-like protein 1	protein-coding	18.0	26.5	11.0	233.5	33.0	5.5	7.5	14.0
Merged-chr1-191111369-4	chr1	191111271	191111471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12957.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	124.0	130.0	140.5	1722.5	199.5	76.0	79.5	118.0
Merged-chr7-80402202-4	chr7	80402087	80402287	+	977.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081454, intron 1 of 15)	CpG	625.0	NM_011046	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	11.5	16.5	19.5	205.0	49.0	26.0	23.0	24.0
Merged-chr12-84193145-4	chr12	84193055	84193255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	CpG	860.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	27.0	67.5	33.5	268.0	96.0	25.0	29.0	40.0
Merged-chr1-80822366-4	chr1	80822289	80822489	+	967.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63836.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	8.0	29.0	13.5	339.0	61.5	15.0	19.0	11.5
Merged-chr8-122436812-4	chr8	122436792	122436992	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028354, intron 8 of 10)	intron (NR_028354, intron 8 of 10)	-3952.0	NM_007806	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	14.0	17.5	21.5	115.0	29.0	9.5	8.5	8.5
Merged-chr6-22474270-4	chr6	22474171	22474371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118190.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	30.0	35.5	36.5	878.0	103.0	35.5	32.5	27.0
Merged-chr19-5712135-4	chr19	5712027	5712227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 11 of 17)	intron (NM_001114595, intron 11 of 17)	7656.0	NM_010609	16530.0	Mm.440033	NM_010609	ENSMUSG00000024936	Kcnk7	2310014G03Rik|Kcnk6|Kcnk8|Knot|Mlk3	potassium channel, subfamily K, member 7	protein-coding	53.5	60.5	38.0	440.0	159.0	61.5	90.5	67.0
Merged-chr6-72139717-4	chr6	72139623	72139823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 3 of 6)	intron (NM_001035228, intron 3 of 6)	-16526.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	194.0	233.0	263.5	3761.5	350.0	123.0	207.5	144.0
Merged-chr9-104663667-3	chr9	104663570	104663770	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	94187.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	98.5	55.5	52.0	1300.5	4.5	4.0	3.5	0.5
Merged-chr16-43106444-3	chr16	43106342	43106542	+	730.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285805, intron 2 of 10)	MLT2B4|LTR|ERVL	-140842.0	NM_181058	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	14.0	5.0	11.5	155.5	15.0	1.0	6.5	14.0
Merged-chr10-88426554-4	chr10	88426379	88426579	+	905.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 7 of 20)	intron (NM_001004164, intron 7 of 20)	-33108.0	NM_011517	20962.0	Mm.297977	NM_011517	ENSMUSG00000020059	Sycp3	Cor1|Scp3	synaptonemal complex protein 3	protein-coding	4.0	4.0	8.0	47.5	13.5	5.5	4.5	11.5
Merged-chr16-93711744-4	chr16	93711634	93711834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026700)	promoter-TSS (NM_026700)	-173.0	NM_026700	70028.0	Mm.23230	NM_026700	ENSMUSG00000022946	Dopey2	0610038M01Rik|2610510B01Rik|AI503246|C21orf5|mKIAA0933	dopey family member 2	protein-coding	275.0	501.5	258.0	3610.5	762.5	296.0	365.0	260.5
Merged-chr2-167932798-3	chr2	167932698	167932898	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	471.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	28.5	39.5	18.5	240.5	44.5	17.5	22.0	25.0
Merged-chr19-61199772-4	chr19	61199667	61199867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23458.0	NM_001177513	633057.0	Mm.426097	NM_001177513	ENSMUSG00000094649	Gm7102	EG633057	predicted gene 7102	protein-coding	366.5	424.0	391.0	6088.5	782.0	309.5	397.5	473.0
Merged-chr11-70648797-2	chr11	70648697	70648897	+	939.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316728, intron 3 of 9)	intron (NM_001316728, intron 3 of 9)	1510.0	NM_027445	70510.0	Mm.261818	NM_027445	ENSMUSG00000040746	Rnf167	0610010G05Rik|5730408C10Rik|AU019305|AV328608	ring finger protein 167	protein-coding	13.0	6.0	4.5	22.5	18.0	7.0	5.5	2.0
Merged-chr2-155133511-4	chr2	155133416	155133616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008395)	promoter-TSS (NM_008395)	35.0	NM_008395	16396.0	Mm.208286	NM_008395	ENSMUSG00000027598	Itch	6720481N21Rik|8030492O04Rik|A130065M08|AIP4|C230047C07Rik	itchy, E3 ubiquitin protein ligase	protein-coding	21.0	55.5	25.0	420.5	53.5	23.0	33.5	27.5
Merged-chr5-105582479-4	chr5	105582378	105582578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	63007.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	25.0	54.5	54.5	429.5	73.0	31.5	27.5	49.5
Merged-chr12-70453080-4	chr12	70452969	70453169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028339)	promoter-TSS (NM_028339)	-85.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	110.5	122.5	97.0	1432.0	256.5	94.0	99.5	101.0
Merged-chr1-64308727-4	chr1	64308639	64308839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-187350.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	61.0	55.0	86.0	1325.5	129.5	40.0	66.5	53.5
Merged-chr12-80847008-4	chr12	80846927	80847127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	intron (NM_178682, intron 2 of 5)	56495.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	87.5	97.5	122.0	1390.0	178.5	46.5	89.0	73.0
Merged-chr5-65102833-4	chr5	65102738	65102938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4730.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	34.5	31.0	39.5	632.5	68.5	41.0	33.5	38.0
Merged-chr17-27925769-4	chr17	27925678	27925878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	16472.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	31.5	36.5	35.5	656.5	69.5	26.5	21.5	44.0
Merged-chr3-20018226-4	chr3	20018134	20018334	+	990.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 8 of 16)	MTD|LTR|ERVL-MaLR	17076.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	30.0	35.0	25.0	415.5	57.5	15.0	41.0	20.5
Merged-chr5-125376066-4	chr5	125375975	125376175	+	985.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13942.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	9.0	18.0	21.0	268.5	55.0	6.5	16.0	10.0
Merged-chr6-37732524-4	chr6	37732410	37732610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138301.0	NM_001272064	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	99.0	151.5	57.5	1384.0	294.5	149.0	97.0	140.0
Merged-chr2-3332627-4	chr2	3332531	3332731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013376)	promoter-TSS (NM_001013376)	-3.0	NM_001013376	227522.0	Mm.293948	NM_001013376	ENSMUSG00000049950	Rpp38	C330006A15Rik	ribonuclease P/MRP 38 subunit	protein-coding	219.0	350.0	184.5	2285.5	707.0	237.0	230.0	229.5
Merged-chr11-23688282-4	chr11	23688188	23688388	+	923.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 4 of 17)	ID4_|SINE|ID	22312.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	22.5	12.0	14.0	300.0	28.5	14.5	21.5	14.5
Merged-chr4-105496347-3	chr4	105496245	105496445	+	830.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	338998.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.5	2.0	14.0	224.5	23.5	5.0	22.0	9.0
Merged-chr11-109611744-4	chr11	109611644	109611844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145940)	promoter-TSS (NM_145940)	-355.0	NM_145940	52639.0	Mm.35817	NM_145940	ENSMUSG00000041895	Wipi1	4930533H01Rik|AW411817|D11Ertd498e	WD repeat domain, phosphoinositide interacting 1	protein-coding	303.0	430.5	262.5	4028.0	759.0	312.0	387.0	315.5
Merged-chr16-32803736-3	chr16	32803630	32803830	+	977.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6295.0	NM_001145874	224116.0	Mm.153301	NM_146071	ENSMUSG00000035638	Muc20	BC026367	mucin 20	protein-coding	6.5	18.0	17.5	242.5	11.5	3.0	7.0	3.0
Merged-chr2-19006321-4	chr2	19006213	19006413	+	840.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7994.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	17.0	8.0	17.0	283.5	21.0	4.0	7.5	14.0
Merged-chr11-61193591-3	chr11	61193493	61193693	+	820.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15149.0	NM_007436	11670.0	Mm.4257	NM_007436	ENSMUSG00000019102	Aldh3a1	Ahd-4|Ahd4|Aldh|Aldh3	aldehyde dehydrogenase family 3, subfamily A1	protein-coding	9.5	17.0	2.5	51.5	20.0	5.5	13.0	12.0
Merged-chr15-100102323-4	chr15	100102223	100102423	+	618.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 2 of 3)	intron (NR_037311, intron 2 of 3)	-52073.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	6.0	9.5	8.0	97.0	18.0	0.5	14.0	16.0
Merged-chr1-161070776-4	chr1	161070686	161070886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131028)	promoter-TSS (NR_131028)	19.0	NR_131029	70454.0	Mm.248212	NM_027429	ENSMUSG00000026708	Cenpl	2610300B10Rik|AW121806|AW550697|CENP-L	centromere protein L	protein-coding	246.5	409.5	286.0	4079.0	667.0	289.5	354.5	249.5
Merged-chr13-113487232-4	chr13	113487127	113487327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	15617.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	167.0	346.5	287.5	2936.0	447.5	189.5	199.0	202.5
Merged-chr12-100499711-3	chr12	100499598	100499798	+	677.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 2 of 19)	intron (NM_001033213, intron 2 of 19)	21124.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	14.5	16.5	13.0	231.5	4.0	1.0	0.0	0.0
Merged-chr2-73492231-3	chr2	73492088	73492288	+	843.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	Lx7|LINE|L1	-6435.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	4.0	11.5	11.0	72.0	19.5	10.0	8.0	12.0
Merged-chr1-177737635-4	chr1	177737544	177737744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027077, intron 2 of 5)	(CA)n|Simple_repeat|Simple_repeat	7830.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	18.5	28.0	26.5	391.0	50.0	17.0	29.0	22.5
Merged-chr18-38845754-2	chr18	38845654	38845854	+	974.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010197, intron 3 of 3)	intron (NM_010197, intron 3 of 3)	-46702.0	NM_001033789	545253.0	Mm.244585	NM_001033789	ENSMUSG00000036452	Gm5820	EG545253	predicted gene 5820	protein-coding	8.5	11.0	3.0	65.5	18.5	9.5	4.5	7.5
Merged-chr19-34879098-6	chr19	34878969	34879169	+	910.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001114339, exon 1 of 7)	exon (NM_001114339, exon 1 of 7)	386.0	NM_001114339	75735.0	Mm.24742	NM_023792	ENSMUSG00000033610	Pank1	Pank|Pank1b	pantothenate kinase 1	protein-coding	14.5	11.0	18.5	195.0	31.0	9.0	8.0	11.0
Merged-chr13-52579691-4	chr13	52579576	52579776	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGGA)n|Simple_repeat|Simple_repeat	-3761.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	21.5	16.0	9.5	218.5	30.0	11.5	9.5	24.0
Merged-chr3-90491014-4	chr3	90490910	90491110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133854)	promoter-TSS (NM_133854)	3.0	NM_133854	20615.0	Mm.331182	NM_133854	ENSMUSG00000001018	Snapin	25kDa|AA407989|AV026596|Bloc1s7|Snap25bp|Snapap	SNAP-associated protein	protein-coding	96.0	154.5	105.0	1342.5	187.0	93.5	112.0	92.0
Merged-chr9-59657340-5	chr9	59657247	59657447	+	992.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253883, intron 1 of 10)	CpG	979.0	NM_011099	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	14.5	12.0	17.0	207.5	66.5	27.5	17.5	26.5
Merged-chr15-75929451-2	chr15	75929351	75929551	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357005, intron 1 of 10)	intron (NM_001357005, intron 1 of 10)	279.0	NM_031201	22122.0	Mm.22596	NM_031201	ENSMUSG00000022570	Tsta3	AI256181|FX|Tstap35b	tissue specific transplantation antigen P35B	protein-coding	6.5	8.5	6.5	43.0	11.0	5.0	1.0	5.5
Merged-chr2-148408237-4	chr2	148408099	148408299	+	984.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009378)	promoter-TSS (NM_009378)	-11.0	NM_009378	21824.0	Mm.24096	NM_009378	ENSMUSG00000074743	Thbd	AI385582|CD141|TM	thrombomodulin	protein-coding	29.0	19.5	51.5	804.5	38.0	18.5	29.5	31.0
Merged-chr12-57230412-4	chr12	57230314	57230514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037746)	promoter-TSS (NM_001037746)	2.0	NM_001037746	328099.0	Mm.268180	NM_001037746	ENSMUSG00000079104	Prps1l3	AU021838|AW536152|Gm5081	phosphoribosyl pyrophosphate synthetase 1-like 3	protein-coding	337.0	482.0	348.5	5828.5	802.0	299.5	405.5	292.0
Merged-chr12-85687005-7	chr12	85686849	85687049	+	948.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016767, exon 1 of 3)	exon (NM_016767, exon 1 of 3)	229.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	9.0	20.5	20.0	131.5	28.0	19.5	13.5	19.0
Merged-chr14-52446123-2	chr14	52446047	52446247	+	718.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-4246.0	NM_020514	57271.0	Mm.88824	NM_020514	ENSMUSG00000035626	Olfr1509	MOR244-3|Mor83|Or83	olfactory receptor 1509	protein-coding	16.5	14.5	27.5	323.0	0.0	0.0	0.0	1.5
Merged-chr4-43041016-2	chr4	43040916	43041116	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253353)	promoter-TSS (NM_001253353)	-715.0	NM_001253354	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	4.0	4.0	10.5	40.5	18.0	5.5	8.0	6.5
Merged-chr11-52000809-4	chr11	52000689	52000889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009458)	promoter-TSS (NM_009458)	-323.0	NM_009458	22210.0	Mm.384918	NM_009458	ENSMUSG00000020390	Ube2b	E2-14k|HR6B|Rad6b|mHR6B	ubiquitin-conjugating enzyme E2B	protein-coding	103.0	128.5	48.0	939.5	225.5	103.5	89.0	93.5
Merged-chr5-123142282-4	chr5	123142179	123142379	+	835.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040398)	promoter-TSS (NM_001040398)	86.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	4.0	16.5	12.0	83.0	25.5	6.5	10.0	14.5
Merged-chr15-59795886-4	chr15	59795791	59795991	+	876.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045076)	promoter-TSS (NR_045076)	-932.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	14.5	13.5	25.0	240.0	21.0	4.0	9.5	17.5
Merged-chr19-7569866-2	chr19	7569766	7569966	+	895.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_001362425, intron 2 of 4)	intron (NM_001362425, intron 2 of 4)	12381.0	NM_001362425	225845.0	Mm.274810	NM_139269	ENSMUSG00000060675	Pla2g16	AdPLA|C78643|HRSL3|Hrasls3|Hrev107|MLP-3	phospholipase A2, group XVI	protein-coding	15.0	8.5	7.5	67.0	4.5	7.0	8.5	10.5
Merged-chr9-107963864-4	chr9	107963777	107963977	+	796.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011634, intron 10 of 14)	B1_Mur4|SINE|Alu	-11690.0	NM_023738	74153.0	Mm.277125	NM_023738	ENSMUSG00000032596	Uba7	1300004C08Rik|Ube1l	ubiquitin-like modifier activating enzyme 7	protein-coding	4.0	23.0	3.5	124.0	23.0	14.5	16.5	6.0
Merged-chr7-44378500-4	chr7	44378402	44378602	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3472.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	28.0	20.0	34.0	642.0	41.5	24.5	26.5	30.0
Merged-chr6-99667445-4	chr6	99667338	99667538	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025829)	promoter-TSS (NM_025829)	-667.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	13.5	20.5	20.0	322.0	26.0	8.0	15.0	17.0
Merged-chr12-106034472-4	chr12	106034366	106034566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	intron (NM_001029843, intron 1 of 13)	24203.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	49.0	61.5	18.5	460.0	97.5	29.5	25.5	29.5
Merged-chr9-124056558-4	chr9	124056404	124056604	+	944.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34533.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	18.0	40.5	24.5	345.5	26.5	17.5	23.0	7.5
Merged-chr11-76459440-2	chr11	76459342	76459542	+	884.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 8 of 21)	intron (NM_001346670, intron 8 of 21)	9023.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	6.0	5.5	5.5	45.5	11.5	6.5	10.0	6.0
Merged-chr18-33213958-4	chr18	33213852	33214052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133774)	promoter-TSS (NM_133774)	-90.0	NM_001347624	170459.0	Mm.127058	NM_133774	ENSMUSG00000024378	Stard4	4632419C16Rik|9030213J02Rik	StAR-related lipid transfer (START) domain containing 4	protein-coding	285.0	388.0	337.0	5574.5	775.0	289.0	435.0	243.5
Merged-chr19-7226727-4	chr19	7226611	7226811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027643, exon 8 of 8)	3' UTR (NM_027643, exon 8 of 8)	-9095.0	NM_007750	12868.0	Mm.14022	NM_007750	ENSMUSG00000035885	Cox8a	COX8L	cytochrome c oxidase subunit VIIIa	protein-coding	82.5	97.0	66.0	1015.5	109.5	37.0	49.0	71.0
Merged-chr14-50820248-3	chr14	50820154	50820354	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009632, intron 13 of 15)	intron (NM_009632, intron 13 of 15)	12338.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	5.0	2.0	0.0	16.5	68.5	19.0	34.0	42.0
Merged-chr1-151264978-3	chr1	151264881	151265081	+	969.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79505.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	23.5	25.5	13.0	227.5	20.5	3.0	13.5	7.0
Merged-chr4-132011660-4	chr4	132011538	132011738	+	886.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	37440.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	7.5	10.0	5.0	138.0	28.5	11.5	6.5	12.0
Merged-chr5-142901589-4	chr5	142901457	142901657	+	750.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5197.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	8.0	13.5	6.0	42.5	30.5	18.5	8.5	7.5
Merged-chr13-95892100-4	chr13	95891969	95892169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027711)	promoter-TSS (NM_027711)	-147.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	69.0	76.0	31.0	715.5	178.0	71.5	73.5	81.0
Merged-chr18-24709477-4	chr18	24709396	24709596	+	943.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175276, exon 1 of 27)	5' UTR (NM_175276, exon 1 of 27)	873.0	NM_001289655	225288.0	Mm.329322	NM_175276	ENSMUSG00000034295	Fhod3	A930009H06Rik|FHOS2|mKIAA1695	formin homology 2 domain containing 3	protein-coding	12.0	14.0	14.5	294.0	36.0	19.5	16.5	4.5
Merged-chr3-152210916-4	chr3	152210801	152211001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356364)	promoter-TSS (NM_001356364)	479.0	NM_001355374	51886.0	Mm.278922	NM_057172	ENSMUSG00000028034	Fubp1	9530027K12Rik|D3Ertd330e|FBP|Fubp|Fubp4	far upstream element (FUSE) binding protein 1	protein-coding	79.5	89.0	90.5	866.0	172.0	87.0	76.0	91.5
Merged-chr8-71406857-4	chr8	71406761	71406961	+	950.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310502, intron 3 of 8)	intron (NM_001310502, intron 3 of 8)	849.0	NM_172756	234396.0	Mm.216549	NM_172756	ENSMUSG00000046295	Ankle1	8430438L13Rik|Ankrd41|C430003I23|Lem3	ankyrin repeat and LEM domain containing 1	protein-coding	23.0	13.5	18.0	249.5	57.5	15.5	16.5	20.0
Merged-chr7-80857376-4	chr7	80857283	80857483	+	864.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4725.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	12.5	26.5	5.0	125.5	38.0	10.0	17.0	10.5
Merged-chr14-70815858-4	chr14	70815753	70815953	+	787.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37080.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	13.0	12.5	13.0	256.5	20.0	4.5	17.5	14.0
Merged-chr7-130762767-3	chr7	130762659	130762859	+	879.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021314, intron 17 of 17)	intron (NM_021314, intron 17 of 17)	-11310.0	NM_001081038	330660.0	Mm.271550	NM_001081038	ENSMUSG00000040298	Btbd16	E330040A16Rik	BTB (POZ) domain containing 16	protein-coding	9.0	9.5	12.0	60.5	28.5	2.5	9.5	10.0
Merged-chr6-48448617-3	chr6	48448497	48448697	+	770.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173428, exon 2 of 103)	exon (NM_173428, exon 2 of 103)	368.0	NM_173428	243369.0	Mm.25039	NM_173428	ENSMUSG00000029797	Sspo	C79529|Scospondin	SCO-spondin	protein-coding	8.0	11.0	10.0	135.5	3.5	7.5	9.5	9.5
Merged-chr13-85441818-1	chr13	85441718	85441918	+	844.6666869999999	f0_balb.idr	Intergenic	MurERV4_19-int|LTR|ERVK	-152332.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	10.5	11.5	10.0	155.5	2.0	2.0	0.0	5.0
Merged-chr12-11214892-3	chr12	11214792	11214992	+	977.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5944.0	NM_019544	56184.0	Mm.117113	NM_019544	ENSMUSG00000047002	Msgn1	Msgn|pMsgn1	mesogenin 1	protein-coding	14.0	25.5	33.5	645.5	7.0	1.0	3.0	1.5
Merged-chr12-81754851-4	chr12	81754749	81754949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001174107, intron 2 of 10)	intron (NM_001174107, intron 2 of 10)	26321.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	87.5	123.5	101.5	1471.0	211.5	82.0	99.5	110.0
Merged-chr1-165616844-4	chr1	165616745	165616945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	17696.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	22.5	7.0	54.5	771.5	54.0	9.0	54.0	26.5
Merged-chr8-88755349-4	chr8	88755255	88755455	+	814.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58327.0	NM_001128171	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	5.0	6.5	7.5	168.0	23.0	1.5	9.0	6.5
Merged-chr13-112001312-3	chr13	112001181	112001381	+	845.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	133345.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	15.5	10.0	8.0	157.5	16.0	0.5	6.5	6.0
Merged-chr17-34251811-4	chr17	34251706	34251906	+	779.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11421.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	7.0	8.0	1.0	94.5	20.0	7.0	11.5	14.5
Merged-chr10-14045178-3	chr10	14045015	14045215	+	724.81665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	78736.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	1.5	10.0	2.5	51.5	12.5	5.0	5.5	6.0
Merged-chr7-48983444-5	chr7	48983347	48983547	+	687.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	24374.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	4.5	8.5	9.5	48.5	11.5	2.5	10.5	4.0
Merged-chr2-10010455-3	chr2	10010371	10010571	+	942.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027748, intron 2 of 6)	intron (NM_027748, intron 2 of 6)	38138.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	12.0	9.5	3.5	124.0	15.0	4.5	13.0	4.5
Merged-chr10-71369619-4	chr10	71369503	71369703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 3 of 5)	intron (NM_027184, intron 3 of 5)	21840.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	95.5	101.5	152.5	1828.0	114.5	46.5	78.5	70.5
Merged-chr6-87838907-4	chr6	87838815	87839015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133934)	promoter-TSS (NM_133934)	-156.0	NM_133934	57905.0	Mm.241546	NM_133934	ENSMUSG00000030056	Isy1	5830446M03Rik|AI181014|AU020769	ISY1 splicing factor homolog	protein-coding	211.5	349.0	191.0	2802.5	488.5	244.0	211.5	221.0
Merged-chr7-12909669-4	chr7	12909549	12909749	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001001447)	TTS (NM_001001447)	11840.0	NM_001290441	232878.0	Mm.40706	NM_001001447	ENSMUSG00000054715	Zscan22	AW227621|D530006B18Rik|Hkr2	zinc finger and SCAN domain containing 22	protein-coding	30.0	20.0	11.5	288.0	42.0	21.0	30.5	26.0
Merged-chr7-128115708-2	chr7	128115608	128115808	+	783.900024	f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 24 of 29)	intron (NM_008401, intron 24 of 29)	-13860.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	3.0	4.0	2.0	37.5	6.5	6.0	6.0	5.0
Merged-chr14-17539517-3	chr14	17539414	17539614	+	951.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121446.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	10.0	7.0	6.5	240.0	11.0	0.5	4.5	17.5
Merged-chr13-28958009-4	chr13	28957911	28958111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4312.0	NM_009238	20677.0	Mm.240627	NM_009238	ENSMUSG00000076431	Sox4	AA682046|Sox-4	SRY (sex determining region Y)-box 4	protein-coding	28.0	26.5	35.0	300.0	20.5	7.5	22.5	27.0
Merged-chr5-91278695-4	chr5	91278608	91278808	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040428, intron 3 of 5)	intron (NR_040428, intron 3 of 5)	4368.0	NR_040428	100503265.0	Mm.125059	NR_040428	ENSMUSG00000107198	Gm19619	-	predicted gene, 19619	ncRNA	40.0	41.5	46.5	1084.5	26.5	15.5	29.5	24.0
Merged-chr2-136915236-4	chr2	136915115	136915315	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355671, intron 2 of 6)	intron (NM_001355671, intron 2 of 6)	15864.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	18.5	30.5	18.0	344.0	51.5	29.0	20.5	19.0
Merged-chr10-21845452-3	chr10	21845368	21845568	+	947.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1B|DNA|hAT-Tip100	-36716.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	5.5	19.5	8.0	156.0	10.5	9.5	5.5	6.0
Merged-chr1-87149496-4	chr1	87149392	87149592	+	772.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021306, intron 14 of 17)	intron (NM_021306, intron 14 of 17)	6644.0	NM_001277925	13599.0	Mm.140765	NM_021306	ENSMUSG00000026247	Ecel1	DINE|xce	endothelin converting enzyme-like 1	protein-coding	4.0	13.5	14.5	249.0	17.0	6.0	4.5	7.0
Merged-chr7-101551713-4	chr7	101551601	101551801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033804)	TTS (NR_033804)	4101.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	158.5	360.5	175.5	1840.5	425.0	165.0	153.0	151.0
Merged-chr6-70805490-4	chr6	70805395	70805595	+	768.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13320.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	6.0	12.0	4.0	99.5	24.5	11.5	10.0	10.5
Merged-chr1-36960315-4	chr1	36960217	36960417	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20790.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	19.5	14.0	1.5	121.0	44.0	5.5	14.5	7.0
Merged-chr12-73964980-3	chr12	73964931	73965131	+	853.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178392, intron 1 of 9)	intron (NM_178392, intron 1 of 9)	501.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	3.0	4.5	10.0	121.0	19.5	7.5	6.0	8.0
Merged-chr8-22653389-4	chr8	22653310	22653510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011130)	promoter-TSS (NM_011130)	27.0	NM_011130	18970.0	Mm.123211	NM_011130	ENSMUSG00000031536	Polb	A430088C08Rik	polymerase (DNA directed), beta	protein-coding	46.5	74.0	34.0	563.5	102.0	42.0	42.0	48.0
Merged-chr10-117897378-4	chr10	117897269	117897469	+	940.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-28090.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	21.0	10.0	8.5	331.0	15.5	7.0	19.5	20.0
Merged-chr9-85368551-4	chr9	85368452	85368652	+	845.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41402.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	11.0	11.0	9.5	361.5	47.0	8.5	10.0	18.5
Merged-chr1-184027222-4	chr1	184027105	184027305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	6793.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	35.0	35.0	34.0	507.0	104.0	22.0	42.0	52.5
Merged-chr2-145740894-4	chr2	145740808	145741008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	L3|LINE|CR1	39713.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	261.0	362.0	334.0	3914.0	551.5	202.0	272.0	187.5
Merged-chr2-84458743-4	chr2	84458666	84458866	+	844.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355271, intron 2 of 8)	Lx3B|LINE|L1	15408.0	NM_011576	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	10.0	19.0	21.5	73.0	27.5	5.0	15.0	18.0
Merged-chr2-167335921-3	chr2	167335823	167336023	+	819.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	13255.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	12.5	9.5	8.5	221.0	18.5	2.5	4.0	7.0
Merged-chr8-80314130-4	chr8	80314068	80314268	+	926.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179877.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	16.0	17.0	23.5	384.0	17.5	15.5	19.0	13.0
Merged-chr2-150678577-4	chr2	150678492	150678692	+	832.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10352.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	12.5	13.0	6.5	140.5	29.5	16.5	9.0	9.5
Merged-chr10-98799028-6	chr10	98798902	98799102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115640.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	29.0	54.0	44.0	213.0	53.5	36.5	24.0	23.0
Merged-chr1-91239293-4	chr1	91239198	91239398	+	804.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11006.0	NM_001355763	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	8.5	7.5	4.0	119.5	15.0	6.0	14.0	12.0
Merged-chr2-101796555-4	chr2	101796534	101796734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	CpG	1073.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	57.5	106.5	48.0	733.5	128.0	52.5	47.0	55.0
Merged-chr7-132931654-2	chr7	132931554	132931754	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207302, intron 1 of 9)	CpG	512.0	NM_001362198	360216.0	Mm.389984	NM_207302	ENSMUSG00000030967	Zranb1	9330160G10Rik|D7Wsu87e|Gm1956|Trabid	zinc finger, RAN-binding domain containing 1	protein-coding	28.5	30.0	28.5	273.0	41.5	20.5	25.0	22.5
Merged-chr11-33170689-4	chr11	33170574	33170774	+	724.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7468.0	NM_008722	18148.0	Mm.485384	NM_008722	ENSMUSG00000057113	Npm1	B23|NO38|Npm	nucleophosmin 1	protein-coding	13.5	19.0	6.5	93.0	26.0	9.5	7.0	14.5
Merged-chr13-74617659-7	chr13	74617556	74617756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22197.0	NM_030711	80898.0	Mm.83526	NM_030711	ENSMUSG00000021583	Erap1	A-LAP|ARTS-1|Arts1|ERAAP|PILSA|PILSAP	endoplasmic reticulum aminopeptidase 1	protein-coding	10.5	21.5	16.0	240.5	40.0	13.0	30.0	42.5
Merged-chr10-67030260-2	chr10	67030160	67030360	+	755.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_110511, intron 3 of 6)	intron (NR_110511, intron 3 of 6)	25185.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	5.0	10.0	1.0	76.0	22.5	4.5	4.5	7.0
Merged-chr2-132265395-4	chr2	132265302	132265502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	2254.0	NM_138651	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	32.5	48.5	37.0	761.0	146.5	41.0	60.5	55.0
Merged-chr10-50702538-4	chr10	50702423	50702623	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 16 of 41)	MTD|LTR|ERVL-MaLR	109854.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	11.0	21.5	22.5	378.5	53.0	22.0	43.0	23.0
Merged-chr19-34548155-4	chr19	34548059	34548259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2535.0	NM_008332	15958.0	Mm.2036	NM_008332	ENSMUSG00000045932	Ifit2	AV302338|Ifi54|P54	interferon-induced protein with tetratricopeptide repeats 2	protein-coding	24.5	48.0	15.0	282.5	81.5	18.0	33.5	27.0
Merged-chr2-4548595-3	chr2	4548501	4548701	+	933.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 11 of 23)	intron (NM_001177843, intron 11 of 23)	-11153.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	8.5	16.5	12.0	241.5	24.5	4.5	14.0	11.0
Merged-chr3-88151011-3	chr3	88150937	88151137	+	867.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310593, intron 1 of 10)	intron (NM_001310593, intron 1 of 10)	8665.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	9.0	11.0	6.5	138.0	18.0	7.5	16.0	10.0
Merged-chr7-110669604-4	chr7	110669504	110669704	+	849.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41947.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	8.5	10.0	23.0	179.5	23.0	11.0	14.0	19.0
Merged-chr11-115142173-4	chr11	115142055	115142255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	intron (NM_001163753, intron 1 of 8)	-8163.0	NM_145634	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	62.5	74.0	49.5	844.5	86.5	30.0	30.0	37.5
Merged-chr6-97486180-4	chr6	97486081	97486281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	1639.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	68.5	105.5	118.0	1258.5	179.5	73.5	99.5	110.0
Merged-chr15-101246999-3	chr15	101246908	101247108	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19838.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	14.5	23.5	14.0	343.0	91.5	14.0	39.5	42.5
Merged-chr1-35993196-3	chr1	35993123	35993323	+	825.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75177.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	6.5	6.0	9.5	61.5	7.5	2.0	4.0	4.5
Merged-chr1-51918012-3	chr1	51917919	51918119	+	822.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2041.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	8.0	12.5	11.0	94.5	13.5	5.0	10.0	5.5
Merged-chr15-9629888-4	chr15	9629799	9629999	+	975.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305042, intron 25 of 36)	intron (NM_001305042, intron 25 of 36)	-100023.0	NM_008372	16197.0	Mm.389	NM_008372	ENSMUSG00000003882	Il7r	CD127|IL-7Ralpha	interleukin 7 receptor	protein-coding	13.0	9.0	11.0	389.5	27.5	6.0	22.0	23.5
Merged-chr3-38115010-3	chr3	38114934	38115134	+	727.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93085.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	5.5	9.0	10.0	121.0	27.0	8.5	11.5	6.5
Merged-chr13-90051866-3	chr13	90051762	90051962	+	786.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 3 of 7)	RLTR18-int|LTR|ERVK	37746.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	11.5	7.5	5.5	109.5	12.0	2.0	2.0	2.5
Merged-chr16-95612197-4	chr16	95612088	95612288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25595.0	NM_001302152	13876.0	Mm.164531	NM_133659	ENSMUSG00000040732	Erg	D030036I24Rik	ETS transcription factor	protein-coding	60.5	93.5	67.0	1115.5	118.0	48.0	63.0	38.5
Merged-chr19-4755786-4	chr19	4755671	4755871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025717)	promoter-TSS (NM_025717)	-754.0	NM_025717	66704.0	Mm.396734	NM_025717	ENSMUSG00000033760	Rbm4b	4921506I22Rik|AI504630|AI506404|Lark2|Neosin	RNA binding motif protein 4B	protein-coding	33.0	37.0	15.5	238.0	82.5	28.5	33.0	9.5
Merged-chr13-110471750-4	chr13	110471648	110471848	+	878.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76704.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	13.0	13.5	12.0	198.5	31.0	5.5	22.5	21.0
Merged-chr11-77214455-3	chr11	77214362	77214562	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-1963.0	NM_177710	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	11.0	8.0	6.0	128.5	17.0	11.5	5.0	4.5
Merged-chr13-52071373-4	chr13	52071256	52071456	+	824.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-25385.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	15.0	15.0	3.5	74.5	23.0	9.5	5.5	8.5
Merged-chr17-84646507-4	chr17	84646402	84646602	+	813.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172256, intron 8 of 12)	intron (NM_172256, intron 8 of 12)	20003.0	NM_172256	213575.0	Mm.246119	NM_172256	ENSMUSG00000024253	Dync2li1	4933404O11Rik|CGI-60|D2lic|LIC3|mD2LIC	dynein cytoplasmic 2 light intermediate chain 1	protein-coding	18.5	12.0	18.0	271.0	47.0	5.0	17.0	15.0
Merged-chr11-61868237-4	chr11	61868122	61868322	+	891.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13130.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	16.0	13.0	7.0	168.0	43.0	12.5	11.0	20.0
Merged-chr4-130629512-4	chr4	130629419	130629619	+	921.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33802.0	NM_030722	80912.0	Mm.440206	NM_030722	ENSMUSG00000028580	Pum1	AA517475|Pumm|mKIAA0099	pumilio RNA-binding family member 1	protein-coding	15.5	17.0	14.5	248.5	17.0	14.0	20.0	19.5
Merged-chr17-26661919-4	chr17	26661814	26662014	+	970.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-14482.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	34.5	15.5	19.5	396.5	63.0	15.0	20.5	30.0
Merged-chr14-57772621-4	chr14	57772504	57772704	+	953.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3d|LINE|L1	-25585.0	NM_009119	20220.0	Mm.30173	NM_009119	ENSMUSG00000021963	Sap18	C530046K05Rik|D11Ertd539e|EMegR4|Sap18a|Sinbp1	Sin3-associated polypeptide 18	protein-coding	23.0	24.0	15.5	221.5	53.5	21.5	16.0	12.5
Merged-chr6-24627839-4	chr6	24627747	24627947	+	780.654175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028459, intron 5 of 10)	intron (NM_028459, intron 5 of 10)	30076.0	NM_053098	93677.0	Mm.332941	NM_053098	ENSMUSG00000029683	Lmod2	C-Lmod	leiomodin 2 (cardiac)	protein-coding	8.5	1.0	13.0	185.0	27.5	7.5	13.5	15.5
Merged-chr5-38086243-3	chr5	38086140	38086340	+	647.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359398, intron 1 of 9)	intron (NM_001359398, intron 1 of 9)	47010.0	NM_026959	71116.0	Mm.18959	NM_026959	ENSMUSG00000029125	Stx18	1810035L21Rik|4933425D03Rik|AU041562	syntaxin 18	protein-coding	3.0	2.0	1.0	15.5	19.5	7.0	12.0	7.5
Merged-chr10-128238291-3	chr10	128238171	128238371	+	915.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011589, intron 1 of 28)	intron (NM_011589, intron 1 of 28)	205.0	NM_011589	21853.0	Mm.6458	NM_011589	ENSMUSG00000039994	Timeless	C77407|Debt69|tim	timeless circadian clock 1	protein-coding	8.0	20.5	6.0	107.5	17.0	17.5	5.5	8.5
Merged-chr11-118459314-4	chr11	118459243	118459443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER73|LTR|ERVL	-4348.0	NR_045902	100126224.0	Mm.441989	NR_045902	ENSMUSG00000086514	Gm11747	-	predicted gene 11747	ncRNA	108.0	140.0	179.5	2281.0	242.0	61.0	163.0	110.0
Merged-chr10-78367172-4	chr10	78367056	78367256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-15456.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	33.0	35.0	18.5	380.0	45.5	23.0	21.5	24.0
Merged-chr12-8637143-4	chr12	8637034	8637234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37000.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	120.0	275.5	96.5	1879.0	293.0	107.5	128.5	117.5
Merged-chr13-22026625-4	chr13	22026579	22026779	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8964.0	NM_175659	319168.0	Mm.250564	NM_175659	ENSMUSG00000069302	Hist1h2ah	-	histone cluster 1, H2ah	protein-coding	23.5	37.5	19.5	112.0	36.0	10.0	4.0	4.0
Merged-chr10-8342844-3	chr10	8342759	8342959	+	892.349976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 2 of 7)	L2c|LINE|L2	175966.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	8.0	16.0	9.0	155.5	12.5	5.0	3.5	2.5
Merged-chr11-21046421-4	chr11	21046335	21046535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44889.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	83.0	148.0	81.0	1381.5	241.5	125.5	83.5	66.5
Merged-chr5-146829697-3	chr5	146829591	146829791	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3199.0	NM_019647	19933.0	Mm.316592	NM_019647	ENSMUSG00000041453	Rpl21	8430440E03Rik|L21	ribosomal protein L21	protein-coding	2.0	3.5	4.0	58.5	121.5	34.0	49.0	48.0
Merged-chr17-88435521-4	chr17	88435438	88435638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5166.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	24.5	46.0	35.5	379.5	77.0	25.0	33.0	28.0
Merged-chr12-85541386-4	chr12	85541291	85541491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57714.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	123.5	163.5	120.0	2028.5	274.0	115.0	150.5	109.0
Merged-chr12-24498659-4	chr12	24498496	24498696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028341)	promoter-TSS (NR_028341)	15.0	NR_028341	21340.0	Mm.39082	NM_020614	ENSMUSG00000059669	Taf1b	4930408G01Rik|A230108M10Rik|TAFI68|Tafi86|p63	TATA-box binding protein associated factor, RNA polymerase I, B	protein-coding	30.5	40.0	37.0	329.5	50.0	30.5	31.5	32.0
Merged-chr13-44504651-4	chr13	44504588	44504788	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	64961.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	25.0	21.0	17.0	269.0	35.0	20.5	21.0	14.0
Merged-chr11-110268661-4	chr11	110268559	110268759	+	967.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_147219)	TTS (NM_147219)	-16883.0	NM_001166557	76184.0	Mm.159704	NM_147218	ENSMUSG00000044749	Abca6	6330565N06Rik	ATP-binding cassette, sub-family A (ABC1), member 6	protein-coding	19.0	22.0	15.0	213.5	37.5	25.0	15.0	19.5
Merged-chr7-45924171-4	chr7	45924084	45924284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2758.0	NM_010129	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	31.0	41.0	24.5	307.5	122.5	45.5	63.0	41.5
Merged-chr4-134548232-4	chr4	134548111	134548311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029100, intron 2 of 11)	intron (NM_029100, intron 2 of 11)	3955.0	NM_029100	74777.0	Mm.29773	NM_029100	ENSMUSG00000050989	Selenon	1110019I12Rik|AI414492|SelN|Sepn1	selenoprotein N	protein-coding	107.0	175.5	103.0	1444.5	159.5	90.0	84.0	122.0
Merged-chr4-150472718-3	chr4	150472620	150472820	+	962.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 6 of 22)	intron (NM_001085492, intron 6 of 22)	179454.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	21.0	23.5	13.5	413.5	29.5	5.0	10.0	16.5
Merged-chr4-40242137-4	chr4	40242083	40242283	+	883.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2358.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	18.5	11.0	6.0	92.5	42.0	8.5	14.5	12.0
Merged-chr8-71272604-4	chr8	71272486	71272686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142323)	promoter-TSS (NM_001142323)	4.0	NM_001163042	76478.0	Mm.27355	NM_029621	ENSMUSG00000035439	Haus8	2410004L22Rik|Hice1	4HAUS augmin-like complex, subunit 8	protein-coding	213.5	303.0	202.5	3218.0	610.5	236.0	217.0	197.0
Merged-chr5-110421151-4	chr5	110421046	110421246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 2 of 18)	intron (NM_001142642, intron 2 of 18)	27357.0	NM_001317042	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	45.5	98.5	52.0	1121.0	77.0	22.0	35.0	39.0
Merged-chr15-84981722-2	chr15	84981622	84981822	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	6249.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	2.0	17.5	4.5	182.0	31.0	9.5	9.5	14.0
Merged-chr19-34475861-2	chr19	34475761	34475961	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009890)	promoter-TSS (NM_009890)	-726.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	10.0	6.5	6.5	57.5	9.5	1.5	2.5	4.0
Merged-chr15-85113659-4	chr15	85113557	85113757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080470, intron 9 of 24)	intron (NM_080470, intron 9 of 24)	18300.0	NM_080470	140557.0	Mm.182737	NM_080470	ENSMUSG00000022432	Smc1b	SMC-1B|SMC1beta|Smc1l2	structural maintenance of chromosomes 1B	protein-coding	26.0	30.5	13.5	306.0	83.0	33.5	31.5	37.0
Merged-chr18-61632509-4	chr18	61632421	61632621	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7132.0	NR_045420	545261.0	Mm.426593	NR_045420	ENSMUSG00000098098	Bvht	Braveheart|Gm20748	braveheart long non-coding RNA	ncRNA	27.5	29.5	32.0	303.5	72.5	23.5	16.5	27.0
Merged-chr9-124054600-1	chr9	124054500	124054700	+	568.666687	f0_balb.idr	Intergenic	Intergenic	32629.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	14.0	13.5	9.5	85.0	6.0	12.0	5.0	3.0
Merged-chr4-7154448-4	chr4	7154350	7154550	+	866.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-163727.0	NM_145711	252838.0	Mm.435828	NM_145711	ENSMUSG00000041272	Tox	1700007F02Rik	thymocyte selection-associated high mobility group box	protein-coding	13.0	4.0	26.0	412.5	27.5	9.0	14.5	16.5
Merged-chr10-127333359-2	chr10	127333259	127333459	+	715.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010296, intron 11 of 12)	B2_Mm2|SINE|B2	7717.0	NM_001359657	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	4.0	5.0	1.5	69.5	6.5	8.5	5.5	9.0
Merged-chr16-90916278-4	chr16	90916149	90916349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18600.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	63.5	113.5	73.0	1003.0	123.0	58.0	69.5	35.5
Merged-chr3-96244789-3	chr3	96244693	96244893	+	941.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013549)	promoter-TSS (NM_013549)	-664.0	NM_178212	319192.0	Mm.5220	NM_178212	ENSMUSG00000063954	Hist2h2aa2	H2a-614|H2a-615	histone cluster 2, H2aa2	protein-coding	12.5	13.0	9.5	169.5	23.0	6.5	6.5	17.5
Merged-chr4-149486017-3	chr4	149485905	149486105	+	879.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133435)	promoter-TSS (NM_133435)	739.0	NM_026963	69151.0	Mm.464434	NM_026963	ENSMUSG00000028990	Lzic	1810030J04Rik|AW047580	leucine zipper and CTNNBIP1 domain containing	protein-coding	14.0	5.5	4.5	119.0	15.5	3.0	4.5	8.5
Merged-chr2-74673171-3	chr2	74673040	74673240	+	694.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1873.0	NM_008274	15432.0	Mm.57124	NM_008274	ENSMUSG00000001823	Hoxd12	Hox-4.7|Hox-5.6	homeobox D12	protein-coding	5.5	13.0	10.0	83.0	13.5	7.0	2.5	13.0
Merged-chr15-83595168-4	chr15	83595064	83595264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183017)	promoter-TSS (NM_183017)	-7.0	NM_183017	223723.0	Mm.46778	NM_183017	ENSMUSG00000016757	Ttll12	BC055368|D430005B17	tubulin tyrosine ligase-like family, member 12	protein-coding	54.0	103.5	58.0	745.5	137.0	61.0	62.0	75.0
Merged-chr1-52815845-4	chr1	52815751	52815951	+	746.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008384, intron 1 of 5)	intron (NM_008384, intron 1 of 5)	1837.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	9.0	22.0	27.0	101.0	38.5	5.0	8.5	11.0
Merged-chr3-15575126-3	chr3	15575029	15575229	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001173460)	promoter-TSS (NM_001173460)	-64.0	NM_001173460	668101.0	Mm.423523	NM_001173460	ENSMUSG00000095028	Sirpb1b	-	signal-regulatory protein beta 1B	protein-coding	0.0	0.0	0.0	0.0	143.0	40.5	61.5	55.5
Merged-chr11-86683938-4	chr11	86683830	86684030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175004)	promoter-TSS (NM_175004)	-53.0	NM_175004	217057.0	Mm.24868	NM_175004	ENSMUSG00000072582	Ptrh2	A230072I16Rik|Bit1|CGI-147	peptidyl-tRNA hydrolase 2	protein-coding	136.0	275.0	94.0	1392.5	329.5	152.0	105.5	99.5
Merged-chr13-45897810-4	chr13	45897709	45897909	+	978.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	67182.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	30.0	42.0	26.0	413.5	67.0	23.0	27.5	14.5
Merged-chr3-108771246-2	chr3	108771146	108771346	+	587.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_177859, intron 6 of 11)	intron (NM_177859, intron 6 of 11)	31588.0	NM_177859	329738.0	Mm.72322	NM_177859	ENSMUSG00000049565	Aknad1	4921525H12Rik	AKNA domain containing 1	protein-coding	9.5	2.5	3.0	50.0	13.0	4.5	5.5	5.5
Merged-chr15-72873256-4	chr15	72873153	72873353	+	791.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164642, intron 16 of 16)	L1MB5|LINE|L1	-62929.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	4.0	8.5	6.5	111.5	22.5	8.5	9.5	11.5
Merged-chr13-62294555-3	chr13	62294462	62294662	+	879.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	88612.0	NM_001162910	100041979.0	Mm.445930	NM_001162910	ENSMUSG00000094942	Gm3604	-	predicted gene 3604	protein-coding	40.5	40.0	17.0	314.5	0.0	0.0	0.0	0.0
Merged-chr11-9530634-3	chr11	9530521	9530721	+	753.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 45 of 61)	CT-rich|Low_complexity|Low_complexity	338679.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	8.5	9.0	10.0	195.0	24.5	5.5	4.0	1.0
Merged-chr2-6705774-4	chr2	6705652	6705852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	15910.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	45.5	37.0	27.0	674.5	79.5	24.0	27.5	36.5
Merged-chr14-60273529-4	chr14	60273402	60273602	+	965.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144843, intron 1 of 13)	intron (NM_144843, intron 1 of 13)	8297.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	22.5	25.5	10.5	181.0	26.0	15.5	10.0	17.5
Merged-chr6-3447640-4	chr6	3447556	3447756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	46842.0	NM_178899	101202.0	Mm.206911	NM_178899	ENSMUSG00000044156	Hepacam2	AI987662	HEPACAM family member 2	protein-coding	45.0	101.5	55.5	952.5	193.0	65.0	76.5	59.5
Merged-chr9-66834839-4	chr9	66834737	66834937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026674)	promoter-TSS (NM_026674)	-131.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	311.0	502.0	241.5	3924.5	718.0	311.5	319.5	269.0
Merged-chr2-79698420-4	chr2	79698313	79698513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9367.0	NM_172420	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	77.0	67.5	89.5	1130.5	151.0	54.5	72.0	73.5
Merged-chr14-47649733-4	chr14	47649640	47649840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347528, intron 1 of 37)	CpG	429.0	NM_001347524	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	16.0	29.5	16.0	381.5	42.5	17.0	18.0	22.5
Merged-chr6-136555785-4	chr6	136555696	136555896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	36945.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	16.5	35.0	17.0	269.5	42.0	16.0	25.5	32.0
Merged-chr5-121500916-4	chr5	121500792	121500992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172125, exon 1 of 1)	exon (NM_172125, exon 1 of 1)	2088.0	NM_172125	280667.0	Mm.444773	NM_172125	ENSMUSG00000062438	Adam1b	Adam1|Ftna	a disintegrin and metallopeptidase domain 1b	protein-coding	33.0	56.5	36.5	372.5	54.0	28.5	33.0	30.0
Merged-chr10-44434833-4	chr10	44434714	44434914	+	955.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23934.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	10.5	7.5	11.5	343.0	55.5	13.0	27.0	27.5
Merged-chr6-100211867-4	chr6	100211751	100211951	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	75507.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	16.5	10.5	5.5	179.5	27.0	9.0	8.0	10.5
Merged-chr12-79545233-3	chr12	79545137	79545337	+	730.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	247886.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	6.0	15.0	5.0	113.5	10.0	11.5	5.0	5.0
Merged-chr5-3461020-4	chr5	3460947	3461147	+	847.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 4 of 7)	intron (NM_009873, intron 4 of 7)	-82786.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	13.5	13.0	7.5	170.0	20.5	9.5	5.0	4.0
Merged-chr16-33185051-4	chr16	33184950	33185150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176840)	promoter-TSS (NM_176840)	-21.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	109.0	133.5	69.5	1228.0	167.5	95.0	97.0	97.5
Merged-chr2-128698298-4	chr2	128698187	128698387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008587)	promoter-TSS (NM_008587)	-628.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	54.0	79.0	30.0	693.0	126.0	52.0	54.0	62.0
Merged-chr3-60438867-4	chr3	60438747	60438947	+	877.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33983.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	9.0	10.0	5.5	95.5	72.0	9.0	26.5	24.5
Merged-chr7-89908141-2	chr7	89908041	89908241	+	795.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4512.0	NM_001162979	70884.0	Mm.252823	NM_001162979	ENSMUSG00000039391	Ccdc81	4921513D09Rik	coiled-coil domain containing 81	protein-coding	6.0	6.5	3.5	66.5	11.5	5.5	7.0	7.5
Merged-chr5-135428949-2	chr5	135428849	135429049	+	710.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 20 of 30)	B3A|SINE|B2	-34403.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	5.0	6.5	2.0	25.5	9.5	7.0	10.0	4.5
Merged-chr1-58727194-4	chr1	58727079	58727279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 2 of 8)	intron (NM_001355056, intron 2 of 8)	-3373.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	97.0	228.5	101.0	1076.0	196.5	81.0	75.0	51.0
Merged-chr2-152757231-4	chr2	152757150	152757350	+	909.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053091, intron 3 of 4)	intron (NM_053091, intron 3 of 4)	3077.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	11.5	24.0	10.5	354.5	33.0	14.5	12.0	24.0
Merged-chr1-192745218-4	chr1	192745086	192745286	+	846.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 3 of 11)	intron (NM_144881, intron 3 of 11)	26033.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	7.5	11.5	8.0	71.5	23.5	6.0	5.0	13.0
Merged-chr2-117025802-2	chr2	117025702	117025902	+	610.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95269.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	6.0	6.5	7.0	28.5	8.5	1.0	2.5	0.5
Merged-chr5-5658871-1	chr5	5658771	5658971	+	585.0	f0_balb.idr	intron (NM_172447, intron 1 of 22)	Lx3_Mus|LINE|L1	5361.0	NM_172447	207686.0	Mm.319007	NM_172447	ENSMUSG00000040473	Cfap69	4921525K03|A330021E22Rik|AI427898	cilia and flagella associated protein 69	protein-coding	6.0	8.5	6.0	81.0	5.5	1.5	5.0	7.0
Merged-chr11-76217581-4	chr11	76217474	76217674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177367)	promoter-TSS (NM_177367)	-2.0	NM_177367	276919.0	Mm.482713	NM_177367	ENSMUSG00000049396	Gemin4	4932415L08Rik|AU015359	gem nuclear organelle associated protein 4	protein-coding	123.0	158.0	87.5	1550.5	332.5	134.5	115.0	107.5
Merged-chr2-163054532-4	chr2	163054428	163054628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008652)	promoter-TSS (NM_008652)	-107.0	NM_008652	17865.0	Mm.4594	NM_008652	ENSMUSG00000017861	Mybl2	B-Myb|Bmyb	myeloblastosis oncogene-like 2	protein-coding	230.0	262.0	210.0	3081.5	459.0	165.0	255.5	178.5
Merged-chr7-35729832-4	chr7	35729733	35729933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 3 of 18)	intron (NM_178704, intron 3 of 18)	24621.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	106.0	127.5	116.0	1988.0	91.5	39.5	54.5	63.5
Merged-chr7-101851919-4	chr7	101851813	101852013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303239, intron 2 of 5)	intron (NM_001303239, intron 2 of 5)	5277.0	NM_001303239	14276.0	Mm.439666	NM_008035	ENSMUSG00000032725	Folr2	FBP2|FR-P3|FR-beta|Folbp-2|Folbp2	folate receptor 2 (fetal)	protein-coding	21.0	30.5	30.0	324.5	78.5	24.0	27.5	25.0
Merged-chr5-150598354-4	chr5	150598196	150598396	+	979.464294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-3771.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	16.5	18.0	11.5	294.5	53.0	11.5	15.5	13.0
Merged-chr10-95357928-4	chr10	95357841	95358041	+	958.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045337, intron 1 of 2)	ORR1F|LTR|ERVL-MaLR	21665.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	16.0	24.0	5.0	196.0	60.0	19.5	18.5	11.0
Merged-chr19-32715357-4	chr19	32715272	32715472	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-3074.0	NM_026487	67979.0	Mm.27123	NM_026487	ENSMUSG00000013662	Atad1	4921525H23Rik|AW107648|Thorase	ATPase family, AAA domain containing 1	protein-coding	25.5	38.5	27.0	315.0	60.5	21.5	17.0	13.0
Merged-chr10-82812019-4	chr10	82811919	82812119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038042)	promoter-TSS (NR_038042)	-104.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	24.0	27.0	17.0	388.0	85.5	36.0	39.0	23.0
Merged-chr1-34858813-4	chr1	34858677	34858877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	intron (NM_001357425, intron 2 of 8)	8788.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	55.0	41.0	50.5	828.5	134.0	29.5	33.5	46.5
Merged-chr18-42511279-4	chr18	42511166	42511366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110344)	promoter-TSS (NR_110344)	-221.0	NM_001039474	56070.0	Mm.270511	NM_001039474	ENSMUSG00000024498	Tcerg1	2410022J09Rik|2900090C16Rik|AI428505|CA150b|FBP23|FBP28|Taf2s|ca150|p144	transcription elongation regulator 1 (CA150)	protein-coding	391.0	568.0	493.5	5915.5	825.0	403.0	443.0	395.5
Merged-chr8-14090437-4	chr8	14090335	14090535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034862)	promoter-TSS (NM_001034862)	-108.0	NM_001034862	234086.0	Mm.268896	NM_001034862	ENSMUSG00000051978	Erich1	-	glutamate rich 1	protein-coding	377.0	519.5	407.5	5992.5	791.5	332.0	405.0	300.0
Merged-chr8-66391780-4	chr8	66391714	66391914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	intron (NM_175188, intron 5 of 7)	5513.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	44.5	47.0	58.0	992.5	94.5	32.0	38.5	44.5
Merged-chr13-110394975-4	chr13	110394819	110395019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152804)	promoter-TSS (NM_152804)	-125.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	203.0	279.5	168.0	3119.5	381.5	132.5	171.5	148.5
Merged-chr2-102902092-4	chr2	102901992	102902192	+	989.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177785)	promoter-TSS (NM_001177785)	-427.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	35.0	43.5	24.0	260.0	108.0	34.0	18.5	20.5
Merged-chr11-20631444-4	chr11	20631344	20631544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038625)	promoter-TSS (NM_001038625)	-533.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	66.0	122.0	36.5	641.0	162.0	56.0	68.0	48.0
Merged-chr11-69041793-4	chr11	69041693	69041893	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3844.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	27.0	49.5	14.5	271.0	92.0	26.0	29.0	39.0
Merged-chr14-77081460-2	chr14	77081360	77081560	+	714.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310649, intron 3 of 3)	intron (NM_001310649, intron 3 of 3)	44688.0	NM_001310649	108811.0	Mm.102168	NM_175369	ENSMUSG00000034795	Ccdc122	4933415L06Rik	coiled-coil domain containing 122	protein-coding	6.5	8.0	4.5	40.5	15.5	4.5	6.0	6.0
Merged-chr9-32146429-4	chr9	32146345	32146545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 2 of 21)	intron (NM_001195632, intron 2 of 21)	30309.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	48.5	57.0	62.5	1294.0	145.0	28.0	45.5	54.0
Merged-chr2-60037203-4	chr2	60037189	60037389	+	628.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 2 of 35)	intron (NM_001001182, intron 2 of 35)	88451.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	5.0	8.0	8.5	58.5	9.5	2.5	3.0	4.0
Merged-chr11-105485147-4	chr11	105485058	105485258	+	958.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-28423.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	20.0	23.0	5.0	191.0	43.0	12.0	16.0	20.0
Merged-chr8-18619276-4	chr8	18619122	18619322	+	951.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173189, intron 3 of 13)	B3|SINE|B2	24091.0	NM_173189	244329.0	Mm.235296	NM_173189	ENSMUSG00000039842	Mcph1	5430437K10Rik|BRIT1|D030046N04Rik|MCT|Tg(HLA-A2.1)1Enge	microcephaly, primary autosomal recessive 1	protein-coding	34.5	12.5	15.0	350.5	16.0	14.0	16.0	20.5
Merged-chr1-97667482-3	chr1	97667380	97667580	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31_Mm|LTR|ERVK	-5462.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	10.5	22.0	9.0	138.0	12.5	8.5	12.5	8.5
Merged-chr18-53944398-4	chr18	53944293	53944493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 10 of 12)	intron (NM_152809, intron 10 of 12)	82280.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	55.5	41.5	40.0	838.0	85.0	28.0	59.0	37.0
Merged-chr15-97174825-3	chr15	97174689	97174889	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7545.0	NR_155279	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	15.5	23.5	26.0	320.5	45.0	17.5	11.0	19.0
Merged-chr2-158130660-7	chr2	158130558	158130758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 6 of 12)	intron (NM_009373, intron 6 of 12)	15734.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	21.5	24.0	47.0	299.0	53.5	16.0	19.0	15.0
Merged-chr17-43332510-3	chr17	43332417	43332617	+	870.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27914.0	NM_001357332	224792.0	Mm.23478	NM_001081178	ENSMUSG00000056492	Adgrf5	8430401C09Rik|9330185D23|AI528491|Gpr116|mKIAA0758	adhesion G protein-coupled receptor F5	protein-coding	5.0	8.5	5.0	112.0	17.0	8.0	11.5	3.5
Merged-chr9-46192841-4	chr9	46192737	46192937	+	792.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 6 of 24)	intron (NM_027498, intron 6 of 24)	-35793.0	NM_009692	11806.0	Mm.26743	NM_009692	ENSMUSG00000032083	Apoa1	Alp-1|Apoa-1|Brp-14|Ltw-1|Lvtw-1|Sep-1|Sep-2|Sep2|apo-AI|apoA-I	apolipoprotein A-I	protein-coding	6.5	17.5	5.5	101.0	41.0	8.0	10.0	9.5
Merged-chr4-132074215-3	chr4	132074129	132074329	+	882.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128607, intron 1 of 17)	intron (NM_001128607, intron 1 of 17)	1084.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	10.0	3.0	8.5	84.5	11.0	8.5	5.0	14.0
Merged-chr2-75978203-4	chr2	75978105	75978305	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081228)	promoter-TSS (NM_001081228)	-26.0	NM_001081228	620631.0	Mm.389286	NM_001081228	ENSMUSG00000075272	Ttc30a2	-	tetratricopeptide repeat domain 30A2	protein-coding	63.5	61.0	13.0	750.0	189.5	76.5	84.0	74.5
Merged-chr10-75954698-4	chr10	75954603	75954803	+	649.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198635, intron 1 of 13)	intron (NM_198635, intron 1 of 13)	189.0	NM_198635	333669.0	Mm.31077	NM_198635	ENSMUSG00000033255	Gm5134	EG333669	predicted gene 5134	protein-coding	3.5	9.0	1.5	74.0	12.0	8.5	12.5	4.5
Merged-chr3-122274962-2	chr3	122274861	122275061	+	650.5	f0_balb.idr|f0_c57.idr	intron (NM_153806, intron 1 of 6)	intron (NM_153806, intron 1 of 6)	547.0	NM_153806	99480.0	Mm.398647	NM_153806	ENSMUSG00000039756	Dnttip2	4930588M11Rik|AA408582|AU014960|HSU15552	deoxynucleotidyltransferase, terminal, interacting protein 2	protein-coding	9.5	16.0	10.0	107.0	24.0	10.5	8.0	7.5
Merged-chr15-41830871-4	chr15	41830775	41830975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130164)	promoter-TSS (NM_001130164)	-83.0	NM_001130164	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	144.0	215.5	184.0	3201.5	379.0	117.0	193.0	116.5
Merged-chr6-28261971-4	chr6	28261848	28262048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081678)	promoter-TSS (NM_001081678)	-347.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	105.5	154.0	80.5	1762.0	249.5	84.0	142.0	92.0
Merged-chr1-58725990-4	chr1	58725888	58726088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	-4564.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	66.0	165.5	42.5	504.5	226.0	79.5	78.0	40.5
Merged-chr3-153902995-4	chr3	153902902	153903102	+	798.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031870, intron 1 of 19)	RMER16_Mm|LTR|ERVK	1889.0	NM_001282054	55993.0	Mm.272226	NM_031870	ENSMUSG00000005493	Msh4	4930485C04Rik|AV144863|mMsh4	mutS homolog 4	protein-coding	4.0	14.0	15.0	56.5	27.0	14.0	9.5	5.0
Merged-chr16-95753581-2	chr16	95753481	95753681	+	641.125	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51174.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	8.0	8.5	4.5	50.0	21.0	4.0	6.5	5.5
Merged-chr2-33406829-2	chr2	33406729	33406929	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001276332, exon 2 of 2)	3' UTR (NM_001276332, exon 2 of 2)	24495.0	NM_001085507	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	8.5	5.0	13.0	88.5	13.0	0.5	1.0	1.5
Merged-chr1-59763390-7	chr1	59763261	59763461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007561)	promoter-TSS (NM_007561)	-918.0	NM_007561	12168.0	Mm.7106	NM_007561	ENSMUSG00000067336	Bmpr2	2610024H22Rik|AL117858|AW546137|BB189135|BMP-2|BMPR-2|BMPR-II|BMPRII|BRK-3|Gm20272	bone morphogenetic protein receptor, type II (serine/threonine kinase)	protein-coding	27.5	19.0	25.0	237.0	91.5	40.0	57.0	33.5
Merged-chr4-19869710-4	chr4	19869636	19869836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	51009.0	NM_028746	74087.0	Mm.173833	NM_028746	ENSMUSG00000041052	Slc7a13	0610009O04Rik|AGT-1|AGT1|XAT2	solute carrier family 7, (cationic amino acid transporter, y+ system) member 13	protein-coding	46.0	87.0	88.5	1464.0	78.0	31.0	25.0	43.5
Merged-chr10-37228089-4	chr10	37228009	37228209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89183.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	88.5	162.5	96.5	985.0	248.5	82.5	81.0	48.0
Merged-chr14-59201115-4	chr14	59201027	59201227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360611)	promoter-TSS (NM_001360611)	-101.0	NM_027764	71330.0	Mm.234195	NM_027764	ENSMUSG00000035469	Rcbtb1	5430409I18Rik|AW111883|CLLD7|CLLL7	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1	protein-coding	142.5	155.5	143.0	2160.5	267.5	115.0	115.0	118.0
Merged-chr2-170308124-4	chr2	170308014	170308214	+	781.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48247.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	15.0	20.5	8.5	63.0	29.5	16.5	7.0	6.5
Merged-chr7-46917939-4	chr7	46917874	46918074	+	877.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021884, intron 1 of 9)	L2a|LINE|L2	1995.0	NM_001348089	22088.0	Mm.241334	NM_021884	ENSMUSG00000014402	Tsg101	AI255943|CC2	tumor susceptibility gene 101	protein-coding	16.5	4.0	1.5	229.0	27.5	7.0	6.5	13.0
Merged-chr5-147896035-4	chr5	147895947	147896147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1232.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	59.0	62.5	84.0	1332.0	186.5	64.5	88.0	78.0
Merged-chr10-44638839-4	chr10	44638751	44638951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-180103.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	93.5	83.0	43.0	933.0	115.0	44.5	67.0	66.5
Merged-chr11-5261222-1	chr11	5261122	5261322	+	837.0	f0_c57.idr	intron (NM_032396, intron 1 of 8)	CpG	388.0	NM_032396	84035.0	Mm.209989	NM_032396	ENSMUSG00000020393	Kremen1	AV002070|Kremen|Krm1	kringle containing transmembrane protein 1	protein-coding	12.5	7.5	11.5	148.5	38.0	13.5	15.5	12.5
Merged-chr6-54718980-4	chr6	54718878	54719078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37354.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	41.5	50.5	47.5	973.0	74.5	16.0	34.5	35.5
Merged-chr2-6295242-3	chr2	6295146	6295346	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 4 of 6)	intron (NR_040333, intron 4 of 6)	-27511.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	6.0	7.5	4.5	121.0	17.0	6.5	17.0	7.5
Merged-chr12-99953127-3	chr12	99953010	99953210	+	716.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028354, intron 15 of 15)	intron (NM_028354, intron 15 of 15)	-11389.0	NM_001164426	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	4.5	12.0	5.5	48.5	8.0	5.5	7.5	13.0
Merged-chr8-120704412-3	chr8	120704327	120704527	+	846.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31931.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	6.5	12.0	5.5	59.0	21.0	9.0	15.0	3.0
Merged-chr9-114815544-4	chr9	114815460	114815660	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 1 of 3)	intron (NM_027294, intron 1 of 3)	28592.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	15.5	25.5	11.0	268.0	39.0	12.0	23.5	9.0
Merged-chr1-144203107-4	chr1	144203011	144203211	+	956.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25739.0	NM_153171	246709.0	Mm.38271	NM_153171	ENSMUSG00000051079	Rgs13	-	regulator of G-protein signaling 13	protein-coding	19.0	13.0	15.0	472.5	30.5	6.5	14.0	30.5
Merged-chr10-30842847-4	chr10	30842748	30842948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013904)	promoter-TSS (NM_013904)	-65.0	NM_013904	15214.0	Mm.103573	NM_013904	ENSMUSG00000019789	Hey2	CHF1|Herp1|Hrt2|bHLHb32|hesr2	hairy/enhancer-of-split related with YRPW motif 2	protein-coding	130.5	251.5	205.5	2868.5	361.5	130.5	144.0	118.0
Merged-chr1-55525300-4	chr1	55525215	55525415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	Lx9|LINE|L1	119369.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	74.5	103.0	72.5	1103.0	180.5	65.0	73.5	82.0
Merged-chr18-69680828-3	chr18	69680729	69680929	+	881.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 17 of 19)	intron (NM_001361128, intron 17 of 19)	-244730.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	22.5	16.5	12.0	333.5	18.5	3.5	15.0	4.0
Merged-chr3-50439023-4	chr3	50438911	50439111	+	808.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 1 of 11)	intron (NM_011990, intron 1 of 11)	4602.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	17.5	16.5	24.0	361.0	26.5	11.5	15.5	14.0
Merged-chr15-9748883-4	chr15	9748755	9748955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177123)	promoter-TSS (NM_177123)	13.0	NM_177123	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	74.0	83.5	54.0	1022.0	202.0	56.5	103.5	58.5
Merged-chr5-21488784-3	chr5	21488686	21488886	+	762.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199632, intron 19 of 20)	HAL1|LINE|L1	-54741.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	5.0	13.0	8.5	207.5	13.5	5.5	12.0	12.5
Merged-chr1-34803917-4	chr1	34803819	34804019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183019, intron 1 of 9)	(TG)n|Simple_repeat|Simple_repeat	2197.0	NM_183019	226970.0	Mm.41604	NM_183019	ENSMUSG00000037509	Arhgef4	9330140K16Rik|Asef	Rho guanine nucleotide exchange factor (GEF) 4	protein-coding	28.0	45.5	27.5	343.5	53.5	16.5	26.0	21.5
Merged-chr7-46834054-4	chr7	46833947	46834147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11757.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	69.0	112.5	88.5	1631.0	187.5	69.0	87.0	83.0
Merged-chr7-140956604-4	chr7	140956471	140956671	+	973.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030694)	promoter-TSS (NM_030694)	-610.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	27.5	30.5	11.5	223.5	30.0	10.5	13.5	16.0
Merged-chr6-146079432-4	chr6	146079359	146079559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	145337.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	64.5	105.5	64.5	1243.5	173.0	37.5	82.5	63.5
Merged-chr3-142765175-4	chr3	142765064	142765264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145546)	promoter-TSS (NM_145546)	-83.0	NM_145546	229906.0	Mm.271756	NM_145546	ENSMUSG00000028271	Gtf2b	-	general transcription factor IIB	protein-coding	222.5	391.0	251.5	3451.0	730.5	279.0	233.0	242.5
Merged-chr3-27280583-4	chr3	27280496	27280696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36481.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	27.5	21.5	26.5	327.0	81.5	18.5	18.0	27.0
Merged-chr11-4186720-4	chr11	4186616	4186816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134023)	promoter-TSS (NM_134023)	-117.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	152.5	193.0	97.5	1605.5	296.0	133.5	177.5	113.0
Merged-chr3-107785443-4	chr3	107785351	107785551	+	836.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24982.0	NM_001113529	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	8.5	9.5	7.5	119.0	36.5	7.5	10.5	6.5
Merged-chr5-115489525-2	chr5	115489425	115489625	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	U4|snRNA|snRNA	-5041.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	15.0	57.0	9.0	273.0	52.0	47.0	47.5	27.0
Merged-chr6-92214894-4	chr6	92214798	92214998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030081)	promoter-TSS (NM_030081)	-87.0	NM_030081	78287.0	Mm.290734	NM_030081	ENSMUSG00000014550	Rbsn	5330426D11Rik|Zfyve20	rabenosyn, RAB effector	protein-coding	99.5	181.0	118.5	1513.5	297.0	102.0	120.5	112.0
Merged-chr19-5922634-2	chr19	5922534	5922734	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026772, intron 1 of 1)	MIR|SINE|MIR	2182.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	8.0	8.0	3.0	32.0	8.0	5.5	4.5	4.5
Merged-chr7-104300116-3	chr7	104300009	104300209	+	896.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_023835, exon 8 of 8)	3' UTR (NM_023835, exon 8 of 8)	-12003.0	NM_001310602	667823.0	Mm.482375	NM_001310602	ENSMUSG00000060441	Trim5	EG667823|Gm8833	tripartite motif-containing 5	protein-coding	0.0	0.0	0.0	0.0	25.0	13.0	14.0	21.0
Merged-chr17-23719585-3	chr17	23719423	23719623	+	970.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6813.0	NM_023058	268930.0	Mm.182193	NM_023058	ENSMUSG00000023908	Pkmyt1	6230424P17|AW209059|Myt1	protein kinase, membrane associated tyrosine/threonine 1	protein-coding	8.5	9.0	12.0	40.0	8.5	1.5	3.5	2.0
Merged-chr4-129063280-4	chr4	129063178	129063378	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	ID4_|SINE|ID	5007.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	42.5	26.0	16.0	406.0	34.5	14.0	25.0	15.0
Merged-chr3-8981053-1	chr3	8980953	8981153	+	813.0	f0_balb.idr	intron (NM_009412, intron 1 of 5)	MTD|LTR|ERVL-MaLR	-16907.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	8.5	10.0	10.5	195.0	16.0	2.5	0.5	4.0
Merged-chr6-90737608-4	chr6	90737508	90737708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	intron (NM_001356440, intron 1 of 13)	-21079.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	48.5	67.5	31.0	580.0	146.0	51.0	45.0	61.0
Merged-chr6-148831456-4	chr6	148831281	148831481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081113)	promoter-TSS (NM_001081113)	86.0	NM_001081113	320727.0	Mm.260105	NM_001081113	ENSMUSG00000040029	Ipo8	6230418K12Rik|Abcc10|C130009K11Rik|MRP7|OM-1|Om1|Ranbp8	importin 8	protein-coding	50.5	40.5	43.5	684.0	86.5	32.5	38.0	47.5
Merged-chr19-43624143-3	chr19	43624045	43624245	+	764.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11820.0	NM_008699	18089.0	Mm.56994	NM_008699	ENSMUSG00000044220	Nkx2-3	Nkx-2.3|Nkx2.3|tinman	NK2 homeobox 3	protein-coding	8.0	5.5	7.5	100.5	22.5	9.0	10.0	9.0
Merged-chr14-20826139-3	chr14	20826034	20826234	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-10528.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	48.5	67.0	32.0	677.5	8.0	4.0	4.0	7.0
Merged-chr1-74238331-4	chr1	74238226	74238426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	intron (NM_001357387, intron 2 of 10)	1809.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	31.0	48.0	34.5	726.0	88.5	25.5	43.0	44.0
Merged-chr10-121426734-1	chr10	121426634	121426834	+	763.0	f0_c57.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	49516.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	3.0	5.0	3.5	73.0	18.0	6.5	5.5	19.0
Merged-chr2-140844234-4	chr2	140844137	140844337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 4 of 18)	intron (NM_001013802, intron 4 of 18)	-172761.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	36.0	82.0	49.0	677.0	133.0	39.5	44.5	28.5
Merged-chr13-3895892-5	chr13	3895833	3896033	+	919.5200199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019671, intron 3 of 11)	intron (NM_019671, intron 3 of 11)	-2352.0	NM_001047159	56349.0	Mm.22261	NM_019671	ENSMUSG00000021215	Net1	Net1a|mNET1	neuroepithelial cell transforming gene 1	protein-coding	4.0	10.5	13.5	78.5	9.0	5.0	6.0	8.0
Merged-chr9-44335152-4	chr9	44335052	44335252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010436, exon 1 of 1)	exon (NM_010436, exon 1 of 1)	437.0	NM_010436	15270.0	Mm.245931	NM_010436	ENSMUSG00000049932	H2afx	AW228881|H2A.X|H2ax|Hist5-2ax|gammaH2ax	H2A histone family, member X	protein-coding	24.5	35.5	13.5	258.5	84.5	26.5	22.5	38.0
Merged-chr13-117242254-4	chr13	117242157	117242357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010330, intron 2 of 8)	intron (NM_010330, intron 2 of 8)	21684.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	66.5	84.5	93.0	1223.5	126.5	36.0	59.0	62.0
Merged-chr11-52004240-4	chr11	52004148	52004348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153785)	promoter-TSS (NM_153785)	27.0	NM_001166653	213084.0	Mm.280557	NM_153785	ENSMUSG00000020389	Cdkl3	AI852479|B230379H01Rik	cyclin-dependent kinase-like 3	protein-coding	141.5	214.5	86.5	1651.0	317.5	121.5	181.5	114.5
Merged-chr4-107178519-4	chr4	107178457	107178657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025617)	promoter-TSS (NM_025617)	-73.0	NM_029565	56374.0	Mm.291192	NM_029565	ENSMUSG00000028618	Tmem59	1110001M20Rik|3110046P06Rik|AI256529|D4Ertd20e|MTDCF1|ORF18	transmembrane protein 59	protein-coding	120.5	198.0	130.5	2013.0	360.0	167.0	186.0	178.5
Merged-chr5-90964929-4	chr5	90964808	90965008	+	880.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026788, intron 5 of 7)	intron (NM_026788, intron 5 of 7)	33712.0	NM_026788	665563.0	Mm.153030	NM_026788	ENSMUSG00000029376	Mthfd2l	1110019K23Rik|C630010D07Rik	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2-like	protein-coding	18.5	20.0	11.5	254.0	21.0	10.5	15.0	10.0
Merged-chr4-148501068-3	chr4	148500960	148501160	+	839.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039554)	promoter-TSS (NM_001039554)	-598.0	NM_001039554	654812.0	Mm.388929	NM_001039554	ENSMUSG00000028989	Angptl7	-	angiopoietin-like 7	protein-coding	22.0	12.5	13.5	266.5	2.0	1.5	0.0	2.5
Merged-chr12-79359014-3	chr12	79358910	79359110	+	823.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	61659.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	9.0	19.5	9.0	120.0	22.0	7.5	7.5	4.5
Merged-chr2-160214290-3	chr2	160214183	160214383	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113211.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	29.5	40.5	32.0	383.5	27.5	19.5	21.5	25.0
Merged-chr19-55552963-3	chr19	55552841	55553041	+	863.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	149263.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	9.5	15.0	17.0	195.5	18.5	4.0	4.5	11.5
Merged-chr10-93257442-3	chr10	93257344	93257544	+	874.5166630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282967, intron 2 of 3)	intron (NM_001282967, intron 2 of 3)	53715.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	9.0	17.5	17.0	225.0	14.5	5.5	18.0	6.5
Merged-chr15-76522258-2	chr15	76522158	76522358	+	603.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130893)	promoter-TSS (NM_130893)	-129.0	NM_130893	170729.0	Mm.218747	NM_130893	ENSMUSG00000048385	Scrt1	-	scratch family zinc finger 1	protein-coding	5.0	8.5	5.5	36.0	19.0	2.5	9.0	3.0
Merged-chr11-109417672-4	chr11	109417543	109417743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8303.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	55.0	117.5	70.5	768.5	109.0	50.5	52.0	55.5
Merged-chr2-129597278-10	chr2	129597223	129597423	+	965.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	1861.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	6.0	17.0	13.5	31.5	17.0	6.0	5.0	5.0
Merged-chr16-44032582-4	chr16	44032435	44032635	+	905.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359085, intron 2 of 16)	MTE2a|LTR|ERVL-MaLR	-4590.0	NM_001172107	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	5.5	4.0	6.5	228.0	24.5	7.0	8.5	12.0
Merged-chr11-60844862-4	chr11	60844770	60844970	+	857.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172112, intron 2 of 6)	intron (NM_001172112, intron 2 of 6)	14239.0	NM_145428	216820.0	Mm.21475	NM_145428	ENSMUSG00000042569	Dhrs7b	BC003479|C79874|C80074|PexRAP	dehydrogenase/reductase (SDR family) member 7B	protein-coding	9.0	11.5	1.0	118.0	34.5	8.0	11.5	10.5
Merged-chr17-34075439-2	chr17	34075339	34075539	+	790.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16940.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	3.5	9.0	1.0	11.5	19.5	7.0	6.5	11.0
Merged-chr18-84293143-4	chr18	84293036	84293236	+	913.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	204978.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	13.5	16.0	25.5	184.0	38.0	10.5	11.5	7.0
Merged-chr5-65492957-4	chr5	65492846	65493046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133697)	promoter-TSS (NM_133697)	-111.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	196.0	394.5	202.5	2586.5	487.0	196.5	282.5	202.0
Merged-chr7-127759945-4	chr7	127759859	127760059	+	872.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172748, intron 7 of 10)	intron (NM_172748, intron 7 of 10)	-9856.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	11.5	16.0	9.0	119.0	34.0	7.5	19.5	17.0
Merged-chr10-78364258-4	chr10	78364169	78364369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12569.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	102.5	138.0	119.5	1877.0	237.0	69.5	120.5	91.5
Merged-chr1-36436794-4	chr1	36436696	36436896	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310517, intron 4 of 8)	L1MB7|LINE|L1	8475.0	NM_001013374	214895.0	Mm.287854	NM_001013374	ENSMUSG00000001143	Lman2l	A630028F14Rik|VIP36-like|VIPL	lectin, mannose-binding 2-like	protein-coding	31.0	32.0	90.0	907.0	39.0	23.0	29.5	28.0
Merged-chr15-6340545-4	chr15	6340421	6340621	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	40732.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	21.0	20.0	31.0	511.5	39.5	5.0	19.5	15.5
Merged-chr7-125600747-4	chr7	125600646	125600846	+	938.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2683.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	8.5	14.0	24.5	387.0	52.0	17.0	23.5	23.0
Merged-chr1-186445044-3	chr1	186444940	186445140	+	997.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113641.0	NR_131124	320449.0	Mm.404477	NR_131124	ENSMUSG00000103690	A730004F24Rik	-	RIKEN cDNA A730004F24 gene	ncRNA	14.5	24.0	23.0	284.5	3.5	2.0	0.0	0.0
Merged-chr15-12322044-4	chr15	12321982	12322182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025673, intron 1 of 3)	CpG	586.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	35.5	43.0	61.5	429.0	95.5	40.0	39.5	30.5
Merged-chr19-53945506-4	chr19	53945433	53945633	+	827.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195338)	promoter-TSS (NM_001195338)	657.0	NM_019658	56392.0	Mm.228669	NM_019658	ENSMUSG00000024976	Shoc2	AU017287|Sur8|mKIAA0862	soc-2 (suppressor of clear) homolog (C. elegans)	protein-coding	15.0	8.0	11.0	150.0	19.0	10.5	9.5	4.5
Merged-chr7-113514981-4	chr7	113514885	113515085	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360668, intron 1 of 12)	intron (NM_001360668, intron 1 of 12)	1151.0	NM_001360669	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	24.0	20.5	18.0	367.5	61.0	17.5	22.0	27.0
Merged-chr6-145793423-4	chr6	145793339	145793539	+	802.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamTip2|DNA|hAT-Tip100	-14944.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	17.5	19.0	6.0	369.0	22.5	11.0	26.5	27.5
Merged-chr5-65198969-3	chr5	65198875	65199075	+	697.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153391)	promoter-TSS (NM_153391)	-721.0	NM_001359880	213081.0	Mm.127550	NM_153391	ENSMUSG00000037890	Wdr19	C330027H04Rik|D330023L08Rik|DYF2|Ift144|PWDMP|mKIAA1638	WD repeat domain 19	protein-coding	8.5	7.0	6.5	59.5	8.0	2.5	4.0	4.5
Merged-chr2-119674993-4	chr2	119674866	119675066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030112)	promoter-TSS (NM_030112)	-102.0	NM_030112	76246.0	Mm.33437	NM_030112	ENSMUSG00000027304	Rtf1	2900005O08Rik|6530416A09Rik|AI853581|AU043144|AW553985|Gtl7|cbp82	RTF1, Paf1/RNA polymerase II complex component	protein-coding	70.0	136.5	107.0	1159.5	212.0	68.0	70.5	42.0
Merged-chr2-32602897-4	chr2	32602800	32603000	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025311, intron 1 of 4)	intron (NM_001025311, intron 1 of 4)	3191.0	NM_001025311	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	31.5	34.5	27.5	375.0	37.5	14.5	12.0	13.5
Merged-chr11-121342907-3	chr11	121342809	121343009	+	758.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025793, intron 2 of 9)	intron (NM_025793, intron 2 of 9)	11538.0	NM_025793	66840.0	Mm.103986	NM_025793	ENSMUSG00000025173	Wdr45b	0610008N23Rik|AA408735|D16Bwg0193e|WIPI-3|Wdr45l	WD repeat domain 45B	protein-coding	16.5	11.0	6.5	163.5	14.0	10.0	7.0	5.5
Merged-chr1-135742671-2	chr1	135742571	135742771	+	660.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_153810, intron 2 of 3)	intron (NR_153810, intron 2 of 3)	13504.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	0.0	2.5	0.0	32.5	5.5	5.0	4.5	6.0
Merged-chr1-191329184-4	chr1	191329088	191329288	+	946.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 2 of 7)	intron (NM_025864, intron 2 of 7)	3223.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	19.0	12.5	4.5	215.5	53.5	19.0	18.0	11.5
Merged-chr16-76406479-4	chr16	76406377	76406577	+	935.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32650.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	9.0	15.5	10.5	278.0	41.5	16.5	20.5	10.0
Merged-chr1-64200677-4	chr1	64200575	64200775	+	844.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79286.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	13.5	8.0	10.5	226.0	26.5	11.5	13.5	21.0
Merged-chr11-99164648-4	chr11	99164555	99164755	+	848.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9578.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	14.5	33.0	12.0	108.5	86.0	14.5	25.0	13.5
Merged-chr6-91489072-4	chr6	91488966	91489166	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028766)	TTS (NM_028766)	15315.0	NM_028766	74122.0	Mm.38801	NM_028766	ENSMUSG00000030095	Tmem43	1200015A22Rik|LUMA	transmembrane protein 43	protein-coding	44.5	29.0	17.0	315.5	31.0	19.5	16.5	10.5
Merged-chr15-59665620-4	chr15	59665570	59665770	+	877.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17016.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	7.5	16.0	21.5	282.0	16.0	2.0	17.0	7.5
Merged-chr6-134461345-4	chr6	134461219	134461419	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 17 of 22)	intron (NM_008514, intron 17 of 22)	46891.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	61.0	107.0	85.0	1305.5	44.0	15.5	23.0	13.5
Merged-chr17-48409045-4	chr17	48408954	48409154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357903)	promoter-TSS (NM_001357903)	766.0	NM_001110832	18044.0	Mm.4929	NM_010913	ENSMUSG00000023994	Nfya	AA407810|Cbf-b|SEZ-10|SEZ10	nuclear transcription factor-Y alpha	protein-coding	64.0	111.5	64.5	992.5	182.5	79.0	71.0	82.0
Merged-chr2-11188469-4	chr2	11188374	11188574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	C-rich|Low_complexity|Low_complexity	16092.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	44.0	38.5	41.5	703.0	136.0	43.0	50.5	61.5
Merged-chr3-60580945-4	chr3	60580851	60581051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	79772.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	33.0	47.0	24.5	683.0	91.5	31.0	40.0	35.5
Merged-chr1-55507279-4	chr1	55507201	55507401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	101355.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	87.0	163.0	83.5	1629.5	182.0	72.0	89.5	57.0
Merged-chr2-128818443-1	chr2	128818343	128818543	+	1000.0	f0_balb.idr	exon (NM_028248, exon 1 of 19)	exon (NM_028248, exon 1 of 19)	140.0	NM_001355629	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	45.0	88.5	96.5	870.0	111.5	64.5	41.0	77.0
Merged-chr4-133774961-7	chr4	133774978	133775178	+	999.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21467.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	47.0	39.5	15.5	341.5	100.0	31.5	26.5	27.0
Merged-chr1-92934538-5	chr1	92934486	92934686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015525, exon 2 of 2)	non-coding (NR_015525, exon 2 of 2)	178.0	NM_011796	23830.0	Mm.294315	NM_011796	ENSMUSG00000026270	Capn10	AW049679|Capn8|mKIAA1845	calpain 10	protein-coding	116.0	188.5	145.0	1856.0	280.0	152.0	162.0	145.5
Merged-chr11-3914715-4	chr11	3914642	3914842	+	826.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153142)	promoter-TSS (NM_153142)	-78.0	NM_153142	103710.0	Mm.171514	NM_153142	ENSMUSG00000048807	Slc35e4	A330108F03Rik|AI414849|AI536442	solute carrier family 35, member E4	protein-coding	8.5	20.5	4.5	99.0	30.5	7.5	11.5	10.0
Merged-chr8-24438411-3	chr8	24438303	24438503	+	991.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026931, exon 1 of 1)	3' UTR (NM_026931, exon 1 of 1)	543.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	11.0	32.0	22.0	155.0	18.0	12.5	9.5	8.5
Merged-chr18-34866114-2	chr18	34866014	34866214	+	955.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4907.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	7.5	14.5	2.0	32.5	24.5	14.0	6.5	7.0
Merged-chr9-95637813-5	chr9	95637684	95637884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029620, exon 1 of 9)	5' UTR (NM_029620, exon 1 of 9)	156.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	19.5	21.5	32.5	265.5	47.5	19.5	20.5	16.0
Merged-chr2-153357003-4	chr2	153356905	153357105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039939, intron 2 of 11)	intron (NM_001039939, intron 2 of 11)	10866.0	NM_001039939	228790.0	Mm.330677	NM_001039939	ENSMUSG00000042548	Asxl1	mKIAA0978	additional sex combs like 1	protein-coding	46.0	72.0	25.0	517.0	98.0	29.0	30.0	25.0
Merged-chr2-181237124-4	chr2	181237023	181237223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183162, intron 6 of 18)	AT_rich|Low_complexity|Low_complexity	4904.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	21.0	44.0	47.5	560.0	75.0	43.5	37.0	43.5
Merged-chr3-21962486-4	chr3	21962371	21962571	+	879.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114181.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	10.5	22.0	7.5	125.0	40.5	8.0	17.5	14.0
Merged-chr9-90380259-3	chr9	90380151	90380351	+	845.694458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-109482.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	4.5	7.5	8.0	115.5	32.0	10.0	29.0	10.0
Merged-chr1-127978237-4	chr1	127978136	127978336	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 12 of 20)	intron (NM_001285945, intron 12 of 20)	109463.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	20.5	32.0	25.5	644.5	34.0	15.5	30.0	21.0
Merged-chr15-81074700-4	chr15	81074591	81074791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	30356.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	67.5	91.0	53.5	914.5	164.5	47.5	55.5	36.0
Merged-chr6-50030109-4	chr6	50030022	50030222	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80119.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	23.5	38.5	31.5	652.0	62.0	14.0	31.5	34.0
Merged-chr13-23544403-4	chr13	23544294	23544494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178197)	promoter-TSS (NM_178197)	342.0	NM_013548	260423.0	Mm.221389	NM_013548	ENSMUSG00000100210	Hist1h3f	H3.2-221|Hist1	histone cluster 1, H3f	protein-coding	133.0	174.5	93.0	1761.5	356.0	139.0	125.5	158.0
Merged-chr12-112840366-4	chr12	112840289	112840489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10868.0	NM_001359234	71963.0	Mm.313185	NM_028023	ENSMUSG00000047832	Cdca4	2410018C03Rik|HEPP|SEI-3	cell division cycle associated 4	protein-coding	38.5	54.5	33.0	587.5	64.5	32.0	51.0	31.5
Merged-chr6-17726269-2	chr6	17726158	17726358	+	670.5	f0_balb.idr|f1_balb.idr	intron (NM_001289624, intron 1 of 15)	intron (NM_001289624, intron 1 of 15)	-17334.0	NM_001289627	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	7.5	14.0	7.0	131.5	10.5	2.5	3.0	6.5
Merged-chr16-20498851-4	chr16	20498744	20498944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172265)	promoter-TSS (NM_172265)	27.0	NM_172265	224045.0	Mm.233855	NM_172265	ENSMUSG00000003235	Eif2b5	C81315	eukaryotic translation initiation factor 2B, subunit 5 epsilon	protein-coding	64.5	69.5	36.5	774.0	115.5	50.5	52.0	47.5
Merged-chr5-86172872-4	chr5	86172755	86172955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172712)	promoter-TSS (NM_172712)	-112.0	NM_172712	231380.0	Mm.34012	NM_172712	ENSMUSG00000035898	Uba6	4930542H01|5730469D23Rik|AU021846|AW124799|E1-L2|Ube1l2	ubiquitin-like modifier activating enzyme 6	protein-coding	212.5	340.5	279.5	4212.5	619.0	252.0	293.5	261.5
Merged-chr14-46832118-4	chr14	46832005	46832205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360455)	promoter-TSS (NM_001360455)	-29.0	NM_001360454	68755.0	Mm.343809	NM_026832	ENSMUSG00000055128	Cgrrf1	1110038G02Rik|1810009H17Rik|CGR19	cell growth regulator with ring finger domain 1	protein-coding	161.0	225.5	163.0	2167.5	372.0	125.0	184.5	124.5
Merged-chr4-9657511-4	chr4	9657419	9657619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	11643.0	NM_023066	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	156.5	245.0	158.5	2014.5	511.5	183.0	203.5	198.0
Merged-chr18-39138019-4	chr18	39137923	39138123	+	912.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 10 of 21)	intron (NM_001361073, intron 10 of 21)	144878.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	15.5	17.0	37.5	277.0	27.0	9.5	10.5	6.0
Merged-chr7-13024374-4	chr7	13024213	13024413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011588, exon 1 of 17)	5' UTR (NM_011588, exon 1 of 17)	161.0	NM_011588	21849.0	Mm.15701	NM_011588	ENSMUSG00000005566	Trim28	AA408787|KAP-1|KRIP-1|MommeD9|Tif1b|Tif1beta	tripartite motif-containing 28	protein-coding	86.5	103.0	108.5	1224.0	265.5	94.5	116.0	101.0
Merged-chr8-45899916-4	chr8	45899825	45900025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016798, intron 2 of 6)	intron (NM_016798, intron 2 of 6)	14440.0	NM_016798	53318.0	Mm.282900	NM_016798	ENSMUSG00000031636	Pdlim3	AI463105|ALP|Actn2lp	PDZ and LIM domain 3	protein-coding	23.5	33.5	39.0	514.0	62.5	26.0	41.0	28.5
Merged-chr4-103025552-4	chr4	103025455	103025655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290648, intron 2 of 2)	intron (NM_001290648, intron 2 of 2)	1173.0	NM_011831	23919.0	Mm.100163	NM_011831	ENSMUSG00000066090	Insl5	RIF2	insulin-like 5	protein-coding	84.0	116.0	44.5	897.5	125.0	44.5	44.5	32.0
Merged-chr10-60269816-4	chr10	60269732	60269932	+	886.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7796.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	16.5	27.5	13.5	268.5	30.0	12.5	12.0	10.0
Merged-chr8-115626600-4	chr8	115626485	115626685	+	874.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80309.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	18.0	10.5	17.5	167.5	16.5	11.0	6.5	10.0
Merged-chr6-53573242-4	chr6	53573114	53573314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172728)	promoter-TSS (NM_172728)	-160.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	126.5	155.5	133.0	1877.0	202.0	94.5	97.5	87.0
Merged-chr1-133130042-4	chr1	133129939	133130139	+	952.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1127.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	8.0	22.0	11.0	291.5	65.0	20.5	19.0	53.5
Merged-chr3-69205808-4	chr3	69205718	69205918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16601.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	149.0	301.5	185.0	1995.0	325.5	131.0	118.5	108.5
Merged-chr3-37640966-4	chr3	37640859	37641059	+	901.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011896, intron 2 of 2)	CpG-9115	1012.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	25.0	34.0	16.0	403.5	19.5	4.5	10.5	16.5
Merged-chr9-40642835-7	chr9	40642705	40642905	+	918.9541019999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43159.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	15.5	22.0	16.5	219.5	9.0	6.5	7.0	8.5
Merged-chr19-46563152-4	chr19	46563053	46563253	+	846.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355233, intron 1 of 6)	intron (NM_001355233, intron 1 of 6)	10029.0	NM_001355233	56350.0	Mm.22085	NM_019718	ENSMUSG00000025035	Arl3	-	ADP-ribosylation factor-like 3	protein-coding	6.0	24.0	7.0	151.5	28.5	2.0	9.0	17.0
Merged-chr10-59952507-3	chr10	59952385	59952585	+	858.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029083)	promoter-TSS (NM_029083)	-715.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	11.0	12.0	16.5	54.0	13.0	13.5	13.0	7.5
Merged-chr18-54971499-4	chr18	54971392	54971592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	Lx5c|LINE|L1	18688.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	160.5	176.5	71.5	1851.5	240.0	113.5	118.0	123.0
Merged-chr15-36496797-4	chr15	36496713	36496913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175134)	promoter-TSS (NM_175134)	-22.0	NM_175134	68839.0	Mm.396537	NM_175134	ENSMUSG00000048307	Ankrd46	1110054N06Rik|AI314978|AI987733	ankyrin repeat domain 46	protein-coding	55.0	73.0	66.5	899.0	158.0	49.5	111.0	55.5
Merged-chr9-102793100-3	chr9	102793051	102793251	+	841.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41769.0	NM_013649	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	15.0	8.0	7.0	172.0	4.5	0.5	3.5	2.5
Merged-chr11-21265615-4	chr11	21265525	21265725	+	793.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290628, intron 3 of 22)	intron (NM_001290628, intron 3 of 22)	26593.0	NM_001290628	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	9.5	17.5	9.0	187.5	42.0	13.0	20.5	20.5
Merged-chr18-4031157-4	chr18	4030989	4031189	+	925.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-134743.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	5.5	10.0	4.0	127.5	25.5	11.0	10.5	6.0
Merged-chr19-56719795-2	chr19	56719695	56719895	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	-2577.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	6.0	19.0	6.0	52.0	21.0	2.5	3.5	10.0
Merged-chr1-58973506-4	chr1	58973413	58973613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172406)	promoter-TSS (NM_172406)	-9.0	NM_172656	227154.0	Mm.286006	NM_172656	ENSMUSG00000026027	Stradb	AA792893|Als2cr2|B830008M19|D1Ucla2|ILPIP|ILPIPA|PRO1038|Papk|Syradb	STE20-related kinase adaptor beta	protein-coding	134.0	142.5	87.0	1744.0	330.5	135.0	138.5	127.5
Merged-chr15-31602195-4	chr15	31602079	31602279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007637)	promoter-TSS (NM_007637)	63.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	60.0	78.5	61.0	662.0	127.0	33.0	59.0	51.0
Merged-chr14-19904180-4	chr14	19904097	19904297	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285910, intron 1 of 2)	intron (NM_001285910, intron 1 of 2)	65272.0	NR_105025	52512.0	Mm.483998	NR_105025	ENSMUSG00000114350	D14Ertd670e	-	DNA segment, Chr 14, ERATO Doi 670, expressed	ncRNA	33.5	24.5	32.5	736.5	19.5	5.0	12.0	20.5
Merged-chr2-74578272-3	chr2	74578217	74578417	+	705.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110209, intron 1 of 13)	intron (NM_001110209, intron 1 of 13)	631.0	NM_001110209	69605.0	Mm.156113	NM_027133	ENSMUSG00000009207	Lnpk	2310011O18Rik|4921514L11Rik|9530051D01Rik|AI666268|Lnp|Lnpk1|Ul|ulnaless	lunapark, ER junction formation factor	protein-coding	5.5	9.5	8.5	101.0	12.0	3.5	14.5	4.0
Merged-chr4-132113568-3	chr4	132113462	132113662	+	749.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013622, exon 3 of 3)	exon (NM_013622, exon 3 of 3)	30924.0	NM_013622	18386.0	Mm.5243	NM_013622	ENSMUSG00000050511	Oprd1	DOR|DOR-1|Nbor|mDOR	opioid receptor, delta 1	protein-coding	7.0	9.0	0.0	137.5	20.0	4.5	12.5	10.5
Merged-chr9-78427546-4	chr9	78427466	78427666	+	985.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15671.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	30.5	20.0	32.0	532.0	84.0	26.0	27.0	32.5
Merged-chr8-126569578-3	chr8	126569497	126569697	+	929.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23839.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	11.0	6.0	9.0	152.0	11.5	0.0	6.0	9.5
Merged-chr13-113871065-2	chr13	113870965	113871165	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	76557.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	5.0	1.0	9.5	48.5	6.5	7.0	5.5	8.0
Merged-chr2-131056414-3	chr2	131056347	131056547	+	736.43335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033615, intron 5 of 20)	intron (NM_033615, intron 5 of 20)	7367.0	NR_136922	110751.0	Mm.108550	NM_033615	ENSMUSG00000027318	Adam33	Adaml	a disintegrin and metallopeptidase domain 33	protein-coding	1.5	2.5	0.5	14.5	23.0	12.5	5.0	13.5
Merged-chr11-20201206-4	chr11	20201080	20201280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008996)	promoter-TSS (NM_008996)	-232.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	333.0	497.0	426.5	4798.0	802.0	363.5	417.5	313.0
Merged-chr4-141672503-4	chr4	141672437	141672637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8422.0	NM_001033150	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	75.0	87.5	48.0	664.0	94.5	45.0	52.0	48.5
Merged-chr8-108780457-5	chr8	108780411	108780611	+	829.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	65867.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	6.0	7.0	10.0	108.0	9.5	7.5	1.0	2.0
Merged-chr16-91464070-4	chr16	91463979	91464179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1025.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	54.0	24.5	41.5	576.5	98.5	42.5	37.5	43.0
Merged-chr11-107469835-4	chr11	107469734	107469934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	CpG	886.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	34.0	39.0	25.5	337.5	82.5	22.5	36.0	31.0
Merged-chr2-71353843-4	chr2	71353723	71353923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 2 of 17)	intron (NM_172436, intron 2 of 17)	13731.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	37.5	71.5	61.5	479.0	90.5	57.5	35.0	35.5
Merged-chr6-92940984-3	chr6	92940881	92941081	+	951.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	399.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	22.0	34.0	37.5	506.5	1.0	1.5	0.5	0.0
Merged-chr11-103436487-4	chr11	103436392	103436592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-23828.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	31.0	49.5	20.0	256.5	64.0	29.0	29.0	18.5
Merged-chr13-12257224-4	chr13	12257132	12257332	+	917.037476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081128, intron 1 of 32)	intron (NM_001081128, intron 1 of 32)	881.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	7.5	9.0	9.0	207.5	23.0	16.0	20.0	14.0
Merged-chr1-91051669-4	chr1	91051585	91051785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-1759.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	15.0	31.0	29.5	225.5	33.5	18.0	15.5	19.5
Merged-chr5-24604924-4	chr5	24604825	24605025	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2923.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	27.5	26.5	41.0	311.5	33.5	9.5	16.0	19.0
Merged-chr13-51741023-4	chr13	51740928	51741128	+	940.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281880, intron 2 of 16)	intron (NM_001281880, intron 2 of 16)	52719.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	10.0	47.0	8.5	171.5	61.0	20.0	23.0	21.0
Merged-chr1-88643022-4	chr1	88642923	88643123	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59168.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	12.5	22.5	21.0	216.5	43.0	19.0	12.5	8.5
Merged-chr15-76758583-3	chr15	76758485	76758685	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 2 of 10)	intron (NM_198420, intron 2 of 10)	-34740.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	11.5	7.5	2.5	133.5	21.0	9.5	5.0	8.0
Merged-chr15-5432230-4	chr15	5432152	5432352	+	925.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64066.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	11.0	43.0	23.5	85.5	68.5	22.0	19.5	15.0
Merged-chr3-129936718-3	chr3	129936618	129936818	+	870.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025779, intron 1 of 7)	intron (NM_025779, intron 1 of 7)	33488.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	9.5	19.0	9.0	185.0	10.5	8.0	10.0	11.5
Merged-chr13-58068796-3	chr13	58068688	58068888	+	888.716675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 6 of 16)	intron (NM_001195075, intron 6 of 16)	33640.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	5.0	9.0	9.0	124.5	2.5	0.0	4.0	6.5
Merged-chr9-40733545-4	chr9	40733480	40733680	+	984.708374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	47616.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	14.5	16.5	17.5	226.5	1.0	1.0	1.0	1.5
Merged-chr2-73003219-4	chr2	73003106	73003306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22760.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	38.5	35.5	41.5	668.5	66.0	19.5	20.5	29.0
Merged-chr16-35802304-4	chr16	35802178	35802378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152314, intron 3 of 8)	intron (NR_152314, intron 3 of 8)	31892.0	NM_175111	66667.0	Mm.45272	NM_175111	ENSMUSG00000022849	Hspbap1	3830421G21Rik	Hspb associated protein 1	protein-coding	26.5	49.0	50.5	870.5	134.0	26.5	68.0	56.5
Merged-chr4-129508105-4	chr4	129508000	129508200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5481.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	63.0	236.5	58.0	512.0	201.5	99.0	54.0	38.0
Merged-chr13-37845801-4	chr13	37845703	37845903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	18410.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	54.0	58.5	50.5	661.5	94.5	22.0	34.5	32.0
Merged-chr19-37443028-4	chr19	37442862	37443062	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8121.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	15.5	11.5	6.5	218.0	39.5	7.0	5.5	10.0
Merged-chr18-53167096-4	chr18	53166978	53167178	+	890.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-9214.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	15.0	5.5	15.5	180.0	26.5	7.0	16.5	27.0
Merged-chr2-158160099-4	chr2	158159972	158160172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13680.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	84.0	66.0	109.0	1923.0	168.0	47.5	84.0	88.5
Merged-chr4-129081809-4	chr4	129081709	129081909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 7 of 8)	intron (NM_029219, intron 7 of 8)	23538.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	71.5	131.0	62.0	851.5	137.0	50.5	68.0	53.0
Merged-chr19-60663208-4	chr19	60663107	60663307	+	958.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-82184.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	23.5	51.0	26.0	539.0	45.5	12.5	16.0	18.0
Merged-chr15-97348654-4	chr15	97348578	97348778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	intron (NM_172293, intron 3 of 5)	-101391.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	32.5	49.5	39.5	778.0	88.0	29.5	54.5	29.0
Merged-chr10-127537098-2	chr10	127536998	127537198	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2539.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	4.5	13.5	8.5	49.0	7.5	3.5	8.0	2.5
Merged-chr17-34032307-4	chr17	34032210	34032410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205216)	promoter-TSS (NM_001205216)	-40.0	NM_001205216	20182.0	Mm.1243	NM_011306	ENSMUSG00000039656	Rxrb	AL023085|H-2RIIBP|Nr2b2|RCoR-1|Rub	retinoid X receptor beta	protein-coding	38.0	32.5	21.5	429.0	102.0	33.0	42.5	25.5
Merged-chr13-44482885-4	chr13	44482796	44482996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	43169.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	60.5	71.5	37.0	868.5	157.0	56.5	67.0	60.0
Merged-chr9-21012061-4	chr9	21011999	21012199	+	837.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3841.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	13.5	23.0	13.5	66.5	44.0	9.0	6.0	9.5
Merged-chr1-91034324-4	chr1	91034234	91034434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	PB1D9|SINE|Alu	-19110.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	54.0	63.0	35.5	531.5	114.5	34.0	49.5	32.5
Merged-chr10-51422737-4	chr10	51422637	51422837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-57875.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	55.0	89.0	62.5	813.5	115.5	37.5	40.5	51.0
Merged-chr2-153225267-6	chr2	153225180	153225380	+	945.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198617, exon 1 of 1)	exon (NM_198617, exon 1 of 1)	161.0	NM_198617	241732.0	Mm.277243	NM_198617	ENSMUSG00000074671	Tspyl3	AW212607|Gm36	TSPY-like 3	protein-coding	1.5	7.5	11.5	112.5	28.5	5.0	5.5	10.0
Merged-chr3-30572488-3	chr3	30572364	30572564	+	958.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	27406.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	1.0	2.5	1.0	77.0	31.5	9.5	30.5	22.0
Merged-chr19-53107086-4	chr19	53107002	53107202	+	797.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30850.0	NR_045320	78457.0	Mm.76932	NR_045320	ENSMUSG00000099988	1700054A03Rik	-	RIKEN cDNA 1700054A03 gene	ncRNA	5.0	16.0	10.5	137.5	21.0	7.5	7.5	15.5
Merged-chr12-3913045-4	chr12	3912951	3913151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001271753, exon 23 of 23)	3' UTR (NM_001271753, exon 23 of 23)	21307.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	38.5	48.0	63.0	934.5	93.0	23.0	34.5	27.0
Merged-chr9-61267424-4	chr9	61267293	61267493	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045334, intron 3 of 4)	intron (NR_045334, intron 3 of 4)	26416.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	13.5	33.0	18.0	340.0	42.0	12.5	22.0	15.0
Merged-chr8-82940128-4	chr8	82940001	82940201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	intron (NM_177378, intron 1 of 6)	76745.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	94.5	79.5	128.0	2130.0	56.5	23.0	41.5	24.5
Merged-chr9-37242996-3	chr9	37242900	37243100	+	841.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145960, intron 1 of 18)	intron (NM_001145960, intron 1 of 18)	12738.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	10.0	12.5	12.5	231.5	20.5	6.0	1.5	2.5
Merged-chr12-79171746-4	chr12	79171657	79171857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016800, intron 1 of 5)	intron (NM_016800, intron 1 of 5)	701.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	54.5	44.0	43.5	435.0	70.0	23.5	25.5	19.0
Merged-chr19-25036966-3	chr19	25036858	25037058	+	714.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 1 of 47)	intron (NM_028785, intron 1 of 47)	37429.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	0.0	1.0	1.0	60.0	30.5	8.0	9.5	12.5
Merged-chr19-48049494-4	chr19	48049381	48049581	+	992.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111769.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	19.0	21.0	45.0	337.0	20.5	13.5	24.0	28.5
Merged-chr12-111462403-3	chr12	111462289	111462489	+	942.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	19728.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	5.5	18.5	8.0	108.0	13.5	0.0	5.0	2.0
Merged-chr14-26441240-4	chr14	26441136	26441336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 14 of 22)	PB1D10|SINE|Alu	83689.0	NR_038005	71106.0	Mm.158564	NR_038005	ENSMUSG00000021874	4933413J09Rik	GCSE	RIKEN cDNA 4933413J09 gene	ncRNA	21.5	40.5	24.0	425.0	63.5	26.0	33.5	28.0
Merged-chr19-32595801-4	chr19	32595690	32595890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201470)	promoter-TSS (NM_001201470)	75.0	NM_001201470	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	28.0	37.5	40.0	594.5	63.0	31.0	17.5	31.5
Merged-chr8-11037620-1	chr8	11037520	11037720	+	785.0	f0_balb.idr	intron (NR_046017, intron 1 of 4)	intron (NR_046017, intron 1 of 4)	-29190.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	17.5	10.0	8.0	179.0	23.5	4.5	8.5	10.5
Merged-chr13-104610695-7	chr13	104610583	104610783	+	993.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206270.0	NM_026072	67285.0	Mm.235398	NM_026072	ENSMUSG00000021715	Cwc27	3110009E13Rik|NY-CO-10|Sdccag10	CWC27 spliceosome-associated protein	protein-coding	14.5	25.0	11.0	356.5	35.5	25.0	28.5	30.0
Merged-chr10-40125359-4	chr10	40125263	40125463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	16891.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	206.0	285.5	237.5	3391.5	464.5	173.5	295.0	198.0
Merged-chr2-11205197-4	chr2	11205101	11205301	+	851.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	MTD|LTR|ERVL-MaLR	32819.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	7.5	10.0	14.0	164.5	33.0	11.0	21.0	14.5
Merged-chr1-36073379-4	chr1	36073274	36073474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	MLT1A1|LTR|ERVL-MaLR	4974.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	40.5	95.0	74.5	707.5	118.0	48.0	53.0	20.0
Merged-chr8-114133581-4	chr8	114133487	114133687	+	961.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290182)	promoter-TSS (NM_001290182)	13.0	NM_024437	67528.0	Mm.27889	NM_024437	ENSMUSG00000031767	Nudt7	1300007B24Rik|2210404C19Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 7	protein-coding	15.5	25.0	6.5	290.0	54.0	19.0	16.0	19.5
Merged-chr15-97449170-4	chr15	97449067	97449267	+	880.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-201880.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	9.5	15.5	13.5	233.0	28.5	14.5	9.0	13.5
Merged-chr6-108709677-4	chr6	108709545	108709745	+	789.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48711.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	8.5	14.5	14.5	54.0	18.5	7.0	10.0	11.0
Merged-chr1-183804433-4	chr1	183804312	183804512	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151520, intron 2 of 2)	intron (NR_151520, intron 2 of 2)	55435.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	2.5	12.0	14.5	203.5	26.0	4.5	18.0	18.0
Merged-chr7-132793722-3	chr7	132793624	132793824	+	999.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	-6789.0	NM_175268	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	8.5	18.5	18.0	400.0	14.0	4.0	5.0	7.5
Merged-chr11-93820901-4	chr11	93820823	93821023	+	830.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64843.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	9.5	6.0	7.5	160.0	30.5	13.0	10.0	12.5
Merged-chr9-65676519-4	chr9	65676435	65676635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010952)	promoter-TSS (NM_010952)	-13.0	NM_010952	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	100.5	134.5	73.5	1150.0	246.0	72.0	104.0	76.0
Merged-chr11-106779552-4	chr11	106779476	106779676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027785)	promoter-TSS (NR_027785)	-39.0	NM_015810	50776.0	Mm.859	NM_015810	ENSMUSG00000020718	Polg2	mtPolB|p55|polG-beta	polymerase (DNA directed), gamma 2, accessory subunit	protein-coding	95.0	186.0	45.0	977.5	227.0	102.5	108.0	87.5
Merged-chr2-38484873-5	chr2	38484840	38485040	+	989.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26757.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	4.0	16.5	10.5	154.0	34.0	19.0	9.5	18.5
Merged-chr5-146734255-3	chr5	146734167	146734367	+	759.516663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011669)	TTS (NM_011669)	60689.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	5.0	0.0	7.0	58.0	20.0	10.0	5.5	9.5
Merged-chr1-177491201-4	chr1	177491087	177491287	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45366.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	25.5	31.5	32.0	384.5	56.5	13.5	17.5	26.5
Merged-chr9-124068297-3	chr9	124068198	124068398	+	936.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33885.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	11.0	17.5	10.0	265.5	14.0	13.5	5.5	7.5
Merged-chr7-110237758-1	chr7	110237658	110237858	+	654.333313	f0_balb.idr	intron (NM_009302, intron 1 of 11)	intron (NM_009302, intron 1 of 11)	16055.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	7.5	8.0	7.5	107.5	11.5	6.5	4.5	9.0
Merged-chr11-121706929-4	chr11	121706839	121707039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 1 of 3)	intron (NM_144797, intron 1 of 3)	4512.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	31.0	54.0	16.5	544.0	132.0	22.5	41.5	42.0
Merged-chr18-75019205-1	chr18	75019105	75019305	+	1000.0	f1_c57bl6.idr	intron (NM_027727, intron 1 of 16)	CpG	433.0	NM_027727	69190.0	Mm.173826	NM_027727	ENSMUSG00000035765	Dym	1810041M12Rik|4933427L07Rik|C030019K18Rik	dymeclin	protein-coding	20.5	46.0	21.0	376.5	53.0	20.0	24.0	34.5
Merged-chr7-92638343-4	chr7	92638244	92638444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1202.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	106.5	144.0	96.5	1198.0	275.5	59.5	85.5	91.5
Merged-chr19-45311118-4	chr19	45311004	45311204	+	811.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52630.0	NM_001360122	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	12.0	7.0	11.5	84.5	16.0	3.0	9.5	2.5
Merged-chr4-62626588-4	chr4	62626490	62626690	+	837.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 14 of 19)	intron (NM_019492, intron 14 of 19)	6918.0	NM_134257	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	14.5	13.0	10.0	131.0	26.5	9.0	14.5	11.5
Merged-chr7-47015899-4	chr7	47015809	47016009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-7495.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	71.0	75.5	72.0	888.0	135.5	31.0	81.0	34.0
Merged-chr5-36582001-4	chr5	36581908	36582108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113362, intron 2 of 14)	CpG	389.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	344.5	494.5	340.0	3743.5	765.0	319.0	393.0	295.0
Merged-chr2-129186355-4	chr2	129186217	129186417	+	775.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5644.0	NR_045264	100048701.0	Mm.428544	NR_045264	ENSMUSG00000084826	AI847159	-	expressed sequence AI847159	ncRNA	6.0	19.0	5.5	75.5	18.0	9.5	3.5	16.5
Merged-chr18-60202324-3	chr18	60202225	60202425	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9752.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	8.0	10.5	4.5	126.5	31.0	4.0	5.0	7.5
Merged-chr19-46524343-4	chr19	46524235	46524435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22687.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	41.0	59.0	26.5	295.0	87.5	27.0	49.5	27.5
Merged-chr8-122281484-4	chr8	122281394	122281594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009569)	promoter-TSS (NM_009569)	-647.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	270.0	370.0	235.5	2827.0	640.5	285.5	311.5	263.0
Merged-chr16-44773857-4	chr16	44773762	44773962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	8126.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	25.0	33.0	35.0	572.0	48.5	23.0	21.0	25.5
Merged-chr10-22743700-4	chr10	22743594	22743794	+	954.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12247.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	29.5	42.0	33.5	346.5	36.0	8.0	14.5	18.5
Merged-chr11-86724167-4	chr11	86724075	86724275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 8 of 31)	intron (NM_001003908, intron 8 of 31)	33392.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	64.0	91.5	41.0	695.0	156.5	54.0	60.5	64.0
Merged-chr3-136329219-3	chr3	136329134	136329334	+	736.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3168.0	NM_001033350	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	13.0	16.5	11.5	113.0	17.0	8.5	6.0	7.5
Merged-chr14-103349565-4	chr14	103349460	103349660	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2760.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	27.5	43.0	28.5	604.5	52.5	29.5	36.0	21.5
Merged-chr17-63393037-3	chr17	63392950	63393150	+	777.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	intron (NM_015794, intron 4 of 8)	-80077.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	11.5	2.5	3.0	123.5	10.5	7.0	10.0	8.0
Merged-chr2-165858230-3	chr2	165858129	165858329	+	954.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252585)	promoter-TSS (NM_001252585)	-56.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	11.0	16.0	13.0	94.0	34.0	20.5	24.5	18.5
Merged-chr11-101963959-6	chr11	101963874	101964074	+	960.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024449, exon 2 of 2)	exon (NM_024449, exon 2 of 2)	3041.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	12.5	5.5	7.0	145.0	23.0	10.5	7.0	7.0
Merged-chr8-95067730-4	chr8	95067600	95067800	+	819.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042715, intron 7 of 17)	intron (NM_001042715, intron 7 of 17)	12597.0	NM_001042715	330830.0	Mm.277112	NM_001042715	ENSMUSG00000031786	Drc7	Ccdc135|Gm770|SRG-L|SRG-S	dynein regulatory complex subunit 7	protein-coding	8.0	12.5	6.0	75.5	24.5	8.0	10.0	12.0
Merged-chr7-101546857-4	chr7	101546748	101546948	+	882.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	8954.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	14.0	31.5	6.0	405.5	23.0	4.0	7.5	12.0
Merged-chr10-111160356-4	chr10	111160243	111160443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-4459.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	27.0	82.5	38.5	502.0	56.5	15.0	16.5	18.5
Merged-chr8-22859317-4	chr8	22859239	22859439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081149)	promoter-TSS (NM_001081149)	-200.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	135.5	202.5	178.0	1556.0	509.0	186.0	165.5	156.5
Merged-chr10-122535334-4	chr10	122535233	122535433	+	979.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34558.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	15.5	25.0	16.0	510.5	38.5	8.5	23.5	37.0
Merged-chr4-124851236-4	chr4	124851133	124851333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142727)	promoter-TSS (NM_001142727)	474.0	NM_153566	230734.0	Mm.258568	NM_153566	ENSMUSG00000028889	Yrdc	AV303379|BC023823|IRIP|ITIP	yrdC domain containing (E.coli)	protein-coding	65.0	83.5	43.0	774.5	127.0	44.0	48.5	37.5
Merged-chr6-47878033-1	chr6	47877933	47878133	+	1000.0	f0_balb.idr	intron (NM_146175, intron 1 of 7)	CpG	478.0	NM_146175	101095.0	Mm.440186	NM_146175	ENSMUSG00000025821	Zfp282	AI449432|C81429|E430019K09Rik|HUB1	zinc finger protein 282	protein-coding	27.0	16.5	21.5	252.0	24.0	7.5	15.0	9.5
Merged-chr17-44777629-4	chr17	44777518	44777718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178652, intron 1 of 11)	CpG	452.0	NM_178652	109115.0	Mm.431327	NM_178652	ENSMUSG00000038954	Supt3	2310066G22Rik|AI315192|SPT3|SPT3L|Supt3h	suppressor of Ty 3	protein-coding	69.0	93.5	71.0	1102.0	163.0	69.0	80.5	57.5
Merged-chr14-55781428-4	chr14	55781262	55781462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080435, intron 4 of 25)	intron (NM_080435, intron 4 of 25)	2710.0	NM_080435	104110.0	Mm.287010	NM_080435	ENSMUSG00000022220	Adcy4	mKIAA4004	adenylate cyclase 4	protein-coding	29.5	53.0	28.5	429.5	64.0	18.0	19.5	29.0
Merged-chr5-34518109-4	chr5	34518007	34518207	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4128.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	15.5	36.5	17.0	142.0	76.0	9.0	20.0	12.0
Merged-chr6-15720918-8	chr6	15720866	15721066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 1 of 4)	CpG	305.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	36.0	39.5	59.0	496.5	45.5	29.0	30.5	42.5
Merged-chr9-25559401-2	chr9	25559311	25559511	+	646.166626	f0_balb.idr|f0_c57.idr	intron (NM_026189, intron 3 of 7)	Lx4B|LINE|L1	77814.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	7.5	6.0	10.0	81.5	31.5	9.0	12.5	4.5
Merged-chr16-11063274-4	chr16	11063174	11063374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3024.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	81.5	226.0	117.5	598.0	258.5	93.0	97.5	33.0
Merged-chr19-7235028-4	chr19	7234915	7235115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027643, intron 2 of 7)	intron (NM_027643, intron 2 of 7)	6207.0	NM_027643	70999.0	Mm.329605	NM_027643	ENSMUSG00000024764	Naa40	4931433E08Rik|AU023197|Nat11|NatD	N(alpha)-acetyltransferase 40, NatD catalytic subunit	protein-coding	52.5	52.5	24.0	474.0	96.5	33.5	43.0	45.5
Merged-chr10-127534617-7	chr10	127534529	127534729	+	830.392883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183297)	promoter-TSS (NM_183297)	-70.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	6.0	21.0	2.0	42.5	36.0	8.5	4.5	9.0
Merged-chr15-73421512-4	chr15	73421423	73421623	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358046, intron 1 of 34)	intron (NM_001358046, intron 1 of 34)	1668.0	NM_007982	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	22.5	19.5	18.5	289.5	40.0	15.0	17.5	20.0
Merged-chr4-63817749-4	chr4	63817659	63817859	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	43525.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	25.5	18.5	20.0	433.0	57.0	14.0	16.0	40.5
Merged-chr3-97775026-4	chr3	97774917	97775117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 8 of 46)	intron (NM_001039376, intron 8 of 46)	-7003.0	NR_110360	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	88.0	133.5	56.0	921.5	173.5	96.0	66.5	70.0
Merged-chr19-5568985-4	chr19	5568914	5569114	+	981.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033448, exon 2 of 2)	exon (NM_001033448, exon 2 of 2)	990.0	NM_001033448	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	19.0	30.5	11.0	248.0	90.5	24.5	23.0	27.5
Merged-chr8-33646970-4	chr8	33646867	33647067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-4991.0	NM_178648	108159.0	Mm.29301	NM_178648	ENSMUSG00000052906	Ubxn8	D0H8S2298E|Rep-8|Rep8h|Ubxd6	UBX domain protein 8	protein-coding	48.5	39.5	39.5	1030.5	100.0	30.0	50.5	51.0
Merged-chr3-65905780-3	chr3	65905676	65905876	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52473.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	10.0	8.0	16.0	140.5	16.5	9.0	7.5	10.0
Merged-chr10-79926992-4	chr10	79926899	79927099	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007880)	promoter-TSS (NM_007880)	-44.0	NM_001288626	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	37.5	41.0	14.0	366.0	104.0	23.0	31.0	36.5
Merged-chr18-34502657-3	chr18	34502560	34502760	+	833.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146084, intron 1 of 20)	intron (NM_146084, intron 1 of 20)	4163.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	10.0	20.5	18.0	249.5	34.0	4.0	7.5	10.5
Merged-chr16-16856913-4	chr16	16856808	16857008	+	901.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A|LTR|ERVK	7077.0	NM_001190325	16136.0	Mm.184441	NM_001190325	ENSMUSG00000075370	Igll1	BB139905|Igl-5|Igll|Lambda5	immunoglobulin lambda-like polypeptide 1	protein-coding	12.5	12.5	13.5	249.0	49.0	23.5	19.5	17.5
Merged-chr2-98662333-4	chr2	98662233	98662433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	1194676.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	1787.0	1169.0	2306.5	41464.5	3224.5	1343.5	1116.5	2464.0
Merged-chr7-16263554-10	chr7	16263468	16263668	+	896.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4028.0	NM_007577	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	8.0	7.5	9.5	88.5	12.5	3.5	3.0	4.5
Merged-chr2-154594084-4	chr2	154593989	154594189	+	844.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021534, intron 2 of 3)	intron (NM_021534, intron 2 of 3)	9584.0	NM_021534	59038.0	Mm.24673	NM_021534	ENSMUSG00000000876	Pxmp4	3010018P03Rik|Pmp24	peroxisomal membrane protein 4	protein-coding	11.0	2.5	14.5	132.5	21.0	6.0	13.0	19.5
Merged-chr3-61426096-4	chr3	61425990	61426190	+	918.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61583.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	22.0	10.5	11.5	342.5	44.0	12.5	19.0	13.0
Merged-chr11-68691795-4	chr11	68691697	68691897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175260)	promoter-TSS (NM_175260)	-118.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	121.5	143.5	82.0	1482.0	234.0	78.5	124.5	81.5
Merged-chr12-26469291-4	chr12	26469212	26469412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020557)	promoter-TSS (NM_020557)	97.0	NM_020557	22169.0	Mm.271839	NM_020557	ENSMUSG00000020638	Cmpk2	1200004E04Rik|TDKI|Tyki	cytidine monophosphate (UMP-CMP) kinase 2, mitochondrial	protein-coding	101.5	94.5	68.0	1362.0	225.5	88.0	87.5	58.5
Merged-chr2-31785258-4	chr2	31785150	31785350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283046, intron 5 of 11)	intron (NM_001283046, intron 5 of 11)	25077.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	25.5	41.0	30.0	562.0	76.5	25.5	37.5	47.5
Merged-chr2-163602293-4	chr2	163602185	163602385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181734)	promoter-TSS (NM_181734)	-29.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	66.0	106.0	34.5	1024.0	157.5	70.5	69.5	67.5
Merged-chr8-26380854-3	chr8	26380761	26380961	+	911.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	222692.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	11.0	23.0	11.0	218.5	11.0	8.5	4.5	12.5
Merged-chr5-107900608-4	chr5	107900549	107900749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016980, intron 1 of 7)	CpG	121.0	NM_016980	100503670.0	Mm.277897	NM_016980	ENSMUSG00000058558	Rpl5	U21RNA	ribosomal protein L5	protein-coding	72.0	115.0	102.0	542.5	145.5	66.0	66.0	85.5
Merged-chr3-14832981-3	chr3	14832861	14833061	+	969.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24596.0	NM_009799	12346.0	Mm.273195	NM_009799	ENSMUSG00000027556	Car1	AW555628|Ca1|Car-1	carbonic anhydrase 1	protein-coding	37.0	16.0	82.5	1273.0	15.0	5.0	11.0	3.5
Merged-chr8-125950451-4	chr8	125950358	125950558	+	848.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40008.0	NM_145608	234878.0	Mm.216458	NM_145608	ENSMUSG00000031853	Map3k21	Mlk4|mKIAA1804	mitogen-activated protein kinase kinase kinase 21	protein-coding	9.0	23.0	9.0	163.0	38.5	7.5	13.5	13.5
Merged-chr1-9701215-2	chr1	9701126	9701326	+	769.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1017.0	NM_008651	17864.0	Mm.479	NM_008651	ENSMUSG00000025912	Mybl1	A-myb|G1-419-6|repro9	myeloblastosis oncogene-like 1	protein-coding	5.5	5.0	6.0	30.5	7.5	0.5	4.5	8.5
Merged-chr3-148419815-3	chr3	148419717	148419917	+	813.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	534818.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	4.0	5.5	18.0	106.0	6.0	7.0	6.5	6.0
Merged-chr10-80348517-4	chr10	80348427	80348627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285435)	promoter-TSS (NM_001285435)	-79.0	NR_104340	66548.0	Mm.71891	NM_025629	ENSMUSG00000043822	Adamtsl5	2010109H09Rik|Thsd6	ADAMTS-like 5	protein-coding	27.5	64.0	26.0	408.5	63.5	24.5	53.0	24.5
Merged-chr10-17528482-3	chr10	17528389	17528589	+	676.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-194739.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	7.5	6.0	11.5	142.0	12.5	6.0	5.0	4.5
Merged-chr2-45116781-1	chr2	45116681	45116881	+	1000.0	f0_c57.idr	intron (NM_001355288, intron 1 of 10)	intron (NM_001355288, intron 1 of 10)	661.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	7.0	25.0	8.0	57.0	46.5	21.5	16.0	19.0
Merged-chr1-121464707-4	chr1	121464607	121464807	+	976.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 11 of 23)	intron (NM_029955, intron 11 of 23)	33640.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	23.5	10.5	20.5	468.5	59.0	23.0	38.0	28.0
Merged-chr17-34206080-4	chr17	34205973	34206173	+	855.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011530, intron 3 of 11)	B2_Mm2|SINE|B2	1594.0	NM_011530	21355.0	Mm.14814	NM_011530	ENSMUSG00000024339	Tap2	ABC18|AI462429|APT2|Abcb3|Ham-2|Ham2|MTP2|PSF2|RING11|Tap-2|Y1|jas	transporter 2, ATP-binding cassette, sub-family B (MDR/TAP)	protein-coding	10.0	13.0	9.0	83.5	42.5	16.5	19.0	16.0
Merged-chr5-96164111-6	chr5	96163935	96164135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2045.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	30.5	47.5	17.0	422.0	59.0	18.5	14.5	21.0
Merged-chr10-98776469-4	chr10	98776369	98776569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138173.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	115.5	117.0	68.0	1111.5	242.0	85.5	82.5	84.0
Merged-chr5-134179982-4	chr5	134179860	134180060	+	931.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3193.0	NM_033572	94254.0	Mm.29508	NM_033572	ENSMUSG00000061979	Rcc1l	5730496C04Rik|AU019812|Wbscr16	reculator of chromosome condensation 1 like	protein-coding	13.0	15.0	10.5	134.5	44.5	9.0	6.5	17.0
Merged-chr2-50705127-1	chr2	50705027	50705227	+	761.0	f0_balb.idr	Intergenic	Intergenic	-204557.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	5.0	6.5	9.5	113.5	16.5	8.5	7.0	5.5
Merged-chr4-107253703-4	chr4	107253618	107253818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355459)	promoter-TSS (NM_001355459)	26.0	NM_001355460	72938.0	Mm.21787	NM_028394	ENSMUSG00000063172	Hspb11	2900042B11Rik|IFT25|PP25	heat shock protein family B (small), member 11	protein-coding	362.0	495.5	375.0	4884.5	571.0	287.0	257.5	259.5
Merged-chr13-86046776-4	chr13	86046610	86046810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007749)	promoter-TSS (NM_007749)	85.0	NM_007749	12867.0	Mm.378898	NM_007749	ENSMUSG00000017778	Cox7c	COXVIIc|Cox7c1	cytochrome c oxidase subunit VIIc	protein-coding	80.5	148.0	171.5	1055.5	289.0	104.0	132.5	130.0
Merged-chr17-15068344-3	chr17	15068255	15068455	+	612.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15296.0	NM_001034891	381062.0	Mm.393767	NM_183133	ENSMUSG00000036552	Ermard	2210404J11Rik|2410011O22Rik|AI448938	ER membrane associated RNA degradation	protein-coding	10.5	8.0	10.5	114.0	8.5	7.0	9.5	8.5
Merged-chr11-11777009-4	chr11	11776900	11777100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31962.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	18.0	94.0	46.5	690.0	135.5	38.0	59.5	46.5
Merged-chr9-58582182-4	chr9	58582097	58582297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009145)	promoter-TSS (NM_009145)	-43.0	NM_001293673	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	204.0	376.0	202.0	2199.0	516.0	237.0	193.5	161.0
Merged-chr10-78143994-3	chr10	78143886	78144086	+	784.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25782.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	5.0	13.0	6.0	84.0	26.0	11.0	7.0	16.5
Merged-chr3-55978535-4	chr3	55978437	55978637	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 30 of 57)	L2|LINE|L2	131432.0	NR_033592	71182.0	Mm.195603	NR_033592	ENSMUSG00000106572	4933417G07Rik	-	SEC13 homolog pseudogene	pseudo	16.5	36.0	32.0	442.0	25.0	24.5	24.0	28.0
Merged-chr3-21961992-4	chr3	21961906	21962106	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114646.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	11.5	34.5	12.0	127.5	70.0	19.5	17.0	15.5
Merged-chr11-63097450-4	chr11	63097336	63097536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31546.0	NM_001302258	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	17.0	40.0	27.0	387.5	105.0	17.0	36.5	37.0
Merged-chr19-55681460-4	chr19	55681361	55681561	+	841.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	MER58B|DNA|hAT-Charlie	20743.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	9.5	6.0	13.0	94.5	47.5	16.0	10.5	10.0
Merged-chr16-38392330-3	chr16	38392223	38392423	+	848.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30133.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	7.5	8.0	6.0	127.0	15.0	2.0	4.5	4.0
Merged-chr1-165658795-4	chr1	165658698	165658898	+	859.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 3 of 5)	intron (NM_001038846, intron 3 of 5)	-24257.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	9.0	7.0	9.5	134.5	37.5	4.0	10.0	14.5
Merged-chr8-66400201-4	chr8	66400095	66400295	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	Lx8|LINE|L1	13894.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	12.0	11.5	20.0	208.0	21.0	7.5	17.0	11.5
Merged-chr10-81129547-4	chr10	81129438	81129638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6733.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	38.5	51.5	29.5	737.0	108.0	28.0	40.0	35.5
Merged-chr10-100138710-4	chr10	100138549	100138749	+	982.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122828.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	18.0	23.5	32.5	284.5	40.0	9.5	31.0	11.0
Merged-chr4-40313202-4	chr4	40313097	40313297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040663)	promoter-TSS (NR_040663)	-35.0	NR_040663	75819.0	Mm.399244	NR_040663	ENSMUSG00000087137	4930509K18Rik	-	RIKEN cDNA 4930509K18 gene	ncRNA	44.5	70.0	38.5	703.5	135.0	41.0	28.5	60.5
Merged-chr5-25166826-4	chr5	25166736	25166936	+	760.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14644.0	NM_026449	67909.0	Mm.141471	NM_026449	ENSMUSG00000028938	Galntl5	1700021B12Rik|Galnt15	UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 5	protein-coding	10.0	19.0	13.5	338.0	11.5	9.5	11.5	16.5
Merged-chr2-102948709-4	chr2	102948611	102948811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47046.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	84.0	169.5	70.5	1205.5	142.5	64.0	60.0	81.5
Merged-chr7-19474264-4	chr7	19474151	19474351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-15757.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	22.0	29.5	12.5	229.0	70.5	37.5	21.0	17.5
Merged-chr1-46832175-4	chr1	46832081	46832281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356416, intron 4 of 10)	intron (NM_001356416, intron 4 of 10)	21437.0	NM_001356416	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	32.0	29.0	37.0	575.5	108.0	41.5	59.0	51.0
Merged-chr15-27702967-4	chr15	27702909	27703109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21467.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	50.0	31.5	49.5	910.0	79.5	19.0	29.0	42.0
Merged-chr18-69415710-4	chr18	69415659	69415859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	69599.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	13.5	18.0	27.5	207.0	28.5	26.0	17.0	24.0
Merged-chr2-5035909-4	chr2	5035813	5036013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 7 of 13)	ID_B1|SINE|B4	-23122.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	36.0	31.5	24.5	412.5	124.0	44.5	49.0	61.5
Merged-chr19-37698904-3	chr19	37698801	37699001	+	703.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007811, exon 3 of 7)	exon (NM_007811, exon 3 of 7)	1093.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	8.0	22.5	6.5	79.0	4.0	4.0	4.5	8.0
Merged-chr9-22117696-3	chr9	22117620	22117820	+	935.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357309)	promoter-TSS (NM_001357309)	-525.0	NM_001357312	66126.0	Mm.29801	NM_170777	ENSMUSG00000013822	Elof1	1110011K10Rik	ELF1 homolog, elongation factor 1	protein-coding	11.0	6.0	14.0	107.0	21.0	6.5	8.5	10.0
Merged-chr9-57907387-2	chr9	57907287	57907487	+	839.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEd|LINE|L1	-3599.0	NM_027086	69459.0	Mm.41735	NM_027086	ENSMUSG00000055720	Ubl7	2300004C15Rik	ubiquitin-like 7 (bone marrow stromal cell-derived)	protein-coding	5.0	20.5	5.0	57.0	60.5	6.0	7.5	10.5
Merged-chr10-41385656-4	chr10	41385559	41385759	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64699.0	NM_001277229	268294.0	Mm.258475	NM_153398	ENSMUSG00000019826	Zbtb24	BC055367|Bif1|Bsg1|ZNF450	zinc finger and BTB domain containing 24	protein-coding	34.5	40.5	28.0	654.5	75.5	22.5	36.0	17.0
Merged-chr4-141646807-3	chr4	141646686	141646886	+	884.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	17329.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	1.0	3.0	2.0	69.5	24.0	8.0	8.5	18.5
Merged-chr17-23748266-4	chr17	23748165	23748365	+	857.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015472)	promoter-TSS (NR_015472)	-971.0	NR_015472	638247.0	Mm.382600	NR_015472	ENSMUSG00000097006	9530082P21Rik	E030034P13Rik	RIKEN cDNA 9530082P21 gene	ncRNA	10.0	15.0	8.5	166.5	34.0	11.0	12.0	15.5
Merged-chr2-120137188-2	chr2	120137088	120137288	+	963.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 1 of 5)	ID_B1|SINE|B4	17387.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	7.0	14.5	9.5	121.0	13.0	6.5	5.0	12.5
Merged-chr4-46490029-2	chr4	46489929	46490129	+	697.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_053179, intron 1 of 5)	intron (NM_053179, intron 1 of 5)	700.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	8.5	7.5	4.5	43.0	9.0	0.0	3.5	5.0
Merged-chr7-47007316-4	chr7	47007178	47007378	+	903.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175318, intron 1 of 5)	intron (NM_175318, intron 1 of 5)	1136.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	4.5	12.0	6.5	138.0	12.0	3.0	10.0	13.0
Merged-chr8-104340714-4	chr8	104340614	104340814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024217, exon 1 of 5)	5' UTR (NM_024217, exon 1 of 5)	120.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	91.0	114.5	116.5	1501.0	270.5	79.5	139.5	90.5
Merged-chr5-99828699-4	chr5	99828582	99828782	+	788.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-74709.0	NR_131054	330133.0	Mm.447264	NR_131054	ENSMUSG00000105218	Gm38413	A830083F22|Gm43248	predicted gene, 38413	ncRNA	5.5	11.0	11.0	189.0	25.0	8.5	16.0	15.0
Merged-chr15-80035662-3	chr15	80035540	80035740	+	963.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20832.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	16.5	24.5	28.0	345.5	18.0	7.0	4.5	10.5
Merged-chr3-37302903-3	chr3	37302806	37303006	+	604.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9540.0	NM_145825	207175.0	Mm.344708	NM_145825	ENSMUSG00000045031	Cetn4	-	centrin 4	protein-coding	9.0	9.0	5.5	90.0	5.5	3.0	13.5	5.0
Merged-chr9-61022720-4	chr9	61022650	61022850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5681.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	100.5	177.5	182.0	1726.5	305.0	132.0	165.5	148.0
Merged-chr5-65199579-4	chr5	65199459	65199659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153391)	promoter-TSS (NM_153391)	-137.0	NM_001359880	213081.0	Mm.127550	NM_153391	ENSMUSG00000037890	Wdr19	C330027H04Rik|D330023L08Rik|DYF2|Ift144|PWDMP|mKIAA1638	WD repeat domain 19	protein-coding	244.5	358.5	222.0	3708.0	540.5	197.0	281.5	218.5
Merged-chr6-13603329-4	chr6	13603205	13603405	+	964.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028990, exon 2 of 5)	exon (NM_028990, exon 2 of 5)	4793.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	16.5	37.0	18.5	178.5	41.0	27.0	7.0	11.0
Merged-chr5-96794446-4	chr5	96794342	96794542	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013470, intron 1 of 12)	intron (NM_013470, intron 1 of 12)	1057.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	13.0	27.5	32.5	370.5	33.5	6.5	11.5	7.0
Merged-chr1-95449943-4	chr1	95449854	95450054	+	856.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136326.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	13.5	7.5	8.0	254.5	22.0	15.0	13.0	8.5
Merged-chr1-95593034-2	chr1	95592934	95593134	+	595.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	intron (NM_009183, intron 4 of 4)	74560.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	7.0	7.0	4.5	66.5	15.5	6.5	4.5	3.0
Merged-chr1-138972645-4	chr1	138972505	138972705	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	4884.0	NM_181347	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	4.0	15.0	16.0	227.5	17.0	6.5	7.5	11.5
Merged-chr1-43264642-4	chr1	43264547	43264747	+	856.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67886.0	NM_001289533	14200.0	Mm.6799	NM_010212	ENSMUSG00000008136	Fhl2	FHL-2|SLIM-3|SLIM3	four and a half LIM domains 2	protein-coding	18.5	18.0	19.5	200.0	13.5	8.0	10.5	10.5
Merged-chr10-96622522-3	chr10	96622407	96622607	+	898.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007569, exon 2 of 2)	3' UTR (NM_007569, exon 2 of 2)	5506.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	12.0	20.5	5.0	53.5	21.0	8.0	2.0	7.5
Merged-chr9-66882593-4	chr9	66882517	66882717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	37088.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	42.5	54.5	93.5	1089.5	68.5	26.5	39.5	43.0
Merged-chr19-10940586-3	chr19	10940494	10940694	+	787.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023731)	TTS (NM_023731)	3434.0	NM_009962	14764.0	Mm.470721	NM_009962	ENSMUSG00000034117	Ptgdr2	Crth2|Gpr44|Grp45	prostaglandin D2 receptor 2	protein-coding	4.5	12.0	5.5	37.0	18.5	8.5	5.0	11.5
Merged-chr6-138141430-4	chr6	138141314	138141514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361309)	promoter-TSS (NM_001361309)	-173.0	NM_001347489	56615.0	Mm.14796	NM_019946	ENSMUSG00000008540	Mgst1	1500002K10Rik|Gst	microsomal glutathione S-transferase 1	protein-coding	58.5	52.0	80.0	933.5	88.0	24.5	38.0	43.5
Merged-chr9-64018982-7	chr9	64018845	64019045	+	886.078247	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 1 of 3)	intron (NM_008542, intron 1 of 3)	3114.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	4.5	10.5	16.0	121.5	16.0	4.0	5.5	3.0
Merged-chr15-81190880-4	chr15	81190785	81190985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015603)	promoter-TSS (NR_015603)	32.0	NR_015603	67638.0	Mm.390832	NM_026288	ENSMUSG00000047938	4930483J18Rik	-	RIKEN cDNA 4930483J18 gene	ncRNA	307.5	427.0	277.5	3837.5	663.0	243.5	329.5	227.5
Merged-chr3-144605973-4	chr3	144605860	144606060	+	824.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	35533.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	8.0	13.5	12.5	84.0	27.5	3.5	10.0	4.0
Merged-chr17-35186165-7	chr17	35186061	35186261	+	990.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010734, intron 3 of 3)	intron (NM_010734, intron 3 of 3)	2279.0	NM_010734	16988.0	Mm.19379	NM_010734	ENSMUSG00000073412	Lst1	B144	leukocyte specific transcript 1	protein-coding	23.0	27.0	21.0	250.0	38.0	12.5	11.5	17.0
Merged-chr5-9032823-3	chr5	9032724	9032924	+	802.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-35678.0	NM_023733	74114.0	Mm.28197	NM_023733	ENSMUSG00000003623	Crot	1200003H03Rik	carnitine O-octanoyltransferase	protein-coding	11.5	6.0	8.5	191.5	18.5	0.0	5.0	4.5
Merged-chr7-48998871-4	chr7	48998738	48998938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	39765.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	37.0	53.5	59.0	1157.5	120.0	36.5	88.5	30.0
Merged-chr2-163758364-3	chr2	163758259	163758459	+	932.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8120.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	30.0	16.5	47.5	611.0	15.0	3.5	7.0	9.0
Merged-chr8-95014299-3	chr8	95014193	95014393	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001198894)	TTS (NM_001198894)	-3399.0	NM_173036	54672.0	Mm.27995	NM_173036	ENSMUSG00000060470	Adgrg3	A030001G24Rik|AW214383|Gpr97|Pb1|Pb99	adhesion G protein-coupled receptor G3	protein-coding	5.0	4.5	7.5	190.5	19.0	2.0	9.0	9.5
Merged-chr5-137122793-3	chr5	137122687	137122887	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6580.0	NM_201373	384309.0	Mm.100647	NM_201373	ENSMUSG00000043279	Trim56	A130009K11Rik|Gm452|RNF109	tripartite motif-containing 56	protein-coding	9.0	22.5	4.5	81.0	31.0	7.0	6.5	7.0
Merged-chr2-126932648-2	chr2	126932556	126932756	+	811.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_023220, intron 1 of 14)	intron (NM_023220, intron 1 of 14)	579.0	NM_023220	66552.0	Mm.269928	NM_023220	ENSMUSG00000027366	Sppl2a	2010106G01Rik|C130089K23Rik	signal peptide peptidase like 2A	protein-coding	4.0	8.5	2.5	30.0	16.0	11.0	6.5	7.0
Merged-chr10-4611546-3	chr10	4611445	4611645	+	830.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302532)	promoter-TSS (NM_001302532)	-444.0	NM_001302532	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	14.5	4.5	17.0	99.5	26.0	3.0	6.5	8.5
Merged-chr10-121375458-4	chr10	121375364	121375564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 3 of 13)	intron (NM_029364, intron 3 of 13)	10374.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	96.5	130.5	108.5	1822.5	295.5	67.0	135.5	100.5
Merged-chr11-60115355-4	chr11	60115237	60115437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009021, intron 1 of 5)	CpG	10324.0	NM_009021	19377.0	Mm.296366	NM_009021	ENSMUSG00000062115	Rai1	Gt1	retinoic acid induced 1	protein-coding	163.0	202.0	143.5	2338.0	396.0	127.0	134.5	110.0
Merged-chr6-8209212-4	chr6	8209121	8209321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145374)	promoter-TSS (NM_145374)	-6.0	NM_145374	252875.0	Mm.257151	NM_145374	ENSMUSG00000042447	Mios	C81488	meiosis regulator for oocyte development	protein-coding	179.0	303.0	200.5	3252.5	444.0	172.0	225.5	165.5
Merged-chr2-24949637-4	chr2	24949510	24949710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147179)	promoter-TSS (NM_147179)	-167.0	NM_026021	67187.0	Mm.296106	NM_026021	ENSMUSG00000026974	Zmynd19	2700064H14Rik|AA536891|AU014915|mizip	zinc finger, MYND domain containing 19	protein-coding	134.5	164.5	182.5	1535.0	400.0	121.0	137.5	153.5
Merged-chr1-164136139-4	chr1	164136044	164136244	+	972.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011347, intron 8 of 15)	intron (NM_011347, intron 8 of 15)	-15691.0	NM_007976	14067.0	Mm.12900	NM_007976	ENSMUSG00000026579	F5	AI173222|Cf-5|Cf5	coagulation factor V	protein-coding	36.5	37.0	33.0	388.5	40.5	7.5	14.5	14.5
Merged-chr14-25466465-3	chr14	25466327	25466527	+	841.1555789999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	7242.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	14.0	11.5	11.5	165.5	15.0	5.5	4.0	3.5
Merged-chr15-83031078-4	chr15	83030957	83031157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271411, intron 1 of 5)	intron (NM_001271411, intron 1 of 5)	-1107.0	NM_001271413	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	42.5	46.0	55.0	740.5	102.0	30.0	46.0	39.0
Merged-chr12-85487954-4	chr12	85487889	85488089	+	948.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14099.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	12.5	17.0	6.5	87.0	40.0	16.0	16.0	15.5
Merged-chr2-93642814-4	chr2	93642740	93642940	+	718.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007442, exon 1 of 4)	exon (NM_007442, exon 1 of 4)	406.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	0.0	8.0	5.0	140.0	7.0	9.0	7.0	6.0
Merged-chr7-38271404-4	chr7	38271238	38271438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025390)	promoter-TSS (NM_025390)	10.0	NM_025390	66161.0	Mm.22284	NM_025390	ENSMUSG00000030423	Pop4	1110023P21Rik|Rpp29	processing of precursor 4, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	38.0	67.0	41.0	722.0	73.5	31.0	48.5	29.0
Merged-chr1-135282733-4	chr1	135282625	135282825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 1 of 9)	intron (NM_001159624, intron 1 of 9)	1359.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	117.5	209.0	110.0	1771.5	275.0	135.0	132.0	136.0
Merged-chr6-48086649-4	chr6	48086548	48086748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347142)	promoter-TSS (NM_001347142)	-55.0	NM_001362062	69228.0	Mm.207555	NM_001163475	ENSMUSG00000057691	Zfp746	2810407L07Rik|AI317225|Znf746	zinc finger protein 746	protein-coding	136.5	133.5	104.5	1607.5	236.0	105.5	123.5	121.5
Merged-chr13-23684094-4	chr13	23684004	23684204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178189)	promoter-TSS (NM_178189)	-95.0	NM_001290380	68024.0	Mm.261676	NM_023422	ENSMUSG00000018102	Hist1h2bc	2610022J01Rik|H2bfs|R74621	histone cluster 1, H2bc	protein-coding	176.5	242.5	206.0	2804.5	538.5	205.5	250.5	221.0
Merged-chr2-76648183-4	chr2	76648089	76648289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011871)	promoter-TSS (NM_011871)	-195.0	NM_011871	23992.0	Mm.277250	NM_011871	ENSMUSG00000002731	Prkra	AV120107|PRK|Pact|RAX|lear	protein kinase, interferon inducible double stranded RNA dependent activator	protein-coding	469.5	557.0	539.5	6536.5	1035.0	446.0	541.0	383.5
Merged-chr6-145765159-4	chr6	145765048	145765248	+	903.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43235.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	9.0	19.5	46.0	1131.5	37.0	6.5	21.0	28.5
Merged-chr10-95894992-3	chr10	95894910	95895110	+	684.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45653.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	5.5	4.5	7.0	86.5	14.0	3.0	6.0	6.0
Merged-chr15-53409401-4	chr15	53409309	53409509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63226.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	42.0	47.0	25.0	602.5	108.0	23.5	44.5	23.0
Merged-chr3-27982728-4	chr3	27982596	27982796	+	964.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164056, intron 2 of 26)	intron (NM_001164056, intron 2 of 26)	-1475.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	12.5	19.5	14.5	249.0	39.5	15.0	11.5	13.0
Merged-chr7-63936479-4	chr7	63936351	63936551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	2464.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	37.5	59.0	72.0	553.0	112.5	61.5	49.5	42.0
Merged-chr2-102973084-7	chr2	102972969	102973169	+	955.1825560000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71404.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	5.0	11.5	7.0	78.5	17.0	8.5	4.0	7.5
Merged-chr19-47837390-4	chr19	47837294	47837494	+	747.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027559)	promoter-TSS (NM_027559)	-33.0	NM_027559	100048534.0	Mm.29457	NM_027559	ENSMUSG00000044948	Cfap43	4632415N18Rik|4930428C11Rik|4930463G05Rik|AI429486|D19Ertd652e|Wdr96	cilia and flagella associated protein 43	protein-coding	11.0	23.0	5.0	103.0	18.0	8.0	9.0	7.0
Merged-chr6-8691836-2	chr6	8691736	8691936	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 5 of 11)	RMER17C|LTR|ERVK	66622.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	14.5	2.0	9.5	67.0	12.0	8.0	6.5	6.0
Merged-chr3-69006517-3	chr3	69006416	69006616	+	749.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356976, intron 2 of 23)	intron (NM_001356976, intron 2 of 23)	1778.0	NM_133786	70099.0	Mm.206841	NM_133786	ENSMUSG00000034349	Smc4	2500002A22Rik|C79747|SMC-4|Smc4l1	structural maintenance of chromosomes 4	protein-coding	6.0	9.0	9.5	102.5	14.0	6.5	9.5	6.0
Merged-chr13-37322947-4	chr13	37322866	37323066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22379.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	18.0	33.5	21.0	191.5	49.0	27.0	22.0	22.0
Merged-chr12-17690517-4	chr12	17690563	17690763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361645)	promoter-TSS (NM_001361645)	-146.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	114.0	185.0	172.0	1423.0	206.5	103.0	110.0	99.0
Merged-chr1-184852459-4	chr1	184852385	184852585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6638.0	NM_133684	67247.0	Mm.177724	NM_133684	ENSMUSG00000073481	Marc2	2810484M10Rik|Mosc2|mARC1	mitochondrial amidoxime reducing component 2	protein-coding	140.5	154.5	96.0	1715.5	246.0	104.5	116.5	85.0
Merged-chr15-79141289-4	chr15	79141193	79141393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310579)	promoter-TSS (NM_001310579)	-32.0	NM_027231	69833.0	Mm.279861	NM_027231	ENSMUSG00000033020	Polr2f	1810060D16Rik|RPB6	polymerase (RNA) II (DNA directed) polypeptide F	protein-coding	45.5	47.0	44.0	501.0	118.0	49.5	40.0	54.5
Merged-chr15-103340209-4	chr15	103340125	103340325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013866)	promoter-TSS (NM_013866)	-139.0	NM_013866	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	26.0	36.5	26.0	324.5	54.5	25.5	25.0	29.5
Merged-chr16-33624932-4	chr16	33624824	33625024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134251, exon 9 of 13)	exon (NM_134251, exon 9 of 13)	-59542.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	25.0	33.0	15.5	510.5	50.0	25.5	47.5	31.5
Merged-chr8-33731826-4	chr8	33731702	33731902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167921)	promoter-TSS (NM_001167921)	-112.0	NM_001167921	68153.0	Mm.286104	NM_026584	ENSMUSG00000031585	Gtf2e2	34kDa|AI462509|C330006J08Rik	general transcription factor II E, polypeptide 2 (beta subunit)	protein-coding	178.5	283.5	207.5	3375.5	381.0	161.5	225.5	128.5
Merged-chr11-40733989-4	chr11	40733861	40734061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013552)	promoter-TSS (NM_013552)	300.0	NM_001290697	52653.0	Mm.276504	NM_026023	ENSMUSG00000020328	Nudcd2	-	NudC domain containing 2	protein-coding	38.5	52.0	70.5	563.5	83.0	33.0	40.0	51.5
Merged-chr3-152396525-4	chr3	152396414	152396614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287139)	promoter-TSS (NM_001287139)	-170.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	162.5	239.0	276.0	2307.5	283.0	170.0	107.0	164.5
Merged-chr17-45574314-4	chr17	45574209	45574409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1048.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	62.0	64.0	53.5	1110.5	131.0	30.5	43.0	39.0
Merged-chr7-139978740-4	chr7	139978634	139978834	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347613)	promoter-TSS (NM_001347613)	21.0	NM_001347614	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	19.0	39.5	21.5	455.0	54.5	13.5	33.0	13.5
Merged-chr11-68503019-4	chr11	68502927	68503127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081566)	promoter-TSS (NM_001081566)	8.0	NR_126154	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	44.5	71.5	38.5	517.0	120.0	50.5	44.5	30.5
Merged-chr14-66147767-4	chr14	66147677	66147877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144803, intron 5 of 6)	intron (NM_144803, intron 5 of 6)	6817.0	NM_144803	110902.0	Mm.57350	NM_144803	ENSMUSG00000022041	Chrna2	Acra-2|Acra2|BC011490	cholinergic receptor, nicotinic, alpha polypeptide 2 (neuronal)	protein-coding	50.0	93.5	48.5	662.0	166.0	61.0	47.5	43.5
Merged-chr12-17657769-4	chr12	17657728	17657928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-32981.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	56.5	70.0	73.0	571.0	110.5	47.0	44.5	58.0
Merged-chr19-8771028-4	chr19	8770944	8771144	+	897.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025791)	promoter-TSS (NM_025791)	48.0	NM_025791	66836.0	Mm.440071	NM_025791	ENSMUSG00000010097	Tmem223	0610006I08Rik	transmembrane protein 223	protein-coding	19.0	20.0	13.5	172.5	37.0	12.5	22.5	9.5
Merged-chr3-59224931-3	chr3	59224822	59225022	+	806.43335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357010, intron 1 of 3)	intron (NM_001357010, intron 1 of 3)	-14040.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	11.0	6.0	1.5	64.5	43.0	14.5	9.0	17.0
Merged-chr3-79980949-2	chr3	79980849	79981049	+	676.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95019.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	4.5	5.5	6.5	197.0	17.0	6.0	2.0	3.5
Merged-chr5-93206005-4	chr5	93205901	93206101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029363)	promoter-TSS (NM_029363)	494.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	22.5	40.5	18.5	293.5	80.5	25.0	32.0	42.0
Merged-chr7-3614162-3	chr7	3614070	3614270	+	688.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175632, intron 2 of 4)	intron (NM_175632, intron 2 of 4)	1987.0	NM_175632	232790.0	Mm.358882	NM_175632	ENSMUSG00000054594	Oscar	mOSCAR|mOSCAR-M1|mOSCAR-M2|mOSCAR-M3	osteoclast associated receptor	protein-coding	11.0	20.5	12.5	142.5	26.5	4.5	6.0	1.5
Merged-chr6-117907727-4	chr6	117907620	117907820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166428)	intron (NM_133834, intron 1 of 3)	-84.0	NM_001166428	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	137.0	272.0	145.5	2097.5	341.5	131.0	146.0	158.0
Merged-chr4-134526402-4	chr4	134526294	134526494	+	851.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029759, exon 7 of 7)	3' UTR (NM_029759, exon 7 of 7)	8702.0	NM_001355188	76824.0	Mm.30153	NM_029759	ENSMUSG00000046671	Mtfr1l	2410166I05Rik|AI480750|Fam54b	mitochondrial fission regulator 1-like	protein-coding	4.0	15.0	8.5	100.0	21.0	9.5	17.5	22.5
Merged-chr7-19577492-6	chr7	19577359	19577559	+	815.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022409, exon 1 of 3)	exon (NM_022409, exon 1 of 3)	172.0	NM_022409	63872.0	Mm.23310	NM_022409	ENSMUSG00000011267	Zfp296	2210018A16Rik|Znf296	zinc finger protein 296	protein-coding	5.0	1.5	11.0	55.5	17.5	5.5	5.0	14.5
Merged-chr7-102015061-4	chr7	102014966	102015166	+	783.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133947)	TTS (NM_133947)	3089.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	11.0	14.0	15.0	200.5	29.0	11.0	7.0	3.0
Merged-chr11-53820858-3	chr11	53820752	53820952	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 2 of 3)	intron (NR_033332, intron 2 of 3)	38404.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	6.0	21.0	5.0	36.5	134.0	19.0	29.0	32.5
Merged-chr14-63050980-4	chr14	63050873	63051073	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3982.0	NM_001034910	619548.0	Mm.387101	NM_001034910	ENSMUSG00000054763	Defb42	BD-42|Defb44|mBD-42	defensin beta 42	protein-coding	17.0	63.5	37.0	331.0	44.5	22.5	38.0	36.0
Merged-chr6-52240580-3	chr6	52240485	52240685	+	826.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001122950, exon 1 of 2)	5' UTR (NM_001122950, exon 1 of 2)	269.0	NM_001122950	15395.0	Mm.5	NM_008263	ENSMUSG00000000938	Hoxa10	Hox-1.8|Hoxa-10	homeobox A10	protein-coding	9.5	12.5	5.0	113.5	8.5	8.0	4.0	2.5
Merged-chr10-57759173-4	chr10	57759092	57759292	+	987.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25731.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	22.0	24.0	35.5	505.0	46.0	17.0	17.5	13.0
Merged-chr7-4950785-1	chr7	4950685	4950885	+	1000.0	f0_balb.idr	Intergenic	Intergenic	13563.0	NM_001146329	381836.0	Mm.297829	NM_001146329	ENSMUSG00000030433	Sbk2	Gm1079|Sgk069	SH3-binding domain kinase family, member 2	protein-coding	24.5	41.0	26.5	340.5	9.0	1.0	0.5	1.5
Merged-chr4-6469097-3	chr4	6468996	6469196	+	839.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14825.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	6.0	7.5	10.5	93.0	12.0	11.5	8.5	9.0
Merged-chr8-80739380-2	chr8	80739280	80739480	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053124)	promoter-TSS (NM_053124)	79.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	89.5	199.0	112.5	547.5	286.0	112.0	106.0	112.0
Merged-chr1-94681009-4	chr1	94680902	94681102	+	689.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-116440.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	8.0	9.5	11.5	265.0	23.0	11.5	9.5	19.0
Merged-chr3-65965448-2	chr3	65965348	65965548	+	772.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7199.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	5.5	7.5	4.0	56.0	39.5	9.0	7.5	14.0
Merged-chr17-35135859-1	chr17	35135759	35135959	+	1000.0	f0_c57.idr	intron (NM_001252469, intron 1 of 23)	intron (NM_001252469, intron 1 of 23)	145.0	NM_001252469	224727.0	Mm.203962	NM_057171	ENSMUSG00000024392	Bag6	2410045D21Rik|AA408914|BAG-6|Bat3|D17H6S52E|G3|Scythe	BCL2-associated athanogene 6	protein-coding	28.5	65.5	24.5	317.5	116.5	45.5	46.5	30.0
Merged-chr1-152616235-4	chr1	152616148	152616348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	(TTTTG)n|Simple_repeat|Simple_repeat	8969.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	41.5	59.5	25.0	376.5	99.5	33.5	27.5	37.5
Merged-chr14-30876227-4	chr14	30876137	30876337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028839, exon 8 of 8)	3' UTR (NM_028839, exon 8 of 8)	-3020.0	NM_181390	66175.0	Mm.220895	NM_181390	ENSMUSG00000042485	Mustn1	1110028G01Rik|Mustang	musculoskeletal, embryonic nuclear protein 1	protein-coding	38.5	39.5	45.5	997.0	63.5	20.0	51.0	35.0
Merged-chr4-59862190-3	chr4	59862101	59862301	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 2 of 8)	intron (NM_172468, intron 2 of 8)	52855.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	38.0	37.5	33.5	366.5	10.0	4.0	8.5	4.0
Merged-chr15-57881003-4	chr15	57880907	57881107	+	791.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024207, intron 2 of 7)	intron (NM_024207, intron 2 of 7)	11411.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	5.0	17.5	7.5	82.0	21.5	6.0	6.5	13.0
Merged-chr13-74090481-3	chr13	74090390	74090590	+	937.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28205.0	NM_028959	74470.0	Mm.73234	NM_028959	ENSMUSG00000021572	Cep72	2610029E11Rik|4933440J22Rik	centrosomal protein 72	protein-coding	6.5	12.0	12.0	262.0	21.5	8.0	7.0	13.5
Merged-chr18-89162554-4	chr18	89162440	89162640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34887.0	NM_178687	225825.0	Mm.139293	NM_178687	ENSMUSG00000034028	Cd226	BC051526|DNAM-1|DNAM1|Pta1|TLiSA1	CD226 antigen	protein-coding	38.0	48.0	56.0	885.5	130.0	25.0	69.0	63.0
Merged-chr15-93576049-3	chr15	93575949	93576149	+	673.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033217, intron 1 of 7)	intron (NM_001033217, intron 1 of 7)	19842.0	NM_001033217	106042.0	Mm.150314	NM_001033217	ENSMUSG00000036158	Prickle1	1110058P22Rik|AW215793|Prickle|b2b019Clo|mpk1	prickle planar cell polarity protein 1	protein-coding	5.0	9.5	4.5	181.0	20.5	11.5	10.5	10.0
Merged-chr2-130697543-5	chr2	130697381	130697581	+	893.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081162)	promoter-TSS (NM_001081162)	38.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	8.5	16.5	14.0	179.0	13.5	5.5	9.5	21.0
Merged-chr11-106475481-1	chr11	106475381	106475581	+	556.0	f0_balb.idr	intron (NM_023913, intron 1 of 21)	intron (NM_023913, intron 1 of 21)	12315.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	7.0	6.0	7.0	81.5	5.0	4.0	5.0	4.5
Merged-chr1-37867258-4	chr1	37867159	37867359	+	734.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1961.0	NM_001290720	211484.0	Mm.332756	NM_207228	ENSMUSG00000060771	Tsga10	4933432N21Rik|AI843383|Gm217|Mtsga10	testis specific 10	protein-coding	10.5	26.5	2.0	118.5	29.0	17.5	17.5	8.0
Merged-chr12-35039207-2	chr12	35039107	35039307	+	829.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7982.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	3.0	11.5	5.5	24.0	15.5	4.5	7.0	9.5
Merged-chr19-55655714-4	chr19	55655643	55655843	+	920.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	(CAGTG)n|Simple_repeat|Simple_repeat	46461.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	15.0	26.0	5.5	196.5	32.5	16.5	11.5	8.5
Merged-chr7-74684162-4	chr7	74684063	74684263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-129383.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	148.5	184.0	136.0	3011.5	477.0	190.0	174.0	193.0
Merged-chr10-121366671-3	chr10	121366582	121366782	+	941.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	PB1D9|SINE|Alu	1592.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	9.0	6.5	2.5	76.5	37.5	8.0	14.0	13.5
Merged-chr10-81129904-1	chr10	81129804	81130004	+	556.0	f0_balb.idr	Intergenic	Intergenic	-6367.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	4.5	7.0	6.0	44.5	22.5	13.0	9.0	3.5
Merged-chr12-100776201-4	chr12	100776089	100776289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2868.0	NM_001361023	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	98.0	144.0	98.5	1037.5	137.5	59.0	56.0	66.5
Merged-chr6-31178437-3	chr6	31178338	31178538	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 2 of 2)	intron (NR_110470, intron 2 of 2)	40036.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	8.0	5.0	6.0	97.5	4.5	4.0	5.5	8.5
Merged-chr2-158310884-2	chr2	158310798	158310998	+	739.916626	f0_c57.idr|f1_c57bl6.idr	intron (NM_008489, intron 3 of 14)	intron (NM_008489, intron 3 of 14)	4405.0	NM_008489	16803.0	Mm.218846	NM_008489	ENSMUSG00000016024	Lbp	Bpifd2|Ly88	lipopolysaccharide binding protein	protein-coding	1.0	0.0	0.5	10.5	16.5	9.5	14.5	12.5
Merged-chr2-58199619-4	chr2	58199488	58199688	+	840.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35614.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	10.0	14.0	3.0	199.0	26.0	6.0	13.5	12.5
Merged-chr1-106320805-4	chr1	106320704	106320904	+	931.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 4 of 16)	intron (NM_133821, intron 4 of 16)	148935.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	16.0	23.0	19.5	239.5	40.0	14.5	27.0	12.5
Merged-chr7-38025076-4	chr7	38024992	38025192	+	885.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-5540.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	28.0	28.0	19.0	474.5	31.0	12.5	6.5	2.0
Merged-chr12-85745935-4	chr12	85745834	85746034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145447)	promoter-TSS (NM_145447)	-605.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	37.5	73.5	18.5	473.5	72.5	36.0	49.0	30.0
Merged-chr1-127976704-4	chr1	127976599	127976799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 12 of 20)	intron (NM_001285945, intron 12 of 20)	107926.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	23.5	34.5	42.5	650.5	70.0	19.5	45.5	27.5
Merged-chr10-80323041-4	chr10	80322936	80323136	+	949.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008793, exon 12 of 15)	exon (NM_008793, exon 12 of 15)	-2488.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	20.5	17.5	13.0	213.5	43.0	7.5	15.0	17.0
Merged-chr15-38299282-4	chr15	38299160	38299360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013692, intron 1 of 3)	CpG	640.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	339.5	526.5	355.0	3904.5	809.0	384.5	377.5	269.5
Merged-chr3-78314552-4	chr3	78314456	78314656	+	890.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	830331.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	6.0	6.5	16.5	286.5	26.0	10.5	14.0	8.0
Merged-chr1-173441376-3	chr1	173441271	173441471	+	695.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	intron (NM_001013779, intron 2 of 8)	20767.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	10.0	12.0	10.0	67.0	9.5	5.5	2.5	5.5
Merged-chr13-35087890-3	chr13	35087794	35087994	+	672.477783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79910.0	NR_153831	75197.0	Mm.234091	NR_153831	ENSMUSG00000113906	4930529N20Rik	-	RIKEN cDNA 4930529N20 gene	ncRNA	13.5	9.5	11.5	70.0	20.5	2.0	3.0	5.0
Merged-chr17-74017847-4	chr17	74017750	74017950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053188, intron 4 of 4)	intron (NM_053188, intron 4 of 4)	30066.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	37.5	32.0	27.5	469.0	79.0	37.5	49.5	38.0
Merged-chr3-133543267-4	chr3	133543163	133543363	+	932.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040400, intron 1 of 10)	intron (NM_001040400, intron 1 of 10)	1127.0	NM_001040400	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	10.5	20.0	13.0	114.0	15.5	5.5	14.5	15.0
Merged-chr10-89745711-6	chr10	89745577	89745777	+	999.357178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029166, intron 1 of 20)	CpG	686.0	NM_029166	75089.0	Mm.268922	NM_029166	ENSMUSG00000019951	Uhrf1bp1l	2010319N22Rik|4930506D01Rik|AA589495|C80672|E030041M21Rik|mKIAA0701	UHRF1 (ICBP90) binding protein 1-like	protein-coding	9.5	11.5	21.5	123.0	27.0	13.0	16.0	13.0
Merged-chr13-24633326-4	chr13	24633212	24633412	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178658, intron 1 of 13)	(CAAAA)n|Simple_repeat|Simple_repeat	-5336.0	NM_001080381	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	12.5	31.0	3.0	222.5	27.5	8.5	14.0	7.5
Merged-chr13-52585195-4	chr13	52585040	52585240	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198977, intron 1 of 13)	intron (NM_001198977, intron 1 of 13)	1703.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	26.0	21.5	18.0	224.0	37.0	11.0	18.5	9.5
Merged-chr6-34938587-4	chr6	34938479	34938679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009292, intron 8 of 8)	intron (NM_009292, intron 8 of 8)	17631.0	NM_009292	20899.0	Mm.5171	NM_009292	ENSMUSG00000029848	Stra8	-	stimulated by retinoic acid gene 8	protein-coding	14.0	28.5	32.0	384.5	53.5	14.0	30.0	28.5
Merged-chr15-80025893-4	chr15	80025779	80025979	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11071.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	55.5	147.0	55.0	394.5	66.0	19.5	7.0	12.0
Merged-chr5-136084495-4	chr5	136084398	136084598	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	582.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	12.5	28.0	17.0	101.5	34.5	12.5	11.0	20.0
Merged-chr13-22029282-3	chr13	22029210	22029410	+	573.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6333.0	NM_175659	319168.0	Mm.250564	NM_175659	ENSMUSG00000069302	Hist1h2ah	-	histone cluster 1, H2ah	protein-coding	9.0	21.5	10.5	79.5	15.5	3.5	5.5	8.0
Merged-chr5-149015561-1	chr5	149015461	149015661	+	908.0	f1_balb.idr	Intergenic	CpG	8599.0	NR_040429	100503307.0	Mm.188008	NR_040429	ENSMUSG00000086610	Gm15408	-	predicted gene 15408	ncRNA	2.0	2.0	19.0	67.5	8.5	7.5	6.0	6.0
Merged-chr11-99177254-3	chr11	99177124	99177324	+	871.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22147.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	5.0	15.0	10.0	61.0	15.5	5.0	11.5	6.0
Merged-chr8-11462301-4	chr8	11462276	11462476	+	863.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-15553.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	6.0	16.0	13.0	118.5	18.0	5.0	5.5	7.0
Merged-chr16-30262304-3	chr16	30262207	30262407	+	748.233337	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027904, intron 1 of 1)	MIR|SINE|MIR	5225.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	5.0	6.0	6.5	56.5	17.0	12.5	10.5	12.5
Merged-chr9-78050572-4	chr9	78050487	78050687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1371.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	82.5	211.0	137.0	1498.5	296.5	104.0	126.0	118.0
Merged-chr5-85924608-3	chr5	85924537	85924737	+	829.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140946.0	NM_001345902	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	4.5	6.5	17.0	193.0	9.5	9.5	7.5	5.5
Merged-chr14-52316053-5	chr14	52315911	52316111	+	831.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015772, intron 1 of 1)	intron (NM_015772, intron 1 of 1)	312.0	NM_001244916	50524.0	Mm.39487	NM_015772	ENSMUSG00000049532	Sall2	AI225809|AW559097|Msal-2|Sal-2|mKIAA0360|p150(Sal2)	spalt like transcription factor 2	protein-coding	5.0	5.5	4.5	50.5	8.5	6.5	2.0	6.0
Merged-chr4-40680586-4	chr4	40680491	40680691	+	807.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22325.0	NM_025545	66408.0	Mm.430710	NM_025545	ENSMUSG00000028411	Aptx	2410016G21Rik|AA388047|FHA-HIT	aprataxin	protein-coding	7.0	15.0	7.0	124.0	24.5	6.5	12.5	2.5
Merged-chr7-131391893-2	chr7	131391793	131391993	+	623.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_175115, exon 4 of 4)	exon (NM_175115, exon 4 of 4)	18585.0	NM_175115	67143.0	Mm.334273	NM_175115	ENSMUSG00000040167	Ikzf5	2610034F18Rik|PEGASUS|Zfpn1a5	IKAROS family zinc finger 5	protein-coding	5.5	6.0	10.5	50.5	11.0	2.5	2.0	11.0
Merged-chr1-34840479-3	chr1	34840390	34840590	+	796.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 1 of 6)	intron (NM_001160236, intron 1 of 6)	2560.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	7.0	7.0	1.5	93.0	16.0	12.5	5.5	5.0
Merged-chr10-75872932-4	chr10	75872762	75872962	+	856.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12G|LTR|ERVK	-12612.0	NM_010798	17319.0	Mm.2326	NM_010798	ENSMUSG00000033307	Mif	GIF|Glif	macrophage migration inhibitory factor (glycosylation-inhibiting factor)	protein-coding	12.5	6.0	8.5	121.5	13.0	8.5	9.5	9.0
Merged-chr4-152325770-4	chr4	152325673	152325873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102292)	promoter-TSS (NR_102292)	47.0	NR_102291	19934.0	Mm.307846	NM_009079	ENSMUSG00000028936	Rpl22	2700038K18Rik	ribosomal protein L22	protein-coding	231.5	347.5	205.0	2507.0	479.5	232.5	234.5	163.0
Merged-chr16-27388998-4	chr16	27388925	27389125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026202)	promoter-TSS (NM_026202)	69.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	57.0	83.0	79.5	637.5	140.5	72.0	50.5	36.0
Merged-chr5-72199005-4	chr5	72198916	72199116	+	670.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-4313.0	NR_003966	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	5.0	13.5	15.0	85.0	27.5	8.0	2.5	11.5
Merged-chr5-114700143-3	chr5	114700045	114700245	+	859.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER54A|LTR|ERVL	-7634.0	NM_029992	77832.0	Mm.239698	NM_029992	ENSMUSG00000002486	Tchp	A930031F18Rik|AV279199	trichoplein, keratin filament binding	protein-coding	4.5	10.0	2.5	93.5	24.5	6.5	5.5	7.0
Merged-chr17-37046809-4	chr17	37046615	37046815	+	882.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019439, exon 2 of 23)	exon (NM_019439, exon 2 of 23)	749.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	10.5	11.5	6.0	153.5	33.5	7.0	5.5	12.5
Merged-chr19-6974662-8	chr19	6974516	6974716	+	991.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008889)	promoter-TSS (NM_008889)	-432.0	NM_008889	18938.0	Mm.140	NM_008889	ENSMUSG00000056612	Ppp1r14b	AOM172|PHI-1|PLCB3N|Png	protein phosphatase 1, regulatory (inhibitor) subunit 14B	protein-coding	8.0	19.0	12.0	122.5	26.5	18.5	11.0	16.5
Merged-chr6-148645066-4	chr6	148644970	148645170	+	968.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-30761.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	26.0	22.0	24.5	347.0	55.0	19.5	22.0	13.5
Merged-chr8-79450369-3	chr8	79450266	79450466	+	845.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50898.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	6.5	7.0	21.5	188.5	15.0	4.5	10.0	8.5
Merged-chr9-36767806-4	chr9	36767707	36767907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008408)	promoter-TSS (NM_008408)	-229.0	NM_008408	16430.0	Mm.2863	NM_008408	ENSMUSG00000032116	Stt3a	AA408947|BB081708|Itm1	STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae)	protein-coding	551.5	874.0	596.5	8748.0	1226.0	476.5	592.5	476.0
Merged-chr8-88621598-3	chr8	88621517	88621717	+	766.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14511.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	9.5	10.0	6.0	73.0	17.0	1.0	7.0	7.5
Merged-chr16-90285359-4	chr16	90285239	90285439	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178923)	promoter-TSS (NM_178923)	-836.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	9.5	10.5	10.5	207.5	21.0	6.0	9.5	17.0
Merged-chr11-69838445-4	chr11	69838344	69838544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026982)	promoter-TSS (NM_026982)	-81.0	NM_026982	69186.0	Mm.248772	NM_026982	ENSMUSG00000070394	Tmem256	1810027O10Rik|3110009M16Rik	transmembrane protein 256	protein-coding	220.0	354.0	215.5	2751.0	523.5	210.0	216.5	211.5
Merged-chr11-117344010-3	chr11	117343913	117344113	+	869.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113488, intron 1 of 9)	intron (NM_001113488, intron 1 of 9)	11700.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	15.5	7.5	11.5	80.5	10.0	4.0	4.0	2.5
Merged-chr5-64718307-4	chr5	64718223	64718423	+	864.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-85200.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	20.5	12.0	8.0	286.5	26.0	11.5	14.5	15.5
Merged-chr8-72162268-2	chr8	72162164	72162364	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023126, intron 1 of 7)	intron (NM_023126, intron 1 of 7)	1064.0	NM_023126	17274.0	Mm.162811	NM_023126	ENSMUSG00000003037	Rab8a	AA409338|Mel	RAB8A, member RAS oncogene family	protein-coding	6.0	6.0	6.0	92.5	6.0	8.5	6.5	12.0
Merged-chr16-76337107-4	chr16	76337020	76337220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358238, intron 2 of 3)	intron (NM_001358238, intron 2 of 3)	35929.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	193.0	221.5	135.0	2745.5	447.0	142.5	177.0	167.5
Merged-chr11-107479429-4	chr11	107479343	107479543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025894)	promoter-TSS (NM_025894)	-85.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	162.0	209.5	154.5	1674.0	391.5	149.0	169.0	183.5
Merged-chr12-21269765-1	chr12	21269665	21269865	+	688.0	f1_balb.idr	TTS (NM_008403)	TTS (NM_008403)	16519.0	NM_008403	16413.0	Mm.273333	NM_008403	ENSMUSG00000062352	Itgb1bp1	AI449260|AU019480|Icap1	integrin beta 1 binding protein 1	protein-coding	7.0	9.5	7.5	59.0	1.0	0.0	0.5	1.0
Merged-chr6-122304482-3	chr6	122304352	122304552	+	683.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-4268.0	NM_010749	17113.0	Mm.249225	NM_010749	ENSMUSG00000007458	M6pr	CD-MPR|Mpr46	mannose-6-phosphate receptor, cation dependent	protein-coding	10.0	7.0	0.0	48.0	25.0	17.0	7.0	8.5
Merged-chr5-114128267-4	chr5	114128154	114128354	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359940)	promoter-TSS (NM_001359940)	-36.0	NM_001359941	231642.0	Mm.332593	NM_175016	ENSMUSG00000044339	Alkbh2	9530023G02|AU016977|Abh2|mABH2	alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase	protein-coding	27.0	53.5	10.0	305.5	79.5	38.5	33.5	40.0
Merged-chr13-58457159-3	chr13	58457039	58457239	+	883.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53796.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	4.5	4.5	5.5	203.5	24.5	5.0	23.0	12.5
Merged-chr5-92504411-4	chr5	92504325	92504525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	1232.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	93.0	129.0	89.5	1475.0	272.5	81.0	95.5	82.5
Merged-chr7-43919995-4	chr7	43919914	43920114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13757.0	NM_174865	317652.0	Mm.389896	NM_174865	ENSMUSG00000055193	Klk15	-	kallikrein related-peptidase 15	protein-coding	80.0	86.0	48.0	1109.5	161.0	53.5	84.0	55.5
Merged-chr12-54695794-4	chr12	54695678	54695878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001331162, exon 1 of 5)	exon (NM_001331162, exon 1 of 5)	116.0	NM_001331162	66266.0	Mm.156440	NM_025456	ENSMUSG00000054302	Eapp	1810011O16Rik	E2F-associated phosphoprotein	protein-coding	89.0	154.0	102.0	1319.5	249.0	91.5	97.0	102.5
Merged-chr9-109056646-6	chr9	109056663	109056863	+	875.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026381, exon 4 of 4)	3' UTR (NM_026381, exon 4 of 4)	1897.0	NM_026381	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	6.5	7.5	6.5	49.5	12.0	4.0	2.5	5.0
Merged-chr12-108636203-3	chr12	108636114	108636314	+	901.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 1 of 14)	intron (NM_001163396, intron 1 of 14)	461.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	9.5	14.5	8.0	104.0	25.0	11.0	7.0	25.5
Merged-chr11-113777969-3	chr11	113777868	113778068	+	771.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-26153.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	5.0	5.0	2.5	69.0	21.0	5.5	13.5	21.0
Merged-chr11-86358363-4	chr11	86358257	86358457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080931)	promoter-TSS (NM_001080931)	-832.0	NM_001080931	327987.0	Mm.341886	NM_001080931	ENSMUSG00000034297	Med13	1110067M05Rik|D030023K18|Thrap1|Trap240	mediator complex subunit 13	protein-coding	99.5	155.5	56.5	1235.5	263.5	90.5	73.5	77.5
Merged-chr16-25846764-4	chr16	25846678	25846878	+	991.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127262, intron 2 of 10)	intron (NM_001127262, intron 2 of 10)	44862.0	NM_001127264	22061.0	Mm.20894	NM_011641	ENSMUSG00000022510	Trp63	AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1	transformation related protein 63	protein-coding	5.0	5.5	11.5	249.5	53.5	11.0	43.0	15.5
Merged-chr10-88492870-4	chr10	88492759	88492959	+	861.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144807, intron 1 of 7)	intron (NM_144807, intron 1 of 7)	11111.0	NR_027477	212862.0	Mm.288897	NM_144807	ENSMUSG00000060002	Chpt1	-	choline phosphotransferase 1	protein-coding	20.0	23.5	11.0	259.0	25.5	9.0	11.0	8.0
Merged-chr3-51727935-1	chr3	51727835	51728035	+	672.333313	f0_balb.idr	intron (NM_001004176, intron 2 of 4)	L3b|LINE|CR1	66756.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	9.0	9.5	8.5	117.5	1.0	2.0	3.5	3.5
Merged-chr17-83633019-3	chr17	83632920	83633120	+	923.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1125.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	12.0	10.5	4.0	198.0	17.0	7.0	14.0	10.5
Merged-chr13-98261849-2	chr13	98261749	98261949	+	702.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178918, intron 1 of 12)	intron (NM_178918, intron 1 of 12)	1143.0	NM_178918	105372.0	Mm.28221	NM_178918	ENSMUSG00000041747	Utp15	AW544865	UTP15 small subunit processome component	protein-coding	5.0	5.0	3.5	41.0	15.0	4.5	9.0	8.5
Merged-chr5-110387100-4	chr5	110386985	110387185	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028596)	promoter-TSS (NM_028596)	42.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	17.0	34.5	22.5	263.0	51.5	17.0	30.5	17.5
Merged-chr4-134245587-4	chr4	134245466	134245666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024215)	promoter-TSS (NM_024215)	25.0	NM_024215	68040.0	Mm.300404	NM_024215	ENSMUSG00000028840	Zfp593	3110024A21Rik|AV062409|E130106C14Rik|ZNF593	zinc finger protein 593	protein-coding	61.5	82.5	63.5	414.0	171.5	72.0	54.5	68.5
Merged-chr6-50255041-4	chr6	50254939	50255139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018769, intron 1 of 9)	intron (NM_018769, intron 1 of 9)	6730.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	52.5	61.0	84.0	921.5	110.5	38.0	46.5	44.0
Merged-chr8-31111717-4	chr8	31111650	31111850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175136)	promoter-TSS (NM_175136)	-96.0	NM_175136	68867.0	Mm.29532	NM_175136	ENSMUSG00000039328	Rnf122	1110063C11Rik	ring finger protein 122	protein-coding	195.0	305.0	196.5	2884.0	252.5	97.0	114.5	93.5
Merged-chr17-57344170-4	chr17	57344065	57344265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14521.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	19.0	38.5	28.0	318.5	85.5	29.0	33.0	17.0
Merged-chr1-135281555-2	chr1	135281455	135281655	+	912.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 1 of 9)	intron (NM_001159624, intron 1 of 9)	2529.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	6.0	3.0	12.5	92.5	7.0	5.0	12.5	6.5
Merged-chr1-153981039-3	chr1	153980914	153981114	+	963.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81085.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	13.0	17.0	12.5	292.0	21.0	9.5	9.5	5.5
Merged-chr4-86670036-4	chr4	86669937	86670137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007408)	promoter-TSS (NM_007408)	22.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	80.0	220.5	135.5	1938.5	239.5	108.5	106.5	107.5
Merged-chr14-7976346-4	chr14	7976250	7976450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007870, intron 5 of 7)	intron (NM_007870, intron 5 of 7)	17832.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	70.5	92.0	68.5	1057.0	180.5	49.5	67.0	91.0
Merged-chr2-25180649-4	chr2	25180533	25180733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025980)	promoter-TSS (NM_025980)	-125.0	NM_025980	67122.0	Mm.46539	NM_025980	ENSMUSG00000078202	Nrarp	2700054M22Rik	Notch-regulated ankyrin repeat protein	protein-coding	85.5	174.5	74.5	1099.5	242.0	75.0	105.5	68.5
Merged-chr7-16932143-4	chr7	16932106	16932306	+	794.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8174.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	13.0	5.5	2.5	110.5	35.0	8.5	11.5	7.0
Merged-chr10-111782609-3	chr10	111782428	111782628	+	740.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	91848.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	5.5	6.0	5.5	62.0	9.0	2.5	3.5	1.5
Merged-chr3-37660012-3	chr3	37659881	37660081	+	680.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20034.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	5.0	10.5	7.0	177.0	15.5	8.0	13.0	4.0
Merged-chr12-28589550-3	chr12	28589468	28589668	+	900.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7085.0	NM_053156	94041.0	Mm.84927	NM_053156	ENSMUSG00000020636	Allc	1700012B22Rik|Alc	allantoicase	protein-coding	7.5	18.0	6.0	129.0	16.0	6.0	8.5	11.0
Merged-chr5-63875064-4	chr5	63874976	63875176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	62581.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	44.5	50.5	49.0	672.0	103.5	38.0	45.0	47.5
Merged-chr9-86571882-4	chr9	86571751	86571951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145969)	promoter-TSS (NM_001145969)	-9.0	NM_028352	109785.0	Mm.390201	NM_028352	ENSMUSG00000056131	Pgm3	2810473H05Rik|Agm1|BB187688|C77933|PAGM|Pgm-3	phosphoglucomutase 3	protein-coding	206.5	260.0	157.0	2895.5	516.0	207.5	314.0	217.5
Merged-chr10-84443552-4	chr10	84443450	84443650	+	898.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3079.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	17.0	19.0	18.5	352.0	23.0	11.0	17.5	16.5
Merged-chr17-80062922-1	chr17	80062822	80063022	+	725.0	f0_balb.idr	promoter-TSS (NM_144802)	promoter-TSS (NM_144802)	-654.0	NM_144802	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	9.0	4.0	3.0	176.5	17.5	7.5	6.5	8.0
Merged-chr11-75291086-4	chr11	75290986	75291186	+	757.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57297.0	NM_001164223	68275.0	Mm.102574	NM_026653	ENSMUSG00000000751	Rpa1	5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa	replication protein A1	protein-coding	11.0	24.5	6.0	126.5	28.0	9.0	4.5	12.5
Merged-chr4-3080894-1	chr4	3080794	3080994	+	657.0	f1_balb.idr	Intergenic	Intergenic	-91189.0	NM_001167534	100312470.0	Mm.480297	NM_001167534	ENSMUSG00000115072	Vmn1r2	Gm11776	vomeronasal 1 receptor 2	protein-coding	4.0	4.0	2.5	95.5	12.0	5.0	5.5	11.5
Merged-chr10-58255437-4	chr10	58255329	58255529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027375)	promoter-TSS (NM_027375)	-97.0	NM_027375	70297.0	Mm.25531	NM_027375	ENSMUSG00000038039	Gcc2	0610043A03Rik|2210420P05Rik|2600014C01Rik|AW112121|mKIAA0336	GRIP and coiled-coil domain containing 2	protein-coding	182.5	278.5	149.5	3526.5	534.5	176.0	266.0	178.5
Merged-chr5-125292096-4	chr5	125291995	125292195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 7 of 10)	intron (NM_001205083, intron 7 of 10)	48999.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	42.5	46.5	21.5	835.0	74.5	30.0	54.0	46.0
Merged-chr3-100969726-4	chr3	100969608	100969808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013026)	promoter-TSS (NM_001013026)	-45.0	NM_001013026	74044.0	Mm.270961	NM_001013026	ENSMUSG00000033222	Ttf2	4632434F22Rik|8030447N19|AV218430	transcription termination factor, RNA polymerase II	protein-coding	156.0	198.5	123.0	2466.0	353.0	102.5	172.0	101.5
Merged-chr10-85351237-1	chr10	85351137	85351337	+	645.25	f0_c57.idr	Intergenic	L3|LINE|CR1	-35577.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	0.0	0.0	0.0	0.0	24.5	11.0	10.0	18.0
Merged-chr12-103333078-4	chr12	103332980	103333180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 6 of 9)	MIR3|SINE|MIR	18121.0	NM_001195726	100504156.0	Mm.425749	NM_001195726	ENSMUSG00000096753	Fam181a	EG544888	family with sequence similarity 181, member A	protein-coding	57.5	72.0	73.5	1331.0	172.5	51.5	54.0	68.0
Merged-chr2-129472115-3	chr2	129472015	129472215	+	745.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 3 of 6)	intron (NM_177653, intron 3 of 6)	64487.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	6.0	14.5	3.0	93.5	30.5	4.5	9.0	7.5
Merged-chr2-129338440-4	chr2	129338339	129338539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28467.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	78.0	162.0	106.0	1457.0	256.5	118.0	162.5	144.0
Merged-chr19-59943543-4	chr19	59943439	59943639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033172)	promoter-TSS (NM_001033172)	115.0	NM_001164367	74998.0	Mm.24167	NM_001033172	ENSMUSG00000040022	Rab11fip2	4930470G04Rik|A830046J09Rik|AW558126|Nrip11	RAB11 family interacting protein 2 (class I)	protein-coding	160.5	238.5	309.0	2916.0	208.5	104.0	95.5	121.5
Merged-chr5-3501880-4	chr5	3501774	3501974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-41959.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	219.5	354.5	231.0	2603.0	551.0	190.5	171.5	142.0
Merged-chr15-36852626-3	chr15	36852505	36852705	+	785.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	-55676.0	NM_001253806	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	3.5	16.0	12.0	146.0	10.5	6.0	7.0	9.0
Merged-chr8-88274290-3	chr8	88274198	88274398	+	871.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007406, intron 1 of 27)	intron (NM_007406, intron 1 of 27)	1895.0	NM_007406	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	9.5	26.5	11.0	108.5	17.5	5.0	15.5	11.0
Merged-chr2-173679429-3	chr2	173679328	173679528	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024436, intron 2 of 6)	intron (NM_024436, intron 2 of 6)	19583.0	NM_024436	19334.0	Mm.275304	NM_024436	ENSMUSG00000027519	Rab22a	3732413A17Rik|AI662177|AW319644|AW550514|E130120E14Rik|Rab22	RAB22A, member RAS oncogene family	protein-coding	5.5	14.5	7.0	131.0	17.0	8.0	14.5	6.5
Merged-chr10-77880557-3	chr10	77880453	77880653	+	837.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287074, intron 9 of 11)	intron (NM_001287074, intron 9 of 11)	-12867.0	NR_015547	75188.0	Mm.348012	NM_029200	ENSMUSG00000096573	1700009J07Rik	4930535B06Rik	RIKEN cDNA 1700009J07 gene	ncRNA	6.0	11.5	8.5	62.5	25.5	1.0	9.5	7.5
Merged-chr19-44360292-4	chr19	44360164	44360364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	26938.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	39.5	51.0	52.0	302.5	85.5	29.0	21.5	33.0
Merged-chr2-73470586-4	chr2	73470486	73470686	+	930.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	15167.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	19.0	19.0	12.5	202.0	33.5	15.5	5.5	17.5
Merged-chr10-80102636-4	chr10	80102509	80102709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183426)	promoter-TSS (NM_183426)	93.0	NM_183426	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	37.5	66.0	42.5	538.0	74.5	28.5	34.0	35.5
Merged-chr4-11559450-1	chr4	11559350	11559550	+	540.0	f0_balb.idr	intron (NM_001039556, intron 1 of 14)	intron (NM_001039556, intron 1 of 14)	530.0	NM_001256145	623474.0	Mm.491200	NM_177285	ENSMUSG00000078773	Rad54b	E130016E03Rik	RAD54 homolog B (S. cerevisiae)	protein-coding	4.5	14.0	10.5	61.0	5.0	2.5	3.0	17.0
Merged-chr18-49521708-4	chr18	49521615	49521815	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45-int|LTR|ERVK	-1574.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	18.0	27.0	25.5	384.5	47.0	14.0	37.0	28.0
Merged-chr11-75586433-4	chr11	75586331	75586531	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1648.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	27.5	35.0	22.0	345.5	65.0	15.5	15.5	32.5
Merged-chr19-34435429-4	chr19	34435328	34435528	+	961.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39707.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	27.5	22.0	34.5	454.0	47.5	6.5	13.0	14.5
Merged-chr4-124709153-4	chr4	124709030	124709230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010213)	TTS (NM_010213)	-5731.0	NM_029157	75062.0	Mm.25779	NM_029157	ENSMUSG00000028902	Sf3a3	4930512K19Rik|60kDa	splicing factor 3a, subunit 3	protein-coding	38.5	47.5	24.0	433.0	148.5	49.5	57.0	43.5
Merged-chr12-100004794-4	chr12	100004700	100004900	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	MTE2a|LTR|ERVL-MaLR	40301.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	17.5	14.0	4.0	202.5	31.5	7.0	20.5	24.0
Merged-chr6-97294249-4	chr6	97294168	97294368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 22 of 23)	intron (NM_145148, intron 22 of 23)	-41488.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	39.5	107.5	42.0	496.5	114.0	49.5	35.0	33.0
Merged-chr1-157086327-2	chr1	157086227	157086427	+	593.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22323.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	4.5	7.5	6.5	47.5	15.0	4.5	13.0	6.5
Merged-chr3-36552601-4	chr3	36552494	36552694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019393)	promoter-TSS (NM_019393)	-12.0	NM_019393	50911.0	Mm.116711	NM_019393	ENSMUSG00000027714	Exosc9	PM/Scl-75|Pmscl1|RRP45|p5|p6	exosome component 9	protein-coding	77.0	75.0	50.0	1159.0	187.5	65.5	63.0	75.5
Merged-chr2-73455793-4	chr2	73455690	73455890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-1901.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	47.0	69.0	74.0	1332.0	119.0	41.5	65.0	80.5
Merged-chr13-110368719-4	chr13	110368619	110368819	+	793.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11547.0	NM_177713	238875.0	Mm.30533	NM_177713	ENSMUSG00000046006	Gapt	9830130M13Rik	Grb2-binding adaptor, transmembrane	protein-coding	5.0	5.0	5.5	38.0	6.0	4.0	3.5	7.0
Merged-chr9-48985158-4	chr9	48985052	48985252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175482)	promoter-TSS (NM_175482)	-233.0	NM_001359739	235323.0	Mm.21630	NM_175482	ENSMUSG00000032267	Usp28	9830148O20Rik|AU022237|mKIAA1515	ubiquitin specific peptidase 28	protein-coding	319.5	545.5	280.0	2913.5	837.5	317.0	328.5	292.5
Merged-chr5-127616293-3	chr5	127616196	127616396	+	938.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 1 of 7)	intron (NM_133895, intron 1 of 7)	1096.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	10.0	16.5	10.0	127.0	12.5	6.5	10.0	7.5
Merged-chr11-97343800-3	chr11	97343661	97343861	+	910.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081220, exon 7 of 11)	exon (NM_001081220, exon 7 of 11)	8312.0	NM_001081220	217143.0	Mm.32622	NM_175453	ENSMUSG00000070337	Gpr179	5330439C02Rik|Gpr158l1	G protein-coupled receptor 179	protein-coding	13.5	22.5	8.5	145.5	13.0	2.5	3.0	4.0
Merged-chr6-122939793-4	chr6	122939699	122939899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12716.0	NM_001204241	73149.0	Mm.25684	NM_153197	ENSMUSG00000043832	Clec4a3	3110037K17Rik|Dcir3	C-type lectin domain family 4, member a3	protein-coding	43.0	26.0	50.5	621.5	68.0	25.5	30.0	49.0
Merged-chr13-29634420-3	chr13	29634319	29634519	+	773.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131896, intron 8 of 16)	L1MB3|LINE|L1	221254.0	NR_131896	68916.0	Mm.212227	NM_144536	ENSMUSG00000006191	Cdkal1	1190005B03Rik|6620401C13Rik	CDK5 regulatory subunit associated protein 1-like 1	protein-coding	6.0	6.5	8.5	151.0	5.0	6.0	7.0	3.0
Merged-chr19-8802376-4	chr19	8802279	8802479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098237)	promoter-TSS (NM_001098237)	-117.0	NM_133759	75291.0	Mm.23423	NM_133759	ENSMUSG00000071661	Zbtb3	4930563M09Rik	zinc finger and BTB domain containing 3	protein-coding	211.0	313.5	203.5	3368.0	475.0	197.5	208.0	134.0
Merged-chr2-34905165-4	chr2	34905091	34905291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028716, intron 6 of 14)	intron (NM_028716, intron 6 of 14)	8785.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	365.0	609.0	334.5	4484.0	903.0	375.5	506.0	351.0
Merged-chr10-127526876-4	chr10	127526788	127526988	+	937.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183297, exon 2 of 2)	exon (NM_183297, exon 2 of 2)	-4444.0	NM_028230	108037.0	Mm.29890	NM_028230	ENSMUSG00000025403	Shmt2	2700043D08Rik|AA408223|AA986903|SHMT	serine hydroxymethyltransferase 2 (mitochondrial)	protein-coding	14.5	42.5	21.0	275.5	46.0	11.0	26.5	14.5
Merged-chr13-113546588-2	chr13	113546488	113546688	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-43744.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	6.0	4.0	5.5	72.0	12.5	5.5	5.0	4.5
Merged-chr6-50299197-4	chr6	50299084	50299284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 21 of 21)	intron (NM_027881, intron 21 of 21)	-37415.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	34.0	25.5	24.0	361.0	74.5	20.5	40.5	33.5
Merged-chr7-46830920-4	chr7	46830827	46831027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14877.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	70.5	99.5	102.5	1663.5	211.0	68.0	87.5	90.5
Merged-chr6-5233864-3	chr6	5233754	5233954	+	737.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173006, intron 5 of 8)	intron (NM_173006, intron 5 of 8)	22379.0	NM_173006	269823.0	Mm.9122	NM_173006	ENSMUSG00000029759	Pon3	2810004E20|AI786302	paraoxonase 3	protein-coding	11.5	21.5	16.5	122.5	7.5	3.0	5.5	5.0
Merged-chr11-121083108-4	chr11	121083002	121083202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1963.0	NM_145373	209588.0	Mm.69553	NM_145373	ENSMUSG00000025165	Sectm1a	BC010462	secreted and transmembrane 1A	protein-coding	25.5	35.0	27.0	422.0	74.0	22.0	18.0	29.0
Merged-chr14-70160252-3	chr14	70160150	70160350	+	840.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004155)	promoter-TSS (NM_001004155)	-748.0	NM_001004155	268759.0	Mm.12148	NM_001004155	ENSMUSG00000044551	9930012K11Rik	-	RIKEN cDNA 9930012K11 gene	protein-coding	8.0	10.5	15.5	99.0	18.0	6.5	8.0	9.5
Merged-chr18-36025696-3	chr18	36025601	36025801	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167891, intron 5 of 9)	L2|LINE|L2	60871.0	NR_110349	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	6.5	13.0	2.5	195.0	18.5	9.0	15.0	10.0
Merged-chr5-112254742-4	chr5	112254656	112254856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1064.0	NM_001312895	12960.0	Mm.29488	NM_023695	ENSMUSG00000029343	Crybb1	3110006K12Rik|BB1CRY	crystallin, beta B1	protein-coding	53.5	53.5	41.5	684.0	109.5	63.5	56.5	69.0
Merged-chr14-75025564-4	chr14	75025473	75025673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 1 of 13)	intron (NM_198642, intron 1 of 13)	9546.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	14.0	40.5	25.0	286.0	46.5	29.0	19.0	38.5
Merged-chr3-79120388-8	chr3	79120349	79120549	+	980.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 1 of 23)	intron (NM_001099624, intron 1 of 23)	24438.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	20.5	79.0	18.5	98.5	60.0	31.0	22.5	7.5
Merged-chr1-184808366-3	chr1	184808273	184808473	+	951.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290273, intron 1 of 6)	intron (NM_001290273, intron 1 of 6)	2927.0	NM_001290273	66112.0	Mm.272457	NM_001081361	ENSMUSG00000026621	Marc1	1300013F15Rik|Mosc1	mitochondrial amidoxime reducing component 1	protein-coding	11.5	10.5	8.0	55.5	9.5	3.5	3.5	6.5
Merged-chr11-79674444-4	chr11	79674367	79674567	+	870.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045898, exon 2 of 3)	non-coding (NR_045898, exon 2 of 3)	619.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	6.5	11.5	5.0	77.0	28.0	21.5	17.5	16.0
Merged-chr1-157386697-1	chr1	157386597	157386797	+	693.333313	f0_balb.idr	intron (NM_177644, intron 1 of 17)	intron (NM_177644, intron 1 of 17)	-25655.0	NR_027984	69953.0	Mm.286863	NM_027274	ENSMUSG00000049881	2810025M15Rik	AI429618	RIKEN cDNA 2810025M15 gene	ncRNA	9.0	12.0	7.5	176.0	2.5	0.0	4.0	1.5
Merged-chr11-61642371-4	chr11	61642253	61642453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10968.0	NM_027817	71520.0	Mm.202760	NM_027817	ENSMUSG00000004837	Grap	8430435N19Rik|BB233594	GRB2-related adaptor protein	protein-coding	21.5	48.5	25.5	498.5	59.0	24.5	32.5	26.5
Merged-chr7-101858597-4	chr7	101858489	101858689	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008034, exon 7 of 7)	exon (NM_008034, exon 7 of 7)	-1399.0	NM_001303239	14276.0	Mm.439666	NM_008035	ENSMUSG00000032725	Folr2	FBP2|FR-P3|FR-beta|Folbp-2|Folbp2	folate receptor 2 (fetal)	protein-coding	36.5	35.5	18.0	275.5	53.0	17.0	29.0	12.5
Merged-chr9-64740842-4	chr9	64740722	64740922	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3066.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	35.0	35.5	25.5	361.0	34.0	24.0	8.5	14.0
Merged-chr5-3905685-4	chr5	3905569	3905769	+	888.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11736.0	NM_172135	545725.0	Mm.99593	NM_172135	ENSMUSG00000040429	Mterf1a	4931431L11Rik|9230106K09Rik|Mterf|Mterf1|mTERF1b	mitochondrial transcription termination factor 1a	protein-coding	9.0	15.0	22.5	307.0	16.5	8.0	15.0	10.0
Merged-chr17-15705596-4	chr17	15705468	15705668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 1 of 35)	intron (NM_007690, intron 1 of 35)	601.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	27.5	54.0	35.5	264.0	83.5	23.0	32.0	25.5
Merged-chr3-27209892-4	chr3	27209808	27210008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	26904.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	216.0	295.5	303.0	4142.5	519.5	185.0	257.0	275.5
Merged-chr14-121797849-4	chr14	121797746	121797946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134074)	promoter-TSS (NM_134074)	-112.0	NM_134074	105445.0	Mm.378591	NM_134074	ENSMUSG00000025558	Dock9	AA959601|AW538057|B230309H04Rik|D14Wsu89e|Zizimin1|mKIAA1058	dedicator of cytokinesis 9	protein-coding	68.0	132.5	65.5	1288.5	152.5	33.0	57.0	75.5
Merged-chr8-72325593-3	chr8	72325429	72325629	+	830.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6467.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	18.0	18.0	6.0	189.5	30.5	10.5	10.5	2.5
Merged-chr4-88033413-4	chr4	88033324	88033524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027326)	promoter-TSS (NM_027326)	-17.0	NM_027326	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	159.5	181.5	138.0	2721.0	336.0	131.0	224.0	115.0
Merged-chr18-14657040-4	chr18	14656947	14657147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009280, intron 3 of 10)	intron (NM_009280, intron 3 of 10)	25867.0	NM_001161369	268996.0	Mm.31761	NM_009280	ENSMUSG00000037013	Ss18	D130059H17|Ssxt|Syt	SS18, nBAF chromatin remodeling complex subunit	protein-coding	62.0	86.0	54.0	1151.0	138.0	49.5	79.0	73.5
Merged-chr1-80408728-4	chr1	80408624	80408824	+	871.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37208.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	11.5	0.5	7.0	172.0	27.5	16.0	18.0	4.5
Merged-chr19-37535232-4	chr19	37535143	37535343	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15175.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	32.0	39.0	34.5	420.0	35.0	11.5	16.0	10.5
Merged-chr14-25467846-4	chr14	25467727	25467927	+	871.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	8642.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	26.0	24.5	14.0	264.0	28.0	3.5	10.0	8.5
Merged-chr2-50642409-4	chr2	50642310	50642510	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-267274.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	19.5	35.5	29.5	477.5	46.0	16.5	21.0	29.5
Merged-chr4-148591402-4	chr4	148591236	148591436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009272)	promoter-TSS (NM_009272)	-177.0	NM_009272	20810.0	Mm.10	NM_009272	ENSMUSG00000006442	Srm	AA407669|SpdST|SpdSy	spermidine synthase	protein-coding	133.5	220.0	113.5	2175.0	404.5	141.5	218.5	164.0
Merged-chr15-101973887-4	chr15	101973791	101973991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19604.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	55.5	81.0	43.0	586.5	139.5	57.5	61.5	49.0
Merged-chr13-36074748-4	chr13	36074649	36074849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201358, intron 2 of 2)	MTD|LTR|ERVL-MaLR	42608.0	NM_201358	380840.0	Mm.390576	NM_201358	ENSMUSG00000046573	Lyrm4	BC034664|Gm903	LYR motif containing 4	protein-coding	53.5	97.5	49.0	1048.5	111.5	40.5	32.0	43.5
Merged-chr8-3280583-2	chr8	3280483	3280683	+	718.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010568)	promoter-TSS (NM_010568)	-966.0	NM_001330056	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	6.5	5.0	8.5	41.0	10.0	6.0	7.0	8.0
Merged-chr12-113140271-4	chr12	113140143	113140343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347443)	promoter-TSS (NM_001347443)	7.0	NM_024223	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	64.0	88.5	91.0	916.5	122.5	46.0	58.5	65.0
Merged-chr6-137724072-4	chr6	137723975	137724175	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11007.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	12.5	10.0	5.0	187.5	27.5	7.0	8.5	12.0
Merged-chr13-49242423-4	chr13	49242326	49242526	+	900.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028340, intron 1 of 4)	intron (NM_028340, intron 1 of 4)	5868.0	NM_001360772	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	15.5	20.5	20.0	140.0	23.0	8.5	10.5	14.5
Merged-chr12-108636712-4	chr12	108636583	108636783	+	801.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	MIRb|SINE|MIR	930.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	15.0	14.0	7.0	96.5	12.0	11.0	19.0	12.0
Merged-chr11-114866370-2	chr11	114866270	114866470	+	913.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110338, intron 2 of 3)	(TG)n|Simple_repeat|Simple_repeat	14340.0	NM_147217	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	23.0	4.5	6.0	94.0	29.5	7.5	3.5	11.0
Merged-chr3-126746635-3	chr3	126746549	126746749	+	791.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001025438, intron 4 of 18)	intron (NM_001025438, intron 4 of 18)	149698.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	9.0	37.0	17.5	48.5	41.5	9.0	12.5	8.5
Merged-chr11-20982187-4	chr11	20982125	20982325	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109099.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	14.5	33.5	13.5	237.5	40.5	12.0	16.0	10.0
Merged-chr9-62829331-2	chr9	62829231	62829431	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-9456.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	7.5	19.5	8.5	149.0	34.5	11.5	17.5	13.5
Merged-chr4-122887127-4	chr4	122887028	122887228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-1052.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	26.0	28.5	19.5	368.5	64.0	29.0	18.5	22.0
Merged-chr3-95632914-4	chr3	95632815	95633015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019561)	TTS (NM_019561)	7935.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	25.5	29.5	35.5	667.0	82.5	32.5	34.0	49.5
Merged-chr2-84530718-3	chr2	84530631	84530831	+	590.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23858.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	4.5	7.5	5.0	85.5	8.0	2.0	2.5	8.5
Merged-chr15-5141985-3	chr15	5141899	5142099	+	887.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1862.0	NM_001013367	105787.0	Mm.207004	NM_001013367	ENSMUSG00000050697	Prkaa1	AI194361|AI450832|AL024255|AMPKalpha1|C130083N04Rik	protein kinase, AMP-activated, alpha 1 catalytic subunit	protein-coding	6.5	7.5	2.5	111.5	9.0	5.5	4.5	4.5
Merged-chr2-168197771-3	chr2	168197674	168197874	+	820.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132310, intron 9 of 11)	intron (NR_132310, intron 9 of 11)	9338.0	NM_009628	11538.0	Mm.201322	NM_009628	ENSMUSG00000051149	Adnp	AA589558|mKIAA0784	activity-dependent neuroprotective protein	protein-coding	11.0	13.5	5.0	63.5	36.5	4.0	6.5	20.0
Merged-chr6-130092608-3	chr6	130092505	130092705	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013793, intron 3 of 7)	intron (NM_013793, intron 3 of 7)	-25334.0	NM_001252577	16635.0	Mm.333431	NM_010649	ENSMUSG00000079852	Klra4	Chok|Klra32|Klra33|Ly-49d|Ly49d|ly49r<129>	killer cell lectin-like receptor, subfamily A, member 4	protein-coding	0.0	0.0	0.0	0.0	179.5	66.0	57.5	72.0
Merged-chr12-31997057-4	chr12	31996973	31997173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011158, intron 2 of 10)	MamRep605|LTR?|LTR?	-46828.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	70.0	57.0	41.0	1012.5	149.5	68.0	82.0	70.5
Merged-chr2-93849913-4	chr2	93849823	93850023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290782)	promoter-TSS (NM_001290782)	20.0	NM_001290782	329470.0	Mm.486910	NM_183220	ENSMUSG00000040272	Accs	2610203E10Rik|Phacs	1-aminocyclopropane-1-carboxylate synthase (non-functional)	protein-coding	122.5	166.0	145.0	2116.5	234.5	83.5	139.5	101.0
Merged-chr16-64850943-4	chr16	64850850	64851050	+	822.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347245, intron 1 of 8)	intron (NM_001347245, intron 1 of 8)	773.0	NM_001347245	72020.0	Mm.25960	NM_028059	ENSMUSG00000047141	Zfp654	1600021C16Rik|1810008K20Rik|433036|Gm5488|Znf654	zinc finger protein 654	protein-coding	8.0	7.0	16.5	85.5	25.0	3.0	7.0	4.0
Merged-chr3-109011019-4	chr3	109010929	109011129	+	953.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 1 of 10)	intron (NM_001163567, intron 1 of 10)	16578.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	31.5	38.5	18.5	304.0	63.0	25.0	13.0	14.0
Merged-chr16-76409535-3	chr16	76409441	76409641	+	807.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-35714.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	7.5	6.5	11.5	182.5	13.5	17.0	8.0	9.5
Merged-chr13-64370384-4	chr13	64370311	64370511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009984, exon 1 of 8)	5' UTR (NM_009984, exon 1 of 8)	109.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	195.5	335.0	196.0	3545.0	602.5	223.0	273.5	178.0
Merged-chr15-103514260-4	chr15	103514153	103514353	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285890)	promoter-TSS (NM_001285890)	-724.0	NM_001285890	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	21.0	38.0	17.5	254.5	51.5	18.5	29.5	16.0
Merged-chr2-161109171-4	chr2	161109073	161109273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173368)	promoter-TSS (NM_173368)	-87.0	NR_126509	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	279.0	392.5	336.0	6121.0	805.5	265.5	357.5	351.0
Merged-chr2-132102876-4	chr2	132102790	132102990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	42218.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	49.0	122.5	58.0	1087.0	148.0	75.0	49.5	64.0
Merged-chr19-41206946-3	chr19	41206839	41207039	+	795.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011904)	promoter-TSS (NM_011904)	-165.0	NM_011904	24087.0	Mm.89983	NM_011904	ENSMUSG00000025013	Tll2	-	tolloid-like 2	protein-coding	8.5	9.5	8.5	77.0	14.0	7.0	11.0	8.0
Merged-chr8-123015262-1	chr8	123015162	123015362	+	555.0	f0_balb.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	27022.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	6.5	12.0	6.0	97.5	13.5	7.5	0.0	0.0
Merged-chr8-57463018-4	chr8	57462922	57463122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009136, intron 1 of 2)	intron (NM_009136, intron 1 of 2)	7099.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	61.5	52.5	64.0	1153.0	111.0	40.5	56.5	61.0
Merged-chr13-40922510-4	chr13	40922409	40922609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	intron (NM_133219, intron 1 of 2)	4875.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	22.0	36.5	40.5	610.0	59.5	21.5	38.0	40.0
Merged-chr1-171038563-4	chr1	171038461	171038661	+	955.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19635.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	8.5	27.5	12.5	248.5	89.0	29.5	17.0	26.0
Merged-chr10-75318427-3	chr10	75318329	75318529	+	964.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331095, intron 1 of 2)	intron (NM_001331095, intron 1 of 2)	829.0	NM_001331095	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	3.0	19.0	6.5	25.0	25.0	6.5	13.5	6.5
Merged-chr3-148248830-4	chr3	148248744	148248944	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	705791.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	18.5	25.0	42.0	624.5	44.0	10.0	32.5	15.0
Merged-chr15-98992701-4	chr15	98992606	98992806	+	987.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6741.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	35.5	40.5	13.0	339.5	101.0	24.0	36.0	22.0
Merged-chr3-50438223-3	chr3	50438106	50438306	+	958.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 2 of 11)	intron (NM_011990, intron 2 of 11)	5407.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	10.0	9.5	31.5	132.5	6.0	4.5	7.0	3.0
Merged-chr4-132274332-4	chr4	132274240	132274440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025579)	promoter-TSS (NM_025579)	-35.0	NM_025579	66464.0	Mm.331926	NM_025579	ENSMUSG00000028899	Taf12	20kDa|2810422D08Rik|AW557038|Taf2J	TATA-box binding protein associated factor 12	protein-coding	58.0	96.0	48.0	749.0	203.5	57.0	86.0	93.5
Merged-chr6-137754591-4	chr6	137754506	137754706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172733)	promoter-TSS (NM_172733)	29.0	NM_172733	232449.0	Mm.29181	NM_172733	ENSMUSG00000030225	Dera	2010002D22Rik|2500002K03Rik|DEOC	deoxyribose-phosphate aldolase (putative)	protein-coding	39.5	74.0	81.5	678.0	82.0	42.0	47.5	42.5
Merged-chr7-38025555-3	chr7	38025421	38025621	+	828.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-5969.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	8.0	16.5	19.0	193.5	7.0	0.0	5.5	2.5
Merged-chr13-37595379-4	chr13	37595252	37595452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-230686.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	46.5	139.5	73.5	972.0	157.0	35.0	67.0	43.0
Merged-chr2-152914635-4	chr2	152914521	152914721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081044, intron 3 of 11)	intron (NM_001081044, intron 3 of 11)	3269.0	NM_001081044	228785.0	Mm.250604	NM_001081044	ENSMUSG00000027470	Mylk2	9830004H17Rik|BB138278	myosin, light polypeptide kinase 2, skeletal muscle	protein-coding	32.5	43.5	23.0	426.5	77.0	38.0	31.0	55.0
Merged-chr8-83757096-4	chr8	83756992	83757192	+	856.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15781.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	10.0	9.5	4.5	98.5	33.5	15.5	13.5	10.5
Merged-chr7-31105336-4	chr7	31105280	31105480	+	952.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110252, intron 5 of 13)	intron (NM_001110252, intron 5 of 13)	5617.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	11.5	12.5	25.0	77.0	66.0	21.5	29.0	36.5
Merged-chr2-38286709-4	chr2	38286548	38286748	+	874.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 1 of 21)	intron (NM_146122, intron 1 of 21)	736.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	9.5	10.5	18.5	162.0	32.5	10.5	8.5	13.0
Merged-chr2-129558745-4	chr2	129558666	129558866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-22164.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	37.0	119.0	29.0	467.5	131.0	52.5	51.0	52.5
Merged-chr9-35101784-4	chr9	35101688	35101888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-14940.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	60.5	107.5	68.0	1318.0	149.5	50.5	52.0	68.0
Merged-chr12-33311284-4	chr12	33311249	33311449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	L1MB5|LINE|L1	8834.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	75.0	83.5	54.5	1117.0	140.5	39.0	70.0	61.0
Merged-chr3-115694314-4	chr3	115694226	115694426	+	951.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20729.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	38.5	31.0	29.0	480.5	39.0	15.5	7.0	12.5
Merged-chr7-114275503-4	chr7	114275368	114275568	+	849.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011965, intron 1 of 9)	intron (NM_011965, intron 1 of 9)	648.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	13.5	10.0	8.0	158.5	21.5	13.0	12.0	17.0
Merged-chr7-143008194-4	chr7	143008098	143008298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020286, intron 2 of 7)	intron (NM_020286, intron 2 of 7)	2539.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	22.0	27.0	21.5	402.5	90.0	22.5	25.5	33.5
Merged-chr6-83502420-4	chr6	83502344	83502544	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149734, intron 1 of 6)	intron (NR_149734, intron 1 of 6)	4525.0	NM_013764	27369.0	Mm.42234	NM_013764	ENSMUSG00000014554	Dguok	dGK|dGK1|dGK2|dGK3	deoxyguanosine kinase	protein-coding	28.0	23.0	12.5	362.0	80.0	19.0	36.0	21.5
Merged-chr13-20120854-4	chr13	20120818	20121018	+	906.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	30411.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	10.0	30.0	22.5	206.0	59.5	25.5	13.0	30.0
Merged-chr10-119050155-4	chr10	119050050	119050250	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152787, exon 2 of 4)	non-coding (NR_152787, exon 2 of 4)	349.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	20.0	20.5	6.5	151.5	51.0	15.0	11.0	10.5
Merged-chr2-59228982-7	chr2	59228869	59229069	+	871.569031	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	MTC|LTR|ERVL-MaLR	68119.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	3.5	1.0	3.5	89.5	7.5	6.0	9.5	9.5
Merged-chr11-64978935-4	chr11	64978822	64979022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023479)	promoter-TSS (NM_023479)	-113.0	NM_023479	68626.0	Mm.157711	NM_023479	ENSMUSG00000020549	Elac2	1110017O07Rik|D11Wsu80e|Hpc2	elaC ribonuclease Z 2	protein-coding	232.5	288.0	181.5	3267.0	492.5	184.5	239.0	143.0
Merged-chr6-34476219-4	chr6	34476128	34476328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007563)	promoter-TSS (NM_007563)	-128.0	NM_007563	12183.0	Mm.282863	NM_007563	ENSMUSG00000038871	Bpgm	AI323730|AL022789|C86192	2,3-bisphosphoglycerate mutase	protein-coding	228.0	259.0	195.0	3249.0	447.5	164.0	189.0	180.0
Merged-chr10-5807102-3	chr10	5807017	5807217	+	835.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1652.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	6.0	5.5	4.5	63.0	17.5	2.5	7.0	8.0
Merged-chr1-20891176-4	chr1	20891071	20891271	+	942.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040492)	promoter-TSS (NR_040492)	623.0	NM_028829	74229.0	Mm.40780	NM_028829	ENSMUSG00000025931	Paqr8	1700019B16Rik|3110001D06Rik	progestin and adipoQ receptor family member VIII	protein-coding	21.0	28.0	24.5	201.0	47.5	13.0	15.5	16.0
Merged-chr19-34551124-2	chr19	34551024	34551224	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355262)	promoter-TSS (NM_001355262)	36.0	NM_001355262	15958.0	Mm.2036	NM_008332	ENSMUSG00000045932	Ifit2	AV302338|Ifi54|P54	interferon-induced protein with tetratricopeptide repeats 2	protein-coding	9.5	12.0	10.0	67.0	19.0	14.5	10.0	13.0
Merged-chr3-83841686-4	chr3	83841592	83841792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011905)	promoter-TSS (NM_011905)	-84.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	191.5	251.0	153.0	1823.5	423.0	191.5	168.5	124.5
Merged-chr7-6363229-1	chr7	6363129	6363329	+	1000.0	f0_c57.idr	promoter-TSS (NM_001025163)	promoter-TSS (NM_001025163)	-79.0	NM_001025163	330463.0	Mm.136456	NM_177888	ENSMUSG00000055150	Zfp78	A330079D15|KRAB12|Zfp77	zinc finger protein 78	protein-coding	94.0	128.5	157.0	1306.0	139.5	75.5	78.5	83.5
Merged-chr10-77917022-6	chr10	77916850	77917050	+	915.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 29 of 33)	RLTR11A|LTR|ERVK	-14414.0	NM_145152	237387.0	Mm.133301	NM_145152	ENSMUSG00000051652	Lrrc3	1300011L04Rik|C21orf102	leucine rich repeat containing 3	protein-coding	6.5	7.5	12.0	87.0	16.5	6.0	6.5	9.0
Merged-chr8-46845154-4	chr8	46845037	46845237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 7 of 7)	intron (NR_152560, intron 7 of 7)	105392.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	74.0	58.5	99.5	1307.5	136.5	44.0	84.5	80.5
Merged-chr9-107261068-4	chr9	107260951	107261151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316691, intron 4 of 7)	intron (NM_001316691, intron 4 of 7)	28345.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	42.0	60.0	17.0	668.5	105.0	38.5	49.5	39.0
Merged-chr9-106367183-4	chr9	106367101	106367301	+	924.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1431.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	8.0	18.0	20.5	102.0	24.0	14.5	21.0	14.5
Merged-chr18-80410506-3	chr18	80410401	80410601	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 12 of 12)	intron (NM_026295, intron 12 of 12)	-46247.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	9.5	10.0	6.0	266.5	16.5	6.0	5.5	11.0
Merged-chr12-3892891-4	chr12	3892781	3892981	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 1 of 17)	intron (NM_153743, intron 1 of 17)	1137.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	41.0	33.5	49.0	721.0	54.0	22.0	18.5	36.0
Merged-chr18-80319375-4	chr18	80319275	80319475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190373, intron 3 of 3)	intron (NM_001190373, intron 3 of 3)	44879.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	52.5	52.0	40.5	697.0	81.0	28.5	39.5	50.0
Merged-chr10-63247687-4	chr10	63247606	63247806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359484, intron 3 of 22)	intron (NM_001359484, intron 3 of 22)	3909.0	NM_001359484	67345.0	Mm.234437	NM_026101	ENSMUSG00000020064	Herc4	1700056O17Rik|4921531D01Rik|9530080M15Rik|mKIAA1593	hect domain and RLD 4	protein-coding	29.0	60.5	48.0	652.0	111.5	38.0	49.5	42.0
Merged-chr4-102568776-3	chr4	102568691	102568891	+	892.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-1269.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	15.5	13.5	15.0	114.0	20.5	1.5	7.0	15.5
Merged-chr16-38695360-3	chr16	38695248	38695448	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	MLT1D|LTR|ERVL-MaLR	17687.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	10.5	14.5	6.0	82.5	14.5	12.5	10.5	10.5
Merged-chr15-81960276-4	chr15	81960137	81960337	+	890.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282041, intron 1 of 5)	intron (NM_001282041, intron 1 of 5)	693.0	NM_001282040	29858.0	Mm.18939	NM_013872	ENSMUSG00000022474	Pmm1	C77612	phosphomannomutase 1	protein-coding	8.0	15.0	6.0	87.0	32.0	11.5	8.0	14.5
Merged-chr2-4493339-4	chr2	4493218	4493418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 4 of 23)	intron (NM_001177843, intron 4 of 23)	-66436.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	20.5	37.5	16.5	445.5	81.5	31.0	44.5	34.0
Merged-chr5-115516806-4	chr5	115516710	115516910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	10134.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	112.5	167.0	140.5	1799.5	229.0	86.5	128.0	91.0
Merged-chr4-97746122-3	chr4	97746004	97746204	+	840.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	CpG	-31522.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	5.0	10.0	4.5	98.0	24.0	6.0	4.5	3.0
Merged-chr10-88337201-2	chr10	88337101	88337301	+	986.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 3 of 6)	URR1B|DNA|hAT-Charlie	19874.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	4.5	3.0	6.0	65.0	6.5	4.5	6.5	4.5
Merged-chr13-54688212-4	chr13	54688092	54688292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146025)	promoter-TSS (NM_001146025)	8.0	NM_001146027	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	163.0	271.0	118.5	1981.5	411.5	167.5	199.0	170.5
Merged-chr9-114753000-4	chr9	114752892	114753092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	21789.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	219.5	381.0	214.5	3043.0	601.0	256.5	321.5	215.0
Merged-chr4-154932985-4	chr4	154932889	154933089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4912.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	58.5	146.5	66.0	508.5	197.0	58.0	63.0	45.5
Merged-chr4-149144608-4	chr4	149144484	149144684	+	915.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6984.0	NM_027263	69928.0	Mm.260893	NM_027263	ENSMUSG00000073705	Cenps	2610040C18Rik|2810407L01Rik|Apitd1|CENP-S	centromere protein S	protein-coding	10.5	24.5	6.5	180.5	38.5	11.0	22.5	11.0
Merged-chr5-147861454-1	chr5	147861354	147861554	+	541.0	f0_balb.idr	intron (NM_025624, intron 1 of 5)	intron (NM_025624, intron 1 of 5)	826.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	10.0	24.5	4.0	115.5	35.0	7.0	13.5	8.0
Merged-chr7-16222082-4	chr7	16221979	16222179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285931)	promoter-TSS (NM_001285931)	-47.0	NM_027883	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	117.5	211.5	93.0	1292.5	393.5	140.5	180.0	150.5
Merged-chr4-135314015-4	chr4	135313924	135314124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39190.0	NM_016799	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	168.5	257.5	113.0	1678.0	382.0	156.5	134.0	141.5
Merged-chr19-44135825-4	chr19	44135723	44135923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356578)	promoter-TSS (NM_001356578)	53.0	NM_001081077	72502.0	Mm.276109	NM_001081077	ENSMUSG00000025200	Cwf19l1	-	CWF19-like 1, cell cycle control (S. pombe)	protein-coding	33.5	35.0	30.0	429.5	92.0	22.0	24.5	26.5
Merged-chr5-135187098-4	chr5	135186964	135187164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011714)	promoter-TSS (NM_011714)	-259.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	219.0	391.5	252.5	2729.5	596.0	257.0	253.5	229.0
Merged-chr11-26593564-5	chr11	26593444	26593644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027260, intron 1 of 12)	CpG	376.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	51.0	84.5	81.5	790.5	116.0	56.0	57.5	74.5
Merged-chr13-97235194-3	chr13	97235085	97235285	+	926.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5920.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	7.0	13.0	13.0	146.0	33.0	2.5	8.5	5.5
Merged-chr4-148085365-4	chr4	148085285	148085485	+	894.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301281, intron 1 of 4)	intron (NM_001301281, intron 1 of 4)	2679.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	6.0	15.5	23.0	293.5	29.0	7.0	11.5	11.0
Merged-chr7-123203816-3	chr7	123203710	123203910	+	827.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11056.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	9.0	8.0	13.5	205.0	21.5	10.0	10.0	13.5
Merged-chr13-21549698-4	chr13	21549615	21549815	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	6305.0	NM_207572	404335.0	Mm.377341	NM_207572	ENSMUSG00000054890	Olfr1535	MOR256-36|MOR256-63|Olfr1365	olfactory receptor 1535	protein-coding	20.0	26.0	25.5	306.0	101.5	36.5	55.5	62.5
Merged-chr12-102382423-4	chr12	102382325	102382525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 7 of 9)	intron (NM_177620, intron 7 of 9)	57388.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	37.5	77.0	164.0	2362.0	101.5	21.0	64.0	53.0
Merged-chr2-155514860-2	chr2	155514757	155514957	+	648.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_144786)	promoter-TSS (NM_144786)	-11.0	NM_144786	207182.0	Mm.41757	NM_144786	ENSMUSG00000027603	Ggt7	1110017C11Rik|6330563L03Rik|Ggtl3	gamma-glutamyltransferase 7	protein-coding	6.5	17.5	2.0	136.5	17.5	6.0	9.5	4.5
Merged-chr8-84998037-4	chr8	84997948	84998148	+	989.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167991, exon 15 of 22)	exon (NM_001167991, exon 15 of 22)	7453.0	NM_001167991	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	33.5	49.0	20.5	474.5	84.5	16.0	49.0	51.5
Merged-chr10-94480649-3	chr10	94480558	94480758	+	952.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-34199.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	14.0	10.5	10.0	163.5	13.0	3.5	11.0	1.0
Merged-chr3-106547784-4	chr3	106547692	106547892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133869)	promoter-TSS (NM_133869)	-6.0	NM_001286986	67171.0	Mm.290488	NM_026013	ENSMUSG00000027900	Dram2	2010305N14Rik|2610318G18Rik|AI647667|Tmem77	DNA-damage regulated autophagy modulator 2	protein-coding	111.0	184.0	139.0	1647.5	291.0	144.0	136.5	167.5
Merged-chr4-121041109-4	chr4	121040991	121041191	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007741, intron 2 of 31)	intron (NM_007741, intron 2 of 31)	1525.0	NM_007741	12840.0	Mm.269384	NM_007741	ENSMUSG00000028626	Col9a2	AI427499|Col9a-2	collagen, type IX, alpha 2	protein-coding	24.5	36.0	13.0	286.5	67.0	26.5	40.0	29.5
Merged-chr10-31299355-4	chr10	31299260	31299460	+	917.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14045.0	NM_027168	69692.0	Mm.245537	NM_027168	ENSMUSG00000000295	Hddc2	2310057G13Rik	HD domain containing 2	protein-coding	14.0	14.5	17.5	200.5	34.0	7.5	4.5	18.0
Merged-chr3-51859385-4	chr3	51859298	51859498	+	899.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	198219.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	16.5	10.5	18.5	412.0	17.5	5.5	12.5	12.5
Merged-chr12-101758847-4	chr12	101758770	101758970	+	983.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361987, intron 9 of 10)	intron (NM_001361987, intron 9 of 10)	-40347.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	15.0	4.5	37.5	272.0	35.5	19.0	24.5	19.0
Merged-chr11-67579296-4	chr11	67579182	67579382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	-7218.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	78.0	124.0	76.5	1024.0	183.0	67.0	72.0	82.0
Merged-chr12-80833733-4	chr12	80833599	80833799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	intron (NM_178682, intron 2 of 5)	43167.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	55.5	62.0	33.0	574.5	97.5	36.0	48.0	45.0
Merged-chr11-61613806-2	chr11	61613706	61613906	+	847.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-34119.0	NM_001252189	13855.0	Mm.139695	NM_010148	ENSMUSG00000001036	Epn2	9530051D10Rik|AA536924|Ibp2	epsin 2	protein-coding	6.0	24.5	7.0	25.5	25.5	7.0	9.0	8.5
Merged-chr17-37271004-4	chr17	37270869	37271069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013819, intron 2 of 7)	intron (NM_013819, intron 2 of 7)	735.0	NM_013819	14991.0	Mm.14437	NM_013819	ENSMUSG00000016206	H2-M3	H-2M3|Hmt|M3a|MuprM3|MuprM301|MuprM302|R4B2	histocompatibility 2, M region locus 3	protein-coding	70.5	69.0	66.0	703.0	151.0	54.0	54.5	62.0
Merged-chr19-9931653-2	chr19	9931548	9931748	+	1000.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-32115.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	52.5	60.0	39.0	640.0	116.5	50.0	43.5	44.5
Merged-chr9-7346107-4	chr9	7346097	7346297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001320077, intron 1 of 10)	intron (NM_001320077, intron 1 of 10)	-1177.0	NM_001320076	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	14.5	24.5	28.0	296.5	29.0	6.0	10.5	14.0
Merged-chr9-63399268-4	chr9	63399166	63399366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027090)	promoter-TSS (NM_027090)	-22.0	NM_027090	69478.0	Mm.113942	NM_027090	ENSMUSG00000032403	2300009A05Rik	-	RIKEN cDNA 2300009A05 gene	protein-coding	112.0	162.5	115.0	1737.0	270.0	117.0	100.5	104.5
Merged-chr10-80930572-4	chr10	80930478	80930678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008655, intron 2 of 3)	CpG-1325	487.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	52.0	188.0	54.5	406.5	294.0	164.5	105.5	57.5
Merged-chr15-78301001-3	chr15	78300924	78301124	+	857.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287389, intron 1 of 11)	B4|SINE|B4	4697.0	NM_007781	12984.0	Mm.1940	NM_007781	ENSMUSG00000071714	Csf2rb2	AIC2A|BetaIl3|Bil3|Csfgmrb|Il3r|Il3rb|Il3rb2	colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage)	protein-coding	14.5	9.0	16.0	190.5	39.0	8.0	9.0	2.5
Merged-chr1-153486978-3	chr1	153486889	153487089	+	987.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007842, intron 1 of 27)	CpG	671.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	3.5	13.5	11.5	143.5	30.5	6.5	5.0	14.5
Merged-chr2-24359511-3	chr2	24359405	24359605	+	909.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_LTR|LTR|ERV1	-8170.0	NM_001355231	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	3.0	25.0	4.0	28.5	27.0	21.5	6.5	5.0
Merged-chr5-73637931-3	chr5	73637858	73638058	+	867.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011890, intron 5 of 5)	intron (NM_011890, intron 5 of 5)	-5537.0	NM_153568	231296.0	Mm.168948	NM_153568	ENSMUSG00000067206	Lrrc66	-	leucine rich repeat containing 66	protein-coding	10.0	9.5	2.5	131.0	12.5	9.0	10.5	8.0
Merged-chr1-152386624-4	chr1	152386528	152386728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025677)	promoter-TSS (NM_025677)	54.0	NM_025677	66637.0	Mm.379120	NM_025677	ENSMUSG00000014980	Tsen15	5730449L18Rik|AL023077|Sen15	tRNA splicing endonuclease subunit 15	protein-coding	28.5	39.5	18.0	396.5	69.5	32.0	36.5	27.5
Merged-chr10-45960446-4	chr10	45960353	45960553	+	818.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152749.0	NR_040624	320363.0	Mm.123343	NR_040624	ENSMUSG00000110874	D030045P18Rik	-	RIKEN cDNA D030045P18 gene	ncRNA	6.5	8.5	23.5	284.5	23.5	3.5	10.5	4.5
Merged-chr1-24681291-4	chr1	24681208	24681408	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310483, intron 1 of 15)	intron (NM_001310483, intron 1 of 15)	2390.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	5.0	8.0	14.0	212.5	36.5	3.0	14.0	13.0
Merged-chr10-128337656-4	chr10	128337547	128337747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026444)	promoter-TSS (NM_026444)	-80.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	173.5	300.5	175.0	2097.5	407.5	151.5	158.5	133.0
Merged-chr11-69323901-4	chr11	69323809	69324009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172560)	promoter-TSS (NM_172560)	-36.0	NM_172560	216846.0	Mm.28774	NM_172560	ENSMUSG00000032782	Cntrob	9830165K03Rik|Lip8|Nip2	centrobin, centrosomal BRCA2 interacting protein	protein-coding	184.5	321.0	126.5	2247.0	431.0	182.0	159.5	160.5
Merged-chr1-180922535-4	chr1	180922428	180922628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12494.0	NM_010094	13590.0	Mm.378911	NM_010094	ENSMUSG00000038793	Lefty1	AI450052|Ebaf|Leftb|Stra3|Tgfb4|lefty|lefty-1	left right determination factor 1	protein-coding	36.0	37.5	30.5	568.5	74.0	37.5	46.5	37.0
Merged-chr17-45554985-4	chr17	45554880	45555080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304956)	promoter-TSS (NM_001304956)	-720.0	NM_008690	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	22.0	51.5	18.5	271.0	100.0	27.5	47.0	41.0
Merged-chr3-96487994-6	chr3	96487907	96488107	+	776.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B2|LTR|ERVK	-35701.0	NM_001256181	329716.0	Mm.275223	NM_183223	ENSMUSG00000046317	BC107364	D730018G16	cDNA sequence BC107364	protein-coding	2.0	0.0	0.0	10.0	26.5	11.5	5.0	8.5
Merged-chr13-112530002-4	chr13	112529872	112530072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139299, intron 14 of 16)	intron (NM_139299, intron 14 of 16)	50690.0	NM_139299	218624.0	Mm.380801	NM_139299	ENSMUSG00000050377	Il31ra	CRL3|GLM-R|GPL|Glmr|NR10	interleukin 31 receptor A	protein-coding	81.5	67.0	78.0	1109.0	133.0	63.0	110.5	65.0
Merged-chr8-8452392-4	chr8	8452282	8452482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	208391.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	171.0	281.5	204.0	3325.0	439.0	178.0	228.5	180.0
Merged-chr8-83736820-4	chr8	83736710	83736910	+	939.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	intron (NM_011925, intron 1 of 19)	4501.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	11.0	13.5	10.0	125.5	113.0	26.0	29.0	64.5
Merged-chr10-30408888-4	chr10	30408787	30408987	+	899.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	191813.0	NM_028604	73681.0	Mm.294503	NM_028604	ENSMUSG00000019792	Trmt11	2410075D05Rik|3110045I18Rik|AW213713	tRNA methyltransferase 11	protein-coding	9.5	22.0	11.5	274.5	32.0	5.5	11.5	16.5
Merged-chr17-27909785-3	chr17	27909668	27909868	+	872.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr	promoter-TSS (NM_026836)	promoter-TSS (NM_026836)	462.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	5.0	28.0	16.0	164.0	24.5	11.0	7.5	28.5
Merged-chr5-9087444-3	chr5	9087354	9087554	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-13283.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	13.5	13.0	16.0	342.0	52.0	21.0	32.5	18.0
Merged-chr7-45406700-5	chr7	45406580	45406780	+	711.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010596, exon 1 of 2)	exon (NM_010596, exon 1 of 2)	720.0	NM_010596	16495.0	Mm.12955	NM_010596	ENSMUSG00000038201	Kcna7	Kv1.7	potassium voltage-gated channel, shaker-related subfamily, member 7	protein-coding	11.0	5.0	4.5	124.5	9.5	4.0	8.5	4.5
Merged-chr19-56703241-4	chr19	56703136	56703336	+	977.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19136.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	23.5	17.5	25.5	320.0	48.0	18.5	19.5	18.0
Merged-chr1-172478185-4	chr1	172478089	172478289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029612, exon 4 of 4)	exon (NM_029612, exon 4 of 4)	2829.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	18.5	27.5	25.0	458.5	78.0	22.5	38.5	38.0
Merged-chr9-83925073-4	chr9	83924918	83925118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305935)	promoter-TSS (NM_001305935)	-119.0	NM_001305935	12040.0	Mm.12819	NM_199195	ENSMUSG00000032263	Bckdhb	BCKDE1B|BCKDH E1-beta	branched chain ketoacid dehydrogenase E1, beta polypeptide	protein-coding	106.0	111.0	109.5	1754.0	234.0	95.5	134.0	56.5
Merged-chr8-86888750-4	chr8	86888641	86888841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3483.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	66.0	78.5	79.0	1063.5	122.5	47.5	67.5	48.5
Merged-chr3-158061131-4	chr3	158061014	158061214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359763, intron 10 of 13)	intron (NM_001359763, intron 10 of 13)	24432.0	NM_001289524	67144.0	Mm.358704	NM_024194	ENSMUSG00000063052	Lrrc40	2610040E16Rik|AI837674	leucine rich repeat containing 40	protein-coding	19.5	37.5	23.0	495.0	105.5	24.5	27.0	30.0
Merged-chr4-142017881-4	chr4	142017788	142017988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131014)	promoter-TSS (NR_131014)	-10.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	114.5	160.5	140.0	2698.0	297.0	82.5	174.0	163.5
Merged-chr8-19958086-3	chr8	19957987	19958187	+	792.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270553, intron 6 of 9)	RMER16_Mm|LTR|ERVK	228511.0	NM_001039553	626415.0	Mm.425517	NM_001039553	ENSMUSG00000096265	4930467E23Rik	TSAP	RIKEN cDNA 4930467E23 gene	protein-coding	21.0	27.5	22.5	337.5	6.0	4.5	5.5	0.5
Merged-chr6-86599401-4	chr6	86599322	86599522	+	941.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28752.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	18.0	14.5	18.0	204.0	29.5	19.0	20.0	18.5
Merged-chr11-44476617-4	chr11	44476513	44476713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-6065.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	20.5	53.5	21.0	154.5	100.0	22.5	27.0	8.5
Merged-chr15-74596124-3	chr15	74596010	74596210	+	812.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40208.0	NM_001177437	69439.0	Mm.263708	NM_001177437	ENSMUSG00000022603	Mroh4	1700016M24Rik	maestro heat-like repeat family member 4	protein-coding	5.5	19.0	20.0	76.5	12.5	1.5	4.0	4.5
Merged-chr13-23530400-4	chr13	23530327	23530527	+	980.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153173)	promoter-TSS (NM_153173)	-617.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	26.5	32.5	12.0	122.5	82.0	23.0	17.0	21.5
Merged-chr9-72662390-2	chr9	72662290	72662490	+	608.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010890)	promoter-TSS (NM_010890)	59.0	NM_010890	17999.0	Mm.279923	NM_010890	ENSMUSG00000032216	Nedd4	AA959633|AL023035|AU019897|E430025J12Rik|EG639396|Gm7265|KIAA0093|Nedd4-1|Nedd4a	neural precursor cell expressed, developmentally down-regulated 4	protein-coding	7.0	3.0	12.5	82.5	11.0	10.5	5.0	6.0
Merged-chr6-137395241-4	chr6	137395152	137395352	+	929.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 10 of 26)	intron (NM_011216, intron 10 of 26)	-15469.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	7.5	22.0	10.5	215.5	30.5	8.5	16.5	15.0
Merged-chr2-122702469-3	chr2	122702383	122702583	+	832.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290993, exon 1 of 6)	5' UTR (NM_001290993, exon 1 of 6)	180.0	NM_011774	22785.0	Mm.27801	NM_011774	ENSMUSG00000005802	Slc30a4	Znt4|lm|znT-4	solute carrier family 30 (zinc transporter), member 4	protein-coding	4.5	10.0	12.5	59.0	12.5	1.5	4.0	5.5
Merged-chr10-14545433-4	chr10	14545300	14545500	+	918.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002268)	promoter-TSS (NM_001002268)	-364.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	14.0	19.0	28.5	254.5	46.0	14.5	27.5	15.5
Merged-chr13-120299480-3	chr13	120299361	120299561	+	839.3110960000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037925)	promoter-TSS (NM_001037925)	-931.0	NM_001037925	625360.0	Mm.327506	NM_001037925	ENSMUSG00000094796	BC147527	-	cDNA sequence BC147527	protein-coding	10.0	23.5	9.5	143.5	13.5	2.5	15.5	10.0
Merged-chr17-31565471-3	chr17	31565373	31565573	+	940.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016670, intron 1 of 10)	CpG	700.0	NM_016670	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	10.5	21.0	12.5	166.5	50.5	11.0	11.5	22.5
Merged-chr1-51915807-4	chr1	51915662	51915862	+	881.875	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001161817, exon 1 of 31)	5' UTR (NM_001161817, exon 1 of 31)	216.0	NM_001161817	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	11.5	26.0	12.5	118.0	15.0	9.0	10.0	6.5
Merged-chr10-63386591-4	chr10	63386495	63386695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013888)	promoter-TSS (NM_013888)	32.0	NM_013888	30045.0	Mm.32550	NM_013888	ENSMUSG00000036764	Dnajc12	Jdp1|mJDP1	DnaJ heat shock protein family (Hsp40) member C12	protein-coding	87.5	146.5	100.0	1311.0	225.5	97.5	102.0	57.0
Merged-chr1-106037123-4	chr1	106037033	106037233	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAAA)n|Simple_repeat|Simple_repeat	46727.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	29.0	19.5	13.0	338.0	59.5	16.5	27.5	20.0
Merged-chr12-30911605-4	chr12	30911455	30911655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013709)	promoter-TSS (NM_013709)	57.0	NM_021330	11431.0	Mm.359831	NM_021330	ENSMUSG00000044573	Acp1	4632432E04Rik|AI427468|Acp-1|LMW-PTP|Lmptp	acid phosphatase 1, soluble	protein-coding	133.0	199.0	181.0	898.5	256.5	104.5	121.5	93.5
Merged-chr8-116943395-4	chr8	116943307	116943507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177700)	promoter-TSS (NM_177700)	14.0	NM_177700	234776.0	Mm.259736	NM_177700	ENSMUSG00000047388	Atmin	Asciz|gpg6|mKIAA0431	ATM interactor	protein-coding	80.0	91.5	44.0	794.5	153.5	55.0	74.5	48.0
Merged-chr10-8870567-4	chr10	8870474	8870674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	15496.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	247.5	401.5	282.5	3378.5	563.0	252.5	220.0	213.5
Merged-chr9-22002768-4	chr9	22002684	22002884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029939)	promoter-TSS (NM_029939)	-150.0	NM_029939	77609.0	Mm.159953	NM_029939	ENSMUSG00000039632	Ccdc151	AI644415|C330001K17Rik|b2b1885Clo	coiled-coil domain containing 151	protein-coding	330.0	613.5	412.0	5316.5	1092.0	466.5	428.0	404.0
Merged-chr3-84313237-4	chr3	84313121	84313321	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	-8446.0	NM_001271726	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	13.0	25.5	14.0	249.0	49.0	13.5	30.0	19.0
Merged-chr6-145212184-4	chr6	145212090	145212290	+	928.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163628, intron 1 of 2)	intron (NM_001163628, intron 1 of 2)	1043.0	NM_001362057	67636.0	Mm.486359	NM_133688	ENSMUSG00000040370	Etfrf1	4930469P12Rik|AL022899|Ghiso|Lyrm5	electron transfer flavoprotein regulatory factor 1	protein-coding	9.0	14.0	25.5	209.0	47.0	12.5	8.5	19.5
Merged-chr10-128748448-4	chr10	128748362	128748562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253704)	promoter-TSS (NM_001253704)	7.0	NM_001253704	78428.0	Mm.27358	NM_030100	ENSMUSG00000064030	Pym1	A030010B05Rik|Pym|Wibg	PYM homolog 1, exon junction complex associated factor	protein-coding	41.5	54.0	28.5	549.5	155.5	46.0	57.5	63.5
Merged-chr1-13256410-4	chr1	13256332	13256532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 2 of 22)	intron (NM_008678, intron 2 of 22)	115997.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	26.5	29.0	31.0	484.5	267.0	102.0	126.5	96.0
Merged-chr11-103132206-4	chr11	103132115	103132315	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1124.0	NM_001130516	71059.0	Mm.273871	NM_027658	ENSMUSG00000043372	Hexim2	4933402L21Rik	hexamethylene bis-acetamide inducible 2	protein-coding	9.0	79.0	23.5	138.0	56.0	37.0	26.5	24.5
Merged-chr13-56134972-4	chr13	56134867	56135067	+	906.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159513, intron 1 of 8)	CpG	583.0	NM_012015	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	5.0	16.0	13.5	191.5	30.0	13.0	13.5	25.5
Merged-chr4-141952347-4	chr4	141952254	141952454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 12 of 31)	intron (NM_177868, intron 12 of 31)	-30638.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	201.0	331.0	189.5	2538.0	418.0	210.5	229.0	214.0
Merged-chr1-127084102-4	chr1	127083936	127084136	+	932.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120950.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	7.0	9.5	17.5	305.5	40.0	12.5	20.5	25.0
Merged-chr9-48576950-1	chr9	48576850	48577050	+	810.0	f1_c57bl6.idr	Intergenic	B4|SINE|B4	28173.0	NM_010924	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	5.5	14.0	8.0	55.0	5.0	2.0	7.5	8.5
Merged-chr13-99331694-3	chr13	99331576	99331776	+	998.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 6 of 9)	intron (NM_026873, intron 6 of 9)	13002.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	2.5	13.5	0.0	45.5	55.5	14.5	28.0	24.5
Merged-chr12-69403057-2	chr12	69402957	69403157	+	898.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_LTR|LTR|ERV1	30907.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	10.5	25.0	9.0	10.5	17.0	9.0	9.0	1.5
Merged-chr15-99876956-3	chr15	99876870	99877070	+	667.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57D|LTR|ERV1	-1514.0	NM_001113545	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	11.0	11.5	7.5	77.5	28.0	5.0	6.0	2.5
Merged-chr10-59333628-4	chr10	59333523	59333723	+	779.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316370, intron 1 of 13)	RSINE1|SINE|B4	10327.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	18.0	10.0	7.0	175.5	27.5	8.5	13.5	13.0
Merged-chr11-108846680-2	chr11	108846580	108846780	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029606, intron 25 of 27)	intron (NM_029606, intron 25 of 27)	-73669.0	NM_015732	12006.0	Mm.71710	NM_015732	ENSMUSG00000000142	Axin2	Axi1|Axil|Conductin	axin 2	protein-coding	1.0	1.0	0.0	10.5	14.5	6.5	11.5	7.0
Merged-chr9-57473484-4	chr9	57473393	57473593	+	905.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5433.0	NM_001301635	56807.0	Mm.102278	NM_020270	ENSMUSG00000040722	Scamp5	Sc5	secretory carrier membrane protein 5	protein-coding	3.0	12.0	11.0	76.0	7.5	4.5	6.0	9.5
Merged-chr11-40754795-4	chr11	40754705	40754905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009831, intron 1 of 5)	intron (NM_009831, intron 1 of 5)	481.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	18.5	19.5	33.0	329.5	20.5	19.5	26.5	21.5
Merged-chr6-52699221-4	chr6	52699109	52699309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14520.0	NM_025816	52440.0	Mm.389757	NM_025816	ENSMUSG00000004535	Tax1bp1	1200003J11Rik|1700069J21Rik|AA930106|D6Ertd404e|D6Ertd772e|T6bp|TXBP151	Tax1 (human T cell leukemia virus type I) binding protein 1	protein-coding	40.5	40.5	39.0	691.5	108.0	39.5	47.5	32.0
Merged-chr9-32508327-1	chr9	32508227	32508427	+	834.0	f0_balb.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	33125.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	7.0	7.0	8.5	116.5	5.5	6.5	4.5	7.0
Merged-chr17-42436169-4	chr17	42436069	42436269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355270, intron 2 of 2)	intron (NM_001355270, intron 2 of 2)	119569.0	NM_001355270	627626.0	Mm.390999	NM_028474	ENSMUSG00000042256	Ptchd4	3110082D06Rik|Gm321	patched domain containing 4	protein-coding	26.0	43.5	32.5	817.0	73.5	19.5	53.5	28.0
Merged-chr1-72284358-4	chr1	72284283	72284483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175564)	promoter-TSS (NM_175564)	10.0	NM_175564	271711.0	Mm.80318	NM_175564	ENSMUSG00000026188	Tmem169	A830020B06Rik	transmembrane protein 169	protein-coding	182.5	302.0	196.5	3673.5	474.5	145.0	261.0	192.5
Merged-chr2-148073940-3	chr2	148073844	148074044	+	967.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26975.0	NM_010446	15376.0	Mm.938	NM_010446	ENSMUSG00000037025	Foxa2	HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b	forkhead box A2	protein-coding	5.5	3.0	3.5	52.0	51.5	15.0	43.5	53.5
Merged-chr9-44379387-4	chr9	44379277	44379477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021395)	promoter-TSS (NM_021395)	-113.0	NM_021395	12282.0	Mm.116721	NM_021395	ENSMUSG00000032115	Hyou1	AI415631|CBP-140|Cab140|Grp170|Orp150	hypoxia up-regulated 1	protein-coding	221.5	345.5	155.0	2379.5	630.0	255.0	251.5	215.0
Merged-chr8-126594014-4	chr8	126593903	126594103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164598)	promoter-TSS (NM_001164598)	-567.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	116.0	189.0	156.5	1826.5	377.0	118.5	172.5	138.5
Merged-chr10-115315021-4	chr10	115314934	115315134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024454, intron 1 of 6)	intron (NM_024454, intron 1 of 6)	557.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	29.5	93.5	42.0	350.0	145.0	34.5	36.5	46.0
Merged-chr12-3264578-4	chr12	3264470	3264670	+	928.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 2 of 5)	intron (NM_016676, intron 2 of 5)	28779.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	26.5	34.5	15.0	324.0	45.5	13.5	12.5	16.0
Merged-chr18-39458950-4	chr18	39458854	39459054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	28291.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	32.0	65.0	40.0	607.5	74.0	38.0	28.0	40.5
Merged-chr15-42962879-3	chr15	42962785	42962985	+	795.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	207933.0	NM_001357957	239405.0	Mm.193274	NM_172815	ENSMUSG00000051920	Rspo2	2610028F08Rik|AA673245|D430027K22|ftls	R-spondin 2	protein-coding	5.0	7.5	17.5	149.5	5.5	6.5	4.0	14.0
Merged-chr16-55839349-4	chr16	55839246	55839446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030612)	promoter-TSS (NM_030612)	-705.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	87.5	196.0	85.5	925.0	233.0	123.0	104.5	73.5
Merged-chr12-76177210-1	chr12	76177110	76177310	+	730.5	f0_balb.idr	promoter-TSS (NR_104386)	promoter-TSS (NR_104386)	49.0	NM_010157	13983.0	Mm.2561	NM_010157	ENSMUSG00000021055	Esr2	ER[b]|ERbeta|Estrb	estrogen receptor 2 (beta)	protein-coding	0.5	9.5	9.5	93.0	8.0	6.0	5.0	5.5
Merged-chr2-126073465-3	chr2	126073368	126073568	+	751.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008008, intron 2 of 3)	intron (NM_008008, intron 2 of 3)	38810.0	NM_008008	14178.0	Mm.330557	NM_008008	ENSMUSG00000027208	Fgf7	Kgf	fibroblast growth factor 7	protein-coding	10.5	5.5	10.5	68.5	10.5	2.5	3.0	5.5
Merged-chr2-84601403-6	chr2	84601382	84601582	+	915.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007615, exon 20 of 20)	3' UTR (NM_007615, exon 20 of 20)	47998.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	7.5	9.5	10.5	115.5	11.5	7.0	8.0	9.0
Merged-chr9-15685386-4	chr9	15685278	15685478	+	904.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24360.0	NM_001357566	234967.0	Mm.138815	NM_172289	ENSMUSG00000043885	Slc36a4	6330573I15Rik|PAT4	solute carrier family 36 (proton/amino acid symporter), member 4	protein-coding	10.5	15.5	17.0	281.0	33.0	7.5	12.5	12.5
Merged-chr2-116914166-4	chr2	116914056	116914256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14004.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	58.0	94.5	100.0	1537.5	140.0	69.5	59.0	61.5
Merged-chr4-115643298-4	chr4	115643236	115643436	+	867.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007823, intron 1 of 11)	intron (NM_007823, intron 1 of 11)	4369.0	NM_007823	13120.0	Mm.1840	NM_007823	ENSMUSG00000028713	Cyp4b1	-	cytochrome P450, family 4, subfamily b, polypeptide 1	protein-coding	6.0	5.5	9.0	98.0	7.0	3.5	13.0	9.0
Merged-chr14-16364201-2	chr14	16364101	16364301	+	919.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1005.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	4.5	7.5	16.0	85.5	23.5	17.5	5.0	7.5
Merged-chr4-101742204-4	chr4	101742126	101742326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146146, intron 4 of 18)	intron (NM_146146, intron 4 of 18)	24819.0	NM_010704	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	52.5	79.0	69.5	936.5	218.0	73.5	92.0	89.0
Merged-chr10-10471292-4	chr10	10471200	10471400	+	841.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	1014.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	13.5	16.0	13.5	285.5	16.5	12.0	7.0	6.0
Merged-chr15-57977025-3	chr15	57976928	57977128	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8875.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	10.0	15.0	2.5	108.5	21.5	10.0	7.5	7.5
Merged-chr15-53139482-1	chr15	53139382	53139582	+	1000.0	f0_c57.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	206701.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	21.5	36.5	26.5	340.5	91.0	18.0	34.5	18.5
Merged-chr10-62261312-4	chr10	62261211	62261411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009314, exon 3 of 5)	exon (NM_009314, exon 3 of 5)	8873.0	NM_009314	21337.0	Mm.8054	NM_009314	ENSMUSG00000020081	Tacr2	Nk2r|Skr|Tac2r	tachykinin receptor 2	protein-coding	36.5	88.5	34.0	455.0	86.0	28.0	42.5	34.5
Merged-chr11-61638977-4	chr11	61638876	61639076	+	894.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER76|LTR|ERVL	-14345.0	NM_027817	71520.0	Mm.202760	NM_027817	ENSMUSG00000004837	Grap	8430435N19Rik|BB233594	GRB2-related adaptor protein	protein-coding	5.0	13.5	5.0	138.0	31.0	12.0	7.0	10.0
Merged-chr19-5777539-4	chr19	5777426	5777626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-6107.0	NR_155264	78891.0	Mm.276063	NM_023912	ENSMUSG00000024941	Scyl1	2810011O19Rik|C85140|Ntkl|mdf|mfd|p105	SCY1-like 1 (S. cerevisiae)	protein-coding	25.0	54.5	27.0	248.5	97.5	48.0	50.0	47.0
Merged-chr6-140763766-4	chr6	140763661	140763861	+	852.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136876.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	7.0	14.0	18.5	357.0	16.5	13.0	12.0	16.0
Merged-chr9-89973896-3	chr9	89973795	89973995	+	704.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357743, intron 8 of 26)	intron (NM_001357743, intron 8 of 26)	64120.0	NM_001357743	19417.0	Mm.44561	NM_011245	ENSMUSG00000032356	Rasgrf1	AI844718|CDC25|CDC25Mm|Gnrp|Grf1|Grfbeta|P190-A|Ras-GRF1|p190|p190RhoGEF	RAS protein-specific guanine nucleotide-releasing factor 1	protein-coding	6.0	6.0	0.0	78.0	13.0	9.0	9.0	6.0
Merged-chr9-102779710-4	chr9	102779603	102779803	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40055.0	NR_033301	434510.0	Mm.387937	NM_001034892	ENSMUSG00000093812	Gm5627	EG434510	predicted gene 5627	ncRNA	14.5	29.5	13.5	134.5	16.0	8.5	12.5	12.0
Merged-chr10-61838925-2	chr10	61838825	61839025	+	647.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001304757, intron 37 of 37)	intron (NM_001304757, intron 37 of 37)	-55061.0	NM_207000	404634.0	Mm.272870	NM_207000	ENSMUSG00000020086	H2afy2	macroH2A2	H2A histone family, member Y2	protein-coding	3.0	5.5	6.0	39.0	12.5	7.5	4.5	7.0
Merged-chr13-58572881-4	chr13	58572782	58572982	+	858.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022317, intron 8 of 17)	intron (NM_022317, intron 8 of 17)	37995.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	12.0	12.5	20.0	234.5	19.5	2.5	9.0	7.5
Merged-chr5-76184449-4	chr5	76184334	76184534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011626, intron 1 of 5)	CpG	554.0	NM_011626	21982.0	Mm.790	NM_011626	ENSMUSG00000029234	Tmem165	AV026557|Tpardl|Tparl|pFT27	transmembrane protein 165	protein-coding	43.5	36.0	61.0	461.5	111.5	31.0	34.5	42.5
Merged-chr18-82867749-7	chr18	82867649	82867849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11852.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	12.0	40.5	23.0	196.5	62.0	20.0	16.0	17.0
Merged-chr15-81848501-4	chr15	81848407	81848607	+	952.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_020507, exon 2 of 2)	3' UTR (NM_020507, exon 2 of 2)	9819.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	21.5	33.0	9.5	145.5	60.0	19.5	18.0	8.5
Merged-chr11-101069997-4	chr11	101069916	101070116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013792)	promoter-TSS (NM_013792)	-78.0	NM_013792	27419.0	Mm.95452	NM_013792	ENSMUSG00000001751	Naglu	-	alpha-N-acetylglucosaminidase (Sanfilippo disease IIIB)	protein-coding	129.0	159.0	92.5	1389.0	303.5	101.5	98.5	112.0
Merged-chr11-77493246-4	chr11	77493140	77493340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004144)	promoter-TSS (NM_001004144)	-172.0	NM_001004144	216963.0	Mm.290182	NM_001004144	ENSMUSG00000011877	Git1	Cat-1|p95Cat	G protein-coupled receptor kinase-interactor 1	protein-coding	56.5	95.5	45.0	780.5	112.5	51.0	74.5	63.0
Merged-chr3-144982855-4	chr3	144982745	144982945	+	911.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-7800.0	NM_207208	99663.0	Mm.442050	NM_207208	ENSMUSG00000068547	Clca4a	9130020L07Rik|AI504701|Clca4|Clca6	chloride channel accessory 4A	protein-coding	10.0	11.0	18.5	318.0	26.0	10.5	20.5	18.0
Merged-chr15-31510623-4	chr15	31510527	31510727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 1 of 25)	intron (NM_172606, intron 1 of 25)	20410.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	30.5	41.0	19.5	527.0	89.0	29.5	46.5	32.0
Merged-chr19-60581077-4	chr19	60581003	60581203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172096)	promoter-TSS (NM_001172096)	-80.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	161.0	212.5	171.5	1811.0	520.5	179.5	209.0	141.5
Merged-chr2-30784589-6	chr2	30784470	30784670	+	959.522217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17167.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	15.0	35.5	15.0	85.0	34.0	19.5	17.5	13.5
Merged-chr3-85574650-4	chr3	85574536	85574736	+	833.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144896, intron 1 of 12)	intron (NM_144896, intron 1 of 12)	507.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	5.5	14.0	13.0	69.0	26.5	14.5	9.0	19.5
Merged-chr6-148579080-1	chr6	148578980	148579180	+	587.0	f0_balb.idr	Intergenic	Intergenic	35229.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	5.0	11.5	6.0	126.0	13.5	9.0	3.5	4.5
Merged-chr10-94059798-4	chr10	94059689	94059889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 2 of 20)	intron (NM_053072, intron 2 of 20)	23788.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	63.5	53.5	52.0	700.0	156.5	34.0	54.5	52.5
Merged-chr18-57844699-3	chr18	57844577	57844777	+	964.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34001.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	9.0	4.5	13.5	164.5	16.5	4.0	1.5	4.0
Merged-chr9-40350884-3	chr9	40350793	40350993	+	779.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 2 of 20)	intron (NM_001357617, intron 2 of 20)	-4648.0	NM_001357619	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	24.5	8.5	11.5	164.0	15.0	12.5	6.0	13.0
Merged-chr7-63914260-4	chr7	63914137	63914337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-2620.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	73.5	90.5	42.5	1137.0	111.5	42.5	68.0	81.0
Merged-chr3-52088579-4	chr3	52088474	52088674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	16432.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	87.0	124.5	129.5	2236.0	198.0	62.5	110.0	90.0
Merged-chr6-83795771-4	chr6	83795660	83795860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164187, intron 1 of 9)	intron (NM_001164187, intron 1 of 9)	602.0	NM_001164187	56174.0	Mm.190650	NM_019542	ENSMUSG00000034744	Nagk	Gnk	N-acetylglucosamine kinase	protein-coding	34.5	47.0	21.5	460.5	71.5	21.5	28.0	37.0
Merged-chr5-103721678-4	chr5	103721556	103721756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32506.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	79.0	145.0	92.5	664.5	227.5	109.5	113.5	46.5
Merged-chr10-79857697-4	chr10	79857660	79857860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077363, intron 2 of 13)	intron (NM_001077363, intron 2 of 13)	-2789.0	NR_029447	414101.0	Mm.401339	NR_029447	ENSMUSG00000091994	E130317F20Rik	-	RIKEN cDNA E130317F20 gene	ncRNA	110.0	181.5	119.0	1251.5	238.0	97.0	113.5	70.5
Merged-chr3-135424058-4	chr3	135423986	135424186	+	967.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025902)	promoter-TSS (NM_025902)	-653.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	18.0	22.5	14.0	403.0	82.5	12.5	35.5	43.5
Merged-chr2-4929471-4	chr2	4929376	4929576	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010726, intron 5 of 8)	MTC|LTR|ERVL-MaLR	10480.0	NM_010726	16922.0	Mm.391704	NM_010726	ENSMUSG00000026664	Phyh	AI256161|AI265699|Lnap1|PAHX	phytanoyl-CoA hydroxylase	protein-coding	7.0	14.0	16.0	151.0	52.5	14.0	33.5	13.5
Merged-chr4-129795542-4	chr4	129795435	129795635	+	916.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24944.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	14.0	8.5	14.0	210.0	35.0	12.5	8.5	14.0
Merged-chr2-131491906-4	chr2	131491814	131492014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177836)	promoter-TSS (NM_001177836)	52.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	33.5	35.5	34.0	593.0	75.5	26.5	30.0	25.5
Merged-chr4-88438915-4	chr4	88438782	88438982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025760)	promoter-TSS (NM_025760)	44.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	21.0	17.0	46.5	429.0	49.0	29.0	39.0	35.5
Merged-chr16-30010413-4	chr16	30010319	30010519	+	933.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033631, intron 1 of 2)	intron (NR_033631, intron 1 of 2)	1752.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	10.0	8.0	23.0	510.0	42.0	8.5	13.0	23.0
Merged-chr1-66861294-3	chr1	66861195	66861395	+	853.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007381, intron 1 of 10)	ORR1D2|LTR|ERVL-MaLR	2014.0	NM_007381	11363.0	Mm.2445	NM_007381	ENSMUSG00000026003	Acadl	AA960361|AU018452|C79855|LCAD	acyl-Coenzyme A dehydrogenase, long-chain	protein-coding	5.5	8.5	7.5	204.5	17.5	6.5	10.0	17.0
Merged-chr3-127763274-4	chr3	127763183	127763383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	17244.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	22.5	32.0	15.0	380.0	126.0	49.5	65.0	54.0
Merged-chr5-120588781-4	chr5	120588696	120588896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145853)	promoter-TSS (NM_145853)	-183.0	NM_145853	252972.0	Mm.114054	NM_145853	ENSMUSG00000032741	Tpcn1	5730403B01Rik|Tpc1|mKIAA1169	two pore channel 1	protein-coding	263.5	432.5	206.5	3146.0	706.0	299.5	321.0	256.0
Merged-chr13-23574376-4	chr13	23574313	23574513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178188)	promoter-TSS (NM_178188)	32.0	NM_178188	319165.0	Mm.390553	NM_178188	ENSMUSG00000071478	Hist1h2ad	-	histone cluster 1, H2ad	protein-coding	143.5	247.0	165.0	2013.5	475.5	167.0	202.0	193.5
Merged-chr1-153803711-4	chr1	153803600	153803800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243223, intron 13 of 20)	intron (NM_001243223, intron 13 of 20)	40441.0	NM_001243223	240816.0	Mm.329340	NM_001243223	ENSMUSG00000042641	Rgsl1	4930415K13Rik|Gm202|Rgsl2	regulator of G-protein signaling like 1	protein-coding	93.0	150.0	110.0	1368.0	259.0	73.0	105.0	99.0
Merged-chr5-67821040-3	chr5	67820928	67821128	+	931.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	26403.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	7.0	10.5	12.5	108.0	17.0	4.0	4.5	16.5
Merged-chr8-105289576-4	chr8	105289481	105289681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166394)	promoter-TSS (NM_001166394)	-53.0	NM_028888	74356.0	Mm.204876	NM_028888	ENSMUSG00000014837	4931428F04Rik	AI426165|Kiaa0895l	RIKEN cDNA 4931428F04 gene	protein-coding	88.0	178.5	110.0	1766.5	281.5	139.5	152.0	139.5
Merged-chr12-100520464-4	chr12	100520346	100520546	+	887.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 1 of 19)	CpG	376.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	7.5	22.0	17.0	266.0	25.0	10.5	10.0	10.0
Merged-chr5-34773584-4	chr5	34773492	34773692	+	814.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010414, intron 1 of 66)	RMER1B|Other|Other	11852.0	NM_010414	15194.0	Mm.209071	NM_010414	ENSMUSG00000029104	Htt	AI256365|C430023I11Rik|Hd|Hdh|IT15	huntingtin	protein-coding	13.0	10.0	5.5	77.5	28.5	11.0	13.5	13.0
Merged-chr16-55801788-4	chr16	55801692	55801892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20346.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	44.5	40.0	50.0	621.5	63.0	26.5	24.0	20.5
Merged-chr4-13127265-3	chr4	13127161	13127361	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	220424.0	NM_001171801	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	42.0	50.0	31.0	873.5	13.0	9.0	8.5	5.5
Merged-chr11-62643101-4	chr11	62642975	62643175	+	793.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198861, intron 1 of 3)	intron (NM_198861, intron 1 of 3)	4974.0	NM_001357955	192976.0	Mm.339972	NM_198861	ENSMUSG00000046417	Lrrc75a	Fam211a	leucine rich repeat containing 75A	protein-coding	20.0	28.5	8.0	87.5	22.5	15.0	10.0	6.0
Merged-chr2-104027767-4	chr2	104027673	104027873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020593)	promoter-TSS (NM_020593)	-26.0	NM_020593	57443.0	Mm.143768	NM_020593	ENSMUSG00000027180	Fbxo3	1200002G09Rik|1700026K02Rik|AI046358|Fba	F-box protein 3	protein-coding	103.0	166.0	83.5	1662.0	272.0	97.0	119.5	112.5
Merged-chr19-32387899-4	chr19	32387755	32387955	+	922.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001362423, exon 1 of 10)	5' UTR (NM_001362423, exon 1 of 10)	194.0	NM_001362423	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	13.5	19.0	22.5	205.0	31.0	10.0	12.0	5.5
Merged-chr4-135876084-4	chr4	135875977	135876177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-2231.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	55.0	40.5	39.5	671.0	155.5	43.5	36.5	45.0
Merged-chr9-108783757-4	chr9	108783661	108783861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12233.0	NM_029634	76500.0	Mm.276336	NM_029634	ENSMUSG00000032599	Ip6k2	1500005N04Rik|AW050208|Ihpk2	inositol hexaphosphate kinase 2	protein-coding	130.0	147.5	105.5	1791.0	255.0	89.0	124.5	99.0
Merged-chr9-25289375-4	chr9	25289277	25289477	+	828.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359738, intron 5 of 12)	intron (NM_001359738, intron 5 of 12)	36485.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	11.5	20.0	11.5	296.5	36.5	10.5	18.5	15.5
Merged-chr1-157077246-4	chr1	157077182	157077382	+	884.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31368.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	21.5	23.0	3.0	104.5	38.0	11.0	4.5	13.5
Merged-chr13-42367802-4	chr13	42367697	42367897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66321.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	69.0	113.5	85.5	1288.5	179.0	61.5	90.0	60.5
Merged-chr17-35126465-4	chr17	35126346	35126546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033477)	promoter-TSS (NM_033477)	44.0	NM_033477	114585.0	Mm.42070	NM_033477	ENSMUSG00000043311	D17H6S53E	G4|NG34	DNA segment, Chr 17, human D6S53E	protein-coding	26.5	50.5	31.5	271.0	77.0	31.0	37.0	35.0
Merged-chr1-155413614-4	chr1	155413520	155413720	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 1 of 14)	intron (NM_011273, intron 1 of 14)	3824.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	22.5	31.5	15.0	379.5	62.0	10.5	16.0	22.0
Merged-chr6-136828853-2	chr6	136828753	136828953	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178776)	promoter-TSS (NM_178776)	10.0	NM_178776	320135.0	Mm.386899	NM_178776	ENSMUSG00000047515	BC049715	-	cDNA sequence BC049715	protein-coding	6.0	7.0	6.0	10.5	6.5	12.5	7.5	11.0
Merged-chr11-114668515-4	chr11	114668399	114668599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023372)	promoter-TSS (NM_023372)	-44.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	48.0	75.0	43.5	542.5	147.0	51.0	43.5	46.5
Merged-chr10-80742399-4	chr10	80742298	80742498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007460)	promoter-TSS (NM_007460)	-123.0	NM_007460	11776.0	Mm.27082	NM_007460	ENSMUSG00000020198	Ap3d1	AA407035|Ap3d|Bolvr|mBLVR1|mh|mocha	adaptor-related protein complex 3, delta 1 subunit	protein-coding	228.0	421.0	205.0	2830.0	547.5	235.5	274.0	219.5
Merged-chr5-18036091-4	chr5	18036007	18036207	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	73537.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	27.0	26.0	35.5	430.5	58.0	24.5	20.0	16.5
Merged-chr16-16554565-4	chr16	16554461	16554661	+	970.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	5658.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	33.0	24.0	32.5	787.0	32.5	18.0	34.5	36.0
Merged-chr11-53567397-4	chr11	53567317	53567517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290805)	promoter-TSS (NM_001290805)	48.0	NM_001290806	16568.0	Mm.88694	NM_008443	ENSMUSG00000018395	Kif3a	Kif3|Kifl|Kns3	kinesin family member 3A	protein-coding	64.5	92.5	88.5	1179.5	129.0	73.0	44.5	53.0
Merged-chr9-107556402-5	chr9	107556225	107556425	+	970.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019713, intron 1 of 4)	intron (NM_019713, intron 1 of 4)	1742.0	NM_019713	56289.0	Mm.12091	NM_019713	ENSMUSG00000010067	Rassf1	123F2|AA536941|AU044980|NORE2A|RDA32|REH3P21|Rassf1A|Rassf1B|Rassf1C	Ras association (RalGDS/AF-6) domain family member 1	protein-coding	5.0	15.0	9.5	115.5	25.0	6.5	12.5	11.0
Merged-chr13-52530750-4	chr13	52530665	52530865	+	914.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024474)	promoter-TSS (NM_001024474)	71.0	NM_001024474	68203.0	Mm.29362	NM_001024474	ENSMUSG00000047842	Diras2	2900052J15Rik|AI414999	DIRAS family, GTP-binding RAS-like 2	protein-coding	20.0	23.0	15.0	187.0	22.5	5.0	11.0	13.0
Merged-chr7-97070329-2	chr7	97070229	97070429	+	659.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11422.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	2.0	7.0	0.5	31.5	16.0	7.0	4.5	9.0
Merged-chr2-98663861-4	chr2	98663743	98663943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	1196186.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	79.5	66.0	123.5	2859.0	83.5	43.0	42.0	85.5
Merged-chr1-37868010-6	chr1	37867924	37868124	+	777.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2726.0	NM_001290720	211484.0	Mm.332756	NM_207228	ENSMUSG00000060771	Tsga10	4933432N21Rik|AI843383|Gm217|Mtsga10	testis specific 10	protein-coding	6.0	6.5	8.0	82.5	13.0	6.5	12.0	4.5
Merged-chr5-32997876-4	chr5	32997744	32997944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20972.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	80.0	103.5	132.5	1423.0	154.0	44.0	79.5	64.5
Merged-chr12-112844068-3	chr12	112843968	112844168	+	831.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-14547.0	NM_001359234	71963.0	Mm.313185	NM_028023	ENSMUSG00000047832	Cdca4	2410018C03Rik|HEPP|SEI-3	cell division cycle associated 4	protein-coding	8.0	13.0	2.5	99.0	25.5	5.0	6.0	9.0
Merged-chr18-77714038-4	chr18	77713923	77714123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178670)	promoter-TSS (NM_178670)	-13.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	107.0	159.5	77.5	1787.0	236.5	63.0	95.5	86.0
Merged-chr2-48717996-4	chr2	48717901	48718101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96108.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	56.0	50.5	51.5	783.5	154.5	42.0	38.0	35.5
Merged-chr16-23233606-4	chr16	23233479	23233679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 1 of 7)	intron (NM_001252505, intron 1 of 7)	7558.0	NM_001252505	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	65.0	55.0	58.0	1133.5	109.0	44.5	63.5	63.5
Merged-chr18-13031860-4	chr18	13031747	13031947	+	888.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24857.0	NM_153087	225192.0	Mm.207073	NM_153087	ENSMUSG00000037346	Hrh4	AXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R	histamine receptor H4	protein-coding	4.0	10.5	22.0	121.5	22.0	9.5	12.0	10.0
Merged-chr1-162000014-4	chr1	161999912	162000112	+	992.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038619, intron 20 of 20)	intron (NM_001038619, intron 20 of 20)	-4957.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	29.5	36.0	18.5	291.5	54.5	21.5	21.5	26.0
Merged-chr4-102792794-8	chr4	102792612	102792812	+	935.9739380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144906, intron 1 of 23)	intron (NM_144906, intron 1 of 23)	32577.0	NM_001285859	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	8.5	3.0	9.0	153.5	24.5	5.5	4.5	12.5
Merged-chr6-71458195-4	chr6	71458106	71458306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-17569.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	25.0	43.0	40.5	465.0	50.5	27.0	28.5	32.5
Merged-chr11-95851050-4	chr11	95850935	95851135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD3|LINE|L1	-7782.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	171.5	272.0	109.5	1916.5	388.5	152.5	139.5	148.5
Merged-chr15-5244214-4	chr15	5244136	5244336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008965)	promoter-TSS (NM_008965)	-49.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	82.0	89.0	65.0	750.5	181.0	67.5	113.0	62.0
Merged-chr1-71798787-4	chr1	71798665	71798865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-89347.0	NR_027659	667931.0	Mm.214128	NR_027658	ENSMUSG00000099707	Gm8883	EG667931|Gm554	predicted gene 8883	ncRNA	23.5	36.5	23.0	217.5	66.5	26.0	36.5	39.5
Merged-chr10-79812420-4	chr10	79812310	79812510	+	843.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023128, intron 6 of 8)	intron (NM_023128, intron 6 of 8)	-8611.0	NM_030218	78906.0	Mm.33087	NM_030218	ENSMUSG00000035852	Misp	9130017N09Rik	mitotic spindle positioning	protein-coding	4.0	12.0	2.0	105.0	36.0	10.5	15.0	6.0
Merged-chr16-30466110-4	chr16	30465988	30466188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-77558.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	14.5	22.5	25.5	329.0	101.5	31.0	30.5	53.0
Merged-chr6-97479442-4	chr6	97479325	97479525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	LTR16A|LTR|ERVL	8395.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	175.0	323.5	230.5	3354.5	488.5	231.0	312.0	228.5
Merged-chr7-45103168-3	chr7	45102905	45103105	+	817.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010189, exon 2 of 7)	exon (NM_010189, exon 2 of 7)	817.0	NM_001357117	14132.0	Mm.3303	NM_010189	ENSMUSG00000003420	Fcgrt	FcRn	Fc receptor, IgG, alpha chain transporter	protein-coding	4.5	5.5	6.0	86.5	6.5	0.5	8.5	4.0
Merged-chr14-47371866-4	chr14	47371777	47371977	+	898.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1983.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	16.5	17.5	9.5	235.0	38.0	21.0	12.5	17.5
Merged-chr5-18013842-1	chr5	18013742	18013942	+	705.0	f0_balb.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	51272.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	5.0	8.0	7.0	105.0	25.0	2.5	6.0	5.5
Merged-chr13-44407581-3	chr13	44407472	44407672	+	961.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie4a|DNA|hAT-Charlie	-32155.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	16.0	14.0	8.5	193.0	11.0	13.5	7.0	12.5
Merged-chr2-71866771-3	chr2	71866664	71866864	+	976.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 3 of 3).2	intron (NR_039557, intron 3 of 3).2	-6460.0	NM_172665	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	1.5	7.0	3.0	93.0	40.5	11.0	15.5	15.0
Merged-chr6-97179160-4	chr6	97179057	97179257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081111)	promoter-TSS (NM_001081111)	-33.0	NM_001081111	232286.0	Mm.30893	NM_001081111	ENSMUSG00000030059	Tmf1	7030402D04Rik|Gm153|Tmf1`	TATA element modulatory factor 1	protein-coding	93.0	163.0	66.5	1587.5	234.0	67.5	130.0	82.0
Merged-chr2-25496632-4	chr2	25496516	25496716	+	864.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-2705.0	NM_029958	77701.0	Mm.99123	NM_029958	ENSMUSG00000026943	Lcn12	9230102M18Rik	lipocalin 12	protein-coding	12.0	10.5	10.0	127.5	33.0	11.5	12.5	26.0
Merged-chr9-47628757-4	chr9	47628655	47628855	+	859.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	98403.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	26.0	24.0	9.5	136.0	33.5	9.5	12.5	8.0
Merged-chr11-29219272-3	chr11	29219183	29219383	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_134034, exon 16 of 16)	3' UTR (NM_134034, exon 16 of 16)	27989.0	NM_025740	216618.0	Mm.128663	NM_025740	ENSMUSG00000020462	Cfap36	2300003H10|4931428D14Rik|Ccdc104	cilia and flagella associated protein 36	protein-coding	50.5	48.0	38.0	577.5	4.0	0.0	1.0	2.5
Merged-chr13-95890337-4	chr13	95890243	95890443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	1579.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	41.5	62.0	39.5	640.5	81.0	52.0	50.0	36.0
Merged-chr12-5277147-4	chr12	5277027	5277227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 2 of 13)	intron (NM_001164493, intron 2 of 13)	98555.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	41.0	48.0	50.0	779.5	120.0	38.0	55.0	47.5
Merged-chr7-43580018-4	chr7	43579913	43580113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357769, intron 1 of 3)	intron (NM_001357769, intron 1 of 3)	427.0	NM_001357769	210105.0	Mm.234422	NM_172482	ENSMUSG00000030469	Zfp719	8030458J18|9430094P17Rik|C630016O21Rik|mszf6	zinc finger protein 719	protein-coding	41.5	171.5	35.5	243.5	218.5	129.0	94.5	41.5
Merged-chr9-108854603-4	chr9	108854518	108854718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134420, exon 1 of 18)	5' UTR (NM_134420, exon 1 of 18)	575.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	38.0	49.0	34.5	377.5	116.5	40.0	32.5	41.0
Merged-chr11-100624026-4	chr11	100623910	100624110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028024, intron 1 of 3)	intron (NM_028024, intron 1 of 3)	1055.0	NM_028024	71966.0	Mm.274734	NM_028024	ENSMUSG00000017837	Nkiras2	2410003M04Rik|4930527H08Rik|D630018G21Rik|KBRAS2	NFKB inhibitor interacting Ras-like protein 2	protein-coding	11.5	29.5	18.5	310.5	80.5	25.0	50.5	70.5
Merged-chr10-81484189-4	chr10	81484114	81484314	+	934.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1505.0	NM_001311124	319586.0	Mm.152689	NM_176954	ENSMUSG00000034818	Celf5	4930565A21Rik|Brunol5	CUGBP, Elav-like family member 5	protein-coding	15.0	19.0	4.5	132.0	44.0	21.0	15.0	18.5
Merged-chr3-15245076-4	chr3	15244958	15245158	+	901.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87244.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	11.0	8.0	14.0	187.0	20.5	5.0	3.0	19.5
Merged-chr6-123123321-4	chr6	123123242	123123442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011999)	promoter-TSS (NM_011999)	26.0	NM_001170333	26888.0	Mm.47384	NM_011999	ENSMUSG00000030148	Clec4a2	Clec4a|Clecsf6|DCIR|Dcir1	C-type lectin domain family 4, member a2	protein-coding	52.0	45.5	84.0	1239.5	112.0	41.0	37.0	48.0
Merged-chr5-136085558-4	chr5	136085461	136085661	+	897.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	1645.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	15.5	11.5	15.0	133.5	28.0	5.0	8.5	15.0
Merged-chr4-63389915-4	chr4	63389827	63390027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 4 of 21)	intron (NM_001045514, intron 4 of 21)	8313.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	132.0	195.0	117.0	2322.0	299.0	73.5	122.0	92.0
Merged-chr17-67213852-4	chr17	67213763	67213963	+	972.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	140596.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	12.0	27.0	14.5	286.0	38.5	16.5	22.5	7.5
Merged-chr2-58111246-4	chr2	58111149	58111349	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	48873.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	9.0	6.0	14.5	175.5	32.0	11.0	13.0	10.0
Merged-chr10-117684892-4	chr10	117684790	117684990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027468, exon 9 of 9)	3' UTR (NM_027468, exon 9 of 9)	25868.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	45.0	48.0	52.5	1005.5	109.5	32.0	23.5	43.0
Merged-chr6-113661220-4	chr6	113661105	113661305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	22738.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	27.0	42.0	34.0	430.0	69.5	16.5	27.0	18.0
Merged-chr11-37136614-4	chr11	37136516	37136716	+	915.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-192375.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	13.5	4.5	3.0	181.0	22.0	12.0	18.0	12.5
Merged-chr19-37209148-4	chr19	37209065	37209265	+	949.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027314, intron 1 of 5)	intron (NM_027314, intron 1 of 5)	1620.0	NM_001164336	69104.0	Mm.175989	NM_027314	ENSMUSG00000023307	March5	1810015H18Rik|2310008I22Rik|2700055A20Rik|5730499H23Rik|E130202O05Rik|MARCH-V|MITOL|Marchv|Rnf153	membrane-associated ring finger (C3HC4) 5	protein-coding	6.0	15.5	19.5	126.5	55.5	15.5	17.5	21.0
Merged-chr2-164403061-3	chr2	164403012	164403212	+	874.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009036)	promoter-TSS (NM_009036)	-82.0	NM_009036	19668.0	Mm.473794	NM_009036	ENSMUSG00000017007	Rbpjl	RBP-L|Rbpsuhl	recombination signal binding protein for immunoglobulin kappa J region-like	protein-coding	7.0	13.5	9.5	79.0	13.5	2.5	10.0	13.0
Merged-chr1-58711691-5	chr1	58711604	58711804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289704, intron 1 of 9)	CpG	213.0	NR_149256	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	22.0	50.5	34.5	232.0	66.0	19.5	13.0	37.5
Merged-chr12-55466470-4	chr12	55466373	55466573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26174.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	60.5	89.0	50.0	725.5	117.5	45.0	30.5	41.0
Merged-chr9-40229037-4	chr9	40228934	40229134	+	838.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36718.0	NM_030713	80902.0	Mm.132196	NM_030713	ENSMUSG00000025602	Zfp202	C130037E22Rik|Znf202	zinc finger protein 202	protein-coding	10.0	13.5	12.0	185.0	38.5	13.5	14.5	17.0
Merged-chr1-181842028-1	chr1	181841928	181842128	+	1000.0	f0_balb.idr	intron (NM_133815, intron 1 of 13)	CpG	373.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	49.0	78.5	73.5	756.0	117.0	43.0	67.5	48.0
Merged-chr4-115731795-4	chr4	115731706	115731906	+	939.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6267.0	NM_172698	230648.0	Mm.283565	NM_172698	ENSMUSG00000034210	Efcab14	4732418C07Rik	EF-hand calcium binding domain 14	protein-coding	13.5	26.0	23.5	184.5	73.5	27.0	9.5	19.5
Merged-chr9-57485936-2	chr9	57485836	57486036	+	985.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17876.0	NM_001301635	56807.0	Mm.102278	NM_020270	ENSMUSG00000040722	Scamp5	Sc5	secretory carrier membrane protein 5	protein-coding	6.0	7.0	11.0	24.5	16.0	4.0	9.5	17.5
Merged-chr5-96922845-4	chr5	96922693	96922893	+	804.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131152, intron 2 of 2)	GA-rich|Low_complexity|Low_complexity	1521.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	21.0	9.5	16.0	258.0	18.5	13.5	8.5	8.0
Merged-chr1-178342249-4	chr1	178342156	178342356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4441.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	49.5	72.0	36.5	767.0	131.5	39.0	50.0	40.0
Merged-chr2-37359253-4	chr2	37359166	37359366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026176)	promoter-TSS (NM_026176)	66.0	NM_026176	67466.0	Mm.30709	NM_026176	ENSMUSG00000009030	Pdcl	1200011E13Rik|AW108059|PhLP1	phosducin-like	protein-coding	71.5	131.5	59.5	1183.5	261.5	107.0	114.5	71.5
Merged-chr6-134897505-3	chr6	134897434	134897634	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029441)	promoter-TSS (NR_029441)	291.0	NM_001167695	14760.0	Mm.4787	NM_008157	ENSMUSG00000032641	Gpr19	-	G protein-coupled receptor 19	protein-coding	12.0	10.0	19.5	170.0	31.0	8.5	17.0	10.0
Merged-chr9-37230072-4	chr9	37229942	37230142	+	908.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_020258, exon 18 of 18)	3' UTR (NM_020258, exon 18 of 18)	21726.0	NM_001310096	66279.0	Mm.41451	NM_025464	ENSMUSG00000032121	Tmem218	1810021J13Rik|AV004931	transmembrane protein 218	protein-coding	11.5	18.5	19.0	349.5	38.5	8.0	7.5	16.0
Merged-chr4-147941014-6	chr4	147941000	147941200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029841, exon 1 of 3)	exon (NM_029841, exon 1 of 3)	205.0	NM_029841	77034.0	Mm.183076	NM_029841	ENSMUSG00000044496	2510039O18Rik	Kiaa2013	RIKEN cDNA 2510039O18 gene	protein-coding	24.0	25.5	37.5	221.0	59.5	13.5	11.5	14.0
Merged-chr10-22731864-2	chr10	22731764	22731964	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011603)	promoter-TSS (NM_011603)	-417.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	21.5	42.5	39.5	511.5	73.0	38.5	39.0	59.5
Merged-chr1-149947833-4	chr1	149947739	149947939	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	13451.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	23.5	35.5	28.0	561.5	32.5	21.5	25.5	20.5
Merged-chr4-146480753-2	chr4	146480653	146480853	+	880.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21247.0	NM_001243138	100041433.0	Mm.441741	NM_001243138	ENSMUSG00000056300	Zfp981	Gm13247	zinc finger protein 981	protein-coding	7.5	7.5	5.5	10.0	13.5	5.0	1.0	13.5
Merged-chr9-44881438-4	chr9	44881333	44881533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357549)	promoter-TSS (NM_001357549)	-159.0	NM_001081049	214162.0	Mm.2389	NM_001081049	ENSMUSG00000002028	Kmt2a	6430520K01|ALL-1|All1|Cxxc7|HRX|HTRX1|Mll|Mll1|mKIAA4050	lysine (K)-specific methyltransferase 2A	protein-coding	90.0	176.5	119.5	1251.5	295.0	113.5	87.5	83.0
Merged-chr13-119309440-4	chr13	119309360	119309560	+	738.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	99551.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	5.0	14.5	8.5	182.0	21.5	11.5	14.0	9.5
Merged-chr7-67242654-3	chr7	67242507	67242707	+	916.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291195, intron 8 of 10)	L1_Mus1|LINE|L1	19991.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	3.5	22.0	5.0	15.5	17.0	7.5	5.5	14.5
Merged-chr13-13538774-4	chr13	13538702	13538902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51607.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	27.0	24.5	21.5	523.5	55.5	25.5	18.0	42.5
Merged-chr4-134396251-4	chr4	134396151	134396351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285875)	promoter-TSS (NM_001285875)	-69.0	NM_133880	100163.0	Mm.22116	NM_133880	ENSMUSG00000037366	Pafah2	2310074E22Rik|AI507170	platelet-activating factor acetylhydrolase 2	protein-coding	160.0	279.0	123.0	1998.0	355.5	146.5	178.0	131.0
Merged-chr5-34271923-2	chr5	34271823	34272023	+	661.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 1 of 12)	B3|SINE|B2	16401.0	NM_001015039	231125.0	Mm.113388	NM_001015039	ENSMUSG00000037224	Zfyve28	9630058O20Rik|Gm146|mKIAA1643	zinc finger, FYVE domain containing 28	protein-coding	4.5	8.5	4.5	47.0	8.0	7.5	1.5	10.0
Merged-chr4-48278780-3	chr4	48278696	48278896	+	700.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010569)	promoter-TSS (NM_010569)	793.0	NM_029572	76299.0	Mm.317701	NM_029572	ENSMUSG00000028343	Erp44	1110001E24Rik|AI849526|AL033348|Txndc4	endoplasmic reticulum protein 44	protein-coding	9.0	3.0	8.0	88.5	7.5	6.0	6.5	6.0
Merged-chr11-5522146-4	chr11	5522007	5522207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013842, intron 2 of 4)	intron (NM_013842, intron 2 of 4)	1466.0	NM_001271730	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	21.0	56.5	21.0	356.5	66.5	23.0	27.5	22.5
Merged-chr11-98849406-3	chr11	98849304	98849504	+	787.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001080925, exon 10 of 15)	exon (NM_001080925, exon 10 of 15)	12619.0	NM_001080925	268480.0	Mm.340766	NM_001080925	ENSMUSG00000038020	Rapgefl1	B230105J10	Rap guanine nucleotide exchange factor (GEF)-like 1	protein-coding	5.0	6.5	9.5	94.5	9.0	2.0	6.0	12.0
Merged-chr4-19856282-1	chr4	19856182	19856382	+	825.5	f0_balb.idr	Intergenic	Intergenic	37555.0	NM_028746	74087.0	Mm.173833	NM_028746	ENSMUSG00000041052	Slc7a13	0610009O04Rik|AGT-1|AGT1|XAT2	solute carrier family 7, (cationic amino acid transporter, y+ system) member 13	protein-coding	11.5	12.5	14.5	152.0	14.5	0.5	6.0	6.5
Merged-chr4-145231929-4	chr4	145231821	145232021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	14949.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	71.5	69.5	80.0	1366.5	92.5	39.5	81.5	50.0
Merged-chr7-119879381-4	chr7	119879275	119879475	+	952.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163703, intron 1 of 2)	intron (NM_001163703, intron 1 of 2)	16083.0	NM_173408	233805.0	Mm.31539	NM_173408	ENSMUSG00000048787	Dcun1d3	1700020A13Rik|BC030335	DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)	protein-coding	12.0	39.5	30.0	217.0	59.5	25.5	26.5	12.0
Merged-chr4-127022309-4	chr4	127022185	127022385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023603, intron 1 of 9)	CpG	984.0	NM_023603	71514.0	Mm.257276	NM_023603	ENSMUSG00000028820	Sfpq	1110004P21Rik|2810416M14Rik|5730453G22Rik|9030402K04Rik|AU021830|D4Ertd314e|Gm12940|PSF|REP1	splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)	protein-coding	69.5	146.0	96.5	1232.0	238.0	118.0	120.0	98.0
Merged-chr18-33431562-3	chr18	33431469	33431669	+	860.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	32065.0	NM_001267717	27528.0	Mm.407415	NM_053078	ENSMUSG00000042834	Nrep	AI325076|D0H4S114|Harp|P311|PTZ17|SEZ17	neuronal regeneration related protein	protein-coding	8.5	18.0	23.5	269.0	7.0	0.5	7.5	1.5
Merged-chr15-66098455-3	chr15	66098349	66098549	+	814.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	L1M4|LINE|L1	-121645.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	9.0	8.0	9.0	179.5	12.0	8.5	9.0	8.0
Merged-chr18-36230824-4	chr18	36230726	36230926	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33666.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	29.0	33.0	34.0	525.0	63.0	19.0	16.5	26.0
Merged-chr11-75461465-4	chr11	75461386	75461586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030711)	promoter-TSS (NR_030711)	-53.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	328.0	573.0	381.0	3846.0	913.5	444.5	412.0	319.0
Merged-chr2-45239034-4	chr2	45238912	45239112	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121570.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	27.5	35.0	31.0	185.5	51.5	20.5	14.5	13.0
Merged-chr13-93771709-4	chr13	93771535	93771735	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009712)	promoter-TSS (NM_009712)	-44.0	NM_009712	11881.0	Mm.300178	NM_009712	ENSMUSG00000042082	Arsb	1110007C02Rik|AI480648|As-1|As-1r|As-1s|As-1t|As1|As1-r|As1-s|As1-t|Asr-1|Ast-1	arylsulfatase B	protein-coding	8.0	37.0	33.0	394.5	31.0	12.0	16.5	15.0
Merged-chr18-53904445-4	chr18	53904335	53904535	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 3 of 12)	Lx8|LINE|L1	42322.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	27.0	24.5	15.5	365.5	95.0	17.5	36.0	39.0
Merged-chr1-120075645-4	chr1	120075540	120075740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1860.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	192.0	265.5	143.5	3015.0	490.5	155.5	182.5	177.5
Merged-chr5-123620962-4	chr5	123620862	123621062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 12 of 18)	MTA_Mm|LTR|ERVL-MaLR	-47947.0	NM_029929	77573.0	Mm.41372	NM_029929	ENSMUSG00000029434	Vps33a	3830421M04Rik|AI503300|AW048546|AW554476|bf	VPS33A CORVET/HOPS core subunit	protein-coding	20.5	50.0	29.5	218.5	46.5	30.5	26.5	27.0
Merged-chr12-17522733-2	chr12	17522618	17522818	+	802.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22155.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	0.0	0.0	0.0	0.0	48.0	18.0	17.5	7.5
Merged-chr4-85591246-4	chr4	85591147	85591347	+	978.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	385791.0	NM_019535	20404.0	Mm.143603	NM_019535	ENSMUSG00000028488	Sh3gl2	9530001L19Rik|AI120490|AW555077|B930049H17Rik|EEN-B1|SH3PA|Sh3d2a	SH3-domain GRB2-like 2	protein-coding	15.0	23.0	8.5	300.0	88.0	32.0	43.0	29.5
Merged-chr14-65112975-4	chr14	65112901	65113101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-14895.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	20.5	38.5	33.5	256.0	29.0	24.5	12.5	17.5
Merged-chr7-118712503-4	chr7	118712414	118712614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360794)	promoter-TSS (NM_001360794)	-29.0	NM_001360794	101565.0	Mm.23279	NM_182995	ENSMUSG00000033904	Ccp110	6330503K22Rik|AA415922|AI427129|AW557948|CP110|cep110	centriolar coiled coil protein 110	protein-coding	130.5	194.5	122.0	2056.0	407.0	149.5	174.0	140.0
Merged-chr14-103343997-4	chr14	103343899	103344099	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 1 of 84)	intron (NM_207215, intron 1 of 84)	2801.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	22.5	35.0	13.5	257.0	61.0	32.0	15.0	33.5
Merged-chr11-73019529-4	chr11	73019430	73019630	+	941.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152202)	promoter-TSS (NR_152202)	522.0	NM_018883	55984.0	Mm.9998	NM_018883	ENSMUSG00000020785	Camkk1	AI846603|CaMKKalpha|Camkk	calcium/calmodulin-dependent protein kinase kinase 1, alpha	protein-coding	29.0	17.0	28.5	393.0	31.5	6.0	10.5	13.0
Merged-chr8-41044076-4	chr8	41043971	41044171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	L1MB1|LINE|L1	-2140.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	57.0	67.5	104.5	850.5	96.5	58.0	45.0	43.0
Merged-chr2-34771256-3	chr2	34771215	34771415	+	998.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022310)	promoter-TSS (NM_022310)	-775.0	NM_001163434	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	16.0	36.5	17.5	134.5	47.0	16.5	11.0	19.0
Merged-chr10-51529046-4	chr10	51528958	51529158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS4-int|LTR|ERV1	38160.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	43.5	40.5	73.0	842.0	136.0	49.5	43.0	75.0
Merged-chr12-52120467-4	chr12	52120367	52120567	+	967.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 3 of 10)	intron (NM_029760, intron 3 of 10)	22721.0	NM_029760	76826.0	Mm.244781	NM_029760	ENSMUSG00000035142	Nubpl	2410170E07Rik	nucleotide binding protein-like	protein-coding	10.0	19.5	17.5	343.0	43.0	18.5	28.0	32.5
Merged-chr17-45807648-4	chr17	45807535	45807735	+	911.412476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73129.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	5.5	25.0	35.5	325.5	30.0	8.0	10.5	20.0
Merged-chr15-73629602-5	chr15	73629483	73629683	+	835.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4839.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	8.0	6.5	16.5	109.0	18.5	2.5	6.5	4.0
Merged-chr2-129414327-3	chr2	129414223	129414423	+	955.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43184.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	9.5	16.0	13.0	248.0	9.0	6.0	4.0	13.5
Merged-chr1-133087782-3	chr1	133087694	133087894	+	831.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099276, intron 15 of 32)	intron (NM_001099276, intron 15 of 32)	41782.0	NM_001099276	240752.0	Mm.387308	NM_001099276	ENSMUSG00000026447	Pik3c2b	C330011J12Rik|Gm199|PI3K-C2beta|PI3KC2beta	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta	protein-coding	7.0	7.0	7.0	17.5	18.5	10.5	7.5	10.0
Merged-chr6-83054583-4	chr6	83054487	83054687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007517)	promoter-TSS (NM_007517)	-16.0	NM_019752	64704.0	Mm.21880	NM_019752	ENSMUSG00000068329	Htra2	AI481710|Omi|Prss25|mnd2	HtrA serine peptidase 2	protein-coding	270.5	383.0	229.5	3768.5	594.0	198.0	253.5	206.0
Merged-chr7-79848210-4	chr7	79848111	79848311	+	881.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008486)	promoter-TSS (NM_008486)	-1.0	NM_008486	16790.0	Mm.4487	NM_008486	ENSMUSG00000039062	Anpep	AP-M|AP-N|Apn|Cd13|P150	alanyl (membrane) aminopeptidase	protein-coding	12.0	12.5	9.5	153.0	31.5	8.0	11.5	16.5
Merged-chr5-109596848-4	chr5	109596735	109596935	+	771.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37842.0	NM_001310694	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	1.0	7.0	12.5	112.5	42.5	18.0	5.0	17.5
Merged-chr2-59246304-3	chr2	59246191	59246391	+	930.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	URR1B|DNA|hAT-Charlie	85441.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	7.5	12.5	13.5	156.5	10.0	0.5	9.0	7.0
Merged-chr2-157428598-4	chr2	157428504	157428704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 1 of 13)	intron (NM_001025395, intron 1 of 13)	4311.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	104.0	216.5	116.0	950.5	210.0	100.5	57.0	38.0
Merged-chr12-69462136-4	chr12	69462047	69462247	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13403.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	17.5	14.0	18.5	211.0	15.5	13.5	16.0	7.5
Merged-chr4-123050943-4	chr4	123050857	123051057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151450, intron 8 of 9)	intron (NR_151450, intron 8 of 9)	34364.0	NR_151450	66966.0	Mm.235030	NM_025873	ENSMUSG00000028653	Trit1	2310075G14Rik|AI314189|AI314635|AV099619|IPPT|IPT|MOD5	tRNA isopentenyltransferase 1	protein-coding	28.0	40.0	23.0	302.5	75.5	24.0	32.0	37.0
Merged-chr7-141549652-4	chr7	141549558	141549758	+	877.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9801.0	NM_001142681	68038.0	Mm.245355	NM_026522	ENSMUSG00000025512	Chid1	3110023E09Rik|AI841869	chitinase domain containing 1	protein-coding	17.0	31.0	21.0	286.0	23.5	16.0	21.0	18.0
Merged-chr16-58480449-3	chr16	58480265	58480465	+	791.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	intron (NM_001357433, intron 6 of 10)	43061.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	5.0	5.0	5.0	64.0	16.5	3.5	1.5	5.5
Merged-chr4-141506563-4	chr4	141506459	141506659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	32038.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	103.0	148.5	81.5	1130.0	164.5	84.5	95.5	75.5
Merged-chr1-91498808-4	chr1	91498705	91498905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028718, intron 2 of 14)	PB1D10|SINE|Alu	4137.0	NM_028718	74019.0	Mm.318430	NM_028718	ENSMUSG00000034292	Traf3ip1	3930402D05Rik|AU041749|MIP-T3	TRAF3 interacting protein 1	protein-coding	30.0	36.0	25.0	568.0	75.5	11.5	36.5	24.0
Merged-chr1-138912464-3	chr1	138912357	138912557	+	929.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35507.0	NR_138576	75546.0	Mm.71176	NR_138576	ENSMUSG00000099808	1700019P21Rik	-	RIKEN cDNA 1700019P21 gene	ncRNA	7.5	21.0	10.5	263.0	19.5	5.5	16.0	8.0
Merged-chr17-26467790-3	chr17	26467685	26467885	+	901.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40687.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	9.0	17.5	11.5	110.0	13.5	5.5	2.0	2.0
Merged-chr6-108568063-4	chr6	108567963	108568163	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55104.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	40.0	46.0	75.0	1030.5	92.5	17.0	40.0	45.0
Merged-chr11-41632653-1	chr11	41632553	41632753	+	543.0	f1_balb.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	368061.0	NM_177408	14406.0	Mm.5309	NM_008073	ENSMUSG00000020436	Gabrg2	GABAA-R|Gabrg-2|gamma2	gamma-aminobutyric acid (GABA) A receptor, subunit gamma 2	protein-coding	5.0	0.0	9.5	74.0	13.5	5.0	7.0	17.0
Merged-chr8-75089736-4	chr8	75089637	75089837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3881.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	99.0	143.5	91.0	1375.0	230.5	96.0	103.0	79.5
Merged-chr5-144003015-4	chr5	144002922	144003122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177682, intron 7 of 14)	intron (NM_177682, intron 7 of 14)	11831.0	NM_177682	231874.0	Mm.320432	NM_177682	ENSMUSG00000029617	Ccz1	AU022870	CCZ1 vacuolar protein trafficking and biogenesis associated	protein-coding	46.5	61.0	37.0	766.5	123.5	34.0	45.5	53.0
Merged-chr19-32485907-4	chr19	32485802	32486002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010799, exon 1 of 5)	5' UTR (NM_010799, exon 1 of 5)	133.0	NM_010799	17330.0	Mm.255116	NM_010799	ENSMUSG00000024896	Minpp1	AA408516	multiple inositol polyphosphate histidine phosphatase 1	protein-coding	76.5	83.5	48.0	808.0	129.0	56.0	44.5	45.5
Merged-chr7-4067295-4	chr7	4067192	4067392	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4088.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	26.5	41.5	17.5	281.5	63.5	24.0	14.0	14.0
Merged-chr19-16009419-3	chr19	16009315	16009515	+	756.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045355, intron 2 of 2)	MTD|LTR|ERVL-MaLR	24340.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	5.5	7.5	10.0	111.0	16.5	6.5	5.5	7.5
Merged-chr10-127742089-3	chr10	127742004	127742204	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198035, exon 2 of 2)	exon (NM_198035, exon 2 of 2)	2566.0	NM_198035	320080.0	Mm.27258	NM_198035	ENSMUSG00000044617	Zbtb39	7030401O21Rik|mKIAA0352	zinc finger and BTB domain containing 39	protein-coding	24.0	13.0	11.5	215.5	19.5	2.0	2.5	8.0
Merged-chr19-16033491-2	chr19	16033389	16033589	+	846.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	48414.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	6.5	12.5	6.5	53.0	17.5	1.5	11.5	6.5
Merged-chr1-13332786-4	chr1	13332688	13332888	+	928.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	L1M4|LINE|L1	39641.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	20.5	15.0	8.0	366.5	38.5	10.5	19.0	10.5
Merged-chr12-101718691-3	chr12	101718581	101718781	+	874.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082976)	promoter-TSS (NM_001082976)	-158.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	6.0	2.0	1.5	51.0	40.0	12.0	13.5	22.0
Merged-chr15-59809495-4	chr15	59809374	59809574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14515.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	67.0	129.0	104.5	1076.5	228.5	62.0	78.0	75.0
Merged-chr10-127595488-3	chr10	127595394	127595594	+	809.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	25654.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	6.0	6.0	9.0	97.0	14.0	6.5	6.5	8.0
Merged-chr2-24383826-4	chr2	24383787	24383987	+	909.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355231, intron 2 of 17)	intron (NM_001355231, intron 2 of 17)	-1445.0	NM_177611	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	11.0	10.0	10.0	132.0	29.0	6.5	15.0	7.5
Merged-chr14-122876363-4	chr14	122876257	122876457	+	760.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 22 of 24)	intron (NR_153443, intron 22 of 24)	-36673.0	NR_155287	105245866.0	Mm.390754	NM_001039531	ENSMUSG00000075463	Gm15735	4930594M22Rik|F930011C10Rik	predicted gene 15735	ncRNA	7.5	9.5	12.0	180.0	38.5	3.0	14.0	11.5
Merged-chr8-68208046-4	chr8	68207937	68208137	+	708.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-68491.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	14.0	7.0	6.0	151.5	24.0	10.0	18.0	7.0
Merged-chr8-71469108-4	chr8	71469027	71469227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001294259)	promoter-TSS (NM_001294259)	-67.0	NM_001294259	66498.0	Mm.260360	NM_025600	ENSMUSG00000074247	Dda1	1500034J01Rik|1700095J19Rik|R74921	DET1 and DDB1 associated 1	protein-coding	219.5	429.0	231.0	3450.0	552.5	225.0	253.0	210.0
Merged-chr2-147083675-4	chr2	147083596	147083796	+	774.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023504)	TTS (NM_023504)	1649.0	NM_023504	228731.0	Mm.315498	NM_023504	ENSMUSG00000054160	Nkx2-4	1700001P03Rik|Nkx-2.4|tinman	NK2 homeobox 4	protein-coding	5.5	17.5	12.0	13.0	18.5	9.5	4.5	9.5
Merged-chr14-70914538-3	chr14	70914468	70914668	+	907.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 2 of 7)	intron (NM_001302094, intron 2 of 7)	24461.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	12.0	17.5	6.5	131.5	13.5	4.0	2.5	0.5
Merged-chr18-25331242-4	chr18	25331142	25331342	+	869.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033532, intron 6 of 10)	Lx2|LINE|L1	162222.0	NM_001033532	225289.0	Mm.391081	NM_001033532	ENSMUSG00000033632	AW554918	4921538P22|AI461742|Kiaa1328|mKIAA1328	expressed sequence AW554918	protein-coding	11.0	17.5	7.5	132.5	36.5	12.5	9.0	11.5
Merged-chr11-119079269-4	chr11	119079170	119079370	+	778.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007625, exon 5 of 5)	3' UTR (NM_007625, exon 5 of 5)	6967.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	13.0	28.0	9.0	78.0	14.5	7.0	7.0	10.5
Merged-chr5-124443288-4	chr5	124443194	124443394	+	924.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310725, intron 1 of 6)	intron (NM_001310725, intron 1 of 6)	-2205.0	NM_001310723	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	3.0	1.0	18.0	110.0	27.0	10.5	10.5	12.5
Merged-chr7-129528503-4	chr7	129528414	129528614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63349.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	64.0	93.5	90.5	1246.5	174.0	40.5	59.5	71.5
Merged-chr1-191023334-4	chr1	191023241	191023441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081259, intron 1 of 9)	L2b|LINE|L2	-2010.0	NR_027298	100125339.0	Mm.472263	NR_027298	ENSMUSG00000097845	A230020J21Rik	-	RIKEN cDNA A230020J21 gene	ncRNA	26.0	51.5	24.0	582.5	88.5	18.0	28.0	26.5
Merged-chr10-44011595-4	chr10	44011488	44011688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6742.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	48.5	50.0	39.0	664.5	73.5	32.0	36.5	29.0
Merged-chr6-134090516-4	chr6	134090424	134090624	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	54824.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	19.5	15.5	12.5	416.0	64.5	14.5	40.5	17.5
Merged-chr17-73009044-4	chr17	73008961	73009161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90756.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	40.5	48.0	34.5	565.0	61.5	33.0	40.0	24.5
Merged-chr14-46886126-4	chr14	46886013	46886213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	3148.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	34.0	33.0	33.0	494.5	41.0	18.5	29.0	23.5
Merged-chr10-8759384-4	chr10	8759286	8759486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	126684.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	133.0	157.5	160.5	2450.5	275.0	82.0	156.5	109.0
Merged-chr6-124496169-4	chr6	124496057	124496257	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181344, intron 2 of 5)	HAL1|LINE|L1	3044.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	40.5	56.0	32.0	546.0	64.5	26.0	23.0	21.5
Merged-chr15-80219406-4	chr15	80219287	80219487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14693.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	42.0	84.5	27.0	441.0	153.0	59.0	58.0	38.0
Merged-chr3-51342686-4	chr3	51342554	51342754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2010.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	38.0	48.5	27.0	292.0	60.5	21.0	30.5	24.0
Merged-chr14-26531981-4	chr14	26531874	26532074	+	870.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 1 of 22)	intron (NM_001310445, intron 1 of 22)	2650.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	13.5	18.0	14.5	388.5	60.0	10.0	9.5	16.0
Merged-chr6-31457159-4	chr6	31457053	31457253	+	917.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 8 of 17)	MTEb-int|LTR|ERVL-MaLR	58325.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	12.5	19.0	33.5	308.0	29.5	16.0	11.5	5.0
Merged-chr14-44989961-4	chr14	44989840	44990040	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008964, intron 1 of 1)	intron (NM_008964, intron 1 of 1)	1829.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	12.0	18.5	9.5	144.5	25.0	7.5	1.0	12.0
Merged-chr7-99183964-4	chr7	99183888	99184088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1275.0	NM_026384	67800.0	Mm.180189	NM_026384	ENSMUSG00000030747	Dgat2	0610010B06Rik|ARAT|DGAT-2	diacylglycerol O-acyltransferase 2	protein-coding	77.0	116.5	93.0	1612.0	157.5	67.0	64.5	65.0
Merged-chr8-22125023-4	chr8	22124947	22125147	+	850.9249880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347318)	promoter-TSS (NM_001347318)	20.0	NM_177898	330721.0	Mm.113940	NM_177898	ENSMUSG00000037738	Nek5	6530411J22|BB049667	NIMA (never in mitosis gene a)-related expressed kinase 5	protein-coding	15.5	16.5	38.5	211.5	20.5	7.0	11.0	7.0
Merged-chr10-98878464-4	chr10	98878353	98878553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-36189.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	47.5	71.0	41.0	562.5	132.5	42.5	26.0	36.5
Merged-chr3-94902940-4	chr3	94902843	94903043	+	845.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15985.0	NM_008945	19172.0	Mm.368	NM_008945	ENSMUSG00000005779	Psmb4	Pros-27	proteasome (prosome, macropain) subunit, beta type 4	protein-coding	9.5	23.0	14.0	194.5	27.0	7.0	12.5	10.5
Merged-chr5-28123265-4	chr5	28123158	28123358	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42438.0	NM_010134	13799.0	Mm.4298	NM_010134	ENSMUSG00000039095	En2	BB131122|En-2	engrailed 2	protein-coding	39.0	43.5	21.5	514.0	42.0	22.5	30.5	20.0
Merged-chr5-102497435-4	chr5	102497337	102497537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146161, intron 1 of 8)	intron (NM_146161, intron 1 of 8)	16046.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	47.0	35.0	45.5	1014.5	86.0	22.0	35.5	37.0
Merged-chr1-171287977-4	chr1	171287888	171288088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013919)	promoter-TSS (NM_013919)	-27.0	NM_013919	30941.0	Mm.27510	NM_013919	ENSMUSG00000053483	Usp21	ESTM28|Usp16|Usp23|W53272	ubiquitin specific peptidase 21	protein-coding	74.0	87.0	31.5	819.5	154.5	40.0	71.0	81.5
Merged-chr17-4997424-2	chr17	4997324	4997524	+	929.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 1 of 19)	intron (NM_001085355, intron 1 of 19)	2350.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	6.0	7.0	8.5	64.0	17.0	8.5	3.0	0.5
Merged-chr17-28177879-2	chr17	28177779	28177979	+	858.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357995, intron 1 of 13)	intron (NM_001357995, intron 1 of 13)	461.0	NM_172617	224656.0	Mm.267359	NM_172617	ENSMUSG00000024220	Zfp523	2810027J07|BC025615|Znf76	zinc finger protein 523	protein-coding	7.5	9.5	6.5	45.0	9.5	3.5	4.0	17.5
Merged-chr4-56121844-4	chr4	56121696	56121896	+	947.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-589321.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	15.5	29.5	21.5	229.0	21.5	8.0	10.0	4.5
Merged-chr4-54794065-1	chr4	54793965	54794165	+	628.0	f0_balb.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-153880.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	6.0	7.0	7.5	95.5	0.5	0.0	0.5	2.0
Merged-chr4-127242940-4	chr4	127242835	127243035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030252)	promoter-TSS (NM_030252)	-849.0	NM_030252	80284.0	Mm.139607	NM_030252	ENSMUSG00000042380	Smim12	BC003266	small integral membrane protein 12	protein-coding	19.0	37.5	24.5	347.5	72.0	23.5	26.0	20.5
Merged-chr1-121567985-4	chr1	121567872	121568072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025860)	promoter-TSS (NM_025860)	8.0	NM_025860	66942.0	Mm.44219	NM_025860	ENSMUSG00000001674	Ddx18	2310005B10Rik	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	protein-coding	105.5	116.5	61.5	1274.5	143.5	85.0	94.0	88.0
Merged-chr8-14892831-4	chr8	14892720	14892920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	4284.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	64.0	101.0	73.0	1161.5	168.5	58.5	53.5	63.5
Merged-chr6-72835336-1	chr6	72835236	72835436	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-46291.0	NM_009332	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	18.5	25.0	6.5	48.5	5.5	3.0	0.0	2.0
Merged-chr11-22512650-4	chr11	22512493	22512693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153596, intron 1 of 3)	CpG	310.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	62.0	106.0	83.5	949.0	147.0	44.5	67.5	67.5
Merged-chr5-122653498-3	chr5	122653397	122653597	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038845, intron 2 of 12)	intron (NM_001038845, intron 2 of 12)	3073.0	NM_001284402	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	54.5	46.5	52.0	726.0	8.0	1.5	8.5	16.5
Merged-chr14-120288650-1	chr14	120288550	120288750	+	642.0	f0_balb.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	12981.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	6.5	18.0	4.5	73.5	4.0	2.5	1.0	4.0
Merged-chr10-58418508-2	chr10	58418408	58418608	+	586.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359116, intron 9 of 9)	intron (NM_001359116, intron 9 of 9)	24135.0	NM_001346676	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	6.0	3.5	6.0	123.0	9.0	4.5	6.0	13.5
Merged-chr4-130801449-4	chr4	130801351	130801551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	8914.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	89.5	102.0	122.0	1314.0	227.0	63.5	110.0	87.0
Merged-chr3-107062873-3	chr3	107062788	107062988	+	984.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23384.0	NR_033498	229694.0	Mm.347584	NM_173787	ENSMUSG00000056145	AI504432	A230102G19	expressed sequence AI504432	ncRNA	21.0	17.0	14.0	125.5	23.0	15.5	7.5	11.0
Merged-chr6-30303316-3	chr6	30303194	30303394	+	932.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009459, intron 1 of 6)	intron (NM_009459, intron 1 of 6)	1245.0	NM_009459	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	5.0	12.0	8.0	115.0	15.5	3.0	5.0	11.5
Merged-chr9-7825055-4	chr9	7824940	7825140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007465, intron 4 of 7)	intron (NM_007465, intron 4 of 7)	11766.0	NM_001291503	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	35.5	71.0	47.5	599.5	148.0	58.5	77.0	66.5
Merged-chr8-124722077-4	chr8	124721989	124722189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026855)	promoter-TSS (NM_026855)	-50.0	NM_026855	68865.0	Mm.22779	NM_026855	ENSMUSG00000031982	Arv1	1110067L22Rik|AI461928|AW121084	ARV1 homolog, fatty acid homeostasis modulator	protein-coding	212.5	267.5	159.5	2655.5	559.0	230.5	307.5	175.0
Merged-chr3-16079412-1	chr3	16079312	16079512	+	555.0	f1_balb.idr	Intergenic	Intergenic	-73080.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	6.0	5.0	7.0	54.0	5.0	0.5	1.0	4.0
Merged-chr8-75094451-2	chr8	75094351	75094551	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010442, intron 1 of 4)	B1_Mus2|SINE|Alu	833.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	21.0	35.5	15.5	226.5	60.0	29.0	23.0	19.0
Merged-chr3-136668945-3	chr3	136668870	136669070	+	743.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1096.0	NM_008913	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	8.0	8.0	10.0	197.5	21.0	12.5	10.0	9.5
Merged-chr6-108759565-4	chr6	108759466	108759666	+	939.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23493.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	13.0	27.5	8.5	357.5	51.0	15.0	37.0	13.0
Merged-chr7-64011951-4	chr7	64011835	64012035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73020.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	112.0	154.0	116.5	1988.0	209.0	87.0	81.0	110.5
Merged-chr7-116457911-4	chr7	116457831	116458031	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14473.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	35.5	38.0	24.0	572.5	73.5	20.5	23.0	27.5
Merged-chr6-17066109-3	chr6	17065997	17066197	+	839.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207176, intron 1 of 6)	intron (NM_207176, intron 1 of 6)	948.0	NM_207176	21753.0	Mm.436548	NM_011570	ENSMUSG00000029552	Tes	D6Ertd352e|TESS|Tes1|Tes2|testin2	testis derived transcript	protein-coding	14.0	19.5	4.0	143.0	23.0	6.0	5.5	4.5
Merged-chr16-85138741-3	chr16	85138638	85138838	+	913.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	34969.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	14.0	22.5	30.0	293.5	5.0	3.0	3.5	5.0
Merged-chr8-104110937-4	chr8	104110837	104111037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 1 of 11)	intron (NM_009868, intron 1 of 11)	-5064.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	141.5	220.5	212.0	2835.5	381.0	122.0	156.5	157.0
Merged-chr9-119445969-4	chr9	119445878	119446078	+	823.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153321, intron 3 of 7)	intron (NR_153321, intron 3 of 7)	1018.0	NR_153319	208194.0	Mm.101578	NM_172456	ENSMUSG00000042787	Exog	AW557704|ENGL-B|ENGL-a|Endogl1|Endogl2|Engl|Engla|Englb	endo/exonuclease (5'-3'), endonuclease G-like	protein-coding	9.0	8.0	20.5	270.5	58.0	15.0	17.5	12.0
Merged-chr14-44980110-4	chr14	44980020	44980220	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7991.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	29.0	26.5	7.0	116.5	76.5	14.0	31.5	15.0
Merged-chr1-186202734-3	chr1	186202612	186202812	+	886.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85402.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	11.0	14.5	7.5	275.5	1.5	3.5	1.5	0.0
Merged-chr5-122501508-5	chr5	122501434	122501634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110140, intron 1 of 19)	CpG	691.0	NM_001110140	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	22.0	45.0	24.0	231.0	42.5	24.5	17.0	22.0
Merged-chr2-155097027-2	chr2	155096927	155097127	+	766.166626	f1_balb.idr|f1_c57bl6.idr	TTS (NR_040634)	TTS (NR_040634)	3052.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	4.0	5.0	2.5	27.5	26.5	5.5	6.0	8.0
Merged-chr16-36663717-4	chr16	36663619	36663819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	2358.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	81.5	153.5	71.5	1190.5	235.0	74.0	84.5	71.5
Merged-chr9-72958795-4	chr9	72958690	72958890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026314)	promoter-TSS (NM_026314)	5.0	NM_001163725	67685.0	Mm.31817	NM_026314	ENSMUSG00000092192	Dyx1c1	1700010I24Rik|Dnaaf4|EKN1|b2b811.1Clo|b2b811Clo	dyslexia susceptibility 1 candidate 1	protein-coding	54.5	68.5	46.5	641.0	149.0	60.0	84.5	62.0
Merged-chr1-127859290-4	chr1	127859168	127859368	+	946.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9505.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	1.0	1.0	1.5	34.5	18.0	9.0	17.5	10.5
Merged-chr4-133546052-4	chr4	133545923	133546123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010948)	promoter-TSS (NM_010948)	4.0	NM_010948	18221.0	Mm.69	NM_010948	ENSMUSG00000028851	Nudc	SIG-92|Silg92	nudC nuclear distribution protein	protein-coding	97.0	163.5	96.5	1299.0	269.0	112.0	132.5	102.5
Merged-chr2-166155249-2	chr2	166155149	166155349	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252578)	promoter-TSS (NM_001252578)	36.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	7.0	9.5	12.0	106.5	19.5	5.5	3.0	6.0
Merged-chr2-43722886-4	chr2	43722774	43722974	+	864.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25950.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	7.5	15.0	5.5	165.5	46.5	4.5	12.5	15.5
Merged-chr17-64592485-4	chr17	64592379	64592579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9170.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	129.5	194.5	187.5	1983.0	354.5	137.5	109.0	129.0
Merged-chr15-39944029-4	chr15	39943912	39944112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172814)	promoter-TSS (NM_172814)	-18.0	NM_172814	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	133.0	188.5	155.5	1648.0	368.0	114.0	215.5	115.5
Merged-chr14-37134748-4	chr14	37134645	37134845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_078478, intron 1 of 8)	intron (NM_078478, intron 1 of 8)	394.0	NM_001199122	66092.0	Mm.182912	NM_078478	ENSMUSG00000041028	Ghitm	1010001P14Rik|C77840|MICS1|PTD010|Tmbim5	growth hormone inducible transmembrane protein	protein-coding	43.0	65.5	41.0	575.5	123.5	32.0	41.5	41.0
Merged-chr17-27778034-4	chr17	27777875	27778075	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033279, intron 3 of 4)	intron (NM_001033279, intron 3 of 4)	42567.0	NM_001033279	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	5.5	14.0	5.0	158.0	21.5	7.5	7.0	13.0
Merged-chr12-34783824-4	chr12	34783730	34783930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	133265.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	51.0	56.5	32.5	960.0	120.5	29.0	60.5	44.5
Merged-chr19-23125426-4	chr19	23125322	23125522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15804.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	70.0	65.0	54.5	996.0	132.5	43.0	59.0	51.0
Merged-chr5-96866561-3	chr5	96866478	96866678	+	855.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-54694.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	9.5	17.5	17.0	261.5	11.0	8.0	12.0	7.5
Merged-chr7-143095741-4	chr7	143095638	143095838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1096.0	NM_020277	56843.0	Mm.286668	NM_020277	ENSMUSG00000009246	Trpm5	9430099A16Rik|LTrpC-5|Ltrpc5|Mtr1	transient receptor potential cation channel, subfamily M, member 5	protein-coding	31.5	39.5	45.0	710.5	135.5	41.5	51.0	72.0
Merged-chr16-57546567-4	chr16	57546469	57546669	+	972.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-2673.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	20.5	51.5	15.0	404.5	54.0	29.5	20.0	13.0
Merged-chr1-152015784-4	chr1	152015684	152015884	+	752.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	intron (NM_197990, intron 1 of 5)	74536.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	20.5	26.5	23.0	307.5	24.5	13.0	11.0	8.5
Merged-chr4-131904733-2	chr4	131904633	131904833	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_102393, intron 4 of 4)	RSINE1|SINE|B4	15296.0	NR_102394	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	6.0	6.0	4.5	22.5	14.5	2.0	0.0	3.0
Merged-chr7-143686312-4	chr7	143686214	143686414	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024290)	promoter-TSS (NM_024290)	-439.0	NR_131763	79201.0	Mm.290780	NM_024290	ENSMUSG00000037613	Tnfrsf23	SOB|TNFRSFH23|Tnfrh1|Tnfrsf1al1|mDcTRAILR1|mSOB	tumor necrosis factor receptor superfamily, member 23	protein-coding	13.0	19.5	19.0	167.0	70.5	23.5	19.5	27.5
Merged-chr10-20568487-3	chr10	20568387	20568587	+	724.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	intron (NM_013875, intron 2 of 12)	-20159.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	6.0	10.5	9.0	109.5	15.0	4.5	4.5	3.5
Merged-chr15-99772528-4	chr15	99772480	99772680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028015)	promoter-TSS (NM_028015)	-65.0	NM_028015	71949.0	Mm.390821	NM_028015	ENSMUSG00000023021	Cers5	2310081H14Rik|AU045339|AW544927|Lass5|Trh4	ceramide synthase 5	protein-coding	35.0	62.0	22.5	477.5	53.0	27.0	33.0	24.0
Merged-chr10-88336578-4	chr10	88336474	88336674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 4 of 6)	MER31A|LTR|ERV1	20501.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	75.0	97.5	126.5	1249.5	215.0	92.0	92.5	103.5
Merged-chr13-75878108-3	chr13	75878006	75878206	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028493, intron 9 of 11)	intron (NM_028493, intron 9 of 11)	38220.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	8.0	17.0	7.0	237.0	53.5	9.0	9.5	3.5
Merged-chr5-107960964-4	chr5	107960902	107961102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	ORR1D2|LTR|ERVL-MaLR	26075.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	74.0	73.5	76.5	1111.0	145.5	41.0	69.5	48.5
Merged-chr19-34517415-4	chr19	34517301	34517501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	10073.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	36.0	57.0	58.0	839.5	105.5	40.0	56.0	51.5
Merged-chr11-96411024-4	chr11	96410914	96411114	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45256.0	NM_008266	15407.0	Mm.890	NM_008266	ENSMUSG00000018973	Hoxb1	Hox-2.9	homeobox B1	protein-coding	14.5	22.5	33.5	258.0	39.5	10.5	14.5	22.5
Merged-chr10-128804481-4	chr10	128804359	128804559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178066)	promoter-TSS (NM_178066)	-12.0	NM_178066	73827.0	Mm.24630	NM_178066	ENSMUSG00000047090	Tmem198b	1110012D08Rik	transmembrane protein 198b	protein-coding	48.0	68.0	48.0	501.0	106.5	31.5	40.5	30.5
Merged-chr13-95032707-2	chr13	95032607	95032807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172263, intron 17 of 19)	intron (NM_172263, intron 17 of 19)	56363.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	17.0	12.5	14.5	117.0	21.0	15.0	4.5	11.0
Merged-chr6-146676422-3	chr6	146676323	146676523	+	867.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19205.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	14.5	10.5	14.0	190.5	41.5	7.5	5.0	10.0
Merged-chr12-70969207-4	chr12	70969114	70969314	+	919.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5409.0	NM_001310595	19167.0	Mm.296338	NM_011184	ENSMUSG00000060073	Psma3	Lmpc8	proteasome (prosome, macropain) subunit, alpha type 3	protein-coding	18.5	37.5	14.5	164.0	83.5	30.5	15.0	41.5
Merged-chr3-37654414-4	chr3	37654526	37654726	+	790.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14679.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	5.5	11.0	5.5	41.5	8.5	8.5	2.5	4.5
Merged-chr2-156324375-4	chr2	156324261	156324461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027585, intron 2 of 12)	intron (NM_027585, intron 2 of 12)	-11657.0	NM_020255	19018.0	Mm.389346	NM_020255	ENSMUSG00000046229	Scand1	2310003H23Rik|Leap1|PGC-2|Ppargc2	SCAN domain-containing 1	protein-coding	29.5	32.0	17.0	415.5	96.5	28.5	30.5	33.5
Merged-chr10-8238776-1	chr10	8238676	8238876	+	804.333313	f0_balb.idr	intron (NM_177387, intron 7 of 7)	intron (NM_177387, intron 7 of 7)	280049.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	11.5	13.0	6.0	127.0	6.5	5.0	5.5	3.0
Merged-chr3-136750153-3	chr3	136750047	136750247	+	738.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	80081.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	11.0	16.5	7.5	174.5	14.0	10.5	10.5	6.5
Merged-chr4-115825450-4	chr4	115825342	115825542	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-2650.0	NM_175308	100465.0	Mm.35571	NM_175308	ENSMUSG00000028709	Mob3c	AW822253|D130076I06Rik|Mobkl2c	MOB kinase activator 3C	protein-coding	24.0	33.0	17.0	238.5	34.5	18.5	29.5	19.5
Merged-chr11-117353325-4	chr11	117353220	117353420	+	928.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017380, intron 5 of 9)	intron (NM_017380, intron 5 of 9)	21007.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	35.5	50.5	31.0	460.0	57.5	11.0	9.0	14.5
Merged-chr12-3926304-3	chr12	3926205	3926405	+	737.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28640.0	NM_001278581	18976.0	Mm.277996	NM_008895	ENSMUSG00000020660	Pomc	ACTH|BE|Beta-LPH|Clip|Gamma-LPH|Npp|Pomc-1|Pomc1|alpha-MSH|alphaMSH|beta-MSH|gamma-MSH	pro-opiomelanocortin-alpha	protein-coding	5.5	6.5	9.0	62.5	16.5	3.0	8.5	6.0
Merged-chr1-52817796-4	chr1	52817703	52817903	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008384)	promoter-TSS (NM_008384)	-115.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	36.0	46.0	40.5	446.5	33.0	20.0	26.0	17.5
Merged-chr2-129403098-3	chr2	129402990	129403190	+	816.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31951.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	11.0	6.0	9.5	97.0	0.5	1.0	0.0	1.0
Merged-chr18-82815890-4	chr18	82815777	82815977	+	843.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40020.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	3.0	10.5	11.0	110.0	11.5	10.0	14.5	9.0
Merged-chr7-105752214-4	chr7	105752117	105752317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009906)	promoter-TSS (NM_009906)	18.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	50.0	83.0	33.0	741.5	170.0	48.5	55.5	54.0
Merged-chr13-106760417-4	chr13	106760323	106760523	+	877.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176535.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	12.0	6.0	14.5	261.5	15.5	8.5	22.0	7.5
Merged-chr4-8712433-4	chr4	8712332	8712532	+	856.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277149, intron 1 of 37)	MLT1H|LTR|ERVL-MaLR	22026.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	12.0	8.0	8.0	155.0	15.0	8.5	18.5	10.0
Merged-chr2-24571085-4	chr2	24570972	24571172	+	815.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95473.0	NM_011040	18510.0	Mm.2533	NM_011040	ENSMUSG00000026976	Pax8	Pax-8	paired box 8	protein-coding	8.0	19.0	14.5	338.0	25.5	14.5	25.5	11.0
Merged-chr19-17337224-4	chr19	17337124	17337324	+	794.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	2281.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	7.0	14.5	16.5	101.0	50.5	7.5	14.0	14.5
Merged-chr16-33397272-3	chr16	33397164	33397364	+	918.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358570, intron 1 of 8)	intron (NM_001358570, intron 1 of 8)	-3181.0	NM_001358569	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	3.5	21.0	7.5	119.5	25.5	9.5	6.5	4.5
Merged-chr8-79640142-4	chr8	79640044	79640244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081164, intron 1 of 20)	CpG	468.0	NM_001081164	73945.0	Mm.34348	NM_001081164	ENSMUSG00000036990	Otud4	4930431L18Rik|AI449692|D8Ertd69e|mKIAA1046	OTU domain containing 4	protein-coding	33.0	49.5	57.5	720.5	118.0	51.5	52.5	59.0
Merged-chr19-34571103-4	chr19	34570941	34571141	+	728.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008332, intron 2 of 2)	RMER17C|LTR|ERVK	-12488.0	NM_010501	15959.0	Mm.426079	NM_010501	ENSMUSG00000074896	Ifit3	Ifi49|P49	interferon-induced protein with tetratricopeptide repeats 3	protein-coding	3.5	6.0	4.0	48.0	13.5	7.5	4.5	7.0
Merged-chr16-58408349-4	chr16	58408216	58408416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028523)	promoter-TSS (NM_028523)	-219.0	NM_001356484	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	166.0	290.0	205.0	3838.0	295.5	120.0	184.5	122.0
Merged-chr5-135677418-4	chr5	135677288	135677488	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-11757.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	20.0	21.5	16.0	223.0	34.5	23.5	28.5	27.0
Merged-chr11-114653857-4	chr11	114653755	114653955	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14688.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	25.0	26.5	15.0	241.5	55.0	21.5	23.0	23.0
Merged-chr9-46009121-6	chr9	46009054	46009254	+	723.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357241, intron 1 of 5)	RMER10A|LTR|ERVL	3536.0	NM_001357241	18475.0	Mm.200859	NM_008775	ENSMUSG00000003131	Pafah1b2	2610005M20Rik|AI747451|AU021353|Pafahb|mus[b]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 2	protein-coding	3.0	18.5	2.5	74.5	29.0	15.5	7.0	11.5
Merged-chr13-119690237-4	chr13	119690131	119690331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145942)	promoter-TSS (NM_145942)	-120.0	NM_145942	208715.0	Mm.61526	NM_145942	ENSMUSG00000093930	Hmgcs1	B130032C06Rik	3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1	protein-coding	461.5	701.0	507.0	8970.5	1138.5	442.0	602.5	396.5
Merged-chr2-90547994-3	chr2	90547896	90548096	+	584.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	32651.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	9.0	17.5	2.5	119.5	10.5	6.0	11.5	6.5
Merged-chr9-61332409-3	chr9	61332296	61332496	+	893.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38587.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	7.0	8.0	4.5	162.0	33.0	4.0	9.0	14.0
Merged-chr9-21411837-4	chr9	21411796	21411996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021888)	promoter-TSS (NM_021888)	59.0	NM_021888	60507.0	Mm.436579	NM_021888	ENSMUSG00000002825	Qtrt1	2610028E17Rik|Tgt	queuine tRNA-ribosyltransferase catalytic subunit 1	protein-coding	60.5	57.0	48.5	589.5	123.0	71.5	47.0	61.5
Merged-chr10-77964192-4	chr10	77964096	77964296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 4 of 33)	intron (NM_138301, intron 4 of 33)	5676.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	125.0	114.0	162.0	1838.5	322.0	71.5	168.0	125.0
Merged-chr13-91631569-3	chr13	91631423	91631623	+	944.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 4 of 15)	intron (NM_001360776, intron 4 of 15)	-109998.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	18.0	14.5	16.0	308.5	4.0	1.0	0.5	2.0
Merged-chr2-14073198-1	chr2	14073098	14073298	+	577.0	f0_balb.idr	promoter-TSS (NM_001356337)	promoter-TSS (NM_001356337)	736.0	NR_038162	70957.0	Mm.399049	NR_038162	ENSMUSG00000086657	Stamos	4921530L18Rik	signal transducing adaptor molecule (SH3 domain and ITAM motif) 1, opposite strand	ncRNA	7.0	8.5	13.0	85.0	11.5	7.0	6.0	7.0
Merged-chr12-116485757-4	chr12	116485651	116485851	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011215)	promoter-TSS (NM_011215)	31.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	9.0	11.0	8.5	239.5	77.0	19.5	43.5	25.5
Merged-chr2-11708630-4	chr2	11708545	11708745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271499, intron 1 of 6)	intron (NM_001271499, intron 1 of 6)	2933.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	103.0	165.0	142.5	2100.0	240.0	76.5	118.5	109.5
Merged-chr19-44407916-4	chr19	44407816	44408016	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009127)	promoter-TSS (NM_009127)	-207.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	21.5	36.5	25.5	353.0	40.0	12.0	24.5	17.5
Merged-chr10-117435599-4	chr10	117435479	117435679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11856.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	68.0	111.5	52.5	974.0	202.0	68.0	85.5	77.5
Merged-chr9-55252276-4	chr9	55252125	55252325	+	754.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	B2_Mm2|SINE|B2	31400.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	5.5	7.5	11.0	86.5	14.5	7.0	5.0	6.5
Merged-chr19-42564151-4	chr19	42564036	42564236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177464, exon 2 of 7)	exon (NM_177464, exon 2 of 7)	45331.0	NM_177464	52013.0	Mm.254169	NM_177464	ENSMUSG00000025184	R3hcc1l	1700036B12Rik|AI450607|C10orf28|D19Ertd386e|GIDRP86|Gidrp88	R3H domain and coiled-coil containing 1 like	protein-coding	31.5	29.0	39.5	718.0	40.5	20.0	23.5	21.0
Merged-chr11-93941068-3	chr11	93940960	93941160	+	867.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134012, intron 15 of 15)	intron (NM_134012, intron 15 of 15)	14723.0	NM_001077529	18103.0	Mm.1260	NM_008705	ENSMUSG00000020857	Nme2	NM23-H2|NM23B|nm23-M2	NME/NM23 nucleoside diphosphate kinase 2	protein-coding	10.0	16.0	5.5	216.5	22.0	6.5	9.0	14.0
Merged-chr16-57231583-4	chr16	57231475	57231675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358433)	promoter-TSS (NM_001358433)	-109.0	NM_001358433	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	365.0	556.0	368.0	4413.5	787.0	357.5	352.5	295.5
Merged-chr3-95673892-4	chr3	95673732	95673932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14085.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	113.5	145.0	107.0	1331.5	167.0	77.0	95.5	93.5
Merged-chr7-19461761-4	chr7	19461648	19461848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-3254.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	43.0	76.0	51.5	883.5	143.0	30.5	50.5	56.0
Merged-chr15-77306875-5	chr15	77306750	77306950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001110827, exon 1 of 14)	5' UTR (NM_001110827, exon 1 of 14)	203.0	NM_001110827	93686.0	Mm.202774	NM_053104	ENSMUSG00000033565	Rbfox2	Fbm2|Fxh|Hrnbp2|Rbm9	RNA binding protein, fox-1 homolog (C. elegans) 2	protein-coding	40.0	48.0	32.5	517.0	56.5	15.5	24.0	39.0
Merged-chr11-74830833-4	chr11	74830718	74830918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010813)	promoter-TSS (NM_010813)	-106.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	141.0	186.0	75.5	1534.0	304.5	148.0	133.0	126.0
Merged-chr3-88082867-4	chr3	88082777	88082977	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033484, intron 1 of 37)	intron (NM_001033484, intron 1 of 37)	826.0	NM_001033484	404710.0	Mm.331133	NM_001033484	ENSMUSG00000028068	Iqgap3	AI593484|D030034H08	IQ motif containing GTPase activating protein 3	protein-coding	8.5	37.0	10.5	170.5	40.0	7.0	14.0	8.5
Merged-chr13-30566988-4	chr13	30566873	30567073	+	916.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21657.0	NM_025710	66694.0	Mm.181933	NM_025710	ENSMUSG00000038462	Uqcrfs1	4430402G14Rik|AI875505	ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1	protein-coding	14.5	8.0	2.0	183.0	26.5	6.5	18.5	19.5
Merged-chr6-121251405-4	chr6	121251309	121251509	+	900.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011909, intron 1 of 10)	intron (NM_011909, intron 1 of 10)	5503.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	7.0	22.5	10.0	224.5	58.5	18.0	14.5	11.0
Merged-chr1-106815033-2	chr1	106814937	106815137	+	803.166626	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-18312.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	13.0	27.0	14.5	264.5	26.5	10.0	10.0	8.5
Merged-chr2-164641318-4	chr2	164641223	164641423	+	934.8624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2521.0	NM_001012723	277345.0	Mm.247244	NM_001012723	ENSMUSG00000070530	Wfdc16	BC043944|WAP16	WAP four-disulfide core domain 16	protein-coding	17.0	15.5	7.0	200.0	39.5	19.0	13.0	22.5
Merged-chr16-57915417-3	chr16	57915336	57915536	+	745.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160699.0	NM_007739	12837.0	Mm.130388	NM_007739	ENSMUSG00000068196	Col8a1	Col8a-1	collagen, type VIII, alpha 1	protein-coding	9.5	8.0	15.0	160.5	9.0	7.0	7.0	3.5
Merged-chr10-117909302-4	chr10	117909173	117909373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-16186.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	53.0	105.0	80.5	1071.0	84.0	27.0	27.5	27.0
Merged-chr11-71004498-4	chr11	71004366	71004566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178367)	promoter-TSS (NM_178367)	-34.0	NM_178367	216877.0	Mm.35399	NM_178367	ENSMUSG00000040620	Dhx33	3110057P17Rik|9430096J02Rik|Ddx33	DEAH (Asp-Glu-Ala-His) box polypeptide 33	protein-coding	129.0	213.0	121.5	1264.0	277.5	121.0	126.0	133.0
Merged-chr3-18319633-4	chr3	18319533	18319733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76295.0	NM_007825	13123.0	Mm.316000	NM_007825	ENSMUSG00000039519	Cyp7b1	AW261589|D3Ertd552e|hct-1	cytochrome P450, family 7, subfamily b, polypeptide 1	protein-coding	77.0	92.5	111.5	1410.5	301.0	109.0	118.0	115.5
Merged-chr14-66277117-4	chr14	66277010	66277210	+	988.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	3942.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	24.0	15.0	18.5	381.0	54.0	21.5	22.0	29.5
Merged-chr4-43972356-4	chr4	43972262	43972462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 4 of 4)	intron (NM_027450, intron 4 of 4)	-11142.0	NM_001002787	442829.0	Mm.348215	NM_001002787	ENSMUSG00000070999	Ccin	4933417A14Rik	calicin	protein-coding	118.0	119.5	68.0	972.5	165.5	93.0	112.0	70.5
Merged-chr5-66152433-4	chr5	66152321	66152521	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127382)	promoter-TSS (NM_001127382)	-467.0	NM_001127382	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	32.0	27.0	19.0	368.5	111.5	39.0	40.5	43.0
Merged-chr2-59155557-4	chr2	59155447	59155647	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	Lx4A|LINE|L1	5136.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	17.0	18.5	8.5	87.0	38.5	17.0	9.5	15.0
Merged-chr1-171382273-4	chr1	171382176	171382376	+	911.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122680, intron 2 of 7)	B2_Mm1t|SINE|B2	-6684.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	17.0	17.5	9.0	130.5	36.5	11.0	10.5	20.5
Merged-chr1-85962303-3	chr1	85962203	85962403	+	911.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-1248.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	8.0	14.0	5.0	128.5	14.0	12.5	7.0	5.5
Merged-chr13-117128004-2	chr13	117127904	117128104	+	799.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2021.0	NR_046023	623312.0	Mm.131279	NR_046023	ENSMUSG00000114792	Gm6416	-	predicted gene 6416	ncRNA	4.0	2.5	3.0	168.5	16.0	8.0	12.5	11.0
Merged-chr7-45873352-5	chr7	45873279	45873479	+	862.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133950, intron 1 of 4)	intron (NM_133950, intron 1 of 4)	539.0	NM_133950	68137.0	Mm.298433	NM_133950	ENSMUSG00000002778	Kdelr1	8030486F04Rik|AW215843|Erd2.1	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1	protein-coding	9.0	13.5	10.5	97.0	22.0	10.5	11.0	17.0
Merged-chr4-97758143-4	chr4	97758033	97758233	+	824.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-19493.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	5.5	6.0	12.5	75.5	13.0	15.0	7.5	11.0
Merged-chr10-83337495-3	chr10	83337402	83337602	+	819.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177388, intron 1 of 10)	CpG	315.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	7.5	6.0	11.5	108.5	18.0	5.0	4.0	5.0
Merged-chr2-135725638-3	chr2	135725533	135725733	+	857.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355156, intron 1 of 37)	intron (NM_001355156, intron 1 of 37)	-39205.0	NM_001355154	18798.0	Mm.38009	NM_013829	ENSMUSG00000039943	Plcb4	A930039J07Rik|AI854601|C230058B11Rik	phospholipase C, beta 4	protein-coding	8.5	9.5	13.5	190.0	18.5	2.5	11.0	15.0
Merged-chr7-116370542-3	chr7	116370442	116370642	+	835.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011083, intron 13 of 32)	intron (NM_011083, intron 13 of 32)	-36352.0	NM_026533	68052.0	Mm.14798	NM_026533	ENSMUSG00000090862	Rps13	2700063M04Rik	ribosomal protein S13	protein-coding	6.0	8.0	9.0	193.0	13.5	2.0	10.0	8.5
Merged-chr1-170932336-3	chr1	170932231	170932431	+	733.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B1|LTR|ERVL	-4748.0	NM_001160215	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	5.0	8.0	14.5	207.0	15.5	1.5	3.5	2.0
Merged-chr2-150656288-2	chr2	150656188	150656388	+	614.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_080575, intron 2 of 13)	intron (NM_080575, intron 2 of 13)	-11206.0	NR_040331	109344.0	Mm.440012	NR_040331	ENSMUSG00000087406	E130215H24Rik	-	RIKEN cDNA E130215H24 gene	ncRNA	5.5	5.5	5.0	176.0	5.5	1.5	2.5	12.5
Merged-chr4-15269032-4	chr4	15268808	15269008	+	959.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181401, intron 1 of 2)	intron (NM_181401, intron 1 of 2)	3088.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	10.0	7.0	5.0	147.0	19.5	9.0	11.0	13.5
Merged-chr8-40986301-3	chr8	40986178	40986378	+	808.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026840, intron 4 of 5)	intron (NM_026840, intron 4 of 5)	-31190.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	6.0	2.0	9.5	67.0	17.0	9.0	5.5	6.0
Merged-chr19-43669587-4	chr19	43669489	43669689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145156, intron 1 of 3)	intron (NM_145156, intron 1 of 3)	5292.0	NM_145156	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	34.5	45.5	51.0	741.0	85.0	40.0	44.0	60.5
Merged-chr9-66883856-4	chr9	66883730	66883930	+	898.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	35875.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	11.0	13.5	19.5	191.0	30.5	10.5	7.0	12.5
Merged-chr13-60660097-3	chr13	60659998	60660198	+	851.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	57887.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	5.0	28.0	12.0	189.0	8.0	1.5	0.0	5.0
Merged-chr6-33401402-4	chr6	33401297	33401497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347089, intron 7 of 9)	Lx8b|LINE|L1	152269.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	52.5	78.5	47.0	934.5	95.5	37.5	39.0	44.0
Merged-chr13-74808314-1	chr13	74808214	74808414	+	1000.0	f1_balb.idr	promoter-TSS (NM_009817)	promoter-TSS (NM_009817)	-354.0	NM_009817	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	11.5	11.0	26.0	230.5	30.5	26.0	11.5	17.0
Merged-chr2-102057575-1	chr2	102057475	102057675	+	633.0	f0_balb.idr	intron (NM_178886, intron 4 of 5)	intron (NM_178886, intron 4 of 5)	128885.0	NM_178886	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	8.5	8.0	10.0	159.0	1.0	0.5	0.5	1.0
Merged-chr18-23882317-4	chr18	23882216	23882416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 6 of 7)	intron (NM_001162941, intron 6 of 7)	-72372.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	85.5	84.0	91.0	1760.0	125.5	43.0	43.5	56.0
Merged-chr4-97751973-4	chr4	97751887	97752087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	CpG	-25639.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	69.5	88.0	83.0	1033.0	153.0	56.5	75.5	53.0
Merged-chr13-106639187-4	chr13	106639091	106639291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	297767.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	57.5	71.0	49.0	1253.0	121.0	57.5	76.5	70.0
Merged-chr7-27179020-4	chr7	27178892	27179092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029391)	promoter-TSS (NM_029391)	-109.0	NM_029391	19342.0	Mm.482114	NM_029391	ENSMUSG00000053291	Rab4b	1500031G17Rik	RAB4B, member RAS oncogene family	protein-coding	290.5	455.0	292.0	4107.0	630.5	276.5	369.5	257.5
Merged-chr8-72295220-4	chr8	72295123	72295323	+	987.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-23839.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	10.0	25.5	19.5	180.0	50.0	17.5	26.5	29.5
Merged-chr4-63494942-4	chr4	63494828	63495028	+	950.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028640, exon 1 of 12)	exon (NM_028640, exon 1 of 12)	1063.0	NM_001008793	73750.0	Mm.300397	NM_028640	ENSMUSG00000039137	Whrn	1110035G07Rik|AW122018|AW742671|C430046P22Rik|Dfnb31|Ush2d|wi	whirlin	protein-coding	12.5	25.5	17.5	217.0	38.5	15.5	10.0	20.0
Merged-chr4-44020206-3	chr4	44020112	44020312	+	713.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080384, intron 4 of 5)	intron (NM_001080384, intron 4 of 5)	7562.0	NM_001290470	12757.0	Mm.298875	NM_016760	ENSMUSG00000028478	Clta	AV026556|Lca	clathrin, light polypeptide (Lca)	protein-coding	6.5	6.0	8.5	196.0	7.0	6.0	9.0	2.5
Merged-chr14-60634729-4	chr14	60634627	60634827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033272)	promoter-TSS (NM_001033272)	22.0	NM_001033272	219140.0	Mm.149776	NM_001033272	ENSMUSG00000021990	Spata13	C79050|ESTM11|X83327|mFLJ00298	spermatogenesis associated 13	protein-coding	42.0	41.0	21.0	481.5	85.5	23.0	38.0	43.5
Merged-chr9-95507589-4	chr9	95507504	95507704	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357977, intron 1 of 25)	intron (NM_001357977, intron 1 of 25)	4392.0	NM_001357975	67958.0	Mm.292742	NM_026476	ENSMUSG00000032407	U2surp	2610101N10Rik|AU023006|Sr140	U2 snRNP-associated SURP domain containing	protein-coding	8.5	34.0	17.5	334.5	65.5	7.5	19.0	39.0
Merged-chr13-45255465-4	chr13	45255356	45255556	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134286.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	40.0	34.5	46.5	640.5	31.0	13.5	15.0	16.5
Merged-chr10-4080040-4	chr10	4079930	4080130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 20 of 27)	intron (NM_001170785, intron 20 of 27)	106955.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	35.5	52.0	51.5	786.0	78.0	33.0	36.0	31.0
Merged-chr14-20828576-5	chr14	20828480	20828680	+	935.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8082.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	10.0	25.0	16.0	59.5	44.5	5.0	8.0	12.5
Merged-chr11-116850250-3	chr11	116850162	116850362	+	865.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028865)	TTS (NM_028865)	2832.0	NM_011358	20382.0	Mm.21841	NM_011358	ENSMUSG00000034120	Srsf2	D11Wsu175e|MRF-1|Pr264|SC35|Sfrs10|Sfrs2	serine/arginine-rich splicing factor 2	protein-coding	6.0	7.5	5.0	161.5	38.5	8.0	7.0	16.0
Merged-chr5-21091429-4	chr5	21091343	21091543	+	822.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35532.0	NM_011203	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	8.0	21.0	10.5	130.0	23.5	10.5	19.5	14.0
Merged-chr1-86402468-4	chr1	86402385	86402585	+	819.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13124.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	5.0	11.0	3.5	100.0	21.5	9.5	16.5	16.5
Merged-chr9-108936187-1	chr9	108936087	108936287	+	803.0	f0_c57.idr	promoter-TSS (NM_025407)	promoter-TSS (NM_025407)	-461.0	NM_025407	22273.0	Mm.335460	NM_025407	ENSMUSG00000025651	Uqcrc1	1110032G10Rik	ubiquinol-cytochrome c reductase core protein 1	protein-coding	11.5	30.5	2.0	85.5	28.5	13.0	4.5	9.0
Merged-chr10-7600807-4	chr10	7600713	7600913	+	980.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359742, intron 3 of 5)	intron (NM_001359742, intron 3 of 5)	11013.0	NM_001359743	237253.0	Mm.206759	NM_172784	ENSMUSG00000019796	Lrp11	1700034J19Rik|6330533B21|9830160H19Rik	low density lipoprotein receptor-related protein 11	protein-coding	26.0	38.0	18.0	350.0	80.0	24.0	31.5	15.0
Merged-chr6-139874625-3	chr6	139874526	139874726	+	658.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207683, intron 23 of 31)	intron (NM_207683, intron 23 of 31)	33181.0	NM_011084	18705.0	Mm.333471	NM_011084	ENSMUSG00000030228	Pik3c2g	C80387|PI3K-C2-gamma	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 gamma	protein-coding	5.0	4.5	0.0	107.5	23.0	9.5	14.5	10.0
Merged-chr1-176818913-4	chr1	176818812	176819012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	intron (NM_001357390, intron 1 of 18)	4252.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	37.5	59.5	35.5	431.5	85.0	30.5	40.0	34.5
Merged-chr17-23924832-4	chr17	23924740	23924940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	7382.0	NM_001077633	620253.0	Mm.390964	NM_001077633	ENSMUSG00000057417	Dcpp3	Dcpp-3|EG620253|SPT-3	demilune cell and parotid protein 3	protein-coding	115.0	167.5	91.5	1737.5	290.0	97.5	157.5	117.5
Merged-chr4-109546715-3	chr4	109546613	109546813	+	920.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15416.0	NM_026291	67646.0	Mm.45820	NM_026291	ENSMUSG00000060491	4930522H14Rik	1700007J23Rik	RIKEN cDNA 4930522H14 gene	protein-coding	10.0	22.5	10.5	345.5	17.5	8.5	8.5	22.0
Merged-chr4-66792298-3	chr4	66792229	66792429	+	922.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35222.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	11.0	13.0	14.5	203.0	11.0	2.0	9.5	4.0
Merged-chr4-120951741-4	chr4	120951629	120951829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005788)	promoter-TSS (NM_001005788)	-28.0	NM_001005788	381549.0	Mm.331840	NM_001005788	ENSMUSG00000064141	Zfp69	Gm1029|Krab2|Zfp63	zinc finger protein 69	protein-coding	132.5	184.5	112.5	1762.0	335.0	121.5	173.0	142.0
Merged-chr11-118457752-3	chr11	118457705	118457905	+	852.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-2810.0	NR_045902	100126224.0	Mm.441989	NR_045902	ENSMUSG00000086514	Gm11747	-	predicted gene 11747	ncRNA	6.0	8.0	6.5	107.5	28.0	4.0	2.5	7.0
Merged-chr6-97205717-4	chr6	97205610	97205810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301857)	promoter-TSS (NM_001301857)	-63.0	NM_001301859	22200.0	Mm.277626	NM_011666	ENSMUSG00000030061	Uba3	A830034N06Rik|AI256736|AI848246|AW546539|Ube1c	ubiquitin-like modifier activating enzyme 3	protein-coding	172.0	305.0	196.0	2112.5	377.5	203.0	155.5	150.0
Merged-chr15-55557348-4	chr15	55557263	55557463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134092)	promoter-TSS (NM_134092)	-45.0	NM_134092	105837.0	Mm.390829	NM_134092	ENSMUSG00000022369	Mtbp	AI429604|MDM2BP	Mdm2, transformed 3T3 cell double minute p53 binding protein	protein-coding	26.0	31.5	24.0	328.5	74.5	28.5	34.0	54.0
Merged-chr14-33171952-3	chr14	33171821	33172021	+	662.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 1 of 58)	intron (NM_001146022, intron 1 of 58)	13145.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	9.5	11.5	2.0	61.0	18.0	7.0	7.0	6.5
Merged-chr15-37100407-2	chr15	37100292	37100492	+	682.083374	f0_balb.idr|f0_c57.idr	Intergenic	MLTR11B|LTR|ERVK	-92990.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	9.5	19.5	11.0	160.5	20.0	11.5	10.5	9.0
Merged-chr8-121578882-4	chr8	121578811	121579011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133765)	promoter-TSS (NM_133765)	-105.0	NM_133765	76454.0	Mm.24829	NM_133765	ENSMUSG00000052934	Fbxo31	1110003O08Rik|2310046N15Rik|Fbx14|Fbxo14	F-box protein 31	protein-coding	114.5	192.5	122.5	919.0	359.0	145.0	162.0	150.5
Merged-chr6-39275264-4	chr6	39275155	39275355	+	915.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68482.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	30.5	15.5	16.5	318.0	33.0	12.5	8.0	11.0
Merged-chr19-46039656-4	chr19	46039573	46039773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010697)	promoter-TSS (NM_010697)	-52.0	NM_010697	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	63.5	78.5	65.0	844.5	113.5	47.0	64.0	72.0
Merged-chr18-62122104-3	chr18	62121998	62122198	+	849.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3A|LINE|L1	57883.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	11.0	10.5	7.0	92.0	16.0	6.0	11.0	14.5
Merged-chr11-50286570-4	chr11	50286471	50286671	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	intron (NM_175334, intron 1 of 4)	5765.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	42.5	40.0	17.5	326.0	82.0	24.0	25.0	11.5
Merged-chr11-104549759-4	chr11	104549661	104549861	+	874.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010858)	promoter-TSS (NM_010858)	859.0	NM_001285990	217232.0	Mm.89845	NM_145436	ENSMUSG00000020687	Cdc27	AI452358|APC3|BC023187	cell division cycle 27	protein-coding	9.0	18.0	16.0	92.0	31.5	7.0	11.0	12.0
Merged-chr8-106576010-3	chr8	106575917	106576117	+	783.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11126.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	2.5	10.0	8.5	193.5	18.5	6.0	13.5	11.0
Merged-chr18-5802495-4	chr18	5802396	5802596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	209849.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	64.5	146.0	111.5	776.5	130.0	46.0	43.5	40.0
Merged-chr6-114843051-4	chr6	114842939	114843139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 19 of 19)	intron (NM_001253718, intron 19 of 19)	78782.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	35.5	49.0	30.0	393.0	88.5	36.5	27.0	39.5
Merged-chr14-118674863-4	chr14	118674784	118674984	+	928.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163676, intron 1 of 29)	intron (NM_001163676, intron 1 of 29)	2047.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	18.0	19.5	13.5	346.0	33.5	13.5	10.5	17.0
Merged-chr10-127655468-4	chr10	127655379	127655579	+	687.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009284, exon 13 of 22)	exon (NM_009284, exon 13 of 22)	11224.0	NM_001122895	17937.0	Mm.336898	NM_008668	ENSMUSG00000025402	Nab2	AI451907	Ngfi-A binding protein 2	protein-coding	9.0	9.0	3.0	125.5	17.0	8.0	10.0	11.5
Merged-chr1-165642017-4	chr1	165641897	165642097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7456.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	17.0	31.0	15.5	208.5	45.0	18.0	21.5	12.5
Merged-chr11-101083122-2	chr11	101083022	101083222	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001305982, exon 2 of 10)	exon (NM_001305982, exon 2 of 10)	557.0	NR_155015	71743.0	Mm.182271	NM_027896	ENSMUSG00000001755	Coasy	1300003G02Rik|Dpck|Ppat|Ukr1	Coenzyme A synthase	protein-coding	14.5	18.5	18.5	251.5	19.0	18.5	17.5	20.5
Merged-chr15-81534139-4	chr15	81534042	81534242	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-52072.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	14.5	39.5	19.5	110.5	81.0	39.0	30.0	28.5
Merged-chr17-68172952-3	chr17	68172871	68173071	+	874.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100826.0	NM_177278	320858.0	Mm.137356	NM_177278	ENSMUSG00000041565	L3mbtl4	A730037L19Rik|D930040M24Rik	L3MBTL4 histone methyl-lysine binding protein	protein-coding	7.0	16.0	9.0	101.5	6.5	5.0	6.0	7.5
Merged-chr4-141762814-3	chr4	141762759	141762959	+	847.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172338, exon 15 of 15)	3' UTR (NM_172338, exon 15 of 15)	16184.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	12.5	12.0	12.0	182.5	5.0	1.0	2.5	0.0
Merged-chr10-80215311-4	chr10	80215195	80215395	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-11303.0	NM_023431	68114.0	Mm.273418	NM_023431	ENSMUSG00000020156	Mum1	2610019J09|9430059D04Rik|UBE-1C2	melanoma associated antigen (mutated) 1	protein-coding	25.5	51.5	32.0	207.0	46.5	32.5	21.5	36.5
Merged-chr8-23256016-5	chr8	23255916	23256116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020585, intron 1 of 4)	intron (NM_020585, intron 1 of 4)	1064.0	NM_020585	57437.0	Mm.196269	NM_020585	ENSMUSG00000015341	Golga7	AB041568|C130038N16Rik|GCP16|GOLGA3AP1|HSPC041|R75586	golgi autoantigen, golgin subfamily a, 7	protein-coding	17.0	31.0	14.0	201.0	41.5	12.5	15.5	22.0
Merged-chr11-121652707-3	chr11	121652601	121652801	+	879.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178664, intron 3 of 12)	intron (NM_178664, intron 3 of 12)	20450.0	NM_178664	210004.0	Mm.386847	NM_178664	ENSMUSG00000046605	B3gntl1	6030413G23Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1	protein-coding	6.5	9.0	6.5	88.5	16.5	7.0	4.0	10.0
Merged-chr11-76763626-4	chr11	76763527	76763727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016810)	promoter-TSS (NM_016810)	-49.0	NM_001356321	53334.0	Mm.20931	NM_016810	ENSMUSG00000010392	Gosr1	AI414660|AI426320|BB145494|GOS-28|GOSRI|GS28	golgi SNAP receptor complex member 1	protein-coding	82.0	82.0	25.5	661.0	162.5	54.5	68.0	33.0
Merged-chr19-7922561-1	chr19	7922461	7922661	+	902.0	f0_balb.idr	intron (NM_134256, intron 3 of 10)	L1_Mus2|LINE|L1	43466.0	NM_134256	171405.0	Mm.326517	NM_134256	ENSMUSG00000067656	Slc22a27	OAT6-L|OAT6-S|Oat9	solute carrier family 22, member 27	protein-coding	7.0	5.5	10.0	151.0	17.5	1.5	9.5	9.5
Merged-chr16-33785505-4	chr16	33785394	33785594	+	928.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8543.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	19.0	17.5	12.0	188.5	56.5	17.0	16.0	16.0
Merged-chr9-102714023-2	chr9	102713928	102714128	+	619.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3776.0	NM_019764	56332.0	Mm.21145	NM_019764	ENSMUSG00000032531	Amotl2	AW549739|C79691|Lccp|MASCOT|mKIAA0989	angiomotin-like 2	protein-coding	5.5	6.0	4.5	52.5	5.0	1.0	2.0	3.5
Merged-chr12-76592471-1	chr12	76592371	76592571	+	574.0	f1_balb.idr	intron (NM_013675, intron 32 of 35)	intron (NM_013675, intron 32 of 35)	-44546.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	7.0	10.5	6.0	45.5	6.5	3.5	3.0	2.0
Merged-chr7-29784016-4	chr7	29783924	29784124	+	974.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360207)	promoter-TSS (NM_001360207)	56.0	NM_001360209	22693.0	Mm.292690	NM_013705	ENSMUSG00000047473	Zfp30	2610306P15Rik|Zfp-30	zinc finger protein 30	protein-coding	32.0	39.0	30.5	666.0	29.0	10.5	14.0	24.0
Merged-chr13-18785936-3	chr13	18785846	18786046	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 5 of 28)	intron (NM_172120, intron 5 of 28)	68654.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	0.5	1.0	0.0	10.0	60.0	32.0	27.5	30.5
Merged-chr16-57487931-4	chr16	57487826	57488026	+	952.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-61316.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	27.5	53.0	66.0	563.5	48.0	12.0	17.5	20.5
Merged-chr13-24444905-4	chr13	24444805	24445005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 11 of 16)	L1MEf|LINE|L1	29783.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	67.5	69.5	81.0	1069.5	149.0	71.5	73.0	77.5
Merged-chr11-58307079-4	chr11	58306968	58307168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182996)	promoter-TSS (NM_182996)	-1.0	NM_182996	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	37.5	77.0	25.0	520.0	177.5	47.0	101.0	54.0
Merged-chr11-75166685-2	chr11	75166585	75166785	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001098203, exon 2 of 2)	exon (NM_001098203, exon 2 of 2)	1467.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	3.5	3.0	8.5	17.5	11.0	4.5	8.5	13.5
Merged-chr6-34317581-4	chr6	34317485	34317685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009658)	promoter-TSS (NM_009658)	-96.0	NM_009658	11677.0	Mm.451	NM_009658	ENSMUSG00000001642	Akr1b3	ALR2|AR|Ahr-1|Ahr1|Akr1b1|Aldor1|Aldr1	aldo-keto reductase family 1, member B3 (aldose reductase)	protein-coding	169.5	234.5	134.5	2606.5	379.5	121.0	187.0	146.0
Merged-chr10-119066153-3	chr10	119066057	119066257	+	833.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15658.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	8.0	8.5	4.5	34.0	19.5	15.5	34.5	14.5
Merged-chr15-41685753-4	chr15	41685634	41685834	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 3 of 17)	intron (NR_152565, intron 3 of 17)	-103261.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	32.5	53.5	26.5	823.5	53.5	20.5	27.5	21.5
Merged-chr16-3723490-4	chr16	3723385	3723585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5361.0	NM_001161791	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	82.0	156.5	88.5	569.5	234.5	96.0	75.5	47.0
Merged-chr4-148102377-4	chr4	148102315	148102515	+	763.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027426, exon 7 of 7)	3' UTR (NM_027426, exon 7 of 7)	-14351.0	NM_001301281	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	7.0	6.0	11.5	128.5	10.5	5.5	8.0	7.5
Merged-chr17-36904923-1	chr17	36904823	36905023	+	665.5	f0_balb.idr	intron (NM_146077, intron 3 of 7)	intron (NM_146077, intron 3 of 7)	6793.0	NM_146077	224762.0	Mm.213417	NM_146077	ENSMUSG00000058063	Trim31	BC026666|HCG1|HCGI|RNF	tripartite motif-containing 31	protein-coding	5.5	10.5	7.0	133.0	10.0	4.0	6.0	6.5
Merged-chr15-100613829-4	chr15	100613776	100613976	+	979.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045701)	TTS (NR_045701)	1234.0	NR_045701	78445.0	Mm.44383	NR_045701	ENSMUSG00000097093	C330013E15Rik	-	RIKEN cDNA C330013E15 gene	ncRNA	22.5	18.5	16.0	134.5	48.0	25.5	15.5	13.0
Merged-chr6-72348647-4	chr6	72348493	72348693	+	846.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026696, exon 3 of 4)	exon (NM_026696, exon 3 of 4)	1276.0	NM_026696	68364.0	Mm.52711	NM_026696	ENSMUSG00000058706	0610030E20Rik	1500031N04Rik|2810411C16Rik|AI461894	RIKEN cDNA 0610030E20 gene	protein-coding	4.0	9.0	3.0	140.5	40.0	7.0	15.0	7.0
Merged-chr2-6723822-4	chr2	6723729	6723929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-2167.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	121.0	169.5	140.5	2082.5	238.5	91.5	139.0	135.0
Merged-chr11-22656777-4	chr11	22656706	22656906	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144523.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	19.0	37.0	8.0	233.0	52.0	22.0	21.5	24.0
Merged-chr15-77358876-4	chr15	77358830	77359030	+	973.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40180.0	NM_029419	75761.0	Mm.232636	NM_029419	ENSMUSG00000010601	Apol7a	9130022K13Rik|Apol3	apolipoprotein L 7a	protein-coding	5.0	23.0	7.0	136.0	31.0	8.5	6.5	10.5
Merged-chr10-118768002-4	chr10	118767897	118768097	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100906.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	14.0	17.5	24.0	191.0	37.5	14.0	17.5	17.5
Merged-chr17-24779682-3	chr17	24779589	24779789	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-24693.0	NM_029197	75178.0	Mm.52592	NM_029197	ENSMUSG00000024155	Meiob	4930528F23Rik|MLZ-675	meiosis specific with OB domains	protein-coding	84.5	128.5	93.5	843.0	3.0	0.0	0.0	1.0
Merged-chr12-80069343-4	chr12	80069235	80069435	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43678.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	23.5	48.5	17.5	209.0	70.5	33.0	28.5	24.0
Merged-chr10-5080220-5	chr10	5080092	5080292	+	931.4733279999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079686, intron 37 of 54)	intron (NM_001079686, intron 37 of 54)	-11129.0	NM_022027	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	9.5	15.5	13.5	244.5	30.0	8.5	19.5	15.0
Merged-chr18-75906118-2	chr18	75906001	75906201	+	677.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	intron (NM_145356, intron 2 of 4)	85923.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	1.0	0.0	2.0	9.5	23.5	12.5	15.0	8.5
Merged-chr8-22476907-4	chr8	22476806	22477006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012667)	promoter-TSS (NM_001012667)	-27.0	NM_001146117	102032.0	Mm.378231	NM_001012667	ENSMUSG00000031534	Smim19	AI316807|BG694986|EST-c39	small integral membrane protein 19	protein-coding	58.0	67.0	27.0	732.5	132.5	55.0	68.5	58.0
Merged-chr12-111696522-4	chr12	111696416	111696616	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16437.0	NM_001324481	70369.0	Mm.44239	NM_027404	ENSMUSG00000049792	Bag5	1600025G07Rik|4930405J06Rik|Bag-5	BCL2-associated athanogene 5	protein-coding	35.0	16.5	19.5	321.0	73.0	31.5	22.0	40.5
Merged-chr12-73438839-2	chr12	73438739	73438939	+	768.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29276.0	NR_046013	380765.0	Mm.490476	NR_046013	ENSMUSG00000056359	D830013O20Rik	Gm891	RIKEN cDNA D830013O20 gene	ncRNA	5.5	5.5	6.0	20.0	7.5	5.0	5.0	3.0
Merged-chr10-111996609-4	chr10	111996512	111996712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028608, intron 1 of 5)	intron (NM_028608, intron 1 of 5)	652.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	37.0	44.5	33.5	680.0	158.5	61.0	63.5	46.0
Merged-chr7-90034108-4	chr7	90033992	90034192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 1 of 5)	intron (NR_110365, intron 1 of 5)	4933.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	130.0	140.5	99.5	2626.5	257.0	91.5	121.5	156.0
Merged-chr7-97077162-4	chr7	97077076	97077276	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4575.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	21.0	23.5	38.0	836.5	54.0	1.5	43.0	36.0
Merged-chr11-78346430-2	chr11	78346330	78346530	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313987)	promoter-TSS (NM_001313987)	-280.0	NM_001313986	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	5.5	4.5	2.5	40.0	4.5	7.5	4.5	5.5
Merged-chr1-120074841-7	chr1	120074805	120075005	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1125.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	7.5	8.0	5.0	133.0	33.5	4.5	12.5	18.0
Merged-chr2-145858625-1	chr2	145858525	145858725	+	558.0	f0_balb.idr	intron (NM_028724, intron 8 of 12)	intron (NM_028724, intron 8 of 12)	-44616.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	4.5	7.5	9.0	72.0	4.5	2.5	3.0	0.5
Merged-chr10-61167532-4	chr10	61167422	61167622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-4442.0	NM_001017419	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	20.5	33.5	41.5	520.0	70.0	18.0	29.5	42.5
Merged-chr4-9705940-4	chr4	9705841	9706041	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-36597.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	15.5	20.5	23.0	583.0	64.5	11.0	20.5	27.5
Merged-chr1-180279999-2	chr1	180279899	180280099	+	710.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23699.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	4.5	14.5	7.0	52.0	22.0	8.0	2.5	5.5
Merged-chr3-16184680-4	chr3	16184558	16184758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172677, intron 2 of 5)	intron (NM_172677, intron 2 of 5)	1493.0	NM_172677	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	59.0	93.0	41.0	811.0	161.0	49.0	50.0	52.5
Merged-chr4-46611420-3	chr4	46611308	46611508	+	940.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198664, intron 9 of 12)	intron (NM_198664, intron 9 of 12)	-9479.0	NM_001164804	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	14.0	12.5	9.0	131.5	19.5	7.5	5.5	6.5
Merged-chr13-112987700-4	chr13	112987619	112987819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081062)	promoter-TSS (NM_001081062)	-83.0	NM_001081062	218630.0	Mm.25457	NM_001081062	ENSMUSG00000042417	Ccno	C86987|Ccnu|E130318K11|UDG2|Ung2	cyclin O	protein-coding	53.5	95.5	58.5	1564.5	179.0	55.0	95.0	106.5
Merged-chr3-59120134-4	chr3	59120027	59120227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287119, intron 1 of 2)	intron (NM_001287119, intron 1 of 2)	10635.0	NM_001287124	140795.0	Mm.439021	NM_133200	ENSMUSG00000036381	P2ry14	A330108O13Rik|Gpr105|P2Y14	purinergic receptor P2Y, G-protein coupled, 14	protein-coding	74.5	79.0	74.5	1391.0	136.5	31.0	51.5	50.5
Merged-chr10-78425707-4	chr10	78425612	78425812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007793)	promoter-TSS (NM_007793)	42.0	NM_007793	13014.0	Mm.6095	NM_007793	ENSMUSG00000005054	Cstb	AA960480|Stfb	cystatin B	protein-coding	79.0	153.0	81.0	1115.0	180.0	88.5	73.5	110.0
Merged-chr2-165901247-3	chr2	165901148	165901348	+	830.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-16410.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	5.0	2.0	12.0	85.0	25.0	8.0	7.5	25.5
Merged-chr1-165457635-4	chr1	165457529	165457729	+	676.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028759, intron 1 of 18)	intron (NM_028759, intron 1 of 18)	2834.0	NM_028759	74106.0	Mm.227605	NM_028759	ENSMUSG00000026571	Dcaf6	1200006M05Rik|Iqwd1|PC326	DDB1 and CUL4 associated factor 6	protein-coding	6.0	8.0	8.0	164.0	19.0	13.5	12.0	12.5
Merged-chr19-5725306-4	chr19	5725227	5725427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 1 of 17)	intron (NM_001114595, intron 1 of 17)	990.0	NM_001114595	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	14.0	11.0	31.5	191.0	49.5	22.0	20.0	35.0
Merged-chr10-117897951-4	chr10	117897854	117898054	+	956.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27505.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	8.5	22.0	30.5	447.5	37.5	7.5	9.5	15.5
Merged-chr1-54565604-3	chr1	54565499	54565699	+	871.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7915.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	7.5	10.0	17.0	153.5	4.0	5.0	3.0	0.5
Merged-chr15-55500253-3	chr15	55500160	55500360	+	821.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 44 of 47)	intron (NM_181277, intron 44 of 47)	57052.0	NM_026759	68537.0	Mm.236795	NM_026759	ENSMUSG00000022370	Mrpl13	1110002D09Rik	mitochondrial ribosomal protein L13	protein-coding	8.5	6.5	7.5	92.0	8.0	1.5	3.0	4.5
Merged-chr7-141048981-4	chr7	141048882	141049082	+	808.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	-12292.0	NM_177897	330671.0	Mm.133741	NM_177897	ENSMUSG00000055629	B4galnt4	BC038881|Gm1095|beta4GalNAcT4	beta-1,4-N-acetyl-galactosaminyl transferase 4	protein-coding	6.5	11.5	7.5	105.0	17.5	8.5	10.0	11.0
Merged-chr10-68204625-3	chr10	68204517	68204717	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	74109.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	33.5	52.5	42.5	545.0	1.5	5.0	2.0	5.0
Merged-chr10-7212251-4	chr10	7212159	7212359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172546)	promoter-TSS (NM_172546)	-22.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	113.0	205.5	100.0	1606.0	269.5	126.5	113.5	102.5
Merged-chr1-171222031-2	chr1	171221929	171222129	+	882.724976	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001037170, exon 2 of 10)	5' UTR (NM_001037170, exon 2 of 10)	465.0	NM_001305585	11807.0	Mm.389209	NM_013474	ENSMUSG00000005681	Apoa2	Alp-2|Apo-AII|ApoA-II|ApoAII|Apoa-2|Hdl-1	apolipoprotein A-II	protein-coding	6.5	5.0	1.5	30.0	11.0	7.0	7.0	5.5
Merged-chr18-32067888-4	chr18	32067771	32067971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173441, exon 1 of 14)	5' UTR (NM_173441, exon 1 of 14)	137.0	NM_173441	73473.0	Mm.66853	NM_173441	ENSMUSG00000024384	Iws1	1700069O15Rik|3000008H23|AL117927|AW214353	IWS1, SUPT6 interacting protein	protein-coding	67.0	168.0	115.5	1154.5	163.0	93.0	68.0	103.0
Merged-chr17-35236489-4	chr17	35236392	35236592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023179)	promoter-TSS (NM_023179)	-104.0	NM_023179	66237.0	Mm.396107	NM_023179	ENSMUSG00000024403	Atp6v1g2	1500002D01Rik|Atp6g2|NG38|VAG2	ATPase, H+ transporting, lysosomal V1 subunit G2	protein-coding	45.0	72.5	45.5	497.5	91.0	36.0	45.0	47.5
Merged-chr15-4821979-4	chr15	4821859	4822059	+	890.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-76778.0	NM_001166066	223825.0	Mm.159281	NM_001166066	ENSMUSG00000022155	Mroh2b	4930455B06Rik|Heatr7b2|SPIF	maestro heat-like repeat family member 2B	protein-coding	9.5	11.0	14.5	268.0	32.5	17.0	12.5	11.5
Merged-chr8-117537085-4	chr8	117536978	117537178	+	824.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 2 of 32)	B4A|SINE|B4	38803.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	12.5	8.5	5.0	96.5	29.0	5.0	5.0	12.5
Merged-chr13-98867438-4	chr13	98867379	98867579	+	821.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 7 of 23)	intron (NM_178716, intron 7 of 23)	23563.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	7.5	7.5	8.0	147.5	18.5	9.5	9.0	10.5
Merged-chr6-50114443-4	chr6	50114346	50114546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 1 of 13)	intron (NM_001361248, intron 1 of 13)	3586.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	105.0	120.5	86.0	1916.0	143.0	42.5	69.0	53.5
Merged-chr2-119662897-4	chr2	119662811	119663011	+	710.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356467)	promoter-TSS (NM_001356467)	-77.0	NM_027175	69702.0	Mm.5390	NM_027175	ENSMUSG00000027305	Ndufaf1	2410001M24Rik|CGI-65|CIA30	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 1	protein-coding	15.5	11.0	13.0	116.5	15.0	1.5	1.0	9.5
Merged-chr16-11411923-4	chr16	11411813	11412013	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290148, intron 1 of 13)	RLTR20C2_MM|LTR|ERVK	6265.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	11.0	20.0	7.0	317.5	46.0	15.5	18.0	8.5
Merged-chr3-116129343-5	chr3	116129132	116129332	+	998.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011693, intron 1 of 8)	intron (NM_011693, intron 1 of 8)	456.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	15.5	36.0	20.0	148.0	84.5	27.0	13.0	20.5
Merged-chr2-155533637-2	chr2	155533545	155533745	+	911.25	f0_balb.idr|f1_balb.idr	intron (NM_019811, intron 2 of 17)	Charlie2a|DNA|hAT-Charlie	15602.0	NM_019811	60525.0	Mm.255026	NM_019811	ENSMUSG00000027605	Acss2	1110017C11Rik|ACAS|Acas1|Acas2|AceCS1|Acs1	acyl-CoA synthetase short-chain family member 2	protein-coding	18.5	43.5	22.0	145.5	1.0	0.5	0.0	0.0
Merged-chr16-94498220-4	chr16	94498140	94498340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007834, exon 8 of 8)	3' UTR (NM_007834, exon 8 of 8)	28389.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	77.5	104.0	56.0	1777.0	90.0	23.5	48.0	54.0
Merged-chr12-100067608-4	chr12	100067508	100067708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4a|LINE|L1	-44723.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	63.5	78.5	59.0	1077.5	131.5	42.0	46.5	50.0
Merged-chr3-135402502-4	chr3	135402386	135402586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20947.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	32.5	34.5	27.5	402.5	70.0	29.5	34.5	44.0
Merged-chr15-44619146-4	chr15	44619056	44619256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019480)	promoter-TSS (NM_019480)	-71.0	NM_001357690	55960.0	Mm.287896	NM_019480	ENSMUSG00000022339	Ebag9	AI835379|Rcas1	estrogen receptor-binding fragment-associated gene 9	protein-coding	297.5	422.0	383.5	5279.0	1039.0	387.5	563.5	372.0
Merged-chr11-23987935-4	chr11	23987870	23988070	+	934.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90086.0	NM_016707	14025.0	Mm.53687	NM_016707	ENSMUSG00000000861	Bcl11a	2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809	B cell CLL/lymphoma 11A (zinc finger protein)	protein-coding	10.5	20.0	14.5	361.0	53.5	8.5	13.5	24.0
Merged-chr11-23805986-4	chr11	23805893	23806093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35023.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	53.5	63.0	24.5	737.5	115.5	43.5	75.5	44.5
Merged-chr9-65032991-2	chr9	65032891	65033091	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028906, intron 1 of 20)	CpG	533.0	NM_028906	74388.0	Mm.202749	NM_028906	ENSMUSG00000032393	Dpp8	2310004I03Rik|4932434F09Rik|AI666706|DPP VIII	dipeptidylpeptidase 8	protein-coding	23.0	18.5	19.0	191.5	28.0	10.5	12.0	13.0
Merged-chr6-86822690-3	chr6	86822515	86822715	+	930.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26825.0	NR_028298	67170.0	Mm.119489	NR_028298	ENSMUSG00000100164	2610306M01Rik	-	RIKEN cDNA 2610306M01 gene	ncRNA	6.0	7.0	5.5	81.0	6.0	4.0	2.0	7.5
Merged-chr4-87870741-4	chr4	87870655	87870855	+	916.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 4 of 10)	intron (NM_027326, intron 4 of 10)	-64432.0	NM_029931	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	8.5	12.0	7.0	241.5	45.0	7.0	31.0	21.5
Merged-chr15-50816721-3	chr15	50816618	50816818	+	653.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	72331.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	6.0	12.5	11.0	91.0	14.5	4.0	7.5	12.5
Merged-chr16-92021819-4	chr16	92021736	92021936	+	994.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-36486.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	21.0	40.0	16.0	316.0	60.5	19.5	21.5	16.5
Merged-chr5-114661222-4	chr5	114661108	114661308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-2787.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	85.5	119.5	74.5	1111.0	180.0	74.5	88.0	95.5
Merged-chr11-22437701-4	chr11	22437592	22437792	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74591.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	73.0	89.5	43.5	1031.0	39.5	19.5	17.0	11.0
Merged-chr1-65113691-4	chr1	65113587	65113787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175293, intron 5 of 7)	intron (NM_175293, intron 5 of 7)	9527.0	NM_175293	98303.0	Mm.348057	NM_175293	ENSMUSG00000044816	D630023F18Rik	AI314969	RIKEN cDNA D630023F18 gene	protein-coding	108.0	159.0	126.0	2256.5	282.0	99.0	151.0	144.0
Merged-chr15-86166371-4	chr15	86166274	86166474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-19354.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	30.5	55.5	62.0	1185.5	118.5	24.0	76.5	45.5
Merged-chr5-139060598-3	chr5	139060483	139060683	+	830.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359099, intron 6 of 10)	intron (NM_001359099, intron 6 of 10)	-65630.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	6.5	11.0	5.0	141.0	9.5	2.0	4.5	5.5
Merged-chr7-102565491-4	chr7	102565390	102565590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009277)	promoter-TSS (NM_009277)	-8.0	NM_009277	20821.0	Mm.321227	NM_009277	ENSMUSG00000030966	Trim21	Ro52|Ssa1	tripartite motif-containing 21	protein-coding	115.0	130.5	90.0	1654.0	206.5	74.5	127.0	71.5
Merged-chr1-191072696-3	chr1	191072613	191072813	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 4 of 5)	intron (NM_198654, intron 4 of 5)	9692.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	50.5	79.5	37.0	620.0	175.5	68.5	61.5	43.5
Merged-chr2-120730879-3	chr2	120730813	120731013	+	888.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026891, exon 2 of 28)	exon (NM_026891, exon 2 of 28)	604.0	NM_026891	68968.0	Mm.2289	NM_026891	ENSMUSG00000027284	Cdan1	1500015A01Rik|AI448026|AW492297|CDA-I|CDA1|CDAI	congenital dyserythropoietic anemia, type I (human)	protein-coding	1.0	2.5	3.0	79.5	21.0	5.5	5.5	9.0
Merged-chr1-38902794-3	chr1	38902692	38902892	+	782.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-4632.0	NM_145142	98388.0	Mm.260054	NM_145142	ENSMUSG00000026080	Chst10	AI507003|AU041319|Hnk-1st|ST	carbohydrate sulfotransferase 10	protein-coding	13.0	22.5	19.5	371.0	7.0	1.5	3.0	5.0
Merged-chr11-97744070-5	chr11	97744025	97744225	+	802.366638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106180)	promoter-TSS (NR_106180)	579.0	NM_054051	108083.0	Mm.39700	NM_054051	ENSMUSG00000018547	Pip4k2b	AI848124|PI5P4Kbeta|Pip5k2b|c11	phosphatidylinositol-5-phosphate 4-kinase, type II, beta	protein-coding	6.0	9.5	7.5	88.0	17.0	9.0	6.0	10.0
Merged-chr11-31733141-4	chr11	31733035	31733235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61273.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	77.0	156.0	155.5	2341.5	623.5	194.0	176.5	190.0
Merged-chr11-111089068-3	chr11	111088972	111089172	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22908.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	4.0	9.5	7.0	11.5	174.5	48.5	47.0	51.5
Merged-chr10-39449306-4	chr10	39449206	39449406	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	79507.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	23.5	35.5	56.0	632.0	22.0	9.5	11.5	8.5
Merged-chr15-12204961-4	chr15	12204852	12205052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172958)	promoter-TSS (NM_172958)	-76.0	NM_001356498	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	471.5	664.5	606.5	8683.0	1059.5	435.0	599.5	418.0
Merged-chr4-136893016-4	chr4	136892918	136893118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007574)	promoter-TSS (NM_007574)	-104.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	162.0	259.0	134.0	2378.5	477.0	173.0	192.0	181.5
Merged-chr7-93013470-4	chr7	93013367	93013567	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-66412.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	13.0	4.5	25.5	466.0	50.0	4.5	31.5	31.0
Merged-chr6-39207531-2	chr6	39207399	39207599	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001033430)	promoter-TSS (NM_001033430)	-726.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	12.5	38.5	23.5	426.0	63.0	17.5	37.5	24.0
Merged-chr2-49734614-4	chr2	49734515	49734715	+	926.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 15 of 25)	intron (NM_008449, intron 15 of 25)	-53071.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	14.0	26.5	17.5	418.0	42.0	19.5	23.5	37.0
Merged-chr4-107080389-4	chr4	107080304	107080504	+	811.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346552, intron 5 of 6)	intron (NM_001346552, intron 5 of 6)	13416.0	NM_175471	230582.0	Mm.44608	NM_175471	ENSMUSG00000028621	Cyb5rl	2810410C14Rik	cytochrome b5 reductase-like	protein-coding	4.5	6.5	6.0	100.5	14.0	2.0	12.5	16.5
Merged-chr16-17727389-4	chr16	17727285	17727485	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-4438.0	NM_001040683	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	31.0	24.5	22.5	305.0	84.0	19.0	22.0	19.0
Merged-chr2-52958634-4	chr2	52958524	52958724	+	836.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	100756.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	7.0	9.0	6.5	129.5	23.0	4.5	12.0	7.5
Merged-chr19-41088481-4	chr19	41088389	41088589	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011904, intron 19 of 20)	intron (NM_011904, intron 19 of 20)	-11376.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	16.5	11.5	15.5	217.5	37.0	13.5	8.5	17.5
Merged-chr7-84151388-4	chr7	84151233	84151433	+	871.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133722, exon 1 of 3)	exon (NM_133722, exon 1 of 3)	560.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	8.0	3.0	17.0	148.5	23.0	12.5	11.0	16.5
Merged-chr4-34958606-4	chr4	34958570	34958770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 3 of 3)	intron (NM_178061, intron 3 of 3)	-47189.0	NR_040652	73696.0	Mm.1361	NR_040652	ENSMUSG00000085824	Platr9	2410114N07Rik	pluripotency associated transcript 9	ncRNA	11.0	11.5	19.5	150.5	20.5	5.0	11.0	8.0
Merged-chr16-33683908-4	chr16	33683834	33684034	+	887.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175256)	promoter-TSS (NM_175256)	-532.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	4.0	9.0	8.0	208.0	27.0	18.5	5.5	10.0
Merged-chr7-12979759-4	chr7	12979685	12979885	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175558, intron 3 of 5)	intron (NM_175558, intron 3 of 5)	1937.0	NM_001168561	269870.0	Mm.62083	NM_175558	ENSMUSG00000033961	Zfp446	A630035I11Rik|A930031C22|AA120513|AV306632	zinc finger protein 446	protein-coding	8.5	9.5	11.5	118.0	57.5	20.5	44.0	33.0
Merged-chr1-191086723-4	chr1	191086629	191086829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11685.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	46.0	91.0	46.0	551.0	145.5	49.0	41.5	50.0
Merged-chr11-19929310-4	chr11	19929212	19929412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	4870.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	43.0	59.5	28.0	637.5	66.5	46.5	37.5	26.5
Merged-chr16-59570970-2	chr16	59570876	59571076	+	688.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15224.0	NM_174848	224273.0	Mm.246424	NM_174848	ENSMUSG00000022723	Crybg3	5031404N19|AU022790|Gm9581	beta-gamma crystallin domain containing 3	protein-coding	0.0	0.5	0.0	13.0	29.5	5.5	10.0	21.5
Merged-chr13-23585132-4	chr13	23585036	23585236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001290530)	TTS (NM_001290530)	834.0	NM_001290530	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	32.0	25.5	34.0	314.5	43.0	22.0	35.0	33.0
Merged-chr16-91056234-4	chr16	91056136	91056336	+	968.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028905, exon 3 of 3)	exon (NM_028905, exon 3 of 3)	-11857.0	NR_152264	67367.0	Mm.347	NM_026110	ENSMUSG00000022974	Paxbp1	1810007M14Rik|C21orf66|Gcfc|Gcfc1|Pax3/7bp	PAX3 and PAX7 binding protein 1	protein-coding	11.5	22.5	7.0	252.5	58.5	12.0	24.0	26.0
Merged-chr12-35011693-3	chr12	35011597	35011797	+	941.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26936.0	NM_029294	75456.0	Mm.79179	NM_029294	ENSMUSG00000092305	Prps1l1	1700011K15Rik	phosphoribosyl pyrophosphate synthetase 1-like 1	protein-coding	16.0	15.0	12.5	172.5	14.0	8.5	6.0	4.5
Merged-chr11-52374463-3	chr11	52374343	52374543	+	787.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011694, intron 2 of 8)	intron (NM_011694, intron 2 of 8)	13581.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	5.5	4.5	1.0	75.0	21.0	5.0	5.0	7.5
Merged-chr16-36531302-4	chr16	36531193	36531393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013803, intron 1 of 6)	intron (NM_013803, intron 1 of 6)	30841.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	24.0	46.5	27.0	701.0	62.5	25.0	56.5	44.5
Merged-chr13-81129040-3	chr13	81128959	81129159	+	679.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	L1MA6|LINE|L1	164985.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	9.0	6.0	8.0	86.5	15.0	7.5	6.5	8.5
Merged-chr13-21200196-4	chr13	21200124	21200324	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Leu-TTG|tRNA|tRNA	20293.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	19.5	29.5	16.0	507.0	69.5	16.5	23.0	28.5
Merged-chr15-12014275-4	chr15	12014178	12014378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4A|LTR|ERVK	-18271.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	39.0	92.0	42.0	669.0	106.5	37.5	50.0	43.5
Merged-chr7-45529708-4	chr7	45529611	45529811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148927, intron 1 of 19)	intron (NM_148927, intron 1 of 19)	3381.0	NM_148927	69217.0	Mm.274158	NM_148927	ENSMUSG00000040428	Plekha4	2410005C22Rik|C88169|Pepp1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4	protein-coding	34.5	64.0	24.0	169.5	63.0	29.0	26.0	27.0
Merged-chr14-14863913-4	chr14	14863825	14864025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 19 of 34)	intron (NM_001195229, intron 19 of 34)	43110.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	23.0	38.5	10.0	533.0	105.0	24.0	43.0	34.5
Merged-chr11-22972935-4	chr11	22972764	22972964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361661)	promoter-TSS (NM_001361661)	2.0	NM_001361661	17846.0	Mm.259903	NM_144514	ENSMUSG00000051355	Commd1	AI256843|Murr1|U2/Mu	COMM domain containing 1	protein-coding	21.5	35.0	21.0	402.0	68.0	36.0	20.0	28.5
Merged-chr10-25449558-4	chr10	25449481	25449681	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 3 of 16)	intron (NM_001358754, intron 3 of 16)	41213.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	32.0	43.5	28.5	482.0	48.0	17.5	22.0	23.5
Merged-chr16-94380674-2	chr16	94380574	94380774	+	947.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_009441, intron 1 of 45)	intron (NM_009441, intron 1 of 45)	-9659.0	NM_001159617	56176.0	Mm.474449	NM_019543	ENSMUSG00000022940	Pigp	Dcrc|Dscr5	phosphatidylinositol glycan anchor biosynthesis, class P	protein-coding	6.0	8.5	2.0	74.5	12.0	6.0	5.0	9.5
Merged-chr16-35907622-4	chr16	35907538	35907738	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30832.0	NM_030253	80285.0	Mm.49074	NM_030253	ENSMUSG00000022906	Parp9	ARTD9|AW214463|BC003281|Bagl|Bal|PARP-9	poly (ADP-ribose) polymerase family, member 9	protein-coding	27.5	37.5	14.5	298.5	56.5	15.5	28.0	15.5
Merged-chr3-79532872-4	chr3	79532779	79532979	+	893.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	34800.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	6.5	3.5	7.0	78.0	76.0	23.0	28.0	37.0
Merged-chr1-165460578-4	chr1	165460482	165460682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027430)	promoter-TSS (NM_027430)	-119.0	NM_028759	74106.0	Mm.227605	NM_028759	ENSMUSG00000026571	Dcaf6	1200006M05Rik|Iqwd1|PC326	DDB1 and CUL4 associated factor 6	protein-coding	188.0	279.0	201.5	2732.5	560.0	207.0	243.0	204.5
Merged-chr7-49399512-3	chr7	49399407	49399607	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 4 of 37)	intron (NM_175272, intron 4 of 37)	153318.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	19.0	25.5	17.0	250.5	24.0	3.5	7.0	5.5
Merged-chr15-74920838-4	chr15	74920753	74920953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34198.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	29.0	66.5	36.5	770.5	138.5	52.0	49.5	49.5
Merged-chr18-23807805-4	chr18	23807713	23807913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	3843.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	141.0	148.0	117.5	1943.0	254.5	100.0	137.5	112.5
Merged-chr19-5408623-7	chr19	5408504	5408704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027938, intron 1 of 3)	L2|LINE|L2	1789.0	NR_027938	74931.0	Mm.388511	NR_015545	ENSMUSG00000086938	4930481A15Rik	-	RIKEN cDNA 4930481A15 gene	ncRNA	41.0	58.5	41.0	509.5	124.5	47.5	43.5	59.0
Merged-chr4-12036769-4	chr4	12036696	12036896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51161.0	NM_177861	329795.0	Mm.475125	NM_177861	ENSMUSG00000049488	Tmem67	5330408M12Rik|B230117O07|b2b1163.1Clo|b2b1291.1Clo	transmembrane protein 67	protein-coding	23.0	53.0	28.0	351.5	113.5	54.5	41.5	33.5
Merged-chr3-58576700-4	chr3	58576694	58576894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001040396, exon 1 of 6)	exon (NM_001040396, exon 1 of 6)	158.0	NM_001040396	69227.0	Mm.270950	NM_001040396	ENSMUSG00000075700	Selenot	2810407C02Rik|5730408P04Rik|Selt	selenoprotein T	protein-coding	29.5	22.0	45.0	399.5	68.0	40.5	38.5	35.0
Merged-chr5-3502787-4	chr5	3502664	3502864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-41069.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	209.0	343.5	259.0	3576.5	519.0	198.5	250.0	203.5
Merged-chr2-79696676-4	chr2	79696568	79696768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11112.0	NM_172420	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	127.5	142.5	114.0	1567.0	293.5	105.0	116.0	113.5
Merged-chr7-118995271-4	chr7	118995203	118995403	+	905.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195774)	promoter-TSS (NM_001195774)	-92.0	NM_001195774	64297.0	Mm.103439	NM_022420	ENSMUSG00000008734	Gprc5b	AW125761|Raig2	G protein-coupled receptor, family C, group 5, member B	protein-coding	18.0	16.5	9.0	191.0	27.5	4.0	15.0	12.5
Merged-chr11-95354785-2	chr11	95354685	95354885	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172543, intron 1 of 7)	intron (NM_172543, intron 1 of 7)	17767.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	7.5	10.0	4.5	47.5	18.5	2.0	5.5	9.0
Merged-chr15-99970772-4	chr15	99970653	99970853	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284522, intron 1 of 15)	RMER6A|LTR|ERVK	688.0	NM_001284522	207214.0	Mm.28811	NM_001024526	ENSMUSG00000023025	Larp4	DXErtd793|DXErtd793e	La ribonucleoprotein domain family, member 4	protein-coding	29.0	32.5	22.0	366.5	60.0	16.5	28.0	25.0
Merged-chr4-55652028-4	chr4	55651921	55652121	+	873.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119546.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	13.0	47.5	26.0	255.0	29.5	12.0	24.0	25.0
Merged-chr13-55318695-5	chr13	55318610	55318810	+	990.919983	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008739)	TTS (NM_008739)	3270.0	NM_009000	19336.0	Mm.220923	NM_009000	ENSMUSG00000034789	Rab24	6530406O07Rik	RAB24, member RAS oncogene family	protein-coding	12.0	15.5	15.0	173.5	30.0	12.0	17.5	18.5
Merged-chr9-108094568-4	chr9	108094475	108094675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146226)	promoter-TSS (NM_146226)	-95.0	NM_146226	235606.0	Mm.219639	NM_146226	ENSMUSG00000032590	Apeh	-	acylpeptide hydrolase	protein-coding	131.5	165.5	95.5	1491.5	257.0	99.0	140.0	102.5
Merged-chr9-71951434-4	chr9	71951324	71951524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011544, intron 5 of 20)	intron (NM_011544, intron 5 of 20)	-55328.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	90.5	117.5	101.5	1522.0	241.5	72.5	85.0	96.5
Merged-chr17-71190758-4	chr17	71190557	71190757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	6679.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	12.0	12.0	15.5	123.5	32.5	10.5	16.0	17.0
Merged-chr3-135597156-4	chr3	135597064	135597264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 17 of 24)	intron (NM_008689, intron 17 of 24)	94383.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	39.5	38.0	57.5	921.0	88.5	23.5	38.5	51.0
Merged-chr4-101069027-4	chr4	101068950	101069150	+	979.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183024)	promoter-TSS (NM_183024)	12.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	17.0	24.5	19.5	216.0	36.5	11.0	16.5	13.5
Merged-chr7-45741406-4	chr7	45741269	45741469	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360784, intron 1 of 5)	MTD|LTR|ERVL-MaLR	1109.0	NM_001360784	54200.0	Mm.271634	NM_017465	ENSMUSG00000003271	Sult2b1	AI326997|BB173635|ST2B1|SULT2B	sulfotransferase family, cytosolic, 2B, member 1	protein-coding	3.5	7.0	4.5	121.0	40.5	16.0	22.0	30.5
Merged-chr1-149946693-4	chr1	149946584	149946784	+	885.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	14606.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	12.5	21.0	14.5	214.5	42.0	12.0	11.5	13.0
Merged-chr10-20769678-4	chr10	20769574	20769774	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44596.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	7.0	10.0	3.5	165.5	57.5	5.5	8.0	13.5
Merged-chr8-46395471-4	chr8	46395309	46395509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-75628.0	NM_007981	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	12.5	19.0	26.0	276.5	54.5	15.0	29.5	24.5
Merged-chr7-80628844-4	chr7	80628737	80628937	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173863, intron 3 of 14)	intron (NM_173863, intron 3 of 14)	-7180.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	38.0	17.0	27.0	369.0	38.5	17.5	34.5	19.0
Merged-chr19-53143336-4	chr19	53143242	53143442	+	882.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013758)	promoter-TSS (NM_013758)	586.0	NM_001164100	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	15.5	11.0	17.0	179.0	20.5	8.5	10.5	9.5
Merged-chr4-142005532-4	chr4	142005432	142005632	+	819.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 1 of 31)	intron (NM_177868, intron 1 of 31)	6119.0	NM_177868	329977.0	Mm.252019	NM_028429	ENSMUSG00000051435	Fhad1	2900090M10Rik|B230311F11	forkhead-associated (FHA) phosphopeptide binding domain 1	protein-coding	13.0	14.5	7.0	93.5	41.5	9.0	4.5	13.0
Merged-chr6-145247304-4	chr6	145247197	145247397	+	919.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021284, intron 1 of 4)	intron (NM_021284, intron 1 of 4)	2934.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	6.5	11.5	10.0	165.0	29.0	15.5	25.5	16.5
Merged-chr10-81393663-4	chr10	81393568	81393768	+	858.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099917, intron 1 of 3)	intron (NM_001099917, intron 1 of 3)	604.0	NM_001099917	72273.0	Mm.253147	NM_001099917	ENSMUSG00000078439	Smim24	2210404O07Rik	small integral membrane protein 24	protein-coding	10.5	18.5	12.5	112.5	14.5	5.0	12.0	12.0
Merged-chr4-11088747-3	chr4	11088616	11088816	+	932.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12511.0	NM_001085493	76947.0	Mm.275265	NM_001085493	ENSMUSG00000050323	Ndufaf6	2310030N02Rik	NADH dehydrogenase (ubiquinone) complex I, assembly factor 6	protein-coding	12.0	24.0	20.0	188.0	11.5	9.5	7.0	5.5
Merged-chr10-80757923-3	chr10	80757799	80757999	+	860.577759	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199322, intron 1 of 27)	intron (NM_199322, intron 1 of 27)	2696.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	9.0	15.0	3.5	25.0	16.5	9.0	11.0	11.0
Merged-chr1-89552649-4	chr1	89552560	89552760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	97849.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	71.0	135.5	106.5	1338.5	147.0	50.0	98.0	58.0
Merged-chr7-143449747-4	chr7	143449639	143449839	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11311.0	NM_009876	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	6.0	19.5	17.0	236.0	44.0	17.5	23.0	27.0
Merged-chr13-60738649-4	chr13	60738541	60738741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 18 of 26)	intron (NM_134062, intron 18 of 26)	47723.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	34.0	55.0	29.0	561.0	91.5	35.5	49.5	52.0
Merged-chr13-95325807-3	chr13	95325681	95325881	+	867.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302539)	promoter-TSS (NM_001302539)	956.0	NM_028106	72114.0	Mm.3774	NM_028106	ENSMUSG00000041995	Zbed3	0610037K01Rik|2610005H11Rik|AU018975|AU024588	zinc finger, BED type containing 3	protein-coding	7.0	14.0	3.5	96.0	24.5	12.0	8.0	17.5
Merged-chr5-123675385-4	chr5	123675292	123675492	+	899.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	intron (NM_001359224, intron 1 of 18)	8969.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	15.5	12.0	8.0	145.0	32.5	26.0	24.5	21.0
Merged-chr12-40564437-4	chr12	40564323	40564523	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	118370.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	16.0	17.0	19.0	240.0	56.5	17.5	22.0	19.5
Merged-chr6-91685138-4	chr6	91685041	91685241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 1 of 14)	intron (NM_009320, intron 1 of 14)	1074.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	80.0	114.0	68.0	1196.0	178.0	68.0	92.5	100.5
Merged-chr8-84707438-4	chr8	84707338	84707538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081981, exon 11 of 11)	3' UTR (NM_001081981, exon 11 of 11)	5981.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	33.5	45.0	30.5	410.5	66.5	32.0	27.0	23.5
Merged-chr14-79390721-4	chr14	79390620	79390820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025832)	promoter-TSS (NM_025832)	-52.0	NM_025832	66897.0	Mm.24425	NM_025832	ENSMUSG00000022020	Naa16	1300019C06Rik|Narg1l	N(alpha)-acetyltransferase 16, NatA auxiliary subunit	protein-coding	144.0	181.0	129.0	1954.5	261.5	100.0	118.5	115.0
Merged-chr15-78573220-4	chr15	78573143	78573343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009008)	promoter-TSS (NM_009008)	-460.0	NM_009008	19354.0	Mm.1972	NM_009008	ENSMUSG00000033220	Rac2	AI323801|AI452260	Rac family small GTPase 2	protein-coding	27.0	53.5	23.0	374.0	108.5	26.5	30.0	44.5
Merged-chr1-156985922-2	chr1	156985822	156986022	+	769.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46296.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	2.0	0.5	1.0	7.0	7.5	5.0	11.0	9.5
Merged-chr14-76382475-2	chr14	76382375	76382575	+	831.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-32486.0	NM_001310646	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	6.5	5.0	8.0	272.0	15.5	6.0	10.0	7.5
Merged-chr17-34153082-4	chr17	34152959	34153159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010387)	promoter-TSS (NM_010387)	-132.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	41.5	69.5	32.0	167.5	257.5	77.5	75.0	50.5
Merged-chr7-4739856-4	chr7	4739749	4739949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001115018)	promoter-TSS (NM_001115018)	-278.0	NM_146177	232811.0	Mm.247844	NM_146177	ENSMUSG00000059851	Kmt5c	BC024816|Suv4-20h2|Suv420h2	lysine methyltransferase 5C	protein-coding	416.5	620.5	446.5	5252.0	928.0	399.0	481.0	415.5
Merged-chr3-149098867-3	chr3	149098781	149098981	+	732.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144246.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	20.5	16.0	8.0	269.5	17.5	5.5	8.5	14.0
Merged-chr6-16965851-4	chr6	16965754	16965954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67413.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	62.0	79.5	42.5	889.0	110.5	37.0	40.5	35.5
Merged-chr1-65187669-2	chr1	65187569	65187769	+	596.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310624, intron 1 of 41)	intron (NM_001310624, intron 1 of 41)	984.0	NM_011086	18711.0	Mm.38370	NM_011086	ENSMUSG00000025949	Pikfyve	5230400C17Rik|Pip5k|Pip5k3|Pipk5k3|PipkIII|p235	phosphoinositide kinase, FYVE type zinc finger containing	protein-coding	0.0	3.0	2.0	65.5	16.0	5.0	7.5	6.0
Merged-chr12-21369185-4	chr12	21369077	21369277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 1 of 18)	(CAGA)n|Simple_repeat|Simple_repeat	4455.0	NR_102380	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	32.5	49.5	35.5	492.0	121.0	39.0	43.0	43.0
Merged-chr6-29247298-4	chr6	29247207	29247407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25181.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	39.0	58.0	58.5	684.0	158.0	53.0	75.5	49.5
Merged-chr2-178020938-4	chr2	178020825	178021025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-2359.0	NM_001177400	626848.0	Mm.422604	NM_001177399	ENSMUSG00000074519	Zfp971	Etohi1	zinc finger protein 971	protein-coding	113.0	172.5	114.5	952.0	339.5	85.0	135.0	95.0
Merged-chr15-97247348-4	chr15	97247201	97247401	+	915.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164563)	promoter-TSS (NM_001164563)	-14.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	14.0	16.0	4.5	230.5	29.0	13.0	10.5	9.5
Merged-chr2-130295109-2	chr2	130295009	130295209	+	859.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110513)	promoter-TSS (NM_001110513)	-830.0	NM_001110513	228598.0	Mm.32582	NM_152993	ENSMUSG00000053552	Ebf4	Ebf3|O/E-4|Olf-1	early B cell factor 4	protein-coding	7.5	6.0	5.0	103.0	7.0	4.5	3.5	7.5
Merged-chr2-77197296-4	chr2	77197193	77197393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 12 of 17)	intron (NM_175465, intron 12 of 17)	-26658.0	NM_001025576	545428.0	Mm.26579	NM_001025576	ENSMUSG00000044033	Ccdc141	2610301F02Rik|CAMDI	coiled-coil domain containing 141	protein-coding	43.0	54.5	61.5	848.0	70.5	22.0	30.0	25.5
Merged-chr4-149690216-4	chr4	149690131	149690331	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 1 of 23)	intron (NM_001029837, intron 1 of 23)	8477.0	NM_001164050	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	25.0	53.5	20.5	136.5	83.5	47.0	22.5	3.5
Merged-chr7-35396922-4	chr7	35396793	35396993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178643)	promoter-TSS (NM_178643)	-126.0	NM_178643	101831.0	Mm.389855	NM_178643	ENSMUSG00000030493	Faap24	AW124591|AW538696|C230052I12Rik	Fanconi anemia core complex associated protein 24	protein-coding	152.5	218.5	157.0	2423.5	355.0	146.5	170.5	160.5
Merged-chr18-4343501-4	chr18	4343284	4343484	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 2 of 7)	intron (NM_007746, intron 2 of 7)	9569.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	5.5	16.5	9.5	117.5	25.5	7.5	7.0	11.5
Merged-chr1-131052784-7	chr1	131052697	131052897	+	998.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008551)	TTS (NM_008551)	32952.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	4.0	5.5	5.0	41.0	9.0	10.0	9.5	20.0
Merged-chr7-141328108-4	chr7	141327999	141328199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282076)	promoter-TSS (NM_001282076)	-31.0	NM_001141950	71448.0	Mm.248960	NM_027797	ENSMUSG00000025505	Tmem80	5530601I19Rik	transmembrane protein 80	protein-coding	107.0	150.5	73.0	860.0	322.5	137.0	122.5	118.5
Merged-chr10-25443788-3	chr10	25443691	25443891	+	973.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013511, exon 3 of 20)	exon (NM_013511, exon 3 of 20)	35423.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	17.5	14.0	25.0	390.0	73.0	13.0	11.0	12.0
Merged-chr11-87019654-4	chr11	87019539	87019739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25877.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	54.5	53.0	47.0	804.5	133.5	33.0	38.0	40.0
Merged-chr5-3355590-4	chr5	3355508	3355708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	11715.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	48.5	64.0	56.5	481.0	81.5	50.5	35.5	39.5
Merged-chr11-111066071-4	chr11	111065989	111066189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008425)	promoter-TSS (NM_008425)	-75.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	110.5	132.5	58.0	1273.0	338.0	97.0	102.5	89.5
Merged-chr5-99248703-4	chr5	99248608	99248808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	4219.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	78.5	106.5	101.5	1435.5	177.5	82.0	139.0	92.5
Merged-chr14-87075324-2	chr14	87075227	87075427	+	832.099976	f0_balb.idr|f1_balb.idr	intron (NM_019670, intron 3 of 27)	ORR1C1|LTR|ERVL-MaLR	65897.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	12.5	17.5	21.0	318.0	4.0	1.5	5.0	8.5
Merged-chr18-20743024-7	chr18	20742934	20743134	+	951.4761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	intron (NM_019737, intron 1 of 8)	3370.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	2.5	5.5	5.5	115.5	16.5	8.0	10.0	4.5
Merged-chr12-29696853-4	chr12	29696773	29696973	+	889.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361657, intron 3 of 24)	intron (NM_001361657, intron 3 of 24)	-10428.0	NR_046080	328075.0	Mm.447832	NR_046080	ENSMUSG00000112663	C630031E19Rik	C630031E19	RIKEN cDNA C630031E19 gene	ncRNA	35.5	26.0	19.0	462.5	35.5	19.5	24.0	12.5
Merged-chr2-148409368-4	chr2	148409295	148409495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1207.0	NM_009378	21824.0	Mm.24096	NM_009378	ENSMUSG00000074743	Thbd	AI385582|CD141|TM	thrombomodulin	protein-coding	43.0	69.0	57.5	873.5	104.0	36.0	69.5	64.0
Merged-chr6-134094772-4	chr6	134094639	134094839	+	890.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	59039.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	9.5	16.5	8.5	169.0	19.5	2.5	5.0	10.0
Merged-chr17-8195823-4	chr17	8195702	8195902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001197046, exon 13 of 13)	3' UTR (NM_001197046, exon 13 of 13)	30284.0	NM_201230	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	53.0	60.5	85.0	1334.0	137.0	24.0	70.0	68.5
Merged-chr6-122969311-1	chr6	122969211	122969411	+	552.0	f0_balb.idr	intron (NM_153197, intron 5 of 5)	intron (NM_153197, intron 5 of 5)	16667.0	NM_153197	73149.0	Mm.25684	NM_153197	ENSMUSG00000043832	Clec4a3	3110037K17Rik|Dcir3	C-type lectin domain family 4, member a3	protein-coding	7.0	5.5	5.0	121.0	2.5	0.0	1.5	2.5
Merged-chr12-111671684-4	chr12	111671618	111671818	+	988.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021273, intron 2 of 7)	CpG-3541	620.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	7.0	31.5	22.0	99.5	54.0	9.5	14.0	23.0
Merged-chr11-99448957-3	chr11	99448853	99449053	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10800.0	NM_023256	66809.0	Mm.28042	NM_023256	ENSMUSG00000035775	Krt20	9030623C06Rik|Ck-20|Ck20|K20|Krt21	keratin 20	protein-coding	9.0	4.5	26.0	217.5	20.5	4.5	1.5	10.5
Merged-chr14-21847793-5	chr14	21847674	21847874	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_176925, exon 1 of 3)	5' UTR (NM_176925, exon 1 of 3)	196.0	NM_176925	319486.0	Mm.390671	NM_176925	ENSMUSG00000090564	A430057M04Rik	-	RIKEN cDNA A430057M04 gene	protein-coding	10.5	21.5	9.5	127.5	17.0	5.0	6.0	6.0
Merged-chr6-115992052-3	chr6	115991863	115992063	+	746.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026376, intron 1 of 35)	intron (NM_026376, intron 1 of 35)	3042.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	7.0	6.5	7.0	37.5	6.5	0.5	1.0	6.0
Merged-chr8-124922207-4	chr8	124922137	124922337	+	920.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053207, intron 1 of 4)	intron (NM_053207, intron 1 of 4)	24351.0	NM_001111141	244666.0	Mm.482915	NM_001111141	ENSMUSG00000031986	Sprtn	Gm505	SprT-like N-terminal domain	protein-coding	21.5	19.5	12.5	189.0	45.0	10.5	13.0	8.5
Merged-chr6-42265619-4	chr6	42265508	42265708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007610, intron 1 of 10)	intron (NM_007610, intron 1 of 10)	623.0	NM_007610	12366.0	Mm.3921	NM_007610	ENSMUSG00000029863	Casp2	CASP-2|ICH-1|NEDD-2|Nedd2	caspase 2	protein-coding	57.5	72.5	48.5	1116.5	127.5	60.0	54.5	57.5
Merged-chr15-31466505-4	chr15	31466392	31466592	+	955.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 23 of 25)	intron (NM_172606, intron 23 of 25)	-12803.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	26.5	43.5	14.5	411.5	39.5	15.5	19.5	21.0
Merged-chr4-32531636-3	chr4	32531541	32531741	+	939.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 2 of 4)	intron (NM_001109661, intron 2 of 4)	40021.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	16.5	15.5	28.5	986.5	9.5	1.5	29.0	16.5
Merged-chr2-113447486-3	chr2	113447375	113447575	+	851.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	intron (NM_001285459, intron 2 of 16)	6411.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	14.0	10.5	20.5	413.0	10.0	2.5	7.5	10.0
Merged-chr17-29264119-4	chr17	29263997	29264197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026845)	promoter-TSS (NM_026845)	-126.0	NM_026845	68816.0	Mm.328928	NM_026845	ENSMUSG00000024007	Ppil1	1110060O10Rik|AI327391|Cypl1	peptidylprolyl isomerase (cyclophilin)-like 1	protein-coding	25.0	58.0	36.5	359.0	62.5	25.0	23.5	32.5
Merged-chr17-83274108-6	chr17	83273875	83274075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58692.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	11.0	38.0	36.5	292.0	40.0	14.0	13.0	22.0
Merged-chr11-77801437-4	chr11	77801335	77801535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291214, intron 1 of 38)	intron (NM_001291214, intron 1 of 38)	137.0	NM_001291215	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	55.5	98.5	70.5	847.0	126.5	37.0	35.0	40.5
Merged-chr5-105616818-4	chr5	105616703	105616903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83166.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	62.5	69.0	34.5	747.0	152.5	45.0	92.5	41.5
Merged-chr13-3610134-4	chr13	3610045	3610245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360838, intron 1 of 19)	intron (NM_001360838, intron 1 of 19)	963.0	NM_134063	105203.0	Mm.221609	NM_134063	ENSMUSG00000033799	Fam208b	AI645998|Pap20|mKIAA2006	family with sequence similarity 208, member B	protein-coding	36.5	50.5	26.0	394.5	88.0	37.0	30.0	51.5
Merged-chr11-59525442-4	chr11	59525340	59525540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16129.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	43.5	66.5	19.5	356.0	157.5	43.0	48.5	52.0
Merged-chr10-67127198-4	chr10	67127084	67127284	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207221)	promoter-TSS (NM_207221)	-74.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	20.5	13.5	34.0	171.0	31.0	12.0	17.0	13.0
Merged-chr11-100938836-3	chr11	100938731	100938931	+	888.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213660, intron 1 of 23)	intron (NM_213660, intron 1 of 23)	709.0	NM_213660	20848.0	Mm.249934	NM_011486	ENSMUSG00000004040	Stat3	1110034C02Rik|AW109958|Aprf	signal transducer and activator of transcription 3	protein-coding	9.5	15.0	7.0	85.0	46.0	19.0	13.0	24.0
Merged-chr15-99026426-4	chr15	99026343	99026543	+	955.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3448.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	22.0	38.0	25.5	156.0	52.0	15.5	18.5	14.5
Merged-chr1-165683536-4	chr1	165683439	165683639	+	765.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	B3A|SINE|B2	24555.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	8.5	22.5	5.5	91.0	32.0	12.0	10.0	4.0
Merged-chr10-69351339-4	chr10	69351234	69351434	+	742.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007659, intron 1 of 7)	MTC|LTR|ERVL-MaLR	1578.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	15.0	7.5	14.0	210.5	24.0	10.0	11.5	14.0
Merged-chr13-64344324-3	chr13	64344229	64344429	+	732.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26191.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	7.0	8.5	10.5	159.5	4.0	12.0	10.5	8.5
Merged-chr15-103271465-2	chr15	103271365	103271565	+	562.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1423.0	NM_019817	56447.0	Mm.29473	NM_019817	ENSMUSG00000060992	Copz1	5930435A22Rik|AA407760|D4Ertd360e	coatomer protein complex, subunit zeta 1	protein-coding	2.5	1.5	2.0	38.5	7.0	5.5	5.5	5.0
Merged-chr18-35022469-4	chr18	35022366	35022566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68115.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	35.0	30.0	33.5	299.0	47.0	20.5	29.5	39.0
Merged-chr16-30790233-4	chr16	30790137	30790337	+	959.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	190514.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	15.5	27.5	43.0	411.0	34.5	21.0	38.0	11.5
Merged-chr9-41069119-2	chr9	41069020	41069220	+	885.75	f0_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	10386.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	9.5	24.5	15.0	178.5	4.0	2.0	6.5	7.5
Merged-chr3-53483887-4	chr3	53483778	53483978	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-4915.0	NM_153156	229277.0	Mm.222810	NM_153156	ENSMUSG00000027744	Stoml3	Epb7.2l|SLP3|sro	stomatin (Epb7.2)-like 3	protein-coding	15.5	23.5	19.5	239.0	46.0	18.0	23.5	16.5
Merged-chr2-157108414-4	chr2	157108321	157108521	+	892.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139520, intron 11 of 16)	BGLII_A|LTR|ERVK	21366.0	NM_001177439	383766.0	Mm.480305	NM_001177439	ENSMUSG00000074628	Tldc2	Gm1332	TBC/LysM associated domain containing 2	protein-coding	14.0	12.5	9.5	160.0	30.0	5.5	14.0	21.5
Merged-chr4-15289124-4	chr4	15289025	15289225	+	820.391663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23305.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	5.0	22.0	9.0	74.0	36.0	16.0	12.5	4.5
Merged-chr16-38789174-4	chr16	38789068	38789268	+	852.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178924, intron 1 of 7)	intron (NM_178924, intron 1 of 7)	11035.0	NM_178924	22268.0	Mm.130793	NM_178924	ENSMUSG00000049436	Upk1b	AI413235|Tspan20|UPIb|Upk1	uroplakin 1B	protein-coding	9.0	11.0	8.0	86.5	11.0	7.0	11.0	4.0
Merged-chr11-55458818-3	chr11	55458739	55458939	+	868.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 1 of 3)	intron (NM_009720, intron 1 of 3)	2369.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	10.0	13.5	5.5	90.0	13.0	8.5	3.5	7.5
Merged-chr19-5818112-4	chr19	5818008	5818208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15436.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	138.0	207.0	86.0	1546.5	278.0	102.0	111.0	106.5
Merged-chr4-142077584-4	chr4	142077470	142077670	+	911.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-6728.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	12.5	28.0	12.0	154.5	47.0	11.0	14.5	6.0
Merged-chr15-81523415-4	chr15	81523324	81523524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57108.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	65.5	65.0	47.0	566.5	104.5	50.5	55.0	48.0
Merged-chr6-54737872-3	chr6	54737779	54737979	+	738.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56255.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	10.0	19.5	7.0	129.0	17.5	7.5	7.0	5.5
Merged-chr19-8871520-4	chr19	8871412	8871612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362044)	promoter-TSS (NM_001362044)	-36.0	NM_146093	225896.0	Mm.27839	NM_146093	ENSMUSG00000071655	Ubxn1	2B28|4930455J02Rik|D19Ertd721e|T25529|mY33K	UBX domain protein 1	protein-coding	117.5	184.0	91.5	1542.5	290.0	118.5	107.5	120.0
Merged-chr6-115676602-4	chr6	115676490	115676690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356334)	promoter-TSS (NM_001356334)	45.0	NM_001356333	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	136.0	226.0	124.0	1483.5	380.5	142.5	195.0	138.0
Merged-chr9-100400559-4	chr9	100400473	100400673	+	975.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85900.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	35.5	17.0	24.5	302.5	83.0	22.0	18.5	34.0
Merged-chr3-96262382-4	chr3	96262299	96262499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033596)	TTS (NM_033596)	918.0	NM_033596	97122.0	Mm.227295	NM_033596	ENSMUSG00000091405	Hist2h4	H4|X04652	histone cluster 2, H4	protein-coding	46.0	59.0	44.5	753.5	131.0	30.5	97.0	68.5
Merged-chr11-105589511-4	chr11	105589431	105589631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181071)	promoter-TSS (NM_181071)	-455.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	68.0	93.5	50.5	609.0	160.0	70.5	51.5	60.0
Merged-chr7-68130104-4	chr7	68130001	68130201	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	134132.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	34.0	52.5	12.5	561.0	50.0	22.5	35.0	34.5
Merged-chr11-117969236-4	chr11	117969126	117969326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007707, exon 1 of 2)	5' UTR (NM_007707, exon 1 of 2)	140.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	121.5	214.0	61.0	900.5	288.5	122.5	83.0	68.5
Merged-chr11-77606980-4	chr11	77606877	77607077	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144825, intron 1 of 19)	intron (NM_144825, intron 1 of 19)	838.0	NM_144825	216965.0	Mm.340436	NM_144825	ENSMUSG00000017291	Taok1	2810468K05Rik|AU020252|D130018F14Rik|Map3k16|Markk|Psk2|mKIAA1361	TAO kinase 1	protein-coding	15.0	55.5	19.0	190.0	66.5	23.0	23.5	14.5
Merged-chr19-15924594-3	chr19	15924497	15924697	+	971.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205339)	promoter-TSS (NM_001205339)	25.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	8.5	17.0	11.5	235.0	8.0	6.0	5.5	5.5
Merged-chr1-165618525-4	chr1	165618433	165618633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	16008.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	39.5	42.0	59.0	981.5	134.5	31.0	54.5	51.5
Merged-chr13-37778303-4	chr13	37778186	37778386	+	955.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-47752.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	15.0	27.5	25.5	350.5	27.5	20.0	14.5	26.5
Merged-chr2-38536054-4	chr2	38535974	38536174	+	946.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159631, intron 1 of 9)	MIR3|SINE|MIR	24198.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	20.0	28.0	10.5	249.0	35.0	9.5	23.0	23.5
Merged-chr2-92455908-4	chr2	92455758	92455958	+	893.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_211358, intron 1 of 1)	intron (NM_211358, intron 1 of 1)	3936.0	NM_211358	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	15.0	14.0	10.0	229.0	28.0	5.5	12.5	9.0
Merged-chr10-121034031-4	chr10	121033942	121034142	+	966.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011915)	promoter-TSS (NM_011915)	38.0	NM_011915	24117.0	Mm.32831	NM_011915	ENSMUSG00000020218	Wif1	AW107799|WIF-1	Wnt inhibitory factor 1	protein-coding	25.0	24.5	24.5	254.0	31.5	7.5	16.5	18.5
Merged-chr2-62646196-4	chr2	62646111	62646311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027835)	promoter-TSS (NM_027835)	44.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	93.0	252.5	67.0	1440.5	382.0	165.5	113.5	109.0
Merged-chr15-80088832-4	chr15	80088733	80088933	+	946.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2501.0	NM_009303	20972.0	Mm.230301	NM_009303	ENSMUSG00000022415	Syngr1	R75468|Syngr1b|p29	synaptogyrin 1	protein-coding	17.0	32.5	12.5	156.0	70.5	13.0	45.5	16.5
Merged-chr19-41071750-4	chr19	41071645	41071845	+	756.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153520, intron 2 of 5)	intron (NM_153520, intron 2 of 5)	5368.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	11.0	15.0	9.5	167.5	44.0	6.5	10.0	9.5
Merged-chr6-4983409-3	chr6	4983307	4983507	+	795.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	80087.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	6.0	6.5	13.5	109.0	20.5	2.5	4.5	1.0
Merged-chr13-17992104-3	chr13	17991986	17992186	+	649.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025904, intron 1 of 2)	intron (NM_025904, intron 1 of 2)	1265.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	11.5	7.5	7.0	96.5	9.5	9.0	5.0	4.5
Merged-chr10-78043555-4	chr10	78043448	78043648	+	674.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271549)	promoter-TSS (NM_001271549)	62.0	NM_001271552	11634.0	Mm.35300	NM_009646	ENSMUSG00000000731	Aire	-	autoimmune regulator (autoimmune polyendocrinopathy candidiasis ectodermal dystrophy)	protein-coding	6.5	11.5	3.5	106.0	40.5	9.5	10.0	11.5
Merged-chr8-35709164-2	chr8	35709016	35709216	+	612.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	117443.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	0.0	0.0	0.0	20.0	24.0	9.0	4.5	6.0
Merged-chr17-42911768-3	chr17	42911682	42911882	+	869.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35358.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	10.0	7.5	4.0	118.5	28.0	7.0	5.5	6.0
Merged-chr3-89350054-4	chr3	89349966	89350166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009614)	promoter-TSS (NM_009614)	-38.0	NM_009614	11490.0	Mm.274049	NM_009614	ENSMUSG00000028041	Adam15	AD56|MDC15	a disintegrin and metallopeptidase domain 15 (metargidin)	protein-coding	73.5	84.0	54.0	678.0	108.5	40.5	56.5	51.5
Merged-chr5-32726342-2	chr5	32726228	32726428	+	784.916687	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	20014.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	9.0	18.0	19.5	81.0	1.0	0.5	0.0	1.5
Merged-chr17-7868832-4	chr17	7868736	7868936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57164.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	35.0	53.5	21.0	595.5	91.0	39.0	46.0	26.5
Merged-chr2-181497710-4	chr2	181497563	181497763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111899, intron 1 of 5)	intron (NR_111899, intron 1 of 5)	521.0	NM_001291204	66314.0	Mm.136648	NM_025482	ENSMUSG00000000827	Tpd52l2	2810411G23Rik|AU016537|C86069|D54	tumor protein D52-like 2	protein-coding	27.5	46.0	43.5	371.0	49.0	10.0	29.5	16.0
Merged-chr4-130816114-4	chr4	130816015	130816215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	23578.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	28.0	23.5	33.0	396.0	54.5	23.5	33.5	29.0
Merged-chr3-145938827-2	chr3	145938727	145938927	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_151446, intron 2 of 3)	intron (NR_151446, intron 2 of 3)	813.0	NR_151446	66421.0	Mm.25137	NM_025555	ENSMUSG00000036873	2410004B18Rik	4930572C24Rik	RIKEN cDNA 2410004B18 gene	protein-coding	11.0	5.5	14.5	84.5	13.0	6.5	10.0	7.5
Merged-chr4-135946433-4	chr4	135946342	135946542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008254)	promoter-TSS (NM_008254)	-6.0	NM_008254	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	63.5	122.5	65.0	974.0	209.5	76.5	82.5	88.0
Merged-chr15-59439095-2	chr15	59438995	59439195	+	659.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 3 of 4)	MTC|LTR|ERVL-MaLR	64897.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	12.0	7.5	5.0	78.5	7.5	4.5	8.0	2.5
Merged-chr10-67998201-3	chr10	67998117	67998317	+	919.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359319, intron 3 of 11)	intron (NM_001359319, intron 3 of 11)	18647.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	19.0	15.5	8.5	162.0	34.0	4.5	7.0	4.5
Merged-chr5-136083883-4	chr5	136083760	136083960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133914)	promoter-TSS (NM_133914)	-56.0	NM_133914	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	173.5	226.5	147.5	2247.5	416.0	160.5	186.0	151.5
Merged-chr4-131921689-3	chr4	131921598	131921798	+	913.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201367)	promoter-TSS (NM_001201367)	-73.0	NM_001201367	623230.0	Mm.421179	NM_001201367	ENSMUSG00000070720	Tmem200b	EG623230	transmembrane protein 200B	protein-coding	8.5	29.5	16.5	129.0	30.0	4.0	3.0	8.5
Merged-chr12-111429197-3	chr12	111429114	111429314	+	898.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 12 of 13)	intron (NM_001289487, intron 12 of 13)	11769.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	7.0	8.0	7.5	40.0	25.0	15.0	6.5	13.5
Merged-chr13-89892316-3	chr13	89892227	89892427	+	887.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 7 of 7)	L1_Mur2|LINE|L1	-149815.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	12.5	9.5	24.5	269.0	22.5	14.0	8.0	6.0
Merged-chr10-68238944-4	chr10	68238833	68239033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	39793.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	57.5	71.5	37.0	656.0	171.0	57.5	64.5	51.5
Merged-chr2-127889619-4	chr2	127889496	127889696	+	841.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 8 of 17)	intron (NM_028765, intron 8 of 17)	34968.0	NM_028765	74121.0	Mm.244835	NM_028765	ENSMUSG00000027380	Acoxl	1200014P05Rik|AV025673	acyl-Coenzyme A oxidase-like	protein-coding	12.0	18.0	12.0	155.5	15.5	13.5	15.0	13.0
Merged-chr3-51629212-1	chr3	51629112	51629312	+	598.0	f0_balb.idr	Intergenic	Intergenic	-31967.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	8.0	9.0	8.0	112.5	3.0	4.5	3.5	4.0
Merged-chr12-80937893-3	chr12	80937788	80937988	+	760.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	7511.0	NR_045057	100504661.0	Mm.442322	NR_045057	ENSMUSG00000112880	Gm20337	-	predicted gene, 20337	ncRNA	7.5	2.0	3.0	113.5	20.5	6.5	5.0	7.0
Merged-chr4-34457365-3	chr4	34457244	34457444	+	917.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93271.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	4.5	10.5	13.0	137.5	14.5	5.0	5.0	6.5
Merged-chr5-140663136-6	chr5	140663053	140663253	+	786.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028833)	TTS (NM_028833)	-14122.0	NM_175274	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	6.5	10.0	18.0	108.0	33.0	9.0	8.0	19.5
Merged-chr6-48473774-2	chr6	48473674	48473874	+	577.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_173428, exon 51 of 103)	exon (NM_173428, exon 51 of 103)	25545.0	NM_173428	243369.0	Mm.25039	NM_173428	ENSMUSG00000029797	Sspo	C79529|Scospondin	SCO-spondin	protein-coding	6.0	5.5	0.0	57.0	13.5	4.5	6.0	7.5
Merged-chr2-166030388-4	chr2	166030268	166030468	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	37731.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	12.0	25.5	17.5	340.5	70.5	31.0	34.0	28.0
Merged-chr5-33033386-4	chr5	33033303	33033503	+	881.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14587.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	2.5	27.0	13.5	214.0	15.5	22.0	13.5	18.0
Merged-chr5-149031393-4	chr5	149031290	149031490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	20226.0	NM_001313894	15289.0	Mm.207047	NM_010439	ENSMUSG00000066551	Hmgb1	HMG-1|Hmg1|SBP-1|p30	high mobility group box 1	protein-coding	89.5	64.0	83.0	1124.5	140.5	58.0	92.0	41.5
Merged-chr4-105265248-4	chr4	105265154	105265354	+	868.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	107907.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	3.5	11.5	12.5	123.0	23.5	11.5	16.5	14.5
Merged-chr1-172162207-2	chr1	172162107	172162307	+	726.333374	f1_balb.idr|f1_c57bl6.idr	intron (NR_151641, intron 2 of 13)	B3|SINE|B2	14192.0	NM_001357204	98193.0	Mm.159915	NM_153555	ENSMUSG00000026554	Dcaf8	AA408877|AA433120|AA792214|AU018973|C76055|D1Dau35e|D1Ucla4|H326|Wdr42a	DDB1 and CUL4 associated factor 8	protein-coding	1.5	6.0	2.0	77.5	4.5	5.5	6.0	7.5
Merged-chr8-18899273-4	chr8	18899151	18899351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51620.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	45.0	44.5	59.0	702.0	61.5	24.5	38.0	33.0
Merged-chr7-105400192-4	chr7	105400083	105400283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242363)	promoter-TSS (NM_001242363)	-129.0	NM_001242363	74349.0	Mm.30254	NM_199009	ENSMUSG00000044465	Fam160a2	4632419K20Rik|6530415H11Rik|FHIP	family with sequence similarity 160, member A2	protein-coding	390.0	611.0	527.0	6326.0	943.5	398.5	488.5	391.0
Merged-chr13-67128218-4	chr13	67128125	67128325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172392)	promoter-TSS (NM_172392)	-3.0	NM_172392	268670.0	Mm.56274	NM_172392	ENSMUSG00000057396	Zfp759	BC028265|Rslcan-8|Rslcan8	zinc finger protein 759	protein-coding	65.0	62.0	53.0	601.5	173.0	77.5	81.0	67.5
Merged-chr8-95000800-4	chr8	95000699	95000899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018882, intron 1 of 13)	intron (NM_018882, intron 1 of 13)	16400.0	NM_018882	14766.0	Mm.290834	NM_018882	ENSMUSG00000031785	Adgrg1	Cyt28|Gpr56|TM7LN4|TM7XN1	adhesion G protein-coupled receptor G1	protein-coding	47.0	44.0	26.0	375.0	90.0	42.0	41.0	45.0
Merged-chr6-6580658-2	chr6	6580565	6580765	+	694.5	f0_balb.idr|f1_balb.idr	Intergenic	Lx8|LINE|L1	-2007.0	NM_009169	20422.0	Mm.2469	NM_009169	ENSMUSG00000042541	Sem1	DSS1|Shfdg1|Shfg|Shfm1	SEM1, 26S proteasome complex subunit	protein-coding	7.5	6.5	10.5	103.0	0.0	1.0	0.0	3.5
Merged-chr10-78018992-3	chr10	78018882	78019082	+	918.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9175.0	NM_001358793	18641.0	Mm.269649	NM_008826	ENSMUSG00000020277	Pfkl	AA407869|ATP-PFK|PFK-B|PFK-L	phosphofructokinase, liver, B-type	protein-coding	7.5	11.5	15.0	168.0	12.5	5.5	6.0	8.0
Merged-chr7-97977614-3	chr7	97977505	97977705	+	718.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177696, intron 10 of 17)	intron (NM_177696, intron 10 of 17)	57647.0	NM_177696	233537.0	Mm.375772	NM_177696	ENSMUSG00000035582	Gdpd4	4921513O04	glycerophosphodiester phosphodiesterase domain containing 4	protein-coding	3.0	8.5	2.0	82.0	11.5	6.0	14.5	11.5
Merged-chr5-117319190-4	chr5	117319094	117319294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033311)	promoter-TSS (NM_001033311)	-72.0	NM_001033311	231668.0	Mm.298603	NM_001033311	ENSMUSG00000066894	Vsig10	-	V-set and immunoglobulin domain containing 10	protein-coding	30.5	40.0	29.0	355.5	44.0	19.5	27.0	22.0
Merged-chr17-23673644-4	chr17	23673563	23673763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181821)	promoter-TSS (NM_181821)	55.0	NM_181821	353502.0	Mm.359030	NM_181821	ENSMUSG00000023904	Hcfc1r1	HPIP	host cell factor C1 regulator 1 (XPO1-dependent)	protein-coding	64.0	61.0	94.0	829.0	112.0	54.5	64.0	69.0
Merged-chr10-80597290-4	chr10	80597184	80597384	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-5596.0	NM_001100606	100113398.0	Mm.273170	NM_001100606	ENSMUSG00000113640	Adat3	A430024H01Rik	adenosine deaminase, tRNA-specific 3	protein-coding	19.0	29.0	30.0	496.5	96.5	13.0	26.5	33.5
Merged-chr7-19303331-6	chr7	19303223	19303423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008036, exon 4 of 4)	3' UTR (NM_008036, exon 4 of 4)	6722.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	24.0	42.5	2.5	27.0	49.5	22.0	5.5	5.5
Merged-chr16-90043085-4	chr16	90042960	90043160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68361.0	NM_001145886	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	95.0	91.0	63.0	1339.0	179.5	59.0	69.5	78.0
Merged-chr9-78493436-4	chr9	78493345	78493545	+	776.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11721.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	12.5	8.5	11.0	121.5	23.0	3.5	5.0	9.0
Merged-chr5-24039036-4	chr5	24038940	24039140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8350.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	35.0	46.0	29.0	543.0	80.5	18.5	25.5	27.0
Merged-chr2-50669468-4	chr2	50669378	50669578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-240206.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	48.5	100.5	90.0	946.0	180.5	76.0	64.0	51.5
Merged-chr3-105894066-3	chr3	105893956	105894156	+	914.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-10365.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	7.5	8.5	15.5	195.0	15.5	9.0	8.0	13.5
Merged-chr17-84194471-1	chr17	84194371	84194571	+	660.0	f0_balb.idr	intron (NM_183021, intron 36 of 37)	intron (NM_183021, intron 36 of 37)	-6524.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	5.0	4.5	8.0	94.0	5.5	2.5	0.5	4.0
Merged-chr9-111562794-4	chr9	111562705	111562905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016853, intron 10 of 10)	intron (NM_016853, intron 10 of 10)	123724.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	19.0	33.0	27.5	390.5	104.5	34.5	41.0	37.0
Merged-chr10-122562171-4	chr10	122562089	122562289	+	775.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7702.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	10.0	12.5	18.0	220.5	21.0	7.5	18.0	12.0
Merged-chr5-116031346-3	chr5	116031237	116031437	+	605.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6909.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	6.0	19.0	5.5	84.0	12.5	5.0	2.5	12.0
Merged-chr11-21369715-3	chr11	21369609	21369809	+	951.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290634, intron 1 of 9)	intron (NM_001290634, intron 1 of 9)	920.0	NM_139297	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	13.0	23.5	16.5	244.0	9.0	10.0	5.0	6.5
Merged-chr9-44169323-4	chr9	44169213	44169413	+	913.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 3 of 15)	intron (NM_007619, intron 3 of 15)	34655.0	NM_001359530	84004.0	Mm.275003	NM_023061	ENSMUSG00000032135	Mcam	1-gicerin|AV025631|CD146|CD149|Muc18|s-endo|s-gicerin	melanoma cell adhesion molecule	protein-coding	14.0	25.5	14.5	399.0	60.0	14.5	6.5	19.5
Merged-chr5-96993354-4	chr5	96993219	96993419	+	887.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4370.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	17.5	20.5	12.0	200.0	25.5	13.0	11.0	3.0
Merged-chr5-75933624-4	chr5	75933517	75933717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010612, exon 30 of 30)	3' UTR (NM_010612, exon 30 of 30)	44811.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	106.0	182.0	124.0	2297.5	157.5	64.5	87.5	107.0
Merged-chr3-144569757-3	chr3	144569611	144569811	+	949.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053102)	promoter-TSS (NM_053102)	505.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	5.0	20.5	17.0	251.5	30.5	6.0	12.5	19.5
Merged-chr9-56079797-4	chr9	56079696	56079896	+	877.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10180.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	9.0	10.5	14.5	165.5	17.5	4.0	15.0	12.5
Merged-chr3-9828749-4	chr3	9828654	9828854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	4925.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	48.5	53.0	64.5	933.0	87.0	20.0	49.5	57.0
Merged-chr13-73425984-4	chr13	73425858	73426058	+	821.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41425.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	7.0	8.0	13.5	108.0	24.5	7.0	7.0	4.0
Merged-chr15-51692920-3	chr15	51692821	51693021	+	990.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	172540.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	27.0	19.0	42.0	470.5	14.5	9.0	13.5	36.0
Merged-chr4-149340910-4	chr4	149340821	149341021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022022, intron 22 of 26)	intron (NM_022022, intron 22 of 26)	6282.0	NR_131918	74310.0	Mm.440455	NR_131918	ENSMUSG00000085286	Ube4bos3	1700121F15Rik	ubiquitination factor E4B, opposite strand 3	ncRNA	40.0	51.0	47.5	691.0	62.5	22.5	31.0	30.5
Merged-chr5-90904944-7	chr5	90904791	90904991	+	987.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009140, intron 3 of 3)	intron (NM_009140, intron 3 of 3)	992.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	17.0	72.5	19.0	38.5	143.5	48.0	18.0	8.5
Merged-chr12-101029242-7	chr12	101029136	101029336	+	997.6493529999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362342)	promoter-TSS (NM_001362342)	-345.0	NM_026681	68339.0	Mm.156217	NM_026681	ENSMUSG00000021182	Ccdc88c	0610010D24Rik|AV000935|AW324073|Daple|mKIAA1509	coiled-coil domain containing 88C	protein-coding	9.5	14.5	18.5	194.5	44.0	12.5	12.5	21.5
Merged-chr6-115015656-4	chr6	115015542	115015742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026894, intron 5 of 7)	intron (NM_026894, intron 5 of 7)	22232.0	NM_026894	68971.0	Mm.24937	NM_026894	ENSMUSG00000030316	Tamm41	1500001M20Rik|TAM41	TAM41 mitochondrial translocator assembly and maintenance homolog	protein-coding	44.0	99.0	78.0	1022.0	151.0	57.5	87.5	62.5
Merged-chr10-81168997-4	chr10	81168885	81169085	+	912.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1265.0	NM_021501	59004.0	Mm.34428	NM_021501	ENSMUSG00000004934	Pias4	PIASY|Pias-gamma|Piasg	protein inhibitor of activated STAT 4	protein-coding	17.5	23.5	15.0	277.0	53.0	11.0	18.5	5.0
Merged-chr13-74770667-4	chr13	74770567	74770767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301156)	promoter-TSS (NM_001301156)	69.0	NM_001301156	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	120.5	166.0	74.0	2227.0	305.5	101.5	169.0	123.0
Merged-chr3-37340149-4	chr3	37340065	37340265	+	824.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-8488.0	NM_008006	14173.0	Mm.473689	NM_008006	ENSMUSG00000037225	Fgf2	Fgf-2|Fgfb|bFGF	fibroblast growth factor 2	protein-coding	10.0	12.5	17.5	203.0	13.0	10.5	14.0	14.5
Merged-chr13-119791430-2	chr13	119791341	119791541	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_028245)	promoter-TSS (NM_028245)	-319.0	NM_001302550	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	38.5	40.0	35.5	460.5	79.0	32.5	26.0	33.0
Merged-chr16-49819702-3	chr16	49819619	49819819	+	607.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	-35935.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	9.5	7.0	5.0	99.5	14.0	6.5	7.0	2.5
Merged-chr17-81708701-2	chr17	81708601	81708801	+	715.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	29686.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	2.0	2.5	6.0	141.5	10.0	4.5	6.0	6.0
Merged-chr10-99602460-4	chr10	99602336	99602536	+	651.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6735.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	0.0	4.5	3.5	35.5	14.5	8.0	6.5	9.5
Merged-chr7-45150521-4	chr7	45150415	45150615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145954, intron 1 of 16)	intron (NM_145954, intron 1 of 16)	-3788.0	NM_029406	68845.0	Mm.181689	NM_029406	ENSMUSG00000003423	Pih1d1	1110061L23Rik|4933413A04Rik|Nop17	PIH1 domain containing 1	protein-coding	30.0	41.5	26.5	516.0	62.0	28.5	27.0	29.0
Merged-chr5-134639472-4	chr5	134639394	134639594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312867)	promoter-TSS (NM_001312867)	-85.0	NM_033561	22384.0	Mm.27955	NM_033561	ENSMUSG00000040731	Eif4h	AU018978|D5Ertd355e|E430026L18Rik|Ef4h|Wbscr1|Wscr1|eIF-4H	eukaryotic translation initiation factor 4H	protein-coding	112.0	197.0	79.0	1255.0	234.5	109.5	138.5	90.0
Merged-chr16-87455122-5	chr16	87455064	87455264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024258, intron 1 of 17)	CpG	179.0	NM_024258	74112.0	Mm.152941	NM_024258	ENSMUSG00000025616	Usp16	1200004E02Rik|2810483I07Rik|6330514E22Rik|UBPM	ubiquitin specific peptidase 16	protein-coding	47.5	113.0	93.0	1015.0	121.5	65.5	74.5	80.5
Merged-chr11-96400068-4	chr11	96399906	96400106	+	889.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34248.0	NM_008266	15407.0	Mm.890	NM_008266	ENSMUSG00000018973	Hoxb1	Hox-2.9	homeobox B1	protein-coding	6.0	25.5	25.5	142.5	7.5	7.5	8.5	7.0
Merged-chr5-72208679-4	chr5	72208572	72208772	+	930.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	5329.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	34.0	52.5	34.0	258.0	46.5	12.5	19.0	16.5
Merged-chr15-27718855-4	chr15	27718726	27718926	+	844.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A|LTR|ERVK	-37284.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	9.5	13.0	4.0	163.0	16.5	6.5	9.0	10.5
Merged-chr6-31453766-3	chr6	31453700	31453900	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 8 of 17)	RSINE1|SINE|B4	54972.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	6.0	4.5	18.5	168.0	8.5	5.5	10.0	4.5
Merged-chr12-98283295-4	chr12	98283192	98283392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1c|LTR|Gypsy	14657.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	76.5	86.5	52.0	899.5	113.0	64.0	72.0	41.5
Merged-chr3-84429514-1	chr3	84429414	84429614	+	682.333313	f0_balb.idr	Intergenic	Intergenic	-49593.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	20.0	10.5	8.5	137.5	3.5	1.5	0.0	3.0
Merged-chr15-98145658-4	chr15	98145556	98145756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170710)	promoter-TSS (NM_001170710)	46.0	NM_030121	78541.0	Mm.200766	NM_030121	ENSMUSG00000048175	Asb8	4930539L19Rik|AI788835|C430011H06Rik	ankyrin repeat and SOCS box-containing 8	protein-coding	55.0	39.5	24.0	389.5	120.0	29.0	49.0	30.0
Merged-chr9-44076908-4	chr9	44076795	44076995	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198092, intron 2 of 12)	intron (NM_198092, intron 2 of 12)	7466.0	NM_016808	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	12.5	20.0	11.5	169.5	30.5	4.5	20.5	22.0
Merged-chr1-181015679-4	chr1	181015560	181015760	+	935.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010145, intron 1 of 8)	intron (NM_010145, intron 1 of 8)	1909.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	17.5	16.5	34.5	252.5	32.0	11.5	21.0	24.5
Merged-chr12-75721159-4	chr12	75721057	75721257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030750, intron 2 of 2)	intron (NM_030750, intron 2 of 2)	14572.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	81.0	108.0	83.5	1456.0	134.0	23.5	36.5	24.0
Merged-chr1-171559012-4	chr1	171558895	171559095	+	960.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018729)	promoter-TSS (NM_018729)	-198.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	59.5	73.0	82.5	781.5	27.5	16.0	10.0	18.0
Merged-chr17-34121918-3	chr17	34121816	34122016	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010386)	promoter-TSS (NM_010386)	-169.0	NM_010238	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	19.0	43.5	13.0	182.0	58.5	22.5	17.5	29.5
Merged-chr6-86404252-4	chr6	86404152	86404352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011585)	promoter-TSS (NM_011585)	33.0	NM_001164078	21841.0	Mm.333219	NM_011585	ENSMUSG00000071337	Tia1	2310050N03Rik|AI256674|TIA-1|mTIA-1	cytotoxic granule-associated RNA binding protein 1	protein-coding	107.5	163.5	81.0	1381.5	251.0	99.5	131.5	95.5
Merged-chr10-43478077-4	chr10	43477976	43478176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1064.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	20.0	48.0	33.0	445.5	65.0	8.5	45.5	36.5
Merged-chr19-15537702-4	chr19	15537608	15537808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16D|LTR|ERVL	386914.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	211.0	243.5	223.0	2774.0	383.5	126.5	137.5	168.0
Merged-chr18-52750049-7	chr18	52749969	52750169	+	964.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17742.0	NM_026408	67847.0	Mm.292168	NM_026408	ENSMUSG00000024534	Sncaip	2810407O15Rik|4933427B05Rik|BB104594|SYPH1	synuclein, alpha interacting protein (synphilin)	protein-coding	11.5	20.5	11.5	226.5	30.0	11.5	16.5	10.5
Merged-chr1-153910072-3	chr1	153909931	153910131	+	811.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008131)	TTS (NM_008131)	10102.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	13.5	13.0	2.5	98.0	13.0	4.5	6.0	6.5
Merged-chr8-64726501-4	chr8	64726376	64726576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025436, intron 2 of 5)	intron (NM_025436, intron 2 of 5)	7102.0	NM_025436	66234.0	Mm.30119	NM_025436	ENSMUSG00000031604	Msmo1	1500001G16Rik|C78600|DESP4|ERG25|Sc4mol	methylsterol monoxygenase 1	protein-coding	37.0	44.5	51.5	523.5	37.0	29.0	28.5	22.5
Merged-chr1-165741841-4	chr1	165741730	165741930	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21928.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	10.0	50.5	33.0	186.5	62.0	17.0	20.5	29.0
Merged-chr2-23088642-4	chr2	23088516	23088716	+	832.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355638, intron 7 of 13)	intron (NM_001355638, intron 7 of 13)	19544.0	NM_001355638	74159.0	Mm.181973	NM_028793	ENSMUSG00000026781	Acbd5	1300014E15Rik	acyl-Coenzyme A binding domain containing 5	protein-coding	15.5	15.5	2.5	169.5	35.5	7.0	6.5	10.0
Merged-chr8-25980422-4	chr8	25980304	25980504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029037)	TTS (NM_029037)	-3660.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	123.0	212.5	102.0	1956.0	310.0	97.5	117.5	103.5
Merged-chr3-138531750-4	chr3	138531652	138531852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007917, intron 2 of 7)	intron (NM_007917, intron 2 of 7)	4484.0	NM_001313980	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	21.5	27.5	23.5	417.0	82.5	25.5	38.5	37.5
Merged-chr11-75141265-4	chr11	75141190	75141390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 14 of 18)	intron (NM_001002764, intron 14 of 18)	26862.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	81.0	179.5	139.5	1747.0	206.0	55.5	74.5	47.5
Merged-chr12-42181838-3	chr12	42181736	42181936	+	867.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-695779.0	NM_010733	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	11.0	23.5	12.5	367.0	14.0	0.0	6.5	3.0
Merged-chr6-31224659-3	chr6	31224555	31224755	+	971.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040260, intron 1 of 5)	L2c|LINE|L2	4304.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	12.5	18.0	4.0	270.0	16.5	14.0	10.0	8.5
Merged-chr7-63940483-3	chr7	63940373	63940573	+	820.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1558.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	3.5	5.0	1.0	51.0	47.5	28.0	10.5	14.5
Merged-chr1-172515573-4	chr1	172515486	172515686	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5544.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	18.5	22.0	14.5	282.5	52.0	20.5	21.0	20.5
Merged-chr1-171688603-2	chr1	171688503	171688703	+	919.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_007649, intron 1 of 3)	MER20|DNA|hAT-Charlie	6611.0	NM_001360767	12506.0	Mm.1738	NM_007649	ENSMUSG00000015355	Cd48	AI449234|AW610730|BCM1|BLAST|BLAST-1|BLAST1|Bcm-1|MEM-102|SLAMF2|Sgp-60	CD48 antigen	protein-coding	7.0	14.0	8.0	36.0	22.5	7.0	5.5	5.5
Merged-chr4-150488304-4	chr4	150488195	150488395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 7 of 22)	intron (NM_001085492, intron 7 of 22)	163879.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	120.5	208.0	174.5	2585.5	232.0	73.5	144.0	106.5
Merged-chr13-20784476-4	chr13	20784376	20784576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9637.0	NM_001281854	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	95.5	171.0	81.0	1277.0	206.5	64.5	75.5	87.0
Merged-chr18-65699327-4	chr18	65699224	65699424	+	986.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177028, intron 1 of 14)	intron (NM_177028, intron 1 of 14)	1056.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	23.0	33.5	27.5	555.0	76.0	17.0	24.0	42.5
Merged-chr18-62068186-4	chr18	62068095	62068295	+	777.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	111786.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	10.0	12.0	4.5	73.0	17.5	8.5	15.0	9.5
Merged-chr10-13961666-4	chr10	13961570	13961770	+	952.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-4405.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	9.5	25.5	12.0	231.5	69.5	27.5	29.5	30.5
Merged-chr4-122996336-3	chr4	122996175	122996375	+	741.1190190000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008506, exon 1 of 2)	5' UTR (NM_008506, exon 1 of 2)	344.0	NM_008506	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	5.5	1.5	5.5	18.5	13.5	8.5	6.0	5.0
Merged-chr10-69213124-4	chr10	69213027	69213227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331193)	promoter-TSS (NM_001331193)	-29.0	NM_001331193	320700.0	Mm.396529	NM_001331193	ENSMUSG00000090622	A930033H14Rik	-	RIKEN cDNA A930033H14 gene	protein-coding	135.0	148.0	96.5	1625.5	221.0	89.5	131.0	99.5
Merged-chr11-116490422-5	chr11	116490301	116490501	+	974.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026364)	promoter-TSS (NM_026364)	-55.0	NM_026364	67763.0	Mm.25125	NM_026364	ENSMUSG00000015869	Prpsap1	5730409F23Rik|PAP39	phosphoribosyl pyrophosphate synthetase-associated protein 1	protein-coding	24.0	58.0	23.5	354.5	47.5	36.0	27.5	29.5
Merged-chr10-44458743-4	chr10	44458648	44458848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007548)	promoter-TSS (NM_007548)	0.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	70.0	106.5	72.0	831.0	141.0	49.5	69.5	38.5
Merged-chr17-47924538-4	chr17	47924333	47924533	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001110824, exon 1 of 17)	5' UTR (NM_001110824, exon 1 of 17)	199.0	NM_028767	74123.0	Mm.240062	NM_028767	ENSMUSG00000023991	Foxp4	1200010K03Rik|2310007G05Rik|mFKHLA	forkhead box P4	protein-coding	7.0	19.5	19.5	136.5	33.5	15.5	0.5	13.0
Merged-chr1-149937989-4	chr1	149937919	149938119	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	MTD|LTR|ERVL-MaLR	-15580.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	19.5	30.5	29.5	390.5	64.0	23.5	20.0	17.0
Merged-chr19-45032044-3	chr19	45031949	45032149	+	881.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195265, intron 10 of 15)	intron (NM_001195265, intron 10 of 15)	13723.0	NM_001195265	100503041.0	Mm.329877	NM_177605	ENSMUSG00000074818	Pdzd7	9130207N01|EG435601|Pdzk7	PDZ domain containing 7	protein-coding	9.0	9.0	9.5	97.0	24.0	3.0	5.0	10.5
Merged-chr4-123941101-4	chr4	123941002	123941202	+	819.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23669.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	5.0	18.5	8.0	63.5	37.0	12.5	14.0	19.5
Merged-chr6-72439567-4	chr6	72439434	72439634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145569)	promoter-TSS (NM_145569)	24.0	NM_145569	232087.0	Mm.29815	NM_145569	ENSMUSG00000053907	Mat2a	D630045P18Rik	methionine adenosyltransferase II, alpha	protein-coding	144.5	381.5	104.5	1249.5	469.0	174.0	136.5	112.0
Merged-chr15-103375901-2	chr15	103375801	103376001	+	970.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9110.0	NM_001314041	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	9.5	15.0	6.5	33.0	26.0	6.5	6.0	5.0
Merged-chr7-25632859-4	chr7	25632736	25632936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007533, intron 5 of 8)	MIRc|SINE|MIR	5212.0	NM_146184	232984.0	Mm.192369	NM_146184	ENSMUSG00000059479	B3gnt8	B3galt7|B7galt7|BC025206	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8	protein-coding	104.0	141.0	108.5	1423.5	89.0	46.0	36.5	35.5
Merged-chr17-13441119-5	chr17	13441121	13441321	+	917.55835	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-80235.0	NR_030763	272667.0	Mm.444718	NR_030763	ENSMUSG00000079711	Smok4a	4930513D10Rik|Smok2c	sperm motility kinase 4A	pseudo	16.0	23.5	35.0	84.0	5.0	2.5	5.5	1.5
Merged-chr10-117720057-4	chr10	117719965	117720165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9307.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	41.5	106.0	55.5	798.0	218.0	55.5	54.5	71.0
Merged-chr10-53597391-2	chr10	53597291	53597491	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025541, intron 1 of 3)	CpG	430.0	NM_025541	66403.0	Mm.272989	NM_025541	ENSMUSG00000019857	Asf1a	2310079C17Rik|C79052	anti-silencing function 1A histone chaperone	protein-coding	20.0	28.5	20.5	209.0	28.5	13.5	13.5	14.0
Merged-chr4-88706062-4	chr4	88705954	88706154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14786.0	NM_008336	15974.0	Mm.377093	NM_008336	ENSMUSG00000100079	Ifnab	-	interferon alpha B	protein-coding	54.5	41.5	49.0	1110.5	90.0	30.0	56.5	47.0
Merged-chr1-171614159-4	chr1	171614070	171614270	+	802.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6760.0	NM_001277968	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	15.0	14.0	2.5	121.0	25.5	6.5	10.0	13.5
Merged-chr8-80483433-1	chr8	80483333	80483533	+	741.0	f0_balb.idr	Intergenic	Intergenic	-10612.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	5.5	9.0	7.5	121.0	19.5	4.0	5.5	11.0
Merged-chr1-91456335-9	chr1	91456244	91456444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011066, intron 1 of 22)	intron (NM_011066, intron 1 of 22)	2984.0	NM_011066	18627.0	Mm.482463	NM_011066	ENSMUSG00000055866	Per2	mKIAA0347|mPer2	period circadian clock 2	protein-coding	71.5	68.5	90.0	1009.5	162.5	44.5	85.5	69.0
Merged-chr12-111437348-4	chr12	111437260	111437460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5301.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	71.0	107.0	106.0	1398.5	264.0	80.5	76.0	87.0
Merged-chr13-48872489-4	chr13	48872384	48872584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-1599.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	38.0	61.5	38.5	677.5	90.5	30.0	32.5	32.5
Merged-chr9-88481346-3	chr9	88481209	88481409	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284328, intron 1 of 11)	CpG	1088.0	NM_001311113	56403.0	Mm.260545	NM_019666	ENSMUSG00000032423	Syncrip	2610109K23Rik|4632417O19Rik|GRY-RBP|Nsap1|Nsap1l|hnRNP Q|pp68	synaptotagmin binding, cytoplasmic RNA interacting protein	protein-coding	12.0	20.5	10.0	187.0	41.0	16.0	15.0	18.5
Merged-chr11-62879367-4	chr11	62879245	62879445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356521)	promoter-TSS (NM_001356521)	-110.0	NM_001356520	67510.0	Mm.9806	NM_026210	ENSMUSG00000014177	Tvp23b	1810036I24Rik|Fam18b|Fam18b1	trans-golgi network vesicle protein 23B	protein-coding	133.0	224.5	96.5	1646.5	354.5	156.5	155.5	117.0
Merged-chr9-114648662-4	chr9	114648566	114648766	+	847.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8466.0	NM_153585	78893.0	Mm.283708	NM_153585	ENSMUSG00000056167	Cnot10	2600001P13Rik	CCR4-NOT transcription complex, subunit 10	protein-coding	5.5	11.5	9.5	107.5	51.0	21.0	9.0	23.5
Merged-chr1-14579606-4	chr1	14579533	14579733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176333.0	NM_001360810	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	56.0	87.5	61.5	838.0	166.5	61.0	83.5	57.0
Merged-chr11-70000551-4	chr11	70000431	70000631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007888)	promoter-TSS (NM_007888)	-95.0	NM_007888	13543.0	Mm.5114	NM_007888	ENSMUSG00000020888	Dvl2	-	dishevelled segment polarity protein 2	protein-coding	80.5	97.5	64.0	785.5	230.0	73.0	65.5	64.5
Merged-chr5-100040453-1	chr5	100040353	100040553	+	1000.0	f0_balb.idr	intron (NM_001163035, intron 1 of 6)	intron (NM_001163035, intron 1 of 6)	459.0	NR_027990	67870.0	Mm.11311	NM_026421	ENSMUSG00000029326	Enoph1	2310057D15Rik|BB183658|C81437	enolase-phosphatase 1	protein-coding	9.0	18.5	26.0	200.5	32.0	23.5	23.5	20.0
Merged-chr2-129515840-3	chr2	129515811	129516011	+	839.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	intron (NM_177653, intron 1 of 6)	20691.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	8.5	5.5	6.0	129.0	12.0	2.5	3.0	4.5
Merged-chr19-41264762-4	chr19	41264634	41264834	+	813.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133352)	promoter-TSS (NM_133352)	-730.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	10.5	7.0	7.5	109.5	30.5	9.0	10.5	10.5
Merged-chr4-151851380-4	chr4	151851306	151851506	+	790.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 1 of 23)	B4|SINE|B4	10362.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	13.5	15.0	9.5	62.5	18.0	9.0	11.5	15.0
Merged-chr1-88510024-4	chr1	88509919	88510119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008132)	promoter-TSS (NM_008132)	47.0	NM_008132	14659.0	Mm.5187	NM_008132	ENSMUSG00000062310	Glrp1	GRP-1	glutamine repeat protein 1	protein-coding	26.5	29.0	24.0	600.0	67.0	25.0	23.5	46.5
Merged-chr1-156458780-1	chr1	156458680	156458880	+	629.0	f0_balb.idr	intron (NM_009230, intron 2 of 15)	intron (NM_009230, intron 2 of 15)	15548.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	6.0	5.5	7.5	119.0	4.5	6.0	3.0	4.5
Merged-chr16-97444059-4	chr16	97443957	97444157	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18848.0	NM_010846	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	9.5	17.0	8.5	166.5	58.0	17.5	8.5	13.0
Merged-chr10-30710380-4	chr10	30710283	30710483	+	660.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 3 of 14)	intron (NM_001358842, intron 3 of 14)	-54516.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	8.0	4.5	7.0	78.0	27.5	8.5	12.5	7.5
Merged-chr4-94768841-3	chr4	94768741	94768941	+	973.544434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013690, intron 1 of 22)	ORR1E|LTR|ERVL-MaLR	29552.0	NM_001290551	21687.0	Mm.14313	NM_013690	ENSMUSG00000006386	Tek	AA517024|Cd202b|Hyk|STK1|Tie-2|Tie2	TEK receptor tyrosine kinase	protein-coding	13.5	14.0	25.5	699.0	5.5	5.5	4.0	7.5
Merged-chr1-191894583-4	chr1	191894467	191894667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030669, exon 5 of 5)	non-coding (NR_030669, exon 5 of 5)	-12214.0	NM_009579	22782.0	Mm.9024	NM_009579	ENSMUSG00000037434	Slc30a1	AI839647|C130040I11Rik|Znt1	solute carrier family 30 (zinc transporter), member 1	protein-coding	154.5	203.5	177.5	2653.0	301.0	87.5	155.5	133.5
Merged-chr10-7992797-4	chr10	7992687	7992887	+	939.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36664.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	30.0	79.0	18.0	358.0	61.5	13.0	15.0	9.0
Merged-chr7-46839027-4	chr7	46838900	46839100	+	965.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6804.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	21.5	27.5	16.0	240.0	26.5	12.0	17.0	21.5
Merged-chr1-85985925-4	chr1	85985826	85986026	+	935.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24871.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	12.0	26.5	15.0	192.0	94.0	24.0	34.0	16.5
Merged-chr7-80203182-4	chr7	80203092	80203292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	4751.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	39.0	42.0	83.0	1114.5	80.5	27.0	47.5	51.0
Merged-chr18-36491763-4	chr18	36491641	36491841	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24064.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	22.0	40.0	48.5	766.0	98.0	14.5	31.5	30.0
Merged-chr19-11118679-4	chr19	11118574	11118774	+	895.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 1 of 6)	intron (NM_027058, intron 1 of 6)	12204.0	NM_027058	69369.0	Mm.391200	NM_027058	ENSMUSG00000024729	1700017D01Rik	-	RIKEN cDNA 1700017D01 gene	protein-coding	41.5	30.0	42.5	331.5	31.0	14.0	2.5	9.5
Merged-chr15-75873824-4	chr15	75873727	75873927	+	918.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	11488.0	NM_026960	69146.0	Mm.27385	NM_026960	ENSMUSG00000022575	Gsdmd	1810036L03Rik|AW558049|DF5L|Dfna5l|Gsdmdc1|M2-4	gasdermin D	protein-coding	14.5	27.0	10.5	41.5	40.5	21.0	6.5	7.0
Merged-chr3-127949078-4	chr3	127948990	127949190	+	806.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040552, intron 4 of 4)	intron (NR_040552, intron 4 of 4)	32919.0	NR_040552	329753.0	Mm.119720	NR_040552	ENSMUSG00000104763	9830132P13Rik	9830132P13	RIKEN cDNA 9830132P13 gene	ncRNA	9.0	21.5	16.0	132.5	16.0	9.0	14.5	15.0
Merged-chr1-159198791-4	chr1	159198726	159198926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-33374.0	NM_001360878	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	36.5	85.5	53.5	568.0	54.5	50.0	41.5	29.0
Merged-chr9-85340488-4	chr9	85340367	85340567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13317.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	54.0	52.5	58.0	1078.0	74.5	21.0	44.5	43.5
Merged-chr15-8433607-6	chr15	8433570	8433770	+	859.952759	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 1 of 45)	intron (NM_201232, intron 1 of 45)	10793.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	6.0	8.0	13.5	50.5	14.5	3.0	1.5	10.0
Merged-chr9-60492427-4	chr9	60492315	60492515	+	977.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040426, intron 2 of 17)	CT-rich|Low_complexity|Low_complexity	18620.0	NM_001040426	207596.0	Mm.28791	NM_172444	ENSMUSG00000032289	Thsd4	ADAMTSL-6|ADAMTSL6|AI585901|Adamtsl4|B230114P05Rik	thrombospondin, type I, domain containing 4	protein-coding	28.0	39.5	15.5	337.5	61.0	20.0	15.0	23.0
Merged-chr11-75153383-4	chr11	75153273	75153473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 15 of 18)	intron (NM_001002764, intron 15 of 18)	14779.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	48.5	90.5	34.0	709.5	114.5	43.0	50.0	53.5
Merged-chr5-139408129-3	chr5	139408037	139408237	+	941.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177000, intron 1 of 1)	intron (NM_177000, intron 1 of 1)	1750.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	4.5	8.0	11.5	107.0	19.0	10.0	4.0	16.5
Merged-chr4-110351716-4	chr4	110351605	110351805	+	899.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163397, intron 1 of 5)	CpG	206.0	NM_001163397	15572.0	Mm.3970	NM_010488	ENSMUSG00000028546	Elavl4	Elav|Hud|PNEM	ELAV like RNA binding protein 4	protein-coding	7.5	17.0	16.5	208.0	4.5	5.0	4.0	11.5
Merged-chr8-26980085-4	chr8	26980013	26980213	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001101502, exon 2 of 2)	3' UTR (NM_001101502, exon 2 of 2)	2777.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	18.0	20.0	24.0	395.5	87.0	13.5	24.0	26.0
Merged-chr16-11346377-4	chr16	11346264	11346464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 1 of 20)	intron (NM_028964, intron 1 of 20)	23460.0	NM_028964	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	65.5	91.5	60.5	1367.5	114.5	44.5	55.0	59.0
Merged-chr13-19843581-3	chr13	19843489	19843689	+	954.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19332.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	21.5	29.5	12.5	277.5	49.0	7.0	10.0	3.0
Merged-chr10-96338257-4	chr10	96338145	96338345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112038.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	84.0	135.0	90.5	1464.5	192.0	84.0	131.5	102.5
Merged-chr4-136035268-4	chr4	136035193	136035393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-13644.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	52.5	84.5	39.5	832.5	144.0	42.0	43.5	51.0
Merged-chr16-75593936-4	chr16	75593792	75593992	+	908.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198302, intron 1 of 4)	intron (NM_198302, intron 1 of 4)	1001.0	NM_198302	224344.0	Mm.273214	NM_198302	ENSMUSG00000032940	Rbm11	A330018F01	RNA binding motif protein 11	protein-coding	1.5	9.0	12.5	187.0	28.0	11.5	11.0	6.0
Merged-chr8-27192410-3	chr8	27192308	27192508	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10139.0	NM_029674	76615.0	Mm.272794	NM_029674	ENSMUSG00000039720	Got1l1	1700083M11Rik	glutamic-oxaloacetic transaminase 1-like 1	protein-coding	6.0	15.0	3.0	89.0	22.0	6.0	9.5	4.5
Merged-chr19-25628643-3	chr19	25628570	25628770	+	800.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18133.0	NM_177360	240590.0	Mm.62785	NM_177360	ENSMUSG00000042372	Dmrt3	-	doublesex and mab-3 related transcription factor 3	protein-coding	6.0	13.0	4.0	122.0	21.0	6.0	7.5	11.5
Merged-chr8-121092824-2	chr8	121092724	121092924	+	864.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8438.0	NM_010426	15227.0	Mm.33897	NM_010426	ENSMUSG00000042812	Foxf1	AI450827|FREAC1|Foxf1a|Freac-1|HFH-8|Hfh8	forkhead box F1	protein-coding	9.0	10.0	10.5	68.0	10.0	7.0	7.0	8.0
Merged-chr8-57427369-1	chr8	57427269	57427469	+	546.0	f0_balb.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-28554.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	7.5	5.5	7.5	73.5	3.0	1.0	1.0	0.0
Merged-chr1-66818274-2	chr1	66818149	66818349	+	915.166626	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001122738)	promoter-TSS (NM_001122738)	-654.0	NM_001122738	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	11.0	28.0	16.5	208.0	74.0	12.5	18.0	24.0
Merged-chr1-86479291-4	chr1	86479196	86479396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47261.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	92.0	151.0	43.0	1576.0	234.0	77.5	96.5	92.5
Merged-chr13-100602413-4	chr13	100602316	100602516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038602, intron 3 of 6)	intron (NM_001038602, intron 3 of 6)	14528.0	NM_178410	218518.0	Mm.25300	NM_178410	ENSMUSG00000021636	Marveld2	BC003296|MARVD2|Mrvldc2|Tric|Trica|Tricb|Tricc	MARVEL (membrane-associating) domain containing 2	protein-coding	88.5	77.5	51.0	1153.5	141.0	51.0	71.5	66.5
Merged-chr3-26991223-4	chr3	26991114	26991314	+	967.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	162640.0	NM_007900	13605.0	Mm.261453	NM_007900	ENSMUSG00000027699	Ect2	AI528536	ect2 oncogene	protein-coding	12.0	32.5	42.0	601.0	83.0	17.5	46.5	35.0
Merged-chr7-118595389-4	chr7	118595294	118595494	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331204, intron 2 of 2)	intron (NM_001331204, intron 2 of 2)	-1903.0	NM_001105252	74424.0	Mm.11068	NM_028930	ENSMUSG00000030650	Tmc5	4932443L08Rik|AU016085	transmembrane channel-like gene family 5	protein-coding	14.5	28.5	20.5	514.0	114.5	30.0	24.5	39.5
Merged-chr7-129339419-4	chr7	129339312	129339512	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080963, intron 5 of 6)	intron (NM_001080963, intron 5 of 6)	82318.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	13.0	5.5	4.5	213.0	8.5	11.0	13.5	11.0
Merged-chr12-4038805-6	chr12	4038691	4038891	+	831.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001082483, exon 1 of 23)	5' UTR (NM_001082483, exon 1 of 23)	124.0	NM_001082483	668212.0	Mm.210266	NM_001082483	ENSMUSG00000020658	Efr3b	AI852640|C030014M07Rik|mKIAA0953	EFR3 homolog B	protein-coding	4.5	16.0	22.5	93.5	22.5	7.0	8.5	14.0
Merged-chr5-74126684-4	chr5	74126597	74126797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33167.0	NR_031758	100313943.0	Mm.46547	NR_031758	ENSMUSG00000093355	Snora26	MBI-6	small nucleolar RNA, H/ACA box 26	snoRNA	109.0	144.5	141.5	2360.5	93.0	73.0	80.5	75.0
Merged-chr7-80144022-4	chr7	80143933	80144133	+	830.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28683.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	15.5	20.5	12.5	247.5	24.0	8.5	16.0	16.0
Merged-chr12-40431748-3	chr12	40431636	40431836	+	803.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172575, intron 1 of 12)	RMER6B|LTR|ERVK	14054.0	NM_172575	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	2.5	10.0	5.5	138.5	8.5	5.5	8.0	6.5
Merged-chr15-89172682-4	chr15	89172595	89172795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	1256.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	23.5	46.0	36.5	396.0	52.0	19.5	30.0	26.5
Merged-chr1-180942402-4	chr1	180942276	180942476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144794)	promoter-TSS (NM_144794)	-142.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	39.5	51.0	34.5	623.0	87.5	32.5	52.5	36.0
Merged-chr5-64341127-4	chr5	64341020	64341220	+	837.345825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 17 of 18)	MLT2B3|LTR|ERVL	110763.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	8.0	10.0	14.5	94.5	18.0	18.0	10.0	14.5
Merged-chr7-101451171-4	chr7	101451032	101451232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001143849)	promoter-TSS (NM_001143849)	116.0	NR_152193	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	29.5	42.0	42.0	286.0	35.5	13.0	14.0	24.5
Merged-chr3-149103640-4	chr3	149103543	149103743	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-149008.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	27.5	31.0	29.5	434.0	5.5	2.5	15.0	15.0
Merged-chr13-107118339-4	chr13	107118248	107118448	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95778.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	22.0	26.0	18.5	415.5	55.0	8.0	32.5	15.0
Merged-chr15-57037339-4	chr15	57037253	57037453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227808.0	NM_001357930	210463.0	Mm.26555	NM_172378	ENSMUSG00000022366	Slc22a22	oat-pg	solute carrier family 22 (organic cation transporter), member 22	protein-coding	82.0	97.0	113.0	1514.0	96.5	31.5	26.5	20.0
Merged-chr4-155667193-3	chr4	155667098	155667298	+	796.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145124, intron 1 of 18)	intron (NM_145124, intron 1 of 18)	2056.0	NM_001256108	76580.0	Mm.235738	NM_145124	ENSMUSG00000029060	Mib2	2210008I11Rik|Zzank1|skd	mindbomb E3 ubiquitin protein ligase 2	protein-coding	4.0	4.0	0.0	44.5	28.0	13.5	12.5	14.0
Merged-chr8-31168341-1	chr8	31168241	31168441	+	1000.0	f1_balb.idr	intron (NM_026453, intron 1 of 9)	intron (NM_026453, intron 1 of 9)	383.0	NM_026453	67920.0	Mm.289818	NM_026453	ENSMUSG00000031578	Mak16	2600016B03Rik|AI314911|Rbm13	MAK16 homolog	protein-coding	9.0	8.0	9.5	111.0	17.0	8.0	8.0	11.0
Merged-chr1-52166889-3	chr1	52166775	52166975	+	768.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081081, intron 17 of 17)	intron (NM_001081081, intron 17 of 17)	47253.0	NM_001205313	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	10.5	11.5	14.5	93.5	4.0	2.0	9.0	3.5
Merged-chr11-102447660-3	chr11	102447533	102447733	+	984.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199200)	promoter-TSS (NM_199200)	30.0	NM_199200	217219.0	Mm.259924	NM_199200	ENSMUSG00000034685	Fam171a2	-	family with sequence similarity 171, member A2	protein-coding	17.0	25.5	11.5	294.5	61.0	9.5	9.5	7.0
Merged-chr12-8509875-4	chr12	8509776	8509976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9867.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	107.0	200.5	140.0	2194.0	282.0	117.5	165.0	144.0
Merged-chr17-6982547-3	chr17	6982432	6982632	+	893.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026611, intron 2 of 8).2	intron (NM_026611, intron 2 of 8).2	3672.0	NM_026611	68195.0	Mm.181237	NM_026611	ENSMUSG00000094724	Rnaset2b	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2B	protein-coding	3.0	14.0	6.0	24.0	39.5	6.5	11.5	18.0
Merged-chr8-69038526-4	chr8	69038413	69038613	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153054, exon 17 of 17)	3' UTR (NM_153054, exon 17 of 17)	-50223.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	18.5	25.5	8.5	240.0	59.0	24.5	44.5	25.0
Merged-chr7-101450090-4	chr7	101450010	101450210	+	839.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243758)	promoter-TSS (NM_001243758)	-410.0	NM_001243758	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	13.0	33.0	7.5	207.5	42.5	21.0	10.5	16.0
Merged-chr6-34878175-4	chr6	34878073	34878273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347101)	promoter-TSS (NM_001347101)	-108.0	NM_001135611	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	218.0	379.0	252.5	3770.0	501.5	219.0	272.5	202.0
Merged-chr8-105504809-1	chr8	105504709	105504909	+	671.166687	f0_balb.idr	Intergenic	Intergenic	-7907.0	NM_175160	70796.0	Mm.100917	NM_175160	ENSMUSG00000039199	Zdhhc1	4432412D04Rik|DHHC-1	zinc finger, DHHC domain containing 1	protein-coding	9.0	17.0	18.0	109.0	16.5	7.0	9.0	10.0
Merged-chr12-35996039-2	chr12	35995939	35996139	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011783, intron 3 of 7)	intron (NM_011783, intron 3 of 7)	3114.0	NM_011783	23795.0	Mm.7244	NM_011783	ENSMUSG00000020581	Agr2	Agr2h|Gob-4|HAG-2|XAG-2|mAG-2	anterior gradient 2	protein-coding	14.0	8.5	3.5	68.0	15.5	4.5	14.0	12.0
Merged-chr8-120109937-2	chr8	120109837	120110037	+	777.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4215.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	3.5	7.5	6.5	39.0	12.5	9.0	6.0	4.5
Merged-chr2-11300568-4	chr2	11300470	11300670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008859, exon 18 of 18)	3' UTR (NM_008859, exon 18 of 18)	-38919.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	54.5	66.0	62.5	880.5	92.0	39.5	48.0	46.5
Merged-chr19-4878621-4	chr19	4878535	4878735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013456)	promoter-TSS (NM_013456)	-33.0	NM_027476	70605.0	Mm.36885	NM_027476	ENSMUSG00000006463	Zdhhc24	5730496N17Rik|Leng4	zinc finger, DHHC domain containing 24	protein-coding	162.0	220.0	110.5	1451.0	295.5	124.0	114.0	112.5
Merged-chr18-34779453-4	chr18	34779364	34779564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081256, intron 1 of 23)	intron (NM_001081256, intron 1 of 23)	2456.0	NM_001081256	277250.0	Mm.277906	NM_029518	ENSMUSG00000038773	Kdm3b	5830462I21Rik|JHDM2B|Jmjd1b|mKIAA1082	KDM3B lysine (K)-specific demethylase 3B	protein-coding	23.5	58.0	27.5	529.0	99.0	49.5	53.0	43.0
Merged-chr9-48817503-4	chr9	48817404	48817604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 2 of 6)	intron (NM_001033324, intron 2 of 6)	18441.0	NM_001033324	235320.0	Mm.457803	NM_001033324	ENSMUSG00000066687	Zbtb16	AI467657|PLZF|Zfp145|lu	zinc finger and BTB domain containing 16	protein-coding	137.0	156.0	168.5	2451.5	252.5	110.0	131.5	115.0
Merged-chr16-4594556-6	chr16	4594492	4594692	+	815.777771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031184)	promoter-TSS (NM_031184)	-121.0	NM_031184	83396.0	Mm.134072	NM_031184	ENSMUSG00000014303	Glis2	Gli5|Klf16|Nkl	GLIS family zinc finger 2	protein-coding	7.5	26.0	8.5	134.5	22.5	12.5	5.5	14.5
Merged-chr4-103119791-3	chr4	103119695	103119895	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039081, intron 1 of 12)	CpG	405.0	NM_001039081	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	27.5	36.5	26.0	398.5	54.5	22.0	39.5	52.0
Merged-chr19-5989241-4	chr19	5989147	5989347	+	988.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007600, exon 22 of 22)	3' UTR (NM_007600, exon 22 of 22)	-3104.0	NM_198650	381203.0	Mm.329638	NM_198650	ENSMUSG00000037451	Slc22a20	Gm963|OAT1-L|mOAT6	solute carrier family 22 (organic anion transporter), member 20	protein-coding	39.0	33.0	33.5	528.0	54.0	19.0	8.5	14.0
Merged-chr2-79499491-4	chr2	79499398	79499598	+	838.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42862.0	NM_010894	18012.0	Mm.4636	NM_010894	ENSMUSG00000034701	Neurod1	BETA2|BHF-1|Nd1|Neurod|bHLHa3	neurogenic differentiation 1	protein-coding	13.0	20.5	10.5	285.0	23.0	11.5	16.5	19.5
Merged-chr8-37062879-2	chr8	37062779	37062979	+	956.416626	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38641.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	1.0	0.5	0.0	0.0	71.0	19.5	21.5	18.5
Merged-chr4-82321298-3	chr4	82321204	82321404	+	595.822266	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286127, intron 9 of 10)	intron (NM_001286127, intron 9 of 10)	184475.0	NM_001286127	18028.0	Mm.317947	NM_008687	ENSMUSG00000008575	Nfib	6720429L07Rik|CTF|E030026I10Rik|NF-I/B|NF1-B|NFI-B	nuclear factor I/B	protein-coding	12.5	12.0	13.0	107.5	3.0	2.5	0.0	5.0
Merged-chr5-145204441-4	chr5	145204322	145204522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167944)	promoter-TSS (NM_001167944)	-137.0	NM_001359187	22757.0	Mm.332842	NM_016683	ENSMUSG00000055991	Zkscan5	AI132486|AI326970|Zfp95|hKraba1	zinc finger with KRAB and SCAN domains 5	protein-coding	173.5	248.0	148.0	2167.5	323.5	167.0	179.0	176.5
Merged-chr9-20898009-2	chr9	20897909	20898109	+	916.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_016876, intron 3 of 10)	intron (NM_016876, intron 3 of 10)	581.0	NM_016876	53356.0	Mm.427309	NM_016876	ENSMUSG00000070319	Eif3g	44kDa|D0Jmb4|Eif3s4|TU-189B2|eIF3-p44|p44	eukaryotic translation initiation factor 3, subunit G	protein-coding	3.0	7.0	4.0	75.5	13.0	11.5	4.5	8.0
Merged-chr1-181922246-4	chr1	181922163	181922363	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010135, exon 7 of 15)	exon (NM_010135, exon 7 of 15)	-79862.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	17.0	24.5	17.5	175.0	30.5	18.5	9.5	17.0
Merged-chr13-9638206-4	chr13	9638085	9638285	+	939.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 31 of 36)	(CA)n|Simple_repeat|Simple_repeat	125625.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	19.0	15.0	19.0	321.0	42.5	24.0	15.5	22.0
Merged-chr12-69502545-3	chr12	69502437	69502637	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26987.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	39.0	77.5	38.5	626.0	153.0	52.0	83.5	69.0
Merged-chr19-21286700-6	chr19	21286610	21286810	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009551, exon 6 of 6)	3' UTR (NM_009551, exon 6 of 6)	14432.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	23.0	35.0	8.5	135.5	29.0	9.0	4.5	6.0
Merged-chr9-52048097-4	chr9	52047959	52048159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001104617, exon 1 of 11)	5' UTR (NM_001104617, exon 1 of 11)	118.0	NM_001104617	19684.0	Mm.245746	NM_009041	ENSMUSG00000032050	Rdx	AA516625	radixin	protein-coding	33.0	42.0	57.5	438.5	111.5	39.0	44.0	41.0
Merged-chr9-116077665-4	chr9	116077572	116077772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	97691.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	26.0	45.5	42.5	357.5	78.5	18.0	31.5	28.5
Merged-chr7-122217719-1	chr7	122217619	122217819	+	678.5	f0_balb.idr	Intergenic	Intergenic	-1777.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	7.5	5.0	9.0	111.5	19.5	11.0	3.5	8.0
Merged-chr11-69058434-4	chr11	69058230	69058430	+	962.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1445.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	5.5	10.0	7.5	48.0	18.5	6.5	3.5	3.5
Merged-chr14-55015303-4	chr14	55015204	55015404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026890)	promoter-TSS (NM_026890)	-150.0	NM_026890	68966.0	Mm.21214	NM_026890	ENSMUSG00000022204	Ngdn	1500001L15Rik|Ngd|neuroguidin	neuroguidin, EIF4E binding protein	protein-coding	199.0	338.0	163.5	2200.5	524.0	246.0	231.5	203.5
Merged-chr10-69254591-4	chr10	69254489	69254689	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	MIRb|SINE|MIR	41395.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	40.5	31.0	38.0	841.0	47.5	13.0	36.5	34.0
Merged-chr8-78630688-5	chr8	78630594	78630794	+	963.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009981, intron 5 of 10)	intron (NM_001009981, intron 5 of 10)	121366.0	NM_001282108	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	10.0	4.5	8.5	139.0	10.0	4.0	8.5	4.0
Merged-chr5-66091547-2	chr5	66091447	66091647	+	997.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	6632.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	4.0	10.5	1.0	51.5	17.5	9.0	9.0	14.5
Merged-chr10-79908743-4	chr10	79908635	79908835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198107, intron 1 of 14)	CpG	203.0	NM_001163276	216154.0	Mm.260089	NM_198107	ENSMUSG00000013833	Med16	95kDa|A630083L04|DRIP92|Thrap5|Trap95	mediator complex subunit 16	protein-coding	97.0	137.5	128.0	891.5	189.0	93.5	101.0	97.0
Merged-chr2-69856586-4	chr2	69856479	69856679	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4983.0	NM_001110145	20823.0	Mm.10508	NM_009278	ENSMUSG00000068882	Ssb	SS-B	Sjogren syndrome antigen B	protein-coding	48.5	55.0	35.5	536.0	41.0	18.5	29.0	27.5
Merged-chr13-113616628-7	chr13	113616449	113616649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	2015.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	16.5	32.5	43.5	420.0	50.0	19.0	48.5	36.5
Merged-chr7-97383655-4	chr7	97383558	97383758	+	920.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199035, intron 7 of 12)	intron (NM_199035, intron 7 of 12)	12041.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	13.5	19.5	16.5	123.0	48.5	26.5	8.5	14.5
Merged-chr5-143527668-4	chr5	143527588	143527788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347530, intron 1 of 6)	CpG	305.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	30.0	37.0	30.5	280.0	90.0	32.0	29.5	42.5
Merged-chr15-57761437-4	chr15	57761334	57761534	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	intron (NM_199449, intron 1 of 3)	66767.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	12.5	26.5	31.0	570.0	68.0	30.0	68.5	45.5
Merged-chr5-146794252-4	chr5	146794158	146794358	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	(CCCCAG)n|Simple_repeat|Simple_repeat	698.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	12.5	23.0	18.0	189.0	38.0	10.0	12.5	19.0
Merged-chr13-33076334-3	chr13	33076224	33076424	+	845.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-7779.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	3.0	6.0	3.0	51.0	46.5	11.0	20.0	25.5
Merged-chr19-34599486-4	chr19	34599378	34599578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110517)	promoter-TSS (NM_001110517)	-51.0	NM_001110517	667373.0	Mm.371956	NM_001101605	ENSMUSG00000079339	Ifit1bl1	Gm14446|Ifit1c	interferon induced protein with tetratricpeptide repeats 1B like 1	protein-coding	49.0	80.0	29.0	366.0	229.5	88.5	111.5	82.0
Merged-chr11-70433385-4	chr11	70433294	70433494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145429, intron 1 of 14)	intron (NM_145429, intron 1 of 14)	814.0	NM_001271358	216869.0	Mm.203747	NM_145429	ENSMUSG00000060216	Arrb2	AI326910|AW122872|Arr3	arrestin, beta 2	protein-coding	63.0	124.0	60.0	934.0	189.0	57.0	79.0	60.5
Merged-chr18-25242382-3	chr18	25242288	25242488	+	896.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033532, intron 5 of 10)	intron (NM_001033532, intron 5 of 10)	73368.0	NM_001033532	225289.0	Mm.391081	NM_001033532	ENSMUSG00000033632	AW554918	4921538P22|AI461742|Kiaa1328|mKIAA1328	expressed sequence AW554918	protein-coding	11.0	10.0	4.5	146.0	13.0	12.5	5.0	4.0
Merged-chr1-45865543-4	chr1	45865427	45865627	+	977.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60067.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	25.0	26.0	49.5	753.5	71.0	20.0	32.5	18.5
Merged-chr16-36598513-4	chr16	36598399	36598599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36365.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	30.0	58.0	29.5	444.5	135.0	50.0	54.0	47.5
Merged-chr6-4948158-1	chr6	4948058	4948258	+	719.666687	f0_balb.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	44838.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	6.5	8.0	13.0	173.0	8.5	2.5	1.0	3.0
Merged-chr14-65105110-3	chr14	65104983	65105183	+	728.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6977.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	6.5	4.5	5.0	61.5	3.5	4.5	9.5	6.0
Merged-chr2-25607974-4	chr2	25607865	25608065	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029859)	TTS (NM_029859)	481.0	NM_001024616	227624.0	Mm.29600	NM_001024616	ENSMUSG00000015087	Rabl6	B230208H17Rik|Rbel1|Rbel1a|Rbel1b|parf	RAB, member RAS oncogene family-like 6	protein-coding	14.0	29.5	43.0	335.5	63.0	31.5	20.5	49.5
Merged-chr11-51833630-4	chr11	51833539	51833739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 5 of 12)	MIRb|SINE|MIR	23842.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	45.0	153.5	44.5	312.5	207.0	93.0	90.5	48.5
Merged-chr3-39269574-3	chr3	39269460	39269660	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6C|LTR|ERVK	382620.0	NM_183221	329628.0	Mm.316210	NM_183221	ENSMUSG00000046743	Fat4	6030410K14Rik|9430004M15	FAT atypical cadherin 4	protein-coding	2.0	0.0	0.0	9.0	224.5	60.5	85.0	63.5
Merged-chr6-119481526-2	chr6	119481426	119481626	+	787.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133940, exon 1 of 1)	3' UTR (NM_133940, exon 1 of 1)	1858.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	3.5	1.0	1.0	35.5	7.0	4.5	5.0	5.5
Merged-chr11-75585307-4	chr11	75585203	75585403	+	909.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2776.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	22.5	33.0	26.0	491.5	27.0	14.5	8.5	25.0
Merged-chr19-47441732-4	chr19	47441623	47441823	+	885.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	22688.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	11.0	19.5	9.0	361.5	22.0	10.0	23.0	16.5
Merged-chr7-132621712-2	chr7	132621612	132621812	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 1 of 6)	intron (NM_029609, intron 1 of 6)	11069.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	4.5	6.0	2.0	101.0	31.5	5.5	7.0	9.5
Merged-chr14-54752688-2	chr14	54752588	54752788	+	694.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	(CA)n|Simple_repeat|Simple_repeat	29198.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	0.0	3.5	1.0	30.0	9.0	7.0	5.0	5.5
Merged-chr6-98092373-4	chr6	98092268	98092468	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	100585.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	19.5	33.5	42.5	461.5	45.0	25.5	21.0	23.0
Merged-chr15-75921601-4	chr15	75921485	75921685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025412)	promoter-TSS (NM_025412)	-25.0	NM_025412	66194.0	Mm.250599	NM_025412	ENSMUSG00000022571	Pycrl	1110058B13Rik|2700073G24Rik|Pycr3	pyrroline-5-carboxylate reductase-like	protein-coding	83.0	139.5	80.0	1126.5	232.0	79.5	99.5	116.0
Merged-chr12-73607678-4	chr12	73607557	73607757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	22861.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	42.0	93.5	46.5	951.0	93.0	28.0	47.5	39.0
Merged-chr3-88746444-4	chr3	88746355	88746555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018804, exon 4 of 4)	3' UTR (NM_018804, exon 4 of 4)	26144.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	76.5	174.0	43.0	717.5	242.0	104.5	68.5	60.5
Merged-chr4-97777293-3	chr4	97777178	97777378	+	913.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122953)	promoter-TSS (NM_001122953)	-348.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	7.0	6.5	13.5	144.5	30.0	6.5	7.0	6.5
Merged-chr12-75511720-4	chr12	75511639	75511839	+	910.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012024, intron 3 of 13)	intron (NM_012024, intron 3 of 13)	84461.0	NM_012024	26932.0	Mm.259626	NM_012024	ENSMUSG00000021051	Ppp2r5e	4633401M22Rik|AI449017|B56beta	protein phosphatase 2, regulatory subunit B', epsilon	protein-coding	14.0	8.0	17.0	275.0	41.0	12.0	12.0	15.0
Merged-chr5-114922507-1	chr5	114922407	114922607	+	1000.0	f1_balb.idr	promoter-TSS (NM_145209)	promoter-TSS (NM_145209)	-733.0	NM_001359946	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	12.5	16.0	11.5	119.0	18.0	5.0	4.0	5.5
Merged-chr19-32305178-2	chr19	32305078	32305278	+	871.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	44138.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	9.0	7.5	5.5	55.5	6.5	2.0	1.0	0.5
Merged-chr4-152039333-4	chr4	152039228	152039428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028727)	promoter-TSS (NM_028727)	7.0	NM_028727	74035.0	Mm.275803	NM_028727	ENSMUSG00000028948	Nol9	4632412I24Rik|6030462G04Rik|AI449622|AW490720	nucleolar protein 9	protein-coding	65.5	88.0	58.0	1083.0	181.5	94.0	85.5	53.0
Merged-chr5-149336064-4	chr5	149335961	149336161	+	801.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71057.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	11.0	16.0	4.5	104.0	23.0	10.5	9.0	16.5
Merged-chr3-84883964-4	chr3	84883886	84884086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 3 of 13)	B4|SINE|B4	19841.0	NM_001177774	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	36.5	57.0	55.5	513.5	133.5	47.5	55.5	57.0
Merged-chr14-70060539-4	chr14	70060450	70060650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028560)	TTS (NM_028560)	-16895.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	31.0	42.0	18.0	542.0	81.0	23.0	36.5	32.5
Merged-chr5-44212058-4	chr5	44211980	44212180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173764, intron 2 of 13)	ORR1D1|LTR|ERVL-MaLR	14526.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	38.5	68.5	61.0	1226.5	109.5	34.0	56.5	40.0
Merged-chr4-9246556-3	chr4	9246471	9246671	+	755.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12A|LTR|ERVK	-22722.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	9.0	9.0	18.5	315.0	14.5	3.5	13.5	8.5
Merged-chr11-96065385-4	chr11	96065266	96065466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172300)	promoter-TSS (NM_172300)	-2.0	NM_172300	268470.0	Mm.38802	NM_172300	ENSMUSG00000014349	Ube2z	AW049199|C030047H17Rik|D11Moh35	ubiquitin-conjugating enzyme E2Z	protein-coding	93.0	117.0	61.0	1033.5	164.5	78.5	91.5	80.0
Merged-chr1-166146862-4	chr1	166146767	166146967	+	904.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021610, intron 2 of 6)	intron (NM_021610, intron 2 of 6)	16646.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	11.0	26.0	10.0	348.0	31.5	8.5	13.5	11.5
Merged-chr12-83953909-4	chr12	83953807	83954007	+	938.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023633)	TTS (NM_023633)	3299.0	NM_023633	71952.0	Mm.251483	NM_023633	ENSMUSG00000046791	Riox1	2410016O06Rik|MAPJD|NO66	ribosomal oxygenase 1	protein-coding	6.0	9.5	7.5	137.5	43.0	3.5	16.0	8.0
Merged-chr18-88838359-6	chr18	88838233	88838433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	55874.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	25.0	19.5	26.0	256.0	47.0	24.0	23.5	29.0
Merged-chr8-41100532-3	chr8	41100422	41100622	+	758.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 1 of 13)	MTC|LTR|ERVL-MaLR	14145.0	NM_001286413	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	0.0	3.5	6.0	62.5	14.0	5.5	15.5	17.0
Merged-chr15-89089069-4	chr15	89088973	89089173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027905)	promoter-TSS (NM_027905)	35.0	NM_027905	223776.0	Mm.44763	NM_027905	ENSMUSG00000035757	Selenoo	1300018J18Rik|Selo	selenoprotein O	protein-coding	53.5	53.5	36.0	667.0	131.0	56.5	45.0	42.5
Merged-chr5-43866779-4	chr5	43866647	43866847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2062.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	61.0	75.0	59.0	737.0	115.5	56.5	64.5	32.0
Merged-chr2-69664230-4	chr2	69664137	69664337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028284, intron 9 of 11)	RSINE1|SINE|B4	-5883.0	NM_001081087	228003.0	Mm.178784	NM_001081087	ENSMUSG00000075307	Klhl41	Gm112|Kbtbd10|SARCOSIN	kelch-like 41	protein-coding	36.0	36.0	84.5	1058.0	138.5	47.0	87.0	73.0
Merged-chr1-134699196-3	chr1	134699097	134699297	+	940.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009307, intron 2 of 9)	MIRc|SINE|MIR	-10103.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	15.5	19.0	6.5	90.0	16.5	9.0	2.5	11.5
Merged-chr13-12273060-4	chr13	12272898	12273098	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033268, intron 18 of 20)	ID2|SINE|ID	-14885.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	4.0	4.0	13.0	159.0	23.0	7.5	7.0	15.5
Merged-chr1-166003437-4	chr1	166003338	166003538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011137)	promoter-TSS (NM_011137)	-804.0	NM_198932	18986.0	Mm.245261	NM_011137	ENSMUSG00000026565	Pou2f1	2810482H01Rik|NF-A1|Oct-1|Oct1|Otf-1|Otf1	POU domain, class 2, transcription factor 1	protein-coding	97.5	106.5	72.5	1417.5	247.0	100.0	141.5	81.0
Merged-chr11-74830011-4	chr11	74829914	74830114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010813)	promoter-TSS (NM_010813)	-910.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	104.5	175.0	82.5	1702.5	294.5	92.0	141.5	115.0
Merged-chr3-94658848-4	chr3	94658745	94658945	+	931.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011656)	promoter-TSS (NM_011656)	27.0	NM_001293728	22156.0	Mm.10214	NM_011656	ENSMUSG00000005968	Tuft1	-	tuftelin 1	protein-coding	26.0	53.5	18.5	54.0	33.5	13.5	10.0	18.5
Merged-chr4-129696775-4	chr4	129696667	129696867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199305)	promoter-TSS (NM_199305)	78.0	NM_199305	230770.0	Mm.257157	NM_199305	ENSMUSG00000053730	Tmem39b	6330509E05Rik|BC037095	transmembrane protein 39b	protein-coding	27.5	34.5	33.0	329.0	68.5	23.0	30.0	42.5
Merged-chr8-109565757-4	chr8	109565653	109565853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175646)	promoter-TSS (NM_175646)	108.0	NR_151644	64340.0	Mm.23705	NM_178380	ENSMUSG00000037993	Dhx38	5730550P09Rik|AI325984|AW540902|Ddx38|KIAA0224|Prp16	DEAH (Asp-Glu-Ala-His) box polypeptide 38	protein-coding	180.0	353.0	216.5	2771.0	557.0	187.0	257.0	155.5
Merged-chr1-106151951-4	chr1	106151853	106152053	+	894.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040630)	TTS (NR_040630)	19571.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	18.5	20.5	17.5	251.0	40.5	16.0	19.5	18.0
Merged-chr19-14635463-4	chr19	14635378	14635578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37295.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	41.5	54.5	51.5	649.5	88.0	26.5	39.5	30.5
Merged-chr5-36712043-4	chr5	36711916	36712116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15995.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	53.0	78.0	60.5	1496.5	145.5	67.0	94.5	59.5
Merged-chr5-17858093-3	chr5	17858009	17858209	+	925.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	RMER1B|Other|Other	-8317.0	NM_001159556	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	6.0	7.0	15.5	73.5	11.0	3.0	1.0	9.0
Merged-chr19-41848295-4	chr19	41848204	41848404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177603)	promoter-TSS (NM_177603)	-172.0	NM_177603	212398.0	Mm.222723	NM_177603	ENSMUSG00000047604	Frat2	-	frequently rearranged in advanced T cell lymphomas 2	protein-coding	45.0	134.5	95.5	678.0	113.5	61.0	68.5	72.0
Merged-chr14-78734450-2	chr14	78734350	78734550	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1721.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	1.5	8.0	3.0	32.0	22.5	4.5	10.0	5.5
Merged-chr13-24960190-3	chr13	24960087	24960287	+	646.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008156, intron 8 of 25)	intron (NM_008156, intron 8 of 25)	17035.0	NM_008156	14756.0	Mm.291831	NM_008156	ENSMUSG00000021340	Gpld1	6330541J12Rik|AW546131	glycosylphosphatidylinositol specific phospholipase D1	protein-coding	5.0	4.5	7.0	97.0	4.0	2.0	7.0	3.0
Merged-chr1-24100433-4	chr1	24100330	24100530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026604)	promoter-TSS (NM_026604)	-89.0	NM_026604	68187.0	Mm.87130	NM_026604	ENSMUSG00000026153	Fam135a	4921533L14Rik|AI256732|AI835491	family with sequence similarity 135, member A	protein-coding	149.0	143.0	133.5	1868.5	220.5	73.5	115.0	62.5
Merged-chr8-104116635-4	chr8	104116517	104116717	+	979.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 2 of 11)	intron (NM_009868, intron 2 of 11)	-10744.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	10.0	26.0	36.5	417.0	57.5	19.5	28.5	21.0
Merged-chr13-99344705-4	chr13	99344600	99344800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026873)	promoter-TSS (NM_026873)	-22.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	130.5	155.5	74.5	1583.5	209.0	94.5	111.5	74.0
Merged-chr5-108461264-4	chr5	108461145	108461345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172716)	promoter-TSS (NM_172716)	-87.0	NM_172716	69587.0	Mm.261218	NM_172716	ENSMUSG00000033623	Pcgf3	2310035N15Rik|AI662857|D630042K08Rik|DONG1|E430039C14|RNF3A|Rnf3	polycomb group ring finger 3	protein-coding	116.5	127.5	63.0	1042.5	195.5	73.0	96.5	69.5
Merged-chr15-64100655-4	chr15	64100553	64100753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 25 of 28)	intron (NM_001276461, intron 25 of 28)	-40205.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	131.5	187.0	99.5	2061.0	246.5	127.0	129.5	113.5
Merged-chr2-26498383-4	chr2	26498282	26498482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008714, intron 2 of 33)	intron (NM_008714, intron 2 of 33)	5440.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	26.5	43.0	27.0	234.0	63.5	35.5	24.5	23.5
Merged-chr1-152870967-3	chr1	152870862	152871062	+	974.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005507, intron 1 of 21)	intron (NM_001005507, intron 1 of 21)	31683.0	NM_001359257	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	7.5	26.0	15.0	194.5	18.5	3.5	11.0	9.0
Merged-chr4-140964846-4	chr4	140964750	140964950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355515, intron 1 of 7)	B4A|SINE|B4	3579.0	NM_023374	67680.0	Mm.246965	NM_023374	ENSMUSG00000009863	Sdhb	0710008N11Rik	succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	protein-coding	49.0	70.0	35.0	637.0	128.5	37.0	51.5	48.5
Merged-chr4-45409539-4	chr4	45409439	45409639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001009949)	promoter-TSS (NM_001009949)	-773.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	23.0	40.5	44.0	629.0	115.0	30.5	41.0	45.5
Merged-chr5-112251486-4	chr5	112251426	112251626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312884, intron 1 of 4)	intron (NM_001312884, intron 1 of 4)	992.0	NM_001312884	12959.0	Mm.40324	NM_021351	ENSMUSG00000066975	Cryba4	-	crystallin, beta A4	protein-coding	32.0	28.5	42.5	428.5	77.0	21.0	33.0	41.5
Merged-chr9-55254081-4	chr9	55253972	55254172	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	LTR37-int|LTR|ERV1	29553.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	29.5	102.0	41.0	294.0	65.0	37.5	24.5	19.0
Merged-chr8-70503196-3	chr8	70503109	70503309	+	788.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018827, intron 6 of 8)	intron (NM_018827, intron 6 of 8)	3217.0	NR_151646	66462.0	Mm.28242	NM_025577	ENSMUSG00000058833	Rex1bd	2810428I15Rik	required for excision 1-B domain containing	protein-coding	6.0	9.5	4.5	106.0	33.0	6.0	6.0	7.5
Merged-chr12-35038151-2	chr12	35038051	35038251	+	643.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B|LINE|L1	-9038.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	8.5	7.5	10.0	45.5	6.0	3.0	2.5	5.5
Merged-chr12-3427578-5	chr12	3427469	3427669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030694)	promoter-TSS (NR_030694)	712.0	NM_172421	75302.0	Mm.120475	NM_172421	ENSMUSG00000037486	Asxl2	4930556B16Rik|mKIAA1685	additional sex combs like 2, transcriptional regulator	protein-coding	28.0	50.0	16.5	396.0	110.5	39.0	63.0	57.0
Merged-chr8-27176983-4	chr8	27176875	27177075	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2329.0	NM_001080813	75767.0	Mm.205335	NM_029423	ENSMUSG00000031488	Rab11fip1	2010200K21Rik|4833414G05Rik|Rcp	RAB11 family interacting protein 1 (class I)	protein-coding	26.5	28.5	10.5	223.5	77.5	27.5	17.0	18.5
Merged-chr14-70785531-4	chr14	70785434	70785634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11153.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	55.0	59.5	42.5	787.0	120.0	52.0	44.5	48.0
Merged-chr8-4253136-4	chr8	4253013	4253213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133968)	promoter-TSS (NM_133968)	11.0	NM_133968	102209.0	Mm.28452	NM_133968	ENSMUSG00000011837	Snapc2	0610007H10Rik|AU015675	small nuclear RNA activating complex, polypeptide 2	protein-coding	101.0	161.5	154.5	1485.0	217.5	89.5	103.5	116.5
Merged-chr13-44419270-4	chr13	44419168	44419368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20459.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	45.0	68.5	23.5	655.0	70.5	31.0	42.5	26.0
Merged-chr13-30674129-4	chr13	30674033	30674233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 3 of 7)	intron (NM_134068, intron 3 of 7)	14074.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	30.0	37.0	43.0	706.5	70.5	23.5	30.0	42.0
Merged-chr5-124425189-2	chr5	124425089	124425289	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081203, intron 1 of 31)	CpG	413.0	NM_001359979	243272.0	Mm.23879	NM_145631	ENSMUSG00000038095	Sbno1	9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno	strawberry notch 1	protein-coding	6.5	20.5	21.0	169.5	28.0	13.0	6.5	17.0
Merged-chr2-48766755-4	chr2	48766668	48766868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47341.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	84.5	149.5	145.5	1840.0	258.0	104.5	142.0	137.5
Merged-chr12-51971392-4	chr12	51971307	51971507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177171)	promoter-TSS (NM_177171)	-86.0	NM_177171	320487.0	Mm.131941	NM_177171	ENSMUSG00000035181	Heatr5a	C230081H03Rik|D930036F22Rik|mKIAA1316	HEAT repeat containing 5A	protein-coding	145.0	193.0	128.0	1442.0	285.0	131.5	149.0	113.5
Merged-chr10-41887384-4	chr10	41887275	41887475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013370)	promoter-TSS (NM_001013370)	-64.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	104.0	167.0	115.0	1635.0	283.0	107.5	158.0	119.0
Merged-chr10-51435871-4	chr10	51435751	51435951	+	941.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44761.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	23.0	12.5	13.0	347.0	42.5	13.5	19.5	34.0
Merged-chr10-20077301-4	chr10	20077218	20077418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 12 of 29)	intron (NM_008580, intron 12 of 29)	-71602.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	51.5	82.0	43.5	788.0	81.5	54.5	50.5	37.0
Merged-chr7-127769846-4	chr7	127769750	127769950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198424)	promoter-TSS (NM_198424)	35.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	67.5	90.5	56.5	651.0	148.5	41.0	55.5	62.5
Merged-chr4-86632614-4	chr4	86632504	86632704	+	961.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20549.0	NM_173400	230376.0	Mm.74730	NM_173400	ENSMUSG00000038047	Haus6	6230416J20Rik|9830144E06|D4Ertd27e|mKIAA1574	HAUS augmin-like complex, subunit 6	protein-coding	14.5	11.5	7.0	224.0	66.0	21.5	48.0	38.5
Merged-chr8-23257121-4	chr8	23257046	23257246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042484)	promoter-TSS (NM_001042484)	-66.0	NM_001042484	57437.0	Mm.196269	NM_020585	ENSMUSG00000015341	Golga7	AB041568|C130038N16Rik|GCP16|GOLGA3AP1|HSPC041|R75586	golgi autoantigen, golgin subfamily a, 7	protein-coding	102.0	142.0	91.5	1381.5	246.5	66.5	97.5	80.0
Merged-chr14-25377606-1	chr14	25377506	25377706	+	906.0	f0_balb.idr	Intergenic	Intergenic	-81579.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	17.0	20.5	19.0	89.5	13.5	3.0	8.0	11.5
Merged-chr2-166674848-3	chr2	166674746	166674946	+	784.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	GC_rich|Low_complexity|Low_complexity	38986.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	14.0	12.5	17.0	156.5	17.5	7.0	12.0	7.5
Merged-chr16-44018575-4	chr16	44018470	44018670	+	923.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359085, intron 5 of 16)	intron (NM_001359085, intron 5 of 16)	-2134.0	NM_153528	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	12.0	21.5	12.5	214.0	47.5	9.0	17.0	18.5
Merged-chr8-123360727-3	chr8	123360599	123360799	+	868.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172287, intron 9 of 14)	intron (NM_172287, intron 9 of 14)	-13012.0	NM_001359076	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	4.5	8.5	4.5	204.0	23.0	3.5	7.5	8.0
Merged-chr14-18234996-4	chr14	18234885	18235085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011584, intron 1 of 7)	intron (NM_011584, intron 1 of 7)	4121.0	NM_011584	353187.0	Mm.26587	NM_011584	ENSMUSG00000021775	Nr1d2	RVR|Rev-erb	nuclear receptor subfamily 1, group D, member 2	protein-coding	7.5	40.5	26.0	561.5	75.0	37.0	28.5	37.5
Merged-chr6-54143542-4	chr6	54143437	54143637	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	103605.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	30.0	32.5	29.0	502.5	62.0	14.0	24.5	35.5
Merged-chr6-117900832-4	chr6	117900744	117900944	+	948.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166432, intron 1 of 3)	intron (NM_001166432, intron 1 of 3)	504.0	NM_001166432	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	13.5	34.5	9.5	201.0	41.0	25.5	26.0	31.0
Merged-chr16-81324661-4	chr16	81324582	81324782	+	917.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113208, intron 1 of 17)	MTE2b|LTR|ERVL-MaLR	123985.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	8.5	11.0	14.5	337.5	35.5	21.0	21.5	28.0
Merged-chr8-123224849-4	chr8	123224737	123224937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194446)	promoter-TSS (NM_194446)	-4.0	NM_194446	234854.0	Mm.190984	NM_194444	ENSMUSG00000033862	Cdk10	BC017131	cyclin-dependent kinase 10	protein-coding	25.5	34.0	18.5	243.0	65.5	28.5	30.5	25.5
Merged-chr10-115362364-4	chr10	115362258	115362458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359470)	promoter-TSS (NM_001359470)	-91.0	NM_001359471	67226.0	Mm.29647	NM_133683	ENSMUSG00000069520	Tmem19	2810428F02Rik|AW125171	transmembrane protein 19	protein-coding	301.5	278.5	361.5	4754.5	487.0	222.5	322.0	258.0
Merged-chr16-4212396-4	chr16	4212294	4212494	+	917.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025432, intron 1 of 30)	intron (NM_001025432, intron 1 of 30)	1010.0	NM_001025432	12914.0	Mm.132238	NM_001025432	ENSMUSG00000022521	Crebbp	AW558298|CBP|CBP/p300|KAT3A|p300/CBP	CREB binding protein	protein-coding	11.0	17.0	7.5	187.5	41.0	8.0	15.0	21.0
Merged-chr12-99576109-4	chr12	99576022	99576222	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136760, intron 2 of 3)	intron (NR_136760, intron 2 of 3)	12281.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	27.5	31.0	20.0	422.5	53.0	16.0	31.0	17.0
Merged-chr13-8870623-2	chr13	8870535	8870735	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001039388, intron 1 of 13)	intron (NM_001039388, intron 1 of 13)	409.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	29.0	25.0	24.5	439.0	49.5	25.5	28.0	32.5
Merged-chr1-180983233-4	chr1	180983137	180983337	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR22_Mus|LTR|ERVK	34332.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	19.0	30.5	25.0	385.5	70.5	19.0	30.5	42.5
Merged-chr7-55874937-4	chr7	55874843	55875043	+	880.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164661, exon 7 of 32)	exon (NM_001164661, exon 7 of 32)	32872.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	6.5	15.5	23.5	273.0	26.0	13.0	10.0	15.0
Merged-chr12-80235474-3	chr12	80235378	80235578	+	850.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	intron (NM_134156, intron 1 of 20)	24893.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	8.0	18.0	12.5	170.5	63.0	7.5	9.0	4.5
Merged-chr14-55491010-3	chr14	55490910	55491110	+	809.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024645)	promoter-TSS (NM_001024645)	-60.0	NM_001024645	268747.0	Mm.151577	NM_001024645	ENSMUSG00000022211	Carmil3	Lrrc16b|mFLJ00240	capping protein regulator and myosin 1 linker 3	protein-coding	9.0	21.5	4.5	136.0	14.0	4.0	8.0	7.5
Merged-chr3-159495391-4	chr3	159495298	159495498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029523)	promoter-TSS (NM_029523)	-35.0	NM_029523	76131.0	Mm.371655	NM_029523	ENSMUSG00000028175	Depdc1a	5830484J08Rik|Depdc1	DEP domain containing 1a	protein-coding	165.0	184.5	157.0	3228.5	510.5	154.5	265.5	203.5
Merged-chr17-5758674-2	chr17	5758574	5758774	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39983.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	5.5	8.0	5.5	52.0	3.5	4.0	6.0	5.5
Merged-chr9-16312856-4	chr9	16312751	16312951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	65380.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	48.5	56.5	33.5	1052.0	70.5	34.0	44.5	34.5
Merged-chr7-137478449-4	chr7	137478353	137478553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40779.0	NR_033611	620016.0	Mm.388932	NR_033611	ENSMUSG00000100863	Gm12669	-	glutaredoxin 3 pseudogene	pseudo	46.5	82.5	64.0	1198.0	138.5	71.0	109.5	52.5
Merged-chr7-139247672-4	chr7	139247580	139247780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033206)	promoter-TSS (NM_001033206)	-802.0	NM_001033206	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	15.0	33.0	56.0	449.5	49.0	25.5	26.5	44.0
Merged-chr12-81889176-3	chr12	81889083	81889283	+	679.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 1 of 35)	L1MB2|LINE|L1	29153.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	10.5	7.5	8.0	95.5	13.0	2.0	2.0	6.0
Merged-chr6-4601615-3	chr6	4601514	4601714	+	694.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145398, intron 1 of 17)	intron (NM_145398, intron 1 of 17)	548.0	NM_145398	213819.0	Mm.270703	NM_145398	ENSMUSG00000015189	Casd1	Cas1|Cast1|SOAT	CAS1 domain containing 1	protein-coding	6.5	8.0	20.0	139.0	19.0	2.5	7.5	3.5
Merged-chr1-143903474-2	chr1	143903374	143903574	+	659.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100675.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	4.5	7.5	4.5	88.5	8.5	7.5	1.5	2.0
Merged-chr10-127509124-4	chr10	127509004	127509204	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177707)	TTS (NM_177707)	-5835.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	12.5	31.5	5.0	170.0	32.0	9.5	19.5	7.0
Merged-chr18-4302857-4	chr18	4302756	4302956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50097.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	66.0	58.0	55.5	1015.0	124.5	35.5	78.0	60.5
Merged-chr16-30835938-3	chr16	30835838	30836038	+	915.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER77|LTR|ERVL	236215.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	6.5	29.5	10.5	27.5	35.0	20.0	13.0	7.0
Merged-chr2-38956147-3	chr2	38956071	38956271	+	777.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172854, intron 6 of 7)	intron (NM_172854, intron 6 of 7)	24191.0	NM_172854	241327.0	Mm.103491	NM_172854	ENSMUSG00000046618	Olfml2a	4932431K08Rik|mFLJ00237	olfactomedin-like 2A	protein-coding	8.5	5.0	11.5	89.0	9.5	5.0	5.0	5.5
Merged-chr6-122602404-4	chr6	122602298	122602498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031159)	promoter-TSS (NM_031159)	46.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	102.5	124.5	86.0	1422.5	317.0	144.0	154.0	135.5
Merged-chr10-63024003-4	chr10	63023911	63024111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001079824)	promoter-TSS (NM_001079824)	-162.0	NM_001079824	432467.0	Mm.274784	NM_001079824	ENSMUSG00000020069	Hnrnph3	AA693301|AI666703|Hnrph3	heterogeneous nuclear ribonucleoprotein H3	protein-coding	159.0	229.0	174.0	1677.5	428.0	171.0	178.0	187.5
Merged-chr14-46822249-4	chr14	46822159	46822359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022023)	promoter-TSS (NM_022023)	-17.0	NM_022023	63985.0	Mm.87312	NM_022023	ENSMUSG00000062014	Gmfb	3110001H22Rik|3110001O16Rik|AI851627|C79176|D14Ertd630e	glia maturation factor, beta	protein-coding	136.5	183.0	103.5	1843.0	362.5	115.5	161.5	125.0
Merged-chr9-61914558-4	chr9	61914458	61914658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018853)	promoter-TSS (NM_018853)	-48.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	84.5	127.5	77.0	617.5	271.5	77.0	88.5	94.5
Merged-chr14-13354299-3	chr14	13354200	13354400	+	829.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028052, intron 2 of 5)	intron (NM_028052, intron 2 of 5)	69520.0	NM_028052	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	6.5	8.5	6.0	84.0	20.0	12.0	9.5	12.5
Merged-chr8-77485204-6	chr8	77485092	77485292	+	806.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-31864.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	9.5	4.5	8.0	100.5	31.5	7.5	9.0	17.5
Merged-chr1-131060546-4	chr1	131060424	131060624	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	37319.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	41.0	51.5	36.5	459.5	45.0	20.5	22.5	23.0
Merged-chr5-24046666-5	chr5	24046478	24046678	+	854.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15888.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	12.0	6.5	13.0	134.0	18.5	6.0	3.5	6.0
Merged-chr16-24629418-4	chr16	24629326	24629526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-92429.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	199.5	300.0	150.0	2186.0	303.0	122.5	133.0	94.5
Merged-chr19-47121252-4	chr19	47121142	47121342	+	811.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011053, intron 25 of 35)	intron (NM_011053, intron 25 of 35)	17052.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	9.5	27.0	3.0	111.5	38.5	11.5	14.0	7.0
Merged-chr10-93160668-4	chr10	93160563	93160763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146239)	promoter-TSS (NM_146239)	-213.0	NM_146239	237459.0	Mm.217404	NM_146239	ENSMUSG00000020015	Cdk17	6430598J10Rik|Pctk2	cyclin-dependent kinase 17	protein-coding	79.5	157.5	60.0	893.0	283.5	108.5	100.5	106.5
Merged-chr16-45148768-4	chr16	45148651	45148851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028756, intron 4 of 6)	intron (NM_028756, intron 4 of 6)	9922.0	NM_001356453	74102.0	Mm.264984	NM_028756	ENSMUSG00000022664	Slc35a5	1010001J06Rik|AU021179|BB097433|D16Ertd450e|D730043G07Rik	solute carrier family 35, member A5	protein-coding	57.5	80.5	62.0	1112.5	77.0	24.5	31.0	56.0
Merged-chr17-83706626-8	chr17	83706458	83706658	+	930.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 1 of 16)	intron (NM_054082, intron 1 of 16)	395.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	7.5	14.5	8.5	117.5	15.5	15.5	10.5	10.0
Merged-chr6-97419486-2	chr6	97419386	97419586	+	622.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 4 of 23)	intron (NM_145148, intron 4 of 23)	39800.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	4.5	6.0	4.5	44.5	3.0	0.5	1.0	1.0
Merged-chr5-33377791-2	chr5	33377691	33377891	+	867.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081101)	promoter-TSS (NM_001081101)	-905.0	NR_153108	71101.0	Mm.132178	NM_027674	ENSMUSG00000037355	Uvssa	4933407H18Rik|D330017J19Rik|Kiaa1530|mKIAA1530	UV stimulated scaffold protein A	protein-coding	6.0	6.0	3.5	48.0	12.0	7.5	5.5	6.0
Merged-chr1-165845432-3	chr1	165845375	165845575	+	737.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113391, intron 1 of 7)	intron (NM_001113391, intron 1 of 7)	56794.0	NM_001113392	12503.0	Mm.217308	NM_031162	ENSMUSG00000005763	Cd247	4930549J05Rik|A430104F18Rik|AW552088|Cd3|Cd3-eta|Cd3-zeta|Cd3h|Cd3z|Cd3zeta|T3z|Tcrk|Tcrz	CD247 antigen	protein-coding	1.5	6.0	2.0	35.5	12.5	5.0	5.0	6.5
Merged-chr2-152293955-4	chr2	152293856	152294056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024196)	promoter-TSS (NM_024196)	84.0	NM_024196	67231.0	Mm.288733	NM_024196	ENSMUSG00000027465	Tbc1d20	1110028I04Rik|2810442O16Rik|AI414693|bs	TBC1 domain family, member 20	protein-coding	114.5	176.5	162.0	1597.0	189.5	125.0	98.0	123.5
Merged-chr4-148170976-3	chr4	148170863	148171063	+	854.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10295.0	NM_176848	230904.0	Mm.262287	NM_176848	ENSMUSG00000041556	Fbxo2	FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4	F-box protein 2	protein-coding	10.0	8.0	5.0	78.0	10.5	5.5	4.5	6.5
Merged-chr19-61227254-4	chr19	61227143	61227343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009970, intron 2 of 11)	CpG-7695	1175.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	162.5	275.0	167.5	2438.0	656.5	213.5	328.5	286.0
Merged-chr9-79759791-4	chr9	79759714	79759914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009945)	promoter-TSS (NM_009945)	39.0	NM_009945	12866.0	Mm.152627	NM_009945	ENSMUSG00000032330	Cox7a2	COX7AL|Cox7a3|CoxVIIa-L	cytochrome c oxidase subunit VIIa 2	protein-coding	165.5	250.5	200.5	3066.5	446.0	148.5	260.0	166.0
Merged-chr6-113750282-4	chr6	113750246	113750446	+	964.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 19 of 19)	intron (NM_001036684, intron 19 of 19)	-9665.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	9.0	12.0	12.5	170.0	31.0	10.0	13.5	22.5
Merged-chr9-89222567-2	chr9	89222467	89222667	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	B1F1|SINE|Alu	11183.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	10.0	7.5	10.0	95.5	14.0	5.0	3.5	0.0
Merged-chr15-5134334-1	chr15	5134234	5134434	+	641.0	f0_c57.idr	Intergenic	RLTR12B|LTR|ERVK	-9527.0	NM_001013367	105787.0	Mm.207004	NM_001013367	ENSMUSG00000050697	Prkaa1	AI194361|AI450832|AL024255|AMPKalpha1|C130083N04Rik	protein kinase, AMP-activated, alpha 1 catalytic subunit	protein-coding	4.5	8.0	6.0	27.5	23.5	12.5	7.5	2.0
Merged-chr11-106663876-3	chr11	106663789	106663989	+	822.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 13 of 14)	intron (NM_001305158, intron 13 of 14)	-50959.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	13.5	9.5	10.0	130.5	19.0	5.0	7.0	5.5
Merged-chr7-98357429-4	chr7	98357324	98357524	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168541, intron 2 of 3)	intron (NM_001168541, intron 2 of 3)	3864.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	45.5	42.5	56.0	902.0	51.0	10.0	32.5	15.5
Merged-chr15-76294807-4	chr15	76294687	76294887	+	908.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001195537, exon 1 of 7)	exon (NM_001195537, exon 1 of 7)	353.0	NM_001195537	100503915.0	Mm.393455	NM_001195537	ENSMUSG00000071724	Smpd5	Gm10345|MA-nSMase	sphingomyelin phosphodiesterase 5	protein-coding	14.0	16.0	26.0	313.5	25.0	10.0	14.0	9.0
Merged-chr16-21836874-4	chr16	21836742	21836942	+	836.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42495.0	NR_037957	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	6.5	18.5	9.0	130.0	29.0	5.5	15.0	11.5
Merged-chr10-52233657-4	chr10	52233522	52233722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347444)	promoter-TSS (NM_001347444)	3.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	34.5	42.5	36.0	525.5	69.0	39.5	33.0	43.0
Merged-chr3-96261778-2	chr3	96261730	96261930	+	644.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1487.0	NM_033596	97122.0	Mm.227295	NM_033596	ENSMUSG00000091405	Hist2h4	H4|X04652	histone cluster 2, H4	protein-coding	3.5	6.5	2.0	20.5	14.5	7.0	5.5	6.0
Merged-chr2-72376230-4	chr2	72376134	72376334	+	875.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 7 of 19)	(TG)n|Simple_repeat|Simple_repeat	90533.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	9.5	18.0	10.5	159.5	26.0	15.0	17.5	17.0
Merged-chr15-82218976-4	chr15	82218871	82219071	+	923.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5409.0	NM_028075	72049.0	Mm.240047	NM_028075	ENSMUSG00000068105	Tnfrsf13c	2010006P15Rik|BAFF-R|Baffr|Bcmd|Bcmd-1|Bcmd1|Lvis22	tumor necrosis factor receptor superfamily, member 13c	protein-coding	6.0	20.5	17.5	154.0	27.0	12.5	16.0	18.5
Merged-chr7-113612801-4	chr7	113612715	113612915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-47828.0	NR_126544	69295.0	Mm.396150	NR_126544	ENSMUSG00000084984	Far1os	1700006P19Rik	fatty acyl CoA reductase 1, opposite strand	ncRNA	64.0	114.5	108.0	1698.5	236.5	80.0	105.0	87.0
Merged-chr18-12141482-4	chr18	12141379	12141579	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024182, intron 6 of 12)	intron (NM_024182, intron 6 of 12)	12629.0	NM_024182	66878.0	Mm.28551	NM_024182	ENSMUSG00000024404	Riok3	1200013N13Rik|D18Ertd331e|E130306C24Rik|Sudd	RIO kinase 3	protein-coding	27.0	21.5	28.0	397.5	50.0	19.0	34.0	24.0
Merged-chr9-51009172-4	chr9	51009079	51009279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178710)	promoter-TSS (NM_178710)	-106.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	251.0	390.5	219.5	3318.0	621.0	220.5	300.0	194.0
Merged-chr18-34930466-4	chr18	34930384	34930584	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144866, intron 2 of 10)	intron (NM_144866, intron 2 of 10)	1519.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	14.5	22.0	19.0	198.5	47.0	13.0	24.5	22.5
Merged-chr1-156674373-4	chr1	156674283	156674483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023141)	promoter-TSS (NM_023141)	-44.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	80.5	123.5	70.5	1255.0	138.0	51.5	76.0	71.5
Merged-chr16-25059192-4	chr16	25059067	25059267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040374)	promoter-TSS (NR_040374)	-472.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	35.0	55.5	45.0	514.0	38.0	16.5	18.5	45.5
Merged-chr1-39464014-4	chr1	39463950	39464150	+	930.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357521, intron 1 of 19)	intron (NM_001357521, intron 1 of 19)	14697.0	NM_018775	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	19.0	24.0	20.5	631.5	25.5	12.0	24.5	25.5
Merged-chr6-121215207-4	chr6	121215104	121215304	+	934.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017379, intron 1 of 4)	intron (NM_017379, intron 1 of 4)	4470.0	NM_017379	53857.0	Mm.32884	NM_017379	ENSMUSG00000030137	Tuba8	-	tubulin, alpha 8	protein-coding	23.5	27.0	17.0	455.0	33.0	10.0	14.0	23.0
Merged-chr1-97718645-4	chr1	97718573	97718773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173760, intron 25 of 27)	intron (NM_173760, intron 25 of 27)	51419.0	NM_173760	227399.0	Mm.220817	NM_173760	ENSMUSG00000040648	Ppip5k2	AW555814|Cfap160|D330021B20|Hisppd1|Vip2|mKIAA0433	diphosphoinositol pentakisphosphate kinase 2	protein-coding	74.5	91.0	70.5	1590.0	162.5	60.0	98.0	97.5
Merged-chr7-38029412-3	chr7	38029326	38029526	+	912.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-9874.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	26.5	24.5	23.0	231.0	8.0	2.0	4.0	3.5
Merged-chr4-139228079-4	chr4	139227966	139228166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	33955.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	61.0	65.5	49.5	881.0	120.0	28.0	39.0	38.0
Merged-chr14-49894937-3	chr14	49894841	49895041	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146494, exon 2 of 2)	exon (NM_146494, exon 2 of 2)	7000.0	NM_146494	258487.0	Mm.270514	NM_146494	ENSMUSG00000048933	Olfr722	MOR241-3	olfactory receptor 722	protein-coding	3.5	1.0	6.5	70.5	125.0	42.5	41.5	36.5
Merged-chr13-100832296-4	chr13	100832170	100832370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022885, intron 1 of 15)	intron (NM_022885, intron 1 of 15)	1157.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	20.5	25.5	17.5	341.0	50.5	22.0	23.0	18.5
Merged-chr8-46817424-4	chr8	46817307	46817507	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 5 of 7)	intron (NR_152560, intron 5 of 7)	77662.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	21.5	36.0	25.0	327.0	38.0	19.0	10.5	27.5
Merged-chr8-125620455-3	chr8	125620334	125620534	+	923.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35796.0	NR_015535	75930.0	Mm.195663	NR_015535	ENSMUSG00000110629	4930567H12Rik	4930579P07Rik	RIKEN cDNA 4930567H12 gene	ncRNA	5.0	8.0	11.0	172.0	22.0	5.0	12.0	9.0
Merged-chr11-61750249-2	chr11	61750149	61750349	+	740.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_144806, intron 5 of 11)	intron (NM_144806, intron 5 of 11)	11839.0	NM_144806	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	5.0	5.5	4.5	165.0	18.0	3.0	2.0	10.0
Merged-chr18-38239380-4	chr18	38239270	38239470	+	783.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027904, intron 1 of 1)	CpG	10828.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	14.0	15.0	5.0	205.0	19.5	9.0	19.0	8.5
Merged-chr9-108561070-3	chr9	108560977	108561177	+	838.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001114119)	TTS (NM_001114119)	576.0	NM_011830	23918.0	Mm.6065	NM_011830	ENSMUSG00000062867	Impdh2	IMPD	inosine monophosphate dehydrogenase 2	protein-coding	5.0	14.0	10.5	52.0	33.5	8.5	9.5	13.0
Merged-chr15-101276809-2	chr15	101276709	101276909	+	770.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7492.0	NM_026566	68118.0	Mm.482360	NM_026566	ENSMUSG00000037204	Atg101	9430023L20Rik|AA407441|AU022967	autophagy related 101	protein-coding	3.0	13.5	3.0	33.5	22.0	21.5	7.0	6.5
Merged-chr18-5097446-4	chr18	5097332	5097532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153153, exon 24 of 35)	exon (NM_153153, exon 24 of 35)	50843.0	NM_001347449	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	71.0	175.5	138.5	1806.0	88.0	18.5	34.5	23.5
Merged-chr9-110459330-4	chr9	110459209	110459409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360306, intron 1 of 9)	MER58B|DNA|hAT-Charlie	17385.0	NM_001360306	270201.0	Mm.41744	NM_177771	ENSMUSG00000054792	Klhl18	A930041K15|AW545966	kelch-like 18	protein-coding	53.5	75.0	83.0	1381.5	132.0	40.5	71.5	89.0
Merged-chr17-15527345-4	chr17	15527267	15527467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008799)	promoter-TSS (NM_008799)	-66.0	NM_008799	18567.0	Mm.323	NM_008799	ENSMUSG00000014771	Pdcd2	AI528543|Pcd2|RP-8	programmed cell death 2	protein-coding	114.5	190.5	129.5	1981.5	332.0	97.5	180.0	93.5
Merged-chr10-57842009-3	chr10	57841902	57842102	+	806.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47458.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	6.5	11.5	6.5	41.5	14.0	7.0	6.5	5.5
Merged-chr11-103272168-4	chr11	103272103	103272303	+	775.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4802.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	7.5	15.5	8.0	89.0	22.5	15.5	8.0	11.5
Merged-chr8-46849059-4	chr8	46848914	46849114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109269.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	22.5	24.0	15.0	328.5	41.0	13.5	28.0	22.0
Merged-chr16-19967197-4	chr16	19967103	19967303	+	770.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	ORR1E|LTR|ERVL-MaLR	15846.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	8.5	12.5	12.5	175.5	23.0	2.5	10.5	7.0
Merged-chr3-95993645-2	chr3	95993545	95993745	+	896.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_023320, intron 2 of 5)	intron (NM_023320, intron 2 of 5)	2194.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	16.5	5.0	8.0	86.5	12.5	3.0	3.5	6.0
Merged-chr5-134184511-4	chr5	134184405	134184605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359852, intron 1 of 14)	CpG	467.0	NM_053266	114674.0	Mm.218744	NM_053266	ENSMUSG00000015942	Gtf2ird2	1700012P16Rik	GTF2I repeat domain containing 2	protein-coding	83.0	165.5	91.0	1074.0	341.0	153.0	124.0	102.0
Merged-chr2-32591234-3	chr2	32591120	32591320	+	767.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011373, intron 2 of 4)	B2_Mm2|SINE|B2	4142.0	NM_011373	20448.0	Mm.27446	NM_011373	ENSMUSG00000079442	St6galnac4	SIAT7-D|ST6GalNAcIV|Siat7d	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4	protein-coding	6.5	17.5	9.5	49.0	16.0	4.5	2.0	16.0
Merged-chr17-74394946-1	chr17	74394846	74395046	+	742.5	f0_balb.idr	promoter-TSS (NM_144798)	promoter-TSS (NM_144798)	-662.0	NM_001252478	210148.0	Mm.243943	NM_144798	ENSMUSG00000024069	Slc30a6	9530029F08Rik|ZnT6	solute carrier family 30 (zinc transporter), member 6	protein-coding	8.0	9.5	4.5	95.5	13.0	4.0	7.5	7.0
Merged-chr19-40692001-3	chr19	40691925	40692125	+	708.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	32255.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	6.5	8.0	4.5	102.0	15.5	8.5	5.0	4.0
Merged-chr17-29009380-4	chr17	29009258	29009458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1363.0	NM_001357173	106504.0	Mm.439986	NM_134115	ENSMUSG00000024006	Stk38	5830476G13Rik|9530097A09Rik|AA617404|Ndr1	serine/threonine kinase 38	protein-coding	76.5	133.5	62.0	1073.0	214.5	59.5	72.0	67.5
Merged-chr19-41774617-1	chr19	41774517	41774717	+	1000.0	f0_c57.idr	intron (NM_027667, intron 9 of 11)	intron (NM_027667, intron 9 of 11)	27467.0	NM_001163495	71085.0	Mm.21646	NM_027667	ENSMUSG00000025154	Arhgap19	4933411B03Rik|AI120128|AW546831|mFLJ00368	Rho GTPase activating protein 19	protein-coding	28.0	14.5	12.5	230.5	109.5	38.5	48.0	61.5
Merged-chr4-44704548-3	chr4	44704450	44704650	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073462, exon 1 of 1)	non-coding (NR_073462, exon 1 of 1)	1750.0	NR_073462	70602.0	Mm.491142	NR_073462	ENSMUSG00000103995	5730488B01Rik	-	RIKEN cDNA 5730488B01 gene	ncRNA	6.0	14.0	5.5	141.5	10.0	2.5	6.0	2.5
Merged-chr17-25006654-1	chr17	25006554	25006754	+	711.0	f0_balb.idr	intron (NM_020608, intron 2 of 20)	intron (NM_020608, intron 2 of 20)	8576.0	NM_020608	57354.0	Mm.328854	NM_020608	ENSMUSG00000038002	Cramp1l	5830477H08Rik|AI256853|AI790734|Cramp1|Tce4|mKIAA1426	cramped chromatin regulator homolog 1	protein-coding	4.5	14.0	5.5	98.0	0.0	1.0	3.5	1.5
Merged-chr5-143511739-3	chr5	143511649	143511849	+	970.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347530, intron 3 of 6)	intron (NM_001347530, intron 3 of 6)	16244.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	23.5	13.0	15.0	249.5	19.0	5.5	3.0	5.0
Merged-chr16-95705106-19	chr16	95705111	95705311	+	942.236816	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 1 of 9)	intron (NM_011809, intron 1 of 9)	2804.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	13.5	13.5	13.0	147.5	35.5	13.5	9.5	11.5
Merged-chr4-148772968-4	chr4	148772858	148773058	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-31434.0	NM_001159344	69743.0	Mm.233879	NM_027195	ENSMUSG00000028977	Casz1	2410019P08Rik|AV096627|BC040081|Cst|D4Ertd432e	castor zinc finger 1	protein-coding	19.5	21.5	28.5	322.5	33.0	4.0	14.0	19.5
Merged-chr17-56009223-4	chr17	56009128	56009328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026530)	promoter-TSS (NM_026530)	27.0	NM_026530	68047.0	Mm.358710	NM_026530	ENSMUSG00000003199	Mpnd	E130307M08Rik	MPN domain containing	protein-coding	92.0	125.5	72.0	1222.0	162.0	46.0	84.5	59.0
Merged-chr13-101659220-4	chr13	101659124	101659324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33406.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	21.0	51.0	22.0	354.5	105.5	42.0	61.5	40.5
Merged-chr8-4275933-4	chr8	4275840	4276040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011592)	promoter-TSS (NM_011592)	-35.0	NM_011592	21856.0	Mm.195249	NM_011592	ENSMUSG00000002949	Timm44	0710005E20Rik|D8Ertd118e|Mimt44|Tim44	translocase of inner mitochondrial membrane 44	protein-coding	92.0	146.5	60.0	1324.0	328.0	127.5	119.0	92.5
Merged-chr8-120117073-3	chr8	120116953	120117153	+	922.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	L2a|LINE|L2	2901.0	NM_001163761	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	11.5	11.0	9.0	321.5	16.5	4.5	2.5	9.0
Merged-chr14-62963796-2	chr14	62963696	62963896	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20714.0	NM_001037751	432867.0	Mm.99387	NM_001037751	ENSMUSG00000075574	Defb48	Defb42|EG432867	defensin beta 48	protein-coding	8.0	2.0	5.0	51.5	14.0	6.5	10.5	11.5
Merged-chr7-81548956-3	chr7	81548830	81549030	+	793.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172904, exon 7 of 13)	exon (NM_172904, exon 7 of 13)	18051.0	NM_172904	244091.0	Mm.38773	NM_172904	ENSMUSG00000038663	Fsd2	9830160G03Rik|Spryd1	fibronectin type III and SPRY domain containing 2	protein-coding	5.0	1.0	7.0	28.5	22.0	10.5	7.5	12.5
Merged-chr11-32559042-4	chr11	32558942	32559142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	25776.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	91.0	143.5	95.5	1366.5	199.0	90.0	102.0	92.0
Merged-chr3-21634993-4	chr3	21634916	21635116	+	980.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57E2|LTR|ERV1	-441636.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	23.5	25.0	13.5	315.0	65.5	19.0	30.0	20.5
Merged-chr18-35094143-4	chr18	35094027	35094227	+	761.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24785.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	3.5	3.0	7.0	91.5	23.5	5.0	11.5	12.0
Merged-chr15-79455601-4	chr15	79455505	79455705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13462.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	41.5	41.0	23.5	402.0	118.0	26.5	50.0	38.0
Merged-chr8-95320435-3	chr8	95320304	95320504	+	863.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199455, intron 4 of 7)	intron (NM_199455, intron 4 of 7)	8806.0	NM_199455	73407.0	Mm.472783	NM_028532	ENSMUSG00000090206	Tepp	1700055M20Rik	testis, prostate and placenta expressed	protein-coding	11.5	18.5	7.5	126.0	6.0	2.5	6.5	6.0
Merged-chr6-3346129-3	chr6	3346019	3346219	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53452.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	0.0	0.0	0.0	0.0	99.0	33.0	38.5	31.0
Merged-chr12-103347615-4	chr12	103347519	103347719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 1 of 9)	intron (NM_023049, intron 1 of 9)	8382.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	73.0	76.0	148.5	1686.0	181.0	54.5	85.5	91.5
Merged-chr2-167589482-4	chr2	167589397	167589597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	42508.0	NM_001311146	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	166.0	320.5	120.5	1939.5	373.5	155.0	199.5	124.5
Merged-chr10-128933821-3	chr10	128933751	128933951	+	880.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330160)	promoter-TSS (NM_001330160)	38.0	NM_001330160	16404.0	Mm.179747	NM_008398	ENSMUSG00000025348	Itga7	[a]7|alpha7	integrin alpha 7	protein-coding	7.5	8.5	5.5	102.0	11.5	3.5	2.5	4.0
Merged-chr6-136861185-3	chr6	136861031	136861231	+	829.9111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3531.0	NM_026639	109978.0	Mm.31840	NM_026639	ENSMUSG00000030217	Art4	4432404K01Rik|ARTC4|DO|DOK1	ADP-ribosyltransferase 4	protein-coding	15.5	15.0	9.5	193.0	11.0	5.5	3.0	7.5
Merged-chr10-54032521-3	chr10	54032420	54032620	+	673.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	intron (NM_008548, intron 2 of 12)	43276.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	10.0	11.0	9.0	235.0	8.5	3.0	4.5	5.0
Merged-chr9-78107882-2	chr9	78107782	78107982	+	650.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081490, intron 1 of 12)	intron (NM_001081490, intron 1 of 12)	774.0	NM_023605	71538.0	Mm.28584	NM_023605	ENSMUSG00000001366	Fbxo9	9030401P18Rik|AA986398	f-box protein 9	protein-coding	5.0	6.0	9.0	105.5	18.0	7.0	1.0	7.5
Merged-chr4-141606079-4	chr4	141605984	141606184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133754)	promoter-TSS (NM_133754)	-32.0	NM_133754	74202.0	Mm.490327	NM_133754	ENSMUSG00000006219	Fblim1	2410043F08Rik|Cal|Fblp1|Gt10|migfilin|migfilin(s)	filamin binding LIM protein 1	protein-coding	100.0	131.5	95.5	1165.0	370.0	148.0	172.0	156.5
Merged-chr4-130787721-4	chr4	130787580	130787780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4857.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	97.5	166.0	101.5	1891.5	204.0	46.5	98.0	82.0
Merged-chr15-79834339-4	chr15	79834204	79834404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028763)	promoter-TSS (NM_028763)	29.0	NM_001013360	504193.0	Mm.38438	NM_029079	ENSMUSG00000089837	Npcd	Cbx6-Nptxr	neuronal pentraxin chromo domain	protein-coding	40.5	54.0	35.0	399.5	43.0	25.5	26.5	22.5
Merged-chr17-27708173-4	chr17	27708108	27708308	+	842.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286743, intron 9 of 9)	intron (NM_001286743, intron 9 of 9)	20743.0	NM_013891	30051.0	Mm.26768	NM_013891	ENSMUSG00000024215	Spdef	PDEF|Pse	SAM pointed domain containing ets transcription factor	protein-coding	8.0	9.0	10.0	96.5	25.5	9.5	8.0	5.0
Merged-chr6-101556494-4	chr6	101556397	101556597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-178600.0	NM_018884	55983.0	Mm.321654	NM_018884	ENSMUSG00000035357	Pdzrn3	1110020C07Rik|AI429718|AL023082|LNX3|SEMACAP3|Semcap3	PDZ domain containing RING finger 3	protein-coding	32.0	36.5	45.5	650.0	55.0	20.0	36.0	18.0
Merged-chr9-63614313-4	chr9	63614218	63614418	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	11672.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	19.0	20.0	22.0	395.0	58.0	16.0	16.5	19.0
Merged-chr10-67059120-2	chr10	67059020	67059220	+	785.299988	f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	37868.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	5.5	4.5	6.0	30.5	8.5	4.5	1.5	2.5
Merged-chr9-106372024-4	chr9	106371930	106372130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153459, intron 2 of 2)	intron (NM_153459, intron 2 of 2)	3398.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	78.0	115.0	78.0	1381.5	292.5	117.0	137.5	101.0
Merged-chr2-66210091-4	chr2	66209996	66210196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290669, exon 20 of 28)	exon (NM_001290669, exon 20 of 28)	46521.0	NM_001047604	73668.0	Mm.250868	NM_001047604	ENSMUSG00000034848	Ttc21b	2410066K11Rik|Thm1|aln|mKIAA1992	tetratricopeptide repeat domain 21B	protein-coding	19.5	25.5	22.5	559.0	45.5	19.5	20.0	25.5
Merged-chr3-89865105-4	chr3	89865024	89865224	+	909.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33754.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	12.0	20.0	6.0	101.5	36.0	8.5	12.0	13.0
Merged-chr4-132215025-4	chr4	132214926	132215126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2770.0	NM_145393	213541.0	Mm.23998	NM_145393	ENSMUSG00000040025	Ythdf2	9430020E02Rik|HGRG8|NY-REN-2	YTH domain family 2	protein-coding	42.0	47.5	35.0	681.5	59.0	32.0	34.0	56.5
Merged-chr15-98872247-4	chr15	98872180	98872380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1075.0	NM_001033276	381022.0	Mm.264889	NM_001033276	ENSMUSG00000048154	Kmt2d	ALR|BC032281|BC058659|C430014K11Rik|KMT2B|Mll2|Mll4	lysine (K)-specific methyltransferase 2D	protein-coding	26.0	38.0	14.0	212.0	66.0	35.0	33.0	34.5
Merged-chr12-113222226-4	chr12	113222153	113222353	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36350.0	NM_153776	69195.0	Mm.313244	NM_153776	ENSMUSG00000049036	Tmem121	2410008J05Rik|Hole	transmembrane protein 121	protein-coding	42.0	65.0	19.5	600.0	44.0	30.5	21.5	45.0
Merged-chr1-60097684-4	chr1	60097525	60097725	+	885.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139150)	promoter-TSS (NM_139150)	282.0	NM_021312	57750.0	Mm.281079	NM_021312	ENSMUSG00000026019	Wdr12	4933402C23Rik|Ytm1|Ytm1p	WD repeat domain 12	protein-coding	17.0	24.5	9.5	150.5	19.5	6.5	13.5	10.5
Merged-chr12-69724900-4	chr12	69724774	69724974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145443)	promoter-TSS (NM_145443)	0.0	NM_145443	217666.0	Mm.103362	NM_145443	ENSMUSG00000020988	L2hgdh	BC016226	L-2-hydroxyglutarate dehydrogenase	protein-coding	168.0	187.0	146.0	2578.0	308.0	128.0	168.5	135.0
Merged-chr16-91379208-4	chr16	91379167	91379367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 1 of 7)	intron (NM_001347258, intron 1 of 7)	6484.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	14.5	18.5	33.5	293.0	36.5	6.0	10.5	10.0
Merged-chr13-12542271-4	chr13	12542188	12542388	+	980.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21838.0	NM_133643	171211.0	Mm.159671	NM_133643	ENSMUSG00000095105	Edaradd	1810032E07Rik|5830469M23Rik|A630043P06|cr	EDAR (ectodysplasin-A receptor)-associated death domain	protein-coding	9.0	24.0	22.5	369.5	41.5	14.0	17.5	18.5
Merged-chr11-96075846-4	chr11	96075761	96075961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161419)	promoter-TSS (NM_001161419)	-167.0	NM_007506	11951.0	Mm.258	NM_007506	ENSMUSG00000006057	Atp5g1	-	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C1 (subunit 9)	protein-coding	259.5	395.5	216.5	2887.0	667.5	330.0	266.0	260.5
Merged-chr5-147363228-3	chr5	147363138	147363338	+	925.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010229, intron 9 of 23)	intron (NM_010229, intron 9 of 23)	37251.0	NM_010229	14255.0	Mm.194	NM_010229	ENSMUSG00000042817	Flt3	B230315G04|CD135|Flk-2|Flk2|Flt-3|Ly72|wmfl	FMS-like tyrosine kinase 3	protein-coding	12.0	19.5	13.0	163.0	23.5	4.0	5.5	6.5
Merged-chr5-92245691-3	chr5	92245585	92245785	+	809.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011148, intron 7 of 16)	intron (NM_011148, intron 7 of 16)	10593.0	NM_011148	19023.0	Mm.87155	NM_011148	ENSMUSG00000029410	Ppef2	-	protein phosphatase, EF hand calcium-binding domain 2	protein-coding	8.0	13.0	8.0	354.0	10.0	1.0	2.0	11.5
Merged-chr16-20098151-4	chr16	20098062	20098262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029436, intron 1 of 7)	CpG	608.0	NM_029436	75785.0	Mm.392450	NM_029436	ENSMUSG00000062901	Klhl24	1110046J11Rik|4930429H24Rik|6530402O20Rik|C85082	kelch-like 24	protein-coding	207.5	256.0	231.0	3677.0	455.5	165.5	225.0	177.5
Merged-chr7-101599485-3	chr7	101599388	101599588	+	573.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1ME|LINE|L1	-18327.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	11.0	12.0	5.0	79.0	27.5	8.5	6.0	0.0
Merged-chr12-79060960-4	chr12	79060864	79061064	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181073, intron 7 of 28)	intron (NM_181073, intron 7 of 28)	28706.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	11.5	26.0	27.5	299.5	33.5	5.5	6.0	10.5
Merged-chr9-114780348-7	chr9	114780049	114780249	+	980.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252479, intron 1 of 3)	intron (NM_001252479, intron 1 of 3)	1844.0	NM_133978	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	4.5	5.0	8.0	19.0	31.5	10.0	10.5	13.0
Merged-chr5-34543319-4	chr5	34543231	34543431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145858)	promoter-TSS (NM_001145858)	-34.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	69.5	109.5	94.0	1155.5	127.0	53.5	82.0	70.0
Merged-chr7-66124787-4	chr7	66124699	66124899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 1 of 2)	intron (NM_001081163, intron 1 of 2)	15284.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	84.5	92.0	90.5	1406.0	131.5	40.0	77.0	76.5
Merged-chr9-21962552-4	chr9	21962390	21962590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010149, intron 1 of 7)	intron (NM_010149, intron 1 of 7)	1086.0	NM_010149	13857.0	Mm.2653	NM_010149	ENSMUSG00000006235	Epor	-	erythropoietin receptor	protein-coding	18.5	13.5	12.5	236.0	22.5	12.5	12.5	17.0
Merged-chr5-66140172-4	chr5	66140097	66140297	+	982.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	10781.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	30.5	25.0	26.0	340.5	35.0	16.0	18.5	17.0
Merged-chr11-4980384-3	chr11	4980316	4980516	+	998.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 1 of 22)	MLT1E3|LTR|ERVL-MaLR	-6408.0	NM_001355659	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	20.0	31.0	10.5	176.0	16.0	4.5	2.5	6.5
Merged-chr7-141123158-4	chr7	141123059	141123259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5353.0	NM_178381	71345.0	Mm.235813	NM_178381	ENSMUSG00000054662	Ano9	5430425C04Rik|Tmem16j|Tp53i5|Trp53i5	anoctamin 9	protein-coding	188.5	217.5	155.5	2250.0	359.5	104.5	158.0	89.5
Merged-chr18-68131423-4	chr18	68131334	68131534	+	957.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-96512.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	16.0	20.0	40.0	413.0	31.5	21.5	31.5	14.5
Merged-chr12-80757994-2	chr12	80757894	80758094	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001008423, exon 2 of 2)	exon (NM_001008423, exon 2 of 2)	2721.0	NM_001008423	380768.0	Mm.29367	NM_001008423	ENSMUSG00000062961	Ccdc177	Gm1568	coiled-coil domain containing 177	protein-coding	4.0	6.0	4.0	52.0	11.0	8.0	5.5	6.0
Merged-chr11-11685575-4	chr11	11685483	11685683	+	974.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301868)	promoter-TSS (NM_001301868)	-342.0	NM_009578	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	46.5	58.5	52.5	554.0	94.5	13.0	37.5	24.5
Merged-chr7-30634825-4	chr7	30634723	30634923	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007959, exon 4 of 6)	exon (NM_007959, exon 4 of 6)	1029.0	NM_007959	14008.0	Mm.4829	NM_007959	ENSMUSG00000006311	Etv2	Etsrp71	ets variant 2	protein-coding	19.5	21.0	14.5	259.5	30.0	21.5	20.5	29.0
Merged-chr3-107630746-4	chr3	107630647	107630847	+	880.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153563, intron 1 of 20)	intron (NM_153563, intron 1 of 20)	963.0	NM_153563	229707.0	Mm.278643	NM_153563	ENSMUSG00000014601	Strip1	6330569M22Rik|6530401O14Rik|Fam40a	striatin interacting protein 1	protein-coding	10.0	11.5	7.0	149.5	50.0	10.5	17.0	11.0
Merged-chr12-111538066-4	chr12	111537976	111538176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173363)	promoter-TSS (NM_173363)	-25.0	NM_178041	217869.0	Mm.271222	NM_173363	ENSMUSG00000021282	Eif5	2810011H21Rik|D12Ertd549e	eukaryotic translation initiation factor 5	protein-coding	354.0	592.0	296.0	3817.0	893.5	382.5	360.0	364.0
Merged-chr2-168080826-4	chr2	168080738	168080938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021409)	promoter-TSS (NM_021409)	-166.0	NM_021409	58220.0	Mm.292834	NM_021409	ENSMUSG00000044641	Pard6b	AV025615|Par6b	par-6 family cell polarity regulator beta	protein-coding	38.5	63.0	38.5	625.5	93.0	30.5	35.0	36.0
Merged-chr10-117313330-4	chr10	117313223	117313423	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20455.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	9.5	34.0	18.5	160.5	49.5	4.0	17.5	5.0
Merged-chr18-66002709-4	chr18	66002610	66002810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172062)	promoter-TSS (NM_001172062)	-75.0	NM_001172062	70361.0	Mm.290857	NM_027400	ENSMUSG00000041891	Lman1	2610020P13Rik|AI326273|AU043785|C730041J05|ERGIC53|F5F8D|MCFD1|MR60|P58|gp58	lectin, mannose-binding, 1	protein-coding	218.5	276.0	233.5	3483.5	511.5	171.5	293.0	194.0
Merged-chr4-101264434-2	chr4	101264334	101264534	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	intron (NM_146145, intron 1 of 24)	848.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	9.5	10.0	8.5	68.5	26.0	6.0	9.5	9.0
Merged-chr17-45613206-4	chr17	45613129	45613329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11127.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	109.0	174.0	70.5	958.0	256.0	99.0	106.0	118.5
Merged-chr16-17759619-4	chr16	17759522	17759722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145479)	promoter-TSS (NM_145479)	1.0	NM_001359068	224023.0	Mm.282807	NM_145479	ENSMUSG00000022750	Klhl22	2610318I18Rik|Kelchl	kelch-like 22	protein-coding	34.5	43.5	19.5	499.0	84.0	33.5	46.5	49.5
Merged-chr19-21913203-4	chr19	21913127	21913327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134887.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	98.5	82.0	113.5	1735.5	198.0	69.5	103.5	109.0
Merged-chr6-37601273-4	chr6	37601184	37601384	+	946.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71111.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	12.5	11.0	21.0	609.5	60.0	24.0	36.0	25.5
Merged-chr6-8744557-3	chr6	8744448	8744648	+	959.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 3 of 11)	intron (NM_001252266, intron 3 of 11)	13910.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	10.5	9.0	7.5	232.0	9.5	5.5	8.5	8.5
Merged-chr3-86110253-4	chr3	86110150	86110350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082414, intron 7 of 14)	intron (NM_001082414, intron 7 of 14)	25816.0	NM_001082414	27059.0	Mm.2454	NM_012059	ENSMUSG00000028082	Sh3d19	AW011754|Kryn	SH3 domain protein D19	protein-coding	54.0	64.0	33.0	776.0	141.5	60.0	64.0	38.0
Merged-chr12-78792635-4	chr12	78792538	78792738	+	757.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019579, intron 1 of 14)	MTD|LTR|ERVL-MaLR	43691.0	NM_019579	56217.0	Mm.425777	NM_019579	ENSMUSG00000021112	Mpp5	3830420B02Rik|AI255216|AI644496|Pals1	membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)	protein-coding	9.0	14.0	4.5	153.5	19.0	9.5	7.0	11.0
Merged-chr1-86529190-6	chr1	86529120	86529320	+	870.211121	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360831, exon 2 of 5)	exon (NM_001360831, exon 2 of 5)	2663.0	NM_001360830	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	12.5	11.5	10.0	130.5	31.5	12.0	8.5	15.5
Merged-chr3-36816817-3	chr3	36816715	36816915	+	886.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46291.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	2.5	4.0	13.0	214.0	6.5	4.5	6.0	5.5
Merged-chr13-17695537-2	chr13	17695443	17695643	+	1000.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_138654)	promoter-TSS (NM_138654)	130.0	NM_025479	66308.0	Mm.291109	NM_025479	ENSMUSG00000012429	Mplkip	2810021B07Rik|C330007M08Rik|Ttdn1	M-phase specific PLK1 intereacting protein	protein-coding	39.0	49.5	54.5	443.0	103.0	30.5	43.5	38.5
Merged-chr6-70881120-4	chr6	70881033	70881233	+	928.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 4 of 16)	intron (NM_010121, intron 4 of 16)	36618.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	10.5	27.0	5.0	312.0	65.5	16.5	21.5	17.0
Merged-chr4-55763314-4	chr4	55763216	55763416	+	925.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-230841.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	24.0	15.0	35.0	404.5	39.5	8.0	18.5	27.5
Merged-chr12-87261652-4	chr12	87261569	87261769	+	712.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142581, intron 2 of 18)	MTC|LTR|ERVL-MaLR	2575.0	NM_134044	104799.0	Mm.208750	NM_134044	ENSMUSG00000021038	Vipas39	6720456H09Rik|9330175H22Rik|AI413782|SPE-39|Spe39|Vipar|hSPE-39	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog	protein-coding	13.5	12.0	4.5	74.0	25.0	11.0	7.5	4.0
Merged-chr19-32947315-3	chr19	32947216	32947416	+	734.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	189739.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	16.5	9.5	12.0	109.5	23.5	6.0	2.5	5.0
Merged-chr3-146152454-3	chr3	146152378	146152578	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	intron (NM_001005846, intron 1 of 13)	2304.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	57.0	75.5	53.5	974.5	1.0	0.5	0.0	2.5
Merged-chr1-79786719-4	chr1	79786625	79786825	+	785.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10707.0	NM_001081210	69163.0	Mm.238455	NM_001081210	ENSMUSG00000026248	Mrpl44	1810030E18Rik|5730593H20Rik|AI463302	mitochondrial ribosomal protein L44	protein-coding	5.5	8.0	6.5	116.0	31.5	6.5	11.0	11.0
Merged-chr17-12754772-4	chr17	12754667	12754867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	13456.0	NR_027784	104103.0	Mm.26553	NR_002853	ENSMUSG00000078247	Airn	2810051F02Rik|2810434M15Rik|AI256653|AI597500|AW049873|Air|B930018I07Rik|D17Ertd663e|IGF2RAS	antisense Igf2r RNA	ncRNA	134.5	213.5	98.0	1646.0	299.5	121.0	128.5	114.5
Merged-chr17-21567001-5	chr17	21566892	21567092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357347)	promoter-TSS (NM_001357347)	14.0	NM_001357347	381066.0	Mm.441097	NM_001002008	ENSMUSG00000067931	Zfp948	-	zinc finger protein 948	protein-coding	14.0	29.0	20.5	323.5	90.0	53.5	48.5	46.0
Merged-chr17-26269115-2	chr17	26269015	26269215	+	803.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028190, intron 5 of 9)	B2_Mm2|SINE|B2	16205.0	NR_037905	66978.0	Mm.440216	NM_025881	ENSMUSG00000024188	Luc7l	1810045C04Rik|2410018D03Rik	Luc7-like	protein-coding	7.0	10.0	5.5	62.5	4.5	1.5	3.0	6.5
Merged-chr19-26607362-4	chr19	26607284	26607484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 1 of 32)	CpG	2224.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	67.0	74.5	52.5	1158.5	183.5	67.0	71.0	50.5
Merged-chr4-119157416-1	chr4	119157316	119157516	+	555.0	f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	16440.0	NM_001145935	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	2.0	7.5	4.0	20.5	13.0	10.5	5.0	8.0
Merged-chr8-70618519-1	chr8	70618419	70618619	+	1000.0	f1_balb.idr	intron (NM_153074, intron 2 of 2)	intron (NM_153074, intron 2 of 2)	1675.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	49.5	99.5	43.5	363.5	137.5	52.0	65.0	72.5
Merged-chr2-11740650-3	chr2	11740540	11740740	+	717.016663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	34928.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	11.0	14.5	8.0	156.0	9.0	6.0	4.5	17.5
Merged-chr12-102297199-4	chr12	102297106	102297306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161365, intron 1 of 9)	RLTR11A2|LTR|ERVK	13565.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	76.5	75.5	94.0	1455.5	161.0	51.0	58.0	54.0
Merged-chr12-55467049-4	chr12	55466964	55467164	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25583.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	31.0	31.0	37.5	355.0	47.0	19.0	12.5	10.0
Merged-chr7-34272676-3	chr7	34272570	34272770	+	976.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172741, intron 1 of 12)	intron (NM_172741, intron 1 of 12)	12939.0	NM_172741	233103.0	Mm.491097	NM_172741	ENSMUSG00000066571	4931406P16Rik	AA553327|mKIAA0355	RIKEN cDNA 4931406P16 gene	protein-coding	13.0	10.0	10.0	236.0	9.0	7.0	6.5	5.0
Merged-chr11-109875986-3	chr11	109875883	109876083	+	625.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30105.0	NR_045909	73257.0	Mm.250442	NR_045909	ENSMUSG00000087393	1700023C21Rik	-	RIKEN cDNA 1700023C21 gene	ncRNA	9.0	15.5	7.0	80.0	17.5	10.0	8.0	6.0
Merged-chr2-148520937-4	chr2	148520821	148521021	+	899.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77386.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	16.5	16.5	7.0	193.5	33.0	9.5	12.0	14.5
Merged-chr1-74748938-4	chr1	74748831	74749031	+	754.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153744)	promoter-TSS (NM_153744)	24.0	NM_153744	241113.0	Mm.166501	NM_153744	ENSMUSG00000006542	Prkag3	AMPKg3L|AMPKg3S|Amkg3|Ampkg3	protein kinase, AMP-activated, gamma 3 non-catalytic subunit	protein-coding	15.5	12.5	16.5	101.0	30.5	6.0	12.5	8.0
Merged-chr2-167367983-4	chr2	167367878	167368078	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18800.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	21.0	31.5	18.0	279.0	46.0	12.0	10.5	17.0
Merged-chr4-94601597-2	chr4	94601497	94601697	+	729.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172695, intron 1 of 13)	B2_Mm2|SINE|B2	1650.0	NM_172695	18786.0	Mm.490101	NM_172695	ENSMUSG00000028577	Plaa	2410007N06|AI536418|AU018445|AW208417|D4Ertd618e|PLA2P|PLAP|Ufd3	phospholipase A2, activating protein	protein-coding	6.5	6.5	4.5	24.0	10.5	7.5	12.5	7.5
Merged-chr18-36719640-1	chr18	36719540	36719740	+	541.0	f1_c57bl6.idr	Intergenic	B1F2|SINE|Alu	7175.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	8.0	7.5	4.5	39.5	4.5	2.5	3.0	8.5
Merged-chr8-83104218-4	chr8	83104158	83104358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	-61094.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	95.0	144.5	78.0	1183.0	172.5	72.0	70.5	76.5
Merged-chr11-82571622-4	chr11	82571526	82571726	+	909.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61727.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	18.5	27.5	12.0	301.5	64.5	10.5	11.5	21.5
Merged-chr6-112490962-3	chr6	112490864	112491064	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1139.0	NM_001081147	18430.0	Mm.333310	NM_001081147	ENSMUSG00000049112	Oxtr	OTR	oxytocin receptor	protein-coding	9.5	8.5	11.0	141.0	19.5	8.0	4.0	5.0
Merged-chr11-22971979-4	chr11	22971886	22972086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011663)	promoter-TSS (NM_011663)	-19.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	57.5	58.0	42.0	551.5	112.0	55.0	56.5	47.0
Merged-chr6-120478648-4	chr6	120478429	120478629	+	901.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 11 of 12)	MIR|SINE|MIR	15278.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	14.0	14.5	6.0	52.0	20.0	11.0	7.5	8.5
Merged-chr3-83812165-4	chr3	83812057	83812257	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29451.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	23.5	11.5	14.5	322.5	37.0	5.5	11.5	12.0
Merged-chr2-116999858-4	chr2	116999748	116999948	+	712.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	99696.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	5.5	16.5	13.5	70.0	28.5	4.5	10.5	8.0
Merged-chr4-86875017-2	chr4	86874902	86875102	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290543, intron 1 of 5)	intron (NM_001290543, intron 1 of 5)	588.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	5.5	3.5	2.0	47.5	9.5	7.0	4.5	6.0
Merged-chr2-33130722-1	chr2	33130622	33130822	+	1000.0	f0_balb.idr	promoter-TSS (NM_001355200)	promoter-TSS (NM_001355200)	-103.0	NM_001355200	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	153.0	243.0	101.0	1441.0	400.5	186.0	176.0	164.0
Merged-chr18-38993579-3	chr18	38993460	38993660	+	962.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175164, exon 1 of 23)	exon (NM_175164, exon 1 of 23)	415.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	9.5	12.5	14.5	162.0	24.0	5.5	8.5	16.5
Merged-chr7-102245339-4	chr7	102245209	102245409	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	4809.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	6.5	8.5	8.5	108.5	27.5	11.5	3.5	10.5
Merged-chr12-70937830-4	chr12	70937697	70937897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019785)	promoter-TSS (NM_019785)	-60.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	82.0	111.0	73.0	1021.5	235.5	72.5	84.0	77.0
Merged-chr12-112552227-4	chr12	112552145	112552345	+	899.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36539.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	16.5	20.0	13.0	279.5	31.5	11.5	13.5	11.5
Merged-chr8-56076037-3	chr8	56075946	56076146	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080438, intron 5 of 9)	intron (NM_080438, intron 5 of 9)	135221.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	7.5	4.0	6.0	129.5	31.5	4.5	7.5	7.0
Merged-chr4-108347239-4	chr4	108347131	108347331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19079.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	77.5	92.5	60.5	488.0	198.5	90.0	76.5	48.5
Merged-chr1-34842920-7	chr1	34842777	34842977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001160235, exon 1 of 8)	5' UTR (NM_001160235, exon 1 of 8)	173.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	33.5	48.5	52.0	350.0	71.5	35.0	27.0	30.0
Merged-chr19-46483129-4	chr19	46483041	46483241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 10 of 11)	intron (NM_001025391, intron 10 of 11)	-18507.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	49.0	59.5	45.0	813.0	123.0	33.0	48.0	35.0
Merged-chr5-74252898-3	chr5	74252776	74252976	+	702.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	intron (NM_001114660, intron 5 of 8)	57550.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	8.0	9.0	10.0	154.5	0.5	1.0	5.0	5.0
Merged-chr13-101867054-4	chr13	101866968	101867168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98851.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	67.5	102.0	75.0	1276.5	227.0	68.0	84.5	117.0
Merged-chr11-33932842-6	chr11	33932688	33932888	+	849.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190886, intron 1 of 7)	Tigger7|DNA|TcMar-Tigger	-30225.0	NM_031169	16533.0	Mm.6206	NM_031169	ENSMUSG00000020155	Kcnmb1	BKbeta1	potassium large conductance calcium-activated channel, subfamily M, beta member 1	protein-coding	24.0	21.5	11.0	104.5	22.5	10.0	15.5	7.5
Merged-chr4-53270125-4	chr4	53269964	53270164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033139, intron 1 of 1)	RMER1B|Other|Other	168.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	103.5	77.0	108.0	1328.5	162.0	43.5	60.0	69.5
Merged-chr14-70572628-1	chr14	70572528	70572728	+	902.0	f0_balb.idr	3' UTR (NM_021877, exon 20 of 20)	3' UTR (NM_021877, exon 20 of 20)	-5196.0	NM_153136	213484.0	Mm.34191	NM_153136	ENSMUSG00000045211	Nudt18	BC036718	nudix (nucleoside diphosphate linked moiety X)-type motif 18	protein-coding	9.0	19.5	18.0	294.0	3.0	0.0	3.0	2.0
Merged-chr7-19890050-2	chr7	19889950	19890150	+	837.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2085.0	NM_177036	319930.0	Mm.215839	NM_177036	ENSMUSG00000049848	Ceacam19	C130022P09Rik|CEAL1	carcinoembryonic antigen-related cell adhesion molecule 19	protein-coding	3.0	11.0	3.5	65.5	18.0	5.5	6.0	4.5
Merged-chr6-125411234-4	chr6	125411125	125411325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30721.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	48.0	72.0	42.5	947.5	99.5	38.5	62.5	43.5
Merged-chr11-118362620-3	chr11	118362513	118362713	+	977.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7202.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	17.5	26.5	4.5	256.5	12.5	7.0	8.0	15.5
Merged-chr5-150611835-4	chr5	150611728	150611928	+	822.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362416, intron 6 of 7)	L3|LINE|CR1	-17303.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	23.0	13.0	6.5	149.0	15.0	14.5	12.5	15.0
Merged-chr1-55488478-4	chr1	55488389	55488589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	82543.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	60.5	43.5	39.0	769.0	88.5	21.0	31.0	33.5
Merged-chr10-63176604-4	chr10	63176502	63176702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 2 of 19)	Charlie1a|DNA|hAT-Charlie	27350.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	95.5	122.0	86.5	1875.5	178.5	73.5	95.5	107.0
Merged-chr6-108902360-4	chr6	108902237	108902437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	73696.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	72.5	97.5	73.0	1264.5	79.0	24.0	36.5	31.5
Merged-chr12-69473115-4	chr12	69473000	69473200	+	941.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038060, intron 2 of 4)	intron (NR_038060, intron 2 of 4)	2450.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	20.5	14.0	19.0	489.0	37.5	8.5	16.5	23.5
Merged-chr5-96177197-4	chr5	96177095	96177295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-15205.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	72.0	99.0	105.5	1913.5	194.0	61.0	93.0	62.5
Merged-chr19-26711420-2	chr19	26711320	26711520	+	917.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 25 of 32)	intron (NM_011416, intron 25 of 32)	-36745.0	NM_001347439	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	8.0	8.0	4.5	24.5	10.5	4.0	1.0	0.0
Merged-chr5-35693800-4	chr5	35693704	35693904	+	876.054199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14024.0	NM_030127	78558.0	Mm.274255	NM_030127	ENSMUSG00000029096	Htra3	2210021K23Rik|9530081K03Rik|Prsp|Tasp	HtrA serine peptidase 3	protein-coding	9.0	15.5	22.5	236.5	27.0	8.5	24.0	13.0
Merged-chr16-32164128-4	chr16	32164023	32164223	+	842.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146069, intron 1 of 3)	intron (NM_146069, intron 1 of 3)	1471.0	NM_146069	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	12.0	9.0	8.0	61.0	26.5	5.0	13.0	14.0
Merged-chr2-113820269-4	chr2	113820199	113820399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009162, intron 2 of 5)	intron (NM_009162, intron 2 of 5)	8792.0	NM_009162	20394.0	Mm.4836	NM_009162	ENSMUSG00000023236	Scg5	7B2|AI325031|Sgne-1|Sgne1	secretogranin V	protein-coding	123.5	137.0	177.0	2701.5	312.0	83.0	144.5	192.0
Merged-chr4-138326297-4	chr4	138326208	138326408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026880)	promoter-TSS (NM_026880)	-12.0	NM_026880	68943.0	Mm.18539	NM_026880	ENSMUSG00000028756	Pink1	1190006F07Rik|AU042772|AW557854|BRPK|mFLJ00387	PTEN induced putative kinase 1	protein-coding	48.5	42.0	10.0	305.0	117.0	38.5	46.5	32.0
Merged-chr12-33433996-4	chr12	33433907	33434107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172253, intron 2 of 3)	intron (NM_172253, intron 2 of 3)	4383.0	NM_172253	28071.0	Mm.196472	NM_172253	ENSMUSG00000020561	Twistnb	2410173G11|2810024J17Rik|D16Wsu83e	twist basic helix-loop-helix transcription factor 1 neighbor	protein-coding	60.0	108.5	91.0	974.5	151.5	55.5	71.5	69.5
Merged-chr7-127017369-4	chr7	127017258	127017458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030240)	promoter-TSS (NM_030240)	-6.0	NM_030240	67278.0	Mm.345385	NM_030240	ENSMUSG00000107068	Pagr1a	2900092E17Rik|C77040|PA1|PAGR1	PAXIP1 associated glutamate rich protein 1A	protein-coding	102.0	151.0	96.0	1113.0	300.0	108.0	99.0	83.5
Merged-chr15-83510896-4	chr15	83510769	83510969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178869)	promoter-TSS (NM_178869)	38.0	NM_178869	319953.0	Mm.235007	NM_178869	ENSMUSG00000022442	Ttll1	6330444E16Rik|AV014541	tubulin tyrosine ligase-like 1	protein-coding	112.5	128.5	74.0	1223.5	255.0	82.5	109.0	94.0
Merged-chr5-76275170-4	chr5	76275067	76275267	+	830.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007715, intron 2 of 22)	intron (NM_007715, intron 2 of 22)	28335.0	NM_001305222	12753.0	Mm.3552	NM_007715	ENSMUSG00000029238	Clock	5330400M04Rik|KAT13D	circadian locomotor output cycles kaput	protein-coding	8.5	5.5	12.0	248.5	25.0	3.5	8.5	14.0
Merged-chr8-77483880-4	chr8	77483762	77483962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-33194.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	113.0	117.0	132.0	2337.5	237.5	90.0	116.0	96.0
Merged-chr11-95384666-5	chr11	95384650	95384850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357797)	promoter-TSS (NM_001357797)	-106.0	NM_016752	110172.0	Mm.4593	NM_016752	ENSMUSG00000020873	Slc35b1	UGTrel1|Ugalt2	solute carrier family 35, member B1	protein-coding	27.5	47.5	26.0	126.5	58.0	35.0	18.0	42.0
Merged-chr8-72443828-4	chr8	72443755	72443955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028500)	promoter-TSS (NM_028500)	-25.0	NM_028170	72254.0	Mm.30136	NM_028170	ENSMUSG00000052794	1700030K09Rik	-	RIKEN cDNA 1700030K09 gene	protein-coding	167.5	240.0	186.5	2367.0	417.0	167.0	179.5	158.5
Merged-chr10-42637018-4	chr10	42636929	42637129	+	780.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41887.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	10.0	6.5	5.5	100.0	16.0	1.5	10.0	5.5
Merged-chr16-20426420-4	chr16	20426321	20426521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013790)	promoter-TSS (NM_013790)	-27.0	NM_176839	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	51.5	83.0	42.5	734.0	90.0	51.0	48.0	40.5
Merged-chr14-54494385-4	chr14	54494276	54494476	+	784.404175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18276.0	NM_080726	140743.0	Mm.274727	NM_080726	ENSMUSG00000022176	Rem2	AW411893	rad and gem related GTP binding protein 2	protein-coding	19.0	18.0	8.5	117.0	35.5	6.5	8.0	17.5
Merged-chr2-160060273-4	chr2	160060183	160060383	+	956.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43630.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	15.0	15.5	8.5	287.5	25.0	23.0	28.5	9.5
Merged-chr3-105052225-4	chr3	105052162	105052362	+	863.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 1 of 5)	intron (NM_030249, intron 1 of 5)	691.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	6.5	20.0	10.5	63.5	53.5	7.5	11.0	9.0
Merged-chr6-136718962-4	chr6	136718848	136719048	+	983.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 18 of 25)	MER44B|DNA|TcMar-Tigger	-57055.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	14.0	22.5	20.5	357.5	53.0	18.0	24.0	30.5
Merged-chr1-173630790-4	chr1	173630690	173630890	+	913.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175026)	promoter-TSS (NM_175026)	-69.0	NM_175026	236312.0	Mm.447	NM_175026	ENSMUSG00000043263	Ifi209	4930422C14|AI447904|Ifix|Pyhin-1|Pyhin1	interferon activated gene 209	protein-coding	12.0	18.0	10.5	102.0	100.5	20.0	26.0	22.5
Merged-chr15-36173981-4	chr15	36173886	36174086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023127)	promoter-TSS (NM_023127)	-24.0	NM_023127	17749.0	Mm.27375	NM_023127	ENSMUSG00000045996	Polr2k	ABC10-alpha|MafY|Mt1a|RPABC4|RPB10alpha|RPB12|RPB7.0	polymerase (RNA) II (DNA directed) polypeptide K	protein-coding	77.0	74.5	39.5	1186.0	218.5	76.0	60.0	89.0
Merged-chr2-160621583-5	chr2	160621404	160621604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24393.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	32.5	29.0	50.5	594.5	42.0	32.5	34.5	40.5
Merged-chr6-146686157-4	chr6	146686103	146686303	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28985.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	35.5	87.5	39.5	371.0	50.5	18.5	20.5	18.5
Merged-chr5-64813651-4	chr5	64813541	64813741	+	904.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	10118.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	11.5	19.0	22.5	109.5	37.5	16.5	5.0	8.5
Merged-chr7-38002269-3	chr7	38002179	38002379	+	640.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011274, intron 1 of 10)	intron (NM_011274, intron 1 of 10)	17273.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	8.0	13.0	7.5	158.5	5.0	0.5	7.5	5.0
Merged-chr9-35116932-4	chr9	35116819	35117019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009178)	promoter-TSS (NM_009178)	-55.0	NM_009178	20443.0	Mm.275973	NM_009178	ENSMUSG00000032038	St3gal4	SIAT4-C|ST3Gal IV|ST3GalIV|Siat4c	ST3 beta-galactoside alpha-2,3-sialyltransferase 4	protein-coding	118.5	176.5	140.0	1529.0	349.5	116.5	138.0	107.5
Merged-chr6-108784969-4	chr6	108784871	108785071	+	948.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026011, intron 1 of 6)	intron (NM_026011, intron 1 of 6)	1912.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	20.5	32.0	9.0	336.5	42.5	17.5	18.5	5.0
Merged-chr10-43221432-4	chr10	43221328	43221528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168289)	promoter-TSS (NM_001168289)	-58.0	NM_027772	71365.0	Mm.490430	NM_027772	ENSMUSG00000038240	Pdss2	5430420P03Rik|Gm60|Plmp|kd|mDLP1	prenyl (solanesyl) diphosphate synthase, subunit 2	protein-coding	121.0	157.5	87.0	1905.5	313.0	102.0	145.5	109.0
Merged-chr16-36711002-3	chr16	36710902	36711102	+	850.1222529999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 3 of 7)	B3A|SINE|B2	17024.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	6.5	20.5	4.5	63.5	32.5	16.0	14.0	12.0
Merged-chr7-19227396-4	chr7	19227309	19227509	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207525)	promoter-TSS (NM_207525)	-980.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	14.5	12.5	7.0	131.0	59.5	15.5	6.5	23.0
Merged-chr8-41218072-3	chr8	41217995	41218195	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B3A_MM|LTR|ERVK	-2939.0	NM_145594	234199.0	Mm.277955	NM_145594	ENSMUSG00000031594	Fgl1	Mfire1	fibrinogen-like protein 1	protein-coding	0.0	0.5	0.0	0.0	92.0	41.5	62.0	37.0
Merged-chr10-127597484-4	chr10	127597399	127597599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	23649.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	62.5	52.0	39.5	590.5	105.0	37.0	44.0	29.5
Merged-chr10-95973480-4	chr10	95973380	95973580	+	868.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001932, intron 1 of 28)	intron (NM_001001932, intron 1 of 28)	32817.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	18.0	32.0	6.5	71.5	25.0	12.0	6.0	5.0
Merged-chr9-21015361-4	chr9	21015288	21015488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010493)	promoter-TSS (NM_010493)	-552.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	82.5	162.0	94.5	1585.0	256.5	104.0	119.5	107.0
Merged-chr4-43466625-4	chr4	43466524	43466724	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11998.0	NM_007654	12517.0	Mm.188157	NM_007654	ENSMUSG00000028459	Cd72	CD72c|Ly-19|Ly-32|Ly-m19|Lyb-2	CD72 antigen	protein-coding	20.0	23.0	42.5	460.0	39.0	15.5	16.0	27.5
Merged-chr4-139609178-3	chr4	139609071	139609271	+	705.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 5 of 8)	intron (NM_001205173, intron 5 of 8)	-13723.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	7.0	7.0	5.5	43.0	20.5	7.5	15.5	11.5
Merged-chr10-84337903-4	chr10	84337789	84337989	+	746.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17A|LTR|ERVK	102582.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	7.5	11.0	16.5	102.0	19.0	13.5	3.5	10.0
Merged-chr7-80029938-6	chr7	80029828	80030028	+	851.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	3700.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	15.0	19.0	24.0	532.5	25.5	12.5	28.5	39.5
Merged-chr1-140266299-2	chr1	140266197	140266397	+	621.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081027, intron 1 of 27)	intron (NM_001081027, intron 1 of 27)	20040.0	NM_001081027	240776.0	Mm.483845	NM_001081027	ENSMUSG00000052726	Kcnt2	E330038N15Rik|Slick	potassium channel, subfamily T, member 2	protein-coding	6.5	6.5	6.0	138.5	3.0	4.0	1.0	1.0
Merged-chr9-75411706-3	chr9	75411607	75411807	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040719, intron 1 of 3)	MER110A|LTR|ERV1	1523.0	NR_040719	71274.0	Mm.399152	NR_040719	ENSMUSG00000097021	4933433G15Rik	4921522K19Rik	RIKEN cDNA 4933433G15 gene	ncRNA	4.5	7.5	6.0	105.0	90.0	32.0	18.0	12.5
Merged-chr9-13614714-2	chr9	13614614	13614814	+	817.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-5275.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	1.0	1.5	5.0	153.5	6.0	8.5	7.5	7.5
Merged-chr7-121073195-6	chr7	121073095	121073295	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030691, intron 1 of 5)	B4|SINE|B4	1335.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	15.0	14.0	10.0	81.0	20.5	11.0	8.0	17.5
Merged-chr6-42424701-4	chr6	42424614	42424814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9821.0	NM_207028	387353.0	Mm.377914	NM_207028	ENSMUSG00000048284	Tas2r126	T2R12|T2R26|Tas2r26|Tas2r41|mGR26|mt2r35	taste receptor, type 2, member 126	protein-coding	40.5	50.5	41.5	954.5	70.0	23.5	48.0	28.5
Merged-chr2-170116894-3	chr2	170116794	170116994	+	791.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033299, intron 2 of 5)	intron (NM_001033299, intron 2 of 5)	14326.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	9.0	21.0	7.0	130.0	30.5	16.0	8.5	4.5
Merged-chr11-20193241-4	chr11	20193153	20193353	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8159.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	30.5	20.0	21.5	345.5	62.5	15.0	29.5	18.0
Merged-chr5-123436334-4	chr5	123436202	123436402	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133917, intron 1 of 16)	intron (NM_133917, intron 1 of 16)	41504.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	23.5	27.0	9.5	315.5	51.5	11.5	14.5	7.5
Merged-chr2-79050841-3	chr2	79050738	79050938	+	949.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181160.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	12.5	18.5	8.5	237.0	21.0	5.5	9.0	9.0
Merged-chr9-95560771-8	chr9	95560702	95560902	+	932.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198414, exon 1 of 1)	exon (NM_198414, exon 1 of 1)	985.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	9.0	16.5	17.5	184.0	17.5	6.5	10.5	20.0
Merged-chr7-73594648-4	chr7	73594531	73594731	+	866.104126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36236.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	10.0	14.0	10.0	125.0	35.0	9.5	10.5	14.5
Merged-chr7-16738354-4	chr7	16738253	16738453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198613)	promoter-TSS (NM_198613)	-91.0	NM_198613	232910.0	Mm.333597	NM_198613	ENSMUSG00000008036	Ap2s1	AI043088	adaptor-related protein complex 2, sigma 1 subunit	protein-coding	137.5	210.5	186.5	2727.5	324.5	128.0	180.5	137.0
Merged-chr17-10372434-6	chr17	10372324	10372524	+	982.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	47822.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	9.5	16.0	14.5	125.0	64.0	12.5	13.5	13.5
Merged-chr2-152293289-1	chr2	152293189	152293389	+	574.5	f0_balb.idr	promoter-TSS (NM_024196)	promoter-TSS (NM_024196)	-583.0	NM_024196	67231.0	Mm.288733	NM_024196	ENSMUSG00000027465	Tbc1d20	1110028I04Rik|2810442O16Rik|AI414693|bs	TBC1 domain family, member 20	protein-coding	6.0	7.5	7.0	96.0	13.5	0.5	6.5	8.5
Merged-chr6-136513791-1	chr6	136513691	136513891	+	652.0	f0_c57.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-5060.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	0.0	0.0	0.0	7.5	18.0	11.5	6.0	19.0
Merged-chr2-155405885-4	chr2	155405783	155405983	+	857.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019825, exon 10 of 14)	exon (NM_019825, exon 10 of 14)	24027.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	4.0	13.0	10.5	281.5	32.0	5.5	13.0	19.0
Merged-chr15-55502596-1	chr15	55502496	55502696	+	737.0	f0_balb.idr	intron (NM_181277, intron 45 of 47)	intron (NM_181277, intron 45 of 47)	54716.0	NM_026759	68537.0	Mm.236795	NM_026759	ENSMUSG00000022370	Mrpl13	1110002D09Rik	mitochondrial ribosomal protein L13	protein-coding	6.5	6.0	7.0	110.0	6.0	4.0	4.5	1.5
Merged-chr11-84597139-4	chr11	84597064	84597264	+	968.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71504.0	NR_038057	78365.0	Mm.260345	NR_038057	ENSMUSG00000087211	Lhx1os	1500016L03Rik|Lhx1as	LIM homeobox 1, opposite strand	ncRNA	4.5	15.5	8.0	102.5	43.0	15.0	7.5	18.0
Merged-chr1-52765405-4	chr1	52765311	52765511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38053.0	NM_001357464	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	58.5	49.5	83.0	904.5	53.5	22.5	35.5	38.5
Merged-chr5-73540331-3	chr5	73540263	73540463	+	785.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153313, intron 7 of 9)	intron (NR_153313, intron 7 of 9)	49337.0	NM_178896	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	5.5	6.0	5.0	119.5	15.5	2.0	2.0	7.5
Merged-chr8-83742435-4	chr8	83742330	83742530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1119.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	184.0	195.5	169.0	1882.0	297.5	133.5	140.0	152.5
Merged-chr1-37029969-4	chr1	37029867	37030067	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90440.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	10.0	13.5	12.5	208.0	35.0	9.5	15.5	8.5
Merged-chr7-30198843-4	chr7	30198711	30198911	+	823.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3658.0	NM_009795	12336.0	Mm.439782	NM_009795	ENSMUSG00000001794	Capns1	Capa-4|Capa4|Capn4|Cdps|Css1|D7Ertd146e	calpain, small subunit 1	protein-coding	4.0	19.0	15.5	117.5	26.0	8.5	13.0	12.0
Merged-chr10-96214067-4	chr10	96213964	96214164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12143.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	37.5	38.5	32.0	449.0	70.0	19.0	26.5	29.5
Merged-chr2-129593377-4	chr2	129593292	129593492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291021, exon 1 of 6)	5' UTR (NM_001291021, exon 1 of 6)	223.0	NM_001291022	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	91.0	195.0	73.5	819.0	181.0	80.0	52.0	59.0
Merged-chr3-69157757-4	chr3	69157656	69157856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_126533)	TTS (NR_126533)	26523.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	22.5	38.0	110.5	1279.5	96.5	9.5	54.0	47.0
Merged-chr3-138143448-4	chr3	138143345	138143545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348196)	promoter-TSS (NM_001348196)	-3.0	NM_175389	108943.0	Mm.471692	NM_175389	ENSMUSG00000004127	Trmt10a	3110023L08Rik|AA794508|Rg9mtd2|Rnmtd2	tRNA methyltransferase 10A	protein-coding	88.0	113.5	54.0	1097.0	260.5	97.0	124.0	134.5
Merged-chr5-137745927-4	chr5	137745818	137746018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029805)	promoter-TSS (NM_029805)	-51.0	NM_023910	78829.0	Mm.286399	NM_023910	ENSMUSG00000029723	Tsc22d4	0610009M14Rik|1700023B23Rik|AI415410|Thg-1pit|Tilz2	TSC22 domain family, member 4	protein-coding	55.5	84.0	38.5	605.0	143.0	52.5	60.5	51.5
Merged-chr12-28751801-4	chr12	28751636	28751836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201357)	promoter-TSS (NM_201357)	-92.0	NM_201357	380752.0	Mm.273724	NM_201357	ENSMUSG00000036613	Eipr1	D12Ertd604e|Tssc1	EARP complex and GARP complex interacting protein 1	protein-coding	110.5	152.5	128.0	1452.0	186.5	58.0	102.0	68.0
Merged-chr6-91741116-4	chr6	91741001	91741201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 8 of 14)	intron (NM_009320, intron 8 of 14)	57034.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	67.0	104.5	88.5	1527.0	93.0	36.0	59.5	94.0
Merged-chr3-108855567-4	chr3	108855429	108855629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177091, exon 13 of 13)	3' UTR (NM_177091, exon 13 of 13)	-15027.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	114.0	126.0	96.5	1393.0	376.5	149.0	191.0	173.0
Merged-chr2-163664081-4	chr2	163663962	163664162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 2 of 4)	L1MB2|LINE|L1	5604.0	NM_001164053	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	20.5	29.5	18.5	333.5	60.5	14.0	26.0	29.0
Merged-chr1-128723898-3	chr1	128723792	128723992	+	761.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-131593.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	8.5	20.0	6.0	122.5	28.0	3.5	6.5	2.5
Merged-chr11-3160571-3	chr11	3160465	3160665	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 9 of 32)	MTD|LTR|ERVL-MaLR	32898.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	39.0	23.0	49.5	341.0	3.0	1.5	1.0	1.0
Merged-chr2-50981305-3	chr2	50981145	50981345	+	778.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	71561.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	6.5	9.5	11.0	155.0	23.0	2.0	6.0	14.0
Merged-chr6-72899248-8	chr6	72899122	72899322	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347231)	promoter-TSS (NM_001347231)	70.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	16.0	30.0	35.5	276.5	68.5	33.0	22.5	27.5
Merged-chr2-38950599-4	chr2	38950473	38950673	+	984.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172854, intron 4 of 7)	intron (NM_172854, intron 4 of 7)	18593.0	NM_172854	241327.0	Mm.103491	NM_172854	ENSMUSG00000046618	Olfml2a	4932431K08Rik|mFLJ00237	olfactomedin-like 2A	protein-coding	50.5	32.5	74.0	1017.5	75.0	19.0	46.0	20.0
Merged-chr13-47038206-3	chr13	47038112	47038312	+	937.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016785, intron 3 of 8)	intron (NM_016785, intron 3 of 8)	5005.0	NM_016785	22017.0	Mm.10169	NM_016785	ENSMUSG00000021376	Tpmt	AW106912	thiopurine methyltransferase	protein-coding	2.0	3.5	8.0	36.0	56.0	14.0	19.5	23.0
Merged-chr2-181537837-4	chr2	181537738	181537938	+	929.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271584, intron 2 of 5)	intron (NM_001271584, intron 2 of 5)	17353.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	14.0	14.0	15.5	285.0	30.0	9.0	7.0	22.0
Merged-chr14-74774360-3	chr14	74774243	74774443	+	823.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 19 of 19)	intron (NM_001033439, intron 19 of 19)	42046.0	NM_016903	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	12.5	8.5	9.0	118.5	9.5	2.5	4.5	7.0
Merged-chr1-62483263-4	chr1	62483160	62483360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081050, intron 20 of 22)	intron (NM_001081050, intron 20 of 22)	-220057.0	NM_001077406	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	44.0	94.5	49.5	955.0	38.0	21.5	21.0	35.0
Merged-chr16-22266001-4	chr16	22265894	22266094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009186)	promoter-TSS (NM_009186)	11.0	NM_001330554	20462.0	Mm.210352	NM_009186	ENSMUSG00000022858	Tra2b	5730405G21Rik|D16Ertd266e|SIG-41|Sfrs10|Silg41|TRA2beta	transformer 2 beta	protein-coding	167.5	240.5	131.5	2026.0	441.5	200.0	183.5	183.5
Merged-chr11-61793581-4	chr11	61793473	61793673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013881, intron 20 of 26)	intron (NM_013881, intron 20 of 26)	-31485.0	NM_001164243	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	78.0	78.0	106.0	1473.5	152.5	35.0	86.0	68.0
Merged-chr4-132198636-2	chr4	132198536	132198736	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145393, intron 4 of 4)	RSINE1|SINE|B4	13620.0	NM_145393	213541.0	Mm.23998	NM_145393	ENSMUSG00000040025	Ythdf2	9430020E02Rik|HGRG8|NY-REN-2	YTH domain family 2	protein-coding	5.0	4.0	0.5	51.5	16.0	8.0	4.5	6.0
Merged-chr9-89971255-1	chr9	89971155	89971355	+	540.0	f1_balb.idr	intron (NM_001357743, intron 8 of 26)	intron (NM_001357743, intron 8 of 26)	61480.0	NM_001357743	19417.0	Mm.44561	NM_011245	ENSMUSG00000032356	Rasgrf1	AI844718|CDC25|CDC25Mm|Gnrp|Grf1|Grfbeta|P190-A|Ras-GRF1|p190|p190RhoGEF	RAS protein-specific guanine nucleotide-releasing factor 1	protein-coding	8.0	4.0	3.5	48.0	10.5	6.0	7.0	6.0
Merged-chr11-79878311-4	chr11	79878231	79878431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84056.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	39.5	40.0	22.5	668.5	80.5	21.5	24.0	27.0
Merged-chr5-107754905-4	chr5	107754795	107754995	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 17 of 17)	intron (NM_007964, intron 17 of 17)	-29090.0	NM_001267621	14581.0	Mm.2078	NM_010278	ENSMUSG00000029275	Gfi1	AW495828|Gfi-1|Pal-1|Pal1	growth factor independent 1	protein-coding	37.0	92.0	57.5	354.5	80.0	31.0	21.5	25.5
Merged-chr15-57980908-4	chr15	57980835	57981035	+	976.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4968.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	16.5	57.0	23.0	426.5	64.5	13.0	23.0	32.5
Merged-chr8-71668815-3	chr8	71668704	71668904	+	969.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029873, intron 1 of 41)	intron (NM_001029873, intron 1 of 41)	2953.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	4.5	12.0	6.0	122.0	30.0	13.5	19.5	20.5
Merged-chr3-104788825-4	chr3	104788755	104788955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291859)	promoter-TSS (NM_001291859)	-179.0	NM_007484	11853.0	Mm.262	NM_007484	ENSMUSG00000002233	Rhoc	AI324259|Arh9|Arhc	ras homolog family member C	protein-coding	62.0	97.0	90.0	1048.5	92.5	53.5	38.5	51.0
Merged-chr3-27268964-4	chr3	27268835	27269035	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-48142.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	15.0	29.5	14.5	174.5	29.5	10.0	12.5	17.0
Merged-chr1-91053929-4	chr1	91053821	91054021	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	477.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	15.5	22.5	17.0	205.0	41.5	12.5	23.5	19.0
Merged-chr5-92505663-4	chr5	92505552	92505752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007644)	promoter-TSS (NM_007644)	5.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	245.5	389.5	288.0	3290.5	740.0	296.5	368.0	288.0
Merged-chr15-78877326-5	chr15	78877238	78877438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145929, exon 1 of 17)	5' UTR (NM_145929, exon 1 of 17)	148.0	NM_145929	106039.0	Mm.251331	NM_145929	ENSMUSG00000033128	Gga1	4930406E12Rik|AU016030|AW209092	golgi associated, gamma adaptin ear containing, ARF binding protein 1	protein-coding	90.0	134.0	81.5	897.0	156.0	75.5	71.5	82.5
Merged-chr7-100964370-4	chr7	100964277	100964477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183168)	promoter-TSS (NM_183168)	-11.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	74.5	98.0	56.0	921.5	98.5	52.0	54.5	41.0
Merged-chr9-40713376-1	chr9	40713276	40713476	+	694.833313	f0_balb.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	27412.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	11.0	15.0	8.5	145.0	1.0	0.0	0.0	0.0
Merged-chr7-24134157-4	chr7	24134047	24134247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019941, intron 1 of 4)	CpG	1775.0	NR_153441	56525.0	Mm.295595	NM_019941	ENSMUSG00000047603	Zfp235	0610030O19Rik|AI428448	zinc finger protein 235	protein-coding	53.0	54.0	42.0	917.0	154.5	48.5	71.0	85.0
Merged-chr9-41136708-4	chr9	41136591	41136791	+	985.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	21371.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	76.0	122.0	70.0	754.0	72.0	43.0	35.0	18.0
Merged-chr5-3503957-4	chr5	3503865	3504065	+	952.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-39868.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	23.0	20.5	15.5	236.0	36.5	6.0	18.5	13.5
Merged-chr7-101822039-2	chr7	101821939	101822139	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001122739)	TTS (NM_001122739)	3726.0	NM_008887	11859.0	Mm.5028	NM_008887	ENSMUSG00000007946	Phox2a	Arix|Phox2|Pmx2|Pmx2a|Px2a	paired-like homeobox 2a	protein-coding	6.5	5.0	10.5	64.0	13.5	4.5	3.5	10.0
Merged-chr1-39650307-4	chr1	39650212	39650412	+	814.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170597, intron 1 of 3)	intron (NM_170597, intron 1 of 3)	870.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	9.5	17.5	6.0	131.0	25.5	4.0	8.5	15.0
Merged-chr19-46523213-4	chr19	46523079	46523279	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	21531.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	31.0	28.5	19.5	237.0	45.5	25.5	18.5	30.5
Merged-chr15-30609312-4	chr15	30609220	30609420	+	916.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-429806.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	3.5	7.5	14.5	157.5	23.5	20.0	24.0	20.0
Merged-chr14-103421462-4	chr14	103421371	103421571	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74671.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	4.5	12.0	10.0	154.0	15.0	5.5	8.5	9.0
Merged-chr4-116464331-4	chr4	116464219	116464419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008641)	promoter-TSS (NM_008641)	-138.0	NM_008641	17776.0	Mm.9287	NM_008641	ENSMUSG00000003810	Mast2	MAST205|Mtssk	microtubule associated serine/threonine kinase 2	protein-coding	39.5	80.0	28.0	628.0	123.0	53.5	62.5	36.5
Merged-chr18-80984232-3	chr18	80984132	80984332	+	721.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178280, intron 1 of 3)	intron (NM_178280, intron 1 of 3)	2346.0	NM_178280	20689.0	Mm.215917	NM_178280	ENSMUSG00000024565	Sall3	B130022O04Rik|Msal|Msal-1|Sal|Salt|Spalt	spalt like transcription factor 3	protein-coding	6.0	14.0	13.0	208.0	8.5	6.5	2.0	8.0
Merged-chr4-94979131-4	chr4	94979029	94979229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177239)	promoter-TSS (NM_177239)	-29.0	NM_177239	320713.0	Mm.208868	NM_177239	ENSMUSG00000062627	Mysm1	C130067A03Rik|C530050H10Rik	myb-like, SWIRM and MPN domains 1	protein-coding	195.5	304.0	146.5	3120.5	638.5	222.5	265.5	231.0
Merged-chr15-82338942-4	chr15	82338834	82339034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008669)	promoter-TSS (NM_008669)	-108.0	NM_008669	17939.0	Mm.20325	NM_008669	ENSMUSG00000022453	Naga	-	N-acetyl galactosaminidase, alpha	protein-coding	172.0	242.0	115.0	1656.5	396.5	136.5	145.5	134.5
Merged-chr3-81039542-4	chr3	81039437	81039637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	3121.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	28.0	27.5	12.0	363.5	73.0	20.0	25.5	20.0
Merged-chr18-34331099-4	chr18	34331000	34331200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025527)	promoter-TSS (NM_025527)	-45.0	NM_025527	66384.0	Mm.29452	NM_025527	ENSMUSG00000014504	Srp19	2310020D23Rik	signal recognition particle 19	protein-coding	178.5	285.0	136.0	2112.0	384.5	179.5	170.5	139.0
Merged-chr10-89745005-4	chr10	89744886	89745086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029166)	promoter-TSS (NM_029166)	-5.0	NM_029166	75089.0	Mm.268922	NM_029166	ENSMUSG00000019951	Uhrf1bp1l	2010319N22Rik|4930506D01Rik|AA589495|C80672|E030041M21Rik|mKIAA0701	UHRF1 (ICBP90) binding protein 1-like	protein-coding	116.0	163.5	97.5	1929.5	289.5	129.5	161.5	100.0
Merged-chr1-171827867-4	chr1	171827762	171827962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-11835.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	109.5	177.5	86.0	1324.5	255.5	94.5	120.5	81.0
Merged-chr14-73507826-4	chr14	73507763	73507963	+	822.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2186.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	7.5	9.0	7.5	134.0	13.5	9.5	10.5	9.5
Merged-chr6-13690575-4	chr6	13690477	13690677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12611.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	24.0	55.5	23.5	424.0	67.5	28.0	23.5	10.0
Merged-chr8-41240096-3	chr8	41239999	41240199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_023662, intron 1 of 37)	CpG	340.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	67.5	97.0	89.5	922.0	163.0	51.5	93.0	75.0
Merged-chr11-75935928-3	chr11	75935823	75936023	+	914.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10032.0	NM_001291159	380714.0	Mm.425697	NM_029548	ENSMUSG00000020847	Rph3al	Gm1753|Noc2	rabphilin 3A-like (without C2 domains)	protein-coding	6.0	9.0	9.0	258.5	4.5	6.0	5.5	16.5
Merged-chr13-81402581-3	chr13	81402497	81402697	+	951.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 77 of 89)	L1MDa|LINE|L1	230547.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	11.0	6.0	11.5	256.5	17.5	4.0	5.0	10.5
Merged-chr13-30834557-3	chr13	30834463	30834663	+	793.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025588, intron 23 of 27)	intron (NM_025588, intron 23 of 27)	85330.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	7.0	12.5	15.0	79.0	16.0	5.5	12.5	6.0
Merged-chr2-129306682-4	chr2	129306594	129306794	+	865.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040371, exon 5 of 5)	non-coding (NR_040371, exon 5 of 5)	3278.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	10.5	28.0	10.0	107.5	23.5	6.5	1.5	15.0
Merged-chr3-87616241-3	chr3	87616157	87616357	+	852.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1302.0	NM_001360197	213498.0	Mm.287267	NM_001003912	ENSMUSG00000041977	Arhgef11	PDZ-RhoGEF|Prg|RhoGEF|mKIAA0380	Rho guanine nucleotide exchange factor (GEF) 11	protein-coding	20.5	12.0	8.5	177.0	32.5	7.0	6.0	7.5
Merged-chr4-10972808-1	chr4	10972708	10972908	+	585.0	f0_balb.idr	Intergenic	Intergenic	34811.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	7.0	5.0	10.0	73.5	19.5	3.5	9.5	11.5
Merged-chr5-144248379-4	chr5	144248279	144248479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163709, intron 1 of 2)	intron (NM_001163709, intron 1 of 2)	3942.0	NM_001163709	55950.0	Mm.38011	NM_018772	ENSMUSG00000047843	Bri3	I3	brain protein I3	protein-coding	68.5	69.5	72.5	773.0	117.0	45.5	38.0	56.0
Merged-chr6-121245849-4	chr6	121245749	121245949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011909)	promoter-TSS (NM_011909)	-57.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	108.0	132.0	85.5	1631.5	283.0	86.0	116.0	95.5
Merged-chr10-20839104-4	chr10	20839004	20839204	+	928.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113443.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	20.0	22.5	36.5	626.5	30.0	8.5	13.0	17.5
Merged-chr1-176816970-4	chr1	176816870	176817070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	MLTR11B|LTR|ERVK	2310.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	86.0	125.0	99.0	1099.0	187.5	88.0	119.5	56.5
Merged-chr9-123480744-4	chr9	123480647	123480847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013860, intron 1 of 7)	intron (NM_013860, intron 1 of 7)	2046.0	NM_013860	29806.0	Mm.10987	NM_013860	ENSMUSG00000025239	Limd1	AW822033|D9Ertd192e	LIM domains containing 1	protein-coding	90.5	148.5	71.5	926.5	177.5	66.5	96.0	83.0
Merged-chr13-113918215-4	chr13	113918114	113918314	+	941.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	123706.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	10.0	7.0	23.0	296.5	45.5	13.0	21.0	32.5
Merged-chr7-45682905-4	chr7	45682814	45683014	+	735.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271578, intron 3 of 3)	intron (NM_001271578, intron 3 of 3)	-1108.0	NM_001358870	243967.0	Mm.291240	NM_001033356	ENSMUSG00000070564	Ntn5	Gm484	netrin 5	protein-coding	7.5	26.0	6.0	81.5	31.0	29.0	31.0	24.0
Merged-chr3-60618002-3	chr3	60617874	60618074	+	761.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 6 of 7)	MIRb|SINE|MIR	116795.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	11.5	26.5	7.5	87.5	14.5	12.0	9.0	9.5
Merged-chr4-58546829-1	chr4	58546729	58546929	+	625.0	f0_c57.idr	intron (NM_010336, intron 1 of 3)	intron (NM_010336, intron 1 of 3)	6464.0	NM_172989	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	3.0	2.0	2.5	22.5	23.5	8.0	15.5	10.0
Merged-chr9-123683891-3	chr9	123683794	123683994	+	702.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5062.0	NM_139142	102680.0	Mm.440867	NM_139142	ENSMUSG00000036814	Slc6a20a	A730081N20Rik|AU022428|Xt3s1|Xtrp3s1	solute carrier family 6 (neurotransmitter transporter), member 20A	protein-coding	5.5	9.5	2.0	86.5	15.5	5.5	4.5	7.0
Merged-chr7-139249621-4	chr7	139249577	139249777	+	887.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098636, intron 1 of 2)	intron (NM_001098636, intron 1 of 2)	1195.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	3.5	7.0	12.0	90.5	13.0	9.5	6.5	15.0
Merged-chr9-48480641-4	chr9	48480525	48480725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357505)	promoter-TSS (NM_001357505)	-14.0	NM_001357503	104444.0	Mm.21911	NM_024233	ENSMUSG00000032026	Rexo2	1810038D15Rik|AW107347|Rex2|Sfn|Smfn	RNA exonuclease 2	protein-coding	183.5	215.5	143.5	2013.0	307.0	98.0	163.0	127.5
Merged-chr10-77259206-4	chr10	77259108	77259308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_026944)	promoter-TSS (NR_026944)	15.0	NR_026944	100169878.0	Mm.420901	NR_026944	ENSMUSG00000078444	Gm10941	-	predicted gene 10941	ncRNA	247.5	362.5	190.0	3049.0	618.5	212.0	274.5	251.0
Merged-chr14-54617993-4	chr14	54617861	54618061	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011186)	promoter-TSS (NM_011186)	34.0	NM_011186	19173.0	Mm.8911	NM_011186	ENSMUSG00000022193	Psmb5	-	proteasome (prosome, macropain) subunit, beta type 5	protein-coding	20.0	26.5	30.0	82.0	65.0	20.0	14.0	19.0
Merged-chr1-177521297-3	chr1	177521198	177521398	+	778.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75477.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	11.0	5.0	7.5	167.0	29.5	4.0	5.0	7.5
Merged-chr18-36711191-3	chr18	36711072	36711272	+	755.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B3|LTR|ERVK	-15247.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	17.0	8.5	7.5	123.5	12.5	1.5	4.5	7.5
Merged-chr15-83464697-4	chr15	83464582	83464782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159509)	promoter-TSS (NM_001159509)	-76.0	NM_001358643	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	226.5	328.5	230.0	3363.5	514.0	175.5	241.5	183.5
Merged-chr4-31964568-1	chr4	31964468	31964668	+	541.0	f0_c57.idr	intron (NM_009316, intron 1 of 16)	intron (NM_009316, intron 1 of 16)	461.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	7.5	7.0	1.5	42.0	16.0	7.5	4.5	6.0
Merged-chr1-66859673-4	chr1	66859569	66859769	+	760.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007381, intron 1 of 10)	RMER16|LTR|ERVK	3640.0	NM_007381	11363.0	Mm.2445	NM_007381	ENSMUSG00000026003	Acadl	AA960361|AU018452|C79855|LCAD	acyl-Coenzyme A dehydrogenase, long-chain	protein-coding	24.0	11.5	16.5	168.5	17.5	6.0	12.5	10.5
Merged-chr1-36684318-4	chr1	36684214	36684414	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1131.0	NM_201365	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	19.0	42.5	17.0	262.5	47.0	22.5	34.5	22.0
Merged-chr16-87716529-4	chr16	87716430	87716630	+	983.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 2 of 4)	intron (NM_007520, intron 2 of 4)	17576.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	34.0	14.5	29.0	652.5	79.5	22.0	29.5	34.0
Merged-chr7-38071229-3	chr7	38071126	38071326	+	978.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36264.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	49.5	30.5	32.5	575.0	14.5	5.5	6.0	8.5
Merged-chr13-112811871-4	chr13	112811769	112811969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008903, intron 1 of 5)	MIRc|SINE|MIR	11092.0	NM_008247	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	20.5	33.0	23.0	446.0	81.5	41.5	36.0	63.0
Merged-chr5-36465008-4	chr5	36464922	36465122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024478)	promoter-TSS (NM_024478)	-163.0	NM_024478	17713.0	Mm.21535	NM_024478	ENSMUSG00000029198	Grpel1	AA408748|mt-GrpE#1|mt-Grpel1	GrpE-like 1, mitochondrial	protein-coding	230.0	402.5	208.0	3109.0	660.5	293.0	274.5	249.0
Merged-chr19-21777274-4	chr19	21777191	21777391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1049.0	NM_001033759	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	60.0	81.0	83.5	1706.5	110.5	67.5	75.5	67.0
Merged-chr18-69595930-4	chr18	69595823	69596023	+	990.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	249763.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	20.5	31.0	22.0	468.5	107.5	14.0	21.5	22.0
Merged-chr17-83668129-4	chr17	83668044	83668244	+	977.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-36249.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	23.0	25.5	13.5	154.5	37.5	15.5	18.5	20.5
Merged-chr19-6300548-3	chr19	6300458	6300658	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010119)	TTS (NM_010119)	-5899.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	7.0	20.0	7.5	158.0	11.5	8.0	4.0	11.0
Merged-chr10-85917076-4	chr10	85916945	85917145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302886)	promoter-TSS (NM_001302886)	-59.0	NM_001302886	72843.0	Mm.25307	NM_181650	ENSMUSG00000035529	Prdm4	1700031E19Rik|2810470D21Rik|AW552272|SC-1|SC1	PR domain containing 4	protein-coding	235.5	314.0	226.5	4115.5	587.0	241.0	285.5	203.5
Merged-chr3-19955745-3	chr3	19955650	19955850	+	800.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1304.0	NM_001276250	12870.0	Mm.13787	NM_007752	ENSMUSG00000003617	Cp	D3Ertd555e	ceruloplasmin	protein-coding	2.5	31.5	6.0	94.5	18.5	6.5	8.5	13.5
Merged-chr1-67033426-4	chr1	67033296	67033496	+	902.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190984, intron 3 of 9)	intron (NM_001190984, intron 3 of 9)	5438.0	NM_001190984	14768.0	Mm.20522	NM_021295	ENSMUSG00000026000	Lancl1	AW124738|Gpr69|Gpr69a|p40	LanC (bacterial lantibiotic synthetase component C)-like 1	protein-coding	11.5	11.5	17.5	559.5	26.0	13.5	23.0	20.0
Merged-chr16-45038810-3	chr16	45038719	45038919	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55192.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	20.0	26.5	41.5	583.5	13.5	10.5	8.0	6.0
Merged-chr5-91000133-4	chr5	91000021	91000221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026788, intron 6 of 7)	intron (NM_026788, intron 6 of 7)	-27396.0	NM_053087	71920.0	Mm.197319	NM_053087	ENSMUSG00000035020	Epgn	2310069M11Rik|epigen	epithelial mitogen	protein-coding	30.0	38.5	41.0	680.5	89.0	30.0	45.0	40.5
Merged-chr10-82666633-4	chr10	82666549	82666749	+	970.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029102, intron 3 of 9)	L2c|LINE|L2	24001.0	NM_029102	74782.0	Mm.191281	NM_029102	ENSMUSG00000020251	Glt8d2	1110021D20Rik	glycosyltransferase 8 domain containing 2	protein-coding	16.5	32.0	4.5	218.0	39.5	23.0	23.0	23.5
Merged-chr8-116992749-4	chr8	116992615	116992815	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026572, intron 1 of 4)	intron (NM_026572, intron 1 of 4)	734.0	NM_026572	68133.0	Mm.258462	NM_026572	ENSMUSG00000034424	Gcsh	1100001L02Rik|5730591C18Rik	glycine cleavage system protein H (aminomethyl carrier)	protein-coding	13.5	23.5	6.0	154.0	20.0	4.5	10.5	14.5
Merged-chr4-8690687-6	chr4	8690611	8690811	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001277149, exon 1 of 38)	5' UTR (NM_001277149, exon 1 of 38)	305.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	21.5	26.0	15.0	223.5	42.0	13.5	17.5	27.5
Merged-chr7-67243019-3	chr7	67242927	67243127	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291195, intron 8 of 10)	intron (NM_001291195, intron 8 of 10)	20411.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	10.5	8.0	9.0	128.5	18.5	5.0	4.0	6.5
Merged-chr4-19604692-4	chr4	19604584	19604784	+	972.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025476, intron 8 of 9)	intron (NM_025476, intron 8 of 9)	29618.0	NM_025476	66302.0	Mm.440686	NM_025476	ENSMUSG00000028229	Rmdn1	Fam82b|RMD-1	regulator of microtubule dynamics 1	protein-coding	16.5	13.5	24.0	374.5	56.5	14.5	33.5	32.5
Merged-chr2-58865389-4	chr2	58865288	58865488	+	875.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 11 of 13)	RMER1B|Other|Other	110204.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	12.5	33.0	17.5	137.5	31.0	16.5	10.5	12.0
Merged-chr6-137687913-4	chr6	137687816	137688016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38631.0	NM_007945	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	39.0	55.0	32.0	493.5	51.5	19.0	42.0	21.0
Merged-chr13-41601872-4	chr13	41601762	41601962	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-4354.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	9.0	22.5	37.0	357.5	32.5	10.0	31.0	19.5
Merged-chr5-23433413-4	chr5	23433329	23433529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026984)	promoter-TSS (NM_026984)	924.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	137.5	216.5	135.5	2353.5	510.5	185.0	195.0	189.0
Merged-chr14-41021004-4	chr14	41020918	41021118	+	922.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-7185.0	NM_001316737	70564.0	Mm.27227	NM_027464	ENSMUSG00000021792	Fam213a	5730469M10Rik|AU040822|Adrx|Pamm	family with sequence similarity 213, member A	protein-coding	5.0	10.0	5.0	136.0	42.0	15.5	25.5	26.5
Merged-chr3-157297390-3	chr3	157297291	157297491	+	965.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039094, intron 6 of 6)	intron (NM_001039094, intron 6 of 6)	236699.0	NR_152231	381498.0	Mm.402095	NR_152231	ENSMUSG00000105834	4930592C13Rik	Gm1657|Gm43159	RIKEN cDNA 4930592C13 gene	ncRNA	2.0	7.0	2.5	60.5	55.0	11.5	38.5	22.0
Merged-chr1-142468481-3	chr1	142468374	142468574	+	994.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1172223.0	NM_020025	26878.0	Mm.285580	NM_020025	ENSMUSG00000033849	B3galt2	-	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 2	protein-coding	25.0	7.5	10.5	346.5	12.5	5.5	9.5	8.0
Merged-chr1-34821606-4	chr1	34821523	34821723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 3 of 6)	L1ME2|LINE|L1	19901.0	NM_183019	226970.0	Mm.41604	NM_183019	ENSMUSG00000037509	Arhgef4	9330140K16Rik|Asef	Rho guanine nucleotide exchange factor (GEF) 4	protein-coding	43.0	59.5	62.0	693.0	91.5	31.5	44.5	26.5
Merged-chr1-64223357-3	chr1	64223263	64223463	+	604.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101974.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	5.5	8.5	9.0	136.5	14.0	9.0	11.5	5.5
Merged-chr19-21280080-3	chr19	21280002	21280202	+	576.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 5 of 5)	intron (NM_009551, intron 5 of 5)	7824.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	6.0	14.0	9.5	11.0	11.0	1.0	3.0	2.5
Merged-chr18-12655275-4	chr18	12655173	12655373	+	777.641663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028341, intron 1 of 13)	intron (NM_028341, intron 1 of 13)	11740.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	7.0	5.0	13.0	109.0	34.5	10.0	24.5	14.0
Merged-chr14-101515654-3	chr14	101515546	101515746	+	743.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	93545.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	5.0	7.0	17.0	153.0	11.0	2.5	2.0	3.5
Merged-chr13-49205635-4	chr13	49205543	49205743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026738, intron 2 of 5)	MIRb|SINE|MIR	10383.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	224.5	373.5	340.0	3698.0	681.0	279.0	334.5	254.0
Merged-chr3-54601290-3	chr3	54601191	54601391	+	944.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91524.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	0.0	0.0	1.0	0.0	108.5	37.5	23.0	31.0
Merged-chr2-117299893-4	chr2	117299786	117299986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 5 of 16)	intron (NM_011246, intron 5 of 16)	42991.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	81.0	225.5	127.5	1165.5	346.0	133.5	129.0	86.0
Merged-chr10-125764586-4	chr10	125764484	125764684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41B|LTR|ERVL	-201635.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	38.0	63.5	35.0	762.0	110.5	66.0	90.5	54.0
Merged-chr8-14651598-4	chr8	14651496	14651696	+	866.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-236940.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	5.0	2.5	8.0	114.0	52.0	16.0	15.0	22.0
Merged-chr9-120941094-3	chr9	120940994	120941194	+	644.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007614, intron 1 of 14)	L2|LINE|L2	7516.0	NM_001165902	12387.0	Mm.291928	NM_007614	ENSMUSG00000006932	Ctnnb1	Bfc|Catnb|Mesc	catenin (cadherin associated protein), beta 1	protein-coding	7.5	10.5	6.0	94.5	9.5	6.0	1.0	9.0
Merged-chr3-39182930-3	chr3	39182830	39183030	+	671.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	295990.0	NM_183221	329628.0	Mm.316210	NM_183221	ENSMUSG00000046743	Fat4	6030410K14Rik|9430004M15	FAT atypical cadherin 4	protein-coding	1.0	0.0	1.0	24.0	31.0	5.5	14.5	6.0
Merged-chr1-52653558-4	chr1	52653471	52653671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MusHAL1|LINE|L1	22866.0	NM_001142647	227094.0	Mm.83541	NM_172654	ENSMUSG00000043015	Nemp2	5330401P04Rik|9830163O08|Tmem194b	nuclear envelope integral membrane protein 2	protein-coding	60.0	100.5	94.0	890.0	160.5	76.0	69.5	76.0
Merged-chr14-8099945-4	chr14	8099847	8100047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	1736.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	95.5	152.5	113.0	1577.0	265.0	117.0	111.5	127.5
Merged-chr10-40314753-3	chr10	40314658	40314858	+	924.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12570.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	7.0	6.0	9.0	178.0	13.5	9.0	5.5	12.0
Merged-chr3-132755961-3	chr3	132755877	132756077	+	759.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163455, intron 22 of 25)	intron (NM_001163455, intron 22 of 25)	71833.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	6.0	7.5	13.5	111.5	13.5	5.5	11.0	4.0
Merged-chr2-144047108-4	chr2	144047008	144047208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001044750, intron 1 of 2)	intron (NM_001044750, intron 1 of 2)	14006.0	NM_207275	403171.0	Mm.389362	NM_207275	ENSMUSG00000037307	Banf2	4930517K23Rik|Baf-L|Baf-like|Gm115	barrier to autointegration factor 2	protein-coding	54.5	99.5	59.0	886.0	129.5	36.0	76.0	50.5
Merged-chr17-87474434-3	chr17	87474316	87474516	+	904.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27481.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	5.5	16.0	5.0	96.0	19.0	6.0	9.0	5.0
Merged-chr3-97158116-4	chr3	97158070	97158270	+	864.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019800)	promoter-TSS (NM_019800)	-607.0	NM_019800	66659.0	Mm.101368	NM_019800	ENSMUSG00000028093	Acp6	5730559A09Rik|ACPL1|AU022842|mPACPL1	acid phosphatase 6, lysophosphatidic	protein-coding	9.0	13.5	15.5	43.0	26.0	10.0	6.5	9.0
Merged-chr2-51148560-4	chr2	51148424	51148624	+	808.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028810, intron 1 of 4)	intron (NM_028810, intron 1 of 4)	587.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	3.0	15.0	6.0	101.0	15.0	7.5	9.0	5.5
Merged-chr17-74804028-3	chr17	74803931	74804131	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	MER20|DNA|hAT-Charlie	86281.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	2.0	6.0	5.0	22.0	124.5	38.5	58.5	37.0
Merged-chr13-3766053-1	chr13	3765953	3766153	+	787.0	f0_balb.idr	Intergenic	Intergenic	38265.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	8.0	6.0	11.5	138.5	0.0	0.0	0.0	1.5
Merged-chr1-191964351-4	chr1	191964239	191964439	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-13031.0	NM_001177900	74023.0	Mm.274393	NM_023727	ENSMUSG00000049353	Rd3	3322402L07Rik|rd-3|rd3	retinal degeneration 3	protein-coding	19.5	21.5	28.5	371.0	32.0	9.5	7.5	12.0
Merged-chr4-10919273-4	chr4	10919190	10919390	+	724.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44792.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	7.5	10.0	4.5	132.5	17.5	7.0	12.5	15.0
Merged-chr12-85608274-4	chr12	85608202	85608402	+	757.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030887, exon 2 of 4)	exon (NM_030887, exon 2 of 4)	8284.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	15.5	13.0	21.0	103.0	30.0	2.5	6.5	8.0
Merged-chr10-60391241-4	chr10	60391225	60391425	+	907.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 30 of 68)	intron (NM_001252635, intron 30 of 68)	-8401.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	10.5	10.5	9.0	216.5	8.5	6.0	8.0	11.5
Merged-chr7-19832055-4	chr7	19831974	19832174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9319.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	23.0	46.5	42.0	443.0	61.5	23.5	21.5	31.0
Merged-chr2-165317571-4	chr2	165317469	165317669	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080287, intron 1 of 20)	intron (NM_080287, intron 1 of 20)	-1218.0	NM_001302754	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	33.5	17.5	28.0	692.0	31.5	8.0	21.5	20.0
Merged-chr10-10555033-2	chr10	10554933	10555133	+	807.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	3174.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	11.5	8.0	7.5	71.0	12.5	8.0	10.0	6.0
Merged-chr8-33673375-4	chr8	33673244	33673444	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 4 of 12)	intron (NM_010344, intron 4 of 12)	20106.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	7.5	1.0	3.0	114.0	133.0	22.5	45.0	35.5
Merged-chr13-100859272-4	chr13	100859142	100859342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25815.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	101.0	148.5	90.5	1145.5	280.0	106.0	137.0	67.5
Merged-chr8-47917867-4	chr8	47917770	47917970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 2 of 22)	intron (NM_133791, intron 2 of 22)	72681.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	22.5	28.0	45.0	709.5	69.0	20.5	25.0	32.5
Merged-chr2-23067751-2	chr2	23067651	23067851	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028793)	promoter-TSS (NM_028793)	-450.0	NR_149742	74159.0	Mm.181973	NM_028793	ENSMUSG00000026781	Acbd5	1300014E15Rik	acyl-Coenzyme A binding domain containing 5	protein-coding	8.5	16.5	6.0	160.5	28.0	13.5	10.0	10.5
Merged-chr7-141370148-4	chr7	141370035	141370235	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5025.0	NR_033532	320871.0	Mm.475463	NM_177280	ENSMUSG00000086844	B230206H07Rik	-	RIKEN cDNA B230206H07 gene	ncRNA	20.5	10.5	10.0	396.0	34.0	9.0	17.5	20.0
Merged-chr17-10318836-4	chr17	10318732	10318932	+	956.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159517, exon 1 of 8)	exon (NM_001159517, exon 1 of 8)	529.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	13.0	35.0	25.5	158.5	31.0	21.5	21.5	17.5
Merged-chr4-102567779-5	chr4	102567704	102567904	+	918.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-2256.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	10.5	9.0	13.0	88.0	13.0	2.5	4.0	10.0
Merged-chr5-96851703-3	chr5	96851587	96851787	+	828.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVK26-int|LTR|ERVK	58302.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	10.0	15.0	7.5	135.5	13.0	11.0	2.5	0.5
Merged-chr5-123864224-5	chr5	123864084	123864284	+	904.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_030701, exon 1 of 1)	3' UTR (NM_030701, exon 1 of 1)	1332.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	5.0	7.0	5.5	103.0	18.5	12.0	12.5	13.5
Merged-chr9-85842651-3	chr9	85842554	85842754	+	724.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164792)	promoter-TSS (NM_001164792)	-198.0	NM_001164792	21983.0	Mm.20864	NM_011627	ENSMUSG00000035274	Tpbg	5T4|AW495680|WAIF1	trophoblast glycoprotein	protein-coding	3.5	11.5	4.0	76.0	19.0	9.0	4.5	4.5
Merged-chr1-171233538-4	chr1	171233437	171233637	+	986.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010185, intron 1 of 4)	intron (NM_010185, intron 1 of 4)	812.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	15.0	25.5	16.5	88.0	53.0	22.0	8.5	8.0
Merged-chr8-68557092-1	chr8	68556992	68557192	+	836.666687	f0_balb.idr	5' UTR (NM_001252623, exon 4 of 11)	5' UTR (NM_001252623, exon 4 of 11)	178054.0	NM_001252623	234356.0	Mm.334569	NM_172753	ENSMUSG00000036356	Csgalnact1	4732435N03Rik|CSGalNAcT-1	chondroitin sulfate N-acetylgalactosaminyltransferase 1	protein-coding	7.5	11.0	7.0	174.0	0.0	1.5	2.0	2.5
Merged-chr7-31151688-4	chr7	31151620	31151820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360351)	promoter-TSS (NM_001360351)	-549.0	NR_153431	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	162.5	341.0	205.5	1526.0	442.0	197.0	174.5	92.0
Merged-chr11-44392699-3	chr11	44392606	44392806	+	893.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7357.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	20.0	28.0	16.5	216.5	21.0	3.5	8.0	4.0
Merged-chr5-3501287-4	chr5	3501192	3501392	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-42541.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	12.0	26.5	8.5	146.5	33.5	17.0	11.0	18.5
Merged-chr9-20385165-4	chr9	20385041	20385241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004190)	promoter-TSS (NM_001004190)	17.0	NM_001004190	434377.0	Mm.379669	NM_001004190	ENSMUSG00000045519	Zfp560	2310030G09Rik|Znf560	zinc finger protein 560	protein-coding	112.5	136.5	79.5	1518.0	251.0	75.0	111.0	97.0
Merged-chr8-85801565-4	chr8	85801453	85801653	+	881.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028007, intron 6 of 17)	B3|SINE|B2	39396.0	NM_028007	71927.0	Mm.61018	NM_028007	ENSMUSG00000031703	Itfg1	2310047C21Rik|AI314457|Cda08|D8Wsu49e	integrin alpha FG-GAP repeat containing 1	protein-coding	21.5	14.0	20.0	226.0	23.0	3.0	9.5	13.0
Merged-chr10-80399693-4	chr10	80399590	80399790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306143)	promoter-TSS (NM_001306143)	-159.0	NM_001306143	17192.0	Mm.7142	NM_013595	ENSMUSG00000035478	Mbd3	AI181826|AU019209	methyl-CpG binding domain protein 3	protein-coding	455.0	751.0	492.0	6324.5	1164.0	396.5	516.5	458.0
Merged-chr18-14682289-4	chr18	14682232	14682432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009280, intron 1 of 10)	CpG	582.0	NM_001161369	268996.0	Mm.31761	NM_009280	ENSMUSG00000037013	Ss18	D130059H17|Ssxt|Syt	SS18, nBAF chromatin remodeling complex subunit	protein-coding	32.5	34.5	57.0	450.5	55.5	19.5	18.0	35.0
Merged-chr6-87187080-4	chr6	87186994	87187194	+	904.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054041, intron 16 of 17)	intron (NM_054041, intron 16 of 17)	82348.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	6.5	17.0	9.0	111.0	30.0	14.0	16.5	1.0
Merged-chr8-123849539-2	chr8	123849440	123849640	+	766.666626	f0_balb.idr|f1_balb.idr	intron (NM_028536, intron 2 of 3)	RLTR17|LTR|ERVK	10669.0	NM_028536	73420.0	Mm.157746	NM_028536	ENSMUSG00000031971	Ccsap	1700054N08Rik|AI853424	centriole, cilia and spindle associated protein	protein-coding	13.0	23.0	15.5	78.0	1.0	0.0	0.0	0.5
Merged-chr9-105642957-4	chr9	105642847	105643047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081309)	promoter-TSS (NM_001081309)	-48.0	NM_001081309	75669.0	Mm.274830	NM_029380	ENSMUSG00000032571	Pik3r4	2210010O15Rik|C730038E05Rik|C85833|D9Ertd418e|Vps15|p150	phosphoinositide-3-kinase regulatory subunit 4	protein-coding	80.0	114.5	43.5	953.0	202.5	75.0	76.0	66.0
Merged-chr18-60560747-4	chr18	60560644	60560844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025776)	promoter-TSS (NM_025776)	-42.0	NM_025776	66810.0	Mm.275106	NM_025776	ENSMUSG00000024604	Rbm22	8430430L24Rik	RNA binding motif protein 22	protein-coding	57.5	54.0	48.0	815.5	148.5	71.0	67.0	78.5
Merged-chr5-88765788-3	chr5	88765679	88765879	+	946.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007832, intron 1 of 6)	L1ME1|LINE|L1	766.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	2.0	12.5	5.5	135.5	17.0	8.5	4.5	13.5
Merged-chr18-24653420-4	chr18	24653316	24653516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026779)	promoter-TSS (NM_026779)	-275.0	NM_026779	68591.0	Mm.28252	NM_026779	ENSMUSG00000039616	Mocos	1110018O12Rik|HMCS|MCS|MOS	molybdenum cofactor sulfurase	protein-coding	22.5	50.0	22.0	419.0	90.5	27.0	24.5	25.5
Merged-chr12-102296135-3	chr12	102296040	102296240	+	799.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	12499.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	9.0	38.0	21.0	160.0	23.0	9.0	9.0	6.5
Merged-chr13-112366905-4	chr13	112366806	112367006	+	808.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 9 of 11)	intron (NM_001168403, intron 9 of 11)	78388.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	18.0	22.5	13.0	212.5	22.5	10.5	5.0	5.5
Merged-chr17-71011060-2	chr17	71010978	71011178	+	798.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A1|LTR|ERVL-MaLR	-8479.0	NM_010867	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	3.0	8.0	1.5	6.0	22.0	8.0	6.0	6.5
Merged-chr2-18903841-4	chr2	18903701	18903901	+	960.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355149, intron 3 of 10)	intron (NM_001355149, intron 3 of 10)	94320.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	18.5	13.0	19.5	291.5	39.0	10.0	13.5	15.5
Merged-chr15-8710569-6	chr15	8710529	8710729	+	951.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_148938, exon 1 of 10)	5' UTR (NM_148938, exon 1 of 10)	178.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	6.5	16.5	9.0	113.0	22.5	17.5	9.5	21.0
Merged-chr15-95801421-4	chr15	95801317	95801517	+	923.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	10574.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	16.5	46.0	18.0	563.5	46.0	11.0	17.5	15.0
Merged-chr6-7738071-4	chr6	7737964	7738164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D5|LTR|ERVK	-44882.0	NM_012055	27053.0	Mm.2942	NM_012055	ENSMUSG00000029752	Asns	-	asparagine synthetase	protein-coding	125.0	234.5	153.5	1159.5	315.0	132.5	132.5	127.5
Merged-chr6-87914648-3	chr6	87914532	87914732	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173737, exon 2 of 7)	exon (NM_173737, exon 2 of 7)	656.0	NM_173737	232210.0	Mm.246241	NM_173737	ENSMUSG00000030060	Hmces	8430410A17Rik|C85376	5-hydroxymethylcytosine (hmC) binding, ES cell specific	protein-coding	23.0	24.0	9.5	184.5	17.5	13.0	16.0	20.5
Merged-chr1-120467528-3	chr1	120467426	120467626	+	758.0888669999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37498.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	1.5	1.0	4.0	21.5	41.5	13.5	35.0	25.0
Merged-chr1-84839692-6	chr1	84839638	84839838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025386)	promoter-TSS (NM_025386)	-103.0	NM_025386	66153.0	Mm.381192	NM_025386	ENSMUSG00000073633	Fbxo36	0610008D19Rik|1110020F21Rik|2410002G19Rik|D1Ertd757e	F-box protein 36	protein-coding	49.0	69.0	67.0	536.5	153.5	54.5	30.5	72.0
Merged-chr7-110018718-1	chr7	110018618	110018818	+	1000.0	f0_balb.idr	intron (NM_181517, intron 1 of 24)	CpG	467.0	NM_001362172	233726.0	Mm.222328	NM_181517	ENSMUSG00000066232	Ipo7	A330055O14Rik|C330016G14|Imp7|Ranbp7	importin 7	protein-coding	27.5	37.0	38.0	527.0	63.5	20.5	27.0	44.0
Merged-chr2-170319360-4	chr2	170319277	170319477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36984.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	81.0	115.0	54.5	1368.0	273.0	86.5	130.5	117.5
Merged-chr7-44892582-8	chr7	44892477	44892677	+	932.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029365)	promoter-TSS (NM_029365)	-153.0	NM_001331206	75613.0	Mm.157778	NM_029365	ENSMUSG00000002968	Med25	2610034E13Rik|2610529E18Rik|ESTM2	mediator complex subunit 25	protein-coding	14.0	14.0	9.0	88.0	30.5	6.5	7.0	12.5
Merged-chr19-32249932-4	chr19	32249764	32249964	+	970.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 3 of 9)	intron (NM_144792, intron 3 of 9)	-38851.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	17.0	17.0	18.0	302.5	21.5	9.5	12.0	24.5
Merged-chr10-30712676-4	chr10	30712580	30712780	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 3 of 14)	intron (NM_001358842, intron 3 of 14)	-56813.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	22.0	18.5	20.5	416.5	48.0	11.5	36.0	21.5
Merged-chr16-92418464-2	chr16	92418364	92418564	+	993.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	ORR1A1-int|LTR|ERVL-MaLR	-18386.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	7.0	9.5	9.0	67.5	18.0	3.0	6.0	11.0
Merged-chr16-91375147-4	chr16	91375058	91375258	+	963.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 1 of 7)	ORR1C2|LTR|ERVL-MaLR	2375.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	20.0	48.5	20.0	362.5	16.5	11.5	19.0	19.0
Merged-chr1-37634847-2	chr1	37634747	37634947	+	780.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_028096, intron 3 of 9)	B2_Mm2|SINE|B2	84964.0	NM_028096	72097.0	Mm.142607	NM_028096	ENSMUSG00000026090	2010300C02Rik	-	RIKEN cDNA 2010300C02 gene	protein-coding	5.0	11.5	5.5	29.0	12.0	6.5	6.0	9.0
Merged-chr1-65112245-4	chr1	65112158	65112358	+	811.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175293, intron 5 of 7)	intron (NM_175293, intron 5 of 7)	-8895.0	NM_007774	12964.0	Mm.26904	NM_007774	ENSMUSG00000044429	Cryga	Cryg-4|DGcry-4	crystallin, gamma A	protein-coding	6.0	10.5	3.5	89.0	28.5	8.5	16.5	6.5
Merged-chr4-43287553-4	chr4	43287440	43287640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177195, intron 2 of 28)	MTE2b|LTR|ERVL-MaLR	20381.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	37.5	48.5	23.5	544.0	51.5	16.0	25.0	32.5
Merged-chr4-98396071-4	chr4	98395981	98396181	+	978.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005784, intron 1 of 19)	CpG	255.0	NM_172696	12695.0	Mm.90218	NM_007704	ENSMUSG00000061859	Patj	Cipp|Inadl	PATJ, crumbs cell polarity complex component	protein-coding	28.0	42.5	22.5	571.0	54.5	12.0	28.0	15.0
Merged-chr17-86445114-4	chr17	86445022	86445222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 2 of 14)	intron (NM_011104, intron 2 of 14)	-157944.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	248.0	299.0	202.5	3220.5	157.0	65.5	95.5	82.5
Merged-chr19-21476977-4	chr19	21476878	21477078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4317.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	54.5	78.5	80.0	1080.5	88.0	29.0	24.5	49.0
Merged-chr3-109264711-1	chr3	109264611	109264811	+	823.0	f0_balb.idr	Intergenic	Intergenic	-75972.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	15.5	2.0	9.0	179.0	21.5	5.5	12.5	8.0
Merged-chr7-141466246-4	chr7	141466149	141466349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001025103, exon 10 of 10)	3' UTR (NM_001025103, exon 10 of 10)	-1113.0	NM_009842	12476.0	Mm.30246	NM_009842	ENSMUSG00000025510	Cd151	PETA-3|SFA-1|Tspan24	CD151 antigen	protein-coding	53.5	57.5	25.5	567.0	73.0	34.0	66.0	32.5
Merged-chr5-8349737-4	chr5	8349616	8349816	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	18444.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	20.0	39.5	37.5	524.5	76.5	27.0	29.5	17.5
Merged-chr2-120314120-2	chr2	120314020	120314220	+	729.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024145)	promoter-TSS (NM_001024145)	45.0	NM_001024145	271844.0	Mm.24880	NM_001024145	ENSMUSG00000046971	Pla2g4f	4732472I07Rik|Gm647|Pla2zeta	phospholipase A2, group IVF	protein-coding	3.5	7.0	3.0	24.0	16.5	18.0	5.0	6.0
Merged-chr10-117437392-4	chr10	117437306	117437506	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10029.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	11.5	68.5	38.0	154.5	58.0	13.5	7.5	8.5
Merged-chr4-11580164-4	chr4	11580047	11580247	+	838.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256142, intron 1 of 1)	intron (NM_001256142, intron 1 of 1)	485.0	NM_001256142	100503583.0	Mm.249437	NM_001256142	ENSMUSG00000094595	Fsbp	-	fibrinogen silencer binding protein	protein-coding	4.0	14.0	11.5	134.5	33.0	11.5	17.0	8.0
Merged-chr19-38025528-4	chr19	38025426	38025626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 1 of 53)	intron (NM_001302140, intron 1 of 53)	18051.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	135.5	128.0	128.5	1558.0	216.0	55.0	89.5	83.0
Merged-chr4-150882787-4	chr4	150882689	150882889	+	928.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	27132.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	13.5	31.0	9.5	173.5	47.0	13.5	27.0	15.5
Merged-chr11-21288319-3	chr11	21288215	21288415	+	999.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290628, intron 7 of 22)	B2_Mm1t|SINE|B2	49283.0	NM_001290628	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	32.5	27.0	25.0	237.0	19.0	9.5	10.5	10.0
Merged-chr5-137652632-3	chr5	137652530	137652730	+	754.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303271, intron 11 of 12)	intron (NM_001303271, intron 11 of 12)	-6916.0	NM_010571	16369.0	Mm.24486	NM_010571	ENSMUSG00000047182	Irs3	AA408304	insulin receptor substrate 3	protein-coding	1.5	8.5	1.5	62.0	14.5	5.5	8.0	5.5
Merged-chr6-32544311-4	chr6	32544203	32544403	+	969.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	33162.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	15.5	22.5	28.0	397.5	26.0	13.0	17.5	16.0
Merged-chr13-47105978-4	chr13	47105881	47106081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025900, intron 1 of 10)	CpG	240.0	NM_025900	110052.0	Mm.131150	NM_025900	ENSMUSG00000021377	Dek	1810019E15Rik|D13H6S231E	DEK oncogene (DNA binding)	protein-coding	61.0	116.5	62.5	625.5	259.0	91.5	75.5	72.0
Merged-chr1-138940602-4	chr1	138940502	138940702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA8|LINE|L1	-23107.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	62.5	198.0	79.5	1253.5	279.0	112.5	60.0	67.5
Merged-chr5-147077557-4	chr5	147077523	147077723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_181730, exon 1 of 3)	5' UTR (NM_181730, exon 1 of 3)	277.0	NM_009087	20018.0	Mm.317557	NM_009087	ENSMUSG00000029642	Polr1d	1110003G10Rik|AC19|RPA16|Rpo1-3	polymerase (RNA) I polypeptide D	protein-coding	47.5	62.5	44.5	538.5	101.0	51.0	42.0	66.0
Merged-chr11-67025066-4	chr11	67024988	67025188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291042)	promoter-TSS (NM_001291042)	-66.0	NM_001291042	338369.0	Mm.128138	NM_177392	ENSMUSG00000050270	Tmem220	-	transmembrane protein 220	protein-coding	168.5	198.0	117.5	2069.5	389.0	126.0	235.5	149.0
Merged-chr4-59753716-3	chr4	59753629	59753829	+	787.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001015681, exon 4 of 4)	3' UTR (NM_001015681, exon 4 of 4)	30126.0	NM_001013577	66209.0	Mm.51988	NM_001013577	ENSMUSG00000038544	Inip	1110054O05Rik|2610312O17Rik|AA399876|Ssbip1	INTS3 and NABP interacting protein	protein-coding	13.5	23.0	5.5	116.0	25.0	7.5	13.5	2.0
Merged-chr15-98994099-4	chr15	98994006	98994206	+	946.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8141.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	14.0	30.5	1.0	219.5	49.5	16.5	21.0	10.0
Merged-chr7-90019747-4	chr7	90019648	90019848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9411.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	160.5	279.5	218.5	2897.0	331.5	143.0	209.0	157.0
Merged-chr17-32891701-4	chr17	32891570	32891770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207245)	promoter-TSS (NM_207245)	-67.0	NM_207245	240066.0	Mm.26636	NM_207245	ENSMUSG00000095325	Zfp870	AI173952	zinc finger protein 870	protein-coding	26.5	31.0	22.5	288.5	56.0	30.5	21.5	25.0
Merged-chr14-73145120-2	chr14	73145020	73145220	+	849.333374	f1_balb.idr|f1_c57bl6.idr	intron (NR_033185, intron 1 of 15)	intron (NR_033185, intron 1 of 15)	2335.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	9.5	10.5	4.5	28.0	2.0	4.5	1.0	6.5
Merged-chr10-43123619-4	chr10	43123515	43123715	+	947.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175407, intron 4 of 6)	Lx6|LINE|L1	50915.0	NM_175407	109205.0	Mm.153750	NM_175407	ENSMUSG00000038248	Sobp	2900009C16Rik|5330439J01Rik|JXC1|jc	sine oculis binding protein	protein-coding	18.5	11.5	18.5	574.0	32.5	13.0	20.5	33.0
Merged-chr3-101595399-4	chr3	101595319	101595519	+	912.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	9288.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	13.5	11.5	19.0	366.5	29.5	8.0	12.5	17.5
Merged-chr8-25215955-2	chr8	25215855	25216055	+	834.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-14413.0	NM_177089	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	4.0	6.0	8.5	51.5	24.0	5.5	7.5	9.5
Merged-chr9-94432392-4	chr9	94432340	94432540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IMPB_01|Satellite|Satellite	105641.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	31.5	35.5	26.0	379.0	45.0	15.5	24.0	21.5
Merged-chr7-68087699-3	chr7	68087595	68087795	+	924.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	135438.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	8.0	4.5	10.0	133.5	11.0	9.5	8.5	11.5
Merged-chr19-12805896-3	chr19	12805777	12805977	+	636.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134152, intron 2 of 8)	L2|LINE|L2	7298.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	12.0	4.5	7.0	44.0	14.5	3.0	0.5	10.0
Merged-chr8-61487873-4	chr8	61487772	61487972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145595, exon 1 of 5)	exon (NM_145595, exon 1 of 5)	138.0	NM_145595	234309.0	Mm.29059	NM_145595	ENSMUSG00000031641	Cbr4	A730083J17Rik|BC009118	carbonyl reductase 4	protein-coding	39.0	55.5	58.5	504.5	69.5	40.5	26.5	50.5
Merged-chr11-8660076-4	chr11	8659992	8660192	+	927.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	intron (NM_001083587, intron 1 of 30)	4443.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	40.0	41.0	34.5	449.0	44.5	10.5	12.5	6.5
Merged-chr3-15576651-4	chr3	15576540	15576740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1575.0	NM_001173460	668101.0	Mm.423523	NM_001173460	ENSMUSG00000095028	Sirpb1b	-	signal-regulatory protein beta 1B	protein-coding	43.5	40.0	54.0	378.0	162.0	31.5	64.0	56.5
Merged-chr11-85574674-4	chr11	85574547	85574747	+	907.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 21 of 25)	intron (NM_138681, intron 21 of 25)	145097.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	9.5	21.0	12.5	149.0	45.5	17.5	10.5	11.0
Merged-chr2-66120190-4	chr2	66120095	66120295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015736, intron 1 of 10)	intron (NM_015736, intron 1 of 10)	4598.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	24.5	47.5	39.0	585.5	82.0	39.5	58.5	40.0
Merged-chr7-67229076-4	chr7	67228971	67229171	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175215)	TTS (NM_175215)	6455.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	8.5	30.5	18.5	277.5	28.5	14.5	26.5	45.5
Merged-chr6-28136079-4	chr6	28135963	28136163	+	824.104126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361125)	promoter-TSS (NM_001361125)	-917.0	NM_001361125	14823.0	Mm.320732	NM_008174	ENSMUSG00000024211	Grm8	A230002O04|GluR8|Gprc1h|mGluR8	glutamate receptor, metabotropic 8	protein-coding	11.5	12.5	10.0	210.5	19.0	9.5	14.0	19.5
Merged-chr6-50560976-2	chr6	50560876	50561076	+	969.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5498.0	NM_007808	13063.0	Mm.35389	NM_007808	ENSMUSG00000063694	Cycs	-	cytochrome c, somatic	protein-coding	6.5	6.0	4.0	104.5	20.5	6.0	6.0	16.0
Merged-chr6-40576512-4	chr6	40576412	40576612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021364, exon 6 of 6)	3' UTR (NM_021364, exon 6 of 6)	5124.0	NM_146383	258381.0	Mm.377469	NM_146383	ENSMUSG00000045514	Olfr460	MOR120-2	olfactory receptor 460	protein-coding	84.5	140.0	70.0	1438.0	192.5	72.5	62.0	56.5
Merged-chr5-107708469-4	chr5	107708371	107708571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4991.0	NR_045871	654809.0	Mm.399159	NR_045871	ENSMUSG00000106333	4930428O21Rik	-	RIKEN cDNA 4930428O21 gene	ncRNA	35.5	83.0	87.0	761.5	102.0	52.5	55.5	66.5
Merged-chr6-145214204-3	chr6	145214096	145214296	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163628, intron 1 of 2)	URR1A|DNA|hAT-Charlie	3049.0	NM_001362057	67636.0	Mm.486359	NM_133688	ENSMUSG00000040370	Etfrf1	4930469P12Rik|AL022899|Ghiso|Lyrm5	electron transfer flavoprotein regulatory factor 1	protein-coding	12.5	8.5	8.5	191.0	26.5	4.0	4.0	7.0
Merged-chr2-153076032-5	chr2	153075942	153076142	+	837.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145536, intron 6 of 8)	intron (NM_145536, intron 6 of 8)	10087.0	NM_145536	228788.0	Mm.299979	NM_145536	ENSMUSG00000027474	Ccm2l	-	cerebral cavernous malformation 2-like	protein-coding	13.5	28.5	13.5	240.0	20.5	16.0	9.5	10.5
Merged-chr19-5802580-4	chr19	5802480	5802680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002847)	promoter-TSS (NR_002847)	92.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	39.0	72.0	34.5	321.0	145.0	55.5	42.5	31.5
Merged-chr17-72837452-4	chr17	72837363	72837563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357370)	promoter-TSS (NM_001357370)	-73.0	NM_001357369	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	107.0	142.0	164.5	1453.0	217.0	91.5	116.0	110.5
Merged-chr17-34952661-8	chr17	34952531	34952731	+	973.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027943)	promoter-TSS (NR_027943)	-160.0	NR_015536	68763.0	Mm.28895	NR_015536	ENSMUSG00000092203	1110038B12Rik	0610009C20Rik|0910001G04Rik	RIKEN cDNA 1110038B12 gene	ncRNA	14.0	31.5	26.5	139.0	30.0	15.5	7.0	11.5
Merged-chr2-37772035-4	chr2	37771942	37772142	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4207.0	NM_001163566	241324.0	Mm.392369	NM_001163566	ENSMUSG00000035403	Crb2	5930402A21|BC043114	crumbs family member 2	protein-coding	15.5	26.0	19.0	164.5	19.0	11.5	8.5	10.5
Merged-chr7-97331254-3	chr7	97331132	97331332	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1091.0	NM_001039039	622320.0	Mm.334029	NM_001039039	ENSMUSG00000044952	Kctd21	EG622320	potassium channel tetramerisation domain containing 21	protein-coding	6.0	4.0	5.5	62.0	7.0	7.0	4.5	8.5
Merged-chr5-113619340-4	chr5	113619236	113619436	+	847.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	24267.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	5.5	9.5	15.0	321.0	20.0	5.0	15.5	13.0
Merged-chr7-98361428-4	chr7	98361312	98361512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168539)	promoter-TSS (NM_001168539)	-84.0	NM_001168539	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	57.0	56.0	36.0	665.5	132.5	51.0	51.0	44.0
Merged-chr19-46500969-2	chr19	46500869	46501069	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053100)	promoter-TSS (NM_053100)	-679.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	6.5	10.0	9.5	95.5	26.5	5.0	5.0	17.0
Merged-chr2-167740991-4	chr2	167740890	167741090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49813.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	53.5	57.0	41.0	857.0	101.5	53.5	48.5	42.0
Merged-chr4-141857656-4	chr4	141857590	141857790	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025994)	TTS (NM_025994)	-11331.0	NM_001033875	76701.0	Mm.489680	NM_001033875	ENSMUSG00000062478	Ctrc	1810044E12Rik	chymotrypsin C (caldecrin)	protein-coding	16.0	24.0	11.5	190.5	42.5	16.5	25.5	16.5
Merged-chr2-157838433-4	chr2	157838344	157838544	+	955.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025680, intron 11 of 15)	intron (NM_025680, intron 11 of 15)	-76209.0	NM_198627	277432.0	Mm.441156	NM_198627	ENSMUSG00000037843	Vstm2l	Gm691	V-set and transmembrane domain containing 2-like	protein-coding	12.0	13.5	21.0	373.0	28.5	4.5	19.0	37.0
Merged-chr11-97840688-3	chr11	97840596	97840796	+	786.866699	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080935)	promoter-TSS (NM_001080935)	-84.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	5.5	9.0	2.5	40.0	23.5	4.5	5.5	5.5
Merged-chr6-22343369-4	chr6	22343282	22343482	+	846.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138587, intron 1 of 9)	intron (NM_138587, intron 1 of 9)	12699.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	5.5	12.5	6.0	135.0	23.0	6.0	13.0	17.0
Merged-chr11-62076913-4	chr11	62076812	62077012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029936)	promoter-TSS (NM_001029936)	-112.0	NM_001029936	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	62.0	129.0	74.0	1030.5	137.0	46.0	66.0	57.0
Merged-chr11-51817952-4	chr11	51817874	51818074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 12 of 12)	intron (NM_001357588, intron 12 of 12)	39507.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	50.0	81.0	44.5	687.5	126.0	54.0	48.5	53.5
Merged-chr9-113725776-4	chr9	113725682	113725882	+	978.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15691.0	NM_001286599	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	18.5	33.0	33.5	327.0	47.0	11.5	22.5	25.0
Merged-chr2-142694630-4	chr2	142694535	142694735	+	881.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 23 of 26)	intron (NM_001355123, intron 23 of 26)	206829.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	20.0	35.5	17.5	213.0	22.5	9.0	23.5	11.5
Merged-chr14-70971607-3	chr14	70971551	70971751	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 6 of 7)	intron (NM_001302094, intron 6 of 7)	81544.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	21.0	42.5	46.5	521.0	1.5	2.5	2.0	4.5
Merged-chr4-155562937-4	chr4	155562842	155563042	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159637)	promoter-TSS (NM_001159637)	561.0	NM_138671	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	22.0	22.5	24.5	176.5	40.0	8.5	14.5	24.0
Merged-chr5-106964368-4	chr5	106964274	106964474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009863)	promoter-TSS (NM_009863)	52.0	NM_009863	12545.0	Mm.20842	NM_009863	ENSMUSG00000029283	Cdc7	AI597260|Cdc7l1|muCdc7	cell division cycle 7 (S. cerevisiae)	protein-coding	55.0	69.5	80.0	828.5	91.0	35.5	37.0	43.0
Merged-chr19-43711287-4	chr19	43711219	43711419	+	958.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053103, intron 5 of 12)	intron (NM_053103, intron 5 of 12)	21630.0	NM_053103	93685.0	Mm.248237	NM_053103	ENSMUSG00000025192	Entpd7	1810012B13Rik|1810020C02Rik|2810003F23Rik|LALP1|Lysal2	ectonucleoside triphosphate diphosphohydrolase 7	protein-coding	9.0	26.5	9.5	175.5	47.0	14.5	19.5	24.5
Merged-chr11-67537562-4	chr11	67537455	67537655	+	862.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	4557.0	NM_008088	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	5.0	15.0	7.0	162.0	35.5	11.5	27.5	20.0
Merged-chr17-78415631-2	chr17	78415531	78415731	+	749.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 1 of 9)	intron (NM_001360407, intron 1 of 9)	2521.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	5.0	8.0	2.0	105.5	16.0	4.5	7.0	7.5
Merged-chr4-95417326-1	chr4	95417226	95417426	+	758.0	f0_c57.idr	Intergenic	Intergenic	-140181.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	6.5	2.5	10.0	176.5	22.5	10.5	13.0	18.5
Merged-chr11-98949833-4	chr11	98949734	98949934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177302, intron 2 of 9)	intron (NM_001177302, intron 2 of 9)	10123.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	100.5	105.5	83.0	1290.0	210.0	68.5	99.0	89.0
Merged-chr6-119918867-4	chr6	119918753	119918953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149727, intron 7 of 10)	intron (NR_149727, intron 7 of 10)	16155.0	NM_001166383	19365.0	Mm.149	NM_011236	ENSMUSG00000030166	Rad52	Rad52yh	RAD52 homolog, DNA repair protein	protein-coding	53.0	127.5	88.5	1032.5	119.0	41.0	55.5	47.5
Merged-chr1-172376442-4	chr1	172376326	172376526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026234)	promoter-TSS (NM_026234)	-105.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	234.0	365.0	249.5	2902.0	644.0	243.5	262.5	245.0
Merged-chr2-160011527-4	chr2	160011419	160011619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5134.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	66.5	34.5	52.5	718.0	49.5	19.5	39.0	32.0
Merged-chr6-37426029-4	chr6	37425942	37426142	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	MT2B2|LTR|ERVL	16106.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	16.0	44.5	71.5	945.5	84.0	31.5	48.0	40.5
Merged-chr6-116186693-4	chr6	116186600	116186800	+	816.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	intron (NM_177412, intron 1 of 5)	6674.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	5.5	20.0	6.5	146.0	43.0	5.5	16.0	12.0
Merged-chr18-60523481-4	chr18	60523386	60523586	+	954.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2668.0	NM_026302	67665.0	Mm.272801	NM_026302	ENSMUSG00000024603	Dctn4	1110001K06Rik|4930547K17Rik|C130039E17Rik|p62	dynactin 4	protein-coding	75.5	77.5	68.5	1112.0	33.0	7.0	14.5	13.0
Merged-chr4-62265631-4	chr4	62265523	62265723	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20806.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	13.5	47.5	24.5	326.5	68.0	30.0	34.5	29.0
Merged-chr7-110629194-2	chr7	110629094	110629294	+	668.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009627, exon 4 of 4)	3' UTR (NM_009627, exon 4 of 4)	1537.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	5.5	5.0	5.5	32.5	13.0	1.5	1.0	6.5
Merged-chr14-70792826-3	chr14	70792726	70792926	+	803.283325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18445.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	18.0	9.0	16.0	234.0	19.5	3.0	6.5	5.5
Merged-chr13-59853787-2	chr13	59853674	59853874	+	819.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30627.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	3.0	4.0	1.0	12.0	10.0	13.5	9.0	7.5
Merged-chr11-50236757-4	chr11	50236665	50236865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132732, intron 4 of 4)	CpG	1767.0	NM_001313968	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	187.5	268.0	226.5	2409.0	413.5	165.0	219.5	177.5
Merged-chr8-72216044-4	chr8	72215906	72216106	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3169.0	NM_001080812	234421.0	Mm.211247	NM_001080812	ENSMUSG00000074240	Cib3	C730014M21Rik|Gm1107|KIP3	calcium and integrin binding family member 3	protein-coding	43.5	68.0	49.5	331.5	31.0	10.5	15.0	13.5
Merged-chr10-121586836-4	chr10	121586730	121586930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019786)	promoter-TSS (NM_019786)	-36.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	186.5	368.5	228.0	2870.0	584.0	181.0	257.5	219.0
Merged-chr7-19692104-4	chr7	19691995	19692195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110009, intron 2 of 3)	intron (NM_001110009, intron 2 of 3)	564.0	NM_001110009	11812.0	Mm.182440	NM_007469	ENSMUSG00000040564	Apoc1	Apo-CIB|ApoC-IB|apo-CI|apoC-I	apolipoprotein C-I	protein-coding	65.5	39.0	69.0	758.5	103.0	34.5	63.0	58.5
Merged-chr7-29908222-2	chr7	29908100	29908300	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243908)	promoter-TSS (NM_001243908)	-317.0	NM_001243908	73729.0	Mm.333743	NM_001243908	ENSMUSG00000099689	Zfp383	1110003H10Rik	zinc finger protein 383	protein-coding	15.5	20.0	7.0	187.5	41.5	14.0	17.5	22.5
Merged-chr1-120532712-4	chr1	120532594	120532794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27670.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	26.0	79.5	59.0	573.0	166.0	69.0	76.0	61.5
Merged-chr6-113379495-4	chr6	113379412	113379612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170485, intron 1 of 3)	intron (NM_001170485, intron 1 of 3)	1399.0	NM_001170486	68089.0	Mm.289306	NM_026552	ENSMUSG00000079426	Arpc4	20kDa|5330419I20Rik|AI327076|p20-Arc	actin related protein 2/3 complex, subunit 4	protein-coding	31.5	56.0	28.5	480.5	87.5	23.0	43.5	37.5
Merged-chr9-65598950-4	chr9	65598861	65599061	+	896.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11801.0	NM_001357527	208084.0	Mm.211032	NM_172453	ENSMUSG00000041064	Pif1	4631410M14|AI449441	PIF1 5'-to-3' DNA helicase	protein-coding	15.0	29.5	11.0	127.0	27.0	19.5	10.0	13.5
Merged-chr8-126667056-4	chr8	126666962	126667162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73626.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	28.0	26.0	27.0	477.5	53.5	8.5	27.0	19.0
Merged-chr15-39944656-4	chr15	39944560	39944760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172814)	promoter-TSS (NM_172814)	-666.0	NM_172814	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	39.5	45.0	26.5	667.0	64.0	22.5	37.0	36.5
Merged-chr10-45067736-2	chr10	45067636	45067836	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011156, intron 1 of 14)	intron (NM_011156, intron 1 of 14)	522.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	7.0	12.0	19.5	216.5	20.0	10.0	12.5	19.0
Merged-chr8-57801395-4	chr8	57801295	57801495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175032, intron 10 of 11)	intron (NM_175032, intron 10 of 11)	-148340.0	NM_144731	108150.0	Mm.62886	NM_144731	ENSMUSG00000031608	Galnt7	AI225872	polypeptide N-acetylgalactosaminyltransferase 7	protein-coding	106.5	149.5	120.0	2225.5	375.0	121.0	134.0	131.5
Merged-chr9-92457927-3	chr9	92457847	92458047	+	988.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178711, intron 1 of 8)	CpG	569.0	NM_178711	235527.0	Mm.55289	NM_178711	ENSMUSG00000032377	Plscr4	AV245873	phospholipid scramblase 4	protein-coding	8.5	17.0	16.5	244.5	10.5	7.5	7.5	6.0
Merged-chr4-139490918-4	chr4	139490827	139491027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39621.0	NM_183148	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	17.0	41.0	22.0	293.0	20.5	6.5	19.5	28.0
Merged-chr16-32163640-4	chr16	32163530	32163730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146069, intron 1 of 3)	intron (NM_146069, intron 1 of 3)	1964.0	NM_146069	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	22.5	51.0	27.0	433.5	96.5	36.5	31.0	31.5
Merged-chr9-67842964-4	chr9	67842867	67843067	+	910.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177184, intron 1 of 84)	intron (NM_177184, intron 1 of 84)	2571.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	26.0	25.5	23.0	373.5	23.5	13.0	7.5	15.0
Merged-chr5-135494449-4	chr5	135494363	135494563	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	50659.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	18.0	14.0	1.0	145.5	32.0	14.5	22.5	17.0
Merged-chr5-67828620-4	chr5	67828533	67828733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	MLT1A|LTR|ERVL-MaLR	18798.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	37.0	27.0	30.0	877.5	83.0	28.5	53.5	33.5
Merged-chr3-55660466-4	chr3	55660352	55660552	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 49 of 57)	intron (NM_030595, intron 49 of 57)	-122058.0	NM_010750	17116.0	Mm.440209	NM_010750	ENSMUSG00000056947	Mab21l1	AW047968	mab-21-like 1 (C. elegans)	protein-coding	19.0	26.0	21.0	714.0	50.0	15.5	24.5	17.5
Merged-chr10-82699773-4	chr10	82699643	82699843	+	949.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081218, intron 1 of 14)	CpG	736.0	NM_001081218	67933.0	Mm.127405	NM_026462	ENSMUSG00000020246	Hcfc2	1700129L13Rik|AU019838|fkls	host cell factor C2	protein-coding	13.0	22.0	14.0	198.0	30.5	5.0	10.0	18.5
Merged-chr11-120519898-4	chr11	120519820	120520020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10807.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	65.0	125.0	65.0	807.5	198.5	63.5	81.0	47.0
Merged-chr12-4107584-3	chr12	4107494	4107694	+	765.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153082, exon 7 of 7)	3' UTR (NM_153082, exon 7 of 7)	25020.0	NM_153082	217378.0	Mm.271656	NM_153082	ENSMUSG00000020657	Dnajc27	AI639580|C330021A05Rik|Rabj|Rbj	DnaJ heat shock protein family (Hsp40) member C27	protein-coding	7.0	13.0	6.5	71.0	9.5	4.0	5.5	6.0
Merged-chr12-21129628-3	chr12	21129543	21129743	+	559.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004364, intron 1 of 26)	intron (NM_001004364, intron 1 of 26)	17887.0	NM_001135192	211914.0	Mm.358946	NM_001004364	ENSMUSG00000052632	Asap2	6530401G17Rik|Ddef2|Gm1523|Gm592|PAG3|PAP	ArfGAP with SH3 domain, ankyrin repeat and PH domain 2	protein-coding	7.5	8.5	7.0	90.0	6.0	0.5	2.0	3.5
Merged-chr6-51567824-4	chr6	51567722	51567922	+	776.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 2 of 6)	intron (NM_001361577, intron 2 of 6)	22529.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	13.0	25.0	10.0	70.5	23.0	8.0	2.0	0.5
Merged-chr6-22398593-4	chr6	22398463	22398663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42482.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	44.0	40.0	46.5	855.0	109.0	37.0	59.5	36.0
Merged-chr5-74729647-3	chr5	74729535	74729735	+	779.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26732.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	13.0	8.5	24.0	192.0	4.0	0.0	0.0	0.5
Merged-chr17-27534876-4	chr17	27534738	27534938	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21736.0	NM_001166536	15361.0	Mm.4438	NM_016660	ENSMUSG00000046711	Hmga1	AL023995|Hmga1a|Hmga1b|Hmgi|Hmgiy|Hmgy	high mobility group AT-hook 1	protein-coding	13.0	31.5	2.5	172.5	36.0	8.5	23.5	5.0
Merged-chr2-18687951-4	chr2	18687859	18688059	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10941.0	NM_007552	12151.0	Mm.289584	NM_007552	ENSMUSG00000026739	Bmi1	AW546694|Bmi-1|Pcgf4	Bmi1 polycomb ring finger oncogene	protein-coding	11.0	3.0	1.5	128.5	44.0	8.5	7.5	18.0
Merged-chr7-19093269-4	chr7	19093156	19093356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126095, exon 15 of 15)	non-coding (NR_126095, exon 15 of 15)	-1288.0	NM_011383	20475.0	Mm.3410	NM_011383	ENSMUSG00000040841	Six5	Dmahp|MDMAHP|TrexBF	sine oculis-related homeobox 5	protein-coding	13.5	53.0	16.0	250.5	67.5	34.0	32.0	33.0
Merged-chr11-120767266-2	chr11	120767166	120767366	+	588.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16938.0	NM_009053	19719.0	Mm.871	NM_009053	ENSMUSG00000025158	Rfng	-	RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	9.5	5.5	5.0	17.5	5.5	6.0	8.5	8.0
Merged-chr4-11480199-4	chr4	11480087	11480287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5771.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	34.0	33.5	27.5	704.5	95.5	27.5	40.0	40.5
Merged-chr13-58074992-4	chr13	58074895	58075095	+	869.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 5 of 16)	L1M2|LINE|L1	27433.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	13.0	37.0	16.5	254.0	40.5	5.0	9.5	3.5
Merged-chr7-44312086-4	chr7	44311975	44312175	+	849.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034115, intron 1 of 24)	intron (NM_001034115, intron 1 of 24)	1811.0	NM_001034115	243961.0	Mm.360368	NM_001034115	ENSMUSG00000038738	Shank1	-	SH3 and multiple ankyrin repeat domains 1	protein-coding	1.5	13.5	11.0	50.0	33.0	8.5	10.0	15.5
Merged-chr4-133592798-2	chr4	133592687	133592887	+	669.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8414.0	NM_133884	100210.0	Mm.274001	NM_133884	ENSMUSG00000028848	Gpn2	AI838661|Atpbd1b|R74630	GPN-loop GTPase 2	protein-coding	4.0	5.0	4.5	75.0	17.0	6.0	8.5	4.5
Merged-chr18-67389864-3	chr18	67389824	67390024	+	846.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026473)	promoter-TSS (NM_026473)	-807.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	7.0	13.0	2.5	95.5	21.0	8.5	10.5	16.0
Merged-chr11-76845718-4	chr11	76845607	76845807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007754, intron 1 of 20)	intron (NM_007754, intron 1 of 20)	1301.0	NM_007754	12874.0	Mm.276736	NM_007754	ENSMUSG00000020841	Cpd	AA960140|AW322530|D830034L15Rik	carboxypeptidase D	protein-coding	50.5	77.5	45.0	409.0	63.5	42.0	39.0	36.0
Merged-chr14-62277950-2	chr14	62277850	62278050	+	680.0	f0_balb.idr|f0_c57.idr	intron (NM_173419, intron 1 of 1)	intron (NM_173419, intron 1 of 1)	15029.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	5.5	11.5	16.5	118.0	25.5	8.5	9.0	7.5
Merged-chr10-84405380-3	chr10	84405307	84405507	+	684.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 2 of 6)	intron (NM_001004363, intron 2 of 6)	35064.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	6.5	14.0	6.5	105.5	13.5	0.0	4.0	6.0
Merged-chr18-38946590-4	chr18	38946487	38946687	+	740.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 4 of 4)	L1M4|LINE|L1	-27888.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	7.5	14.5	14.5	202.5	18.0	9.0	9.0	8.0
Merged-chr12-112849541-2	chr12	112849441	112849641	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11375.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	5.5	8.5	0.0	44.5	17.0	6.5	6.0	7.5
Merged-chr4-45981215-4	chr4	45981104	45981304	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355189, intron 1 of 16)	intron (NM_001355189, intron 1 of 16)	8373.0	NM_001355189	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	38.0	60.0	24.0	460.0	34.5	17.0	18.0	20.5
Merged-chr17-7925906-4	chr17	7925800	7926000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145968)	promoter-TSS (NM_145968)	-100.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	89.0	158.0	75.5	1437.0	272.5	93.5	94.5	93.0
Merged-chr10-128459111-4	chr10	128459110	128459310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114096)	promoter-TSS (NM_001114096)	-26.0	NM_001114096	68094.0	Mm.417338	NM_198160	ENSMUSG00000025369	Smarcc2	5930405J04Rik	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	protein-coding	23.0	59.0	13.0	337.0	100.5	49.5	54.0	36.5
Merged-chr8-109039974-3	chr8	109039884	109040084	+	704.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35238.0	NR_126329	628686.0	Mm.203332	NR_126329	ENSMUSG00000097393	D030068K23Rik	-	RIKEN cDNA D030068K23 gene	ncRNA	9.5	7.5	9.0	245.5	16.5	2.0	7.0	6.0
Merged-chr4-119980067-4	chr4	119979896	119980096	+	946.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	(TG)n|Simple_repeat|Simple_repeat	165318.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	7.5	18.0	18.0	105.5	30.5	5.5	7.5	11.5
Merged-chr6-120473653-4	chr6	120473559	120473759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 3 of 12)	intron (NM_008359, intron 3 of 12)	10462.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	127.0	215.0	149.0	2413.5	201.5	74.0	77.5	84.5
Merged-chr16-7455802-1	chr16	7455702	7455902	+	687.5	f0_balb.idr	Intergenic	Intergenic	385967.0	NM_183188	268859.0	Mm.370334	NM_021477	ENSMUSG00000008658	Rbfox1	A2bp|A2bp1|Hrnbp1|fox-1	RNA binding protein, fox-1 homolog (C. elegans) 1	protein-coding	5.0	8.5	6.5	94.5	1.0	1.0	0.0	0.0
Merged-chr7-81212407-4	chr7	81212287	81212487	+	969.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1417.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	28.5	19.5	18.5	211.0	56.5	14.5	14.0	28.5
Merged-chr13-24297532-2	chr13	24297432	24297632	+	691.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16742.0	NM_026825	68732.0	Mm.211047	NM_026825	ENSMUSG00000021338	Carmil1	1110037D04Rik|AI425970|CARMIL|CARML1|D130057M20|Lrrc16|Lrrc16a	capping protein regulator and myosin 1 linker 1	protein-coding	2.0	10.0	0.0	77.0	9.0	5.0	4.5	7.0
Merged-chr9-47616580-3	chr9	47616486	47616686	+	835.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	86234.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	15.5	9.0	13.0	220.0	9.5	3.0	4.5	8.5
Merged-chr2-120850570-4	chr2	120850458	120850658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038349)	promoter-TSS (NR_038349)	26.0	NM_080788	140810.0	Mm.275698	NM_080788	ENSMUSG00000090100	Ttbk2	2610507N02Rik|AI326283|B930008N24Rik|TTK|Ttbk|Ttbk1|mKIAA0847	tau tubulin kinase 2	protein-coding	206.0	320.0	165.0	2616.0	290.5	113.5	180.0	127.0
Merged-chr4-101172880-4	chr4	101172761	101172961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 10 of 24)	intron (NM_146145, intron 10 of 24)	92421.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	67.5	96.0	71.0	1476.5	184.0	48.5	92.0	65.5
Merged-chr18-54839209-4	chr18	54839066	54839266	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	151014.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	42.5	23.5	32.0	498.0	29.0	31.0	24.5	14.0
Merged-chr16-57914788-1	chr16	57914688	57914888	+	656.0	f0_balb.idr	Intergenic	Lx8b|LINE|L1	-160051.0	NM_007739	12837.0	Mm.130388	NM_007739	ENSMUSG00000068196	Col8a1	Col8a-1	collagen, type VIII, alpha 1	protein-coding	6.0	4.5	8.5	92.5	0.0	3.0	3.5	2.5
Merged-chr12-73359725-3	chr12	73359620	73359820	+	973.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49843.0	NR_046013	380765.0	Mm.490476	NR_046013	ENSMUSG00000056359	D830013O20Rik	Gm891	RIKEN cDNA D830013O20 gene	ncRNA	4.0	4.5	9.0	99.0	60.5	9.5	37.0	19.5
Merged-chr7-123240231-4	chr7	123240103	123240303	+	795.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146198, intron 5 of 16)	intron (NM_146198, intron 5 of 16)	25337.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	11.5	3.0	8.5	176.5	26.0	6.5	12.5	8.0
Merged-chr18-36342083-4	chr18	36341999	36342199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6525.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	45.0	45.0	39.0	672.5	71.5	27.0	50.0	28.5
Merged-chr6-87745409-4	chr6	87745323	87745523	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 2 of 7)	intron (NM_001159697, intron 2 of 7)	14554.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	11.5	18.5	15.5	297.0	57.5	8.5	16.5	22.0
Merged-chr10-24087141-3	chr10	24087054	24087254	+	802.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5140.0	NM_001010837	382348.0	Mm.377897	NM_001010837	ENSMUSG00000100186	Taar8b	Gm1149|taR-8b	trace amine-associated receptor 8B	protein-coding	5.0	10.5	8.5	149.0	13.0	9.5	9.0	4.5
Merged-chr1-39493286-4	chr1	39493186	39493386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14531.0	NM_001357521	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	35.5	57.5	53.0	634.5	95.5	29.0	46.0	27.5
Merged-chr4-59372881-3	chr4	59372806	59373006	+	773.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 8 of 16)	intron (NM_001163288, intron 8 of 16)	65727.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	9.0	6.5	11.0	158.5	9.0	2.0	4.0	6.0
Merged-chr3-108911202-4	chr3	108911060	108911260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025845, intron 1 of 5)	CpG	569.0	NM_025845	66921.0	Mm.51049	NM_025845	ENSMUSG00000027881	Prpf38b	1110021E09Rik|AU018955	PRP38 pre-mRNA processing factor 38 (yeast) domain containing B	protein-coding	60.0	77.5	80.0	696.5	179.0	57.5	75.5	70.0
Merged-chr12-102442036-2	chr12	102441936	102442136	+	977.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2223.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	1.5	6.0	8.0	57.5	28.5	4.5	7.0	7.5
Merged-chr17-25875535-4	chr17	25875456	25875656	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026686)	promoter-TSS (NM_026686)	56.0	NM_026686	68347.0	Mm.35098	NM_026686	ENSMUSG00000025731	Mettl26	0610011F06Rik	methyltransferase like 26	protein-coding	33.5	49.0	27.5	430.0	72.5	15.0	23.5	27.0
Merged-chr16-17760146-4	chr16	17760065	17760265	+	907.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145479, intron 1 of 6)	CpG	544.0	NM_001359068	224023.0	Mm.282807	NM_145479	ENSMUSG00000022750	Klhl22	2610318I18Rik|Kelchl	kelch-like 22	protein-coding	10.0	11.0	8.0	111.0	36.0	8.0	7.0	9.0
Merged-chr18-53528891-3	chr18	53528754	53528954	+	885.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033281, intron 2 of 6)	B3|SINE|B2	64308.0	NM_001033281	225518.0	Mm.297645	NM_001033281	ENSMUSG00000069378	Prdm6	Gm92|PRISM	PR domain containing 6	protein-coding	2.5	2.0	1.5	58.5	7.5	5.0	7.0	6.5
Merged-chr2-32608756-4	chr2	32608651	32608851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289549, intron 2 of 6)	intron (NM_001289549, intron 2 of 6)	1766.0	NR_110347	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	150.0	235.0	108.0	1360.5	300.0	109.5	123.5	106.0
Merged-chr3-121762189-2	chr3	121762089	121762289	+	944.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008991, intron 21 of 22)	MER20|DNA|hAT-Charlie	38652.0	NM_010171	14066.0	Mm.273188	NM_010171	ENSMUSG00000028128	F3	AA409063|CD142|Cf-3|Cf3|TF	coagulation factor III	protein-coding	6.0	3.0	1.0	91.0	19.5	8.0	8.5	11.0
Merged-chr1-156939555-1	chr1	156939455	156939655	+	546.0	f1_balb.idr	promoter-TSS (NM_001159965)	promoter-TSS (NM_001159965)	71.0	NM_001159968	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	3.5	11.0	1.0	61.0	10.5	9.0	16.5	9.0
Merged-chr6-42349869-4	chr6	42349761	42349961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011777)	promoter-TSS (NM_011777)	33.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	331.5	502.5	378.0	5537.5	857.0	355.5	493.0	369.5
Merged-chr10-80963423-3	chr10	80963314	80963514	+	984.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	33323.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	6.5	6.0	15.0	235.5	25.5	3.5	2.0	7.0
Merged-chr10-58378024-4	chr10	58377908	58378108	+	847.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201242, intron 1 of 9)	B2_Mm2|SINE|B2	6554.0	NM_201242	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	11.0	13.0	10.5	135.5	22.5	10.0	16.5	4.0
Merged-chr1-59482032-4	chr1	59481933	59482133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008057)	promoter-TSS (NM_008057)	-114.0	NM_008057	14369.0	Mm.297906	NM_008057	ENSMUSG00000041075	Fzd7	Fz7	frizzled class receptor 7	protein-coding	246.0	379.5	261.5	3703.5	584.0	237.5	284.5	242.0
Merged-chr2-23068134-4	chr2	23068041	23068241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028793)	promoter-TSS (NM_028793)	-60.0	NR_149742	74159.0	Mm.181973	NM_028793	ENSMUSG00000026781	Acbd5	1300014E15Rik	acyl-Coenzyme A binding domain containing 5	protein-coding	77.5	110.0	101.5	1260.0	197.5	58.5	115.5	62.0
Merged-chr9-35211084-4	chr9	35210982	35211182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026130)	promoter-TSS (NM_026130)	-27.0	NM_001291448	235169.0	Mm.138512	NM_172291	ENSMUSG00000039048	Foxred1	BC024806|TEG-23|Tex23	FAD-dependent oxidoreductase domain containing 1	protein-coding	322.0	587.5	311.5	4338.0	785.0	348.0	395.0	321.0
Merged-chr11-97400518-4	chr11	97400413	97400613	+	966.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37962.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	24.5	39.5	14.5	268.0	90.5	21.0	16.5	23.0
Merged-chr12-100520972-4	chr12	100520863	100521063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033213)	promoter-TSS (NM_001033213)	-141.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	20.5	43.0	28.0	292.0	42.5	18.0	27.0	8.5
Merged-chr5-139197181-4	chr5	139197074	139197274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3463.0	NM_001256115	77053.0	Mm.210845	NM_024451	ENSMUSG00000036817	Sun1	4632417G13Rik|5730434D03Rik|Unc84a|mKIAA0810	Sad1 and UNC84 domain containing 1	protein-coding	43.0	70.5	43.5	400.5	98.0	28.5	37.0	22.5
Merged-chr2-75706145-2	chr2	75706045	75706245	+	921.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1482.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	3.0	8.0	5.5	49.5	8.5	4.5	5.0	13.0
Merged-chr9-7766808-3	chr9	7766720	7766920	+	812.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152989, intron 1 of 5)	intron (NR_152989, intron 1 of 5)	2655.0	NR_152989	71929.0	Mm.283293	NM_133739	ENSMUSG00000050912	Tmem123	2310075C12Rik	transmembrane protein 123	protein-coding	8.5	16.5	9.5	109.5	21.5	6.5	6.5	5.0
Merged-chr3-22091304-4	chr3	22091204	22091404	+	943.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	14652.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	19.0	13.0	9.0	332.5	34.0	15.0	18.5	9.0
Merged-chr6-99804404-4	chr6	99804326	99804526	+	807.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78034.0	NM_001037539	50501.0	Mm.87365	NM_015768	ENSMUSG00000030069	Prok2	Bv8|PK2|Prok1	prokineticin 2	protein-coding	19.5	16.0	1.0	229.0	31.5	8.0	12.0	15.0
Merged-chr3-81102342-4	chr3	81102224	81102424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	65908.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	130.0	127.5	86.0	1755.5	306.0	100.0	107.0	122.5
Merged-chr15-12117779-4	chr15	12117688	12117888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011767)	promoter-TSS (NM_011767)	-63.0	NM_011767	22763.0	Mm.273496	NM_011767	ENSMUSG00000022201	Zfr	C920030H05Rik	zinc finger RNA binding protein	protein-coding	99.5	137.5	83.5	1516.0	270.0	139.5	176.5	142.0
Merged-chr18-82848174-3	chr18	82848088	82848288	+	604.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7709.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	3.0	2.5	0.0	62.5	16.5	11.0	10.5	9.0
Merged-chr4-128727540-4	chr4	128727440	128727640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195083)	promoter-TSS (NM_001195083)	-31.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	61.0	82.0	29.0	500.5	121.0	53.0	78.0	45.5
Merged-chr15-63613293-4	chr15	63613175	63613375	+	930.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133667.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	9.5	18.0	21.5	268.5	29.0	12.5	14.0	5.5
Merged-chr1-74391521-4	chr1	74391435	74391635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153088)	promoter-TSS (NM_153088)	-74.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	189.5	360.0	235.5	3040.0	475.5	209.5	273.0	196.0
Merged-chr8-25070215-4	chr8	25070156	25070356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 3 of 11)	C-rich|Low_complexity|Low_complexity	-31294.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	30.0	32.5	30.5	341.0	69.5	21.5	26.5	25.5
Merged-chr15-103393746-4	chr15	103393656	103393856	+	983.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26965.0	NM_001314041	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	19.0	59.5	28.5	319.5	58.0	36.5	15.0	40.5
Merged-chr9-15933107-4	chr9	15933021	15933221	+	928.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 21 of 24)	intron (NM_001080814, intron 21 of 24)	-58565.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	50.0	54.0	77.0	1585.0	23.5	8.5	17.0	16.0
Merged-chr15-73184064-4	chr15	73183969	73184169	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	878.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	27.0	19.0	17.0	266.0	63.5	27.0	37.0	21.5
Merged-chr6-28622682-4	chr6	28622594	28622794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 10 of 23)	intron (NM_019776, intron 10 of 23)	142346.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	50.0	55.0	57.5	926.0	89.0	22.5	51.5	33.5
Merged-chr10-81502847-4	chr10	81502734	81502934	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010304, exon 7 of 7)	3' UTR (NM_010304, exon 7 of 7)	-2697.0	NM_010102	13611.0	Mm.33065	NM_010102	ENSMUSG00000044199	S1pr4	Edg6|Lpc1|S1p4	sphingosine-1-phosphate receptor 4	protein-coding	16.5	18.5	9.0	177.0	32.0	9.5	25.0	12.5
Merged-chr6-89277783-4	chr6	89277691	89277891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131021, intron 1 of 3)	intron (NR_131021, intron 1 of 3)	7934.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	63.5	107.5	79.0	530.0	135.0	67.0	49.0	32.5
Merged-chr19-29805885-6	chr19	29805736	29805936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172836, exon 1 of 8)	exon (NM_172836, exon 1 of 8)	173.0	NM_172836	240613.0	Mm.313351	NM_172836	ENSMUSG00000046138	9930021J03Rik	Gm9832|mKIAA2026	RIKEN cDNA 9930021J03 gene	protein-coding	10.5	27.0	27.5	165.5	32.0	15.5	16.5	27.5
Merged-chr19-24556256-4	chr19	24556211	24556411	+	777.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008846)	promoter-TSS (NM_008846)	-439.0	NM_008846	18719.0	Mm.217214	NM_008846	ENSMUSG00000024867	Pip5k1b	PI4P5K-I[b]|PIP5K1-beta|PIP5KIbeta|Pipk5b|STM7	phosphatidylinositol-4-phosphate 5-kinase, type 1 beta	protein-coding	5.0	9.0	6.5	157.5	16.0	8.0	11.0	9.0
Merged-chr5-53948765-1	chr5	53948665	53948865	+	709.0	f0_balb.idr	Intergenic	Intergenic	-49758.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	7.5	8.5	8.5	119.0	5.0	6.0	4.0	3.0
Merged-chr8-8649771-4	chr8	8649694	8649894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010111, intron 1 of 4)	intron (NM_010111, intron 1 of 4)	10979.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	45.0	70.5	81.5	1117.5	42.0	18.5	27.0	26.0
Merged-chr2-50854027-4	chr2	50853928	50854128	+	884.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55656.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	19.0	10.5	24.5	314.0	30.5	23.5	15.0	10.0
Merged-chr4-98322435-4	chr4	98322339	98322539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60826.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	48.5	63.0	44.5	729.5	105.0	26.0	57.5	38.0
Merged-chr7-64279727-4	chr7	64279601	64279801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	-7969.0	NM_172742	233315.0	Mm.214959	NM_172742	ENSMUSG00000030522	Mtmr10	BB128963|C79734	myotubularin related protein 10	protein-coding	140.0	159.0	97.5	2102.5	244.5	102.0	129.5	108.0
Merged-chr7-25805730-4	chr7	25805625	25805825	+	895.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028775, intron 7 of 8)	intron (NM_028775, intron 7 of 8)	10805.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	6.5	20.0	4.5	121.5	32.5	17.5	9.5	23.0
Merged-chr10-117764805-4	chr10	117764715	117764915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134010, intron 19 of 27)	intron (NM_134010, intron 19 of 27)	-18457.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	33.0	42.5	60.5	573.5	65.0	20.0	33.5	21.5
Merged-chr11-117864905-4	chr11	117864830	117865030	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001085535, exon 4 of 4)	3' UTR (NM_001085535, exon 4 of 4)	4178.0	NM_001085535	546519.0	Mm.385578	NM_001085535	ENSMUSG00000070330	Tmem235	Cldn27|Gm12581	transmembrane protein 235	protein-coding	34.0	33.5	19.0	257.0	47.5	12.0	19.0	21.5
Merged-chr10-115323492-4	chr10	115323419	115323619	+	851.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7928.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	17.0	6.5	6.0	218.5	25.5	10.0	12.0	8.0
Merged-chr6-34927322-4	chr6	34927238	34927438	+	840.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009292, intron 1 of 8)	intron (NM_009292, intron 1 of 8)	6390.0	NM_009292	20899.0	Mm.5171	NM_009292	ENSMUSG00000029848	Stra8	-	stimulated by retinoic acid gene 8	protein-coding	14.5	17.0	9.0	209.0	15.5	8.0	9.5	13.5
Merged-chr10-16960612-3	chr10	16960511	16960711	+	822.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038020, intron 5 of 8)	L1MCa|LINE|L1	135171.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	7.0	25.5	4.5	42.5	46.5	13.5	12.0	4.0
Merged-chr3-87362434-3	chr3	87362356	87362556	+	802.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 2 of 5)	Lx8|LINE|L1	4575.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	4.5	4.5	13.5	117.5	12.0	4.0	3.5	4.0
Merged-chr13-21792186-4	chr13	21792089	21792289	+	914.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	4701.0	NM_001290466	319188.0	Mm.264645	NM_178202	ENSMUSG00000069308	Hist1h2bp	-	histone cluster 1, H2bp	protein-coding	13.5	14.0	14.5	133.5	29.5	11.5	16.5	13.0
Merged-chr7-67672845-4	chr7	67672738	67672938	+	832.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001168477)	TTS (NM_001168477)	25428.0	NM_001360653	67009.0	Mm.249356	NM_025905	ENSMUSG00000030555	Ttc23	1600012K10Rik	tetratricopeptide repeat domain 23	protein-coding	6.5	17.5	9.5	197.5	22.5	4.5	9.0	17.5
Merged-chr6-30048019-4	chr6	30047879	30048079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010938)	promoter-TSS (NM_010938)	-9.0	NM_001164228	18181.0	Mm.259258	NM_010938	ENSMUSG00000058440	Nrf1	C87038|D6Ertd415e	nuclear respiratory factor 1	protein-coding	60.5	70.5	38.5	851.0	118.5	66.5	66.0	64.0
Merged-chr13-44292613-5	chr13	44292513	44292713	+	795.133362	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76126.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	5.5	24.0	3.5	128.0	11.5	6.5	8.0	8.5
Merged-chr14-21811477-4	chr14	21811360	21811560	+	827.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20101.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	6.0	13.0	10.5	192.5	22.5	9.0	7.5	9.5
Merged-chr12-3344919-4	chr12	3344818	3345018	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20214.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	28.0	88.5	26.0	468.5	120.5	49.0	52.5	22.5
Merged-chr5-135471924-4	chr5	135471828	135472028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	73194.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	131.0	136.5	116.5	1771.5	158.0	68.0	86.5	93.0
Merged-chr5-109690891-4	chr5	109690810	109691010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131917.0	NM_001310694	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	83.0	135.0	83.5	1357.0	276.5	130.5	163.5	141.5
Merged-chr17-46645754-2	chr17	46645662	46645862	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001316742)	promoter-TSS (NM_001316742)	318.0	NM_001357130	74764.0	Mm.279599	NM_029091	ENSMUSG00000003546	Klc4	1200014P03Rik|AA408085|AW146303|Knsl8	kinesin light chain 4	protein-coding	46.0	37.5	19.5	236.0	89.0	22.0	24.0	22.5
Merged-chr9-111119841-1	chr9	111119741	111119941	+	577.666687	f0_balb.idr	intron (NM_027742, intron 2 of 13)	intron (NM_027742, intron 2 of 13)	1730.0	NM_001164838	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	9.5	13.0	12.5	62.5	13.5	8.5	7.0	9.0
Merged-chr3-127323068-3	chr3	127322974	127323174	+	776.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	85984.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	15.0	13.5	9.0	187.0	18.5	13.0	11.0	13.0
Merged-chr3-9020422-4	chr3	9020312	9020512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER89-int|LTR|ERV1	-15689.0	NM_001357075	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	249.0	409.5	278.5	3437.0	437.0	211.5	266.0	227.0
Merged-chr6-83436736-4	chr6	83436639	83436839	+	896.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 3 of 11)	intron (NM_001347313, intron 3 of 11)	4939.0	NM_183138	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	17.0	7.0	9.5	190.0	38.0	8.5	19.0	7.5
Merged-chr7-98803407-4	chr7	98803349	98803549	+	940.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-31663.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	17.0	25.0	20.0	293.5	25.5	16.5	9.0	19.0
Merged-chr7-129331976-4	chr7	129331869	129332069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080963, intron 5 of 6)	intron (NM_001080963, intron 5 of 6)	74875.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	22.5	27.0	30.5	661.0	49.0	15.0	15.5	37.0
Merged-chr4-120854864-4	chr4	120854764	120854964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182929)	promoter-TSS (NM_182929)	65.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	60.0	95.0	67.0	672.5	171.0	55.0	93.5	59.5
Merged-chr2-178019699-2	chr2	178019599	178019799	+	799.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45-int|LTR|ERVK	-3585.0	NM_001177400	626848.0	Mm.422604	NM_001177399	ENSMUSG00000074519	Zfp971	Etohi1	zinc finger protein 971	protein-coding	10.0	10.0	12.0	84.5	14.5	6.0	19.0	6.0
Merged-chr9-77737730-6	chr9	77737768	77737968	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-16667.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	9.0	15.5	9.0	208.5	31.5	23.0	22.5	11.0
Merged-chr5-115484431-4	chr5	115484316	115484516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167691)	promoter-TSS (NM_001167691)	68.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	73.5	107.5	34.5	845.0	169.0	71.0	67.0	88.5
Merged-chr19-4059391-4	chr19	4059237	4059437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001362043, exon 1 of 6)	5' UTR (NM_001362043, exon 1 of 6)	110.0	NM_144869	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	30.0	43.5	33.0	179.5	78.5	17.5	19.5	27.0
Merged-chr1-14590952-2	chr1	14590852	14591052	+	737.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	165014.0	NM_001360810	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	9.5	9.5	5.0	64.5	17.5	4.5	5.0	0.5
Merged-chr3-21841074-4	chr3	21840978	21841178	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-235574.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	21.0	32.0	34.5	356.5	43.0	14.5	23.5	16.0
Merged-chr7-101214003-3	chr7	101213907	101214107	+	922.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199012, intron 8 of 20)	intron (NM_199012, intron 8 of 20)	88081.0	NM_001111111	73683.0	Mm.275744	NM_001111111	ENSMUSG00000047767	Atg16l2	2410118P20Rik	autophagy related 16-like 2 (S. cerevisiae)	protein-coding	3.5	13.0	10.5	24.0	37.0	8.0	14.5	9.0
Merged-chr4-62681634-4	chr4	62681543	62681743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310706, intron 1 of 6)	intron (NM_001310706, intron 1 of 6)	7669.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	60.5	74.5	77.0	1123.5	112.5	40.0	44.0	39.0
Merged-chr13-12473911-4	chr13	12473808	12474008	+	947.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133643, exon 6 of 6)	3' UTR (NM_133643, exon 6 of 6)	-12170.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	13.5	16.0	26.5	396.5	73.5	28.0	21.5	16.0
Merged-chr3-142560557-4	chr3	142560519	142560719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001289493, exon 1 of 11)	5' UTR (NM_001289493, exon 1 of 11)	263.0	NM_001289493	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	107.5	157.5	124.0	1201.0	161.5	67.0	72.0	60.0
Merged-chr1-138323252-4	chr1	138323156	138323356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49518.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	115.5	305.0	109.0	1384.0	370.0	150.0	135.0	93.5
Merged-chr11-116625680-4	chr11	116625582	116625782	+	857.154785	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	1337.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	5.5	16.5	6.0	44.5	10.0	6.0	3.0	6.0
Merged-chr15-43382618-4	chr15	43382518	43382718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94418.0	NR_046064	100038728.0	Mm.244168	NR_046064	ENSMUSG00000072592	Gm10373	-	predicted gene 10373	ncRNA	60.0	68.0	39.5	1470.0	152.5	27.5	56.0	65.5
Merged-chr8-37063977-4	chr8	37063884	37064084	+	866.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39746.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	13.0	10.0	12.0	220.0	35.5	5.5	10.5	19.0
Merged-chr2-25262520-4	chr2	25262420	25262620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175286)	promoter-TSS (NM_175286)	-78.0	NM_175286	97031.0	Mm.308539	NM_175286	ENSMUSG00000048707	Tprn	C430004E15Rik|C87750	taperin	protein-coding	215.0	322.5	156.5	3060.0	394.0	175.0	211.0	149.0
Merged-chr16-30374493-4	chr16	30374398	30374598	+	818.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128096, intron 2 of 33)	intron (NM_001128096, intron 2 of 33)	14032.0	NM_001128094	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	10.5	9.0	0.0	106.5	24.5	10.5	17.0	7.0
Merged-chr1-172526823-3	chr1	172526724	172526924	+	832.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027972, intron 1 of 11)	MLT1N2|LTR|ERVL-MaLR	5694.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	2.0	4.0	2.0	18.0	17.5	16.5	21.5	17.0
Merged-chr11-68474701-4	chr11	68474597	68474797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 2 of 18)	intron (NM_177320, intron 2 of 18)	-28322.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	76.0	135.0	52.0	489.0	147.0	69.5	66.5	32.0
Merged-chr10-94462918-4	chr10	94462838	94463038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-51919.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	66.5	75.0	99.5	2134.0	204.0	46.5	128.0	114.5
Merged-chr5-113626623-4	chr5	113626522	113626722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	16981.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	42.0	82.5	57.5	587.5	114.5	43.0	39.5	31.0
Merged-chr1-54523900-4	chr1	54523811	54524011	+	992.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163314, intron 12 of 26)	intron (NM_001163314, intron 12 of 26)	33773.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	34.5	53.0	26.0	621.0	94.5	15.0	23.0	23.5
Merged-chr11-88954966-4	chr11	88954869	88955069	+	980.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029023, intron 1 of 12)	intron (NM_029023, intron 1 of 12)	473.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	13.0	51.5	32.0	493.5	109.5	32.0	36.5	40.5
Merged-chr4-109000528-4	chr4	109000427	109000627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347169)	promoter-TSS (NM_001347169)	-128.0	NM_001346554	230598.0	Mm.274950	NM_146150	ENSMUSG00000053510	Nrd1	2600011I06Rik|AI875733|NRD-C|Nrdc	nardilysin, N-arginine dibasic convertase, NRD convertase 1	protein-coding	250.5	296.0	186.5	3047.0	501.0	248.0	236.5	206.0
Merged-chr19-60947730-3	chr19	60947631	60947831	+	796.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	ORR1B2|LTR|ERVL-MaLR	57982.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	8.0	10.0	18.0	109.0	15.5	12.5	6.0	10.5
Merged-chr13-56173279-4	chr13	56173152	56173352	+	790.820801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001168615)	TTS (NM_001168615)	5633.0	NM_145976	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	13.0	11.5	16.0	343.5	20.5	5.5	7.0	11.5
Merged-chr11-72697497-4	chr11	72697407	72697607	+	766.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009671, intron 1 of 24)	ORR1E|LTR|ERVL-MaLR	7505.0	NM_009671	11736.0	Mm.10313	NM_009671	ENSMUSG00000020790	Ankfy1	Ankhzn|ZFYVE14|mKIAA1255	ankyrin repeat and FYVE domain containing 1	protein-coding	10.5	25.5	15.5	176.5	32.0	8.0	17.0	13.0
Merged-chr15-74918630-4	chr15	74918518	74918718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36433.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	19.5	29.5	17.5	199.5	144.5	39.0	50.0	36.5
Merged-chr6-88518920-4	chr6	88518823	88519023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016906)	promoter-TSS (NM_016906)	-123.0	NM_016906	53421.0	Mm.28375	NM_016906	ENSMUSG00000030082	Sec61a1	AA408394|AA410007|Sec61a	Sec61 alpha 1 subunit (S. cerevisiae)	protein-coding	293.0	428.5	246.5	3272.0	609.5	263.0	265.5	215.0
Merged-chr1-192742097-1	chr1	192741997	192742197	+	544.0	f0_c57.idr	intron (NM_144881, intron 3 of 11)	intron (NM_144881, intron 3 of 11)	29122.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	1.0	0.5	0.0	21.5	24.0	11.0	7.5	7.0
Merged-chr16-32688983-1	chr16	32688883	32689083	+	722.75	f0_balb.idr	Intergenic	Intergenic	15829.0	NM_001289443	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	11.5	19.0	7.5	77.5	3.0	3.0	5.5	3.5
Merged-chr8-70752527-4	chr8	70752411	70752611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2168.0	NM_001328047	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	74.5	83.0	87.5	1398.5	181.0	53.0	49.5	64.0
Merged-chr17-26885169-4	chr17	26885064	26885264	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31927.0	NM_053173	16580.0	Mm.491138	NM_016761	ENSMUSG00000024301	Kifc5b	Hset|KNSL2|Kifc5a	kinesin family member C5B	protein-coding	23.5	26.5	10.0	319.0	57.0	15.5	18.5	16.0
Merged-chr5-35893333-3	chr5	35893239	35893439	+	931.855591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027373)	promoter-TSS (NM_027373)	20.0	NM_027373	70292.0	Mm.125167	NM_027373	ENSMUSG00000029094	Afap1	2600003E23Rik|9630044L16Rik|AI848729|Afap|mKIAA3018	actin filament associated protein 1	protein-coding	36.5	50.5	22.0	537.5	19.0	2.5	10.0	7.5
Merged-chr16-31837626-4	chr16	31837530	31837730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357281, intron 12 of 22)	intron (NM_001357281, intron 12 of 22)	-41180.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	41.0	38.0	19.5	373.5	88.0	27.0	32.5	30.5
Merged-chr5-139793626-4	chr5	139793529	139793729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010757, intron 1 of 2)	intron (NM_010757, intron 1 of 2)	2093.0	NM_010757	17135.0	Mm.157313	NM_010757	ENSMUSG00000018143	Mafk	AW061068|NF-E2|Nfe2u	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	protein-coding	94.5	121.0	72.0	1182.0	126.0	51.5	47.5	52.5
Merged-chr3-65318127-4	chr3	65318035	65318235	+	804.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357358, intron 7 of 13)	intron (NM_001357358, intron 7 of 13)	-15450.0	NR_126080	102637797.0	Mm.446731	NR_126080	ENSMUSG00000104093	A330015K06Rik	-	RIKEN cDNA A330015K06 gene	ncRNA	9.5	8.0	5.5	76.0	45.0	10.5	14.0	9.0
Merged-chr12-30257800-1	chr12	30257700	30257900	+	599.0	f0_balb.idr	intron (NM_001324521, intron 8 of 15)	intron (NM_001324521, intron 8 of 15)	115575.0	NM_172951	268534.0	Mm.279765	NM_172951	ENSMUSG00000020672	Sntg2	2210008K22Rik|9530013L23|BB121248|G2syn|Syn5	syntrophin, gamma 2	protein-coding	8.5	12.0	5.5	82.0	4.0	0.5	1.5	3.0
Merged-chr15-76671575-4	chr15	76671467	76671667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358933)	promoter-TSS (NM_001358933)	-76.0	NM_001358933	73062.0	Mm.322901	NM_033371	ENSMUSG00000033819	Ppp1r16a	2900084E10Rik|Mypt3|R75527	protein phosphatase 1, regulatory (inhibitor) subunit 16A	protein-coding	153.5	256.0	108.5	2136.0	393.0	143.0	230.5	155.5
Merged-chr3-116662371-1	chr3	116662271	116662471	+	1000.0	f0_c57.idr	intron (NM_008246, intron 1 of 11)	CpG	306.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	68.5	96.0	77.0	723.5	154.5	68.0	91.0	85.5
Merged-chr1-151269930-4	chr1	151269827	151270027	+	923.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74559.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	32.5	22.5	31.0	380.0	46.0	30.0	12.0	13.5
Merged-chr4-53512652-4	chr4	53512530	53512730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133891, intron 3 of 15)	L2b|LINE|L2	72217.0	NM_133891	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	65.0	104.5	88.5	934.0	73.0	32.0	33.0	27.5
Merged-chr11-97782459-4	chr11	97782364	97782564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028078)	promoter-TSS (NR_028078)	-25.0	NM_022891	65019.0	Mm.140380	NM_022891	ENSMUSG00000071415	Rpl23	2810009A01Rik	ribosomal protein L23	protein-coding	67.0	120.0	37.0	548.5	209.5	63.5	61.0	74.5
Merged-chr2-11534981-4	chr2	11534861	11535061	+	877.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	18968.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	10.0	8.5	13.5	187.0	24.0	6.5	9.5	14.0
Merged-chr15-78607750-4	chr15	78607664	78607864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028195, intron 5 of 12)	intron (NM_028195, intron 5 of 12)	10717.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	154.0	235.5	154.5	2015.0	330.0	144.5	144.5	130.5
Merged-chr2-124612019-2	chr2	124611919	124612119	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	1723.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	8.5	5.0	11.5	168.5	21.0	0.5	15.5	7.5
Merged-chr6-8495373-4	chr6	8495284	8495484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13777.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	39.0	91.5	85.5	1796.5	146.0	45.5	61.0	52.5
Merged-chr19-4397266-4	chr19	4397172	4397372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001984)	promoter-TSS (NM_001001984)	-195.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	232.5	352.5	245.5	2561.5	540.0	241.0	229.5	207.5
Merged-chr12-55434092-4	chr12	55433979	55434179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35254.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	23.5	42.0	36.0	298.0	53.0	28.0	22.0	29.0
Merged-chr18-46179425-4	chr18	46179323	46179523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178872, intron 4 of 9)	intron (NM_178872, intron 4 of 9)	19395.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	39.5	49.5	63.0	1010.0	159.0	54.5	123.0	68.5
Merged-chr16-20671963-4	chr16	20671858	20672058	+	797.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304432)	promoter-TSS (NM_001304432)	-769.0	NM_145941	208643.0	Mm.260256	NM_145941	ENSMUSG00000045983	Eif4g1	E030015G23Rik|eIF-4-gamma 1|eIF-4G 1|eIF-4G1|eIF4GI	eukaryotic translation initiation factor 4, gamma 1	protein-coding	11.0	13.0	5.0	119.5	21.0	13.0	10.5	10.5
Merged-chr7-4836513-4	chr7	4836464	4836664	+	915.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172737, exon 2 of 6)	exon (NM_172737, exon 2 of 6)	8132.0	NM_001290291	232813.0	Mm.44666	NM_172737	ENSMUSG00000053550	Shisa7	ckamp59	shisa family member 7	protein-coding	8.5	12.0	14.5	139.0	30.5	11.0	11.5	12.5
Merged-chr5-105526755-3	chr5	105526665	105526865	+	946.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 1 of 3)	intron (NM_133897, intron 1 of 3)	7294.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	14.5	23.5	13.0	137.0	2.0	1.5	1.5	0.5
Merged-chr10-94917372-4	chr10	94917262	94917462	+	846.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 2 of 30)	intron (NM_018797, intron 2 of 30)	27216.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	8.0	18.5	13.0	196.0	38.0	9.5	18.5	12.5
Merged-chr2-168230538-4	chr2	168230508	168230708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310084)	promoter-TSS (NM_001310084)	-14.0	NM_001160330	69372.0	Mm.482182	NM_001160330	ENSMUSG00000074576	Mocs3	1700020H17Rik|Uba4	molybdenum cofactor synthesis 3	protein-coding	47.5	70.0	30.0	598.5	137.5	61.0	57.0	80.5
Merged-chr5-140379399-4	chr5	140379301	140379501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 1 of 10)	intron (NM_172277, intron 1 of 10)	9907.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	59.5	49.0	39.5	955.5	102.0	43.0	48.5	43.0
Merged-chr17-6272180-3	chr17	6272078	6272278	+	981.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033178, intron 1 of 16)	intron (NM_001033178, intron 1 of 16)	1708.0	NM_001033178	77106.0	Mm.381893	NM_001033178	ENSMUSG00000038141	Tmem181a	5930418K15Rik|C76977|Gpr178|Tmem181|mKIAA1423	transmembrane protein 181A	protein-coding	0.0	0.0	0.0	0.0	69.5	15.5	14.0	25.0
Merged-chr15-25972931-4	chr15	25972852	25973052	+	942.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001277318, exon 7 of 7)	3' UTR (NM_001277318, exon 7 of 7)	-11414.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	14.5	15.5	18.0	304.0	35.5	14.0	17.5	23.5
Merged-chr7-16728779-2	chr7	16728679	16728879	+	709.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	6850.0	NM_011927	26368.0	Mm.27096	NM_011927	ENSMUSG00000007209	Ceacam9	AA410097|AW545709|Cea-5|Cea5|mmCGM8	carcinoembryonic antigen-related cell adhesion molecule 9	protein-coding	7.5	5.5	0.5	73.5	8.0	10.5	6.5	9.0
Merged-chr7-132620180-4	chr7	132620069	132620269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 1 of 6)	intron (NM_029609, intron 1 of 6)	9526.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	52.0	62.5	56.5	935.0	184.0	32.5	91.0	72.0
Merged-chr2-152810366-4	chr2	152810288	152810488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	18101.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	77.0	114.5	119.0	1360.5	257.0	70.0	83.5	113.5
Merged-chr13-89383131-3	chr13	89383078	89383278	+	849.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13B|LTR|ERVK	-157458.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	1.5	1.0	10.0	73.5	14.0	6.5	13.0	17.5
Merged-chr11-4194295-2	chr11	4194195	4194395	+	753.299988	f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	Lx9|LINE|L1	7462.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	6.5	5.0	6.0	55.5	15.5	5.5	1.5	10.5
Merged-chr3-116595367-1	chr3	116595267	116595467	+	1000.0	f1_balb.idr	promoter-TSS (NR_152258)	promoter-TSS (NR_152258)	409.0	NM_001289571	72776.0	Mm.440836	NM_028349	ENSMUSG00000027959	Sass6	2810453L12Rik	SAS-6 centriolar assembly protein	protein-coding	15.0	10.0	12.5	101.5	38.5	22.5	10.5	8.0
Merged-chr18-84646302-4	chr18	84646213	84646413	+	834.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177450, intron 1 of 11)	intron (NM_177450, intron 1 of 11)	3782.0	NM_177450	338403.0	Mm.23278	NM_177450	ENSMUSG00000056162	Cndp1	AI746433|Cn1	carnosine dipeptidase 1 (metallopeptidase M20 family)	protein-coding	13.0	12.0	7.0	177.5	22.5	9.0	22.0	12.5
Merged-chr4-139205159-4	chr4	139205059	139205259	+	936.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	ORR1D2|LTR|ERVL-MaLR	11048.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	8.0	4.0	10.5	149.5	47.0	15.0	11.0	23.5
Merged-chr15-66684941-4	chr15	66684849	66685049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 10 of 47)	MTD|LTR|ERVL-MaLR	14179.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	35.0	51.0	31.0	789.5	69.5	35.0	45.5	40.5
Merged-chr17-34238914-3	chr17	34238835	34239035	+	969.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010389)	promoter-TSS (NM_010389)	30.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	6.5	14.0	3.5	50.5	34.0	7.0	6.0	10.0
Merged-chr7-31132303-4	chr7	31132221	31132421	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153431, intron 18 of 18)	intron (NR_153431, intron 18 of 18)	-5298.0	NM_011322	20266.0	Mm.1418	NM_011322	ENSMUSG00000019194	Scn1b	-	sodium channel, voltage-gated, type I, beta	protein-coding	25.0	32.5	44.0	381.5	14.0	7.0	5.0	13.0
Merged-chr10-96364011-4	chr10	96363906	96364106	+	768.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137799.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	7.5	8.5	5.0	193.0	28.5	12.0	9.5	14.0
Merged-chr7-101882472-4	chr7	101882390	101882590	+	969.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291353, intron 1 of 5)	intron (NM_001291353, intron 1 of 5)	1165.0	NM_001291353	75430.0	Mm.284491	NM_027532	ENSMUSG00000030649	Anapc15	3200002M19Rik|6330414C15Rik|APC15	anaphase prompoting complex C subunit 15	protein-coding	10.0	10.5	15.5	247.5	13.5	6.0	14.5	19.0
Merged-chr9-120049572-4	chr9	120049470	120049670	+	953.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009987, exon 2 of 2)	3' UTR (NM_009987, exon 2 of 2)	18726.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	26.5	33.5	24.5	168.5	50.0	24.0	19.0	20.0
Merged-chr3-69655210-4	chr3	69655104	69655304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERGLN-int|LTR|ERV1	-56244.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	21.0	25.5	28.5	224.5	87.5	25.0	35.0	31.5
Merged-chr10-58351892-4	chr10	58351807	58352007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359116)	promoter-TSS (NM_001359116)	-56.0	NM_001359116	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	83.5	136.5	79.5	1148.5	183.5	66.0	88.0	63.0
Merged-chr17-59021053-4	chr17	59020945	59021145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_145521, intron 2 of 2)	MTE2b|LTR|ERVL-MaLR	-7723.0	NM_026497	67993.0	Mm.36507	NM_026497	ENSMUSG00000024228	Nudt12	0610016O18Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 12	protein-coding	25.0	39.5	66.0	709.5	119.5	31.5	58.0	68.5
Merged-chr12-30265350-3	chr12	30265243	30265443	+	768.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324520, intron 8 of 16)	ORR1E|LTR|ERVL-MaLR	108032.0	NM_172951	268534.0	Mm.279765	NM_172951	ENSMUSG00000020672	Sntg2	2210008K22Rik|9530013L23|BB121248|G2syn|Syn5	syntrophin, gamma 2	protein-coding	15.0	7.0	10.0	135.0	3.0	2.0	0.0	0.5
Merged-chr1-182923027-4	chr1	182922946	182923146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31742.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	56.5	29.0	72.5	1089.5	77.0	23.5	46.0	44.5
Merged-chr7-28440912-4	chr7	28440785	28440985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039192)	promoter-TSS (NM_001039192)	-52.0	NM_001039192	63986.0	Mm.194536	NM_022024	ENSMUSG00000060791	Gmfg	0610039G16Rik|2310057N07Rik|AI324845	glia maturation factor, gamma	protein-coding	113.5	120.0	85.5	1219.5	203.5	72.5	116.5	69.5
Merged-chr8-33601942-4	chr8	33601822	33602022	+	784.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017374, intron 1 of 6)	intron (NM_017374, intron 1 of 6)	2301.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	5.5	3.0	10.0	98.0	27.5	16.0	28.0	23.0
Merged-chr8-125734222-4	chr8	125734120	125734320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310688)	promoter-TSS (NM_001310688)	17.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	38.5	67.5	37.0	640.0	162.5	50.5	55.0	59.0
Merged-chr7-74645776-4	chr7	74645661	74645861	+	974.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90981.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	9.0	22.5	15.0	230.5	87.5	20.0	31.0	20.5
Merged-chr17-74570816-4	chr17	74570712	74570912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007566, intron 7 of 72)	intron (NM_007566, intron 7 of 72)	42517.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	37.5	28.0	32.0	625.5	60.0	28.0	39.0	35.5
Merged-chr2-29820482-6	chr2	29820375	29820575	+	887.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6914.0	NM_026615	68205.0	Mm.20273	NM_026615	ENSMUSG00000069020	Urm1	2900073H19Rik	ubiquitin related modifier 1	protein-coding	8.0	6.5	9.5	31.0	16.0	11.5	5.5	4.5
Merged-chr11-51677938-4	chr11	51677845	51678045	+	969.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	10689.0	NM_025319	66050.0	Mm.35693	NM_025319	ENSMUSG00000007777	0610009B22Rik	-	RIKEN cDNA 0610009B22 gene	protein-coding	13.5	40.0	20.0	191.0	41.0	16.0	18.0	19.5
Merged-chr19-44397989-3	chr19	44397904	44398104	+	913.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009127, exon 6 of 6)	exon (NM_009127, exon 6 of 6)	9705.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	10.5	5.0	21.5	82.5	13.0	3.0	10.5	5.5
Merged-chr17-69204785-4	chr17	69204668	69204868	+	899.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	Lx8b|LINE|L1	45412.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	31.0	12.0	20.0	281.5	25.5	8.0	9.0	11.5
Merged-chr15-81536091-5	chr15	81536018	81536218	+	992.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50096.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	13.0	22.5	23.5	116.5	38.5	29.0	16.5	16.0
Merged-chr3-96503263-3	chr3	96503169	96503369	+	907.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21916.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	12.0	14.0	3.0	179.0	21.0	5.0	8.0	8.0
Merged-chr4-152138697-4	chr4	152138590	152138790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207687, intron 4 of 15)	CpG	-2365.0	NM_207690	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	175.0	221.0	142.5	2221.5	416.5	171.5	208.0	226.0
Merged-chr12-80835076-4	chr12	80835051	80835251	+	980.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	Lx5|LINE|L1	44619.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	17.0	35.5	11.5	189.0	42.0	12.5	13.5	19.0
Merged-chr12-87387454-4	chr12	87387347	87387547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011479, intron 1 of 11)	intron (NM_011479, intron 1 of 11)	908.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	31.0	32.0	43.5	380.5	50.0	26.0	38.0	18.5
Merged-chr11-106193696-4	chr11	106193579	106193779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028126)	promoter-TSS (NM_028126)	-76.0	NM_001252449	72149.0	Mm.403722	NM_028126	ENSMUSG00000069631	Strada	2610019A05Rik|6030402H20Rik|AI480680|E130112C09Rik	STE20-related kinase adaptor alpha	protein-coding	151.5	261.0	136.5	1658.5	379.0	155.5	181.0	168.5
Merged-chr5-38402462-4	chr5	38402361	38402561	+	905.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012363, intron 6 of 11)	ORR1D2|LTR|ERVL-MaLR	58072.0	NR_046191	78172.0	Mm.243835	NR_046191	ENSMUSG00000106932	4930487D11Rik	-	RIKEN cDNA 4930487D11 gene	ncRNA	23.5	22.0	14.0	325.5	27.5	10.0	24.5	16.5
Merged-chr13-36740155-3	chr13	36740059	36740259	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-5682.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	10.0	22.5	6.5	271.0	8.0	3.5	5.0	4.0
Merged-chr1-34490328-4	chr1	34490215	34490415	+	884.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR48A|LTR|ERV1	-8097.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	5.5	17.5	10.0	74.0	43.5	16.5	13.5	7.5
Merged-chr18-55288757-3	chr18	55288662	55288862	+	779.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-296171.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	5.0	7.0	10.0	67.5	16.5	2.5	4.0	3.0
Merged-chr4-152159344-3	chr4	152159236	152159436	+	762.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301805, intron 1 of 4)	intron (NM_001301805, intron 1 of 4)	469.0	NM_008236	15206.0	Mm.57038	NM_008236	ENSMUSG00000028940	Hes2	HES-2	hes family bHLH transcription factor 2	protein-coding	6.0	6.0	10.0	73.0	7.0	1.5	5.0	15.0
Merged-chr7-28808398-4	chr7	28808303	28808503	+	954.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2487.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	15.0	21.0	20.5	269.0	47.5	11.0	14.5	11.5
Merged-chr6-137410680-4	chr6	137410568	137410768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164403)	promoter-TSS (NM_001164403)	-53.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	96.0	142.5	77.0	1384.0	244.0	73.5	120.0	65.0
Merged-chr2-154215392-3	chr2	154215289	154215489	+	866.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012392, intron 12 of 15)	intron (NM_001012392, intron 12 of 15)	-8353.0	NM_144890	228802.0	Mm.167411	NM_144890	ENSMUSG00000038572	Bpifb5	Lplunc5	BPI fold containing family B, member 5	protein-coding	13.5	12.0	8.5	89.0	6.5	6.0	12.0	6.5
Merged-chr1-192763086-3	chr1	192763024	192763224	+	718.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 1 of 11)	MTE2b|LTR|ERVL-MaLR	8095.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	4.0	6.0	5.5	174.5	38.5	10.0	14.0	23.5
Merged-chr9-110478798-4	chr9	110478694	110478894	+	912.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163569, intron 1 of 20)	intron (NM_001163569, intron 1 of 20)	1800.0	NM_001163569	16578.0	Mm.42170	NM_010628	ENSMUSG00000032489	Kif9	-	kinesin family member 9	protein-coding	16.0	8.5	3.5	266.5	38.5	11.5	16.0	22.5
Merged-chr5-29569086-4	chr5	29568981	29569181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133907)	promoter-TSS (NM_133907)	-161.0	NM_133907	100763.0	Mm.137746	NM_133907	ENSMUSG00000039000	Ube3c	AI853514|mKIAA0010	ubiquitin protein ligase E3C	protein-coding	278.5	365.0	256.5	3347.5	621.0	278.5	302.0	237.0
Merged-chr5-24540909-4	chr5	24540803	24541003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310476)	promoter-TSS (NM_001310476)	75.0	NM_001310476	117590.0	Mm.207071	NM_080444	ENSMUSG00000038204	Asb10	Asb-10|BB137407	ankyrin repeat and SOCS box-containing 10	protein-coding	34.5	40.5	36.0	708.0	52.0	29.0	34.0	30.5
Merged-chr6-113441368-4	chr6	113441246	113441446	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1171.0	NM_001205025	67767.0	Mm.2053	NM_026365	ENSMUSG00000051256	Jagn1	5830427H10Rik	jagunal homolog 1	protein-coding	14.0	20.0	6.5	208.0	49.0	4.5	10.5	29.5
Merged-chr2-29670931-3	chr2	29670796	29670996	+	751.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	51176.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	7.0	7.0	5.5	111.0	25.5	8.0	6.5	13.0
Merged-chr10-17408045-4	chr10	17407943	17408143	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-312261.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	36.0	35.5	40.5	469.5	63.0	27.0	26.5	19.0
Merged-chr6-92286639-3	chr6	92286557	92286757	+	801.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42007.0	NM_009426	22044.0	Mm.1363	NM_009426	ENSMUSG00000005892	Trh	Pro-TRH|Trf	thyrotropin releasing hormone	protein-coding	7.0	2.0	4.5	27.5	15.0	11.5	14.0	10.5
Merged-chr17-45563836-4	chr17	45563721	45563921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357105)	promoter-TSS (NM_001357105)	-115.0	NM_001357105	73836.0	Mm.289716	NM_028662	ENSMUSG00000037089	Slc35b2	1110003M08Rik|AA407792|AI842275|PAPST1|Slc35b1	solute carrier family 35, member B2	protein-coding	152.0	277.0	125.5	1403.5	409.0	167.5	226.0	152.5
Merged-chr10-61267582-4	chr10	61267471	61267671	+	960.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081127, intron 2 of 21)	intron (NM_001081127, intron 2 of 21)	5867.0	NM_001081127	237360.0	Mm.333252	NM_001081127	ENSMUSG00000059901	Adamts14	Adamts-14|TS14	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 14	protein-coding	17.5	16.0	17.0	399.0	34.5	10.5	29.0	25.0
Merged-chr19-32330425-4	chr19	32330302	32330502	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	18914.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	34.0	44.5	49.5	873.5	47.0	14.5	19.0	21.5
Merged-chr11-71850592-4	chr11	71850504	71850704	+	959.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	89518.0	NR_045942	73816.0	Mm.390391	NR_045942	ENSMUSG00000085528	4930401O10Rik	-	RIKEN cDNA 4930401O10 gene	ncRNA	11.5	10.0	21.0	447.0	47.5	6.0	21.0	22.0
Merged-chr1-51529851-4	chr1	51529757	51529957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151621, intron 3 of 3)	intron (NR_151621, intron 3 of 3)	-51458.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	39.5	43.5	34.0	510.5	68.0	30.5	50.0	25.5
Merged-chr11-46063276-4	chr11	46063152	46063352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291890, intron 2 of 22)	intron (NM_001291890, intron 2 of 22)	7268.0	NM_001291891	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	43.5	66.0	23.0	679.0	113.0	36.0	88.0	52.0
Merged-chr3-130073237-4	chr3	130073147	130073347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12340.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	68.0	111.5	71.5	961.5	171.0	64.5	87.5	46.5
Merged-chr7-125620232-4	chr7	125620124	125620324	+	931.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021887, intron 1 of 8)	MTD|LTR|ERVL-MaLR	16795.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	4.5	24.0	11.5	196.0	26.0	20.5	10.5	24.5
Merged-chr11-61661007-4	chr11	61660865	61661065	+	865.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027817, intron 2 of 4)	intron (NM_027817, intron 2 of 4)	7644.0	NM_027817	71520.0	Mm.202760	NM_027817	ENSMUSG00000004837	Grap	8430435N19Rik|BB233594	GRB2-related adaptor protein	protein-coding	10.0	24.0	4.0	124.5	29.5	8.0	10.0	11.0
Merged-chr7-63855504-4	chr7	63855420	63855620	+	778.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61337.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	12.0	13.5	4.0	113.5	29.0	6.0	11.0	9.5
Merged-chr10-93911560-3	chr10	93911452	93911652	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20350.0	NM_019648	56307.0	Mm.289329	NM_019648	ENSMUSG00000036112	Metap2	4930584B20Rik|A930035J23Rik|AI047573|AL024412|AU014659|Amp2|Mnpep|p67|p67eIF2	methionine aminopeptidase 2	protein-coding	7.0	27.0	9.5	228.5	1.5	3.0	1.5	4.0
Merged-chr5-32721081-2	chr5	32721002	32721202	+	879.833374	f0_balb.idr|f1_balb.idr	Intergenic	URR1B|DNA|hAT-Charlie	25240.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	18.5	25.0	16.0	78.5	2.0	0.0	0.0	1.0
Merged-chr15-58682213-3	chr15	58682115	58682315	+	796.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141212.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	15.0	8.0	8.0	200.5	18.0	13.5	4.0	6.5
Merged-chr5-105354230-3	chr5	105354106	105354306	+	835.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7730.0	NR_132129	634650.0	Mm.458435	NM_001039647	ENSMUSG00000092021	Gbp11	EG634650|Gm7141	guanylate binding protein 11	protein-coding	8.5	17.5	3.5	59.5	30.0	7.5	9.0	13.5
Merged-chr8-84664098-4	chr8	84663990	84664190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1238.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	221.5	304.0	140.0	2212.5	573.0	224.5	241.5	172.0
Merged-chr8-119837988-4	chr8	119837922	119838122	+	985.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	2557.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	23.0	31.0	14.5	135.5	48.5	10.5	12.0	15.0
Merged-chr10-94474388-4	chr10	94474280	94474480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-40477.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	133.0	177.5	163.5	2595.0	245.5	102.5	141.0	146.0
Merged-chr15-6341666-4	chr15	6341584	6341784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	41895.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	46.5	71.5	47.0	850.5	108.5	37.0	51.5	53.5
Merged-chr5-123683846-4	chr5	123683700	123683900	+	968.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	CpG	561.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	16.0	19.0	24.0	160.5	40.5	25.5	11.5	27.5
Merged-chr5-114131632-4	chr5	114131529	114131729	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040691, intron 2 of 6)	CpG	473.0	NM_011677	22256.0	Mm.1393	NM_011677	ENSMUSG00000029591	Ung	UNG1|UNG2	uracil DNA glycosylase	protein-coding	12.0	21.5	7.5	168.0	32.0	15.0	17.0	26.0
Merged-chr8-109737187-1	chr8	109737087	109737287	+	630.5	f0_balb.idr	intron (NM_001080930, intron 1 of 3)	intron (NM_001080930, intron 1 of 3)	552.0	NM_001080930	52335.0	Mm.276770	NM_001080930	ENSMUSG00000069895	Atxn1l	AW558552|Boat|C330011L24Rik|D6Mgi37|D8Ertd587e	ataxin 1-like	protein-coding	7.0	5.5	12.0	77.5	6.5	2.5	2.5	12.0
Merged-chr6-54954828-3	chr6	54954737	54954937	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	16824.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	9.0	14.5	2.0	86.0	179.0	96.0	60.5	66.5
Merged-chr9-78528086-4	chr9	78527979	78528179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-46355.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	25.0	51.5	31.0	489.5	71.0	38.5	32.5	24.0
Merged-chr19-4301951-3	chr19	4301850	4302050	+	866.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	4272.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	7.0	4.5	12.5	100.0	3.5	1.5	5.5	7.0
Merged-chr17-34635867-4	chr17	34635757	34635957	+	946.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6171.0	NM_030890	260297.0	Mm.390965	NM_030890	ENSMUSG00000015476	Prrt1	Bat-4|Bat4|D17H6S54E|DSPD1|G5b|NG5|ORF31|SynDIG4	proline-rich transmembrane protein 1	protein-coding	20.5	35.0	8.5	128.0	41.5	22.0	10.5	8.0
Merged-chr3-106556713-4	chr3	106556658	106556858	+	841.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025582, intron 3 of 6)	Lx3A|LINE|L1	-8956.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	13.5	13.0	9.0	114.0	14.5	3.5	9.0	12.0
Merged-chr11-121259897-4	chr11	121259772	121259972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080932)	promoter-TSS (NM_001080932)	-115.0	NM_001080932	68837.0	Mm.209750	NM_001080932	ENSMUSG00000039275	Foxk2	1110054H05Rik|5730434B08Rik|6230415M23Rik|ILF|Ilf1	forkhead box K2	protein-coding	88.0	166.0	83.0	1349.5	323.0	123.0	140.0	98.0
Merged-chr17-35700658-3	chr17	35700585	35700785	+	662.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198833)	promoter-TSS (NM_001198833)	-95.0	NM_001198833	12305.0	Mm.5021	NM_007584	ENSMUSG00000003534	Ddr1	6030432F18|AI323681|CD167a|Cak|Nep|PTK3A	discoidin domain receptor family, member 1	protein-coding	8.0	8.0	11.0	13.5	13.5	0.0	1.5	4.0
Merged-chr10-85353067-3	chr10	85352952	85353152	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Zaphod|DNA|hAT-Tip100	-33762.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	0.0	0.0	0.0	0.0	182.0	50.0	101.5	84.5
Merged-chr9-44582648-4	chr9	44582553	44582753	+	975.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22239.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	40.0	56.5	14.5	451.0	130.0	53.5	47.0	57.0
Merged-chr7-110379536-4	chr7	110379437	110379637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	intron (NM_177324, intron 17 of 40)	157834.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	75.0	78.0	49.5	834.5	160.5	48.0	54.0	68.0
Merged-chr4-40287622-4	chr4	40287523	40287723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-8202.0	NM_001033305	230075.0	Mm.1103	NM_001033305	ENSMUSG00000071014	Ndufb6	CI-B17|Gm137	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6	protein-coding	23.0	57.0	30.0	441.0	90.0	32.5	30.0	38.5
Merged-chr2-144188392-4	chr2	144188340	144188540	+	958.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136884, intron 1 of 3)	(TG)n|Simple_repeat|Simple_repeat	850.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	13.5	11.0	13.0	249.5	15.0	8.0	15.5	13.5
Merged-chr14-7851943-4	chr14	7851837	7852037	+	771.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081427, intron 1 of 45)	intron (NM_001081427, intron 1 of 45)	33980.0	NM_134080	286940.0	Mm.489652	NM_134080	ENSMUSG00000025278	Flnb	AL024016|Fln-b	filamin, beta	protein-coding	14.0	8.5	14.0	181.0	18.0	3.5	9.5	7.0
Merged-chr9-121719916-3	chr9	121719809	121720009	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010918, intron 2 of 16)	CpG-15515	728.0	NM_010918	18087.0	Mm.32842	NM_010918	ENSMUSG00000032525	Nktr	5330401F18Rik|D9Wsu172e	natural killer tumor recognition sequence	protein-coding	21.5	30.0	26.5	437.0	57.0	24.5	25.5	39.5
Merged-chr18-49755622-4	chr18	49755507	49755707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170960)	promoter-TSS (NM_001170960)	-6.0	NM_026854	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	317.0	511.5	379.5	5694.5	990.0	340.0	450.5	402.5
Merged-chr10-76346269-4	chr10	76346161	76346361	+	913.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081419)	promoter-TSS (NM_001081419)	-970.0	NM_001081419	64451.0	Mm.33183	NM_001081419	ENSMUSG00000020231	Dip2a	4931420H10Rik|AI426328|Dip2|Kiaa0184-hp|mKIAA0184	disco interacting protein 2 homolog A	protein-coding	16.0	18.0	21.0	235.0	30.5	12.0	3.5	5.5
Merged-chr9-46098961-4	chr9	46098850	46099050	+	938.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	86130.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	19.5	14.0	12.5	241.5	40.5	5.0	14.0	16.0
Merged-chr2-73064200-4	chr2	73064096	73064296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83750.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	18.0	41.5	37.0	535.0	65.5	25.0	30.0	27.0
Merged-chr15-5349095-4	chr15	5349000	5349200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104913.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	40.0	72.5	41.5	613.5	93.5	34.0	42.5	29.0
Merged-chr14-27237862-4	chr14	27237768	27237968	+	896.4213869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027871)	promoter-TSS (NM_027871)	-142.0	NM_027871	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	12.5	15.0	9.5	123.0	15.0	7.0	10.0	12.5
Merged-chr13-23438100-4	chr13	23437961	23438161	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7044.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	25.5	49.5	34.5	468.5	48.5	20.0	15.0	19.5
Merged-chr11-54145090-2	chr11	54144990	54145190	+	704.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44166.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	2.5	13.0	2.0	37.0	16.0	5.0	8.5	8.0
Merged-chr16-58509794-4	chr16	58509704	58509904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	intron (NM_001357433, intron 1 of 10)	13622.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	89.0	112.0	55.5	1042.0	213.5	78.0	76.5	91.5
Merged-chr15-38653157-4	chr15	38653087	38653287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8717.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	15.5	23.0	24.5	276.5	41.5	17.5	21.0	22.0
Merged-chr14-55737625-7	chr14	55737537	55737737	+	905.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8047.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	9.0	8.5	13.0	269.5	17.0	4.5	13.5	16.0
Merged-chr8-125054068-4	chr8	125053958	125054158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174853)	promoter-TSS (NM_174853)	-137.0	NM_174853	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	48.5	48.0	46.5	538.0	70.5	35.0	40.5	38.0
Merged-chr15-76770600-6	chr15	76770510	76770710	+	996.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	Lx7|LINE|L1	-46765.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	16.0	27.5	15.0	276.5	35.0	18.5	13.5	14.5
Merged-chr9-57769517-2	chr9	57769417	57769617	+	820.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3657.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	6.5	6.5	6.5	43.0	28.5	0.5	3.5	6.0
Merged-chr5-124112840-2	chr5	124112740	124112940	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_025671, exon 2 of 7)	exon (NM_025671, exon 2 of 7)	519.0	NM_001347478	66627.0	Mm.7050	NM_025671	ENSMUSG00000023707	Ogfod2	1300006G11Rik|5730405M13Rik|AU041636|AW552395	2-oxoglutarate and iron-dependent oxygenase domain containing 2	protein-coding	3.5	8.0	4.5	44.0	22.0	4.5	6.0	10.5
Merged-chr14-122191182-3	chr14	122191080	122191280	+	953.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029556, intron 1 of 7)	intron (NM_029556, intron 1 of 7)	9486.0	NM_029556	69634.0	Mm.34608	NM_029556	ENSMUSG00000025545	Clybl	0610033J05Rik|2310014M14Rik|AI256068|Clb	citrate lyase beta like	protein-coding	13.0	18.0	14.0	167.5	9.5	9.0	7.5	10.0
Merged-chr16-91462888-4	chr16	91462774	91462974	+	985.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-2230.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	26.5	36.5	15.5	270.5	58.5	14.5	18.0	11.5
Merged-chr8-11479300-9	chr8	11479184	11479384	+	985.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011227)	promoter-TSS (NM_011227)	-785.0	NM_011227	19332.0	Mm.37632	NM_011227	ENSMUSG00000031504	Rab20	AA536966|D8Ertd350e	RAB20, member RAS oncogene family	protein-coding	18.0	24.0	19.5	316.0	39.5	13.0	12.5	20.5
Merged-chr3-31446589-4	chr3	31446479	31446679	+	895.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136260.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	13.0	32.5	13.5	266.5	29.0	13.5	26.0	13.0
Merged-chr18-3507330-2	chr18	3507228	3507428	+	991.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_026505)	promoter-TSS (NM_026505)	-629.0	NM_026505	68010.0	Mm.284863	NM_026505	ENSMUSG00000024232	Bambi	2610003H06Rik	BMP and activin membrane-bound inhibitor	protein-coding	22.0	24.0	36.0	160.5	35.0	13.5	18.5	22.5
Merged-chr12-72768418-4	chr12	72768310	72768510	+	839.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008910, intron 1 of 5)	intron (NM_008910, intron 1 of 5)	7199.0	NM_008910	19042.0	Mm.261045	NM_008910	ENSMUSG00000021096	Ppm1a	2310003C21Rik|2900017D14Rik|AI427932|AU017636|MMPa-2|MPPa-1	protein phosphatase 1A, magnesium dependent, alpha isoform	protein-coding	9.5	6.5	4.0	195.0	24.5	6.5	22.0	7.0
Merged-chr1-87608562-4	chr1	87608460	87608660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11752.0	NM_001110193	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	26.5	37.0	22.0	432.0	60.0	31.5	33.5	33.5
Merged-chr11-52361532-4	chr11	52361477	52361677	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011694, intron 1 of 8)	CpG	715.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	20.0	14.5	22.0	233.5	24.5	21.5	12.0	22.0
Merged-chr12-86726441-4	chr12	86726339	86726539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144524)	promoter-TSS (NM_144524)	21.0	NM_144524	68737.0	Mm.63979	NM_144524	ENSMUSG00000021257	Angel1	1110030H02Rik|mKIAA0759	angel homolog 1	protein-coding	93.0	132.5	132.5	1141.0	217.0	71.5	120.0	115.5
Merged-chr5-99415226-4	chr5	99415140	99415340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-162313.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	101.0	135.5	81.0	1364.0	246.0	80.5	68.0	55.0
Merged-chr7-120635211-4	chr7	120635094	120635294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025899)	promoter-TSS (NM_025899)	5.0	NM_025899	67003.0	Mm.334206	NM_025899	ENSMUSG00000030884	Uqcrc2	1500004O06Rik	ubiquinol cytochrome c reductase core protein 2	protein-coding	78.5	102.0	64.5	1008.0	203.5	61.0	109.5	79.0
Merged-chr17-34356108-4	chr17	34355997	34356197	+	801.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_079835, intron 1 of 8)	MTD|LTR|ERVL-MaLR	1275.0	NM_079835	547431.0	Mm.441007	NM_079835	ENSMUSG00000024340	Btnl2	BTL-II|BTLN2|Btl2|Gm315|NG9	butyrophilin-like 2	protein-coding	9.0	27.0	7.5	84.0	44.0	13.5	17.5	15.0
Merged-chr19-5931756-4	chr19	5931653	5931853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6937.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	214.5	347.5	197.0	2063.0	400.0	165.0	171.5	129.0
Merged-chr14-47533834-4	chr14	47533752	47533952	+	955.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34582.0	NM_172599	100504663.0	Mm.287279	NM_172599	ENSMUSG00000037526	Atg14	4832427M01|Atg14L|D14Ertd114e|D14Ertd436e	autophagy related 14	protein-coding	14.5	14.0	8.0	190.5	103.5	50.0	34.5	55.5
Merged-chr11-22436418-4	chr11	22436329	22436529	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-75854.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	38.5	64.5	33.0	722.5	25.5	11.0	7.0	16.0
Merged-chr11-115709389-4	chr11	115709240	115709440	+	822.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008163)	promoter-TSS (NM_008163)	-743.0	NM_008163	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	5.5	6.0	7.5	55.5	16.0	8.5	12.0	12.0
Merged-chr10-30810353-2	chr10	30810253	30810453	+	760.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7027.0	NM_001358842	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	2.5	6.5	8.0	63.5	14.5	8.0	5.0	6.0
Merged-chr16-23927923-1	chr16	23927823	23928023	+	647.5	f0_balb.idr	intron (NM_001008230, intron 1 of 1)	intron (NM_001008230, intron 1 of 1)	2871.0	NM_001008230	224055.0	Mm.39248	NM_001008230	ENSMUSG00000047531	Rtp2	Gm605	receptor transporter protein 2	protein-coding	3.0	10.5	6.5	75.0	6.0	5.0	4.5	4.5
Merged-chr8-123357943-3	chr8	123357857	123358057	+	889.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172287, intron 6 of 14)	intron (NM_172287, intron 6 of 14)	-15754.0	NM_001359076	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	5.0	22.0	3.5	67.5	22.0	10.5	19.0	14.5
Merged-chr16-36752166-4	chr16	36752071	36752271	+	963.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021301, intron 21 of 21)	intron (NM_021301, intron 21 of 21)	32791.0	NM_001145899	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	16.0	13.5	8.5	218.0	50.5	19.5	33.5	27.0
Merged-chr1-65230751-4	chr1	65230643	65230843	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310624, intron 12 of 41)	intron (NM_001310624, intron 12 of 41)	44058.0	NM_011086	18711.0	Mm.38370	NM_011086	ENSMUSG00000025949	Pikfyve	5230400C17Rik|Pip5k|Pip5k3|Pipk5k3|PipkIII|p235	phosphoinositide kinase, FYVE type zinc finger containing	protein-coding	6.0	7.5	14.0	445.0	43.5	7.0	17.0	23.0
Merged-chr19-26605054-4	chr19	26604944	26605144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011416)	promoter-TSS (NM_011416)	-116.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	392.5	497.0	489.5	7046.0	700.0	300.5	458.5	314.0
Merged-chr2-154294934-2	chr2	154294834	154295034	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-12310.0	NM_001025574	433492.0	Mm.330682	NM_001025574	ENSMUSG00000067996	Bpifb9b	5430413K10Rik|AI413838	BPI fold containing family B, member 9B	protein-coding	21.5	14.0	8.0	36.0	37.0	7.0	3.5	12.0
Merged-chr3-97824904-4	chr3	97824820	97825020	+	899.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 3 of 46)	intron (NM_001039376, intron 3 of 46)	-56906.0	NR_110360	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	14.5	21.5	8.0	129.0	18.0	13.5	14.0	5.5
Merged-chr11-117199715-4	chr11	117199612	117199812	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113486)	promoter-TSS (NM_001113486)	51.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	11.5	11.5	10.5	127.5	34.0	14.0	7.0	17.5
Merged-chr15-76948461-4	chr15	76948436	76948636	+	987.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_054099, exon 1 of 4)	5' UTR (NM_054099, exon 1 of 4)	275.0	NM_001347540	117171.0	Mm.322968	NM_054099	ENSMUSG00000063236	1110038F14Rik	-	RIKEN cDNA 1110038F14 gene	protein-coding	13.5	30.0	10.5	197.5	41.0	16.5	12.0	29.0
Merged-chr4-46630533-4	chr4	46630428	46630628	+	974.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198664, intron 3 of 12)	intron (NM_198664, intron 3 of 12)	19671.0	NM_198664	381605.0	Mm.331595	NM_198664	ENSMUSG00000039813	Tbc1d2	A630005A06Rik|BC022630|Gm1037|PARIS-1|PARIS1	TBC1 domain family, member 2	protein-coding	35.0	76.0	50.5	650.0	45.5	12.5	36.0	20.0
Merged-chr12-55870153-4	chr12	55870051	55870251	+	824.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001037756)	TTS (NM_001037756)	33785.0	NR_155205	52592.0	Mm.24761	NM_027867	ENSMUSG00000012076	Brms1l	0710008O11Rik|AI159718|BRMS1|D12Ertd407e	breast cancer metastasis-suppressor 1-like	protein-coding	10.5	17.5	9.5	169.5	10.5	5.5	13.0	11.5
Merged-chr11-69366630-4	chr11	69366532	69366732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146019, intron 1 of 39)	intron (NM_146019, intron 1 of 39)	2794.0	NM_146019	216848.0	Mm.178246	NM_146019	ENSMUSG00000018474	Chd3	2600010P09Rik|AF020312|Chd7|Prp7|Prp9-1	chromodomain helicase DNA binding protein 3	protein-coding	67.0	123.0	56.5	974.5	224.5	79.0	70.0	98.0
Merged-chr6-29272563-4	chr6	29272463	29272663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023516)	promoter-TSS (NM_023516)	-63.0	NM_023516	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	306.5	537.0	352.0	4615.5	854.5	375.0	393.5	282.0
Merged-chr3-10273364-4	chr3	10273257	10273457	+	911.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029310, intron 1 of 5)	Lx8|LINE|L1	-19105.0	NM_001357160	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	21.0	15.0	21.0	507.0	26.0	15.5	27.0	20.5
Merged-chr7-114526446-4	chr7	114526350	114526550	+	971.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 11 of 15)	Lx7|LINE|L1	36522.0	NR_110407	244209.0	Mm.108037	NM_177382	ENSMUSG00000030670	Cyp2r1	-	cytochrome P450, family 2, subfamily r, polypeptide 1	protein-coding	10.0	23.0	17.0	310.5	56.0	30.0	34.0	11.0
Merged-chr6-65115046-4	chr6	65114951	65115151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001355250, exon 24 of 24)	3' UTR (NM_001355250, exon 24 of 24)	29679.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	72.5	57.0	107.0	1700.5	142.5	60.0	91.0	71.5
Merged-chr8-75104501-4	chr8	75104336	75104536	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-5073.0	NM_001302540	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	8.5	34.0	8.5	55.0	17.0	29.5	4.0	8.5
Merged-chr3-142530226-4	chr3	142530130	142530330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083312)	promoter-TSS (NM_001083312)	-106.0	NM_001083312	229900.0	Mm.45740	NM_145545	ENSMUSG00000040253	Gbp7	9830147J24Rik	guanylate binding protein 7	protein-coding	126.5	195.0	144.0	2423.5	267.0	111.0	86.0	122.0
Merged-chr14-55560681-5	chr14	55560519	55560719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199009)	promoter-TSS (NM_001199009)	-304.0	NM_001199009	28199.0	Mm.11535	NM_133734	ENSMUSG00000022214	Dcaf11	0710008A13Rik|C76035|D14Ucla1|Dacf11|GLO14|Wdr23	DDB1 and CUL4 associated factor 11	protein-coding	175.0	358.5	242.5	1925.0	387.0	181.5	148.0	145.0
Merged-chr3-81123651-4	chr3	81123557	81123757	+	903.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	87241.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	19.0	23.0	19.0	342.5	25.5	6.5	9.0	15.0
Merged-chr15-58020305-3	chr15	58020195	58020395	+	925.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13999.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	8.5	14.0	5.0	94.0	33.0	15.5	9.0	11.0
Merged-chr17-70850591-3	chr17	70850515	70850715	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164076)	promoter-TSS (NM_001164076)	595.0	NM_009372	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	31.5	67.0	29.0	232.0	106.0	44.0	43.0	30.5
Merged-chr4-19575076-4	chr4	19574970	19575170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025476)	promoter-TSS (NM_025476)	4.0	NM_025476	66302.0	Mm.440686	NM_025476	ENSMUSG00000028229	Rmdn1	Fam82b|RMD-1	regulator of microtubule dynamics 1	protein-coding	202.0	268.5	203.5	3334.0	515.0	198.0	266.5	226.5
Merged-chr3-37414649-4	chr3	37414548	37414748	+	886.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153561, intron 2 of 4)	intron (NM_153561, intron 2 of 4)	4948.0	NM_001291044	229228.0	Mm.436967	NM_153561	ENSMUSG00000050174	Nudt6	Asfgf2b	nudix (nucleoside diphosphate linked moiety X)-type motif 6	protein-coding	6.5	10.0	10.5	125.5	32.5	6.5	12.5	4.5
Merged-chr18-23750288-3	chr18	23750192	23750392	+	873.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_126066)	TTS (NR_126066)	2013.0	NR_126066	100502834.0	Mm.213614	NR_126066	ENSMUSG00000086287	Gm15972	-	predicted gene 15972	ncRNA	9.0	12.0	7.5	89.0	11.0	4.5	7.5	10.5
Merged-chr7-18958119-4	chr7	18958007	18958207	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001029877, exon 4 of 4)	exon (NM_001029877, exon 4 of 4)	-29417.0	NM_194064	378430.0	Mm.277153	NM_194064	ENSMUSG00000051965	Nanos2	nos2	nanos C2HC-type zinc finger 2	protein-coding	40.5	35.0	29.0	584.5	52.0	37.5	28.5	18.0
Merged-chr17-24413829-4	chr17	24413744	24413944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009070)	promoter-TSS (NM_009070)	669.0	NR_033554	654822.0	Mm.489806	NM_001039561	ENSMUSG00000073437	D330041H03Rik	-	RIKEN cDNA D330041H03 gene	ncRNA	16.5	22.0	6.0	74.5	78.5	27.5	26.5	29.0
Merged-chr12-69985760-4	chr12	69985664	69985864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022028, intron 1 of 4)	intron (NM_022028, intron 1 of 4)	1238.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	38.0	124.5	22.5	388.0	116.5	57.0	34.0	38.0
Merged-chr1-165771774-4	chr1	165771669	165771869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 4 of 4)	MIR|SINE|MIR	8011.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	134.5	240.5	178.0	2370.0	350.0	106.5	189.0	126.0
Merged-chr8-70540481-4	chr8	70540410	70540610	+	884.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	835.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	13.0	8.0	2.5	109.5	27.5	11.5	8.5	15.0
Merged-chr18-77663942-4	chr18	77663821	77664021	+	899.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178670, intron 2 of 4)	Tigger7|DNA|TcMar-Tigger	50089.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	11.0	19.0	15.5	182.5	26.5	18.0	19.0	14.5
Merged-chr14-30620400-4	chr14	30620296	30620496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	5812.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	95.0	95.5	76.5	1090.0	191.5	83.0	87.5	64.0
Merged-chr19-44146431-4	chr19	44146337	44146537	+	971.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028607)	promoter-TSS (NM_028607)	9.0	NM_028607	73689.0	Mm.124685	NM_028607	ENSMUSG00000057506	Bloc1s2	2410089B13Rik|BLOS2|Bloc1s2a	biogenesis of lysosomal organelles complex-1, subunit 2	protein-coding	34.0	55.5	24.0	314.0	70.0	39.5	17.5	35.0
Merged-chr2-35211725-7	chr2	35211622	35211822	+	878.496582	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-10602.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	9.0	8.0	14.5	62.0	4.5	4.0	8.0	4.0
Merged-chr7-142533178-4	chr7	142533161	142533361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011288, intron 1 of 4)	CpG	144.0	NM_011288	19935.0	Mm.12144	NM_011288	ENSMUSG00000037772	Mrpl23	L23mrp|Rpl23|Rpl23l	mitochondrial ribosomal protein L23	protein-coding	24.0	23.0	24.0	283.5	97.5	34.0	31.5	55.5
Merged-chr5-17975424-4	chr5	17975323	17975523	+	920.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 1 of 7)	intron (NM_001081143, intron 1 of 7)	12853.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	8.0	35.5	20.0	329.5	24.0	16.0	12.0	17.0
Merged-chr6-88821086-4	chr6	88820984	88821184	+	892.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166249, intron 6 of 7)	intron (NM_001166249, intron 6 of 7)	20851.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	13.5	27.5	17.0	238.5	23.5	16.5	13.5	4.5
Merged-chr2-26903552-1	chr2	26903452	26903652	+	585.0	f0_balb.idr	promoter-TSS (NM_009298)	promoter-TSS (NM_009298)	-665.0	NM_009298	20935.0	Mm.245577	NM_009298	ENSMUSG00000036160	Surf6	D2Wsu129e|Surf-6	surfeit gene 6	protein-coding	8.0	5.5	9.5	89.5	11.0	0.5	1.0	7.5
Merged-chr1-179960030-3	chr1	179959856	179960056	+	809.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346805)	promoter-TSS (NM_001346805)	-804.0	NM_001359541	226751.0	Mm.259655	NM_001033285	ENSMUSG00000026490	Cdc42bpa	A930014J19Rik|DMPK-like	CDC42 binding protein kinase alpha	protein-coding	10.0	21.5	6.0	155.0	14.5	1.5	12.0	3.5
Merged-chr4-32353039-4	chr4	32352933	32353133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64402.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	48.5	52.0	69.0	1153.5	42.0	21.0	31.5	25.5
Merged-chr17-57060461-6	chr17	57060403	57060603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025877)	promoter-TSS (NM_025877)	-640.0	NM_025877	66972.0	Mm.23720	NM_025877	ENSMUSG00000046329	Slc25a23	2310067G05Rik|SCaMC-3	solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 23	protein-coding	70.0	122.5	86.0	1236.5	145.0	85.0	74.5	77.0
Merged-chr3-137950643-4	chr3	137950548	137950748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	30901.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	24.0	57.0	56.0	508.0	73.0	29.0	41.5	35.5
Merged-chr1-74434711-4	chr1	74434599	74434799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310662)	TTS (NM_001310662)	25315.0	NM_009509	22349.0	Mm.471601	NM_009509	ENSMUSG00000026175	Vil1	Vil	villin 1	protein-coding	122.0	202.0	123.5	1704.0	262.5	120.0	91.5	94.5
Merged-chr9-123940833-4	chr9	123940729	123940929	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	27863.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	16.0	45.0	21.5	301.0	66.5	23.5	27.5	27.0
Merged-chr4-53080379-4	chr4	53080257	53080457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 17 of 49)	MIRb|SINE|MIR	68477.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	51.0	55.0	58.5	1273.0	150.0	25.0	103.0	40.0
Merged-chr9-120051761-3	chr9	120051665	120051865	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009987, exon 2 of 2)	exon (NM_009987, exon 2 of 2)	16531.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	28.0	33.0	43.0	415.0	17.5	1.0	4.5	4.0
Merged-chr2-168010102-4	chr2	168009998	168010198	+	907.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080708, intron 1 of 21)	intron (NM_001080708, intron 1 of 21)	495.0	NM_001080708	69553.0	Mm.68454	NM_001080708	ENSMUSG00000074577	Ripor3	2310033K02Rik|Fam65c|Gm124	RIPOR family member 3	protein-coding	14.5	30.0	5.0	202.5	23.0	8.5	13.5	9.5
Merged-chr11-95827196-4	chr11	95827106	95827306	+	811.762512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153104, intron 1 of 2)	intron (NM_153104, intron 1 of 2)	2706.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	10.5	21.0	9.0	142.5	28.0	13.5	10.0	19.0
Merged-chr19-34421289-3	chr19	34421136	34421336	+	560.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53899.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	1.5	7.0	3.0	44.0	10.0	7.0	6.5	10.5
Merged-chr17-29371501-2	chr17	29371385	29371585	+	558.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001159538, intron 9 of 15)	intron (NM_001159538, intron 9 of 15)	10571.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	10.0	13.0	3.0	74.5	16.0	4.5	5.0	5.0
Merged-chr6-129400513-3	chr6	129400408	129400608	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019985, intron 2 of 5)	intron (NM_019985, intron 2 of 5)	3211.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	19.0	29.5	22.0	243.0	53.0	9.5	24.0	24.5
Merged-chr5-124019450-4	chr5	124019344	124019544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	12816.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	59.5	87.5	53.5	917.5	125.0	40.0	60.0	77.0
Merged-chr9-71160799-4	chr9	71160570	71160770	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073483, intron 1 of 6)	intron (NR_073483, intron 1 of 6)	1963.0	NM_001271843	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	5.0	4.5	7.5	33.0	9.0	3.0	3.0	6.5
Merged-chr14-72600523-4	chr14	72600389	72600589	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 3 of 25)	intron (NM_207636, intron 3 of 25)	109514.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	10.5	13.5	4.5	137.0	21.0	5.0	11.0	14.5
Merged-chr2-103947053-3	chr2	103946971	103947171	+	923.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-10924.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	11.5	14.0	11.0	179.0	11.5	6.5	9.0	9.5
Merged-chr11-103965760-3	chr11	103965680	103965880	+	884.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304574)	promoter-TSS (NM_001304574)	-945.0	NM_001304574	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	4.5	9.0	2.5	64.0	13.5	5.5	11.0	15.0
Merged-chr14-27397784-4	chr14	27397665	27397865	+	867.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 9 of 10)	intron (NM_027871, intron 9 of 10)	-31069.0	NM_028945	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	24.0	14.0	15.0	260.0	20.5	6.0	6.0	19.0
Merged-chr6-85306732-3	chr6	85306632	85306832	+	895.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178639, intron 2 of 13)	MTD|LTR|ERVL-MaLR	26690.0	NM_178639	94282.0	Mm.121485	NM_178639	ENSMUSG00000033720	Sfxn5	C230001H08Rik	sideroflexin 5	protein-coding	8.0	22.0	6.5	200.5	13.5	3.5	7.0	8.0
Merged-chr5-66079541-4	chr5	66079423	66079623	+	975.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	18656.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	34.5	43.5	14.0	313.5	62.5	26.0	25.0	19.0
Merged-chr14-10430825-4	chr14	10430724	10430924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	intron (NM_001360141, intron 4 of 9)	22634.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	79.0	58.5	39.0	1085.0	162.0	67.0	77.0	69.0
Merged-chr1-133133671-4	chr1	133133572	133133772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133819, intron 1 of 1)	intron (NM_133819, intron 1 of 1)	2506.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	165.5	246.0	143.5	2467.0	469.5	149.0	165.0	154.5
Merged-chr1-59119869-4	chr1	59119744	59119944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037812)	promoter-TSS (NM_001037812)	-38.0	NM_001037812	381259.0	Mm.261275	NM_001033449	ENSMUSG00000038079	Tmem237	AI853305|Als2cr4|Gm972	transmembrane protein 237	protein-coding	58.0	77.0	29.0	502.5	202.0	64.0	101.5	84.5
Merged-chr11-109650375-4	chr11	109650244	109650444	+	925.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021880)	promoter-TSS (NM_021880)	-577.0	NM_021880	19084.0	Mm.30039	NM_021880	ENSMUSG00000020612	Prkar1a	1300018C22Rik|RIalpha|Tse-1|Tse1	protein kinase, cAMP dependent regulatory, type I, alpha	protein-coding	12.0	19.0	12.0	130.5	29.5	8.5	10.0	15.0
Merged-chr8-85077171-4	chr8	85076977	85077177	+	779.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026399, intron 5 of 8)	intron (NM_026399, intron 5 of 8)	3669.0	NM_026399	67836.0	Mm.334680	NM_026399	ENSMUSG00000005150	Wdr83	1500041N16Rik|Morg1	WD repeat domain containing 83	protein-coding	5.0	5.5	9.0	60.0	16.5	8.5	8.5	8.5
Merged-chr2-5793985-4	chr2	5793876	5794076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001356501)	TTS (NM_001356501)	-51058.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	141.0	184.0	149.5	1370.5	217.0	74.0	90.5	85.5
Merged-chr6-128424703-4	chr6	128424603	128424803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133927, intron 1 of 11)	CpG	207.0	NM_133927	101142.0	Mm.31345	NM_133927	ENSMUSG00000001518	Itfg2	2700050P07Rik|AI646725	integrin alpha FG-GAP repeat containing 2	protein-coding	147.0	234.5	162.0	2468.0	369.0	142.0	174.0	165.5
Merged-chr14-51844107-4	chr14	51843993	51844193	+	842.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9675.0	NM_053111	93719.0	Mm.221324	NM_053111	ENSMUSG00000062148	Ear6	-	eosinophil-associated, ribonuclease A family, member 6	protein-coding	6.0	21.0	21.5	271.5	9.5	5.0	11.0	9.5
Merged-chr12-11209816-1	chr12	11209716	11209916	+	737.666687	f0_balb.idr	promoter-TSS (NM_019544)	promoter-TSS (NM_019544)	-868.0	NM_019544	56184.0	Mm.117113	NM_019544	ENSMUSG00000047002	Msgn1	Msgn|pMsgn1	mesogenin 1	protein-coding	7.5	8.0	8.0	170.0	0.0	0.0	2.0	0.0
Merged-chr17-17589132-4	chr17	17589024	17589224	+	759.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	L1MEf|LINE|L1	35365.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	15.5	9.5	7.0	151.0	25.0	11.0	16.0	4.0
Merged-chr11-6626023-4	chr11	6625922	6626122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130457)	promoter-TSS (NM_001130457)	45.0	NM_001130457	21379.0	Mm.247761	NM_134011	ENSMUSG00000000384	Tbrg4	2310042P22Rik|AA120735|AA408001|AI527316|Cpr2|R74877|Tb-12|mKIAA0948	transforming growth factor beta regulated gene 4	protein-coding	62.0	117.5	69.0	930.5	164.5	64.5	74.0	59.5
Merged-chr6-124864076-2	chr6	124863976	124864176	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355257)	promoter-TSS (NM_001355257)	-93.0	NM_001355257	14788.0	Mm.2514	NM_013533	ENSMUSG00000038390	Gpr162	A-2|BC031437|Grca	G protein-coupled receptor 162	protein-coding	12.0	7.5	6.5	61.0	18.0	8.0	6.5	4.0
Merged-chr7-16002394-4	chr7	16002315	16002515	+	984.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-2920.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	38.5	24.5	50.0	1328.0	31.5	8.0	15.5	26.0
Merged-chr10-60375745-3	chr10	60375667	60375867	+	775.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 37 of 68)	intron (NM_001252635, intron 37 of 68)	-23959.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	5.5	5.5	7.0	106.0	5.5	4.0	2.0	2.0
Merged-chr5-123895331-2	chr5	123895223	123895423	+	934.400024	f0_c57.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-11952.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	0.0	0.0	0.0	0.0	41.5	29.5	15.0	22.0
Merged-chr15-99333158-4	chr15	99333062	99333262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310622, intron 4 of 25)	intron (NM_001310622, intron 4 of 25)	29878.0	NM_001348256	54614.0	Mm.358668	NM_018786	ENSMUSG00000023007	Prpf40b	2610317D23Rik|Hypc	pre-mRNA processing factor 40B	protein-coding	119.0	191.5	89.5	1447.0	178.0	90.0	90.0	84.0
Merged-chr11-6411876-4	chr11	6411785	6411985	+	850.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3985.0	NM_008907	268373.0	Mm.5246	NM_008907	ENSMUSG00000071866	Ppia	2700098C05|Cphn|CyP-18|CypA	peptidylprolyl isomerase A	protein-coding	14.5	14.0	6.0	177.5	26.5	3.5	10.5	10.0
Merged-chr9-78442751-2	chr9	78442651	78442851	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_173386, exon 1 of 5)	exon (NM_173386, exon 1 of 5)	486.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	21.5	22.0	39.0	201.5	22.5	15.5	17.5	39.0
Merged-chr18-46597670-4	chr18	46597594	46597794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010120)	promoter-TSS (NM_010120)	-10.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	194.5	347.5	147.0	2830.0	510.0	222.0	215.5	196.5
Merged-chr12-108206856-3	chr12	108206763	108206963	+	844.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159910, intron 5 of 5)	intron (NM_001159910, intron 5 of 5)	27125.0	NM_009832	12454.0	Mm.474441	NM_009832	ENSMUSG00000021258	Ccnk	AW123198|AW413594|CPR4|CycK	cyclin K	protein-coding	14.0	9.0	11.5	98.5	25.0	9.0	8.0	7.0
Merged-chr19-34640797-4	chr19	34640716	34640916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008331)	promoter-TSS (NM_008331)	-73.0	NM_053217	112419.0	Mm.440727	NM_053217	ENSMUSG00000067297	Ifit1bl2	2010002M12Rik|AW412491|Ifit1b	interferon induced protein with tetratricopeptide repeats 1B like 2	protein-coding	64.5	80.0	45.5	1082.5	179.0	58.0	47.0	50.5
Merged-chr11-106135319-4	chr11	106135214	106135414	+	976.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 6 of 15)	intron (NM_011947, intron 6 of 15)	24613.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	33.0	26.5	12.0	467.5	82.5	22.0	27.5	31.0
Merged-chr6-125425953-6	chr6	125425864	125426064	+	882.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-45460.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	8.5	9.5	12.0	110.5	24.0	10.0	8.0	10.5
Merged-chr4-63400072-6	chr4	63399940	63400140	+	884.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 1 of 21)	intron (NM_001045514, intron 1 of 21)	-1800.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	8.5	10.5	12.5	127.0	29.5	13.5	4.0	10.0
Merged-chr9-75434716-4	chr9	75434636	75434836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6788.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	112.5	212.5	87.5	2003.0	337.0	92.5	135.0	114.0
Merged-chr13-12106899-3	chr13	12106729	12106929	+	843.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023868, exon 1 of 105)	5' UTR (NM_023868, exon 1 of 105)	116.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	10.5	11.0	11.0	68.5	16.5	6.0	6.0	4.0
Merged-chr8-54671978-3	chr8	54671897	54672097	+	679.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172152, intron 9 of 29)	intron (NM_001172152, intron 9 of 29)	46681.0	NM_028220	244484.0	Mm.95281	NM_028220	ENSMUSG00000039375	Wdr17	3010002I12Rik|B230207L18Rik	WD repeat domain 17	protein-coding	1.0	12.0	2.5	97.0	14.0	5.5	5.0	7.0
Merged-chr11-89028902-4	chr11	89028834	89029034	+	931.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29531.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	11.5	9.0	1.5	155.5	97.0	36.0	40.0	26.5
Merged-chr17-36951150-4	chr17	36951044	36951244	+	975.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029632, intron 1 of 2)	intron (NM_029632, intron 1 of 2)	648.0	NM_029632	76497.0	Mm.46176	NM_029632	ENSMUSG00000036398	Ppp1r11	1500041B02Rik|AV117883|Hcgv|Tcte5|Tctex-5|Tctex5	protein phosphatase 1, regulatory (inhibitor) subunit 11	protein-coding	15.0	22.0	18.5	175.5	49.0	12.0	23.5	24.5
Merged-chr7-3664996-2	chr7	3664896	3665096	+	720.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_181820)	TTS (NM_181820)	844.0	NM_027203	69757.0	Mm.389782	NM_027203	ENSMUSG00000078813	Leng1	1500001K17Rik	leukocyte receptor cluster (LRC) member 1	protein-coding	12.0	8.0	8.0	55.0	6.5	2.5	10.0	4.5
Merged-chr10-80569906-4	chr10	80569811	80570011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_078477, intron 1 of 1)	intron (NM_078477, intron 1 of 1)	7385.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	44.0	113.0	33.5	706.0	140.0	52.5	66.0	70.0
Merged-chr3-130708694-4	chr3	130708565	130708765	+	871.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025509, intron 1 of 3)	intron (NM_025509, intron 1 of 3)	779.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	7.5	4.5	16.0	149.0	18.5	6.5	13.0	15.5
Merged-chr7-116040262-3	chr7	116040144	116040344	+	911.488892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1500.0	NM_001025559	20679.0	Mm.323365	NM_011445	ENSMUSG00000051910	Sox6	AI987981|SOX-LZ	SRY (sex determining region Y)-box 6	protein-coding	7.5	7.0	17.0	155.0	18.0	2.0	7.5	1.0
Merged-chr8-94191302-4	chr8	94191211	94191411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	12222.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	244.5	369.5	198.5	3208.0	527.5	198.0	236.5	215.0
Merged-chr19-32328307-3	chr19	32328207	32328407	+	991.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	21009.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	17.0	21.0	16.0	371.0	10.5	5.5	13.5	6.5
Merged-chr4-142071072-4	chr4	142070976	142071176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-13222.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	59.0	111.0	38.5	319.5	116.0	42.5	37.5	27.0
Merged-chr11-60211032-3	chr11	60210942	60211142	+	928.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358314)	promoter-TSS (NM_001358314)	-571.0	NM_001358314	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	5.5	12.0	7.5	146.0	11.5	11.0	3.5	10.0
Merged-chr5-33821168-6	chr5	33821047	33821247	+	873.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-21965.0	NM_175231	107823.0	Mm.19892	NM_175231	ENSMUSG00000057406	Nsd2	5830445G22Rik|9430010A17Rik|AW555663|C130020C13Rik|D030027O06Rik|D930023B08Rik|MMSET|Whsc1|Whsc1l|mKIAA1090	nuclear receptor binding SET domain protein 2	protein-coding	19.5	7.0	6.5	96.5	19.5	7.0	8.5	8.5
Merged-chr5-134532594-4	chr5	134532485	134532685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 2 of 15)	intron (NM_001039162, intron 2 of 15)	19849.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	115.5	184.5	108.0	1677.0	266.5	107.0	133.0	111.5
Merged-chr4-135286999-4	chr4	135286914	135287114	+	893.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14254.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	15.5	11.0	13.0	302.5	30.5	10.5	15.5	16.5
Merged-chr11-100725091-4	chr11	100724998	100725198	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	intron (NM_001305003, intron 1 of 5)	11248.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	8.5	25.5	15.0	141.0	39.5	6.5	15.0	5.0
Merged-chr10-70215018-4	chr10	70214902	70215102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304739, intron 1 of 2)	intron (NM_001304739, intron 1 of 2)	10338.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	20.5	21.0	22.5	332.5	71.5	21.0	28.0	34.0
Merged-chr9-118651057-4	chr9	118650971	118651171	+	947.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 4 of 27)	intron (NM_133721, intron 4 of 27)	44362.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	35.5	24.5	30.5	481.5	37.0	10.5	28.0	17.0
Merged-chr10-76962053-4	chr10	76961972	76962172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021568)	promoter-TSS (NM_021568)	-125.0	NM_021568	59093.0	Mm.272803	NM_021568	ENSMUSG00000001120	Pcbp3	AlphaCP-3	poly(rC) binding protein 3	protein-coding	112.0	217.0	117.5	2102.5	85.5	39.0	44.0	38.0
Merged-chr3-60474009-2	chr3	60473909	60474109	+	761.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253713, intron 2 of 9)	intron (NM_001253713, intron 2 of 9)	1179.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	2.0	3.5	3.0	25.0	8.5	8.0	8.5	8.5
Merged-chr16-3908687-4	chr16	3908584	3908784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029738)	promoter-TSS (NM_029738)	5.0	NM_028484	73261.0	Mm.486226	NM_028484	ENSMUSG00000005983	1700037C18Rik	2810022L20Rik	RIKEN cDNA 1700037C18 gene	protein-coding	21.5	38.5	29.5	334.0	95.0	45.5	38.0	20.0
Merged-chr15-78772592-4	chr15	78772481	78772681	+	711.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008595, intron 1 of 7)	intron (NM_008595, intron 1 of 7)	864.0	NM_008595	17305.0	Mm.149235	NM_008595	ENSMUSG00000018169	Mfng	AW546563	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	6.0	2.0	4.5	66.5	17.5	5.5	7.0	10.0
Merged-chr8-35375605-4	chr8	35375539	35375739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177741)	promoter-TSS (NM_177741)	-102.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	56.5	60.5	67.5	685.0	93.5	47.0	49.0	35.0
Merged-chr18-34507412-4	chr18	34507314	34507514	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146084)	promoter-TSS (NM_146084)	-591.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	26.0	27.5	27.0	345.0	23.0	6.5	11.5	15.0
Merged-chr9-123845328-2	chr9	123845228	123845428	+	605.849976	f1_balb.idr|f1_c57bl6.idr	intron (NM_148925, intron 1 of 18)	intron (NM_148925, intron 1 of 18)	6333.0	NM_148925	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	3.5	2.0	2.5	50.5	10.0	8.5	5.5	6.0
Merged-chr12-91637642-4	chr12	91637534	91637734	+	880.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175367, exon 7 of 7)	3' UTR (NM_175367, exon 7 of 7)	-47147.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	6.0	9.5	17.5	124.5	23.5	2.0	14.0	3.0
Merged-chr4-57027263-3	chr4	57027166	57027366	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355492, intron 19 of 24)	intron (NM_001355492, intron 19 of 24)	-36875.0	NM_001142965	230235.0	Mm.207654	NM_001142965	ENSMUSG00000045589	Frrs1l	6430704M03Rik	ferric-chelate reductase 1 like	protein-coding	26.5	38.0	38.0	512.5	4.5	5.0	3.5	5.0
Merged-chr8-120113583-1	chr8	120113483	120113683	+	1000.0	f0_balb.idr	promoter-TSS (NM_001163762)	promoter-TSS (NM_001163762)	-569.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	41.0	83.0	121.5	1395.0	191.0	66.0	74.5	68.5
Merged-chr2-11439489-4	chr2	11439380	11439580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-40980.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	39.5	35.5	42.0	390.0	90.0	30.0	34.5	44.5
Merged-chr14-103469296-2	chr14	103469201	103469401	+	755.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-44040.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	15.5	16.5	8.0	142.0	34.5	8.0	12.0	11.0
Merged-chr7-99887510-4	chr7	99887387	99887587	+	863.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164258, intron 8 of 18)	intron (NM_001164258, intron 8 of 18)	28269.0	NM_001164258	446101.0	Mm.440757	NM_001164258	ENSMUSG00000035211	Xrra1	AI449753	X-ray radiation resistance associated 1	protein-coding	3.0	23.5	9.0	92.0	30.0	12.5	14.0	22.0
Merged-chr10-94828383-6	chr10	94828305	94828505	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 20 of 30)	intron (NM_018797, intron 20 of 30)	116173.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	5.0	20.0	6.0	99.0	19.0	4.5	7.0	9.5
Merged-chr2-127453962-4	chr2	127453844	127454044	+	824.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9379.0	NM_029629	68126.0	Mm.288676	NM_029629	ENSMUSG00000027371	Fahd2a	1500003K14Rik|B430104H02Rik|Cgi-105|Fahd2	fumarylacetoacetate hydrolase domain containing 2A	protein-coding	7.5	17.0	8.0	90.5	14.5	22.5	11.0	11.0
Merged-chr9-46283010-4	chr9	46282909	46283109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146000)	promoter-TSS (NM_146000)	-3.0	NM_146000	215051.0	Mm.32648	NM_146000	ENSMUSG00000032077	Bud13	AV305342|D030060M11Rik	BUD13 homolog	protein-coding	45.5	70.0	27.0	565.0	121.0	46.5	40.5	46.0
Merged-chr15-36792637-4	chr15	36792515	36792715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253806, intron 1 of 5)	CpG	-1683.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	186.5	267.0	238.5	2676.5	571.5	234.5	314.0	242.5
Merged-chr2-167689877-6	chr2	167689815	167690015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110334)	promoter-TSS (NR_110334)	-844.0	NR_110334	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	57.0	63.0	8.0	376.5	104.5	43.0	44.5	36.0
Merged-chr7-101905817-4	chr7	101905733	101905933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025605)	promoter-TSS (NM_025605)	-4.0	NM_025605	66508.0	Mm.30003	NM_025605	ENSMUSG00000030842	Lamtor1	2400001E08Rik|Pdro|p18	late endosomal/lysosomal adaptor, MAPK and MTOR activator 1	protein-coding	210.0	361.5	236.5	2806.0	469.0	197.0	218.0	220.5
Merged-chr8-106145509-4	chr8	106145402	106145602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B|LTR|ERVL	-4852.0	NM_133792	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	36.5	57.5	34.5	205.5	58.5	33.5	22.5	18.5
Merged-chr11-79962450-4	chr11	79962341	79962541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144826)	promoter-TSS (NM_144826)	-54.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	57.5	100.5	45.0	594.0	147.0	58.5	44.0	58.5
Merged-chr9-96559241-5	chr9	96559158	96559358	+	912.0866699999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053268, intron 16 of 23)	MLTR11B|LTR|ERVK	72245.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	11.5	17.0	21.0	175.0	40.0	8.5	13.5	15.0
Merged-chr9-13587280-4	chr9	13587184	13587384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32705.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	218.5	391.5	221.5	3836.5	585.0	213.5	284.5	231.5
Merged-chr13-52583078-4	chr13	52582976	52583176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198977)	promoter-TSS (NM_001198977)	-361.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	75.5	116.0	88.5	1364.5	175.0	51.0	80.0	56.5
Merged-chr9-99119957-3	chr9	99119854	99120054	+	777.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 2 of 23)	intron (NM_029094, intron 2 of 23)	20257.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	1.0	4.0	11.5	198.5	9.5	5.5	6.0	7.0
Merged-chr10-80292391-4	chr10	80292315	80292515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310726)	promoter-TSS (NM_001310726)	-16.0	NM_009091	20054.0	Mm.643	NM_009091	ENSMUSG00000063457	Rps15	rig	ribosomal protein S15	protein-coding	115.5	175.5	65.5	1266.5	233.5	103.5	111.0	115.0
Merged-chr11-69991003-4	chr11	69990911	69991111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019749)	promoter-TSS (NM_019749)	-359.0	NM_019749	56486.0	Mm.272460	NM_019749	ENSMUSG00000018567	Gabarap	-	gamma-aminobutyric acid receptor associated protein	protein-coding	42.0	68.0	24.0	357.5	89.5	41.5	53.5	44.5
Merged-chr13-5705169-4	chr13	5705066	5705266	+	633.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	152926.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	11.0	6.0	3.0	106.5	38.5	7.0	10.0	5.5
Merged-chr14-122638367-4	chr14	122638248	122638448	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 7 of 24)	intron (NR_153443, intron 7 of 24)	104020.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	21.0	16.0	19.5	281.0	34.0	13.0	14.5	6.0
Merged-chr14-69732673-4	chr14	69732554	69732754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134078)	promoter-TSS (NM_134078)	-84.0	NM_134078	105513.0	Mm.159637	NM_134078	ENSMUSG00000034190	Chmp7	4930596K11Rik|6330407G04Rik|AI450338|AW550775	charged multivesicular body protein 7	protein-coding	142.0	215.5	119.0	1725.0	382.0	175.5	174.5	133.0
Merged-chr6-31399771-3	chr6	31399658	31399858	+	888.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040300)	promoter-TSS (NR_040300)	930.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	9.5	8.5	8.5	109.0	20.5	8.5	14.0	9.5
Merged-chr18-89181803-4	chr18	89181694	89181894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15633.0	NM_178687	225825.0	Mm.139293	NM_178687	ENSMUSG00000034028	Cd226	BC051526|DNAM-1|DNAM1|Pta1|TLiSA1	CD226 antigen	protein-coding	78.5	131.0	80.5	1064.0	237.5	72.5	95.0	56.5
Merged-chr5-29290274-4	chr5	29290185	29290385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020295, intron 8 of 16)	intron (NM_020295, intron 8 of 16)	88105.0	NM_020295	56873.0	Mm.41572	NM_020295	ENSMUSG00000010721	Lmbr1	1110048D14Rik|AU017641	limb region 1	protein-coding	21.0	28.0	13.0	173.5	54.5	23.5	27.0	26.0
Merged-chr12-69682065-7	chr12	69681924	69682124	+	988.3253779999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135559)	promoter-TSS (NM_001135559)	-172.0	NM_001135559	20663.0	Mm.3770	NM_001135559	ENSMUSG00000034801	Sos2	SOS-2|mSOS-2	SOS Ras/Rho guanine nucleotide exchange factor 2	protein-coding	8.0	11.5	5.5	100.5	39.5	7.0	11.5	14.0
Merged-chr10-98966827-4	chr10	98966784	98966984	+	969.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	51732.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	13.0	21.0	13.5	341.0	62.0	14.5	20.5	8.5
Merged-chr2-133554441-3	chr2	133554339	133554539	+	857.6166380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007553, exon 2 of 3)	exon (NM_007553, exon 2 of 3)	2280.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	11.5	11.5	14.0	143.5	16.0	4.5	8.0	10.5
Merged-chr1-161876870-4	chr1	161876752	161876952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357401)	promoter-TSS (NM_001357401)	-170.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	470.5	690.5	548.0	7523.5	1315.0	556.5	727.5	557.5
Merged-chr17-23599220-4	chr17	23599134	23599334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011747, exon 1 of 6)	5' UTR (NM_011747, exon 1 of 6)	253.0	NM_011747	22654.0	Mm.40326	NM_011747	ENSMUSG00000062012	Zfp13	AI835008|Krox-8|Zfp-13	zinc finger protein 13	protein-coding	90.0	111.0	85.0	1557.0	143.0	56.0	77.5	42.0
Merged-chr10-25196463-3	chr10	25196350	25196550	+	726.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 7 of 7)	Lx7|LINE|L1	3720.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	5.5	7.0	13.5	164.0	12.5	0.5	7.0	3.5
Merged-chr19-10173655-4	chr19	10173569	10173769	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9219.0	NM_146094	76267.0	Mm.30158	NM_146094	ENSMUSG00000010663	Fads1	0710001O03Rik|A930006B21Rik|AI317215|DSD	fatty acid desaturase 1	protein-coding	23.0	33.5	24.5	202.0	36.5	20.5	13.5	11.5
Merged-chr6-128839660-4	chr6	128839555	128839755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13340.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	38.5	82.5	20.5	586.5	99.5	45.0	46.0	32.5
Merged-chr10-89703235-4	chr10	89703144	89703344	+	871.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16881.0	NR_130956	69002.0	Mm.293947	NR_130956	ENSMUSG00000097383	1500026H17Rik	-	RIKEN cDNA 1500026H17 gene	ncRNA	4.5	5.5	12.0	123.5	37.0	8.5	14.0	11.0
Merged-chr15-58262263-4	chr15	58262168	58262368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47376.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	109.0	115.5	87.0	1362.0	241.0	92.5	88.0	87.0
Merged-chr15-27927161-3	chr15	27927043	27927243	+	771.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	98705.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	7.5	7.0	12.0	48.0	16.5	3.0	2.0	7.0
Merged-chr6-88901675-3	chr6	88901553	88901753	+	996.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011906)	promoter-TSS (NM_011906)	-598.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	11.0	14.5	11.0	129.0	25.0	12.0	6.5	8.0
Merged-chr3-119772968-4	chr3	119772877	119773077	+	835.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310711, intron 2 of 13)	intron (NM_001310711, intron 2 of 13)	10411.0	NM_001310711	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	7.0	10.0	11.5	127.5	17.0	13.5	16.5	11.5
Merged-chr5-25498111-4	chr5	25498001	25498201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081383, intron 1 of 58)	CpG	682.0	NM_001081383	231051.0	Mm.332268	NM_001081383	ENSMUSG00000038056	Kmt2c	E330008K23Rik|HALR|Mll3|mKIAA1506	lysine (K)-specific methyltransferase 2C	protein-coding	20.0	22.5	34.5	396.0	53.5	19.0	29.0	30.0
Merged-chr9-58804411-3	chr9	58804352	58804552	+	958.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-19060.0	NM_001081192	330953.0	Mm.151967	NM_001081192	ENSMUSG00000032338	Hcn4	Bcng3|Hcn3	hyperpolarization-activated, cyclic nucleotide-gated K+ 4	protein-coding	14.0	15.5	10.5	20.5	13.5	4.5	4.0	3.5
Merged-chr7-113722189-4	chr7	113722097	113722297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-43801.0	NM_145584	233744.0	Mm.334160	NM_145584	ENSMUSG00000038156	Spon1	AI666765|AW455831|BC020531|D330035F22Rik|FSP	spondin 1, (f-spondin) extracellular matrix protein	protein-coding	47.5	65.5	53.5	826.5	96.0	37.5	57.0	47.5
Merged-chr14-75754168-4	chr14	75754083	75754283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177381, intron 1 of 22)	CpG	310.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	22.0	38.5	63.0	445.0	77.0	25.5	38.5	36.0
Merged-chr5-137032857-4	chr5	137032767	137032967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001039385, exon 2 of 2)	3' UTR (NM_001039385, exon 2 of 2)	2572.0	NM_001039385	381677.0	Mm.389697	NM_001039385	ENSMUSG00000037428	Vgf	Gm1052	VGF nerve growth factor inducible	protein-coding	91.5	80.5	42.5	910.0	174.0	104.0	87.5	98.0
Merged-chr11-108244420-4	chr11	108244316	108244516	+	832.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	99472.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	11.0	15.5	9.0	135.0	27.0	1.5	11.0	11.5
Merged-chr11-20712384-4	chr11	20712273	20712473	+	962.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181411, intron 2 of 8)	intron (NM_181411, intron 2 of 8)	29183.0	NM_001290545	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	10.5	23.0	11.5	252.0	75.5	17.0	10.0	9.0
Merged-chr6-122822049-2	chr6	122821949	122822149	+	856.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_021899, intron 1 of 10)	intron (NM_021899, intron 1 of 10)	1865.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	6.5	2.5	5.5	68.0	29.5	5.5	7.0	9.0
Merged-chr5-118381534-4	chr5	118381410	118381610	+	975.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136283.0	NM_001081236	76792.0	Mm.103428	NM_001081236	ENSMUSG00000032840	2410131K14Rik	-	RIKEN cDNA 2410131K14 gene	protein-coding	12.5	26.5	8.5	166.0	17.0	16.0	19.0	10.5
Merged-chr11-22617725-4	chr11	22617676	22617876	+	924.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105493.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	12.5	16.5	20.0	250.5	33.0	10.0	15.5	11.0
Merged-chr16-97272390-2	chr16	97272290	97272490	+	707.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84338.0	NM_019517	56175.0	Mm.97885	NM_019517	ENSMUSG00000040605	Bace2	1110059C24Rik|AEPLC|AI850424|ALP56|ARP1|ASP1|ASP21|BAE2|CDA13|CEAP1|DRAP	beta-site APP-cleaving enzyme 2	protein-coding	4.5	12.0	6.0	64.5	10.0	2.5	2.5	4.0
Merged-chr19-32895834-1	chr19	32895734	32895934	+	727.5	f0_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	138257.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	14.5	14.5	17.5	127.0	29.0	12.5	8.0	8.0
Merged-chr2-128828673-4	chr2	128828562	128828762	+	905.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355629, intron 5 of 18)	intron (NM_001355629, intron 5 of 18)	10359.0	NM_001355629	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	17.5	31.0	23.5	233.0	42.0	8.5	10.5	13.5
Merged-chr13-113322220-3	chr13	113322134	113322334	+	937.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112575.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	16.5	11.5	8.5	144.0	8.5	6.5	7.0	25.0
Merged-chr16-22116274-4	chr16	22116172	22116372	+	955.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	RMER1C|Other|Other	47027.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	13.0	16.5	19.5	223.0	69.5	12.0	15.0	35.5
Merged-chr11-120369825-4	chr11	120369749	120369949	+	801.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027980, exon 10 of 10)	3' UTR (NM_027980, exon 10 of 10)	8315.0	NM_172802	238021.0	Mm.481403	NM_172802	ENSMUSG00000025380	Fscn2	A930022G03|Ahl8|C630046B20Rik	fascin actin-bundling protein 2	protein-coding	9.0	8.5	3.0	113.5	26.0	7.5	5.0	11.0
Merged-chr7-12978189-4	chr7	12978090	12978290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168561, exon 1 of 5)	5' UTR (NM_001168561, exon 1 of 5)	342.0	NM_001168561	269870.0	Mm.62083	NM_175558	ENSMUSG00000033961	Zfp446	A630035I11Rik|A930031C22|AA120513|AV306632	zinc finger protein 446	protein-coding	419.5	605.5	479.0	7701.0	921.0	305.0	554.5	339.0
Merged-chr6-120145642-4	chr6	120145527	120145727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-48196.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	54.5	77.0	58.5	1005.5	74.5	39.0	44.0	39.5
Merged-chr8-20122299-4	chr8	20122274	20122474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	175058.0	NR_030708	547150.0	Mm.359054	NR_030708	ENSMUSG00000071796	6820431F20Rik	-	cadherin 11 pseudogene	pseudo	75.0	73.5	112.5	559.0	431.5	191.5	244.5	167.0
Merged-chr9-45278280-3	chr9	45278246	45278446	+	905.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9197.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	7.5	3.0	4.5	96.5	6.5	4.5	8.5	7.5
Merged-chr16-85143696-2	chr16	85143610	85143810	+	723.166626	f0_balb.idr|f1_balb.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	29997.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	10.0	12.5	16.0	122.0	7.5	2.5	3.5	12.0
Merged-chr8-46143643-4	chr8	46143576	46143776	+	822.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19530.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	3.5	16.0	9.0	70.5	24.5	6.0	8.5	7.0
Merged-chr1-80630488-4	chr1	80630382	80630582	+	917.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 3 of 55)	intron (NM_175291, intron 3 of 55)	34870.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	17.5	33.0	18.0	285.0	38.5	15.0	10.0	13.5
Merged-chr4-58503227-4	chr4	58503119	58503319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172989, intron 2 of 3)	ORR1D2|LTR|ERVL-MaLR	-3816.0	NM_001290486	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	30.0	52.0	29.5	251.5	179.0	48.0	38.0	46.0
Merged-chr9-119064575-4	chr9	119064510	119064710	+	845.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011700, intron 11 of 18)	intron (NM_011700, intron 11 of 18)	11832.0	NM_001164567	22351.0	Mm.83817	NM_011700	ENSMUSG00000038775	Vill	Villp	villin-like	protein-coding	8.5	8.0	7.0	136.0	20.5	13.5	14.0	14.5
Merged-chr10-40883429-4	chr10	40883341	40883541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031877)	promoter-TSS (NM_031877)	-93.0	NM_031877	83767.0	Mm.41353	NM_031877	ENSMUSG00000019831	Wasf1	AI195380|AI838537|Scar|WAVE|WAVE-1	WAS protein family, member 1	protein-coding	76.0	86.0	69.0	1005.0	136.0	43.5	77.0	53.5
Merged-chr17-24007130-4	chr17	24007029	24007229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9029.0	NM_133731	70835.0	Mm.157351	NM_133731	ENSMUSG00000045027	Prss22	4733401N09Rik|BSSP-4|SP001LA	protease, serine 22	protein-coding	76.0	60.0	89.5	925.0	197.5	64.5	68.5	58.5
Merged-chr10-118050491-4	chr10	118050388	118050588	+	971.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91299.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	17.5	17.0	32.5	292.0	44.5	16.5	31.0	40.0
Merged-chr2-167659312-4	chr2	167659228	167659428	+	934.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145538, intron 1 of 5)	intron (NM_145538, intron 1 of 5)	2216.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	14.5	9.5	8.5	141.0	26.0	5.5	6.0	15.0
Merged-chr10-22356595-3	chr10	22356487	22356687	+	641.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-5307.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	10.0	8.0	5.5	19.0	1.0	3.5	0.0	1.0
Merged-chr19-24432711-3	chr19	24432663	24432863	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008846, intron 3 of 14)	intron (NM_008846, intron 3 of 14)	44711.0	NM_026520	68034.0	Mm.440181	NM_026520	ENSMUSG00000074922	Fam122a	2410124L17Rik|2900009I07Rik|Gm9849	family with sequence similarity 122, member A	protein-coding	1.0	1.5	0.5	36.0	39.0	7.5	11.5	16.5
Merged-chr7-73451830-4	chr7	73451732	73451932	+	853.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081345, exon 33 of 39)	exon (NM_001081345, exon 33 of 39)	-76058.0	NR_040324	319783.0	Mm.349813	NR_040324	ENSMUSG00000097756	A730056A06Rik	C76391	RIKEN cDNA A730056A06 gene	ncRNA	23.0	25.0	32.0	371.5	30.0	10.5	10.0	11.5
Merged-chr3-40746461-4	chr3	40746358	40746558	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011020, intron 1 of 18)	intron (NM_011020, intron 1 of 18)	845.0	NM_011020	18415.0	Mm.39330	NM_011020	ENSMUSG00000025757	Hspa4l	94kDa|AI461691|APG-1|Osp94	heat shock protein 4 like	protein-coding	13.5	20.5	12.5	275.0	28.5	6.0	17.5	15.5
Merged-chr8-84042630-3	chr8	84042576	84042776	+	645.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016671)	promoter-TSS (NM_016671)	-101.0	NM_016671	50931.0	Mm.38386	NM_016671	ENSMUSG00000005465	Il27ra	CRL1|IL-27R|Tccr|WSX-1|Wsx1|zcytor1	interleukin 27 receptor, alpha	protein-coding	10.5	12.0	6.0	85.5	30.5	10.0	3.5	13.5
Merged-chr17-34980764-4	chr17	34980686	34980886	+	889.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1068.0	NM_001110101	27756.0	Mm.165735	NM_030597	ENSMUSG00000007050	Lsm2	D17H6S56E-2|D17H6S56E2|Dmapl|Dmpkap|G7b|Sm-X5|SmX5|snRNP	LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	5.5	18.5	12.5	92.0	56.5	12.0	35.0	14.5
Merged-chr2-103849021-4	chr2	103848923	103849123	+	844.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38401.0	NR_040514	78031.0	Mm.243867	NR_040514	ENSMUSG00000086687	4930547E08Rik	-	RIKEN cDNA 4930547E08 gene	ncRNA	5.5	15.0	4.5	111.5	22.5	3.5	10.5	7.5
Merged-chr17-17901887-4	chr17	17901754	17901954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14030.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	59.0	62.0	60.5	544.5	106.5	35.0	34.0	24.5
Merged-chr9-96723861-4	chr9	96723764	96723964	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175537, intron 1 of 2)	intron (NM_175537, intron 1 of 2)	-4014.0	NM_001359959	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	20.0	23.5	27.5	304.0	48.0	15.0	25.5	18.0
Merged-chr4-34959663-4	chr4	34959546	34959746	+	928.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 3 of 3)	intron (NM_178061, intron 3 of 3)	-48165.0	NR_040652	73696.0	Mm.1361	NR_040652	ENSMUSG00000085824	Platr9	2410114N07Rik	pluripotency associated transcript 9	ncRNA	5.5	16.0	15.0	216.0	9.0	4.5	12.0	19.5
Merged-chr10-99926772-4	chr10	99926680	99926880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89041.0	NM_001347156	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	56.5	34.0	50.5	1008.5	94.0	23.0	53.5	56.0
Merged-chr6-86364602-4	chr6	86364500	86364700	+	922.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1083.0	NM_025591	66488.0	Mm.422972	NM_025591	ENSMUSG00000057497	Fam136a	2010309E21Rik|AW124904|Hyccin	family with sequence similarity 136, member A	protein-coding	18.5	12.0	15.5	203.5	55.0	18.5	16.0	22.0
Merged-chr1-162649421-3	chr1	162649314	162649514	+	837.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010865, exon 3 of 3)	3' UTR (NM_010865, exon 3 of 3)	8805.0	NM_001177581	100038657.0	Mm.416999	NM_001177581	ENSMUSG00000091060	Myocos	7420461P10Rik	myocilin opposite strand	protein-coding	14.5	11.5	13.0	380.0	1.5	0.5	2.5	1.0
Merged-chr11-58282726-4	chr11	58282627	58282827	+	770.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24342.0	NM_182996	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	12.0	21.5	14.5	67.5	57.0	15.5	15.0	23.5
Merged-chr13-23521929-3	chr13	23521828	23522028	+	935.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Ser-AGY|tRNA|tRNA	-9116.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	8.0	9.5	12.0	196.0	19.5	3.0	16.5	12.0
Merged-chr18-34624903-4	chr18	34624809	34625009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289606)	promoter-TSS (NM_001289606)	-27.0	NM_009004	19348.0	Mm.258846	NM_009004	ENSMUSG00000003779	Kif20a	AA415432|Rab6kifl	kinesin family member 20A	protein-coding	62.5	91.5	41.5	593.5	149.5	59.5	48.0	48.0
Merged-chr10-12957489-4	chr10	12957357	12957557	+	893.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029075, intron 1 of 2)	intron (NM_029075, intron 1 of 2)	6802.0	NM_029075	74732.0	Mm.248648	NM_029075	ENSMUSG00000039232	Stx11	5830405C08Rik	syntaxin 11	protein-coding	12.0	26.0	17.5	312.5	47.5	8.0	26.0	14.0
Merged-chr8-72429877-2	chr8	72429765	72429965	+	855.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028500, intron 5 of 8)	intron (NM_028500, intron 5 of 8)	5291.0	NM_029782	73316.0	Mm.196315	NM_028500	ENSMUSG00000019732	Calr3	1700031L01Rik|6330586I20Rik|Crt2|cspn	calreticulin 3	protein-coding	8.0	8.5	1.5	49.0	29.5	7.5	10.0	5.0
Merged-chr2-27027522-4	chr2	27027398	27027598	+	923.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177627, intron 1 of 8)	intron (NM_001177627, intron 1 of 8)	500.0	NM_172659	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	11.5	33.5	10.0	102.5	50.0	16.5	9.5	8.0
Merged-chr14-64943940-4	chr14	64943840	64944040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 1 of 9)	ID4_|SINE|ID	5917.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	29.5	38.0	52.0	630.0	46.5	23.5	46.5	29.0
Merged-chr14-30870368-3	chr14	30870264	30870464	+	926.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028839, intron 4 of 7)	intron (NM_028839, intron 4 of 7)	-8893.0	NM_181390	66175.0	Mm.220895	NM_181390	ENSMUSG00000042485	Mustn1	1110028G01Rik|Mustang	musculoskeletal, embryonic nuclear protein 1	protein-coding	17.5	10.0	26.0	489.5	9.0	2.5	9.0	4.5
Merged-chr10-37338394-4	chr10	37338336	37338536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-199510.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	212.5	380.0	268.0	2367.0	513.5	259.5	240.5	160.0
Merged-chr13-4934831-4	chr13	4934734	4934934	+	795.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-325670.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	10.0	21.5	22.0	378.5	24.0	5.0	10.5	15.0
Merged-chr4-150078816-4	chr4	150078728	150078928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8675.0	NM_177366	269604.0	Mm.219307	NM_177366	ENSMUSG00000047875	Gpr157	F730108M23Rik	G protein-coupled receptor 157	protein-coding	17.5	35.5	31.0	211.5	61.0	24.5	32.0	8.5
Merged-chr8-108694009-4	chr8	108693915	108694115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20629.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	74.5	97.5	78.5	1145.0	92.5	39.5	75.0	64.5
Merged-chr18-77786963-2	chr18	77786863	77787063	+	924.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7587.0	NM_013831	19201.0	Mm.57174	NM_013831	ENSMUSG00000025429	Pstpip2	MAYP|cmo	proline-serine-threonine phosphatase-interacting protein 2	protein-coding	2.5	14.0	1.0	30.5	23.5	14.0	11.0	6.0
Merged-chr9-7870694-4	chr9	7870589	7870789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	ORR1C2|LTR|ERVL-MaLR	2481.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	34.5	64.5	41.5	281.5	135.5	44.5	40.0	43.0
Merged-chr6-120469911-4	chr6	120469766	120469966	+	961.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	intron (NM_008359, intron 1 of 12)	6669.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	15.0	27.0	33.0	475.5	35.5	11.0	9.0	7.5
Merged-chr1-190826642-4	chr1	190826536	190826736	+	941.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178775, intron 8 of 14)	L1MDa|LINE|L1	85134.0	NM_178775	320119.0	Mm.220912	NM_178775	ENSMUSG00000089872	Rps6kc1	AA682037|B130003F20Rik|C80612|Rpk118	ribosomal protein S6 kinase polypeptide 1	protein-coding	15.5	8.5	15.0	427.0	29.5	3.5	28.5	16.5
Merged-chr11-106084307-4	chr11	106084202	106084402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011947)	promoter-TSS (NM_011947)	-600.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	403.0	659.0	442.5	5977.0	947.5	456.5	540.0	384.5
Merged-chr10-7212771-4	chr10	7212674	7212874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172546)	promoter-TSS (NM_172546)	-537.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	152.5	250.5	107.0	1501.5	250.0	106.0	86.5	64.5
Merged-chr4-156237161-3	chr4	156237080	156237280	+	897.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021303, intron 2 of 18)	CpG-10794	1170.0	NM_021303	57741.0	Mm.423051	NM_021303	ENSMUSG00000095567	Noc2l	AA410003|AF155546|NIR	NOC2 like nucleolar associated transcriptional repressor	protein-coding	3.0	10.5	7.5	138.5	10.0	6.5	5.0	6.5
Merged-chr14-60784570-4	chr14	60784482	60784682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040642)	promoter-TSS (NR_040642)	16.0	NR_040642	70478.0	Mm.274650	NM_027436	ENSMUSG00000021993	Mipep	5730405E07Rik|MIP	mitochondrial intermediate peptidase	protein-coding	51.0	72.0	28.5	811.5	75.0	43.5	32.5	50.0
Merged-chr7-118796952-4	chr7	118796858	118797058	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 18 of 30)	intron (NM_027815, intron 18 of 30)	56687.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	26.0	50.0	24.5	488.5	33.5	13.0	28.5	20.0
Merged-chr12-102295490-1	chr12	102295390	102295590	+	768.0	f1_balb.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	11849.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	7.0	5.5	5.0	45.0	10.0	2.0	1.0	3.0
Merged-chr1-34826090-4	chr1	34825998	34826198	+	930.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160235, intron 3 of 7)	intron (NM_001160235, intron 3 of 7)	16952.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	24.0	36.5	12.0	363.5	44.5	12.0	20.0	22.0
Merged-chr10-95682545-4	chr10	95682440	95682640	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118394.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	13.0	24.5	6.5	241.0	28.0	12.5	12.5	7.0
Merged-chr1-156014113-4	chr1	156014038	156014238	+	793.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160018, intron 8 of 9)	intron (NM_001160018, intron 8 of 9)	20679.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	2.5	15.0	2.0	134.0	40.5	4.5	9.5	13.5
Merged-chr4-88515821-4	chr4	88515732	88515932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6962.0	NM_010510	15977.0	Mm.1245	NM_010510	ENSMUSG00000048806	Ifnb1	IFN-beta|IFNB|Ifb	interferon beta 1, fibroblast	protein-coding	22.5	61.5	30.5	575.5	130.5	37.5	36.5	26.0
Merged-chr14-27355804-3	chr14	27355700	27355900	+	642.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	-5589.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	5.0	4.5	6.0	26.0	18.0	7.0	4.0	0.5
Merged-chr3-96696400-4	chr3	96696316	96696516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146135)	promoter-TSS (NM_146135)	41.0	NM_146135	229615.0	Mm.1635	NM_018812	ENSMUSG00000028101	Pias3	Pias3l	protein inhibitor of activated STAT 3	protein-coding	49.0	59.0	26.5	685.5	77.5	28.0	40.5	31.0
Merged-chr4-141239524-4	chr4	141239423	141239623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3361.0	NM_172520	213649.0	Mm.134460	NM_172520	ENSMUSG00000028919	Arhgef19	6030432F23|6430573B13Rik|WGEF	Rho guanine nucleotide exchange factor (GEF) 19	protein-coding	22.5	67.0	32.0	460.0	63.0	24.5	43.0	40.5
Merged-chr8-23028775-1	chr8	23028675	23028875	+	1000.0	f0_c57.idr	intron (NM_001110783, intron 1 of 43)	intron (NM_001110783, intron 1 of 43)	-6324.0	NM_001277281	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	13.5	9.5	8.0	209.0	28.5	12.0	23.0	9.0
Merged-chr3-133583840-4	chr3	133583742	133583942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39452.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	52.0	29.5	25.0	526.0	117.0	38.0	45.0	43.5
Merged-chr2-3752523-4	chr2	3752425	3752625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	39067.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	23.0	25.5	26.0	386.5	74.5	18.0	34.5	22.0
Merged-chr16-52185111-4	chr16	52185018	52185218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 14 of 17)	intron (NM_001033238, intron 14 of 17)	153569.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	19.0	22.5	18.5	502.5	116.5	20.5	32.5	25.5
Merged-chr15-86168750-4	chr15	86168651	86168851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-16977.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	90.0	83.5	101.0	1473.5	133.0	49.5	65.5	82.5
Merged-chr18-54847113-4	chr18	54847031	54847231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143049.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	75.5	88.5	45.5	1119.0	127.5	51.5	84.0	85.0
Merged-chr15-103552747-4	chr15	103552634	103552834	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12347.0	NM_001289587	14663.0	Mm.219621	NM_008134	ENSMUSG00000022491	Glycam1	MC26|Sgp50|glyCAM-1	glycosylation dependent cell adhesion molecule 1	protein-coding	14.0	32.0	13.0	342.5	31.5	9.0	13.5	21.0
Merged-chr8-25038672-4	chr8	25038666	25038866	+	754.512512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_031257)	TTS (NM_031257)	196.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	4.0	7.0	7.0	114.0	15.5	5.5	5.5	4.5
Merged-chr13-30642332-4	chr13	30642263	30642463	+	735.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	-17696.0	NM_001037955	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	4.0	8.5	1.0	55.5	20.0	5.5	7.5	5.5
Merged-chr16-89909633-3	chr16	89909521	89909721	+	892.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 2 of 27)	intron (NM_009384, intron 2 of 27)	51206.0	NM_009384	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	13.5	10.5	5.0	130.0	21.5	8.5	14.5	4.5
Merged-chr9-63611156-4	chr9	63611028	63611228	+	762.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	8482.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	12.0	19.0	7.0	228.5	21.0	10.5	1.0	8.0
Merged-chr6-135249901-4	chr6	135249740	135249940	+	835.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080553, intron 1 of 5)	intron (NM_001080553, intron 1 of 5)	-1956.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	13.0	21.0	5.5	86.5	5.5	5.5	4.5	8.5
Merged-chr5-139830856-4	chr5	139830751	139830951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-3957.0	NM_025604	66506.0	Mm.29070	NM_025604	ENSMUSG00000029551	Psmg3	1810042K04Rik|4930403H09Rik|AI303239	proteasome (prosome, macropain) assembly chaperone 3	protein-coding	27.0	30.5	28.5	418.5	83.5	29.0	29.0	32.5
Merged-chr7-97741205-4	chr7	97741091	97741291	+	880.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2944.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	15.0	19.0	20.5	280.0	33.0	13.0	6.0	11.5
Merged-chr7-126474572-2	chr7	126474472	126474672	+	908.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289540, intron 1 of 10)	intron (NM_001289540, intron 1 of 10)	558.0	NM_001289538	20399.0	Mm.8538	NM_011363	ENSMUSG00000030733	Sh2b1	AI425885|C530001K22Rik|Irip|Psm|SH2-B|SH2-Bb|Sh2bpsm1|mKIAA1299	SH2B adaptor protein 1	protein-coding	6.0	4.0	0.5	74.5	8.5	5.5	4.5	9.5
Merged-chr11-97101935-2	chr11	97101835	97102035	+	770.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_019507, intron 2 of 5)	intron (NM_019507, intron 2 of 5)	13396.0	NM_019507	57765.0	Mm.94519	NM_019507	ENSMUSG00000001444	Tbx21	TBT1|Tbet|Tblym	T-box 21	protein-coding	5.5	8.0	5.0	56.5	16.0	4.5	7.0	5.0
Merged-chr13-106936927-4	chr13	106936827	106937027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029665)	promoter-TSS (NM_029665)	31.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	95.5	168.5	126.0	1259.0	399.0	128.0	163.0	133.5
Merged-chr2-12053484-4	chr2	12053394	12053594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-247752.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	31.0	39.0	49.5	732.5	105.5	39.0	40.5	78.5
Merged-chr2-155100867-4	chr2	155100797	155100997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040634)	promoter-TSS (NR_040634)	-818.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	36.0	35.0	39.5	624.5	69.5	28.5	38.0	72.0
Merged-chr9-40548048-3	chr9	40547938	40548138	+	857.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16655.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	7.5	16.0	6.5	58.0	33.5	11.0	5.5	10.5
Merged-chr14-47365242-4	chr14	47365135	47365335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8625.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	31.5	40.5	43.5	774.0	135.5	29.0	73.0	66.5
Merged-chr7-25680719-4	chr7	25680610	25680810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362154)	promoter-TSS (NM_001362154)	-70.0	NM_001362154	232987.0	Mm.22849	NM_172148	ENSMUSG00000063439	B9d2	stumpy	B9 protein domain 2	protein-coding	145.0	303.0	132.0	1478.5	484.0	201.5	204.0	162.0
Merged-chr2-132264138-4	chr2	132264065	132264265	+	870.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	1017.0	NM_138651	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	6.0	6.5	10.5	146.0	24.0	10.5	2.5	13.0
Merged-chr10-80057792-4	chr10	80057691	80057891	+	759.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183426, exon 32 of 32)	exon (NM_183426, exon 32 of 32)	3772.0	NM_001037741	625249.0	Mm.332810	NM_008162	ENSMUSG00000075706	Gpx4	GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx	glutathione peroxidase 4	protein-coding	6.0	6.0	8.0	103.5	26.0	3.5	15.5	10.5
Merged-chr7-126794256-3	chr7	126794146	126794346	+	768.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177308)	TTS (NM_001177308)	-1699.0	NM_019674	56420.0	Mm.41998	NM_019674	ENSMUSG00000030697	Ppp4c	1110002D08Rik|AU016079|PP-X|PP4C|Ppx|pp4	protein phosphatase 4, catalytic subunit	protein-coding	7.0	6.5	1.5	48.5	22.5	9.0	7.0	8.5
Merged-chr19-42130863-4	chr19	42130796	42130996	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1903.0	NM_027106	69534.0	Mm.30060	NM_027106	ENSMUSG00000018821	Avpi1	2310008N12Rik|AA410041|VIT32|esu|mVIT32	arginine vasopressin-induced 1	protein-coding	52.0	73.0	53.0	801.5	50.5	26.0	24.5	14.0
Merged-chr2-181239042-4	chr2	181238935	181239135	+	920.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183162, intron 4 of 18)	L1_Mus3|LINE|L1	2992.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	5.0	17.5	6.5	51.5	59.5	17.5	26.5	9.0
Merged-chr6-124921758-4	chr6	124921660	124921860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152158, intron 1 of 1)	7SLRNA|srpRNA|srpRNA	-3814.0	NM_026988	69202.0	Mm.142187	NM_026988	ENSMUSG00000030122	Ptms	2610009E16Rik	parathymosin	protein-coding	67.0	89.0	54.5	818.5	153.5	55.5	64.5	54.0
Merged-chr9-119402025-4	chr9	119401917	119402117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313757)	promoter-TSS (NM_001313757)	-161.0	NM_007397	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	137.0	229.5	134.5	1996.0	432.5	183.0	189.0	158.5
Merged-chr13-41606965-4	chr13	41606842	41607042	+	981.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163572, intron 1 of 2)	intron (NM_001163572, intron 1 of 2)	726.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	16.5	23.0	19.0	474.5	45.0	14.0	43.0	35.5
Merged-chr6-143114682-4	chr6	143114567	143114767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153819, intron 7 of 8)	ORR1E|LTR|ERVL-MaLR	-14515.0	NM_001109688	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	62.5	113.0	75.5	1876.5	213.0	64.5	84.0	74.5
Merged-chr4-139287630-3	chr4	139287536	139287736	+	894.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 7 of 9)	intron (NM_001037761, intron 7 of 9)	23072.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	14.0	11.5	8.0	96.0	36.0	8.5	10.0	7.5
Merged-chr8-10668338-3	chr8	10668226	10668426	+	893.861145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	214128.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	16.0	8.0	19.0	292.5	14.0	8.0	10.0	4.5
Merged-chr11-111282480-4	chr11	111282390	111282590	+	771.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	216326.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	5.0	10.0	6.5	82.5	29.5	6.0	11.0	10.5
Merged-chr12-84218893-4	chr12	84218803	84219003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163501)	promoter-TSS (NM_001163501)	-22.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	27.5	59.0	33.5	446.5	88.5	34.5	44.0	42.0
Merged-chr19-6141592-4	chr19	6141491	6141691	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019722)	promoter-TSS (NM_019722)	-454.0	NM_019722	56327.0	Mm.21071	NM_019722	ENSMUSG00000024944	Arl2	2610009M23Rik|AI115441|AW553335	ADP-ribosylation factor-like 2	protein-coding	19.0	33.0	13.5	215.5	66.5	10.0	16.0	24.0
Merged-chr13-41437586-3	chr13	41437489	41437689	+	969.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	49771.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	6.5	18.5	13.0	159.0	10.0	17.0	12.0	8.0
Merged-chr10-127350803-3	chr10	127350684	127350884	+	873.861145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008382, exon 2 of 2)	exon (NM_008382, exon 2 of 2)	1064.0	NM_008382	16326.0	Mm.3510	NM_008382	ENSMUSG00000047492	Inhbe	-	inhibin beta-E	protein-coding	15.5	12.0	6.5	116.5	35.5	4.0	7.5	11.0
Merged-chr5-121996935-4	chr5	121996854	121997054	+	939.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 2 of 22)	L1MC4a|LINE|L1	50871.0	NM_007804	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	28.5	49.0	30.0	372.5	26.5	13.5	12.5	27.0
Merged-chr7-92565052-4	chr7	92564935	92565135	+	938.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025515, intron 1 of 8)	intron (NM_025515, intron 1 of 8)	3886.0	NM_001162918	66365.0	Mm.21173	NM_025515	ENSMUSG00000030613	Ccdc90b	2310015N07Rik|C86558	coiled-coil domain containing 90B	protein-coding	9.0	13.0	9.5	231.5	36.5	0.0	19.0	21.0
Merged-chr8-94387504-4	chr8	94387384	94387584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357205, intron 1 of 7)	intron (NM_001357205, intron 1 of 7)	1055.0	NM_022331	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	185.0	256.0	113.5	1366.0	326.5	150.0	116.0	95.5
Merged-chr15-97059830-4	chr15	97059729	97059929	+	935.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3873.0	NM_027052	69354.0	Mm.250980	NM_027052	ENSMUSG00000022464	Slc38a4	1110012E16Rik|1700012A18Rik|Ata3|mATA3|mNAT3	solute carrier family 38, member 4	protein-coding	13.0	24.0	18.0	248.5	31.5	9.5	4.0	9.5
Merged-chr11-99039979-4	chr11	99039888	99040088	+	744.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1256.0	NM_010517	16010.0	Mm.233799	NM_010517	ENSMUSG00000017493	Igfbp4	AI875747|Deb2|IBP-4|IGFBP-4	insulin-like growth factor binding protein 4	protein-coding	7.0	15.0	4.0	111.0	20.5	6.5	9.5	11.5
Merged-chr4-41774200-2	chr4	41774088	41774288	+	1000.0	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_001347065)	promoter-TSS (NM_001347065)	-12.0	NM_001048179	20301.0	Mm.335946	NM_011336	ENSMUSG00000073888	Ccl27a	ALP|AW558992|CTACK|CTAK|Ccl27|ESkine|ILC|PESKY|Scya27|Scya27a	chemokine (C-C motif) ligand 27A	protein-coding	0.0	0.0	0.0	0.0	147.0	38.0	60.0	35.5
Merged-chr7-100496487-2	chr7	100496387	100496587	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011671, intron 2 of 7)	intron (NM_011671, intron 2 of 7)	3129.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	9.5	2.5	6.0	100.0	4.5	5.0	7.0	10.5
Merged-chr17-36915218-2	chr17	36915119	36915319	+	600.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8573.0	NR_045439	73286.0	Mm.426884	NR_045439	ENSMUSG00000092239	1700031A10Rik	-	RIKEN cDNA 1700031A10 gene	ncRNA	5.0	13.5	5.5	94.0	5.0	2.5	3.5	7.0
Merged-chr2-181459297-5	chr2	181459081	181459281	+	936.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028125, intron 1 of 2)	CpG	245.0	NM_028125	72147.0	Mm.486504	NM_027656	ENSMUSG00000027583	Zbtb46	2610019F01Rik|4933406L05Rik|BZEL|Btbd4	zinc finger and BTB domain containing 46	protein-coding	9.0	17.5	12.0	192.0	33.0	18.0	9.0	19.0
Merged-chr11-44478645-4	chr11	44478570	44478770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER68|LTR|ERVL	-8122.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	22.0	38.5	26.5	319.5	92.0	40.0	29.0	21.5
Merged-chr13-37347984-4	chr13	37347882	37348082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	2637.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	44.0	32.0	33.5	501.0	80.0	28.0	34.0	33.0
Merged-chr8-105854977-4	chr8	105854877	105855077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021513)	promoter-TSS (NM_021513)	-126.0	NM_021513	59016.0	Mm.286598	NM_021513	ENSMUSG00000036442	Thap11	2810036E22Rik|AB041579|CTG-B43a|CTG-B45d|Ronin	THAP domain containing 11	protein-coding	45.0	69.0	53.5	594.0	100.5	47.0	36.0	57.5
Merged-chr19-40660488-3	chr19	40660351	40660551	+	978.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	681.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	6.5	14.5	14.5	227.5	47.5	11.0	14.5	21.0
Merged-chr1-89876817-4	chr1	89876722	89876922	+	876.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 15 of 16)	intron (NM_001037136, intron 15 of 16)	54354.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	11.0	19.0	13.0	447.5	24.0	7.0	10.5	9.5
Merged-chr9-98979914-4	chr9	98979819	98980019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6454.0	NM_011810	23873.0	Mm.74605	NM_011810	ENSMUSG00000032463	Faim	-	Fas apoptotic inhibitory molecule	protein-coding	25.0	23.0	21.5	379.5	71.5	6.5	34.5	22.5
Merged-chr7-142284812-4	chr7	142284714	142284914	+	964.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1-I_MM-int|LTR|ERVK	-10451.0	NM_001199309	100043627.0	Mm.388589	NM_001199309	ENSMUSG00000056885	Gm4559	-	predicted gene 4559	protein-coding	19.0	25.0	19.5	93.5	42.5	10.0	8.0	12.5
Merged-chr4-88450288-4	chr4	88450159	88450359	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11333.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	26.5	16.0	21.0	409.5	42.5	13.5	21.5	17.5
Merged-chr19-46599693-3	chr19	46599590	46599790	+	922.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146099, intron 1 of 3)	intron (NM_146099, intron 1 of 3)	584.0	NM_146099	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	3.0	9.0	15.0	121.5	14.5	11.0	9.0	11.0
Merged-chr1-162574301-4	chr1	162574181	162574381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016796, intron 1 of 7)	intron (NM_016796, intron 1 of 7)	3453.0	NM_016796	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	98.5	186.5	108.0	1092.0	191.5	92.5	81.5	46.0
Merged-chr5-64884410-4	chr5	64884305	64884505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48294.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	105.5	155.0	132.5	1699.0	247.0	111.0	101.0	122.5
Merged-chr13-58503792-4	chr13	58503692	58503892	+	968.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100449.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	54.0	54.5	44.5	819.0	77.5	13.0	40.5	46.0
Merged-chr4-46487521-4	chr4	46487414	46487614	+	858.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1815.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	13.5	9.0	5.5	195.5	24.5	2.5	11.0	12.5
Merged-chr12-3696308-4	chr12	3696187	3696387	+	920.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 9 of 17)	intron (NM_001162465, intron 9 of 17)	-110693.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	10.5	19.0	10.0	223.0	45.5	9.0	17.0	13.0
Merged-chr15-93273114-2	chr15	93273014	93273214	+	769.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346785, intron 1 of 7)	intron (NM_001346785, intron 1 of 7)	2065.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	5.0	1.5	3.5	78.5	16.0	4.5	5.0	8.0
Merged-chr7-47055975-4	chr7	47055891	47056091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5351.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	127.5	163.0	267.0	2968.0	332.0	81.5	145.0	139.5
Merged-chr1-163383786-1	chr1	163383686	163383886	+	862.6666869999999	f0_balb.idr	Intergenic	Intergenic	19883.0	NR_132627	98376.0	Mm.32901	NM_178883	ENSMUSG00000040124	Gorab	NTKL-BP1|SCYL1-BP1|Scyl1bp1	golgin, RAB6-interacting	protein-coding	6.0	13.0	8.5	181.5	6.0	3.5	4.0	15.5
Merged-chr8-106683115-4	chr8	106683012	106683212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173037)	promoter-TSS (NM_173037)	44.0	NM_173037	272538.0	Mm.87151	NM_173037	ENSMUSG00000041949	Tango6	AW413431|E330010G16|Tmco7	transport and golgi organization 6	protein-coding	82.0	110.5	59.5	797.5	252.5	85.0	84.5	68.5
Merged-chr15-81083494-4	chr15	81083384	81083584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	21563.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	68.5	161.5	86.5	1068.5	152.5	80.0	80.5	79.5
Merged-chr15-73089725-4	chr15	73089642	73089842	+	929.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053068)	promoter-TSS (NM_053068)	-670.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	16.5	30.0	12.0	145.0	41.0	9.0	27.5	13.5
Merged-chr15-76091712-4	chr15	76091597	76091797	+	964.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358359)	promoter-TSS (NM_001358359)	-7.0	NM_001358359	223649.0	Mm.101946	NM_144847	ENSMUSG00000075590	Nrbp2	BC011468	nuclear receptor binding protein 2	protein-coding	47.0	36.0	29.0	508.5	69.5	18.5	13.5	30.0
Merged-chr4-59035268-4	chr4	59035290	59035490	+	923.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025277, intron 1 of 2)	CpG	234.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	10.5	24.5	25.0	175.0	10.0	5.5	9.0	15.0
Merged-chr2-112239412-4	chr2	112239288	112239488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207206)	promoter-TSS (NM_207206)	-453.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	72.5	73.0	49.5	1106.0	149.5	75.0	75.5	74.0
Merged-chr9-44213693-4	chr9	44213601	44213801	+	943.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	intron (NM_007619, intron 1 of 15)	20345.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	13.5	37.5	27.5	473.0	35.0	18.0	14.5	19.0
Merged-chr1-179073157-4	chr1	179073063	179073263	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 8 of 11)	L3b|LINE|CR1	444878.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	12.5	19.0	15.5	223.5	32.5	4.0	30.0	13.5
Merged-chr4-132337932-2	chr4	132337832	132338032	+	836.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133878, intron 3 of 9)	intron (NM_133878, intron 3 of 9)	7818.0	NM_001197082	100088.0	Mm.255045	NM_133878	ENSMUSG00000028896	Rcc1	4931417M11Rik|AI326872|Chc1	regulator of chromosome condensation 1	protein-coding	4.5	1.0	1.0	25.0	5.5	8.5	7.0	9.5
Merged-chr1-171817163-4	chr1	171817065	171817265	+	969.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22532.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	20.0	37.5	41.0	429.0	58.0	14.5	32.5	18.5
Merged-chr1-152042207-4	chr1	152042254	152042454	+	836.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	intron (NM_197990, intron 1 of 5)	47966.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	8.0	6.5	10.0	98.5	6.0	2.0	8.0	8.0
Merged-chr19-5727876-6	chr19	5727833	5728033	+	967.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_181452)	TTS (NM_181452)	-1616.0	NM_053252	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	17.5	33.0	8.0	127.0	57.5	29.5	21.0	20.5
Merged-chr2-167358679-4	chr2	167358594	167358794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-9516.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	45.5	77.0	68.5	1132.5	145.0	39.5	56.0	49.5
Merged-chr11-82140106-3	chr11	82139991	82140191	+	721.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24906.0	NM_021443	20307.0	Mm.42029	NM_021443	ENSMUSG00000009185	Ccl8	1810063B20Rik|AB023418|HC14|MCP-2|Mcp2|Scya8	chemokine (C-C motif) ligand 8	protein-coding	5.5	14.5	6.0	117.0	8.5	4.5	2.0	7.0
Merged-chr5-90364742-4	chr5	90364638	90364838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198010, intron 1 of 32)	intron (NM_198010, intron 1 of 32)	1447.0	NM_030886	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	23.5	52.0	17.0	292.5	100.5	23.5	44.0	40.5
Merged-chr3-59262317-4	chr3	59262219	59262419	+	793.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177855, exon 34 of 44)	exon (NM_177855, exon 34 of 44)	666.0	NM_027571	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	11.5	8.0	8.0	103.5	29.0	4.0	9.5	4.0
Merged-chr2-78049531-4	chr2	78049456	78049656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1621.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	44.0	93.0	71.5	819.5	111.5	63.5	60.5	53.5
Merged-chr8-111992270-4	chr8	111992167	111992367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357186)	promoter-TSS (NM_001357186)	35.0	NM_001357184	30947.0	Mm.282162	NM_013925	ENSMUSG00000031949	Adat1	MMADAT1	adenosine deaminase, tRNA-specific 1	protein-coding	63.0	90.0	50.5	1001.0	173.5	64.5	100.0	52.5
Merged-chr13-104228871-4	chr13	104228782	104228982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021790)	promoter-TSS (NM_021790)	-38.0	NM_172807	238831.0	Mm.98910	NM_172807	ENSMUSG00000021713	Ppwd1	4632422M10Rik|A330090G21Rik	peptidylprolyl isomerase domain and WD repeat containing 1	protein-coding	215.5	338.5	205.5	3264.0	583.0	181.5	248.0	266.0
Merged-chr13-37797775-2	chr13	37797673	37797873	+	644.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28265.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	6.5	8.5	5.5	152.5	3.0	0.0	0.0	0.0
Merged-chr15-9435952-4	chr15	9435823	9436023	+	586.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029341)	promoter-TSS (NM_029341)	-105.0	NM_029341	75568.0	Mm.82143	NM_029341	ENSMUSG00000039676	Capsl	1700028N11Rik|AW125205	calcyphosine-like	protein-coding	9.0	5.0	1.5	102.0	35.0	9.0	10.5	5.0
Merged-chr17-10725073-4	chr17	10724973	10725173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	115118.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	112.5	105.0	101.0	1853.0	125.5	39.5	83.5	58.0
Merged-chr18-65697791-4	chr18	65697694	65697894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177028)	promoter-TSS (NM_177028)	-474.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	131.0	109.0	111.5	2256.0	272.5	60.5	121.5	133.0
Merged-chr7-16895230-4	chr7	16895141	16895341	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010320, exon 4 of 4)	exon (NM_010320, exon 4 of 4)	3455.0	NM_010320	14709.0	Mm.103770	NM_010320	ENSMUSG00000063594	Gng8	G(y)8	guanine nucleotide binding protein (G protein), gamma 8	protein-coding	19.0	34.5	15.0	351.5	66.0	20.5	17.0	28.5
Merged-chr4-156255155-4	chr4	156255051	156255251	+	947.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355709, intron 1 of 10)	intron (NM_001355709, intron 1 of 10)	191.0	NM_001355709	231004.0	Mm.406833	NM_173736	ENSMUSG00000096351	Samd11	BC026991|mr-s	sterile alpha motif domain containing 11	protein-coding	31.0	35.5	25.5	527.0	18.5	8.0	7.0	20.0
Merged-chr17-86802938-3	chr17	86802839	86803039	+	788.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010137, intron 2 of 15)	intron (NM_010137, intron 2 of 15)	49075.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	10.5	9.0	11.0	173.5	8.0	1.5	7.5	8.0
Merged-chr14-70577715-4	chr14	70577622	70577822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360475)	promoter-TSS (NM_001360475)	-102.0	NM_153136	213484.0	Mm.34191	NM_153136	ENSMUSG00000045211	Nudt18	BC036718	nudix (nucleoside diphosphate linked moiety X)-type motif 18	protein-coding	355.5	555.5	339.0	6187.0	693.0	289.0	373.0	304.0
Merged-chr14-55089377-4	chr14	55089251	55089451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039198, intron 1 of 9)	intron (NM_001039198, intron 1 of 9)	2697.0	NM_001039198	239102.0	Mm.441113	NM_001039198	ENSMUSG00000040721	Zfhx2	ZFH-5	zinc finger homeobox 2	protein-coding	112.0	142.0	74.0	1469.5	168.0	62.0	111.0	80.5
Merged-chr19-41445871-4	chr19	41445748	41445948	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60778.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	26.5	51.0	19.5	362.5	58.5	23.5	31.0	16.5
Merged-chr10-81176605-4	chr10	81176519	81176719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007907)	promoter-TSS (NM_007907)	-12.0	NM_007907	13629.0	Mm.2903	NM_007907	ENSMUSG00000034994	Eef2	Ef-2	eukaryotic translation elongation factor 2	protein-coding	48.5	71.5	47.0	497.5	203.0	80.5	49.0	69.0
Merged-chr4-133598893-4	chr4	133598783	133598983	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3285.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	22.0	29.5	23.5	223.5	24.0	6.5	12.0	11.0
Merged-chr12-4158360-3	chr12	4158249	4158449	+	847.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 2 of 21)	intron (NM_001159537, intron 2 of 21)	24196.0	NM_138305	104111.0	Mm.489807	NM_138305	ENSMUSG00000020654	Adcy3	AC3|mKIAA0511	adenylate cyclase 3	protein-coding	16.5	17.0	19.5	282.0	11.0	3.5	4.5	6.5
Merged-chr5-121660567-4	chr5	121660528	121660728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028227)	promoter-TSS (NM_028227)	65.0	NM_001289543	72399.0	Mm.153372	NM_028227	ENSMUSG00000029458	Brap	3010002G07Rik|BRAP2|IMP	BRCA1 associated protein	protein-coding	47.0	52.0	33.5	476.0	111.5	26.0	34.5	33.5
Merged-chr8-94935335-4	chr8	94935238	94935438	+	979.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033468, intron 6 of 11)	MLT1K|LTR|ERVL-MaLR	11644.0	NM_001145972	382045.0	Mm.334726	NM_001033468	ENSMUSG00000061577	Adgrg5	Gm1109|Gpr114|PGR27	adhesion G protein-coupled receptor G5	protein-coding	15.0	8.0	15.0	182.0	43.0	17.0	24.5	29.0
Merged-chr8-105606706-4	chr8	105606593	105606793	+	964.589294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081241, intron 1 of 21)	intron (NM_001081241, intron 1 of 21)	1464.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	14.0	16.5	19.0	192.5	31.0	14.0	16.0	14.0
Merged-chr2-128815705-4	chr2	128815604	128815804	+	894.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2599.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	2.5	16.5	27.5	261.5	23.0	5.5	12.5	9.5
Merged-chr14-77806550-3	chr14	77806477	77806677	+	844.650024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-7609.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	3.0	1.0	4.5	113.0	23.5	8.0	14.0	12.0
Merged-chr19-61031922-1	chr19	61031822	61032022	+	820.666687	f0_balb.idr	intron (NM_018869, intron 3 of 15)	(T)n|Simple_repeat|Simple_repeat	108918.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	9.5	9.5	11.5	146.5	5.0	1.0	0.0	0.0
Merged-chr3-34019976-4	chr3	34019871	34020071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113188)	promoter-TSS (NM_001113188)	-108.0	NM_008053	14359.0	Mm.259021	NM_008053	ENSMUSG00000027680	Fxr1	1110050J02Rik|9530073J07Rik|AI851072|Fxr1h|Fxr1p	fragile X mental retardation gene 1, autosomal homolog	protein-coding	111.5	163.0	138.5	1813.0	260.0	130.5	130.5	77.5
Merged-chr4-126430480-4	chr4	126430374	126430574	+	960.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153402)	promoter-TSS (NM_153402)	-932.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	13.0	51.5	17.0	273.5	60.5	23.0	14.5	13.5
Merged-chr9-99493466-4	chr9	99493377	99493577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 18 of 21)	L1MD|LINE|L1	23056.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	85.5	179.5	106.5	1000.0	228.0	93.0	78.5	90.5
Merged-chr15-12376334-4	chr15	12376245	12376445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081064, exon 19 of 24)	exon (NM_001081064, exon 19 of 24)	54849.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	42.0	38.0	45.0	558.5	63.0	29.5	25.5	35.5
Merged-chr6-122874062-3	chr6	122873901	122874101	+	850.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026267)	promoter-TSS (NM_026267)	-556.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	4.0	2.5	6.0	75.5	17.0	7.0	10.0	13.0
Merged-chr18-69400155-4	chr18	69400081	69400281	+	901.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	54021.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	2.5	14.5	7.5	119.0	22.5	12.0	14.5	6.0
Merged-chr4-156234400-2	chr4	156234300	156234500	+	990.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198305, intron 1 of 11)	intron (NM_198305, intron 1 of 11)	457.0	NM_198305	231003.0	Mm.423038	NM_198305	ENSMUSG00000078485	Klhl17	AL022703|BC058738	kelch-like 17	protein-coding	5.5	6.0	8.5	41.0	20.0	5.0	2.5	3.5
Merged-chr7-16614688-2	chr7	16614581	16614781	+	1000.0	f0_balb.idr|f0_c57.idr	5' UTR (NM_172739, exon 1 of 7)	5' UTR (NM_172739, exon 1 of 7)	312.0	NM_172739	232906.0	Mm.28646	NM_172739	ENSMUSG00000058230	Arhgap35	6430596G11Rik|AI841135|Grlf1|mKIAA1722|p190A|p190RhoGAP	Rho GTPase activating protein 35	protein-coding	22.0	30.5	26.0	361.0	73.0	34.5	31.0	31.5
Merged-chr6-43260943-4	chr6	43260898	43261098	+	829.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-4646.0	NM_133674	54324.0	Mm.320978	NM_133674	ENSMUSG00000033542	Arhgef5	2210412D05Rik|AA717842|AW495314|Tim1	Rho guanine nucleotide exchange factor (GEF) 5	protein-coding	12.0	14.0	6.0	123.0	20.5	5.0	5.0	3.0
Merged-chr4-43394650-4	chr4	43394542	43394742	+	906.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 1 of 11)	intron (NM_001037709, intron 1 of 11)	-11860.0	NM_199057	100213.0	Mm.235730	NM_199057	ENSMUSG00000035969	Rusc2	AI840675|mKIAA0375	RUN and SH3 domain containing 2	protein-coding	12.0	20.5	4.0	437.0	32.0	17.0	10.5	7.5
Merged-chr7-143007522-3	chr7	143007433	143007633	+	891.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020286, intron 2 of 7)	intron (NM_020286, intron 2 of 7)	1874.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	0.5	4.5	4.5	15.5	30.0	10.0	10.0	14.0
Merged-chr1-53313681-4	chr1	53313578	53313778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104361)	promoter-TSS (NR_104361)	54.0	NR_104360	72085.0	Mm.482256	NM_028091	ENSMUSG00000026096	Osgepl1	2610001M19Rik|AA416452	O-sialoglycoprotein endopeptidase-like 1	protein-coding	53.0	54.0	65.0	763.0	124.5	44.5	72.0	45.0
Merged-chr12-40431251-3	chr12	40431148	40431348	+	920.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172575, intron 1 of 12)	intron (NM_172575, intron 1 of 12)	14542.0	NM_172575	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	3.5	16.0	8.5	195.5	47.0	10.5	12.0	19.5
Merged-chr1-178350983-4	chr1	178350895	178351095	+	960.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13180.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	7.0	12.0	6.0	269.5	41.5	7.0	21.0	8.5
Merged-chr19-42005775-4	chr19	42005647	42005847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	L3|LINE|CR1	23984.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	68.5	127.5	83.5	1137.5	122.0	51.5	73.5	56.0
Merged-chr2-71505066-4	chr2	71504967	71505167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025633, intron 1 of 9)	intron (NM_025633, intron 1 of 9)	-24378.0	NM_010053	13390.0	Mm.475101	NM_010053	ENSMUSG00000041911	Dlx1	Dlx|Dlx-1	distal-less homeobox 1	protein-coding	61.5	62.5	67.0	1169.5	69.5	26.0	47.5	39.0
Merged-chr4-140714012-4	chr4	140713902	140714102	+	881.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173867, intron 7 of 12)	intron (NM_173867, intron 7 of 12)	12529.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	11.5	16.5	17.0	222.0	29.0	3.5	8.5	12.5
Merged-chr1-180901263-4	chr1	180901162	180901362	+	808.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3012.0	NM_133705	69051.0	Mm.274180	NM_133705	ENSMUSG00000026520	Pycr2	1810018M05Rik|P5cr2	pyrroline-5-carboxylate reductase family, member 2	protein-coding	7.0	10.0	5.0	107.0	26.0	14.5	5.5	10.0
Merged-chr1-48598215-1	chr1	48598115	48598315	+	576.0	f0_balb.idr	Intergenic	Intergenic	-646401.0	NR_151585	442837.0	Mm.337149	NM_001002792	ENSMUSG00000051616	C230029F24Rik	-	RIKEN cDNA C230029F24 gene	ncRNA	10.5	5.5	16.0	60.0	9.0	1.5	0.0	2.0
Merged-chr15-34580090-4	chr15	34579958	34580158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145469, intron 8 of 10)	intron (NM_145469, intron 8 of 10)	84747.0	NM_152894	67724.0	Mm.248779	NM_026340	ENSMUSG00000022325	Pop1	4932434G09Rik	processing of precursor 1, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	33.5	37.0	70.5	982.5	68.0	19.0	57.0	40.0
Merged-chr10-8519841-3	chr10	8519736	8519936	+	674.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1011.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	4.5	5.0	5.5	100.0	18.0	7.5	10.5	11.5
Merged-chr2-167241152-4	chr2	167241048	167241248	+	858.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008968)	promoter-TSS (NM_008968)	-611.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	9.5	6.0	12.5	260.0	43.0	9.5	23.0	15.0
Merged-chr10-78148142-4	chr10	78148023	78148223	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TC)n|Simple_repeat|Simple_repeat	21645.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	31.0	64.5	24.0	141.0	63.5	31.0	21.0	16.0
Merged-chr2-109220563-7	chr2	109220469	109220669	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029790, intron 2 of 5)	intron (NM_029790, intron 2 of 5)	57721.0	NM_029790	76894.0	Mm.330451	NM_029790	ENSMUSG00000057234	Mettl15	0610027B03Rik|AI303697|AW049952|Mett5d1	methyltransferase like 15	protein-coding	9.0	10.5	9.5	85.5	34.5	13.0	4.5	4.5
Merged-chr4-42880593-4	chr4	42880488	42880688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6354.0	NM_177785	277773.0	Mm.212727	NM_177785	ENSMUSG00000050141	Fam205c	4931430D02|FAM205CP	family with sequence similarity 205, member C	protein-coding	50.5	122.5	51.5	575.0	85.5	39.5	32.5	26.0
Merged-chr13-49243591-4	chr13	49243489	49243689	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028340, intron 1 of 4)	intron (NM_028340, intron 1 of 4)	4705.0	NM_001360772	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	17.5	42.5	29.0	265.5	65.0	12.5	22.0	8.5
Merged-chr13-97544456-4	chr13	97544353	97544553	+	873.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15547.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	12.5	22.0	14.5	307.0	22.5	11.5	9.5	18.5
Merged-chr5-124085005-4	chr5	124084910	124085110	+	824.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019875, intron 2 of 11)	intron (NM_019875, intron 2 of 11)	10788.0	NM_019875	56325.0	Mm.254839	NM_019875	ENSMUSG00000029408	Abcb9	TAPL|mKIAA1520	ATP-binding cassette, sub-family B (MDR/TAP), member 9	protein-coding	10.5	16.5	5.0	108.0	22.0	16.0	17.5	10.0
Merged-chr5-117486281-4	chr5	117486155	117486355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	intron (NM_001312914, intron 1 of 19)	72253.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	59.5	105.5	55.5	775.0	132.5	38.0	53.0	72.5
Merged-chr4-89212419-3	chr4	89212323	89212523	+	846.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	69769.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	12.5	11.5	14.5	209.0	21.5	8.0	12.5	4.0
Merged-chr13-74809232-3	chr13	74809125	74809325	+	607.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301153)	promoter-TSS (NM_001301153)	-465.0	NM_001301153	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	5.5	4.5	6.0	147.0	22.0	2.0	4.0	7.5
Merged-chr3-27258635-4	chr3	27258545	27258745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS-int|LTR|ERV1	-58432.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	54.5	82.0	60.0	776.0	120.0	36.0	46.5	52.5
Merged-chr7-127921724-4	chr7	127921613	127921813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360699, intron 5 of 10)	intron (NM_001360699, intron 5 of 10)	8400.0	NM_133351	76560.0	Mm.5875	NM_133351	ENSMUSG00000030800	Prss8	2410039E18Rik|AI313909|C79772|CAP1|fr|mCAP1	protease, serine 8 (prostasin)	protein-coding	22.5	43.5	23.5	310.0	49.5	23.0	24.5	21.5
Merged-chr10-83353980-4	chr10	83353835	83354035	+	863.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6286.0	NM_026579	28109.0	Mm.196210	NM_026579	ENSMUSG00000020255	D10Wsu102e	AI747614|C430041I18Rik	DNA segment, Chr 10, Wayne State University 102, expressed	protein-coding	14.0	33.5	14.5	44.5	44.0	12.0	7.0	11.0
Merged-chr9-50948261-4	chr9	50948164	50948364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 3 of 15)	intron (NM_178710, intron 3 of 15)	60809.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	26.5	33.5	44.0	763.5	97.0	21.0	34.5	35.0
Merged-chr7-118491964-4	chr7	118491884	118492084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033380)	promoter-TSS (NM_001033380)	-9.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	90.0	143.5	69.0	1618.0	193.5	83.0	86.5	87.5
Merged-chr12-26315085-1	chr12	26314985	26315185	+	670.0	f0_balb.idr	intron (NM_080563, intron 7 of 8)	intron (NM_080563, intron 7 of 8)	-31625.0	NR_130981	75243.0	Mm.444753	NR_130981	ENSMUSG00000114048	4930549C15Rik	-	RIKEN cDNA 4930549C15 gene	ncRNA	13.0	7.0	16.5	40.5	6.5	1.5	3.5	6.0
Merged-chr7-45459875-4	chr7	45459771	45459971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010240)	promoter-TSS (NM_010240)	15.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	308.0	457.5	272.5	3116.5	821.5	310.5	415.0	310.0
Merged-chr10-94378483-4	chr10	94378373	94378573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	66524.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	114.5	189.5	155.5	1944.0	258.5	77.5	123.5	126.0
Merged-chr16-29772794-4	chr16	29772745	29772945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	193511.0	NM_001199177	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	37.5	54.0	53.0	1200.0	87.0	30.5	57.5	49.0
Merged-chr1-171234722-4	chr1	171234620	171234820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010185)	promoter-TSS (NM_010185)	-371.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	33.0	40.5	36.5	517.5	69.5	27.0	30.5	39.5
Merged-chr9-90253732-4	chr9	90253633	90253833	+	959.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	17036.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	25.0	20.5	21.5	580.5	66.5	8.0	13.5	20.5
Merged-chr11-98150512-4	chr11	98150400	98150600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028149)	promoter-TSS (NM_028149)	-884.0	NM_028149	72194.0	Mm.218350	NM_028149	ENSMUSG00000020883	Fbxl20	2610511F20Rik|4632423N09Rik|AI849362|AL117906|C86145|Fbl2|Scr|mKIAA4147	F-box and leucine-rich repeat protein 20	protein-coding	48.5	74.0	30.0	454.0	118.0	43.5	38.0	41.5
Merged-chr9-40781394-4	chr9	40781305	40781505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 6 of 6)	intron (NM_133733, intron 6 of 6)	-19868.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	91.5	91.5	32.0	713.5	149.5	53.5	48.5	51.5
Merged-chr7-120102893-1	chr7	120102793	120102993	+	647.0	f0_c57.idr	intron (NM_145586, intron 1 of 4)	intron (NM_145586, intron 1 of 4)	467.0	NM_145586	233806.0	Mm.257952	NM_145586	ENSMUSG00000030917	Tmem159	8430420C20Rik	transmembrane protein 159	protein-coding	12.0	8.5	0.5	87.5	18.0	13.0	12.5	10.5
Merged-chr2-152729752-5	chr2	152729645	152729845	+	841.099976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6506.0	NM_010495	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	1.0	5.0	2.5	6.0	23.0	5.5	6.0	10.5
Merged-chr12-12229759-2	chr12	12229679	12229879	+	875.166626	f0_balb.idr|f1_balb.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-32360.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	21.5	13.5	8.5	306.5	7.0	1.0	2.5	2.5
Merged-chr6-4798549-4	chr6	4798424	4798624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51218.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	73.0	107.5	89.5	788.0	206.5	58.5	62.5	79.5
Merged-chr10-70095205-4	chr10	70095128	70095328	+	841.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1893.0	NM_001111121	76551.0	Mm.281741	NM_001111121	ENSMUSG00000048701	Ccdc6	2810012H18Rik|AA536681|AA960498|AW061011	coiled-coil domain containing 6	protein-coding	8.0	12.5	19.5	204.0	20.5	8.5	11.5	12.0
Merged-chr13-20798110-4	chr13	20798015	20798215	+	975.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012054, intron 1 of 20)	intron (NM_012054, intron 1 of 20)	4002.0	NM_012054	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	12.5	18.0	17.5	188.5	68.0	19.0	26.5	23.0
Merged-chr16-44139160-4	chr16	44139064	44139264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028108)	promoter-TSS (NM_028108)	95.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	111.5	184.0	132.5	1345.5	245.0	117.0	101.0	106.0
Merged-chr3-103214397-3	chr3	103214296	103214496	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42741.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	7.0	4.5	10.0	53.5	74.0	26.0	43.0	32.5
Merged-chr8-22192870-4	chr8	22192754	22192954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027338)	promoter-TSS (NM_027338)	-6.0	NM_027338	70160.0	Mm.41453	NM_027338	ENSMUSG00000031479	Vps36	1700010A24Rik|2210415M20Rik|2810408E15Rik|Eap45	vacuolar protein sorting 36	protein-coding	133.0	165.0	144.0	1785.5	208.0	96.5	120.5	101.0
Merged-chr6-51881365-4	chr6	51881252	51881452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018773, intron 9 of 12)	intron (NM_018773, intron 9 of 12)	131197.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	54.5	53.0	37.0	931.0	84.0	20.5	28.0	31.0
Merged-chr16-56647020-4	chr16	56646919	56647119	+	851.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014399, intron 12 of 27)	intron (NM_001014399, intron 12 of 27)	70431.0	NM_001357124	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	18.0	26.5	10.5	358.5	39.5	5.0	11.0	9.5
Merged-chr17-5797543-4	chr17	5797438	5797638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1119.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	26.0	26.5	18.0	590.0	75.0	16.0	20.0	36.0
Merged-chr5-140197924-2	chr5	140197824	140198024	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152617, intron 10 of 16)	intron (NR_152617, intron 10 of 16)	-23006.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	6.0	5.5	6.5	124.5	8.5	7.0	9.5	10.0
Merged-chr9-119076731-5	chr9	119076747	119076947	+	965.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019676, intron 3 of 14)	intron (NM_019676, intron 3 of 14)	11414.0	NM_001293648	18799.0	Mm.23963	NM_019676	ENSMUSG00000010660	Plcd1	AW212592|C79986	phospholipase C, delta 1	protein-coding	25.5	32.0	22.5	193.0	43.0	5.5	13.5	18.5
Merged-chr17-83276435-7	chr17	83276281	83276481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	61098.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	40.0	79.0	91.0	773.0	136.5	73.5	63.0	64.0
Merged-chr16-45158322-4	chr16	45158212	45158412	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026402)	promoter-TSS (NM_026402)	361.0	NM_001356453	74102.0	Mm.264984	NM_028756	ENSMUSG00000022664	Slc35a5	1010001J06Rik|AU021179|BB097433|D16Ertd450e|D730043G07Rik	solute carrier family 35, member A5	protein-coding	25.5	23.5	24.5	269.5	49.5	20.5	26.0	17.5
Merged-chr2-5579597-4	chr2	5579507	5579707	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	96439.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	22.0	60.5	21.0	314.0	45.5	20.0	21.5	13.5
Merged-chr11-90029570-3	chr11	90029452	90029652	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026433)	promoter-TSS (NM_026433)	-796.0	NM_026433	67888.0	Mm.212428	NM_026433	ENSMUSG00000069763	Tmem100	1810057C19Rik|AV011897	transmembrane protein 100	protein-coding	3.0	2.0	7.0	50.5	61.5	26.5	25.5	24.0
Merged-chr2-163575499-4	chr2	163575346	163575546	+	953.2976070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26868.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	17.0	33.0	27.0	346.5	36.5	13.0	6.5	15.0
Merged-chr16-10982741-4	chr16	10982633	10982833	+	904.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	L2b|LINE|L2	10388.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	16.0	32.0	11.5	206.5	35.5	10.5	11.0	16.5
Merged-chr2-32428693-4	chr2	32428590	32428790	+	848.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146118, intron 1 of 10)	intron (NM_146118, intron 1 of 10)	2461.0	NM_001164358	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	11.5	22.0	10.0	151.0	25.5	7.5	10.5	14.0
Merged-chr6-65140598-2	chr6	65140498	65140698	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 1 of 5)	Lx8|LINE|L1	4132.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	17.5	6.5	7.0	37.5	12.5	6.0	1.5	5.5
Merged-chr7-99891871-3	chr7	99891785	99891985	+	896.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164258, intron 8 of 18)	intron (NM_001164258, intron 8 of 18)	32667.0	NM_001164258	446101.0	Mm.440757	NM_001164258	ENSMUSG00000035211	Xrra1	AI449753	X-ray radiation resistance associated 1	protein-coding	8.0	7.5	8.0	99.5	7.5	2.0	5.0	6.5
Merged-chr9-104252677-3	chr9	104252566	104252766	+	745.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 1 of 56)	Tigger7|DNA|TcMar-Tigger	10264.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	5.5	8.5	5.0	60.5	16.5	1.5	0.5	6.5
Merged-chr6-113076684-7	chr6	113076551	113076751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028385)	promoter-TSS (NM_028385)	593.0	NR_027010	14910.0	Mm.280950	NR_027008	ENSMUSG00000086429	Gt(ROSA)26Sor	AV258896|Gtrgeo26|Gtrosa26|R26|ROSA26|Thumpd3as1	gene trap ROSA 26, Philippe Soriano	ncRNA	151.0	286.5	263.0	2335.0	481.5	245.0	247.0	182.0
Merged-chr15-33083659-3	chr15	33083567	33083767	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 1 of 7)	intron (NM_176073, intron 1 of 7)	538.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	24.5	19.0	22.5	328.0	59.0	17.0	24.5	17.0
Merged-chr18-46153820-4	chr18	46153715	46153915	+	904.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	45003.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	27.0	18.0	6.0	149.5	40.0	9.5	12.5	14.5
Merged-chr1-136624856-4	chr1	136624743	136624943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177643)	promoter-TSS (NM_177643)	-58.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	104.5	128.0	105.5	1692.0	178.0	85.5	119.0	81.0
Merged-chr6-87518804-4	chr6	87518727	87518927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	14432.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	53.0	96.0	58.0	1079.0	111.0	38.0	35.5	26.5
Merged-chr7-99134081-4	chr7	99133984	99134184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	7060.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	64.5	77.0	76.0	1046.0	116.0	32.5	47.5	56.5
Merged-chr11-82952098-4	chr11	82952046	82952246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183201)	promoter-TSS (NM_183201)	44.0	NM_183201	327978.0	Mm.42147	NM_183201	ENSMUSG00000054404	Slfn5	AI956840	schlafen 5	protein-coding	38.0	94.5	34.5	541.5	114.5	33.5	41.5	24.0
Merged-chr11-78328391-4	chr11	78328287	78328487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201406)	promoter-TSS (NM_201406)	-35.0	NM_201406	276846.0	Mm.295908	NM_201406	ENSMUSG00000041958	Pigs	BC058979|Gm393|Gm689	phosphatidylinositol glycan anchor biosynthesis, class S	protein-coding	104.5	143.0	57.5	974.5	212.5	85.0	88.0	115.0
Merged-chr11-50377110-3	chr11	50377012	50377212	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021510)	promoter-TSS (NM_021510)	-607.0	NM_021510	59013.0	Mm.21740	NM_021510	ENSMUSG00000007850	Hnrnph1	AI642080|E430005G16Rik|Hnrnph|Hnrph1	heterogeneous nuclear ribonucleoprotein H1	protein-coding	29.0	48.5	44.0	258.0	56.0	21.5	13.5	33.0
Merged-chr4-149665203-4	chr4	149665097	149665297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 2 of 23)	intron (NM_001029837, intron 2 of 23)	-1881.0	NM_001164052	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	30.5	39.0	17.5	578.0	81.0	23.0	21.5	20.5
Merged-chr10-70287918-4	chr10	70287815	70288015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42639.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	29.5	23.0	31.0	475.0	61.0	19.5	37.0	40.0
Merged-chr4-135829198-4	chr4	135829039	135829239	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-26932.0	NM_001284196	14105.0	Mm.10229	NM_010178	ENSMUSG00000028676	Srsf10	FUSIP2|Fusip1|NSSR1|NSSR2|Nssr|SRrp40|Sfrs13a|Srsf13a|TASR|TASR1|TASR2	serine/arginine-rich splicing factor 10	protein-coding	28.5	22.5	22.5	327.0	32.0	25.5	9.5	9.5
Merged-chr13-45101956-4	chr13	45101826	45102026	+	959.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99830.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	28.0	63.0	13.0	276.0	87.0	22.5	25.5	12.5
Merged-chr2-158155790-4	chr2	158155692	158155892	+	974.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9400.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	18.5	29.5	23.5	243.0	46.5	31.5	17.5	28.5
Merged-chr16-57353866-4	chr16	57353765	57353965	+	952.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	588.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	18.5	22.5	11.5	270.5	41.5	17.5	17.5	7.5
Merged-chr11-3164186-2	chr11	3164087	3164287	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 9 of 32)	B2_Mm2|SINE|B2	29276.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	31.0	32.0	35.0	300.0	4.0	0.5	2.5	2.0
Merged-chr15-41760229-1	chr15	41760129	41760329	+	1000.0	f0_balb.idr	intron (NR_152565, intron 3 of 17)	Lx4A|LINE|L1	-28766.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	14.0	4.0	4.0	130.0	8.5	6.5	7.0	5.5
Merged-chr17-56951069-3	chr17	56950947	56951147	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15659.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	8.5	21.0	1.0	97.0	15.5	7.5	5.5	4.5
Merged-chr2-127519064-2	chr2	127518957	127519157	+	900.25	f0_c57.idr|f1_c57bl6.idr	intron (NR_110989, intron 1 of 8)	intron (NR_110989, intron 1 of 8)	2335.0	NM_001291005	56461.0	Mm.315292	NM_019789	ENSMUSG00000079056	Kcnip3	4933407H12Rik|AI413860|Csen|DREAM|KChIP3|R74849	Kv channel interacting protein 3, calsenilin	protein-coding	2.5	8.0	5.0	61.0	38.5	8.0	13.0	25.5
Merged-chr5-135982491-2	chr5	135982390	135982590	+	984.4166869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_011776, intron 1 of 7)	intron (NM_011776, intron 1 of 7)	2385.0	NM_011776	22788.0	Mm.1381	NM_011776	ENSMUSG00000004948	Zp3	Zp-3	zona pellucida glycoprotein 3	protein-coding	6.0	6.0	5.0	35.0	17.5	16.0	8.0	7.0
Merged-chr14-69249392-3	chr14	69249269	69249469	+	671.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026331, intron 2 of 3)	intron (NM_026331, intron 2 of 3)	35734.0	NM_026331	67712.0	Mm.293635	NM_026331	ENSMUSG00000034248	Slc25a37	1700020E22Rik|4930513O14Rik|4930526G11Rik|AI848481|C330015G08Rik|Mfrn|Mfrn1|Mscp|frascati|mitoferrin	solute carrier family 25, member 37	protein-coding	7.0	5.5	10.0	156.5	8.0	3.0	4.0	6.0
Merged-chr13-41606412-4	chr13	41606331	41606531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163572, intron 1 of 2)	CpG	215.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	29.5	29.5	23.5	381.0	91.5	28.0	29.5	31.5
Merged-chr4-6227272-4	chr4	6227162	6227362	+	985.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus4|LINE|L1	36157.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	16.5	18.5	28.0	323.0	80.0	25.0	35.5	36.0
Merged-chr5-148700414-4	chr5	148700328	148700528	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41412.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	2.0	10.5	6.5	103.5	79.0	24.0	42.0	46.0
Merged-chr18-11717954-3	chr18	11717845	11718045	+	895.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081223, intron 8 of 18)	L2|LINE|L2	60596.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	9.0	10.5	8.5	135.5	6.5	3.5	11.5	4.0
Merged-chr1-44034504-3	chr1	44034402	44034602	+	777.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-14496.0	NM_001013799	433294.0	Mm.123621	NM_001013799	ENSMUSG00000047343	Mettl21c	A530098C11Rik	methyltransferase like 21C	protein-coding	5.5	15.0	7.5	202.5	11.0	8.0	16.0	12.0
Merged-chr13-3807073-4	chr13	3806920	3807120	+	749.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-2702.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	4.5	9.5	8.0	47.5	18.0	8.5	9.0	7.0
Merged-chr14-30200513-4	chr14	30200417	30200617	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 3 of 46)	intron (NM_001083616, intron 3 of 46)	152969.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	20.5	27.0	7.5	207.0	37.0	15.0	17.5	18.0
Merged-chr4-119000195-4	chr4	119000069	119000269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38202.0	NM_133892	100470.0	Mm.26698	NM_133892	ENSMUSG00000024903	Lao1	AW990848	L-amino acid oxidase 1	protein-coding	66.5	117.0	42.0	490.5	253.5	123.0	78.5	54.0
Merged-chr2-14631769-4	chr2	14631633	14631833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023116, intron 2 of 13)	intron (NM_023116, intron 2 of 13)	27427.0	NM_023116	12296.0	Mm.313930	NM_023116	ENSMUSG00000057914	Cacnb2	AW060387|CAB2|Cavbeta2|Cchb2	calcium channel, voltage-dependent, beta 2 subunit	protein-coding	62.0	130.0	67.5	1165.5	191.0	75.0	91.0	81.0
Merged-chr18-20801764-4	chr18	20801669	20801869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55365.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	41.0	44.5	64.0	766.0	68.5	28.0	35.0	46.0
Merged-chr6-134983703-4	chr6	134983601	134983801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001109914, exon 2 of 2)	exon (NM_001109914, exon 2 of 2)	1700.0	NM_001109914	381823.0	Mm.296104	NM_001109914	ENSMUSG00000090698	Apold1	Gm1075	apolipoprotein L domain containing 1	protein-coding	64.5	110.5	47.0	987.0	129.0	43.5	64.5	63.0
Merged-chr18-49777658-4	chr18	49777546	49777746	+	846.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22045.0	NM_026854	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	10.0	7.0	7.5	206.0	29.0	13.5	19.5	10.0
Merged-chr18-24467114-4	chr18	24467059	24467259	+	826.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3712.0	NM_026529	68046.0	Mm.276574	NM_026529	ENSMUSG00000024273	2700062C07Rik	AI195775|C87515	RIKEN cDNA 2700062C07 gene	protein-coding	10.0	5.0	0.5	160.5	13.5	7.0	4.5	11.0
Merged-chr12-55230703-4	chr12	55230602	55230802	+	765.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100109, intron 1 of 15).2	CpG	224.0	NM_001100110	100101806.0	Mm.471968	NM_001100110	ENSMUSG00000079108	Srp54c	E330029E12Rik	signal recognition particle 54C	protein-coding	13.5	22.5	17.0	41.5	47.0	12.0	7.0	8.0
Merged-chr2-79036497-4	chr2	79036409	79036609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	166831.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	74.0	69.0	55.5	1251.0	138.0	57.0	69.5	57.0
Merged-chr11-68707221-4	chr11	68707093	68707293	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175260, intron 2 of 40)	Charlie1a|DNA|hAT-Charlie	15278.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	12.5	21.0	13.5	178.5	28.0	9.0	12.5	6.0
Merged-chr1-184067130-4	chr1	184067026	184067226	+	880.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022019, intron 2 of 3)	intron (NM_022019, intron 2 of 3)	32745.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	5.0	6.0	12.0	262.0	26.5	8.0	6.5	11.5
Merged-chr19-5747211-3	chr19	5747111	5747311	+	910.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008520, intron 7 of 27)	intron (NM_008520, intron 7 of 27)	6307.0	NM_008520	16998.0	Mm.182396	NM_008520	ENSMUSG00000024940	Ltbp3	Ltbp2|mFLJ00070	latent transforming growth factor beta binding protein 3	protein-coding	6.5	10.5	11.0	106.5	20.0	13.5	4.0	10.5
Merged-chr10-40095553-4	chr10	40095464	40095664	+	897.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	46690.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	17.0	13.0	12.0	236.5	34.5	18.0	9.0	12.0
Merged-chr8-25543525-4	chr8	25543445	25543645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079909, intron 2 of 16)	intron (NM_001079909, intron 2 of 16)	12538.0	NR_110510	102633315.0	Mm.437828	NR_110510	ENSMUSG00000086134	Gm16159	-	predicted gene 16159	ncRNA	34.0	32.0	21.0	466.5	87.0	18.0	46.0	28.0
Merged-chr5-124629011-4	chr5	124628926	124629126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011596)	promoter-TSS (NM_011596)	-26.0	NM_011596	21871.0	Mm.1158	NM_011596	ENSMUSG00000038023	Atp6v0a2	8430408C20Rik|AI385560|ATP6a2|AW489264|Atp6n1d|Atp6n2|C76904|ISF|J6B7|SHIF|Stv1|TJ6M|TJ6s|Tj6|V-ATPase 116 kDa|V-ATPase a2	ATPase, H+ transporting, lysosomal V0 subunit A2	protein-coding	113.0	157.0	78.0	1309.0	262.5	94.5	114.0	105.0
Merged-chr9-22119650-4	chr9	22119555	22119755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2460.0	NM_001357312	66126.0	Mm.29801	NM_170777	ENSMUSG00000013822	Elof1	1110011K10Rik	ELF1 homolog, elongation factor 1	protein-coding	107.0	159.0	125.5	1674.5	203.0	78.0	88.5	77.5
Merged-chr19-43898692-4	chr19	43898604	43898804	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 4 of 15)	intron (NM_028029, intron 4 of 15)	-18936.0	NM_001306088	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	37.0	32.5	28.0	331.5	30.0	10.0	18.0	16.0
Merged-chr12-36208667-3	chr12	36208578	36208778	+	819.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027699, exon 5 of 5)	exon (NM_027699, exon 5 of 5)	9540.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	11.5	20.0	10.5	232.5	6.0	0.5	1.5	0.5
Merged-chr8-85502637-4	chr8	85502532	85502732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 2 of 11)	intron (NM_173866, intron 2 of 11)	10015.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	37.5	89.0	25.5	744.5	110.5	66.5	54.5	48.5
Merged-chr2-70964956-4	chr2	70964858	70965058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001110512, exon 9 of 9)	3' UTR (NM_001110512, exon 9 of 9)	53416.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	102.5	131.0	108.0	1705.0	295.5	89.0	146.5	149.5
Merged-chr16-91846617-4	chr16	91846498	91846698	+	935.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 19 of 28)	intron (NM_001110275, intron 19 of 28)	85032.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	14.0	16.0	8.5	292.0	24.0	13.0	15.5	18.5
Merged-chr15-36727896-7	chr15	36727753	36727953	+	931.261902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	63079.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	11.5	21.0	10.5	188.0	17.0	10.5	17.5	20.5
Merged-chr10-14328360-4	chr10	14328257	14328457	+	841.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	216679.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	14.5	18.5	51.0	258.0	26.5	10.0	22.0	17.0
Merged-chr10-68279611-3	chr10	68279524	68279724	+	852.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023598)	promoter-TSS (NM_023598)	-898.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	5.0	12.0	4.5	81.0	23.0	9.0	5.5	4.0
Merged-chr6-124740470-4	chr6	124740377	124740577	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013535, intron 2 of 2)	intron (NM_013535, intron 2 of 2)	602.0	NM_013535	14790.0	Mm.439877	NM_013535	ENSMUSG00000072772	Grcc10	2310033H05Rik|C10	gene rich cluster, C10 gene	protein-coding	32.5	29.0	16.5	227.0	60.5	12.5	21.0	18.0
Merged-chr16-35947133-4	chr16	35947026	35947226	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030253, intron 3 of 10)	intron (NM_030253, intron 3 of 10)	-8099.0	NM_001013371	209200.0	Mm.390852	NM_001013371	ENSMUSG00000049502	Dtx3l	AU042200|BC023741	deltex 3-like, E3 ubiquitin ligase	protein-coding	11.0	14.5	1.0	115.0	50.0	15.5	17.0	25.0
Merged-chr16-89773986-4	chr16	89773888	89774088	+	845.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44364.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	8.0	22.0	6.0	190.0	36.0	10.5	18.0	14.5
Merged-chr9-50528043-1	chr9	50527943	50528143	+	707.333313	f0_balb.idr	intron (NM_011220, intron 1 of 5)	intron (NM_011220, intron 1 of 5)	598.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	8.5	21.0	13.5	107.0	14.5	5.0	13.0	13.0
Merged-chr19-5512380-4	chr19	5512265	5512465	+	982.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1848.0	NM_001024560	225861.0	Mm.20071	NM_001024560	ENSMUSG00000056185	Snx32	B930037P14Rik|Snx6b	sorting nexin 32	protein-coding	8.0	29.5	13.5	170.0	41.5	5.0	6.0	13.0
Merged-chr8-71707955-3	chr8	71707863	71708063	+	879.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028715)	TTS (NM_028715)	-6163.0	NM_028189	72297.0	Mm.290837	NM_028189	ENSMUSG00000031803	B3gnt3	2210008L19Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 3	protein-coding	6.5	15.5	5.0	69.0	36.5	7.0	9.5	7.0
Merged-chr5-92318353-4	chr5	92318261	92318461	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-8337.0	NM_172713	231452.0	Mm.86564	NM_172713	ENSMUSG00000029415	Sdad1	4931421J16|AA591032|AW538460	SDA1 domain containing 1	protein-coding	20.0	42.5	24.5	212.0	78.0	17.5	30.0	19.5
Merged-chr8-35570992-3	chr8	35570915	35571115	+	862.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BC1_Mm|scRNA|scRNA	-16783.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	16.0	16.5	12.5	117.5	6.0	1.5	13.5	5.0
Merged-chr6-136938866-4	chr6	136938771	136938971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301301, intron 1 of 5)	intron (NM_001301301, intron 1 of 5)	656.0	NM_001301303	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	34.0	44.0	26.5	230.5	138.5	67.5	47.5	43.0
Merged-chr18-69593358-4	chr18	69593247	69593447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	247187.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	60.5	59.5	67.5	960.5	156.0	54.0	97.0	52.0
Merged-chr10-8874818-4	chr10	8874705	8874905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	11265.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	44.0	80.5	38.0	742.5	112.5	30.5	47.5	60.0
Merged-chr5-53188810-4	chr5	53188713	53188913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172710, intron 2 of 23)	intron (NM_172710, intron 2 of 23)	24639.0	NM_172710	231238.0	Mm.235020	NM_172710	ENSMUSG00000029189	Sel1l3	2310045A20Rik|AI429585|mKIAA0746	sel-1 suppressor of lin-12-like 3 (C. elegans)	protein-coding	66.0	71.5	66.5	1244.0	166.0	53.0	63.0	55.5
Merged-chr11-22286538-3	chr11	22286412	22286612	+	962.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252515, intron 1 of 24)	intron (NM_001252515, intron 1 of 24)	283.0	NM_153078	216565.0	Mm.491265	NM_153078	ENSMUSG00000042302	Ehbp1	AF424697|Flj21950|NACSIN	EH domain binding protein 1	protein-coding	12.5	17.0	12.5	123.5	17.0	8.5	9.5	10.5
Merged-chr4-95967267-2	chr4	95967167	95967367	+	943.400024	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030014)	promoter-TSS (NM_030014)	-112.0	NM_030014	77963.0	Mm.49994	NM_030014	ENSMUSG00000028572	Hook1	A930033L17Rik|azh	hook microtubule tethering protein 1	protein-coding	2.0	6.0	4.5	136.0	13.5	4.5	8.5	12.5
Merged-chr5-105496387-4	chr5	105496290	105496490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23081.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	78.0	86.5	75.0	1197.0	91.0	41.0	51.5	29.0
Merged-chr6-28621177-4	chr6	28621083	28621283	+	744.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 10 of 23)	intron (NM_019776, intron 10 of 23)	140835.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	13.5	9.0	7.0	122.5	23.5	5.5	5.5	12.0
Merged-chr17-17862430-1	chr17	17862330	17862530	+	630.666687	f0_balb.idr	Intergenic	Intergenic	-7242.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	11.0	32.5	12.0	73.0	3.5	2.5	7.5	3.5
Merged-chr10-17567994-3	chr10	17567865	17568065	+	699.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-155263.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	6.5	5.0	14.5	104.0	12.0	2.0	7.5	2.5
Merged-chr8-70730281-4	chr8	70730176	70730376	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201607, intron 3 of 16)	CpG	6212.0	NM_201607	110385.0	Mm.255180	NM_201607	ENSMUSG00000031842	Pde4c	Dpde1|E130301F19Rik|dunce	phosphodiesterase 4C, cAMP specific	protein-coding	24.0	44.0	21.0	287.0	39.0	18.5	16.0	23.0
Merged-chr1-84933673-4	chr1	84933580	84933780	+	831.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027921, intron 1 of 4)	intron (NM_027921, intron 1 of 4)	1403.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	7.5	19.0	3.5	104.5	19.5	13.0	5.0	18.5
Merged-chr2-132180872-1	chr2	132180772	132180972	+	959.0	f0_balb.idr	Intergenic	Intergenic	-35552.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	14.5	14.0	5.0	137.0	16.0	8.5	8.0	6.0
Merged-chr6-91472393-4	chr6	91472307	91472507	+	892.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133928, intron 1 of 2)	MIR3|SINE|MIR	1016.0	NM_133928	72170.0	Mm.41622	NM_133928	ENSMUSG00000034203	Chchd4	2410012P20Rik|2810014D17Rik|AI838740	coiled-coil-helix-coiled-coil-helix domain containing 4	protein-coding	13.0	11.0	8.0	207.5	37.0	7.0	14.5	11.5
Merged-chr17-7873885-4	chr17	7873770	7873970	+	877.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52130.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	14.0	18.0	11.0	164.5	17.5	9.0	9.0	16.0
Merged-chr9-35038509-4	chr9	35038415	35038615	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78213.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	11.5	28.5	20.0	210.5	63.5	21.0	19.5	20.0
Merged-chr1-154076186-3	chr1	154076085	154076285	+	818.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-125002.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	11.5	12.0	13.5	121.5	35.5	6.5	5.5	4.0
Merged-chr2-58167859-4	chr2	58167764	58167964	+	878.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045895, intron 2 of 3)	intron (NR_045895, intron 2 of 3)	3890.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	18.0	10.5	20.0	247.0	40.5	14.0	11.5	7.0
Merged-chr5-86071769-4	chr5	86071665	86071865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019992)	promoter-TSS (NM_019992)	19.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	35.0	31.0	30.5	299.5	78.5	25.5	50.0	25.0
Merged-chr4-134760998-5	chr4	134760915	134761115	+	901.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	6989.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	21.5	17.5	23.0	283.0	22.0	7.5	13.5	20.5
Merged-chr16-21719893-4	chr16	21719815	21720015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25250.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	27.0	35.0	17.5	379.5	60.5	27.5	35.0	26.0
Merged-chr2-84670752-4	chr2	84670654	84670854	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037279)	promoter-TSS (NM_001037279)	-46.0	NM_001037279	72657.0	Mm.259293	NM_001033166	ENSMUSG00000076437	Selenoh	2700094K13Rik|Selh	selenoprotein H	protein-coding	31.5	26.0	22.0	409.5	70.5	15.0	34.0	22.5
Merged-chr6-136471036-3	chr6	136470876	136471076	+	736.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-47875.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	4.5	16.0	7.0	39.0	15.0	4.5	2.0	5.5
Merged-chr14-50062348-5	chr14	50062275	50062475	+	978.2999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	22304.0	NM_146316	258313.0	Mm.463727	NM_146316	ENSMUSG00000060523	Olfr726	MOR246-4	olfactory receptor 726	protein-coding	2.5	3.5	3.0	21.0	45.5	30.5	41.5	35.5
Merged-chr5-25529778-4	chr5	25529662	25529862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027388)	promoter-TSS (NR_027388)	-256.0	NR_027388	73571.0	Mm.105263	NR_027388	ENSMUSG00000101856	1700096K18Rik	-	RIKEN cDNA 1700096K18 gene	ncRNA	398.5	660.5	558.5	5684.5	1150.5	478.5	593.5	424.0
Merged-chr19-11092285-4	chr19	11092212	11092412	+	822.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11209.0	NM_022430	64381.0	Mm.34460	NM_022430	ENSMUSG00000024730	Ms4a8a	2010004L09Rik|AI481240|CD20L5|Ms4a8	membrane-spanning 4-domains, subfamily A, member 8A	protein-coding	9.0	17.0	5.0	35.0	15.0	7.0	14.0	4.0
Merged-chr4-127235995-4	chr4	127235932	127236132	+	957.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198618, intron 11 of 11)	CpG	-7752.0	NM_030252	80284.0	Mm.139607	NM_030252	ENSMUSG00000042380	Smim12	BC003266	small integral membrane protein 12	protein-coding	17.0	21.0	18.5	227.5	36.0	13.0	25.5	14.5
Merged-chr6-97397171-4	chr6	97397075	97397275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	intron (NM_145148, intron 5 of 23)	62111.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	41.0	55.0	37.5	591.0	65.5	34.0	29.5	32.0
Merged-chr5-101949448-4	chr5	101949347	101949547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 9 of 66)	intron (NM_172882, intron 9 of 66)	120474.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	29.0	43.0	33.5	892.5	152.0	22.0	70.5	74.0
Merged-chr5-64900432-4	chr5	64900333	64900533	+	958.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32266.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	8.5	37.0	13.0	339.5	46.0	17.0	19.5	14.5
Merged-chr11-83655870-4	chr11	83655785	83655985	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6507.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	30.0	31.0	25.5	277.0	110.0	40.0	19.5	29.0
Merged-chr6-131272515-4	chr6	131272410	131272610	+	980.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20734.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	32.5	34.5	24.5	394.5	59.0	25.5	23.0	14.0
Merged-chr17-27989950-4	chr17	27989840	27990040	+	883.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 9 of 24)	intron (NM_181413, intron 9 of 24)	80634.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	14.5	11.0	7.5	235.0	24.5	5.0	13.5	16.5
Merged-chr19-29253979-4	chr19	29253877	29254077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008413, intron 2 of 24)	intron (NM_008413, intron 2 of 24)	2174.0	NM_008413	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	38.0	50.0	42.0	678.5	120.5	36.0	63.5	44.5
Merged-chr15-66730151-1	chr15	66730051	66730251	+	565.0	f1_balb.idr	intron (NM_009375, intron 27 of 47)	MLT1H|LTR|ERVL-MaLR	59381.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	8.5	3.0	0.0	49.5	13.0	9.0	7.5	5.5
Merged-chr16-15887891-3	chr16	15887813	15888013	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007679, exon 1 of 1)	exon (NM_007679, exon 1 of 1)	627.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	14.5	10.5	26.0	235.0	19.5	18.0	15.0	31.5
Merged-chr14-65071063-4	chr14	65070951	65071151	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360385, intron 2 of 5)	intron (NM_001360385, intron 2 of 5)	27055.0	NM_018788	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	10.5	8.5	12.5	115.0	45.5	8.0	12.5	15.0
Merged-chr5-138997690-4	chr5	138997574	138997774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2721.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	42.0	26.5	20.0	357.0	90.0	16.5	26.0	22.5
Merged-chr2-84476783-3	chr2	84476701	84476901	+	899.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177320)	promoter-TSS (NM_001177320)	-26.0	NM_001177320	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	14.0	10.5	12.5	96.0	14.0	3.0	18.5	5.5
Merged-chr13-115210913-2	chr13	115210813	115211013	+	944.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108949.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	2.0	8.0	12.5	43.0	13.5	5.5	7.5	4.5
Merged-chr15-84853908-3	chr15	84853778	84853978	+	928.2666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356573, intron 2 of 12)	CpG	1221.0	NM_001356573	271305.0	Mm.101022	NM_001081166	ENSMUSG00000016624	Phf21b	A730032D07Rik	PHD finger protein 21B	protein-coding	6.0	0.5	3.0	111.0	31.5	14.5	11.5	13.0
Merged-chr1-86500048-4	chr1	86499931	86500131	+	843.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26526.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	5.0	16.0	9.5	169.5	16.0	9.0	8.0	6.5
Merged-chr15-11399800-4	chr15	11399700	11399900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033074)	promoter-TSS (NM_033074)	-142.0	NM_033074	110960.0	Mm.286061	NM_033074	ENSMUSG00000022241	Tars	D15Wsu59e|ThrRS	threonyl-tRNA synthetase	protein-coding	411.0	525.0	337.5	5898.0	975.0	322.0	368.0	359.0
Merged-chr2-180702948-4	chr2	180702817	180703017	+	835.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175551)	promoter-TSS (NM_175551)	-815.0	NM_175551	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	14.5	18.5	8.5	64.5	17.5	7.0	10.0	16.5
Merged-chr14-73117132-4	chr14	73117038	73117238	+	833.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25372.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	10.0	10.0	7.5	134.5	24.5	2.0	5.0	11.0
Merged-chr7-63912619-2	chr7	63912523	63912723	+	808.0	f0_balb.idr|f0_c57.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-4234.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	22.0	21.5	13.0	255.0	22.0	15.0	16.5	23.5
Merged-chr4-103039961-3	chr4	103039866	103040066	+	795.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146254, intron 16 of 16)	intron (NM_146254, intron 16 of 16)	-13124.0	NM_001290648	23919.0	Mm.100163	NM_011831	ENSMUSG00000066090	Insl5	RIF2	insulin-like 5	protein-coding	11.0	9.5	11.0	193.5	13.0	6.5	6.0	8.5
Merged-chr8-77509241-3	chr8	77509150	77509350	+	774.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-7806.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	10.0	7.0	11.0	258.0	4.5	9.0	5.5	2.5
Merged-chr6-24531232-3	chr6	24531129	24531329	+	711.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080847, intron 1 of 9)	intron (NM_080847, intron 1 of 9)	3085.0	NM_080847	78910.0	Mm.160150	NM_080847	ENSMUSG00000029685	Asb15	4930400E23Rik|Asb-15	ankyrin repeat and SOCS box-containing 15	protein-coding	11.5	13.5	13.0	101.5	11.5	7.0	3.0	12.5
Merged-chr4-148040231-2	chr4	148040131	148040331	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161798)	promoter-TSS (NM_001161798)	-958.0	NR_027809	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	8.5	3.5	1.5	17.0	5.5	6.0	5.0	13.5
Merged-chr12-40656608-3	chr12	40656505	40656705	+	762.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 8 of 52)	intron (NM_172803, intron 8 of 52)	210552.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	9.0	9.0	2.0	114.0	14.0	7.5	12.0	6.5
Merged-chr3-96246697-3	chr3	96246606	96246806	+	957.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178216).2	promoter-TSS (NM_178216).2	6.0	NM_054045	97114.0	Mm.358797	NM_054045	ENSMUSG00000081058	Hist2h3c2	H3-614|H3.2-614|Hist2h3c2-ps|Hist2h3ca1|M32461	histone cluster 2, H3c2	protein-coding	2.5	2.5	2.5	1.0	53.5	19.5	24.0	14.0
Merged-chr15-102671161-4	chr15	102671060	102671260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026468)	promoter-TSS (NM_026468)	-113.0	NM_026468	67942.0	Mm.10314	NM_026468	ENSMUSG00000062683	Atp5g2	1810041M08Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C2 (subunit 9)	protein-coding	205.0	357.5	170.0	2964.0	442.5	167.0	176.5	157.0
Merged-chr10-121364999-4	chr10	121364872	121365072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029364)	promoter-TSS (NM_029364)	-118.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	123.0	187.5	129.0	2022.0	375.0	123.0	172.0	118.0
Merged-chr11-31713340-4	chr11	31713235	31713435	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41473.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	27.5	27.0	26.5	676.5	59.0	20.0	31.0	18.5
Merged-chr2-84523284-1	chr2	84523184	84523384	+	857.0	f0_balb.idr	Intergenic	Intergenic	-16411.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	14.0	5.0	12.0	147.5	14.5	5.0	7.5	1.5
Merged-chr9-114640147-4	chr9	114640021	114640221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153585)	promoter-TSS (NM_153585)	79.0	NM_153585	78893.0	Mm.283708	NM_153585	ENSMUSG00000056167	Cnot10	2600001P13Rik	CCR4-NOT transcription complex, subunit 10	protein-coding	219.0	402.0	222.0	3235.0	692.0	266.0	366.5	292.5
Merged-chr2-129489668-4	chr2	129489577	129489777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	intron (NM_177653, intron 1 of 6)	46925.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	74.0	89.5	58.0	847.5	142.0	46.0	62.5	38.0
Merged-chr9-50761711-4	chr9	50761618	50761818	+	918.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311073, exon 4 of 4)	3' UTR (NM_001311073, exon 4 of 4)	4215.0	NM_001311073	68721.0	Mm.171374	NM_023483	ENSMUSG00000037971	1110032A03Rik	4930500N06Rik|c11orf1	RIKEN cDNA 1110032A03 gene	protein-coding	12.0	8.5	10.5	161.0	37.5	7.5	8.5	19.5
Merged-chr7-25395714-4	chr7	25395647	25395847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073027, exon 2 of 6)	non-coding (NR_073027, exon 2 of 6)	240.0	NM_010719	16890.0	Mm.158548	NM_010719	ENSMUSG00000003123	Lipe	4933403G17Rik|HSL	lipase, hormone sensitive	protein-coding	98.5	135.0	64.0	925.5	223.0	116.0	119.5	78.5
Merged-chr11-121388431-2	chr11	121388331	121388531	+	991.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139147)	promoter-TSS (NM_139147)	-180.0	NM_139147	217371.0	Mm.281639	NM_139147	ENSMUSG00000025170	Rab40b	SEC4L|rar	Rab40B, member RAS oncogene family	protein-coding	1.0	15.5	1.5	41.5	11.5	4.5	5.5	9.0
Merged-chr10-4041985-4	chr10	4041891	4042091	+	973.7083130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 17 of 27)	intron (NM_001170785, intron 17 of 27)	68916.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	4.0	14.0	6.5	69.5	47.5	15.0	14.5	14.0
Merged-chr2-4591142-3	chr2	4591058	4591258	+	720.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 5 of 11)	intron (NM_001177844, intron 5 of 11)	31404.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	2.0	12.0	4.0	58.0	31.5	9.0	10.5	8.0
Merged-chr14-64901236-3	chr14	64901150	64901350	+	590.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 2 of 9)	intron (NM_177338, intron 2 of 9)	48607.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	1.0	3.0	1.0	52.0	13.5	14.0	9.5	8.0
Merged-chr10-123264045-4	chr10	123263948	123264148	+	775.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182807)	promoter-TSS (NM_182807)	-28.0	NR_153334	268354.0	Mm.51939	NM_182807	ENSMUSG00000044071	Fam19a2	6330575M02|FAM19A2 TAFA-2|Sam2|TAFA2|Tafa-2	family with sequence similarity 19, member A2	protein-coding	9.0	10.5	14.5	137.0	14.0	9.0	7.5	8.0
Merged-chr3-115689609-4	chr3	115689509	115689709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25446.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	97.5	178.5	154.5	1835.5	287.0	93.5	111.0	93.0
Merged-chr1-156620229-4	chr1	156620154	156620354	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	54085.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	15.5	15.0	18.0	187.5	29.0	7.5	8.0	10.5
Merged-chr11-49075834-3	chr11	49075733	49075933	+	768.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271677)	promoter-TSS (NM_001271677)	-754.0	NM_001271677	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	9.0	10.0	5.5	55.5	28.5	7.0	10.0	14.0
Merged-chr6-28880978-5	chr6	28880828	28881028	+	982.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 18 of 23)	intron (NM_019776, intron 18 of 23)	-49181.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	13.0	22.5	24.0	135.5	26.0	8.5	17.5	18.0
Merged-chr2-71209554-4	chr2	71209440	71209640	+	904.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2166.0	NM_001198875	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	21.0	15.0	8.5	184.0	26.0	9.5	7.5	15.5
Merged-chr9-40765770-4	chr9	40765661	40765861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 2 of 6)	intron (NM_133733, intron 2 of 6)	-35512.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	41.0	60.0	44.5	705.5	99.5	27.5	42.5	54.5
Merged-chr15-83410407-4	chr15	83410323	83410523	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	22427.0	NM_011862	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	28.0	45.0	30.0	465.0	38.0	14.5	20.0	20.5
Merged-chr5-21039534-4	chr5	21039420	21039620	+	943.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	CYRA11_Mm|Unknown|Y-chromosome	-4273.0	NM_001356590	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	7.0	13.0	16.0	188.5	24.5	12.5	32.0	24.5
Merged-chr8-66494996-3	chr8	66494896	66495096	+	958.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8466.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	13.0	25.5	13.0	144.0	70.0	26.5	18.0	10.0
Merged-chr6-113477389-2	chr6	113477289	113477489	+	895.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_178942, intron 9 of 17)	intron (NM_178942, intron 9 of 17)	5934.0	NM_134159	171095.0	Mm.213397	NM_134159	ENSMUSG00000030281	Il17rc	1110025H02Rik|Gm19850|IL-17RC|IL17-RC|IL17-RL|Il17rl	interleukin 17 receptor C	protein-coding	4.0	9.0	8.0	68.0	16.0	4.5	4.5	7.0
Merged-chr7-123369563-2	chr7	123369463	123369663	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	CpG	352.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	34.0	49.0	17.5	299.5	92.5	37.0	27.0	26.0
Merged-chr18-56468048-2	chr18	56467935	56468135	+	608.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	35903.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	13.5	6.0	14.5	58.5	8.0	3.5	3.5	3.0
Merged-chr5-120812621-4	chr5	120812534	120812734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003507)	promoter-TSS (NR_003507)	-1.0	NR_003507	23961.0	Mm.233471	NM_001083925	ENSMUSG00000029605	Oas1b	Flv|L1|Mmu-L1|Oas1|Oias-2|Oias2|Wnv	2'-5' oligoadenylate synthetase 1B	protein-coding	54.5	74.0	18.0	639.5	111.5	33.0	37.0	45.5
Merged-chr11-111227498-4	chr11	111227378	111227578	+	959.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	161314.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	29.0	36.5	14.5	439.0	45.0	15.0	20.5	13.5
Merged-chr18-56727426-3	chr18	56727319	56727519	+	902.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010721, intron 1 of 10)	intron (NM_010721, intron 1 of 10)	19606.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	5.5	10.0	6.0	148.5	13.5	3.5	4.5	5.5
Merged-chr1-154090026-3	chr1	154089928	154090128	+	804.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-111159.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	11.0	6.5	7.5	99.0	14.0	9.5	9.5	8.5
Merged-chr16-33770085-4	chr16	33770012	33770212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23925.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	37.5	61.0	47.5	502.0	75.0	40.5	50.5	39.0
Merged-chr19-34195884-3	chr19	34195789	34195989	+	839.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	2955.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	5.0	2.5	7.5	183.5	6.0	6.5	8.0	8.0
Merged-chr11-110464591-1	chr11	110464491	110464691	+	540.0	f0_c57.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	-13924.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	1.0	2.5	3.0	1.5	19.0	10.5	7.0	7.0
Merged-chr9-108120850-4	chr9	108120747	108120947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007567, intron 3 of 11)	intron (NM_007567, intron 3 of 11)	-12871.0	NR_126078	76873.0	Mm.436935	NR_126077	ENSMUSG00000102224	4930447F24Rik	-	RIKEN cDNA 4930447F24 gene	ncRNA	28.5	46.0	23.5	269.0	154.0	57.5	52.5	72.5
Merged-chr7-34189562-4	chr7	34189465	34189665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026549, intron 4 of 6)	intron (NM_026549, intron 4 of 6)	7105.0	NM_026549	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	60.5	103.0	86.0	1858.0	138.0	42.0	112.5	68.5
Merged-chr14-14640373-4	chr14	14640273	14640473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62652.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	32.0	45.5	45.0	674.5	58.5	25.5	46.0	33.0
Merged-chr5-117159980-4	chr5	117159890	117160090	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	26402.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	28.5	76.0	30.5	1061.5	65.0	12.5	21.0	25.0
Merged-chr10-13438610-4	chr10	13438507	13438707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	35789.0	NM_001195065	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	18.0	27.0	23.0	670.0	48.5	8.5	25.0	27.0
Merged-chr13-19855088-4	chr13	19854962	19855162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30805.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	58.0	44.5	38.5	390.5	74.0	18.0	29.5	19.5
Merged-chr4-11454099-4	chr4	11453997	11454197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31861.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	121.0	144.0	83.0	1183.0	369.0	108.5	140.5	89.0
Merged-chr17-63921797-4	chr17	63921691	63921891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001286415, exon 4 of 18)	exon (NM_001286415, exon 4 of 18)	-16181.0	NM_008000	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	37.5	52.0	75.5	936.5	63.0	23.0	43.0	35.5
Merged-chr2-165876394-3	chr2	165876309	165876509	+	863.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291158, exon 1 of 24)	5' UTR (NM_001291158, exon 1 of 24)	2028.0	NM_001291158	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	0.0	0.0	3.5	0.0	27.0	6.5	14.5	9.0
Merged-chr15-97927993-4	chr15	97927902	97928102	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19706.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	27.0	48.0	20.5	400.5	104.0	25.0	44.5	34.0
Merged-chr14-59441530-3	chr14	59441407	59441607	+	917.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320725)	promoter-TSS (NM_001320725)	544.0	NM_001360592	69008.0	Mm.179091	NM_026908	ENSMUSG00000021981	Cab39l	1500031K13Rik|2810425O13Rik|4930520C08Rik|AA589432|MO2L	calcium binding protein 39-like	protein-coding	9.5	6.0	5.0	66.0	9.0	4.5	4.5	5.5
Merged-chr17-10383621-4	chr17	10383525	10383725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	59023.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	83.5	129.5	138.5	2003.0	273.0	83.5	139.5	98.0
Merged-chr8-10711240-4	chr8	10711135	10711335	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	171219.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	29.0	58.0	46.0	749.0	49.0	16.0	22.0	21.5
Merged-chr3-153797763-1	chr3	153797663	153797863	+	855.3333130000001	f0_balb.idr	Intergenic	Intergenic	-5676.0	NR_045801	70594.0	Mm.491050	NR_045801	ENSMUSG00000062046	5730460C07Rik	-	RIKEN cDNA 5730460C07 gene	ncRNA	14.0	16.5	18.0	232.0	13.0	1.0	9.5	10.0
Merged-chr7-48749402-4	chr7	48749324	48749524	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39579.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	11.0	24.5	22.5	328.0	46.5	20.5	26.5	20.5
Merged-chr1-152556204-3	chr1	152556096	152556296	+	872.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 5 of 17)	intron (NM_016846, intron 5 of 17)	69021.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	5.5	9.0	7.5	121.5	10.0	8.5	4.0	8.5
Merged-chr11-117194645-4	chr11	117194589	117194789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4972.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	107.5	156.0	120.0	1474.5	317.5	106.5	137.0	118.0
Merged-chr3-69127131-4	chr3	69127024	69127224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008467)	promoter-TSS (NM_008467)	-32.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	201.0	317.5	261.0	3202.5	537.5	219.0	304.0	214.5
Merged-chr7-127512409-4	chr7	127512308	127512508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024331, exon 1 of 1)	non-coding (NR_024331, exon 1 of 1)	425.0	NM_001304266	100043597.0	Mm.428042	NM_175144	ENSMUSG00000053877	Srcap	B930091H02Rik|D030022P06Rik|F630004O05Rik	Snf2-related CREBBP activator protein	protein-coding	55.5	82.0	27.5	553.5	174.5	66.0	87.0	85.5
Merged-chr6-85588743-4	chr6	85588640	85588840	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145223, intron 1 of 22)	intron (NM_145223, intron 1 of 22)	1209.0	NM_145223	236266.0	Mm.246967	NM_145223	ENSMUSG00000063810	Alms1	bbb	ALMS1, centrosome and basal body associated	protein-coding	17.5	27.0	15.5	544.5	85.0	25.0	23.5	49.5
Merged-chr11-53519296-2	chr11	53519196	53519396	+	889.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252332)	promoter-TSS (NM_001252332)	-440.0	NM_033144	20362.0	Mm.274399	NM_033144	ENSMUSG00000018398	Sept8	AW046166|Sepl	septin 8	protein-coding	8.0	8.0	7.0	84.0	7.0	3.5	0.5	9.0
Merged-chr4-45280353-2	chr4	45280253	45280453	+	835.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081172, intron 15 of 15)	intron (NM_001081172, intron 15 of 15)	-16815.0	NM_027266	69934.0	Mm.46761	NM_027266	ENSMUSG00000035601	Trmt10b	2610042J10Rik|Rg9mtd3|Rnmtd3	tRNA methyltransferase 10B	protein-coding	5.0	6.5	8.5	10.0	6.0	5.5	7.0	2.0
Merged-chr14-52451312-3	chr14	52451217	52451417	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020514)	TTS (NM_020514)	924.0	NM_020514	57271.0	Mm.88824	NM_020514	ENSMUSG00000035626	Olfr1509	MOR244-3|Mor83|Or83	olfactory receptor 1509	protein-coding	48.0	24.5	58.0	695.0	1.5	1.5	2.0	1.5
Merged-chr16-30596336-4	chr16	30596237	30596437	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3386.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	14.0	24.0	18.5	161.5	26.5	5.5	6.0	13.0
Merged-chr4-118135048-4	chr4	118134940	118135140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161774)	promoter-TSS (NM_001161774)	-94.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	155.0	190.5	156.0	2295.0	364.5	133.0	167.5	115.5
Merged-chr4-141137990-4	chr4	141137894	141138094	+	950.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277195, intron 1 of 3)	intron (NM_001277195, intron 1 of 3)	1802.0	NR_102344	213491.0	Mm.332006	NM_174996	ENSMUSG00000040842	Szrd1	1110022I03|D4Ertd22e	SUZ RNA binding domain containing 1	protein-coding	34.5	55.0	17.0	149.5	51.0	36.0	25.0	28.5
Merged-chr2-59129212-4	chr2	59129108	59129308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	L1MA6|LINE|L1	31475.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	56.0	91.0	84.5	1206.5	179.0	74.0	82.0	72.5
Merged-chr2-169873631-3	chr2	169873532	169873732	+	815.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	89555.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	10.5	15.5	6.5	189.5	17.5	4.5	9.5	12.5
Merged-chr16-95810610-4	chr16	95810512	95810712	+	958.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88101.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	28.5	20.5	22.0	230.5	41.0	13.5	17.0	20.0
Merged-chr3-81099443-3	chr3	81099343	81099543	+	676.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	RSINE1|SINE|B4	63027.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	11.5	14.0	7.0	86.5	16.0	5.5	7.0	7.5
Merged-chr4-133744825-3	chr4	133744777	133744977	+	706.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080819, intron 1 of 19)	PB1D9|SINE|Alu	8734.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	6.5	12.5	7.0	48.5	16.0	3.5	1.5	1.5
Merged-chr1-91074806-4	chr1	91074695	91074895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 3 of 22)	intron (NM_008515, intron 3 of 22)	21351.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	94.5	170.5	149.5	1953.5	326.5	95.5	158.0	109.0
Merged-chr4-133830583-4	chr4	133830508	133830708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	44123.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	33.5	31.0	19.5	244.5	95.0	33.0	35.0	32.0
Merged-chr15-31332800-3	chr15	31332681	31332881	+	977.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	MTEa-int|LTR|ERVL-MaLR	34978.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	6.0	13.5	8.5	192.5	8.5	5.5	4.0	6.0
Merged-chr13-91362134-3	chr13	91362047	91362247	+	810.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25938.0	NR_045161	320297.0	Mm.375866	NR_045161	ENSMUSG00000097182	A830009L08Rik	-	RIKEN cDNA A830009L08 gene	ncRNA	21.5	15.5	9.0	163.0	21.5	6.5	6.5	4.5
Merged-chr5-9069066-4	chr5	9068979	9069179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31658.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	67.5	47.0	67.5	930.5	86.5	29.5	32.5	43.0
Merged-chr9-96544252-4	chr9	96544148	96544348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053268, intron 23 of 23)	intron (NM_053268, intron 23 of 23)	-65573.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	47.5	103.5	60.5	1056.0	157.5	69.0	88.0	58.5
Merged-chr14-64311858-4	chr14	64311786	64311986	+	932.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253714, intron 1 of 4)	intron (NM_001253714, intron 1 of 4)	105070.0	NM_001253716	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	11.5	12.5	12.5	342.0	28.5	3.0	17.0	9.5
Merged-chr13-41572175-4	chr13	41572084	41572284	+	893.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34032.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	6.0	11.0	5.5	148.5	35.5	14.0	10.5	16.0
Merged-chr2-154570669-4	chr2	154570577	154570777	+	846.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007891)	promoter-TSS (NM_007891)	-785.0	NM_007891	13555.0	Mm.18036	NM_007891	ENSMUSG00000027490	E2f1	E2F-1|Tg(Wnt1-cre)2Sor|mKIAA4009	E2F transcription factor 1	protein-coding	9.0	7.0	4.5	154.0	19.5	13.0	13.0	9.0
Merged-chr10-128272071-2	chr10	128271913	128272113	+	912.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019963, intron 1 of 23)	intron (NM_019963, intron 1 of 23)	1515.0	NM_019963	20847.0	Mm.293120	NM_019963	ENSMUSG00000040033	Stat2	1600010G07Rik|AW496480	signal transducer and activator of transcription 2	protein-coding	2.5	12.5	4.5	46.5	17.0	10.0	5.5	4.5
Merged-chr13-94005893-3	chr13	94005755	94005955	+	765.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51941.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	5.5	12.0	9.5	59.0	8.5	5.5	2.5	5.5
Merged-chr19-11766616-4	chr19	11766508	11766708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3807.0	NM_025606	94063.0	Mm.203928	NM_025606	ENSMUSG00000024683	Mrpl16	2310039D06Rik	mitochondrial ribosomal protein L16	protein-coding	54.0	63.5	56.5	779.5	106.5	25.0	43.0	64.5
Merged-chr8-108316380-4	chr8	108316308	108316508	+	954.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	268269.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	15.5	22.0	17.0	250.0	51.5	10.5	15.0	10.5
Merged-chr5-108634190-3	chr5	108634119	108634319	+	887.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359426, intron 1 of 9)	intron (NM_001359426, intron 1 of 9)	4409.0	NM_001359426	72392.0	Mm.258324	NM_028223	ENSMUSG00000013495	Tmem175	3010001K23Rik|AI504381|mTMEM175	transmembrane protein 175	protein-coding	8.0	11.0	9.5	67.5	29.0	15.0	6.0	18.0
Merged-chr13-35482505-4	chr13	35482396	35482596	+	912.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177366.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	12.5	10.0	7.0	321.0	29.0	2.5	9.0	7.5
Merged-chr10-19002359-3	chr10	19002226	19002426	+	998.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009397, exon 9 of 9)	3' UTR (NM_009397, exon 9 of 9)	9637.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	11.0	23.5	5.0	23.0	15.0	10.5	3.5	6.5
Merged-chr12-87325642-4	chr12	87325548	87325748	+	960.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011479, intron 9 of 11)	intron (NM_011479, intron 9 of 11)	-25943.0	NM_001290302	217738.0	Mm.219363	NM_001290302	ENSMUSG00000050671	Ism2	Gm264|Thsd3	isthmin 2	protein-coding	25.5	43.0	25.5	467.5	63.5	30.0	16.5	20.5
Merged-chr4-129189794-4	chr4	129189702	129189902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029036)	promoter-TSS (NM_029036)	7.0	NM_134151	107271.0	Mm.145488	NM_134151	ENSMUSG00000028811	Yars	AL024047|AU018965	tyrosyl-tRNA synthetase	protein-coding	149.5	278.0	128.0	1508.0	361.0	172.0	141.0	158.0
Merged-chr2-91206800-3	chr2	91206695	91206895	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007387, exon 7 of 11)	exon (NM_007387, exon 7 of 11)	3883.0	NM_007387	11432.0	Mm.45570	NM_007387	ENSMUSG00000002103	Acp2	Acp-2|LAP	acid phosphatase 2, lysosomal	protein-coding	49.5	94.0	45.5	777.5	161.0	62.5	78.5	62.5
Merged-chr4-94477163-4	chr4	94477077	94477277	+	820.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	79619.0	NM_026368	67770.0	Mm.35170	NM_026368	ENSMUSG00000028578	Caap1	5830433M19Rik|AI536248|CAAP	caspase activity and apoptosis inhibitor 1	protein-coding	21.5	9.5	4.5	136.0	20.0	5.5	10.0	3.0
Merged-chr6-97805958-3	chr6	97805856	97806056	+	674.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1102.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	12.0	26.0	9.0	72.5	9.5	6.5	5.5	10.0
Merged-chr1-173879433-3	chr1	173879328	173879528	+	947.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170853, intron 2 of 9)	intron (NM_001170853, intron 2 of 9)	759.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	20.5	46.0	20.0	203.5	16.5	9.0	6.5	9.5
Merged-chr6-91682473-4	chr6	91682332	91682532	+	781.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1635.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	1.5	2.5	2.5	9.5	10.5	5.5	4.5	8.0
Merged-chr16-44347551-4	chr16	44347460	44347660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144550, intron 1 of 17)	CpG	159.0	NM_144550	212514.0	Mm.24035	NM_144550	ENSMUSG00000043065	Spice1	Ccdc52|D16Ertd480e	spindle and centriole associated protein 1	protein-coding	86.5	161.5	155.0	1438.0	247.0	100.5	122.5	129.5
Merged-chr10-117418833-6	chr10	117418739	117418939	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28596.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	9.5	16.0	18.5	220.5	21.5	11.5	1.5	13.5
Merged-chr6-30229146-4	chr6	30229048	30229248	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169576, intron 3 of 4)	intron (NM_001169576, intron 3 of 4)	14655.0	NM_001169577	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	10.0	18.0	17.0	441.0	66.5	8.0	23.0	38.5
Merged-chr11-52297597-2	chr11	52297497	52297697	+	977.5833130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14583.0	NM_001313981	21414.0	Mm.31630	NM_009331	ENSMUSG00000000782	Tcf7	AI465550|TCF-1|Tcf1	transcription factor 7, T cell specific	protein-coding	6.0	13.5	7.0	34.5	16.0	3.0	7.5	5.5
Merged-chr8-25043634-4	chr8	25043532	25043732	+	803.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031257, exon 11 of 12)	exon (NM_031257, exon 11 of 12)	-4670.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	12.5	19.0	19.0	397.0	20.5	9.5	18.5	13.5
Merged-chr8-61666113-2	chr8	61666013	61666213	+	662.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	-74944.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	6.0	4.5	6.0	125.5	9.5	0.5	2.5	6.0
Merged-chr7-24461665-4	chr7	24461587	24461787	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011113)	promoter-TSS (NM_011113)	-796.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	3.0	8.5	6.0	36.0	7.5	5.0	5.5	5.0
Merged-chr10-20123559-4	chr10	20123427	20123627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 23 of 29)	intron (NM_008580, intron 23 of 29)	-25393.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	44.0	84.5	48.5	757.5	64.0	33.0	27.5	17.0
Merged-chr4-126609817-4	chr4	126609731	126609931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145950)	promoter-TSS (NM_001145950)	-23.0	NM_001013755	230757.0	Mm.296838	NM_001013755	ENSMUSG00000073755	5730409E04Rik	7530403E16Rik|AI849033	RIKEN cDNA 5730409E04Rik gene	protein-coding	70.0	130.5	77.0	1046.0	184.0	56.0	100.0	97.0
Merged-chr10-12963592-4	chr10	12963470	12963670	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029075, intron 1 of 2)	intron (NM_029075, intron 1 of 2)	689.0	NM_029075	74732.0	Mm.248648	NM_029075	ENSMUSG00000039232	Stx11	5830405C08Rik	syntaxin 11	protein-coding	40.0	45.5	31.5	331.0	87.0	33.0	24.5	18.0
Merged-chr1-86703786-4	chr1	86703674	86703874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153530)	promoter-TSS (NM_153530)	-30.0	NM_153530	208718.0	Mm.389152	NM_153530	ENSMUSG00000053333	Dis3l2	4930429A22Rik|8030493P09Rik	DIS3 like 3'-5' exoribonuclease 2	protein-coding	29.5	29.0	17.0	302.0	61.5	37.5	33.5	43.5
Merged-chr3-16021313-3	chr3	16021212	16021412	+	873.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D5|LTR|ERVK	-14980.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	4.5	12.0	11.5	176.5	14.0	5.0	10.0	4.5
Merged-chr13-6690224-1	chr13	6690124	6690324	+	564.0	f0_balb.idr	Intergenic	RMER1A|Other|Other	-41453.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	7.5	4.5	6.5	78.0	12.5	2.5	2.0	7.0
Merged-chr17-46893257-4	chr17	46893153	46893353	+	879.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178385)	TTS (NM_178385)	2632.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	14.5	31.5	7.5	206.5	25.5	2.5	11.5	8.5
Merged-chr4-95905455-4	chr4	95905345	95905545	+	896.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	intron (NM_001113412, intron 14 of 15)	61590.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	8.5	12.5	8.5	232.5	30.0	7.5	16.0	11.5
Merged-chr14-18331806-4	chr14	18331711	18331911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009455)	promoter-TSS (NM_009455)	33.0	NM_009455	22194.0	Mm.4429	NM_009455	ENSMUSG00000021774	Ube2e1	UbcM3|Ubce5|ubcM2	ubiquitin-conjugating enzyme E2E 1	protein-coding	38.5	88.5	86.5	849.5	115.5	55.5	64.5	51.5
Merged-chr8-120669053-4	chr8	120668939	120669139	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010926)	promoter-TSS (NM_010926)	719.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	7.0	12.5	3.5	134.0	35.0	7.0	19.5	15.5
Merged-chr4-135960944-3	chr4	135960857	135961057	+	934.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357530, intron 9 of 9)	intron (NM_001357530, intron 9 of 9)	-2768.0	NM_001356493	74246.0	Mm.247946	NM_178389	ENSMUSG00000028671	Gale	2310002A12Rik|AI323962	galactose-4-epimerase, UDP	protein-coding	8.0	18.0	14.0	111.0	13.0	8.0	7.0	14.0
Merged-chr2-120567641-4	chr2	120567564	120567764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177793)	promoter-TSS (NM_001177793)	-7.0	NM_001177792	20619.0	Mm.245715	NM_009222	ENSMUSG00000027287	Snap23	23kDa|AA408749|SNAP-23|Sndt|Syndet	synaptosomal-associated protein 23	protein-coding	104.0	262.0	97.5	1752.5	304.5	118.5	160.0	134.5
Merged-chr19-12734216-4	chr19	12734099	12734299	+	917.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	31433.0	NM_170786	12803.0	Mm.290924	NM_053007	ENSMUSG00000079415	Cntf	AI429687	ciliary neurotrophic factor	protein-coding	9.0	10.0	4.0	313.0	45.0	9.5	26.5	17.5
Merged-chr3-105815481-4	chr3	105815397	105815597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045845)	promoter-TSS (NR_045845)	-70.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	49.5	64.0	43.0	1072.0	128.5	57.5	70.5	47.0
Merged-chr8-56286831-3	chr8	56286711	56286911	+	960.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7741.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	11.5	2.0	21.5	409.0	12.5	5.0	14.5	4.5
Merged-chr7-80203730-4	chr7	80203619	80203819	+	960.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	5278.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	27.0	40.0	38.5	788.0	71.5	12.0	31.0	33.0
Merged-chr15-36930627-3	chr15	36930535	36930735	+	665.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76767.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	6.5	8.5	10.0	40.5	5.5	2.5	5.0	3.5
Merged-chr9-64811975-1	chr9	64811875	64812075	+	1000.0	f0_balb.idr	intron (NM_001162917, intron 2 of 34)	CpG-15087	964.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	20.5	15.5	29.0	113.5	62.0	21.0	20.0	35.0
Merged-chr5-110448594-4	chr5	110448488	110448688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142642)	promoter-TSS (NM_001142642)	-85.0	NM_001142642	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	162.0	215.5	142.5	2178.5	387.5	164.5	226.0	150.0
Merged-chr15-82152175-4	chr15	82152080	82152280	+	788.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033218, intron 1 of 18)	intron (NM_033218, intron 1 of 18)	4911.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	11.5	11.5	6.0	125.5	40.5	13.5	11.0	20.5
Merged-chr19-24987539-4	chr19	24987439	24987639	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-11990.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	21.5	26.5	35.5	340.0	73.5	18.5	31.5	19.5
Merged-chr8-25974445-3	chr8	25974340	25974540	+	737.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029884, intron 1 of 17)	(CA)n|Simple_repeat|Simple_repeat	2304.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	3.0	0.5	0.5	43.5	30.5	6.5	7.0	15.5
Merged-chr8-84840701-4	chr8	84840570	84840770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001297607)	promoter-TSS (NM_001297607)	-5.0	NM_009010	19358.0	Mm.255539	NM_009010	ENSMUSG00000003813	Rad23a	2310040P19Rik|AL024030|HR23A|mHR23A	RAD23 homolog A, nucleotide excision repair protein	protein-coding	93.5	149.0	70.5	1405.0	267.5	114.0	120.0	102.0
Merged-chr10-99088432-4	chr10	99088338	99088538	+	873.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18644.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	5.5	21.5	12.5	100.5	35.5	12.0	16.0	15.5
Merged-chr16-36657850-3	chr16	36657768	36657968	+	920.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	8209.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	13.5	23.5	6.0	94.0	16.5	11.5	10.5	7.0
Merged-chr1-74392659-4	chr1	74392576	74392776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153088, intron 1 of 6)	intron (NM_153088, intron 1 of 6)	1067.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	33.5	39.0	85.0	548.0	133.0	43.0	66.0	36.0
Merged-chr14-58308957-4	chr14	58308827	58309027	+	903.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	236241.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	13.0	12.0	21.5	72.0	44.0	16.5	15.0	30.0
Merged-chr7-102246114-4	chr7	102245991	102246191	+	990.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	4027.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	16.0	35.5	22.0	140.0	41.5	12.0	15.5	8.0
Merged-chr3-146658459-4	chr3	146658346	146658546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7129.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	36.5	22.5	18.0	530.5	71.5	20.0	31.5	27.0
Merged-chr10-42244721-4	chr10	42244618	42244818	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	32024.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	8.0	16.5	20.0	245.5	17.5	11.5	15.5	10.5
Merged-chr15-98763262-4	chr15	98763166	98763366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007478)	promoter-TSS (NM_007478)	-148.0	NM_007478	11842.0	Mm.221298	NM_007478	ENSMUSG00000051853	Arf3	5430400P17Rik|AI854770	ADP-ribosylation factor 3	protein-coding	69.5	82.5	32.5	578.0	160.5	63.5	62.0	69.5
Merged-chr11-120041431-1	chr11	120041331	120041531	+	1000.0	f1_balb.idr	intron (NM_001198785, intron 1 of 13)	intron (NM_001198785, intron 1 of 13)	350.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	8.0	25.5	11.0	79.5	33.0	11.5	9.5	8.5
Merged-chr3-108562455-4	chr3	108562359	108562559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026198)	promoter-TSS (NM_026198)	7.0	NM_026198	67495.0	Mm.32615	NM_026198	ENSMUSG00000068732	Tmem167b	2010200O16Rik	transmembrane protein 167B	protein-coding	239.0	390.0	208.5	2416.5	542.0	211.5	220.5	220.5
Merged-chr13-21832143-4	chr13	21832034	21832234	+	964.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175657).2	promoter-TSS (NM_175657).2	24.0	NM_175657	319161.0	Mm.261664	NM_175657	ENSMUSG00000069305	Hist1h4n	-	histone cluster 1, H4n	protein-coding	36.0	61.0	71.0	510.5	54.5	23.0	30.0	36.0
Merged-chr16-49843944-2	chr16	49843844	49844044	+	720.799988	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-11710.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	6.0	17.0	7.0	46.0	11.0	10.0	15.0	3.0
Merged-chr9-13559040-4	chr9	13558962	13559162	+	803.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60927.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	11.5	16.0	7.0	139.5	31.5	8.5	10.0	9.0
Merged-chr3-129643332-4	chr3	129643171	129643371	+	878.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81815.0	NM_001310737	13645.0	Mm.252481	NM_010113	ENSMUSG00000028017	Egf	AI790464	epidermal growth factor	protein-coding	7.0	12.0	13.5	89.0	4.5	6.0	4.5	2.5
Merged-chr13-103065681-4	chr13	103065559	103065759	+	900.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 3 of 28)	intron (NM_175171, intron 3 of 28)	268833.0	NM_175171	328329.0	Mm.202606	NM_175171	ENSMUSG00000034751	Mast4	4930420O11Rik|AI642422|mKIAA0303	microtubule associated serine/threonine kinase family member 4	protein-coding	13.0	25.0	17.5	235.0	28.0	6.0	13.0	9.5
Merged-chr11-78323135-4	chr11	78323105	78323305	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009657)	promoter-TSS (NM_009657)	132.0	NM_001303423	11676.0	Mm.7729	NM_009657	ENSMUSG00000017390	Aldoc	AI847350|AU040929|Aldo3|Scrg2	aldolase C, fructose-bisphosphate	protein-coding	8.0	24.0	6.5	44.0	25.5	11.5	8.0	12.0
Merged-chr1-54828038-4	chr1	54827962	54828162	+	989.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 2 of 27)	intron (NM_001081433, intron 2 of 27)	98325.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	10.0	37.0	17.5	239.5	98.5	30.5	34.5	21.0
Merged-chr1-74363688-4	chr1	74363525	74363725	+	882.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033345, intron 4 of 9)	intron (NM_001033345, intron 4 of 9)	1517.0	NM_001033345	241112.0	Mm.310460	NM_001033345	ENSMUSG00000073650	Catip	Gm216	ciliogenesis associated TTC17 interacting protein	protein-coding	9.0	12.0	17.0	115.5	14.0	5.0	12.0	10.5
Merged-chr9-106908915-3	chr9	106908829	106909029	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153413, intron 46 of 52)	intron (NM_153413, intron 46 of 52)	-16991.0	NM_029103	74840.0	Mm.29778	NM_029103	ENSMUSG00000032575	Manf	3230402M22Rik|AA407711|AA408789|AA673178|Armet|D17914|D18Mgi17	mesencephalic astrocyte-derived neurotrophic factor	protein-coding	2.0	3.5	5.0	203.0	99.0	20.5	54.0	23.5
Merged-chr19-53313877-4	chr19	53313789	53313989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	intron (NM_001360348, intron 1 of 5)	2444.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	38.5	62.0	59.0	923.0	112.5	45.0	60.0	33.0
Merged-chr2-166711832-4	chr2	166711741	166711941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	1991.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	21.5	138.5	29.0	278.0	118.5	64.0	30.5	13.0
Merged-chr6-134245855-4	chr6	134245734	134245934	+	902.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 5 of 8)	L1MEf|LINE|L1	-150495.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	20.5	16.5	26.0	327.0	41.0	9.5	10.0	11.5
Merged-chr5-107597589-4	chr5	107597481	107597681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163461)	promoter-TSS (NM_001163461)	58.0	NM_133248	170823.0	Mm.41417	NM_133248	ENSMUSG00000029276	Glmn	9330160J16Rik|AW227515|Fap48|Fap68	glomulin, FKBP associated protein	protein-coding	76.5	108.5	105.0	1127.5	169.5	41.5	46.0	66.5
Merged-chr6-51533611-4	chr6	51533528	51533728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361581, intron 1 of 6)	intron (NM_001361581, intron 1 of 6)	9368.0	NM_001361580	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	54.0	97.0	47.5	740.5	123.0	60.5	32.5	38.0
Merged-chr4-141444665-4	chr4	141444554	141444754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009541)	promoter-TSS (NM_009541)	-19.0	NM_009541	22642.0	Mm.389590	NM_009541	ENSMUSG00000006215	Zbtb17	AA589413|Lp-1|Miz1|Zfp100|mZ13	zinc finger and BTB domain containing 17	protein-coding	29.5	54.5	34.5	373.0	149.5	33.0	44.0	34.0
Merged-chr17-56266075-4	chr17	56265985	56266185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	9292.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	20.5	52.5	26.0	460.0	121.0	40.0	26.5	44.5
Merged-chr11-53299858-4	chr11	53299756	53299956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008300, intron 1 of 18)	CpG	623.0	NM_008300	15525.0	Mm.239865	NM_008300	ENSMUSG00000020361	Hspa4	70kDa|AI317151|APG-2|Hsp110|Hsp70RY|mKIAA4025	heat shock protein 4	protein-coding	46.0	71.0	55.0	587.0	116.0	33.0	63.0	71.5
Merged-chr1-191138557-4	chr1	191138430	191138630	+	886.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26287.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	14.0	16.5	21.0	453.5	18.0	7.0	12.0	16.0
Merged-chr4-59363241-4	chr4	59363140	59363340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 10 of 16)	intron (NM_001163288, intron 10 of 16)	75393.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	71.0	103.5	95.0	1665.0	125.5	49.5	54.0	68.0
Merged-chr9-118557054-3	chr9	118556961	118557161	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_018748, exon 15 of 24)	exon (NM_018748, exon 15 of 24)	-49648.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	16.5	50.5	42.0	742.5	10.0	2.5	6.0	1.0
Merged-chr12-4080498-3	chr12	4080411	4080611	+	864.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2063.0	NM_153082	217378.0	Mm.271656	NM_153082	ENSMUSG00000020657	Dnajc27	AI639580|C330021A05Rik|Rabj|Rbj	DnaJ heat shock protein family (Hsp40) member C27	protein-coding	11.0	12.0	3.0	84.0	21.0	6.0	5.5	8.5
Merged-chr14-9660088-4	chr14	9659984	9660184	+	849.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 8 of 9)	L1_Mus3|LINE|L1	-224011.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	1.5	15.5	15.0	104.5	28.0	7.0	16.5	15.0
Merged-chr17-71178708-3	chr17	71178593	71178793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-4839.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	24.5	43.0	33.5	561.0	42.0	27.0	22.5	15.0
Merged-chr18-4312104-3	chr18	4311999	4312199	+	883.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40854.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	7.5	5.0	10.5	125.5	11.0	1.5	9.5	2.5
Merged-chr13-60177701-3	chr13	60177607	60177807	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008086)	promoter-TSS (NM_008086)	-172.0	NM_008086	14451.0	Mm.22701	NM_008086	ENSMUSG00000052957	Gas1	AW554192|Gas-1	growth arrest specific 1	protein-coding	6.5	9.0	12.0	117.5	7.5	2.5	5.0	7.5
Merged-chr11-85671301-3	chr11	85671192	85671392	+	820.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	48452.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	7.0	19.0	11.5	169.0	8.5	5.0	9.5	11.5
Merged-chr7-126596091-3	chr7	126595966	126596166	+	957.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1156.0	NM_145636	246779.0	Mm.222632	NM_145636	ENSMUSG00000044701	Il27	IL-27|IL-27p28|Il30|p28	interleukin 27	protein-coding	6.0	15.0	5.5	15.5	51.5	31.0	14.0	6.0
Merged-chr12-3237385-4	chr12	3237278	3237478	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015551, exon 2 of 7)	non-coding (NR_015551, exon 2 of 7)	1587.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	17.0	27.5	14.0	200.5	45.5	15.0	13.5	24.0
Merged-chr17-45759042-4	chr17	45758953	45759153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	intron (NR_152153, intron 2 of 4)	24547.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	22.5	24.5	29.0	447.0	46.0	11.0	29.5	20.0
Merged-chr10-4341631-3	chr10	4341533	4341733	+	879.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031185, intron 2 of 3)	intron (NM_031185, intron 2 of 3)	45842.0	NM_001359811	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	15.5	27.0	6.5	285.5	18.0	10.5	12.5	12.5
Merged-chr17-28015584-4	chr17	28015460	28015660	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 12 of 24)	intron (NM_181413, intron 12 of 24)	65024.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	16.0	35.5	20.5	347.0	42.0	6.0	17.5	13.0
Merged-chr13-112058306-4	chr13	112058195	112058395	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	190359.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	4.5	12.5	15.5	118.5	24.0	5.0	12.0	6.0
Merged-chr19-5714245-4	chr19	5714153	5714353	+	831.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 11 of 17)	intron (NM_001114595, intron 11 of 17)	9782.0	NM_010609	16530.0	Mm.440033	NM_010609	ENSMUSG00000024936	Kcnk7	2310014G03Rik|Kcnk6|Kcnk8|Knot|Mlk3	potassium channel, subfamily K, member 7	protein-coding	8.0	7.0	8.0	84.5	27.5	5.5	6.5	10.5
Merged-chr7-127588670-4	chr7	127588587	127588787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172281)	promoter-TSS (NM_172281)	-11.0	NM_172281	233900.0	Mm.41122	NM_172281	ENSMUSG00000030816	Rnf40	AI848422|BRE1-B|mKIAA0661	ring finger protein 40	protein-coding	184.0	232.0	109.5	1766.5	394.0	133.0	162.0	136.5
Merged-chr9-59735865-4	chr9	59735743	59735943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001172071, exon 3 of 3)	3' UTR (NM_001172071, exon 3 of 3)	14806.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	33.5	67.5	55.0	642.0	92.0	34.0	48.5	40.0
Merged-chr3-19895672-3	chr3	19895525	19895725	+	793.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027985, exon 1 of 1)	non-coding (NR_027985, exon 1 of 1)	754.0	NR_027985	70808.0	Mm.427103	NR_027985	ENSMUSG00000048106	4632415L05Rik	AI662792	RRS1 ribosome biogenesis regulator homolog pseudogene	pseudo	6.5	14.0	15.0	94.5	17.0	3.0	8.5	1.5
Merged-chr7-100991153-4	chr7	100991056	100991256	+	963.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20842.0	NM_001302347	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	17.5	20.0	22.0	344.5	49.0	22.5	24.5	13.0
Merged-chr3-51648542-4	chr3	51648485	51648685	+	949.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12594.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	11.5	17.0	1.0	139.5	33.0	9.5	12.0	5.5
Merged-chr12-70112989-4	chr12	70112889	70113089	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104397)	promoter-TSS (NR_104397)	-954.0	NR_104397	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	28.5	73.0	27.0	633.5	62.5	17.0	39.0	16.5
Merged-chr9-52174793-4	chr9	52174691	52174891	+	855.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6680.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	16.0	64.0	20.0	107.5	55.0	12.5	9.0	3.0
Merged-chr7-127026908-2	chr7	127026808	127027008	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010772)	promoter-TSS (NM_010772)	-429.0	NM_010772	17188.0	Mm.378964	NM_010772	ENSMUSG00000030678	Maz	MAZI|PUR1|Pur-1|SAF-1|SAF-2	MYC-associated zinc finger protein (purine-binding transcription factor)	protein-coding	40.0	71.0	53.0	570.0	143.5	65.0	55.0	56.5
Merged-chr13-23526581-4	chr13	23526490	23526690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4454.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	21.0	34.5	21.5	360.5	62.5	40.5	20.0	20.0
Merged-chr7-141394306-4	chr7	141394191	141394391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011528, intron 1 of 7)	L1MC4a|LINE|L1	2131.0	NM_011528	21351.0	Mm.29182	NM_011528	ENSMUSG00000025503	Taldo1	-	transaldolase 1	protein-coding	86.5	99.5	88.5	928.5	117.5	39.0	41.5	45.0
Merged-chr11-44516450-4	chr11	44516353	44516553	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2511.0	NM_028862	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	7.0	24.5	4.0	123.0	38.0	14.0	19.0	9.5
Merged-chr4-139240546-1	chr4	139240446	139240646	+	783.5	f0_balb.idr	intron (NM_001037761, intron 2 of 9)	intron (NM_001037761, intron 2 of 9)	46435.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	6.5	12.0	5.0	118.0	5.5	0.5	0.0	7.0
Merged-chr6-40689383-4	chr6	40689291	40689491	+	893.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171003, intron 31 of 47)	intron (NM_001171003, intron 31 of 47)	60560.0	NM_001171003	232714.0	Mm.33401	NM_001171003	ENSMUSG00000068587	Mgam	6030407P20Rik|MGA	maltase-glucoamylase	protein-coding	15.5	16.0	16.0	299.5	28.5	12.0	9.0	8.5
Merged-chr10-128499505-2	chr10	128499418	128499618	+	816.125	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_172259)	promoter-TSS (NM_172259)	271.0	NR_131151	654440.0	Mm.441262	NR_131150	ENSMUSG00000097353	A430046D13Rik	-	Riken cDNA A430046D13 gene	ncRNA	6.5	14.5	13.0	154.0	27.5	14.0	11.5	18.5
Merged-chr15-58134588-3	chr15	58134501	58134701	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027435, intron 1 of 27)	CpG	481.0	NM_027435	70472.0	Mm.221758	NM_027435	ENSMUSG00000022360	Atad2	2610509G12Rik	ATPase family, AAA domain containing 2	protein-coding	18.0	20.0	35.5	295.0	57.5	26.5	27.0	43.5
Merged-chr9-70834807-4	chr9	70834718	70834918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	99990.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	78.5	166.0	85.5	1747.0	226.5	80.5	113.5	115.5
Merged-chr4-132768690-1	chr4	132768590	132768790	+	699.0	f0_balb.idr	exon (NM_011284, exon 2 of 9)	exon (NM_011284, exon 2 of 9)	330.0	NM_011284	19891.0	Mm.2870	NM_011284	ENSMUSG00000028884	Rpa2	AA409079|AI325195|AU020965|RPA34|Rf-A2	replication protein A2	protein-coding	12.0	7.5	16.5	48.5	15.5	6.0	5.5	9.0
Merged-chr11-3963838-7	chr11	3963676	3963876	+	984.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022889)	promoter-TSS (NM_022889)	-199.0	NM_022889	64934.0	Mm.28659	NM_022889	ENSMUSG00000020430	Pes1	-	pescadillo ribosomal biogenesis factor 1	protein-coding	14.0	13.0	14.5	148.0	36.0	16.0	22.5	27.0
Merged-chr10-59261755-4	chr10	59261623	59261823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	39801.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	69.5	166.0	31.0	394.5	166.5	89.5	61.0	32.5
Merged-chr14-121894685-4	chr14	121894569	121894769	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 1 of 8)	intron (NM_026861, intron 1 of 8)	-15261.0	NR_130999	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	22.5	27.5	19.5	409.5	96.0	28.5	20.0	26.5
Merged-chr5-16045575-3	chr5	16045476	16045676	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110843, intron 3 of 38)	intron (NM_001110843, intron 3 of 38)	110885.0	NM_001110844	12293.0	Mm.159842	NM_009784	ENSMUSG00000040118	Cacna2d1	Ca(v)alpha2delta1|Cacna2|Cchl2a	calcium channel, voltage-dependent, alpha2/delta subunit 1	protein-coding	11.5	6.0	13.5	179.0	9.5	2.5	7.0	2.5
Merged-chr10-80199663-4	chr10	80199543	80199743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	20161.0	NM_007909	13637.0	Mm.1478	NM_007909	ENSMUSG00000003070	Efna2	CEK7L|Elf1|Epl6|Eplg6|Lerk6	ephrin A2	protein-coding	24.5	32.0	13.5	335.5	66.0	23.5	34.5	25.0
Merged-chr7-4796167-4	chr7	4796046	4796246	+	851.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	3181.0	NM_009081	19943.0	Mm.379002	NM_009081	ENSMUSG00000030432	Rpl28	D7Wsu21e	ribosomal protein L28	protein-coding	11.0	19.0	14.0	122.0	33.5	14.0	9.5	6.5
Merged-chr15-73757323-2	chr15	73757223	73757423	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001166389, exon 6 of 6)	3' UTR (NM_001166389, exon 6 of 6)	9297.0	NM_008975	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	2.5	3.0	5.5	76.5	12.5	4.5	4.5	6.5
Merged-chr17-12029585-3	chr17	12029524	12029724	+	771.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016694, intron 10 of 11)	intron (NM_016694, intron 10 of 11)	-89660.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	2.0	7.0	7.0	87.0	22.0	7.5	6.0	9.5
Merged-chr9-53010919-3	chr9	53010807	53011007	+	923.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	237205.0	NM_029936	77591.0	Mm.133560	NM_029936	ENSMUSG00000053289	Ddx10	4632415A01Rik|AI646054	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	protein-coding	9.0	13.0	20.0	201.5	9.5	3.5	14.5	7.0
Merged-chr6-136519087-4	chr6	136518962	136519162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	CpG	211.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	78.0	115.0	78.0	951.5	216.0	81.5	73.5	87.0
Merged-chr19-55839327-3	chr19	55839244	55839444	+	700.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-55977.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	5.5	16.5	9.0	67.5	16.5	10.5	7.0	9.0
Merged-chr8-125053640-4	chr8	125053553	125053753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174853)	promoter-TSS (NM_174853)	-542.0	NM_174853	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	16.5	31.5	11.0	277.5	37.0	16.0	17.0	28.0
Merged-chr3-144628876-4	chr3	144628752	144628952	+	903.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58425.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	13.5	24.5	41.5	374.0	24.5	6.0	14.5	17.5
Merged-chr7-26243288-4	chr7	26243198	26243398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-23533.0	NM_001167540	100312477.0	Mm.480246	NM_001167540	ENSMUSG00000046130	Vmn1r184	-	vomeronasal 1 receptor, 184	protein-coding	32.0	43.0	38.5	261.0	55.5	24.5	20.5	23.0
Merged-chr8-69919211-4	chr8	69919116	69919316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 3 of 12)	intron (NM_001286450, intron 3 of 12)	-16658.0	NM_023312	67184.0	Mm.21162	NM_023312	ENSMUSG00000036199	Ndufa13	2700054G14Rik|AU022060|CDA016|CGI-39|GRIM-19|Grim19	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13	protein-coding	46.0	54.5	27.5	503.0	72.5	21.5	33.5	24.5
Merged-chr1-144314667-4	chr1	144314555	144314755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-65551.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	75.0	122.0	49.5	1251.5	151.0	67.5	54.5	38.5
Merged-chr13-18810198-4	chr13	18810100	18810300	+	907.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 7 of 28)	intron (NM_172120, intron 7 of 28)	92908.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	12.0	13.0	8.0	175.0	29.5	13.0	12.0	20.0
Merged-chr18-54991289-4	chr18	54991172	54991372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 1 of 8)	intron (NM_001360787, intron 1 of 8)	-1092.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	44.5	48.5	22.0	453.5	149.5	59.5	71.0	52.0
Merged-chr4-120935972-1	chr4	120935872	120936072	+	826.0	f0_balb.idr	intron (NM_001005788, intron 3 of 5)	intron (NM_001005788, intron 3 of 5)	-10967.0	NM_001160043	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	12.0	14.5	12.5	244.5	3.5	0.5	3.5	6.0
Merged-chr2-161177902-1	chr2	161177802	161178002	+	688.5	f0_balb.idr	Intergenic	Intergenic	-68816.0	NR_126509	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	6.0	10.5	6.5	101.0	11.0	3.0	9.0	11.0
Merged-chr11-121673280-4	chr11	121673206	121673406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178664)	promoter-TSS (NM_178664)	-155.0	NM_178664	210004.0	Mm.386847	NM_178664	ENSMUSG00000046605	B3gntl1	6030413G23Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1	protein-coding	306.0	474.5	277.5	3724.5	712.5	289.0	337.0	241.0
Merged-chr7-19149797-4	chr7	19149671	19149871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026111)	promoter-TSS (NM_026111)	-67.0	NM_026943	107686.0	Mm.29135	NM_026943	ENSMUSG00000040824	Snrpd2	1810009A06Rik|SMD2	small nuclear ribonucleoprotein D2	protein-coding	46.5	123.5	33.0	651.0	180.5	80.0	78.5	74.5
Merged-chr14-17714595-4	chr14	17714443	17714643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 1 of 9)	intron (NM_001113417, intron 1 of 9)	53583.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	18.0	35.0	26.0	392.5	49.0	6.5	13.0	16.0
Merged-chr6-114250462-4	chr6	114250341	114250541	+	691.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172890)	TTS (NM_172890)	-32194.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	10.0	16.0	9.0	73.5	25.5	7.5	9.0	8.5
Merged-chr7-133154129-4	chr7	133154045	133154245	+	883.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25894.0	NR_046279	74970.0	Mm.491044	NR_046279	ENSMUSG00000109816	4930483O08Rik	-	RIKEN cDNA 4930483O08 gene	ncRNA	11.0	8.5	16.0	260.0	29.0	8.0	8.5	17.0
Merged-chr5-21545484-4	chr5	21545389	21545589	+	883.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199632, intron 11 of 20)	intron (NM_001199632, intron 11 of 20)	1962.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	12.0	11.5	12.0	145.0	29.5	7.5	15.5	7.5
Merged-chr15-99702502-4	chr15	99702415	99702615	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031842, intron 1 of 12)	intron (NM_031842, intron 1 of 12)	228.0	NM_031842	83797.0	Mm.273756	NM_031842	ENSMUSG00000023018	Smarcd1	AA407987|Baf60a|D15Kz1	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1	protein-coding	19.0	23.0	15.0	224.0	28.0	17.0	17.5	14.5
Merged-chr6-38974045-4	chr6	38973945	38974145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	intron (NM_011539, intron 3 of 12)	55059.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	88.5	92.5	121.5	1398.0	126.5	44.5	58.0	116.5
Merged-chr7-116608594-4	chr7	116608506	116608706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	104237.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	48.5	91.5	32.0	694.5	122.5	60.5	42.5	47.5
Merged-chr11-114980353-2	chr11	114980254	114980454	+	570.0	f0_balb.idr|f1_balb.idr	Intergenic	RLTR44C|LTR|ERVK	9532.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	16.5	17.0	7.0	43.5	3.0	0.0	0.0	0.0
Merged-chr1-63130062-4	chr1	63129957	63130157	+	868.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045914, intron 1 of 3)	ERVB7_1-LTR_MM|LTR|ERVK	15317.0	NR_045914	100380944.0	Mm.392955	NR_045914	ENSMUSG00000084799	Ino80dos	Gm11602	INO80 complex subunit D, opposite strand	ncRNA	11.0	19.5	7.0	132.0	28.5	11.5	13.5	12.5
Merged-chr8-91343034-3	chr8	91342934	91343134	+	832.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 1 of 8)	intron (NM_011936, intron 1 of 8)	29509.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	3.0	7.5	7.0	70.5	41.5	11.0	16.0	15.0
Merged-chr1-105991352-5	chr1	105991300	105991500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001122676, exon 1 of 14)	exon (NM_001122676, exon 1 of 14)	994.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	23.5	52.0	76.5	532.5	77.5	35.0	47.5	63.5
Merged-chr15-50854602-4	chr15	50854495	50854695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	intron (NM_032000, intron 1 of 5)	34454.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	50.5	54.0	62.5	1110.0	100.0	34.5	48.0	23.0
Merged-chr6-113302438-4	chr6	113302345	113302545	+	906.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170673, intron 19 of 19)	intron (NM_170673, intron 19 of 19)	-4692.0	NM_030178	78783.0	Mm.356059	NM_030178	ENSMUSG00000001632	Brpf1	4833438B11Rik|4930540D11Rik|Brpf2	bromodomain and PHD finger containing, 1	protein-coding	12.0	26.5	4.5	194.5	45.0	9.5	13.0	9.5
Merged-chr14-122983849-2	chr14	122983749	122983949	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360598)	promoter-TSS (NM_001360598)	-566.0	NR_153663	70551.0	Mm.271988	NM_028651	ENSMUSG00000041594	Tmtc4	4930403J22Rik|5730419O14Rik	transmembrane and tetratricopeptide repeat containing 4	protein-coding	20.0	19.0	29.0	329.5	50.0	18.0	19.5	19.0
Merged-chr16-11133643-3	chr16	11133528	11133728	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029582, intron 1 of 11)	L2a|LINE|L2	904.0	NM_029582	106200.0	Mm.291015	NM_029582	ENSMUSG00000022498	Txndc11	2810408E11Rik|AI427833|EFP1|Txdc11	thioredoxin domain containing 11	protein-coding	4.5	6.5	6.5	126.0	10.0	10.0	6.5	10.0
Merged-chr6-70797965-4	chr6	70797857	70798057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5782.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	15.5	28.0	21.0	274.5	18.0	14.0	26.5	23.0
Merged-chr17-28952466-4	chr17	28952352	28952552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356299)	promoter-TSS (NM_001356299)	16.0	NM_001356299	66989.0	Mm.435	NM_025888	ENSMUSG00000005936	Kctd20	2410004N11Rik|AI451943|AW541186|D17Ertd562e	potassium channel tetramerisation domain containing 20	protein-coding	52.0	80.0	30.0	561.5	127.0	61.0	43.0	67.0
Merged-chr10-125390198-4	chr10	125390090	125390290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61227.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	80.5	95.0	76.0	1580.5	171.0	69.5	104.0	88.0
Merged-chr4-63541245-4	chr4	63541159	63541359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3506.0	NM_024173	66290.0	Mm.371615	NM_024173	ENSMUSG00000039105	Atp6v1g1	1810024D14Rik|AA960677|ATP6J|Atp6g1|VAG1|Vma10	ATPase, H+ transporting, lysosomal V1 subunit G1	protein-coding	38.0	67.0	40.0	691.5	68.5	27.5	32.5	33.5
Merged-chr6-17764506-4	chr6	17764396	17764596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	15326.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	79.0	154.5	71.0	1119.0	213.5	88.0	86.5	61.0
Merged-chr8-69206590-4	chr8	69206442	69206642	+	890.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2504.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	12.0	22.0	12.5	120.0	17.5	14.0	17.5	8.5
Merged-chr6-124809653-4	chr6	124809515	124809715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009415)	TTS (NM_009415)	697.0	NM_001306053	14794.0	Mm.261906	NM_013539	ENSMUSG00000038451	Spsb2	AI461677|C9|Grcc9|SSB2	splA/ryanodine receptor domain and SOCS box containing 2	protein-coding	36.5	72.5	24.5	644.5	132.5	59.5	57.5	69.0
Merged-chr18-69280565-3	chr18	69280465	69280665	+	837.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63927.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	5.0	6.0	10.0	142.5	14.5	0.0	5.0	4.5
Merged-chr8-71364351-4	chr8	71364325	71364525	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-2423.0	NM_001145780	67023.0	Mm.41890	NM_025917	ENSMUSG00000002395	Use1	2010315L10Rik|5730403H22Rik|AV002165|D12|Ed2|Q-snare|p31	unconventional SNARE in the ER 1 homolog (S. cerevisiae)	protein-coding	12.5	14.5	5.5	93.5	19.0	8.5	5.0	8.5
Merged-chr13-83585509-4	chr13	83585400	83585600	+	893.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347576, intron 2 of 10)	intron (NM_001347576, intron 2 of 10)	11893.0	NM_001347569	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	15.0	17.0	34.5	488.0	33.0	12.0	6.0	7.5
Merged-chr2-170351699-4	chr2	170351560	170351760	+	828.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029815, intron 11 of 12)	intron (NM_029815, intron 11 of 12)	-4701.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	4.5	14.0	5.5	82.5	40.5	15.0	4.5	4.5
Merged-chr4-47351694-4	chr4	47351607	47351807	+	865.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID2|SINE|ID	-1515.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	4.0	5.5	7.5	92.5	17.5	9.5	10.0	12.0
Merged-chr16-30416060-4	chr16	30415961	30416161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27531.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	52.0	90.0	55.5	620.0	147.0	51.5	38.0	33.0
Merged-chr1-40404788-4	chr1	40404671	40404871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24799.0	NM_001294171	17082.0	Mm.289824	NM_010743	ENSMUSG00000026069	Il1rl1	DER4|Fit-1|Ly84|ST2L|St2|St2-rs1|T1|T1/ST2	interleukin 1 receptor-like 1	protein-coding	31.5	41.0	56.5	943.0	77.0	27.5	38.0	15.0
Merged-chr8-80916669-3	chr8	80916554	80916754	+	998.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-36135.0	NM_001301298	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	17.0	31.0	14.5	214.0	22.5	3.5	14.5	4.5
Merged-chr6-13605463-3	chr6	13605373	13605573	+	903.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028990, intron 1 of 4)	intron (NM_028990, intron 1 of 4)	2625.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	9.0	16.0	11.0	137.5	15.0	4.0	3.0	7.5
Merged-chr3-106573384-4	chr3	106573278	106573478	+	967.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025582, intron 6 of 6)	intron (NM_001025582, intron 6 of 6)	-25576.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	24.5	17.5	63.5	391.0	87.5	13.5	18.0	20.5
Merged-chr2-26907361-4	chr2	26907295	26907495	+	868.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011513, exon 3 of 3)	3' UTR (NM_011513, exon 3 of 3)	3247.0	NM_011513	20933.0	Mm.397932	NM_011513	ENSMUSG00000015776	Med22	AW212655|AW558812|Surf-5|Surf5	mediator complex subunit 22	protein-coding	10.0	27.5	6.5	78.5	21.0	11.0	7.5	13.0
Merged-chr2-148468271-2	chr2	148468171	148468371	+	725.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24736.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	8.0	6.0	9.5	18.5	19.5	3.5	14.5	3.0
Merged-chr1-77761598-1	chr1	77761498	77761698	+	818.799988	f0_c57.idr	Intergenic	Intergenic	-246510.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	0.0	1.0	0.0	28.0	59.5	11.5	34.0	13.5
Merged-chr10-71344872-4	chr10	71344800	71345000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134007)	promoter-TSS (NM_134007)	-51.0	NM_134007	52637.0	Mm.254114	NM_134007	ENSMUSG00000037710	Cisd1	AU043990|AW743335|D10Ertd214e|Zcd1|mitoNEET	CDGSH iron sulfur domain 1	protein-coding	150.0	179.0	144.0	1872.5	324.5	121.0	152.5	153.0
Merged-chr4-41346630-4	chr4	41346503	41346703	+	974.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-2393.0	NM_001355509	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	19.5	14.5	11.0	169.0	34.0	14.5	9.0	18.5
Merged-chr1-74370098-4	chr1	74370017	74370217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033345)	TTS (NM_001033345)	-5086.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	29.5	37.5	37.0	341.5	95.5	40.0	38.5	30.5
Merged-chr11-120905625-4	chr11	120905516	120905716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 3 of 18)	intron (NM_027745, intron 3 of 18)	27256.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	23.5	34.5	21.5	223.5	38.5	24.0	30.0	19.5
Merged-chr11-79577940-4	chr11	79577841	79578041	+	843.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010897, intron 57 of 57)	intron (NM_010897, intron 57 of 57)	-13271.0	NM_175543	268451.0	Mm.130656	NM_175543	ENSMUSG00000017639	Rab11fip4	A730072L08Rik|RAB11-FIP4|mKIAA1821	RAB11 family interacting protein 4 (class II)	protein-coding	12.0	21.5	15.5	172.5	47.0	10.5	13.0	16.5
Merged-chr1-43224384-3	chr1	43224278	43224478	+	718.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27617.0	NM_001289533	14200.0	Mm.6799	NM_010212	ENSMUSG00000008136	Fhl2	FHL-2|SLIM-3|SLIM3	four and a half LIM domains 2	protein-coding	6.0	8.0	5.0	43.5	43.0	13.0	10.0	7.5
Merged-chr17-50571230-4	chr17	50571132	50571332	+	798.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	MTD|LTR|ERVL-MaLR	61685.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	6.5	15.0	7.5	145.5	51.5	9.0	12.0	10.5
Merged-chr10-117845311-4	chr10	117845223	117845423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	651.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	114.0	237.0	182.5	1947.5	431.0	155.5	173.5	147.5
Merged-chr12-111912515-4	chr12	111912412	111912612	+	939.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4457.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	18.5	26.0	18.0	304.5	55.5	10.5	21.0	14.5
Merged-chr8-90961781-4	chr8	90961667	90961867	+	831.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 4 of 39)	intron (NM_177224, intron 4 of 39)	29518.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	23.0	20.0	19.5	389.0	31.0	20.5	11.0	9.0
Merged-chr1-157446541-4	chr1	157446436	157446636	+	883.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12032.0	NM_001356418	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	11.0	12.5	9.5	268.5	22.5	8.5	31.0	23.5
Merged-chr16-43363897-1	chr16	43363797	43363997	+	809.0	f0_c57.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	56299.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	7.0	12.0	7.0	76.5	20.0	12.5	14.5	9.5
Merged-chr12-111693463-4	chr12	111693426	111693626	+	777.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15421.0	NM_177374	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	7.0	16.5	3.0	37.0	21.0	5.5	6.0	14.0
Merged-chr4-10976816-1	chr4	10976716	10976916	+	553.0	f0_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	30803.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	5.5	8.0	8.0	123.5	10.0	4.5	7.5	9.5
Merged-chr4-121009979-4	chr4	121009892	121010092	+	915.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	L2a|LINE|L2	7255.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	14.5	17.0	13.5	213.5	31.0	6.0	11.5	25.0
Merged-chr5-125074698-4	chr5	125074602	125074802	+	900.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 14 of 46)	intron (NM_011424, intron 14 of 46)	71227.0	NM_028443	73121.0	Mm.296138	NM_028443	ENSMUSG00000037962	Rflna	3110032G18Rik|Fam101a|cfm|cfm2	refilin A	protein-coding	15.5	25.5	12.5	463.0	31.0	7.5	14.5	15.0
Merged-chr9-35541660-4	chr9	35541556	35541756	+	967.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013932)	TTS (NM_013932)	16814.0	NM_013932	30959.0	Mm.291723	NM_013932	ENSMUSG00000032101	Ddx25	AW047046|GRTH	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	protein-coding	29.0	49.5	25.5	609.0	56.5	16.0	20.5	15.5
Merged-chr2-30196885-4	chr2	30196829	30197029	+	720.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356475, intron 1 of 13)	intron (NM_001356475, intron 1 of 13)	8918.0	NM_001356475	70266.0	Mm.216089	NM_172404	ENSMUSG00000039648	Kyat1	2010009K05Rik|AI182306|Ccbl1|Gtk|Kat1|KatI	kynurenine aminotransferase 1	protein-coding	6.5	13.5	5.0	63.0	11.5	6.5	10.5	10.0
Merged-chr6-120467190-4	chr6	120467101	120467301	+	930.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	intron (NM_008359, intron 1 of 12)	4004.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	12.5	19.0	16.0	272.0	26.5	12.0	15.5	14.0
Merged-chr2-52943878-4	chr2	52943786	52943986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	86018.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	58.0	137.0	60.0	761.5	171.0	62.0	59.5	37.5
Merged-chr16-38456803-4	chr16	38456739	38456939	+	899.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2094.0	NM_001359898	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	8.5	11.0	25.5	288.0	41.5	13.0	14.5	12.0
Merged-chr19-34196778-4	chr19	34196671	34196871	+	901.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	3837.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	25.5	19.5	13.0	219.5	32.5	23.0	3.0	12.0
Merged-chr2-91710465-4	chr2	91710360	91710560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178724)	promoter-TSS (NM_178724)	132.0	NM_145528	51897.0	Mm.28492	NM_145528	ENSMUSG00000027244	Atg13	1110053A20Rik|D2Ertd391e|Harbi1	autophagy related 13	protein-coding	41.0	69.5	67.0	775.5	132.5	43.0	51.0	40.0
Merged-chr1-171610215-3	chr1	171610111	171610311	+	824.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2801.0	NM_001277968	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	5.0	8.5	5.5	31.0	24.0	5.0	5.5	15.0
Merged-chr2-164856893-2	chr2	164856793	164856993	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_011125, exon 2 of 16)	exon (NM_011125, exon 2 of 16)	815.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	3.5	8.5	8.0	79.0	11.0	9.0	5.5	11.5
Merged-chr18-36515822-4	chr18	36515720	36515920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010415)	promoter-TSS (NM_010415)	-15.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	114.5	198.5	142.0	1999.5	306.5	124.0	127.5	105.5
Merged-chr3-135689148-4	chr3	135689022	135689222	+	867.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 1 of 24)	intron (NM_008689, intron 1 of 24)	2425.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	3.5	12.5	13.5	68.5	32.5	11.0	10.0	10.5
Merged-chr9-43303194-4	chr9	43303110	43303310	+	966.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-7553.0	NM_023655	72169.0	Mm.273277	NM_023655	ENSMUSG00000032013	Trim29	1110047J21Rik|2810431N19Rik|4732461M22Rik|AI119726	tripartite motif-containing 29	protein-coding	24.0	54.5	21.5	608.0	27.0	29.0	22.0	30.0
Merged-chr11-106980654-2	chr11	106980558	106980758	+	839.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18867.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	6.0	12.5	4.0	75.5	21.0	11.0	14.0	5.5
Merged-chr2-167860711-4	chr2	167860622	167860822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71605.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	104.0	55.0	86.5	1754.5	104.0	35.5	84.5	64.0
Merged-chr1-152634536-2	chr1	152634436	152634636	+	589.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346118, intron 2 of 18)	intron (NM_001346118, intron 2 of 18)	-9319.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	7.0	7.0	9.5	62.5	19.5	4.5	8.0	2.0
Merged-chr7-55918496-4	chr7	55918417	55918617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 23 of 30)	intron (NM_011370, intron 23 of 30)	43976.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	84.0	117.5	72.5	1390.5	322.5	124.0	154.5	122.0
Merged-chr2-24934838-2	chr2	24934715	24934915	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_178408, intron 1 of 7)	CpG	466.0	NR_027876	215705.0	Mm.45275	NM_178408	ENSMUSG00000026972	Arrdc1	AI957342|BC004091	arrestin domain containing 1	protein-coding	25.0	22.5	20.0	269.5	61.5	15.0	25.0	25.5
Merged-chr16-36936981-2	chr16	36936881	36937081	+	862.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_008225, intron 1 of 13)	intron (NM_008225, intron 1 of 13)	1998.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	9.5	7.0	7.0	25.5	22.5	1.0	6.5	5.5
Merged-chr11-20915269-4	chr11	20915150	20915350	+	927.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84142.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	16.0	27.5	11.0	385.5	33.0	15.5	25.0	17.5
Merged-chr15-54929626-4	chr15	54929490	54929690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9444.0	NM_001285994	18606.0	Mm.250256	NM_015744	ENSMUSG00000022425	Enpp2	ATX|E-NPP 2|Npps2|PD-Ialpha|Pdnp2|lysoPLD	ectonucleotide pyrophosphatase/phosphodiesterase 2	protein-coding	213.0	255.0	242.5	2807.0	470.5	169.5	267.0	207.0
Merged-chr12-70910427-4	chr12	70910321	70910521	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27436.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	21.5	32.5	9.5	354.0	49.5	23.5	29.5	24.0
Merged-chr6-39508228-3	chr6	39508167	39508367	+	896.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172477, exon 3 of 19)	exon (NM_172477, exon 3 of 19)	49567.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	12.5	15.0	18.5	491.5	18.5	9.0	7.0	13.5
Merged-chr15-103307358-4	chr15	103307255	103307455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030720)	TTS (NM_030720)	3083.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	32.5	53.0	29.5	363.0	114.0	52.5	30.5	49.0
Merged-chr5-28259604-4	chr5	28259517	28259717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-13829.0	NM_001310512	269637.0	Mm.68286	NM_175651	ENSMUSG00000044681	Cnpy1	1500012D20Rik|9630008K15Rik|AI853839	canopy FGF signaling regulator 1	protein-coding	28.5	54.5	34.5	440.0	130.5	31.5	46.5	35.0
Merged-chr13-47224075-4	chr13	47224045	47224245	+	976.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	intron (NM_146042, intron 3 of 7)	30142.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	26.5	39.5	16.0	131.0	114.5	40.5	15.0	11.0
Merged-chr9-44652185-4	chr9	44652081	44652281	+	948.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21052.0	NM_001277851	58866.0	Mm.45380	NM_021481	ENSMUSG00000032098	Treh	2210412M19Rik	trehalase (brush-border membrane glycoprotein)	protein-coding	33.5	39.0	13.0	311.0	60.0	11.5	38.0	23.5
Merged-chr6-88902287-4	chr6	88902179	88902379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011906)	promoter-TSS (NM_011906)	28.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	221.0	333.0	187.5	2584.5	491.0	246.5	166.5	182.5
Merged-chr10-44459468-4	chr10	44459452	44459652	+	973.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007548)	promoter-TSS (NM_007548)	-804.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	19.5	10.5	26.0	433.5	23.0	9.0	11.0	19.0
Merged-chr6-57749312-3	chr6	57749274	57749474	+	809.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2-int|LTR|ERVL-MaLR	46919.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	7.5	10.5	3.0	76.0	22.0	14.0	7.5	4.5
Merged-chr11-5065285-4	chr11	5065183	5065383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190406)	promoter-TSS (NM_001190406)	44.0	NM_144560	78926.0	Mm.44591	NM_030228	ENSMUSG00000034201	Gas2l1	4930500E24Rik|D0Jmb1|Gar22|TU-71.1	growth arrest-specific 2 like 1	protein-coding	37.5	41.0	53.5	812.5	61.5	34.0	56.0	55.5
Merged-chr10-127070359-4	chr10	127070261	127070461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025982)	promoter-TSS (NM_025982)	-100.0	NM_025982	67125.0	Mm.35650	NM_025982	ENSMUSG00000006736	Tspan31	2700085A14Rik|AW742554|Sas	tetraspanin 31	protein-coding	82.5	118.0	61.0	1015.5	188.0	71.5	81.5	51.5
Merged-chr2-24335494-4	chr2	24335383	24335583	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1377.0	NM_031167	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	28.0	84.0	37.0	212.5	100.5	37.5	47.0	18.0
Merged-chr12-72084735-1	chr12	72084635	72084835	+	772.0	f0_balb.idr	exon (NM_026038, exon 1 of 5)	exon (NM_026038, exon 1 of 5)	578.0	NM_026038	67217.0	Mm.286120	NM_026038	ENSMUSG00000019718	L3hypdh	2810055F11Rik	L-3-hydroxyproline dehydratase (trans-)	protein-coding	15.5	7.5	19.5	126.0	41.0	7.5	11.0	20.0
Merged-chr1-59953062-4	chr1	59952963	59953163	+	738.545837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037725, intron 3 of 7)	intron (NM_001037725, intron 3 of 7)	40057.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	14.0	15.0	40.0	346.5	21.0	13.5	15.0	20.5
Merged-chr5-64506370-3	chr5	64506281	64506481	+	869.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29373.0	NR_045413	77382.0	Mm.366742	NR_045411	ENSMUSG00000105352	C030018K13Rik	-	RIKEN cDNA C030018K13 gene	ncRNA	10.5	12.5	4.0	73.0	26.5	10.0	15.5	13.0
Merged-chr9-75625758-3	chr9	75625685	75625885	+	830.755554	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027309)	promoter-TSS (NM_027309)	53.0	NM_027309	70082.0	Mm.19119	NM_027309	ENSMUSG00000032184	Lysmd2	2210402C18Rik|AV033872|AW538442	LysM, putative peptidoglycan-binding, domain containing 2	protein-coding	4.0	6.0	8.5	67.5	28.0	21.5	15.5	37.0
Merged-chr10-80245067-4	chr10	80244947	80245147	+	926.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023431)	TTS (NM_023431)	-4405.0	NM_029272	75406.0	Mm.28712	NM_029272	ENSMUSG00000020153	Ndufs7	1010001M04Rik	NADH dehydrogenase (ubiquinone) Fe-S protein 7	protein-coding	7.5	23.5	14.0	186.0	47.5	12.5	23.5	19.5
Merged-chr5-32690110-3	chr5	32690006	32690206	+	794.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56236.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	7.0	6.0	2.0	67.0	28.5	5.5	16.0	6.0
Merged-chr1-180428020-5	chr1	180427969	180428169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55435.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	58.5	50.5	39.5	284.0	83.0	38.5	30.5	38.0
Merged-chr19-14669097-2	chr19	14668997	14669197	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70914.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	6.5	7.5	7.5	101.0	26.0	5.5	5.5	12.5
Merged-chr19-18608113-3	chr19	18608009	18608209	+	917.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	23704.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	6.0	12.5	6.5	136.0	10.5	4.0	6.0	0.5
Merged-chr16-91737067-4	chr16	91737008	91737208	+	924.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	7737.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	10.5	14.0	15.5	424.0	34.0	16.0	13.0	16.5
Merged-chr2-72351533-4	chr2	72351457	72351657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 2 of 19)	intron (NM_023057, intron 2 of 19)	65856.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	36.0	52.5	25.0	469.5	87.0	26.0	35.5	37.0
Merged-chr6-97396778-4	chr6	97396674	97396874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	intron (NM_145148, intron 5 of 23)	62512.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	68.5	100.0	83.5	1193.0	141.0	73.0	95.0	71.0
Merged-chr18-38227888-4	chr18	38227814	38228014	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3Cz|LINE|L1	-18152.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	22.0	17.0	25.0	321.5	42.0	10.5	18.0	7.0
Merged-chr10-8362301-4	chr10	8362205	8362405	+	912.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 2 of 7)	intron (NM_177387, intron 2 of 7)	156520.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	11.0	51.5	24.0	73.0	74.0	28.0	28.5	17.5
Merged-chr2-103969298-8	chr2	103969169	103969369	+	934.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142336)	promoter-TSS (NM_001142336)	-288.0	NM_001142336	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	13.0	9.0	3.5	38.0	15.5	9.0	6.0	7.0
Merged-chr12-34547265-4	chr12	34547160	34547360	+	862.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	L1M5|LINE|L1	-18371.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	8.5	13.0	15.0	185.0	38.5	16.5	15.5	12.0
Merged-chr13-37777585-4	chr13	37777487	37777687	+	816.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48451.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	9.0	5.5	12.5	81.5	18.5	2.5	7.5	10.5
Merged-chr11-102230202-4	chr11	102230085	102230285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284250)	promoter-TSS (NM_001284250)	-13.0	NM_001284250	15184.0	Mm.22665	NM_010412	ENSMUSG00000008855	Hdac5	AI426555|Hdac4|mHDA1|mKIAA0600	histone deacetylase 5	protein-coding	77.5	87.5	46.0	688.5	196.5	80.0	48.0	93.5
Merged-chr2-52424407-4	chr2	52424287	52424487	+	955.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182994, intron 1 of 5)	CpG	487.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	15.0	14.0	16.0	167.0	35.0	7.5	12.5	19.0
Merged-chr4-127168507-3	chr4	127168417	127168617	+	858.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198618)	promoter-TSS (NM_198618)	-687.0	NM_198618	242667.0	Mm.331885	NM_198618	ENSMUSG00000042388	Dlgap3	BC058433|DAP-3|DAP3|Prpl8|Sapap3	DLG associated protein 3	protein-coding	9.0	15.0	15.0	62.5	10.5	5.5	4.0	10.5
Merged-chr4-59189338-4	chr4	59189187	59189387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011673)	promoter-TSS (NM_011673)	-263.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	33.0	61.0	82.5	552.5	86.5	40.5	45.0	43.0
Merged-chr11-69418990-4	chr11	69418878	69419078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5303.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	270.0	413.5	294.5	3427.0	752.0	293.5	345.0	299.5
Merged-chr1-172412449-4	chr1	172412317	172412517	+	737.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35886.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	10.5	8.0	2.0	117.0	24.5	5.0	7.0	14.0
Merged-chr17-8051376-4	chr17	8051263	8051463	+	802.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033442, intron 2 of 3).2	intron (NM_001033442, intron 2 of 3).2	49865.0	NM_001033442	381059.0	Mm.490353	NM_001033442	ENSMUSG00000095720	Gm1604b	Gm1604	predicted gene 1604b	protein-coding	13.5	14.0	8.0	176.5	15.5	4.0	5.0	7.0
Merged-chr3-69127762-4	chr3	69127659	69127859	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008467)	promoter-TSS (NM_008467)	-667.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	17.5	15.0	11.5	140.5	27.0	16.5	12.0	19.5
Merged-chr3-30864853-4	chr3	30864763	30864963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286994, intron 1 of 3)	intron (NM_001286994, intron 1 of 3)	8913.0	NM_001286994	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	156.0	191.5	163.0	2727.0	278.0	92.0	139.0	140.0
Merged-chr13-20187875-4	chr13	20187760	20187960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 2 of 21)	intron (NM_080288, intron 2 of 21)	97353.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	20.0	61.5	39.5	437.5	73.0	28.5	33.5	18.5
Merged-chr3-27692402-4	chr3	27692284	27692484	+	934.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 1 of 26)	intron (NM_001356953, intron 1 of 26)	18068.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	9.0	21.5	12.5	233.5	26.0	5.0	17.0	14.0
Merged-chr4-95180597-3	chr4	95180496	95180696	+	897.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-128374.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	21.5	9.5	9.5	171.0	26.5	7.0	10.5	9.5
Merged-chr5-45534494-2	chr5	45534394	45534594	+	772.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_021416, intron 12 of 15)	intron (NM_021416, intron 12 of 15)	14265.0	NM_025895	66999.0	Mm.283045	NM_025895	ENSMUSG00000015804	Med28	1500003D12Rik|AI451633|AU045690|Eg1|FKSG20|magicin	mediator complex subunit 28	protein-coding	0.5	4.5	7.5	67.5	12.0	7.0	8.0	4.5
Merged-chr16-91021264-4	chr16	91021174	91021374	+	951.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152264, intron 15 of 17)	intron (NR_152264, intron 15 of 17)	-9966.0	NM_001164483	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	23.5	27.5	21.0	469.0	42.5	13.0	25.0	13.0
Merged-chr2-11426884-4	chr2	11426778	11426978	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-28378.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	20.0	46.5	44.0	669.0	40.0	21.5	29.0	17.0
Merged-chr3-65188026-4	chr3	65187916	65188116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289450)	promoter-TSS (NM_001289450)	-87.0	NM_001289450	16497.0	Mm.316402	NM_010597	ENSMUSG00000027827	Kcnab1	Akr8a8|Kvbeta1.1|mKv(beta)1	potassium voltage-gated channel, shaker-related subfamily, beta member 1	protein-coding	46.5	23.0	30.0	435.5	57.5	20.0	26.5	31.0
Merged-chr11-9535048-4	chr11	9534982	9535182	+	998.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 47 of 61)	intron (NM_178259, intron 47 of 61)	343140.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	19.5	17.5	17.5	372.0	26.5	14.0	13.0	11.0
Merged-chr2-129431520-3	chr2	129431412	129431612	+	785.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60373.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	11.5	6.5	7.5	148.0	35.0	5.5	2.5	4.0
Merged-chr18-38248034-2	chr18	38247934	38248134	+	692.166626	f1_balb.idr|f1_c57bl6.idr	intron (NR_015475, intron 1 of 3)	L2c|LINE|L2	2164.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	10.0	6.0	5.0	48.0	12.0	6.5	5.5	7.0
Merged-chr2-80045143-4	chr2	80045050	80045250	+	945.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	-6248.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	18.0	12.5	23.5	257.5	20.0	15.5	16.0	22.5
Merged-chr6-17281727-4	chr6	17281593	17281793	+	947.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016900, intron 1 of 2)	intron (NM_016900, intron 1 of 2)	508.0	NM_016900	12390.0	Mm.396075	NM_016900	ENSMUSG00000000058	Cav2	AI447843	caveolin 2	protein-coding	18.5	14.0	16.0	208.0	27.0	10.0	8.0	18.5
Merged-chr4-126131499-2	chr4	126131399	126131599	+	803.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 6 of 10)	intron (NM_028800, intron 6 of 10)	-16504.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	5.0	11.0	7.0	95.5	10.5	7.0	4.0	12.0
Merged-chr18-15150318-2	chr18	15150218	15150418	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_134112, intron 1 of 4)	CpG	1128.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	1.0	5.5	4.5	98.0	5.5	5.0	7.5	7.0
Merged-chr1-66816558-1	chr1	66816458	66816658	+	1000.0	f0_c57.idr	intron (NM_001357156, intron 1 of 14)	CpG	1037.0	NM_177645	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	11.0	12.0	15.5	110.5	49.0	20.5	14.0	28.5
Merged-chr1-171503500-4	chr1	171503403	171503603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019484)	promoter-TSS (NM_019484)	25.0	NM_019484	56009.0	Mm.389208	NM_019484	ENSMUSG00000060244	Alyref2	C130042O11Rik|REF2|Refbp2	Aly/REF export factor 2	protein-coding	62.0	121.0	56.0	853.0	181.0	78.5	75.5	60.5
Merged-chr1-156558716-4	chr1	156558620	156558820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009595)	promoter-TSS (NM_009595)	-67.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	86.0	99.5	41.0	1049.0	245.0	71.0	123.5	84.0
Merged-chr9-124126596-4	chr9	124126512	124126712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009917, exon 2 of 2)	3' UTR (NM_009917, exon 2 of 2)	5069.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	31.5	27.0	25.0	447.5	68.0	21.5	26.5	32.5
Merged-chr17-56303250-4	chr17	56303126	56303326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010931)	promoter-TSS (NM_010931)	-111.0	NM_010931	18140.0	Mm.42196	NM_010931	ENSMUSG00000001228	Uhrf1	AL022808|ICBP90|Np95|RNF106	ubiquitin-like, containing PHD and RING finger domains, 1	protein-coding	63.5	126.0	35.0	556.0	211.0	79.0	67.0	25.5
Merged-chr7-78846520-3	chr7	78846439	78846639	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029585, intron 1 of 4)	intron (NM_029585, intron 1 of 4)	672.0	NM_029585	76375.0	Mm.250541	NM_029585	ENSMUSG00000030610	Det1	2610034H20Rik	de-etiolated homolog 1 (Arabidopsis)	protein-coding	17.0	1.5	11.5	139.5	17.0	6.5	5.5	8.5
Merged-chr6-54866946-4	chr6	54866852	54867052	+	821.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199143, intron 2 of 4)	intron (NM_199143, intron 2 of 4)	50036.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	10.0	25.0	17.5	72.0	24.5	6.5	2.0	10.5
Merged-chr4-56055275-4	chr4	56055175	56055375	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-522800.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	22.5	17.0	23.0	380.5	76.0	12.5	27.0	21.5
Merged-chr17-70996176-3	chr17	70996067	70996267	+	818.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357820, exon 3 of 4)	exon (NM_001357820, exon 3 of 4)	1845.0	NM_001357820	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	12.5	20.5	16.0	117.5	1.5	0.0	1.0	4.0
Merged-chr1-162547211-4	chr1	162547128	162547328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144877, intron 1 of 7)	intron (NM_144877, intron 1 of 7)	1117.0	NM_144877	71449.0	Mm.270569	NM_144877	ENSMUSG00000026694	Mettl13	5630401D24Rik	methyltransferase like 13	protein-coding	29.0	30.5	59.0	718.5	85.5	34.0	45.5	41.5
Merged-chr14-45179809-4	chr14	45179703	45179903	+	919.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310534, intron 7 of 20)	intron (NM_001310534, intron 7 of 20)	39622.0	NM_172597	70561.0	Mm.28129	NM_172597	ENSMUSG00000021830	Txndc16	5730420B22Rik|C77647	thioredoxin domain containing 16	protein-coding	26.5	18.0	24.0	663.0	35.0	10.0	12.0	19.0
Merged-chr14-77878531-1	chr14	77878431	77878631	+	681.5	f1_c57bl6.idr	Intergenic	Intergenic	-3614.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	1.5	0.0	0.0	20.5	21.0	9.0	5.0	18.5
Merged-chr9-35634048-4	chr9	35633960	35634160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14142.0	NM_001167592	100312956.0	Mm.475850	NM_001167592	ENSMUSG00000094995	Pate3	Gm17365|Pate-dj	prostate and testis expressed 3	protein-coding	30.5	30.5	26.5	466.5	163.0	45.5	64.5	47.5
Merged-chr5-77373011-4	chr5	77372911	77373111	+	939.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008048, intron 1 of 4)	intron (NM_008048, intron 1 of 4)	35034.0	NM_001159518	29817.0	Mm.233470	NM_008048	ENSMUSG00000036256	Igfbp7	AGM|Fstl2|Mac25	insulin-like growth factor binding protein 7	protein-coding	20.5	75.0	31.5	431.5	35.5	9.0	11.5	17.5
Merged-chr2-167815316-4	chr2	167815158	167815358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117069.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	99.0	109.5	86.0	955.0	205.0	67.0	102.0	76.0
Merged-chr16-36670495-2	chr16	36670395	36670595	+	836.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-4418.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	6.0	4.5	5.0	50.0	10.5	5.0	10.0	7.5
Merged-chr1-176797454-3	chr1	176797355	176797555	+	938.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099637, intron 1 of 19)	intron (NM_001099637, intron 1 of 19)	9669.0	NM_001099637	545389.0	Mm.269991	NM_001024722	ENSMUSG00000057335	Cep170	4933426L22Rik|A330004A13Rik|AI195353	centrosomal protein 170	protein-coding	15.5	5.0	6.5	269.5	16.0	11.0	12.0	22.5
Merged-chr11-114998148-3	chr11	114998019	114998219	+	766.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134158, intron 3 of 3)	intron (NM_134158, intron 3 of 3)	3761.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	6.0	9.5	5.0	73.0	13.0	3.5	3.5	3.0
Merged-chr1-74241048-1	chr1	74240948	74241148	+	1000.0	f0_balb.idr	intron (NM_001357387, intron 2 of 10)	intron (NM_001357387, intron 2 of 10)	4531.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	5.0	6.5	13.0	212.0	12.0	4.5	4.0	8.5
Merged-chr4-136469781-4	chr4	136469685	136469885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024452)	promoter-TSS (NM_024452)	24.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	65.0	94.0	46.5	704.0	128.0	37.0	41.5	54.5
Merged-chr10-27369970-2	chr10	27369860	27370060	+	812.150024	f0_balb.idr|f1_balb.idr	intron (NM_008481, intron 4 of 63)	Lx8b|LINE|L1	-19906.0	NR_131034	75855.0	Mm.402080	NR_131034	ENSMUSG00000101636	4930579H20Rik	-	RIKEN cDNA 4930579H20 gene	ncRNA	18.0	13.5	10.5	362.0	1.5	0.0	0.0	1.0
Merged-chr5-148399357-4	chr5	148399255	148399455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007513, intron 1 of 12)	CpG	549.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	37.0	57.0	35.0	563.0	85.5	38.5	59.0	35.0
Merged-chr15-59705820-4	chr15	59705742	59705942	+	929.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57188.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	13.0	17.5	14.5	235.5	41.5	14.0	15.0	20.0
Merged-chr11-69411317-4	chr11	69411224	69411424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 1 of 22)	CpG	2351.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	47.0	81.5	36.0	656.0	161.5	61.0	61.5	56.5
Merged-chr1-183266275-4	chr1	183266162	183266362	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-30798.0	NM_181732	108909.0	Mm.290502	NM_145626	ENSMUSG00000042901	Aida	2610208M17Rik|BC004835	axin interactor, dorsalization associated	protein-coding	13.0	39.0	55.0	374.5	77.0	19.5	32.0	28.5
Merged-chr4-88415268-4	chr4	88415165	88415365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025760, intron 6 of 6)	L1MA6|LINE|L1	23661.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	52.0	64.0	50.5	1106.0	112.5	29.0	59.5	40.0
Merged-chr15-73472925-2	chr15	73472825	73473025	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39635.0	NR_152151	105841.0	Mm.322557	NM_001081066	ENSMUSG00000036661	Dennd3	AI447457|E030003N15Rik	DENN/MADD domain containing 3	protein-coding	1.0	6.0	4.5	44.0	15.5	9.0	9.5	6.0
Merged-chr1-34602586-3	chr1	34602465	34602665	+	633.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22872.0	NM_213727	211383.0	Mm.330696	NM_213727	ENSMUSG00000045174	Amer3	9430069J07Rik|Fam123c	APC membrane recruitment 3	protein-coding	4.0	3.0	5.5	67.5	27.5	14.0	14.5	5.0
Merged-chr9-116099816-2	chr9	116099703	116099903	+	806.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	75560.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	2.5	1.0	2.5	51.5	7.5	7.5	4.5	5.0
Merged-chr4-9612035-4	chr4	9611936	9612136	+	960.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 3 of 22)	intron (NM_001290367, intron 3 of 22)	31681.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	17.0	21.5	17.0	486.5	56.0	11.0	40.0	16.5
Merged-chr6-38939937-4	chr6	38939838	38940038	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	RLTR17B_Mm|LTR|ERVK	20952.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	14.0	23.0	6.5	153.0	35.0	5.5	7.5	13.0
Merged-chr13-99029054-4	chr13	99028954	99029154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44489.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	25.0	31.5	30.5	588.0	46.5	17.0	29.0	35.5
Merged-chr9-56506125-4	chr9	56506039	56506239	+	971.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87520.0	NM_025812	66867.0	Mm.150856	NM_025812	ENSMUSG00000032329	Hmg20a	1200004E06Rik|5730490E10Rik|Hmgxb1|Ibraf	high mobility group 20A	protein-coding	14.0	32.5	9.0	173.5	49.0	15.0	18.5	18.0
Merged-chr1-86487548-4	chr1	86487417	86487617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-39040.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	180.0	278.0	157.0	1795.0	450.5	246.5	204.0	156.0
Merged-chr7-29297236-4	chr7	29297141	29297341	+	764.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6764.0	NM_013874	29861.0	Mm.101885	NM_013874	ENSMUSG00000030584	Dpf1	Neud4	D4, zinc and double PHD fingers family 1	protein-coding	14.0	13.5	5.5	130.0	49.5	9.0	17.0	11.0
Merged-chr2-27512588-2	chr2	27512488	27512688	+	879.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C1|LTR|ERVK	-2559.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	6.5	5.0	7.5	36.5	14.0	4.5	9.5	3.5
Merged-chr11-95666877-4	chr11	95666788	95666988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008831)	promoter-TSS (NM_008831)	-69.0	NM_008831	18673.0	Mm.263862	NM_008831	ENSMUSG00000038845	Phb	Bap32	prohibitin	protein-coding	126.0	183.5	66.5	1152.5	336.0	125.5	98.5	131.5
Merged-chr18-9392797-4	chr18	9392694	9392894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026484, intron 1 of 9)	intron (NM_026484, intron 1 of 9)	57360.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	39.5	28.0	25.0	692.5	102.5	26.5	26.0	23.5
Merged-chr14-118132798-4	chr14	118132688	118132888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029578)	promoter-TSS (NM_029578)	-23.0	NM_029578	76355.0	Mm.251537	NM_029578	ENSMUSG00000022130	Tgds	2610017J16Rik|2610025M23Rik|AI648925	TDP-glucose 4,6-dehydratase	protein-coding	77.5	119.5	77.5	1284.5	234.0	88.5	96.5	73.0
Merged-chr2-91476819-4	chr2	91476737	91476937	+	897.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 10 of 37)	MIRb|SINE|MIR	19306.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	19.5	25.5	14.0	285.0	23.5	8.5	11.5	17.5
Merged-chr1-127135501-3	chr1	127135423	127135623	+	937.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69463.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	14.0	16.5	19.5	316.5	11.5	4.5	11.5	10.0
Merged-chr13-34332918-4	chr13	34332840	34333040	+	943.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 1 of 10)	intron (NM_001033167, intron 1 of 10)	12242.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	19.5	23.5	25.5	464.0	33.5	13.0	15.0	23.5
Merged-chr2-120099111-4	chr2	120099006	120099206	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 4 of 5)	intron (NM_133838, intron 4 of 5)	55469.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	21.5	29.5	27.5	718.5	71.5	22.0	15.5	30.5
Merged-chr8-35496146-3	chr8	35496090	35496290	+	795.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026067)	promoter-TSS (NM_026067)	-657.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	8.0	16.0	14.5	102.0	10.0	8.0	5.5	3.5
Merged-chr11-32267658-4	chr11	32267563	32267763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104306)	promoter-TSS (NR_104306)	44.0	NM_181569	17168.0	Mm.263161	NM_181569	ENSMUSG00000020289	Nprl3	Aag|CGTHBA|HS-26|HS-40|Mare|Phg|Prox1|m(alpha)RE	nitrogen permease regulator-like 3	protein-coding	168.5	202.5	120.5	2711.0	274.5	121.5	176.5	169.0
Merged-chr19-16436129-3	chr19	16436007	16436207	+	899.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008137, exon 1 of 7)	5' UTR (NM_008137, exon 1 of 7)	440.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	5.0	9.5	11.0	57.5	11.0	4.0	7.0	6.0
Merged-chr15-8342067-3	chr15	8341939	8342139	+	727.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 11 of 45)	intron (NM_201232, intron 11 of 45)	102424.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	6.5	7.5	6.0	26.5	9.0	4.0	2.5	2.5
Merged-chr19-32832334-3	chr19	32832251	32832451	+	663.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74774.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	12.0	10.0	6.0	31.0	25.5	2.5	9.0	8.5
Merged-chr11-19926129-4	chr11	19926044	19926244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	1702.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	74.0	96.0	91.0	773.0	105.0	57.5	37.5	75.5
Merged-chr16-10897530-4	chr16	10897395	10897595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17302.0	NR_131135	545180.0	Mm.373756	NR_131135	ENSMUSG00000095369	Gm21859	-	predicted gene, 21859	ncRNA	29.0	66.0	77.0	716.5	78.0	32.0	69.5	60.0
Merged-chr7-67380339-4	chr7	67380253	67380453	+	891.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7495.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	24.5	24.0	8.5	260.5	28.0	20.5	17.5	11.0
Merged-chr8-84975003-4	chr8	84974905	84975105	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011563)	TTS (NM_011563)	3743.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	34.0	47.0	29.0	474.0	64.5	15.5	31.0	27.5
Merged-chr15-103324155-4	chr15	103324062	103324262	+	973.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356627, intron 2 of 7)	intron (NM_001356627, intron 2 of 7)	10176.0	NM_001356627	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	24.5	23.5	22.0	164.5	41.5	13.0	18.5	19.0
Merged-chr11-22982246-4	chr11	22982120	22982320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144514)	promoter-TSS (NM_144514)	64.0	NM_144514	17846.0	Mm.259903	NM_144514	ENSMUSG00000051355	Commd1	AI256843|Murr1|U2/Mu	COMM domain containing 1	protein-coding	101.5	182.0	129.5	1946.5	222.0	113.0	92.0	88.0
Merged-chr8-72281800-4	chr8	72281687	72281887	+	940.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37275.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	17.5	14.5	20.5	260.0	20.5	5.5	14.0	25.0
Merged-chr17-63863861-4	chr17	63863728	63863928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037997)	promoter-TSS (NM_001037997)	-153.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	313.5	467.5	374.0	5871.5	822.0	337.5	509.5	365.5
Merged-chr8-57800560-4	chr8	57800458	57800658	+	991.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175032, intron 10 of 11)	intron (NM_175032, intron 10 of 11)	-147503.0	NM_144731	108150.0	Mm.62886	NM_144731	ENSMUSG00000031608	Galnt7	AI225872	polypeptide N-acetylgalactosaminyltransferase 7	protein-coding	17.5	37.5	21.0	289.5	126.5	58.5	30.5	15.0
Merged-chr4-125123451-4	chr4	125123364	125123564	+	830.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153159, intron 2 of 5)	intron (NM_153159, intron 2 of 5)	4417.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	13.5	33.5	8.5	72.0	26.5	11.5	12.0	7.5
Merged-chr13-92968630-3	chr13	92968526	92968726	+	873.355591	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104678.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	0.5	4.5	1.0	42.0	42.5	23.5	30.0	15.5
Merged-chr9-105764852-3	chr9	105764771	105764971	+	848.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102607, intron 10 of 36)	intron (NM_001102607, intron 10 of 36)	44777.0	NM_172927	245026.0	Mm.482507	NM_172927	ENSMUSG00000043719	Col6a6	E330019B14|E330026B02Rik	collagen, type VI, alpha 6	protein-coding	15.5	28.5	31.5	208.5	0.0	0.0	0.0	1.0
Merged-chr6-50836132-3	chr6	50836041	50836241	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60026.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	8.0	3.0	3.0	112.5	23.0	18.0	11.0	23.0
Merged-chr5-130159986-4	chr5	130159827	130160027	+	927.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11892.0	NM_001199059	56715.0	Mm.288639	NM_019983	ENSMUSG00000025340	Rabgef1	Rab5ef|Rabex5|Rin2	RAB guanine nucleotide exchange factor (GEF) 1	protein-coding	10.0	7.5	15.0	87.0	7.5	7.5	6.0	9.0
Merged-chr17-48192590-3	chr17	48192480	48192680	+	815.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25323.0	NM_178796	328830.0	Mm.470939	NM_178796	ENSMUSG00000043939	A530064D06Rik	Trem4|pdctrem	RIKEN cDNA A530064D06 gene	protein-coding	7.5	17.5	13.0	86.0	10.0	9.0	7.5	5.0
Merged-chr15-58989667-3	chr15	58989549	58989749	+	973.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	55839.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	23.5	26.5	10.5	117.5	29.0	8.0	4.5	7.5
Merged-chr16-57216612-3	chr16	57216518	57216718	+	675.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 2 of 17)	intron (NM_026254, intron 2 of 17)	14848.0	NM_026254	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	8.0	6.0	12.5	119.0	18.0	14.0	10.0	13.5
Merged-chr2-102672137-3	chr2	102672030	102672230	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077514, intron 1 of 10)	MTC|LTR|ERVL-MaLR	13441.0	NM_001361018	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	73.5	79.5	95.5	1004.0	8.0	5.5	3.5	10.0
Merged-chr1-172342814-2	chr1	172342720	172342920	+	735.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	1610.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	5.0	4.5	9.5	73.5	12.5	6.5	4.5	3.5
Merged-chr4-127021177-4	chr4	127021048	127021248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045010)	promoter-TSS (NR_045010)	-153.0	NR_045010	71514.0	Mm.257276	NM_023603	ENSMUSG00000028820	Sfpq	1110004P21Rik|2810416M14Rik|5730453G22Rik|9030402K04Rik|AU021830|D4Ertd314e|Gm12940|PSF|REP1	splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)	protein-coding	201.0	349.0	138.0	2708.5	516.5	199.5	196.0	191.5
Merged-chr7-129401465-4	chr7	129401367	129401567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144373.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	40.5	36.0	39.0	612.0	87.0	24.0	44.0	58.0
Merged-chr9-55149252-4	chr9	55149150	55149350	+	961.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346657)	promoter-TSS (NM_001346657)	-119.0	NM_180600	109161.0	Mm.207894	NM_180600	ENSMUSG00000032307	Ube2q2	3010021M21Rik	ubiquitin-conjugating enzyme E2Q family member 2	protein-coding	17.0	24.5	16.0	227.5	33.5	19.0	20.5	28.0
Merged-chr4-135890068-4	chr4	135889958	135890158	+	941.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5131.0	NM_009924	12802.0	Mm.297251	NM_009924	ENSMUSG00000062585	Cnr2	CB-2|CB2|CB2-R	cannabinoid receptor 2 (macrophage)	protein-coding	6.0	15.5	8.5	141.5	34.5	7.5	14.0	8.0
Merged-chr11-49253249-3	chr11	49253161	49253361	+	975.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110148, intron 3 of 3)	MLT1G3|LTR|ERVL-MaLR	2709.0	NM_001110150	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	12.0	7.0	11.5	270.5	11.5	4.5	10.5	9.5
Merged-chr12-110373582-3	chr12	110373482	110373682	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-73597.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	4.5	9.5	5.0	80.0	16.0	1.5	6.0	8.5
Merged-chr3-107034961-4	chr3	107034841	107035041	+	957.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1221.0	NM_008418	16491.0	Mm.30640	NM_008418	ENSMUSG00000047959	Kcna3	Kca1-3|Kv1.3|Mk-3	potassium voltage-gated channel, shaker-related subfamily, member 3	protein-coding	21.0	34.0	30.5	322.0	28.5	10.5	17.5	16.0
Merged-chr19-55235613-3	chr19	55235580	55235780	+	680.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 2 of 20)	intron (NM_001081076, intron 2 of 20)	5556.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	9.0	6.5	11.5	74.5	10.5	5.5	3.0	1.5
Merged-chr13-59728610-4	chr13	59728509	59728709	+	742.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177711, exon 4 of 4)	exon (NM_177711, exon 4 of 4)	3143.0	NM_177711	238663.0	Mm.444776	NM_177711	ENSMUSG00000043986	Spata31d1d	4932411G14Rik|Fam75d1d	spermatogenesis associated 31 subfamily D, member 1D	protein-coding	19.0	9.0	8.5	154.5	25.0	7.0	3.5	17.5
Merged-chr2-180966225-3	chr2	180966125	180966325	+	855.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177708)	promoter-TSS (NM_001177708)	-1000.0	NM_145760	228998.0	Mm.33765	NM_145760	ENSMUSG00000027575	Arfgap1	AI115377|Arf1gap	ADP-ribosylation factor GTPase activating protein 1	protein-coding	2.0	3.0	0.0	28.0	28.0	11.0	17.0	16.0
Merged-chr15-5708650-4	chr15	5708546	5708746	+	928.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	212328.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	25.5	18.5	11.0	274.0	44.0	14.0	15.5	15.5
Merged-chr2-28533308-4	chr2	28533198	28533398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145835)	promoter-TSS (NM_001145835)	-166.0	NM_001145835	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	136.5	260.5	99.0	905.0	348.5	139.0	106.0	97.5
Merged-chr7-24299541-4	chr7	24299460	24299660	+	999.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009561)	promoter-TSS (NM_009561)	-11.0	NM_009561	22719.0	Mm.12832	NM_009561	ENSMUSG00000050605	Zfp61	-	zinc finger protein 61	protein-coding	21.0	37.5	38.5	388.0	50.0	12.0	18.5	22.5
Merged-chr7-88327687-3	chr7	88327567	88327767	+	872.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49582.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	9.5	33.5	19.0	259.0	21.5	7.0	5.5	7.0
Merged-chr13-59761076-3	chr13	59760973	59761173	+	720.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026921, intron 2 of 3)	intron (NM_026921, intron 2 of 3)	8716.0	NM_026921	69046.0	Mm.7884	NM_026921	ENSMUSG00000044792	Isca1	1810010A06Rik|Hbld2	iron-sulfur cluster assembly 1	protein-coding	5.5	10.0	11.5	261.0	15.0	7.0	12.5	9.0
Merged-chr9-118807830-3	chr9	118807717	118807917	+	945.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 4 of 13)	intron (NM_001113514, intron 4 of 13)	96125.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	11.5	5.5	7.0	133.5	18.0	5.5	2.0	17.5
Merged-chr2-71338274-4	chr2	71338174	71338374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 3 of 17)	intron (NM_172436, intron 3 of 17)	29280.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	111.0	140.5	111.5	1992.5	274.0	107.5	112.5	96.0
Merged-chr4-136286034-4	chr4	136285965	136286165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009557)	promoter-TSS (NM_009557)	-2.0	NM_009557	22704.0	Mm.1504	NM_009557	ENSMUSG00000051351	Zfp46	AI426962|Mlz-4|Zfp-46|Znf436	zinc finger protein 46	protein-coding	96.0	144.0	78.0	1093.0	230.5	90.5	86.0	103.5
Merged-chr17-46674317-4	chr17	46674214	46674414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144857)	promoter-TSS (NM_144857)	-59.0	NM_144857	224823.0	Mm.45101	NM_144857	ENSMUSG00000023971	Rrp36	-	ribosomal RNA processing 36 homolog (S. cerevisiae)	protein-coding	77.0	131.0	58.0	1243.0	207.0	70.0	77.0	70.0
Merged-chr2-131489034-2	chr2	131488934	131489134	+	722.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2828.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	6.5	5.0	4.5	18.5	9.5	4.5	4.5	6.5
Merged-chr15-64082413-3	chr15	64082300	64082500	+	902.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID|SINE|ID	-21952.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	2.0	3.0	19.5	142.5	18.0	5.5	9.5	5.0
Merged-chr8-70892845-3	chr8	70892679	70892879	+	924.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053248)	promoter-TSS (NM_053248)	-22.0	NM_053248	114479.0	Mm.172923	NM_053248	ENSMUSG00000000792	Slc5a5	NIS	solute carrier family 5 (sodium iodide symporter), member 5	protein-coding	5.5	14.0	2.5	18.5	17.5	12.0	5.5	9.5
Merged-chr2-79634705-3	chr2	79634591	79634791	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080558)	promoter-TSS (NM_080558)	-734.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	10.0	7.0	10.0	173.0	21.0	10.0	11.5	12.0
Merged-chr2-38433920-3	chr2	38433820	38434020	+	837.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-77777.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	5.5	7.0	5.0	66.5	8.5	4.0	5.0	3.5
Merged-chr5-113667569-4	chr5	113667474	113667674	+	842.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17184.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	8.5	10.0	11.0	120.0	23.0	7.5	9.5	10.5
Merged-chr1-184616127-4	chr1	184616031	184616231	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58440.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	24.0	61.5	22.5	575.0	36.5	14.0	28.0	24.5
Merged-chr2-11530228-3	chr2	11530120	11530320	+	974.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	23709.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	10.0	22.0	11.5	172.5	16.5	11.0	7.0	13.0
Merged-chr4-131977447-4	chr4	131977341	131977541	+	870.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 9 of 20)	intron (NM_183428, intron 9 of 20)	55670.0	NM_001201367	623230.0	Mm.421179	NM_001201367	ENSMUSG00000070720	Tmem200b	EG623230	transmembrane protein 200B	protein-coding	8.0	16.0	13.0	201.0	24.5	5.5	17.5	25.0
Merged-chr2-52577833-4	chr2	52577714	52577914	+	841.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	-19203.0	NM_001285427	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	18.5	10.0	19.5	225.5	9.5	10.5	10.0	10.5
Merged-chr11-63052996-4	chr11	63052884	63053084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8675.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	18.5	50.0	32.5	308.5	230.0	51.5	82.0	66.5
Merged-chr10-117330803-4	chr10	117330745	117330945	+	933.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37977.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	17.0	18.5	17.0	98.5	35.0	9.0	12.0	10.5
Merged-chr13-37312740-4	chr13	37312643	37312843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32602.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	25.0	36.0	31.0	384.5	61.5	26.5	33.0	23.0
Merged-chr10-83637525-4	chr10	83637418	83637618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145220, intron 2 of 20)	intron (NM_145220, intron 2 of 20)	11146.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	118.5	116.0	115.5	1909.5	195.0	63.5	95.0	72.5
Merged-chr6-112930282-4	chr6	112930187	112930387	+	793.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 1 of 21)	intron (NM_080448, intron 1 of 21)	16979.0	NM_080448	259302.0	Mm.236401	NM_080448	ENSMUSG00000030257	Srgap3	AI452337|Arhgap14|D130026O08Rik|Gbi|MEGAP|WRP|mKIAA0411	SLIT-ROBO Rho GTPase activating protein 3	protein-coding	9.5	17.5	8.5	170.5	23.0	7.0	11.5	15.0
Merged-chr9-35479681-2	chr9	35479593	35479793	+	688.333374	f0_balb.idr|f1_balb.idr	intron (NM_021339, intron 13 of 18)	intron (NM_021339, intron 13 of 18)	27617.0	NM_021339	57810.0	Mm.80509	NM_021339	ENSMUSG00000038119	Cdon	CDO|Cd0|Orcam	cell adhesion molecule-related/down-regulated by oncogenes	protein-coding	9.0	13.0	15.5	247.0	1.0	0.5	0.0	0.0
Merged-chr8-13889730-3	chr8	13889674	13889874	+	979.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359059, intron 1 of 2)	intron (NM_001359059, intron 1 of 2)	497.0	NM_001359059	66423.0	Mm.29063	NM_025556	ENSMUSG00000031458	Coprs	1700029I03Rik|2410022L05Rik|AA409325|AI256813|C85432|Copr5	coordinator of PRMT5, differentiation stimulator	protein-coding	9.5	6.5	8.5	156.0	23.0	4.0	7.5	9.5
Merged-chr19-53648927-4	chr19	53648828	53649028	+	807.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28378.0	NM_001170847	73713.0	Mm.313695	NM_001170847	ENSMUSG00000043639	Rbm20	1110018J23Rik|2010003H22Rik|AI646761	RNA binding motif protein 20	protein-coding	7.0	10.5	7.0	94.0	25.0	11.5	9.5	9.5
Merged-chr9-61978002-3	chr9	61977894	61978094	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 2 of 7)	(CA)n|Simple_repeat|Simple_repeat	-31195.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	11.5	17.0	27.5	401.0	50.5	13.5	21.5	29.5
Merged-chr11-31817624-3	chr11	31817471	31817671	+	911.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_102310)	TTS (NR_102310)	6976.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	13.5	12.0	12.5	141.5	7.5	3.5	1.0	5.0
Merged-chr10-88683627-4	chr10	88683493	88683693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011461)	promoter-TSS (NM_011461)	-570.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	12.0	29.5	26.0	393.5	60.5	25.0	25.0	23.5
Merged-chr18-61419907-3	chr18	61419808	61420008	+	828.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-19477.0	NM_133249	170826.0	Mm.415302	NM_133249	ENSMUSG00000033871	Ppargc1b	4631412G21Rik|Perc	peroxisome proliferative activated receptor, gamma, coactivator 1 beta	protein-coding	7.0	8.5	10.0	68.5	16.0	6.5	5.0	7.0
Merged-chr5-122274953-4	chr5	122274824	122275024	+	979.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9474.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	22.5	45.0	11.5	356.0	53.5	25.5	17.5	17.0
Merged-chr4-133660212-2	chr4	133660095	133660295	+	947.25	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	12452.0	NM_001145955	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	29.5	45.0	22.5	199.5	30.0	14.0	5.5	13.0
Merged-chr5-64861504-4	chr5	64861400	64861600	+	908.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57977.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	11.5	21.5	27.0	129.5	52.5	17.0	13.5	9.0
Merged-chr18-20749594-3	chr18	20749508	20749708	+	882.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3204.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	9.0	2.5	12.5	100.0	16.0	5.0	8.0	8.0
Merged-chr2-53191983-4	chr2	53191892	53192092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022989)	promoter-TSS (NM_022989)	-92.0	NM_022989	65103.0	Mm.37623	NM_022989	ENSMUSG00000026960	Arl6ip6	2310057C01Rik|2610529A11Rik|Aip-6	ADP-ribosylation factor-like 6 interacting protein 6	protein-coding	152.5	188.5	129.5	2157.5	409.5	152.5	199.0	172.0
Merged-chr7-16406246-4	chr7	16406181	16406381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198631, intron 1 of 13)	intron (NM_198631, intron 1 of 13)	5085.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	33.5	54.0	60.0	696.0	59.0	26.0	33.5	29.0
Merged-chr12-112623987-4	chr12	112623917	112624117	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 1 of 12)	intron (NM_007421, intron 1 of 12)	3970.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	32.5	32.5	15.0	318.0	90.5	27.0	14.0	25.5
Merged-chr11-88235583-4	chr11	88235489	88235689	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	31201.0	NM_001291271	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	12.5	14.5	11.0	164.0	42.0	18.5	14.5	14.0
Merged-chr11-26600850-4	chr11	26600756	26600956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6936.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	36.0	29.5	42.0	573.0	117.0	28.0	54.0	44.0
Merged-chr6-129747567-1	chr6	129747467	129747667	+	661.0	f0_balb.idr	Intergenic	Intergenic	-7083.0	NM_177155	320407.0	Mm.123265	NM_177155	ENSMUSG00000043932	Klri2	A530090P03Rik	killer cell lectin-like receptor family I member 2	protein-coding	8.0	7.5	7.0	199.0	10.0	0.5	2.0	2.0
Merged-chr15-86203552-5	chr15	86203449	86203649	+	983.2666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10910.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	5.5	6.5	10.5	124.0	23.5	10.0	5.0	20.5
Merged-chr12-80792325-4	chr12	80792229	80792429	+	871.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	1797.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	11.5	26.0	4.0	151.5	30.0	10.5	10.0	12.5
Merged-chr4-86648623-1	chr4	86648523	86648723	+	885.25	f0_balb.idr	Intergenic	Intergenic	21436.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	18.0	10.5	15.0	246.5	5.5	2.5	6.5	6.0
Merged-chr16-43802240-3	chr16	43802146	43802346	+	794.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007877, intron 2 of 6)	intron (NM_007877, intron 2 of 6)	40025.0	NM_007877	13490.0	Mm.439735	NM_007877	ENSMUSG00000022705	Drd3	D3R	dopamine receptor D3	protein-coding	6.5	8.0	5.0	103.5	12.0	8.5	7.0	12.5
Merged-chr9-102879714-4	chr9	102879616	102879816	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042607, intron 6 of 14)	intron (NM_001042607, intron 6 of 14)	44796.0	NM_001284258	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	33.0	19.5	20.5	428.0	68.0	25.0	40.5	21.5
Merged-chr4-137815671-3	chr4	137815570	137815770	+	742.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-19286.0	NM_007431	11647.0	Mm.288186	NM_007431	ENSMUSG00000028766	Alpl	ALP|APTNAP|Akp-2|Akp2|TNAP|TNSALP	alkaline phosphatase, liver/bone/kidney	protein-coding	7.0	23.5	7.0	176.5	34.5	0.5	1.5	3.5
Merged-chr12-85818599-4	chr12	85818482	85818682	+	932.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360813)	TTS (NM_001360813)	6311.0	NM_001360451	58520.0	Mm.143795	NM_021446	ENSMUSG00000021252	Erg28	0610007P14Rik|1190004E09Rik|AU019315|C77855|ORF11	ergosterol biosynthesis 28	protein-coding	17.0	33.5	10.5	158.0	28.5	11.5	16.0	5.5
Merged-chr14-66182773-4	chr14	66182668	66182868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 5 of 30)	intron (NM_001162366, intron 5 of 30)	31056.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	28.5	85.0	27.5	625.5	93.5	16.0	37.0	49.0
Merged-chr7-73533090-4	chr7	73532946	73533146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	8700.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	29.0	41.0	32.5	420.0	54.5	22.5	32.5	26.5
Merged-chr1-133136080-3	chr1	133135979	133136179	+	901.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133819, intron 1 of 1)	MIR|SINE|MIR	4913.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	18.5	6.5	10.5	179.5	31.0	0.5	5.0	8.5
Merged-chr19-21820413-4	chr19	21820341	21820541	+	846.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033759, intron 12 of 23)	intron (NM_001033759, intron 12 of 23)	42101.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	10.0	31.0	7.0	74.0	51.0	19.5	13.5	7.5
Merged-chr7-25396155-4	chr7	25396095	25396295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010719)	promoter-TSS (NM_010719)	-208.0	NM_010719	16890.0	Mm.158548	NM_010719	ENSMUSG00000003123	Lipe	4933403G17Rik|HSL	lipase, hormone sensitive	protein-coding	62.5	98.5	54.5	527.0	120.0	56.5	31.0	47.5
Merged-chr2-20943456-2	chr2	20943356	20943556	+	634.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 1 of 24)	intron (NM_001128084, intron 1 of 24)	24265.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	5.0	4.0	6.0	132.0	27.5	10.0	6.5	6.5
Merged-chr5-24578318-1	chr5	24578218	24578418	+	540.0	f0_balb.idr	promoter-TSS (NM_001190443)	promoter-TSS (NM_001190443)	-851.0	NM_001190443	27407.0	Mm.21629	NM_013853	ENSMUSG00000028953	Abcf2	0710005O05Rik|Drr3|E430001O06	ATP-binding cassette, sub-family F (GCN20), member 2	protein-coding	3.5	11.0	13.0	40.0	12.0	5.5	8.0	8.5
Merged-chr2-158613748-3	chr2	158613653	158613853	+	923.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009508, intron 1 of 1)	intron (NM_009508, intron 1 of 1)	2995.0	NM_009508	22348.0	Mm.143404	NM_009508	ENSMUSG00000037771	Slc32a1	R75019|VGAT|Viaat	solute carrier family 32 (GABA vesicular transporter), member 1	protein-coding	9.0	13.5	2.0	89.0	10.5	9.0	9.5	18.0
Merged-chr11-97645020-4	chr11	97644914	97645114	+	714.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-15298.0	NM_175332	103551.0	Mm.24506	NM_175332	ENSMUSG00000043439	Epop	AA409164|AI413509|AW539173|E13|E130012A19Rik|esPRC2p48	elongin BC and polycomb repressive complex 2 associated protein	protein-coding	0.0	12.0	8.5	50.0	29.5	5.0	16.0	14.0
Merged-chr8-122576862-4	chr8	122576768	122576968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009698)	promoter-TSS (NM_009698)	39.0	NM_009698	11821.0	Mm.1786	NM_009698	ENSMUSG00000006589	Aprt	C85684	adenine phosphoribosyl transferase	protein-coding	75.5	105.0	67.5	1121.0	133.0	67.5	58.0	54.0
Merged-chr9-90237971-4	chr9	90237854	90238054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	32815.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	94.5	133.0	200.0	2975.0	318.0	94.5	241.5	171.5
Merged-chr7-120754853-4	chr7	120754770	120754970	+	993.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177697, intron 3 of 33)	B1_Mus2|SINE|Alu	15313.0	NM_177697	233813.0	Mm.389939	NM_177697	ENSMUSG00000030889	Vwa3a	E030013G06Rik	von Willebrand factor A domain containing 3A	protein-coding	23.0	33.0	17.5	338.0	53.5	19.0	19.0	33.0
Merged-chr7-141447272-4	chr7	141447173	141447373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360657)	promoter-TSS (NM_001360657)	-378.0	NM_026020	67186.0	Mm.380435	NM_026020	ENSMUSG00000025508	Rplp2	2700049I22Rik	ribosomal protein, large P2	protein-coding	50.5	91.5	34.5	602.5	188.0	50.5	78.5	64.5
Merged-chr11-32647448-4	chr11	32647366	32647566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	4911.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	35.0	32.5	21.0	309.5	87.0	30.0	40.5	37.5
Merged-chr7-45731261-3	chr7	45731162	45731362	+	887.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_017465, exon 6 of 7)	exon (NM_017465, exon 6 of 7)	-5446.0	NM_027055	69363.0	Mm.45607	NM_027055	ENSMUSG00000070563	Spaca4	1700008E09Rik|AV043694|Samp14	sperm acrosome associated 4	protein-coding	9.5	18.0	12.5	59.5	16.0	9.0	7.5	12.0
Merged-chr18-37926165-7	chr18	37926067	37926267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	intron (NM_001305981, intron 1 of 28)	9309.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	13.0	16.5	20.0	243.0	49.0	21.5	16.5	29.0
Merged-chr3-121630800-4	chr3	121630693	121630893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12692.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	75.5	146.5	96.5	975.5	260.0	84.0	125.5	72.5
Merged-chr8-72539467-3	chr8	72539356	72539556	+	748.455566	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027485, intron 1 of 2)	B3A|SINE|B2	8854.0	NM_027485	70625.0	Mm.235885	NM_027485	ENSMUSG00000045248	Med26	5730493L18Rik|AI414941|AW495270|Crsp7	mediator complex subunit 26	protein-coding	4.0	18.0	3.0	37.0	28.5	10.0	9.0	8.5
Merged-chr9-21989449-4	chr9	21989345	21989545	+	971.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023622)	promoter-TSS (NM_023622)	8.0	NM_023622	71746.0	Mm.110594	NM_023622	ENSMUSG00000040146	Rgl3	1300003D20Rik|mFLJ00153	ral guanine nucleotide dissociation stimulator-like 3	protein-coding	28.0	24.5	23.5	258.5	31.5	10.5	19.5	28.0
Merged-chr18-47327217-3	chr18	47327115	47327315	+	800.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311097, intron 1 of 17)	intron (NM_001311097, intron 1 of 17)	41653.0	NM_018744	20358.0	Mm.40909	NM_018744	ENSMUSG00000019647	Sema6a	A730020P05Rik|AI851735|Sema6A-1|Semaq|VIa	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	protein-coding	8.5	16.0	23.0	229.5	5.5	1.0	3.0	7.5
Merged-chr9-66615283-3	chr9	66615185	66615385	+	693.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22170.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	11.5	16.5	5.0	103.5	12.0	6.5	8.0	5.5
Merged-chr14-61311112-2	chr14	61311012	61311212	+	821.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_177337, exon 2 of 2)	exon (NM_177337, exon 2 of 2)	1359.0	NM_177337	219144.0	Mm.206566	NM_177337	ENSMUSG00000043157	Arl11	ARLTS1|C730007L20Rik	ADP-ribosylation factor-like 11	protein-coding	5.0	6.0	6.0	47.5	7.5	3.5	0.0	3.5
Merged-chr5-102034320-4	chr5	102034241	102034441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	35580.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	63.5	80.5	77.5	1278.0	91.5	38.0	66.0	70.0
Merged-chr11-116138930-4	chr11	116138826	116139026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024177)	promoter-TSS (NM_024177)	-58.0	NM_024177	60441.0	Mm.29974	NM_024177	ENSMUSG00000020775	Mrpl38	1110036N21Rik|4733401F03Rik|MRP-L3|R75240|Rpml3	mitochondrial ribosomal protein L38	protein-coding	143.0	263.5	94.0	1366.0	377.0	172.0	135.0	147.0
Merged-chr1-36079851-4	chr1	36079758	36079958	+	882.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	11458.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	13.5	7.5	13.5	267.5	28.0	4.0	6.5	11.0
Merged-chr10-111925664-4	chr10	111925555	111925755	+	779.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47040.0	NM_178610	52705.0	Mm.34606	NM_178610	ENSMUSG00000063334	Krr1	2610511F02Rik|AI255219|AI428520|D10Ertd773e|Hrb2	KRR1, small subunit (SSU) processome component, homolog (yeast)	protein-coding	11.0	7.5	8.5	173.0	26.5	7.5	9.0	23.0
Merged-chr5-115327109-4	chr5	115327020	115327220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025573)	promoter-TSS (NM_025573)	-57.0	NM_025573	108014.0	Mm.287826	NM_025573	ENSMUSG00000029538	Srsf9	25kDa|2610029M16Rik|SRp30c|Sfrs9	serine/arginine-rich splicing factor 9	protein-coding	97.0	135.0	46.0	908.5	193.0	108.5	76.5	63.5
Merged-chr4-155481510-4	chr4	155481380	155481580	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9881.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	18.5	31.0	9.5	294.5	60.0	13.5	12.5	12.5
Merged-chr2-71744983-4	chr2	71744878	71745078	+	957.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	intron (NR_039557, intron 2 of 3).2	25561.0	NR_037979	381371.0	Mm.330284	NM_201366	ENSMUSG00000064263	Platr26	Gm1631	pluripotency associated transcript 26	ncRNA	33.0	20.0	44.0	745.5	34.5	3.0	16.5	17.0
Merged-chr2-45231776-4	chr2	45231669	45231869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114327.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	86.0	238.0	75.5	662.0	196.0	67.5	103.0	53.5
Merged-chr4-95050777-4	chr4	95050697	95050897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010591, exon 1 of 1)	exon (NM_010591, exon 1 of 1)	1425.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	64.0	83.0	69.5	933.0	171.5	68.0	95.0	75.5
Merged-chr14-8098245-4	chr14	8098168	8098368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178279)	promoter-TSS (NM_178279)	57.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	44.5	51.0	60.0	695.0	76.0	44.5	43.5	33.5
Merged-chr8-36867775-4	chr8	36867642	36867842	+	675.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 2 of 17)	intron (NM_001194940, intron 2 of 17)	84700.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	3.0	10.0	4.0	49.5	22.0	5.5	8.0	10.0
Merged-chr3-106721707-4	chr3	106721616	106721816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039488)	promoter-TSS (NM_001039488)	34.0	NM_001286685	321000.0	Mm.259638	NM_028081	ENSMUSG00000056260	Lrif1	2010012G17Rik|4933421E11Rik|AI450568	ligand dependent nuclear receptor interacting factor 1	protein-coding	240.5	396.5	240.5	3005.5	615.0	273.0	324.0	251.0
Merged-chr7-90024390-3	chr7	90024300	90024500	+	918.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4759.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	7.5	10.5	6.5	75.5	15.5	3.0	9.0	8.5
Merged-chr2-24976685-3	chr2	24976592	24976792	+	866.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146251, intron 1 of 34)	B1_Mus2|SINE|Alu	659.0	NM_146251	241274.0	Mm.389243	NM_146251	ENSMUSG00000036833	Pnpla7	BC027342|E430013P11Rik|Nre	patatin-like phospholipase domain containing 7	protein-coding	7.0	18.5	18.0	67.5	36.0	6.0	6.5	12.5
Merged-chr4-89524820-4	chr4	89524719	89524919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163379.0	NM_175647	242523.0	Mm.130167	NM_175647	ENSMUSG00000043753	Dmrta1	Dmrt4	doublesex and mab-3 related transcription factor like family A1	protein-coding	42.0	77.0	35.5	885.0	80.0	32.5	37.0	30.5
Merged-chr3-84334027-4	chr3	84333957	84334157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-29282.0	NM_001271726	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	28.0	43.5	42.5	570.0	63.5	33.0	44.5	24.5
Merged-chr10-80680263-4	chr10	80680139	80680339	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3946.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	15.0	34.5	42.5	1017.0	85.5	14.0	16.0	33.0
Merged-chr2-166076120-4	chr2	166076053	166076253	+	873.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252579, intron 18 of 20)	intron (NM_001252579, intron 18 of 20)	79132.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	4.5	16.5	4.0	34.5	6.5	7.0	7.5	14.5
Merged-chr15-58687950-4	chr15	58687866	58688066	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135461.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	26.5	22.0	28.0	304.0	59.0	22.0	17.0	16.5
Merged-chr14-46873935-1	chr14	46873835	46874035	+	567.0	f0_balb.idr	Intergenic	LTR50|LTR|ERVL	-9030.0	NM_028966	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	12.5	7.5	5.0	114.5	14.5	7.5	7.5	9.5
Merged-chr1-37638790-4	chr1	37638663	37638863	+	885.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028096, intron 2 of 9)	intron (NM_028096, intron 2 of 9)	81048.0	NM_028096	72097.0	Mm.142607	NM_028096	ENSMUSG00000026090	2010300C02Rik	-	RIKEN cDNA 2010300C02 gene	protein-coding	7.5	9.0	9.5	295.0	24.0	2.0	11.0	6.5
Merged-chr14-63146447-3	chr14	63146350	63146550	+	912.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007798)	TTS (NM_007798)	23988.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	17.5	19.0	7.0	148.0	17.5	12.0	1.0	3.5
Merged-chr11-69981262-4	chr11	69981164	69981364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026017)	promoter-TSS (NM_026017)	-29.0	NM_018740	54351.0	Mm.13430	NM_018740	ENSMUSG00000018565	Elp5	Derp6|Rai12	elongator acetyltransferase complex subunit 5	protein-coding	24.5	53.0	20.0	225.5	95.0	36.0	37.5	29.0
Merged-chr12-34712680-3	chr12	34712599	34712799	+	739.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	MIR|SINE|MIR	-183810.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	7.0	4.0	12.0	61.0	21.5	4.5	8.0	6.0
Merged-chr9-40391599-3	chr9	40391518	40391718	+	661.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 2 of 20)	intron (NM_001357617, intron 2 of 20)	-15201.0	NM_001357621	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	6.0	8.0	3.0	192.0	11.5	5.5	14.5	7.0
Merged-chr15-30616558-3	chr15	30616492	30616692	+	794.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-422534.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	10.5	14.0	5.0	98.5	21.0	5.5	3.0	9.5
Merged-chr7-79924755-4	chr7	79924655	79924855	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027420)	TTS (NM_027420)	-4115.0	NM_009682	11778.0	Mm.220173	NM_009682	ENSMUSG00000063801	Ap3s2	[s]3B	adaptor-related protein complex 3, sigma 2 subunit	protein-coding	22.0	40.0	15.5	327.5	84.5	16.5	30.5	24.5
Merged-chr13-73822358-4	chr13	73822279	73822479	+	857.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347535, intron 8 of 8)	intron (NM_001347535, intron 8 of 8)	25252.0	NM_028186	72293.0	Mm.45506	NM_028186	ENSMUSG00000021567	Nkd2	2210403L10Rik|AW212591|mNkd2	naked cuticle 2	protein-coding	8.5	23.5	11.5	158.0	17.0	13.5	12.0	10.0
Merged-chr16-31947448-4	chr16	31947356	31947556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027897, exon 1 of 1)	non-coding (NR_027897, exon 1 of 1)	1065.0	NR_027897	106264.0	Mm.347369	NM_025320	ENSMUSG00000107002	0610012G03Rik	AI839730	RIKEN cDNA 0610012G03 gene	ncRNA	64.5	78.0	66.5	795.5	99.0	35.5	59.0	76.0
Merged-chr8-120737453-4	chr8	120737372	120737572	+	979.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008320, intron 1 of 8)	intron (NM_008320, intron 1 of 8)	1114.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	13.0	24.0	30.5	618.5	65.0	16.0	28.5	21.0
Merged-chr11-110479249-4	chr11	110479154	110479354	+	722.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356346)	promoter-TSS (NM_001356346)	-86.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	4.0	12.0	4.0	142.5	33.5	9.0	11.5	14.5
Merged-chr11-90492778-4	chr11	90492664	90492864	+	930.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011505, intron 17 of 17)	intron (NM_011505, intron 17 of 17)	-101847.0	NM_172563	217082.0	Mm.158903	NM_172563	ENSMUSG00000003949	Hlf	E230015K02Rik	hepatic leukemia factor	protein-coding	16.5	6.0	14.0	216.0	26.5	4.5	15.0	17.0
Merged-chr8-11071321-3	chr8	11071234	11071434	+	934.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62904.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	7.5	10.0	19.0	308.0	7.0	8.0	7.5	12.5
Merged-chr16-45757072-4	chr16	45756960	45757160	+	790.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357078, intron 14 of 16)	intron (NM_001357078, intron 14 of 16)	-14105.0	NM_172511	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	13.0	10.0	8.5	102.0	21.5	4.5	13.5	11.5
Merged-chr12-110606338-4	chr12	110606244	110606444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030238, intron 1 of 76)	Lx7|LINE|L1	4949.0	NM_030238	13424.0	Mm.181430	NM_030238	ENSMUSG00000018707	Dync1h1	9930018I23Rik|AI894280|DHC1|DHC1a|DNCL|Dnchc1|Dnec1|Dnecl|Loa|MAP1C|P22|Swl|mKIAA0325	dynein cytoplasmic 1 heavy chain 1	protein-coding	35.0	47.5	17.0	487.0	112.5	32.0	42.5	28.5
Merged-chr10-81127768-3	chr10	81127659	81127859	+	952.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8512.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	10.0	12.0	11.5	129.5	27.5	8.5	4.0	9.5
Merged-chr1-177644381-4	chr1	177644277	177644477	+	874.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1434.0	NR_037994	75589.0	Mm.86666	NR_037994	ENSMUSG00000101746	2310043L19Rik	-	RIKEN cDNA 2310043L19 gene	ncRNA	7.5	22.0	18.5	34.5	42.5	9.5	12.5	11.0
Merged-chr1-162549213-4	chr1	162549107	162549307	+	886.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144877)	promoter-TSS (NM_144877)	-862.0	NM_144877	71449.0	Mm.270569	NM_144877	ENSMUSG00000026694	Mettl13	5630401D24Rik	methyltransferase like 13	protein-coding	13.0	3.0	17.0	262.5	26.5	9.5	10.0	6.0
Merged-chr17-31560158-4	chr17	31560066	31560266	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-4607.0	NR_027493	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	28.0	40.0	22.0	125.0	51.0	20.0	10.5	12.0
Merged-chr2-143081910-4	chr2	143081797	143081997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020595)	TTS (NM_020595)	3504.0	NM_020595	57329.0	Mm.157751	NM_020595	ENSMUSG00000027416	Otor	CDRAP|Fdp|MIA|MIAL	otoraplin	protein-coding	121.5	134.5	112.0	1932.0	280.0	103.5	137.5	104.5
Merged-chr9-104281148-4	chr9	104281044	104281244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18214.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	102.5	142.0	90.0	1614.0	237.0	68.0	103.5	109.0
Merged-chr15-6534070-3	chr15	6533961	6534161	+	954.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45786.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	6.5	13.0	8.0	153.0	9.0	7.5	12.5	7.0
Merged-chr18-4303316-4	chr18	4303209	4303409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49644.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	47.5	47.5	31.5	600.0	111.5	44.0	46.0	46.0
Merged-chr15-68239281-2	chr15	68239181	68239381	+	940.75	f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 1 of 13)	intron (NR_152182, intron 1 of 13)	19575.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	2.0	1.5	1.5	26.5	8.5	7.5	7.0	6.0
Merged-chr17-24170888-4	chr17	24170806	24171006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1228.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	98.5	123.0	117.0	1491.0	122.5	55.0	68.5	58.0
Merged-chr11-82866672-4	chr11	82866566	82866766	+	947.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164569, intron 1 of 7)	intron (NM_001164569, intron 1 of 7)	4078.0	NM_001164570	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	29.0	30.0	14.5	289.0	50.0	6.0	21.0	11.5
Merged-chr9-53693917-4	chr9	53693812	53694012	+	955.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	ORR1B1|LTR|ERVL-MaLR	12320.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	17.5	41.0	17.0	296.0	49.0	11.0	23.5	16.0
Merged-chr4-41503166-4	chr4	41503033	41503233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085515)	promoter-TSS (NM_001085515)	-58.0	NM_001085515	329828.0	Mm.27054	NM_001085515	ENSMUSG00000046312	AI464131	AA408153|AI604836|Gm762|Kiaa1161|Myorg|NET37	expressed sequence AI464131	protein-coding	23.5	21.0	38.0	417.5	83.0	34.5	46.0	39.5
Merged-chr17-30576413-4	chr17	30576316	30576516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027060)	promoter-TSS (NM_027060)	-129.0	NM_027060	224671.0	Mm.41220	NM_027060	ENSMUSG00000062202	Btbd9	1700023F20Rik|4930402L05|AI464421	BTB (POZ) domain containing 9	protein-coding	114.0	182.0	120.0	922.0	189.5	70.5	76.5	88.5
Merged-chr17-51178207-3	chr17	51178123	51178323	+	949.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 1 of 21)	intron (NM_028162, intron 1 of 21)	1129.0	NM_028162	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	6.0	15.0	5.5	126.5	22.0	8.0	5.0	5.0
Merged-chr5-123848274-4	chr5	123848072	123848272	+	876.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17344.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	5.5	9.5	7.5	58.0	46.5	12.0	7.5	17.0
Merged-chr11-97151648-4	chr11	97151499	97151699	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1887.0	NM_198100	73174.0	Mm.27882	NM_198100	ENSMUSG00000038517	Tbkbp1	3110043L15Rik|ProSAPiP2|SINTBAD	TBK1 binding protein 1	protein-coding	10.0	8.0	13.5	72.0	19.5	9.0	11.5	8.5
Merged-chr14-69732242-1	chr14	69732142	69732342	+	934.0	f0_balb.idr	promoter-TSS (NR_130166)	promoter-TSS (NR_130166)	328.0	NM_134078	105513.0	Mm.159637	NM_134078	ENSMUSG00000034190	Chmp7	4930596K11Rik|6330407G04Rik|AI450338|AW550775	charged multivesicular body protein 7	protein-coding	11.0	19.5	19.5	163.0	29.5	13.5	20.5	17.0
Merged-chr11-101972935-4	chr11	101972837	101973037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028207, exon 3 of 3)	3' UTR (NM_028207, exon 3 of 3)	-5922.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	41.5	33.0	50.5	526.5	69.0	24.5	22.5	28.0
Merged-chr10-34019713-4	chr10	34019612	34019812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025614)	promoter-TSS (NM_025614)	-96.0	NM_025614	66521.0	Mm.28528	NM_025614	ENSMUSG00000019782	Rwdd1	0710001K08Rik|2610002D06Rik|2700069A07Rik|IH1	RWD domain containing 1	protein-coding	256.5	385.5	260.0	3782.0	589.0	210.0	249.5	191.5
Merged-chr11-77214931-3	chr11	77214826	77215026	+	625.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1499.0	NM_177710	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	7.0	13.5	4.5	87.0	8.5	2.0	6.5	3.5
Merged-chr11-93995901-5	chr11	93995860	93996060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199203)	promoter-TSS (NM_001199203)	-131.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	61.0	146.0	60.0	836.0	375.5	138.0	160.5	82.5
Merged-chr16-31188241-4	chr16	31188134	31188334	+	832.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030138, intron 1 of 22)	MER45A|DNA|hAT-Tip100	13004.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	7.0	14.0	2.5	113.0	28.0	7.0	5.0	13.0
Merged-chr8-84968758-4	chr8	84968655	84968855	+	905.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011563)	promoter-TSS (NM_011563)	-867.0	NM_001317385	21672.0	Mm.347009	NM_011563	ENSMUSG00000005161	Prdx2	AL022839|Band-8|NkefB|PRP|PrxII|TDX1|TPx|TPx-B|TR|TSA|Tdpx1|Torin	peroxiredoxin 2	protein-coding	9.5	13.0	17.5	106.0	39.5	30.5	32.5	27.5
Merged-chr10-13499627-5	chr10	13499541	13499741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1387.0	NM_001330198	66848.0	Mm.26625	NM_025799	ENSMUSG00000019810	Fuca2	0610025O11Rik|5530401P20Rik	fucosidase, alpha-L- 2, plasma	protein-coding	28.5	51.5	66.5	418.5	42.0	17.0	40.5	33.5
Merged-chr9-65031600-4	chr9	65031489	65031689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028906)	promoter-TSS (NM_028906)	-869.0	NM_028906	74388.0	Mm.202749	NM_028906	ENSMUSG00000032393	Dpp8	2310004I03Rik|4932434F09Rik|AI666706|DPP VIII	dipeptidylpeptidase 8	protein-coding	40.5	69.5	45.0	275.5	117.0	40.5	52.5	47.0
Merged-chr5-63967648-6	chr5	63967504	63967704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	intron (NM_145923, intron 1 of 6)	1293.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	18.0	20.0	18.5	282.0	30.5	13.5	15.0	15.5
Merged-chr5-41768548-4	chr5	41768405	41768605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4285.0	NM_007524	12020.0	Mm.2530	NM_007524	ENSMUSG00000049691	Nkx3-2	Bapx1|NKX3.2|Nkx-3.2	NK3 homeobox 2	protein-coding	17.0	23.5	20.0	318.5	41.0	24.0	19.0	10.0
Merged-chr1-192727210-3	chr1	192727099	192727299	+	831.138916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 5 of 11)	intron (NM_144881, intron 5 of 11)	44020.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	4.5	8.5	5.0	62.5	32.5	3.5	16.0	16.0
Merged-chr2-119338045-4	chr2	119337996	119338196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11899.0	NR_030683	100043609.0	Mm.185068	NR_030683	ENSMUSG00000074912	Gm14207	Dll4	predicted gene 14207	ncRNA	86.0	102.0	65.0	961.0	139.0	70.5	87.5	34.5
Merged-chr7-25072864-2	chr7	25072764	25072964	+	676.916626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008168)	promoter-TSS (NM_008168)	-495.0	NM_001360067	14809.0	Mm.2879	NM_008168	ENSMUSG00000003378	Grik5	GluK5|GluRgamma2|KA2	glutamate receptor, ionotropic, kainate 5 (gamma 2)	protein-coding	7.5	5.5	6.0	68.0	12.5	5.0	1.5	3.5
Merged-chr16-91612704-4	chr16	91612642	91612842	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6257.0	NM_001099738	246738.0	Mm.101927	NM_138664	ENSMUSG00000039763	Dnajc28	BC020175|ORF28	DnaJ heat shock protein family (Hsp40) member C28	protein-coding	19.5	23.0	12.0	160.0	86.5	38.0	39.5	34.5
Merged-chr6-52488934-2	chr6	52488834	52489034	+	647.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3517.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	9.5	18.5	6.0	67.0	14.0	5.5	4.5	2.0
Merged-chr2-164938911-4	chr2	164938817	164939017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9302.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	25.0	40.0	25.0	219.0	53.5	19.5	28.5	25.0
Merged-chr2-60910918-4	chr2	60910804	60911004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-29466.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	100.5	209.5	99.0	1383.5	324.0	119.0	139.5	94.5
Merged-chr1-166429206-4	chr1	166429098	166429298	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19370.0	NM_175170	71592.0	Mm.192094	NM_175170	ENSMUSG00000040596	Pogk	9130401E23Rik|BASS2|mKIAA1513	pogo transposable element with KRAB domain	protein-coding	21.5	36.0	13.5	395.5	53.0	15.5	42.5	27.5
Merged-chr7-140955500-4	chr7	140955367	140955567	+	968.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030694, intron 1 of 1)	intron (NM_030694, intron 1 of 1)	494.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	16.0	36.0	14.0	102.5	50.5	16.0	28.5	16.5
Merged-chr16-44136524-8	chr16	44136394	44136594	+	871.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	2765.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	8.0	6.0	4.0	129.0	19.5	10.5	7.5	13.5
Merged-chr4-116651559-4	chr4	116651367	116651567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021473, exon 1 of 9)	5' UTR (NM_021473, exon 1 of 9)	207.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	16.0	32.5	48.0	350.5	46.0	27.0	27.5	39.5
Merged-chr9-40501658-4	chr9	40501565	40501765	+	964.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	29718.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	85.5	149.0	98.0	1431.5	41.5	15.5	20.5	15.5
Merged-chr9-121332207-4	chr9	121332109	121332309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	34707.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	67.0	101.5	57.5	451.5	94.0	35.0	33.0	31.5
Merged-chr6-129494662-2	chr6	129494562	129494762	+	670.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_138648, intron 4 of 7)	MT2A|LTR|ERVL	12503.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	6.0	9.0	17.0	24.5	33.0	3.5	4.5	8.0
Merged-chr5-93205446-4	chr5	93205347	93205547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017367, intron 1 of 6)	intron (NM_017367, intron 1 of 6)	1048.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	59.0	128.5	52.0	879.5	167.5	62.5	45.0	60.0
Merged-chr11-83572414-4	chr11	83572330	83572530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011338)	TTS (NM_011338)	6206.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	67.5	86.5	115.0	1035.0	134.5	59.5	60.0	50.5
Merged-chr8-122906613-4	chr8	122906545	122906745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037865, intron 4 of 13)	intron (NR_037865, intron 4 of 13)	58271.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	34.5	46.0	48.0	501.5	83.0	44.5	34.5	28.5
Merged-chr3-38116222-4	chr3	38116131	38116331	+	923.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91888.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	21.0	35.0	25.5	343.5	62.0	29.5	18.0	16.0
Merged-chr10-67215320-4	chr10	67215217	67215417	+	882.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207221, exon 4 of 26)	exon (NM_207221, exon 4 of 26)	29567.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	10.5	7.0	11.0	167.0	31.5	5.5	12.0	7.5
Merged-chr11-49825140-2	chr11	49825040	49825240	+	854.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_013529, intron 13 of 18)	intron (NM_013529, intron 13 of 18)	-21611.0	NM_001163671	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	6.5	14.5	5.5	60.5	21.5	3.5	3.0	2.0
Merged-chr14-72709387-2	chr14	72709287	72709487	+	999.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 1 of 25)	CpG	616.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	6.0	4.5	16.0	60.5	6.5	6.0	3.5	12.5
Merged-chr12-86888776-5	chr12	86888691	86888891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGGG)n|Simple_repeat|Simple_repeat	-3977.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	56.0	64.0	53.5	450.5	108.5	56.0	50.0	60.5
Merged-chr19-30030437-4	chr19	30030329	30030529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144873)	promoter-TSS (NM_144873)	-84.0	NM_144873	109113.0	Mm.313364	NM_144873	ENSMUSG00000024817	Uhrf2	2310065A22Rik|AI426270|AW214556|D130071B19Rik|Nirf	ubiquitin-like, containing PHD and RING finger domains 2	protein-coding	181.5	321.0	222.5	2790.5	515.0	228.0	223.5	192.0
Merged-chr7-44373922-4	chr7	44373814	44374014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027049, intron 2 of 5)	intron (NM_027049, intron 2 of 5)	1116.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	55.0	82.5	65.5	1415.5	178.5	51.0	98.0	84.5
Merged-chr12-85338994-1	chr12	85338894	85339094	+	1000.0	f0_balb.idr	intron (NM_145138, intron 1 of 21)	CpG	368.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	21.0	51.0	48.5	271.5	54.5	27.0	15.5	22.0
Merged-chr18-5819106-4	chr18	5819020	5819220	+	963.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	226473.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	23.0	19.5	21.5	195.5	73.5	15.5	14.5	20.0
Merged-chr9-44513280-4	chr9	44513184	44513384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007551, exon 2 of 2)	exon (NM_007551, exon 2 of 2)	13137.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	37.5	84.5	30.5	387.5	113.0	53.5	46.0	29.5
Merged-chr12-55385092-4	chr12	55384983	55385183	+	914.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 1 of 6)	intron (NM_001310583, intron 1 of 6)	861.0	NM_001310583	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	7.0	13.5	15.5	160.5	40.0	15.0	5.5	20.5
Merged-chr6-73772136-3	chr6	73772035	73772235	+	826.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-301114.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	8.5	6.5	9.0	250.5	0.5	1.0	1.0	1.0
Merged-chr1-88095082-4	chr1	88094996	88095196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201642)	promoter-TSS (NM_201642)	95.0	NM_201642	394432.0	Mm.300095	NM_201642	ENSMUSG00000090124	Ugt1a7c	A10'|A13|Ugt1a10	UDP glucuronosyltransferase 1 family, polypeptide A7C	protein-coding	40.5	37.0	38.0	658.5	101.0	36.5	40.0	34.5
Merged-chr2-131254159-4	chr2	131254063	131254263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7845.0	NM_001355681	74450.0	Mm.101264	NM_153501	ENSMUSG00000037514	Pank2	4933409I19Rik|AI642621	pantothenate kinase 2	protein-coding	34.0	42.5	19.5	321.5	59.5	25.0	29.0	39.5
Merged-chr3-36475827-4	chr3	36475734	36475934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105976)	promoter-TSS (NR_105976)	53.0	NM_009673	11747.0	Mm.1620	NM_009673	ENSMUSG00000027712	Anxa5	Anx5|R74653	annexin A5	protein-coding	396.5	721.0	480.0	6285.5	914.0	354.0	536.5	396.5
Merged-chr3-14579793-3	chr3	14579657	14579857	+	813.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007892, intron 1 of 7)	intron (NM_007892, intron 1 of 7)	1086.0	NM_007892	13559.0	Mm.153415	NM_007892	ENSMUSG00000027552	E2f5	AU024671|E2F-5	E2F transcription factor 5	protein-coding	5.5	7.0	11.0	130.5	12.5	6.5	3.0	2.0
Merged-chr2-84655982-4	chr2	84655887	84656087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 1 of 18)	B1_Mur2|SINE|Alu	2990.0	NM_001355064	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	62.0	83.0	65.5	1163.0	161.5	42.0	70.5	78.5
Merged-chr11-19018212-4	chr11	19018130	19018330	+	919.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001193271, exon 1 of 13)	exon (NM_001193271, exon 1 of 13)	739.0	NM_001193271	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	15.0	23.5	21.5	374.0	35.5	7.5	11.5	9.0
Merged-chr11-16669931-4	chr11	16669843	16670043	+	909.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82260.0	NM_207655	13649.0	Mm.8534	NM_007912	ENSMUSG00000020122	Egfr	9030024J15Rik|AI552599|Erbb|Errb1|Errp|Wa5|wa-2|wa2	epidermal growth factor receptor	protein-coding	14.5	20.5	24.0	335.5	35.0	11.0	28.5	17.5
Merged-chr2-30442695-3	chr2	30442607	30442807	+	903.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138748, intron 8 of 9)	intron (NM_138748, intron 8 of 9)	26657.0	NM_138748	110854.0	Mm.275393	NM_138748	ENSMUSG00000039515	Ptpa	2610042B21Rik|C77440|N28142|PR53|Ppp2r4	protein phosphatase 2 protein activator	protein-coding	14.5	13.5	7.0	119.0	26.0	6.5	17.0	7.5
Merged-chr11-67965593-4	chr11	67965461	67965661	+	775.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361351)	promoter-TSS (NM_001361351)	81.0	NM_027963	71860.0	Mm.441823	NM_027963	ENSMUSG00000020904	Cfap52	1700019F09Rik|4933417B11Rik|WDRPUH|Wdr16	cilia and flagella associated protein 52	protein-coding	13.0	10.0	19.0	144.5	19.0	9.0	8.0	11.5
Merged-chr15-50819996-3	chr15	50819881	50820081	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	69068.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	27.0	50.0	29.5	264.5	43.0	11.0	13.0	10.0
Merged-chr6-6248626-3	chr6	6248517	6248717	+	985.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_136906)	promoter-TSS (NR_136906)	-42.0	NR_136906	101056138.0	Mm.389085	NR_136904	ENSMUSG00000093482	Gm20619	-	predicted gene 20619	ncRNA	17.0	18.5	33.5	524.5	20.0	8.5	9.0	22.5
Merged-chr10-62488476-4	chr10	62488372	62488572	+	818.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1667.0	NM_001358543	30930.0	Mm.260703	NM_133672	ENSMUSG00000020078	Vps26a	AA407240|HB58|Vps26	VPS26 retromer complex component A	protein-coding	12.5	16.5	6.0	116.5	25.0	12.0	13.0	7.5
Merged-chr8-125462410-3	chr8	125462304	125462504	+	898.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 10 of 21)	intron (NM_001357372, intron 10 of 21)	30429.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	2.0	5.0	0.5	32.0	28.0	6.5	14.5	6.0
Merged-chr7-63753532-4	chr7	63753424	63753624	+	876.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130880, intron 11 of 13)	intron (NM_130880, intron 11 of 13)	-163333.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	13.5	13.0	1.5	137.5	28.5	14.0	7.5	15.0
Merged-chr1-156533689-4	chr1	156533595	156533795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-25092.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	39.0	33.0	36.0	659.0	133.0	49.5	50.5	40.0
Merged-chr13-91421768-3	chr13	91421695	91421895	+	628.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33710.0	NR_045161	320297.0	Mm.375866	NR_045161	ENSMUSG00000097182	A830009L08Rik	-	RIKEN cDNA A830009L08 gene	ncRNA	6.0	5.5	8.5	209.0	8.5	1.5	7.5	3.5
Merged-chr17-43667228-4	chr17	43667119	43667319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018887)	promoter-TSS (NM_018887)	-5.0	NM_001357123	74011.0	Mm.288697	NM_028711	ENSMUSG00000023912	Slc25a27	3632410G24Rik|9430092A03Rik|D530043E16Rik|Ucp4	solute carrier family 25, member 27	protein-coding	42.0	45.5	17.0	754.0	121.0	38.0	56.5	39.0
Merged-chr12-100471477-3	chr12	100471327	100471527	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 3 of 19)	L1MEc|LINE|L1	49395.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	8.0	5.0	16.5	335.5	18.5	4.5	2.0	4.0
Merged-chr1-16665244-4	chr1	16665151	16665351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026392)	promoter-TSS (NM_026392)	60.0	NM_026392	70397.0	Mm.194225	NM_026392	ENSMUSG00000025940	Tmem70	1110020A09Rik|2210416J16Rik	transmembrane protein 70	protein-coding	52.0	60.5	67.5	957.0	98.5	32.0	56.5	44.5
Merged-chr3-146445024-4	chr3	146444929	146445129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5438.0	NM_028836	74245.0	Mm.45396	NM_028836	ENSMUSG00000028189	Ctbs	2210401K11Rik|CTB	chitobiase, di-N-acetyl-	protein-coding	52.0	57.5	74.5	942.0	111.0	48.0	75.5	78.5
Merged-chr6-127561314-4	chr6	127561229	127561429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16646.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	43.5	43.5	53.5	529.0	79.0	20.5	44.0	45.0
Merged-chr13-54685353-3	chr13	54685268	54685468	+	729.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027396, intron 1 of 10)	intron (NR_027396, intron 1 of 10)	2440.0	NM_001146025	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	2.5	4.5	3.5	75.0	13.0	6.0	6.0	7.5
Merged-chr10-30660753-4	chr10	30660649	30660849	+	959.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 10 of 14)	intron (NM_001358842, intron 10 of 14)	-4882.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	10.5	28.0	13.5	257.0	71.5	19.0	17.5	20.5
Merged-chr7-80055997-4	chr7	80055873	80056073	+	847.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	19284.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	12.5	11.0	9.5	201.5	10.5	5.0	7.0	5.0
Merged-chr12-100439460-7	chr12	100439347	100439547	+	987.0476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	ORR1E|LTR|ERVL-MaLR	81375.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	22.5	22.5	11.0	324.5	30.0	4.0	7.0	12.5
Merged-chr6-46204736-1	chr6	46204636	46204836	+	788.666687	f0_balb.idr	intron (NM_001004357, intron 9 of 23)	ORR1B2|LTR|ERVL-MaLR	-1039660.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	10.5	12.5	15.5	159.5	0.0	0.0	0.0	0.5
Merged-chr9-90276392-4	chr9	90276300	90276500	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5631.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	14.0	26.0	15.5	278.0	77.0	27.5	32.0	29.0
Merged-chr5-109551240-4	chr5	109551236	109551436	+	837.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7657.0	NM_016715	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	3.0	6.5	7.0	61.5	21.0	15.5	8.0	15.5
Merged-chr19-24280420-4	chr19	24280286	24280486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008044, intron 1 of 4)	CpG	200.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	70.0	148.5	132.0	1319.0	130.0	60.0	64.5	60.0
Merged-chr4-149756623-4	chr4	149756563	149756763	+	782.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027460, intron 2 of 6)	B1_Mm|SINE|Alu	17604.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	9.0	6.0	4.0	67.5	9.5	7.5	8.5	9.0
Merged-chr11-96967059-4	chr11	96966978	96967178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030220, intron 1 of 6)	intron (NM_030220, intron 1 of 6)	10610.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	53.5	92.0	38.5	583.0	129.0	59.5	56.5	37.5
Merged-chr7-97376121-4	chr7	97376008	97376208	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199035, intron 2 of 12)	intron (NM_199035, intron 2 of 12)	4491.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	19.0	31.0	21.0	364.5	62.5	13.0	23.5	29.5
Merged-chr6-97444332-3	chr6	97444219	97444419	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	14967.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.0	5.0	5.5	72.0	6.0	0.5	2.5	4.0
Merged-chr16-44746295-4	chr16	44746190	44746390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356392)	promoter-TSS (NM_001356392)	73.0	NM_001356392	66067.0	Mm.34520	NM_025332	ENSMUSG00000022668	Gtpbp8	0610037H22Rik	GTP-binding protein 8 (putative)	protein-coding	32.5	62.0	46.5	499.5	80.5	33.5	45.0	30.5
Merged-chr19-6921972-4	chr19	6921869	6922069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007953)	promoter-TSS (NM_007953)	-161.0	NM_007953	26379.0	Mm.386776	NM_007953	ENSMUSG00000024955	Esrra	ERRalpha|Err1|Estrra|Nr3b1	estrogen related receptor, alpha	protein-coding	348.0	475.0	233.0	3019.5	617.5	293.0	285.0	252.5
Merged-chr1-91057745-4	chr1	91057592	91057792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	4248.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	24.5	37.5	32.0	374.5	64.5	30.0	25.5	24.0
Merged-chr10-67537600-6	chr10	67537499	67537699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010118)	promoter-TSS (NM_010118)	-270.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	45.5	122.0	126.5	997.0	176.0	75.5	68.0	77.0
Merged-chr9-5308752-4	chr9	5308642	5308842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007609)	promoter-TSS (NM_007609)	-107.0	NM_007609	12363.0	Mm.1569	NM_007609	ENSMUSG00000033538	Casp4	CASP-11|CASP-4|Casp11|Caspl|ich-3	caspase 4, apoptosis-related cysteine peptidase	protein-coding	197.5	261.0	165.5	2627.0	416.0	167.5	190.0	135.5
Merged-chr12-73794243-4	chr12	73794186	73794386	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107038.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	18.0	38.0	15.0	310.5	80.0	23.0	25.5	13.5
Merged-chr2-104095892-4	chr2	104095827	104096027	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001111060, exon 1 of 5)	5' UTR (NM_001111060, exon 1 of 5)	126.0	NM_001111060	12509.0	Mm.247265	NM_007652	ENSMUSG00000032679	Cd59a	AA987121|Cd59|protectin	CD59a antigen	protein-coding	22.0	18.5	32.5	223.5	12.0	6.5	10.5	12.5
Merged-chr15-27675815-4	chr15	27675713	27675913	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	5729.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	30.5	30.5	23.0	396.5	42.0	13.5	20.0	21.0
Merged-chr12-111426234-4	chr12	111426106	111426306	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028807, exon 8 of 13)	exon (NM_028807, exon 8 of 13)	8761.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	16.0	42.0	13.0	250.5	45.0	25.5	18.5	26.0
Merged-chr1-193897022-4	chr1	193896901	193897101	+	911.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	325758.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	23.5	19.0	15.0	256.0	37.0	18.5	17.0	32.0
Merged-chr13-44937917-4	chr13	44937810	44938010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 7 of 9)	RMER17C2|LTR|ERVK	64186.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	33.5	51.5	44.5	691.5	99.0	32.0	32.0	34.0
Merged-chr6-123252974-4	chr6	123252863	123253063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9144.0	NM_001163161	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	135.5	200.5	137.0	1643.5	344.5	103.5	130.5	134.0
Merged-chr10-128913419-4	chr10	128913335	128913535	+	830.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001282966)	TTS (NM_001282966)	3569.0	NM_007653	12512.0	Mm.371552	NM_007653	ENSMUSG00000025351	Cd63	C75951|ME491|Tspan30	CD63 antigen	protein-coding	8.5	15.0	8.0	200.0	30.5	13.0	12.0	11.5
Merged-chr6-123095470-8	chr6	123095366	123095566	+	902.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27224.0	NM_001170332	26888.0	Mm.47384	NM_011999	ENSMUSG00000030148	Clec4a2	Clec4a|Clecsf6|DCIR|Dcir1	C-type lectin domain family 4, member a2	protein-coding	10.0	12.0	14.0	73.5	14.5	4.5	5.0	7.0
Merged-chr11-101226341-4	chr11	101226233	101226433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007970, intron 1 of 20)	CpG	130.0	NM_007970	14055.0	Mm.5027	NM_007970	ENSMUSG00000006920	Ezh1	ENX-2	enhancer of zeste 1 polycomb repressive complex 2 subunit	protein-coding	32.0	54.0	33.5	441.5	67.0	38.0	37.0	32.5
Merged-chr16-97535124-4	chr16	97535037	97535237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003508)	promoter-TSS (NR_003508)	-944.0	NR_003508	17858.0	Mm.14157	NM_013606	ENSMUSG00000023341	Mx2	AI528743|Mx-2	MX dynamin-like GTPase 2	protein-coding	156.5	203.0	172.5	2391.0	377.5	124.5	140.5	156.0
Merged-chr8-46792868-4	chr8	46792751	46792951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	53106.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	44.5	53.0	25.0	547.0	89.0	43.0	54.0	35.5
Merged-chr18-36465217-4	chr18	36465100	36465300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-10705.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	107.5	143.5	87.0	1396.5	227.0	98.0	92.0	80.5
Merged-chr4-98924233-4	chr4	98924111	98924311	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_146144, exon 1 of 9)	5' UTR (NM_146144, exon 1 of 9)	401.0	NM_001356424	230484.0	Mm.371692	NM_146144	ENSMUSG00000028560	Usp1	-	ubiquitin specific peptidase 1	protein-coding	10.0	14.5	10.0	141.5	49.5	13.0	20.0	19.0
Merged-chr12-16904100-3	chr12	16903999	16904199	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	ORR1D2|LTR|ERVL-MaLR	9121.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	10.0	8.5	5.0	100.5	13.5	1.5	1.5	6.5
Merged-chr1-131091029-4	chr1	131090915	131091115	+	885.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	6828.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	11.0	18.0	8.5	89.0	12.0	10.0	6.5	12.5
Merged-chr11-74838596-4	chr11	74838492	74838692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010813, intron 4 of 5)	CpG	7668.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	207.0	339.0	156.5	2587.5	514.0	195.5	216.5	217.0
Merged-chr2-84788490-4	chr2	84788375	84788575	+	957.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10353.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	9.0	15.0	18.0	249.5	69.0	23.0	27.0	21.5
Merged-chr8-94995679-3	chr8	94995586	94995786	+	896.7666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018882, intron 1 of 13)	intron (NM_018882, intron 1 of 13)	11287.0	NM_018882	14766.0	Mm.290834	NM_018882	ENSMUSG00000031785	Adgrg1	Cyt28|Gpr56|TM7LN4|TM7XN1	adhesion G protein-coupled receptor G1	protein-coding	22.5	21.0	12.5	99.5	23.5	6.0	18.0	8.0
Merged-chr9-123259873-4	chr9	123259830	123260030	+	895.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001002267, exon 1 of 1)	exon (NM_001002267, exon 1 of 1)	859.0	NM_001002267	72309.0	Mm.8569	NM_001002267	ENSMUSG00000054871	Tmem158	2310037P21Rik|Ris1	transmembrane protein 158	protein-coding	15.5	18.0	11.0	276.0	21.0	5.5	10.5	15.0
Merged-chr16-18419607-4	chr16	18419506	18419706	+	769.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007744, intron 1 of 4)	B4A|SINE|B4	-6112.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	14.5	11.5	26.5	426.5	25.5	7.5	18.0	20.0
Merged-chr7-81921806-4	chr7	81921747	81921947	+	869.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013886, intron 1 of 5)	intron (NM_013886, intron 1 of 5)	12612.0	NM_013886	29877.0	Mm.392934	NM_013886	ENSMUSG00000025104	Hdgfl3	2700022B06Rik|HRP-3|Hdgfrp3	HDGF like 3	protein-coding	14.0	9.5	9.5	138.0	25.5	9.5	11.5	10.5
Merged-chr1-171851719-4	chr1	171851624	171851824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	intron (NM_001289470, intron 2 of 8)	12027.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	52.0	65.0	34.0	605.0	80.0	53.0	55.5	55.5
Merged-chr15-73068244-4	chr15	73068166	73068366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7062.0	NM_001164643	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	21.0	18.0	7.5	307.5	74.0	16.5	23.5	19.5
Merged-chr2-91508228-4	chr2	91508077	91508277	+	776.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 36 of 37)	MLT1F2|LTR|ERVL-MaLR	-18585.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	4.0	6.5	6.5	58.0	16.0	9.0	10.0	11.0
Merged-chr10-10318991-4	chr10	10318917	10319117	+	873.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153297.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	18.0	29.5	15.0	374.5	22.0	4.0	12.0	10.5
Merged-chr19-47440234-4	chr19	47440122	47440322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	24189.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	44.5	56.0	78.5	1326.5	48.5	15.0	20.5	44.0
Merged-chr14-17660136-4	chr14	17660039	17660239	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113417)	promoter-TSS (NM_001113417)	-821.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	30.0	30.0	35.0	518.0	55.0	18.0	20.0	19.5
Merged-chr4-120405604-4	chr4	120405546	120405746	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013883, intron 1 of 16)	CpG	365.0	NM_013883	29871.0	Mm.427014	NM_013883	ENSMUSG00000000085	Scmh1	AI315320|AI851618|Scml1|Scml3	sex comb on midleg homolog 1	protein-coding	14.0	11.5	14.5	244.0	44.0	7.5	17.5	15.5
Merged-chr9-105139393-4	chr9	105139308	105139508	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5674.0	NM_028562	73532.0	Mm.23516	NM_028562	ENSMUSG00000032566	1700080E11Rik	AI429110|Tseg8	RIKEN cDNA 1700080E11 gene	protein-coding	13.0	14.0	8.0	190.0	45.5	6.0	18.5	10.0
Merged-chr1-192137154-3	chr1	192137044	192137244	+	949.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033536, intron 1 of 3)	CpG	246.0	NR_033536	100038712.0	Mm.474908	NR_033536	ENSMUSG00000097316	Gm10516	-	predicted gene 10516	ncRNA	12.5	15.5	16.0	180.5	21.5	16.5	3.0	22.0
Merged-chr4-88719031-3	chr4	88718926	88719126	+	862.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172871, exon 1 of 1)	3' UTR (NM_172871, exon 1 of 1)	3482.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	11.5	15.0	10.5	418.0	16.5	4.0	11.5	5.5
Merged-chr9-119948992-4	chr9	119948905	119949105	+	848.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028735, intron 9 of 28)	intron (NM_028735, intron 9 of 28)	11399.0	NM_028735	74052.0	Mm.189573	NM_028735	ENSMUSG00000032514	Ttc21a	4921538N17Rik|AA387572|Thm2	tetratricopeptide repeat domain 21A	protein-coding	17.0	29.0	9.0	137.0	36.5	17.0	10.5	9.5
Merged-chr6-26764948-4	chr6	26764846	26765046	+	929.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	833520.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	20.0	25.0	25.0	558.5	40.0	12.0	18.5	12.0
Merged-chr13-67128591-4	chr13	67128482	67128682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172392, intron 1 of 3)	intron (NM_172392, intron 1 of 3)	354.0	NM_172392	268670.0	Mm.56274	NM_172392	ENSMUSG00000057396	Zfp759	BC028265|Rslcan-8|Rslcan8	zinc finger protein 759	protein-coding	28.0	46.0	67.5	460.0	50.5	23.0	36.5	32.0
Merged-chr6-100671220-4	chr6	100671117	100671317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181590)	promoter-TSS (NM_181590)	-60.0	NM_181590	72171.0	Mm.256022	NM_181590	ENSMUSG00000035378	Shq1	2810403P18Rik|Grim-1	SHQ1 homolog (S. cerevisiae)	protein-coding	142.0	195.5	127.0	1784.5	353.0	139.5	155.0	111.0
Merged-chr11-121340496-4	chr11	121340420	121340620	+	857.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025793, intron 3 of 9)	intron (NM_025793, intron 3 of 9)	13927.0	NM_025793	66840.0	Mm.103986	NM_025793	ENSMUSG00000025173	Wdr45b	0610008N23Rik|AA408735|D16Bwg0193e|WIPI-3|Wdr45l	WD repeat domain 45B	protein-coding	13.5	18.5	17.5	138.0	24.0	2.0	11.5	16.5
Merged-chr1-156681393-1	chr1	156681293	156681493	+	1000.0	f1_c57bl6.idr	3' UTR (NM_145413, exon 8 of 8)	3' UTR (NM_145413, exon 8 of 8)	-7054.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	7.0	6.0	12.0	80.0	3.5	4.0	3.5	3.0
Merged-chr2-169934565-4	chr2	169934473	169934673	+	940.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28614.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	17.5	35.5	21.5	274.5	31.0	9.0	21.5	12.5
Merged-chr4-126401158-3	chr4	126401053	126401253	+	857.211121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153402, intron 5 of 18)	intron (NM_153402, intron 5 of 18)	28389.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	11.0	19.5	18.5	225.0	22.0	3.5	6.5	13.0
Merged-chr19-56777193-4	chr19	56777077	56777277	+	968.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36506.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	15.0	29.0	27.5	201.5	22.0	18.5	23.5	18.5
Merged-chr10-26797502-4	chr10	26797393	26797593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	24981.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	136.0	146.0	137.5	2756.5	318.0	78.5	123.5	103.5
Merged-chr4-133153831-3	chr4	133153722	133153922	+	791.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	23189.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	4.0	12.0	6.5	76.0	22.0	10.0	9.5	6.0
Merged-chr9-21166942-4	chr9	21166851	21167051	+	862.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	intron (NM_183408, intron 1 of 14)	1237.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	6.5	5.0	4.5	87.5	26.0	0.0	1.0	16.5
Merged-chr4-86541787-3	chr4	86541695	86541895	+	961.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081096, intron 1 of 3)	intron (NM_001081096, intron 1 of 3)	16508.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	22.5	22.0	16.5	338.5	14.5	1.0	2.0	4.5
Merged-chr4-122997154-3	chr4	122997007	122997207	+	865.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008506, intron 1 of 1)	intron (NM_008506, intron 1 of 1)	1176.0	NM_008506	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	4.5	4.5	5.5	57.5	9.0	3.5	4.5	4.0
Merged-chr15-61986650-3	chr15	61986503	61986703	+	894.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177353, intron 1 of 2)	CpG	1262.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	7.5	17.0	19.5	226.0	20.5	4.5	4.5	21.0
Merged-chr3-94879934-3	chr3	94879842	94880042	+	997.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172683, exon 19 of 19)	exon (NM_172683, exon 19 of 19)	7016.0	NM_008945	19172.0	Mm.368	NM_008945	ENSMUSG00000005779	Psmb4	Pros-27	proteasome (prosome, macropain) subunit, beta type 4	protein-coding	2.5	25.0	18.0	130.5	20.0	5.0	13.5	9.5
Merged-chr7-19604479-4	chr7	19604379	19604579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125835)	promoter-TSS (NR_125835)	7.0	NR_125832	53609.0	Mm.20913	NM_016680	ENSMUSG00000061028	Clasrp	Clasp|Sfrs16|Srsf16|Swap2	CLK4-associating serine/arginine rich protein	protein-coding	112.5	143.5	100.5	1461.0	176.5	85.5	101.0	68.5
Merged-chr5-143602290-4	chr5	143602191	143602391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20156.0	NM_011182	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	21.0	41.0	44.5	680.5	116.0	32.5	33.5	55.0
Merged-chr10-57637207-4	chr10	57637108	57637308	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039051, intron 1 of 4)	intron (NM_001039051, intron 1 of 4)	5227.0	NM_001039051	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	29.5	25.0	26.0	490.5	43.0	12.0	15.0	25.0
Merged-chr17-43553978-3	chr17	43553862	43554062	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-10323.0	NM_001254953	100043332.0	Mm.17626	NM_001254953	ENSMUSG00000096140	Ankrd66	AU041848|D730048J04Rik|Gm4368	ankyrin repeat domain 66	protein-coding	23.5	37.5	19.5	348.0	13.5	6.0	2.0	7.0
Merged-chr4-136881156-2	chr4	136881056	136881256	+	770.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009777, intron 2 of 2)	intron (NM_009777, intron 2 of 2)	5021.0	NM_009777	12260.0	Mm.2570	NM_009777	ENSMUSG00000036905	C1qb	-	complement component 1, q subcomponent, beta polypeptide	protein-coding	7.0	6.0	4.5	9.0	9.0	3.0	3.0	3.0
Merged-chr9-100489087-3	chr9	100488976	100489176	+	965.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2603.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	16.0	34.5	15.0	195.0	8.5	6.0	7.0	3.0
Merged-chr5-3279221-3	chr5	3279127	3279327	+	621.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-64666.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	10.0	18.0	8.0	33.5	11.5	10.5	2.5	6.0
Merged-chr14-84443474-4	chr14	84443392	84443592	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013753)	promoter-TSS (NM_001013753)	-71.0	NM_001013753	219228.0	Mm.153643	NM_001013753	ENSMUSG00000035566	Pcdh17	C030033F14Rik|Gm78	protocadherin 17	protein-coding	43.0	71.5	64.0	741.0	63.0	13.5	24.5	34.5
Merged-chr18-56432045-4	chr18	56431966	56432166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026240)	promoter-TSS (NM_026240)	-66.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	100.0	109.5	93.5	1415.0	139.0	54.5	107.5	96.0
Merged-chr2-23015928-4	chr2	23015844	23016044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	intron (NM_001077190, intron 1 of 10)	24297.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	31.5	30.0	24.0	381.5	52.5	24.5	35.0	37.5
Merged-chr10-10551120-3	chr10	10551025	10551225	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	7082.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	3.0	7.0	12.5	198.5	13.0	8.5	9.0	8.5
Merged-chr11-82010789-2	chr11	82010681	82010881	+	618.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-24796.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	9.5	12.5	9.0	73.0	16.0	9.0	11.0	7.5
Merged-chr1-87623884-4	chr1	87623806	87624006	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	3594.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	27.5	31.5	32.0	390.0	31.0	10.0	18.5	24.0
Merged-chr4-35100536-3	chr4	35100404	35100604	+	922.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-51551.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	6.5	13.5	20.5	155.5	21.0	5.5	3.0	14.5
Merged-chr12-12318260-3	chr12	12318176	12318376	+	676.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 2 of 11)	intron (NM_001146119, intron 2 of 11)	56137.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	11.0	9.5	7.0	84.0	5.5	2.5	1.5	6.0
Merged-chr3-87804245-3	chr3	87804165	87804365	+	915.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011832, intron 6 of 21)	intron (NM_011832, intron 6 of 21)	7314.0	NM_011832	23920.0	Mm.42041	NM_011832	ENSMUSG00000005640	Insrr	Irr	insulin receptor-related receptor	protein-coding	8.0	12.0	10.5	107.0	10.0	6.0	4.5	16.0
Merged-chr19-5882174-4	chr19	5882062	5882262	+	960.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134154, intron 4 of 5)	intron (NM_134154, intron 4 of 5)	4340.0	NM_001361974	107375.0	Mm.5323	NM_134154	ENSMUSG00000024818	Slc25a45	AW491445	solute carrier family 25, member 45	protein-coding	12.5	33.5	26.0	407.5	49.5	13.0	18.5	8.5
Merged-chr7-110121846-4	chr7	110121741	110121941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355058)	promoter-TSS (NM_001355058)	-218.0	NM_001355058	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	299.5	499.5	335.5	5145.0	781.5	357.5	458.0	332.0
Merged-chr14-122108482-2	chr14	122108382	122108582	+	768.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_080556, intron 1 of 16)	intron (NM_080556, intron 1 of 16)	1400.0	NM_080556	68059.0	Mm.275191	NM_080556	ENSMUSG00000025544	Tm9sf2	1500001N15Rik|AA536814|D14Ertd64e|P76	transmembrane 9 superfamily member 2	protein-coding	4.0	10.5	1.5	54.0	15.5	4.5	14.0	7.5
Merged-chr3-88137670-3	chr3	88137497	88137697	+	825.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4775.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	3.0	4.0	2.0	10.5	7.5	5.5	5.0	7.5
Merged-chr16-38679587-5	chr16	38679561	38679761	+	955.080017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	33374.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	17.0	31.0	13.5	281.0	33.0	12.5	15.5	19.0
Merged-chr6-84096026-4	chr6	84095931	84096131	+	783.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 17 of 54)	intron (NM_001077694, intron 17 of 54)	76645.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	11.0	7.5	2.0	142.0	23.0	18.0	6.0	15.0
Merged-chr2-164680070-4	chr2	164679952	164680152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-5055.0	NM_001012704	408190.0	Mm.376205	NM_001012704	ENSMUSG00000067704	Wfdc13	Wfdc13l1	WAP four-disulfide core domain 13	protein-coding	54.5	58.0	25.5	622.0	114.0	23.5	46.0	54.0
Merged-chr10-51553974-4	chr10	51553876	51554076	+	854.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36484.0	NM_029894	77296.0	Mm.30588	NM_029894	ENSMUSG00000019909	Fam162b	9430073N08Rik	family with sequence similarity 162, member B	protein-coding	10.0	19.0	9.0	287.5	44.0	20.5	11.0	12.5
Merged-chr13-34236949-4	chr13	34236858	34237058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	RSINE1|SINE|B4	73994.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	19.5	36.5	24.5	504.5	89.5	19.5	52.0	32.5
Merged-chr10-9908131-4	chr10	9908041	9908241	+	967.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7101.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	24.0	24.0	28.0	475.5	48.5	13.0	17.5	4.0
Merged-chr5-135674499-4	chr5	135674399	135674599	+	707.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14646.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	9.0	8.5	9.0	188.0	21.0	14.0	5.0	14.0
Merged-chr10-21849860-1	chr10	21849760	21849960	+	675.0	f1_balb.idr	Intergenic	Intergenic	-32324.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	5.0	7.5	5.5	31.0	0.0	0.0	0.0	1.5
Merged-chr11-116087045-4	chr11	116086950	116087150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347642)	promoter-TSS (NM_001347642)	-55.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	175.5	241.0	101.0	1356.0	419.0	165.0	135.5	130.5
Merged-chr16-11460984-3	chr16	11460894	11461094	+	998.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 13 of 20)	intron (NM_028964, intron 13 of 20)	55346.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	23.5	24.0	28.0	157.0	27.0	5.5	5.0	8.5
Merged-chr13-51115950-4	chr13	51115833	51116033	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283029, intron 1 of 5)	intron (NM_001283029, intron 1 of 5)	14386.0	NM_001283029	20729.0	Mm.188432	NM_011462	ENSMUSG00000021395	Spin1	Spin	spindlin 1	protein-coding	10.5	27.0	14.5	152.5	50.0	12.0	23.5	22.0
Merged-chr4-108789451-4	chr4	108789349	108789549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-8361.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	33.5	63.0	29.0	710.5	67.5	24.0	21.0	21.5
Merged-chr15-75090025-3	chr15	75089933	75090133	+	940.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21904.0	NM_001357693	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	7.5	16.0	8.0	60.0	32.0	19.5	22.0	23.5
Merged-chr7-80837932-4	chr7	80837831	80838031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24177.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	35.5	41.5	50.5	951.5	88.5	22.5	47.5	37.5
Merged-chr17-50666573-3	chr17	50666412	50666612	+	805.644409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 4 of 5)	MTC|LTR|ERVL-MaLR	-32169.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	8.0	12.0	15.5	103.0	16.5	5.0	5.0	9.5
Merged-chr16-55776505-4	chr16	55776410	55776610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45628.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	98.5	213.0	80.0	587.0	361.5	146.5	96.0	56.0
Merged-chr11-22990922-2	chr11	22990822	22991022	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009837, intron 1 of 13)	CpG	329.0	NM_009837	12464.0	Mm.296985	NM_009837	ENSMUSG00000007739	Cct4	2610204B21Rik|A45|C78323|Cctd	chaperonin containing Tcp1, subunit 4 (delta)	protein-coding	34.0	36.5	57.5	415.0	59.5	29.0	27.5	35.5
Merged-chr4-63402522-8	chr4	63402375	63402575	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 1 of 21)	intron (NM_001045514, intron 1 of 21)	970.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	18.5	30.0	11.0	51.5	62.5	14.5	11.5	17.0
Merged-chr15-85383595-4	chr15	85383466	85383666	+	771.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016843, intron 6 of 11)	intron (NM_016843, intron 6 of 11)	47185.0	NM_016843	54138.0	Mm.248906	NM_016843	ENSMUSG00000016541	Atxn10	AI325283|C77170|E46|Sca10|TEG-169|Tex169	ataxin 10	protein-coding	7.0	21.0	13.0	139.0	15.0	8.5	9.5	8.0
Merged-chr7-115124961-3	chr7	115124870	115125070	+	900.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173696.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	10.0	3.5	12.5	162.5	11.5	4.5	5.5	15.0
Merged-chr2-27725113-4	chr2	27724955	27725155	+	821.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	14472.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	3.5	12.5	8.0	193.0	25.5	10.5	8.0	6.0
Merged-chr1-119457388-3	chr1	119457292	119457492	+	850.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35144.0	NM_008381	16324.0	Mm.3092	NM_008381	ENSMUSG00000037035	Inhbb	-	inhibin beta-B	protein-coding	5.5	10.0	7.5	97.5	17.0	4.0	5.0	10.5
Merged-chr5-147063944-1	chr5	147063844	147064044	+	1000.0	f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	12628.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	16.5	37.0	14.5	151.5	3.0	1.0	0.0	3.0
Merged-chr9-90061122-4	chr9	90061023	90061223	+	949.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 2 of 10)	intron (NM_001312649, intron 2 of 10)	6856.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	28.0	44.5	15.5	277.0	58.5	27.0	16.0	12.5
Merged-chr15-38516600-2	chr15	38516500	38516700	+	774.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301688, intron 1 of 11)	intron (NM_001301688, intron 1 of 11)	2666.0	NM_001301688	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	7.5	7.0	4.5	59.5	4.0	2.5	1.0	7.0
Merged-chr7-75796556-4	chr7	75796423	75796623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51815.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	34.0	51.0	34.5	449.0	80.5	34.5	30.0	29.5
Merged-chr17-69396415-4	chr17	69396337	69396537	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12633.0	NM_009547	22666.0	Mm.29434	NM_009547	ENSMUSG00000049672	Zbtb14	ZF5|Zfp161|b2b1982Clo	zinc finger and BTB domain containing 14	protein-coding	19.0	23.5	22.5	183.5	34.5	13.5	6.0	19.0
Merged-chr19-24981602-4	chr19	24981543	24981743	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17886.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	14.0	15.0	10.5	172.5	14.5	9.0	5.5	13.0
Merged-chr9-116134843-4	chr9	116134703	116134903	+	891.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	B3A|SINE|B2	40560.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	9.0	21.5	16.5	98.0	27.5	5.5	10.0	3.5
Merged-chr1-91282750-3	chr1	91282648	91282848	+	875.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355764, intron 9 of 10)	intron (NM_001355764, intron 9 of 10)	-15590.0	NM_016717	50880.0	Mm.25724	NM_016717	ENSMUSG00000026307	Scly	9830169H08|A930015N15Rik|SCL|Scly1|Scly2	selenocysteine lyase	protein-coding	7.0	19.0	5.5	264.0	4.5	3.0	7.5	7.5
Merged-chr14-26971659-4	chr14	26971551	26971751	+	910.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1100.0	NM_145221	72993.0	Mm.202322	NM_145221	ENSMUSG00000040760	Appl1	2900057D21Rik|7330406P05Rik|AI585782|AW209077|BB022931|C88264|DIP13	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 1	protein-coding	13.5	47.0	17.0	176.0	52.5	24.0	12.0	13.5
Merged-chr10-98775024-4	chr10	98774938	98775138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139604.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	99.0	112.0	87.0	1177.0	204.0	55.5	70.0	81.0
Merged-chr14-30643572-2	chr14	30643472	30643672	+	698.3000490000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10803.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	4.5	5.0	5.0	39.5	13.5	2.0	4.0	7.5
Merged-chr9-25482005-3	chr9	25481911	25482111	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 1 of 7)	intron (NM_026189, intron 1 of 7)	414.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	18.0	36.5	31.5	229.5	48.5	12.5	16.0	26.0
Merged-chr6-48645822-2	chr6	48645734	48645934	+	606.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-1400.0	NM_001077410	243374.0	Mm.86514	NM_212486	ENSMUSG00000064262	Gimap8	Gm457|IAN9|IMAP8	GTPase, IMAP family member 8	protein-coding	6.5	4.5	6.5	88.5	19.0	11.0	5.5	10.0
Merged-chr8-119836892-5	chr8	119836795	119836995	+	801.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	3684.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	4.0	16.0	9.5	139.0	23.5	10.5	10.5	15.5
Merged-chr5-142222355-3	chr5	142222245	142222445	+	845.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-179152.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	1.0	0.5	2.0	83.5	38.5	12.0	30.5	27.5
Merged-chr6-85434080-4	chr6	85433989	85434189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144918, intron 1 of 12)	intron (NM_144918, intron 1 of 12)	2113.0	NM_144918	232187.0	Mm.219946	NM_144918	ENSMUSG00000033706	Smyd5	AW536703|NN8-4AG|Rai15|Rrg1	SET and MYND domain containing 5	protein-coding	58.0	90.5	57.0	984.0	157.0	36.5	72.0	86.0
Merged-chr7-31002844-4	chr7	31002743	31002943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20922.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	77.0	76.0	85.0	1060.0	132.5	74.5	72.5	64.0
Merged-chr2-61138694-3	chr2	61138609	61138809	+	936.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163558.0	NR_045335	100038493.0	Mm.388076	NR_045335	ENSMUSG00000075325	Gm13582	-	predicted gene 13582	ncRNA	8.5	7.5	6.0	133.0	1.5	9.5	4.0	6.5
Merged-chr8-83739389-4	chr8	83739263	83739463	+	974.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	intron (NM_011925, intron 1 of 19)	1948.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	9.0	6.0	15.5	160.0	56.5	17.5	28.5	26.5
Merged-chr1-150373058-4	chr1	150372948	150373148	+	660.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357579, intron 11 of 13)	intron (NM_001357579, intron 11 of 13)	-19790.0	NM_133780	108989.0	Mm.174256	NM_133780	ENSMUSG00000006005	Tpr	2610029M07Rik|C77892	translocated promoter region, nuclear basket protein	protein-coding	4.0	19.5	13.0	135.5	18.5	13.0	7.0	11.5
Merged-chr8-82376362-3	chr8	82376274	82376474	+	906.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	MLT2B3|LTR|ERVL	26212.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	10.5	8.5	7.0	100.5	37.5	7.5	7.5	2.0
Merged-chr4-150015592-2	chr4	150015487	150015687	+	694.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6564.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	4.5	5.5	3.0	85.5	11.5	6.5	6.0	5.0
Merged-chr2-163995073-4	chr2	163994988	163995188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018753)	promoter-TSS (NM_018753)	-109.0	NM_018753	54401.0	Mm.34319	NM_018753	ENSMUSG00000018326	Ywhab	1300003C17Rik|14-3-3b	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide	protein-coding	137.5	169.5	125.0	2144.0	306.5	157.5	180.0	118.5
Merged-chr9-100504538-4	chr9	100504441	100504641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 2 of 3)	L3|LINE|CR1	2315.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	38.5	86.0	32.5	234.0	144.0	37.0	33.5	27.0
Merged-chr10-36974489-4	chr10	36974394	36974594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008229)	promoter-TSS (NM_008229)	-50.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	100.0	109.5	100.0	1440.5	221.5	111.0	122.0	125.5
Merged-chr6-39278531-4	chr6	39278427	39278627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71754.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	91.5	107.5	122.0	1596.0	69.5	34.0	53.0	31.0
Merged-chr3-51422225-4	chr3	51422128	51422328	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053089, intron 1 of 19)	MTD|LTR|ERVL-MaLR	6212.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	18.0	25.5	26.5	248.0	25.5	7.5	15.0	19.5
Merged-chr16-17451950-4	chr16	17451860	17452060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277231)	promoter-TSS (NM_001277231)	-25.0	NM_001277231	12929.0	Mm.21048	NM_007764	ENSMUSG00000006134	Crkl	1110025F07Rik|AA589403|AI325100|Crkol	v-crk avian sarcoma virus CT10 oncogene homolog-like	protein-coding	126.5	165.5	109.0	1885.5	322.0	131.0	164.5	130.0
Merged-chr9-45893928-4	chr9	45893825	45894025	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178709, intron 5 of 13)	MTC|LTR|ERVL-MaLR	12257.0	NM_001361114	235315.0	Mm.220945	NM_178709	ENSMUSG00000042790	Rnf214	D130054N24Rik	ring finger protein 214	protein-coding	19.5	36.0	16.5	355.5	42.0	12.5	32.5	12.0
Merged-chr18-34888706-4	chr18	34888616	34888816	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27509.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	31.0	37.5	25.0	253.5	48.0	14.0	24.5	21.0
Merged-chr18-23431126-4	chr18	23431022	23431222	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361217, intron 1 of 20)	intron (NM_001361217, intron 1 of 20)	15713.0	NM_001361217	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	19.5	29.5	24.5	510.0	23.0	17.5	6.5	10.5
Merged-chr6-129402637-4	chr6	129402542	129402742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019985, intron 4 of 5)	intron (NM_019985, intron 4 of 5)	5345.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	22.0	27.5	28.0	775.5	95.5	27.5	52.0	41.0
Merged-chr4-141619110-3	chr4	141619000	141619200	+	959.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145987)	promoter-TSS (NM_145987)	-467.0	NR_151462	213989.0	Mm.34891	NM_145987	ENSMUSG00000043085	Tmem82	-	transmembrane protein 82	protein-coding	10.0	13.5	10.0	151.0	14.5	12.0	8.0	3.5
Merged-chr3-153968746-4	chr3	153968660	153968860	+	933.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4676.0	NM_001081263	242259.0	Mm.239962	NM_001081263	ENSMUSG00000028360	Slc44a5	AA117069|Gm422	solute carrier family 44, member 5	protein-coding	14.0	30.5	9.0	141.0	61.5	8.5	18.5	17.0
Merged-chr4-109202167-4	chr4	109202052	109202252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133885, exon 1 of 23)	exon (NM_133885, exon 1 of 23)	120.0	NM_133885	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	81.0	116.0	112.5	913.0	103.5	59.5	70.0	62.5
Merged-chr17-32617437-3	chr17	32617337	32617537	+	837.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuLV-int|LTR|ERV1	-3882.0	NM_001100187	677156.0	Mm.484117	NM_001100187	ENSMUSG00000062464	Cyp4f37	Gm9705	cytochrome P450, family 4, subfamily f, polypeptide 37	protein-coding	10.0	6.5	5.0	123.0	17.5	10.5	8.5	5.0
Merged-chr19-21943614-4	chr19	21943527	21943727	+	827.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	165287.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	8.5	9.0	9.5	110.5	24.0	8.5	11.5	11.5
Merged-chr11-78114840-3	chr11	78114738	78114938	+	708.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145430, intron 1 of 2)	intron (NM_145430, intron 1 of 2)	20165.0	NM_145430	216971.0	Mm.119387	NM_145430	ENSMUSG00000037750	Fam222b	9630020I17Rik	family with sequence similarity 222, member B	protein-coding	3.0	8.0	2.5	81.5	20.5	7.5	5.5	10.5
Merged-chr7-116491260-4	chr7	116491166	116491366	+	968.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-13103.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	19.5	36.5	14.0	379.5	56.0	34.0	24.0	22.0
Merged-chr15-64279396-3	chr15	64279319	64279519	+	837.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	33254.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	8.5	6.0	7.0	99.5	9.0	2.5	2.5	7.5
Merged-chr17-48249286-2	chr17	48249186	48249386	+	899.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_021407, intron 1 of 3)	intron (NM_021407, intron 1 of 3)	1557.0	NM_021407	58218.0	Mm.302438	NM_021407	ENSMUSG00000041754	Trem3	BB134760	triggering receptor expressed on myeloid cells 3	protein-coding	4.5	12.0	5.5	73.0	21.5	5.5	6.0	0.0
Merged-chr7-90265767-4	chr7	90265682	90265882	+	863.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183293)	promoter-TSS (NM_183293)	-350.0	NR_111924	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	9.0	15.5	7.5	171.5	46.0	17.5	17.5	17.5
Merged-chr15-103165642-4	chr15	103165557	103165757	+	927.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2373.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	24.0	14.0	13.5	141.0	41.5	14.5	21.0	18.5
Merged-chr10-80165872-4	chr10	80165730	80165930	+	939.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-2009.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	5.5	6.0	11.5	200.0	28.0	7.0	10.0	12.0
Merged-chr7-100944455-4	chr7	100944365	100944565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	-12304.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	52.5	75.0	48.5	934.0	91.5	34.0	48.0	53.5
Merged-chr8-119112911-3	chr8	119112789	119112989	+	665.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019707, intron 7 of 13)	intron (NM_019707, intron 7 of 13)	-231649.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	5.5	6.5	5.0	106.5	11.0	1.0	6.5	2.5
Merged-chr10-110794744-2	chr10	110794649	110794849	+	768.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49310.0	NM_178609	52679.0	Mm.11747	NM_178609	ENSMUSG00000020185	E2f7	A630014C11Rik|D10Ertd739e|E2F-7	E2F transcription factor 7	protein-coding	9.0	5.0	4.5	71.5	18.5	4.5	7.0	4.0
Merged-chr8-46811493-4	chr8	46811384	46811584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 5 of 7)	intron (NR_152560, intron 5 of 7)	71739.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	116.5	167.5	82.5	1862.0	231.5	99.0	86.0	107.5
Merged-chr13-54580428-2	chr13	54580328	54580528	+	604.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019968, intron 3 of 3)	intron (NM_019968, intron 3 of 3)	5415.0	NM_019968	56795.0	Mm.89484	NM_019968	ENSMUSG00000025870	Arl10	Arl10a|Arm1	ADP-ribosylation factor-like 10	protein-coding	2.0	1.0	2.0	8.0	10.5	4.5	4.5	5.0
Merged-chr12-91746611-4	chr12	91746509	91746709	+	892.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	MTC|LTR|ERVL-MaLR	39827.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	9.0	18.0	16.0	185.5	23.5	5.0	15.0	26.5
Merged-chr8-66405956-4	chr8	66405875	66406075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	intron (NM_175188, intron 5 of 7)	19674.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	59.0	80.0	69.5	480.0	134.5	49.5	40.5	43.5
Merged-chr6-85029118-4	chr6	85029026	85029226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 1 of 21)	intron (NM_177077, intron 1 of 21)	40387.0	NM_177077	75914.0	Mm.159621	NM_177077	ENSMUSG00000033769	Exoc6b	4930569O18Rik|G430127E12Rik|Sec15b|Sec15l2|mKIAA0919	exocyst complex component 6B	protein-coding	26.5	49.5	37.0	621.0	36.0	17.0	25.5	32.5
Merged-chr12-3759672-4	chr12	3759584	3759784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027869, intron 16 of 20)	intron (NR_027869, intron 16 of 20)	-47296.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	56.0	110.5	51.5	1024.5	125.0	40.5	44.5	63.0
Merged-chr1-94147239-4	chr1	94147125	94147325	+	938.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94672.0	NM_008798	18566.0	Mm.5024	NM_008798	ENSMUSG00000026285	Pdcd1	Ly101|PD-1|Pdc1	programmed cell death 1	protein-coding	12.0	13.5	14.0	276.0	44.5	16.0	25.5	19.0
Merged-chr14-121451283-4	chr14	121451178	121451378	+	910.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53976.0	NM_053079	56643.0	Mm.155618	NM_053079	ENSMUSG00000025557	Slc15a1	D630032F02|PECT1|PEPT1	solute carrier family 15 (oligopeptide transporter), member 1	protein-coding	9.0	32.0	12.0	259.5	28.5	19.0	25.5	19.5
Merged-chr3-67564909-4	chr3	67564832	67565032	+	716.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17836.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	2.5	5.0	6.0	124.5	21.0	5.5	15.5	11.0
Merged-chr14-77874870-4	chr14	77874725	77874925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025384)	promoter-TSS (NM_025384)	92.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	21.5	44.0	46.5	463.5	88.0	34.5	38.0	34.0
Merged-chr17-80706616-4	chr17	80706522	80706722	+	973.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360278, intron 1 of 33)	intron (NM_001360278, intron 1 of 33)	21403.0	NM_001360278	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	12.5	17.0	32.5	511.0	40.0	5.0	19.0	24.0
Merged-chr17-34862284-4	chr17	34862192	34862392	+	937.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013484)	TTS (NM_013484)	222.0	NM_001142706	14962.0	Mm.653	NM_008198	ENSMUSG00000090231	Cfb	AI195813|AI255840|B|Bf|C2|Fb|H2-Bf	complement factor B	protein-coding	13.5	24.5	5.5	197.5	81.5	22.0	23.5	12.5
Merged-chr8-90954953-4	chr8	90954878	90955078	+	855.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 3 of 39)	intron (NM_177224, intron 3 of 39)	22729.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	8.5	25.5	11.0	209.5	24.0	14.5	22.0	8.0
Merged-chr13-37893816-1	chr13	37893716	37893916	+	610.666687	f0_balb.idr	non-coding (NR_033615, exon 4 of 10)	non-coding (NR_033615, exon 4 of 10)	4945.0	NM_001177869	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	6.0	5.0	8.0	109.0	11.5	4.0	1.5	3.5
Merged-chr16-77300687-4	chr16	77300591	77300791	+	902.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28637.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	11.5	17.0	18.0	288.0	30.0	13.0	13.5	10.0
Merged-chr17-70854211-3	chr17	70854132	70854332	+	876.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164074)	promoter-TSS (NM_001164074)	-700.0	NM_001164074	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	2.0	12.0	8.5	71.5	13.0	7.0	7.5	9.0
Merged-chr4-33099331-4	chr4	33099230	33099430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33226.0	NM_008075	14408.0	Mm.14116	NM_008075	ENSMUSG00000028280	Gabrr1	GABA-C	gamma-aminobutyric acid (GABA) C receptor, subunit rho 1	protein-coding	45.0	97.0	70.0	1145.0	141.5	44.0	68.0	34.0
Merged-chr17-56472992-4	chr17	56472895	56473095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 1 of 27)	intron (NM_001252455, intron 1 of 27)	3485.0	NM_001252455	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	51.0	96.0	59.5	847.0	98.0	57.0	51.0	43.5
Merged-chr6-142991766-4	chr6	142991653	142991853	+	925.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27301.0	NM_011374	20449.0	Mm.260838	NM_011374	ENSMUSG00000030283	St8sia1	9330109E03Rik|GD3S|Sia-T|Siat8|Siat8a	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 1	protein-coding	12.5	22.0	12.0	375.0	32.5	11.5	6.5	14.5
Merged-chr11-97664251-2	chr11	97664151	97664351	+	975.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_139311, intron 1 of 19)	intron (NM_139311, intron 1 of 19)	839.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	5.0	7.5	6.0	23.5	10.5	9.5	1.0	6.5
Merged-chr6-85369629-4	chr6	85369519	85369719	+	971.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003955, intron 1 of 5)	intron (NM_001003955, intron 1 of 5)	5015.0	NM_177466	52055.0	Mm.220334	NM_177466	ENSMUSG00000051343	Rab11fip5	9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11	RAB11 family interacting protein 5 (class I)	protein-coding	30.0	26.5	30.0	375.0	29.0	14.0	18.5	28.5
Merged-chr4-152008890-4	chr4	152008800	152009000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033352)	promoter-TSS (NM_001033352)	9.0	NM_001033352	242785.0	Mm.22306	NM_001033352	ENSMUSG00000073700	Klhl21	1810045K06Rik|D330008A20|mKIAA0469	kelch-like 21	protein-coding	299.5	523.0	367.0	4484.5	589.0	287.5	325.0	246.0
Merged-chr10-95795698-3	chr10	95795608	95795808	+	935.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144955.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	15.0	13.5	7.0	376.0	8.5	3.0	12.0	7.0
Merged-chr4-139611751-2	chr4	139611633	139611833	+	725.5	f0_balb.idr|f1_balb.idr	intron (NM_001205173, intron 5 of 8)	intron (NM_001205173, intron 5 of 8)	-11161.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	10.5	15.0	7.5	81.0	13.5	7.5	1.5	10.0
Merged-chr8-115618338-8	chr8	115618230	115618430	+	904.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTG)n|Simple_repeat|Simple_repeat	88564.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	14.5	7.5	12.0	131.5	20.5	8.5	9.5	10.0
Merged-chr10-128526744-4	chr10	128526630	128526830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011843)	promoter-TSS (NM_011843)	-871.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	15.5	34.5	9.0	412.0	51.5	26.5	27.0	17.5
Merged-chr19-11533592-4	chr19	11533479	11533679	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3270.0	NM_025658	66607.0	Mm.441056	NM_025658	ENSMUSG00000024678	Ms4a4d	2210417J23Rik	membrane-spanning 4-domains, subfamily A, member 4D	protein-coding	21.0	53.0	12.0	371.0	59.5	17.0	23.5	26.5
Merged-chr1-131020312-1	chr1	131020212	131020412	+	851.0	f0_c57.idr	intron (NM_010548, intron 1 of 4)	intron (NM_010548, intron 1 of 4)	467.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	0.0	15.0	4.0	29.5	27.5	6.0	13.5	7.0
Merged-chr1-176824052-4	chr1	176823955	176824155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	intron (NM_001357390, intron 1 of 18)	9395.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	104.5	172.0	98.5	1891.5	361.0	151.5	213.0	129.0
Merged-chr13-73434205-4	chr13	73434126	73434326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33157.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	34.0	33.0	40.5	663.0	55.0	17.5	29.0	46.0
Merged-chr2-167222288-4	chr2	167222215	167222415	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008968, intron 4 of 9)	intron (NM_008968, intron 4 of 9)	18222.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	8.5	15.0	4.0	176.0	41.0	10.5	11.5	6.0
Merged-chr10-34249688-4	chr10	34249557	34249757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32533.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	57.0	79.0	48.0	597.0	100.5	42.0	55.0	39.5
Merged-chr17-31139650-4	chr17	31139536	31139736	+	925.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	4646.0	NM_009363	21785.0	Mm.1825	NM_009363	ENSMUSG00000024028	Tff2	SP|mSP	trefoil factor 2 (spasmolytic protein 1)	protein-coding	14.0	12.5	14.5	108.0	46.5	12.5	9.0	21.0
Merged-chr8-120818231-4	chr8	120818108	120818308	+	964.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79569.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	33.0	34.0	43.0	750.0	46.0	10.0	14.0	22.5
Merged-chr2-11554532-1	chr2	11554432	11554632	+	543.0	f0_balb.idr	promoter-TSS (NM_001177758)	promoter-TSS (NM_001177758)	-603.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	5.5	8.0	5.0	66.0	18.0	2.0	4.5	13.0
Merged-chr4-129016418-3	chr4	129016303	129016503	+	909.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23179.0	NM_001033966	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	9.0	21.5	8.5	64.5	28.5	13.0	6.5	2.0
Merged-chr9-101251758-4	chr9	101251627	101251827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001161362, exon 1 of 14)	5' UTR (NM_001161362, exon 1 of 14)	105.0	NM_001161362	235542.0	Mm.335386	NM_172144	ENSMUSG00000043154	Ppp2r3a	3222402P14Rik|A730042E07	protein phosphatase 2, regulatory subunit B'', alpha	protein-coding	171.0	248.0	326.5	2810.0	348.5	173.0	203.0	216.0
Merged-chr3-14913502-4	chr3	14913399	14913599	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27211.0	NM_009801	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	29.5	21.0	18.0	337.0	60.0	21.0	17.5	27.5
Merged-chr6-149375310-4	chr6	149375217	149375417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33667.0	NM_001112796	12121.0	Mm.177181	NM_009753	ENSMUSG00000003452	Bicd1	B830009D06Rik|bic-D 1	BICD cargo adaptor 1	protein-coding	55.5	78.0	27.0	999.0	149.5	44.0	73.0	43.0
Merged-chr6-37262705-4	chr6	37262640	37262840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	37236.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	58.0	39.0	86.0	1329.5	55.0	26.5	25.5	42.5
Merged-chr5-115508129-7	chr5	115507972	115508172	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	1396.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	6.5	7.0	11.0	25.5	24.5	4.0	11.5	11.5
Merged-chr10-55098495-4	chr10	55098389	55098589	+	833.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-1008428.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	10.5	13.5	12.5	111.5	25.0	15.0	11.0	7.5
Merged-chr10-62896060-4	chr10	62895972	62896172	+	697.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8748.0	NM_001253857	52463.0	Mm.17774	NM_027384	ENSMUSG00000047146	Tet1	2510010B09Rik|AA517754|BB001228|Cxxc6|D10Ertd17e|LCX|mKIAA1676	tet methylcytosine dioxygenase 1	protein-coding	7.0	8.5	8.5	153.5	21.5	1.5	3.5	16.0
Merged-chr11-95259279-4	chr11	95259191	95259391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2238.0	NM_053093	93670.0	Mm.40085	NM_053093	ENSMUSG00000020872	Tac4	AW489379|PPT-C	tachykinin 4	protein-coding	46.5	72.0	44.5	694.5	107.0	57.5	44.5	52.0
Merged-chr4-132305439-4	chr4	132305377	132305577	+	945.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2121.0	NM_001081651	242681.0	Mm.331927	NM_001081651	ENSMUSG00000089687	Rab42	9530096D07Rik|Rab42-ps	RAB42, member RAS oncogene family	protein-coding	10.5	12.0	21.0	239.0	38.5	7.5	12.5	16.0
Merged-chr9-109003370-3	chr9	109003291	109003491	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 3 of 13)	B3|SINE|B2	11489.0	NR_153430	270198.0	Mm.132391	NM_173019	ENSMUSG00000025648	Pfkfb4	C230090D14	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4	protein-coding	5.0	9.0	4.0	87.0	10.5	6.5	5.0	7.5
Merged-chr17-71301019-4	chr17	71300910	71301110	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	10001.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	25.0	33.5	25.0	297.0	31.5	17.5	15.5	21.5
Merged-chr2-103485173-4	chr2	103485055	103485255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009804)	promoter-TSS (NM_009804)	-2.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	103.0	154.5	101.5	1425.0	259.0	95.0	130.0	77.5
Merged-chr10-40025316-4	chr10	40025226	40025426	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144821)	promoter-TSS (NM_144821)	-58.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	30.0	41.0	16.0	410.0	55.5	15.0	25.0	20.5
Merged-chr17-56139958-3	chr17	56139847	56140047	+	884.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130456, intron 1 of 16)	CpG	396.0	NM_001130456	20359.0	Mm.8029	NM_013662	ENSMUSG00000001227	Sema6b	Sema|Seman|VIb|semaZ	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B	protein-coding	2.5	8.0	8.0	57.5	25.0	8.5	5.5	5.0
Merged-chr5-150592695-4	chr5	150592566	150592766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133898, intron 1 of 4)	intron (NM_133898, intron 1 of 4)	1859.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	82.0	112.0	92.5	1206.5	176.0	61.5	98.0	99.0
Merged-chr11-98754208-4	chr11	98754108	98754308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178060, intron 2 of 8)	intron (NM_178060, intron 2 of 8)	12423.0	NM_001313983	21833.0	Mm.265917	NM_178060	ENSMUSG00000058756	Thra	6430529J03Rik|AW259572|Erba|Nr1a1|Rvr|T3R[a]|T3Ralpha|Thra1|Thra2|c-erbA-1|c-erbA-alpha|c-erbAalpha	thyroid hormone receptor alpha	protein-coding	72.5	103.5	31.5	613.0	185.0	75.5	51.0	36.0
Merged-chr13-21783395-4	chr13	21783293	21783493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178207)	promoter-TSS (NM_178207)	4.0	NM_178207	319153.0	Mm.390558	NM_178207	ENSMUSG00000101972	Hist1h3i	H3-H	histone cluster 1, H3i	protein-coding	86.5	115.5	65.5	857.5	241.5	95.0	107.0	97.0
Merged-chr17-86166834-6	chr17	86166731	86166931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011104)	promoter-TSS (NM_011104)	-954.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	18.0	17.0	12.0	315.5	54.0	20.0	19.5	22.0
Merged-chr14-20830252-2	chr14	20830158	20830358	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-6404.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	49.5	77.0	59.0	726.5	142.5	93.5	45.0	69.5
Merged-chr1-182255227-4	chr1	182255120	182255320	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26975.0	NM_001360783	13244.0	Mm.29648	NM_007853	ENSMUSG00000038633	Degs1	AA536663|Degs|Des1|Mdes	delta(4)-desaturase, sphingolipid 1	protein-coding	18.5	35.5	26.5	387.0	21.0	10.0	16.0	18.0
Merged-chr1-131345596-1	chr1	131345496	131345696	+	787.25	f0_balb.idr	intron (NM_001081011, intron 9 of 22)	intron (NM_001081011, intron 9 of 22)	-66033.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	8.0	15.5	13.0	127.5	7.0	5.0	2.0	7.5
Merged-chr4-55509270-1	chr4	55509170	55509370	+	737.0	f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	23205.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	10.5	16.5	7.0	106.5	1.5	1.0	0.5	2.5
Merged-chr15-7114065-4	chr15	7113916	7114116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15556.0	NM_001113386	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	26.0	43.5	42.0	567.0	89.0	34.5	32.5	62.0
Merged-chr13-104948143-3	chr13	104948042	104948242	+	992.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029879, exon 6 of 6)	3' UTR (NM_029879, exon 6 of 6)	-84249.0	NM_029984	77803.0	Mm.159995	NM_029984	ENSMUSG00000042655	Fam159b	A930021C24Rik|Shisal2b	family with sequence similarity 159, member B	protein-coding	22.0	13.0	15.5	213.0	18.0	13.0	10.5	8.0
Merged-chr3-79525228-4	chr3	79525139	79525339	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	42440.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	15.5	29.0	20.5	922.0	31.0	7.5	22.5	30.0
Merged-chr14-61046528-4	chr14	61046433	61046633	+	926.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013869, exon 1 of 10)	5' UTR (NM_013869, exon 1 of 10)	322.0	NM_013869	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	6.5	13.0	18.5	191.5	38.0	17.0	16.5	23.0
Merged-chr7-27731427-4	chr7	27731334	27731534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029531)	promoter-TSS (NM_029531)	25.0	NM_009560	22718.0	Mm.66913	NM_009560	ENSMUSG00000037640	Zfp60	6330516O17Rik|AI426106|AI449354|Mfg-3|Mfg3	zinc finger protein 60	protein-coding	55.0	92.5	59.0	845.5	89.5	38.5	40.5	53.5
Merged-chr6-135364562-4	chr6	135364434	135364634	+	948.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288628, intron 1 of 5)	intron (NM_001288628, intron 1 of 5)	1603.0	NM_001288628	13730.0	Mm.182785	NM_010128	ENSMUSG00000030208	Emp1	I-8-09|TMP	epithelial membrane protein 1	protein-coding	45.0	68.5	98.0	1439.5	24.0	4.5	16.0	14.5
Merged-chr10-127596171-4	chr10	127596084	127596284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	24964.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	41.5	57.5	94.5	997.0	151.5	51.0	68.0	67.0
Merged-chr3-21825096-4	chr3	21824995	21825195	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-251557.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	15.0	14.0	10.0	281.5	22.5	10.0	12.5	8.0
Merged-chr14-122534244-4	chr14	122534140	122534340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144844)	promoter-TSS (NM_144844)	-88.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	310.0	414.0	308.5	5684.5	677.5	208.5	468.0	278.5
Merged-chr18-5536990-4	chr18	5536891	5537091	+	741.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033552, intron 4 of 6)	intron (NR_033552, intron 4 of 6)	-54869.0	NM_011546	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	3.0	10.5	6.5	82.0	24.0	5.5	11.0	9.5
Merged-chr8-26685299-1	chr8	26685199	26685399	+	711.333313	f1_c57bl6.idr	Intergenic	MER58B|DNA|hAT-Charlie	139124.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	5.0	6.5	9.0	38.0	15.5	6.0	4.5	11.0
Merged-chr17-15396198-4	chr17	15396101	15396301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024203)	promoter-TSS (NM_024203)	-1.0	NM_001357822	67544.0	Mm.35039	NM_024203	ENSMUSG00000014763	Fam120b	4932442K08Rik|AW049283|AW413338|CCPG|Pgcc1|mKIAA1838	family with sequence similarity 120, member B	protein-coding	215.5	376.0	223.5	3877.0	614.0	217.0	281.5	223.5
Merged-chr12-104103623-3	chr12	104103534	104103734	+	877.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172953, intron 3 of 4)	intron (NM_172953, intron 3 of 4)	2521.0	NM_172953	268591.0	Mm.73172	NM_172953	ENSMUSG00000041550	Serpina5	4933415L04|PAI-3|Pci	serine (or cysteine) peptidase inhibitor, clade A, member 5	protein-coding	0.0	0.0	1.5	13.0	44.5	12.0	41.0	24.0
Merged-chr13-23621209-4	chr13	23621094	23621294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178194)	promoter-TSS (NM_178194)	-70.0	NM_178194	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	87.0	136.0	66.0	1743.0	260.5	86.0	138.5	118.0
Merged-chr7-27195813-4	chr7	27195712	27195912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243888)	promoter-TSS (NM_001243888)	31.0	NM_001243888	414069.0	Mm.379069	NM_001243888	ENSMUSG00000078786	BC024978	-	cDNA sequence BC024978	protein-coding	65.5	120.5	51.0	880.5	202.0	78.0	90.5	68.0
Merged-chr1-20829529-4	chr1	20829442	20829642	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-9230.0	NM_008563	17215.0	Mm.4502	NM_008563	ENSMUSG00000041859	Mcm3	AL033361|C80350|Mcmd|P1|P1-MCM3|p1.m	minichromosome maintenance complex component 3	protein-coding	28.0	23.5	34.5	469.0	60.0	21.0	29.5	30.0
Merged-chr3-60537266-4	chr3	60537156	60537356	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	36077.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	37.5	34.0	15.5	579.5	91.5	27.5	36.0	28.5
Merged-chr6-120898313-4	chr6	120898223	120898423	+	819.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007544, intron 3 of 5)	intron (NM_007544, intron 3 of 5)	18501.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	7.0	13.5	7.0	81.0	27.0	10.0	10.0	16.5
Merged-chr13-9099866-3	chr13	9099766	9099966	+	720.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	5985.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	5.5	7.0	9.0	95.0	38.5	1.0	6.5	8.5
Merged-chr7-123394273-4	chr7	123394178	123394378	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025304, intron 1 of 10)	intron (NM_025304, intron 1 of 10)	-13539.0	NM_001355050	30949.0	Mm.260527	NM_025304	ENSMUSG00000030763	Lcmt1	AL033290|LCMT-1|Lcmt	leucine carboxyl methyltransferase 1	protein-coding	25.0	33.0	34.5	561.5	71.0	23.0	18.0	24.0
Merged-chr14-121437232-4	chr14	121437117	121437317	+	789.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57987.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	9.5	13.0	22.0	193.5	23.5	14.5	6.5	11.0
Merged-chr12-98383366-2	chr12	98383247	98383447	+	788.5	f0_balb.idr|f0_c57.idr	Intergenic	RLTR9A2|LTR|ERVK	114712.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	8.0	5.0	5.0	127.5	32.0	6.5	9.5	8.5
Merged-chr11-110436862-2	chr11	110436762	110436962	+	912.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	37760.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	1.0	2.0	1.5	11.5	17.5	9.0	8.0	9.0
Merged-chr1-151353125-3	chr1	151353032	151353232	+	782.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039511, intron 5 of 7)	B2_Mm2|SINE|B2	8634.0	NM_001039511	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	11.0	13.0	2.5	117.5	19.0	8.5	9.5	7.0
Merged-chr11-117986825-4	chr11	117986724	117986924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133757)	promoter-TSS (NM_133757)	-33.0	NM_133757	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	21.5	49.5	11.5	319.0	103.0	36.5	30.5	40.0
Merged-chr2-62460543-4	chr2	62460456	62460656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Plat_L3|LINE|CR1	23097.0	NM_008100	14526.0	Mm.45494	NM_008100	ENSMUSG00000000394	Gcg	GLP-1|Glu|PPG	glucagon	protein-coding	47.0	93.0	69.0	934.5	196.0	53.5	70.0	84.5
Merged-chr9-110117314-5	chr9	110117266	110117466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001252682, exon 1 of 23)	5' UTR (NM_001252682, exon 1 of 23)	250.0	NM_001252682	72831.0	Mm.276305	NM_133347	ENSMUSG00000032480	Dhx30	2810477H02Rik|C130058C04Rik|Ddx30|HELG|Ret-CoR	DEAH (Asp-Glu-Ala-His) box polypeptide 30	protein-coding	33.0	52.5	43.0	409.0	57.5	24.0	40.5	49.0
Merged-chr19-43520545-4	chr19	43520444	43520644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 1 of 8)	intron (NM_010324, intron 1 of 8)	4061.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	44.0	68.5	58.0	1014.5	189.5	65.5	93.5	99.0
Merged-chr17-13683996-4	chr17	13683909	13684109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76532.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	100.5	132.0	99.5	1672.0	323.0	121.5	165.0	144.5
Merged-chr11-4083573-3	chr11	4083482	4083682	+	921.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11849.0	NM_026443	67900.0	Mm.41719	NM_026443	ENSMUSG00000004748	Mtfp1	1700020C11Rik|2610507A21Rik|AV005788|Mtp18	mitochondrial fission process 1	protein-coding	8.5	12.5	7.5	131.0	36.0	9.0	9.0	5.0
Merged-chr15-73748387-6	chr15	73748315	73748515	+	888.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008975, exon 1 of 6)	5' UTR (NM_008975, exon 1 of 6)	389.0	NM_008975	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	16.5	13.5	8.0	145.5	18.5	11.0	6.5	11.5
Merged-chr11-106994464-4	chr11	106994341	106994541	+	970.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010655, intron 3 of 10)	Lx8|LINE|L1	5084.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	14.0	21.0	10.0	187.5	91.0	44.0	38.0	45.0
Merged-chr5-123829991-4	chr5	123829894	123830094	+	852.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35522.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	9.5	11.5	4.0	161.0	38.5	10.0	5.0	6.5
Merged-chr10-20990799-4	chr10	20990726	20990926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358561, intron 15 of 22)	intron (NM_001358561, intron 15 of 22)	38279.0	NM_001358561	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	40.5	60.5	51.0	997.0	111.5	36.0	37.0	42.0
Merged-chr17-79715802-4	chr17	79715734	79715934	+	834.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009994)	promoter-TSS (NM_009994)	-793.0	NM_009994	13078.0	Mm.214016	NM_009994	ENSMUSG00000024087	Cyp1b1	CP1B|P4501b1	cytochrome P450, family 1, subfamily b, polypeptide 1	protein-coding	16.0	27.5	20.0	308.5	40.0	6.0	12.5	8.0
Merged-chr15-8443719-4	chr15	8443598	8443798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 1 of 45)	CpG	765.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	31.5	78.5	48.0	412.0	143.5	58.5	64.0	78.5
Merged-chr16-38711412-4	chr16	38711315	38711515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	1620.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	66.5	165.0	53.5	1066.5	127.0	67.5	78.0	44.0
Merged-chr3-145963744-3	chr3	145963662	145963862	+	744.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24108.0	NM_001166064	214804.0	Mm.268854	NM_001166064	ENSMUSG00000036863	Syde2	C430017H16Rik	synapse defective 1, Rho GTPase, homolog 2 (C. elegans)	protein-coding	12.5	3.5	14.5	119.0	8.5	5.5	4.5	8.5
Merged-chr2-26409219-4	chr2	26409112	26409312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290437)	promoter-TSS (NM_001290437)	7.0	NM_033134	64436.0	Mm.330070	NM_033134	ENSMUSG00000026925	Inpp5e	1200002L24Rik|72kDa|mKIAA0123	inositol polyphosphate-5-phosphatase E	protein-coding	129.0	220.0	119.5	1995.0	272.0	102.5	160.0	128.5
Merged-chr3-89251482-3	chr3	89251441	89251641	+	797.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5068.0	NM_001310625	66059.0	Mm.177991	NM_025327	ENSMUSG00000042747	Krtcap2	0610010I12Rik|Kcp2	keratinocyte associated protein 2	protein-coding	10.5	6.5	5.5	81.5	6.0	6.5	10.0	5.0
Merged-chr13-85430221-4	chr13	85430123	85430323	+	925.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140737.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	25.5	12.0	17.0	284.0	91.0	7.5	21.0	15.0
Merged-chr7-74693248-3	chr7	74693115	74693315	+	727.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	-138435.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	5.5	1.0	16.5	77.5	14.5	14.5	9.0	4.5
Merged-chr12-33176144-4	chr12	33176055	33176255	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	intron (NM_028139, intron 2 of 3)	28469.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	15.0	24.0	18.0	194.5	57.5	18.0	17.0	32.0
Merged-chr2-148580729-3	chr2	148580597	148580797	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91918.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	5.5	10.0	9.0	96.0	9.0	3.0	5.5	5.0
Merged-chr17-29394305-4	chr17	29394185	29394385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33371.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	65.5	150.5	42.5	457.5	207.5	111.0	65.5	66.5
Merged-chr9-58581533-4	chr9	58581503	58581703	+	874.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009145)	promoter-TSS (NM_009145)	-637.0	NM_001293673	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	4.0	8.0	14.0	198.5	24.0	8.0	12.0	20.0
Merged-chr19-21564258-4	chr19	21564146	21564346	+	842.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88545.0	NM_025423	66206.0	Mm.272430	NM_025423	ENSMUSG00000035171	1110059E24Rik	-	RIKEN cDNA 1110059E24 gene	protein-coding	8.5	17.5	22.0	134.5	17.0	5.0	6.5	10.0
Merged-chr4-105306185-3	chr4	105306084	105306284	+	815.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148837.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	13.0	8.5	13.0	155.0	14.0	8.0	12.0	3.0
Merged-chr17-35578409-4	chr17	35578322	35578522	+	753.862488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10937.0	NM_175148	69542.0	Mm.265291	NM_175148	ENSMUSG00000039269	2300002M23Rik	Stg|emprin	RIKEN cDNA 2300002M23 gene	protein-coding	10.5	14.0	2.5	158.5	23.5	10.0	7.0	10.5
Merged-chr6-134921610-4	chr6	134921521	134921721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009875, intron 1 of 2)	intron (NM_009875, intron 1 of 2)	1220.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	35.5	41.5	32.5	365.0	139.0	39.0	64.5	65.5
Merged-chr7-16403536-6	chr7	16403443	16403643	+	942.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198631, intron 1 of 13)	intron (NM_198631, intron 1 of 13)	2347.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	14.0	18.0	9.5	176.5	26.5	13.0	11.5	17.5
Merged-chr10-117839090-4	chr10	117838996	117839196	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	B3|SINE|B2	6878.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	22.0	45.0	19.0	192.5	64.5	14.5	27.5	16.0
Merged-chr10-77971321-4	chr10	77971238	77971438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1466.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	44.0	41.5	44.0	793.5	118.5	31.5	36.5	45.5
Merged-chr15-62003042-4	chr15	62002928	62003128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17687.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	31.0	46.0	42.0	517.0	42.5	22.5	23.0	31.0
Merged-chr7-132317396-4	chr7	132317292	132317492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360768)	promoter-TSS (NM_001360768)	-164.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	73.5	71.5	81.5	1189.5	143.0	48.5	94.5	75.0
Merged-chr3-31084137-4	chr3	31084032	31084232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamRep605|LTR?|LTR?	-10926.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	137.5	274.0	195.0	2031.0	432.5	160.5	139.0	118.0
Merged-chr12-111944075-4	chr12	111943996	111944196	+	890.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029464, intron 1 of 2)	intron (NR_029464, intron 1 of 2)	386.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	6.0	10.5	12.5	90.5	39.0	13.5	11.0	15.0
Merged-chr2-168540033-4	chr2	168539941	168540141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	L2|LINE|L2	50324.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	50.5	95.0	48.5	958.5	71.5	19.5	43.0	40.5
Merged-chr2-29194852-4	chr2	29194850	29195050	+	865.7261960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001305805, exon 8 of 8)	exon (NM_001305805, exon 8 of 8)	53149.0	NM_001305805	171171.0	Mm.442448	NM_133500	ENSMUSG00000035513	Ntng2	2610016D08Rik|Lmnt2	netrin G2	protein-coding	3.0	7.5	7.5	22.0	29.0	6.5	5.5	10.0
Merged-chr1-165667104-4	chr1	165666999	165667199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	-32558.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	120.0	142.0	181.5	2728.0	274.5	98.5	183.0	128.5
Merged-chr17-18968551-4	chr17	18968462	18968662	+	688.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	54240.0	NM_001104549	627367.0	Mm.384131	NM_001104549	ENSMUSG00000091491	Vmn2r97	EG627367|Vn2r97	vomeronasal 2, receptor 97	protein-coding	3.0	2.0	9.0	80.5	28.5	14.0	14.5	8.0
Merged-chr10-61696058-3	chr10	61695957	61696157	+	960.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001272090, exon 1 of 4)	exon (NM_001272090, exon 1 of 4)	471.0	NR_073587	71767.0	Mm.71514	NM_027912	ENSMUSG00000020087	Tysnd1	1300019N10Rik	trypsin domain containing 1	protein-coding	15.0	9.5	17.0	95.5	13.5	9.0	9.5	15.0
Merged-chr8-11009554-4	chr8	11009472	11009672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 1 of 4)	CpG-13826	-1142.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	43.5	51.5	46.0	848.5	108.0	27.5	57.5	55.0
Merged-chr18-38943456-3	chr18	38943362	38943562	+	911.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 4 of 4)	intron (NM_001033789, intron 4 of 4)	-24763.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	17.5	52.0	25.5	457.0	11.0	8.5	10.5	10.0
Merged-chr7-126694784-3	chr7	126694689	126694889	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029420, intron 1 of 5)	MTC|LTR|ERVL-MaLR	994.0	NM_029420	75764.0	Mm.280573	NM_029420	ENSMUSG00000059772	Slx1b	1110030E23Rik|2410170E21Rik|4833422P03Rik|AI853643|Giyd1|Giyd2	SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)	protein-coding	13.0	10.5	2.0	88.5	15.0	6.0	10.0	6.0
Merged-chr9-66599793-4	chr9	66599710	66599910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6695.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	116.5	144.0	123.5	1696.0	211.0	77.0	99.0	86.0
Merged-chr3-31459628-3	chr3	31459523	31459723	+	892.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149304.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	5.0	8.0	6.0	51.0	15.0	3.5	3.0	3.0
Merged-chr1-180919889-3	chr1	180919799	180919999	+	823.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15123.0	NM_010094	13590.0	Mm.378911	NM_010094	ENSMUSG00000038793	Lefty1	AI450052|Ebaf|Leftb|Stra3|Tgfb4|lefty|lefty-1	left right determination factor 1	protein-coding	15.5	6.0	9.0	77.0	15.5	12.0	12.5	6.5
Merged-chr2-164769762-4	chr2	164769642	164769842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026785)	promoter-TSS (NM_026785)	-187.0	NM_026785	68612.0	Mm.89830	NM_026785	ENSMUSG00000001403	Ube2c	1110015A16Rik|D2Ertd695e	ubiquitin-conjugating enzyme E2C	protein-coding	206.0	259.5	155.0	2425.0	483.0	180.0	212.5	183.0
Merged-chr7-69985956-4	chr7	69985881	69986081	+	758.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	351841.0	NR_131145	624549.0	Mm.116344	NR_131144	ENSMUSG00000109097	Gm29683	Gm44536	predicted gene, 29683	ncRNA	16.0	7.5	14.5	225.0	30.0	11.5	9.5	10.0
Merged-chr12-98884710-4	chr12	98884611	98884811	+	794.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 2 of 43)	intron (NM_001081191, intron 2 of 43)	16773.0	NM_001081191	319670.0	Mm.390484	NM_001081191	ENSMUSG00000051166	Eml5	BC027154|C130068M19Rik	echinoderm microtubule associated protein like 5	protein-coding	2.0	13.5	4.5	77.0	32.0	9.5	13.0	5.0
Merged-chr7-25221369-4	chr7	25221288	25221488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175436)	promoter-TSS (NM_175436)	-37.0	NM_175436	210172.0	Mm.129371	NM_175436	ENSMUSG00000046541	Zfp526	D030024H03Rik|Znf526	zinc finger protein 526	protein-coding	133.0	200.5	103.5	1907.5	293.5	123.0	144.5	127.0
Merged-chr1-7100744-4	chr1	7100646	7100846	+	962.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183028, intron 1 of 5)	intron (NM_183028, intron 1 of 5)	11826.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	11.0	26.5	11.5	207.0	81.5	25.0	16.5	20.0
Merged-chr6-94045341-3	chr6	94045246	94045446	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029850, intron 1 of 23)	RMER15|LTR|ERVL	-131656.0	NM_001083320	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	26.0	73.0	59.5	1138.5	20.0	3.0	17.0	11.0
Merged-chr7-92975501-4	chr7	92975394	92975594	+	912.6166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100241.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	17.0	10.0	15.0	242.0	37.5	11.5	11.0	22.5
Merged-chr10-67291279-4	chr10	67291157	67291357	+	910.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5976.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	14.0	9.0	12.0	471.0	40.5	7.0	10.0	18.0
Merged-chr6-33790939-3	chr6	33790840	33791040	+	883.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 11 of 17)	intron (NM_009148, intron 11 of 17)	-238508.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	6.0	5.5	10.5	145.5	6.5	5.5	10.0	10.0
Merged-chr16-21815069-4	chr16	21814956	21815156	+	810.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4c|LINE|L1	20709.0	NR_037957	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	5.0	13.0	5.5	99.0	18.0	10.5	11.5	5.0
Merged-chr15-80235464-3	chr15	80235317	80235517	+	712.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357659, intron 2 of 6)	intron (NM_001357659, intron 2 of 6)	1337.0	NM_178719	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	11.0	18.5	7.5	116.0	6.5	2.0	1.0	7.5
Merged-chr16-55789113-4	chr16	55789016	55789216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33022.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	51.0	113.5	68.5	988.5	142.5	39.5	36.5	53.5
Merged-chr6-88053912-4	chr6	88053819	88054019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8649.0	NM_009005	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	25.0	63.0	40.0	606.0	66.5	17.0	42.0	24.0
Merged-chr2-103606789-1	chr2	103606689	103606889	+	1000.0	f0_balb.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	40479.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	20.0	19.5	5.5	56.0	16.5	13.0	6.5	7.5
Merged-chr1-152606405-4	chr1	152606293	152606493	+	948.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	L3|LINE|CR1	18824.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	18.0	41.5	31.0	359.5	43.0	14.0	11.5	7.5
Merged-chr1-106241624-3	chr1	106241531	106241731	+	856.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	69762.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	11.5	10.0	14.5	156.5	7.0	1.0	12.0	8.0
Merged-chr8-84984822-4	chr8	84984663	84984863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5832.0	NM_133255	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	76.0	73.0	119.5	1628.5	181.5	76.0	103.5	69.5
Merged-chr6-124898519-4	chr6	124898441	124898641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10341.0	NM_013488	12504.0	Mm.2209	NM_013488	ENSMUSG00000023274	Cd4	L3T4|Ly-4	CD4 antigen	protein-coding	35.0	60.0	17.5	354.0	157.0	29.5	52.5	40.5
Merged-chr6-119479329-4	chr6	119479223	119479423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133940)	promoter-TSS (NM_133940)	-345.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	68.5	122.5	151.5	1300.5	136.5	67.5	68.0	97.0
Merged-chr2-83644449-4	chr2	83644351	83644551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026934)	promoter-TSS (NM_026934)	-127.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	188.5	272.5	202.5	3020.5	471.5	189.5	245.5	209.0
Merged-chr7-19024261-4	chr7	19024166	19024366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026605)	promoter-TSS (NM_026605)	-111.0	NM_001360713	68188.0	Mm.130902	NM_026605	ENSMUSG00000023118	Sympk	1500016F02Rik|4632415H16Rik|AA125406|AI449890|SPK|SYM	symplekin	protein-coding	172.5	323.0	205.0	2527.0	508.0	185.0	219.5	197.5
Merged-chr10-94478018-4	chr10	94477929	94478129	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-36828.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	28.0	27.5	51.0	818.5	55.0	17.0	30.5	28.0
Merged-chr15-6909813-4	chr15	6909765	6909965	+	937.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35552.0	NM_001310469	18414.0	Mm.10760	NM_011019	ENSMUSG00000022146	Osmr	OSMRB	oncostatin M receptor	protein-coding	12.0	20.5	13.5	232.0	60.5	11.5	22.0	23.5
Merged-chr4-53397482-4	chr4	53397384	53397584	+	939.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-42929.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	22.5	23.5	27.5	283.0	51.0	24.5	15.5	14.5
Merged-chr15-76925655-4	chr15	76925503	76925703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172817)	promoter-TSS (NM_172817)	-155.0	NM_001168276	239546.0	Mm.183650	NM_172817	ENSMUSG00000054967	Zfp647	6030449J21|Es492|Znf250	zinc finger protein 647	protein-coding	35.0	68.0	33.5	433.5	71.5	31.0	37.0	34.0
Merged-chr4-21712403-1	chr4	21712303	21712503	+	664.0	f0_balb.idr	Intergenic	RMER21A|LTR|ERV1	-15298.0	NM_001290422	51813.0	Mm.278584	NM_016746	ENSMUSG00000028252	Ccnc	AI451004|AU020987|CG1C	cyclin C	protein-coding	5.0	9.5	9.0	115.0	11.0	13.5	8.5	11.5
Merged-chr2-152693418-3	chr2	152693304	152693504	+	926.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010376, intron 8 of 11)	intron (NM_010376, intron 8 of 11)	6256.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	3.0	5.0	11.0	64.5	54.0	16.0	14.5	10.5
Merged-chr1-180429088-3	chr1	180428996	180429196	+	931.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54408.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	7.0	11.5	9.5	68.0	34.0	12.5	14.5	11.0
Merged-chr19-44385333-4	chr19	44385239	44385439	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	22370.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	20.5	32.5	8.0	141.0	47.5	16.5	16.0	9.0
Merged-chr5-96222113-4	chr5	96221925	96222125	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039084, intron 2 of 6)	MLT1H|LTR|ERVL-MaLR	11910.0	NM_053158	94061.0	Mm.295499	NM_053158	ENSMUSG00000029486	Mrpl1	2410002L03Rik|5830418D04Rik|AI462572|L1mt	mitochondrial ribosomal protein L1	protein-coding	9.5	26.5	25.5	292.5	24.0	13.5	15.0	27.5
Merged-chr17-6778446-4	chr17	6778339	6778539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 1 of 12)	intron (NM_009510, intron 1 of 12)	4341.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	94.5	170.0	79.5	1299.0	196.5	71.5	88.5	76.0
Merged-chr3-18051703-4	chr3	18051577	18051777	+	888.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2648.0	NM_021560	59058.0	Mm.149938	NM_021560	ENSMUSG00000025128	Bhlhe22	Beta3|Beta3a|Bhlhb5	basic helix-loop-helix family, member e22	protein-coding	8.0	14.5	22.0	257.0	21.5	10.5	11.0	13.0
Merged-chr19-56749635-4	chr19	56749525	56749725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27253.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	49.0	69.5	49.0	915.0	106.5	28.0	53.0	33.5
Merged-chr17-57339754-4	chr17	57339638	57339838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18948.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	20.5	23.5	23.0	222.0	86.5	29.0	22.0	21.0
Merged-chr15-66969095-5	chr15	66968970	66969170	+	819.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008681, intron 1 of 15)	CpG	571.0	NM_008681	17988.0	Mm.30837	NM_008681	ENSMUSG00000005125	Ndrg1	CAP43|CMT4D|DRG1|HMSNL|NMSL|Ndr1|Ndrl|PROXY1|RTP|TDD5	N-myc downstream regulated gene 1	protein-coding	8.5	5.5	6.5	64.5	9.0	5.5	7.0	5.5
Merged-chr2-11332660-4	chr2	11332556	11332756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6833.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	54.5	85.0	72.5	1283.0	121.5	37.5	65.5	78.0
Merged-chr2-174041701-4	chr2	174041600	174041800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-35351.0	NM_172675	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	6.0	25.5	17.0	261.0	66.5	50.5	35.5	15.0
Merged-chr1-121431611-4	chr1	121431549	121431749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 1 of 23)	intron (NM_029955, intron 1 of 23)	582.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	40.0	108.0	57.5	429.5	117.5	36.5	53.0	46.5
Merged-chr2-116942545-4	chr2	116942431	116942631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42379.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	41.5	40.0	67.5	496.5	112.5	34.5	62.0	41.0
Merged-chr3-137956055-4	chr3	137955950	137956150	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	25499.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	25.0	67.0	53.0	620.0	111.5	34.5	22.0	23.0
Merged-chr5-118638148-3	chr5	118638024	118638224	+	864.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	77405.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	13.0	20.5	13.5	211.0	24.5	13.5	10.5	3.0
Merged-chr2-45198116-2	chr2	45198016	45198216	+	705.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80674.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	6.0	10.0	3.5	34.5	11.0	7.0	9.0	6.5
Merged-chr9-45268202-4	chr9	45268093	45268293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008348, intron 1 of 6)	intron (NM_008348, intron 1 of 6)	956.0	NR_136903	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	45.0	58.0	49.0	761.5	132.0	45.5	50.0	62.5
Merged-chr5-118473723-3	chr5	118473626	118473826	+	677.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86993.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	8.0	18.0	14.0	83.5	6.0	3.5	0.5	3.5
Merged-chr11-110608700-3	chr11	110608593	110608793	+	567.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129353.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.0	16.5	8.5	77.5	6.0	0.0	0.0	0.5
Merged-chr11-106736454-4	chr11	106736341	106736541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-14785.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	41.5	43.0	37.0	427.5	65.5	20.5	34.5	25.5
Merged-chr16-77041748-4	chr16	77041649	77041849	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 3 of 23)	intron (NM_013918, intron 3 of 23)	27680.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	19.5	38.0	42.0	410.0	40.5	9.5	25.5	30.5
Merged-chr9-121371732-4	chr9	121371640	121371840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357973, intron 1 of 5)	intron (NM_001357973, intron 1 of 5)	4782.0	NM_175114	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	85.0	84.0	69.5	706.5	157.5	53.0	68.0	55.0
Merged-chr4-62641054-4	chr4	62640838	62641038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 17 of 19)	intron (NM_019492, intron 17 of 19)	21266.0	NM_134257	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	6.0	17.5	12.0	141.5	15.0	7.5	16.5	15.5
Merged-chr12-51870370-2	chr12	51870273	51870473	+	826.916626	f0_balb.idr|f1_balb.idr	Intergenic	RMER16_Mm|LTR|ERVK	-40837.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	13.0	13.0	13.0	253.5	6.5	0.5	0.0	1.0
Merged-chr5-143058459-1	chr5	143058359	143058559	+	674.0	f0_balb.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	54561.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	4.5	8.5	7.0	121.0	24.0	1.5	8.0	6.5
Merged-chr17-69086256-2	chr17	69086156	69086356	+	803.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	10579.0	NM_001355732	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	5.5	16.5	5.0	25.0	30.0	5.0	7.0	8.0
Merged-chr13-20788207-4	chr13	20788102	20788302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5911.0	NM_001281854	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	111.5	114.0	120.0	1475.0	309.5	103.5	136.5	130.0
Merged-chr8-46881478-4	chr8	46881389	46881589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105398.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	65.5	85.0	79.0	795.5	137.5	49.0	54.0	75.0
Merged-chr3-30508595-4	chr3	30508515	30508715	+	806.625	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361034, intron 1 of 16)	CpG	1060.0	NM_001361034	14013.0	Mm.56965	NM_007963	ENSMUSG00000027684	Mecom	D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1	MDS1 and EVI1 complex locus	protein-coding	9.0	15.5	16.5	107.0	15.0	8.5	6.5	17.5
Merged-chr10-99090077-4	chr10	99089982	99090182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17000.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	59.5	138.5	82.5	780.5	164.0	78.5	119.5	38.5
Merged-chr11-115061722-4	chr11	115061639	115061839	+	850.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172050, intron 1 of 3)	intron (NM_172050, intron 1 of 3)	300.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	10.0	30.5	12.5	85.0	66.5	13.0	18.5	10.0
Merged-chr6-127163017-4	chr6	127162910	127163110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040275, intron 1 of 1)	intron (NR_040275, intron 1 of 1)	-11962.0	NM_009829	12444.0	Mm.333406	NM_009829	ENSMUSG00000000184	Ccnd2	2600016F06Rik|AI256817|BF642806|C86853|Vin-1|Vin1|cD2	cyclin D2	protein-coding	124.5	189.5	107.0	1789.0	334.5	84.5	142.5	94.5
Merged-chr1-171051004-4	chr1	171050906	171051106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010188)	TTS (NM_010188)	8388.0	NM_001356511	14131.0	Mm.22119	NM_010188	ENSMUSG00000059498	Fcgr3	CD16	Fc receptor, IgG, low affinity III	protein-coding	29.5	37.5	27.5	460.5	80.0	22.0	34.5	43.5
Merged-chr11-109344159-4	chr11	109344070	109344270	+	915.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2697.0	NR_027883	67927.0	Mm.394490	NR_027883	ENSMUSG00000099630	1700096J18Rik	-	RIKEN cDNA 1700096J18 gene	ncRNA	17.5	18.5	13.0	150.0	22.0	18.5	10.5	19.5
Merged-chr8-79399468-4	chr8	79399368	79399568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008539)	promoter-TSS (NM_008539)	0.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	72.5	123.5	110.5	1573.0	174.0	50.0	103.0	71.0
Merged-chr12-95695583-4	chr12	95695490	95695690	+	930.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	CpG	3364.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	24.5	20.5	31.5	302.0	35.0	13.0	9.0	14.5
Merged-chr7-121707474-4	chr7	121707370	121707570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033173)	promoter-TSS (NM_001033173)	-217.0	NM_001033173	76179.0	Mm.122538	NM_001033173	ENSMUSG00000063317	Usp31	6330567E21Rik|mKIAA1203	ubiquitin specific peptidase 31	protein-coding	106.0	113.5	64.5	1369.0	258.0	89.0	123.5	107.5
Merged-chr6-113698069-4	chr6	113697876	113698076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033463, exon 2 of 8)	exon (NM_001033463, exon 2 of 8)	926.0	NM_001033463	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	19.5	18.5	14.0	192.0	33.5	19.0	11.0	32.5
Merged-chr11-99182678-4	chr11	99182606	99182806	+	952.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27629.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	16.5	37.5	9.0	199.5	34.0	16.5	13.5	14.0
Merged-chr1-165768490-4	chr1	165768391	165768591	+	897.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 2 of 4)	B4A|SINE|B4	4733.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	15.0	28.5	33.0	244.5	29.0	17.5	10.5	11.5
Merged-chr3-65391790-1	chr3	65391690	65391890	+	799.25	f0_balb.idr	intron (NM_026155, intron 1 of 4)	intron (NM_026155, intron 1 of 4)	763.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	2.5	6.5	13.0	97.5	17.0	10.0	8.0	15.5
Merged-chr10-82913920-4	chr10	82913828	82914028	+	827.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	47302.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	20.5	30.0	9.0	278.5	20.0	5.0	9.0	13.5
Merged-chr13-102021842-3	chr13	102021737	102021937	+	872.1333619999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-253620.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	8.0	7.0	4.0	48.5	26.5	13.5	16.0	24.5
Merged-chr2-24365466-3	chr2	24365339	24365539	+	765.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-2236.0	NM_001355231	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	2.0	6.0	2.5	36.0	20.0	7.0	4.5	6.0
Merged-chr4-129817872-6	chr4	129817825	129818025	+	740.1611330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2554.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	5.0	10.5	16.0	67.0	16.0	6.0	7.0	4.5
Merged-chr1-46849950-4	chr1	46849847	46850047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356416, intron 1 of 10)	intron (NM_001356416, intron 1 of 10)	3671.0	NM_001356416	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	72.0	72.0	35.5	1127.5	146.0	56.0	55.0	63.0
Merged-chr11-86484488-4	chr11	86484355	86484555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029788)	promoter-TSS (NM_029788)	-202.0	NM_029788	76892.0	Mm.262707	NM_029788	ENSMUSG00000020521	Rnft1	0610013E23Rik|AV007605	ring finger protein, transmembrane 1	protein-coding	231.0	316.0	216.0	2719.0	535.0	232.5	239.0	208.5
Merged-chr12-98238656-4	chr12	98238554	98238754	+	829.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008079, intron 7 of 16)	MTC|LTR|ERVL-MaLR	20805.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	13.5	5.0	12.5	136.5	22.0	8.5	18.5	12.0
Merged-chr2-118479728-4	chr2	118479606	118479806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009273)	promoter-TSS (NM_009273)	-10.0	NM_009273	20813.0	Mm.363404	NM_009273	ENSMUSG00000009549	Srp14	14kDa|AW536328	signal recognition particle 14	protein-coding	107.0	203.0	76.5	1802.5	271.0	108.5	104.0	99.0
Merged-chr19-4811171-4	chr19	4811086	4811286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019869, exon 1 of 3)	exon (NM_019869, exon 1 of 3)	448.0	NM_001290127	102902673.0	Mm.426069	NM_001290127	ENSMUSG00000096370	Gm21992	Rbm14-rbm4	predicted gene 21992	protein-coding	48.5	48.5	34.5	505.0	90.0	55.0	38.0	37.5
Merged-chr13-56611319-4	chr13	56611217	56611417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 1 of 16)	intron (NR_155548, intron 1 of 16)	1731.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	20.5	23.0	24.0	354.0	52.5	31.0	37.0	22.5
Merged-chr1-64970907-1	chr1	64970807	64971007	+	718.0	f0_balb.idr	Intergenic	Intergenic	-14083.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	8.0	15.0	13.0	108.0	16.0	2.0	8.5	8.5
Merged-chr17-25873564-2	chr17	25873464	25873664	+	771.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1936.0	NM_026686	68347.0	Mm.35098	NM_026686	ENSMUSG00000025731	Mettl26	0610011F06Rik	methyltransferase like 26	protein-coding	4.5	3.5	4.5	45.5	21.0	6.5	8.5	7.5
Merged-chr3-84345150-4	chr3	84345050	84345250	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34771.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	28.0	30.5	24.0	497.5	67.0	24.0	51.0	21.5
Merged-chr5-43082541-3	chr5	43082455	43082655	+	900.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-150908.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	6.0	9.0	16.0	171.0	10.5	9.0	20.5	7.5
Merged-chr1-156921770-4	chr1	156921699	156921899	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357391, intron 1 of 19)	intron (NM_001357391, intron 1 of 19)	17588.0	NM_001159966	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	21.0	29.5	13.0	329.5	84.5	11.0	38.5	36.0
Merged-chr17-87064195-3	chr17	87064094	87064294	+	819.638855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38633.0	NM_019936	56724.0	Mm.109329	NM_019936	ENSMUSG00000024146	Cript	1200020A08Rik|AA589469	cysteine-rich PDZ-binding protein	protein-coding	11.0	12.0	13.0	111.0	30.0	10.0	8.0	11.5
Merged-chr4-19895344-4	chr4	19895238	19895438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	27228.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	110.5	133.5	95.5	1897.0	269.0	89.5	119.5	83.0
Merged-chr4-133751726-4	chr4	133751629	133751829	+	957.7625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080819, intron 1 of 19)	intron (NM_001080819, intron 1 of 19)	1882.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	17.5	43.0	6.5	217.0	44.0	17.5	17.0	13.0
Merged-chr1-144312778-4	chr1	144312696	144312896	+	902.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-63692.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	15.5	29.0	19.0	365.5	41.5	14.0	19.0	14.5
Merged-chr9-111289669-4	chr9	111289569	111289769	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	17824.0	NM_175266	77781.0	Mm.209005	NM_175266	ENSMUSG00000046785	Epm2aip1	A930003G21Rik|mKIAA0766	EPM2A (laforin) interacting protein 1	protein-coding	12.0	20.0	9.5	41.5	55.5	18.5	30.0	23.5
Merged-chr11-117654714-4	chr11	117654637	117654837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 1 of 21)	CpG	448.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	178.5	187.5	100.5	1341.5	389.0	159.0	143.0	141.0
Merged-chr16-32813585-2	chr16	32813466	32813666	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3120.0	NM_001256309	381043.0	Mm.303864	NM_001256309	ENSMUSG00000094430	Smbd1	Gm1743|Gm933	somatomedin B domain containing 1	protein-coding	16.5	13.0	5.0	38.5	9.5	4.5	1.0	4.5
Merged-chr18-67270164-4	chr18	67270059	67270259	+	847.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19064.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	29.5	27.5	14.0	281.0	49.0	21.0	28.5	25.5
Merged-chr13-9764086-4	chr13	9763971	9764171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347476)	promoter-TSS (NM_001347476)	-261.0	NM_001347476	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	26.5	27.0	37.0	431.0	109.0	43.0	46.5	56.0
Merged-chr9-32590082-4	chr9	32589982	32590182	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48630.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	9.5	15.5	4.5	160.0	26.0	17.5	9.5	14.5
Merged-chr11-90240400-3	chr11	90240302	90240502	+	853.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9074.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	18.0	18.0	16.0	120.5	11.0	14.0	3.5	4.0
Merged-chr11-4123395-4	chr11	4123304	4123504	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-4675.0	NM_144520	67815.0	Mm.253922	NM_144520	ENSMUSG00000003585	Sec14l2	1300013M05Rik|Spf|TAP	SEC14-like lipid binding 2	protein-coding	23.0	20.0	18.0	366.5	31.5	18.0	14.5	30.0
Merged-chr6-136553955-4	chr6	136553862	136554062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	35111.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	72.5	75.5	47.5	815.5	186.5	54.5	81.5	55.0
Merged-chr4-149099769-4	chr4	149099637	149099837	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019781)	promoter-TSS (NM_019781)	75.0	NM_019781	56273.0	Mm.184172	NM_019781	ENSMUSG00000028975	Pex14	Pex14p|R75137	peroxisomal biogenesis factor 14	protein-coding	31.5	36.5	31.5	247.0	56.0	16.5	12.5	23.5
Merged-chr5-65888339-1	chr5	65888239	65888439	+	565.0	f0_balb.idr	intron (NM_001081105, intron 1 of 2)	intron (NM_001081105, intron 1 of 2)	24770.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	5.5	8.0	5.0	122.0	0.5	1.0	0.5	4.0
Merged-chr3-107098879-4	chr3	107098780	107098980	+	933.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2687.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	10.0	19.5	7.5	220.0	35.0	24.5	5.5	19.5
Merged-chr5-88770531-4	chr5	88770506	88770706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007832, intron 2 of 6)	MTC|LTR|ERVL-MaLR	5593.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	17.5	25.5	23.0	247.5	66.5	29.5	27.5	26.5
Merged-chr8-72239979-5	chr8	72239828	72240028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007456)	promoter-TSS (NM_007456)	-90.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	122.0	175.0	94.0	1154.0	268.0	127.0	101.5	115.0
Merged-chr19-36736716-4	chr19	36736627	36736827	+	794.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016854)	promoter-TSS (NM_016854)	-123.0	NM_016854	53412.0	Mm.24724	NM_016854	ENSMUSG00000067279	Ppp1r3c	PTG|Ppp1r5	protein phosphatase 1, regulatory (inhibitor) subunit 3C	protein-coding	10.5	11.5	13.0	252.5	21.5	15.5	13.5	19.0
Merged-chr2-136892893-4	chr2	136892782	136892982	+	957.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028834, intron 1 of 7)	intron (NM_028834, intron 1 of 7)	714.0	NM_001355669	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	23.0	13.5	22.0	252.0	35.5	7.5	13.5	14.5
Merged-chr6-122598617-4	chr6	122598516	122598716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 2 of 7)	RLTR14|LTR|ERV1	3828.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	37.0	66.5	17.5	205.0	94.0	41.0	47.0	27.0
Merged-chr14-105328511-3	chr14	105328405	105328605	+	877.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69832.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	7.0	3.0	13.5	85.5	17.0	8.0	9.5	9.0
Merged-chr17-46857286-4	chr17	46857193	46857393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-25880.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	15.5	27.5	26.0	249.5	57.0	25.5	24.5	27.0
Merged-chr4-132630092-2	chr4	132629995	132630195	+	731.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-8951.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	5.0	7.5	6.0	34.0	9.5	7.5	2.5	9.0
Merged-chr1-190929122-2	chr1	190929022	190929222	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357133, intron 1 of 8)	intron (NM_001357133, intron 1 of 8)	300.0	NM_001357133	52477.0	Mm.289914	NM_021421	ENSMUSG00000026634	Angel2	2610307I21Rik|5730410O10Rik|AI845692|D1Ertd396e|D1Ertd654e	angel homolog 2	protein-coding	12.5	22.5	35.5	227.5	36.0	13.0	10.0	23.0
Merged-chr1-165624792-4	chr1	165624701	165624901	+	844.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	B3|SINE|B2	9740.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	9.5	13.0	17.5	139.5	20.5	4.5	12.5	2.5
Merged-chr1-181316846-3	chr1	181316744	181316944	+	593.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35784.0	NM_001160212	72978.0	Mm.338083	NM_028408	ENSMUSG00000026514	Cnih3	2900075G08Rik|CNIH-3	cornichon family AMPA receptor auxiliary protein 3	protein-coding	4.5	9.0	7.5	110.5	13.5	4.5	7.0	13.0
Merged-chr7-12987407-3	chr7	12987303	12987503	+	990.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009512)	TTS (NM_009512)	9555.0	NM_001168561	269870.0	Mm.62083	NM_175558	ENSMUSG00000033961	Zfp446	A630035I11Rik|A930031C22|AA120513|AV306632	zinc finger protein 446	protein-coding	5.0	1.0	2.0	0.0	45.0	16.0	30.0	20.0
Merged-chr10-118053240-4	chr10	118053143	118053343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-88544.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	81.0	128.0	129.5	1496.0	227.0	71.5	89.0	89.5
Merged-chr11-70453430-5	chr11	70453353	70453553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_151497)	TTS (NR_151497)	1522.0	NM_025397	66172.0	Mm.46424	NM_025397	ENSMUSG00000018923	Med11	1110030J09Rik|AI465144|AW545069	mediator complex subunit 11	protein-coding	71.5	75.5	75.5	708.0	139.5	61.0	53.0	44.5
Merged-chr6-50978753-4	chr6	50978655	50978855	+	944.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	202640.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	20.5	16.0	11.5	120.5	21.5	5.5	19.5	21.5
Merged-chr15-89149677-4	chr15	89149561	89149761	+	885.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011161)	promoter-TSS (NM_011161)	-55.0	NM_011161	19094.0	Mm.91969	NM_011161	ENSMUSG00000053137	Mapk11	P38b|Prkm11|Sapk2|Sapk2b|p38-2|p38beta|p38beta2	mitogen-activated protein kinase 11	protein-coding	9.0	29.0	12.5	192.0	53.0	12.0	15.5	13.0
Merged-chr18-66475900-4	chr18	66475816	66476016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17312.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	93.0	216.5	115.0	1069.0	288.5	110.5	134.0	83.0
Merged-chr7-80501101-4	chr7	80500997	80501197	+	927.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042527, intron 7 of 21)	intron (NM_001042527, intron 7 of 21)	33901.0	NM_007550	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	19.5	43.5	26.5	261.5	59.0	10.5	12.0	30.0
Merged-chr16-78267677-4	chr16	78267587	78267787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-12233.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	97.5	62.0	103.5	1473.0	193.5	82.5	65.0	85.0
Merged-chr7-107044583-4	chr7	107044501	107044701	+	760.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8465.0	NM_147034	259036.0	Mm.377801	NM_147034	ENSMUSG00000073898	Olfr713	MOR263-1|P3	olfactory receptor 713	protein-coding	14.5	11.5	11.5	271.5	16.0	14.5	19.5	9.5
Merged-chr8-128701150-3	chr8	128701046	128701246	+	723.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010578, intron 1 of 15)	Lx3_Mus|LINE|L1	15492.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	4.5	11.0	9.0	88.0	9.0	7.0	2.0	7.5
Merged-chr13-67526178-4	chr13	67526072	67526272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133228)	promoter-TSS (NM_133228)	59.0	NM_133228	170763.0	Mm.491205	NM_133228	ENSMUSG00000097333	Zfp87	2210039O17Rik|4631412O18Rik|KRAB4|Mzf22|Zfp72	zinc finger protein 87	protein-coding	153.0	216.5	116.0	2820.5	424.5	136.0	201.0	183.0
Merged-chr17-42892157-3	chr17	42892058	42892258	+	805.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-15734.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	0.0	0.0	0.0	0.0	39.0	16.5	16.5	11.0
Merged-chr9-53741210-4	chr9	53741100	53741300	+	891.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30335.0	NM_028060	72022.0	Mm.26159	NM_028060	ENSMUSG00000042195	Slc35f2	1500009K05Rik|AU019213	solute carrier family 35, member F2	protein-coding	19.5	14.5	11.0	281.5	29.5	8.5	25.5	18.5
Merged-chr5-150674370-4	chr5	150674208	150674408	+	961.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175310, intron 1 of 34)	CpG	481.0	NM_001346503	100710.0	Mm.32959	NM_175310	ENSMUSG00000034021	Pds5b	AI646570|AS3|AW212954|Aprin|Tg(Wap-ERBB2)229Wzw|WAP-Her-2|mKIAA0979	PDS5 cohesin associated factor B	protein-coding	22.0	19.0	16.0	268.5	29.0	8.5	12.0	14.0
Merged-chr5-64414635-2	chr5	64414497	64414697	+	605.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	53345.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	8.5	12.5	9.0	34.0	10.5	2.0	3.0	2.0
Merged-chr4-122858131-4	chr4	122858099	122858299	+	738.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001358036)	TTS (NM_001358036)	21972.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	3.0	6.0	5.0	158.5	14.0	8.0	6.5	8.5
Merged-chr1-88278302-6	chr1	88278194	88278394	+	983.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198652)	promoter-TSS (NM_198652)	-715.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	17.5	17.5	12.5	114.5	19.0	13.0	16.5	14.5
Merged-chr7-92885639-4	chr7	92885529	92885729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	LTR48B|LTR|ERV1	10376.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	57.5	71.0	67.0	989.5	175.5	49.0	42.5	57.0
Merged-chr5-120891265-4	chr5	120891164	120891364	+	845.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3651.0	NR_126529	23960.0	Mm.389688	NM_011852	ENSMUSG00000066861	Oas1g	AI449562|L2|Mmu-L|Mmu-L2|Oas1b|Oias-1|Oias1	2'-5' oligoadenylate synthetase 1G	protein-coding	16.0	22.0	5.0	186.0	23.0	14.5	14.5	9.0
Merged-chr17-43606919-4	chr17	43606792	43606992	+	829.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 9 of 11)	B3A|SINE|B2	-15383.0	NR_045444	73504.0	Mm.9277	NR_045444	ENSMUSG00000090307	1700071M16Rik	-	RIKEN cDNA 1700071M16 gene	ncRNA	5.0	14.5	6.5	102.0	20.5	11.5	9.5	9.5
Merged-chr6-82835808-3	chr6	82835710	82835910	+	914.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	46043.0	NR_040520	69652.0	Mm.96357	NR_040520	ENSMUSG00000100291	2310069B03Rik	-	RIKEN cDNA 2310069B03 gene	ncRNA	10.0	21.0	10.0	141.5	15.5	6.0	22.5	10.0
Merged-chr17-71004473-4	chr17	71004347	71004547	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-1914.0	NM_026064	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	26.5	48.0	30.0	171.5	139.0	63.0	59.5	65.0
Merged-chr2-27503820-4	chr2	27503736	27503936	+	789.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-11311.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	8.0	11.0	11.5	129.5	15.5	7.0	12.0	13.5
Merged-chr11-8664134-12	chr11	8664025	8664225	+	970.4027710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	CpG	410.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	17.0	22.0	20.5	322.0	56.5	15.5	25.5	32.5
Merged-chr4-15265699-4	chr4	15265618	15265818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181401)	promoter-TSS (NM_181401)	-102.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	188.5	249.5	187.0	3021.0	383.0	145.0	210.0	193.0
Merged-chr3-137918555-4	chr3	137918471	137918671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019920)	promoter-TSS (NM_019920)	16.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	74.0	97.5	78.0	522.0	241.5	102.0	115.0	112.5
Merged-chr10-60739812-4	chr10	60739738	60739938	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	intron (NM_023596, intron 2 of 5)	12944.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	10.0	6.5	12.5	297.5	26.0	6.0	11.5	7.0
Merged-chr12-108937046-4	chr12	108936944	108937144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	42772.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	106.5	254.0	159.5	2564.5	216.0	124.0	146.0	114.0
Merged-chr19-11858142-5	chr19	11858046	11858246	+	881.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2195.0	NM_001011524	258227.0	Mm.377385	NM_001011524	ENSMUSG00000060556	Olfr1418	MOR266-5	olfactory receptor 1418	protein-coding	5.0	6.5	6.0	85.5	1.0	1.5	0.0	4.5
Merged-chr5-123586010-4	chr5	123585877	123586077	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001359223)	TTS (NM_001359223)	-12962.0	NM_029929	77573.0	Mm.41372	NM_029929	ENSMUSG00000029434	Vps33a	3830421M04Rik|AI503300|AW048546|AW554476|bf	VPS33A CORVET/HOPS core subunit	protein-coding	15.0	16.5	17.5	147.0	29.5	5.5	6.5	18.5
Merged-chr8-10683302-4	chr8	10683203	10683403	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	199151.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	25.0	38.5	31.0	618.5	41.5	13.0	21.0	17.0
Merged-chr12-84195344-4	chr12	84195244	84195444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	-1329.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	57.0	106.5	55.5	569.0	198.5	79.5	65.0	64.5
Merged-chr11-96311668-4	chr11	96311567	96311767	+	995.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4757.0	NR_131758	75395.0	Mm.440014	NR_131758	ENSMUSG00000085645	Hoxb5os	0610040B09Rik|AV302770|Hoxb5/6as	homeobox B5 and homeobox B6, opposite strand	ncRNA	27.0	44.5	10.0	181.5	62.0	31.5	25.0	19.5
Merged-chr14-72564135-4	chr14	72564025	72564225	+	923.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 15 of 25)	intron (NM_207636, intron 15 of 25)	145878.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	22.5	12.5	29.5	493.5	46.0	19.5	11.5	16.0
Merged-chr9-118748547-3	chr9	118748424	118748624	+	804.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 1 of 13)	intron (NM_001113514, intron 1 of 13)	36832.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	14.0	17.0	27.5	395.0	1.0	2.0	1.5	0.0
Merged-chr2-169700322-4	chr2	169700203	169700403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	66657.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	44.5	48.0	26.5	526.5	112.0	26.0	26.0	80.0
Merged-chr15-76198800-4	chr15	76198715	76198915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201393)	promoter-TSS (NM_201393)	591.0	NM_201392	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	57.5	115.0	44.0	483.0	110.0	53.5	39.0	47.5
Merged-chr11-100282829-2	chr11	100282729	100282929	+	787.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12958.0	NM_212483	68239.0	Mm.158190	NM_212483	ENSMUSG00000053654	Krt42	2410039E07Rik|K17n|Ka22|ecat6	keratin 42	protein-coding	8.0	10.5	5.0	54.0	7.5	3.5	4.5	2.5
Merged-chr10-53285364-2	chr10	53285264	53285464	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001204983, intron 10 of 12)	intron (NM_001204983, intron 10 of 12)	5094.0	NR_038015	100502820.0	Mm.55827	NR_038015	ENSMUSG00000112709	Gm19395	-	predicted gene, 19395	ncRNA	6.5	5.0	0.0	53.0	4.5	5.0	5.0	11.0
Merged-chr9-108404593-3	chr9	108404487	108404687	+	752.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001135198, exon 7 of 7)	3' UTR (NM_001135198, exon 7 of 7)	11753.0	NM_053216	112418.0	Mm.78287	NM_053216	ENSMUSG00000032611	1700102P08Rik	AI593206	RIKEN cDNA 1700102P08 gene	protein-coding	11.0	11.0	7.5	80.5	37.0	6.0	10.5	7.5
Merged-chr13-110431578-1	chr13	110431478	110431678	+	587.0	f0_balb.idr	Intergenic	Intergenic	36534.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	5.0	10.0	7.5	101.5	16.0	4.0	9.5	0.5
Merged-chr7-48909230-2	chr7	48909130	48909330	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27634.0	NM_001360812	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	11.0	14.0	14.0	204.5	31.5	16.0	9.5	10.5
Merged-chr11-80172043-4	chr11	80171926	80172126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 7 of 10)	intron (NM_172133, intron 7 of 10)	-11846.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	114.5	141.0	106.5	1186.0	254.0	78.5	72.5	73.0
Merged-chr19-5038857-4	chr19	5038762	5038962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175383)	promoter-TSS (NM_175383)	36.0	NM_175383	108902.0	Mm.29628	NM_175383	ENSMUSG00000047379	B4gat1	1500032M01Rik|B3gnt1|B3gnt6|BETA3GNT1|iGAT|iGNT	beta-1,4-glucuronyltransferase 1	protein-coding	33.0	70.0	33.0	362.5	94.5	25.0	44.5	42.0
Merged-chr17-45506991-4	chr17	45506881	45507081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198608, exon 1 of 22)	exon (NM_198608, exon 1 of 22)	140.0	NM_198608	224805.0	Mm.329063	NM_198608	ENSMUSG00000023938	Aars2	Aarsl|AlaRS|Gm89	alanyl-tRNA synthetase 2, mitochondrial	protein-coding	36.5	90.5	62.5	747.0	113.0	53.5	54.0	62.0
Merged-chr2-145861763-3	chr2	145861654	145861854	+	912.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 9 of 12)	intron (NM_028724, intron 9 of 12)	-41487.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	6.5	15.5	17.0	240.5	6.5	6.5	9.5	4.0
Merged-chr14-105483145-4	chr14	105483044	105483244	+	858.4458619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15644.0	NR_045921	74864.0	Mm.159344	NR_045921	ENSMUSG00000022116	4930449E01Rik	-	RIKEN cDNA 4930449E01 gene	ncRNA	12.5	11.0	13.0	157.0	33.0	9.0	15.5	21.0
Merged-chr12-3418955-4	chr12	3418849	3419049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030694, intron 1 of 2)	intron (NR_030694, intron 1 of 2)	7798.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	43.5	48.5	31.0	579.0	74.5	24.5	31.5	29.0
Merged-chr10-108163002-5	chr10	108162847	108163047	+	970.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027892, intron 1 of 25)	intron (NM_027892, intron 1 of 25)	547.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	9.0	13.0	18.5	160.5	30.0	13.5	14.0	32.5
Merged-chr3-27218817-4	chr3	27218712	27218912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	35808.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	100.0	155.0	97.5	2119.5	200.0	68.0	95.0	81.0
Merged-chr9-114747993-6	chr9	114747832	114748032	+	859.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026036, exon 4 of 4)	3' UTR (NM_026036, exon 4 of 4)	16729.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	0.0	2.0	0.5	4.5	18.5	7.5	6.0	5.5
Merged-chr5-112325423-4	chr5	112325313	112325513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018783)	promoter-TSS (NM_018783)	-956.0	NM_018783	54723.0	Mm.172947	NM_018783	ENSMUSG00000029345	Tfip11	2810002G02Rik|AF097181|AW046167|Srr1|TIP33|Tip39	tuftelin interacting protein 11	protein-coding	40.5	71.5	32.5	357.0	143.5	40.0	84.0	60.0
Merged-chr11-85843334-6	chr11	85843271	85843471	+	928.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10756.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	18.0	24.0	20.0	249.0	28.0	15.0	18.0	17.5
Merged-chr17-27026118-3	chr17	27025993	27026193	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149749, intron 1 of 6)	intron (NR_149749, intron 1 of 6)	2534.0	NM_007523	12018.0	Mm.2443	NM_007523	ENSMUSG00000057789	Bak1	Bak|N-BAK1|N-Bak	BCL2-antagonist/killer 1	protein-coding	5.5	9.5	8.5	45.0	11.0	5.0	7.5	9.5
Merged-chr11-8580017-4	chr11	8579910	8580110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	intron (NM_001083587, intron 3 of 30)	84525.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	77.5	145.0	94.5	1228.0	189.0	96.0	61.0	36.5
Merged-chr2-165779151-3	chr2	165779061	165779261	+	787.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79012.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	9.5	11.0	8.0	78.5	12.0	7.5	5.5	9.5
Merged-chr19-57610068-4	chr19	57609997	57610197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181415)	promoter-TSS (NM_181415)	-937.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	97.5	158.5	118.5	1349.5	237.0	100.5	86.5	90.0
Merged-chr17-7915083-4	chr17	7914964	7915164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10936.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	57.5	88.0	86.0	1165.5	168.5	73.0	71.0	64.5
Merged-chr17-88442062-4	chr17	88441952	88442152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355742, intron 1 of 5)	intron (NM_001355742, intron 1 of 5)	1348.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	39.0	27.5	27.5	353.0	66.0	19.5	29.5	23.5
Merged-chr3-69179880-3	chr3	69179787	69179987	+	837.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-42532.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	10.0	13.0	5.0	181.5	5.5	4.0	6.5	8.0
Merged-chr14-105176389-3	chr14	105176290	105176490	+	711.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134077, intron 1 of 20)	intron (NM_134077, intron 1 of 20)	937.0	NM_134077	74213.0	Mm.474531	NM_134077	ENSMUSG00000022119	Rbm26	1700009P03Rik|AI447318|C230097K14Rik|C86225|MLZ-393|Pro1777|Se70-2	RNA binding motif protein 26	protein-coding	8.5	18.5	8.5	184.0	29.0	8.5	8.0	18.0
Merged-chr2-33978705-4	chr2	33978608	33978808	+	997.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90762.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	35.5	47.0	9.5	440.0	138.5	29.5	34.5	45.5
Merged-chr6-72737090-4	chr6	72736988	72737188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	MIRb|SINE|MIR	51957.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	26.0	30.0	20.0	557.5	57.0	20.5	55.5	35.5
Merged-chr6-39377613-4	chr6	39377483	39377683	+	952.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155076)	promoter-TSS (NR_155076)	124.0	NM_001361619	72144.0	Mm.482167	NM_028123	ENSMUSG00000029924	Slc37a3	2610507O21Rik|AU044904	solute carrier family 37 (glycerol-3-phosphate transporter), member 3	protein-coding	15.0	22.0	11.5	186.5	28.0	12.5	14.0	13.5
Merged-chr1-7090903-2	chr1	7090803	7091003	+	925.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_183028, intron 1 of 5)	intron (NM_183028, intron 1 of 5)	1983.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	6.5	4.5	4.5	72.5	20.5	4.5	6.5	3.0
Merged-chr10-77536922-4	chr10	77536809	77537009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 1 of 15)	MTD|LTR|ERVL-MaLR	6561.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	102.5	142.5	134.0	1805.0	265.0	108.5	133.5	149.0
Merged-chr1-54477452-2	chr1	54477349	54477549	+	831.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163314, exon 27 of 27)	3' UTR (NM_001163314, exon 27 of 27)	-38423.0	NM_001033194	98488.0	Mm.25856	NM_001033194	ENSMUSG00000041303	Gtf3c3	TF3C-gamma|TFIIIC102	general transcription factor IIIC, polypeptide 3	protein-coding	6.0	5.5	2.0	64.5	12.5	7.5	4.5	10.5
Merged-chr14-33424282-2	chr14	33424182	33424382	+	777.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310453, intron 1 of 11)	intron (NM_001310453, intron 1 of 11)	-13258.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	2.5	6.0	8.0	50.0	17.5	6.5	10.5	5.5
Merged-chr2-18698819-4	chr2	18698721	18698921	+	888.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001334)	promoter-TSS (NM_001001334)	-201.0	NM_001001334	381350.0	Mm.330024	NM_001001334	ENSMUSG00000037708	Spag6	Spag6l	sperm associated antigen 6	protein-coding	10.5	15.0	8.0	209.5	30.0	9.0	8.5	14.0
Merged-chr7-122415605-4	chr7	122415497	122415697	+	939.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	126472.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	12.5	23.5	21.0	317.5	34.0	24.5	15.0	30.0
Merged-chr4-132843228-4	chr4	132843142	132843342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146154)	promoter-TSS (NM_146154)	-73.0	NM_146154	100336.0	Mm.105230	NM_146154	ENSMUSG00000028882	Ppp1r8	6330548N22Rik|AU044684|NIPP1	protein phosphatase 1, regulatory (inhibitor) subunit 8	protein-coding	35.0	64.5	22.0	343.5	76.0	33.5	41.0	33.0
Merged-chr13-30729538-5	chr13	30729462	30729662	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19671.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	8.0	9.5	6.5	43.5	12.0	3.5	11.0	12.0
Merged-chr3-75556392-4	chr3	75556270	75556470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019745, intron 1 of 7)	CpG	482.0	NM_019745	56426.0	Mm.316473	NM_019745	ENSMUSG00000027835	Pdcd10	2410003B13Rik|Ccm3|Tfa15|Tfar15	programmed cell death 10	protein-coding	32.0	28.0	28.0	397.0	68.0	25.0	23.0	32.0
Merged-chr6-143100191-4	chr6	143100089	143100289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029897)	promoter-TSS (NM_029897)	-37.0	NM_001109688	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	143.5	208.0	97.5	2060.0	383.5	142.5	168.0	117.0
Merged-chr15-95963243-4	chr15	95963146	95963346	+	971.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 17 of 19)	MIRc|SINE|MIR	116307.0	NR_126493	402773.0	Mm.210567	NM_001033483	ENSMUSG00000078925	D030018L15Rik	-	nuclear receptor coactivator 2 pseudogene	pseudo	15.5	31.5	31.5	659.0	63.0	15.0	37.5	26.0
Merged-chr3-109352206-2	chr3	109352106	109352306	+	576.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	intron (NM_020505, intron 1 of 26)	11523.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	8.0	5.0	4.5	110.5	8.0	2.5	1.0	1.0
Merged-chr5-24686400-4	chr5	24686291	24686491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305264, intron 1 of 14)	intron (NM_001305264, intron 1 of 14)	576.0	NM_001305264	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	33.5	42.5	24.0	393.0	120.5	30.0	30.0	43.0
Merged-chr3-97227728-4	chr3	97227612	97227812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029933)	promoter-TSS (NM_029933)	-348.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	130.0	157.0	122.0	1877.0	290.0	143.5	153.5	146.5
Merged-chr8-45337140-4	chr8	45337028	45337228	+	814.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153535, exon 14 of 14)	3' UTR (NM_153535, exon 14 of 14)	-3932.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	12.5	14.0	12.5	185.0	26.0	7.5	5.5	14.0
Merged-chr5-21547211-4	chr5	21547126	21547326	+	957.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199632, intron 11 of 20)	intron (NM_001199632, intron 11 of 20)	3699.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	11.5	31.5	11.5	292.5	71.5	16.0	25.0	14.5
Merged-chr10-87857382-4	chr10	87857292	87857492	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001314010)	promoter-TSS (NM_001314010)	-873.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	32.0	23.5	20.5	343.5	63.0	12.5	6.0	16.0
Merged-chr7-68157619-4	chr7	68157518	68157718	+	961.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	106615.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	16.0	20.5	8.0	293.5	53.5	16.0	28.0	19.0
Merged-chr3-32401346-4	chr3	32401250	32401450	+	864.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34801.0	NM_008839	18706.0	Mm.260521	NM_008839	ENSMUSG00000027665	Pik3ca	6330412C24Rik|caPI3K|p110|p110alpha	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	protein-coding	10.5	18.0	12.0	194.0	31.0	7.0	10.0	14.5
Merged-chr9-90235019-4	chr9	90234907	90235107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	35762.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	17.5	74.0	40.5	579.0	101.5	31.0	51.0	31.0
Merged-chr19-5510639-4	chr19	5510548	5510748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024560)	promoter-TSS (NM_001024560)	-131.0	NM_001024560	225861.0	Mm.20071	NM_001024560	ENSMUSG00000056185	Snx32	B930037P14Rik|Snx6b	sorting nexin 32	protein-coding	161.5	264.0	119.0	2454.5	412.5	166.5	168.5	136.0
Merged-chr4-139214124-4	chr4	139214022	139214222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	20011.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	53.5	93.0	77.5	1375.0	286.0	90.5	110.0	88.5
Merged-chr2-167923761-4	chr2	167923664	167923864	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-8563.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	23.0	21.0	21.5	179.5	47.0	10.0	26.0	32.0
Merged-chr6-67102227-3	chr6	67102120	67102320	+	762.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64813.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	10.0	7.5	10.5	159.0	6.0	3.0	3.0	3.5
Merged-chr5-123061511-4	chr5	123061329	123061529	+	996.590942	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-14413.0	NM_001347456	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	9.5	18.0	17.5	99.0	43.0	20.5	14.5	29.0
Merged-chr9-75100568-3	chr9	75100449	75100649	+	581.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010864, intron 1 of 40)	intron (NM_010864, intron 1 of 40)	29343.0	NM_010864	17918.0	Mm.3645	NM_010864	ENSMUSG00000034593	Myo5a	9630007J19Rik|AI413174|AI661011|Dbv|MVa|Myo5|MyoVA|Sev-1|d|d-120J|flail|flr	myosin VA	protein-coding	7.0	9.5	15.0	114.5	9.5	1.0	6.0	8.5
Merged-chr1-133685966-4	chr1	133685865	133686065	+	882.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159649, intron 2 of 5)	intron (NM_001159649, intron 2 of 5)	4051.0	NM_172842	240754.0	Mm.36534	NM_172842	ENSMUSG00000051998	Lax1	A530029E09|E430019B13Rik	lymphocyte transmembrane adaptor 1	protein-coding	13.0	47.5	31.5	402.0	12.5	14.0	12.5	22.0
Merged-chr19-12483791-3	chr19	12483703	12483903	+	734.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172442, intron 4 of 8)	intron (NM_172442, intron 4 of 8)	18193.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	13.0	7.0	15.5	88.0	5.0	2.0	2.5	3.0
Merged-chr1-51907891-4	chr1	51907790	51907990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010863, intron 1 of 29)	intron (NM_010863, intron 1 of 29)	8088.0	NM_001161817	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	65.0	106.0	74.0	1303.5	176.5	69.0	78.5	62.0
Merged-chr1-171283467-4	chr1	171283383	171283583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013919, intron 8 of 12)	intron (NM_013919, intron 8 of 12)	-2297.0	NM_008911	19044.0	Mm.266888	NM_008911	ENSMUSG00000062729	Ppox	Ppo	protoporphyrinogen oxidase	protein-coding	25.0	48.0	24.0	504.5	79.0	39.0	33.0	30.0
Merged-chr2-129593941-5	chr2	129593800	129594000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291022, intron 1 of 4)	intron (NM_001291022, intron 1 of 4)	731.0	NM_001291022	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	25.5	67.0	38.0	395.0	99.5	39.5	36.5	35.0
Merged-chr8-35792137-5	chr8	35792027	35792227	+	957.392395	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	34432.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	13.0	26.5	15.0	200.0	40.5	7.5	12.5	28.0
Merged-chr13-8644158-4	chr13	8644056	8644256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 3 of 10)	ORR1E|LTR|ERVL-MaLR	226888.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	83.5	105.0	143.5	1895.0	66.0	24.0	53.5	49.0
Merged-chr5-72822622-3	chr5	72822522	72822722	+	928.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	45826.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	14.0	6.0	9.0	120.5	8.0	9.5	2.0	0.5
Merged-chr5-92279351-4	chr5	92279257	92279457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1176.0	NM_025972	67111.0	Mm.28890	NM_025972	ENSMUSG00000029413	Naaa	2210023K21Rik|3830414F09Rik|Asahl	N-acylethanolamine acid amidase	protein-coding	44.0	66.5	43.0	931.0	271.5	90.0	124.0	116.0
Merged-chr1-131136166-4	chr1	131136074	131136274	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145508, intron 2 of 2)	intron (NM_145508, intron 2 of 2)	2060.0	NM_145508	226419.0	Mm.39299	NM_145508	ENSMUSG00000016526	Dyrk3	BC006704	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3	protein-coding	18.5	13.0	6.5	157.0	20.0	1.0	12.0	6.5
Merged-chr19-34921730-3	chr19	34921627	34921827	+	895.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362434)	promoter-TSS (NM_001362434)	-631.0	NM_001362434	240641.0	Mm.278471	NM_183046	ENSMUSG00000024795	Kif20b	33cex|C330014J10Rik|MPP1|Mphosph1|magoo	kinesin family member 20B	protein-coding	9.0	14.5	12.5	85.5	19.0	4.5	7.5	11.0
Merged-chr5-147825798-4	chr5	147825699	147825899	+	722.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34829.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	8.0	6.5	5.0	107.5	30.5	9.5	6.0	21.5
Merged-chr16-35918801-4	chr16	35918662	35918862	+	930.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19708.0	NM_030253	80285.0	Mm.49074	NM_030253	ENSMUSG00000022906	Parp9	ARTD9|AW214463|BC003281|Bagl|Bal|PARP-9	poly (ADP-ribose) polymerase family, member 9	protein-coding	8.5	28.0	11.0	120.5	36.5	14.0	8.0	14.0
Merged-chr6-84020214-4	chr6	84020114	84020314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	intron (NM_001310152, intron 1 of 53)	828.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	26.0	21.5	36.0	425.0	70.5	28.5	24.0	19.0
Merged-chr10-81349971-2	chr10	81349871	81350071	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163165, intron 2 of 9)	intron (NM_001163165, intron 2 of 9)	455.0	NM_001163165	15353.0	Mm.38474	NM_010440	ENSMUSG00000020232	Hmg20b	AW610687|BRAF35|Hmgx2|Hmgxb2|Smarce1r	high mobility group 20B	protein-coding	5.0	9.0	8.5	27.0	22.5	3.5	2.5	4.5
Merged-chr17-56218930-4	chr17	56218833	56219033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172624)	promoter-TSS (NM_172624)	-44.0	NM_172624	224897.0	Mm.205535	NM_172624	ENSMUSG00000001229	Dpp9	6430584G11Rik|A330078I11|DPP IX|DPRP2	dipeptidylpeptidase 9	protein-coding	111.5	178.0	74.0	1266.5	297.5	89.5	105.0	94.5
Merged-chr7-16582408-4	chr7	16582322	16582522	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172739, intron 1 of 6)	intron (NM_172739, intron 1 of 6)	-31402.0	NR_136928	102634559.0	Mm.421602	NR_136928	ENSMUSG00000100583	Gm29443	-	predicted gene 29443	ncRNA	19.5	23.0	21.5	489.0	56.0	15.0	20.5	26.5
Merged-chr5-95898162-4	chr5	95898043	95898243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58796.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	117.0	211.0	130.5	951.5	142.5	81.5	56.5	33.0
Merged-chr11-93729333-4	chr11	93729229	93729429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	156437.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	35.5	36.0	43.0	831.0	156.5	53.0	60.5	69.0
Merged-chr13-40844319-4	chr13	40844221	40844421	+	992.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-15447.0	NM_023887	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	35.5	24.0	17.0	514.0	53.5	25.0	29.5	20.5
Merged-chr18-52599868-3	chr18	52599764	52599964	+	645.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16051.0	NM_025749	66758.0	Mm.251599	NM_025749	ENSMUSG00000046886	Zfp474	4933409D10Rik|Znf474	zinc finger protein 474	protein-coding	7.5	6.5	2.5	36.0	20.5	5.5	14.0	10.0
Merged-chr10-69321461-4	chr10	69321414	69321614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31398.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	16.5	39.0	17.5	361.0	42.0	16.5	16.5	17.5
Merged-chr3-65873287-4	chr3	65873165	65873365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	84984.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	82.0	141.5	81.0	1523.0	186.0	78.0	99.0	91.5
Merged-chr16-92695611-4	chr16	92695524	92695724	+	853.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001111021, exon 3 of 8)	exon (NM_001111021, exon 3 of 8)	1705.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	9.0	18.5	10.0	123.5	22.5	6.5	10.5	18.5
Merged-chr5-121545991-4	chr5	121545883	121546083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010765)	promoter-TSS (NM_010765)	-91.0	NM_010765	17165.0	Mm.272206	NM_010765	ENSMUSG00000029454	Mapkapk5	MK5|PRAK	MAP kinase-activated protein kinase 5	protein-coding	42.0	87.5	43.5	645.0	161.0	79.0	46.0	73.5
Merged-chr18-75820215-4	chr18	75820104	75820304	+	954.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145356)	promoter-TSS (NM_145356)	26.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	13.5	34.5	16.5	451.0	58.0	12.0	31.0	27.0
Merged-chr1-74237080-4	chr1	74237006	74237206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	CpG	589.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	36.0	59.0	44.0	716.0	139.5	53.0	72.5	63.5
Merged-chr10-24645346-4	chr10	24645231	24645431	+	899.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008813, exon 24 of 25)	exon (NM_008813, exon 24 of 25)	49889.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	16.0	18.0	20.0	343.0	32.0	8.0	14.5	13.0
Merged-chr4-83485906-4	chr4	83485859	83486059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355203, intron 1 of 10)	CpG-10005	504.0	NM_001290527	101739.0	Mm.105331	NM_133948	ENSMUSG00000028484	Psip1	AA408851|AU015605|Dfs70|Ledgfa|Ledgfb|Psip2	PC4 and SFRS1 interacting protein 1	protein-coding	32.5	42.0	31.0	437.5	82.0	28.0	38.0	44.5
Merged-chr11-85311211-4	chr11	85311121	85311321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016910)	promoter-TSS (NM_016910)	-33.0	NM_016910	53892.0	Mm.45609	NM_016910	ENSMUSG00000020525	Ppm1d	AV338790|Wip1	protein phosphatase 1D magnesium-dependent, delta isoform	protein-coding	141.5	212.0	99.5	1356.5	356.0	126.0	116.0	139.5
Merged-chr1-180764078-4	chr1	180763987	180764187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38044.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	40.0	38.5	29.0	577.5	78.0	45.5	33.0	32.0
Merged-chr18-53265078-4	chr18	53264992	53265192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	RLTR30D2_MM|LTR|ERV1	19430.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	143.0	180.0	171.5	1353.0	308.5	110.0	102.5	84.0
Merged-chr18-4948166-4	chr18	4948044	4948244	+	831.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98445.0	NM_153153	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	9.5	5.5	12.0	158.0	21.0	9.0	15.0	18.5
Merged-chr7-36690689-4	chr7	36690587	36690787	+	803.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7431.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	8.5	10.0	10.0	74.0	33.5	13.0	9.0	11.5
Merged-chr5-129908588-4	chr5	129908503	129908703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026916)	promoter-TSS (NM_026916)	63.0	NM_026916	69034.0	Mm.211372	NM_026916	ENSMUSG00000095789	Nupr1l	1810010E01Rik|4930579G22Rik|Nupr2	nuclear protein transcriptional regulator 1 like	protein-coding	73.0	114.0	114.5	897.0	209.5	81.5	94.5	91.0
Merged-chr19-5433159-4	chr19	5433040	5433240	+	893.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7996.0	NM_001256515	107242.0	Mm.329658	NM_134149	ENSMUSG00000047423	AI837181	Bles03|N28173	expressed sequence AI837181	protein-coding	14.0	20.5	5.0	139.5	25.5	11.0	19.5	19.0
Merged-chr1-171330288-2	chr1	171330150	171330350	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357553, intron 1 of 4)	intron (NM_001357553, intron 1 of 4)	681.0	NM_001357553	21945.0	Mm.270139	NM_011615	ENSMUSG00000013973	Dedd	CASP8IP1|DEFT|Dedpro1|FLDED1|KE05	death effector domain-containing	protein-coding	9.0	19.5	1.5	86.0	17.0	9.0	8.5	7.0
Merged-chr15-50772774-4	chr15	50772662	50772862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	116287.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	37.0	66.0	34.0	301.0	102.0	55.5	45.0	30.0
Merged-chr18-36760235-4	chr18	36760111	36760311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026464)	promoter-TSS (NM_026464)	-11.0	NM_026464	67936.0	Mm.271719	NM_026464	ENSMUSG00000042660	Wdr55	2410080P20Rik|C80692	WD repeat domain 55	protein-coding	53.5	90.0	38.0	639.5	95.0	61.5	76.5	49.5
Merged-chr6-82909476-4	chr6	82909341	82909541	+	894.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-27588.0	NR_040520	69652.0	Mm.96357	NR_040520	ENSMUSG00000100291	2310069B03Rik	-	RIKEN cDNA 2310069B03 gene	ncRNA	11.5	14.0	21.5	195.5	11.5	2.5	1.5	3.5
Merged-chr14-36937573-1	chr14	36937473	36937673	+	550.0	f0_balb.idr	intron (NM_027045, intron 3 of 10)	intron (NM_027045, intron 3 of 10)	-2005.0	NM_028407	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	10.0	4.5	7.0	83.5	29.5	3.0	2.5	7.0
Merged-chr13-33085805-4	chr13	33085718	33085918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173052, intron 2 of 6)	intron (NM_173052, intron 2 of 6)	1715.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	71.5	89.5	42.0	831.0	162.5	42.5	87.0	67.0
Merged-chr2-127252971-3	chr2	127252871	127253071	+	651.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175145, intron 2 of 3)	MIRc|SINE|MIR	4996.0	NM_175145	69470.0	Mm.200889	NM_175145	ENSMUSG00000034850	Tmem127	2310003P10Rik|AI314202|AI317350	transmembrane protein 127	protein-coding	6.0	11.0	5.0	155.0	8.5	4.5	6.0	3.0
Merged-chr1-170255707-4	chr1	170255602	170255802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151590)	promoter-TSS (NR_151590)	37.0	NR_151590	622708.0	Mm.389210	NR_151590	ENSMUSG00000096964	Gm6345	EG622708	predicted gene 6345	pseudo	66.0	100.0	53.5	955.5	141.0	55.5	92.5	57.5
Merged-chr6-32512100-4	chr6	32512007	32512207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040277, intron 1 of 1)	intron (NR_040277, intron 1 of 1)	966.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	89.5	118.0	49.0	1144.0	109.5	40.0	57.0	49.5
Merged-chr19-44280952-1	chr19	44280852	44281052	+	793.799988	f0_balb.idr	Intergenic	Intergenic	-12724.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	12.5	19.5	10.5	166.0	6.5	1.5	1.0	5.0
Merged-chr19-32210624-4	chr19	32210533	32210733	+	939.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	380.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	23.5	35.0	11.0	145.0	35.0	16.0	16.5	12.5
Merged-chr5-90366556-4	chr5	90366463	90366663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030886)	promoter-TSS (NM_030886)	-378.0	NM_198010	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	122.0	166.0	87.5	1586.5	343.0	187.0	173.0	187.0
Merged-chr16-35765097-3	chr16	35765007	35765207	+	996.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	MTD|LTR|ERVL-MaLR	4249.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	40.5	40.5	46.5	482.5	16.0	10.5	9.0	10.0
Merged-chr8-111726352-4	chr8	111726268	111726468	+	964.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009954, intron 1 of 6)	intron (NM_009954, intron 1 of 6)	5768.0	NM_001198839	12927.0	Mm.3758	NM_009954	ENSMUSG00000031955	Bcar1	AI385681|Cas|Crkas	breast cancer anti-estrogen resistance 1	protein-coding	21.0	31.0	11.5	71.0	36.0	16.0	11.0	8.0
Merged-chr5-125358400-4	chr5	125358283	125358483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17289.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	149.5	182.5	144.0	2216.5	353.5	134.0	148.0	132.5
Merged-chr18-36560392-4	chr18	36560283	36560483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175375)	promoter-TSS (NM_175375)	-220.0	NM_175375	108857.0	Mm.482287	NM_175375	ENSMUSG00000024483	Ankhd1	1110004O12Rik|4933432B13Rik|9130019P20Rik|A530027J04Rik|A630021B20Rik|AA571404|Mask|mFLJ00246|mKIAA1085	ankyrin repeat and KH domain containing 1	protein-coding	348.0	599.0	352.0	5264.5	935.0	500.0	469.5	424.5
Merged-chr12-98270547-4	chr12	98270447	98270647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008152, intron 1 of 1)	L1MEd|LINE|L1	1912.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	30.0	43.0	60.5	736.0	78.0	12.5	51.0	39.5
Merged-chr10-62243071-3	chr10	62242970	62243170	+	736.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9368.0	NM_009314	21337.0	Mm.8054	NM_009314	ENSMUSG00000020081	Tacr2	Nk2r|Skr|Tac2r	tachykinin receptor 2	protein-coding	4.5	7.5	8.0	110.5	9.5	3.5	6.0	9.0
Merged-chr11-46128737-3	chr11	46128650	46128850	+	861.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311209, intron 1 of 11)	intron (NM_001311209, intron 1 of 11)	846.0	NM_001311209	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	2.5	4.0	3.0	111.0	10.5	10.5	18.0	9.0
Merged-chr5-104000056-2	chr5	103999956	104000156	+	647.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_053262, intron 5 of 6)	AT_rich|Low_complexity|Low_complexity	21740.0	NM_053262	114664.0	Mm.46019	NM_053262	ENSMUSG00000029311	Hsd17b11	Dhrs8|Pan1b|SDR2|retSDR2	hydroxysteroid (17-beta) dehydrogenase 11	protein-coding	5.0	7.0	2.5	58.5	9.0	6.5	8.5	11.5
Merged-chr1-46921749-4	chr1	46921634	46921834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356417, intron 1 of 10)	intron (NM_001356417, intron 1 of 10)	4042.0	NM_001356417	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	84.0	139.5	71.0	1313.0	200.5	62.0	70.5	43.0
Merged-chr17-47864686-4	chr17	47864569	47864769	+	991.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29978.0	NM_001109973	17240.0	Mm.329100	NM_010783	ENSMUSG00000032717	Mdfi	I-mf|I-mfa	MyoD family inhibitor	protein-coding	10.5	35.5	15.0	197.5	82.0	20.5	28.5	19.5
Merged-chr1-185205244-4	chr1	185205144	185205344	+	928.787476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 1 of 34)	intron (NM_001163754, intron 1 of 34)	1076.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	24.0	27.5	7.5	218.5	53.0	17.0	12.0	18.0
Merged-chr3-103378253-4	chr3	103378174	103378374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57D|LTR|ERV1	98981.0	NM_053170	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	72.0	136.0	101.0	1219.5	358.0	127.5	217.0	147.5
Merged-chr18-4304194-3	chr18	4304116	4304316	+	968.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48737.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	4.0	6.0	5.5	217.0	41.5	15.5	7.0	19.5
Merged-chr2-23023939-4	chr2	23023839	23024039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	intron (NM_001077190, intron 1 of 10)	16302.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	19.5	34.5	20.0	323.5	74.5	29.0	38.0	37.0
Merged-chr13-81148023-4	chr13	81147948	81148148	+	891.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	183974.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	23.5	12.0	29.0	291.5	13.5	7.5	11.5	12.5
Merged-chr9-120434035-3	chr9	120433933	120434133	+	728.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144557, intron 10 of 16)	intron (NM_144557, intron 10 of 16)	-58573.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	8.0	14.0	4.5	179.0	22.0	8.0	15.5	12.0
Merged-chr1-156264171-4	chr1	156264068	156264268	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134741, intron 14 of 17)	ORR1F|LTR|ERVL-MaLR	39180.0	NM_001134741	214575.0	Mm.252800	NM_001134741	ENSMUSG00000060985	Tdrd5	Gm103	tudor domain containing 5	protein-coding	15.5	29.5	6.5	178.0	37.5	17.0	18.5	24.0
Merged-chr2-32404868-4	chr2	32404780	32404980	+	905.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8990.0	NM_133783	96979.0	Mm.28048	NM_133783	ENSMUSG00000026820	Ptges2	0610038H10Rik|C79137|Gbf1|Mpges2|Pges2	prostaglandin E synthase 2	protein-coding	10.0	30.0	14.0	141.5	46.5	25.0	15.0	26.5
Merged-chr2-27690493-2	chr2	27690393	27690593	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	(TG)n|Simple_repeat|Simple_repeat	13292.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	8.0	5.0	1.5	36.0	23.0	5.0	5.0	7.0
Merged-chr10-61423450-3	chr10	61423356	61423556	+	735.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013611, exon 2 of 3)	exon (NM_013611, exon 2 of 3)	5484.0	NM_013611	18119.0	Mm.57195	NM_013611	ENSMUSG00000037171	Nodal	Tg.413d	nodal	protein-coding	6.5	8.5	3.0	85.0	16.0	4.5	8.0	11.0
Merged-chr17-35164988-4	chr17	35164875	35165075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020027)	promoter-TSS (NM_020027)	-98.0	NM_020027	53761.0	Mm.272462	NM_020027	ENSMUSG00000024393	Prrc2a	3110039B05Rik|Bat-2|Bat2|D17H6S51E|G2|Wbp12|mKIAA4178	proline-rich coiled-coil 2A	protein-coding	246.0	401.0	172.0	2533.5	519.0	234.0	161.5	201.5
Merged-chr3-139064529-4	chr3	139064433	139064633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 1 of 13)	MLT1G|LTR|ERVL-MaLR	10668.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	36.5	52.5	37.0	676.5	105.5	37.5	54.0	46.5
Merged-chr17-84191069-4	chr17	84190929	84191129	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_183021, exon 38 of 38)	3' UTR (NM_183021, exon 38 of 38)	-3082.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	13.5	19.5	19.0	206.5	34.0	12.0	17.5	10.0
Merged-chr10-44686850-4	chr10	44686764	44686964	+	881.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-228116.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	13.0	14.0	17.0	354.0	43.0	12.5	27.0	19.0
Merged-chr16-21590981-4	chr16	21590864	21591064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 44 of 46)	intron (NM_001081366, intron 44 of 46)	103701.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	73.5	103.0	64.5	970.0	133.5	46.0	101.0	53.5
Merged-chr5-143464566-4	chr5	143464462	143464662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144915)	promoter-TSS (NM_144915)	69.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	118.5	213.0	86.0	1357.0	255.0	122.0	133.5	135.5
Merged-chr14-59440924-4	chr14	59440817	59441017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320725)	promoter-TSS (NM_001320725)	-37.0	NM_001320721	239122.0	Mm.205022	NM_001081024	ENSMUSG00000071350	Setdb2	Clld8|Gm293|KMT1F	SET domain, bifurcated 2	protein-coding	133.5	190.0	161.5	2919.5	386.0	112.0	205.0	163.5
Merged-chr18-82847171-4	chr18	82847079	82847279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8718.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	48.5	65.5	55.5	906.5	127.5	57.0	78.0	31.5
Merged-chr6-122804643-4	chr6	122804547	122804747	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15537.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	31.5	36.0	15.5	269.5	51.0	22.0	23.5	22.0
Merged-chr15-79414786-4	chr15	79414689	79414889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11486.0	NM_172608	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	87.5	153.0	61.0	1089.5	183.5	67.5	99.5	105.0
Merged-chr7-27933679-4	chr7	27933598	27933798	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4268.0	NM_028538	73430.0	Mm.379224	NM_028538	ENSMUSG00000070709	Zfp974	1700049G17Rik|AV321011|BB026409	zinc finger protein 974	protein-coding	11.0	32.0	15.0	164.5	45.5	21.0	17.0	16.5
Merged-chr5-92098491-4	chr5	92098346	92098546	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-14702.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	13.5	14.0	10.5	231.5	16.5	9.0	12.5	16.0
Merged-chr4-105213438-4	chr4	105213327	105213527	+	757.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 4 of 5)	intron (NM_080555, intron 4 of 5)	56080.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	6.0	7.5	11.5	134.5	27.5	8.5	13.5	6.5
Merged-chr10-68723830-4	chr10	68723746	68723946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177794)	promoter-TSS (NM_177794)	100.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	41.0	56.0	36.0	786.5	189.0	55.5	107.0	79.0
Merged-chr19-4628985-3	chr19	4628903	4629103	+	771.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033447, intron 13 of 14)	intron (NM_001033447, intron 13 of 14)	-3386.0	NM_023131	19671.0	Mm.391143	NM_023131	ENSMUSG00000024889	Rce1	D19Ertd283e|D19Ertd98e	Ras converting CAAX endopeptidase 1	protein-coding	16.0	13.5	1.5	46.0	17.0	6.5	12.5	7.5
Merged-chr11-50130911-4	chr11	50130806	50131006	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290759)	promoter-TSS (NM_001290759)	-454.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	33.0	32.5	31.5	325.0	77.0	40.5	18.0	26.0
Merged-chr16-30686722-4	chr16	30686671	30686871	+	894.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	87048.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	14.5	14.5	11.0	98.5	56.5	14.0	10.5	12.0
Merged-chr9-61860423-2	chr9	61860323	61860523	+	748.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54087.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	1.0	7.5	3.0	37.5	11.0	5.5	8.0	6.0
Merged-chr6-97420259-4	chr6	97420150	97420350	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 4 of 23)	intron (NM_145148, intron 4 of 23)	39036.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	30.5	30.0	25.0	438.5	81.5	28.5	26.0	19.5
Merged-chr10-117832866-3	chr10	117832784	117832984	+	696.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	GA-rich|Low_complexity|Low_complexity	13090.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	7.5	7.0	8.0	74.5	8.0	4.0	0.5	7.0
Merged-chr11-60210519-4	chr11	60210422	60210622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358314)	promoter-TSS (NM_001358314)	-51.0	NM_001358314	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	131.0	203.5	89.0	1657.5	244.0	73.0	91.5	68.0
Merged-chr13-3725970-4	chr13	3725968	3726168	+	950.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78250.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	14.5	13.5	13.5	151.5	13.5	5.0	14.5	10.5
Merged-chr15-57705878-4	chr15	57705765	57705965	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	intron (NM_199449, intron 1 of 3)	11198.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	13.5	15.0	10.5	162.0	45.0	9.5	11.5	14.0
Merged-chr5-105012720-4	chr5	105012613	105012813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR10_RN|LTR|ERVK	-29996.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	59.5	60.0	54.5	864.5	132.5	47.5	56.0	49.5
Merged-chr12-54999206-4	chr12	54999121	54999321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12885.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	43.0	55.0	32.5	754.0	106.5	36.0	34.5	39.0
Merged-chr2-22861441-4	chr2	22861353	22861553	+	968.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 10 of 13)	intron (NM_019456, intron 10 of 13)	-34069.0	NM_019501	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	22.0	19.0	9.0	315.5	45.5	23.5	17.5	19.0
Merged-chr4-149303391-4	chr4	149303304	149303504	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008441, intron 1 of 20)	intron (NM_008441, intron 1 of 20)	4294.0	NM_207682	16561.0	Mm.402393	NM_008441	ENSMUSG00000063077	Kif1b	A530096N05Rik|AI448212|AI506502|D4Mil1e|KIF1Bp130|KIF1Bp204	kinesin family member 1B	protein-coding	15.0	20.0	15.5	335.0	43.0	25.0	17.5	19.5
Merged-chr8-90841653-4	chr8	90841566	90841766	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 1 of 39)	intron (NM_177224, intron 1 of 39)	12831.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	7.5	16.5	15.5	164.0	33.0	7.0	25.5	20.0
Merged-chr15-102140764-4	chr15	102140670	102140870	+	901.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3416.0	NM_008344	16012.0	Mm.358609	NM_008344	ENSMUSG00000023046	Igfbp6	IGFBP-6	insulin-like growth factor binding protein 6	protein-coding	13.0	16.5	21.0	317.5	28.0	17.0	16.0	17.0
Merged-chr16-26582345-6	chr16	26582258	26582458	+	894.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152416, intron 1 of 12)	intron (NR_152416, intron 1 of 12)	653.0	NM_008364	16180.0	Mm.253424	NM_008364	ENSMUSG00000022514	Il1rap	6430709H04Rik|AI255955|AV239853|IL-1RAcP	interleukin 1 receptor accessory protein	protein-coding	7.0	14.5	13.5	136.0	24.5	8.5	8.5	15.0
Merged-chr5-92042796-4	chr5	92042707	92042907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276315)	promoter-TSS (NM_001276315)	-111.0	NM_001276315	53886.0	Mm.44963	NM_016912	ENSMUSG00000029403	Cdkl2	5330436L21Rik|AI505225|KKIAMRE|Kkm	cyclin-dependent kinase-like 2 (CDC2-related kinase)	protein-coding	81.5	123.5	135.0	1408.0	204.5	97.0	76.0	72.5
Merged-chr11-106488457-3	chr11	106488361	106488561	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023913)	promoter-TSS (NM_023913)	-665.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	19.5	27.5	12.5	111.5	73.0	20.0	7.5	7.5
Merged-chr1-34485952-4	chr1	34485778	34485978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12534.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	21.0	44.0	45.5	329.5	93.5	33.5	29.0	36.5
Merged-chr15-97782901-4	chr15	97782793	97782993	+	776.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1472.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	12.5	17.0	11.5	134.5	19.5	3.0	2.5	12.0
Merged-chr16-30397164-2	chr16	30397074	30397274	+	956.366699	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8644.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	1.5	1.0	3.5	18.5	9.0	5.0	5.5	7.5
Merged-chr11-109480622-3	chr11	109480516	109480716	+	986.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028710, intron 1 of 13)	intron (NM_028710, intron 1 of 13)	-5276.0	NM_001361975	74008.0	Mm.482224	NM_028710	ENSMUSG00000020604	Arsg	6330406P08Rik|AI846872|ASG	arylsulfatase G	protein-coding	7.5	17.0	20.5	332.5	20.0	10.5	8.5	26.0
Merged-chr15-76698094-4	chr15	76697976	76698176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_182805, exon 5 of 11)	exon (NM_182805, exon 5 of 11)	1350.0	NM_182805	76282.0	Mm.30130	NM_182805	ENSMUSG00000022546	Gpt	1300007J06Rik|2310022B03Rik|ALT|ALT1|Gpt-1|Gpt1	glutamic pyruvic transaminase, soluble	protein-coding	112.0	182.0	94.5	1354.5	338.5	116.0	137.0	135.5
Merged-chr5-135487161-3	chr5	135487076	135487276	+	865.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	(CCA)n|Simple_repeat|Simple_repeat	57946.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	3.5	7.5	4.5	77.0	17.0	10.0	8.5	6.5
Merged-chr10-98517817-3	chr10	98517716	98517916	+	760.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-165949.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	18.0	6.5	3.5	144.0	32.5	6.5	5.5	9.5
Merged-chr3-89960635-4	chr3	89960537	89960737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081182, intron 2 of 27)	CpG	2695.0	NM_001081182	54667.0	Mm.30455	NM_001081182	ENSMUSG00000060671	Atp8b2	Id	ATPase, class I, type 8B, member 2	protein-coding	58.5	55.5	27.0	819.0	205.0	64.5	109.5	70.5
Merged-chr13-35950017-4	chr13	35949910	35950110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie1a|DNA|hAT-Charlie	-17896.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	21.5	51.5	35.0	684.0	69.5	17.0	37.0	30.0
Merged-chr1-72413470-4	chr1	72413375	72413575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106054.0	NM_001357519	22596.0	Mm.246952	NM_009533	ENSMUSG00000026187	Xrcc5	AI314015|CTC85|CTCBF|Ku80|Ku86	X-ray repair complementing defective repair in Chinese hamster cells 5	protein-coding	120.5	122.0	130.0	1868.5	314.5	95.5	162.5	140.0
Merged-chr4-137594801-4	chr4	137594695	137594895	+	947.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355588, intron 1 of 26)	intron (NM_001355588, intron 1 of 26)	623.0	NM_130879	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	12.0	12.0	6.0	199.5	34.5	12.5	18.0	24.0
Merged-chr7-45341517-4	chr7	45341405	45341605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029741, intron 25 of 29)	intron (NM_029741, intron 25 of 29)	6236.0	NM_010473	15464.0	Mm.39968	NM_010473	ENSMUSG00000038239	Hrc	-	histidine rich calcium binding protein	protein-coding	68.5	174.0	73.5	1062.5	210.0	106.5	92.0	73.0
Merged-chr11-80176020-4	chr11	80175929	80176129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 8 of 10)	intron (NM_172133, intron 8 of 10)	-7843.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	34.5	38.5	15.0	365.5	55.5	22.0	24.5	31.5
Merged-chr17-73941966-4	chr17	73941852	73942052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 2 of 35)	intron (NM_011723, intron 2 of 35)	8244.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	51.5	68.0	63.5	1003.0	131.5	36.0	49.5	30.0
Merged-chr12-110503585-4	chr12	110503480	110503680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081457, intron 1 of 12)	ORR1B2|LTR|ERVL-MaLR	17841.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	117.5	174.5	84.5	1652.5	203.5	60.5	92.0	74.0
Merged-chr1-160861371-3	chr1	160861273	160861473	+	972.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45038.0	NM_001024952	381305.0	Mm.329667	NM_001024952	ENSMUSG00000040423	Rc3h1	5730557L09Rik|Gm551|N28103|mKIAA2025	RING CCCH (C3H) domains 1	protein-coding	12.5	31.5	19.5	420.5	14.0	5.0	8.0	13.0
Merged-chr6-52488017-4	chr6	52487930	52488130	+	859.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4421.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	17.5	20.0	20.5	339.5	30.0	8.0	18.0	10.0
Merged-chr7-126759474-4	chr7	126759366	126759566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011952)	promoter-TSS (NM_011952)	-160.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	85.0	129.5	50.5	488.5	192.0	94.0	75.5	55.5
Merged-chr8-39695523-4	chr8	39695443	39695643	+	677.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-52865.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	5.0	7.0	8.0	142.5	17.0	2.5	12.0	2.5
Merged-chr12-80197640-4	chr12	80197528	80197728	+	805.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 4 of 20)	intron (NM_134156, intron 4 of 20)	62743.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	7.5	6.0	11.5	90.0	11.5	13.5	9.0	11.0
Merged-chr2-103483537-4	chr2	103483443	103483643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009804, intron 1 of 12)	intron (NM_009804, intron 1 of 12)	1610.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	29.0	35.0	33.0	361.0	76.0	27.0	33.5	31.0
Merged-chr2-127788910-4	chr2	127788809	127789009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016902)	promoter-TSS (NM_016902)	-18.0	NM_001355429	53885.0	Mm.210766	NM_016902	ENSMUSG00000027378	Nphp1	-	nephronophthisis 1 (juvenile) homolog (human)	protein-coding	32.5	42.0	16.5	393.5	74.5	35.5	35.5	36.5
Merged-chr9-107576923-4	chr9	107576827	107577027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331161)	promoter-TSS (NM_001331161)	0.0	NM_008317	15586.0	Mm.475658	NM_008317	ENSMUSG00000010051	Hyal1	Hya1|Hyal-1	hyaluronoglucosaminidase 1	protein-coding	33.5	73.5	21.5	614.0	94.0	27.5	56.0	24.0
Merged-chr2-170133520-4	chr2	170133368	170133568	+	989.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159683, intron 1 of 6)	CpG	-2248.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	10.5	34.5	13.0	222.5	48.5	17.5	12.5	20.5
Merged-chr13-59889913-3	chr13	59889842	59890042	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66795.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	2.0	5.0	2.5	66.0	32.5	15.0	17.5	12.0
Merged-chr3-137980864-4	chr3	137980768	137980968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 1 of 8)	intron (NM_011932, intron 1 of 8)	681.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	62.5	99.0	45.5	843.5	106.5	54.5	52.5	39.0
Merged-chr16-3872371-4	chr16	3872267	3872467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033159)	promoter-TSS (NM_001033159)	7.0	NM_001033159	71063.0	Mm.379190	NM_001033159	ENSMUSG00000039789	Zfp597	4933407K12Rik|AI462383|AI666357	zinc finger protein 597	protein-coding	35.0	42.5	26.5	556.0	75.0	18.5	50.5	21.5
Merged-chr19-18583084-3	chr19	18582978	18583178	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 9 of 9)	intron (NM_017375, intron 9 of 9)	48735.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	10.5	13.0	11.5	384.5	37.0	7.0	5.5	8.5
Merged-chr10-80139030-6	chr10	80138939	80139139	+	954.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036582, intron 1 of 10)	CpG	328.0	NR_036582	100503659.0	Mm.485395	NM_015761	ENSMUSG00000035640	Cbarp	9630008F14|Dos|R29144/1	calcium channel, voltage-dependent, beta subunit associated regulatory protein	protein-coding	19.5	11.0	7.5	186.0	16.5	12.5	7.5	18.0
Merged-chr19-61017693-4	chr19	61017611	61017811	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 2 of 15)	intron (NM_018869, intron 2 of 15)	123129.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	19.5	22.5	20.0	213.0	29.0	12.5	16.0	7.5
Merged-chr5-114689445-4	chr5	114689372	114689572	+	913.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019821, intron 1 of 4)	RSINE1|SINE|B4	1463.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	12.5	20.0	14.5	184.5	28.0	19.0	14.5	13.0
Merged-chr1-151511170-3	chr1	151511078	151511278	+	647.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10187.0	NM_001360847	19821.0	Mm.474038	NM_011277	ENSMUSG00000026484	Rnf2	AI326319|AI450156|AU019207|Ring1B|dinG	ring finger protein 2	protein-coding	8.0	5.0	5.5	94.5	6.5	2.0	3.5	3.5
Merged-chr11-8609346-3	chr11	8609268	8609468	+	749.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	55167.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	5.0	6.0	5.5	70.0	5.5	6.0	4.5	5.0
Merged-chr7-27804820-4	chr7	27804722	27804922	+	916.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2374.0	NM_027703	71163.0	Mm.440493	NM_027703	ENSMUSG00000030604	Zfp626	4833408D11Rik|4933426I21Rik|7630402I04Rik	zinc finger protein 626	protein-coding	15.5	20.0	22.5	163.0	36.0	13.0	27.5	14.0
Merged-chr3-101802901-3	chr3	101802801	101803001	+	895.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33322.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	14.5	22.0	19.0	195.0	22.5	3.5	4.0	5.0
Merged-chr18-53951280-4	chr18	53951189	53951389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 12 of 12)	intron (NM_152809, intron 12 of 12)	89176.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	26.0	47.5	35.0	415.0	48.5	27.0	23.5	32.5
Merged-chr3-98025698-4	chr3	98025590	98025790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	12152.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	52.0	49.5	49.5	861.0	97.5	34.5	71.0	54.0
Merged-chr16-29454972-4	chr16	29454859	29455059	+	963.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172613, intron 11 of 29)	intron (NM_172613, intron 11 of 29)	-76227.0	NM_175650	268878.0	Mm.9823	NM_175650	ENSMUSG00000048939	Atp13a5	C630015F21Rik	ATPase type 13A5	protein-coding	25.0	25.0	18.0	462.0	39.0	8.5	17.0	12.5
Merged-chr1-152585720-4	chr1	152585623	152585823	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	39494.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	15.0	31.0	22.0	507.5	29.0	17.0	24.0	16.5
Merged-chr11-93821718-4	chr11	93821648	93821848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	64018.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	175.0	228.5	180.5	2738.0	401.0	175.5	195.5	150.5
Merged-chr6-141048455-1	chr6	141048355	141048555	+	764.0	f0_balb.idr	Intergenic	Intergenic	-200814.0	NM_018779	54611.0	Mm.103728	NM_018779	ENSMUSG00000041741	Pde3a	A930022O17Rik|C87899	phosphodiesterase 3A, cGMP inhibited	protein-coding	7.5	4.5	6.0	113.5	8.5	2.5	5.5	6.0
Merged-chr2-154300706-4	chr2	154300586	154300786	+	963.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-6558.0	NM_001025574	433492.0	Mm.330682	NM_001025574	ENSMUSG00000067996	Bpifb9b	5430413K10Rik|AI413838	BPI fold containing family B, member 9B	protein-coding	24.0	29.0	17.5	244.5	37.5	11.0	16.5	10.5
Merged-chr16-16573365-4	chr16	16573265	16573465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	-13146.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	32.0	48.5	25.5	540.0	95.0	23.5	48.5	41.5
Merged-chr1-173419742-3	chr1	173419631	173419831	+	860.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013779)	promoter-TSS (NM_001013779)	-873.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	5.5	8.0	3.5	149.5	16.5	8.0	15.0	9.0
Merged-chr17-71693413-4	chr17	71693308	71693508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177087, intron 6 of 19)	intron (NM_177087, intron 6 of 19)	20147.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	50.0	48.5	36.5	522.0	78.0	21.5	42.5	21.5
Merged-chr15-79347825-1	chr15	79347725	79347925	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_001304831)	promoter-TSS (NM_001304831)	-236.0	NM_001304831	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	10.5	56.5	13.5	187.5	111.5	46.0	37.5	32.5
Merged-chr1-134679630-4	chr1	134679526	134679726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009307, intron 2 of 9)	MLT1G1|LTR|ERVL-MaLR	-29674.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	110.5	173.0	142.0	2243.0	240.0	90.5	140.0	117.0
Merged-chr9-110408195-4	chr9	110408062	110408262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081043)	promoter-TSS (NM_001081043)	48.0	NM_001081043	104831.0	Mm.335477	NM_001081043	ENSMUSG00000036057	Ptpn23	AI462446|PTP-TD14	protein tyrosine phosphatase, non-receptor type 23	protein-coding	92.5	119.5	69.5	693.0	215.0	101.0	100.0	79.5
Merged-chr5-99251009-4	chr5	99250899	99251099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	1928.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	48.0	88.0	77.5	878.5	134.0	50.5	62.5	47.0
Merged-chr11-35838551-4	chr11	35838428	35838628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_170779)	TTS (NM_170779)	-4000.0	NM_025936	104458.0	Mm.284906	NM_025936	ENSMUSG00000018848	Rars	2610011N19Rik|2610037E21Rik|AL033339|AW985894	arginyl-tRNA synthetase	protein-coding	52.0	96.0	29.5	617.5	145.5	44.5	53.0	49.5
Merged-chr7-67951012-4	chr7	67950917	67951117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1240.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	31.0	48.5	46.5	470.0	43.0	21.0	18.5	40.0
Merged-chr4-16168611-4	chr4	16168497	16168697	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 1 of 6)	intron (NR_045765, intron 1 of 6)	4487.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	31.5	47.5	22.0	260.5	95.5	23.0	30.5	38.0
Merged-chr13-34643116-4	chr13	34643018	34643218	+	753.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025831, intron 1 of 4)	intron (NM_025831, intron 1 of 4)	9563.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	9.0	16.0	2.0	134.0	32.5	13.0	6.0	13.5
Merged-chr19-55654612-4	chr19	55654529	55654729	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	(A)n|Simple_repeat|Simple_repeat	47575.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	19.0	35.0	13.5	284.0	91.5	30.0	47.0	21.5
Merged-chr3-132684051-4	chr3	132683912	132684112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163455)	promoter-TSS (NM_001163455)	-132.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	71.0	102.0	140.0	959.5	176.5	79.5	83.0	72.5
Merged-chr4-62847454-4	chr4	62847340	62847540	+	991.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118134.0	NM_028326	72701.0	Mm.26479	NM_028326	ENSMUSG00000028358	Zfp618	2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1	zinc finger protein 618	protein-coding	28.5	50.0	57.5	636.0	73.0	14.0	28.5	44.0
Merged-chr5-108660790-4	chr5	108660708	108660908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199011)	promoter-TSS (NM_199011)	22.0	NM_001357029	110524.0	Mm.260921	NM_199011	ENSMUSG00000004815	Dgkq	110kDa|DAGK|DAGK7|Dagk4|Dgkd	diacylglycerol kinase, theta	protein-coding	88.5	137.5	70.5	1372.0	249.0	69.0	112.5	75.0
Merged-chr1-128705353-4	chr1	128705260	128705460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113061.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	188.0	308.0	171.0	2601.5	479.0	169.0	218.5	169.5
Merged-chr10-121507503-4	chr10	121507368	121507568	+	986.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31218.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	17.0	17.5	7.0	248.5	59.0	15.5	21.5	34.5
Merged-chr2-160058345-4	chr2	160058245	160058445	+	931.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	41692.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	10.5	24.0	8.0	229.0	62.5	13.0	24.5	17.0
Merged-chr5-103655900-2	chr5	103655800	103656000	+	784.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163550)	promoter-TSS (NM_001163550)	-168.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	8.5	7.5	5.5	43.0	15.5	5.5	7.5	6.0
Merged-chr13-33965268-3	chr13	33965177	33965377	+	906.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163239, intron 1 of 5)	intron (NM_001163239, intron 1 of 5)	618.0	NM_001163241	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	11.0	9.0	3.0	132.0	15.0	5.5	5.5	7.0
Merged-chr2-130411950-4	chr2	130411857	130412057	+	714.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5435.0	NM_025753	66766.0	Mm.174834	NM_025753	ENSMUSG00000049692	Tmem239	4933425O20Rik	transmembrane 239	protein-coding	7.5	20.5	5.0	115.0	42.0	8.5	13.0	7.5
Merged-chr16-95827611-4	chr16	95827521	95827721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	71092.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	146.5	222.0	201.5	2667.5	367.0	143.5	181.5	162.5
Merged-chr11-102284829-4	chr11	102284710	102284910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302506)	promoter-TSS (NM_001302506)	-10.0	NM_001302506	72053.0	Mm.101274	NM_028076	ENSMUSG00000034757	Tmub2	2010008E23Rik	transmembrane and ubiquitin-like domain containing 2	protein-coding	134.5	248.5	89.5	1051.0	339.5	127.0	110.0	136.0
Merged-chr13-55211066-4	chr13	55210967	55211167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008739, intron 1 of 22)	CpG	1285.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	38.0	61.0	63.0	447.5	98.5	55.0	43.0	78.5
Merged-chr1-23184888-4	chr1	23184731	23184931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82578.0	NM_025746	66755.0	Mm.431297	NM_025746	ENSMUSG00000073730	4933415F23Rik	-	RIKEN cDNA 4933415F23 gene	protein-coding	29.0	45.5	50.5	868.0	66.5	33.5	31.5	50.5
Merged-chr8-27113285-2	chr8	27113185	27113385	+	597.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_054044, intron 8 of 18)	intron (NM_054044, intron 8 of 18)	15347.0	NM_025686	66653.0	Mm.334467	NM_025686	ENSMUSG00000031487	Brf2	2700059M06Rik|5730512K07Rik|AU018504|AU022602|BRFU|TFIIIB50	BRF2, RNA polymerase III transcription initiation factor 50kDa subunit	protein-coding	2.0	4.5	3.0	110.5	22.5	9.0	8.5	6.0
Merged-chr13-101906582-4	chr13	101906478	101906678	+	965.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138361.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	25.5	30.5	23.5	538.5	50.0	14.5	12.5	21.0
Merged-chr2-20962016-3	chr2	20961916	20962116	+	946.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 1 of 24)	intron (NM_001128084, intron 1 of 24)	5705.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	11.0	26.0	8.0	234.0	41.0	6.0	15.0	3.5
Merged-chr11-3175756-4	chr11	3175593	3175793	+	983.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 6 of 32)	B2_Mm1t|SINE|B2	17770.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	20.5	30.5	38.5	90.0	0.5	3.0	0.0	0.0
Merged-chr8-109779414-6	chr8	109779292	109779492	+	996.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301211, intron 1 of 22)	intron (NM_001301211, intron 1 of 22)	809.0	NM_001301211	11765.0	Mm.37210	NM_009677	ENSMUSG00000031731	Ap1g1	AA409002|AU041323|AW551707|Adtg|D8Ertd374e	adaptor protein complex AP-1, gamma 1 subunit	protein-coding	10.0	19.5	17.5	87.5	48.0	14.5	18.5	21.5
Merged-chr8-94666665-4	chr8	94666572	94666772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024191)	promoter-TSS (NM_024191)	72.0	NM_024191	107566.0	Mm.393247	NM_024191	ENSMUSG00000031776	Arl2bp	1700010P10Rik|1700027H16Rik|6330544B05Rik|AI482273|AI849834|BART|Bart1	ADP-ribosylation factor-like 2 binding protein	protein-coding	61.0	92.5	74.5	874.0	125.0	49.0	87.5	31.0
Merged-chr12-102439222-3	chr12	102439152	102439352	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	intron (NM_011175, intron 1 of 13)	561.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	19.5	31.5	33.0	229.0	94.0	39.0	47.0	23.5
Merged-chr5-118615645-3	chr5	118615560	118615760	+	666.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	54941.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	6.0	14.5	7.5	151.0	7.5	0.0	3.5	4.5
Merged-chr6-120357421-4	chr6	120357300	120357500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026028)	promoter-TSS (NM_026028)	69.0	NM_026028	67200.0	Mm.45767	NM_026028	ENSMUSG00000030177	Ccdc77	2400002C23Rik|2700091N06Rik|AV168274	coiled-coil domain containing 77	protein-coding	102.5	138.5	96.5	1630.5	208.0	66.5	106.5	109.0
Merged-chr15-74535788-2	chr15	74535688	74535888	+	969.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359759, intron 2 of 30)	intron (NM_001359759, intron 2 of 30)	19592.0	NM_001359759	107831.0	Mm.43133	NM_174991	ENSMUSG00000034730	Adgrb1	B830018M07Rik|Bai1|R75078|mKIAA4089	adhesion G protein-coupled receptor B1	protein-coding	4.5	3.0	3.0	81.0	12.0	5.0	4.5	8.5
Merged-chr9-123815648-4	chr9	123815543	123815743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110253, intron 14 of 17)	intron (NM_001110253, intron 14 of 17)	9166.0	NM_030712	80901.0	Mm.124289	NM_030712	ENSMUSG00000048521	Cxcr6	BB217514|BONZO|STRL33	chemokine (C-X-C motif) receptor 6	protein-coding	51.0	86.0	44.5	777.5	197.5	85.5	66.0	61.0
Merged-chr10-82962855-4	chr10	82962733	82962933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie6|DNA|hAT-Charlie	-22664.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	65.5	106.5	110.5	1451.5	85.0	42.0	59.0	49.5
Merged-chr9-65546487-4	chr9	65546464	65546664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33523.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	47.0	31.0	29.0	318.0	66.0	18.5	34.5	36.5
Merged-chr13-98955848-3	chr13	98955800	98956000	+	815.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	28665.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	2.0	6.0	4.5	39.5	22.5	7.5	6.0	5.5
Merged-chr15-5221944-3	chr15	5221849	5222049	+	856.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME2|LINE|L1	22238.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	7.0	14.5	12.5	151.5	12.5	6.5	9.5	7.5
Merged-chr12-76615023-4	chr12	76614913	76615113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 15 of 35)	ORR1D2|LTR|ERVL-MaLR	-67088.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	78.5	64.5	85.0	1472.5	191.0	68.5	83.5	89.0
Merged-chr6-53571939-4	chr6	53571844	53572044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-1430.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	54.5	90.5	49.5	992.0	165.0	52.5	74.0	53.5
Merged-chr10-45577890-4	chr10	45577802	45578002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172473)	promoter-TSS (NM_172473)	73.0	NM_172473	209462.0	Mm.458633	NM_172473	ENSMUSG00000038822	Hace1	1700042J16Rik|A730034A22Rik|BC025474	HECT domain and ankyrin repeat containing, E3 ubiquitin protein ligase 1	protein-coding	58.5	57.0	48.5	1017.5	76.5	33.0	40.0	37.5
Merged-chr16-14129201-3	chr16	14129107	14129307	+	850.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 17 of 26)	intron (NM_001081154, intron 17 of 26)	30067.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	8.5	5.5	9.5	234.0	13.5	5.0	11.0	9.5
Merged-chr6-114916500-4	chr6	114916390	114916590	+	887.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	5331.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	20.5	17.0	9.0	296.0	41.0	5.0	10.5	10.5
Merged-chr2-124927575-4	chr2	124927475	124927675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140552.0	NM_175034	317750.0	Mm.330538	NM_175034	ENSMUSG00000035183	Slc24a5	F630045L20Rik|JSX|NCKX5|NCX5|Oca6	solute carrier family 24, member 5	protein-coding	38.0	48.5	46.5	600.5	75.0	19.0	51.0	43.5
Merged-chr13-119406244-3	chr13	119406134	119406334	+	851.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308506, intron 1 of 16)	intron (NM_001308506, intron 1 of 16)	2777.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	14.5	5.0	11.0	191.0	15.0	4.0	15.5	8.0
Merged-chr2-119742266-4	chr2	119742160	119742360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146125)	promoter-TSS (NM_146125)	-77.0	NM_146125	228550.0	Mm.65337	NM_146125	ENSMUSG00000027296	Itpka	-	inositol 1,4,5-trisphosphate 3-kinase A	protein-coding	36.0	53.0	22.5	561.0	136.5	37.5	58.5	31.0
Merged-chr6-31356675-4	chr6	31356550	31356750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42123.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	157.0	253.0	198.5	2715.0	323.5	107.5	141.5	148.5
Merged-chr6-51858037-4	chr6	51857948	51858148	+	972.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154501.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	22.0	22.5	22.0	223.5	58.0	18.5	16.0	22.5
Merged-chr14-34363872-4	chr14	34363757	34363957	+	845.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8464.0	NM_183278	69134.0	Mm.27156	NM_183278	ENSMUSG00000043681	Fam25c	2200001I15Rik|Fam25	family with sequence similarity 25, member C	protein-coding	14.0	31.0	12.0	188.0	19.5	10.0	19.0	7.5
Merged-chr4-3624147-4	chr4	3624042	3624242	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32364.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	1.5	10.5	6.5	109.5	36.0	8.5	26.5	8.0
Merged-chr11-3290988-3	chr11	3290919	3291119	+	927.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001253691, exon 1 of 5)	exon (NM_001253691, exon 1 of 5)	562.0	NM_019574	56218.0	Mm.275563	NM_019574	ENSMUSG00000020453	Patz1	8430401L15Rik|AI447519|Mazr|Patz|Zfp278	POZ (BTB) and AT hook containing zinc finger 1	protein-coding	5.5	13.5	10.0	151.0	15.0	10.0	6.5	10.5
Merged-chr3-126598140-3	chr3	126598041	126598241	+	826.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 1 of 18)	intron (NM_001025438, intron 1 of 18)	1190.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	9.0	5.0	21.0	94.0	17.0	7.0	7.0	5.5
Merged-chr2-165885674-4	chr2	165885568	165885768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252584)	promoter-TSS (NM_001252584)	-830.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	44.5	39.5	49.0	476.0	72.0	20.5	33.5	20.0
Merged-chr19-5801174-4	chr19	5801088	5801288	+	920.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_002847, exon 1 of 1)	non-coding (NR_002847, exon 1 of 1)	1484.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	10.5	17.0	7.0	122.5	40.5	11.5	11.0	24.5
Merged-chr11-121736334-3	chr11	121736235	121736435	+	766.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33908.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	7.0	27.0	10.5	68.0	29.5	12.0	6.0	10.0
Merged-chr3-65666447-8	chr3	65666330	65666530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037923, intron 1 of 2)	CpG	202.0	NM_001166659	624866.0	Mm.296317	NM_001037923	ENSMUSG00000074579	Lekr1	EG546798|EG624866|Gm6534	leucine, glutamate and lysine rich 1	protein-coding	90.0	178.5	220.5	2463.5	174.5	66.5	104.5	97.0
Merged-chr4-70515665-4	chr4	70515585	70515785	+	920.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172694, intron 1 of 5)	intron (NM_172694, intron 1 of 5)	19243.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	13.0	13.5	24.0	129.5	53.0	18.5	33.0	17.0
Merged-chr1-64446245-4	chr1	64446152	64446352	+	920.9874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86552.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	14.0	6.5	11.5	107.5	28.0	16.5	17.5	16.0
Merged-chr17-8508486-1	chr17	8508386	8508586	+	881.1666869999999	f0_balb.idr	Intergenic	Intergenic	-18315.0	NM_001290707	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	17.0	15.0	16.5	143.5	2.0	0.0	2.0	2.5
Merged-chr1-191403310-4	chr1	191403230	191403430	+	872.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6289.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	14.0	30.0	23.0	357.5	39.5	8.5	9.5	13.5
Merged-chr8-108182980-4	chr8	108182867	108183067	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	401710.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	8.5	21.5	19.0	228.0	24.5	11.0	20.5	27.5
Merged-chr16-94969159-1	chr16	94969059	94969259	+	1000.0	f0_balb.idr	intron (NM_001025584, intron 1 of 4)	intron (NM_001025584, intron 1 of 4)	28537.0	NM_001025584	16522.0	Mm.328720	NM_010606	ENSMUSG00000043301	Kcnj6	BIR1|GIRK2|KATP2|KCNJ7|Kir3.2|weaver|wv	potassium inwardly-rectifying channel, subfamily J, member 6	protein-coding	8.0	17.5	20.5	205.0	2.5	0.5	2.5	1.0
Merged-chr13-75789626-4	chr13	75789533	75789733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50252.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	123.0	107.0	100.0	1203.5	163.5	70.5	60.5	36.5
Merged-chr8-95807593-4	chr8	95807477	95807677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178078)	promoter-TSS (NM_178078)	-115.0	NM_001205226	234594.0	Mm.259220	NM_153164	ENSMUSG00000036550	Cnot1	6030411K04Rik|AA815922|D830048B13	CCR4-NOT transcription complex, subunit 1	protein-coding	274.5	414.0	272.5	4203.5	675.5	300.5	296.5	250.5
Merged-chr18-76944213-4	chr18	76944117	76944317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039201)	promoter-TSS (NM_001039201)	102.0	NM_001039202	76987.0	Mm.236127	NM_029826	ENSMUSG00000025421	Hdhd2	0610039H12Rik|3110052N05Rik	haloacid dehalogenase-like hydrolase domain containing 2	protein-coding	114.0	175.5	207.5	1588.0	180.0	104.5	110.0	114.5
Merged-chr8-14842409-4	chr8	14842305	14842505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 14 of 15)	intron (NM_172910, intron 14 of 15)	-46131.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	35.5	84.0	58.5	1188.5	88.5	17.0	45.5	45.5
Merged-chr13-75707405-4	chr13	75707289	75707489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138953)	promoter-TSS (NM_138953)	-95.0	NM_138953	192657.0	Mm.21288	NM_138953	ENSMUSG00000001542	Ell2	-	elongation factor RNA polymerase II 2	protein-coding	325.5	470.0	345.5	5815.0	850.5	302.0	456.5	346.5
Merged-chr17-56031136-4	chr17	56031027	56031227	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013664, intron 1 of 9)	intron (NM_013664, intron 1 of 9)	5510.0	NM_013664	20405.0	Mm.1773	NM_013664	ENSMUSG00000003200	Sh3gl1	C77078|EEN|SH3P8|Sh3d2b	SH3-domain GRB2-like 1	protein-coding	32.0	41.5	55.0	846.5	34.5	8.0	18.5	22.0
Merged-chr14-55672234-4	chr14	55672119	55672319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177992)	promoter-TSS (NM_177992)	-16.0	NM_177992	105446.0	Mm.390685	NM_177992	ENSMUSG00000002326	Gmpr2	1810008P16Rik|5730544D12Rik|AA959850|GMPR 2	guanosine monophosphate reductase 2	protein-coding	118.0	191.0	81.5	1616.5	280.0	110.5	140.5	143.5
Merged-chr12-84748276-4	chr12	84748171	84748371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	24841.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	82.5	104.0	85.5	1325.0	170.0	73.5	45.0	81.5
Merged-chr1-62720972-4	chr1	62720895	62721095	+	904.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	17678.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	13.0	17.0	13.5	148.0	35.5	14.0	16.0	14.0
Merged-chr18-46378246-1	chr18	46378146	46378346	+	608.0	f0_balb.idr	Intergenic	Intergenic	-66318.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	1.0	0.5	7.0	87.0	8.0	5.0	5.0	7.0
Merged-chr6-112728886-4	chr6	112728776	112728976	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 20 of 21)	intron (NM_080448, intron 20 of 21)	-32206.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	40.0	44.5	21.0	333.5	57.5	16.0	29.0	25.0
Merged-chr19-5726335-4	chr19	5726223	5726423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053252)	promoter-TSS (NM_053252)	-6.0	NM_053252	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	32.5	59.5	22.0	296.0	120.5	43.0	27.0	44.0
Merged-chr9-45959818-4	chr9	45959730	45959930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4581.0	NM_172257	214597.0	Mm.379345	NM_172257	ENSMUSG00000034908	Sidt2	B930096O19|BC023957|CGI-40	SID1 transmembrane family, member 2	protein-coding	101.0	116.0	64.5	1494.0	219.5	102.5	85.5	93.0
Merged-chr10-99619637-4	chr10	99619540	99619740	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038019, intron 1 of 2)	intron (NR_038019, intron 1 of 2)	10469.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	26.5	40.5	19.0	303.5	62.5	22.5	27.0	18.5
Merged-chr14-10439557-4	chr14	10439452	10439652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	intron (NM_001360141, intron 4 of 9)	13906.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	51.0	44.0	64.0	944.5	111.5	29.5	42.5	33.5
Merged-chr12-80918058-4	chr12	80917956	80918156	+	874.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6391.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	14.0	16.5	5.0	155.5	19.0	11.5	17.0	8.0
Merged-chr12-119230794-4	chr12	119230686	119230886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177290, intron 1 of 13)	intron (NM_177290, intron 1 of 13)	7490.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	36.0	38.5	45.0	796.0	81.5	40.0	47.5	65.5
Merged-chr7-44997655-4	chr7	44997540	44997740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016849)	promoter-TSS (NM_016849)	-8.0	NR_045611	54131.0	Mm.3960	NM_016849	ENSMUSG00000003184	Irf3	C920001K05Rik|IRF-3	interferon regulatory factor 3	protein-coding	46.0	85.5	41.0	646.5	249.5	71.0	66.0	68.5
Merged-chr17-26464170-2	chr17	26464099	26464299	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44273.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	5.5	6.0	0.0	55.5	10.0	6.0	4.5	10.0
Merged-chr3-148933315-4	chr3	148933224	148933424	+	975.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081298, intron 1 of 23)	intron (NM_001081298, intron 1 of 23)	21311.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	41.5	67.0	37.5	729.5	56.0	16.5	24.0	16.5
Merged-chr3-116424028-4	chr3	116423965	116424165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080818)	promoter-TSS (NM_001080818)	-33.0	NM_001173553	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	54.0	72.5	46.5	726.5	131.5	45.0	57.0	48.5
Merged-chr5-138740349-4	chr5	138740244	138740444	+	948.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-14737.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	21.5	36.5	27.0	302.0	40.5	16.5	13.5	15.0
Merged-chr15-99474672-4	chr15	99474602	99474802	+	940.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029236)	promoter-TSS (NM_029236)	28.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	17.0	30.0	6.5	106.5	63.5	15.5	19.0	29.0
Merged-chr5-99386746-3	chr5	99386647	99386847	+	877.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-133820.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	5.5	7.0	7.0	83.0	15.0	5.5	7.0	8.0
Merged-chr2-35174291-3	chr2	35174184	35174384	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012018, intron 39 of 43)	MTD|LTR|ERVL-MaLR	26836.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	14.5	18.5	13.0	174.0	14.5	4.0	18.0	9.0
Merged-chr6-113343916-4	chr6	113343779	113343979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133926)	promoter-TSS (NM_133926)	43.0	NM_133926	52163.0	Mm.277373	NM_133926	ENSMUSG00000030272	Camk1	AI505105|CaMKIalpha|D6Ertd263e	calcium/calmodulin-dependent protein kinase I	protein-coding	38.0	47.5	40.5	520.0	52.0	22.5	24.0	39.0
Merged-chr12-99526946-4	chr12	99526838	99527038	+	931.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36903.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	21.0	22.0	9.0	312.0	54.5	10.0	17.5	23.5
Merged-chr6-127272828-4	chr6	127272721	127272921	+	844.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35146.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	9.5	10.5	10.5	99.5	23.5	6.0	25.5	16.5
Merged-chr17-33771132-4	chr17	33771027	33771227	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19A|LTR|ERVK	10448.0	NM_020581	57875.0	Mm.196189	NM_020581	ENSMUSG00000002289	Angptl4	Arp4|Bk89|Fiaf|Hfarp|Ng27|Pgar|Pgarg|Pp1158	angiopoietin-like 4	protein-coding	24.0	21.5	16.0	229.5	51.0	15.5	14.5	21.5
Merged-chr1-118567844-4	chr1	118567736	118567936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 33 of 39)	intron (NM_001359330, intron 33 of 39)	-60109.0	NM_023755	81879.0	Mm.24621	NM_023755	ENSMUSG00000026380	Tfcp2l1	1810030F05Rik|4932442M07Rik|AA575098|Cp2l1|Crtr-1|D930018N21Rik|LBP-9|Tcfcp2l1	transcription factor CP2-like 1	protein-coding	20.5	36.0	21.0	743.5	53.5	18.5	28.5	30.5
Merged-chr11-106032097-4	chr11	106031995	106032195	+	846.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037712, intron 12 of 12)	IAPEz-int|LTR|ERVK	-4777.0	NM_027946	71833.0	Mm.307455	NM_027946	ENSMUSG00000049354	Dcaf7	1700012F10Rik|2610037L01Rik|C86529|HAN11|Wdr68	DDB1 and CUL4 associated factor 7	protein-coding	0.0	16.0	24.5	0.0	11.5	9.5	12.0	7.5
Merged-chr6-40595364-4	chr6	40595258	40595458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9553.0	NM_001038604	23845.0	Mm.103765	NM_021364	ENSMUSG00000029915	Clec5a	Clecsf5|Ly100|MDL-1|Mdl1	C-type lectin domain family 5, member a	protein-coding	17.5	28.0	18.5	251.5	48.0	20.5	20.5	14.5
Merged-chr1-97660979-6	chr1	97660884	97661084	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355072, exon 1 of 3)	5' UTR (NM_001355072, exon 1 of 3)	692.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	21.0	27.0	31.5	299.5	32.0	9.0	14.5	12.5
Merged-chr12-101959405-3	chr12	101959323	101959523	+	833.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1180.0	NM_001167914	110616.0	Mm.271914	NM_029705	ENSMUSG00000021189	Atxn3	2210008M02Rik|AI463012|AI647473|ATX3|MJD1|Mjd|Sca3|ataxin-3	ataxin 3	protein-coding	2.0	4.0	4.0	81.0	23.5	4.5	6.0	16.5
Merged-chr2-131478468-4	chr2	131478394	131478594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13368.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	43.5	63.5	38.5	569.5	122.5	55.0	44.5	44.5
Merged-chr9-39910141-4	chr9	39910036	39910236	+	943.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146613, exon 1 of 1)	exon (NM_146613, exon 1 of 1)	331.0	NM_146613	258606.0	Mm.377588	NM_146613	ENSMUSG00000095390	Olfr229	MOR171-14|Olfr229-ps1|Olfr973|Olfr973-ps1	olfactory receptor 229	protein-coding	11.5	24.0	12.5	252.5	67.5	16.5	19.0	27.5
Merged-chr6-120037098-4	chr6	120037011	120037211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001199083, exon 1 of 28)	exon (NM_001199083, exon 1 of 28)	1544.0	NM_001185020	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	36.0	62.0	37.0	528.5	124.0	30.0	52.5	28.5
Merged-chr15-76904254-7	chr15	76904176	76904376	+	978.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012053, intron 1 of 5)	CpG	205.0	NM_012053	26961.0	Mm.30066	NM_012053	ENSMUSG00000003970	Rpl8	-	ribosomal protein L8	protein-coding	16.0	31.5	21.5	172.0	45.5	17.5	15.5	18.0
Merged-chr10-21991524-4	chr10	21991434	21991634	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161849)	promoter-TSS (NM_001161849)	-689.0	NM_001161849	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	14.0	30.0	30.0	254.0	30.5	17.5	19.5	24.0
Merged-chr17-34157108-4	chr17	34157006	34157206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010387, intron 2 of 5)	intron (NM_010387, intron 2 of 5)	3915.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	18.5	47.5	25.0	350.5	78.5	23.0	19.5	24.0
Merged-chr17-27585134-3	chr17	27585102	27585302	+	835.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291046, intron 2 of 4)	RLTR20A2B_MM|LTR|ERVK	-19475.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	1.5	1.0	0.5	0.0	30.5	8.0	6.5	5.5
Merged-chr12-34808331-4	chr12	34808230	34808430	+	743.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	108765.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	9.5	11.5	3.0	202.0	23.5	12.5	9.0	10.5
Merged-chr12-40504204-4	chr12	40504099	40504299	+	975.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	L1M2|LINE|L1	58146.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	19.5	10.0	8.0	207.5	54.0	4.5	19.0	15.5
Merged-chr5-115538841-4	chr5	115538735	115538935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	-20632.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	91.0	138.0	86.0	1189.0	228.5	82.0	107.5	96.5
Merged-chr10-80350457-4	chr10	80350363	80350563	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-2015.0	NR_104340	66548.0	Mm.71891	NM_025629	ENSMUSG00000043822	Adamtsl5	2010109H09Rik|Thsd6	ADAMTS-like 5	protein-coding	27.0	58.0	17.0	327.5	60.5	16.5	31.0	41.5
Merged-chr8-13644381-4	chr8	13644335	13644535	+	961.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	33152.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	37.0	17.0	35.5	670.5	24.0	17.0	13.0	9.5
Merged-chr7-59232120-3	chr7	59232048	59232248	+	734.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033962, intron 1 of 10)	intron (NM_001033962, intron 1 of 10)	3398.0	NM_173010	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	5.5	9.5	9.5	84.5	10.0	4.0	9.5	5.0
Merged-chr18-80690117-4	chr18	80690036	80690236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 2 of 9)	intron (NM_198429, intron 2 of 9)	18037.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	75.0	75.5	83.0	1131.0	135.5	38.0	53.5	68.5
Merged-chr4-53439111-4	chr4	53439019	53439219	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1294.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	25.0	43.5	26.5	249.0	59.5	27.0	12.0	13.5
Merged-chr19-60467852-2	chr19	60467724	60467924	+	761.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_201615, exon 1 of 1)	exon (NM_201615, exon 1 of 1)	480.0	NM_201615	226278.0	Mm.377241	NM_201615	ENSMUSG00000045052	Prlhr	Gm339|Gpr10|Gr3|Prrpr	prolactin releasing hormone receptor	protein-coding	1.0	4.0	1.0	34.0	6.5	5.5	5.5	5.5
Merged-chr9-32709953-4	chr9	32709853	32710053	+	869.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038642, intron 1 of 6)	intron (NM_001038642, intron 1 of 6)	13911.0	NM_001038642	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	23.0	14.0	21.5	263.5	22.0	6.0	17.0	14.0
Merged-chr10-96331357-4	chr10	96331270	96331470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105163.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	25.5	49.0	21.5	366.0	60.5	25.5	27.0	21.5
Merged-chr13-94173885-3	chr13	94173786	94173986	+	987.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	111395.0	NM_029153	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	20.5	32.0	14.5	381.0	15.5	8.5	8.0	10.0
Merged-chr1-151948156-3	chr1	151948017	151948217	+	887.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	intron (NM_197990, intron 3 of 5)	142203.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	9.0	4.5	5.5	57.0	7.0	6.5	1.5	3.0
Merged-chr6-34689220-2	chr6	34689120	34689320	+	878.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 3 of 13)	intron (NM_001347100, intron 3 of 13)	-20224.0	NM_145575	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	2.0	4.0	3.5	70.0	5.0	4.5	8.5	7.5
Merged-chr15-94544484-3	chr15	94544377	94544577	+	701.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172437)	promoter-TSS (NM_172437)	817.0	NM_029926	266632.0	Mm.422858	NM_029926	ENSMUSG00000059883	Irak4	8430405M07Rik|9330209D03Rik|IRAK-4|NY-REN-64	interleukin-1 receptor-associated kinase 4	protein-coding	5.5	7.0	2.5	80.5	13.5	5.5	12.5	10.5
Merged-chr2-180124853-3	chr2	180124750	180124950	+	913.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144500, intron 1 of 13)	intron (NM_144500, intron 1 of 13)	5484.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	16.0	24.0	23.5	372.5	1.0	2.0	1.5	4.0
Merged-chr7-27673737-5	chr7	27673647	27673847	+	887.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198417)	promoter-TSS (NM_198417)	834.0	NM_001290528	269881.0	Mm.389883	NM_001081292	ENSMUSG00000040390	Map3k10	BC028668|BC046514|MST|Mlk2	mitogen-activated protein kinase kinase kinase 10	protein-coding	21.5	37.5	12.0	251.0	54.0	11.0	10.0	12.0
Merged-chr8-35596678-3	chr8	35596590	35596790	+	693.5	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-7670.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	6.5	9.5	9.0	130.5	30.5	4.0	10.5	7.0
Merged-chr18-79293966-4	chr18	79293879	79294079	+	980.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-184588.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	29.0	42.0	40.0	736.0	55.5	23.0	20.5	14.5
Merged-chr3-88592895-4	chr3	88592832	88593032	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13324.0	NM_025448	66256.0	Mm.7091	NM_025448	ENSMUSG00000041355	Ssr2	1500032E05Rik|AI315033|AU020133|SSR-beta|TLAP|TRAPB|TRAPbeta	signal sequence receptor, beta	protein-coding	15.5	20.0	14.5	129.5	28.0	12.5	7.5	13.0
Merged-chr7-55910217-1	chr7	55910117	55910317	+	647.0	f0_balb.idr	intron (NM_011370, intron 22 of 30)	L1MC4a|LINE|L1	52276.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	5.5	10.5	11.5	80.5	6.0	2.5	5.0	8.0
Merged-chr13-81136813-4	chr13	81136738	81136938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	172764.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	206.5	298.5	254.5	3304.5	599.5	191.5	235.0	272.0
Merged-chr2-145370542-3	chr2	145370436	145370636	+	914.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053195, intron 2 of 16)	intron (NM_053195, intron 2 of 16)	127925.0	NM_053195	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	7.0	10.0	5.5	159.0	15.5	1.5	8.5	8.5
Merged-chr17-70746520-1	chr17	70746420	70746620	+	568.0	f1_balb.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	100257.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	9.5	12.0	5.0	38.5	2.5	1.5	7.0	7.0
Merged-chr19-37376298-4	chr19	37376220	37376420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010615)	promoter-TSS (NM_010615)	-83.0	NM_010615	16551.0	Mm.42203	NM_010615	ENSMUSG00000012443	Kif11	Eg5|Kif8|Kifl1|Knsl1	kinesin family member 11	protein-coding	86.5	99.0	79.5	927.5	307.0	61.0	97.0	92.0
Merged-chr4-137370606-4	chr4	137370551	137370751	+	939.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-12892.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	19.5	30.0	13.0	119.5	33.0	4.0	11.5	8.0
Merged-chr6-30304522-4	chr6	30304393	30304593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001169576)	promoter-TSS (NM_001169576)	46.0	NM_009459	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	145.0	239.0	149.0	1960.5	346.5	136.5	125.0	134.0
Merged-chr11-66906045-2	chr11	66905945	66906145	+	872.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_033539, intron 3 of 3)	intron (NR_033539, intron 3 of 3)	-5946.0	NM_178656	193003.0	Mm.440256	NM_178656	ENSMUSG00000048070	Pirt	A530088H08Rik	phosphoinositide-interacting regulator of transient receptor potential channels	protein-coding	6.5	12.0	6.5	64.5	9.0	0.5	3.5	9.0
Merged-chr2-116913729-4	chr2	116913632	116913832	+	748.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040335)	TTS (NR_040335)	13580.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	6.0	23.0	8.0	117.0	26.5	2.0	14.5	8.0
Merged-chr7-28810746-4	chr7	28810645	28810845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177301)	promoter-TSS (NM_177301)	-145.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	280.5	469.5	283.5	3983.0	630.0	290.0	289.5	257.0
Merged-chr12-111758860-4	chr12	111758747	111758947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025358)	promoter-TSS (NM_001025358)	-2.0	NM_001361612	16593.0	Mm.278357	NM_008450	ENSMUSG00000021288	Klc1	AI874768|Kns2	kinesin light chain 1	protein-coding	28.0	28.5	21.0	315.0	84.0	30.0	28.0	30.0
Merged-chr13-67871054-1	chr13	67870954	67871154	+	577.0	f0_c57.idr	Intergenic	Intergenic	7728.0	NM_001001185	408058.0	Mm.177840	NM_001001185	ENSMUSG00000064063	BC048507	-	cDNA sequence BC048507	protein-coding	0.0	0.0	0.0	0.0	28.0	4.5	9.0	7.0
Merged-chr12-100422687-3	chr12	100422574	100422774	+	944.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	intron (NM_001033213, intron 5 of 19)	98148.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	15.0	12.0	12.5	228.5	3.5	5.0	5.5	16.0
Merged-chr13-113553775-4	chr13	113553677	113553877	+	863.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2-int|LTR|ERVL-MaLR	-50933.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	15.0	12.5	11.0	163.0	25.5	4.0	11.0	8.0
Merged-chr1-153543678-3	chr1	153543579	153543779	+	860.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 2 of 11)	intron (NM_028749, intron 2 of 11)	6035.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	11.5	17.0	16.0	311.5	19.5	9.0	11.0	6.0
Merged-chr5-72844543-3	chr5	72844440	72844640	+	975.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 1 of 17)	L1MB5|LINE|L1	23908.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	13.0	7.5	12.5	327.0	14.0	6.5	14.0	10.0
Merged-chr11-58588231-3	chr11	58588104	58588304	+	818.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7367.0	NM_207153	258261.0	Mm.303171	NM_207153	ENSMUSG00000060765	Olfr325	MOR275-5	olfactory receptor 325	protein-coding	13.5	28.5	7.5	116.5	0.0	0.0	1.0	2.0
Merged-chr2-79257124-4	chr2	79257038	79257238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010576, intron 2 of 27)	intron (NM_010576, intron 2 of 27)	1712.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	85.5	99.0	73.5	1448.0	206.0	60.5	77.0	71.0
Merged-chr18-60515720-3	chr18	60515594	60515794	+	598.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-10460.0	NM_026302	67665.0	Mm.272801	NM_026302	ENSMUSG00000024603	Dctn4	1110001K06Rik|4930547K17Rik|C130039E17Rik|p62	dynactin 4	protein-coding	9.5	6.5	5.0	94.5	8.5	1.0	2.5	8.0
Merged-chr2-43555244-4	chr2	43555154	43555354	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289594)	promoter-TSS (NM_001289594)	-71.0	NM_001289593	70789.0	Mm.105278	NM_027552	ENSMUSG00000026866	Kynu	4432411A05Rik	kynureninase (L-kynurenine hydrolase)	protein-coding	20.0	30.0	15.5	228.0	32.0	12.0	11.5	16.5
Merged-chr11-52046952-4	chr11	52046862	52047062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	intron (NM_001166654, intron 13 of 13)	42741.0	NM_001166653	213084.0	Mm.280557	NM_153785	ENSMUSG00000020389	Cdkl3	AI852479|B230379H01Rik	cyclin-dependent kinase-like 3	protein-coding	25.0	32.5	23.0	360.0	92.0	15.5	41.5	37.0
Merged-chr7-143094955-2	chr7	143094855	143095055	+	743.599976	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020277)	promoter-TSS (NM_020277)	-313.0	NM_020277	56843.0	Mm.286668	NM_020277	ENSMUSG00000009246	Trpm5	9430099A16Rik|LTrpC-5|Ltrpc5|Mtr1	transient receptor potential cation channel, subfamily M, member 5	protein-coding	5.0	2.5	1.0	45.5	12.5	10.5	8.0	12.5
Merged-chr5-45856171-4	chr5	45856064	45856264	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359873, intron 1 of 4)	intron (NM_001359873, intron 1 of 4)	388.0	NM_001359872	209707.0	Mm.71498	NM_172153	ENSMUSG00000015882	Lcorl	Mlr1	ligand dependent nuclear receptor corepressor-like	protein-coding	21.5	20.5	10.0	278.0	40.5	11.5	18.5	27.5
Merged-chr8-41045297-3	chr8	41045204	41045404	+	862.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	intron (NM_001005863, intron 5 of 13)	-3373.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	16.0	21.0	15.5	427.5	15.5	10.5	2.5	13.0
Merged-chr2-75720802-4	chr2	75720700	75720900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-16137.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	79.0	106.5	56.5	356.5	236.5	90.5	69.5	52.5
Merged-chr11-98655272-2	chr11	98655172	98655372	+	791.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_029727, intron 8 of 10)	intron (NM_029727, intron 8 of 10)	8513.0	NM_029727	76758.0	Mm.159149	NM_029727	ENSMUSG00000017211	Gsdma2	2200001G21Rik|2210006M16Rik|2210009F20Rik|2210411P14Rik|Gsdm2|Gsdml2	gasdermin A2	protein-coding	6.5	11.5	5.0	64.5	17.0	12.0	6.0	14.5
Merged-chr8-69071188-4	chr8	69071057	69071257	+	976.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153054, intron 5 of 16)	intron (NM_153054, intron 5 of 16)	-17579.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	44.0	86.0	74.0	547.0	43.5	24.0	15.5	11.5
Merged-chr1-121307324-3	chr1	121307232	121307432	+	687.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271532, intron 2 of 4)	intron (NM_001271532, intron 2 of 4)	20346.0	NM_001271531	72999.0	Mm.27136	NM_133748	ENSMUSG00000003721	Insig2	2900053I11Rik|C730043J18Rik|Insig-2	insulin induced gene 2	protein-coding	7.0	4.0	8.5	154.5	10.5	11.5	12.5	10.5
Merged-chr15-25302831-3	chr15	25302724	25302924	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110940.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	15.5	25.5	18.5	524.0	59.5	21.5	29.5	28.0
Merged-chr5-99452187-4	chr5	99452139	99452339	+	709.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-199312.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	13.0	8.5	5.5	96.0	9.5	9.0	4.0	6.0
Merged-chr9-21184150-4	chr9	21184067	21184267	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310750)	promoter-TSS (NM_001310750)	66.0	NM_001310750	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	33.5	76.0	32.5	590.0	87.0	25.5	30.0	18.5
Merged-chr16-76283897-1	chr16	76283797	76283997	+	741.0	f0_c57.idr	Intergenic	Intergenic	89152.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	1.0	5.5	3.5	54.0	11.0	5.5	5.0	8.0
Merged-chr7-43396983-4	chr7	43396900	43397100	+	953.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11280.0	NM_172900	243958.0	Mm.24444	NM_172900	ENSMUSG00000030468	Siglecg	9830164H23|A630096C01Rik|Siglec-G|Siglec10|mSiglec-G	sialic acid binding Ig-like lectin G	protein-coding	16.0	30.5	22.5	455.5	27.5	7.5	17.0	16.5
Merged-chr7-12422510-4	chr7	12422418	12422618	+	838.830383	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033820)	promoter-TSS (NM_001033820)	-27.0	NM_001033820	619331.0	Mm.361832	NM_001033820	ENSMUSG00000034071	Zfp551	9630004E07Rik|Znf551	zinc fingr protein 551	protein-coding	10.5	6.0	18.0	245.5	22.5	7.0	10.0	14.0
Merged-chr1-91483457-4	chr1	91483300	91483500	+	888.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11268.0	NM_028718	74019.0	Mm.318430	NM_028718	ENSMUSG00000034292	Traf3ip1	3930402D05Rik|AU041749|MIP-T3	TRAF3 interacting protein 1	protein-coding	7.5	6.0	6.0	109.0	16.5	4.5	8.0	3.5
Merged-chr13-113865948-4	chr13	113865842	113866042	+	612.470825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	71434.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	11.5	12.5	2.0	47.0	12.5	12.0	9.5	11.5
Merged-chr2-79635238-4	chr2	79635146	79635346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080558)	promoter-TSS (NM_080558)	-179.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	280.0	334.5	270.5	4281.0	783.0	280.5	420.0	300.5
Merged-chr11-67559168-1	chr11	67559068	67559268	+	690.0	f0_balb.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	26170.0	NM_008088	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	2.0	7.5	12.0	97.5	13.0	5.5	8.0	11.0
Merged-chr17-33824544-4	chr17	33824421	33824621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_103515)	promoter-TSS (NR_103515)	41.0	NM_016844	54127.0	Mm.352374	NM_016844	ENSMUSG00000067288	Rps28	-	ribosomal protein S28	protein-coding	87.5	85.0	41.0	406.5	234.5	85.0	55.5	109.0
Merged-chr11-8709747-4	chr11	8709635	8709835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD1|LINE|L1	-45200.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	52.5	84.0	31.5	649.0	166.0	48.5	47.0	58.0
Merged-chr7-75686738-4	chr7	75686633	75686833	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 13 of 36)	intron (NM_029332, intron 13 of 36)	-161605.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	18.0	23.0	28.0	459.0	79.0	26.5	18.5	20.5
Merged-chr3-129270211-1	chr3	129270111	129270311	+	617.666687	f0_balb.idr	3' UTR (NM_007934, exon 20 of 20)	3' UTR (NM_007934, exon 20 of 20)	56279.0	NM_001042502	18741.0	Mm.246804	NM_011098	ENSMUSG00000028023	Pitx2	9430085M16Rik|Brx1|Brx1b|Munc30|Otlx2|Ptx2|Rieg	paired-like homeodomain transcription factor 2	protein-coding	10.0	7.0	16.0	118.0	8.5	2.5	6.5	5.0
Merged-chr6-29242429-2	chr6	29242329	29242529	+	690.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-26065.0	NM_001302934	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	5.0	4.5	7.5	29.0	25.5	6.5	5.0	7.5
Merged-chr17-78249154-4	chr17	78249047	78249247	+	781.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	intron (NM_015800, intron 2 of 16)	48899.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	16.0	8.0	4.0	153.0	33.0	7.5	11.0	12.0
Merged-chr17-17845406-1	chr17	17845306	17845506	+	544.0	f0_c57.idr	intron (NM_008215, intron 4 of 4)	B3|SINE|B2	9782.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	6.0	8.0	3.0	52.0	33.5	7.5	10.0	7.5
Merged-chr14-120157607-3	chr14	120157491	120157691	+	907.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115156.0	NM_001001490	239283.0	Mm.138520	NM_001001490	ENSMUSG00000044819	Oxgr1	Cysltr3|Gm299|Gpr80|Gpr99|P2Y15	oxoglutarate (alpha-ketoglutarate) receptor 1	protein-coding	11.0	13.0	14.0	208.0	8.5	5.0	5.5	14.0
Merged-chr17-12367599-3	chr17	12367494	12367694	+	849.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11015.0	NM_008877	18815.0	Mm.971	NM_008877	ENSMUSG00000059481	Plg	AI649309|Pg	plasminogen	protein-coding	3.0	28.0	4.5	75.0	35.0	10.0	21.0	12.0
Merged-chr17-63826967-4	chr17	63826880	63827080	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37001.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	21.5	36.0	34.0	590.5	32.5	17.5	38.0	29.5
Merged-chr4-152124648-3	chr4	152124543	152124743	+	769.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207689, intron 7 of 9)	ORR1A3-int|LTR|ERVL-MaLR	4282.0	NM_019585	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	7.5	11.5	6.5	83.5	13.5	4.5	9.0	11.0
Merged-chr15-98776500-3	chr15	98776415	98776615	+	921.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011718, intron 3 of 4)	CpG	1635.0	NM_011718	22410.0	Mm.4709	NM_011718	ENSMUSG00000022996	Wnt10b	Wnt12	wingless-type MMTV integration site family, member 10B	protein-coding	10.0	11.0	8.0	104.5	13.5	4.0	4.0	3.5
Merged-chr12-101913150-4	chr12	101913036	101913236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028446)	promoter-TSS (NM_028446)	35.0	NM_028446	109181.0	Mm.208618	NM_028446	ENSMUSG00000021188	Trip11	2610511G22Rik|3110031G15Rik|6030460N08Rik|AI450776|GMAP-210|TRIP230	thyroid hormone receptor interactor 11	protein-coding	50.5	86.5	67.0	868.5	124.0	41.0	81.0	52.5
Merged-chr8-35400593-4	chr8	35400486	35400686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24845.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	29.0	74.0	37.5	421.0	121.5	41.0	73.5	60.5
Merged-chr7-144938257-4	chr7	144938168	144938368	+	870.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007631, intron 1 of 4)	intron (NM_007631, intron 1 of 4)	1657.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	14.0	4.5	7.0	96.0	27.5	5.5	14.0	9.0
Merged-chr6-52957911-3	chr6	52957806	52958006	+	745.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	LTR41B|LTR|ERVL	-48286.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	10.0	6.0	2.5	55.5	17.5	6.5	8.0	9.0
Merged-chr13-48965777-4	chr13	48965694	48965894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033268, intron 1 of 17)	intron (NM_001033268, intron 1 of 17)	2034.0	NM_001033268	218236.0	Mm.426571	NM_001033268	ENSMUSG00000038014	Fam120a	C9orf10|Ossa	family with sequence similarity 120, member A	protein-coding	51.0	40.0	58.0	799.0	111.5	45.5	48.5	44.0
Merged-chr14-66240547-3	chr14	66240446	66240646	+	806.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-26722.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	6.5	5.0	5.5	86.5	9.5	3.0	12.0	4.5
Merged-chr11-104003664-4	chr11	104003579	104003779	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	36808.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	10.0	20.0	15.0	136.0	19.0	7.0	14.0	13.0
Merged-chr9-99062730-4	chr9	99062634	99062834	+	865.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 14 of 23)	intron (NM_029094, intron 14 of 23)	-27044.0	NM_001080776	382097.0	Mm.293727	NM_001080776	ENSMUSG00000044860	Gm1123	AV052824|CLSP	predicted gene 1123	protein-coding	3.0	9.5	13.5	95.0	32.5	17.0	13.0	7.0
Merged-chr8-109799474-4	chr8	109799364	109799564	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301211, intron 1 of 22)	intron (NM_001301211, intron 1 of 22)	20881.0	NM_001301211	11765.0	Mm.37210	NM_009677	ENSMUSG00000031731	Ap1g1	AA409002|AU041323|AW551707|Adtg|D8Ertd374e	adaptor protein complex AP-1, gamma 1 subunit	protein-coding	12.0	26.0	15.5	318.0	38.5	16.0	14.0	14.0
Merged-chr13-105266897-4	chr13	105266805	105267005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 2 of 7)	intron (NM_001360891, intron 2 of 7)	26109.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	40.5	31.0	8.0	483.0	84.0	24.0	27.0	20.5
Merged-chr2-120446603-3	chr2	120446500	120446700	+	956.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172672, intron 17 of 23)	intron (NM_172672, intron 17 of 23)	-16993.0	NM_001177799	12335.0	Mm.458021	NM_007601	ENSMUSG00000079110	Capn3	AI323605|Capa-3|Capa3|Lp82|p94	calpain 3	protein-coding	12.0	14.5	23.5	371.5	14.0	11.0	13.5	23.5
Merged-chr10-59735280-1	chr10	59735180	59735380	+	933.0	f0_balb.idr	intron (NM_001359267, intron 3 of 11)	RSINE1|SINE|B4	32717.0	NM_001291443	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	12.0	26.0	12.0	169.5	24.0	9.0	6.5	23.5
Merged-chr7-140998014-4	chr7	140997907	140998107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12737.0	NM_025378	66141.0	Mm.141021	NM_025378	ENSMUSG00000025492	Ifitm3	1110004C05Rik|Cd225|Cdw217|DSPA2b|Fgls|IP15|mil-1	interferon induced transmembrane protein 3	protein-coding	52.0	69.5	41.5	590.0	92.5	28.5	58.0	56.0
Merged-chr4-155812974-2	chr4	155812880	155813080	+	947.833374	f0_balb.idr|f0_c57.idr	intron (NM_207678, intron 1 of 10)	CpG	491.0	NM_207678	56036.0	Mm.23492	NM_018856	ENSMUSG00000029068	Ccnl2	1700010A01Rik|1810019L15Rik|2010319M22Rik|AA409936|AW261738|Ania-6b|HCLA-150|Pcee|SB138	cyclin L2	protein-coding	15.0	22.0	6.5	118.0	41.5	13.5	16.5	15.5
Merged-chr2-84113817-4	chr2	84113721	84113921	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172595.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	75.0	62.5	60.0	1218.0	25.5	12.5	8.5	19.5
Merged-chr15-59829942-4	chr15	59829860	59830060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35001.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	46.5	53.5	55.5	1122.0	124.5	34.5	46.5	51.0
Merged-chr7-126565827-3	chr7	126565727	126565927	+	735.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146200, intron 2 of 20)	intron (NM_146200, intron 2 of 20)	539.0	NM_146200	56347.0	Mm.22776	NM_146200	ENSMUSG00000030738	Eif3c	110kDa|3230401O13Rik|Eif3s8|NIPIL(A3)|NipilA3|Xs|Xsl	eukaryotic translation initiation factor 3, subunit C	protein-coding	3.0	25.5	1.5	77.5	25.5	16.5	14.5	7.5
Merged-chr12-100188260-3	chr12	100188156	100188356	+	883.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045282, exon 1 of 3)	non-coding (NR_045282, exon 1 of 3)	288.0	NR_045282	100038378.0	Mm.387075	NR_045282	ENSMUSG00000072884	Gm10433	-	predicted gene 10433	ncRNA	13.5	14.5	14.5	50.5	17.0	3.0	4.0	11.0
Merged-chr8-84977721-6	chr8	84977611	84977811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008416, exon 1 of 1)	exon (NM_008416, exon 1 of 1)	1037.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	163.5	329.5	186.5	1310.5	480.0	203.0	215.5	165.5
Merged-chr9-111579739-4	chr9	111579658	111579858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016853, intron 8 of 10)	B4|SINE|B4	110590.0	NM_016853	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	53.5	55.5	78.5	902.5	150.0	61.5	68.5	75.5
Merged-chr6-51525313-4	chr6	51525211	51525411	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361581, intron 1 of 6)	intron (NM_001361581, intron 1 of 6)	1051.0	NM_001361580	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	35.5	38.5	27.0	517.0	42.5	18.5	15.0	15.5
Merged-chr1-159233779-4	chr1	159233599	159233799	+	813.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011931, intron 1 of 19)	intron (NM_011931, intron 1 of 19)	1499.0	NM_011931	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	6.0	10.5	7.0	87.0	14.5	9.5	11.0	6.0
Merged-chr1-191638931-4	chr1	191638837	191639037	+	800.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	63301.0	NM_001306204	77065.0	Mm.338175	NM_178632	ENSMUSG00000037461	Ints7	5930412E23Rik|int7	integrator complex subunit 7	protein-coding	8.0	27.5	12.0	78.5	35.5	6.5	4.0	15.5
Merged-chr15-100126885-4	chr15	100126786	100126986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 2 of 37)	intron (NM_001159361, intron 2 of 37)	-27510.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	37.0	28.0	18.5	476.0	57.5	18.5	36.5	39.5
Merged-chr19-10020152-1	chr19	10020052	10020252	+	567.0	f0_balb.idr	intron (NR_153790, intron 1 of 10)	ID_B1|SINE|B4	1958.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	6.5	17.5	8.5	63.5	23.5	5.5	3.0	6.0
Merged-chr13-100873589-5	chr13	100873473	100873673	+	754.179993	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40146.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	3.5	7.0	6.0	45.0	16.5	11.5	8.5	18.0
Merged-chr12-34682856-3	chr12	34682732	34682932	+	822.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	Lx8b|LINE|L1	-153943.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	13.0	26.5	13.0	218.5	16.0	5.0	6.5	6.0
Merged-chr5-118636972-4	chr5	118636893	118637093	+	947.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	76274.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	20.5	20.0	13.5	188.0	25.0	12.0	8.5	18.0
Merged-chr5-118633257-4	chr5	118633162	118633362	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	72543.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	22.5	22.0	15.0	290.5	36.5	10.0	18.5	24.5
Merged-chr15-59721757-4	chr15	59721669	59721869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73115.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	78.0	108.0	94.0	1323.5	121.5	33.0	59.5	46.5
Merged-chr10-37138488-2	chr10	37138388	37138588	+	958.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_008538, exon 1 of 2)	exon (NM_008538, exon 1 of 2)	438.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	5.0	10.5	12.0	120.0	34.5	12.5	4.5	10.5
Merged-chr3-105802702-4	chr3	105802589	105802789	+	862.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1308.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	9.5	13.5	12.5	132.0	41.0	15.0	11.5	13.0
Merged-chr15-66768825-4	chr15	66768728	66768928	+	871.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 40 of 47)	intron (NM_009375, intron 40 of 47)	63001.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	10.0	23.5	13.0	138.0	22.0	13.0	11.5	11.0
Merged-chr17-84361154-4	chr17	84361054	84361254	+	982.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	intron (NM_183021, intron 26 of 37)	105054.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	26.0	15.5	16.0	252.5	67.0	24.5	24.5	13.5
Merged-chr1-86416476-4	chr1	86416377	86416577	+	857.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9852.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	14.5	37.0	8.5	169.5	23.5	13.5	11.0	13.5
Merged-chr12-32464611-2	chr12	32464511	32464711	+	613.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	85822.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	8.5	5.0	5.0	31.5	8.0	6.0	4.0	1.0
Merged-chr10-128548502-3	chr10	128548426	128548626	+	869.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134003)	promoter-TSS (NM_134003)	642.0	NM_018860	67945.0	Mm.290786	NM_018860	ENSMUSG00000093674	Rpl41	1810055P16Rik|2210411K19Rik	ribosomal protein L41	protein-coding	9.5	9.0	2.0	63.0	15.0	8.5	8.0	13.0
Merged-chr8-94745552-4	chr8	94745456	94745656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009137)	promoter-TSS (NM_009137)	-128.0	NM_009137	20299.0	Mm.12895	NM_009137	ENSMUSG00000031779	Ccl22	ABCD-1|DCBCK|MDC|Scya22	chemokine (C-C motif) ligand 22	protein-coding	17.0	64.0	20.0	208.0	141.0	74.0	65.5	24.5
Merged-chr15-66969843-4	chr15	66969765	66969965	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008681)	promoter-TSS (NM_008681)	-224.0	NM_008681	17988.0	Mm.30837	NM_008681	ENSMUSG00000005125	Ndrg1	CAP43|CMT4D|DRG1|HMSNL|NMSL|Ndr1|Ndrl|PROXY1|RTP|TDD5	N-myc downstream regulated gene 1	protein-coding	27.5	50.5	38.0	517.0	30.0	12.0	21.5	11.0
Merged-chr11-3162662-4	chr11	3162531	3162731	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 9 of 32)	intron (NM_030207, intron 9 of 32)	30832.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	26.5	24.5	39.5	338.5	33.5	9.5	9.5	10.0
Merged-chr4-126468711-4	chr4	126468596	126468796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317173)	promoter-TSS (NM_001317173)	-113.0	NM_153403	236511.0	Mm.30800	NM_153403	ENSMUSG00000041530	Ago1	Eif2c1	argonaute RISC catalytic subunit 1	protein-coding	140.0	202.5	69.0	1588.5	264.0	92.5	120.5	108.0
Merged-chr1-166730402-4	chr1	166730309	166730509	+	783.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-48564.0	NM_001347135	240894.0	Mm.246610	NM_172844	ENSMUSG00000026560	Fmo9	4831428F09Rik	flavin containing monooxygenase 9	protein-coding	9.0	15.0	8.5	156.5	18.5	8.0	12.5	11.0
Merged-chr7-48876701-4	chr7	48876569	48876769	+	858.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013368, intron 4 of 12)	intron (NM_001013368, intron 4 of 12)	4372.0	NM_001013368	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	10.0	10.5	12.0	206.5	24.0	8.5	8.0	6.0
Merged-chr13-55125098-4	chr13	55125008	55125208	+	990.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012017, intron 5 of 6)	intron (NM_012017, intron 5 of 6)	19799.0	NM_012017	26919.0	Mm.22795	NM_012017	ENSMUSG00000021481	Zfp346	Jaz|Znf346	zinc finger protein 346	protein-coding	17.0	29.0	28.0	284.5	72.0	14.0	27.0	39.0
Merged-chr6-54973036-4	chr6	54972920	54973120	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172729)	promoter-TSS (NM_172729)	-408.0	NM_172729	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	14.0	14.0	1.0	166.0	42.5	7.0	24.0	4.5
Merged-chr15-100666424-3	chr15	100666306	100666506	+	893.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270537, intron 1 of 10)	intron (NM_001270537, intron 1 of 10)	3094.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	9.0	7.5	2.5	107.5	9.0	8.5	13.0	5.0
Merged-chr6-15727773-4	chr6	15727660	15727860	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	7099.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	24.5	32.0	22.5	321.5	86.5	31.0	18.0	25.5
Merged-chr2-129596103-4	chr2	129595994	129596194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	632.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	103.5	180.5	124.0	1773.5	412.0	205.0	187.0	173.0
Merged-chr16-91917934-4	chr16	91917811	91918011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010587, exon 39 of 39)	3' UTR (NM_010587, exon 39 of 39)	13719.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	26.0	66.0	26.0	297.0	48.5	31.0	18.0	25.5
Merged-chr11-111165162-4	chr11	111165103	111165303	+	940.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99039.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	12.0	8.0	10.5	123.5	40.0	11.5	19.0	19.0
Merged-chr10-128790937-4	chr10	128790849	128791049	+	910.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164197)	promoter-TSS (NM_001164197)	-6.0	NM_021412	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	19.5	6.0	18.5	179.0	29.5	11.0	14.0	9.0
Merged-chr9-41137248-4	chr9	41137155	41137355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	20807.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	57.5	134.5	80.0	1144.0	75.0	23.5	35.0	23.5
Merged-chr6-4955379-4	chr6	4955278	4955478	+	721.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	52058.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	14.5	10.0	14.0	189.5	21.0	3.5	10.0	15.0
Merged-chr5-86190532-4	chr5	86190450	86190650	+	881.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310653, intron 1 of 1)	ORR1C2|LTR|ERVL-MaLR	7351.0	NM_001310653	14715.0	Mm.26791	NM_010323	ENSMUSG00000029255	Gnrhr	-	gonadotropin releasing hormone receptor	protein-coding	6.0	6.0	14.0	115.5	193.0	72.0	117.0	104.0
Merged-chr1-131097840-4	chr1	131097745	131097945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008551)	promoter-TSS (NM_008551)	-2.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	156.5	336.0	139.5	1668.0	404.0	163.5	217.5	130.0
Merged-chr19-56773701-3	chr19	56773637	56773837	+	962.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	39946.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	4.5	1.5	8.5	128.0	10.0	8.0	6.0	15.0
Merged-chr13-5858984-4	chr13	5858856	5859056	+	905.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045891)	promoter-TSS (NR_045891)	-864.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	6.0	5.5	12.5	136.5	22.5	6.0	5.5	12.0
Merged-chr1-78490313-4	chr1	78490211	78490411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1414.0	NM_011811	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	23.5	37.0	35.5	750.5	56.5	19.0	42.5	40.5
Merged-chr1-172521042-4	chr1	172520971	172521171	+	989.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027972)	promoter-TSS (NM_027972)	-59.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	15.5	39.0	5.5	206.5	77.5	35.0	28.0	37.0
Merged-chr13-110798377-4	chr13	110798264	110798464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105135.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	11.5	18.0	23.0	330.5	89.5	27.0	23.5	19.5
Merged-chr8-41825096-1	chr8	41824996	41825196	+	751.0	f0_balb.idr	Intergenic	Intergenic	-2171.0	NR_045497	69966.0	Mm.416903	NR_045497	ENSMUSG00000102046	2810404M03Rik	-	RIKEN cDNA 2810404M03 gene	ncRNA	9.0	8.0	6.5	187.0	11.0	0.0	0.0	3.5
Merged-chr15-59719567-4	chr15	59719464	59719664	+	854.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70910.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	14.5	11.0	15.5	144.0	25.0	7.5	19.5	8.5
Merged-chr2-142764749-4	chr2	142764620	142764820	+	901.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 12 of 26)	intron (NM_001355123, intron 12 of 26)	136744.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	22.0	17.0	22.0	502.0	20.0	5.5	23.5	18.5
Merged-chr3-98013444-4	chr3	98013321	98013521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010928)	promoter-TSS (NM_010928)	-117.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	77.0	145.0	110.0	908.5	268.0	105.0	88.0	93.5
Merged-chr8-70355890-3	chr8	70355753	70355953	+	870.214294	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2574.0	NM_001122829	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	18.5	6.0	8.0	87.5	13.0	3.5	3.0	2.0
Merged-chr15-58933777-4	chr15	58933669	58933869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175151)	promoter-TSS (NM_175151)	-39.0	NM_175151	69694.0	Mm.383230	NM_175151	ENSMUSG00000050891	Tatdn1	2310079P03Rik|CDA11	TatD DNase domain containing 1	protein-coding	95.5	156.5	78.0	1424.5	206.0	81.0	116.0	71.5
Merged-chr11-100343831-4	chr11	100343752	100343952	+	989.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	9445.0	NM_010257	14459.0	Mm.4767	NM_010257	ENSMUSG00000017165	Gast	GAS	gastrin	protein-coding	16.5	21.5	21.0	216.0	53.5	29.0	21.5	16.0
Merged-chr8-47948449-4	chr8	47948300	47948500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 1 of 22)	intron (NM_133791, intron 1 of 22)	42151.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	46.0	25.0	22.5	498.0	54.0	14.5	21.5	22.5
Merged-chr5-130029333-4	chr5	130029217	130029417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007761)	promoter-TSS (NM_007761)	11.0	NM_007761	12909.0	Mm.18072	NM_007761	ENSMUSG00000025532	Crcp	AL022669	calcitonin gene-related peptide-receptor component protein	protein-coding	66.5	75.5	65.0	1110.5	189.5	65.5	69.5	69.5
Merged-chr12-36156926-4	chr12	36156780	36156980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025840)	promoter-TSS (NM_025840)	-55.0	NM_025840	66912.0	Mm.288669	NM_025840	ENSMUSG00000020547	Bzw2	1110001I24Rik|Bdm2|HSPC028	basic leucine zipper and W2 domains 2	protein-coding	89.0	100.5	133.5	1210.5	172.5	85.5	98.0	104.5
Merged-chr15-53373966-4	chr15	53373859	53374059	+	988.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-27776.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	33.0	36.0	13.0	502.0	85.0	37.5	20.5	64.0
Merged-chr11-59809212-4	chr11	59809097	59809297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045686)	promoter-TSS (NR_045686)	404.0	NM_001271357	216805.0	Mm.339640	NM_146018	ENSMUSG00000032633	Flcn	AU014660|B430214A04Rik|Bhd|FLCL	folliculin	protein-coding	51.5	59.0	38.5	685.5	110.5	35.0	40.5	42.0
Merged-chr7-127008356-4	chr7	127008247	127008447	+	956.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080638, intron 1 of 14)	intron (NM_080638, intron 1 of 14)	6247.0	NM_080638	78388.0	Mm.228797	NM_080638	ENSMUSG00000030681	Mvp	2310009M24Rik|LRP|VAULT1	major vault protein	protein-coding	41.5	65.5	14.0	288.0	61.5	33.0	23.5	15.0
Merged-chr1-86599996-4	chr1	86599916	86600116	+	851.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360887, intron 5 of 6)	intron (NM_001360887, intron 5 of 6)	17095.0	NM_001360887	26895.0	Mm.12973	NM_172974	ENSMUSG00000026240	Cops7b	D1Wsu66e|E130114M23	COP9 signalosome subunit 7B	protein-coding	11.0	15.5	14.0	305.0	15.0	6.5	11.0	14.5
Merged-chr16-36656154-4	chr16	36656048	36656248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	9929.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	182.5	297.0	176.0	2376.5	469.5	175.5	198.0	155.5
Merged-chr10-77545114-4	chr10	77544988	77545188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 3 of 15)	intron (NM_008404, intron 3 of 15)	14740.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	70.5	96.0	36.5	969.0	138.5	34.0	75.0	66.5
Merged-chr4-33292929-3	chr4	33292815	33293015	+	855.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17396.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	7.5	13.5	9.5	173.5	10.0	1.0	8.0	7.5
Merged-chr17-74523581-4	chr17	74523439	74523639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4756.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	52.0	91.5	79.0	739.0	113.0	48.0	53.5	46.5
Merged-chr2-6728376-4	chr2	6728279	6728479	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	L1_Mus2|LINE|L1	-6717.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	25.0	30.0	22.0	170.5	62.5	23.5	26.5	23.0
Merged-chr10-8070281-4	chr10	8070178	8070378	+	820.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114155.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	5.5	9.5	5.5	154.0	15.0	8.5	12.0	13.0
Merged-chr17-65613786-8	chr17	65613674	65613874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013933)	promoter-TSS (NM_013933)	-219.0	NM_013933	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	94.0	178.0	160.0	1282.5	258.0	117.5	157.5	147.5
Merged-chr12-111944599-4	chr12	111944507	111944707	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029464)	promoter-TSS (NR_029464)	-125.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	31.5	29.0	19.0	217.0	39.0	28.5	28.0	19.5
Merged-chr7-16326400-4	chr7	16326301	16326501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019748)	TTS (NM_019748)	16818.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	24.0	100.0	30.0	458.5	94.5	69.0	50.0	46.5
Merged-chr19-6077211-4	chr19	6077133	6077333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081041)	promoter-TSS (NM_001081041)	-46.0	NM_001081041	68505.0	Mm.227361	NM_001081041	ENSMUSG00000024799	Vps51	1110014N23Rik|3110057M17Rik|AI837850|Ffr	VPS51 GARP complex subunit	protein-coding	27.5	60.0	18.5	439.5	115.0	38.5	38.5	37.5
Merged-chr6-124919867-4	chr6	124919751	124919951	+	879.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152158, intron 1 of 1)	intron (NR_152158, intron 1 of 1)	-1905.0	NM_026988	69202.0	Mm.142187	NM_026988	ENSMUSG00000030122	Ptms	2610009E16Rik	parathymosin	protein-coding	18.5	20.5	8.0	91.5	52.5	16.0	14.0	19.5
Merged-chr11-95840249-4	chr11	95840136	95840336	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163464, intron 1 of 7)	intron (NM_001163464, intron 1 of 7)	-2059.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	6.0	14.5	8.0	118.0	28.0	9.5	6.0	12.5
Merged-chr16-20361903-4	chr16	20361800	20362000	+	967.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 24 of 29)	RLTR9E|LTR|ERVK	-36496.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	13.5	36.5	23.0	263.0	50.5	16.0	20.5	15.0
Merged-chr11-113761830-4	chr11	113761747	113761947	+	938.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10032.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	13.5	27.5	11.5	123.5	34.0	15.5	23.0	19.0
Merged-chr17-73948294-4	chr17	73948194	73948394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 1 of 35)	intron (NM_011723, intron 1 of 35)	1902.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	90.0	104.0	81.5	1171.5	182.5	67.0	78.0	70.0
Merged-chr7-80425714-4	chr7	80425605	80425805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-20269.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	44.5	51.5	44.0	769.0	64.5	10.0	36.5	48.0
Merged-chr17-43460684-1	chr17	43460584	43460784	+	572.0	f0_c57.idr	Intergenic	Intergenic	42089.0	NM_008585	17287.0	Mm.5346	NM_008585	ENSMUSG00000023914	Mep1a	AI098089|AW107200|Mep-1|Mep-1a|Mep1	meprin 1 alpha	protein-coding	3.0	6.0	4.0	53.5	19.0	4.5	9.0	5.0
Merged-chr3-65943500-4	chr3	65943404	65943604	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14745.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	26.5	39.5	15.0	338.0	51.0	21.0	13.5	8.0
Merged-chr9-50479896-3	chr9	50479799	50479999	+	785.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14626.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	11.0	18.5	2.0	29.5	17.0	7.0	11.0	5.0
Merged-chr8-60865772-3	chr8	60865686	60865886	+	821.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24607.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	8.5	5.0	6.5	154.0	12.5	5.5	9.0	2.5
Merged-chr4-148084396-4	chr4	148084288	148084488	+	959.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301281, intron 1 of 4)	intron (NM_001301281, intron 1 of 4)	3676.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	27.0	27.0	24.5	369.0	70.5	14.5	39.0	27.0
Merged-chr11-4895343-4	chr11	4895239	4895439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172438)	promoter-TSS (NM_172438)	-4.0	NM_172438	107829.0	Mm.28969	NM_172438	ENSMUSG00000034274	Thoc5	1700060C24Rik|A430085L24Rik|Fmip|PK1.3|Sgk2	THO complex 5	protein-coding	52.0	74.5	40.5	704.0	71.5	31.5	41.0	23.0
Merged-chr1-36070599-3	chr1	36070509	36070709	+	855.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	2209.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	6.0	17.5	10.5	120.5	21.5	2.0	7.0	6.0
Merged-chr4-71489086-4	chr4	71488991	71489191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	711802.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	53.0	43.5	33.0	950.0	102.0	32.5	52.5	35.0
Merged-chr16-93691394-2	chr16	93691250	93691450	+	800.0	f0_balb.idr|f1_balb.idr	TTS (NM_173047)	TTS (NM_173047)	8131.0	NM_173047	109857.0	Mm.4512	NM_173047	ENSMUSG00000022947	Cbr3	1110001J05Rik|C81353	carbonyl reductase 3	protein-coding	7.5	6.5	6.5	69.0	15.0	2.5	1.5	7.0
Merged-chr13-105051626-1	chr13	105051526	105051726	+	1000.0	f0_balb.idr	intron (NM_029879, intron 2 of 5)	intron (NM_029879, intron 2 of 5)	3304.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	17.5	8.0	7.5	218.0	11.5	3.5	2.5	6.5
Merged-chr2-158166772-4	chr2	158166677	158166877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20385.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	119.5	164.5	153.0	1920.5	258.5	95.0	127.5	109.0
Merged-chr10-41810481-4	chr10	41810373	41810573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243075)	promoter-TSS (NM_001243075)	-101.0	NM_001162908	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	48.0	62.0	53.0	735.5	99.5	48.5	61.5	58.5
Merged-chr7-80179494-3	chr7	80179361	80179561	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7380.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	1.0	1.0	0.0	13.5	98.5	32.5	40.0	46.5
Merged-chr4-142094509-4	chr4	142094405	142094605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10201.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	73.0	114.0	113.0	1528.5	55.5	7.5	27.0	32.5
Merged-chr9-100391850-4	chr9	100391731	100391931	+	889.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	94642.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	6.0	9.5	18.0	108.0	33.5	9.5	13.0	16.5
Merged-chr15-42463489-4	chr15	42463392	42463592	+	760.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286062, intron 6 of 8)	intron (NM_001286062, intron 6 of 8)	213485.0	NM_001286062	11600.0	Mm.309336	NM_009640	ENSMUSG00000022309	Angpt1	1110046O21Rik|Ang-1|Ang1	angiopoietin 1	protein-coding	12.0	9.0	14.5	268.5	19.5	4.0	13.0	9.5
Merged-chr8-67494818-4	chr8	67494722	67494922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168577)	promoter-TSS (NM_001168577)	-53.0	NM_001168577	17961.0	Mm.4695	NM_010874	ENSMUSG00000051147	Nat2	AV377607	N-acetyltransferase 2 (arylamine N-acetyltransferase)	protein-coding	113.5	99.5	67.5	1717.5	252.5	64.5	112.5	92.0
Merged-chr6-142343783-3	chr6	142343704	142343904	+	715.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1893.0	NM_183165	232491.0	Mm.490474	NM_183165	ENSMUSG00000041671	Pyroxd1	-	pyridine nucleotide-disulphide oxidoreductase domain 1	protein-coding	7.5	10.5	5.0	121.5	23.0	12.5	5.0	9.5
Merged-chr19-24999467-4	chr19	24999363	24999563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028785)	promoter-TSS (NM_028785)	-66.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	60.0	45.0	33.0	683.0	109.0	48.0	39.0	46.5
Merged-chr2-129630694-4	chr2	129630634	129630834	+	854.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291021, exon 6 of 6)	3' UTR (NM_001291021, exon 6 of 6)	35272.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	8.0	8.0	7.5	170.5	23.0	3.5	11.0	8.0
Merged-chr2-27763580-4	chr2	27763482	27763682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011305)	TTS (NM_011305)	52999.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	133.5	242.0	169.5	2339.5	327.5	96.5	134.5	103.5
Merged-chr5-32137339-4	chr5	32137250	32137450	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008037, intron 1 of 3)	intron (NM_008037, intron 1 of 3)	878.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	15.0	16.0	10.5	132.5	50.5	18.0	19.5	30.0
Merged-chr7-45872822-4	chr7	45872719	45872919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133950)	promoter-TSS (NM_133950)	-21.0	NM_133950	68137.0	Mm.298433	NM_133950	ENSMUSG00000002778	Kdelr1	8030486F04Rik|AW215843|Erd2.1	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 1	protein-coding	23.5	40.0	27.5	266.5	73.5	15.0	37.0	27.0
Merged-chr18-89149306-4	chr18	89149205	89149405	+	838.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48122.0	NM_178687	225825.0	Mm.139293	NM_178687	ENSMUSG00000034028	Cd226	BC051526|DNAM-1|DNAM1|Pta1|TLiSA1	CD226 antigen	protein-coding	9.0	5.0	17.0	97.5	30.0	5.0	12.5	2.0
Merged-chr1-173737871-4	chr1	173737756	173737956	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204910, intron 1 of 7)	intron (NM_001204910, intron 1 of 7)	3953.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	27.0	31.5	10.0	213.5	52.5	25.0	31.0	20.0
Merged-chr14-50931050-4	chr14	50930939	50931139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310505)	promoter-TSS (NM_001310505)	-190.0	NM_001310507	219024.0	Mm.239117	NM_001033271	ENSMUSG00000035953	Tmem55b	BC039161|Pip4p1	transmembrane protein 55b	protein-coding	368.0	493.0	319.5	4785.5	986.5	364.5	377.5	302.0
Merged-chr5-124862591-4	chr5	124862520	124862720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144819)	promoter-TSS (NM_144819)	-85.0	NM_001081750	269704.0	Mm.138617	NM_001081750	ENSMUSG00000079215	Zfp664	AW060232|D930038J03Rik|ZFOC1|Znf664	zinc finger protein 664	protein-coding	59.0	95.5	38.0	818.5	172.0	66.0	71.0	79.0
Merged-chr12-54993804-4	chr12	54993719	54993919	+	912.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7483.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	22.0	24.0	21.5	323.5	38.5	11.5	11.5	12.5
Merged-chr7-127770823-3	chr7	127770684	127770884	+	937.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198424, intron 1 of 1)	intron (NM_198424, intron 1 of 1)	969.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	5.0	4.0	11.0	115.0	15.5	9.0	6.0	11.5
Merged-chr13-52602995-4	chr13	52602875	52603075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	intron (NM_011518, intron 1 of 13)	6093.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	94.5	166.0	209.0	2621.5	195.0	75.5	121.0	84.0
Merged-chr8-115582275-4	chr8	115582155	115582355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	124639.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	55.0	43.5	84.0	987.0	58.5	23.0	29.0	26.5
Merged-chr3-81039912-4	chr3	81039823	81040023	+	973.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	3507.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	23.5	32.0	43.0	464.0	60.0	11.5	17.0	26.0
Merged-chr4-131837173-8	chr4	131837106	131837306	+	817.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083119, intron 1 of 30)	CpG	1072.0	NM_011214	19273.0	Mm.4860	NM_011214	ENSMUSG00000028909	Ptpru	Ftp-1|PCP-2|PTP|PTP-lambda|PTPlambda|Pcp2|Ptpf|Ptprl|R-PTP-U|R-PTP-psi|RPTPlambda	protein tyrosine phosphatase, receptor type, U	protein-coding	10.5	18.0	4.0	94.5	20.5	5.5	13.0	10.0
Merged-chr3-81933017-2	chr3	81932941	81933141	+	977.833374	f0_balb.idr|f0_c57.idr	intron (NM_177662, intron 1 of 7)	intron (NM_177662, intron 1 of 7)	440.0	NM_177662	229445.0	Mm.254642	NM_177662	ENSMUSG00000028015	Ctso	A330105D01Rik|AI118514	cathepsin O	protein-coding	20.0	29.0	14.5	294.0	71.0	14.5	14.5	31.0
Merged-chr13-110684623-4	chr13	110684522	110684722	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-218877.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	20.0	25.0	25.5	380.5	70.5	15.0	32.5	28.0
Merged-chr8-39005853-4	chr8	39005739	39005939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030254)	promoter-TSS (NM_030254)	-6.0	NM_030254	80286.0	Mm.272722	NM_030254	ENSMUSG00000039530	Tusc3	AU022242|BC003311|N33	tumor suppressor candidate 3	protein-coding	67.0	94.5	96.0	1119.5	147.5	56.0	94.5	68.0
Merged-chr1-182928035-2	chr1	182927935	182928135	+	579.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26753.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	5.0	6.0	5.0	149.5	11.0	0.5	5.5	7.5
Merged-chr12-12287481-6	chr12	12287342	12287542	+	939.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	25303.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	11.5	12.0	8.5	66.5	17.5	7.0	14.5	9.0
Merged-chr10-96333457-4	chr10	96333381	96333581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	107274.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	93.5	140.5	91.5	1427.0	250.5	88.0	130.0	71.5
Merged-chr4-53265540-3	chr4	53265439	53265639	+	845.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033140)	promoter-TSS (NR_033140)	-47.0	NR_033140	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	10.0	10.5	10.0	192.5	11.0	4.5	7.0	7.0
Merged-chr15-94597936-2	chr15	94597836	94598036	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8112.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	3.0	5.0	5.0	84.0	12.0	6.0	4.5	9.5
Merged-chr1-56192420-3	chr1	56192321	56192521	+	898.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER92D|LTR|ERV1	173443.0	NR_126076	69356.0	Mm.393775	NR_126075	ENSMUSG00000100372	1700003I22Rik	-	RIKEN cDNA 1700003I22 gene	ncRNA	10.0	38.0	19.0	286.5	0.0	0.0	1.0	2.5
Merged-chr5-34285519-3	chr5	34285407	34285607	+	890.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 1 of 12)	intron (NM_001015039, intron 1 of 12)	2817.0	NM_001015039	231125.0	Mm.113388	NM_001015039	ENSMUSG00000037224	Zfyve28	9630058O20Rik|Gm146|mKIAA1643	zinc finger, FYVE domain containing 28	protein-coding	3.0	13.5	13.0	172.0	32.0	4.5	8.5	9.0
Merged-chr8-110970360-4	chr8	110970236	110970436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009179, exon 7 of 7)	3' UTR (NM_009179, exon 7 of 7)	27487.0	NM_007916	13680.0	Mm.287901	NM_007916	ENSMUSG00000015023	Ddx19a	DBP5|Ddx19|Eif4a-rs1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 19a	protein-coding	107.5	204.0	145.0	2116.0	324.0	121.5	176.0	111.5
Merged-chr10-117277958-4	chr10	117277852	117278052	+	961.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_017372, exon 4 of 4)	3' UTR (NM_017372, exon 4 of 4)	4320.0	NM_017372	17105.0	Mm.45436	NM_017372	ENSMUSG00000069516	Lyz2	AI326280|Lys|Lysm|Lyzf2|Lyzs|Lzm|Lzm-s1|Lzp	lysozyme 2	protein-coding	20.0	32.5	37.5	741.0	44.0	8.0	16.0	12.0
Merged-chr16-18406506-3	chr16	18406416	18406616	+	877.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007744)	TTS (NM_007744)	6978.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	16.5	10.5	7.0	123.5	10.0	10.0	4.5	5.5
Merged-chr14-17433140-4	chr14	17433027	17433227	+	858.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-227833.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	5.5	7.0	12.0	157.5	27.5	3.5	12.5	11.0
Merged-chr9-35199953-4	chr9	35199860	35200060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177847)	promoter-TSS (NM_001177847)	5.0	NM_001177846	117149.0	Mm.23987	NM_054096	ENSMUSG00000032041	Tirap	AA407980|C130027E04Rik|Mal|Tlr4ap|Wyatt	toll-interleukin 1 receptor (TIR) domain-containing adaptor protein	protein-coding	71.0	75.5	60.0	921.0	159.0	56.0	91.5	46.5
Merged-chr13-13590279-4	chr13	13590201	13590401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010748)	promoter-TSS (NM_010748)	-108.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	235.0	294.0	275.5	4062.0	502.5	172.0	272.0	204.5
Merged-chr7-38214773-3	chr7	38214671	38214871	+	811.399963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GC_rich|Low_complexity|Low_complexity	13223.0	NM_024413	72287.0	Mm.333798	NM_024413	ENSMUSG00000074170	Plekhf1	1810013P09Rik|APPD|LAPF|PHAFIN1|ZFYVE15	pleckstrin homology domain containing, family F (with FYVE domain) member 1	protein-coding	27.5	18.0	21.0	322.0	12.0	5.0	5.5	9.0
Merged-chr4-124802509-4	chr4	124802424	124802624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008636)	promoter-TSS (NM_008636)	-25.0	NM_008636	17764.0	Mm.272397	NM_008636	ENSMUSG00000028890	Mtf1	MTF-1|Thyls	metal response element binding transcription factor 1	protein-coding	115.0	133.0	64.0	1085.5	297.5	97.5	148.0	105.0
Merged-chr8-61920594-4	chr8	61920475	61920675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7512.0	NM_001293783	234311.0	Mm.275233	NM_144928	ENSMUSG00000037921	Ddx60	9830118M07	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	protein-coding	149.0	167.5	112.0	2217.0	345.5	121.5	138.0	136.0
Merged-chr14-8102763-4	chr14	8102634	8102834	+	922.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	4523.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	16.0	17.5	36.0	483.5	31.0	14.5	21.0	14.5
Merged-chr17-27908192-3	chr17	27908097	27908297	+	626.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026836, exon 2 of 6)	5' UTR (NM_026836, exon 2 of 6)	1045.0	NM_026836	68776.0	Mm.267998	NM_026836	ENSMUSG00000024218	Taf11	1110038O14Rik|AI115401|AL024207|AW552398|PRO214|TAF2I|TAFII28	TATA-box binding protein associated factor 11	protein-coding	10.5	18.0	5.0	53.0	16.5	4.5	3.5	6.0
Merged-chr6-113341734-4	chr6	113341652	113341852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133926, intron 2 of 11)	intron (NM_133926, intron 2 of 11)	2170.0	NM_133926	52163.0	Mm.277373	NM_133926	ENSMUSG00000030272	Camk1	AI505105|CaMKIalpha|D6Ertd263e	calcium/calmodulin-dependent protein kinase I	protein-coding	86.5	57.5	55.0	1442.0	137.5	40.5	74.0	59.0
Merged-chr15-43477634-4	chr15	43477532	43477732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046064)	promoter-TSS (NR_046064)	403.0	NM_025736	66736.0	Mm.244512	NM_025736	ENSMUSG00000022337	Emc2	4921531G14Rik|AV060620|AW209495|Ttc35	ER membrane protein complex subunit 2	protein-coding	62.5	94.0	96.5	1553.5	163.0	48.5	72.5	76.5
Merged-chr1-172309861-4	chr1	172309762	172309962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2505.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	24.0	34.5	18.5	306.0	87.5	21.5	21.0	30.5
Merged-chr13-95019541-4	chr13	95019423	95019623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172590, intron 12 of 12)	intron (NM_172590, intron 12 of 12)	43179.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	29.0	24.0	25.5	622.0	66.5	23.0	29.5	30.0
Merged-chr2-11705793-4	chr2	11705708	11705908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271501)	promoter-TSS (NM_001271501)	96.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	29.5	32.0	34.0	387.5	85.0	25.0	47.0	20.5
Merged-chr17-10350701-2	chr17	10350601	10350801	+	646.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26099.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	5.0	7.5	6.0	66.5	20.0	3.0	10.0	6.0
Merged-chr17-43076030-3	chr17	43075890	43076090	+	862.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 4 of 5)	intron (NM_178589, intron 4 of 5)	59435.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	14.5	13.0	13.5	215.5	20.5	6.0	6.5	5.0
Merged-chr3-30601360-4	chr3	30601260	30601460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030557)	promoter-TSS (NM_030557)	-727.0	NM_001289623	80732.0	Mm.200378	NM_030557	ENSMUSG00000037730	Mynn	2810011C24Rik|AA415053|AI661031|AW049392|Mynr|SBBIZ1	myoneurin	protein-coding	41.0	56.0	44.0	313.5	131.0	36.0	37.0	56.0
Merged-chr8-75155071-4	chr8	75154974	75155174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45565.0	NM_008566	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	34.5	69.0	108.5	1371.5	128.5	41.5	74.5	48.5
Merged-chr16-31192021-4	chr16	31191915	31192115	+	974.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030138, intron 1 of 22)	intron (NM_030138, intron 1 of 22)	9223.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	34.5	46.0	29.5	589.0	88.5	14.5	25.0	41.0
Merged-chr4-129495918-4	chr4	129495827	129496027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4737.0	NM_001085491	68233.0	Mm.424983	NM_001085491	ENSMUSG00000078554	Fam229a	1700125D06Rik	family with sequence similarity 229, member A	protein-coding	144.0	279.5	123.0	1687.0	311.0	132.0	161.5	123.5
Merged-chr4-94515507-2	chr4	94515407	94515607	+	817.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026368, intron 5 of 5)	intron (NM_026368, intron 5 of 5)	41289.0	NM_026368	67770.0	Mm.35170	NM_026368	ENSMUSG00000028578	Caap1	5830433M19Rik|AI536248|CAAP	caspase activity and apoptosis inhibitor 1	protein-coding	0.5	0.5	1.0	49.5	15.5	7.5	11.0	6.5
Merged-chr13-23454138-3	chr13	23454045	23454245	+	917.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11756.0	NM_013483	12231.0	Mm.1420	NM_013483	ENSMUSG00000000706	Btn1a1	Btn	butyrophilin, subfamily 1, member A1	protein-coding	3.0	9.5	9.5	141.0	26.5	6.0	11.0	8.5
Merged-chr2-150874736-4	chr2	150874639	150874839	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	intron (NR_151505, intron 1 of 12)	29992.0	NM_024465	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	17.5	28.0	23.5	355.0	36.0	16.0	9.5	12.0
Merged-chr6-113333264-4	chr6	113333175	113333375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133926)	TTS (NM_133926)	6299.0	NM_010957	18294.0	Mm.43612	NM_010957	ENSMUSG00000030271	Ogg1	Mmh	8-oxoguanine DNA-glycosylase 1	protein-coding	45.0	48.0	28.5	730.0	103.5	27.5	49.5	55.0
Merged-chr7-100242556-4	chr7	100242452	100242652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027629, intron 1 of 13)	intron (NM_027629, intron 1 of 13)	14945.0	NM_027629	70974.0	Mm.440524	NM_027629	ENSMUSG00000030729	Pgm2l1	4931406N15Rik|AI553438|BM32A	phosphoglucomutase 2-like 1	protein-coding	25.0	45.0	31.5	685.0	69.0	10.5	19.0	20.5
Merged-chr7-45715343-4	chr7	45715236	45715436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020011)	promoter-TSS (NM_020011)	-129.0	NM_020011	56632.0	Mm.24222	NM_020011	ENSMUSG00000057342	Sphk2	C76851	sphingosine kinase 2	protein-coding	158.0	288.5	139.0	2764.0	444.5	165.5	183.5	159.0
Merged-chr6-134567048-6	chr6	134566945	134567145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008514)	promoter-TSS (NM_008514)	-132.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	33.5	45.0	67.5	342.5	83.5	27.5	28.0	27.0
Merged-chr6-36989587-3	chr6	36989481	36989681	+	830.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 20 of 32)	intron (NM_001347104, intron 20 of 32)	-179402.0	NM_008973	19242.0	Mm.279690	NM_008973	ENSMUSG00000029838	Ptn	HARP|HB-GAM|HBBM|HBBN|HBGF-8|HBNF|OSF|Osf-1|Osf1	pleiotrophin	protein-coding	1.0	8.0	13.5	177.0	11.0	6.0	8.5	5.0
Merged-chr17-86142495-3	chr17	86142383	86142583	+	816.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 1 of 20)	intron (NM_030133, intron 1 of 20)	2692.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	5.0	10.5	6.0	123.5	8.5	3.5	2.0	6.0
Merged-chr14-66805627-2	chr14	66805540	66805740	+	758.0	f0_balb.idr|f0_c57.idr	intron (NM_009955, intron 13 of 13)	intron (NM_009955, intron 13 of 13)	62960.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	8.0	7.0	6.5	214.0	34.0	9.0	23.0	17.0
Merged-chr11-69266495-4	chr11	69266397	69266597	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29475.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	16.5	16.5	18.0	189.0	32.0	19.0	21.0	15.5
Merged-chr11-99230496-5	chr11	99230429	99230629	+	970.5904539999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020618, exon 1 of 11)	5' UTR (NM_020618, exon 1 of 11)	488.0	NM_020618	57376.0	Mm.379086	NM_020618	ENSMUSG00000037935	Smarce1	2810417B20Rik|5830412H02Rik|9030408N19Rik|Baf27	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1	protein-coding	11.5	19.5	19.0	138.0	30.0	13.5	14.0	24.5
Merged-chr17-84285203-3	chr17	84285104	84285304	+	672.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 29 of 37)	intron (NM_183021, intron 29 of 37)	-97257.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	12.0	9.5	7.5	158.0	9.0	4.0	12.0	10.0
Merged-chr6-72598495-4	chr6	72598400	72598600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026159)	promoter-TSS (NM_026159)	-87.0	NM_001253692	232089.0	Mm.167232	NM_144917	ENSMUSG00000056698	Elmod3	AI844780|C330008I15Rik|RBM29|Rbed1	ELMO/CED-12 domain containing 3	protein-coding	149.5	193.5	166.5	1984.5	294.0	142.5	120.0	109.5
Merged-chr11-106076504-4	chr11	106076402	106076602	+	965.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8400.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	37.5	64.5	11.5	484.0	89.0	33.0	37.5	28.0
Merged-chr2-32450504-4	chr2	32450397	32450597	+	905.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194335)	promoter-TSS (NM_194335)	40.0	NM_194335	71254.0	Mm.102341	NM_194335	ENSMUSG00000039164	Naif1	2310007O20Rik|4933440H19Rik	nuclear apoptosis inducing factor 1	protein-coding	11.0	15.0	13.0	201.5	27.0	11.0	20.0	25.0
Merged-chr6-34620429-4	chr6	34620309	34620509	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	MLTR14|LTR|ERV1	21905.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	67.5	167.5	92.5	1231.0	84.5	15.0	29.0	42.5
Merged-chr8-10902659-3	chr8	10902559	10902759	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_102285)	TTS (NR_102285)	2737.0	NR_102285	71624.0	Mm.139075	NR_102285	ENSMUSG00000109089	4833411C07Rik	-	RIKEN cDNA 4833411C07 gene	ncRNA	7.0	7.0	7.5	106.0	19.0	5.0	9.5	3.0
Merged-chr3-84715239-4	chr3	84715119	84715319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49027.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	99.5	173.5	103.5	1400.5	172.0	79.0	84.0	74.5
Merged-chr17-17374560-4	chr17	17374459	17374659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025934, exon 1 of 10)	5' UTR (NM_025934, exon 1 of 10)	227.0	NM_025934	67045.0	Mm.35117	NM_025934	ENSMUSG00000023852	Riok2	2010110K24Rik|2410085M17Rik	RIO kinase 2	protein-coding	62.5	69.5	42.5	723.0	149.5	55.5	60.0	31.0
Merged-chr3-69657806-4	chr3	69657700	69657900	+	964.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58840.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	38.0	38.0	34.0	453.5	80.0	21.0	14.0	21.0
Merged-chr15-75600353-3	chr15	75600246	75600446	+	938.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3716.0	NM_026730	68453.0	Mm.46367	NM_026730	ENSMUSG00000022579	Gpihbp1	1110002J19Rik|GPI-HBP1	GPI-anchored HDL-binding protein 1	protein-coding	18.5	16.0	22.0	219.0	9.5	5.0	7.5	9.5
Merged-chr11-113101779-4	chr11	113101653	113101853	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015556, intron 1 of 2)	intron (NR_015556, intron 1 of 2)	100085.0	NR_015556	72386.0	Mm.266961	NR_015556	ENSMUSG00000087259	2610035D17Rik	-	RIKEN cDNA 2610035D17 gene	ncRNA	29.5	49.0	25.0	400.0	181.5	43.0	100.0	51.0
Merged-chr1-156680878-4	chr1	156680749	156680949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145413, exon 8 of 8)	3' UTR (NM_145413, exon 8 of 8)	-6510.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	130.0	176.5	179.5	2925.5	54.5	15.5	32.5	34.0
Merged-chr7-110381773-3	chr7	110381671	110381871	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	intron (NM_177324, intron 17 of 40)	160068.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	5.5	19.5	8.0	206.0	12.5	6.5	4.0	5.0
Merged-chr15-58990325-3	chr15	58990233	58990433	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	56523.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	10.0	15.0	9.5	165.5	14.0	4.0	8.5	3.5
Merged-chr3-105720307-2	chr3	105720207	105720407	+	654.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175398, exon 2 of 2)	3' UTR (NM_175398, exon 2 of 2)	14849.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	2.0	5.0	1.0	40.0	8.5	4.5	9.0	11.0
Merged-chr10-83910986-6	chr10	83910910	83911110	+	979.984131	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	188145.0	NM_001145198	69784.0	Mm.271188	NM_001145198	ENSMUSG00000087651	1500009L16Rik	2700050C19Rik|OCC-1	RIKEN cDNA 1500009L16 gene	protein-coding	3.0	6.5	12.0	80.0	15.5	5.0	10.5	16.5
Merged-chr18-44828521-4	chr18	44828424	44828624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163013)	promoter-TSS (NM_001163013)	-141.0	NM_001163013	240255.0	Mm.244482	NM_001163013	ENSMUSG00000034653	Ythdc2	3010002F02Rik|BC037178	YTH domain containing 2	protein-coding	78.0	79.0	98.0	1115.5	113.5	53.0	62.0	76.5
Merged-chr14-55685961-4	chr14	55685864	55686064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4147.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	18.0	40.5	38.5	621.0	56.5	19.5	48.0	47.5
Merged-chr11-83291648-4	chr11	83291558	83291758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028363)	promoter-TSS (NR_028363)	-41.0	NR_028363	613254.0	Mm.383758	NR_028363	ENSMUSG00000093483	AA465934	-	expressed sequence AA465934	ncRNA	160.0	216.0	118.0	1572.0	283.5	107.5	158.0	125.0
Merged-chr7-140881822-4	chr7	140881694	140881894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177804)	promoter-TSS (NM_001177804)	75.0	NM_001127351	64384.0	Mm.29760	NM_022433	ENSMUSG00000025486	Sirt3	2310003L23Rik|AI848213|Sir2l3	sirtuin 3	protein-coding	36.5	52.5	16.5	473.0	93.0	37.0	45.0	39.0
Merged-chr7-101028736-4	chr7	101028636	101028836	+	966.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16683.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	12.0	17.5	15.5	268.0	41.0	11.0	15.5	17.5
Merged-chr14-109478426-4	chr14	109478322	109478522	+	829.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR80A|LTR|ERVL	-564183.0	NM_199065	76965.0	Mm.257268	NM_199065	ENSMUSG00000075478	Slitrk1	3200001I04Rik	SLIT and NTRK-like family, member 1	protein-coding	14.0	29.5	12.0	441.0	36.5	6.5	11.5	13.0
Merged-chr1-180422274-4	chr1	180422157	180422357	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081175, exon 8 of 8)	3' UTR (NM_001081175, exon 8 of 8)	61247.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	24.5	21.5	22.5	252.5	74.5	21.0	25.0	38.5
Merged-chr13-92526131-3	chr13	92526032	92526232	+	949.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173392, intron 1 of 17)	intron (NM_173392, intron 1 of 17)	4678.0	NM_173392	218441.0	Mm.259585	NM_173392	ENSMUSG00000021706	Zfyve16	AI035632|B130024H06Rik|B130031L15|mKIAA0305	zinc finger, FYVE domain containing 16	protein-coding	11.5	25.0	12.5	196.5	11.5	3.0	10.5	8.5
Merged-chr4-138464102-3	chr4	138463999	138464199	+	863.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8951.0	NM_025451	66259.0	Mm.41603	NM_025451	ENSMUSG00000046447	Camk2n1	1810006K23Rik|AI848599|AI891706	calcium/calmodulin-dependent protein kinase II inhibitor 1	protein-coding	9.0	22.5	14.5	100.0	17.0	5.0	1.5	3.5
Merged-chr5-64205864-4	chr5	64205763	64205963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-24494.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	57.0	45.0	79.5	1107.5	91.5	32.5	39.5	39.0
Merged-chr6-131278339-4	chr6	131278232	131278432	+	986.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	14912.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	42.5	31.0	53.0	388.0	81.0	32.0	17.5	35.5
Merged-chr5-35689010-4	chr5	35688866	35689066	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-9186.0	NM_030127	78558.0	Mm.274255	NM_030127	ENSMUSG00000029096	Htra3	2210021K23Rik|9530081K03Rik|Prsp|Tasp	HtrA serine peptidase 3	protein-coding	9.5	13.0	11.5	170.5	19.5	5.5	8.5	14.5
Merged-chr4-111721650-4	chr4	111721565	111721765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026470, intron 1 of 12)	intron (NM_026470, intron 1 of 12)	1655.0	NM_026470	67946.0	Mm.275526	NM_026470	ENSMUSG00000034401	Spata6	1700062C23Rik|AI790763|Hash|KRP|Mash	spermatogenesis associated 6	protein-coding	70.5	57.0	55.5	1050.0	179.0	51.5	92.0	63.5
Merged-chr5-142896463-4	chr5	142896241	142896441	+	770.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1103.0	NM_001033312	231863.0	Mm.89753	NM_001033312	ENSMUSG00000066640	Fbxl18	AI427077|B130019G13Rik|C330021B20Rik	F-box and leucine-rich repeat protein 18	protein-coding	3.0	4.5	4.5	55.0	14.5	4.5	8.0	9.5
Merged-chr3-109047916-4	chr3	109047784	109047984	+	898.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-20277.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	21.0	15.0	5.0	128.5	32.5	15.0	16.5	19.5
Merged-chr7-25707728-4	chr7	25707637	25707837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11316.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	108.0	296.0	266.5	2330.5	386.0	121.5	181.0	126.0
Merged-chr2-122777052-4	chr2	122776953	122777153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027888, intron 1 of 9)	intron (NR_027888, intron 1 of 9)	-4946.0	NM_021507	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	25.5	33.0	47.5	762.5	48.5	25.5	39.0	33.5
Merged-chr4-126204868-4	chr4	126204761	126204961	+	958.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2151.0	NM_146153	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	7.0	16.5	11.0	239.5	55.5	16.0	26.0	24.0
Merged-chr14-50870489-4	chr14	50870383	50870583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009351)	promoter-TSS (NM_009351)	71.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	34.5	54.5	63.5	578.0	77.0	32.0	44.5	34.5
Merged-chr4-141761785-4	chr4	141761690	141761890	+	963.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172338)	TTS (NM_172338)	15115.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	25.5	42.0	23.5	295.5	36.0	14.0	15.0	9.0
Merged-chr3-22091945-4	chr3	22091851	22092051	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	RLTR23|LTR|ERV1	15299.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	11.0	21.5	15.0	248.0	31.0	7.5	15.0	7.5
Merged-chr19-5965422-3	chr19	5965344	5965544	+	877.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1238.0	NM_008893	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	7.0	9.5	5.5	93.0	19.0	12.5	6.5	7.0
Merged-chr11-83686468-4	chr11	83686367	83686567	+	850.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-17589.0	NM_001081957	100034251.0	Mm.24097	NM_001081957	ENSMUSG00000069792	Wfdc17	Amwap|Gm11428	WAP four-disulfide core domain 17	protein-coding	5.5	18.0	16.5	125.0	25.0	6.5	10.0	15.0
Merged-chr8-83772835-3	chr8	83772740	83772940	+	698.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31529.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	4.5	5.5	14.0	97.5	10.5	9.0	5.0	7.0
Merged-chr1-155973326-4	chr1	155973265	155973465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039184)	promoter-TSS (NM_001039184)	-110.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	155.0	208.0	122.0	1683.5	424.0	163.0	176.0	144.0
Merged-chr16-17232966-1	chr16	17232866	17233066	+	586.0	f0_balb.idr	promoter-TSS (NM_178922)	promoter-TSS (NM_178922)	-621.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	7.0	5.0	9.5	95.5	9.0	1.5	8.5	8.5
Merged-chr1-93011122-7	chr1	93010994	93011194	+	911.0476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159658, intron 2 of 2)	MER115|DNA|hAT-Tip100	4760.0	NM_177587	208760.0	Mm.235537	NM_177587	ENSMUSG00000045091	Aqp12	AB084104|mAQP12	aquaporin 12	protein-coding	14.5	12.5	15.0	133.0	26.0	7.5	16.0	9.5
Merged-chr6-124507568-3	chr6	124507469	124507669	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181344, intron 5 of 5)	L1MB7|LINE|L1	-5052.0	NM_023143	50909.0	Mm.333375	NM_023143	ENSMUSG00000055172	C1ra	AI132558|C1r|mC1rA	complement component 1, r subcomponent A	protein-coding	11.5	18.5	13.5	28.5	20.5	9.0	5.5	11.5
Merged-chr13-93951167-2	chr13	93951067	93951267	+	999.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106629.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	11.0	6.0	9.0	58.5	7.5	3.5	1.0	3.0
Merged-chr5-138264016-4	chr5	138263917	138264117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153161)	promoter-TSS (NM_153161)	-28.0	NR_045821	69004.0	Mm.439868	NR_045821	ENSMUSG00000085227	6330418K02Rik	-	RIKEN cDNA 6330418K02 gene	ncRNA	35.5	58.0	46.0	438.0	77.0	25.5	38.5	41.0
Merged-chr17-80621126-4	chr17	80620994	80621194	+	758.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290345, intron 16 of 33)	ID_B1|SINE|B4	-43281.0	NM_001360144	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	3.5	8.5	6.5	125.0	22.5	6.0	15.0	10.5
Merged-chr8-70601429-4	chr8	70601338	70601538	+	960.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133772, intron 4 of 16)	CpG	6876.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	9.0	24.5	9.5	167.5	82.5	27.5	37.5	36.0
Merged-chr8-71463656-4	chr8	71463544	71463744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022419)	promoter-TSS (NM_022419)	13.0	NM_022419	64296.0	Mm.276383	NM_022419	ENSMUSG00000007950	Abhd8	0910001L24Rik|AB030191	abhydrolase domain containing 8	protein-coding	92.5	119.5	74.0	922.5	220.0	70.5	90.0	73.0
Merged-chr6-72552892-4	chr6	72552784	72552984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271395, intron 1 of 9)	intron (NM_001271395, intron 1 of 9)	3237.0	NM_001271395	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	182.0	255.0	226.0	2344.0	376.5	140.0	146.0	95.0
Merged-chr8-70653454-4	chr8	70653372	70653572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023217, intron 2 of 4)	intron (NM_023217, intron 2 of 4)	6266.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	44.0	81.5	31.5	375.0	114.0	47.5	43.0	40.0
Merged-chr12-100159737-4	chr12	100159640	100159840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183155)	promoter-TSS (NM_183155)	-87.0	NM_183155	217827.0	Mm.224076	NM_183155	ENSMUSG00000021179	Nrde2	6720454P05Rik	nrde-2 necessary for RNA interference, domain containing	protein-coding	189.5	230.5	159.0	2626.5	366.5	129.5	202.0	110.5
Merged-chr2-121309255-4	chr2	121309161	121309361	+	852.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_032393, exon 7 of 7)	3' UTR (NM_032393, exon 7 of 7)	13807.0	NM_001173506	17754.0	Mm.36501	NM_032393	ENSMUSG00000027254	Map1a	6330416M19Rik|AI853608|Mtap-1|Mtap1|Mtap1a|moth1	microtubule-associated protein 1 A	protein-coding	10.0	16.5	14.5	141.0	21.5	14.5	6.5	17.0
Merged-chr6-34479268-3	chr6	34479136	34479336	+	655.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007563, intron 1 of 2)	intron (NM_007563, intron 1 of 2)	2880.0	NM_007563	12183.0	Mm.282863	NM_007563	ENSMUSG00000038871	Bpgm	AI323730|AL022789|C86192	2,3-bisphosphoglycerate mutase	protein-coding	13.0	9.0	14.5	151.0	5.5	1.5	6.5	6.0
Merged-chr9-110305210-5	chr9	110305125	110305325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081381)	promoter-TSS (NM_001081381)	33.0	NM_001081381	72341.0	Mm.374250	NM_001081381	ENSMUSG00000054836	Elp6	2610001P13Rik|2610002I17Rik|AV159994|Tmem103	elongator acetyltransferase complex subunit 6	protein-coding	22.0	43.5	47.0	406.5	66.5	37.0	36.0	34.0
Merged-chr1-74788814-4	chr1	74788696	74788896	+	681.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3223.0	NM_009518	22409.0	Mm.5130	NM_009518	ENSMUSG00000026167	Wnt10a	-	wingless-type MMTV integration site family, member 10A	protein-coding	6.5	14.5	4.0	69.5	27.0	9.5	4.5	9.0
Merged-chr8-22411355-4	chr8	22411256	22411456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020560)	promoter-TSS (NM_020560)	16.0	NM_020560	57312.0	Mm.289402	NM_020560	ENSMUSG00000031533	Mrps31	1500002D03Rik|AA960481|Imogen38|Imogen44	mitochondrial ribosomal protein S31	protein-coding	30.5	46.5	24.0	531.0	96.5	34.0	44.0	35.5
Merged-chr11-50371509-2	chr11	50371409	50371609	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6210.0	NM_021510	59013.0	Mm.21740	NM_021510	ENSMUSG00000007850	Hnrnph1	AI642080|E430005G16Rik|Hnrnph|Hnrph1	heterogeneous nuclear ribonucleoprotein H1	protein-coding	11.0	3.0	0.5	28.0	26.0	6.0	4.5	5.5
Merged-chr10-84576958-3	chr10	84576856	84577056	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146008)	promoter-TSS (NM_146008)	9.0	NM_146008	216198.0	Mm.296142	NM_146008	ENSMUSG00000020034	Tcp11l2	E430026E19Rik	t-complex 11 (mouse) like 2	protein-coding	26.0	33.5	35.5	425.5	43.5	27.0	24.5	19.0
Merged-chr14-74689785-3	chr14	74689685	74689885	+	873.138855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172812, intron 2 of 2)	intron (NM_172812, intron 2 of 2)	-42512.0	NM_001285423	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	11.0	12.0	20.0	201.0	27.0	8.0	14.0	8.0
Merged-chr3-89908542-4	chr3	89908450	89908650	+	828.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	4646.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	24.5	10.5	6.0	176.0	27.5	17.0	14.5	7.5
Merged-chr7-143038308-4	chr7	143038190	143038390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015529, intron 2 of 3)	ERVL-B4-int|LTR|ERVL	-14460.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	21.5	29.0	30.5	454.0	85.0	19.5	44.5	26.0
Merged-chr8-121590381-4	chr8	121590288	121590488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026160)	promoter-TSS (NM_026160)	-80.0	NM_026160	67443.0	Mm.28357	NM_026160	ENSMUSG00000031812	Map1lc3b	1010001C15Rik|Atg8|LC3b|Map1lc3	microtubule-associated protein 1 light chain 3 beta	protein-coding	147.0	144.5	104.5	1303.5	367.0	141.5	143.5	137.0
Merged-chr10-93309785-4	chr10	93309700	93309900	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001322265, intron 1 of 4)	intron (NM_001322265, intron 1 of 4)	1359.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	27.5	82.5	20.0	366.5	64.5	17.5	16.5	15.5
Merged-chr3-115644546-3	chr3	115644467	115644667	+	905.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70488.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	8.0	9.5	11.5	74.5	11.0	4.5	6.5	7.0
Merged-chr7-143685874-4	chr7	143685773	143685973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024290)	promoter-TSS (NM_024290)	2.0	NM_001308111	79201.0	Mm.290780	NM_024290	ENSMUSG00000037613	Tnfrsf23	SOB|TNFRSFH23|Tnfrh1|Tnfrsf1al1|mDcTRAILR1|mSOB	tumor necrosis factor receptor superfamily, member 23	protein-coding	66.0	96.5	42.5	1091.5	223.5	77.0	63.0	67.5
Merged-chr2-129545658-4	chr2	129545563	129545763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9061.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	35.5	51.0	49.5	737.0	113.0	30.0	33.0	41.0
Merged-chr7-63916550-4	chr7	63916458	63916658	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256311)	promoter-TSS (NM_001256311)	-299.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	25.5	24.0	20.5	221.5	47.5	26.0	13.5	15.0
Merged-chr10-17727930-4	chr10	17727784	17727984	+	977.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4656.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	24.0	24.0	17.5	148.0	35.0	16.0	15.0	20.0
Merged-chr8-26443245-2	chr8	26443151	26443351	+	886.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	285082.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	9.0	7.0	6.0	95.5	36.0	5.0	6.5	4.0
Merged-chr11-83834433-4	chr11	83834351	83834551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16418.0	NM_001291268	21410.0	Mm.7226	NM_009330	ENSMUSG00000020679	Hnf1b	HNF-1-beta|HNF-1B|HNF-1Beta|Hnf1beta|LFB3|Tcf-2|Tcf2|vHNF1	HNF1 homeobox B	protein-coding	104.5	187.0	88.0	1291.5	258.5	125.5	83.5	108.5
Merged-chr9-44799361-3	chr9	44799234	44799434	+	883.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357383)	promoter-TSS (NM_001357383)	-87.0	NM_001357383	71687.0	Mm.41409	NM_027865	ENSMUSG00000002032	Tmem25	0610039J01Rik|AI429491	transmembrane protein 25	protein-coding	7.0	7.0	5.5	126.0	14.0	10.5	6.5	6.5
Merged-chr7-114922389-3	chr7	114922307	114922507	+	789.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26243.0	NR_040317	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	8.5	6.5	15.0	119.0	18.0	10.0	6.0	5.5
Merged-chr7-131540292-2	chr7	131540192	131540392	+	893.7999880000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2671.0	NM_008257	15373.0	Mm.323562	NM_008257	ENSMUSG00000040148	Hmx3	Nkx-5.1|Nkx5-1|Nkx5.1	H6 homeobox 3	protein-coding	5.0	3.5	13.0	51.0	19.5	7.0	8.5	6.5
Merged-chr1-135536558-4	chr1	135536460	135536660	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 2 of 28)	intron (NM_173437, intron 2 of 28)	48795.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	18.0	57.0	28.0	203.0	43.0	21.5	17.0	9.5
Merged-chr19-46045912-4	chr19	46045832	46046032	+	946.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113408)	promoter-TSS (NM_001113408)	-621.0	NM_001113408	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	15.5	20.5	6.0	114.0	40.0	18.5	14.5	26.5
Merged-chr12-113220749-4	chr12	113220643	113220843	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34840.0	NM_153776	69195.0	Mm.313244	NM_153776	ENSMUSG00000049036	Tmem121	2410008J05Rik|Hole	transmembrane protein 121	protein-coding	17.0	49.0	21.5	402.0	26.0	7.0	19.0	9.0
Merged-chr13-34076905-4	chr13	34076809	34077009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009450, intron 1 of 3)	intron (NM_009450, intron 1 of 3)	1099.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	65.0	90.0	49.5	803.5	134.0	51.0	77.0	56.0
Merged-chr7-25765265-4	chr7	25765166	25765366	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 14 of 19)	intron (NM_009465, intron 14 of 19)	-10507.0	NM_178089	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	22.5	36.5	40.0	251.0	62.5	27.5	21.5	23.5
Merged-chr5-29574472-4	chr5	29574375	29574575	+	926.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133907, intron 1 of 22)	RLTR45|LTR|ERVK	5233.0	NM_133907	100763.0	Mm.137746	NM_133907	ENSMUSG00000039000	Ube3c	AI853514|mKIAA0010	ubiquitin protein ligase E3C	protein-coding	31.0	33.5	27.0	223.5	35.0	8.5	12.5	13.5
Merged-chr11-3914293-4	chr11	3914173	3914373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153142, exon 1 of 2)	5' UTR (NM_153142, exon 1 of 2)	391.0	NM_153142	103710.0	Mm.171514	NM_153142	ENSMUSG00000048807	Slc35e4	A330108F03Rik|AI414849|AI536442	solute carrier family 35, member E4	protein-coding	50.0	58.5	43.5	591.5	67.5	32.5	46.5	30.0
Merged-chr1-165237023-4	chr1	165236922	165237122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145513)	promoter-TSS (NM_145513)	-62.0	NM_001357410	226591.0	Mm.21520	NM_145513	ENSMUSG00000040843	Tiprl	1810011K17Rik	TIP41, TOR signalling pathway regulator-like (S. cerevisiae)	protein-coding	304.5	435.0	285.5	4480.0	718.5	247.0	308.0	259.0
Merged-chr13-92861627-3	chr13	92861511	92861711	+	975.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16824.0	NM_001162945	382793.0	Mm.296770	NM_001162945	ENSMUSG00000021704	Mtx3	4930470O13Rik|AA409304|AI853833|AU067765|EG624619|Gm1194|Gm6514	metaxin 3	protein-coding	0.0	10.5	2.0	19.5	40.5	15.0	15.0	6.5
Merged-chr14-101640528-8	chr14	101640440	101640640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033132)	promoter-TSS (NM_001033132)	-69.0	NM_001168592	66200.0	Mm.250474	NM_001033132	ENSMUSG00000075486	Commd6	1110059J08Rik|1700063H17Rik	COMM domain containing 6	protein-coding	51.0	85.5	92.5	703.5	91.5	46.5	51.0	67.5
Merged-chr11-94370962-4	chr11	94370879	94371079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 8 of 30)	intron (NM_029600, intron 8 of 30)	21997.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	130.0	188.5	125.5	1584.5	160.0	76.5	75.0	58.5
Merged-chr11-115071958-4	chr11	115071943	115072143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-10004.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	62.0	99.5	102.0	674.0	107.5	64.0	58.5	72.5
Merged-chr5-19656163-4	chr5	19656069	19656269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 1 of 22)	intron (NM_001170746, intron 1 of 22)	-251349.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	55.0	55.5	102.0	1468.5	211.5	67.5	94.0	115.5
Merged-chr17-32336104-4	chr17	32335983	32336183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017476, intron 6 of 13)	intron (NM_017476, intron 6 of 13)	14494.0	NM_017476	54194.0	Mm.281005	NM_017476	ENSMUSG00000002625	Akap8l	HAP95|Nakap95	A kinase (PRKA) anchor protein 8-like	protein-coding	56.0	37.0	57.5	912.0	47.0	18.5	38.0	33.5
Merged-chr18-23749799-4	chr18	23749698	23749898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_126066)	TTS (NR_126066)	2507.0	NR_126066	100502834.0	Mm.213614	NR_126066	ENSMUSG00000086287	Gm15972	-	predicted gene 15972	ncRNA	70.0	79.5	43.5	1009.5	160.0	58.0	66.5	61.5
Merged-chr13-41932520-3	chr13	41932424	41932624	+	579.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66609.0	NR_033545	100038577.0	Mm.387093	NR_033545	ENSMUSG00000113856	Gm10790	-	predicted gene 10790	ncRNA	8.5	5.0	8.5	86.5	4.5	2.5	0.5	1.0
Merged-chr4_GL456216_random-16096-1	chr4_GL456216_random	15996	16196	+	1000.0	f0_c57.idr	5' UTR (NM_001033326, exon 1 of 7)	5' UTR (NM_001033326, exon 1 of 7)	215.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	500.5	260.5	238.0	206.5
Merged-chr8-109869145-4	chr8	109869048	109869248	+	950.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122594, intron 1 of 18)	CpG	545.0	NM_001122594	244650.0	Mm.23494	NM_001122594	ENSMUSG00000031732	Phlpp2	AI481772|C130044A18Rik|Phlppl	PH domain and leucine rich repeat protein phosphatase 2	protein-coding	14.0	24.5	21.5	208.5	38.0	11.0	9.5	23.5
Merged-chr7-30420422-4	chr7	30420316	30420516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011827)	promoter-TSS (NM_011827)	-562.0	NM_011827	23900.0	Mm.379050	NM_011827	ENSMUSG00000064109	Hcst	DAP10|KAP10	hematopoietic cell signal transducer	protein-coding	112.0	176.0	134.0	1250.5	295.5	103.5	136.0	126.5
Merged-chr19-32112116-4	chr19	32112071	32112271	+	906.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9031.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	13.5	12.5	12.0	55.0	14.5	6.0	7.5	7.0
Merged-chr2-117838604-4	chr2	117838509	117838709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040631, intron 2 of 5)	intron (NR_040631, intron 2 of 5)	16681.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	56.0	92.5	61.0	1482.0	149.5	61.0	72.0	71.0
Merged-chr5-117890843-4	chr5	117890710	117890910	+	980.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	C-rich|Low_complexity|Low_complexity	23971.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	2.5	10.0	15.5	84.0	28.5	8.5	7.0	11.5
Merged-chr19-46396837-4	chr19	46396736	46396936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015752)	promoter-TSS (NM_015752)	-60.0	NM_001025391	24069.0	Mm.41210	NM_015752	ENSMUSG00000025231	Sufu	Su(fu)	SUFU negative regulator of hedgehog signaling	protein-coding	121.5	217.0	99.0	1790.5	344.0	122.0	141.5	135.5
Merged-chr1-173978970-3	chr1	173978869	173979069	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008327, intron 1 of 6)	Lx3_Mus|LINE|L1	3875.0	NM_008327	26388.0	Mm.218770	NM_008327	ENSMUSG00000026535	Ifi202b	Ifbip-1|Ifi202|Ifi202a|p202	interferon activated gene 202B	protein-coding	40.0	58.5	29.5	396.5	1.5	0.5	5.0	1.0
Merged-chr15-54921142-3	chr15	54921036	54921236	+	863.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136077)	promoter-TSS (NM_001136077)	-990.0	NM_001285994	18606.0	Mm.250256	NM_015744	ENSMUSG00000022425	Enpp2	ATX|E-NPP 2|Npps2|PD-Ialpha|Pdnp2|lysoPLD	ectonucleotide pyrophosphatase/phosphodiesterase 2	protein-coding	8.0	7.5	4.5	82.5	16.0	7.0	8.5	4.5
Merged-chr4-134558045-3	chr4	134557913	134558113	+	976.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5847.0	NM_029100	74777.0	Mm.29773	NM_029100	ENSMUSG00000050989	Selenon	1110019I12Rik|AI414492|SelN|Sepn1	selenoprotein N	protein-coding	22.0	13.5	3.5	107.0	43.5	8.0	4.5	12.0
Merged-chr8-48110113-4	chr8	48110031	48110231	+	872.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027759, exon 1 of 6)	non-coding (NR_027759, exon 1 of 6)	118.0	NM_001161515	320685.0	Mm.121549	NM_178788	ENSMUSG00000031562	Dctd	6030466N05Rik	dCMP deaminase	protein-coding	16.0	17.0	30.0	316.5	30.0	15.5	11.0	18.0
Merged-chr16-94241348-4	chr16	94241247	94241447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	ORR1D2|LTR|ERVL-MaLR	48944.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	93.0	169.5	98.5	1685.0	274.0	101.0	122.5	79.0
Merged-chr3-9403019-4	chr3	9402928	9403128	+	889.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015499)	promoter-TSS (NR_015499)	-50.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	17.0	26.0	13.0	460.5	42.0	13.5	13.5	21.0
Merged-chr18-54987882-10	chr18	54987757	54987957	+	773.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175751, exon 2 of 10)	exon (NM_175751, exon 2 of 10)	2323.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	7.5	9.0	9.0	36.0	27.0	14.5	8.0	14.0
Merged-chr13-89539447-6	chr13	89539377	89539577	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1159.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	1.5	7.5	5.5	83.5	26.5	6.5	11.0	12.5
Merged-chr10-117859107-4	chr10	117858997	117859197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-13123.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	58.5	101.5	43.0	887.5	109.5	43.5	82.0	39.5
Merged-chr12-69331359-4	chr12	69331253	69331453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025441, intron 17 of 32)	B3|SINE|B2	25823.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	38.0	51.0	46.0	713.5	73.0	28.5	34.0	37.0
Merged-chr16-94519193-4	chr16	94519069	94519269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007834, intron 1 of 7)	MTE2b|LTR|ERVL-MaLR	7460.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	43.0	56.5	40.5	905.5	63.5	21.0	37.0	47.0
Merged-chr10-84440735-4	chr10	84440656	84440856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004363)	promoter-TSS (NM_001004363)	-285.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	90.0	86.0	54.5	1152.5	131.0	58.0	66.0	74.0
Merged-chr11-62281457-4	chr11	62281370	62281570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029704)	promoter-TSS (NM_029704)	-3.0	NM_028360	72795.0	Mm.489722	NM_028360	ENSMUSG00000042298	Ttc19	2010204O13Rik|2810460C24Rik|AI505442	tetratricopeptide repeat domain 19	protein-coding	77.0	127.0	53.0	980.0	197.5	90.0	72.5	77.5
Merged-chr9-106230153-4	chr9	106230032	106230232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7534.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	63.5	92.5	47.5	1044.0	208.5	79.5	75.5	83.0
Merged-chr5-21701679-6	chr5	21701582	21701782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359963)	promoter-TSS (NM_001359963)	-60.0	NM_001359965	242864.0	Mm.153292	NM_178728	ENSMUSG00000044968	Napepld	A530089G06|Mbldc1|NAPE-PLD	N-acyl phosphatidylethanolamine phospholipase D	protein-coding	121.0	219.0	271.0	2089.5	287.5	140.5	159.0	183.0
Merged-chr14-79535518-4	chr14	79535429	79535629	+	940.5125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	19855.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	11.5	27.5	13.0	291.5	33.5	10.0	19.5	19.0
Merged-chr16-45628640-4	chr16	45628549	45628749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145389, intron 5 of 5)	MTE2a|LTR|ERVL-MaLR	18209.0	NM_001159297	14525.0	Mm.4799	NM_008099	ENSMUSG00000022659	Gcsam	Gcet|Gcet2|M17|M17-L	germinal center associated, signaling and motility	protein-coding	31.5	49.0	21.0	436.0	135.0	45.5	72.5	36.5
Merged-chr17-70974328-4	chr17	70974236	70974436	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023402, exon 4 of 4)	exon (NM_023402, exon 4 of 4)	16180.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	41.5	72.5	49.5	201.0	142.5	52.5	53.0	48.0
Merged-chr13-37854231-10	chr13	37854109	37854309	+	962.1166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	26816.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	28.5	54.0	20.0	305.0	36.0	15.5	13.0	16.5
Merged-chr3-86604553-2	chr3	86604453	86604653	+	694.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001077687, intron 40 of 50)	intron (NM_001077687, intron 40 of 50)	-56270.0	NM_011839	23937.0	Mm.389466	NM_011839	ENSMUSG00000057777	Mab21l2	-	mab-21-like 2 (C. elegans)	protein-coding	5.0	4.5	5.0	75.0	5.0	3.0	4.0	7.5
Merged-chr19-5406906-3	chr19	5406809	5407009	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015545)	promoter-TSS (NR_015545)	94.0	NR_027938	74931.0	Mm.388511	NR_015545	ENSMUSG00000086938	4930481A15Rik	-	RIKEN cDNA 4930481A15 gene	ncRNA	0.5	0.0	1.0	4.5	47.0	17.5	21.0	36.0
Merged-chr14-61498962-2	chr14	61498862	61499062	+	662.333374	f1_balb.idr|f1_c57bl6.idr	intron (NR_045714, intron 2 of 2)	intron (NR_045714, intron 2 of 2)	6274.0	NR_045714	75349.0	Mm.233613	NR_045714	ENSMUSG00000115656	4930556J02Rik	-	RIKEN cDNA 4930556J02 gene	ncRNA	5.0	6.0	5.5	73.5	6.5	5.5	4.5	9.5
Merged-chr2-157279062-4	chr2	157278961	157279161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019642)	promoter-TSS (NM_019642)	-37.0	NM_001355163	20014.0	Mm.22130	NM_019642	ENSMUSG00000027642	Rpn2	1300012C06Rik|AV261018|Rpn-2	ribophorin II	protein-coding	109.0	148.0	90.0	1413.5	231.5	111.5	122.0	109.5
Merged-chr14-73552803-4	chr14	73552698	73552898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361638)	promoter-TSS (NM_001361638)	12.0	NM_001361638	20916.0	Mm.38951	NM_011506	ENSMUSG00000022110	Sucla2	4930547K18Rik|A-SCS|SCS-betaA	succinate-Coenzyme A ligase, ADP-forming, beta subunit	protein-coding	63.0	66.5	37.0	682.5	124.0	62.5	70.5	58.5
Merged-chr7-89248288-4	chr7	89248165	89248365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 4 of 14)	intron (NM_001360746, intron 4 of 14)	90522.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	65.5	53.5	43.0	851.5	98.0	38.0	71.5	56.0
Merged-chr9-97534560-3	chr9	97534476	97534676	+	978.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022319, intron 6 of 17)	intron (NM_022319, intron 6 of 17)	-164618.0	NM_030219	78911.0	Mm.108347	NM_030219	ENSMUSG00000032451	Trim42	4930486B16Rik	tripartite motif-containing 42	protein-coding	14.5	7.5	4.5	95.5	34.0	7.0	12.0	7.5
Merged-chr11-116626566-4	chr11	116626457	116626657	+	864.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	462.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	11.5	14.0	24.0	269.5	29.5	7.0	14.0	17.0
Merged-chr16-21642237-4	chr16	21642169	21642369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 46 of 46)	intron (NM_001081366, intron 46 of 46)	52396.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	269.5	465.5	276.0	4112.5	679.0	257.0	347.0	259.5
Merged-chr4-9122821-4	chr4	9122713	9122913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5|DNA|TcMar-Tigger	-146480.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	96.5	135.0	107.0	1444.5	272.0	95.5	98.0	102.0
Merged-chr6-28420991-4	chr6	28420892	28421092	+	902.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028900, exon 1 of 2)	exon (NM_028900, exon 1 of 2)	732.0	NM_028900	74375.0	Mm.332950	NM_028900	ENSMUSG00000029708	Gcc1	4932417P04Rik	golgi coiled coil 1	protein-coding	10.0	16.0	8.5	220.0	49.5	20.0	19.0	18.0
Merged-chr8-11001350-4	chr8	11001238	11001438	+	932.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081212, intron 1 of 1)	intron (NM_001081212, intron 1 of 1)	-6512.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	20.0	22.0	20.0	324.0	38.0	11.5	16.0	14.0
Merged-chr2-163662875-4	chr2	163662766	163662966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 2 of 4)	B3|SINE|B2	4408.0	NM_001164053	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	47.0	53.0	36.5	537.5	103.0	34.0	37.0	32.5
Merged-chr13-5864542-7	chr13	5864436	5864636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 1 of 3)	intron (NM_011803, intron 1 of 3)	3047.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	56.5	73.0	22.0	570.5	129.5	74.0	38.5	46.0
Merged-chr13-56703001-4	chr13	56702948	56703148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164042)	promoter-TSS (NM_001164042)	-4.0	NM_001164041	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	61.5	126.0	49.5	721.5	168.0	57.5	89.0	68.5
Merged-chr4-19569667-2	chr4	19569573	19569773	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027769, intron 1 of 15)	CpG	435.0	NM_027769	70568.0	Mm.38390	NM_027769	ENSMUSG00000028228	Cpne3	5430428M23Rik|5730450C07Rik|C85108|CPN3	copine III	protein-coding	11.5	12.5	13.5	122.5	29.0	12.0	14.0	22.0
Merged-chr6-42929207-4	chr6	42929118	42929318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3A1|LTR|ERVK	1985.0	NM_146295	258292.0	Mm.222992	NM_146295	ENSMUSG00000073111	Olfr446	MOR261-12	olfactory receptor 446	protein-coding	38.0	74.0	44.0	406.0	145.0	39.5	47.0	34.0
Merged-chr16-57555912-4	chr16	57555825	57556025	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	6683.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	14.5	14.0	21.0	545.5	46.5	17.0	20.0	17.5
Merged-chr9-120582372-3	chr9	120582262	120582462	+	856.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5031.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	11.5	6.0	9.0	69.0	18.0	4.5	1.0	11.5
Merged-chr15-99457220-4	chr15	99457098	99457298	+	850.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001884, intron 1 of 12)	CpG	550.0	NM_001001884	380969.0	Mm.22915	NM_001001884	ENSMUSG00000023009	Nckap5l	C230021P08Rik|Cep169	NCK-associated protein 5-like	protein-coding	11.5	15.0	11.5	120.0	26.0	9.5	8.0	14.5
Merged-chr17-34366703-2	chr17	34366611	34366811	+	890.333374	f0_c57.idr|f1_c57bl6.idr	intron (NM_079835, intron 8 of 8)	intron (NM_079835, intron 8 of 8)	-10421.0	NM_001111094	100038862.0	Mm.440426	NM_201405	ENSMUSG00000062638	Btnl1	Btnl3|Gm316|Gm33	butyrophilin-like 1	protein-coding	0.0	0.5	0.5	7.5	41.0	6.5	13.5	11.0
Merged-chr16-57431485-3	chr16	57431406	57431606	+	866.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	78229.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	2.0	0.0	0.0	14.0	44.5	11.0	15.5	6.0
Merged-chr1-75210815-4	chr1	75210707	75210907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011494)	promoter-TSS (NM_011494)	-22.0	NR_102731	20872.0	Mm.1155	NM_011494	ENSMUSG00000026201	Stk16	EDPK|Krct|MPSK|PKL12|TSF-1	serine/threonine kinase 16	protein-coding	100.5	156.0	68.0	1524.5	316.0	124.5	156.0	146.5
Merged-chr8-119857968-4	chr8	119857861	119858061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4344.0	NM_146219	234796.0	Mm.86446	NM_146219	ENSMUSG00000031828	Klhl36	-	kelch-like 36	protein-coding	31.0	50.0	31.5	719.0	81.0	33.5	43.0	53.0
Merged-chr12-52701351-3	chr12	52701251	52701451	+	986.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198111, intron 1 of 13)	intron (NM_198111, intron 1 of 13)	1968.0	NM_198111	238161.0	Mm.310822	NM_198111	ENSMUSG00000061603	Akap6	AI482140|Akapalpha|Akapbeta|PRKA	A kinase (PRKA) anchor protein 6	protein-coding	10.0	22.0	17.0	314.5	12.5	8.5	7.5	8.0
Merged-chr10-128779675-4	chr10	128779575	128779775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11235.0	NM_001164197	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	185.5	255.5	185.0	2384.0	441.0	189.0	173.0	181.0
Merged-chr16-52453190-4	chr16	52453091	52453291	+	983.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331110)	promoter-TSS (NM_001331110)	-110.0	NM_001331110	11658.0	Mm.288282	NM_009655	ENSMUSG00000022636	Alcam	AI853494|BEN|CD166|DM-GRASP|MuSC|SC1	activated leukocyte cell adhesion molecule	protein-coding	49.5	58.0	83.0	794.0	57.5	19.0	35.0	15.5
Merged-chr9-9238501-3	chr9	9238400	9238600	+	947.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045754, intron 2 of 3)	intron (NR_045754, intron 2 of 3)	513.0	NM_027823	71544.0	Mm.334955	NM_027823	ENSMUSG00000050730	Arhgap42	9030420J04Rik|BE136619	Rho GTPase activating protein 42	protein-coding	4.0	14.5	13.5	175.5	24.5	8.5	7.0	9.0
Merged-chr7-43525556-2	chr7	43525456	43525656	+	756.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	7615.0	NM_001111058	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	5.5	6.0	1.0	10.5	17.5	9.0	11.0	4.5
Merged-chr14-55386972-3	chr14	55386879	55387079	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91779.0	NM_001037938	28200.0	Mm.27427	NM_030686	ENSMUSG00000022210	Dhrs4	AI043103|AI790593|CR|D14Ucla2|NDRD|PHCR|PSCD|RRD|mouNRDR	dehydrogenase/reductase (SDR family) member 4	protein-coding	50.5	38.0	53.5	718.5	8.0	1.0	3.5	4.5
Merged-chr15-64181436-4	chr15	64181332	64181532	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	-120984.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	6.0	6.0	10.5	222.5	21.5	9.5	13.5	12.0
Merged-chr11-82870263-4	chr11	82870162	82870362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164569, intron 1 of 7)	intron (NM_001164569, intron 1 of 7)	482.0	NM_001164570	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	104.0	164.0	89.0	1050.0	271.0	92.5	103.5	71.0
Merged-chr14-46808114-4	chr14	46808003	46808203	+	937.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022023)	TTS (NM_022023)	14139.0	NM_022023	63985.0	Mm.87312	NM_022023	ENSMUSG00000062014	Gmfb	3110001H22Rik|3110001O16Rik|AI851627|C79176|D14Ertd630e	glia maturation factor, beta	protein-coding	14.0	20.5	19.5	259.5	32.5	10.5	10.0	17.5
Merged-chr4-155489433-4	chr4	155489351	155489551	+	852.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1910.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	6.5	9.5	9.0	96.5	24.0	10.0	12.0	19.0
Merged-chr1-164184719-4	chr1	164184613	164184813	+	879.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007976, intron 9 of 24)	intron (NM_007976, intron 9 of 24)	-32496.0	NR_037987	100503816.0	Mm.398579	NR_037987	ENSMUSG00000086593	Gm16548	-	predicted gene 16548	ncRNA	13.5	12.5	13.0	193.5	32.5	8.0	11.0	4.5
Merged-chr11-97703282-4	chr11	97703183	97703383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011971)	promoter-TSS (NM_011971)	-151.0	NM_011971	26446.0	Mm.21874	NM_011971	ENSMUSG00000069744	Psmb3	AL033320|C10-II	proteasome (prosome, macropain) subunit, beta type 3	protein-coding	208.0	359.0	158.0	2091.0	484.5	186.0	134.0	160.0
Merged-chr4-126181324-3	chr4	126181226	126181426	+	829.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356455, intron 3 of 11)	intron (NM_001356455, intron 3 of 11)	-17985.0	NM_001162533	66938.0	Mm.29813	NM_025856	ENSMUSG00000073758	Sh3d21	1700029G01Rik|AU019788	SH3 domain containing 21	protein-coding	6.5	9.5	10.5	79.0	21.5	9.5	10.5	14.5
Merged-chr17-12036341-3	chr17	12036241	12036441	+	703.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016694, intron 10 of 11)	intron (NM_016694, intron 10 of 11)	-82943.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	5.0	12.0	6.0	78.0	24.0	10.0	7.5	3.0
Merged-chr3-59228909-4	chr3	59228813	59229013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 16 of 43)	intron (NM_177855, intron 16 of 43)	-18031.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	93.5	150.0	149.0	1428.0	184.5	52.5	64.0	64.5
Merged-chr7-4792862-4	chr7	4792735	4792935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009081)	promoter-TSS (NM_009081)	-130.0	NM_009081	19943.0	Mm.379002	NM_009081	ENSMUSG00000030432	Rpl28	D7Wsu21e	ribosomal protein L28	protein-coding	118.0	182.0	100.0	1318.5	335.5	135.0	161.5	119.5
Merged-chr3-89214883-1	chr3	89214783	89214983	+	645.0	f0_balb.idr	promoter-TSS (NM_013691)	promoter-TSS (NM_013691)	-297.0	NM_013691	21827.0	Mm.2114	NM_013691	ENSMUSG00000028047	Thbs3	TSP3|Thbs-3	thrombospondin 3	protein-coding	11.0	11.0	6.0	97.5	25.0	5.0	8.0	9.0
Merged-chr15-34237531-1	chr15	34237431	34237631	+	622.0	f0_balb.idr	promoter-TSS (NM_033521)	promoter-TSS (NM_033521)	-495.0	NM_033521	114128.0	Mm.197518	NM_033521	ENSMUSG00000022257	Laptm4b	C330023P13Rik|LAPTM4beta	lysosomal-associated protein transmembrane 4B	protein-coding	14.0	6.5	8.5	92.0	6.5	9.0	1.5	9.0
Merged-chr3-9033970-4	chr3	9033864	9034064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28000.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	89.0	77.5	90.5	1214.0	228.5	66.5	140.0	139.5
Merged-chr3-121544941-3	chr3	121544873	121545073	+	772.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12629.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	3.0	2.5	5.0	139.0	10.0	7.0	7.0	9.5
Merged-chr10-96001122-4	chr10	96001024	96001224	+	927.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001932, intron 9 of 28)	intron (NM_001001932, intron 9 of 28)	60461.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	12.0	32.5	20.0	312.5	37.5	8.5	32.5	12.5
Merged-chr13-81051694-4	chr13	81051581	81051781	+	918.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	intron (NR_015587, intron 1 of 1)	87607.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	11.0	16.5	15.5	271.0	19.5	10.5	15.0	14.5
Merged-chr8-47906305-3	chr8	47906198	47906398	+	723.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 2 of 22)	intron (NM_133791, intron 2 of 22)	81816.0	NM_029383	75677.0	Mm.390033	NM_029383	ENSMUSG00000038064	Cldn22	2210404A22Rik|5330431C14Rik|9530051B05Rik	claudin 22	protein-coding	8.5	14.5	9.0	119.0	7.5	2.0	8.0	1.5
Merged-chr2-60283313-7	chr2	60283186	60283386	+	927.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025422, intron 1 of 4)	intron (NM_025422, intron 1 of 4)	1198.0	NM_025422	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	4.0	25.5	8.5	78.5	33.0	18.0	8.0	17.5
Merged-chr13-93977286-5	chr13	93977103	93977303	+	898.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-80593.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	8.0	9.0	14.5	148.0	9.0	2.0	4.5	10.5
Merged-chr5-63811976-4	chr5	63811886	63812086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029554)	promoter-TSS (NM_029554)	-509.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	20.0	34.0	13.0	382.0	68.5	31.5	22.5	28.0
Merged-chr19-55743146-4	chr19	55743062	55743262	+	895.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001331147, exon 3 of 14)	exon (NM_001331147, exon 3 of 14)	1352.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	12.5	26.0	13.0	81.5	25.0	20.5	12.5	16.5
Merged-chr8-35104908-2	chr8	35104826	35105026	+	818.599976	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-139236.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	11.0	13.0	8.5	121.0	7.5	5.5	9.5	8.0
Merged-chr13-85505476-2	chr13	85505376	85505576	+	685.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-215990.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	4.5	7.0	10.0	61.0	16.5	8.5	1.0	1.0
Merged-chr2-61514208-3	chr2	61514103	61514303	+	959.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64383.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	15.0	14.0	20.0	286.0	7.0	3.0	7.5	13.0
Merged-chr7-141447651-4	chr7	141447545	141447745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360657)	promoter-TSS (NM_001360657)	-6.0	NM_026020	67186.0	Mm.380435	NM_026020	ENSMUSG00000025508	Rplp2	2700049I22Rik	ribosomal protein, large P2	protein-coding	72.0	107.5	44.0	813.5	191.0	59.5	66.5	61.5
Merged-chr11-82764309-4	chr11	82764208	82764408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025884)	promoter-TSS (NM_025884)	13.0	NM_009839	12467.0	Mm.4126	NM_009839	ENSMUSG00000020698	Cct6b	CCT-zeta-2|CCTzeta-2|Cctz-2|TCP-1-zeta-2	chaperonin containing Tcp1, subunit 6b (zeta)	protein-coding	76.0	120.0	55.0	1229.0	230.5	82.0	97.0	79.0
Merged-chr1-164440361-3	chr1	164440253	164440453	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009721, intron 4 of 5)	intron (NM_009721, intron 4 of 5)	18002.0	NM_009721	11931.0	Mm.4550	NM_009721	ENSMUSG00000026576	Atp1b1	Atp4b|Atpb|Atpb-1|NKbeta1	ATPase, Na+/K+ transporting, beta 1 polypeptide	protein-coding	7.5	9.0	18.5	465.0	12.5	10.0	18.0	9.5
Merged-chr11-85003669-4	chr11	85003559	85003759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029934, intron 29 of 33)	intron (NM_001029934, intron 29 of 33)	45905.0	NM_007607	12351.0	Mm.1641	NM_007607	ENSMUSG00000000805	Car4	AW456718|Ca4	carbonic anhydrase 4	protein-coding	135.5	204.0	118.5	1812.0	275.5	90.5	111.5	135.5
Merged-chr6-83322133-4	chr6	83322028	83322228	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-3911.0	NM_145571	232157.0	Mm.29500	NM_145571	ENSMUSG00000043131	Mob1a	4022402H07Rik|MOB1|MOB4B|Mobk1b|Mobkl1b	MOB kinase activator 1A	protein-coding	11.5	52.5	37.0	310.0	90.0	17.5	41.5	22.0
Merged-chr1-54438963-4	chr1	54438860	54439060	+	983.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033194)	promoter-TSS (NM_001033194)	66.0	NM_001033194	98488.0	Mm.25856	NM_001033194	ENSMUSG00000041303	Gtf3c3	TF3C-gamma|TFIIIC102	general transcription factor IIIC, polypeptide 3	protein-coding	14.0	25.5	20.0	228.0	38.0	10.5	20.0	6.0
Merged-chr2-68784899-4	chr2	68784785	68784985	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76556.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	20.5	26.5	18.5	365.5	54.5	18.5	48.5	30.5
Merged-chr6-86472402-4	chr6	86472320	86472520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131125, exon 5 of 5)	non-coding (NR_131125, exon 5 of 5)	8410.0	NR_131125	320486.0	Mm.391625	NR_131125	ENSMUSG00000085589	A430078I02Rik	T25621	RIKEN cDNA A430078I02 gene	ncRNA	187.5	332.5	154.0	2272.5	512.5	227.0	178.5	212.0
Merged-chr13-6228521-3	chr13	6228414	6228614	+	873.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-319643.0	NM_145131	69617.0	Mm.41933	NM_145131	ENSMUSG00000021193	Pitrm1	2310012C15Rik|AA410010|MP-1|MP1|Ntup1|PreP|mKIAA1104	pitrilysin metallepetidase 1	protein-coding	19.5	16.0	23.0	290.5	16.0	1.0	9.5	8.0
Merged-chr9-48816968-4	chr9	48816890	48817090	+	869.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 2 of 6)	MIR3|SINE|MIR	18955.0	NM_001033324	235320.0	Mm.457803	NM_001033324	ENSMUSG00000066687	Zbtb16	AI467657|PLZF|Zfp145|lu	zinc finger and BTB domain containing 16	protein-coding	4.5	6.5	4.0	88.5	40.0	12.0	7.0	13.5
Merged-chr8-92853305-4	chr8	92853206	92853406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008610, exon 13 of 13)	3' UTR (NM_008610, exon 13 of 13)	-2027.0	NM_173014	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	80.5	73.0	89.5	1268.0	139.5	62.5	110.5	64.0
Merged-chr2-130664324-4	chr2	130664324	130664524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029832, intron 1 of 8)	CpG	221.0	NM_029832	77006.0	Mm.440063	NM_029832	ENSMUSG00000068290	Ddrgk1	1110001I20Rik|2600009E05Rik|AI326138|Ufbp1	DDRGK domain containing 1	protein-coding	63.0	100.0	72.0	636.5	142.0	51.5	78.5	59.0
Merged-chr3-22090559-4	chr3	22090477	22090677	+	832.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	13925.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	9.0	9.5	11.5	167.0	32.5	12.0	7.0	7.5
Merged-chr11-94692681-4	chr11	94692545	94692745	+	767.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	11854.0	NM_001007584	432589.0	Mm.342314	NM_001007584	ENSMUSG00000056008	Gm11541	-	predicted gene 11541	protein-coding	9.0	20.0	11.0	76.0	19.5	10.5	12.0	16.0
Merged-chr8-36347132-4	chr8	36347024	36347224	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97608.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	30.0	36.5	21.0	391.5	72.0	14.5	46.5	28.5
Merged-chr18-34624162-4	chr18	34624068	34624268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166406)	promoter-TSS (NM_001166406)	-456.0	NM_001166407	19348.0	Mm.258846	NM_009004	ENSMUSG00000003779	Kif20a	AA415432|Rab6kifl	kinesin family member 20A	protein-coding	29.0	27.5	19.5	258.0	55.0	16.5	33.5	30.5
Merged-chr6-35539864-4	chr6	35539773	35539973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008098)	promoter-TSS (NM_008098)	15.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	221.5	303.0	180.5	3383.0	533.0	175.0	331.5	238.5
Merged-chr15-102987631-3	chr15	102987528	102987728	+	864.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2911.0	NM_010466	15426.0	Mm.6167	NM_010466	ENSMUSG00000001657	Hoxc8	D130011F21Rik|Hox-3.1	homeobox C8	protein-coding	3.0	17.0	3.0	119.0	20.0	5.0	6.0	9.0
Merged-chr11-98018947-4	chr11	98018838	98019038	+	872.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159320)	promoter-TSS (NM_001159320)	-566.0	NM_001159320	12295.0	Mm.41252	NM_031173	ENSMUSG00000020882	Cacnb1	CAB1|Cchb1|Cchlb1	calcium channel, voltage-dependent, beta 1 subunit	protein-coding	5.0	12.5	3.5	92.5	31.5	14.5	10.5	16.0
Merged-chr3-95669019-7	chr3	95668912	95669112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	10291.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	30.0	64.5	21.0	267.5	59.0	31.0	19.0	24.0
Merged-chr6-34675095-4	chr6	34674996	34675196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 2 of 13)	ORR1E|LTR|ERVL-MaLR	-34348.0	NM_145575	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	68.0	105.0	47.5	1042.5	158.5	89.5	86.5	80.0
Merged-chr8-84687856-4	chr8	84687756	84687956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025788)	promoter-TSS (NM_025788)	6.0	NM_025788	66830.0	Mm.289698	NM_025788	ENSMUSG00000001910	Nacc1	2010001H03Rik|4930511N13Rik|Btbd14b|Nac1	nucleus accumbens associated 1, BEN and BTB (POZ) domain containing	protein-coding	44.0	83.0	43.5	596.5	103.5	25.5	37.5	43.5
Merged-chr8-77444287-2	chr8	77444187	77444387	+	945.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 3 of 22)	intron (NM_030113, intron 3 of 22)	-72769.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	8.5	4.5	4.5	57.5	8.0	5.5	1.5	3.0
Merged-chr8-36252189-2	chr8	36252092	36252292	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2676.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	11.0	11.0	11.5	139.0	4.5	5.5	0.0	2.5
Merged-chr1-9892756-2	chr1	9892672	9892872	+	887.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133220, intron 17 of 17)	B4|SINE|B4	-15866.0	NM_177722	240697.0	Mm.259800	NM_177722	ENSMUSG00000046101	Mcmdc2	6030422M02Rik	minichromosome maintenance domain containing 2	protein-coding	6.0	6.5	6.0	179.5	14.5	4.0	3.5	6.5
Merged-chr5-125158330-1	chr5	125158230	125158430	+	658.0	f0_balb.idr	intron (NM_001253905, intron 1 of 42)	intron (NM_001253905, intron 1 of 42)	20884.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	8.0	10.0	5.0	117.5	5.0	0.5	0.5	0.0
Merged-chr7-25706994-4	chr7	25706898	25707098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12055.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	167.5	200.0	225.5	2662.0	310.5	139.0	153.0	158.0
Merged-chr7-24975410-4	chr7	24975288	24975488	+	797.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2660.0	NM_010261	14470.0	Mm.22473	NM_010261	ENSMUSG00000003380	Rabac1	2310040I06Rik|Gbpap1|PRA1|prenylin	Rab acceptor 1 (prenylated)	protein-coding	18.5	20.0	8.0	120.5	20.5	6.0	13.5	18.0
Merged-chr8-121116608-3	chr8	121116512	121116712	+	753.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013519, exon 1 of 1)	5' UTR (NM_013519, exon 1 of 1)	441.0	NM_013519	14234.0	Mm.14092	NM_013519	ENSMUSG00000046714	Foxc2	Fkh14|Hfhbf3|MFH-1|Mfh1	forkhead box C2	protein-coding	5.5	10.0	6.0	93.0	6.5	4.5	3.5	11.5
Merged-chr18-80204731-4	chr18	80204642	80204842	+	776.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-2056.0	NM_001038608	27366.0	Mm.172411	NM_025299	ENSMUSG00000057130	Txnl4a	D18Wsu98e|Dim1|Txnl4|U5-15kD|U5-15kDa	thioredoxin-like 4A	protein-coding	10.5	6.0	3.5	111.5	28.0	11.0	16.0	14.5
Merged-chr14-76051399-3	chr14	76051296	76051496	+	856.638916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40531.0	NM_026816	68705.0	Mm.20415	NM_026816	ENSMUSG00000067995	Gtf2f2	1110031C13Rik|AI326315	general transcription factor IIF, polypeptide 2	protein-coding	9.0	5.5	8.5	42.5	22.0	10.5	14.0	17.5
Merged-chr1-36737499-3	chr1	36737392	36737592	+	807.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040290, intron 5 of 8)	intron (NR_040290, intron 5 of 8)	22954.0	NR_040290	71166.0	Mm.157049	NR_040290	ENSMUSG00000102416	4933424G06Rik	1700104I15Rik	RIKEN cDNA 4933424G06 gene	ncRNA	5.5	16.0	6.5	112.0	16.5	7.0	14.5	9.5
Merged-chr10-77537857-3	chr10	77537778	77537978	+	965.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 1 of 15)	intron (NM_008404, intron 1 of 15)	7530.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	6.0	7.5	15.0	111.5	8.5	5.0	3.5	3.5
Merged-chr2-60285385-4	chr2	60285259	60285459	+	840.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290660)	promoter-TSS (NM_001290660)	-875.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	11.5	9.0	18.5	301.0	25.0	8.5	6.5	13.0
Merged-chr11-29808119-2	chr11	29808019	29808219	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 17 of 41)	intron (NM_146016, intron 17 of 41)	17549.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	5.0	4.5	8.5	291.5	14.5	2.5	9.0	10.0
Merged-chr11-103400214-4	chr11	103400103	103400303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 2 of 11)	L1MB7|LINE|L1	12461.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	67.5	150.5	58.0	874.0	244.5	95.5	64.5	84.0
Merged-chr4-142082916-4	chr4	142082812	142083012	+	923.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-1386.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	22.0	20.0	10.5	271.5	60.0	11.5	15.5	22.5
Merged-chr1-16667852-1	chr1	16667752	16667952	+	554.0	f0_c57.idr	intron (NM_027415, intron 2 of 2)	Lx9|LINE|L1	2661.0	NM_026392	70397.0	Mm.194225	NM_026392	ENSMUSG00000025940	Tmem70	1110020A09Rik|2210416J16Rik	transmembrane protein 70	protein-coding	3.0	4.5	0.0	77.5	26.5	9.0	6.0	7.0
Merged-chr1-36473457-4	chr1	36473371	36473571	+	910.7625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033570, intron 1 of 6)	intron (NM_033570, intron 1 of 6)	1874.0	NM_033570	94220.0	Mm.422638	NM_033570	ENSMUSG00000037408	Cnnm4	5430430O18Rik|Acdp4	cyclin M4	protein-coding	8.0	21.0	14.5	201.5	41.0	12.0	19.5	15.0
Merged-chr1-89302720-3	chr1	89302606	89302806	+	790.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103427.0	NR_040482	77331.0	Mm.374962	NR_040482	ENSMUSG00000099938	C030007H22Rik	-	RIKEN cDNA C030007H22 gene	ncRNA	10.5	13.0	11.5	192.0	5.5	5.5	6.5	6.5
Merged-chr2-22744897-4	chr2	22744807	22745007	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-29420.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	17.5	29.5	16.0	202.0	34.0	20.5	14.5	39.5
Merged-chr1-136131253-4	chr1	136131134	136131334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046167)	promoter-TSS (NR_046167)	-51.0	NR_046167	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	118.0	143.0	144.0	1910.0	300.5	114.5	138.5	98.0
Merged-chr17-13761455-4	chr17	13761329	13761529	+	912.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022311)	promoter-TSS (NM_022311)	-35.0	NM_022311	21646.0	Mm.486358	NM_022311	ENSMUSG00000038347	Tcte2	AI429268|Tcte-2	t-complex-associated testis expressed 2	protein-coding	5.5	12.0	8.5	112.0	32.0	16.0	12.0	16.5
Merged-chr3-51789015-4	chr3	51788934	51789134	+	848.1845089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	127855.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	8.5	6.0	10.0	199.0	20.0	11.0	10.5	10.0
Merged-chr14-50836371-2	chr14	50836271	50836471	+	710.166687	f1_balb.idr|f1_c57bl6.idr	exon (NM_009351, exon 40 of 55)	exon (NM_009351, exon 40 of 55)	28455.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	1.0	3.0	0.5	7.0	7.5	7.5	5.0	10.0
Merged-chr13-99006784-4	chr13	99006707	99006907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22242.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	69.0	46.5	72.0	701.0	134.5	55.0	59.0	73.0
Merged-chr3-75298081-3	chr3	75297993	75298193	+	862.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28015.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	12.5	5.5	7.5	96.5	12.0	2.5	2.5	4.0
Merged-chr8-11271009-1	chr8	11270909	11271109	+	546.0	f0_balb.idr	intron (NM_009931, intron 1 of 51)	intron (NM_009931, intron 1 of 51)	-41796.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	4.5	5.0	8.0	67.0	1.0	1.5	6.0	0.0
Merged-chr5-110780045-3	chr5	110779907	110780107	+	920.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152254)	TTS (NR_152254)	589.0	NM_019700	56361.0	Mm.23528	NM_019700	ENSMUSG00000029507	Pus1	A730013B20Rik|MPUS1|mPus1p	pseudouridine synthase 1	protein-coding	12.5	6.5	7.5	77.0	16.0	5.0	6.0	17.0
Merged-chr12-55518121-2	chr12	55518021	55518221	+	967.8333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25474.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	4.0	6.5	2.5	104.5	12.5	7.0	4.5	15.5
Merged-chr5-143629900-3	chr5	143629793	143629993	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011182, intron 1 of 12)	intron (NM_011182, intron 1 of 12)	7446.0	NM_011182	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	11.5	5.5	4.5	211.5	20.0	4.0	9.5	6.0
Merged-chr17-12992469-4	chr17	12992365	12992565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175394)	promoter-TSS (NM_175394)	74.0	NM_175394	60532.0	Mm.275521	NM_175394	ENSMUSG00000060475	Wtap	2810408K05Rik|9430038B09Rik	Wilms tumour 1-associating protein	protein-coding	118.0	225.0	256.5	1317.0	309.5	137.0	150.0	129.5
Merged-chr8-88651377-4	chr8	88651273	88651473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 1 of 12)	MTB|LTR|ERVL-MaLR	4026.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	159.5	232.0	107.0	896.0	312.5	104.0	102.0	81.0
Merged-chr6-106797594-1	chr6	106797494	106797694	+	564.0	f0_balb.idr	intron (NM_175357, intron 1 of 10)	MER20|DNA|hAT-Charlie	2493.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	5.0	17.5	12.5	43.5	21.5	4.5	4.0	0.5
Merged-chr6-34964701-3	chr6	34964604	34964804	+	753.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025573, intron 2 of 7)	intron (NM_001025573, intron 2 of 7)	13295.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	10.0	10.5	12.0	64.5	6.5	8.5	4.5	12.5
Merged-chr6-31216749-4	chr6	31216654	31216854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	CpG	1720.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	168.5	253.5	147.0	2251.5	393.5	152.0	186.5	211.5
Merged-chr2-156857506-4	chr2	156857423	156857623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015591, intron 1 of 2)	intron (NR_015591, intron 1 of 2)	5422.0	NR_015591	74487.0	Mm.490465	NR_015591	ENSMUSG00000085741	5430405H02Rik	2610307N17Rik	RIKEN cDNA 5430405H02 gene	ncRNA	39.5	44.0	26.5	581.5	63.5	31.0	44.0	37.5
Merged-chr15-84325959-4	chr15	84325796	84325996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162500)	promoter-TSS (NM_001162500)	-223.0	NM_001162500	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	45.0	52.5	64.0	466.5	86.0	35.0	29.0	45.0
Merged-chr10-127587895-4	chr10	127587800	127588000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 15 of 88)	intron (NM_008512, intron 15 of 88)	33248.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	94.5	105.5	113.0	1384.5	159.5	48.5	71.0	68.0
Merged-chr5-134520317-4	chr5	134520235	134520435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 3 of 15)	intron (NM_001039162, intron 3 of 15)	32099.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	29.0	73.5	31.0	550.0	100.5	29.0	50.5	46.0
Merged-chr2-174564062-4	chr2	174563963	174564163	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79471.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	13.0	12.5	13.5	234.5	42.0	8.0	10.5	23.0
Merged-chr3-123168964-1	chr3	123168864	123169064	+	540.0	f0_c57.idr	intron (NM_080451, intron 1 of 4)	intron (NM_080451, intron 1 of 4)	67185.0	NM_080451	118449.0	Mm.34359	NM_080451	ENSMUSG00000050315	Synpo2	1110069I04Rik|2310068J10Rik|9530006G20Rik|AI848603|Myo	synaptopodin 2	protein-coding	5.5	7.5	3.5	42.0	15.5	5.5	16.5	11.5
Merged-chr7-142356286-3	chr7	142356191	142356391	+	793.955566	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347541, intron 2 of 2)	intron (NM_001347541, intron 2 of 2)	15968.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	5.5	1.0	2.0	95.0	11.0	15.5	15.5	5.0
Merged-chr7-4556911-4	chr7	4556812	4557012	+	871.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207270, intron 12 of 19)	intron (NM_207270, intron 12 of 19)	-9371.0	NM_001360422	53420.0	Mm.358663	NM_016908	ENSMUSG00000004961	Syt5	SytV	synaptotagmin V	protein-coding	9.5	11.0	15.5	111.0	53.0	10.0	11.5	7.5
Merged-chr17-33920902-4	chr17	33920808	33921008	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025313, intron 3 of 7)	intron (NM_001025313, intron 3 of 7)	1430.0	NM_009318	21356.0	Mm.154457	NM_009318	ENSMUSG00000024308	Tapbp	D17Wsu91e|TPN	TAP binding protein	protein-coding	10.0	31.5	8.5	226.0	61.5	18.5	21.0	10.0
Merged-chr1-151002125-4	chr1	151002029	151002229	+	866.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-8694.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	8.0	10.5	15.5	184.5	20.0	10.0	4.0	13.0
Merged-chr12-100089452-4	chr12	100089323	100089523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22908.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	102.0	126.5	150.0	1844.0	150.5	70.0	136.0	109.5
Merged-chr12-51848073-4	chr12	51847917	51848117	+	876.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18481.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	12.5	22.0	9.0	176.0	21.0	1.0	6.0	5.5
Merged-chr7-110768614-4	chr7	110768575	110768775	+	809.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276301, intron 1 of 14)	CpG	469.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	10.0	5.0	16.5	96.0	14.0	14.5	12.0	16.0
Merged-chr15-98985480-2	chr15	98985380	98985580	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045991)	promoter-TSS (NR_045991)	-485.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	23.0	30.5	21.0	149.5	58.0	25.0	22.5	25.0
Merged-chr10-127288508-3	chr10	127288395	127288595	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347171, intron 1 of 12)	intron (NM_001347171, intron 1 of 12)	523.0	NM_001347171	110962.0	Mm.372826	NM_033072	ENSMUSG00000025409	Mbd6	D10Wsu93e	methyl-CpG binding domain protein 6	protein-coding	23.0	49.0	36.0	459.0	81.5	27.5	36.5	58.5
Merged-chr12-71015829-4	chr12	71015710	71015910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045055)	promoter-TSS (NR_045055)	13.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	358.5	574.0	383.5	4946.5	873.5	412.5	399.0	324.0
Merged-chr11-78887198-4	chr11	78887079	78887279	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33608.0	NM_010927	18126.0	Mm.2893	NM_010927	ENSMUSG00000020826	Nos2	MAC-NOS|NOS-II|Nos-2|Nos2a|i-NOS|iNOS	nitric oxide synthase 2, inducible	protein-coding	27.0	84.5	31.5	204.5	142.0	39.0	35.5	19.5
Merged-chr7-97108310-3	chr7	97108205	97108405	+	922.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	26554.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	10.0	12.0	10.5	298.0	9.0	3.0	6.5	13.5
Merged-chr9-118512852-3	chr9	118512743	118512943	+	704.383362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018748, intron 1 of 23)	intron (NM_018748, intron 1 of 23)	6525.0	NM_018748	54214.0	Mm.10409	NM_018748	ENSMUSG00000038708	Golga4	AI225887|AU019508|Olp-1	golgi autoantigen, golgin subfamily a, 4	protein-coding	7.5	10.5	4.5	76.5	16.0	12.5	9.5	6.5
Merged-chr2-51305548-5	chr2	51305375	51305575	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63644.0	NR_040636	329404.0	Mm.417725	NR_040636	ENSMUSG00000086349	Gm13497	A730015I17	predicted gene 13497	ncRNA	12.5	22.0	35.0	556.0	44.5	14.0	16.5	5.0
Merged-chr5-103755494-4	chr5	103755404	103755604	+	920.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	931.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	11.5	11.5	9.0	157.0	42.5	7.0	6.0	13.0
Merged-chr14-54382402-3	chr14	54382302	54382502	+	814.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	MLTR14|LTR|ERV1	21561.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	14.5	29.0	13.5	102.0	5.0	5.5	0.5	2.5
Merged-chr7-80455882-6	chr7	80455804	80456004	+	796.622192	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042527, intron 21 of 21)	intron (NM_001042527, intron 21 of 21)	-50468.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	6.0	13.0	11.0	44.5	21.0	5.0	1.5	15.0
Merged-chr1-161359534-3	chr1	161359424	161359624	+	791.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35914.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	10.0	6.0	12.0	247.0	4.5	6.0	3.0	5.0
Merged-chr6-108660520-4	chr6	108660417	108660617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011498)	promoter-TSS (NM_011498)	-112.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	200.5	261.0	243.0	2881.0	563.5	177.5	248.0	190.0
Merged-chr13-21200655-4	chr13	21200552	21200752	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	20721.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	24.0	30.5	27.0	317.5	47.5	31.5	17.0	26.0
Merged-chr18-60789467-4	chr18	60789348	60789548	+	990.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14401.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	12.5	11.0	22.0	258.5	159.5	40.5	80.0	84.0
Merged-chr7-97745413-2	chr7	97745313	97745513	+	978.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7166.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	8.0	10.0	11.0	57.0	8.0	2.0	1.0	7.0
Merged-chr4-139352490-4	chr4	139352371	139352571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039200)	promoter-TSS (NM_001039200)	105.0	NM_001290810	69902.0	Mm.27871	NM_023536	ENSMUSG00000028741	Mrto4	2610012O22Rik|Mg684|Mrt4	mRNA turnover 4, ribosome maturation factor	protein-coding	88.5	137.5	96.5	1097.5	200.0	61.0	77.5	46.0
Merged-chr10-80173734-3	chr10	80173634	80173834	+	898.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152857)	TTS (NR_152857)	790.0	NM_027207	69770.0	Mm.302754	NM_027207	ENSMUSG00000035595	1600002K03Rik	-	RIKEN cDNA 1600002K03 gene	protein-coding	13.0	15.5	7.0	155.5	42.5	5.5	6.5	5.5
Merged-chr19-47127731-3	chr19	47127639	47127839	+	822.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011053, intron 30 of 35)	(TG)n|Simple_repeat|Simple_repeat	10555.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	15.0	15.5	7.0	147.0	15.0	5.0	8.5	15.0
Merged-chr10-98781145-4	chr10	98781060	98781260	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133482.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	51.0	80.0	41.5	469.5	95.0	32.0	31.0	20.5
Merged-chr3-83863140-4	chr3	83863047	83863247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21539.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	201.0	452.5	292.5	3508.0	703.0	264.0	347.5	248.0
Merged-chr6-89297454-4	chr6	89297333	89297533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11708.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	18.0	32.0	42.0	973.5	60.0	16.5	25.0	35.0
Merged-chr5-81137300-4	chr5	81137183	81137383	+	822.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 2 of 27)	MTD|LTR|ERVL-MaLR	115690.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	11.0	3.0	2.0	103.5	30.5	10.0	15.0	12.5
Merged-chr6-86660750-4	chr6	86660640	86660840	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010751, intron 3 of 5)	intron (NM_010751, intron 3 of 5)	8419.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	16.0	26.5	17.5	422.0	46.0	22.0	29.0	29.5
Merged-chr6-30026865-4	chr6	30026746	30026946	+	809.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F-int|LTR|ERVL-MaLR	-21142.0	NM_001164228	18181.0	Mm.259258	NM_010938	ENSMUSG00000058440	Nrf1	C87038|D6Ertd415e	nuclear respiratory factor 1	protein-coding	5.5	16.0	13.0	198.5	17.0	8.5	18.0	9.0
Merged-chr2-117842561-4	chr2	117842475	117842675	+	954.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040631, intron 2 of 5)	intron (NR_040631, intron 2 of 5)	20647.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	9.0	15.0	12.0	175.5	36.5	15.0	6.5	13.0
Merged-chr8-79373988-2	chr8	79373888	79374088	+	776.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	25480.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	5.5	5.5	2.0	28.0	20.5	4.5	5.0	4.5
Merged-chr5-112326275-4	chr5	112326165	112326365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018783)	promoter-TSS (NM_018783)	-104.0	NM_018783	54723.0	Mm.172947	NM_018783	ENSMUSG00000029345	Tfip11	2810002G02Rik|AF097181|AW046167|Srr1|TIP33|Tip39	tuftelin interacting protein 11	protein-coding	121.5	161.5	109.5	1273.5	264.5	100.5	113.0	75.5
Merged-chr1-135267739-4	chr1	135267637	135267837	+	898.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 5 of 9)	intron (NM_001159624, intron 5 of 9)	-9265.0	NM_007921	13710.0	Mm.441439	NM_007921	ENSMUSG00000003051	Elf3	ESE-1|ESX|jen	E74-like factor 3	protein-coding	16.5	26.0	25.0	245.5	19.0	10.5	12.5	11.5
Merged-chr4-105263814-4	chr4	105263717	105263917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106470.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	242.5	363.0	254.5	3591.0	716.5	291.5	295.0	299.5
Merged-chr1-91062581-4	chr1	91062477	91062677	+	960.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	9133.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	21.0	59.5	20.0	209.0	86.5	22.5	31.0	14.0
Merged-chr17-17005094-4	chr17	17005023	17005223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58980.0	NM_001005358	449000.0	Mm.483718	NM_001005358	ENSMUSG00000096696	Zfp960	-	zinc finger protein 960	protein-coding	218.0	221.5	205.5	3245.5	337.0	81.5	151.0	136.0
Merged-chr7-138398605-3	chr7	138398525	138398725	+	890.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183289)	promoter-TSS (NM_183289)	-895.0	NM_183289	70571.0	Mm.334297	NM_183289	ENSMUSG00000091002	Tcerg1l	5730476P14Rik	transcription elongation regulator 1-like	protein-coding	7.5	16.0	5.0	200.5	19.5	2.0	9.0	1.5
Merged-chr1-64600844-4	chr1	64600749	64600949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009952, exon 9 of 9)	3' UTR (NM_009952, exon 9 of 9)	16319.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	31.5	30.5	16.0	508.5	56.0	23.5	36.5	26.5
Merged-chr9-88599620-4	chr9	88599530	88599730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040766)	promoter-TSS (NR_040766)	-387.0	NR_040766	320692.0	Mm.427378	NR_040766	ENSMUSG00000097073	9430037G07Rik	-	RIKEN cDNA 9430037G07 gene	ncRNA	183.5	300.5	216.0	2481.5	427.0	140.5	214.5	169.5
Merged-chr7-75456293-3	chr7	75456164	75456364	+	869.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 1 of 36)	CpG	730.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	4.5	8.5	2.5	117.5	12.0	6.0	11.5	13.5
Merged-chr7-27929490-4	chr7	27929383	27929583	+	960.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028538)	promoter-TSS (NM_028538)	-53.0	NM_028538	73430.0	Mm.379224	NM_028538	ENSMUSG00000070709	Zfp974	1700049G17Rik|AV321011|BB026409	zinc finger protein 974	protein-coding	17.5	15.5	29.0	244.5	29.0	7.5	21.5	14.0
Merged-chr14-55540275-4	chr14	55540173	55540373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028994)	promoter-TSS (NM_028994)	7.0	NM_028994	74551.0	Mm.29856	NM_028994	ENSMUSG00000040618	Pck2	1810010O14Rik|9130022B02Rik|PEPCK-M	phosphoenolpyruvate carboxykinase 2 (mitochondrial)	protein-coding	120.0	175.0	115.5	2032.5	231.0	97.0	141.0	111.0
Merged-chr15-8995667-4	chr15	8995570	8995770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198024, intron 1 of 13)	intron (NM_198024, intron 1 of 13)	27721.0	NM_198024	223332.0	Mm.321371	NM_198024	ENSMUSG00000048424	Ranbp3l	C130037N17Rik	RAN binding protein 3-like	protein-coding	30.0	36.0	23.5	356.5	93.0	22.5	36.0	29.5
Merged-chr15-98513045-4	chr15	98512933	98513133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6801.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	181.5	284.0	244.0	2879.5	367.5	163.0	159.5	206.0
Merged-chr19-46863759-4	chr19	46863648	46863848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102471, intron 4 of 6)	intron (NM_001102471, intron 4 of 6)	98603.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	74.0	122.5	97.0	1015.0	89.0	55.0	59.0	28.5
Merged-chr9-18468247-4	chr9	18468147	18468347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028160, intron 4 of 7)	intron (NM_028160, intron 4 of 7)	5312.0	NM_028935	72230.0	Mm.289689	NM_028160	ENSMUSG00000074500	Zfp558	1700007A21Rik|4932704I17Rik|Zfp558-ps	zinc finger protein 558	protein-coding	40.0	72.0	57.0	1230.5	105.5	36.5	56.0	61.5
Merged-chr1-191391512-4	chr1	191391434	191391634	+	864.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144880, intron 1 of 12)	intron (NM_144880, intron 1 of 12)	5507.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	5.0	9.5	5.0	161.0	34.5	11.5	8.5	10.5
Merged-chr7-133709097-4	chr7	133709004	133709204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025392)	promoter-TSS (NM_025392)	191.0	NM_009479	22276.0	Mm.3160	NM_009479	ENSMUSG00000030979	Uros	AI415298|UROIIIS|Uros3	uroporphyrinogen III synthase	protein-coding	46.5	67.5	61.0	567.5	140.5	59.5	48.5	80.5
Merged-chr11-62458064-1	chr11	62457964	62458164	+	688.0	f0_c57.idr	promoter-TSS (NM_177229)	promoter-TSS (NM_177229)	-396.0	NM_001039536	327942.0	Mm.390358	NM_199026	ENSMUSG00000014245	Pigl	Gm737	phosphatidylinositol glycan anchor biosynthesis, class L	protein-coding	1.0	2.5	8.5	20.0	35.5	9.5	11.0	5.5
Merged-chr4-85374229-2	chr4	85374134	85374334	+	674.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_019535, intron 3 of 8)	intron (NM_019535, intron 3 of 8)	168778.0	NM_019535	20404.0	Mm.143603	NM_019535	ENSMUSG00000028488	Sh3gl2	9530001L19Rik|AI120490|AW555077|B930049H17Rik|EEN-B1|SH3PA|Sh3d2a	SH3-domain GRB2-like 2	protein-coding	0.0	0.5	0.5	0.5	20.5	8.5	11.5	7.0
Merged-chr11-115707439-4	chr11	115707354	115707554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008163, intron 1 of 5)	intron (NM_008163, intron 1 of 5)	1143.0	NM_008163	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	29.0	30.0	35.0	475.5	60.5	22.5	21.0	27.5
Merged-chr15-34043267-4	chr15	34043176	34043376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39443.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	20.5	33.5	24.5	345.5	81.5	30.0	40.0	33.0
Merged-chr6-50384553-4	chr6	50384463	50384663	+	866.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	ORR1E|LTR|ERVL-MaLR	-1726.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	8.0	29.0	8.5	127.5	45.0	14.0	16.0	7.5
Merged-chr19-11824575-2	chr19	11824475	11824675	+	689.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	4449.0	NM_146936	258938.0	Mm.451671	NM_146936	ENSMUSG00000048292	Olfr1417	MOR266-2	olfactory receptor 1417	protein-coding	17.0	19.5	10.5	56.5	16.5	4.5	2.0	4.5
Merged-chr3-122246206-2	chr3	122246103	122246303	+	980.166626	f0_balb.idr|f0_c57.idr	intron (NM_008129, intron 1 of 6)	CpG	646.0	NM_008129	14630.0	Mm.292676	NM_008129	ENSMUSG00000028124	Gclm	AI649393|Gcmc|Glclr	glutamate-cysteine ligase, modifier subunit	protein-coding	18.5	20.0	15.0	350.5	37.5	17.0	23.5	22.0
Merged-chr9-62058281-4	chr9	62058187	62058387	+	941.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_033320, exon 3 of 3)	3' UTR (NM_033320, exon 3 of 3)	12319.0	NM_033320	93683.0	Mm.24411	NM_033320	ENSMUSG00000032252	Glce	1110017N23Rik|AI747411|C130034A12Rik|Hsepi	glucuronyl C5-epimerase	protein-coding	11.5	14.5	11.5	293.0	34.5	6.5	9.5	14.5
Merged-chr12-73537890-4	chr12	73537788	73537988	+	919.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8507.0	NM_178715	238257.0	Mm.251196	NM_178715	ENSMUSG00000034435	Tmem30b	9130011B11Rik	transmembrane protein 30B	protein-coding	13.0	23.0	9.5	230.0	33.5	12.5	11.0	8.0
Merged-chr2-167538038-4	chr2	167537958	167538158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011427)	promoter-TSS (NM_011427)	-137.0	NM_011427	20613.0	Mm.2093	NM_011427	ENSMUSG00000042821	Snai1	Sna|Sna1|Snail|Snail1	snail family zinc finger 1	protein-coding	37.0	57.0	23.5	746.5	104.5	59.0	45.5	37.0
Merged-chr11-78301512-4	chr11	78301407	78301607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017407)	promoter-TSS (NM_017407)	-84.0	NM_017407	54141.0	Mm.24250	NM_017407	ENSMUSG00000002055	Spag5	AI874642|D11Bhm180e|Deepest|MAP126|Mastrin|S17	sperm associated antigen 5	protein-coding	48.0	71.0	22.5	571.0	133.0	31.0	49.0	28.0
Merged-chr10-115329341-4	chr10	115329261	115329461	+	925.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13770.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	13.5	20.0	13.5	84.5	23.0	14.0	20.5	26.0
Merged-chr9-27030103-4	chr9	27030034	27030234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178027)	promoter-TSS (NM_178027)	-40.0	NM_178027	69091.0	Mm.218717	NM_178027	ENSMUSG00000031988	Vps26b	1810012I05Rik|2310075A12Rik|AI848392	VPS26 retromer complex component B	protein-coding	68.0	84.5	91.0	1080.5	262.0	67.0	106.0	99.5
Merged-chr9-99568962-4	chr9	99568853	99569053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166138)	promoter-TSS (NM_001166138)	-54.0	NM_028768	74125.0	Mm.234823	NM_028768	ENSMUSG00000032468	Armc8	1200015K23Rik|Gid5|HSPC056	armadillo repeat containing 8	protein-coding	76.0	110.0	69.5	861.5	174.0	68.5	97.5	74.0
Merged-chr11-44581450-4	chr11	44581365	44581565	+	908.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4852.0	NR_126460	75389.0	Mm.261421	NR_126460	ENSMUSG00000086501	4930597A21Rik	-	RIKEN cDNA 4930597A21 gene	ncRNA	42.5	57.5	56.5	636.0	25.0	9.0	9.0	9.0
Merged-chr14-77526496-3	chr14	77526404	77526604	+	727.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253759, intron 7 of 19)	Lx6|LINE|L1	-19636.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	5.0	6.5	6.0	67.5	27.0	8.5	14.0	23.0
Merged-chr8-82914677-3	chr8	82914579	82914779	+	718.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	ORR1E|LTR|ERVL-MaLR	51323.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	7.5	13.5	8.0	164.0	16.5	1.0	4.5	2.0
Merged-chr6-28262482-2	chr6	28262388	28262588	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001081678)	promoter-TSS (NM_001081678)	-887.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	26.5	96.5	19.0	222.0	127.5	55.5	51.0	24.0
Merged-chr10-117719138-4	chr10	117719025	117719225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-8367.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	100.0	163.0	54.0	726.0	229.0	105.5	67.5	85.0
Merged-chr11-82036077-3	chr11	82035961	82036161	+	683.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011333, intron 1 of 2)	intron (NM_011333, intron 1 of 2)	484.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	10.0	15.5	1.0	76.5	27.5	9.5	10.5	8.5
Merged-chr7-31008363-4	chr7	31008264	31008464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26443.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	60.5	60.5	58.0	1348.5	117.0	48.0	88.0	66.5
Merged-chr11-3190110-9	chr11	3190020	3190220	+	962.0184939999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 1 of 32)	RLTR33|LTR|ERVK	3343.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	7.5	9.0	14.5	78.0	35.0	23.5	10.0	31.5
Merged-chr2-129601228-5	chr2	129601044	129601244	+	894.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	5682.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	24.5	23.5	24.5	319.5	21.0	10.0	13.0	17.0
Merged-chr6-106750513-4	chr6	106750413	106750613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1476.0	NM_008370	16192.0	Mm.3448	NM_008370	ENSMUSG00000005364	Il5ra	CD125|CDw125|Il5r	interleukin 5 receptor, alpha	protein-coding	60.0	66.0	61.0	1182.5	132.0	42.5	77.0	51.5
Merged-chr7-7136755-4	chr7	7136669	7136869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029584)	promoter-TSS (NM_029584)	-14.0	NM_029584	76373.0	Mm.159732	NM_029584	ENSMUSG00000063535	Zfp773	2810409K11Rik	zinc finger protein 773	protein-coding	71.5	88.0	67.5	1511.5	156.5	59.0	97.5	71.5
Merged-chr6-113644293-4	chr6	113644198	113644398	+	805.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 1 of 11)	MIRb|SINE|MIR	5831.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	10.5	12.5	2.0	62.0	27.5	9.5	9.0	11.5
Merged-chr8-126565398-4	chr8	126565260	126565460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28076.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	84.5	103.0	66.5	1034.5	157.5	57.0	68.5	67.5
Merged-chr6-136721210-4	chr6	136721079	136721279	+	958.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 16 of 25)	B4A|SINE|B4	-59286.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	7.5	12.5	12.5	168.5	34.0	10.5	21.0	15.0
Merged-chr4-102930857-4	chr4	102930755	102930955	+	931.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144906, intron 17 of 23)	intron (NM_144906, intron 17 of 23)	-55524.0	NM_001163767	67344.0	Mm.111346	NM_026100	ENSMUSG00000028523	Tctex1d1	1700055O19Rik	Tctex1 domain containing 1	protein-coding	29.5	44.5	45.0	868.0	34.0	2.5	17.5	12.0
Merged-chr9-123525357-4	chr9	123525263	123525463	+	896.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4390.0	NM_001357485	83493.0	Mm.273671	NM_030692	ENSMUSG00000025240	Sacm1l	SAC1|Sac1p|mKIAA0851	SAC1 suppressor of actin mutations 1-like (yeast)	protein-coding	9.5	9.0	9.0	128.5	43.0	8.5	14.0	15.0
Merged-chr7-29816034-4	chr7	29815932	29816132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145880)	promoter-TSS (NM_001145880)	-40.0	NM_146185	233056.0	Mm.224766	NM_146185	ENSMUSG00000011427	Zfp790	6330581L23Rik	zinc finger protein 790	protein-coding	184.0	272.5	160.0	2934.5	365.5	105.0	188.5	141.5
Merged-chr9-97111195-4	chr9	97111098	97111298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138756)	promoter-TSS (NM_138756)	-157.0	NM_138756	192287.0	Mm.228067	NM_138756	ENSMUSG00000032449	Slc25a36	C330005L02Rik	solute carrier family 25, member 36	protein-coding	144.0	289.0	163.5	2671.5	520.0	176.5	172.0	197.5
Merged-chr18-64623238-2	chr18	64623138	64623338	+	737.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001488, intron 1 of 27)	intron (NM_001001488, intron 1 of 27)	37762.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	11.5	9.0	4.5	75.5	13.5	1.0	5.0	3.0
Merged-chr13-12423345-3	chr13	12423258	12423458	+	655.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144835, intron 28 of 44)	RMER1B|Other|Other	27983.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	5.5	8.0	6.0	100.5	7.0	3.0	6.0	7.0
Merged-chr3-61605709-4	chr3	61605616	61605816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	241209.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	43.0	42.0	44.5	834.0	84.0	33.5	19.0	28.0
Merged-chr3-106785333-4	chr3	106785231	106785431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007651, intron 1 of 7)	AT_rich|Low_complexity|Low_complexity	4818.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	71.5	107.5	60.0	1013.5	232.0	89.0	78.5	97.0
Merged-chr15-59721208-4	chr15	59721116	59721316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72562.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	22.5	44.5	21.5	455.5	66.5	39.5	29.0	38.0
Merged-chr17-34296203-4	chr17	34296105	34296305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8434.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	143.5	248.5	93.5	1351.5	547.5	168.0	166.5	185.0
Merged-chr2-3427785-3	chr2	3427728	3427928	+	822.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302674, intron 2 of 13)	intron (NM_001302674, intron 2 of 13)	3697.0	NM_001302684	227525.0	Mm.23483	NM_146114	ENSMUSG00000026648	Dclre1c	9930121L06Rik|AI661365|Art|Snm1l	DNA cross-link repair 1C	protein-coding	3.5	15.0	4.0	89.5	11.0	9.0	4.5	6.0
Merged-chr16-87635564-4	chr16	87635456	87635656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63398.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	62.5	82.5	53.0	470.0	111.5	43.0	31.0	27.0
Merged-chr4-63553942-4	chr4	63553845	63554045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4818.0	NM_001356355	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	102.5	167.5	157.0	2097.5	278.0	82.5	120.0	103.0
Merged-chr10-77032644-3	chr10	77032516	77032716	+	890.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199271)	promoter-TSS (NM_001199271)	-123.0	NM_001199271	20509.0	Mm.265060	NM_031196	ENSMUSG00000001436	Slc19a1	AI323572|RFC|RFC-1|RFC1	solute carrier family 19 (folate transporter), member 1	protein-coding	10.0	5.0	6.0	177.0	26.5	3.5	10.0	9.5
Merged-chr6-50601816-3	chr6	50601701	50601901	+	864.922241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5211.0	NM_027564	70821.0	Mm.157323	NM_027564	ENSMUSG00000029828	4921507P07Rik	TISP74	RIKEN cDNA 4921507P07 gene	protein-coding	10.5	13.0	11.5	127.0	41.5	8.0	7.5	4.5
Merged-chr16-91466765-3	chr16	91466642	91466842	+	977.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077219, intron 1 of 1)	intron (NR_077219, intron 1 of 1)	1638.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	6.5	2.5	2.0	48.5	44.0	25.0	19.5	20.0
Merged-chr4-129600665-4	chr4	129600551	129600751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029748)	promoter-TSS (NM_029748)	-3.0	NM_018799	54709.0	Mm.250874	NM_018799	ENSMUSG00000028798	Eif3i	36kDa|D4Ertd632e|Eif3s2|Trip1	eukaryotic translation initiation factor 3, subunit I	protein-coding	38.5	50.0	30.5	385.5	76.5	28.5	45.5	44.0
Merged-chr4-53231209-4	chr4	53231109	53231309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14987.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	39.5	67.0	39.5	793.5	86.0	19.0	58.0	46.0
Merged-chr2-15049319-4	chr2	15049215	15049415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165942)	promoter-TSS (NM_001165942)	-3.0	NM_001355685	74455.0	Mm.478923	NM_028950	ENSMUSG00000026707	Nsun6	4933403D21Rik|4933414E04Rik|NOPD1	NOL1/NOP2/Sun domain family member 6	protein-coding	103.0	151.5	108.5	2278.5	319.0	110.0	203.0	113.5
Merged-chr13-37833716-4	chr13	37833603	37833803	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	6310.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	68.5	96.0	30.0	1083.0	83.0	14.0	30.0	42.5
Merged-chr2-163788649-3	chr2	163788548	163788748	+	828.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32186.0	NM_016873	22403.0	Mm.13828	NM_016873	ENSMUSG00000027656	Wisp2	Ccn5|Crgr4|Ctgfl|Rcop1	WNT1 inducible signaling pathway protein 2	protein-coding	6.0	13.5	9.5	81.0	11.5	0.0	5.0	1.0
Merged-chr9-31211883-4	chr9	31211792	31211992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102456)	promoter-TSS (NM_001102456)	-44.0	NM_001102456	11804.0	Mm.19133	NM_009691	ENSMUSG00000031996	Aplp2	AI790698|APLP-2|CDEBP	amyloid beta (A4) precursor-like protein 2	protein-coding	228.0	349.0	230.0	3692.0	566.5	211.0	272.5	214.5
Merged-chr10-8862140-4	chr10	8862050	8862250	+	974.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	L2|LINE|L2	23920.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	17.5	55.0	14.5	262.5	52.0	19.0	17.0	10.0
Merged-chr3-132227833-4	chr3	132227734	132227934	+	804.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	142542.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	9.0	16.5	26.5	232.5	25.5	10.0	9.0	16.0
Merged-chr11-58008746-4	chr11	58008638	58008838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028451)	promoter-TSS (NM_028451)	-326.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	84.5	120.0	34.0	512.5	166.5	65.5	67.5	61.5
Merged-chr3-27195370-4	chr3	27195295	27195495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	RMER1A|Other|Other	12391.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	34.5	47.5	42.0	595.5	103.0	32.0	35.5	42.0
Merged-chr7-110014464-4	chr7	110014367	110014567	+	757.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-3784.0	NM_181517	233726.0	Mm.222328	NM_181517	ENSMUSG00000066232	Ipo7	A330055O14Rik|C330016G14|Imp7|Ranbp7	importin 7	protein-coding	16.0	25.5	12.5	189.0	22.0	8.0	17.5	24.0
Merged-chr16-90868322-3	chr16	90868236	90868436	+	730.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199210, intron 2 of 7)	intron (NM_001199210, intron 2 of 7)	37477.0	NM_001316761	70967.0	Mm.253077	NM_027627	ENSMUSG00000039903	Eva1c	1700092M14Rik|4931408A02Rik|Fam176c	eva-1 homolog C (C. elegans)	protein-coding	9.0	5.5	5.5	96.0	13.5	1.5	4.5	6.0
Merged-chr14-65374225-3	chr14	65374109	65374309	+	726.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 1 of 9)	intron (NM_199029, intron 1 of 9)	15533.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	11.0	13.5	5.0	122.0	18.5	3.5	6.0	8.0
Merged-chr4-155894426-4	chr4	155894328	155894528	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207223, intron 1 of 24)	intron (NM_207223, intron 1 of 24)	2553.0	NM_207223	140500.0	Mm.219591	NM_207223	ENSMUSG00000029033	Acap3	Centb5|Kiaa1716-hp|mKIAA1716	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	protein-coding	37.0	46.0	16.5	459.0	21.0	12.5	26.5	18.5
Merged-chr8-105855485-2	chr8	105855385	105855585	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_021513, exon 1 of 1)	exon (NM_021513, exon 1 of 1)	382.0	NM_021513	59016.0	Mm.286598	NM_021513	ENSMUSG00000036442	Thap11	2810036E22Rik|AB041579|CTG-B43a|CTG-B45d|Ronin	THAP domain containing 11	protein-coding	7.5	9.0	2.5	66.0	15.0	8.0	7.0	12.0
Merged-chr15-95907066-4	chr15	95906973	95907173	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 3 of 19)	intron (NM_175344, intron 3 of 19)	-77001.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	26.5	37.0	25.0	239.0	38.0	15.5	14.5	28.5
Merged-chr9-25571072-3	chr9	25570989	25571189	+	705.083313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 3 of 7)	intron (NM_026189, intron 3 of 7)	89492.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	3.0	6.0	6.5	58.5	21.5	6.0	10.0	8.5
Merged-chr6-122845088-4	chr6	122844992	122845192	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021899, exon 11 of 11)	3' UTR (NM_021899, exon 11 of 11)	11065.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	16.0	19.5	25.5	254.5	10.0	8.5	9.0	16.5
Merged-chr17-65730493-4	chr17	65730391	65730591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	42261.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	69.0	69.5	54.0	567.5	158.0	41.5	58.0	46.0
Merged-chr7-136294639-3	chr7	136294549	136294749	+	730.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102277, intron 3 of 3)	intron (NR_102277, intron 3 of 3)	26325.0	NR_102277	77383.0	Mm.227745	NR_102277	ENSMUSG00000110027	C030029H02Rik	-	RIKEN cDNA C030029H02 gene	ncRNA	2.5	16.0	4.5	74.5	24.5	16.0	15.5	4.5
Merged-chr4-100998347-4	chr4	100998240	100998440	+	714.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198037, intron 26 of 26)	intron (NM_198037, intron 26 of 26)	-70698.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	7.0	19.5	9.5	70.0	21.0	12.0	5.0	8.0
Merged-chr4-128925157-4	chr4	128925057	128925257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	37298.0	NM_172875	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	21.0	27.0	21.0	196.0	83.5	39.5	26.0	41.0
Merged-chr8-25601480-4	chr8	25601376	25601576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308482)	promoter-TSS (NM_001308482)	-125.0	NM_001308481	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	123.0	194.5	158.0	1915.0	317.5	113.5	156.0	147.5
Merged-chr19-44895455-3	chr19	44895363	44895563	+	674.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35656.0	NM_172638	226151.0	Mm.212609	NM_172638	ENSMUSG00000036097	Slf2	3632432H19|Fam178a	SMC5-SMC6 complex localization factor 2	protein-coding	1.5	10.5	1.5	124.0	8.5	6.5	18.5	9.0
Merged-chr7-127637103-4	chr7	127637012	127637212	+	879.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21840.0	NR_155451	320683.0	Mm.156718	NM_177226	ENSMUSG00000045639	Zfp629	9330199A09Rik|Znf629	zinc finger protein 629	protein-coding	6.0	23.5	5.0	131.0	22.5	4.0	12.5	11.0
Merged-chr17-24426628-4	chr17	24426527	24426727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010023)	promoter-TSS (NM_010023)	-56.0	NM_010023	13177.0	Mm.291743	NM_010023	ENSMUSG00000024132	Eci1	Dci|eci	enoyl-Coenzyme A delta isomerase 1	protein-coding	164.0	208.5	127.5	2056.0	318.0	104.5	151.5	134.5
Merged-chr9-71129123-4	chr9	71129014	71129214	+	800.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073483, intron 4 of 6)	B3|SINE|B2	33519.0	NM_001271843	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	13.0	31.5	11.5	242.5	24.0	12.0	14.0	14.0
Merged-chr14-47087452-3	chr14	47087360	47087560	+	787.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 9 of 12)	MIRb|SINE|MIR	18483.0	NM_001310544	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	9.0	13.0	7.5	128.0	15.5	1.5	6.5	7.0
Merged-chr7-99139959-6	chr7	99139884	99140084	+	904.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	1160.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	13.5	10.5	9.0	87.0	26.5	7.5	10.5	16.0
Merged-chr11-59227554-1	chr11	59227454	59227654	+	1000.0	f1_balb.idr	intron (NM_007476, intron 1 of 4)	CpG	608.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	6.0	10.5	7.5	61.0	30.5	10.5	14.0	13.5
Merged-chr18-39560924-4	chr18	39560818	39561018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73673.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	115.5	118.5	85.0	1492.5	217.0	62.0	84.5	90.0
Merged-chr19-47919310-4	chr19	47919199	47919399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001738)	promoter-TSS (NM_001001738)	0.0	NM_001001738	414801.0	Mm.29457	NM_001001738	ENSMUSG00000044948	Itprip	4833424O12Rik|DANGER	inositol 1,4,5-triphosphate receptor interacting protein	protein-coding	76.5	95.0	45.0	1042.0	191.5	86.5	84.5	98.0
Merged-chr6-72396116-4	chr6	72396015	72396215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5448.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	77.5	125.5	45.5	430.5	208.5	97.0	63.5	69.0
Merged-chr6-125279951-4	chr6	125279857	125280057	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009446, intron 4 of 4)	intron (NM_009446, intron 4 of 4)	6124.0	NM_009446	22144.0	Mm.270295	NM_009446	ENSMUSG00000067702	Tuba3a	AI528779|M[a]3|Tuba3	tubulin, alpha 3A	protein-coding	9.5	27.0	7.5	160.0	87.5	9.5	40.0	34.5
Merged-chr10-117864842-2	chr10	117864742	117864942	+	844.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-18868.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	5.0	3.0	3.0	38.0	23.5	6.5	8.0	9.0
Merged-chr7-29768485-4	chr7	29768377	29768577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023750)	promoter-TSS (NM_023750)	-75.0	NM_023750	74352.0	Mm.251083	NM_023750	ENSMUSG00000046185	Zfp84	2210410P13Rik|4633401C23Rik|AI415447|BB081605|C86188|KRAB18|Zfp69	zinc finger protein 84	protein-coding	151.5	254.0	134.0	1579.0	354.0	146.5	141.5	132.5
Merged-chr5-124621626-4	chr5	124621525	124621725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026486, intron 13 of 18)	L1MB5|LINE|L1	-7427.0	NM_011596	21871.0	Mm.1158	NM_011596	ENSMUSG00000038023	Atp6v0a2	8430408C20Rik|AI385560|ATP6a2|AW489264|Atp6n1d|Atp6n2|C76904|ISF|J6B7|SHIF|Stv1|TJ6M|TJ6s|Tj6|V-ATPase 116 kDa|V-ATPase a2	ATPase, H+ transporting, lysosomal V0 subunit A2	protein-coding	28.5	45.5	27.5	468.0	104.5	29.5	37.5	39.0
Merged-chr1-152805054-4	chr1	152804949	152805149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 1 of 15)	intron (NM_010877, intron 1 of 15)	4896.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	21.5	27.5	33.5	483.5	65.5	25.5	40.5	23.5
Merged-chr12-113074335-6	chr12	113074242	113074442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361919)	promoter-TSS (NM_001361919)	-160.0	NM_001361919	75671.0	Mm.23377	NM_029381	ENSMUSG00000012211	Tex22	1700028O09Rik|AV210422|Tep22	testis expressed gene 22	protein-coding	26.5	18.5	24.5	277.5	28.5	7.5	20.5	18.5
Merged-chr1-172633062-4	chr1	172632926	172633126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026725)	promoter-TSS (NM_026725)	-52.0	NM_026725	68440.0	Mm.33024	NM_026725	ENSMUSG00000026544	Dusp23	1300005N15Rik|LDP-3	dual specificity phosphatase 23	protein-coding	206.0	318.5	224.0	3513.5	631.5	255.0	346.0	224.5
Merged-chr15-78248614-4	chr15	78248524	78248724	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 1 of 9)	intron (NM_008677, intron 1 of 9)	3813.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	44.0	72.5	19.5	491.5	51.5	19.5	26.0	18.0
Merged-chr9-70237776-1	chr9	70237676	70237876	+	827.0	f0_balb.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	30426.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	17.5	15.5	11.5	259.0	19.5	4.5	9.0	6.5
Merged-chr5-53402953-4	chr5	53402824	53403024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135818.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	103.0	137.5	154.5	2035.5	268.5	133.5	142.0	155.0
Merged-chr6-85155192-5	chr6	85155082	85155282	+	792.366638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-17418.0	NM_011467	20751.0	Mm.28393	NM_011467	ENSMUSG00000033735	Spr	AA409688|Gm10328	sepiapterin reductase	protein-coding	8.0	7.5	6.5	79.0	8.0	4.5	8.0	10.5
Merged-chr19-10694076-4	chr19	10693988	10694188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	L1MB3|LINE|L1	5353.0	NM_001361959	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	134.5	158.0	109.5	1678.0	231.0	90.5	85.0	94.5
Merged-chr17-31108571-4	chr17	31108462	31108662	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 9 of 14)	intron (NM_009593, intron 9 of 14)	21049.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	10.0	3.5	3.5	280.0	17.0	10.0	9.0	6.5
Merged-chr11-3179104-3	chr11	3179005	3179205	+	966.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 5 of 32)	intron (NM_030207, intron 5 of 32)	14358.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	15.0	6.0	20.5	212.5	6.0	2.5	3.0	5.5
Merged-chr2-173227723-3	chr2	173227623	173227823	+	785.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_022995, exon 4 of 4)	3' UTR (NM_022995, exon 4 of 4)	-8801.0	NM_001139519	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	4.5	7.0	5.0	57.0	25.0	4.5	9.5	10.0
Merged-chr13-73469584-4	chr13	73469446	73469646	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 1 of 13)	intron (NM_145376, intron 1 of 13)	2163.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	11.0	45.5	23.5	173.5	38.0	15.5	10.0	13.0
Merged-chr3-94837411-4	chr3	94837312	94837512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172683)	promoter-TSS (NM_172683)	-155.0	NM_001165948	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	52.5	85.5	49.5	797.5	198.5	69.0	109.0	84.5
Merged-chr7-83643600-3	chr7	83643511	83643711	+	914.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001360089, exon 7 of 7)	3' UTR (NM_001360089, exon 7 of 7)	11594.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	13.0	19.0	10.0	75.5	37.5	5.5	6.0	5.5
Merged-chr4-133238133-4	chr4	133238086	133238286	+	830.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2632.0	NM_016693	53608.0	Mm.36640	NM_016693	ENSMUSG00000028862	Map3k6	Ask2|MAPKKK6|MEKK6	mitogen-activated protein kinase kinase kinase 6	protein-coding	17.0	7.0	4.5	102.5	16.0	9.0	4.5	8.0
Merged-chr6-39381269-3	chr6	39381204	39381404	+	803.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011226)	promoter-TSS (NM_011226)	-49.0	NM_011226	19331.0	Mm.123866	NM_011226	ENSMUSG00000029923	Rab19	-	RAB19, member RAS oncogene family	protein-coding	9.5	16.0	16.5	108.0	14.0	5.0	3.5	8.0
Merged-chr4-9671396-3	chr4	9671303	9671503	+	946.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2059.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	11.0	2.0	7.5	270.0	19.0	8.0	5.5	6.5
Merged-chr18-20815559-4	chr18	20815447	20815647	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69143.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	23.5	43.5	35.5	426.0	49.0	24.5	36.0	22.0
Merged-chr13-101797164-4	chr13	101797055	101797255	+	870.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28938.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	10.0	15.0	12.5	261.5	21.0	5.0	16.5	15.5
Merged-chr4-32369157-1	chr4	32369057	32369257	+	748.0	f0_balb.idr	Intergenic	Intergenic	-48278.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	4.5	6.0	8.5	116.0	6.5	0.0	7.0	2.0
Merged-chr14-14619610-2	chr14	14619496	14619696	+	707.375	f0_balb.idr|f1_balb.idr	Intergenic	RLTR45|LTR|ERVK	-83429.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	12.0	20.0	9.0	85.0	5.5	4.5	1.5	4.0
Merged-chr15-79030823-4	chr15	79030743	79030943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161712)	promoter-TSS (NM_001161712)	-31.0	NM_013847	26912.0	Mm.237085	NM_013847	ENSMUSG00000006378	Gcat	AI526977|Kbl	glycine C-acetyltransferase (2-amino-3-ketobutyrate-coenzyme A ligase)	protein-coding	68.5	93.0	52.5	1002.5	146.5	47.0	73.0	64.5
Merged-chr5-151233690-4	chr5	151233562	151233762	+	841.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-43469.0	NR_153382	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	4.0	13.0	14.5	154.5	21.0	7.5	10.0	12.5
Merged-chr2-71041514-4	chr2	71041416	71041616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	L1MC3|LINE|L1	14090.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	51.0	33.0	16.5	457.5	100.5	32.5	53.0	38.0
Merged-chr8-25615972-3	chr8	25615884	25616084	+	660.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001735, intron 1 of 9)	B3|SINE|B2	13700.0	NM_001308482	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	12.5	9.0	1.5	74.0	19.0	6.5	4.5	10.5
Merged-chr2-13237792-3	chr2	13237705	13237905	+	740.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009105, intron 3 of 8)	intron (NM_009105, intron 3 of 8)	33610.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	5.0	10.0	5.5	107.5	18.5	1.5	4.5	6.5
Merged-chr4-83567881-4	chr4	83567771	83567971	+	817.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355549, intron 6 of 24)	intron (NM_001355549, intron 6 of 24)	42326.0	NM_001355378	320226.0	Mm.180032	NM_029117	ENSMUSG00000052407	Ccdc171	4930418J05Rik|4930473A06Rik|A330015D16Rik	coiled-coil domain containing 171	protein-coding	13.0	21.5	20.5	134.0	19.5	11.0	8.0	11.5
Merged-chr10-125325301-4	chr10	125325210	125325410	+	865.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 1 of 5)	ORR1F|LTR|ERVL-MaLR	3653.0	NM_011391	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	10.0	11.0	16.5	297.5	18.0	8.5	11.0	15.0
Merged-chr14-22020832-7	chr14	22020707	22020907	+	930.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 1 of 6)	intron (NM_028275, intron 1 of 6)	1095.0	NM_028275	76633.0	Mm.489898	NM_028275	ENSMUSG00000063458	Lrmda	1700112E06Rik|2700009F18Rik	leucine rich melanocyte differentiation associated	protein-coding	8.5	8.0	10.0	129.0	18.0	10.0	9.0	10.5
Merged-chr14-66953332-3	chr14	66953234	66953434	+	742.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42126.0	NM_175498	239157.0	Mm.44358	NM_175498	ENSMUSG00000046204	Pnma2	A830049P17Rik|mKIAA0883	paraneoplastic antigen MA2	protein-coding	6.5	9.5	8.0	116.0	16.0	9.0	18.0	9.0
Merged-chr11-116016431-6	chr11	116016332	116016532	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	-3713.0	NM_016905	14635.0	Mm.2820	NM_016905	ENSMUSG00000020766	Galk1	AA409894|GALK|Gk|Glk|Glk1	galactokinase 1	protein-coding	9.5	23.5	4.5	24.5	14.0	4.5	0.5	9.0
Merged-chr13-113636598-2	chr13	113636498	113636698	+	999.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18034.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	6.5	7.5	4.5	169.5	16.5	4.5	5.0	8.0
Merged-chr11-21081279-4	chr11	21081180	21081380	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-10044.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	32.5	27.0	16.5	292.5	75.5	26.5	24.0	11.0
Merged-chr9-106821840-4	chr9	106821735	106821935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001015507)	promoter-TSS (NM_001015507)	-141.0	NM_001015507	321006.0	Mm.440089	NM_001015507	ENSMUSG00000040325	Dcaf1	AI447437|B930007L02Rik|Vprbp|mKIAA0800	DDB1 and CUL4 associated factor 1	protein-coding	168.5	269.0	155.5	2079.5	520.5	231.5	204.0	202.5
Merged-chr12-112950544-4	chr12	112950442	112950642	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8400.0	NM_001316724	66174.0	Mm.7070	NM_025399	ENSMUSG00000002804	Nudt14	1110030M18Rik|UGPPase	nudix (nucleoside diphosphate linked moiety X)-type motif 14	protein-coding	37.0	64.0	38.5	755.0	81.0	34.5	52.0	20.0
Merged-chr17-80008995-4	chr17	80008879	80009079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53289.0	NR_152119	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	39.5	66.5	44.0	612.5	99.5	16.5	45.5	22.5
Merged-chr3-16004075-3	chr3	16003970	16004170	+	926.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081687, intron 1 of 3)	intron (NM_001081687, intron 1 of 3)	2262.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	12.5	22.5	9.0	154.0	18.0	9.0	21.0	7.5
Merged-chr2-157077734-4	chr2	157077641	157077841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	1524.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	118.5	236.5	105.5	1475.0	286.0	97.5	119.5	97.5
Merged-chr13-112810515-3	chr13	112810413	112810613	+	860.966675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008903, intron 1 of 5)	MIR|SINE|MIR	9736.0	NM_008247	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	9.0	8.5	14.5	61.5	59.0	12.5	25.0	34.5
Merged-chr12-76377335-4	chr12	76377230	76377430	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	intron (NM_178744, intron 1 of 1)	7064.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	7.5	19.5	7.0	190.0	30.0	14.0	9.5	12.5
Merged-chr11-94118827-3	chr11	94118753	94118953	+	921.511108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025428, intron 26 of 26)	intron (NM_001025428, intron 26 of 26)	74648.0	NM_001025429	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	20.0	13.0	11.5	297.0	18.0	7.5	4.5	11.0
Merged-chr2-148752067-3	chr2	148751975	148752175	+	601.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177655, intron 2 of 3)	intron (NM_177655, intron 2 of 3)	1714.0	NM_177655	228756.0	Mm.189390	NM_177655	ENSMUSG00000055177	Cstl1	RCET1|RCET2|RCET3	cystatin-like 1	protein-coding	7.5	5.5	1.5	62.0	15.0	6.5	8.5	9.0
Merged-chr11-75655089-5	chr11	75655057	75655257	+	994.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080775)	promoter-TSS (NM_001080775)	-858.0	NM_001080775	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	21.5	32.0	29.5	292.5	42.0	18.0	16.5	32.5
Merged-chr16-94700044-2	chr16	94699944	94700144	+	569.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	88625.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	2.0	1.5	2.0	19.5	10.5	4.5	6.0	7.0
Merged-chr3-126661192-4	chr3	126661077	126661277	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	64226.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	51.0	85.0	37.0	536.0	71.5	42.5	21.5	20.5
Merged-chr12-38778319-4	chr12	38778252	38778452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1730.0	NM_001347379	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	76.5	161.5	70.5	807.0	282.0	97.5	70.0	62.0
Merged-chr7-19326564-4	chr7	19326456	19326656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16511.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	172.0	329.5	135.5	2180.5	621.0	206.0	285.5	166.5
Merged-chr4-132939634-3	chr4	132939542	132939742	+	813.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17091.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	5.5	5.5	2.0	85.0	10.5	5.0	5.0	6.5
Merged-chr8-122941198-4	chr8	122941071	122941271	+	914.037476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	RMER19C|LTR|ERVK	92797.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	13.5	20.0	6.5	200.0	35.5	9.0	7.0	7.5
Merged-chr19-5815259-4	chr19	5815138	5815338	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12566.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	55.5	72.5	62.5	831.0	81.0	44.0	28.5	20.5
Merged-chr12-86894619-4	chr12	86894518	86894718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9804.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	239.5	359.5	241.0	3114.0	655.0	235.5	275.0	293.0
Merged-chr15-58215449-4	chr15	58215358	58215558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026346)	promoter-TSS (NM_026346)	-566.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	87.0	80.0	66.5	867.0	155.0	60.5	84.0	63.5
Merged-chr15-31564054-4	chr15	31563994	31564194	+	998.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4739.0	NM_181588	69574.0	Mm.28108	NM_181588	ENSMUSG00000022235	Cmbl	2310016A09Rik	carboxymethylenebutenolidase-like (Pseudomonas)	protein-coding	20.5	24.0	38.5	363.5	29.0	17.0	20.0	23.0
Merged-chr7-24460006-4	chr7	24459908	24460108	+	938.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2475.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	20.5	34.5	21.5	312.0	33.5	12.5	37.5	20.0
Merged-chr4-119991923-2	chr4	119991822	119992022	+	799.333374	f0_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	-169284.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	10.0	16.5	12.5	118.5	8.0	3.0	7.5	4.0
Merged-chr10-75795110-4	chr10	75795014	75795214	+	590.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008185, intron 2 of 4)	RLTR28|LTR|ERVL	2617.0	NM_001358778	14871.0	Mm.2746	NM_008185	ENSMUSG00000001663	Gstt1	AI255817|Gstt1-1	glutathione S-transferase, theta 1	protein-coding	8.0	13.0	2.0	82.0	25.5	6.0	11.0	15.5
Merged-chr19-42089410-4	chr19	42089293	42089493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1042.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	36.5	41.0	38.0	747.0	77.0	38.0	44.5	56.0
Merged-chr1-155097426-4	chr1	155097327	155097527	+	730.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010500, exon 1 of 1)	3' UTR (NM_010500, exon 1 of 1)	2209.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	7.0	12.0	8.0	121.5	20.5	11.0	10.0	14.5
Merged-chr9-119365435-4	chr9	119365328	119365528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359699, intron 3 of 17)	B3A|SINE|B2	8047.0	NM_001359699	102448.0	Mm.219497	NM_001033209	ENSMUSG00000035769	Xylb	AI132223|AI327421	xylulokinase homolog (H. influenzae)	protein-coding	21.0	33.5	23.0	442.0	71.5	20.0	40.0	19.0
Merged-chr7-19325986-4	chr7	19325875	19326075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15930.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	95.5	129.0	78.0	1145.5	198.5	55.5	79.5	86.5
Merged-chr7-43626150-2	chr7	43626050	43626250	+	979.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8589.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	3.5	12.0	10.0	28.0	29.0	9.0	8.5	9.5
Merged-chr9-116151506-1	chr9	116151406	116151606	+	757.5	f0_balb.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	23857.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	6.5	12.5	14.0	129.5	1.0	1.5	3.5	0.5
Merged-chr4-152125514-2	chr4	152125414	152125614	+	896.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207689, intron 7 of 9)	CpG	3411.0	NM_019585	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	1.0	1.0	9.5	28.0	6.5	6.5	5.5	8.0
Merged-chr8-70610865-4	chr8	70610777	70610977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2563.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	68.0	94.0	38.5	578.0	155.0	42.0	65.0	83.0
Merged-chr11-106388099-4	chr11	106388001	106388201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5320.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	31.5	55.0	39.5	323.0	62.0	25.0	32.5	37.5
Merged-chr12-111386714-4	chr12	111386598	111386798	+	929.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8980.0	NM_183016	217866.0	Mm.27397	NM_183016	ENSMUSG00000021279	Cdc42bpb	MRCKb	CDC42 binding protein kinase beta	protein-coding	15.0	34.0	12.5	157.0	31.0	11.0	10.5	20.0
Merged-chr7-19744769-4	chr7	19744668	19744868	+	768.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008990, intron 1 of 8)	intron (NM_008990, intron 1 of 8)	4805.0	NM_008990	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	12.5	30.0	12.5	100.5	23.0	7.5	6.0	2.5
Merged-chr4-128962515-4	chr4	128962413	128962613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172875)	promoter-TSS (NM_172875)	-58.0	NM_001301841	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	62.5	129.0	63.5	741.5	204.5	88.5	81.0	50.0
Merged-chr1-144318513-4	chr1	144318404	144318604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69400.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	65.0	59.0	77.5	1283.5	179.0	47.5	55.5	76.0
Merged-chr17-43036306-4	chr17	43036227	43036427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 1 of 5)	intron (NM_178589, intron 1 of 5)	19772.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	35.5	52.0	46.5	1018.0	56.0	20.0	29.5	27.5
Merged-chr18-31634261-4	chr18	31634139	31634339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357554)	promoter-TSS (NM_001357554)	-129.0	NM_001357554	269003.0	Mm.194538	NM_172965	ENSMUSG00000024260	Sap130	2610304F09Rik|6720406D06	Sin3A associated protein	protein-coding	345.5	468.0	293.0	5897.5	418.5	142.5	239.5	167.0
Merged-chr17-88597216-4	chr17	88597109	88597309	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29346.0	NM_029858	77057.0	Mm.482203	NM_029858	ENSMUSG00000033855	Ston1	4921524J06Rik|C86231|Salf|Sblf	stonin 1	protein-coding	16.0	30.5	15.5	288.0	50.0	15.0	22.0	21.0
Merged-chr7-114193885-4	chr7	114193798	114193998	+	883.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60782.0	NM_033370	70349.0	Mm.277024	NM_033370	ENSMUSG00000030754	Copb1	2610019B04Rik	coatomer protein complex, subunit beta 1	protein-coding	13.0	15.0	12.0	226.5	23.0	6.0	11.5	7.5
Merged-chr3-103915087-4	chr3	103915033	103915233	+	926.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356556, exon 1 of 8)	exon (NM_001356556, exon 1 of 8)	1013.0	NM_172684	229675.0	Mm.29366	NM_172684	ENSMUSG00000044098	Rsbn1	C230004D03Rik|E330004N01|KDM9|Rosbin|Rsbn|Rsbp|mKIAA3002	rosbin, round spermatid basic protein 1	protein-coding	13.5	11.5	14.0	92.0	17.0	13.0	9.5	17.0
Merged-chr1-155810243-3	chr1	155810152	155810352	+	691.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024945, intron 1 of 11)	intron (NM_001024945, intron 1 of 11)	2647.0	NM_023268	104009.0	Mm.27035	NM_023268	ENSMUSG00000033684	Qsox1	1300003H02Rik|QSOX|Qscn6|SOx|b2b2673Clo	quiescin Q6 sulfhydryl oxidase 1	protein-coding	7.5	7.0	13.0	236.0	4.0	0.5	8.0	1.0
Merged-chr3-94821411-3	chr3	94821283	94821483	+	661.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16184.0	NM_001165948	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	10.0	8.5	9.0	37.5	14.5	7.0	2.0	5.0
Merged-chr1-191110072-4	chr1	191109967	191110167	+	975.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11653.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	38.0	30.0	11.5	340.0	65.5	22.5	25.5	54.0
Merged-chr3-103021026-4	chr3	103020928	103021128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310693, intron 1 of 17)	CpG	482.0	NM_144901	229663.0	Mm.277713	NM_144901	ENSMUSG00000068823	Csde1	AA960392|BC016898|D3Jfr1|mKIAA0885|unr	cold shock domain containing E1, RNA binding	protein-coding	138.5	229.5	143.0	1662.0	421.0	144.0	196.0	113.0
Merged-chr15-97581899-4	chr15	97581792	97581992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123930.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	136.0	194.0	79.5	1333.0	262.5	110.0	111.0	74.0
Merged-chr3-133314712-4	chr3	133314598	133314798	+	929.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293641, intron 1 of 11)	intron (NM_001293641, intron 1 of 11)	4588.0	NM_001293641	74776.0	Mm.210305	NM_146141	ENSMUSG00000028013	Ppa2	1110013G13Rik|Sid6306	pyrophosphatase (inorganic) 2	protein-coding	24.5	24.5	13.0	369.5	67.5	10.5	33.5	18.0
Merged-chr2-71389146-4	chr2	71389050	71389250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026115)	promoter-TSS (NM_026115)	-110.0	NM_026115	107435.0	Mm.272472	NM_026115	ENSMUSG00000027018	Hat1	2410071B14Rik|AA536933|Hat-1|KAT1	histone aminotransferase 1	protein-coding	220.0	322.0	222.5	3324.0	589.0	196.5	270.5	206.5
Merged-chr19-11659328-3	chr19	11659223	11659423	+	844.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037634, intron 1 of 3)	intron (NM_001037634, intron 1 of 3)	1236.0	NM_001037634	225922.0	Mm.26881	NM_001037634	ENSMUSG00000055895	Oosp2	Gm99|Plac1l|Tmem122	oocyte secreted protein 2	protein-coding	15.0	10.5	14.0	105.0	12.5	1.5	6.5	8.5
Merged-chr11-114663124-2	chr11	114663024	114663224	+	682.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5419.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	2.5	9.0	4.0	52.5	17.5	4.5	5.0	5.5
Merged-chr5-90742250-4	chr5	90742162	90742362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17036.0	NM_009141	20311.0	Mm.4660	NM_009141	ENSMUSG00000029371	Cxcl5	AMCF-II|Cxcl6|ENA-78|GCP-2|LIX|Scyb5|Scyb6	chemokine (C-X-C motif) ligand 5	protein-coding	165.5	271.0	186.0	2541.0	386.5	135.5	178.5	177.0
Merged-chr11-76993109-4	chr11	76993012	76993212	+	897.337524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5485.0	NM_010484	15567.0	Mm.300318	NM_010484	ENSMUSG00000020838	Slc6a4	5-HTT|AI323329|Htt|Sert	solute carrier family 6 (neurotransmitter transporter, serotonin), member 4	protein-coding	13.0	44.0	17.5	131.5	47.5	10.0	16.0	11.5
Merged-chr6-83273946-4	chr6	83273839	83274039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166067, intron 13 of 24)	intron (NM_001166067, intron 13 of 24)	36564.0	NM_001166067	232156.0	Mm.333189	NM_001166067	ENSMUSG00000068323	Slc4a5	C330006M16|C330016K18Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 5	protein-coding	34.5	78.5	58.0	976.0	160.0	39.0	54.0	60.0
Merged-chr14-27114826-4	chr14	27114705	27114905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-29188.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	21.5	24.5	23.0	427.0	42.0	15.5	19.5	6.5
Merged-chr4-42877076-4	chr4	42876967	42877167	+	858.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2833.0	NM_177785	277773.0	Mm.212727	NM_177785	ENSMUSG00000050141	Fam205c	4931430D02|FAM205CP	family with sequence similarity 205, member C	protein-coding	8.0	18.0	4.0	212.0	65.0	9.5	17.0	18.5
Merged-chr6-71193369-4	chr6	71193263	71193463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6516.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	70.0	127.0	90.0	780.0	163.0	76.0	52.5	49.0
Merged-chr7-66388319-4	chr7	66388234	66388434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146191)	promoter-TSS (NM_146191)	7.0	NM_146191	233328.0	Mm.33284	NM_146191	ENSMUSG00000015133	Lrrk1	AW319595|C230002E15Rik|D130026O16Rik|mKIAA1790	leucine-rich repeat kinase 1	protein-coding	39.0	47.0	22.0	426.0	119.5	44.0	55.0	47.5
Merged-chr7-16313648-1	chr7	16313548	16313748	+	1000.0	f0_c57.idr	exon (NM_133234, exon 3 of 4)	exon (NM_133234, exon 3 of 4)	4065.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	20.0	39.0	22.5	301.0	93.5	35.5	45.5	31.5
Merged-chr6-81958229-3	chr6	81958126	81958326	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177884, exon 17 of 17)	3' UTR (NM_177884, exon 17 of 17)	7723.0	NM_026490	56284.0	Mm.276293	NM_026490	ENSMUSG00000030045	Mrpl19	9030416F12Rik|9130412E02Rik|D6Ertd157e|MRP-L15|RLX1|Rpml15	mitochondrial ribosomal protein L19	protein-coding	30.5	59.5	49.0	1122.5	7.5	0.5	7.5	5.5
Merged-chr2-102037294-5	chr2	102037208	102037408	+	974.8800050000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178886, intron 4 of 5)	MIRb|SINE|MIR	149152.0	NM_178886	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	19.5	45.0	22.0	300.5	40.5	20.5	14.5	11.5
Merged-chr12-32745970-2	chr12	32745870	32746070	+	940.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-74365.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	9.0	15.0	7.0	69.5	9.5	4.5	0.0	3.0
Merged-chr15-95827674-3	chr15	95827578	95827778	+	861.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	MLT1B|LTR|ERVL-MaLR	2394.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	9.5	13.0	4.5	92.5	24.5	10.0	5.0	11.5
Merged-chr13-94813990-4	chr13	94813919	94814119	+	968.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009321, intron 1 of 3)	intron (NM_009321, intron 1 of 3)	25076.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	6.0	21.0	8.5	78.0	31.0	11.0	6.5	8.5
Merged-chr8-119437053-4	chr8	119436947	119437147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027950)	promoter-TSS (NM_027950)	-115.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	245.0	352.0	221.0	3095.0	622.5	249.5	246.0	231.0
Merged-chr9-123498099-4	chr9	123498016	123498216	+	775.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013860, intron 1 of 7)	intron (NM_013860, intron 1 of 7)	19415.0	NM_013860	29806.0	Mm.10987	NM_013860	ENSMUSG00000025239	Limd1	AW822033|D9Ertd192e	LIM domains containing 1	protein-coding	7.0	15.5	6.0	204.0	18.5	4.5	13.5	9.0
Merged-chr9-40757394-6	chr9	40757302	40757502	+	923.0972289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-43871.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	11.0	11.5	8.0	39.5	39.5	16.0	11.5	13.0
Merged-chr6-5112633-3	chr6	5112544	5112744	+	980.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 8 of 15)	intron (NM_181595, intron 8 of 15)	81302.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	4.5	5.5	10.0	158.0	17.5	4.0	5.0	2.0
Merged-chr5-101938345-4	chr5	101938248	101938448	+	816.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 13 of 66)	B3|SINE|B2	131573.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	7.0	20.5	7.5	66.0	22.5	9.5	9.0	14.0
Merged-chr10-88379687-3	chr10	88379593	88379793	+	944.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 1 of 20)	CpG	281.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	12.5	10.0	11.0	119.0	28.5	3.5	13.0	9.5
Merged-chr16-65472680-4	chr16	65472572	65472772	+	884.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47957.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	16.5	22.0	8.5	213.0	44.0	26.0	13.5	18.0
Merged-chr3-89485359-3	chr3	89485259	89485459	+	781.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25788.0	NM_027348	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	10.0	17.0	7.0	57.5	19.0	5.5	12.0	6.0
Merged-chr17-78895587-4	chr17	78895482	78895682	+	899.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163625, intron 3 of 6)	intron (NM_001163625, intron 3 of 6)	11410.0	NM_001163625	73671.0	Mm.45514	NM_001163625	ENSMUSG00000038045	Sult6b1	2410078J06Rik|AV101767|ST6B1	sulfotransferase family, cytosolic, 6B, member 1	protein-coding	16.5	15.0	17.5	310.5	27.0	9.0	14.0	11.0
Merged-chr4-116684391-2	chr4	116684291	116684491	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NR_040442)	TTS (NR_040442)	-1208.0	NM_011034	18477.0	Mm.30929	NM_011034	ENSMUSG00000028691	Prdx1	MSP23|NkefA|OSF-3|OSF3|PAG|Paga|PrdxI|PrxI|TDX2|TPxA|Tdpx2|prx1	peroxiredoxin 1	protein-coding	3.5	5.0	7.0	54.0	25.5	7.0	7.5	9.5
Merged-chr1-55087136-2	chr1	55087036	55087236	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356512, intron 1 of 11)	intron (NM_001356512, intron 1 of 11)	796.0	NM_010477	15510.0	Mm.1777	NM_010477	ENSMUSG00000025980	Hspd1	60kDa|CPN60|HSP-60|HSP-65|Hsp60	heat shock protein 1 (chaperonin)	protein-coding	2.5	5.5	10.0	99.0	22.0	4.5	8.5	17.5
Merged-chr18-39021039-4	chr18	39020942	39021142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 1 of 21)	intron (NM_001361073, intron 1 of 21)	27897.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	73.5	87.5	68.5	1223.5	115.5	30.0	50.0	49.0
Merged-chr16-91545775-4	chr16	91545747	91545947	+	933.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1247.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	0.5	12.5	10.0	46.5	18.0	10.0	5.5	7.5
Merged-chr7-102249572-4	chr7	102249485	102249685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	533.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	37.5	73.5	45.0	197.0	115.5	34.5	62.0	27.0
Merged-chr6-128854245-4	chr6	128854148	128854348	+	793.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254946, intron 2 of 2)	intron (NM_001254946, intron 2 of 2)	-27933.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	7.0	11.5	7.0	100.5	24.5	12.5	13.0	8.0
Merged-chr6-140619927-4	chr6	140619805	140620005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-2758.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	40.5	53.5	52.0	725.0	114.5	32.5	56.0	59.5
Merged-chr10-122564689-4	chr10	122564582	122564782	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040616)	TTS (NR_040616)	5209.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	11.5	32.0	39.5	531.5	70.5	9.0	38.0	30.0
Merged-chr8-26158132-4	chr8	26158016	26158216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199042)	promoter-TSS (NM_199042)	-53.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	162.0	234.5	102.0	1924.0	367.5	130.5	172.5	114.0
Merged-chr12-99284653-4	chr12	99284550	99284750	+	883.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 4 of 5)	intron (NM_183186, intron 4 of 5)	-121842.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	16.5	9.5	12.5	343.0	32.5	11.0	12.5	13.0
Merged-chr5-136568972-4	chr5	136568863	136569063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-11653	-1473.0	NM_001291238	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	30.0	41.5	16.5	330.0	59.5	19.0	34.0	21.5
Merged-chr2-167588910-4	chr2	167588808	167589008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43097.0	NM_001311146	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	97.5	185.0	181.5	2296.0	280.5	74.0	106.0	111.0
Merged-chr9-98986340-4	chr9	98986258	98986458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122851)	promoter-TSS (NM_001122851)	-15.0	NM_011810	23873.0	Mm.74605	NM_011810	ENSMUSG00000032463	Faim	-	Fas apoptotic inhibitory molecule	protein-coding	322.0	443.5	319.5	4315.0	672.5	288.5	296.0	283.0
Merged-chr2-75777331-4	chr2	75777197	75777397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54880.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	72.5	98.5	59.5	993.5	144.0	64.5	65.5	90.0
Merged-chr8-104591371-4	chr8	104591267	104591467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024606)	promoter-TSS (NM_001024606)	-101.0	NM_001024606	382051.0	Mm.290750	NM_001024606	ENSMUSG00000048371	Pdp2	4833426J09Rik|Gm1705|mKIAA1348	pyruvate dehyrogenase phosphatase catalytic subunit 2	protein-coding	195.5	270.5	246.5	3238.0	460.0	205.0	225.5	194.0
Merged-chr6-124756820-4	chr6	124756742	124756942	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007881)	promoter-TSS (NM_007881)	-355.0	NM_007881	13498.0	Mm.333380	NM_007881	ENSMUSG00000004263	Atn1	Atr1|Drpla|atrophin-1	atrophin 1	protein-coding	12.0	17.0	12.5	211.0	25.5	10.0	6.0	18.0
Merged-chr5-34948932-1	chr5	34948832	34949032	+	744.0	f0_c57.idr	promoter-TSS (NM_173402)	promoter-TSS (NM_173402)	-516.0	NM_173402	71729.0	Mm.196208	NM_173402	ENSMUSG00000029101	Rgs12	1200016K18Rik|4632412M04Rik|AI481290|E130309H11	regulator of G-protein signaling 12	protein-coding	17.5	15.5	19.0	128.5	31.0	16.0	26.5	11.5
Merged-chr11-107229154-3	chr11	107229041	107229241	+	966.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 7 of 9)	B4A|SINE|B4	-39760.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	5.0	2.5	12.0	124.5	14.0	6.5	6.0	14.5
Merged-chr8-94371594-4	chr8	94371509	94371709	+	866.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14820.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	9.0	8.0	8.0	132.0	26.5	4.5	12.0	8.0
Merged-chr9-40761625-3	chr9	40761517	40761717	+	776.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 2 of 6)	intron (NM_133733, intron 2 of 6)	-39656.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	18.0	19.5	6.0	111.0	6.0	0.0	0.0	5.0
Merged-chr2-151996477-4	chr2	151996358	151996558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027172)	promoter-TSS (NM_027172)	-53.0	NM_027172	69698.0	Mm.258262	NM_027172	ENSMUSG00000027463	Slc52a3	2310046K01Rik|RFT2	solute carrier protein family 52, member 3	protein-coding	43.5	57.0	28.0	497.0	87.5	28.5	38.0	48.0
Merged-chr5-92345212-4	chr5	92345130	92345330	+	897.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	3659.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	16.0	45.0	14.5	115.5	44.0	26.5	15.0	7.5
Merged-chr10-8912408-4	chr10	8912296	8912496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26326.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	156.0	271.0	214.0	2813.5	294.0	122.0	165.5	182.5
Merged-chr18-6109039-2	chr18	6108939	6109139	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039692, intron 3 of 18)	intron (NM_001039692, intron 3 of 18)	27059.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	7.0	6.0	1.0	63.0	19.0	8.0	4.5	10.5
Merged-chr2-33176645-2	chr2	33176545	33176745	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290570, intron 7 of 16)	MIR3|SINE|MIR	-39316.0	NM_011923	26360.0	Mm.208919	NM_011923	ENSMUSG00000004105	Angptl2	AI593246|AW260363|Arp2	angiopoietin-like 2	protein-coding	1.0	5.0	6.0	117.0	12.0	5.5	7.0	12.0
Merged-chr18-79110222-4	chr18	79110139	79110339	+	913.875	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053099)	promoter-TSS (NM_053099)	-848.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	7.0	5.0	14.5	139.5	6.0	5.5	4.0	7.5
Merged-chr8-85555332-4	chr8	85555225	85555425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019794)	promoter-TSS (NM_019794)	-54.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	70.0	81.5	55.5	776.5	208.0	97.0	85.5	92.5
Merged-chr1-155223930-2	chr1	155223830	155224030	+	782.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65227.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	7.0	6.5	5.0	106.5	13.0	5.0	7.5	6.0
Merged-chr12-74013941-3	chr12	74013850	74014050	+	772.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172804, intron 1 of 6)	intron (NM_172804, intron 1 of 6)	16189.0	NM_172804	238266.0	Mm.311393	NM_172804	ENSMUSG00000044912	Syt16	6430703N11|Strep14|Syt14l|syt14r	synaptotagmin XVI	protein-coding	2.5	9.5	6.0	106.5	18.0	9.0	12.5	10.0
Merged-chr4-155993133-4	chr4	155993019	155993219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302469)	promoter-TSS (NM_001302469)	-34.0	NM_001302469	20318.0	Mm.293517	NM_011341	ENSMUSG00000029076	Sdf4	Cab45	stromal cell derived factor 4	protein-coding	42.0	70.0	30.0	490.5	155.0	52.5	46.0	44.0
Merged-chr1-93072619-4	chr1	93072530	93072730	+	951.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294150, intron 8 of 46)	intron (NM_001294150, intron 8 of 46)	9850.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	16.0	23.0	12.0	129.0	40.0	14.0	24.0	14.0
Merged-chr11-76440060-3	chr11	76439983	76440183	+	849.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 15 of 21)	intron (NM_001346670, intron 15 of 21)	28382.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	12.5	15.0	11.5	141.0	15.5	9.5	3.0	10.5
Merged-chr18-67250038-4	chr18	67249939	67250139	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-4209.0	NM_001357518	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	1.0	10.5	5.0	109.0	26.5	9.5	18.5	11.0
Merged-chr18-80702652-4	chr18	80702543	80702743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	intron (NM_198429, intron 1 of 9)	5530.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	117.5	103.0	153.5	1715.5	162.0	70.5	66.5	92.5
Merged-chr7-127042479-4	chr7	127042360	127042560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145588)	promoter-TSS (NM_145588)	-40.0	NM_145588	110033.0	Mm.286488	NM_145588	ENSMUSG00000030677	Kif22	AU021460|C81217|Kid|Kif22a	kinesin family member 22	protein-coding	45.5	70.5	40.0	429.5	153.5	61.5	45.0	40.5
Merged-chr11-120720635-4	chr11	120720536	120720736	+	935.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133223)	promoter-TSS (NM_133223)	-832.0	NM_133223	170758.0	Mm.34008	NM_133223	ENSMUSG00000018012	Rac3	Rac1B	Rac family small GTPase 3	protein-coding	21.5	15.5	7.0	143.5	38.0	13.0	11.5	27.5
Merged-chr6-122599898-4	chr6	122599816	122600016	+	796.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 2 of 7)	RSINE1|SINE|B4	2528.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	20.5	11.5	5.5	38.5	28.0	8.0	7.0	9.0
Merged-chr1-135544975-4	chr1	135544876	135545076	+	959.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 1 of 28)	intron (NM_173437, intron 1 of 28)	40379.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	18.0	21.0	17.5	305.5	40.0	16.0	15.5	10.5
Merged-chr13-99344041-4	chr13	99343911	99344111	+	834.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173757)	promoter-TSS (NM_173757)	667.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	11.0	12.0	10.5	196.5	17.5	6.5	10.5	13.0
Merged-chr7-111383876-4	chr7	111383780	111383980	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-261205.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	21.5	49.5	10.0	406.0	116.5	41.5	58.0	49.0
Merged-chr4-3640076-3	chr4	3639982	3640182	+	861.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16424.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	3.0	12.0	5.0	39.5	25.5	8.0	12.0	19.5
Merged-chr6-136717738-3	chr6	136717674	136717874	+	932.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 18 of 25)	intron (NM_145067, intron 18 of 25)	-55881.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	1.0	0.0	4.0	77.0	34.0	18.5	15.5	26.5
Merged-chr9-106319309-3	chr9	106319211	106319411	+	710.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	38250.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	4.5	2.0	5.5	37.5	22.5	6.0	11.5	13.5
Merged-chr4-103282458-3	chr4	103282356	103282556	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163494, intron 1 of 7)	RLTR22_Mur|LTR|ERVK	8407.0	NM_027612	70941.0	Mm.158501	NM_027612	ENSMUSG00000028520	4921539E11Rik	-	RIKEN cDNA 4921539E11 gene	protein-coding	24.0	30.5	28.0	361.0	5.0	0.0	1.0	8.5
Merged-chr4-11489250-4	chr4	11489149	11489349	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081183, intron 1 of 24)	intron (NM_001081183, intron 1 of 24)	3291.0	NM_001347055	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	10.5	13.0	14.5	174.0	25.0	7.0	12.5	9.0
Merged-chr17-83732962-4	chr17	83732869	83733069	+	973.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 3 of 16)	B3A|SINE|B2	26806.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	11.5	40.5	15.5	307.5	78.0	14.5	29.0	36.0
Merged-chr8-111034482-2	chr8	111034382	111034582	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146217, intron 1 of 20)	B1F|SINE|Alu	640.0	NM_146217	234734.0	Mm.24174	NM_146217	ENSMUSG00000031960	Aars	AI316495|C76919|sti	alanyl-tRNA synthetase	protein-coding	5.0	9.0	16.0	152.0	12.5	7.0	6.5	7.0
Merged-chr8-122273337-3	chr8	122273219	122273419	+	900.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8822.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	8.0	7.5	5.0	98.0	18.5	8.0	11.0	9.0
Merged-chr5-63828940-4	chr5	63828844	63829044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	16449.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	45.0	76.5	50.5	885.5	143.5	54.5	63.5	49.5
Merged-chr9-21859750-3	chr9	21859645	21859845	+	887.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-7110.0	NM_177030	319899.0	Mm.128153	NM_177030	ENSMUSG00000032198	Dock6	2410095B20Rik|4931431C02Rik|C330023D02Rik|mKIAA1395	dedicator of cytokinesis 6	protein-coding	8.5	12.5	6.5	123.5	15.0	9.0	14.0	6.0
Merged-chr1-152795858-2	chr1	152795758	152795958	+	916.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4295.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	3.5	7.0	2.0	28.5	10.0	5.0	7.0	8.0
Merged-chr12-75694615-4	chr12	75694524	75694724	+	861.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	-25087.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	13.0	12.0	15.5	236.5	31.5	3.5	5.5	11.5
Merged-chr10-117397348-4	chr10	117397227	117397427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-20354.0	NM_001310609	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	42.5	71.5	46.5	1038.5	113.0	30.0	57.0	47.5
Merged-chr10-54117971-4	chr10	54117878	54118078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42056.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	210.0	254.5	193.5	3178.0	501.0	143.5	194.5	155.0
Merged-chr9-124020067-4	chr9	124019977	124020177	+	994.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-1894.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	40.0	36.5	51.0	624.0	43.0	18.5	27.0	36.5
Merged-chr8-10007407-4	chr8	10007335	10007535	+	859.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033622, intron 2 of 6)	intron (NM_033622, intron 2 of 6)	802.0	NM_033622	24099.0	Mm.28835	NM_033622	ENSMUSG00000031497	Tnfsf13b	BAFF|BLyS|D8Ertd387e|TALL-1|TALL1|THANK|TNFSF20|Tnlg7a|zTNF4	tumor necrosis factor (ligand) superfamily, member 13b	protein-coding	6.0	9.0	10.0	31.5	21.0	7.5	6.5	12.0
Merged-chr2-116943372-6	chr2	116943247	116943447	+	864.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	43195.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	4.0	11.0	20.5	137.5	20.5	6.5	7.5	5.5
Merged-chr10-24103503-4	chr10	24103392	24103592	+	689.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1541.0	NM_001010840	494546.0	Mm.379739	NM_001010840	ENSMUSG00000100004	Taar8c	taR-8c	trace amine-associated receptor 8C	protein-coding	5.5	11.5	14.0	97.5	27.0	5.5	10.0	14.0
Merged-chr3-55612382-4	chr3	55612305	55612505	+	902.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150677.0	NM_001357476	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	21.0	19.5	15.0	281.5	22.5	7.0	12.5	16.0
Merged-chr4-101367452-4	chr4	101367373	101367573	+	812.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040640, intron 2 of 3)	intron (NR_040640, intron 2 of 3)	-11225.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	6.5	14.0	8.5	99.5	30.5	13.5	10.0	9.5
Merged-chr19-4284482-3	chr19	4284380	4284580	+	927.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1343.0	NM_026720	68423.0	Mm.23642	NM_026720	ENSMUSG00000005986	Ankrd13d	0710001P18Rik|AI430801	ankyrin repeat domain 13 family, member D	protein-coding	9.0	4.5	11.5	143.0	19.5	3.5	8.5	5.5
Merged-chr3-95043099-4	chr3	95043010	95043210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008951)	promoter-TSS (NM_008951)	-496.0	NM_008951	19185.0	Mm.2261	NM_008951	ENSMUSG00000005625	Psmd4	Af1|Mcb1|angiocidin	proteasome (prosome, macropain) 26S subunit, non-ATPase, 4	protein-coding	64.5	64.0	34.5	789.0	131.0	44.5	40.5	57.5
Merged-chr3-108050682-4	chr3	108050573	108050773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB1|LINE|L1	-5814.0	NM_001160411	14865.0	Mm.31203	NM_026764	ENSMUSG00000027890	Gstm4	1110004G14Rik|GSTM7-7|Gstb-4|Gstb4	glutathione S-transferase, mu 4	protein-coding	55.0	84.5	32.0	900.5	110.0	57.5	63.0	49.0
Merged-chr1-144002839-4	chr1	144002740	144002940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009061, exon 3 of 5)	exon (NM_009061, exon 3 of 5)	1309.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	44.0	55.5	58.5	859.5	111.0	47.0	65.5	54.5
Merged-chr1-33892960-4	chr1	33892844	33893044	+	852.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	intron (NM_177235, intron 1 of 6)	14677.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	3.0	8.5	4.0	127.0	14.5	10.5	6.0	18.0
Merged-chr16-38399644-2	chr16	38399544	38399744	+	977.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_134102, intron 9 of 10)	intron (NM_134102, intron 9 of 10)	33501.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	7.5	15.0	5.5	59.0	16.0	2.5	3.0	5.5
Merged-chr2-78060272-2	chr2	78060167	78060367	+	787.5	f0_balb.idr|f0_c57.idr	intron (NR_108098, intron 1 of 6)	intron (NR_108098, intron 1 of 6)	9090.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	11.5	29.5	7.5	104.5	27.5	8.5	10.0	9.5
Merged-chr6-39527959-4	chr6	39527861	39528061	+	956.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 1 of 18)	ORR1C2|LTR|ERVL-MaLR	29873.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	25.0	29.5	21.5	285.0	85.5	26.0	15.5	14.0
Merged-chr5-123713974-4	chr5	123713872	123714072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027494, intron 5 of 13)	intron (NM_027494, intron 5 of 13)	7072.0	NM_027494	70650.0	Mm.279427	NM_027494	ENSMUSG00000029427	Zcchc8	5730565F05Rik	zinc finger, CCHC domain containing 8	protein-coding	87.5	120.5	57.5	1098.5	189.0	90.5	78.5	120.5
Merged-chr13-108335428-4	chr13	108335353	108335553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178683, intron 2 of 10)	intron (NM_178683, intron 2 of 10)	19116.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	86.0	81.5	49.5	1186.5	87.0	18.0	42.0	30.0
Merged-chr18-80200660-4	chr18	80200578	80200778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199197)	promoter-TSS (NM_199197)	-59.0	NM_199197	68731.0	Mm.186936	NM_199197	ENSMUSG00000024570	Rbfa	1110032A13Rik|AI595940	ribosome binding factor A	protein-coding	106.5	141.0	74.5	1326.0	311.0	132.0	175.0	125.5
Merged-chr13-55209024-2	chr13	55208924	55209124	+	916.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008739)	promoter-TSS (NM_008739)	-758.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	6.0	8.5	2.5	51.5	10.0	11.0	4.5	10.0
Merged-chr2-93590074-4	chr2	93589993	93590193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52341.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	91.0	92.0	127.0	1864.5	195.0	75.0	85.0	73.0
Merged-chr14-67715412-3	chr14	67715323	67715523	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285933)	promoter-TSS (NM_001285933)	187.0	NM_001110162	108912.0	Mm.33831	NM_175384	ENSMUSG00000048922	Cdca2	2610311M19Rik|AI586158	cell division cycle associated 2	protein-coding	52.0	51.0	31.5	359.5	91.5	46.0	54.5	47.0
Merged-chr8-40294006-3	chr8	40293910	40294110	+	978.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7057.0	NM_030610	80857.0	Mm.425526	NM_030610	ENSMUSG00000031603	Fgf20	-	fibroblast growth factor 20	protein-coding	16.5	40.5	22.0	431.5	17.0	4.5	4.0	9.0
Merged-chr1-87327392-3	chr1	87327291	87327491	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146112, intron 1 of 28)	CpG	393.0	NM_001110212	227331.0	Mm.23065	NM_146112	ENSMUSG00000048000	Gigyf2	2610016F01Rik|A830080H02Rik|AI852361|AW259676|BC006835|Tnrc15|mKIAA0642	GRB10 interacting GYF protein 2	protein-coding	17.5	32.0	24.5	372.0	47.5	23.0	21.0	41.0
Merged-chr7-35057252-4	chr7	35057162	35057362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009884)	promoter-TSS (NM_009884)	-696.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	78.0	85.0	47.0	1009.0	143.0	41.5	60.5	72.5
Merged-chr7-90482872-4	chr7	90482773	90482973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6878.0	NM_026734	68472.0	Mm.289791	NM_026734	ENSMUSG00000030614	Tmem126b	1110001A23Rik	transmembrane protein 126B	protein-coding	60.5	86.0	80.0	1428.0	48.0	17.5	26.0	37.0
Merged-chr9-66887015-4	chr9	66886957	66887157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	32648.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	84.5	142.0	103.5	1414.5	238.5	89.5	104.0	107.5
Merged-chr10-42278177-2	chr10	42278078	42278278	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	CpG-1005	-1436.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	102.5	109.0	58.5	1396.0	298.5	86.0	96.0	137.0
Merged-chr16-77444209-4	chr16	77444117	77444317	+	813.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015543, intron 2 of 4)	intron (NR_015543, intron 2 of 4)	114889.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	8.0	15.5	6.5	210.5	42.0	13.5	23.5	20.0
Merged-chr8-72295875-4	chr8	72295768	72295968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23194.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	182.5	316.0	306.5	3794.5	470.5	197.0	285.5	237.5
Merged-chr17-32321313-4	chr17	32321214	32321414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131218)	promoter-TSS (NR_131218)	-76.0	NR_131218	56399.0	Mm.328945	NM_019774	ENSMUSG00000024045	Akap8	1200016A02Rik|AA673585|AKAP-8|AKAP95|AU015639	A kinase (PRKA) anchor protein 8	protein-coding	213.0	223.5	201.5	2467.0	393.0	187.0	189.5	151.0
Merged-chr7-19936200-4	chr7	19936101	19936301	+	871.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR53_Mm|LTR|ERVK	14542.0	NM_027308	70080.0	Mm.98583	NM_027308	ENSMUSG00000040498	Igsf23	2210010C17Rik	immunoglobulin superfamily, member 23	protein-coding	7.0	29.5	7.5	137.5	62.5	17.5	15.0	14.5
Merged-chr15-99498139-4	chr15	99498028	99498228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028224, exon 12 of 12)	3' UTR (NM_028224, exon 12 of 12)	-23398.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	53.0	50.0	26.5	422.0	99.5	29.0	42.0	29.5
Merged-chr9-121846870-3	chr9	121846798	121846998	+	972.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER2|DNA|TcMar-Tigger	-7437.0	NM_028384	100502861.0	Mm.335550	NM_028384	ENSMUSG00000079235	Ccdc13	2900041A11Rik|Gm188	coiled-coil domain containing 13	protein-coding	24.5	18.5	20.5	232.0	9.5	6.5	7.5	11.0
Merged-chr10-61275947-4	chr10	61275857	61276057	+	799.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2519.0	NM_001081127	237360.0	Mm.333252	NM_001081127	ENSMUSG00000059901	Adamts14	Adamts-14|TS14	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 14	protein-coding	10.0	8.5	13.0	97.0	24.0	6.5	6.5	13.5
Merged-chr1-131432100-4	chr1	131432007	131432207	+	905.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 3 of 22)	intron (NM_001081011, intron 3 of 22)	95254.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	15.5	30.0	12.5	193.5	25.0	6.0	14.5	18.5
Merged-chr1-59464833-3	chr1	59464736	59464936	+	749.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17311.0	NM_008057	14369.0	Mm.297906	NM_008057	ENSMUSG00000041075	Fzd7	Fz7	frizzled class receptor 7	protein-coding	17.0	12.0	15.5	187.5	9.5	7.0	4.0	6.0
Merged-chr18-38380339-4	chr18	38380252	38380452	+	885.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38555.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	13.5	16.5	16.0	146.5	39.0	6.5	11.0	8.5
Merged-chr4-83322954-3	chr4	83322850	83323050	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	intron (NM_027238, intron 1 of 19)	1239.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	4.5	8.0	5.5	90.0	13.0	4.0	1.0	8.5
Merged-chr15-38661888-4	chr15	38661799	38661999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025494)	promoter-TSS (NM_025494)	-5.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	158.0	231.0	137.0	1913.0	464.5	175.0	177.5	168.0
Merged-chr1-184662325-2	chr1	184662225	184662425	+	945.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50172.0	NR_040627	74971.0	Mm.410816	NR_040627	ENSMUSG00000092578	4930488B22Rik	-	RIKEN cDNA 4930488B22 gene	ncRNA	9.5	27.0	6.0	67.0	14.0	11.0	3.0	11.0
Merged-chr6-48445517-4	chr6	48445454	48445654	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085415)	promoter-TSS (NM_001085415)	271.0	NM_020589	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	20.5	17.5	28.0	205.0	34.5	9.5	19.0	21.5
Merged-chr11-120989793-3	chr11	120989659	120989859	+	879.93335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027874, intron 1 of 9)	intron (NM_027874, intron 1 of 9)	1574.0	NM_139059	104318.0	Mm.216227	NM_027874	ENSMUSG00000025162	Csnk1d	1200006A05Rik|AA409348|D930010H05Rik	casein kinase 1, delta	protein-coding	2.5	16.0	2.5	34.5	26.0	10.5	4.5	7.5
Merged-chr13-89384848-4	chr13	89384734	89384934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	-155802.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	47.5	64.0	64.5	589.5	505.0	177.0	194.0	171.0
Merged-chr10-62594130-3	chr10	62593998	62594198	+	881.533325	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019553, exon 4 of 15)	exon (NM_019553, exon 4 of 15)	8200.0	NM_019553	56200.0	Mm.413275	NM_019553	ENSMUSG00000020075	Ddx21	AI255159|AL022742|D10Ertd645e|D10Wsu42e	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	protein-coding	6.5	10.0	3.0	56.0	30.0	11.5	8.0	14.5
Merged-chr18-82475947-4	chr18	82475845	82476045	+	932.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 1 of 3)	intron (NM_001025245, intron 1 of 3)	822.0	NM_010777	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	19.0	18.0	20.5	186.5	28.5	11.5	11.5	14.0
Merged-chr4-63559517-4	chr4	63559477	63559677	+	887.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144905)	promoter-TSS (NM_144905)	-650.0	NM_144905	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	2.0	5.5	9.0	100.0	9.0	5.0	9.0	15.5
Merged-chr5-149235268-4	chr5	149235159	149235359	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-29745.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	28.5	19.5	28.5	810.5	45.0	10.0	44.5	22.5
Merged-chr4-149543350-4	chr4	149543247	149543447	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023465, intron 2 of 4)	intron (NM_023465, intron 2 of 4)	-1770.0	NM_001141930	67087.0	Mm.299735	NM_023465	ENSMUSG00000028988	Ctnnbip1	1110008O09Rik|2310001I19Rik|AW457332|Catnbip1|Icat	catenin beta interacting protein 1	protein-coding	5.5	13.5	6.5	134.0	26.0	12.5	14.5	11.0
Merged-chr6-134531484-4	chr6	134531386	134531586	+	958.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 2 of 22)	intron (NM_008514, intron 2 of 22)	35427.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	19.5	31.5	14.5	276.0	56.0	28.5	22.0	11.0
Merged-chr1-172335964-4	chr1	172335866	172336066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5244.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	80.5	145.0	96.0	949.0	133.5	47.0	46.0	38.0
Merged-chr16-59559742-4	chr16	59559624	59559824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3972.0	NM_174848	224273.0	Mm.246424	NM_174848	ENSMUSG00000022723	Crybg3	5031404N19|AU022790|Gm9581	beta-gamma crystallin domain containing 3	protein-coding	18.5	20.5	9.0	173.5	29.5	17.0	26.5	12.5
Merged-chr8-20297542-4	chr8	20297444	20297644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030708)	promoter-TSS (NR_030708)	-112.0	NR_030708	547150.0	Mm.359054	NR_030708	ENSMUSG00000071796	6820431F20Rik	-	cadherin 11 pseudogene	pseudo	99.5	171.0	106.0	2475.5	254.0	64.5	116.5	86.5
Merged-chr4-53012068-7	chr4	53011971	53012171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025623, intron 1 of 5)	CpG	191.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	122.5	251.0	190.0	1544.0	199.0	119.5	88.5	106.0
Merged-chr3-115715038-4	chr3	115714901	115715101	+	950.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007901)	promoter-TSS (NM_007901)	54.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	15.5	22.5	37.0	235.5	26.0	7.0	7.5	14.0
Merged-chr11-68475407-4	chr11	68475285	68475485	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 2 of 18)	intron (NM_177320, intron 2 of 18)	-27634.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	17.5	19.0	12.0	121.0	39.5	7.5	12.5	6.5
Merged-chr12-57211821-3	chr12	57211700	57211900	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14328.0	NM_172577	217593.0	Mm.32835	NM_172577	ENSMUSG00000035472	Slc25a21	9930033G19Rik|A630030I10|BB158148	solute carrier family 25 (mitochondrial oxodicarboxylate carrier), member 21	protein-coding	13.0	15.0	25.0	133.5	7.5	8.0	13.5	7.5
Merged-chr18-38211845-3	chr18	38211739	38211939	+	854.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2077.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	3.5	3.5	5.0	27.5	16.0	9.5	7.5	10.0
Merged-chr12-98833199-4	chr12	98833128	98833328	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 21 of 43)	intron (NM_001081191, intron 21 of 43)	62206.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	15.0	28.5	11.5	213.5	69.0	16.0	38.5	27.5
Merged-chr9-101075462-4	chr9	101075373	101075573	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100451, intron 1 of 1)	CpG	711.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	18.0	27.0	24.0	361.5	75.0	17.0	22.0	30.0
Merged-chr6-89258337-4	chr6	89258233	89258433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27392.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	68.0	114.5	86.0	1659.0	186.5	68.0	95.5	116.5
Merged-chr4-133139173-3	chr4	133139081	133139281	+	734.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	8548.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	9.0	15.0	9.0	99.0	10.0	3.5	7.5	8.0
Merged-chr10-62530394-4	chr10	62530311	62530511	+	983.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2966.0	NM_001358965	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	42.5	21.5	78.0	1149.5	34.5	9.5	24.5	33.0
Merged-chr8-40647960-4	chr8	40647880	40648080	+	895.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-13188.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	12.0	10.5	18.0	253.5	57.5	11.0	40.5	35.0
Merged-chr19-11081151-3	chr19	11081034	11081234	+	845.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022430)	promoter-TSS (NM_022430)	-31.0	NM_022430	64381.0	Mm.34460	NM_022430	ENSMUSG00000024730	Ms4a8a	2010004L09Rik|AI481240|CD20L5|Ms4a8	membrane-spanning 4-domains, subfamily A, member 8A	protein-coding	8.0	6.5	6.0	95.0	27.0	5.5	5.0	3.0
Merged-chr8-111299465-4	chr8	111299347	111299547	+	954.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146218, intron 1 of 12)	intron (NM_146218, intron 1 of 12)	775.0	NM_146218	234736.0	Mm.334816	NM_146218	ENSMUSG00000033596	Rfwd3	BC027246	ring finger and WD repeat domain 3	protein-coding	12.5	27.5	17.0	232.0	53.5	12.5	11.0	17.5
Merged-chr10-68735888-4	chr10	68735797	68735997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	12151.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	95.0	111.0	190.5	2916.5	324.5	100.5	185.0	155.5
Merged-chr1-10009161-4	chr1	10009052	10009252	+	718.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110971)	promoter-TSS (NR_110971)	-16.0	NM_145692	69312.0	Mm.386795	NM_027033	ENSMUSG00000025916	Ppp1r42	1700011J18Rik|4930418G15Rik|Lrrc67|TLRR	protein phosphatase 1, regulatory subunit 42	protein-coding	10.5	18.5	9.0	167.0	23.5	11.0	13.0	17.0
Merged-chr2-154402165-3	chr2	154402065	154402265	+	923.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009228, intron 2 of 7)	B3|SINE|B2	5919.0	NM_009228	20648.0	Mm.1541	NM_009228	ENSMUSG00000027488	Snta1	AW228934|Snt1	syntrophin, acidic 1	protein-coding	10.5	6.0	4.0	155.5	15.0	4.5	7.0	11.0
Merged-chr9-44320871-4	chr9	44320756	44320956	+	963.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027909)	promoter-TSS (NM_027909)	-574.0	NM_027909	71764.0	Mm.491174	NM_027909	ENSMUSG00000032120	C2cd2l	1300006O23Rik|Tmem24	C2 calcium-dependent domain containing 2-like	protein-coding	16.0	19.5	7.5	243.5	42.5	14.0	15.0	18.5
Merged-chr8-115707950-4	chr8	115707866	115708066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1072.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	105.0	161.5	67.5	1366.5	288.0	101.5	133.0	134.0
Merged-chr3-89164795-4	chr3	89164696	89164896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007712)	promoter-TSS (NM_007712)	1.0	NM_001163432	12748.0	Mm.288098	NM_007712	ENSMUSG00000068917	Clk2	AU041688	CDC-like kinase 2	protein-coding	115.5	182.5	102.0	1756.0	294.5	144.0	163.0	153.0
Merged-chr13-9883220-4	chr13	9883125	9883325	+	897.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 4 of 4)	intron (NM_033269, intron 4 of 4)	-117904.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	21.0	28.0	18.5	288.5	17.0	11.5	24.5	10.5
Merged-chr4-34526914-4	chr4	34526805	34527005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23710.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	75.0	55.5	33.0	1131.5	169.5	44.0	35.5	64.0
Merged-chr11-88069123-4	chr11	88068988	88069188	+	892.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016686, intron 1 of 5)	CpG	809.0	NM_016686	22344.0	Mm.46628	NM_016686	ENSMUSG00000018377	Vezf1	AI848691|AW046909|db1	vascular endothelial zinc finger 1	protein-coding	18.5	18.0	13.0	89.0	57.0	9.5	8.0	15.0
Merged-chr19-16419888-2	chr19	16419788	16419988	+	819.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-15779.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	5.0	1.0	0.0	31.0	15.5	6.0	9.0	9.0
Merged-chr14-63129170-4	chr14	63129076	63129276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	6714.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	248.0	273.5	187.5	2750.5	483.5	224.0	188.5	194.5
Merged-chr14-54735737-4	chr14	54735634	54735834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016972, exon 5 of 11)	exon (NM_016972, exon 5 of 11)	-23560.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	38.5	46.5	35.0	486.5	72.5	23.0	23.5	26.0
Merged-chr19-12558346-4	chr19	12558231	12558431	+	976.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-15179.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	26.5	20.0	8.5	197.0	43.5	14.5	22.0	21.5
Merged-chr8-31123428-6	chr8	31123291	31123491	+	923.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175136, intron 2 of 5)	intron (NM_175136, intron 2 of 5)	11545.0	NM_175136	68867.0	Mm.29532	NM_175136	ENSMUSG00000039328	Rnf122	1110063C11Rik	ring finger protein 122	protein-coding	6.0	11.5	14.5	190.0	38.5	9.5	38.5	15.0
Merged-chr6-114655470-3	chr6	114655353	114655553	+	844.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 2 of 19)	intron (NM_001253718, intron 2 of 19)	12356.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	7.5	9.5	9.0	94.0	19.0	7.5	9.0	5.5
Merged-chr1-183635280-3	chr1	183635222	183635422	+	901.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113655.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	0.0	2.0	4.0	0.0	51.0	31.5	21.5	20.5
Merged-chr7-109859622-2	chr7	109859522	109859722	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_020052, intron 2 of 21)	intron (NM_020052, intron 2 of 21)	6057.0	NM_020052	56788.0	Mm.40447	NM_020052	ENSMUSG00000007279	Scube2	4932442O19Rik|Cegf1|Cegp1	signal peptide, CUB domain, EGF-like 2	protein-coding	6.0	6.5	6.0	129.5	18.0	3.0	7.0	9.0
Merged-chr15-78325949-4	chr15	78325858	78326058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007780)	promoter-TSS (NM_007780)	-32.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	56.5	44.0	55.5	710.0	104.0	41.5	45.5	57.0
Merged-chr6-135362704-3	chr6	135362623	135362823	+	752.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010128)	promoter-TSS (NM_010128)	-208.0	NM_010128	13730.0	Mm.182785	NM_010128	ENSMUSG00000030208	Emp1	I-8-09|TMP	epithelial membrane protein 1	protein-coding	14.5	14.0	11.5	334.5	4.5	0.0	3.5	2.0
Merged-chr7-127750719-4	chr7	127750619	127750819	+	915.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172748, intron 5 of 10)	intron (NM_172748, intron 5 of 10)	3944.0	NM_172748	233902.0	Mm.259353	NM_172748	ENSMUSG00000030811	Fbxl19	6030430O11|BC059812|Fbl19	F-box and leucine-rich repeat protein 19	protein-coding	14.0	20.5	10.0	164.0	43.5	9.5	21.5	10.0
Merged-chr17-34628292-3	chr17	34628179	34628379	+	765.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302394)	promoter-TSS (NM_001302394)	0.0	NM_001302393	54397.0	Mm.373627	NM_019441	ENSMUSG00000015474	Ppt2	0610007M19Rik|AA672937	palmitoyl-protein thioesterase 2	protein-coding	8.0	7.5	11.5	64.0	11.0	3.0	8.0	8.0
Merged-chr4-135440277-4	chr4	135440177	135440377	+	939.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-6472.0	NM_022980	53902.0	Mm.331970	NM_022980	ENSMUSG00000059713	Rcan3	AU041093|Csp3|Dscr1l2	regulator of calcineurin 3	protein-coding	19.0	9.5	12.5	144.5	46.0	13.0	5.5	14.5
Merged-chr2-173018165-3	chr2	173018137	173018337	+	929.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3665.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	14.5	16.0	11.5	130.5	21.0	6.5	5.0	9.0
Merged-chr16-57398799-3	chr16	57398688	57398888	+	834.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	45511.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	6.5	5.5	5.5	65.5	34.5	4.5	6.5	14.0
Merged-chr11-103028430-4	chr11	103028320	103028520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008707)	promoter-TSS (NM_008707)	-123.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	178.0	320.0	191.5	2026.0	442.0	211.5	181.0	212.0
Merged-chr18-70531485-4	chr18	70531376	70531576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1155.0	NM_001289515	26447.0	Mm.244352	NM_011972	ENSMUSG00000038425	Poli	Rad30b	polymerase (DNA directed), iota	protein-coding	27.5	48.0	19.0	215.0	154.5	52.5	61.0	30.5
Merged-chr3-96269628-4	chr3	96269542	96269742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175666)	promoter-TSS (NM_175666)	-58.0	NM_175666	319189.0	Mm.297655	NM_175666	ENSMUSG00000105827	Hist2h2bb	H2b-616	histone cluster 2, H2bb	protein-coding	168.5	252.0	97.5	2057.0	322.0	110.5	118.5	111.0
Merged-chr4-149729005-4	chr4	149728915	149729115	+	905.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284270, intron 4 of 10)	intron (NM_001284270, intron 4 of 10)	8755.0	NM_001284273	230917.0	Mm.266704	NM_177672	ENSMUSG00000044700	Tmem201	AV028368|D4Ertd429e|Net5|Samp1	transmembrane protein 201	protein-coding	17.0	28.0	12.5	328.5	23.0	14.5	14.0	8.0
Merged-chr8-34918625-4	chr8	34918506	34918706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 2 of 26)	intron (NM_175091, intron 2 of 26)	47084.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	71.5	59.5	34.0	1538.5	87.5	36.5	18.5	40.0
Merged-chr18-62977862-4	chr18	62977814	62978014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028017)	promoter-TSS (NM_028017)	-2.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	75.0	113.5	91.5	1056.5	155.0	70.0	74.0	75.5
Merged-chr2-129413787-4	chr2	129413708	129413908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42669.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	49.0	121.0	62.0	972.5	78.5	23.0	54.0	28.5
Merged-chr8-3279572-4	chr8	3279465	3279665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010568)	promoter-TSS (NM_010568)	52.0	NM_010568	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	107.5	164.5	168.0	1858.0	256.5	91.5	119.5	88.0
Merged-chr5-100639134-4	chr5	100639024	100639224	+	993.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35132.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	23.0	11.5	25.0	193.0	83.0	26.0	22.5	32.0
Merged-chr14-70077940-3	chr14	70077874	70078074	+	878.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289927, intron 1 of 1)	CpG	179.0	NM_001289927	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	3.5	4.5	2.5	46.5	23.5	7.0	6.0	8.0
Merged-chr11-4118698-4	chr11	4118613	4118813	+	863.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144520)	promoter-TSS (NM_144520)	16.0	NM_144520	67815.0	Mm.253922	NM_144520	ENSMUSG00000003585	Sec14l2	1300013M05Rik|Spf|TAP	SEC14-like lipid binding 2	protein-coding	4.5	8.0	4.0	42.0	11.5	5.0	8.5	9.0
Merged-chr17-27588624-1	chr17	27588524	27588724	+	599.5	f1_c57bl6.idr	intron (NM_001291046, intron 2 of 4)	intron (NM_001291046, intron 2 of 4)	-22897.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	2.0	2.5	0.0	26.0	13.0	5.5	7.0	5.5
Merged-chr19-26606726-4	chr19	26606642	26606842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 1 of 32)	CpG	1582.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	43.0	39.0	42.0	419.5	66.0	26.5	30.5	32.0
Merged-chr7-44247249-3	chr7	44247136	44247336	+	897.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025880, intron 1 of 5)	intron (NM_025880, intron 1 of 5)	514.0	NM_025880	668661.0	Mm.274492	NM_025880	ENSMUSG00000045411	2410002F23Rik	-	RIKEN cDNA 2410002F23 gene	protein-coding	11.5	26.5	27.0	193.0	42.0	4.5	9.5	19.0
Merged-chr3-154332102-4	chr3	154331983	154332183	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040387, intron 1 of 2)	intron (NR_040387, intron 1 of 2)	1262.0	NR_040387	99686.0	Mm.38082	NR_040387	ENSMUSG00000093738	AI606473	-	expressed sequence AI606473	ncRNA	17.0	15.0	7.0	341.0	26.0	13.0	17.5	8.5
Merged-chr17-43570638-4	chr17	43570544	43570744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	2193.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	104.0	139.0	117.0	984.5	152.0	61.5	50.0	38.0
Merged-chr10-80826440-4	chr10	80826348	80826548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027656)	promoter-TSS (NR_027656)	-208.0	NM_001301034	18245.0	Mm.398119	NM_008753	ENSMUSG00000035242	Oaz1	AZ-1|AZ1|Antizyme|ODC-Az|Oaz	ornithine decarboxylase antizyme 1	protein-coding	295.0	561.5	382.0	4325.5	894.0	360.0	348.0	363.5
Merged-chr7-127297996-2	chr7	127297896	127298096	+	996.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253873, intron 2 of 30)	intron (NM_001253873, intron 2 of 30)	1736.0	NM_001253874	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	8.5	5.0	6.0	11.0	10.5	6.5	2.0	2.0
Merged-chr13-113437765-4	chr13	113437641	113437841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65103.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	86.5	143.5	117.5	1751.5	268.5	62.5	151.0	92.5
Merged-chr10-87831765-3	chr10	87831665	87831865	+	995.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-26500.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	3.5	5.0	10.5	141.5	15.5	9.0	6.0	5.0
Merged-chr16-20424982-4	chr16	20424900	20425100	+	919.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 1 of 6)	intron (NM_176839, intron 1 of 6)	1394.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	9.5	25.0	13.0	208.5	40.5	11.5	5.0	10.0
Merged-chr4-33030499-4	chr4	33030389	33030589	+	948.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019586)	promoter-TSS (NM_019586)	834.0	NR_036602	100504166.0	Mm.426309	NR_036602	ENSMUSG00000085037	4933421O10Rik	-	RIKEN cDNA 4933421O10 gene	ncRNA	18.5	22.5	23.0	334.5	45.5	10.5	20.0	14.0
Merged-chr14-75185980-4	chr14	75185904	75186104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	49579.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	39.5	98.5	40.5	366.5	144.5	50.0	31.0	33.5
Merged-chr4-40700453-4	chr4	40700332	40700532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025444, intron 1 of 7)	intron (NM_001025444, intron 1 of 7)	2484.0	NM_025545	66408.0	Mm.430710	NM_025545	ENSMUSG00000028411	Aptx	2410016G21Rik|AA388047|FHA-HIT	aprataxin	protein-coding	74.0	108.0	66.0	968.5	177.0	72.5	86.0	77.0
Merged-chr1-89939638-3	chr1	89939526	89939726	+	793.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8450.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	13.5	17.5	6.0	96.5	11.0	4.0	7.5	5.0
Merged-chr5-129914216-4	chr5	129914123	129914323	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001359308)	TTS (NM_001359308)	5683.0	NM_026916	69034.0	Mm.211372	NM_026916	ENSMUSG00000095789	Nupr1l	1810010E01Rik|4930579G22Rik|Nupr2	nuclear protein transcriptional regulator 1 like	protein-coding	15.5	19.0	23.0	82.5	39.5	24.0	35.5	10.5
Merged-chr10-94336340-2	chr10	94336271	94336471	+	718.666626	f0_balb.idr|f1_balb.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	24422.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	11.0	18.5	10.5	119.0	11.0	3.5	7.5	4.0
Merged-chr2-33131126-6	chr2	33131026	33131226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355200)	promoter-TSS (NM_001355200)	310.0	NM_001355201	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	117.5	245.0	115.0	1531.0	540.5	184.5	227.0	184.5
Merged-chr19-55714114-4	chr19	55713984	55714184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11880.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	96.0	163.5	85.0	1227.5	194.0	89.0	95.5	71.5
Merged-chr1-195018358-3	chr1	195018247	195018447	+	964.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015566, intron 1 of 7)	intron (NR_015566, intron 1 of 7)	948.0	NR_015566	320977.0	Mm.99905	NR_015566	ENSMUSG00000096929	A330023F24Rik	C030002C11Rik	RIKEN cDNA A330023F24 gene	ncRNA	4.5	9.5	15.5	212.5	28.0	3.5	4.0	15.0
Merged-chr6-70806107-4	chr6	70806057	70806257	+	883.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13982.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	11.0	17.5	4.0	121.5	30.0	22.0	16.0	17.5
Merged-chr3-89322983-4	chr3	89322880	89323080	+	841.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010108)	promoter-TSS (NM_010108)	-101.0	NM_010108	13638.0	Mm.331159	NM_010108	ENSMUSG00000028039	Efna3	AW494418|EFL-2|Ehk1-L|Epl3|LERK-3	ephrin A3	protein-coding	12.5	10.5	1.0	157.5	34.0	9.5	10.5	6.0
Merged-chr13-45442613-4	chr13	45442513	45442713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52871.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	50.0	51.0	46.0	617.5	52.5	20.0	27.0	28.5
Merged-chr11-3180811-2	chr11	3180712	3180912	+	954.25	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 4 of 32)	PB1D10|SINE|Alu	12651.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	19.5	7.5	24.0	236.5	4.5	0.5	1.0	3.0
Merged-chr4-120027461-3	chr4	120027349	120027549	+	917.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-133757.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	8.0	21.5	13.0	118.0	22.5	1.5	5.0	5.0
Merged-chr1-85775213-3	chr1	85775110	85775310	+	926.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_108086)	promoter-TSS (NR_108086)	-61.0	NR_108086	77762.0	Mm.434298	NR_108086	ENSMUSG00000100217	9930111H07Rik	-	RIKEN cDNA 9930111H07 gene	ncRNA	22.5	9.5	11.5	257.0	5.0	4.0	11.0	7.0
Merged-chr19-47890924-5	chr19	47890816	47891016	+	887.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25122.0	NM_026619	68214.0	Mm.63791	NM_026619	ENSMUSG00000025069	Gsto2	1700020F09Rik|4930425C18Rik|GSTO 2-2	glutathione S-transferase omega 2	protein-coding	14.5	11.0	15.0	195.0	36.0	14.0	17.0	10.0
Merged-chr4-135272155-5	chr4	135272024	135272224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 1 of 5)	intron (NM_013885, intron 1 of 5)	636.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	17.0	38.5	22.5	228.5	52.0	14.5	15.5	30.0
Merged-chr6-32539313-3	chr6	32539207	32539407	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	28166.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	7.0	19.5	5.0	80.5	12.5	1.0	0.0	3.5
Merged-chr2-130642885-4	chr2	130642786	130642986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197945)	promoter-TSS (NM_197945)	-42.0	NM_001291027	241638.0	Mm.440130	NM_197945	ENSMUSG00000037703	Lzts3	Prosapip1	leucine zipper, putative tumor suppressor family member 3	protein-coding	94.5	137.5	74.5	1132.0	196.5	71.5	110.5	57.5
Merged-chr13-103411999-3	chr13	103411898	103412098	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77506.0	NM_175171	328329.0	Mm.202606	NM_175171	ENSMUSG00000034751	Mast4	4930420O11Rik|AI642422|mKIAA0303	microtubule associated serine/threonine kinase family member 4	protein-coding	30.5	44.5	30.5	346.0	11.0	10.0	2.5	2.5
Merged-chr4-53307367-4	chr4	53307268	53307468	+	837.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37136.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	15.5	17.5	13.0	303.0	26.5	10.5	16.0	10.0
Merged-chr8-117264734-4	chr8	117264630	117264830	+	869.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	7711.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	17.5	12.0	12.0	186.5	18.0	12.5	15.5	14.5
Merged-chr8-80738467-4	chr8	80738397	80738597	+	962.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053124, intron 1 of 23)	CpG	962.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	11.0	38.0	23.0	197.0	56.0	11.0	22.0	19.5
Merged-chr15-55318885-4	chr15	55318792	55318992	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 1 of 47)	intron (NM_181277, intron 1 of 47)	11142.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	25.0	47.5	10.5	286.5	51.0	20.0	29.5	9.0
Merged-chr14-73173866-4	chr14	73173771	73173971	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001170694, exon 11 of 15)	exon (NM_001170694, exon 11 of 15)	31086.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	35.0	31.5	48.0	836.5	80.5	13.0	18.0	19.5
Merged-chr12-76392968-5	chr12	76392881	76393081	+	908.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11195.0	NM_001002012	15512.0	Mm.296181	NM_008301	ENSMUSG00000059970	Hspa2	70kDa|HSP70.2|HSP70A2|Hsp70-2	heat shock protein 2	protein-coding	13.0	19.0	10.0	162.0	19.5	6.5	4.5	11.5
Merged-chr4-58986900-3	chr4	58986796	58986996	+	940.6555789999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025968, intron 1 of 9)	intron (NM_025968, intron 1 of 9)	182.0	NM_025968	67103.0	Mm.34497	NM_025968	ENSMUSG00000028378	Ptgr1	2510002C21Rik|Ltb4dh|Zadh3	prostaglandin reductase 1	protein-coding	10.0	15.0	9.0	84.5	12.5	4.0	4.5	6.5
Merged-chr8-115522704-4	chr8	115522606	115522806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	184188.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	49.5	99.5	36.5	757.0	117.0	41.5	72.0	60.5
Merged-chr4-149104078-4	chr4	149103956	149104156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010044)	promoter-TSS (NM_010044)	-86.0	NR_104263	13347.0	Mm.41433	NM_010044	ENSMUSG00000028974	Dffa	A330085O09Rik|DFF35|Dff45|ICAD|ICAD-L|ICAD-S	DNA fragmentation factor, alpha subunit	protein-coding	62.5	87.0	34.5	486.0	129.5	34.5	56.0	32.5
Merged-chr2-126673561-4	chr2	126673450	126673650	+	865.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271470, intron 1 of 8)	intron (NM_001271470, intron 1 of 8)	1802.0	NM_001355109	14391.0	Mm.293266	NM_010249	ENSMUSG00000027361	Gabpb1	BABPB2|E4TF1|E4TF1-47|E4TF1-53|E4Tf1B|GABPB|GABPB-1|GABPB-2|GABPB1-1|GABPB1-2|NRF2B1|NRF2B2	GA repeat binding protein, beta 1	protein-coding	12.5	7.0	9.5	88.5	45.0	3.0	4.0	11.5
Merged-chr2-11547812-3	chr2	11547727	11547927	+	744.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	6102.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	6.0	14.0	5.0	46.5	22.5	11.0	11.5	10.5
Merged-chr2-152696951-4	chr2	152696851	152697051	+	971.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010376, intron 10 of 11)	intron (NM_010376, intron 10 of 11)	9803.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	15.5	24.5	13.0	128.5	64.5	21.5	23.0	19.0
Merged-chr10-60760625-4	chr10	60760540	60760740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7858.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	34.0	38.5	14.5	474.5	135.0	27.0	36.5	38.0
Merged-chr2-36234654-4	chr2	36234549	36234749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 2 of 10)	MIRb|SINE|MIR	4223.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	68.5	57.0	90.5	1101.5	137.0	52.0	79.0	104.0
Merged-chr4-87368271-4	chr4	87368192	87368392	+	954.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137752.0	NM_172426	76376.0	Mm.490487	NM_172426	ENSMUSG00000037996	Slc24a2	2810021B17Rik|6330417K15Rik|AI847460|Nckx2	solute carrier family 24 (sodium/potassium/calcium exchanger), member 2	protein-coding	21.0	25.0	15.5	209.0	43.0	12.5	21.5	12.0
Merged-chr7-126775407-2	chr7	126775307	126775507	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_024228, intron 9 of 9)	intron (NM_024228, intron 9 of 9)	-1568.0	NM_026875	66090.0	Mm.27114	NM_025347	ENSMUSG00000042675	Ypel3	0610043B10Rik|1190001G19Rik|Suap	yippee like 3	protein-coding	6.0	13.0	5.5	34.5	2.0	0.0	0.0	1.5
Merged-chr3-142490660-4	chr3	142490562	142490762	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-6272.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	27.5	49.0	18.0	345.0	44.5	16.5	18.5	16.0
Merged-chr4-3651738-4	chr4	3651649	3651849	+	913.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-4757.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	18.0	13.5	23.0	239.0	19.5	11.0	24.5	22.0
Merged-chr4-132308639-4	chr4	132308528	132308728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029468)	promoter-TSS (NR_029468)	-50.0	NR_029468	100039864.0	Mm.258912	NR_029468	ENSMUSG00000086290	Snhg12	2310005L22Rik	small nucleolar RNA host gene 12	ncRNA	45.0	52.0	38.5	394.0	113.0	56.5	36.5	42.0
Merged-chr15-79774530-4	chr15	79774450	79774650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017470)	promoter-TSS (NM_017470)	-83.0	NM_017470	54152.0	Mm.288159	NM_017470	ENSMUSG00000022420	Dnal4	D15Ertd424e|Dnalc4	dynein, axonemal, light chain 4	protein-coding	206.0	329.5	189.0	2962.0	512.5	193.5	211.5	201.0
Merged-chr18-75000574-4	chr18	75000467	75000667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028552).2	promoter-TSS (NR_028552).2	90.0	NM_001002239	319195.0	Mm.276337	NM_001002239	ENSMUSG00000062328	Rpl17	-	ribosomal protein L17	protein-coding	71.0	125.5	128.0	878.0	188.0	66.0	69.0	68.5
Merged-chr11-23306460-4	chr11	23306383	23306583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190401)	promoter-TSS (NM_001190401)	-412.0	NM_001190401	17847.0	Mm.119155	NM_001190401	ENSMUSG00000056342	Usp34	A530081C03Rik|Murr2	ubiquitin specific peptidase 34	protein-coding	201.5	328.0	177.5	3255.5	536.5	241.0	324.0	200.0
Merged-chr11-101467622-4	chr11	101467531	101467731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009708)	promoter-TSS (NM_009708)	-544.0	NM_009708	11858.0	Mm.378883	NM_009708	ENSMUSG00000001313	Rnd2	Arhn|Rohn|rho7	Rho family GTPase 2	protein-coding	101.5	116.5	62.0	1199.5	171.0	47.0	59.0	52.0
Merged-chr10-111972656-4	chr10	111972550	111972750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178610)	promoter-TSS (NM_178610)	-45.0	NM_178610	52705.0	Mm.34606	NM_178610	ENSMUSG00000063334	Krr1	2610511F02Rik|AI255219|AI428520|D10Ertd773e|Hrb2	KRR1, small subunit (SSU) processome component, homolog (yeast)	protein-coding	218.0	313.5	207.5	3476.5	471.5	175.0	268.0	174.0
Merged-chr6-99241825-4	chr6	99241731	99241931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	24684.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	127.5	230.0	154.0	2527.0	308.0	103.5	167.0	117.5
Merged-chr3-152568889-3	chr3	152568805	152569005	+	975.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355635, intron 6 of 8)	intron (NM_001355635, intron 6 of 8)	-98008.0	NR_040386	99542.0	Mm.394921	NR_040386	ENSMUSG00000097745	AI115009	-	expressed sequence AI115009	ncRNA	16.5	12.0	14.0	260.0	6.0	6.0	7.0	6.0
Merged-chr8-85072139-4	chr8	85072072	85072272	+	957.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039514, intron 1 of 8)	intron (NM_001039514, intron 1 of 8)	415.0	NM_001039514	330817.0	Mm.193086	NM_201408	ENSMUSG00000060038	Dhps	Dhs	deoxyhypusine synthase	protein-coding	17.5	20.0	6.5	229.0	39.5	21.5	25.5	19.0
Merged-chr1-177986910-4	chr1	177986805	177987005	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4493.0	NR_155538	545391.0	Mm.442974	NM_001034899	ENSMUSG00000091476	Gm16432	EG545391|EG666250	predicted gene 16432	protein-coding	14.0	18.0	20.0	222.5	34.5	12.0	16.0	24.0
Merged-chr4-97752436-2	chr4	97752349	97752549	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-25177.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	30.0	27.0	16.0	386.5	55.5	27.0	24.0	25.5
Merged-chr5-124541312-4	chr5	124541233	124541433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019770, intron 1 of 3)	CpG	542.0	NM_019770	56334.0	Mm.325307	NM_019770	ENSMUSG00000029390	Tmed2	1110032D12Rik|1810020N21Rik|Rnp24|Sid394|p24beta1	transmembrane p24 trafficking protein 2	protein-coding	20.5	67.5	56.0	424.0	117.5	36.5	51.0	51.5
Merged-chr12-17712733-8	chr12	17712634	17712834	+	965.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	L1MC5a|LINE|L1	21925.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	9.0	10.5	10.0	156.5	34.0	12.5	17.5	18.0
Merged-chr13-23562462-4	chr13	23562343	23562543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178205)	promoter-TSS (NM_178205)	-78.0	NM_178205	319151.0	Mm.261658	NM_178205	ENSMUSG00000069273	Hist1h3e	H3-f|H3.1	histone cluster 1, H3e	protein-coding	150.0	270.5	163.5	2277.0	466.0	190.0	180.0	169.5
Merged-chr15-94629131-4	chr15	94629067	94629267	+	913.505981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178789)	promoter-TSS (NM_178789)	-18.0	NM_178789	320709.0	Mm.74873	NM_178789	ENSMUSG00000063296	Tmem117	B930062P21Rik	transmembrane protein 117	protein-coding	9.5	10.0	18.0	141.0	30.5	8.0	11.5	16.5
Merged-chr4-108295362-4	chr4	108295248	108295448	+	820.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033634, intron 1 of 13)	intron (NM_001033634, intron 1 of 13)	5742.0	NM_001033634	414872.0	Mm.426241	NM_001033634	ENSMUSG00000034636	Zyg11b	1110046I03Rik|2810482G21Rik|D4Mgi23|Gm431|mKIAA1730	zyg-ll family member B, cell cycle regulator	protein-coding	8.5	13.5	7.5	171.0	21.5	4.0	18.5	14.5
Merged-chr14-33118537-1	chr14	33118437	33118637	+	669.5	f0_balb.idr	intron (NM_001146022, intron 13 of 58)	intron (NM_001146022, intron 13 of 58)	66529.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	6.0	8.5	12.5	121.5	5.0	3.5	7.5	2.0
Merged-chr18-61040042-4	chr18	61039930	61040130	+	927.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3831.0	NM_009880	12590.0	Mm.144448	NM_009880	ENSMUSG00000024619	Cdx1	Cdx|Cdx-1	caudal type homeobox 1	protein-coding	7.5	21.0	20.0	218.0	44.0	16.0	11.5	20.5
Merged-chr15-35147004-3	chr15	35146884	35147084	+	634.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357821, intron 1 of 11)	intron (NM_001357821, intron 1 of 11)	8822.0	NM_001357821	56274.0	Mm.262330	NM_019635	ENSMUSG00000022329	Stk3	0610042I06Rik|MST|Mst2|Mst3|Ste20|mess1	serine/threonine kinase 3	protein-coding	9.5	8.5	7.5	70.5	4.5	7.5	6.5	1.0
Merged-chr3-82362594-3	chr3	82362488	82362688	+	853.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356457, intron 3 of 13)	ORR1D2|LTR|ERVL-MaLR	4401.0	NM_001356457	213582.0	Mm.271269	NM_001081230	ENSMUSG00000033900	Map9	5033421J10Rik|5330427D05Rik|ASAP|Mtap9	microtubule-associated protein 9	protein-coding	5.0	6.0	1.0	101.5	23.0	10.0	23.0	10.0
Merged-chr9-20643742-2	chr9	20643642	20643842	+	739.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013911)	promoter-TSS (NM_013911)	406.0	NM_025401	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	2.0	4.5	9.5	78.0	15.5	6.0	5.0	19.5
Merged-chr1-64304626-2	chr1	64304526	64304726	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-183237.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	10.5	6.5	7.0	93.0	9.0	4.5	2.5	8.0
Merged-chr10-18995711-4	chr10	18995646	18995846	+	828.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16217.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	10.0	21.0	9.5	136.0	32.5	17.5	8.5	6.0
Merged-chr11-32217094-4	chr11	32217022	32217222	+	771.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010117, intron 1 of 17)	intron (NM_010117, intron 1 of 17)	5171.0	NM_010117	13650.0	Mm.11545	NM_010117	ENSMUSG00000020282	Rhbdf1	C16ORF8|Dist|Dist1|Egfr-rs|mKIAA4242	rhomboid 5 homolog 1	protein-coding	18.5	8.5	4.5	103.5	19.0	8.5	15.5	10.5
Merged-chr13-45457544-3	chr13	45457403	45457603	+	959.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49941.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	7.5	32.0	20.5	267.0	9.5	1.5	2.5	4.5
Merged-chr2-127363138-3	chr2	127363080	127363280	+	717.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009633)	promoter-TSS (NM_009633)	-106.0	NM_009633	11552.0	Mm.347390	NM_009633	ENSMUSG00000058620	Adra2b	Adra-2b|[a]2B|a2b-AR|alpha2-C2|alpha2B	adrenergic receptor, alpha 2b	protein-coding	4.5	10.5	6.5	69.5	14.0	7.0	5.0	7.0
Merged-chr4-138856666-4	chr4	138856561	138856761	+	666.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122954, intron 1 of 5)	ORR1D2|LTR|ERVL-MaLR	6808.0	NM_001122954	18784.0	Mm.486532	NM_011110	ENSMUSG00000041193	Pla2g5	PLA2|sPLA2	phospholipase A2, group V	protein-coding	5.0	10.5	10.5	126.0	26.5	4.0	5.5	14.5
Merged-chr13-54593829-1	chr13	54593729	54593929	+	565.0	f0_balb.idr	3' UTR (NM_001347512, exon 6 of 6)	3' UTR (NM_001347512, exon 6 of 6)	3598.0	NM_025933	67044.0	Mm.29353	NM_025933	ENSMUSG00000025868	Higd2a	2010110M21Rik|AA690237	HIG1 domain family, member 2A	protein-coding	6.0	18.5	7.5	119.0	25.5	1.0	9.0	3.5
Merged-chr4-88309937-4	chr4	88309840	88310040	+	950.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 21 of 43)	intron (NM_001081184, intron 21 of 43)	128986.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	14.5	10.5	19.5	221.0	29.5	4.5	7.5	11.0
Merged-chr5-129942588-7	chr5	129942515	129942715	+	893.654785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001327, intron 1 of 1)	CpG	506.0	NM_027121	69568.0	Mm.288718	NM_027121	ENSMUSG00000066735	Vkorc1l1	2310024K08Rik	vitamin K epoxide reductase complex, subunit 1-like 1	protein-coding	9.5	6.5	5.5	118.0	14.0	8.5	4.5	11.0
Merged-chr8-80031402-4	chr8	80031307	80031507	+	932.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020259, intron 4 of 12)	intron (NM_020259, intron 4 of 12)	26601.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	23.5	14.0	18.5	517.5	61.0	15.0	17.0	15.5
Merged-chr3-62492771-4	chr3	62492669	62492869	+	880.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028136, intron 8 of 24)	intron (NM_028136, intron 8 of 24)	14219.0	NM_028136	72162.0	Mm.224233	NM_028136	ENSMUSG00000027770	Dhx36	2810407E23Rik|AI452301|AU022184|Ddx36|mKIAA1488	DEAH (Asp-Glu-Ala-His) box polypeptide 36	protein-coding	6.5	4.5	10.0	265.5	24.5	12.5	12.5	12.5
Merged-chr10-42502676-4	chr10	42502569	42502769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017472, intron 1 of 3)	CpG	615.0	NM_017472	54198.0	Mm.277870	NM_017472	ENSMUSG00000019804	Snx3	SDP3	sorting nexin 3	protein-coding	16.0	21.5	16.0	160.5	60.0	17.0	25.5	45.0
Merged-chr15-89177332-4	chr15	89177225	89177425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	-3374.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	22.5	46.0	38.5	333.0	94.5	39.5	40.0	43.5
Merged-chr4-43523645-4	chr4	43523577	43523777	+	860.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009416)	promoter-TSS (NM_009416)	-123.0	NM_001277875	22004.0	Mm.646	NM_009416	ENSMUSG00000028464	Tpm2	Tpm-2|Trop-2	tropomyosin 2, beta	protein-coding	14.0	8.0	10.5	216.0	22.0	11.0	13.0	18.0
Merged-chr5-102537949-3	chr5	102537858	102538058	+	786.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146161, intron 1 of 8)	intron (NM_146161, intron 1 of 8)	56567.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	1.5	8.0	5.0	131.5	6.0	5.5	5.0	19.0
Merged-chr15-59729013-4	chr15	59728917	59729117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	65942.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	86.0	140.0	72.5	1577.5	261.0	83.0	135.5	111.5
Merged-chr3-115887913-4	chr3	115887851	115888051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027193)	promoter-TSS (NM_027193)	108.0	NR_027894	68161.0	Mm.392043	NR_015487	ENSMUSG00000054426	A930005H10Rik	-	RIKEN cDNA A930005H10 gene	ncRNA	88.0	166.5	98.0	827.5	178.0	79.5	86.5	63.5
Merged-chr17-33999651-4	chr17	33999522	33999722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001892, intron 2 of 7)	CpG-6270	711.0	NM_001001892	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	85.0	129.0	67.0	492.5	238.0	63.0	74.5	50.5
Merged-chr16-36930992-4	chr16	36930906	36931106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030035, intron 20 of 21)	intron (NM_030035, intron 20 of 21)	-3977.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	82.0	132.5	68.0	801.0	193.0	71.5	79.5	55.0
Merged-chr10-44589509-4	chr10	44589408	44589608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130760.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	190.0	290.5	199.0	2621.5	368.0	95.0	156.5	155.5
Merged-chr14-26858490-4	chr14	26858410	26858610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-36094.0	NM_001170748	142687.0	Mm.138259	NM_080856	ENSMUSG00000021898	Asb14	Asb-14	ankyrin repeat and SOCS box-containing 14	protein-coding	24.0	20.0	39.5	564.0	72.0	37.0	48.0	41.5
Merged-chr6-57770635-4	chr6	57770524	57770724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 3 of 4)	intron (NM_146168, intron 3 of 4)	54501.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	58.5	45.5	48.0	905.0	94.0	21.0	40.0	24.0
Merged-chr12-32944208-4	chr12	32944135	32944335	+	941.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044986, intron 2 of 5)	intron (NR_044986, intron 2 of 5)	9554.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	27.5	23.5	18.5	308.5	26.5	13.5	9.0	14.5
Merged-chr6-25809279-4	chr6	25809153	25809353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133931)	promoter-TSS (NM_133931)	-27.0	NM_133931	101185.0	Mm.274589	NM_133931	ENSMUSG00000029676	Pot1a	1500031H18Rik|AI851169|Pot1	protection of telomeres 1A	protein-coding	303.0	415.0	324.0	5063.0	842.5	326.0	371.5	272.5
Merged-chr11-48988353-3	chr11	48988265	48988465	+	724.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011579, intron 1 of 1)	intron (NM_011579, intron 1 of 1)	3881.0	NM_011579	21822.0	Mm.15793	NM_011579	ENSMUSG00000078922	Tgtp1	Gtp2|Irgb6|Mg21|Tgtp	T cell specific GTPase 1	protein-coding	5.0	14.0	4.5	53.5	26.0	7.5	11.5	5.5
Merged-chr18-4239669-4	chr18	4239566	4239766	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73834.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	21.5	27.0	18.0	189.0	35.0	13.0	8.0	11.0
Merged-chr8-3516826-4	chr8	3516710	3516910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359123)	promoter-TSS (NM_001359123)	-53.0	NM_001359124	50767.0	Mm.23085	NM_015801	ENSMUSG00000004565	Pnpla6	AI661849|MSws|Nte	patatin-like phospholipase domain containing 6	protein-coding	57.5	68.0	45.0	865.5	114.0	43.5	61.5	63.0
Merged-chr11-106329328-4	chr11	106329210	106329410	+	768.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133199, intron 14 of 23)	intron (NM_133199, intron 14 of 23)	-14748.0	NM_001313939	15985.0	Mm.2987	NM_008339	ENSMUSG00000040592	Cd79b	B29|Ig-beta|Igb|Igbeta	CD79B antigen	protein-coding	3.0	12.5	5.0	114.0	8.5	8.5	11.5	18.0
Merged-chr17-31520058-4	chr17	31519948	31520148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030087)	promoter-TSS (NM_030087)	-67.0	NM_030087	78330.0	Mm.28349	NM_030087	ENSMUSG00000024038	Ndufv3	1500032D16Rik	NADH dehydrogenase (ubiquinone) flavoprotein 3	protein-coding	276.5	333.0	264.0	2925.5	458.0	198.0	284.5	198.5
Merged-chr5-34519587-4	chr5	34519463	34519663	+	948.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5584.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	31.5	34.5	27.5	730.5	68.5	9.5	23.5	25.5
Merged-chr1-162550026-4	chr1	162549939	162550139	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1694.0	NM_144877	71449.0	Mm.270569	NM_144877	ENSMUSG00000026694	Mettl13	5630401D24Rik	methyltransferase like 13	protein-coding	16.0	18.0	1.5	116.0	44.0	19.5	20.5	14.0
Merged-chr6-65671633-3	chr6	65671526	65671726	+	848.8444210000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172399)	promoter-TSS (NM_172399)	15.0	NM_172399	68169.0	Mm.52392	NM_172399	ENSMUSG00000049001	Ndnf	A930038C07Rik|epidermacan	neuron-derived neurotrophic factor	protein-coding	15.5	3.5	15.0	151.0	16.0	4.5	6.5	4.5
Merged-chr10-41518701-4	chr10	41518621	41518821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016898)	promoter-TSS (NM_016898)	-779.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	36.5	45.0	48.5	534.5	69.0	40.0	34.5	44.5
Merged-chr1-121462910-3	chr1	121462798	121462998	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 10 of 23)	intron (NM_029955, intron 10 of 23)	31831.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	9.0	4.5	6.0	73.5	250.0	58.0	100.5	94.0
Merged-chr1-33669788-4	chr1	33669691	33669891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033199)	promoter-TSS (NR_033199)	3.0	NM_008922	19076.0	Mm.27705	NM_008922	ENSMUSG00000026134	Prim2	AI323589	DNA primase, p58 subunit	protein-coding	55.0	52.5	39.5	784.5	145.5	38.5	72.5	70.5
Merged-chr11-75530550-4	chr11	75530457	75530657	+	951.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1137.0	NM_001199284	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	18.5	26.5	20.5	120.5	45.0	18.0	14.5	17.5
Merged-chr6-4618121-4	chr6	4618022	4618222	+	950.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145398, intron 5 of 17)	intron (NM_145398, intron 5 of 17)	17056.0	NM_145398	213819.0	Mm.270703	NM_145398	ENSMUSG00000015189	Casd1	Cas1|Cast1|SOAT	CAS1 domain containing 1	protein-coding	14.5	21.0	17.5	512.5	36.0	7.0	26.0	13.5
Merged-chr10-24131650-4	chr10	24131537	24131737	+	941.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17652.0	NM_001358563	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	32.5	32.5	14.5	492.5	42.5	14.0	19.5	8.5
Merged-chr15-58877075-2	chr15	58876975	58877175	+	767.833313	f1_balb.idr|f1_c57bl6.idr	TTS (NM_026642)	TTS (NM_026642)	4426.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	2.0	1.0	0.5	68.5	18.5	6.0	4.5	12.0
Merged-chr13-75797961-4	chr13	75797863	75798063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41922.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	200.5	277.5	213.0	3418.0	451.5	180.5	234.0	141.0
Merged-chr10-10555376-4	chr10	10555280	10555480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	2827.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	48.5	84.0	31.5	593.5	95.0	53.5	33.5	27.5
Merged-chr19-43921580-3	chr19	43921482	43921682	+	901.922241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 1 of 15)	intron (NM_028029, intron 1 of 15)	18616.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	10.0	23.5	17.5	290.5	8.0	6.5	2.0	6.5
Merged-chr12-8537287-3	chr12	8537226	8537426	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001286385)	TTS (NM_001286385)	2240.0	NM_001038660	328059.0	Mm.46326	NM_177802	ENSMUSG00000020600	Slc7a15	Arpat	solute carrier family 7 (cationic amino acid transporter, y+ system), member 15	protein-coding	9.5	16.0	5.0	109.0	16.5	7.5	10.5	10.0
Merged-chr16-38348469-4	chr16	38348356	38348556	+	868.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017429, intron 1 of 2)	intron (NM_001017429, intron 1 of 2)	1457.0	NM_001017429	12856.0	Mm.27396	NM_001017429	ENSMUSG00000046516	Cox17	AI037035	cytochrome c oxidase assembly protein 17	protein-coding	21.5	9.5	12.5	215.0	31.0	9.0	13.5	8.5
Merged-chr11-100848218-4	chr11	100848077	100848277	+	952.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 1 of 18)	intron (NM_001113563, intron 1 of 18)	2408.0	NM_001113563	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	20.0	24.0	9.0	221.0	59.5	19.0	14.0	16.5
Merged-chr2-22727337-4	chr2	22727236	22727436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-46991.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	67.5	34.5	82.5	1324.0	159.0	37.5	82.0	87.5
Merged-chr15-84982087-4	chr15	84981975	84982175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	5896.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	41.0	59.5	40.5	876.5	120.0	38.5	49.0	63.0
Merged-chr18-35573537-3	chr18	35573431	35573631	+	706.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010771, intron 2 of 14)	intron (NM_010771, intron 2 of 14)	11373.0	NM_010771	17184.0	Mm.215034	NM_010771	ENSMUSG00000037236	Matr3	1110061A14Rik|2810017I02Rik|AI841759|AW555618|D030046F20Rik|mKIAA0723	matrin 3	protein-coding	10.5	3.0	6.5	99.5	17.0	5.5	6.0	6.5
Merged-chr2-11332138-3	chr2	11332070	11332270	+	925.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7319.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	10.0	6.0	9.5	91.5	15.5	5.0	8.0	2.0
Merged-chr1-37605879-4	chr1	37605774	37605974	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-64858.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	28.5	23.0	18.0	348.5	43.0	7.0	22.0	20.5
Merged-chr10-86887043-4	chr10	86886919	86887119	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 42 of 68)	intron (NM_138673, intron 42 of 68)	108014.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	14.5	18.0	16.5	281.0	37.5	18.5	14.5	23.5
Merged-chr8-105413605-4	chr8	105413510	105413710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177791)	promoter-TSS (NM_177791)	-12.0	NM_001170788	270091.0	Mm.212709	NM_001033371	ENSMUSG00000054320	Lrrc36	BC036564	leucine rich repeat containing 36	protein-coding	85.5	89.5	48.0	953.5	176.0	63.0	51.0	54.0
Merged-chr2-90445745-2	chr2	90445645	90445845	+	826.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 20 of 23)	intron (NM_008982, intron 20 of 23)	33429.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	4.0	8.0	8.5	53.5	5.5	5.5	12.0	7.5
Merged-chr7-96539290-6	chr7	96539177	96539377	+	861.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310762, intron 4 of 32)	L3|LINE|CR1	-197313.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	3.0	9.5	9.5	80.0	23.0	7.0	11.5	15.0
Merged-chr8-27043465-4	chr8	27043389	27043589	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039077, intron 1 of 4)	intron (NM_001039077, intron 1 of 4)	934.0	NM_054057	114863.0	Mm.277501	NM_054057	ENSMUSG00000031485	Plpbp	1700024N20Rik|2200002F22Rik|Prosc	pyridoxal phosphate binding protein	protein-coding	11.0	31.5	8.5	193.5	31.5	21.5	11.5	14.0
Merged-chr4-105556949-4	chr4	105556846	105557046	+	683.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	399599.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.5	7.0	9.5	118.0	22.0	9.5	8.5	9.5
Merged-chr4-133494622-4	chr4	133494528	133494728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081156, intron 1 of 1)	intron (NM_001081156, intron 1 of 1)	3922.0	NM_001081156	69539.0	Mm.151594	NM_001081156	ENSMUSG00000056596	Trnp1	2300002D11Rik|Trnp	TMF1-regulated nuclear protein 1	protein-coding	31.0	63.5	19.0	243.0	92.0	42.0	32.5	23.5
Merged-chr11-121741098-4	chr11	121740997	121741197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38670.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	38.0	46.0	33.5	546.5	102.0	50.5	31.0	40.5
Merged-chr3-109130342-4	chr3	109130253	109130453	+	930.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172685, intron 1 of 9)	intron (NM_172685, intron 1 of 9)	7204.0	NM_172685	229731.0	Mm.33574	NM_172685	ENSMUSG00000040322	Slc25a24	2610016M12Rik	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 24	protein-coding	13.5	15.5	8.0	159.0	54.5	17.0	20.0	14.5
Merged-chr1-132333800-4	chr1	132333689	132333889	+	810.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028778)	TTS (NM_028778)	17664.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	7.5	7.5	11.5	112.5	38.5	11.5	12.0	7.0
Merged-chr9-48492098-4	chr9	48491993	48492193	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144948, intron 3 of 4)	intron (NM_144948, intron 3 of 4)	3237.0	NM_001326355	67010.0	Mm.76911	NM_144948	ENSMUSG00000042396	Rbm7	1200007M24Rik|1500011D06Rik|AU041934|AW554393	RNA binding motif protein 7	protein-coding	26.5	63.5	26.0	154.5	76.0	29.5	15.5	22.0
Merged-chr7-125503600-4	chr7	125503507	125503707	+	945.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12065.0	NM_026330	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	10.5	12.5	15.5	165.5	47.5	19.0	26.5	21.5
Merged-chr3-68778774-1	chr3	68778674	68778874	+	543.0	f0_balb.idr	Intergenic	Intergenic	17279.0	NR_153374	102639225.0	Mm.109095	NR_153374	ENSMUSG00000102936	Gm35584	-	predicted gene, 35584	ncRNA	5.0	5.5	8.0	91.0	2.5	1.5	1.0	1.0
Merged-chr2-117352471-4	chr2	117352377	117352577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-9600.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	84.0	73.5	76.0	959.5	176.0	57.0	89.0	54.5
Merged-chr18-67776083-3	chr18	67775973	67776173	+	686.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045376)	TTS (NR_045376)	1197.0	NM_028112	72124.0	Mm.307315	NM_028112	ENSMUSG00000079614	Seh1l	2610007A16Rik|AW540070|SEC13L|SEH1A|SEH1B|Seh1	SEH1-like (S. cerevisiae	protein-coding	8.0	13.5	4.5	49.5	13.0	8.5	4.0	9.0
Merged-chr18-6244352-1	chr18	6244252	6244452	+	541.0	f0_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2828.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	4.5	9.0	5.5	91.5	28.0	4.0	0.0	6.0
Merged-chr10-118867386-3	chr10	118867267	118867467	+	912.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014390, intron 2 of 2)	intron (NM_001014390, intron 2 of 2)	1536.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	6.5	9.0	13.5	106.0	22.0	17.0	14.5	8.5
Merged-chr18-52567512-4	chr18	52567411	52567611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Helitron1Na_Mam|RC|Helitron	-37644.0	NM_001286182	16948.0	Mm.172	NM_010728	ENSMUSG00000024529	Lox	AI893619|TSC-160|rrg	lysyl oxidase	protein-coding	108.5	148.0	78.0	984.0	160.0	56.0	54.5	35.5
Merged-chr2-5034793-4	chr2	5034694	5034894	+	965.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 8 of 13)	intron (NM_001356487, intron 8 of 13)	-22003.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	10.5	14.0	17.5	236.0	40.5	16.5	27.0	20.0
Merged-chr6-29544135-3	chr6	29544043	29544243	+	917.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177296, intron 21 of 22)	intron (NM_177296, intron 21 of 22)	14861.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	12.5	23.5	19.0	245.0	14.5	3.0	4.0	11.0
Merged-chr3-152122311-3	chr3	152122209	152122409	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 3 of 5)	intron (NM_016867, intron 3 of 5)	43591.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	19.0	34.5	19.0	321.5	0.5	1.5	2.5	2.5
Merged-chr8-79398638-4	chr8	79398551	79398751	+	995.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	CpG	817.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	22.0	20.5	56.0	513.5	52.0	18.5	27.5	23.0
Merged-chr4-48681147-4	chr4	48681055	48681255	+	846.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17641.0	NM_026509	68016.0	Mm.133444	NM_026509	ENSMUSG00000028348	Cavin4	2310039E09Rik|Murc	caveolae associated 4	protein-coding	12.0	10.5	5.5	139.5	35.5	10.5	9.0	7.5
Merged-chr1-60913344-6	chr1	60913227	60913427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009843, exon 3 of 4)	exon (NM_009843, exon 3 of 4)	4302.0	NM_001281976	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	25.5	18.5	20.0	269.0	49.5	19.5	38.0	14.5
Merged-chr5-92667040-4	chr5	92666918	92667118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360020, intron 3 of 9)	intron (NM_001360020, intron 3 of 9)	8109.0	NM_001360018	320696.0	Mm.209991	NM_177230	ENSMUSG00000050050	Ccdc158	4932413O14Rik	coiled-coil domain containing 158	protein-coding	34.0	55.5	26.0	698.5	132.0	31.0	35.5	40.0
Merged-chr2-22811013-4	chr2	22810912	22811112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	36685.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	45.0	64.5	59.0	547.0	69.0	31.0	39.0	24.5
Merged-chr15-98661473-4	chr15	98661367	98661567	+	945.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080981, intron 1 of 16)	intron (NM_001080981, intron 1 of 16)	1422.0	NM_001080981	74351.0	Mm.45725	NM_001080981	ENSMUSG00000003360	Ddx23	3110082M05Rik|4921506D17Rik	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	protein-coding	17.0	19.0	13.5	181.5	24.5	14.5	11.0	21.0
Merged-chr4-44756646-4	chr4	44756530	44756730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138590)	promoter-TSS (NM_138590)	71.0	NM_138590	319885.0	Mm.331576	NM_138590	ENSMUSG00000035649	Zcchc7	4930572I07Rik|D4Wsu132e	zinc finger, CCHC domain containing 7	protein-coding	157.0	197.5	109.0	2218.0	378.0	172.0	227.5	138.0
Merged-chr11-65794535-4	chr11	65794414	65794614	+	952.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6155.0	NM_001316367	26398.0	Mm.412922	NM_009157	ENSMUSG00000033352	Map2k4	JNKK1|MEK4|MKK4|PRKMK4|Sek1|Serk1	mitogen-activated protein kinase kinase 4	protein-coding	22.0	13.0	19.5	343.0	46.0	19.5	22.0	16.0
Merged-chr5-105064606-2	chr5	105064506	105064706	+	922.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-11045.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	3.5	2.0	4.0	35.0	12.5	4.5	5.0	4.5
Merged-chr11-29806516-3	chr11	29806398	29806598	+	762.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 17 of 41)	Lx8|LINE|L1	19170.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	7.5	5.0	20.5	244.0	13.0	7.5	5.5	15.0
Merged-chr12-34723272-4	chr12	34723164	34723364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	193831.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	65.0	99.0	77.5	1386.0	136.0	48.0	45.0	44.5
Merged-chr1-88211914-3	chr1	88211836	88212036	+	809.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201645)	promoter-TSS (NM_201645)	-23.0	NM_201645	394436.0	Mm.300095	NM_201645	ENSMUSG00000089960	Ugt1a1	Gnt1|UDPGT 1-1|UGT1A01|Udpgt-1a|UgtBr1	UDP glucuronosyltransferase 1 family, polypeptide A1	protein-coding	9.0	5.5	2.0	89.5	9.5	6.5	4.5	8.5
Merged-chr1-52500027-4	chr1	52499924	52500124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008667, intron 1 of 7)	intron (NM_008667, intron 1 of 7)	424.0	NM_008667	17936.0	Mm.25903	NM_008667	ENSMUSG00000002881	Nab1	-	Ngfi-A binding protein 1	protein-coding	38.0	52.5	50.0	717.5	127.0	37.5	46.5	51.5
Merged-chr16-85050626-4	chr16	85050566	85050766	+	814.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 6 of 15)	intron (NM_001198825, intron 6 of 15)	78455.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	7.0	12.5	6.0	148.0	14.0	11.0	9.0	20.0
Merged-chr4-141737001-4	chr4	141736859	141737059	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-9716.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	30.5	33.5	9.5	421.5	52.0	6.0	21.5	14.5
Merged-chr5-8357438-4	chr5	8357334	8357534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	10726.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	243.5	210.0	297.0	4176.0	436.0	174.5	249.0	252.0
Merged-chr15-78623617-4	chr15	78623513	78623713	+	813.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26566.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	9.0	10.0	7.0	73.0	38.0	6.0	15.5	19.5
Merged-chr10-79987156-4	chr10	79987081	79987281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	B3|SINE|B2	-1419.0	NM_007725	12798.0	Mm.157770	NM_007725	ENSMUSG00000004665	Cnn2	AA408047|AI324678|Calpo2	calponin 2	protein-coding	67.0	86.5	46.0	942.0	161.5	53.0	55.0	87.5
Merged-chr9-55250611-3	chr9	55250498	55250698	+	919.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	intron (NM_032002, intron 3 of 7)	33027.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	4.5	8.5	15.0	129.5	16.5	8.5	6.5	11.5
Merged-chr16-38812686-3	chr16	38812582	38812782	+	987.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029042, intron 3 of 3)	B3A|SINE|B2	-12479.0	NM_178924	22268.0	Mm.130793	NM_178924	ENSMUSG00000049436	Upk1b	AI413235|Tspan20|UPIb|Upk1	uroplakin 1B	protein-coding	6.5	10.0	8.0	193.0	39.5	9.0	4.5	8.0
Merged-chr6-134043798-4	chr6	134043702	134043902	+	793.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	intron (NM_007961, intron 1 of 7)	8102.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	11.5	17.0	1.5	47.0	38.5	6.5	10.5	11.0
Merged-chr16-14112376-4	chr16	14112259	14112459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 26 of 26)	intron (NM_001081154, intron 26 of 26)	46915.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	32.0	41.5	17.0	633.0	47.5	21.5	36.5	19.0
Merged-chr18-66473190-4	chr18	66473087	66473287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14583.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	60.0	108.0	69.5	927.5	166.0	54.0	56.5	72.0
Merged-chr8-120114568-3	chr8	120114476	120114676	+	998.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	CpG	424.0	NM_001163761	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	26.0	30.0	29.5	302.0	46.5	32.5	18.5	13.0
Merged-chr3-107783503-4	chr3	107783402	107783602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23033.0	NM_001113529	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	54.5	71.5	62.0	960.5	136.5	42.5	62.5	53.0
Merged-chr14-30627574-4	chr14	30627460	30627660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1352.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	66.0	98.0	76.0	869.0	133.5	55.0	54.5	60.5
Merged-chr13-74317337-4	chr13	74317240	74317440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011051)	promoter-TSS (NM_011051)	-14.0	NM_001359996	18570.0	Mm.24254	NM_011051	ENSMUSG00000021576	Pdcd6	AV299538|Alg2|MA-3|PS2|alg-2	programmed cell death 6	protein-coding	161.5	192.0	168.5	3235.5	403.5	141.0	212.0	160.5
Merged-chr2-5036607-4	chr2	5036508	5036708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 7 of 13)	intron (NM_001356487, intron 7 of 13)	-23817.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	46.5	79.5	23.0	646.0	119.0	52.5	43.0	46.0
Merged-chr18-78138455-4	chr18	78138350	78138550	+	912.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171011, intron 1 of 8)	intron (NM_001171011, intron 1 of 8)	3669.0	NM_001171011	108052.0	Mm.33832	NM_028122	ENSMUSG00000059336	Slc14a1	2610507K20Rik|3021401A05Rik|UT-B|Utb1	solute carrier family 14 (urea transporter), member 1	protein-coding	11.5	26.0	14.0	141.5	43.0	9.5	14.0	8.5
Merged-chr7-101933962-4	chr7	101933860	101934060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027053)	promoter-TSS (NM_027053)	-103.0	NM_001162974	69358.0	Mm.214841	NM_027053	ENSMUSG00000064307	Lrrc51	1700008D07Rik|Lrtomt	leucine rich repeat containing 51	protein-coding	198.5	287.5	122.5	2810.0	430.0	144.0	177.0	187.0
Merged-chr7-16010100-3	chr7	16010023	16010223	+	663.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10628.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	4.0	3.5	2.5	104.5	18.0	12.0	6.0	7.0
Merged-chr18-10532520-4	chr18	10532439	10532639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083628, intron 18 of 32)	intron (NM_001083628, intron 18 of 32)	77813.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	22.0	31.0	19.5	440.5	62.5	24.0	32.0	25.0
Merged-chr13-23534926-4	chr13	23534827	23535027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145073)	promoter-TSS (NM_145073)	-491.0	NM_145073	97908.0	Mm.261657	NM_145073	ENSMUSG00000099517	Hist1h3g	H3.1-221|M32460	histone cluster 1, H3g	protein-coding	15.5	10.5	4.5	198.0	51.5	18.0	27.0	9.5
Merged-chr8-121950362-8	chr8	121950202	121950402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110100)	promoter-TSS (NM_001110100)	-190.0	NM_016812	53325.0	Mm.287163	NM_016812	ENSMUSG00000025316	Banp	AA408158|SMAR1	BTG3 associated nuclear protein	protein-coding	61.0	113.5	104.5	754.5	182.5	82.5	80.5	99.5
Merged-chr13-117028474-4	chr13	117028364	117028564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2948.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	87.0	92.0	69.0	1783.0	139.5	54.0	70.0	55.5
Merged-chr4-148038999-4	chr4	148038892	148039092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010840)	promoter-TSS (NM_010840)	-85.0	NM_010840	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	252.0	405.0	266.0	3508.0	748.0	371.0	374.0	299.0
Merged-chr3-79288284-4	chr3	79288177	79288377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57099.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	54.0	64.0	29.0	884.0	113.0	23.5	30.0	37.5
Merged-chr1-189662076-3	chr1	189661971	189662171	+	723.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081363, exon 11 of 18)	exon (NM_001081363, exon 11 of 18)	26015.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	7.0	9.5	10.0	65.5	8.5	15.5	12.5	8.0
Merged-chr4-46411748-3	chr4	46411654	46411854	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7571.0	NM_053149	93966.0	Mm.25793	NM_053149	ENSMUSG00000028332	Hemgn	4921524M03Rik|AI317176|EDAG|Hgn|mNDR	hemogen	protein-coding	12.0	14.5	8.5	134.5	12.0	3.5	7.5	4.0
Merged-chr19-34334511-3	chr19	34334414	34334614	+	738.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43855.0	NM_001146708	14102.0	Mm.1626	NM_007987	ENSMUSG00000024778	Fas	AI196731|APO1|APT1|CD95|TNFR6|Tnfrsf6|lpr	Fas (TNF receptor superfamily member 6)	protein-coding	4.0	15.0	3.5	158.0	8.5	9.0	13.5	7.0
Merged-chr11-115165140-4	chr11	115165040	115165240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 1 of 5)	intron (NM_012030, intron 1 of 5)	1799.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	44.5	38.0	30.5	260.5	54.5	24.5	31.0	17.0
Merged-chr1-144295127-4	chr1	144295014	144295214	+	919.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46010.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	12.0	21.5	11.0	283.5	35.5	9.0	16.5	20.5
Merged-chr17-70991186-1	chr17	70991086	70991286	+	1000.0	f1_balb.idr	promoter-TSS (NM_023402)	promoter-TSS (NM_023402)	-670.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	4.0	11.0	10.0	22.0	8.5	4.5	5.0	9.0
Merged-chr5-142904020-2	chr5	142903920	142904120	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007393, intron 5 of 5)	intron (NM_007393, intron 5 of 5)	2734.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	5.0	4.0	4.5	8.5	17.5	7.0	8.5	7.0
Merged-chr10-79892904-4	chr10	79892821	79893021	+	891.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001329541)	TTS (NM_001329541)	2068.0	NM_001291915	11537.0	Mm.4407	NM_013459	ENSMUSG00000061780	Cfd	Adn|DF	complement factor D (adipsin)	protein-coding	9.5	19.5	6.5	112.0	46.0	15.5	9.5	8.0
Merged-chr1-9545318-4	chr1	9545227	9545427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021511)	promoter-TSS (NM_021511)	-81.0	NM_021511	59014.0	Mm.29061	NM_021511	ENSMUSG00000061024	Rrs1	5730466A07Rik|AA415037|D1Ertd701e|Rrr	ribosome biogenesis regulator 1	protein-coding	397.5	531.0	360.5	6729.0	840.5	298.0	420.0	337.5
Merged-chr10-111465010-4	chr10	111464903	111465103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8224.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	50.0	47.0	34.5	644.0	111.5	33.5	46.0	32.0
Merged-chr14-51063501-4	chr14	51063388	51063588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6246.0	NM_001011875	497106.0	Mm.379740	NM_001011875	ENSMUSG00000068407	Rnase12	Rai1	ribonuclease, RNase A family, 12 (non-active)	protein-coding	41.0	73.5	55.0	742.0	171.0	53.0	60.5	55.0
Merged-chr14-66791983-4	chr14	66791862	66792062	+	956.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76638.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	16.0	25.5	12.0	212.5	69.5	18.0	28.0	13.0
Merged-chr15-74929068-3	chr15	74928963	74929163	+	798.755554	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25988.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	6.5	10.0	7.5	51.0	29.5	17.0	11.0	10.0
Merged-chr10-118862924-4	chr10	118862819	118863019	+	791.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014390, intron 2 of 2)	intron (NM_001014390, intron 2 of 2)	5984.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	13.5	9.0	14.0	113.0	17.5	10.5	0.5	7.5
Merged-chr12-32764950-4	chr12	32764855	32765055	+	938.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55380.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	20.0	15.0	18.0	348.5	51.0	10.0	9.5	17.5
Merged-chr6-57581417-4	chr6	57581311	57581511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025992, intron 1 of 22)	intron (NM_025992, intron 1 of 22)	419.0	NM_025992	67138.0	Mm.297393	NM_025992	ENSMUSG00000029798	Herc6	1700121D12Rik|2510038N07Rik|4930427L17Rik|AI451296|CEB1|Herc5	hect domain and RLD 6	protein-coding	75.5	107.0	43.5	921.0	268.0	87.5	81.5	83.0
Merged-chr11-120358077-4	chr11	120357970	120358170	+	942.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3464.0	NM_172802	238021.0	Mm.481403	NM_172802	ENSMUSG00000025380	Fscn2	A930022G03|Ahl8|C630046B20Rik	fascin actin-bundling protein 2	protein-coding	17.5	26.0	13.0	164.5	37.0	6.0	17.5	19.5
Merged-chr7-113172654-3	chr7	113172569	113172769	+	887.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30654.0	NR_045978	75239.0	Mm.381688	NR_045978	ENSMUSG00000110009	4930543E12Rik	4930545H14Rik	RIKEN cDNA 4930543E12 gene	ncRNA	11.0	13.5	9.5	205.5	9.5	4.0	7.5	8.0
Merged-chr4-6335803-4	chr4	6335699	6335899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-29881.0	NM_016807	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	132.0	183.0	128.0	2469.0	432.5	139.5	164.0	178.0
Merged-chr6-120836676-3	chr6	120836569	120836769	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153516, intron 1 of 6)	intron (NM_153516, intron 1 of 6)	439.0	NM_153516	94044.0	Mm.27990	NM_153516	ENSMUSG00000009112	Bcl2l13	BCL-RAMBO|E430016C20Rik|Mil-1|Mil1	BCL2-like 13 (apoptosis facilitator)	protein-coding	21.0	29.5	15.0	209.0	31.5	21.5	15.5	31.0
Merged-chr7-19500493-5	chr7	19500392	19500592	+	987.8444210000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7839.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	8.5	5.0	14.0	162.0	40.5	16.0	12.5	15.5
Merged-chr10-127634677-4	chr10	127634581	127634781	+	890.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-8305.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	10.5	40.0	17.0	272.5	26.0	7.5	13.0	14.5
Merged-chr8-125113485-6	chr8	125113382	125113582	+	863.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 3 of 12)	intron (NM_174854, intron 3 of 12)	59287.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	5.5	23.0	5.0	90.5	17.0	5.0	4.5	10.0
Merged-chr9-71942649-2	chr9	71942549	71942749	+	690.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011544, intron 6 of 20)	Tigger7|DNA|TcMar-Tigger	-46553.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	4.5	2.5	5.5	85.0	18.5	9.0	8.0	7.5
Merged-chr3-90267924-4	chr3	90267817	90268017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356483, intron 2 of 27)	MIR3|SINE|MIR	1403.0	NM_201407	229541.0	Mm.30571	NM_201407	ENSMUSG00000042404	Dennd4b	-	DENN/MADD domain containing 4B	protein-coding	41.0	43.0	54.0	915.0	101.5	33.5	38.5	63.5
Merged-chr5-99254024-4	chr5	99253905	99254105	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1078.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	19.0	13.5	15.0	203.5	43.0	9.0	12.5	19.5
Merged-chr7-47035158-4	chr7	47035065	47035265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15475.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	82.5	112.0	98.0	1542.0	184.5	58.5	95.5	90.5
Merged-chr18-69344386-4	chr18	69344289	69344489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013685)	promoter-TSS (NM_013685)	-103.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	165.0	259.5	138.0	2502.5	324.0	143.5	221.0	156.0
Merged-chr2-26964376-4	chr2	26964263	26964463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207234)	promoter-TSS (NM_207234)	23.0	NM_207234	227656.0	Mm.291874	NM_207234	ENSMUSG00000052406	Rexo4	Gm111|Rex4|Xpmc2h	REX4, 3'-5' exonuclease	protein-coding	46.0	49.0	24.5	417.5	92.0	33.0	38.5	35.0
Merged-chr19-47864906-3	chr19	47864820	47865020	+	701.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026619)	promoter-TSS (NM_026619)	-625.0	NM_030051	68214.0	Mm.63791	NM_026619	ENSMUSG00000025069	Gsto2	1700020F09Rik|4930425C18Rik|GSTO 2-2	glutathione S-transferase omega 2	protein-coding	2.0	1.0	5.0	18.5	22.0	5.5	11.0	6.0
Merged-chr5-66141700-1	chr5	66141600	66141800	+	645.0	f0_balb.idr	intron (NM_001127382, intron 2 of 7)	RMER15|LTR|ERVL	9278.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	5.0	13.0	7.0	99.0	2.5	0.5	0.5	1.5
Merged-chr12-108613306-4	chr12	108613215	108613415	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163395, intron 1 of 12)	intron (NM_001163395, intron 1 of 12)	7549.0	NM_001163395	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	36.5	52.0	12.5	582.0	86.0	34.0	32.5	30.5
Merged-chr2-51312215-4	chr2	51312142	51312342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70411.0	NR_040636	329404.0	Mm.417725	NR_040636	ENSMUSG00000086349	Gm13497	A730015I17	predicted gene 13497	ncRNA	37.5	53.0	36.5	727.5	101.0	32.0	37.0	26.0
Merged-chr7-109618900-2	chr7	109618800	109619000	+	690.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1753.0	NM_029811	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	3.0	8.0	5.0	40.0	22.5	6.5	8.0	6.5
Merged-chr7-78791668-4	chr7	78791560	78791760	+	879.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153793, intron 4 of 5)	intron (NR_153793, intron 4 of 5)	8529.0	NM_001360702	67994.0	Mm.297033	NM_026498	ENSMUSG00000030611	Mrps11	0710005I03Rik|C79873|MRP-S11|S11mt	mitochondrial ribosomal protein S11	protein-coding	6.5	24.0	7.0	165.0	31.5	14.0	12.5	8.0
Merged-chr2-180127871-3	chr2	180127764	180127964	+	802.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144500, intron 1 of 13)	intron (NM_144500, intron 1 of 13)	8498.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	7.5	10.0	6.0	172.0	5.0	4.0	3.5	2.5
Merged-chr6-37390502-4	chr6	37390398	37390598	+	764.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	51650.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	7.0	10.0	9.5	102.0	22.5	1.0	8.5	7.5
Merged-chr4-141793589-4	chr4	141793491	141793691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015733)	promoter-TSS (NM_015733)	-21.0	NM_015733	12371.0	Mm.88829	NM_015733	ENSMUSG00000028914	Casp9	AI115399|APAF-3|AW493809|CASP-9|Caspase-9|ICE-LAP6|Mch6	caspase 9	protein-coding	191.5	419.0	178.5	2404.5	536.0	236.5	263.5	189.0
Merged-chr7-17090318-4	chr7	17090241	17090441	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310628, intron 1 of 5)	intron (NM_001310628, intron 1 of 5)	16301.0	NM_007676	26436.0	Mm.143686	NM_007676	ENSMUSG00000066760	Psg16	Cea11|PSG|bCEA	pregnancy specific glycoprotein 16	protein-coding	24.0	18.0	7.5	183.0	74.5	28.5	25.5	29.5
Merged-chr19-29252351-5	chr19	29252185	29252385	+	874.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048177, intron 1 of 23)	intron (NM_001048177, intron 1 of 23)	482.0	NM_008413	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	7.5	5.0	16.0	49.0	20.0	17.0	12.5	12.0
Merged-chr13-5716961-4	chr13	5716871	5717071	+	980.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	141121.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	22.0	16.5	22.5	321.0	51.0	29.0	23.0	24.0
Merged-chr10-83922804-4	chr10	83922693	83922893	+	934.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	177904.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	8.5	17.0	8.0	200.0	42.0	12.0	24.5	17.0
Merged-chr10-75853649-4	chr10	75853553	75853753	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6597.0	NM_010798	17319.0	Mm.2326	NM_010798	ENSMUSG00000033307	Mif	GIF|Glif	macrophage migration inhibitory factor (glycosylation-inhibiting factor)	protein-coding	17.5	31.0	21.5	371.0	79.0	25.0	29.0	29.0
Merged-chr17-68004082-4	chr17	68003954	68004154	+	836.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172964)	promoter-TSS (NM_172964)	54.0	NM_172964	268970.0	Mm.9935	NM_172964	ENSMUSG00000024043	Arhgap28	AU044757|AW550892|E130310N06	Rho GTPase activating protein 28	protein-coding	4.5	8.5	11.0	133.0	5.0	5.0	8.5	4.0
Merged-chr10-84381738-3	chr10	84381648	84381848	+	663.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 4 of 6)	MER44B|DNA|TcMar-Tigger	58723.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	4.5	9.5	8.0	113.5	5.0	0.0	4.5	3.0
Merged-chr18-57029821-3	chr18	57029735	57029935	+	983.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54456.0	NM_029909	77422.0	Mm.256874	NM_029909	ENSMUSG00000024592	C330018D20Rik	AU018666	RIKEN cDNA C330018D20 gene	protein-coding	14.5	37.5	8.0	238.5	12.5	0.0	1.5	2.0
Merged-chr9-105521348-3	chr9	105521249	105521449	+	888.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253831)	promoter-TSS (NM_001253831)	-92.0	NM_001253831	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	1.5	5.5	2.0	65.5	28.0	12.5	21.0	15.0
Merged-chr4-137593907-7	chr4	137593806	137594006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347227)	promoter-TSS (NM_001347227)	-266.0	NM_001347227	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	33.5	50.5	36.0	373.5	113.0	47.5	29.5	71.0
Merged-chr7-27357606-7	chr7	27357479	27357679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199236, intron 18 of 18)	intron (NM_001199236, intron 18 of 18)	-1571.0	NM_138676	192192.0	Mm.21297	NM_138676	ENSMUSG00000089832	Shkbp1	B930062H15Rik|Sb1	Sh3kbp1 binding protein 1	protein-coding	30.0	42.5	47.5	307.5	64.0	24.0	38.5	40.5
Merged-chr6-17635170-4	chr6	17635061	17635261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1849.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	55.0	91.0	51.5	720.5	198.0	74.0	81.5	74.0
Merged-chr1-138856747-4	chr1	138856562	138856762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081226, exon 1 of 3)	exon (NM_001081226, exon 1 of 3)	192.0	NM_001081226	69549.0	Mm.264673	NM_001081226	ENSMUSG00000079283	2310009B15Rik	-	RIKEN cDNA 2310009B15 gene	protein-coding	51.5	86.5	110.5	228.0	75.5	44.5	42.0	44.0
Merged-chr19-44389783-3	chr19	44389685	44389885	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17924.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	11.0	35.0	42.5	574.5	22.0	2.0	5.5	14.5
Merged-chr2-118861556-2	chr2	118861456	118861656	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019826)	promoter-TSS (NM_019826)	-444.0	NM_019826	56357.0	Mm.6635	NM_019826	ENSMUSG00000027332	Ivd	1300016K07Rik|6720455E18Rik|AI463340	isovaleryl coenzyme A dehydrogenase	protein-coding	13.5	16.0	12.5	277.5	31.5	5.5	8.0	10.5
Merged-chr15-89427358-4	chr15	89427257	89427457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_004843, exon 8 of 27)	non-coding (NR_004843, exon 8 of 27)	-1495.0	NM_009948	12895.0	Mm.227738	NM_009948	ENSMUSG00000078937	Cpt1b	Cpt1|Cpt1-m|Cpti|Cpti-m|M-cpti	carnitine palmitoyltransferase 1b, muscle	protein-coding	20.5	34.0	14.0	328.0	64.5	26.5	26.0	22.5
Merged-chr5-142818928-4	chr5	142818816	142819016	+	912.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1529.0	NM_001122730	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	12.5	20.0	8.5	169.0	34.0	13.5	17.5	19.0
Merged-chr7-110164957-4	chr7	110164858	110165058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42899.0	NM_009516	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	68.5	134.5	35.0	727.0	211.0	74.5	96.5	69.0
Merged-chr4-45966171-4	chr4	45966058	45966258	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290475, intron 1 of 16)	intron (NM_001290475, intron 1 of 16)	823.0	NM_001290475	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	34.0	93.0	29.0	299.5	49.5	39.5	23.0	16.5
Merged-chr6-97458184-4	chr6	97458087	97458287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	1099.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	102.0	144.5	109.0	1653.0	258.5	93.0	110.5	106.5
Merged-chr6-123259946-3	chr6	123259842	123260042	+	875.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2165.0	NM_001163161	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	16.5	7.0	4.5	223.5	31.5	5.0	6.0	7.5
Merged-chr12-84201435-4	chr12	84201321	84201521	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	-7406.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	25.0	38.5	24.0	333.5	54.0	27.0	18.0	16.5
Merged-chr11-71849613-4	chr11	71849473	71849673	+	965.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	90549.0	NR_045942	73816.0	Mm.390391	NR_045942	ENSMUSG00000085528	4930401O10Rik	-	RIKEN cDNA 4930401O10 gene	ncRNA	10.0	17.5	36.0	444.5	34.0	4.5	14.5	14.5
Merged-chr13-76098009-2	chr13	76097909	76098109	+	773.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081352)	promoter-TSS (NM_001081352)	651.0	NM_001360843	77041.0	Mm.196399	NM_029847	ENSMUSG00000021592	Arsk	2810429K17Rik|4833414G15Rik	arylsulfatase K	protein-coding	5.0	10.0	4.5	44.5	9.5	6.5	6.0	10.0
Merged-chr3-97824126-4	chr3	97823996	97824196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 4 of 46)	intron (NM_001039376, intron 4 of 46)	-56082.0	NR_110360	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	56.5	119.5	55.0	678.0	132.5	67.0	65.5	34.0
Merged-chr10-88682232-7	chr10	88682181	88682381	+	986.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011461, intron 1 of 5)	B1_Mus1|SINE|Alu	742.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	13.5	20.0	18.0	7.5	24.5	18.0	7.0	27.0
Merged-chr14-44990656-3	chr14	44990540	44990740	+	674.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008964, intron 1 of 1)	intron (NM_008964, intron 1 of 1)	2529.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	7.0	10.0	7.0	74.0	16.5	12.0	10.0	4.5
Merged-chr2-52860451-3	chr2	52860413	52860613	+	671.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	2645.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	5.5	12.5	9.0	45.5	16.5	5.5	2.5	8.5
Merged-chr1-172311485-6	chr1	172311424	172311624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080419)	promoter-TSS (NM_080419)	-843.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	133.5	236.0	119.5	2112.5	229.5	87.0	84.0	75.5
Merged-chr19-42714027-3	chr19	42713910	42714110	+	935.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38765.0	NM_029011	74580.0	Mm.329858	NM_029011	ENSMUSG00000060224	Pyroxd2	3830409H07Rik|4833409A17Rik	pyridine nucleotide-disulphide oxidoreductase domain 2	protein-coding	14.5	14.5	11.0	214.5	13.0	7.0	7.0	14.5
Merged-chr10-37190240-4	chr10	37190111	37190311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51285.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	65.0	96.5	57.5	1336.5	150.0	55.5	49.5	64.0
Merged-chr8-84969553-4	chr8	84969462	84969662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011563)	promoter-TSS (NM_011563)	-60.0	NM_001317385	21672.0	Mm.347009	NM_011563	ENSMUSG00000005161	Prdx2	AL022839|Band-8|NkefB|PRP|PrxII|TDX1|TPx|TPx-B|TR|TSA|Tdpx1|Torin	peroxiredoxin 2	protein-coding	23.0	53.5	27.5	390.0	59.0	32.0	36.0	40.0
Merged-chr14-76174519-4	chr14	76174396	76174596	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63605.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	13.5	20.5	24.5	348.0	39.0	15.5	22.0	18.5
Merged-chr5-12383432-4	chr5	12383307	12383507	+	824.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028882, exon 1 of 18)	5' UTR (NM_028882, exon 1 of 18)	241.0	NM_028882	108151.0	Mm.89313	NM_028882	ENSMUSG00000040254	Sema3d	4631426B19Rik	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	protein-coding	12.0	16.0	10.5	267.0	29.5	9.5	18.0	5.0
Merged-chr5-134232800-4	chr5	134232698	134232898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3173.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	109.0	184.0	93.5	1111.0	268.5	102.5	88.5	83.0
Merged-chr14-73225436-2	chr14	73225336	73225536	+	734.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	-12455.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	5.0	8.0	5.0	44.5	16.5	3.0	3.0	8.0
Merged-chr10-83946721-4	chr10	83946626	83946826	+	971.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153971.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	17.5	31.5	26.0	536.0	63.0	12.5	29.5	31.5
Merged-chr10-26780776-4	chr10	26780657	26780857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	8245.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	43.5	64.0	64.0	986.5	107.0	36.5	23.5	34.0
Merged-chr5-139555944-4	chr5	139555803	139556003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12005.0	NM_013702	22255.0	Mm.42190	NM_013702	ENSMUSG00000029546	Uncx	Chx4|Uncx4.1	UNC homeobox	protein-coding	68.5	117.0	107.5	1134.0	49.5	20.0	25.5	21.5
Merged-chr1-13660001-4	chr1	13659911	13660111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145381, intron 1 of 6)	B1F1|SINE|Alu	498.0	NM_145381	212442.0	Mm.89572	NM_145381	ENSMUSG00000025937	Lactb2	Cgi-83|E430032H21Rik	lactamase, beta 2	protein-coding	19.5	38.5	21.0	301.0	50.5	22.0	26.5	35.0
Merged-chr8-13645127-4	chr8	13645018	13645218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	L1MB8|LINE|L1	32469.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	58.0	54.0	89.0	1341.0	90.0	18.0	40.5	40.0
Merged-chr17-35189379-4	chr17	35189310	35189510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010734)	promoter-TSS (NM_010734)	-970.0	NM_010734	16988.0	Mm.19379	NM_010734	ENSMUSG00000073412	Lst1	B144	leukocyte specific transcript 1	protein-coding	35.5	35.5	27.5	326.0	67.5	20.5	28.5	34.0
Merged-chr1-36059022-4	chr1	36058919	36059119	+	843.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-9381.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	9.0	7.0	14.0	321.0	20.0	9.5	11.5	12.5
Merged-chr13-91093836-3	chr13	91093748	91093948	+	806.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 3 of 7)	intron (NM_025770, intron 3 of 7)	130139.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	10.0	8.5	15.5	294.0	7.0	2.5	8.0	2.0
Merged-chr16-65561629-2	chr16	65561529	65561729	+	804.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026879, intron 1 of 5)	intron (NM_026879, intron 1 of 5)	1068.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	7.5	5.0	9.5	68.5	3.5	2.5	3.5	7.0
Merged-chr4-152140632-4	chr4	152140514	152140714	+	793.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207687, intron 2 of 15)	intron (NM_207687, intron 2 of 15)	-4289.0	NM_207690	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	5.0	21.0	7.0	141.0	28.5	10.5	12.5	13.5
Merged-chr1-161496415-5	chr1	161496358	161496558	+	776.58667	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183391, intron 1 of 2)	intron (NM_183391, intron 1 of 2)	1801.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	4.0	4.0	1.5	107.0	22.0	6.0	7.5	9.0
Merged-chr19-17350631-3	chr19	17350514	17350714	+	831.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	6053.0	NM_173442	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	12.0	14.0	16.0	37.0	6.5	0.5	0.0	1.0
Merged-chr7-65373518-3	chr7	65373427	65373627	+	893.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2283.0	NM_009386	21872.0	Mm.4342	NM_009386	ENSMUSG00000030516	Tjp1	ZO1	tight junction protein 1	protein-coding	5.0	18.0	10.0	116.5	4.5	4.0	5.5	7.5
Merged-chr2-84645608-3	chr2	84645512	84645712	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	AT_rich|Low_complexity|Low_complexity	3868.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	6.5	9.0	6.0	42.0	10.5	7.0	2.0	2.5
Merged-chr15-67903165-4	chr15	67903073	67903273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	355683.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	64.0	63.5	50.5	718.0	106.5	53.5	50.0	40.0
Merged-chr16-13672531-6	chr16	13672420	13672620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177552, intron 1 of 5)	intron (NM_001177552, intron 1 of 5)	662.0	NM_025653	67118.0	Mm.223689	NM_025653	ENSMUSG00000022684	Bfar	3010001A07Rik|3110001I22Rik|AI666707|AW107665|Bar|Rnf47	bifunctional apoptosis regulator	protein-coding	50.0	89.0	74.5	885.5	175.0	73.0	52.0	61.5
Merged-chr9-100499110-3	chr9	100499010	100499210	+	810.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 2 of 3)	L1M4|LINE|L1	7746.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	5.0	20.5	13.5	276.0	15.0	10.0	5.5	9.0
Merged-chr7-19267223-4	chr7	19267121	19267321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009499, intron 1 of 12)	intron (NM_009499, intron 1 of 12)	4633.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	63.0	54.5	49.0	882.5	148.0	46.5	62.5	55.5
Merged-chr9-16312245-4	chr9	16312172	16312372	+	856.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	65959.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	15.5	12.5	16.5	327.5	14.5	7.5	5.0	16.5
Merged-chr3-108654757-4	chr3	108654682	108654882	+	859.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177771, intron 2 of 12)	intron (NM_001177771, intron 2 of 12)	842.0	NM_001177770	229725.0	Mm.214545	NM_145543	ENSMUSG00000027884	Clcc1	Mclc	chloride channel CLIC-like 1	protein-coding	8.0	7.0	3.0	194.0	36.0	8.5	10.0	10.0
Merged-chr17-78916543-4	chr17	78916442	78916642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177402)	promoter-TSS (NM_001177402)	43.0	NM_001177402	68554.0	Mm.391820	NM_001177402	ENSMUSG00000062691	Cebpzos	1110001A16Rik	CCAAT/enhancer binding protein (C/EBP), zeta, opposite strand	protein-coding	97.5	110.0	79.5	1044.5	190.5	89.0	63.0	58.0
Merged-chr16-13668139-4	chr16	13668060	13668260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028761)	promoter-TSS (NM_028761)	10.0	NM_001358452	74108.0	Mm.182350	NM_028761	ENSMUSG00000022685	Parn	1200003I18Rik|DAN	poly(A)-specific ribonuclease (deadenylation nuclease)	protein-coding	201.5	291.5	155.5	2523.0	419.5	159.5	205.0	131.0
Merged-chr8-70699636-1	chr8	70699536	70699736	+	1000.0	f0_balb.idr	exon (NM_010592, exon 1 of 1)	exon (NM_010592, exon 1 of 1)	1897.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	56.0	101.5	43.5	517.5	184.5	73.0	83.0	57.0
Merged-chr3-69634190-4	chr3	69634088	69634288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35228.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	49.5	94.5	86.5	1246.5	115.0	42.5	52.0	53.5
Merged-chr19-24979249-4	chr19	24979174	24979374	+	920.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-17658.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	32.0	16.5	31.0	399.0	23.0	19.0	16.5	15.5
Merged-chr5-140733491-4	chr5	140733399	140733599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	MTE2a|LTR|ERVL-MaLR	9372.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	114.5	146.5	101.5	1766.0	218.0	97.0	114.0	72.5
Merged-chr4-151073594-4	chr4	151073545	151073745	+	876.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 22 of 23)	intron (NM_001081557, intron 22 of 23)	-15692.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	14.0	18.5	8.0	152.0	32.5	7.5	6.5	6.5
Merged-chr1-149841071-4	chr1	149841001	149841201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 16 of 17)	intron (NM_008869, intron 16 of 17)	81338.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	85.5	141.0	86.5	1321.5	269.5	83.0	101.5	93.0
Merged-chr7-28369964-2	chr7	28369864	28370064	+	869.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_138752, intron 4 of 18)	intron (NM_138752, intron 4 of 18)	2698.0	NM_138752	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	6.0	2.0	5.0	28.0	8.0	5.0	4.5	8.0
Merged-chr7-24972137-4	chr7	24972069	24972269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010261, exon 2 of 5)	exon (NM_010261, exon 2 of 5)	559.0	NM_010261	14470.0	Mm.22473	NM_010261	ENSMUSG00000003380	Rabac1	2310040I06Rik|Gbpap1|PRA1|prenylin	Rab acceptor 1 (prenylated)	protein-coding	47.5	42.5	74.5	459.0	75.0	24.0	48.5	56.5
Merged-chr11-97540336-4	chr11	97540236	97540436	+	743.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 4 of 19)	intron (NM_018873, intron 4 of 19)	34790.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	5.0	10.5	5.0	96.5	26.0	10.5	7.5	17.0
Merged-chr2-139841498-2	chr2	139841398	139841598	+	573.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159640, intron 13 of 13)	intron (NM_001159640, intron 13 of 13)	163320.0	NM_001276489	319909.0	Mm.41113	NM_001126490	ENSMUSG00000074766	Ism1	5430433G21Rik|Ism	isthmin 1, angiogenesis inhibitor	protein-coding	3.0	8.0	2.0	97.0	18.0	9.5	7.0	5.5
Merged-chr1-161550872-4	chr1	161550774	161550974	+	876.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56217.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	9.5	4.5	14.5	112.5	14.5	4.0	15.0	14.5
Merged-chr7-45866208-4	chr7	45866121	45866321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008172, exon 1 of 12)	exon (NM_008172, exon 1 of 12)	460.0	NM_008172	14814.0	Mm.322594	NM_008172	ENSMUSG00000002771	Grin2d	GluN2D|NMDAR2D|NR2D	glutamate receptor, ionotropic, NMDA2D (epsilon 4)	protein-coding	68.5	71.5	46.0	824.0	139.0	53.5	52.5	55.5
Merged-chr3-54814811-4	chr3	54814702	54814902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5a|LINE|L1	-7011.0	NM_133231	170767.0	Mm.185735	NM_133231	ENSMUSG00000036615	Rfxap	5730495K23Rik	regulatory factor X-associated protein	protein-coding	50.0	41.0	42.5	667.0	86.0	20.0	27.5	36.0
Merged-chr17-6106464-4	chr17	6106365	6106565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001103181)	promoter-TSS (NM_001103181)	-365.0	NM_001103181	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	79.0	176.0	84.0	1482.5	242.5	83.5	103.0	77.0
Merged-chr5-92506429-6	chr5	92506365	92506565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007644)	promoter-TSS (NM_007644)	-808.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	35.0	41.0	35.0	446.0	89.0	24.5	32.0	32.5
Merged-chr6-138095311-4	chr6	138095203	138095403	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15387.0	NM_177787	277898.0	Mm.269823	NM_177787	ENSMUSG00000044378	Slc15a5	9830102E05Rik	solute carrier family 15, member 5	protein-coding	17.0	13.5	13.5	408.5	44.0	7.0	22.0	53.0
Merged-chr7-66140342-4	chr7	66140261	66140461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 2 of 2)	L1MC3|LINE|L1	30846.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	85.0	74.5	39.0	638.5	119.0	49.0	57.0	62.5
Merged-chr3-132029264-4	chr3	132029180	132029380	+	889.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56012.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	8.5	23.0	10.5	257.5	33.5	8.5	13.0	16.0
Merged-chr11-84813928-3	chr11	84813827	84814027	+	810.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145433, exon 5 of 5)	3' UTR (NM_145433, exon 5 of 5)	5588.0	NM_145433	217038.0	Mm.280825	NM_145433	ENSMUSG00000018405	Mrm1	A530065E19Rik	mitochondrial rRNA methyltransferase 1	protein-coding	4.0	7.0	2.0	28.5	24.0	9.0	8.0	12.5
Merged-chr2-143978644-4	chr2	143978564	143978764	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024281, intron 2 of 23)	intron (NM_024281, intron 2 of 23)	32599.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	6.5	25.0	25.0	459.0	54.0	2.5	20.0	17.5
Merged-chr12-110932521-4	chr12	110932408	110932608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175336, intron 9 of 20)	B1F|SINE|Alu	43244.0	NM_001081057	104859.0	Mm.35583	NM_175336	ENSMUSG00000021275	Tecpr2	4930573I19Rik|AI604920|mKIAA0297	tectonin beta-propeller repeat containing 2	protein-coding	22.0	36.0	41.5	657.0	69.0	22.0	36.0	40.0
Merged-chr19-11602177-4	chr19	11602078	11602278	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026835, intron 2 of 6)	intron (NM_026835, intron 2 of 6)	2626.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	16.5	32.0	13.0	165.0	47.0	22.5	20.5	22.5
Merged-chr4-135300475-4	chr4	135300380	135300580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-27720.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	32.0	37.5	26.5	444.5	72.0	34.5	44.0	44.0
Merged-chr7-75828059-4	chr7	75827893	75828093	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20345.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	13.0	6.5	5.5	139.5	20.5	4.5	7.5	10.0
Merged-chr4-82918824-3	chr4	82918721	82918921	+	853.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154662, intron 28 of 35)	intron (NR_154662, intron 28 of 35)	-33670.0	NM_009887	12622.0	Mm.6780	NM_009887	ENSMUSG00000038192	Cer1	Cerl|Cerl1|Cerr1|cer-1	cerberus 1, DAN family BMP antagonist	protein-coding	5.5	5.0	16.0	163.0	13.0	2.0	3.0	2.5
Merged-chr17-3115753-4	chr17	3115647	3115847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134123, intron 1 of 19)	intron (NM_134123, intron 1 of 19)	775.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	48.0	71.5	59.0	816.5	116.0	44.0	63.5	70.5
Merged-chr11-115491826-4	chr11	115491685	115491885	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015807)	promoter-TSS (NM_015807)	29.0	NM_015807	50773.0	Mm.390379	NM_015807	ENSMUSG00000020736	Nt5c	Dnt|Dnt1|Umph-2|Umph2	5',3'-nucleotidase, cytosolic	protein-coding	16.5	29.0	13.0	366.0	47.5	10.5	23.0	15.0
Merged-chr15-81594394-4	chr15	81594309	81594509	+	860.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177821, intron 1 of 30)	intron (NM_177821, intron 1 of 30)	8195.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	9.5	18.5	8.5	178.0	22.5	5.5	11.5	18.0
Merged-chr7-100944055-1	chr7	100943955	100944155	+	706.0	f0_balb.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	-11894.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	17.5	18.5	22.0	155.5	29.5	10.0	7.5	7.5
Merged-chr10-128131528-4	chr10	128131412	128131612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019711, exon 13 of 13)	3' UTR (NM_019711, exon 13 of 13)	38729.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	59.0	73.5	61.0	1117.5	169.5	44.0	66.0	54.5
Merged-chr6-134047601-4	chr6	134047504	134047704	+	757.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	MTEb|LTR|ERVL-MaLR	11904.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	10.5	15.0	4.5	117.5	45.0	10.0	11.5	27.5
Merged-chr10-127059966-8	chr10	127059825	127060025	+	837.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033262, exon 1 of 4)	5' UTR (NM_001033262, exon 1 of 4)	259.0	NM_001033262	216438.0	Mm.37892	NM_001033262	ENSMUSG00000040502	March9	AI608492|BC019560	membrane-associated ring finger (C3HC4) 9	protein-coding	6.0	5.0	0.0	104.5	11.5	10.5	8.0	9.5
Merged-chr19-53421483-4	chr19	53421347	53421547	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30813.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	34.5	51.5	45.5	416.5	46.5	11.5	21.0	18.5
Merged-chr4-117886283-3	chr4	117886200	117886400	+	638.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033617, exon 3 of 8)	exon (NM_033617, exon 3 of 8)	1029.0	NM_033617	114143.0	Mm.207052	NM_033617	ENSMUSG00000033379	Atp6v0b	2310024H13Rik|Atp6f|VMA16	ATPase, H+ transporting, lysosomal V0 subunit B	protein-coding	7.0	6.0	17.0	67.5	14.5	10.0	5.5	10.5
Merged-chr16-4560765-4	chr16	4560658	4560858	+	960.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1038.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	17.0	22.0	7.5	200.0	46.5	18.5	16.0	15.5
Merged-chr6-91684021-4	chr6	91683950	91684150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009320)	promoter-TSS (NM_009320)	-17.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	126.5	180.0	126.0	1152.0	323.0	119.0	115.5	117.5
Merged-chr5-115493152-3	chr5	115492982	115493182	+	930.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8598.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	12.5	16.5	5.0	51.5	13.0	5.0	2.0	5.5
Merged-chr6-126702180-4	chr6	126702078	126702278	+	975.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38496.0	NM_013568	16494.0	Mm.62535	NM_013568	ENSMUSG00000038077	Kcna6	Kv1.6|MK1.6	potassium voltage-gated channel, shaker-related, subfamily, member 6	protein-coding	28.0	18.5	22.5	416.0	54.5	13.5	21.5	50.5
Merged-chr9-53706465-4	chr9	53706369	53706569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175562)	promoter-TSS (NM_175562)	-237.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	328.5	496.0	304.0	3671.0	864.5	338.5	435.5	312.5
Merged-chr15-58986638-3	chr15	58986537	58986737	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	52827.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	9.5	10.5	5.0	212.5	8.0	8.0	8.5	5.5
Merged-chr14-55479011-7	chr14	55478921	55479121	+	948.257141	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030686, exon 1 of 5)	exon (NM_030686, exon 1 of 5)	263.0	NM_030686	28200.0	Mm.27427	NM_030686	ENSMUSG00000022210	Dhrs4	AI043103|AI790593|CR|D14Ucla2|NDRD|PHCR|PSCD|RRD|mouNRDR	dehydrogenase/reductase (SDR family) member 4	protein-coding	9.5	15.5	12.0	119.0	22.0	9.5	3.5	16.5
Merged-chr11-106134869-4	chr11	106134769	106134969	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 6 of 15)	intron (NM_011947, intron 6 of 15)	25058.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	19.0	29.5	17.5	377.0	38.0	17.5	19.0	18.5
Merged-chr8-123041681-4	chr8	123041578	123041778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045268)	promoter-TSS (NR_045268)	606.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	21.0	38.0	10.5	206.0	71.5	27.0	19.0	36.0
Merged-chr5-66138242-3	chr5	66138146	66138346	+	690.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	12732.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	6.0	0.5	4.0	30.0	31.5	5.5	11.5	12.5
Merged-chr4-126250611-3	chr4	126250481	126250681	+	809.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145970, intron 1 of 16)	intron (NM_001145970, intron 1 of 16)	5738.0	NM_144941	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	6.5	16.5	7.5	97.5	24.5	4.0	9.0	13.0
Merged-chr5-138194423-4	chr5	138194386	138194586	+	997.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178612)	TTS (NM_178612)	172.0	NM_177878	330216.0	Mm.19719	NM_177878	ENSMUSG00000049285	Mblac1	-	metallo-beta-lactamase domain containing 1	protein-coding	10.5	37.5	31.0	268.5	41.5	20.0	17.0	29.5
Merged-chr16-50445219-4	chr16	50445115	50445315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-12749.0	NM_001347240	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	37.0	68.0	27.5	850.5	104.5	17.5	46.0	40.0
Merged-chr1-52158940-4	chr1	52158840	52159040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205313, intron 24 of 24)	intron (NM_001205313, intron 24 of 24)	39318.0	NM_001205313	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	36.0	32.5	48.5	834.0	56.0	19.5	28.0	18.0
Merged-chr5-115326544-4	chr5	115326484	115326684	+	786.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025573)	promoter-TSS (NM_025573)	-593.0	NM_025573	108014.0	Mm.287826	NM_025573	ENSMUSG00000029538	Srsf9	25kDa|2610029M16Rik|SRp30c|Sfrs9	serine/arginine-rich splicing factor 9	protein-coding	12.5	14.0	9.0	95.0	18.5	10.5	9.5	15.5
Merged-chr3-158062328-4	chr3	158062235	158062435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359763, intron 11 of 13)	intron (NM_001359763, intron 11 of 13)	25653.0	NM_001289524	67144.0	Mm.358704	NM_024194	ENSMUSG00000063052	Lrrc40	2610040E16Rik|AI837674	leucine rich repeat containing 40	protein-coding	30.0	66.0	51.5	545.5	60.5	41.0	25.0	36.0
Merged-chr2-23052748-4	chr2	23052627	23052827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12486.0	NM_145994	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	101.5	92.0	77.0	1604.5	186.5	62.5	113.5	111.5
Merged-chr3-157933704-1	chr3	157933604	157933804	+	1000.0	f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-8641.0	NM_145953	107869.0	Mm.28301	NM_145953	ENSMUSG00000028179	Cth	0610010I13Rik|AI314617|BC019483|CSE|Cys3	cystathionase (cystathionine gamma-lyase)	protein-coding	3.0	8.5	3.0	37.0	8.0	5.0	5.5	10.0
Merged-chr10-127628746-3	chr10	127628649	127628849	+	845.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7601.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	8.5	8.0	32.0	234.5	15.5	3.0	4.0	5.0
Merged-chr19-47937078-4	chr19	47936959	47937159	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163267)	promoter-TSS (NM_001163267)	-653.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	26.0	23.5	12.0	311.5	29.0	16.0	22.5	15.0
Merged-chr2-146402942-2	chr2	146402852	146403052	+	970.833374	f0_balb.idr|f1_balb.idr	intron (NM_001033348, intron 21 of 40)	intron (NM_001033348, intron 21 of 40)	109052.0	NM_001033348	241694.0	Mm.222310	NM_001033348	ENSMUSG00000037110	Ralgapa2	A230067G21Rik|AS250|BC053994|RGC2|pp250	Ral GTPase activating protein, alpha subunit 2 (catalytic)	protein-coding	5.5	16.5	22.0	342.0	3.0	1.0	1.0	3.0
Merged-chr7-122018481-4	chr7	122018375	122018575	+	941.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028758, intron 1 of 16)	intron (NM_028758, intron 1 of 16)	2723.0	NM_028758	74105.0	Mm.29619	NM_028758	ENSMUSG00000030872	Gga2	1200007E24Rik|mKIAA1080	golgi associated, gamma adaptin ear containing, ARF binding protein 2	protein-coding	15.0	35.5	20.0	135.5	37.0	16.5	19.5	14.0
Merged-chr16-90312510-4	chr16	90312401	90312601	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-27998.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	21.0	46.5	17.0	327.0	62.5	36.5	34.5	41.0
Merged-chr15-57995903-4	chr15	57995855	57996055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173862, intron 3 of 3)	L1MB8|LINE|L1	10052.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	7.5	14.5	14.0	136.0	26.0	10.0	7.0	23.5
Merged-chr11-113444458-1	chr11	113444358	113444558	+	618.333313	f0_balb.idr	intron (NM_027216, intron 5 of 9)	intron (NM_027216, intron 5 of 9)	121357.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	5.0	9.0	7.5	153.0	0.0	0.0	1.5	0.0
Merged-chr17-43326874-4	chr17	43326769	43326969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33562.0	NM_001357332	224792.0	Mm.23478	NM_001081178	ENSMUSG00000056492	Adgrf5	8430401C09Rik|9330185D23|AI528491|Gpr116|mKIAA0758	adhesion G protein-coupled receptor F5	protein-coding	49.5	48.0	30.5	467.0	109.5	43.0	55.0	29.5
Merged-chr11-20542993-4	chr11	20542897	20543097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021372)	promoter-TSS (NM_021372)	-256.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	413.0	726.5	568.0	7332.0	968.0	441.5	535.5	414.0
Merged-chr14-47359793-4	chr14	47359677	47359877	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-14083.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	38.5	21.0	25.5	451.0	67.5	25.0	37.0	39.0
Merged-chr11-62575437-4	chr11	62575347	62575547	+	958.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011706, intron 1 of 15)	intron (NM_011706, intron 1 of 15)	961.0	NM_011706	22368.0	Mm.288064	NM_011706	ENSMUSG00000018507	Trpv2	GRC|OTRPC2|VRL-1|Vrl1	transient receptor potential cation channel, subfamily V, member 2	protein-coding	19.5	18.5	7.0	220.0	46.0	22.5	20.0	20.5
Merged-chr6-115343267-4	chr6	115343159	115343359	+	904.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17692.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	18.5	22.5	7.5	429.5	31.0	6.0	13.5	22.0
Merged-chr6-89311695-4	chr6	89311612	89311812	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-25987.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	26.5	49.0	32.0	659.5	74.5	14.0	26.0	28.5
Merged-chr13-75943596-5	chr13	75943447	75943647	+	863.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028493, exon 1 of 12)	5' UTR (NM_028493, exon 1 of 12)	277.0	NM_028493	73296.0	Mm.276200	NM_028493	ENSMUSG00000021589	Rhobtb3	1700040C17Rik|2610033K01Rik|4930503C18Rik|AI317148|AW208826|mKIAA0878	Rho-related BTB domain containing 3	protein-coding	2.5	13.5	5.0	108.0	16.5	7.0	10.5	12.5
Merged-chr12-91869506-3	chr12	91869386	91869586	+	870.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20329.0	NM_011344	20338.0	Mm.250605	NM_011344	ENSMUSG00000020964	Sel1l	AW493766|Sel1h|mKIAA4137	sel-1 suppressor of lin-12-like (C. elegans)	protein-coding	8.0	8.5	6.0	96.5	12.5	4.0	11.0	4.0
Merged-chr7-80404307-4	chr7	80404201	80404401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081454, intron 1 of 15)	intron (NM_001081454, intron 1 of 15)	1135.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	203.5	350.5	200.0	2728.5	422.5	206.5	167.5	178.5
Merged-chr5-65535574-4	chr5	65535495	65535695	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1650.0	NM_016786	53323.0	Mm.319512	NM_016786	ENSMUSG00000029203	Ube2k	AW492011|D5Ertd601e|E2-25k|HIP-2|Hip2|Hypg|Lig	ubiquitin-conjugating enzyme E2K	protein-coding	18.0	18.5	11.0	183.0	52.0	14.0	11.0	29.0
Merged-chr4-119140329-4	chr4	119140232	119140432	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31587.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	19.0	18.5	5.0	106.5	32.5	18.0	25.0	17.5
Merged-chr4-141016222-3	chr4	141016130	141016330	+	885.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008546)	TTS (NM_008546)	5593.0	NM_008546	17150.0	Mm.7386	NM_008546	ENSMUSG00000060572	Mfap2	AI893631|Magp|Magp1	microfibrillar-associated protein 2	protein-coding	18.5	16.5	14.0	245.0	30.0	8.0	6.5	15.5
Merged-chr9-62421279-3	chr9	62421178	62421378	+	742.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175484, exon 12 of 12)	3' UTR (NM_175484, exon 12 of 12)	79935.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	11.5	15.5	6.5	153.0	4.5	4.0	0.0	8.5
Merged-chr2-160598065-4	chr2	160597969	160598169	+	899.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47828.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	6.5	21.0	5.0	233.0	33.0	16.5	11.5	19.5
Merged-chr6-91677563-4	chr6	91677466	91677666	+	809.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6501.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	10.0	13.5	9.0	99.0	38.5	14.5	8.5	10.5
Merged-chr5-52669677-4	chr5	52669576	52669776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172490)	promoter-TSS (NM_172490)	25.0	NM_172490	211006.0	Mm.244719	NM_172490	ENSMUSG00000029173	Sepsecs	AA986712|D5Ertd135e|SLA|SecS	Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase	protein-coding	43.5	50.0	66.0	435.0	116.5	45.5	55.5	44.5
Merged-chr7-100960847-4	chr7	100960665	100960865	+	925.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	3601.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	8.0	15.5	5.5	129.5	20.0	5.0	10.0	7.0
Merged-chr8-84701753-4	chr8	84701649	84701849	+	936.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008535, exon 1 of 4)	5' UTR (NM_008535, exon 1 of 4)	292.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	13.5	25.5	11.0	160.0	38.0	16.5	11.5	14.5
Merged-chr18-49576487-3	chr18	49576384	49576584	+	946.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53195.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	15.0	7.0	18.0	376.5	17.0	4.5	7.0	5.0
Merged-chr16-10987582-3	chr16	10987493	10987693	+	722.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	5528.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	4.5	9.0	9.0	73.5	10.5	6.0	7.0	7.5
Merged-chr2-121855596-3	chr2	121855500	121855700	+	933.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11370.0	NM_199038	319996.0	Mm.292109	NM_177054	ENSMUSG00000060227	Casc4	D130060C09Rik|VGFG2573	cancer susceptibility candidate 4	protein-coding	6.0	12.5	11.0	172.0	17.0	5.0	10.5	5.0
Merged-chr3-96601037-4	chr3	96600950	96601150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163170)	promoter-TSS (NM_001163170)	-83.0	NM_001163170	280411.0	Mm.482147	NM_001163170	ENSMUSG00000049288	Lix1l	D130027M04Rik	Lix1-like	protein-coding	88.5	114.0	59.5	1049.0	133.5	62.5	90.5	77.0
Merged-chr14-33246675-3	chr14	33246581	33246781	+	903.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	29858.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	3.5	15.0	8.5	88.0	16.0	14.0	10.0	12.0
Merged-chr8-82992294-3	chr8	82992186	82992386	+	695.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 2 of 6)	intron (NM_177378, intron 2 of 6)	128930.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	6.0	3.0	0.0	58.0	34.0	8.0	9.0	9.5
Merged-chr18-46536763-4	chr18	46536619	46536819	+	916.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-10748.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	5.5	14.0	12.0	172.0	23.0	2.0	6.5	8.5
Merged-chr17-63894899-2	chr17	63894799	63894999	+	982.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286415, intron 1 of 17)	BGLII|LTR|ERVK	16833.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	13.5	8.5	9.0	51.0	16.0	13.0	7.5	9.0
Merged-chr4-123990874-4	chr4	123990774	123990974	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	73441.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	34.0	49.5	53.0	958.5	55.5	15.5	31.5	42.5
Merged-chr2-153444385-5	chr2	153444305	153444505	+	945.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001986)	promoter-TSS (NM_001001986)	74.0	NM_001001986	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	25.5	29.0	11.0	258.0	49.5	12.5	17.5	15.5
Merged-chr17-64894969-3	chr17	64894878	64895078	+	776.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58907.0	NM_030031	78057.0	Mm.109380	NM_030031	ENSMUSG00000024088	4930583I09Rik	-	RIKEN cDNA 4930583I09 gene	protein-coding	5.5	12.0	12.0	109.5	3.0	3.0	4.5	4.5
Merged-chr6-89643967-4	chr6	89643865	89644065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001178058)	promoter-TSS (NM_001178058)	-23.0	NM_001178060	232223.0	Mm.229332	NM_153162	ENSMUSG00000000811	Txnrd3	AI196535|TGR|TR2	thioredoxin reductase 3	protein-coding	120.5	140.0	80.5	1469.5	221.0	73.0	107.0	104.5
Merged-chr10-127311237-4	chr10	127311138	127311338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003913, intron 1 of 20)	intron (NM_001003913, intron 1 of 20)	548.0	NM_001003913	216443.0	Mm.28173	NM_001003913	ENSMUSG00000040354	Mars	Metrs|Mtrns	methionine-tRNA synthetase	protein-coding	24.0	44.0	17.0	195.0	57.0	21.0	18.0	12.5
Merged-chr12-36381946-7	chr12	36381808	36382008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289503)	promoter-TSS (NM_001289503)	-239.0	NM_001289503	75847.0	Mm.261764	NM_178629	ENSMUSG00000043153	Ispd	4930579E17Rik|AV040780	isoprenoid synthase domain containing	protein-coding	21.5	29.5	37.5	423.0	52.5	19.5	20.5	35.0
Merged-chr13-113507873-2	chr13	113507773	113507973	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10C|LTR|ERVK	-5029.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	8.5	4.5	7.0	36.0	7.0	3.0	7.0	4.5
Merged-chr7-64341918-4	chr7	64341810	64342010	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	32185.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	13.0	5.0	31.5	379.0	37.5	18.5	24.0	21.0
Merged-chr3-146498808-4	chr3	146498630	146498830	+	806.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316756, intron 1 of 14)	B3A|SINE|B2	1023.0	NM_001316756	70951.0	Mm.383235	NM_027617	ENSMUSG00000028188	Spata1	4921536I21Rik|AV266943|SP-2	spermatogenesis associated 1	protein-coding	8.5	12.5	9.5	81.5	19.5	7.5	8.5	8.0
Merged-chr2-38944938-3	chr2	38944836	38945036	+	978.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172854, intron 2 of 7)	intron (NM_172854, intron 2 of 7)	12956.0	NM_172854	241327.0	Mm.103491	NM_172854	ENSMUSG00000046618	Olfml2a	4932431K08Rik|mFLJ00237	olfactomedin-like 2A	protein-coding	16.5	19.0	19.0	122.5	33.5	7.0	8.0	9.0
Merged-chr11-21564050-4	chr11	21563937	21564137	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316675, intron 4 of 8)	intron (NM_001316675, intron 4 of 8)	7897.0	NM_008618	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	20.0	19.5	24.5	400.5	67.0	34.0	28.5	41.5
Merged-chr4-98109243-4	chr4	98109121	98109321	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 10 of 10)	intron (NM_010905, intron 10 of 10)	274044.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	16.5	54.5	24.0	217.5	37.5	21.5	25.5	11.0
Merged-chr1-88279392-5	chr1	88279195	88279395	+	752.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1716.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	7.0	10.0	8.5	101.0	14.0	2.5	8.0	10.5
Merged-chr18-4302513-2	chr18	4302413	4302613	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50440.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	19.5	14.5	21.5	234.0	29.5	10.0	27.0	22.5
Merged-chr6-134220447-4	chr6	134220376	134220576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	-175853.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	104.5	140.0	157.0	1616.0	281.0	115.0	93.0	112.0
Merged-chr8-46432470-3	chr8	46432374	46432574	+	882.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38563.0	NM_007981	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	5.0	19.5	9.0	28.5	55.0	21.5	17.5	16.5
Merged-chr15-101988400-3	chr15	101988292	101988492	+	914.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	15950.0	NM_031170	16691.0	Mm.358618	NM_031170	ENSMUSG00000049382	Krt8	AA960620|AL022697|AU019895|Card2|EndoA|K8|Krt-2.8|Krt2-8	keratin 8	protein-coding	8.0	8.5	0.0	8.5	24.0	6.5	6.0	14.0
Merged-chr9-14725199-4	chr9	14725061	14725261	+	969.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177905, intron 8 of 18)	intron (NM_177905, intron 8 of 18)	15572.0	NM_177905	330890.0	Mm.334969	NM_177905	ENSMUSG00000036912	Piwil4	9230101H05Rik|Miwi2	piwi-like RNA-mediated gene silencing 4	protein-coding	13.5	22.0	13.0	311.5	43.0	14.5	18.5	30.0
Merged-chr19-61265918-2	chr19	61265818	61266018	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37500.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	8.5	3.5	6.0	128.0	25.5	10.0	5.0	21.0
Merged-chr16-22108339-4	chr16	22108263	22108463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	intron (NM_183029, intron 2 of 15)	54936.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	31.0	84.0	39.5	366.0	115.5	34.5	43.5	45.0
Merged-chr4-132476439-4	chr4	132476370	132476570	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-12549.0	NM_026039	67219.0	Mm.45929	NM_026039	ENSMUSG00000066042	Med18	2810046C01Rik	mediator complex subunit 18	protein-coding	23.5	25.0	13.0	237.5	15.5	23.5	15.5	10.0
Merged-chr19-11119487-4	chr19	11119393	11119593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 1 of 6)	intron (NM_027058, intron 1 of 6)	11385.0	NM_027058	69369.0	Mm.391200	NM_027058	ENSMUSG00000024729	1700017D01Rik	-	RIKEN cDNA 1700017D01 gene	protein-coding	105.0	98.0	60.5	1184.5	80.5	25.5	46.0	55.5
Merged-chr18-65684032-4	chr18	65683933	65684133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361052, intron 7 of 8)	intron (NM_001361052, intron 7 of 8)	-14235.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	212.5	403.5	274.5	3287.0	512.0	158.0	211.0	209.5
Merged-chr7-80426521-4	chr7	80426441	80426641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21105.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	154.0	160.0	94.0	1810.0	292.5	110.0	112.0	162.0
Merged-chr3-88502838-3	chr3	88502740	88502940	+	944.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001111102, exon 1 of 10)	exon (NM_001111102, exon 1 of 10)	512.0	NM_001111102	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	15.0	13.5	18.0	78.5	17.0	12.5	8.5	17.0
Merged-chr13-49326463-4	chr13	49326366	49326566	+	975.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15083.0	NM_001039179	76895.0	Mm.197387	NM_029791	ENSMUSG00000037933	Bicd2	-	BICD cargo adaptor 2	protein-coding	31.0	41.5	10.0	217.5	38.0	20.0	19.5	9.0
Merged-chr18-35027299-4	chr18	35027204	35027404	+	972.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72953.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	35.0	32.0	31.5	679.5	36.0	8.0	34.5	15.0
Merged-chr6-59011876-4	chr6	59011795	59011995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153574, intron 1 of 17)	intron (NM_153574, intron 1 of 17)	12607.0	NM_153574	58909.0	Mm.28813	NM_153574	ENSMUSG00000037709	Fam13a	AI462012|D430015B01Rik|FAM13A1|Precm1	family with sequence similarity 13, member A	protein-coding	51.5	31.0	72.0	1032.5	125.5	35.0	74.5	31.5
Merged-chr8-35850547-4	chr8	35850444	35850644	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23985.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	8.0	13.5	11.5	143.0	105.0	28.5	33.5	54.0
Merged-chr11-70433791-4	chr11	70433694	70433894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145429, intron 1 of 14)	intron (NM_145429, intron 1 of 14)	1214.0	NM_001271358	216869.0	Mm.203747	NM_145429	ENSMUSG00000060216	Arrb2	AI326910|AW122872|Arr3	arrestin, beta 2	protein-coding	144.0	267.0	141.5	1758.0	311.5	120.0	92.5	123.0
Merged-chr11-61929494-4	chr11	61929402	61929602	+	936.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019921, intron 1 of 14)	intron (NM_019921, intron 1 of 14)	755.0	NM_019921	56697.0	Mm.274404	NM_019921	ENSMUSG00000047804	Akap10	1500031L16Rik|B130049N18Rik|D-AKAP-2|D-AKAP2|PRKA10	A kinase (PRKA) anchor protein 10	protein-coding	24.0	57.0	14.5	445.5	96.0	10.5	20.5	14.5
Merged-chr18-9810363-1	chr18	9810263	9810463	+	923.0	f0_balb.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	102715.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	14.5	5.5	10.5	153.0	6.5	4.5	2.0	0.5
Merged-chr14-40967104-4	chr14	40966966	40967166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145928)	promoter-TSS (NM_145928)	-170.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	363.5	549.5	319.0	5018.0	780.5	372.0	456.5	358.0
Merged-chr8-25602815-6	chr8	25602733	25602933	+	872.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001735, intron 1 of 9)	intron (NM_001001735, intron 1 of 9)	549.0	NM_001308482	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	3.5	14.5	5.5	102.5	18.5	8.5	10.0	15.5
Merged-chr1-180762867-4	chr1	180762753	180762953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	36810.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	71.5	96.0	78.0	1017.0	127.5	58.0	39.5	63.0
Merged-chr15-59772707-2	chr15	59772606	59772806	+	778.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22253.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	5.5	3.0	3.5	26.5	18.5	9.5	8.5	10.0
Merged-chr12-70476340-6	chr12	70476188	70476388	+	799.777771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	intron (NR_037248, intron 2 of 4)	23134.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	6.5	4.0	5.5	65.5	20.0	5.0	7.5	7.0
Merged-chr13-98957958-3	chr13	98957868	98958068	+	949.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26597.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	0.5	0.0	0.0	0.5	95.5	22.5	25.5	41.0
Merged-chr17-45582972-4	chr17	45582880	45583080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	9413.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	52.5	61.5	33.0	379.5	168.0	56.5	56.0	69.5
Merged-chr1-91874852-2	chr1	91874752	91874952	+	993.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73391.0	NM_007855	13345.0	Mm.9474	NM_007855	ENSMUSG00000007805	Twist2	Dermo1|bHLHa39	twist basic helix-loop-helix transcription factor 2	protein-coding	3.5	6.0	1.0	74.0	17.0	4.5	8.5	17.5
Merged-chr13-6633658-4	chr13	6633572	6633772	+	893.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019703, intron 2 of 21)	intron (NM_019703, intron 2 of 21)	15099.0	NM_019703	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	5.5	8.0	13.0	188.0	66.5	4.5	21.0	12.5
Merged-chr9-44482294-4	chr9	44482199	44482399	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357490)	promoter-TSS (NM_001357490)	-526.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	11.0	13.5	4.5	218.0	27.0	9.0	10.5	6.0
Merged-chr4-149167324-4	chr4	149167245	149167445	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081274)	promoter-TSS (NM_001081274)	-640.0	NM_001081274	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	19.0	29.5	6.5	216.5	51.5	15.5	14.5	13.5
Merged-chr16-87713152-4	chr16	87713023	87713223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 1 of 4)	intron (NM_007520, intron 1 of 4)	14169.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	22.5	44.5	41.5	587.0	78.5	24.5	33.5	43.0
Merged-chr3-27194179-4	chr3	27194067	27194267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	L3|LINE|CR1	11163.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	63.5	125.0	84.0	1486.0	232.0	80.5	95.0	128.0
Merged-chr11-53436553-4	chr11	53436493	53436693	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008110, intron 1 of 1)	intron (NM_008110, intron 1 of 1)	3307.0	NM_008110	14566.0	Mm.9714	NM_008110	ENSMUSG00000018238	Gdf9	Gdf-9	growth differentiation factor 9	protein-coding	9.0	18.0	9.0	100.5	12.0	10.5	8.5	12.5
Merged-chr9-41179251-4	chr9	41179138	41179338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21176.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	46.5	101.5	71.5	993.0	50.5	6.0	21.5	19.0
Merged-chr7-92698862-4	chr7	92698764	92698964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28952.0	NM_029078	74737.0	Mm.288645	NM_029078	ENSMUSG00000041328	Pcf11	2500001H09Rik|5730417B17Rik|C77803	PCF11 cleavage and polyadenylation factor subunit	protein-coding	43.0	184.5	75.0	739.0	354.0	139.5	118.5	88.0
Merged-chr12-8928804-4	chr12	8928690	8928890	+	792.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008640, intron 1 of 6)	L1MA6|LINE|L1	7483.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	5.0	8.0	3.5	84.0	16.0	6.0	8.5	5.0
Merged-chr10-8795552-4	chr10	8795443	8795643	+	954.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 4 of 19)	intron (NM_175155, intron 4 of 19)	90527.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	11.0	16.0	9.5	149.5	39.0	5.5	20.0	10.5
Merged-chr3-36853374-3	chr3	36853292	36853492	+	972.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_A|LINE|L1	-9714.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	24.0	33.5	30.0	148.5	11.0	7.0	4.5	4.0
Merged-chr1-86215436-4	chr1	86215332	86215532	+	769.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 19 of 20)	MTD|LTR|ERVL-MaLR	60652.0	NM_001310702	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	11.5	11.0	5.0	234.0	17.5	4.0	5.0	9.5
Merged-chr9-90126454-4	chr9	90126352	90126552	+	946.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11632.0	NM_024431	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	17.5	12.5	17.5	242.5	43.5	22.5	17.5	14.0
Merged-chr3-36151034-4	chr3	36150918	36151118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101478)	promoter-TSS (NM_001101478)	-62.0	NM_001101478	241944.0	Mm.260056	NM_001101478	ENSMUSG00000033883	D3Ertd254e	-	DNA segment, Chr 3, ERATO Doi 254, expressed	protein-coding	65.5	76.5	85.0	1373.0	169.0	42.0	89.5	69.0
Merged-chr9-99492908-3	chr9	99492828	99493028	+	574.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 18 of 21)	intron (NM_028768, intron 18 of 21)	22507.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	9.5	9.0	6.0	86.0	9.5	1.5	3.0	4.0
Merged-chr1-138973755-4	chr1	138973708	138973908	+	908.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	-3849.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	7.0	11.0	7.0	68.0	24.0	3.0	4.5	6.5
Merged-chr14-25785369-1	chr14	25785269	25785469	+	619.0	f0_balb.idr	Intergenic	Intergenic	-16513.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	7.5	7.5	9.0	81.0	14.0	1.0	5.0	2.0
Merged-chr6-148214950-4	chr6	148214860	148215060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015615, intron 1 of 1)	intron (NR_015615, intron 1 of 1)	-2586.0	NM_001286560	67456.0	Mm.59812	NM_026168	ENSMUSG00000030304	Ergic2	1200009B18Rik|4930572C01Rik|AA408438|Ptx1	ERGIC and golgi 2	protein-coding	45.0	69.5	23.5	574.0	101.0	20.0	62.0	47.0
Merged-chr11-62602838-4	chr11	62602809	62603009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030738)	promoter-TSS (NR_030738)	32.0	NR_030738	69221.0	Mm.270874	NR_030738	ENSMUSG00000086841	2410006H16Rik	-	RIKEN cDNA 2410006H16 gene	ncRNA	114.5	334.5	116.0	1177.5	347.0	192.0	139.5	113.0
Merged-chr13-37451679-4	chr13	37451588	37451788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106343.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	29.0	51.0	25.0	505.0	55.0	6.0	21.5	27.0
Merged-chr11-120057939-3	chr11	120057824	120058024	+	711.799988	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-10779.0	NM_007377	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	0.5	4.0	0.0	0.0	26.0	17.5	17.5	21.0
Merged-chr7-80530924-1	chr7	80530824	80531024	+	571.0	f0_balb.idr	intron (NM_001042527, intron 1 of 21)	intron (NM_001042527, intron 1 of 21)	4074.0	NM_007550	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	12.0	8.5	4.5	86.0	19.0	3.0	5.5	2.5
Merged-chr11-115160198-3	chr11	115160113	115160313	+	900.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021411, intron 6 of 8)	intron (NM_021411, intron 6 of 8)	-3128.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	4.0	6.5	7.0	127.0	16.5	13.0	5.0	14.5
Merged-chr8-104376223-2	chr8	104376123	104376323	+	627.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	ID_B1|SINE|B4	19584.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	2.5	7.5	2.0	122.0	11.0	9.0	6.5	5.0
Merged-chr16-21694739-4	chr16	21694647	21694847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001881)	promoter-TSS (NM_001001881)	-82.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	112.0	196.0	193.5	1593.5	261.0	95.5	126.0	90.5
Merged-chr3-84513026-3	chr3	84512914	84513114	+	768.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293801, intron 6 of 7)	intron (NM_001293801, intron 6 of 7)	-32575.0	NM_001033301	229474.0	Mm.331107	NM_001033301	ENSMUSG00000041842	Fhdc1	6330505N24Rik|Gm126	FH2 domain containing 1	protein-coding	6.0	12.5	12.5	172.0	16.5	2.0	7.0	7.0
Merged-chr6-125254296-4	chr6	125254207	125254407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-11218.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	42.5	29.5	48.0	688.0	61.5	24.5	29.0	50.0
Merged-chr6-83572503-4	chr6	83572386	83572586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024239)	promoter-TSS (NM_024239)	18.0	NM_001362078	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	91.5	91.0	40.0	853.0	187.5	52.5	65.0	63.0
Merged-chr18-73815553-4	chr18	73815436	73815636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145494)	promoter-TSS (NM_145494)	-144.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	204.5	249.5	168.5	3187.5	548.5	192.0	286.0	231.0
Merged-chr2-165321698-4	chr2	165321607	165321807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302752)	promoter-TSS (NM_001302752)	-881.0	NM_001302752	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	37.5	33.5	39.0	627.5	46.5	32.5	47.5	35.5
Merged-chr11-98954175-3	chr11	98954114	98954314	+	840.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 2 of 8)	intron (NM_009024, intron 2 of 8)	-6257.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	4.0	2.5	7.0	90.0	13.5	5.5	5.0	9.0
Merged-chr19-14565669-2	chr19	14565569	14565769	+	893.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001302951, intron 4 of 19)	intron (NM_001302951, intron 4 of 19)	31544.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	5.0	11.5	5.0	62.5	22.0	6.5	6.0	4.0
Merged-chr9-73091976-3	chr9	73091904	73092104	+	773.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301230, intron 6 of 6)	intron (NM_001301230, intron 6 of 6)	-10394.0	NM_025890	66991.0	Mm.471745	NM_025890	ENSMUSG00000092622	Khdc3	2410004A20Rik|AI467128|FILIA|OEEP48	KH domain containing 3, subcortical maternal complex member	protein-coding	4.0	5.5	4.5	71.5	10.0	5.5	5.5	7.5
Merged-chr7-97172367-4	chr7	97172264	97172464	+	884.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	90613.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	10.0	14.0	14.0	411.5	24.0	8.5	26.5	14.5
Merged-chr8-34108125-1	chr8	34108025	34108225	+	1000.0	f1_balb.idr	promoter-TSS (NM_001293758)	promoter-TSS (NM_001293758)	-311.0	NM_001293758	22428.0	Mm.150373	NM_011722	ENSMUSG00000031516	Dctn6	AU044699|WS-3|p27	dynactin 6	protein-coding	9.0	19.5	14.0	192.0	31.5	7.0	11.0	13.0
Merged-chr2-132114184-4	chr2	132114111	132114311	+	844.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	(CAAAAA)n|Simple_repeat|Simple_repeat	30897.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	7.5	10.5	15.0	75.5	40.5	13.5	7.0	12.0
Merged-chr17-73037110-4	chr17	73036990	73037190	+	846.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70895.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	11.0	14.5	12.0	318.5	29.0	5.5	10.0	13.0
Merged-chr8-79639255-4	chr8	79639155	79639355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256033)	promoter-TSS (NM_001256033)	-421.0	NM_001256033	73945.0	Mm.34348	NM_001081164	ENSMUSG00000036990	Otud4	4930431L18Rik|AI449692|D8Ertd69e|mKIAA1046	OTU domain containing 4	protein-coding	410.0	540.0	358.5	6069.5	989.0	341.5	506.5	360.0
Merged-chr12-111967004-4	chr12	111966846	111967046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361914)	promoter-TSS (NM_001361914)	63.0	NM_027360	70257.0	Mm.318	NM_027360	ENSMUSG00000021290	2010107E04Rik	9430003J03Rik|AU043134|AV124504|Mp68	RIKEN cDNA 2010107E04 gene	protein-coding	46.0	82.0	60.0	600.0	142.0	51.5	49.0	75.5
Merged-chr3-15276094-4	chr3	15275989	15276189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	56213.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	20.5	40.0	21.0	497.5	157.5	58.0	63.5	36.5
Merged-chr15-76327433-4	chr15	76327348	76327548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175399)	promoter-TSS (NM_175399)	51.0	NM_175399	109075.0	Mm.322752	NM_175399	ENSMUSG00000034259	Exosc4	1110039I09Rik|1500001N04Rik|Rrp41	exosome component 4	protein-coding	83.5	143.0	85.0	1173.5	213.0	74.5	97.5	93.5
Merged-chr11-115209385-4	chr11	115209280	115209480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 8 of 9)	intron (NM_001033393, intron 8 of 9)	21893.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	46.5	43.5	33.5	749.0	157.5	62.0	55.0	61.0
Merged-chr6-82702888-4	chr6	82702725	82702925	+	997.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49960.0	NM_025882	66979.0	Mm.195753	NM_025882	ENSMUSG00000030042	Pole4	2400007P05Rik|5830430F06Rik	polymerase (DNA-directed), epsilon 4 (p12 subunit)	protein-coding	23.5	36.0	9.5	244.0	49.5	11.5	20.5	12.5
Merged-chr10-39412271-4	chr10	39412160	39412360	+	981.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	42461.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	2.0	16.5	20.5	168.5	32.0	9.5	13.0	15.0
Merged-chr6-115331183-4	chr6	115331068	115331268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-29783.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	50.5	44.5	42.0	869.0	91.5	29.5	33.0	41.0
Merged-chr10-88383614-4	chr10	88383509	88383709	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 1 of 20)	RMER10A|LTR|ERVL	4197.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	20.0	28.5	20.0	237.5	51.5	16.5	28.5	20.5
Merged-chr5-130613773-1	chr5	130613673	130613873	+	592.0	f0_c57.idr	intron (NM_021371, intron 2 of 5)	MTD|LTR|ERVL-MaLR	164981.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	4.5	4.0	4.5	26.0	22.5	10.0	19.0	9.0
Merged-chr2-151536863-4	chr2	151536780	151536980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5603.0	NR_126058	14225.0	Mm.278458	NM_008019	ENSMUSG00000032966	Fkbp1a	FKBP12|Fkbp|Fkbp1	FK506 binding protein 1a	protein-coding	68.5	75.0	129.0	1214.0	166.5	95.5	90.5	78.5
Merged-chr10-23979569-4	chr10	23979474	23979674	+	736.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6072.0	NM_001010828	215855.0	Mm.377237	NM_001010828	ENSMUSG00000045111	Taar6	Gm228|taR-6	trace amine-associated receptor 6	protein-coding	8.0	14.0	15.0	154.5	17.0	5.0	8.0	9.5
Merged-chr17-10093633-4	chr17	10093535	10093735	+	941.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	225726.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	11.5	14.0	10.0	425.0	48.5	14.5	44.5	28.5
Merged-chr13-95891245-4	chr13	95891111	95891311	+	916.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	711.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	9.0	13.0	13.5	158.5	35.5	17.5	10.0	26.0
Merged-chr10-19915489-4	chr10	19915396	19915596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7822.0	NM_001161825	18634.0	Mm.338363	NM_008822	ENSMUSG00000020003	Pex7	MmPEX7	peroxisomal biogenesis factor 7	protein-coding	51.0	91.5	57.0	862.5	131.5	47.5	66.0	48.0
Merged-chr2-119156240-4	chr2	119156133	119156333	+	764.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033136, intron 2 of 12)	intron (NM_001033136, intron 2 of 12)	801.0	NM_001033136	67809.0	Mm.475909	NM_001033136	ENSMUSG00000070730	Rmdn3	1200015F23Rik|AI131757|Fam82a2|Ptpip51|RMD-3|Rmd3	regulator of microtubule dynamics 3	protein-coding	6.5	13.0	8.0	69.0	24.5	4.5	11.0	15.0
Merged-chr12-83688149-4	chr12	83688058	83688258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008943)	promoter-TSS (NM_008943)	6.0	NM_001362271	19164.0	Mm.998	NM_008943	ENSMUSG00000019969	Psen1	Ad3h|PS-1|PS1|S182	presenilin 1	protein-coding	94.0	147.0	48.5	1259.5	211.0	92.5	109.0	83.0
Merged-chr9-57708953-2	chr9	57708853	57709053	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153799, intron 1 of 6)	CpG	384.0	NM_153799	353190.0	Mm.268104	NM_153799	ENSMUSG00000038957	Edc3	AA517853|Lsm16|Yjdc	enhancer of mRNA decapping 3	protein-coding	2.5	3.0	8.5	38.5	11.0	5.0	5.0	9.5
Merged-chr13-48260951-3	chr13	48260854	48261054	+	637.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031166)	promoter-TSS (NM_031166)	-473.0	NM_031166	15904.0	Mm.458006	NM_031166	ENSMUSG00000021379	Id4	Idb4|bHLHb27	inhibitor of DNA binding 4	protein-coding	8.0	8.0	10.0	91.0	12.0	1.5	5.5	3.0
Merged-chr7-141468735-4	chr7	141468628	141468828	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111050)	promoter-TSS (NM_001111050)	-61.0	NM_001111050	12476.0	Mm.30246	NM_009842	ENSMUSG00000025510	Cd151	PETA-3|SFA-1|Tspan24	CD151 antigen	protein-coding	28.0	46.0	23.0	462.0	89.0	39.0	39.5	21.5
Merged-chr11-116852497-4	chr11	116852418	116852618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011358, intron 1 of 2)	CpG	576.0	NM_011358	20382.0	Mm.21841	NM_011358	ENSMUSG00000034120	Srsf2	D11Wsu175e|MRF-1|Pr264|SC35|Sfrs10|Sfrs2	serine/arginine-rich splicing factor 2	protein-coding	35.5	58.0	45.0	450.0	134.0	40.0	40.5	48.5
Merged-chr7-43642807-4	chr7	43642707	43642907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 4 of 5)	RLTR28|LTR|ERVL	8068.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	67.5	117.5	51.0	942.0	227.0	72.0	82.0	71.0
Merged-chr8-4329177-3	chr8	4329075	4329275	+	835.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033527, intron 2 of 5)	intron (NR_033527, intron 2 of 5)	3965.0	NR_033527	20300.0	Mm.7275	NM_009138	ENSMUSG00000023235	Ccl25	A130072A22Rik|AI852536|CKb15|Scya25|TECK	chemokine (C-C motif) ligand 25	protein-coding	4.0	7.5	11.0	82.5	15.0	4.5	12.5	5.5
Merged-chr2-132463610-4	chr2	132463504	132463704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-27124.0	NR_028286	70371.0	Mm.394667	NR_028286	ENSMUSG00000086379	1700026D11Rik	-	RIKEN cDNA 1700026D11 gene	ncRNA	31.5	29.0	39.5	382.5	49.5	21.5	32.0	29.0
Merged-chr5-64919025-3	chr5	64918911	64919111	+	626.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13688.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	10.5	7.0	9.0	63.0	29.0	9.0	4.5	7.0
Merged-chr13-101840027-4	chr13	101839943	101840143	+	892.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71826.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	9.0	12.5	42.5	361.0	40.5	8.0	33.5	15.0
Merged-chr5-143315167-7	chr5	143315020	143315220	+	987.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172726, exon 1 of 6)	5' UTR (NM_172726, exon 1 of 6)	240.0	NM_172726	231868.0	Mm.440105	NM_172726	ENSMUSG00000039244	E130309D02Rik	A630028N22	RIKEN cDNA E130309D02 gene	protein-coding	25.0	32.5	26.0	335.0	68.0	22.5	26.5	37.0
Merged-chr11-63806755-4	chr11	63806634	63806834	+	931.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	115550.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	6.5	35.5	16.0	44.5	83.5	50.5	42.0	25.5
Merged-chr5-143919529-6	chr5	143919442	143919642	+	834.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008886, exon 8 of 15)	exon (NM_008886, exon 8 of 15)	9541.0	NM_008886	18861.0	Mm.2950	NM_008886	ENSMUSG00000075569	Pms2	AW555130|Pmsl2	PMS1 homolog2, mismatch repair system component	protein-coding	18.0	8.0	10.5	224.0	12.5	10.5	3.5	5.5
Merged-chr19-12596307-3	chr19	12596205	12596405	+	828.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015503, exon 1 of 2)	non-coding (NR_015503, exon 1 of 2)	261.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	1.5	4.5	2.0	78.0	13.0	6.0	5.5	7.5
Merged-chr13-64373885-4	chr13	64373764	64373964	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3344.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	48.5	36.0	29.5	712.5	59.5	35.5	33.5	13.5
Merged-chr9-15045420-6	chr9	15045268	15045468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019482, exon 1 of 5)	5' UTR (NM_019482, exon 1 of 5)	110.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	44.5	57.5	74.5	742.5	103.5	36.5	36.5	41.0
Merged-chr1-185350055-3	chr1	185349950	185350150	+	987.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347210, intron 7 of 9)	intron (NM_001347210, intron 7 of 9)	-12994.0	NM_029735	107508.0	Mm.154511	NM_029735	ENSMUSG00000026615	Eprs	2410081F06Rik|3010002K18Rik|C79379|Qprs	glutamyl-prolyl-tRNA synthetase	protein-coding	13.0	31.0	20.0	416.0	3.5	3.0	4.5	1.0
Merged-chr3-22021709-4	chr3	22021625	22021825	+	921.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54927.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	10.0	8.0	5.5	238.0	25.5	10.0	10.5	2.5
Merged-chr18-35740047-4	chr18	35739876	35740076	+	809.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001289592, exon 2 of 8)	5' UTR (NM_001289592, exon 2 of 8)	578.0	NM_028261	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	8.0	5.0	7.0	73.5	21.5	5.0	10.5	7.0
Merged-chr2-163418718-2	chr2	163418618	163418818	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025699, intron 1 of 3)	intron (NM_025699, intron 1 of 3)	752.0	NM_025699	66680.0	Mm.25119	NM_025699	ENSMUSG00000035399	Oser1	3230401D17Rik|AI256769|Perit1	oxidative stress responsive serine rich 1	protein-coding	7.0	8.0	7.5	89.5	11.0	6.5	7.5	10.0
Merged-chr5-138442474-4	chr5	138442374	138442574	+	854.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028130, intron 1 of 4)	intron (NM_028130, intron 1 of 4)	998.0	NM_028130	72154.0	Mm.20263	NM_028130	ENSMUSG00000036898	Zfp157	2610020C11Rik|A630094N24Rik|AI327407|Roma|mszf12|mszf23-1	zinc finger protein 157	protein-coding	14.5	8.0	17.5	201.5	30.0	3.0	8.5	19.5
Merged-chr13-100015679-4	chr13	100015557	100015757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030026)	promoter-TSS (NM_030026)	-18.0	NM_030026	78038.0	Mm.137327	NM_030026	ENSMUSG00000021646	Mccc2	4930552N12Rik|MCCB	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)	protein-coding	161.0	191.0	128.0	2782.0	306.0	131.0	205.0	117.0
Merged-chr11-4594878-4	chr11	4594778	4594978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028860)	promoter-TSS (NM_028860)	-63.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	85.5	159.0	88.0	1130.0	236.0	92.0	107.0	67.5
Merged-chr9-46099331-4	chr9	46099237	46099437	+	995.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	86517.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	24.0	31.0	19.5	313.0	43.0	15.0	17.0	21.0
Merged-chr15-31467027-4	chr15	31466936	31467136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 23 of 25)	intron (NM_172606, intron 23 of 25)	-13347.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	41.5	61.5	58.5	738.0	97.5	31.0	45.5	36.0
Merged-chr5-93152665-4	chr5	93152507	93152707	+	904.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 3 of 9)	intron (NM_001009818, intron 3 of 9)	53888.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	3.0	11.5	9.5	103.5	37.5	16.5	17.5	9.0
Merged-chr2-117018662-4	chr2	117018565	117018765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102406.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	49.0	52.5	77.0	1032.5	82.0	53.0	63.5	54.0
Merged-chr10-21855498-4	chr10	21855374	21855574	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26710.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	26.0	29.5	57.5	499.5	53.5	14.0	14.5	11.5
Merged-chr2-77946485-4	chr2	77946377	77946577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290740)	promoter-TSS (NM_001290740)	-121.0	NM_030560	80744.0	Mm.288151	NM_030560	ENSMUSG00000027014	Cwc22	AA684037|AI173004|AL022752|B230213M24|mKIAA1604	CWC22 spliceosome-associated protein	protein-coding	19.0	18.5	34.5	216.5	65.5	19.5	40.5	25.0
Merged-chr11-44523954-4	chr11	44523864	44524064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 1 of 5)	intron (NM_001166553, intron 1 of 5)	4587.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	45.5	79.0	61.5	767.0	116.0	35.0	36.5	40.0
Merged-chr5-147894100-4	chr5	147893940	147894140	+	903.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027872, exon 2 of 6)	5' UTR (NM_027872, exon 2 of 6)	775.0	NM_001357002	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	7.5	8.0	6.5	138.5	16.0	7.5	5.5	10.0
Merged-chr19-12439753-4	chr19	12439642	12439842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	11837.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	47.0	57.5	34.0	458.0	81.0	54.5	43.0	39.0
Merged-chr14-63411938-8	chr14	63411830	63412030	+	932.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 1 of 12)	intron (NM_007549, intron 1 of 12)	5257.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	6.5	9.5	5.5	188.5	10.5	3.5	6.0	6.0
Merged-chr4-137994756-4	chr4	137994646	137994846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 2 of 34)	intron (NM_001256195, intron 2 of 34)	1290.0	NM_172703	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	28.5	51.0	26.0	511.5	65.5	16.0	27.0	29.5
Merged-chr3-27081511-5	chr3	27081429	27081629	+	962.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	72325.0	NM_007900	13605.0	Mm.261453	NM_007900	ENSMUSG00000027699	Ect2	AI528536	ect2 oncogene	protein-coding	13.5	7.5	9.5	311.0	32.0	16.0	18.0	8.5
Merged-chr5-43186806-4	chr5	43186702	43186902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	intron (NR_028417, intron 5 of 7)	-46661.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	33.5	32.5	40.0	717.0	101.0	41.0	31.5	27.5
Merged-chr15-95962626-3	chr15	95962520	95962720	+	905.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 17 of 19)	intron (NM_175344, intron 17 of 19)	116933.0	NR_126493	402773.0	Mm.210567	NM_001033483	ENSMUSG00000078925	D030018L15Rik	-	nuclear receptor coactivator 2 pseudogene	pseudo	13.0	12.5	5.0	221.5	12.0	3.0	7.0	16.0
Merged-chr11-59297148-3	chr11	59297054	59297254	+	750.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-6403.0	NM_009522	22416.0	Mm.1367	NM_009522	ENSMUSG00000009900	Wnt3a	Wnt-3a|vt	wingless-type MMTV integration site family, member 3A	protein-coding	4.0	7.5	3.5	45.5	24.0	9.5	7.0	6.0
Merged-chr18-36713554-4	chr18	36713454	36713654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13261.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	143.0	181.5	113.5	1619.5	155.0	45.5	63.0	63.0
Merged-chr10-111473679-2	chr10	111473579	111473779	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152558, intron 1 of 14)	CpG	452.0	NR_152558	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	39.5	47.5	47.0	454.0	68.0	26.0	41.0	59.0
Merged-chr5-134314896-4	chr5	134314800	134315000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080749)	promoter-TSS (NM_001080749)	-140.0	NM_010365	14886.0	Mm.261570	NM_010365	ENSMUSG00000060261	Gtf2i	6030441I21Rik|BAP-135|Diws1t|GtfII-I|Spin|TFII-I|WBSCR6	general transcription factor II I	protein-coding	96.5	77.0	49.5	919.0	222.0	68.0	102.0	86.0
Merged-chr5-134229652-4	chr5	134229617	134229817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286037)	promoter-TSS (NM_001286037)	-92.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	67.5	92.0	63.5	616.0	139.5	64.0	53.5	48.5
Merged-chr7-99674991-3	chr7	99674889	99675089	+	829.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175316, intron 7 of 13)	intron (NM_175316, intron 7 of 13)	20820.0	NM_001252531	101488.0	Mm.11249	NM_175316	ENSMUSG00000030737	Slco2b1	AI060904|AI852653|OATP-B|Slc21a9	solute carrier organic anion transporter family, member 2b1	protein-coding	9.0	11.0	10.0	373.5	4.5	3.5	4.0	9.0
Merged-chr14-17756988-4	chr14	17756870	17757070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 1 of 9)	intron (NM_001113417, intron 1 of 9)	96010.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	67.5	103.5	95.5	1343.0	141.0	56.0	61.5	43.5
Merged-chr3-95106252-2	chr3	95106152	95106352	+	974.9166869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293707, intron 1 of 14)	intron (NM_001293707, intron 1 of 14)	678.0	NM_008847	18720.0	Mm.296409	NM_008847	ENSMUSG00000028126	Pip5k1a	PI4P5K-I[a]|PIP5K1-alpha|PIP5KIalpha|Pipk5a	phosphatidylinositol-4-phosphate 5-kinase, type 1 alpha	protein-coding	8.0	19.0	7.0	75.0	14.5	3.0	4.5	7.5
Merged-chr10-78137330-4	chr10	78137226	78137426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32442.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	63.5	145.0	43.5	487.0	242.0	72.5	69.0	65.5
Merged-chr5-139375790-4	chr5	139375661	139375861	+	897.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	MTE2a|LTR|ERVL-MaLR	-1936.0	NM_001362206	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	10.5	7.0	3.5	153.0	19.0	14.0	14.0	14.5
Merged-chr12-72462045-4	chr12	72461958	72462158	+	975.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030070, intron 10 of 24)	intron (NM_030070, intron 10 of 24)	19809.0	NM_001142729	78257.0	Mm.266280	NM_030070	ENSMUSG00000021090	Lrrc9	4921529O18Rik|4930432K16Rik	leucine rich repeat containing 9	protein-coding	25.0	23.0	12.0	332.5	45.5	23.5	20.0	34.5
Merged-chr3-59210931-4	chr3	59210810	59211010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028808)	promoter-TSS (NM_028808)	-28.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	33.0	80.5	44.5	662.0	83.5	42.5	39.0	25.0
Merged-chr2-102901544-4	chr2	102901468	102901668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177785)	promoter-TSS (NM_001177785)	97.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	142.5	222.0	127.5	1407.5	270.0	113.0	135.5	110.5
Merged-chr18-53743865-4	chr18	53743775	53743975	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178686, intron 2 of 20)	intron (NM_178686, intron 2 of 20)	672.0	NM_178686	225523.0	Mm.193678	NM_178686	ENSMUSG00000048799	Cep120	A230075C01|AU016693|Ccdc100	centrosomal protein 120	protein-coding	5.0	8.0	15.0	61.5	13.5	9.0	5.0	13.5
Merged-chr18-84092458-7	chr18	84092335	84092535	+	829.8809809999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146090, intron 1 of 1)	intron (NM_146090, intron 1 of 1)	4277.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	4.0	7.5	12.5	54.5	14.5	7.5	9.5	9.5
Merged-chr2-156411498-3	chr2	156411401	156411601	+	988.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-9408.0	NM_001291122	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	7.0	24.0	10.0	52.5	47.5	19.5	24.0	18.0
Merged-chr17-36273825-2	chr17	36273725	36273925	+	758.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-1821.0	NM_024468	79263.0	Mm.40624	NM_024468	ENSMUSG00000045409	Trim39	1100001D15Rik|E130103K13Rik|RBCC-B30.2|Rnf23|mKIAA4179|tfp	tripartite motif-containing 39	protein-coding	4.5	6.5	8.0	42.0	7.0	4.5	6.0	3.5
Merged-chr7-128050894-2	chr7	128050794	128050994	+	712.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-11746.0	NM_001082960	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	6.5	7.5	10.5	68.5	20.5	5.0	1.5	2.5
Merged-chr6-129727457-3	chr6	129727361	129727561	+	911.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-10329.0	NM_001012520	503550.0	Mm.376476	NM_001012520	ENSMUSG00000067610	Klri1	-	killer cell lectin-like receptor family I member 1	protein-coding	18.0	27.5	24.5	175.0	15.5	16.0	9.0	4.5
Merged-chr18-35918419-4	chr18	35918317	35918517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46413.0	NM_001289602	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	33.0	59.0	36.5	797.0	57.5	22.5	29.0	20.5
Merged-chr15-103552300-4	chr15	103552207	103552407	+	834.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12774.0	NM_001289587	14663.0	Mm.219621	NM_008134	ENSMUSG00000022491	Glycam1	MC26|Sgp50|glyCAM-1	glycosylation dependent cell adhesion molecule 1	protein-coding	9.5	9.0	7.5	131.5	24.5	15.5	11.0	17.0
Merged-chr2-160335251-4	chr2	160335143	160335343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7749.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	20.5	48.0	30.5	418.5	104.5	21.5	49.5	33.5
Merged-chr7-45589326-4	chr7	45589209	45589409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009737, exon 11 of 11)	exon (NM_009737, exon 11 of 11)	-14133.0	NR_038165	71661.0	Mm.439894	NR_038165	ENSMUSG00000109644	0610005C13Rik	AI182092	RIKEN cDNA 0610005C13 gene	ncRNA	179.5	277.0	188.0	2496.5	415.0	171.0	219.0	153.0
Merged-chr4-107803972-4	chr4	107803898	107804098	+	905.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080926, intron 2 of 18)	intron (NM_001080926, intron 2 of 18)	1739.0	NM_001080926	16975.0	Mm.442134	NM_053073	ENSMUSG00000028613	Lrp8	4932703M08Rik|AA921429|AI848122|ApoER2|Lr8b	low density lipoprotein receptor-related protein 8, apolipoprotein e receptor	protein-coding	12.5	17.0	23.0	311.5	33.5	10.5	13.0	18.0
Merged-chr2-28583047-6	chr2	28582935	28583135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290484, exon 1 of 12)	5' UTR (NM_001290484, exon 1 of 12)	244.0	NM_148928	70239.0	Mm.274120	NM_148928	ENSMUSG00000026816	Gtf3c5	2700084A09Rik|TFIIIC63|TFiiiC2-63	general transcription factor IIIC, polypeptide 5	protein-coding	14.0	25.5	16.5	138.0	53.5	38.0	33.0	32.0
Merged-chr1-63113089-4	chr1	63112988	63113188	+	828.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114609, intron 1 of 11)	intron (NM_001114609, intron 1 of 11)	1179.0	NM_001081436	227195.0	Mm.74718	NM_001081436	ENSMUSG00000040865	Ino80d	7330405I11|A430093A21Rik|BC010584	INO80 complex subunit D	protein-coding	8.0	15.0	12.0	61.5	19.5	7.0	10.5	8.5
Merged-chr15-101252775-4	chr15	101252690	101252890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-14056.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	73.5	87.5	56.5	1034.0	229.0	80.0	120.5	129.0
Merged-chr14-54902343-4	chr14	54902250	54902450	+	929.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	8207.0	NM_019402	54196.0	Mm.7723	NM_019402	ENSMUSG00000022194	Pabpn1	PAB2|Pabp3|mPABII	poly(A) binding protein, nuclear 1	protein-coding	17.0	21.0	18.5	276.0	60.5	11.0	24.5	16.0
Merged-chr17-34024738-4	chr17	34024637	34024837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009066)	promoter-TSS (NM_009066)	-57.0	NM_009066	19763.0	Mm.20343	NM_009066	ENSMUSG00000024325	Ring1	Ring1A	ring finger protein 1	protein-coding	47.0	50.0	31.5	469.0	178.5	49.5	54.5	54.0
Merged-chr10-23858259-2	chr10	23858142	23858342	+	788.0	f0_c57.idr|f1_balb.idr	intron (NM_011979, intron 3 of 6)	MMETn-int|LTR|ERVK	6780.0	NM_011979	26464.0	Mm.27334	NM_011979	ENSMUSG00000020010	Vnn3	-	vanin 3	protein-coding	0.0	0.0	0.0	0.5	28.5	9.0	13.5	9.0
Merged-chr12-99608484-4	chr12	99608399	99608599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136760, intron 2 of 3)	intron (NR_136760, intron 2 of 3)	19475.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	56.0	72.5	54.5	840.5	159.5	46.0	35.5	26.0
Merged-chr6-38950038-4	chr6	38949944	38950144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 2 of 12)	intron (NM_011539, intron 2 of 12)	31058.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	34.5	118.0	51.5	786.5	144.0	50.5	69.0	53.5
Merged-chr7-19084658-4	chr7	19084545	19084745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032418, intron 1 of 14)	intron (NM_032418, intron 1 of 14)	796.0	NM_001190491	13400.0	Mm.6529	NM_032418	ENSMUSG00000030409	Dmpk	DM|DMK|Dm15|MDPK|MT-PK	dystrophia myotonica-protein kinase	protein-coding	85.0	193.0	87.5	2099.0	360.0	121.0	158.0	132.5
Merged-chr13-52042062-4	chr13	52041959	52042159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54682.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	52.5	53.5	43.5	921.0	143.0	47.0	67.0	49.5
Merged-chr16-23982625-4	chr16	23982507	23982707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	intron (NM_009744, intron 1 of 9)	-1324.0	NM_001348026	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	28.0	46.5	21.0	253.5	31.0	23.0	25.0	12.0
Merged-chr1-192736150-3	chr1	192736034	192736234	+	611.988892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 4 of 11)	intron (NM_144881, intron 4 of 11)	35085.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	6.5	8.0	7.0	74.0	6.0	1.0	10.0	7.0
Merged-chr10-99264680-5	chr10	99264579	99264779	+	865.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026268, exon 2 of 3)	exon (NM_026268, exon 2 of 3)	1448.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	13.5	16.5	3.0	121.0	19.5	9.5	9.0	14.0
Merged-chr15-59426957-3	chr15	59426859	59427059	+	837.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 3 of 4)	intron (NM_001164604, intron 3 of 4)	52761.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	18.5	30.0	11.5	150.0	18.5	9.0	10.0	6.0
Merged-chr16-22070735-3	chr16	22070632	22070832	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 10 of 15)	intron (NM_183029, intron 10 of 15)	61248.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	4.0	5.0	12.5	85.5	23.0	7.0	6.0	7.0
Merged-chr9-83540414-6	chr9	83540312	83540512	+	869.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7926.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	13.0	8.0	12.0	154.0	24.0	7.5	6.5	17.0
Merged-chr2-113450109-4	chr2	113450004	113450204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	intron (NM_001285459, intron 2 of 16)	9040.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	80.5	128.0	109.5	1807.0	195.0	77.5	76.5	68.5
Merged-chr13-101843779-3	chr13	101843694	101843894	+	744.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-75577.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	8.0	9.5	14.0	169.5	23.0	1.0	4.5	8.0
Merged-chr12-55560262-4	chr12	55560250	55560450	+	937.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4855.0	NM_001277340	79459.0	Mm.392781	NM_001277340	ENSMUSG00000063129	Aldoart2	4933425L11Rik|Aldo1-ps1|Aldoa-ps1	aldolase 1 A, retrogene 2	protein-coding	11.5	21.0	14.5	144.5	25.5	10.5	7.0	12.0
Merged-chr1-45860580-4	chr1	45860487	45860687	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65007.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	28.5	32.0	42.0	530.5	36.0	15.5	17.0	27.0
Merged-chr12-102390128-4	chr12	102390004	102390204	+	876.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001161365, exon 10 of 10)	exon (NM_001161365, exon 10 of 10)	49709.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	10.5	5.5	10.5	98.0	18.5	16.5	4.0	6.5
Merged-chr19-21272185-4	chr19	21272068	21272268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009551)	promoter-TSS (NM_009551)	-110.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	402.5	547.5	501.5	4571.0	994.0	395.5	409.0	330.5
Merged-chr3-79852939-4	chr3	79852838	79853038	+	962.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-10276.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	43.5	38.0	47.0	936.5	42.0	8.0	16.5	30.5
Merged-chr3-85571467-4	chr3	85571379	85571579	+	942.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2650.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	16.5	16.0	20.5	274.5	43.5	16.5	19.0	17.5
Merged-chr6-15715195-4	chr6	15715091	15715291	+	963.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1B-I_MM-int|LTR|ERVK	-5470.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	22.0	12.0	26.0	158.5	75.0	11.0	30.0	23.5
Merged-chr1-107528488-4	chr1	107528382	107528582	+	881.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198028)	promoter-TSS (NM_198028)	-521.0	NM_001160307	241197.0	Mm.123919	NM_198028	ENSMUSG00000092572	Serpinb10	9830131G07|BB233602|Serpinb10-ps	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 10	protein-coding	8.5	10.5	18.0	316.0	33.5	15.0	10.0	9.0
Merged-chr4-34494570-4	chr4	34494459	34494659	+	813.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56056.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	13.5	16.5	5.5	188.0	16.5	2.5	12.0	15.0
Merged-chr6-8494600-4	chr6	8494496	8494696	+	956.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14565.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	11.0	13.5	8.0	189.5	57.0	18.5	17.5	13.5
Merged-chr11-95421263-2	chr11	95421163	95421363	+	853.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359107, intron 1 of 9)	intron (NM_001359107, intron 1 of 9)	7180.0	NM_001359107	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	6.0	5.0	5.0	58.5	22.0	9.0	5.0	6.0
Merged-chr1-78895466-3	chr1	78895367	78895567	+	880.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151519, intron 3 of 3)	intron (NR_151519, intron 3 of 3)	78556.0	NM_021342	57814.0	Mm.24386	NM_021342	ENSMUSG00000047330	Kcne4	AW487937|MiRP3	potassium voltage-gated channel, Isk-related subfamily, gene 4	protein-coding	12.5	9.0	7.0	69.5	21.0	1.0	4.0	3.0
Merged-chr15-63123268-3	chr15	63123174	63123374	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	356334.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	6.0	2.0	4.0	81.5	18.5	7.5	6.0	16.5
Merged-chr8-86888083-4	chr8	86887974	86888174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2816.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	218.5	359.0	154.5	2034.5	476.0	166.5	195.0	132.5
Merged-chr18-15265692-1	chr18	15265592	15265792	+	709.333313	f0_balb.idr	Intergenic	Intergenic	-114246.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	8.5	12.0	8.0	135.0	2.5	5.5	13.5	11.0
Merged-chr7-5038419-4	chr7	5038305	5038505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039532)	promoter-TSS (NM_001039532)	41.0	NM_001039532	654801.0	Mm.333548	NM_001039532	ENSMUSG00000043290	Zfp784	C730049F21Rik|Znf784	zinc finger protein 784	protein-coding	59.0	121.0	104.5	939.5	106.0	59.0	53.0	56.0
Merged-chr2-91649543-2	chr2	91649443	91649643	+	862.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027371)	promoter-TSS (NR_027371)	248.0	NM_001347175	381410.0	Mm.330401	NM_001033451	ENSMUSG00000075040	Zfp408	Gm1011	zinc finger protein 408	protein-coding	5.5	7.5	1.5	64.0	9.0	5.5	6.0	6.5
Merged-chr17-17882828-4	chr17	17882720	17882920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013521, intron 1 of 1)	intron (NM_013521, intron 1 of 1)	1119.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	50.5	83.5	73.5	1257.0	97.0	55.0	57.0	26.0
Merged-chr3-8098911-4	chr3	8098806	8099006	+	985.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa-int|LTR|ERVL-MaLR	-144019.0	NR_040587	75476.0	Mm.491752	NR_040587	ENSMUSG00000100010	1700010I02Rik	-	RIKEN cDNA 1700010I02 gene	ncRNA	14.5	25.5	18.0	427.5	58.5	28.0	31.0	22.5
Merged-chr11-65788346-4	chr11	65788258	65788458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009157)	promoter-TSS (NM_009157)	1.0	NM_009157	26398.0	Mm.412922	NM_009157	ENSMUSG00000033352	Map2k4	JNKK1|MEK4|MKK4|PRKMK4|Sek1|Serk1	mitogen-activated protein kinase kinase 4	protein-coding	154.0	225.5	98.0	1940.5	383.5	141.0	208.0	138.0
Merged-chr9-40457635-4	chr9	40457532	40457732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	-1868.0	NM_172768	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	26.0	68.0	56.0	1245.5	87.0	39.5	63.0	41.0
Merged-chr4-41469314-4	chr4	41469210	41469410	+	838.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025539, intron 1 of 2)	intron (NM_025539, intron 1 of 2)	4162.0	NM_025539	66401.0	Mm.28574	NM_025539	ENSMUSG00000028443	Nudt2	2310051L06Rik|AA939917|APAH1	nudix (nucleoside diphosphate linked moiety X)-type motif 2	protein-coding	15.0	13.5	9.5	365.0	22.0	11.0	15.0	11.0
Merged-chr2-5130316-4	chr2	5130215	5130415	+	815.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7461.0	NM_028804	74186.0	Mm.274715	NM_028804	ENSMUSG00000026676	Ccdc3	2310045O21Rik	coiled-coil domain containing 3	protein-coding	8.5	10.5	11.0	73.5	27.0	10.5	18.5	16.0
Merged-chr3-89428104-3	chr3	89427994	89428194	+	865.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011368, intron 12 of 12)	intron (NM_011368, intron 12 of 12)	-2120.0	NM_001293766	68911.0	Mm.22521	NM_026869	ENSMUSG00000047824	Pygo2	1190004M21Rik	pygopus 2	protein-coding	11.0	10.0	7.0	104.5	5.5	2.0	4.5	6.5
Merged-chr4-75315622-4	chr4	75315529	75315729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37337.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	52.5	36.5	93.0	1325.5	115.5	26.5	69.5	36.0
Merged-chr2-152793484-4	chr2	152793374	152793574	+	947.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	35015.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	25.0	21.0	17.5	257.5	30.5	7.0	11.5	16.0
Merged-chr4-53414182-4	chr4	53414078	53414278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26235.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	80.0	119.0	47.0	876.0	118.0	43.5	72.5	51.5
Merged-chr2-46442169-4	chr2	46442090	46442290	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	745585.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	14.5	20.5	18.0	210.0	26.0	12.5	9.5	9.0
Merged-chr5-143033084-3	chr5	143032987	143033187	+	590.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	72732.0	NM_007984	14086.0	Mm.289707	NM_007984	ENSMUSG00000029581	Fscn1	AI663989|Fan1|fascin-1	fascin actin-bundling protein 1	protein-coding	4.5	10.0	13.0	55.0	21.5	1.5	3.0	9.0
Merged-chr3-146451507-3	chr3	146451427	146451627	+	655.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028836, intron 1 of 5)	ORR1B1|LTR|ERVL-MaLR	1060.0	NM_001293672	74245.0	Mm.45396	NM_028836	ENSMUSG00000028189	Ctbs	2210401K11Rik|CTB	chitobiase, di-N-acetyl-	protein-coding	5.5	3.5	7.0	70.5	17.0	6.0	13.5	8.0
Merged-chr19-59036948-3	chr19	59036859	59037059	+	961.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 5 of 16)	intron (NM_001114312, intron 5 of 16)	39110.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	19.5	27.0	11.5	194.0	42.0	7.0	6.5	5.5
Merged-chr3-156560885-4	chr3	156560803	156561003	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177274)	promoter-TSS (NM_177274)	784.0	NR_040398	329782.0	Mm.183459	NR_040398	ENSMUSG00000085084	4930570G19Rik	C630015G22	RIKEN cDNA 4930570G19 gene	ncRNA	4.0	2.5	11.5	109.5	54.0	8.5	30.5	20.0
Merged-chr1-157412060-2	chr1	157411960	157412160	+	995.8333130000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027984)	promoter-TSS (NR_027984)	-292.0	NR_027984	69953.0	Mm.286863	NM_027274	ENSMUSG00000049881	2810025M15Rik	AI429618	RIKEN cDNA 2810025M15 gene	ncRNA	12.5	15.5	16.0	153.0	41.0	12.5	20.5	14.0
Merged-chr7-3709996-4	chr7	3709887	3710087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5946.0	NM_029767	76846.0	Mm.13944	NM_029767	ENSMUSG00000006333	Rps9	3010033P07Rik|AL022771|AL022885	ribosomal protein S9	protein-coding	58.0	106.0	34.0	633.0	151.5	50.5	38.5	36.5
Merged-chr15-50820377-4	chr15	50820283	50820483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	68666.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	76.5	112.5	61.5	1393.5	187.5	53.5	88.0	48.0
Merged-chr8-46742066-2	chr8	46741966	46742166	+	908.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	2321.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	2.0	4.5	3.0	25.5	8.0	4.5	8.0	5.0
Merged-chr6-138140162-4	chr6	138140064	138140264	+	877.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019946)	promoter-TSS (NM_019946)	-363.0	NM_001361308	56615.0	Mm.14796	NM_019946	ENSMUSG00000008540	Mgst1	1500002K10Rik|Gst	microsomal glutathione S-transferase 1	protein-coding	17.0	13.0	19.0	249.0	26.0	16.5	7.0	7.5
Merged-chr11-8589225-2	chr11	8589125	8589325	+	945.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	intron (NM_001083587, intron 3 of 30)	75310.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	3.5	8.5	8.5	126.5	18.5	5.0	6.5	5.0
Merged-chr4-139208439-4	chr4	139208350	139208550	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	14339.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	16.0	10.5	16.0	281.0	60.5	22.0	47.5	28.5
Merged-chr14-7913999-4	chr14	7913882	7914082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081427, intron 25 of 45)	intron (NM_001081427, intron 25 of 45)	80200.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	28.5	92.5	51.0	935.0	110.0	39.5	46.0	35.5
Merged-chr14-25379107-4	chr14	25379009	25379209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80076.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	47.0	126.5	73.0	474.0	119.0	36.5	43.5	28.5
Merged-chr1-24099923-2	chr1	24099823	24100023	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026604, intron 1 of 20)	CpG	418.0	NM_026604	68187.0	Mm.87130	NM_026604	ENSMUSG00000026153	Fam135a	4921533L14Rik|AI256732|AI835491	family with sequence similarity 135, member A	protein-coding	18.0	17.5	31.0	419.5	31.5	20.5	28.0	36.5
Merged-chr6-108834480-4	chr6	108834379	108834579	+	846.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138677, intron 1 of 11)	intron (NM_138677, intron 1 of 11)	5838.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	12.5	27.0	7.5	163.5	26.0	6.5	14.0	8.5
Merged-chr2-20967382-3	chr2	20967303	20967503	+	776.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081364, exon 1 of 24)	exon (NM_001081364, exon 1 of 24)	318.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	7.0	13.0	4.5	146.0	16.5	7.0	4.5	2.5
Merged-chr12-55459950-4	chr12	55459855	55460055	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32692.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	23.5	7.0	13.0	257.5	50.0	15.0	23.0	14.5
Merged-chr16-90281142-4	chr16	90281053	90281253	+	757.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 1 of 19)	intron (NM_001346799, intron 1 of 19)	3333.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	10.0	8.5	8.0	110.5	21.0	5.5	13.0	11.0
Merged-chr19-47512070-4	chr19	47511958	47512158	+	903.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045322)	promoter-TSS (NR_045322)	-924.0	NR_045322	100503104.0	Mm.442735	NR_045322	ENSMUSG00000097990	Gm19557	-	predicted gene, 19557	ncRNA	27.5	24.5	19.0	389.0	30.0	12.0	5.0	17.0
Merged-chr3-146645696-1	chr3	146645596	146645796	+	601.0	f0_balb.idr	TTS (NM_029144)	TTS (NM_029144)	3764.0	NR_045949	100286843.0	Mm.475299	NR_045949	ENSMUSG00000085810	Gm16325	-	predicted gene 16325	ncRNA	4.5	5.5	7.5	55.5	8.0	1.0	5.0	4.5
Merged-chr3-146058414-4	chr3	146058333	146058533	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172864, intron 16 of 22)	intron (NM_172864, intron 16 of 22)	49603.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	19.5	26.0	21.0	329.5	44.5	12.0	15.0	22.5
Merged-chr12-111182072-4	chr12	111181975	111182175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130987, intron 1 of 3)	intron (NR_130987, intron 1 of 3)	2416.0	NR_130987	78062.0	Mm.427248	NR_130987	ENSMUSG00000083193	4930595D18Rik	-	RIKEN cDNA 4930595D18 gene	ncRNA	16.5	74.0	18.0	304.0	160.0	30.5	51.5	30.0
Merged-chr11-110426989-4	chr11	110426892	110427092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	27890.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	53.0	80.0	54.0	786.5	166.5	48.5	68.0	54.0
Merged-chr11-107478717-3	chr11	107478614	107478814	+	918.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025894)	promoter-TSS (NM_025894)	-814.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	13.0	17.5	10.0	57.0	21.0	19.5	11.0	4.0
Merged-chr5-67822258-4	chr5	67822157	67822357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	25174.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	158.5	252.0	193.5	2968.0	312.5	114.0	203.0	117.5
Merged-chr8-78509796-4	chr8	78509693	78509893	+	911.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009033)	promoter-TSS (NM_009033)	465.0	NM_001282108	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	15.0	7.0	17.5	152.5	33.0	6.5	8.0	16.0
Merged-chr1-135112839-3	chr1	135112715	135112915	+	894.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153383, intron 25 of 36)	intron (NR_153383, intron 25 of 36)	-7539.0	NM_001033409	329252.0	Mm.279594	NM_001033409	ENSMUSG00000042793	Lgr6	A530037C04Rik|D830026M09	leucine-rich repeat-containing G protein-coupled receptor 6	protein-coding	6.0	17.5	9.0	152.5	33.0	4.5	7.5	6.5
Merged-chr10-117063896-4	chr10	117063819	117064019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358767)	promoter-TSS (NM_001358767)	-67.0	NM_007636	12461.0	Mm.247788	NM_007636	ENSMUSG00000034024	Cct2	Cctb	chaperonin containing Tcp1, subunit 2 (beta)	protein-coding	174.0	218.0	114.5	1856.0	513.5	163.0	216.5	188.0
Merged-chr5-36748675-4	chr5	36748571	36748771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133724)	promoter-TSS (NM_133724)	8.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	55.0	101.5	27.5	801.0	165.0	80.5	62.5	69.0
Merged-chr16-33996318-4	chr16	33996224	33996424	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 51 of 59)	intron (NM_177357, intron 51 of 59)	-29286.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	8.0	28.0	10.0	206.0	45.0	10.0	17.5	15.5
Merged-chr17-37050490-10	chr17	37050452	37050652	+	948.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019439, intron 5 of 22)	intron (NM_019439, intron 5 of 22)	4586.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	15.5	14.0	16.0	220.5	21.5	11.5	13.5	7.0
Merged-chr15-64342645-3	chr15	64342548	64342748	+	790.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 2 of 28)	intron (NM_001276461, intron 2 of 28)	-29975.0	NM_001276463	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	6.5	12.5	4.5	113.0	12.0	4.0	11.5	8.5
Merged-chr8-84872200-4	chr8	84872163	84872363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168244)	promoter-TSS (NM_001168244)	5.0	NM_001168244	71846.0	Mm.229128	NM_027954	ENSMUSG00000003824	Syce2	1700013H19Rik|AA407907|Cesc1	synaptonemal complex central element protein 2	protein-coding	44.5	36.5	34.0	341.5	102.5	38.0	30.5	58.5
Merged-chr6-42419649-4	chr6	42419555	42419755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14126.0	NM_199159	387512.0	Mm.377919	NM_199159	ENSMUSG00000056203	Tas2r135	Tas2r35|mt2r38	taste receptor, type 2, member 135	protein-coding	59.0	57.0	31.0	384.0	80.0	58.5	43.5	30.0
Merged-chr10-8883910-4	chr10	8883805	8884005	+	973.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	2165.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	37.0	56.5	44.0	328.0	53.5	37.0	14.0	13.0
Merged-chr7-16044031-4	chr7	16043943	16044143	+	945.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27802.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	14.0	16.5	15.5	249.5	32.5	8.0	21.5	21.5
Merged-chr16-18416380-3	chr16	18416273	18416473	+	893.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007744, intron 1 of 4)	intron (NM_007744, intron 1 of 4)	-2879.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	16.0	6.0	8.0	388.0	16.5	4.5	10.0	18.5
Merged-chr8-70158727-4	chr8	70158632	70158832	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045484, intron 1 of 8)	CpG	5971.0	NM_001045484	17259.0	Mm.432505	NM_008578	ENSMUSG00000079033	Mef2b	AI451606	myocyte enhancer factor 2B	protein-coding	10.0	21.0	11.5	266.5	65.0	25.0	14.5	25.5
Merged-chr2-26055241-4	chr2	26055110	26055310	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026495)	TTS (NM_026495)	-33450.0	NM_133835	98766.0	Mm.247824	NM_133835	ENSMUSG00000036352	Ubac1	1110033G07Rik|AA407978|GBDR1|Gdbr1|Kpc2|Ubadc1	ubiquitin associated domain containing 1	protein-coding	7.0	12.5	6.0	137.5	19.5	10.5	8.0	11.5
Merged-chr6-17586953-3	chr6	17586885	17587085	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50025.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	0.5	2.0	0.5	16.5	129.0	30.5	56.5	32.5
Merged-chr5-147060173-3	chr5	147060060	147060260	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	16412.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	58.5	62.0	37.0	982.0	16.0	0.0	13.5	2.5
Merged-chr16-16555929-1	chr16	16555829	16556029	+	649.666687	f0_balb.idr	intron (NM_001301817, intron 1 of 16)	B1F|SINE|Alu	4290.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	9.5	8.5	8.5	98.5	13.5	4.5	5.0	5.5
Merged-chr15-100674060-4	chr15	100673973	100674173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033612)	TTS (NM_033612)	-4573.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	36.0	42.5	64.5	1209.0	63.5	20.5	39.0	67.0
Merged-chr15-51701592-2	chr15	51701492	51701692	+	708.458374	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur2|LINE|L1	163869.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	6.5	4.0	4.5	35.0	32.5	6.0	7.5	6.5
Merged-chr12-98212593-4	chr12	98212466	98212666	+	729.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008079, intron 14 of 16)	L1_Mus3|LINE|L1	46893.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	1.0	6.5	7.0	44.0	10.5	15.5	6.0	13.0
Merged-chr2-24385839-3	chr2	24385732	24385932	+	828.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355232)	promoter-TSS (NM_001355232)	500.0	NM_177611	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	4.5	6.0	6.5	85.5	18.0	13.0	8.5	9.0
Merged-chr1-36709299-6	chr1	36709234	36709434	+	945.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146107, intron 1 of 10)	LFSINE_Vert|SINE|tRNA	591.0	NM_146107	226977.0	Mm.28521	NM_146107	ENSMUSG00000037351	Actr1b	2310066K23Rik|AA960180|AI851923|Arp1b	ARP1 actin-related protein 1B, centractin beta	protein-coding	14.0	16.0	13.5	70.5	26.5	4.0	6.5	9.5
Merged-chr3-133075798-4	chr3	133075695	133075895	+	904.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356309, intron 3 of 11)	B4A|SINE|B4	16030.0	NM_026231	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	18.0	18.0	14.0	278.0	29.5	3.0	9.5	11.5
Merged-chr1-53297119-4	chr1	53297050	53297250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153556)	promoter-TSS (NM_153556)	55.0	NM_145517	227102.0	Mm.212846	NM_145517	ENSMUSG00000026097	Ormdl1	C730042F17Rik	ORM1-like 1 (S. cerevisiae)	protein-coding	231.5	304.5	216.5	4106.5	446.5	170.0	207.5	201.5
Merged-chr3-121602267-4	chr3	121602183	121602383	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41202.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	17.0	32.0	15.0	373.5	59.5	29.5	27.0	43.0
Merged-chr18-69416298-4	chr18	69416195	69416395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	70135.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	56.5	81.0	71.5	915.0	134.5	50.5	39.0	50.5
Merged-chr13-102694809-2	chr13	102694709	102694909	+	715.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360519, intron 1 of 2)	MLT1B|LTR|ERVL-MaLR	1251.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	5.5	9.0	5.5	95.0	16.0	3.0	1.5	15.5
Merged-chr1-183637142-1	chr1	183637042	183637242	+	566.0	f0_c57.idr	Intergenic	Intergenic	-111835.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	2.0	5.0	1.0	15.5	21.5	9.5	10.0	7.5
Merged-chr1-74376470-8	chr1	74376328	74376528	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013612, intron 2 of 14)	intron (NM_013612, intron 2 of 14)	1225.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	16.0	12.0	25.0	245.5	55.5	12.5	30.5	19.0
Merged-chr2-117108252-4	chr2	117108111	117108311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12860.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	106.0	120.0	162.5	2073.5	209.5	75.0	84.5	91.0
Merged-chr15-34238685-4	chr15	34238549	34238749	+	970.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033521, intron 1 of 6)	CpG	623.0	NM_033521	114128.0	Mm.197518	NM_033521	ENSMUSG00000022257	Laptm4b	C330023P13Rik|LAPTM4beta	lysosomal-associated protein transmembrane 4B	protein-coding	27.5	25.0	36.5	343.5	46.0	22.5	14.0	21.0
Merged-chr11-116621451-4	chr11	116621370	116621570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	2782.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	69.0	176.5	78.5	752.5	313.0	87.0	96.0	79.5
Merged-chr3-75299666-4	chr3	75299575	75299775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-29597.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	71.5	113.5	62.5	943.0	220.0	67.5	95.0	46.5
Merged-chr16-33414410-4	chr16	33414286	33414486	+	976.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358569, intron 1 of 8)	B3A|SINE|B2	13941.0	NM_001358569	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	17.5	17.5	13.5	431.0	52.5	9.0	17.0	14.5
Merged-chr17-50189613-6	chr17	50189600	50189800	+	851.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 1 of 9)	intron (NM_181397, intron 1 of 9)	797.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	5.0	20.0	7.5	82.5	34.5	8.0	9.0	7.0
Merged-chr10-77967271-4	chr10	77967161	77967361	+	807.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 2 of 33)	intron (NM_138301, intron 2 of 33)	2611.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	10.0	10.0	0.5	91.5	24.0	6.5	8.0	6.5
Merged-chr19-12502148-4	chr19	12502048	12502248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172442)	promoter-TSS (NM_172442)	-152.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	78.5	181.0	77.0	1126.5	189.0	65.0	76.5	82.5
Merged-chr11-20329864-4	chr11	20329744	20329944	+	840.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018861, intron 1 of 7)	intron (NM_018861, intron 1 of 7)	2869.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	2.5	9.0	14.0	195.5	17.5	6.5	7.5	7.5
Merged-chr2-143035553-3	chr2	143035464	143035664	+	991.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27505.0	NM_021335	20639.0	Mm.1323	NM_021335	ENSMUSG00000008333	Snrpb2	2810052G09Rik	U2 small nuclear ribonucleoprotein B	protein-coding	5.0	21.5	19.5	260.5	20.5	16.0	15.0	17.0
Merged-chr9-100506866-4	chr9	100506754	100506954	+	923.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324530)	promoter-TSS (NM_001324530)	2.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	17.5	42.0	14.5	176.5	77.0	11.0	27.5	6.0
Merged-chr12-3763306-4	chr12	3763210	3763410	+	819.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027869, intron 16 of 20)	intron (NR_027869, intron 16 of 20)	-43670.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	11.0	14.0	8.0	230.5	28.0	9.0	13.0	16.5
Merged-chr10-79996446-4	chr10	79996353	79996553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-1155.0	NM_001347081	27403.0	Mm.103351	NM_013850	ENSMUSG00000035722	Abca7	ABCX|Abc51	ATP-binding cassette, sub-family A (ABC1), member 7	protein-coding	63.0	105.0	68.0	1020.5	201.0	63.5	87.0	62.5
Merged-chr7-80647574-4	chr7	80647489	80647689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173863, intron 2 of 14)	intron (NM_173863, intron 2 of 14)	11572.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	73.0	57.0	70.5	1087.5	135.5	61.0	78.0	75.5
Merged-chr8-70353354-4	chr8	70353243	70353443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122829)	promoter-TSS (NM_001122829)	-64.0	NM_001122829	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	107.0	182.0	54.5	1206.0	312.5	126.0	111.5	121.0
Merged-chr5-150840309-4	chr5	150840193	150840393	+	947.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112314.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	17.0	16.0	25.5	271.0	41.0	6.0	25.0	14.0
Merged-chr10-82629808-4	chr10	82629722	82629922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011561)	promoter-TSS (NM_011561)	-16.0	NM_001358517	21665.0	Mm.284252	NM_011561	ENSMUSG00000034674	Tdg	E130317C12Rik|JZA-3|Jza1	thymine DNA glycosylase	protein-coding	173.0	249.5	133.5	1663.5	521.0	225.0	265.5	191.5
Merged-chr5-139781629-3	chr5	139781496	139781696	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5918.0	NM_026748	68510.0	Mm.292942	NM_026748	ENSMUSG00000029547	Ints1	1110015K06Rik	integrator complex subunit 1	protein-coding	66.5	71.0	69.0	1188.0	2.0	0.0	0.0	2.5
Merged-chr10-105575469-4	chr10	105575376	105575576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177368)	promoter-TSS (NM_177368)	925.0	NR_038032	327812.0	Mm.191660	NR_038032	ENSMUSG00000085282	Gm15663	9330159K06	predicted gene 15663	ncRNA	51.0	72.0	51.5	1114.0	114.0	32.5	80.5	53.0
Merged-chr7-113523144-4	chr7	113523060	113523260	+	898.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360668, intron 1 of 12)	intron (NM_001360668, intron 1 of 12)	9326.0	NM_001360669	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	9.5	15.0	21.5	189.5	39.5	12.0	9.5	14.0
Merged-chr3-79172599-4	chr3	79172513	79172713	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26738.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	12.0	30.0	17.5	192.5	35.0	13.5	8.0	5.5
Merged-chr4-141998825-4	chr4	141998723	141998923	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 2 of 31)	intron (NM_177868, intron 2 of 31)	12828.0	NM_177868	329977.0	Mm.252019	NM_028429	ENSMUSG00000051435	Fhad1	2900090M10Rik|B230311F11	forkhead-associated (FHA) phosphopeptide binding domain 1	protein-coding	14.0	23.0	25.0	363.5	31.0	18.0	29.5	24.5
Merged-chr2-60125328-4	chr2	60125236	60125436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	404.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	38.5	42.0	45.0	360.5	75.0	28.5	29.5	48.0
Merged-chr14-75130429-4	chr14	75130397	75130597	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001247984)	promoter-TSS (NM_001247984)	386.0	NM_027581	70859.0	Mm.320289	NM_027581	ENSMUSG00000021997	Lrrc63	4921509B22Rik	leucine rich repeat containing 63	protein-coding	24.5	41.5	12.5	113.0	73.0	31.5	15.5	18.5
Merged-chr8-119686339-3	chr8	119686217	119686417	+	855.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023395, exon 6 of 7)	exon (NM_023395, exon 6 of 7)	-13692.0	NM_026922	69047.0	Mm.46251	NM_026922	ENSMUSG00000034112	Atp2c2	1810010G06Rik|Spca2|mKIAA0703	ATPase, Ca++ transporting, type 2C, member 2	protein-coding	6.0	5.0	6.0	52.5	8.5	4.5	3.0	2.0
Merged-chr17-30612687-4	chr17	30612595	30612795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025374)	promoter-TSS (NM_025374)	-36.0	NM_001113560	109801.0	Mm.261984	NM_025374	ENSMUSG00000024026	Glo1	0610009E22Rik|1110008E19Rik|2510049H23Rik|AW550643|GLY1|Glo-1|Glo-1r|Glo-1s|Glo1-r|Glo1-s|Qglo	glyoxalase 1	protein-coding	166.0	247.0	125.5	2085.0	284.0	112.5	186.5	140.0
Merged-chr4-59465651-4	chr4	59465537	59465737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27004.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	29.5	38.5	37.0	710.0	47.0	27.5	31.5	25.5
Merged-chr11-116109670-4	chr11	116109580	116109780	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172570, exon 1 of 6)	exon (NM_172570, exon 1 of 6)	555.0	NM_001205081	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	18.5	23.0	8.0	268.5	30.5	11.0	15.5	22.5
Merged-chr17-28204472-2	chr17	28204372	28204572	+	839.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_172617, exon 14 of 15)	exon (NM_172617, exon 14 of 15)	-3306.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	5.0	5.5	7.5	42.5	5.5	2.5	2.5	5.0
Merged-chr11-117150646-4	chr11	117150545	117150745	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166506, exon 12 of 16)	exon (NM_001166506, exon 12 of 16)	35473.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	22.0	16.5	7.5	244.5	19.5	8.0	4.0	11.0
Merged-chr3-65392654-4	chr3	65392551	65392751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026155)	promoter-TSS (NM_026155)	-98.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	267.0	351.5	251.0	3952.0	566.0	249.5	286.0	218.0
Merged-chr16-70329257-4	chr16	70329166	70329366	+	915.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	intron (NM_028803, intron 1 of 15)	15317.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	6.0	10.5	5.0	157.5	40.5	25.5	27.0	22.0
Merged-chr15-31352753-3	chr15	31352655	31352855	+	935.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	MLT2C2|LTR|ERVL	15004.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	6.0	5.0	17.5	250.5	10.5	3.5	3.5	8.0
Merged-chr3-38105687-4	chr3	38105592	38105792	+	901.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102427.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	9.5	26.5	22.5	278.0	41.5	16.0	20.5	14.0
Merged-chr1-37719979-3	chr1	37719924	37720124	+	884.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028096)	promoter-TSS (NM_028096)	-213.0	NM_028096	72097.0	Mm.142607	NM_028096	ENSMUSG00000026090	2010300C02Rik	-	RIKEN cDNA 2010300C02 gene	protein-coding	10.5	7.5	17.5	76.0	9.0	4.0	3.0	6.5
Merged-chr6-34610666-3	chr6	34610631	34610831	+	767.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	MER94|DNA|hAT-Blackjack	12227.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	6.5	4.5	8.0	54.5	5.0	14.0	7.5	7.0
Merged-chr1-86492461-3	chr1	86492368	86492568	+	915.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34089.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	19.0	7.5	0.5	143.5	26.5	4.5	5.0	6.0
Merged-chr11-87404554-4	chr11	87404457	87404657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031386)	promoter-TSS (NM_031386)	-62.0	NM_053269	114714.0	Mm.37376	NM_053269	ENSMUSG00000007646	Rad51c	R51H3|Rad51l2	RAD51 paralog C	protein-coding	110.5	219.0	70.5	1170.0	475.0	170.5	143.0	144.5
Merged-chr8-108387353-4	chr8	108387247	108387447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	197330.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	45.0	55.5	50.0	792.0	104.5	26.5	58.0	35.5
Merged-chr9-123260840-4	chr9	123260692	123260892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002267)	promoter-TSS (NM_001002267)	-3.0	NM_001002267	72309.0	Mm.8569	NM_001002267	ENSMUSG00000054871	Tmem158	2310037P21Rik|Ris1	transmembrane protein 158	protein-coding	28.5	28.0	19.0	314.5	24.0	5.5	4.0	26.0
Merged-chr3-116256321-4	chr3	116256216	116256416	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2832.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	12.0	17.0	9.0	173.0	38.0	5.0	13.5	9.0
Merged-chr10-16589611-4	chr10	16589497	16589697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	506185.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	52.5	67.0	59.0	1000.5	121.5	39.0	47.0	44.5
Merged-chr13-112510573-3	chr13	112510466	112510666	+	865.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46496.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	8.0	11.0	16.5	122.5	15.5	4.0	9.0	9.5
Merged-chr5-140382854-4	chr5	140382746	140382946	+	914.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 1 of 10)	intron (NM_172277, intron 1 of 10)	6462.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	19.0	35.5	12.0	239.5	42.5	13.0	12.5	10.5
Merged-chr6-134102599-4	chr6	134102489	134102689	+	854.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	66889.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	8.5	17.0	6.0	195.5	40.0	8.0	11.0	7.0
Merged-chr6-53713327-2	chr6	53713227	53713427	+	711.166626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	107498.0	NM_025817	66873.0	Mm.422727	NM_025817	ENSMUSG00000043496	Tril	1200009O22Rik|AI316813|mKIAA0644	TLR4 interactor with leucine-rich repeats	protein-coding	8.5	19.0	12.0	147.0	12.0	3.0	5.5	4.0
Merged-chr11-78178045-4	chr11	78177957	78178157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106113)	promoter-TSS (NR_106113)	-92.0	NM_001291235	68385.0	Mm.390375	NM_026708	ENSMUSG00000019437	Tlcd1	-	TLC domain containing 1	protein-coding	52.0	80.0	39.0	601.5	82.0	36.0	50.0	42.0
Merged-chr11-20831070-6	chr11	20830955	20831155	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173752)	promoter-TSS (NM_173752)	53.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	21.5	24.0	12.0	280.5	42.5	24.5	20.0	23.0
Merged-chr14-55497488-4	chr14	55497372	55497572	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155104, intron 17 of 38)	intron (NR_155104, intron 17 of 38)	6402.0	NR_155104	268747.0	Mm.151577	NM_001024645	ENSMUSG00000022211	Carmil3	Lrrc16b|mFLJ00240	capping protein regulator and myosin 1 linker 3	protein-coding	23.5	21.5	5.5	246.0	43.5	17.0	14.5	22.5
Merged-chr16-92692325-4	chr16	92692187	92692387	+	874.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 3 of 6)	intron (NM_001111022, intron 3 of 6)	5042.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	5.0	14.0	6.5	199.0	39.0	10.0	11.0	5.5
Merged-chr8-69399499-4	chr8	69399413	69399613	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3969.0	NR_038043	378466.0	Mm.37846	NM_194351	ENSMUSG00000110444	Gm10033	9330175B10Rik|Gm10311	predicted gene 10033	ncRNA	20.0	18.0	12.0	203.5	40.5	23.0	19.0	21.5
Merged-chr8-75089096-4	chr8	75088967	75089167	+	975.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4551.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	20.5	20.5	17.5	211.0	37.5	6.5	6.5	15.5
Merged-chr19-41333114-4	chr19	41333009	41333209	+	942.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	MTE2a|LTR|ERVL-MaLR	51961.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	9.5	20.5	15.5	369.0	31.5	14.0	26.0	17.0
Merged-chr5-137786304-4	chr5	137786187	137786387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144913, exon 1 of 4)	5' UTR (NM_144913, exon 1 of 4)	414.0	NM_144913	231803.0	Mm.61193	NM_144913	ENSMUSG00000029726	Mepce	Bcdin3|D5Wsu46e	methylphosphate capping enzyme	protein-coding	75.0	135.0	54.5	722.5	248.0	108.0	83.5	74.0
Merged-chr5-144965212-4	chr5	144965130	144965330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038627, intron 1 of 17)	CpG	600.0	NM_001038627	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	47.0	66.5	66.5	625.5	137.5	66.5	74.5	56.5
Merged-chr19-21737732-4	chr19	21737640	21737840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40600.0	NM_001033759	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	57.0	66.5	38.0	514.5	162.5	53.5	70.5	53.5
Merged-chr1-134557081-4	chr1	134556972	134557172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3106.0	NM_152895	75605.0	Mm.28995	NM_152895	ENSMUSG00000042207	Kdm5b	2010009J12Rik|2210016I17Rik|AW556288|D1Ertd202e|Jarid1b|PLU-1|PUT1|Plu1|RBBP2H1A|Rb-Bp2|mKIAA4034	lysine (K)-specific demethylase 5B	protein-coding	108.5	164.5	90.0	1425.0	275.5	112.5	133.5	100.5
Merged-chr11-115657110-4	chr11	115656995	115657195	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	-28800.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	16.0	21.0	9.0	182.5	28.0	16.5	31.5	13.0
Merged-chr1-138297933-4	chr1	138297817	138298017	+	811.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	24179.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	10.5	14.0	11.0	115.0	22.0	7.5	13.5	15.0
Merged-chr14-22847830-4	chr14	22847719	22847919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 6 of 6)	intron (NM_028275, intron 6 of 6)	246752.0	NR_033550	791307.0	Mm.364384	NR_033550	ENSMUSG00000068680	Gm10248	-	predicted gene 10248	ncRNA	42.0	78.0	88.5	1118.5	37.0	19.0	43.5	27.5
Merged-chr14-25475001-4	chr14	25474912	25475112	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	15827.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	22.5	14.5	27.0	231.0	20.0	11.5	16.5	17.0
Merged-chr9-32624000-3	chr9	32623881	32624081	+	921.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72061.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	10.5	12.5	11.0	214.0	9.5	5.0	3.0	4.0
Merged-chr2-101733008-4	chr2	101732903	101733103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 7 of 8)	MTEb|LTR|ERVL-MaLR	54583.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	139.0	203.0	169.5	2423.5	391.5	112.5	192.0	178.0
Merged-chr18-49982016-4	chr18	49981907	49982107	+	772.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	RLTR12E|LTR|ERVK	2580.0	NM_001177759	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	15.5	15.0	12.0	122.0	28.5	4.5	16.0	11.0
Merged-chr1-191091563-2	chr1	191091471	191091671	+	687.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6843.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	7.0	3.5	3.5	81.0	19.0	5.5	4.5	13.5
Merged-chr9-43090787-2	chr9	43090687	43090887	+	605.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359232, intron 1 of 40)	intron (NM_001359232, intron 1 of 40)	14931.0	NM_001359232	69632.0	Mm.275266	NM_027144	ENSMUSG00000059495	Arhgef12	2310014B11Rik|AU019857|Larg|mKIAA0382	Rho guanine nucleotide exchange factor (GEF) 12	protein-coding	5.0	4.0	0.0	13.0	13.5	5.0	4.5	7.0
Merged-chr11-54068268-6	chr11	54068172	54068372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019417, intron 1 of 6)	intron (NM_019417, intron 1 of 6)	745.0	NM_019417	30794.0	Mm.21830	NM_019417	ENSMUSG00000020388	Pdlim4	Ril	PDZ and LIM domain 4	protein-coding	16.5	50.5	30.0	217.0	58.0	22.5	32.5	19.0
Merged-chr10-21608639-4	chr10	21608534	21608734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027968, intron 2 of 2)	intron (NR_027968, intron 2 of 2)	15489.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	67.5	104.0	91.0	873.0	147.0	21.5	26.5	25.0
Merged-chr13-97203817-4	chr13	97203701	97203901	+	833.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5444.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	5.0	9.5	11.0	133.5	13.0	11.0	18.5	15.0
Merged-chr4-133813571-5	chr4	133813448	133813648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-59937.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	56.5	90.5	42.5	874.0	176.0	70.0	82.0	82.5
Merged-chr6-29263770-4	chr6	29263682	29263882	+	979.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8706.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	9.5	20.0	16.0	333.0	85.0	18.5	32.5	21.0
Merged-chr9-21238869-4	chr9	21238880	21239080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_016679, exon 1 of 5)	5' UTR (NM_016679, exon 1 of 5)	352.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	29.0	46.0	65.0	377.5	65.0	28.5	21.0	34.5
Merged-chr19-36926077-4	chr19	36925956	36926156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080706)	promoter-TSS (NM_001080706)	-23.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	79.5	106.5	41.0	1177.0	382.0	104.0	140.5	117.0
Merged-chr8-104248532-4	chr8	104248425	104248625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021028)	promoter-TSS (NM_021028)	33.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	109.0	189.0	111.5	1513.0	282.0	72.5	129.5	89.0
Merged-chr2-84936643-4	chr2	84936546	84936746	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021398)	promoter-TSS (NM_021398)	0.0	NM_021398	58207.0	Mm.290729	NM_021398	ENSMUSG00000027074	Slc43a3	Eeg1|SEEEG-1	solute carrier family 43, member 3	protein-coding	15.0	18.5	29.5	341.5	34.0	18.5	15.5	24.0
Merged-chr13-89378569-3	chr13	89378469	89378669	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-162067.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	5.0	6.0	3.5	112.0	104.0	29.0	34.0	40.5
Merged-chr2-154552676-4	chr2	154552555	154552755	+	845.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001171640, exon 1 of 1)	exon (NM_001171640, exon 1 of 1)	879.0	NM_001171640	70362.0	Mm.479620	NM_001171640	ENSMUSG00000078129	Actl10	1700007I08Rik	actin-like 10	protein-coding	19.5	14.5	9.0	118.0	13.0	11.0	12.5	11.5
Merged-chr10-6715813-4	chr10	6715723	6715923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-42770.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	49.0	38.0	15.5	770.0	91.0	24.5	35.0	36.0
Merged-chr7-45466797-4	chr7	45466691	45466891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007527, exon 1 of 6)	5' UTR (NM_007527, exon 1 of 6)	107.0	NM_007527	12028.0	Mm.19904	NM_007527	ENSMUSG00000003873	Bax	-	BCL2-associated X protein	protein-coding	47.5	72.5	69.5	647.5	135.0	56.5	51.0	76.0
Merged-chr19-5806120-4	chr19	5806024	5806224	+	955.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3452.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	31.5	16.5	24.0	371.5	54.5	12.0	18.5	19.5
Merged-chr7-142284118-2	chr7	142284039	142284239	+	840.166626	f0_balb.idr|f1_balb.idr	Intergenic	ERVB4_1-I_MM-int|LTR|ERVK	-9776.0	NM_001199309	100043627.0	Mm.388589	NM_001199309	ENSMUSG00000056885	Gm4559	-	predicted gene 4559	protein-coding	8.5	11.0	13.0	95.0	17.0	6.5	10.5	5.5
Merged-chr2-119357082-2	chr2	119356968	119357168	+	943.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	5826.0	NM_026929	69065.0	Mm.35083	NM_026929	ENSMUSG00000027313	Chac1	1810008K03Rik	ChaC, cation transport regulator 1	protein-coding	1.5	4.0	0.0	10.0	87.5	34.0	33.0	19.0
Merged-chr1-30873849-4	chr1	30873719	30873919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10563.0	NM_001081080	213109.0	Mm.194486	NM_025871	ENSMUSG00000048874	Phf3	2310061N19Rik	PHD finger protein 3	protein-coding	85.0	130.5	138.0	1386.0	194.5	92.5	93.5	103.0
Merged-chr14-60738733-4	chr14	60738659	60738859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310594, intron 1 of 9)	L1MB2|LINE|L1	5855.0	NM_001310594	219140.0	Mm.149776	NM_001033272	ENSMUSG00000021990	Spata13	C79050|ESTM11|X83327|mFLJ00298	spermatogenesis associated 13	protein-coding	49.5	41.5	32.5	714.0	93.0	25.5	29.5	42.5
Merged-chr13-30545364-4	chr13	30545271	30545471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025710)	promoter-TSS (NM_025710)	-55.0	NM_025710	66694.0	Mm.181933	NM_025710	ENSMUSG00000038462	Uqcrfs1	4430402G14Rik|AI875505	ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1	protein-coding	94.0	182.5	123.0	1876.0	397.0	145.5	164.5	122.5
Merged-chr1-170976077-4	chr1	170975980	170976180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010187)	promoter-TSS (NM_010187)	-9.0	NM_001077189	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	37.0	49.0	19.0	544.5	99.5	40.5	24.5	40.0
Merged-chr2-50674515-4	chr2	50674405	50674605	+	903.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34A|LTR|ERV1	-235179.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	16.0	19.5	12.0	92.5	22.5	12.5	17.5	3.5
Merged-chr13-75342166-3	chr13	75342058	75342258	+	648.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	252301.0	NM_013628	18548.0	Mm.1333	NM_013628	ENSMUSG00000021587	Pcsk1	Nec-1|Nec1|PC1|PC3|Phpp-1|SPC3	proprotein convertase subtilisin/kexin type 1	protein-coding	9.5	4.5	10.5	143.5	13.5	6.5	7.0	10.0
Merged-chr11-54522825-4	chr11	54522730	54522930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175258)	promoter-TSS (NM_175258)	-15.0	NM_001252494	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	146.5	338.5	162.5	1951.5	399.5	226.0	169.5	180.5
Merged-chr13-45144150-3	chr13	45144073	45144273	+	855.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	-142077.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	8.5	17.5	16.5	68.5	14.5	4.0	9.5	5.5
Merged-chr1-131566330-4	chr1	131566224	131566424	+	939.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR46B|LTR|ERVK	-32790.0	NM_011924	26361.0	Mm.89986	NM_011924	ENSMUSG00000026432	Avpr1b	AVPR3|V3/V1b|VIBR|VPR3	arginine vasopressin receptor 1B	protein-coding	36.5	74.0	16.5	195.0	52.5	20.0	13.0	18.0
Merged-chr10-59899747-4	chr10	59899648	59899848	+	843.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20157.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	12.0	9.0	3.0	119.0	25.0	6.0	12.0	4.5
Merged-chr15-27937629-7	chr15	27937549	27937749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	88199.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	35.5	82.0	65.5	562.0	95.0	40.5	43.5	51.5
Merged-chr12-85379432-4	chr12	85379335	85379535	+	958.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTG)n|Simple_repeat|Simple_repeat	-4718.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	43.0	20.0	22.5	524.5	43.0	13.5	29.5	14.5
Merged-chr5-139382929-4	chr5	139382793	139382993	+	974.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	2254.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	19.0	20.5	53.5	593.5	32.0	7.0	28.0	23.0
Merged-chr18-44812204-4	chr18	44812121	44812321	+	893.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085373)	promoter-TSS (NM_001085373)	-39.0	NM_001085373	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	18.5	19.0	23.0	275.5	57.5	8.5	19.0	13.0
Merged-chr16-65458445-4	chr16	65458389	65458589	+	975.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-62140.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	57.0	112.0	58.5	485.5	116.5	58.5	38.0	12.0
Merged-chr8-45332793-2	chr8	45332693	45332893	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_133969, exon 1 of 11)	exon (NM_133969, exon 1 of 11)	403.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	18.5	15.0	20.0	188.5	33.5	12.0	10.0	16.0
Merged-chr9-57504488-3	chr9	57504382	57504582	+	881.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133982, exon 1 of 1)	exon (NM_133982, exon 1 of 1)	380.0	NM_133982	102614.0	Mm.274421	NM_133982	ENSMUSG00000062309	Rpp25	AI851155	ribonuclease P/MRP 25 subunit	protein-coding	10.0	16.5	5.0	111.5	16.0	9.5	6.5	12.5
Merged-chr1-174052354-4	chr1	174052239	174052439	+	929.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1964.0	NM_146716	258711.0	Mm.377648	NM_146716	ENSMUSG00000047048	Olfr432	MOR123-2	olfactory receptor 432	protein-coding	13.5	34.5	17.5	142.5	42.5	16.0	48.0	22.0
Merged-chr11-52098668-4	chr11	52098572	52098772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019411)	promoter-TSS (NM_019411)	-152.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	232.0	372.0	255.5	2755.0	679.5	243.5	309.5	266.5
Merged-chr15-97705757-4	chr15	97705630	97705830	+	889.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028003)	promoter-TSS (NM_028003)	92.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	8.5	32.0	19.5	211.0	34.5	13.0	11.0	27.5
Merged-chr11-73093099-4	chr11	73092989	73093189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361245, intron 1 of 30)	intron (NM_001361245, intron 1 of 30)	2494.0	NM_172944	16407.0	Mm.96	NM_008399	ENSMUSG00000005947	Itgae	A530055J10|CD103|aM290|alpha-E1|alpha-M290	integrin alpha E, epithelial-associated	protein-coding	140.0	171.5	108.0	1796.0	186.0	99.0	116.0	61.5
Merged-chr17-37471874-2	chr17	37471774	37471974	+	997.4166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB7_4-LTR_MM|LTR|ERVK	5666.0	NM_146835	258832.0	Mm.377712	NM_146835	ENSMUSG00000029184	Olfr109	MOR250-1	olfactory receptor 109	protein-coding	2.5	2.0	14.0	14.5	15.0	5.0	8.0	13.0
Merged-chr4-134087587-3	chr4	134087487	134087687	+	992.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162970, exon 15 of 20)	exon (NM_001162970, exon 15 of 20)	7486.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	6.5	8.0	2.5	59.5	34.0	7.5	16.0	18.0
Merged-chr1-178360910-1	chr1	178360810	178361010	+	621.0	f0_balb.idr	Intergenic	RLTR13D3|LTR|ERVK	-23095.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	6.0	19.0	11.5	71.5	22.5	4.0	3.5	2.0
Merged-chr4-142081924-4	chr4	142081806	142082006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-2392.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	94.0	143.5	84.0	1227.0	268.5	101.0	115.0	102.5
Merged-chr12-35800743-3	chr12	35800659	35800859	+	649.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-105641.0	NR_045050	71581.0	Mm.100110	NR_045050	ENSMUSG00000113985	9130015A21Rik	100043575|Gm4527	RIKEN cDNA 9130015A21 gene	ncRNA	5.0	8.5	16.0	106.5	12.5	5.0	7.0	7.5
Merged-chr11-117963554-4	chr11	117963472	117963672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	5794.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	266.0	405.0	169.0	2288.0	561.5	216.5	259.5	233.0
Merged-chr12-81719901-4	chr12	81719780	81719980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001174107, exon 11 of 11)	3' UTR (NM_001174107, exon 11 of 11)	61290.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	73.5	100.5	72.5	1302.0	195.0	63.0	76.0	57.5
Merged-chr2-84678231-4	chr2	84678167	84678367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290751)	promoter-TSS (NM_001290751)	-93.0	NM_001290751	66958.0	Mm.371621	NM_025868	ENSMUSG00000050043	Tmx2	2310042M24Rik|AA589631|Txndc14	thioredoxin-related transmembrane protein 2	protein-coding	360.0	530.5	472.0	6407.0	930.5	407.5	395.0	354.0
Merged-chr9-42896699-3	chr9	42896620	42896820	+	751.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175481, intron 1 of 20)	intron (NM_175481, intron 1 of 20)	47651.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	9.5	5.0	5.5	116.5	10.0	3.5	9.0	9.5
Merged-chr17-6793665-4	chr17	6793626	6793826	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10946.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	7.0	9.0	4.5	125.5	16.0	3.0	10.0	4.5
Merged-chr11-57524821-3	chr11	57524708	57524908	+	918.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145426, intron 1 of 2)	intron (NM_145426, intron 1 of 2)	6143.0	NM_145426	216760.0	Mm.30501	NM_145426	ENSMUSG00000020522	Mfap3	2610509F16Rik|2700079M14Rik|AW536327	microfibrillar-associated protein 3	protein-coding	9.0	13.0	5.5	236.0	5.5	3.0	11.0	6.0
Merged-chr16-77329318-4	chr16	77329213	77329413	+	848.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015543)	promoter-TSS (NR_015543)	-15.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	8.5	12.5	16.5	143.5	21.5	11.0	5.5	15.0
Merged-chr11-4974773-3	chr11	4974677	4974877	+	937.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 1 of 22)	intron (NM_001243043, intron 1 of 22)	-12047.0	NM_001355659	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	23.5	21.5	18.0	165.5	16.0	7.5	6.5	9.5
Merged-chr7-73606965-4	chr7	73606860	73607060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48565.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	40.0	53.5	31.0	430.0	53.0	40.0	41.5	29.5
Merged-chr11-84819556-4	chr11	84819465	84819665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145433)	promoter-TSS (NM_145433)	-50.0	NM_145433	217038.0	Mm.280825	NM_145433	ENSMUSG00000018405	Mrm1	A530065E19Rik	mitochondrial rRNA methyltransferase 1	protein-coding	216.0	299.5	189.0	2473.0	430.5	193.5	218.0	212.0
Merged-chr3-97228843-4	chr3	97228738	97228938	+	809.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1474.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	1.5	7.5	2.0	128.0	22.0	5.0	19.5	15.0
Merged-chr1-88424805-3	chr1	88424702	88424902	+	738.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029269, intron 7 of 7)	intron (NM_029269, intron 7 of 7)	17792.0	NM_029269	75396.0	Mm.173058	NM_029269	ENSMUSG00000026295	Spp2	0610038O04Rik|pp-24|spp24	secreted phosphoprotein 2	protein-coding	15.5	10.5	4.0	124.5	15.5	6.0	14.0	6.0
Merged-chr9-45049896-4	chr9	45049801	45050001	+	960.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357727, intron 5 of 5)	intron (NM_001357727, intron 5 of 5)	-5280.0	NM_001093749	319742.0	Mm.49611	NM_176993	ENSMUSG00000070305	Mpzl3	5430427F17Rik|A530065I17Rik|rc|ruf	myelin protein zero-like 3	protein-coding	48.5	63.5	47.5	776.5	57.0	10.0	24.5	42.0
Merged-chr3-135607316-4	chr3	135607201	135607401	+	830.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 13 of 24)	intron (NM_008689, intron 13 of 24)	84246.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	5.0	18.0	19.5	102.5	27.0	9.5	12.5	12.0
Merged-chr8-43443077-4	chr8	43442976	43443176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85061.0	NM_001009547	382007.0	Mm.55952	NM_001009547	ENSMUSG00000063900	Adam26b	-	a disintegrin and metallopeptidase domain 26B	protein-coding	50.5	45.0	55.0	842.0	121.5	32.5	62.0	53.0
Merged-chr14-54754764-4	chr14	54754679	54754879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	27107.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	65.5	112.5	75.5	868.0	205.5	63.5	98.0	103.0
Merged-chr6-100366016-4	chr6	100365917	100366117	+	913.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78659.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	15.0	25.0	16.5	355.0	29.5	10.5	21.0	26.0
Merged-chr4-43044885-4	chr4	43044794	43044994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	1326.0	NR_045567	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	66.0	87.5	55.0	1336.5	157.0	37.0	97.0	73.0
Merged-chr5-140830032-2	chr5	140829932	140830132	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_010302, exon 1 of 4)	exon (NM_010302, exon 1 of 4)	399.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	11.5	9.5	9.0	78.5	41.5	3.0	7.5	12.0
Merged-chr11-106153696-4	chr11	106153612	106153812	+	988.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 15 of 15)	intron (NM_011947, intron 15 of 15)	6215.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	27.5	42.5	34.0	601.0	84.0	15.5	35.5	33.0
Merged-chr12-55447274-4	chr12	55447138	55447338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45409.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	53.5	85.0	109.5	1575.0	81.5	51.0	54.5	33.5
Merged-chr2-11568125-4	chr2	11568033	11568233	+	876.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-14204.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	11.5	8.5	16.5	153.5	32.0	11.0	8.0	15.5
Merged-chr14-59201982-4	chr14	59201878	59202078	+	797.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027764, intron 1 of 11)	intron (NM_027764, intron 1 of 11)	750.0	NM_001360610	71330.0	Mm.234195	NM_027764	ENSMUSG00000035469	Rcbtb1	5430409I18Rik|AW111883|CLLD7|CLLL7	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1	protein-coding	15.0	16.0	8.5	240.0	24.5	13.0	5.5	10.5
Merged-chr18-64517462-3	chr18	64517433	64517633	+	865.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027350)	promoter-TSS (NM_027350)	-976.0	NM_001142950	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	5.0	1.0	0.0	36.0	4.5	4.5	4.5	8.0
Merged-chr7-115018604-4	chr7	115018492	115018692	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67318.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	10.0	7.5	7.5	204.5	67.5	22.0	35.5	30.5
Merged-chr11-106122899-4	chr11	106122777	106122977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 5 of 15)	intron (NM_011947, intron 5 of 15)	37050.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	54.0	88.5	46.0	799.0	102.0	37.5	49.0	38.5
Merged-chr5-18036431-4	chr5	18036331	18036531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73861.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	79.5	71.5	87.0	1409.5	93.0	31.0	71.0	38.0
Merged-chr15-81301359-4	chr15	81301256	81301456	+	791.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49494.0	NR_077230	78102.0	Mm.296832	NR_077229	ENSMUSG00000115970	8430426J06Rik	-	RIKEN cDNA 8430426J06 gene	ncRNA	13.0	12.0	3.0	76.5	34.0	5.0	10.0	6.0
Merged-chr4-53051082-2	chr4	53050982	53051182	+	719.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 34 of 49)	intron (NM_013454, intron 34 of 49)	39202.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	3.5	0.0	1.5	38.5	4.5	4.5	6.0	7.0
Merged-chr9-35546931-4	chr9	35546816	35547016	+	968.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013932, exon 9 of 12)	exon (NM_013932, exon 9 of 12)	11554.0	NM_013932	30959.0	Mm.291723	NM_013932	ENSMUSG00000032101	Ddx25	AW047046|GRTH	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	protein-coding	16.5	22.5	21.0	532.5	31.0	16.0	26.0	26.5
Merged-chr8-40703143-3	chr8	40703040	40703240	+	802.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	28063.0	NM_010086	13526.0	Mm.67403	NM_010086	ENSMUSG00000046723	Adam24	Dtgn5	a disintegrin and metallopeptidase domain 24 (testase 1)	protein-coding	1.5	1.0	0.0	50.5	39.5	13.5	18.0	17.0
Merged-chr11-83570401-4	chr11	83570293	83570493	+	818.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8243.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	18.5	17.5	8.0	143.0	17.0	11.0	10.5	17.0
Merged-chr2-59244547-4	chr2	59244448	59244648	+	828.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	intron (NM_175464, intron 2 of 20)	83698.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	9.0	14.5	11.0	221.0	21.0	3.0	10.0	9.0
Merged-chr17-87954831-1	chr17	87954731	87954931	+	699.0	f0_balb.idr	Intergenic	ERVB4_2-LTR_MM|LTR|ERVK	-20219.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	16.5	19.0	7.5	97.0	12.5	0.0	7.5	16.0
Merged-chr6-72362521-4	chr6	72362428	72362628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331173)	promoter-TSS (NM_001331173)	-96.0	NM_001331173	66510.0	Mm.170023	NM_025607	ENSMUSG00000055850	Rnf181	1700047F16Rik|2500002L14Rik|6230415N01Rik|C77350	ring finger protein 181	protein-coding	221.5	393.5	199.5	3107.5	476.5	188.5	218.0	192.0
Merged-chr4-137864960-4	chr4	137864861	137865061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	2724.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	195.5	115.0	213.5	3556.5	175.5	55.0	120.0	80.5
Merged-chr5-114707775-4	chr5	114707662	114707862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029992)	promoter-TSS (NM_029992)	-17.0	NM_029992	77832.0	Mm.239698	NM_029992	ENSMUSG00000002486	Tchp	A930031F18Rik|AV279199	trichoplein, keratin filament binding	protein-coding	33.0	55.0	29.0	420.5	109.0	34.0	32.0	41.0
Merged-chr7-19921095-4	chr7	19920992	19921192	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027514)	promoter-TSS (NM_027514)	51.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	16.5	31.5	17.0	394.0	54.5	10.0	46.0	31.5
Merged-chr10-22335629-4	chr10	22335539	22335739	+	832.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-26255.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	11.0	21.5	11.5	289.0	21.0	3.0	5.0	10.5
Merged-chr11-69410457-4	chr11	69410359	69410559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 1 of 22)	CpG	3216.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	100.0	146.5	131.5	1158.0	278.0	118.0	122.5	110.0
Merged-chr11-77467282-4	chr11	77467185	77467385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139128, exon 5 of 10)	exon (NM_139128, exon 5 of 10)	3372.0	NM_139130	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	37.0	71.0	31.0	571.0	76.5	25.0	32.0	26.0
Merged-chr4-116656217-4	chr4	116656115	116656315	+	821.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-4541.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	9.5	18.0	2.0	101.0	18.5	5.5	6.5	10.0
Merged-chr10-63243747-4	chr10	63243645	63243845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026101)	promoter-TSS (NM_026101)	-52.0	NM_030114	67345.0	Mm.234437	NM_026101	ENSMUSG00000020064	Herc4	1700056O17Rik|4921531D01Rik|9530080M15Rik|mKIAA1593	hect domain and RLD 4	protein-coding	237.0	344.5	346.0	3501.0	577.5	219.5	293.0	261.5
Merged-chr7-142393285-4	chr7	142393178	142393378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5408.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	98.5	137.0	159.5	2001.5	277.0	102.0	126.0	125.5
Merged-chr4-15234778-4	chr4	15234666	15234866	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	-31054.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	25.0	22.0	23.0	303.0	26.5	14.0	19.5	22.5
Merged-chr3-79567390-4	chr3	79567308	79567508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152118)	promoter-TSS (NR_152118)	271.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	20.0	34.0	25.0	289.0	62.0	23.5	12.5	22.0
Merged-chr19-4906641-4	chr19	4906520	4906720	+	896.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033128)	promoter-TSS (NM_001033128)	7.0	NM_001033128	52028.0	Mm.23636	NM_001033128	ENSMUSG00000006464	Bbs1	AI451249|D19Ertd609e	Bardet-Biedl syndrome 1 (human)	protein-coding	7.5	13.0	4.5	123.5	51.0	11.5	7.5	10.5
Merged-chr9-108692065-4	chr9	108691954	108692154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008924)	promoter-TSS (NM_008924)	-89.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	31.5	75.5	37.5	551.5	104.0	31.5	61.0	24.5
Merged-chr8-83997820-4	chr8	83997665	83997865	+	872.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081415)	promoter-TSS (NM_001081415)	93.0	NM_001081415	666704.0	Mm.298091	NM_001081415	ENSMUSG00000079003	Samd1	AA589507	sterile alpha motif domain containing 1	protein-coding	3.5	9.5	16.5	138.5	21.5	6.0	14.5	10.0
Merged-chr8-46899286-3	chr8	46899183	46899383	+	885.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-87604.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	8.0	7.5	5.5	170.0	21.5	3.5	7.0	6.0
Merged-chr10-67009993-4	chr10	67009894	67010094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001204915, exon 9 of 9)	3' UTR (NM_001204915, exon 9 of 9)	4919.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	21.0	46.5	23.0	437.5	48.0	31.0	26.0	20.0
Merged-chr5-129779219-4	chr5	129779088	129779288	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133900, exon 3 of 8)	5' UTR (NM_133900, exon 3 of 8)	8065.0	NM_133900	100678.0	Mm.271784	NM_133900	ENSMUSG00000029446	Psph	AI480570|PSP|PSPase	phosphoserine phosphatase	protein-coding	18.0	23.5	25.5	382.0	44.0	16.5	16.5	23.0
Merged-chr8-119782905-4	chr8	119782798	119782998	+	865.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4482.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	8.0	15.5	13.0	143.5	40.5	15.0	13.5	16.5
Merged-chr15-102316405-4	chr15	102316310	102316510	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356312, intron 18 of 30)	intron (NM_001356312, intron 18 of 30)	-9706.0	NM_027044	56612.0	Mm.158264	NM_020031	ENSMUSG00000001289	Pfdn5	1190001O17Rik|1700010A06Rik|D15Ertd697e|Eig1|MM-1	prefoldin 5	protein-coding	19.0	25.0	19.5	234.5	46.0	15.0	9.5	35.0
Merged-chr1-171887303-4	chr1	171887186	171887386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 8 of 8)	intron (NM_001289470, intron 8 of 8)	-30176.0	NM_030710	30925.0	Mm.486404	NM_030710	ENSMUSG00000015314	Slamf6	KAL1|KAL1b|Ly108|NTB-A|NTBA|SF2000	SLAM family member 6	protein-coding	32.0	34.0	45.5	451.5	118.0	29.5	47.0	63.0
Merged-chr1-85794524-6	chr1	85794422	85794622	+	682.777771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355047, intron 1 of 9)	intron (NM_001355047, intron 1 of 9)	505.0	NM_001355047	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	5.0	9.0	12.0	75.0	20.5	3.5	2.5	8.0
Merged-chr9-104239287-4	chr9	104239188	104239388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 2 of 56)	intron (NM_001359740, intron 2 of 56)	23642.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	29.0	43.5	15.5	487.0	71.0	20.0	28.0	26.0
Merged-chr14-121416886-4	chr14	121416802	121417002	+	984.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37672.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	12.5	27.0	31.5	188.5	46.0	16.5	20.0	30.5
Merged-chr5-35757144-3	chr5	35757056	35757256	+	945.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177696)	promoter-TSS (NM_001177696)	-724.0	NM_001177697	231148.0	Mm.254446	NM_177678	ENSMUSG00000029095	Ablim2	AI606905|C230091L11	actin-binding LIM protein 2	protein-coding	11.0	17.5	19.5	118.5	10.0	1.5	8.5	6.5
Merged-chr10-76350032-3	chr10	76349927	76350127	+	656.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-4736.0	NM_001081419	64451.0	Mm.33183	NM_001081419	ENSMUSG00000020231	Dip2a	4931420H10Rik|AI426328|Dip2|Kiaa0184-hp|mKIAA0184	disco interacting protein 2 homolog A	protein-coding	6.5	2.5	3.0	109.0	6.5	4.5	9.5	6.0
Merged-chr17-43058816-4	chr17	43058702	43058902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	MTD|LTR|ERVL-MaLR	42247.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	64.5	79.5	35.5	968.0	119.0	40.5	62.0	57.5
Merged-chr12-113154182-4	chr12	113154095	113154295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007763)	TTS (NM_007763)	2183.0	NM_007763	12925.0	Mm.272368	NM_007763	ENSMUSG00000006360	Crip1	CRHP|CRP1|Crip	cysteine-rich protein 1 (intestinal)	protein-coding	39.5	59.5	45.5	736.5	73.0	28.0	42.0	58.0
Merged-chr19-53142622-4	chr19	53142527	53142727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277100)	promoter-TSS (NM_001277100)	-129.0	NM_001277100	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	461.5	683.0	397.0	7148.0	1027.5	426.0	545.0	335.5
Merged-chr11-117390342-4	chr11	117390223	117390423	+	658.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-24066.0	NR_132097	105827746.0	Mm.388009	NR_132097	ENSMUSG00000086588	Gm11729	-	predicted gene 11729	ncRNA	7.0	9.0	5.0	57.5	22.5	5.5	7.0	6.5
Merged-chr8-104631419-4	chr8	104631269	104631469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019662)	promoter-TSS (NM_019662)	-48.0	NM_019662	56437.0	Mm.29467	NM_019662	ENSMUSG00000031880	Rrad	REM3|Rad	Ras-related associated with diabetes	protein-coding	46.5	59.0	38.5	496.0	146.5	39.5	40.5	35.5
Merged-chr16-33782134-4	chr16	33782037	33782237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11900.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	50.0	69.0	39.0	932.0	91.5	34.5	49.0	53.0
Merged-chr3-152912379-4	chr3	152912342	152912542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	69765.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	53.5	25.0	52.0	898.0	133.0	27.5	45.5	47.0
Merged-chr7-100123699-4	chr7	100123611	100123811	+	943.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2211.0	NM_133692	67967.0	Mm.37562	NM_133692	ENSMUSG00000030726	Pold3	2410142G14Rik|C85233|P66|P68	polymerase (DNA-directed), delta 3, accessory subunit	protein-coding	7.0	22.5	6.5	186.5	35.0	17.5	11.5	12.0
Merged-chr10-78356154-4	chr10	78356069	78356269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4469.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	48.5	73.0	50.5	606.0	129.5	37.0	51.0	38.0
Merged-chr15-34027331-4	chr15	34027127	34027327	+	875.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-55492.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	20.0	8.5	17.0	127.0	8.0	5.5	2.5	8.0
Merged-chr7-80172793-3	chr7	80172690	80172890	+	851.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-14051.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	5.0	19.0	5.0	94.5	24.0	5.5	4.0	9.0
Merged-chr10-58405540-3	chr10	58405432	58405632	+	889.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359116, intron 2 of 9)	intron (NM_001359116, intron 2 of 9)	11159.0	NM_001346676	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	12.0	14.5	6.5	131.5	17.5	2.0	8.5	9.5
Merged-chr4-116709019-1	chr4	116708919	116709119	+	589.0	f0_balb.idr	promoter-TSS (NM_025962)	promoter-TSS (NM_025962)	424.0	NR_151451	68394.0	Mm.425201	NM_026714	ENSMUSG00000028689	Ccdc163	0610037D15Rik|4933430J04Rik	coiled-coil domain containing 163	protein-coding	7.5	12.0	7.0	91.5	6.0	7.0	5.0	6.0
Merged-chr6-113740737-4	chr6	113740671	113740871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024206)	promoter-TSS (NM_024206)	-90.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	39.5	39.5	12.5	334.0	94.0	27.5	27.5	25.5
Merged-chr3-79809359-4	chr3	79809231	79809431	+	878.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33331.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	20.5	22.0	13.5	156.5	59.0	23.0	16.0	14.0
Merged-chr4-35224239-4	chr4	35224133	35224333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	MER44B|DNA|TcMar-Tigger	1647.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	58.0	131.5	56.0	543.5	272.5	94.0	58.5	45.5
Merged-chr5-64809522-4	chr5	64809443	64809643	+	944.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	6020.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	16.5	30.5	14.5	426.5	46.5	15.0	19.5	12.0
Merged-chr16-14365707-4	chr16	14365615	14365815	+	930.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 1 of 30)	intron (NM_008576, intron 1 of 30)	4157.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	13.0	27.5	5.0	163.0	29.0	7.0	17.0	7.0
Merged-chr2-5033869-5	chr2	5033849	5034049	+	869.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 9 of 13)	intron (NM_001356487, intron 9 of 13)	-21158.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	4.0	4.0	17.5	81.0	14.5	6.5	5.5	13.0
Merged-chr12-102380326-4	chr12	102380233	102380433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 7 of 9)	intron (NM_177620, intron 7 of 9)	59480.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	38.0	56.5	39.0	602.0	88.0	26.5	40.5	35.0
Merged-chr2-45205901-1	chr2	45205801	45206001	+	644.0	f0_balb.idr	Intergenic	Intergenic	-88459.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	8.0	5.0	4.5	109.5	0.5	1.0	0.0	0.0
Merged-chr3-146592828-4	chr3	146592703	146592903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019957, intron 3 of 6)	intron (NM_019957, intron 3 of 6)	-4346.0	NM_009474	22262.0	Mm.10865	NM_009474	ENSMUSG00000028186	Uox	AI663847	urate oxidase	protein-coding	87.0	119.0	47.5	991.0	117.0	60.5	55.0	39.0
Merged-chr11-102040309-4	chr11	102040207	102040407	+	960.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1204.0	NM_001160711	52685.0	Mm.266885	NM_027987	ENSMUSG00000017309	Cd300lg	2310016B05Rik|Clm9|D11Ertd736e	CD300 molecule like family member G	protein-coding	29.5	53.5	19.5	439.0	58.5	20.5	37.5	18.0
Merged-chr17-73067640-4	chr17	73067543	73067743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40342.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	48.0	37.0	55.0	935.5	74.5	32.5	59.0	33.5
Merged-chr8-119436588-2	chr8	119436488	119436688	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027950)	promoter-TSS (NM_027950)	-574.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	6.0	8.5	6.5	128.0	20.0	5.5	10.0	13.0
Merged-chr6-83034061-4	chr6	83033951	83034151	+	961.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291799)	promoter-TSS (NM_001291799)	-173.0	NM_013586	16950.0	Mm.380433	NM_013586	ENSMUSG00000000693	Loxl3	Lor2|Loxl2	lysyl oxidase-like 3	protein-coding	9.5	17.0	12.5	192.5	27.0	9.0	17.0	20.5
Merged-chr17-91390430-3	chr17	91390328	91390528	+	669.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-297626.0	NM_020252	18189.0	Mm.478418	NM_020252	ENSMUSG00000024109	Nrxn1	1700062G21Rik|9330127H16Rik|A230068P09Rik|mKIAA0578	neurexin I	protein-coding	13.0	13.5	8.0	59.0	5.5	3.0	1.5	3.5
Merged-chr4-142098006-4	chr4	142097898	142098098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13694.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	57.5	93.0	90.5	764.0	127.5	62.0	44.5	35.0
Merged-chr15-80264362-4	chr15	80264266	80264466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175109)	promoter-TSS (NM_175109)	-60.0	NM_175109	66538.0	Mm.39485	NM_175109	ENSMUSG00000051518	Rps19bp1	2510038A11Rik|AI604923|S19BP	ribosomal protein S19 binding protein 1	protein-coding	68.0	82.5	49.0	1060.5	147.5	58.0	77.0	62.5
Merged-chr9-64960849-4	chr9	64960750	64960950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175153)	promoter-TSS (NM_175153)	18.0	NM_001077631	69882.0	Mm.272616	NM_175153	ENSMUSG00000034263	Ints14	2010321M09Rik|Vwa9	integrator complex subunit 14	protein-coding	47.5	88.0	38.5	617.5	185.0	71.5	84.5	67.0
Merged-chr4-132008385-4	chr4	132008277	132008477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	40701.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	82.5	64.5	71.5	982.0	189.5	50.5	90.0	76.5
Merged-chr19-12782997-4	chr19	12782910	12783110	+	896.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053009, intron 2 of 10)	Lx6|LINE|L1	13113.0	NR_024093	664779.0	Mm.290924	NM_001039718	ENSMUSG00000024695	Gm44505	Zfp91-Cntf|Zfp91Cntf	predicted readthrough transcript (NMD candidate), 44505	ncRNA	18.0	14.5	10.5	165.5	12.0	6.5	17.5	15.5
Merged-chr7-19343639-4	chr7	19343535	19343735	+	893.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1436.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	15.5	19.0	8.5	282.0	34.5	17.5	7.0	13.5
Merged-chr2-168229527-8	chr2	168229445	168229645	+	949.212524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132310, intron 1 of 11)	intron (NR_132310, intron 1 of 11)	834.0	NM_010072	13480.0	Mm.422657	NM_010072	ENSMUSG00000078919	Dpm1	AI118379|AI194292	dolichol-phosphate (beta-D) mannosyltransferase 1	protein-coding	6.5	4.0	7.5	89.5	14.5	6.5	10.0	5.5
Merged-chr19-6292776-2	chr19	6292676	6292876	+	677.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 2 of 4)	intron (NM_010119, intron 2 of 4)	-13681.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	6.5	9.0	1.5	58.0	23.0	9.0	4.5	4.5
Merged-chr11-78348115-4	chr11	78348005	78348205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011676, exon 4 of 5)	exon (NM_011676, exon 4 of 5)	1395.0	NM_001313987	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	37.0	67.5	23.5	546.0	94.5	21.0	29.0	32.5
Merged-chr5-124351335-3	chr5	124351239	124351439	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013812, intron 1 of 3)	intron (NM_013812, intron 1 of 3)	3289.0	NM_013812	13445.0	Mm.391838	NM_013812	ENSMUSG00000029394	Cdk2ap1	Apc10|Cdkap1|DORC1|Doc1|ST19|doc-1|p12	CDK2 (cyclin-dependent kinase 2)-associated protein 1	protein-coding	12.5	12.5	5.0	98.5	10.5	7.5	4.5	5.5
Merged-chr10-120980345-4	chr10	120980275	120980475	+	925.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1045.0	NM_001081193	380664.0	Mm.339371	NM_001081193	ENSMUSG00000048661	Lemd3	AI316861|Man1	LEM domain containing 3	protein-coding	19.0	36.0	15.0	118.5	28.5	18.5	14.5	8.0
Merged-chr4-56802406-4	chr4	56802269	56802469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026079)	promoter-TSS (NM_026079)	-38.0	NM_026079	230233.0	Mm.282743	NM_026079	ENSMUSG00000028431	Ikbkap	3110040G09Rik|6030413P05|C78473|Elp1|IKAP	inhibitor of kappa light polypeptide enhancer in B cells, kinase complex-associated protein	protein-coding	61.5	102.5	85.5	881.5	149.0	73.5	60.0	86.5
Merged-chr18-31939323-1	chr18	31939223	31939423	+	755.5	f0_balb.idr	intron (NM_144862, intron 1 of 9)	CpG	7816.0	NM_144862	225341.0	Mm.24551	NM_144862	ENSMUSG00000024395	Lims2	PINCH2	LIM and senescent cell antigen like domains 2	protein-coding	6.0	12.0	13.0	156.5	5.0	4.5	1.5	8.5
Merged-chr19-5131409-3	chr19	5131301	5131501	+	716.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-12993.0	NM_008451	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	4.5	18.5	5.5	118.0	6.0	3.5	14.5	6.0
Merged-chr4-88726804-4	chr4	88726710	88726910	+	849.9916380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-4302.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	9.5	13.0	17.0	300.0	29.0	8.0	11.5	9.0
Merged-chr1-81059043-4	chr1	81058940	81059140	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17910.0	NM_001356399	241134.0	Mm.313904	NM_172849	ENSMUSG00000054976	Nyap2	9430031J16Rik|Jr6|Kiaa1486	neuronal tyrosine-phophorylated phosphoinositide 3-kinase adaptor 2	protein-coding	14.0	29.5	24.5	582.0	37.0	18.5	21.0	25.0
Merged-chr11-98588292-4	chr11	98588197	98588397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1052.0	NM_025661	66612.0	Mm.180546	NM_025661	ENSMUSG00000038150	Ormdl3	2810011N17Rik|AI315223	ORM1-like 3 (S. cerevisiae)	protein-coding	51.0	64.5	35.0	402.0	84.5	36.5	30.5	33.5
Merged-chr6-28423534-4	chr6	28423433	28423633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007480)	promoter-TSS (NM_007480)	-71.0	NM_007480	11844.0	Mm.389075	NM_007480	ENSMUSG00000020440	Arf5	-	ADP-ribosylation factor 5	protein-coding	78.5	147.0	71.0	1110.0	248.0	84.5	147.5	79.0
Merged-chr17-23676045-4	chr17	23675942	23676142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_181821)	TTS (NM_181821)	1407.0	NM_001161746	27279.0	Mm.28518	NM_013749	ENSMUSG00000023905	Tnfrsf12a	AI255180|C87282|Fn14|HPIP|TWEAK-R|TweakR	tumor necrosis factor receptor superfamily, member 12a	protein-coding	26.0	31.0	36.0	274.0	39.0	17.0	22.5	13.0
Merged-chr8-14890480-3	chr8	14890384	14890584	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	1948.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	43.0	79.5	70.5	1143.0	167.5	42.0	79.5	71.5
Merged-chr19-6924699-4	chr19	6924609	6924809	+	789.924988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008431)	TTS (NM_008431)	671.0	NM_001039494	67077.0	Mm.251306	NM_001039494	ENSMUSG00000050623	Catsperz	1700019N12Rik|A430107B04Rik|MLZ-622|Tex40	cation channel sperm associated auxiliary subunit zeta	protein-coding	19.0	21.0	27.5	205.0	26.5	4.5	10.5	18.5
Merged-chr5-86079462-1	chr5	86079362	86079562	+	544.0	f0_balb.idr	intron (NM_001310639, intron 2 of 7)	intron (NM_001310639, intron 2 of 7)	7716.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	7.5	6.5	6.0	93.0	9.5	8.5	10.0	5.5
Merged-chr3-122104638-3	chr3	122104544	122104744	+	902.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007378, intron 13 of 49)	intron (NM_007378, intron 13 of 49)	60184.0	NM_007378	11304.0	Mm.3918	NM_007378	ENSMUSG00000028125	Abca4	AW050280|Abc10|Abcr|D430003I15Rik|RmP	ATP-binding cassette, sub-family A (ABC1), member 4	protein-coding	8.0	14.5	5.5	163.5	27.5	16.0	4.0	8.0
Merged-chr17-84318685-3	chr17	84318566	84318766	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 28 of 37)	intron (NM_183021, intron 28 of 37)	-130719.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	1.5	8.5	5.5	128.5	19.5	4.5	8.5	8.0
Merged-chr12-32379537-4	chr12	32379450	32379650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162903, exon 1 of 1)	exon (NM_001162903, exon 1 of 1)	761.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	65.0	114.0	90.5	685.0	178.5	47.0	76.5	66.0
Merged-chr10-121461621-4	chr10	121461475	121461675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	14675.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	82.5	100.5	131.5	1438.0	114.5	38.0	48.0	55.0
Merged-chr2-36278920-4	chr2	36278817	36279017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44C|DNA|TcMar-Tigger	48491.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	59.5	117.0	58.0	1010.0	211.0	69.0	90.5	62.5
Merged-chr8-60983323-4	chr8	60983206	60983406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007711)	promoter-TSS (NM_007711)	5.0	NM_173873	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	236.0	295.0	228.0	4060.5	569.5	190.5	281.5	181.5
Merged-chr13-112673386-3	chr13	112673282	112673482	+	840.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 2 of 14)	intron (NM_178746, intron 2 of 14)	12616.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	4.0	2.5	2.0	52.0	59.0	6.0	15.5	27.0
Merged-chr16-32458185-2	chr16	32458085	32458285	+	703.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001163160, intron 3 of 8)	intron (NM_001163160, intron 3 of 8)	26955.0	NM_001163160	13026.0	Mm.98775	NM_009981	ENSMUSG00000005615	Pcyt1a	CTalpha|Cctalpha|Ctpct|Cttalpha	phosphate cytidylyltransferase 1, choline, alpha isoform	protein-coding	6.0	11.5	6.5	61.5	6.5	2.0	5.0	8.0
Merged-chr10-68275059-4	chr10	68274927	68275127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	3699.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	41.0	101.0	56.5	804.0	89.5	37.0	39.5	37.0
Merged-chr17-47611546-4	chr17	47611437	47611637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020048)	promoter-TSS (NM_020048)	-45.0	NM_016859	53414.0	Mm.472101	NM_016859	ENSMUSG00000023988	Bysl	Bys|Enp1	bystin-like	protein-coding	62.0	90.0	32.0	791.5	236.0	64.0	81.0	79.5
Merged-chr13-41249785-4	chr13	41249724	41249924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135577)	promoter-TSS (NM_001135577)	-20.0	NM_001135577	108934.0	Mm.38578	NM_001135577	ENSMUSG00000091264	Smim13	2900036K02Rik	small integral membrane protein 13	protein-coding	118.0	166.0	103.5	1518.5	269.5	126.5	175.0	146.5
Merged-chr14-71113413-3	chr14	71113314	71113514	+	975.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-137859.0	NR_046075	100043132.0	Mm.399336	NR_046075	ENSMUSG00000115139	Gm4251	-	predicted gene 4251	ncRNA	46.5	26.0	51.5	581.0	0.0	0.0	0.0	3.5
Merged-chr6-38320788-4	chr6	38320675	38320875	+	889.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 7 of 8)	RLTR45|LTR|ERVK	-21516.0	NM_172467	209032.0	Mm.101389	NM_172467	ENSMUSG00000047749	Zc3hav1l	B130055L09Rik|E430016P22Rik	zinc finger CCCH-type, antiviral 1-like	protein-coding	10.0	18.0	13.0	157.0	29.0	20.5	6.0	24.0
Merged-chr7-101348535-2	chr7	101348435	101348635	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	466.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	5.0	8.0	5.5	45.0	14.5	3.0	5.0	7.0
Merged-chr11-68502633-4	chr11	68502540	68502740	+	872.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081566)	promoter-TSS (NM_001081566)	-379.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	26.0	14.0	12.5	118.5	24.0	14.0	13.0	18.0
Merged-chr17-5561408-3	chr17	5561312	5561512	+	598.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	68812.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	4.5	13.0	6.0	109.5	9.5	5.0	4.0	3.0
Merged-chr13-93774002-3	chr13	93773888	93774088	+	974.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009712, intron 1 of 7)	intron (NM_009712, intron 1 of 7)	2309.0	NM_009712	11881.0	Mm.300178	NM_009712	ENSMUSG00000042082	Arsb	1110007C02Rik|AI480648|As-1|As-1r|As-1s|As-1t|As1|As1-r|As1-s|As1-t|Asr-1|Ast-1	arylsulfatase B	protein-coding	18.0	30.0	11.5	203.0	7.0	5.5	1.0	1.5
Merged-chr3-132115941-4	chr3	132115858	132116058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	C-rich|Low_complexity|Low_complexity	30666.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	27.5	26.5	49.0	705.0	109.0	30.0	47.0	62.0
Merged-chr8-35433952-4	chr8	35433785	35433985	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58144.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	15.0	23.0	24.0	201.0	27.0	9.0	19.5	5.0
Merged-chr8-35808363-4	chr8	35808281	35808481	+	796.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	18178.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	7.0	13.5	8.0	122.0	11.0	12.5	10.5	18.5
Merged-chr15-64266812-4	chr15	64266698	64266898	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	45875.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	22.5	17.0	14.0	288.0	51.5	12.5	22.0	16.0
Merged-chr10-68725578-4	chr10	68725486	68725686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	1840.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	25.0	9.0	55.0	707.5	95.0	13.5	53.0	43.0
Merged-chr6-83475690-4	chr6	83475581	83475781	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19289.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	36.5	33.5	24.0	631.5	34.0	20.0	21.5	27.5
Merged-chr14-55681534-2	chr14	55681433	55681633	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_145705, exon 1 of 9)	exon (NM_145705, exon 1 of 9)	284.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	54.0	67.0	19.5	650.5	148.0	41.0	61.0	76.0
Merged-chr5-23435349-7	chr5	23435194	23435394	+	987.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040469)	promoter-TSS (NR_040469)	865.0	NM_026984	69188.0	Mm.205190	NM_026984	ENSMUSG00000029004	Kmt2e	1810033J14Rik|9530077A04Rik|D230038D11Rik|Mll5|NKp44L	lysine (K)-specific methyltransferase 2E	protein-coding	10.0	10.0	11.5	114.0	30.0	11.5	25.0	19.0
Merged-chr4-115737708-4	chr4	115737609	115737809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172698)	promoter-TSS (NM_172698)	-364.0	NM_172698	230648.0	Mm.283565	NM_172698	ENSMUSG00000034210	Efcab14	4732418C07Rik	EF-hand calcium binding domain 14	protein-coding	234.5	401.0	280.5	4208.5	712.5	273.0	381.0	303.5
Merged-chr3-90080295-4	chr3	90080170	90080370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357581, intron 1 of 8)	CpG	749.0	NM_001293749	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	48.5	103.0	64.0	396.0	106.0	62.0	53.0	50.0
Merged-chr2-160093351-4	chr2	160093230	160093430	+	949.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76677.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	12.5	20.5	18.0	144.0	44.5	19.0	10.5	15.0
Merged-chr11-108445472-4	chr11	108445354	108445554	+	928.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029606, intron 5 of 27)	intron (NM_029606, intron 5 of 27)	20188.0	NM_029606	76380.0	Mm.344071	NM_029586	ENSMUSG00000020728	Cep112	1700001M19Rik|1700029K01Rik|8430407H02Rik|AV043680|AV207351|Ccdc46|Macoco	centrosomal protein 112	protein-coding	12.5	25.0	15.5	214.0	37.0	13.5	24.0	20.0
Merged-chr7-118535636-4	chr7	118535516	118535716	+	908.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172476)	TTS (NM_172476)	-2260.0	NM_009940	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	12.5	20.0	15.0	225.0	64.0	29.5	13.0	14.5
Merged-chr3-95450651-2	chr3	95450551	95450751	+	763.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037737, intron 2 of 21)	intron (NM_001037737, intron 2 of 21)	16261.0	NM_001037737	11863.0	Mm.250265	NM_009709	ENSMUSG00000015522	Arnt	D3Ertd557e|Drnt|ESTM42|Hif1b|W08714|bHLHe2|mKIAA4051	aryl hydrocarbon receptor nuclear translocator	protein-coding	5.0	5.5	4.5	49.0	5.5	8.5	6.5	4.5
Merged-chr10-81384824-4	chr10	81384730	81384930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133964, intron 1 of 4)	intron (NM_133964, intron 1 of 4)	402.0	NM_133964	102115.0	Mm.294975	NM_133964	ENSMUSG00000078440	Dohh	1110033C18Rik|AI585913|AL022869|Hlrc1	deoxyhypusine hydroxylase/monooxygenase	protein-coding	24.0	56.5	24.0	322.0	81.0	25.0	21.5	25.5
Merged-chr2-30772963-7	chr2	30772863	30773063	+	945.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28774.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	6.5	17.0	10.0	173.0	21.5	13.5	9.5	12.0
Merged-chr10-75798459-3	chr10	75798350	75798550	+	742.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358778)	promoter-TSS (NM_001358778)	134.0	NM_008185	14871.0	Mm.2746	NM_008185	ENSMUSG00000001663	Gstt1	AI255817|Gstt1-1	glutathione S-transferase, theta 1	protein-coding	10.0	9.0	18.5	151.0	6.0	4.5	7.0	13.0
Merged-chr4-144980224-3	chr4	144980096	144980296	+	734.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 68 of 69)	intron (NM_001276465, intron 68 of 69)	87059.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	12.0	18.5	5.0	98.0	16.0	6.5	1.5	1.5
Merged-chr2-29772317-4	chr2	29772208	29772408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10780.0	NM_001177392	433416.0	Mm.330112	NM_001034887	ENSMUSG00000075425	Gm13547	-	predicted gene 13547	protein-coding	40.0	57.0	34.5	623.5	82.5	40.0	52.0	41.5
Merged-chr13-33003682-4	chr13	33003577	33003777	+	785.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009256)	promoter-TSS (NM_009256)	-864.0	NM_009256	20723.0	Mm.245041	NM_009256	ENSMUSG00000045827	Serpinb9	BB283241|CAP-3|CAP3|PI-9|PI9|Spi6|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9	protein-coding	4.5	7.5	3.5	77.5	21.5	10.5	12.0	16.0
Merged-chr8-41025795-4	chr8	41025714	41025914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	MTC|LTR|ERVL-MaLR	8346.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	7.0	1.5	12.5	298.5	58.0	26.5	48.5	32.5
Merged-chr14-54733731-4	chr14	54733628	54733828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 6 of 10)	intron (NM_016972, intron 6 of 10)	-21554.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	33.5	69.5	83.5	1059.5	161.0	50.5	95.5	96.0
Merged-chr16-93032154-4	chr16	93032037	93032237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-206063.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	42.0	66.0	23.5	266.5	152.5	39.5	33.5	35.0
Merged-chr2-130840065-4	chr2	130840009	130840209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311147)	promoter-TSS (NM_001311147)	36.0	NM_029432	228602.0	Mm.271990	NM_028367	ENSMUSG00000027309	4930402H24Rik	2810487F15Rik|AI413763|C78926	RIKEN cDNA 4930402H24 gene	protein-coding	38.0	47.5	28.5	503.5	65.5	35.0	19.5	37.5
Merged-chr5-20941402-4	chr5	20941274	20941474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	ORR1D2|LTR|ERVL-MaLR	-9615.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	86.5	135.0	113.0	1861.0	283.5	80.0	139.5	85.0
Merged-chr15-84231287-4	chr15	84231197	84231397	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133167)	promoter-TSS (NM_133167)	-746.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	27.0	30.0	12.5	395.0	56.0	25.5	27.5	24.0
Merged-chr4-132345729-4	chr4	132345657	132345857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001197082)	promoter-TSS (NM_001197082)	-7.0	NM_133878	100088.0	Mm.255045	NM_133878	ENSMUSG00000028896	Rcc1	4931417M11Rik|AI326872|Chc1	regulator of chromosome condensation 1	protein-coding	26.0	54.0	30.5	311.0	98.0	39.5	30.5	52.0
Merged-chr13-17976053-4	chr13	17975946	17976146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17305.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	238.0	365.0	307.0	4074.5	516.0	242.0	260.5	209.0
Merged-chr6-115317161-4	chr6	115317077	115317277	+	900.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43774.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	11.5	4.5	20.5	461.5	25.0	9.0	6.0	17.0
Merged-chr14-75722240-4	chr14	75722133	75722333	+	901.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177381, intron 15 of 22)	intron (NM_177381, intron 15 of 22)	32260.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	13.5	11.5	6.0	111.5	39.5	16.0	16.0	9.5
Merged-chr11-22818601-4	chr11	22818480	22818680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41155.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	33.5	65.0	63.0	987.5	102.5	25.5	33.5	43.5
Merged-chr5-97320302-4	chr5	97320202	97320402	+	870.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	72028.0	NM_001033191	97243.0	Mm.11746	NM_001033191	ENSMUSG00000046000	Naa11	Ard1b|Ard2|C80008	N(alpha)-acetyltransferase 11, NatA catalytic subunit	protein-coding	5.0	13.0	20.0	276.0	34.5	6.0	11.5	30.5
Merged-chr1-136578418-4	chr1	136578326	136578526	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46475.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	36.5	25.5	20.0	649.0	63.0	12.5	36.5	45.5
Merged-chr4-45546099-4	chr4	45545991	45546191	+	866.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-15263.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	4.5	20.5	7.0	191.0	34.5	13.5	15.0	16.0
Merged-chr7-104369226-3	chr7	104369139	104369339	+	869.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-10593.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	5.5	14.5	10.0	232.5	19.0	10.5	3.5	6.5
Merged-chr3-158077582-4	chr3	158077494	158077694	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40912.0	NM_001289524	67144.0	Mm.358704	NM_024194	ENSMUSG00000063052	Lrrc40	2610040E16Rik|AI837674	leucine rich repeat containing 40	protein-coding	40.0	33.5	44.0	700.0	89.0	14.5	51.5	25.5
Merged-chr13-54687279-4	chr13	54687173	54687373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027396, intron 1 of 10)	CpG	535.0	NM_001146025	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	38.0	44.5	25.0	479.5	68.5	32.5	38.5	39.0
Merged-chr1-191178924-4	chr1	191178848	191179048	+	849.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 1 of 3)	intron (NM_007498, intron 1 of 3)	4385.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	16.0	24.0	7.5	170.5	27.0	16.0	13.0	10.5
Merged-chr12-108169093-2	chr12	108168993	108169193	+	780.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028262, intron 1 of 12)	intron (NM_028262, intron 1 of 12)	10191.0	NM_028262	52690.0	Mm.159185	NM_028262	ENSMUSG00000056770	Setd3	2610102I01Rik|2610305M23Rik|6030490B17Rik|D12Ertd771e	SET domain containing 3	protein-coding	6.5	5.0	13.0	74.0	16.0	2.0	8.0	10.0
Merged-chr15-101145636-4	chr15	101145498	101145698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001277259)	TTS (NM_001277259)	17076.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	76.0	96.0	73.5	1196.0	204.5	50.5	110.5	66.0
Merged-chr16-55757708-3	chr16	55757619	55757819	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	64419.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	59.0	51.0	44.5	267.5	110.0	58.0	53.5	54.5
Merged-chr11-82820909-4	chr11	82820824	82821024	+	926.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007465, intron 1 of 6)	intron (NM_001007465, intron 1 of 6)	8119.0	NM_026097	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	20.5	29.5	33.5	435.0	34.5	13.0	17.0	11.0
Merged-chr13-35647646-4	chr13	35647545	35647745	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-12217.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	45.0	28.0	37.0	580.5	48.0	11.5	17.5	18.5
Merged-chr9-61977478-4	chr9	61977433	61977633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 2 of 7)	MER20|DNA|hAT-Charlie	-30734.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	102.5	126.5	94.5	1563.0	147.0	68.0	79.5	80.5
Merged-chr2-132203994-3	chr2	132203892	132204092	+	830.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	43796.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	13.0	15.0	8.5	160.0	6.5	1.5	7.5	6.5
Merged-chr3-9709071-3	chr3	9708964	9709164	+	848.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	-98979.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	14.0	8.0	6.0	152.5	13.5	9.5	5.5	8.0
Merged-chr14-55106595-4	chr14	55106464	55106664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303502)	promoter-TSS (NM_001303502)	29.0	NM_001303502	11766.0	Mm.238879	NM_007455	ENSMUSG00000040701	Ap1g2	Adtg2|G2ad	adaptor protein complex AP-1, gamma 2 subunit	protein-coding	47.5	80.0	38.5	657.0	98.0	30.0	66.0	63.0
Merged-chr5-107868518-4	chr5	107868397	107868597	+	888.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 1 of 17)	CpG	6610.0	NM_007964	14020.0	Mm.35796	NM_007964	ENSMUSG00000011831	Evi5	NB4S	ecotropic viral integration site 5	protein-coding	16.0	18.0	22.5	154.5	18.0	9.5	10.0	11.5
Merged-chr2-70946932-4	chr2	70946843	70947043	+	916.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	71431.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	28.0	17.5	4.0	154.5	25.5	13.5	20.5	16.0
Merged-chr9-109931658-4	chr9	109931559	109931759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008633)	promoter-TSS (NM_008633)	-115.0	NM_001205331	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	229.5	439.0	297.0	4264.0	670.0	269.0	370.5	282.5
Merged-chr16-20085782-4	chr16	20085669	20085869	+	977.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11785.0	NM_029436	75785.0	Mm.392450	NM_029436	ENSMUSG00000062901	Klhl24	1110046J11Rik|4930429H24Rik|6530402O20Rik|C85082	kelch-like 24	protein-coding	31.0	19.5	22.0	428.5	45.0	14.5	26.0	28.0
Merged-chr6-83636586-4	chr6	83636493	83636693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19523.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	62.5	39.0	97.0	2002.0	98.0	50.0	67.5	55.5
Merged-chr5-35727179-2	chr5	35727079	35727279	+	798.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359895, intron 1 of 17)	intron (NM_001359895, intron 1 of 17)	2097.0	NM_194344	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	10.5	4.5	6.0	32.5	5.5	2.0	5.5	3.0
Merged-chr6-17772681-3	chr6	17772579	17772779	+	774.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	23509.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	9.5	6.5	4.5	154.0	16.0	9.0	8.5	10.5
Merged-chr11-118103061-4	chr11	118102968	118103168	+	990.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167746, intron 20 of 80)	intron (NM_001167746, intron 20 of 80)	26151.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	18.0	31.0	17.0	296.0	72.0	19.5	27.0	17.5
Merged-chr6-116726302-3	chr6	116726231	116726431	+	755.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57E1|LTR|ERV1	-9573.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	9.5	11.5	8.5	89.5	31.0	3.0	7.0	2.5
Merged-chr7-99469769-4	chr7	99469660	99469860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028145, intron 2 of 6)	intron (NM_028145, intron 2 of 6)	3756.0	NM_028145	72184.0	Mm.153585	NM_028145	ENSMUSG00000035298	Klhl35	2810406K13Rik	kelch-like 35	protein-coding	28.5	25.0	33.5	812.5	88.0	20.0	32.5	51.5
Merged-chr4-102605954-3	chr4	102605839	102606039	+	852.572205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001177980, exon 10 of 10)	3' UTR (NM_001177980, exon 10 of 10)	16096.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	35.5	13.0	29.5	379.0	2.0	3.5	1.0	1.0
Merged-chr2-5682176-4	chr2	5682060	5682260	+	862.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	MER21C|LTR|ERVL	-6114.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	7.0	8.0	11.5	144.0	16.5	5.5	9.0	8.5
Merged-chr3-87521380-4	chr3	87521275	87521475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4203.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	170.5	317.0	220.5	2870.0	305.0	148.5	179.0	167.5
Merged-chr5-138694892-3	chr5	138694787	138694987	+	942.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60194.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	17.0	46.0	24.5	158.0	22.0	8.5	9.0	7.0
Merged-chr3-79002661-4	chr3	79002569	79002769	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142218.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	24.0	30.0	17.5	487.5	48.0	14.0	19.0	15.0
Merged-chr1-177141660-4	chr1	177141557	177141757	+	905.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	intron (NM_011785, intron 1 of 12)	107110.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	24.5	13.5	13.0	150.5	27.5	8.5	18.5	15.0
Merged-chr8-72350924-3	chr8	72350836	72351036	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007944, intron 22 of 23)	intron (NM_007944, intron 22 of 23)	31874.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	19.5	35.5	34.0	523.0	23.5	6.5	7.5	8.5
Merged-chr14-54230845-4	chr14	54230731	54230931	+	577.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23098.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	10.5	11.0	6.5	45.0	18.5	1.5	4.0	10.0
Merged-chr1-144197911-4	chr1	144197828	144198028	+	910.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20556.0	NM_153171	246709.0	Mm.38271	NM_153171	ENSMUSG00000051079	Rgs13	-	regulator of G-protein signaling 13	protein-coding	25.0	15.5	12.5	332.0	29.0	16.5	11.5	11.0
Merged-chr6-113654297-4	chr6	113654180	113654380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	15813.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	167.0	281.0	175.5	1849.5	333.5	136.5	189.5	99.5
Merged-chr18-80853534-3	chr18	80853439	80853639	+	735.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_015805, intron 8 of 28)	RMER6A|LTR|ERVK	80519.0	NM_001201569	50771.0	Mm.247138	NM_015805	ENSMUSG00000024566	Atp9b	AA934181|Atpc2b|IIb|MMR	ATPase, class II, type 9B	protein-coding	3.5	10.0	14.5	196.5	29.5	9.0	6.5	18.0
Merged-chr2-154593271-4	chr2	154593163	154593363	+	861.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021534, intron 2 of 3)	intron (NM_021534, intron 2 of 3)	10410.0	NM_021534	59038.0	Mm.24673	NM_021534	ENSMUSG00000000876	Pxmp4	3010018P03Rik|Pmp24	peroxisomal membrane protein 4	protein-coding	12.0	34.0	9.0	102.0	43.5	14.0	25.0	15.5
Merged-chr11-94129866-4	chr11	94129755	94129955	+	854.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81599.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	12.0	27.0	8.0	239.0	23.5	11.5	7.5	9.5
Merged-chr2-173337815-4	chr2	173337714	173337914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61281.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	75.5	121.5	78.0	1613.0	187.0	72.0	126.0	56.0
Merged-chr4-139741937-3	chr4	139741848	139742048	+	973.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011039, intron 8 of 8)	MTD|LTR|ERVL-MaLR	88410.0	NM_031873	83770.0	Mm.190612	NM_031873	ENSMUSG00000028738	Tas1r2	Gpr71|T1r2|TR2	taste receptor, type 1, member 2	protein-coding	0.0	0.0	0.0	0.0	54.0	22.0	45.0	36.5
Merged-chr10-41302778-1	chr10	41302678	41302878	+	1000.0	f0_c57.idr	intron (NM_133999, intron 1 of 22)	intron (NM_133999, intron 1 of 22)	463.0	NM_133999	103199.0	Mm.277242	NM_133999	ENSMUSG00000038417	Fig4	A530089I17Rik|AI326867|Sac3	FIG4 phosphoinositide 5-phosphatase	protein-coding	14.5	12.5	13.5	297.5	54.0	17.5	20.5	22.5
Merged-chr11-32607507-4	chr11	32607381	32607581	+	973.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 12 of 18)	L1MD|LINE|L1	-35074.0	NM_001271348	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	23.0	31.0	21.0	430.0	63.5	11.0	28.0	21.0
Merged-chr17-84878049-4	chr17	84877963	84878163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78678.0	NM_001159497	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	19.5	28.5	14.0	217.5	86.0	37.0	26.0	22.5
Merged-chr5-114654169-4	chr5	114654058	114654258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022017, intron 1 of 15)	MIR3|SINE|MIR	4263.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	83.0	141.0	63.0	1016.0	134.5	51.0	49.5	45.5
Merged-chr2-84623982-4	chr2	84623880	84624080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355067, intron 1 of 15)	intron (NM_001355067, intron 1 of 15)	25500.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	76.5	173.0	131.0	1563.0	143.5	61.5	84.0	70.5
Merged-chr5-67297222-4	chr5	67297104	67297304	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9751.0	NM_178651	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	20.5	32.0	19.5	492.0	69.5	14.0	35.5	26.0
Merged-chr1-180957267-4	chr1	180957164	180957364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 8 of 22)	MTD|LTR|ERVL-MaLR	14746.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	266.0	357.0	308.5	4756.5	457.5	173.5	283.0	211.0
Merged-chr18-60596181-4	chr18	60596101	60596301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177340, exon 3 of 3)	exon (NM_177340, exon 3 of 3)	-4485.0	NM_133363	170947.0	Mm.159257	NM_133363	ENSMUSG00000049173	Myoz3	4833419K08Rik|Fatz-3	myozenin 3	protein-coding	89.5	99.5	73.0	1085.5	154.5	56.5	83.5	61.0
Merged-chr10-10472451-4	chr10	10472336	10472536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127353)	promoter-TSS (NM_001127353)	-122.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	111.0	122.0	103.0	1797.5	261.0	83.0	146.5	136.0
Merged-chr3-8971834-4	chr3	8971730	8971930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	MLT1J1|LTR|ERVL-MaLR	-7684.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	48.0	113.5	49.5	703.5	134.0	67.0	146.5	49.0
Merged-chr18-80256154-4	chr18	80256068	80256268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164424)	promoter-TSS (NM_001164424)	-58.0	NM_001164424	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	182.0	298.0	154.5	2724.0	316.5	156.5	202.5	158.5
Merged-chr19-10881754-4	chr19	10881636	10881836	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134142)	promoter-TSS (NM_134142)	7.0	NM_134142	68539.0	Mm.251890	NM_134142	ENSMUSG00000034659	Tmem109	1110006I15Rik|AA958958|C77652	transmembrane protein 109	protein-coding	23.5	27.5	17.0	288.0	52.0	26.5	20.0	25.5
Merged-chr5-67427693-7	chr5	67427581	67427781	+	972.1904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164806, exon 1 of 5)	5' UTR (NM_001164806, exon 1 of 5)	118.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	9.5	11.0	17.0	202.5	24.5	10.5	14.0	12.0
Merged-chr3-90248081-4	chr3	90247987	90248187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013901)	promoter-TSS (NM_013901)	-105.0	NM_013901	30791.0	Mm.294709	NM_013901	ENSMUSG00000052310	Slc39a1	Zip1|Zirtl	solute carrier family 39 (zinc transporter), member 1	protein-coding	104.0	177.0	102.0	1064.5	327.0	142.5	90.0	116.0
Merged-chr10-68176496-3	chr10	68176397	68176597	+	865.511108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 4 of 9)	intron (NM_023598, intron 4 of 9)	102229.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	12.0	14.0	20.5	121.5	8.0	0.0	4.0	3.0
Merged-chr14-63196019-4	chr14	63195957	63196157	+	844.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2532.0	NM_201610	382913.0	Mm.239490	NM_201610	ENSMUSG00000035121	Neil2	Gm1212|NEH2	nei like 2 (E. coli)	protein-coding	9.5	11.0	2.0	92.5	8.0	9.0	12.5	11.0
Merged-chr12-80839846-4	chr12	80839755	80839955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	MTE2b|LTR|ERVL-MaLR	49323.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	46.5	105.5	39.0	481.5	143.0	36.5	53.5	44.5
Merged-chr17-17909596-3	chr17	17909498	17909698	+	946.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21774.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	4.0	8.5	13.0	161.5	36.5	7.5	6.0	10.5
Merged-chr17-15774121-4	chr17	15774006	15774206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52480.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	35.5	32.5	19.0	610.0	109.5	18.0	39.5	31.5
Merged-chr13-93939687-3	chr13	93939590	93939790	+	734.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009712, intron 7 of 7)	intron (NM_009712, intron 7 of 7)	-118106.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	1.0	13.0	7.5	154.0	12.5	8.0	9.0	10.0
Merged-chr7-110166383-4	chr7	110166297	110166497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44338.0	NM_009516	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	67.0	154.5	75.5	677.0	251.5	95.0	72.5	88.5
Merged-chr2-35256344-4	chr2	35256257	35256457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001206367)	promoter-TSS (NM_001206367)	-2.0	NM_001206367	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	63.0	80.0	55.5	1049.0	143.0	49.0	69.0	60.5
Merged-chr10-8776131-4	chr10	8776022	8776222	+	970.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	109948.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	33.5	51.5	19.5	123.0	78.5	15.0	9.5	16.0
Merged-chr1-45795365-7	chr1	45795242	45795442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028599, exon 1 of 21)	5' UTR (NM_028599, exon 1 of 21)	176.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	36.5	45.0	46.5	492.0	70.0	38.0	49.5	45.0
Merged-chr2-84626547-4	chr2	84626449	84626649	+	884.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	intron (NM_007615, intron 1 of 19)	22931.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	15.0	27.5	45.5	257.5	42.5	8.0	9.0	6.0
Merged-chr12-8511207-4	chr12	8511123	8511323	+	967.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H2|LTR|ERVL-MaLR	-11214.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	30.5	18.5	50.0	439.0	157.0	72.5	79.0	43.5
Merged-chr11-94496748-4	chr11	94496665	94496865	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361558, intron 1 of 8)	intron (NM_001361558, intron 1 of 8)	3209.0	NM_001361558	71889.0	Mm.248620	NM_027984	ENSMUSG00000010080	Epn3	2310022G12Rik	epsin 3	protein-coding	6.5	20.5	9.5	222.5	19.5	2.0	12.0	4.5
Merged-chr1-157536722-2	chr1	157536622	157536822	+	933.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159986, intron 8 of 25)	intron (NM_001159986, intron 8 of 25)	10552.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	6.0	12.0	5.0	40.5	14.0	8.0	5.0	8.5
Merged-chr7-99377645-4	chr7	99377547	99377747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-3871.0	NM_001362168	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	77.0	91.5	83.0	1224.5	159.5	39.0	84.0	62.0
Merged-chr10-21947121-4	chr10	21947025	21947225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 2 of 13)	intron (NM_001161845, intron 2 of 13)	-31547.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	163.0	356.5	180.0	1624.5	391.5	153.0	153.5	94.0
Merged-chr5-100513703-4	chr5	100513573	100513773	+	874.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4636.0	NM_001359203	26891.0	Mm.957	NM_012001	ENSMUSG00000035297	Cops4	AW208976|D5Ertd774e|SGN4	COP9 signalosome subunit 4	protein-coding	8.5	10.0	9.0	151.0	15.0	4.0	15.0	6.5
Merged-chr5-149221614-4	chr5	149221519	149221719	+	972.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37059.0	NM_001359957	231915.0	Mm.29402	NM_001013378	ENSMUSG00000041264	Uspl1	E430026A01Rik	ubiquitin specific peptidase like 1	protein-coding	11.5	21.0	22.0	417.0	97.5	18.5	63.5	36.5
Merged-chr11-55116141-4	chr11	55116026	55116226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18141.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	22.5	37.0	36.5	385.5	101.5	33.5	42.0	41.5
Merged-chr10-4612872-4	chr10	4612781	4612981	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007956, intron 1 of 8)	intron (NM_007956, intron 1 of 8)	892.0	NM_007956	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	27.0	43.5	19.5	732.5	42.0	15.5	26.5	15.5
Merged-chr13-34050675-4	chr13	34050567	34050767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026512, intron 4 of 6)	intron (NM_026512, intron 4 of 6)	13026.0	NM_026512	68021.0	Mm.140243	NM_026512	ENSMUSG00000038286	Bphl	2010012D11Rik|5730533B08Rik|AI115341	biphenyl hydrolase-like (serine hydrolase, breast epithelial mucin-associated antigen)	protein-coding	48.5	97.0	55.5	936.0	111.5	34.5	48.0	34.5
Merged-chr4-109255405-4	chr4	109255268	109255468	+	969.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001285895)	TTS (NM_001285895)	19736.0	NM_001033226	108802.0	Mm.318248	NM_001033226	ENSMUSG00000028558	Calr4	4933403L16Rik|AU017583	calreticulin 4	protein-coding	7.0	16.0	18.0	102.5	29.5	16.0	9.5	20.5
Merged-chr2-153115892-4	chr2	153115781	153115981	+	844.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	intron (NM_001172117, intron 1 of 12)	7413.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	8.0	7.0	15.0	194.5	18.5	8.0	12.0	11.0
Merged-chr16-35922552-4	chr16	35922474	35922674	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-15896.0	NM_030253	80285.0	Mm.49074	NM_030253	ENSMUSG00000022906	Parp9	ARTD9|AW214463|BC003281|Bagl|Bal|PARP-9	poly (ADP-ribose) polymerase family, member 9	protein-coding	20.5	18.0	19.5	195.0	33.5	7.0	16.0	16.5
Merged-chr8-106148455-3	chr8	106148349	106148549	+	981.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1905.0	NM_133792	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	10.0	11.5	16.5	187.5	41.0	16.5	19.0	7.0
Merged-chr3-63929337-4	chr3	63929204	63929404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357824)	promoter-TSS (NM_001357824)	168.0	NM_177856	329659.0	Mm.39342	NM_177856	ENSMUSG00000048581	E130311K13Rik	-	RIKEN cDNA E130311K13 gene	protein-coding	133.0	168.5	190.5	2409.0	242.0	99.5	126.5	122.0
Merged-chr15-4731077-3	chr15	4730971	4731171	+	814.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016704, intron 1 of 15)	Lx7|LINE|L1	3861.0	NM_016704	12274.0	Mm.20247	NM_016704	ENSMUSG00000022181	C6	AW111623	complement component 6	protein-coding	17.5	6.5	5.5	63.0	22.0	7.5	13.5	8.5
Merged-chr4-119667574-1	chr4	119667474	119667674	+	595.5	f0_balb.idr	Intergenic	Intergenic	-8629.0	NM_008191	14916.0	Mm.278	NM_008191	ENSMUSG00000032978	Guca2b	AV066530|Gcap2|Ugn	guanylate cyclase activator 2b (retina)	protein-coding	7.5	10.5	7.5	71.0	11.5	6.5	2.5	6.0
Merged-chr17-24351608-2	chr17	24351510	24351710	+	1000.0	f0_c57.idr|f1_balb.idr	promoter-TSS (NM_013855)	promoter-TSS (NM_013855)	-413.0	NM_013855	27410.0	Mm.239470	NM_013855	ENSMUSG00000024130	Abca3	1810036E22Rik|ABC-C|Abc3	ATP-binding cassette, sub-family A (ABC1), member 3	protein-coding	7.0	6.0	4.5	36.5	36.0	11.0	21.0	21.0
Merged-chr14-121906612-4	chr14	121906498	121906698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 2 of 8)	intron (NM_026861, intron 2 of 8)	9176.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	48.5	45.0	66.5	995.0	57.0	20.0	40.5	36.0
Merged-chr10-61135385-4	chr10	61135273	61135473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 2 of 14)	intron (NM_009163, intron 2 of 14)	12311.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	27.0	42.5	22.5	466.0	84.5	25.0	31.0	29.5
Merged-chr7-63980288-4	chr7	63980180	63980380	+	901.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-41365.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	24.0	22.0	9.5	242.0	35.5	9.0	12.0	20.0
Merged-chr17-62883027-1	chr17	62882927	62883127	+	621.0	f0_balb.idr	Intergenic	Intergenic	-1710.0	NM_010109	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	9.0	8.0	18.0	81.5	12.5	1.0	10.0	5.5
Merged-chr12-101722434-4	chr12	101722349	101722549	+	919.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3926.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	13.0	12.0	17.5	269.0	32.5	14.5	13.0	23.5
Merged-chr1-164315468-2	chr1	164315368	164315568	+	701.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178071, intron 3 of 9)	B3|SINE|B2	7796.0	NM_138314	171567.0	Mm.219428	NM_138314	ENSMUSG00000026575	Nme7	D530024H21Rik|Nm23-M7|Nm23-r7	NME/NM23 family member 7	protein-coding	5.0	3.0	2.5	14.5	8.0	6.0	9.5	5.5
Merged-chr10-42277771-4	chr10	42277667	42277867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-1005	-1025.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	273.0	509.5	271.0	4172.5	612.0	293.0	348.5	309.5
Merged-chr16-91363572-3	chr16	91363520	91363720	+	675.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9163.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	11.5	14.0	11.5	77.5	12.0	12.5	3.5	2.0
Merged-chr2-117962138-4	chr2	117962035	117962235	+	973.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	140207.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	35.5	35.0	49.0	677.0	48.5	10.0	37.5	34.5
Merged-chr6-71273898-3	chr6	71273808	71274008	+	891.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145568, intron 1 of 3)	intron (NM_145568, intron 1 of 3)	1889.0	NM_145568	57896.0	Mm.250569	NM_145568	ENSMUSG00000053012	Krcc1	AA792894	lysine-rich coiled-coil 1	protein-coding	7.0	28.5	1.0	46.0	24.5	17.0	10.0	6.0
Merged-chr5-139792639-3	chr5	139792522	139792722	+	856.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010757, intron 1 of 2)	intron (NM_010757, intron 1 of 2)	1086.0	NM_010757	17135.0	Mm.157313	NM_010757	ENSMUSG00000018143	Mafk	AW061068|NF-E2|Nfe2u	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	protein-coding	6.5	9.5	9.0	78.0	24.5	4.0	4.0	11.0
Merged-chr2-153779048-6	chr2	153778909	153779109	+	891.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1870.0	NR_036629	100504221.0	Mm.246778	NM_177849	ENSMUSG00000044083	Efcab8	A630008I04|EG329541	EF-hand calcium binding domain 8	ncRNA	8.5	11.0	8.0	60.0	21.5	10.0	9.5	11.5
Merged-chr1-60865359-4	chr1	60865269	60865469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	-43656.0	NM_009843	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	31.0	59.5	38.0	401.5	90.5	28.5	39.5	34.0
Merged-chr4-116052876-4	chr4	116052772	116052972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028142, intron 1 of 5)	intron (NM_028142, intron 1 of 5)	1004.0	NM_028142	72181.0	Mm.282560	NM_028142	ENSMUSG00000028706	Nsun4	2310010O12Rik|2810405F18Rik|AI507900|Shtap	NOL1/NOP2/Sun domain family, member 4	protein-coding	39.5	39.5	38.0	680.5	80.0	38.0	44.5	56.0
Merged-chr16-55853086-4	chr16	55852985	55853185	+	944.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134457, intron 4 of 5)	intron (NM_001134457, intron 4 of 5)	-14444.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	10.5	25.5	14.0	305.5	63.5	20.0	15.0	9.0
Merged-chr6-115463150-4	chr6	115463064	115463264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001127330, exon 6 of 8)	exon (NM_001127330, exon 6 of 8)	41098.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	60.5	60.5	70.0	1123.5	112.5	32.0	29.5	57.0
Merged-chr2-156258643-4	chr2	156258545	156258745	+	925.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 4 of 17)	intron (NM_172674, intron 4 of 17)	-53828.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	34.5	58.0	26.5	525.5	69.5	18.0	16.0	29.5
Merged-chr7-45593275-4	chr7	45593161	45593361	+	977.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18085.0	NR_038165	71661.0	Mm.439894	NR_038165	ENSMUSG00000109644	0610005C13Rik	AI182092	RIKEN cDNA 0610005C13 gene	ncRNA	24.5	77.0	26.0	310.0	90.5	32.0	26.0	13.5
Merged-chr10-39258511-4	chr10	39258425	39258625	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-94731.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	14.0	9.5	23.0	262.5	25.5	1.0	23.5	17.0
Merged-chr14-118662218-3	chr14	118662125	118662325	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033336, intron 3 of 30)	intron (NM_001033336, intron 3 of 30)	14706.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	6.0	16.0	11.0	133.0	13.0	8.0	9.5	7.0
Merged-chr14-63448055-4	chr14	63447922	63448122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177628, intron 2 of 3)	intron (NM_177628, intron 2 of 3)	11628.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	60.5	78.5	51.5	837.5	161.5	81.5	64.0	60.5
Merged-chr16-93031801-4	chr16	93031676	93031876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205702.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	41.0	47.5	36.0	618.0	78.5	34.0	55.0	50.0
Merged-chr7-100443907-4	chr7	100443743	100443943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 27 of 32)	intron (NM_001017985, intron 27 of 32)	-29148.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	128.5	175.5	111.5	1218.5	232.0	83.5	103.5	91.5
Merged-chr1-35869730-4	chr1	35869628	35869828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198672.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	22.5	67.5	56.5	620.5	101.0	27.5	53.0	32.0
Merged-chr12-84217649-4	chr12	84217555	84217755	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	1226.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	24.0	39.0	19.5	433.5	59.5	14.5	27.5	19.0
Merged-chr11-69850133-3	chr11	69850036	69850236	+	952.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_031880)	TTS (NM_031880)	3492.0	NR_033133	70310.0	Mm.28874	NM_023564	ENSMUSG00000019461	Plscr3	2210403O21Rik|2610037N06Rik|ESTM3|X83310	phospholipid scramblase 3	protein-coding	13.5	23.5	11.5	160.5	13.5	6.0	2.0	7.0
Merged-chr1-45924790-4	chr1	45924725	45924925	+	931.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016917, intron 1 of 7)	intron (NM_016917, intron 1 of 7)	769.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	11.5	22.5	7.0	245.0	13.5	6.0	14.5	13.5
Merged-chr3-50906090-3	chr3	50905953	50906153	+	909.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-318394.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	7.0	12.5	23.5	202.5	6.0	5.0	9.5	8.5
Merged-chr8-115398205-4	chr8	115398108	115398308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	308686.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	60.0	100.5	66.5	1087.0	243.0	97.0	126.0	72.5
Merged-chr14-17713245-4	chr14	17713149	17713349	+	842.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 1 of 9)	intron (NM_001113417, intron 1 of 9)	52289.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	11.0	48.5	17.0	167.5	47.5	10.5	19.0	10.0
Merged-chr1-163930575-3	chr1	163930473	163930673	+	959.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286003, intron 1 of 13)	intron (NM_001286003, intron 1 of 13)	808.0	NM_028776	240880.0	Mm.389213	NM_028776	ENSMUSG00000026584	Scyl3	1200016D23Rik|6030457O16|AW214499|Pace1	SCY1-like 3 (S. cerevisiae)	protein-coding	6.0	13.0	15.0	123.5	28.5	10.0	15.5	17.0
Merged-chr4-136971175-3	chr4	136971058	136971258	+	823.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14342.0	NM_007939	13842.0	Mm.1390	NM_007939	ENSMUSG00000028661	Epha8	AW047546|Eek|Hek3|mKIAA1459	Eph receptor A8	protein-coding	6.0	16.5	12.0	108.0	15.0	4.5	7.5	16.5
Merged-chr16-92823652-4	chr16	92823525	92823725	+	934.526794	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	2449.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	23.0	14.0	14.5	187.5	39.5	15.5	9.0	13.0
Merged-chr12-51968120-4	chr12	51968044	51968244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177171, intron 1 of 35)	intron (NM_177171, intron 1 of 35)	3177.0	NM_177171	320487.0	Mm.131941	NM_177171	ENSMUSG00000035181	Heatr5a	C230081H03Rik|D930036F22Rik|mKIAA1316	HEAT repeat containing 5A	protein-coding	19.0	54.0	30.0	767.0	87.5	33.5	45.0	34.0
Merged-chr1-164066884-4	chr1	164066785	164066985	+	902.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164059, intron 4 of 7)	intron (NM_001164059, intron 4 of 7)	4809.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	8.5	18.5	10.5	184.5	43.5	9.0	12.5	16.5
Merged-chr8-72219709-4	chr8	72219616	72219816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026455)	promoter-TSS (NM_026455)	-14.0	NM_026455	67922.0	Mm.28327	NM_026455	ENSMUSG00000003039	Fam32a	2510049I19Rik|AW822030|OTAG-12|Otag12	family with sequence similarity 32, member A	protein-coding	126.0	174.0	91.0	1471.5	263.5	106.0	120.0	113.0
Merged-chr17-24472608-2	chr17	24472508	24472708	+	806.599976	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001252463)	TTS (NM_001252463)	-1276.0	NM_175682	319259.0	Mm.258355	NM_175682	ENSMUSG00000045744	Bricd5	9930021D14Rik	BRICHOS domain containing 5	protein-coding	8.0	11.0	7.0	49.5	10.0	3.5	6.5	6.5
Merged-chr8-61606995-4	chr8	61606902	61607102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	(CA)n|Simple_repeat|Simple_repeat	-15833.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	215.5	337.0	266.5	2769.0	516.0	251.0	273.0	226.5
Merged-chr11-29647954-4	chr11	29647840	29648040	+	962.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44958.0	NM_194053	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	14.5	13.5	15.5	253.0	66.0	19.5	22.5	17.0
Merged-chr3-95668175-4	chr3	95668083	95668283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9462.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	47.5	68.0	47.5	644.0	137.0	60.0	65.0	46.5
Merged-chr3-15179697-4	chr3	15179600	15179800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152602.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	46.5	69.5	50.5	1084.5	133.5	40.5	66.0	38.5
Merged-chr2-167696810-3	chr2	167696809	167697009	+	852.5793460000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_110334, exon 2 of 2)	non-coding (NR_110334, exon 2 of 2)	5732.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	12.5	7.0	5.0	12.5	15.5	5.5	1.5	6.0
Merged-chr5-118269172-4	chr5	118269067	118269267	+	836.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23940.0	NM_001081236	76792.0	Mm.103428	NM_001081236	ENSMUSG00000032840	2410131K14Rik	-	RIKEN cDNA 2410131K14 gene	protein-coding	12.0	14.5	9.0	199.0	22.5	9.0	7.0	7.5
Merged-chr5-98033226-4	chr5	98033123	98033323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2261.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	69.5	74.0	56.5	950.5	73.5	28.5	43.0	24.0
Merged-chr10-60369604-4	chr10	60369503	60369703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159572, exon 7 of 7)	3' UTR (NM_001159572, exon 7 of 7)	22752.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	26.0	27.0	17.5	454.0	48.5	24.5	30.0	26.5
Merged-chr6-37589751-4	chr6	37589658	37589858	+	950.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59585.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	14.0	25.0	12.5	166.5	37.5	8.5	16.0	21.0
Merged-chr13-44305341-4	chr13	44305229	44305429	+	879.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-88842.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	20.5	23.0	11.5	208.5	14.0	13.0	21.5	8.5
Merged-chr9-21909613-4	chr9	21909537	21909737	+	856.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001324531, exon 5 of 5)	3' UTR (NM_001324531, exon 5 of 5)	8546.0	NM_031874	19340.0	Mm.260157	NM_031874	ENSMUSG00000019066	Rab3d	C130057E11Rik	RAB3D, member RAS oncogene family	protein-coding	5.5	15.0	7.5	243.5	4.5	2.0	9.0	20.5
Merged-chr6-140853725-4	chr6	140853652	140853852	+	813.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	226867.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	8.0	21.0	8.5	71.0	19.5	15.0	15.0	18.5
Merged-chr8-4779630-4	chr8	4779528	4779728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011369)	promoter-TSS (NM_011369)	-61.0	NM_011369	20419.0	Mm.37801	NM_011369	ENSMUSG00000022322	Shcbp1	mPAL	Shc SH2-domain binding protein 1	protein-coding	72.5	109.5	87.5	1382.0	221.0	79.5	113.0	66.5
Merged-chr18-49553851-3	chr18	49553755	49553955	+	753.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30566.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	9.0	10.5	13.5	233.5	16.0	8.5	7.0	5.5
Merged-chr9-99001528-4	chr9	99001416	99001616	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011810, intron 4 of 4)	intron (NM_011810, intron 4 of 4)	15143.0	NM_001122851	23873.0	Mm.74605	NM_011810	ENSMUSG00000032463	Faim	-	Fas apoptotic inhibitory molecule	protein-coding	26.0	54.5	13.0	265.5	53.0	14.0	17.5	15.0
Merged-chr12-91779164-4	chr12	91779052	91779252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	CpG	7284.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	96.5	133.0	71.0	1171.5	244.0	97.5	129.5	104.0
Merged-chr17-29842427-4	chr17	29842315	29842515	+	944.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081160, intron 8 of 15)	intron (NM_001081160, intron 8 of 15)	45467.0	NM_001081160	74762.0	Mm.40901	NM_001081160	ENSMUSG00000043557	Mdga1	1200011I03Rik|GPIM|Mamdc3	MAM domain containing glycosylphosphatidylinositol anchor 1	protein-coding	19.5	13.5	22.5	293.0	33.5	10.5	21.0	20.0
Merged-chr18-9484669-4	chr18	9484569	9484769	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-34515.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	15.0	17.0	44.5	412.5	71.5	8.0	28.5	22.5
Merged-chr11-88099151-4	chr11	88099041	88099241	+	843.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198013)	promoter-TSS (NM_198013)	-5.0	NM_198013	103841.0	Mm.374846	NM_198013	ENSMUSG00000018378	Cuedc1	AI841487|C330016O16Rik	CUE domain containing 1	protein-coding	13.5	15.0	22.0	163.0	17.0	9.5	14.5	14.0
Merged-chr6-118479395-5	chr6	118479244	118479444	+	796.26001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011763)	promoter-TSS (NM_011763)	-71.0	NM_011763	22750.0	Mm.106970	NM_011763	ENSMUSG00000072623	Zfp9	1810048F22Rik|AU016736|Krox-4|Zfp-9|mszf79-2	zinc finger protein 9	protein-coding	10.5	26.0	12.0	220.5	4.5	0.5	7.0	5.0
Merged-chr11-119022926-4	chr11	119022815	119023015	+	918.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007623)	promoter-TSS (NM_007623)	-106.0	NM_007623	12416.0	Mm.14547	NM_007623	ENSMUSG00000025577	Cbx2	M33|MOD2|pc	chromobox 2	protein-coding	30.0	32.5	11.0	220.5	53.0	12.0	22.5	12.5
Merged-chr9-100503932-4	chr9	100503851	100504051	+	823.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 2 of 3)	B1_Mm|SINE|Alu	2905.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	11.0	9.0	11.5	56.5	21.5	3.5	7.5	3.0
Merged-chr11-100545622-4	chr11	100545492	100545692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028918)	promoter-TSS (NM_028918)	-40.0	NM_028918	74407.0	Mm.31590	NM_028918	ENSMUSG00000006784	Ttc25	4933404O19Rik	tetratricopeptide repeat domain 25	protein-coding	75.5	74.0	40.5	815.0	127.5	54.0	85.0	59.5
Merged-chr17-55721502-4	chr17	55721426	55721626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8890.0	NR_151542	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	78.5	202.5	90.5	1009.5	106.0	47.5	37.5	26.5
Merged-chr3-115643089-5	chr3	115642930	115643130	+	900.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	72025.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	12.5	18.0	15.5	186.5	10.0	4.5	12.0	13.0
Merged-chr19-29431663-4	chr19	29431550	29431750	+	819.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 2 of 5)	MTEb|LTR|ERVL-MaLR	20731.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	8.5	15.0	7.5	107.0	28.5	11.5	9.5	11.5
Merged-chr11-59191907-4	chr11	59191830	59192030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008193)	promoter-TSS (NM_008193)	22.0	NM_008193	14923.0	Mm.3624	NM_008193	ENSMUSG00000020444	Guk1	AA409738|AL033299|AL033300|AV026611|Gmk|Guk-1	guanylate kinase 1	protein-coding	52.0	50.0	49.5	518.5	192.0	78.0	77.5	87.5
Merged-chr1-95528905-4	chr1	95528802	95529002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	138692.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	58.5	59.0	80.0	1630.0	93.0	39.5	55.5	50.0
Merged-chr7-125551673-2	chr7	125551573	125551773	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008700)	promoter-TSS (NM_001008700)	-609.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	5.5	3.5	4.5	65.5	16.5	6.5	4.5	15.0
Merged-chr8-3754474-4	chr8	3754399	3754599	+	787.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SSU-rRNA_Hsa|rRNA|rRNA	-5515.0	NM_133238	170786.0	Mm.32510	NM_133238	ENSMUSG00000031494	Cd209a	CD209|CDSIGN|CIRE|DC-SIGN|DC-SIGN1|Dcsign|SIGN-R1|SIGNR5	CD209a antigen	protein-coding	14.5	51.5	17.0	455.5	46.0	43.5	19.0	57.0
Merged-chr1-138145764-4	chr1	138145640	138145840	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	29386.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	22.0	26.0	15.0	331.5	39.0	14.0	14.5	19.5
Merged-chr4-108780132-3	chr4	108780015	108780215	+	891.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347163, intron 1 of 18)	CpG	973.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	2.5	8.0	20.0	120.5	17.0	4.5	9.0	12.0
Merged-chr1-59608591-4	chr1	59608494	59608694	+	967.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 13 of 19)	intron (NM_001013771, intron 13 of 19)	62240.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	31.0	26.0	6.0	190.0	67.5	8.0	27.0	24.5
Merged-chr14-27045242-4	chr14	27045127	27045327	+	843.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134437, intron 1 of 12)	intron (NM_134437, intron 1 of 12)	6226.0	NM_134437	171463.0	Mm.206726	NM_027265	ENSMUSG00000040717	Il17rd	2810004A10Rik|AI428510|Sef|Sef-S	interleukin 17 receptor D	protein-coding	8.5	13.0	10.5	300.5	26.5	10.5	10.0	4.5
Merged-chr6-94962027-2	chr6	94961927	94962127	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18193.0	NR_040761	78773.0	Mm.67065	NR_040761	ENSMUSG00000108187	4930511E03Rik	-	RIKEN cDNA 4930511E03 gene	ncRNA	0.5	3.0	3.0	65.5	17.0	4.5	25.0	10.5
Merged-chr7-141176378-4	chr7	141176273	141176473	+	783.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3522.0	NM_001172100	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	6.0	18.5	5.0	125.5	39.5	9.0	10.0	16.0
Merged-chr13-23761987-2	chr13	23761887	23762087	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178192)	promoter-TSS (NM_178192)	399.0	NM_013550	360198.0	Mm.221301	NM_013550	ENSMUSG00000069265	Hist1h3a	-	histone cluster 1, H3a	protein-coding	14.0	19.0	11.5	74.5	36.0	31.0	28.5	26.5
Merged-chr4-132593092-4	chr4	132593010	132593210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29043.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	109.5	175.0	58.5	1014.5	237.0	104.0	63.0	75.5
Merged-chr4-155611507-3	chr4	155611414	155611614	+	657.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177186, intron 3 of 8)	intron (NM_177186, intron 3 of 8)	10098.0	NM_177186	320541.0	Mm.306018	NM_177186	ENSMUSG00000042202	Slc35e2	A530082C11Rik|AI957035	solute carrier family 35, member E2	protein-coding	2.5	13.0	2.5	77.5	10.0	5.0	14.5	7.0
Merged-chr3-135281210-3	chr3	135281124	135281324	+	648.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172055)	promoter-TSS (NM_001172055)	3.0	NM_027208	69772.0	Mm.45121	NM_027208	ENSMUSG00000028167	Bdh2	1810026B04Rik|Dhrs6	3-hydroxybutyrate dehydrogenase, type 2	protein-coding	10.0	5.5	4.0	113.5	15.5	6.0	15.0	6.0
Merged-chr7-127008897-4	chr7	127008801	127009001	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080638, intron 1 of 14)	intron (NM_080638, intron 1 of 14)	5693.0	NM_080638	78388.0	Mm.228797	NM_080638	ENSMUSG00000030681	Mvp	2310009M24Rik|LRP|VAULT1	major vault protein	protein-coding	37.0	69.5	31.5	549.5	62.5	48.0	33.5	21.5
Merged-chr16-32190371-4	chr16	32190289	32190489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	10589.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	141.0	211.5	101.0	1731.0	272.5	87.0	126.5	117.5
Merged-chr2-79107893-4	chr2	79107781	79107981	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147545.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	8.0	5.5	29.0	270.0	25.5	11.5	27.0	15.5
Merged-chr2-90589573-4	chr2	90589456	90589656	+	975.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8909.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	15.0	23.5	23.0	300.5	46.5	9.5	20.5	20.0
Merged-chr4-35994190-4	chr4	35994075	35994275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	MERVL_2A-int|LTR|ERVL	-148971.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	46.5	27.5	43.0	1306.5	90.5	25.5	46.0	27.0
Merged-chr10-61492269-4	chr10	61492183	61492383	+	952.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153542, intron 2 of 4)	intron (NM_153542, intron 2 of 4)	16450.0	NM_153542	216011.0	Mm.136116	NM_153542	ENSMUSG00000037151	Lrrc20	BC036304	leucine rich repeat containing 20	protein-coding	21.0	20.5	10.5	180.5	45.0	25.5	21.0	11.5
Merged-chr1-87853240-4	chr1	87853211	87853411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177646)	promoter-TSS (NM_177646)	24.0	NM_177646	227333.0	Mm.277217	NM_177646	ENSMUSG00000070738	Dgkd	AI841987|D330025K09|DGKdelta|dgkd-2	diacylglycerol kinase, delta	protein-coding	31.5	42.5	43.5	422.5	94.5	31.0	55.5	39.5
Merged-chr8-69654452-4	chr8	69654343	69654543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177527)	promoter-TSS (NM_001177527)	-113.0	NM_001177527	636741.0	Mm.480188	NM_001177527	ENSMUSG00000091764	Zfp964	4732490P12|EG636741|Gm7187	zinc finger protein 964	protein-coding	131.5	188.5	98.5	1702.5	192.0	87.0	98.5	70.0
Merged-chr2-165884757-4	chr2	165884656	165884856	+	981.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252584)	promoter-TSS (NM_001252584)	82.0	NM_001252584	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	11.0	33.5	23.0	231.0	90.5	30.5	23.5	46.5
Merged-chr1-170996995-4	chr1	170996904	170997104	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20933.0	NM_001077189	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	19.0	21.0	16.5	207.5	48.0	22.0	17.0	26.5
Merged-chr9-37421461-3	chr9	37421371	37421571	+	739.31665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164767, exon 16 of 28)	exon (NM_001164767, exon 16 of 28)	11704.0	NM_001164767	19649.0	Mm.212826	NM_011248	ENSMUSG00000032128	Robo3	Rbig1|Rig-1|Rig1|Robo3a|Robo3b	roundabout guidance receptor 3	protein-coding	10.5	7.5	5.5	148.5	8.0	2.0	6.0	1.5
Merged-chr10-91167074-4	chr10	91166973	91167173	+	813.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080129, intron 1 of 8)	B3|SINE|B2	3477.0	NM_001283048	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	7.0	7.5	10.0	91.5	29.5	12.0	10.5	5.5
Merged-chr8-88300436-4	chr8	88300330	88300530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037724, intron 3 of 27)	intron (NM_001037724, intron 3 of 27)	6226.0	NM_001037724	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	97.5	130.5	89.5	1827.0	231.0	64.5	101.5	101.0
Merged-chr11-86655802-4	chr11	86655715	86655915	+	906.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 5 of 11)	intron (NM_001356531, intron 5 of 11)	15460.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	13.0	22.0	5.5	264.5	22.5	7.5	9.5	17.5
Merged-chr11-76859451-4	chr11	76859351	76859551	+	980.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12443.0	NM_007754	12874.0	Mm.276736	NM_007754	ENSMUSG00000020841	Cpd	AA960140|AW322530|D830034L15Rik	carboxypeptidase D	protein-coding	28.0	30.0	28.0	304.5	39.0	19.5	16.5	24.0
Merged-chr14-121421682-4	chr14	121421579	121421779	+	868.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42449.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	13.5	22.0	14.0	330.0	23.5	13.0	13.5	12.0
Merged-chr11-83619212-3	chr11	83619116	83619316	+	962.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 5 of 8)	intron (NR_036453, intron 5 of 8)	-26129.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	19.5	18.0	5.5	198.5	15.0	4.0	10.0	6.5
Merged-chr5-135145775-4	chr5	135145701	135145901	+	762.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3910.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	10.0	18.0	10.0	165.0	28.5	12.5	9.5	23.0
Merged-chr17-79786861-4	chr17	79786775	79786975	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-71834.0	NM_009994	13078.0	Mm.214016	NM_009994	ENSMUSG00000024087	Cyp1b1	CP1B|P4501b1	cytochrome P450, family 1, subfamily b, polypeptide 1	protein-coding	14.0	33.5	23.5	318.5	40.0	4.5	17.0	6.0
Merged-chr12-100170493-4	chr12	100170392	100170592	+	895.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-10839.0	NM_183155	217827.0	Mm.224076	NM_183155	ENSMUSG00000021179	Nrde2	6720454P05Rik	nrde-2 necessary for RNA interference, domain containing	protein-coding	19.0	15.0	20.5	270.5	44.0	13.5	28.0	19.5
Merged-chr8-119807951-4	chr8	119807839	119808039	+	837.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29523.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	9.0	10.0	10.0	160.0	16.0	6.5	11.0	15.0
Merged-chr11-3178443-1	chr11	3178343	3178543	+	725.0	f0_balb.idr	intron (NM_030207, intron 5 of 32)	B2_Mm2|SINE|B2	15020.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	15.5	4.5	11.0	53.0	0.0	0.0	0.0	0.0
Merged-chr11-103249706-4	chr11	103249619	103249819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	17682.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	61.5	82.0	56.0	795.5	135.0	38.5	60.0	47.0
Merged-chr11-62007624-4	chr11	62007625	62007825	+	933.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310526, intron 1 of 7)	intron (NM_001310526, intron 1 of 7)	50962.0	NM_001310526	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	11.5	5.5	3.5	63.0	16.5	11.0	7.5	6.0
Merged-chr18-32833118-3	chr18	32832984	32833184	+	672.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045381, exon 2 of 5)	non-coding (NR_045381, exon 2 of 5)	-4141.0	NM_001110016	225348.0	Mm.38816	NM_144863	ENSMUSG00000038299	Wdr36	5730444A13Rik|Ta-wdrp	WD repeat domain 36	protein-coding	8.0	10.0	10.0	160.5	8.0	3.5	8.0	4.0
Merged-chr17-27790199-4	chr17	27790082	27790282	+	946.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033279, intron 2 of 4)	intron (NM_001033279, intron 2 of 4)	30360.0	NM_001033279	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	12.0	16.5	13.5	357.5	45.5	7.5	13.5	18.5
Merged-chr8-126929695-4	chr8	126929600	126929800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_024214)	TTS (NM_024214)	16221.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	38.5	131.5	56.0	529.0	137.5	49.5	43.0	45.5
Merged-chr18-80464916-4	chr18	80464827	80465027	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 1 of 12)	RLTR12B|LTR|ERVK	4740.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	35.5	50.5	26.0	240.0	78.0	47.5	26.5	22.5
Merged-chr3-123256876-4	chr3	123256766	123256966	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-10630.0	NM_027135	69608.0	Mm.29293	NM_027135	ENSMUSG00000039234	Sec24d	2310020L09Rik|Gm1349	Sec24 related gene family, member D (S. cerevisiae)	protein-coding	24.0	74.0	24.0	340.5	135.0	45.0	77.0	24.0
Merged-chr17-3224624-4	chr17	3224528	3224728	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101945.0	NM_001122998	24001.0	Mm.137134	NM_011878	ENSMUSG00000023800	Tiam2	3000002F19Rik|STEF|mKIAA2016	T cell lymphoma invasion and metastasis 2	protein-coding	14.0	21.0	11.5	177.5	34.5	10.5	19.5	10.5
Merged-chr11-74988287-4	chr11	74988178	74988378	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 9 of 18)	intron (NM_001002764, intron 9 of 18)	62406.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	14.5	27.5	37.0	335.5	46.0	9.0	30.5	18.0
Merged-chr1-35972411-4	chr1	35972331	35972531	+	917.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95969.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	12.5	13.5	18.5	428.5	26.5	20.5	18.0	12.0
Merged-chr1-37322996-3	chr1	37322874	37323074	+	675.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	MIRc|SINE|MIR	23136.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	6.0	10.0	9.0	124.5	2.5	1.5	5.5	10.0
Merged-chr11-54140250-4	chr11	54140157	54140357	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	39333.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	45.5	25.5	66.0	429.0	23.0	16.0	13.5	27.0
Merged-chr9-70851975-4	chr9	70851863	70852063	+	896.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	82845.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	11.5	16.5	11.0	268.5	31.0	13.5	6.5	11.5
Merged-chr9-88966284-4	chr9	88966163	88966363	+	872.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	9343.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	7.0	23.5	29.5	53.5	34.0	10.0	17.5	13.5
Merged-chr5-16552801-4	chr5	16552706	16552906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010427)	promoter-TSS (NM_010427)	-689.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	217.0	336.0	295.5	4816.0	650.0	206.0	348.0	311.0
Merged-chr10-127381144-4	chr10	127381072	127381272	+	935.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359244, intron 1 of 25)	intron (NM_001359244, intron 1 of 25)	504.0	NM_001359244	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	24.0	22.0	12.5	195.5	41.5	11.5	13.5	13.5
Merged-chr2-122743114-4	chr2	122742998	122743198	+	933.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019788, intron 2 of 4)	intron (NM_019788, intron 2 of 4)	4593.0	NM_019788	18457.0	Mm.268921	NM_019788	ENSMUSG00000005804	Bloc1s6	BLOC-1|Pldn|Stx13bp1|pa	biogenesis of lysosomal organelles complex-1, subunit 6, pallidin	protein-coding	16.5	63.5	16.5	154.0	75.0	28.0	11.5	20.0
Merged-chr11-54755672-3	chr11	54755487	54755687	+	935.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 2 of 5)	intron (NM_178626, intron 2 of 5)	32116.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	4.5	10.5	8.0	166.5	11.0	4.5	10.0	9.5
Merged-chr6-145835572-3	chr6	145835460	145835660	+	931.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27177.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	10.5	8.5	9.0	203.5	13.0	0.0	6.0	5.5
Merged-chr2-31447705-4	chr2	31447588	31447788	+	930.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22582.0	NM_007494	11898.0	Mm.3217	NM_007494	ENSMUSG00000076441	Ass1	AA408052|ASS|Ass-1|fold	argininosuccinate synthetase 1	protein-coding	14.0	40.0	9.0	186.5	76.0	27.5	14.5	25.5
Merged-chr5-121196964-4	chr5	121196854	121197054	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5557.0	NM_011202	19247.0	Mm.8681	NM_011202	ENSMUSG00000043733	Ptpn11	2700084A17Rik|AW536184|PTP1D|PTP2C|SAP-2|SH-PTP2|SH-PTP3|SHP-2|Shp2|Syp	protein tyrosine phosphatase, non-receptor type 11	protein-coding	31.5	46.0	18.0	203.5	75.5	24.5	28.5	25.0
Merged-chr4-148604965-1	chr4	148604865	148605065	+	642.0	f0_balb.idr	TTS (NM_010767)	TTS (NM_010767)	2421.0	NM_001003893	17175.0	Mm.378962	NM_010767	ENSMUSG00000028979	Masp2	MASP-2|MAp19	mannan-binding lectin serine peptidase 2	protein-coding	2.5	6.5	7.5	76.5	8.0	6.5	13.0	8.0
Merged-chr19-3719605-4	chr19	3719562	3719762	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11251.0	NM_001358257	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	20.0	21.0	4.5	187.5	31.5	12.5	12.0	12.0
Merged-chr5-137338417-4	chr5	137338314	137338514	+	802.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1554.0	NM_001359611	83704.0	Mm.235625	NM_031406	ENSMUSG00000037344	Slc12a9	CIP1	solute carrier family 12 (potassium/chloride transporters), member 9	protein-coding	6.0	11.5	5.5	97.5	28.5	9.5	20.0	6.0
Merged-chr2-32507305-4	chr2	32507214	32507414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28045.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	44.5	80.0	83.0	1381.5	127.0	39.5	62.0	67.5
Merged-chr1-131260539-2	chr1	131260439	131260639	+	996.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_019777, intron 16 of 21)	intron (NM_019777, intron 16 of 21)	-15361.0	NM_018750	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	1.5	1.0	3.0	63.5	9.5	6.0	6.5	5.5
Merged-chr3-135470145-2	chr3	135470045	135470245	+	712.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15466.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	7.0	4.0	7.0	201.5	11.0	10.5	7.0	4.5
Merged-chr6-48841413-4	chr6	48841319	48841519	+	960.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164209)	promoter-TSS (NM_001164209)	-45.0	NM_001164208	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	21.0	23.5	20.5	276.0	56.5	13.5	29.0	23.0
Merged-chr4-36183930-4	chr4	36183841	36184041	+	935.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 4 of 8)	intron (NM_001166000, intron 4 of 8)	-338737.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	20.5	28.0	25.0	503.5	31.0	14.0	19.5	19.0
Merged-chr6-116016539-3	chr6	116016445	116016645	+	799.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21540.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	8.0	11.0	18.0	136.5	9.5	6.5	6.0	8.5
Merged-chr7-105581325-4	chr7	105581223	105581423	+	929.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001253886, exon 1 of 14)	5' UTR (NM_001253886, exon 1 of 14)	168.0	NM_001253885	11785.0	Mm.38469	NM_009685	ENSMUSG00000037032	Apbb1	Fe65|Rir	amyloid beta (A4) precursor protein-binding, family B, member 1	protein-coding	13.0	15.0	16.5	174.5	12.5	12.0	12.5	19.0
Merged-chr4-86676850-3	chr4	86676767	86676967	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR34B_MM|LTR|ERVK	-6808.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	5.0	3.0	0.0	42.0	53.5	19.5	22.5	27.0
Merged-chr10-71346871-4	chr10	71346767	71346967	+	859.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347191)	promoter-TSS (NM_001347191)	-896.0	NM_001347191	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	1.5	8.5	11.5	311.0	24.0	8.0	4.5	6.5
Merged-chr14-66272264-2	chr14	66272151	66272351	+	686.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	8801.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	2.5	2.5	2.5	37.0	11.0	5.0	5.0	4.5
Merged-chr2-165885234-1	chr2	165885134	165885334	+	647.0	f0_c57.idr	promoter-TSS (NM_001252584)	promoter-TSS (NM_001252584)	-396.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	4.0	5.5	5.5	57.0	14.5	11.5	6.0	21.5
Merged-chr9-4319525-4	chr9	4319414	4319614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164574, intron 2 of 2)	B1F|SINE|Alu	9698.0	NM_026962	69149.0	Mm.25946	NM_026962	ENSMUSG00000025893	Kbtbd3	2200003A07Rik|Bklhd3	kelch repeat and BTB (POZ) domain containing 3	protein-coding	38.5	108.5	83.0	1193.5	134.5	59.0	85.0	45.5
Merged-chr2-34906987-4	chr2	34906887	34907087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028716, intron 4 of 14)	intron (NM_028716, intron 4 of 14)	6989.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	127.0	207.5	115.5	1691.5	247.0	92.5	166.5	117.0
Merged-chr5-118645386-2	chr5	118645291	118645491	+	927.3333130000001	f0_c57.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	84672.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	0.5	2.0	1.0	9.0	29.0	6.0	21.0	20.5
Merged-chr1-156672923-4	chr1	156672802	156673002	+	963.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023141, intron 2 of 5)	RMER17C|LTR|ERVK	1437.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	45.5	32.0	29.0	555.5	62.0	16.5	22.5	14.0
Merged-chr9-21412431-2	chr9	21412331	21412531	+	880.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045742)	promoter-TSS (NR_045742)	594.0	NM_021888	60507.0	Mm.436579	NM_021888	ENSMUSG00000002825	Qtrt1	2610028E17Rik|Tgt	queuine tRNA-ribosyltransferase catalytic subunit 1	protein-coding	5.0	7.5	9.0	59.0	21.0	8.0	2.0	14.5
Merged-chr8-94601842-4	chr8	94601749	94601949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026274)	promoter-TSS (NM_026274)	-92.0	NM_001359093	67610.0	Mm.109074	NM_026274	ENSMUSG00000050079	Rspry1	4930470D19Rik|AI608258	ring finger and SPRY domain containing 1	protein-coding	332.0	539.5	374.0	5458.0	798.0	335.0	362.5	361.5
Merged-chr7-132803722-3	chr7	132803616	132803816	+	758.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	9480.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	6.0	6.5	8.5	151.5	1.5	3.0	5.0	4.5
Merged-chr4-150891480-4	chr4	150891380	150891580	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	18441.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	15.0	41.0	27.0	251.0	40.0	5.5	7.0	13.0
Merged-chr13-6548140-4	chr13	6548054	6548254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145131)	promoter-TSS (NM_145131)	-3.0	NM_145131	69617.0	Mm.41933	NM_145131	ENSMUSG00000021193	Pitrm1	2310012C15Rik|AA410010|MP-1|MP1|Ntup1|PreP|mKIAA1104	pitrilysin metallepetidase 1	protein-coding	353.0	571.5	455.0	6908.0	941.5	295.5	552.5	290.5
Merged-chr4-5692448-4	chr4	5692362	5692562	+	900.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173426, intron 1 of 2)	MMERVK9C_I-int|LTR|ERVK	-31850.0	NM_001355716	242297.0	Mm.331470	NM_173426	ENSMUSG00000049119	Fam110b	1700012H17Rik|5031405P22|AW049855	family with sequence similarity 110, member B	protein-coding	21.0	16.0	21.0	326.0	29.0	9.5	14.0	18.5
Merged-chr6-58596535-4	chr6	58596435	58596635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011920)	promoter-TSS (NM_011920)	-137.0	NM_011920	26357.0	Mm.333096	NM_011920	ENSMUSG00000029802	Abcg2	ABC15|ABCP|AI428558|BCRP|Bcrp1|MXR|MXR1	ATP binding cassette subfamily G member 2 (Junior blood group)	protein-coding	48.0	66.0	43.0	808.0	112.0	37.0	50.5	34.5
Merged-chr1-111864257-1	chr1	111864157	111864357	+	943.0	f0_c57.idr	5' UTR (NM_001081316, exon 1 of 2)	5' UTR (NM_001081316, exon 1 of 2)	661.0	NM_001081316	319901.0	Mm.103468	NM_001081316	ENSMUSG00000038702	Dsel	9330132E09Rik|DS-epi2	dermatan sulfate epimerase-like	protein-coding	13.5	19.0	16.5	300.0	34.5	17.0	14.0	21.5
Merged-chr11-109244775-3	chr11	109244656	109244856	+	823.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165934, intron 13 of 16)	intron (NM_001165934, intron 13 of 16)	53425.0	NM_001165934	19739.0	Mm.38548	NM_011268	ENSMUSG00000020599	Rgs9	RGS9-1|Rgs9-2	regulator of G-protein signaling 9	protein-coding	8.5	8.5	5.0	64.0	23.5	8.0	13.0	17.0
Merged-chr16-38395311-4	chr16	38395202	38395402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_134102)	TTS (NM_134102)	33112.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	43.5	45.0	58.5	705.0	158.0	58.0	69.5	49.5
Merged-chr3-94933023-4	chr3	94932954	94933154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009150)	promoter-TSS (NM_009150)	-29.0	NM_009150	20341.0	Mm.196558	NM_009150	ENSMUSG00000068874	Selenbp1	Lp56|Lpsb|MTO|SBP56	selenium binding protein 1	protein-coding	36.5	48.0	40.0	399.5	46.0	15.5	25.5	28.5
Merged-chr6-117828487-3	chr6	117828357	117828557	+	623.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12724.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	9.5	8.5	10.0	107.0	14.5	6.5	2.0	5.5
Merged-chr7-24442482-4	chr7	24442362	24442562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199013, intron 1 of 2)	intron (NM_199013, intron 1 of 2)	3220.0	NM_199013	210145.0	Mm.33811	NM_199013	ENSMUSG00000062028	Irgc1	F630044M05Rik|Gm1102|Gm474|Ifgge|Iigp5|Irgc	immunity-related GTPase family, cinema 1	protein-coding	107.5	149.5	83.0	1473.0	179.0	61.0	92.0	75.0
Merged-chr4-150917869-2	chr4	150917769	150917969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2286.0	NM_011612	21942.0	Mm.244187	NM_011612	ENSMUSG00000028965	Tnfrsf9	4-1BB|A930040I11Rik|AA408498|AI325004|CDw137|Cd137|ILA|Ly63	tumor necrosis factor receptor superfamily, member 9	protein-coding	1.0	8.0	10.0	53.5	15.0	5.0	14.5	8.0
Merged-chr4-131913412-1	chr4	131913312	131913512	+	724.0	f0_balb.idr	non-coding (NR_102394, exon 3 of 3)	non-coding (NR_102394, exon 3 of 3)	6617.0	NR_102394	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	5.5	5.5	7.5	164.5	2.0	1.5	0.0	2.0
Merged-chr3-87561749-4	chr3	87561657	87561857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36179.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	34.0	70.0	25.0	465.0	72.0	33.0	40.0	37.0
Merged-chr6-38338175-4	chr6	38338063	38338263	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 2 of 8)	intron (NM_028864, intron 2 of 8)	16440.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	19.5	30.0	12.5	292.0	78.5	18.0	31.0	14.5
Merged-chr3-136790339-1	chr3	136790239	136790439	+	793.0	f0_balb.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	120273.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	4.5	17.5	6.5	165.5	16.0	7.0	5.0	7.5
Merged-chr2-6380101-4	chr2	6379997	6380197	+	916.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 1 of 13)	intron (NM_181399, intron 1 of 13)	27361.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	19.5	20.0	25.5	281.5	25.0	10.5	7.5	17.5
Merged-chr11-4266801-3	chr11	4266671	4266871	+	746.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039537)	promoter-TSS (NM_001039537)	-25.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	12.5	19.5	5.5	142.0	17.0	10.0	4.0	7.0
Merged-chr2-180257289-4	chr2	180257189	180257389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025587)	promoter-TSS (NM_025587)	-90.0	NM_025587	66481.0	Mm.289669	NM_025587	ENSMUSG00000039001	Rps21	1810049N11Rik|2410030A14Rik	ribosomal protein S21	protein-coding	330.5	423.5	247.0	3562.5	654.0	300.0	313.5	276.0
Merged-chr5-32761861-3	chr5	32761777	32761977	+	946.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177298, intron 3 of 7)	ORR1B1-int|LTR|ERVL-MaLR	-15535.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	0.5	0.0	5.0	15.0	49.0	13.0	30.0	15.0
Merged-chr17-71187906-3	chr17	71187775	71187975	+	857.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	3897.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	8.0	7.5	6.5	51.0	30.5	9.0	6.5	4.5
Merged-chr8-75093615-4	chr8	75093514	75093714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010442)	promoter-TSS (NM_010442)	-4.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	167.0	287.0	162.5	2033.0	467.0	172.0	236.0	155.5
Merged-chr5-77354692-4	chr5	77354551	77354751	+	931.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159518, intron 3 of 5)	intron (NM_001159518, intron 3 of 5)	44167.0	NM_153798	231329.0	Mm.273217	NM_153798	ENSMUSG00000029250	Polr2b	Pol2rb|Rpb140|Rpb2	polymerase (RNA) II (DNA directed) polypeptide B	protein-coding	19.5	21.5	7.5	305.5	34.0	14.0	14.0	15.0
Merged-chr3-69114805-2	chr3	69114705	69114905	+	716.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008467, intron 1 of 16)	intron (NM_008467, intron 1 of 16)	12287.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	7.0	8.5	7.0	171.0	13.5	2.5	6.5	11.5
Merged-chr6-5093813-4	chr6	5093713	5093913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 6 of 15)	MLT1F2|LTR|ERVL-MaLR	100133.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	109.5	140.0	135.5	2471.5	266.0	79.0	137.0	132.5
Merged-chr19-9991469-4	chr19	9991349	9991549	+	924.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011913, intron 6 of 11)	ID_B1|SINE|B4	8803.0	NM_010239	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	5.5	25.0	8.5	110.0	22.5	5.5	7.5	13.5
Merged-chr11-103233121-4	chr11	103233011	103233211	+	899.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 6 of 15)	intron (NM_016896, intron 6 of 15)	-14679.0	NM_177801	328019.0	Mm.189646	NM_177801	ENSMUSG00000044787	Spata32	4933400C05Rik|VAD1.2	spermatogenesis associated 32	protein-coding	15.5	16.5	6.5	134.5	41.0	10.5	6.5	14.0
Merged-chr16-22446091-4	chr16	22446015	22446215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6545.0	NM_023794	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	27.0	29.0	26.0	236.0	51.0	20.5	14.5	33.0
Merged-chr17-21423199-4	chr17	21423106	21423306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011760)	promoter-TSS (NM_011760)	-21.0	NM_011760	22712.0	Mm.12916	NM_011760	ENSMUSG00000023882	Zfp54	2810034D10Rik|KRAB10|Zfp-54|Zfp76|mszf83	zinc finger protein 54	protein-coding	34.5	43.0	60.0	680.5	105.0	39.5	101.0	50.0
Merged-chr16-57215714-4	chr16	57215566	57215766	+	918.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 2 of 17)	intron (NM_026254, intron 2 of 17)	-14195.0	NM_001358434	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	11.5	3.5	16.5	119.5	17.0	6.5	12.5	11.0
Merged-chr1-172643808-4	chr1	172643684	172643884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H2-int|LTR|ERVL-MaLR	-10810.0	NM_026725	68440.0	Mm.33024	NM_026725	ENSMUSG00000026544	Dusp23	1300005N15Rik|LDP-3	dual specificity phosphatase 23	protein-coding	70.5	218.0	65.0	935.0	299.5	137.5	122.5	87.5
Merged-chr3-95625314-4	chr3	95625202	95625402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001026212, intron 1 of 2)	intron (NM_001026212, intron 1 of 2)	322.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	228.0	329.5	188.5	3498.5	494.0	215.0	258.5	217.0
Merged-chr5-151333290-4	chr5	151333199	151333399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35376.0	NR_045700	625175.0	Mm.443286	NR_045699	ENSMUSG00000097321	1700028E10Rik	A630054D14|Gm6561	RIKEN cDNA 1700028E10 gene	ncRNA	77.0	105.5	90.5	1458.0	292.0	103.5	86.0	104.5
Merged-chr4-32239999-4	chr4	32239912	32240112	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-177423.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	11.0	17.5	32.5	321.0	29.0	10.5	22.0	20.0
Merged-chr5-30036123-4	chr5	30036003	30036203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	22989.0	NM_031168	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	57.0	114.0	70.0	590.0	82.5	51.5	35.0	48.0
Merged-chr10-41888581-4	chr10	41888484	41888684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013370, intron 1 of 9)	intron (NM_001013370, intron 1 of 9)	1145.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	24.5	26.0	18.5	301.0	47.0	22.0	22.5	12.5
Merged-chr11-97801180-4	chr11	97801095	97801295	+	947.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 1 of 6)	intron (NM_010688, intron 1 of 6)	1630.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	13.5	10.0	11.5	142.5	43.5	14.0	9.0	5.5
Merged-chr10-77417839-2	chr10	77417739	77417939	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027377)	promoter-TSS (NR_027377)	434.0	NM_130895	110532.0	Mm.276815	NM_130895	ENSMUSG00000020262	Adarb1	1700057H01Rik|AW124433|AW558573|Adar2|BB220382|D10Bwg0447e|Red1	adenosine deaminase, RNA-specific, B1	protein-coding	11.0	9.0	15.0	89.0	19.5	6.5	9.0	14.0
Merged-chr10-12923193-4	chr10	12923093	12923293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038027)	promoter-TSS (NR_038027)	-66.0	NR_038028	320273.0	Mm.417706	NR_038027	ENSMUSG00000097378	B230208H11Rik	-	RIKEN cDNA B230208H11 gene	ncRNA	30.5	48.0	27.5	505.5	45.5	19.5	27.5	28.0
Merged-chr1-40116616-4	chr1	40116526	40116726	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010555, intron 5 of 8)	intron (NM_010555, intron 5 of 8)	30533.0	NM_001360800	16178.0	Mm.1349	NM_010555	ENSMUSG00000026073	Il1r2	CD121b|Il1r-2	interleukin 1 receptor, type II	protein-coding	22.0	33.5	15.0	325.5	49.0	27.0	26.0	20.5
Merged-chr7-121080888-4	chr7	121080766	121080966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-2572.0	NM_139310	246190.0	Mm.221073	NM_139310	ENSMUSG00000034990	Otoa	-	otoancorin	protein-coding	46.5	59.0	41.5	594.0	138.5	35.0	31.5	32.5
Merged-chr8-82383492-4	chr8	82383406	82383606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	19080.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	94.0	150.0	129.0	1484.5	171.0	73.0	75.0	42.0
Merged-chr3-41566171-4	chr3	41566048	41566248	+	986.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130186, intron 1 of 10)	CpG	1268.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	14.0	35.5	18.5	389.5	47.5	15.5	28.5	16.5
Merged-chr10-55980376-3	chr10	55980287	55980487	+	813.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126530.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	4.5	5.0	10.5	94.5	13.5	5.5	4.5	7.0
Merged-chr15-38518334-4	chr15	38518229	38518429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301688, intron 1 of 11)	CpG	937.0	NM_001301688	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	343.5	516.0	409.5	5466.5	818.5	360.0	455.5	360.0
Merged-chr4-141664187-4	chr4	141664086	141664286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033150)	promoter-TSS (NM_001033150)	-71.0	NM_001033150	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	14.0	32.5	21.0	389.5	51.5	18.0	26.0	25.5
Merged-chr3-88618319-4	chr3	88618222	88618422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198911, intron 2 of 22)	intron (NM_001198911, intron 2 of 22)	2115.0	NM_001198911	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	70.5	152.0	94.0	1627.5	192.5	73.0	106.0	108.0
Merged-chr1-143992752-4	chr1	143992760	143992960	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	11289.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	20.5	16.0	17.0	211.5	31.5	8.0	12.5	9.5
Merged-chr12-51835247-3	chr12	51835166	51835366	+	638.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5730.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	11.0	7.0	9.5	164.5	2.0	2.0	3.0	4.0
Merged-chr4-129346713-4	chr4	129346576	129346776	+	828.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025970, intron 6 of 6)	intron (NM_025970, intron 6 of 6)	10650.0	NM_025970	67106.0	Mm.36575	NM_025970	ENSMUSG00000057572	Zbtb8os	2010001H09Rik|2310028N13Rik|AI851226|Arch|Archm	zinc finger and BTB domain containing 8 opposite strand	protein-coding	8.5	14.0	10.5	62.5	37.5	7.5	8.0	12.0
Merged-chr14-101608828-4	chr14	101608708	101608908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081278, exon 1 of 19)	5' UTR (NM_001081278, exon 1 of 19)	383.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	27.5	21.0	46.0	502.0	59.5	11.5	27.5	27.5
Merged-chr19-9953005-4	chr19	9952901	9953101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27599.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	24.5	25.0	26.0	246.5	103.0	28.0	28.5	34.0
Merged-chr11-94413213-4	chr11	94413123	94413323	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009783, intron 33 of 35)	intron (NM_009783, intron 33 of 35)	-20247.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	39.5	26.0	45.0	661.5	45.5	5.5	21.0	17.0
Merged-chr3-105047036-4	chr3	105046950	105047150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 1 of 5)	intron (NM_030249, intron 1 of 5)	5903.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	226.5	305.0	266.0	3131.5	433.0	194.0	216.5	212.0
Merged-chr17-70967832-4	chr17	70967730	70967930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22686.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	102.5	210.5	167.0	1787.5	364.5	121.5	183.5	131.5
Merged-chr3-32421264-3	chr3	32421158	32421358	+	841.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14893.0	NM_008839	18706.0	Mm.260521	NM_008839	ENSMUSG00000027665	Pik3ca	6330412C24Rik|caPI3K|p110|p110alpha	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	protein-coding	10.5	6.5	9.0	257.5	22.5	6.0	4.5	8.5
Merged-chr16-3894931-4	chr16	3894850	3895050	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_153801)	TTS (NR_153801)	10331.0	NM_001290689	74763.0	Mm.28403	NM_029090	ENSMUSG00000005982	Naa60	1200013P24Rik|AI315146|HAT4|Nat15|NatF	N(alpha)-acetyltransferase 60, NatF catalytic subunit	protein-coding	25.5	27.5	53.0	649.5	51.5	12.5	27.5	27.0
Merged-chr8-3676985-2	chr8	3676885	3677085	+	968.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025701, intron 1 of 1)	intron (NM_025701, intron 1 of 1)	508.0	NM_025701	66682.0	Mm.29090	NM_025701	ENSMUSG00000040236	Trappc5	4021401A16Rik|TRS31	trafficking protein particle complex 5	protein-coding	8.0	7.5	2.5	53.0	23.5	5.0	5.0	17.5
Merged-chr6-73248497-4	chr6	73248415	73248615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019879)	promoter-TSS (NM_019879)	10.0	NM_019879	56451.0	Mm.29845	NM_019879	ENSMUSG00000052738	Suclg1	1500000I01Rik|Sucla1	succinate-CoA ligase, GDP-forming, alpha subunit	protein-coding	92.5	129.0	136.0	1146.0	176.0	61.0	56.0	76.0
Merged-chr2-32575032-4	chr2	32574960	32575160	+	829.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198191)	promoter-TSS (NM_198191)	-658.0	NM_198191	227733.0	Mm.78923	NM_198191	ENSMUSG00000046854	Pip5kl1	BC028795	phosphatidylinositol-4-phosphate 5-kinase-like 1	protein-coding	9.5	32.0	7.0	102.0	8.0	10.5	8.0	16.5
Merged-chr5-112279578-4	chr5	112279483	112279683	+	871.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	2892.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	13.0	47.5	10.0	147.5	50.0	19.5	11.0	12.0
Merged-chr10-125273820-3	chr10	125273747	125273947	+	864.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	intron (NM_001358496, intron 3 of 5)	34969.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	15.5	5.0	9.0	202.0	23.0	3.5	8.5	5.5
Merged-chr6-42352115-4	chr6	42352074	42352274	+	936.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289618, intron 4 of 9)	intron (NM_001289618, intron 4 of 9)	2346.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	14.0	11.5	10.0	175.5	21.5	8.5	15.5	18.5
Merged-chr8-53627143-4	chr8	53627011	53627211	+	803.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146208, intron 1 of 9)	RLTR25B|LTR|ERVK	11954.0	NM_146208	234258.0	Mm.281749	NM_146208	ENSMUSG00000039396	Neil3	AI449477|BC034753|C85903	nei like 3 (E. coli)	protein-coding	13.0	6.0	7.0	66.5	28.5	12.5	11.5	7.5
Merged-chr7-113369895-4	chr7	113369789	113369989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133700)	promoter-TSS (NM_133700)	-550.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	45.5	38.0	28.5	343.0	53.5	30.0	27.5	26.5
Merged-chr10-127123622-4	chr10	127123511	127123711	+	760.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2451.0	NM_001171026	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	4.5	12.5	3.5	143.0	17.0	9.5	8.0	10.5
Merged-chr3-89308304-4	chr3	89308187	89308387	+	749.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14592.0	NM_010108	13638.0	Mm.331159	NM_010108	ENSMUSG00000028039	Efna3	AW494418|EFL-2|Ehk1-L|Epl3|LERK-3	ephrin A3	protein-coding	6.0	24.0	3.0	150.5	22.5	11.0	12.5	16.0
Merged-chr15-59951091-4	chr15	59950994	59951194	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	65524.0	NM_027668	71088.0	Mm.425950	NM_027668	ENSMUSG00000071749	4933412E24Rik	-	RIKEN cDNA 4933412E24 gene	protein-coding	20.0	9.0	16.0	195.0	25.0	9.0	14.5	18.0
Merged-chr19-55702936-4	chr19	55702828	55703028	+	922.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045318)	promoter-TSS (NR_045318)	-724.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	13.5	18.5	15.5	241.5	34.5	19.0	13.5	16.5
Merged-chr10-67036372-4	chr10	67036294	67036494	+	915.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 3 of 7)	intron (NM_178606, intron 3 of 7)	31319.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	18.5	14.0	10.0	208.5	28.0	14.0	23.5	10.0
Merged-chr5-115542872-4	chr5	115542762	115542962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	-16605.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	30.0	27.0	25.5	550.5	88.0	35.0	21.0	32.0
Merged-chr11-97986475-4	chr11	97986362	97986562	+	833.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028199)	promoter-TSS (NM_028199)	-16.0	NM_001163608	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	10.5	16.5	7.5	103.5	34.5	9.5	11.5	18.0
Merged-chr2-156181518-4	chr2	156181427	156181627	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-1289.0	NM_133242	170791.0	Mm.392436	NM_133242	ENSMUSG00000027620	Rbm39	1500012C14Rik|2310040E03Rik|B330012G18Rik|C79248|R75070|Rnpc2|caper	RNA binding motif protein 39	protein-coding	23.5	82.0	44.0	398.5	58.0	18.0	17.0	28.5
Merged-chr1-152019301-4	chr1	152019198	152019398	+	989.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	intron (NM_197990, intron 1 of 5)	71022.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	26.5	38.0	22.0	485.5	59.5	19.5	13.0	21.5
Merged-chr11-69554898-4	chr11	69554769	69554969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007911, exon 5 of 5)	3' UTR (NM_007911, exon 5 of 5)	5368.0	NM_007911	13643.0	Mm.249637	NM_007911	ENSMUSG00000003934	Efnb3	EFL-6|ELF-3|Elk-L3|Epl8|LERK-8|NLERK-2	ephrin B3	protein-coding	102.0	165.0	94.5	1136.5	200.5	90.0	82.0	72.5
Merged-chr17-26973119-4	chr17	26973026	26973226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005916)	promoter-TSS (NM_001005916)	-53.0	NM_001005916	474156.0	Mm.328890	NM_001005916	ENSMUSG00000079605	Zbtb9	3930402F13Rik	zinc finger and BTB domain containing 9	protein-coding	198.0	262.0	148.5	2672.0	484.0	165.0	201.5	152.0
Merged-chr2-58156015-14	chr2	58155913	58156113	+	914.630981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139200, intron 1 of 7)	(T)n|Simple_repeat|Simple_repeat	4109.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	6.5	7.0	7.5	107.0	20.0	7.5	4.5	17.5
Merged-chr5-142394814-4	chr5	142394718	142394918	+	904.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-6679.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	9.0	38.0	18.0	125.0	31.0	22.5	13.5	13.0
Merged-chr18-23888080-4	chr18	23887987	23888187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 7 of 7)	intron (NM_001162941, intron 7 of 7)	-66601.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	97.0	74.5	116.0	1951.0	41.0	33.5	27.0	22.0
Merged-chr3-96172475-4	chr3	96172405	96172605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153053)	promoter-TSS (NM_153053)	-1.0	NM_153053	107701.0	Mm.219671	NM_153053	ENSMUSG00000068856	Sf3b4	SF3b49|SF3b50|Sap49	splicing factor 3b, subunit 4	protein-coding	65.5	73.5	50.0	943.5	191.5	85.5	79.5	75.0
Merged-chr12-17253283-4	chr12	17253235	17253435	+	880.9541630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13260.0	NM_027959	71853.0	Mm.222825	NM_027959	ENSMUSG00000020571	Pdia6	1700015E05Rik|AL023058|C77895|CaBP5|P5|Txndc7	protein disulfide isomerase associated 6	protein-coding	8.0	12.0	16.0	60.0	26.0	8.5	7.5	8.5
Merged-chr4-108619964-4	chr4	108619870	108620070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177045)	promoter-TSS (NM_177045)	14.0	NM_177045	319965.0	Mm.151129	NM_177045	ENSMUSG00000028582	Cc2d1b	A830039B04Rik|Freud2	coiled-coil and C2 domain containing 1B	protein-coding	75.0	111.5	77.5	1203.0	193.5	82.0	98.0	91.0
Merged-chr10-87753737-4	chr10	87753651	87753851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104514.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	73.5	163.0	91.0	783.0	237.5	104.0	60.0	50.0
Merged-chr10-127607261-4	chr10	127607162	127607362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 4 of 88)	L1ME3G|LINE|L1	13886.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	72.5	74.0	133.0	1025.5	100.5	35.0	37.0	36.0
Merged-chr16-91789915-4	chr16	91789802	91790002	+	992.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 4 of 15)	ORR1D2|LTR|ERVL-MaLR	60531.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	23.5	27.0	15.0	498.0	59.5	14.0	16.0	19.0
Merged-chr3-54806561-3	chr3	54806469	54806669	+	937.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133231, intron 1 of 2)	intron (NM_133231, intron 1 of 2)	1222.0	NM_133231	170767.0	Mm.185735	NM_133231	ENSMUSG00000036615	Rfxap	5730495K23Rik	regulatory factor X-associated protein	protein-coding	14.5	17.0	23.0	243.5	46.5	7.0	8.0	10.0
Merged-chr12-12323775-4	chr12	12323691	12323891	+	885.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 2 of 11)	intron (NM_001146119, intron 2 of 11)	61652.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	15.5	14.5	11.5	262.5	9.0	9.0	9.0	14.5
Merged-chr16-45038439-2	chr16	45038349	45038549	+	614.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B2|LTR|ERVL	-55562.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	8.5	6.5	8.5	94.0	5.5	1.0	2.5	3.0
Merged-chr7-16453421-4	chr7	16453348	16453548	+	854.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026938, intron 1 of 2)	intron (NM_026938, intron 1 of 2)	669.0	NM_026938	69094.0	Mm.29633	NM_026938	ENSMUSG00000019158	Tmem160	1810008O21Rik	transmembrane protein 160	protein-coding	4.0	3.5	12.5	89.0	16.5	7.5	7.5	18.0
Merged-chr16-25967500-3	chr16	25967393	25967593	+	628.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173379, intron 13 of 14)	intron (NM_173379, intron 13 of 14)	138291.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	10.0	11.5	8.0	73.0	14.5	7.0	9.0	7.0
Merged-chr13-112509652-3	chr13	112509587	112509787	+	866.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45617.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	8.0	5.5	5.5	74.0	14.0	8.5	11.0	13.0
Merged-chr6-127453672-4	chr6	127453577	127453777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346512)	promoter-TSS (NM_001346512)	50.0	NM_001346512	101187.0	Mm.110818	NM_181402	ENSMUSG00000037997	Parp11	5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11	poly (ADP-ribose) polymerase family, member 11	protein-coding	46.0	95.5	77.5	669.0	123.5	56.0	55.5	44.0
Merged-chr8-92356095-4	chr8	92355963	92356163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033641)	promoter-TSS (NR_033641)	57.0	NR_110452	71296.0	Mm.86664	NR_033641	ENSMUSG00000031736	Crnde	4933436C20Rik	colorectal neoplasia differentially expressed (non-protein coding)	ncRNA	69.5	97.5	128.0	1176.5	120.5	55.5	68.5	87.0
Merged-chr5-139449292-4	chr5	139449207	139449407	+	875.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	11227.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	11.0	5.0	10.5	286.5	27.5	10.5	12.5	18.0
Merged-chr3-133583039-4	chr3	133582843	133583043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38553.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	58.5	64.5	44.5	848.0	149.0	59.0	63.0	52.0
Merged-chr2-74578976-4	chr2	74578882	74579082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027133)	promoter-TSS (NM_027133)	-34.0	NM_027133	69605.0	Mm.156113	NM_027133	ENSMUSG00000009207	Lnpk	2310011O18Rik|4921514L11Rik|9530051D01Rik|AI666268|Lnp|Lnpk1|Ul|ulnaless	lunapark, ER junction formation factor	protein-coding	122.5	183.0	168.5	3102.0	305.5	121.0	203.5	172.0
Merged-chr14-54464168-4	chr14	54464077	54464277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022993)	promoter-TSS (NM_022993)	30.0	NM_022993	65107.0	Mm.472719	NM_022993	ENSMUSG00000022175	Lrp10	Lrp9	low-density lipoprotein receptor-related protein 10	protein-coding	37.0	62.0	51.0	556.0	106.5	40.0	47.5	51.0
Merged-chr5-135461067-6	chr5	135461048	135461248	+	853.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	-66602.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	9.0	6.5	5.0	137.0	11.5	3.5	3.5	4.0
Merged-chr5-120648913-5	chr5	120648929	120649129	+	850.1199949999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281999)	promoter-TSS (NM_001281999)	-159.0	NM_001281999	19415.0	Mm.41209	NM_013832	ENSMUSG00000029602	Rasal1	MRASAL	RAS protein activator like 1 (GAP1 like)	protein-coding	1.5	23.0	9.0	42.5	24.5	12.0	6.0	16.5
Merged-chr7-30184095-4	chr7	30183988	30184188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009944)	promoter-TSS (NM_009944)	-83.0	NM_009944	12865.0	Mm.423030	NM_009944	ENSMUSG00000074218	Cox7a1	COX7A|COX7AH|COX7AM	cytochrome c oxidase subunit VIIa 1	protein-coding	188.0	449.0	284.0	2593.5	576.0	230.5	218.0	152.0
Merged-chr4-11475529-4	chr4	11475415	11475615	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10443.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	10.5	5.5	6.0	177.5	31.0	9.0	22.0	7.5
Merged-chr5-64602112-4	chr5	64602016	64602216	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045078, exon 3 of 4)	non-coding (NR_045078, exon 3 of 4)	8583.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	29.5	33.5	22.0	287.0	45.5	14.5	20.5	25.0
Merged-chr3-116130382-4	chr3	116130278	116130478	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011693)	promoter-TSS (NM_011693)	-690.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	29.0	37.0	21.0	454.0	53.5	14.5	23.0	17.0
Merged-chr6-71444349-4	chr6	71444253	71444453	+	893.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-3716.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	13.5	21.0	20.0	241.0	26.0	7.5	8.5	14.5
Merged-chr18-63708658-4	chr18	63708564	63708764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360837)	promoter-TSS (NM_001360837)	-31.0	NM_001360837	104082.0	Mm.30850	NM_001014981	ENSMUSG00000040560	Wdr7	AI462727|TRAG|mKIAA0541	WD repeat domain 7	protein-coding	139.0	227.0	158.5	1813.0	396.5	126.0	193.0	186.0
Merged-chr9-19622103-4	chr9	19622014	19622214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172918)	promoter-TSS (NM_172918)	23.0	NR_153375	244713.0	Mm.67366	NM_172918	ENSMUSG00000057551	Zfp317	4932416G03|D230022C05Rik|KRAB9|Zfp67|Zfp75|mszf40	zinc finger protein 317	protein-coding	352.5	622.5	457.5	4515.5	1131.0	432.0	453.0	396.0
Merged-chr13-113446331-4	chr13	113446259	113446459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045501)	TTS (NR_045501)	56485.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	64.0	56.5	131.0	1694.0	77.5	18.0	55.0	45.5
Merged-chr3-121600583-4	chr3	121600474	121600674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42911.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	58.0	96.0	52.0	828.0	247.0	98.0	93.5	86.5
Merged-chr2-155273525-3	chr2	155273408	155273608	+	957.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2856.0	NM_025735	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	30.5	40.5	29.5	180.0	10.0	4.0	0.5	0.5
Merged-chr16-18680251-3	chr16	18680146	18680346	+	871.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5A|LINE|L1	-50308.0	NM_213614	18951.0	Mm.20365	NM_213614	ENSMUSG00000072214	Sept5	Cdcrel-1|Cdcrel1|Pnutl1	septin 5	protein-coding	17.0	39.0	5.0	318.5	9.5	0.5	7.0	14.5
Merged-chr18-82534591-4	chr18	82534478	82534678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 3 of 3)	intron (NM_001025245, intron 3 of 3)	-19885.0	NM_001025258	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	42.5	53.0	47.0	726.0	58.5	35.0	31.0	28.5
Merged-chr11-117072326-4	chr11	117072228	117072428	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4455.0	NR_027059	76972.0	Mm.309167	NR_027059	ENSMUSG00000086859	Snhg20	2810008D09Rik	small nucleolar RNA host gene 20	ncRNA	28.0	30.5	13.0	281.5	77.5	19.0	16.0	29.5
Merged-chr16-32275216-4	chr16	32275120	32275320	+	776.99585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_183283)	TTS (NM_183283)	-2241.0	NM_027355	70238.0	Mm.228263	NM_027355	ENSMUSG00000014074	Rnf168	3110001H15Rik	ring finger protein 168	protein-coding	13.5	17.0	1.0	153.0	25.5	12.5	20.0	17.0
Merged-chr10-98684328-4	chr10	98684249	98684449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-230293.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	74.5	108.5	67.5	994.0	214.0	69.5	77.0	53.0
Merged-chr5-144768063-4	chr5	144767958	144768158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081362)	promoter-TSS (NM_001081362)	-734.0	NM_001081362	100683.0	Mm.273570	NM_001081362	ENSMUSG00000045482	Trrap	AI481500	transformation/transcription domain-associated protein	protein-coding	63.0	54.0	42.0	570.0	112.5	39.0	49.5	35.0
Merged-chr4-6372398-4	chr4	6372262	6372462	+	916.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	L1MB5|LINE|L1	6682.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	5.5	6.0	9.0	125.5	17.5	15.5	3.5	5.0
Merged-chr5-122925688-4	chr5	122925662	122925862	+	831.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 11 of 22)	intron (NM_001003953, intron 11 of 22)	-25412.0	NM_013910	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	23.0	26.5	5.5	140.5	13.5	2.5	2.0	5.5
Merged-chr3-65586462-4	chr3	65586342	65586542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57028.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	28.0	44.0	29.5	714.0	82.0	38.0	46.0	47.0
Merged-chr1-184563081-4	chr1	184562977	184563177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5386.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	58.5	103.5	80.0	894.5	164.5	47.5	51.0	65.5
Merged-chr11-5790135-4	chr11	5790034	5790234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146309, intron 1 of 12)	L2b|LINE|L2	1651.0	NM_013810	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	37.0	37.5	28.0	581.5	52.0	20.0	31.5	29.5
Merged-chr5-108447940-4	chr5	108447811	108448011	+	773.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172883, intron 1 of 9)	intron (NM_172883, intron 1 of 9)	1189.0	NM_001359977	243197.0	Mm.106818	NM_172883	ENSMUSG00000029490	Mfsd7a	4732482E20Rik|Mfsd7|Slc49a3	major facilitator superfamily domain containing 7A	protein-coding	14.0	30.5	7.0	121.5	20.0	8.0	10.0	6.5
Merged-chr6-83268380-4	chr6	83268277	83268477	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166067, exon 10 of 25)	exon (NM_001166067, exon 10 of 25)	31002.0	NM_001166067	232156.0	Mm.333189	NM_001166067	ENSMUSG00000068323	Slc4a5	C330006M16|C330016K18Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 5	protein-coding	17.5	36.5	39.5	316.0	48.5	9.0	15.5	19.0
Merged-chr7-100460896-3	chr7	100460786	100460986	+	915.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 32 of 32)	ORR1E|LTR|ERVL-MaLR	-12105.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	13.5	12.5	13.5	229.5	20.5	10.5	2.5	22.5
Merged-chr3-146405101-2	chr3	146404998	146405198	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253769, intron 1 of 13)	intron (NM_001253769, intron 1 of 13)	456.0	NM_001355661	99167.0	Mm.200783	NM_138744	ENSMUSG00000036825	Ssx2ip	AU014939|AU042321|Adip	synovial sarcoma, X 2 interacting protein	protein-coding	6.0	32.5	26.0	207.5	33.5	19.0	24.0	19.5
Merged-chr7-19506529-4	chr7	19506406	19506606	+	914.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177692, exon 2 of 2)	3' UTR (NM_177692, exon 2 of 2)	1825.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	11.0	15.5	7.5	260.5	24.0	11.5	19.0	17.0
Merged-chr11-70615183-4	chr11	70615102	70615302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145537)	promoter-TSS (NM_001145537)	-692.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	39.5	65.0	30.5	546.5	83.0	30.0	45.0	25.5
Merged-chr4-154141348-3	chr4	154141252	154141452	+	884.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1020.0	NM_021499	59002.0	Mm.46508	NM_021499	ENSMUSG00000029029	Wrap73	2610044M17Rik|5330425N03Rik|Dd57|Wdr8	WD repeat containing, antisense to Trp73	protein-coding	6.5	12.0	1.5	116.5	14.5	5.0	5.5	8.0
Merged-chr4-142089050-4	chr4	142088941	142089141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_027137)	TTS (NR_027137)	-4737.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	53.0	59.0	56.0	847.0	107.0	41.5	52.0	40.5
Merged-chr3-104992873-4	chr3	104992764	104992964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31155.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	73.5	109.0	59.0	754.0	126.0	52.0	82.5	75.5
Merged-chr5-88596230-4	chr5	88596128	88596328	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359208, intron 2 of 13)	MTD|LTR|ERVL-MaLR	12715.0	NM_001359209	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	15.0	30.0	27.0	256.0	42.0	21.0	19.5	24.0
Merged-chr2-156839988-4	chr2	156839899	156840099	+	842.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173396)	promoter-TSS (NM_173396)	-8.0	NM_001291124	228839.0	Mm.315625	NM_173396	ENSMUSG00000062175	Tgif2	4921501K24|5730599O09Rik|C80753|C81206	TGFB-induced factor homeobox 2	protein-coding	11.5	16.0	12.0	110.5	27.0	9.0	3.0	18.0
Merged-chr8-40598099-4	chr8	40597991	40598191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040699, intron 3 of 13)	MER33|DNA|hAT-Charlie	36701.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	49.0	73.5	42.5	1041.5	142.0	48.5	73.0	54.0
Merged-chr10-120980011-4	chr10	120979905	120980105	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081193)	promoter-TSS (NM_001081193)	-675.0	NM_001081193	380664.0	Mm.339371	NM_001081193	ENSMUSG00000048661	Lemd3	AI316861|Man1	LEM domain containing 3	protein-coding	16.5	28.0	12.0	246.0	38.5	9.5	13.0	12.0
Merged-chr9-7838256-4	chr9	7838170	7838370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1213.0	NM_007465	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	37.5	93.0	36.5	181.0	183.0	40.5	32.5	27.5
Merged-chr17-85495532-3	chr17	85495426	85495626	+	989.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122870.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	21.0	17.5	21.5	387.0	13.0	0.0	4.5	5.5
Merged-chr13-85556313-3	chr13	85556203	85556403	+	822.438904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-266817.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	7.0	19.0	22.5	188.0	21.0	9.0	10.0	12.5
Merged-chr13-102144013-4	chr13	102143920	102144120	+	925.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-375803.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	11.0	12.0	13.5	184.5	43.0	10.0	16.5	12.0
Merged-chr16-91387019-3	chr16	91386912	91387112	+	735.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 4 of 7)	intron (NM_001347258, intron 4 of 7)	14229.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	9.5	4.5	10.5	258.0	26.5	5.0	3.5	9.0
Merged-chr19-28337662-1	chr19	28337562	28337762	+	643.0	f0_balb.idr	intron (NM_175459, intron 6 of 10)	intron (NM_175459, intron 6 of 10)	-326496.0	NM_001166414	19726.0	Mm.313321	NM_011265	ENSMUSG00000040929	Rfx3	C230093O12Rik|MRFX3	regulatory factor X, 3 (influences HLA class II expression)	protein-coding	7.5	12.0	8.5	80.0	2.0	4.0	0.0	3.0
Merged-chr9-44920920-10	chr9	44920763	44920963	+	998.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013795)	promoter-TSS (NM_013795)	-121.0	NM_013795	27425.0	Mm.14663	NM_013795	ENSMUSG00000038717	Atp5l	4933437C06Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit G	protein-coding	10.0	19.5	21.5	192.5	35.0	10.0	8.5	25.0
Merged-chr14-70076195-2	chr14	70076105	70076305	+	591.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-1240.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	5.5	11.5	5.0	68.5	19.5	8.5	13.5	14.0
Merged-chr2-157063586-4	chr2	157063478	157063678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	15687.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	86.0	72.5	74.5	1148.5	115.5	35.0	43.5	46.0
Merged-chr4-149120140-3	chr4	149120028	149120228	+	921.1333619999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104263, exon 4 of 4)	non-coding (NR_104263, exon 4 of 4)	6635.0	NM_007745	12854.0	Mm.6204	NM_007745	ENSMUSG00000028971	Cort	CST|PCST	cortistatin	protein-coding	3.0	8.0	7.5	41.0	52.5	12.5	11.0	15.5
Merged-chr1-84935025-1	chr1	84934925	84935125	+	600.5	f0_balb.idr	promoter-TSS (NM_027921)	promoter-TSS (NM_027921)	58.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	5.5	4.0	5.0	66.0	7.5	6.0	6.5	7.0
Merged-chr2-27504668-3	chr2	27504553	27504753	+	940.422241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10494.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	10.0	18.0	19.0	134.0	6.0	1.5	8.0	9.0
Merged-chr2-24910716-2	chr2	24910616	24910816	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001012518, intron 1 of 26)	B3A|SINE|B2	8893.0	NM_172545	77683.0	Mm.24176	NM_172545	ENSMUSG00000036893	Ehmt1	9230102N17Rik|D330003E03|Eu-HMTase1|GLP|GLP1|KMT1D|mKIAA1876	euchromatic histone methyltransferase 1	protein-coding	6.5	7.5	6.0	125.0	13.0	6.5	8.5	8.5
Merged-chr18-60381408-4	chr18	60381303	60381503	+	999.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021792, intron 2 of 2)	MTC|LTR|ERVL-MaLR	5374.0	NM_001146275	60440.0	Mm.261140	NM_021792	ENSMUSG00000054072	Iigp1	2900074L10Rik|AI046432|AW111922|Ifgga1|Iigp|Irga6	interferon inducible GTPase 1	protein-coding	21.5	18.5	15.0	345.5	50.0	16.5	18.5	18.5
Merged-chr10-99641997-4	chr10	99641905	99642105	+	810.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038018)	promoter-TSS (NR_038018)	-85.0	NR_038018	100417125.0	Mm.391428	NR_038018	ENSMUSG00000112503	Gm18409	-	mediator of cell motility 1 pseudogene	pseudo	11.5	19.5	12.0	118.5	18.0	7.5	11.0	13.5
Merged-chr13-80960712-4	chr13	80960601	80960801	+	967.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3373.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	31.0	12.0	59.5	798.5	34.0	19.0	23.0	16.5
Merged-chr13-5888354-4	chr13	5888244	5888444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26855.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	53.5	70.0	91.5	845.0	86.0	56.5	56.5	67.5
Merged-chr7-27545235-4	chr7	27545123	27545323	+	960.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011116, exon 2 of 14)	5' UTR (NM_011116, exon 2 of 14)	7995.0	NM_011116	18807.0	Mm.6483	NM_011116	ENSMUSG00000003363	Pld3	Sam-9	phospholipase D family, member 3	protein-coding	33.0	32.0	16.0	314.0	54.5	13.0	16.0	14.0
Merged-chr11-47032550-4	chr11	47032478	47032678	+	969.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 6 of 7)	L2|LINE|L2	221779.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	12.5	12.5	16.5	325.5	48.0	13.0	16.0	17.5
Merged-chr19-14636941-5	chr19	14636862	14637062	+	627.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38779.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	11.0	8.5	9.5	93.5	16.5	9.5	2.0	0.5
Merged-chr10-44729613-4	chr10	44729518	44729718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-270870.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	46.5	103.0	44.0	468.0	137.0	50.5	38.0	32.0
Merged-chr18-62182125-1	chr18	62182025	62182225	+	941.0	f0_balb.idr	intron (NM_001013754, intron 1 of 1)	intron (NM_001013754, intron 1 of 1)	2025.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	22.0	29.0	15.5	132.0	63.5	18.0	15.5	15.0
Merged-chr13-9763225-4	chr13	9763114	9763314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347474, intron 1 of 14)	intron (NM_001347474, intron 1 of 14)	596.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	23.5	30.0	18.0	384.0	94.0	26.0	32.5	41.5
Merged-chr15-31225078-4	chr15	31225017	31225217	+	974.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146057, intron 1 of 3)	intron (NM_146057, intron 1 of 3)	732.0	NM_146057	223453.0	Mm.222867	NM_146057	ENSMUSG00000039168	Dap	4921531N22Rik|AI789753|AU040360	death-associated protein	protein-coding	15.0	13.5	20.5	257.0	47.5	13.0	13.0	21.0
Merged-chr8-69395568-4	chr8	69395486	69395686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038043)	promoter-TSS (NR_038043)	-42.0	NR_038043	378466.0	Mm.37846	NM_194351	ENSMUSG00000110444	Gm10033	9330175B10Rik|Gm10311	predicted gene 10033	ncRNA	61.5	79.5	54.5	1018.0	143.0	55.0	76.0	63.0
Merged-chr11-4219642-3	chr11	4219531	4219731	+	890.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028022, intron 2 of 8)	intron (NM_028022, intron 2 of 8)	1380.0	NM_028022	71962.0	Mm.7852	NM_028022	ENSMUSG00000020424	Gatsl3	2410008K03Rik|Castor1	GATS protein-like 3	protein-coding	11.5	14.5	4.5	123.5	17.0	6.5	5.5	11.0
Merged-chr1-172499834-4	chr1	172499732	172499932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178598)	promoter-TSS (NM_178598)	-414.0	NM_178598	21346.0	Mm.271711	NM_178598	ENSMUSG00000026547	Tagln2	2700094C18Rik|SM22beta|Sm22B|Sm22a	transgelin 2	protein-coding	33.0	48.0	20.0	279.5	94.5	45.0	47.5	43.0
Merged-chr10-79882134-4	chr10	79882058	79882258	+	862.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011178, exon 4 of 5)	exon (NM_011178, exon 4 of 5)	2491.0	NM_011178	19152.0	Mm.2364	NM_011178	ENSMUSG00000057729	Prtn3	PR3|mPR3	proteinase 3	protein-coding	15.5	7.5	19.0	191.5	14.0	9.5	7.5	12.5
Merged-chr9-72275400-4	chr9	72275246	72275446	+	915.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146224, intron 1 of 21)	CpG	458.0	NM_001311105	235469.0	Mm.242791	NM_146224	ENSMUSG00000038535	Zfp280d	A930005F02Rik|BC027163|Suhw4|ZNF634|Znf280d	zinc finger protein 280D	protein-coding	16.0	12.5	16.0	113.0	29.0	13.0	15.0	10.5
Merged-chr7-18925354-4	chr7	18925254	18925454	+	804.954163	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029877)	promoter-TSS (NM_001029877)	-534.0	NM_001029877	384569.0	Mm.262724	NM_001029877	ENSMUSG00000030411	Nova2	Gm1424	neuro-oncological ventral antigen 2	protein-coding	7.0	22.0	8.5	139.0	41.0	13.5	15.5	22.5
Merged-chr6-135228515-4	chr6	135228393	135228593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028982, exon 10 of 13)	exon (NM_028982, exon 10 of 13)	19391.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	44.5	78.0	77.5	1260.0	163.0	72.5	101.0	93.5
Merged-chr18-82469532-3	chr18	82469427	82469627	+	697.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5596.0	NM_001025245	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	18.0	13.5	4.0	77.5	22.5	6.0	10.0	6.0
Merged-chr8-88288950-4	chr8	88288860	88289060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037723)	promoter-TSS (NM_001037723)	-106.0	NM_001037723	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	15.5	35.0	34.0	390.5	60.0	20.5	29.0	33.0
Merged-chr2-158177184-4	chr2	158177083	158177283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-14825.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	57.5	66.5	83.0	1106.5	93.5	32.5	58.5	41.5
Merged-chr13-62859413-4	chr13	62859329	62859529	+	809.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-1059.0	NM_007994	14120.0	Mm.391871	NM_007994	ENSMUSG00000021456	Fbp2	Fbp-1|Fbp1|Rae-30	fructose bisphosphatase 2	protein-coding	10.0	19.5	12.0	83.5	23.5	17.5	13.5	11.5
Merged-chr10-25464454-4	chr10	25464370	25464570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 4 of 16)	intron (NM_001358754, intron 4 of 16)	56102.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	57.0	87.5	63.0	1062.5	164.0	44.5	62.5	49.5
Merged-chr11-86357418-4	chr11	86357307	86357507	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080931, intron 1 of 29)	CpG	118.0	NM_001080931	327987.0	Mm.341886	NM_001080931	ENSMUSG00000034297	Med13	1110067M05Rik|D030023K18|Thrap1|Trap240	mediator complex subunit 13	protein-coding	18.5	14.5	19.0	143.0	33.5	18.5	12.5	19.5
Merged-chr3-81264854-1	chr3	81264754	81264954	+	645.0	f0_balb.idr	Intergenic	L1_Rod|LINE|L1	228438.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	7.5	6.0	14.5	126.5	3.5	3.5	0.5	3.5
Merged-chr12-99999659-4	chr12	99999544	99999744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	ORR1C1|LTR|ERVL-MaLR	35145.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	49.5	65.0	35.0	536.0	57.0	21.5	31.0	21.0
Merged-chr18-60750703-4	chr18	60750634	60750834	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2069.0	NM_008306	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	28.0	28.0	35.0	610.5	45.0	16.5	33.0	17.5
Merged-chr15-25035303-4	chr15	25035201	25035401	+	831.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	378463.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	5.0	8.5	8.0	142.0	28.5	5.0	6.0	11.5
Merged-chr7-68739191-4	chr7	68739105	68739305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001042592, exon 8 of 8)	3' UTR (NM_001042592, exon 8 of 8)	10033.0	NM_001042592	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	53.5	68.0	55.0	1143.0	163.5	46.0	74.0	52.5
Merged-chr12-87275088-4	chr12	87274985	87275185	+	796.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8357.0	NM_146036	217737.0	Mm.22626	NM_146036	ENSMUSG00000021037	Ahsa1	BC023857|p38	AHA1, activator of heat shock protein ATPase 1	protein-coding	13.0	24.0	9.0	238.0	16.5	10.0	12.5	11.5
Merged-chr15-99032876-2	chr15	99032776	99032976	+	943.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	intron (NM_009448, intron 1 of 3)	2985.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	9.0	2.5	0.0	54.5	6.0	5.0	7.5	13.5
Merged-chr10-13868945-4	chr10	13868857	13869057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347362)	promoter-TSS (NM_001347362)	0.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	77.5	125.0	56.5	804.5	171.0	41.5	66.0	50.5
Merged-chr12-79983472-4	chr12	79983386	79983586	+	849.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47222.0	NR_131074	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	14.0	27.0	28.5	368.0	26.5	5.0	12.5	13.0
Merged-chr13-41017173-4	chr13	41017041	41017241	+	856.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025387, exon 2 of 6)	5' UTR (NM_025387, exon 2 of 6)	891.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	9.5	9.5	14.5	141.5	17.5	6.0	12.5	11.0
Merged-chr5-140616368-4	chr5	140616247	140616447	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008494)	TTS (NM_008494)	9006.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	25.5	43.5	15.0	321.5	53.5	10.0	15.0	12.5
Merged-chr5-150665710-4	chr5	150665616	150665816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201369)	promoter-TSS (NM_201369)	-104.0	NM_201369	381695.0	Mm.246934	NM_201369	ENSMUSG00000029655	N4bp2l2	2700092H06Rik|Gm38758|zag1	NEDD4 binding protein 2-like 2	protein-coding	338.0	489.0	335.5	5458.5	773.0	326.5	380.5	298.5
Merged-chr9-78538148-4	chr9	78538094	78538294	+	994.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001276452, exon 11 of 11)	exon (NM_001276452, exon 11 of 11)	49851.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	41.0	17.5	31.0	505.5	87.5	20.0	31.0	29.0
Merged-chr11-116581018-4	chr11	116580974	116581174	+	896.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173755, exon 1 of 18)	exon (NM_173755, exon 1 of 18)	373.0	NM_173755	217342.0	Mm.243950	NM_173755	ENSMUSG00000020802	Ube2o	9630022H21|B230113M03Rik|E2-230K|mKIAA1734	ubiquitin-conjugating enzyme E2O	protein-coding	8.5	10.0	13.0	157.5	36.0	3.5	10.5	15.5
Merged-chr2-91280154-3	chr2	91280037	91280237	+	879.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 7 of 8)	intron (NM_175123, intron 7 of 8)	15022.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	10.0	36.5	10.0	46.5	35.5	20.5	10.0	7.0
Merged-chr14-26487158-4	chr14	26487056	26487256	+	735.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 1 of 22)	intron (NM_001310445, intron 1 of 22)	47468.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	14.5	18.0	5.0	159.0	36.0	12.0	7.0	12.0
Merged-chr7-105777906-4	chr7	105777813	105778013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162943, intron 1 of 20)	intron (NM_001162943, intron 1 of 20)	9637.0	NM_001162943	233651.0	Mm.334108	NM_001162943	ENSMUSG00000036862	Dchs1	3110041P15Rik|C130033F22Rik|CDH25|FIB1|Gm165|PCDH16	dachsous cadherin related 1	protein-coding	65.0	48.5	60.5	1115.5	87.0	39.5	61.5	55.0
Merged-chr2-72984385-4	chr2	72984286	72984486	+	965.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045269, intron 1 of 2)	intron (NR_045269, intron 1 of 2)	-3940.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	18.5	24.0	28.5	389.5	33.0	14.5	14.0	16.5
Merged-chr18-38601254-5	chr18	38601178	38601378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011898)	promoter-TSS (NM_011898)	-10.0	NM_011898	24066.0	Mm.42038	NM_011898	ENSMUSG00000024427	Spry4	A030006O18Rik|sprouty4	sprouty RTK signaling antagonist 4	protein-coding	45.0	66.5	54.0	794.5	99.0	43.0	59.5	41.0
Merged-chr8-128590433-3	chr8	128590299	128590499	+	765.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-95255.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	7.0	5.0	6.0	168.5	16.5	3.5	4.0	2.5
Merged-chr1-162570579-4	chr1	162570487	162570687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347125)	promoter-TSS (NM_001347125)	72.0	NM_001356526	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	241.5	418.5	313.5	3161.0	560.5	251.5	335.0	279.5
Merged-chr8-117054308-4	chr8	117054210	117054410	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 14 of 42)	intron (NM_029686, intron 14 of 42)	28139.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	19.5	33.0	19.5	400.0	44.0	15.0	25.5	15.5
Merged-chr12-111164650-4	chr12	111164541	111164741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130987, intron 2 of 3)	intron (NR_130987, intron 2 of 3)	-1729.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	78.0	113.5	23.5	703.5	162.5	77.5	81.0	54.0
Merged-chr9-70841567-1	chr9	70841467	70841667	+	566.0	f0_balb.idr	intron (NM_001324473, intron 1 of 8)	L1ME3|LINE|L1	93241.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	8.5	6.0	5.0	89.0	10.0	2.0	2.0	11.5
Merged-chr5-110023915-2	chr5	110023815	110024015	+	653.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR46B|LTR|ERVK	27388.0	NM_145563	69504.0	Mm.441438	NM_145563	ENSMUSG00000066613	Zfp932	2310001H12Rik|Znf431	zinc finger protein 932	protein-coding	8.0	19.0	5.5	60.0	2.5	0.5	1.0	0.5
Merged-chr16-44087819-4	chr16	44087706	44087906	+	906.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358203, intron 14 of 14)	intron (NM_001358203, intron 14 of 14)	-45798.0	NM_001359085	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	9.0	19.0	27.0	320.0	37.5	9.5	15.0	15.0
Merged-chr19-34500962-4	chr19	34500868	34501068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 7 of 9)	RLTR11A|LTR|ERVK	-25833.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	56.0	116.5	43.0	703.5	124.5	43.5	32.5	42.5
Merged-chr7-66389356-4	chr7	66389237	66389437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146191)	promoter-TSS (NM_146191)	-996.0	NM_146191	233328.0	Mm.33284	NM_146191	ENSMUSG00000015133	Lrrk1	AW319595|C230002E15Rik|D130026O16Rik|mKIAA1790	leucine-rich repeat kinase 1	protein-coding	97.5	141.5	67.5	898.5	310.5	89.0	98.0	85.0
Merged-chr5-123013768-4	chr5	123013670	123013870	+	845.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1304.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	16.5	21.0	6.0	76.5	22.0	10.5	12.5	15.0
Merged-chr7-16308672-4	chr7	16308578	16308778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133234)	promoter-TSS (NM_133234)	-905.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	72.5	150.0	46.0	1231.0	250.5	78.0	64.5	91.0
Merged-chr5-129002791-4	chr5	129002698	129002898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152615, intron 1 of 11)	intron (NR_152615, intron 1 of 11)	5774.0	NR_152615	13852.0	Mm.260716	NM_007941	ENSMUSG00000029428	Stx2	AW538950|Epim|G1-536-1|Syn-2|repro34	syntaxin 2	protein-coding	100.0	123.5	163.5	2341.5	158.5	44.0	115.5	78.0
Merged-chr8-69091241-4	chr8	69091130	69091330	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007509, intron 1 of 13)	intron (NM_007509, intron 1 of 13)	-2008.0	NM_153054	110877.0	Mm.19301	NM_153054	ENSMUSG00000036330	Slc18a1	4832416I10Rik|Vat1|Vmat1	solute carrier family 18 (vesicular monoamine), member 1	protein-coding	20.5	16.5	13.5	284.0	81.0	25.5	21.5	35.0
Merged-chr4-123686977-1	chr4	123686877	123687077	+	669.0	f0_balb.idr	Intergenic	CpG	-2617.0	NM_001199136	11426.0	Mm.402299	NM_009600	ENSMUSG00000028649	Macf1	ABP620|Acf7|Aclp7|MACF|R74989|mKIAA0465	microtubule-actin crosslinking factor 1	protein-coding	5.0	10.5	1.5	64.0	8.5	4.5	6.5	4.5
Merged-chr8-124837119-3	chr8	124837069	124837269	+	769.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25860.0	NM_025615	66523.0	Mm.436864	NM_025615	ENSMUSG00000031984	2810004N23Rik	3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55	RIKEN cDNA 2810004N23 gene	protein-coding	13.0	12.5	9.5	183.0	0.5	0.0	0.5	2.5
Merged-chr3-115763457-4	chr3	115763359	115763559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48404.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	37.5	54.0	33.5	710.5	75.0	47.0	61.5	30.0
Merged-chr3-139075471-4	chr3	139075350	139075550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040690)	promoter-TSS (NM_001040690)	-249.0	NM_001356388	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	121.5	179.5	179.0	2415.5	278.5	122.0	169.0	106.0
Merged-chr9-45138715-3	chr9	45138659	45138859	+	864.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013390)	promoter-TSS (NM_001013390)	-283.0	NM_001013390	399548.0	Mm.335112	NM_001013390	ENSMUSG00000046480	Scn4b	Gm1471	sodium channel, type IV, beta	protein-coding	6.0	7.5	7.5	38.0	6.0	0.0	2.5	1.0
Merged-chr3-131245952-2	chr3	131245852	131246052	+	724.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008212, intron 3 of 7)	intron (NM_008212, intron 3 of 7)	26149.0	NM_008212	15107.0	Mm.260164	NM_008212	ENSMUSG00000027984	Hadh	AA409008|AU019341|AW742602|HCDH|Hadhsc|Schad	hydroxyacyl-Coenzyme A dehydrogenase	protein-coding	5.0	5.0	8.5	83.5	13.5	3.5	7.0	4.0
Merged-chr17-80224512-4	chr17	80224463	80224663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355458, exon 1 of 3)	5' UTR (NM_001355458, exon 1 of 3)	112.0	NM_001355458	67242.0	Mm.279985	NM_026053	ENSMUSG00000055760	Gemin6	2610019B15Rik|2810470M17Rik	gem nuclear organelle associated protein 6	protein-coding	33.5	64.5	69.0	608.0	101.5	31.0	41.5	53.5
Merged-chr16-90934312-2	chr16	90934212	90934412	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026502, intron 1 of 6)	CpG	537.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	10.5	10.0	5.0	126.5	16.0	5.5	12.0	4.5
Merged-chr12-117469554-4	chr12	117469383	117469583	+	846.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-46996.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	8.0	12.5	4.5	79.0	31.5	16.0	7.0	7.0
Merged-chr6-21954931-4	chr6	21954826	21955026	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 4 of 11)	MTD|LTR|ERVL-MaLR	5311.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	21.0	22.0	23.5	290.5	42.5	8.0	23.0	26.5
Merged-chr9-89988992-3	chr9	89988873	89989073	+	811.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357743, intron 13 of 26)	intron (NM_001357743, intron 13 of 26)	-65294.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	8.0	15.5	5.5	184.5	19.5	3.5	4.5	6.5
Merged-chr7-102250748-4	chr7	102250649	102250849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019566)	promoter-TSS (NM_019566)	-631.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	342.5	556.0	366.5	4057.0	732.0	306.5	332.0	230.5
Merged-chr4-97773361-4	chr4	97773255	97773455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-4271.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	149.5	165.0	150.0	2144.5	376.0	149.5	141.5	132.0
Merged-chr16-76408380-4	chr16	76408278	76408478	+	983.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42-int|LTR|ERVK	-34551.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	11.5	23.0	20.5	371.5	49.5	20.5	16.5	19.5
Merged-chr10-17698099-4	chr10	17698000	17698200	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25128.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	35.5	32.0	34.0	456.5	44.0	32.5	25.5	27.5
Merged-chr6-53448434-1	chr6	53448334	53448534	+	852.3333130000001	f0_balb.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-124940.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	10.0	18.0	5.5	143.5	3.5	4.5	4.0	4.5
Merged-chr8-108631280-3	chr8	108631171	108631371	+	816.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-46594.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	10.0	7.0	10.0	160.0	13.0	5.0	18.0	13.5
Merged-chr1-182125204-4	chr1	182125110	182125310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012058, intron 1 of 2)	CpG	473.0	NM_012058	27058.0	Mm.273196	NM_012058	ENSMUSG00000026511	Srp9	9kDa	signal recognition particle 9	protein-coding	95.5	127.5	101.0	1270.5	196.5	75.0	115.0	96.0
Merged-chr10-53630117-4	chr10	53629986	53630186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027830, exon 2 of 14)	exon (NM_027830, exon 2 of 14)	353.0	NM_027830	71567.0	Mm.278221	NM_027830	ENSMUSG00000058298	Mcm9	9030408O17Rik|Gm235|Mcmdc1	minichromosome maintenance 9 homologous recombination repair factor	protein-coding	327.5	520.0	330.0	4717.0	794.5	320.5	412.5	311.0
Merged-chr4-59181496-4	chr4	59181382	59181582	+	768.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8068.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	8.0	6.5	5.0	95.0	34.0	9.0	9.5	13.0
Merged-chr6-82822112-4	chr6	82821982	82822182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47628.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	34.5	46.5	46.5	509.5	46.5	35.5	27.5	35.5
Merged-chr12-103437832-4	chr12	103437732	103437932	+	876.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194067, intron 4 of 5)	intron (NM_194067, intron 4 of 5)	3643.0	NM_194069	52668.0	Mm.2121	NM_026790	ENSMUSG00000064215	Ifi27	1110013J02Rik|2900026P10Rik|D12Ertd647e|ISG12a|Ifi27l1	interferon, alpha-inducible protein 27	protein-coding	20.5	26.0	9.0	390.5	20.0	11.5	12.0	14.0
Merged-chr7-56131744-3	chr7	56131640	56131840	+	840.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360080, intron 24 of 92)	intron (NM_001360080, intron 24 of 92)	81351.0	NM_001360080	15204.0	Mm.20929	NM_010418	ENSMUSG00000030451	Herc2	D15F32S1h|D7H15F32S1|D7H15F37S1|jdf2|mKIAA0393|rjs	HECT and RLD domain containing E3 ubiquitin protein ligase 2	protein-coding	14.0	6.5	17.5	204.0	15.5	6.0	9.0	4.5
Merged-chr7-139295837-4	chr7	139295737	139295937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47355.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	43.0	46.0	45.0	671.0	133.5	44.0	57.0	50.5
Merged-chr19-15925073-4	chr19	15924982	15925182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205339)	promoter-TSS (NM_001205339)	-23.0	NM_177420	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	50.0	69.0	68.5	1004.0	85.5	17.0	41.0	25.0
Merged-chr4-119108984-8	chr4	119108923	119109123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 1 of 9)	CpG	278.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	33.0	46.0	37.0	572.5	145.0	44.5	44.5	58.0
Merged-chr14-103071153-4	chr14	103071036	103071236	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033242, intron 1 of 3)	intron (NM_001033242, intron 1 of 3)	920.0	NM_001033242	211286.0	Mm.295289	NM_001033242	ENSMUSG00000022125	Cln5	A730075N08Rik	ceroid-lipofuscinosis, neuronal 5	protein-coding	21.5	32.5	28.5	408.0	61.5	18.0	19.0	22.5
Merged-chr15-100761720-4	chr15	100761618	100761818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021530)	promoter-TSS (NM_021530)	-29.0	NM_021530	59033.0	Mm.209856	NM_021530	ENSMUSG00000023032	Slc4a8	AW493845|C230026C11|NDCBE|kNBC-3	solute carrier family 4 (anion exchanger), member 8	protein-coding	39.0	60.5	34.0	530.0	123.0	48.5	46.0	41.0
Merged-chr8-104442427-4	chr8	104442323	104442523	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013380, intron 2 of 12)	intron (NM_001013380, intron 2 of 12)	624.0	NM_001013380	234663.0	Mm.289583	NM_001013380	ENSMUSG00000035770	Dync1li2	AA409702|C920003I06|Dncli2|Dnclic2|LIC2	dynein, cytoplasmic 1 light intermediate chain 2	protein-coding	10.0	20.5	37.0	209.0	24.0	13.5	8.5	15.5
Merged-chr16-32673074-4	chr16	32672945	32673145	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347185)	promoter-TSS (NM_001347185)	-109.0	NM_001347185	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	8.0	8.0	5.0	167.5	26.5	7.0	14.0	10.0
Merged-chr11-100369967-4	chr11	100369868	100370068	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010593, exon 14 of 14)	3' UTR (NM_010593, exon 14 of 14)	-13827.0	NM_010404	15114.0	Mm.281700	NM_010404	ENSMUSG00000006930	Hap1	HAP-1	huntingtin-associated protein 1	protein-coding	40.5	61.5	26.5	424.5	57.5	28.5	35.5	16.5
Merged-chr1-156581262-2	chr1	156581207	156581407	+	629.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	MTD|LTR|ERVL-MaLR	22520.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	3.5	4.5	2.0	34.5	10.5	5.5	5.0	7.0
Merged-chr7-19076077-4	chr7	19075959	19076159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010058)	promoter-TSS (NM_010058)	-141.0	NM_010058	13401.0	Mm.2852	NM_010058	ENSMUSG00000030410	Dmwd	DMR-N9|Dm9	dystrophia myotonica-containing WD repeat motif	protein-coding	55.0	53.5	42.0	654.0	182.5	78.5	140.5	87.5
Merged-chr5-117159604-4	chr5	117159483	117159683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	ID_B1|SINE|B4	25995.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	52.5	89.5	26.0	494.0	158.0	54.5	53.5	48.5
Merged-chr10-54054392-4	chr10	54054310	54054510	+	978.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	MTD|LTR|ERVL-MaLR	21386.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	13.0	57.0	10.5	183.5	34.5	17.5	6.5	4.0
Merged-chr8-126597771-4	chr8	126597683	126597883	+	774.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4347.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	14.5	16.5	14.0	69.0	25.5	9.0	9.0	5.0
Merged-chr6-142785516-4	chr6	142785420	142785620	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001145390)	TTS (NM_001145390)	18946.0	NM_001145390	330440.0	Mm.484618	NM_001033417	ENSMUSG00000048473	Sult6b2	Gm766	sulfotransferase family 6B, member 2	protein-coding	7.5	12.0	7.5	215.5	40.5	3.5	10.5	3.5
Merged-chr11-3535486-4	chr11	3535383	3535583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159284, intron 3 of 21)	intron (NM_001159284, intron 3 of 21)	3809.0	NM_013870	29856.0	Mm.188516	NM_013870	ENSMUSG00000020439	Smtn	smsmo	smoothelin	protein-coding	89.0	109.0	63.5	1475.5	176.5	52.5	117.0	95.0
Merged-chr14-33808708-4	chr14	33808613	33808813	+	846.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131113, intron 3 of 3)	MER121|DNA|TcMar?	2570.0	NR_131114	218902.0	Mm.107791	NR_131113	ENSMUSG00000115751	4930503F20Rik	4930453C15	RIKEN cDNA 4930503F20 gene	ncRNA	8.0	9.0	13.5	138.5	27.0	2.5	10.0	4.5
Merged-chr18-77946957-4	chr18	77946863	77947063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 1 of 43)	MTE-int|LTR|ERVL-MaLR	8496.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	36.0	52.5	29.5	297.5	141.5	61.5	60.0	50.5
Merged-chr16-4371236-4	chr16	4371153	4371353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009624, intron 2 of 10)	intron (NM_009624, intron 2 of 10)	49245.0	NM_001291910	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	25.5	22.5	43.5	853.5	44.0	20.5	33.5	27.0
Merged-chr9-59728102-4	chr9	59727977	59728177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20313.0	NM_001033498	546134.0	Mm.297580	NM_001033498	ENSMUSG00000074259	Gramd2	BC064463|Gramd2a	GRAM domain containing 2	protein-coding	42.5	76.0	76.0	926.0	80.5	20.5	27.0	40.5
Merged-chr2-155134226-6	chr2	155134095	155134295	+	829.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243712, intron 1 of 25)	intron (NM_001243712, intron 1 of 25)	714.0	NM_008395	16396.0	Mm.208286	NM_008395	ENSMUSG00000027598	Itch	6720481N21Rik|8030492O04Rik|A130065M08|AIP4|C230047C07Rik	itchy, E3 ubiquitin protein ligase	protein-coding	4.0	16.5	10.0	63.0	15.0	7.5	5.0	9.5
Merged-chr14-120762395-4	chr14	120762233	120762433	+	977.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148861.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	50.0	29.0	40.0	1018.5	89.0	10.5	21.5	26.0
Merged-chr6-113837957-4	chr6	113837870	113838070	+	820.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 2 of 19)	intron (NM_001036684, intron 2 of 19)	53569.0	NM_001036684	11941.0	Mm.321755	NM_009723	ENSMUSG00000030302	Atp2b2	D6Abb2e|Gena300|PMCA2|Tmy|dfw|jog|wms|wri	ATPase, Ca++ transporting, plasma membrane 2	protein-coding	9.0	10.5	12.0	317.0	23.5	4.5	15.0	18.0
Merged-chr11-29715796-1	chr11	29715696	29715896	+	560.0	f0_balb.idr	intron (NM_194054, intron 3 of 8)	intron (NM_194054, intron 3 of 8)	-2767.0	NM_024226	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	6.5	8.0	5.0	131.5	1.0	0.0	0.0	2.0
Merged-chr17-26532823-4	chr17	26532793	26532993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24421.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	207.0	224.5	204.5	2841.5	292.0	142.0	133.0	154.5
Merged-chr5-105876446-4	chr5	105876361	105876561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018759)	promoter-TSS (NM_018759)	-107.0	NR_030777	54367.0	Mm.248876	NM_018759	ENSMUSG00000029290	Zfp326	5730470H14Rik|ZAN75|Znf326	zinc finger protein 326	protein-coding	143.0	223.0	172.5	2224.0	484.5	162.0	263.0	183.5
Merged-chr12-13358993-4	chr12	13358917	13359117	+	872.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027706, intron 23 of 51)	intron (NM_027706, intron 23 of 51)	89890.0	NM_027706	71169.0	Mm.177520	NM_027706	ENSMUSG00000020576	Nbas	4933425L03Rik|Nag	neuroblastoma amplified sequence	protein-coding	11.5	15.5	13.5	351.5	20.0	10.0	15.5	14.5
Merged-chr3-60472160-4	chr3	60472055	60472255	+	853.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253713)	promoter-TSS (NM_001253713)	-675.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	22.0	10.0	16.5	239.0	49.0	9.0	20.5	22.5
Merged-chr11-74522774-4	chr11	74522711	74522911	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	CpG	67347.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	20.5	21.0	14.5	250.5	67.0	11.5	12.5	21.5
Merged-chr13-100576106-4	chr13	100576007	100576207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23389.0	NM_001360539	18260.0	Mm.4807	NM_008756	ENSMUSG00000021638	Ocln	AI503564|Ocl	occludin	protein-coding	23.0	25.5	20.0	473.5	117.5	29.0	52.5	40.5
Merged-chr11-53794993-4	chr11	53794908	53795108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	24535.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	170.0	221.5	191.5	2361.0	360.5	113.0	173.0	120.0
Merged-chr10-34244895-4	chr10	34244809	34245009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37281.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	81.5	121.0	136.5	1614.0	168.0	64.0	98.0	64.0
Merged-chr11-80429247-1	chr11	80429147	80429347	+	702.0	f0_c57.idr	intron (NM_178616, intron 1 of 13)	CpG	632.0	NM_178616	69077.0	Mm.260539	NM_178616	ENSMUSG00000017428	Psmd11	1700089D09Rik|1810019E17Rik|2610024G20Rik|2810055C24Rik|C78232|P44.5|S9	proteasome (prosome, macropain) 26S subunit, non-ATPase, 11	protein-coding	18.0	19.5	13.0	130.5	20.0	5.5	9.0	14.0
Merged-chr9-106368521-4	chr9	106368397	106368597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153459)	promoter-TSS (NM_153459)	-135.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	54.5	49.5	21.5	495.5	168.0	58.0	53.0	44.0
Merged-chr5-110385476-4	chr5	110385377	110385577	+	982.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 5 of 18)	intron (NM_001142642, intron 5 of 18)	1650.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	18.5	37.5	25.0	305.0	46.0	14.5	20.5	15.5
Merged-chr7-58836990-4	chr7	58836888	58837088	+	839.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	178786.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	9.5	8.0	20.0	122.5	34.5	8.0	16.5	19.0
Merged-chr19-17394007-4	chr19	17393893	17394093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019437)	promoter-TSS (NM_019437)	-50.0	NM_019437	54391.0	Mm.7013	NM_019437	ENSMUSG00000024712	Rfk	0610038L10Rik|AF031381|KOI-4	riboflavin kinase	protein-coding	191.5	280.0	177.5	2313.5	370.0	148.0	180.0	121.5
Merged-chr3-121291700-4	chr3	121291602	121291802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024178)	promoter-TSS (NM_024178)	-38.0	NR_155539	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	220.5	312.5	201.0	3896.5	592.5	235.0	311.5	227.5
Merged-chr11-50210769-3	chr11	50210680	50210880	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011018)	promoter-TSS (NM_011018)	40.0	NM_001290769	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	77.5	180.5	50.0	545.5	348.0	166.0	105.5	100.5
Merged-chr8-126616030-4	chr8	126615917	126616117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22581.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	38.5	52.5	39.0	394.5	77.0	30.5	46.0	30.5
Merged-chr17-78736700-4	chr17	78736589	78736789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011500)	promoter-TSS (NM_011500)	-129.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	468.0	662.0	469.5	7573.5	1124.5	497.0	623.0	438.5
Merged-chr17-71868084-3	chr17	71868062	71868262	+	778.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007439)	TTS (NM_007439)	86215.0	NM_030179	78785.0	Mm.196382	NM_030179	ENSMUSG00000024059	Clip4	1700024K14Rik|1700074B05Rik|4833417L20Rik|5830409B12Rik|Rsnl2	CAP-GLY domain containing linker protein family, member 4	protein-coding	13.5	18.0	9.0	150.0	4.5	0.5	0.5	1.0
Merged-chr18-23997051-4	chr18	23996954	23997154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011755, intron 2 of 2)	intron (NM_011755, intron 2 of 2)	7420.0	NM_011755	22694.0	Mm.290596	NM_011755	ENSMUSG00000063281	Zfp35	Zfp-35|Znf271|mszf13|mszf20-1|mszf28|mszf68	zinc finger protein 35	protein-coding	112.0	136.5	75.0	2263.5	250.0	75.0	97.0	120.0
Merged-chr16-36662886-4	chr16	36662787	36662987	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	3190.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	20.5	25.0	15.5	344.0	38.0	19.5	26.0	23.0
Merged-chr19-4122071-4	chr19	4121956	4122156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276284)	promoter-TSS (NM_001276284)	-481.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	59.5	85.0	68.0	689.5	185.0	67.0	72.5	52.5
Merged-chr15-63617562-3	chr15	63617506	63617706	+	789.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137998.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	3.0	2.5	5.0	125.0	8.5	4.5	7.0	5.5
Merged-chr1-6976404-3	chr1	6976304	6976504	+	840.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB1|LINE|L1	-112516.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	12.5	12.0	9.0	271.5	14.0	7.5	8.0	12.0
Merged-chr10-24634449-4	chr10	24634346	24634546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39004.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	242.5	383.5	244.0	3883.5	525.0	159.0	149.5	182.5
Merged-chr12-111449479-4	chr12	111449393	111449593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009396, intron 7 of 11)	intron (NM_009396, intron 7 of 11)	6832.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	45.5	66.0	34.5	844.0	103.5	36.0	37.0	56.0
Merged-chr11-29871582-3	chr11	29871478	29871678	+	862.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 7 of 41)	intron (NM_146016, intron 7 of 41)	-45910.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	12.0	16.5	10.5	129.5	8.0	4.0	6.5	4.0
Merged-chr11-85235562-2	chr11	85235462	85235662	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025825)	promoter-TSS (NM_025825)	396.0	NR_028329	654810.0	Mm.209580	NR_028329	ENSMUSG00000085628	Appbp2os	D630032N06Rik	amyloid beta precursor protein (cytoplasmic tail) binding protein 2, opposite strand	ncRNA	11.5	10.5	5.5	66.5	14.5	10.5	3.5	8.5
Merged-chr5-125329384-4	chr5	125329289	125329489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	11705.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	76.5	66.0	89.5	1072.0	91.0	33.5	43.0	59.0
Merged-chr3-137919108-3	chr3	137919013	137919213	+	965.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019920, intron 2 of 6)	intron (NM_019920, intron 2 of 6)	558.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	8.5	17.5	9.0	91.0	18.0	6.0	7.0	9.5
Merged-chr9-65885088-4	chr9	65884990	65885190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170907)	promoter-TSS (NM_001170907)	83.0	NM_001170907	56404.0	Mm.208379	NM_019797	ENSMUSG00000032386	Trip4	4930558E03Rik|ASC-1|Asc1|BB191711	thyroid hormone receptor interactor 4	protein-coding	69.0	57.0	41.5	680.5	95.0	29.0	62.0	42.5
Merged-chr2-125123188-4	chr2	125123114	125123314	+	970.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162418, intron 1 of 14)	CpG	446.0	NM_001162417	17876.0	Mm.18535	NM_010852	ENSMUSG00000027201	Myef2	9430071B01|mKIAA1341	myelin basic protein expression factor 2, repressor	protein-coding	11.0	21.0	15.0	167.5	48.5	16.0	23.5	23.5
Merged-chr11-100760074-4	chr11	100759982	100760182	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081194)	promoter-TSS (NM_001081194)	-304.0	NM_001081194	380728.0	Mm.297539	NM_001081194	ENSMUSG00000035355	Kcnh4	BEC2	potassium voltage-gated channel, subfamily H (eag-related), member 4	protein-coding	13.5	33.0	6.0	57.5	76.0	19.0	23.5	27.5
Merged-chr4-95557451-4	chr4	95557352	95557552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113412)	promoter-TSS (NM_001113412)	-55.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	24.5	36.5	20.0	649.5	468.0	157.5	269.5	190.0
Merged-chr17-83312678-4	chr17	83312582	83312782	+	903.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38249.0	NM_001114361	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	13.5	21.5	24.0	209.0	23.5	12.0	6.0	12.5
Merged-chr4-53116055-4	chr4	53115948	53116148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	43847.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	133.0	165.0	117.5	1886.0	253.0	86.5	154.0	98.0
Merged-chr8-85560127-4	chr8	85560039	85560239	+	853.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-4868.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	10.0	16.0	5.5	129.0	25.0	11.5	15.5	12.0
Merged-chr10-34171328-2	chr10	34171228	34171428	+	790.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 2 of 5)	intron (NM_172508, intron 2 of 5)	36223.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	5.5	5.0	8.0	76.5	7.5	5.0	2.5	6.0
Merged-chr16-10480016-4	chr16	10479898	10480098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302619)	promoter-TSS (NM_001302619)	-74.0	NM_001302619	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	32.5	43.0	26.5	722.0	89.5	14.5	14.0	17.0
Merged-chr15-79139803-3	chr15	79139704	79139904	+	891.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138581, intron 2 of 6)	B2_Mm2|SINE|B2	1447.0	NM_001310581	27660.0	Mm.390827	NM_138581	ENSMUSG00000033029	1700088E04Rik	ESTJ0827E04	RIKEN cDNA 1700088E04 gene	protein-coding	1.5	6.0	0.0	28.0	32.0	24.0	14.5	13.0
Merged-chr16-23127808-4	chr16	23127696	23127896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145480)	promoter-TSS (NM_145480)	-66.0	NM_145480	106344.0	Mm.386835	NM_145480	ENSMUSG00000022881	Rfc4	A1|AI894123|AU040575|RFC37	replication factor C (activator 1) 4	protein-coding	114.0	138.0	67.5	1196.0	267.5	118.5	116.5	104.5
Merged-chr11-86653702-3	chr11	86653641	86653841	+	819.714294	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 5 of 11)	intron (NM_001356531, intron 5 of 11)	17534.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	10.5	6.0	4.5	50.0	24.0	5.0	4.5	10.5
Merged-chr5-149636341-4	chr5	149636225	149636425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013559)	promoter-TSS (NM_013559)	-10.0	NM_013559	15505.0	Mm.270681	NM_013559	ENSMUSG00000029657	Hsph1	105kDa|AI790491|Hsp105|Hsp110|hsp-E7I|hsp110/105	heat shock 105kDa/110kDa protein 1	protein-coding	248.0	314.5	212.5	3410.5	568.0	187.5	200.0	198.5
Merged-chr1-57392698-4	chr1	57392608	57392808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037742, intron 5 of 7)	intron (NM_001037742, intron 5 of 7)	-13840.0	NM_001081181	68115.0	Mm.275428	NM_001081181	ENSMUSG00000025971	Maip1	9430016H08Rik|AA409999|C78988	matrix AAA peptidase interacting protein 1	protein-coding	22.0	40.5	34.5	507.5	72.0	28.5	33.5	33.5
Merged-chr4-155624810-4	chr4	155624735	155624935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040441)	promoter-TSS (NR_040441)	-19.0	NM_001347308	12537.0	Mm.267410	NM_007661	ENSMUSG00000029062	Cdk11b	AA989746|CDK11-p110|CDK11-p46|CDK11-p58|Cdc11b|Cdc2l1|Cdc2l2|Cdk11|p58	cyclin-dependent kinase 11B	protein-coding	185.0	349.5	187.0	2168.5	546.0	263.0	232.0	243.5
Merged-chr9-35211682-1	chr9	35211582	35211782	+	966.0	f0_c57.idr	promoter-TSS (NM_001291449)	promoter-TSS (NM_001291449)	479.0	NM_026130	67398.0	Mm.284688	NM_026130	ENSMUSG00000032042	Srpr	1300011P19Rik|D11Mgi27|Srpra	signal recognition particle receptor ('docking protein')	protein-coding	4.0	12.0	16.5	155.0	30.0	9.0	7.0	21.0
Merged-chr6-24516447-2	chr6	24516347	24516547	+	873.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1380.0	NM_172535	214704.0	Mm.61131	NM_172535	ENSMUSG00000046192	Iqub	4932408B21Rik|Trs4	IQ motif and ubiquitin domain containing	protein-coding	5.5	5.5	4.5	101.5	18.5	3.5	4.5	7.0
Merged-chr11-76847057-4	chr11	76846979	76847179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007754)	promoter-TSS (NM_007754)	-71.0	NM_007754	12874.0	Mm.276736	NM_007754	ENSMUSG00000020841	Cpd	AA960140|AW322530|D830034L15Rik	carboxypeptidase D	protein-coding	74.0	76.0	31.0	578.0	110.5	54.5	56.0	37.0
Merged-chr10-13497339-4	chr10	13497242	13497442	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3686.0	NM_001330198	66848.0	Mm.26625	NM_025799	ENSMUSG00000019810	Fuca2	0610025O11Rik|5530401P20Rik	fucosidase, alpha-L- 2, plasma	protein-coding	19.5	12.0	13.0	472.5	36.0	12.5	19.0	13.5
Merged-chr13-42103127-4	chr13	42103014	42103214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	51093.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	40.0	44.0	29.5	628.5	84.0	35.0	38.5	45.0
Merged-chr3-87376846-4	chr3	87376732	87376932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136236, intron 1 of 8)	intron (NM_001136236, intron 1 of 8)	445.0	NM_178165	229499.0	Mm.255203	NM_153090	ENSMUSG00000059994	Fcrl1	A230020G22Rik|Bxmas1|Bxmh1|Bxmh1b|Fcrh1|Fcrh1l|Fcrh1s|Ifgp1	Fc receptor-like 1	protein-coding	47.5	53.0	32.0	622.5	108.5	43.5	49.0	47.5
Merged-chr17-31002780-4	chr17	31002677	31002877	+	890.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177465, intron 19 of 21)	intron (NM_177465, intron 19 of 21)	48094.0	NM_177465	52020.0	Mm.25923	NM_177465	ENSMUSG00000054134	Umodl1	D17Ertd488e	uromodulin-like 1	protein-coding	17.0	18.5	11.0	138.5	34.0	14.0	13.5	10.0
Merged-chr10-51455597-3	chr10	51455492	51455692	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25020.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	29.0	23.5	22.0	196.5	52.5	11.5	10.0	10.0
Merged-chr13-36324884-4	chr13	36324780	36324980	+	889.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 3 of 5)	intron (NM_001039189, intron 3 of 5)	207237.0	NM_001039189	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	8.5	12.0	19.0	162.0	45.0	8.0	12.0	16.5
Merged-chr7-113197354-4	chr7	113197186	113197386	+	972.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10179.0	NM_001243048	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	22.5	15.5	12.5	307.5	29.5	12.0	13.5	13.5
Merged-chr9-7572827-4	chr9	7572733	7572933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310717, intron 2 of 9)	B3|SINE|B2	1437.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	135.0	149.5	104.0	1843.5	325.5	112.0	102.5	91.0
Merged-chr19-8984570-4	chr19	8984484	8984684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4700.0	NR_104460	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	151.5	246.0	76.0	1055.5	427.0	176.0	117.5	114.0
Merged-chr1-75400064-4	chr1	75399956	75400156	+	725.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001173477)	promoter-TSS (NM_001173477)	-29.0	NM_001173477	11790.0	Mm.275397	NM_007463	ENSMUSG00000026207	Speg	AW125581|Apeg1|BPEG|D1Bwg1450e|SPEGalpha|SPEGbeta|mKIAA1297	SPEG complex locus	protein-coding	3.5	9.0	9.5	117.5	20.0	6.0	8.0	9.5
Merged-chr15-59760309-4	chr15	59760208	59760408	+	872.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34651.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	13.0	30.5	22.0	278.0	33.5	13.5	22.5	21.5
Merged-chr1-39001327-3	chr1	39001231	39001431	+	763.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13517.0	NM_026850	68833.0	Mm.28121	NM_026850	ENSMUSG00000026078	Pdcl3	1110061A19Rik|C80025|Viaf1	phosducin-like 3	protein-coding	3.0	9.0	4.0	101.0	16.0	7.5	10.0	8.0
Merged-chr10-39443320-4	chr10	39443238	39443438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	MLT1B|LTR|ERVL-MaLR	73539.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	80.5	116.0	146.0	1923.5	223.0	42.0	119.5	81.5
Merged-chr12-110703303-5	chr12	110703180	110703380	+	966.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6885.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	6.0	5.5	12.0	162.0	34.5	8.5	16.0	14.0
Merged-chr11-83440940-2	chr11	83440843	83441043	+	810.166687	f0_balb.idr|f0_c57.idr	3' UTR (NM_172797, exon 8 of 8)	3' UTR (NM_172797, exon 8 of 8)	3249.0	NM_025492	66330.0	Mm.44800	NM_025492	ENSMUSG00000035085	1700020L24Rik	-	RIKEN cDNA 1700020L24 gene	protein-coding	10.0	17.0	11.0	205.5	37.0	12.5	18.5	12.0
Merged-chr19-46690076-4	chr19	46689968	46690168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025563, exon 1 of 5)	exon (NM_025563, exon 1 of 5)	162.0	NM_025563	66439.0	Mm.87163	NM_025563	ENSMUSG00000062376	Borcs7	2010012O05Rik|4930569L17Rik|AI413851|AI467257	BLOC-1 related complex subunit 7	protein-coding	22.5	44.5	43.5	368.5	53.0	14.5	18.5	29.5
Merged-chr3-83995538-4	chr3	83995424	83995624	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172681, intron 3 of 34)	intron (NM_172681, intron 3 of 34)	44637.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	19.0	46.0	43.0	255.0	50.0	9.0	21.5	7.5
Merged-chr1-67363892-4	chr1	67363777	67363977	+	902.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	240850.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	18.5	34.5	14.0	370.0	10.5	6.0	9.5	15.0
Merged-chr17-67342281-4	chr17	67342234	67342434	+	876.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	RMER15|LTR|ERVL	12125.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	6.0	21.5	5.0	114.5	16.5	14.0	4.5	10.0
Merged-chr1-55822777-4	chr1	55822639	55822839	+	747.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108502.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	12.5	8.0	12.0	250.0	12.5	11.5	11.0	6.0
Merged-chr2-122407723-6	chr2	122407576	122407776	+	794.236084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-33144.0	NM_172980	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	9.5	12.0	5.0	102.0	14.5	0.5	4.5	5.5
Merged-chr15-55380206-4	chr15	55380103	55380303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 10 of 47)	intron (NM_181277, intron 10 of 47)	72453.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	100.0	158.0	82.0	1800.0	228.5	112.5	135.0	89.0
Merged-chr9-113930906-4	chr9	113930796	113930996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083319)	promoter-TSS (NM_001083319)	-38.0	NM_001083319	22221.0	Mm.28052	NM_013699	ENSMUSG00000009741	Ubp1	Cp2b|LBP-1a|LBP-1b|NF2d9	upstream binding protein 1	protein-coding	357.5	610.0	409.5	4603.0	966.5	428.0	486.5	350.5
Merged-chr13-29650810-4	chr13	29650778	29650978	+	783.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131896, intron 8 of 16)	L1MEc|LINE|L1	204795.0	NR_131896	68916.0	Mm.212227	NM_144536	ENSMUSG00000006191	Cdkal1	1190005B03Rik|6620401C13Rik	CDK5 regulatory subunit associated protein 1-like 1	protein-coding	10.5	23.0	22.5	99.0	14.0	7.5	7.0	5.5
Merged-chr2-22748186-4	chr2	22748068	22748268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26159.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	60.5	80.0	71.0	732.5	127.5	59.0	55.5	48.0
Merged-chr3-95521399-4	chr3	95521284	95521484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5402.0	NM_021281	13040.0	Mm.3619	NM_021281	ENSMUSG00000038642	Ctss	Cats	cathepsin S	protein-coding	41.0	51.0	35.5	755.5	110.5	53.5	44.0	46.0
Merged-chr8-92822542-4	chr8	92822460	92822660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4737.0	NM_008610	17390.0	Mm.29564	NM_008610	ENSMUSG00000031740	Mmp2	Clg4a|GelA|MMP-2	matrix metallopeptidase 2	protein-coding	52.0	54.5	63.0	817.5	127.5	41.5	49.5	37.0
Merged-chr3-148987819-4	chr3	148987733	148987933	+	929.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-33198.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	25.5	18.5	26.5	458.0	54.0	11.0	19.0	16.5
Merged-chr7-19300717-4	chr7	19300565	19300765	+	946.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9380.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	18.5	14.5	5.0	51.5	32.5	11.5	4.5	23.0
Merged-chr17-47502200-4	chr17	47502098	47502298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022015)	promoter-TSS (NM_022015)	93.0	NM_001356290	63856.0	Mm.275901	NM_022015	ENSMUSG00000023980	Taf8	AW260255|Tbn	TATA-box binding protein associated factor 8	protein-coding	97.0	168.5	121.0	1190.5	212.5	119.5	69.0	102.5
Merged-chr13-94094463-3	chr13	94094337	94094537	+	670.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 1 of 3)	intron (NM_172589, intron 1 of 3)	36641.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	6.0	15.5	14.0	138.5	8.0	5.0	4.5	3.0
Merged-chr9-61243570-4	chr9	61243471	61243671	+	928.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1ME|LINE|L1	50238.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	27.5	82.5	15.5	162.0	74.0	34.5	9.5	11.0
Merged-chr7-80065509-3	chr7	80065414	80065614	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045695, intron 2 of 2)	intron (NR_045695, intron 2 of 2)	9743.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	56.0	83.5	43.5	825.5	9.0	2.0	1.0	9.5
Merged-chr2-16335464-4	chr2	16335371	16335571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20833.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	95.0	52.5	128.0	1969.5	131.0	24.5	70.0	83.0
Merged-chr3-90514973-4	chr3	90514945	90515145	+	850.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011309)	promoter-TSS (NM_011309)	610.0	NM_009113	20196.0	Mm.6523	NM_009113	ENSMUSG00000042312	S100a13	-	S100 calcium binding protein A13	protein-coding	6.5	4.5	12.0	90.5	24.5	7.5	5.5	6.0
Merged-chr1-151581823-4	chr1	151581716	151581916	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	HAL1M8|LINE|L1	10443.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	19.5	19.5	16.5	233.5	21.5	8.0	10.0	7.5
Merged-chr15-99381333-4	chr15	99381248	99381448	+	938.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-10866.0	NM_001310622	22379.0	Mm.29043	NM_011711	ENSMUSG00000023008	Fmnl3	2700073B04Rik|FBP11|Wbp3|mKIAA2014	formin-like 3	protein-coding	12.0	31.5	20.0	133.0	62.5	25.5	19.5	15.5
Merged-chr5-100550479-3	chr5	100550372	100550572	+	849.833374	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21733.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	1.0	7.5	2.0	14.5	43.5	12.5	14.5	15.5
Merged-chr8-70906134-5	chr8	70906043	70906243	+	864.6742550000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173013, intron 1 of 6)	CpG	169.0	NM_173013	270058.0	Mm.248559	NM_173013	ENSMUSG00000019261	Map1s	6430517J16Rik|Bpy2ip1|Map8|Mtap1s|VCY2IP1	microtubule-associated protein 1S	protein-coding	5.5	8.5	9.0	67.5	37.5	5.0	3.5	8.5
Merged-chr14-19751201-4	chr14	19751086	19751286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008695)	promoter-TSS (NM_008695)	-71.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	93.5	119.0	128.0	1671.5	160.0	95.0	117.5	79.0
Merged-chr16-11008404-4	chr16	11008297	11008497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040518)	promoter-TSS (NR_040518)	-501.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	123.5	142.5	180.5	1474.0	312.0	85.5	149.5	118.0
Merged-chr17-50388940-4	chr17	50388851	50389051	+	949.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95331.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	8.5	9.0	7.5	268.5	127.5	46.5	53.0	48.0
Merged-chr1-64119776-7	chr1	64119678	64119878	+	977.488098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033563, intron 1 of 3)	intron (NM_033563, intron 1 of 3)	1611.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	14.0	33.0	24.5	175.0	27.5	25.0	13.5	12.5
Merged-chr9-53387464-5	chr9	53387413	53387613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212445, intron 1 of 7)	URR1A|DNA|hAT-Charlie	3490.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	40.5	44.0	63.5	741.5	103.5	24.5	43.0	46.0
Merged-chr9-54917164-4	chr9	54917057	54917257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177351)	promoter-TSS (NM_177351)	-133.0	NM_177351	235386.0	Mm.259334	NM_177351	ENSMUSG00000035878	Hykk	Agphd1|C630028N24Rik	hydroxylysine kinase 1	protein-coding	65.5	116.0	53.0	757.0	78.5	29.5	40.0	58.0
Merged-chr5-114827625-4	chr5	114827523	114827723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4155.0	NM_181075	330173.0	Mm.482205	NM_181075	ENSMUSG00000092486	2610524H06Rik	-	RIKEN cDNA 2610524H06 gene	protein-coding	25.5	63.0	35.5	442.5	88.5	19.0	50.0	39.5
Merged-chr12-87441448-4	chr12	87441367	87441567	+	899.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102565, intron 1 of 5)	intron (NM_001102565, intron 1 of 5)	2372.0	NM_001102565	211064.0	Mm.486235	NM_001102565	ENSMUSG00000079036	Alkbh1	2700073G19Rik|Abh|Alkbh|alkB|hABH	alkB homolog 1, histone H2A dioxygenase	protein-coding	11.5	26.5	6.5	107.0	79.5	17.5	22.0	16.5
Merged-chr15-80042359-4	chr15	80042250	80042450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27542.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	30.0	50.5	23.0	525.5	74.0	35.0	41.0	34.0
Merged-chr2-30067256-4	chr2	30067167	30067367	+	878.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204875, intron 1 of 7)	CpG	793.0	NM_001204875	56086.0	Mm.326055	NM_023871	ENSMUSG00000054766	Set	2610030F17Rik|5730420M11Rik|AA407739|I-2PP2A|StF-IT-1|TAF-I	SET nuclear oncogene	protein-coding	11.5	15.5	9.0	158.5	24.0	11.0	6.5	22.0
Merged-chr4-49632015-4	chr4	49631922	49632122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163263)	promoter-TSS (NM_001163263)	-38.0	NM_001163263	109331.0	Mm.24765	NM_182999	ENSMUSG00000028309	Rnf20	4833430L21Rik|AW540162|C79397|mKIAA4116	ring finger protein 20	protein-coding	173.0	244.5	180.0	2864.0	460.5	162.0	194.0	211.5
Merged-chr1-30872227-3	chr1	30872088	30872288	+	844.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8932.0	NM_001081080	213109.0	Mm.194486	NM_025871	ENSMUSG00000048874	Phf3	2310061N19Rik	PHD finger protein 3	protein-coding	8.5	9.0	7.0	103.5	22.0	6.5	9.0	8.0
Merged-chr3-8924908-4	chr3	8924809	8925009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1052.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	23.0	33.0	51.0	861.5	110.0	20.0	36.5	50.5
Merged-chr3-142478554-4	chr3	142478451	142478651	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18383.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	17.0	39.5	12.5	194.0	47.0	8.0	21.0	18.5
Merged-chr2-59642855-3	chr2	59642755	59642955	+	665.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	-3914.0	NM_001290659	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	5.5	11.0	8.5	231.5	17.5	1.0	2.0	5.5
Merged-chr10-37192220-7	chr10	37192139	37192339	+	976.904785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53313.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	20.5	22.5	13.0	155.0	15.0	9.0	11.0	14.0
Merged-chr4-155735110-2	chr4	155735010	155735210	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001101506, exon 1 of 4)	exon (NM_001101506, exon 1 of 4)	306.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	34.5	30.0	31.0	426.0	56.0	24.0	29.0	31.0
Merged-chr5-124468021-3	chr5	124467886	124468086	+	800.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 3 of 3)	Tigger7|DNA|TcMar-Tigger	10249.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	9.0	19.0	8.5	100.0	21.5	8.0	3.5	5.5
Merged-chr10-42245081-4	chr10	42244980	42245180	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	31662.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	3.5	10.0	29.0	450.0	35.5	10.0	14.0	18.5
Merged-chr3-95862031-4	chr3	95861931	95862131	+	949.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001355759)	TTS (NM_001355759)	-6146.0	NR_151629	70767.0	Mm.279872	NM_027541	ENSMUSG00000015748	Prpf3	3632413F13Rik	pre-mRNA processing factor 3	protein-coding	17.0	22.5	14.0	301.5	61.0	44.5	18.5	26.0
Merged-chr17-69265471-4	chr17	69265369	69265569	+	948.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 12 of 21)	intron (NM_001355736, intron 12 of 21)	11737.0	NR_045428	69750.0	Mm.439063	NR_045428	ENSMUSG00000100572	2410021H03Rik	-	RIKEN cDNA 2410021H03 gene	ncRNA	26.5	19.5	16.5	266.0	35.5	7.0	20.0	10.5
Merged-chr3-144242274-3	chr3	144242180	144242380	+	598.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37025.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	7.5	9.0	16.0	89.5	13.5	5.5	9.5	15.0
Merged-chr15-55191367-4	chr15	55191288	55191488	+	885.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037937, intron 4 of 8)	MTC|LTR|ERVL-MaLR	57952.0	NM_001037937	97998.0	Mm.295397	NM_145470	ENSMUSG00000022419	Deptor	Depdc6	DEP domain containing MTOR-interacting protein	protein-coding	9.0	15.0	14.5	368.0	14.5	11.0	20.0	12.0
Merged-chr10-41473917-4	chr10	41473813	41474013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2401.0	NM_001164433	171580.0	Mm.290431	NM_138315	ENSMUSG00000019823	Mical1	MICAL|MICAL-1|Nical	microtubule associated monooxygenase, calponin and LIM domain containing 1	protein-coding	62.5	98.0	42.0	730.0	131.5	44.0	59.0	64.0
Merged-chr13-115209575-4	chr13	115209466	115209666	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107602.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	20.0	30.5	16.0	221.5	56.5	27.5	20.5	21.0
Merged-chr11-75533133-4	chr11	75533037	75533237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 2 of 13)	intron (NM_001199284, intron 2 of 13)	1025.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	46.0	51.5	46.0	772.5	99.5	43.5	51.5	50.0
Merged-chr13-5988645-4	chr13	5988541	5988741	+	933.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	127152.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	16.5	9.5	9.0	158.0	39.0	12.5	18.0	8.5
Merged-chr14-30137118-4	chr14	30137019	30137219	+	955.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 9 of 46)	intron (NM_001083616, intron 9 of 46)	114486.0	NM_175343	218865.0	Mm.259916	NM_172264	ENSMUSG00000015970	Chdh	AU041472|D630034H06Rik	choline dehydrogenase	protein-coding	18.5	21.5	26.0	259.5	35.0	6.5	20.5	14.0
Merged-chr9-116146643-3	chr9	116146591	116146791	+	703.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	28672.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	5.0	5.5	6.5	123.5	6.5	0.0	0.0	0.5
Merged-chr1-135811468-3	chr1	135811353	135811553	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001112702)	TTS (NM_001112702)	-7145.0	NM_133664	16763.0	Mm.36726	NM_133664	ENSMUSG00000041782	Lad1	LADA|lad-1	ladinin	protein-coding	4.0	9.0	5.0	45.5	15.0	10.5	6.0	8.5
Merged-chr12-91305995-4	chr12	91305906	91306106	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181815, intron 10 of 25)	intron (NM_181815, intron 10 of 25)	78403.0	NM_181815	75216.0	Mm.312204	NM_181815	ENSMUSG00000061533	Cep128	4930534B04Rik|5430424K18Rik|AI449708|AI480494|E230024F20	centrosomal protein 128	protein-coding	45.0	53.0	39.0	603.0	73.0	32.5	25.0	17.5
Merged-chr13-73461691-4	chr13	73461601	73461801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5682.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	19.5	20.5	23.5	419.5	58.5	7.0	18.0	16.0
Merged-chr3-97211410-4	chr3	97211305	97211505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029933, intron 7 of 9)	intron (NM_029933, intron 7 of 9)	15959.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	82.0	154.5	150.0	1970.5	306.5	113.5	137.0	151.0
Merged-chr6-127151784-4	chr6	127151667	127151867	+	984.1785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009829)	promoter-TSS (NM_009829)	-719.0	NM_009829	12444.0	Mm.333406	NM_009829	ENSMUSG00000000184	Ccnd2	2600016F06Rik|AI256817|BF642806|C86853|Vin-1|Vin1|cD2	cyclin D2	protein-coding	15.5	20.0	21.5	222.5	35.5	18.0	19.0	7.0
Merged-chr2-146959504-5	chr2	146959438	146959638	+	971.213318	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033298, intron 12 of 13)	intron (NM_001033298, intron 12 of 13)	-53461.0	NM_001356403	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	11.5	14.5	7.0	112.0	26.5	7.0	16.5	18.0
Merged-chr15-6435938-3	chr15	6435828	6436028	+	855.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 11 of 13)	intron (NM_001008702, intron 11 of 13)	-9405.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	5.5	4.5	11.5	108.0	15.5	7.0	4.0	5.5
Merged-chr10-94047266-1	chr10	94047166	94047366	+	576.0	f0_c57.idr	intron (NM_053072, intron 2 of 20)	intron (NM_053072, intron 2 of 20)	11265.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	2.0	6.5	5.5	21.5	13.5	8.5	14.0	12.0
Merged-chr14-32513516-4	chr14	32513425	32513625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081221)	promoter-TSS (NM_001081221)	4.0	NM_001081221	319955.0	Mm.318310	NM_001081221	ENSMUSG00000054051	Ercc6	4732403I04|C130058G22Rik|CSB	excision repair cross-complementing rodent repair deficiency, complementation group 6	protein-coding	63.5	83.0	55.5	624.0	104.5	47.5	55.0	50.0
Merged-chr15-95887578-4	chr15	95887466	95887666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 2 of 19)	intron (NM_175344, intron 2 of 19)	-57494.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	31.5	57.5	39.0	488.0	46.0	28.0	36.0	26.5
Merged-chr1-24613074-3	chr1	24612973	24613173	+	976.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25636.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	11449.0	18241.0	11873.5	184914.0	2.5	0.5	18.5	0.0
Merged-chr12-73964458-4	chr12	73964343	73964543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178392)	promoter-TSS (NM_178392)	-87.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	106.5	200.5	104.0	1575.0	395.5	110.5	177.0	102.5
Merged-chr2-75788620-6	chr2	75788475	75788675	+	854.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43602.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	4.5	22.0	5.0	87.0	53.5	12.0	14.5	11.0
Merged-chr7-19821991-3	chr7	19821853	19822053	+	816.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033601, intron 1 of 8)	intron (NM_033601, intron 1 of 8)	802.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	10.0	7.5	10.0	66.0	19.0	3.5	12.5	7.5
Merged-chr7-27508770-4	chr7	27508673	27508873	+	964.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019412, intron 5 of 5)	B3|SINE|B2	9449.0	NM_019412	19153.0	Mm.10119	NM_019412	ENSMUSG00000053198	Prx	L-Periaxin	periaxin	protein-coding	11.5	35.5	10.5	205.0	52.5	16.0	20.0	8.5
Merged-chr11-96789166-4	chr11	96789097	96789297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007622)	promoter-TSS (NM_007622)	61.0	NM_007622	12412.0	Mm.29055	NM_007622	ENSMUSG00000018666	Cbx1	Cbx|Cbx-rs2|E430007M08Rik|HP1B|Hp1beta|M31|MOD1	chromobox 1	protein-coding	64.0	83.5	77.5	590.0	103.5	59.0	58.0	55.5
Merged-chr1-60580058-4	chr1	60579959	60580159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1b|LTR|Gypsy	-13294.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	67.5	101.5	127.0	1704.5	167.5	47.0	61.5	67.5
Merged-chr2-116989502-4	chr2	116989407	116989607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89355.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	107.5	121.0	77.5	1249.0	199.0	87.5	98.0	81.0
Merged-chr1-138619296-4	chr1	138619205	138619405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 1 of 9)	CpG	452.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	82.0	130.5	93.0	1533.0	241.5	81.5	84.0	92.0
Merged-chr6-146192168-3	chr6	146192100	146192300	+	896.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 46 of 56)	intron (NM_019923, intron 46 of 56)	258078.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	5.5	13.0	7.0	97.5	1.0	0.0	1.0	1.0
Merged-chr17-35178775-4	chr17	35178710	35178910	+	795.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2758.0	NM_001361501	11629.0	Mm.10747	NM_019467	ENSMUSG00000024397	Aif1	AI607846|AIF-1|D17H6S50E|G1|Iba1	allograft inflammatory factor 1	protein-coding	4.5	13.5	11.0	70.5	16.0	4.0	7.5	8.0
Merged-chr14-18331237-4	chr14	18331142	18331342	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009455, intron 1 of 5)	CpG	602.0	NM_009455	22194.0	Mm.4429	NM_009455	ENSMUSG00000021774	Ube2e1	UbcM3|Ubce5|ubcM2	ubiquitin-conjugating enzyme E2E 1	protein-coding	17.5	29.0	39.5	346.5	60.0	20.0	15.0	27.5
Merged-chr8-3500466-4	chr8	3500373	3500573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053177)	promoter-TSS (NM_053177)	-46.0	NM_053177	94178.0	Mm.8356	NM_053177	ENSMUSG00000004567	Mcoln1	2210015I05Rik|TRPML1|mucolipidin	mucolipin 1	protein-coding	91.0	178.5	98.5	1339.0	263.0	108.5	103.5	102.5
Merged-chr13-65019493-4	chr13	65019392	65019592	+	984.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13566.0	NM_001083890	238683.0	Mm.295543	NM_001083890	ENSMUSG00000074849	Spata31d1c	4932441B19Rik|Fam75d1c	spermatogenesis associated 31 subfamily D, member 1C	protein-coding	13.5	19.0	27.0	610.5	42.5	21.5	18.0	33.0
Merged-chr10-96502214-4	chr10	96502121	96502321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-114780.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	61.0	78.0	88.5	1051.5	111.0	45.5	55.0	33.0
Merged-chr4-151862594-4	chr4	151862495	151862695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195565)	promoter-TSS (NM_001195565)	-827.0	NM_001195565	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	294.0	409.5	258.0	4111.0	770.5	288.0	306.5	268.5
Merged-chr14-73388717-4	chr14	73388589	73388789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3400.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	65.0	56.5	81.0	1587.0	138.5	72.5	52.0	74.0
Merged-chr4-107084416-3	chr4	107084310	107084510	+	829.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175471, exon 9 of 9)	3' UTR (NM_175471, exon 9 of 9)	-12481.0	NM_172873	242603.0	Mm.257231	NM_172873	ENSMUSG00000047636	Cdcp2	D030010E02Rik	CUB domain containing protein 2	protein-coding	7.0	15.5	6.0	94.0	1.0	2.0	8.5	1.5
Merged-chr16-17368197-1	chr16	17368097	17368297	+	678.0	f0_balb.idr	intron (NM_001001983, intron 7 of 54)	intron (NM_001001983, intron 7 of 54)	36826.0	NM_001331047	15160.0	Mm.6609	NM_008223	ENSMUSG00000022766	Serpind1	AA985900|AI303446|HC-II|HCII|Hcf2	serine (or cysteine) peptidase inhibitor, clade D, member 1	protein-coding	6.0	6.0	8.0	134.0	5.0	0.5	3.5	4.5
Merged-chr4-121098122-4	chr4	121098027	121098227	+	939.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172700, exon 1 of 10)	5' UTR (NM_172700, exon 1 of 10)	116.0	NM_172700	230709.0	Mm.34399	NM_172700	ENSMUSG00000043207	Zmpste24	A530043O15Rik|D030046F19|FACE1|Face-1|MADB|STE24|Ste24p	zinc metallopeptidase, STE24	protein-coding	16.5	20.0	14.5	114.0	33.5	15.5	13.0	20.0
Merged-chr11-22632500-1	chr11	22632400	22632600	+	555.0	f0_balb.idr	Intergenic	Intergenic	120217.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	7.0	4.5	7.5	93.5	7.5	6.0	5.0	5.0
Merged-chr5-64230313-4	chr5	64230214	64230414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289514)	promoter-TSS (NM_001289514)	-43.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	221.5	335.0	250.0	3402.5	538.0	196.0	241.0	210.0
Merged-chr13-51315722-4	chr13	51315629	51315829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92889.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	24.0	37.0	33.5	549.5	69.0	19.5	29.0	25.0
Merged-chr2-151973485-4	chr2	151973382	151973582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289151)	promoter-TSS (NM_001289151)	-88.0	NM_001289151	73847.0	Mm.272444	NM_028666	ENSMUSG00000027459	Fam110a	1700008J10Rik|5430432M24Rik|AI747080	family with sequence similarity 110, member A	protein-coding	31.0	32.0	25.5	389.5	42.0	19.0	44.0	28.0
Merged-chr1-55131157-4	chr1	55131071	55131271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025283)	promoter-TSS (NM_025283)	-74.0	NM_001310585	19070.0	Mm.291037	NM_025283	ENSMUSG00000025979	Mob4	2610109B12Rik|Mobkl3|Phocn|Prei3	MOB family member 4, phocein	protein-coding	169.0	225.5	152.5	2396.0	422.5	160.5	176.5	135.0
Merged-chr8-85554962-3	chr8	85554864	85555064	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019794, intron 1 of 8)	CpG	307.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	15.0	46.0	25.0	394.5	64.5	17.0	29.0	26.5
Merged-chr17-64616430-4	chr17	64616333	64616533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	14784.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	109.5	120.0	112.5	2177.0	234.5	83.0	110.5	68.5
Merged-chr8-70626314-4	chr8	70626202	70626402	+	917.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVK26-int|LTR|ERVK	5793.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	19.0	27.0	9.0	315.5	35.5	6.5	13.0	7.0
Merged-chr13-18717312-4	chr13	18717213	18717413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172120)	promoter-TSS (NM_172120)	21.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	134.5	151.0	76.5	1496.5	275.5	120.5	113.0	111.0
Merged-chr5-102640818-3	chr5	102640725	102640925	+	728.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029270, intron 2 of 9)	intron (NM_029270, intron 2 of 9)	-127985.0	NM_001286468	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	6.5	5.0	11.0	109.5	9.0	13.0	9.5	12.0
Merged-chr15-6601513-4	chr15	6601393	6601593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011815, intron 1 of 17)	intron (NM_011815, intron 1 of 17)	21646.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	48.5	85.0	80.5	998.5	138.0	55.5	38.5	63.0
Merged-chr14-20885700-4	chr14	20885603	20885803	+	960.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43695.0	NM_009502	22330.0	Mm.279361	NM_009502	ENSMUSG00000021823	Vcl	9430097D22|AA571387|AI462105|AW545629	vinculin	protein-coding	8.0	26.0	19.0	320.0	52.0	6.5	17.0	21.5
Merged-chr11-101763855-3	chr11	101763764	101763964	+	849.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144831, intron 19 of 22)	intron (NM_144831, intron 19 of 22)	21446.0	NM_008815	18612.0	Mm.5025	NM_008815	ENSMUSG00000017724	Etv4	AW414408|Pea-3|Pea3	ets variant 4	protein-coding	6.0	20.0	6.0	122.5	23.5	4.0	8.5	8.0
Merged-chr12-17011660-4	chr12	17011562	17011762	+	821.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201332)	promoter-TSS (NM_001201332)	65.0	NM_001201332	73667.0	Mm.159048	NM_001201332	ENSMUSG00000071398	2410004P03Rik	-	RIKEN cDNA 2410004P03 gene	protein-coding	20.5	30.5	22.0	175.0	32.5	7.0	14.5	15.0
Merged-chr15-27671818-4	chr15	27671734	27671934	+	970.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	9708.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	15.5	20.0	25.0	245.5	38.5	21.0	14.0	14.5
Merged-chr4-138304675-4	chr4	138304559	138304759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007838)	promoter-TSS (NM_007838)	-79.0	NM_007838	13200.0	Mm.7236	NM_007838	ENSMUSG00000028757	Ddost	-	dolichyl-di-phosphooligosaccharide-protein glycotransferase	protein-coding	216.0	434.0	262.0	2942.5	492.5	259.5	235.0	241.0
Merged-chr11-43223723-3	chr11	43223624	43223824	+	884.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176999, intron 14 of 22)	intron (NM_176999, intron 14 of 22)	73847.0	NM_176999	319767.0	Mm.252339	NM_176999	ENSMUSG00000055415	Atp10b	5930426O13Rik|9030605H24Rik	ATPase, class V, type 10B	protein-coding	16.0	8.0	13.0	66.0	18.0	5.5	17.5	12.0
Merged-chr15-53344027-1	chr15	53343927	53344127	+	761.0	f0_balb.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	2156.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.0	6.5	7.0	117.5	16.0	6.0	6.0	6.5
Merged-chr2-101665445-4	chr2	101665343	101665543	+	966.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12977.0	NM_009424	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	23.0	34.0	15.5	235.0	34.0	14.0	19.5	16.5
Merged-chr7-110190263-4	chr7	110190157	110190357	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31446.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	40.0	86.5	27.5	374.5	109.5	37.0	40.0	27.5
Merged-chr5-64933611-4	chr5	64933495	64933695	+	860.4541630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276445)	promoter-TSS (NM_001276445)	-37.0	NM_001276445	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	10.0	18.5	12.5	117.0	47.0	9.0	9.0	21.5
Merged-chr2-172346210-4	chr2	172346105	172346305	+	883.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025912, intron 1 of 2)	intron (NM_025912, intron 1 of 2)	628.0	NM_025912	67017.0	Mm.30013	NM_025912	ENSMUSG00000027495	Fam210b	2010011I20Rik|AI430961|AV108736	family with sequence similarity 210, member B	protein-coding	12.5	14.0	18.5	222.5	32.5	11.5	11.5	15.0
Merged-chr4-83273914-4	chr4	83273797	83273997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 2 of 19)	intron (NM_027238, intron 2 of 19)	50292.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	159.5	229.0	227.5	3053.0	360.0	114.0	212.0	135.0
Merged-chr2-130962090-2	chr2	130961980	130962180	+	839.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009730, intron 10 of 28)	intron (NM_009730, intron 10 of 28)	55585.0	NM_009730	11990.0	Mm.119936	NM_009730	ENSMUSG00000027312	Atrn	AW558010|Mgca|mg	attractin	protein-coding	4.5	8.5	9.0	84.0	15.0	4.5	3.0	8.0
Merged-chr10-24790015-2	chr10	24789915	24790115	+	720.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_134005, intron 17 of 24)	intron (NM_134005, intron 17 of 24)	46180.0	NM_134005	209558.0	Mm.338425	NM_134005	ENSMUSG00000019989	Enpp3	AI876438|CD203c	ectonucleotide pyrophosphatase/phosphodiesterase 3	protein-coding	6.5	6.0	5.0	81.0	4.0	1.5	0.5	9.5
Merged-chr14-79426488-4	chr14	79426390	79426590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024135)	promoter-TSS (NM_001024135)	-21.0	NM_001024135	211255.0	Mm.284526	NM_001024135	ENSMUSG00000043881	Kbtbd7	1110008P08Rik|AU045792|Gm295	kelch repeat and BTB (POZ) domain containing 7	protein-coding	248.5	378.5	246.5	4382.5	537.0	202.0	306.5	224.5
Merged-chr3-151748701-4	chr3	151748638	151748838	+	810.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133871, intron 2 of 7)	intron (NM_133871, intron 2 of 7)	1221.0	NM_133871	99899.0	Mm.30756	NM_133871	ENSMUSG00000028037	Ifi44	A430056A10Rik|AW261460|MTAP44|p44	interferon-induced protein 44	protein-coding	10.0	7.5	12.0	105.0	30.5	6.0	12.5	7.5
Merged-chr18-60747942-7	chr18	60747823	60748023	+	925.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	497.0	NM_001348100	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	2.0	10.5	12.5	114.0	31.0	15.5	9.5	18.5
Merged-chr8-45333748-4	chr8	45333642	45333842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133969)	promoter-TSS (NM_133969)	-546.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	121.5	159.5	123.5	2168.0	306.0	63.0	128.5	102.5
Merged-chr19-32951005-4	chr19	32950903	32951103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	193426.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	55.0	67.0	48.0	839.0	125.5	37.0	54.0	49.5
Merged-chr3-89419112-4	chr3	89419076	89419276	+	811.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016904)	promoter-TSS (NM_016904)	625.0	NM_011368	20416.0	Mm.86595	NM_011368	ENSMUSG00000042626	Shc1	Shc|ShcA|p66|p66shc	src homology 2 domain-containing transforming protein C1	protein-coding	8.5	11.0	9.0	138.5	26.5	8.5	8.0	6.5
Merged-chr8-120363949-4	chr8	120363861	120364061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-124905.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	56.0	54.0	87.5	1740.5	144.0	21.5	48.5	58.5
Merged-chr5-138705368-1	chr5	138705268	138705468	+	622.0	f0_balb.idr	Intergenic	Intergenic	-49713.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	6.0	14.0	11.0	109.0	1.0	0.0	0.0	0.5
Merged-chr9-122957593-3	chr9	122957478	122957678	+	893.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010620, intron 1 of 34)	MLTR14|LTR|ERV1	6497.0	NM_010620	209737.0	Mm.278920	NM_010620	ENSMUSG00000036768	Kif15	3110023M17Rik|3930402I10Rik|D330038N01|HKLP2|Knsl7|b2b1117.1Clo|b2b1117.1aClo	kinesin family member 15	protein-coding	6.5	7.5	6.5	44.5	25.5	9.0	8.0	12.5
Merged-chr10-120197763-4	chr10	120197665	120197865	+	779.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 1 of 11)	intron (NM_001359184, intron 1 of 11)	3832.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	7.0	16.5	12.0	123.0	32.0	11.5	20.0	11.0
Merged-chr8-64941675-4	chr8	64941602	64941802	+	874.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5483.0	NM_001163747	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	12.0	16.5	7.5	215.0	18.5	3.0	13.0	9.5
Merged-chr9-62040385-3	chr9	62040300	62040500	+	685.416687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13610.0	NM_028748	74090.0	Mm.273267	NM_028748	ENSMUSG00000032278	Paqr5	0610010I15Rik|AV002411|BB115488|mPRg	progestin and adipoQ receptor family member V	protein-coding	3.0	6.5	3.5	81.0	32.0	6.5	5.5	9.0
Merged-chr1-134785100-4	chr1	134784984	134785184	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081307, intron 18 of 23)	intron (NM_001081307, intron 18 of 23)	18637.0	NR_015606	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	22.5	48.0	32.5	567.0	48.0	32.0	26.0	19.5
Merged-chr4-130797211-7	chr4	130797112	130797312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	4675.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	26.0	40.5	26.5	536.5	94.5	20.0	22.5	25.5
Merged-chr2-172420630-4	chr2	172420559	172420759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 2 of 6)	intron (NM_001080820, intron 2 of 6)	-19919.0	NM_025542	66404.0	Mm.25157	NM_025542	ENSMUSG00000027502	Rtf2	1700067C04Rik|2410001C21Rik|5730427M17Rik|AA589417|Rtfdc1	replication termination factor 2	protein-coding	100.5	216.5	145.5	1080.0	264.5	109.0	72.0	60.5
Merged-chr3-67512998-4	chr3	67512900	67513100	+	963.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164763, intron 1 of 5)	intron (NM_001164763, intron 1 of 5)	2523.0	NM_001164763	109222.0	Mm.38002	NM_001164763	ENSMUSG00000049404	Rarres1	5430417P09Rik|AI662122	retinoic acid receptor responder (tazarotene induced) 1	protein-coding	21.0	32.5	15.0	373.5	60.0	13.5	29.0	24.0
Merged-chr18-75943737-4	chr18	75943636	75943836	+	780.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	MLT1A0|LTR|ERVL-MaLR	-115590.0	NM_001357506	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	7.0	14.0	9.0	124.5	17.0	15.5	14.0	14.5
Merged-chr9-121305653-4	chr9	121305535	121305735	+	752.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	8133.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	6.0	8.0	3.0	91.0	26.5	14.5	18.5	7.5
Merged-chr2-51982423-4	chr2	51982325	51982525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9217.0	NM_001141948	64685.0	Mm.7491	NM_019401	ENSMUSG00000026946	Nmi	-	N-myc (and STAT) interactor	protein-coding	33.5	43.0	26.0	577.5	68.5	20.5	39.0	28.5
Merged-chr11-44496272-3	chr11	44496190	44496390	+	992.033325	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22674.0	NM_028862	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	3.0	5.0	3.0	44.0	51.0	17.5	26.0	11.5
Merged-chr6-122801583-12	chr6	122801396	122801596	+	850.493042	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18688.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	13.0	16.0	10.0	141.5	16.0	8.0	7.5	12.5
Merged-chr2-104590321-4	chr2	104590232	104590432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177253)	promoter-TSS (NM_177253)	-152.0	NM_177253	228410.0	Mm.259876	NM_145529	ENSMUSG00000027176	Cstf3	4732468G05Rik|C79532|CstF-77	cleavage stimulation factor, 3' pre-RNA, subunit 3	protein-coding	395.0	642.0	470.0	6361.0	890.5	321.5	461.0	342.5
Merged-chr3-64204965-3	chr3	64204865	64205065	+	844.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-67485.0	NM_001104592	100125586.0	Mm.469888	NM_001104592	ENSMUSG00000043897	Vmn2r2	-	vomeronasal 2, receptor 2	protein-coding	7.0	14.5	10.0	134.0	15.0	7.5	6.5	11.5
Merged-chr4-59177748-4	chr4	59177643	59177843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11807.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	92.5	148.0	124.0	1873.0	203.5	84.5	96.0	74.5
Merged-chr14-25459635-3	chr14	25459551	25459751	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	CpG	466.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	13.0	35.0	22.0	309.0	42.5	13.5	11.0	20.5
Merged-chr5-64377181-2	chr5	64377081	64377281	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90761.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	2.5	2.5	1.5	41.5	15.5	6.5	5.0	9.0
Merged-chr6-59185485-4	chr6	59185386	59185586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23384.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	154.0	158.0	161.5	2711.0	351.0	136.5	155.5	114.0
Merged-chr6-51558526-4	chr6	51558435	51558635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	intron (NM_001361577, intron 1 of 6)	13242.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	78.0	90.5	68.5	1210.0	146.5	49.0	78.0	50.5
Merged-chr1-151339046-4	chr1	151338964	151339164	+	889.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5422.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	8.0	5.0	13.5	288.0	23.5	4.0	5.0	11.5
Merged-chr2-158174058-4	chr2	158173963	158174163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17945.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	16.0	25.0	25.0	725.5	68.5	21.0	28.0	37.0
Merged-chr6-34629209-4	chr6	34629109	34629309	+	920.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	intron (NM_001347100, intron 1 of 13)	30705.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	10.5	20.0	12.0	222.0	41.5	4.5	13.5	9.0
Merged-chr8-6119655-3	chr8	6119572	6119772	+	972.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1014385.0	NM_011388	20494.0	Mm.3500	NM_011388	ENSMUSG00000023073	Slc10a2	9130221J18Rik|AI605518|ASBT|IBAT|ISBT	solute carrier family 10, member 2	protein-coding	2.0	4.5	4.0	62.5	61.5	19.0	38.0	33.0
Merged-chr12-3346768-2	chr12	3346668	3346868	+	673.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18364.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	7.0	3.5	4.0	17.0	18.0	8.5	5.0	6.0
Merged-chr5-137831714-4	chr5	137831616	137831816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153510, intron 2 of 6)	MLTR14|LTR|ERV1	4562.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	55.5	71.0	40.5	809.0	74.0	31.0	51.0	43.0
Merged-chr11-4629850-3	chr11	4629755	4629955	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027797, intron 1 of 3)	MIR3|SINE|MIR	156.0	NR_027797	327860.0	Mm.186065	NM_177799	ENSMUSG00000056288	Gm11961	-	predicted gene 11961	ncRNA	9.5	11.0	5.0	141.0	18.5	7.0	3.5	7.0
Merged-chr14-21812924-4	chr14	21812833	21813033	+	962.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18628.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	18.0	25.0	9.5	99.5	64.5	17.5	24.0	22.0
Merged-chr12-79352340-4	chr12	79352246	79352446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	54995.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	14.5	19.5	19.0	272.5	60.0	24.5	28.5	34.0
Merged-chr13-119342077-4	chr13	119341983	119342183	+	833.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308506, intron 14 of 16)	B3A|SINE|B2	66928.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	5.0	12.5	12.0	99.0	27.0	9.5	19.0	2.0
Merged-chr3-16180655-4	chr3	16180580	16180780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD3|LINE|L1	-2485.0	NM_001358043	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	58.5	83.0	47.0	869.0	131.0	44.0	72.0	46.5
Merged-chr2-114200340-4	chr2	114200225	114200425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175466, intron 1 of 1)	intron (NM_175466, intron 1 of 1)	1107.0	NM_175466	228491.0	Mm.132523	NM_175466	ENSMUSG00000040321	Zfp770	6430601A21Rik|Znf770	zinc finger protein 770	protein-coding	47.0	63.5	59.0	558.0	96.0	51.0	63.0	39.5
Merged-chr10-83344003-4	chr10	83343914	83344114	+	816.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6197.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	8.0	11.0	7.5	116.0	22.5	2.5	13.0	8.5
Merged-chr4-120826893-4	chr4	120826763	120826963	+	953.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048168, intron 1 of 9)	intron (NM_001048168, intron 1 of 9)	-1122.0	NM_008692	18046.0	Mm.318389	NM_008692	ENSMUSG00000032897	Nfyc	-	nuclear transcription factor-Y gamma	protein-coding	12.5	13.0	17.5	214.5	22.0	16.0	21.0	10.0
Merged-chr19-40247477-3	chr19	40247380	40247580	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016861, intron 3 of 6)	intron (NM_016861, intron 3 of 6)	24136.0	NM_016861	54132.0	Mm.5567	NM_016861	ENSMUSG00000055044	Pdlim1	CLP36|Clim1|mClim1	PDZ and LIM domain 1 (elfin)	protein-coding	9.0	28.0	5.0	302.5	13.0	7.0	6.0	8.5
Merged-chr15-97361867-4	chr15	97361798	97361998	+	863.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 4 of 5)	intron (NM_172293, intron 4 of 5)	-114611.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	13.0	4.5	9.5	129.0	22.0	8.0	7.0	7.5
Merged-chr9-32509235-2	chr9	32509135	32509335	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	32217.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	17.0	33.5	13.5	466.5	45.0	16.5	15.0	37.0
Merged-chr4-9111156-4	chr4	9111055	9111255	+	849.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-158138.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	13.5	14.5	10.0	268.5	23.5	10.0	4.5	12.0
Merged-chr4-106316655-4	chr4	106316548	106316748	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183225, exon 1 of 68)	exon (NM_183225, exon 1 of 68)	435.0	NM_183225	329908.0	Mm.234544	NM_183225	ENSMUSG00000028514	Usp24	2700066K03Rik|2810030C21Rik|AI414051|B130021E18|C79851	ubiquitin specific peptidase 24	protein-coding	19.5	8.5	16.0	132.5	31.5	4.5	7.5	21.0
Merged-chr5-114689840-4	chr5	114689746	114689946	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019821, intron 1 of 4)	intron (NM_019821, intron 1 of 4)	1089.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	6.0	10.5	19.5	168.0	37.0	9.5	12.5	22.0
Merged-chr6-21959521-2	chr6	21959421	21959621	+	967.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 4 of 11)	Lx9|LINE|L1	9906.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	5.0	3.0	7.0	28.0	7.5	5.0	5.0	8.0
Merged-chr17-73939161-3	chr17	73939053	73939253	+	961.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 4 of 35)	MTE2b|LTR|ERVL-MaLR	11043.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	7.0	20.5	11.0	193.5	13.5	16.0	3.5	7.5
Merged-chr3-51720445-3	chr3	51720355	51720555	+	966.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	RMER19A|LTR|ERVK	59276.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	13.5	20.5	27.5	228.5	21.0	4.5	10.0	11.5
Merged-chr15-58595006-3	chr15	58594883	58595083	+	931.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	179515.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	6.5	14.0	18.5	299.0	15.5	3.0	13.0	9.0
Merged-chr2-39373274-4	chr2	39373180	39373380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146931.0	NM_024209	67857.0	Mm.389242	NM_024209	ENSMUSG00000026753	Ppp6c	2310003C10Rik|Pp6C	protein phosphatase 6, catalytic subunit	protein-coding	25.0	61.5	23.0	725.5	85.0	23.0	44.0	30.0
Merged-chr9-75558652-6	chr9	75558594	75558794	+	965.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	963.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	7.0	11.5	7.5	107.0	21.5	13.5	11.5	13.0
Merged-chr8-105471490-4	chr8	105471418	105471618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026481)	promoter-TSS (NM_026481)	-96.0	NM_026481	67971.0	Mm.29358	NM_026481	ENSMUSG00000014846	Tppp3	2700055K07Rik|CGI-38|Ceacam9|mmCGM8	tubulin polymerization-promoting protein family member 3	protein-coding	156.0	263.0	220.0	3175.5	446.0	169.5	258.5	183.5
Merged-chr15-5607619-6	chr15	5607523	5607723	+	955.8472289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111305.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	14.5	19.0	23.0	319.5	42.5	13.0	14.5	19.5
Merged-chr5-125386006-2	chr5	125385906	125386106	+	914.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_019639)	TTS (NM_019639)	4011.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	10.5	31.0	4.5	8.0	21.0	6.5	6.5	2.5
Merged-chr10-78493696-3	chr10	78493599	78493799	+	625.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28751.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	7.0	7.5	5.5	95.0	14.0	4.0	3.5	9.0
Merged-chr2-118790823-3	chr2	118790692	118790892	+	950.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_170593, exon 8 of 8)	exon (NM_170593, exon 8 of 8)	11073.0	NM_170593	214240.0	Mm.221499	NM_170593	ENSMUSG00000040035	Disp2	AI840597|B230210L08Rik|DispB|mKIAA1742	dispatched RND tramsporter family member 2	protein-coding	12.0	17.5	4.0	167.5	14.5	6.0	13.5	9.0
Merged-chr1-182868072-4	chr1	182867999	182868199	+	799.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356462, intron 5 of 8)	intron (NM_001356462, intron 5 of 8)	-86689.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	9.0	10.5	10.0	157.0	16.5	4.5	15.5	11.5
Merged-chr11-23007767-4	chr11	23007651	23007851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5636.0	NM_028672	73873.0	Mm.252406	NM_028672	ENSMUSG00000049811	Fam161a	4930430E16Rik	family with sequence similarity 161, member A	protein-coding	98.0	127.5	94.5	1765.5	239.0	56.0	99.0	76.0
Merged-chr7-39544388-4	chr7	39544307	39544507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26641.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	69.5	68.5	101.0	1519.0	149.0	62.0	89.0	63.0
Merged-chr4-43005907-4	chr4	43005794	43005994	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053081, intron 8 of 13)	intron (NM_053081, intron 8 of 13)	4407.0	NM_001163233	60534.0	Mm.23122	NM_053081	ENSMUSG00000028453	Fancg	AU041407|Xrcc9	Fanconi anemia, complementation group G	protein-coding	36.5	62.0	17.5	309.0	86.0	23.5	32.5	39.5
Merged-chr17-12135199-4	chr17	12135168	12135368	+	967.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 1 of 8)	intron (NM_026644, intron 1 of 8)	15984.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	4.5	11.0	23.0	258.0	23.5	6.5	25.0	17.0
Merged-chr9-13560175-4	chr9	13560086	13560286	+	867.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59803.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	10.0	16.5	10.0	168.0	30.0	2.5	8.0	20.0
Merged-chr4-128617770-5	chr4	128617585	128617785	+	839.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_205823, exon 1 of 1)	exon (NM_205823, exon 1 of 1)	934.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	5.5	4.5	4.5	73.5	12.0	5.5	2.0	5.0
Merged-chr16-76321696-2	chr16	76321610	76321810	+	688.833374	f0_balb.idr|f0_c57.idr	intron (NM_001358238, intron 3 of 3)	intron (NM_001358238, intron 3 of 3)	51339.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	7.5	15.0	8.0	130.0	20.5	7.0	10.5	7.5
Merged-chr2-121143481-1	chr2	121143381	121143581	+	627.0	f0_c57.idr	intron (NM_001290812, intron 3 of 8)	intron (NM_001290812, intron 3 of 8)	1388.0	NM_029475	75894.0	Mm.384805	NM_029475	ENSMUSG00000027259	Adal	4930578F03Rik	adenosine deaminase-like	protein-coding	2.0	4.5	0.0	33.5	20.5	5.5	12.5	7.5
Merged-chr11-51967611-4	chr11	51967509	51967709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029976)	promoter-TSS (NM_029976)	-22.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	77.5	69.5	42.0	853.0	185.5	62.0	67.5	62.5
Merged-chr5-72263165-4	chr5	72263076	72263276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 11 of 22)	intron (NR_003966, intron 11 of 22)	59833.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	27.0	46.0	22.0	855.0	109.5	39.5	34.5	34.5
Merged-chr15-100227226-4	chr15	100227142	100227342	+	897.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007497)	promoter-TSS (NM_007497)	-617.0	NM_007497	11908.0	Mm.676	NM_007497	ENSMUSG00000023027	Atf1	-	activating transcription factor 1	protein-coding	16.0	21.0	8.0	82.5	33.0	21.5	15.0	20.0
Merged-chr11-88187974-4	chr11	88187839	88188039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172099, intron 6 of 9)	intron (NM_001172099, intron 6 of 9)	-6167.0	NM_001291270	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	22.0	23.5	34.0	198.5	40.0	22.0	23.0	24.5
Merged-chr3-95228753-4	chr3	95228655	95228855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019914)	promoter-TSS (NM_019914)	-78.0	NM_019914	56772.0	Mm.331208	NM_019914	ENSMUSG00000053192	Mllt11	AI839562|Af1q|Zfp692	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 11	protein-coding	50.0	82.5	53.5	883.5	132.0	42.5	78.5	66.0
Merged-chr13-55693497-4	chr13	55693405	55693605	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181278, intron 1 of 1)	CpG	381.0	NM_181278	78521.0	Mm.28449	NM_181278	ENSMUSG00000045767	B230219D22Rik	AA119856|D530037I19Rik	RIKEN cDNA B230219D22 gene	protein-coding	15.0	30.0	12.0	256.0	44.0	33.5	30.5	21.5
Merged-chr16-18687102-4	chr16	18687003	18687203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57165.0	NM_213614	18951.0	Mm.20365	NM_213614	ENSMUSG00000072214	Sept5	Cdcrel-1|Cdcrel1|Pnutl1	septin 5	protein-coding	84.5	142.0	122.0	1826.5	85.0	18.0	72.5	46.5
Merged-chr5-103644363-3	chr5	103644256	103644456	+	820.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	11368.0	NM_028824	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	9.0	9.0	11.5	166.5	7.0	3.5	7.0	4.5
Merged-chr17-87102625-2	chr17	87102534	87102734	+	793.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5045.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	10.5	5.5	5.5	39.0	22.0	10.5	3.0	5.0
Merged-chr11-70792656-4	chr11	70792575	70792775	+	837.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 4 of 4)	MLT1A1|LTR|ERVL-MaLR	19886.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	14.0	9.0	6.0	83.0	41.0	25.5	10.5	17.0
Merged-chr12-77047438-1	chr12	77047338	77047538	+	819.25	f0_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-85190.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	12.5	15.0	12.5	169.0	15.5	4.0	19.0	5.0
Merged-chr11-117175175-4	chr11	117175077	117175277	+	934.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-24484.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	16.0	20.5	14.0	156.0	27.0	18.5	15.5	7.0
Merged-chr4-47315641-4	chr4	47315516	47315716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37606.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	155.5	188.5	214.0	2982.0	303.0	105.0	148.0	125.5
Merged-chr14-27178769-3	chr14	27178690	27178890	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	MLT1D|LTR|ERVL-MaLR	34797.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	12.0	23.5	9.5	273.5	9.5	0.0	5.0	3.5
Merged-chr11-9531052-4	chr11	9530955	9531155	+	886.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 45 of 61)	intron (NM_178259, intron 45 of 61)	339113.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	5.5	13.0	18.5	390.5	27.5	15.0	20.0	14.0
Merged-chr16-15889061-3	chr16	15888978	15889178	+	867.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_146068)	TTS (NM_146068)	1792.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	8.5	3.0	9.0	66.5	28.0	8.5	5.0	7.5
Merged-chr14-54222573-3	chr14	54222468	54222668	+	777.6777950000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31361.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	2.0	3.0	2.0	13.0	48.0	27.0	13.0	13.0
Merged-chr11-19024643-3	chr11	19024563	19024763	+	921.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5694.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	12.5	11.5	14.5	241.0	37.0	8.5	11.0	8.0
Merged-chr9-44493102-4	chr9	44492969	44493169	+	731.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357490, intron 1 of 7)	intron (NM_001357490, intron 1 of 7)	-6067.0	NM_030256	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	8.5	6.0	5.0	149.0	36.0	6.5	8.5	18.0
Merged-chr5-27791624-4	chr5	27791508	27791708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018878)	promoter-TSS (NM_018878)	-58.0	NM_018878	55982.0	Mm.277190	NM_018878	ENSMUSG00000002221	Paxip1	D5Ertd149e|PTIP	PAX interacting (with transcription-activation domain) protein 1	protein-coding	126.5	153.0	211.5	1605.5	258.0	113.5	104.5	104.5
Merged-chr11-37043361-4	chr11	37043273	37043473	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99132.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	14.5	24.0	19.0	454.0	48.0	30.0	25.5	18.0
Merged-chr2-5801443-4	chr2	5801357	5801557	+	950.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133837, intron 10 of 12)	intron (NM_133837, intron 10 of 12)	-43577.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	25.5	12.0	34.0	445.5	29.0	6.5	18.0	12.5
Merged-chr13-113613398-5	chr13	113613239	113613439	+	932.580017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	5225.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	13.0	5.0	7.0	47.5	22.0	7.5	5.5	9.0
Merged-chr1-82724399-3	chr1	82724296	82724496	+	860.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310699)	promoter-TSS (NM_001310699)	-494.0	NM_001310697	75734.0	Mm.396863	NM_029409	ENSMUSG00000026150	Mff	5230400G24Rik|AI314724	mitochondrial fission factor	protein-coding	6.0	11.5	7.0	112.5	13.5	7.0	5.5	9.0
Merged-chr2-29827812-4	chr2	29827707	29827907	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026615, intron 1 of 4)	intron (NM_026615, intron 1 of 4)	418.0	NM_026615	68205.0	Mm.20273	NM_026615	ENSMUSG00000069020	Urm1	2900073H19Rik	ubiquitin related modifier 1	protein-coding	5.0	14.5	7.0	101.5	40.5	7.5	9.5	15.5
Merged-chr7-126637320-2	chr7	126637220	126637420	+	723.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-11850.0	NM_019738	56312.0	Mm.18742	NM_019738	ENSMUSG00000030717	Nupr1	2310032H04Rik|Com1|p8	nuclear protein transcription regulator 1	protein-coding	6.5	8.0	6.0	47.5	22.5	3.0	4.5	9.0
Merged-chr5-148594885-4	chr5	148594791	148594991	+	717.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42103.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	15.0	6.5	5.5	129.5	24.0	8.0	11.0	7.5
Merged-chr16-91855022-2	chr16	91854922	91855122	+	842.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 23 of 28)	intron (NM_001110275, intron 23 of 28)	76608.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	7.0	5.0	4.0	35.0	20.0	6.0	4.5	6.5
Merged-chr11-3176659-2	chr11	3176517	3176717	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 6 of 32)	B3|SINE|B2	16846.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	54.0	51.0	67.0	835.5	0.5	0.0	0.0	0.5
Merged-chr1-78702555-3	chr1	78702457	78702657	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033606, intron 12 of 14)	intron (NM_001033606, intron 12 of 14)	44117.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	62.0	52.5	59.0	1127.0	15.0	4.5	20.5	6.0
Merged-chr1-127322454-3	chr1	127322349	127322549	+	880.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 4 of 17)	(TG)n|Simple_repeat|Simple_repeat	117463.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	5.5	6.5	2.0	168.0	31.5	6.5	6.5	13.5
Merged-chr4-125124945-4	chr4	125124822	125125022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153159, intron 2 of 5)	intron (NM_153159, intron 2 of 5)	2959.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	84.0	173.5	81.0	820.5	299.0	128.0	127.0	76.0
Merged-chr10-67113534-4	chr10	67113436	67113636	+	935.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13722.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	13.5	32.0	4.5	136.0	69.0	13.5	20.0	15.5
Merged-chr11-106796852-4	chr11	106796756	106796956	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166685, intron 4 of 18)	ID_B1|SINE|B4	7604.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	15.5	36.0	13.0	183.5	46.0	10.0	8.0	6.0
Merged-chr5-21213111-4	chr5	21213036	21213236	+	800.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 5 of 26)	MTD|LTR|ERVL-MaLR	26869.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	14.0	13.0	21.0	195.5	22.5	9.5	11.5	9.0
Merged-chr6-119220468-4	chr6	119220336	119220536	+	629.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033379, exon 9 of 9)	3' UTR (NM_001033379, exon 9 of 9)	-16090.0	NM_001033382	319734.0	Mm.440773	NM_001033382	ENSMUSG00000041460	Cacna2d4	5730412N02Rik|BE686333	calcium channel, voltage-dependent, alpha 2/delta subunit 4	protein-coding	10.5	9.5	4.5	210.5	22.0	5.0	7.5	11.0
Merged-chr9-41207960-3	chr9	41207847	41208047	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040392, intron 1 of 4)	intron (NR_040392, intron 1 of 4)	1792.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	19.5	20.5	7.0	96.0	47.0	22.0	24.5	13.0
Merged-chr18-44383170-4	chr18	44383049	44383249	+	973.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 1 of 10)	intron (NM_027490, intron 1 of 10)	2649.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	18.0	17.5	18.0	324.0	36.5	11.0	19.0	24.5
Merged-chr9-113805520-4	chr9	113805421	113805621	+	900.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286603, intron 1 of 4)	intron (NM_001286603, intron 1 of 4)	-7065.0	NM_001286601	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	14.5	24.5	13.0	176.0	33.0	17.0	10.5	6.5
Merged-chr17-71190260-2	chr17	71190160	71190360	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	6282.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	2.0	5.5	4.5	14.0	13.0	6.0	6.0	7.0
Merged-chr13-23432738-4	chr13	23432629	23432829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1712.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	64.0	139.0	35.0	887.0	219.5	66.0	100.0	65.5
Merged-chr1-171843109-4	chr1	171842954	171843154	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	L1_Mur3|LINE|L1	3357.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	16.5	29.5	14.0	227.5	65.0	24.0	20.0	22.5
Merged-chr7-44970321-4	chr7	44970203	44970403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357670, intron 6 of 18)	intron (NM_001357670, intron 6 of 18)	4548.0	NM_001357670	78070.0	Mm.231465	NM_153679	ENSMUSG00000007783	Cpt1c	6530437J22Rik|9630004I06Rik|CPT I-C|CPT IC|CPT1-B|CPTI-B	carnitine palmitoyltransferase 1c	protein-coding	122.5	176.0	101.5	1327.0	220.5	87.5	100.0	49.5
Merged-chr2-156179627-4	chr2	156179528	156179728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291115)	promoter-TSS (NM_001291115)	-48.0	NM_001291115	170791.0	Mm.392436	NM_133242	ENSMUSG00000027620	Rbm39	1500012C14Rik|2310040E03Rik|B330012G18Rik|C79248|R75070|Rnpc2|caper	RNA binding motif protein 39	protein-coding	27.0	51.0	22.0	505.5	87.5	32.5	28.5	50.5
Merged-chr17-45608626-4	chr17	45608529	45608729	+	870.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-6527.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	12.0	28.5	15.0	161.0	24.0	14.5	12.5	20.0
Merged-chr10-117876675-4	chr10	117876563	117876763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30689.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	72.0	99.0	49.5	868.0	167.5	70.5	58.5	81.0
Merged-chr16-55838845-4	chr16	55838771	55838971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030612)	promoter-TSS (NM_030612)	-230.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	175.0	364.5	148.5	1108.0	507.5	227.0	164.0	69.5
Merged-chr18-79978287-2	chr18	79978153	79978353	+	946.583374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-68642.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	20.0	21.5	22.0	449.0	2.5	2.0	1.5	2.0
Merged-chr2-116890527-4	chr2	116890417	116890617	+	934.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355572, intron 10 of 10)	intron (NM_001355572, intron 10 of 10)	-9635.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	15.0	34.0	33.5	622.5	24.5	12.5	17.5	20.5
Merged-chr10-94381204-4	chr10	94381103	94381303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	69254.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	86.5	156.5	96.0	1276.5	184.0	67.5	79.5	51.5
Merged-chr13-76056439-4	chr13	76056324	76056524	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175495, exon 1 of 1)	exon (NM_175495, exon 1 of 1)	572.0	NM_175495	238725.0	Mm.167172	NM_175495	ENSMUSG00000045509	Gpr150	C030001A19Rik|PGR11	G protein-coupled receptor 150	protein-coding	14.5	32.0	25.0	450.5	46.0	10.5	21.0	15.5
Merged-chr18-46598426-4	chr18	46598321	46598521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025698)	promoter-TSS (NM_025698)	717.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	22.0	22.5	35.5	271.5	65.0	30.5	20.5	45.0
Merged-chr19-8920427-4	chr19	8920335	8920535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024256)	promoter-TSS (NM_024256)	42.0	NM_024256	72727.0	Mm.259	NM_024256	ENSMUSG00000071649	B3gat3	2810405M13Rik	beta-1,3-glucuronyltransferase 3 (glucuronosyltransferase I)	protein-coding	75.0	127.0	75.0	1025.0	196.0	56.0	66.0	83.0
Merged-chr8-94098502-4	chr8	94098400	94098600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026116, exon 1 of 17)	5' UTR (NM_026116, exon 1 of 17)	311.0	NM_026116	67378.0	Mm.292107	NM_026116	ENSMUSG00000031755	Bbs2	2410125H22Rik|AI447581	Bardet-Biedl syndrome 2 (human)	protein-coding	191.5	344.0	142.0	2839.0	553.5	189.5	243.5	162.5
Merged-chr14-76964210-4	chr14	76964093	76964293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72424.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	41.5	77.0	84.0	1358.5	71.5	36.0	52.0	36.5
Merged-chr2-181598984-4	chr2	181598927	181599127	+	959.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172676, exon 1 of 5)	5' UTR (NM_172676, exon 1 of 5)	120.0	NM_172676	229011.0	Mm.205422	NM_172676	ENSMUSG00000038605	Samd10	D930033N23Rik|E130318E08	sterile alpha motif domain containing 10	protein-coding	11.0	17.0	13.0	144.5	24.5	11.0	7.0	10.5
Merged-chr6-134172540-4	chr6	134172441	134172641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	MTD|LTR|ERVL-MaLR	136841.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	30.5	44.0	43.0	601.5	61.5	30.0	30.5	41.5
Merged-chr5-143530886-2	chr5	143530786	143530986	+	774.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2855.0	NM_001347530	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	8.0	10.5	5.5	37.0	16.0	3.0	0.5	4.0
Merged-chr2-98662633-4	chr2	98662528	98662728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SYNREP_MM|Satellite|Satellite	1194971.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	832.0	633.5	1318.0	6863.5	2249.5	904.5	715.5	2355.5
Merged-chr17-80734877-4	chr17	80734773	80734973	+	936.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6848.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	21.5	15.5	14.0	213.5	28.5	10.5	20.0	22.5
Merged-chr3-37038031-6	chr3	37037955	37038155	+	888.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172679, intron 74 of 85)	intron (NM_172679, intron 74 of 85)	-25601.0	NM_009350	21744.0	Mm.8122	NM_009350	ENSMUSG00000027719	Adad1	Tenr	adenosine deaminase domain containing 1 (testis specific)	protein-coding	7.5	10.5	15.0	163.5	21.5	9.5	2.5	6.5
Merged-chr16-91438231-4	chr16	91438124	91438324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26880.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	61.5	83.5	51.0	950.0	133.0	61.5	61.5	58.5
Merged-chr11-46077891-8	chr11	46077834	46078034	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291890, intron 3 of 22)	intron (NM_001291890, intron 3 of 22)	21950.0	NM_001291891	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	6.0	13.0	17.5	99.0	17.0	6.0	12.0	11.0
Merged-chr1-34855226-4	chr1	34855148	34855348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	MTD-int|LTR|ERVL-MaLR	5259.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	27.0	34.0	14.0	510.5	83.5	25.0	30.0	47.5
Merged-chr8-13159571-3	chr8	13159471	13159671	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010684, intron 1 of 8)	L1MDb|LINE|L1	410.0	NM_010684	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	13.5	35.0	19.5	284.5	66.0	34.0	25.5	42.5
Merged-chr14-54386145-3	chr14	54386047	54386247	+	872.477783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	23325.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	16.0	11.0	16.5	335.5	13.5	7.0	2.0	2.0
Merged-chr6-40476351-4	chr6	40476253	40476453	+	928.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212468, intron 3 of 6)	intron (NM_212468, intron 3 of 6)	4885.0	NM_001286663	381760.0	Mm.276356	NM_028358	ENSMUSG00000029911	Ssbp1	2810480P10Rik|G630031O20Rik|MtSSB|mtDBP	single-stranded DNA binding protein 1	protein-coding	13.5	20.5	11.0	508.0	41.5	8.5	16.0	24.5
Merged-chr6-39055271-4	chr6	39055156	39055356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 9 of 12)	intron (NM_011539, intron 9 of 12)	12330.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	23.0	52.0	37.5	223.5	55.5	24.5	19.0	19.0
Merged-chr11-110379812-4	chr11	110379700	110379900	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19302.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	9.0	10.0	10.0	160.0	36.0	13.0	10.5	11.0
Merged-chr5-48331629-3	chr5	48331525	48331725	+	984.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40767.0	NM_025755	66768.0	Mm.29409	NM_025755	ENSMUSG00000029089	Pacrgl	4933428G09Rik	PARK2 co-regulated-like	protein-coding	21.0	21.0	38.0	418.5	9.5	4.0	4.5	4.0
Merged-chr1-182528129-4	chr1	182528008	182528208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10498.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	76.5	149.0	54.5	1018.5	145.5	76.5	71.0	51.5
Merged-chr13-81238140-4	chr13	81238037	81238237	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	intron (NM_054053, intron 85 of 89)	274063.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	28.0	35.5	20.0	431.5	47.5	10.5	22.5	37.0
Merged-chr8-108691989-4	chr8	108691892	108692092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22652.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	71.0	99.0	68.5	702.5	203.0	50.0	52.0	52.5
Merged-chr17-8816832-4	chr17	8816759	8816959	+	847.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	15114.0	NM_011866	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	17.0	7.0	9.0	193.0	36.5	4.0	7.0	7.0
Merged-chr2-102924714-4	chr2	102924612	102924812	+	934.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23047.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	21.5	26.5	17.0	279.5	37.5	7.5	19.5	6.5
Merged-chr9-41072312-4	chr9	41072207	41072407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	7199.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	23.0	33.5	12.0	246.0	65.0	31.5	19.0	35.0
Merged-chr15-3228361-4	chr15	3228281	3228481	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42386.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	9.0	10.5	10.5	126.0	28.5	5.5	17.0	6.5
Merged-chr5-24542863-4	chr5	24542743	24542943	+	893.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177676)	TTS (NM_177676)	-1865.0	NM_001310476	117590.0	Mm.207071	NM_080444	ENSMUSG00000038204	Asb10	Asb-10|BB137407	ankyrin repeat and SOCS box-containing 10	protein-coding	13.5	29.0	17.5	248.5	25.0	12.0	20.5	10.5
Merged-chr1-171234399-4	chr1	171234299	171234499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010185)	promoter-TSS (NM_010185)	-50.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	77.0	107.0	45.5	720.5	138.0	71.5	86.0	90.0
Merged-chr4-128983478-4	chr4	128983390	128983590	+	949.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-9734.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	25.0	13.5	6.0	245.0	24.5	16.0	10.5	18.0
Merged-chr2-132027616-4	chr2	132027541	132027741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 1 of 10)	intron (NM_175445, intron 1 of 10)	2347.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	49.0	74.5	37.0	564.0	91.5	39.5	55.5	38.5
Merged-chr11-6389759-4	chr11	6389678	6389878	+	831.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5347.0	NM_001005867	52915.0	Mm.1144	NM_028601	ENSMUSG00000041164	Zmiz2	Zimp7	zinc finger, MIZ-type containing 2	protein-coding	10.5	6.5	8.5	77.0	24.0	8.5	7.5	15.0
Merged-chr12-85688070-3	chr12	85687972	85688172	+	745.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 1 of 2)	intron (NM_016767, intron 1 of 2)	1352.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	10.0	9.0	2.0	42.5	16.0	11.0	12.0	9.5
Merged-chr7-121706757-4	chr7	121706587	121706787	+	783.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033173, exon 1 of 16)	exon (NM_001033173, exon 1 of 16)	566.0	NM_001033173	76179.0	Mm.122538	NM_001033173	ENSMUSG00000063317	Usp31	6330567E21Rik|mKIAA1203	ubiquitin specific peptidase 31	protein-coding	4.0	7.5	4.5	101.0	28.5	8.5	8.5	6.5
Merged-chr9-41160993-4	chr9	41160887	41161087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2925.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	42.5	72.5	50.5	622.0	129.5	46.5	38.0	42.5
Merged-chr15-38248051-3	chr15	38247982	38248182	+	857.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28879.0	NM_008757	18285.0	Mm.252830	NM_008757	ENSMUSG00000061923	Odf1	-	outer dense fiber of sperm tails 1	protein-coding	8.5	16.5	5.0	65.5	22.0	13.0	15.5	4.0
Merged-chr2-132686966-4	chr2	132686871	132687071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358260)	promoter-TSS (NM_001358260)	40.0	NM_001358260	73747.0	Mm.284114	NM_028637	ENSMUSG00000044991	1110034G24Rik	-	RIKEN cDNA 1110034G24 gene	protein-coding	78.5	82.5	60.5	825.0	133.0	57.5	60.0	85.5
Merged-chr10-13273927-4	chr10	13273780	13273980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359294, intron 2 of 11)	intron (NM_001359294, intron 2 of 11)	50409.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	64.5	59.0	66.5	1200.0	116.5	42.5	70.5	55.5
Merged-chr4-150730422-4	chr4	150730329	150730529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78255.0	NM_173774	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	22.0	34.5	34.0	537.5	82.5	33.5	35.0	28.5
Merged-chr9-56041877-4	chr9	56041780	56041980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011992)	promoter-TSS (NM_011992)	35.0	NM_011992	26611.0	Mm.1782	NM_011992	ENSMUSG00000032320	Rcn2	AA408742|Tcbp49	reticulocalbin 2	protein-coding	117.0	208.5	123.5	1669.0	206.0	99.5	145.5	83.0
Merged-chr1-132332992-4	chr1	132332889	132333089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028778, exon 7 of 7)	3' UTR (NM_028778, exon 7 of 7)	16864.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	34.0	41.5	38.5	278.0	64.5	30.0	29.0	37.5
Merged-chr5-3647985-4	chr5	3647869	3648069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026033)	promoter-TSS (NM_026033)	-33.0	NM_026033	67210.0	Mm.178424	NM_026033	ENSMUSG00000007415	Gatad1	2310031E19Rik|2810047M21Rik|8430439A17Rik|9130430G15Rik|B330017N08Rik|Odag	GATA zinc finger domain containing 1	protein-coding	111.5	149.0	175.5	1767.0	291.5	103.0	134.0	92.5
Merged-chr4-3660140-4	chr4	3660032	3660232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040643, intron 3 of 3)	intron (NR_040643, intron 3 of 3)	3626.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	50.0	56.5	38.5	896.5	149.0	43.5	89.5	59.0
Merged-chr4-108458740-4	chr4	108458647	108458847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175472)	promoter-TSS (NM_175472)	-679.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	50.0	83.0	47.5	937.5	141.0	52.0	65.0	64.0
Merged-chr16-94502308-4	chr16	94502208	94502408	+	964.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007834, intron 5 of 7)	intron (NM_007834, intron 5 of 7)	24321.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	28.0	22.5	32.5	806.0	17.0	10.0	18.0	26.0
Merged-chr6-121272685-4	chr6	121272585	121272785	+	979.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26779.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	27.0	25.0	15.5	326.5	30.5	13.0	28.0	22.0
Merged-chr16-5306798-4	chr16	5306713	5306913	+	923.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-50857.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	18.0	17.0	24.0	242.5	27.5	14.0	15.5	9.5
Merged-chr13-113627304-4	chr13	113627218	113627418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8754.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	38.0	48.5	59.5	633.5	89.0	41.0	46.0	51.0
Merged-chr16-87703843-2	chr16	87703743	87703943	+	939.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 1 of 4)	intron (NM_007520, intron 1 of 4)	4889.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	5.0	10.0	7.5	66.5	18.0	3.0	3.5	6.0
Merged-chr3-55101338-4	chr3	55101224	55101424	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D1|LTR|ERVK	-10784.0	NM_001144988	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	17.0	36.0	17.5	203.0	39.0	26.5	16.5	30.5
Merged-chr16-85172581-5	chr16	85172448	85172648	+	938.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	1159.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	15.5	21.0	14.5	253.5	48.5	12.0	16.5	11.5
Merged-chr1-92251084-4	chr1	92250966	92251166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-70725.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	25.0	38.5	24.0	567.0	164.5	30.5	50.5	45.5
Merged-chr13-119596463-4	chr13	119596348	119596548	+	842.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	intron (NM_001177666, intron 2 of 3)	-27371.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	8.5	12.0	11.5	327.0	63.5	9.5	23.5	18.0
Merged-chr17-65769610-4	chr17	65769503	65769703	+	781.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	3149.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	7.0	7.5	2.0	58.0	20.5	11.0	11.0	7.0
Merged-chr10-80167667-4	chr10	80167560	80167760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007705)	promoter-TSS (NM_007705)	-179.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	233.5	440.5	239.5	2598.5	637.5	264.0	220.0	236.5
Merged-chr13-80885635-4	chr13	80885542	80885742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153411)	promoter-TSS (NR_153411)	-453.0	NR_153411	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	216.5	269.0	164.0	2881.0	492.0	192.0	210.5	220.5
Merged-chr14-56903168-4	chr14	56903059	56903259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029498, exon 3 of 25)	exon (NM_029498, exon 3 of 25)	16316.0	NM_001360643	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	35.0	51.0	41.5	632.0	89.0	22.5	32.0	46.5
Merged-chr7-27473521-7	chr7	27473404	27473604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133210)	promoter-TSS (NM_133210)	-336.0	NM_133210	170742.0	Mm.200120	NM_133210	ENSMUSG00000055200	Sertad3	AW124805|D1Mgi51|Rbt1|Sei3	SERTA domain containing 3	protein-coding	95.5	146.5	148.0	1252.5	203.0	105.0	96.0	120.0
Merged-chr11-120526157-4	chr11	120526069	120526269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-4558.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	44.5	98.5	37.0	451.0	178.5	52.5	57.0	57.5
Merged-chr12-76538083-4	chr12	76537982	76538182	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	4522.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	22.5	20.0	27.0	318.5	43.0	4.5	23.0	22.5
Merged-chr4-97929178-4	chr4	97929087	97929287	+	939.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	151561.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	5.5	18.0	22.5	209.0	31.0	3.0	16.5	7.0
Merged-chr3-137954321-4	chr3	137954213	137954413	+	929.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	27236.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	31.5	27.0	17.0	271.0	43.5	8.0	11.0	17.0
Merged-chr5-148678753-3	chr5	148678649	148678849	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_3-LTR_MM|LTR|ERVK	-63091.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	2.0	1.5	3.0	0.0	190.5	66.0	83.5	54.0
Merged-chr15-89128650-4	chr15	89128558	89128758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028449)	promoter-TSS (NR_028449)	42.0	NR_028448	170787.0	Mm.203954	NM_199198	ENSMUSG00000062906	Hdac10	AW548891|Hd10	histone deacetylase 10	protein-coding	60.5	72.5	29.5	766.0	114.5	53.5	47.5	66.0
Merged-chr2-15029176-3	chr2	15029084	15029284	+	850.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165941, intron 8 of 11)	RLTR44B|LTR|ERVK	20128.0	NM_001165942	74455.0	Mm.478923	NM_028950	ENSMUSG00000026707	Nsun6	4933403D21Rik|4933414E04Rik|NOPD1	NOL1/NOP2/Sun domain family member 6	protein-coding	0.0	1.5	4.5	56.0	25.0	5.0	8.0	7.5
Merged-chr8-71670723-4	chr8	71670606	71670806	+	901.715942	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029873, intron 1 of 41)	intron (NM_001029873, intron 1 of 41)	1051.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	7.5	11.5	5.0	181.0	25.0	7.0	15.0	9.5
Merged-chr2-73459911-4	chr2	73459853	73460053	+	854.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-6064.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	7.0	25.5	15.5	35.0	33.0	11.0	10.5	3.0
Merged-chr14-47515786-3	chr14	47515686	47515886	+	728.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 4 of 5)	L1MC5|LINE|L1	43225.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	11.0	3.0	9.0	92.5	19.5	9.0	11.5	13.0
Merged-chr3-96716020-3	chr3	96715921	96716121	+	632.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028925, intron 9 of 14)	intron (NM_028925, intron 9 of 14)	-7461.0	NM_030094	78373.0	Mm.423186	NM_030094	ENSMUSG00000028100	Nudt17	2410015C20Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 17	protein-coding	3.0	13.5	8.5	114.0	15.0	7.0	9.0	5.5
Merged-chr5-67450306-7	chr5	67450189	67450389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-13609.0	NR_110363	320479.0	Mm.387187	NR_015582	ENSMUSG00000107385	C330024D21Rik	-	RIKEN cDNA C330024D21 gene	ncRNA	24.5	28.5	44.5	335.5	68.0	29.5	28.5	23.0
Merged-chr10-125966626-1	chr10	125966526	125966726	+	1000.0	f0_balb.idr	exon (NM_177152, exon 1 of 19)	exon (NM_177152, exon 1 of 19)	407.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	11.0	24.5	35.5	248.5	28.0	15.5	19.5	21.0
Merged-chr6-86405231-3	chr6	86405124	86405324	+	782.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164078, intron 1 of 11)	intron (NM_001164078, intron 1 of 11)	1005.0	NM_001164078	21841.0	Mm.333219	NM_011585	ENSMUSG00000071337	Tia1	2310050N03Rik|AI256674|TIA-1|mTIA-1	cytotoxic granule-associated RNA binding protein 1	protein-coding	14.5	6.0	5.5	86.0	6.5	10.0	6.0	7.0
Merged-chr11-50239301-4	chr11	50239158	50239358	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008521)	promoter-TSS (NM_008521)	-726.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	25.5	46.0	58.0	622.5	41.5	9.5	19.5	19.0
Merged-chr10-57760909-4	chr10	57760789	57760989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-24034.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	52.0	80.0	56.5	1069.5	93.5	36.0	41.0	35.0
Merged-chr5-140771888-4	chr5	140771784	140771984	+	950.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 2 of 3)	intron (NM_010302, intron 2 of 3)	47757.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	16.0	47.5	31.0	218.5	40.0	17.5	13.0	15.5
Merged-chr9-40764226-4	chr9	40764119	40764319	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 2 of 6)	intron (NM_133733, intron 2 of 6)	-37054.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	16.5	20.5	20.0	276.0	23.5	9.0	23.5	37.0
Merged-chr12-24697263-3	chr12	24697151	24697351	+	804.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-11003.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	10.0	16.5	4.5	197.5	21.5	9.5	13.0	2.5
Merged-chr4-137357733-4	chr4	137357616	137357816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243769)	promoter-TSS (NM_001243769)	43.0	NM_009861	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	116.0	214.0	115.5	1564.5	309.5	136.5	152.0	120.0
Merged-chr5-65883585-4	chr5	65883492	65883692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081105, intron 1 of 2)	intron (NM_001081105, intron 1 of 2)	20023.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	24.0	32.5	39.0	593.0	51.0	33.0	36.5	38.0
Merged-chr7-44952943-4	chr7	44952831	44953031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077591, intron 6 of 10)	intron (NM_001077591, intron 6 of 10)	9691.0	NM_011651	22116.0	Mm.84502	NM_011651	ENSMUSG00000059891	Tsks	Stk22s1|Tssks1	testis-specific serine kinase substrate	protein-coding	134.0	188.0	100.0	1673.0	275.5	118.5	102.0	90.5
Merged-chr16-29735791-4	chr16	29735713	29735913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	156479.0	NM_001199177	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	21.0	21.0	22.5	226.0	44.0	21.0	17.0	21.0
Merged-chr7-118382140-4	chr7	118382056	118382256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362179, intron 7 of 7)	intron (NM_001362179, intron 7 of 7)	61404.0	NM_001362180	110058.0	Mm.156558	NM_138649	ENSMUSG00000058420	Syt17	Bk|sytXVII	synaptotagmin XVII	protein-coding	23.0	26.0	21.0	325.0	64.0	21.5	28.0	31.0
Merged-chr9-57589963-4	chr9	57589844	57590044	+	926.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027895, intron 1 of 15)	intron (NM_027895, intron 1 of 15)	492.0	NM_027895	71742.0	Mm.155877	NM_027895	ENSMUSG00000032308	Ulk3	1200015E14Rik	unc-51-like kinase 3	protein-coding	9.5	20.5	18.5	125.5	30.0	8.5	9.0	14.0
Merged-chr2-49451582-4	chr2	49451533	49451733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172663, exon 1 of 14)	5' UTR (NM_172663, exon 1 of 14)	147.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	62.0	98.5	119.5	1071.5	180.5	88.0	79.0	73.5
Merged-chr9-109059241-4	chr9	109059129	109059329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012236)	promoter-TSS (NM_001012236)	22.0	NM_001012236	22040.0	Mm.439964	NM_011637	ENSMUSG00000049734	Trex1	AU041952	three prime repair exonuclease 1	protein-coding	133.0	354.0	148.5	1729.0	434.5	210.5	175.5	131.5
Merged-chr14-70549439-4	chr14	70549341	70549541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_180588)	TTS (NM_180588)	4190.0	NM_180588	72549.0	Mm.46742	NM_180588	ENSMUSG00000033589	Reep4	2700029E10Rik	receptor accessory protein 4	protein-coding	31.5	32.5	15.5	357.5	61.0	22.5	25.0	24.0
Merged-chr12-91008960-3	chr12	91008862	91009062	+	996.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181815, intron 24 of 25)	intron (NM_181815, intron 24 of 25)	-36886.0	NR_045858	71349.0	Mm.442093	NR_045858	ENSMUSG00000085004	5430427M07Rik	-	RIKEN cDNA 5430427M07 gene	ncRNA	17.0	25.5	17.0	336.0	21.5	7.0	5.5	3.0
Merged-chr6-126851505-2	chr6	126851388	126851588	+	777.783325	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1610.0	NM_009650	11642.0	Mm.87748	NM_009650	ENSMUSG00000030344	Akap3	Prka3	A kinase (PRKA) anchor protein 3	protein-coding	11.5	13.5	6.0	63.5	6.5	3.0	4.0	2.5
Merged-chr3-107233660-4	chr3	107233582	107233782	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001256174, exon 3 of 3)	exon (NM_001256174, exon 3 of 3)	3068.0	NM_001256174	319929.0	Mm.30453	NM_001256174	ENSMUSG00000094613	A630076J17Rik	-	RIKEN cDNA A630076J17 gene	protein-coding	9.0	9.0	7.5	128.0	28.0	13.5	19.5	22.0
Merged-chr5-30916266-4	chr5	30916146	30916346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133918, intron 3 of 7)	intron (NM_133918, intron 3 of 7)	2460.0	NM_133918	100952.0	Mm.286375	NM_133918	ENSMUSG00000029163	Emilin1	5830419M17Rik|AW229038|BB105748|EMILIN-1|gp115	elastin microfibril interfacer 1	protein-coding	233.0	330.0	246.5	3625.5	437.0	168.5	239.5	237.5
Merged-chr13-41016281-4	chr13	41016163	41016363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025387)	promoter-TSS (NM_025387)	13.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	97.5	150.5	103.0	1743.5	309.5	87.5	162.0	127.5
Merged-chr19-38043897-3	chr19	38043789	38043989	+	767.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099634)	promoter-TSS (NM_001099634)	-312.0	NM_001302140	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	6.0	16.0	8.5	74.5	37.0	10.0	6.0	9.5
Merged-chr2-164785891-4	chr2	164785786	164785986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133924)	promoter-TSS (NM_133924)	-135.0	NM_133924	101113.0	Mm.295647	NM_133924	ENSMUSG00000050373	Snx21	5730407K14Rik|AI481716	sorting nexin family member 21	protein-coding	79.5	106.0	67.5	1171.5	158.5	67.5	81.0	70.5
Merged-chr17-26509646-4	chr17	26509556	26509756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1184.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	173.0	202.0	125.0	2397.5	320.0	159.5	163.5	142.0
Merged-chr13-6648814-4	chr13	6648726	6648926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291071)	promoter-TSS (NM_001291071)	-55.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	153.0	163.5	134.5	2650.0	342.0	108.0	233.0	142.5
Merged-chr5-136908612-4	chr5	136908510	136908710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026073, intron 1 of 4)	intron (NM_026073, intron 1 of 4)	460.0	NM_026073	67286.0	Mm.41779	NM_026073	ENSMUSG00000007987	Ift22	3110017O03Rik|AI835745|AI847427|Rabl5	intraflagellar transport 22	protein-coding	59.0	74.5	29.0	338.0	94.5	45.5	33.0	39.0
Merged-chr6-39527476-4	chr6	39527363	39527563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 1 of 18)	intron (NM_172477, intron 1 of 18)	30371.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	57.0	109.5	71.5	1202.0	215.0	58.0	99.5	79.0
Merged-chr2-121408554-7	chr2	121408545	121408745	+	921.328247	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153075, intron 4 of 12)	Lx5c|LINE|L1	5147.0	NM_153075	212670.0	Mm.384318	NM_153075	ENSMUSG00000033486	Catsper2	-	cation channel, sperm associated 2	protein-coding	12.0	16.0	10.0	193.5	35.0	4.5	15.5	17.5
Merged-chr10-22306655-4	chr10	22306565	22306765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015465)	promoter-TSS (NR_015465)	-55.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	175.0	318.0	112.5	1948.0	155.5	76.5	68.5	55.5
Merged-chr14-75136857-4	chr14	75136756	75136956	+	924.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	431.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	15.0	22.0	13.5	184.0	33.0	7.0	14.0	7.5
Merged-chr8-24428576-3	chr8	24428479	24428679	+	851.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10367.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	5.0	7.5	7.0	72.5	8.0	7.0	3.0	6.5
Merged-chr10-7680227-6	chr10	7680081	7680281	+	766.069458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033219, exon 1 of 1)	non-coding (NR_033219, exon 1 of 1)	954.0	NM_001358649	18537.0	Mm.258431	NM_008786	ENSMUSG00000019795	Pcmt1	C79501|PIMT	protein-L-isoaspartate (D-aspartate) O-methyltransferase 1	protein-coding	16.5	26.0	13.0	189.0	40.0	8.5	12.0	6.0
Merged-chr1-60343365-4	chr1	60343305	60343505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030013, exon 1 of 13)	exon (NM_030013, exon 1 of 13)	105.0	NM_001313721	77951.0	Mm.197640	NM_030013	ENSMUSG00000049439	Cyp20a1	A930011N14Rik|Cypm	cytochrome P450, family 20, subfamily a, polypeptide 1	protein-coding	86.5	153.5	137.0	1136.5	233.5	94.5	151.5	120.5
Merged-chr13-11904789-4	chr13	11904658	11904858	+	848.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023868, intron 3 of 104)	(TG)n|Simple_repeat|Simple_repeat	202187.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	8.5	6.0	6.5	50.0	16.5	7.5	5.5	7.5
Merged-chr14-47360631-1	chr14	47360531	47360731	+	858.0	f0_balb.idr	Intergenic	Intergenic	-13229.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	8.0	11.0	17.0	228.5	7.0	6.0	5.5	7.0
Merged-chr11-111290749-4	chr11	111290633	111290833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	224569.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	85.0	131.0	57.0	984.5	162.5	85.0	63.0	71.5
Merged-chr5-45449243-2	chr5	45449143	45449343	+	748.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_024236, intron 1 of 6)	intron (NM_024236, intron 1 of 6)	986.0	NM_024236	110391.0	Mm.30204	NM_024236	ENSMUSG00000015806	Qdpr	2610008L04Rik|D5Ertd371e|Dhpr|PKU2	quinoid dihydropteridine reductase	protein-coding	1.0	7.0	6.5	65.5	6.0	6.0	9.0	9.5
Merged-chr9-22531394-3	chr9	22531282	22531482	+	741.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360259, intron 5 of 22)	MTEa|LTR|ERVL-MaLR	55667.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	8.0	6.0	7.0	139.5	3.5	2.0	4.5	3.5
Merged-chr19-9071630-4	chr19	9071556	9071756	+	970.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104460, intron 6 of 6)	intron (NR_104460, intron 6 of 6)	16300.0	NM_011681	22287.0	Mm.2258	NM_011681	ENSMUSG00000024653	Scgb1a1	CC10|CC16|CCSP|PCB-BP|UG|UGB|Utg	secretoglobin, family 1A, member 1 (uteroglobin)	protein-coding	14.5	27.0	24.0	446.0	29.0	10.5	24.5	16.5
Merged-chr10-119055422-4	chr10	119055297	119055497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4898.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	75.5	98.0	54.5	1093.5	189.5	41.0	88.5	58.0
Merged-chr4-133109388-4	chr4	133109262	133109462	+	888.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21271.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	49.0	81.5	48.0	637.0	19.0	6.5	3.0	8.5
Merged-chr3-88467285-4	chr3	88467167	88467367	+	813.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-6085.0	NM_001163489	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	23.5	13.5	9.5	113.5	22.0	7.5	11.0	7.0
Merged-chr5-64960097-4	chr5	64959997	64960197	+	989.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359180)	promoter-TSS (NM_001359180)	-1.0	NM_011604	21899.0	Mm.42146	NM_011604	ENSMUSG00000051498	Tlr6	-	toll-like receptor 6	protein-coding	29.0	44.0	13.5	509.5	98.5	20.0	32.0	21.0
Merged-chr3-95230831-4	chr3	95230732	95230932	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038708, intron 1 of 4)	intron (NM_001038708, intron 1 of 4)	1889.0	NM_001038708	57912.0	Mm.28189	NM_172395	ENSMUSG00000046722	Cdc42se1	1300002M12Rik|AW558204|Cdcse1|SCIP1|Spec1	CDC42 small effector 1	protein-coding	31.5	30.5	39.5	342.0	57.5	31.0	43.5	17.0
Merged-chr13-54295915-4	chr13	54295867	54296067	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75382.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	8.0	9.0	5.0	147.5	39.5	7.0	24.0	17.5
Merged-chr15-51865548-4	chr15	51865435	51865635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080635)	promoter-TSS (NM_080635)	-74.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	155.0	271.0	152.0	2482.5	451.0	171.0	214.0	151.0
Merged-chr6-5411106-4	chr6	5410971	5411171	+	932.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355662, intron 2 of 4)	intron (NM_001355662, intron 2 of 4)	20661.0	NM_001355662	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	19.0	17.0	15.0	208.0	26.5	8.5	12.0	11.0
Merged-chr10-111544128-4	chr10	111544034	111544234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37848.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	128.5	213.5	171.5	2752.5	321.5	158.0	152.0	126.5
Merged-chr2-129328455-4	chr2	129328350	129328550	+	854.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-18478.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	11.0	39.0	15.0	215.5	48.5	13.5	13.5	6.5
Merged-chr4-152096195-4	chr4	152096090	152096290	+	807.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285999)	promoter-TSS (NM_001285999)	-529.0	NM_001285999	269608.0	Mm.332102	NM_001004156	ENSMUSG00000039713	Plekhg5	BC023181|Syx	pleckstrin homology domain containing, family G (with RhoGef domain) member 5	protein-coding	9.5	10.0	6.5	107.5	21.0	2.5	9.0	7.5
Merged-chr13-81144694-4	chr13	81144609	81144809	+	778.487488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	180635.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	8.5	14.5	16.0	128.0	19.5	4.5	11.0	12.0
Merged-chr17-35392947-3	chr17	35392853	35393053	+	858.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-1146.0	NR_051981	15016.0	Mm.439648	NR_051981	ENSMUSG00000055413	H2-Q5	H-2Q5|Qa-5|Qa5|Qat-5	histocompatibility 2, Q region locus 5	pseudo	0.5	1.5	1.5	11.0	49.5	24.0	6.0	14.5
Merged-chr7-55784729-4	chr7	55784635	55784835	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-9390.0	NM_001360874	233276.0	Mm.284306	NM_146190	ENSMUSG00000033790	Tubgcp5	B130010C12Rik|GCP5|mKIAA1899	tubulin, gamma complex associated protein 5	protein-coding	32.0	31.5	29.5	750.5	28.0	11.5	20.5	27.0
Merged-chr1-139268018-1	chr1	139267918	139268118	+	547.0	f1_c57bl6.idr	intron (NM_133239, intron 5 of 11)	intron (NM_133239, intron 5 of 11)	109058.0	NM_133239	170788.0	Mm.95700	NM_133239	ENSMUSG00000063681	Crb1	7530426H14Rik|A930008G09Rik	crumbs family member 1, photoreceptor morphogenesis associated	protein-coding	8.0	7.0	6.5	52.5	7.0	2.0	4.0	11.0
Merged-chr1-169368963-4	chr1	169368855	169369055	+	924.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	162509.0	NM_023284	66977.0	Mm.151315	NM_023284	ENSMUSG00000026683	Nuf2	2410003C07Rik|AU044112|C85691|Cdca1|NUF2R	NUF2, NDC80 kinetochore complex component	protein-coding	9.5	11.5	21.5	475.5	38.0	15.0	29.5	13.5
Merged-chr7-79936707-4	chr7	79936609	79936809	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1445.0	NM_027420	70420.0	Mm.34266	NM_027420	ENSMUSG00000039043	Arpin	2610034B18Rik	actin-related protein 2/3 complex inhibitor	protein-coding	14.5	48.0	4.5	183.5	67.0	18.0	21.0	12.5
Merged-chr12-4232953-4	chr12	4232854	4233054	+	904.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134046, intron 2 of 6)	intron (NM_134046, intron 2 of 6)	1011.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	14.5	15.0	15.5	351.0	43.5	7.5	8.5	11.5
Merged-chr17-73039291-2	chr17	73039195	73039395	+	952.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68690.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	6.0	5.5	5.5	77.5	6.0	5.5	5.5	6.5
Merged-chr13-21716829-4	chr13	21716731	21716931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178206)	promoter-TSS (NM_178206)	419.0	NM_178182	319191.0	Mm.14767	NM_178182	ENSMUSG00000071516	Hist1h2ai	H2a-291A	histone cluster 1, H2ai	protein-coding	72.5	89.5	64.0	692.5	187.5	53.5	71.0	78.0
Merged-chr9-110997427-4	chr9	110997302	110997502	+	991.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152179, intron 2 of 6)	intron (NR_152179, intron 2 of 6)	-7689.0	NM_153100	235636.0	Mm.441138	NM_153100	ENSMUSG00000066319	Rtp3	Tmem7	receptor transporter protein 3	protein-coding	24.5	35.5	13.0	478.0	82.0	30.5	41.5	15.5
Merged-chr11-120988561-4	chr11	120988467	120988667	+	909.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027874, intron 1 of 9)	intron (NM_027874, intron 1 of 9)	2766.0	NM_139059	104318.0	Mm.216227	NM_027874	ENSMUSG00000025162	Csnk1d	1200006A05Rik|AA409348|D930010H05Rik	casein kinase 1, delta	protein-coding	22.0	15.0	9.0	222.0	29.5	22.0	13.5	28.0
Merged-chr8-105930818-4	chr8	105930717	105930917	+	809.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173432, exon 3 of 3)	3' UTR (NM_173432, exon 3 of 3)	3045.0	NM_023182	109660.0	Mm.2745	NM_023182	ENSMUSG00000031896	Ctrl	0910001G08Rik|1810004D15Rik|AV005227|Ctra-1|Ctra1|chymopasin|mFLJ00366	chymotrypsin-like	protein-coding	6.0	21.0	3.5	86.0	27.5	5.0	11.5	11.0
Merged-chr7-28374284-4	chr7	28374211	28374411	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1649.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	26.0	19.0	12.5	96.5	37.5	12.0	9.5	12.5
Merged-chr5-90324405-3	chr5	90324325	90324525	+	661.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_198010, intron 1 of 32)	B1_Mur1|SINE|Alu	41760.0	NM_030886	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	10.0	8.0	2.5	120.0	18.0	6.0	6.5	4.5
Merged-chr11-94381080-4	chr11	94381015	94381215	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 1 of 30)	intron (NM_029600, intron 1 of 30)	11861.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	21.5	20.5	30.0	272.0	72.0	20.0	8.5	21.0
Merged-chr5-138683611-3	chr5	138683505	138683705	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60746.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	25.0	23.5	21.5	134.5	56.5	15.0	18.5	12.5
Merged-chr4-133118307-4	chr4	133118211	133118411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12322.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	43.5	81.0	36.0	498.0	154.0	56.0	72.0	42.0
Merged-chr16-44109305-4	chr16	44109204	44109404	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358203, intron 6 of 14)	intron (NM_001358203, intron 6 of 14)	29955.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	21.5	34.5	14.0	588.0	41.0	10.0	18.5	23.0
Merged-chr13-55327865-4	chr13	55327773	55327973	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016662, intron 4 of 5)	intron (NM_016662, intron 4 of 5)	1857.0	NM_016662	17121.0	Mm.20350	NM_016662	ENSMUSG00000021485	Mxd3	4631412E13Rik|Mad3|bHLHc13	Max dimerization protein 3	protein-coding	52.5	58.0	13.0	442.0	83.0	24.0	39.0	28.0
Merged-chr11-3331937-1	chr11	3331837	3332037	+	904.0	f0_balb.idr	exon (NM_178149, exon 2 of 6)	exon (NM_178149, exon 2 of 6)	1206.0	NM_178149	216505.0	Mm.390323	NM_178149	ENSMUSG00000034614	Pik3ip1	1500004A08Rik|5830455E04Rik|Crkd|Hgfl	phosphoinositide-3-kinase interacting protein 1	protein-coding	8.5	21.0	25.0	241.5	30.0	11.5	6.5	9.5
Merged-chr19-47463923-8	chr19	47463753	47463953	+	926.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	558.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	5.0	3.5	10.0	101.5	10.5	6.5	5.0	6.0
Merged-chr14-31496263-4	chr14	31496137	31496337	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028932, intron 1 of 5)	intron (NM_028932, intron 1 of 5)	1158.0	NM_028932	74427.0	Mm.491208	NM_028932	ENSMUSG00000021890	Eaf1	4933403C17Rik|AI666536	ELL associated factor 1	protein-coding	19.0	22.5	17.0	189.5	23.5	13.0	14.5	14.0
Merged-chr16-45174056-4	chr16	45173959	45174159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356366, intron 4 of 10)	Lx8|LINE|L1	15230.0	NM_026402	67841.0	Mm.41775	NM_026402	ENSMUSG00000022663	Atg3	2610016C12Rik|APG3|Apg3l|Atg3l|PC3-96	autophagy related 3	protein-coding	102.0	130.5	121.0	2262.5	215.0	54.5	129.5	81.5
Merged-chr8-84147941-4	chr8	84147839	84148039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145970)	promoter-TSS (NM_145970)	-99.0	NM_001163752	74666.0	Mm.33625	NM_029045	ENSMUSG00000008129	4930432K21Rik	-	RIKEN cDNA 4930432K21 gene	protein-coding	62.5	70.0	36.0	591.5	135.0	55.0	44.5	63.0
Merged-chr8-95099172-3	chr8	95099067	95099267	+	880.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001145831)	TTS (NM_001145831)	14175.0	NM_001145832	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	4.5	9.0	8.5	107.0	8.5	9.0	4.0	5.5
Merged-chr8-35495048-4	chr8	35494917	35495117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026067, intron 1 of 6)	CpG	516.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	33.5	61.0	51.0	497.0	101.5	43.5	58.5	70.0
Merged-chr15-76765960-4	chr15	76765855	76766055	+	807.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	-42110.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	12.5	16.5	6.0	71.0	27.5	1.0	5.0	13.5
Merged-chr14-25461259-8	chr14	25461050	25461250	+	960.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	1965.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	27.0	14.5	13.0	153.5	32.0	9.0	23.5	17.0
Merged-chr9-110652490-4	chr9	110652398	110652598	+	810.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183276, intron 1 of 53)	intron (NM_183276, intron 1 of 53)	1663.0	NM_183276	235627.0	Mm.335481	NM_183276	ENSMUSG00000056724	Nbeal2	1110014F23Rik|BC042396|mKIAA0540	neurobeachin-like 2	protein-coding	13.0	10.5	11.0	104.0	19.0	12.0	10.5	16.0
Merged-chr5-118097596-3	chr5	118097497	118097697	+	865.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172721, intron 5 of 10)	intron (NM_172721, intron 5 of 10)	57861.0	NM_172721	231672.0	Mm.221769	NM_172721	ENSMUSG00000032867	Fbxw8	4930438M06Rik|FBW6|FBW8|FBXO29|Fbx29	F-box and WD-40 domain protein 8	protein-coding	8.0	22.0	16.5	230.5	15.5	0.5	10.0	15.0
Merged-chr12-73898897-3	chr12	73898805	73899005	+	965.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2419.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	21.0	13.5	16.0	302.5	20.5	7.0	7.0	18.0
Merged-chr14-65102591-3	chr14	65102493	65102693	+	870.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4487.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	14.0	8.5	5.0	124.5	25.0	16.0	8.0	5.5
Merged-chr11-11513555-4	chr11	11513434	11513634	+	827.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347068, intron 8 of 8)	intron (NM_001347068, intron 8 of 8)	24268.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	7.0	2.0	9.5	137.5	18.0	5.5	10.5	13.0
Merged-chr11-94564584-4	chr11	94564460	94564660	+	872.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007689)	promoter-TSS (NM_007689)	-487.0	NM_007689	12643.0	Mm.440523	NM_007689	ENSMUSG00000039084	Chad	SLRR4A	chondroadherin	protein-coding	20.0	30.0	10.0	196.5	32.5	6.5	16.5	8.5
Merged-chr4-101264727-1	chr4	101264627	101264827	+	1000.0	f0_balb.idr	intron (NM_146145, intron 1 of 24)	CpG	555.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	25.0	27.0	27.5	273.0	79.5	27.5	18.5	28.5
Merged-chr3-136086625-4	chr3	136086538	136086738	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 10 of 16)	intron (NM_001033350, intron 10 of 16)	239428.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	33.5	13.5	26.5	314.0	21.0	8.0	6.0	9.0
Merged-chr8-109862643-4	chr8	109862507	109862707	+	746.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009677, exon 24 of 24)	3' UTR (NM_009677, exon 24 of 24)	-5996.0	NM_001122594	244650.0	Mm.23494	NM_001122594	ENSMUSG00000031732	Phlpp2	AI481772|C130044A18Rik|Phlppl	PH domain and leucine rich repeat protein phosphatase 2	protein-coding	6.5	12.0	6.5	193.0	10.5	5.0	5.5	8.0
Merged-chr13-45438234-2	chr13	45438144	45438344	+	589.875	f0_balb.idr|f1_balb.idr	Intergenic	B1F|SINE|Alu	48502.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	7.0	16.0	11.5	98.5	5.5	4.0	2.5	8.0
Merged-chr12-110485714-4	chr12	110485602	110485802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012023)	promoter-TSS (NM_012023)	-37.0	NM_001081457	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	41.5	66.0	28.0	469.5	105.0	60.0	45.5	53.5
Merged-chr16-37689442-4	chr16	37689348	37689548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-35080.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	65.5	69.5	83.0	1148.5	154.0	45.0	66.0	57.0
Merged-chr6-120451672-4	chr6	120451571	120451771	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11526.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	8.5	26.0	4.0	68.5	37.0	9.5	15.5	9.0
Merged-chr10-96435330-4	chr10	96435215	96435415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-181686.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	38.5	56.5	35.0	416.0	87.0	22.0	25.5	33.5
Merged-chr8-94214507-4	chr8	94214423	94214623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357266)	promoter-TSS (NM_001357266)	-41.0	NM_001357266	71805.0	Mm.458170	NM_172410	ENSMUSG00000032939	Nup93	2410008G02Rik	nucleoporin 93	protein-coding	88.5	133.0	96.0	1287.5	258.5	100.5	102.0	96.0
Merged-chr1-51520480-4	chr1	51520368	51520568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151621, intron 3 of 3)	intron (NR_151621, intron 3 of 3)	-42069.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	27.0	37.5	28.5	467.5	64.5	21.5	33.5	27.5
Merged-chr2-4559665-4	chr2	4559572	4559772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177844)	promoter-TSS (NM_001177844)	-82.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	83.0	95.5	96.5	1635.5	142.0	63.0	109.0	63.5
Merged-chr3-58470220-4	chr3	58470145	58470345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55525.0	NM_001347233	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	21.5	43.5	32.0	520.0	61.0	29.5	31.0	19.5
Merged-chr14-16427796-4	chr14	16427672	16427872	+	970.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009409, intron 33 of 35)	intron (NM_009409, intron 33 of 35)	62566.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	22.0	19.0	46.5	604.0	61.5	13.0	41.0	38.0
Merged-chr5-143061240-3	chr5	143061141	143061341	+	964.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	51779.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	18.0	13.5	5.5	163.5	11.5	6.5	11.0	1.5
Merged-chr13-81712021-2	chr13	81711921	81712121	+	798.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_028372, intron 1 of 1)	intron (NM_028372, intron 1 of 1)	604.0	NM_028372	72852.0	Mm.31095	NM_028372	ENSMUSG00000051098	Mblac2	2900024O10Rik	metallo-beta-lactamase domain containing 2	protein-coding	6.5	10.0	11.5	67.5	13.5	7.0	6.0	19.0
Merged-chr11-21033047-3	chr11	21032942	21033142	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-58282.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	10.0	14.0	12.5	81.0	33.0	4.0	8.0	4.5
Merged-chr3-106486196-5	chr3	106486090	106486290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033207)	promoter-TSS (NR_033207)	150.0	NM_028110	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	22.5	43.5	22.5	185.5	39.0	16.0	19.0	20.0
Merged-chr8-120119150-4	chr8	120119063	120119263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	intron (NM_172286, intron 1 of 12)	5011.0	NM_001163761	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	42.0	50.5	43.0	756.0	59.0	7.5	20.0	18.0
Merged-chr2-35329658-2	chr2	35329558	35329758	+	679.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	7351.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	7.5	17.0	8.0	53.5	11.0	2.0	5.0	3.5
Merged-chr14-118709915-4	chr14	118709824	118710024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-3705.0	NM_001033336	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	32.0	55.5	42.0	1021.5	137.5	39.0	47.0	34.0
Merged-chr7-80208942-3	chr7	80208881	80209081	+	975.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	10540.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	10.5	19.0	12.5	269.5	28.5	2.0	5.5	4.5
Merged-chr17-43267609-3	chr17	43267496	43267696	+	701.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2751.0	NM_133776	77596.0	Mm.159950	NM_133776	ENSMUSG00000041293	Adgrf1	5031409J19Rik|Gpr110|KPG_009	adhesion G protein-coupled receptor F1	protein-coding	9.0	18.0	5.0	85.5	10.5	4.5	6.5	9.0
Merged-chr12-5226976-3	chr12	5226887	5227087	+	796.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 2 of 13)	intron (NM_001164493, intron 2 of 13)	148695.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	6.5	11.0	3.5	174.0	17.0	6.5	10.0	6.0
Merged-chr19-10376860-3	chr19	10376759	10376959	+	746.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12231.0	NM_018801	54525.0	Mm.182654	NM_018801	ENSMUSG00000024743	Syt7	AI851541|B230112P13Rik	synaptotagmin VII	protein-coding	6.0	5.0	3.0	67.0	18.0	7.0	8.0	10.0
Merged-chr9-78451585-4	chr9	78451470	78451670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026658, intron 3 of 11)	RSINE1|SINE|B4	3360.0	NM_026658	68291.0	Mm.291779	NM_026658	ENSMUSG00000032342	Mto1	2310039H01Rik|5730419A02Rik	mitochondrial tRNA translation optimization 1	protein-coding	35.0	43.5	62.0	719.0	97.0	28.0	50.5	35.0
Merged-chr13-46521726-1	chr13	46521626	46521826	+	950.0	f0_balb.idr	intron (NM_026056, intron 1 of 12)	L1MA5|LINE|L1	19823.0	NM_026056	67252.0	Mm.44529	NM_026056	ENSMUSG00000021373	Cap2	2810452G09Rik|AV045235	CAP, adenylate cyclase-associated protein, 2 (yeast)	protein-coding	13.0	5.5	8.5	165.5	5.0	0.0	3.0	2.0
Merged-chr1-157008277-4	chr1	157008137	157008337	+	967.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68611.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	20.5	28.0	41.0	409.5	38.0	15.0	8.0	21.5
Merged-chr11-114851784-4	chr11	114851734	114851934	+	845.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147217)	promoter-TSS (NM_147217)	-196.0	NM_147217	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	20.5	19.5	12.0	122.0	27.0	18.5	5.5	9.5
Merged-chr6-72151949-2	chr6	72151849	72152049	+	962.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 6 of 6)	intron (NM_001035228, intron 6 of 6)	-28752.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	4.5	5.0	3.5	27.0	4.5	8.5	5.5	9.5
Merged-chr10-128498800-4	chr10	128498678	128498878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131150)	promoter-TSS (NR_131150)	-93.0	NM_172259	216459.0	Mm.291688	NM_172259	ENSMUSG00000039824	Myl6b	5730437E04Rik|BC037527|MLC1SA	myosin, light polypeptide 6B	protein-coding	172.0	375.0	160.0	2699.5	497.0	202.0	250.0	188.5
Merged-chr4-129608786-4	chr4	129608703	129608903	+	959.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029748)	TTS (NM_029748)	5454.0	NM_001195730	100504491.0	Mm.482597	NM_001195730	ENSMUSG00000078552	Dcdc2b	Gm12964|Gm1366	doublecortin domain containing 2b	protein-coding	29.5	33.0	18.5	356.0	43.5	18.5	19.0	14.0
Merged-chr2-73040203-4	chr2	73040087	73040287	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59741.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	42.0	31.5	35.0	683.5	79.0	13.5	41.5	35.5
Merged-chr2-71020011-4	chr2	71019910	71020110	+	943.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	intron (NM_145524, intron 1 of 9)	-1636.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	22.5	39.5	29.0	433.0	35.5	10.0	16.0	13.0
Merged-chr12-55569906-4	chr12	55569809	55570009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4704.0	NM_001277340	79459.0	Mm.392781	NM_001277340	ENSMUSG00000063129	Aldoart2	4933425L11Rik|Aldo1-ps1|Aldoa-ps1	aldolase 1 A, retrogene 2	protein-coding	18.5	28.0	22.5	477.5	53.5	21.0	27.0	28.0
Merged-chr12-112668158-4	chr12	112668105	112668305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331107, intron 2 of 13)	intron (NM_001331107, intron 2 of 13)	6071.0	NM_001165894	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	79.5	64.0	68.0	1262.5	116.5	31.0	56.0	46.0
Merged-chr2-91485921-4	chr2	91485816	91486016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172668, exon 17 of 38)	exon (NM_172668, exon 17 of 38)	28385.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	33.0	42.0	25.0	602.0	63.5	23.5	32.5	30.0
Merged-chr17-69197892-4	chr17	69197786	69197986	+	926.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	38530.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	7.5	7.5	7.5	153.0	35.5	13.5	6.0	14.0
Merged-chr3-79586984-4	chr3	79586871	79587071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4366.0	NM_001356326	67738.0	Mm.295252	NM_026352	ENSMUSG00000027804	Ppid	4930564J03Rik|CYP-40|Ppidl|Ppif	peptidylprolyl isomerase D (cyclophilin D)	protein-coding	45.5	88.0	39.5	941.5	129.5	36.5	56.0	66.5
Merged-chr4-154899159-4	chr4	154899035	154899235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025582)	promoter-TSS (NM_025582)	-92.0	NM_025582	66469.0	Mm.41868	NM_025582	ENSMUSG00000029059	Fam213b	2810405K02Rik|AI836168|PM/PGFS	family with sequence similarity 213, member B	protein-coding	174.5	201.5	152.5	2147.5	310.0	144.0	178.5	125.0
Merged-chr5-127617462-4	chr5	127617359	127617559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133895)	promoter-TSS (NM_133895)	-67.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	119.5	171.0	116.0	1636.0	338.0	122.5	153.0	119.0
Merged-chr11-100757744-4	chr11	100757659	100757859	+	967.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081194, exon 2 of 17)	exon (NM_001081194, exon 2 of 17)	2019.0	NM_001081194	380728.0	Mm.297539	NM_001081194	ENSMUSG00000035355	Kcnh4	BEC2	potassium voltage-gated channel, subfamily H (eag-related), member 4	protein-coding	39.5	82.5	28.5	152.5	173.5	74.0	78.5	45.0
Merged-chr8-120112797-4	chr8	120112688	120112888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-1364.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	201.5	254.0	201.0	3350.5	396.0	138.5	211.5	213.0
Merged-chr7-128411100-4	chr7	128410930	128411130	+	960.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 1 of 4)	intron (NM_026418, intron 1 of 4)	7142.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	15.0	20.5	15.5	121.0	31.0	17.5	9.5	9.0
Merged-chr17-48320348-3	chr17	48320204	48320404	+	842.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177083, intron 3 of 5)	intron (NM_177083, intron 3 of 5)	4142.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	8.0	6.0	12.5	16.5	15.5	3.5	7.0	7.0
Merged-chr7-81861299-4	chr7	81861211	81861411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111910, intron 1 of 7)	intron (NR_111910, intron 1 of 7)	-1376.0	NM_001291282	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	64.0	48.0	29.0	685.0	73.5	31.5	32.0	65.0
Merged-chr6-125088841-6	chr6	125088745	125088945	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7136.0	NM_001346610	107932.0	Mm.333388	NM_145979	ENSMUSG00000063870	Chd4	9530019N15Rik|AA617397|BC005710|D6Ertd380e|Mi-2beta|mKIAA4075	chromodomain helicase DNA binding protein 4	protein-coding	38.5	27.5	38.5	370.5	29.0	10.0	16.0	30.0
Merged-chr16-90726893-1	chr16	90726793	90726993	+	935.6666869999999	f0_balb.idr	intron (NM_025642, intron 1 of 4)	intron (NM_025642, intron 1 of 4)	478.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	23.5	17.0	5.5	166.0	27.5	13.0	7.0	13.5
Merged-chr9-120068879-3	chr9	120068785	120068985	+	829.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009987)	promoter-TSS (NM_009987)	-589.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	9.0	17.5	6.5	129.0	14.0	5.0	4.5	6.0
Merged-chr8-13677121-4	chr8	13677003	13677203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	CpG	484.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	33.5	37.0	30.5	322.5	70.5	43.0	35.0	37.0
Merged-chr13-32903433-4	chr13	32903329	32903529	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-5289.0	NM_173051	380839.0	Mm.250802	NM_173051	ENSMUSG00000079049	Serpinb1c	EIC|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1c	protein-coding	21.5	19.5	20.0	251.0	64.0	19.0	34.0	24.5
Merged-chr11-68519559-4	chr11	68519455	68519655	+	981.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004435, intron 1 of 19)	intron (NM_001004435, intron 1 of 19)	16536.0	NR_126154	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	38.5	57.5	13.5	325.0	64.5	28.0	29.5	17.0
Merged-chr13-44272890-3	chr13	44272789	44272989	+	929.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BLACKJACK|DNA|hAT-Blackjack	-56402.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	10.5	10.5	12.0	191.0	5.5	5.0	4.5	4.5
Merged-chr7-129307176-4	chr7	129307106	129307306	+	770.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080963, intron 1 of 6)	intron (NM_001080963, intron 1 of 6)	50112.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	10.0	10.5	6.5	102.5	17.0	13.0	7.5	11.0
Merged-chr3-95111146-4	chr3	95111061	95111261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009336, exon 1 of 6)	exon (NM_009336, exon 1 of 6)	119.0	NM_009336	21427.0	Mm.133919	NM_009336	ENSMUSG00000008958	Vps72	Tcfl1|YL-1	vacuolar protein sorting 72	protein-coding	33.0	38.5	44.5	200.5	80.0	37.0	17.0	35.0
Merged-chr17-72962164-3	chr17	72962058	72962258	+	839.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43853.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	12.5	12.0	12.5	220.5	13.0	6.5	5.5	17.0
Merged-chr4-6388694-4	chr4	6388591	6388791	+	913.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 6 of 8)	intron (NM_001098227, intron 6 of 8)	23011.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	6.0	10.0	11.0	132.5	43.5	15.5	12.0	13.5
Merged-chr8-25089709-3	chr8	25089608	25089808	+	678.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 1 of 11)	intron (NM_031257, intron 1 of 11)	12103.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	8.0	8.0	8.5	131.5	19.0	9.0	4.5	5.0
Merged-chr3-98024574-4	chr3	98024482	98024682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	11044.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	50.5	111.5	67.0	1077.5	119.5	37.0	63.0	64.0
Merged-chr14-69854114-4	chr14	69854019	69854219	+	724.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 3 of 6)	intron (NM_028560, intron 3 of 6)	13712.0	NM_028526	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	7.0	17.5	3.0	98.0	22.5	5.0	7.5	9.0
Merged-chr10-95507052-4	chr10	95506952	95507152	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-5103.0	NM_001359477	67270.0	Mm.30008	NM_026065	ENSMUSG00000062981	Mrpl42	2700009F22Rik|2900055D03Rik|D10Ertd322e|HSPC204|L31mt|L42mt|MRP-L31|MRP-L42|MRP-S32|PTD007|Rpml31|S32mt	mitochondrial ribosomal protein L42	protein-coding	9.5	16.5	6.5	193.0	27.5	5.5	4.5	20.5
Merged-chr9-114690341-4	chr9	114690237	114690437	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146229, intron 2 of 12)	intron (NM_146229, intron 2 of 12)	1506.0	NM_146229	235661.0	Mm.128627	NM_146229	ENSMUSG00000032435	Dync1li1	1110053F02Rik|Dnclic1|LIC-1	dynein cytoplasmic 1 light intermediate chain 1	protein-coding	17.0	8.5	24.0	196.5	30.5	7.0	10.0	16.0
Merged-chr11-80156934-4	chr11	80156830	80157030	+	973.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 2 of 10)	intron (NM_172133, intron 2 of 10)	2768.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	23.0	35.0	29.5	339.5	72.5	29.0	19.0	29.5
Merged-chr2-180692798-4	chr2	180692704	180692904	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_111965)	promoter-TSS (NR_111965)	-756.0	NR_111965	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	40.5	21.5	45.5	620.0	42.5	15.5	38.0	19.5
Merged-chr6-97971582-4	chr6	97971484	97971684	+	774.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001178049, intron 2 of 9)	intron (NM_001178049, intron 2 of 9)	-20199.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	14.5	21.0	10.5	218.5	20.0	10.0	9.5	7.0
Merged-chr15-97343004-3	chr15	97342878	97343078	+	898.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	MTD|LTR|ERVL-MaLR	-95691.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	10.0	7.5	8.0	106.0	6.0	0.0	2.5	2.0
Merged-chr7-90028685-2	chr7	90028585	90028785	+	730.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110364)	promoter-TSS (NR_110364)	-474.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	5.0	5.0	7.0	15.0	6.5	4.5	2.0	4.5
Merged-chr19-53170824-4	chr19	53170732	53170932	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013758, intron 1 of 15)	intron (NM_013758, intron 1 of 15)	26835.0	NM_013758	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	8.0	14.0	11.5	298.5	18.5	6.5	16.5	16.5
Merged-chr1-74245044-4	chr1	74244885	74245085	+	714.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	B3A|SINE|B2	8468.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	7.0	2.0	7.0	141.0	14.0	8.5	9.5	12.5
Merged-chr7-43533194-4	chr7	43533077	43533277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021293)	promoter-TSS (NM_021293)	-6.0	NM_021293	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	97.5	142.0	142.5	2051.0	237.0	91.0	132.0	151.5
Merged-chr8-70698897-4	chr8	70698827	70699027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010592, exon 1 of 1)	5' UTR (NM_010592, exon 1 of 1)	1188.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	320.0	451.0	288.0	3725.5	641.5	266.5	307.0	250.0
Merged-chr11-76529887-4	chr11	76529782	76529982	+	975.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198894, intron 1 of 22)	intron (NM_198894, intron 1 of 22)	-20463.0	NM_198018	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	43.0	41.5	44.0	550.5	64.0	22.0	14.5	31.5
Merged-chr7-45091377-3	chr7	45091330	45091530	+	954.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355045, intron 2 of 6)	intron (NM_001355045, intron 2 of 6)	783.0	NM_026555	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	12.0	13.5	8.0	150.0	4.5	2.5	1.5	3.5
Merged-chr16-90221867-4	chr16	90221753	90221953	+	872.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011434, intron 1 of 4)	intron (NM_011434, intron 1 of 4)	1111.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	5.0	8.0	8.5	165.5	25.5	8.5	11.0	9.5
Merged-chr8-26977115-4	chr8	26977018	26977218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101502)	promoter-TSS (NM_001101502)	-218.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	197.0	311.0	176.5	2386.0	452.0	181.0	177.0	174.0
Merged-chr12-44936889-2	chr12	44936793	44936993	+	598.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	intron (NM_144552, intron 2 of 5)	137590.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	3.0	1.0	7.0	40.5	18.0	10.5	7.0	8.5
Merged-chr12-59012776-6	chr12	59012719	59012919	+	816.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009147)	promoter-TSS (NM_009147)	-572.0	NM_025656	66603.0	Mm.35353	NM_025656	ENSMUSG00000060121	Gemin2	Sip1|gemin-2	gem nuclear organelle associated protein 2	protein-coding	7.0	6.5	6.0	91.0	22.5	7.0	7.5	12.0
Merged-chr6-134898387-4	chr6	134898294	134898494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167696)	promoter-TSS (NM_001167696)	-200.0	NM_001362051	14760.0	Mm.4787	NM_008157	ENSMUSG00000032641	Gpr19	-	G protein-coupled receptor 19	protein-coding	69.0	111.5	80.5	1047.5	211.0	72.5	72.0	105.0
Merged-chr11-95146257-3	chr11	95146138	95146338	+	654.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007867)	promoter-TSS (NM_007867)	-437.0	NM_007867	13394.0	Mm.439766	NM_007867	ENSMUSG00000020871	Dlx4	Dlx-4|Dlx7	distal-less homeobox 4	protein-coding	8.0	8.0	5.5	156.0	17.0	5.5	7.0	13.5
Merged-chr2-127584668-4	chr2	127584517	127584717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028141)	promoter-TSS (NM_028141)	60.0	NM_001111029	72180.0	Mm.46715	NM_028141	ENSMUSG00000034800	Zfp661	2810405K07Rik|A1-5|Znf2	zinc finger protein 661	protein-coding	46.5	62.5	41.5	594.0	51.0	20.5	24.0	26.5
Merged-chr15-58272649-4	chr15	58272527	58272727	+	901.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51542.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	24.0	16.0	35.5	388.5	23.5	13.5	21.0	17.5
Merged-chr1-105787169-4	chr1	105787064	105787264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	6441.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	91.0	147.5	113.5	1887.5	215.0	97.0	101.0	131.0
Merged-chr8-3649022-4	chr8	3648928	3649128	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6742.0	NM_001204959	57264.0	Mm.1181	NM_022984	ENSMUSG00000012705	Retn	ADSF|Fizz3|Rstn|Xcp4	resistin	protein-coding	21.5	24.0	28.5	315.5	39.0	7.5	21.5	16.0
Merged-chr12-3426779-4	chr12	3426688	3426888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030694)	promoter-TSS (NR_030694)	-41.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	209.5	323.0	224.5	3002.5	529.5	186.0	300.5	203.0
Merged-chr19-7580831-1	chr19	7580731	7580931	+	580.5	f0_balb.idr	intron (NM_001362425, intron 4 of 4)	intron (NM_001362425, intron 4 of 4)	23346.0	NM_001362425	225845.0	Mm.274810	NM_139269	ENSMUSG00000060675	Pla2g16	AdPLA|C78643|HRSL3|Hrasls3|Hrev107|MLP-3	phospholipase A2, group XVI	protein-coding	0.0	6.5	0.0	100.5	11.0	8.5	9.5	10.0
Merged-chr2-11603228-4	chr2	11603112	11603312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152824)	promoter-TSS (NM_152824)	-13.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	96.0	128.0	113.0	1500.0	266.0	78.5	123.0	115.0
Merged-chr9-21165763-2	chr9	21165663	21165863	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183408)	promoter-TSS (NM_183408)	49.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	11.5	11.5	14.0	153.5	31.0	7.5	14.5	11.5
Merged-chr2-52605545-3	chr2	52605438	52605638	+	746.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	-46927.0	NM_001285427	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	4.0	7.0	7.5	117.0	18.5	8.5	10.5	5.5
Merged-chr11-72547393-4	chr11	72547295	72547495	+	966.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029932, intron 1 of 11)	intron (NM_029932, intron 1 of 11)	2851.0	NM_029932	77577.0	Mm.46185	NM_029932	ENSMUSG00000020798	Spns3	9830002I17Rik	spinster homolog 3	protein-coding	28.5	48.0	16.0	115.5	43.0	20.5	20.0	14.0
Merged-chr11-62551644-4	chr11	62551536	62551736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313984)	promoter-TSS (NM_001313984)	-95.0	NM_001313984	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	167.5	334.5	104.0	1166.0	361.5	168.5	123.0	99.5
Merged-chr12-55774494-4	chr12	55774368	55774568	+	770.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003719, intron 9 of 39)	Lx7|LINE|L1	47048.0	NM_019994	56784.0	Mm.292180	NM_019994	ENSMUSG00000021027	Ralgapa1	2310003F20Rik|4930400K19Rik|AI563624|GRIPE|Garnl1|Tulip1|mKIAA0884	Ral GTPase activating protein, alpha subunit 1	protein-coding	8.5	5.5	3.5	160.0	22.5	5.5	18.0	11.5
Merged-chr2-101629034-4	chr2	101628932	101629132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026592)	promoter-TSS (NM_026592)	-46.0	NM_026592	68170.0	Mm.31263	NM_026592	ENSMUSG00000027165	B230118H07Rik	NWC	RIKEN cDNA B230118H07 gene	protein-coding	188.5	218.5	196.0	3276.5	399.5	143.0	224.5	134.0
Merged-chr2-73060034-4	chr2	73059940	73060140	+	897.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79594.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	17.0	19.5	4.0	156.5	32.0	14.0	9.0	19.5
Merged-chr18-34220876-4	chr18	34220725	34220925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007462)	promoter-TSS (NM_007462)	-159.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	102.5	132.0	71.5	1399.5	170.0	59.5	62.0	80.5
Merged-chr18-23903071-4	chr18	23902970	23903170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51618.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	79.5	119.5	79.5	1133.5	133.0	48.0	61.0	57.5
Merged-chr18-60268766-3	chr18	60268666	60268866	+	968.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001034859, exon 2 of 2)	3' UTR (NM_001034859, exon 2 of 2)	4501.0	NM_001034859	225594.0	Mm.329460	NM_001034859	ENSMUSG00000068606	Gm4841	EG225594|Ifgga3	predicted gene 4841	protein-coding	16.5	21.5	22.5	181.5	19.0	5.5	2.0	8.0
Merged-chr14-19777051-4	chr14	19776931	19777131	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008695, intron 4 of 20)	intron (NM_008695, intron 4 of 20)	25774.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	24.0	26.5	36.0	392.0	60.5	21.5	28.5	15.5
Merged-chr1-91757570-3	chr1	91757444	91757644	+	812.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43917.0	NM_007855	13345.0	Mm.9474	NM_007855	ENSMUSG00000007805	Twist2	Dermo1|bHLHa39	twist basic helix-loop-helix transcription factor 2	protein-coding	8.5	8.5	13.5	121.5	14.5	3.5	6.0	5.5
Merged-chr7-30232260-1	chr7	30232160	30232360	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_001360648)	promoter-TSS (NM_001360648)	-63.0	NM_025548	66411.0	Mm.27947	NM_025548	ENSMUSG00000006095	Tbcb	2410007D12Rik|AU041393|CG22|CKAPI|Ckap1	tubulin folding cofactor B	protein-coding	51.5	56.5	48.0	516.5	148.5	68.0	47.0	82.5
Merged-chr17-15498268-4	chr17	15498177	15498377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011185)	promoter-TSS (NM_011185)	-1.0	NM_011185	19170.0	Mm.32912	NM_011185	ENSMUSG00000014769	Psmb1	AA409053|C81484|Lmpc5	proteasome (prosome, macropain) subunit, beta type 1	protein-coding	52.5	92.5	62.5	880.5	149.5	66.0	79.5	63.5
Merged-chr2-51147090-3	chr2	51147001	51147201	+	991.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028810, intron 2 of 4)	intron (NM_028810, intron 2 of 4)	2010.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	26.5	17.5	13.0	211.5	22.0	9.5	13.5	7.5
Merged-chr11-80142145-4	chr11	80142018	80142218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183275)	promoter-TSS (NM_183275)	35.0	NM_183275	68550.0	Mm.18466	NM_183275	ENSMUSG00000046909	Tefm	1110002N22Rik	transcription elongation factor, mitochondrial	protein-coding	34.0	62.0	25.5	295.5	67.0	27.0	17.5	20.0
Merged-chr6-32507033-3	chr6	32506922	32507122	+	712.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 2 of 31)	intron (NM_175750, intron 2 of 31)	-4119.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	8.5	11.0	10.0	161.0	5.0	6.5	0.0	5.0
Merged-chr3-75553323-4	chr3	75553226	75553426	+	678.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019745, intron 1 of 7)	intron (NM_019745, intron 1 of 7)	3526.0	NM_019745	56426.0	Mm.316473	NM_019745	ENSMUSG00000027835	Pdcd10	2410003B13Rik|Ccm3|Tfa15|Tfar15	programmed cell death 10	protein-coding	11.0	6.0	15.5	93.5	18.5	6.0	11.5	14.5
Merged-chr8-3718733-4	chr8	3718636	3718836	+	821.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029465, intron 3 of 8)	intron (NM_029465, intron 3 of 8)	1915.0	NM_029465	75863.0	Mm.109183	NM_029465	ENSMUSG00000074491	Clec4g	4930572L20Rik	C-type lectin domain family 4, member g	protein-coding	10.5	15.0	8.0	252.0	32.0	10.0	11.5	11.5
Merged-chr18-61110476-2	chr18	61110376	61110576	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001037859, exon 4 of 22)	exon (NM_001037859, exon 4 of 22)	4904.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	3.0	9.0	2.0	34.5	9.5	5.0	5.5	10.5
Merged-chr1-121441230-3	chr1	121441136	121441336	+	933.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 3 of 23)	intron (NM_029955, intron 3 of 23)	10169.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	14.5	15.0	17.0	206.5	26.5	12.5	12.0	17.5
Merged-chr2-118490841-4	chr2	118490721	118490921	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11125.0	NM_009273	20813.0	Mm.363404	NM_009273	ENSMUSG00000009549	Srp14	14kDa|AW536328	signal recognition particle 14	protein-coding	17.5	14.5	7.5	177.5	50.0	21.0	32.0	42.0
Merged-chr18-39370872-4	chr18	39370765	39370965	+	901.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 21 of 21)	Charlie4z|DNA|hAT-Charlie	116380.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	18.5	24.5	15.0	217.0	28.0	12.0	16.0	5.0
Merged-chr3-85971140-5	chr3	85971049	85971249	+	835.723816	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	31342.0	NM_001001650	368202.0	Mm.253822	NM_001001650	ENSMUSG00000049013	Prss48	Esspl|Gm1019	protease, serine 48	protein-coding	16.5	15.0	15.5	191.0	12.0	12.5	21.0	10.0
Merged-chr4-133887832-8	chr4	133887700	133887900	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285505)	promoter-TSS (NM_001285505)	-3.0	NM_009097	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	20.5	40.5	9.0	189.0	76.5	18.5	32.0	36.5
Merged-chr5-99632971-4	chr5	99632874	99633074	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	96086.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	15.0	12.5	16.5	99.0	44.0	9.0	11.0	15.5
Merged-chr6-130954354-4	chr6	130954233	130954433	+	901.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	293029.0	NM_001170851	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	12.0	19.5	10.0	262.5	26.0	5.0	6.0	17.5
Merged-chr1-87326875-4	chr1	87326787	87326987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110212)	promoter-TSS (NM_001110212)	-111.0	NM_146112	227331.0	Mm.23065	NM_146112	ENSMUSG00000048000	Gigyf2	2610016F01Rik|A830080H02Rik|AI852361|AW259676|BC006835|Tnrc15|mKIAA0642	GRB10 interacting GYF protein 2	protein-coding	153.5	230.5	132.5	1648.5	434.0	161.0	186.0	132.0
Merged-chr4-134097321-5	chr4	134097163	134097363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2190.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	46.0	87.5	43.0	527.5	133.5	53.0	51.0	57.0
Merged-chr9-89259122-4	chr9	89259019	89259219	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEg|LINE|L1	47735.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	45.0	39.5	44.0	760.0	33.0	10.5	30.5	26.5
Merged-chr3-67554044-3	chr3	67553954	67554154	+	967.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28714.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	4.0	4.5	2.0	34.0	36.0	14.0	18.5	20.5
Merged-chr13-81761936-3	chr13	81761825	81762025	+	670.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21322.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	8.0	10.0	10.0	183.0	20.5	8.5	7.5	8.0
Merged-chr17-81704907-4	chr17	81704799	81704999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	33488.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	58.0	48.0	68.0	1065.0	106.5	20.0	30.0	36.0
Merged-chr17-56674241-4	chr17	56674138	56674338	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252467, intron 1 of 13)	URR1B|DNA|hAT-Charlie	1013.0	NM_027933	71810.0	Mm.29608	NM_027933	ENSMUSG00000002372	Ranbp3	2610024N24Rik|AA408221	RAN binding protein 3	protein-coding	11.0	16.5	14.5	188.5	31.0	17.5	22.5	31.5
Merged-chr11-21567903-4	chr11	21567804	21568004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316675, intron 1 of 8)	intron (NM_001316675, intron 1 of 8)	4030.0	NM_008618	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	23.0	28.0	22.0	495.5	40.5	12.5	23.0	30.0
Merged-chr5-142912987-4	chr5	142912854	142913054	+	734.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6200.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	7.0	12.0	2.5	101.0	25.0	9.0	7.5	8.5
Merged-chr12-103099365-4	chr12	103099236	103099436	+	693.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081017, intron 26 of 48)	intron (NM_001081017, intron 26 of 48)	142810.0	NM_133364	170952.0	Mm.217019	NM_133364	ENSMUSG00000041669	Prima1	B230212M13Rik|BB120497|PRiMA	proline rich membrane anchor 1	protein-coding	10.0	12.5	7.5	86.5	19.0	9.0	14.0	15.0
Merged-chr15-77837893-4	chr15	77837796	77837996	+	894.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	4279.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	8.0	19.5	9.5	126.5	43.0	11.5	12.5	9.0
Merged-chr7-80849934-4	chr7	80849812	80850012	+	938.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12196.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	14.5	15.5	3.5	205.5	53.0	18.5	13.0	18.5
Merged-chr5-115349057-4	chr5	115348959	115349159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007748)	promoter-TSS (NM_007748)	-104.0	NM_007748	12861.0	Mm.43415	NM_007748	ENSMUSG00000041697	Cox6a1	VIaL	cytochrome c oxidase subunit VIa polypeptide 1	protein-coding	84.0	139.0	56.0	856.0	266.0	87.5	92.5	97.0
Merged-chr6-113419349-4	chr6	113419267	113419467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346511)	promoter-TSS (NM_001346511)	-19.0	NM_001346511	101122.0	Mm.31204	NM_001033204	ENSMUSG00000051169	Rpusd3	AI527266	RNA pseudouridylate synthase domain containing 3	protein-coding	44.0	59.5	27.5	660.5	146.5	27.5	48.0	45.5
Merged-chr7-128744857-4	chr7	128744759	128744959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029982)	promoter-TSS (NM_001029982)	-11.0	NM_001029982	207352.0	Mm.297105	NM_001029982	ENSMUSG00000055319	Sec23ip	D7Ertd373e|p125	Sec23 interacting protein	protein-coding	136.5	157.0	108.5	1113.5	269.0	106.5	92.5	95.0
Merged-chr8-86873656-3	chr8	86873594	86873794	+	843.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	11564.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	6.0	13.0	6.0	89.0	12.0	8.0	9.0	0.0
Merged-chr2-127378327-4	chr2	127378235	127378435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15049.0	NM_009633	11552.0	Mm.347390	NM_009633	ENSMUSG00000058620	Adra2b	Adra-2b|[a]2B|a2b-AR|alpha2-C2|alpha2B	adrenergic receptor, alpha 2b	protein-coding	42.0	48.0	22.0	406.5	101.0	60.0	40.5	51.0
Merged-chr10-121454270-3	chr10	121454180	121454380	+	938.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	21970.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	13.0	33.0	9.5	362.0	18.5	5.5	8.0	1.5
Merged-chr4-151995782-2	chr4	151995682	151995882	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172705, intron 1 of 3)	CpG	397.0	NM_172705	230936.0	Mm.25582	NM_172705	ENSMUSG00000047777	Phf13	BC029632|Phf5|SPOC1	PHD finger protein 13	protein-coding	7.0	10.0	12.5	108.0	37.0	3.0	8.0	9.5
Merged-chr16-10786561-4	chr16	10786466	10786666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1030.0	NM_001271603	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	43.0	29.0	20.5	371.0	93.5	20.5	41.0	33.0
Merged-chr17-65663909-4	chr17	65663802	65664002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 6 of 6)	intron (NM_133685, intron 6 of 6)	-21698.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	29.5	49.0	30.5	509.5	53.5	36.0	43.0	42.5
Merged-chr19-11465067-4	chr19	11465018	11465218	+	964.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4250.0	NM_001166376	73656.0	Mm.440719	NM_028595	ENSMUSG00000079419	Ms4a6c	2200009H22Rik|2210417N07Rik	membrane-spanning 4-domains, subfamily A, member 6C	protein-coding	31.0	41.5	15.5	103.5	68.0	18.5	13.5	19.0
Merged-chr8-80969667-4	chr8	80969587	80969787	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	45219.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	27.0	22.0	17.5	324.5	18.5	4.5	14.0	9.0
Merged-chr5-123860604-3	chr5	123860506	123860706	+	819.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	X7A_LINE|LINE|CR1	4910.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	5.5	5.5	5.0	51.5	22.5	13.0	4.0	10.0
Merged-chr8-84437009-3	chr8	84436855	84437055	+	893.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252060, intron 1 of 47)	intron (NM_001252060, intron 1 of 47)	21591.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	17.0	21.5	24.0	442.5	0.0	0.0	0.0	0.5
Merged-chr2-45089698-4	chr2	45089597	45089797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355291, intron 2 of 9)	intron (NM_001355291, intron 2 of 9)	20580.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	142.5	250.0	113.5	1382.0	352.5	177.0	155.0	116.5
Merged-chr13-21812352-4	chr13	21812234	21812434	+	914.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175657)	TTS (NM_175657)	550.0	NM_175657	319161.0	Mm.261664	NM_175657	ENSMUSG00000069305	Hist1h4n	-	histone cluster 1, H4n	protein-coding	12.0	6.5	14.5	81.0	20.5	13.0	18.0	19.5
Merged-chr14-27096492-4	chr14	27096382	27096582	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134437, intron 11 of 12)	intron (NM_134437, intron 11 of 12)	-47511.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	9.0	11.0	9.5	156.5	23.0	9.5	9.5	7.5
Merged-chr2-128008936-4	chr2	128008909	128009109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 11 of 17)	intron (NM_028765, intron 11 of 17)	-117029.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	29.0	50.0	31.5	398.5	50.0	22.0	18.0	29.0
Merged-chr6-72391300-4	chr6	72391190	72391390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016794)	promoter-TSS (NM_016794)	-623.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	35.0	50.0	36.5	336.5	121.0	31.0	39.0	35.5
Merged-chr9-5299366-3	chr9	5299237	5299437	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009807, exon 2 of 10)	exon (NM_009807, exon 2 of 10)	820.0	NM_009807	12362.0	Mm.1051	NM_009807	ENSMUSG00000025888	Casp1	ICE|Il1bc	caspase 1	protein-coding	8.0	11.5	13.0	152.0	22.5	7.0	3.0	10.0
Merged-chr4-41388715-4	chr4	41388606	41388806	+	768.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290454, exon 6 of 6)	exon (NM_001290454, exon 6 of 6)	36743.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	11.5	17.0	10.0	157.5	8.5	10.0	9.0	14.5
Merged-chr2-58157148-4	chr2	58157046	58157246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139200, intron 1 of 7)	intron (NM_139200, intron 1 of 7)	2976.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	52.0	50.0	52.0	916.0	101.5	19.0	71.0	28.5
Merged-chr5-148399917-4	chr5	148399816	148400016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007513)	promoter-TSS (NM_007513)	-12.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	86.5	134.0	76.0	1285.0	288.5	79.0	134.0	103.0
Merged-chr4-54195920-2	chr4	54195822	54196022	+	794.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	369877.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	6.0	26.0	14.5	221.0	3.5	0.5	1.0	4.0
Merged-chr4-148498842-4	chr4	148498725	148498925	+	965.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039554, intron 1 of 4)	B2_Mm1t|SINE|B2	1637.0	NM_001039554	654812.0	Mm.388929	NM_001039554	ENSMUSG00000028989	Angptl7	-	angiopoietin-like 7	protein-coding	24.5	30.5	15.5	234.0	40.5	13.0	17.5	15.0
Merged-chr9-32032931-4	chr9	32032885	32033085	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-83151.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	11.0	5.5	4.5	133.0	19.5	7.5	4.5	14.0
Merged-chr15-40047998-4	chr15	40047925	40048125	+	892.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155348, intron 1 of 2)	intron (NR_155348, intron 1 of 2)	2837.0	NR_155348	102636079.0	Mm.421381	NR_155348	ENSMUSG00000115142	Gm33251	-	predicted gene, 33251	ncRNA	12.0	13.0	19.0	369.5	25.5	10.0	15.5	25.0
Merged-chr14-66295935-4	chr14	66295843	66296043	+	894.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038077, intron 2 of 2)	MTD|LTR|ERVL-MaLR	-1082.0	NM_029979	66854.0	Mm.43871	NM_029979	ENSMUSG00000022043	Trim35	0710005M05Rik|A430106H13Rik|AW046487|HLS5|Mair|NC8|mKIAA1098	tripartite motif-containing 35	protein-coding	11.0	25.0	15.0	79.5	44.5	20.0	13.5	15.0
Merged-chr15-99705755-4	chr15	99705653	99705853	+	839.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031842, intron 6 of 12)	intron (NM_031842, intron 6 of 12)	3466.0	NM_031842	83797.0	Mm.273756	NM_031842	ENSMUSG00000023018	Smarcd1	AA407987|Baf60a|D15Kz1	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1	protein-coding	13.5	18.5	8.0	149.5	23.0	7.0	5.5	14.5
Merged-chr8-124750288-3	chr8	124750157	124750357	+	785.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081120, intron 1 of 1)	intron (NM_001081120, intron 1 of 1)	1552.0	NM_001081120	69627.0	Mm.271600	NM_001081120	ENSMUSG00000043068	Fam89a	2310031A18Rik	family with sequence similarity 89, member A	protein-coding	5.5	21.5	12.0	101.0	2.0	0.5	0.0	0.5
Merged-chr1-39579349-4	chr1	39579244	39579444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1997.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	47.5	70.0	87.0	1012.0	119.5	46.5	58.0	56.0
Merged-chr19-10688731-4	chr19	10688619	10688819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361963)	promoter-TSS (NM_001361963)	-16.0	NM_181403	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	84.0	226.0	80.0	674.5	190.0	99.0	98.0	61.5
Merged-chr19-6277826-4	chr19	6277730	6277930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 1 of 4)	intron (NM_010119, intron 1 of 4)	934.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	47.5	146.5	78.0	576.0	178.5	64.0	67.5	44.0
Merged-chr10-18022471-4	chr10	18022367	18022567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028440, intron 1 of 2)	intron (NM_028440, intron 1 of 2)	623.0	NM_001359560	73112.0	Mm.276041	NM_028440	ENSMUSG00000078453	Abracl	1700028I04Rik|3110003A17Rik	ABRA C-terminal like	protein-coding	35.5	43.0	32.0	459.5	97.0	30.5	49.5	31.0
Merged-chr2-165917755-3	chr2	165917675	165917875	+	989.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32937.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	9.0	12.5	5.0	42.5	45.0	8.0	10.0	17.0
Merged-chr9-15126184-3	chr9	15126082	15126282	+	937.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-14074.0	NM_001164797	244698.0	Mm.325134	NM_001164797	ENSMUSG00000031936	Hephl1	Gm509|Zp|zyklopen	hephaestin-like 1	protein-coding	13.0	15.5	9.5	183.5	14.0	3.5	6.0	5.0
Merged-chr1-36086775-3	chr1	36086691	36086891	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	ORR1B1|LTR|ERVL-MaLR	18391.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	6.5	19.0	13.0	41.5	21.0	5.5	8.0	7.0
Merged-chr14-31337508-4	chr14	31337386	31337586	+	881.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360187, intron 1 of 20)	intron (NM_001360187, intron 1 of 20)	848.0	NM_009796	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	9.5	16.0	9.0	187.0	30.0	10.0	9.5	17.0
Merged-chr6-49035955-4	chr6	49035864	49036064	+	788.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053110)	promoter-TSS (NM_053110)	-554.0	NM_053110	93695.0	Mm.302602	NM_053110	ENSMUSG00000029816	Gpnmb	DC-HIL|Dchil|ipd	glycoprotein (transmembrane) nmb	protein-coding	5.0	9.0	14.5	194.0	26.5	11.5	4.0	8.0
Merged-chr12-71012255-4	chr12	71012158	71012358	+	692.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045056, intron 2 of 2)	B4A|SINE|B4	3565.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	7.0	6.5	9.5	229.0	21.0	1.0	11.0	7.5
Merged-chr19-46319260-2	chr19	46319160	46319360	+	897.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028627, intron 11 of 17)	intron (NM_028627, intron 11 of 17)	7606.0	NM_001347454	73728.0	Mm.268532	NM_028627	ENSMUSG00000037126	Psd	1110007H17Rik|A930015K15|Efa6|Efa6a|Psdl|mKIAA2011	pleckstrin and Sec7 domain containing	protein-coding	1.5	4.0	6.0	22.5	4.5	4.5	5.5	4.5
Merged-chr18-77934391-2	chr18	77934291	77934491	+	797.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4076.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	9.0	1.0	2.5	71.0	23.5	5.0	9.0	7.0
Merged-chr9-37029982-1	chr9	37029882	37030082	+	790.0	f0_balb.idr	intron (NM_001029838, intron 2 of 12)	intron (NM_001029838, intron 2 of 12)	117340.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	6.5	16.0	9.0	139.0	1.0	1.0	1.0	5.0
Merged-chr9-63716354-4	chr9	63716259	63716459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	41635.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	98.0	161.5	93.0	1135.5	241.0	89.5	104.5	84.0
Merged-chr2-70091349-4	chr2	70091252	70091452	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177376, intron 2 of 34)	MLT1B|LTR|ERVL-MaLR	52226.0	NM_177376	329421.0	Mm.99648	NM_177376	ENSMUSG00000042064	Myo3b	A430065P19Rik	myosin IIIB	protein-coding	9.5	42.5	33.5	544.0	34.5	7.0	15.0	17.0
Merged-chr13-94382241-4	chr13	94382149	94382349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009680, intron 1 of 26)	intron (NM_009680, intron 1 of 26)	23289.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	61.5	83.0	96.0	1437.5	175.5	43.0	85.0	52.0
Merged-chr1-170885465-4	chr1	170885350	170885550	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356485)	promoter-TSS (NM_001356485)	90.0	NR_151476	80915.0	Mm.34365	NM_023173	ENSMUSG00000026659	Dusp12	1190004O14Rik|AA027408|AW049275|ESTM36|LMW-DSP4|T-DSP4|VH1|mVH1	dual specificity phosphatase 12	protein-coding	15.0	47.5	22.5	414.0	46.5	17.5	30.0	25.5
Merged-chr7-46615800-4	chr7	46615727	46615927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013789, intron 7 of 10)	MIR3|SINE|MIR	23980.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	128.0	177.5	139.0	2169.5	290.5	115.5	142.0	163.5
Merged-chr11-86201264-4	chr11	86201160	86201360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_130958)	promoter-TSS (NR_130958)	-67.0	NM_178309	237911.0	Mm.186143	NM_178309	ENSMUSG00000034329	Brip1	3110009N10Rik|8030460J03Rik|Bach1|FACJ|Fancj|OF	BRCA1 interacting protein C-terminal helicase 1	protein-coding	144.5	186.0	74.0	1282.5	318.5	123.5	130.0	97.5
Merged-chr8-72320927-4	chr8	72320838	72321038	+	954.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008452, exon 3 of 3)	3' UTR (NM_008452, exon 3 of 3)	1876.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	16.5	12.5	15.0	207.0	15.0	11.0	17.5	22.5
Merged-chr4-116144554-4	chr4	116144436	116144636	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026547)	promoter-TSS (NM_026547)	80.0	NM_026547	68075.0	Mm.132803	NM_026547	ENSMUSG00000028701	Lurap1	1520402A15Rik|Lrp35a	leucine rich adaptor protein 1	protein-coding	13.5	35.5	30.0	291.0	51.5	13.5	22.0	7.5
Merged-chr13-8996101-4	chr13	8996003	8996203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027000)	promoter-TSS (NM_027000)	-91.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	184.0	295.0	147.5	2715.5	557.0	191.0	205.5	208.0
Merged-chr8-84661265-3	chr8	84661149	84661349	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010499)	TTS (NM_010499)	1603.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	17.5	31.0	19.5	145.0	53.5	20.0	26.0	21.0
Merged-chr12-85437271-4	chr12	85437159	85437359	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36631.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	17.5	33.5	29.5	211.0	55.5	15.0	21.5	21.0
Merged-chr2-18923289-1	chr2	18923189	18923389	+	951.0	f0_balb.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	74832.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	11.5	6.5	6.0	181.0	1.0	2.5	4.0	5.5
Merged-chr18-68096730-4	chr18	68096633	68096833	+	945.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 2 of 5)	intron (NM_172631, intron 2 of 5)	-131213.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	27.0	28.5	29.0	287.5	36.5	13.0	32.0	9.0
Merged-chr6-124271275-4	chr6	124271178	124271378	+	899.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33373.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	20.0	17.0	10.5	212.0	22.5	14.5	13.5	15.5
Merged-chr14-56886450-4	chr14	56886362	56886562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029498)	promoter-TSS (NM_029498)	-141.0	NM_177627	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	127.5	152.5	138.5	577.0	268.5	114.5	126.5	126.0
Merged-chr10-77623144-5	chr10	77622943	77623143	+	935.159973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019803, intron 1 of 5)	intron (NM_019803, intron 1 of 5)	722.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	23.5	23.0	13.0	193.5	35.0	15.0	9.0	22.0
Merged-chr15-84235498-2	chr15	84235399	84235599	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_133167, intron 1 of 12)	intron (NM_133167, intron 1 of 12)	3456.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	89.5	130.5	44.0	439.0	180.5	89.5	53.5	39.0
Merged-chr17-21370550-4	chr17	21370455	21370655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERVK9C_I-int|LTR|ERVK	-13193.0	NM_172486	210503.0	Mm.33443	NM_172486	ENSMUSG00000062743	Zfp677	A830058L05Rik|Tce8	zinc finger protein 677	protein-coding	38.0	34.0	27.5	565.5	50.0	16.5	21.5	20.0
Merged-chr2-14236296-4	chr2	14236196	14236396	+	914.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 1 of 29)	(TTTTG)n|Simple_repeat|Simple_repeat	6882.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	8.5	18.5	8.5	274.5	35.0	12.5	4.5	18.0
Merged-chr15-97993100-4	chr15	97992996	97993196	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113515, intron 15 of 52)	intron (NM_001113515, intron 15 of 52)	11628.0	NM_031163	12824.0	Mm.2423	NM_031163	ENSMUSG00000022483	Col2a1	Col2|Col2a|Col2a-1|Del1|Dmm|Lpk|Rgsc856	collagen, type II, alpha 1	protein-coding	18.5	41.5	25.0	360.5	33.0	20.0	17.0	40.5
Merged-chr3-137945673-4	chr3	137945594	137945794	+	870.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	27139.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	14.0	18.5	4.0	271.5	17.0	11.5	9.5	24.5
Merged-chr6-119902582-4	chr6	119902467	119902667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011236)	promoter-TSS (NM_011236)	-131.0	NM_001166382	19365.0	Mm.149	NM_011236	ENSMUSG00000030166	Rad52	Rad52yh	RAD52 homolog, DNA repair protein	protein-coding	24.0	44.0	32.0	300.5	86.5	29.5	27.0	26.0
Merged-chr3-88424664-4	chr3	88424570	88424770	+	921.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281795, intron 1 of 3)	intron (NM_001281795, intron 1 of 3)	471.0	NM_178696	229517.0	Mm.301740	NM_178696	ENSMUSG00000050144	Slc25a44	6720482A19|B430110G05Rik	solute carrier family 25, member 44	protein-coding	10.0	29.0	11.0	145.5	44.0	13.5	15.0	33.0
Merged-chr7-143464079-4	chr7	143463963	143464163	+	914.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3013.0	NM_001161624	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	10.0	20.5	1.5	137.0	36.0	5.5	14.0	14.5
Merged-chr19-56756506-3	chr19	56756365	56756565	+	997.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34093.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	11.5	23.5	15.5	202.0	16.0	8.0	5.5	2.5
Merged-chr1-21036046-4	chr1	21035949	21036149	+	988.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177409, intron 2 of 10)	intron (NM_177409, intron 2 of 10)	43176.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	66.0	57.0	77.0	1377.0	49.5	9.5	30.5	25.5
Merged-chr8-47533564-4	chr8	47533457	47533657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177240)	promoter-TSS (NM_177240)	-87.0	NM_177240	320714.0	Mm.39461	NM_177240	ENSMUSG00000038102	Trappc11	AW558465|D030016E14Rik|R75422	trafficking protein particle complex 11	protein-coding	312.0	380.5	326.5	4987.0	632.0	197.5	312.5	239.5
Merged-chr6-124696018-4	chr6	124695917	124696117	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149320, intron 1 of 11)	intron (NR_149320, intron 1 of 11)	16161.0	NM_013536	14791.0	Mm.6390	NM_013536	ENSMUSG00000004268	Emg1	C2f|Grcc2f	EMG1 N1-specific pseudouridine methyltransferase	protein-coding	18.0	24.5	18.5	268.5	67.0	15.0	21.0	21.0
Merged-chr4-41556770-3	chr4	41556667	41556867	+	640.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	intron (NM_027993, intron 1 of 5)	12760.0	NM_001159583	71901.0	Mm.39215	NM_027993	ENSMUSG00000028439	Fam219a	2310028H24Rik	family with sequence similarity 219, member A	protein-coding	0.0	0.0	3.0	14.5	20.5	4.5	7.0	13.0
Merged-chr2-92066877-4	chr2	92066783	92066983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42713.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	31.0	88.5	29.0	96.5	78.5	34.0	5.5	10.5
Merged-chr1-151963585-4	chr1	151963503	151963703	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	intron (NM_197990, intron 3 of 5)	126717.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	14.0	6.0	7.0	162.0	23.5	7.0	10.5	4.0
Merged-chr13-43492846-4	chr13	43492750	43492950	+	829.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11877.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	8.5	18.5	12.0	75.5	20.5	7.5	10.5	3.0
Merged-chr7-143036633-4	chr7	143036532	143036732	+	880.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 4 of 4)	Lx3_Mus|LINE|L1	-16118.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	10.5	13.5	9.0	43.5	35.0	14.5	18.5	9.0
Merged-chr13-6647873-4	chr13	6647766	6647966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019703, intron 1 of 21)	intron (NM_019703, intron 1 of 21)	905.0	NM_019703	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	51.5	67.5	55.0	645.5	150.5	47.5	77.5	45.5
Merged-chr12-85228670-3	chr12	85228502	85228702	+	937.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9121.0	NM_145445	217715.0	Mm.29041	NM_145445	ENSMUSG00000004788	Eif2b2	EIF-2Bbeta|EIF2B	eukaryotic translation initiation factor 2B, subunit 2 beta	protein-coding	7.5	7.5	13.0	147.0	14.5	3.0	4.5	5.5
Merged-chr6-26220025-4	chr6	26219885	26220085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D5|LTR|ERVK	288559.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	31.0	31.5	40.5	261.5	81.5	20.0	35.5	21.5
Merged-chr7-43392558-4	chr7	43392476	43392676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-15704.0	NM_172900	243958.0	Mm.24444	NM_172900	ENSMUSG00000030468	Siglecg	9830164H23|A630096C01Rik|Siglec-G|Siglec10|mSiglec-G	sialic acid binding Ig-like lectin G	protein-coding	55.5	49.5	43.0	704.0	92.0	32.0	41.5	51.0
Merged-chr5-65107451-4	chr5	65107385	65107585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347355)	promoter-TSS (NM_001347355)	-83.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	81.0	132.5	75.5	905.0	254.5	94.5	80.0	84.0
Merged-chr3-103968477-4	chr3	103968383	103968583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030676)	promoter-TSS (NR_030676)	-167.0	NR_030676	100125931.0	Mm.400392	NR_030676	ENSMUSG00000089998	Phtf1os	A130049A11Rik	putative homeodomain transcription factor 1, opposite strand	ncRNA	82.0	116.5	131.0	1121.0	97.5	59.0	60.5	63.5
Merged-chr7-27336100-4	chr7	27336001	27336201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175641, intron 1 of 32)	intron (NM_175641, intron 1 of 32)	1511.0	NM_175641	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	38.5	40.5	22.0	670.0	115.0	47.5	57.5	43.0
Merged-chr9-77655689-10	chr9	77655555	77655755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172925, exon 3 of 3)	exon (NM_172925, exon 3 of 3)	18923.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	8.0	10.0	23.5	241.0	28.0	6.0	9.5	16.5
Merged-chr2-62685451-4	chr2	62685346	62685546	+	957.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145523, intron 3 of 7)	intron (NM_145523, intron 3 of 7)	21119.0	NM_145523	227960.0	Mm.219877	NM_145523	ENSMUSG00000026893	Gca	5133401E04Rik|AI573844	grancalcin	protein-coding	7.5	26.5	9.0	119.0	39.5	14.0	20.5	19.0
Merged-chr3-79559313-4	chr3	79559213	79559413	+	955.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	8366.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	6.0	27.5	25.0	297.0	30.5	14.5	18.0	11.5
Merged-chr5-101766476-4	chr5	101766370	101766570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173370, intron 1 of 12)	intron (NM_173370, intron 1 of 12)	1340.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	49.0	43.5	50.5	638.0	82.0	26.0	46.0	31.5
Merged-chr17-45625525-4	chr17	45625433	45625633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23431.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	41.0	122.5	59.0	445.5	168.5	63.0	61.5	48.5
Merged-chr12-100168802-4	chr12	100168714	100168914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9161.0	NM_183155	217827.0	Mm.224076	NM_183155	ENSMUSG00000021179	Nrde2	6720454P05Rik	nrde-2 necessary for RNA interference, domain containing	protein-coding	61.5	128.0	72.0	633.5	135.5	54.5	52.0	59.5
Merged-chr16-55776986-3	chr16	55776882	55777082	+	896.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	45156.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	10.0	23.0	3.5	67.5	25.0	12.0	5.5	13.0
Merged-chr18-67464916-4	chr18	67464805	67465005	+	906.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144867)	promoter-TSS (NM_144867)	56.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	19.5	11.0	13.5	248.5	30.0	10.5	12.0	8.5
Merged-chr6-137455774-3	chr6	137455663	137455863	+	905.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 25 of 26)	intron (NM_011216, intron 25 of 26)	45042.0	NM_001164403	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	15.5	9.0	21.0	109.5	18.5	6.0	4.0	11.5
Merged-chr9-35050201-4	chr9	35050112	35050312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 9 of 10)	intron (NM_009178, intron 9 of 10)	-66516.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	156.0	270.5	195.5	2183.5	336.0	140.0	161.0	152.0
Merged-chr14-73142035-4	chr14	73141936	73142136	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170694)	promoter-TSS (NM_001170694)	-474.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	11.0	13.5	22.0	358.0	44.0	18.5	18.5	14.5
Merged-chr1-58728477-7	chr1	58728357	58728557	+	937.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 2 of 8)	intron (NM_001355056, intron 2 of 8)	-2095.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	14.0	25.5	9.0	41.5	54.0	20.0	13.0	19.5
Merged-chr1-92753891-3	chr1	92753790	92753990	+	978.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-77755.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	10.0	8.0	31.5	405.0	15.0	2.5	6.5	9.0
Merged-chr2-140718442-3	chr2	140718344	140718544	+	786.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	intron (NM_001013802, intron 3 of 18)	-46968.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	7.0	8.0	9.0	123.5	14.0	2.0	10.5	2.0
Merged-chr13-43784496-2	chr13	43784396	43784596	+	686.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289915)	promoter-TSS (NM_001289915)	-616.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	0.0	6.0	5.0	44.5	6.5	5.5	8.5	9.5
Merged-chr4-105271403-4	chr4	105271304	105271504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114057.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	22.5	22.0	23.0	311.5	80.0	27.0	32.5	27.0
Merged-chr11-21048884-4	chr11	21048774	21048974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42450.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	32.0	81.0	21.0	523.0	119.0	38.5	27.5	37.0
Merged-chr18-68160760-7	chr18	68160660	68160860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-67186.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	16.5	42.5	24.5	251.0	33.0	15.5	12.0	29.5
Merged-chr4-8666860-4	chr4	8666763	8666963	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23543.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	19.0	17.0	14.5	267.5	70.5	20.0	20.0	26.0
Merged-chr9-35039319-6	chr9	35039102	35039302	+	998.1904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77526.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	12.5	14.5	10.0	163.0	64.0	31.0	25.0	18.0
Merged-chr2-49393566-2	chr2	49393463	49393663	+	564.166626	f0_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-57923.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	11.0	11.5	14.0	84.5	8.0	3.5	3.0	2.0
Merged-chr11-44355071-4	chr11	44354992	44355192	+	821.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44971.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	6.5	8.5	13.5	136.5	27.5	9.0	19.0	16.5
Merged-chr1-144240162-3	chr1	144240050	144240250	+	726.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	8954.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	29.5	22.0	6.0	71.5	20.5	10.0	3.5	6.5
Merged-chr12-17455360-3	chr12	17455259	17455459	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-89514.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	20.5	26.0	37.5	353.5	16.0	10.0	5.0	5.5
Merged-chr16-57228843-4	chr16	57228736	57228936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 1 of 17)	MTC|LTR|ERVL-MaLR	2630.0	NM_026254	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	70.5	138.0	83.0	984.0	302.5	103.0	162.5	153.5
Merged-chr19-56548554-4	chr19	56548432	56548632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018831)	promoter-TSS (NM_018831)	271.0	NM_025811	66866.0	Mm.46346	NM_025811	ENSMUSG00000025078	Nhlrc2	1200003G01Rik|AI835049|AV002846|AW496455	NHL repeat containing 2	protein-coding	83.5	128.0	103.5	1258.5	204.5	61.5	105.5	74.0
Merged-chr14-54360991-7	chr14	54360900	54361100	+	981.0285640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026936, intron 1 of 9)	CpG	159.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	25.0	21.5	12.0	408.5	75.0	25.5	18.0	38.0
Merged-chr11-118211228-3	chr11	118211136	118211336	+	964.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	1506.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	15.5	12.5	15.5	312.0	10.0	4.0	9.0	8.0
Merged-chr4-108380415-4	chr4	108380317	108380517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099303, intron 1 of 2)	intron (NM_001099303, intron 1 of 2)	3238.0	NM_001099303	545667.0	Mm.380025	NM_001099303	ENSMUSG00000059816	Fam159a	Shisal2a	family with sequence similarity 159, member A	protein-coding	20.0	31.5	24.0	362.0	59.0	31.0	31.0	21.0
Merged-chr14-79533472-4	chr14	79533366	79533566	+	946.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	17792.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	18.0	22.5	8.5	212.0	49.5	13.5	14.5	10.5
Merged-chr12-78916027-2	chr12	78915936	78916136	+	856.400024	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-9098.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	7.5	13.5	10.5	111.0	0.0	0.0	4.0	0.0
Merged-chr2-77170580-4	chr2	77170494	77170694	+	916.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025576)	promoter-TSS (NM_001025576)	41.0	NM_001025576	545428.0	Mm.26579	NM_001025576	ENSMUSG00000044033	Ccdc141	2610301F02Rik|CAMDI	coiled-coil domain containing 141	protein-coding	12.0	13.5	18.0	180.0	31.0	11.5	10.5	16.0
Merged-chr10-96274188-4	chr10	96274104	96274304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47997.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	34.5	61.0	34.5	654.5	62.5	20.5	27.5	27.5
Merged-chr7-64038106-3	chr7	64037995	64038195	+	942.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99180.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	17.5	8.5	11.0	173.5	19.0	3.5	10.5	10.0
Merged-chr5-105696211-4	chr5	105696130	105696330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3739.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	100.0	227.5	90.5	1782.0	314.0	120.5	149.5	135.5
Merged-chr6-15750267-3	chr6	15750154	15750354	+	920.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	29593.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	4.5	20.0	11.0	119.0	13.5	1.0	4.5	11.0
Merged-chr10-81542036-3	chr10	81541932	81542132	+	976.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010301, intron 1 of 6)	intron (NM_010301, intron 1 of 6)	3014.0	NM_010301	14672.0	Mm.260925	NM_010301	ENSMUSG00000034781	Gna11	Dsk7|E430025L19	guanine nucleotide binding protein, alpha 11	protein-coding	13.5	13.5	7.0	241.0	16.5	6.5	13.5	9.0
Merged-chr4-128664170-4	chr4	128664042	128664242	+	870.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	9440.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	20.5	11.5	9.0	43.5	30.5	11.5	6.0	4.5
Merged-chr4-87944577-4	chr4	87944463	87944663	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 2 of 10)	L1ME3A|LINE|L1	88844.0	NM_027326	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	28.0	44.0	22.5	550.0	82.5	21.0	40.0	21.5
Merged-chr5-112994462-3	chr5	112994362	112994562	+	805.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	21076.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	11.5	10.0	1.5	223.0	14.0	9.0	15.0	9.5
Merged-chr3-19562648-4	chr3	19562545	19562745	+	764.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163536, intron 2 of 4)	intron (NM_001163536, intron 2 of 4)	31398.0	NM_001163537	66326.0	Mm.45615	NM_025489	ENSMUSG00000027606	Dnajc5b	1700008A05Rik	DnaJ heat shock protein family (Hsp40) member C5 beta	protein-coding	8.5	10.5	2.0	116.0	24.5	6.5	11.5	8.0
Merged-chr10-53980059-3	chr10	53979956	53980156	+	938.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 5 of 12)	intron (NM_008548, intron 5 of 12)	95740.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	13.0	11.0	23.0	399.5	17.5	13.5	9.0	7.0
Merged-chr2-79132388-4	chr2	79132271	79132471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123055.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	138.0	203.5	147.5	2014.5	309.5	137.5	95.5	108.0
Merged-chr3-101030772-1	chr3	101030672	101030872	+	798.25	f0_balb.idr	Intergenic	Intergenic	-1277.0	NM_001167906	630146.0	Mm.190915	NM_001099332	ENSMUSG00000086564	Cd101	EWI-101|Gm1016|Gm734|Igsf2	CD101 antigen	protein-coding	7.5	9.0	16.0	144.5	6.0	2.5	2.5	0.0
Merged-chr14-56486678-4	chr14	56486580	56486780	+	825.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033043, intron 24 of 36)	intron (NM_001033043, intron 24 of 36)	83983.0	NM_001033043	30054.0	Mm.287783	NM_001033043	ENSMUSG00000000365	Rnf17	MMIP-2|Mmip2|TDRD4	ring finger protein 17	protein-coding	9.5	24.0	9.0	143.5	28.0	6.5	9.5	14.0
Merged-chr10-41891516-1	chr10	41891416	41891616	+	764.0	f0_balb.idr	intron (NM_001013370, intron 1 of 9)	intron (NM_001013370, intron 1 of 9)	4077.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	9.0	8.0	6.0	146.0	23.5	17.0	7.5	10.0
Merged-chr2-80150263-4	chr2	80150158	80150358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20600.0	NM_001355140	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	8.0	19.0	42.5	507.5	44.0	25.0	34.0	34.0
Merged-chr16-15594458-4	chr16	15594354	15594554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023585)	promoter-TSS (NM_023585)	64.0	NM_001159351	70620.0	Mm.235407	NM_023585	ENSMUSG00000022674	Ube2v2	1110021H13Rik|4632410D19Rik|5730524P06Rik|6820402M05|AI848315|C81524|MMS2	ubiquitin-conjugating enzyme E2 variant 2	protein-coding	112.0	117.5	122.5	1185.0	181.5	59.5	76.5	92.5
Merged-chr6-134792685-4	chr6	134792561	134792761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048054)	promoter-TSS (NM_001048054)	-33.0	NM_001048054	70686.0	Mm.491182	NM_130447	ENSMUSG00000030203	Dusp16	3830417M17Rik|AW558566|D6Ertd213e|MKP-7|MKP7|Mkpm	dual specificity phosphatase 16	protein-coding	90.5	178.5	63.5	1074.5	405.0	131.0	148.5	123.5
Merged-chr4-43509386-4	chr4	43509361	43509561	+	844.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013377)	promoter-TSS (NM_001013377)	-714.0	NM_001013377	230098.0	Mm.331567	NM_001013377	ENSMUSG00000051517	Arhgef39	E130306D19Rik	Rho guanine nucleotide exchange factor (GEF) 39	protein-coding	6.5	12.0	11.0	161.5	19.5	5.5	5.0	12.0
Merged-chr8-56767352-1	chr8	56767252	56767452	+	804.0	f0_balb.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	216218.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	8.5	5.0	9.5	201.5	0.0	0.0	3.0	0.0
Merged-chr10-61204177-4	chr10	61204074	61204274	+	857.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081127, intron 18 of 21)	intron (NM_001081127, intron 18 of 21)	28912.0	NM_023064	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	14.0	25.5	21.0	60.5	73.5	15.0	14.5	18.0
Merged-chr14-9393587-4	chr14	9393500	9393700	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-490495.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	16.0	33.0	34.5	400.5	45.5	30.0	20.5	28.5
Merged-chr11-102320132-3	chr11	102320007	102320207	+	800.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1011.0	NM_011551	21429.0	Mm.2845	NM_011551	ENSMUSG00000020923	Ubtf	A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1	upstream binding transcription factor, RNA polymerase I	protein-coding	5.0	9.0	5.0	55.5	10.0	5.0	0.0	11.0
Merged-chr13-35665673-4	chr13	35665576	35665776	+	946.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009881, intron 1 of 9)	MIR3|SINE|MIR	5814.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	33.0	70.5	15.0	595.0	82.5	16.5	30.5	17.0
Merged-chr18-82878061-3	chr18	82877958	82878158	+	776.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22161.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	11.5	7.5	4.5	117.0	12.0	8.5	8.0	9.5
Merged-chr13-97137952-4	chr13	97137847	97138047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271464)	promoter-TSS (NM_001271464)	10.0	NM_001271464	320806.0	Mm.219675	NM_177266	ENSMUSG00000021666	Gfm2	6530419G12Rik|A930009M04Rik|EF-G2mt|EFG2|MST027|RRF2mt	G elongation factor, mitochondrial 2	protein-coding	105.0	138.0	89.0	1407.5	294.0	118.5	138.0	126.5
Merged-chr10-80701615-1	chr10	80701515	80701715	+	644.0	f0_c57.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	205.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	12.0	16.5	6.0	123.5	29.5	15.0	8.0	21.5
Merged-chr1-138275125-4	chr1	138275025	138275225	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177397, intron 1 of 2)	intron (NM_177397, intron 1 of 2)	1387.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	18.0	18.5	20.0	579.5	29.0	8.5	18.5	13.0
Merged-chr1-132212309-2	chr1	132212209	132212409	+	777.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033250, intron 1 of 3)	intron (NM_001033250, intron 1 of 3)	-14005.0	NM_001311103	213409.0	Mm.426321	NM_001033250	ENSMUSG00000079330	Lemd1	4930540I23Rik|6430514M23Rik|AI428128|LEMP-1	LEM domain containing 1	protein-coding	6.0	2.5	4.5	80.5	13.0	9.5	5.5	6.5
Merged-chr2-73029928-4	chr2	73029834	73030034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-49488.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	93.0	130.5	202.5	2079.0	257.5	85.0	137.0	112.5
Merged-chr11-30786728-4	chr11	30786631	30786831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134013, intron 1 of 46)	intron (NM_134013, intron 1 of 46)	14956.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	25.0	24.0	24.5	450.5	86.5	28.5	40.0	28.0
Merged-chr7-125638980-4	chr7	125638884	125639084	+	960.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35555.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	31.5	40.0	38.0	455.0	78.0	19.5	20.0	13.0
Merged-chr9-95858526-4	chr9	95858398	95858598	+	877.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073361)	promoter-TSS (NR_073361)	-616.0	NM_001271569	73410.0	Mm.443314	NM_028533	ENSMUSG00000096655	1700065D16Rik	-	RIKEN cDNA 1700065D16 gene	protein-coding	10.5	14.0	13.0	121.0	40.0	21.0	9.5	12.0
Merged-chr6-31215236-3	chr6	31215143	31215343	+	804.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	intron (NR_110469, intron 1 of 3)	3231.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	4.5	9.0	8.5	49.0	3.5	4.0	3.5	7.5
Merged-chr17-71448757-4	chr17	71448666	71448866	+	835.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028887, exon 6 of 48)	exon (NM_028887, exon 6 of 48)	26577.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	11.0	12.5	3.5	123.5	17.0	11.5	13.0	14.5
Merged-chr16-56029782-4	chr16	56029704	56029904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024622)	promoter-TSS (NM_001024622)	-87.0	NM_001356450	76302.0	Mm.310642	NM_001024622	ENSMUSG00000071533	Pcnp	1110018D06Rik|AI647035	PEST proteolytic signal containing nuclear protein	protein-coding	167.0	272.5	135.5	2550.0	508.0	173.0	256.5	135.5
Merged-chr15-25624484-4	chr15	25624390	25624590	+	870.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	intron (NM_019472, intron 1 of 40)	1940.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	13.0	12.5	8.0	130.0	24.5	8.0	15.5	15.5
Merged-chr14-21148547-4	chr14	21148462	21148662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 3 of 10)	intron (NM_134079, intron 3 of 10)	72410.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	39.0	33.0	55.5	1016.5	48.5	7.5	15.5	28.0
Merged-chr12-70457221-4	chr12	70457103	70457303	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028339, intron 3 of 7)	intron (NM_028339, intron 3 of 7)	4049.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	23.5	31.5	19.5	514.5	68.0	16.0	29.0	18.5
Merged-chr7-16294980-4	chr7	16294882	16295082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8187.0	NM_001136471	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	111.0	214.5	125.0	2150.0	339.5	136.5	131.0	136.5
Merged-chr2-72786397-2	chr2	72786297	72786497	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_102349, intron 5 of 5)	intron (NR_102349, intron 5 of 5)	27320.0	NR_102348	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	5.0	3.5	2.0	78.0	24.5	6.5	6.5	9.5
Merged-chr15-5347941-4	chr15	5347847	5348047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103760.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	55.0	91.5	69.0	654.0	110.0	48.0	58.0	37.0
Merged-chr12-4841605-3	chr12	4841490	4841690	+	966.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016863)	promoter-TSS (NM_016863)	5.0	NM_016863	14226.0	Mm.20453	NM_016863	ENSMUSG00000020635	Fkbp1b	12.6kDa|AW494148|FKBP12.6|calstabin2	FK506 binding protein 1b	protein-coding	16.5	14.0	16.0	142.0	19.0	8.0	5.0	5.0
Merged-chr17-37203768-4	chr17	37203665	37203865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5799.0	NM_001011518	258219.0	Mm.377382	NM_001011518	ENSMUSG00000043827	Olfr94	MOR256-32P	olfactory receptor 94	protein-coding	33.5	69.5	26.0	774.0	122.5	35.0	43.0	40.5
Merged-chr3-65930807-2	chr3	65930731	65930931	+	891.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	27418.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	11.5	9.0	10.0	65.5	30.5	7.0	9.5	12.5
Merged-chr9-120491679-4	chr9	120491590	120491790	+	872.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026892)	promoter-TSS (NM_026892)	-916.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	4.0	17.0	4.0	150.0	30.0	11.5	13.5	8.5
Merged-chr6-135188342-4	chr6	135188243	135188443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040296)	promoter-TSS (NR_040296)	-137.0	NR_040296	100502888.0	Mm.437844	NR_040296	ENSMUSG00000108239	Gm19434	-	predicted gene, 19434	ncRNA	56.0	129.0	87.5	960.0	116.0	45.5	77.0	98.0
Merged-chr3-40949694-4	chr3	40949579	40949779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040399)	promoter-TSS (NM_001040399)	-952.0	NM_001040399	214048.0	Mm.46782	NM_027663	ENSMUSG00000025762	Larp1b	1700108L22Rik|4933421B21Rik|AA690246|Larp2	La ribonucleoprotein domain family, member 1B	protein-coding	349.0	454.0	388.0	5089.0	798.0	296.0	449.5	278.5
Merged-chr13-99099938-2	chr13	99099881	99100081	+	727.708374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12060.0	NR_045495	69603.0	Mm.390632	NR_045495	ENSMUSG00000100410	2310020H05Rik	-	RIKEN cDNA 2310020H05 gene	ncRNA	4.5	1.5	2.5	85.0	10.0	7.5	4.5	10.0
Merged-chr5-69556926-4	chr5	69556828	69557028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172711)	promoter-TSS (NM_172711)	4.0	NM_001310631	231279.0	Mm.21105	NM_172711	ENSMUSG00000029208	Guf1	4631409J12|AA407526|EF-4	GUF1 homolog, GTPase	protein-coding	235.0	360.0	194.0	4266.5	649.0	265.0	297.5	286.0
Merged-chr6-97407552-3	chr6	97407439	97407639	+	870.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	intron (NM_145148, intron 5 of 23)	51747.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.0	7.5	17.5	119.5	13.5	4.5	2.5	10.0
Merged-chr9-45095719-3	chr9	45095620	45095820	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 6 of 10)	intron (NM_001005421, intron 6 of 10)	16537.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	27.5	60.5	49.0	585.0	22.5	1.0	5.0	3.0
Merged-chr17-71002240-1	chr17	71002140	71002340	+	1000.0	f0_c57.idr	5' UTR (NM_026064, exon 1 of 4)	5' UTR (NM_026064, exon 1 of 4)	293.0	NM_026064	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	63.0	126.0	48.5	1006.0	252.0	125.5	114.0	111.0
Merged-chr3-61407079-4	chr3	61407017	61407217	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	42610.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	17.0	15.5	26.0	425.5	57.0	16.0	24.5	34.0
Merged-chr5-145083810-4	chr5	145083718	145083918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019767)	promoter-TSS (NM_019767)	-51.0	NM_019767	56443.0	Mm.371610	NM_019767	ENSMUSG00000029621	Arpc1a	0610010H08Rik|1110030K07Rik|41kDa|AA407347|Sid32|Sid329	actin related protein 2/3 complex, subunit 1A	protein-coding	95.5	141.5	63.0	1311.5	135.0	75.5	58.0	55.0
Merged-chr13-9738314-3	chr13	9738214	9738414	+	856.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347474, intron 1 of 14)	intron (NM_001347474, intron 1 of 14)	25496.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	10.0	15.0	4.5	190.0	17.0	3.0	12.5	4.5
Merged-chr7-126822184-4	chr7	126822060	126822260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026884, intron 4 of 7)	intron (NM_026884, intron 4 of 7)	-1143.0	NM_029978	68952.0	Mm.440393	NM_026884	ENSMUSG00000058966	Fam57b	1500016O10Rik|A330104J06Rik|AI413816|AW060769	family with sequence similarity 57, member B	protein-coding	35.0	34.5	37.5	234.0	78.0	28.0	36.5	43.5
Merged-chr15-25634319-4	chr15	25634219	25634419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	intron (NM_019472, intron 1 of 40)	11769.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	34.0	74.5	71.0	971.0	116.0	53.5	65.0	50.5
Merged-chr5-74954044-3	chr5	74953932	74954132	+	809.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045866, intron 1 of 4)	intron (NR_045866, intron 1 of 4)	4838.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	8.0	7.0	16.5	311.5	14.0	7.0	10.5	16.0
Merged-chr9-50965534-3	chr9	50965448	50965648	+	942.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 3 of 15)	intron (NM_178710, intron 3 of 15)	43525.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	13.5	12.0	13.5	167.0	14.0	9.0	9.0	14.0
Merged-chr1-86407147-4	chr1	86407056	86407256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17795.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	89.5	71.0	93.5	2053.0	150.0	39.5	88.0	77.0
Merged-chr2-157514288-3	chr2	157514168	157514368	+	675.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45810.0	NM_001291129	18111.0	Mm.34330	NM_010923	ENSMUSG00000067786	Nnat	5730414I02Rik|AW107673|Peg5	neuronatin	protein-coding	7.5	6.5	5.5	85.5	15.0	4.0	5.0	6.0
Merged-chr17-25732255-3	chr17	25732152	25732352	+	779.938904	f0_balb.idr|f0_c57.idr|f1_balb.idr	TTS (NM_001357176)	TTS (NM_001357176)	-3788.0	NM_177822	328783.0	Mm.183275	NM_177822	ENSMUSG00000041062	Mslnl	4732467B22	mesothelin-like	protein-coding	13.5	13.5	7.5	115.5	37.0	18.5	20.0	15.0
Merged-chr14-34570484-3	chr14	34570383	34570583	+	802.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039073, intron 6 of 14)	intron (NM_001039073, intron 6 of 14)	18124.0	NM_001039074	24131.0	Mm.29733	NM_011918	ENSMUSG00000021798	Ldb3	AW742271|PDLIM6|ZASP	LIM domain binding 3	protein-coding	10.5	10.0	1.0	122.5	21.5	5.0	5.0	8.5
Merged-chr7-90215463-4	chr7	90215413	90215613	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	49919.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	15.0	21.0	26.5	242.0	34.0	4.5	19.5	14.5
Merged-chr19-17277110-2	chr19	17276976	17277176	+	905.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	62429.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	1.0	0.0	0.0	0.0	31.5	6.0	5.5	16.5
Merged-chr12-105733533-4	chr12	105733447	105733647	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030187, intron 6 of 17)	intron (NM_030187, intron 6 of 17)	27565.0	NM_030187	78801.0	Mm.36006	NM_030187	ENSMUSG00000041323	Ak7	4930502N02Rik|AK 7	adenylate kinase 7	protein-coding	24.0	23.0	13.5	266.5	50.0	15.0	24.0	27.5
Merged-chr17-34981976-4	chr17	34981879	34982079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030597)	promoter-TSS (NM_030597)	125.0	NM_001204274	27756.0	Mm.165735	NM_030597	ENSMUSG00000007050	Lsm2	D17H6S56E-2|D17H6S56E2|Dmapl|Dmpkap|G7b|Sm-X5|SmX5|snRNP	LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	79.0	128.0	65.5	889.0	167.0	102.5	88.5	80.5
Merged-chr7-43654702-4	chr7	43654611	43654811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031181, intron 6 of 6)	intron (NM_031181, intron 6 of 6)	5450.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	58.5	94.0	53.0	1069.0	128.5	52.0	71.5	52.0
Merged-chr10-81257996-4	chr10	81257828	81258028	+	842.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285853, intron 1 of 12)	intron (NM_001285853, intron 1 of 12)	629.0	NM_001285853	17179.0	Mm.2918	NM_010768	ENSMUSG00000004933	Matk	CHK|HYL|Ntk|p56ntk	megakaryocyte-associated tyrosine kinase	protein-coding	6.0	10.0	2.0	102.5	16.0	6.0	11.5	13.0
Merged-chr17-6816399-4	chr17	6816299	6816499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33619.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	114.5	241.0	157.0	1371.5	291.5	120.0	130.5	92.0
Merged-chr9-21798678-4	chr9	21798582	21798782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145611)	promoter-TSS (NM_145611)	-136.0	NM_145611	235041.0	Mm.257371	NM_145611	ENSMUSG00000032194	Kank2	AI504612|Ankrd25|BC010245	KN motif and ankyrin repeat domains 2	protein-coding	65.5	107.5	126.0	951.5	115.0	55.0	54.5	70.0
Merged-chr11-59965406-4	chr11	59965315	59965515	+	803.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009026)	promoter-TSS (NM_009026)	-471.0	NM_009026	19416.0	Mm.3903	NM_009026	ENSMUSG00000049892	Rasd1	Dexras1	RAS, dexamethasone-induced 1	protein-coding	18.0	11.0	5.5	81.0	22.5	4.5	7.5	17.5
Merged-chr3-97994228-4	chr3	97994135	97994335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19303.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	27.5	42.5	32.0	430.0	45.0	24.0	13.0	22.0
Merged-chr4-32570786-4	chr4	32570671	32570871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_026843, intron 1 of 4)	intron (NR_026843, intron 1 of 4)	891.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	50.0	73.0	38.5	621.5	112.0	40.0	49.0	33.0
Merged-chr11-106273047-4	chr11	106272938	106273138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130187)	promoter-TSS (NM_001130187)	-66.0	NM_001130187	83796.0	Mm.21772	NM_031878	ENSMUSG00000078619	Smarcd2	AW322457|Baf60b	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2	protein-coding	220.0	387.0	165.0	2286.5	681.0	262.0	232.5	218.5
Merged-chr11-95347069-4	chr11	95346952	95347152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172543, intron 1 of 7)	B4A|SINE|B4	10034.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	25.0	30.0	18.5	214.0	65.0	30.0	31.5	18.0
Merged-chr14-27178362-3	chr14	27178253	27178453	+	983.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	intron (NM_001289686, intron 2 of 12)	34360.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	18.0	17.5	36.5	826.0	20.5	3.0	10.5	4.5
Merged-chr18-46963096-5	chr18	46962954	46963154	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178377, intron 2 of 6)	intron (NM_178377, intron 2 of 6)	4178.0	NM_178377	69456.0	Mm.210734	NM_178377	ENSMUSG00000042705	Commd10	2310003A05Rik|AU019438|DRWMS2|Tg(Vav1-icre)A2Kio|Vav-cre|Vav-iCre|Vav1-Cre|VavCre	COMM domain containing 10	protein-coding	11.5	8.5	13.5	158.0	18.5	5.0	5.0	7.0
Merged-chr3-79286803-4	chr3	79286703	79286903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-58573.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	55.5	56.5	48.0	594.0	113.0	35.5	47.0	59.5
Merged-chr10-10481133-8	chr10	10481054	10481254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	-8840.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	18.0	13.5	16.0	114.0	40.0	10.0	7.0	25.5
Merged-chr13-95888849-4	chr13	95888727	95888927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	3095.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	41.5	55.5	26.5	440.0	79.0	32.5	36.5	33.0
Merged-chr15-67147556-3	chr15	67147454	67147654	+	974.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 2 of 8)	intron (NM_009177, intron 2 of 8)	29328.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	13.0	25.0	26.5	164.0	12.0	2.5	16.0	7.5
Merged-chr4-32560015-4	chr4	32559926	32560126	+	913.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_026843, exon 5 of 5)	non-coding (NR_026843, exon 5 of 5)	11636.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	11.0	15.5	16.5	212.0	35.5	5.5	15.5	8.0
Merged-chr10-61202081-4	chr10	61201959	61202159	+	982.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081127, intron 19 of 21)	intron (NM_001081127, intron 19 of 21)	26797.0	NM_023064	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	21.5	65.5	15.0	233.5	116.0	39.5	40.5	38.0
Merged-chr12-108178456-4	chr12	108178364	108178564	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028262, intron 1 of 12)	CpG	820.0	NM_028262	52690.0	Mm.159185	NM_028262	ENSMUSG00000056770	Setd3	2610102I01Rik|2610305M23Rik|6030490B17Rik|D12Ertd771e	SET domain containing 3	protein-coding	13.0	15.0	9.5	144.0	31.0	6.0	18.0	11.0
Merged-chr4-95161453-4	chr4	95161354	95161554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-109232.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	138.5	180.0	136.0	2225.0	377.5	145.0	188.0	142.0
Merged-chr15-102203214-1	chr15	102203114	102203314	+	1000.0	f0_c57.idr	promoter-TSS (NM_001289694)	promoter-TSS (NM_001289694)	-431.0	NM_001289694	68744.0	Mm.352945	NM_153194	ENSMUSG00000046897	Zfp740	1110034O07Rik|AW548228|Znf740	zinc finger protein 740	protein-coding	35.0	42.0	35.0	634.5	71.0	22.5	26.5	29.5
Merged-chr11-95849968-4	chr11	95849849	95850049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	6704.0	NM_001284397	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	42.0	31.5	24.0	510.5	95.5	22.0	30.0	29.5
Merged-chr17-6747058-4	chr17	6746978	6747178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 7 of 12)	intron (NM_009510, intron 7 of 12)	35702.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	183.0	302.0	201.5	2378.0	427.5	153.5	152.5	194.0
Merged-chr2-84426640-4	chr2	84426452	84426652	+	957.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1286.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	18.0	5.5	16.5	168.0	21.5	5.5	9.5	13.5
Merged-chr1-88224662-3	chr1	88224564	88224764	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3A1|LTR|ERVK	-2356.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	33.5	29.5	18.5	176.5	56.5	16.5	26.5	21.0
Merged-chr2-30066345-4	chr2	30066284	30066484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204875)	promoter-TSS (NM_001204875)	-90.0	NM_001204875	56086.0	Mm.326055	NM_023871	ENSMUSG00000054766	Set	2610030F17Rik|5730420M11Rik|AA407739|I-2PP2A|StF-IT-1|TAF-I	SET nuclear oncogene	protein-coding	147.5	205.5	112.0	1890.5	348.0	146.5	175.0	98.0
Merged-chr2-180726923-4	chr2	180726844	180727044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183161, intron 1 of 12)	intron (NM_183161, intron 1 of 12)	1605.0	NM_183161	228993.0	Mm.87189	NM_183161	ENSMUSG00000023393	Slc17a9	1700019H03Rik|BC019537|Vnut	solute carrier family 17, member 9	protein-coding	25.5	51.0	50.5	546.0	86.5	30.0	43.0	46.0
Merged-chr7-28432556-4	chr7	28432442	28432642	+	878.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175021, intron 1 of 12)	intron (NM_175021, intron 1 of 12)	3649.0	NM_175021	233033.0	Mm.54120	NM_175021	ENSMUSG00000109336	Samd4b	BC042901	sterile alpha motif domain containing 4B	protein-coding	18.0	16.5	6.5	180.0	39.0	9.0	13.0	12.5
Merged-chr16-10844252-4	chr16	10844136	10844336	+	874.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9177.0	NM_001162932	223970.0	Mm.325777	NM_001033278	ENSMUSG00000037991	Rmi2	A630055G03Rik|Gm537|Gm929	RecQ mediated genome instability 2	protein-coding	8.5	11.0	17.5	255.0	24.0	9.0	16.0	11.5
Merged-chr14-33190937-4	chr14	33190864	33191064	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5898.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	14.5	6.5	14.0	112.5	17.5	3.0	9.0	9.0
Merged-chr10-128340497-4	chr10	128340401	128340601	+	841.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026444, intron 1 of 10)	B1_Mur4|SINE|Alu	2774.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	3.0	18.5	6.0	77.5	23.0	11.5	17.0	11.0
Merged-chr10-80824411-3	chr10	80824324	80824524	+	890.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2232.0	NM_001301034	18245.0	Mm.398119	NM_008753	ENSMUSG00000035242	Oaz1	AZ-1|AZ1|Antizyme|ODC-Az|Oaz	ornithine decarboxylase antizyme 1	protein-coding	8.0	8.0	4.5	110.0	20.5	5.5	6.5	4.5
Merged-chr8-82356621-2	chr8	82356535	82356735	+	701.125	f0_balb.idr|f1_balb.idr	intron (NM_008357, intron 2 of 7)	intron (NM_008357, intron 2 of 7)	45951.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	10.5	8.0	12.0	213.0	0.0	3.5	0.0	2.5
Merged-chr16-45651685-4	chr16	45651585	45651785	+	979.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145389, intron 1 of 5)	MTD|LTR|ERVL-MaLR	2433.0	NM_145389	212998.0	Mm.97511	NM_145389	ENSMUSG00000033187	BC016579	-	cDNA sequence, BC016579	protein-coding	7.5	12.5	18.0	303.0	276.5	96.0	162.5	115.0
Merged-chr19-10182907-4	chr19	10182841	10183041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146094)	promoter-TSS (NM_146094)	53.0	NM_146094	76267.0	Mm.30158	NM_146094	ENSMUSG00000010663	Fads1	0710001O03Rik|A930006B21Rik|AI317215|DSD	fatty acid desaturase 1	protein-coding	100.5	140.0	111.0	1206.0	171.0	59.5	92.5	88.5
Merged-chr2-165317085-4	chr2	165316982	165317182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302754)	promoter-TSS (NM_001302754)	-731.0	NM_001302754	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	84.0	132.0	63.0	1238.0	212.0	75.0	101.0	122.0
Merged-chr8-79443620-4	chr8	79443514	79443714	+	856.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44146.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	14.0	14.0	16.0	203.0	21.5	4.0	10.5	14.0
Merged-chr11-21403064-4	chr11	21402961	21403161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31794.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	22.5	30.5	30.5	447.5	59.0	32.5	29.5	22.0
Merged-chr7-67480379-2	chr7	67480279	67480479	+	612.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-107521.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	4.0	8.5	4.0	41.5	4.5	12.0	7.0	6.5
Merged-chr17-73937210-4	chr17	73937099	73937299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 4 of 35)	intron (NM_011723, intron 4 of 35)	12997.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	95.0	114.0	119.0	1994.0	185.0	47.0	89.0	104.5
Merged-chr1-152768257-4	chr1	152768147	152768347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026369, intron 1 of 3)	intron (NM_026369, intron 1 of 3)	1705.0	NM_026369	67771.0	Mm.288974	NM_026369	ENSMUSG00000008475	Arpc5	5830443F10Rik|p16-Arc	actin related protein 2/3 complex, subunit 5	protein-coding	34.5	76.0	15.5	609.5	106.0	49.5	51.0	38.5
Merged-chr15-36828190-4	chr15	36828092	36828292	+	910.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31263.0	NM_001253806	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	17.0	30.0	16.0	178.0	34.0	13.0	12.5	5.5
Merged-chr10-42273877-4	chr10	42273735	42273935	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	2907.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	19.5	22.0	7.5	274.0	27.5	10.0	14.0	14.5
Merged-chr17-85488912-4	chr17	85488816	85489016	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129480.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	74.0	67.5	106.0	1719.5	63.0	16.5	33.5	33.0
Merged-chr13-85223370-3	chr13	85223274	85223474	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145452, intron 20 of 24)	intron (NM_145452, intron 20 of 24)	33989.0	NM_023243	66671.0	Mm.18474	NM_023243	ENSMUSG00000021548	Ccnh	6330408H09Rik|AI661354|AV102684|AW538719	cyclin H	protein-coding	44.5	80.5	54.0	453.5	0.0	1.0	2.5	0.5
Merged-chr19-34442252-4	chr19	34442132	34442332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32903.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	76.0	78.5	48.5	1202.5	177.0	46.0	68.5	69.5
Merged-chr3-16007997-4	chr3	16007897	16008097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1665.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	84.0	106.0	64.5	1380.0	173.5	86.0	66.5	67.0
Merged-chr5-135188147-4	chr5	135188067	135188267	+	904.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011714, intron 1 of 18)	CpG	844.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	8.5	15.0	12.5	210.0	39.0	3.0	14.0	9.5
Merged-chr2-27692864-4	chr2	27692772	27692972	+	820.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	15671.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	9.0	9.0	12.5	100.0	23.5	10.0	8.0	7.0
Merged-chr2-131142797-4	chr2	131142690	131142890	+	906.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028306, intron 10 of 12)	intron (NM_028306, intron 10 of 12)	15378.0	NM_028306	72630.0	Mm.277465	NM_028306	ENSMUSG00000074793	Hspa12b	2700081N06Rik	heat shock protein 12B	protein-coding	8.5	11.0	4.0	175.5	32.0	8.0	6.0	14.0
Merged-chr6-72037742-4	chr6	72037612	72037812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046180, intron 1 of 2)	intron (NR_046180, intron 1 of 2)	4816.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	129.5	212.0	178.0	2132.5	273.0	87.5	119.0	109.0
Merged-chr8-120487112-4	chr8	120487014	120487214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1752.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	39.0	95.5	43.5	510.5	132.5	58.5	46.5	44.5
Merged-chr3-133310552-3	chr3	133310459	133310659	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293641, intron 1 of 11)	CpG	449.0	NM_001293641	74776.0	Mm.210305	NM_146141	ENSMUSG00000028013	Ppa2	1110013G13Rik|Sid6306	pyrophosphatase (inorganic) 2	protein-coding	50.5	61.0	120.5	863.0	82.5	29.5	47.0	47.0
Merged-chr6-29217508-2	chr6	29217408	29217608	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1144.0	NM_001302934	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	6.5	8.0	5.5	90.0	10.5	6.5	8.0	24.0
Merged-chr4-34238067-3	chr4	34238008	34238208	+	810.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-188041.0	NM_026293	67652.0	Mm.55848	NM_026293	ENSMUSG00000028264	Spaca1	1700124L11Rik|4930540L03Rik	sperm acrosome associated 1	protein-coding	8.5	8.5	7.0	129.5	12.5	4.0	5.5	8.0
Merged-chr3-86343673-3	chr3	86343560	86343760	+	639.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077687, intron 22 of 50)	Lx7|LINE|L1	118970.0	NM_001077688	80877.0	Mm.439825	NM_030695	ENSMUSG00000028080	Lrba	C80285|D3Ertd775e|Lab300|Lba	LPS-responsive beige-like anchor	protein-coding	10.0	5.5	8.0	90.5	14.5	5.5	5.5	2.5
Merged-chr12-72843723-4	chr12	72843624	72843824	+	844.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74041.0	NM_029444	75801.0	Mm.242892	NM_029444	ENSMUSG00000021098	4930447C04Rik	4921504I02Rik|A930035O15Rik|Six6OS|Six6as|Six6os1	RIKEN cDNA 4930447C04 gene	protein-coding	8.5	23.0	6.5	140.0	31.0	7.0	5.0	23.5
Merged-chr7-67244101-4	chr7	67243993	67244193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291195, intron 8 of 10)	intron (NM_001291195, intron 8 of 10)	21477.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	62.0	155.5	56.0	1075.0	166.5	68.5	69.0	87.5
Merged-chr7-67225064-4	chr7	67224968	67225168	+	781.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357962)	TTS (NM_001357962)	2452.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	7.5	13.5	9.0	130.5	22.0	6.5	12.5	3.5
Merged-chr10-128377075-5	chr10	128377000	128377200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172790)	promoter-TSS (NM_172790)	-24.0	NM_172790	237615.0	Mm.440177	NM_172790	ENSMUSG00000014498	Ankrd52	6430544C07|G431002C21Rik	ankyrin repeat domain 52	protein-coding	40.0	63.5	30.5	447.5	100.5	42.5	60.0	36.5
Merged-chr3-20004718-4	chr3	20004624	20004824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 14 of 16)	intron (NM_080634, intron 14 of 16)	30586.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	86.0	109.0	110.0	2030.0	176.5	50.5	75.5	100.5
Merged-chr17-29496508-4	chr17	29496317	29496517	+	905.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008842)	TTS (NM_008842)	5372.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	3.0	18.0	0.5	9.0	20.5	9.5	6.0	6.0
Merged-chr1-84985714-1	chr1	84985614	84985814	+	703.0	f1_balb.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	-50631.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	7.0	13.0	6.5	14.0	2.0	1.0	6.0	0.5
Merged-chr7-105650885-4	chr7	105650796	105650996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153392, intron 2 of 3)	intron (NR_153392, intron 2 of 3)	10451.0	NM_001360054	14356.0	Mm.220330	NM_019502	ENSMUSG00000089847	Timm10b	Fxc1|Tim10b|Tim9b	translocase of inner mitochondrial membrane 10B	protein-coding	33.0	34.0	26.0	442.0	53.0	21.0	34.5	22.5
Merged-chr16-4419904-4	chr16	4419720	4419920	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291910, exon 1 of 12)	5' UTR (NM_001291910, exon 1 of 12)	678.0	NM_001291910	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	12.5	12.5	14.5	183.0	19.0	6.5	11.0	16.5
Merged-chr6-49008171-4	chr6	49008062	49008262	+	737.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8546.0	NR_126454	75347.0	Mm.207324	NR_126454	ENSMUSG00000107656	4930563H07Rik	-	RIKEN cDNA 4930563H07 gene	ncRNA	8.5	16.5	6.5	120.0	19.0	10.5	11.0	10.0
Merged-chr7-126799265-4	chr7	126799169	126799369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007438)	promoter-TSS (NM_007438)	-15.0	NM_007438	11674.0	Mm.275831	NM_007438	ENSMUSG00000030695	Aldoa	Aldo-1|Aldo1	aldolase A, fructose-bisphosphate	protein-coding	229.0	371.0	200.0	2918.0	525.5	259.0	311.0	216.0
Merged-chr2-6478053-2	chr2	6477953	6478153	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125317.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	8.5	2.0	14.0	116.0	33.0	11.0	6.0	5.0
Merged-chr17-34619220-4	chr17	34619128	34619328	+	818.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302395, intron 7 of 8)	intron (NM_001302395, intron 7 of 8)	-3257.0	NM_152922	81701.0	Mm.231343	NM_152922	ENSMUSG00000015467	Egfl8	Ng3	EGF-like domain 8	protein-coding	16.0	12.0	0.0	67.5	15.5	6.5	7.0	12.5
Merged-chr11-9317512-4	chr11	9317358	9317558	+	791.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 23 of 61)	intron (NM_178259, intron 23 of 61)	125516.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	10.5	12.0	3.5	104.5	44.5	11.5	20.5	11.0
Merged-chr3-89456912-4	chr3	89456792	89456992	+	955.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310640, intron 1 of 3)	intron (NM_001310640, intron 1 of 3)	-2226.0	NM_026784	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	29.0	16.0	6.0	248.5	41.0	17.5	22.0	20.5
Merged-chr9-20651940-4	chr9	20651824	20652024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023371)	promoter-TSS (NM_023371)	-206.0	NM_023371	23988.0	Mm.7906	NM_023371	ENSMUSG00000032171	Pin1	0610025L01Rik|D9Bwg1161e	protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1	protein-coding	426.5	749.5	521.5	7478.5	1204.0	558.0	614.0	497.0
Merged-chr17-70755131-4	chr17	70755023	70755223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	91654.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	23.0	37.5	18.0	485.5	69.0	27.5	36.5	33.5
Merged-chr11-121741682-4	chr11	121741591	121741791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39264.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	118.0	182.0	61.0	879.5	258.5	76.0	98.0	93.0
Merged-chr3-98083143-4	chr3	98083027	98083227	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 5 of 33)	RSINE1|SINE|B4	69589.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	13.5	34.0	12.5	356.0	50.0	22.5	22.0	21.0
Merged-chr2-93871036-3	chr2	93870934	93871134	+	791.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1877.0	NM_001033452	381411.0	Mm.9889	NM_001033452	ENSMUSG00000075023	Accsl	Gm1967	1-aminocyclopropane-1-carboxylate synthase (non-functional)-like	protein-coding	8.5	8.0	5.5	122.5	13.0	5.0	1.0	6.0
Merged-chr1-155065450-4	chr1	155065323	155065523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 4 of 6)	L2b|LINE|L2	17841.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	60.5	100.5	54.0	1423.5	137.0	37.0	81.5	78.5
Merged-chr13-112002769-4	chr13	112002675	112002875	+	876.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134839.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	13.5	11.0	7.0	264.0	23.5	13.0	11.0	9.5
Merged-chr14-99047032-2	chr14	99046932	99047132	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175245)	promoter-TSS (NM_175245)	655.0	NM_175265	77744.0	Mm.23503	NM_175265	ENSMUSG00000022070	Bora	6720463M24Rik|AI317232	bora, aurora kinase A activator	protein-coding	5.5	7.5	2.5	117.0	26.0	5.5	5.5	10.0
Merged-chr6-4973526-4	chr6	4973429	4973629	+	780.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	70209.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	27.5	18.0	11.5	273.0	25.0	8.5	8.0	12.0
Merged-chr6-136499347-4	chr6	136499219	136499419	+	815.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-19532.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	0.5	0.5	1.0	11.5	39.5	13.5	8.0	8.5
Merged-chr14-103346880-4	chr14	103346779	103346979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207215)	promoter-TSS (NM_207215)	-79.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	154.5	166.0	126.0	2508.5	293.5	129.0	185.0	125.5
Merged-chr12-16895510-4	chr12	16895362	16895562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	CpG	484.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	22.5	60.0	21.5	359.0	59.0	28.0	34.0	24.5
Merged-chr19-21736459-4	chr19	21736380	21736580	+	870.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41860.0	NM_001033759	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	12.0	30.5	10.0	104.0	36.5	16.0	11.0	4.5
Merged-chr2-160267520-3	chr2	160267426	160267626	+	878.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	59968.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	5.5	14.0	8.5	92.0	8.5	1.0	4.0	5.0
Merged-chr13-62558558-4	chr13	62558472	62558672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162911)	promoter-TSS (NM_001162911)	57.0	NM_175252	77117.0	Mm.440905	NM_175252	ENSMUSG00000074865	Zfp934	6720457D02Rik	zinc finger protein 934	protein-coding	31.0	37.5	81.5	23.0	63.5	19.5	29.5	29.5
Merged-chr17-29498257-4	chr17	29498168	29498368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7223.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	65.5	97.0	50.5	693.5	150.0	59.5	61.0	45.5
Merged-chr19-7494373-4	chr19	7494266	7494466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146091)	promoter-TSS (NM_146091)	-72.0	NM_146091	109168.0	Mm.264016	NM_146091	ENSMUSG00000024759	Atl3	4633402C03Rik|5730596K20Rik|AI465397|AW228836	atlastin GTPase 3	protein-coding	153.0	301.5	162.5	1873.5	352.0	170.0	132.5	127.0
Merged-chr13-51849708-2	chr13	51849608	51849808	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3033.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	15.0	24.0	9.5	229.0	47.0	26.5	11.5	20.5
Merged-chr3-34069139-4	chr3	34069037	34069237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001113188, exon 17 of 17)	3' UTR (NM_001113188, exon 17 of 17)	12217.0	NM_001026211	67713.0	Mm.274266	NM_026332	ENSMUSG00000027679	Dnajc19	1810055D05Rik|AA959924|Tim14	DnaJ heat shock protein family (Hsp40) member C19	protein-coding	45.0	31.0	43.5	397.5	52.0	24.5	26.5	26.5
Merged-chr12-75735680-5	chr12	75735589	75735789	+	985.628601	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030750)	promoter-TSS (NM_030750)	40.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	46.5	49.0	28.5	634.0	107.0	39.0	43.0	30.5
Merged-chr16-22015782-4	chr16	22015688	22015888	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027488, intron 3 of 16)	intron (NR_027488, intron 3 of 16)	6304.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	25.5	30.5	17.5	309.0	36.5	25.5	17.0	4.0
Merged-chr5-124095973-4	chr5	124095879	124096079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019875)	promoter-TSS (NM_019875)	-181.0	NM_019875	56325.0	Mm.254839	NM_019875	ENSMUSG00000029408	Abcb9	TAPL|mKIAA1520	ATP-binding cassette, sub-family B (MDR/TAP), member 9	protein-coding	169.0	312.5	149.0	1596.5	480.0	186.0	157.0	147.5
Merged-chr12-78791493-3	chr12	78791323	78791523	+	894.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019579, intron 1 of 14)	intron (NM_019579, intron 1 of 14)	42476.0	NM_019579	56217.0	Mm.425777	NM_019579	ENSMUSG00000021112	Mpp5	3830420B02Rik|AI255216|AI644496|Pals1	membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)	protein-coding	5.5	8.0	4.5	173.0	13.0	8.5	7.0	6.5
Merged-chr7-67462732-3	chr7	67462624	67462824	+	773.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89866.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	5.5	5.5	5.0	78.5	12.5	5.0	5.5	7.0
Merged-chr6-136809880-4	chr6	136809768	136809968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177688, exon 1 of 1)	3' UTR (NM_177688, exon 1 of 1)	1620.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	16.5	46.0	24.0	329.0	95.5	33.5	28.5	27.5
Merged-chr13-117211596-4	chr13	117211503	117211703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8970.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	52.5	62.5	67.5	1131.0	153.5	44.5	63.0	56.5
Merged-chr7-80044430-4	chr7	80044307	80044507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	18179.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	43.0	66.0	41.0	397.5	69.0	20.0	34.0	28.0
Merged-chr13-9764543-4	chr13	9764449	9764649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347472)	promoter-TSS (NM_001347472)	-79.0	NM_001347472	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	44.0	39.5	69.0	660.0	103.0	43.0	36.0	22.0
Merged-chr15-83128200-4	chr15	83128097	83128297	+	975.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 7 of 7)	intron (NM_001347082, intron 7 of 7)	-5396.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	15.5	34.5	11.5	355.0	122.5	27.0	36.0	41.0
Merged-chr18-88770666-4	chr18	88770573	88770773	+	926.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123534.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	8.0	19.0	3.0	207.0	37.5	7.5	17.5	15.5
Merged-chr9-102852399-1	chr9	102852299	102852499	+	742.0	f0_balb.idr	intron (NM_001284258, intron 1 of 13)	Lx9|LINE|L1	17479.0	NM_001284258	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	8.0	11.5	13.0	161.0	0.0	0.0	0.5	7.0
Merged-chr10-52418733-4	chr10	52418658	52418858	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030250, intron 1 of 4)	intron (NM_030250, intron 1 of 4)	1211.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	16.5	17.5	28.0	90.0	29.5	13.0	15.5	21.0
Merged-chr2-34373211-4	chr2	34373072	34373272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1127.0	NM_016768	18516.0	Mm.239941	NM_016768	ENSMUSG00000038718	Pbx3	-	pre B cell leukemia homeobox 3	protein-coding	45.0	52.5	35.5	508.5	94.0	25.5	60.0	55.0
Merged-chr1-162573914-4	chr1	162573821	162574021	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016796, intron 1 of 7)	MIRc|SINE|MIR	3093.0	NM_016796	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	19.0	37.0	16.0	331.0	68.0	38.0	22.5	33.0
Merged-chr11-69901017-4	chr11	69900936	69901136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316696)	promoter-TSS (NM_001316696)	-50.0	NM_027419	70419.0	Mm.272859	NM_027419	ENSMUSG00000018570	2810408A11Rik	1700019L01Rik|4930470J18Rik	RIKEN cDNA 2810408A11 gene	protein-coding	73.5	80.5	48.0	723.5	157.0	89.0	61.5	71.5
Merged-chr5-30921678-6	chr5	30921543	30921743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001349066)	promoter-TSS (NM_001349066)	84.0	NM_001310524	16548.0	Mm.22451	NM_008439	ENSMUSG00000029162	Khk	-	ketohexokinase	protein-coding	40.5	97.5	62.5	693.0	173.5	63.5	69.5	66.5
Merged-chr10-40882992-4	chr10	40882901	40883101	+	953.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031877)	promoter-TSS (NM_031877)	142.0	NM_027879	71713.0	Mm.46063	NM_027879	ENSMUSG00000038446	Cdc40	1200003H23Rik|EHB3|PRP17	cell division cycle 40	protein-coding	11.0	24.5	13.0	166.0	28.0	9.0	17.5	26.0
Merged-chr4-95047205-6	chr4	95047151	95047351	+	732.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4971.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	8.5	27.0	10.0	118.0	22.5	6.0	2.0	13.0
Merged-chr9-118762265-4	chr9	118762187	118762387	+	871.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 1 of 13)	intron (NM_001113514, intron 1 of 13)	50595.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	18.0	18.0	9.5	133.0	42.5	11.0	10.5	21.0
Merged-chr3-31095759-4	chr3	31095674	31095874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039090, intron 1 of 6)	intron (NM_001039090, intron 1 of 6)	716.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	183.5	354.5	241.5	2648.5	665.0	239.5	357.5	201.5
Merged-chr1-143777181-4	chr1	143777078	143777278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013835)	promoter-TSS (NM_013835)	-100.0	NM_001159866	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	291.5	482.5	377.5	5194.5	836.0	322.5	451.5	329.5
Merged-chr10-19934749-6	chr10	19934693	19934893	+	839.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008580, exon 1 of 30)	exon (NM_008580, exon 1 of 30)	267.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	14.5	36.5	11.5	67.0	17.5	8.0	6.5	10.0
Merged-chr4-128655098-3	chr4	128654996	128655196	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	CpG	394.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	10.0	18.5	11.5	199.5	19.5	10.0	12.5	12.5
Merged-chr9-40397270-4	chr9	40397164	40397364	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 2 of 20)	intron (NM_001357617, intron 2 of 20)	-20847.0	NM_001357621	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	27.5	22.5	29.0	384.5	32.0	6.5	18.5	17.0
Merged-chr1-43935320-3	chr1	43935184	43935384	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009418, intron 1 of 29)	intron (NM_009418, intron 1 of 29)	1290.0	NM_009418	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	6.0	6.0	5.0	61.0	10.0	3.5	7.5	13.0
Merged-chr7-145098589-4	chr7	145098467	145098667	+	983.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109552.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	24.5	46.5	17.5	310.0	56.5	25.0	22.0	15.0
Merged-chr4-130782687-4	chr4	130782579	130782779	+	942.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9858.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	11.0	38.5	14.5	195.5	41.0	21.5	15.0	15.0
Merged-chr7-15949421-2	chr7	15949321	15949521	+	703.375	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153068, exon 6 of 6)	3' UTR (NM_153068, exon 6 of 6)	-3313.0	NM_133831	68077.0	Mm.277634	NM_133831	ENSMUSG00000041560	Nop53	5330430H08Rik|9430097C02Rik|AU041936|AW536441|Gltscr2|PICT-1|R74911	NOP53 ribosome biogenesis factor	protein-coding	3.0	4.5	3.0	95.5	6.0	6.0	6.5	5.5
Merged-chr10-71262628-4	chr10	71262527	71262727	+	901.9874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145420, intron 1 of 6)	intron (NM_145420, intron 1 of 6)	22635.0	NM_145420	216080.0	Mm.270530	NM_145420	ENSMUSG00000019927	Ube2d1	UBCH5	ubiquitin-conjugating enzyme E2D 1	protein-coding	18.0	14.5	9.0	279.0	37.5	19.0	19.5	10.5
Merged-chr4-33284614-4	chr4	33284491	33284691	+	886.3095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25720.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	6.5	18.5	12.5	160.0	20.0	6.0	6.5	10.5
Merged-chr2-180024856-4	chr2	180024850	180025050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177727)	promoter-TSS (NM_177727)	-37.0	NM_177727	241846.0	Mm.21577	NM_177727	ENSMUSG00000039108	Lsm14b	9430078B04|BC040823	LSM family member 14B	protein-coding	178.5	222.0	196.5	2811.5	476.0	188.0	254.0	164.5
Merged-chr11-107322931-4	chr11	107322838	107323038	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359616, intron 2 of 8)	intron (NM_001359616, intron 2 of 8)	-133557.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	19.0	21.5	5.5	151.5	58.5	16.5	14.5	19.5
Merged-chr2-167752191-2	chr2	167752091	167752291	+	863.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	61014.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	2.0	5.5	6.0	59.5	25.5	4.5	5.5	6.0
Merged-chr3-32698460-4	chr3	32698346	32698546	+	864.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10100.0	NM_019673	56456.0	Mm.41077	NM_019673	ENSMUSG00000027671	Actl6a	2810432C06Rik|AI851094|ARP4|Actl6|Baf53a|C79802	actin-like 6A	protein-coding	5.5	21.0	10.5	178.0	23.0	4.5	14.5	11.0
Merged-chr10-96185855-4	chr10	96185746	96185946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40361.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	38.0	56.0	33.5	443.0	49.0	24.0	38.0	26.5
Merged-chr1-133012504-1	chr1	133012404	133012604	+	925.5	f0_balb.idr	intron (NM_008575, intron 4 of 11)	intron (NM_008575, intron 4 of 11)	12912.0	NR_126506	17248.0	Mm.426531	NM_008575	ENSMUSG00000054387	Mdm4	4933417N07Rik|AA414968|AL023055|AU018793|AU021806|C85810|Mdmx	transformed mouse 3T3 cell double minute 4	protein-coding	11.5	23.5	5.0	139.0	6.0	8.0	8.0	6.0
Merged-chr10-110733487-4	chr10	110733402	110733602	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11937.0	NM_001358560	52679.0	Mm.11747	NM_178609	ENSMUSG00000020185	E2f7	A630014C11Rik|D10Ertd739e|E2F-7	E2F transcription factor 7	protein-coding	14.5	27.0	21.0	348.0	36.5	17.5	29.0	18.5
Merged-chr13-41068305-4	chr13	41068198	41068398	+	786.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145802, intron 2 of 11)	MLT1B|LTR|ERVL-MaLR	2167.0	NM_008547	17152.0	Mm.8149	NM_008547	ENSMUSG00000021363	Mak	A930010O05Rik	male germ cell-associated kinase	protein-coding	10.0	6.0	7.0	107.5	24.0	6.0	12.0	7.5
Merged-chr15-72549539-4	chr15	72549440	72549640	+	879.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3261.0	NM_001033876	223604.0	Mm.386856	NM_001033876	ENSMUSG00000036760	Kcnk9	Task3	potassium channel, subfamily K, member 9	protein-coding	10.5	14.5	8.5	159.0	30.5	14.0	12.0	15.5
Merged-chr7-104505898-3	chr7	104505812	104506012	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199146, intron 1 of 7)	Lx4A|LINE|L1	1937.0	NM_199146	209387.0	Mm.277377	NM_199146	ENSMUSG00000057596	Trim30d	AI451617|TRIM30-3|Trim79	tripartite motif-containing 30D	protein-coding	96.5	138.5	76.0	849.0	4.0	0.0	0.0	0.5
Merged-chr6-120481766-2	chr6	120481666	120481866	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008359, exon 13 of 13)	exon (NM_008359, exon 13 of 13)	12041.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	5.5	16.0	4.5	61.0	13.5	9.0	6.5	4.0
Merged-chr9-35115980-3	chr9	35115891	35116091	+	865.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029475)	promoter-TSS (NR_029475)	-737.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	4.0	7.5	6.5	72.5	9.0	10.5	13.0	5.5
Merged-chr17-7400114-1	chr17	7400014	7400214	+	583.0	f1_c57bl6.idr	Intergenic	RMER12B|LTR|ERVK	-14809.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	5.0	1.5	10.0	14.5	17.5	12.0	5.0	5.0
Merged-chr13-113436462-4	chr13	113436353	113436553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	66391.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	39.5	46.0	30.0	581.5	70.0	29.5	42.0	31.5
Merged-chr16-74411669-3	chr16	74411574	74411774	+	735.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175549, exon 1 of 28)	5' UTR (NM_175549, exon 1 of 28)	151.0	NM_001358494	268902.0	Mm.171736	NM_175549	ENSMUSG00000052516	Robo2	2600013A04Rik|9430089E08Rik|BB097918|D230004I22Rik|mKIAA1568	roundabout guidance receptor 2	protein-coding	9.5	6.0	8.0	95.0	3.0	3.5	0.5	3.0
Merged-chr3-146653792-4	chr3	146653698	146653898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2481.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	104.0	110.0	117.5	1710.0	203.0	74.5	96.5	88.0
Merged-chr15-25605588-4	chr15	25605531	25605731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16919.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	59.5	90.5	116.0	1104.0	128.5	38.5	67.5	34.0
Merged-chr17-34557143-4	chr17	34557016	34557216	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-7179.0	NM_010929	18132.0	Mm.173813	NM_010929	ENSMUSG00000015468	Notch4	Int-3|Int3|N4	notch 4	protein-coding	27.0	31.5	22.0	391.0	49.5	16.0	19.0	18.0
Merged-chr2-69635214-4	chr2	69635115	69635315	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12040.0	NM_028284	72569.0	Mm.252136	NM_028284	ENSMUSG00000063145	Bbs5	1700049I01Rik|2700023J09Rik	Bardet-Biedl syndrome 5 (human)	protein-coding	15.5	18.5	16.5	360.0	39.0	19.5	27.0	15.0
Merged-chr17-43327484-4	chr17	43327384	43327584	+	930.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32947.0	NM_001357332	224792.0	Mm.23478	NM_001081178	ENSMUSG00000056492	Adgrf5	8430401C09Rik|9330185D23|AI528491|Gpr116|mKIAA0758	adhesion G protein-coupled receptor F5	protein-coding	12.0	12.5	4.5	144.0	50.5	8.5	8.0	16.5
Merged-chr11-68514131-4	chr11	68514023	68514223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004435, intron 1 of 19)	MurERV4-int|LTR|ERVK	11104.0	NR_126154	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	70.0	163.5	53.5	549.5	145.0	61.5	59.0	46.0
Merged-chr2-58715101-4	chr2	58714972	58715172	+	934.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 1 of 7)	L1MA4A|LINE|L1	-40112.0	NM_001289659	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	7.0	25.5	9.5	192.5	38.0	15.0	18.5	3.5
Merged-chr2-38290458-4	chr2	38290358	38290558	+	969.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-3074.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	18.0	12.0	13.0	241.0	56.5	17.0	22.0	11.0
Merged-chr13-21362843-4	chr13	21362741	21362941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016684)	promoter-TSS (NM_016684)	21.0	NM_016684	22758.0	Mm.24124	NM_016684	ENSMUSG00000036721	Zscan12	2510038J07Rik|FPM315|Zfp96|mKIAA0426|zfp-96	zinc finger and SCAN domain containing 12	protein-coding	50.0	65.5	66.0	1071.5	135.5	41.5	92.5	53.5
Merged-chr11-51900001-4	chr11	51899890	51900090	+	891.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-42360.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	12.0	20.0	4.5	185.5	19.5	6.5	6.5	13.5
Merged-chr3-130804023-3	chr3	130803937	130804137	+	897.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73639.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	11.0	13.5	10.5	113.0	22.0	5.0	2.0	7.0
Merged-chr12-16591690-4	chr12	16591588	16591788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355598, intron 1 of 20)	intron (NM_001355598, intron 1 of 20)	-1918.0	NM_172950	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	170.0	265.5	158.5	2306.0	172.0	64.5	58.0	44.0
Merged-chr19-26604181-3	chr19	26604077	26604277	+	807.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011416)	promoter-TSS (NM_011416)	-983.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	7.0	11.5	4.5	87.5	6.5	3.0	10.5	4.5
Merged-chr1-43827923-4	chr1	43827821	43828021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026430)	promoter-TSS (NM_026430)	-213.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	336.0	412.5	378.0	4253.5	550.0	250.5	322.5	263.5
Merged-chr10-59292760-4	chr10	59292670	59292870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30526.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	45.0	55.5	24.0	548.0	84.5	32.0	37.5	30.5
Merged-chr4-97757451-4	chr4	97757340	97757540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-20186.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	38.5	26.0	41.5	382.5	82.0	35.5	33.0	32.5
Merged-chr8-34108507-4	chr8	34108394	34108594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293758)	promoter-TSS (NM_001293758)	218.0	NM_001293759	22428.0	Mm.150373	NM_011722	ENSMUSG00000031516	Dctn6	AU044699|WS-3|p27	dynactin 6	protein-coding	61.0	81.5	53.5	1112.5	168.0	62.5	69.0	53.5
Merged-chr11-79120299-4	chr11	79120196	79120396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	26177.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	48.5	61.5	30.5	394.0	70.0	28.5	35.0	38.0
Merged-chr13-117127572-3	chr13	117127470	117127670	+	869.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2455.0	NR_046023	623312.0	Mm.131279	NR_046023	ENSMUSG00000114792	Gm6416	-	predicted gene 6416	ncRNA	7.0	14.0	3.0	176.0	17.5	8.0	8.0	8.0
Merged-chr5-103722746-4	chr5	103722646	103722846	+	699.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-31416.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	10.5	8.5	1.0	60.0	20.0	5.0	12.5	10.0
Merged-chr9-50774117-4	chr9	50774023	50774223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1102.0	NM_133981	102580.0	Mm.160035	NM_133981	ENSMUSG00000032059	Alg9	8230402H15Rik|AI747665|B430313H07Rik|Dibd1	asparagine-linked glycosylation 9 (alpha 1,2 mannosyltransferase)	protein-coding	47.5	125.5	27.5	818.5	115.5	46.0	59.0	70.0
Merged-chr2-129401524-2	chr2	129401424	129401624	+	963.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30385.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	7.0	5.0	8.5	48.5	5.0	1.0	2.5	6.5
Merged-chr11-49720016-4	chr11	49719928	49720128	+	896.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-7306.0	NM_212484	104625.0	Mm.247113	NM_212484	ENSMUSG00000020362	Cnot6	CCR4	CCR4-NOT transcription complex, subunit 6	protein-coding	16.0	14.0	11.5	278.0	38.0	11.5	11.0	5.0
Merged-chr7-125542061-4	chr7	125541947	125542147	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10235.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	19.5	29.0	15.5	192.0	46.0	11.5	12.0	26.0
Merged-chr2-84961520-4	chr2	84961435	84961635	+	854.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18926.0	NM_008920	19074.0	Mm.142727	NM_008920	ENSMUSG00000027073	Prg2	EMBP|MBP|mMBP|mMBP-1	proteoglycan 2, bone marrow	protein-coding	7.0	6.0	18.5	124.0	35.5	9.5	17.0	14.5
Merged-chr17-15583276-3	chr17	15583164	15583364	+	821.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19941.0	NM_144809	213389.0	Mm.215162	NM_144809	ENSMUSG00000051977	Prdm9	BC012016|Dsbc1|G1-419-29|Meisetz|PRDM9-B|Rcr1|repro7	PR domain containing 9	protein-coding	6.5	23.5	10.0	193.0	4.0	4.0	3.0	2.5
Merged-chr8-11758875-2	chr8	11758775	11758975	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_017402, intron 1 of 19)	intron (NM_017402, intron 1 of 19)	545.0	NM_001113518	54126.0	Mm.244068	NM_017402	ENSMUSG00000031511	Arhgef7	Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR	Rho guanine nucleotide exchange factor (GEF7)	protein-coding	6.5	4.5	6.5	10.0	11.0	6.0	8.0	11.0
Merged-chr6-134425665-4	chr6	134425551	134425751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355686, intron 2 of 5)	intron (NM_001355686, intron 2 of 5)	11223.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	97.5	109.0	69.5	1525.5	148.5	58.0	127.5	67.5
Merged-chr14-7977672-4	chr14	7977568	7977768	+	838.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007870, intron 4 of 7)	intron (NM_007870, intron 4 of 7)	16514.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	10.5	15.5	9.0	118.0	30.5	3.5	3.5	12.5
Merged-chr9-44461448-4	chr9	44461384	44461584	+	881.7589109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-6717.0	NM_009476	22269.0	Mm.4453	NM_009476	ENSMUSG00000041523	Upk2	AW491716|UPII	uroplakin 2	protein-coding	9.0	4.0	11.5	59.0	18.5	13.0	7.0	19.5
Merged-chr14-7958794-4	chr14	7958697	7958897	+	942.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35385.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	22.0	31.0	10.0	96.0	61.0	20.0	20.5	8.0
Merged-chr10-29231816-4	chr10	29231722	29231922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20179.0	NM_001162537	212448.0	Mm.132789	NM_001162537	ENSMUSG00000004360	9330159F19Rik	-	RIKEN cDNA 9330159F19 gene	protein-coding	36.0	62.0	37.5	592.0	83.5	43.0	30.5	29.0
Merged-chr1-155146845-4	chr1	155146740	155146940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355062)	promoter-TSS (NM_001355062)	-26.0	NM_008209	15064.0	Mm.7580	NM_008209	ENSMUSG00000026471	Mr1	H2ls	major histocompatibility complex, class I-related	protein-coding	37.0	55.0	31.5	474.5	106.0	45.5	44.0	51.5
Merged-chr4-150031526-5	chr4	150031560	150031760	+	699.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22637.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	4.5	8.5	7.0	44.5	12.0	5.0	1.5	1.0
Merged-chr10-21993373-6	chr10	21993273	21993473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161850)	promoter-TSS (NM_001161850)	-517.0	NM_001161850	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	15.5	30.5	44.0	378.5	68.0	19.0	34.0	24.0
Merged-chr10-7333617-3	chr10	7333530	7333730	+	929.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121393.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	13.0	10.0	14.0	279.0	9.0	4.0	7.0	6.0
Merged-chr9-66895525-4	chr9	66895424	66895624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	24181.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	20.5	22.5	34.0	462.5	58.0	34.5	29.5	24.5
Merged-chr2-164706217-4	chr2	164706128	164706328	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7727.0	NM_030058	78239.0	Mm.160060	NM_030058	ENSMUSG00000017310	Spint4	9230105I15Rik	serine protease inhibitor, Kunitz type 4	protein-coding	9.5	1.5	8.0	174.5	25.0	4.5	8.5	13.0
Merged-chr13-5871538-4	chr13	5871421	5871621	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10032.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	33.0	40.0	28.5	386.5	32.0	27.0	15.5	9.5
Merged-chr2-68502415-3	chr2	68502332	68502532	+	745.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-30451.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	9.0	14.0	10.5	150.5	13.5	1.5	12.0	9.5
Merged-chr15-50109034-3	chr15	50108872	50109072	+	979.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	780077.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	1.0	0.0	3.0	27.0	45.5	14.5	26.0	19.5
Merged-chr6-92941491-3	chr6	92941391	92941591	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	909.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	137.5	214.5	207.5	2567.5	3.0	1.0	0.0	4.5
Merged-chr4-48046441-1	chr4	48046341	48046541	+	543.0	f0_c57.idr	intron (NM_015743, intron 1 of 7)	intron (NM_015743, intron 1 of 7)	1136.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	5.0	6.5	8.5	37.0	15.5	9.0	6.0	9.5
Merged-chr7-73533661-4	chr7	73533589	73533789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	8057.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	38.5	32.5	17.5	560.0	62.5	26.0	22.0	18.5
Merged-chr2-68874646-4	chr2	68874536	68874736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	13195.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	25.0	35.0	50.5	912.5	60.0	22.5	25.5	27.5
Merged-chr12-39039012-3	chr12	39038905	39039105	+	935.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	255294.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	7.0	6.5	14.5	244.5	10.5	2.5	13.0	5.0
Merged-chr2-131087288-3	chr2	131087177	131087377	+	944.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011426)	promoter-TSS (NM_011426)	-512.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	12.5	9.0	15.5	208.0	11.5	3.0	8.0	9.5
Merged-chr11-11558878-4	chr11	11558778	11558978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68960.0	NM_001305143	102631730.0	Mm.159430	NM_001305143	ENSMUSG00000062511	4930512M02Rik	-	RIKEN cDNA 4930512M02 gene	protein-coding	55.5	69.0	51.5	895.5	137.0	58.5	53.0	59.5
Merged-chr11-21571987-4	chr11	21571883	21572083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008618)	promoter-TSS (NM_008618)	-49.0	NM_001316675	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	257.5	382.5	308.5	4417.0	786.0	317.5	446.5	309.0
Merged-chr7-130648281-4	chr7	130648184	130648384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004468, intron 3 of 21)	intron (NM_001004468, intron 3 of 21)	-44272.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	81.5	145.5	59.0	1185.5	225.0	87.5	125.0	85.5
Merged-chr12-85513844-4	chr12	85513761	85513961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39971.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	31.5	115.0	30.5	61.0	107.0	53.5	25.0	7.5
Merged-chr13-113435341-4	chr13	113435283	113435483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	67461.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	64.5	86.0	85.0	800.0	148.0	38.0	48.5	33.0
Merged-chr17-6782169-4	chr17	6782051	6782251	+	980.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 1 of 12)	intron (NM_009510, intron 1 of 12)	629.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	11.0	35.5	14.0	207.0	35.0	20.0	20.0	18.5
Merged-chr7-75655904-4	chr7	75655818	75656018	+	899.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	L1M4|LINE|L1	-192420.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	20.5	26.0	5.5	128.0	18.0	11.0	6.0	16.5
Merged-chr13-119406755-3	chr13	119406635	119406835	+	750.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308506, intron 1 of 16)	intron (NM_001308506, intron 1 of 16)	2276.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	6.0	5.5	10.5	92.0	14.0	4.5	6.0	3.0
Merged-chr10-8072727-4	chr10	8072594	8072794	+	941.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31B|LTR|ERV1	-116571.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	17.0	14.0	10.0	213.0	31.0	14.5	13.0	19.0
Merged-chr15-31453673-4	chr15	31453572	31453772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145852)	promoter-TSS (NM_145852)	17.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	150.0	177.5	151.0	2521.0	254.0	101.5	129.5	114.5
Merged-chr1-166154344-4	chr1	166154252	166154452	+	882.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360926)	TTS (NM_001360926)	24131.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	11.5	18.0	5.0	103.0	27.5	12.0	14.0	7.5
Merged-chr16-23136762-4	chr16	23136654	23136854	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9024.0	NM_145480	106344.0	Mm.386835	NM_145480	ENSMUSG00000022881	Rfc4	A1|AI894123|AU040575|RFC37	replication factor C (activator 1) 4	protein-coding	26.5	16.0	20.0	211.0	28.5	18.5	20.5	15.5
Merged-chr10-84554645-4	chr10	84554557	84554757	+	896.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1319.0	NR_040658	442847.0	Mm.128292	NR_040658	ENSMUSG00000097076	Platr7	C330046G13Rik	pluripotency associated transcript 7	ncRNA	16.0	21.5	21.0	295.0	20.5	4.0	10.5	10.5
Merged-chr10-80741251-4	chr10	80741176	80741376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007460, intron 1 of 30)	intron (NM_007460, intron 1 of 30)	999.0	NM_007460	11776.0	Mm.27082	NM_007460	ENSMUSG00000020198	Ap3d1	AA407035|Ap3d|Bolvr|mBLVR1|mh|mocha	adaptor-related protein complex 3, delta 1 subunit	protein-coding	44.5	71.0	55.5	748.0	160.0	52.5	74.5	61.0
Merged-chr12-103341834-4	chr12	103341730	103341930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 2 of 9)	intron (NM_023049, intron 2 of 9)	14171.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	25.5	20.0	19.5	322.0	65.0	14.0	26.5	23.0
Merged-chr15-72837127-4	chr15	72837038	72837238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	intron (NM_001164641, intron 17 of 17)	-26814.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	117.5	124.0	70.5	1411.5	215.0	119.0	90.5	85.0
Merged-chr3-43215879-1	chr3	43215779	43215979	+	636.0	f0_balb.idr	Intergenic	Lx|LINE|L1	1473261.0	NM_027271	73852.0	Mm.29006	NM_027271	ENSMUSG00000025766	D3Ertd751e	2810009O15Rik|4930415G15Rik	DNA segment, Chr 3, ERATO Doi 751, expressed	protein-coding	2.5	10.0	7.0	96.0	8.5	4.5	12.5	9.5
Merged-chr1-34473609-2	chr1	34473509	34473709	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_011206, exon 15 of 15)	exon (NM_011206, exon 15 of 15)	13863.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	5.0	9.5	8.5	32.5	9.5	6.0	5.5	14.5
Merged-chr4-62408730-4	chr4	62408620	62408820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027297)	promoter-TSS (NM_027297)	-63.0	NM_027297	70052.0	Mm.30660	NM_027297	ENSMUSG00000066148	Prpf4	1600015H11Rik|AI874830|AW047464|bN189G18.1	pre-mRNA processing factor 4	protein-coding	229.5	382.0	217.5	3383.5	605.0	215.5	267.5	208.0
Merged-chr17-33816903-3	chr17	33816843	33817043	+	927.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357162, intron 2 of 5)	intron (NM_001357162, intron 2 of 5)	6420.0	NM_030697	80880.0	Mm.196330	NM_030697	ENSMUSG00000042099	Kank3	0610013D04Rik|Ankrd47|D17Ertd288e|NG28	KN motif and ankyrin repeat domains 3	protein-coding	7.5	17.5	9.5	179.5	10.0	7.0	4.0	3.5
Merged-chr2-101763234-4	chr2	101763146	101763346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 3 of 8)	intron (NM_001355625, intron 3 of 8)	34461.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	157.5	182.0	207.5	2540.5	320.0	99.0	171.0	159.5
Merged-chr2-124642375-4	chr2	124642274	124642474	+	973.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	-11207.0	NM_199240	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	26.0	18.5	19.0	458.0	65.0	18.0	14.5	49.0
Merged-chr8-33655467-4	chr8	33655390	33655590	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	2252.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	3.0	10.0	24.5	126.5	47.0	21.5	17.5	20.0
Merged-chr12-85525202-2	chr12	85525102	85525302	+	865.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTRETN_Mm|LTR|ERVK	51312.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	8.0	6.0	6.0	14.0	9.0	5.5	2.0	6.5
Merged-chr16-55858696-4	chr16	55858612	55858812	+	803.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134457, intron 4 of 5)	intron (NM_001134457, intron 4 of 5)	-20071.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	11.0	19.5	8.0	110.0	16.5	12.0	7.0	14.0
Merged-chr3-131976083-4	chr3	131975984	131976184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109208.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	32.0	54.5	43.5	667.0	75.5	29.5	47.5	34.5
Merged-chr5-122343127-3	chr5	122343035	122343235	+	786.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144912, intron 5 of 10)	intron (NM_144912, intron 5 of 10)	11060.0	NM_144912	231724.0	Mm.255587	NM_144912	ENSMUSG00000038569	Rad9b	A630082N15Rik|BC021784	RAD9 checkpoint clamp component B	protein-coding	8.5	7.5	4.5	141.0	10.0	1.0	2.5	8.5
Merged-chr11-110399068-4	chr11	110398986	110399186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011943)	promoter-TSS (NM_011943)	-16.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	37.5	35.0	23.0	511.0	88.0	24.0	62.0	37.5
Merged-chr10-95279662-4	chr10	95279558	95279758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	44051.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	59.0	136.0	79.5	1154.0	131.5	56.5	60.0	78.5
Merged-chr9-110645363-4	chr9	110645277	110645477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183276, intron 1 of 53)	intron (NM_183276, intron 1 of 53)	8784.0	NM_183276	235627.0	Mm.335481	NM_183276	ENSMUSG00000056724	Nbeal2	1110014F23Rik|BC042396|mKIAA0540	neurobeachin-like 2	protein-coding	47.0	48.0	24.0	356.0	104.0	49.0	32.0	45.0
Merged-chr2-91194879-4	chr2	91194784	91194984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013839, exon 1 of 10)	5' UTR (NM_013839, exon 1 of 10)	151.0	NM_013839	22259.0	Mm.22690	NM_013839	ENSMUSG00000002108	Nr1h3	AU018371|LXR|RLD1|Unr1	nuclear receptor subfamily 1, group H, member 3	protein-coding	68.0	158.0	141.0	1684.0	352.0	126.5	164.5	154.0
Merged-chr2-25240926-4	chr2	25240832	25241032	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1035.0	NM_026415	67859.0	Mm.46431	NM_026415	ENSMUSG00000036731	Cysrt1	2310002J15Rik|AV023762	cysteine rich tail 1	protein-coding	11.0	27.5	11.5	242.5	32.0	11.5	13.0	11.5
Merged-chr17-84352744-4	chr17	84352630	84352830	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	intron (NM_183021, intron 26 of 37)	113478.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	9.5	13.5	6.5	153.0	21.5	18.0	15.5	15.0
Merged-chr14-65147211-3	chr14	65147100	65147300	+	624.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-49094.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	7.0	6.0	8.5	17.5	20.5	8.5	7.5	12.5
Merged-chr4-105291671-4	chr4	105291489	105291689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134242.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	15.0	30.0	29.0	221.0	45.0	18.5	20.5	14.0
Merged-chr7-132589746-3	chr7	132589643	132589843	+	654.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9894.0	NM_009123	20231.0	Mm.334281	NM_009123	ENSMUSG00000048528	Nkx1-2	Nkx-1.1|Nkx-1.2|Sax1	NK1 homeobox 2	protein-coding	8.5	6.0	6.5	101.5	20.0	5.0	5.0	3.0
Merged-chr17-23774281-4	chr17	23774181	23774381	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2679.0	NM_001357994	224613.0	Mm.328835	NM_153791	ENSMUSG00000040097	Flywch1	E030034P13Rik|mKIAA1552	FLYWCH-type zinc finger 1	protein-coding	17.0	16.5	7.5	193.5	87.0	27.5	43.0	51.0
Merged-chr3-144572369-4	chr3	144572283	144572483	+	834.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053102, intron 1 of 4)	intron (NM_053102, intron 1 of 4)	1956.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	10.0	10.0	6.5	142.0	20.5	6.5	13.0	12.5
Merged-chr8-70695428-4	chr8	70695323	70695523	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2316.0	NM_010592	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	27.0	36.5	27.0	311.5	67.5	17.0	22.5	36.5
Merged-chr7-127511993-4	chr7	127511900	127512100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304266)	promoter-TSS (NM_001304266)	17.0	NM_001304266	100043597.0	Mm.428042	NM_175144	ENSMUSG00000053877	Srcap	B930091H02Rik|D030022P06Rik|F630004O05Rik	Snf2-related CREBBP activator protein	protein-coding	112.5	170.5	59.5	1265.0	277.0	134.5	137.5	105.5
Merged-chr12-85746443-4	chr12	85746325	85746525	+	901.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145447)	promoter-TSS (NM_145447)	-114.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	13.5	14.0	16.5	77.5	33.0	12.0	10.5	8.5
Merged-chr11-82048254-4	chr11	82048143	82048343	+	869.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013654)	TTS (NM_013654)	2531.0	NM_013654	20306.0	Mm.341574	NM_013654	ENSMUSG00000035373	Ccl7	MCP-3|Scya7|fic|marc|mcp3	chemokine (C-C motif) ligand 7	protein-coding	10.0	14.0	6.0	94.0	34.0	17.0	16.5	19.5
Merged-chr13-54072682-4	chr13	54072592	54072792	+	850.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027324, intron 1 of 10)	intron (NM_027324, intron 1 of 10)	847.0	NM_027324	14057.0	Mm.134191	NM_027324	ENSMUSG00000021474	Sfxn1	2810002O05Rik|A930015P12Rik|f	sideroflexin 1	protein-coding	11.5	36.0	10.0	62.5	90.5	36.0	12.5	22.5
Merged-chr10-25331558-2	chr10	25331445	25331645	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28253.0	NM_001358754	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	41.0	16.0	23.5	489.0	58.5	28.0	32.0	23.0
Merged-chr16-18836649-4	chr16	18836568	18836768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033164)	promoter-TSS (NM_001033164)	88.0	NM_001033164	72307.0	Mm.36907	NM_001033164	ENSMUSG00000071632	2510002D24Rik	2410043I01Rik|AA163535|AA409624|DXMgi27	RIKEN cDNA 2510002D24 gene	protein-coding	49.0	35.0	46.5	536.5	54.0	32.5	14.5	46.5
Merged-chr13-33959986-3	chr13	33959884	33960084	+	934.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040707, exon 5 of 5)	non-coding (NR_040707, exon 5 of 5)	-4675.0	NM_001163239	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	14.5	11.0	7.5	213.5	24.5	16.0	1.0	8.5
Merged-chr1-135110319-3	chr1	135110215	135110415	+	852.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007955, exon 32 of 38)	exon (NM_007955, exon 32 of 38)	-5039.0	NM_001033409	329252.0	Mm.279594	NM_001033409	ENSMUSG00000042793	Lgr6	A530037C04Rik|D830026M09	leucine-rich repeat-containing G protein-coupled receptor 6	protein-coding	3.0	7.0	2.5	76.0	9.0	6.0	4.5	5.0
Merged-chr16-30597307-6	chr16	30597183	30597383	+	985.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2440.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	16.0	33.5	17.0	194.5	35.0	24.0	12.0	14.0
Merged-chr9-66833440-4	chr9	66833330	66833530	+	900.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026674, intron 1 of 5)	intron (NM_026674, intron 1 of 5)	1276.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	12.0	18.0	11.0	247.0	27.0	5.0	3.5	8.0
Merged-chr11-103117310-7	chr11	103117185	103117385	+	977.710876	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_138753, exon 1 of 1)	exon (NM_138753, exon 1 of 1)	960.0	NM_138753	192231.0	Mm.8763	NM_138753	ENSMUSG00000048878	Hexim1	7330426E13Rik|CLP-1|Clp1|HIS1	hexamethylene bis-acetamide inducible 1	protein-coding	11.5	13.5	13.0	205.5	23.5	14.5	12.0	16.0
Merged-chr4-155187313-4	chr4	155187213	155187413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	35222.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	61.0	61.0	42.0	814.5	71.0	17.0	33.5	46.0
Merged-chr6-48772223-3	chr6	48772133	48772333	+	717.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1382.0	NM_031247	83408.0	Mm.333050	NM_031247	ENSMUSG00000039264	Gimap3	2010110D23Rik|Gimap5|Ian4	GTPase, IMAP family member 3	protein-coding	10.0	3.0	2.5	85.0	17.5	7.0	7.5	10.5
Merged-chr13-47215104-4	chr13	47215022	47215222	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 2 of 7)	intron (NM_146042, intron 2 of 7)	21119.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	24.5	20.5	20.0	310.5	71.0	25.5	26.5	27.5
Merged-chr7-19507440-7	chr7	19507323	19507523	+	840.261902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177692, exon 2 of 2)	exon (NM_177692, exon 2 of 2)	908.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	13.5	14.5	3.5	86.5	14.5	7.0	8.0	12.5
Merged-chr3-100420059-3	chr3	100419969	100420169	+	821.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6336.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	9.0	10.0	10.0	281.5	12.0	1.5	9.5	10.5
Merged-chr17-46892708-4	chr17	46892606	46892806	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178385)	TTS (NM_178385)	2085.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	24.0	46.0	40.0	369.5	51.0	13.5	20.0	26.5
Merged-chr8-64849693-2	chr8	64849593	64849793	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178633, exon 1 of 15)	5' UTR (NM_178633, exon 1 of 15)	231.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	22.5	19.5	27.5	407.0	38.5	10.0	18.5	16.0
Merged-chr8-117361690-3	chr8	117361581	117361781	+	932.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	intron (NM_028941, intron 1 of 20)	12511.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	6.5	16.5	4.5	101.0	17.5	5.0	4.5	5.5
Merged-chr5-33935826-2	chr5	33935726	33935926	+	722.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011914, intron 1 of 10)	intron (NM_011914, intron 1 of 10)	432.0	NM_011914	24116.0	Mm.332320	NM_011914	ENSMUSG00000029111	Nelfa	Whsc2|Whsc2h	negative elongation factor complex member A, Whsc2	protein-coding	11.0	14.5	9.0	148.0	16.0	7.0	9.5	14.5
Merged-chr8-105397931-2	chr8	105397831	105398031	+	832.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301173, intron 2 of 15)	intron (NM_001301173, intron 2 of 15)	15571.0	NM_177791	279499.0	Mm.67628	NM_177791	ENSMUSG00000051648	Kctd19	4922504H04Rik	potassium channel tetramerisation domain containing 19	protein-coding	4.5	8.5	2.5	57.5	14.0	6.5	4.5	5.0
Merged-chr19-34474867-4	chr19	34474871	34475071	+	779.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009890, exon 1 of 1)	exon (NM_009890, exon 1 of 1)	164.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	5.0	9.5	8.5	69.0	12.5	12.5	4.5	5.5
Merged-chr8-70759207-4	chr8	70759141	70759341	+	801.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009001)	TTS (NM_009001)	1680.0	NM_183170	234384.0	Mm.213010	NM_183170	ENSMUSG00000035559	Mpv17l2	Fksg24	MPV17 mitochondrial membrane protein-like 2	protein-coding	9.5	14.0	3.5	99.0	35.5	9.5	10.5	7.0
Merged-chr8-3646016-4	chr8	3645919	3646119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-9751.0	NM_001204959	57264.0	Mm.1181	NM_022984	ENSMUSG00000012705	Retn	ADSF|Fizz3|Rstn|Xcp4	resistin	protein-coding	54.5	64.5	57.5	1131.0	117.5	42.0	54.5	47.0
Merged-chr13-47232344-4	chr13	47232226	47232426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 4 of 7)	intron (NM_146042, intron 4 of 7)	38323.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	142.0	209.0	172.0	2108.0	345.5	115.5	84.0	98.0
Merged-chr2-14055229-4	chr2	14055112	14055312	+	890.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012396, intron 1 of 5)	CpG	823.0	NM_001012396	30963.0	Mm.241205	NM_013935	ENSMUSG00000063275	Hacd1	Ptpla	3-hydroxyacyl-CoA dehydratase 1	protein-coding	10.5	13.0	20.0	166.5	35.5	13.0	9.0	16.0
Merged-chr8-4325187-4	chr8	4325099	4325299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010485)	promoter-TSS (NM_010485)	-11.0	NR_033527	20300.0	Mm.7275	NM_009138	ENSMUSG00000023235	Ccl25	A130072A22Rik|AI852536|CKb15|Scya25|TECK	chemokine (C-C motif) ligand 25	protein-coding	240.0	340.5	203.5	3645.0	580.0	216.5	330.5	202.0
Merged-chr6-39810949-4	chr6	39810853	39811053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001010930)	promoter-TSS (NM_001010930)	-17.0	NM_001010930	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	136.0	191.5	118.5	2290.0	343.0	115.5	187.5	146.5
Merged-chr19-37172925-4	chr19	37172823	37173023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045329)	promoter-TSS (NR_045329)	-920.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	30.0	37.5	29.5	843.5	45.0	21.5	29.0	27.0
Merged-chr9-85326716-6	chr9	85326646	85326846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001160378, exon 2 of 3)	exon (NM_001160378, exon 2 of 3)	378.0	NM_001160378	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	35.5	78.5	48.0	521.0	123.5	45.0	47.5	40.0
Merged-chr6-124508578-4	chr6	124508490	124508690	+	830.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181344, exon 6 of 6)	exon (NM_181344, exon 6 of 6)	-4031.0	NM_023143	50909.0	Mm.333375	NM_023143	ENSMUSG00000055172	C1ra	AI132558|C1r|mC1rA	complement component 1, r subcomponent A	protein-coding	9.5	10.5	5.0	133.0	25.0	11.0	5.5	9.5
Merged-chr4-49688768-4	chr4	49688688	49688888	+	678.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033351, intron 6 of 8)	intron (NM_001033351, intron 6 of 8)	-6805.0	NM_001004025	19059.0	Mm.46125	NM_001004025	ENSMUSG00000028310	Ppp3r2	CaNB2|CnB2	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type II)	protein-coding	5.0	14.0	4.5	143.5	24.0	11.0	17.0	11.0
Merged-chr8-69089510-4	chr8	69089397	69089597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153054)	promoter-TSS (NM_153054)	-275.0	NM_153054	110877.0	Mm.19301	NM_153054	ENSMUSG00000036330	Slc18a1	4832416I10Rik|Vat1|Vmat1	solute carrier family 18 (vesicular monoamine), member 1	protein-coding	22.5	54.5	33.0	422.0	60.0	19.5	25.0	19.5
Merged-chr16-33191072-3	chr16	33190864	33191064	+	912.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176840, intron 1 of 12)	intron (NM_176840, intron 1 of 12)	5893.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	3.5	1.0	12.5	58.0	4.5	5.5	8.0	4.5
Merged-chr7-3646053-5	chr7	3645917	3646117	+	907.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146176, intron 1 of 17)	intron (NM_146176, intron 1 of 17)	748.0	NM_146176	232791.0	Mm.358731	NM_146176	ENSMUSG00000035632	Cnot3	A930039N10Rik	CCR4-NOT transcription complex, subunit 3	protein-coding	2.5	2.5	7.0	23.5	14.5	6.0	6.5	15.0
Merged-chr9-35056807-4	chr9	35056694	35056894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-59934.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	52.5	66.5	51.5	698.5	140.0	52.0	59.5	47.0
Merged-chr10-85367104-3	chr10	85367006	85367206	+	737.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-19708.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	0.0	1.0	0.0	7.0	26.5	19.5	38.0	23.5
Merged-chr1-80757031-4	chr1	80756944	80757144	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	1509.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	35.0	56.0	24.0	526.5	63.0	22.5	15.0	23.0
Merged-chr2-130178927-3	chr2	130178721	130178921	+	898.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009225, intron 1 of 6)	CpG	543.0	NM_009225	20638.0	Mm.88216	NM_009225	ENSMUSG00000027404	Snrpb	AL024368|AU018828|SM-B|SM11|SMB|SNRNP-B	small nuclear ribonucleoprotein B	protein-coding	4.0	9.5	4.5	147.5	36.0	13.0	15.5	12.5
Merged-chr2-173528748-4	chr2	173528646	173528846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028158)	TTS (NM_028158)	6154.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	26.5	24.0	21.0	334.0	63.5	19.5	27.5	33.0
Merged-chr10-80034200-4	chr10	80034074	80034274	+	958.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	5485.0	NM_025554	66420.0	Mm.18579	NM_025554	ENSMUSG00000004667	Polr2e	2410021N14Rik|25kDa|AW208866|RPB5|XAP4	polymerase (RNA) II (DNA directed) polypeptide E	protein-coding	29.5	78.0	16.0	247.5	95.0	38.0	17.5	14.0
Merged-chr7-46958518-4	chr7	46958461	46958661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040695)	promoter-TSS (NM_001040695)	-43.0	NM_001040695	54122.0	Mm.1999	NM_016855	ENSMUSG00000043262	Uevld	8430408E05Rik|Attp	UEV and lactate/malate dehyrogenase domains	protein-coding	82.0	60.0	56.5	656.5	105.0	43.0	40.0	34.0
Merged-chr2-104122726-4	chr2	104122612	104122812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026634)	promoter-TSS (NM_026634)	-57.0	NM_026634	68243.0	Mm.158191	NM_026634	ENSMUSG00000032671	A930018P22Rik	-	RIKEN cDNA A930018P22 gene	protein-coding	95.0	122.0	84.5	1438.0	192.5	73.0	101.5	62.5
Merged-chr9-106373092-4	chr9	106372958	106373158	+	838.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153459, intron 2 of 2)	intron (NM_153459, intron 2 of 2)	4426.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	3.0	13.5	5.0	82.0	16.5	5.5	9.0	12.0
Merged-chr10-76345375-4	chr10	76345280	76345480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081419)	promoter-TSS (NM_001081419)	-89.0	NM_001081419	64451.0	Mm.33183	NM_001081419	ENSMUSG00000020231	Dip2a	4931420H10Rik|AI426328|Dip2|Kiaa0184-hp|mKIAA0184	disco interacting protein 2 homolog A	protein-coding	103.0	126.5	67.5	1631.5	315.5	104.0	131.0	102.5
Merged-chr2-83682831-1	chr2	83682731	83682931	+	560.5	f0_c57.idr	Intergenic	Intergenic	38253.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	1.0	0.0	0.0	9.5	21.0	5.0	11.0	10.5
Merged-chr5-30888058-4	chr5	30887967	30888167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_122117)	promoter-TSS (NR_122117)	-785.0	NM_174849	231093.0	Mm.440364	NM_174849	ENSMUSG00000029165	Agbl5	9430057O19Rik|CCP5	ATP/GTP binding protein-like 5	protein-coding	76.5	126.5	62.5	998.0	174.5	77.5	41.0	83.0
Merged-chr1-151500972-4	chr1	151500879	151501079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011277)	promoter-TSS (NM_011277)	12.0	NM_001360845	19821.0	Mm.474038	NM_011277	ENSMUSG00000026484	Rnf2	AI326319|AI450156|AU019207|Ring1B|dinG	ring finger protein 2	protein-coding	170.0	235.5	148.0	2465.5	308.5	175.0	166.0	137.5
Merged-chr17-69144544-4	chr17	69144471	69144671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	-12173.0	NM_013813	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	21.5	45.0	68.5	1127.0	65.0	9.0	33.0	25.0
Merged-chr11-113751870-4	chr11	113751775	113751975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020006)	promoter-TSS (NM_020006)	-60.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	54.5	100.5	46.0	818.0	173.0	59.5	88.5	63.0
Merged-chr14-55015820-1	chr14	55015720	55015920	+	706.0	f1_balb.idr	intron (NM_026890, intron 1 of 10)	intron (NM_026890, intron 1 of 10)	366.0	NM_026890	68966.0	Mm.21214	NM_026890	ENSMUSG00000022204	Ngdn	1500001L15Rik|Ngd|neuroguidin	neuroguidin, EIF4E binding protein	protein-coding	8.5	20.0	9.5	130.0	23.5	10.5	14.5	21.5
Merged-chr6-112752157-4	chr6	112752049	112752249	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 12 of 21)	intron (NM_080448, intron 12 of 21)	-55479.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	35.5	48.5	23.0	524.0	63.0	22.0	15.5	31.5
Merged-chr5-114380668-7	chr5	114380613	114380813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026145)	promoter-TSS (NM_026145)	93.0	NR_138602	117146.0	Mm.28792	NM_054093	ENSMUSG00000029577	Ube3b	AI449831|AU020130	ubiquitin protein ligase E3B	protein-coding	17.5	22.0	35.0	262.5	25.5	14.5	14.5	18.5
Merged-chr5-77265600-3	chr5	77265502	77265702	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011263, exon 1 of 4)	5' UTR (NM_011263, exon 1 of 4)	108.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	27.0	18.5	55.5	290.5	39.0	24.5	33.5	22.0
Merged-chr1-180330405-4	chr1	180330302	180330502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081175)	promoter-TSS (NM_001081175)	-74.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	84.0	118.0	78.5	1177.5	163.0	86.0	73.5	77.0
Merged-chr17-35241120-4	chr17	35241032	35241232	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019693)	promoter-TSS (NM_019693)	-614.0	NM_019693	53817.0	Mm.439827	NM_019693	ENSMUSG00000019432	Ddx39b	0610030D10Rik|AI428441|Bat-1|Bat1|Bat1a|D17H6S81E|D17H6S81E-1|D6S81Eh	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B	protein-coding	33.0	33.5	10.0	163.0	79.5	32.0	20.5	16.0
Merged-chr3-51789623-4	chr3	51789540	51789740	+	885.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	128461.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	13.5	17.5	14.0	227.0	25.0	7.5	9.5	9.5
Merged-chr5-143052059-3	chr5	143051975	143052175	+	864.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	60945.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	8.5	18.5	7.5	45.0	71.5	14.0	7.5	13.0
Merged-chr2-94436237-3	chr2	94436133	94436333	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007466, intron 1 of 13)	(CA)n|Simple_repeat|Simple_repeat	1953.0	NM_007466	11800.0	Mm.181824	NM_007466	ENSMUSG00000027193	Api5	AAC-11|AI196452|API-5	apoptosis inhibitor 5	protein-coding	21.0	9.0	12.5	110.5	15.0	9.5	14.0	14.0
Merged-chr3-31445646-3	chr3	31445542	31445742	+	916.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-135323.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	9.0	22.5	8.0	217.5	18.0	9.0	7.5	5.5
Merged-chr6-48435849-3	chr6	48435745	48435945	+	697.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001085415)	TTS (NM_001085415)	9245.0	NM_001085415	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	6.0	7.5	8.0	43.0	20.5	3.0	8.5	16.5
Merged-chr16-55686641-4	chr16	55686535	55686735	+	930.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135503.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	19.5	24.5	4.0	180.5	33.5	13.5	11.5	12.0
Merged-chr4-9027997-4	chr4	9027897	9028097	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-241296.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	14.5	24.5	15.0	268.5	38.0	16.0	15.5	21.5
Merged-chr9-31446125-3	chr9	31446029	31446229	+	975.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144936, intron 1 of 5)	intron (NM_144936, intron 1 of 5)	18109.0	NM_144936	235135.0	Mm.390134	NM_144936	ENSMUSG00000041737	Tmem45b	BC018222	transmembrane protein 45b	protein-coding	12.0	21.5	23.0	655.0	6.5	4.0	5.5	6.0
Merged-chr2-103797428-7	chr2	103797345	103797545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111290)	promoter-TSS (NM_001111290)	195.0	NM_001111291	53872.0	Mm.427589	NM_016739	ENSMUSG00000027184	Caprin1	AL022980|Caprin-1|Gpiap|Gpiap1|Mmgpip137|P137|rng105	cell cycle associated protein 1	protein-coding	54.5	77.0	81.5	870.5	131.0	43.0	43.0	64.5
Merged-chr8-33666409-1	chr8	33666309	33666509	+	1000.0	f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	13171.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	0.0	0.5	0.0	9.0	29.0	4.5	9.5	11.0
Merged-chr17-25833010-4	chr17	25832900	25833100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019719, exon 1 of 7)	5' UTR (NM_019719, exon 1 of 7)	361.0	NM_019719	56424.0	Mm.277599	NM_019719	ENSMUSG00000039615	Stub1	0610033N24Rik|2210017D18Rik|2310040B03Rik|AW046544|Chip	STIP1 homology and U-Box containing protein 1	protein-coding	173.0	290.5	151.5	2363.5	476.5	246.0	232.5	195.5
Merged-chr10-68125193-4	chr10	68125086	68125286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 7 of 9)	intron (NM_023598, intron 7 of 9)	145616.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	109.0	87.5	101.0	1671.0	141.0	48.0	90.5	60.0
Merged-chr15-7876088-2	chr15	7875988	7876188	+	965.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081402, intron 17 of 17)	intron (NM_001081402, intron 17 of 17)	60538.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	7.5	6.5	5.0	123.5	0.0	4.0	1.0	2.0
Merged-chr6-134671040-4	chr6	134670967	134671167	+	912.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 2 of 3)	intron (NM_001170479, intron 2 of 3)	30127.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	13.5	7.5	12.5	126.0	20.0	3.5	10.5	4.5
Merged-chr8-104028871-4	chr8	104028774	104028974	+	808.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72751.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	7.0	13.0	6.0	116.0	17.0	8.5	13.0	3.0
Merged-chr7-16250937-4	chr7	16250845	16251045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	URR1B|DNA|hAT-Charlie	-6791.0	NM_176912	319430.0	Mm.239570	NM_176912	ENSMUSG00000074361	C5ar2	C5L2|E030029A11Rik|Gpr77	complement component 5a receptor 2	protein-coding	42.5	62.0	45.0	675.5	58.5	23.5	28.5	24.0
Merged-chr9-99517653-4	chr9	99517524	99517724	+	852.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001166138)	TTS (NM_001166138)	47203.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	13.5	7.5	11.0	177.5	26.5	5.0	16.0	5.0
Merged-chr15-84986737-4	chr15	84986649	84986849	+	995.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	1222.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	15.5	20.0	6.5	235.5	56.5	19.0	22.0	20.5
Merged-chr4-132796363-4	chr4	132796281	132796481	+	973.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033308)	promoter-TSS (NM_001033308)	-17.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	13.0	39.5	13.0	212.5	66.0	13.0	32.0	28.5
Merged-chr2-159992446-4	chr2	159992356	159992556	+	902.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24197.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	28.5	13.5	9.0	205.0	25.5	14.5	15.0	11.5
Merged-chr6-135977063-4	chr6	135976926	135977126	+	913.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008171, intron 4 of 14)	intron (NM_008171, intron 4 of 14)	196485.0	NM_008171	14812.0	Mm.436649	NM_008171	ENSMUSG00000030209	Grin2b	AW490526|GluN2B|NR2B|Nmdar2b	glutamate receptor, ionotropic, NMDA2B (epsilon 2)	protein-coding	1.5	8.0	6.0	103.0	72.5	21.0	33.5	39.5
Merged-chr17-17973645-3	chr17	17973515	17973715	+	801.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3157.0	NM_008042	14294.0	Mm.378918	NM_008042	ENSMUSG00000079700	Fpr3	ALX|Fpr-rs1|Fpr-s1|Fprl1|LXA4-R|Lxa4r	formyl peptide receptor 3	protein-coding	6.0	7.5	6.0	74.5	11.5	5.5	5.5	11.5
Merged-chr18-64929746-3	chr18	64929619	64929819	+	844.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	41963.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	10.0	8.0	9.5	153.0	5.5	2.5	8.0	7.5
Merged-chr11-61861187-4	chr11	61861088	61861288	+	920.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie1a|DNA|hAT-Charlie	-6096.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	6.0	29.0	4.5	166.0	33.5	20.0	18.0	17.5
Merged-chr5-142376263-4	chr5	142376166	142376366	+	872.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25231.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	25.5	13.5	9.5	245.5	32.5	10.0	17.0	12.5
Merged-chr5-101765103-4	chr5	101764977	101765177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173370)	promoter-TSS (NM_173370)	-53.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	99.5	134.5	71.5	1188.0	224.5	100.0	113.0	92.5
Merged-chr8-86862451-7	chr8	86862359	86862559	+	964.371399	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	22799.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	6.0	20.5	14.5	122.0	23.0	5.5	6.0	13.0
Merged-chr1-127278235-4	chr1	127278147	127278347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 2 of 17)	intron (NM_145128, intron 2 of 17)	73261.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	36.0	30.0	20.0	471.5	60.5	24.5	27.0	34.0
Merged-chr12-4366170-3	chr12	4366079	4366279	+	892.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010881, intron 2 of 22)	ORR1E|LTR|ERVL-MaLR	111003.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	13.5	17.5	17.5	245.5	22.0	5.0	8.5	16.0
Merged-chr16-33546565-4	chr16	33546464	33546664	+	876.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 3 of 11)	intron (NM_001083902, intron 3 of 11)	27969.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	10.5	12.0	43.5	495.0	35.5	12.0	15.0	6.0
Merged-chr18-9735017-4	chr18	9734900	9735100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	27352.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	87.0	110.0	85.5	1419.0	111.5	68.0	62.5	54.0
Merged-chr15-74923617-4	chr15	74923510	74923710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31441.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	26.5	43.5	32.5	540.5	139.5	39.5	66.0	45.5
Merged-chr14-52141402-4	chr14	52141291	52141491	+	930.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023879, intron 14 of 24)	intron (NM_023879, intron 14 of 24)	30488.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	9.5	15.5	6.5	171.5	34.0	16.5	15.0	10.5
Merged-chr13-42576107-6	chr13	42575937	42576137	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104762.0	NM_001302635	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	1.0	10.0	8.0	49.0	27.0	4.5	6.5	6.5
Merged-chr14-27190347-3	chr14	27190249	27190449	+	923.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	intron (NM_001289686, intron 2 of 12)	46356.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	10.5	9.0	12.5	245.5	17.0	2.0	8.5	7.5
Merged-chr3-104864460-4	chr3	104864362	104864562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355044)	promoter-TSS (NM_001355044)	43.0	NM_009797	12340.0	Mm.19142	NM_009797	ENSMUSG00000070372	Capza1	CAPZ|CAZ1|Cappa1|capZ alpha-1	capping protein (actin filament) muscle Z-line, alpha 1	protein-coding	58.5	101.5	47.0	775.5	199.5	75.5	59.0	57.5
Merged-chr2-127339133-3	chr2	127339060	127339260	+	764.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010090)	TTS (NM_010090)	521.0	NM_172539	215095.0	Mm.31313	NM_172539	ENSMUSG00000050468	Astl	7420700F21|C87576|Sas1b	astacin-like metalloendopeptidase (M12 family)	protein-coding	8.0	19.5	7.5	33.5	34.0	8.5	4.5	6.0
Merged-chr19-12011089-4	chr19	12010965	12011165	+	936.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25675.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	19.0	39.0	11.5	197.5	29.0	12.0	12.5	21.5
Merged-chr7-125496012-4	chr7	125495871	125496071	+	861.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4429.0	NM_026330	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	12.0	15.0	10.0	172.0	19.5	5.5	8.0	7.0
Merged-chr19-42000081-4	chr19	42000006	42000206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	MIR|SINE|MIR	18343.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	53.5	84.0	77.0	942.5	83.5	46.5	55.5	44.0
Merged-chr11-68867338-4	chr11	68867239	68867439	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14208.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	26.5	29.5	16.5	367.5	59.0	22.0	20.5	34.5
Merged-chr11-5061910-4	chr11	5061798	5061998	+	813.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144560, intron 6 of 6)	CpG	3429.0	NM_144560	78926.0	Mm.44591	NM_030228	ENSMUSG00000034201	Gas2l1	4930500E24Rik|D0Jmb1|Gar22|TU-71.1	growth arrest-specific 2 like 1	protein-coding	15.5	15.0	7.5	33.5	26.5	3.0	4.5	5.0
Merged-chr1-107589978-4	chr1	107589891	107590091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011459)	promoter-TSS (NM_011459)	-15.0	NM_011459	20725.0	Mm.83909	NM_011459	ENSMUSG00000026315	Serpinb8	CAP-2|CAP2|NK10|Spi8|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 8	protein-coding	47.5	44.0	25.5	487.5	103.5	40.5	62.0	33.5
Merged-chr6-115814255-4	chr6	115814127	115814327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110506, intron 7 of 8)	intron (NM_001110506, intron 7 of 8)	-5484.0	NM_172086	19951.0	Mm.104368	NM_172086	ENSMUSG00000057841	Rpl32	AU020185|rpL32-3A	ribosomal protein L32	protein-coding	29.5	52.0	24.0	597.5	81.5	25.5	19.5	23.0
Merged-chr13-59906392-4	chr13	59906293	59906493	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-83246.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	19.0	40.0	36.0	674.5	79.0	23.0	40.0	41.0
Merged-chr15-34342825-1	chr15	34342725	34342925	+	827.0	f0_balb.idr	intron (NM_001358780, intron 2 of 18)	intron (NM_001358780, intron 2 of 18)	15047.0	NM_001256161	77358.0	Mm.402759	NM_001256161	ENSMUSG00000094447	9430069I07Rik	-	RIKEN cDNA 9430069I07 gene	protein-coding	6.5	15.0	10.5	187.0	6.0	0.0	4.0	0.0
Merged-chr17-65735224-2	chr17	65735124	65735324	+	704.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	L1MA6|LINE|L1	37528.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	5.5	12.0	5.0	56.5	13.0	5.0	1.0	3.5
Merged-chr13-60712699-2	chr13	60712604	60712804	+	845.5	f0_balb.idr|f1_balb.idr	intron (NM_134062, intron 3 of 26)	MER58A|DNA|hAT-Charlie	73660.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	11.0	20.5	14.0	202.5	7.0	1.5	3.0	1.0
Merged-chr7-90035642-2	chr7	90035542	90035742	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 1 of 5)	B3|SINE|B2	6483.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	2.0	14.0	0.0	47.5	20.5	5.5	7.0	9.5
Merged-chr18-64489089-4	chr18	64488998	64489198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348055)	promoter-TSS (NM_001348055)	0.0	NM_007998	14151.0	Mm.1070	NM_007998	ENSMUSG00000024588	Fech	AI894116|Fcl|fch	ferrochelatase	protein-coding	205.5	226.5	209.5	3104.0	432.5	158.0	193.5	119.0
Merged-chr4-155491278-4	chr4	155491198	155491398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160017)	promoter-TSS (NM_001160017)	-63.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	69.0	82.5	42.5	509.5	166.5	78.0	52.0	65.0
Merged-chr8-71495130-4	chr8	71495019	71495219	+	973.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7016.0	NM_032544	70359.0	Mm.142112	NM_032544	ENSMUSG00000007610	Gtpbp3	2410009F13Rik|AI607903	GTP binding protein 3	protein-coding	7.5	29.0	8.5	130.5	61.0	23.0	22.0	31.5
Merged-chr7-75609903-7	chr7	75609792	75609992	+	962.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029332, exon 7 of 37)	exon (NM_029332, exon 7 of 37)	154358.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	10.0	13.0	13.5	170.0	15.0	7.0	7.0	13.0
Merged-chr15-73067621-4	chr15	73067529	73067729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6425.0	NM_001164643	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	360.5	566.5	487.5	4853.0	928.0	343.5	461.5	356.5
Merged-chr11-114858844-3	chr11	114858746	114858946	+	776.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147217, intron 1 of 3)	intron (NM_147217, intron 1 of 3)	6816.0	NM_147217	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	6.5	17.5	3.0	54.5	38.5	6.5	15.5	16.0
Merged-chr11-3676610-3	chr11	3676524	3676724	+	912.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198162, intron 8 of 25)	intron (NM_198162, intron 8 of 25)	17924.0	NM_198162	74522.0	Mm.139127	NM_198162	ENSMUSG00000034543	Morc2a	8430403M08Rik|Zcwcc1	microrchidia 2A	protein-coding	10.0	12.5	10.0	101.0	18.0	7.5	19.0	13.5
Merged-chr6-87812641-4	chr6	87812529	87812729	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104478)	promoter-TSS (NR_104478)	-465.0	NR_104478	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	14.0	20.5	12.0	300.0	46.0	14.5	12.0	17.0
Merged-chr15-38693374-4	chr15	38693252	38693452	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025494)	TTS (NM_025494)	31448.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	17.5	15.0	20.0	279.0	33.0	8.5	3.0	5.0
Merged-chr17-28433236-4	chr17	28433134	28433334	+	938.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 3 of 10)	B4A|SINE|B4	52915.0	NM_010220	14229.0	Mm.276405	NM_010220	ENSMUSG00000024222	Fkbp5	D17Ertd592e|Dit1|FKBP-5|FKBP51	FK506 binding protein 5	protein-coding	21.5	14.0	19.0	333.0	31.5	12.5	22.5	16.5
Merged-chr3-14611346-4	chr3	14611247	14611447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347206)	promoter-TSS (NM_001347206)	-91.0	NM_001099674	69126.0	Mm.389020	NM_001099674	ENSMUSG00000078784	1810022K09Rik	AI746582|AL023036	RIKEN cDNA 1810022K09 gene	protein-coding	377.0	572.0	339.0	6535.0	823.0	295.0	519.0	327.0
Merged-chr5-105626397-4	chr5	105626304	105626504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73565.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	32.5	48.0	32.0	304.5	83.5	25.0	30.0	52.0
Merged-chr7-68059963-3	chr7	68059862	68060062	+	909.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	107705.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	2.5	5.5	8.0	224.5	13.5	7.5	8.0	5.0
Merged-chr5-105395411-4	chr5	105395297	105395497	+	836.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20378.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	10.0	20.0	15.0	147.5	43.5	10.5	7.0	12.0
Merged-chr11-114260504-2	chr11	114260404	114260604	+	779.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	62246.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	5.0	1.5	4.0	53.0	15.0	9.0	13.0	5.0
Merged-chr16-92869847-4	chr16	92869755	92869955	+	869.9250490000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43781.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	18.5	13.0	11.5	269.0	55.5	12.5	18.5	15.0
Merged-chr2-162922315-2	chr2	162922215	162922415	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9193.0	NM_026499	67996.0	Mm.24042	NM_026499	ENSMUSG00000016921	Srsf6	1210001E11Rik|AI314910|AW146126|Sfrs6	serine/arginine-rich splicing factor 6	protein-coding	8.5	7.0	0.5	80.5	21.0	5.0	6.5	9.5
Merged-chr8-119356841-2	chr8	119356741	119356941	+	917.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	12303.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	3.5	11.5	4.0	37.5	20.5	8.5	6.5	6.5
Merged-chr16-18348171-4	chr16	18348093	18348293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272029)	promoter-TSS (NM_001272029)	11.0	NM_001272029	11877.0	Mm.293599	NM_033474	ENSMUSG00000000325	Arvcf	-	armadillo repeat gene deleted in velocardiofacial syndrome	protein-coding	85.0	102.0	83.5	1614.5	166.5	47.5	85.5	47.0
Merged-chr3-8968816-4	chr3	8968712	8968912	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-4666.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	28.0	20.0	31.0	517.0	79.5	16.0	21.0	35.0
Merged-chr1-86363912-4	chr1	86363815	86364015	+	844.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015507, intron 1 of 1)	B2_Mm2|SINE|B2	4341.0	NR_015507	319336.0	Mm.389155	NR_015507	ENSMUSG00000073627	C130036L24Rik	-	RIKEN cDNA C130036L24 gene	ncRNA	11.0	23.0	8.5	109.5	21.0	12.5	17.5	7.0
Merged-chr9-53700970-2	chr9	53700870	53701070	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	intron (NM_175562, intron 1 of 1)	5262.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	17.0	27.5	31.5	445.0	63.0	20.0	26.0	28.5
Merged-chr7-80766217-4	chr7	80766097	80766297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 4 of 37)	intron (NM_016721, intron 4 of 37)	37134.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	50.5	93.5	30.5	393.5	100.0	41.0	19.0	24.5
Merged-chr8-79168143-3	chr8	79168035	79168235	+	980.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	intron (NM_001294279, intron 8 of 14)	80448.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	24.0	12.0	24.0	811.5	17.5	8.0	19.0	9.0
Merged-chr2-32566892-3	chr2	32566778	32566978	+	788.43335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153560, intron 10 of 10)	intron (NM_153560, intron 10 of 10)	-3980.0	NM_010073	13481.0	Mm.22001	NM_010073	ENSMUSG00000026810	Dpm2	AW557993|R75484	dolichol-phosphate (beta-D) mannosyltransferase 2	protein-coding	3.5	13.0	3.0	63.0	21.5	8.5	6.5	10.0
Merged-chr2-79253503-4	chr2	79253406	79253606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1920.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	27.5	57.5	34.0	490.0	89.5	46.5	42.5	26.5
Merged-chr13-43795684-4	chr13	43795610	43795810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	10598.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	33.0	36.5	44.0	627.0	85.5	16.5	56.0	59.5
Merged-chr11-78165571-4	chr11	78165462	78165662	+	969.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009423)	promoter-TSS (NM_009423)	-12.0	NM_009423	22032.0	Mm.390418	NM_009423	ENSMUSG00000017386	Traf4	A530032M13Rik|CART1|msp2	TNF receptor associated factor 4	protein-coding	27.5	26.5	11.0	262.0	74.5	45.5	32.0	16.5
Merged-chr3-159495895-2	chr3	159495795	159495995	+	552.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001172092, intron 1 of 11)	intron (NM_001172092, intron 1 of 11)	462.0	NM_001172092	76131.0	Mm.371655	NM_029523	ENSMUSG00000028175	Depdc1a	5830484J08Rik|Depdc1	DEP domain containing 1a	protein-coding	6.5	4.5	6.0	63.0	9.0	2.0	4.0	8.0
Merged-chr7-135654571-4	chr7	135654402	135654602	+	825.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316681, intron 3 of 17)	intron (NM_001316681, intron 3 of 17)	-2188.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	7.0	6.5	5.5	122.5	18.5	6.5	4.5	12.0
Merged-chr18-24121728-7	chr18	24121615	24121815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172625, exon 1 of 5)	exon (NM_172625, exon 1 of 5)	104.0	NM_172625	225280.0	Mm.258973	NM_172625	ENSMUSG00000047989	Ino80c	D030070L09Rik	INO80 complex subunit C	protein-coding	37.5	67.0	63.5	376.5	112.0	57.0	53.5	51.0
Merged-chr11-98955286-4	chr11	98955187	98955387	+	891.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 2 of 8)	intron (NM_009024, intron 2 of 8)	-5184.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	11.5	8.5	11.5	177.0	33.0	7.5	10.0	16.0
Merged-chr19-34244236-3	chr19	34244167	34244367	+	908.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007392, intron 7 of 8)	intron (NM_007392, intron 7 of 8)	11106.0	NM_007392	11475.0	Mm.213025	NM_007392	ENSMUSG00000035783	Acta2	0610041G09Rik|Actvs|SMAalpha|SMalphaA|a-SMA|alphaSMA	actin, alpha 2, smooth muscle, aorta	protein-coding	7.5	7.0	4.5	66.5	70.0	14.5	21.0	27.5
Merged-chr1-82793297-4	chr1	82793188	82793388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24832.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	49.0	46.0	56.0	623.5	94.0	35.5	26.5	54.5
Merged-chr1-86444208-4	chr1	86444097	86444297	+	859.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17868.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	10.5	14.0	6.0	222.0	27.5	5.5	7.5	10.5
Merged-chr9-45312019-4	chr9	45311909	45312109	+	897.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7091.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	6.0	11.5	2.5	166.5	50.0	10.5	18.0	20.5
Merged-chr8-3515935-2	chr8	3515835	3516035	+	929.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359123)	promoter-TSS (NM_001359123)	551.0	NM_015801	50767.0	Mm.23085	NM_015801	ENSMUSG00000004565	Pnpla6	AI661849|MSws|Nte	patatin-like phospholipase domain containing 6	protein-coding	7.5	4.0	9.0	100.0	18.5	6.5	10.5	11.0
Merged-chr8-122678494-6	chr8	122678332	122678532	+	748.377808	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177289)	promoter-TSS (NM_177289)	-257.0	NM_177289	12398.0	Mm.194339	NM_009824	ENSMUSG00000006362	Cbfa2t3	A630044F12Rik|AI465270|AW229127|Cbfa2t3h|ETO-2|Eto2|MTGR2	core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human)	protein-coding	1.5	1.0	3.5	43.5	13.5	11.0	5.0	9.0
Merged-chr17-80445854-6	chr17	80445710	80445910	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009231, intron 6 of 21)	intron (NM_009231, intron 6 of 21)	34643.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	6.0	5.5	8.0	103.5	25.0	10.0	8.0	8.0
Merged-chr16-20088002-4	chr16	20087912	20088112	+	917.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9542.0	NM_029436	75785.0	Mm.392450	NM_029436	ENSMUSG00000062901	Klhl24	1110046J11Rik|4930429H24Rik|6530402O20Rik|C85082	kelch-like 24	protein-coding	14.5	14.0	5.5	152.5	48.0	12.0	15.5	12.5
Merged-chr15-80258856-1	chr15	80258756	80258956	+	1000.0	f1_balb.idr	Intergenic	Intergenic	3672.0	NM_009716	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	5.0	19.0	6.0	19.5	12.0	3.5	1.5	6.5
Merged-chr6-15729421-1	chr6	15729321	15729521	+	955.6666869999999	f0_balb.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	8760.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	15.0	21.0	20.0	224.0	19.5	9.5	3.0	4.5
Merged-chr12-79131603-2	chr12	79131503	79131703	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 1 of 7)	intron (NM_009705, intron 1 of 7)	815.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	5.5	9.0	1.0	126.0	20.5	7.0	6.5	5.0
Merged-chr1-165682642-4	chr1	165682551	165682751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	25443.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	39.0	49.0	63.0	1050.5	78.5	23.5	61.0	33.0
Merged-chr6-148578281-1	chr6	148578181	148578381	+	1000.0	f0_c57.idr	Intergenic	MLT2B2|LTR|ERVL	36028.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	22.5	17.0	17.0	182.0	42.5	18.5	31.0	21.5
Merged-chr10-39731950-4	chr10	39731825	39732025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038037)	promoter-TSS (NR_038037)	82.0	NR_038037	327744.0	Mm.295265	NM_183198	ENSMUSG00000087177	E130307A14Rik	-	RIKEN cDNA E130307A14 gene	ncRNA	80.0	151.5	99.0	1290.0	357.0	126.5	144.5	120.0
Merged-chr11-52396694-7	chr11	52396660	52396860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153117, intron 1 of 2)	CpG	332.0	NM_153117	213673.0	Mm.291979	NM_153117	ENSMUSG00000036275	9530068E07Rik	C85061|Kct2	RIKEN cDNA 9530068E07 gene	protein-coding	30.0	60.0	21.0	290.0	104.5	41.5	36.5	48.0
Merged-chr10-24636142-4	chr10	24636044	24636244	+	964.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40702.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	31.0	29.0	18.0	367.5	65.5	19.0	19.5	13.0
Merged-chr7-80198436-4	chr7	80198346	80198546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360135)	promoter-TSS (NM_001360135)	5.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	58.0	73.0	61.5	1225.5	134.5	43.0	58.5	56.0
Merged-chr5-138231669-3	chr5	138231569	138231769	+	964.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013773, intron 2 of 5)	intron (NM_001013773, intron 2 of 5)	5765.0	NM_001013773	381680.0	Mm.156846	NM_001013773	ENSMUSG00000047592	Nxpe5	-	neurexophilin and PC-esterase domain family, member 5	protein-coding	21.5	20.5	9.5	251.0	24.5	7.5	5.0	8.0
Merged-chr13-119488009-4	chr13	119487931	119488131	+	936.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039244)	promoter-TSS (NM_001039244)	-8.0	NM_001039244	633640.0	Mm.46679	NM_001039244	ENSMUSG00000074634	Tmem267	EG633640|Gm7120	transmembrane protein 267	protein-coding	23.0	13.0	11.5	331.0	32.0	7.5	21.5	20.5
Merged-chr17-17890272-4	chr17	17890154	17890354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008039, intron 1 of 1)	intron (NM_008039, intron 1 of 1)	2430.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	31.0	31.5	23.0	429.5	63.5	31.5	25.5	24.5
Merged-chr9-61946055-4	chr9	61945966	61946166	+	931.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024245, intron 1 of 22)	intron (NM_024245, intron 1 of 22)	733.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	13.5	17.5	16.5	270.0	42.0	15.5	12.5	26.5
Merged-chr12-69241995-4	chr12	69241916	69242116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178253, intron 1 of 12)	CpG	184.0	NM_178253	271005.0	Mm.180969	NM_178253	ENSMUSG00000051890	Klhdc1	-	kelch domain containing 1	protein-coding	31.0	59.5	43.5	490.5	111.0	30.0	54.0	35.0
Merged-chr14-21986174-4	chr14	21986087	21986287	+	941.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145459, exon 3 of 3)	exon (NM_145459, exon 3 of 3)	3414.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	10.0	18.5	7.5	287.5	43.5	12.0	19.0	13.5
Merged-chr7-24817663-4	chr7	24817554	24817754	+	705.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1141.0	NR_045096	545936.0	Mm.376228	NR_045096	ENSMUSG00000011350	Gm5893	EG545936|Gm477	predicted gene 5893	pseudo	9.0	4.5	4.5	113.0	23.5	5.0	7.5	5.5
Merged-chr15-78589735-3	chr15	78589659	78589859	+	699.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7288.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	5.0	8.5	6.5	81.0	14.0	2.5	1.0	4.0
Merged-chr11-34771393-4	chr11	34771285	34771485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	12520.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	59.0	93.0	41.0	882.5	97.5	46.5	50.5	39.0
Merged-chr3-108726575-4	chr3	108726469	108726669	+	983.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-4270.0	NM_029522	76123.0	Mm.226941	NM_029522	ENSMUSG00000027883	Gpsm2	6230410J09Rik|LGN|Pins	G-protein signalling modulator 2 (AGS3-like, C. elegans)	protein-coding	20.0	31.5	22.5	263.5	44.0	15.5	11.0	30.0
Merged-chr4-141834708-4	chr4	141834645	141834845	+	850.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8740.0	NM_007919	13706.0	Mm.45316	NM_007919	ENSMUSG00000058579	Cela2a	Ela-2|Ela2|Ela2a	chymotrypsin-like elastase family, member 2A	protein-coding	11.5	13.0	7.5	210.5	47.0	10.0	11.5	19.5
Merged-chr19-55577604-4	chr19	55577513	55577713	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360432)	TTS (NM_001360432)	124591.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	6.0	12.0	8.0	144.5	42.0	9.5	12.0	21.0
Merged-chr11-79202702-3	chr11	79202616	79202816	+	793.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40308.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	9.5	23.0	16.5	56.0	13.0	8.5	5.5	6.0
Merged-chr1-36072110-4	chr1	36072018	36072218	+	991.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	3718.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	44.5	107.5	66.0	555.5	104.5	45.0	32.5	23.0
Merged-chr4-151108620-4	chr4	151108524	151108724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 11 of 23)	CpG	19054.0	NM_001308446	105704528.0	Mm.415128	NM_001308446	ENSMUSG00000078491	Gm13090	-	predicted gene 13090	protein-coding	37.0	50.5	34.5	557.5	64.0	39.5	38.0	25.5
Merged-chr2-24975151-4	chr2	24975038	24975238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146251)	promoter-TSS (NM_146251)	-40.0	NM_001031808	107733.0	Mm.23010	NM_001031808	ENSMUSG00000036850	Mrpl41	MRP-L27|Rpml27	mitochondrial ribosomal protein L41	protein-coding	327.5	499.0	369.5	4690.5	769.0	282.0	400.0	276.0
Merged-chr4-150673046-3	chr4	150672929	150673129	+	982.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20855.0	NM_173774	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	17.0	27.5	9.0	137.5	11.5	5.5	7.5	6.5
Merged-chr13-23683524-2	chr13	23683424	23683624	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290380)	promoter-TSS (NM_001290380)	435.0	NM_178189	319164.0	Mm.261973	NM_178189	ENSMUSG00000069270	Hist1h2ac	-	histone cluster 1, H2ac	protein-coding	13.5	24.0	9.0	69.0	47.0	8.5	8.5	27.0
Merged-chr13-41466386-4	chr13	41466291	41466491	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	20969.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	20.0	34.0	31.0	515.0	30.0	16.5	11.5	11.0
Merged-chr2-166750799-4	chr2	166750700	166750900	+	873.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36968.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	15.5	10.0	9.0	163.5	18.5	14.5	6.0	22.0
Merged-chr18-84951613-4	chr18	84951509	84951709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025969)	promoter-TSS (NM_025969)	-85.0	NM_025969	67105.0	Mm.250617	NM_025969	ENSMUSG00000024645	Timm21	1700034H14Rik|2700002I20Rik	translocase of inner mitochondrial membrane 21	protein-coding	240.0	351.5	225.5	4085.5	683.5	224.5	270.5	196.0
Merged-chr7-97171894-4	chr7	97171806	97172006	+	965.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	90155.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	13.5	32.0	15.0	422.5	59.0	27.0	17.0	25.0
Merged-chr9-55395870-4	chr9	55395764	55395964	+	961.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172923, intron 3 of 10)	intron (NM_172923, intron 3 of 10)	68951.0	NM_001357568	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	20.0	24.0	23.5	391.5	38.5	15.0	19.0	12.5
Merged-chr2-90631025-4	chr2	90630930	90631130	+	871.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46185.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	16.5	26.0	12.0	268.5	41.0	12.5	17.0	10.0
Merged-chr12-44292463-4	chr12	44292367	44292567	+	777.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026164, intron 5 of 9)	intron (NM_026164, intron 5 of 9)	23313.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	5.5	11.0	7.0	168.5	19.0	9.0	14.0	13.0
Merged-chr10-20655190-3	chr10	20655104	20655304	+	901.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	Lx8|LINE|L1	69874.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	4.5	11.5	7.5	85.0	8.5	6.5	4.5	6.0
Merged-chr13-36695977-4	chr13	36695871	36696071	+	906.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38506.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	1.5	3.5	5.5	134.5	73.5	18.5	24.0	34.0
Merged-chr8-13601283-4	chr8	13601192	13601392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 4 of 23)	L1MC|LINE|L1	-38831.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	23.0	40.5	36.0	520.5	69.0	20.5	28.5	40.5
Merged-chr8-72475205-4	chr8	72475107	72475307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138585)	promoter-TSS (NM_138585)	26.0	NM_001359024	27967.0	Mm.30136	NM_138585	ENSMUSG00000052488	Cherp	5730408I11Rik|D8Wsu96e|DAN16|Scaf6	calcium homeostasis endoplasmic reticulum protein	protein-coding	157.0	287.0	170.5	2313.0	586.5	252.5	232.5	207.0
Merged-chr12-16875475-4	chr12	16875372	16875572	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19506.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	32.5	89.0	23.0	397.0	104.0	33.5	49.5	17.5
Merged-chr1-93445588-4	chr1	93445479	93445679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133808, intron 1 of 27)	CpG	122.0	NM_001301364	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	85.0	200.0	111.5	938.5	307.5	133.5	89.0	88.5
Merged-chr8-66438690-4	chr8	66438590	66438790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 6 of 7)	intron (NM_175188, intron 6 of 7)	47840.0	NM_025465	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	70.5	39.0	99.5	994.5	118.5	46.5	78.0	49.5
Merged-chr16-3718563-2	chr16	3718463	3718663	+	834.916687	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161790)	promoter-TSS (NM_001161790)	-439.0	NM_001161791	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	2.0	7.5	5.0	30.0	10.5	9.0	9.0	5.5
Merged-chr13-42051684-4	chr13	42051544	42051744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007772)	promoter-TSS (NM_007772)	-377.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	178.0	285.0	166.5	1525.5	567.5	189.0	202.5	171.5
Merged-chr19-46961912-4	chr19	46961795	46961995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	CpG	456.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	41.5	67.5	40.5	697.0	118.5	26.5	37.0	27.5
Merged-chr11-120990537-4	chr11	120990467	120990667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027874, intron 1 of 9)	C-rich|Low_complexity|Low_complexity	766.0	NM_139059	104318.0	Mm.216227	NM_027874	ENSMUSG00000025162	Csnk1d	1200006A05Rik|AA409348|D930010H05Rik	casein kinase 1, delta	protein-coding	14.5	22.5	9.0	221.5	51.0	31.5	40.0	19.5
Merged-chr7-44305304-4	chr7	44305198	44305398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009131, intron 3 of 3)	intron (NM_009131, intron 3 of 3)	1661.0	NM_009131	20256.0	Mm.20428	NM_009131	ENSMUSG00000004473	Clec11a	AW457320|Clecsf3|Scgf	C-type lectin domain family 11, member a	protein-coding	146.0	203.5	119.0	1747.5	519.0	205.5	249.0	219.0
Merged-chr11-102438410-4	chr11	102438265	102438465	+	839.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_199200, exon 8 of 8)	exon (NM_199200, exon 8 of 8)	8043.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	5.0	11.0	4.5	105.5	27.5	6.5	2.0	10.0
Merged-chr17-5802259-4	chr17	5802161	5802361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045079, intron 2 of 2)	intron (NR_045079, intron 2 of 2)	2771.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	40.0	42.0	46.0	1077.0	83.5	31.0	30.5	40.5
Merged-chr6-83053802-4	chr6	83053678	83053878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007517)	promoter-TSS (NM_007517)	-743.0	NM_007517	11993.0	Mm.386752	NM_007517	ENSMUSG00000068328	Aup1	AA589454	ancient ubiquitous protein 1	protein-coding	27.5	92.0	26.0	327.0	139.0	46.5	45.5	24.5
Merged-chr12-112867500-4	chr12	112867393	112867593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6577.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	82.5	178.5	53.0	563.0	215.0	63.5	67.0	33.5
Merged-chr12-113000806-4	chr12	113000697	113000897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028193)	promoter-TSS (NM_028193)	-176.0	NM_028193	72308.0	Mm.196721	NM_028193	ENSMUSG00000011158	Brf1	2510002F24Rik|GTF3B|TAF3C|TAFIII90|TFIIIB90|mTFIIIB90	BRF1, RNA polymerase III transcription initiation factor 90 kDa subunit	protein-coding	228.0	351.5	168.5	2654.5	517.5	204.5	280.0	199.5
Merged-chr6-149342914-1	chr6	149342814	149343014	+	566.0	f0_c57.idr	Intergenic	RLTR45|LTR|ERVK	33500.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	4.0	9.0	5.0	27.5	19.0	9.5	6.0	18.0
Merged-chr19-3935223-4	chr19	3935118	3935318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161428)	promoter-TSS (NM_001161428)	32.0	NM_001161428	54445.0	Mm.262094	NM_019449	ENSMUSG00000036908	Unc93b1	Unc-93B1|Unc93b	unc-93 homolog B1 (C. elegans)	protein-coding	88.0	126.5	75.0	1185.5	180.5	78.5	99.0	71.5
Merged-chr2-139381869-3	chr2	139381767	139381967	+	918.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112046.0	NM_001356507	228677.0	Mm.100450	NM_175467	ENSMUSG00000039092	Sptlc3	C130053K05Rik	serine palmitoyltransferase, long chain base subunit 3	protein-coding	13.0	9.0	9.5	115.0	16.0	5.0	14.5	9.0
Merged-chr15-83350203-4	chr15	83350104	83350304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025445)	promoter-TSS (NM_025445)	43.0	NM_001357756	66251.0	Mm.258910	NM_025445	ENSMUSG00000054277	Arfgap3	0610009H19Rik|1810004P07Rik|1810035F16Rik|9130416J18Rik|Arfgap1	ADP-ribosylation factor GTPase activating protein 3	protein-coding	78.5	115.0	56.0	831.5	199.0	65.0	75.0	60.5
Merged-chr9-78587567-4	chr9	78587448	78587648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172773, intron 1 of 10)	intron (NM_172773, intron 1 of 10)	497.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	29.5	22.5	19.0	262.0	57.5	11.5	30.5	31.0
Merged-chr8-124959489-1	chr8	124959389	124959589	+	591.0	f0_balb.idr	Intergenic	Intergenic	-10235.0	NM_053207	112405.0	Mm.140619	NM_053207	ENSMUSG00000031987	Egln1	AI503754|C1orf12|HIF-PH2|HPH-2|Hif-p4h-2|ORF13|Phd2|SM-20	egl-9 family hypoxia-inducible factor 1	protein-coding	8.0	10.0	10.5	72.0	0.5	2.5	3.5	2.5
Merged-chr10-77965177-2	chr10	77965077	77965277	+	992.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 4 of 33)	intron (NM_138301, intron 4 of 33)	4695.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	5.5	9.5	4.5	107.0	16.0	3.0	6.5	4.5
Merged-chr18-39763678-4	chr18	39763594	39763794	+	981.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9803.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	10.5	38.0	21.5	239.0	77.5	36.0	38.0	33.5
Merged-chr2-143962354-3	chr2	143962247	143962447	+	646.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024281, intron 10 of 23)	intron (NM_024281, intron 10 of 23)	47016.0	NM_019771	56431.0	Mm.28919	NM_019771	ENSMUSG00000015932	Dstn	2610043P17Rik|ADF|AU042046|Dsn|corn1|sid23p	destrin	protein-coding	7.0	9.0	10.5	98.0	19.0	1.5	11.0	2.0
Merged-chr3-107357343-4	chr3	107357252	107357452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24063.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	19.0	36.5	30.5	261.5	52.5	10.5	25.5	11.0
Merged-chr2-156356265-3	chr2	156356167	156356367	+	945.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027585, intron 9 of 12)	intron (NM_027585, intron 9 of 12)	36712.0	NR_024329	347740.0	Mm.324242	NR_024329	ENSMUSG00000102869	2900097C17Rik	1810005K14Rik|4930563C06Rik	RIKEN cDNA 2900097C17 gene	ncRNA	0.0	0.0	0.0	11.0	88.0	33.0	29.5	38.0
Merged-chr18-82822042-4	chr18	82821948	82822148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33849.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	26.5	53.5	27.0	464.5	125.0	29.5	60.5	57.0
Merged-chr1-134518780-4	chr1	134518679	134518879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24119.0	NM_145510	98710.0	Mm.198119	NM_145510	ENSMUSG00000042229	Rabif	AI842864|AW549708|E130318E12Rik|MSS4|RASGFR3	RAB interacting factor	protein-coding	39.0	65.5	50.5	725.5	96.0	49.0	82.5	63.5
Merged-chr6-82652625-4	chr6	82652519	82652719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025882, intron 1 of 3)	CpG	246.0	NM_025882	66979.0	Mm.195753	NM_025882	ENSMUSG00000030042	Pole4	2400007P05Rik|5830430F06Rik	polymerase (DNA-directed), epsilon 4 (p12 subunit)	protein-coding	84.5	104.0	62.5	1012.0	191.0	71.0	89.5	88.0
Merged-chr9-58256484-2	chr9	58256384	58256584	+	854.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_028146, intron 3 of 7)	ORR1F|LTR|ERVL-MaLR	3320.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	4.0	1.5	4.0	75.5	17.0	4.5	6.0	12.0
Merged-chr1-89942223-3	chr1	89942123	89942323	+	832.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11047.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	12.0	8.5	19.5	125.5	10.0	1.0	4.0	9.0
Merged-chr19-32756287-7	chr19	32756211	32756411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1266.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	80.0	120.5	91.0	678.5	175.5	75.0	74.0	62.5
Merged-chr7-73422661-4	chr7	73422571	73422771	+	929.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46897.0	NR_040324	319783.0	Mm.349813	NR_040324	ENSMUSG00000097756	A730056A06Rik	C76391	RIKEN cDNA A730056A06 gene	ncRNA	13.0	22.0	7.5	153.5	34.0	16.5	18.0	9.5
Merged-chr19-18591254-1	chr19	18591154	18591354	+	1000.0	f0_balb.idr	intron (NM_017375, intron 5 of 9)	MER20|DNA|hAT-Charlie	40559.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	5.5	8.5	11.5	185.5	1.0	1.0	1.0	0.0
Merged-chr14-54765625-3	chr14	54765564	54765764	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	16222.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	5.0	8.0	8.5	154.0	0.5	0.5	0.0	1.0
Merged-chr13-23689141-4	chr13	23689035	23689235	+	747.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023422, intron 1 of 1)	intron (NM_023422, intron 1 of 1)	4936.0	NM_023422	68024.0	Mm.261676	NM_023422	ENSMUSG00000018102	Hist1h2bc	2610022J01Rik|H2bfs|R74621	histone cluster 1, H2bc	protein-coding	14.0	19.0	6.0	58.5	30.0	14.5	22.5	10.0
Merged-chr11-8689730-4	chr11	8689647	8689847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25212.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	87.5	119.5	74.0	953.5	83.5	32.0	29.0	39.5
Merged-chr3-37073448-3	chr3	37073346	37073546	+	997.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009350, intron 5 of 11)	L1_Mus3|LINE|L1	9790.0	NM_009350	21744.0	Mm.8122	NM_009350	ENSMUSG00000027719	Adad1	Tenr	adenosine deaminase domain containing 1 (testis specific)	protein-coding	15.5	36.5	36.0	183.0	15.5	4.0	18.0	4.0
Merged-chr14-76073283-4	chr14	76073158	76073358	+	844.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	37557.0	NM_026177	67467.0	Mm.260767	NM_026177	ENSMUSG00000022008	Gpalpp1	1200011I18Rik|Kiaa1704	GPALPP motifs containing 1	protein-coding	10.0	5.0	12.5	90.5	14.5	5.5	13.0	14.0
Merged-chr2-33154937-2	chr2	33154837	33155037	+	801.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290572, intron 12 of 17)	intron (NM_001290572, intron 12 of 17)	-23501.0	NM_001355201	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	7.0	7.5	0.0	47.0	16.0	7.0	4.5	7.5
Merged-chr2-179948992-4	chr2	179948900	179949100	+	894.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081092, intron 1 of 14)	intron (NM_001081092, intron 1 of 14)	27646.0	NM_001081092	228980.0	Mm.235542	NM_001081092	ENSMUSG00000039117	Taf4	135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a	TATA-box binding protein associated factor 4	protein-coding	16.5	22.0	7.0	155.5	25.5	8.5	15.0	13.5
Merged-chr12-24593376-4	chr12	24593263	24593463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145890, intron 6 of 13)	intron (NM_145890, intron 6 of 13)	12644.0	NM_145890	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	104.5	200.0	99.5	1946.5	242.0	110.5	124.0	88.0
Merged-chr5-8051620-3	chr5	8051525	8051725	+	718.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025618, intron 1 of 7)	ID2|SINE|ID	-4917.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	0.0	7.5	6.5	32.0	11.5	5.5	11.0	9.5
Merged-chr12-24600985-4	chr12	24600811	24601011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145890, intron 6 of 13)	intron (NM_145890, intron 6 of 13)	20192.0	NM_145890	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	35.0	90.5	36.5	483.0	90.0	46.0	41.5	32.5
Merged-chr13-95797756-2	chr13	95797662	95797862	+	869.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 2 of 35)	intron (NM_027711, intron 2 of 35)	94160.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	0.0	1.0	0.5	15.5	23.0	8.5	11.0	5.5
Merged-chr10-78105665-4	chr10	78105570	78105770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	36302.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	70.0	66.0	41.5	744.0	186.5	41.5	70.0	52.0
Merged-chr1-179834238-4	chr1	179834137	179834337	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30222.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	19.5	37.0	12.5	227.5	85.0	18.0	18.0	16.5
Merged-chr12-79007226-1	chr12	79007126	79007326	+	982.0	f0_balb.idr	promoter-TSS (NM_178745)	promoter-TSS (NM_178745)	51.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	19.0	24.0	17.5	142.5	45.0	9.5	13.0	12.0
Merged-chr1-84363406-4	chr1	84363298	84363498	+	962.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78753.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	17.5	31.0	13.5	322.0	42.5	13.5	23.0	7.0
Merged-chr6-34177087-4	chr6	34176984	34177184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021435)	promoter-TSS (NM_021435)	-30.0	NM_021435	58246.0	Mm.245527	NM_021435	ENSMUSG00000018999	Slc35b4	4930474D06Rik|AB041549|AW494345	solute carrier family 35, member B4	protein-coding	202.5	305.0	194.5	3179.5	445.0	142.5	214.0	159.0
Merged-chr12-54874963-3	chr12	54874863	54875063	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12086.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	11.0	10.0	10.5	277.5	2.5	0.0	0.0	7.0
Merged-chr5-31195988-4	chr5	31195877	31196077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153680, exon 6 of 15)	exon (NM_153680, exon 6 of 15)	2673.0	NM_153680	266781.0	Mm.6118	NM_153680	ENSMUSG00000029146	Snx17	5830447M19Rik|AI790646|D5Ertd260e|b2b1625.1Clo|mKIAA0064	sorting nexin 17	protein-coding	73.0	128.5	92.0	858.5	154.0	60.5	85.5	60.0
Merged-chr19-56811713-4	chr19	56811595	56811795	+	820.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170757, intron 1 of 14)	intron (NM_170757, intron 1 of 14)	1988.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	16.0	13.0	15.0	111.0	15.0	9.5	14.0	7.0
Merged-chr7-45742566-3	chr7	45742492	45742692	+	834.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360784)	promoter-TSS (NM_001360784)	-114.0	NM_001360784	54200.0	Mm.271634	NM_017465	ENSMUSG00000003271	Sult2b1	AI326997|BB173635|ST2B1|SULT2B	sulfotransferase family, cytosolic, 2B, member 1	protein-coding	3.0	4.0	7.5	49.5	27.5	9.5	11.0	16.0
Merged-chr3-130079944-4	chr3	130079851	130080051	+	987.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19044.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	12.5	25.5	17.5	212.0	33.0	7.5	19.0	18.0
Merged-chr1-172476114-2	chr1	172475994	172476194	+	592.5	f0_balb.idr|f0_c57.idr	intron (NM_029612, intron 1 of 3)	intron (NM_029612, intron 1 of 3)	734.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	3.5	10.5	3.0	94.0	24.5	11.5	10.5	8.5
Merged-chr11-20304492-2	chr11	20304392	20304592	+	744.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_018861, exon 8 of 8)	exon (NM_018861, exon 8 of 8)	28221.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	5.0	5.0	4.5	36.0	13.5	4.0	9.0	3.5
Merged-chr2-49313283-4	chr2	49313175	49313375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290656, intron 8 of 9)	intron (NM_001290656, intron 8 of 9)	67375.0	NM_001290656	109241.0	Mm.440436	NM_029924	ENSMUSG00000036792	Mbd5	9430004D19Rik|AA536666|AI426407|C030040A15Rik|Gm1630	methyl-CpG binding domain protein 5	protein-coding	42.0	59.0	36.5	870.0	151.5	42.5	56.5	43.0
Merged-chr13-73417938-3	chr13	73417852	73418052	+	762.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49431.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	12.5	12.5	2.0	138.5	13.5	4.5	9.5	5.5
Merged-chr2-160136993-4	chr2	160136895	160137095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	120342.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	36.0	75.0	32.0	230.0	78.0	25.5	19.0	33.0
Merged-chr6-70837497-3	chr6	70837403	70837603	+	693.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7012.0	NM_010121	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	6.5	6.0	9.0	86.5	24.5	3.5	3.0	15.0
Merged-chr17-33997071-1	chr17	33996971	33997171	+	736.0	f1_c57bl6.idr	exon (NM_001347346, exon 5 of 8)	exon (NM_001347346, exon 5 of 8)	3262.0	NM_001001892	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	5.0	4.0	3.5	14.5	14.0	6.0	4.5	9.5
Merged-chr3-69978313-2	chr3	69978213	69978413	+	737.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-29300.0	NM_001018031	229389.0	Mm.331071	NM_001018031	ENSMUSG00000027788	Otol1	Gm414	otolin 1	protein-coding	1.0	2.0	4.0	108.0	12.0	7.5	16.5	7.0
Merged-chr5-53195041-4	chr5	53194956	53195156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172710, intron 2 of 23)	MIR3|SINE|MIR	18396.0	NM_172710	231238.0	Mm.235020	NM_172710	ENSMUSG00000029189	Sel1l3	2310045A20Rik|AI429585|mKIAA0746	sel-1 suppressor of lin-12-like 3 (C. elegans)	protein-coding	64.5	57.5	70.0	1150.0	111.5	36.5	50.0	57.5
Merged-chr12-4593749-4	chr12	4593655	4593855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198969, intron 1 of 16)	intron (NM_001198969, intron 1 of 16)	747.0	NM_001198968	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	28.5	23.5	25.0	473.5	61.0	15.5	23.0	23.5
Merged-chr1-155093432-5	chr1	155093418	155093618	+	826.200012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6118.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	6.0	12.5	2.0	40.5	10.0	4.5	5.5	5.5
Merged-chr4-154964280-7	chr4	154964182	154964382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172990, intron 1 of 18)	CpG	159.0	NR_131230	269614.0	Mm.30042	NM_172990	ENSMUSG00000029056	Pank4	D030031I12Rik|R75150	pantothenate kinase 4	protein-coding	25.0	25.5	41.0	210.5	46.5	29.0	18.5	33.0
Merged-chr5-148332781-3	chr5	148332678	148332878	+	943.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007513, intron 12 of 12)	intron (NM_007513, intron 12 of 12)	60037.0	NM_001301424	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	6.5	9.0	4.5	43.0	36.0	15.5	16.0	16.0
Merged-chr6-72164511-4	chr6	72164368	72164568	+	963.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41271.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	23.5	15.0	23.0	654.0	29.5	10.5	17.0	19.0
Merged-chr18-34885000-4	chr18	34884860	34885060	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23753.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	14.0	12.5	10.5	164.0	51.0	12.0	6.5	25.5
Merged-chr11-69605977-4	chr11	69605892	69606092	+	940.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013415)	promoter-TSS (NM_013415)	-32.0	NM_013415	11932.0	Mm.235204	NM_013415	ENSMUSG00000041329	Atp1b2	Amog|Atpb-2	ATPase, Na+/K+ transporting, beta 2 polypeptide	protein-coding	17.0	30.0	11.5	189.0	37.0	11.0	14.5	14.0
Merged-chr12-21426705-1	chr12	21426605	21426805	+	895.5	f0_balb.idr	Intergenic	Intergenic	-9269.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	5.5	17.0	13.0	222.5	11.5	4.5	10.0	9.5
Merged-chr5-121900734-3	chr5	121900635	121900835	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 4 of 22)	intron (NM_007804, intron 4 of 22)	51738.0	NM_001359949	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	7.0	7.5	16.0	163.5	6.5	2.0	2.5	5.0
Merged-chr19-7418068-4	chr19	7417970	7418170	+	935.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175381, intron 1 of 4)	CpG	445.0	NM_175381	108899.0	Mm.386838	NM_175381	ENSMUSG00000053080	2700081O15Rik	AI255177|AI848741|AW742297	RIKEN cDNA 2700081O15 gene	protein-coding	16.0	34.0	11.0	185.5	42.5	12.0	13.5	17.0
Merged-chr1-55405785-4	chr1	55405669	55405869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114663)	promoter-TSS (NM_001114663)	-177.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	158.5	207.0	191.5	2830.5	370.5	123.0	192.5	124.0
Merged-chr10-57486302-4	chr10	57486197	57486397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045353)	promoter-TSS (NR_045353)	56.0	NR_045353	74928.0	Mm.416643	NR_045353	ENSMUSG00000097370	4930467K11Rik	-	RIKEN cDNA 4930467K11 gene	ncRNA	209.0	355.0	207.0	3228.0	606.5	196.0	359.0	178.0
Merged-chr18-7626968-4	chr18	7626839	7627039	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161620)	promoter-TSS (NM_001161620)	-76.0	NM_001161620	75739.0	Mm.133293	NM_001081287	ENSMUSG00000057440	Mpp7	1110068J02Rik|2810038M04Rik|5430426E14Rik|AI415104|Gm955	membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7)	protein-coding	21.5	8.5	22.0	182.0	562.0	132.0	263.0	198.5
Merged-chr8-105172197-4	chr8	105172077	105172277	+	895.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161456, intron 2 of 4)	intron (NM_001161456, intron 2 of 4)	1503.0	NM_001161458	12400.0	Mm.2018	NM_022309	ENSMUSG00000031885	Cbfb	AI893578|PEA2|PEBP2b|Pebp2|Pebpb2	core binding factor beta	protein-coding	23.0	19.0	34.5	536.5	56.0	14.5	16.5	29.0
Merged-chr10-21611221-4	chr10	21611125	21611325	+	911.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027968, intron 2 of 2)	intron (NR_027968, intron 2 of 2)	18080.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	12.0	30.0	24.0	392.0	35.5	15.5	10.0	13.0
Merged-chr11-51931395-4	chr11	51931289	51931489	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-36242.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	31.5	33.0	25.5	447.5	89.5	16.0	18.5	28.0
Merged-chr15-77836316-3	chr15	77836229	77836429	+	943.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	5846.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	7.0	8.0	3.5	62.0	38.0	11.5	14.0	5.0
Merged-chr3-102734822-5	chr3	102734746	102734946	+	837.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243132)	promoter-TSS (NM_001243132)	76.0	NM_027533	70747.0	Mm.27469	NM_027533	ENSMUSG00000027858	Tspan2	6330415F13Rik|B230119D02Rik|tspan-2	tetraspanin 2	protein-coding	2.0	10.0	5.0	117.5	11.0	5.5	6.0	11.0
Merged-chr15-31410222-4	chr15	31410101	31410301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42442.0	NM_027496	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	71.0	102.5	73.0	1012.5	128.0	43.0	54.5	59.5
Merged-chr4-55534117-3	chr4	55533990	55534190	+	901.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1615.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	12.5	10.5	2.5	99.5	12.5	6.5	8.5	12.5
Merged-chr10-86883474-4	chr10	86883354	86883554	+	970.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 44 of 68)	intron (NM_138673, intron 44 of 68)	104449.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	14.5	25.5	36.5	357.5	22.5	13.5	16.0	17.5
Merged-chr1-34849861-8	chr1	34849792	34849992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175421)	promoter-TSS (NM_175421)	-67.0	NM_145516	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	35.0	38.5	32.0	533.5	112.5	36.5	43.5	42.5
Merged-chr18-53857823-3	chr18	53857728	53857928	+	873.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-4285.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	16.0	14.0	9.0	191.0	2.5	5.5	10.0	5.0
Merged-chr8-70374738-4	chr8	70374626	70374826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016685, intron 3 of 18)	CpG	1178.0	NM_016685	12845.0	Mm.45071	NM_016685	ENSMUSG00000031849	Comp	TSP5	cartilage oligomeric matrix protein	protein-coding	81.5	98.5	80.0	649.5	198.5	49.0	53.0	48.0
Merged-chr10-4107826-4	chr10	4107720	4107920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 26 of 27)	intron (NM_001170785, intron 26 of 27)	105300.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	187.0	362.5	261.5	3505.5	74.0	55.5	58.0	21.0
Merged-chr14-31664353-3	chr14	31664258	31664458	+	660.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025295, intron 2 of 3)	LTR37B|LTR|ERV1	23301.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	11.5	9.0	5.0	135.0	18.5	8.0	6.0	3.0
Merged-chr1-146968137-4	chr1	146968031	146968231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	470444.0	NM_001145807	215378.0	Mm.441817	NM_153539	ENSMUSG00000035131	Brinp3	B830045N13Rik|Fam5c	bone morphogenetic protein/retinoic acid inducible neural specific 3	protein-coding	94.5	143.5	119.0	1647.5	248.0	83.0	79.0	84.5
Merged-chr5-140842087-3	chr5	140841994	140842194	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11663.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	64.0	63.5	111.0	1768.5	9.5	4.0	7.0	8.0
Merged-chr4-143412764-4	chr4	143412670	143412870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355724, exon 1 of 4)	5' UTR (NM_001355724, exon 1 of 4)	344.0	NM_001355724	242736.0	Mm.275953	NM_172877	ENSMUSG00000046862	Pramef8	4732496O08Rik|AU023234	PRAME family member 8	protein-coding	173.5	277.5	126.0	2055.5	422.0	204.5	164.0	158.0
Merged-chr7-80500348-4	chr7	80500236	80500436	+	958.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042527, intron 7 of 21)	intron (NM_001042527, intron 7 of 21)	34662.0	NM_007550	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	25.0	41.0	29.5	373.5	60.5	13.0	15.5	25.0
Merged-chr18-66461175-4	chr18	66461049	66461249	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021451, intron 2 of 2)	intron (NM_021451, intron 2 of 2)	2545.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	8.5	16.5	5.5	54.0	19.5	9.0	5.5	7.0
Merged-chr9-96718592-4	chr9	96718505	96718705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175537, intron 1 of 2)	MIRb|SINE|MIR	840.0	NM_001359960	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	31.5	23.0	22.5	464.5	48.0	18.0	25.5	26.5
Merged-chr1-86358982-5	chr1	86358855	86359055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015507)	promoter-TSS (NR_015507)	500.0	NM_010880	17975.0	Mm.154378	NM_010880	ENSMUSG00000026234	Ncl	B530004O11Rik|C23|D0Nds28|D1Nds28|Nucl	nucleolin	protein-coding	41.0	72.5	50.0	490.0	158.0	72.0	45.0	64.5
Merged-chr17-24720491-1	chr17	24720391	24720591	+	1000.0	f1_balb.idr	promoter-TSS (NR_027900)	promoter-TSS (NR_027900)	-298.0	NR_002897	104366.0	Mm.157452	NR_002897	ENSMUSG00000077709	Snora64	MBI-29|Rnu64	small nucleolar RNA, H/ACA box 64	snoRNA	14.5	21.0	15.0	65.0	33.5	16.5	16.0	16.5
Merged-chr10-121316560-4	chr10	121316468	121316668	+	925.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 2 of 12)	intron (NM_001361015, intron 2 of 12)	-5172.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	16.0	42.0	21.0	255.0	40.5	22.5	10.0	14.5
Merged-chr17-74454117-4	chr17	74454021	74454221	+	884.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 1 of 8)	RLTR26B_MM|LTR|ERVK	4987.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	29.5	41.0	19.5	221.5	77.0	12.5	18.5	15.5
Merged-chr7-101050944-4	chr7	101050850	101051050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38897.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	100.5	150.5	105.0	1227.0	171.0	73.5	52.0	95.5
Merged-chr10-80039828-4	chr10	80039719	80039919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025554)	promoter-TSS (NM_025554)	-160.0	NM_025554	66420.0	Mm.18579	NM_025554	ENSMUSG00000004667	Polr2e	2410021N14Rik|25kDa|AW208866|RPB5|XAP4	polymerase (RNA) II (DNA directed) polypeptide E	protein-coding	175.0	289.5	158.5	2055.0	413.0	178.5	199.5	139.5
Merged-chr17-29837664-4	chr17	29837608	29837808	+	967.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081160, intron 13 of 15)	intron (NM_001081160, intron 13 of 15)	50174.0	NM_001081160	74762.0	Mm.40901	NM_001081160	ENSMUSG00000043557	Mdga1	1200011I03Rik|GPIM|Mamdc3	MAM domain containing glycosylphosphatidylinositol anchor 1	protein-coding	15.5	31.0	7.5	378.0	51.5	7.5	17.0	30.5
Merged-chr2-25166477-3	chr2	25166357	25166557	+	883.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14301.0	NM_025980	67122.0	Mm.46539	NM_025980	ENSMUSG00000078202	Nrarp	2700054M22Rik	Notch-regulated ankyrin repeat protein	protein-coding	5.0	12.5	6.5	81.5	36.0	3.5	7.0	8.0
Merged-chr3-84582200-3	chr3	84582132	84582332	+	980.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293801, intron 1 of 7)	intron (NM_001293801, intron 1 of 7)	393.0	NM_001293801	99889.0	Mm.316536	NM_001081093	ENSMUSG00000074513	Arfip1	2310030I10Rik|Arfaptin|D3Ertd598e	ADP-ribosylation factor interacting protein 1	protein-coding	13.5	25.5	12.0	185.5	22.5	7.0	10.0	28.0
Merged-chr5-115119283-4	chr5	115119152	115119352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007383)	promoter-TSS (NM_007383)	94.0	NM_007383	11409.0	Mm.18759	NM_007383	ENSMUSG00000029545	Acads	AI196007|Bcd-1|Bcd1|Hdlq8|SCAD	acyl-Coenzyme A dehydrogenase, short chain	protein-coding	39.5	59.5	63.0	565.0	105.0	33.5	36.0	62.0
Merged-chr3-116425101-4	chr3	116425009	116425209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamSINE1|SINE|tRNA	-1077.0	NM_001173553	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	36.0	92.0	47.5	929.5	118.5	63.0	38.0	52.0
Merged-chr12-112619965-4	chr12	112619881	112620081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007421)	promoter-TSS (NM_007421)	-66.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	132.5	164.0	127.0	1825.0	211.5	92.0	81.5	104.0
Merged-chr10-93310316-4	chr10	93310206	93310406	+	820.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001322265, intron 1 of 4)	CpG	853.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	10.5	16.0	10.0	106.5	22.0	8.5	8.5	11.5
Merged-chr13-75810107-1	chr13	75810007	75810207	+	568.0	f0_c57.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-29778.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	0.5	0.0	2.0	7.0	24.0	11.5	9.0	8.0
Merged-chr14-25485755-4	chr14	25485654	25485854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	26569.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	22.5	39.0	21.0	427.5	71.5	26.5	28.5	24.5
Merged-chr5-86960713-4	chr5	86960602	86960802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34199.0	NM_152811	71773.0	Mm.26741	NM_152811	ENSMUSG00000035836	Ugt2b1	1300012D20Rik	UDP glucuronosyltransferase 2 family, polypeptide B1	protein-coding	52.0	60.0	46.0	1044.5	101.5	41.0	28.5	24.5
Merged-chr18-25487078-4	chr18	25487011	25487211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362310, intron 11 of 12)	C-rich|Low_complexity|Low_complexity	192637.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	48.0	53.0	39.5	811.5	116.5	31.0	62.5	44.5
Merged-chr12-99902681-4	chr12	99902547	99902747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028354, intron 6 of 15)	intron (NM_028354, intron 6 of 15)	18132.0	NM_028354	104884.0	Mm.312323	NM_028354	ENSMUSG00000021177	Tdp1	2810481F14Rik|4921509N21Rik|AI838772|AW493413|E430034L06Rik|MLZ-501|SCAN1	tyrosyl-DNA phosphodiesterase 1	protein-coding	22.0	33.0	26.5	584.0	62.0	25.5	19.0	25.5
Merged-chr7-47050572-4	chr7	47050482	47050682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026436)	promoter-TSS (NM_026436)	-58.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	182.5	293.0	183.0	2740.0	447.5	200.5	265.5	165.5
Merged-chr2-164681686-4	chr2	164681584	164681784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-3423.0	NM_001012704	408190.0	Mm.376205	NM_001012704	ENSMUSG00000067704	Wfdc13	Wfdc13l1	WAP four-disulfide core domain 13	protein-coding	60.5	58.0	62.0	1076.5	121.0	42.0	64.0	61.5
Merged-chr15-103240338-4	chr15	103240249	103240449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002885)	promoter-TSS (NR_002885)	-48.0	NR_104427	15382.0	Mm.237064	NM_010447	ENSMUSG00000046434	Hnrnpa1	HDP-1|Hdp|Hnrpa1|hnRNP A1|hnrnp-A1	heterogeneous nuclear ribonucleoprotein A1	protein-coding	158.0	222.0	110.0	1643.0	408.0	162.0	176.5	133.5
Merged-chr3-144718730-4	chr3	144718626	144718826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 1 of 10)	intron (NM_001282037, intron 1 of 10)	1609.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	33.5	57.0	97.5	711.5	171.5	36.0	59.5	44.0
Merged-chr1-43507969-4	chr1	43507871	43508071	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	URR1B|DNA|hAT-Charlie	62220.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	29.0	23.5	16.0	526.0	71.5	21.0	30.0	33.5
Merged-chr1-82797246-4	chr1	82797151	82797351	+	769.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-28795.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	8.0	16.0	14.5	45.0	49.0	20.5	10.0	9.5
Merged-chr12-21568692-3	chr12	21568598	21568798	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-151262.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	5.0	7.0	22.5	194.0	0.0	0.0	4.0	3.0
Merged-chr11-120355767-3	chr11	120355655	120355855	+	768.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-5779.0	NM_172802	238021.0	Mm.481403	NM_172802	ENSMUSG00000025380	Fscn2	A930022G03|Ahl8|C630046B20Rik	fascin actin-bundling protein 2	protein-coding	3.0	6.5	5.5	55.0	23.0	8.0	16.0	10.5
Merged-chr3-84040128-8	chr3	84040038	84040238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172681)	promoter-TSS (NM_172681)	23.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	65.0	87.5	92.5	694.5	159.0	79.5	85.5	77.5
Merged-chr11-85235059-4	chr11	85234926	85235126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025825)	promoter-TSS (NM_025825)	94.0	NM_025825	66884.0	Mm.271997	NM_025825	ENSMUSG00000018481	Appbp2	1300003O07Rik|AI465480|PAT1	amyloid beta precursor protein (cytoplasmic tail) binding protein 2	protein-coding	54.0	99.5	75.0	694.5	141.5	72.5	45.5	73.5
Merged-chr19-44363605-4	chr19	44363516	44363716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30290.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	60.5	157.5	91.5	972.5	224.0	103.0	95.5	77.5
Merged-chr18-67252498-1	chr18	67252398	67252598	+	857.0	f0_balb.idr	Intergenic	Lx8|LINE|L1	-6668.0	NM_001357518	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	11.5	23.5	11.5	143.5	30.5	1.5	2.5	8.0
Merged-chr18-3010342-1	chr18	3010242	3010442	+	812.0	f0_balb.idr	Intergenic	Intergenic	113070.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	9.0	4.5	13.0	138.0	2.5	0.0	1.0	3.0
Merged-chr7-19589479-4	chr7	19589369	19589569	+	802.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_125836, intron 6 of 17)	B3|SINE|B2	12182.0	NM_022409	63872.0	Mm.23310	NM_022409	ENSMUSG00000011267	Zfp296	2210018A16Rik|Znf296	zinc finger protein 296	protein-coding	14.0	13.5	5.0	95.5	29.0	12.0	11.0	17.5
Merged-chr16-30975385-4	chr16	30975267	30975467	+	876.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	intron (NM_198626, intron 3 of 3)	106065.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	11.5	19.0	15.5	303.0	21.5	19.5	14.5	14.5
Merged-chr14-70303093-3	chr14	70302994	70303194	+	644.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001135152)	TTS (NM_001135152)	-13597.0	NM_001304992	19057.0	Mm.439683	NM_008915	ENSMUSG00000022092	Ppp3cc	Calnc|PP2BA gamma	protein phosphatase 3, catalytic subunit, gamma isoform	protein-coding	7.5	15.5	10.5	100.0	30.5	9.0	6.0	2.5
Merged-chr10-44219266-4	chr10	44219161	44219361	+	825.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_001582, exon 7 of 7)	non-coding (NR_001582, exon 7 of 7)	3836.0	NR_027506	70365.0	Mm.87073	NR_001582	ENSMUSG00000091358	Speer5-ps1	1700007C10Rik|SPEER-5|Speer5-ps	spermatogenesis associated glutamate (E)-rich protein 5, pseudogene 1	pseudo	8.5	21.0	7.0	104.5	25.5	5.0	11.0	11.0
Merged-chr8-83955515-4	chr8	83955409	83955609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024184)	promoter-TSS (NM_024184)	-185.0	NM_024184	66929.0	Mm.29680	NM_024184	ENSMUSG00000005470	Asf1b	1700003K02Rik|AA409591	anti-silencing function 1B histone chaperone	protein-coding	380.0	575.0	334.5	5008.0	915.0	406.0	412.0	319.0
Merged-chr13-94849560-4	chr13	94849442	94849642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26085.0	NM_011021	18420.0	Mm.42051	NM_011021	ENSMUSG00000021685	Otp	-	orthopedia homeobox	protein-coding	26.0	64.0	48.0	640.5	92.5	24.0	43.0	53.5
Merged-chr2-6705056-3	chr2	6704933	6705133	+	899.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	16629.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	10.0	1.0	5.5	136.5	19.0	5.0	11.0	14.0
Merged-chr19-10843055-3	chr19	10842966	10843166	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023044, exon 1 of 8)	exon (NM_023044, exon 1 of 8)	522.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	25.5	67.0	22.5	339.0	123.0	58.5	34.0	46.5
Merged-chr12-12278643-6	chr12	12278569	12278769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	16530.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	58.5	112.0	116.0	1094.0	137.0	80.0	53.5	75.5
Merged-chr7-73524617-4	chr7	73524541	73524741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	17105.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	19.0	26.5	37.0	247.5	41.5	23.0	25.5	20.5
Merged-chr11-76646188-4	chr11	76646067	76646267	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26303.0	NM_177182	320522.0	Mm.131585	NM_177182	ENSMUSG00000044243	Bhlha9	A830053O21Rik|Fingerin	basic helix-loop-helix family, member a9	protein-coding	27.5	41.5	12.5	363.0	107.0	20.5	20.5	23.5
Merged-chr16-44119922-4	chr16	44119821	44120021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	19338.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	130.5	176.0	109.5	1889.0	262.0	94.0	117.5	113.0
Merged-chr8-64951093-4	chr8	64950980	64951180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163747, intron 1 of 4)	B3A|SINE|B2	3895.0	NM_028427	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	21.5	42.5	35.0	531.5	41.0	26.0	32.5	39.0
Merged-chr10-60082594-1	chr10	60082494	60082694	+	652.0	f0_balb.idr	intron (NM_026937, intron 9 of 10)	ORR1F|LTR|ERVL-MaLR	-23663.0	NM_052994	94214.0	Mm.153429	NM_052994	ENSMUSG00000058297	Spock2	AA407235|Gcap26|mKIAA0275	sparc/osteonectin, cwcv and kazal-like domains proteoglycan 2	protein-coding	5.0	7.5	9.0	121.0	13.0	1.5	0.0	2.5
Merged-chr5-121191421-4	chr5	121191399	121191599	+	993.53125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109992)	promoter-TSS (NM_001109992)	-102.0	NM_011202	19247.0	Mm.8681	NM_011202	ENSMUSG00000043733	Ptpn11	2700084A17Rik|AW536184|PTP1D|PTP2C|SAP-2|SH-PTP2|SH-PTP3|SHP-2|Shp2|Syp	protein tyrosine phosphatase, non-receptor type 11	protein-coding	30.5	50.5	19.0	376.5	104.5	25.5	30.0	40.5
Merged-chr3-108911749-4	chr3	108911646	108911846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356292)	promoter-TSS (NM_001356292)	-17.0	NM_001356292	66921.0	Mm.51049	NM_025845	ENSMUSG00000027881	Prpf38b	1110021E09Rik|AU018955	PRP38 pre-mRNA processing factor 38 (yeast) domain containing B	protein-coding	99.5	140.0	83.0	1261.0	316.5	113.5	155.0	114.0
Merged-chr4-132078550-4	chr4	132078461	132078661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3248.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	106.5	141.5	108.5	1327.0	249.5	88.0	113.5	111.0
Merged-chr9-50617202-5	chr9	50617092	50617292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028300)	promoter-TSS (NM_028300)	-129.0	NM_028300	72614.0	Mm.147232	NM_028300	ENSMUSG00000000167	Pih1d2	2700059L22Rik	PIH1 domain containing 2	protein-coding	37.0	57.0	53.0	497.0	96.5	40.5	40.0	38.0
Merged-chr19-12518027-4	chr19	12517928	12518128	+	864.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16032.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	8.5	10.5	14.0	158.5	32.0	5.5	7.5	15.0
Merged-chr14-33371418-3	chr14	33371301	33371501	+	819.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCTG)n|Simple_repeat|Simple_repeat	39623.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	7.5	10.5	5.0	94.5	13.5	2.0	9.0	5.0
Merged-chr10-25447366-4	chr10	25447266	25447466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 3 of 16)	intron (NM_001358754, intron 3 of 16)	38998.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	43.5	67.5	53.5	1272.0	74.5	24.5	35.5	31.0
Merged-chr2-140794251-8	chr2	140794157	140794357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	RMER17C2|LTR|ERVK	-122781.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	35.5	38.0	46.5	314.0	31.5	24.0	18.5	10.5
Merged-chr1-171397700-3	chr1	171397617	171397817	+	809.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005508, intron 2 of 11)	intron (NM_001005508, intron 2 of 11)	8757.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	13.0	5.5	8.5	83.0	17.5	6.5	3.0	4.5
Merged-chr1-89569224-4	chr1	89569126	89569326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	114415.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	87.5	69.5	103.5	1241.0	105.0	42.5	62.5	54.5
Merged-chr6-37427342-4	chr6	37427234	37427434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	14814.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	75.5	164.5	71.5	1108.5	307.0	118.0	130.0	79.5
Merged-chr18-89607625-4	chr18	89607531	89607731	+	969.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039173, intron 1 of 7)	B4A|SINE|B4	161505.0	NM_001039173	623279.0	Mm.447164	NM_001039173	ENSMUSG00000073514	Dok6	Dok-6	docking protein 6	protein-coding	23.0	27.0	22.5	498.5	37.0	12.0	54.5	23.0
Merged-chr14-32784401-7	chr14	32784329	32784529	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1534.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	16.0	18.0	14.0	133.0	15.5	12.0	12.5	6.5
Merged-chr11-79622859-3	chr11	79622737	79622937	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 3 of 14)	intron (NM_175543, intron 3 of 14)	326.0	NR_003283	790912.0	Mm.447313	NR_003283	ENSMUSG00000087434	Rab11fip4os1	Gm11202	RAB11 family interacting protein 4 (class II), opposite strand 1	ncRNA	12.5	11.0	7.0	111.0	25.5	15.0	11.5	14.0
Merged-chr7-28215683-2	chr7	28215582	28215782	+	724.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	35366.0	NM_001271370	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	4.5	15.0	6.0	15.5	13.0	8.0	5.5	6.0
Merged-chr6-50340827-3	chr6	50340720	50340920	+	985.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 9 of 21)	MTC|LTR|ERVL-MaLR	42017.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	1.0	1.5	2.0	6.5	56.5	19.0	16.0	22.0
Merged-chr15-73596663-4	chr15	73596553	73596753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168255)	promoter-TSS (NM_001168255)	-127.0	NM_001168255	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	73.5	101.5	73.5	1284.5	139.5	42.0	59.5	78.0
Merged-chr7-13023260-4	chr7	13023167	13023367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011588)	promoter-TSS (NM_011588)	-885.0	NM_011588	21849.0	Mm.15701	NM_011588	ENSMUSG00000005566	Trim28	AA408787|KAP-1|KRIP-1|MommeD9|Tif1b|Tif1beta	tripartite motif-containing 28	protein-coding	84.5	114.0	60.5	1088.5	140.0	45.5	71.0	56.0
Merged-chr12-85698585-3	chr12	85698486	85698686	+	734.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 2 of 2)	intron (NM_016767, intron 2 of 2)	11866.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	5.5	11.0	9.0	21.5	24.5	9.0	4.5	5.5
Merged-chr10-67315275-4	chr10	67315166	67315366	+	779.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29985.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	10.5	10.5	3.0	102.0	26.5	8.0	6.0	20.5
Merged-chr11-85844785-3	chr11	85844690	85844890	+	912.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12175.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	13.0	16.0	13.0	104.0	11.5	16.0	10.5	10.5
Merged-chr11-103102911-4	chr11	103102819	103103019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025988, exon 2 of 11)	5' UTR (NM_025988, exon 2 of 11)	1231.0	NM_025988	67131.0	Mm.390367	NM_025988	ENSMUSG00000056938	Acbd4	2010009P05Rik|2010015A21Rik|AI849317	acyl-Coenzyme A binding domain containing 4	protein-coding	201.5	325.5	179.0	3217.0	466.5	191.0	172.5	173.5
Merged-chr2-12084583-4	chr2	12084530	12084730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-216616.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	22.0	28.0	23.0	536.0	76.0	14.5	29.5	26.0
Merged-chr3-105053045-4	chr3	105052926	105053126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163332)	promoter-TSS (NM_001163332)	-73.0	NM_001163333	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	94.0	133.0	118.5	1631.5	298.0	124.0	126.5	113.0
Merged-chr19-55316505-4	chr19	55316403	55316603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033573)	promoter-TSS (NM_001033573)	446.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	52.0	114.5	117.0	870.5	81.5	51.0	65.0	62.0
Merged-chr12-106010195-4	chr12	106010111	106010311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011705)	promoter-TSS (NM_011705)	-52.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	298.0	384.0	266.5	4205.0	507.5	213.5	274.5	192.0
Merged-chr12-80260492-4	chr12	80260388	80260588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346669)	promoter-TSS (NM_001346669)	-107.0	NM_001346669	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	147.0	217.0	145.5	2140.5	271.0	122.0	113.5	112.5
Merged-chr12-40522658-4	chr12	40522571	40522771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	76618.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	46.0	79.5	48.0	848.5	109.0	31.5	36.5	38.5
Merged-chr10-67181051-4	chr10	67180937	67181137	+	915.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 2 of 25)	intron (NM_207221, intron 2 of 25)	-4713.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	18.0	20.0	7.0	207.5	36.5	11.0	15.0	15.5
Merged-chr2-84246704-1	chr2	84246604	84246804	+	572.5	f0_c57.idr	Intergenic	Lx9|LINE|L1	178562.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	1.0	0.0	0.5	24.0	19.5	6.5	9.5	9.0
Merged-chr12-108275604-4	chr12	108275537	108275737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159910)	promoter-TSS (NM_001159910)	-220.0	NM_001159910	668158.0	Mm.482792	NM_001159910	ENSMUSG00000084883	Ccdc85c	EG668158|Gm265|Gm9010|hhy	coiled-coil domain containing 85C	protein-coding	91.5	139.5	73.5	1111.5	172.5	50.5	99.5	44.0
Merged-chr2-58923291-4	chr2	58923186	58923386	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	RMER19C|LTR|ERVK	168102.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	45.0	32.0	29.0	249.5	75.5	14.5	15.0	35.0
Merged-chr13-105054491-4	chr13	105054382	105054582	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029879, exon 1 of 6)	5' UTR (NM_029879, exon 1 of 6)	448.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	37.5	31.0	43.0	578.0	43.0	17.5	14.5	33.5
Merged-chr7-25683716-4	chr7	25683638	25683838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172148, intron 2 of 2)	intron (NM_172148, intron 2 of 2)	2580.0	NM_172148	232987.0	Mm.22849	NM_172148	ENSMUSG00000063439	B9d2	stumpy	B9 protein domain 2	protein-coding	90.0	76.0	71.0	960.5	128.5	39.5	85.5	58.5
Merged-chr2-164007101-4	chr2	164007007	164007207	+	964.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018753, intron 1 of 5)	RLTR26B_MM|LTR|ERVK	11910.0	NM_018753	54401.0	Mm.34319	NM_018753	ENSMUSG00000018326	Ywhab	1300003C17Rik|14-3-3b	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide	protein-coding	23.0	31.0	12.5	390.5	45.5	11.0	26.0	29.0
Merged-chr7-19635560-3	chr7	19635481	19635681	+	956.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019649, intron 10 of 13)	intron (NM_019649, intron 10 of 13)	-6143.0	NM_009046	19698.0	Mm.1741	NM_009046	ENSMUSG00000002983	Relb	shep	avian reticuloendotheliosis viral (v-rel) oncogene related B	protein-coding	6.0	38.5	7.0	43.0	33.5	20.5	12.5	10.0
Merged-chr18-4254895-3	chr18	4254774	4254974	+	783.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89042.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	9.0	12.0	12.0	180.5	17.0	12.0	8.5	5.0
Merged-chr6-134045172-4	chr6	134045095	134045295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	intron (NM_007961, intron 1 of 7)	9495.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	15.5	25.5	36.0	403.0	51.5	16.0	17.5	23.0
Merged-chr1-105790507-7	chr1	105790386	105790586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	9763.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	43.0	37.5	66.0	648.0	82.5	47.5	40.0	49.5
Merged-chr6-108660115-1	chr6	108660015	108660215	+	1000.0	f0_c57.idr	promoter-TSS (NM_011498)	promoter-TSS (NM_011498)	-514.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	86.5	146.5	95.5	1221.5	215.0	74.0	91.5	70.5
Merged-chr2-131352907-4	chr2	131352803	131353003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178607)	promoter-TSS (NM_178607)	-11.0	NM_178607	51902.0	Mm.477523	NM_178607	ENSMUSG00000048911	Rnf24	2810473M14Rik|4930505A13Rik|AI317164|C86507|D2Ertd504e	ring finger protein 24	protein-coding	69.5	133.5	79.5	1169.0	205.0	71.5	73.5	72.5
Merged-chr13-58481408-4	chr13	58481260	58481460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78017.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	45.0	39.5	27.5	632.5	52.5	16.5	28.5	21.5
Merged-chr15-6337255-4	chr15	6337177	6337377	+	899.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	37488.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	20.5	15.0	8.5	206.5	35.5	7.0	14.5	11.5
Merged-chr9-63604446-3	chr9	63604345	63604545	+	853.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	1799.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	5.5	9.5	9.5	103.5	8.0	6.5	6.5	8.0
Merged-chr7-28675968-2	chr7	28675901	28676101	+	752.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MURVY-LTR|LTR|ERV1	-16848.0	NM_207238	233040.0	Mm.116116	NM_207238	ENSMUSG00000037463	Fbxo27	E130008B10Rik|FBG5|Gm161	F-box protein 27	protein-coding	10.0	6.0	4.5	53.0	7.5	3.0	5.5	0.5
Merged-chr13-112337321-4	chr13	112337224	112337424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 6 of 11)	intron (NM_001168403, intron 6 of 11)	48806.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	83.0	103.5	121.0	1691.0	104.0	47.0	54.5	48.0
Merged-chr17-71102679-4	chr17	71102581	71102781	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 24 of 36)	intron (NM_001083934, intron 24 of 36)	-80851.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	26.5	32.0	12.0	433.5	60.0	24.0	19.0	24.5
Merged-chr11-58126770-4	chr11	58126616	58126816	+	919.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166669, intron 24 of 27)	intron (NM_001166669, intron 24 of 27)	22487.0	NM_001356477	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	59.5	81.0	41.5	572.5	26.0	8.0	10.0	6.0
Merged-chr7-75709450-4	chr7	75709353	75709553	+	778.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 17 of 36)	intron (NM_029332, intron 17 of 36)	-138885.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	9.0	12.0	8.0	421.0	29.0	12.5	10.0	24.0
Merged-chr2-166712484-4	chr2	166712390	166712590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	1342.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	44.0	45.5	31.0	399.0	90.5	36.0	51.0	28.0
Merged-chr9-110781546-4	chr9	110781443	110781643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16642.0	NM_153099	235628.0	Mm.292285	NM_153099	ENSMUSG00000044664	Prss42	Tessp2	protease, serine 42	protein-coding	54.0	83.5	93.0	1032.0	122.5	45.5	55.0	80.5
Merged-chr2-83742379-4	chr2	83742265	83742465	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 2 of 29)	Charlie24|DNA|hAT-Charlie	17968.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	14.0	53.5	25.5	667.0	58.5	34.0	32.0	19.5
Merged-chr6-113334249-4	chr6	113334143	113334343	+	984.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_149720)	TTS (NR_149720)	7267.0	NM_010957	18294.0	Mm.43612	NM_010957	ENSMUSG00000030271	Ogg1	Mmh	8-oxoguanine DNA-glycosylase 1	protein-coding	38.5	44.5	18.5	519.5	78.5	11.0	20.5	20.5
Merged-chr13-90050017-4	chr13	90049920	90050120	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 3 of 7)	RLTR18-int|LTR|ERVK	39588.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	35.0	77.5	12.0	145.0	71.0	28.0	15.5	6.5
Merged-chr12-12412933-3	chr12	12412852	12413052	+	785.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20477.0	NR_045829	70858.0	Mm.410838	NR_045829	ENSMUSG00000114136	4921511I17Rik	-	RIKEN cDNA 4921511I17 gene	ncRNA	13.0	10.5	8.5	70.0	13.5	6.5	6.5	3.0
Merged-chr2-129092371-4	chr2	129092273	129092473	+	773.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027192, intron 6 of 6)	intron (NM_027192, intron 6 of 6)	-8623.0	NM_009086	20017.0	Mm.259078	NM_009086	ENSMUSG00000027395	Polr1b	128kDa|D630020H17Rik|RPA116|RPA135|RPA2|Rpo1-2	polymerase (RNA) I polypeptide B	protein-coding	11.5	18.5	6.0	248.0	22.5	1.5	11.5	10.5
Merged-chr3-127787322-4	chr3	127787272	127787472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-2500.0	NM_145133	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	65.0	77.0	75.5	921.5	100.0	42.5	38.0	28.0
Merged-chr7-30418985-3	chr7	30418907	30419107	+	855.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011827, intron 1 of 3)	RMER4B|LTR|ERVK	847.0	NM_011827	23900.0	Mm.379050	NM_011827	ENSMUSG00000064109	Hcst	DAP10|KAP10	hematopoietic cell signal transducer	protein-coding	4.0	5.5	7.5	22.5	12.5	13.5	11.0	8.0
Merged-chr11-69632786-4	chr11	69632695	69632895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011814)	promoter-TSS (NM_011814)	-176.0	NM_011814	23879.0	Mm.41930	NM_011814	ENSMUSG00000018765	Fxr2	Fxr2h	fragile X mental retardation, autosomal homolog 2	protein-coding	321.0	529.0	323.0	4249.0	724.5	331.0	358.0	323.0
Merged-chr15-76195806-4	chr15	76195719	76195919	+	963.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201394)	promoter-TSS (NM_201394)	-109.0	NM_201394	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	21.0	16.0	8.0	270.0	44.0	14.0	14.0	19.5
Merged-chr17-28085131-4	chr17	28085026	28085226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4487.0	NM_001085555	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	33.5	53.5	17.5	480.0	142.5	59.5	42.0	47.0
Merged-chr5-148886055-4	chr5	148885950	148886150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153572, intron 9 of 10)	intron (NM_153572, intron 9 of 10)	42597.0	NM_153572	231912.0	Mm.397405	NM_153572	ENSMUSG00000041298	Katnal1	-	katanin p60 subunit A-like 1	protein-coding	30.5	23.5	21.0	406.0	141.5	52.0	81.0	63.5
Merged-chr11-18970049-4	chr11	18969949	18970149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010789, intron 7 of 11)	intron (NM_010789, intron 7 of 11)	48920.0	NM_001193271	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	21.0	35.0	50.0	592.5	52.0	26.0	33.0	31.5
Merged-chr12-79525719-4	chr12	79525619	79525819	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	228368.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	5.5	5.0	17.0	111.5	25.5	5.0	5.5	14.0
Merged-chr7-102247153-4	chr7	102247048	102247248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	2970.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	35.0	50.0	49.5	441.5	113.5	61.5	55.0	38.0
Merged-chr16-87698918-4	chr16	87698817	87699017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007520)	promoter-TSS (NM_007520)	-37.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	221.5	364.0	229.0	2822.5	541.5	185.5	257.5	204.5
Merged-chr2-144452826-3	chr2	144452716	144452916	+	899.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6464.0	NR_033459	668917.0	Mm.152805	NR_033459	ENSMUSG00000083674	Zfp133-ps	Zfp133	zinc finger protein 133, pseudogene	pseudo	13.0	3.0	4.0	26.0	26.0	6.0	14.0	8.5
Merged-chr13-117052972-4	chr13	117052862	117053062	+	916.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-27446.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	25.5	24.5	11.5	384.0	50.5	9.5	16.0	13.0
Merged-chr17-28218255-2	chr17	28218155	28218355	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027185, intron 3 of 10)	intron (NM_027185, intron 3 of 10)	10477.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	11.5	5.0	9.0	51.5	12.0	7.0	6.5	8.0
Merged-chr6-5291720-4	chr6	5291619	5291819	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183308, intron 1 of 8)	intron (NM_183308, intron 1 of 8)	6654.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	19.5	49.0	36.0	342.5	48.5	10.5	25.0	4.0
Merged-chr12-111675290-4	chr12	111675169	111675369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2836.0	NM_001099792	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	39.0	72.5	26.5	845.0	93.0	43.0	54.5	45.0
Merged-chr2-32547831-1	chr2	32547731	32547931	+	921.0	f0_balb.idr	intron (NM_153560, intron 1 of 10)	intron (NM_153560, intron 1 of 10)	12472.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	13.0	36.5	10.5	137.5	42.5	14.5	9.5	18.5
Merged-chr12-38815153-3	chr12	38815054	38815254	+	819.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163154, intron 2 of 9)	intron (NM_001163154, intron 2 of 9)	31443.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	9.0	5.5	7.0	81.0	9.0	1.5	8.0	3.0
Merged-chr10-128519043-4	chr10	128518940	128519140	+	860.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011843, intron 14 of 30)	intron (NM_011843, intron 14 of 30)	6819.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	8.5	4.0	5.5	110.5	25.5	15.0	10.0	21.0
Merged-chr16-20227728-4	chr16	20227635	20227835	+	864.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001145930, exon 28 of 31)	exon (NM_001145930, exon 28 of 31)	13623.0	NM_198599	208158.0	Mm.326383	NM_198599	ENSMUSG00000041205	Map6d1	A330066I15Rik	MAP6 domain containing 1	protein-coding	7.0	15.0	7.5	214.5	30.0	17.0	9.5	16.0
Merged-chr12-112673779-4	chr12	112673683	112673883	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331107, intron 1 of 13)	CpG	493.0	NM_001165894	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	22.5	26.5	33.0	251.5	38.0	15.5	17.5	19.0
Merged-chr11-74497499-3	chr11	74497401	74497601	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	92657.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	11.5	16.5	10.0	46.5	14.0	6.0	12.0	8.5
Merged-chr10-34139834-3	chr10	34139772	34139972	+	842.116699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11900.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	8.5	16.0	13.5	279.0	15.0	4.0	15.5	12.5
Merged-chr11-110993270-4	chr11	110993176	110993376	+	930.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252207, intron 2 of 2)	intron (NM_001252207, intron 2 of 2)	-4211.0	NM_001252209	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	12.0	17.0	16.5	190.5	36.0	32.0	22.5	29.5
Merged-chr8-104340326-4	chr8	104340242	104340442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024217)	promoter-TSS (NM_024217)	-252.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	82.5	97.0	138.0	2137.5	254.0	67.0	161.5	123.5
Merged-chr12-111668688-4	chr12	111668620	111668820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021273)	TTS (NM_021273)	3618.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	55.0	71.0	53.0	378.5	78.5	42.0	35.5	58.5
Merged-chr10-117375997-2	chr10	117375897	117376097	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013391, intron 1 of 9)	CpG	976.0	NM_001013391	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	10.0	10.5	17.0	199.5	28.0	10.0	11.0	15.5
Merged-chr1-128103699-3	chr1	128103596	128103796	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357573)	promoter-TSS (NM_001357573)	390.0	NM_181750	226412.0	Mm.221041	NM_181750	ENSMUSG00000056211	R3hdm1	R3hdm	R3H domain containing 1	protein-coding	28.0	28.5	35.0	342.5	46.0	28.0	31.0	27.5
Merged-chr7-98321264-4	chr7	98321180	98321380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360615)	promoter-TSS (NM_001360615)	-72.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	42.0	54.5	38.5	735.0	77.0	39.5	37.5	40.0
Merged-chr14-31669352-4	chr14	31669254	31669454	+	868.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28297.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	7.5	19.0	13.5	48.0	30.5	15.5	8.5	10.5
Merged-chr7-125444882-4	chr7	125444767	125444967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029842, intron 1 of 7)	CpG	247.0	NM_029842	77035.0	Mm.307239	NM_029842	ENSMUSG00000030752	Kdm8	3110005O21Rik|Jmjd5	lysine (K)-specific demethylase 8	protein-coding	61.0	113.0	62.0	542.0	161.0	74.5	70.0	69.5
Merged-chr16-91729217-4	chr16	91729124	91729324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133679)	promoter-TSS (NM_133679)	-147.0	NM_001110275	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	100.5	156.0	88.5	1354.5	301.0	92.0	94.5	117.5
Merged-chr4-133675230-4	chr4	133675189	133675389	+	733.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-2123.0	NM_001356466	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	6.0	14.0	5.5	36.0	23.0	5.0	6.0	9.0
Merged-chr14-70371063-1	chr14	70370963	70371163	+	586.0	f0_balb.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-19639.0	NM_001135151	213053.0	Mm.270647	NM_144808	ENSMUSG00000022094	Slc39a14	FAD-123|ZIP-14|Zip14|fad123	solute carrier family 39 (zinc transporter), member 14	protein-coding	13.5	9.5	2.5	74.0	11.0	14.0	7.5	5.5
Merged-chr19-9917962-4	chr19	9917884	9918084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18451.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	41.5	74.0	34.0	811.0	113.0	22.5	34.0	46.0
Merged-chr14-54653702-4	chr14	54653589	54653789	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085472)	promoter-TSS (NM_001085472)	-4.0	NM_019567	56215.0	Mm.297078	NM_019567	ENSMUSG00000022185	Acin1	2610036I19Rik|2610510L13Rik|Acinus|Acn|C79325|acinusL|acinusS|mKIAA0670	apoptotic chromatin condensation inducer 1	protein-coding	17.5	20.0	21.0	323.5	53.0	17.0	21.0	28.0
Merged-chr4-33028410-1	chr4	33028310	33028510	+	550.0	f0_balb.idr	non-coding (NR_036602, exon 2 of 2)	non-coding (NR_036602, exon 2 of 2)	2913.0	NR_036602	100504166.0	Mm.426309	NR_036602	ENSMUSG00000085037	4933421O10Rik	-	RIKEN cDNA 4933421O10 gene	ncRNA	2.0	3.0	6.5	60.5	8.5	6.0	4.5	5.5
Merged-chr3-129429591-4	chr3	129429475	129429675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4098.0	NR_033594	435755.0	Mm.430561	NR_033594	ENSMUSG00000105712	Pou5f1-rs4	EG435755|Gm5712|Oct4P1|Otf3-rs4|Otf3d	POU domain, class 5, transcription factor 1, related sequence 4	pseudo	63.0	100.5	59.5	1516.0	135.5	41.5	45.5	68.0
Merged-chr7-127470973-4	chr7	127470884	127471084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145589)	promoter-TSS (NM_145589)	-630.0	NM_145589	233895.0	Mm.44183	NM_145589	ENSMUSG00000030822	Prr14	BC006909	proline rich 14	protein-coding	91.5	151.0	66.5	763.5	235.5	92.5	100.0	98.0
Merged-chr17-63198882-4	chr17	63198761	63198961	+	872.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 7 of 8)	intron (NM_015794, intron 7 of 8)	114112.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	12.0	12.0	16.5	310.0	36.0	8.0	11.0	10.0
Merged-chr12-4843305-4	chr12	4843171	4843371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173416)	promoter-TSS (NM_173416)	-32.0	NM_173416	238037.0	Mm.146087	NM_173416	ENSMUSG00000051721	Wdcp	A430092C04	WD repeat and coiled coil containing	protein-coding	48.5	74.5	32.0	486.0	158.0	49.5	49.0	52.5
Merged-chr15-101308999-3	chr15	101308897	101309097	+	696.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15785.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	4.5	4.5	7.0	94.5	16.5	6.0	3.0	3.5
Merged-chr5-93267154-4	chr5	93267028	93267228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007635)	promoter-TSS (NM_007635)	-445.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	93.0	168.5	99.5	1192.5	338.5	141.0	144.0	104.5
Merged-chr3-95929191-4	chr3	95929095	95929295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253758)	promoter-TSS (NM_001253758)	-62.0	NM_001253758	66471.0	Mm.218657	NM_023210	ENSMUSG00000015749	Anp32e	2810018A15Rik|AI047746|AI326868|CPD1|LANP-L|LANPL|mLANP-L	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	protein-coding	202.0	254.5	154.5	2310.5	463.0	183.5	213.5	139.5
Merged-chr5-29892525-4	chr5	29892414	29892614	+	950.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120600.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	19.0	24.0	21.0	273.0	44.0	11.0	22.0	17.0
Merged-chr4-9115568-2	chr4	9115468	9115668	+	860.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-153725.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	5.5	7.5	8.0	52.0	4.5	3.5	4.0	7.0
Merged-chr2-172398184-4	chr2	172398080	172398280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 1 of 6)	intron (NM_001080820, intron 1 of 6)	4386.0	NM_001276423	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	51.0	64.0	43.0	633.5	76.0	56.0	53.5	39.5
Merged-chr10-13513514-4	chr10	13513419	13513619	+	954.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025799, intron 6 of 6)	intron (NM_025799, intron 6 of 6)	12491.0	NM_025799	66848.0	Mm.26625	NM_025799	ENSMUSG00000019810	Fuca2	0610025O11Rik|5530401P20Rik	fucosidase, alpha-L- 2, plasma	protein-coding	14.5	26.0	15.5	403.5	81.5	19.5	29.5	11.5
Merged-chr1-13295712-3	chr1	13295624	13295824	+	995.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	Tigger5|DNA|TcMar-Tigger	76705.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	6.5	3.0	7.5	223.0	68.5	14.5	27.5	25.5
Merged-chr13-47230524-4	chr13	47230395	47230595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 4 of 7)	intron (NM_146042, intron 4 of 7)	36492.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	22.0	32.5	16.5	329.5	41.0	7.5	18.5	19.0
Merged-chr5-99243507-3	chr5	99243342	99243542	+	915.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	9485.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	7.5	12.5	3.0	74.0	28.0	8.0	5.5	8.5
Merged-chr9-53405285-4	chr9	53405199	53405399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029247)	promoter-TSS (NM_029247)	13.0	NM_029247	75311.0	Mm.26078	NM_029247	ENSMUSG00000005131	4930550C14Rik	AU017961	RIKEN cDNA 4930550C14 gene	protein-coding	50.5	59.0	23.5	688.0	193.5	65.0	70.5	78.5
Merged-chr15-77982352-2	chr15	77982252	77982452	+	784.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11528.0	NM_018749	55944.0	Mm.3955	NM_018749	ENSMUSG00000016554	Eif3d	66/67kDa|AA407891|Eif3s7|eIF3p66	eukaryotic translation initiation factor 3, subunit D	protein-coding	5.5	12.5	4.5	60.0	29.0	5.0	3.0	8.5
Merged-chr10-41576049-4	chr10	41575943	41576143	+	846.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045341, exon 3 of 4)	non-coding (NR_045341, exon 3 of 4)	8027.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	13.0	6.5	14.5	114.5	38.0	6.0	13.0	18.0
Merged-chr10-21890533-4	chr10	21890447	21890647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 1 of 13)	ID_B1|SINE|B4	8363.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	76.0	93.0	106.0	1529.5	146.5	66.0	86.0	85.5
Merged-chr4-124657515-4	chr4	124657399	124657599	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011141)	promoter-TSS (NM_011141)	-147.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	14.5	32.0	21.5	249.5	80.5	20.5	31.0	16.5
Merged-chr3-61688477-4	chr3	61688375	61688575	+	943.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	323968.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	16.5	25.5	18.5	383.0	29.0	19.5	15.0	15.5
Merged-chr11-69067063-3	chr11	69066980	69067180	+	919.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3729.0	NM_025838	66910.0	Mm.33964	NM_025838	ENSMUSG00000020895	Tmem107	1110004B13Rik|2810049P21Rik	transmembrane protein 107	protein-coding	8.5	26.5	3.5	50.0	42.0	10.0	14.5	21.5
Merged-chr4-117887367-4	chr4	117887243	117887443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033617)	promoter-TSS (NM_033617)	-14.0	NM_033617	114143.0	Mm.207052	NM_033617	ENSMUSG00000033379	Atp6v0b	2310024H13Rik|Atp6f|VMA16	ATPase, H+ transporting, lysosomal V0 subunit B	protein-coding	88.0	102.5	38.0	1002.5	239.5	95.5	126.0	114.0
Merged-chr18-37644256-4	chr18	37644176	37644376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175770)	promoter-TSS (NM_175770)	-72.0	NM_175770	24074.0	Mm.236009	NM_175770	ENSMUSG00000051316	Taf7	55kDa|AI607308|BB007175|TAFII55|Taf2f	TATA-box binding protein associated factor 7	protein-coding	212.0	296.5	224.5	3579.0	686.0	256.5	238.5	170.0
Merged-chr6-99666794-4	chr6	99666690	99666890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025829)	promoter-TSS (NM_025829)	-19.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	19.5	21.5	22.5	243.0	32.5	14.0	19.0	18.0
Merged-chr7-143180942-4	chr7	143180840	143181040	+	938.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008434, intron 2 of 15)	intron (NM_008434, intron 2 of 15)	73686.0	NM_008434	16535.0	Mm.439769	NM_008434	ENSMUSG00000009545	Kcnq1	AW559127|KVLQT1|Kcna9	potassium voltage-gated channel, subfamily Q, member 1	protein-coding	8.0	14.5	15.5	382.0	36.5	13.0	24.5	18.5
Merged-chr12-108795290-4	chr12	108795153	108795353	+	928.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009537, intron 1 of 4)	intron (NM_009537, intron 1 of 4)	1942.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	16.0	12.0	5.5	133.5	27.5	6.5	11.0	14.5
Merged-chr2-120973043-1	chr2	120972943	120973143	+	614.0	f1_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2328.0	NM_009461	22222.0	Mm.389330	NM_009461	ENSMUSG00000027272	Ubr1	AI504731	ubiquitin protein ligase E3 component n-recognin 1	protein-coding	6.0	10.0	7.0	39.0	19.5	7.0	4.5	12.0
Merged-chr6-89362675-8	chr6	89362579	89362779	+	948.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008881)	promoter-TSS (NM_008881)	-66.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	13.5	14.5	8.5	124.5	55.0	9.0	29.0	11.0
Merged-chr14-54386559-2	chr14	54386459	54386659	+	786.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	22913.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	6.0	7.5	4.5	127.5	2.5	5.0	1.0	1.5
Merged-chr16-58481374-4	chr16	58481255	58481455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	intron (NM_001357433, intron 6 of 10)	42071.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	209.5	323.0	233.5	2423.5	256.0	141.5	155.0	148.0
Merged-chr7-79715762-4	chr7	79715629	79715829	+	971.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1543.0	NM_001291222	16576.0	Mm.101633	NM_010626	ENSMUSG00000050382	Kif7	-	kinesin family member 7	protein-coding	27.5	29.5	39.5	404.5	33.5	13.5	33.0	30.5
Merged-chr1-150393208-4	chr1	150393120	150393320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145511)	promoter-TSS (NM_145511)	-140.0	NM_001357579	226499.0	Mm.222093	NM_145511	ENSMUSG00000006010	BC003331	1810053E15Rik|Odr4|odr-4	cDNA sequence BC003331	protein-coding	355.0	553.0	446.5	5080.5	923.0	405.5	410.0	354.0
Merged-chr8-115506837-4	chr8	115506733	115506933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	200061.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	46.5	63.0	25.5	684.0	94.0	39.0	34.0	34.0
Merged-chr3-152428757-4	chr3	152428635	152428835	+	957.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001287139, exon 4 of 14)	exon (NM_001287139, exon 4 of 14)	32051.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	23.5	27.0	37.0	644.5	59.5	16.5	11.0	19.0
Merged-chr4-150217292-4	chr4	150217209	150217409	+	984.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-16174.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	16.0	30.0	22.0	325.5	38.5	16.0	26.0	28.0
Merged-chr16-33894685-4	chr16	33894589	33894789	+	978.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 5 of 14)	ORR1D2|LTR|ERVL-MaLR	65024.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	19.5	25.0	17.0	250.0	28.5	15.0	18.5	18.5
Merged-chr16-21198774-3	chr16	21198668	21198868	+	793.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6027.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	7.5	5.5	5.5	154.5	23.5	16.5	16.0	10.0
Merged-chr2-160086188-3	chr2	160086052	160086252	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69499.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	9.5	37.0	16.5	172.5	16.5	14.5	5.5	4.0
Merged-chr5-3358953-4	chr5	3358857	3359057	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	15064.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	22.0	33.5	32.0	255.5	73.5	28.5	23.5	21.5
Merged-chr2-103063095-3	chr2	103062994	103063194	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175094, intron 1 of 10)	intron (NM_175094, intron 1 of 10)	10419.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	4.5	10.5	5.0	83.5	20.0	7.0	13.5	5.5
Merged-chr6-125581458-4	chr6	125581375	125581575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 6 of 51)	L1_Mur3|LINE|L1	28527.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	33.0	67.0	54.0	405.5	132.0	63.0	66.0	45.0
Merged-chr2-46366044-4	chr2	46365939	46366139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	669434.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	63.0	61.5	72.0	726.0	125.0	41.5	45.5	25.5
Merged-chr18-84685680-4	chr18	84685594	84685794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023149)	promoter-TSS (NM_023149)	8.0	NM_023149	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	291.0	457.0	294.5	4412.0	770.5	250.0	387.0	271.5
Merged-chr18-62229973-4	chr18	62229872	62230072	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49872.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	19.5	35.0	17.0	156.0	46.0	16.0	14.0	27.5
Merged-chr12-40606027-3	chr12	40605861	40606061	+	996.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	159908.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	5.5	11.5	8.0	72.0	10.0	0.5	1.5	3.0
Merged-chr7-6170535-4	chr7	6170470	6170670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1943.0	NM_028316	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	36.0	29.0	21.5	622.5	71.0	11.5	21.5	28.5
Merged-chr4-62287090-4	chr4	62286979	62287179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025286, intron 1 of 3)	intron (NM_025286, intron 1 of 3)	650.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	64.0	79.0	46.0	932.5	187.5	66.0	62.5	50.5
Merged-chr13-37348334-4	chr13	37348228	37348428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	2983.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	57.0	99.5	67.0	787.5	110.5	66.0	36.0	65.5
Merged-chr15-95849965-4	chr15	95849880	95850080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253813, intron 2 of 20)	intron (NM_001253813, intron 2 of 20)	-19908.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	32.0	45.0	35.5	419.0	68.5	28.0	30.0	35.0
Merged-chr11-44382297-4	chr11	44382200	44382400	+	985.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17763.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	31.0	54.5	45.0	391.5	79.5	33.0	17.0	15.5
Merged-chr7-141165033-4	chr7	141164919	141165119	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172100, intron 2 of 9)	intron (NM_001172100, intron 2 of 9)	3667.0	NM_001172101	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	25.5	43.5	24.0	454.5	43.0	24.0	4.5	22.0
Merged-chr5-24750459-2	chr5	24750359	24750559	+	951.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_153076)	TTS (NM_153076)	7384.0	NM_153076	214301.0	Mm.63484	NM_153076	ENSMUSG00000038135	Crygn	-	crystallin, gamma N	protein-coding	8.5	10.5	6.0	59.0	22.5	4.5	3.0	3.0
Merged-chr9-21328247-4	chr9	21328153	21328353	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359227, intron 1 of 22)	intron (NM_001359227, intron 1 of 22)	7534.0	NM_001199186	68682.0	Mm.148425	NM_152808	ENSMUSG00000057193	Slc44a2	1110028E10Rik|CTL2	solute carrier family 44, member 2	protein-coding	12.0	15.0	15.0	511.0	39.5	9.0	13.5	21.0
Merged-chr10-62501126-4	chr10	62501025	62501225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	intron (NM_001358965, intron 2 of 3)	6632.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	33.5	78.5	37.0	373.5	152.0	31.5	37.0	31.5
Merged-chr11-115062205-4	chr11	115062103	115062303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172050)	promoter-TSS (NM_172050)	-164.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	23.0	26.5	26.0	324.0	51.5	20.0	26.5	39.5
Merged-chr11-118480880-4	chr11	118480752	118480952	+	746.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153103, intron 3 of 13)	MTA_Mm|LTR|ERVL-MaLR	4020.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	7.5	6.0	4.5	67.5	14.5	7.5	9.0	6.5
Merged-chr2-139591438-3	chr2	139591330	139591530	+	863.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356507, intron 8 of 11)	intron (NM_001356507, intron 8 of 11)	-86748.0	NM_001276489	319909.0	Mm.41113	NM_001126490	ENSMUSG00000074766	Ism1	5430433G21Rik|Ism	isthmin 1, angiogenesis inhibitor	protein-coding	5.0	11.0	5.0	115.5	8.0	4.0	9.0	4.5
Merged-chr11-116101773-2	chr11	116101673	116101873	+	917.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8462.0	NM_001205081	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	0.5	7.5	8.0	63.0	7.5	5.5	5.5	6.5
Merged-chr16-10970147-2	chr16	10970047	10970247	+	780.6999509999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	B2_Mm2|SINE|B2	22974.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	6.0	12.5	2.5	16.5	15.0	8.5	7.0	10.5
Merged-chr9-15709546-4	chr9	15709435	15709635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357565)	promoter-TSS (NM_001357565)	-203.0	NM_001357566	234967.0	Mm.138815	NM_172289	ENSMUSG00000043885	Slc36a4	6330573I15Rik|PAT4	solute carrier family 36 (proton/amino acid symporter), member 4	protein-coding	60.5	100.5	154.0	1446.5	142.5	55.5	73.0	118.5
Merged-chr1-135534923-4	chr1	135534814	135535014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 2 of 28)	intron (NM_173437, intron 2 of 28)	50441.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	68.0	129.0	79.0	1063.5	114.0	40.5	42.5	47.5
Merged-chr19-5473880-4	chr19	5473781	5473981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164352)	promoter-TSS (NM_001164352)	-809.0	NM_021474	58859.0	Mm.276367	NM_021474	ENSMUSG00000024909	Efemp2	0610011K11Rik|Fbln4|MBP1	epidermal growth factor-containing fibulin-like extracellular matrix protein 2	protein-coding	34.5	36.0	30.5	428.0	98.0	28.5	29.5	25.5
Merged-chr8-86872306-4	chr8	86872205	86872405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	12953.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	67.5	86.0	39.0	995.5	118.5	41.5	44.5	49.5
Merged-chr11-40714070-3	chr11	40713970	40714170	+	970.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013552, exon 11 of 18)	exon (NM_013552, exon 11 of 18)	-18867.0	NM_001199274	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	29.0	16.0	29.0	527.5	17.5	9.0	8.5	8.0
Merged-chr3-136368772-4	chr3	136368707	136368907	+	974.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42741.0	NM_001033350	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	22.0	38.5	16.0	341.5	81.0	25.5	15.0	28.5
Merged-chr15-78982913-4	chr15	78982829	78983029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024716)	promoter-TSS (NM_001024716)	-127.0	NM_001024716	110253.0	Mm.123714	NM_138579	ENSMUSG00000033088	Triobp	AI428493|EST478828|Tara|mKIAA1662	TRIO and F-actin binding protein	protein-coding	160.0	249.0	172.0	2108.5	384.0	168.0	159.5	110.0
Merged-chr12-100187591-4	chr12	100187502	100187702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045282)	promoter-TSS (NR_045282)	-366.0	NR_045282	100038378.0	Mm.387075	NR_045282	ENSMUSG00000072884	Gm10433	-	predicted gene 10433	ncRNA	246.5	415.5	227.0	3726.5	549.5	237.5	276.0	250.0
Merged-chr9-90054426-4	chr9	90054317	90054517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007801, exon 1 of 12)	5' UTR (NM_007801, exon 1 of 12)	150.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	89.0	169.0	80.0	1204.0	395.0	129.5	155.0	90.0
Merged-chr11-117326419-4	chr11	117326307	117326507	+	960.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-5308.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	17.5	32.0	12.0	169.5	78.0	23.0	14.5	33.5
Merged-chr16-52062087-4	chr16	52061998	52062198	+	737.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	30549.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	6.5	6.5	7.5	77.5	35.5	12.5	12.5	4.5
Merged-chr6-48047761-4	chr6	48047662	48047862	+	682.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347139)	promoter-TSS (NM_001347139)	32.0	NM_001347139	72306.0	Mm.381553	NM_001081382	ENSMUSG00000071477	Zfp777	2500002G23Rik	zinc finger protein 777	protein-coding	8.5	8.0	8.5	145.5	8.0	6.0	6.0	4.0
Merged-chr15-84321784-4	chr15	84321704	84321904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2916.0	NM_022321	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	47.0	46.5	65.5	988.5	84.5	28.5	37.5	39.5
Merged-chr18-12938389-4	chr18	12938287	12938487	+	894.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 1 of 27)	intron (NM_207530, intron 1 of 27)	3454.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	13.5	20.5	13.5	284.5	31.0	8.0	11.0	10.0
Merged-chr16-37011720-4	chr16	37011601	37011801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159369)	promoter-TSS (NM_001159369)	-85.0	NM_029977	77782.0	Mm.259114	NM_029977	ENSMUSG00000034206	Polq	A430110D14Rik	polymerase (DNA directed), theta	protein-coding	54.5	101.0	42.0	718.5	144.5	59.5	72.0	56.5
Merged-chr10-94223857-3	chr10	94223753	94223953	+	961.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24844.0	NM_025551	66414.0	Mm.27886	NM_025551	ENSMUSG00000020022	Ndufa12	2410011G03Rik|AW112974	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12	protein-coding	10.0	42.5	24.0	332.0	0.0	1.5	4.5	0.5
Merged-chr17-35869671-5	chr17	35869613	35869813	+	895.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146710, intron 2 of 3)	intron (NM_001146710, intron 2 of 3)	3098.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	9.0	31.5	11.5	143.5	19.5	17.0	16.0	10.5
Merged-chr6-124745637-4	chr6	124745542	124745742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007881, exon 6 of 10)	exon (NM_007881, exon 6 of 10)	-4563.0	NM_013535	14790.0	Mm.439877	NM_013535	ENSMUSG00000072772	Grcc10	2310033H05Rik|C10	gene rich cluster, C10 gene	protein-coding	189.0	299.0	144.5	2328.0	434.5	164.5	162.5	165.0
Merged-chr8-70611397-4	chr8	70611312	70611512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3098.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	11.0	12.0	13.5	199.5	34.0	20.5	21.5	24.5
Merged-chr9-48390089-3	chr9	48389980	48390180	+	804.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172921, intron 4 of 8)	intron (NM_172921, intron 4 of 8)	28039.0	NM_172921	244853.0	Mm.325522	NM_172921	ENSMUSG00000044229	Nxpe4	C130036J11|D930028F11Rik|Fam55d	neurexophilin and PC-esterase domain family, member 4	protein-coding	1.0	1.0	0.0	0.0	38.5	6.0	17.5	11.5
Merged-chr19-46303871-2	chr19	46303770	46303970	+	692.75	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001177369)	promoter-TSS (NM_001177369)	-867.0	NM_001177369	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	6.5	22.0	8.0	180.5	29.0	13.5	8.5	16.0
Merged-chr15-80710732-4	chr15	80710637	80710837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144812)	promoter-TSS (NM_144812)	-576.0	NM_144812	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	105.5	136.5	58.5	1161.5	251.5	102.5	118.0	87.0
Merged-chr4-89145586-4	chr4	89145455	89145655	+	952.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024433, intron 1 of 7)	intron (NM_024433, intron 1 of 7)	8185.0	NM_024433	66902.0	Mm.28500	NM_024433	ENSMUSG00000062937	Mtap	1300019I21Rik|MSAP	methylthioadenosine phosphorylase	protein-coding	14.5	6.5	9.0	251.5	30.0	7.5	19.0	20.0
Merged-chr11-70970694-7	chr11	70970601	70970801	+	993.723816	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_075087)	promoter-TSS (NR_075087)	501.0	NM_001252415	69723.0	Mm.275691	NM_027186	ENSMUSG00000018449	Rpain	2400006N03Rik|Rip	RPA interacting protein	protein-coding	13.5	19.0	12.0	139.5	33.5	6.0	12.0	12.0
Merged-chr13-60892466-4	chr13	60892381	60892581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	4966.0	NM_007797	13025.0	Mm.30144	NM_007797	ENSMUSG00000074874	Ctla2b	AW545568|Ctla-2b	cytotoxic T lymphocyte-associated protein 2 beta	protein-coding	74.5	117.5	48.5	801.5	156.5	56.5	79.5	64.0
Merged-chr18-62047184-4	chr18	62047081	62047281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94106.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	169.5	201.5	178.5	2419.0	276.5	95.5	167.0	133.0
Merged-chr14-76415550-9	chr14	76415433	76415633	+	939.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207652)	promoter-TSS (NM_207652)	-288.0	NM_207652	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	6.5	15.5	11.0	208.0	23.0	9.5	13.0	12.5
Merged-chr10-81523165-4	chr10	81523074	81523274	+	883.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010304, intron 1 of 6)	ID_B1|SINE|B4	1051.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	8.5	15.5	8.0	220.5	41.0	9.0	8.5	13.0
Merged-chr4-133213017-2	chr4	133212895	133213095	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008154)	promoter-TSS (NM_008154)	-459.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	21.5	19.0	14.0	72.5	18.0	15.0	10.0	12.5
Merged-chr3-123385993-4	chr3	123385952	123386152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201638)	promoter-TSS (NM_201638)	-62.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	149.5	265.5	93.5	2308.0	256.0	76.5	134.5	117.5
Merged-chr15-89177783-4	chr15	89177667	89177867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	3021.0	NM_001284506	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	129.5	175.5	97.5	1700.0	359.0	132.5	161.0	198.0
Merged-chr6-124448627-1	chr6	124448527	124448727	+	549.0	f0_balb.idr	intron (NM_001346656, intron 12 of 17)	intron (NM_001346656, intron 12 of 17)	14117.0	NM_001346656	232370.0	Mm.193701	NM_153508	ENSMUSG00000008153	Clstn3	CSTN3|Cs3|Cst-3|alc-beta	calsyntenin 3	protein-coding	9.0	9.5	4.0	59.0	19.0	7.0	7.5	10.0
Merged-chr19-18630628-4	chr19	18630520	18630720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	1193.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	32.0	31.0	42.5	686.0	53.5	21.0	32.5	25.0
Merged-chr17-27190024-2	chr17	27189948	27190148	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146075, exon 9 of 9)	3' UTR (NM_146075, exon 9 of 9)	14390.0	NM_146075	224640.0	Mm.29689	NM_146075	ENSMUSG00000044857	Lemd2	BC026588|Lem2|NET25	LEM domain containing 2	protein-coding	5.0	4.5	8.0	68.5	9.0	11.5	6.5	6.0
Merged-chr7-27592072-3	chr7	27591988	27592188	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110208, intron 1 of 13)	CpG	536.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	26.0	32.0	25.0	201.5	69.5	19.5	26.0	30.0
Merged-chr10-17294621-3	chr10	17294515	17294715	+	878.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198833.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	5.0	7.0	9.5	97.0	11.0	4.0	11.0	5.5
Merged-chr2-117358053-4	chr2	117357960	117358160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15183.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	80.0	203.5	66.0	375.0	290.5	104.5	82.5	48.0
Merged-chr5-67404546-4	chr5	67404466	67404666	+	836.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164806, intron 3 of 4)	GA-rich|Low_complexity|Low_complexity	23233.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	8.5	15.0	8.5	218.5	17.5	9.0	2.5	10.5
Merged-chr6-136466123-4	chr6	136466037	136466237	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50568.0	NM_001201390	100502936.0	Mm.21182	NM_001201390	ENSMUSG00000045291	E330021D16Rik	C85549	RIKEN cDNA E330021D16 gene	protein-coding	19.0	22.0	27.5	281.0	37.0	10.5	18.0	18.5
Merged-chr5-110232465-3	chr5	110232361	110232561	+	766.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027922, intron 1 of 12)	Lx5b|LINE|L1	1457.0	NM_027922	71782.0	Mm.288442	NM_027922	ENSMUSG00000029501	Ankle2	1110001J12Rik|AI661024|D5Ertd585e	ankyrin repeat and LEM domain containing 2	protein-coding	13.0	9.0	6.5	150.5	12.0	4.0	3.5	6.0
Merged-chr5-92270656-4	chr5	92270569	92270769	+	704.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025972, intron 3 of 10)	intron (NM_025972, intron 3 of 10)	7512.0	NM_001163687	67111.0	Mm.28890	NM_025972	ENSMUSG00000029413	Naaa	2210023K21Rik|3830414F09Rik|Asahl	N-acylethanolamine acid amidase	protein-coding	9.0	9.5	8.0	131.5	14.0	15.0	11.5	7.0
Merged-chr12-111894235-3	chr12	111894136	111894336	+	692.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011625, intron 1 of 16)	L2c|LINE|L2	13819.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	7.5	9.5	5.0	97.0	17.0	4.5	7.0	5.0
Merged-chr8-125416391-3	chr8	125416274	125416474	+	871.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76459.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	0.5	1.5	0.0	6.5	28.5	22.5	18.5	16.0
Merged-chr10-99632781-4	chr10	99632681	99632881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038019, intron 1 of 2)	intron (NR_038019, intron 1 of 2)	9139.0	NR_038018	100417125.0	Mm.391428	NR_038018	ENSMUSG00000112503	Gm18409	-	mediator of cell motility 1 pseudogene	pseudo	63.0	51.0	40.0	794.5	110.5	43.0	58.5	61.5
Merged-chr16-91936572-4	chr16	91936486	91936686	+	894.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4956.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	10.5	14.0	13.0	133.0	26.5	12.5	4.5	17.5
Merged-chr14-101559668-4	chr14	101559639	101559839	+	877.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	Lx6|LINE|L1	49452.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	7.5	7.0	16.0	160.5	9.5	3.5	6.0	13.5
Merged-chr11-73224160-3	chr11	73224060	73224260	+	938.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029031, exon 7 of 7)	3' UTR (NM_029031, exon 7 of 7)	-9989.0	NM_001001445	193034.0	Mm.447485	NM_001001445	ENSMUSG00000005952	Trpv1	OTRPC1|TRPV1alpha|TRPV1beta|VR-1|Vr1	transient receptor potential cation channel, subfamily V, member 1	protein-coding	9.5	14.5	3.0	196.0	21.0	4.5	9.5	6.5
Merged-chr19-32952578-4	chr19	32952473	32952673	+	882.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	194996.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	13.0	23.5	7.5	129.5	38.0	15.0	16.0	12.0
Merged-chr10-68058131-1	chr10	68058031	68058231	+	835.666687	f0_balb.idr	Intergenic	Charlie1|DNA|hAT-Charlie	78561.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	11.5	17.0	22.5	190.5	2.5	0.5	4.0	0.0
Merged-chr10-28520104-3	chr10	28519997	28520197	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 13 of 30)	intron (NM_001359356, intron 13 of 30)	-148263.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	37.0	80.5	38.5	783.0	16.0	7.5	7.5	5.0
Merged-chr9-106314856-1	chr9	106314756	106314956	+	778.0	f0_balb.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	33795.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	13.0	6.0	10.0	132.5	5.5	4.5	0.0	2.0
Merged-chr11-68968049-4	chr11	68967957	68968157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028048)	promoter-TSS (NM_028048)	-74.0	NM_028048	71998.0	Mm.298622	NM_028048	ENSMUSG00000018740	Slc25a35	1810012H11Rik	solute carrier family 25, member 35	protein-coding	47.0	65.5	40.0	751.5	143.0	35.5	63.5	34.5
Merged-chr17-35779712-4	chr17	35779628	35779828	+	959.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045459, intron 2 of 2)	intron (NR_045459, intron 2 of 2)	7278.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	16.5	13.0	24.5	342.0	95.5	48.0	36.0	35.5
Merged-chr9-96705763-4	chr9	96705672	96705872	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359959, intron 2 of 2)	intron (NM_001359959, intron 2 of 2)	13673.0	NM_001359960	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	34.0	45.0	33.0	840.0	46.5	14.5	32.5	22.0
Merged-chr17-48264856-4	chr17	48264739	48264939	+	834.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172623, exon 2 of 6)	exon (NM_172623, exon 2 of 6)	544.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	15.0	23.5	23.5	147.0	26.0	18.0	16.5	5.5
Merged-chr19-12833323-4	chr19	12833214	12833414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361971, exon 9 of 9)	exon (NM_001361971, exon 9 of 9)	-28463.0	NM_146702	258697.0	Mm.223132	NM_146702	ENSMUSG00000046272	Olfr1444	MOR202-4	olfactory receptor 1444	protein-coding	39.0	59.5	30.5	720.5	65.0	23.5	30.5	32.5
Merged-chr2-120565556-4	chr2	120565436	120565636	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1677.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	21.0	30.0	26.0	338.5	34.0	20.5	18.0	21.5
Merged-chr5-90655555-4	chr5	90655464	90655664	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15037.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	7.0	15.5	5.0	211.0	18.0	11.5	11.5	11.0
Merged-chr2-92459754-4	chr2	92459658	92459858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_211358)	promoter-TSS (NM_211358)	36.0	NM_211358	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	74.5	82.5	51.0	727.5	105.5	38.0	62.0	63.0
Merged-chr9-40743851-4	chr9	40743692	40743892	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-57481.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	75.5	89.0	72.5	833.5	32.0	9.5	8.5	15.0
Merged-chr11-107341589-4	chr11	107341501	107341701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	129119.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	30.0	28.5	23.0	578.0	89.5	33.5	32.0	26.0
Merged-chr12-85593200-4	chr12	85593103	85593303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-5902.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	64.0	107.5	42.0	860.0	174.5	65.0	73.0	85.5
Merged-chr4-53264743-3	chr4	53264631	53264831	+	993.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033139, intron 1 of 1)	intron (NR_033139, intron 1 of 1)	761.0	NR_033140	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	19.5	19.0	29.0	523.5	8.5	10.5	6.5	9.0
Merged-chr3-51475916-4	chr3	51475802	51476002	+	920.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053089)	TTS (NM_053089)	-8064.0	NM_016858	19338.0	Mm.1664	NM_016858	ENSMUSG00000027739	Rab33b	-	RAB33B, member RAS oncogene family	protein-coding	17.5	19.5	16.0	279.0	41.5	9.0	13.0	9.0
Merged-chr1-153543181-3	chr1	153543079	153543279	+	844.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 2 of 11)	intron (NM_028749, intron 2 of 11)	6535.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	8.0	6.5	9.5	119.0	3.5	1.5	1.0	4.0
Merged-chr12-102175999-3	chr12	102175906	102176106	+	580.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172152, intron 2 of 16)	intron (NM_172152, intron 2 of 16)	47279.0	NM_172152	238384.0	Mm.312448	NM_172152	ENSMUSG00000041771	Slc24a4	A930002M03Rik|AW492432|NCKX4	solute carrier family 24 (sodium/potassium/calcium exchanger), member 4	protein-coding	5.5	5.5	5.5	95.0	0.0	1.0	0.0	1.5
Merged-chr19-4295572-4	chr19	4295449	4295649	+	965.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	10673.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	23.5	35.0	16.5	139.0	36.0	13.5	13.0	7.0
Merged-chr3-38106196-4	chr3	38106091	38106291	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101928.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	13.5	22.5	27.0	470.0	34.5	16.5	19.0	21.5
Merged-chr18-88847528-3	chr18	88847417	88847617	+	811.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46690.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	3.5	1.0	8.5	137.0	38.0	7.0	8.5	9.5
Merged-chr3-144204695-2	chr3	144204595	144204795	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010723, intron 1 of 4)	CpG	560.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	13.0	24.0	15.5	330.0	34.5	20.0	13.5	14.0
Merged-chr17-56717762-4	chr17	56717656	56717856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178926)	promoter-TSS (NM_178926)	-6.0	NM_027244	69875.0	Mm.279823	NM_027244	ENSMUSG00000002379	Ndufa11	2010012C24Rik|AV006275|B14.7	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 11	protein-coding	27.0	40.0	18.0	359.0	92.5	38.5	48.5	51.0
Merged-chr4-59581587-4	chr4	59581476	59581676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024255)	promoter-TSS (NM_024255)	13.0	NM_024255	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	177.5	241.5	138.5	2461.5	431.5	179.5	236.0	177.0
Merged-chr3-20520963-1	chr3	20520863	20521063	+	578.666687	f0_balb.idr	Intergenic	Intergenic	-153786.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	6.5	9.0	4.5	93.0	9.0	3.0	4.5	4.0
Merged-chr16-20265263-2	chr16	20265163	20265363	+	749.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-23905.0	NM_198599	208158.0	Mm.326383	NM_198599	ENSMUSG00000041205	Map6d1	A330066I15Rik	MAP6 domain containing 1	protein-coding	4.0	3.5	4.0	83.5	11.0	5.0	8.5	9.0
Merged-chr3-69044434-2	chr3	69044334	69044534	+	904.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_025863, intron 1 of 2)	CpG	308.0	NM_025863	66949.0	Mm.176695	NM_025863	ENSMUSG00000034317	Trim59	2310035M22Rik|2700022F13Rik|Mrf1|TSBF1	tripartite motif-containing 59	protein-coding	4.0	2.0	1.5	34.5	7.0	12.0	14.0	9.0
Merged-chr10-30678285-4	chr10	30678176	30678376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 9 of 14)	intron (NM_001358842, intron 9 of 14)	-22409.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	41.5	32.0	45.5	512.0	78.5	29.0	31.5	37.0
Merged-chr10-43842027-4	chr10	43841918	43842118	+	920.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	16111.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	14.0	13.0	12.5	152.0	30.0	6.0	12.0	7.5
Merged-chr10-13966946-4	chr10	13966839	13967039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	CpG-904	560.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	57.0	92.0	101.0	726.5	221.5	76.0	114.5	64.5
Merged-chr17-29000631-4	chr17	29000531	29000731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357173, intron 1 of 13)	MTE2a|LTR|ERVL-MaLR	7364.0	NM_134115	106504.0	Mm.439986	NM_134115	ENSMUSG00000024006	Stk38	5830476G13Rik|9530097A09Rik|AA617404|Ndr1	serine/threonine kinase 38	protein-coding	39.0	87.5	26.0	553.0	96.5	38.0	31.0	46.5
Merged-chr12-25092695-8	chr12	25092606	25092806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3386.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	46.5	63.0	46.5	547.5	107.5	47.5	36.5	46.5
Merged-chr3-79154190-3	chr3	79154090	79154290	+	962.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-8315.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	21.0	14.0	6.0	218.5	11.5	6.5	5.0	11.0
Merged-chr14-13551339-4	chr14	13551225	13551425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163032, intron 2 of 4)	intron (NM_001163032, intron 2 of 4)	97367.0	NM_001163032	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	40.0	82.5	47.0	634.5	121.5	35.5	50.5	40.5
Merged-chr14-45050325-4	chr14	45050243	45050443	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62232.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	32.0	36.0	34.0	408.5	68.0	13.5	27.5	23.5
Merged-chr6-28899043-3	chr6	28898993	28899193	+	889.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67346.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	10.0	16.5	6.5	63.0	24.5	1.0	6.0	10.5
Merged-chr14-79533903-3	chr14	79533787	79533987	+	799.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	18213.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	10.0	6.5	9.0	140.0	17.5	8.5	8.5	5.5
Merged-chr18-79330281-4	chr18	79330186	79330386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-220895.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	43.0	49.5	37.0	895.5	61.0	26.5	58.0	51.0
Merged-chr1-173491281-3	chr1	173491180	173491380	+	632.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44677.0	NM_001024721	545384.0	Mm.371698	NM_001024721	ENSMUSG00000070501	Ifi214	Pyhin-B|p214	interferon activated gene 214	protein-coding	0.0	2.0	4.0	78.5	19.5	13.0	14.5	7.5
Merged-chr9-90255989-3	chr9	90255925	90256125	+	958.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	14744.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	6.0	5.0	10.5	131.5	14.5	5.0	8.5	5.5
Merged-chr19-37206890-6	chr19	37206803	37207003	+	973.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164337)	promoter-TSS (NM_001164337)	568.0	NM_198300	208922.0	Mm.391176	NM_198300	ENSMUSG00000039652	Cpeb3	4831444O18Rik|CPE-BP3|mKIAA0940	cytoplasmic polyadenylation element binding protein 3	protein-coding	4.5	14.5	8.5	195.5	34.0	12.0	6.5	23.0
Merged-chr3-148981981-3	chr3	148981890	148982090	+	778.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27355.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	7.0	31.5	6.5	147.5	2.5	0.0	2.0	1.0
Merged-chr7-142444329-4	chr7	142444225	142444425	+	943.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009405)	TTS (NM_009405)	1857.0	NM_009405	21953.0	Mm.39469	NM_009405	ENSMUSG00000031097	Tnni2	-	troponin I, skeletal, fast 2	protein-coding	39.0	44.0	25.5	508.5	63.0	17.5	25.0	16.0
Merged-chr2-33329114-2	chr2	33329014	33329214	+	811.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175211, intron 3 of 19)	intron (NM_175211, intron 3 of 19)	42380.0	NM_001290570	241308.0	Mm.274249	NM_175211	ENSMUSG00000038831	Ralgps1	5830418G11Rik|AI853783|AI854138|RALGEF2|RALGPS1A|RalGEF 2|mKIAA0351	Ral GEF with PH domain and SH3 binding motif 1	protein-coding	0.5	6.5	3.0	40.0	18.0	5.0	5.5	7.5
Merged-chr14-74989510-4	chr14	74989402	74989602	+	750.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14416.0	NR_046078	100043169.0	Mm.145900	NR_046078	ENSMUSG00000115019	Gm4278	-	predicted gene 4278	ncRNA	13.0	15.0	11.0	176.0	37.5	7.5	12.5	11.5
Merged-chr12-98703813-3	chr12	98703719	98703919	+	845.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146199, intron 8 of 18)	intron (NM_001146199, intron 8 of 18)	30826.0	NM_011877	24000.0	Mm.4420	NM_011877	ENSMUSG00000021009	Ptpn21	PTPD1|PTPRL10	protein tyrosine phosphatase, non-receptor type 21	protein-coding	15.0	11.5	9.0	225.0	13.5	7.5	8.0	2.0
Merged-chr13-37337416-4	chr13	37337296	37337496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7949.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	31.0	51.0	58.5	696.5	95.5	29.5	52.5	57.5
Merged-chr1-174040940-4	chr1	174040837	174041037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146717)	promoter-TSS (NM_146717)	-996.0	NM_146717	258712.0	Mm.223146	NM_146717	ENSMUSG00000045381	Olfr433	MOR123-1	olfactory receptor 433	protein-coding	138.5	236.0	168.5	1728.0	345.0	122.0	140.0	130.0
Merged-chr15-66883830-3	chr15	66883748	66883948	+	751.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7545.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	10.5	19.5	9.0	202.0	1.0	0.0	0.0	2.5
Merged-chr11-59542579-4	chr11	59542463	59542663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145827)	promoter-TSS (NM_145827)	-123.0	NM_145827	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	163.0	220.0	214.0	2028.5	316.5	143.5	145.5	181.5
Merged-chr4-6366496-4	chr4	6366392	6366592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	812.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	39.0	56.5	37.0	621.0	120.5	27.5	41.0	40.0
Merged-chr17-28622493-4	chr17	28622407	28622607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016795)	promoter-TSS (NM_016795)	14.0	NM_016795	20815.0	Mm.15252	NM_016795	ENSMUSG00000004865	Srpk1	AU017960	serine/arginine-rich protein specific kinase 1	protein-coding	55.5	52.0	33.0	549.5	137.0	36.0	35.5	29.0
Merged-chr9-96399623-4	chr9	96399507	96399707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35176.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	125.5	243.0	146.0	1757.5	344.0	134.5	117.5	137.5
Merged-chr4-117219044-4	chr4	117218951	117219151	+	982.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145637, intron 7 of 12)	intron (NM_001145637, intron 7 of 12)	32866.0	NM_001145637	381544.0	Mm.23504	NM_001033774	ENSMUSG00000060268	Armh1	1700012C08Rik|Gm1661|Gm1662|Ncrna00082	armadillo-like helical domain containing 1	protein-coding	39.0	28.0	23.5	323.5	67.5	26.0	18.0	27.5
Merged-chr17-15831989-4	chr17	15831885	15832085	+	892.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5399.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	16.0	23.0	8.5	183.5	55.5	16.0	6.5	14.0
Merged-chr4-134480961-4	chr4	134480874	134481074	+	710.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12654.0	NM_019641	16765.0	Mm.378957	NM_019641	ENSMUSG00000028832	Stmn1	19k|Lag|Lap18|Op18|P18|P19|Pig|Pp17|Pp18|Pp19|Pr22|Smn	stathmin 1	protein-coding	10.0	20.0	8.5	109.5	20.0	11.5	11.5	6.0
Merged-chr2-72202415-3	chr2	72202323	72202523	+	756.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 11 of 26)	intron (NM_001355478, intron 11 of 26)	-83214.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	0.5	2.0	5.0	74.5	35.5	6.0	10.0	14.5
Merged-chr9-7814084-4	chr9	7813983	7814183	+	783.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	22723.0	NM_001291503	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	4.5	17.0	14.5	118.0	54.5	11.0	8.5	6.0
Merged-chr6-136660045-4	chr6	136659961	136660161	+	947.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	1832.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	11.5	12.0	6.5	139.5	50.0	20.5	12.5	28.0
Merged-chr7-126272380-4	chr7	126272282	126272482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145587)	promoter-TSS (NM_145587)	-114.0	NM_145587	104175.0	Mm.29660	NM_145587	ENSMUSG00000042978	Sbk1	Sbk	SH3-binding kinase 1	protein-coding	36.0	88.5	27.5	512.5	94.0	43.5	59.5	36.0
Merged-chr5-114926964-4	chr5	114926867	114927067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359946, intron 1 of 4)	intron (NM_001359946, intron 1 of 4)	3727.0	NM_001359945	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	60.5	168.5	75.5	1369.0	124.5	59.5	46.0	50.5
Merged-chr17-35980364-1	chr17	35980264	35980464	+	1000.0	f0_balb.idr	promoter-TSS (NM_001165892)	promoter-TSS (NM_001165892)	409.0	NM_008136	14670.0	Mm.335754	NM_008136	ENSMUSG00000024429	Gnl1	Gna-rs1|Gnal1	guanine nucleotide binding protein-like 1	protein-coding	35.0	35.5	45.0	439.5	122.0	38.0	24.0	23.5
Merged-chr16-58498595-4	chr16	58498487	58498687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 2 of 10)	intron (NM_001357433, intron 2 of 10)	24839.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	302.0	430.5	335.0	4391.0	672.0	279.5	363.0	348.5
Merged-chr7-128359316-4	chr7	128359219	128359419	+	914.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58853.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	18.5	12.0	15.5	156.5	33.5	7.0	12.5	18.5
Merged-chr19-45006550-4	chr19	45006465	45006665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153796)	promoter-TSS (NM_153796)	7.0	NM_153796	226153.0	Mm.105585	NM_153796	ENSMUSG00000025209	Twnk	D19Ertd626e|PEO|Peo1|Twinl	twinkle mtDNA helicase	protein-coding	189.5	330.5	234.0	2554.5	401.5	202.0	195.0	168.5
Merged-chr17-78903379-4	chr17	78903306	78903506	+	859.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163625, intron 2 of 6)	intron (NM_001163625, intron 2 of 6)	3586.0	NM_001163625	73671.0	Mm.45514	NM_001163625	ENSMUSG00000038045	Sult6b1	2410078J06Rik|AV101767|ST6B1	sulfotransferase family, cytosolic, 6B, member 1	protein-coding	12.5	15.0	11.5	326.5	25.0	7.5	18.0	12.5
Merged-chr9-118631801-4	chr9	118631688	118631888	+	866.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 3 of 27)	Lx5c|LINE|L1	25079.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	10.5	19.5	10.0	209.0	23.5	2.5	17.5	13.0
Merged-chr1-183439220-3	chr1	183439129	183439329	+	976.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19981.0	NM_001308052	78772.0	Mm.29003	NM_030175	ENSMUSG00000053461	Hhipl2	4930507C10Rik|AW208802|Hhip3	hedgehog interacting protein-like 2	protein-coding	18.5	15.0	4.0	177.0	13.5	6.5	7.0	15.0
Merged-chr6-106663923-1	chr6	106663823	106664023	+	558.0	f1_c57bl6.idr	intron (NM_001109749, intron 17 of 25)	intron (NM_001109749, intron 17 of 25)	85114.0	NM_008370	16192.0	Mm.3448	NM_008370	ENSMUSG00000005364	Il5ra	CD125|CDw125|Il5r	interleukin 5 receptor, alpha	protein-coding	2.0	6.5	2.0	45.0	13.0	8.5	8.5	9.0
Merged-chr14-31164372-5	chr14	31164213	31164413	+	976.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138672, intron 1 of 68)	intron (NM_138672, intron 1 of 68)	4328.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	9.0	17.5	14.0	92.5	39.0	12.0	6.5	14.0
Merged-chr4-16013341-4	chr4	16013249	16013449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355616, intron 1 of 5)	intron (NM_001355616, intron 1 of 5)	489.0	NM_001355615	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	40.0	76.5	48.0	672.5	90.0	29.0	30.5	47.0
Merged-chr2-167348688-6	chr2	167348541	167348741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	537.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	11.0	19.0	28.5	229.5	35.5	11.0	10.5	23.0
Merged-chr11-37043952-4	chr11	37043863	37044063	+	946.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99722.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	19.0	28.0	19.0	448.0	44.5	6.5	21.5	12.0
Merged-chr7-6155186-2	chr7	6155092	6155292	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001013012, intron 1 of 2)	CpG	779.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	36.5	56.0	104.0	804.5	115.5	40.5	48.5	71.5
Merged-chr2-4570536-4	chr2	4570430	4570630	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 2 of 11)	intron (NM_001177844, intron 2 of 11)	10776.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	13.0	8.5	4.0	264.5	22.5	9.0	8.0	4.5
Merged-chr14-54731591-4	chr14	54731493	54731693	+	721.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 7 of 10)	intron (NM_016972, intron 7 of 10)	-19419.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	6.5	9.0	5.0	115.5	31.0	5.5	13.0	13.0
Merged-chr6-29198749-4	chr6	29198666	29198866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13531.0	NM_011829	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	23.5	41.0	21.5	385.5	75.0	17.0	35.0	23.5
Merged-chr11-60835342-4	chr11	60835234	60835434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172112, intron 1 of 6)	ORR1C1|LTR|ERVL-MaLR	4703.0	NM_145428	216820.0	Mm.21475	NM_145428	ENSMUSG00000042569	Dhrs7b	BC003479|C79874|C80074|PexRAP	dehydrogenase/reductase (SDR family) member 7B	protein-coding	41.0	50.0	27.0	432.0	87.5	40.5	37.5	46.5
Merged-chr19-60226659-4	chr19	60226552	60226752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358271)	promoter-TSS (NM_001358271)	49.0	NR_152391	76539.0	Mm.290183	NM_029648	ENSMUSG00000057858	Fam204a	2310065H12Rik|2610015K05Rik|D19Ertd737e	family with sequence similarity 204, member A	protein-coding	116.5	158.0	108.5	1920.5	216.5	79.5	101.0	79.0
Merged-chr3-121491076-4	chr3	121490965	121491165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145394, intron 10 of 14)	intron (NM_145394, intron 10 of 14)	41279.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	67.0	101.0	69.0	1134.0	147.5	42.5	65.0	80.0
Merged-chr3-117438932-4	chr3	117438814	117439014	+	813.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78038.0	NM_177664	229791.0	Mm.140138	NM_177664	ENSMUSG00000044667	Plppr4	A330086D10|D3Bwg0562e|Lppr4|PRG-1|mKIAA0455	phospholipid phosphatase related 4	protein-coding	14.5	6.5	7.0	127.0	23.0	10.5	10.5	9.5
Merged-chr7-100499963-3	chr7	100499866	100500066	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011671)	TTS (NM_011671)	6608.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	23.5	24.0	4.0	49.5	16.5	9.5	11.0	8.0
Merged-chr11-59559807-4	chr11	59559691	59559891	+	857.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 7 of 9)	intron (NR_153314, intron 7 of 9)	11947.0	NM_001011789	257962.0	Mm.377316	NM_001011789	ENSMUSG00000059610	Olfr222	MOR256-45P	olfactory receptor 222	protein-coding	13.5	26.0	24.0	305.5	30.0	7.0	9.0	15.0
Merged-chr2-57124184-4	chr2	57124086	57124286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001139509)	promoter-TSS (NM_001139509)	-183.0	NM_001139509	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	109.0	163.0	134.5	2434.0	315.5	91.5	213.0	155.0
Merged-chr5-121835544-4	chr5	121835405	121835605	+	979.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306127, intron 1 of 8)	intron (NM_001306127, intron 1 of 8)	599.0	NM_001306126	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	10.5	19.0	31.5	179.5	29.5	8.0	12.5	15.5
Merged-chr9-104234495-4	chr9	104234454	104234654	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 5 of 56)	intron (NM_001359740, intron 5 of 56)	28376.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	7.5	11.0	13.0	432.5	50.5	16.5	20.0	28.5
Merged-chr11-76482379-4	chr11	76482277	76482477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 2 of 21)	intron (NM_001346670, intron 2 of 21)	12118.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	45.5	87.0	36.5	616.5	97.5	51.5	52.5	27.5
Merged-chr5-25084017-3	chr5	25083915	25084115	+	974.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	intron (NM_145401, intron 1 of 15)	16627.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	27.5	26.0	16.5	589.5	13.0	6.5	8.5	10.0
Merged-chr7-43672468-3	chr7	43672389	43672589	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145582, intron 1 of 2)	intron (NM_145582, intron 1 of 2)	458.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	6.0	12.0	8.5	60.5	38.0	7.0	13.0	7.0
Merged-chr9-106353979-4	chr9	106353882	106354082	+	958.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14650.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	20.5	38.5	14.5	229.5	46.5	25.0	19.5	12.0
Merged-chr9-95567176-4	chr9	95567073	95567273	+	923.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7356.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	18.5	26.5	16.5	278.5	40.5	14.0	16.5	15.0
Merged-chr1-43939494-4	chr1	43939385	43939585	+	811.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009418, intron 1 of 29)	intron (NM_009418, intron 1 of 29)	5491.0	NM_009418	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	20.5	20.0	18.0	207.0	22.0	9.5	6.5	5.0
Merged-chr2-115582067-2	chr2	115581967	115582167	+	776.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207264, intron 1 of 10)	intron (NM_207264, intron 1 of 10)	351.0	NM_001145898	399568.0	Mm.134929	NM_207264	ENSMUSG00000040282	BC052040	-	cDNA sequence BC052040	protein-coding	10.0	8.0	9.0	163.5	20.5	5.5	8.0	7.0
Merged-chr1-171388531-4	chr1	171388413	171388613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005508)	promoter-TSS (NM_001005508)	-447.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	57.5	104.0	33.5	682.5	144.0	66.0	42.5	37.0
Merged-chr7-118483216-4	chr7	118483066	118483266	+	695.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8809.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	12.0	16.0	11.0	129.5	22.0	19.0	9.0	5.0
Merged-chr9-63043708-3	chr9	63043531	63043731	+	718.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62752.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	3.5	3.5	6.0	56.0	17.0	6.0	6.5	8.5
Merged-chr12-55480989-4	chr12	55480937	55481137	+	917.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11610.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	8.5	18.0	5.0	28.5	13.0	7.0	1.0	0.0
Merged-chr14-52244571-4	chr14	52244461	52244661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6989.0	NM_201637	67772.0	Mm.289934	NM_201637	ENSMUSG00000053754	Chd8	5830451P18Rik|AU015341|Duplin|HELSNF1|mKIAA1564	chromodomain helicase DNA binding protein 8	protein-coding	158.5	196.5	120.5	2042.5	290.0	112.5	164.5	131.5
Merged-chr7-110221715-4	chr7	110221585	110221785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009302)	promoter-TSS (NM_009302)	-18.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	54.0	97.0	48.5	710.5	187.5	71.5	64.5	84.5
Merged-chr10-71349445-4	chr10	71349305	71349505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	intron (NM_027184, intron 1 of 5)	1642.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	27.0	52.5	63.5	693.0	31.5	25.0	20.0	32.5
Merged-chr6-135261304-4	chr6	135261198	135261398	+	965.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6962.0	NM_001080553	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	21.0	17.5	12.5	204.5	46.5	18.0	20.5	13.0
Merged-chr14-31408038-4	chr14	31407938	31408138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	9639.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	50.5	42.0	21.5	847.5	91.0	20.5	27.5	44.5
Merged-chr14-79515676-4	chr14	79515592	79515792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286412)	promoter-TSS (NM_001286412)	18.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	28.0	43.5	19.5	322.0	72.0	21.5	27.5	32.0
Merged-chr15-82118898-4	chr15	82118811	82119011	+	863.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028897, intron 26 of 30)	RLTR22_Mur|LTR|ERVK	-9011.0	NM_172428	76457.0	Mm.440373	NM_172428	ENSMUSG00000068114	Ccdc134	2310042L06Rik|AW208859	coiled-coil domain containing 134	protein-coding	2.0	17.0	9.0	131.5	22.5	12.0	24.5	9.5
Merged-chr1-136551122-2	chr1	136551025	136551225	+	729.650024	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-73776.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	11.5	4.5	9.0	102.0	20.5	9.5	11.5	8.5
Merged-chr13-51418819-4	chr13	51418795	51418995	+	909.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010101, exon 2 of 2)	exon (NM_010101, exon 2 of 2)	10277.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	6.5	17.5	12.0	62.0	31.0	10.5	9.0	13.0
Merged-chr9-77544864-4	chr9	77544775	77544975	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172528)	promoter-TSS (NM_172528)	-23.0	NM_001146048	214345.0	Mm.28534	NM_172528	ENSMUSG00000032352	Lrrc1	A430093J20Rik|AU016091|D030059I21|mKIAA4018	leucine rich repeat containing 1	protein-coding	31.5	38.0	17.0	534.5	44.0	15.0	37.0	23.0
Merged-chr9-88977111-2	chr9	88977011	88977211	+	788.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20191.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	4.0	9.0	3.0	34.0	20.0	9.5	7.0	7.5
Merged-chr13-9472864-4	chr13	9472754	9472954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	196329.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	33.5	21.0	24.5	373.0	61.5	33.5	23.5	23.5
Merged-chr7-98309542-4	chr7	98309440	98309640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025408)	promoter-TSS (NM_025408)	2.0	NM_001360616	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	103.0	160.5	67.5	1412.0	251.0	78.0	106.0	110.0
Merged-chr4-136602778-4	chr4	136602680	136602880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347221)	promoter-TSS (NM_001347221)	-57.0	NM_001347221	99982.0	Mm.28540	NM_133872	ENSMUSG00000036940	Kdm1a	1810043O07Rik|AA408884|Aof2|D4Ertd478e|Kdm1|Lsd1|mKIAA0601	lysine (K)-specific demethylase 1A	protein-coding	77.0	100.5	53.0	642.0	113.0	55.5	66.0	63.0
Merged-chr3-93555310-4	chr3	93555179	93555379	+	882.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009112, intron 1 of 2)	CpG	162.0	NM_009112	20194.0	Mm.1	NM_009112	ENSMUSG00000041959	S100a10	42C|AA409961|AL024248|CAL12|CLP11|Cal1l|p10|p11	S100 calcium binding protein A10 (calpactin)	protein-coding	10.5	9.0	17.0	134.5	19.0	6.5	4.5	10.0
Merged-chr10-82178572-5	chr10	82178434	82178634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	50521.0	NM_001163064	216177.0	Mm.482395	NM_001163064	ENSMUSG00000078435	AU041133	-	expressed sequence AU041133	protein-coding	48.0	56.0	91.0	721.0	117.0	59.0	73.0	71.0
Merged-chr7-116524712-4	chr7	116524625	116524825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360375, intron 5 of 14)	intron (NM_001360375, intron 5 of 14)	20356.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	21.0	21.0	20.5	552.5	48.0	18.0	33.5	25.0
Merged-chr6-72109086-2	chr6	72108986	72109186	+	627.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	11478.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	0.5	4.5	1.5	47.5	9.5	8.5	8.0	7.5
Merged-chr1-86440705-4	chr1	86440616	86440816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14387.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	53.5	77.0	22.0	535.0	122.5	55.5	65.0	52.5
Merged-chr8-73293863-4	chr8	73293757	73293957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	MTD|LTR|ERVL-MaLR	59683.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	35.0	60.5	38.0	354.5	114.0	30.0	35.0	25.5
Merged-chr3-30969353-4	chr3	30969238	30969438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165955)	promoter-TSS (NM_001165955)	77.0	NM_001165954	241915.0	Mm.233173	NM_153421	ENSMUSG00000037652	Phc3	E030046K01Rik|Edr3|Hph3	polyhomeotic 3	protein-coding	39.5	46.5	73.0	522.0	70.5	34.5	36.0	44.5
Merged-chr5-134452505-4	chr5	134452356	134452556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081462, intron 1 of 29)	intron (NM_001081462, intron 1 of 29)	3806.0	NM_001081465	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	40.0	91.0	88.0	1028.0	187.5	52.5	72.0	55.0
Merged-chr5-120558976-4	chr5	120558883	120559083	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145853, intron 3 of 27)	intron (NM_145853, intron 3 of 27)	29630.0	NM_145853	252972.0	Mm.114054	NM_145853	ENSMUSG00000032741	Tpcn1	5730403B01Rik|Tpc1|mKIAA1169	two pore channel 1	protein-coding	25.0	29.0	32.5	324.0	35.0	30.5	21.0	29.5
Merged-chr2-167842535-4	chr2	167842420	167842620	+	826.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89807.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	12.5	7.5	9.5	166.0	23.0	3.0	9.5	15.0
Merged-chr5-137502540-4	chr5	137502421	137502621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028753)	promoter-TSS (NM_028753)	-92.0	NM_028753	74097.0	Mm.290242	NM_028753	ENSMUSG00000029715	Pop7	0610037N12Rik|AI852017|Rpp20	processing of precursor 7, ribonuclease P family, (S. cerevisiae)	protein-coding	119.0	205.0	61.0	1168.5	280.5	140.5	120.0	129.5
Merged-chr15-13370900-1	chr15	13370800	13371000	+	823.0	f0_balb.idr	Intergenic	Intergenic	-197225.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	4.5	8.5	7.5	115.0	20.0	5.0	0.5	1.0
Merged-chr7-140955976-4	chr7	140955852	140956052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030694)	promoter-TSS (NM_030694)	9.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	32.0	54.5	32.5	370.0	81.0	24.0	48.5	30.5
Merged-chr8-70659768-4	chr8	70659583	70659783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023217)	promoter-TSS (NM_023217)	55.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	57.0	77.0	51.0	761.5	126.5	57.5	50.0	51.5
Merged-chr16-33166492-1	chr16	33166392	33166592	+	574.0	f0_balb.idr	Intergenic	B3|SINE|B2	-18579.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	2.0	12.5	2.0	76.0	10.0	5.0	8.0	11.5
Merged-chr2-181483692-4	chr2	181483525	181483725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9581.0	NM_183181	241850.0	Mm.87455	NM_183181	ENSMUSG00000055882	Abhd16b	1700095H12	abhydrolase domain containing 16B	protein-coding	98.5	149.5	74.0	738.5	117.0	45.5	34.5	24.5
Merged-chr3-105800786-3	chr3	105800673	105800873	+	972.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145541, intron 1 of 7)	CpG	608.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	9.0	19.0	22.5	128.0	36.0	16.0	10.0	23.5
Merged-chr6-97396291-3	chr6	97396172	97396372	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346637, exon 5 of 23)	exon (NM_001346637, exon 5 of 23)	63014.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	10.0	5.5	5.5	100.5	11.5	3.0	4.5	8.5
Merged-chr8-41319218-3	chr8	41319146	41319346	+	734.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 29 of 37)	intron (NM_023662, intron 29 of 37)	55451.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	1.5	1.5	0.0	9.5	36.0	7.5	18.0	11.5
Merged-chr1-64374874-4	chr1	64374783	64374983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157921.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	215.5	316.5	270.0	3092.0	558.0	235.5	241.0	208.0
Merged-chr17-37083527-4	chr17	37083422	37083622	+	978.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2714.0	NM_146477	258469.0	Mm.271392	NM_146477	ENSMUSG00000056600	Olfr90	MOR256-21|bM573K1.2	olfactory receptor 90	protein-coding	8.5	35.0	27.0	353.5	86.5	17.0	34.5	27.0
Merged-chr12-17691470-4	chr12	17691342	17691542	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	CpG	633.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	15.5	14.5	21.0	125.0	30.0	7.0	9.0	18.5
Merged-chr19-16009852-4	chr19	16009750	16009950	+	741.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045355, intron 2 of 2)	intron (NR_045355, intron 2 of 2)	24775.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	12.0	18.5	11.0	135.0	29.0	11.0	10.0	10.0
Merged-chr6-88033707-4	chr6	88033605	88033805	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293652, intron 1 of 7)	intron (NM_001293652, intron 1 of 7)	11312.0	NM_001293653	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	23.5	28.5	16.0	402.5	58.5	20.5	28.5	24.0
Merged-chr1-173401616-4	chr1	173401506	173401706	+	734.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18998.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	16.0	19.0	14.5	220.0	38.5	15.0	11.5	11.5
Merged-chr16-92021163-4	chr16	92021076	92021276	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-37146.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	41.5	69.5	18.0	314.5	126.0	22.5	47.5	25.0
Merged-chr8-36247177-4	chr8	36247086	36247286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081150, intron 1 of 11)	intron (NM_001081150, intron 1 of 11)	2330.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	96.0	104.5	83.0	1277.0	255.5	68.0	134.0	82.5
Merged-chr3-109062610-4	chr3	109062507	109062707	+	982.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17892.0	NM_029054	74686.0	Mm.307948	NM_029054	ENSMUSG00000027880	Slc25a54	4930443G12Rik|SCaMC-1like	solute carrier family 25, member 54	protein-coding	21.0	30.0	21.0	337.0	47.0	26.5	23.0	15.5
Merged-chr4-133662543-3	chr4	133662493	133662693	+	930.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001145956, exon 3 of 3)	exon (NM_001145956, exon 3 of 3)	10054.0	NM_001145955	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	18.0	27.0	17.0	174.5	0.0	0.0	0.5	3.0
Merged-chr12-100839433-4	chr12	100839325	100839525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145448, intron 4 of 12)	intron (NM_145448, intron 4 of 12)	60099.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	49.5	58.0	57.5	895.5	250.0	67.0	98.0	65.5
Merged-chr13-119838103-4	chr13	119837982	119838182	+	877.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7865.0	NM_001001449	380878.0	Mm.327311	NM_001001449	ENSMUSG00000094237	AF067063	-	cDNA sequence AF067063	protein-coding	5.5	20.5	26.0	168.0	31.5	8.5	12.5	9.5
Merged-chr1-183388949-4	chr1	183388853	183389053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277959)	promoter-TSS (NM_001277959)	-32.0	NM_001277959	21339.0	Mm.383556	NM_021466	ENSMUSG00000072258	Taf1a	TAFI48|mTAFI48	TATA-box binding protein associated factor, RNA polymerase I, A	protein-coding	56.0	71.5	38.5	662.5	133.0	47.5	62.0	34.0
Merged-chr2-53011437-3	chr2	53011346	53011546	+	968.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	153578.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	7.0	7.5	18.0	168.5	19.5	4.5	5.5	3.5
Merged-chr13-34279144-4	chr13	34279086	34279286	+	836.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	65996.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	10.5	11.0	6.0	157.0	29.0	8.0	10.0	8.0
Merged-chr14-30695786-4	chr14	30695696	30695896	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19053.0	NM_019460	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	18.5	36.5	16.0	282.5	35.0	7.0	11.5	17.0
Merged-chr17-37029521-2	chr17	37029416	37029616	+	905.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6118.0	NM_010814	17441.0	Mm.210857	NM_010814	ENSMUSG00000076439	Mog	B230317G11Rik	myelin oligodendrocyte glycoprotein	protein-coding	7.0	7.0	7.0	67.5	20.0	7.0	9.0	4.5
Merged-chr3-154584551-4	chr3	154584482	154584682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168358, intron 4 of 4)	B4A|SINE|B4	-12129.0	NM_009968	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	31.5	51.5	74.0	1412.5	70.5	26.5	38.0	37.0
Merged-chr6-145291555-4	chr6	145291458	145291658	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41006.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	21.5	35.5	19.0	355.5	35.5	10.0	34.0	16.5
Merged-chr11-23067851-4	chr11	23067754	23067954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	54467.0	NM_028672	73873.0	Mm.252406	NM_028672	ENSMUSG00000049811	Fam161a	4930430E16Rik	family with sequence similarity 161, member A	protein-coding	91.0	112.5	91.0	1500.0	221.5	68.5	113.5	67.0
Merged-chr5-96244723-4	chr5	96244626	96244826	+	875.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053158, intron 7 of 8)	L1ME1|LINE|L1	34611.0	NM_053158	94061.0	Mm.295499	NM_053158	ENSMUSG00000029486	Mrpl1	2410002L03Rik|5830418D04Rik|AI462572|L1mt	mitochondrial ribosomal protein L1	protein-coding	8.0	19.0	13.5	327.5	28.0	11.0	18.0	16.0
Merged-chr15-9140434-4	chr15	9140312	9140512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013787)	promoter-TSS (NM_013787)	42.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	187.5	302.0	193.0	3554.0	578.0	188.5	268.0	195.0
Merged-chr17-32389417-4	chr17	32389307	32389507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033525)	promoter-TSS (NR_033525)	32.0	NR_033525	22404.0	Mm.274948	NM_011717	ENSMUSG00000024050	Wiz	-	widely-interspaced zinc finger motifs	protein-coding	52.0	80.5	55.0	827.0	145.0	57.5	63.5	46.0
Merged-chr16-78204968-4	chr16	78204836	78205036	+	841.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TA)n|Simple_repeat|Simple_repeat	50518.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	2.5	15.5	3.5	77.0	31.0	6.5	9.5	11.5
Merged-chr4-150212659-4	chr4	150212591	150212791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B1|LTR|ERVK	-11556.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	104.5	192.5	130.0	1245.0	310.0	110.5	130.0	92.5
Merged-chr9-121331634-2	chr9	121331534	121331734	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	L1M4|LINE|L1	34132.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	6.5	5.0	4.5	70.0	14.5	1.5	2.0	3.5
Merged-chr6-135240582-4	chr6	135240491	135240691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080552, intron 4 of 5)	intron (NM_001080552, intron 4 of 5)	7293.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	46.5	52.5	39.5	931.0	67.5	39.0	52.5	45.0
Merged-chr17-47777957-2	chr17	47777847	47778047	+	909.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	B1_Mus2|SINE|Alu	-7797.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	3.0	3.0	4.0	37.5	5.5	7.0	9.5	12.0
Merged-chr7-47022706-4	chr7	47022606	47022806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-14292.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	151.5	252.0	224.0	2599.0	340.0	132.0	129.0	138.5
Merged-chr19-16085273-4	chr19	16085179	16085379	+	988.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47552.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	22.5	32.5	15.0	330.0	62.5	21.5	9.0	18.5
Merged-chr13-100849294-4	chr13	100849225	100849425	+	901.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-15898.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	13.5	48.5	11.0	91.5	50.5	13.5	24.5	10.0
Merged-chr7-19175847-4	chr7	19175748	19175948	+	863.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347582)	promoter-TSS (NM_001347582)	-573.0	NM_001347582	72205.0	Mm.154121	NM_028153	ENSMUSG00000040811	Eml2	1600029N02Rik|EMAP-2	echinoderm microtubule associated protein like 2	protein-coding	11.5	15.0	11.5	78.5	29.5	10.5	11.0	12.5
Merged-chr16-10418012-4	chr16	10417897	10418097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011955, intron 4 of 10)	intron (NM_011955, intron 4 of 10)	6059.0	NM_011955	26425.0	Mm.29037	NM_011955	ENSMUSG00000022503	Nubp1	-	nucleotide binding protein 1	protein-coding	68.0	115.0	73.5	986.0	119.5	32.5	66.0	54.0
Merged-chr3-103728147-4	chr3	103728078	103728278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9823.0	NM_133859	99543.0	Mm.211535	NM_133859	ENSMUSG00000027848	Olfml3	2810002E22Rik|AI115209|AW550633|HNOEL-iso|ONT3|mONT3	olfactomedin-like 3	protein-coding	26.0	62.0	21.5	491.0	135.0	51.5	57.5	47.0
Merged-chr9-119395106-3	chr9	119395006	119395206	+	982.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7072.0	NM_007397	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	9.0	11.0	8.5	40.0	69.5	21.0	29.5	19.0
Merged-chr13-95887727-3	chr13	95887608	95887808	+	711.633362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	4214.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	4.5	16.5	9.5	166.5	14.0	9.5	5.5	9.5
Merged-chr16-94313446-4	chr16	94313338	94313538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139145, intron 1 of 10)	CpG	125.0	NM_139145	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	148.5	227.0	213.0	1972.0	302.0	169.5	159.0	165.0
Merged-chr9-46106396-6	chr9	46106273	46106473	+	807.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	93553.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	1.0	11.5	7.0	79.0	18.0	5.5	4.5	11.5
Merged-chr12-91606818-3	chr12	91606726	91606926	+	759.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16339.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	3.5	8.5	4.5	193.0	16.5	4.5	8.0	4.5
Merged-chr16-49904530-4	chr16	49904433	49904633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 8 of 9)	Lx8|LINE|L1	48879.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	55.0	52.5	97.5	1277.0	77.0	30.5	51.0	37.0
Merged-chr5-64961155-8	chr5	64961051	64961251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1055.0	NM_011604	21899.0	Mm.42146	NM_011604	ENSMUSG00000051498	Tlr6	-	toll-like receptor 6	protein-coding	58.5	68.0	87.5	800.0	197.0	97.0	82.0	112.5
Merged-chr11-70475667-2	chr11	70475567	70475767	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-15683.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	15.5	24.0	20.0	136.5	57.0	13.0	11.0	12.5
Merged-chr2-159784881-4	chr2	159784814	159785014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162427.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	70.5	77.5	80.5	941.5	136.5	59.0	49.5	44.0
Merged-chr2-35728756-3	chr2	35728645	35728845	+	761.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001114124, exon 16 of 16)	3' UTR (NM_001114124, exon 16 of 16)	32013.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	4.5	7.0	9.0	178.0	17.0	2.0	8.0	5.5
Merged-chr12-8947476-2	chr12	8947376	8947576	+	813.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010770)	promoter-TSS (NM_010770)	-453.0	NM_010770	17182.0	Mm.42226	NM_010770	ENSMUSG00000020583	Matn3	AV009181	matrilin 3	protein-coding	2.0	3.0	5.0	93.5	19.5	4.5	6.5	5.0
Merged-chr1-65010328-4	chr1	65010248	65010448	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22411.0	NM_001310617	70861.0	Mm.18725	NM_027582	ENSMUSG00000025955	Akr1cl	4921521F21Rik|AI451536|AI503553	aldo-keto reductase family 1, member C-like	protein-coding	18.0	46.0	35.5	317.5	86.0	27.0	29.0	37.0
Merged-chr6-148896989-3	chr6	148896889	148897089	+	719.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301351)	promoter-TSS (NM_001301351)	-752.0	NM_181541	232560.0	Mm.150568	NM_181541	ENSMUSG00000030309	Caprin2	C1qdc1|Eeg1|rng140	caprin family member 2	protein-coding	6.0	9.5	9.5	90.5	16.0	10.0	7.5	4.0
Merged-chr7-45742055-3	chr7	45741914	45742114	+	718.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360784, intron 1 of 5)	polypyrimidine|Low_complexity|Low_complexity	464.0	NM_001360784	54200.0	Mm.271634	NM_017465	ENSMUSG00000003271	Sult2b1	AI326997|BB173635|ST2B1|SULT2B	sulfotransferase family, cytosolic, 2B, member 1	protein-coding	0.5	1.0	0.0	38.5	18.0	8.5	11.0	17.0
Merged-chr11-48856606-4	chr11	48856516	48856716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14804.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	37.5	46.5	25.5	404.0	98.5	43.5	29.0	45.0
Merged-chr10-8415734-3	chr10	8415636	8415836	+	866.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 1 of 7)	intron (NM_177387, intron 1 of 7)	103089.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	9.5	9.5	7.0	270.5	20.0	7.0	7.0	18.5
Merged-chr12-83688635-4	chr12	83688538	83688738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008943)	promoter-TSS (NM_008943)	75.0	NM_008943	19164.0	Mm.998	NM_008943	ENSMUSG00000019969	Psen1	Ad3h|PS-1|PS1|S182	presenilin 1	protein-coding	63.5	92.0	43.0	551.0	133.0	54.5	48.0	50.5
Merged-chr8-26887127-7	chr8	26887045	26887245	+	966.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-62722.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	17.5	5.0	9.5	146.5	31.5	11.5	11.0	14.0
Merged-chr4-133207027-4	chr4	133206897	133207097	+	862.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	5539.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	35.5	43.0	29.0	331.5	5.5	11.0	11.0	6.0
Merged-chr2-90501030-2	chr2	90500930	90501130	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	ORR1C2|LTR|ERVL-MaLR	-21856.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	8.0	9.0	2.0	22.5	9.5	11.0	6.5	9.0
Merged-chr19-37550471-4	chr19	37550368	37550568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175353)	promoter-TSS (NM_175353)	50.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	37.0	39.0	40.0	255.0	52.0	26.0	26.0	29.0
Merged-chr19-44388645-4	chr19	44388553	44388753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19056.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	148.5	251.5	137.0	2122.5	290.5	92.5	137.0	104.5
Merged-chr15-28182103-4	chr15	28181986	28182186	+	888.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21680.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	14.0	26.0	10.0	318.0	23.0	9.5	10.5	26.0
Merged-chr12-40277832-4	chr12	40277722	40277922	+	981.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	54458.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	20.0	21.5	17.0	463.5	69.0	17.5	22.5	20.0
Merged-chr9-106469578-3	chr9	106469480	106469680	+	697.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001311150)	TTS (NM_001311150)	-3640.0	NM_001159652	436090.0	Mm.482905	NM_001159652	ENSMUSG00000091735	Gpr62	4933402E03Rik	G protein-coupled receptor 62	protein-coding	6.0	9.5	10.5	80.0	4.5	0.5	4.5	6.0
Merged-chr4-120667237-4	chr4	120667133	120667333	+	855.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019563, exon 1 of 1)	exon (NM_019563, exon 1 of 1)	670.0	NM_019563	56222.0	Mm.272646	NM_019563	ENSMUSG00000070803	Cited4	MRG-2|Mrg2	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 4	protein-coding	6.0	5.5	9.5	165.5	15.5	13.5	5.0	11.5
Merged-chr17-23968004-5	chr17	23967915	23968115	+	811.900024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7215.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	4.0	1.0	7.5	22.0	25.0	8.0	4.5	10.0
Merged-chr17-31119549-4	chr17	31119421	31119621	+	849.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10090.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	12.5	6.0	8.5	55.5	21.0	16.0	17.5	13.0
Merged-chr7-126399688-4	chr7	126399581	126399781	+	634.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2944.0	NM_010900	18020.0	Mm.1389	NM_010900	ENSMUSG00000030722	Nfatc2ip	D7Ertd304e|NIP45	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 interacting protein	protein-coding	6.5	6.0	7.0	70.0	39.0	6.5	4.5	11.0
Merged-chr19-40679177-4	chr19	40679081	40679281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	HAL1|LINE|L1	19411.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	96.0	108.0	151.5	2051.0	212.0	51.5	156.0	98.0
Merged-chr9-116138862-5	chr9	116138678	116138878	+	798.546692	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	36585.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	5.5	8.5	5.5	102.0	10.5	5.5	2.0	4.5
Merged-chr4-42954557-4	chr4	42954443	42954643	+	780.174988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355439, intron 3 of 4)	intron (NM_001355439, intron 3 of 4)	4147.0	NM_001355440	56323.0	Mm.20437	NM_019874	ENSMUSG00000036052	Dnajb5	1110058L06Rik|AI462558|Hsc40|Hsp40-3	DnaJ heat shock protein family (Hsp40) member B5	protein-coding	10.0	17.5	5.5	115.0	20.0	3.5	13.5	10.5
Merged-chr6-116767879-2	chr6	116767779	116767979	+	713.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51121.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	6.0	5.0	2.0	87.0	7.5	5.0	6.5	7.5
Merged-chr8-123043490-4	chr8	123043402	123043602	+	961.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045268, exon 1 of 1)	non-coding (NR_045268, exon 1 of 1)	927.0	NR_045268	100503178.0	Mm.294938	NR_045268	ENSMUSG00000099881	2810013P06Rik	-	RIKEN cDNA 2810013P06 gene	ncRNA	16.0	20.0	8.5	122.5	34.5	9.0	6.0	14.0
Merged-chr4-123917323-4	chr4	123917180	123917380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017475)	promoter-TSS (NM_017475)	-153.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	146.0	170.0	131.0	1857.5	398.0	153.5	157.0	167.5
Merged-chr19-32108107-4	chr19	32107989	32108189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4949.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	55.0	66.0	103.5	852.5	87.0	43.5	42.0	40.5
Merged-chr13-59011711-4	chr13	59011623	59011823	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	204026.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	32.0	30.5	23.0	550.0	44.0	16.5	26.0	25.5
Merged-chr15-3270126-4	chr15	3270024	3270224	+	885.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009155)	promoter-TSS (NM_009155)	-643.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	10.0	14.5	6.5	118.5	24.0	3.5	13.0	8.5
Merged-chr10-93261309-4	chr10	93261216	93261416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282967, intron 2 of 3)	intron (NM_001282967, intron 2 of 3)	49843.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	96.5	99.0	143.0	1794.5	101.0	45.0	71.5	68.5
Merged-chr10-67748808-4	chr10	67748699	67748899	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163863.0	NM_178679	216049.0	Mm.268346	NM_178679	ENSMUSG00000037855	Zfp365	AI839779|AV340892|DBZ|Su48|Znf365|talanin	zinc finger protein 365	protein-coding	18.5	23.5	21.5	553.5	60.5	14.5	23.0	21.5
Merged-chr5-124480353-4	chr5	124480244	124480444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2109.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	148.5	284.0	182.0	2684.5	420.5	159.5	209.0	182.5
Merged-chr7-97336833-4	chr7	97336745	97336945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039039, intron 1 of 1)	MTE2a|LTR|ERVL-MaLR	4522.0	NM_001039039	622320.0	Mm.334029	NM_001039039	ENSMUSG00000044952	Kctd21	EG622320	potassium channel tetramerisation domain containing 21	protein-coding	67.0	104.0	42.0	1091.0	77.0	32.5	40.0	39.5
Merged-chr2-19048405-4	chr2	19048310	19048510	+	878.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50091.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	15.0	6.5	2.5	129.5	15.0	11.0	15.0	12.5
Merged-chr18-32857649-4	chr18	32857576	32857776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110015, intron 16 of 22)	intron (NM_001110015, intron 16 of 22)	-20389.0	NR_045381	75795.0	Mm.382634	NR_045381	ENSMUSG00000097553	4930455D15Rik	-	RIKEN cDNA 4930455D15 gene	ncRNA	22.5	36.0	42.0	594.5	55.5	19.5	38.0	29.0
Merged-chr17-57231726-4	chr17	57231626	57231826	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3590.0	NM_009778	12266.0	Mm.19131	NM_009778	ENSMUSG00000024164	C3	AI255234|ASP|HSE-MSF|Plp	complement component 3	protein-coding	20.5	34.5	14.5	72.0	80.5	17.5	4.5	15.5
Merged-chr3-154885706-2	chr3	154885604	154885804	+	941.708374	f0_c57.idr|f1_c57bl6.idr	intron (NM_177066, intron 17 of 24)	intron (NM_177066, intron 17 of 24)	169703.0	NM_177066	435766.0	Mm.210428	NM_177066	ENSMUSG00000040086	Tnni3k	Cark|D830019J24Rik	TNNI3 interacting kinase	protein-coding	0.0	0.0	3.0	3.5	47.0	12.0	38.5	27.5
Merged-chr6-122756069-2	chr6	122755969	122756169	+	852.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13324.0	NM_011401	20527.0	Mm.395108	NM_011401	ENSMUSG00000003153	Slc2a3	AA408729|AL023014|AL024341|AU040424|C78366|Glut-3|Glut3	solute carrier family 2 (facilitated glucose transporter), member 3	protein-coding	5.0	6.0	5.0	21.5	33.5	9.0	7.0	7.0
Merged-chr16-38773040-3	chr16	38772949	38773149	+	621.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178924)	TTS (NM_178924)	27154.0	NM_178924	22268.0	Mm.130793	NM_178924	ENSMUSG00000049436	Upk1b	AI413235|Tspan20|UPIb|Upk1	uroplakin 1B	protein-coding	5.5	10.0	16.5	113.0	21.5	3.0	9.5	8.5
Merged-chr13-113351774-2	chr13	113351674	113351874	+	668.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142115.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	5.0	2.0	2.0	7.0	8.0	8.5	5.5	5.0
Merged-chr14-77825297-4	chr14	77825204	77825404	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025384)	TTS (NM_025384)	-26336.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	44.0	28.5	36.5	403.5	41.0	36.5	18.0	18.5
Merged-chr2-157138307-7	chr2	157138223	157138423	+	960.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3101.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	6.5	6.0	6.0	68.0	9.0	11.5	3.5	8.5
Merged-chr12-34195667-4	chr12	34195575	34195775	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 23 of 27)	MusHAL1|LINE|L1	238004.0	NM_011658	22160.0	Mm.3280	NM_011658	ENSMUSG00000035799	Twist1	M-Twist|Pde|Ska10|Ska<m10Jus>|Twist|bHLHa38|pdt	twist basic helix-loop-helix transcription factor 1	protein-coding	13.0	17.0	22.0	200.0	44.0	21.0	21.0	21.5
Merged-chr14-31376551-4	chr14	31376460	31376660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 6 of 7)	intron (NM_001347585, intron 6 of 7)	39922.0	NM_009796	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	48.5	72.5	64.0	1317.5	164.0	59.5	92.5	103.0
Merged-chr16-78376882-4	chr16	78376787	78376987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009770)	promoter-TSS (NM_009770)	-77.0	NM_009770	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	232.5	326.5	270.0	3500.5	567.0	187.0	294.0	207.5
Merged-chr19-5648886-4	chr19	5648758	5648958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009045)	TTS (NM_009045)	11368.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	84.5	150.0	74.0	1105.0	256.0	113.0	109.5	75.5
Merged-chr10-128097904-4	chr10	128097763	128097963	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 2 of 29)	intron (NM_054078, intron 2 of 29)	5080.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	18.0	8.5	11.0	209.0	56.5	8.0	11.0	19.5
Merged-chr11-19968009-4	chr11	19967905	19968105	+	877.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	43563.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	16.0	41.5	10.5	83.0	55.0	8.5	20.0	12.5
Merged-chr13-24831581-4	chr13	24831487	24831687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019551)	promoter-TSS (NM_019551)	-72.0	NM_019551	56196.0	Mm.427162	NM_019551	ENSMUSG00000035958	Tdp2	D13Ertd656e|Ttrap	tyrosyl-DNA phosphodiesterase 2	protein-coding	216.5	299.5	178.5	2917.0	455.5	203.5	220.5	166.5
Merged-chr17-83214295-4	chr17	83214191	83214391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134117)	promoter-TSS (NM_134117)	-992.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	60.0	73.0	55.5	994.0	151.5	53.0	62.0	52.0
Merged-chr18-80041826-4	chr18	80041717	80041917	+	939.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5078.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	18.0	40.5	9.0	359.5	50.5	21.0	17.0	18.5
Merged-chr13-47217470-4	chr13	47217359	47217559	+	967.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 2 of 7)	intron (NM_146042, intron 2 of 7)	23456.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	38.0	52.0	33.5	618.0	42.5	19.5	14.0	17.5
Merged-chr1-36815292-3	chr1	36815188	36815388	+	859.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 25 of 40)	intron (NM_018872, intron 25 of 40)	36304.0	NM_001289612	22637.0	Mm.8038	NM_009539	ENSMUSG00000026117	Zap70	Srk|ZAP-70|mrtle|mur	zeta-chain (TCR) associated protein kinase	protein-coding	7.5	11.0	33.5	283.5	13.0	2.5	9.0	7.5
Merged-chr16-26035723-4	chr16	26035602	26035802	+	933.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173379, intron 1 of 14)	intron (NM_173379, intron 1 of 14)	70082.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	19.0	12.0	6.5	511.0	46.5	4.5	10.0	15.5
Merged-chr11-107317906-4	chr11	107317790	107317990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 4 of 9)	intron (NR_153311, intron 4 of 9)	-128509.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	318.5	411.5	271.5	3222.5	776.5	308.5	348.0	339.0
Merged-chr9-7184533-4	chr9	7184448	7184648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357483)	promoter-TSS (NM_001357483)	43.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	96.5	202.0	136.0	1514.0	409.0	144.0	182.0	118.5
Merged-chr13-106690253-2	chr13	106690153	106690353	+	573.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	246705.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	7.5	11.5	7.0	47.5	9.0	8.5	12.5	6.5
Merged-chr4-108459412-4	chr4	108459331	108459531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175472)	promoter-TSS (NM_175472)	5.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	10.5	21.0	15.0	270.5	54.5	21.5	18.0	17.0
Merged-chr10-39170359-1	chr10	39170259	39170459	+	657.0	f0_balb.idr	Intergenic	Intergenic	-6565.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	5.0	9.5	7.5	86.5	16.0	9.5	5.0	8.0
Merged-chr13-3525924-4	chr13	3525784	3525984	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12191.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	19.0	24.5	19.5	381.5	33.5	6.5	21.5	18.0
Merged-chr9-85497094-4	chr9	85497007	85497207	+	969.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-169957.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	38.0	37.5	28.5	479.0	34.5	12.5	42.5	16.5
Merged-chr6-119360482-4	chr6	119360363	119360563	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355692, intron 4 of 7)	intron (NM_001355692, intron 4 of 7)	28271.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	29.5	38.5	16.0	364.0	70.0	21.0	24.5	27.0
Merged-chr15-25633133-3	chr15	25633034	25633234	+	717.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	ID_B1|SINE|B4	10584.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	10.5	16.0	8.0	71.0	14.0	6.0	4.5	3.0
Merged-chr11-114968939-4	chr11	114968788	114968988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8471.0	NM_199225	387565.0	Mm.351450	NM_199225	ENSMUSG00000058728	Cd300c	Clm6	CD300C molecule	protein-coding	92.0	153.5	124.0	979.5	139.5	52.5	80.5	69.5
Merged-chr14-40921418-4	chr14	40921338	40921538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	intron (NM_145928, intron 2 of 8)	26771.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	76.5	116.5	99.0	1443.0	125.5	73.0	86.5	57.5
Merged-chr8-80319200-3	chr8	80319067	80319267	+	854.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-174878.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	17.0	12.0	8.0	165.5	6.0	7.0	4.5	6.5
Merged-chr3-55103787-4	chr3	55103730	55103930	+	803.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-8278.0	NM_001144988	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	11.0	7.5	3.5	115.5	14.5	5.5	12.5	13.5
Merged-chr12-51966737-6	chr12	51966684	51966884	+	849.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177171, intron 1 of 35)	intron (NM_177171, intron 1 of 35)	4537.0	NM_177171	320487.0	Mm.131941	NM_177171	ENSMUSG00000035181	Heatr5a	C230081H03Rik|D930036F22Rik|mKIAA1316	HEAT repeat containing 5A	protein-coding	10.5	18.0	21.0	165.0	30.0	9.5	12.5	4.0
Merged-chr7-88206585-2	chr7	88206485	88206685	+	686.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71500.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	7.0	4.5	6.0	49.5	15.5	4.0	4.0	5.5
Merged-chr14-101943149-2	chr14	101943049	101943249	+	812.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102526.0	NM_001347628	380928.0	Mm.218981	NM_201529	ENSMUSG00000033060	Lmo7	C78582|FBXO20|Gm914|mKIAA0858	LIM domain only 7	protein-coding	6.0	6.0	11.0	69.5	8.5	0.5	3.0	13.5
Merged-chr1-105093989-2	chr1	105093889	105094089	+	853.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-262018.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	4.5	4.5	4.0	156.5	20.5	5.5	12.0	9.0
Merged-chr7-16259274-4	chr7	16259127	16259327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007577, exon 2 of 3)	5' UTR (NM_007577, exon 2 of 3)	111.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	67.5	156.0	93.0	690.5	115.0	62.5	49.0	34.0
Merged-chr7-24081838-4	chr7	24081737	24081937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045486)	promoter-TSS (NM_001045486)	-60.0	NM_001289640	210135.0	Mm.32254	NM_172483	ENSMUSG00000057101	Zfp180	2310040I01Rik|AI852378|D130011P11|HHZ168	zinc finger protein 180	protein-coding	151.0	255.5	159.5	2072.0	435.0	168.5	221.5	136.5
Merged-chr2-18976405-4	chr2	18976304	18976504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	ORR1F|LTR|ERVL-MaLR	21717.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	46.0	47.5	45.5	828.5	83.5	27.5	40.0	52.5
Merged-chr9-74991412-4	chr9	74991343	74991543	+	758.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153584, intron 1 of 11)	Lx10|LINE|L1	15332.0	NM_153584	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	5.0	6.5	6.0	77.0	20.5	9.0	5.0	11.0
Merged-chr10-96691146-4	chr10	96691069	96691269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74168.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	109.5	179.0	103.5	697.0	384.0	162.0	106.5	84.5
Merged-chr11-90241192-4	chr11	90241078	90241278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67B|LTR|ERV1	-8298.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	60.5	80.0	115.0	1390.5	77.5	34.5	51.0	41.5
Merged-chr2-58160158-4	chr2	58160067	58160267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139200)	promoter-TSS (NM_139200)	-45.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	84.5	76.5	72.0	1691.5	230.5	77.0	132.5	68.5
Merged-chr10-19691992-4	chr10	19691884	19692084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20603.0	NM_172786	237313.0	Mm.234667	NM_172786	ENSMUSG00000020007	Il20ra	E230031K19	interleukin 20 receptor, alpha	protein-coding	191.5	279.0	219.5	2386.0	432.0	207.0	222.0	186.0
Merged-chr2-165320635-4	chr2	165320521	165320721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080287, intron 1 of 20)	intron (NM_080287, intron 1 of 20)	205.0	NM_001302752	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	22.0	27.5	42.0	548.5	52.0	16.5	15.5	36.5
Merged-chr14-51089531-4	chr14	51089411	51089611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Tyr-TAC|tRNA|tRNA	-1566.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	96.5	119.0	103.0	1512.0	157.0	43.5	65.5	63.0
Merged-chr11-115099685-3	chr11	115099590	115099790	+	897.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	intron (NM_001163753, intron 1 of 8)	8259.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	8.5	10.5	20.5	155.0	9.5	6.5	6.5	8.0
Merged-chr11-103017151-4	chr11	103017061	103017261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026551)	promoter-TSS (NM_026551)	-14.0	NM_026551	68087.0	Mm.277449	NM_026551	ENSMUSG00000020935	Dcakd	3010024O21Rik|6720485C15Rik|AI849483	dephospho-CoA kinase domain containing	protein-coding	103.5	145.5	58.5	1149.0	191.0	86.5	85.5	63.0
Merged-chr6-87122413-8	chr6	87122317	87122517	+	827.197937	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17671.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	5.0	5.0	9.5	143.0	13.5	10.5	8.5	14.0
Merged-chr10-85874182-6	chr10	85874085	85874285	+	823.027771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133993, intron 1 of 14)	intron (NM_133993, intron 1 of 14)	2354.0	NM_133993	103136.0	Mm.18834	NM_133993	ENSMUSG00000001785	Pwp1	2310058A11Rik|2610205J09Rik|AI098170|AL022879|AV083409|AW550690	PWP1 homolog, endonuclein	protein-coding	18.0	25.5	15.5	81.0	25.0	8.0	6.5	6.5
Merged-chr12-102394633-4	chr12	102394535	102394735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 13 of 13)	intron (NM_011175, intron 13 of 13)	45178.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	40.0	25.5	33.0	882.0	71.5	25.0	33.0	49.0
Merged-chr4-75394449-3	chr4	75394347	75394547	+	869.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-116155.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	9.0	8.5	12.0	119.5	12.5	6.0	5.5	5.0
Merged-chr13-113795243-4	chr13	113795109	113795309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	701.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	13.5	27.0	20.5	425.5	47.5	16.0	20.0	39.0
Merged-chr2-72038392-3	chr2	72038299	72038499	+	645.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204167, intron 3 of 5)	intron (NM_001204167, intron 3 of 5)	-16218.0	NM_001355478	56508.0	Mm.196153	NM_019688	ENSMUSG00000049044	Rapgef4	1300003D15Rik|5730402K07Rik|6330581N18Rik|EPAC 2|Epac-2|Epac2|mKIAA4040	Rap guanine nucleotide exchange factor (GEF) 4	protein-coding	7.5	6.5	9.0	67.5	15.5	6.5	6.0	7.5
Merged-chr16-30059493-4	chr16	30059403	30059603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5854.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	44.0	62.5	47.5	1034.5	140.0	56.0	71.5	57.0
Merged-chr18-68145817-3	chr18	68145749	68145949	+	938.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-82097.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	13.5	14.5	7.5	225.0	14.0	5.0	7.5	6.5
Merged-chr8-88666556-4	chr8	88666461	88666661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 4 of 12)	intron (NM_145857, intron 4 of 12)	19214.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	91.0	105.0	95.0	1119.5	202.0	56.5	104.5	70.0
Merged-chr13-99791030-3	chr13	99790933	99791133	+	924.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	109650.0	NM_013732	27220.0	Mm.75498	NM_013732	ENSMUSG00000021647	Cartpt	Cart	CART prepropeptide	protein-coding	19.0	14.5	29.0	151.0	17.5	7.5	9.0	22.5
Merged-chr1-36253030-4	chr1	36252935	36253135	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8733.0	NM_198899	320011.0	Mm.261022	NM_198899	ENSMUSG00000037470	Uggt1	0910001L17Rik|A930007H10Rik|AA589501|AI414429|AI448372|C820010P03Rik|GT|UGT1|Ugcgl1	UDP-glucose glycoprotein glucosyltransferase 1	protein-coding	9.5	18.0	7.5	109.0	34.5	20.5	21.0	14.0
Merged-chr12-69184645-4	chr12	69184525	69184725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025589)	promoter-TSS (NM_025589)	467.0	NM_146035	217664.0	Mm.206642	NM_146035	ENSMUSG00000043998	Mgat2	AA407964|CDGS2|GLCNACTII|GNT-II|GNT2	mannoside acetylglucosaminyltransferase 2	protein-coding	39.5	51.0	68.5	587.5	101.5	25.5	42.0	44.5
Merged-chr11-30183922-4	chr11	30183769	30183969	+	808.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175836, intron 1 of 34)	intron (NM_175836, intron 1 of 34)	14388.0	NM_009260	20742.0	Mm.123110	NM_009260	ENSMUSG00000020315	Sptbn1	9930031C03Rik|AL033301|SPTB2|Spnb-2|Spnb2|elf1|elf3|mKIAA4049	spectrin beta, non-erythrocytic 1	protein-coding	8.5	8.5	18.0	125.0	10.5	4.5	4.5	3.5
Merged-chr5-23850583-4	chr5	23850538	23850738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045040)	promoter-TSS (NR_045040)	41.0	NR_045040	67194.0	Mm.423733	NR_045040	ENSMUSG00000097180	2700038G22Rik	-	RIKEN cDNA 2700038G22 gene	ncRNA	67.5	66.0	60.5	1093.0	289.5	100.5	93.5	84.5
Merged-chr3-106788158-4	chr3	106788047	106788247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007651, intron 1 of 7)	intron (NM_007651, intron 1 of 7)	2002.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	42.5	62.5	37.5	821.5	126.5	36.0	81.5	61.0
Merged-chr15-67514248-4	chr15	67514147	67514347	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	287478.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	19.5	30.0	21.5	309.5	73.5	15.0	30.5	23.5
Merged-chr2-180119228-4	chr2	180119127	180119327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144500)	promoter-TSS (NM_144500)	-139.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	427.5	660.0	534.0	7890.0	1017.5	429.0	538.5	444.5
Merged-chr9-118506213-4	chr9	118506112	118506312	+	975.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018748)	promoter-TSS (NM_018748)	-106.0	NM_018748	54214.0	Mm.10409	NM_018748	ENSMUSG00000038708	Golga4	AI225887|AU019508|Olp-1	golgi autoantigen, golgin subfamily a, 4	protein-coding	21.5	38.0	16.5	360.0	81.0	15.0	28.5	35.5
Merged-chr13-37355787-4	chr13	37355691	37355891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	10446.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	31.0	30.0	26.0	490.0	74.5	26.5	25.5	24.5
Merged-chr2-155819257-4	chr2	155819169	155819369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015528)	promoter-TSS (NR_015528)	-66.0	NR_015528	613262.0	Mm.330707	NR_015528	ENSMUSG00000074649	BC029722	-	cDNA sequence BC029722	ncRNA	183.0	262.0	150.5	2013.5	405.5	112.0	172.0	157.5
Merged-chr7-99107029-4	chr7	99106911	99107111	+	982.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 3 of 14)	intron (NM_178635, intron 3 of 14)	34133.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	13.5	19.0	14.5	391.5	35.0	5.5	12.5	15.0
Merged-chr5-113650557-4	chr5	113650412	113650612	+	978.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008153)	promoter-TSS (NM_008153)	-122.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	39.0	38.0	36.5	664.5	64.0	22.5	14.0	20.5
Merged-chr7-44136416-4	chr7	44136321	44136521	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008454)	promoter-TSS (NM_008454)	-869.0	NM_008454	16615.0	Mm.440887	NM_008454	ENSMUSG00000038968	Klk1b16	Klk16|mGk-16	kallikrein 1-related peptidase b16	protein-coding	16.0	21.0	25.0	309.0	28.0	9.5	25.0	22.0
Merged-chr17-5397626-4	chr17	5397520	5397720	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21147.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	19.0	14.0	6.0	104.0	42.0	24.0	28.0	22.0
Merged-chr11-120577561-2	chr11	120577461	120577661	+	884.7666630000001	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133796, exon 6 of 6)	3' UTR (NM_133796, exon 6 of 6)	4059.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	9.5	20.0	6.0	77.5	7.0	5.5	8.5	8.5
Merged-chr7-4725419-4	chr7	4725317	4725517	+	746.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177887)	promoter-TSS (NM_177887)	-166.0	NM_177887	330460.0	Mm.361851	NM_177887	ENSMUSG00000046456	Tmem150b	A630041N19|Tmem224	transmembrane protein 150B	protein-coding	6.5	14.0	8.0	33.5	28.5	3.5	7.0	7.5
Merged-chr11-69682047-4	chr11	69681941	69682141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163571)	promoter-TSS (NM_001163571)	43.0	NM_001163571	80886.0	Mm.284592	NM_030702	ENSMUSG00000005204	Senp3	AA408656|Smt3ip|Smt3ip1	SUMO/sentrin specific peptidase 3	protein-coding	122.0	205.5	97.5	1376.5	336.5	132.0	153.5	126.0
Merged-chr4-125066109-2	chr4	125066009	125066209	+	850.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175223)	promoter-TSS (NM_175223)	-452.0	NM_175223	75563.0	Mm.50304	NM_175223	ENSMUSG00000042707	Dnali1	1700023A09Rik|AW049135	dynein, axonemal, light intermediate polypeptide 1	protein-coding	0.0	2.0	4.0	25.0	17.0	8.0	5.0	5.0
Merged-chr6-129058215-4	chr6	129058100	129058300	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153094)	TTS (NM_153094)	12299.0	NM_153094	232408.0	Mm.259262	NM_153094	ENSMUSG00000030154	Klrb1f	A630024B12Rik|Nkr-p1f|Nkrp1-f|Nkrp1f	killer cell lectin-like receptor subfamily B member 1F	protein-coding	9.0	17.0	12.5	143.0	29.5	8.5	24.5	12.5
Merged-chr4-59786868-4	chr4	59786773	59786973	+	806.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3018.0	NM_001013577	66209.0	Mm.51988	NM_001013577	ENSMUSG00000038544	Inip	1110054O05Rik|2610312O17Rik|AA399876|Ssbip1	INTS3 and NABP interacting protein	protein-coding	7.0	10.0	11.5	76.0	37.5	2.5	12.5	13.0
Merged-chr14-120325811-4	chr14	120325722	120325922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	19370.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	84.5	84.5	69.5	1363.0	190.5	44.0	73.5	58.5
Merged-chr17-10344881-4	chr17	10344883	10345083	+	976.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20381.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	5.5	10.5	12.5	181.5	33.0	9.5	5.5	5.5
Merged-chr5-16553483-4	chr5	16553391	16553591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010427)	promoter-TSS (NM_010427)	-4.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	59.5	78.0	105.5	1775.5	159.0	54.5	96.5	81.0
Merged-chr6-50375839-4	chr6	50375745	50375945	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	intron (NM_001163645, intron 2 of 21)	6992.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	18.0	21.5	18.0	261.0	65.5	19.5	27.0	26.5
Merged-chr11-70506618-4	chr11	70506522	70506722	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029360, intron 1 of 4)	intron (NM_029360, intron 1 of 4)	1348.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	22.0	24.5	5.0	210.0	30.5	12.5	9.5	15.5
Merged-chr6-113078585-4	chr6	113078464	113078664	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028385, intron 1 of 21)	intron (NM_028385, intron 1 of 21)	925.0	NM_028385	72895.0	Mm.367159	NM_028385	ENSMUSG00000034269	Setd5	2900045N06Rik|C330007C20|C85544|mKIAA1757	SET domain containing 5	protein-coding	17.0	42.5	24.0	193.5	109.5	43.5	27.5	22.0
Merged-chr2-78923129-4	chr2	78923033	78923233	+	910.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151457, intron 6 of 6)	intron (NR_151457, intron 6 of 6)	53455.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	18.0	18.5	28.5	400.0	34.0	16.0	10.5	11.0
Merged-chr19-55887983-4	chr19	55887893	55888093	+	815.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-7328.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	6.0	7.0	10.0	165.5	24.5	9.5	7.5	7.5
Merged-chr1-67386154-4	chr1	67386053	67386253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	263126.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	35.5	45.0	44.0	677.5	110.0	34.0	47.0	32.0
Merged-chr4-108428460-4	chr4	108428340	108428540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21727.0	NM_024198	67305.0	Mm.20164	NM_024198	ENSMUSG00000028597	Gpx7	3110050F08Rik|AI327032|GPX6	glutathione peroxidase 7	protein-coding	48.5	82.5	71.5	1166.0	153.5	50.0	54.5	67.5
Merged-chr7-141010657-3	chr7	141010558	141010758	+	908.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025378)	promoter-TSS (NM_025378)	86.0	NM_025378	66141.0	Mm.141021	NM_025378	ENSMUSG00000025492	Ifitm3	1110004C05Rik|Cd225|Cdw217|DSPA2b|Fgls|IP15|mil-1	interferon induced transmembrane protein 3	protein-coding	8.0	11.0	7.0	104.0	13.5	3.0	3.0	3.0
Merged-chr7-35066119-4	chr7	35066031	35066231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9565.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	58.5	30.0	22.0	508.0	108.0	23.0	59.5	33.0
Merged-chr11-103246523-4	chr11	103246416	103246616	+	951.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	20885.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	12.5	22.0	30.5	350.0	36.0	20.0	11.5	16.5
Merged-chr2-75737409-4	chr2	75737289	75737489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32726.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	60.0	56.0	49.0	727.5	73.0	30.0	32.0	31.5
Merged-chr2-72786031-3	chr2	72785927	72786127	+	995.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102349, intron 5 of 5)	intron (NR_102349, intron 5 of 5)	27690.0	NR_102348	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	5.0	7.5	4.0	34.5	90.0	34.0	17.5	26.0
Merged-chr6-116003692-4	chr6	116003589	116003789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8684.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	58.0	75.0	49.5	834.0	136.5	49.0	49.5	52.5
Merged-chr5-137075758-4	chr5	137075647	137075847	+	811.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3475.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	9.5	14.0	10.0	125.0	27.0	11.0	10.0	9.0
Merged-chr10-120125334-4	chr10	120125243	120125443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12378.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	43.5	38.0	32.5	652.5	95.5	10.5	25.5	32.0
Merged-chr11-114989948-4	chr11	114989840	114990040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145437)	promoter-TSS (NM_145437)	-54.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	39.0	77.0	42.5	837.0	78.0	50.5	47.0	59.0
Merged-chr13-45088790-4	chr13	45088731	45088931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-86735.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	48.0	43.0	49.5	754.0	126.0	25.0	38.5	46.0
Merged-chr1-9945345-4	chr1	9945252	9945452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1234.0	NR_024067	73824.0	Mm.28311	NR_024067	ENSMUSG00000098234	Snhg6	1110008H02Rik	small nucleolar RNA host gene 6	ncRNA	41.5	61.0	36.0	1002.5	122.5	44.0	57.5	57.5
Merged-chr11-29130764-4	chr11	29130711	29130911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027869)	promoter-TSS (NM_027869)	60.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	56.0	76.5	77.0	825.0	132.0	32.5	90.5	53.5
Merged-chr10-93567269-4	chr10	93567183	93567383	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359749, intron 5 of 13)	intron (NM_001359749, intron 5 of 13)	12402.0	NM_001359749	237465.0	Mm.477086	NM_175488	ENSMUSG00000036168	Ccdc38	4933417K05Rik	coiled-coil domain containing 38	protein-coding	13.5	38.0	28.5	550.0	131.0	11.0	36.5	29.0
Merged-chr3-100618690-3	chr3	100618580	100618780	+	959.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010763, intron 7 of 12)	intron (NM_010763, intron 7 of 12)	66793.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	15.5	11.5	24.0	295.5	10.5	2.5	3.0	4.5
Merged-chr1-92907436-4	chr1	92907341	92907541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_138577)	TTS (NR_138577)	452.0	NM_175118	67446.0	Mm.46179	NM_175118	ENSMUSG00000047067	Dusp28	0710001B24Rik|AV005521	dual specificity phosphatase 28	protein-coding	56.0	58.0	27.0	621.5	156.0	56.0	76.0	58.0
Merged-chr17-36145755-3	chr17	36145681	36145881	+	945.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033517, intron 1 of 3)	CpG	763.0	NR_033517	675325.0	Mm.75890	NR_033517	ENSMUSG00000038311	2410017I17Rik	-	RIKEN cDNA 2410017I17 gene	ncRNA	11.0	6.5	17.5	123.5	13.5	9.0	2.0	1.0
Merged-chr1-94658426-4	chr1	94658282	94658482	+	903.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-139060.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	18.5	26.0	27.0	568.5	33.5	6.0	18.5	10.5
Merged-chr3-35751031-4	chr3	35750949	35751149	+	789.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3014.0	NR_151626	76295.0	Mm.239416	NM_029570	ENSMUSG00000037400	Atp11b	1110019I14Rik|ATPIF|ATPIR|mKIAA0956	ATPase, class VI, type 11B	protein-coding	15.5	13.0	9.0	235.5	28.5	7.0	3.5	21.0
Merged-chr17-35172649-4	chr17	35172550	35172750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001361501, exon 3 of 8)	5' UTR (NM_001361501, exon 3 of 8)	3402.0	NM_019467	11629.0	Mm.10747	NM_019467	ENSMUSG00000024397	Aif1	AI607846|AIF-1|D17H6S50E|G1|Iba1	allograft inflammatory factor 1	protein-coding	61.5	64.0	36.0	833.5	164.5	63.0	73.5	69.5
Merged-chr11-90242602-3	chr11	90242505	90242705	+	850.166626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6871.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	15.0	14.0	15.5	224.0	11.5	9.5	3.5	10.5
Merged-chr8-71922815-4	chr8	71922716	71922916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133358)	promoter-TSS (NM_133358)	-9.0	NM_133358	170938.0	Mm.480419	NM_133358	ENSMUSG00000066880	Zfp617	Zfps11-6	zinc finger protein 617	protein-coding	143.0	278.0	176.5	1667.0	418.0	163.0	157.5	172.0
Merged-chr5-7980836-4	chr5	7980741	7980941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_054098, exon 5 of 5)	3' UTR (NM_054098, exon 5 of 5)	20369.0	NM_054098	117167.0	Mm.31403	NM_054098	ENSMUSG00000012428	Steap4	1110021O17Rik|AI481214|Tiarp|Tnfaip9	STEAP family member 4	protein-coding	48.0	80.5	94.5	1317.5	170.5	58.0	101.0	72.0
Merged-chr10-18210874-2	chr10	18210762	18210962	+	644.875	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_001195036)	promoter-TSS (NM_001195036)	28.0	NM_001195036	100045792.0	Mm.380617	NM_001195036	ENSMUSG00000071392	Ect2l	C330021H03Rik|Gm10331	epithelial cell transforming sequence 2 oncogene-like	protein-coding	7.5	8.5	5.5	101.5	11.0	0.5	7.5	6.0
Merged-chr4-24619897-4	chr4	24619806	24620006	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355618, intron 9 of 9)	RMER15|LTR|ERVL	123455.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	27.0	30.5	25.5	465.5	52.0	20.5	31.5	13.0
Merged-chr19-32211044-4	chr19	32210949	32211149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168526)	promoter-TSS (NM_001168526)	-36.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	75.5	128.0	56.0	764.5	99.5	28.5	41.0	38.5
Merged-chr12-40485463-1	chr12	40485363	40485563	+	699.0	f0_balb.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	39410.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	6.5	10.0	6.0	99.0	15.5	3.0	3.5	4.0
Merged-chr5-77252705-1	chr5	77252605	77252805	+	680.0	f0_c57.idr	Intergenic	Lx8|LINE|L1	-12789.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	6.5	4.0	3.5	51.5	27.0	6.5	4.5	13.0
Merged-chr13-51710934-4	chr13	51710824	51711024	+	968.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013660, intron 11 of 15)	intron (NM_013660, intron 11 of 15)	59216.0	NM_029279	75420.0	Mm.275981	NM_029279	ENSMUSG00000035139	Secisbp2	2210413N07Rik|2810012K13Rik|SBP2	SECIS binding protein 2	protein-coding	24.0	36.5	21.5	435.5	85.0	23.5	19.5	17.5
Merged-chr15-102243986-4	chr15	102243873	102244073	+	882.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011244, intron 3 of 9)	intron (NM_011244, intron 3 of 9)	2527.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	3.0	48.0	18.0	10.0	60.0	25.5	15.5	7.5
Merged-chr14-8112126-3	chr14	8112049	8112249	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	13938.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	27.0	74.5	55.0	564.0	51.0	49.5	42.5	39.5
Merged-chr4-108301190-4	chr4	108301099	108301299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033634)	promoter-TSS (NM_001033634)	-109.0	NM_001033634	414872.0	Mm.426241	NM_001033634	ENSMUSG00000034636	Zyg11b	1110046I03Rik|2810482G21Rik|D4Mgi23|Gm431|mKIAA1730	zyg-ll family member B, cell cycle regulator	protein-coding	142.0	207.0	96.5	1865.0	323.0	125.5	148.0	126.5
Merged-chr16-55698725-4	chr16	55698606	55698806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123432.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	235.0	339.0	267.0	2975.0	558.5	234.5	252.0	212.5
Merged-chr1-43917072-4	chr1	43916983	43917183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16911.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	33.5	83.0	16.5	749.0	95.5	31.0	40.5	32.0
Merged-chr12-84176332-4	chr12	84176255	84176455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	17660.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	45.5	61.0	32.0	280.0	93.5	28.0	32.5	21.0
Merged-chr10-19999921-4	chr10	19999791	19999991	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	C-rich|Low_complexity|Low_complexity	65365.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	23.0	34.5	17.0	252.0	61.5	18.5	17.0	15.0
Merged-chr1-39482397-4	chr1	39482338	39482538	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3683.0	NM_001357521	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	6.5	14.0	19.0	87.5	13.5	6.5	11.5	8.5
Merged-chr11-71855353-4	chr11	71855272	71855472	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84750.0	NR_045942	73816.0	Mm.390391	NR_045942	ENSMUSG00000085528	4930401O10Rik	-	RIKEN cDNA 4930401O10 gene	ncRNA	19.0	23.5	25.0	441.5	71.5	4.5	17.5	27.0
Merged-chr15-55552299-3	chr15	55552209	55552409	+	900.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026759, intron 2 of 6)	intron (NM_026759, intron 2 of 6)	5003.0	NM_026759	68537.0	Mm.236795	NM_026759	ENSMUSG00000022370	Mrpl13	1110002D09Rik	mitochondrial ribosomal protein L13	protein-coding	14.0	6.5	10.0	87.5	28.5	4.0	12.5	4.0
Merged-chr9-44288299-2	chr9	44288199	44288399	+	814.299988	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138955)	promoter-TSS (NM_138955)	-55.0	NM_138955	192663.0	Mm.101876	NM_138955	ENSMUSG00000032131	Abcg4	6430517O04Rik	ATP binding cassette subfamily G member 4	protein-coding	5.0	7.0	4.5	56.5	3.0	1.0	11.5	7.0
Merged-chr5-125059621-3	chr5	125059535	125059735	+	831.144409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 17 of 46)	intron (NM_011424, intron 17 of 46)	56160.0	NM_028443	73121.0	Mm.296138	NM_028443	ENSMUSG00000037962	Rflna	3110032G18Rik|Fam101a|cfm|cfm2	refilin A	protein-coding	11.5	13.5	7.5	107.5	17.5	3.5	7.5	3.0
Merged-chr14-105431754-4	chr14	105431653	105431853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045859, intron 1 of 2)	intron (NR_045859, intron 1 of 2)	4194.0	NR_045859	71362.0	Mm.410781	NR_045859	ENSMUSG00000115548	5430440P10Rik	-	RIKEN cDNA 5430440P10 gene	ncRNA	56.5	60.5	56.0	862.5	214.5	59.5	119.5	71.5
Merged-chr17-87105984-3	chr17	87105866	87106066	+	842.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1713.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	4.0	2.0	9.0	172.0	12.0	4.5	5.5	9.5
Merged-chr19-37434753-4	chr19	37434623	37434823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008245)	promoter-TSS (NM_008245)	-118.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	75.5	107.5	44.0	1078.0	134.5	46.5	44.0	46.5
Merged-chr4-53122043-4	chr4	53121966	53122166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	37829.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	217.5	260.5	197.5	3254.0	432.0	134.5	214.5	178.5
Merged-chr4-82858548-4	chr4	82858463	82858663	+	870.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149737, intron 1 of 7)	intron (NR_149737, intron 1 of 7)	1110.0	NR_149737	68268.0	Mm.32047	NM_026647	ENSMUSG00000028403	Zdhhc21	9130404H11Rik|AL024349|D130004H04Rik|dep	zinc finger, DHHC domain containing 21	protein-coding	14.5	11.0	5.0	93.0	70.0	14.5	25.0	19.0
Merged-chr6-135444851-2	chr6	135444743	135444943	+	624.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77350.0	NM_001288627	13730.0	Mm.182785	NM_010128	ENSMUSG00000030208	Emp1	I-8-09|TMP	epithelial membrane protein 1	protein-coding	6.0	7.0	12.5	68.5	3.0	5.0	1.5	3.0
Merged-chr9-105186895-4	chr9	105186774	105186974	+	836.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172461, intron 15 of 15)	intron (NM_172461, intron 15 of 15)	-41792.0	NM_028562	73532.0	Mm.23516	NM_028562	ENSMUSG00000032566	1700080E11Rik	AI429110|Tseg8	RIKEN cDNA 1700080E11 gene	protein-coding	8.5	16.5	14.5	169.5	23.0	3.5	7.0	14.5
Merged-chr9-94617350-4	chr9	94617265	94617465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52527.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	54.0	54.5	44.5	469.5	74.0	45.0	32.5	31.0
Merged-chr16-91450332-2	chr16	91450232	91450432	+	604.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-14772.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	3.0	3.5	10.5	57.5	9.0	5.5	6.5	7.0
Merged-chr16-5431881-4	chr16	5431768	5431968	+	953.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175912.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	50.5	64.5	44.0	456.0	43.0	9.5	16.5	12.0
Merged-chr4-3607810-3	chr4	3607710	3607910	+	935.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054089, intron 12 of 12)	intron (NM_054089, intron 12 of 12)	32931.0	NM_054089	116940.0	Mm.171323	NM_054089	ENSMUSG00000028233	Tgs1	D4Ertd800e|Ncoa6ip|Pimt	trimethylguanosine synthase 1	protein-coding	8.0	7.0	4.5	61.0	49.5	18.5	22.5	21.0
Merged-chr15-25302003-4	chr15	25301913	25302113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	111751.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	48.5	54.0	98.0	985.5	139.0	41.5	77.0	55.5
Merged-chr10-41870268-3	chr10	41870198	41870398	+	654.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	-17141.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	15.5	16.0	9.0	129.0	21.5	2.5	11.0	11.0
Merged-chr11-79210110-4	chr11	79210051	79210251	+	913.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32873.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	11.5	15.5	3.0	106.0	37.5	7.0	8.5	9.5
Merged-chr6-52306075-4	chr6	52305975	52306175	+	876.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7423.0	NM_007966	14028.0	Mm.389754	NM_007966	ENSMUSG00000005503	Evx1	Evx-1	even-skipped homeobox 1	protein-coding	20.5	21.0	8.0	226.0	17.5	2.0	12.5	14.0
Merged-chr7-4924311-6	chr7	4924247	4924447	+	841.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_201355, exon 3 of 3)	exon (NM_201355, exon 3 of 3)	1467.0	NM_001358883	269854.0	Mm.42652	NM_201355	ENSMUSG00000035285	Nat14	BC047219	N-acetyltransferase 14	protein-coding	6.0	9.5	7.0	30.0	13.0	9.0	4.5	12.0
Merged-chr12-112593390-4	chr12	112593258	112593458	+	890.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 1 of 22)	intron (NM_198411, intron 1 of 22)	4574.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	6.0	13.5	8.0	166.0	14.5	7.0	6.0	8.0
Merged-chr18-66471341-8	chr18	66471209	66471409	+	938.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	12705.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	9.5	9.5	3.5	92.5	10.5	6.0	6.5	9.5
Merged-chr9-44134708-4	chr9	44134595	44134795	+	798.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023061)	promoter-TSS (NM_023061)	37.0	NM_001359530	84004.0	Mm.275003	NM_023061	ENSMUSG00000032135	Mcam	1-gicerin|AV025631|CD146|CD149|Muc18|s-endo|s-gicerin	melanoma cell adhesion molecule	protein-coding	12.5	7.0	10.5	68.0	16.5	6.0	9.0	10.0
Merged-chr14-69813397-3	chr14	69813304	69813504	+	858.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7859.0	NM_153514	246710.0	Mm.102367	NM_153514	ENSMUSG00000022075	Rhobtb2	Dbc2|E130206H14Rik|mKIAA0717	Rho-related BTB domain containing 2	protein-coding	3.5	6.0	7.5	122.0	9.5	11.0	11.0	9.0
Merged-chr9-60481470-2	chr9	60481370	60481570	+	879.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040426, intron 3 of 17)	intron (NM_001040426, intron 3 of 17)	29565.0	NM_001040426	207596.0	Mm.28791	NM_172444	ENSMUSG00000032289	Thsd4	ADAMTSL-6|ADAMTSL6|AI585901|Adamtsl4|B230114P05Rik	thrombospondin, type I, domain containing 4	protein-coding	10.0	23.5	6.5	70.5	18.0	2.0	4.0	6.0
Merged-chr10-50763161-4	chr10	50763067	50763267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 34 of 41)	intron (NM_198007, intron 34 of 41)	-132484.0	NM_011376	20464.0	Mm.4774	NM_011376	ENSMUSG00000019913	Sim1	bHLHe14|mSIM1	single-minded family bHLH transcription factor 1	protein-coding	38.0	60.5	47.0	607.5	154.0	36.0	45.5	34.0
Merged-chr5-115569329-3	chr5	115569231	115569431	+	637.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172719, intron 1 of 57)	intron (NM_172719, intron 1 of 57)	4068.0	NM_172719	231659.0	Mm.153014	NM_172719	ENSMUSG00000041638	Gcn1l1	4932409G22|AL022764|G431004K08Rik|GCN1L|Gcn1|mKIAA0219	GCN1 general control of amino-acid synthesis 1-like 1 (yeast)	protein-coding	10.5	14.0	8.0	43.0	3.0	0.5	0.0	3.0
Merged-chr18-74823685-2	chr18	74823551	74823751	+	831.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	44439.0	NM_177470	52538.0	Mm.245724	NM_177470	ENSMUSG00000036880	Acaa2	0610011L04Rik|AI255831|AI265397|D18Ertd240e	acetyl-Coenzyme A acyltransferase 2 (mitochondrial 3-oxoacyl-Coenzyme A thiolase)	protein-coding	8.5	4.0	9.5	77.5	13.5	6.0	8.5	9.5
Merged-chr2-48695589-4	chr2	48695488	48695688	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118521.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	13.5	32.0	20.5	479.5	47.5	16.5	18.5	20.5
Merged-chr7-48943927-4	chr7	48943815	48944015	+	889.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-15158.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	20.0	23.0	16.0	401.0	27.0	6.5	13.0	11.0
Merged-chr2-139379384-4	chr2	139379285	139379485	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114528.0	NM_001356507	228677.0	Mm.100450	NM_175467	ENSMUSG00000039092	Sptlc3	C130053K05Rik	serine palmitoyltransferase, long chain base subunit 3	protein-coding	11.0	3.0	19.0	300.5	29.5	13.0	21.0	18.5
Merged-chr6-125596386-3	chr6	125596299	125596499	+	823.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 10 of 51)	CT-rich|Low_complexity|Low_complexity	43451.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	7.0	10.5	8.0	94.0	17.0	7.0	9.5	3.5
Merged-chr10-41303831-4	chr10	41303727	41303927	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133999)	promoter-TSS (NM_133999)	-586.0	NM_133999	103199.0	Mm.277242	NM_133999	ENSMUSG00000038417	Fig4	A530089I17Rik|AI326867|Sac3	FIG4 phosphoinositide 5-phosphatase	protein-coding	14.5	21.5	24.5	232.5	42.0	15.5	22.5	22.5
Merged-chr9-16307552-3	chr9	16307438	16307638	+	908.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	70693.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	12.0	11.5	12.0	112.0	10.5	7.5	12.0	6.0
Merged-chr3-137611347-4	chr3	137611245	137611445	+	807.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12327.0	NM_030143	73284.0	Mm.250841	NM_030143	ENSMUSG00000046818	Ddit4l	1700037B15Rik|1700108M02Rik|REDD2|RTP801L|Smhs1	DNA-damage-inducible transcript 4-like	protein-coding	8.0	17.0	13.5	101.5	19.0	6.0	15.0	11.5
Merged-chr17-24172415-4	chr17	24172327	24172527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2749.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	39.0	61.0	22.5	262.0	222.5	79.0	83.5	81.0
Merged-chr5-123907793-2	chr5	123907658	123907858	+	891.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_026603, intron 1 of 7)	intron (NM_026603, intron 1 of 7)	483.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	11.0	13.0	8.5	115.0	18.0	4.0	7.5	7.0
Merged-chr15-27643115-3	chr15	27643008	27643208	+	763.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-12415.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	6.0	10.0	5.0	71.5	11.5	10.0	10.0	3.5
Merged-chr2-169779073-3	chr2	169778925	169779125	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	(TC)n|Simple_repeat|Simple_repeat	145379.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	0.0	1.0	3.0	11.0	44.0	13.5	14.0	26.5
Merged-chr11-101171460-4	chr11	101171313	101171513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346769)	promoter-TSS (NM_001346769)	-41.0	NM_001346769	217198.0	Mm.273254	NM_146030	ENSMUSG00000035172	Plekhh3	BC020025	pleckstrin homology domain containing, family H (with MyTH4 domain) member 3	protein-coding	130.0	160.0	114.0	1275.5	314.0	105.0	115.5	123.5
Merged-chr15-38528103-4	chr15	38527985	38528185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-8819.0	NM_018745	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	35.5	27.0	30.5	809.0	84.5	21.0	44.0	47.0
Merged-chr4-119195340-4	chr4	119195233	119195433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024462)	promoter-TSS (NM_024462)	23.0	NM_024462	69216.0	Mm.36697	NM_024462	ENSMUSG00000028643	Svbp	2410005K17Rik|AI851162|Ccdc23	small vasohibin binding protein	protein-coding	108.5	164.0	73.0	1427.5	311.5	102.5	140.0	129.0
Merged-chr1-86528295-4	chr1	86528186	86528386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008972, intron 1 of 4)	CpG-365	1729.0	NM_001360830	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	134.5	149.5	140.0	1470.5	274.5	117.5	142.0	140.5
Merged-chr17-78835464-4	chr17	78835365	78835565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081179)	promoter-TSS (NM_001081179)	-51.0	NM_181649	53951.0	Mm.220253	NM_181649	ENSMUSG00000050668	Gpatch11	2310002B06Rik|C80922|Ccdc75|L26697	G patch domain containing 11	protein-coding	296.5	450.0	320.0	5268.5	639.0	276.0	317.5	251.0
Merged-chr11-96318602-4	chr11	96318476	96318676	+	973.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010459, exon 1 of 2)	5' UTR (NM_010459, exon 1 of 2)	309.0	NM_010459	15412.0	Mm.3546	NM_010459	ENSMUSG00000038692	Hoxb4	Hox-2.6	homeobox B4	protein-coding	13.5	22.0	10.5	248.5	47.0	19.5	25.5	21.0
Merged-chr8-26015537-4	chr8	26015327	26015527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008033, exon 1 of 9)	exon (NM_008033, exon 1 of 9)	174.0	NM_008033	14272.0	Mm.3496	NM_008033	ENSMUSG00000015994	Fnta	FTA	farnesyltransferase, CAAX box, alpha	protein-coding	33.5	35.0	37.5	317.0	57.5	18.5	24.0	24.0
Merged-chr8-25196594-4	chr8	25196515	25196715	+	897.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177089, intron 2 of 12)	intron (NM_177089, intron 2 of 12)	4927.0	NM_199323	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	7.0	17.0	6.0	133.0	21.0	7.0	9.0	10.0
Merged-chr8-47939981-4	chr8	47939907	47940107	+	834.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 1 of 22)	intron (NM_133791, intron 1 of 22)	50544.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	10.5	18.0	14.0	306.5	24.0	5.0	7.5	20.0
Merged-chr1-65185769-4	chr1	65185680	65185880	+	743.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011086)	promoter-TSS (NM_011086)	699.0	NM_001111320	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	1.0	14.0	10.5	84.0	19.0	8.5	7.0	12.0
Merged-chr8-22699617-4	chr8	22699511	22699711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159774, intron 2 of 21)	intron (NM_001159774, intron 2 of 21)	6972.0	NM_010546	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	22.5	69.0	51.0	570.5	83.5	33.0	32.5	29.5
Merged-chr3-100684342-2	chr3	100684242	100684442	+	804.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010763, intron 1 of 12)	intron (NM_010763, intron 1 of 12)	1131.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	3.0	5.5	2.0	59.0	12.0	9.0	4.5	5.0
Merged-chr16-25805128-4	chr16	25805034	25805234	+	964.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127262, intron 1 of 10)	intron (NM_001127262, intron 1 of 10)	3218.0	NM_001127264	22061.0	Mm.20894	NM_011641	ENSMUSG00000022510	Trp63	AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1	transformation related protein 63	protein-coding	6.0	11.5	19.5	234.5	56.0	7.5	35.0	11.0
Merged-chr5-136245400-4	chr5	136245298	136245498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302939)	promoter-TSS (NM_001302939)	-458.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	54.0	117.0	69.0	699.0	131.5	81.5	78.0	70.0
Merged-chr6-97866787-4	chr6	97866688	97866888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	59730.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	87.0	127.5	91.5	1265.0	132.5	52.0	67.5	35.0
Merged-chr14-55746641-5	chr14	55746541	55746741	+	857.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026819)	promoter-TSS (NM_026819)	948.0	NM_026403	67842.0	Mm.180338	NM_026403	ENSMUSG00000019297	Nop9	2610027L16Rik	NOP9 nucleolar protein	protein-coding	4.5	16.5	8.0	108.0	6.0	2.5	6.0	5.5
Merged-chr9-32500263-4	chr9	32500148	32500348	+	754.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	41204.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	5.0	11.5	8.5	110.0	20.5	7.5	9.5	6.5
Merged-chr18-65965211-3	chr18	65965130	65965330	+	689.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145493, intron 2 of 2)	intron (NM_145493, intron 2 of 2)	4948.0	NM_145493	225644.0	Mm.192285	NM_145493	ENSMUSG00000024519	Cplx4	A930004D23Rik|CPXIV|Gm957	complexin 4	protein-coding	8.0	7.0	6.0	86.0	12.5	5.0	14.0	8.0
Merged-chr4-154961514-4	chr4	154961411	154961611	+	872.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010419, exon 3 of 3)	exon (NM_010419, exon 3 of 3)	588.0	NM_010419	15208.0	Mm.137268	NM_010419	ENSMUSG00000048001	Hes5	bHLHb38	hes family bHLH transcription factor 5	protein-coding	9.5	15.5	9.5	189.5	30.0	6.5	5.0	20.5
Merged-chr10-41868159-4	chr10	41868038	41868238	+	878.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	Lx9|LINE|L1	-19301.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	2.0	9.0	9.5	160.5	32.5	6.0	11.5	13.5
Merged-chr6-86850285-2	chr6	86850185	86850385	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028298)	promoter-TSS (NR_028298)	768.0	NM_001040106	269774.0	Mm.221038	NM_177762	ENSMUSG00000057230	Aak1	5530400K14Rik|9630042K20|AU067724|AU067726|BC028270|C79663|D6Ertd245e|R75501|mKIAA1048	AP2 associated kinase 1	protein-coding	8.5	6.5	9.0	52.5	24.5	9.0	5.5	19.0
Merged-chr1-43465180-4	chr1	43465096	43465296	+	792.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	19445.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	10.5	9.0	3.5	173.0	23.5	7.5	13.5	7.5
Merged-chr7-138389243-4	chr7	138389151	138389351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183289, intron 3 of 11)	intron (NM_183289, intron 3 of 11)	8479.0	NM_183289	70571.0	Mm.334297	NM_183289	ENSMUSG00000091002	Tcerg1l	5730476P14Rik	transcription elongation regulator 1-like	protein-coding	41.5	68.5	65.5	896.5	80.0	40.0	38.5	34.0
Merged-chr1-131083734-1	chr1	131083634	131083834	+	1000.0	f0_balb.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	14109.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	20.0	25.5	20.5	312.5	57.0	7.5	11.5	5.5
Merged-chr2-70661439-4	chr2	70661331	70661531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027352)	promoter-TSS (NM_027352)	-78.0	NR_027343	70231.0	Mm.271950	NM_027352	ENSMUSG00000014959	Gorasp2	0610011A07Rik|2410043M02Rik|5730520M13Rik|9430094F20Rik|AW552058|GOLPH2|GRASP55|GRS2|p59	golgi reassembly stacking protein 2	protein-coding	181.5	273.0	146.5	3218.5	391.0	171.0	187.5	163.5
Merged-chr14-30761429-4	chr14	30761332	30761532	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166531, intron 2 of 21)	L2a|LINE|L2	45817.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	45.0	65.5	54.5	911.0	74.0	18.5	15.5	8.5
Merged-chr8-72135778-4	chr8	72135665	72135865	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001491, intron 1 of 7)	CpG	473.0	NM_001001491	326618.0	Mm.295124	NM_001001491	ENSMUSG00000031799	Tpm4	2610528G24Rik|Tpm4.2|Tpm4.2cy	tropomyosin 4	protein-coding	11.0	25.5	12.5	159.5	55.5	16.0	18.5	16.0
Merged-chr6-92287116-4	chr6	92287008	92287208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42458.0	NM_009426	22044.0	Mm.1363	NM_009426	ENSMUSG00000005892	Trh	Pro-TRH|Trf	thyrotropin releasing hormone	protein-coding	6.0	33.5	25.5	329.0	108.0	35.5	63.5	44.5
Merged-chr9-69439905-4	chr9	69439802	69440002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13781.0	NM_007585	12306.0	Mm.238343	NM_007585	ENSMUSG00000032231	Anxa2	AW215814|Cal1h	annexin A2	protein-coding	52.0	68.5	70.0	822.0	103.0	21.0	64.5	43.5
Merged-chr19-40631458-4	chr19	40631374	40631574	+	924.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	19108.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	28.0	24.0	11.5	120.5	37.5	10.5	15.0	7.5
Merged-chr2-58933550-3	chr2	58933458	58933658	+	911.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	178374.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	10.0	7.5	9.5	227.0	7.0	3.5	4.5	7.5
Merged-chr18-23900252-4	chr18	23900145	23900345	+	839.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-54443.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	12.5	14.0	7.0	141.5	20.0	1.0	4.5	14.0
Merged-chr12-78862111-4	chr12	78861997	78862197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026114)	promoter-TSS (NM_026114)	25.0	NM_026114	13665.0	Mm.196220	NM_026114	ENSMUSG00000021116	Eif2s1	0910001O23Rik|2410026C18Rik|35kDa|Eif2a|eIF2alpha	eukaryotic translation initiation factor 2, subunit 1 alpha	protein-coding	47.0	75.5	54.0	693.5	93.0	41.0	46.0	44.0
Merged-chr9-105053346-4	chr9	105053250	105053450	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053159)	promoter-TSS (NM_053159)	82.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	10.5	29.0	26.5	242.0	47.0	19.0	21.0	27.5
Merged-chr15-79350119-2	chr15	79350019	79350219	+	777.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001304832, intron 1 of 2)	intron (NM_001304832, intron 1 of 2)	1717.0	NM_001304832	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	4.5	6.0	3.0	47.0	8.0	7.5	5.5	5.0
Merged-chr4-133873089-4	chr4	133872977	133873177	+	982.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009097, intron 2 of 21)	intron (NM_009097, intron 2 of 21)	1654.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	39.0	49.5	23.5	281.0	84.0	43.5	32.0	16.0
Merged-chr10-62340326-4	chr10	62340235	62340435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038038)	promoter-TSS (NR_038038)	86.0	NM_001146100	15275.0	Mm.196605	NM_010438	ENSMUSG00000037012	Hk1	BB404130|Hk-1|Hk1-s|dea|mHk1-s	hexokinase 1	protein-coding	179.0	248.0	189.0	2472.5	511.5	228.0	275.5	197.5
Merged-chr9-50593719-3	chr9	50593604	50593804	+	816.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	10145.0	NM_025848	66925.0	Mm.10406	NM_025848	ENSMUSG00000000171	Sdhd	3110001M13Rik|AVLL5809|C78570|PRO19626	succinate dehydrogenase complex, subunit D, integral membrane protein	protein-coding	8.5	20.5	15.0	78.5	18.5	4.5	6.5	6.0
Merged-chr1-4907214-4	chr1	4907147	4907347	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48919.0	NM_001159751	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	9.5	21.0	18.0	186.5	22.0	6.0	14.5	11.5
Merged-chr4-134779529-6	chr4	134779420	134779620	+	964.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11516.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	20.5	15.5	11.5	132.5	16.5	6.0	6.5	6.0
Merged-chr7-141568509-4	chr7	141568405	141568605	+	854.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357068, intron 1 of 21)	intron (NM_001357068, intron 1 of 21)	6325.0	NM_007459	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	9.0	7.5	9.0	163.5	16.5	6.0	3.5	10.5
Merged-chr4-129746146-6	chr4	129746009	129746209	+	871.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3806.0	NR_045036	20218.0	Mm.8256	NM_011317	ENSMUSG00000028790	Khdrbs1	Sam68|p62|p68	KH domain containing, RNA binding, signal transduction associated 1	protein-coding	12.0	3.0	7.5	54.5	18.5	5.5	11.0	8.5
Merged-chr10-111011059-3	chr10	111010957	111011157	+	750.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172554)	promoter-TSS (NM_172554)	-991.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	8.5	4.5	5.0	137.0	14.0	2.5	10.0	7.0
Merged-chr2-181276217-4	chr2	181276123	181276323	+	966.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 2 of 9)	intron (NM_198169, intron 2 of 9)	11743.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	23.0	67.5	34.0	165.0	82.0	36.5	23.0	12.5
Merged-chr9-70678868-4	chr9	70678773	70678973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007399)	promoter-TSS (NM_007399)	-109.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	240.5	433.5	284.5	3799.0	694.0	265.0	323.0	290.5
Merged-chr14-12284786-4	chr14	12284657	12284857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284384, intron 1 of 4)	intron (NM_001284384, intron 1 of 4)	554.0	NM_001284386	218734.0	Mm.44068	NM_146051	ENSMUSG00000033111	3830406C13Rik	-	RIKEN cDNA 3830406C13 gene	protein-coding	42.0	43.5	41.5	624.5	52.0	35.5	43.0	46.0
Merged-chr7-114527978-3	chr7	114527877	114528077	+	951.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 12 of 15)	intron (NM_011055, intron 12 of 15)	34995.0	NR_110407	244209.0	Mm.108037	NM_177382	ENSMUSG00000030670	Cyp2r1	-	cytochrome P450, family 2, subfamily r, polypeptide 1	protein-coding	6.5	8.0	13.0	217.0	20.5	13.0	9.5	10.5
Merged-chr11-106429841-4	chr11	106429758	106429958	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 4 of 21)	intron (NM_023913, intron 4 of 21)	-47077.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	38.5	58.5	53.5	387.5	68.0	34.0	15.5	16.5
Merged-chr1-79761352-1	chr1	79761252	79761452	+	620.0	f0_balb.idr	intron (NM_027057, intron 1 of 4)	CpG	417.0	NM_001111279	69368.0	Mm.293273	NM_027057	ENSMUSG00000073643	Wdfy1	1700013B03Rik|1700120F24Rik|FENS-1|Jr1|WDF1|ZFYVE17|mKIAA1435	WD repeat and FYVE domain containing 1	protein-coding	13.5	13.5	22.5	119.5	18.5	6.0	5.0	12.5
Merged-chr2-122118419-4	chr2	122118322	122118522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145531)	promoter-TSS (NM_145531)	-36.0	NM_145531	214585.0	Mm.222303	NM_145531	ENSMUSG00000033396	Spg11	6030465E24Rik|A330015I11|C530005A01Rik	SPG11, spatacsin vesicle trafficking associated	protein-coding	253.0	336.0	233.5	3531.5	508.0	201.5	244.0	235.0
Merged-chr7-75704635-4	chr7	75704527	75704727	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 17 of 36)	intron (NM_029332, intron 17 of 36)	-143711.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	21.0	20.5	22.0	338.5	40.5	14.5	20.5	14.5
Merged-chr17-49019080-6	chr17	49018980	49019180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027452, intron 1 of 2)	intron (NM_027452, intron 1 of 2)	86498.0	NM_027452	70530.0	Mm.133607	NM_027452	ENSMUSG00000040490	Lrfn2	5730420O05Rik|SALM1|mKIAA1246	leucine rich repeat and fibronectin type III domain containing 2	protein-coding	18.0	10.0	14.0	249.5	28.0	21.0	12.5	37.0
Merged-chr2-22826432-4	chr2	22826317	22826517	+	973.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 4 of 13)	ORR1E|LTR|ERVL-MaLR	52090.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	14.5	27.5	49.0	519.0	49.0	16.5	14.5	24.5
Merged-chr16-33077269-4	chr16	33077176	33077376	+	890.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172823, intron 6 of 16)	intron (NM_172823, intron 6 of 16)	14755.0	NM_172823	239833.0	Mm.131951	NM_172823	ENSMUSG00000022802	Lmln	5330415H22Rik|AI465495	leishmanolysin-like (metallopeptidase M8 family)	protein-coding	21.0	17.0	36.0	433.0	27.5	11.0	6.5	8.0
Merged-chr16-91314335-3	chr16	91314242	91314442	+	740.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44573.0	NM_016968	50914.0	Mm.39300	NM_016968	ENSMUSG00000046160	Olig1	AI836478|AW494459|Bhlhb6|Olg-1|Oligo1|bHLHe21	oligodendrocyte transcription factor 1	protein-coding	10.5	16.5	6.0	97.5	14.5	4.5	7.5	4.0
Merged-chr5-99217497-3	chr5	99217415	99217615	+	894.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145839)	TTS (NM_145839)	35412.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	5.0	19.0	2.0	81.5	12.0	5.5	7.5	7.0
Merged-chr9-84343869-4	chr9	84343767	84343967	+	786.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	395086.0	NM_199195	12040.0	Mm.12819	NM_199195	ENSMUSG00000032263	Bckdhb	BCKDE1B|BCKDH E1-beta	branched chain ketoacid dehydrogenase E1, beta polypeptide	protein-coding	4.5	12.0	4.0	167.0	13.0	11.0	15.5	10.0
Merged-chr1-88654882-4	chr1	88654803	88655003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47288.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	43.5	71.0	44.5	903.5	125.5	46.5	33.5	35.0
Merged-chr8-70646580-2	chr8	70646480	70646680	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_023217, exon 5 of 5)	3' UTR (NM_023217, exon 5 of 5)	13158.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	6.5	7.0	6.5	55.0	40.5	12.0	16.0	19.5
Merged-chr13-91640423-4	chr13	91640327	91640527	+	939.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 4 of 15)	intron (NM_001360776, intron 4 of 15)	-101094.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	45.5	48.5	49.5	953.5	31.0	5.5	13.5	22.5
Merged-chr11-75625478-3	chr11	75625390	75625590	+	649.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008850, exon 11 of 12)	exon (NM_008850, exon 11 of 12)	-5530.0	NM_008916	19062.0	Mm.1458	NM_008916	ENSMUSG00000006127	Inpp5k	C62|Pps|SKIP	inositol polyphosphate 5-phosphatase K	protein-coding	5.0	22.5	7.5	134.5	5.0	4.0	4.5	7.0
Merged-chr14-14098777-4	chr14	14098687	14098887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139227, intron 10 of 11)	intron (NM_139227, intron 10 of 11)	22117.0	NM_025550	66413.0	Mm.27591	NM_025550	ENSMUSG00000021737	Psmd6	2400006A19Rik	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	protein-coding	27.0	35.0	19.5	310.5	99.0	36.0	37.0	12.5
Merged-chr6-89413720-4	chr6	89413612	89413812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 5 of 6)	intron (NM_001167736, intron 5 of 6)	-51099.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	43.0	93.5	30.0	337.5	127.0	57.5	48.0	38.5
Merged-chr2-129398454-4	chr2	129398363	129398563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	-27324.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	47.5	65.0	23.5	473.0	118.0	27.0	50.5	53.0
Merged-chr3-104715156-4	chr3	104715046	104715246	+	785.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62401.0	NM_183224	329731.0	Mm.389494	NM_183224	ENSMUSG00000055865	Fam19a3	7530404M11Rik|Sam3|TAFA3|Tafa-3	family with sequence similarity 19, member A3	protein-coding	2.5	7.5	4.5	117.0	22.0	4.5	9.0	8.5
Merged-chr12-32911052-3	chr12	32910945	32911145	+	745.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	42744.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	4.0	7.0	4.5	110.5	27.0	10.0	12.0	13.5
Merged-chr9-59578023-4	chr9	59577940	59578140	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175235)	promoter-TSS (NM_175235)	-297.0	NM_175235	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	14.5	23.0	22.0	233.0	71.0	12.0	16.5	28.5
Merged-chr4-53412167-4	chr4	53412054	53412254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28259.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	75.5	195.0	87.5	1202.0	207.0	80.0	86.5	103.0
Merged-chr14-54449163-4	chr14	54449098	54449298	+	944.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14949.0	NM_022993	65107.0	Mm.472719	NM_022993	ENSMUSG00000022175	Lrp10	Lrp9	low-density lipoprotein receptor-related protein 10	protein-coding	8.0	22.5	9.5	150.5	48.5	12.5	25.5	11.5
Merged-chr17-26507431-4	chr17	26507345	26507545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013642, intron 2 of 3)	intron (NM_013642, intron 2 of 3)	1027.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	159.0	243.5	147.5	1777.5	446.5	194.0	187.5	181.5
Merged-chr6-125215499-4	chr6	125215410	125215610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009496)	promoter-TSS (NM_009496)	-71.0	NM_001080557	22317.0	Mm.32321	NM_009496	ENSMUSG00000030337	Vamp1	Syb-1|Syb1|VAMP-1|lew	vesicle-associated membrane protein 1	protein-coding	173.0	217.0	123.0	1621.5	307.0	156.0	155.0	137.5
Merged-chr3-9801843-4	chr3	9801750	9801950	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	31829.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	28.5	42.0	17.5	262.5	98.5	26.0	36.5	16.5
Merged-chr8-95534133-3	chr8	95534028	95534228	+	633.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172914)	promoter-TSS (NM_172914)	28.0	NM_172914	244608.0	Mm.248902	NM_172914	ENSMUSG00000036598	Ccdc113	4933409I22|BC060957	coiled-coil domain containing 113	protein-coding	6.0	5.0	6.0	108.5	12.5	1.5	4.5	7.5
Merged-chr8-46211066-4	chr8	46210974	46211174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007450)	promoter-TSS (NM_007450)	-12.0	NM_007450	11739.0	Mm.16228	NM_007450	ENSMUSG00000031633	Slc25a4	AU019225|Ant1|mANC1	solute carrier family 25 (mitochondrial carrier, adenine nucleotide translocator), member 4	protein-coding	45.0	58.0	43.0	581.5	127.5	44.5	45.5	36.5
Merged-chr7-24978943-4	chr7	24978836	24979036	+	935.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290469, exon 22 of 23)	exon (NM_001290469, exon 22 of 23)	-6208.0	NM_010261	14470.0	Mm.22473	NM_010261	ENSMUSG00000003380	Rabac1	2310040I06Rik|Gbpap1|PRA1|prenylin	Rab acceptor 1 (prenylated)	protein-coding	20.0	22.0	16.0	313.5	30.0	7.5	32.0	22.0
Merged-chr11-105944265-3	chr11	105944162	105944362	+	618.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007805, exon 1 of 6)	5' UTR (NM_007805, exon 1 of 6)	225.0	NM_007805	13056.0	Mm.149403	NM_007805	ENSMUSG00000019590	Cyb561	-	cytochrome b-561	protein-coding	2.0	10.0	7.0	37.0	23.5	5.5	5.0	11.5
Merged-chr11-21239145-6	chr11	21239053	21239253	+	974.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_139061, exon 1 of 23)	5' UTR (NM_139061, exon 1 of 23)	121.0	NM_001290628	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	8.0	13.0	6.5	61.0	33.0	10.0	8.5	4.0
Merged-chr11-100552261-2	chr11	100552161	100552361	+	847.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 5 of 11)	ORR1F|LTR|ERVL-MaLR	6629.0	NM_028918	74407.0	Mm.31590	NM_028918	ENSMUSG00000006784	Ttc25	4933404O19Rik	tetratricopeptide repeat domain 25	protein-coding	6.5	7.0	7.0	124.0	6.0	3.0	8.5	6.0
Merged-chr14-13981472-4	chr14	13981362	13981562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19610.0	NM_001359901	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	28.0	47.5	25.0	653.0	85.0	26.0	33.5	39.0
Merged-chr8-85027221-2	chr8	85027121	85027321	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_026760, exon 1 of 3)	exon (NM_026760, exon 1 of 3)	388.0	NM_026760	68544.0	Mm.196005	NM_026760	ENSMUSG00000041203	Trir	1110002H14Rik|2310036O22Rik|AI854688	telomerase RNA component interacting RNase	protein-coding	25.5	41.5	23.5	285.0	45.5	16.5	29.5	19.5
Merged-chr13-34088392-3	chr13	34088278	34088478	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046184, intron 4 of 4)	intron (NR_046184, intron 4 of 4)	-10370.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	12.5	19.0	6.0	59.0	16.5	2.0	4.0	8.5
Merged-chr17-26244747-4	chr17	26244613	26244813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001206335)	promoter-TSS (NM_001206335)	-471.0	NM_001206335	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	34.5	28.5	18.0	186.5	54.0	14.5	27.5	21.5
Merged-chr13-42372424-4	chr13	42372322	42372522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	70946.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	36.5	54.5	40.0	392.5	46.5	25.5	34.0	22.5
Merged-chr17-35822404-2	chr17	35822304	35822504	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008027)	promoter-TSS (NM_008027)	691.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	8.0	16.5	5.5	80.0	30.5	20.5	13.5	12.0
Merged-chr13-104611456-4	chr13	104611365	104611565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	205488.0	NM_026072	67285.0	Mm.235398	NM_026072	ENSMUSG00000021715	Cwc27	3110009E13Rik|NY-CO-10|Sdccag10	CWC27 spliceosome-associated protein	protein-coding	30.0	34.5	25.5	603.5	100.0	33.0	44.5	34.0
Merged-chr11-58302416-8	chr11	58302331	58302531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4638.0	NM_182996	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	32.5	44.0	20.5	370.0	70.0	16.5	23.5	37.5
Merged-chr7-102193997-3	chr7	102193911	102194111	+	607.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287167, intron 4 of 19)	B1F2|SINE|Alu	15856.0	NM_001287167	269966.0	Mm.439800	NM_022979	ENSMUSG00000063550	Nup98	4732457F17|AI849286|Nup96	nucleoporin 98	protein-coding	11.5	15.5	8.0	95.0	16.0	2.0	4.5	11.0
Merged-chr14-77904371-4	chr14	77904282	77904482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178825, exon 1 of 7)	5' UTR (NM_178825, exon 1 of 7)	143.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	58.0	63.0	32.5	633.0	128.0	37.0	49.5	28.5
Merged-chr9-56928316-4	chr9	56928185	56928385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175483)	promoter-TSS (NM_175483)	86.0	NM_175483	235406.0	Mm.191459	NM_175483	ENSMUSG00000032733	Snx33	E130307J07Rik|Sh3px3	sorting nexin 33	protein-coding	30.5	44.5	36.0	313.0	64.0	27.5	31.0	34.0
Merged-chr4-117928962-2	chr4	117928864	117929064	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001284193, intron 2 of 4)	intron (NM_001284193, intron 2 of 4)	799.0	NM_001284191	11876.0	Mm.56897	NM_009711	ENSMUSG00000028539	Artn	neublastin	artemin	protein-coding	3.0	2.0	6.0	71.5	11.5	7.5	7.0	8.0
Merged-chr14-19889795-4	chr14	19889698	19889898	+	875.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038637, intron 4 of 4)	intron (NM_001038637, intron 4 of 4)	50873.0	NR_105025	52512.0	Mm.483998	NR_105025	ENSMUSG00000114350	D14Ertd670e	-	DNA segment, Chr 14, ERATO Doi 670, expressed	ncRNA	10.0	12.0	17.5	284.0	26.0	5.5	10.5	14.0
Merged-chr19-40626269-4	chr19	40626169	40626369	+	902.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	L1MA4|LINE|L1	13903.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	30.5	23.5	17.0	469.5	27.0	9.0	9.0	14.5
Merged-chr16-95836198-4	chr16	95836119	95836319	+	958.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040485, intron 3 of 3)	intron (NR_040485, intron 3 of 3)	62494.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	20.0	35.0	17.0	102.0	72.5	28.0	43.0	25.5
Merged-chr3-65990755-4	chr3	65990658	65990858	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-32509.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	14.5	8.5	11.0	325.0	38.5	20.0	11.0	11.0
Merged-chr9-40583738-4	chr9	40583635	40583835	+	950.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52352.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	15.0	29.5	2.5	145.5	32.5	21.5	16.5	6.5
Merged-chr12-80644244-4	chr12	80644122	80644322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347409)	promoter-TSS (NM_001347409)	7.0	NM_026244	328133.0	Mm.238279	NM_026244	ENSMUSG00000048833	Slc39a9	2010002A02Rik|2610511I23Rik|4833420E20Rik|AW209151	solute carrier family 39 (zinc transporter), member 9	protein-coding	62.5	79.0	23.5	776.5	149.0	57.5	64.5	41.5
Merged-chr16-5471323-3	chr16	5471215	5471415	+	928.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-215359.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	16.5	10.5	9.5	127.5	16.0	4.5	6.5	4.0
Merged-chr7-132387760-4	chr7	132387662	132387862	+	856.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	-70534.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	10.0	12.0	6.0	159.5	25.5	6.0	12.0	10.0
Merged-chr17-17766669-4	chr17	17766577	17766777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	62736.0	NM_001104539	626942.0	Mm.404019	NM_001104539	ENSMUSG00000092120	Vmn2r90	EG626942	vomeronasal 2, receptor 90	protein-coding	32.0	34.5	18.5	513.0	86.0	33.5	26.5	39.5
Merged-chr9-120020394-3	chr9	120020286	120020486	+	964.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011724, intron 1 of 2)	intron (NM_011724, intron 1 of 2)	3212.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	10.5	5.5	5.0	109.0	24.0	12.0	8.5	7.0
Merged-chr6-124493036-4	chr6	124492889	124493089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181344)	promoter-TSS (NM_181344)	-124.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	55.5	86.5	40.5	564.5	141.0	50.0	45.5	54.0
Merged-chr1-91428794-4	chr1	91428702	91428902	+	891.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011066, intron 17 of 22)	intron (NM_011066, intron 17 of 22)	-14764.0	NM_001360900	55927.0	Mm.280029	NM_019479	ENSMUSG00000067071	Hes6	AI326893|bHLHb41	hairy and enhancer of split 6	protein-coding	14.5	29.0	7.0	79.5	22.0	12.0	21.5	16.0
Merged-chr11-61956802-4	chr11	61956708	61956908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281818)	promoter-TSS (NM_001281818)	45.0	NM_001310526	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	31.0	48.5	28.5	387.5	107.5	29.5	39.5	45.5
Merged-chr11-77100372-3	chr11	77100310	77100510	+	821.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176965, intron 17 of 17)	intron (NM_176965, intron 17 of 17)	-21973.0	NM_001012309	237859.0	Mm.156195	NM_001012309	ENSMUSG00000037958	Nsrp1	8030451K07|AI851076|AL022898|Ccdc55|NSpr70|NSrp70	nuclear speckle regulatory protein 1	protein-coding	0.0	8.5	3.5	92.5	11.0	4.5	7.5	8.0
Merged-chr4-139308087-4	chr4	139307986	139308186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145384, intron 1 of 8)	intron (NM_145384, intron 1 of 8)	2622.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	161.0	232.0	152.5	2021.5	185.5	80.0	100.5	78.0
Merged-chr16-24435518-4	chr16	24435407	24435607	+	926.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 1 of 12)	intron (NM_178665, intron 1 of 12)	-12584.0	NM_001145952	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	16.0	29.5	13.5	349.5	26.0	12.0	32.0	17.0
Merged-chr6-29507834-4	chr6	29507712	29507912	+	892.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029985, intron 1 of 37)	CpG	140.0	NM_001029985	333088.0	Mm.332961	NM_001029985	ENSMUSG00000059022	Kcp	AW060220|CRIM-2|Crim2|Gm793|KCP-1	kielin/chordin-like protein	protein-coding	10.5	18.0	16.0	153.5	17.5	4.0	12.5	13.5
Merged-chr7-81828952-1	chr7	81828852	81829052	+	841.0	f0_balb.idr	intron (NM_146193, intron 1 of 7)	CpG	479.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	14.0	19.5	8.5	195.5	28.5	14.5	11.5	18.5
Merged-chr12-71294863-3	chr12	71294759	71294959	+	997.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15025.0	NM_021532	59036.0	Mm.46662	NM_021532	ENSMUSG00000044548	Dact1	4921528D17Rik|AI115603|DAPPER|DAPPER1|FRODO|Frd1|Frodo1|MDpr1|MTNG3|THYEX3	dishevelled-binding antagonist of beta-catenin 1	protein-coding	16.5	22.0	21.0	378.0	9.5	6.0	3.0	10.0
Merged-chr2-132107205-4	chr2	132107130	132107330	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	37878.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	29.5	47.5	35.5	690.0	63.0	16.0	18.5	30.5
Merged-chr1-165589360-4	chr1	165589271	165589471	+	829.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45170.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	26.5	20.5	20.0	358.0	17.0	5.0	13.0	20.5
Merged-chr9-54699613-2	chr9	54699513	54699713	+	751.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021422)	promoter-TSS (NM_021422)	54.0	NM_021422	58233.0	Mm.489676	NM_021422	ENSMUSG00000032285	Dnaja4	1110021L12Rik|AV358213|Dj4|Hsj4|mmDjA4	DnaJ heat shock protein family (Hsp40) member A4	protein-coding	4.5	4.0	7.5	14.0	13.0	5.5	5.5	5.0
Merged-chr2-59882573-4	chr2	59882476	59882676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028118)	promoter-TSS (NM_028118)	30.0	NM_001159636	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	141.0	247.0	146.5	2595.0	360.0	146.0	213.0	175.5
Merged-chr13-91221726-3	chr13	91221621	91221821	+	852.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 1 of 7)	intron (NM_025770, intron 1 of 7)	2266.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	4.0	4.0	6.5	111.0	25.0	5.5	5.5	13.0
Merged-chr11-104352315-3	chr11	104352215	104352415	+	723.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 7 of 14)	ID4_|SINE|ID	89976.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	3.5	4.0	2.0	106.0	21.0	6.0	5.0	18.0
Merged-chr17-13007148-4	chr17	13007037	13007237	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013671)	promoter-TSS (NM_013671)	-702.0	NM_013671	20656.0	Mm.290876	NM_013671	ENSMUSG00000006818	Sod2	MnSOD|Sod-2	superoxide dismutase 2, mitochondrial	protein-coding	9.0	23.0	15.0	49.0	45.0	7.0	14.0	2.0
Merged-chr12-35889533-4	chr12	35889447	35889647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36074.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	109.0	164.0	111.0	2232.0	220.5	99.5	96.0	98.0
Merged-chr12-28649599-4	chr12	28649494	28649694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104608)	promoter-TSS (NR_104608)	-8.0	NR_104608	19819.0	Mm.10152	NM_011275	ENSMUSG00000020630	Rnaseh1	-	ribonuclease H1	protein-coding	75.0	92.0	51.0	1051.5	210.5	82.5	76.0	84.5
Merged-chr7-7121498-4	chr7	7121393	7121593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172738)	promoter-TSS (NM_172738)	-17.0	NM_172738	232853.0	Mm.23838	NM_172738	ENSMUSG00000062116	Zfp954	5730403M16Rik|8030437F07|AA123315	zinc finger protein 954	protein-coding	123.0	150.5	117.5	2709.0	305.0	84.0	151.0	173.0
Merged-chr5-12044757-4	chr5	12044657	12044857	+	955.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126714.0	NM_001177510	545732.0	Mm.389066	NM_001177510	ENSMUSG00000067848	4933402N22Rik	-	RIKEN cDNA 4933402N22 gene	protein-coding	15.0	14.0	25.0	676.5	60.0	23.5	23.0	15.0
Merged-chr2-129371148-4	chr2	129371035	129371235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008361)	promoter-TSS (NM_008361)	4.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	33.0	56.5	31.5	272.0	149.0	69.5	51.5	33.5
Merged-chr8-72815956-3	chr8	72815852	72816052	+	963.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010687, exon 15 of 15)	exon (NM_010687, exon 15 of 15)	54293.0	NM_007975	14065.0	Mm.12948	NM_007975	ENSMUSG00000050147	F2rl3	PAR4	coagulation factor II (thrombin) receptor-like 3	protein-coding	19.0	17.0	15.5	326.0	14.5	3.0	13.5	5.0
Merged-chr8-66394375-4	chr8	66394271	66394471	+	912.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	intron (NM_175188, intron 5 of 7)	8070.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	20.5	31.5	15.5	258.0	38.0	13.5	15.0	14.5
Merged-chr6-72374987-4	chr6	72374867	72375067	+	888.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016872, intron 1 of 2)	intron (NM_016872, intron 1 of 2)	5501.0	NM_001080742	53620.0	Mm.440321	NM_016872	ENSMUSG00000073002	Vamp5	AF119384|Camp	vesicle-associated membrane protein 5	protein-coding	14.0	18.0	14.0	122.0	35.0	8.0	11.5	12.5
Merged-chr14-34490117-4	chr14	34490021	34490221	+	782.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009758, intron 1 of 12)	intron (NM_009758, intron 1 of 12)	12425.0	NM_009758	12166.0	Mm.237825	NM_009758	ENSMUSG00000021796	Bmpr1a	1110037I22Rik|ALK-3|ALK3|AU045487|BMPR-1A|BMPR-IA|Bmpr|SKR5	bone morphogenetic protein receptor, type 1A	protein-coding	17.0	13.0	7.0	62.0	23.5	12.0	5.5	4.0
Merged-chr8-19162114-3	chr8	19162029	19162229	+	737.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4242.0	NM_153115	78128.0	Mm.229357	NM_153115	ENSMUSG00000079842	Spag11a	9230111C08Rik|Bin1b|EP2Q|EP2e|Spag11	sperm associated antigen 11A	protein-coding	5.5	9.0	6.5	91.5	17.0	7.5	5.0	6.5
Merged-chr7-43665127-4	chr7	43665022	43665222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-4961.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	55.0	96.5	37.5	483.5	158.0	66.0	70.5	49.5
Merged-chr10-95323583-3	chr10	95323492	95323692	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330138, exon 1 of 3)	5' UTR (NM_001330138, exon 1 of 3)	117.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	4.0	17.0	11.0	107.0	15.0	9.5	9.0	10.0
Merged-chr17-78410887-3	chr17	78410780	78410980	+	836.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 2 of 9)	intron (NM_001360407, intron 2 of 9)	7272.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	7.5	2.0	10.5	137.0	20.5	8.5	7.0	5.5
Merged-chr16-57563422-3	chr16	57563347	57563547	+	954.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	14205.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	15.0	20.0	8.5	271.0	17.0	1.0	2.0	5.5
Merged-chr16-10835076-4	chr16	10834978	10835178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162932)	promoter-TSS (NM_001162932)	19.0	NM_001162932	223970.0	Mm.325777	NM_001033278	ENSMUSG00000037991	Rmi2	A630055G03Rik|Gm537|Gm929	RecQ mediated genome instability 2	protein-coding	18.5	35.0	21.0	391.0	80.5	20.5	38.5	24.0
Merged-chr6-71981582-4	chr6	71981460	71981660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60968.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	73.0	128.0	54.0	1051.5	128.0	72.5	76.0	49.5
Merged-chr12-77052918-3	chr12	77052815	77053015	+	857.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90667.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	10.5	23.5	7.0	192.0	14.0	5.0	9.5	10.5
Merged-chr5-36557752-1	chr5	36557652	36557852	+	826.0	f0_balb.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	24645.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	13.0	9.5	10.5	182.5	9.5	3.5	1.0	0.5
Merged-chr7-120843557-1	chr7	120843457	120843657	+	696.0	f0_balb.idr	promoter-TSS (NM_001267710)	promoter-TSS (NM_001267710)	-43.0	NM_001267710	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	13.0	3.5	14.0	119.0	8.5	12.0	7.5	12.0
Merged-chr13-47226737-2	chr13	47226639	47226839	+	761.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	B3A|SINE|B2	32736.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	5.0	4.0	1.5	34.5	18.0	6.0	4.5	10.5
Merged-chr14-54398054-4	chr14	54397946	54398146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	11426.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	38.0	52.5	39.5	695.5	79.0	26.5	32.0	27.5
Merged-chr15-33263906-3	chr15	33263805	33264005	+	933.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 3 of 7)	intron (NM_176073, intron 3 of 7)	142034.0	NR_033608	73486.0	Mm.483393	NM_028551	ENSMUSG00000058101	1700084J12Rik	-	ribosomal protein L7-like 1 pseudogene	pseudo	6.0	7.0	9.5	209.0	11.0	3.5	15.5	4.5
Merged-chr4-117916014-3	chr4	117915919	117916119	+	941.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1020.0	NM_146152	230673.0	Mm.287810	NM_146152	ENSMUSG00000033365	Ipo13	Imp13|Kap13|Ranbp13	importin 13	protein-coding	6.0	18.5	13.5	195.5	55.0	10.0	8.5	6.5
Merged-chr19-5414969-4	chr19	5414870	5415070	+	907.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027938, intron 1 of 3)	AT_rich|Low_complexity|Low_complexity	8155.0	NR_027938	74931.0	Mm.388511	NR_015545	ENSMUSG00000086938	4930481A15Rik	-	RIKEN cDNA 4930481A15 gene	ncRNA	19.0	17.5	11.0	201.0	38.5	12.0	5.0	27.0
Merged-chr4-149955145-4	chr4	149955026	149955226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029035)	promoter-TSS (NM_029035)	-120.0	NM_029035	74646.0	Mm.30	NM_029035	ENSMUSG00000039911	Spsb1	1110014L01Rik|4930422J18Rik|AI596360|AI854583|SSB-1|SSB1	splA/ryanodine receptor domain and SOCS box containing 1	protein-coding	187.5	311.5	197.5	1808.5	476.5	194.5	165.0	216.5
Merged-chr15-41350084-4	chr15	41349975	41350175	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97407.0	NR_152565	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	33.5	38.5	56.0	771.0	24.0	8.5	12.0	17.5
Merged-chr11-74532557-3	chr11	74532457	74532657	+	902.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	57601.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	5.5	10.5	9.0	119.5	16.0	0.0	6.0	17.5
Merged-chr14-10546138-4	chr14	10546041	10546241	+	807.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	intron (NM_001360141, intron 4 of 9)	-92683.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	10.0	14.0	4.5	104.5	22.5	9.0	7.0	12.5
Merged-chr11-16956681-4	chr11	16956557	16956757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5247.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	119.5	206.0	144.0	2276.0	333.5	108.0	141.0	117.0
Merged-chr11-23823411-4	chr11	23823318	23823518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52448.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	134.5	178.0	129.5	1444.5	206.0	63.0	71.5	76.0
Merged-chr8-117364995-4	chr8	117364895	117365095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	intron (NM_028941, intron 1 of 20)	15825.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	104.0	119.0	118.0	2295.5	180.0	39.5	78.5	69.0
Merged-chr11-44546413-4	chr11	44546330	44546530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 4 of 5)	intron (NM_001166553, intron 4 of 5)	27053.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	32.0	56.0	30.0	565.0	122.5	22.0	40.0	40.5
Merged-chr11-103964225-4	chr11	103964129	103964329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2496.0	NM_001304574	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	74.5	96.0	77.5	839.5	170.5	47.5	80.5	58.5
Merged-chr16-33591898-4	chr16	33591809	33592009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 5 of 11)	intron (NM_001083902, intron 5 of 11)	73314.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	55.0	71.5	47.5	1035.0	105.0	43.0	74.5	54.0
Merged-chr2-93470392-4	chr2	93470284	93470484	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040532)	TTS (NR_040532)	-7434.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	12.0	23.0	11.5	172.5	15.5	17.0	15.5	9.5
Merged-chr3-87369352-4	chr3	87369257	87369457	+	872.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 5 of 5)	intron (NM_009690, intron 5 of 5)	-7030.0	NM_001310545	229499.0	Mm.255203	NM_153090	ENSMUSG00000059994	Fcrl1	A230020G22Rik|Bxmas1|Bxmh1|Bxmh1b|Fcrh1|Fcrh1l|Fcrh1s|Ifgp1	Fc receptor-like 1	protein-coding	12.0	12.5	13.0	357.5	53.0	7.5	22.5	24.0
Merged-chr2-11172339-4	chr2	11172236	11172436	+	984.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008859)	promoter-TSS (NM_008859)	-46.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	34.5	37.0	20.0	342.5	73.0	18.0	17.0	24.0
Merged-chr16-23337487-4	chr16	23337397	23337597	+	878.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 5 of 7)	intron (NM_001252505, intron 5 of 7)	47027.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	15.0	31.5	6.5	89.5	37.5	16.5	26.0	27.0
Merged-chr5-120512069-4	chr5	120511980	120512180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 1 of 13)	intron (NM_001177595, intron 1 of 13)	888.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	59.5	72.5	69.0	637.0	124.5	54.5	65.5	48.5
Merged-chr4-108870176-3	chr4	108870088	108870288	+	665.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8882.0	NM_023537	69908.0	Mm.41580	NM_023537	ENSMUSG00000003411	Rab3b	2610528C18Rik	RAB3B, member RAS oncogene family	protein-coding	14.5	5.5	2.0	81.5	16.0	7.0	8.5	12.5
Merged-chr7-19335847-4	chr7	19335753	19335953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-9218.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	25.5	64.5	23.5	414.0	131.0	43.5	55.0	55.0
Merged-chr8-14675680-4	chr8	14675571	14675771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-212865.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	153.0	173.0	200.0	2600.5	283.0	95.5	161.0	107.0
Merged-chr2-61812004-4	chr2	61811887	61812087	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009322, exon 6 of 6)	exon (NM_009322, exon 6 of 6)	7534.0	NM_009322	21375.0	Mm.308525	NM_009322	ENSMUSG00000035033	Tbr1	-	T-box brain gene 1	protein-coding	8.0	6.5	24.0	227.5	23.0	6.0	23.0	15.0
Merged-chr15-64039032-3	chr15	64038941	64039141	+	678.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	20723.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	4.0	12.5	3.5	102.0	18.5	7.0	5.5	6.0
Merged-chr12-111157838-3	chr12	111157736	111157936	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8534.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	7.0	14.0	9.0	74.5	21.0	15.0	11.0	8.0
Merged-chr13-23763654-4	chr13	23763552	23763752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030609)	promoter-TSS (NM_030609)	-16.0	NM_030609	80838.0	Mm.480242	NM_030609	ENSMUSG00000049539	Hist1h1a	H1.1|H1a|H1f1|H1var3	histone cluster 1, H1a	protein-coding	66.5	77.0	41.0	586.5	172.5	78.0	90.5	65.0
Merged-chr9-20607430-4	chr9	20607334	20607534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033729)	promoter-TSS (NR_033729)	-41.0	NR_033729	66662.0	Mm.477847	NM_175110	ENSMUSG00000062470	Fbxl12os	5730577I03Rik	F-box and leucine-rich repeat protein 12, opposite strand	pseudo	57.0	74.0	57.5	786.5	138.5	55.0	56.5	60.0
Merged-chr10-122570055-4	chr10	122570001	122570201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040616)	promoter-TSS (NR_040616)	-210.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	87.5	169.5	124.5	1640.0	352.5	98.0	136.5	125.0
Merged-chr18-3281104-4	chr18	3281000	3281200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311067)	promoter-TSS (NM_001311067)	32.0	NM_001311066	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	110.0	177.5	94.0	1719.0	337.5	97.0	123.5	110.0
Merged-chr4-125122588-4	chr4	125122409	125122609	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153159, intron 2 of 5)	intron (NM_153159, intron 2 of 5)	5372.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	10.0	24.5	20.0	238.0	56.5	9.5	14.5	15.0
Merged-chr18-53227767-4	chr18	53227640	53227840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17922.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	62.0	68.5	129.0	1499.0	108.5	51.5	99.0	72.0
Merged-chr1-128608294-3	chr1	128608195	128608395	+	933.8777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15996.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	27.5	16.5	9.5	304.0	22.0	4.5	7.5	8.0
Merged-chr5-20969177-4	chr5	20969081	20969281	+	960.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17359.0	NM_001080977	242860.0	Mm.254286	NM_001080977	ENSMUSG00000039968	Rsbn1l	8430412F05Rik|AI447441|C330002G24Rik	round spermatid basic protein 1-like	protein-coding	21.5	27.5	18.5	509.0	52.0	19.0	18.5	14.0
Merged-chr17-56325848-4	chr17	56325720	56325920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357909)	promoter-TSS (NM_001357909)	-230.0	NM_172132	193796.0	Mm.45047	NM_172132	ENSMUSG00000024201	Kdm4b	4732474L06Rik|Jmjd2b	lysine (K)-specific demethylase 4B	protein-coding	359.5	617.5	472.5	6263.0	1072.0	398.5	539.5	392.5
Merged-chr11-82007040-5	chr11	82006976	82007176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28501.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	64.5	91.0	64.0	852.5	141.0	60.5	76.5	55.5
Merged-chr2-124657563-3	chr2	124657444	124657644	+	959.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199241, intron 8 of 17)	intron (NM_199241, intron 8 of 17)	3963.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	14.5	6.0	17.5	238.5	6.5	0.0	8.0	5.0
Merged-chr3-78312917-4	chr3	78312817	78313017	+	951.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	831970.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	18.0	18.5	26.0	353.0	31.0	13.5	22.0	33.0
Merged-chr11-75168206-4	chr11	75168078	75168278	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098203)	promoter-TSS (NM_001098203)	-26.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	9.5	8.0	28.5	210.5	39.5	11.0	22.5	24.0
Merged-chr2-156392972-4	chr2	156392881	156393081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024329)	promoter-TSS (NR_024329)	-2.0	NR_024329	347740.0	Mm.324242	NR_024329	ENSMUSG00000102869	2900097C17Rik	1810005K14Rik|4930563C06Rik	RIKEN cDNA 2900097C17 gene	ncRNA	31.0	55.0	27.0	210.5	74.5	27.0	32.5	42.0
Merged-chr11-98918407-4	chr11	98918308	98918508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025779, intron 9 of 11)	intron (NM_001025779, intron 9 of 11)	10257.0	NM_011799	23834.0	Mm.20912	NM_011799	ENSMUSG00000017499	Cdc6	CDC18L	cell division cycle 6	protein-coding	87.5	104.5	74.5	1172.5	131.0	62.0	86.0	52.0
Merged-chr7-31109497-3	chr7	31109415	31109615	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008281, intron 2 of 12)	intron (NM_008281, intron 2 of 12)	1482.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	1.0	6.5	0.0	19.5	9.5	8.0	8.0	7.0
Merged-chr2-152740626-4	chr2	152740528	152740728	+	819.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4377.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	15.5	14.5	10.0	72.5	19.0	12.0	3.5	9.5
Merged-chr5-140108086-4	chr5	140107977	140108177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359025, intron 14 of 17)	intron (NM_001359025, intron 14 of 17)	66841.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	89.5	130.5	80.5	1612.0	231.0	50.5	82.0	94.0
Merged-chr4-116627972-4	chr4	116627873	116628073	+	969.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016777)	promoter-TSS (NM_016777)	-22.0	NM_016777	50927.0	Mm.257181	NM_016777	ENSMUSG00000028693	Nasp	5033430J04Rik|AI131596|AI317140|D4Ertd767e|Epcs32|Nasp-T	nuclear autoantigenic sperm protein (histone-binding)	protein-coding	31.0	52.5	13.5	373.0	77.5	31.5	47.5	29.0
Merged-chr7-55842248-4	chr7	55842143	55842343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164661, exon 1 of 32)	5' UTR (NM_001164661, exon 1 of 32)	172.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	59.5	151.0	81.0	655.0	160.5	62.0	84.5	39.5
Merged-chr18-32353310-4	chr18	32353262	32353462	+	960.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-23855.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	30.5	31.5	12.0	299.0	49.5	14.0	19.0	16.0
Merged-chr4-129671656-4	chr4	129671579	129671779	+	812.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008468, intron 1 of 13)	intron (NM_008468, intron 1 of 13)	1088.0	NM_008468	16650.0	Mm.202358	NM_008468	ENSMUSG00000003731	Kpna6	IPOA7|Kpna5|NPI-2	karyopherin (importin) alpha 6	protein-coding	5.0	9.0	6.5	84.5	21.5	6.5	12.0	11.0
Merged-chr7-72303710-1	chr7	72303610	72303810	+	656.5	f0_balb.idr	intron (NM_001024703, intron 1 of 22)	Arthur1C|DNA|hAT-Tip100	2885.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	6.5	11.0	16.0	104.5	3.0	1.0	0.5	1.0
Merged-chr10-81218244-4	chr10	81218161	81218361	+	796.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178662, intron 3 of 12)	ORR1B1|LTR|ERVL-MaLR	12518.0	NM_178662	16467.0	Mm.127681	NM_178662	ENSMUSG00000034958	Atcay	3322401A10Rik|BB077577|BNIP-H|CLAC|hes|ji	ataxia, cerebellar, Cayman type	protein-coding	10.0	13.5	11.0	57.5	24.5	16.5	12.5	13.0
Merged-chr11-69614203-4	chr11	69614118	69614318	+	839.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011367)	TTS (NM_011367)	3687.0	NM_011367	20415.0	Mm.1431	NM_011367	ENSMUSG00000005202	Shbg	ABP	sex hormone binding globulin	protein-coding	10.0	11.0	5.5	19.5	24.5	5.0	8.0	18.0
Merged-chr2-45554925-4	chr2	45554819	45555019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141686.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	23.5	30.0	21.5	535.0	48.0	20.5	30.0	25.5
Merged-chr1-180250263-4	chr1	180250150	180250350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128605, intron 1 of 10)	intron (NM_001128605, intron 1 of 10)	-4300.0	NM_011183	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	53.5	43.5	50.5	786.5	122.5	36.0	56.0	61.5
Merged-chr3-135825297-1	chr3	135825197	135825397	+	1000.0	f0_balb.idr	promoter-TSS (NM_001135150)	promoter-TSS (NM_001135150)	18.0	NM_026228	67547.0	Mm.30239	NM_026228	ENSMUSG00000053897	Slc39a8	4933419D20Rik|AA986696|BIGM103|ZIP-8|Zip8	solute carrier family 39 (metal ion transporter), member 8	protein-coding	12.0	10.5	19.0	348.0	32.0	4.0	7.5	14.0
Merged-chr16-85071960-4	chr16	85071852	85072052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 5 of 15)	intron (NM_001198825, intron 5 of 15)	99741.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	115.0	187.0	178.0	2715.5	278.0	104.0	144.0	136.5
Merged-chr19-42129116-4	chr19	42129021	42129221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027106)	promoter-TSS (NM_027106)	-128.0	NM_027106	69534.0	Mm.30060	NM_027106	ENSMUSG00000018821	Avpi1	2310008N12Rik|AA410041|VIT32|esu|mVIT32	arginine vasopressin-induced 1	protein-coding	131.0	187.0	129.5	1995.0	269.5	100.5	102.0	76.5
Merged-chr19-46761423-4	chr19	46761343	46761543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033569)	promoter-TSS (NM_033569)	-166.0	NM_033569	94219.0	Mm.306903	NM_033569	ENSMUSG00000064105	Cnnm2	AU015877|AW048635|Acdp2|Clp2	cyclin M2	protein-coding	277.0	484.0	243.0	3641.0	604.0	207.5	235.0	216.5
Merged-chr9-25508975-4	chr9	25508840	25509040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	27343.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	219.5	328.5	258.5	3362.0	445.5	127.5	190.5	152.0
Merged-chr14-19733517-4	chr14	19733377	19733577	+	961.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17780.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	18.0	26.0	22.0	326.5	38.5	14.5	13.0	23.0
Merged-chr5-140642261-4	chr5	140642146	140642346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308040, intron 1 of 12)	intron (NM_001308040, intron 1 of 12)	6785.0	NM_001308040	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	98.5	103.0	86.0	1402.0	227.0	86.5	95.5	96.5
Merged-chr19-4298977-2	chr19	4298877	4299077	+	758.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	7245.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	9.0	6.5	6.0	55.5	9.5	3.0	10.0	5.0
Merged-chr9-44986611-4	chr9	44986502	44986702	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013487, exon 5 of 5)	3' UTR (NM_013487, exon 5 of 5)	4816.0	NM_013487	12500.0	Mm.4527	NM_013487	ENSMUSG00000032094	Cd3d	T3d	CD3 antigen, delta polypeptide	protein-coding	29.0	62.5	43.0	548.0	58.5	16.0	35.0	36.5
Merged-chr12-78980880-4	chr12	78980773	78980973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178745, intron 1 of 2)	intron (NM_178745, intron 1 of 2)	2605.0	NM_001170401	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	151.5	141.5	129.5	2100.0	262.0	88.5	135.0	104.5
Merged-chr10-19508179-3	chr10	19508072	19508272	+	942.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152784)	TTS (NR_152784)	13529.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	6.5	1.0	11.5	171.0	13.0	6.0	7.0	5.0
Merged-chr4-136120212-4	chr4	136120112	136120312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23610.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	52.0	83.0	54.5	1193.5	76.0	30.5	45.0	63.0
Merged-chr12-85523928-4	chr12	85523825	85524025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50035.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	160.0	307.5	136.0	1902.0	369.5	160.0	152.0	120.0
Merged-chr6-136449445-4	chr6	136449301	136449501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33832.0	NM_001201390	100502936.0	Mm.21182	NM_001201390	ENSMUSG00000045291	E330021D16Rik	C85549	RIKEN cDNA E330021D16 gene	protein-coding	137.5	103.5	75.0	1435.0	169.5	52.5	102.0	75.5
Merged-chr7-19381935-4	chr7	19381838	19382038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007949)	promoter-TSS (NM_007949)	-101.0	NM_007949	13871.0	Mm.36524	NM_007949	ENSMUSG00000030400	Ercc2	AA407812|AU020867|AW240756|CXPD|Ercc-2|Mhdarco15|RCO015|XPD	excision repair cross-complementing rodent repair deficiency, complementation group 2	protein-coding	105.0	144.0	59.5	1040.0	329.5	98.0	120.5	90.0
Merged-chr19-11740364-3	chr19	11740256	11740456	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7203.0	NM_008118	14603.0	Mm.456	NM_008118	ENSMUSG00000024682	Gif	AV073125	gastric intrinsic factor	protein-coding	14.0	13.0	21.5	169.0	15.5	4.0	6.0	7.5
Merged-chr11-121204401-4	chr11	121204307	121204507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001333)	promoter-TSS (NM_001001333)	-26.0	NM_001001333	238023.0	Mm.275130	NM_001001333	ENSMUSG00000039307	Hexdc	BC069960	hexosaminidase (glycosyl hydrolase family 20, catalytic domain) containing	protein-coding	79.0	112.0	70.0	796.0	199.5	64.0	77.5	82.5
Merged-chr11-53931625-2	chr11	53931525	53931725	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39922.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	9.0	11.5	7.5	88.5	19.5	8.0	6.0	6.5
Merged-chr4-55349830-4	chr4	55349734	55349934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009011)	promoter-TSS (NM_009011)	-208.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	384.0	571.5	450.0	5416.5	907.5	402.0	460.5	381.5
Merged-chr1-152152619-4	chr1	152152505	152152705	+	835.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62285.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	13.0	8.5	10.0	467.0	26.0	5.5	9.5	7.5
Merged-chr5-20256762-4	chr5	20256625	20256825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 6 of 22)	intron (NM_001170746, intron 6 of 22)	349207.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	31.5	37.5	30.5	754.0	72.0	20.5	32.5	29.0
Merged-chr16-75872415-4	chr16	75872312	75872512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 6 of 7)	intron (NM_023380, intron 6 of 7)	36854.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	82.5	146.5	40.0	421.0	357.5	150.5	111.5	57.5
Merged-chr11-110373227-4	chr11	110373129	110373329	+	783.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1b|LINE|L1	-25873.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	8.0	15.5	4.0	137.5	41.5	7.0	13.0	12.5
Merged-chr11-85684492-2	chr11	85684392	85684592	+	941.3000490000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	35252.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	6.0	5.0	5.5	54.0	12.5	4.5	3.0	6.5
Merged-chr4-40947413-2	chr4	40947313	40947513	+	968.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001171739, intron 1 of 6)	intron (NM_001171739, intron 1 of 6)	881.0	NM_009736	12017.0	Mm.688	NM_009736	ENSMUSG00000028416	Bag1	BAG-1|Rap46	BCL2-associated athanogene 1	protein-coding	7.0	5.0	5.5	63.5	17.0	4.0	5.0	5.5
Merged-chr4-86697046-4	chr4	86696952	86697152	+	859.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26993.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	24.0	16.0	6.5	121.0	33.0	8.0	9.5	11.0
Merged-chr10-34210189-4	chr10	34210077	34210277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2626.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	59.5	78.0	89.0	1112.5	157.5	45.5	64.0	50.0
Merged-chr18-38455783-1	chr18	38455683	38455883	+	608.0	f0_balb.idr	intron (NM_001355749, intron 5 of 7)	intron (NM_001355749, intron 5 of 7)	36876.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	10.5	1.0	7.0	82.0	10.5	7.0	6.5	5.0
Merged-chr4-114986746-4	chr4	114986639	114986839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025647, intron 1 of 5)	CpG	489.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	19.0	56.0	70.0	585.5	94.5	42.5	50.0	56.0
Merged-chr19-42026355-4	chr19	42026255	42026455	+	936.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	intron (NM_145500, intron 1 of 2)	-9683.0	NM_020033	56642.0	Mm.143737	NM_020033	ENSMUSG00000025172	Ankrd2	Arpp|mArpp	ankyrin repeat domain 2 (stretch responsive muscle)	protein-coding	12.5	22.5	17.5	228.5	44.0	11.0	14.0	11.5
Merged-chr19-10678685-3	chr19	10678596	10678796	+	859.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021453)	promoter-TSS (NM_021453)	-625.0	NM_021453	58803.0	Mm.34037	NM_021453	ENSMUSG00000024738	Pga5	1110035E17Rik|Pepf	pepsinogen 5, group I	protein-coding	8.5	11.0	6.0	110.5	14.0	2.5	3.5	5.0
Merged-chr8-70383503-4	chr8	70383406	70383606	+	839.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001004062, exon 14 of 14)	3' UTR (NM_001004062, exon 14 of 14)	9958.0	NM_016685	12845.0	Mm.45071	NM_016685	ENSMUSG00000031849	Comp	TSP5	cartilage oligomeric matrix protein	protein-coding	9.0	18.5	4.0	96.0	32.0	8.0	17.0	12.5
Merged-chr14-52198355-4	chr14	52198248	52198448	+	854.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_201637, exon 37 of 37)	3' UTR (NM_201637, exon 37 of 37)	-1109.0	NM_033618	114741.0	Mm.21662	NM_033618	ENSMUSG00000035726	Supt16	Cdc68|Fact140|Spt16|Supt16h	suppressor of Ty 16	protein-coding	8.0	13.5	9.0	115.5	39.5	14.0	12.5	19.5
Merged-chr15-84183823-2	chr15	84183723	84183923	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_054088, intron 7 of 7)	RSINE1|SINE|B4	-8410.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	7.5	8.5	4.0	133.5	29.0	16.0	17.0	16.5
Merged-chr7-43926182-2	chr7	43926077	43926277	+	863.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7594.0	NM_174865	317652.0	Mm.389896	NM_174865	ENSMUSG00000055193	Klk15	-	kallikrein related-peptidase 15	protein-coding	9.5	17.5	5.0	34.0	12.0	2.0	8.0	12.0
Merged-chr3-30847704-4	chr3	30847608	30847808	+	876.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8242.0	NM_001134386	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	2.0	1.5	9.5	132.0	37.0	9.0	8.0	13.0
Merged-chr10-112140002-4	chr10	112139910	112140110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23611.0	NM_001310675	353025.0	Mm.194428	NM_178278	ENSMUSG00000035694	Caps2	D630005B03Rik	calcyphosphine 2	protein-coding	118.5	158.5	79.5	1812.5	272.0	92.5	108.0	117.5
Merged-chr2-167944943-3	chr2	167944846	167945046	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	12619.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	5.0	8.0	13.5	276.0	14.0	2.0	1.5	10.5
Merged-chr9-5298614-4	chr9	5298527	5298727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009807, exon 1 of 10)	5' UTR (NM_009807, exon 1 of 10)	110.0	NM_009807	12362.0	Mm.1051	NM_009807	ENSMUSG00000025888	Casp1	ICE|Il1bc	caspase 1	protein-coding	62.0	68.0	71.0	1244.5	172.0	65.0	57.0	56.5
Merged-chr4-88464789-4	chr4	88464669	88464869	+	922.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25843.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	17.0	12.0	19.5	295.0	64.5	22.5	24.5	12.5
Merged-chr16-18089224-4	chr16	18089130	18089330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011172)	promoter-TSS (NM_011172)	-40.0	NM_011172	19125.0	Mm.28456	NM_011172	ENSMUSG00000003526	Prodh	Pro-1|Pro1|Ym24d07	proline dehydrogenase	protein-coding	71.0	52.0	44.0	1174.5	175.5	58.0	71.0	46.5
Merged-chr18-69666395-4	chr18	69666276	69666476	+	848.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	intron (NM_001361128, intron 15 of 19)	-259183.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	10.0	6.5	5.5	270.5	32.0	16.5	18.5	8.0
Merged-chr6-113483359-4	chr6	113483244	113483444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133930)	promoter-TSS (NM_133930)	-12.0	NM_133930	171508.0	Mm.41593	NM_133930	ENSMUSG00000030284	Creld1	AI843811|i11E7	cysteine-rich with EGF-like domains 1	protein-coding	179.0	350.0	139.5	3243.0	448.5	161.5	171.0	159.0
Merged-chr15-79546696-4	chr15	79546612	79546812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199080)	promoter-TSS (NM_199080)	29.0	NM_001040187	67040.0	Mm.29644	NM_152806	ENSMUSG00000055065	Ddx17	2610007K22Rik|A430025E01Rik|AI047725|C80929|Gm926|p72	DEAD (Asp-Glu-Ala-Asp) box polypeptide 17	protein-coding	117.5	164.0	98.5	1237.0	245.5	108.0	80.5	118.5
Merged-chr1-136138544-4	chr1	136138557	136138757	+	997.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	7267.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	8.0	10.5	9.5	99.5	24.0	6.5	8.0	13.5
Merged-chr1-58618436-4	chr1	58618334	58618534	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32037.0	NM_025597	66495.0	Mm.2033	NM_025597	ENSMUSG00000026032	Ndufb3	2700033I16Rik|CI-B12	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 3	protein-coding	17.5	23.0	6.0	274.5	34.5	17.5	24.5	12.5
Merged-chr4-47398422-4	chr4	47398300	47398500	+	919.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312869, intron 3 of 7)	intron (NM_001312869, intron 3 of 7)	12184.0	NM_001312869	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	13.0	7.5	9.5	315.5	37.0	6.5	14.5	13.0
Merged-chr7-102394117-4	chr7	102394039	102394239	+	659.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 3 of 11)	ID_B1|SINE|B4	-47556.0	NM_009103	20133.0	Mm.197486	NM_009103	ENSMUSG00000030978	Rrm1	RnrM1	ribonucleotide reductase M1	protein-coding	8.0	9.5	5.5	180.5	20.5	5.5	10.5	5.0
Merged-chr9-107612313-4	chr9	107612241	107612441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3100.0	NM_001291539	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	52.0	76.0	46.0	620.0	114.0	42.5	41.0	59.0
Merged-chr12-52001779-4	chr12	52001676	52001876	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347404, intron 2 of 3)	intron (NM_001347404, intron 2 of 3)	4731.0	NM_029545	328092.0	Mm.2821	NM_029545	ENSMUSG00000020956	Dtd2	4930578F06Rik|6530401N04Rik|B830049N13Rik	D-tyrosyl-tRNA deacylase 2	protein-coding	15.0	12.5	3.5	188.0	28.0	10.0	9.5	11.5
Merged-chr1-165634593-4	chr1	165634491	165634691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347128)	promoter-TSS (NM_001347128)	-50.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	285.5	392.5	299.0	4857.5	548.5	187.0	358.5	262.0
Merged-chr17-6601680-4	chr17	6601589	6601789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166627)	promoter-TSS (NM_001166627)	18.0	NM_001166627	100040531.0	Mm.457987	NM_001166627	ENSMUSG00000095677	Dynlt1f	100040631|Dynlt1e	dynein light chain Tctex-type 1F	protein-coding	119.0	144.5	97.0	576.5	107.0	27.5	44.5	18.5
Merged-chr6-30048408-3	chr6	30048340	30048540	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164226, intron 1 of 11)	CpG	452.0	NM_001164227	18181.0	Mm.259258	NM_010938	ENSMUSG00000058440	Nrf1	C87038|D6Ertd415e	nuclear respiratory factor 1	protein-coding	15.0	48.0	43.0	316.0	52.5	18.0	21.5	24.0
Merged-chr17-40934621-4	chr17	40934520	40934720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008650)	promoter-TSS (NM_008650)	-65.0	NM_008650	17850.0	Mm.259884	NM_008650	ENSMUSG00000023921	Mut	D230010K02Rik|Mcm	methylmalonyl-Coenzyme A mutase	protein-coding	287.0	451.0	268.0	5083.0	903.0	322.5	375.0	304.0
Merged-chr19-59052218-4	chr19	59052112	59052312	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 2 of 16)	intron (NM_001114312, intron 2 of 16)	23857.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	25.0	11.0	18.0	350.5	66.0	17.5	23.0	29.0
Merged-chr4-32560441-4	chr4	32560378	32560578	+	972.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_026843, exon 5 of 5)	non-coding (NR_026843, exon 5 of 5)	11184.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	11.5	11.0	26.5	498.5	16.0	4.5	22.5	14.0
Merged-chr9-77858649-4	chr9	77858550	77858750	+	896.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-58715.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	12.0	22.0	11.0	360.5	26.0	1.5	9.5	21.5
Merged-chr4-122985321-4	chr4	122985223	122985423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10608.0	NM_001303121	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	32.0	68.5	31.0	551.5	101.5	30.0	53.5	41.0
Merged-chr9-40807811-4	chr9	40807730	40807930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6557.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	70.0	119.0	75.5	1271.5	250.0	76.5	96.0	69.5
Merged-chr14-73384812-3	chr14	73384733	73384933	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	CpG	456.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	14.5	32.0	23.0	273.0	61.5	32.0	28.0	30.0
Merged-chr11-100938331-4	chr11	100938236	100938436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213660, intron 1 of 23)	intron (NM_213660, intron 1 of 23)	1204.0	NM_213660	20848.0	Mm.249934	NM_011486	ENSMUSG00000004040	Stat3	1110034C02Rik|AW109958|Aprf	signal transducer and activator of transcription 3	protein-coding	31.5	39.0	24.5	436.5	123.0	40.5	34.5	23.0
Merged-chr12-3780841-4	chr12	3780732	3780932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007886, intron 18 of 18)	intron (NM_007886, intron 18 of 18)	-26148.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	21.0	39.5	35.5	528.5	99.5	16.5	24.0	18.0
Merged-chr11-107339581-4	chr11	107339504	107339704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	131116.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	64.5	55.5	57.0	794.5	123.0	52.5	66.5	45.0
Merged-chr16-31081407-4	chr16	31081311	31081511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198626)	promoter-TSS (NM_198626)	21.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	121.0	171.0	116.5	1717.5	245.5	102.5	111.5	99.5
Merged-chr4-155847408-4	chr4	155847314	155847514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010091)	promoter-TSS (NM_010091)	12.0	NM_001356381	13542.0	Mm.3400	NM_010091	ENSMUSG00000029071	Dvl1	Dvl|mKIAA4029	dishevelled segment polarity protein 1	protein-coding	115.0	187.5	132.0	1663.5	345.0	136.0	100.0	135.5
Merged-chr13-105216575-4	chr13	105216531	105216731	+	753.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 5 of 7)	intron (NM_001360891, intron 5 of 7)	76383.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	9.0	12.5	8.5	133.0	19.0	1.0	8.0	11.5
Merged-chr1-54913629-2	chr1	54913529	54913729	+	762.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	12758.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	7.5	5.5	5.5	52.5	26.5	3.0	0.0	8.0
Merged-chr18-84950793-3	chr18	84950718	84950918	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025969, intron 1 of 5)	intron (NM_025969, intron 1 of 5)	706.0	NM_025969	67105.0	Mm.250617	NM_025969	ENSMUSG00000024645	Timm21	1700034H14Rik|2700002I20Rik	translocase of inner mitochondrial membrane 21	protein-coding	7.0	7.5	7.5	176.0	11.0	3.0	7.5	6.5
Merged-chr6-124808850-4	chr6	124808768	124808968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306052)	promoter-TSS (NM_001306052)	-17.0	NM_001306052	14794.0	Mm.261906	NM_013539	ENSMUSG00000038451	Spsb2	AI461677|C9|Grcc9|SSB2	splA/ryanodine receptor domain and SOCS box containing 2	protein-coding	36.0	59.0	36.0	413.0	103.5	54.0	53.5	39.5
Merged-chr10-98716343-3	chr10	98716237	98716437	+	867.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198305.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	7.0	5.5	5.5	200.5	5.0	4.0	6.0	4.5
Merged-chr8-33656165-4	chr8	33656118	33656318	+	871.333374	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	B3|SINE|B2	2980.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	1.0	2.0	0.5	22.5	13.0	11.5	10.5	9.5
Merged-chr7-67440854-4	chr7	67440772	67440972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68014.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	16.0	19.5	18.5	263.5	37.0	19.0	37.5	23.5
Merged-chr6-29270676-2	chr6	29270576	29270776	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1812.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	5.0	16.5	18.0	81.5	10.5	3.0	3.5	5.5
Merged-chr4-141998510-2	chr4	141998410	141998610	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 2 of 31)	MLT1K|LTR|ERVL-MaLR	13141.0	NM_177868	329977.0	Mm.252019	NM_028429	ENSMUSG00000051435	Fhad1	2900090M10Rik|B230311F11	forkhead-associated (FHA) phosphopeptide binding domain 1	protein-coding	4.5	7.0	6.5	56.0	9.5	17.0	5.5	8.5
Merged-chr5-150595570-4	chr5	150595459	150595659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1034.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	320.5	464.5	291.0	3867.0	744.0	268.0	336.5	300.0
Merged-chr6-34995485-4	chr6	34995379	34995579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR52|LTR|ERVL	-17480.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	46.0	67.5	37.0	912.5	93.0	26.5	39.5	43.5
Merged-chr2-144264943-4	chr2	144264828	144265028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024225, intron 1 of 12)	intron (NM_024225, intron 1 of 12)	1274.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	55.5	58.5	37.0	1017.5	107.5	32.0	52.5	56.5
Merged-chr15-82127836-4	chr15	82127743	82127943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172428)	promoter-TSS (NM_172428)	-79.0	NM_172428	76457.0	Mm.440373	NM_172428	ENSMUSG00000068114	Ccdc134	2310042L06Rik|AW208859	coiled-coil domain containing 134	protein-coding	289.0	387.0	249.5	3448.5	538.0	195.5	313.5	253.0
Merged-chr9-114844461-4	chr9	114844300	114844500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027294)	promoter-TSS (NM_027294)	-248.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	57.0	46.5	46.0	712.5	59.0	32.5	36.0	43.5
Merged-chr8-94037123-4	chr8	94037022	94037222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177767)	promoter-TSS (NM_177767)	-76.0	NM_177767	270086.0	Mm.251085	NM_177767	ENSMUSG00000033009	Ogfod1	4930415J21Rik|AA387199|AA939912|AW061076|mKIAA1612	2-oxoglutarate and iron-dependent oxygenase domain containing 1	protein-coding	249.0	381.5	279.0	3653.5	556.5	209.5	221.0	231.0
Merged-chr16-57123299-4	chr16	57123206	57123406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138599, intron 1 of 11)	intron (NM_138599, intron 1 of 11)	1592.0	NM_138599	28185.0	Mm.196933	NM_138599	ENSMUSG00000022752	Tomm70a	2610044B22Rik|D16Ium22|D16Ium22e|D16Wsu109e|Tom70|Tomm70|mKIAA0719	translocase of outer mitochondrial membrane 70A	protein-coding	24.0	24.5	22.5	253.5	67.0	19.0	35.5	21.0
Merged-chr7-118129704-4	chr7	118129604	118129804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019419)	promoter-TSS (NM_019419)	-79.0	NM_019419	54208.0	Mm.29924	NM_019419	ENSMUSG00000030654	Arl6ip1	AIP-6|AL022945|ARMER|AU042858|Aip-1|Arl6ip|C85138|mKIAA0069	ADP-ribosylation factor-like 6 interacting protein 1	protein-coding	284.0	421.5	314.5	4466.0	620.5	275.5	316.0	297.0
Merged-chr13-55190388-4	chr13	55190308	55190508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-19374.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	111.5	157.5	59.5	1258.5	317.5	115.0	107.0	123.0
Merged-chr13-45903797-4	chr13	45903717	45903917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	61174.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	49.5	101.5	66.5	656.5	86.5	57.0	42.5	41.5
Merged-chr4-12245146-4	chr4	12245057	12245257	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73142.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	21.5	31.5	32.0	593.0	29.0	11.0	17.5	15.5
Merged-chr3-38206094-4	chr3	38206000	38206200	+	852.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040541, intron 2 of 2)	intron (NR_040541, intron 2 of 2)	2019.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	4.5	12.0	7.0	167.0	32.0	6.0	14.0	9.0
Merged-chr3-59342230-4	chr3	59342144	59342344	+	843.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162884, intron 1 of 6)	L1MA4A|LINE|L1	2012.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	13.5	28.0	20.5	217.0	29.5	16.0	14.5	8.0
Merged-chr17-63492825-4	chr17	63492717	63492917	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 1 of 8)	intron (NM_015794, intron 1 of 8)	7763.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	30.0	34.5	26.5	579.0	48.5	21.0	20.5	19.5
Merged-chr4-126201880-4	chr4	126201788	126201988	+	983.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356456)	promoter-TSS (NM_001356456)	822.0	NM_001356455	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	14.0	29.5	19.5	296.0	125.5	33.0	25.5	34.0
Merged-chr9-116166422-4	chr9	116166308	116166508	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	8955.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	23.5	65.0	33.5	394.5	47.0	13.0	16.0	24.0
Merged-chr15-99388851-2	chr15	99388751	99388951	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4096.0	NM_026669	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	7.0	7.0	6.0	74.0	14.5	0.0	5.5	1.5
Merged-chr8-56064273-4	chr8	56064140	56064340	+	755.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080438, intron 5 of 9)	B4A|SINE|B4	123415.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	10.5	7.5	7.0	111.0	13.5	9.0	3.0	4.0
Merged-chr5-64810091-4	chr5	64809974	64810174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	6551.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	60.5	78.0	23.0	650.0	90.0	46.0	53.0	55.0
Merged-chr19-45154639-3	chr19	45154525	45154725	+	699.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021901, intron 2 of 2)	intron (NM_021901, intron 2 of 2)	3910.0	NM_021901	21908.0	Mm.391203	NM_021901	ENSMUSG00000025215	Tlx1	Hox-11|Hox11|Tlx-1	T cell leukemia, homeobox 1	protein-coding	16.0	12.5	12.0	58.0	12.0	7.5	2.0	3.0
Merged-chr4-95200645-4	chr4	95200541	95200741	+	852.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148419.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	7.5	2.5	16.5	147.0	21.0	6.0	13.5	11.5
Merged-chr10-60261161-2	chr10	60261061	60261261	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16467.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	15.5	12.0	20.5	217.0	62.0	17.5	19.0	39.5
Merged-chr10-19687900-4	chr10	19687865	19688065	+	891.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24622.0	NM_172786	237313.0	Mm.234667	NM_172786	ENSMUSG00000020007	Il20ra	E230031K19	interleukin 20 receptor, alpha	protein-coding	12.5	12.0	13.0	134.5	13.0	7.5	20.5	8.5
Merged-chr14-60757898-4	chr14	60757819	60758019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033272, intron 11 of 12)	intron (NM_001033272, intron 11 of 12)	-10215.0	NM_183175	239126.0	Mm.319636	NM_183175	ENSMUSG00000071347	C1qtnf9	9130217G22Rik|CTRP9|Ciqtnf9	C1q and tumor necrosis factor related protein 9	protein-coding	31.5	70.5	31.0	361.0	74.5	36.0	26.0	20.0
Merged-chr15-102247730-4	chr15	102247659	102247859	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011244, intron 3 of 9)	CpG	-1259.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	27.0	59.0	22.0	307.5	66.5	30.0	24.5	29.0
Merged-chr15-5539569-4	chr15	5539517	5539717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045274, intron 1 of 4)	intron (NR_045274, intron 1 of 4)	43299.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	60.5	100.0	64.0	548.0	107.0	39.5	34.0	44.0
Merged-chr3-108878606-4	chr3	108878444	108878644	+	765.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177091, intron 4 of 12)	intron (NM_177091, intron 4 of 12)	11464.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	3.5	12.5	13.5	82.5	16.5	12.0	9.0	15.0
Merged-chr2-173022413-4	chr2	173022328	173022528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019547, intron 1 of 3)	CpG	526.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	20.0	39.5	23.5	168.5	67.5	21.5	18.5	24.5
Merged-chr5-120517730-4	chr5	120517637	120517837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	intron (NM_001177595, intron 2 of 13)	6545.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	216.5	419.5	282.0	3662.5	648.0	226.0	292.5	243.0
Merged-chr15-34456352-4	chr15	34456262	34456462	+	893.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173421, intron 1 of 2)	MTD|LTR|ERVL-MaLR	3050.0	NM_173421	239368.0	Mm.211977	NM_173421	ENSMUSG00000044726	Erich5	-	glutamate rich 5	protein-coding	13.5	6.0	12.0	285.5	18.5	9.0	14.5	16.5
Merged-chr18-75462768-4	chr18	75462669	75462869	+	919.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 10 of 11)	intron (NM_201354, intron 10 of 11)	-51876.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	26.0	14.0	19.0	259.5	27.0	4.5	16.5	13.5
Merged-chr8-94667098-1	chr8	94666998	94667198	+	969.3333130000001	f0_balb.idr	promoter-TSS (NM_024269)	promoter-TSS (NM_024269)	7.0	NM_024269	107566.0	Mm.393247	NM_024191	ENSMUSG00000031776	Arl2bp	1700010P10Rik|1700027H16Rik|6330544B05Rik|AI482273|AI849834|BART|Bart1	ADP-ribosylation factor-like 2 binding protein	protein-coding	6.0	18.0	24.5	228.5	24.0	12.5	13.0	12.5
Merged-chr7-27231834-4	chr7	27231734	27231934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-1179.0	NM_133770	76889.0	Mm.124728	NM_133770	ENSMUSG00000003762	Coq8b	0610012P18Rik|Adck4	coenzyme Q8B	protein-coding	58.0	81.0	23.5	435.5	103.5	52.0	43.0	32.0
Merged-chr17-83675610-4	chr17	83675498	83675698	+	938.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-30565.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	18.0	13.0	12.5	300.5	28.0	12.0	19.5	32.0
Merged-chr10-70287503-4	chr10	70287397	70287597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42221.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	24.5	25.0	21.0	512.5	74.5	25.5	42.5	38.5
Merged-chr7-99141287-4	chr7	99141189	99141389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178635)	promoter-TSS (NM_178635)	-145.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	367.0	555.5	397.5	4904.5	940.0	383.0	422.0	375.0
Merged-chr12-98734652-4	chr12	98734536	98734736	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011877)	promoter-TSS (NM_011877)	9.0	NM_011877	24000.0	Mm.4420	NM_011877	ENSMUSG00000021009	Ptpn21	PTPD1|PTPRL10	protein tyrosine phosphatase, non-receptor type 21	protein-coding	39.0	29.0	35.0	534.5	71.0	17.0	30.5	17.0
Merged-chr12-55499222-4	chr12	55499090	55499290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6543.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	31.5	48.5	21.5	352.5	82.0	43.5	24.0	20.0
Merged-chr1-153489354-4	chr1	153489286	153489486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1726.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	72.0	111.5	66.5	1631.0	157.0	61.5	66.5	70.0
Merged-chr11-76482842-4	chr11	76482779	76482979	+	893.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 2 of 21)	intron (NM_001346670, intron 2 of 21)	11616.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	19.0	17.0	10.0	205.5	43.5	12.0	10.0	8.5
Merged-chr5-108694854-4	chr5	108694730	108694930	+	866.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054071, intron 1 of 6)	CpG	601.0	NM_054071	116701.0	Mm.35691	NM_054071	ENSMUSG00000008090	Fgfrl1	FGFR5|FGFR5beta|FGFR5gamma	fibroblast growth factor receptor-like 1	protein-coding	4.0	14.0	14.5	137.0	33.5	8.0	9.0	7.5
Merged-chr13-43775454-4	chr13	43775325	43775525	+	931.145874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9687.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	17.5	20.0	29.5	171.5	93.5	19.0	18.5	21.0
Merged-chr13-12409355-4	chr13	12409260	12409460	+	865.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144835, intron 14 of 44)	intron (NM_144835, intron 14 of 44)	13985.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	6.0	8.5	12.0	123.0	31.0	12.0	5.0	2.5
Merged-chr18-3983162-4	chr18	3983053	3983253	+	881.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-182679.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	7.5	18.0	10.0	461.0	77.5	27.0	19.0	11.5
Merged-chr11-53737221-4	chr11	53737109	53737309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16415.0	NM_010558	16191.0	Mm.4461	NM_010558	ENSMUSG00000036117	Il5	Il-5	interleukin 5	protein-coding	47.0	75.5	29.5	410.0	140.0	52.0	36.5	36.5
Merged-chr1-106797548-4	chr1	106797493	106797693	+	904.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009190)	promoter-TSS (NM_009190)	-868.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	3.5	11.5	4.5	192.0	33.5	9.5	15.5	6.5
Merged-chr17-23739560-4	chr17	23739474	23739674	+	886.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023824, intron 1 of 2)	intron (NM_023824, intron 1 of 2)	756.0	NM_023824	76498.0	Mm.491253	NM_023824	ENSMUSG00000023909	Paqr4	1500004C10Rik	progestin and adipoQ receptor family member IV	protein-coding	4.5	9.5	13.0	95.0	28.5	7.5	12.5	7.5
Merged-chr7-143009499-2	chr7	143009399	143009599	+	609.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_020286, intron 2 of 7)	intron (NM_020286, intron 2 of 7)	3840.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	5.0	6.0	6.5	75.5	17.5	2.0	5.5	5.0
Merged-chr5-105062618-4	chr5	105062517	105062717	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9056.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	37.0	31.0	27.0	185.5	114.0	25.5	40.0	27.0
Merged-chr11-8424416-4	chr11	8424282	8424482	+	902.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	240153.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	6.5	18.5	1.5	108.5	31.0	8.5	15.5	9.0
Merged-chr14-25464753-3	chr14	25464648	25464848	+	728.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	5563.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	16.0	15.0	6.5	168.0	13.5	9.5	3.0	4.5
Merged-chr5-100416300-4	chr5	100416184	100416384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026969)	promoter-TSS (NM_026969)	-50.0	NM_001359332	69162.0	Mm.18634	NM_026969	ENSMUSG00000035325	Sec31a	1810024J13Rik|ABP125|ABP130|AU042160|HSPC275|Sec31l1	Sec31 homolog A (S. cerevisiae)	protein-coding	222.5	231.5	145.5	2559.0	448.0	171.0	208.0	191.0
Merged-chr11-63955195-3	chr11	63955102	63955302	+	874.761108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-9024.0	NR_131111	78883.0	Mm.410764	NR_131111	ENSMUSG00000086359	9630013K17Rik	-	RIKEN cDNA 9630013K17 gene	ncRNA	15.5	19.0	24.0	103.0	0.0	2.5	0.0	2.5
Merged-chr11-104442955-4	chr11	104442850	104443050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081045)	promoter-TSS (NM_001081045)	-659.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	91.5	146.0	59.0	1268.0	203.0	67.0	102.0	79.0
Merged-chr11-119054739-2	chr11	119054639	119054839	+	886.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13826.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	1.0	4.5	2.0	34.5	6.5	5.0	5.0	9.0
Merged-chr11-94937080-4	chr11	94936963	94937163	+	800.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007742, intron 1 of 50)	intron (NM_007742, intron 1 of 50)	839.0	NM_007742	12842.0	Mm.277735	NM_007742	ENSMUSG00000001506	Col1a1	Col1a-1|Cola-1|Cola1|Mov-13|Mov13	collagen, type I, alpha 1	protein-coding	10.0	24.0	11.5	83.0	16.0	9.0	12.0	12.5
Merged-chr8-73849965-3	chr8	73849857	73850057	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-496417.0	NM_010687	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	26.0	36.0	40.5	901.0	13.5	2.5	12.0	11.5
Merged-chr5-145167660-1	chr5	145167560	145167760	+	726.5	f0_balb.idr	promoter-TSS (NM_133735)	promoter-TSS (NM_133735)	447.0	NM_001291248	54188.0	Mm.196884	NM_178576	ENSMUSG00000029625	Cpsf4	30kDa|C79664	cleavage and polyadenylation specific factor 4	protein-coding	8.0	12.0	10.0	101.5	20.0	6.0	4.5	7.5
Merged-chr19-56743701-4	chr19	56743592	56743792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21320.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	22.0	42.0	42.0	559.5	53.0	16.0	29.5	31.5
Merged-chr12-76961653-4	chr12	76961595	76961795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361663, intron 1 of 4)	intron (NM_001361663, intron 1 of 4)	553.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	26.5	25.0	27.5	285.5	69.0	32.5	21.0	41.5
Merged-chr5-150891680-4	chr5	150891530	150891730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60977.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	22.5	26.5	27.5	229.0	49.5	8.0	19.5	22.5
Merged-chr16-93817087-3	chr16	93816991	93817191	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-15030.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	24.5	38.0	24.0	326.0	12.5	7.0	4.0	11.5
Merged-chr8-122932624-4	chr8	122932505	122932705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	84231.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	53.5	71.0	27.5	466.0	84.5	29.5	21.0	22.0
Merged-chr2-27247391-3	chr2	27247293	27247493	+	938.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138665)	promoter-TSS (NM_138665)	-90.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	10.0	13.0	5.0	132.0	12.5	5.5	10.0	4.5
Merged-chr18-53247157-4	chr18	53247052	53247252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	1490.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	123.5	147.0	171.5	2018.5	296.0	108.0	95.5	129.0
Merged-chr11-63093607-4	chr11	63093530	63093730	+	955.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027660, intron 7 of 7)	intron (NM_027660, intron 7 of 7)	31971.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	8.0	10.5	18.0	227.0	26.5	6.5	19.0	8.0
Merged-chr11-59472504-4	chr11	59472394	59472594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178417)	promoter-TSS (NM_178417)	-20.0	NM_178417	237775.0	Mm.339604	NM_178417	ENSMUSG00000054519	Zfp867	-	zinc finger protein 867	protein-coding	29.5	50.5	40.5	389.5	134.0	33.5	30.0	30.5
Merged-chr2-59925427-4	chr2	59925256	59925456	+	923.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 20 of 35)	intron (NM_001001182, intron 20 of 35)	-42750.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	19.0	14.5	19.0	385.5	25.0	13.5	17.0	14.0
Merged-chr19-5625505-4	chr19	5625395	5625595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-11995.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	43.5	80.5	45.5	570.5	92.0	41.5	29.5	38.0
Merged-chr5-32744786-4	chr5	32744680	32744880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347332, intron 2 of 8)	intron (NM_001347332, intron 2 of 8)	1562.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	35.5	44.0	24.5	395.5	51.0	26.5	20.5	28.0
Merged-chr1-155391704-4	chr1	155391611	155391811	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 1 of 14)	MTEa|LTR|ERVL-MaLR	25733.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	14.0	8.0	9.0	187.0	21.0	3.0	15.0	11.0
Merged-chr5-135976056-2	chr5	135975963	135976163	+	724.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-1587.0	NM_001160366	109267.0	Mm.332750	NM_001160366	ENSMUSG00000029699	Ssc4d	C330016E03Rik|S4D-SRCRB|SRCRB-S4D|Srcrb4d	scavenger receptor cysteine rich family, 4 domains	protein-coding	2.5	1.0	1.0	12.0	12.5	13.0	15.0	8.0
Merged-chr6-88522845-3	chr6	88522741	88522941	+	723.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-4041.0	NM_016906	53421.0	Mm.28375	NM_016906	ENSMUSG00000030082	Sec61a1	AA408394|AA410007|Sec61a	Sec61 alpha 1 subunit (S. cerevisiae)	protein-coding	5.0	11.0	5.5	72.5	12.0	6.5	2.5	9.0
Merged-chr15-74999890-2	chr15	74999787	74999987	+	618.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1856.0	NM_010738	110454.0	Mm.425949	NM_010738	ENSMUSG00000075602	Ly6a	Ly-6A.2|Ly-6A/E|Ly-6E.1|Sca-1|Sca1|TAP	lymphocyte antigen 6 complex, locus A	protein-coding	3.0	3.0	7.5	6.5	49.0	10.0	10.0	13.5
Merged-chr9-119075539-4	chr9	119075458	119075658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019676, intron 5 of 14)	intron (NM_019676, intron 5 of 14)	12703.0	NM_001293648	18799.0	Mm.23963	NM_019676	ENSMUSG00000010660	Plcd1	AW212592|C79986	phospholipase C, delta 1	protein-coding	71.5	86.5	51.5	978.5	139.5	49.0	80.0	87.0
Merged-chr2-164940574-4	chr2	164940488	164940688	+	884.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7631.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	4.0	13.0	8.5	192.5	28.5	10.0	10.5	8.5
Merged-chr5-137872829-4	chr5	137872696	137872896	+	866.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1038.0	NM_001024932	545812.0	Mm.332769	NM_001024932	ENSMUSG00000066682	Pilrb2	EG545812	paired immunoglobin-like type 2 receptor beta 2	protein-coding	11.5	12.0	16.5	126.5	25.5	3.0	13.5	13.5
Merged-chr9-57523902-4	chr9	57523762	57523962	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007747, intron 1 of 4)	intron (NM_007747, intron 1 of 4)	2630.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	20.5	33.5	23.0	245.0	79.0	21.0	18.0	21.5
Merged-chr6-16964518-2	chr6	16964418	16964618	+	624.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66077.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	8.0	6.0	8.5	86.5	13.0	5.0	5.5	13.0
Merged-chr2-113449459-4	chr2	113449356	113449556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	intron (NM_001285459, intron 2 of 16)	8392.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	27.0	29.5	38.0	637.0	56.0	23.5	42.5	26.0
Merged-chr13-51839808-3	chr13	51839709	51839909	+	960.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6866.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	6.5	17.0	1.5	107.5	43.5	14.0	12.0	12.0
Merged-chr17-43016519-4	chr17	43016429	43016629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178589)	promoter-TSS (NM_178589)	-26.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	74.0	145.5	83.5	1678.0	249.0	82.5	121.5	106.0
Merged-chr4-137807680-3	chr4	137807529	137807729	+	912.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1O|LTR|ERVL-MaLR	-11245.0	NM_007431	11647.0	Mm.288186	NM_007431	ENSMUSG00000028766	Alpl	ALP|APTNAP|Akp-2|Akp2|TNAP|TNSALP	alkaline phosphatase, liver/bone/kidney	protein-coding	6.0	9.5	10.0	154.0	24.5	2.5	6.0	12.5
Merged-chr11-9388679-4	chr11	9388560	9388760	+	897.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 31 of 61)	intron (NM_178259, intron 31 of 61)	196718.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	19.5	10.0	6.0	269.5	41.0	5.5	13.0	11.5
Merged-chr3-116205653-4	chr3	116205536	116205736	+	843.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47848.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	15.0	17.5	13.5	372.0	17.0	2.5	14.5	16.5
Merged-chr2-116972289-4	chr2	116972188	116972388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72136.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	123.0	264.0	127.0	1416.0	318.0	135.0	131.5	117.0
Merged-chr16-59559203-4	chr16	59559113	59559313	+	924.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3461.0	NM_174848	224273.0	Mm.246424	NM_174848	ENSMUSG00000022723	Crybg3	5031404N19|AU022790|Gm9581	beta-gamma crystallin domain containing 3	protein-coding	13.5	7.5	10.5	131.0	51.0	21.5	13.5	23.5
Merged-chr11-32541486-4	chr11	32541378	32541578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	MLT1A0|LTR|ERVL-MaLR	8212.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	37.5	37.0	27.0	361.0	62.0	19.0	32.5	25.0
Merged-chr5-74535621-4	chr5	74535530	74535730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001159574, exon 1 of 16)	5' UTR (NM_001159574, exon 1 of 16)	148.0	NM_001159574	66899.0	Mm.272468	NM_024183	ENSMUSG00000029227	Fip1l1	1300019H17Rik|Rje	FIP1 like 1 (S. cerevisiae)	protein-coding	42.0	68.0	79.0	715.0	123.0	54.5	38.5	76.0
Merged-chr1-75168988-4	chr1	75168897	75169097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026846, intron 1 of 8)	intron (NM_026846, intron 1 of 8)	262.0	NM_026846	68818.0	Mm.32646	NM_026846	ENSMUSG00000026197	Zfand2b	1110060O18Rik|C81256	zinc finger, AN1 type domain 2B	protein-coding	71.5	104.5	48.5	576.5	144.5	49.0	70.5	58.0
Merged-chr10-79554422-4	chr10	79554322	79554522	+	853.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316699, intron 1 of 13)	intron (NM_001316699, intron 1 of 13)	706.0	NM_001316699	70427.0	Mm.334193	NM_027422	ENSMUSG00000042570	Mier2	2700087H15Rik|mKIAA1193	MIER family member 2	protein-coding	15.5	7.0	9.0	231.5	15.5	8.5	8.5	12.5
Merged-chr8-69888612-2	chr8	69888524	69888724	+	820.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001353930, intron 5 of 5)	intron (NM_001353930, intron 5 of 5)	-1232.0	NM_026818	68709.0	Mm.334584	NM_026818	ENSMUSG00000044006	Cilp2	1110031K21Rik|AA407300|CLIP-2	cartilage intermediate layer protein 2	protein-coding	7.0	5.5	7.5	46.5	1.0	0.5	12.5	1.5
Merged-chr11-97469068-3	chr11	97468941	97469141	+	755.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021493, intron 11 of 18)	intron (NM_021493, intron 11 of 18)	18881.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	7.0	8.5	4.5	102.5	22.5	1.0	5.0	5.0
Merged-chr3-90466692-4	chr3	90466595	90466795	+	733.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008727)	promoter-TSS (NM_008727)	-829.0	NM_008727	18160.0	Mm.4627	NM_008727	ENSMUSG00000027931	Npr1	AI893888|GC-A|NPR-A|NPRA|Pndr	natriuretic peptide receptor 1	protein-coding	11.0	12.0	1.5	130.0	28.0	13.0	13.0	9.0
Merged-chr10-40883903-2	chr10	40883803	40884003	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027879)	promoter-TSS (NM_027879)	369.0	NM_031877	83767.0	Mm.41353	NM_031877	ENSMUSG00000019831	Wasf1	AI195380|AI838537|Scar|WAVE|WAVE-1	WAS protein family, member 1	protein-coding	7.0	11.0	14.5	141.0	16.5	19.5	10.0	19.0
Merged-chr5-3301314-4	chr5	3301211	3301411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42582.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	55.0	54.5	40.5	721.0	82.5	22.0	32.0	32.0
Merged-chr5-8347601-3	chr5	8347500	8347700	+	965.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	20560.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	7.0	7.0	16.0	232.5	30.0	4.0	7.5	8.5
Merged-chr19-59315389-2	chr19	59315289	59315489	+	829.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033222, intron 2 of 4)	intron (NM_001033222, intron 2 of 4)	30391.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	4.5	5.5	5.0	122.0	10.5	1.0	4.5	1.0
Merged-chr16-38396315-4	chr16	38396205	38396405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_134102, exon 11 of 11)	3' UTR (NM_134102, exon 11 of 11)	34115.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	177.0	263.5	160.5	2426.0	302.0	144.0	129.0	99.0
Merged-chr15-100150749-4	chr15	100150642	100150842	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 1 of 3)	intron (NR_037311, intron 1 of 3)	-3654.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	23.0	27.5	13.0	383.0	60.0	7.0	22.0	21.5
Merged-chr15-76723867-4	chr15	76723774	76723974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176828)	promoter-TSS (NM_176828)	-29.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	97.5	135.0	51.5	1097.0	195.0	73.0	84.0	59.0
Merged-chr11-88998484-4	chr11	88998419	88998619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009546)	promoter-TSS (NM_009546)	-884.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	31.0	36.0	51.0	619.5	54.5	19.5	22.5	37.5
Merged-chr7-97083029-4	chr7	97082944	97083144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	1293.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	47.0	44.0	62.5	979.5	132.5	50.0	77.5	85.5
Merged-chr9-35118839-4	chr9	35118734	35118934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029475, intron 2 of 5)	intron (NR_029475, intron 2 of 5)	-1970.0	NM_009178	20443.0	Mm.275973	NM_009178	ENSMUSG00000032038	St3gal4	SIAT4-C|ST3Gal IV|ST3GalIV|Siat4c	ST3 beta-galactoside alpha-2,3-sialyltransferase 4	protein-coding	23.5	31.5	47.0	655.5	76.0	19.0	30.5	21.0
Merged-chr10-95564227-4	chr10	95564125	95564325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027722)	promoter-TSS (NM_027722)	-79.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	71.5	102.0	74.5	1223.5	191.0	85.5	106.5	77.0
Merged-chr7-73594222-2	chr7	73594122	73594322	+	850.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35827.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	9.0	6.0	5.5	48.5	5.0	1.5	3.0	6.5
Merged-chr14-61687896-4	chr14	61687795	61687995	+	942.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5522.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	17.5	16.0	17.0	186.0	50.0	12.0	24.5	17.0
Merged-chr11-114750300-4	chr11	114750239	114750439	+	818.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001034878, exon 9 of 13)	exon (NM_001034878, exon 9 of 13)	-15050.0	NM_001102615	286942.0	Mm.308713	NM_001102615	ENSMUSG00000010021	Kif19a	Kif19	kinesin family member 19A	protein-coding	10.5	11.5	9.0	110.5	35.5	7.5	6.0	12.5
Merged-chr1-191575055-1	chr1	191574955	191575155	+	673.0	f0_balb.idr	promoter-TSS (NM_001306203)	promoter-TSS (NM_001306203)	489.0	NM_029766	76843.0	Mm.189102	NM_029766	ENSMUSG00000037474	Dtl	2810047L02Rik|5730564G15Rik|L2dtl|Ramp	denticleless E3 ubiquitin protein ligase	protein-coding	12.0	6.0	13.0	154.5	31.5	9.5	11.0	5.5
Merged-chr15-11996059-4	chr15	11995970	11996170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011294)	promoter-TSS (NM_011294)	-63.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	125.0	211.0	125.0	2112.5	384.5	141.5	186.0	143.0
Merged-chr11-5886383-3	chr11	5886261	5886461	+	762.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8105.0	NM_008894	18972.0	Mm.35788	NM_008894	ENSMUSG00000020471	Pold2	50kDa|p50|po1D2	polymerase (DNA directed), delta 2, regulatory subunit	protein-coding	7.0	7.5	5.5	100.0	10.0	9.5	6.5	3.5
Merged-chr9-124142041-4	chr9	124141922	124142122	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20479.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	27.0	76.0	31.0	370.0	131.5	42.0	34.5	16.5
Merged-chr1-36308781-1	chr1	36308681	36308881	+	550.0	f0_balb.idr	intron (NM_001290727, intron 1 of 5)	intron (NM_001290727, intron 1 of 5)	1048.0	NM_001172205	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	5.0	6.0	9.5	79.5	4.0	7.0	5.5	14.5
Merged-chr9-116099143-4	chr9	116099047	116099247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	76216.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	35.5	34.5	50.0	604.0	39.0	25.0	20.5	25.5
Merged-chr2-144300286-4	chr2	144300199	144300399	+	826.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	29395.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	14.0	8.0	8.5	134.5	21.5	4.5	11.5	14.0
Merged-chr7-114067955-2	chr7	114067855	114068055	+	845.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	49826.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	1.5	7.0	0.0	10.5	8.5	7.0	6.5	14.0
Merged-chr16-30972103-4	chr16	30972027	30972227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	intron (NM_198626, intron 3 of 3)	109305.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	38.5	55.5	54.0	566.0	81.5	24.0	35.0	45.5
Merged-chr10-126905782-4	chr10	126905700	126905900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4429.0	NM_001358970	68876.0	Mm.276769	NM_026858	ENSMUSG00000025436	Atp23	1110068E08Rik|2410012H02Rik|Xrcc6bp1	ATP23 metallopeptidase and ATP synthase assembly factor homolog	protein-coding	111.0	181.0	126.0	1532.5	256.5	101.0	95.0	101.0
Merged-chr9-32478919-4	chr9	32478861	32479061	+	999.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	62491.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	18.0	23.5	32.5	281.5	44.5	13.5	19.0	21.5
Merged-chr12-112589558-2	chr12	112589458	112589658	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 1 of 22)	intron (NM_198411, intron 1 of 22)	774.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	9.5	26.0	6.0	71.0	23.5	10.5	9.0	4.5
Merged-chr2-145168205-4	chr2	145168109	145168309	+	913.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356497, intron 1 of 16)	CpG	434.0	NM_001356497	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	11.0	19.5	15.5	344.5	37.0	11.0	30.0	17.0
Merged-chr9-49050191-3	chr9	49050081	49050281	+	779.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-5400.0	NM_012039	26951.0	Mm.24791	NM_012039	ENSMUSG00000032264	Zw10	6330566F14Rik|MmZw10	zw10 kinetochore protein	protein-coding	4.5	9.0	12.0	120.5	3.0	2.0	0.0	3.5
Merged-chr10-117860534-4	chr10	117860442	117860642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14568.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	122.5	174.5	126.5	1868.5	261.5	95.5	126.0	129.5
Merged-chr6-17408302-4	chr6	17408189	17408389	+	981.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55668.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	8.5	23.0	15.0	162.0	132.5	52.0	41.0	25.5
Merged-chr7-31085306-3	chr7	31085205	31085405	+	867.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8608.0	NM_008557	17178.0	Mm.263847	NM_008557	ENSMUSG00000057092	Fxyd3	Mat8	FXYD domain-containing ion transport regulator 3	protein-coding	19.0	23.5	15.5	166.5	14.0	1.0	2.5	2.5
Merged-chr1-120528241-1	chr1	120528141	120528341	+	669.0	f0_c57.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-23217.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	0.0	2.5	2.5	20.0	21.5	11.5	11.0	9.0
Merged-chr13-75840266-2	chr13	75840178	75840378	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_053108, intron 1 of 2)	intron (NM_053108, intron 1 of 2)	392.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	19.5	31.5	27.0	292.5	24.0	5.0	7.5	13.5
Merged-chr5-86066739-4	chr5	86066635	86066835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1152.0	NM_007683	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	70.0	85.5	64.0	1307.5	220.0	61.0	93.5	73.0
Merged-chr18-9507902-3	chr18	9507785	9507985	+	780.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57731.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	6.0	6.0	9.0	101.5	7.0	0.0	1.0	8.5
Merged-chr17-13940632-4	chr17	13940494	13940694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7779.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	57.0	52.0	40.5	1089.5	87.5	33.5	50.5	48.0
Merged-chr18-6137684-4	chr18	6137596	6137796	+	917.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1598.0	NM_001039692	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	12.0	21.5	18.5	426.5	51.5	12.0	11.5	29.0
Merged-chr19-6299678-4	chr19	6299568	6299768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010119, exon 5 of 5)	3' UTR (NM_010119, exon 5 of 5)	-6789.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	137.5	268.0	212.0	1493.0	355.0	147.5	176.0	102.5
Merged-chr18-49850537-4	chr18	49850425	49850625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081371, intron 5 of 42)	intron (NM_001081371, intron 5 of 42)	17528.0	NM_001081371	240283.0	Mm.257790	NM_001081371	ENSMUSG00000037416	Dmxl1	C630007L23Rik|D030030C22	Dmx-like 1	protein-coding	30.0	55.0	43.5	795.0	93.5	33.0	52.5	48.0
Merged-chr1-167220637-4	chr1	167220506	167220706	+	893.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64521.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	10.5	12.5	17.5	177.0	22.0	25.5	6.0	15.0
Merged-chr9-25252504-4	chr9	25252401	25252601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205367)	promoter-TSS (NM_001205367)	62.0	NM_001205367	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	266.0	356.0	297.0	4034.5	658.0	237.0	265.5	213.5
Merged-chr5-135778518-4	chr5	135778403	135778603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008617)	promoter-TSS (NM_008617)	-118.0	NM_001289557	76571.0	Mm.247666	NM_029659	ENSMUSG00000019178	Styxl1	1700011C14Rik|Dusp24|Mkstyx	serine/threonine/tyrosine interacting-like 1	protein-coding	263.5	487.0	209.5	2881.0	590.5	265.0	234.5	246.0
Merged-chr11-79993070-4	chr11	79992983	79993183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163018)	promoter-TSS (NM_001163018)	-23.0	NM_001163018	52615.0	Mm.283410	NM_199196	ENSMUSG00000017548	Suz12	2610028O16Rik|AI195385|AU016842|AW536442|D11Ertd530e|mKIAA0160	SUZ12 polycomb repressive complex 2 subunit	protein-coding	109.0	130.0	68.0	1278.0	262.0	94.5	84.5	87.0
Merged-chr14-26814084-4	chr14	26813966	26814166	+	963.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80538.0	NM_001170748	142687.0	Mm.138259	NM_080856	ENSMUSG00000021898	Asb14	Asb-14	ankyrin repeat and SOCS box-containing 14	protein-coding	8.0	14.0	20.5	348.5	81.0	10.5	42.5	26.5
Merged-chr12-100084454-4	chr12	100084365	100084565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27866.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	104.5	106.5	175.0	2081.5	273.0	95.0	200.0	85.5
Merged-chr11-51681773-4	chr11	51681613	51681813	+	848.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6921.0	NM_025319	66050.0	Mm.35693	NM_025319	ENSMUSG00000007777	0610009B22Rik	-	RIKEN cDNA 0610009B22 gene	protein-coding	9.5	13.5	6.5	107.0	17.0	16.0	5.0	8.0
Merged-chr14-20640962-4	chr14	20640862	20641062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15578.0	NM_021508	59011.0	Mm.439911	NM_021508	ENSMUSG00000068697	Myoz1	2310001N11Rik|AV090278|FATZ|Myoz	myozenin 1	protein-coding	95.5	163.0	106.5	1201.5	307.5	91.0	101.5	101.0
Merged-chr13-112084641-4	chr13	112084550	112084750	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-203801.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	17.0	25.5	20.0	291.0	34.5	18.5	23.0	16.5
Merged-chr14-16249353-4	chr14	16249291	16249491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362433)	promoter-TSS (NM_001362433)	77.0	NM_001362432	59007.0	Mm.258381	NM_021504	ENSMUSG00000021785	Ngly1	1110002C09Rik|PNGase|Png1	N-glycanase 1	protein-coding	138.0	238.5	277.0	2393.0	350.0	148.0	174.5	128.5
Merged-chr10-42761505-4	chr10	42761389	42761589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153055)	promoter-TSS (NM_153055)	-7.0	NM_001359283	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	137.5	204.5	64.0	1207.5	315.5	143.0	154.0	87.0
Merged-chr10-96606167-3	chr10	96606076	96606276	+	877.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10825.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	9.5	12.5	12.0	111.0	15.0	6.0	3.5	2.5
Merged-chr1-94582690-4	chr1	94582589	94582789	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-214753.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	20.5	20.0	17.5	424.5	58.0	24.5	21.5	28.5
Merged-chr9-59295466-4	chr9	59295358	59295558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359282, intron 1 of 6)	intron (NM_001359282, intron 1 of 6)	3886.0	NM_028121	72141.0	Mm.22456	NM_028121	ENSMUSG00000025236	Adpgk	2610017G09Rik|Adp-gk|C77577	ADP-dependent glucokinase	protein-coding	38.5	97.5	29.5	240.5	117.5	30.0	27.0	10.0
Merged-chr6-54781165-4	chr6	54781067	54781267	+	682.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-35749.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	10.5	12.5	9.0	127.5	18.5	8.5	7.0	23.0
Merged-chr1-184480829-4	chr1	184480738	184480938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76853.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	56.0	28.0	41.5	895.0	75.0	27.0	44.0	38.0
Merged-chr11-59624450-3	chr11	59624353	59624553	+	925.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	11487.0	NM_001011740	257886.0	Mm.457883	NM_001011740	ENSMUSG00000044061	Olfr225	MOR256-51	olfactory receptor 225	protein-coding	10.0	17.5	10.5	164.0	17.5	12.5	9.5	12.0
Merged-chr13-6636699-3	chr13	6636583	6636783	+	878.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019703, intron 1 of 21)	intron (NM_019703, intron 1 of 21)	12088.0	NM_019703	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	5.0	15.0	6.0	133.0	10.5	4.5	6.0	7.0
Merged-chr4-126228241-4	chr4	126228141	126228341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25531.0	NM_146153	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	38.0	116.0	46.5	482.0	131.5	63.0	27.0	36.0
Merged-chr2-131106169-3	chr2	131106078	131106278	+	991.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19413.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	24.5	40.5	49.5	532.0	14.0	1.0	3.0	4.0
Merged-chr3-105840030-4	chr3	105839933	105840133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24466.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	29.5	36.0	32.5	424.5	51.0	19.0	25.0	25.5
Merged-chr13-5939534-4	chr13	5939422	5939622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78033.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	50.0	94.0	60.0	1211.0	164.0	40.5	68.5	41.5
Merged-chr17-12916275-4	chr17	12916176	12916376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013686)	promoter-TSS (NM_013686)	-53.0	NM_001290712	21454.0	Mm.229342	NM_013686	ENSMUSG00000068039	Tcp1	AI528772|CCT|Cct1|Ccta|TRic|Tcp-1|Tp63|c-cpn|p63	t-complex protein 1	protein-coding	412.0	691.5	469.5	7440.0	882.0	384.0	509.5	387.0
Merged-chr8-105700698-4	chr8	105700590	105700790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286345)	promoter-TSS (NM_001286345)	-458.0	NM_001047436	56513.0	Mm.472753	NM_019695	ENSMUSG00000005699	Pard6a	0710008C04Rik|2610010A15Rik|PAR-6A|PAR6alpha|Par-6|Par6|Par6c|TAX40|Tip-40	par-6 family cell polarity regulator alpha	protein-coding	33.5	39.0	23.0	464.0	79.5	38.0	36.5	26.0
Merged-chr6-39232871-4	chr6	39232774	39232974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26101.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	35.0	35.5	22.5	267.5	54.0	17.0	25.0	24.0
Merged-chr14-30612716-4	chr14	30612622	30612822	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	-2412.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	22.5	19.0	25.5	207.5	76.5	19.5	18.5	16.5
Merged-chr11-75738095-4	chr11	75737982	75738182	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009536, intron 1 of 5)	intron (NM_009536, intron 1 of 5)	5195.0	NM_009536	22627.0	Mm.234700	NM_009536	ENSMUSG00000020849	Ywhae	AU019196	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide	protein-coding	20.0	22.0	12.5	251.0	57.0	13.0	12.0	13.5
Merged-chr5-99216166-5	chr5	99216111	99216311	+	880.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36716.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	8.5	7.0	6.0	98.0	38.5	12.5	8.0	6.5
Merged-chr13-19416249-6	chr13	19416126	19416326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-20413.0	NM_001347485	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	16.0	9.5	15.0	213.0	79.5	16.5	16.5	15.0
Merged-chr8-4165358-3	chr8	4165276	4165476	+	708.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1191.0	NM_001039578	213027.0	Mm.437106	NM_153536	ENSMUSG00000011832	Evi5l	1700084G18Rik|2310039H16Rik|3110007G05Rik|B130050I23Rik	ecotropic viral integration site 5 like	protein-coding	4.0	3.5	1.0	40.0	23.0	6.0	7.0	5.0
Merged-chr7-44051415-3	chr7	44051305	44051505	+	877.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020268)	promoter-TSS (NM_020268)	-885.0	NM_020268	16619.0	Mm.445911	NM_020268	ENSMUSG00000063177	Klk1b27	Gk27|Klk21l|Klk27|mGK-27	kallikrein 1-related peptidase b27	protein-coding	19.5	31.0	17.0	203.5	1.0	0.0	1.0	3.0
Merged-chr6-108576902-1	chr6	108576802	108577002	+	787.333313	f0_balb.idr	TTS (NR_104577)	TTS (NR_104577)	46265.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	12.5	10.5	14.0	263.5	1.0	0.0	0.0	1.0
Merged-chr5-105702077-4	chr5	105701978	105702178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	1268.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	26.5	58.0	33.0	508.5	81.0	41.0	34.5	43.0
Merged-chr9-109059729-4	chr9	109059593	109059793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011637)	promoter-TSS (NM_011637)	30.0	NM_011637	22040.0	Mm.439964	NM_011637	ENSMUSG00000049734	Trex1	AU041952	three prime repair exonuclease 1	protein-coding	56.5	153.5	67.5	450.5	131.0	71.5	62.0	37.0
Merged-chr11-78245631-7	chr11	78245493	78245693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009143)	promoter-TSS (NM_009143)	110.0	NM_009297	20926.0	Mm.20755	NM_009297	ENSMUSG00000002052	Supt6	5131400N11Rik|AI132449|SPT6|Supt6h|mKIAA0162	suppressor of Ty 6	protein-coding	27.0	43.5	18.5	154.0	48.5	17.0	19.5	15.5
Merged-chr16-20804705-4	chr16	20804589	20804789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70178.0	NM_009379	21832.0	Mm.3943	NM_009379	ENSMUSG00000022847	Thpo	Mgdf|Ml|Mpllg|Tpo	thrombopoietin	protein-coding	23.0	43.5	13.5	323.0	52.0	25.5	24.5	21.0
Merged-chr17-44459222-4	chr17	44459125	44459325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamRep564|Unknown|Unknown	270653.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	76.5	135.5	89.0	990.5	251.5	115.0	70.0	72.0
Merged-chr15-73505964-3	chr15	73505870	73506070	+	941.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6590.0	NR_152151	105841.0	Mm.322557	NM_001081066	ENSMUSG00000036661	Dennd3	AI447457|E030003N15Rik	DENN/MADD domain containing 3	protein-coding	14.0	5.5	9.0	293.5	21.0	2.5	1.5	10.5
Merged-chr4-120104793-3	chr4	120104693	120104893	+	767.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 5 of 8)	intron (NM_010657, intron 5 of 8)	-56413.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	12.0	16.0	9.0	274.5	2.0	6.5	3.0	10.5
Merged-chr3-141862968-4	chr3	141862857	141863057	+	810.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355043, intron 6 of 10)	intron (NM_001355043, intron 6 of 10)	68463.0	NM_001355043	12167.0	Mm.39089	NM_007560	ENSMUSG00000052430	Bmpr1b	AI385617|ALK-6|AV355320|Acvrlk6|Alk6|BMPR-1B|BMPR-IB|CFK-43a|SKR6	bone morphogenetic protein receptor, type 1B	protein-coding	2.0	6.0	2.0	56.0	28.5	9.5	12.5	16.5
Merged-chr17-35209538-4	chr17	35209457	35209657	+	747.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4206.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	2.0	8.0	1.5	89.0	30.0	12.0	7.5	15.5
Merged-chr12-10068224-3	chr12	10068126	10068326	+	941.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-301745.0	NM_027588	70881.0	Mm.272843	NM_027588	ENSMUSG00000020622	Nt5c1b	4921514H13Rik|AIRP|CN-IB|cN1B	5'-nucleotidase, cytosolic IB	protein-coding	12.0	14.0	14.0	181.5	4.5	3.0	6.0	6.0
Merged-chr17-85090600-4	chr17	85090494	85090694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163624)	promoter-TSS (NM_001163624)	-106.0	NM_028576	73582.0	Mm.260753	NM_028576	ENSMUSG00000071037	Camkmt	1700106N22Rik|AI480743|AV099781|CLNMT|CaM KMT	calmodulin-lysine N-methyltransferase	protein-coding	145.0	217.0	116.0	2116.0	463.0	174.5	214.0	156.0
Merged-chr16-31867014-3	chr16	31866931	31867131	+	970.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357281, intron 21 of 22)	L1M4c|LINE|L1	-11779.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	14.5	17.5	20.5	245.0	9.0	4.5	4.0	8.0
Merged-chr6-54952736-4	chr6	54952632	54952832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	18929.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	30.0	37.0	19.5	430.0	134.5	32.0	54.0	53.0
Merged-chr11-74494587-4	chr11	74494494	74494694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	95564.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	30.0	44.5	17.5	334.5	70.5	22.0	28.5	27.0
Merged-chr16-57528674-4	chr16	57528624	57528824	+	913.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-20518.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	20.0	22.5	21.0	419.0	19.5	5.0	12.0	9.5
Merged-chr17-24781066-3	chr17	24780949	24781149	+	931.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23333.0	NM_029197	75178.0	Mm.52592	NM_029197	ENSMUSG00000024155	Meiob	4930528F23Rik|MLZ-675	meiosis specific with OB domains	protein-coding	36.0	19.5	42.0	383.0	5.0	3.0	4.5	6.0
Merged-chr5-92374332-3	chr5	92374245	92374445	+	912.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-11049.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	10.0	14.5	15.5	181.0	30.5	6.0	9.5	12.5
Merged-chr6-86584435-6	chr6	86584380	86584580	+	974.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43694.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	14.0	20.0	12.5	137.5	43.5	23.5	14.5	8.0
Merged-chr8-125771365-4	chr8	125771275	125771475	+	909.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175561, intron 27 of 33)	intron (NM_175561, intron 27 of 33)	37172.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	8.0	11.0	12.0	167.5	31.0	11.5	23.5	13.0
Merged-chr6-39539923-3	chr6	39539751	39539951	+	870.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 1 of 18)	intron (NM_172477, intron 1 of 18)	17983.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	6.0	9.0	7.5	89.5	7.0	3.0	10.5	2.5
Merged-chr11-85849274-4	chr11	85849169	85849369	+	802.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16654.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	10.0	9.0	10.5	123.0	20.5	6.5	12.0	11.0
Merged-chr11-40857680-4	chr11	40857554	40857754	+	703.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-102368.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	10.0	15.5	9.5	194.5	29.5	5.5	15.0	9.5
Merged-chr4-140957982-4	chr4	140957883	140958083	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045911)	promoter-TSS (NR_045911)	-81.0	NR_045911	100126227.0	Mm.404073	NR_045911	ENSMUSG00000087698	Gm13031	-	predicted gene 13031	ncRNA	19.0	31.5	17.0	119.5	26.5	10.5	12.0	23.5
Merged-chr4-141618012-4	chr4	141617907	141618107	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001013780)	TTS (NM_001013780)	626.0	NM_145987	213989.0	Mm.34891	NM_145987	ENSMUSG00000043085	Tmem82	-	transmembrane protein 82	protein-coding	8.5	10.0	8.5	117.0	18.0	13.0	15.0	8.5
Merged-chr5-67306999-4	chr5	67306911	67307111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310629)	promoter-TSS (NM_001310629)	56.0	NM_001310629	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	135.5	227.5	176.0	2221.5	297.0	92.0	127.0	118.0
Merged-chr2-59435037-4	chr2	59434927	59435127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48345.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	26.0	61.5	36.0	815.0	76.5	34.0	34.0	36.5
Merged-chr14-33240604-4	chr14	33240504	33240704	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	23781.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	28.0	35.5	33.5	655.0	31.5	8.5	13.5	19.0
Merged-chr1-71103692-3	chr1	71103605	71103805	+	947.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007525)	promoter-TSS (NM_007525)	-733.0	NM_007525	12021.0	Mm.10764	NM_007525	ENSMUSG00000026196	Bard1	-	BRCA1 associated RING domain 1	protein-coding	11.5	18.5	11.0	132.0	26.0	4.5	11.0	7.0
Merged-chr15-6568653-1	chr15	6568553	6568753	+	771.0	f0_c57.idr	Intergenic	Intergenic	-11194.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	4.0	3.0	5.5	104.5	29.5	6.0	7.5	13.0
Merged-chr1-161286929-3	chr1	161286823	161287023	+	774.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35713.0	NM_001303408	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	5.5	0.0	3.5	38.0	28.0	9.0	8.0	11.0
Merged-chr11-80148399-4	chr11	80148325	80148525	+	939.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5737.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	4.5	18.0	13.5	61.5	34.0	11.5	5.0	6.5
Merged-chr16-4210464-3	chr16	4210360	4210560	+	711.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025432, intron 1 of 30)	intron (NM_001025432, intron 1 of 30)	2944.0	NM_001025432	12914.0	Mm.132238	NM_001025432	ENSMUSG00000022521	Crebbp	AW558298|CBP|CBP/p300|KAT3A|p300/CBP	CREB binding protein	protein-coding	4.5	11.5	7.5	105.0	20.0	2.0	5.5	7.0
Merged-chr19-6341131-4	chr19	6341057	6341257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291787)	promoter-TSS (NM_001291787)	-3.0	NM_009006	26412.0	Mm.25860	NM_009006	ENSMUSG00000024948	Map4k2	AI385662|BL44|GCK|Rab8ip	mitogen-activated protein kinase kinase kinase kinase 2	protein-coding	89.0	105.5	44.0	647.5	181.5	74.0	74.0	52.5
Merged-chr6-108306423-4	chr6	108306314	108306514	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	93318.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	19.0	27.0	23.0	370.5	61.0	22.5	17.5	18.0
Merged-chr12-3674230-3	chr12	3674130	3674330	+	559.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 8 of 17)	intron (NM_001162465, intron 8 of 17)	101246.0	NM_007886	13528.0	Mm.286202	NM_007886	ENSMUSG00000071454	Dtnb	-	dystrobrevin, beta	protein-coding	4.5	11.5	12.0	59.5	31.5	7.0	8.5	2.0
Merged-chr1-191325848-4	chr1	191325748	191325948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025864)	promoter-TSS (NM_025864)	-117.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	133.5	211.0	132.5	2237.0	481.5	173.5	233.0	145.0
Merged-chr19-41323979-4	chr19	41323867	41324067	+	940.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 7 of 16)	MIR|SINE|MIR	-59963.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	10.0	22.5	15.5	293.0	27.5	9.5	21.0	8.5
Merged-chr4-24585072-4	chr4	24584975	24585175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149739, intron 17 of 24)	intron (NR_149739, intron 17 of 24)	88624.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	22.0	22.5	23.5	416.5	44.5	24.5	29.0	25.0
Merged-chr11-54093270-4	chr11	54093196	54093396	+	871.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7628.0	NM_001136076	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	5.5	13.5	8.5	112.5	23.5	5.5	10.5	6.0
Merged-chr10-40477075-4	chr10	40476976	40477176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198164, intron 10 of 11)	intron (NM_198164, intron 10 of 11)	-93286.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	63.5	79.5	59.5	1086.5	116.5	39.5	43.0	58.5
Merged-chr16-3744472-1	chr16	3744372	3744572	+	1000.0	f0_balb.idr	exon (NM_148924, exon 1 of 6)	exon (NM_148924, exon 1 of 6)	373.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	36.0	77.5	40.5	487.0	139.0	35.0	39.5	46.0
Merged-chr4-84884367-4	chr4	84884268	84884468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177385)	promoter-TSS (NM_177385)	59.0	NM_177385	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	153.5	240.5	155.5	3153.0	344.5	123.5	195.5	151.0
Merged-chr9-45405354-4	chr9	45405259	45405459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007503)	promoter-TSS (NM_007503)	-718.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	36.0	51.0	46.5	607.5	76.5	34.0	35.5	36.5
Merged-chr15-79895302-4	chr15	79895213	79895413	+	916.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347041, intron 1 of 7)	intron (NM_001347041, intron 1 of 7)	290.0	NM_001347041	80287.0	Mm.284059	NM_030255	ENSMUSG00000009585	Apobec3	Apobec|Arp3|BC003314|Cem15|Gm20117|Rfv3	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3	protein-coding	38.0	29.0	44.0	381.0	25.0	3.5	6.5	15.0
Merged-chr2-30827682-5	chr2	30827587	30827787	+	859.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133346, intron 1 of 5)	intron (NM_133346, intron 1 of 5)	613.0	NM_133346	72323.0	Mm.27656	NM_133346	ENSMUSG00000039483	Asb6	2510004M11Rik|AA409356	ankyrin repeat and SOCS box-containing 6	protein-coding	9.0	15.0	5.5	105.5	18.5	4.0	7.0	6.0
Merged-chr3-87329971-4	chr3	87329883	87330083	+	990.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-27898.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	21.0	30.0	12.5	243.0	69.5	27.0	31.0	35.5
Merged-chr5-36549414-4	chr5	36549326	36549526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	-18803.0	NM_001113364	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	64.5	85.0	81.0	1718.5	106.0	37.0	60.0	67.5
Merged-chr6-128135877-4	chr6	128135743	128135943	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	7735.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	18.0	22.0	26.5	269.0	48.5	13.0	18.5	20.5
Merged-chr6-118126769-4	chr6	118126663	118126863	+	892.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362149, intron 2 of 7)	intron (NM_001362149, intron 2 of 7)	12067.0	NM_001362149	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	16.0	30.5	13.5	261.5	27.0	13.0	19.5	11.5
Merged-chr9-110407302-2	chr9	110407202	110407402	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081043, intron 1 of 24)	intron (NM_001081043, intron 1 of 24)	908.0	NM_001081043	104831.0	Mm.335477	NM_001081043	ENSMUSG00000036057	Ptpn23	AI462446|PTP-TD14	protein tyrosine phosphatase, non-receptor type 23	protein-coding	11.5	5.0	1.5	33.5	13.0	6.0	8.0	9.5
Merged-chr4-132567571-4	chr4	132567482	132567682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081211, intron 1 of 1)	intron (NM_001081211, intron 1 of 1)	3515.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	159.0	326.5	146.5	1161.0	407.0	211.0	131.5	111.0
Merged-chr15-59651982-7	chr15	59651897	59652097	+	787.571411	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144549, intron 2 of 2)	intron (NM_144549, intron 2 of 2)	3343.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	3.0	12.5	5.0	40.5	6.5	8.0	6.0	4.5
Merged-chr2-168539246-4	chr2	168539160	168539360	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	MER3|DNA|hAT-Charlie	51105.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	48.0	39.5	70.0	890.5	43.0	15.0	32.5	29.0
Merged-chr12-32964004-1	chr12	32963904	32964104	+	641.0	f0_balb.idr	intron (NM_198710, intron 1 of 4)	intron (NM_198710, intron 1 of 4)	9818.0	NM_198710	19027.0	Mm.246304	NM_013635	ENSMUSG00000020570	Sypl	AI314763|AI604763|D12Ertd446e|PanI|Pphn|Sypl1	synaptophysin-like protein	protein-coding	5.5	12.5	5.5	83.5	6.0	0.0	0.5	0.0
Merged-chr5-117348458-4	chr5	117348338	117348538	+	937.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033311, intron 7 of 9)	intron (NM_001033311, intron 7 of 9)	-8867.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	11.5	15.5	6.5	142.0	55.0	15.5	22.5	22.0
Merged-chr16-87664078-4	chr16	87663974	87664174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34880.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	91.5	99.0	64.0	1424.0	217.5	75.0	84.0	53.0
Merged-chr11-97661629-6	chr11	97661553	97661753	+	940.255554	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1759.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	10.5	19.0	23.0	67.5	46.0	15.5	11.5	9.5
Merged-chr4-139761405-3	chr4	139761295	139761495	+	874.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011039, intron 7 of 8)	intron (NM_011039, intron 7 of 8)	71573.0	NM_011039	18509.0	Mm.218760	NM_011039	ENSMUSG00000028736	Pax7	Pax-7	paired box 7	protein-coding	1.5	0.0	0.0	0.0	41.0	21.0	23.5	15.0
Merged-chr16-30601596-4	chr16	30601488	30601688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177632, exon 1 of 1)	exon (NM_177632, exon 1 of 1)	1865.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	39.0	79.5	49.5	522.0	55.5	21.0	49.0	42.0
Merged-chr2-166699566-7	chr2	166699469	166699669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	14263.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	42.5	45.0	46.5	302.5	97.0	36.5	44.0	38.5
Merged-chr6-125360208-4	chr6	125360075	125360275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 5 of 9)	intron (NM_011609, intron 5 of 9)	10452.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	28.5	25.0	28.0	450.0	251.0	111.5	116.5	102.0
Merged-chr7-132315625-4	chr7	132315527	132315727	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028578)	promoter-TSS (NR_028578)	-37.0	NR_028578	100043682.0	Mm.482794	NR_028578	ENSMUSG00000109270	Gm10584	-	predicted gene 10584	ncRNA	21.0	17.5	24.5	248.5	41.0	11.0	10.0	18.0
Merged-chr1-191087147-4	chr1	191087033	191087233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11281.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	19.0	29.5	25.5	194.5	40.0	16.0	26.0	14.5
Merged-chr17-5238891-6	chr17	5238728	5238928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	179939.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	35.5	52.0	31.5	338.0	51.5	23.5	27.0	30.0
Merged-chr10-80160994-4	chr10	80160893	80161093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-6846.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	47.5	64.0	60.5	800.5	94.5	48.5	49.5	43.0
Merged-chr4-137862214-4	chr4	137862128	137862328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199307)	promoter-TSS (NM_199307)	-9.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	85.5	118.0	107.0	1077.0	209.0	69.0	92.5	84.0
Merged-chr12-85270432-4	chr12	85270341	85270541	+	920.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304475, intron 1 of 11)	CpG	150.0	NM_001304475	217716.0	Mm.311981	NM_145446	ENSMUSG00000021245	Mlh3	AV125803|BB126472	mutL homolog 3	protein-coding	12.5	27.5	21.0	135.5	34.5	17.0	8.0	5.5
Merged-chr4-152008224-3	chr4	152008133	152008333	+	794.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033352)	promoter-TSS (NM_001033352)	-658.0	NM_001033352	242785.0	Mm.22306	NM_001033352	ENSMUSG00000073700	Klhl21	1810045K06Rik|D330008A20|mKIAA0469	kelch-like 21	protein-coding	4.5	4.5	5.5	76.5	12.0	2.5	2.5	2.5
Merged-chr7-98543032-3	chr7	98542938	98543138	+	789.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	48816.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	7.5	13.5	7.0	101.0	48.0	10.0	6.5	7.5
Merged-chr7-74662167-3	chr7	74662062	74662262	+	917.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107382.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	3.0	1.0	7.0	30.0	34.5	20.5	20.5	10.5
Merged-chr8-57576376-4	chr8	57576229	57576429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 2 of 11)	Tigger9a|DNA|TcMar-Tigger	64486.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	103.0	161.5	94.0	1460.5	379.0	132.0	159.0	98.0
Merged-chr5-17835946-4	chr5	17835828	17836028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159555)	promoter-TSS (NM_001159555)	-32.0	NM_007643	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	40.5	74.0	58.5	1174.0	235.5	82.0	130.0	71.5
Merged-chr5-9100643-4	chr5	9100546	9100746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081029)	promoter-TSS (NM_001081029)	-91.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	107.5	147.0	111.0	1964.0	260.0	63.5	122.5	76.0
Merged-chr17-34895222-4	chr17	34895029	34895229	+	946.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198886, intron 1 of 1)	CpG	570.0	NM_198886	193736.0	Mm.161119	NM_198886	ENSMUSG00000049823	Zbtb12	BC020447|Bat-9|Bat9|G10|NG35	zinc finger and BTB domain containing 12	protein-coding	20.0	13.5	10.0	103.5	20.0	4.0	5.5	7.5
Merged-chr5-43290045-3	chr5	43289972	43290172	+	894.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175937)	TTS (NM_175937)	-54718.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	10.0	16.0	14.0	125.5	9.5	2.0	3.0	15.5
Merged-chr2-163658485-4	chr2	163658406	163658606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164053)	promoter-TSS (NM_001164053)	48.0	NM_001164053	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	44.5	38.0	35.0	379.5	69.5	29.0	36.0	33.5
Merged-chr13-98814708-4	chr13	98814663	98814863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	CpG	686.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	31.5	39.5	28.0	293.5	53.5	23.5	29.0	41.0
Merged-chr8-25980880-4	chr8	25980767	25980967	+	979.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029037, exon 5 of 5)	3' UTR (NM_029037, exon 5 of 5)	-4123.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	23.5	27.0	18.0	291.5	33.0	15.5	11.0	19.5
Merged-chr6-72201018-3	chr6	72200915	72201115	+	730.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34562.0	NM_153778	71093.0	Mm.87449	NM_153778	ENSMUSG00000037621	Atoh8	4933425C05Rik|Hath6|Math6|bHLHa21|okadin	atonal bHLH transcription factor 8	protein-coding	9.0	6.5	8.0	109.5	14.0	5.5	5.0	5.0
Merged-chr15-57695801-7	chr15	57695755	57695955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	CpG	1188.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	26.0	31.0	26.0	297.5	53.5	35.0	33.5	33.0
Merged-chr18-80413418-4	chr18	80413320	80413520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 12 of 12)	intron (NM_026295, intron 12 of 12)	-49166.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	39.0	85.0	76.5	1538.5	98.0	8.0	34.5	15.5
Merged-chr11-116635603-3	chr11	116635507	116635707	+	975.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-8588.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	17.0	48.5	28.0	72.0	8.5	4.0	6.5	0.0
Merged-chr6-113642956-4	chr6	113642890	113643090	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 1 of 11)	intron (NM_001113553, intron 1 of 11)	4523.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	24.0	80.0	15.0	84.5	80.0	40.0	14.0	5.5
Merged-chr2-4402137-1	chr2	4402037	4402237	+	701.0	f0_balb.idr	intron (NM_001177843, intron 1 of 23)	intron (NM_001177843, intron 1 of 23)	1161.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	7.5	7.5	6.5	140.5	28.5	2.5	5.5	5.5
Merged-chr1-67360991-3	chr1	67360883	67361083	+	888.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	237956.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	17.5	33.0	20.0	452.5	41.0	4.0	6.5	7.5
Merged-chr9-47530194-4	chr9	47530090	47530290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310841)	promoter-TSS (NM_001310841)	20.0	NM_001310841	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	102.5	151.0	89.0	1207.5	313.0	124.5	119.5	111.0
Merged-chr15-95906514-4	chr15	95906417	95906617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 3 of 19)	intron (NM_175344, intron 3 of 19)	-76445.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	21.0	27.5	24.0	363.0	35.0	7.0	36.0	29.5
Merged-chr19-59344468-4	chr19	59344377	59344577	+	789.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033222, intron 1 of 4)	intron (NM_001033222, intron 1 of 4)	1303.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	13.0	14.0	4.0	212.5	20.5	9.0	7.5	9.0
Merged-chr2-71814199-4	chr2	71814091	71814291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008397, intron 1 of 25)	intron (NM_008397, intron 1 of 25)	27252.0	NM_001277970	16403.0	Mm.225096	NM_008397	ENSMUSG00000027111	Itga6	5033401O05Rik|AI115430|Cd49f|VLA-6	integrin alpha 6	protein-coding	31.5	35.0	42.0	413.0	72.0	21.0	43.5	32.5
Merged-chr14-99932099-3	chr14	99932007	99932207	+	799.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010636, intron 5 of 6)	intron (NM_010636, intron 5 of 6)	217689.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	13.5	9.5	5.0	119.5	14.5	7.5	8.5	8.0
Merged-chr2-12206492-4	chr2	12206298	12206498	+	826.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 13 of 29)	RLTR9C|LTR|ERVK	-94848.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	6.0	7.0	11.5	47.5	17.0	7.0	7.5	5.5
Merged-chr6-89000479-3	chr6	89000386	89000586	+	777.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95624.0	NR_134978	232217.0	Mm.281744	NM_175017	ENSMUSG00000055403	4933427D06Rik	-	RIKEN cDNA 4933427D06 gene	ncRNA	8.5	10.0	7.0	114.0	8.5	2.5	1.5	0.0
Merged-chr3-136703076-4	chr3	136702977	136703177	+	964.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	33011.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	14.0	26.0	19.0	337.5	77.5	12.5	33.0	18.0
Merged-chr8-33618040-4	chr8	33617946	33618146	+	858.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017374, intron 6 of 6)	B3|SINE|B2	18425.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	9.5	8.0	9.5	113.5	22.5	3.5	13.0	14.0
Merged-chr17-33827050-3	chr17	33826953	33827153	+	860.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_103515)	TTS (NR_103515)	2408.0	NR_103514	66416.0	Mm.29513	NM_023202	ENSMUSG00000041881	Ndufa7	14.5kDa|2400007M02Rik|CI-B14.5a	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 7 (B14.5a)	protein-coding	7.5	10.0	4.5	123.5	26.5	7.0	6.0	6.0
Merged-chr18-60804337-3	chr18	60804226	60804426	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042605, intron 1 of 8)	B1_Mm|SINE|Alu	477.0	NM_010545	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	0.0	3.5	0.0	0.0	189.0	93.5	49.5	54.5
Merged-chr11-115005296-4	chr11	115005190	115005390	+	907.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-3410.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	19.0	12.0	10.0	160.5	31.5	5.0	13.0	14.5
Merged-chr17-73950280-4	chr17	73950183	73950383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011723)	promoter-TSS (NM_011723)	-87.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	127.5	228.5	138.5	2204.0	402.0	165.0	216.0	155.5
Merged-chr12-65036397-4	chr12	65036336	65036536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177806, exon 1 of 14)	5' UTR (NM_177806, exon 1 of 14)	102.0	NM_177806	328110.0	Mm.283339	NM_177806	ENSMUSG00000035597	Prpf39	Srcs1	pre-mRNA processing factor 39	protein-coding	70.0	131.0	155.0	1150.0	190.5	80.0	81.0	116.5
Merged-chr2-12085682-4	chr2	12085586	12085786	+	932.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-215560.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	12.0	10.0	15.0	355.0	42.0	10.0	20.0	19.0
Merged-chr19-4302420-4	chr19	4302308	4302508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	3814.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	68.0	87.5	105.0	1126.0	164.5	58.5	68.0	83.5
Merged-chr17-36824232-4	chr17	36824122	36824322	+	823.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	12047.0	NM_201611	399549.0	Mm.329034	NM_201611	ENSMUSG00000037130	H2-M10.6	-	histocompatibility 2, M region locus 10.6	protein-coding	9.0	14.5	13.0	159.0	30.0	11.5	10.5	12.0
Merged-chr2-34406859-4	chr2	34406782	34406982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177345)	promoter-TSS (NM_177345)	31.0	NM_001290626	227743.0	Mm.270866	NM_177345	ENSMUSG00000038696	Mapkap1	AI591529|D230039K05Rik|Sin1	mitogen-activated protein kinase associated protein 1	protein-coding	129.0	193.0	110.0	1472.0	306.5	102.5	152.0	127.0
Merged-chr5-90731653-2	chr5	90731557	90731757	+	744.375	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-27641.0	NM_009141	20311.0	Mm.4660	NM_009141	ENSMUSG00000029371	Cxcl5	AMCF-II|Cxcl6|ENA-78|GCP-2|LIX|Scyb5|Scyb6	chemokine (C-X-C motif) ligand 5	protein-coding	12.0	11.5	22.0	497.5	4.0	1.5	4.5	2.0
Merged-chr7-80729901-4	chr7	80729822	80730022	+	893.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 28 of 37)	intron (NM_016721, intron 28 of 37)	-41045.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	9.0	22.0	12.0	143.0	32.0	8.5	17.0	7.0
Merged-chr6-29609269-4	chr6	29609186	29609386	+	728.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361290, intron 1 of 23)	CpG	563.0	NM_177296	320938.0	Mm.276381	NM_177296	ENSMUSG00000012535	Tnpo3	5730544L10Rik|C430013M08Rik|C81142|D6Ertd313e|Trn-SR|mKIAA4133	transportin 3	protein-coding	8.0	15.0	6.0	112.0	18.0	9.0	12.0	9.5
Merged-chr7-41633894-1	chr7	41633794	41633994	+	1000.0	f0_c57.idr	promoter-TSS (NM_001360684)	promoter-TSS (NM_001360684)	363.0	NM_001360674	67607.0	Mm.384626	NM_023363	ENSMUSG00000074165	Zfp788	2810426N06Rik|AI256342|AI605193	zinc finger protein 788	protein-coding	66.5	66.5	58.5	750.0	137.0	41.0	68.5	46.5
Merged-chr10-26373828-2	chr10	26373728	26373928	+	904.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347467, exon 1 of 21)	5' UTR (NM_001347467, exon 1 of 21)	244.0	NM_001359255	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	2.5	4.0	1.0	29.5	6.0	6.0	9.5	8.0
Merged-chr18-84849119-4	chr18	84849018	84849218	+	947.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2220.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	22.5	27.0	29.0	193.0	71.0	17.0	10.5	17.5
Merged-chr10-127380587-4	chr10	127380484	127380684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359244)	promoter-TSS (NM_001359244)	-84.0	NM_001359244	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	138.5	182.0	102.0	1462.0	352.0	150.5	144.0	113.5
Merged-chr14-16244506-3	chr14	16244401	16244601	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359882, intron 1 of 3)	intron (NM_001359882, intron 1 of 3)	-1170.0	NM_001359883	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	3.0	7.0	9.0	47.5	101.5	29.0	24.0	24.5
Merged-chr4-120815830-4	chr4	120815753	120815953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357192)	promoter-TSS (NM_001357192)	-140.0	NM_001357192	18046.0	Mm.318389	NM_008692	ENSMUSG00000032897	Nfyc	-	nuclear transcription factor-Y gamma	protein-coding	59.5	77.5	50.0	1058.0	201.5	51.0	66.5	56.0
Merged-chr9-107547256-4	chr9	107547118	107547318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053253)	promoter-TSS (NM_053253)	-92.0	NM_053253	114602.0	Mm.28331	NM_053253	ENSMUSG00000010044	Zmynd10	Blu	zinc finger, MYND domain containing 10	protein-coding	43.0	54.0	40.5	406.0	80.0	28.5	31.5	37.0
Merged-chr11-8760065-4	chr11	8759985	8760185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-95550.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	63.0	108.5	74.0	995.0	183.0	84.0	72.0	113.5
Merged-chr8-44938161-3	chr8	44938086	44938286	+	927.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12022.0	NM_001081286	14107.0	Mm.27365	NM_001081286	ENSMUSG00000070047	Fat1	2310038E12Rik|AU023433|Fath|mFat1	FAT atypical cadherin 1	protein-coding	10.0	14.5	13.5	247.5	10.5	5.5	10.0	4.5
Merged-chr17-73928184-4	chr17	73928075	73928275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 6 of 35)	B1F1|SINE|Alu	22021.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	48.5	69.0	40.0	681.5	85.0	34.0	42.5	21.0
Merged-chr8-64880836-1	chr8	64880736	64880936	+	545.0	f0_c57.idr	Intergenic	Intergenic	-30912.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	13.0	6.5	6.5	102.5	19.5	3.5	7.0	11.5
Merged-chr14-47515240-4	chr14	47515154	47515354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 4 of 5)	intron (NR_027414, intron 4 of 5)	42693.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	44.5	55.5	38.5	570.5	89.5	30.5	62.0	29.0
Merged-chr13-94630291-4	chr13	94630191	94630391	+	980.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-158652.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	5.0	21.0	12.0	167.5	47.0	7.5	18.0	31.5
Merged-chr3-31432031-3	chr3	31431935	31432135	+	715.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-121716.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	5.0	5.0	8.0	72.5	12.5	1.0	2.0	2.0
Merged-chr6-118066335-3	chr6	118066233	118066433	+	958.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027526)	promoter-TSS (NM_027526)	-52.0	NM_027526	70727.0	Mm.87660	NM_027526	ENSMUSG00000030134	Rasgef1a	6330404M18Rik|AI835194	RasGEF domain family, member 1A	protein-coding	13.0	27.5	16.5	177.5	15.5	2.0	12.5	7.5
Merged-chr15-88248344-3	chr15	88248235	88248435	+	897.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66539.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	13.0	15.0	27.5	278.0	2.0	1.0	1.0	3.5
Merged-chr16-91549845-4	chr16	91549723	91549923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 1 of 6)	intron (NM_008338, intron 1 of 6)	2729.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	40.5	66.5	19.5	525.0	101.5	30.5	43.5	42.0
Merged-chr1-155098947-5	chr1	155098868	155099068	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010500, exon 1 of 1)	exon (NM_010500, exon 1 of 1)	668.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	65.0	176.5	59.0	354.5	265.5	119.5	69.5	74.0
Merged-chr6-145121115-4	chr6	145121023	145121223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008511)	promoter-TSS (NM_008511)	-616.0	NM_008511	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	39.5	71.0	80.5	748.0	54.5	39.0	36.5	45.5
Merged-chr6-53288065-5	chr6	53287952	53288152	+	801.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 1 of 10)	CpG	749.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	12.0	14.5	7.5	76.0	11.0	4.0	4.5	10.5
Merged-chr17-50996474-4	chr17	50996383	50996583	+	881.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 3 of 21)	intron (NM_028162, intron 3 of 21)	162895.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	17.0	10.5	3.0	192.5	33.5	10.0	10.0	7.0
Merged-chr1-156803421-4	chr1	156803351	156803551	+	897.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001159965)	TTS (NM_001159965)	-35572.0	NM_028333	72713.0	Mm.389206	NM_028333	ENSMUSG00000033544	Angptl1	2810039D03Rik|ANG3|ANGPT3|ANGY|ARP1	angiopoietin-like 1	protein-coding	4.5	17.0	29.5	252.5	29.0	4.0	18.5	16.5
Merged-chr1-21070242-4	chr1	21070146	21070346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177409, intron 1 of 10)	intron (NM_177409, intron 1 of 10)	8979.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	35.0	38.0	28.5	548.5	51.5	20.0	24.0	25.5
Merged-chr10-25295152-3	chr10	25295019	25295219	+	861.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	intron (NM_018747, intron 1 of 7)	4044.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	0.0	0.0	0.0	10.5	27.5	20.0	20.5	12.0
Merged-chr8-103941096-4	chr8	103941002	103941202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160523.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	35.0	83.0	47.5	814.0	75.5	22.0	41.0	28.0
Merged-chr19-6297828-4	chr19	6297715	6297915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 4 of 4)	intron (NM_010119, intron 4 of 4)	-8642.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	297.5	480.5	331.0	3730.0	634.5	283.5	315.5	214.5
Merged-chr10-128082170-4	chr10	128082059	128082259	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1148.0	NM_016774	11947.0	Mm.238973	NM_016774	ENSMUSG00000025393	Atp5b	Atp5f1b	ATP synthase, H+ transporting mitochondrial F1 complex, beta subunit	protein-coding	18.5	19.5	34.0	309.0	39.0	5.5	17.0	18.5
Merged-chr10-62216916-4	chr10	62216813	62217013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197996, intron 1 of 7)	intron (NM_197996, intron 1 of 7)	14305.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	118.5	157.5	261.5	3065.5	274.0	86.0	87.5	122.0
Merged-chr12-85885204-4	chr12	85885080	85885280	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 12 of 32)	MTD|LTR|ERVL-MaLR	60230.0	NM_001081423	320244.0	Mm.132172	NM_177114	ENSMUSG00000012609	Ttll5	1700048H13Rik|2310009M18Rik|4930556H18Rik|AI428864|D630041K24Rik|R75373|Stamp|mKIAA0998	tubulin tyrosine ligase-like family, member 5	protein-coding	46.0	10.0	25.5	557.0	38.5	12.5	20.5	17.0
Merged-chr8-105825696-4	chr8	105825604	105825804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145824, intron 2 of 13)	intron (NM_145824, intron 2 of 13)	1646.0	NM_145824	74334.0	Mm.4206	NM_145824	ENSMUSG00000037415	Ranbp10	4432417N03Rik	RAN binding protein 10	protein-coding	27.0	55.5	16.5	380.5	104.5	26.5	23.5	24.0
Merged-chr5-147071237-1	chr5	147071137	147071337	+	721.666687	f0_balb.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	5335.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	11.0	14.0	11.0	103.5	4.5	0.5	3.5	0.0
Merged-chr4-151859407-3	chr4	151859294	151859494	+	911.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 1 of 23)	intron (NM_001081557, intron 1 of 23)	2374.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	13.0	12.0	8.0	128.5	7.5	4.0	7.0	16.0
Merged-chr8-37011867-4	chr8	37011776	37011976	+	937.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126063, intron 1 of 2)	intron (NR_126063, intron 1 of 2)	12362.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	34.5	17.0	27.5	562.5	29.5	4.0	30.5	14.5
Merged-chr16-45252619-2	chr16	45252494	45252694	+	785.0	f0_balb.idr|f1_balb.idr	3' UTR (NM_177584, exon 6 of 6)	3' UTR (NM_177584, exon 6 of 6)	28257.0	NM_177584	208154.0	Mm.38199	NM_177584	ENSMUSG00000052013	Btla	A630002H24	B and T lymphocyte associated	protein-coding	5.5	14.0	9.0	233.5	0.5	2.0	2.0	1.0
Merged-chr7-19304762-3	chr7	19304670	19304870	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008036, exon 4 of 4)	3' UTR (NM_008036, exon 4 of 4)	5275.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	10.0	27.5	4.0	99.0	30.0	10.0	7.5	8.5
Merged-chr6-83652215-4	chr6	83652113	83652313	+	945.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016751, intron 4 of 6)	intron (NM_016751, intron 4 of 6)	3903.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	21.5	7.5	36.5	474.0	13.0	2.5	17.0	12.5
Merged-chr11-53520754-4	chr11	53520653	53520853	+	850.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361969, intron 1 of 9)	intron (NM_001361969, intron 1 of 9)	565.0	NM_001361969	20362.0	Mm.274399	NM_033144	ENSMUSG00000018398	Sept8	AW046166|Sepl	septin 8	protein-coding	11.5	13.5	12.0	210.0	18.5	10.5	11.0	10.0
Merged-chr12-8499442-4	chr12	8499321	8499521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007483, exon 1 of 1)	exon (NM_007483, exon 1 of 1)	588.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	126.0	221.5	70.5	947.0	499.5	190.5	260.0	219.5
Merged-chr5-105648932-3	chr5	105648815	105649015	+	907.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51054.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	11.0	8.0	9.0	144.0	14.0	4.0	9.5	6.5
Merged-chr17-37022856-4	chr17	37022796	37022996	+	810.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010814, intron 1 of 7)	ID4_|SINE|ID	502.0	NM_010814	17441.0	Mm.210857	NM_010814	ENSMUSG00000076439	Mog	B230317G11Rik	myelin oligodendrocyte glycoprotein	protein-coding	10.5	14.5	5.0	155.5	24.0	22.5	17.5	4.0
Merged-chr6-122824674-4	chr6	122824592	122824792	+	816.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021899, intron 1 of 10)	intron (NM_021899, intron 1 of 10)	4508.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	7.0	14.5	3.0	102.5	30.0	5.0	10.5	10.5
Merged-chr17-37270212-4	chr17	37270219	37270419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013819)	promoter-TSS (NM_013819)	85.0	NM_013819	14991.0	Mm.14437	NM_013819	ENSMUSG00000016206	H2-M3	H-2M3|Hmt|M3a|MuprM3|MuprM301|MuprM302|R4B2	histocompatibility 2, M region locus 3	protein-coding	55.0	153.5	94.0	813.0	240.5	91.0	92.5	143.5
Merged-chr1-155095921-3	chr1	155095883	155096083	+	856.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010500)	TTS (NM_010500)	3653.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	7.5	5.5	6.0	48.5	15.0	2.0	8.5	3.0
Merged-chr14-14843244-4	chr14	14843147	14843347	+	907.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 7 of 34)	intron (NM_001195229, intron 7 of 34)	22432.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	22.0	34.5	34.0	454.0	19.0	11.5	17.5	6.5
Merged-chr4-102570487-4	chr4	102570368	102570568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001177980, exon 1 of 10)	5' UTR (NM_001177980, exon 1 of 10)	408.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	143.5	264.5	204.0	1943.0	402.5	162.5	190.0	140.0
Merged-chr11-51890521-4	chr11	51890431	51890631	+	971.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-32901.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	22.0	42.0	38.0	790.5	58.0	13.0	26.5	35.5
Merged-chr8-25535585-4	chr8	25535484	25535684	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079909, intron 2 of 16)	intron (NM_001079909, intron 2 of 16)	16825.0	NM_001079908	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	18.5	23.0	31.0	306.5	42.0	10.0	27.0	19.5
Merged-chr7-99132836-3	chr7	99132767	99132967	+	781.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	8277.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	8.0	5.5	7.0	67.5	10.5	10.0	6.0	4.5
Merged-chr9-62980426-1	chr9	62980326	62980526	+	1000.0	f0_c57.idr	intron (NM_019663, intron 1 of 13)	CpG	453.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	20.0	41.0	15.5	276.5	79.5	32.0	26.0	31.0
Merged-chr9-65535390-4	chr9	65535283	65535483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44704.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	172.5	310.0	156.0	2236.5	479.0	174.0	211.0	190.0
Merged-chr7-16396147-3	chr7	16396048	16396248	+	795.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5048.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	1.0	8.0	3.5	108.0	15.0	6.5	6.0	10.0
Merged-chr15-86212388-4	chr15	86212310	86212510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2049.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	120.5	143.0	178.0	2192.5	301.0	111.5	162.5	184.5
Merged-chr5-148540081-2	chr5	148539981	148540181	+	589.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	11592.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	2.5	2.5	4.0	34.5	16.5	4.5	8.5	5.0
Merged-chr11-32560602-4	chr11	32560507	32560707	+	980.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	27341.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	45.0	56.0	96.0	1221.5	65.5	13.0	36.5	33.0
Merged-chr11-82023907-4	chr11	82023824	82024024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11653.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	56.0	102.5	39.5	716.0	124.0	48.0	78.5	73.5
Merged-chr2-145866833-3	chr2	145866742	145866942	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 9 of 12)	intron (NM_028724, intron 9 of 12)	-36399.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	16.0	24.0	35.5	349.5	9.5	12.0	13.5	8.5
Merged-chr18-43393573-1	chr18	43393473	43393673	+	644.0	f0_balb.idr	promoter-TSS (NM_009468)	promoter-TSS (NM_009468)	-196.0	NM_009468	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	6.5	5.5	7.0	96.5	14.0	7.0	10.0	5.0
Merged-chr6-30454088-2	chr6	30453988	30454188	+	979.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311087, exon 9 of 9)	3' UTR (NM_001311087, exon 9 of 9)	-6897.0	NR_131049	69337.0	Mm.396168	NR_131049	ENSMUSG00000085470	1700012C14Rik	-	RIKEN cDNA 1700012C14 gene	ncRNA	4.5	6.5	1.0	85.5	23.0	5.5	7.0	6.5
Merged-chr8-77452101-4	chr8	77452016	77452216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	(A)n|Simple_repeat|Simple_repeat	-64940.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	132.0	199.0	100.5	1217.0	335.0	126.5	111.5	129.5
Merged-chr3-65484591-4	chr3	65484493	65484693	+	988.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43854.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	27.5	29.0	32.0	536.5	70.5	23.0	41.5	15.5
Merged-chr13-104286051-4	chr13	104285925	104286125	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1810.0	NR_136938	108154.0	Mm.208125	NM_175496	ENSMUSG00000046169	Adamts6	A930019D11Rik|ADAM-TS6|b2b1879.1Clo|b2b2029Clo|b2b2182Clo|b2b2187.1Clo|b2b2228Clo	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	protein-coding	16.5	20.0	9.5	192.0	81.5	15.5	14.0	22.5
Merged-chr4-48149390-4	chr4	48149262	48149462	+	843.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026343, intron 3 of 7)	intron (NM_026343, intron 3 of 7)	24443.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	6.0	7.5	2.0	77.0	27.0	9.0	9.5	6.0
Merged-chr11-97435271-4	chr11	97435152	97435352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14908.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	169.0	239.0	134.5	1994.0	331.0	144.0	148.5	145.0
Merged-chr8-70904704-4	chr8	70904598	70904798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1276.0	NM_173013	270058.0	Mm.248559	NM_173013	ENSMUSG00000019261	Map1s	6430517J16Rik|Bpy2ip1|Map8|Mtap1s|VCY2IP1	microtubule-associated protein 1S	protein-coding	110.0	122.0	96.0	1718.5	217.0	79.5	101.5	95.5
Merged-chr12-16870975-4	chr12	16870854	16871054	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24024.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	32.5	42.5	35.0	526.0	103.5	42.0	43.5	16.5
Merged-chr17-56939367-3	chr17	56939265	56939465	+	863.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-3977.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	8.0	6.5	14.5	87.5	16.5	3.5	6.0	12.0
Merged-chr9-83905944-2	chr9	83905844	83906044	+	635.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19193.0	NM_001305935	12040.0	Mm.12819	NM_199195	ENSMUSG00000032263	Bckdhb	BCKDE1B|BCKDH E1-beta	branched chain ketoacid dehydrogenase E1, beta polypeptide	protein-coding	4.5	4.5	4.5	72.5	7.0	1.5	3.5	3.0
Merged-chr5-88518317-4	chr5	88518214	88518414	+	761.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	9583.0	NM_152839	16069.0	Mm.1192	NM_152839	ENSMUSG00000067149	Jchain	9530090F24Rik|AI323815|Igj|Jch	immunoglobulin joining chain	protein-coding	8.0	9.0	9.0	120.0	17.5	4.0	6.0	7.0
Merged-chr13-12469747-3	chr13	12469639	12469839	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8001.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	4.0	5.0	5.5	79.5	15.0	4.5	5.0	5.0
Merged-chr15-96633787-4	chr15	96633705	96633905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166458, intron 1 of 15)	MTD|LTR|ERVL-MaLR	8157.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	49.5	91.5	60.0	1360.0	173.0	52.5	38.0	40.0
Merged-chr10-39440354-4	chr10	39440269	39440469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	70570.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	19.5	34.5	20.5	213.5	68.5	16.0	24.5	10.0
Merged-chr12-80113082-4	chr12	80113018	80113218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007564)	promoter-TSS (NM_007564)	-105.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	126.5	206.0	82.0	1135.0	305.0	176.5	132.0	97.0
Merged-chr9-32521561-4	chr9	32521453	32521653	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	L2b|LINE|L2	19899.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	36.0	42.5	32.0	1000.0	60.5	12.0	39.5	34.0
Merged-chr17-86677087-3	chr17	86676987	86677187	+	950.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76777.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	11.0	15.0	15.0	230.0	12.5	8.0	2.5	5.0
Merged-chr10-77926310-2	chr10	77926210	77926410	+	886.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 21 of 33)	B3A|SINE|B2	-23774.0	NM_145152	237387.0	Mm.133301	NM_145152	ENSMUSG00000051652	Lrrc3	1300011L04Rik|C21orf102	leucine rich repeat containing 3	protein-coding	14.0	3.0	2.0	52.0	18.0	11.0	13.5	8.0
Merged-chr9-82942072-4	chr9	82941977	82942177	+	914.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081216, intron 7 of 39)	intron (NM_001081216, intron 7 of 39)	33412.0	NM_001081216	83946.0	Mm.221688	NM_031879	ENSMUSG00000032253	Phip	2810004D21Rik|4632404O06Rik|Ndrp|Wdr11	pleckstrin homology domain interacting protein	protein-coding	19.0	25.5	13.0	431.0	24.5	8.0	20.5	17.5
Merged-chr3-58556832-2	chr3	58556688	58556888	+	756.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005509, intron 13 of 13)	intron (NM_001005509, intron 13 of 13)	-19848.0	NM_001040396	69227.0	Mm.270950	NM_001040396	ENSMUSG00000075700	Selenot	2810407C02Rik|5730408P04Rik|Selt	selenoprotein T	protein-coding	0.0	1.0	0.0	2.5	19.5	9.5	10.5	12.0
Merged-chr1-173878493-2	chr1	173878393	173878593	+	894.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001170853, intron 2 of 9)	intron (NM_001170853, intron 2 of 9)	1694.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	5.0	8.0	7.0	76.5	5.5	3.5	3.5	7.0
Merged-chr16-94774131-3	chr16	94774039	94774239	+	806.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025584, intron 3 of 4)	intron (NM_001025584, intron 3 of 4)	82551.0	NM_001025590	16522.0	Mm.328720	NM_010606	ENSMUSG00000043301	Kcnj6	BIR1|GIRK2|KATP2|KCNJ7|Kir3.2|weaver|wv	potassium inwardly-rectifying channel, subfamily J, member 6	protein-coding	11.5	8.5	20.5	237.5	10.5	0.0	6.5	7.5
Merged-chr7-101559638-3	chr7	101559468	101559668	+	797.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033804, intron 1 of 3)	B3A|SINE|B2	1297.0	NR_033804	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	6.5	5.5	0.0	58.0	18.0	8.0	10.0	8.0
Merged-chr13-100104043-4	chr13	100103917	100104117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081061)	promoter-TSS (NM_001081061)	53.0	NM_001081061	544971.0	Mm.288546	NM_001081061	ENSMUSG00000049658	Bdp1	AI662220|AW049390|AW456745|B130055N23Rik|G630013P12Rik|TAF3B1|TFC5|TFIIIB150|TFIIIB90|Tfnr|mKIAA1241	B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB	protein-coding	55.5	91.0	33.0	589.5	110.0	34.0	29.0	51.0
Merged-chr7-16928487-4	chr7	16928383	16928583	+	904.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4451.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	11.0	14.5	8.5	75.5	51.0	15.5	26.0	24.5
Merged-chr4-101355166-4	chr4	101355087	101355287	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040640, intron 1 of 3)	intron (NR_040640, intron 1 of 3)	1061.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	15.5	24.5	7.0	164.5	39.5	16.5	7.0	21.5
Merged-chr17-33929484-4	chr17	33929367	33929567	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009059)	promoter-TSS (NM_009059)	-427.0	NM_009059	19732.0	Mm.43777	NM_009059	ENSMUSG00000041354	Rgl2	KE1.5|Rab2l|Rgt2|Rlf	ral guanine nucleotide dissociation stimulator-like 2	protein-coding	28.5	59.0	15.0	315.5	117.0	51.0	44.0	35.5
Merged-chr11-82526306-4	chr11	82526207	82526407	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107046.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	7.0	11.0	20.5	530.5	35.5	5.0	9.5	23.5
Merged-chr3-109027771-4	chr3	109027629	109027829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163567)	promoter-TSS (NM_001163567)	-122.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	114.0	157.5	145.5	1900.5	327.0	113.0	153.5	131.0
Merged-chr15-91186487-4	chr15	91186463	91186663	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358967, intron 2 of 9)	intron (NM_001358967, intron 2 of 9)	5444.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	11.5	13.5	18.5	302.0	16.5	11.0	7.5	6.0
Merged-chr8-48011874-3	chr8	48011774	48011974	+	932.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-21323.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	5.0	11.5	15.5	159.5	10.5	6.0	6.0	7.5
Merged-chr8-111325338-4	chr8	111325259	111325459	+	819.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310613, intron 4 of 10)	L1M5|LINE|L1	12846.0	NM_001310613	74568.0	Mm.207971	NM_029005	ENSMUSG00000012519	Mlkl	9130019I15Rik	mixed lineage kinase domain-like	protein-coding	22.5	14.0	17.0	187.0	33.5	10.0	17.0	11.5
Merged-chr2-11553939-4	chr2	11553826	11554026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177758)	promoter-TSS (NM_001177758)	3.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	134.5	186.5	163.0	2026.5	254.0	126.0	142.0	135.5
Merged-chr13-58127447-3	chr13	58127354	58127554	+	918.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029872, exon 1 of 1)	exon (NM_029872, exon 1 of 1)	1102.0	NM_029872	77134.0	Mm.490274	NM_029872	ENSMUSG00000007836	Hnrnpa0	1110055B05Rik|3010025E17Rik|Hnrpa0|hnRNP A0	heterogeneous nuclear ribonucleoprotein A0	protein-coding	7.0	8.5	16.5	115.0	20.0	9.0	7.5	16.5
Merged-chr14-31414314-2	chr14	31414214	31414414	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	3363.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	5.5	9.0	6.0	160.5	18.5	5.5	3.0	6.5
Merged-chr2-131767701-4	chr2	131767622	131767822	+	857.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79934.0	NR_029381	414081.0	Mm.246905	NR_029381	ENSMUSG00000086822	5330413P13Rik	-	RIKEN cDNA 5330413P13 gene	ncRNA	8.0	5.5	18.0	236.0	13.0	2.0	10.5	16.5
Merged-chr7-126703653-3	chr7	126703589	126703789	+	752.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009898, intron 1 of 10)	intron (NM_009898, intron 1 of 10)	531.0	NM_001301374	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	5.5	9.0	9.5	51.0	18.0	3.5	5.0	2.0
Merged-chr10-8890695-3	chr10	8890589	8890789	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4619.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	18.5	35.5	18.0	333.0	3.0	0.0	3.5	3.0
Merged-chr17-87247070-4	chr17	87246975	87247175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18872.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	248.5	375.0	250.5	2995.5	621.0	233.5	283.0	222.5
Merged-chr4-87863402-4	chr4	87863294	87863494	+	654.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 4 of 10)	intron (NM_027326, intron 4 of 10)	-57071.0	NM_029931	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	7.5	2.0	5.5	61.0	27.0	4.5	9.5	18.0
Merged-chr12-36042548-4	chr12	36042448	36042648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025359)	promoter-TSS (NM_025359)	-70.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	86.0	73.0	77.0	1427.0	126.5	36.0	37.0	38.5
Merged-chr14-51062973-4	chr14	51062860	51063060	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5718.0	NM_001011875	497106.0	Mm.379740	NM_001011875	ENSMUSG00000068407	Rnase12	Rai1	ribonuclease, RNase A family, 12 (non-active)	protein-coding	16.5	19.5	18.5	275.5	44.0	6.5	8.0	12.0
Merged-chr2-75696645-4	chr2	75696542	75696742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132727, intron 1 of 1)	intron (NR_132727, intron 1 of 1)	8021.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	51.0	58.0	40.5	609.0	73.0	25.0	30.5	34.0
Merged-chr7-141403531-4	chr7	141403436	141403636	+	729.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011528)	TTS (NM_011528)	10589.0	NM_172116	213350.0	Mm.290953	NM_172116	ENSMUSG00000051007	Gatd1	BC023835|D230016J19Rik|Pddc1	glutamine amidotransferase like class 1 domain containing 1	protein-coding	6.5	9.5	12.0	109.5	22.5	6.0	15.0	16.5
Merged-chr3-95882434-4	chr3	95882334	95882534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033302)	promoter-TSS (NM_001033302)	-206.0	NM_001033302	229599.0	Mm.331218	NM_001033302	ENSMUSG00000038550	Ciart	Chrono|Gm129	circadian associated repressor of transcription	protein-coding	125.0	193.0	133.5	2130.0	302.0	139.5	125.5	156.0
Merged-chr7-19092857-2	chr7	19092757	19092957	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_032418, intron 14 of 14)	intron (NM_032418, intron 14 of 14)	-1687.0	NM_011383	20475.0	Mm.3410	NM_011383	ENSMUSG00000040841	Six5	Dmahp|MDMAHP|TrexBF	sine oculis-related homeobox 5	protein-coding	3.0	3.0	5.0	50.0	11.0	4.5	4.5	6.5
Merged-chr1-36570161-4	chr1	36570033	36570233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-11752.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	26.0	60.0	51.5	265.5	138.5	44.0	49.0	19.0
Merged-chr2-51090795-4	chr2	51090716	51090916	+	711.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58295.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	6.5	10.0	10.0	91.0	25.5	3.0	6.0	5.0
Merged-chr15-38382721-4	chr15	38382567	38382767	+	952.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie15a|DNA|hAT-Charlie	-81956.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	12.0	29.5	21.0	328.0	43.5	9.5	13.0	23.0
Merged-chr14-57889819-4	chr14	57889714	57889914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029492, intron 1 of 12)	CpG	522.0	NM_029492	75965.0	Mm.29044	NM_029492	ENSMUSG00000021969	Zdhhc20	4930542A17Rik|5033406L14Rik|AI448102|B230110O18Rik|HK11	zinc finger, DHHC domain containing 20	protein-coding	18.0	18.0	22.0	357.0	56.0	18.5	33.5	40.5
Merged-chr16-30008702-4	chr16	30008612	30008812	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033631)	promoter-TSS (NR_033631)	45.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	16.0	22.0	40.5	781.0	36.5	7.5	22.5	25.5
Merged-chr1-163403735-4	chr1	163403643	163403843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132627)	promoter-TSS (NR_132627)	-74.0	NM_178883	98376.0	Mm.32901	NM_178883	ENSMUSG00000040124	Gorab	NTKL-BP1|SCYL1-BP1|Scyl1bp1	golgin, RAB6-interacting	protein-coding	77.5	90.0	83.5	1220.0	160.0	70.0	126.0	59.5
Merged-chr7-105626843-4	chr7	105626700	105626900	+	827.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018880, intron 1 of 11)	intron (NM_018880, intron 1 of 11)	6771.0	NM_018880	55992.0	Mm.29290	NM_018880	ENSMUSG00000036989	Trim3	BERP1|HAC1|Rnf22	tripartite motif-containing 3	protein-coding	10.5	16.5	7.5	75.0	17.5	6.0	9.0	11.5
Merged-chr3-107097568-4	chr3	107097486	107097686	+	967.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3981.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	26.5	18.5	12.0	388.5	46.0	12.5	16.5	16.5
Merged-chr10-111119424-4	chr10	111119322	111119522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45380.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	44.0	44.0	32.0	737.0	86.5	17.5	34.5	19.5
Merged-chr14-47647118-4	chr14	47647021	47647221	+	919.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2190.0	NM_001347527	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	36.0	52.5	16.5	277.0	79.0	11.0	19.5	12.5
Merged-chr3-30498747-3	chr3	30498603	30498803	+	984.672241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361034, intron 1 of 16)	intron (NM_001361034, intron 1 of 16)	10972.0	NM_001361034	14013.0	Mm.56965	NM_007963	ENSMUSG00000027684	Mecom	D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1	MDS1 and EVI1 complex locus	protein-coding	10.5	38.5	30.0	349.5	17.5	2.0	4.5	4.5
Merged-chr6-56832112-4	chr6	56832001	56832201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012056)	promoter-TSS (NM_012056)	42.0	NM_012056	27055.0	Mm.20943	NM_012056	ENSMUSG00000029781	Fkbp9	1810014L23|AW549641|FKBP-63|FKBP-9|FKBP60|FKBP63|FKBP65RS	FK506 binding protein 9	protein-coding	41.5	72.5	51.0	709.5	69.0	27.5	39.5	28.0
Merged-chr10-75513375-4	chr10	75513279	75513479	+	947.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347201, intron 1 of 5)	intron (NM_001347201, intron 1 of 5)	4002.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	22.5	67.5	20.0	169.5	78.0	36.0	19.5	10.5
Merged-chr6-97431736-4	chr6	97431622	97431822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	27564.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	147.0	246.0	230.0	2574.0	303.0	115.5	126.5	145.5
Merged-chr7-118518860-4	chr7	118518724	118518924	+	940.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304758, intron 5 of 6)	intron (NM_001304758, intron 5 of 6)	14532.0	NM_001304758	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	20.0	27.0	15.0	313.0	36.0	11.5	17.0	9.5
Merged-chr19-45079381-3	chr19	45079287	45079487	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001362398)	TTS (NM_001362398)	3300.0	NM_001362397	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	5.5	9.5	5.0	83.0	21.5	5.5	5.5	10.0
Merged-chr2-90478780-4	chr2	90478675	90478875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	399.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	71.5	91.0	77.5	958.5	87.0	32.5	63.0	60.0
Merged-chr4-136180161-4	chr4	136180051	136180251	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305399)	promoter-TSS (NM_001305399)	-631.0	NM_001305399	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	14.5	38.5	8.5	194.0	57.5	27.0	25.5	21.0
Merged-chr11-8443822-4	chr11	8443719	8443919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 27 of 30)	intron (NM_001083587, intron 27 of 30)	220716.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	17.0	60.5	53.5	797.0	59.5	21.5	30.0	49.5
Merged-chr2-79677839-1	chr2	79677739	79677939	+	915.0	f0_balb.idr	Intergenic	Intergenic	-29941.0	NM_172420	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	9.0	6.0	4.5	129.5	9.0	0.0	1.0	2.0
Merged-chr13-119366645-2	chr13	119366545	119366745	+	672.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001308506, intron 11 of 16)	L1MEb|LINE|L1	42366.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	1.0	8.5	2.0	36.0	14.5	12.0	4.5	4.5
Merged-chr13-60644799-4	chr13	60644691	60644891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	ORR1E|LTR|ERVL-MaLR	42580.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	109.5	112.0	73.5	1459.5	138.5	68.0	73.0	75.0
Merged-chr17-5494873-3	chr17	5494817	5495017	+	758.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	2317.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	9.0	6.5	6.5	88.5	8.5	0.5	4.5	3.5
Merged-chr7-67370412-4	chr7	67370328	67370528	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 1 of 11)	intron (NM_001357324, intron 1 of 11)	2430.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	32.0	84.0	30.5	240.0	89.0	26.0	22.5	22.5
Merged-chr11-32321386-4	chr11	32321284	32321484	+	743.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21315.0	NM_175000	216635.0	Mm.338482	NM_175000	ENSMUSG00000020295	Hbq1a	A230090E05Rik|Gm876|Hbq1|Hbqt2	hemoglobin, theta 1A	protein-coding	9.0	11.0	4.5	102.5	34.5	10.0	11.5	5.5
Merged-chr1-171451189-4	chr1	171451061	171451261	+	861.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172647, intron 1 of 9)	intron (NM_172647, intron 1 of 9)	13600.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	9.0	12.0	5.5	119.0	34.0	17.5	10.0	11.0
Merged-chr14-75180243-2	chr14	75180143	75180343	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	43818.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	5.5	29.0	15.5	122.5	32.5	18.5	8.5	9.5
Merged-chr17-87550844-4	chr17	87550731	87550931	+	871.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85148.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	14.5	11.5	30.0	506.5	15.0	9.0	12.0	14.0
Merged-chr2-35841745-4	chr2	35841640	35841840	+	953.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 6 of 9)	intron (NM_029774, intron 6 of 9)	22550.0	NR_040618	77665.0	Mm.400558	NR_040618	ENSMUSG00000086449	9030204H09Rik	-	RIKEN cDNA 9030204H09 gene	ncRNA	14.0	11.5	15.0	339.5	65.0	13.0	18.0	9.5
Merged-chr10-75836228-4	chr10	75836116	75836316	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-1335.0	NM_010361	14872.0	Mm.24118	NM_010361	ENSMUSG00000033318	Gstt2	AI266894|Yrs|mGSTT2	glutathione S-transferase, theta 2	protein-coding	17.5	11.0	10.0	151.0	28.5	9.5	12.5	15.0
Merged-chr9-50533523-4	chr9	50533419	50533619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133217, exon 12 of 12)	exon (NM_133217, exon 12 of 12)	-4878.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	24.5	44.0	20.0	506.5	86.5	23.5	32.5	39.0
Merged-chr16-43354714-3	chr16	43354605	43354805	+	632.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	MTD|LTR|ERVL-MaLR	65491.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	10.0	14.0	6.0	93.0	18.5	2.0	5.5	2.0
Merged-chr10-8760696-4	chr10	8760529	8760729	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	125441.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	25.0	24.5	23.0	256.5	40.0	23.0	14.0	9.0
Merged-chr17-35050350-4	chr17	35050255	35050455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033444, exon 1 of 6)	5' UTR (NM_033444, exon 1 of 6)	112.0	NM_033444	114584.0	Mm.29524	NM_033444	ENSMUSG00000007041	Clic1	Clcp|G6	chloride intracellular channel 1	protein-coding	16.5	30.0	20.5	187.0	66.0	19.0	25.5	23.5
Merged-chr5-134678242-4	chr5	134678123	134678323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305875)	promoter-TSS (NM_001305875)	25.0	NM_001305875	16885.0	Mm.15409	NM_010717	ENSMUSG00000029674	Limk1	KIZ-1|LIMK-1|Limk	LIM-domain containing, protein kinase	protein-coding	73.0	78.5	73.5	922.5	131.0	54.5	64.5	53.5
Merged-chr5-105698843-4	chr5	105698791	105698991	+	992.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1078.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	40.0	39.0	26.0	675.0	30.5	12.5	32.5	16.0
Merged-chr19-3686757-4	chr19	3686645	3686845	+	955.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008513)	promoter-TSS (NM_008513)	-181.0	NM_008513	16973.0	Mm.274581	NM_008513	ENSMUSG00000024913	Lrp5	BMND1|HBM|LR3|LRP7|OPPG|mKIAA4142	low density lipoprotein receptor-related protein 5	protein-coding	23.0	18.0	17.0	206.0	46.0	15.0	10.5	20.0
Merged-chr2-11516287-7	chr2	11516199	11516399	+	908.301575	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	(CAGA)n|Simple_repeat|Simple_repeat	-14209.0	NM_001177757	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	7.5	6.5	7.5	95.5	7.5	3.0	3.5	3.5
Merged-chr12-111907725-4	chr12	111907625	111907825	+	883.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011625, intron 1 of 16)	C-rich|Low_complexity|Low_complexity	330.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	21.0	16.5	10.0	325.5	44.5	11.0	22.0	12.0
Merged-chr5-9056245-4	chr5	9056160	9056360	+	769.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44477.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	8.0	7.0	17.0	77.0	26.5	8.0	9.5	15.5
Merged-chr4-141832427-4	chr4	141832339	141832539	+	921.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-6434.0	NM_007919	13706.0	Mm.45316	NM_007919	ENSMUSG00000058579	Cela2a	Ela-2|Ela2|Ela2a	chymotrypsin-like elastase family, member 2A	protein-coding	8.0	15.5	6.5	154.0	114.5	36.0	32.5	32.5
Merged-chr2-11589026-4	chr2	11588924	11589124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_152824, exon 8 of 12)	exon (NM_152824, exon 8 of 12)	14175.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	42.0	37.0	74.0	406.5	89.0	33.0	35.5	31.5
Merged-chr14-73401319-4	chr14	73401213	73401413	+	977.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16024.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	16.0	13.0	19.0	386.0	31.5	24.5	19.5	18.0
Merged-chr12-34504432-1	chr12	34504332	34504532	+	627.0	f0_c57.idr	intron (NM_001271386, intron 4 of 27)	intron (NM_001271386, intron 4 of 27)	24457.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	5.0	4.5	4.5	153.0	21.5	13.5	16.5	16.0
Merged-chr3-95819457-4	chr3	95819362	95819562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081293)	promoter-TSS (NM_001081293)	-509.0	NM_001081293	75137.0	Mm.196275	NM_028328	ENSMUSG00000028106	Rprd2	2810036A19Rik|4930535B03Rik|6720469I21Rik|AL022841|AL022940|AU021304|BB077382|mKIAA0460	regulation of nuclear pre-mRNA domain containing 2	protein-coding	92.5	134.5	63.0	958.5	221.5	112.0	105.5	78.5
Merged-chr19-32935769-3	chr19	32935700	32935900	+	825.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	178223.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	13.0	17.0	6.0	157.5	17.0	4.5	3.0	12.5
Merged-chr15-102459111-4	chr15	102459021	102459221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170911)	promoter-TSS (NM_001170911)	-49.0	NM_001170911	66151.0	Mm.393955	NM_025385	ENSMUSG00000023048	Prr13	1110020C13Rik|2010324E22Rik	proline rich 13	protein-coding	66.5	133.5	35.5	912.5	213.5	82.5	73.5	75.0
Merged-chr2-177840357-4	chr2	177840241	177840441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024849)	promoter-TSS (NM_001024849)	-5.0	NM_001024849	329575.0	Mm.425123	NM_001024849	ENSMUSG00000095362	Gm14325	-	predicted gene 14325	protein-coding	68.0	102.0	49.5	574.5	118.5	49.5	99.5	52.5
Merged-chr13-105300867-4	chr13	105300762	105300962	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6377.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	24.5	48.0	20.0	475.5	87.0	16.5	24.0	24.0
Merged-chr7-16885362-7	chr7	16885226	16885426	+	979.404785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081655, exon 4 of 4)	exon (NM_001081655, exon 4 of 4)	-6460.0	NM_010320	14709.0	Mm.103770	NM_010320	ENSMUSG00000063594	Gng8	G(y)8	guanine nucleotide binding protein (G protein), gamma 8	protein-coding	15.5	6.5	5.0	121.5	40.0	10.5	22.5	23.5
Merged-chr8-47674485-4	chr8	47674384	47674584	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023503, intron 1 of 1)	CpG	675.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	12.0	22.5	16.5	113.5	72.0	25.0	21.0	23.5
Merged-chr15-98089553-4	chr15	98089457	98089657	+	959.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144851, intron 1 of 17)	intron (NM_144851, intron 1 of 17)	-3032.0	NM_001163488	18642.0	Mm.272582	NM_021514	ENSMUSG00000033065	Pfkm	AI131669|ATP-PFK|PFK-A|PFK-M|Pfk-4|Pfk4|Pfka|Pfkx	phosphofructokinase, muscle	protein-coding	15.0	20.0	12.0	152.0	62.5	19.5	12.0	8.0
Merged-chr9-107526787-3	chr9	107526667	107526867	+	972.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020263, exon 36 of 39)	exon (NM_020263, exon 36 of 39)	-7178.0	NM_019704	56395.0	Mm.260153	NM_019704	ENSMUSG00000010045	Tmem115	C78915|Pl6|Pp6	transmembrane protein 115	protein-coding	17.5	23.0	12.5	165.5	14.5	4.5	2.5	6.0
Merged-chr3-40744394-4	chr3	40744327	40744527	+	932.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1186.0	NM_011020	18415.0	Mm.39330	NM_011020	ENSMUSG00000025757	Hspa4l	94kDa|AI461691|APG-1|Osp94	heat shock protein 4 like	protein-coding	16.0	7.0	25.5	246.5	16.5	3.5	22.0	19.0
Merged-chr5-123049392-4	chr5	123049254	123049454	+	870.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2338.0	NM_001347456	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	14.0	4.5	8.0	104.0	18.0	5.0	9.5	6.0
Merged-chr8-67515982-4	chr8	67515852	67516052	+	840.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11B|LTR|ERVK	-7902.0	NM_008674	17962.0	Mm.57193	NM_008674	ENSMUSG00000056426	Nat3	-	N-acetyltransferase 3	protein-coding	8.5	6.5	8.5	97.0	28.0	5.0	6.5	6.0
Merged-chr17-50330412-4	chr17	50330310	50330510	+	903.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36790.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	31.0	37.5	36.0	611.5	28.0	11.5	7.5	24.0
Merged-chr14-120307105-4	chr14	120306948	120307148	+	923.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 1 of 8)	intron (NM_001360376, intron 1 of 8)	596.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	5.5	19.0	7.5	58.5	20.5	13.5	9.5	4.0
Merged-chr6-24666438-3	chr6	24666320	24666520	+	835.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1425.0	NM_028459	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	6.0	6.0	5.5	66.5	5.5	3.0	4.5	8.0
Merged-chr2-155584370-3	chr2	155584296	155584496	+	874.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291111, intron 1 of 11)	ID_B1|SINE|B4	8414.0	NM_001291111	14854.0	Mm.252316	NM_008180	ENSMUSG00000027610	Gss	AI314904|GS-A/GS-B|GSH-S	glutathione synthetase	protein-coding	4.5	5.0	4.0	40.0	15.0	5.5	6.0	7.5
Merged-chr1-157140620-2	chr1	157140519	157140719	+	921.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177644, exon 18 of 18)	3' UTR (NM_177644, exon 18 of 18)	-31939.0	NM_001305063	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	5.0	17.0	6.5	31.5	4.0	3.0	0.0	4.0
Merged-chr6-136946441-4	chr6	136946343	136946543	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4544.0	NM_001301309	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	20.5	20.0	22.0	392.0	59.0	13.0	26.0	15.5
Merged-chr13-40977812-4	chr13	40977698	40977898	+	830.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155347, intron 1 of 4)	intron (NR_155347, intron 1 of 4)	-23212.0	NM_026550	68083.0	Mm.24789	NM_026550	ENSMUSG00000038683	Pak1ip1	5830431I15Rik|5930415H02Rik|AA419825|AI314040|AW556169|Gdpd1|PIP1	PAK1 interacting protein 1	protein-coding	11.0	16.0	3.0	99.0	44.0	11.5	11.5	11.0
Merged-chr5-90771979-1	chr5	90771879	90772079	+	955.0	f1_balb.idr	promoter-TSS (NM_019932)	promoter-TSS (NM_019932)	-456.0	NM_019932	56744.0	Mm.332490	NM_019932	ENSMUSG00000029373	Pf4	Cxcl4|Scyb4	platelet factor 4	protein-coding	7.5	7.0	4.5	78.5	12.5	4.0	7.0	5.0
Merged-chr4-139170462-2	chr4	139170354	139170554	+	596.333374	f0_balb.idr|f1_balb.idr	Intergenic	LTR79|LTR|ERVL	10201.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	4.5	7.5	5.5	66.0	3.0	2.5	1.0	0.5
Merged-chr8-85142741-4	chr8	85142646	85142846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9178.0	NM_001037922	624855.0	Mm.390061	NM_001037922	ENSMUSG00000062687	Cks1brt	EG624855|Gm6531	CDC28 protein kinase 1b, retrogene	protein-coding	111.5	149.5	126.0	1879.0	337.0	118.5	169.5	154.5
Merged-chr4-116789139-4	chr4	116789043	116789243	+	794.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146151, intron 4 of 10)	intron (NM_146151, intron 4 of 10)	18416.0	NM_026654	68276.0	Mm.30534	NM_026654	ENSMUSG00000028688	Toe1	4930584N22Rik|4933424D16Rik|AI413517	target of EGR1, member 1 (nuclear)	protein-coding	9.5	8.5	2.5	147.0	25.5	9.5	9.5	8.5
Merged-chr19-55293326-4	chr19	55293241	55293441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027976, intron 17 of 21)	intron (NM_027976, intron 17 of 21)	22695.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	30.5	65.5	40.0	260.0	146.5	52.5	58.5	41.0
Merged-chr9-7558383-4	chr9	7558284	7558484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008611)	promoter-TSS (NM_008611)	-45.0	NM_008611	17394.0	Mm.16415	NM_008611	ENSMUSG00000005800	Mmp8	BB138268	matrix metallopeptidase 8	protein-coding	40.0	61.0	57.5	1207.5	129.5	30.5	72.5	37.0
Merged-chr17-45586613-4	chr17	45586519	45586719	+	775.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199113, intron 12 of 13)	B3A|SINE|B2	5774.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	9.5	20.0	2.0	63.0	20.0	10.0	10.0	19.5
Merged-chr17-43017052-2	chr17	43016945	43017145	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_178589, exon 1 of 6)	exon (NM_178589, exon 1 of 6)	490.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	7.5	9.0	7.5	88.5	27.5	9.0	10.5	21.5
Merged-chr1-191718148-7	chr1	191718068	191718268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134829)	promoter-TSS (NM_001134829)	144.0	NM_172266	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	14.5	11.5	15.0	308.5	43.0	12.5	20.5	20.0
Merged-chr12-32061321-4	chr12	32061233	32061433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011158)	promoter-TSS (NM_011158)	-54.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	33.5	49.0	33.5	621.5	122.5	49.0	60.0	63.0
Merged-chr13-99006402-1	chr13	99006302	99006502	+	1000.0	f0_balb.idr	Intergenic	MLT2B2|LTR|ERVL	-21837.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	30.0	36.0	62.0	552.5	51.0	28.0	25.0	40.5
Merged-chr19-32215041-4	chr19	32214938	32215138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	-4025.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	134.5	103.5	82.0	1484.0	198.0	73.0	79.0	92.0
Merged-chr4-105268891-4	chr4	105268798	105268998	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111551.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	22.0	37.0	13.0	60.5	64.5	20.0	4.5	6.0
Merged-chr1-36368808-4	chr1	36368713	36368913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172652, intron 1 of 20)	CpG	368.0	NM_172652	226976.0	Mm.24734	NM_172652	ENSMUSG00000010453	Kansl3	4632411B12Rik|4932435K23|AI431067|AI647574|C85723|Kiaa1310|mKIAA1310	KAT8 regulatory NSL complex subunit 3	protein-coding	30.0	41.5	54.5	396.0	72.0	29.5	38.5	31.5
Merged-chr9-107288922-4	chr9	107288818	107289018	+	925.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316691, intron 1 of 7)	intron (NM_001316691, intron 1 of 7)	478.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	7.0	11.5	7.5	127.5	53.0	15.0	23.0	24.5
Merged-chr10-13969179-4	chr10	13969080	13969280	+	851.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	2801.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	5.0	35.0	9.0	80.0	33.5	12.0	17.0	8.0
Merged-chr2-160269518-4	chr2	160269405	160269605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57989.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	31.0	32.0	43.5	996.0	52.0	18.0	33.0	28.0
Merged-chr2-32506854-4	chr2	32506755	32506955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28504.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	25.5	40.5	19.5	560.0	71.5	22.0	36.0	42.0
Merged-chr1-9546305-6	chr1	9546196	9546396	+	967.422241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021511, exon 1 of 1)	exon (NM_021511, exon 1 of 1)	888.0	NM_021511	59014.0	Mm.29061	NM_021511	ENSMUSG00000061024	Rrs1	5730466A07Rik|AA415037|D1Ertd701e|Rrr	ribosome biogenesis regulator 1	protein-coding	18.0	11.0	11.0	78.0	24.0	11.5	12.5	12.5
Merged-chr5-3421060-4	chr5	3420938	3421138	+	953.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 3 of 7)	intron (NM_009873, intron 3 of 7)	77145.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	17.0	18.0	5.0	117.5	51.5	25.0	32.5	19.0
Merged-chr12-16879930-4	chr12	16879830	16880030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15048.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	37.0	73.5	31.0	792.0	92.0	56.5	21.5	40.0
Merged-chr1-127786052-4	chr1	127785954	127786154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028399, intron 2 of 8)	intron (NM_028399, intron 2 of 8)	11890.0	NM_028399	72949.0	Mm.268672	NM_028399	ENSMUSG00000026349	Ccnt2	2900041I18Rik|C81304|CycT2|CycT2a|CycT2b	cyclin T2	protein-coding	26.5	54.5	28.5	668.0	92.0	41.0	61.5	45.0
Merged-chr2-154548904-4	chr2	154548803	154549003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029305)	promoter-TSS (NM_029305)	-1.0	NM_029305	75480.0	Mm.440434	NM_029305	ENSMUSG00000038523	1700003F12Rik	-	RIKEN cDNA 1700003F12 gene	protein-coding	243.5	365.5	210.0	3349.0	543.5	174.0	297.5	205.0
Merged-chr1-85838236-4	chr1	85838144	85838344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355046, intron 5 of 9)	intron (NM_001355046, intron 5 of 9)	44227.0	NM_001355047	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	77.5	106.0	63.0	1240.5	198.5	50.0	97.5	71.5
Merged-chr1-9597581-3	chr1	9597481	9597681	+	993.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015470, intron 3 of 4)	L1_Mus3|LINE|L1	-3686.0	NM_178399	76982.0	Mm.491098	NM_178399	ENSMUSG00000067879	3110035E14Rik	AI415019|AV164974|R75066	RIKEN cDNA 3110035E14 gene	protein-coding	23.0	20.5	22.5	238.0	19.0	1.0	5.5	5.0
Merged-chr2-119970814-3	chr2	119970742	119970942	+	875.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1857.0	NM_001355293	26390.0	Mm.330501	NM_011941	ENSMUSG00000033902	Mapkbp1	2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596	mitogen-activated protein kinase binding protein 1	protein-coding	6.0	9.5	2.5	103.5	16.0	4.5	7.0	5.5
Merged-chr2-90547509-4	chr2	90547402	90547602	+	790.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	33145.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	1.0	10.5	3.5	94.5	25.0	13.5	8.0	13.0
Merged-chr10-34279409-4	chr10	34279290	34279490	+	798.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2800.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	6.5	9.0	4.0	92.0	22.5	10.5	7.5	9.5
Merged-chr1-37492401-3	chr1	37492334	37492534	+	900.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 4 of 15)	intron (NM_173870, intron 4 of 15)	-3829.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	5.0	7.0	10.0	10.0	9.0	3.5	10.0	9.5
Merged-chr14-21683017-4	chr14	21682903	21683103	+	821.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013826, intron 3 of 3)	intron (NM_001013826, intron 3 of 3)	31573.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	13.5	9.5	11.0	172.0	22.5	3.0	9.5	6.0
Merged-chr5-140616843-4	chr5	140616747	140616947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9506.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	194.5	368.5	170.0	2656.0	457.5	169.0	177.0	140.5
Merged-chr17-74341475-7	chr17	74341370	74341570	+	909.414307	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357738, intron 1 of 15)	intron (NM_001357738, intron 1 of 15)	2483.0	NM_016962	50850.0	Mm.19804	NM_016962	ENSMUSG00000024068	Spast	Spg4|mKIAA1083	spastin	protein-coding	3.5	2.0	6.0	57.0	8.5	12.5	5.5	9.0
Merged-chr2-167463171-2	chr2	167463071	167463271	+	743.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001304542, intron 9 of 15)	intron (NM_001304542, intron 9 of 15)	-29474.0	NM_030743	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	5.0	15.0	4.5	43.5	25.0	3.0	4.5	13.0
Merged-chr8-119344437-4	chr8	119344360	119344560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024219)	promoter-TSS (NM_024219)	-78.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	164.0	240.5	108.0	2083.5	385.5	128.0	164.0	155.5
Merged-chr3-119815280-2	chr3	119815180	119815380	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-31892.0	NM_019550	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	5.0	5.5	7.5	196.0	11.5	5.0	4.5	14.0
Merged-chr9-37255682-4	chr9	37255587	37255787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020258)	promoter-TSS (NM_020258)	51.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	68.5	135.0	81.0	1175.5	194.0	70.0	59.0	57.5
Merged-chr3-158036590-4	chr3	158036487	158036687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289524)	promoter-TSS (NM_001289524)	52.0	NM_001093752	69207.0	Mm.223946	NM_026989	ENSMUSG00000055436	Srsf11	0610009J05Rik|2610019N13Rik|BF642805|Sfrs11	serine/arginine-rich splicing factor 11	protein-coding	129.5	152.0	108.0	1621.5	320.5	129.0	106.0	127.0
Merged-chr10-96343431-4	chr10	96343335	96343535	+	870.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	117228.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	7.0	6.0	23.5	254.0	24.5	5.0	14.5	15.5
Merged-chr1-172456137-4	chr1	172456048	172456248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19212.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	70.0	124.0	104.0	1329.5	203.5	77.5	108.5	79.0
Merged-chr2-118513137-4	chr2	118513033	118513233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31454.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	66.0	140.0	62.0	760.5	208.0	87.0	73.5	81.0
Merged-chr10-10744326-4	chr10	10744258	10744458	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114333, intron 5 of 9)	intron (NM_001114333, intron 5 of 9)	-6688.0	NR_046010	78056.0	Mm.271285	NR_046010	ENSMUSG00000112730	4930567K20Rik	1700038H22Rik	RIKEN cDNA 4930567K20 gene	ncRNA	36.5	19.5	25.5	492.5	68.5	25.5	26.5	19.5
Merged-chr2-33973609-4	chr2	33973503	33973703	+	820.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85657.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	9.5	10.0	12.5	69.0	31.0	9.0	14.0	17.0
Merged-chr10-128923536-1	chr10	128923436	128923636	+	1000.0	f0_c57.idr	promoter-TSS (NM_015740)	promoter-TSS (NM_015740)	-12.0	NM_015740	14533.0	Mm.30118	NM_015740	ENSMUSG00000090247	Bloc1s1	AI839753|BLOS1|Gcn5l1	biogenesis of lysosomal organelles complex-1, subunit 1	protein-coding	37.5	34.5	18.5	363.0	55.0	29.5	35.5	31.5
Merged-chr14-76402756-4	chr14	76402657	76402857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12204.0	NM_001310646	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	30.5	40.5	29.5	622.5	67.5	20.0	32.0	32.0
Merged-chr8-25067507-4	chr8	25067417	25067617	+	890.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 3 of 11)	intron (NM_031257, intron 3 of 11)	-28555.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	14.0	19.0	20.0	380.5	25.0	12.5	13.0	5.0
Merged-chr13-24318876-3	chr13	24318766	24318966	+	699.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8538.0	NM_001284519	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	11.0	10.0	13.0	95.5	10.5	7.0	5.0	12.0
Merged-chr6-124813717-4	chr6	124813602	124813802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009415, intron 1 of 6)	intron (NM_009415, intron 1 of 6)	594.0	NM_009415	21991.0	Mm.4222	NM_009415	ENSMUSG00000023456	Tpi1	AI255506|TIM|Tpi|Tpi-1	triosephosphate isomerase 1	protein-coding	44.0	63.5	26.0	741.0	109.5	26.5	78.0	54.0
Merged-chr16-92825398-4	chr16	92825312	92825512	+	988.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	662.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	12.0	19.5	28.0	293.5	49.0	16.5	20.0	23.5
Merged-chr16-4790137-4	chr16	4790028	4790228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358080)	promoter-TSS (NM_001358080)	164.0	NM_001358082	66626.0	Mm.157648	NM_025670	ENSMUSG00000004071	Cdip1	2700048O17Rik|5730403B10Rik|AU018521|AW742692|CDIP	cell death inducing Trp53 target 1	protein-coding	121.5	189.0	155.5	1402.0	229.0	104.0	104.5	120.5
Merged-chr14-22813497-4	chr14	22813400	22813600	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-270702.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	21.0	38.5	36.0	474.5	51.0	24.5	31.5	22.0
Merged-chr2-79048894-4	chr2	79048798	79048998	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	179220.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	15.0	44.0	13.0	271.0	53.5	32.5	24.5	14.0
Merged-chr6-72490639-4	chr6	72490542	72490742	+	813.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-51084.0	NM_145569	232087.0	Mm.29815	NM_145569	ENSMUSG00000053907	Mat2a	D630045P18Rik	methionine adenosyltransferase II, alpha	protein-coding	7.0	12.5	5.0	145.5	24.0	10.0	9.0	14.0
Merged-chr15-59520667-4	chr15	59520561	59520761	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-127993.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	13.0	20.0	8.0	217.0	31.5	17.0	13.5	5.0
Merged-chr19-45545147-4	chr19	45545051	45545251	+	896.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15413.0	NM_001330506	56626.0	Mm.46509	NM_020032	ENSMUSG00000025218	Poll	1110003P06Rik|AV007317	polymerase (DNA directed), lambda	protein-coding	12.5	14.0	15.5	187.0	36.0	16.0	23.0	10.5
Merged-chr15-100600130-4	chr15	100600068	100600268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304965)	promoter-TSS (NM_001304965)	-184.0	NM_001304965	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	33.5	46.0	16.0	276.0	105.0	38.0	31.0	35.5
Merged-chr3-14534342-4	chr3	14534243	14534443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163580, intron 1 of 18)	intron (NM_001163580, intron 1 of 18)	555.0	NM_001163580	71710.0	Mm.257449	NM_028915	ENSMUSG00000027550	Lrrcc1	1200008A14Rik|4932441F23Rik|AI195358|AI447421	leucine rich repeat and coiled-coil domain containing 1	protein-coding	63.0	62.0	58.0	1002.5	109.5	46.5	61.5	56.5
Merged-chr2-131479123-4	chr2	131479004	131479204	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	-12758.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	9.5	9.0	17.5	136.5	39.5	16.0	23.5	27.0
Merged-chr5-65984257-4	chr5	65984158	65984358	+	937.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17134.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	15.0	14.5	9.5	279.0	51.0	17.5	22.0	13.5
Merged-chr2-90940937-4	chr2	90940801	90941001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198683, intron 1 of 13)	CpG	504.0	NM_017368	13046.0	Mm.29495	NM_017368	ENSMUSG00000005506	Celf1	1600010O03Rik|AA407467|Brunol2|CUG-BP|CUG-BP1|CUGBP|Cugbp1|D2Wsu101e|HNAB50|NAB50	CUGBP, Elav-like family member 1	protein-coding	35.5	27.5	42.0	403.0	53.0	15.5	24.5	22.0
Merged-chr2-156960123-1	chr2	156960023	156960223	+	588.0	f0_balb.idr	intron (NM_001355394, intron 1 of 15)	Lx3_Mus|LINE|L1	31580.0	NM_001355391	29812.0	Mm.279256	NM_013865	ENSMUSG00000027634	Ndrg3	4833415O14Rik|AI747193|Ndr3	N-myc downstream regulated gene 3	protein-coding	11.0	15.0	4.0	55.0	21.0	7.0	7.0	8.0
Merged-chr4-97778482-6	chr4	97778403	97778603	+	954.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 1 of 10)	CpG	877.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	12.5	11.5	16.0	215.5	26.5	14.0	11.0	13.5
Merged-chr17-79355032-4	chr17	79354946	79355146	+	952.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026514)	promoter-TSS (NM_026514)	45.0	NM_026514	260409.0	Mm.140601	NM_026514	ENSMUSG00000036533	Cdc42ep3	3200001F04Rik|AA986861|Borg2|Cep3|UB1	CDC42 effector protein (Rho GTPase binding) 3	protein-coding	6.5	12.0	13.5	194.5	35.0	17.5	19.0	22.5
Merged-chr17-17448000-3	chr17	17447908	17448108	+	796.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025681, intron 4 of 5)	MIR|SINE|MIR	45322.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	11.5	12.0	5.0	106.5	11.5	5.0	8.0	5.5
Merged-chr4-87893156-4	chr4	87893054	87893254	+	590.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 2 of 10)	intron (NM_027326, intron 2 of 10)	-86831.0	NM_029931	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	7.5	5.0	5.5	90.0	18.0	11.0	8.0	11.0
Merged-chr3-109129920-4	chr3	109129859	109130059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172685, intron 1 of 9)	Lx8|LINE|L1	6810.0	NM_172685	229731.0	Mm.33574	NM_172685	ENSMUSG00000040322	Slc25a24	2610016M12Rik	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 24	protein-coding	49.0	83.0	81.0	1243.0	125.0	52.0	59.5	66.5
Merged-chr9-118705755-4	chr9	118705638	118705838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 15 of 27)	MTD|LTR|ERVL-MaLR	-5954.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	27.0	16.5	33.0	458.0	92.0	23.5	80.5	61.5
Merged-chr18-39416597-3	chr18	39416489	39416689	+	978.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 6 of 7)	intron (NM_008173, intron 6 of 7)	70656.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	34.5	32.0	13.0	396.0	26.5	11.0	17.0	16.0
Merged-chr18-69299847-4	chr18	69299747	69299947	+	858.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44645.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	12.0	16.0	7.0	242.5	19.0	4.0	14.5	13.5
Merged-chr1-16519877-4	chr1	16519752	16519952	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025303)	promoter-TSS (NM_025303)	-550.0	NM_001347045	29819.0	Mm.216257	NM_025303	ENSMUSG00000025920	Stau2	-	staufen double-stranded RNA binding protein 2	protein-coding	17.5	24.5	25.0	276.0	22.5	9.0	7.5	9.0
Merged-chr13-37333546-4	chr13	37333402	37333602	+	912.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11843.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	10.0	16.0	11.5	212.0	23.0	10.0	15.5	13.5
Merged-chr18-9503206-4	chr18	9503142	9503342	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53088.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	26.0	34.0	16.0	386.0	65.0	9.0	15.5	21.5
Merged-chr6-17508746-1	chr6	17508646	17508846	+	898.25	f0_balb.idr	intron (NM_008591, intron 3 of 21)	intron (NM_008591, intron 3 of 21)	44789.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	5.5	17.5	12.5	156.5	4.5	0.0	0.0	4.0
Merged-chr1-153492059-4	chr1	153491967	153492167	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4407.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	69.5	60.5	52.5	930.5	34.0	14.5	32.5	24.5
Merged-chr2-152029392-4	chr2	152029281	152029481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29515.0	NM_001164820	69698.0	Mm.258262	NM_027172	ENSMUSG00000027463	Slc52a3	2310046K01Rik|RFT2	solute carrier protein family 52, member 3	protein-coding	45.0	48.5	32.5	722.0	103.5	38.5	59.0	61.5
Merged-chr9-75094906-4	chr9	75094822	75095022	+	992.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010864, intron 1 of 40)	intron (NM_010864, intron 1 of 40)	23716.0	NM_010864	17918.0	Mm.3645	NM_010864	ENSMUSG00000034593	Myo5a	9630007J19Rik|AI413174|AI661011|Dbv|MVa|Myo5|MyoVA|Sev-1|d|d-120J|flail|flr	myosin VA	protein-coding	52.0	61.5	58.5	675.0	60.0	14.0	26.0	34.5
Merged-chr10-67318183-3	chr10	67318067	67318267	+	804.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32886.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	5.5	7.5	4.0	212.0	22.5	9.0	11.0	9.5
Merged-chr4-128611082-4	chr4	128610977	128611177	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177758)	promoter-TSS (NM_177758)	-979.0	NM_177758	269585.0	Mm.153291	NM_177758	ENSMUSG00000061894	Zscan20	C130001F22|Zfp31|Zkscan20	zinc finger and SCAN domains 20	protein-coding	54.5	61.5	17.5	279.5	82.0	13.5	4.5	23.0
Merged-chr1-186932121-3	chr1	186932034	186932234	+	725.527771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR51B_Mm|LTR|ERVK?	-35282.0	NM_033077	110957.0	Mm.108054	NM_033077	ENSMUSG00000039224	D1Pas1	Pl10	DNA segment, Chr 1, Pasteur Institute 1	protein-coding	0.0	0.0	0.0	9.0	23.5	8.0	6.0	8.5
Merged-chr17-34746807-4	chr17	34746708	34746908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2911.0	NM_009780	12268.0	Mm.477109	NM_009780	ENSMUSG00000073418	C4b	C4|Ss	complement component 4B (Chido blood group)	protein-coding	26.5	20.5	19.0	270.0	53.0	26.5	22.5	27.5
Merged-chr8-105171113-2	chr8	105171013	105171213	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001161458, intron 1 of 5)	CpG	439.0	NM_001161458	12400.0	Mm.2018	NM_022309	ENSMUSG00000031885	Cbfb	AI893578|PEA2|PEBP2b|Pebp2|Pebpb2	core binding factor beta	protein-coding	5.0	9.0	10.5	147.5	19.5	7.5	13.5	15.0
Merged-chr14-120277198-4	chr14	120277099	120277299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	1530.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	127.5	154.5	132.5	2523.5	308.0	92.5	186.0	114.5
Merged-chr11-106216886-4	chr11	106216771	106216971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026009)	promoter-TSS (NM_026009)	-55.0	NM_001361643	72047.0	Mm.41367	NM_028074	ENSMUSG00000020705	Ddx42	1810047H21Rik|AW319508|AW556242|B430002H05Rik|RHELP|RNAHP|SF3b125	DEAD (Asp-Glu-Ala-Asp) box polypeptide 42	protein-coding	96.0	167.0	80.5	1054.0	297.5	105.5	103.5	108.5
Merged-chr19-34666292-3	chr19	34666204	34666404	+	674.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25415.0	NM_008331	15957.0	Mm.439751	NM_008331	ENSMUSG00000034459	Ifit1	ISG56|Ifi56|P56	interferon-induced protein with tetratricopeptide repeats 1	protein-coding	5.0	8.5	12.0	98.5	16.5	7.5	0.0	0.5
Merged-chr8-125699771-4	chr8	125699672	125699872	+	887.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR41C|LTR|ERV1	29954.0	NM_028908	74393.0	Mm.41709	NM_028908	ENSMUSG00000050930	Map10	4933403G14Rik|AI835009|mKIAA1383	microtubule-associated protein 10	protein-coding	14.5	30.0	12.0	57.5	25.0	8.5	7.0	12.0
Merged-chr16-11053996-4	chr16	11053905	11054105	+	892.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12293.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	8.5	8.5	23.5	192.0	16.0	4.5	14.0	8.5
Merged-chr19-29367390-4	chr19	29367302	29367502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021893)	promoter-TSS (NM_021893)	-36.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	73.0	82.0	49.0	704.5	211.5	68.5	76.5	72.0
Merged-chr7-46033649-4	chr7	46033543	46033743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153057)	promoter-TSS (NM_153057)	-53.0	NM_153057	211548.0	Mm.274811	NM_153057	ENSMUSG00000030835	Nomo1	D7Ertd156e|Nomo|pM5	nodal modulator 1	protein-coding	173.0	274.0	211.0	2345.5	455.0	171.5	184.5	164.0
Merged-chr11-54954273-4	chr11	54954165	54954365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271456, intron 1 of 18)	intron (NM_001271456, intron 1 of 18)	8675.0	NM_021327	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	29.0	106.0	34.0	266.5	109.0	50.0	33.5	9.5
Merged-chr9-108649913-4	chr9	108649808	108650008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011790)	promoter-TSS (NM_011790)	-500.0	NM_001357286	23807.0	Mm.290447	NM_011790	ENSMUSG00000064145	Arih2	AI843547|ARI2|TRIAD1|UIP48	ariadne RBR E3 ubiquitin protein ligase 2	protein-coding	40.0	56.0	36.5	542.5	132.0	43.0	51.0	48.0
Merged-chr3-154269986-4	chr3	154269884	154270084	+	885.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081263, exon 22 of 22)	exon (NM_001081263, exon 22 of 22)	60576.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	11.5	22.5	16.5	226.5	22.0	9.5	15.5	11.5
Merged-chr7-25651454-4	chr7	25651356	25651556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007533, intron 1 of 8)	intron (NM_007533, intron 1 of 8)	7305.0	NM_007533	12039.0	Mm.25848	NM_007533	ENSMUSG00000060376	Bckdha	-	branched chain ketoacid dehydrogenase E1, alpha polypeptide	protein-coding	66.0	86.0	40.0	716.5	78.0	33.5	29.5	39.5
Merged-chr6-29245945-4	chr6	29245844	29246044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26544.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	219.0	399.5	319.5	4255.0	575.5	227.0	313.0	212.0
Merged-chr18-52598454-4	chr18	52598337	52598537	+	752.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17478.0	NM_025749	66758.0	Mm.251599	NM_025749	ENSMUSG00000046886	Zfp474	4933409D10Rik|Znf474	zinc finger protein 474	protein-coding	8.0	21.0	8.5	62.5	40.0	13.0	11.0	13.5
Merged-chr16-57569183-4	chr16	57569087	57569287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	MIR|SINE|MIR	19945.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	61.5	90.5	36.0	494.5	143.0	51.0	48.0	31.5
Merged-chr1-132140330-2	chr1	132140230	132140430	+	686.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008795)	promoter-TSS (NM_008795)	-645.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	5.5	8.5	5.5	40.5	19.5	2.0	10.0	5.5
Merged-chr6-108658579-4	chr6	108658462	108658662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104577, intron 1 of 6)	intron (NR_104577, intron 1 of 6)	-2067.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	146.0	243.0	280.5	3058.5	378.5	95.5	200.5	165.0
Merged-chr7-89500126-3	chr7	89499986	89500186	+	722.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17500.0	NM_029614	76453.0	Mm.250438	NM_029614	ENSMUSG00000039405	Prss23	2310046G15Rik|4930479H08Rik|AI790574|Spuve	protease, serine 23	protein-coding	8.0	19.5	6.5	175.5	5.5	6.0	5.0	3.0
Merged-chr5-24051273-1	chr5	24051173	24051373	+	626.0	f0_balb.idr	Intergenic	Intergenic	-20583.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	5.0	5.0	9.5	89.0	0.0	0.0	0.0	0.5
Merged-chr7-140941870-4	chr7	140941759	140941959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153832, intron 1 of 11)	intron (NR_153832, intron 1 of 11)	468.0	NM_145387	212974.0	Mm.260139	NM_145387	ENSMUSG00000062031	Pgghg	5730511L01Rik|Athl1|BC023151	protein glucosylgalactosylhydroxylysine glucosidase	protein-coding	106.5	186.5	108.0	944.0	259.5	127.0	142.5	104.5
Merged-chr6-50973537-3	chr6	50973446	50973646	+	978.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	197431.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	6.5	9.0	4.0	282.0	52.5	16.5	17.5	29.0
Merged-chr8-122913392-3	chr8	122913298	122913498	+	959.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 3 of 12)	intron (NM_001081379, intron 3 of 12)	65024.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	15.0	19.0	4.0	147.5	10.5	9.0	5.5	10.0
Merged-chr11-29810541-4	chr11	29810436	29810636	+	907.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 16 of 41)	intron (NM_146016, intron 16 of 41)	15132.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	9.0	14.0	5.0	128.5	34.5	7.5	17.0	12.0
Merged-chr4-45084630-4	chr4	45084517	45084717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024142)	promoter-TSS (NM_001024142)	-13.0	NM_001024142	269529.0	Mm.389552	NM_001024142	ENSMUSG00000048232	Fbxo10	FBX10|Gm634	F-box protein 10	protein-coding	78.5	135.5	82.0	1540.5	142.0	68.0	100.5	50.5
Merged-chr5-109558822-7	chr5	109558705	109558905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016715, exon 1 of 8)	exon (NM_016715, exon 1 of 8)	188.0	NM_016715	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	69.0	70.5	64.0	727.0	165.0	91.0	70.5	79.5
Merged-chr11-98937175-3	chr11	98937081	98937281	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177302)	promoter-TSS (NM_001177302)	-515.0	NM_009024	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	9.0	17.5	6.5	63.5	17.5	5.0	7.5	7.5
Merged-chr10-117709112-4	chr10	117709016	117709216	+	738.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288586, intron 2 of 10)	intron (NM_001288586, intron 2 of 10)	1642.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	8.0	9.5	13.5	170.0	26.5	12.0	10.5	19.5
Merged-chr14-34297166-4	chr14	34297054	34297254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153399, intron 2 of 11)	intron (NR_153399, intron 2 of 11)	13363.0	NR_153399	75698.0	Mm.45406	NM_029389	ENSMUSG00000041471	Fam35a	3110001K24Rik	family with sequence similarity 35, member A	protein-coding	40.0	49.5	33.5	552.5	75.5	32.5	23.5	45.5
Merged-chr7-49272586-4	chr7	49272455	49272655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 1 of 37)	B1F|SINE|Alu	26366.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	21.0	25.0	21.0	439.0	64.5	19.5	34.5	41.0
Merged-chr3-65958256-4	chr3	65958149	65958349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355432)	promoter-TSS (NM_001355432)	0.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	185.0	362.5	199.0	2642.0	477.0	196.0	238.0	198.0
Merged-chr7-142442847-4	chr7	142442765	142442965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009405, intron 1 of 5)	intron (NM_009405, intron 1 of 5)	397.0	NM_009405	21953.0	Mm.39469	NM_009405	ENSMUSG00000031097	Tnni2	-	troponin I, skeletal, fast 2	protein-coding	92.0	81.5	60.5	1181.0	198.5	71.5	91.5	104.5
Merged-chr8-46886366-4	chr8	46886261	46886461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100526.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	93.0	155.5	148.5	1545.5	194.0	86.5	99.5	111.0
Merged-chr13-20140239-4	chr13	20140150	20140350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	49743.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	43.0	80.0	29.5	542.5	130.0	57.0	65.0	37.0
Merged-chr2-128776645-4	chr2	128776506	128776706	+	890.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 10 of 18)	intron (NM_008587, intron 10 of 18)	-41697.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	9.5	8.5	10.0	129.0	24.0	8.0	5.5	14.5
Merged-chr10-128780375-4	chr10	128780281	128780481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10529.0	NM_001164197	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	84.5	107.0	92.5	1730.5	182.5	75.0	79.0	55.5
Merged-chr10-95680472-7	chr10	95680388	95680588	+	747.31427	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21B|LTR|ERVL	-116342.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	16.0	15.0	9.0	154.0	21.5	8.5	13.5	9.5
Merged-chr4-141652318-6	chr4	141652162	141652362	+	889.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	11853.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	3.5	8.0	0.5	41.0	10.5	5.5	8.5	5.5
Merged-chr17-86162094-4	chr17	86161991	86162191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5694.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	21.0	46.0	16.5	451.0	110.5	27.0	66.5	27.5
Merged-chr1-59482856-4	chr1	59482760	59482960	+	901.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008057, exon 1 of 1)	5' UTR (NM_008057, exon 1 of 1)	713.0	NM_008057	14369.0	Mm.297906	NM_008057	ENSMUSG00000041075	Fzd7	Fz7	frizzled class receptor 7	protein-coding	6.5	9.0	18.0	189.0	34.0	18.0	8.0	11.0
Merged-chr14-59297583-4	chr14	59297470	59297670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172603)	promoter-TSS (NM_172603)	-48.0	NM_172603	219131.0	Mm.254918	NM_172603	ENSMUSG00000044703	Phf11a	4933417L10Rik|Phf11|Phf11l	PHD finger protein 11A	protein-coding	34.5	52.0	56.5	424.5	87.0	25.5	61.0	55.5
Merged-chr9-78482546-4	chr9	78482456	78482656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010106)	promoter-TSS (NM_010106)	-832.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	23.0	33.5	20.0	360.5	29.5	23.0	23.5	35.0
Merged-chr14-31414898-4	chr14	31414803	31415003	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	2774.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	10.5	19.5	10.0	380.5	50.5	22.5	10.0	12.5
Merged-chr17-51220756-4	chr17	51220670	51220870	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41418.0	NM_001285991	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	11.5	3.5	4.0	135.0	38.0	18.0	13.0	12.0
Merged-chr3-96557280-2	chr3	96557180	96557380	+	746.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023719)	promoter-TSS (NM_023719)	-677.0	NM_023719	56338.0	Mm.410189	NM_023719	ENSMUSG00000038393	Txnip	1200008J08Rik|AA682105|Hyplip1|THIF|Tbp-2|VDUP1	thioredoxin interacting protein	protein-coding	4.0	3.0	2.0	6.5	5.5	4.5	6.0	12.0
Merged-chr11-64396508-1	chr11	64396408	64396608	+	627.0	f1_c57bl6.idr	Intergenic	Intergenic	-38824.0	NM_178870	15478.0	Mm.340214	NM_178870	ENSMUSG00000047759	Hs3st3a1	3Ost3a|Hs3st3a	heparan sulfate (glucosamine) 3-O-sulfotransferase 3A1	protein-coding	2.0	1.0	2.5	17.5	12.0	9.5	7.5	8.5
Merged-chr3-27228242-4	chr3	27228139	27228339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	intron (NM_178772, intron 3 of 4)	45235.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	69.0	68.0	89.5	1041.0	168.0	64.5	125.5	79.5
Merged-chr13-60356352-4	chr13	60356282	60356482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150911.0	NR_036449	100503759.0	Mm.38101	NM_177810	ENSMUSG00000050765	Gm5084	A030007L22|EG328264	predicted gene 5084	ncRNA	29.5	89.5	36.0	430.0	96.5	62.0	37.5	22.0
Merged-chr10-125749218-4	chr10	125749133	125749333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-216986.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	67.5	110.5	88.5	1455.0	192.0	64.5	146.0	112.0
Merged-chr1-74712989-5	chr1	74712832	74713032	+	933.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024264)	promoter-TSS (NM_024264)	-603.0	NM_024264	104086.0	Mm.85083	NM_024264	ENSMUSG00000026170	Cyp27a1	1300013A03Rik|Cyp27	cytochrome P450, family 27, subfamily a, polypeptide 1	protein-coding	14.5	7.5	5.0	156.0	22.5	8.5	14.0	15.0
Merged-chr7-127129844-4	chr7	127129743	127129943	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7814.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	10.0	6.0	10.0	182.5	38.5	5.5	9.0	16.0
Merged-chr2-131263483-2	chr2	131263383	131263583	+	859.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_149748, intron 1 of 8)	intron (NR_149748, intron 1 of 8)	644.0	NR_149748	74450.0	Mm.101264	NM_153501	ENSMUSG00000037514	Pank2	4933409I19Rik|AI642621	pantothenate kinase 2	protein-coding	8.5	15.5	5.0	58.0	15.0	2.5	3.5	5.5
Merged-chr17-21707701-4	chr17	21707624	21707824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008501)	promoter-TSS (NM_001008501)	-17.0	NM_001008501	240034.0	Mm.34723	NM_001008501	ENSMUSG00000067928	Zfp760	9430018I06|BC029103	zinc finger protein 760	protein-coding	80.0	111.5	82.5	1371.5	145.0	25.0	65.0	55.5
Merged-chr4-25273456-4	chr4	25273351	25273551	+	872.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026194, intron 6 of 18)	L1MC4|LINE|L1	8370.0	NM_026194	67490.0	Mm.226295	NM_026194	ENSMUSG00000040359	Ufl1	1810074P20Rik|AI429228|Kiaa0776|Maxer|Rcad|mKIAA0776	UFM1 specific ligase 1	protein-coding	11.0	9.5	14.0	181.5	19.0	8.0	16.5	15.5
Merged-chr7-45316312-2	chr7	45316212	45316412	+	570.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175130, intron 14 of 24)	intron (NM_175130, intron 14 of 24)	-8646.0	NR_110499	100040970.0	Mm.289810	NR_110499	ENSMUSG00000046721	Rpl14-ps1	Gm9811	ribosomal protein L14, pseudogene 1	pseudo	4.5	18.5	10.5	64.0	24.5	12.5	1.5	6.5
Merged-chr19-34607483-2	chr19	34607383	34607583	+	793.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005858)	promoter-TSS (NM_001005858)	-474.0	NM_001005858	667370.0	Mm.271850	NM_001005858	ENSMUSG00000062488	Ifit3b	I830012O16Rik	interferon-induced protein with tetratricopeptide repeats 3B	protein-coding	10.0	13.5	1.0	31.5	29.0	11.0	8.5	11.0
Merged-chr1-37474831-4	chr1	37474739	37474939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 5 of 15)	intron (NM_173870, intron 5 of 15)	13766.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	57.0	104.0	73.5	1127.0	179.0	66.0	72.5	67.5
Merged-chr4-34701721-4	chr4	34701607	34701807	+	950.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347062, intron 11 of 12)	ORR1E|LTR|ERVL-MaLR	-14269.0	NM_011895	24060.0	Mm.281885	NM_011895	ENSMUSG00000028293	Slc35a1	AA408150|AI314851	solute carrier family 35 (CMP-sialic acid transporter), member 1	protein-coding	19.0	17.0	20.0	320.5	44.0	28.5	16.5	6.0
Merged-chr13-12395844-3	chr13	12395724	12395924	+	936.7333369999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144835, exon 2 of 45)	exon (NM_144835, exon 2 of 45)	449.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	7.0	9.5	16.0	202.5	28.0	9.5	14.5	24.5
Merged-chr15-89211689-3	chr15	89211586	89211786	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027805, exon 1 of 8)	5' UTR (NM_027805, exon 1 of 8)	127.0	NM_027805	71474.0	Mm.184055	NM_026813	ENSMUSG00000036561	Ppp6r2	1110033O10Rik|8430411H09Rik|B230107H12Rik|Pp6r2|Saps2	protein phosphatase 6, regulatory subunit 2	protein-coding	16.0	21.0	18.5	266.5	58.5	17.0	19.5	17.5
Merged-chr13-98997234-4	chr13	98997125	98997325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12660.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	51.5	88.5	51.5	943.0	183.5	48.0	62.0	52.5
Merged-chr8-83185572-1	chr8	83185472	83185672	+	644.0	f0_balb.idr	intron (NM_001111304, intron 1 of 20)	intron (NM_001111304, intron 1 of 20)	20220.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	11.0	17.0	11.5	93.5	2.5	0.0	2.0	2.0
Merged-chr13-65278726-4	chr13	65278619	65278819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178364)	promoter-TSS (NM_178364)	-135.0	NM_178364	170936.0	Mm.151546	NM_178364	ENSMUSG00000021514	Zfp369	B930030B22Rik|D230020H11Rik|NRIF2	zinc finger protein 369	protein-coding	70.5	61.5	75.0	1070.0	114.5	45.0	118.0	80.5
Merged-chr13-81657681-4	chr13	81657585	81657785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030257)	promoter-TSS (NM_030257)	-121.0	NM_030257	80289.0	Mm.259969	NM_030257	ENSMUSG00000035840	Lysmd3	1110030H10Rik|BC003322	LysM, putative peptidoglycan-binding, domain containing 3	protein-coding	247.5	397.0	288.5	4129.0	622.0	252.0	334.0	247.0
Merged-chr11-76901792-3	chr11	76901696	76901896	+	597.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2749.0	NM_025655	66601.0	Mm.25138	NM_025655	ENSMUSG00000020839	Tmigd1	2010002A20Rik|Tmigd	transmembrane and immunoglobulin domain containing 1	protein-coding	6.5	7.5	5.0	76.0	4.5	2.5	4.5	6.0
Merged-chr7-16129687-2	chr7	16129554	16129754	+	652.900024	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_148946)	promoter-TSS (NM_148946)	-172.0	NM_001347561	110891.0	Mm.241147	NM_148946	ENSMUSG00000030376	Slc8a2	Ncx2	solute carrier family 8 (sodium/calcium exchanger), member 2	protein-coding	8.5	10.5	10.0	101.0	19.5	4.0	9.0	5.5
Merged-chr7-114439924-3	chr7	114439817	114440017	+	793.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 1 of 15)	intron (NM_011055, intron 1 of 15)	24663.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	4.0	8.0	6.0	122.5	33.0	6.5	6.0	6.5
Merged-chr15-86185928-6	chr15	86185840	86186040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145475, exon 1 of 13)	5' UTR (NM_145475, exon 1 of 13)	201.0	NM_145475	223753.0	Mm.222685	NM_145475	ENSMUSG00000035891	Cerk	AI848610|D330016D08Rik|mKIAA1646	ceramide kinase	protein-coding	35.5	52.5	100.0	1079.0	100.0	26.0	49.0	64.5
Merged-chr2-31082875-4	chr2	31082793	31082993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	13607.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	66.5	106.0	77.5	1032.5	156.5	50.0	50.0	46.5
Merged-chr13-8861134-4	chr13	8861028	8861228	+	962.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172445, exon 2 of 14)	exon (NM_172445, exon 2 of 14)	9916.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	22.0	18.0	13.0	510.5	72.5	18.5	15.5	16.5
Merged-chr7-81058895-3	chr7	81058796	81058996	+	929.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054085, intron 1 of 13)	intron (NM_054085, intron 1 of 13)	1296.0	NM_054085	116904.0	Mm.475768	NM_054085	ENSMUSG00000038763	Alpk3	AW319487|D330016D04|MAK|Midori|mKIAA1330	alpha-kinase 3	protein-coding	15.0	10.5	16.5	115.5	9.0	5.0	7.0	3.5
Merged-chr7-42642620-4	chr7	42642544	42642744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242388)	promoter-TSS (NM_001242388)	-40.0	NM_001242388	208111.0	Mm.387841	NM_001034857	ENSMUSG00000074158	Zfp976	9830147E19Rik|C330019L16Rik	zinc finger protein 976	protein-coding	53.5	24.0	28.5	576.5	99.0	42.0	56.5	35.5
Merged-chr11-59224633-4	chr11	59224515	59224715	+	844.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007476, intron 1 of 4)	intron (NM_007476, intron 1 of 4)	3547.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	10.0	16.0	5.0	184.0	13.5	14.0	13.5	5.0
Merged-chr15-97941519-4	chr15	97941425	97941625	+	813.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-22704.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	12.0	10.5	5.5	78.5	30.0	10.0	6.5	3.0
Merged-chr4-55925143-3	chr4	55925035	55925235	+	956.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-392660.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	20.5	4.5	9.5	318.0	18.5	2.0	8.5	15.5
Merged-chr1-171345620-4	chr1	171345498	171345698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360824)	promoter-TSS (NM_001360824)	47.0	NM_001242580	27045.0	Mm.12915	NM_012049	ENSMUSG00000013997	Nit1	AI255805|ESTM30|W57327	nitrilase 1	protein-coding	36.0	55.0	29.0	378.5	47.0	28.5	17.0	29.5
Merged-chr2-19049768-6	chr2	19049605	19049805	+	909.865051	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51386.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	10.5	6.0	8.5	84.5	31.0	7.0	6.0	7.0
Merged-chr9-78430686-4	chr9	78430576	78430776	+	973.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_125721, exon 5 of 5)	non-coding (NR_125721, exon 5 of 5)	12561.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	20.5	32.0	14.0	352.0	48.0	5.0	22.0	15.5
Merged-chr16-23609901-4	chr16	23609806	23610006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023386)	promoter-TSS (NM_023386)	-13.0	NM_023386	67775.0	Mm.475107	NM_023386	ENSMUSG00000033355	Rtp4	5830458K16Rik|Ifrg28	receptor transporter protein 4	protein-coding	81.0	133.0	59.0	1158.5	253.5	92.0	82.0	80.0
Merged-chr6-90515222-3	chr6	90515130	90515330	+	883.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35563.0	NM_001356412	107747.0	Mm.30035	NM_027406	ENSMUSG00000030088	Aldh1l1	1810048F20Rik|FDH|Fthfd|Neut2	aldehyde dehydrogenase 1 family, member L1	protein-coding	15.0	9.5	3.5	103.0	10.0	14.5	10.0	5.5
Merged-chr17-42449303-3	chr17	42449189	42449389	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355270, intron 2 of 2)	intron (NM_001355270, intron 2 of 2)	132689.0	NM_001355270	627626.0	Mm.390999	NM_028474	ENSMUSG00000042256	Ptchd4	3110082D06Rik|Gm321	patched domain containing 4	protein-coding	7.0	0.0	6.0	43.0	182.0	58.5	91.5	75.0
Merged-chr13-34216815-1	chr13	34216715	34216915	+	638.0	f0_c57.idr	intron (NM_001033167, intron 4 of 10)	MTC-int|LTR|ERVL-MaLR	53851.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	0.5	0.0	0.0	0.0	23.5	5.5	10.5	6.5
Merged-chr2-150915355-4	chr2	150915304	150915504	+	886.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 2 of 6)	intron (NM_027014, intron 2 of 6)	5810.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	9.5	17.5	3.0	118.5	23.0	6.0	5.0	6.5
Merged-chr13-34963822-4	chr13	34963674	34963874	+	720.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026947)	promoter-TSS (NM_026947)	35.0	NM_026947	69123.0	Mm.482475	NM_026947	ENSMUSG00000021416	Eci3	1810022C23Rik|Kseg2	enoyl-Coenzyme A delta isomerase 3	protein-coding	6.5	8.0	4.5	32.0	8.0	1.5	1.5	6.0
Merged-chr4-45342601-3	chr4	45342509	45342709	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153167, exon 1 of 7)	exon (NM_153167, exon 1 of 7)	508.0	NM_153167	242418.0	Mm.317668	NM_153167	ENSMUSG00000035572	Dcaf10	AA959934|Wdr32	DDB1 and CUL4 associated factor 10	protein-coding	16.0	27.0	34.5	335.0	51.5	31.0	30.5	36.5
Merged-chr3-19954157-4	chr3	19954070	19954270	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2884.0	NM_001276250	12870.0	Mm.13787	NM_007752	ENSMUSG00000003617	Cp	D3Ertd555e	ceruloplasmin	protein-coding	51.0	88.0	46.0	698.5	170.0	58.5	56.0	24.5
Merged-chr5-31241401-4	chr5	31241285	31241485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147201, intron 1 of 17)	GC_rich|Low_complexity|Low_complexity	467.0	NM_147201	192292.0	Mm.292040	NM_147201	ENSMUSG00000029148	Nrbp1	B230344L17Rik|Nrbp	nuclear receptor binding protein 1	protein-coding	83.0	122.0	63.5	1222.5	209.5	57.5	107.5	95.0
Merged-chr6-3397407-2	chr6	3397293	3397493	+	798.75	f0_c57.idr|f1_c57bl6.idr	intron (NM_010156, intron 1 of 1)	intron (NM_010156, intron 1 of 1)	2178.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	0.0	0.0	0.0	0.0	32.0	14.5	9.0	11.0
Merged-chr4-33246903-4	chr4	33246801	33247001	+	897.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033225, intron 1 of 1)	intron (NM_001033225, intron 1 of 1)	1886.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	4.5	10.0	18.0	132.0	26.0	6.0	9.0	11.0
Merged-chr10-13268274-4	chr10	13268147	13268347	+	836.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359294, intron 2 of 11)	GA-rich|Low_complexity|Low_complexity	56042.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	13.5	10.0	17.5	97.0	33.5	9.0	6.0	15.0
Merged-chr5-114784784-4	chr5	114784699	114784899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026718, intron 1 of 14)	intron (NM_026718, intron 1 of 14)	9659.0	NM_026718	68420.0	Mm.275554	NM_026718	ENSMUSG00000041870	Ankrd13a	1100001D10Rik|ANKRD13|AU046136	ankyrin repeat domain 13a	protein-coding	32.5	55.5	19.5	357.0	107.5	32.5	22.5	50.0
Merged-chr8-122557897-4	chr8	122557798	122557998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-6569.0	NM_001357349	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	54.0	53.0	69.5	995.5	60.0	36.5	31.5	48.5
Merged-chr4-62291327-4	chr4	62291237	62291437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290518)	promoter-TSS (NM_001290518)	-210.0	NM_001290518	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	35.5	48.0	41.5	458.5	165.5	58.0	50.0	40.0
Merged-chr9-50834164-3	chr9	50834045	50834245	+	801.518494	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045601, intron 13 of 13)	intron (NR_045601, intron 13 of 13)	-22779.0	NM_001034085	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	4.5	9.0	10.0	127.5	3.5	5.5	5.0	8.5
Merged-chr11-22841565-2	chr11	22841465	22841665	+	621.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	18170.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	5.0	5.5	6.5	94.5	9.0	3.5	6.5	2.5
Merged-chr7-140102331-4	chr7	140102216	140102416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001286217, exon 1 of 6)	exon (NM_001286217, exon 1 of 6)	125.0	NM_001286217	69064.0	Mm.41915	NM_026928	ENSMUSG00000025466	Fuom	Fucu|Le51	fucose mutarotase	protein-coding	26.5	40.5	24.0	280.0	38.5	12.5	21.0	24.0
Merged-chr9-107904908-4	chr9	107904777	107904977	+	988.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2012.0	NR_109782	19882.0	Mm.3901	NM_009074	ENSMUSG00000032584	Mst1r	CD136|CDw136|Fv-2|Fv2|PTK8|Ron|STK	macrophage stimulating 1 receptor (c-met-related tyrosine kinase)	protein-coding	22.5	38.5	9.0	297.0	64.0	15.5	23.0	37.5
Merged-chr7-64141026-4	chr7	64140909	64141109	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12826.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	24.0	19.5	15.0	359.5	87.0	13.0	23.5	22.0
Merged-chr3-41742545-4	chr3	41742449	41742649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291048)	promoter-TSS (NM_001291048)	-35.0	NM_001081411	67161.0	Mm.331001	NM_001081411	ENSMUSG00000059834	Sclt1	2610207F23Rik|4931421F20Rik|CAGGS-SB10|Tg(ACTB-sb10)1Dla|Tg(CAG-sb10)1Dla	sodium channel and clathrin linker 1	protein-coding	306.5	500.0	323.5	5431.5	838.0	311.5	483.5	347.5
Merged-chr3-90323437-4	chr3	90323351	90323551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18203.0	NM_139304	229542.0	Mm.270999	NM_139304	ENSMUSG00000042390	Gatad2b	AL118180|C430014D17Rik|P66beta|mKIAA1150	GATA zinc finger domain containing 2B	protein-coding	78.5	105.5	96.0	1355.5	235.0	68.5	81.0	68.5
Merged-chr3-99981221-1	chr3	99981121	99981321	+	769.0	f0_balb.idr	intron (NM_028892, intron 4 of 48)	GSAT_MM|Satellite|Satellite	95804.0	NM_028892	74362.0	Mm.55847	NM_028892	ENSMUSG00000027867	Spag17	4931427F14Rik|PF6|Spag17-ps	sperm associated antigen 17	protein-coding	20.5	11.5	18.0	396.0	6.0	1.5	0.0	8.5
Merged-chr10-17947401-4	chr10	17947296	17947496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033432, intron 1 of 3)	CpG	671.0	NM_001033432	380629.0	Mm.276430	NM_001033432	ENSMUSG00000039879	Heca	Gm869|HDC|HDCL	hdc homolog, cell cycle regulator	protein-coding	87.5	88.0	78.5	1255.0	211.0	62.5	106.0	67.5
Merged-chr15-96722462-4	chr15	96722365	96722565	+	839.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_Mus|LTR|ERVK	-22737.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	7.0	11.0	3.0	96.0	53.5	22.0	20.5	12.5
Merged-chr10-127604747-4	chr10	127604639	127604839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	16409.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	291.0	479.5	382.5	5317.5	549.0	217.0	323.5	280.5
Merged-chr15-50361959-4	chr15	50361849	50362049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	527100.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	20.5	49.0	50.0	672.5	65.5	17.5	18.5	32.5
Merged-chr1-6215366-4	chr1	6215225	6215425	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009826, intron 1 of 23)	CpG	663.0	NM_009826	12421.0	Mm.293811	NM_009826	ENSMUSG00000025907	Rb1cc1	2900055E04Rik|5930404L04Rik|Cc1|FIP200|LaXp180	RB1-inducible coiled-coil 1	protein-coding	13.5	24.5	22.0	263.5	34.0	19.5	18.0	17.5
Merged-chr2-169777416-1	chr2	169777316	169777516	+	1000.0	f0_c57.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	143770.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	2.5	0.0	0.0	0.0	46.5	7.0	30.5	27.5
Merged-chr1-97633072-4	chr1	97632973	97633173	+	936.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	28603.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	13.5	28.0	12.5	261.5	32.0	5.5	22.5	13.5
Merged-chr11-77982559-4	chr11	77982424	77982624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174852)	promoter-TSS (NM_174852)	-292.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	191.0	342.0	167.0	2011.5	617.0	227.0	240.0	218.5
Merged-chr19-3388267-2	chr19	3388167	3388367	+	990.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039658)	promoter-TSS (NM_001039658)	-590.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	12.5	10.0	0.0	56.0	19.5	6.0	14.0	5.5
Merged-chr1-38987686-4	chr1	38987615	38987815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026850)	promoter-TSS (NM_026850)	-99.0	NM_026850	68833.0	Mm.28121	NM_026850	ENSMUSG00000026078	Pdcl3	1110061A19Rik|C80025|Viaf1	phosducin-like 3	protein-coding	177.5	261.0	108.5	2330.0	447.0	162.5	205.0	177.5
Merged-chr5-147896698-2	chr5	147896613	147896813	+	686.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1898.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	8.0	4.5	1.5	44.5	15.0	5.5	8.5	8.5
Merged-chr18-57581815-4	chr18	57581721	57581921	+	926.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029290, intron 3 of 6)	intron (NM_029290, intron 3 of 6)	-29424.0	NR_015494	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	13.5	15.0	10.5	439.0	70.5	15.0	31.0	27.0
Merged-chr17-87301772-4	chr17	87301654	87301854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	L1MB2|LINE|L1	18868.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	150.0	181.0	134.0	2246.5	202.0	61.0	67.5	68.0
Merged-chr10-94116470-4	chr10	94116362	94116562	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 8 of 20)	intron (NM_053072, intron 8 of 20)	-31469.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	19.0	20.0	4.5	147.0	57.5	24.5	23.5	26.5
Merged-chr6-108723438-3	chr6	108723361	108723561	+	912.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59598.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	10.5	14.5	23.0	371.5	4.0	2.0	1.5	1.5
Merged-chr7-90029396-8	chr7	90029407	90029607	+	984.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 1 of 5)	intron (NR_110365, intron 1 of 5)	348.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	21.0	34.0	16.0	202.0	43.5	23.0	17.0	24.0
Merged-chr5-52461839-3	chr5	52461680	52461880	+	743.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001256059, intron 1 of 11)	URR1B|DNA|hAT-Charlie	9763.0	NM_001256059	100503884.0	Mm.332379	NM_001256059	ENSMUSG00000045790	Ccdc149	Gm447	coiled-coil domain containing 149	protein-coding	10.5	18.5	18.5	106.0	18.5	6.0	5.5	9.5
Merged-chr15-90669677-3	chr15	90669562	90669762	+	922.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033851, intron 1 of 3)	intron (NM_001033851, intron 1 of 3)	9726.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	14.5	19.0	14.5	297.5	20.5	11.0	7.5	6.0
Merged-chr13-95481594-4	chr13	95481510	95481710	+	838.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2955.0	NM_001081159	268686.0	Mm.291249	NM_001081159	ENSMUSG00000021679	S100z	Gm625	S100 calcium binding protein, zeta	protein-coding	8.0	14.5	1.0	95.0	62.0	19.5	23.0	13.5
Merged-chr9-100440451-7	chr9	100440344	100440544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46029.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	39.0	85.0	48.5	458.0	69.5	39.0	24.0	37.0
Merged-chr17-51788385-4	chr17	51788203	51788403	+	864.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357637, intron 5 of 10)	intron (NM_001357637, intron 5 of 10)	23751.0	NM_001163630	20230.0	Mm.311655	NM_009122	ENSMUSG00000023927	Satb1	2610306G12Rik|AW413156	special AT-rich sequence binding protein 1	protein-coding	16.0	7.0	6.0	127.0	12.5	8.5	3.0	8.5
Merged-chr19-53406027-4	chr19	53405957	53406157	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15423.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	29.0	47.0	34.5	240.0	27.5	12.0	10.5	3.0
Merged-chr19-9837134-4	chr19	9837033	9837233	+	963.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	62400.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	22.5	27.5	24.0	158.5	55.0	21.0	25.5	24.5
Merged-chr18-36512424-4	chr18	36512308	36512508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010415, intron 3 of 5)	intron (NM_010415, intron 3 of 5)	3397.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	85.0	128.0	76.5	1016.5	244.5	87.0	76.5	63.5
Merged-chr4-134852610-8	chr4	134852494	134852694	+	937.3229369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355499, intron 1 of 11)	CpG	751.0	NM_001355501	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	6.0	9.0	17.5	83.5	22.0	4.0	11.0	18.0
Merged-chr1-121462107-4	chr1	121462009	121462209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 9 of 23)	intron (NM_029955, intron 9 of 23)	31042.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	38.0	52.5	47.5	807.5	104.5	30.5	24.5	38.5
Merged-chr5-115533819-4	chr5	115533709	115533909	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	-25658.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	18.0	25.5	24.0	231.0	33.5	5.0	10.0	16.5
Merged-chr18-79759056-4	chr18	79758956	79759156	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-287839.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	16.0	7.0	21.0	466.5	59.5	25.0	20.5	23.0
Merged-chr17-33684826-4	chr17	33684741	33684941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145486)	TTS (NM_145486)	617.0	NM_001109913	76936.0	Mm.311439	NM_029804	ENSMUSG00000059208	Hnrnpm	2610023M21Rik|AA409009|Hnrpm|mKIAA4193	heterogeneous nuclear ribonucleoprotein M	protein-coding	27.5	37.5	34.0	420.5	76.5	39.5	32.0	48.5
Merged-chr1-178407019-2	chr1	178406919	178407119	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026626, intron 1 of 6)	intron (NM_026626, intron 1 of 6)	1001.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	8.0	9.0	8.5	80.5	25.5	7.5	7.5	10.0
Merged-chr6-71272029-2	chr6	71271929	71272129	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145568)	promoter-TSS (NM_145568)	10.0	NM_145568	57896.0	Mm.250569	NM_145568	ENSMUSG00000053012	Krcc1	AA792894	lysine-rich coiled-coil 1	protein-coding	33.5	46.5	43.0	603.0	51.5	25.5	28.0	22.5
Merged-chr13-6889631-4	chr13	6889560	6889760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-240889.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	140.5	181.5	122.0	833.0	249.0	86.5	139.0	117.5
Merged-chr1-138292276-4	chr1	138292166	138292366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18528.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	37.0	73.5	48.0	666.0	60.0	21.0	28.5	21.0
Merged-chr18-35562152-4	chr18	35562046	35562246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010771)	promoter-TSS (NM_010771)	-12.0	NM_010771	17184.0	Mm.215034	NM_010771	ENSMUSG00000037236	Matr3	1110061A14Rik|2810017I02Rik|AI841759|AW555618|D030046F20Rik|mKIAA0723	matrin 3	protein-coding	143.0	204.5	134.0	1719.5	354.5	139.5	151.0	131.5
Merged-chr16-33375633-4	chr16	33375507	33375707	+	866.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5129.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	15.0	21.5	15.0	118.0	14.0	13.0	17.5	18.0
Merged-chr10-115251431-4	chr10	115251354	115251554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025706)	promoter-TSS (NM_025706)	39.0	NM_025706	66687.0	Mm.22252	NM_025706	ENSMUSG00000020130	Tbc1d15	4432405K22Rik|AU022358|AU023730|AW557774|Ly6dl|Rab7-GAP	TBC1 domain family, member 15	protein-coding	103.5	215.0	80.0	1315.5	320.0	128.0	158.5	139.0
Merged-chr18-56433283-4	chr18	56433194	56433394	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	1162.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	18.5	22.0	20.5	313.5	55.0	18.5	26.5	23.0
Merged-chr8-95332076-7	chr8	95331954	95332154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024467)	promoter-TSS (NM_024467)	-104.0	NM_024467	79233.0	Mm.350514	NM_024467	ENSMUSG00000046556	Zfp319	AI225750|AI413472|Znf319|mKIAA1388	zinc finger protein 319	protein-coding	54.5	101.0	113.0	931.0	100.5	46.0	41.5	96.0
Merged-chr17-10356184-4	chr17	10356059	10356259	+	779.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31557.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	6.5	16.0	12.5	159.0	18.5	4.5	10.0	5.0
Merged-chr18-65698533-4	chr18	65698431	65698631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177028, intron 1 of 14)	intron (NM_177028, intron 1 of 14)	263.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	74.5	124.0	92.0	900.0	163.0	60.0	65.0	56.0
Merged-chr7-121075903-6	chr7	121075828	121076028	+	990.0277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021554, intron 4 of 4)	intron (NM_021554, intron 4 of 4)	-1398.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	16.0	32.5	23.5	243.5	52.5	17.0	18.0	15.0
Merged-chr9-115777291-3	chr9	115777185	115777385	+	961.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-132170.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	2.5	3.0	6.0	76.0	57.5	13.5	27.5	15.0
Merged-chr15-36323918-4	chr15	36323795	36323995	+	835.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40748.0	NM_001357631	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	11.5	20.5	17.0	204.0	19.0	5.0	7.5	12.0
Merged-chr14-75060732-4	chr14	75060617	75060817	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	44690.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	16.0	21.5	9.5	134.5	46.0	13.0	16.0	11.5
Merged-chr10-117629414-4	chr10	117629347	117629547	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027468)	promoter-TSS (NM_027468)	-53.0	NM_027468	70574.0	Mm.339332	NM_027468	ENSMUSG00000020183	Cpm	1110060I01Rik|5730456K23Rik|AA589379|E030045M14Rik	carboxypeptidase M	protein-coding	13.0	24.0	11.0	307.5	39.0	5.5	13.5	25.5
Merged-chr17-5730780-4	chr17	5730641	5730841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 7 of 8)	intron (NM_146073, intron 7 of 8)	-67916.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	117.0	240.5	165.5	1919.5	286.0	137.5	119.5	129.5
Merged-chr11-58938951-4	chr11	58938844	58939044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022423)	promoter-TSS (NM_022423)	-38.0	NM_022423	108660.0	Mm.249986	NM_022423	ENSMUSG00000020496	Rnf187	2410016F01Rik|AB030190|RACO-1	ring finger protein 187	protein-coding	42.5	69.0	54.5	934.5	120.0	52.0	75.0	80.0
Merged-chr10-8762112-3	chr10	8762005	8762205	+	848.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	123965.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	6.0	14.5	12.5	52.5	10.0	10.0	4.5	2.5
Merged-chr13-93996654-4	chr13	93996553	93996753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61143.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	63.0	92.0	57.5	1074.5	167.0	41.5	57.0	49.5
Merged-chr4-19576610-4	chr4	19576544	19576744	+	964.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025476, intron 1 of 9)	intron (NM_025476, intron 1 of 9)	1578.0	NM_025476	66302.0	Mm.440686	NM_025476	ENSMUSG00000028229	Rmdn1	Fam82b|RMD-1	regulator of microtubule dynamics 1	protein-coding	46.0	29.0	16.0	340.0	41.5	18.5	9.5	23.0
Merged-chr12-99333671-4	chr12	99333584	99333784	+	720.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 3 of 5)	intron (NM_183186, intron 3 of 5)	116390.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	6.0	8.5	5.5	123.0	33.0	8.0	13.0	7.0
Merged-chr12-38929122-4	chr12	38929013	38929213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	145402.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	33.0	27.5	56.0	529.5	57.5	23.5	32.0	27.0
Merged-chr13-64172326-4	chr13	64172222	64172422	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019986, intron 2 of 7)	intron (NM_019986, intron 2 of 7)	10456.0	NM_019986	56541.0	Mm.40989	NM_019986	ENSMUSG00000021476	Habp4	4933413D03Rik|4933428J01Rik	hyaluronic acid binding protein 4	protein-coding	4.5	12.0	17.0	265.5	47.5	9.0	23.0	20.0
Merged-chr10-78090242-4	chr10	78090152	78090352	+	908.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20884.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	17.0	14.0	15.0	235.5	44.0	10.0	14.5	26.5
Merged-chr4-62481425-4	chr4	62481314	62481514	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138653, intron 1 of 6)	intron (NM_138653, intron 1 of 6)	1347.0	NM_138653	192120.0	Mm.29808	NM_138653	ENSMUSG00000028392	Bspry	-	B-box and SPRY domain containing	protein-coding	17.0	38.5	20.0	344.0	61.0	18.5	27.5	24.0
Merged-chr18-35156914-4	chr18	35156817	35157017	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009818, intron 3 of 17)	MTE2b|LTR|ERVL-MaLR	38005.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	9.0	8.0	13.5	309.5	33.5	10.0	5.5	26.5
Merged-chr17-33931717-4	chr17	33931601	33931801	+	836.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009059, intron 2 of 17)	intron (NM_009059, intron 2 of 17)	1807.0	NM_009059	19732.0	Mm.43777	NM_009059	ENSMUSG00000041354	Rgl2	KE1.5|Rab2l|Rgt2|Rlf	ral guanine nucleotide dissociation stimulator-like 2	protein-coding	9.0	11.0	8.0	115.5	18.5	3.5	6.5	11.5
Merged-chr6-128839050-4	chr6	128838998	128839198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-12783.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	75.0	91.5	34.5	416.0	156.0	51.0	56.0	64.5
Merged-chr7-24886055-3	chr7	24885952	24886152	+	888.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360125, intron 3 of 5)	intron (NM_001360125, intron 3 of 5)	1139.0	NM_001360115	20085.0	Mm.300281	NM_023133	ENSMUSG00000040952	Rps19	Dsk3	ribosomal protein S19	protein-coding	9.5	20.0	19.5	50.5	18.0	5.0	14.5	3.5
Merged-chr15-57913000-4	chr15	57912920	57913120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356310, intron 1 of 19)	intron (NM_001356310, intron 1 of 19)	821.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	42.0	25.5	18.5	564.0	299.0	101.5	149.0	104.5
Merged-chr4-19838386-3	chr4	19838296	19838496	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028746, intron 2 of 3)	RMER19C|LTR|ERVK	19669.0	NM_028746	74087.0	Mm.173833	NM_028746	ENSMUSG00000041052	Slc7a13	0610009O04Rik|AGT-1|AGT1|XAT2	solute carrier family 7, (cationic amino acid transporter, y+ system) member 13	protein-coding	18.0	9.5	16.5	422.5	5.5	2.0	2.0	7.5
Merged-chr18-32395809-4	chr18	32395714	32395914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	MTD|LTR|ERVL-MaLR	-17530.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	29.0	47.5	34.0	432.0	70.0	21.0	38.0	50.5
Merged-chr6-34866441-4	chr6	34866345	34866545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197986, intron 1 of 1)	intron (NM_197986, intron 1 of 1)	3299.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	35.5	28.5	21.5	384.0	101.5	19.0	30.0	20.0
Merged-chr10-52382540-4	chr10	52382424	52382624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199272)	promoter-TSS (NM_001199272)	-400.0	NM_001199272	94221.0	Mm.390258	NM_053187	ENSMUSG00000019861	Gopc	2210402P09Rik|AI844555|CAL|FIG|GOPC1|PIST	golgi associated PDZ and coiled-coil motif containing	protein-coding	56.0	109.0	60.0	896.0	129.5	53.5	78.0	57.0
Merged-chr9-25519401-4	chr9	25519298	25519498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	37801.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	133.0	151.0	160.5	2339.0	265.0	84.0	125.0	122.5
Merged-chr14-70066170-4	chr14	70066063	70066263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11282.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	342.5	515.0	345.0	4226.0	779.0	306.0	411.0	345.5
Merged-chr4-87943176-4	chr4	87943081	87943281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 2 of 10)	intron (NM_027326, intron 2 of 10)	90226.0	NM_027326	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	29.0	24.0	37.0	781.5	102.0	21.5	45.0	51.0
Merged-chr1-191397655-3	chr1	191397562	191397762	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144880)	promoter-TSS (NM_144880)	-621.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	141.0	200.5	119.5	1705.5	363.0	113.0	197.5	149.0
Merged-chr6-82994274-6	chr6	82994092	82994292	+	996.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 4 of 9)	RSINE1|SINE|B4	39279.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	6.5	7.5	8.5	86.0	28.5	3.0	5.0	6.0
Merged-chr11-3158787-4	chr11	3158726	3158926	+	983.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 10 of 32)	B1_Mur1|SINE|Alu	34637.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	35.0	26.5	36.0	286.0	4.0	2.0	4.0	3.5
Merged-chr18-24603844-4	chr18	24603764	24603964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139143)	promoter-TSS (NM_139143)	-47.0	NM_139143	106957.0	Mm.21688	NM_139143	ENSMUSG00000024270	Slc39a6	Ermelin|Zip6	solute carrier family 39 (metal ion transporter), member 6	protein-coding	218.5	256.5	176.0	3665.0	404.0	180.0	262.0	266.0
Merged-chr17-15577530-4	chr17	15577424	15577624	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14201.0	NM_144809	213389.0	Mm.215162	NM_144809	ENSMUSG00000051977	Prdm9	BC012016|Dsbc1|G1-419-29|Meisetz|PRDM9-B|Rcr1|repro7	PR domain containing 9	protein-coding	25.5	46.0	19.5	559.5	49.5	11.0	22.0	15.0
Merged-chr12-101958862-4	chr12	101958770	101958970	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167914)	promoter-TSS (NM_001167914)	-627.0	NM_001167914	110616.0	Mm.271914	NM_029705	ENSMUSG00000021189	Atxn3	2210008M02Rik|AI463012|AI647473|ATX3|MJD1|Mjd|Sca3|ataxin-3	ataxin 3	protein-coding	15.5	27.5	32.5	479.5	94.5	31.0	35.0	17.5
Merged-chr16-17432775-2	chr16	17432675	17432875	+	631.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-19210.0	NM_001277231	12929.0	Mm.21048	NM_007764	ENSMUSG00000006134	Crkl	1110025F07Rik|AA589403|AI325100|Crkol	v-crk avian sarcoma virus CT10 oncogene homolog-like	protein-coding	8.0	11.5	5.5	68.0	26.0	5.0	5.0	5.0
Merged-chr8-84687021-6	chr8	84686910	84687110	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025788, intron 1 of 5)	intron (NM_025788, intron 1 of 5)	852.0	NM_025788	66830.0	Mm.289698	NM_025788	ENSMUSG00000001910	Nacc1	2010001H03Rik|4930511N13Rik|Btbd14b|Nac1	nucleus accumbens associated 1, BEN and BTB (POZ) domain containing	protein-coding	5.5	4.0	0.5	40.5	17.0	7.0	9.0	9.0
Merged-chr1-120072691-1	chr1	120072591	120072791	+	825.0	f1_balb.idr	intron (NM_019432, intron 1 of 1)	MIRc|SINE|MIR	1089.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	5.5	7.0	4.5	51.5	17.5	3.0	1.0	6.5
Merged-chr1-77823935-3	chr1	77823868	77824068	+	860.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-308880.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	3.0	1.5	4.5	99.5	7.5	4.5	5.5	5.5
Merged-chr17-57100578-4	chr17	57100465	57100665	+	726.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033508, intron 3 of 3)	ID_B1|SINE|B4	-4820.0	NM_009404	21950.0	Mm.41171	NM_009404	ENSMUSG00000035678	Tnfsf9	4-1BB-L|4-1BBL|AI848817|Cd137l|Ly63l	tumor necrosis factor (ligand) superfamily, member 9	protein-coding	4.0	13.5	1.5	120.5	32.0	6.0	11.0	16.5
Merged-chr4-46304941-4	chr4	46304836	46305036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-39258.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	43.5	65.5	36.5	699.0	83.0	34.5	40.0	45.5
Merged-chr12-32693117-3	chr12	32693006	32693206	+	878.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-127229.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	17.0	10.5	1.0	104.5	19.0	8.5	5.5	10.0
Merged-chr4-56802972-1	chr4	56802872	56803072	+	579.0	f0_balb.idr	promoter-TSS (NM_026079)	promoter-TSS (NM_026079)	-641.0	NM_026079	230233.0	Mm.282743	NM_026079	ENSMUSG00000028431	Ikbkap	3110040G09Rik|6030413P05|C78473|Elp1|IKAP	inhibitor of kappa light polypeptide enhancer in B cells, kinase complex-associated protein	protein-coding	10.5	21.0	7.0	65.5	26.5	8.0	3.0	1.5
Merged-chr7-89270668-4	chr7	89270564	89270764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 4 of 14)	intron (NM_001360746, intron 4 of 14)	68123.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	40.0	39.0	19.5	767.5	60.5	32.5	36.0	26.0
Merged-chr7-78912512-4	chr7	78912420	78912620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291220)	promoter-TSS (NM_001291220)	-904.0	NM_001291221	57444.0	Mm.322843	NM_020583	ENSMUSG00000039236	Isg20	1600023I01Rik|2010107M23Rik|20kDa|DnaQL|HEM45	interferon-stimulated protein	protein-coding	66.5	99.5	49.0	669.0	113.5	48.0	54.5	36.0
Merged-chr1-133424247-2	chr1	133424147	133424347	+	998.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011439)	promoter-TSS (NM_011439)	-35.0	NM_011439	20668.0	Mm.8575	NM_011439	ENSMUSG00000070643	Sox13	AA407916|AW259412|AW540933|Sox-13	SRY (sex determining region Y)-box 13	protein-coding	7.5	6.0	5.5	52.0	4.0	3.0	5.0	5.5
Merged-chr11-90224307-3	chr11	90224174	90224374	+	952.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-25202.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	10.0	8.5	10.0	244.0	11.5	3.5	6.5	9.0
Merged-chr2-73911342-4	chr2	73911241	73911441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175015)	promoter-TSS (NM_175015)	-15.0	NM_001301722	228033.0	Mm.2966	NM_175015	ENSMUSG00000018770	Atp5g3	6030447M23	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9)	protein-coding	70.5	103.0	45.0	868.0	209.5	72.5	73.5	82.0
Merged-chr13-35955522-1	chr13	35955422	35955622	+	603.5	f1_balb.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-12384.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	6.0	5.0	5.0	191.5	6.5	2.0	1.5	3.0
Merged-chr4-99386937-3	chr4	99386837	99387037	+	742.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	192790.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	2.5	3.0	16.0	102.0	14.0	6.0	13.0	5.0
Merged-chr16-57441238-4	chr16	57441150	57441350	+	927.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	87973.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	12.5	18.0	31.5	433.0	49.5	8.5	47.5	21.0
Merged-chr15-30468998-4	chr15	30468863	30469063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 2 of 21)	intron (NM_001355502, intron 2 of 21)	296370.0	NM_008729	18163.0	Mm.321648	NM_008729	ENSMUSG00000022240	Ctnnd2	Catnd2|Nprap|neurojugin	catenin (cadherin associated protein), delta 2	protein-coding	173.0	205.5	163.0	2834.5	527.0	176.0	238.5	245.0
Merged-chr11-102245300-4	chr11	102245183	102245383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3599.0	NM_153544	217216.0	Mm.247335	NM_153544	ENSMUSG00000034773	BC030867	-	cDNA sequence BC030867	protein-coding	62.0	72.5	56.0	910.5	203.0	88.5	63.0	109.5
Merged-chr1-138244640-4	chr1	138244514	138244714	+	901.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29124.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	11.5	17.0	18.5	350.0	47.5	12.5	18.0	19.0
Merged-chr18-7870798-3	chr18	7870721	7870921	+	813.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360956, intron 2 of 13)	PB1D7|SINE|Alu	1108.0	NM_001360956	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	7.0	5.0	6.0	90.0	11.0	4.0	7.5	12.5
Merged-chr5-105515508-4	chr5	105515384	105515584	+	951.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3987.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	34.0	37.0	31.0	542.5	65.0	11.5	8.0	21.0
Merged-chr11-77441768-4	chr11	77441644	77441844	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 12 of 14)	intron (NM_177710, intron 12 of 14)	-22169.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	19.0	14.0	12.0	323.0	38.5	9.5	16.0	25.5
Merged-chr3-104639044-3	chr3	104638955	104639155	+	971.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009196, intron 1 of 4)	CpG	391.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	14.5	14.0	25.0	233.0	30.0	9.5	11.5	16.5
Merged-chr15-99094067-3	chr15	99093953	99094153	+	815.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5431.0	NM_176835	72778.0	Mm.30544	NM_176835	ENSMUSG00000038009	Dnajc22	2810451A06Rik|AI506245	DnaJ heat shock protein family (Hsp40) member C22	protein-coding	2.0	6.0	9.5	53.0	12.5	6.5	13.0	13.5
Merged-chr1-144248429-4	chr1	144248341	144248541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015811, intron 2 of 4)	intron (NM_015811, intron 2 of 4)	663.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	27.5	46.0	24.0	424.0	70.0	29.0	23.5	34.0
Merged-chr10-24928192-4	chr10	24928129	24928329	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007482)	promoter-TSS (NM_007482)	-759.0	NM_007482	11846.0	Mm.154144	NM_007482	ENSMUSG00000019987	Arg1	AI|AI256583|Arg-1|PGIF	arginase, liver	protein-coding	8.5	12.0	29.5	253.5	27.5	23.5	20.0	20.5
Merged-chr8-94330907-4	chr8	94330776	94330976	+	911.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 2 of 24)	intron (NM_019415, intron 2 of 24)	1668.0	NM_001205311	20497.0	Mm.25804	NM_019415	ENSMUSG00000031766	Slc12a3	AI035291|NCC|NCCT|TSC	solute carrier family 12, member 3	protein-coding	9.5	11.5	4.5	151.5	47.0	9.5	7.5	18.5
Merged-chr19-59074982-4	chr19	59074886	59075086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 1 of 16)	intron (NM_001114312, intron 1 of 16)	1083.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	128.5	195.0	136.0	1694.5	294.5	104.5	95.5	109.0
Merged-chr13-104110195-4	chr13	104110115	104110315	+	857.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029447)	promoter-TSS (NM_029447)	474.0	NM_144838	218544.0	Mm.44416	NM_144838	ENSMUSG00000042743	Sgtb	C630001O05Rik	small glutamine-rich tetratricopeptide repeat (TPR)-containing, beta	protein-coding	17.5	16.0	14.0	241.5	54.5	21.5	13.0	25.0
Merged-chr5-115977869-4	chr5	115977764	115977964	+	964.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007708, intron 27 of 46)	ORR1D2|LTR|ERVL-MaLR	46564.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	12.0	33.0	30.0	489.5	43.5	34.0	32.0	18.0
Merged-chr3-103848452-1	chr3	103848352	103848552	+	774.0	f1_c57bl6.idr	intron (NM_001142960, intron 3 of 3)	RLTR22_Mus|LTR|ERVK	-11343.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	8.5	5.0	7.5	26.5	6.5	1.0	1.5	0.0
Merged-chr13-101850278-4	chr13	101850186	101850386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-82069.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	22.0	33.0	24.0	514.5	57.0	7.0	25.0	40.0
Merged-chr2-35444663-4	chr2	35444597	35444797	+	831.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	16752.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	11.0	10.5	10.5	157.0	13.0	8.5	11.5	10.0
Merged-chr2-6179927-4	chr2	6179818	6180018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-13333.0	NR_040333	320132.0	Mm.445891	NR_040333	ENSMUSG00000087125	A230108P19Rik	-	RIKEN cDNA A230108P19 gene	ncRNA	103.5	110.0	86.5	1648.0	99.5	36.0	78.5	70.0
Merged-chr15-59517039-3	chr15	59516934	59517134	+	764.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-131620.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	4.5	12.5	14.0	145.5	10.0	1.5	4.5	5.5
Merged-chr13-60608675-3	chr13	60608597	60608797	+	753.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	ORR1E|LTR|ERVL-MaLR	6486.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	4.5	7.0	8.0	70.0	1.5	1.0	3.5	2.5
Merged-chr8-94183364-4	chr8	94183251	94183451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4262.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	117.5	152.5	121.0	2200.0	277.0	103.0	116.0	124.0
Merged-chr15-50870317-4	chr15	50870224	50870424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	intron (NM_032000, intron 1 of 5)	18725.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	84.5	118.5	93.0	1770.5	217.0	71.5	110.0	88.5
Merged-chr6-99188639-3	chr6	99188533	99188733	+	671.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	77882.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	9.5	29.0	10.5	102.5	30.0	3.0	4.5	6.0
Merged-chr5-112210265-2	chr5	112210165	112210365	+	664.5	f1_balb.idr|f1_c57bl6.idr	TTS (NR_045377)	TTS (NR_045377)	3502.0	NR_045378	75569.0	Mm.243721	NR_045377	ENSMUSG00000101683	1700028D13Rik	-	RIKEN cDNA 1700028D13 gene	ncRNA	1.0	2.5	3.0	8.0	10.5	5.0	8.0	6.0
Merged-chr10-76032559-4	chr10	76032451	76032651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177475)	promoter-TSS (NM_177475)	-61.0	NM_177475	64453.0	Mm.80609	NM_177475	ENSMUSG00000049764	Zfp280b	D10Jhu82e|Suhw2	zinc finger protein 280B	protein-coding	137.5	174.5	129.0	2254.0	351.0	134.5	193.0	137.5
Merged-chr10-14207863-4	chr10	14207762	14207962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	241483.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	91.5	105.0	102.0	1548.0	164.5	77.0	92.5	77.0
Merged-chr2-124647887-4	chr2	124647771	124647971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	-5710.0	NM_199240	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	35.5	41.5	33.5	577.0	114.0	36.5	45.5	43.0
Merged-chr1-36568985-2	chr1	36568885	36569085	+	802.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	ID_B1|SINE|B4	-10604.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	3.0	3.5	2.0	30.0	39.0	8.0	7.0	5.5
Merged-chr5-76951630-4	chr5	76951536	76951736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172146)	promoter-TSS (NM_172146)	-58.0	NM_172146	231327.0	Mm.202337	NM_172146	ENSMUSG00000029246	Ppat	5730454C12Rik|AA408689|AA675351|AI507113|C79945	phosphoribosyl pyrophosphate amidotransferase	protein-coding	97.5	128.0	97.5	1581.5	322.5	102.5	150.0	130.5
Merged-chr8-111854370-4	chr8	111854258	111854458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011801)	promoter-TSS (NM_011801)	-48.0	NM_011801	23837.0	Mm.279437	NM_011801	ENSMUSG00000031954	Cfdp1	AA408409|Bcnt|Bucentaur|Cfdp|cp27	craniofacial development protein 1	protein-coding	211.5	261.0	160.0	2889.5	487.0	156.5	271.5	147.0
Merged-chr4-63823347-4	chr4	63823241	63823441	+	955.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR104_Mam|LTR|Gypsy	37943.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	25.5	8.0	6.5	281.5	23.0	17.0	18.0	22.5
Merged-chr5-66076943-4	chr5	66076926	66077126	+	818.59375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	21153.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	3.5	4.5	5.5	27.5	10.5	4.5	7.5	5.5
Merged-chr7-96849133-3	chr7	96849029	96849229	+	983.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 22 of 32)	L1MA5A|LINE|L1	-47580.0	NR_045874	791381.0	Mm.402112	NR_045874	ENSMUSG00000053049	Gm15413	-	predicted gene 15413	ncRNA	25.5	17.0	57.5	787.0	15.5	4.5	7.0	5.0
Merged-chr9-110071246-4	chr9	110071144	110071344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205330, intron 14 of 18)	intron (NM_001205330, intron 14 of 18)	19223.0	NM_001311164	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	26.5	33.5	37.5	420.5	63.0	14.0	32.0	26.5
Merged-chr10-20390779-3	chr10	20390687	20390887	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42968.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	2.0	7.5	7.5	123.0	8.0	5.0	4.5	12.5
Merged-chr19-45017510-4	chr19	45017419	45017619	+	931.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130526)	promoter-TSS (NM_001130526)	-616.0	NM_001130526	226154.0	Mm.28204	NM_145503	ENSMUSG00000035342	Lzts2	BC014695|LAPSER1|mKIAA1813	leucine zipper, putative tumor suppressor 2	protein-coding	15.0	28.0	33.5	198.5	28.0	11.0	15.5	14.5
Merged-chr1-127207262-5	chr1	127207048	127207248	+	852.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	2162.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	4.0	4.5	10.0	128.0	17.5	5.0	14.5	10.0
Merged-chr8-105477185-3	chr8	105477087	105477287	+	800.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175160, intron 6 of 13)	intron (NM_175160, intron 6 of 13)	-5765.0	NM_026481	67971.0	Mm.29358	NM_026481	ENSMUSG00000014846	Tppp3	2700055K07Rik|CGI-38|Ceacam9|mmCGM8	tubulin polymerization-promoting protein family member 3	protein-coding	11.0	4.5	6.0	71.0	10.0	7.0	8.0	8.5
Merged-chr6-106443396-3	chr6	106443357	106443557	+	781.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109749, intron 8 of 25)	intron (NM_001109749, intron 8 of 25)	305580.0	NM_008370	16192.0	Mm.3448	NM_008370	ENSMUSG00000005364	Il5ra	CD125|CDw125|Il5r	interleukin 5 receptor, alpha	protein-coding	6.0	9.5	13.5	214.5	14.5	7.0	6.5	3.5
Merged-chr17-56716995-4	chr17	56716913	56717113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178926)	promoter-TSS (NM_178926)	-92.0	NM_178926	106639.0	Mm.37290	NM_178926	ENSMUSG00000054723	Vmac	AI662250	vimentin-type intermediate filament associated coiled-coil protein	protein-coding	116.5	179.5	80.0	1328.0	425.0	144.5	124.0	158.5
Merged-chr1-155982929-3	chr1	155982848	155983048	+	886.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie10a|DNA|hAT-Charlie	-9693.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	5.5	5.5	2.0	8.0	21.5	15.0	4.5	19.0
Merged-chr2-128745976-4	chr2	128745853	128746053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	47038.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	72.0	108.0	61.0	1121.5	165.0	49.0	37.5	54.0
Merged-chr14-16367168-2	chr14	16367079	16367279	+	589.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_009409, intron 1 of 35)	B3|SINE|B2	1973.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	10.0	15.5	6.0	80.0	17.0	10.0	7.5	3.0
Merged-chr1-58797552-4	chr1	58797434	58797634	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009812, intron 1 of 8)	intron (NM_009812, intron 1 of 8)	2160.0	NM_009812	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	45.0	37.5	32.0	357.0	38.5	15.5	16.5	22.5
Merged-chr7-122132975-4	chr7	122132861	122133061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289845)	promoter-TSS (NM_001289845)	-15.0	NM_001289845	233826.0	Mm.38348	NM_172744	ENSMUSG00000044702	Palb2	BC066140	partner and localizer of BRCA2	protein-coding	174.5	260.5	184.5	1948.5	449.0	168.0	159.0	180.5
Merged-chr2-165993794-4	chr2	165993675	165993875	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	1138.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	17.5	19.5	22.0	295.0	44.0	16.0	17.0	22.0
Merged-chr7-14534128-4	chr7	14534043	14534243	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045120, intron 12 of 12)	intron (NR_045120, intron 12 of 12)	28028.0	NM_001244031	627280.0	Mm.372763	NM_001039146	ENSMUSG00000100586	Vmn1r90	B430211C08Rik	vomeronasal 1 receptor 90	protein-coding	26.0	26.5	33.0	378.5	45.0	16.5	14.5	24.5
Merged-chr3-136684726-3	chr3	136684631	136684831	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	14665.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	5.5	22.5	22.0	195.0	1.5	4.5	0.0	3.0
Merged-chr13-67527153-6	chr13	67527021	67527221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133228)	promoter-TSS (NM_133228)	-890.0	NM_133228	170763.0	Mm.491205	NM_133228	ENSMUSG00000097333	Zfp87	2210039O17Rik|4631412O18Rik|KRAB4|Mzf22|Zfp72	zinc finger protein 87	protein-coding	7.0	11.0	19.0	182.5	33.5	11.5	13.0	23.5
Merged-chr15-97213298-4	chr15	97213206	97213406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33801.0	NM_172293	239647.0	Mm.130036	NM_172293	ENSMUSG00000044250	Pced1b	Fam113b	PC-esterase domain containing 1B	protein-coding	41.0	59.0	32.0	642.0	104.5	38.5	54.5	33.0
Merged-chr4-8823339-3	chr4	8823240	8823440	+	886.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 7 of 36)	intron (NM_001355382, intron 7 of 36)	72016.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	10.0	5.5	11.0	134.0	8.0	0.0	5.0	6.5
Merged-chr5-121451384-4	chr5	121451263	121451463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026129, intron 1 of 2)	intron (NM_026129, intron 1 of 2)	1111.0	NM_026129	67397.0	Mm.154570	NM_026129	ENSMUSG00000029616	Erp29	1200015M03Rik|2810446M09Rik|AW209030|Erp28|Erp31|PDI-Db	endoplasmic reticulum protein 29	protein-coding	68.0	74.5	51.5	651.5	145.0	62.5	63.0	77.5
Merged-chr17-71526983-4	chr17	71526888	71527088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023294)	promoter-TSS (NM_023294)	-131.0	NM_023294	67052.0	Mm.225956	NM_023294	ENSMUSG00000024056	Ndc80	2610020P18Rik|AV139730|HEC|HEC1|Kntc2	NDC80 kinetochore complex component	protein-coding	164.0	302.0	206.5	2548.0	395.0	166.0	186.0	169.5
Merged-chr8-119437632-2	chr8	119437532	119437732	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027950, intron 1 of 5)	intron (NM_027950, intron 1 of 5)	470.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	16.0	26.5	8.0	105.0	45.5	22.5	14.0	16.5
Merged-chr17-21383748-4	chr17	21383655	21383855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172486)	promoter-TSS (NM_172486)	7.0	NM_172486	210503.0	Mm.33443	NM_172486	ENSMUSG00000062743	Zfp677	A830058L05Rik|Tce8	zinc finger protein 677	protein-coding	58.5	77.5	42.0	697.0	130.0	73.5	104.0	70.5
Merged-chr6-91705756-4	chr6	91705655	91705855	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	21688.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	28.0	159.5	33.5	223.5	155.5	71.0	42.5	25.0
Merged-chr4-108833653-4	chr4	108833539	108833739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027453)	promoter-TSS (NM_027453)	1.0	NM_027453	70533.0	Mm.379178	NM_027453	ENSMUSG00000028568	Btf3l4	4632412E09Rik|5730434I03Rik|AI316863|AU022207|AW552446	basic transcription factor 3-like 4	protein-coding	105.5	121.0	72.5	1096.5	252.0	93.0	130.0	100.5
Merged-chr5-123150332-4	chr5	123150181	123150381	+	940.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 6 of 16)	intron (NM_001040398, intron 6 of 16)	8088.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	16.0	12.0	5.5	74.5	34.5	14.0	15.5	21.5
Merged-chr14-40933331-6	chr14	40933233	40933433	+	972.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	intron (NM_145928, intron 2 of 8)	14876.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	4.0	11.5	15.0	163.5	15.0	10.0	5.5	14.5
Merged-chr10-120189961-4	chr10	120189855	120190055	+	686.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 1 of 11)	intron (NM_001359184, intron 1 of 11)	11642.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	10.0	9.0	6.0	73.0	19.5	8.0	13.5	17.0
Merged-chr6-113237731-4	chr6	113237635	113237835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026849)	promoter-TSS (NM_026849)	-108.0	NM_001362183	97287.0	Mm.197816	NM_026849	ENSMUSG00000030269	Mtmr14	1110061O04Rik|AW553738|C76151	myotubularin related protein 14	protein-coding	193.5	296.0	157.5	2781.0	437.5	196.5	190.0	203.0
Merged-chr12-35039795-4	chr12	35039704	35039904	+	966.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7385.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	39.5	44.0	32.0	545.0	49.0	17.5	15.0	21.0
Merged-chr8-83535932-3	chr8	83535823	83536023	+	877.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5170.0	NM_146270	258267.0	Mm.377401	NM_146270	ENSMUSG00000047286	Olfr370	MOR267-16|MOR26716	olfactory receptor 370	protein-coding	15.5	22.5	9.5	222.5	2.5	2.0	0.0	1.5
Merged-chr15-25940555-4	chr15	25940448	25940648	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025459)	promoter-TSS (NM_025459)	-154.0	NM_001277315	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	17.0	22.0	29.0	287.0	19.0	4.0	25.0	16.5
Merged-chr10-115332611-3	chr10	115332516	115332716	+	981.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	-17025.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	17.0	9.5	24.0	212.5	9.0	2.5	7.5	10.5
Merged-chr6-100833562-4	chr6	100833480	100833680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182939)	promoter-TSS (NM_182939)	-58.0	NM_182939	232314.0	Mm.27223	NM_182939	ENSMUSG00000052144	Ppp4r2	BE691708|C230060M08Rik	protein phosphatase 4, regulatory subunit 2	protein-coding	103.0	136.0	84.0	1753.0	273.5	82.0	128.5	104.0
Merged-chr12-17554331-4	chr12	17554260	17554460	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9487.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	22.5	23.0	27.0	263.0	50.0	12.5	19.0	8.5
Merged-chr14-20846339-4	chr14	20846219	20846419	+	880.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9657.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	5.5	21.0	13.5	143.5	21.0	9.0	10.5	11.5
Merged-chr16-4894389-4	chr16	4894283	4894483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	8283.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	30.0	71.5	31.5	398.0	84.5	40.5	29.5	26.5
Merged-chr16-44832493-4	chr16	44832401	44832601	+	952.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207244, intron 2 of 5)	intron (NM_207244, intron 2 of 5)	11773.0	NM_207244	239849.0	Mm.445045	NM_207244	ENSMUSG00000062082	Cd200r4	F630107N04Rik|MCD200RLa	CD200 receptor 4	protein-coding	16.0	12.5	22.5	219.5	45.0	9.0	12.5	16.0
Merged-chr8-110266928-2	chr8	110266828	110267028	+	967.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172916)	promoter-TSS (NM_172916)	-49.0	NM_172916	244653.0	Mm.444803	NM_172916	ENSMUSG00000059854	Hydin	1700034M11Rik|4930545D19Rik|4932703P14|672398|A830061H17|AC069308.21gm4|Gm9558|hy-3|hy3|hyrh	HYDIN, axonemal central pair apparatus protein	protein-coding	8.5	4.0	1.0	53.0	12.5	8.5	9.0	10.5
Merged-chr9-78191924-4	chr9	78191831	78192031	+	835.770813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010357)	promoter-TSS (NM_010357)	-35.0	NM_010357	14860.0	Mm.2662	NM_010357	ENSMUSG00000032348	Gsta4	GST5.7|mGsta4	glutathione S-transferase, alpha 4	protein-coding	11.0	11.0	8.0	124.0	29.0	18.5	11.5	9.5
Merged-chr8-57511715-4	chr8	57511613	57511813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008252)	promoter-TSS (NM_008252)	-130.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	521.0	778.5	630.5	9038.5	1076.5	389.5	539.5	396.0
Merged-chr14-31131034-4	chr14	31130939	31131139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2109.0	NM_001308464	66487.0	Mm.379116	NM_001308091	ENSMUSG00000058351	Smim4	2010107H07Rik|Gm41122	small integral membrane protein 4	protein-coding	46.0	78.0	47.0	677.5	121.5	43.5	85.0	34.0
Merged-chr16-22121372-4	chr16	22121294	22121494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	L1MA5|LINE|L1	41905.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	18.5	58.5	31.0	751.5	142.0	28.5	40.5	74.5
Merged-chr1-150395812-3	chr1	150395731	150395931	+	850.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133780, intron 3 of 51)	RMER6B|LTR|ERVK	-2751.0	NM_001357579	226499.0	Mm.222093	NM_145511	ENSMUSG00000006010	BC003331	1810053E15Rik|Odr4|odr-4	cDNA sequence BC003331	protein-coding	12.5	11.0	8.0	72.0	20.0	8.0	5.0	6.0
Merged-chr2-91650617-2	chr2	91650517	91650717	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033451)	promoter-TSS (NM_001033451)	499.0	NR_027371	228359.0	Mm.22413	NM_146124	ENSMUSG00000027247	Arhgap1	B230365D05Rik|C76222|Cdc42GAP|p50rhoGAP	Rho GTPase activating protein 1	protein-coding	7.5	12.0	5.5	131.5	7.0	1.0	4.0	7.0
Merged-chr1-191097264-4	chr1	191097155	191097355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1159.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	23.0	35.0	22.0	280.5	74.0	22.0	19.0	18.5
Merged-chr14-60830279-4	chr14	60830171	60830371	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027436, intron 12 of 18)	MTD|LTR|ERVL-MaLR	45705.0	NR_040642	70478.0	Mm.274650	NM_027436	ENSMUSG00000021993	Mipep	5730405E07Rik|MIP	mitochondrial intermediate peptidase	protein-coding	11.5	21.0	13.5	321.0	70.5	15.5	40.0	26.5
Merged-chr16-21913555-4	chr16	21913453	21913653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172821, intron 8 of 12)	Lx8b|LINE|L1	21584.0	NM_172821	71751.0	Mm.420837	NM_172821	ENSMUSG00000033618	Map3k13	C130026N12Rik|LZK	mitogen-activated protein kinase kinase kinase 13	protein-coding	78.5	77.5	19.5	701.5	152.5	57.5	56.0	77.5
Merged-chr4-136021793-4	chr4	136021695	136021895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013736)	promoter-TSS (NM_013736)	-146.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	181.0	279.0	126.5	1700.5	496.0	176.0	164.5	178.0
Merged-chr15-98092816-2	chr15	98092716	98092916	+	753.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163488, intron 1 of 22)	CpG	227.0	NM_001163488	18642.0	Mm.272582	NM_021514	ENSMUSG00000033065	Pfkm	AI131669|ATP-PFK|PFK-A|PFK-M|Pfk-4|Pfk4|Pfka|Pfkx	phosphofructokinase, muscle	protein-coding	5.0	6.0	6.0	26.5	9.5	8.5	7.0	8.0
Merged-chr11-120630112-4	chr11	120629968	120630168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010756, intron 1 of 2)	intron (NM_010756, intron 1 of 2)	3479.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	16.0	18.5	18.5	115.0	47.0	19.5	17.5	26.0
Merged-chr17-6006324-4	chr17	6006231	6006431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357667, intron 6 of 24)	intron (NM_001357667, intron 6 of 24)	-1249.0	NM_001290698	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	98.5	119.5	71.0	1597.5	212.0	76.0	85.0	102.0
Merged-chr11-14443530-3	chr11	14443427	14443627	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10-int|LTR|ERVK	155698.0	NR_045918	73307.0	Mm.399291	NR_045918	ENSMUSG00000085561	1700046C09Rik	-	RIKEN cDNA 1700046C09 gene	ncRNA	0.0	0.0	0.0	19.0	119.0	34.5	41.5	34.0
Merged-chr1-71735745-4	chr1	71735653	71735853	+	946.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82418.0	NR_040308	100042814.0	Mm.405775	NR_040308	ENSMUSG00000073652	Apol7d	Gm15456	apolipoprotein L 7d	ncRNA	16.0	7.5	22.0	203.5	26.5	11.5	23.0	17.0
Merged-chr15-32766462-4	chr15	32766345	32766545	+	717.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155440, intron 1 of 1)	intron (NR_155440, intron 1 of 1)	6707.0	NR_155440	105245909.0	Mm.229263	NR_155440	ENSMUSG00000115749	Gm41289	-	predicted gene, 41289	ncRNA	4.5	11.0	15.0	164.5	29.0	9.0	10.5	7.5
Merged-chr1-87042232-3	chr1	87042093	87042293	+	723.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172157, intron 15 of 21)	intron (NM_001172157, intron 15 of 21)	47735.0	NM_007433	11650.0	Mm.195224	NM_007433	ENSMUSG00000026246	Alppl2	Akp5|C77216|D1Ertd816e|EAP	alkaline phosphatase, placental-like 2	protein-coding	5.5	5.0	8.5	61.5	15.5	2.0	9.0	4.0
Merged-chr11-117725117-4	chr11	117725014	117725214	+	871.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 5 of 21)	intron (NM_198022, intron 5 of 21)	54534.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	13.5	16.5	20.0	272.5	18.5	12.0	3.5	9.0
Merged-chr1-106171545-4	chr1	106171435	106171635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040630)	promoter-TSS (NR_040630)	-11.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	316.5	512.0	426.5	4915.5	900.0	321.5	416.0	323.0
Merged-chr18-83817614-4	chr18	83817497	83817697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	268965.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	31.5	50.0	58.0	453.0	126.0	33.0	35.5	32.5
Merged-chr3-31414138-4	chr3	31414126	31414326	+	962.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103907.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	24.5	18.5	39.5	317.0	42.0	6.5	16.0	8.0
Merged-chr9-78522040-4	chr9	78521934	78522134	+	922.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	-40310.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	19.0	26.0	15.0	259.0	31.5	8.0	23.0	20.5
Merged-chr7-122329296-3	chr7	122329191	122329391	+	909.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	40166.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	6.0	7.5	11.5	156.5	26.0	6.5	7.0	12.5
Merged-chr7-30194051-4	chr7	30193934	30194134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009795, exon 2 of 11)	exon (NM_009795, exon 2 of 11)	1119.0	NM_009795	12336.0	Mm.439782	NM_009795	ENSMUSG00000001794	Capns1	Capa-4|Capa4|Capn4|Cdps|Css1|D7Ertd146e	calpain, small subunit 1	protein-coding	20.0	68.5	43.0	345.0	77.0	30.5	39.5	44.0
Merged-chr5-54025827-4	chr5	54025738	54025938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	27315.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	42.5	54.0	37.0	541.5	74.0	29.5	25.0	26.5
Merged-chr18-70652351-4	chr18	70652218	70652418	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84026.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	12.0	22.5	30.0	405.5	77.0	18.0	41.5	26.5
Merged-chr5-137856600-3	chr5	137856516	137856716	+	752.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133209, intron 2 of 4)	intron (NM_133209, intron 2 of 4)	1433.0	NM_133209	170741.0	Mm.347593	NM_133209	ENSMUSG00000066684	Pilrb1	FDFACT|Fdact|Pilrb	paired immunoglobin-like type 2 receptor beta 1	protein-coding	12.0	9.5	8.5	81.5	11.5	3.5	4.5	7.5
Merged-chr13-99028737-3	chr13	99028638	99028838	+	733.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-44173.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	7.5	15.0	18.5	201.0	26.0	4.0	7.0	4.5
Merged-chr4-124802080-4	chr4	124801984	124802184	+	972.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008636)	promoter-TSS (NM_008636)	-465.0	NM_008636	17764.0	Mm.272397	NM_008636	ENSMUSG00000028890	Mtf1	MTF-1|Thyls	metal response element binding transcription factor 1	protein-coding	32.0	35.5	12.0	328.0	49.5	18.0	16.5	20.0
Merged-chr17-36123667-3	chr17	36123616	36123816	+	913.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-2272.0	NR_046286	15024.0	Mm.426031	NM_010395	ENSMUSG00000079491	H2-T10	H-2T10	histocompatibility 2, T region locus 10	protein-coding	0.0	0.0	0.0	0.0	33.0	8.0	5.0	13.0
Merged-chr1-10232431-4	chr1	10232277	10232477	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001102430, exon 1 of 38)	exon (NM_001102430, exon 1 of 38)	293.0	NM_001102430	211673.0	Mm.229141	NM_001102430	ENSMUSG00000067851	Arfgef1	ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200	ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited)	protein-coding	22.5	25.0	29.5	365.0	39.0	12.0	37.0	22.5
Merged-chr11-55463163-4	chr11	55463066	55463266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1958.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	31.0	45.0	36.0	576.5	94.0	24.0	58.0	32.5
Merged-chr7-31155987-4	chr7	31155898	31156098	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4827.0	NR_153431	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	9.0	22.5	18.0	154.5	33.0	10.5	19.5	7.5
Merged-chr17-10425532-1	chr17	10425432	10425632	+	801.0	f0_balb.idr	intron (NM_027032, intron 4 of 4)	intron (NM_027032, intron 4 of 4)	-30684.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	5.5	8.5	11.0	151.0	12.5	2.0	3.0	5.0
Merged-chr11-3863944-4	chr11	3863833	3864033	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152818)	promoter-TSS (NM_152818)	-30.0	NM_152818	74309.0	Mm.61022	NM_152818	ENSMUSG00000020435	Osbp2	1700095P05Rik|C630001G20Rik|Gm244|ORP-4|OSBPL1	oxysterol binding protein 2	protein-coding	27.5	21.5	22.5	418.5	49.5	14.5	22.0	27.5
Merged-chr2-173535457-4	chr2	173535368	173535568	+	947.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	12876.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	13.5	10.0	21.5	237.0	40.0	13.5	17.5	22.0
Merged-chr6-49267119-4	chr6	49267014	49267214	+	901.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3062.0	NM_001362188	101214.0	Mm.196598	NM_198102	ENSMUSG00000029817	Tra2a	1500010G04Rik|AL022798|G430041M01Rik|mAWMS1	transformer 2 alpha	protein-coding	16.0	9.0	12.5	163.0	49.5	14.5	11.5	22.0
Merged-chr5-92028900-1	chr5	92028800	92029000	+	574.0	f0_balb.idr	intron (NM_001276315, intron 6 of 12)	B4|SINE|B4	13796.0	NM_001276315	53886.0	Mm.44963	NM_016912	ENSMUSG00000029403	Cdkl2	5330436L21Rik|AI505225|KKIAMRE|Kkm	cyclin-dependent kinase-like 2 (CDC2-related kinase)	protein-coding	10.0	6.0	5.5	67.5	0.0	0.0	0.0	0.0
Merged-chr1-106815482-4	chr1	106815410	106815610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18785.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	89.5	135.0	96.5	2025.0	194.0	74.0	76.5	77.5
Merged-chr5-64342354-4	chr5	64342263	64342463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 17 of 18)	intron (NM_001289514, intron 17 of 18)	112006.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	70.0	113.5	57.5	1003.5	163.0	54.5	84.0	70.5
Merged-chr1-7114088-4	chr1	7113983	7114183	+	924.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183028, intron 1 of 5)	MLTR14|LTR|ERV1	25163.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	18.5	22.5	10.5	329.5	41.0	17.5	13.0	9.5
Merged-chr11-29707750-7	chr11	29707661	29707861	+	796.3095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_194051, exon 3 of 9)	exon (NM_194051, exon 3 of 9)	-10802.0	NM_024226	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	7.0	6.0	9.5	61.5	9.0	9.0	9.0	11.0
Merged-chr6-88057039-3	chr6	88056944	88057144	+	943.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11774.0	NM_009005	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	9.0	19.5	13.5	155.0	8.0	2.0	4.0	3.5
Merged-chr12-102385196-6	chr12	102385106	102385306	+	904.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 8 of 9)	intron (NM_177620, intron 8 of 9)	54607.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	11.5	7.0	6.0	135.5	13.0	8.5	2.5	1.0
Merged-chr11-115535996-2	chr11	115535896	115536096	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133354, intron 1 of 3)	CpG	234.0	NM_133354	170930.0	Mm.29923	NM_133354	ENSMUSG00000020738	Sumo2	SUMO-2|Smt3A|Smt3b|Smt3h2	small ubiquitin-like modifier 2	protein-coding	14.0	47.5	21.5	215.0	52.5	24.0	24.5	13.0
Merged-chr7-13034089-2	chr7	13033989	13034189	+	810.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_153796, intron 1 of 3)	intron (NR_153796, intron 1 of 3)	688.0	NM_001360733	68953.0	Mm.295670	NM_026885	ENSMUSG00000033916	Chmp2a	1500016L11Rik|mVps2	charged multivesicular body protein 2A	protein-coding	4.0	11.0	9.5	56.5	21.5	7.0	11.0	8.0
Merged-chr11-72205632-4	chr11	72205557	72205757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155065, intron 1 of 19)	intron (NR_155065, intron 1 of 19)	1825.0	NR_155065	74477.0	Mm.289697	NM_028963	ENSMUSG00000020807	4933427D14Rik	C85113|Kiaa0753|MNR	RIKEN cDNA 4933427D14 gene	protein-coding	22.0	59.5	18.0	463.5	88.0	27.0	34.5	31.0
Merged-chr2-173739331-4	chr2	173739231	173739431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019806, intron 1 of 5)	B1F|SINE|Alu	1760.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	114.0	142.0	117.5	2195.5	286.0	77.0	105.0	103.0
Merged-chr4-3938684-4	chr4	3938569	3938769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019969)	promoter-TSS (NM_019969)	-219.0	NR_104355	66433.0	Mm.27406	NM_181391	ENSMUSG00000042198	Chchd7	1810049H20Rik	coiled-coil-helix-coiled-coil-helix domain containing 7	protein-coding	392.5	596.0	487.0	5925.5	1083.0	397.0	547.0	396.5
Merged-chr12-102456611-4	chr12	102456486	102456686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-12548.0	NM_001199004	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	70.0	68.5	57.0	976.0	147.5	41.0	69.5	65.5
Merged-chr17-10704325-3	chr17	10704221	10704421	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	L1MEf|LINE|L1	135870.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	36.5	46.5	44.5	557.0	7.0	13.5	4.0	9.0
Merged-chr17-64602104-6	chr17	64601914	64602114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	CpG-6542	365.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	28.0	32.0	27.5	404.0	65.5	19.0	36.0	21.0
Merged-chr17-74717688-4	chr17	74717605	74717805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152817)	promoter-TSS (NM_152817)	-45.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	53.5	87.0	14.5	656.5	129.5	45.0	60.5	51.5
Merged-chr3-152905997-4	chr3	152905885	152906085	+	827.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	76222.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	10.5	8.5	11.5	211.5	27.5	11.5	5.0	14.5
Merged-chr10-63309182-4	chr10	63309094	63309294	+	896.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359484, intron 17 of 22)	intron (NM_001359484, intron 17 of 22)	29841.0	NM_019812	93759.0	Mm.351459	NM_019812	ENSMUSG00000020063	Sirt1	AA673258|SIR2L1|Sir2|Sir2a|Sir2alpha	sirtuin 1	protein-coding	11.5	22.5	3.5	125.5	37.0	11.5	13.0	16.5
Merged-chr19-56801120-3	chr19	56801015	56801215	+	812.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170757, intron 7 of 14)	intron (NM_170757, intron 7 of 14)	12568.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	8.0	15.0	14.5	174.0	15.5	6.5	12.5	3.5
Merged-chr15-50840651-4	chr15	50840535	50840735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 2 of 5)	MIR|SINE|MIR	48414.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	123.0	210.0	147.5	2678.0	288.0	91.0	116.0	90.0
Merged-chr5-123149834-4	chr5	123149722	123149922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 6 of 16)	intron (NM_001040398, intron 6 of 16)	7629.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	18.5	16.0	22.5	290.0	80.5	20.0	29.0	24.0
Merged-chr2-59137487-1	chr2	59137387	59137587	+	566.0	f0_balb.idr	intron (NM_001362394, intron 1 of 13)	intron (NM_001362394, intron 1 of 13)	23196.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	5.0	5.0	7.0	111.5	21.0	3.0	4.0	3.0
Merged-chr1-55525735-2	chr1	55525634	55525834	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	MTC|LTR|ERVL-MaLR	119788.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	10.0	14.5	22.0	285.0	19.5	5.0	5.0	5.0
Merged-chr8-10602641-3	chr8	10602542	10602742	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001319151, intron 33 of 34)	ORR1E|LTR|ERVL-MaLR	279812.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	11.5	17.5	9.5	135.5	6.0	2.0	4.0	1.5
Merged-chr16-36714363-4	chr16	36714289	36714489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 3 of 7)	RLTR28|LTR|ERVL	20411.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	37.0	61.0	22.5	583.0	73.5	45.0	42.5	26.5
Merged-chr9-110622827-4	chr9	110622708	110622908	+	842.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026012, intron 2 of 4)	intron (NM_026012, intron 2 of 4)	1585.0	NM_026012	67169.0	Mm.46680	NM_026012	ENSMUSG00000032491	Nradd	2610311B09Rik|BB104149|NRDD|NRH2|PLAIDD	neurotrophin receptor associated death domain	protein-coding	15.5	12.0	11.5	224.0	19.5	5.0	11.0	17.5
Merged-chr11-116018274-4	chr11	116018126	116018326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5507.0	NM_016905	14635.0	Mm.2820	NM_016905	ENSMUSG00000020766	Galk1	AA409894|GALK|Gk|Glk|Glk1	galactokinase 1	protein-coding	37.5	52.0	6.5	194.0	57.0	25.5	23.0	27.5
Merged-chr4-133463308-3	chr4	133463216	133463416	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16817.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	37.5	58.0	80.5	809.5	14.0	3.0	2.5	5.0
Merged-chr3-81054275-4	chr3	81054173	81054373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	17857.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	60.5	86.5	58.0	1505.0	160.5	50.5	87.0	60.5
Merged-chr7-26244023-4	chr7	26243941	26244141	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22790.0	NM_001167540	100312477.0	Mm.480246	NM_001167540	ENSMUSG00000046130	Vmn1r184	-	vomeronasal 1 receptor, 184	protein-coding	49.0	29.5	36.0	645.0	74.0	22.0	12.5	16.0
Merged-chr7-19269796-5	chr7	19269584	19269784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009499, intron 1 of 12)	intron (NM_009499, intron 1 of 12)	2170.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	19.0	78.5	41.5	235.5	109.5	65.0	37.5	43.0
Merged-chr1-172341102-4	chr1	172341006	172341206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039484)	promoter-TSS (NM_001039484)	-104.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	42.5	86.5	68.5	923.5	127.5	51.0	56.5	55.5
Merged-chr6-47943183-4	chr6	47943084	47943284	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027963)	promoter-TSS (NR_027963)	9.0	NR_027963	232785.0	Mm.482185	NR_027963	ENSMUSG00000072653	Zfp783	A230106D06Rik|Gm20494	zinc finger protein 783	ncRNA	34.5	35.5	25.0	469.5	58.0	23.5	47.5	19.0
Merged-chr8-35634112-4	chr8	35634031	35634231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-45111.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	90.0	160.5	109.5	2289.5	232.0	107.0	154.0	83.5
Merged-chr1-152554334-4	chr1	152554229	152554429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346119, exon 6 of 18)	exon (NM_001346119, exon 6 of 18)	70888.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	89.0	159.5	89.0	1613.0	202.0	59.0	80.5	108.5
Merged-chr13-23519091-4	chr13	23518991	23519191	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Gln-CAA|tRNA|tRNA	-11953.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	20.0	21.0	5.0	142.5	45.5	17.0	10.0	9.5
Merged-chr12-111040035-4	chr12	111039890	111040090	+	910.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198023, exon 2 of 12)	exon (NM_198023, exon 2 of 12)	192.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	17.0	6.5	15.0	153.0	33.5	16.0	10.5	16.0
Merged-chr16-49896376-4	chr16	49896276	49896476	+	921.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010581, exon 7 of 10)	exon (NM_010581, exon 7 of 10)	40722.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	9.0	18.0	11.5	148.0	41.0	17.5	17.0	14.0
Merged-chr19-9911464-6	chr19	9911361	9911561	+	860.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11928.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	10.5	16.5	7.0	186.5	39.5	7.5	12.0	8.0
Merged-chr17-37203064-3	chr17	37202994	37203194	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-5128.0	NM_001011518	258219.0	Mm.377382	NM_001011518	ENSMUSG00000043827	Olfr94	MOR256-32P	olfactory receptor 94	protein-coding	11.0	4.5	17.5	38.5	11.5	4.5	6.0	12.0
Merged-chr13-5868970-3	chr13	5868848	5869048	+	666.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011803, exon 4 of 4)	3' UTR (NM_011803, exon 4 of 4)	7459.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	19.0	30.5	12.5	45.0	22.5	15.0	2.0	5.5
Merged-chr11-113100875-2	chr11	113100807	113101007	+	740.25	f0_balb.idr|f0_c57.idr	intron (NR_015556, intron 1 of 2)	intron (NR_015556, intron 1 of 2)	100931.0	NR_015556	72386.0	Mm.266961	NR_015556	ENSMUSG00000087259	2610035D17Rik	-	RIKEN cDNA 2610035D17 gene	ncRNA	10.0	19.5	9.0	79.0	44.5	5.5	23.0	28.0
Merged-chr2-24304713-3	chr2	24304613	24304813	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13517.0	NM_153077	215274.0	Mm.218750	NM_153077	ENSMUSG00000046845	Il1f10	-	interleukin 1 family, member 10	protein-coding	8.0	5.5	9.5	168.0	11.5	3.5	8.0	10.0
Merged-chr13-21783935-4	chr13	21783900	21784100	+	894.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178207)	promoter-TSS (NM_178207)	-603.0	NM_178207	319153.0	Mm.390558	NM_178207	ENSMUSG00000101972	Hist1h3i	H3-H	histone cluster 1, H3i	protein-coding	6.5	23.5	10.0	76.0	28.0	15.5	10.5	10.5
Merged-chr2-103719099-3	chr2	103718996	103719196	+	742.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178890)	TTS (NM_178890)	42174.0	NM_153126	98956.0	Mm.288005	NM_153126	ENSMUSG00000027185	Nat10	AI429152	N-acetyltransferase 10	protein-coding	6.5	7.0	6.0	127.5	24.5	5.5	15.0	9.5
Merged-chr5-122401452-2	chr5	122401352	122401552	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 2 of 6)	B3|SINE|B2	9574.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	6.0	3.5	2.0	43.0	28.5	5.5	9.0	7.0
Merged-chr8-88175437-1	chr8	88175337	88175537	+	566.0	f0_balb.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-23776.0	NM_001164499	214627.0	Mm.491211	NM_001164497	ENSMUSG00000036779	Papd5	5730445M16Rik|5830428A09	PAP associated domain containing 5	protein-coding	6.5	9.0	4.5	96.5	0.0	1.0	0.5	0.0
Merged-chr3-15243898-7	chr3	15243796	15243996	+	999.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88406.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	26.5	21.5	59.5	984.5	45.5	9.5	22.5	12.0
Merged-chr4-86904258-3	chr4	86904188	86904388	+	747.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290543, intron 4 of 5)	intron (NM_001290543, intron 4 of 5)	29874.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	5.5	6.5	11.0	68.5	20.0	1.0	7.0	5.5
Merged-chr13-37249724-3	chr13	37249604	37249804	+	822.3444820000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95641.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	8.5	13.0	23.0	318.0	11.0	1.5	8.0	2.0
Merged-chr3-138145019-5	chr3	138144734	138144934	+	974.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348197, intron 1 of 8)	intron (NM_001348197, intron 1 of 8)	1035.0	NM_001348197	108943.0	Mm.471692	NM_175389	ENSMUSG00000004127	Trmt10a	3110023L08Rik|AA794508|Rg9mtd2|Rnmtd2	tRNA methyltransferase 10A	protein-coding	14.0	26.0	14.5	163.5	43.5	19.5	14.0	17.5
Merged-chr13-37346732-4	chr13	37346685	37346885	+	828.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	1440.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	12.0	10.5	4.0	100.5	24.5	5.5	15.0	9.5
Merged-chr1-84363045-4	chr1	84362948	84363148	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78403.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	22.0	33.5	27.5	281.0	49.5	23.0	18.0	19.0
Merged-chr12-35554434-3	chr12	35554352	35554552	+	989.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19463.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	20.5	18.0	20.5	178.5	23.0	5.0	10.0	4.0
Merged-chr17-47371612-2	chr17	47371512	47371712	+	864.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_183086, intron 1 of 6)	intron (NM_183086, intron 1 of 6)	2415.0	NM_183086	64657.0	Mm.216250	NM_183086	ENSMUSG00000034729	Mrps10	1110038B19Rik|AW743084|Rpms10	mitochondrial ribosomal protein S10	protein-coding	8.5	9.5	3.0	55.5	9.5	6.0	11.0	10.0
Merged-chr1-151025331-4	chr1	151025238	151025438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	UCON26|Unknown|Unknown	-31903.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	20.5	49.0	20.0	408.0	78.0	26.0	35.0	21.0
Merged-chr18-30503946-3	chr18	30503874	30504074	+	880.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	231109.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	5.5	7.5	13.0	112.0	32.0	3.5	3.0	4.5
Merged-chr5-91023334-3	chr5	91023229	91023429	+	873.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4188.0	NM_053087	71920.0	Mm.197319	NM_053087	ENSMUSG00000035020	Epgn	2310069M11Rik|epigen	epithelial mitogen	protein-coding	8.0	5.0	21.0	255.0	4.0	0.5	12.5	3.5
Merged-chr8-84823863-3	chr8	84823764	84823964	+	867.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033145, intron 1 of 1)	intron (NR_033145, intron 1 of 1)	-1041.0	NM_201227	23863.0	Mm.304252	NM_201227	ENSMUSG00000053226	Dand5	Cerl-2|Cerl2|Cerr2|Dte|GREM3|coco	DAN domain family member 5, BMP antagonist	protein-coding	7.0	13.0	2.0	90.0	15.5	7.0	9.5	10.0
Merged-chr2-116899740-2	chr2	116899640	116899840	+	735.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040335)	promoter-TSS (NR_040335)	-412.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	4.5	5.5	8.5	52.0	15.0	7.5	5.0	6.0
Merged-chr4-40971970-4	chr4	40971859	40972059	+	975.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290448, intron 1 of 15)	B3|SINE|B2	1016.0	NM_023739	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	16.5	45.5	6.5	217.0	64.0	16.0	17.0	20.5
Merged-chr14-70056334-4	chr14	70056299	70056499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 6 of 6)	intron (NM_028560, intron 6 of 6)	-21046.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	14.0	34.5	16.0	305.0	43.0	19.0	18.5	15.0
Merged-chr6-135980991-4	chr6	135980893	135981093	+	871.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008171, intron 4 of 14)	intron (NM_008171, intron 4 of 14)	192518.0	NM_008171	14812.0	Mm.436649	NM_008171	ENSMUSG00000030209	Grin2b	AW490526|GluN2B|NR2B|Nmdar2b	glutamate receptor, ionotropic, NMDA2B (epsilon 2)	protein-coding	6.5	8.0	4.5	181.0	66.0	27.0	29.0	21.5
Merged-chr17-34117380-7	chr17	34117294	34117494	+	952.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204973, intron 2 of 12)	B1_Mus1|SINE|Alu	2506.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	7.0	30.5	16.0	160.0	59.5	19.5	25.0	34.5
Merged-chr19-6942505-4	chr19	6942405	6942605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285453)	promoter-TSS (NM_001285453)	-55.0	NM_001177361	107173.0	Mm.276555	NM_207220	ENSMUSG00000024958	Gpr137	AI428855	G protein-coupled receptor 137	protein-coding	99.5	133.0	102.0	1395.5	217.0	90.0	108.0	89.0
Merged-chr4-63899341-4	chr4	63899249	63899449	+	863.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38065.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	16.5	15.5	31.5	461.0	22.0	6.5	16.5	10.0
Merged-chr11-8574745-4	chr11	8574647	8574847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	intron (NM_001083587, intron 4 of 30)	89788.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	60.5	96.5	63.0	1046.5	122.5	46.5	60.5	59.0
Merged-chr17-29459750-3	chr17	29459653	29459853	+	746.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31292.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	8.5	0.5	3.0	22.5	38.0	8.5	10.5	13.0
Merged-chr12-8771447-8	chr12	8771412	8771612	+	745.739563	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011519, exon 1 of 5)	5' UTR (NM_011519, exon 1 of 5)	116.0	NM_011519	20969.0	Mm.2580	NM_011519	ENSMUSG00000020592	Sdc1	AA408134|AA409076|CD138|Sstn|Synd|Synd1|syn-1	syndecan 1	protein-coding	4.5	7.5	7.5	51.0	19.0	3.5	3.5	6.0
Merged-chr5-136173772-4	chr5	136173707	136173907	+	972.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3151.0	NM_178751	269717.0	Mm.308396	NM_178751	ENSMUSG00000039747	Orai2	A730041O15Rik|Tmem142b	ORAI calcium release-activated calcium modulator 2	protein-coding	19.5	16.5	23.0	96.0	47.5	25.5	17.5	7.5
Merged-chr7-92551099-3	chr7	92550992	92551192	+	852.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10057.0	NM_025515	66365.0	Mm.21173	NM_025515	ENSMUSG00000030613	Ccdc90b	2310015N07Rik|C86558	coiled-coil domain containing 90B	protein-coding	4.0	16.0	3.5	87.5	7.5	4.5	9.0	8.0
Merged-chr15-103177230-4	chr15	103177133	103177333	+	831.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13949.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	8.5	18.5	12.0	124.5	23.0	14.5	14.5	21.0
Merged-chr3-106484142-3	chr3	106484038	106484238	+	962.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033207, intron 1 of 1)	intron (NR_033207, intron 1 of 1)	1688.0	NM_001278941	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	11.5	10.0	1.5	42.5	33.5	10.5	5.0	9.5
Merged-chr3-65929554-4	chr3	65929471	65929671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28678.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	131.5	222.5	109.0	1138.0	309.0	148.5	145.5	104.5
Merged-chr7-116530006-4	chr7	116529887	116530087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360375, intron 11 of 14)	ORR1B2|LTR|ERVL-MaLR	25618.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	51.5	64.5	44.0	980.0	127.0	64.5	103.0	50.5
Merged-chr11-75654173-4	chr11	75654073	75654273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080774, intron 1 of 31)	intron (NM_001080774, intron 1 of 31)	-1842.0	NM_001080775	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	189.5	241.0	141.0	1896.0	317.5	146.5	132.5	124.0
Merged-chr13-96106618-4	chr13	96106518	96106718	+	923.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029210, intron 1 of 12)	MLT1C|LTR|ERVL-MaLR	25959.0	NM_029210	75209.0	Mm.40436	NM_029210	ENSMUSG00000051111	Sv2c	4930527L09Rik|AI841971	synaptic vesicle glycoprotein 2c	protein-coding	9.5	14.0	5.5	143.0	30.5	25.5	30.5	21.5
Merged-chr18-89160033-4	chr18	89159927	89160127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37400.0	NM_178687	225825.0	Mm.139293	NM_178687	ENSMUSG00000034028	Cd226	BC051526|DNAM-1|DNAM1|Pta1|TLiSA1	CD226 antigen	protein-coding	48.5	72.5	40.5	305.5	116.5	42.5	54.0	39.0
Merged-chr1-55836880-4	chr1	55836779	55836979	+	949.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-94362.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	16.0	9.5	12.0	240.5	36.5	15.5	25.5	11.5
Merged-chr12-32656267-4	chr12	32656165	32656365	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-164070.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	13.0	10.5	8.0	146.0	29.5	6.5	19.0	19.5
Merged-chr12-111443740-3	chr12	111443680	111443880	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009396, intron 1 of 11)	intron (NM_009396, intron 1 of 11)	1119.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	13.0	77.0	41.0	242.0	93.0	29.0	42.5	29.5
Merged-chr12-26071765-3	chr12	26071684	26071884	+	819.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	138721.0	NR_131149	629481.0	Mm.390460	NR_131149	ENSMUSG00000113550	Gm29687	-	predicted gene, 29687	ncRNA	11.5	7.5	17.5	106.5	24.5	4.0	5.0	13.5
Merged-chr15-6425522-1	chr15	6425422	6425622	+	747.0	f0_balb.idr	intron (NM_001008702, intron 9 of 13)	intron (NM_001008702, intron 9 of 13)	-19811.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	9.5	5.5	6.0	111.0	12.0	3.0	5.0	5.5
Merged-chr11-120712940-2	chr11	120712840	120713040	+	945.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347612, intron 1 of 5)	intron (NM_001347612, intron 1 of 5)	827.0	NM_016665	20892.0	Mm.259716	NM_016665	ENSMUSG00000025144	Cenpx	Stra13	centromere protein X	protein-coding	7.0	2.0	8.5	41.5	24.5	6.5	7.5	6.0
Merged-chr2-148877595-4	chr2	148877478	148877678	+	889.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2066.0	NM_009976	13010.0	Mm.4263	NM_009976	ENSMUSG00000027447	Cst3	CysC	cystatin C	protein-coding	6.5	7.5	19.0	293.5	22.0	5.5	7.5	9.5
Merged-chr13-74639108-4	chr13	74639017	74639217	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030711)	promoter-TSS (NM_030711)	-736.0	NM_030711	80898.0	Mm.83526	NM_030711	ENSMUSG00000021583	Erap1	A-LAP|ARTS-1|Arts1|ERAAP|PILSA|PILSAP	endoplasmic reticulum aminopeptidase 1	protein-coding	20.0	45.0	20.5	581.0	64.5	21.0	20.5	12.0
Merged-chr11-62251235-4	chr11	62251124	62251324	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007413, intron 1 of 1)	intron (NM_007413, intron 1 of 1)	2240.0	NM_007413	11541.0	Mm.40740	NM_007413	ENSMUSG00000018500	Adora2b	A2BAR|A2BR|A2b|AA2BR|AI480866|AI605384	adenosine A2b receptor	protein-coding	26.0	42.0	36.5	434.0	56.0	13.5	15.5	19.5
Merged-chr2-28205585-4	chr2	28205503	28205703	+	920.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019498)	promoter-TSS (NM_019498)	-86.0	NM_001038612	56177.0	Mm.43278	NM_019498	ENSMUSG00000026833	Olfm1	AMY|AW742568|Noe1|OlfA|Pancortin|Pancortin3	olfactomedin 1	protein-coding	10.0	24.5	8.0	237.5	48.5	11.0	12.0	15.5
Merged-chr3-103102631-4	chr3	103102538	103102738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-24918.0	NM_177857	329727.0	Mm.293641	NM_177857	ENSMUSG00000007379	Dennd2c	A930010I20Rik	DENN/MADD domain containing 2C	protein-coding	104.0	118.0	103.5	1548.0	158.5	53.0	89.0	73.5
Merged-chr7-16046587-4	chr7	16046488	16046688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25257.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	56.0	76.5	45.5	712.0	118.0	32.5	53.0	60.0
Merged-chr11-5629322-4	chr11	5629214	5629414	+	797.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023816, exon 16 of 27)	exon (NM_023816, exon 16 of 27)	59630.0	NM_023816	76389.0	Mm.67300	NM_023816	ENSMUSG00000020481	Ankrd36	1700008J08Rik|1700012M14Rik|Ankrd48	ankyrin repeat domain 36	protein-coding	4.0	11.5	5.0	95.5	31.0	7.5	11.0	9.5
Merged-chr10-122597592-3	chr10	122597403	122597603	+	945.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27612.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	2.5	2.0	12.5	108.0	9.5	5.5	4.5	6.5
Merged-chr6-108661680-4	chr6	108661588	108661788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104577)	promoter-TSS (NR_104577)	-754.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	44.5	58.5	36.5	560.0	114.0	33.5	45.0	36.0
Merged-chr8-126705609-3	chr8	126705498	126705698	+	730.833313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112162.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	4.0	8.5	12.0	101.5	28.0	9.5	10.5	12.0
Merged-chr19-44104600-4	chr19	44104506	44104706	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162410, intron 1 of 20)	intron (NM_001162410, intron 1 of 20)	2871.0	NM_007700	12675.0	Mm.3996	NM_007700	ENSMUSG00000025199	Chuk	AI256658|Chuk1|Fbx24|Fbxo24|IKBKA|IKK alpha|IKK1|Ikka|NFKBIKA	conserved helix-loop-helix ubiquitous kinase	protein-coding	15.0	25.5	6.5	364.0	66.0	11.5	27.5	28.0
Merged-chr3-87214716-4	chr3	87214612	87214812	+	895.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-39965.0	NM_130867	170643.0	Mm.89552	NM_130867	ENSMUSG00000041734	Kirrel	6720469N11Rik|Kirrel1|Neph1	kirre like nephrin family adhesion molecule 1	protein-coding	4.0	10.0	8.0	112.0	43.5	10.0	24.0	24.5
Merged-chr11-8594778-4	chr11	8594685	8594885	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	URR1A|DNA|hAT-Charlie	69750.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	26.0	22.0	28.5	282.5	61.5	24.5	12.5	22.5
Merged-chr10-34030520-2	chr10	34030420	34030620	+	729.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7077.0	NM_001162937	692132.0	Mm.383415	NM_001162937	ENSMUSG00000071340	Trappc3l	Bet3l	trafficking protein particle complex 3 like	protein-coding	4.5	8.5	4.5	42.0	9.0	4.0	4.0	1.5
Merged-chr9-57585164-4	chr9	57585060	57585260	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022813, intron 7 of 8)	RSINE1|SINE|B4	-4292.0	NM_027895	71742.0	Mm.155877	NM_027895	ENSMUSG00000032308	Ulk3	1200015E14Rik	unc-51-like kinase 3	protein-coding	14.0	28.0	27.5	497.5	64.5	13.0	19.5	35.5
Merged-chr5-138848272-4	chr5	138848152	138848352	+	850.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28172.0	NM_001195128	384244.0	Mm.485002	NM_001195128	ENSMUSG00000094504	Gm5294	EG384244	predicted gene 5294	protein-coding	8.5	10.5	4.0	82.5	25.0	5.5	9.5	14.0
Merged-chr12-82470241-4	chr12	82470162	82470362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146663.0	NM_001310478	50779.0	Mm.126176	NM_015812	ENSMUSG00000021219	Rgs6	-	regulator of G-protein signaling 6	protein-coding	25.0	27.0	16.5	354.0	52.5	34.5	17.5	35.0
Merged-chr1-92976638-8	chr1	92976494	92976694	+	917.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271766, intron 1 of 1)	intron (NM_001271766, intron 1 of 1)	1247.0	NM_001271766	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	6.5	7.0	11.5	108.5	25.0	10.0	9.0	10.5
Merged-chr7-110689513-4	chr7	110689418	110689618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61861.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	71.5	155.0	64.5	646.0	211.5	75.5	81.5	42.0
Merged-chr17-73361229-4	chr17	73361119	73361319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033444, intron 4 of 22)	intron (NM_001033444, intron 4 of 22)	38077.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	70.0	63.0	78.5	1530.0	98.0	33.5	87.5	75.5
Merged-chr12-73632962-4	chr12	73632855	73633055	+	967.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	48159.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	23.0	40.5	27.5	492.0	36.5	10.5	17.5	26.0
Merged-chr1-161999543-4	chr1	161999454	161999654	+	892.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038619, intron 20 of 20)	intron (NM_001038619, intron 20 of 20)	-5415.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	8.5	11.5	14.5	146.0	26.5	7.5	11.5	10.0
Merged-chr2-118373181-3	chr2	118373064	118373264	+	841.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_201367, exon 1 of 3)	exon (NM_201367, exon 1 of 3)	255.0	NM_201367	381413.0	Mm.70979	NM_201367	ENSMUSG00000040133	Gpr176	Gm1012	G protein-coupled receptor 176	protein-coding	1.5	5.0	12.5	55.5	22.5	8.0	9.5	12.5
Merged-chr1-59316856-4	chr1	59316726	59316926	+	986.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356389, intron 10 of 13)	intron (NM_001356389, intron 10 of 13)	59920.0	NM_001356389	271697.0	Mm.297713	NM_001033373	ENSMUSG00000026023	Cdk15	Als2cr7|Pftk2	cyclin-dependent kinase 15	protein-coding	34.0	64.5	13.0	435.5	42.5	19.0	10.0	23.0
Merged-chr17-32269365-2	chr17	32269265	32269465	+	887.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286630, intron 1 of 19)	B3|SINE|B2	14758.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	3.0	10.0	4.5	56.0	9.5	4.5	6.0	4.5
Merged-chr11-76605401-3	chr11	76605313	76605513	+	718.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-27674.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	5.0	9.5	5.0	101.5	8.5	6.5	4.0	2.0
Merged-chr7-116531449-4	chr7	116531362	116531562	+	976.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360375, intron 11 of 14)	intron (NM_001360375, intron 11 of 14)	27093.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	9.0	40.5	10.0	264.0	38.5	19.0	20.5	23.5
Merged-chr6-17637788-2	chr6	17637688	17637888	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	intron (NM_007604, intron 1 of 9)	778.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	15.0	31.5	27.5	311.0	75.0	49.0	29.5	36.5
Merged-chr9-66350407-4	chr9	66350321	66350521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145617)	promoter-TSS (NM_145617)	-29.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	30.5	34.0	9.0	221.0	99.5	36.0	37.5	41.0
Merged-chr3-103781708-4	chr3	103781621	103781821	+	813.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301304, intron 1 of 15)	intron (NM_001301304, intron 1 of 15)	9554.0	NM_001301306	15257.0	Mm.20827	NM_010432	ENSMUSG00000008730	Hipk1	1110062K04Rik|Myak	homeodomain interacting protein kinase 1	protein-coding	12.0	12.0	13.0	178.0	26.0	2.0	7.0	9.0
Merged-chr12-81862489-2	chr12	81862389	81862589	+	650.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 1 of 35)	intron (NM_018814, intron 1 of 35)	2459.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	8.0	6.0	7.5	55.5	6.0	0.0	1.0	2.5
Merged-chr1-56973257-4	chr1	56973167	56973367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024325, exon 1 of 1)	non-coding (NR_024325, exon 1 of 1)	1798.0	NR_024326	329160.0	Mm.419039	NR_024325	ENSMUSG00000087022	9130024F11Rik	B530002L08|EG329160	RIKEN cDNA 9130024F11 gene	ncRNA	71.0	55.5	92.0	684.0	89.5	36.0	49.5	56.0
Merged-chr4-3695725-4	chr4	3695636	3695836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	MTEb|LTR|ERVL-MaLR	17615.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	31.0	65.0	50.0	731.5	149.5	47.5	49.5	40.5
Merged-chr2-75706594-4	chr2	75706497	75706697	+	936.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1934.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	23.0	29.0	20.0	382.5	81.0	11.5	17.0	10.5
Merged-chr3-58502104-4	chr3	58502015	58502215	+	745.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23706.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	14.0	22.0	14.0	285.5	22.5	5.5	14.0	12.5
Merged-chr4-47262188-4	chr4	47262077	47262277	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 9 of 39)	intron (NM_009928, intron 9 of 39)	54165.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	27.0	31.5	14.0	326.0	62.0	14.0	22.0	18.5
Merged-chr8-10924651-4	chr8	10924543	10924743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030715, exon 3 of 3)	non-coding (NR_030715, exon 3 of 3)	3814.0	NR_030715	665306.0	Mm.358758	NR_030715	ENSMUSG00000038917	3930402G23Rik	-	RIKEN cDNA 3930402G23 gene	ncRNA	92.5	93.0	85.0	1444.5	203.5	71.0	88.5	76.5
Merged-chr11-86894402-4	chr11	86894282	86894482	+	848.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86722.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	12.0	16.0	6.0	107.5	29.0	14.5	12.5	10.5
Merged-chr3-149083652-3	chr3	149083548	149083748	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129013.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	34.5	38.0	48.5	676.0	18.5	5.5	6.0	10.0
Merged-chr8-126584441-5	chr8	126584344	126584544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8992.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	119.0	167.0	110.0	1477.0	200.0	63.5	86.5	93.5
Merged-chr4-155150719-4	chr4	155150628	155150828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	64124.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	20.0	38.0	33.0	419.0	71.5	31.0	68.0	45.5
Merged-chr5-99216878-4	chr5	99216785	99216985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145839)	TTS (NM_145839)	36042.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	108.5	253.0	116.5	1414.5	273.0	130.5	145.0	101.5
Merged-chr1-135427597-4	chr1	135427490	135427690	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357578, intron 1 of 24)	intron (NM_001357578, intron 1 of 24)	2901.0	NM_153774	226432.0	Mm.271642	NM_153774	ENSMUSG00000041879	Ipo9	0710008K06Rik|AI845704|C78347|Imp9|Ranbp9	importin 9	protein-coding	17.0	16.5	26.0	221.0	32.5	10.5	18.5	20.0
Merged-chr3-96294022-4	chr3	96293920	96294120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010186)	promoter-TSS (NM_010186)	-51.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	54.5	60.5	75.5	908.0	99.5	55.5	79.5	60.5
Merged-chr18-57578528-4	chr18	57578409	57578609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029290, intron 3 of 6)	intron (NM_029290, intron 3 of 6)	-26112.0	NR_015494	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	39.0	42.5	33.0	394.5	99.5	30.0	55.5	25.5
Merged-chr2-165318622-4	chr2	165318532	165318732	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080287, intron 1 of 20)	intron (NM_080287, intron 1 of 20)	2194.0	NM_001302752	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	24.0	22.0	28.0	399.0	53.0	24.5	30.0	27.0
Merged-chr1-9700524-4	chr1	9700429	9700629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290397)	promoter-TSS (NM_001290397)	-320.0	NM_008651	17864.0	Mm.479	NM_008651	ENSMUSG00000025912	Mybl1	A-myb|G1-419-6|repro9	myeloblastosis oncogene-like 1	protein-coding	170.5	267.0	224.0	2947.5	465.0	192.5	225.5	132.5
Merged-chr3-75203018-4	chr3	75202951	75203151	+	905.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-59279.0	NM_172515	213234.0	Mm.80075	NM_172515	ENSMUSG00000034151	Zbbx	4931432L23	zinc finger, B-box domain containing	protein-coding	7.0	9.0	6.5	270.0	35.0	11.5	15.0	8.0
Merged-chr13-56353417-4	chr13	56353312	56353512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9488.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	209.5	280.5	204.0	3098.0	286.0	116.0	134.5	115.0
Merged-chr3-123329408-4	chr3	123329311	123329511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027135, intron 9 of 22)	intron (NM_027135, intron 9 of 22)	56579.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	32.0	30.0	36.5	440.0	182.5	71.0	71.0	99.5
Merged-chr4-133513168-4	chr4	133513068	133513268	+	771.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5795.0	NM_001083916	69073.0	Mm.299081	NM_133707	ENSMUSG00000037600	Kdf1	1810019J16Rik	keratinocyte differentiation factor 1	protein-coding	11.0	17.0	7.0	96.5	24.5	14.0	9.5	15.5
Merged-chr5-77293021-4	chr5	77292923	77293123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17063.0	NM_019836	56412.0	Mm.129136	NM_019836	ENSMUSG00000036285	Noa1	2610024G14Rik|AU022345|AtNOS1|mAtNOS1	nitric oxide associated 1	protein-coding	54.0	83.0	49.0	1047.5	128.5	68.5	74.0	47.5
Merged-chr9-58280686-4	chr9	58280576	58280776	+	973.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	27512.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	19.0	29.0	8.0	163.0	74.0	19.5	17.5	28.0
Merged-chr17-86237524-3	chr17	86237410	86237610	+	828.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	49668.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	6.5	5.0	15.0	165.5	10.5	1.0	1.5	3.0
Merged-chr19-47918183-3	chr19	47918092	47918292	+	802.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001738, intron 1 of 1)	intron (NM_001001738, intron 1 of 1)	1107.0	NM_001001738	414801.0	Mm.29457	NM_001001738	ENSMUSG00000044948	Itprip	4833424O12Rik|DANGER	inositol 1,4,5-triphosphate receptor interacting protein	protein-coding	6.5	6.0	11.5	182.0	6.5	5.5	4.0	6.0
Merged-chr2-167348081-4	chr2	167347977	167348177	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	1101.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	21.5	20.0	22.0	245.5	48.5	13.0	19.0	22.0
Merged-chr9-48282694-2	chr9	48282599	48282799	+	922.9166869999999	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	58199.0	NM_030069	78252.0	Mm.31626	NM_030069	ENSMUSG00000032028	Nxpe2	4432416J03Rik|AI323362|Fam55b	neurexophilin and PC-esterase domain family, member 2	protein-coding	0.0	2.0	0.0	0.0	29.5	12.0	18.5	21.0
Merged-chr10-12836667-3	chr10	12836563	12836763	+	922.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 1 of 73)	intron (NM_011682, intron 1 of 73)	25072.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	14.5	8.5	17.5	140.5	30.0	9.5	8.5	4.0
Merged-chr12-110771081-4	chr12	110770963	110771163	+	906.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	ORR1A4|LTR|ERVL-MaLR	33131.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	12.0	10.0	6.5	150.0	34.0	6.5	25.5	14.0
Merged-chr4-126109798-4	chr4	126109667	126109867	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 1 of 10)	intron (NM_028800, intron 1 of 10)	5810.0	NM_001145827	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	23.5	33.5	32.5	332.5	40.0	31.0	19.5	21.5
Merged-chr1-88576005-4	chr1	88575910	88576110	+	872.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24493.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	7.5	10.0	7.0	154.5	42.5	10.0	13.0	9.5
Merged-chr1-78914112-2	chr1	78913993	78914193	+	596.0	f0_balb.idr|f1_balb.idr	intron (NR_151519, intron 3 of 3)	Lx8|LINE|L1	97182.0	NM_021342	57814.0	Mm.24386	NM_021342	ENSMUSG00000047330	Kcne4	AW487937|MiRP3	potassium voltage-gated channel, Isk-related subfamily, gene 4	protein-coding	5.0	8.0	6.0	77.5	4.0	2.0	2.0	3.0
Merged-chr7-141345038-4	chr7	141344957	141345157	+	901.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133191, intron 4 of 20)	B1_Mur1|SINE|Alu	6055.0	NM_133191	98845.0	Mm.27451	NM_133191	ENSMUSG00000025504	Eps8l2	AI042819|AW545405|Eps8r2	EPS8-like 2	protein-coding	14.5	28.5	3.5	52.5	91.5	32.0	17.0	26.0
Merged-chr8-107455427-4	chr8	107455328	107455528	+	932.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025830, intron 2 of 23)	intron (NM_025830, intron 2 of 23)	19030.0	NM_025830	66894.0	Mm.390058	NM_025830	ENSMUSG00000031930	Wwp2	1300010O06Rik|AA690238|AIP2|AW554328	WW domain containing E3 ubiquitin protein ligase 2	protein-coding	8.0	19.0	14.0	156.0	45.5	18.5	15.5	18.0
Merged-chr13-47193900-4	chr13	47193811	47194011	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170643)	promoter-TSS (NM_001170643)	-92.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	54.0	59.5	35.5	990.0	47.5	18.5	18.5	17.5
Merged-chr4-155833989-4	chr4	155833905	155834105	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025338)	TTS (NM_025338)	2736.0	NM_025338	66077.0	Mm.28999	NM_025338	ENSMUSG00000065990	Aurkaip1	0610033H09Rik|Aip|Akip|MRP-S38	aurora kinase A interacting protein 1	protein-coding	17.5	29.0	12.5	242.5	37.5	15.0	18.5	19.5
Merged-chr10-63174619-3	chr10	63174506	63174706	+	735.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 2 of 19)	intron (NM_182992, intron 2 of 19)	29346.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	16.0	12.0	4.5	209.0	5.0	3.0	5.5	4.5
Merged-chr4-126022644-2	chr4	126022544	126022744	+	791.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2015.0	NR_045561	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	8.0	6.5	0.0	20.5	30.5	5.0	9.0	9.5
Merged-chr8-109687502-4	chr8	109687425	109687625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155034, intron 1 of 10)	MLTR31A_MM|LTR|ERVK	5769.0	NR_155034	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	60.0	85.5	102.0	1076.5	194.5	42.0	129.5	64.5
Merged-chr16-33251546-5	chr16	33251483	33251683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080557, exon 1 of 14)	exon (NM_080557, exon 1 of 14)	127.0	NM_080557	69150.0	Mm.28196	NM_080557	ENSMUSG00000022808	Snx4	1810036H14Rik|AI037066	sorting nexin 4	protein-coding	40.5	90.5	55.0	558.5	52.0	41.0	21.5	34.0
Merged-chr15-90623705-4	chr15	90623604	90623804	+	957.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357979, intron 3 of 18)	intron (NM_001357979, intron 3 of 18)	55684.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	46.0	52.5	34.0	646.5	23.0	18.5	17.5	16.5
Merged-chr5-21202295-4	chr5	21202180	21202380	+	954.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 3 of 26)	intron (NR_153365, intron 3 of 26)	16013.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	37.0	32.5	43.0	428.5	46.0	10.0	14.0	32.5
Merged-chr2-180251423-4	chr2	180251323	180251523	+	973.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5956.0	NM_025587	66481.0	Mm.289669	NM_025587	ENSMUSG00000039001	Rps21	1810049N11Rik|2410030A14Rik	ribosomal protein S21	protein-coding	21.0	33.0	14.5	239.0	47.5	18.0	25.0	23.0
Merged-chr16-58503622-3	chr16	58503531	58503731	+	936.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 2 of 10)	MTD|LTR|ERVL-MaLR	19795.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	16.0	20.0	7.0	153.0	11.0	8.5	10.5	10.5
Merged-chr14-62374201-2	chr14	62374099	62374299	+	672.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42131.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	2.0	2.0	5.5	69.5	19.5	6.5	7.0	7.5
Merged-chr3-88685399-4	chr3	88685291	88685491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028814)	promoter-TSS (NM_028814)	-396.0	NM_028814	74200.0	Mm.251800	NM_028814	ENSMUSG00000028060	2810403A07Rik	A430106P18Rik|AI256352|AI451678|Blom7|Khdc4|Kiaa0907	RIKEN cDNA 2810403A07 gene	protein-coding	88.5	144.5	85.5	1328.0	269.0	103.0	125.5	145.0
Merged-chr10-4339022-3	chr10	4338927	4339127	+	621.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031185, intron 2 of 3)	intron (NM_031185, intron 2 of 3)	48448.0	NM_001359811	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	11.0	11.0	4.5	119.5	2.0	2.0	5.5	2.5
Merged-chr8-13758115-3	chr8	13758008	13758208	+	894.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357247, intron 1 of 16)	intron (NM_001357247, intron 1 of 16)	452.0	NM_001357247	69957.0	Mm.182412	NM_027276	ENSMUSG00000038416	Cdc16	2700071J12Rik|2810431D22Rik|APC6	CDC16 cell division cycle 16	protein-coding	5.0	12.0	10.0	88.0	9.5	6.5	10.5	5.5
Merged-chr3-89953627-3	chr3	89953544	89953744	+	758.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081182, intron 11 of 27)	intron (NM_001081182, intron 11 of 27)	9688.0	NM_001081182	54667.0	Mm.30455	NM_001081182	ENSMUSG00000060671	Atp8b2	Id	ATPase, class I, type 8B, member 2	protein-coding	6.5	17.5	5.5	91.5	14.0	6.0	5.0	8.5
Merged-chr1-134083048-4	chr1	134082973	134083173	+	842.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3918.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	13.5	13.5	22.0	177.0	17.5	2.0	7.5	4.0
Merged-chr16-4763465-2	chr16	4763365	4763565	+	560.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357050, intron 2 of 5)	intron (NM_001357050, intron 2 of 5)	6519.0	NM_001357050	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	5.0	1.5	5.0	79.0	22.0	8.5	4.5	5.5
Merged-chr5-31727628-4	chr5	31727505	31727705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181281, intron 2 of 10)	intron (NM_181281, intron 2 of 10)	29555.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	66.0	97.0	44.5	1041.0	170.0	82.0	78.5	57.5
Merged-chr2-124909956-4	chr2	124909857	124910057	+	938.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-158170.0	NM_175034	317750.0	Mm.330538	NM_175034	ENSMUSG00000035183	Slc24a5	F630045L20Rik|JSX|NCKX5|NCX5|Oca6	solute carrier family 24, member 5	protein-coding	19.0	37.5	20.5	510.5	19.0	15.0	14.0	20.0
Merged-chr2-80026228-4	chr2	80026103	80026303	+	965.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	12699.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	32.5	25.5	22.0	426.5	73.5	19.0	26.5	16.0
Merged-chr17-86293518-4	chr17	86293392	86293592	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	-6314.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	10.5	20.0	34.0	247.0	40.5	12.0	17.0	12.5
Merged-chr18-50096762-4	chr18	50096641	50096841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31460.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	95.0	114.5	165.0	2314.0	227.0	68.5	133.5	131.0
Merged-chr1-186722108-4	chr1	186721977	186722177	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026041, intron 4 of 4)	intron (NM_026041, intron 4 of 4)	-16088.0	NM_001329107	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	15.0	29.5	17.0	283.0	25.0	8.5	13.5	13.5
Merged-chr14-103535860-4	chr14	103535741	103535941	+	865.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022886, intron 4 of 30)	intron (NM_022886, intron 4 of 30)	22500.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	20.0	29.5	19.5	286.0	23.5	10.5	12.0	13.0
Merged-chr2-128127451-4	chr2	128127365	128127565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284410)	promoter-TSS (NM_001284410)	-110.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	209.5	306.5	238.0	2707.5	519.0	167.5	237.5	170.0
Merged-chr1-180972358-4	chr1	180972262	180972462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 20 of 22)	intron (NM_144794, intron 20 of 22)	29844.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	33.5	88.5	49.5	524.0	93.5	46.5	52.5	31.0
Merged-chr13-17795335-1	chr13	17795235	17795435	+	676.0	f0_balb.idr	intron (NM_027118, intron 1 of 13)	intron (NM_027118, intron 1 of 13)	9762.0	NM_001081058	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	5.0	7.0	9.0	82.0	38.5	2.0	12.0	3.0
Merged-chr5-142723743-2	chr5	142723643	142723843	+	998.1666869999999	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001122730)	TTS (NM_001122730)	21642.0	NM_146257	243328.0	Mm.125942	NM_146257	ENSMUSG00000050822	Slc29a4	ENT4|mPMAT	solute carrier family 29 (nucleoside transporters), member 4	protein-coding	18.0	5.5	3.5	71.5	14.5	7.0	8.0	14.0
Merged-chr4-43384257-3	chr4	43384157	43384357	+	956.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 1 of 11)	intron (NM_001037709, intron 1 of 11)	2275.0	NM_001037709	100213.0	Mm.235730	NM_199057	ENSMUSG00000035969	Rusc2	AI840675|mKIAA0375	RUN and SH3 domain containing 2	protein-coding	8.0	5.0	4.0	127.5	44.5	18.5	12.5	20.0
Merged-chr5-21517733-4	chr5	21517633	21517833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199632, intron 17 of 20)	ORR1C1|LTR|ERVL-MaLR	-25794.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	71.5	60.0	47.5	867.5	149.0	44.0	65.0	46.5
Merged-chr7-81454563-4	chr7	81454486	81454686	+	827.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252526, intron 1 of 11)	CpG	172.0	NM_001252525	12877.0	Mm.273122	NM_007755	ENSMUSG00000025586	Cpeb1	AU024112|Cpe-bp1|Cpeb|mCPEB|mCpeb-1	cytoplasmic polyadenylation element binding protein 1	protein-coding	2.5	8.5	8.0	80.0	13.0	7.5	5.0	11.0
Merged-chr11-101232279-3	chr11	101232186	101232386	+	891.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5823.0	NM_007970	14055.0	Mm.5027	NM_007970	ENSMUSG00000006920	Ezh1	ENX-2	enhancer of zeste 1 polycomb repressive complex 2 subunit	protein-coding	13.5	10.0	8.0	87.0	8.5	3.5	5.5	4.0
Merged-chr17-23630418-3	chr17	23630322	23630522	+	950.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001320258, exon 10 of 10)	3' UTR (NM_001320258, exon 10 of 10)	14847.0	NM_001033339	240047.0	Mm.235343	NM_001033339	ENSMUSG00000023903	Mmp25	F730048C11Rik|Leukolysin|MMP20|MT6-MMP	matrix metallopeptidase 25	protein-coding	7.0	16.5	15.5	207.5	14.0	5.5	24.0	9.0
Merged-chr4-8926833-4	chr4	8926799	8926999	+	906.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	175575.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	4.5	15.5	3.0	95.5	25.5	7.5	8.0	8.5
Merged-chr1-136415351-4	chr1	136415322	136415522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024328)	promoter-TSS (NR_024328)	97.0	NR_024328	320054.0	Mm.208000	NR_024328	ENSMUSG00000097403	9230116N13Rik	-	RIKEN cDNA 9230116N13 gene	ncRNA	100.5	177.5	105.0	1016.0	261.5	168.0	114.5	140.0
Merged-chr7-80775013-4	chr7	80774913	80775113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	28318.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	37.0	68.0	21.0	418.0	126.5	47.5	44.0	71.0
Merged-chr4-148160129-4	chr4	148160006	148160206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176848)	promoter-TSS (NM_176848)	-12.0	NR_104374	230903.0	Mm.220327	NM_173401	ENSMUSG00000029001	Fbxo44	5730411K09|AV001623|FBG3|FBX30|Fbx6a|Fbxo6a	F-box protein 44	protein-coding	143.5	207.5	129.5	2091.0	394.5	150.5	187.5	146.5
Merged-chr12-102437181-4	chr12	102437084	102437284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	RSINE1|SINE|B4	2629.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	93.0	109.0	134.0	1417.0	259.5	81.0	119.0	122.5
Merged-chr6-37441791-1	chr6	37441691	37441891	+	1000.0	f0_balb.idr	exon (NM_178661, exon 1 of 12)	exon (NM_178661, exon 1 of 12)	357.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	13.0	21.5	29.5	233.0	45.0	19.5	21.5	29.0
Merged-chr4-147922979-4	chr4	147922877	147923077	+	817.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011122, intron 10 of 18)	intron (NM_011122, intron 10 of 18)	13799.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	5.0	12.5	5.5	153.0	27.5	10.5	12.0	5.0
Merged-chr19-12801256-4	chr19	12801157	12801357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134152, intron 1 of 8)	intron (NM_134152, intron 1 of 8)	2678.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	67.0	99.5	52.5	1276.0	181.0	71.5	61.5	64.0
Merged-chr3-115644090-4	chr3	115643974	115644174	+	864.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70981.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	6.0	20.5	13.0	204.0	20.0	7.0	10.0	16.0
Merged-chr19-11494730-4	chr19	11494622	11494822	+	904.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164202, intron 1 of 4)	intron (NM_001164202, intron 1 of 4)	2684.0	NM_001164202	666926.0	Mm.486382	NM_001164202	ENSMUSG00000058470	Gm8369	EG666926	predicted gene 8369	protein-coding	16.5	12.0	13.5	199.0	54.5	12.5	20.0	9.0
Merged-chr8-70375376-4	chr8	70375276	70375476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016685, intron 4 of 18)	CpG-14087	1828.0	NM_016685	12845.0	Mm.45071	NM_016685	ENSMUSG00000031849	Comp	TSP5	cartilage oligomeric matrix protein	protein-coding	78.5	119.0	63.0	1127.5	168.0	65.5	62.5	45.0
Merged-chr7-47025638-4	chr7	47025548	47025748	+	938.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17234.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	4.5	7.5	23.0	314.5	32.5	12.5	20.0	15.0
Merged-chr1-191396677-3	chr1	191396578	191396778	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144880, exon 1 of 13)	5' UTR (NM_144880, exon 1 of 13)	363.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	16.5	24.0	21.5	178.0	72.5	24.0	26.0	32.5
Merged-chr10-95880335-8	chr10	95880250	95880450	+	904.2374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60313.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	6.0	8.0	14.0	93.5	11.0	10.5	7.0	7.5
Merged-chr17-56290342-7	chr17	56290198	56290398	+	984.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025836, intron 1 of 7)	intron (NM_025836, intron 1 of 7)	213.0	NM_025836	66905.0	Mm.311696	NM_025836	ENSMUSG00000024197	Plin3	1300012C15Rik|M6prbp1|Tip47	perilipin 3	protein-coding	11.0	24.0	6.5	149.0	25.0	12.5	8.0	13.5
Merged-chr6-38806912-6	chr6	38806846	38807046	+	893.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 2 of 14)	intron (NM_010433, intron 2 of 14)	30365.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	11.5	12.5	10.0	164.0	9.0	2.5	5.5	2.0
Merged-chr5-53589322-5	chr5	53589164	53589364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080928, intron 1 of 10)	CpG	-1082.0	NM_009035	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	115.5	132.0	121.5	1110.0	169.0	63.0	100.5	77.0
Merged-chr17-81432925-4	chr17	81432829	81433029	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 5 of 8)	intron (NR_104580, intron 5 of 8)	305458.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	6.5	33.0	26.5	306.0	40.0	12.5	19.5	11.0
Merged-chr1-176819508-3	chr1	176819400	176819600	+	882.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	intron (NM_001357390, intron 1 of 18)	4840.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	6.0	6.0	6.5	110.0	31.5	10.5	14.0	9.5
Merged-chr2-148533907-4	chr2	148533805	148534005	+	680.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90370.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	3.5	15.0	13.0	75.0	30.0	9.0	11.0	5.0
Merged-chr6-129276678-4	chr6	129276598	129276798	+	986.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1329.0	NM_001033122	12515.0	Mm.74745	NM_001033122	ENSMUSG00000030156	Cd69	5830438K24Rik|AI452015|AIM|VEA	CD69 antigen	protein-coding	21.0	24.0	15.5	207.5	43.5	15.5	19.5	20.5
Merged-chr1-136124454-4	chr1	136124342	136124542	+	944.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6741.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	19.0	22.5	14.5	335.0	26.0	9.0	17.0	31.5
Merged-chr2-30093838-4	chr2	30093759	30093959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025428)	promoter-TSS (NM_025428)	-224.0	NM_001037762	66220.0	Mm.22538	NM_025428	ENSMUSG00000015335	Zdhhc12	1190004A01Rik	zinc finger, DHHC domain containing 12	protein-coding	190.5	274.5	150.5	2139.5	434.0	187.5	196.0	172.0
Merged-chr3-79178935-4	chr3	79178800	79179000	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33025.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	13.0	39.0	10.0	189.0	32.5	9.0	14.5	12.0
Merged-chr1-177711561-4	chr1	177711472	177711672	+	937.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-18242.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	19.5	24.5	10.5	148.0	34.0	24.0	20.0	22.0
Merged-chr17-84698921-3	chr17	84698809	84699009	+	815.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104382, exon 13 of 14)	non-coding (NR_104382, exon 13 of 14)	15788.0	NM_026180	67470.0	Mm.26581	NM_026180	ENSMUSG00000024254	Abcg8	1300003C16Rik|AI114946|sterolin-2	ATP binding cassette subfamily G member 8	protein-coding	4.0	5.5	7.0	106.5	12.5	5.0	5.0	7.5
Merged-chr10-95291763-3	chr10	95291659	95291859	+	690.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	B3A|SINE|B2	31950.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	9.5	5.5	2.0	96.0	21.5	5.5	7.0	10.5
Merged-chr11-117782311-4	chr11	117782221	117782421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195088)	promoter-TSS (NM_001195088)	24.0	NM_001195089	217356.0	Mm.116675	NM_181856	ENSMUSG00000050106	Tmc8	EVIN2|Ever2|mFLJ00400	transmembrane channel-like gene family 8	protein-coding	37.5	81.0	54.0	749.5	130.0	29.0	37.0	85.0
Merged-chr5-123014950-4	chr5	123014857	123015057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175423)	promoter-TSS (NM_175423)	-117.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	194.5	261.0	87.0	1756.5	385.0	129.5	137.5	157.0
Merged-chr2-170129433-4	chr2	170129261	170129461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159683, intron 2 of 6)	intron (NM_001159683, intron 2 of 6)	1859.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	17.5	45.0	15.5	272.5	124.5	30.5	30.5	15.5
Merged-chr7-30325592-4	chr7	30325513	30325713	+	881.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3238.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	7.0	28.0	14.0	129.0	34.5	15.5	14.5	14.5
Merged-chr17-17883898-4	chr17	17883803	17884003	+	978.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013521)	promoter-TSS (NM_013521)	36.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	18.5	38.0	11.0	105.5	40.5	17.0	35.0	10.5
Merged-chr4-152086811-6	chr4	152086709	152086909	+	972.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104381)	promoter-TSS (NR_104381)	-54.0	NR_104381	269608.0	Mm.332102	NM_001004156	ENSMUSG00000039713	Plekhg5	BC023181|Syx	pleckstrin homology domain containing, family G (with RhoGef domain) member 5	protein-coding	17.5	19.5	18.0	212.0	52.0	16.5	10.5	15.0
Merged-chr17-26462772-4	chr17	26462685	26462885	+	911.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45687.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	24.0	31.0	9.5	237.0	57.5	13.5	12.5	19.0
Merged-chr2-128749754-2	chr2	128749654	128749854	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	B1_Mur3|SINE|Alu	50839.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	5.0	4.0	4.5	63.5	12.5	5.5	5.0	12.0
Merged-chr17-44101067-4	chr17	44100954	44101154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357997, intron 3 of 3)	intron (NM_001357997, intron 3 of 3)	4754.0	NM_199016	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	71.0	127.5	37.5	592.0	327.5	107.5	97.0	62.5
Merged-chr15-6705761-4	chr15	6705661	6705861	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2620.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	19.5	32.5	18.5	377.5	64.5	24.0	25.0	14.5
Merged-chr1-120519635-4	chr1	120519533	120519733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14609.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	26.0	75.0	58.0	193.0	269.0	119.0	79.5	60.0
Merged-chr10-86885069-6	chr10	86884973	86885173	+	910.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 43 of 68)	intron (NM_138673, intron 43 of 68)	106068.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	12.5	5.5	13.5	106.5	20.0	4.5	10.5	12.5
Merged-chr4-71126828-3	chr4	71126701	71126901	+	996.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-591873.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	2.0	6.5	7.0	64.5	35.0	21.0	19.5	7.5
Merged-chr10-21937500-4	chr10	21937418	21937618	+	764.612488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 2 of 13)	intron (NM_001161845, intron 2 of 13)	-41154.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	7.0	8.0	8.0	110.0	30.0	29.0	12.5	14.5
Merged-chr14-57611901-1	chr14	57611801	57612001	+	859.0	f0_c57.idr	intron (NM_020506, intron 9 of 22)	intron (NM_020506, intron 9 of 22)	40287.0	NR_152103	67518.0	Mm.376343	NR_152103	ENSMUSG00000097933	1700039M10Rik	-	RIKEN cDNA 1700039M10 gene	ncRNA	2.0	4.0	1.0	53.5	33.0	7.5	13.5	20.0
Merged-chr9-31168902-3	chr9	31168803	31169003	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001102456, exon 6 of 17)	exon (NM_001102456, exon 6 of 17)	-37104.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	26.0	24.0	39.5	877.5	15.0	7.5	3.0	10.0
Merged-chr3-158031757-4	chr3	158031645	158031845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001093753)	promoter-TSS (NM_001093753)	27.0	NM_001356997	69207.0	Mm.223946	NM_026989	ENSMUSG00000055436	Srsf11	0610009J05Rik|2610019N13Rik|BF642805|Sfrs11	serine/arginine-rich splicing factor 11	protein-coding	100.0	162.5	114.5	1777.0	253.5	95.5	138.0	107.0
Merged-chr19-12833773-4	chr19	12833671	12833871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001361971)	TTS (NM_001361971)	-28006.0	NM_146702	258697.0	Mm.223132	NM_146702	ENSMUSG00000046272	Olfr1444	MOR202-4	olfactory receptor 1444	protein-coding	152.0	156.0	109.0	1783.0	210.5	57.5	78.0	63.0
Merged-chr7-88482242-3	chr7	88482130	88482330	+	948.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028238, intron 2 of 2)	intron (NM_028238, intron 2 of 2)	51957.0	NM_028238	72433.0	Mm.276669	NM_028238	ENSMUSG00000030559	Rab38	2310011F14Rik|AU043391|cht	RAB38, member RAS oncogene family	protein-coding	15.5	5.0	17.0	265.5	11.5	7.5	7.0	9.0
Merged-chr5-105652084-3	chr5	105651991	105652191	+	899.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47878.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	42.5	19.0	22.5	398.5	12.0	1.0	1.5	2.0
Merged-chr6-55167194-4	chr6	55167047	55167247	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7843.0	NM_009349	21743.0	Mm.299	NM_009349	ENSMUSG00000003477	Inmt	Temt	indolethylamine N-methyltransferase	protein-coding	20.5	14.5	27.5	221.5	32.0	13.0	6.5	17.5
Merged-chr10-61476246-2	chr10	61476146	61476346	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153542, intron 1 of 4)	intron (NM_153542, intron 1 of 4)	413.0	NM_153542	216011.0	Mm.136116	NM_153542	ENSMUSG00000037151	Lrrc20	BC036304	leucine rich repeat containing 20	protein-coding	23.0	10.5	11.5	104.0	22.0	7.0	18.0	11.5
Merged-chr14-73049130-4	chr14	73049025	73049225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133720)	promoter-TSS (NM_133720)	-11.0	NM_001162412	70086.0	Mm.158324	NM_133720	ENSMUSG00000033470	Cysltr2	2300001H05Rik|CYSLT2R|Cltr2|Cyslt2	cysteinyl leukotriene receptor 2	protein-coding	51.0	71.5	22.0	796.5	154.5	52.5	58.5	42.5
Merged-chr16-17703888-3	chr16	17703782	17703982	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285886, intron 2 of 16)	intron (NM_001285886, intron 2 of 16)	19018.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	12.0	16.0	6.5	166.0	21.0	6.5	17.0	8.5
Merged-chr8-85507164-3	chr8	85507052	85507252	+	683.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 4 of 11)	intron (NM_173866, intron 4 of 11)	14535.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	10.0	12.0	4.5	142.0	4.5	3.5	11.0	6.5
Merged-chr10-80659295-2	chr10	80659195	80659395	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-2224.0	NM_145361	208198.0	Mm.60720	NM_145361	ENSMUSG00000003344	Btbd2	2610037C03Rik|4930512K17Rik	BTB (POZ) domain containing 2	protein-coding	2.5	14.0	0.0	20.5	11.0	9.0	6.0	7.5
Merged-chr7-81304301-4	chr7	81304200	81304400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 8 of 21)	intron (NM_008803, intron 8 of 21)	40934.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	23.5	23.0	24.0	812.0	70.5	22.0	41.5	33.0
Merged-chr6-123266047-4	chr6	123265940	123266140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163161, intron 2 of 5)	L1ME3A|LINE|L1	3933.0	NM_010819	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	74.0	100.0	50.5	625.0	169.0	72.5	62.0	72.5
Merged-chr18-60745602-4	chr18	60745511	60745711	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	1135.0	NM_001348101	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	13.5	8.5	7.5	232.5	18.0	4.5	6.5	16.0
Merged-chr17-88042624-4	chr17	88042516	88042716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	intron (NM_001081034, intron 1 of 22)	22316.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	46.5	48.5	49.0	852.0	139.5	36.5	55.5	58.5
Merged-chr11-99024259-4	chr11	99024123	99024323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011623)	promoter-TSS (NM_011623)	-34.0	NM_011623	21973.0	Mm.4237	NM_011623	ENSMUSG00000020914	Top2a	Top-2	topoisomerase (DNA) II alpha	protein-coding	51.0	90.0	48.5	547.5	162.5	81.0	39.5	65.0
Merged-chr1-74375147-4	chr1	74375049	74375249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013612)	promoter-TSS (NM_013612)	-54.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	188.0	310.0	176.5	2629.5	435.5	190.5	197.0	185.0
Merged-chr16-22061859-4	chr16	22061741	22061941	+	870.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 15 of 15)	intron (NM_183029, intron 15 of 15)	52357.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	12.5	19.0	11.5	188.0	28.5	8.5	7.5	12.5
Merged-chr18-68052917-4	chr18	68052783	68052983	+	860.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	119710.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	22.5	46.0	18.0	307.5	18.0	10.5	9.0	10.5
Merged-chr14-103844519-3	chr14	103844435	103844635	+	684.377747	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007904)	promoter-TSS (NM_007904)	-59.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	7.0	16.0	4.0	89.5	7.5	7.5	4.5	11.0
Merged-chr11-19926740-4	chr11	19926650	19926850	+	964.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	2308.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	24.0	19.5	21.5	204.5	33.0	18.0	20.0	15.5
Merged-chr8-13160882-4	chr8	13160775	13160975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010684, intron 1 of 8)	intron (NM_010684, intron 1 of 8)	1714.0	NM_010684	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	45.0	70.0	35.5	765.0	118.5	63.5	80.0	66.5
Merged-chr7-101383533-1	chr7	101383433	101383633	+	836.0	f0_balb.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	-1993.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	33.5	46.0	15.5	185.5	61.0	27.5	24.0	20.0
Merged-chr5-140611202-4	chr5	140611093	140611293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008494, intron 1 of 7)	intron (NM_008494, intron 1 of 7)	3852.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	42.5	51.0	60.0	812.0	70.5	32.5	31.5	33.5
Merged-chr2-163804432-3	chr2	163804331	163804531	+	761.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16403.0	NM_016873	22403.0	Mm.13828	NM_016873	ENSMUSG00000027656	Wisp2	Ccn5|Crgr4|Ctgfl|Rcop1	WNT1 inducible signaling pathway protein 2	protein-coding	8.5	12.0	17.0	24.0	6.0	3.0	6.0	3.5
Merged-chr2-50690294-4	chr2	50690183	50690383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-219401.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	81.0	70.0	66.0	766.5	107.0	52.0	57.0	42.0
Merged-chr2-132112478-4	chr2	132112362	132112562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	32646.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	36.5	116.5	27.5	363.0	104.0	26.5	33.5	33.5
Merged-chr1-149943859-4	chr1	149943756	149943956	+	811.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	Lx8|LINE|L1	17434.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	16.5	7.5	7.5	284.0	27.5	10.0	13.0	11.0
Merged-chr17-56507333-4	chr17	56507238	56507438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5145.0	NM_011483	20834.0	Mm.76862	NM_011483	ENSMUSG00000044526	Znrf4	1700094M01Rik|Ssrzf1|spzn	zinc and ring finger 4	protein-coding	64.5	55.0	45.5	680.5	58.5	30.5	38.5	32.5
Merged-chr2-18898123-4	chr2	18898022	18898222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 3 of 9)	intron (NM_008845, intron 3 of 9)	-96304.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	128.5	129.5	127.0	2182.5	328.5	93.5	120.5	77.0
Merged-chr8-125669938-4	chr8	125669836	125670036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028908, exon 1 of 1)	exon (NM_028908, exon 1 of 1)	118.0	NM_028908	74393.0	Mm.41709	NM_028908	ENSMUSG00000050930	Map10	4933403G14Rik|AI835009|mKIAA1383	microtubule-associated protein 10	protein-coding	31.0	27.5	35.0	224.5	71.5	15.5	32.5	30.0
Merged-chr11-44601122-3	chr11	44601018	44601218	+	974.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44B|DNA|TcMar-Tigger	14801.0	NR_126460	75389.0	Mm.261421	NR_126460	ENSMUSG00000086501	4930597A21Rik	-	RIKEN cDNA 4930597A21 gene	ncRNA	12.5	6.0	16.5	182.0	17.5	7.5	7.5	10.0
Merged-chr9-87171696-4	chr9	87171551	87171751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101482, intron 2 of 3)	B3|SINE|B2	22423.0	NM_001359955	244958.0	Mm.335337	NM_001101482	ENSMUSG00000042761	Mrap2	BB633055	melanocortin 2 receptor accessory protein 2	protein-coding	61.0	62.5	70.5	1804.5	99.5	29.0	65.0	60.0
Merged-chr1-171915881-5	chr1	171915836	171916036	+	910.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151536, intron 1 of 2)	RMER15-int|LTR|ERVL	-1526.0	NM_030710	30925.0	Mm.486404	NM_030710	ENSMUSG00000015314	Slamf6	KAL1|KAL1b|Ly108|NTB-A|NTBA|SF2000	SLAM family member 6	protein-coding	12.0	29.5	22.0	87.0	58.5	8.5	7.0	8.5
Merged-chr5-44223685-1	chr5	44223585	44223785	+	700.666687	f0_balb.idr	intron (NM_173764, intron 1 of 13)	intron (NM_173764, intron 1 of 13)	2921.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	9.0	7.5	8.5	196.0	9.0	1.0	1.0	0.0
Merged-chr10-57746460-4	chr10	57746363	57746563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38460.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	127.0	219.5	106.5	1929.5	273.5	121.5	104.0	89.0
Merged-chr10-80623178-3	chr10	80623062	80623262	+	914.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134002, intron 1 of 10)	intron (NM_134002, intron 1 of 10)	382.0	NM_134002	103236.0	Mm.29873	NM_134002	ENSMUSG00000003345	Csnk1g2	2810429I12Rik|AI463719	casein kinase 1, gamma 2	protein-coding	12.0	18.5	3.0	92.0	17.0	8.0	10.0	9.0
Merged-chr16-26581627-4	chr16	26581547	26581747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134103)	promoter-TSS (NM_134103)	-58.0	NM_001159318	16180.0	Mm.253424	NM_008364	ENSMUSG00000022514	Il1rap	6430709H04Rik|AI255955|AV239853|IL-1RAcP	interleukin 1 receptor accessory protein	protein-coding	159.0	180.5	200.0	3028.0	300.5	93.0	168.0	93.0
Merged-chr2-132101014-4	chr2	132100912	132101112	+	905.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355431, intron 2 of 6)	RLTR19-int|LTR|ERVK	44096.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	22.0	23.5	16.0	148.5	43.5	10.0	13.5	14.0
Merged-chr12-79029141-4	chr12	79029043	79029243	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181073)	promoter-TSS (NM_181073)	-20.0	NM_181073	211945.0	Mm.478321	NM_181073	ENSMUSG00000060716	Plekhh1	AV308913|C77772|D630024D12Rik|mKIAA1200	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	protein-coding	12.5	34.0	18.0	191.5	40.0	11.0	18.5	15.0
Merged-chr4-128654632-4	chr4	128654514	128654714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195130)	promoter-TSS (NM_001195130)	-88.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	78.5	136.5	80.0	949.5	253.0	86.5	106.5	77.0
Merged-chr8-84249717-4	chr8	84249616	84249816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007571)	promoter-TSS (NM_001007571)	45.0	NM_001007571	101966.0	Mm.200723	NM_001007571	ENSMUSG00000019362	D8Ertd738e	AA589584	DNA segment, Chr 8, ERATO Doi 738, expressed	protein-coding	54.0	68.0	36.5	641.5	166.5	65.0	53.5	56.5
Merged-chr4-59083629-4	chr4	59083512	59083712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48456.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	22.5	57.5	20.5	525.5	102.5	38.5	26.5	35.0
Merged-chr10-63338565-4	chr10	63338464	63338664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019812, intron 1 of 8)	CpG	471.0	NM_019812	93759.0	Mm.351459	NM_019812	ENSMUSG00000020063	Sirt1	AA673258|SIR2L1|Sir2|Sir2a|Sir2alpha	sirtuin 1	protein-coding	30.5	35.5	35.5	286.0	53.0	27.0	25.5	20.0
Merged-chr9-72089123-4	chr9	72089024	72089224	+	916.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011544, intron 3 of 20)	L1MEc|LINE|L1	22077.0	NM_001253862	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	12.0	22.5	22.0	171.5	33.5	8.0	12.5	12.0
Merged-chr11-93861428-4	chr11	93861290	93861490	+	860.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013375, intron 12 of 13)	intron (NM_001013375, intron 12 of 13)	24376.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	10.0	24.5	20.0	275.5	12.5	3.0	4.0	9.5
Merged-chr11-120748286-4	chr11	120748180	120748380	+	936.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-16259.0	NM_007621	12409.0	Mm.21454	NM_007621	ENSMUSG00000025150	Cbr2	MLCR	carbonyl reductase 2	protein-coding	33.0	20.0	15.5	133.5	44.0	14.0	21.0	14.5
Merged-chr9-121904565-4	chr9	121904480	121904680	+	912.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276719, intron 2 of 3)	intron (NM_001276719, intron 2 of 3)	6225.0	NM_021609	59289.0	Mm.258105	NM_021609	ENSMUSG00000044534	Ackr2	AI464239|CCR10|CCR9|Ccbp2|Cmkbr9|D6	atypical chemokine receptor 2	protein-coding	11.5	20.0	12.0	164.5	31.0	5.5	17.5	12.5
Merged-chr6-134862990-4	chr6	134862876	134863076	+	835.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	24809.0	NR_074084	14760.0	Mm.4787	NM_008157	ENSMUSG00000032641	Gpr19	-	G protein-coupled receptor 19	protein-coding	11.5	5.5	8.5	111.0	19.5	7.5	14.5	14.5
Merged-chr18-50138644-1	chr18	50138544	50138744	+	594.5	f0_balb.idr	intron (NM_008292, intron 2 of 23)	L1MB1|LINE|L1	10443.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	8.0	8.5	5.0	107.0	9.0	1.0	4.0	4.5
Merged-chr3-108381504-2	chr3	108381404	108381604	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_040560, intron 2 of 2)	intron (NR_040560, intron 2 of 2)	2237.0	NR_040560	100038453.0	Mm.214328	NR_040560	ENSMUSG00000074281	Gm12522	-	predicted gene 12522	ncRNA	3.0	14.5	6.5	52.5	13.5	8.5	4.5	7.0
Merged-chr4-124658848-2	chr4	124658748	124658948	+	905.8000490000001	f1_balb.idr|f1_c57bl6.idr	exon (NM_011141, exon 1 of 1)	exon (NM_011141, exon 1 of 1)	1202.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	3.0	4.5	5.0	28.0	8.5	8.0	5.5	23.5
Merged-chr2-76255110-2	chr2	76255009	76255209	+	601.25	f0_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 2 of 19)	intron (NM_001081033, intron 2 of 19)	83544.0	NM_001081033	241489.0	Mm.246613	NM_001081033	ENSMUSG00000075270	Pde11a	6330414F14Rik|A630086N24Rik|Gm350|PDE11A1	phosphodiesterase 11A	protein-coding	5.5	11.0	6.0	97.5	12.5	5.0	6.5	3.5
Merged-chr7-45638865-3	chr7	45638746	45638946	+	924.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152217)	promoter-TSS (NR_152217)	-88.0	NR_152217	100126243.0	Mm.440600	NR_152217	ENSMUSG00000110357	A030001D20Rik	1110025D03Rik	RIKEN cDNA A030001D20 gene	ncRNA	8.5	16.0	11.5	200.0	21.5	3.0	5.0	8.5
Merged-chr2-3323342-4	chr2	3323246	3323446	+	952.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008708, intron 11 of 13)	intron (NM_008708, intron 11 of 13)	9282.0	NM_001013376	227522.0	Mm.293948	NM_001013376	ENSMUSG00000049950	Rpp38	C330006A15Rik	ribonuclease P/MRP 38 subunit	protein-coding	33.5	12.0	13.5	456.5	45.5	18.5	22.0	14.5
Merged-chr11-61760730-4	chr11	61760671	61760871	+	795.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144806, intron 1 of 11)	B3|SINE|B2	1317.0	NM_144806	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	7.5	18.5	6.5	78.5	24.5	5.5	6.0	8.0
Merged-chr11-79060131-3	chr11	79060048	79060248	+	878.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348207)	promoter-TSS (NM_001348207)	-312.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	1.0	4.0	0.0	29.0	32.5	8.5	5.5	5.5
Merged-chr6-120472095-4	chr6	120472001	120472201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008359, exon 2 of 13)	exon (NM_008359, exon 2 of 13)	8904.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	73.0	90.5	99.5	1372.0	154.5	36.0	78.0	45.0
Merged-chr13-37537925-2	chr13	37537824	37538024	+	870.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	192579.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	0.5	3.0	4.0	11.0	32.0	5.5	4.5	7.5
Merged-chr10-17772658-4	chr10	17772563	17772763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23556.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	57.5	104.5	68.0	727.0	284.0	99.5	114.0	94.5
Merged-chr5-125484213-7	chr5	125484070	125484270	+	957.228577	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030210, intron 2 of 17)	B2_Mm1a|SINE|B2	8297.0	NM_030210	78894.0	Mm.431573	NM_030210	ENSMUSG00000029482	Aacs	2210408B16Rik|SUR5	acetoacetyl-CoA synthetase	protein-coding	12.0	19.5	15.0	102.5	60.5	31.0	23.5	35.0
Merged-chr5-134486103-3	chr5	134486005	134486205	+	855.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29389.0	NM_001081464	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	3.5	6.5	1.0	82.0	25.0	5.5	14.0	5.5
Merged-chr1-65112662-1	chr1	65112562	65112762	+	1000.0	f0_c57.idr	intron (NM_175293, intron 5 of 7)	intron (NM_175293, intron 5 of 7)	-9299.0	NM_007774	12964.0	Mm.26904	NM_007774	ENSMUSG00000044429	Cryga	Cryg-4|DGcry-4	crystallin, gamma A	protein-coding	12.0	27.0	15.5	193.5	58.0	19.5	22.5	31.5
Merged-chr13-97559855-4	chr13	97559730	97559930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046157)	promoter-TSS (NR_046157)	-170.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	54.5	105.5	54.0	947.0	147.5	51.5	65.0	48.5
Merged-chr6-113659851-4	chr6	113659731	113659931	+	963.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	21364.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	19.0	48.5	39.0	484.0	49.0	15.5	27.0	16.5
Merged-chr10-118110222-4	chr10	118110137	118110337	+	951.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31550.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	9.0	10.0	21.0	401.5	29.0	16.0	26.0	27.5
Merged-chr1-135659693-4	chr1	135659595	135659795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60368.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	163.0	171.0	143.5	2413.5	160.0	73.5	98.0	113.5
Merged-chr3-135670710-3	chr3	135670619	135670819	+	901.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 1 of 24)	intron (NM_008689, intron 1 of 24)	20828.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	6.5	10.5	7.5	81.5	32.5	11.5	13.0	25.5
Merged-chr4-138066509-4	chr4	138066388	138066588	+	927.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 4 of 34)	intron (NM_001256195, intron 4 of 34)	68663.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	25.0	32.5	18.5	308.0	40.0	9.0	9.5	17.0
Merged-chr2-32138041-4	chr2	32137935	32138135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-13113.0	NM_172661	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	184.0	292.0	123.5	2287.0	445.5	176.5	163.0	172.5
Merged-chr2-105676289-3	chr2	105676173	105676373	+	844.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013627, exon 1 of 13)	5' UTR (NM_013627, exon 1 of 13)	144.0	NM_001244202	18508.0	Mm.3608	NM_013627	ENSMUSG00000027168	Pax6	1500038E17Rik|AEY11|Dey|Gsfaey11|Pax-6|Sey	paired box 6	protein-coding	11.5	10.0	10.0	121.0	3.0	1.5	2.0	7.0
Merged-chr8-124912128-4	chr8	124912016	124912216	+	897.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053207, intron 3 of 4)	intron (NM_053207, intron 3 of 4)	14230.0	NM_001111141	244666.0	Mm.482915	NM_001111141	ENSMUSG00000031986	Sprtn	Gm505	SprT-like N-terminal domain	protein-coding	44.5	32.0	34.5	571.5	24.5	9.0	13.5	25.0
Merged-chr3-89339569-4	chr3	89339465	89339665	+	913.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009614)	TTS (NM_009614)	-1537.0	NM_007910	13639.0	Mm.16332	NM_007910	ENSMUSG00000028040	Efna4	EFL-4|Epl4|LERK-4	ephrin A4	protein-coding	4.0	18.5	2.0	135.0	27.0	4.5	14.0	16.0
Merged-chr7-3595394-4	chr7	3595276	3595476	+	816.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20781.0	NM_175632	232790.0	Mm.358882	NM_175632	ENSMUSG00000054594	Oscar	mOSCAR|mOSCAR-M1|mOSCAR-M2|mOSCAR-M3	osteoclast associated receptor	protein-coding	17.5	26.5	7.0	122.0	31.0	9.0	18.5	15.0
Merged-chr2-132269415-4	chr2	132269327	132269527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	6279.0	NM_138651	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	55.0	96.5	80.5	1114.0	142.0	50.5	88.5	71.5
Merged-chr9-57521666-3	chr9	57521577	57521777	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007747, intron 1 of 4)	CpG	445.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	33.0	58.0	47.0	402.0	90.5	36.0	22.5	34.0
Merged-chr3-30995831-4	chr3	30995755	30995955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008857)	promoter-TSS (NM_008857)	84.0	NM_008857	18759.0	Mm.291554	NM_008857	ENSMUSG00000037643	Prkci	2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165	protein kinase C, iota	protein-coding	55.5	102.5	125.5	1364.0	111.0	44.5	76.0	58.5
Merged-chr6-57521078-4	chr6	57520976	57521176	+	912.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175523, intron 3 of 6)	intron (NM_175523, intron 3 of 6)	14350.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	9.0	22.5	14.5	263.0	34.5	8.5	23.0	14.0
Merged-chr10-86990766-4	chr10	86990664	86990864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 3 of 68)	intron (NM_138673, intron 3 of 68)	17178.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	35.5	53.5	123.5	1336.0	180.5	31.5	87.0	70.0
Merged-chr4-136140492-4	chr4	136140410	136140610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3312.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	119.0	191.0	122.0	1768.5	390.5	125.5	212.5	132.5
Merged-chr16-87479210-3	chr16	87479107	87479307	+	968.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024258, exon 14 of 18)	exon (NM_024258, exon 14 of 18)	16662.0	NM_009840	12469.0	Mm.328673	NM_009840	ENSMUSG00000025613	Cct8	AI132397|Cctq|Tcpq	chaperonin containing Tcp1, subunit 8 (theta)	protein-coding	9.0	3.5	15.5	198.5	7.5	7.0	9.5	8.5
Merged-chr17-84169529-4	chr17	84169442	84169642	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	18405.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	14.0	25.0	15.0	56.5	45.0	11.0	9.0	4.0
Merged-chr19-8880921-4	chr19	8880825	8881025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160356)	promoter-TSS (NM_001160356)	8.0	NM_001160356	107197.0	Mm.381181	NM_001160356	ENSMUSG00000071654	Uqcc3	AI462493|Cbp4	ubiquinol-cytochrome c reductase complex assembly factor 3	protein-coding	51.5	53.5	36.5	573.0	74.0	38.5	56.0	29.5
Merged-chr1-151601548-4	chr1	151601449	151601649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	30176.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	106.5	271.0	101.0	1072.0	259.5	104.5	140.0	55.0
Merged-chr11-55077491-4	chr11	55077377	55077577	+	955.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177471, intron 1 of 6)	intron (NM_177471, intron 1 of 6)	654.0	NM_177471	52570.0	Mm.22361	NM_177471	ENSMUSG00000049588	Ccdc69	2210021E03Rik|D11Ertd461e	coiled-coil domain containing 69	protein-coding	33.0	17.5	13.0	294.0	34.0	12.5	17.5	16.5
Merged-chr10-84401335-4	chr10	84401229	84401429	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 2 of 6)	intron (NM_001004363, intron 2 of 6)	39142.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	6.0	16.0	10.5	186.0	33.5	7.0	7.5	15.5
Merged-chr8-80963280-2	chr8	80963162	80963362	+	602.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51644.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	7.5	8.5	6.0	140.5	5.0	1.0	1.0	5.5
Merged-chr12-55302686-4	chr12	55302602	55302802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025373)	promoter-TSS (NM_025373)	65.0	NM_025373	66132.0	Mm.383213	NM_025373	ENSMUSG00000021023	1110008L16Rik	Kiaa0391|Mrpp3|mKIAA0391	RIKEN cDNA 1110008L16 gene	protein-coding	71.5	88.0	71.5	945.5	110.0	47.5	72.5	42.5
Merged-chr19-53284622-4	chr19	53284515	53284715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25891.0	NM_001008542	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	47.0	58.5	64.0	758.0	154.0	56.0	86.0	71.0
Merged-chr10-117710198-4	chr10	117710101	117710301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010786, intron 1 of 11)	CpG-1528	557.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	80.0	77.5	77.5	997.0	163.0	61.0	56.0	80.0
Merged-chr2-160622086-4	chr2	160621985	160622185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23812.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	37.0	46.0	78.5	1156.0	101.5	39.5	36.5	37.0
Merged-chr14-121878474-4	chr14	121878382	121878582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131000)	promoter-TSS (NR_131000)	22.0	NR_131000	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	248.0	507.5	286.5	3850.0	848.0	339.5	399.0	261.5
Merged-chr7-4080724-4	chr7	4080612	4080812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033568, intron 6 of 8)	intron (NR_033568, intron 6 of 8)	-17508.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	43.5	88.5	50.0	634.5	92.5	50.5	80.5	53.0
Merged-chr11-69261455-4	chr11	69261376	69261576	+	967.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24454.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	19.0	15.5	23.5	677.5	52.0	13.0	21.5	20.5
Merged-chr3-135690919-4	chr3	135690816	135691016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 1 of 24)	CpG	631.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	29.0	42.5	43.0	420.0	85.0	33.0	20.5	41.5
Merged-chr1-139422263-4	chr1	139422170	139422370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172643)	promoter-TSS (NM_172643)	-113.0	NM_172643	226470.0	Mm.119711	NM_172643	ENSMUSG00000033964	Zbtb41	8430415N23Rik|9430031N01|9830132G07Rik|AI316857	zinc finger and BTB domain containing 41	protein-coding	154.5	175.5	137.0	2153.0	221.0	93.0	134.0	98.0
Merged-chr1-152554014-2	chr1	152553914	152554114	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 6 of 17)	intron (NM_016846, intron 6 of 17)	71203.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	31.0	45.0	32.0	416.5	72.0	30.0	27.0	52.0
Merged-chr10-80557534-2	chr10	80557391	80557591	+	893.0499880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_025852, intron 1 of 14)	intron (NM_025852, intron 1 of 14)	4069.0	NM_025852	66932.0	Mm.1116	NM_025852	ENSMUSG00000047417	Rexo1	1700021P10Rik|2610511M11Rik|AW050347|EloA-BP1|Rex1|Tceb3bp1	REX1, RNA exonuclease 1	protein-coding	7.0	9.0	4.0	103.0	13.5	4.5	7.5	9.5
Merged-chr9-65188792-3	chr9	65188690	65188890	+	868.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25900.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	8.0	7.5	1.0	74.0	27.5	7.0	13.5	8.5
Merged-chr8-46765137-10	chr8	46765042	46765242	+	893.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	25397.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	31.5	27.5	17.0	211.5	57.5	24.5	8.0	19.0
Merged-chr17-31289277-3	chr17	31289156	31289356	+	683.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6227.0	NM_153062	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	13.5	13.5	1.5	133.5	16.5	5.0	4.5	7.0
Merged-chr19-21274950-4	chr19	21274800	21275000	+	930.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 1 of 5)	intron (NM_009551, intron 1 of 5)	2622.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	13.5	18.0	33.5	116.5	40.5	9.0	20.0	13.0
Merged-chr14-34401361-2	chr14	34401261	34401461	+	646.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153127, intron 6 of 6)	intron (NM_153127, intron 6 of 6)	25857.0	NM_153127	105450.0	Mm.272673	NM_153127	ENSMUSG00000041445	Mmrn2	AA986839|ENDOGLYX1|Emilin3|EndoGlyx-1	multimerin 2	protein-coding	6.0	5.0	5.0	59.5	5.0	9.0	6.0	3.5
Merged-chr14-19417463-4	chr14	19417396	19417596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	185091.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	53.5	46.0	87.5	2375.5	47.5	27.5	20.0	47.0
Merged-chr1-152622984-4	chr1	152622839	152623039	+	985.1979369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	2278.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	18.5	10.5	10.0	168.0	34.0	10.5	9.5	15.0
Merged-chr7-120128233-4	chr7	120128107	120128307	+	756.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17084.0	NM_011775	22787.0	Mm.6510	NM_011775	ENSMUSG00000030911	Zp2	Zp-2	zona pellucida glycoprotein 2	protein-coding	5.5	5.0	3.5	127.5	12.5	8.5	9.5	10.0
Merged-chr11-80177737-2	chr11	80177637	80177837	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 10 of 10)	intron (NM_172133, intron 10 of 10)	-6135.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	36.0	45.5	29.0	410.5	61.0	31.0	45.0	40.5
Merged-chr7-88243250-4	chr7	88243148	88243348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34837.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	103.5	153.5	99.5	1463.5	229.0	77.5	97.0	71.5
Merged-chr3-153260797-4	chr3	153260710	153260910	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	37839.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	24.5	16.0	25.5	297.5	48.0	17.5	22.0	12.5
Merged-chr2-4567183-4	chr2	4567067	4567267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 2 of 11)	intron (NM_001177844, intron 2 of 11)	7413.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	54.5	54.5	51.5	697.5	110.5	50.0	51.0	51.5
Merged-chr17-35021303-4	chr17	35021219	35021419	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347347, intron 8 of 16)	intron (NM_001347347, intron 8 of 16)	4740.0	NM_001347347	27762.0	Mm.56895	NM_138582	ENSMUSG00000007030	Vwa7	C6orf27|D17H6S56E-3|G7c|NG37	von Willebrand factor A domain containing 7	protein-coding	2.5	7.5	5.5	132.0	26.0	11.5	7.5	8.0
Merged-chr16-38799342-2	chr16	38799203	38799403	+	797.5	f0_balb.idr|f1_balb.idr	intron (NM_178924, intron 1 of 7)	intron (NM_178924, intron 1 of 7)	900.0	NM_178924	22268.0	Mm.130793	NM_178924	ENSMUSG00000049436	Upk1b	AI413235|Tspan20|UPIb|Upk1	uroplakin 1B	protein-coding	11.5	7.5	5.0	136.0	3.5	0.0	0.5	1.0
Merged-chr9-21525358-4	chr9	21525257	21525457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_206536)	promoter-TSS (NM_206536)	-820.0	NM_001198794	382062.0	Mm.325205	NM_206536	ENSMUSG00000057191	AB124611	Gm1706	cDNA sequence AB124611	protein-coding	48.5	63.5	62.5	1001.0	115.5	28.5	40.5	40.0
Merged-chr13-54218469-4	chr13	54218356	54218556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 2 of 3)	intron (NR_153432, intron 2 of 3)	26323.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	85.0	127.5	97.5	1672.0	246.0	100.0	110.0	109.5
Merged-chr10-72655366-4	chr10	72655279	72655479	+	889.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293683, intron 1 of 7)	intron (NM_001293683, intron 1 of 7)	533.0	NM_001293683	52696.0	Mm.62876	NM_025635	ENSMUSG00000019923	Zwint	2010007E07Rik|2600001N01Rik|D10Ertd749e|Zwint-1	ZW10 interactor	protein-coding	16.5	17.0	11.5	136.5	33.5	19.0	5.5	12.0
Merged-chr7-142057024-4	chr7	142056941	142057141	+	820.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357705, intron 1 of 4)	intron (NM_001357705, intron 1 of 4)	3812.0	NM_001347560	101513.0	Mm.53259	NM_028308	ENSMUSG00000025147	Mob2	1110017M21Rik|2700078K21Rik|AI256456|Mmh	MOB kinase activator 2	protein-coding	5.5	24.0	4.0	109.0	23.0	14.5	5.0	6.5
Merged-chr2-4503295-2	chr2	4503195	4503395	+	994.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	B3A|SINE|B2	-56459.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	3.5	4.5	1.0	63.5	10.5	5.0	7.0	12.0
Merged-chr8-14997791-4	chr8	14997700	14997900	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037736, intron 27 of 27)	intron (NM_001037736, intron 27 of 27)	-13225.0	NM_029116	74901.0	Mm.46675	NM_029116	ENSMUSG00000055675	Kbtbd11	2900016B01Rik|4930465M17Rik|mKIAA0711	kelch repeat and BTB (POZ) domain containing 11	protein-coding	12.5	12.0	10.5	262.0	17.0	13.0	16.5	13.0
Merged-chr2-167959601-2	chr2	167959501	167959701	+	698.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	27274.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	5.0	6.5	5.0	144.5	6.0	1.0	5.5	6.5
Merged-chr7-67242184-4	chr7	67242084	67242284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291195, intron 8 of 10)	intron (NM_001291195, intron 8 of 10)	19568.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	54.5	112.5	68.0	1127.0	166.0	76.0	83.5	62.0
Merged-chr2-129315069-4	chr2	129314964	129315164	+	911.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5092.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	12.5	17.5	11.0	220.5	59.5	10.5	9.0	14.0
Merged-chr17-34655799-4	chr17	34655713	34655913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_017406)	TTS (NM_017406)	8667.0	NM_017406	12915.0	Mm.4068	NM_017406	ENSMUSG00000015461	Atf6b	AA617266|ATF6beta|Creb-rp|Crebl1	activating transcription factor 6 beta	protein-coding	18.0	43.5	26.0	328.5	114.0	55.0	39.5	57.0
Merged-chr14-33203958-4	chr14	33203846	33204046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-12877.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	50.0	83.5	53.0	926.0	72.0	32.0	28.5	32.5
Merged-chr7-141560561-3	chr7	141560433	141560633	+	862.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1647.0	NM_001357068	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	4.5	5.5	8.5	61.5	9.5	3.5	2.0	7.5
Merged-chr10-75834527-4	chr10	75834418	75834618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010361, exon 1 of 5)	5' UTR (NM_010361, exon 1 of 5)	363.0	NM_010361	14872.0	Mm.24118	NM_010361	ENSMUSG00000033318	Gstt2	AI266894|Yrs|mGSTT2	glutathione S-transferase, theta 2	protein-coding	26.0	36.5	21.0	407.0	71.0	19.5	28.5	36.0
Merged-chr10-122570839-4	chr10	122570728	122570928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040616)	promoter-TSS (NR_040616)	-937.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	23.0	25.5	30.0	575.5	69.5	27.5	29.5	35.0
Merged-chr10-44676716-4	chr10	44676615	44676815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-217967.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	75.0	70.5	35.5	435.5	158.0	49.0	49.0	29.0
Merged-chr6-114875273-4	chr6	114875171	114875371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 3 of 5)	intron (NM_001356371, intron 3 of 5)	46550.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	164.0	235.0	165.0	2037.5	290.0	125.0	126.5	111.5
Merged-chr5-99204364-2	chr5	99204264	99204464	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48563.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	10.5	9.5	5.0	70.5	19.5	4.0	2.0	3.0
Merged-chr18-12760413-4	chr18	12760324	12760524	+	929.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252490, intron 10 of 13)	intron (NM_001252490, intron 10 of 13)	19069.0	NM_027687	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	16.0	13.5	17.0	278.5	30.0	9.5	20.0	25.5
Merged-chr2-133442765-3	chr2	133442645	133442845	+	799.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109414.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	15.5	6.5	13.0	105.0	12.5	8.0	3.0	3.0
Merged-chr1-191875909-4	chr1	191875873	191876073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30808.0	NM_009579	22782.0	Mm.9024	NM_009579	ENSMUSG00000037434	Slc30a1	AI839647|C130040I11Rik|Znt1	solute carrier family 30 (zinc transporter), member 1	protein-coding	77.0	88.0	118.5	1575.0	99.0	26.0	57.0	41.0
Merged-chr10-121475654-7	chr10	121475485	121475685	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	CpG	665.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	16.0	17.5	23.5	271.5	27.0	15.0	18.0	25.0
Merged-chr17-87140924-1	chr17	87140824	87141024	+	578.0	f0_balb.idr	Intergenic	Intergenic	33245.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	7.0	10.0	5.5	53.0	5.0	3.0	1.5	2.5
Merged-chr4-145025336-1	chr4	145025236	145025436	+	750.0	f0_balb.idr	intron (NM_001276465, intron 65 of 69)	intron (NM_001276465, intron 65 of 69)	132199.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	4.5	4.5	7.5	91.0	2.5	0.0	0.0	5.0
Merged-chr9-64173506-4	chr9	64173396	64173596	+	986.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026507)	promoter-TSS (NM_026507)	109.0	NM_024212	67891.0	Mm.280083	NM_024212	ENSMUSG00000032399	Rpl4	2010004J23Rik	ribosomal protein L4	protein-coding	9.5	46.0	20.0	269.0	54.5	21.0	18.0	38.5
Merged-chr8-46497773-4	chr8	46497665	46497865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302163, intron 2 of 20)	intron (NM_001302163, intron 2 of 20)	6799.0	NM_001302163	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	38.0	87.0	51.5	1090.0	96.5	17.0	47.0	36.5
Merged-chr11-105502530-4	chr11	105502413	105502613	+	930.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45778.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	34.5	14.5	14.5	333.5	22.5	17.0	14.0	18.5
Merged-chr16-3703088-4	chr16	3702984	3703184	+	800.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	15040.0	NM_001161790	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	13.0	13.5	11.0	134.0	33.0	5.0	14.5	19.5
Merged-chr13-12589192-2	chr13	12589105	12589305	+	688.625	f0_balb.idr|f0_c57.idr	intron (NM_026184, intron 6 of 15)	B3|SINE|B2	23322.0	NM_026184	67475.0	Mm.358706	NM_026184	ENSMUSG00000057069	Ero1lb	1300013B24Rik|1700065B09Rik|AI447560|Ero1b|ero1-beta	ERO1-like beta (S. cerevisiae)	protein-coding	15.0	10.5	12.5	122.0	29.0	21.5	8.5	5.5
Merged-chr2-33468568-4	chr2	33468483	33468683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027947)	promoter-TSS (NM_027947)	-51.0	NM_001355612	71834.0	Mm.44186	NM_027947	ENSMUSG00000026788	Zbtb43	1700010E06Rik|Zfp297b|mKIAA0414	zinc finger and BTB domain containing 43	protein-coding	69.5	96.0	59.5	812.0	204.5	84.0	73.5	86.0
Merged-chr13-111686265-4	chr13	111686171	111686371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172593)	promoter-TSS (NM_172593)	93.0	NM_172593	218613.0	Mm.31012	NM_172593	ENSMUSG00000032727	Mier3	5730509D14|AU015422|D130064H19Rik	MIER family member 3	protein-coding	45.5	70.5	42.0	965.5	116.0	52.5	76.5	49.0
Merged-chr17-13008215-2	chr17	13008115	13008315	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_013671, exon 2 of 5)	exon (NM_013671, exon 2 of 5)	376.0	NM_013671	20656.0	Mm.290876	NM_013671	ENSMUSG00000006818	Sod2	MnSOD|Sod-2	superoxide dismutase 2, mitochondrial	protein-coding	83.5	162.0	90.0	929.0	212.5	109.5	99.0	71.5
Merged-chr3-101010810-4	chr3	101010710	101010910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 6 of 8)	intron (NM_001167906, intron 6 of 8)	18685.0	NM_001167906	630146.0	Mm.190915	NM_001099332	ENSMUSG00000086564	Cd101	EWI-101|Gm1016|Gm734|Igsf2	CD101 antigen	protein-coding	35.5	38.5	32.0	506.0	43.5	21.5	28.5	30.0
Merged-chr16-36636940-4	chr16	36636847	36637047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	MTD|LTR|ERVL-MaLR	29130.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	92.0	106.0	69.0	1108.0	149.0	74.5	94.0	74.0
Merged-chr2-145740224-4	chr2	145740119	145740319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	intron (NR_033220, intron 3 of 3)	39024.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	37.0	48.5	45.0	650.0	73.0	27.0	56.5	29.5
Merged-chr12-38788785-4	chr12	38788679	38788879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163154, intron 1 of 9)	intron (NM_001163154, intron 1 of 9)	5068.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	124.0	159.5	144.5	2817.5	196.5	77.5	131.0	104.0
Merged-chr8-61875479-4	chr8	61875364	61875564	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 2 of 21)	intron (NM_001293772, intron 2 of 21)	27226.0	NM_001081390	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	16.0	42.5	19.0	474.5	45.5	18.5	13.0	17.0
Merged-chr6-16855244-3	chr6	16855151	16855351	+	943.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 2 of 6)	intron (NM_031198, intron 2 of 6)	43190.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	10.5	15.0	6.5	169.5	22.0	11.0	3.5	7.0
Merged-chr7-13054775-4	chr7	13054660	13054860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290453)	promoter-TSS (NM_001290453)	4.0	NM_001290452	109889.0	Mm.10103	NM_145819	ENSMUSG00000030380	Mzf1	Mzf-2|Mzf2|Zfp121|Zfp98|Znf42	myeloid zinc finger 1	protein-coding	148.5	232.0	156.5	2694.5	373.0	140.0	226.5	135.0
Merged-chr11-77381771-3	chr11	77381678	77381878	+	898.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 1 of 13)	intron (NM_001291190, intron 1 of 13)	33498.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	5.5	23.0	10.0	45.5	31.5	7.5	10.5	1.5
Merged-chr2-156253040-2	chr2	156252926	156253126	+	633.833374	f0_c57.idr|f1_c57bl6.idr	intron (NM_172674, intron 3 of 17)	intron (NM_172674, intron 3 of 17)	56379.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	2.0	1.5	2.0	6.5	28.0	15.0	13.0	18.5
Merged-chr2-91070530-7	chr2	91070462	91070662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026721)	promoter-TSS (NM_026721)	-247.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	148.5	188.0	127.0	1414.0	283.5	129.0	124.5	145.5
Merged-chr5-136949740-4	chr5	136949606	136949806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3569.0	NM_001163243	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	52.5	93.5	44.0	599.0	139.0	43.0	46.5	24.5
Merged-chr11-59848219-4	chr11	59848111	59848311	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134029, exon 1 of 5)	exon (NM_134029, exon 1 of 5)	138.0	NM_134029	103850.0	Mm.41761	NM_134029	ENSMUSG00000032615	Nt5m	2010013E09Rik|AI846937|dNT-2	5',3'-nucleotidase, mitochondrial	protein-coding	22.0	29.5	23.0	390.0	29.5	17.0	13.5	24.0
Merged-chr15-25826747-3	chr15	25826709	25826909	+	794.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B1|LTR|ERVL	-16489.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	4.0	1.5	6.0	35.5	10.0	7.5	7.0	5.0
Merged-chr11-102467240-4	chr11	102467136	102467336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010575, intron 4 of 29)	CpG	2647.0	NM_010575	16399.0	Mm.26646	NM_010575	ENSMUSG00000034664	Itga2b	AI172977|CD41|CD41B|GpIIb|alphaIIb	integrin alpha 2b	protein-coding	83.5	126.0	82.0	1257.5	203.5	62.0	86.5	59.0
Merged-chr18-12169574-3	chr18	12169502	12169702	+	678.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029623, intron 2 of 19)	intron (NM_029623, intron 2 of 19)	872.0	NM_029623	76482.0	Mm.196596	NM_029623	ENSMUSG00000024410	3110002H16Rik	2400010D15Rik|Mic-1|Mic1|Rmc1|Wdr98	RIKEN cDNA 3110002H16 gene	protein-coding	7.5	7.5	15.5	67.5	5.5	1.5	3.0	10.5
Merged-chr2-164833606-4	chr2	164833439	164833639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008906)	promoter-TSS (NM_008906)	57.0	NM_001082974	415115.0	Mm.474586	NM_001082974	ENSMUSG00000039873	Neurl2	Neur2|Ozz|Ozz-E3	neuralized E3 ubiquitin protein ligase 2	protein-coding	68.5	84.0	73.5	852.0	141.0	60.0	57.5	82.0
Merged-chr3-121603009-4	chr3	121602912	121603112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	40473.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	25.0	34.0	30.0	472.0	72.5	31.5	33.5	32.0
Merged-chr6-136940176-4	chr6	136940059	136940259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301303)	promoter-TSS (NM_001301303)	-632.0	NM_001301303	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	72.0	72.0	51.0	992.0	192.5	76.5	108.0	61.0
Merged-chr19-36918975-4	chr19	36918881	36919081	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028263, exon 2 of 2)	exon (NM_028263, exon 2 of 2)	618.0	NM_028263	72514.0	Mm.41674	NM_028263	ENSMUSG00000047632	Fgfbp3	2610306H15Rik|Fgf-bp3	fibroblast growth factor binding protein 3	protein-coding	20.5	32.5	24.5	418.0	51.0	17.0	28.0	29.0
Merged-chr9-59547265-4	chr9	59547163	59547363	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	7723.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	6.0	11.5	14.0	147.5	33.0	2.0	11.0	7.0
Merged-chr2-76114957-4	chr2	76114864	76115064	+	943.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 9 of 19)	intron (NM_001081033, intron 9 of 19)	-132997.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	11.5	14.5	1.0	123.0	50.0	14.5	19.5	17.0
Merged-chr5-32138574-4	chr5	32138475	32138675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008037, intron 1 of 3)	intron (NM_008037, intron 1 of 3)	2103.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	41.0	64.5	56.0	717.0	110.5	19.0	58.0	58.5
Merged-chr11-82015324-4	chr11	82015227	82015427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-20250.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	62.0	103.5	46.0	525.0	153.5	67.5	45.5	45.5
Merged-chr16-30395302-4	chr16	30395178	30395378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-6748.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	37.0	49.0	27.5	577.0	68.0	22.5	43.0	29.5
Merged-chr9-113932235-4	chr9	113932130	113932330	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013699, intron 2 of 15)	intron (NM_013699, intron 2 of 15)	1296.0	NM_013699	22221.0	Mm.28052	NM_013699	ENSMUSG00000009741	Ubp1	Cp2b|LBP-1a|LBP-1b|NF2d9	upstream binding protein 1	protein-coding	14.5	28.0	20.5	367.5	51.5	14.0	23.0	20.5
Merged-chr5-67304005-4	chr5	67303904	67304104	+	903.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2951.0	NM_178651	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	11.5	13.0	15.0	367.0	38.5	10.0	19.0	24.5
Merged-chr17-83708465-2	chr17	83708365	83708565	+	826.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001171053, exon 2 of 14)	exon (NM_001171053, exon 2 of 14)	2302.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	5.5	7.0	6.5	80.5	16.5	4.5	2.5	1.0
Merged-chr5-32013571-3	chr5	32013466	32013666	+	915.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 10 of 11)	intron (NM_144541, intron 10 of 11)	-122906.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	3.0	18.5	7.5	126.0	21.0	8.5	10.0	12.0
Merged-chr10-62947051-4	chr10	62946956	62947156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152862)	promoter-TSS (NR_152862)	27.0	NM_177372	327762.0	Mm.21492	NM_177372	ENSMUSG00000036875	Dna2	Dna2l|E130315B21Rik	DNA replication helicase/nuclease 2	protein-coding	24.5	38.0	29.0	537.5	66.0	30.5	32.5	20.0
Merged-chr1-44118872-4	chr1	44118726	44118926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023645)	promoter-TSS (NM_023645)	-53.0	NM_023645	72050.0	Mm.281714	NM_023645	ENSMUSG00000026047	Kdelc1	1810049A15Rik|5730416C13Rik|EP58|Kdel1	KDEL (Lys-Asp-Glu-Leu) containing 1	protein-coding	91.0	122.5	117.5	1442.5	160.0	54.0	106.0	69.5
Merged-chr4-95211991-4	chr4	95211876	95212076	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-159754.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	16.0	49.5	14.5	203.0	38.0	11.5	12.0	13.5
Merged-chr7-123371626-4	chr7	123371525	123371725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1710.0	NM_001316713	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	61.5	76.5	55.5	690.0	171.0	75.5	56.0	69.0
Merged-chr18-36670321-4	chr18	36670218	36670418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164406)	promoter-TSS (NM_001164406)	-7.0	NM_025291	24068.0	Mm.29058	NM_025291	ENSMUSG00000006050	Sra1	AA959952|Sra|Srap|Straa1|Strra1	steroid receptor RNA activator 1	protein-coding	97.5	125.5	72.5	1134.0	223.5	90.5	145.0	84.0
Merged-chr11-31718308-3	chr11	31718220	31718420	+	998.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46458.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	17.0	23.5	66.0	960.0	12.0	5.0	10.5	10.5
Merged-chr15-79756556-3	chr15	79756455	79756655	+	798.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045069, exon 4 of 4)	non-coding (NR_045069, exon 4 of 4)	13857.0	NR_045069	100504191.0	Mm.421420	NR_045069	ENSMUSG00000087543	Gm16576	-	predicted gene 16576	ncRNA	10.0	5.0	11.5	106.5	10.0	4.5	1.5	2.0
Merged-chr5-149678370-4	chr5	149678260	149678460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081204, exon 1 of 15)	exon (NM_001081204, exon 1 of 15)	103.0	NM_001081204	381694.0	Mm.45060	NM_001081204	ENSMUSG00000051950	B3glct	B3galtl|Gm1057	beta-3-glucosyltransferase	protein-coding	85.0	120.0	166.5	1261.5	270.0	122.0	109.0	101.0
Merged-chr18-39251097-4	chr18	39250974	39251174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 17 of 21)	intron (NM_001361073, intron 17 of 21)	236171.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	96.5	125.5	88.5	1096.5	179.0	63.0	76.0	55.0
Merged-chr7-34389727-4	chr7	34389644	34389844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360654)	promoter-TSS (NM_001360654)	-39.0	NM_025948	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	170.0	295.5	141.0	2173.5	431.0	153.5	208.0	148.0
Merged-chr5-43865969-4	chr5	43865850	43866050	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2859.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	8.5	13.0	12.0	126.0	27.5	7.5	16.5	21.0
Merged-chr4-40147693-4	chr4	40147607	40147807	+	767.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007386, intron 1 of 20)	ORR1C1|LTR|ERVL-MaLR	4442.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	13.5	7.0	9.5	86.0	31.5	8.5	9.0	13.0
Merged-chr19-6552541-2	chr19	6552441	6552641	+	722.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9471.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	6.5	7.0	3.5	37.5	11.0	7.5	9.5	8.5
Merged-chr12-3426080-4	chr12	3425945	3426145	+	857.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172421)	promoter-TSS (NM_172421)	702.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	8.5	9.0	5.5	110.5	8.5	7.0	9.0	15.0
Merged-chr9-121719509-2	chr9	121719409	121719609	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_010918, exon 2 of 17)	exon (NM_010918, exon 2 of 17)	328.0	NM_010918	18087.0	Mm.32842	NM_010918	ENSMUSG00000032525	Nktr	5330401F18Rik|D9Wsu172e	natural killer tumor recognition sequence	protein-coding	43.5	97.5	86.0	600.0	178.5	45.5	71.0	42.0
Merged-chr9-22226554-4	chr9	22226479	22226679	+	846.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028420, intron 1 of 4)	B2_Mm2|SINE|B2	867.0	NM_001164624	235047.0	Mm.290849	NM_172763	ENSMUSG00000057982	Zfp809	BB114266|C330026E23	zinc finger protein 809	protein-coding	4.5	9.5	15.0	30.0	20.5	9.0	8.0	14.0
Merged-chr13-95883063-4	chr13	95882980	95883180	+	798.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	8842.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	18.0	19.5	12.5	298.0	22.0	9.5	10.0	3.5
Merged-chr8-116275727-4	chr8	116275640	116275840	+	884.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-229275.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	7.5	5.0	15.5	151.0	33.5	10.5	15.0	1.5
Merged-chr1-105170333-4	chr1	105170238	105170438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-185669.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	47.0	91.5	76.0	930.5	126.5	59.5	103.0	78.0
Merged-chr7-35157690-3	chr7	35157603	35157803	+	975.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28682.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	12.0	27.0	24.5	253.5	24.0	5.5	10.0	7.5
Merged-chr11-29718704-4	chr11	29718575	29718775	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024226, exon 1 of 7)	5' UTR (NM_024226, exon 1 of 7)	112.0	NM_024226	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	8.0	6.0	4.5	201.5	70.5	15.5	41.0	29.5
Merged-chr10-8866324-5	chr10	8866194	8866394	+	763.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	19776.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.5	9.0	6.0	102.5	0.0	3.5	4.5	3.5
Merged-chr9-96395331-4	chr9	96395204	96395404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30873.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	83.0	88.0	95.0	1288.0	219.5	77.5	98.0	73.0
Merged-chr1-164135500-4	chr1	164135399	164135599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011347, intron 8 of 15)	intron (NM_011347, intron 8 of 15)	-16336.0	NM_007976	14067.0	Mm.12900	NM_007976	ENSMUSG00000026579	F5	AI173222|Cf-5|Cf5	coagulation factor V	protein-coding	44.0	61.0	91.5	1190.0	137.5	47.5	44.5	43.5
Merged-chr9-43106062-4	chr9	43105965	43106165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027144)	promoter-TSS (NM_027144)	-347.0	NM_027144	69632.0	Mm.275266	NM_027144	ENSMUSG00000059495	Arhgef12	2310014B11Rik|AU019857|Larg|mKIAA0382	Rho guanine nucleotide exchange factor (GEF) 12	protein-coding	55.5	64.5	42.5	474.0	167.5	76.0	55.5	68.0
Merged-chr11-6562518-4	chr11	6562360	6562560	+	954.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190344, intron 2 of 9)	intron (NM_001190344, intron 2 of 9)	2277.0	NM_001190344	216527.0	Mm.221271	NM_146014	ENSMUSG00000000378	Ccm2	BC029157	cerebral cavernous malformation 2	protein-coding	34.5	25.0	34.5	568.0	24.0	12.5	10.0	15.0
Merged-chr16-35739752-4	chr16	35739652	35739852	+	960.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 2 of 8)	intron (NM_153550, intron 2 of 8)	29604.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	56.0	66.0	42.0	564.5	101.0	37.5	32.0	12.0
Merged-chr14-67272546-4	chr14	67272431	67272631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360202, intron 6 of 15)	intron (NM_001360202, intron 6 of 15)	37887.0	NM_001360202	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	50.5	82.0	46.5	722.5	119.5	45.5	54.5	29.5
Merged-chr1-180313077-4	chr1	180312972	180313172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17404.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	96.0	176.0	77.0	834.5	321.5	142.5	98.0	87.0
Merged-chr7-43343352-4	chr7	43343256	43343456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7985.0	NM_001271019	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	40.5	41.5	32.5	605.0	54.5	28.5	36.0	24.0
Merged-chr6-6217149-4	chr6	6217045	6217245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015829)	promoter-TSS (NM_015829)	28.0	NM_015829	50799.0	Mm.24513	NM_015829	ENSMUSG00000015112	Slc25a13	AI785475|Ctrn	solute carrier family 25 (mitochondrial carrier, adenine nucleotide translocator), member 13	protein-coding	67.0	118.5	75.5	1602.0	82.5	29.0	56.0	55.0
Merged-chr1-125471578-4	chr1	125471571	125471771	+	948.699402	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-35944.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	8.5	13.0	10.0	110.5	21.0	4.5	7.0	6.5
Merged-chr2-132107790-4	chr2	132107689	132107889	+	912.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	37319.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	18.5	13.5	18.5	177.0	25.0	11.5	17.0	17.0
Merged-chr6-134173523-4	chr6	134173395	134173595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	137795.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	39.5	64.0	41.0	671.5	41.0	16.5	33.5	21.5
Merged-chr12-116435459-4	chr12	116435380	116435580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 17 of 28)	Lx8|LINE|L1	30078.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	37.0	52.0	58.0	691.0	204.0	66.0	87.0	84.5
Merged-chr14-14703631-3	chr14	14703502	14703702	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360513, intron 1 of 25)	CpG	577.0	NM_001360509	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	32.5	25.5	33.5	310.0	47.5	25.5	18.5	32.5
Merged-chr7-89269889-4	chr7	89269781	89269981	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 4 of 14)	intron (NM_001360746, intron 4 of 14)	68906.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	22.0	28.0	29.5	453.0	47.0	13.5	16.0	17.0
Merged-chr15-97110839-3	chr15	97110737	97110937	+	765.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54881.0	NM_027052	69354.0	Mm.250980	NM_027052	ENSMUSG00000022464	Slc38a4	1110012E16Rik|1700012A18Rik|Ata3|mATA3|mNAT3	solute carrier family 38, member 4	protein-coding	5.5	6.5	8.5	78.0	13.0	0.5	4.0	9.5
Merged-chr6-47453883-3	chr6	47453788	47453988	+	950.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012042)	promoter-TSS (NM_012042)	156.0	NM_001355551	26965.0	Mm.87611	NM_012042	ENSMUSG00000029686	Cul1	Cul-1	cullin 1	protein-coding	12.0	25.5	11.0	164.0	31.0	11.0	4.0	15.5
Merged-chr11-102189612-4	chr11	102189495	102189695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175935)	promoter-TSS (NM_175935)	-104.0	NM_175935	68401.0	Mm.22385	NM_175935	ENSMUSG00000034793	G6pc3	0710001K01Rik|AU019276|AU045429|AV128920|AW545836|UGRP	glucose 6 phosphatase, catalytic, 3	protein-coding	78.5	115.0	55.0	917.5	168.0	69.0	69.0	68.0
Merged-chr10-127535576-2	chr10	127535479	127535679	+	957.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-1020.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	19.0	20.5	26.0	148.0	19.5	14.5	12.0	19.5
Merged-chr3-60469018-2	chr3	60468918	60469118	+	828.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3812.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	6.0	13.0	11.5	17.0	18.0	8.0	5.5	6.0
Merged-chr10-40099506-4	chr10	40099334	40099534	+	961.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	L1MC1|LINE|L1	42820.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	25.0	75.0	23.5	127.5	67.0	25.5	17.0	8.5
Merged-chr16-64876989-4	chr16	64876930	64877130	+	778.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	25029.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	8.0	4.0	7.5	207.5	8.5	7.5	8.0	7.5
Merged-chr1-131366070-4	chr1	131365965	131366165	+	870.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	ORR1E|LTR|ERVL-MaLR	-86502.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	16.5	31.0	17.0	116.5	22.0	11.0	12.5	6.5
Merged-chr12-3806465-4	chr12	3806379	3806579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271753)	promoter-TSS (NM_001271753)	-501.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	70.5	118.0	53.5	852.5	183.0	67.5	74.0	40.5
Merged-chr15-53141195-4	chr15	53141111	53141311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	204972.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	41.5	67.5	44.5	261.0	96.5	38.0	32.5	27.0
Merged-chr17-56473662-4	chr17	56473563	56473763	+	808.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 1 of 27)	intron (NM_001252455, intron 1 of 27)	2817.0	NM_001252455	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	12.0	14.0	5.5	69.5	18.5	6.0	10.0	21.5
Merged-chr7-49454792-4	chr7	49454668	49454868	+	963.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 7 of 37)	intron (NM_175272, intron 7 of 37)	182067.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	29.5	52.0	41.5	563.5	26.0	13.5	29.5	25.5
Merged-chr3-38143710-4	chr3	38143603	38143803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64416.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	31.5	44.0	41.0	863.5	87.0	31.5	60.5	51.0
Merged-chr17-45563388-3	chr17	45563277	45563477	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357105)	promoter-TSS (NM_001357105)	-559.0	NM_001357105	73836.0	Mm.289716	NM_028662	ENSMUSG00000037089	Slc35b2	1110003M08Rik|AA407792|AI842275|PAPST1|Slc35b1	solute carrier family 35, member B2	protein-coding	36.0	75.0	10.0	206.5	53.0	24.0	23.0	18.0
Merged-chr4-88390696-6	chr4	88390595	88390795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 35 of 43)	intron (NM_001081184, intron 35 of 43)	48231.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	28.5	39.0	7.0	245.0	77.5	18.0	19.0	17.5
Merged-chr2-127336047-4	chr2	127335946	127336146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010090)	promoter-TSS (NM_010090)	-113.0	NM_010090	13537.0	Mm.4729	NM_010090	ENSMUSG00000027368	Dusp2	PAC1	dual specificity phosphatase 2	protein-coding	169.5	374.5	235.0	2682.5	618.0	249.0	263.0	214.5
Merged-chr7-55869407-4	chr7	55869305	55869505	+	953.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	ORR1B2|LTR|ERVL-MaLR	27334.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	8.5	16.5	3.5	163.5	38.0	14.5	22.5	31.5
Merged-chr12-73876546-4	chr12	73876433	73876633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-24791.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	22.0	69.5	25.5	245.0	116.5	37.5	22.5	32.0
Merged-chr7-128068041-4	chr7	128067932	128068132	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 2 of 29)	intron (NM_008401, intron 2 of 29)	5392.0	NM_008401	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	20.5	30.0	18.0	364.5	48.5	21.5	29.5	28.0
Merged-chr18-43493889-3	chr18	43493787	43493987	+	627.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55601.0	NM_001291455	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	10.0	9.0	7.5	101.0	14.5	7.5	9.5	6.0
Merged-chr19-40754517-2	chr19	40754417	40754617	+	840.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-76762.0	NM_172839	240665.0	Mm.309	NM_172839	ENSMUSG00000025010	Ccnj	D430039C20Rik	cyclin J	protein-coding	8.5	5.5	6.0	86.0	5.5	6.0	4.0	2.5
Merged-chr16-57301766-4	chr16	57301674	57301874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025599)	TTS (NM_025599)	-8923.0	NM_027651	71027.0	Mm.158563	NM_027651	ENSMUSG00000022753	Tmem30c	4933401B01Rik|4933409A18Rik|Cdc50c	transmembrane protein 30C	protein-coding	26.5	23.5	40.5	522.0	96.0	19.5	36.0	35.5
Merged-chr15-96758034-4	chr15	96757961	96758161	+	963.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58333.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	32.5	13.0	9.0	183.5	29.0	6.0	13.0	17.0
Merged-chr13-51651740-4	chr13	51651642	51651842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029279)	promoter-TSS (NM_029279)	34.0	NM_029279	75420.0	Mm.275981	NM_029279	ENSMUSG00000035139	Secisbp2	2210413N07Rik|2810012K13Rik|SBP2	SECIS binding protein 2	protein-coding	95.0	169.5	92.0	1119.5	292.5	131.5	110.5	130.0
Merged-chr5-137601158-4	chr5	137601060	137601260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030037)	promoter-TSS (NM_030037)	-101.0	NM_030037	68929.0	Mm.41355	NM_030037	ENSMUSG00000037221	Mospd3	1190005J19Rik|5133401H10Rik|Gtig2|R124	motile sperm domain containing 3	protein-coding	81.0	183.0	73.0	1253.0	296.0	95.5	85.0	95.0
Merged-chr8-25091300-4	chr8	25091207	25091407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 1 of 11)	intron (NM_031257, intron 1 of 11)	10504.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	48.0	92.0	60.0	875.0	128.0	47.0	65.5	64.5
Merged-chr4-9669231-4	chr4	9669138	9669338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023066)	promoter-TSS (NM_023066)	-76.0	NM_001177849	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	326.5	432.5	342.0	4553.5	703.5	320.0	419.0	279.5
Merged-chr1-154094483-4	chr1	154094377	154094577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106710.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	32.5	57.0	45.5	501.5	104.0	40.0	40.0	40.5
Merged-chr2-6715883-4	chr2	6715796	6715996	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	5766.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	15.5	9.0	26.0	530.0	45.0	7.5	26.0	20.0
Merged-chr9-21918242-4	chr9	21918133	21918333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324531)	promoter-TSS (NM_001324531)	-50.0	NM_001324531	19340.0	Mm.260157	NM_031874	ENSMUSG00000019066	Rab3d	C130057E11Rik	RAB3D, member RAS oncogene family	protein-coding	153.5	199.0	106.5	1892.5	317.0	131.5	124.5	80.0
Merged-chr5-95924714-4	chr5	95924589	95924789	+	977.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32250.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	34.0	64.0	40.0	670.0	57.5	12.5	15.0	19.5
Merged-chr16-85173228-2	chr16	85173145	85173345	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001198825, intron 1 of 15)	CpG	462.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	19.0	28.0	41.0	375.0	47.5	17.0	25.0	20.0
Merged-chr6-117802240-3	chr6	117802137	117802337	+	787.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38944.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	6.0	9.0	27.5	280.5	4.0	4.0	4.5	2.0
Merged-chr12-73560260-2	chr12	73560160	73560360	+	600.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11777.0	NR_044985	73644.0	Mm.369885	NR_044985	ENSMUSG00000113800	2210039B01Rik	-	RIKEN cDNA 2210039B01 gene	ncRNA	4.5	2.0	1.5	32.5	13.0	4.5	5.5	6.5
Merged-chr5-24069147-4	chr5	24069037	24069237	+	986.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31453.0	NM_026448	52323.0	Mm.273768	NM_026448	ENSMUSG00000028986	Klhl7	2700038B03Rik|D5Ertd363e|SBBI26	kelch-like 7	protein-coding	19.5	27.0	30.5	591.5	54.5	17.0	46.0	26.5
Merged-chr14-7964665-4	chr14	7964569	7964769	+	962.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007870)	TTS (NM_007870)	29513.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	15.5	30.5	10.0	212.5	34.5	20.5	28.5	19.0
Merged-chr1-64485544-4	chr1	64485445	64485645	+	898.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-47259.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	11.5	5.5	11.5	234.0	24.0	3.5	17.0	18.0
Merged-chr2-52420162-3	chr2	52420046	52420246	+	689.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182994, intron 1 of 5)	intron (NM_182994, intron 1 of 5)	4728.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	5.5	7.5	7.0	65.0	14.5	8.5	7.5	5.0
Merged-chr1-34801715-4	chr1	34801605	34801805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183019)	promoter-TSS (NM_183019)	-17.0	NM_183019	226970.0	Mm.41604	NM_183019	ENSMUSG00000037509	Arhgef4	9330140K16Rik|Asef	Rho guanine nucleotide exchange factor (GEF) 4	protein-coding	59.0	72.0	39.5	739.0	114.0	38.5	51.0	56.0
Merged-chr11-102456056-6	chr11	102455969	102456169	+	817.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010575, intron 27 of 29)	CpG-2677	-8406.0	NM_199200	217219.0	Mm.259924	NM_199200	ENSMUSG00000034685	Fam171a2	-	family with sequence similarity 171, member A2	protein-coding	11.5	19.0	4.0	48.0	12.5	6.0	9.0	9.5
Merged-chr13-47190158-4	chr13	47190074	47190274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 1 of 7)	intron (NM_146042, intron 1 of 7)	-3829.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	53.5	103.0	100.5	1562.0	111.5	40.5	56.5	58.0
Merged-chr11-95258683-4	chr11	95258598	95258798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2831.0	NM_053093	93670.0	Mm.40085	NM_053093	ENSMUSG00000020872	Tac4	AW489379|PPT-C	tachykinin 4	protein-coding	37.5	37.5	25.0	391.0	70.0	20.5	37.5	23.0
Merged-chr17-17583858-1	chr17	17583758	17583958	+	901.0	f1_balb.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	40631.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	4.0	5.0	4.5	82.5	10.5	5.0	5.5	10.5
Merged-chr2-127248603-3	chr2	127248534	127248734	+	940.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025296)	promoter-TSS (NM_025296)	659.0	NM_175145	69470.0	Mm.200889	NM_175145	ENSMUSG00000034850	Tmem127	2310003P10Rik|AI314202|AI317350	transmembrane protein 127	protein-coding	13.0	18.5	12.5	110.5	18.0	8.0	7.5	14.5
Merged-chr17-24696104-4	chr17	24695965	24696165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357836)	promoter-TSS (NM_001357836)	91.0	NM_023040	11692.0	Mm.28124	NM_023040	ENSMUSG00000040888	Gfer	Alr|ERV1	growth factor, augmenter of liver regeneration	protein-coding	53.0	100.0	52.0	787.5	169.5	63.0	63.0	32.5
Merged-chr12-16896282-4	chr12	16896178	16896378	+	758.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	intron (NM_009072, intron 1 of 32)	1300.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	12.0	14.5	5.5	92.5	23.0	12.5	10.5	9.5
Merged-chr12-59132734-4	chr12	59132632	59132832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165253, intron 1 of 22)	intron (NM_001165253, intron 1 of 22)	1279.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	40.5	50.5	47.5	935.0	156.5	35.5	42.5	60.5
Merged-chr11-101449156-3	chr11	101449046	101449246	+	758.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027320, intron 1 of 6)	RLTR12E|LTR|ERVK	734.0	NM_027320	70110.0	Mm.45558	NM_027320	ENSMUSG00000010358	Ifi35	2010008K16Rik|AW986054|IFP35|ifi-35	interferon-induced protein 35	protein-coding	5.0	10.5	5.5	114.5	14.0	9.0	6.5	3.5
Merged-chr13-95374179-4	chr13	95374029	95374229	+	671.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025630, intron 1 of 13)	intron (NM_025630, intron 1 of 13)	1228.0	NM_025630	66549.0	Mm.36785	NM_025630	ENSMUSG00000021681	Aggf1	2010009L17Rik|2310029P06Rik|AW112072|Peg3|VG5Q	angiogenic factor with G patch and FHA domains 1	protein-coding	7.5	8.0	5.0	126.0	23.5	2.5	9.0	12.0
Merged-chr9-32475204-4	chr9	32475100	32475300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 2 of 8)	intron (NM_008026, intron 2 of 8)	66252.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	97.5	112.0	93.0	1792.5	216.5	62.5	122.0	90.5
Merged-chr2-144270655-4	chr2	144270559	144270759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289630)	promoter-TSS (NM_001289630)	-87.0	NM_024225	69178.0	Mm.273379	NM_024225	ENSMUSG00000027423	Snx5	0910001N05Rik|1810032P22Rik|AU019504|D2Ertd52e	sorting nexin 5	protein-coding	107.0	169.0	151.0	1108.5	297.0	115.0	161.5	151.0
Merged-chr8-110950491-1	chr8	110950391	110950591	+	588.0	f0_balb.idr	intron (NM_009179, intron 1 of 6)	intron (NM_009179, intron 1 of 6)	30626.0	NM_009179	20444.0	Mm.200388	NM_009179	ENSMUSG00000031749	St3gal2	AI429591|AW822065|ST3GalII|Siat5	ST3 beta-galactoside alpha-2,3-sialyltransferase 2	protein-coding	4.5	6.0	11.0	88.0	1.5	0.5	3.0	3.0
Merged-chr6-17385655-4	chr6	17385554	17385754	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamRep605|LTR?|LTR?	78014.0	NM_001243064	12389.0	Mm.28278	NM_007616	ENSMUSG00000007655	Cav1	Cav|Cav-1	caveolin 1, caveolae protein	protein-coding	5.5	9.5	7.5	73.5	34.5	4.0	11.0	4.5
Merged-chr14-47367462-3	chr14	47367246	47367446	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6514.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	6.5	5.5	6.5	72.5	7.5	3.5	1.0	1.5
Merged-chr12-3868273-4	chr12	3868198	3868398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 4 of 22)	intron (NM_007872, intron 4 of 22)	-6054.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	80.0	114.5	97.5	1419.0	205.0	56.5	62.0	75.5
Merged-chr17-27932525-3	chr17	27932425	27932625	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	URR1A|DNA|hAT-Charlie	23219.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	32.0	35.0	48.5	597.0	12.5	3.5	6.5	2.5
Merged-chr13-45052449-4	chr13	45052352	45052552	+	890.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50356.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	6.5	17.5	19.5	153.0	44.5	16.5	12.0	3.5
Merged-chr16-91778144-4	chr16	91778057	91778257	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	48786.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	5.0	19.0	8.0	235.0	21.0	3.5	10.0	18.0
Merged-chr12-40569737-1	chr12	40569637	40569837	+	568.0	f0_balb.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	123684.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	16.5	4.5	8.5	87.5	5.0	4.5	2.5	4.5
Merged-chr2-116980697-3	chr2	116980603	116980803	+	734.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80551.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	14.0	12.5	4.0	87.5	21.5	5.0	7.0	8.5
Merged-chr14-17659143-4	chr14	17659034	17659234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1826.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	38.5	41.0	30.0	458.0	75.0	23.5	37.5	31.0
Merged-chr17-31994807-3	chr17	31994709	31994909	+	758.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028902, intron 6 of 7)	intron (NM_028902, intron 6 of 7)	39699.0	NM_028902	74377.0	Mm.75856	NM_028902	ENSMUSG00000002076	Hsf2bp	4932437G14Rik	heat shock transcription factor 2 binding protein	protein-coding	17.0	5.5	11.0	96.0	13.5	5.5	7.0	7.0
Merged-chr13-5870054-4	chr13	5869951	5870151	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011803, exon 4 of 4)	3' UTR (NM_011803, exon 4 of 4)	8562.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	21.0	26.0	17.5	265.0	89.5	21.5	15.5	32.0
Merged-chr4-99200208-4	chr4	99200117	99200317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 1 of 10)	intron (NM_175029, intron 1 of 10)	6070.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	59.5	104.5	55.5	1108.5	353.5	115.0	139.0	152.5
Merged-chr9-50711560-4	chr9	50711450	50711650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311069, intron 1 of 19)	intron (NM_001311069, intron 1 of 19)	16434.0	NM_178118	330938.0	Mm.82598	NM_178118	ENSMUSG00000032064	Dixdc1	4930563F16Rik|BC048182|Ccd1|Ccd1Aalpha1L|Ccd1Abeta1L|Ccd1BalphaL|Ccd1BbetaL|Ccd1CL|mKIAA1735	DIX domain containing 1	protein-coding	49.0	69.5	45.5	496.0	94.5	22.5	27.0	30.5
Merged-chr13-101851019-3	chr13	101850922	101851122	+	674.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82805.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	5.5	7.0	5.0	94.0	15.0	9.5	7.5	11.5
Merged-chr11-118423455-4	chr11	118423330	118423530	+	857.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4312.0	NM_001267592	76025.0	Mm.177551	NM_029502	ENSMUSG00000025575	Cant1	5830420C20Rik|Apy1h|D11Bwg0554e|Entpd8|SCAN-1|Shapy	calcium activated nucleotidase 1	protein-coding	11.0	19.0	0.5	111.0	27.0	11.5	13.5	9.5
Merged-chr13-74010513-8	chr13	74010324	74010524	+	859.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182839, intron 1 of 3)	intron (NM_182839, intron 1 of 3)	1005.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	10.0	10.0	7.5	82.5	28.0	7.0	5.5	15.5
Merged-chr5-59845926-4	chr5	59845829	59846029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140073.0	NR_040683	71057.0	Mm.50817	NR_040682	ENSMUSG00000106013	4933402J10Rik	-	RIKEN cDNA 4933402J10 gene	ncRNA	54.5	64.5	50.0	1365.0	105.5	30.5	36.5	38.0
Merged-chr15-33212023-4	chr15	33211914	33212114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018755, intron 2 of 8)	MIR|SINE|MIR	128885.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	31.5	43.5	25.0	469.0	108.5	33.5	48.5	44.0
Merged-chr14-31385445-2	chr14	31385341	31385541	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	32236.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	19.5	46.0	29.0	340.0	65.0	16.5	30.5	36.0
Merged-chr5-62845010-4	chr5	62844894	62845094	+	868.195801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 6 of 8)	intron (NM_001170705, intron 6 of 8)	31171.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	12.0	22.0	11.0	262.5	28.5	13.5	15.0	11.0
Merged-chr13-56641965-2	chr13	56641865	56642065	+	755.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32379.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	8.0	13.5	7.5	39.0	12.0	9.0	11.5	2.0
Merged-chr4-12501270-4	chr4	12501173	12501373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-329258.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	63.5	65.5	71.5	1398.5	178.5	58.0	56.0	50.0
Merged-chr15-6390872-4	chr15	6390725	6390925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	4077.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	48.5	31.0	53.5	702.0	45.5	20.5	23.0	26.5
Merged-chr7-66392718-4	chr7	66392636	66392836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053080, exon 13 of 13)	exon (NM_053080, exon 13 of 13)	-4395.0	NM_146191	233328.0	Mm.33284	NM_146191	ENSMUSG00000015133	Lrrk1	AW319595|C230002E15Rik|D130026O16Rik|mKIAA1790	leucine-rich repeat kinase 1	protein-coding	79.5	125.5	104.0	1383.0	180.5	63.0	71.5	77.5
Merged-chr5-90339783-4	chr5	90339690	90339890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198010, intron 1 of 32)	intron (NM_198010, intron 1 of 32)	26395.0	NM_030886	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	42.5	38.0	44.0	794.0	75.0	28.0	63.0	26.5
Merged-chr10-8061908-3	chr10	8061797	8061997	+	859.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105774.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	6.0	11.5	9.0	144.5	9.5	4.0	4.5	4.5
Merged-chr2-26628456-2	chr2	26628356	26628556	+	665.224976	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019833)	promoter-TSS (NM_019833)	-1.0	NM_019833	56279.0	Mm.279863	NM_019833	ENSMUSG00000036186	Fam69b	AB030186|AW209000|B230317C12Rik|PIP49	family with sequence similarity 69, member B	protein-coding	4.5	14.5	4.5	44.0	6.0	2.5	6.5	6.0
Merged-chr15-68068445-4	chr15	68068319	68068519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	190437.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	72.0	108.5	62.5	1456.0	145.5	30.0	68.0	64.0
Merged-chr6-13070582-4	chr6	13070470	13070670	+	862.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027992, intron 2 of 8)	intron (NM_027992, intron 2 of 8)	811.0	NM_027992	71900.0	Mm.27742	NM_027992	ENSMUSG00000029571	Tmem106b	2310036D22Rik|5830455K21Rik|6430519M21Rik|AI428776|AI661344	transmembrane protein 106B	protein-coding	11.0	8.0	16.5	184.5	20.5	6.0	10.5	9.5
Merged-chr19-37963606-4	chr19	37963492	37963692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 19 of 53)	intron (NM_001302140, intron 19 of 53)	79985.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	62.0	103.5	41.5	802.5	160.5	50.5	54.5	92.0
Merged-chr5-134965589-2	chr5	134965489	134965689	+	727.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18655.0	NM_009903	12740.0	Mm.7339	NM_009903	ENSMUSG00000047501	Cldn4	Cep-r|Cpetr|Cpetr1	claudin 4	protein-coding	5.5	10.0	7.0	59.0	13.0	2.0	2.5	5.0
Merged-chr3-52990271-3	chr3	52990183	52990383	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026225, intron 15 of 18)	intron (NM_026225, intron 15 of 18)	26940.0	NM_026225	67542.0	Mm.249548	NM_026225	ENSMUSG00000027742	Cog6	4933405E16Rik|AU018618|mKIAA1134	component of oligomeric golgi complex 6	protein-coding	1.0	25.5	4.0	120.5	20.0	6.0	15.0	9.5
Merged-chr12-34789227-4	chr12	34789134	34789334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	MLT1F|LTR|ERVL-MaLR	127861.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	39.0	41.0	43.0	876.5	120.5	48.0	58.5	49.5
Merged-chr3-98057141-4	chr3	98057029	98057229	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	43591.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	22.5	29.5	26.0	235.5	30.0	8.5	14.0	4.5
Merged-chr17-50192576-4	chr17	50192459	50192659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2062.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	48.0	100.5	35.0	904.5	79.0	31.0	44.0	27.5
Merged-chr11-20112446-4	chr11	20112358	20112558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146243, intron 1 of 8)	CpG	493.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	104.5	147.0	84.5	1584.5	316.5	118.5	120.0	124.0
Merged-chr10-12867015-4	chr10	12866901	12867101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5266.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	107.5	179.5	114.5	1831.0	275.5	97.0	176.5	125.0
Merged-chr19-40993555-4	chr19	40993449	40993649	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008528, intron 1 of 16)	RSINE1|SINE|B4	986.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	14.0	15.5	12.0	386.0	23.5	5.5	5.0	12.0
Merged-chr5-66062589-4	chr5	66062512	66062712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	MIRb|SINE|MIR	35567.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	99.0	142.5	107.0	1566.5	235.0	96.5	74.0	94.0
Merged-chr4-86948969-3	chr4	86948869	86949069	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	74555.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	30.5	45.5	27.5	577.5	13.5	2.0	1.0	0.0
Merged-chr12-100053393-4	chr12	100053291	100053491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	-58940.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	56.5	73.0	60.5	833.0	60.0	49.5	42.5	42.0
Merged-chr13-20489908-2	chr13	20489808	20490008	+	867.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_198093, intron 1 of 6)	intron (NM_198093, intron 1 of 6)	16918.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	6.0	3.0	8.0	89.5	19.5	7.5	9.0	11.0
Merged-chr15-8705104-4	chr15	8705000	8705200	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 2 of 9)	intron (NM_148938, intron 2 of 9)	5707.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	15.5	25.5	9.5	157.5	53.0	20.5	27.0	17.5
Merged-chr11-77361170-3	chr11	77361059	77361259	+	821.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 1 of 13)	intron (NM_001291190, intron 1 of 13)	12879.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	13.0	6.0	10.5	99.0	14.5	6.5	3.0	5.0
Merged-chr10-87552880-4	chr10	87552775	87552975	+	931.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008777, intron 3 of 12)	intron (NM_008777, intron 3 of 12)	31080.0	NM_008777	18478.0	Mm.263539	NM_008777	ENSMUSG00000020051	Pah	AW106920	phenylalanine hydroxylase	protein-coding	20.5	19.0	10.5	171.0	33.5	10.5	10.0	18.5
Merged-chr7-83720481-4	chr7	83720353	83720553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 2 of 18)	intron (NM_001360088, intron 2 of 18)	11945.0	NM_001360087	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	21.5	21.0	16.0	266.0	103.0	37.5	59.0	48.0
Merged-chr1-131153159-4	chr1	131153048	131153248	+	965.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136070)	promoter-TSS (NM_001136070)	-59.0	NM_001136070	16865.0	Mm.276294	NM_010709	ENSMUSG00000026427	Eif2d	D1Ertd5e|Lgtn	eukaryotic translation initiation factor 2D	protein-coding	14.0	27.5	18.0	368.5	73.0	13.5	21.0	18.5
Merged-chr13-74004393-4	chr13	74004303	74004503	+	886.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-5016.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	9.5	14.5	12.5	271.0	37.0	1.5	13.5	14.0
Merged-chr10-89744271-4	chr10	89744161	89744361	+	676.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029166)	promoter-TSS (NM_029166)	-730.0	NM_029166	75089.0	Mm.268922	NM_029166	ENSMUSG00000019951	Uhrf1bp1l	2010319N22Rik|4930506D01Rik|AA589495|C80672|E030041M21Rik|mKIAA0701	UHRF1 (ICBP90) binding protein 1-like	protein-coding	10.5	1.0	4.5	161.0	15.5	6.0	12.0	12.0
Merged-chr17-48118802-4	chr17	48118722	48118922	+	815.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27485.0	NM_001177897	328829.0	Mm.466999	NM_177824	ENSMUSG00000073386	9830107B12Rik	Trem5	RIKEN cDNA 9830107B12 gene	protein-coding	9.5	17.0	17.0	267.0	18.0	10.5	10.5	11.0
Merged-chr11-30799679-4	chr11	30799576	30799776	+	665.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134013, intron 3 of 46)	B3A|SINE|B2	27901.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	11.0	17.0	11.0	117.5	21.0	4.5	11.0	10.5
Merged-chr11-80185369-4	chr11	80185347	80185547	+	929.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028019, intron 1 of 4)	L1MB7|LINE|L1	1575.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	22.5	58.0	12.0	33.5	26.5	12.0	7.0	12.0
Merged-chr8-70654316-4	chr8	70654263	70654463	+	847.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023217, intron 2 of 4)	intron (NM_023217, intron 2 of 4)	5375.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	8.5	6.5	8.5	217.0	11.5	5.0	5.5	14.5
Merged-chr2-11375263-4	chr2	11375189	11375389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040615, intron 1 of 2)	intron (NR_040615, intron 1 of 2)	23211.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	71.0	99.0	80.5	1203.5	204.0	66.5	120.5	98.0
Merged-chr15-59249018-3	chr15	59248920	59249120	+	819.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57928.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	5.5	15.0	6.0	113.5	7.0	3.0	7.5	5.5
Merged-chr2-131427160-4	chr2	131427063	131427263	+	974.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-64699.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	49.5	50.5	13.0	305.0	60.0	22.0	9.5	21.5
Merged-chr5-38480252-4	chr5	38480130	38480330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102414)	promoter-TSS (NM_001102414)	76.0	NM_001102414	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	22.5	33.5	35.0	306.5	57.5	30.5	49.0	38.5
Merged-chr19-4855173-4	chr19	4855091	4855291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019861)	promoter-TSS (NM_019861)	62.0	NM_019861	56464.0	Mm.29561	NM_019861	ENSMUSG00000083282	Ctsf	AI481912	cathepsin F	protein-coding	34.5	67.0	25.5	414.0	76.5	36.0	30.0	27.0
Merged-chr1-43321662-4	chr1	43321567	43321767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124084.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	95.5	145.5	124.5	1760.0	276.0	111.5	158.5	91.0
Merged-chr6-13052270-3	chr6	13052177	13052377	+	866.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17482.0	NM_027992	71900.0	Mm.27742	NM_027992	ENSMUSG00000029571	Tmem106b	2310036D22Rik|5830455K21Rik|6430519M21Rik|AI428776|AI661344	transmembrane protein 106B	protein-coding	8.0	7.0	7.0	42.5	34.0	6.5	7.5	18.0
Merged-chr6-134262233-4	chr6	134262147	134262347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 7 of 8)	intron (NM_001303102, intron 7 of 8)	-134082.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	158.5	305.5	168.5	1798.5	324.0	157.0	149.5	121.0
Merged-chr10-39420035-4	chr10	39419937	39420137	+	983.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	50238.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	20.5	12.5	27.0	451.5	55.5	17.0	26.0	24.5
Merged-chr9-116098740-2	chr9	116098660	116098860	+	765.25	f0_balb.idr|f0_c57.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	76603.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	17.0	19.5	17.0	125.0	15.0	3.0	10.5	16.0
Merged-chr7-110679995-4	chr7	110679905	110680105	+	832.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	52348.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	7.0	12.0	3.0	91.5	29.0	10.5	10.5	22.0
Merged-chr1-71938724-4	chr1	71938632	71938832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50620.0	NR_027658	667931.0	Mm.214128	NR_027658	ENSMUSG00000099707	Gm8883	EG667931|Gm554	predicted gene 8883	ncRNA	31.0	34.5	61.5	921.0	32.0	13.5	17.5	22.5
Merged-chr1-105092783-4	chr1	105092716	105092916	+	702.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-263191.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	5.0	6.0	4.0	123.0	29.0	6.5	12.0	8.5
Merged-chr8-69023533-4	chr8	69023434	69023634	+	831.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-65202.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	12.5	21.5	13.0	79.5	45.5	18.5	14.5	33.0
Merged-chr7-46985934-4	chr7	46985854	46986054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033461, intron 3 of 4)	(TG)n|Simple_repeat|Simple_repeat	9322.0	NR_033461	629141.0	Mm.229259	NR_033461	ENSMUSG00000056509	Gm9999	-	predicted gene 9999	ncRNA	23.5	36.0	24.0	379.5	75.5	27.0	42.5	32.5
Merged-chr7-82811228-4	chr7	82811129	82811329	+	989.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55585.0	NR_046004	77800.0	Mm.444811	NR_046004	ENSMUSG00000086690	4933406J10Rik	A930009F24Rik	RIKEN cDNA 4933406J10 gene	ncRNA	14.0	23.5	5.5	265.5	78.0	14.5	23.5	39.0
Merged-chr1-171502831-9	chr1	171502670	171502870	+	988.9021	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019484)	promoter-TSS (NM_019484)	-708.0	NM_019484	56009.0	Mm.389208	NM_019484	ENSMUSG00000060244	Alyref2	C130042O11Rik|REF2|Refbp2	Aly/REF export factor 2	protein-coding	8.5	16.0	7.0	90.0	49.5	20.0	16.0	21.5
Merged-chr8-85034873-4	chr8	85034754	85034954	+	940.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2061.0	NM_145390	212999.0	Mm.220357	NM_145390	ENSMUSG00000031691	Tnpo2	1110034O24Rik|AA414969|AI464345|AI852433|IPO3|Knpb2b|Kpnb2b|TRN2	transportin 2 (importin 3, karyopherin beta 2b)	protein-coding	13.0	17.5	9.5	192.0	58.0	19.5	18.0	18.5
Merged-chr11-45944391-2	chr11	45944320	45944520	+	816.666626	f0_balb.idr|f0_c57.idr	TTS (NM_001290737)	TTS (NM_001290737)	515.0	NM_028185	72290.0	Mm.249827	NM_028185	ENSMUSG00000044847	Lsm11	2210404M20Rik|AV079530	U7 snRNP-specific Sm-like protein LSM11	protein-coding	10.5	14.0	16.0	141.5	19.0	11.0	11.5	16.0
Merged-chr17-23803042-4	chr17	23802932	23803132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175229)	promoter-TSS (NM_175229)	-155.0	NM_175229	75956.0	Mm.5222	NM_175229	ENSMUSG00000039218	Srrm2	5033413A03Rik|AA410130|SRm300|mKIAA0324	serine/arginine repetitive matrix 2	protein-coding	272.0	465.0	282.5	3172.0	674.0	364.5	320.0	279.0
Merged-chr11-94677464-4	chr11	94677357	94677557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145828)	promoter-TSS (NM_145828)	36.0	NM_145828	217119.0	Mm.100638	NM_145828	ENSMUSG00000020868	Xylt2	E030002B02Rik|XT-II|XT2|xylT-II	xylosyltransferase II	protein-coding	56.5	87.0	45.0	655.5	162.0	62.5	67.5	65.5
Merged-chr3-145131457-3	chr3	145131366	145131566	+	743.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162538, intron 7 of 16)	intron (NM_001162538, intron 7 of 16)	12866.0	NM_025714	52184.0	Mm.259105	NM_025714	ENSMUSG00000028256	Odf2l	4733401D09Rik|9630045K08Rik|D3Ertd250e	outer dense fiber of sperm tails 2-like	protein-coding	13.5	5.5	14.5	81.5	8.0	7.5	2.0	7.0
Merged-chr5-77191850-4	chr5	77191756	77191956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19349.0	NM_001289767	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	17.5	46.0	29.0	303.0	133.5	52.5	69.5	59.5
Merged-chr9-66795613-4	chr9	66795535	66795735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177583)	promoter-TSS (NM_177583)	-212.0	NM_177583	208117.0	Mm.41291	NM_177583	ENSMUSG00000032375	Aph1b	2310057K14Rik|Aph1c	aph1 homolog B, gamma secretase subunit	protein-coding	185.0	392.5	243.0	3037.0	606.0	222.5	299.0	239.5
Merged-chr2-169703158-4	chr2	169703040	169703240	+	923.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	B1F|SINE|Alu	69494.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	7.0	7.5	11.5	119.5	19.5	15.0	15.5	24.0
Merged-chr9-96504245-4	chr9	96504161	96504361	+	802.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-25586.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	4.5	6.0	6.5	242.0	17.5	3.0	13.0	14.5
Merged-chr1-45881013-4	chr1	45880902	45881102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	44592.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	22.0	33.5	23.5	445.0	82.5	35.0	36.0	34.0
Merged-chr6-125433892-4	chr6	125433785	125433985	+	821.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53381.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	2.0	10.0	11.5	89.5	12.5	9.0	10.5	14.5
Merged-chr2-45346564-4	chr2	45346466	45346666	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-229124.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	9.0	11.0	5.5	128.0	33.0	15.5	17.0	31.0
Merged-chr8-39643713-3	chr8	39643617	39643817	+	765.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-1039.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	7.5	10.5	7.0	119.0	20.5	3.0	7.0	8.0
Merged-chr11-117780828-4	chr11	117780726	117780926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145439)	promoter-TSS (NM_145439)	-134.0	NM_145439	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	110.0	212.0	167.5	1641.0	231.0	106.5	135.5	82.0
Merged-chr11-97830110-4	chr11	97830034	97830234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 4 of 6)	intron (NM_010688, intron 4 of 6)	-10646.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	81.5	123.0	91.5	1001.5	200.5	63.5	75.5	63.0
Merged-chr6-114268919-4	chr6	114268830	114269030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13705.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	28.5	70.5	34.5	800.0	96.0	27.5	61.0	49.0
Merged-chr6-120820418-4	chr6	120820318	120820518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007510, intron 1 of 8)	intron (NM_007510, intron 1 of 8)	2280.0	NM_007510	11973.0	Mm.29045	NM_007510	ENSMUSG00000019210	Atp6v1e1	2410029D23Rik|Atp6e|Atp6e2|Atp6v1e|D6Ertd385e|Vma4|p31	ATPase, H+ transporting, lysosomal V1 subunit E1	protein-coding	51.0	106.0	58.0	622.0	105.0	47.0	44.0	44.5
Merged-chr7-38085955-7	chr7	38085862	38086062	+	883.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21528.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	14.0	7.0	9.0	113.5	14.0	2.0	9.0	17.5
Merged-chr2-170159071-6	chr2	170158883	170159083	+	937.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR2b|LTR|Gypsy	-16308.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	9.0	8.5	8.5	21.5	17.5	4.0	13.0	12.0
Merged-chr14-9828871-3	chr14	9828790	9828990	+	659.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 7 of 9)	intron (NM_001360141, intron 7 of 9)	-55205.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	4.5	5.5	9.0	107.0	3.5	1.5	3.0	0.5
Merged-chr10-78092851-3	chr10	78092725	78092925	+	888.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23457.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	6.5	4.5	0.0	40.5	26.0	7.0	6.5	16.0
Merged-chr16-21716786-4	chr16	21716689	21716889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-22124.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	32.0	73.5	38.0	346.0	54.0	7.5	29.5	19.0
Merged-chr5-8351477-4	chr5	8351374	8351574	+	953.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	16686.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	17.0	14.5	18.5	406.5	37.0	12.5	20.0	16.5
Merged-chr6-42433755-4	chr6	42433660	42433860	+	922.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207028)	promoter-TSS (NM_207028)	-775.0	NM_207028	387353.0	Mm.377914	NM_207028	ENSMUSG00000048284	Tas2r126	T2R12|T2R26|Tas2r26|Tas2r41|mGR26|mt2r35	taste receptor, type 2, member 126	protein-coding	7.5	21.0	11.0	211.0	38.0	8.0	12.5	8.5
Merged-chr4-46558882-4	chr4	46558768	46558968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 2 of 11)	intron (NM_001164804, intron 2 of 11)	7572.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	150.5	187.5	141.0	2588.5	243.0	77.5	123.5	118.0
Merged-chr7-16782627-4	chr7	16782524	16782724	+	887.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009201, intron 1 of 8)	intron (NM_009201, intron 1 of 8)	1278.0	NM_009201	20514.0	Mm.1056	NM_009201	ENSMUSG00000001918	Slc1a5	AAAT|ASCT2|ATBO|M7V1|M7VS1|R16|RDRC|Slc1a7	solute carrier family 1 (neutral amino acid transporter), member 5	protein-coding	15.0	10.5	9.0	184.5	26.5	8.0	10.0	10.5
Merged-chr12-16584243-4	chr12	16584152	16584352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355598, intron 1 of 20)	intron (NM_001355598, intron 1 of 20)	5518.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	77.0	115.5	87.5	952.0	51.0	26.5	24.5	23.5
Merged-chr19-41331790-4	chr19	41331590	41331790	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 3 of 16)	intron (NM_031376, intron 3 of 16)	53380.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	15.0	23.5	16.5	359.0	47.0	8.0	15.0	11.5
Merged-chr15-84685660-3	chr15	84685553	84685753	+	981.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146061, intron 1 of 7)	intron (NM_146061, intron 1 of 7)	4655.0	NM_146061	109270.0	Mm.291372	NM_146061	ENSMUSG00000036106	Prr5	AU043908|Arhgap8|C030017C09Rik|C78947|Protor-1|Protor1	proline rich 5 (renal)	protein-coding	31.5	34.0	15.5	412.0	13.0	7.0	10.5	12.5
Merged-chr16-30944290-4	chr16	30944192	30944392	+	865.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137140.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	18.5	18.5	13.0	156.0	24.5	16.0	17.5	16.5
Merged-chr5-88500668-1	chr5	88500568	88500768	+	642.0	f0_balb.idr	intron (NM_017468, intron 9 of 9)	intron (NM_017468, intron 9 of 9)	12693.0	NM_017468	13801.0	Mm.8014	NM_017468	ENSMUSG00000029286	Enam	abte	enamelin	protein-coding	4.5	6.0	6.5	63.0	17.0	3.0	6.5	4.5
Merged-chr11-116397590-3	chr11	116397498	116397698	+	995.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 1 of 18)	URR1B|DNA|hAT-Charlie	15434.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	7.5	4.5	1.0	48.5	57.0	19.0	16.5	18.5
Merged-chr2-26657465-3	chr2	26657360	26657560	+	889.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13822.0	NM_010695	16821.0	Mm.123925	NM_010695	ENSMUSG00000026919	Lcn4	A630045M08Rik|Vnsp2	lipocalin 4	protein-coding	9.0	5.0	10.0	166.5	14.5	5.5	5.5	5.0
Merged-chr8-12757463-4	chr8	12757406	12757606	+	720.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015804, intron 1 of 28)	CpG	490.0	NM_001293667	50770.0	Mm.257837	NM_015804	ENSMUSG00000031441	Atp11a	4930558F19Rik|AU040868|Atpc1h|Ih	ATPase, class VI, type 11A	protein-coding	3.0	7.0	3.0	101.0	14.5	8.0	8.0	17.0
Merged-chr3-100993865-4	chr3	100993756	100993956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167906, exon 9 of 9)	exon (NM_001167906, exon 9 of 9)	-24193.0	NM_001013026	74044.0	Mm.270961	NM_001013026	ENSMUSG00000033222	Ttf2	4632434F22Rik|8030447N19|AV218430	transcription termination factor, RNA polymerase II	protein-coding	25.5	35.0	33.5	245.0	59.5	19.0	37.0	26.5
Merged-chr6-84661261-1	chr6	84661161	84661361	+	842.0	f0_balb.idr	intron (NM_177077, intron 20 of 21)	L1MD3|LINE|L1	-67353.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	6.5	19.5	6.5	136.0	16.0	3.0	7.0	3.0
Merged-chr16-57257786-2	chr16	57257686	57257886	+	677.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B2|LTR|ERVK	-26320.0	NM_001358433	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	5.5	8.5	7.0	14.0	6.0	4.0	2.0	3.0
Merged-chr4-155235455-4	chr4	155235369	155235569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12934.0	NM_001357191	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	62.0	58.5	23.0	616.0	103.5	50.5	59.5	40.0
Merged-chr9-114787928-4	chr9	114787819	114788019	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5926.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	12.5	15.5	18.5	332.0	83.5	37.5	54.0	78.0
Merged-chr5-96209471-2	chr5	96209371	96209571	+	935.7999880000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053158)	promoter-TSS (NM_053158)	-644.0	NM_001039084	94061.0	Mm.295499	NM_053158	ENSMUSG00000029486	Mrpl1	2410002L03Rik|5830418D04Rik|AI462572|L1mt	mitochondrial ribosomal protein L1	protein-coding	11.5	11.0	4.5	53.0	10.0	3.5	2.5	6.5
Merged-chr7-45016271-4	chr7	45016207	45016407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008422)	promoter-TSS (NM_001008422)	-58.0	NM_001008422	233208.0	Mm.28298	NM_001008422	ENSMUSG00000038406	Scaf1	AI480556|SR-A1	SR-related CTD-associated factor 1	protein-coding	207.0	356.5	196.5	2135.5	618.5	259.5	262.5	252.0
Merged-chr4-35220295-3	chr4	35220239	35220439	+	939.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	intron (NM_001081343, intron 1 of 10)	5541.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	5.5	21.0	6.0	56.5	21.0	5.5	7.5	8.5
Merged-chr2-71378182-4	chr2	71378051	71378251	+	837.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-10597.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	3.5	16.0	8.5	90.5	43.0	10.0	7.5	24.0
Merged-chr9-41085374-3	chr9	41085282	41085482	+	897.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	-5876.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	6.0	22.0	5.5	81.0	41.0	15.0	13.0	2.0
Merged-chr14-19419374-4	chr14	19419305	19419505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	183182.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	49.0	35.5	68.0	764.5	95.5	36.0	38.5	61.5
Merged-chr6-31169562-4	chr6	31169450	31169650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 2 of 2)	intron (NR_110470, intron 2 of 2)	48924.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	52.5	158.0	52.0	514.0	139.5	47.5	45.0	24.5
Merged-chr11-18011344-4	chr11	18011266	18011466	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57396.0	NR_131915	102633673.0	Mm.396603	NR_131915	ENSMUSG00000086468	Etaa1os	2900053O20Rik|4930542E09Rik	Ewing tumor-associated antigen 1, opposite strand	ncRNA	29.5	51.5	22.0	500.0	30.5	12.0	22.0	11.0
Merged-chr8-70863325-4	chr8	70863170	70863370	+	817.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6262.0	NM_032397	84036.0	Mm.32074	NM_032397	ENSMUSG00000002908	Kcnn1	AI854248|KCa2.1|SK1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	protein-coding	4.5	10.5	9.5	41.5	23.5	8.5	8.0	2.5
Merged-chr7-19203165-4	chr7	19203060	19203260	+	969.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347582, intron 20 of 21)	intron (NM_001347582, intron 20 of 21)	-9378.0	NM_175668	319197.0	Mm.135984	NM_175668	ENSMUSG00000044317	Gpr4	-	G protein-coupled receptor 4	protein-coding	11.5	84.5	16.5	174.0	120.0	39.5	42.0	34.5
Merged-chr6-120479466-4	chr6	120479383	120479583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 11 of 12)	intron (NM_008359, intron 11 of 12)	14324.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	155.0	286.0	167.5	2319.0	337.5	122.0	170.5	151.0
Merged-chr9-42146603-1	chr9	42146503	42146703	+	550.0	f1_c57bl6.idr	Intergenic	Intergenic	-22306.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	5.5	5.0	2.0	40.0	8.5	8.0	4.5	4.5
Merged-chr10-94909549-4	chr10	94909469	94909669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 3 of 30)	intron (NM_018797, intron 3 of 30)	35009.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	90.5	179.0	132.0	1673.0	310.0	98.5	111.5	107.0
Merged-chr5-105393573-4	chr5	105393467	105393667	+	897.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-22208.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	19.5	17.0	9.0	105.0	56.0	13.0	17.0	9.0
Merged-chr5-112195946-2	chr5	112195846	112196046	+	765.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-10817.0	NR_045377	75569.0	Mm.243721	NR_045377	ENSMUSG00000101683	1700028D13Rik	-	RIKEN cDNA 1700028D13 gene	ncRNA	4.0	2.0	3.0	84.5	14.0	5.5	6.5	9.5
Merged-chr19-4058776-4	chr19	4058661	4058861	+	858.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001362043, exon 2 of 6)	exon (NM_001362043, exon 2 of 6)	686.0	NM_144869	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	22.5	16.0	14.5	130.5	14.0	12.5	8.5	15.5
Merged-chr6-88041364-1	chr6	88041264	88041464	+	603.0	f0_balb.idr	intron (NM_001293652, intron 1 of 7)	intron (NM_001293652, intron 1 of 7)	3653.0	NM_001293653	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	5.5	8.5	4.5	83.5	18.5	4.5	4.5	8.0
Merged-chr2-21183019-4	chr2	21182915	21183115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027728, intron 4 of 4)	intron (NM_027728, intron 4 of 4)	22350.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	94.5	86.0	121.5	1652.5	135.5	50.5	91.0	59.5
Merged-chr1-65089213-4	chr1	65089114	65089314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6924.0	NM_144761	12965.0	Mm.440053	NM_144761	ENSMUSG00000073658	Crygb	Cryg-3|DGcry-3|Nop	crystallin, gamma B	protein-coding	45.5	92.0	32.5	789.0	91.5	37.5	33.0	41.5
Merged-chr4-133673220-4	chr4	133673112	133673312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145956)	promoter-TSS (NM_001145956)	-46.0	NM_001356466	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	55.5	116.5	47.0	574.0	192.0	72.0	29.0	39.0
Merged-chr2-93462528-4	chr2	93462411	93462611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271461)	promoter-TSS (NM_001271461)	-9.0	NM_007656	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	142.5	166.0	163.5	1754.5	380.5	125.0	162.0	98.0
Merged-chr4-11007794-4	chr4	11007708	11007908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175175)	promoter-TSS (NM_175175)	-189.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	211.0	394.5	277.0	3356.0	663.0	240.0	321.0	193.5
Merged-chr5-118465117-4	chr5	118465026	118465226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95593.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	31.0	49.0	19.5	459.5	43.0	18.5	22.0	23.0
Merged-chr11-19998189-4	chr11	19998080	19998280	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033523, exon 2 of 6)	exon (NM_033523, exon 2 of 6)	73738.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	19.0	24.0	28.5	405.0	58.5	18.0	29.5	17.5
Merged-chr2-156258278-3	chr2	156258199	156258399	+	987.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 4 of 17)	B1_Mur4|SINE|Alu	-54174.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	18.5	21.0	16.0	212.5	5.5	6.5	2.5	7.0
Merged-chr3-101594458-4	chr3	101594341	101594541	+	909.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 2 of 22)	intron (NM_144900, intron 2 of 22)	10266.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	8.0	10.0	8.0	266.0	29.5	7.0	23.0	16.0
Merged-chr17-87265960-4	chr17	87265869	87266069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139295)	promoter-TSS (NM_139295)	-22.0	NM_139295	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	118.0	160.5	157.0	1692.5	308.5	121.5	179.0	139.5
Merged-chr17-28716323-3	chr17	28716216	28716416	+	730.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168513, intron 3 of 11)	MTE2a|LTR|ERVL-MaLR	23748.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	5.5	11.0	9.0	181.5	7.5	3.0	4.0	2.5
Merged-chr5-125361213-4	chr5	125361113	125361313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-20119.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	34.0	50.5	35.5	511.5	101.0	52.0	34.0	38.0
Merged-chr9-15710285-4	chr9	15710194	15710394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172289, intron 1 of 10)	intron (NM_172289, intron 1 of 10)	556.0	NM_172289	234967.0	Mm.138815	NM_172289	ENSMUSG00000043885	Slc36a4	6330573I15Rik|PAT4	solute carrier family 36 (proton/amino acid symporter), member 4	protein-coding	106.5	140.0	101.5	2342.0	292.0	88.0	142.5	132.0
Merged-chr1-128417214-7	chr1	128417084	128417284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177445, exon 1 of 16)	exon (NM_177445, exon 1 of 16)	232.0	NM_177445	226414.0	Mm.28693	NM_145507	ENSMUSG00000026356	Dars	5730439G15Rik	aspartyl-tRNA synthetase	protein-coding	44.0	44.5	62.0	535.5	76.0	31.5	49.5	54.0
Merged-chr14-43918368-4	chr14	43918252	43918452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5016.0	NM_053112	93725.0	Mm.429087	NM_053112	ENSMUSG00000090166	Ear10	Raf2	eosinophil-associated, ribonuclease A family, member 10	protein-coding	43.5	42.0	41.5	426.5	83.0	36.5	47.0	27.5
Merged-chr5-148551893-4	chr5	148551765	148551965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359201)	promoter-TSS (NM_001359201)	20.0	NM_001359200	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	47.0	80.0	51.0	270.0	164.0	67.5	55.5	24.5
Merged-chr1-37622143-4	chr1	37622019	37622219	+	897.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028096, intron 7 of 9)	intron (NM_028096, intron 7 of 9)	-81103.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	4.5	9.5	8.0	219.0	24.5	6.5	15.0	7.5
Merged-chr14-55689739-4	chr14	55689662	55689862	+	845.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-7945.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	3.0	26.5	9.0	124.5	25.0	16.0	8.5	15.0
Merged-chr2-59338639-4	chr2	59338514	59338714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 13 of 20)	intron (NM_175464, intron 13 of 20)	48068.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	155.0	197.0	192.5	3144.5	364.0	141.5	194.0	190.5
Merged-chr10-11343669-4	chr10	11343576	11343776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010146, exon 1 of 4)	exon (NM_010146, exon 1 of 4)	231.0	NM_010146	13853.0	Mm.89946	NM_010146	ENSMUSG00000055493	Epm2a	TG-B|Tg(TcraK,TcrbK)TG-BFlv	epilepsy, progressive myoclonic epilepsy, type 2 gene alpha	protein-coding	78.0	118.0	116.5	1803.5	201.5	47.5	91.5	64.0
Merged-chr12-78901664-4	chr12	78901549	78901749	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013738, intron 1 of 8)	intron (NM_013738, intron 1 of 8)	5289.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	15.0	22.5	16.0	290.0	27.5	11.0	27.0	18.0
Merged-chr16-44026459-4	chr16	44026359	44026559	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359085, intron 5 of 16)	L1M4|LINE|L1	1486.0	NM_001172107	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	20.0	29.5	15.5	448.5	79.0	14.0	22.5	22.5
Merged-chr5-43113626-4	chr5	43113529	43113729	+	901.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119834.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	17.0	12.0	14.5	227.0	34.5	12.0	15.5	21.5
Merged-chr11-79254725-4	chr11	79254617	79254817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019653)	promoter-TSS (NM_019653)	-22.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	62.0	174.0	36.5	691.0	251.0	102.5	63.0	81.5
Merged-chr11-96944050-4	chr11	96943955	96944155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003293)	promoter-TSS (NR_003293)	-36.0	NM_134021	103711.0	Mm.254704	NM_134021	ENSMUSG00000018659	Pnpo	AI415282	pyridoxine 5'-phosphate oxidase	protein-coding	106.0	225.0	103.0	1696.0	366.0	123.5	121.5	121.5
Merged-chr2-117945144-3	chr2	117945044	117945244	+	708.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	123216.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	7.0	11.0	15.0	148.0	8.5	3.5	3.5	5.5
Merged-chr7-48959003-4	chr7	48958901	48959101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111016)	promoter-TSS (NM_001111016)	-72.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	25.0	36.5	24.0	373.5	49.5	17.5	45.5	24.0
Merged-chr13-98998141-3	chr13	98998042	98998242	+	821.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13577.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	8.5	6.0	4.5	107.5	21.0	7.5	6.0	11.0
Merged-chr3-32403292-4	chr3	32403192	32403392	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32859.0	NM_008839	18706.0	Mm.260521	NM_008839	ENSMUSG00000027665	Pik3ca	6330412C24Rik|caPI3K|p110|p110alpha	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	protein-coding	48.0	95.0	25.0	304.0	70.0	39.5	22.0	23.0
Merged-chr15-99817503-4	chr15	99817394	99817594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113545, intron 4 of 10)	CT-rich|Low_complexity|Low_complexity	2655.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	29.5	40.0	17.0	246.0	125.0	38.0	42.0	47.5
Merged-chr6-49013190-4	chr6	49013080	49013280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13564.0	NR_126454	75347.0	Mm.207324	NR_126454	ENSMUSG00000107656	4930563H07Rik	-	RIKEN cDNA 4930563H07 gene	ncRNA	21.0	50.5	34.5	459.5	120.0	25.5	30.5	29.0
Merged-chr11-109425816-4	chr11	109425708	109425908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025275)	promoter-TSS (NM_025275)	-138.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	280.0	523.5	266.0	3034.5	859.5	345.0	281.0	280.0
Merged-chr8-22701551-4	chr8	22701453	22701653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159774, intron 2 of 21)	Lx8b|LINE|L1	5030.0	NM_010546	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	71.0	146.5	45.0	662.0	195.0	89.5	86.5	60.5
Merged-chr2-68349751-4	chr2	68349659	68349859	+	772.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 10 of 17)	intron (NM_016866, intron 10 of 17)	122222.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	3.0	10.5	10.5	148.0	31.0	8.5	6.5	11.0
Merged-chr11-23633131-1	chr11	23633031	23633231	+	1000.0	f0_balb.idr	intron (NM_027860, intron 1 of 21)	intron (NM_027860, intron 1 of 21)	500.0	NM_001347242	71675.0	Mm.48031	NM_027860	ENSMUSG00000042208	0610010F05Rik	Kiaa1841|mKIAA1841	RIKEN cDNA 0610010F05 gene	protein-coding	5.5	15.5	15.5	151.0	34.5	7.0	8.5	13.5
Merged-chr13-42049238-1	chr13	42049138	42049338	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-2783.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	13.5	18.5	20.0	194.5	57.0	22.0	23.0	25.0
Merged-chr10-39370646-6	chr10	39370506	39370706	+	918.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 1 of 13)	intron (NM_001122893, intron 1 of 13)	807.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	18.0	10.5	23.5	346.0	24.5	5.5	12.0	7.0
Merged-chr14-31001085-1	chr14	31000985	31001185	+	563.0	f0_balb.idr	promoter-TSS (NM_029626)	promoter-TSS (NM_029626)	-308.0	NM_001165930	76485.0	Mm.8766	NM_029626	ENSMUSG00000021916	Glt8d1	2410004H05Rik|5430414N14Rik|AI450005	glycosyltransferase 8 domain containing 1	protein-coding	4.0	8.0	4.0	70.5	20.0	13.0	5.5	5.0
Merged-chr16-24637581-4	chr16	24637421	24637621	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-84334.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	14.0	57.5	23.0	353.5	69.5	14.0	29.5	13.0
Merged-chr3-96559605-4	chr3	96559487	96559687	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009935, intron 4 of 7)	intron (NM_001009935, intron 4 of 7)	1630.0	NM_001009935	56338.0	Mm.410189	NM_023719	ENSMUSG00000038393	Txnip	1200008J08Rik|AA682105|Hyplip1|THIF|Tbp-2|VDUP1	thioredoxin interacting protein	protein-coding	17.5	20.5	16.5	337.0	55.0	22.5	23.0	26.5
Merged-chr1-79671393-4	chr1	79671321	79671521	+	886.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183027, intron 1 of 4)	intron (NM_183027, intron 1 of 4)	551.0	NM_183027	252903.0	Mm.32409	NM_183027	ENSMUSG00000054702	Ap1s3	1190009B22|Jr2|[s]3A	adaptor-related protein complex AP-1, sigma 3	protein-coding	17.5	13.0	12.0	288.0	34.0	5.0	13.0	8.0
Merged-chr6-37617560-4	chr6	37617447	37617647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87374.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	72.0	62.5	49.0	1261.0	164.0	62.5	60.0	67.5
Merged-chr9-111310146-4	chr9	111310048	111310248	+	865.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-1591.0	NM_001164659	320429.0	Mm.270754	NM_001164659	ENSMUSG00000062296	Trank1	A230061D21Rik|C030048J01Rik|Gm187|Lba1	tetratricopeptide repeat and ankyrin repeat containing 1	protein-coding	8.5	21.0	19.0	214.0	30.5	8.5	11.0	20.0
Merged-chr4-57017398-2	chr4	57017302	57017502	+	624.25	f0_balb.idr|f1_balb.idr	intron (NM_001355492, intron 21 of 24)	intron (NM_001355492, intron 21 of 24)	-27011.0	NM_001142965	230235.0	Mm.207654	NM_001142965	ENSMUSG00000045589	Frrs1l	6430704M03Rik	ferric-chelate reductase 1 like	protein-coding	4.5	7.5	2.0	142.0	7.0	6.0	6.0	6.5
Merged-chr18-41951287-4	chr18	41951182	41951382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029942)	promoter-TSS (NM_029942)	-88.0	NM_029942	77619.0	Mm.30649	NM_029942	ENSMUSG00000056671	Prelid2	1700003A01Rik|C330008K14Rik	PRELI domain containing 2	protein-coding	119.0	161.0	100.0	1661.5	185.0	68.5	87.0	81.5
Merged-chr9-31543582-3	chr9	31543466	31543666	+	925.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79328.0	NM_144936	235135.0	Mm.390134	NM_144936	ENSMUSG00000041737	Tmem45b	BC018222	transmembrane protein 45b	protein-coding	13.5	12.0	7.0	200.0	0.0	3.5	8.5	4.0
Merged-chr7-128234999-4	chr7	128234886	128235086	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177001, exon 1 of 1)	3' UTR (NM_177001, exon 1 of 1)	-2371.0	NM_146205	233912.0	Mm.475117	NM_146205	ENSMUSG00000042178	Armc5	AW049683|BC032200	armadillo repeat containing 5	protein-coding	15.5	37.0	18.5	203.0	50.5	14.5	24.0	35.5
Merged-chr2-58130238-3	chr2	58130141	58130341	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_139200, exon 8 of 8)	3' UTR (NM_139200, exon 8 of 8)	29881.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	6.5	12.5	17.0	415.0	17.0	0.5	9.0	13.0
Merged-chr14-79558033-4	chr14	79557931	79558131	+	968.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 2 of 8)	intron (NM_007920, intron 2 of 8)	-29629.0	NM_026474	67955.0	Mm.18972	NM_026474	ENSMUSG00000022024	Sugt1	2410174K12Rik|SGT1	SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae)	protein-coding	26.0	21.0	11.0	454.5	71.5	22.5	18.0	15.0
Merged-chr5-106679838-4	chr5	106679761	106679961	+	921.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026856, intron 1 of 6)	intron (NM_026856, intron 1 of 6)	16969.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	22.0	13.0	19.5	261.0	14.0	4.5	15.5	19.0
Merged-chr7-97270494-1	chr7	97270394	97270594	+	770.0	f0_balb.idr	intron (NM_001162477, intron 2 of 9)	intron (NM_001162477, intron 2 of 9)	55470.0	NM_001177412	244144.0	Mm.297541	NM_001177412	ENSMUSG00000035713	Usp35	Gm1088|Gm493	ubiquitin specific peptidase 35	protein-coding	11.0	9.5	9.5	142.0	5.5	1.0	5.0	7.5
Merged-chr11-32238650-4	chr11	32238542	32238742	+	898.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284359, intron 9 of 13)	intron (NM_001284359, intron 9 of 13)	12137.0	NM_010822	268395.0	Mm.263161	NM_010822	ENSMUSG00000020287	Mpg	9830006D05|AI326268|APNG|Aag|Mid1	N-methylpurine-DNA glycosylase	protein-coding	6.0	9.5	6.5	148.0	40.5	9.5	18.0	14.0
Merged-chr14-54876897-6	chr14	54876857	54877057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167908, exon 1 of 2)	exon (NM_001167908, exon 1 of 2)	581.0	NM_001167908	105651.0	Mm.297365	NM_001167908	ENSMUSG00000072494	Ppp1r3e	A630071A11Rik|AW049239|Gm1211	protein phosphatase 1, regulatory (inhibitor) subunit 3E	protein-coding	23.5	31.0	20.0	276.5	60.5	37.0	21.5	33.5
Merged-chr1-171346264-4	chr1	171346168	171346368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012049)	promoter-TSS (NM_012049)	593.0	NM_011070	18637.0	Mm.10756	NM_011070	ENSMUSG00000006412	Pfdn2	ESTM27|W48336	prefoldin 2	protein-coding	29.0	57.5	22.0	414.5	61.0	27.5	35.5	31.5
Merged-chr1-105663254-4	chr1	105663137	105663337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029349)	promoter-TSS (NM_029349)	439.0	NM_013784	27392.0	Mm.268911	NM_013784	ENSMUSG00000056536	Pign	Gm20308|PIG-N	phosphatidylinositol glycan anchor biosynthesis, class N	protein-coding	38.5	72.0	55.0	919.0	109.5	47.0	65.5	60.0
Merged-chr15-73184545-4	chr15	73184446	73184646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	CpG	401.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	24.5	45.0	19.5	281.0	53.0	24.0	30.0	36.0
Merged-chr19-41369968-4	chr19	41369876	41370076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	15094.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	30.0	45.5	39.0	568.0	63.0	18.0	30.0	32.0
Merged-chr14-47513844-4	chr14	47513688	47513888	+	922.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 4 of 5)	intron (NR_027414, intron 4 of 5)	41227.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	9.0	6.5	12.0	176.5	36.5	19.5	12.0	17.5
Merged-chr5-140664022-2	chr5	140663922	140664122	+	806.875	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028833, exon 23 of 23)	3' UTR (NM_028833, exon 23 of 23)	-14991.0	NM_175274	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	11.0	8.0	10.0	53.0	11.0	3.5	5.0	6.0
Merged-chr14-122406757-3	chr14	122406661	122406861	+	848.4111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033326, intron 1 of 3)	CpG	44354.0	NR_033325	328479.0	Mm.86095	NR_033325	ENSMUSG00000064052	Gm5089	6530402A20|C030005G22Rik|EG328479	predicted gene 5089	ncRNA	9.0	10.5	11.0	107.5	20.0	9.0	6.5	5.0
Merged-chr1-144245898-3	chr1	144245769	144245969	+	964.892883	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015811, intron 4 of 4)	intron (NM_015811, intron 4 of 4)	3235.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	13.5	6.0	13.0	100.5	16.0	12.0	7.0	6.0
Merged-chr11-75164974-4	chr11	75164870	75165070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001002764)	TTS (NM_001002764)	3182.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	31.0	48.5	41.5	456.5	70.5	21.5	15.5	33.0
Merged-chr15-57892536-4	chr15	57892451	57892651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024207)	promoter-TSS (NM_024207)	-133.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	370.0	518.0	426.5	5290.0	757.0	314.0	399.0	280.0
Merged-chr4-134758661-4	chr4	134758571	134758771	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 2 of 8)	intron (NM_145554, intron 2 of 8)	9333.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	23.0	40.0	21.5	358.5	36.5	18.5	22.5	32.0
Merged-chr7-24902993-4	chr7	24902890	24903090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008488)	promoter-TSS (NM_008488)	4.0	NM_001130151	16801.0	Mm.3181	NM_008488	ENSMUSG00000040940	Arhgef1	Lbcl2|Lsc	Rho guanine nucleotide exchange factor (GEF) 1	protein-coding	32.5	40.5	42.5	659.5	97.0	34.0	29.5	39.5
Merged-chr15-66729647-4	chr15	66729541	66729741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009375, exon 27 of 48)	exon (NM_009375, exon 27 of 48)	58871.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	50.0	58.0	61.5	976.0	45.0	19.0	50.5	43.0
Merged-chr9-99382712-4	chr9	99382602	99382802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24172.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	27.5	41.0	54.5	905.0	69.0	15.5	35.0	31.5
Merged-chr9-77806943-4	chr9	77806843	77807043	+	977.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52408.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	18.0	30.0	9.0	311.0	58.5	16.5	19.5	25.0
Merged-chr6-100163943-4	chr6	100163864	100164064	+	954.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123394.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	20.0	20.5	23.0	446.0	33.0	15.0	12.0	15.5
Merged-chr10-74104697-4	chr10	74104598	74104798	+	917.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142748, intron 3 of 25)	intron (NM_001142748, intron 3 of 25)	282831.0	NM_001142735	11994.0	Mm.338933	NM_023115	ENSMUSG00000052613	Pcdh15	BB078305|Gm9815|Ush1f|av|nmf19|roda	protocadherin 15	protein-coding	10.5	33.5	12.5	257.0	23.0	11.0	18.5	4.5
Merged-chr1-131096488-4	chr1	131096436	131096636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	1307.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	44.5	58.0	29.0	644.0	89.5	45.0	64.5	43.5
Merged-chr8-11180052-3	chr8	11179961	11180161	+	997.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132744.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	32.0	23.0	43.5	582.5	10.0	5.0	7.5	7.5
Merged-chr1-143702426-2	chr1	143702326	143702526	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145991, intron 1 of 16)	intron (NM_145991, intron 1 of 16)	467.0	NM_145991	214498.0	Mm.156727	NM_145991	ENSMUSG00000026361	Cdc73	8430414L16Rik|C130030P16Rik|C81219|Hrpt2	cell division cycle 73, Paf1/RNA polymerase II complex component	protein-coding	16.0	29.0	40.0	254.0	34.5	12.0	23.5	25.0
Merged-chr4-115857485-4	chr4	115857368	115857568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355174, intron 3 of 11)	intron (NM_001355174, intron 3 of 11)	18270.0	NM_001355174	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	72.5	81.0	86.5	1640.0	194.0	73.5	107.0	68.5
Merged-chr18-67826197-4	chr18	67826100	67826300	+	895.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027556, intron 14 of 45)	intron (NM_027556, intron 14 of 45)	26093.0	NM_027556	70799.0	Mm.30857	NM_027556	ENSMUSG00000024542	Cep192	4631422C13Rik|D430014P18Rik	centrosomal protein 192	protein-coding	5.5	8.5	2.0	70.0	52.0	17.5	20.5	23.5
Merged-chr5-105293808-3	chr5	105293710	105293910	+	893.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194336)	promoter-TSS (NM_194336)	-111.0	NM_194336	100702.0	Mm.491210	NM_194336	ENSMUSG00000104713	Gbp6	AI595338|Mpa2l	guanylate binding protein 6	protein-coding	16.0	13.0	7.5	113.0	31.5	15.5	10.0	9.5
Merged-chr7-24884051-4	chr7	24884015	24884215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360119)	promoter-TSS (NM_001360119)	-477.0	NM_001360128	20085.0	Mm.300281	NM_023133	ENSMUSG00000040952	Rps19	Dsk3	ribosomal protein S19	protein-coding	77.0	123.5	85.5	861.5	221.5	73.0	102.5	93.5
Merged-chr3-95053186-3	chr3	95053087	95053287	+	731.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10573.0	NM_008951	19185.0	Mm.2261	NM_008951	ENSMUSG00000005625	Psmd4	Af1|Mcb1|angiocidin	proteasome (prosome, macropain) 26S subunit, non-ATPase, 4	protein-coding	6.5	11.5	6.0	77.5	20.0	13.0	7.5	6.0
Merged-chr16-62858161-4	chr16	62858071	62858271	+	760.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011173, intron 1 of 14)	MTE-int|LTR|ERVL-MaLR	3864.0	NM_011173	19128.0	Mm.127156	NM_011173	ENSMUSG00000022912	Pros1	AW214361	protein S (alpha)	protein-coding	8.5	4.5	4.5	135.0	26.5	7.0	10.0	10.0
Merged-chr19-41383986-4	chr19	41383866	41384066	+	878.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 1 of 16)	intron (NM_031376, intron 1 of 16)	1104.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	10.0	7.0	12.0	117.0	25.5	5.0	7.0	10.0
Merged-chr16-94556446-4	chr16	94556344	94556544	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13762.0	NM_007890	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	17.5	37.0	17.5	343.5	27.0	4.5	22.0	27.0
Merged-chr7-36730843-3	chr7	36730812	36731012	+	705.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172298, intron 1 of 1)	(TCC)n|Simple_repeat|Simple_repeat	32794.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	19.5	9.5	8.0	112.0	7.0	0.5	2.5	1.5
Merged-chr3-104937918-4	chr3	104937842	104938042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	23767.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	27.0	39.0	20.5	593.5	89.5	24.0	23.0	28.5
Merged-chr6-124957530-4	chr6	124957415	124957615	+	970.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001164089)	TTS (NM_001164089)	8023.0	NM_012003	26894.0	Mm.244536	NM_012003	ENSMUSG00000030127	Cops7a	D6Ertd35e|SGN7a	COP9 signalosome subunit 7A	protein-coding	35.5	27.0	18.5	161.0	69.0	17.0	19.5	27.5
Merged-chr14-33247324-3	chr14	33247228	33247428	+	672.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	30505.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	9.5	9.5	7.0	94.5	7.5	5.5	8.0	9.5
Merged-chr10-62948772-4	chr10	62948670	62948870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177372, intron 1 of 20)	intron (NM_177372, intron 1 of 20)	1741.0	NM_177372	327762.0	Mm.21492	NM_177372	ENSMUSG00000036875	Dna2	Dna2l|E130315B21Rik	DNA replication helicase/nuclease 2	protein-coding	105.0	235.0	72.5	1484.5	232.0	71.0	94.5	106.5
Merged-chr18-75005754-4	chr18	75005634	75005834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001181)	promoter-TSS (NM_001001181)	-105.0	NM_001358306	407819.0	Mm.29866	NM_001001181	ENSMUSG00000036299	BC031181	-	cDNA sequence BC031181	protein-coding	163.5	271.5	171.0	2818.5	473.0	166.0	226.5	191.0
Merged-chr13-113914451-4	chr13	113914360	113914560	+	820.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	119952.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	7.0	5.5	9.5	121.0	22.5	5.5	5.0	10.5
Merged-chr1-87581052-3	chr1	87580955	87581155	+	809.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160163, intron 2 of 3)	intron (NM_001160163, intron 2 of 3)	-2967.0	NM_001160165	23956.0	Mm.143717	NM_015750	ENSMUSG00000079434	Neu2	MBS|MSS|MTS	neuraminidase 2	protein-coding	11.0	8.5	7.0	94.5	7.5	3.0	5.5	7.5
Merged-chr5-127621326-4	chr5	127621224	127621424	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3932.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	33.5	42.5	23.5	480.0	45.0	17.0	37.5	28.0
Merged-chr15-59614385-4	chr15	59614284	59614484	+	993.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34270.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	21.5	46.5	15.0	348.5	66.0	20.0	30.5	36.5
Merged-chr11-29172245-2	chr11	29172181	29172381	+	942.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_134034)	promoter-TSS (NM_134034)	-626.0	NM_134034	104570.0	Mm.276386	NM_134034	ENSMUSG00000020463	Ppp4r3b	AW011752|AW557776|Smek2|mKIAA1387	protein phosphatase 4 regulatory subunit 3B	protein-coding	14.5	21.0	13.5	249.0	21.5	16.5	18.5	15.0
Merged-chr19-46511007-4	chr19	46510909	46511109	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053100, intron 1 of 5)	intron (NM_053100, intron 1 of 5)	9361.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	15.5	37.0	15.0	274.5	85.5	30.0	22.0	26.0
Merged-chr17-27028602-4	chr17	27028499	27028699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007523)	promoter-TSS (NM_007523)	28.0	NM_007523	12018.0	Mm.2443	NM_007523	ENSMUSG00000057789	Bak1	Bak|N-BAK1|N-Bak	BCL2-antagonist/killer 1	protein-coding	35.5	57.0	28.0	449.5	90.0	21.5	44.5	31.5
Merged-chr6-59024551-4	chr6	59024459	59024659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153574)	promoter-TSS (NM_153574)	-57.0	NM_153574	58909.0	Mm.28813	NM_153574	ENSMUSG00000037709	Fam13a	AI462012|D430015B01Rik|FAM13A1|Precm1	family with sequence similarity 13, member A	protein-coding	48.5	74.0	79.5	1034.0	124.5	35.5	60.5	56.5
Merged-chr19-6334916-4	chr19	6334815	6335015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168488)	promoter-TSS (NM_001168488)	-64.0	NM_001168488	17283.0	Mm.12917	NM_008583	ENSMUSG00000024947	Men1	AW045611	multiple endocrine neoplasia 1	protein-coding	150.5	256.5	103.0	1953.0	315.0	125.5	138.5	101.5
Merged-chr7-127935528-4	chr7	127935412	127935612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001319147, exon 10 of 15)	exon (NM_001319147, exon 10 of 15)	-5399.0	NM_133351	76560.0	Mm.5875	NM_133351	ENSMUSG00000030800	Prss8	2410039E18Rik|AI313909|C79772|CAP1|fr|mCAP1	protease, serine 8 (prostasin)	protein-coding	153.5	229.0	144.0	1855.0	294.5	119.0	171.0	148.5
Merged-chr5-24577487-4	chr5	24577325	24577525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190443)	promoter-TSS (NM_001190443)	42.0	NM_013853	27407.0	Mm.21629	NM_013853	ENSMUSG00000028953	Abcf2	0710005O05Rik|Drr3|E430001O06	ATP-binding cassette, sub-family F (GCN20), member 2	protein-coding	208.5	353.5	219.0	2942.0	613.5	269.0	282.0	294.0
Merged-chr16-78302023-4	chr16	78301925	78302125	+	769.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025192, intron 1 of 6)	CpG	354.0	NM_001276263	13052.0	Mm.66222	NM_009988	ENSMUSG00000022865	Cxadr	2610206D03Rik|AU016810|AW553441|CAR|MCAR|MCVADR	coxsackie virus and adenovirus receptor	protein-coding	10.0	11.5	23.5	177.0	12.0	5.5	4.0	11.5
Merged-chr15-72810840-4	chr15	72810735	72810935	+	937.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002864)	promoter-TSS (NR_002864)	-511.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	11.5	21.0	15.0	142.5	24.0	20.5	13.0	22.5
Merged-chr16-21596613-4	chr16	21596509	21596709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 44 of 46)	intron (NM_001081366, intron 44 of 46)	98056.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	53.5	62.5	56.5	807.0	71.0	23.5	33.0	19.0
Merged-chr19-40637887-4	chr19	40637756	40637956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-21914.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	142.0	177.5	131.0	2316.5	171.0	59.5	109.5	100.5
Merged-chr10-86949293-4	chr10	86949218	86949418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 17 of 68)	intron (NM_138673, intron 17 of 68)	58624.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	42.0	77.0	31.5	471.0	107.0	39.0	26.0	25.5
Merged-chr4-139169084-2	chr4	139168984	139169184	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	11571.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	5.5	9.5	9.0	36.0	13.0	7.5	11.0	10.0
Merged-chr4-133108062-4	chr4	133107969	133108169	+	929.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22564.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	48.5	26.0	38.0	749.5	30.5	16.0	20.5	15.0
Merged-chr12-76837569-6	chr12	76837459	76837659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145927)	promoter-TSS (NM_145927)	92.0	NM_145927	110606.0	Mm.151174	NM_145927	ENSMUSG00000033373	Fntb	2010013E13Rik|AA409500	farnesyltransferase, CAAX box, beta	protein-coding	46.0	91.0	83.0	901.5	160.5	69.5	70.5	89.5
Merged-chr11-17212272-1	chr11	17212172	17212372	+	958.0	f0_c57.idr	promoter-TSS (NM_025443)	promoter-TSS (NM_025443)	379.0	NM_178909	103784.0	Mm.298132	NM_178909	ENSMUSG00000078970	Wdr92	AI553587|HZGJ	WD repeat domain 92	protein-coding	7.5	19.0	13.5	201.5	37.0	16.5	22.0	18.5
Merged-chr8-75096544-4	chr8	75096403	75096603	+	699.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010442, intron 2 of 4)	PB1D10|SINE|Alu	2885.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	4.5	8.5	12.0	104.5	18.5	6.0	4.5	13.5
Merged-chr6-29278722-4	chr6	29278608	29278808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2433.0	NM_001101486	245884.0	Mm.33683	NM_001101486	ENSMUSG00000079652	Fam71f2	AI507611|GARI	family with sequence similarity 71, member F2	protein-coding	31.0	36.5	45.0	276.0	53.0	27.5	22.0	26.5
Merged-chr7-19715705-4	chr7	19715572	19715772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016871)	promoter-TSS (NM_016871)	-243.0	NM_016871	53333.0	Mm.61682	NM_016871	ENSMUSG00000002984	Tomm40	AW539759|Mom35|Tom40	translocase of outer mitochondrial membrane 40	protein-coding	416.5	689.5	491.5	5917.5	940.5	425.0	459.0	435.0
Merged-chr2-4651726-2	chr2	4651626	4651826	+	969.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026045, intron 1 of 9)	intron (NM_026045, intron 1 of 9)	409.0	NM_026045	67229.0	Mm.38529	NM_026045	ENSMUSG00000039449	Prpf18	2810441A10Rik	pre-mRNA processing factor 18	protein-coding	2.0	5.0	3.5	99.5	14.5	8.0	4.5	8.0
Merged-chr15-100495293-4	chr15	100495197	100495397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153407)	promoter-TSS (NM_153407)	-58.0	NM_153407	207785.0	Mm.294969	NM_153407	ENSMUSG00000044636	Csrnp2	CSRNP-2|Csnrp2|taip-12	cysteine-serine-rich nuclear protein 2	protein-coding	75.0	134.5	72.5	1018.0	149.0	61.5	41.5	59.5
Merged-chr5-143488187-4	chr5	143488073	143488273	+	908.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 8 of 14)	intron (NM_144915, intron 8 of 14)	23680.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	19.5	10.5	13.5	183.0	33.0	12.5	14.0	15.0
Merged-chr1-93754878-4	chr1	93754771	93754971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025920)	promoter-TSS (NM_025920)	-33.0	NM_025920	67026.0	Mm.272356	NM_025920	ENSMUSG00000026279	Thap4	2010320B01Rik	THAP domain containing 4	protein-coding	84.5	139.5	123.5	1671.5	233.5	79.5	133.0	119.0
Merged-chr16-5203413-4	chr16	5203303	5203503	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013796, exon 2 of 10)	exon (NM_013796, exon 2 of 10)	609.0	NM_013796	27426.0	Mm.215641	NM_013796	ENSMUSG00000023143	Nagpa	AI596180|UCE	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase	protein-coding	14.5	15.5	11.0	100.0	35.0	8.0	12.5	16.5
Merged-chr9-83576107-4	chr9	83576010	83576210	+	898.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	27772.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	14.5	23.0	32.0	389.0	24.0	10.5	18.5	19.0
Merged-chr11-82779070-4	chr11	82778981	82779181	+	860.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_126067)	TTS (NR_126067)	1961.0	NR_126068	100503272.0	Mm.486964	NR_126067	ENSMUSG00000085175	Gm11423	-	predicted gene 11423	ncRNA	9.0	14.0	13.0	166.0	32.0	5.5	8.0	18.0
Merged-chr2-127113994-3	chr2	127113915	127114115	+	913.283325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144818, intron 12 of 17)	intron (NM_144818, intron 12 of 17)	19939.0	NM_144818	215387.0	Mm.29786	NM_144818	ENSMUSG00000034906	Ncaph	A730011O11Rik|Brrn1|CAP-H|HCAP-H|mCAP-H	non-SMC condensin I complex, subunit H	protein-coding	8.5	10.5	18.0	129.0	13.5	9.0	4.0	8.5
Merged-chr8-125725162-4	chr8	125725082	125725282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9021.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	176.5	211.5	167.5	2094.5	300.0	142.0	137.5	118.0
Merged-chr16-23984874-4	chr16	23984758	23984958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	intron (NM_009744, intron 1 of 9)	-3575.0	NM_001348026	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	35.0	60.0	21.5	438.5	55.5	25.5	27.5	34.0
Merged-chr1-171649066-4	chr1	171648959	171649159	+	934.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347184)	promoter-TSS (NM_001347184)	-60.0	NM_001347184	75345.0	Mm.164642	NM_144539	ENSMUSG00000038179	Slamf7	19A|19A24|4930560D03Rik|CRACC|CS1	SLAM family member 7	protein-coding	14.5	28.5	14.0	185.0	69.0	11.5	8.5	12.5
Merged-chr14-8224082-4	chr14	8223993	8224193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027782)	TTS (NM_027782)	7845.0	NM_001305937	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	44.0	85.0	71.0	1538.0	186.5	49.5	42.5	62.5
Merged-chr4-126321133-1	chr4	126321033	126321233	+	699.0	f0_c57.idr	TTS (NM_011902)	TTS (NM_011902)	570.0	NM_133883	100206.0	Mm.11285	NM_133883	ENSMUSG00000042558	Adprhl2	AI836109|Arh3	ADP-ribosylhydrolase like 2	protein-coding	13.0	28.5	17.0	154.0	26.0	11.5	11.5	13.5
Merged-chr7-92711795-2	chr7	92711694	92711894	+	760.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	29665.0	NR_015510	666737.0	Mm.473620	NR_015510	ENSMUSG00000074024	4632427E13Rik	AU015482	RIKEN cDNA 4632427E13 gene	ncRNA	1.0	4.5	2.0	41.0	30.5	12.5	24.5	13.5
Merged-chr2-37423067-4	chr2	37422957	37423157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290642)	promoter-TSS (NM_001290642)	-154.0	NM_001290642	319817.0	Mm.288785	NM_001100591	ENSMUSG00000075376	Rc3h2	2900024N03Rik|9430019J22Rik|D930043C02Rik|Mnab|Rnf164	ring finger and CCCH-type zinc finger domains 2	protein-coding	151.5	264.5	106.0	1955.0	467.5	214.5	196.0	157.0
Merged-chr1-123934135-2	chr1	123934035	123934235	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_199021, intron 1 of 25)	intron (NM_199021, intron 1 of 25)	111424.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	63.0	87.5	67.5	1038.0	168.0	57.5	61.5	58.0
Merged-chr2-92056225-4	chr2	92056120	92056320	+	831.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32050.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	7.5	19.0	5.0	124.0	24.0	11.0	11.0	16.0
Merged-chr5-121260212-1	chr5	121260112	121260312	+	695.666687	f0_balb.idr	intron (NM_181421, intron 4 of 75)	intron (NM_181421, intron 4 of 75)	39993.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	12.5	17.5	13.0	96.5	9.5	5.0	4.0	3.5
Merged-chr17-30972138-3	chr17	30972007	30972207	+	649.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177465, intron 5 of 21)	intron (NM_177465, intron 5 of 21)	17424.0	NM_177465	52020.0	Mm.25923	NM_177465	ENSMUSG00000054134	Umodl1	D17Ertd488e	uromodulin-like 1	protein-coding	1.5	0.5	3.5	30.5	22.0	6.0	6.5	14.0
Merged-chr16-3732819-4	chr16	3732714	3732914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11285.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	100.5	170.0	99.5	1445.5	200.0	94.5	91.5	71.5
Merged-chr10-41505711-2	chr10	41505611	41505811	+	761.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_028430, intron 6 of 7)	B3A|SINE|B2	-13789.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	12.0	11.5	6.0	48.0	22.5	11.0	7.5	6.5
Merged-chr10-13935875-2	chr10	13935790	13935990	+	1000.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-30185.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	0.0	6.5	1.0	14.5	52.0	22.0	25.5	19.0
Merged-chr3-10439609-4	chr3	10439501	10439701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127191, intron 1 of 6)	CpG	529.0	NM_029068	74718.0	Mm.440548	NM_029068	ENSMUSG00000027534	Snx16	4930522N22Rik|AI117577|AI747675	sorting nexin 16	protein-coding	29.5	24.5	14.5	300.0	67.5	15.5	31.0	31.5
Merged-chr13-100594290-3	chr13	100594218	100594418	+	918.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22626.0	NM_178410	218518.0	Mm.25300	NM_178410	ENSMUSG00000021636	Marveld2	BC003296|MARVD2|Mrvldc2|Tric|Trica|Tricb|Tricc	MARVEL (membrane-associating) domain containing 2	protein-coding	1.0	0.0	0.0	1.0	128.5	34.0	54.0	64.5
Merged-chr14-103843889-5	chr14	103843721	103843921	+	916.286682	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007904)	promoter-TSS (NM_007904)	-120.0	NM_001276296	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	11.5	22.5	12.0	244.0	8.0	6.5	13.0	13.0
Merged-chr3-65952081-4	chr3	65951960	65952160	+	771.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019937, intron 3 of 10)	intron (NM_019937, intron 3 of 10)	6189.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	12.0	6.0	15.5	183.5	27.0	7.5	8.0	7.5
Merged-chr2-112493258-4	chr2	112493144	112493344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028844, intron 1 of 5)	CpG	280.0	NM_028844	74268.0	Mm.315125	NM_028844	ENSMUSG00000003604	Aven	1700013A01Rik|1700056A21Rik|mAven-L|mAven-S	apoptosis, caspase activation inhibitor	protein-coding	78.5	94.0	94.5	1630.0	165.0	69.5	83.0	87.5
Merged-chr9-61337347-4	chr9	61337248	61337448	+	756.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35018.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	5.0	14.0	7.0	70.0	29.5	18.0	5.5	4.0
Merged-chr17-88551178-4	chr17	88551089	88551289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 7 of 21)	intron (NM_028658, intron 7 of 21)	21065.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	62.5	114.0	56.5	784.0	205.0	84.0	95.0	78.5
Merged-chr3-31134845-4	chr3	31134737	31134937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-15083.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	86.5	209.0	128.0	1516.5	282.0	87.5	109.5	51.5
Merged-chr16-17410430-4	chr16	17410313	17410513	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023348, intron 1 of 4)	intron (NM_023348, intron 1 of 4)	-4099.0	NM_001001983	224020.0	Mm.5718	NM_001001983	ENSMUSG00000041720	Pi4ka	Pik4ca	phosphatidylinositol 4-kinase alpha	protein-coding	36.0	54.0	49.0	701.0	43.5	23.0	25.0	23.0
Merged-chr16-91406972-4	chr16	91406877	91407077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008349, intron 1 of 6)	intron (NM_008349, intron 1 of 6)	742.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	90.5	195.5	68.5	721.0	232.5	90.0	76.0	53.0
Merged-chr7-16951469-4	chr7	16951371	16951571	+	971.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6789.0	NM_001099636	434128.0	Mm.483018	NM_001099636	ENSMUSG00000070802	Pnmal2	EG434128	PNMA-like 2	protein-coding	26.0	35.5	16.0	390.5	43.0	18.5	21.0	15.0
Merged-chr2-148492395-4	chr2	148492268	148492468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48833.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	129.0	119.5	134.0	2289.5	203.0	44.0	97.0	83.0
Merged-chr1-39367837-4	chr1	39367780	39367980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252218)	promoter-TSS (NM_001252218)	29.0	NM_001252218	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	132.5	223.5	133.0	1567.5	361.0	133.0	182.0	140.0
Merged-chr13-12370116-4	chr13	12370024	12370224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25251.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	45.0	96.5	59.5	1119.0	104.5	43.0	33.0	27.5
Merged-chr3-148960436-2	chr3	148960336	148960536	+	921.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5801.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	7.0	6.0	8.5	33.5	7.5	3.0	2.0	3.0
Merged-chr4-133633557-4	chr4	133633457	133633657	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001017968)	promoter-TSS (NM_001017968)	-128.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	37.5	45.0	19.5	425.5	49.0	18.0	25.0	21.0
Merged-chr7-4493040-4	chr7	4492964	4493164	+	964.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029834, intron 3 of 21)	intron (NM_029834, intron 3 of 21)	8616.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	29.0	21.0	36.5	504.0	32.5	5.5	23.5	8.5
Merged-chr8-84846996-4	chr8	84846901	84847101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007591)	promoter-TSS (NM_007591)	-70.0	NM_007591	12317.0	Mm.1971	NM_007591	ENSMUSG00000003814	Calr	CRT|Calregulin	calreticulin	protein-coding	285.5	447.5	273.0	3889.0	823.0	334.0	342.5	243.5
Merged-chr3-54358959-4	chr3	54358888	54359088	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2119.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	26.0	18.0	12.0	236.5	45.5	21.5	16.5	18.0
Merged-chr5-129941807-4	chr5	129941645	129941845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001327)	promoter-TSS (NM_001001327)	-364.0	NM_001001327	69568.0	Mm.288718	NM_027121	ENSMUSG00000066735	Vkorc1l1	2310024K08Rik	vitamin K epoxide reductase complex, subunit 1-like 1	protein-coding	259.5	451.5	250.0	2691.0	806.0	398.5	334.0	318.0
Merged-chr12-26436564-3	chr12	26436505	26436705	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19847.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	26.0	57.0	35.5	452.0	2.5	0.5	3.0	6.0
Merged-chr7-98374788-3	chr7	98374684	98374884	+	818.644409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4c|LINE|L1	-13456.0	NM_001168539	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	18.0	15.5	15.0	195.0	8.5	1.0	3.5	1.0
Merged-chr4-97767080-5	chr4	97766969	97767169	+	862.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-10557.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	4.0	9.0	5.5	61.5	34.5	6.0	7.0	14.5
Merged-chr3-133547050-4	chr3	133546933	133547133	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2643.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	17.5	26.5	19.5	353.0	38.0	15.5	16.0	15.5
Merged-chr3-127572735-4	chr3	127572631	127572831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197997, intron 7 of 25)	intron (NM_197997, intron 7 of 25)	19242.0	NM_197997	71643.0	Mm.274884	NM_197997	ENSMUSG00000051278	Zgrf1	4930422G04Rik|AI448607	zinc finger, GRF-type containing 1	protein-coding	44.5	67.0	50.0	906.5	185.5	47.5	86.5	90.0
Merged-chr3-79539916-4	chr3	79539851	79540051	+	938.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	27728.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	13.0	14.5	15.0	338.5	21.0	4.0	5.5	11.0
Merged-chr15-90084513-3	chr15	90084400	90084600	+	859.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139811.0	NM_001033441	380959.0	Mm.17853	NM_001033441	ENSMUSG00000075470	Alg10b	AA469671|AU045404|AW123895|C85569|Deaf1|Gm917|nse5	asparagine-linked glycosylation 10B (alpha-1,2-glucosyltransferase)	protein-coding	2.5	6.5	4.0	91.0	13.0	6.0	7.5	8.5
Merged-chr5-124540680-4	chr5	124540568	124540768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019770)	promoter-TSS (NM_019770)	-123.0	NM_019770	56334.0	Mm.325307	NM_019770	ENSMUSG00000029390	Tmed2	1110032D12Rik|1810020N21Rik|Rnp24|Sid394|p24beta1	transmembrane p24 trafficking protein 2	protein-coding	119.5	186.0	97.5	1310.5	257.0	137.5	89.0	97.5
Merged-chr11-54492754-4	chr11	54492656	54492856	+	998.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173753, intron 9 of 17)	intron (NM_173753, intron 9 of 17)	-30089.0	NM_001252494	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	38.5	48.5	29.5	522.0	59.5	17.0	34.5	25.5
Merged-chr17-34649393-4	chr17	34649285	34649485	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017406, intron 5 of 17)	intron (NM_017406, intron 5 of 17)	2239.0	NM_017406	12915.0	Mm.4068	NM_017406	ENSMUSG00000015461	Atf6b	AA617266|ATF6beta|Creb-rp|Crebl1	activating transcription factor 6 beta	protein-coding	18.5	27.0	8.5	300.0	63.5	18.5	22.0	23.0
Merged-chr4-140679896-4	chr4	140679792	140679992	+	965.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13987.0	NM_001112722	72754.0	Mm.29329	NM_172415	ENSMUSG00000040964	Arhgef10l	2810441C07Rik	Rho guanine nucleotide exchange factor (GEF) 10-like	protein-coding	14.5	20.0	6.0	220.5	66.0	20.5	16.5	24.0
Merged-chr1-78657798-4	chr1	78657709	78657909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028817)	promoter-TSS (NM_028817)	-16.0	NM_001136222	74205.0	Mm.276016	NM_028817	ENSMUSG00000032883	Acsl3	2610510B12Rik|Acs3|C85929|Facl3|Pro2194	acyl-CoA synthetase long-chain family member 3	protein-coding	262.0	398.0	283.0	4872.5	681.5	219.5	340.0	232.0
Merged-chr12-76962360-4	chr12	76962246	76962446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146176)	promoter-TSS (NM_001146176)	-98.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	337.5	388.0	345.0	4390.0	718.0	267.0	414.5	278.5
Merged-chr2-166012466-4	chr2	166012343	166012543	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	19806.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	16.5	9.5	28.0	192.5	31.5	9.5	9.0	15.0
Merged-chr15-83122234-4	chr15	83122157	83122357	+	906.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358061, intron 1 of 3)	intron (NM_001358061, intron 1 of 3)	544.0	NM_001358061	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	11.5	35.0	14.5	218.5	54.0	19.5	20.0	19.0
Merged-chr1-136633827-4	chr1	136633716	136633916	+	881.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8915.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	19.0	8.5	14.5	308.5	31.0	6.0	8.5	14.5
Merged-chr11-100736217-4	chr11	100736110	100736310	+	769.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	intron (NM_001305003, intron 1 of 5)	2005.0	NM_024456	19345.0	Mm.29829	NM_024456	ENSMUSG00000019173	Rab5c	AI326010|Rabl	RAB5C, member RAS oncogene family	protein-coding	14.0	11.0	5.5	99.0	18.5	5.5	12.0	14.0
Merged-chr15-38602349-4	chr15	38602277	38602477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-7443.0	NR_045757	69679.0	Mm.416890	NR_045757	ENSMUSG00000102106	2310043O21Rik	-	RIKEN cDNA 2310043O21 gene	ncRNA	45.5	55.0	48.0	1013.5	116.0	24.0	40.5	55.0
Merged-chr2-49424997-4	chr2	49424905	49425105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26481.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	38.5	83.0	62.5	1263.5	156.0	58.0	65.0	59.5
Merged-chr1-135430521-4	chr1	135430412	135430612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153774)	promoter-TSS (NM_153774)	-13.0	NM_001357578	226432.0	Mm.271642	NM_153774	ENSMUSG00000041879	Ipo9	0710008K06Rik|AI845704|C78347|Imp9|Ranbp9	importin 9	protein-coding	87.0	110.0	50.5	1006.5	181.0	68.5	83.0	97.0
Merged-chr7-99139416-3	chr7	99139318	99139518	+	858.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	1726.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	10.0	6.5	4.5	74.0	18.5	3.0	6.0	6.5
Merged-chr9-63124759-2	chr9	63124659	63124859	+	856.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22221.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	5.5	13.5	6.5	127.5	14.0	3.5	3.5	11.5
Merged-chr2-102974244-4	chr2	102974125	102974325	+	978.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72560.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	21.0	12.0	23.0	371.5	43.0	16.5	14.0	19.5
Merged-chr14-70817998-1	chr14	70817898	70818098	+	636.5	f0_balb.idr	Intergenic	Intergenic	-34935.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	6.5	12.0	4.5	107.5	8.5	1.0	6.5	4.5
Merged-chr5-134519984-2	chr5	134519909	134520109	+	922.5833130000001	f0_balb.idr|f0_c57.idr	intron (NM_001039162, intron 3 of 15)	MTD|LTR|ERVL-MaLR	32425.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	21.0	22.5	15.0	274.5	37.5	31.0	31.0	33.5
Merged-chr17-56023437-5	chr17	56023295	56023495	+	912.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013664, intron 1 of 9)	intron (NM_013664, intron 1 of 9)	13242.0	NM_013664	20405.0	Mm.1773	NM_013664	ENSMUSG00000003200	Sh3gl1	C77078|EEN|SH3P8|Sh3d2b	SH3-domain GRB2-like 1	protein-coding	10.0	12.5	16.0	104.0	28.5	15.0	11.0	10.0
Merged-chr6-93757576-4	chr6	93757459	93757659	+	936.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029850, intron 9 of 23)	intron (NM_001029850, intron 9 of 23)	155404.0	NR_104594	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	38.0	65.0	54.5	926.5	33.5	12.5	22.0	10.5
Merged-chr10-79746638-4	chr10	79746539	79746739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172551)	promoter-TSS (NM_172551)	-58.0	NM_172551	216151.0	Mm.39001	NM_172551	ENSMUSG00000020329	Polrmt	1110018N15Rik|4932416K13	polymerase (RNA) mitochondrial (DNA directed)	protein-coding	76.0	160.5	78.5	1334.0	271.0	64.0	126.5	86.0
Merged-chr6-86539616-4	chr6	86539506	86539706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037961, intron 3 of 4)	intron (NR_037961, intron 3 of 4)	12205.0	NR_037961	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	23.5	43.5	19.0	319.0	39.0	19.0	19.0	21.0
Merged-chr2-71368453-4	chr2	71368343	71368543	+	894.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172436)	promoter-TSS (NM_172436)	-889.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	12.5	22.0	16.5	171.0	36.5	7.0	10.0	11.0
Merged-chr5-53087600-3	chr5	53087488	53087688	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38235.0	NM_011402	20531.0	Mm.284891	NM_011402	ENSMUSG00000029188	Slc34a2	AA536683|D5Ertd227e|NaPi-2b|Npt2b	solute carrier family 34 (sodium phosphate), member 2	protein-coding	2.5	10.0	5.5	174.0	25.5	5.0	14.0	7.0
Merged-chr3-101012265-3	chr3	101012184	101012384	+	910.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 5 of 8)	intron (NM_001167906, intron 5 of 8)	17211.0	NM_001167906	630146.0	Mm.190915	NM_001099332	ENSMUSG00000086564	Cd101	EWI-101|Gm1016|Gm734|Igsf2	CD101 antigen	protein-coding	8.5	16.0	10.5	62.5	24.5	6.5	6.0	17.5
Merged-chr2-168170409-4	chr2	168170313	168170513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-15900.0	NR_040327	77017.0	Mm.407822	NR_040327	ENSMUSG00000087648	E130018N17Rik	-	RIKEN cDNA E130018N17 gene	ncRNA	157.5	183.0	167.0	2240.5	341.0	104.5	167.0	127.0
Merged-chr3-104219869-3	chr3	104219746	104219946	+	852.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159354, exon 1 of 21)	exon (NM_001159354, exon 1 of 21)	560.0	NM_133853	99470.0	Mm.264849	NM_133853	ENSMUSG00000052539	Magi3	4732496O19Rik|6530407C02Rik|AA407180|AI120132|mKIAA1634	membrane associated guanylate kinase, WW and PDZ domain containing 3	protein-coding	13.5	4.0	9.0	85.0	14.0	8.0	9.5	9.0
Merged-chr15-8098063-4	chr15	8097954	8098154	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358788, intron 2 of 3)	B3|SINE|B2	1155.0	NM_001358788	545085.0	Mm.321312	NM_001081402	ENSMUSG00000039828	Wdr70	4833422F06Rik	WD repeat domain 70	protein-coding	7.5	23.0	6.5	73.5	47.0	15.0	18.0	17.5
Merged-chr1-149960356-2	chr1	149960256	149960456	+	904.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	B1_Mus2|SINE|Alu	934.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	9.5	7.5	5.0	29.0	15.5	3.5	6.5	2.0
Merged-chr17-86964765-4	chr17	86964679	86964879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	1668.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	50.5	68.0	30.0	523.5	144.0	39.0	62.0	40.5
Merged-chr11-59229959-4	chr11	59229855	59230055	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1688.0	NM_007476	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	20.0	28.0	20.0	421.0	76.0	12.5	24.0	10.0
Merged-chr1-36001098-4	chr1	36000974	36001174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-67326.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	22.0	46.0	55.5	573.0	91.0	21.0	50.0	32.0
Merged-chr2-59960322-4	chr2	59960221	59960421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 9 of 35)	intron (NM_001001182, intron 9 of 35)	-77715.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	32.5	40.0	32.5	659.5	74.0	21.0	39.0	39.0
Merged-chr3-84135560-4	chr3	84135477	84135677	+	845.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029797, intron 3 of 7)	intron (NM_029797, intron 3 of 7)	20209.0	NM_029797	76915.0	Mm.274829	NM_029797	ENSMUSG00000033752	Mnd1	2610034E18Rik|AI591601|Gaj	meiotic nuclear divisions 1	protein-coding	12.5	6.0	9.5	193.0	39.0	15.5	15.0	10.5
Merged-chr6-37417721-4	chr6	37417612	37417812	+	804.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	24436.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	11.0	13.0	15.0	174.0	58.5	11.0	11.5	14.5
Merged-chr4-83314663-4	chr4	83314569	83314769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	MIR|SINE|MIR	9520.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	64.5	71.5	88.5	1199.5	107.5	51.0	68.5	72.0
Merged-chr6-113238663-4	chr6	113238568	113238768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362185, intron 1 of 16)	intron (NM_001362185, intron 1 of 16)	825.0	NR_155433	97287.0	Mm.197816	NM_026849	ENSMUSG00000030269	Mtmr14	1110061O04Rik|AW553738|C76151	myotubularin related protein 14	protein-coding	83.0	176.0	91.0	909.0	179.0	63.5	65.5	54.0
Merged-chr10-54076462-7	chr10	54076374	54076574	+	985.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008548)	promoter-TSS (NM_008548)	552.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	10.5	19.5	24.0	371.5	47.5	19.5	23.5	11.0
Merged-chr9-69987771-4	chr9	69987668	69987868	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1698.0	NM_016787	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	17.0	39.0	24.0	234.0	45.5	20.0	18.0	27.5
Merged-chr15-74938913-2	chr15	74938796	74938996	+	609.333374	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16155.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	6.5	7.5	4.5	62.5	3.0	0.5	3.5	3.0
Merged-chr2-153122902-4	chr2	153122806	153123006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	intron (NM_001172117, intron 1 of 12)	14438.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	45.0	49.5	48.5	777.0	110.0	27.0	63.0	28.5
Merged-chr8-106343063-3	chr8	106342954	106343154	+	886.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5066.0	NM_021491	58994.0	Mm.23298	NM_021491	ENSMUSG00000031906	Smpd3	4631433G07Rik|AI427456|AW537966|fro|nSMase2	sphingomyelin phosphodiesterase 3, neutral	protein-coding	7.0	11.5	5.0	111.5	22.0	6.5	8.5	5.0
Merged-chr11-83714178-4	chr11	83714088	83714288	+	988.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B2|LTR|ERVK	5184.0	NM_007969	14038.0	Mm.1650	NM_007969	ENSMUSG00000000983	Wfdc18	Expi|Kal1|WDNM1	WAP four-disulfide core domain 18	protein-coding	28.5	24.5	17.0	317.0	55.0	22.0	19.0	17.0
Merged-chr19-16139386-2	chr19	16139286	16139486	+	695.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	intron (NM_008139, intron 1 of 6)	6555.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	2.5	3.5	8.5	47.0	12.0	6.5	5.0	9.0
Merged-chr5-105519277-4	chr5	105519183	105519383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133897)	promoter-TSS (NM_133897)	-188.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	104.0	191.0	88.5	1147.5	306.5	94.0	132.0	64.5
Merged-chr6-85333990-4	chr6	85333872	85334072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178639)	promoter-TSS (NM_178639)	-550.0	NM_178639	94282.0	Mm.121485	NM_178639	ENSMUSG00000033720	Sfxn5	C230001H08Rik	sideroflexin 5	protein-coding	56.0	55.0	23.5	665.0	161.0	46.5	44.5	51.5
Merged-chr10-93090433-4	chr10	93090343	93090543	+	953.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8847.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	16.0	10.0	16.5	168.5	45.5	18.0	16.5	22.0
Merged-chr1-91758848-3	chr1	91758741	91758941	+	807.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42620.0	NM_007855	13345.0	Mm.9474	NM_007855	ENSMUSG00000007805	Twist2	Dermo1|bHLHa39	twist basic helix-loop-helix transcription factor 2	protein-coding	9.5	14.5	0.0	112.5	32.5	4.5	5.0	7.0
Merged-chr9-52172503-1	chr9	52172403	52172603	+	810.0	f0_balb.idr	Intergenic	Intergenic	-4392.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	10.5	16.0	9.0	91.5	7.5	4.5	5.5	2.5
Merged-chr19-60874541-4	chr19	60874442	60874642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007452)	promoter-TSS (NM_007452)	-4.0	NM_007452	11757.0	Mm.29821	NM_007452	ENSMUSG00000024997	Prdx3	AW822249|Aop1|D0Tohi1|Ef2l|Mer5|Prx3|SP22|TDXM	peroxiredoxin 3	protein-coding	185.0	289.0	217.5	3228.5	442.5	139.5	226.5	98.0
Merged-chr13-54223443-4	chr13	54223346	54223546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 3 of 3)	intron (NR_153432, intron 3 of 3)	31313.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	52.5	55.0	60.5	607.0	109.5	37.0	68.0	54.5
Merged-chr10-25331914-4	chr10	25331817	25332017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27881.0	NM_001358754	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	174.0	243.5	188.5	3029.5	463.0	188.0	220.5	129.0
Merged-chr10-62449890-8	chr10	62449786	62449986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181423)	promoter-TSS (NM_181423)	-148.0	NM_181423	338359.0	Mm.235898	NM_181423	ENSMUSG00000020079	Supv3l1	6330443E10Rik	suppressor of var1, 3-like 1 (S. cerevisiae)	protein-coding	11.0	24.0	17.0	273.5	85.5	18.5	23.5	22.5
Merged-chr1-131068376-4	chr1	131068273	131068473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	MTC|LTR|ERVL-MaLR	29470.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	69.5	115.0	64.5	910.5	143.0	58.5	53.5	59.5
Merged-chr19-45805134-4	chr19	45805006	45805206	+	865.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145703, intron 1 of 9)	intron (NM_145703, intron 1 of 9)	7185.0	NM_001276358	80906.0	Mm.213204	NM_030716	ENSMUSG00000025221	Kcnip2	KChIP2	Kv channel-interacting protein 2	protein-coding	10.0	20.5	3.5	162.5	29.0	10.0	11.0	16.5
Merged-chr16-10969640-4	chr16	10969521	10969721	+	937.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	23500.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	17.0	10.0	11.5	283.0	30.5	10.5	20.0	7.0
Merged-chr18-67258514-4	chr18	67258415	67258615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-12685.0	NM_001357518	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	28.0	41.0	17.0	251.5	66.5	23.0	33.0	39.0
Merged-chr15-55097345-3	chr15	55097265	55097465	+	925.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2|LTR|ERVL-MaLR	-6874.0	NM_001355594	72107.0	Mm.486550	NM_183089	ENSMUSG00000022422	Dscc1	2010006I05Rik|2600005O03Rik|Dcc1	DNA replication and sister chromatid cohesion 1	protein-coding	8.0	9.0	8.0	94.0	21.0	6.5	12.0	13.0
Merged-chr14-27337345-3	chr14	27337246	27337446	+	847.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	1309.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	2.0	10.5	3.0	68.0	19.5	5.5	9.0	14.0
Merged-chr1-184733439-4	chr1	184733325	184733525	+	914.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008250)	promoter-TSS (NM_008250)	-932.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	17.0	22.0	7.5	236.0	23.0	16.5	19.0	17.0
Merged-chr8-33903032-3	chr8	33902921	33903121	+	642.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042675, intron 1 of 6)	intron (NM_001042675, intron 1 of 6)	26842.0	NM_019733	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	0.0	7.5	0.0	26.0	4.5	8.0	6.5	10.0
Merged-chr6-39384256-3	chr6	39384146	39384346	+	887.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011226, intron 2 of 3)	intron (NM_011226, intron 2 of 3)	2893.0	NM_011226	19331.0	Mm.123866	NM_011226	ENSMUSG00000029923	Rab19	-	RAB19, member RAS oncogene family	protein-coding	19.0	12.5	4.0	111.5	10.0	7.0	10.0	7.0
Merged-chr12-12263580-4	chr12	12263484	12263684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	1445.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	31.5	28.0	24.0	293.5	96.5	26.0	36.5	27.0
Merged-chr13-54590139-4	chr13	54590016	54590216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025933)	promoter-TSS (NM_025933)	-42.0	NM_178605	28126.0	Mm.439993	NM_178605	ENSMUSG00000025869	Nop16	AA409471|D13Wsu177e	NOP16 nucleolar protein	protein-coding	119.0	191.5	85.0	1431.5	295.0	144.0	117.5	97.0
Merged-chr2-91098310-4	chr2	91098203	91098403	+	897.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 1 of 4)	intron (NM_011355, intron 1 of 4)	1625.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	14.5	19.0	16.0	163.0	22.5	11.0	22.0	14.5
Merged-chr6-82991514-4	chr6	82991368	82991568	+	804.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 4 of 9)	intron (NM_033079, intron 4 of 9)	42003.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	2.5	9.5	6.5	105.0	27.5	8.0	4.5	4.5
Merged-chr4-22384086-4	chr4	22383983	22384183	+	802.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172988, intron 3 of 8)	Lx7|LINE|L1	26540.0	NR_104380	269514.0	Mm.40708	NM_172988	ENSMUSG00000040410	Fbxl4	AI836810|FBL4|FBL5	F-box and leucine-rich repeat protein 4	protein-coding	1.5	6.5	14.0	93.5	11.5	13.5	13.0	6.5
Merged-chr14-73170088-4	chr14	73169990	73170190	+	882.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134083, intron 10 of 14)	intron (NM_134083, intron 10 of 14)	27305.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	14.5	11.5	7.0	159.5	21.5	5.0	12.5	5.0
Merged-chr14-33813506-4	chr14	33813409	33813609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2226.0	NR_131113	218902.0	Mm.107791	NR_131113	ENSMUSG00000115751	4930503F20Rik	4930453C15	RIKEN cDNA 4930503F20 gene	ncRNA	20.0	51.0	19.0	356.0	56.5	25.5	20.0	27.5
Merged-chr5-72820802-4	chr5	72820698	72820898	+	958.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	47650.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	32.5	45.0	12.5	190.5	41.0	18.5	17.0	13.5
Merged-chr11-97557144-4	chr11	97557047	97557247	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 1 of 19)	intron (NM_018873, intron 1 of 19)	17979.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	3.0	18.5	11.0	184.0	38.0	10.0	10.0	17.0
Merged-chr7-81074859-4	chr7	81074757	81074957	+	887.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054085, intron 3 of 13)	intron (NM_054085, intron 3 of 13)	17257.0	NM_054085	116904.0	Mm.475768	NM_054085	ENSMUSG00000038763	Alpk3	AW319487|D330016D04|MAK|Midori|mKIAA1330	alpha-kinase 3	protein-coding	5.5	13.0	20.0	186.0	16.5	8.5	11.5	15.5
Merged-chr14-64637589-4	chr14	64637497	64637697	+	969.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14934.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	11.0	44.0	29.5	765.0	42.5	12.0	25.5	34.0
Merged-chr15-36606724-4	chr15	36606594	36606794	+	941.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008774, intron 1 of 14)	intron (NM_008774, intron 1 of 14)	2279.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	18.0	45.0	6.0	94.0	83.5	30.5	21.5	11.5
Merged-chr11-106739897-2	chr11	106739797	106739997	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-11329.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	7.0	11.5	1.0	33.5	22.0	9.0	7.0	8.0
Merged-chr6-116074065-3	chr6	116073975	116074175	+	817.349976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	-79070.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	7.5	10.0	10.5	87.5	15.5	5.0	3.5	3.5
Merged-chr17-44432986-4	chr17	44432857	44433057	+	905.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	244385.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	22.0	15.0	22.0	246.5	53.0	17.0	12.5	13.0
Merged-chr7-81203723-4	chr7	81203584	81203784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10D2|LTR|ERVK	-10120.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	53.0	64.0	78.0	208.0	174.5	55.5	75.0	51.0
Merged-chr4-53187398-4	chr4	53187305	53187505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27510.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	36.5	57.0	32.0	686.5	85.0	21.5	53.0	32.5
Merged-chr1-55808886-4	chr1	55808773	55808973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122368.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	34.5	25.5	17.5	447.5	47.5	22.0	28.5	21.5
Merged-chr3-100162980-1	chr3	100162880	100163080	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_175552)	promoter-TSS (NM_175552)	517.0	NR_104341	14547.0	Mm.279228	NM_010269	ENSMUSG00000027865	Gdap2	C77050|D3Ertd801e	ganglioside-induced differentiation-associated-protein 2	protein-coding	9.0	20.5	12.0	135.5	44.5	10.0	15.5	19.5
Merged-chr7-126695349-4	chr7	126695255	126695455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175103)	promoter-TSS (NM_175103)	428.0	NM_029420	75764.0	Mm.280573	NM_029420	ENSMUSG00000059772	Slx1b	1110030E23Rik|2410170E21Rik|4833422P03Rik|AI853643|Giyd1|Giyd2	SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)	protein-coding	43.0	35.0	21.0	403.0	70.5	33.0	35.5	35.0
Merged-chr7-112405206-3	chr7	112405099	112405299	+	895.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027587, intron 7 of 9)	ORR1E|LTR|ERVL-MaLR	-22507.0	NM_020606	57342.0	Mm.143763	NM_020606	ENSMUSG00000030770	Parva	2010012A22Rik|5430400F08Rik|AI225929|AU042898|Actp|CH-ILKBP|Parvin	parvin, alpha	protein-coding	5.5	12.5	8.5	208.5	4.0	3.0	11.5	2.5
Merged-chr2-122161702-3	chr2	122161579	122161779	+	704.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080510, intron 1 of 6)	intron (NM_080510, intron 1 of 6)	979.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	3.0	0.5	2.0	31.5	29.5	10.5	11.0	7.0
Merged-chr12-4595278-4	chr12	4595201	4595401	+	900.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198969, intron 1 of 16)	intron (NM_001198969, intron 1 of 16)	2293.0	NM_001198968	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	13.0	9.5	8.0	248.5	20.0	10.0	13.0	4.0
Merged-chr6-39724915-4	chr6	39724852	39725052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139294, intron 1 of 21)	CpG	511.0	NM_139294	109880.0	Mm.245513	NM_139294	ENSMUSG00000002413	Braf	9930012E13Rik|AA120551|AA387315|AA473386|B-raf|Braf-2|Braf2|C230098H17|C87398|D6Ertd631e	Braf transforming gene	protein-coding	9.5	38.0	17.0	373.0	73.0	31.5	33.5	26.0
Merged-chr11-55106830-4	chr11	55106639	55106839	+	976.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010299, intron 2 of 3)	intron (NM_010299, intron 2 of 3)	8754.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	27.5	23.5	21.5	330.0	38.5	11.5	12.5	26.5
Merged-chr12-41417788-3	chr12	41417706	41417906	+	973.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	68251.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	13.0	7.5	17.0	387.5	18.5	5.0	10.0	7.5
Merged-chr5-41554460-1	chr5	41554360	41554560	+	597.333313	f0_c57.idr	Intergenic	Lx7|LINE|L1	153231.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	4.0	1.5	0.0	47.0	23.5	10.0	11.5	14.5
Merged-chr5-104986878-4	chr5	104986762	104986962	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4145.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	13.5	30.0	13.0	176.5	20.0	8.5	23.0	17.5
Merged-chr5-92504822-1	chr5	92504722	92504922	+	1000.0	f0_c57.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	835.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	28.0	60.0	25.5	382.5	104.5	28.0	48.0	27.5
Merged-chr13-42258656-4	chr13	42258564	42258764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42812.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	87.5	146.5	102.0	1156.0	231.0	84.5	83.5	74.5
Merged-chr4-145211431-4	chr4	145211292	145211492	+	934.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011610)	TTS (NM_011610)	-16387.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	19.5	23.0	15.0	289.0	47.0	10.5	20.5	8.5
Merged-chr18-49990491-3	chr18	49990389	49990589	+	942.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	11062.0	NM_001177759	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	11.5	20.5	11.0	235.5	19.0	5.0	10.5	12.0
Merged-chr6-88831674-4	chr6	88831586	88831786	+	886.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10249.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	8.5	13.5	12.0	140.0	20.0	20.0	14.0	15.5
Merged-chr17-33092624-4	chr17	33092490	33092690	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024950, intron 1 of 3)	intron (NM_001024950, intron 1 of 3)	3223.0	NM_001024950	240068.0	Mm.121392	NM_001024950	ENSMUSG00000067424	Zfp563	D10628|D130054H01|NTfin7|Zfp413	zinc finger protein 563	protein-coding	17.5	13.0	12.0	143.0	23.5	2.0	9.0	9.5
Merged-chr13-52258636-4	chr13	52258549	52258749	+	858.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	161908.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	14.0	12.5	11.0	217.0	18.5	5.0	9.5	7.0
Merged-chr11-82991167-2	chr11	82991067	82991267	+	806.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172796, intron 1 of 4)	intron (NM_172796, intron 1 of 4)	663.0	NM_172796	237886.0	Mm.270253	NM_172796	ENSMUSG00000069793	Slfn9	9830137M10Rik	schlafen 9	protein-coding	8.0	8.5	9.0	54.5	24.5	2.5	5.0	4.0
Merged-chr11-44331603-2	chr11	44331503	44331703	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68460.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	3.0	6.0	3.0	81.5	19.0	13.0	7.0	9.0
Merged-chr6-13874501-2	chr6	13874401	13874601	+	596.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045995, intron 1 of 2)	intron (NR_045995, intron 1 of 2)	2932.0	NR_045995	76311.0	Mm.367129	NR_045995	ENSMUSG00000097616	1110019D14Rik	-	RIKEN cDNA 1110019D14 gene	ncRNA	17.5	10.0	6.0	167.5	44.0	19.5	8.0	17.0
Merged-chr18-62182449-4	chr18	62182356	62182556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013754, intron 1 of 1)	intron (NM_001013754, intron 1 of 1)	2356.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	35.0	58.5	28.5	405.0	73.5	43.5	30.5	23.5
Merged-chr8-60870995-4	chr8	60870885	60871085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19408.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	23.0	36.0	26.5	535.0	41.5	22.5	45.0	25.0
Merged-chr9-45298256-4	chr9	45298175	45298375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20825.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	20.5	41.5	16.0	336.5	63.0	22.0	28.5	42.5
Merged-chr12-100615340-4	chr12	100615237	100615437	+	956.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 5 of 17)	intron (NM_153587, intron 5 of 17)	-94515.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	25.0	15.5	40.0	460.5	51.0	10.5	17.5	22.0
Merged-chr11-69877057-4	chr11	69876957	69877157	+	900.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195710, intron 4 of 6)	intron (NM_001195710, intron 4 of 6)	961.0	NM_001195710	100503361.0	Mm.340490	NM_001195710	ENSMUSG00000094845	Tmem95	432576	transmembrane protein 95	protein-coding	19.5	21.5	3.0	138.5	32.0	11.5	16.0	21.0
Merged-chr17-32544950-2	chr17	32544850	32545050	+	758.166626	f1_balb.idr|f1_c57bl6.idr	exon (NM_024442, exon 7 of 13)	exon (NM_024442, exon 7 of 13)	8393.0	NM_001356303	70101.0	Mm.30504	NM_024442	ENSMUSG00000048440	Cyp4f16	2310021J05Rik|AI746515	cytochrome P450, family 4, subfamily f, polypeptide 16	protein-coding	5.5	21.0	3.5	15.5	17.0	7.0	10.0	7.5
Merged-chr2-29673028-4	chr2	29672934	29673134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	53314.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	51.0	59.0	43.5	631.5	112.5	28.0	36.0	29.5
Merged-chr16-30416549-4	chr16	30416452	30416652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28022.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	66.5	102.0	50.5	1095.5	179.0	60.5	83.5	58.0
Merged-chr13-35478376-3	chr13	35478283	35478483	+	849.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-181479.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	6.5	13.5	11.0	149.0	23.5	3.0	8.5	11.5
Merged-chr1-64190953-4	chr1	64190856	64191056	+	922.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69567.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	10.5	18.5	9.5	231.0	21.5	14.5	16.0	20.5
Merged-chr18-39572353-3	chr18	39572270	39572470	+	976.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-85125.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	4.0	10.5	2.5	240.5	13.0	4.5	7.0	13.5
Merged-chr11-114929811-4	chr11	114929715	114929915	+	953.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199221, intron 1 of 3)	intron (NM_199221, intron 1 of 3)	4571.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	16.5	31.0	25.5	222.5	45.0	19.0	7.5	13.0
Merged-chr17-26234679-4	chr17	26234575	26234775	+	941.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	B2_Mm2|SINE|B2	9567.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	29.5	32.0	8.5	137.5	61.5	31.0	24.0	36.0
Merged-chr3-127894143-4	chr3	127894053	127894253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027482, intron 1 of 1)	intron (NM_027482, intron 1 of 1)	2170.0	NM_027482	70617.0	Mm.317049	NM_027482	ENSMUSG00000050549	Fam241a	2700063A17Rik|5730508B09Rik|C80506	family with sequence similarity 241, member A	protein-coding	47.0	46.0	50.5	707.5	89.5	19.0	32.0	29.5
Merged-chr6-42296369-4	chr6	42296292	42296492	+	888.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013491, intron 7 of 22)	intron (NM_013491, intron 7 of 22)	9707.0	NM_013491	12723.0	Mm.386757	NM_013491	ENSMUSG00000029862	Clcn1	Clc-1|Clc1|SMCC1|adr|mto|myotonia|nmf355	chloride channel, voltage-sensitive 1	protein-coding	8.0	8.5	11.0	267.0	29.5	9.0	10.5	8.0
Merged-chr2-27308627-4	chr2	27308514	27308714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 3 of 29)	MTE2a|LTR|ERVL-MaLR	-61311.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	53.5	52.5	35.0	1185.5	81.5	22.0	54.5	37.5
Merged-chr12-113031598-4	chr12	113031489	113031689	+	967.3500369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081170, intron 1 of 23)	ORR1F|LTR|ERVL-MaLR	17081.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	13.5	38.5	22.5	314.0	58.0	19.5	22.5	14.5
Merged-chr6-53759769-4	chr6	53759673	53759873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Eulor8|DNA|TcMar?	61052.0	NM_025817	66873.0	Mm.422727	NM_025817	ENSMUSG00000043496	Tril	1200009O22Rik|AI316813|mKIAA0644	TLR4 interactor with leucine-rich repeats	protein-coding	25.0	28.0	27.5	426.0	84.5	33.5	44.5	33.0
Merged-chr9-113780256-4	chr9	113780166	113780366	+	969.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 6 of 39)	Lx9|LINE|L1	-13064.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	14.5	40.0	21.0	228.5	93.5	21.0	19.5	42.0
Merged-chr15-102350805-4	chr15	102350705	102350905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153416)	promoter-TSS (NM_153416)	-22.0	NR_155425	102640093.0	Mm.385825	NR_155425	ENSMUSG00000116402	Gm36246	-	predicted gene, 36246	ncRNA	71.5	122.5	58.0	919.0	195.5	87.0	83.5	102.5
Merged-chr3-152886950-2	chr3	152886864	152887064	+	840.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	95243.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	6.5	18.5	8.0	61.0	8.5	0.0	0.5	4.5
Merged-chr15-101128813-2	chr15	101128778	101128978	+	797.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001277255, intron 1 of 11)	intron (NM_001277255, intron 1 of 11)	356.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	2.5	1.5	8.0	37.5	13.0	5.5	6.5	5.0
Merged-chr14-45231507-5	chr14	45231400	45231600	+	889.8599849999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027518, intron 1 of 6)	intron (NM_027518, intron 1 of 6)	11783.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	5.5	12.5	14.0	76.0	10.0	14.0	4.5	10.5
Merged-chr16-85122131-4	chr16	85122006	85122206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	MLT1F|LTR|ERVL-MaLR	51601.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	37.5	52.5	37.5	882.5	63.0	32.0	38.5	26.5
Merged-chr17-34287898-4	chr17	34287817	34288017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010378)	promoter-TSS (NM_010378)	-146.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	92.5	149.5	68.0	864.0	439.5	147.5	144.5	145.5
Merged-chr2-4969298-4	chr2	4969176	4969376	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-6846.0	NM_001311208	68527.0	Mm.27791	NM_026754	ENSMUSG00000026668	Ucma	1110017I16Rik|AW121955|Grp	upper zone of growth plate and cartilage matrix associated	protein-coding	34.5	37.0	34.0	649.5	66.0	16.5	42.5	39.0
Merged-chr15-64223603-3	chr15	64223497	64223697	+	840.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	89076.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	8.5	7.0	7.5	182.5	8.0	2.0	4.0	3.0
Merged-chr7-100537061-4	chr7	100536953	100537153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183270)	promoter-TSS (NM_183270)	-47.0	NM_183270	68185.0	Mm.228995	NM_183270	ENSMUSG00000044881	Coa4	5330414O08Rik|AI115477|AW047259|Chchd8|E2ig2	cytochrome c oxidase assembly factor 4	protein-coding	159.5	225.0	89.5	1748.5	212.5	98.5	114.5	62.5
Merged-chr12-75669650-4	chr12	75669567	75669767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028203)	promoter-TSS (NM_028203)	-130.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	343.0	596.5	359.5	5915.0	1171.0	484.0	562.5	453.0
Merged-chr3-98227263-4	chr3	98227178	98227378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026328, intron 2 of 5)	MIR|SINE|MIR	5122.0	NM_026328	67709.0	Mm.46306	NM_026328	ENSMUSG00000027876	Reg4	2010002L15Rik|GISP|RELP	regenerating islet-derived family, member 4	protein-coding	53.5	67.0	90.5	1152.5	55.0	20.5	52.5	48.0
Merged-chr17-88530047-4	chr17	88529936	88530136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028658)	promoter-TSS (NM_028658)	-88.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	198.0	232.5	183.5	2037.0	442.0	211.0	232.0	164.5
Merged-chr8-41364122-4	chr8	41364033	41364233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019734, intron 1 of 13)	intron (NM_019734, intron 1 of 13)	10564.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	63.5	90.5	56.5	1309.0	148.5	42.0	65.5	57.0
Merged-chr18-61549016-4	chr18	61548912	61549112	+	882.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6261.0	NM_001357499	93687.0	Mm.26908	NM_146087	ENSMUSG00000024576	Csnk1a1	2610208K14Rik|4632404G05Rik|5430427P18Rik|CK1a|Csnk1a	casein kinase 1, alpha 1	protein-coding	13.0	18.0	10.0	178.5	22.0	17.0	22.0	12.0
Merged-chr16-33372782-3	chr16	33372680	33372880	+	738.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	7956.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	7.0	9.0	8.0	125.5	8.0	2.5	11.5	8.0
Merged-chr6-82916062-3	chr6	82915952	82916152	+	632.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308374, intron 11 of 12)	B3|SINE|B2	23717.0	NM_001308374	20355.0	Mm.270543	NM_011350	ENSMUSG00000000627	Sema4f	Sema W	sema domain, immunoglobulin domain (Ig), TM domain, and short cytoplasmic domain	protein-coding	4.0	13.0	3.0	74.5	19.0	10.5	9.0	11.0
Merged-chr5-114100241-4	chr5	114100138	114100338	+	962.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033202)	promoter-TSS (NM_001033202)	-95.0	NM_001033202	100756.0	Mm.240421	NM_001033202	ENSMUSG00000029592	Usp30	6330590F17Rik|AI851327|D5Ertd483e	ubiquitin specific peptidase 30	protein-coding	18.5	39.5	21.0	166.0	65.0	27.5	19.0	21.0
Merged-chr13-54758168-4	chr13	54758066	54758266	+	652.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033610)	TTS (NM_033610)	-8292.0	NM_012014	26913.0	Mm.41812	NM_012014	ENSMUSG00000069227	Gprin1	GRIN1|Z16	G protein-regulated inducer of neurite outgrowth 1	protein-coding	9.0	10.5	5.5	140.5	23.5	8.5	9.5	12.0
Merged-chr3-88177278-3	chr3	88177179	88177379	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045997, intron 1 of 2)	intron (NR_045997, intron 1 of 2)	506.0	NR_045997	76642.0	Mm.424420	NR_045997	ENSMUSG00000096935	1700113A16Rik	2210408E11Rik|AA408983	RIKEN cDNA 1700113A16 gene	ncRNA	24.0	47.0	30.0	328.0	96.5	32.5	26.5	40.0
Merged-chr1-136625520-5	chr1	136625436	136625636	+	877.4400019999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177643, exon 2 of 2)	exon (NM_177643, exon 2 of 2)	635.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	13.0	11.0	25.5	194.0	57.0	14.5	17.0	18.5
Merged-chr18-32394554-4	chr18	32394433	32394633	+	970.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	LTR16B|LTR|ERVL	-16249.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	14.0	26.0	16.0	202.0	25.5	6.0	16.0	6.0
Merged-chr16-23953857-2	chr16	23953757	23953957	+	968.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23063.0	NM_001008230	224055.0	Mm.39248	NM_001008230	ENSMUSG00000047531	Rtp2	Gm605	receptor transporter protein 2	protein-coding	8.5	8.5	4.5	49.0	15.0	8.5	5.5	17.0
Merged-chr19-16122561-4	chr19	16122464	16122664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-10267.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	52.5	97.0	48.0	637.5	258.0	88.0	98.5	91.5
Merged-chr15-100683174-4	chr15	100682987	100683187	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 4 of 7)	B3A|SINE|B2	4833.0	NM_033612	109901.0	Mm.2131	NM_033612	ENSMUSG00000023031	Cela1	1810009A17Rik|1810062B19Rik|Ela-1|Ela1|PC-TsF	chymotrypsin-like elastase family, member 1	protein-coding	11.0	11.5	4.0	103.5	16.5	13.5	10.0	17.0
Merged-chr11-106193090-3	chr11	106192998	106193198	+	951.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252449, intron 1 of 10)	intron (NM_001252449, intron 1 of 10)	505.0	NM_001252448	72149.0	Mm.403722	NM_028126	ENSMUSG00000069631	Strada	2610019A05Rik|6030402H20Rik|AI480680|E130112C09Rik	STE20-related kinase adaptor alpha	protein-coding	4.5	14.0	9.5	99.5	21.0	13.5	19.0	11.0
Merged-chr14-55094941-4	chr14	55094811	55095011	+	875.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153083, exon 1 of 2)	5' UTR (NM_153083, exon 1 of 2)	127.0	NM_153083	105663.0	Mm.319204	NM_153083	ENSMUSG00000045691	Thtpa	AW122966	thiamine triphosphatase	protein-coding	10.0	11.5	8.5	177.5	18.5	8.5	13.0	7.5
Merged-chr11-61175255-4	chr11	61175154	61175354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004143)	promoter-TSS (NM_001004143)	-195.0	NM_001004143	216825.0	Mm.30602	NM_001004143	ENSMUSG00000042506	Usp22	AI427806	ubiquitin specific peptidase 22	protein-coding	385.5	670.5	380.5	5085.5	937.0	481.0	430.5	394.0
Merged-chr5-32748190-3	chr5	32748097	32748297	+	954.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177298, intron 3 of 7)	intron (NM_177298, intron 3 of 7)	-1855.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	8.0	11.5	10.5	198.5	21.5	6.5	5.0	10.0
Merged-chr15-9710522-3	chr15	9710423	9710623	+	915.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305042, intron 9 of 36)	ORR1F|LTR|ERVL-MaLR	38345.0	NM_177123	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	10.0	5.0	8.5	183.5	7.0	6.0	10.0	4.5
Merged-chr4-133493962-4	chr4	133493883	133494083	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081156, intron 1 of 1)	intron (NM_001081156, intron 1 of 1)	4567.0	NM_001081156	69539.0	Mm.151594	NM_001081156	ENSMUSG00000056596	Trnp1	2300002D11Rik|Trnp	TMF1-regulated nuclear protein 1	protein-coding	27.5	45.0	14.0	206.5	52.0	17.5	15.5	10.5
Merged-chr9-59541742-6	chr9	59541758	59541958	+	749.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	2318.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	8.5	4.0	10.5	119.0	13.0	11.5	6.0	10.5
Merged-chr17-32830262-4	chr17	32830120	32830320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293229)	promoter-TSS (NM_001293229)	41.0	NM_001293229	240064.0	Mm.476307	NM_177359	ENSMUSG00000095253	Zfp799	6030490I01Rik	zinc finger protein 799	protein-coding	35.5	62.0	32.0	516.5	132.0	47.5	57.0	52.0
Merged-chr6-4903606-3	chr6	4903537	4903737	+	960.380981	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 1 of 15)	CpG	317.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	10.5	14.5	9.5	230.5	24.0	10.0	10.5	8.5
Merged-chr11-97575885-4	chr11	97575786	97575986	+	845.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018873)	promoter-TSS (NM_018873)	-760.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	13.5	33.5	6.5	117.5	29.5	11.5	12.0	15.5
Merged-chr2-150673976-4	chr2	150673854	150674054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5714.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	111.0	128.5	185.5	2584.0	213.0	63.0	100.0	99.5
Merged-chr8-126587057-4	chr8	126586995	126587195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6341.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	39.0	49.5	23.0	485.5	79.0	29.5	17.0	29.0
Merged-chr4-44168321-4	chr4	44168215	44168415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175201)	promoter-TSS (NM_175201)	-32.0	NM_001038993	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	102.5	101.0	65.5	1295.0	237.5	81.5	129.5	98.0
Merged-chr3-90081666-5	chr3	90081535	90081735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357581, intron 1 of 8)	intron (NM_001357581, intron 1 of 8)	2114.0	NM_001293749	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	58.5	79.0	50.5	566.0	93.0	52.5	47.5	59.0
Merged-chr5-65480596-4	chr5	65480495	65480695	+	951.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	ID_B1|SINE|B4	12240.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	16.0	32.0	10.5	265.0	30.5	23.5	14.0	16.5
Merged-chr6-124930905-4	chr6	124930799	124930999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170341)	promoter-TSS (NM_001170341)	-489.0	NM_145385	30853.0	Mm.29737	NM_145385	ENSMUSG00000030120	Mlf2	AI256856|AU018944|C77284	myeloid leukemia factor 2	protein-coding	107.0	137.0	70.0	1438.0	215.5	103.0	115.5	82.0
Merged-chr10-128704683-1	chr10	128704583	128704783	+	1000.0	f0_balb.idr	intron (NM_183417, intron 1 of 7)	CpG	368.0	NM_183417	12566.0	Mm.111326	NM_016756	ENSMUSG00000025358	Cdk2	A630093N05Rik	cyclin-dependent kinase 2	protein-coding	28.0	35.0	27.5	254.5	50.5	21.5	24.0	36.5
Merged-chr4-134005774-4	chr4	134005687	134005887	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145833, exon 4 of 4)	3' UTR (NM_145833, exon 4 of 4)	-4923.0	NM_026144	67422.0	Mm.100290	NM_026144	ENSMUSG00000012117	Dhdds	3222401G21Rik|CIT|DS|HDS|W91638	dehydrodolichyl diphosphate synthase	protein-coding	19.5	19.5	24.5	398.0	69.0	24.0	27.5	33.0
Merged-chr6-97179593-3	chr6	97179505	97179705	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081111)	promoter-TSS (NM_001081111)	-481.0	NM_001081111	232286.0	Mm.30893	NM_001081111	ENSMUSG00000030059	Tmf1	7030402D04Rik|Gm153|Tmf1`	TATA element modulatory factor 1	protein-coding	16.0	21.0	12.0	206.0	47.0	9.0	16.5	13.5
Merged-chr17-83513846-1	chr17	83513746	83513946	+	923.0	f0_balb.idr	intron (NM_009187, intron 1 of 2)	intron (NM_009187, intron 1 of 2)	487.0	NM_009187	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	16.0	15.0	7.0	235.0	28.5	18.5	26.5	20.0
Merged-chr7-107661367-4	chr7	107661263	107661463	+	975.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008905, intron 3 of 24)	intron (NM_008905, intron 3 of 24)	-4115.0	NM_001357437	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	24.5	21.0	10.0	252.5	41.5	19.5	33.0	26.0
Merged-chr18-65707326-2	chr18	65707226	65707426	+	753.333313	f1_balb.idr|f1_c57bl6.idr	exon (NM_177028, exon 2 of 15)	exon (NM_177028, exon 2 of 15)	9058.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	7.0	11.0	9.0	69.0	4.0	5.5	2.0	8.5
Merged-chr2-85047888-4	chr2	85047791	85047991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001136081)	TTS (NM_001136081)	-2569.0	NM_001081260	228140.0	Mm.23606	NM_001081260	ENSMUSG00000033955	Tnks1bp1	Tab182|mKIAA1741	tankyrase 1 binding protein 1	protein-coding	292.5	452.0	315.0	5202.5	637.0	285.5	339.5	303.5
Merged-chr1-131090395-4	chr1	131090293	131090493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	7450.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	62.0	87.0	36.5	866.5	118.5	49.0	79.5	45.5
Merged-chr1-38012315-4	chr1	38012200	38012400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	intron (NM_198303, intron 1 of 23)	14290.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	75.5	107.5	67.5	1047.0	254.0	58.5	114.0	83.5
Merged-chr16-50430424-8	chr16	50430206	50430406	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 1 of 16)	CpG	2083.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	14.0	28.5	20.0	236.5	45.5	24.0	17.0	30.5
Merged-chr2-91921977-4	chr2	91921899	91922099	+	920.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007699)	promoter-TSS (NM_007699)	-190.0	NM_007699	12672.0	Mm.330405	NM_007699	ENSMUSG00000040495	Chrm4	Chrm-4|M4	cholinergic receptor, muscarinic 4	protein-coding	9.0	21.0	19.5	107.5	42.5	10.5	22.5	30.0
Merged-chr2-163777073-3	chr2	163776973	163777173	+	918.544434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	-26834.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	9.5	18.0	29.5	384.5	14.0	3.5	9.0	15.0
Merged-chr12-102431710-4	chr12	102431606	102431806	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	L1Md_F2|LINE|L1	8107.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	24.5	25.0	24.0	118.0	95.0	30.5	14.0	14.0
Merged-chr7-80838482-2	chr7	80838382	80838582	+	787.025024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23626.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	6.0	8.0	12.0	53.5	8.0	1.0	7.5	9.0
Merged-chr16-3929748-3	chr16	3929637	3929837	+	913.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029738, intron 8 of 11)	intron (NM_029738, intron 8 of 11)	20728.0	NM_029738	76779.0	Mm.458921	NM_029738	ENSMUSG00000014232	Cluap1	2310030D15Rik|2610111M03Rik	clusterin associated protein 1	protein-coding	21.5	7.0	6.5	183.0	19.5	9.0	1.5	2.5
Merged-chr7-63911065-4	chr7	63910968	63911168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-5789.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	89.0	110.5	68.0	1067.5	137.0	71.0	97.5	39.5
Merged-chr3-133526513-4	chr3	133526417	133526617	+	964.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040400, intron 1 of 10)	L1MCa|LINE|L1	17873.0	NM_001040400	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	18.5	22.5	21.5	233.0	33.0	10.0	18.0	25.5
Merged-chr7-101970203-4	chr7	101970078	101970278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133947, intron 1 of 24)	CpG	335.0	NM_133947	101706.0	Mm.27259	NM_133947	ENSMUSG00000066306	Numa1	6720401E04Rik|AA764025|AL022610|AU014979|NuMA	nuclear mitotic apparatus protein 1	protein-coding	36.5	53.5	56.0	585.5	75.5	29.5	27.0	42.5
Merged-chr10-93577694-4	chr10	93577577	93577777	+	944.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175488, intron 13 of 15)	intron (NM_175488, intron 13 of 15)	-11736.0	NR_045810	74454.0	Mm.410794	NR_045810	ENSMUSG00000097407	4933408J17Rik	-	RIKEN cDNA 4933408J17 gene	ncRNA	11.0	17.5	8.5	297.0	61.5	27.5	31.5	22.0
Merged-chr11-79225089-4	chr11	79225000	79225200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17924.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	34.0	95.5	26.0	419.5	106.0	46.5	56.0	27.0
Merged-chr12-73681940-4	chr12	73681816	73682016	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	97120.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	23.0	29.5	24.5	182.5	44.5	10.5	15.5	17.5
Merged-chr11-69059219-1	chr11	69059119	69059319	+	1000.0	f0_c57.idr	promoter-TSS (NM_028005)	promoter-TSS (NM_028005)	-556.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	27.0	89.5	15.5	49.5	95.5	83.5	39.0	24.5
Merged-chr3-126611089-3	chr3	126610985	126611185	+	966.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	14134.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	29.5	51.0	29.0	358.5	24.0	3.0	5.0	6.5
Merged-chr13-54303245-6	chr13	54303121	54303321	+	962.522217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-68128.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	19.5	16.0	11.5	110.0	35.0	19.0	19.5	24.0
Merged-chr11-115248181-3	chr11	115248053	115248253	+	634.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19090.0	NM_010350	14813.0	Mm.39090	NM_010350	ENSMUSG00000020734	Grin2c	GluN2C|NMDAR2C|NR2C	glutamate receptor, ionotropic, NMDA2C (epsilon 3)	protein-coding	10.0	9.0	4.5	82.5	7.0	5.0	1.5	1.5
Merged-chr13-55640664-4	chr13	55640568	55640768	+	866.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282055, intron 3 of 22)	B3A|SINE|B2	5669.0	NM_001282055	212880.0	Mm.202725	NM_145975	ENSMUSG00000021500	Ddx46	2200005K02Rik|8430438J23Rik|AI325430|AI957095|mKIAA0801	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	protein-coding	8.5	14.5	3.5	163.5	25.0	6.5	9.5	14.5
Merged-chr2-130496384-3	chr2	130496325	130496525	+	896.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	46147.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	15.5	21.0	16.5	252.0	3.0	0.5	1.0	2.0
Merged-chr11-62749701-3	chr11	62749591	62749791	+	889.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20598.0	NM_133208	170740.0	Mm.339982	NM_133208	ENSMUSG00000005267	Zfp287	B230333C16Rik|SKAT-2|Skat2|Znf287|mszf16|mszf74	zinc finger protein 287	protein-coding	11.5	11.5	8.5	89.0	11.5	3.0	10.5	6.5
Merged-chr14-70949699-4	chr14	70949591	70949791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	59584.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	38.0	44.5	42.0	904.5	43.5	18.0	37.5	31.0
Merged-chr11-46437479-3	chr11	46437384	46437584	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001104556, intron 1 of 1)	CpG	523.0	NM_025426	66213.0	Mm.24159	NM_025426	ENSMUSG00000020397	Med7	1110063B05Rik|Crsp33|Crsp9	mediator complex subunit 7	protein-coding	16.0	40.0	31.0	255.0	38.5	17.5	15.5	19.0
Merged-chr19-55701009-4	chr19	55700927	55701127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 1 of 3)	intron (NR_045318, intron 1 of 3)	1177.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	54.5	75.0	70.5	696.0	81.5	33.0	41.0	46.0
Merged-chr5-149265054-4	chr5	149264960	149265160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308462)	promoter-TSS (NM_001308462)	56.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	33.0	29.0	16.5	446.0	64.5	28.5	28.5	28.5
Merged-chr8-121947886-4	chr8	121947766	121947966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2626.0	NM_016812	53325.0	Mm.287163	NM_016812	ENSMUSG00000025316	Banp	AA408158|SMAR1	BTG3 associated nuclear protein	protein-coding	103.5	139.0	85.0	1248.5	157.5	54.0	81.5	72.5
Merged-chr10-118804820-4	chr10	118804730	118804930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64073.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	168.0	307.5	157.5	2501.5	341.0	172.5	187.5	129.5
Merged-chr3-98060038-4	chr3	98059930	98060130	+	936.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	46492.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	16.5	16.5	28.5	485.5	43.0	7.0	17.0	14.0
Merged-chr19-34588369-4	chr19	34588299	34588499	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010501, exon 2 of 2)	3' UTR (NM_010501, exon 2 of 2)	4870.0	NM_010501	15959.0	Mm.426079	NM_010501	ENSMUSG00000074896	Ifit3	Ifi49|P49	interferon-induced protein with tetratricopeptide repeats 3	protein-coding	8.5	2.5	12.5	104.5	24.0	8.0	6.5	16.0
Merged-chr13-55858644-3	chr13	55858538	55858738	+	834.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27213.0	NM_011097	18740.0	Mm.135195	NM_011097	ENSMUSG00000021506	Pitx1	Bft|P-OTX|Potx|Ptx1	paired-like homeodomain transcription factor 1	protein-coding	4.0	23.5	7.0	210.0	13.5	8.0	4.5	11.5
Merged-chr4-137367926-4	chr4	137367833	137368033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10174.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	77.5	107.5	66.0	862.0	104.0	47.5	62.0	80.5
Merged-chr11-86822996-4	chr11	86822906	86823106	+	911.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-15346.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	13.5	19.5	13.0	220.5	17.5	9.5	7.0	12.5
Merged-chr12-103532959-4	chr12	103532827	103533027	+	799.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028980, intron 1 of 24)	intron (NM_028980, intron 1 of 24)	362.0	NM_028980	74521.0	Mm.248619	NM_028980	ENSMUSG00000021209	Ppp4r4	8430415E04Rik|mKIAA1622	protein phosphatase 4, regulatory subunit 4	protein-coding	6.5	7.5	3.0	64.5	18.5	8.0	10.0	12.0
Merged-chr12-85395902-3	chr12	85395787	85395987	+	909.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21170.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	8.0	9.0	8.0	157.0	16.5	4.5	7.0	6.5
Merged-chr18-60500096-4	chr18	60499993	60500193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134133, intron 1 of 1)	intron (NM_134133, intron 1 of 1)	1890.0	NM_134133	106878.0	Mm.273197	NM_134133	ENSMUSG00000038059	Smim3	2010002N04Rik|AI195350|AW561905|Nid67|cI-41	small integral membrane protein 3	protein-coding	164.5	234.5	171.0	1743.5	170.5	111.5	109.0	75.0
Merged-chr16-36071602-4	chr16	36071493	36071693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027342)	promoter-TSS (NM_027342)	-67.0	NM_198645	381045.0	Mm.310434	NM_198645	ENSMUSG00000075229	Ccdc58	A930007B11Rik|AI413631	coiled-coil domain containing 58	protein-coding	92.5	106.5	70.5	1371.0	249.0	87.0	113.5	88.5
Merged-chr19-34192645-4	chr19	34192552	34192752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360717)	promoter-TSS (NM_001360717)	-282.0	NM_001360717	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	95.0	131.0	69.5	1530.5	230.5	93.0	96.5	101.5
Merged-chr1-64377960-4	chr1	64377861	64378061	+	996.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-154843.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	23.0	19.0	22.5	592.0	69.5	7.5	30.0	23.5
Merged-chr9-85587298-4	chr9	85587239	85587439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161995.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	67.0	106.5	76.5	664.0	146.5	57.5	70.5	38.0
Merged-chr6-129472851-4	chr6	129472747	129472947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132130)	promoter-TSS (NR_132130)	-68.0	NR_132130	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	63.5	137.0	93.0	1531.5	211.5	87.5	73.5	55.0
Merged-chr18-67461012-4	chr18	67460915	67461115	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3834.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	21.5	23.5	27.0	525.0	43.0	15.5	27.5	20.5
Merged-chr10-88420843-4	chr10	88420751	88420951	+	963.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 7 of 20)	intron (NM_001004164, intron 7 of 20)	-38736.0	NM_011517	20962.0	Mm.297977	NM_011517	ENSMUSG00000020059	Sycp3	Cor1|Scp3	synaptonemal complex protein 3	protein-coding	31.5	30.5	14.5	444.0	44.5	15.0	23.0	36.0
Merged-chr11-97800178-4	chr11	97800050	97800250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 1 of 6)	CpG	585.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	21.5	14.0	24.5	262.5	39.0	14.0	27.0	50.5
Merged-chr19-5622107-4	chr19	5622020	5622220	+	951.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-12026.0	NM_178637	81601.0	Mm.228930	NM_178637	ENSMUSG00000024926	Kat5	AI839539|CPLA2|Htatip|Htatip1|PLIP|Tip55|Tip60	K(lysine) acetyltransferase 5	protein-coding	17.0	31.0	25.0	217.5	29.0	13.0	27.5	14.5
Merged-chr1-144247696-4	chr1	144247598	144247798	+	939.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015811, intron 3 of 4)	intron (NM_015811, intron 3 of 4)	1406.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	16.5	24.0	14.5	227.0	44.5	19.5	9.0	21.5
Merged-chr9-47647746-3	chr9	47647646	47647846	+	933.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	117394.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	13.0	9.5	10.5	200.0	17.5	7.0	6.5	11.5
Merged-chr6-140489727-3	chr6	140489620	140489820	+	925.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144920, intron 3 of 30)	intron (NM_144920, intron 3 of 30)	65621.0	NM_144920	109135.0	Mm.247670	NM_144920	ENSMUSG00000030231	Plekha5	2810431N21Rik|AI428202|AK129423|AMH-Cre|Ayu21-9|Gt(pU21)9Imeg|Pepp2|Tg(AMH-cre)1Flor	pleckstrin homology domain containing, family A member 5	protein-coding	8.5	9.5	13.0	282.5	17.5	16.5	9.5	5.0
Merged-chr16-93084512-4	chr16	93084424	93084624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-258450.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	81.5	162.5	76.0	941.0	286.5	95.0	140.0	100.0
Merged-chr5-25023149-3	chr5	25023063	25023263	+	770.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 2 of 15)	intron (NM_145401, intron 2 of 15)	-27410.0	NM_001310480	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	8.5	5.0	9.0	82.5	8.0	3.5	0.0	2.5
Merged-chr17-24745739-4	chr17	24745635	24745835	+	964.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7253.0	NM_001357342	328779.0	Mm.328848	NM_001012402	ENSMUSG00000039628	Hs3st6	3-OST-6	heparan sulfate (glucosamine) 3-O-sulfotransferase 6	protein-coding	16.5	27.5	3.5	193.0	35.5	15.0	14.0	23.0
Merged-chr10-96496882-3	chr10	96496770	96496970	+	946.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120131.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	21.0	10.5	32.0	291.5	5.5	1.5	2.0	12.0
Merged-chr11-35297984-2	chr11	35297884	35298084	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011412, intron 4 of 35)	intron (NM_011412, intron 4 of 35)	176528.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	11.5	10.0	12.0	41.5	46.0	9.5	5.5	17.0
Merged-chr8-86809233-2	chr8	86809133	86809333	+	557.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63227.0	NM_009172	20437.0	Mm.324553	NM_009172	ENSMUSG00000036840	Siah1a	AA982064|AI853500|Sinh1a	siah E3 ubiquitin protein ligase 1A	protein-coding	7.5	7.5	6.0	31.0	2.0	4.0	1.5	0.5
Merged-chr15-94543646-4	chr15	94543546	94543746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029926)	promoter-TSS (NM_029926)	-14.0	NM_029926	266632.0	Mm.422858	NM_029926	ENSMUSG00000059883	Irak4	8430405M07Rik|9330209D03Rik|IRAK-4|NY-REN-64	interleukin-1 receptor-associated kinase 4	protein-coding	185.5	226.5	218.0	2311.0	454.5	174.0	312.5	199.0
Merged-chr11-94486208-4	chr11	94486116	94486316	+	855.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144827)	promoter-TSS (NM_144827)	-906.0	NM_144827	217116.0	Mm.156123	NM_144827	ENSMUSG00000020867	Spata20	Tisp78	spermatogenesis associated 20	protein-coding	10.5	17.5	8.0	148.5	7.0	18.0	14.5	10.5
Merged-chr7-80177636-3	chr7	80177544	80177744	+	847.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9197.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	2.0	19.0	1.5	16.0	51.5	10.0	10.0	12.5
Merged-chr5-92374883-4	chr5	92374778	92374978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-11582.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	140.5	232.5	185.5	1445.0	317.5	115.5	138.5	92.0
Merged-chr16-90727444-4	chr16	90727348	90727548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025642)	promoter-TSS (NM_025642)	-77.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	190.5	201.5	110.5	2035.5	439.0	147.5	191.0	174.5
Merged-chr17-13905782-4	chr17	13905675	13905875	+	963.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010806)	TTS (NM_010806)	-42598.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	20.0	18.5	38.5	599.5	35.0	14.0	9.5	23.5
Merged-chr11-97592052-3	chr11	97591960	97592160	+	985.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6451.0	NR_045496	69729.0	Mm.233452	NR_045496	ENSMUSG00000085860	2410003L11Rik	-	RIKEN cDNA 2410003L11 gene	ncRNA	13.0	26.0	15.5	201.5	9.5	3.5	11.5	9.5
Merged-chr13-51417952-4	chr13	51417853	51418053	+	960.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010101, intron 1 of 1)	intron (NM_010101, intron 1 of 1)	9335.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	23.5	11.5	21.5	359.0	30.0	5.0	20.5	17.5
Merged-chr2-43795019-4	chr2	43794926	43795126	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 2 of 14)	intron (NM_001301831, intron 2 of 14)	46202.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	7.5	7.5	7.0	81.0	18.5	4.0	9.0	16.0
Merged-chr12-54656630-4	chr12	54656512	54656712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134054)	promoter-TSS (NM_134054)	-40.0	NM_134054	104725.0	Mm.485026	NM_134054	ENSMUSG00000044408	Sptssa	1110002B05Rik|AA407909|AA409588|AU041967|Ssspta	serine palmitoyltransferase, small subunit A	protein-coding	249.5	390.0	266.5	4634.0	626.0	236.0	361.5	261.5
Merged-chr8-10990971-3	chr8	10990867	10991067	+	745.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081212, intron 1 of 1)	intron (NM_001081212, intron 1 of 1)	-16883.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	8.0	22.5	9.5	121.5	7.0	4.0	8.0	5.0
Merged-chr1-51930811-4	chr1	51930709	51930909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14831.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	99.5	186.0	109.5	1483.5	138.0	41.0	95.0	45.5
Merged-chr18-79590631-4	chr18	79590526	79590726	+	899.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-456269.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	7.5	11.0	14.0	180.5	45.5	12.5	23.0	15.5
Merged-chr6-84058792-3	chr6	84058696	84058896	+	893.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 4 of 54)	intron (NM_001077694, intron 4 of 54)	39410.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	7.0	3.0	9.5	243.5	22.5	8.0	5.0	10.0
Merged-chr6-41191110-4	chr6	41191019	41191219	+	839.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111153.0	NM_011646	22074.0	Mm.383263	NM_011646	ENSMUSG00000054106	Try4	0910001B19Rik|Td	trypsin 4	protein-coding	5.0	8.5	14.0	191.0	30.5	16.5	15.0	35.5
Merged-chr3-60320389-4	chr3	60320282	60320482	+	896.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-152448.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	3.5	12.5	8.0	154.5	33.0	9.5	16.0	5.0
Merged-chr13-58157664-4	chr13	58157557	58157757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048060)	promoter-TSS (NM_001048060)	8.0	NM_198004	75731.0	Mm.293919	NM_198004	ENSMUSG00000050002	Idnk	5133401N09Rik	idnK gluconokinase homolog (E. coli)	protein-coding	57.0	87.5	46.5	889.0	145.5	65.0	79.0	83.5
Merged-chr15-58818204-4	chr15	58818115	58818315	+	854.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 1 of 6)	MLT1D|LTR|ERVL-MaLR	5212.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	11.5	9.0	9.5	354.5	16.0	7.5	5.0	12.0
Merged-chr4-101354615-4	chr4	101354515	101354715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040640, intron 1 of 3)	intron (NR_040640, intron 1 of 3)	832.0	NR_040640	68400.0	Mm.272098	NR_040640	ENSMUSG00000087361	0610043K17Rik	-	RIKEN cDNA 0610043K17 gene	ncRNA	31.5	91.5	41.5	830.5	131.0	50.5	62.0	59.5
Merged-chr7-24890635-4	chr7	24890538	24890738	+	904.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360119)	TTS (NM_001360119)	5725.0	NM_001360115	20085.0	Mm.300281	NM_023133	ENSMUSG00000040952	Rps19	Dsk3	ribosomal protein S19	protein-coding	8.0	31.5	11.0	399.5	37.5	13.5	10.0	11.5
Merged-chr4-62525400-4	chr4	62525251	62525451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177607)	promoter-TSS (NM_177607)	-18.0	NM_001356420	214106.0	Mm.73212	NM_177607	ENSMUSG00000058046	4933430I17Rik	bN189G18.7	RIKEN cDNA 4933430I17 gene	protein-coding	88.0	133.0	64.5	983.0	307.5	135.0	135.0	105.0
Merged-chr9-35267812-4	chr9	35267769	35267969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175411)	promoter-TSS (NM_175411)	-12.0	NM_028040	71989.0	Mm.273515	NM_028040	ENSMUSG00000032044	Rpusd4	2410001E19Rik	RNA pseudouridylate synthase domain containing 4	protein-coding	132.5	160.0	112.5	1445.0	196.5	69.0	81.5	102.0
Merged-chr10-51527984-6	chr10	51527868	51528068	+	959.513916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16-int|LTR|ERVK	37070.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	9.0	10.5	10.5	123.0	29.5	7.5	16.5	12.5
Merged-chr11-3932072-4	chr11	3931956	3932156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015749)	promoter-TSS (NM_015749)	-12.0	NM_015749	21452.0	Mm.20948	NM_015749	ENSMUSG00000020432	Tcn2	AW208754|Tcn-2	transcobalamin 2	protein-coding	57.0	72.0	64.0	1219.5	144.5	43.0	72.0	63.5
Merged-chr12-55443333-4	chr12	55443215	55443415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44490.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	43.0	81.0	58.0	536.5	85.0	25.5	48.0	43.5
Merged-chr17-8214568-4	chr17	8214444	8214644	+	922.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21499.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	24.5	13.0	15.0	403.0	41.0	7.5	5.5	22.5
Merged-chr6-145750754-3	chr6	145750676	145750876	+	823.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57607.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	10.0	6.5	13.5	332.0	6.5	1.0	9.5	7.5
Merged-chr17-65717709-4	chr17	65717627	65717827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 2 of 6)	intron (NM_133685, intron 2 of 6)	55025.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	107.5	138.0	136.0	2136.0	307.5	94.0	173.5	139.5
Merged-chr16-30390757-4	chr16	30390661	30390861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2231.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	41.5	28.5	24.0	339.5	112.0	21.0	27.0	31.0
Merged-chr2-6872303-3	chr2	6872213	6872413	+	764.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347094)	promoter-TSS (NM_001347094)	-278.0	NM_001347094	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	6.5	16.0	13.5	163.5	7.5	5.5	5.5	5.0
Merged-chr11-101174145-6	chr11	101174062	101174262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007721, exon 2 of 2)	exon (NM_007721, exon 2 of 2)	1281.0	NM_007721	12777.0	Mm.8021	NM_007721	ENSMUSG00000044052	Ccr10	C-C CKR-10|CC-CKR-10|CCR-10|Cmkbr9|Gpr2	chemokine (C-C motif) receptor 10	protein-coding	13.0	32.0	26.5	114.0	35.0	20.0	16.5	20.0
Merged-chr10-79926482-4	chr10	79926331	79926531	+	799.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007880)	promoter-TSS (NM_007880)	-612.0	NM_001288626	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	2.0	7.5	7.5	46.5	28.0	7.5	7.5	10.0
Merged-chr11-85521145-4	chr11	85521023	85521223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 16 of 25)	intron (NM_138681, intron 16 of 25)	167959.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	95.5	139.0	100.0	1486.5	138.5	50.5	55.5	58.0
Merged-chr1-55430453-4	chr1	55430359	55430559	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	24513.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	51.0	80.0	89.5	918.0	25.0	4.0	18.0	2.0
Merged-chr11-30772378-4	chr11	30772282	30772482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134013, intron 1 of 46)	CpG	607.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	46.5	72.5	60.5	791.0	97.5	31.5	49.5	40.5
Merged-chr13-52985581-4	chr13	52985482	52985682	+	961.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4543.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	32.0	13.5	20.0	227.5	44.0	14.5	16.5	21.0
Merged-chr2-30928501-4	chr2	30928392	30928592	+	890.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24509.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	8.0	33.5	13.5	161.5	26.0	13.5	8.5	16.5
Merged-chr16-91413300-4	chr16	91413223	91413423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008349, intron 3 of 6)	intron (NM_008349, intron 3 of 6)	7088.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	19.0	28.5	49.5	537.5	51.5	10.5	21.5	33.5
Merged-chr9-87255496-4	chr9	87255410	87255610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199316)	promoter-TSS (NM_199316)	22.0	NM_199316	382090.0	Mm.335338	NM_199316	ENSMUSG00000056919	Cep162	4922501C03Rik|mKIAA1009	centrosomal protein 162	protein-coding	87.5	113.0	92.5	1570.0	210.0	97.5	92.5	110.0
Merged-chr12-21417221-3	chr12	21417117	21417317	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011739, exon 1 of 5)	5' UTR (NM_011739, exon 1 of 5)	219.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	28.5	129.5	61.0	913.0	139.5	63.5	58.0	53.5
Merged-chr1-86038360-4	chr1	86038240	86038440	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7523.0	NM_001144993	72792.0	Mm.54981	NM_001144992	ENSMUSG00000026227	2810459M11Rik	-	RIKEN cDNA 2810459M11 gene	protein-coding	13.5	27.0	12.5	229.5	58.5	16.5	29.5	27.5
Merged-chr6-72512656-4	chr6	72512596	72512796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31695.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	61.0	115.5	118.0	1061.0	188.0	75.5	79.0	100.5
Merged-chr8-88757208-2	chr8	88757113	88757313	+	588.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	60185.0	NM_001128171	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	8.5	8.0	10.0	56.5	5.5	1.5	3.0	3.0
Merged-chr7-128400824-4	chr7	128400732	128400932	+	774.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	intron (NM_026418, intron 3 of 4)	17340.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	4.5	3.0	6.0	97.5	26.5	6.0	11.5	8.0
Merged-chr19-28011625-4	chr19	28011538	28011738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011265)	promoter-TSS (NM_011265)	-472.0	NM_001166414	19726.0	Mm.313321	NM_011265	ENSMUSG00000040929	Rfx3	C230093O12Rik|MRFX3	regulatory factor X, 3 (influences HLA class II expression)	protein-coding	92.0	135.5	102.0	1222.0	205.5	46.0	82.5	54.5
Merged-chr10-117393419-4	chr10	117393327	117393527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16454.0	NM_001310609	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	49.0	113.5	56.0	1065.0	240.0	90.5	120.0	86.5
Merged-chr15-102393708-4	chr15	102393608	102393808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12608.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	98.0	148.5	95.5	1476.0	250.5	86.5	98.5	72.5
Merged-chr12-55315406-4	chr12	55315306	55315506	+	881.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025373, intron 3 of 6)	B1F|SINE|Alu	-12406.0	NM_021529	59032.0	Mm.427307	NM_021529	ENSMUSG00000021022	Ppp2r3c	4930511A21Rik|5730412A08Rik|G4-1|G5pr	protein phosphatase 2, regulatory subunit B'', gamma	protein-coding	13.5	11.5	4.0	288.0	27.5	13.0	8.0	14.0
Merged-chr15-75086400-4	chr15	75086294	75086494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25543.0	NM_001357693	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	90.0	69.0	112.0	670.0	84.5	30.5	32.5	126.0
Merged-chr16-33583969-4	chr16	33583757	33583957	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 4 of 11)	intron (NM_001083902, intron 4 of 11)	65262.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	3.0	3.0	12.0	30.0	11.5	5.0	5.5	5.0
Merged-chr17-26203543-4	chr17	26203438	26203638	+	907.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081069, intron 3 of 16)	CpG-6118	597.0	NM_001081069	50782.0	Mm.109840	NM_001081069	ENSMUSG00000024186	Rgs11	C78048	regulator of G-protein signaling 11	protein-coding	10.5	18.5	6.5	205.0	24.0	11.5	10.0	17.0
Merged-chr16-30155208-3	chr16	30155103	30155303	+	999.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89846.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	0.0	1.0	0.0	28.5	85.0	29.0	33.0	45.5
Merged-chr7-6171596-4	chr7	6171507	6171707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146024)	promoter-TSS (NM_001146024)	-906.0	NM_028316	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	31.5	48.5	24.5	475.5	82.5	36.0	29.0	41.0
Merged-chr1-23399775-4	chr1	23399654	23399854	+	894.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME2|LINE|L1	-16579.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	8.5	11.5	15.0	287.0	32.5	9.5	17.5	12.5
Merged-chr10-96706878-4	chr10	96706785	96706985	+	941.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89884.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	8.0	14.0	17.5	363.5	50.0	23.5	23.0	19.0
Merged-chr9-53594929-2	chr9	53594829	53595029	+	839.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_144784, intron 3 of 11)	B3|SINE|B2	15421.0	NM_144784	110446.0	Mm.293233	NM_144784	ENSMUSG00000032047	Acat1	6330585C21Rik|Acat	acetyl-Coenzyme A acetyltransferase 1	protein-coding	5.5	6.5	0.0	35.5	14.0	10.0	10.5	13.5
Merged-chr6-54699629-3	chr6	54699524	54699724	+	949.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001289740, exon 3 of 3)	3' UTR (NM_001289740, exon 3 of 3)	18000.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	0.5	0.0	2.0	17.0	64.0	33.5	52.5	33.0
Merged-chr10-127937068-6	chr10	127936962	127937162	+	870.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	38527.0	NM_027301	70061.0	Mm.158320	NM_027301	ENSMUSG00000040127	Sdr9c7	1810054F20Rik|Rdh20|Rdhs|SDR-O|Sdro	4short chain dehydrogenase/reductase family 9C, member 7	protein-coding	3.5	6.0	15.0	63.5	13.0	4.5	5.0	8.0
Merged-chr2-180925373-4	chr2	180925290	180925490	+	859.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3633.0	NM_001163247	329581.0	Mm.187879	NM_001163247	ENSMUSG00000038840	Birc7	E130019N06|KIAP|Livin|ML-IAP	baculoviral IAP repeat-containing 7 (livin)	protein-coding	13.0	29.5	5.5	100.5	39.0	8.0	10.5	15.5
Merged-chr9-111081011-4	chr9	111080896	111081096	+	931.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23478.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	20.0	12.0	37.0	512.5	16.5	4.5	28.0	16.5
Merged-chr2-36009563-3	chr2	36009458	36009658	+	771.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29934.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	13.0	4.5	4.5	125.5	33.0	5.5	9.0	10.0
Merged-chr8-13104903-4	chr8	13104817	13105017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146207)	promoter-TSS (NM_146207)	426.0	NM_178708	234069.0	Mm.103427	NM_178708	ENSMUSG00000038542	Pcid2	A730042J05Rik	PCI domain containing 2	protein-coding	41.0	57.0	32.5	689.5	139.0	53.5	60.0	58.5
Merged-chr11-6490311-4	chr11	6490186	6490386	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14210.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	26.0	35.5	25.5	357.0	59.5	19.5	28.5	21.0
Merged-chr14-118371535-3	chr14	118371432	118371632	+	899.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045624, intron 3 of 5)	intron (NR_045624, intron 3 of 5)	5654.0	NR_045624	73306.0	Mm.362328	NR_045624	ENSMUSG00000099911	1700044C05Rik	-	RIKEN cDNA 1700044C05 gene	ncRNA	18.0	21.5	32.5	309.0	10.5	1.5	7.0	1.5
Merged-chr9-121574611-4	chr9	121574517	121574717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-12403.0	NR_040740	75384.0	Mm.445955	NR_040740	ENSMUSG00000084995	Lyzl4os	4930589B17Rik|4930596M17Rik	lysozyme-like 4, opposite strand	ncRNA	29.0	36.0	46.5	497.0	66.0	26.5	30.5	18.5
Merged-chr5-105141313-2	chr5	105141213	105141413	+	684.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-1727.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	1.5	2.0	5.5	19.0	14.0	7.5	7.0	9.0
Merged-chr18-34557690-3	chr18	34557610	34557810	+	873.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	15382.0	NM_009290	20890.0	Mm.558	NM_009290	ENSMUSG00000012282	Wnt8a	Stra11|Wnt-8A|Wnt-8D|Wnt8d	wingless-type MMTV integration site family, member 8A	protein-coding	0.0	0.0	0.0	0.0	83.0	14.0	27.5	30.0
Merged-chr2-120036410-4	chr2	120036329	120036529	+	882.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104353, exon 15 of 27)	non-coding (NR_104353, exon 15 of 27)	2996.0	NM_145378	211429.0	Mm.41467	NM_145378	ENSMUSG00000098488	Pla2g4b	A030011C02Rik|Gm1013|cPLA2-beta	phospholipase A2, group IVB (cytosolic)	protein-coding	6.0	10.0	7.0	147.0	31.0	10.5	15.5	21.5
Merged-chr1-172500718-12	chr1	172500558	172500758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178598, intron 1 of 4)	CpG	412.0	NM_178598	21346.0	Mm.271711	NM_178598	ENSMUSG00000026547	Tagln2	2700094C18Rik|SM22beta|Sm22B|Sm22a	transgelin 2	protein-coding	17.0	37.5	33.5	364.5	82.0	30.5	27.5	28.5
Merged-chr16-49876315-4	chr16	49876207	49876407	+	989.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 3 of 9)	intron (NM_010581, intron 3 of 9)	20653.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	16.0	20.0	10.0	253.5	57.5	14.5	20.5	29.5
Merged-chr4-133968074-4	chr4	133967983	133968183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016957)	promoter-TSS (NM_016957)	-92.0	NM_016957	15331.0	Mm.319660	NM_016957	ENSMUSG00000003038	Hmgn2	HMG-17|Hmg17	high mobility group nucleosomal binding domain 2	protein-coding	45.5	61.0	34.5	428.5	90.0	47.5	26.0	56.5
Merged-chr6-33484773-4	chr6	33484657	33484857	+	922.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 9 of 17)	intron (NM_009148, intron 9 of 17)	235629.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	12.0	28.5	10.0	205.0	39.0	9.0	13.5	12.0
Merged-chr9-83548329-4	chr9	83548222	83548422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172507)	promoter-TSS (NM_172507)	-16.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	86.0	144.5	92.5	1079.0	239.0	98.5	118.0	97.5
Merged-chr1-152582985-3	chr1	152582867	152583067	+	853.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	Arthur1|DNA|hAT-Tip100	42250.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	3.5	12.5	7.0	84.0	11.5	5.5	5.0	7.5
Merged-chr18-40308226-4	chr18	40308101	40308301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026135, intron 1 of 1)	intron (NM_026135, intron 1 of 1)	49840.0	NM_026135	383348.0	Mm.76366	NM_026135	ENSMUSG00000051401	Kctd16	4930434H12Rik|Gm1267	potassium channel tetramerisation domain containing 16	protein-coding	147.0	114.0	121.0	1354.0	109.5	44.0	41.5	111.5
Merged-chr17-35257595-4	chr17	35257497	35257697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-5497.0	NM_010380	14964.0	Mm.439675	NM_010380	ENSMUSG00000073411	H2-D1	H-2D|H2-D	histocompatibility 2, D region locus 1	protein-coding	30.0	55.5	24.0	372.0	116.0	35.0	42.5	62.5
Merged-chr16-22264825-4	chr16	22264740	22264940	+	878.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330555, intron 1 of 9)	intron (NM_001330555, intron 1 of 9)	1165.0	NM_001330554	20462.0	Mm.210352	NM_009186	ENSMUSG00000022858	Tra2b	5730405G21Rik|D16Ertd266e|SIG-41|Sfrs10|Silg41|TRA2beta	transformer 2 beta	protein-coding	13.0	23.5	11.5	184.5	36.5	9.0	17.5	16.0
Merged-chr2-33467715-4	chr2	33467604	33467804	+	850.1124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355611, intron 1 of 2)	intron (NM_001355611, intron 1 of 2)	828.0	NM_027947	71834.0	Mm.44186	NM_027947	ENSMUSG00000026788	Zbtb43	1700010E06Rik|Zfp297b|mKIAA0414	zinc finger and BTB domain containing 43	protein-coding	16.0	19.0	12.0	113.5	27.5	16.0	13.5	26.5
Merged-chr13-89376297-3	chr13	89376182	89376382	+	852.422241	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164354.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	6.0	2.0	3.5	78.0	48.0	15.0	10.5	10.0
Merged-chr11-69692366-4	chr11	69692272	69692472	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011614, intron 5 of 6)	L2|LINE|L2	3726.0	NM_011614	21944.0	Mm.8983	NM_011614	ENSMUSG00000097328	Tnfsf12	Apo3l|Dr3l|Dr3lg|Tweak	tumor necrosis factor (ligand) superfamily, member 12	protein-coding	26.5	55.0	62.0	831.5	53.0	14.0	24.5	29.5
Merged-chr11-49845374-4	chr11	49845286	49845486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1365.0	NM_001163671	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	25.0	36.0	18.5	371.5	78.0	27.5	51.5	50.5
Merged-chr15-12373743-4	chr15	12373644	12373844	+	991.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081064, exon 19 of 24)	exon (NM_001081064, exon 19 of 24)	52248.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	19.5	23.0	32.0	477.5	20.5	9.0	26.5	28.5
Merged-chr6-113630486-4	chr6	113630369	113630569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009507, exon 3 of 3)	3' UTR (NM_009507, exon 3 of 3)	6448.0	NM_009507	22346.0	Mm.29407	NM_009507	ENSMUSG00000033933	Vhl	Vhlh	von Hippel-Lindau tumor suppressor	protein-coding	36.0	59.0	37.0	824.0	59.5	23.5	23.5	25.0
Merged-chr14-34502770-4	chr14	34502693	34502893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009758)	promoter-TSS (NM_009758)	-247.0	NM_009758	12166.0	Mm.237825	NM_009758	ENSMUSG00000021796	Bmpr1a	1110037I22Rik|ALK-3|ALK3|AU045487|BMPR-1A|BMPR-IA|Bmpr|SKR5	bone morphogenetic protein receptor, type 1A	protein-coding	58.5	68.5	28.5	619.5	166.5	55.5	55.5	59.0
Merged-chr11-54555027-2	chr11	54554927	54555127	+	772.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 4 of 28)	intron (NM_001252494, intron 4 of 28)	32182.0	NM_001252496	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	4.5	18.0	2.0	120.5	12.0	6.5	5.0	13.0
Merged-chr6-97211357-4	chr6	97211282	97211482	+	708.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022992, intron 1 of 2)	intron (NM_022992, intron 1 of 2)	590.0	NM_022992	65106.0	Mm.291014	NM_022992	ENSMUSG00000035199	Arl6ip5	5930404D22Rik|AV001879|Aip-5|Gtrap3-18|addiscin	ADP-ribosylation factor-like 6 interacting protein 5	protein-coding	10.0	10.5	17.0	142.5	26.0	12.0	4.5	7.0
Merged-chr1-52734368-3	chr1	52734262	52734462	+	984.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-7004.0	NM_001357464	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	9.0	49.5	20.0	188.0	8.5	6.0	4.5	11.5
Merged-chr15-91169123-3	chr15	91168997	91169197	+	899.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 6 of 9)	Lx|LINE|L1	22910.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	5.0	10.0	5.0	116.5	12.0	2.0	10.0	7.0
Merged-chr9-44113604-4	chr9	44113491	44113691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153762)	promoter-TSS (NM_153762)	-540.0	NM_153762	213211.0	Mm.392032	NM_153762	ENSMUSG00000053128	Rnf26	8030450I18Rik	ring finger protein 26	protein-coding	182.0	246.0	126.0	1777.5	434.0	177.0	139.0	126.5
Merged-chr17-57276946-4	chr17	57276785	57276985	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2215.0	NM_001163816	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	14.0	32.0	18.5	309.0	51.5	16.0	13.5	13.5
Merged-chr11-61990056-2	chr11	61989956	61990156	+	661.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310526, intron 1 of 7)	intron (NM_001310526, intron 1 of 7)	33293.0	NM_001310526	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	6.5	7.0	13.5	62.5	4.5	2.0	2.0	2.5
Merged-chr1-40415686-3	chr1	40415595	40415795	+	663.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13875.0	NM_001294171	17082.0	Mm.289824	NM_010743	ENSMUSG00000026069	Il1rl1	DER4|Fit-1|Ly84|ST2L|St2|St2-rs1|T1|T1/ST2	interleukin 1 receptor-like 1	protein-coding	5.0	5.0	4.5	88.0	6.0	3.5	2.5	6.0
Merged-chr4-34430779-3	chr4	34430649	34430849	+	940.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119866.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	9.0	5.5	8.0	208.5	9.5	1.5	2.5	6.5
Merged-chr5-29947491-4	chr5	29947389	29947589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65625.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	36.0	43.0	28.5	250.0	92.0	33.5	26.0	28.0
Merged-chr2-133021328-6	chr2	133021261	133021461	+	814.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75325.0	NM_198029	241639.0	Mm.209784	NM_198029	ENSMUSG00000027356	Fermt1	5830467P10Rik|Kindlin-1	fermitin family member 1	protein-coding	8.5	7.5	7.0	106.0	15.0	3.5	8.5	4.5
Merged-chr11-120041054-2	chr11	120040986	120041186	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001198785, intron 1 of 13)	intron (NM_001198785, intron 1 of 13)	695.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	12.0	21.5	7.5	272.0	8.5	7.5	4.5	10.5
Merged-chr8-116587806-4	chr8	116587716	116587916	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 4 of 6)	intron (NM_029441, intron 4 of 6)	82801.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	19.5	22.0	12.5	260.5	59.0	15.5	44.5	57.5
Merged-chr11-78115514-4	chr11	78115424	78115624	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145430, intron 1 of 2)	intron (NM_145430, intron 1 of 2)	20851.0	NM_145430	216971.0	Mm.119387	NM_145430	ENSMUSG00000037750	Fam222b	9630020I17Rik	family with sequence similarity 222, member B	protein-coding	27.0	27.5	15.0	299.5	82.0	30.0	35.0	30.5
Merged-chr15-27923825-4	chr15	27923733	27923933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	102015.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	62.5	123.5	44.0	861.5	143.5	53.5	82.0	45.0
Merged-chr4-43957385-4	chr4	43957291	43957491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027450)	promoter-TSS (NM_027450)	-311.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	66.5	113.0	57.5	636.0	173.0	81.5	108.0	61.0
Merged-chr3-146781362-4	chr3	146781262	146781462	+	982.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164200)	promoter-TSS (NM_001164200)	54.0	NM_001164200	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	23.5	26.0	29.0	420.0	39.5	13.0	14.5	14.0
Merged-chr17-51833039-4	chr17	51832908	51833108	+	940.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009122)	promoter-TSS (NM_009122)	282.0	NM_001163632	20230.0	Mm.311655	NM_009122	ENSMUSG00000023927	Satb1	2610306G12Rik|AW413156	special AT-rich sequence binding protein 1	protein-coding	17.0	16.0	21.5	173.5	51.5	9.5	16.0	14.0
Merged-chr1-34236510-4	chr1	34236405	34236605	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 60 of 102)	intron (NM_001276764, intron 60 of 102)	76175.0	NM_010081	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	7.5	18.5	11.5	160.5	24.0	7.5	6.0	12.5
Merged-chr4-154929571-4	chr4	154929453	154929653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1476.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	111.5	143.0	96.0	1328.0	265.0	104.0	122.0	132.5
Merged-chr7-31042196-4	chr7	31042077	31042277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111073)	promoter-TSS (NM_001111073)	154.0	NM_008761	18301.0	Mm.1870	NM_008761	ENSMUSG00000009687	Fxyd5	EF-8|Oit2|RIC	FXYD domain-containing ion transport regulator 5	protein-coding	27.5	31.0	11.5	339.5	83.0	33.0	30.5	38.0
Merged-chr12-34701664-4	chr12	34701576	34701776	+	879.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-172787.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	17.5	16.5	14.0	211.0	48.0	7.0	8.0	14.5
Merged-chr9-110333302-4	chr9	110333203	110333403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001103162)	promoter-TSS (NM_001103162)	15.0	NM_001103162	235623.0	Mm.288741	NM_001001144	ENSMUSG00000032485	Scap	9530044G19|mKIAA0199	SREBF chaperone	protein-coding	70.5	114.5	55.0	987.0	243.5	74.5	79.5	91.0
Merged-chr13-30003334-4	chr13	30003248	30003448	+	825.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17285.0	NM_010093	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	10.5	19.5	12.0	277.0	27.0	8.0	14.5	13.5
Merged-chr5-108032001-4	chr5	108031894	108032094	+	783.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-33680.0	NM_001359088	17765.0	Mm.257149	NM_013827	ENSMUSG00000029267	Mtf2	9230112N11Rik|AA537621|C76717|M96|Pcl2	metal response element binding transcription factor 2	protein-coding	4.0	14.0	7.5	121.5	12.5	7.0	6.0	17.5
Merged-chr1-60974958-4	chr1	60974862	60975062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2952.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	39.5	55.5	40.5	608.0	68.0	39.0	40.5	42.5
Merged-chr13-37692552-3	chr13	37692449	37692649	+	940.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133489.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	12.0	13.0	8.5	219.5	16.5	3.0	5.0	21.0
Merged-chr2-118587842-4	chr2	118587747	118587947	+	851.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-10364.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	12.5	12.0	5.5	95.5	24.5	9.0	9.0	5.5
Merged-chr9-62367862-3	chr9	62367795	62367995	+	850.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	intron (NM_009672, intron 1 of 6)	26552.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	6.5	10.5	11.0	128.0	12.5	1.0	6.0	5.0
Merged-chr19-46760905-3	chr19	46760814	46761014	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033569)	promoter-TSS (NM_033569)	-695.0	NM_033569	94219.0	Mm.306903	NM_033569	ENSMUSG00000064105	Cnnm2	AU015877|AW048635|Acdp2|Clp2	cyclin M2	protein-coding	21.0	38.0	8.5	243.0	48.5	15.0	16.5	27.0
Merged-chr6-24665081-4	chr6	24664986	24665186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167745)	promoter-TSS (NM_001167745)	-91.0	NM_028459	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	273.0	322.5	278.0	3756.5	592.0	202.5	308.5	179.5
Merged-chr7-68749391-4	chr7	68749311	68749511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025549)	promoter-TSS (NM_025549)	-173.0	NM_025549	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	467.5	596.5	545.5	6648.0	1173.5	499.5	584.0	404.0
Merged-chr16-12090378-4	chr16	12090338	12090538	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028277, intron 2 of 4)	intron (NM_028277, intron 2 of 4)	106325.0	NM_001174086	72555.0	Mm.310139	NM_028277	ENSMUSG00000022494	Shisa9	2700045P11Rik|Ckamp44	shisa family member 9	protein-coding	20.0	12.5	26.5	538.0	39.0	7.5	22.0	28.0
Merged-chr14-25486374-2	chr14	25486274	25486474	+	729.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	27189.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	1.0	2.5	5.5	29.5	8.0	5.0	4.5	8.5
Merged-chr9-109876115-6	chr9	109876042	109876242	+	905.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007658, exon 1 of 15)	exon (NM_007658, exon 1 of 15)	563.0	NM_007658	12530.0	Mm.307103	NM_007658	ENSMUSG00000032477	Cdc25a	D9Ertd393e	cell division cycle 25A	protein-coding	13.0	20.5	15.5	108.5	18.5	8.0	11.5	7.5
Merged-chr11-85164223-2	chr11	85164123	85164323	+	707.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD3|LINE|L1	-6873.0	NM_028589	73634.0	Mm.48850	NM_028589	ENSMUSG00000018479	1700125H20Rik	-	RIKEN cDNA 1700125H20 gene	protein-coding	4.0	11.0	2.0	41.0	34.5	6.0	9.5	4.5
Merged-chr8-34964375-3	chr8	34964295	34964495	+	575.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 1 of 26)	intron (NM_175091, intron 1 of 26)	1295.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	5.5	6.0	6.0	56.5	20.5	5.5	8.5	7.0
Merged-chr7-5015509-5	chr7	5015360	5015560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025324)	promoter-TSS (NM_025324)	-48.0	NM_025324	66056.0	Mm.19974	NM_025324	ENSMUSG00000051184	Zfp524	0610012F07Rik|2300009P13Rik|Znf524	zinc finger protein 524	protein-coding	45.5	44.5	28.5	625.5	109.5	36.0	61.5	67.5
Merged-chr17-32993140-4	chr17	32993077	32993277	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045559)	promoter-TSS (NM_001045559)	38.0	NM_001045559	240067.0	Mm.246667	NM_199020	ENSMUSG00000053390	Zfp952	BC057593|C920016K16Rik	zinc finger protein 952	protein-coding	16.0	37.5	18.5	262.5	38.0	27.0	15.5	13.5
Merged-chr17-86145046-7	chr17	86144892	86145092	+	953.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 1 of 20)	CpG	183.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	15.5	17.5	22.5	207.5	33.5	12.5	9.0	17.0
Merged-chr17-34392443-4	chr17	34392243	34392443	+	874.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6477.0	NM_001001177	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	10.5	10.0	7.0	104.5	35.0	11.5	9.5	12.0
Merged-chr17-24251446-4	chr17	24251343	24251543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007634)	promoter-TSS (NM_007634)	-34.0	NM_007634	12449.0	Mm.77695	NM_007634	ENSMUSG00000072082	Ccnf	CycF|Fbxo1	cyclin F	protein-coding	182.5	329.5	230.5	3482.0	490.0	202.5	234.0	204.0
Merged-chr8-94167434-4	chr8	94167352	94167552	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E1|LTR|ERVL-MaLR	-5166.0	NM_008630	17750.0	Mm.147226	NM_008630	ENSMUSG00000031762	Mt2	AA409533|MT-II|Mt-2	metallothionein 2	protein-coding	10.0	11.0	4.5	124.5	43.5	9.5	8.0	18.5
Merged-chr2-152398188-4	chr2	152398075	152398275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011438)	promoter-TSS (NM_011438)	-129.0	NM_011438	20667.0	Mm.28424	NM_011438	ENSMUSG00000051817	Sox12	2010205A02Rik	SRY (sex determining region Y)-box 12	protein-coding	37.0	60.0	31.5	411.5	122.0	38.5	33.0	28.5
Merged-chr13-41230499-4	chr13	41230395	41230595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	-10092.0	NM_019423	54326.0	Mm.2567	NM_019423	ENSMUSG00000021364	Elovl2	AI317360|Ssc2	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 2	protein-coding	47.0	62.5	52.0	551.0	129.0	58.5	58.5	54.0
Merged-chr13-93230743-4	chr13	93230627	93230827	+	974.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-38310.0	NM_001361537	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	25.0	45.0	28.0	381.5	55.0	25.5	16.5	15.5
Merged-chr6-113000920-6	chr6	113000804	113001004	+	873.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45398.0	NM_001355266	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	5.5	9.5	12.0	87.0	9.5	9.0	1.0	6.5
Merged-chr15-88418132-1	chr15	88418032	88418232	+	869.0	f1_balb.idr	Intergenic	Intergenic	103258.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	1.0	3.0	1.0	52.0	11.0	4.5	6.0	5.5
Merged-chr7-66134378-4	chr7	66134281	66134481	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 2 of 2)	intron (NM_001081163, intron 2 of 2)	24866.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	25.0	61.0	18.5	339.5	44.5	16.5	20.0	20.5
Merged-chr4-88840223-4	chr4	88840132	88840332	+	897.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1584.0	NM_010504	15967.0	Mm.377088	NM_010504	ENSMUSG00000070904	Ifna4	Ifa4	interferon alpha 4	protein-coding	12.0	26.5	6.5	111.5	55.0	15.0	4.5	26.0
Merged-chr10-128495576-4	chr10	128495484	128495684	+	871.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172259, intron 4 of 6)	intron (NM_172259, intron 4 of 6)	-1698.0	NM_010860	17904.0	Mm.337074	NM_010860	ENSMUSG00000090841	Myl6	ESMLC|LC17|LC17-GI|MLC-3|MLC1SM|Myln	myosin, light polypeptide 6, alkali, smooth muscle and non-muscle	protein-coding	10.5	22.0	12.5	46.5	32.0	7.5	16.5	15.5
Merged-chr8-33653113-3	chr8	33653015	33653215	+	993.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010344)	promoter-TSS (NM_010344)	-123.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	16.0	22.5	26.5	260.0	90.5	26.5	34.5	34.0
Merged-chr12-52604933-4	chr12	52604822	52605022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2600.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	79.0	132.5	71.5	873.5	137.0	40.5	60.5	49.0
Merged-chr13-20111463-4	chr13	20111348	20111548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	ORR1F|LTR|ERVL-MaLR	20941.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	42.0	64.5	39.0	513.5	93.5	42.0	37.0	41.0
Merged-chr6-37143880-5	chr6	37143817	37144017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 2 of 32)	intron (NM_001347104, intron 2 of 32)	156059.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	15.5	22.0	32.5	557.0	78.5	20.5	24.5	41.5
Merged-chr16-78277728-3	chr16	78277611	78277811	+	798.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BC1_Mm|scRNA|scRNA	-22257.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	10.0	18.5	9.0	127.5	13.0	10.5	9.0	1.5
Merged-chr10-59997809-2	chr10	59997709	59997909	+	705.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025514, intron 1 of 3)	intron (NM_025514, intron 1 of 3)	-4996.0	NM_026937	69090.0	Mm.155839	NM_026937	ENSMUSG00000044475	Ascc1	1810015P09Rik|AI550520|ASC1p50|CGI-18	activating signal cointegrator 1 complex subunit 1	protein-coding	9.0	9.5	4.0	58.0	25.0	14.0	6.0	7.0
Merged-chr14-103472409-1	chr14	103472309	103472509	+	605.0	f0_c57.idr	Intergenic	Intergenic	-40932.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	7.0	2.5	0.5	59.5	17.5	7.0	5.0	12.0
Merged-chr10-96373699-4	chr10	96373611	96373811	+	892.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	147504.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	14.5	20.0	11.0	289.5	24.5	11.5	10.0	8.5
Merged-chr2-158375618-3	chr2	158375532	158375732	+	562.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175692)	promoter-TSS (NM_175692)	-6.0	NM_175692	319317.0	Mm.294494	NM_175692	ENSMUSG00000044349	Snhg11	A930034L06Rik|AI854265|AL022637|AW319638|E130013N09Rik	small nucleolar RNA host gene 11	protein-coding	11.0	3.0	9.0	104.0	18.5	4.5	7.0	6.0
Merged-chr7-25788774-4	chr7	25788665	25788865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190974)	promoter-TSS (NM_001190974)	-32.0	NM_001190975	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	63.0	51.5	49.0	921.0	61.0	50.5	40.0	35.0
Merged-chr13-63240435-3	chr13	63240353	63240553	+	896.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	424.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	7.5	12.0	12.0	162.5	25.5	3.5	11.5	9.5
Merged-chr5-139466567-3	chr5	139466456	139466656	+	742.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-6022.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	7.0	8.5	4.5	66.0	20.0	5.0	10.0	10.5
Merged-chr4-59189757-2	chr4	59189657	59189857	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011673, intron 1 of 8)	CpG	207.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	7.0	13.5	15.0	122.5	18.5	6.5	6.0	9.5
Merged-chr10-79854437-4	chr10	79854352	79854552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008956)	promoter-TSS (NM_008956)	20.0	NM_001283013	19205.0	Mm.265610	NM_008956	ENSMUSG00000006498	Ptbp1	AA407203|AL033359|HNRPI|PTB-1|PTB2|PTB3|PTB4|Ptb|pPTB	polypyrimidine tract binding protein 1	protein-coding	297.5	430.0	298.5	3638.5	740.5	327.5	306.0	265.5
Merged-chr16-35047462-4	chr16	35047367	35047567	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023587, intron 2 of 6)	intron (NM_023587, intron 2 of 6)	25046.0	NM_023587	70757.0	Mm.27286	NM_023587	ENSMUSG00000035376	Hacd2	6330408J20Rik|AI255777|AI481689|Hcad2|Ptplb	3-hydroxyacyl-CoA dehydratase 2	protein-coding	26.0	31.0	18.5	322.0	65.5	18.5	36.0	18.5
Merged-chr10-117899603-4	chr10	117899522	117899722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25837.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	141.5	209.0	164.5	2504.5	341.0	96.0	207.0	143.5
Merged-chr10-80939413-1	chr10	80939313	80939513	+	565.0	f0_balb.idr	Intergenic	Intergenic	9322.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	16.0	10.0	4.5	38.5	12.0	11.0	8.0	5.5
Merged-chr15-55114164-4	chr15	55114096	55114296	+	705.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045093)	promoter-TSS (NR_045093)	-614.0	NR_045093	100503794.0	Mm.360519	NR_045093	ENSMUSG00000053749	Gm9920	-	predicted gene 9920	ncRNA	5.0	11.0	7.0	74.5	21.5	4.0	8.0	11.0
Merged-chr2-164457035-4	chr2	164456961	164457161	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3910.0	NM_025575	66460.0	Mm.44218	NM_025575	ENSMUSG00000045503	Sys1	2610042O14Rik|AI266964|C87389	SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae)	protein-coding	22.0	65.5	37.0	118.5	77.5	37.0	28.0	20.0
Merged-chr2-61582287-2	chr2	61582187	61582387	+	697.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011529, intron 1 of 7)	B4|SINE|B4	3701.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	1.5	3.0	7.0	46.0	12.5	6.5	7.0	5.5
Merged-chr3-145649645-8	chr3	145649592	145649792	+	962.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010516, intron 1 of 4)	CpG	293.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	14.0	8.5	4.0	87.0	18.0	8.5	8.5	12.5
Merged-chr15-31474093-4	chr15	31473989	31474189	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 20 of 25)	intron (NM_172606, intron 20 of 25)	-20400.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	26.0	21.5	45.5	732.0	46.5	11.5	31.5	40.5
Merged-chr9-64013737-3	chr9	64013616	64013816	+	847.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 1 of 3)	intron (NM_008542, intron 1 of 3)	8343.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	7.5	5.5	7.5	190.5	21.5	3.5	12.0	15.5
Merged-chr8-115530208-4	chr8	115530101	115530301	+	970.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176693.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	25.0	17.0	25.5	377.5	38.5	16.0	13.5	16.0
Merged-chr14-103387263-1	chr14	103387163	103387363	+	630.0	f0_balb.idr	Intergenic	Intergenic	-40463.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	5.5	7.0	6.5	102.0	6.0	1.0	2.0	0.5
Merged-chr2-71344091-4	chr2	71344004	71344204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 2 of 17)	intron (NM_172436, intron 2 of 17)	23450.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	46.0	41.0	35.5	621.0	109.5	40.5	38.5	29.0
Merged-chr1-131672570-4	chr1	131672483	131672683	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007799, intron 9 of 9)	intron (NM_007799, intron 9 of 9)	-16112.0	NM_001311096	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	25.5	39.0	14.0	393.0	91.5	32.5	36.0	32.5
Merged-chr16-95955897-4	chr16	95955794	95955994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26817.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	125.5	167.5	189.0	2593.5	348.0	96.0	176.5	150.0
Merged-chr3-27690289-4	chr3	27690198	27690398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 1 of 26)	intron (NM_001356953, intron 1 of 26)	20154.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	95.5	137.5	106.0	1871.5	307.0	100.0	101.0	96.5
Merged-chr14-20546580-4	chr14	20546490	20546690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310427)	promoter-TSS (NM_001310427)	-17.0	NM_008914	19056.0	Mm.274432	NM_008914	ENSMUSG00000021816	Ppp3cb	1110063J16Rik|Calnb|CnAbeta|Cnab	protein phosphatase 3, catalytic subunit, beta isoform	protein-coding	75.5	128.5	59.5	940.0	174.5	45.5	75.0	53.5
Merged-chr11-118400747-4	chr11	118400640	118400840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011150, intron 1 of 5)	MLTR14|LTR|ERV1	1219.0	NM_011150	19039.0	Mm.3152	NM_011150	ENSMUSG00000033880	Lgals3bp	90K|CyCAP|MAC-2BP|Ppicap|Tango10b	lectin, galactoside-binding, soluble, 3 binding protein	protein-coding	32.5	63.5	37.0	404.0	108.0	47.0	44.0	25.5
Merged-chr19-10846261-4	chr19	10846113	10846313	+	832.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023044, intron 1 of 7)	intron (NM_023044, intron 1 of 7)	3669.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	11.5	13.0	8.0	47.0	20.5	8.0	13.0	16.0
Merged-chr13-111804358-4	chr13	111804219	111804419	+	786.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	4674.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	1.5	5.0	7.0	75.5	21.0	5.0	8.0	8.5
Merged-chr5-137858138-4	chr5	137858039	137858239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133209)	promoter-TSS (NM_133209)	-90.0	NM_133209	170741.0	Mm.347593	NM_133209	ENSMUSG00000066684	Pilrb1	FDFACT|Fdact|Pilrb	paired immunoglobin-like type 2 receptor beta 1	protein-coding	24.0	34.5	27.0	229.5	67.0	29.0	27.0	33.5
Merged-chr8-75193232-4	chr8	75193150	75193350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-20694.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	19.0	35.0	27.0	475.5	64.0	9.5	27.0	33.5
Merged-chr3-153944649-4	chr3	153944575	153944775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007382)	promoter-TSS (NM_007382)	-32.0	NM_007382	11364.0	Mm.10530	NM_007382	ENSMUSG00000062908	Acadm	AU018656|MCAD	acyl-Coenzyme A dehydrogenase, medium chain	protein-coding	243.5	380.5	324.5	4186.0	604.5	248.5	344.5	272.5
Merged-chr7-35169542-4	chr7	35169436	35169636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16849.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	22.0	48.5	31.5	464.0	59.0	21.5	36.0	24.5
Merged-chr18-64598139-3	chr18	64598041	64598241	+	940.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001488, intron 2 of 27)	intron (NM_001001488, intron 2 of 27)	62859.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	17.5	24.0	14.0	236.0	1.5	1.5	1.0	0.0
Merged-chr4-133633150-2	chr4	133633050	133633250	+	788.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_001017968, exon 1 of 8)	exon (NM_001017968, exon 1 of 8)	279.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	13.0	6.5	8.5	63.5	13.5	0.0	7.0	6.5
Merged-chr13-34007436-4	chr13	34007316	34007516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009068, intron 1 of 10)	intron (NM_009068, intron 1 of 10)	4542.0	NM_009068	19766.0	Mm.374799	NM_009068	ENSMUSG00000021408	Ripk1	D330015H01Rik|RIP|RIP-1|Rinp|Rip1	receptor (TNFRSF)-interacting serine-threonine kinase 1	protein-coding	19.5	29.0	15.5	490.0	76.0	22.0	28.0	38.0
Merged-chr3-52390530-2	chr3	52390430	52390630	+	911.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	122193.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	5.0	13.0	6.0	49.0	28.5	4.5	8.5	3.0
Merged-chr11-121237115-4	chr11	121236990	121237190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026272)	promoter-TSS (NM_026272)	-146.0	NM_026272	67608.0	Mm.291832	NM_026272	ENSMUSG00000000056	Narf	4430402O11Rik	nuclear prelamin A recognition factor	protein-coding	177.5	270.0	138.5	2154.5	529.5	175.5	228.0	209.0
Merged-chr18-61224466-4	chr18	61224375	61224575	+	977.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146086, intron 1 of 21)	intron (NM_146086, intron 1 of 21)	3976.0	NM_146086	225600.0	Mm.391106	NM_146086	ENSMUSG00000024575	Pde6a	Pdea|nmf282	phosphodiesterase 6A, cGMP-specific, rod, alpha	protein-coding	16.5	31.5	13.5	310.0	78.0	26.0	61.5	34.0
Merged-chr1-152038456-7	chr1	152038352	152038552	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	intron (NM_197990, intron 1 of 5)	51868.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	12.0	10.5	5.0	200.0	15.5	3.5	4.0	6.5
Merged-chr1-128548897-3	chr1	128548763	128548963	+	849.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	43436.0	NM_009911	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	5.0	11.5	5.0	47.0	37.0	14.5	15.5	5.0
Merged-chr9-70843605-3	chr9	70843520	70843720	+	853.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	B4A|SINE|B4	91188.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	3.0	9.0	9.5	33.5	10.0	4.5	6.5	8.5
Merged-chr4-137866383-4	chr4	137866275	137866475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	4138.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	37.5	24.0	32.5	552.0	84.0	21.5	35.0	28.5
Merged-chr12-36157918-4	chr12	36157827	36158027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146033, intron 1 of 9)	intron (NM_146033, intron 1 of 9)	803.0	NM_146033	217473.0	Mm.130422	NM_146033	ENSMUSG00000036188	Ankmy2	AI035571|ZMYND20	ankyrin repeat and MYND domain containing 2	protein-coding	15.0	18.5	15.5	325.5	36.5	18.5	18.5	28.5
Merged-chr15-79742152-4	chr15	79742054	79742254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045069)	promoter-TSS (NR_045069)	382.0	NM_194342	223697.0	Mm.202715	NM_194342	ENSMUSG00000042524	Sun2	B230369L08Rik|C030011B15|Unc84b	Sad1 and UNC84 domain containing 2	protein-coding	128.5	186.0	97.0	1090.0	338.0	132.0	116.0	80.0
Merged-chr4-101720802-3	chr4	101720628	101720828	+	741.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146146, intron 1 of 18)	intron (NM_146146, intron 1 of 18)	3321.0	NM_010704	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	11.5	5.5	10.0	101.5	15.5	7.0	5.0	4.0
Merged-chr6-116345365-3	chr6	116345267	116345467	+	778.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302385, intron 2 of 6)	intron (NM_001302385, intron 2 of 6)	7345.0	NM_001302383	71779.0	Mm.27064	NM_027920	ENSMUSG00000025702	March8	1300017E09Rik|MARCH-VIII|Mir	membrane-associated ring finger (C3HC4) 8	protein-coding	3.0	7.0	6.0	133.5	13.5	7.5	7.0	8.0
Merged-chr2-137608736-3	chr2	137608628	137608828	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-492208.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	5.0	6.5	13.0	323.5	3.5	3.0	5.0	3.5
Merged-chr3-51224784-6	chr3	51224670	51224870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009834, exon 1 of 3)	5' UTR (NM_009834, exon 1 of 3)	323.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	70.0	126.5	120.5	890.0	132.0	72.5	71.5	63.5
Merged-chr2-129384108-4	chr2	129383932	129384132	+	857.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR10_RN|LTR|ERVK	-12893.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	4.5	1.5	6.5	37.0	15.0	6.0	6.5	8.5
Merged-chr17-46144251-4	chr17	46144158	46144358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029338)	promoter-TSS (NM_029338)	-60.0	NM_029338	75564.0	Mm.17993	NM_029338	ENSMUSG00000023966	Rsph9	1700027N10Rik	radial spoke head 9 homolog (Chlamydomonas)	protein-coding	56.5	103.0	80.5	1039.0	153.0	55.0	75.0	64.0
Merged-chr9-70791642-3	chr9	70791541	70791741	+	942.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	112659.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	14.0	12.0	5.5	141.0	15.0	6.5	9.5	12.5
Merged-chr2-118729336-3	chr2	118729245	118729445	+	640.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290790)	promoter-TSS (NM_001290790)	-907.0	NM_001290790	18796.0	Mm.215156	NM_177568	ENSMUSG00000040061	Plcb2	AI550384|B230205M18Rik|B230399N12	phospholipase C, beta 2	protein-coding	6.0	13.5	6.5	69.5	10.0	3.0	6.5	6.5
Merged-chr16-30185057-3	chr16	30184960	30185160	+	796.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82472.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	8.0	4.5	7.0	59.0	6.5	0.5	4.5	3.5
Merged-chr5-125409037-4	chr5	125408933	125409133	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Asp-GAY|tRNA|tRNA	-19016.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	22.0	64.5	16.5	188.0	41.5	13.5	18.0	19.5
Merged-chr7-64064991-3	chr7	64064872	64065072	+	959.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G3|LTR|ERVL-MaLR	-88863.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	21.5	7.0	11.0	158.0	5.5	3.0	6.5	6.0
Merged-chr6-134830110-4	chr6	134830013	134830213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177687)	promoter-TSS (NM_177687)	-86.0	NM_177687	232430.0	Mm.267010	NM_177687	ENSMUSG00000032652	Crebl2	AI046348|B230205M03	cAMP responsive element binding protein-like 2	protein-coding	239.5	364.5	365.5	3825.5	563.0	234.5	260.0	251.5
Merged-chr9-70891578-3	chr9	70891474	70891674	+	791.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	43234.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	13.0	6.5	6.0	101.0	15.5	4.0	8.5	4.0
Merged-chr6-83101543-4	chr6	83101470	83101670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081266)	promoter-TSS (NM_001081266)	54.0	NM_001081266	243510.0	Mm.436553	NM_001081266	ENSMUSG00000107499	Ccdc142	A230058J24Rik	coiled-coil domain containing 142	protein-coding	39.5	29.5	28.5	496.5	78.0	43.0	38.5	52.0
Merged-chr7-127270482-4	chr7	127270410	127270610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3549.0	NM_009266	20768.0	Mm.20294	NM_009266	ENSMUSG00000049091	Sephs2	Sps2|Ysg3	selenophosphate synthetase 2	protein-coding	52.5	69.0	52.0	720.0	123.0	37.0	39.5	43.0
Merged-chr13-91702519-4	chr13	91702421	91702621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015501, exon 2 of 2)	non-coding (NR_015501, exon 2 of 2)	-39000.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	118.5	157.5	170.0	2771.0	245.0	77.5	186.5	108.0
Merged-chr8-39403968-3	chr8	39403867	39404067	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	105987.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	28.0	44.5	57.5	985.0	4.0	1.5	1.0	1.0
Merged-chr9-119088314-4	chr9	119088204	119088404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293648)	promoter-TSS (NM_001293648)	-43.0	NM_001293648	18799.0	Mm.23963	NM_019676	ENSMUSG00000010660	Plcd1	AW212592|C79986	phospholipase C, delta 1	protein-coding	68.5	118.5	71.5	832.5	232.0	78.0	131.0	120.0
Merged-chr6-134133906-4	chr6	134133810	134134010	+	778.170837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	98210.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	9.0	13.5	19.0	129.0	74.0	13.5	25.0	13.0
Merged-chr2-166154498-5	chr2	166154398	166154598	+	763.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355619, intron 1 of 21)	CpG	787.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	6.0	7.5	5.0	54.5	13.5	5.5	6.5	5.0
Merged-chr8-27030540-4	chr8	27030431	27030631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153592, intron 6 of 11)	MTD|LTR|ERVL-MaLR	6732.0	NM_153592	244373.0	Mm.277699	NM_153592	ENSMUSG00000031483	Erlin2	BC036333|C87251|Spfh2	ER lipid raft associated 2	protein-coding	112.0	162.0	151.5	2033.0	219.5	67.0	104.0	93.0
Merged-chr13-108041615-4	chr13	108041498	108041698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2876.0	NM_001048250	75616.0	Mm.491164	NM_001048250	ENSMUSG00000071180	Smim15	2810008M24Rik	small integral membrane protein 15	protein-coding	105.0	154.0	69.0	1240.0	325.5	125.5	124.5	72.5
Merged-chr10-127642948-4	chr10	127642862	127643062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009284)	promoter-TSS (NM_009284)	-24.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	111.0	159.5	96.5	1473.5	267.0	120.0	149.0	111.0
Merged-chr7-101074694-4	chr7	101074511	101074711	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-34164.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	31.5	37.0	6.0	112.5	49.0	26.0	15.0	8.5
Merged-chr12-84854752-3	chr12	84854658	84854858	+	987.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 2 of 34)	URR1B|DNA|hAT-Charlie	-21044.0	NR_028577	100303738.0	Mm.479389	NR_028577	ENSMUSG00000092130	D030025P21Rik	-	RIKEN cDNA D030025P21 gene	ncRNA	6.5	12.5	28.5	330.5	7.0	6.5	7.5	7.0
Merged-chr13-20098103-3	chr13	20097990	20098190	+	741.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	7583.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	12.5	12.5	9.5	326.0	12.5	4.0	2.0	7.0
Merged-chr17-17587901-4	chr17	17587799	17587999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	36590.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	22.0	35.0	16.5	391.0	55.5	17.5	26.5	16.0
Merged-chr13-81125346-4	chr13	81125248	81125448	+	957.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	161274.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	12.5	20.5	28.5	470.0	41.5	10.5	21.0	20.5
Merged-chr17-74802922-3	chr17	74802828	74803028	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	L1MB2|LINE|L1	85178.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	0.0	3.0	2.5	7.5	224.0	87.0	72.5	101.0
Merged-chr17-35331568-3	chr17	35331487	35331687	+	895.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-10746.0	NM_010392	15013.0	Mm.427969	NM_010392	ENSMUSG00000091705	H2-Q2	BE136769|Gm11132|H-2Q2|gs14-2	histocompatibility 2, Q region locus 2	protein-coding	37.0	30.0	23.5	428.0	1.5	0.0	0.0	2.5
Merged-chr5-139404099-4	chr5	139404048	139404248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	-2239.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	35.0	60.5	105.5	1427.5	74.0	24.0	37.0	56.5
Merged-chr1-156986432-4	chr1	156986317	156986517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46791.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	63.5	123.0	65.0	1019.5	199.0	64.5	98.5	75.5
Merged-chr1-39469216-4	chr1	39469113	39469313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357521, intron 1 of 19)	intron (NM_001357521, intron 1 of 19)	9534.0	NM_018775	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	25.0	37.0	47.5	588.5	61.0	16.0	32.0	34.5
Merged-chr2-52960918-4	chr2	52960826	52961026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	103058.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	43.0	47.0	44.0	546.0	76.0	16.5	40.0	47.5
Merged-chr2-13558802-4	chr2	13558692	13558892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14128.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	208.5	264.5	177.0	3364.5	584.0	209.5	279.5	274.5
Merged-chr16-91905473-4	chr16	91905395	91905595	+	783.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010587, exon 34 of 39)	exon (NM_010587, exon 34 of 39)	26135.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	9.0	11.0	9.0	42.5	16.0	5.0	7.0	7.5
Merged-chr18-42262235-4	chr18	42262131	42262331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134137)	promoter-TSS (NM_134137)	-160.0	NM_134137	107045.0	Mm.312170	NM_134137	ENSMUSG00000024493	Lars	2310045K21Rik|3110009L02Rik|AW536573|mKIAA1352	leucyl-tRNA synthetase	protein-coding	312.5	418.0	308.5	4885.0	871.5	279.5	336.0	290.5
Merged-chr2-158306355-4	chr2	158306249	158306449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008489)	promoter-TSS (NM_008489)	-144.0	NM_008489	16803.0	Mm.218846	NM_008489	ENSMUSG00000016024	Lbp	Bpifd2|Ly88	lipopolysaccharide binding protein	protein-coding	22.5	47.0	25.0	325.0	144.5	52.0	81.0	44.5
Merged-chr14-14294673-4	chr14	14294573	14294773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33440.0	NM_147027	18330.0	Mm.484338	NM_147027	ENSMUSG00000072707	Olfr31	MOR274-1|MTPCR53	olfactory receptor 31	protein-coding	38.5	43.0	54.0	700.0	86.0	32.0	49.5	56.0
Merged-chr3-122122266-4	chr3	122122169	122122369	+	958.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007378, intron 19 of 49)	intron (NM_007378, intron 19 of 49)	77809.0	NM_007378	11304.0	Mm.3918	NM_007378	ENSMUSG00000028125	Abca4	AW050280|Abc10|Abcr|D430003I15Rik|RmP	ATP-binding cassette, sub-family A (ABC1), member 4	protein-coding	22.5	37.5	12.5	289.5	26.5	11.0	25.0	9.0
Merged-chr18-42781692-3	chr18	42781591	42781791	+	893.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028392, intron 1 of 8)	intron (NM_028392, intron 1 of 8)	117815.0	NR_073583	72930.0	Mm.26134	NM_027531	ENSMUSG00000024500	Ppp2r2b	2900026H06Rik|6330404L05Rik|E130009M08Rik|PP2A-PR55B|PR55-BETA|SCA12	protein phosphatase 2, regulatory subunit B, beta	protein-coding	5.5	9.0	7.5	195.5	11.0	0.0	8.0	4.0
Merged-chr19-37018661-4	chr19	37018555	37018755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	92576.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	20.0	40.0	30.0	389.0	219.5	81.0	96.0	101.0
Merged-chr19-3719204-4	chr19	3719111	3719311	+	875.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10800.0	NM_001358257	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	8.5	26.0	14.0	127.0	16.0	13.5	18.0	9.5
Merged-chr6-34176220-2	chr6	34176120	34176320	+	737.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_021435, intron 1 of 9)	intron (NM_021435, intron 1 of 9)	834.0	NM_021435	58246.0	Mm.245527	NM_021435	ENSMUSG00000018999	Slc35b4	4930474D06Rik|AB041549|AW494345	solute carrier family 35, member B4	protein-coding	11.5	10.0	4.5	54.5	13.0	4.0	8.0	11.0
Merged-chr8-35709797-3	chr8	35709702	35709902	+	957.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116757.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	0.0	3.0	2.0	0.0	24.0	13.0	27.5	27.5
Merged-chr5-138683231-4	chr5	138683161	138683361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60402.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	46.0	70.5	49.5	738.5	112.5	41.5	60.0	58.5
Merged-chr11-70595826-4	chr11	70595715	70595915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 1 of 30)	intron (NM_016713, intron 1 of 30)	-20079.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	71.0	70.5	33.5	624.0	189.0	69.5	53.0	62.0
Merged-chr7-19458860-4	chr7	19458758	19458958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172279)	promoter-TSS (NM_172279)	-364.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	68.5	70.0	49.0	685.5	110.0	53.5	41.5	37.0
Merged-chr8-110604773-4	chr8	110604669	110604869	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172916, intron 85 of 86)	intron (NM_172916, intron 85 of 86)	-13798.0	NR_151674	234729.0	Mm.274894	NM_146216	ENSMUSG00000010936	Vac14	AA959718|BC032215|D8Wsu151e|Tax1bp2|Trx|ingls	Vac14 homolog (S. cerevisiae)	protein-coding	5.5	14.5	11.0	228.5	33.0	12.0	24.0	19.5
Merged-chr14-54410330-6	chr14	54410238	54410438	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253680)	promoter-TSS (NM_001253680)	-866.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	19.0	49.0	42.5	448.5	41.0	14.0	17.0	6.5
Merged-chr2-148568089-4	chr2	148567985	148568185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0-int|LTR|ERVL-MaLR	-104530.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	64.0	89.0	98.0	2054.5	118.0	40.0	72.5	75.5
Merged-chr8-35708022-4	chr8	35707921	35708121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	118538.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	39.0	52.0	41.0	567.0	106.0	38.5	66.0	50.0
Merged-chr11-6655135-2	chr11	6655037	6655237	+	791.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_028586, intron 3 of 5)	intron (NR_028586, intron 3 of 5)	-3396.0	NM_019511	56089.0	Mm.39884	NM_019511	ENSMUSG00000041046	Ramp3	AI850306	receptor (calcitonin) activity modifying protein 3	protein-coding	6.0	6.5	0.5	46.5	15.0	9.5	9.0	5.0
Merged-chr9-65561598-2	chr9	65561498	65561698	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 3 of 5)	intron (NM_153119, intron 3 of 5)	18489.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	3.0	6.0	10.0	54.5	13.0	7.0	5.0	6.5
Merged-chr2-158146400-4	chr2	158146293	158146493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009373)	promoter-TSS (NM_009373)	-1.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	74.5	186.0	115.5	1290.0	290.5	78.0	135.0	85.0
Merged-chr17-59179259-4	chr17	59179164	59179364	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEi|LINE|L1	-165942.0	NM_026497	67993.0	Mm.36507	NM_026497	ENSMUSG00000024228	Nudt12	0610016O18Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 12	protein-coding	19.5	37.5	31.5	291.5	45.0	26.5	18.0	32.0
Merged-chr12-98920585-6	chr12	98920479	98920679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029553)	promoter-TSS (NM_029553)	5.0	NM_029553	76260.0	Mm.282660	NM_029553	ENSMUSG00000021013	Ttc8	0610012F22Rik|AV001447|BBS8	tetratricopeptide repeat domain 8	protein-coding	35.5	21.0	33.0	247.5	54.5	41.0	33.5	35.0
Merged-chr18-4279348-4	chr18	4279242	4279442	+	785.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	73611.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	8.0	13.0	5.0	93.0	21.0	13.0	6.5	10.5
Merged-chr1-64318126-3	chr1	64318023	64318223	+	896.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-196734.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	11.5	12.5	20.0	191.0	16.0	2.5	10.0	1.0
Merged-chr4-58304082-3	chr4	58303972	58304172	+	960.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037130, intron 5 of 12)	intron (NM_001037130, intron 5 of 12)	18110.0	NM_010944	18198.0	Mm.16148	NM_010944	ENSMUSG00000057280	Musk	Mdk4|Mlk|Nsk1|Nsk2|Nsk3	muscle, skeletal, receptor tyrosine kinase	protein-coding	16.0	14.5	25.0	388.5	3.0	2.0	1.0	1.0
Merged-chr17-31254774-2	chr17	31254690	31254890	+	727.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_025290)	TTS (NM_025290)	22566.0	NM_025290	22092.0	Mm.12743	NM_025290	ENSMUSG00000024033	Rsph1	MCA|Tsga2	radial spoke head 1 homolog (Chlamydomonas)	protein-coding	3.5	4.0	0.0	34.5	20.5	5.0	7.5	9.0
Merged-chr4-130792830-14	chr4	130792676	130792876	+	912.619019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011520, exon 1 of 5)	exon (NM_011520, exon 1 of 5)	239.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	8.5	11.5	21.5	132.0	37.0	12.5	12.0	18.0
Merged-chr15-78321050-4	chr15	78320945	78321145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4755.0	NM_001358854	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	47.5	86.0	70.0	720.5	128.5	40.0	53.0	36.5
Merged-chr1-84317960-4	chr1	84317880	84318080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33335.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	70.5	96.0	72.0	1049.5	125.0	49.5	31.5	41.0
Merged-chr16-23383187-3	chr16	23383068	23383268	+	689.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45965.0	NM_001004151	239766.0	Mm.208751	NM_001004151	ENSMUSG00000033383	Rtp1	Gm1766|Gm604	receptor transporter protein 1	protein-coding	10.0	9.5	7.0	110.0	14.5	2.0	4.5	6.5
Merged-chr9-108341995-4	chr9	108341880	108342080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2900.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	34.5	65.5	37.0	765.0	131.0	47.5	54.0	51.0
Merged-chr10-94333518-4	chr10	94333415	94333615	+	921.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	21566.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	8.0	30.0	12.5	369.5	61.0	14.5	24.5	27.0
Merged-chr13-23467031-3	chr13	23466946	23467146	+	909.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1145.0	NM_013483	12231.0	Mm.1420	NM_013483	ENSMUSG00000000706	Btn1a1	Btn	butyrophilin, subfamily 1, member A1	protein-coding	5.0	11.5	1.5	85.0	26.5	5.5	5.5	7.5
Merged-chr14-67184199-4	chr14	67184092	67184292	+	918.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49100.0	NM_010095	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	15.5	25.5	20.0	252.5	20.0	12.5	16.5	25.5
Merged-chr10-10355758-3	chr10	10355658	10355858	+	764.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 30 of 36)	intron (NM_001127353, intron 30 of 36)	116556.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	8.0	17.5	6.5	93.5	8.0	4.5	6.0	7.0
Merged-chr18-90579701-4	chr18	90579602	90579802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362365)	promoter-TSS (NM_001362365)	-123.0	NM_001362365	108168395.0	Mm.391131	NM_001362365	ENSMUSG00000110277	Gm45871	-	predicted gene 45871	protein-coding	144.0	224.0	179.0	3059.0	403.0	134.0	251.5	182.0
Merged-chr10-58446420-4	chr10	58446330	58446530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011240)	promoter-TSS (NM_011240)	-422.0	NM_011240	19386.0	Mm.431695	NM_011240	ENSMUSG00000003226	Ranbp2	A430087B05Rik|AI256741|NUP358	RAN binding protein 2	protein-coding	55.5	84.5	48.5	1235.0	219.0	53.0	84.5	65.5
Merged-chr6-15846160-4	chr6	15846070	15846270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A_|LTR|ERVL	125509.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	149.0	211.5	206.0	2826.0	429.5	168.0	243.5	169.0
Merged-chr2-3621554-4	chr2	3621447	3621647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-91911.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	33.0	51.5	55.5	667.0	93.0	34.5	51.0	48.0
Merged-chr13-34107195-4	chr13	34107091	34107291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046184, intron 1 of 4)	L1MEf|LINE|L1	6081.0	NR_046184	432745.0	Mm.159104	NR_046184	ENSMUSG00000113591	4930447K03Rik	-	RIKEN cDNA 4930447K03 gene	ncRNA	27.0	42.5	40.0	537.0	59.0	18.5	50.5	27.5
Merged-chr4-117210555-4	chr4	117210430	117210630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27906.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	31.5	87.0	21.5	337.0	71.0	38.0	54.0	36.5
Merged-chr6-72394564-4	chr6	72394440	72394640	+	970.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3873.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	9.0	15.5	26.5	107.5	40.0	10.0	19.5	36.0
Merged-chr6-134673892-4	chr6	134673783	134673983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 2 of 3)	MTEa|LTR|ERVL-MaLR	32943.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	30.0	20.5	17.0	505.0	124.0	33.5	57.5	34.0
Merged-chr13-34653599-4	chr13	34653509	34653709	+	958.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025831)	promoter-TSS (NM_025831)	686.0	NR_105041	101056149.0	Mm.421309	NR_105041	ENSMUSG00000086786	Gm15908	-	predicted gene 15908	ncRNA	22.5	33.5	14.0	245.0	39.5	12.5	25.5	14.0
Merged-chr13-52980324-4	chr13	52980218	52980418	+	899.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017373, intron 1 of 1)	CpG	721.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	12.5	12.5	11.0	65.5	35.5	2.5	15.5	19.5
Merged-chr18-24142149-4	chr18	24142097	24142297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-20378.0	NM_172625	225280.0	Mm.258973	NM_172625	ENSMUSG00000047989	Ino80c	D030070L09Rik	INO80 complex subunit C	protein-coding	10.0	14.0	18.5	189.0	35.0	11.0	17.5	22.0
Merged-chr18-61014711-3	chr18	61014621	61014821	+	788.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201353)	promoter-TSS (NM_201353)	-522.0	NM_201353	240332.0	Mm.39846	NM_201353	ENSMUSG00000052026	Slc6a7	AW455934|PROT	solute carrier family 6 (neurotransmitter transporter, L-proline), member 7	protein-coding	2.5	7.5	1.5	85.5	4.5	5.0	7.0	10.5
Merged-chr3-28081236-4	chr3	28081147	28081347	+	884.412476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 15 of 25)	intron (NM_008875, intron 15 of 25)	97076.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	10.5	21.0	22.5	208.5	24.5	10.5	13.5	16.5
Merged-chr3-121841663-4	chr3	121841539	121841739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26337.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	106.0	144.0	104.5	1612.5	336.0	105.5	140.5	144.5
Merged-chr10-17518686-4	chr10	17518591	17518791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-204537.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	156.5	234.0	130.5	1911.0	358.0	162.5	145.0	101.5
Merged-chr3-105018997-4	chr3	105018900	105019100	+	971.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	intron (NM_030249, intron 3 of 5)	33953.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	34.0	36.0	45.5	599.5	38.5	21.5	7.5	26.0
Merged-chr7-126194340-4	chr7	126194238	126194438	+	924.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 1 of 23)	intron (NM_028816, intron 1 of 23)	6163.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	20.0	44.0	11.5	227.0	57.0	20.5	13.0	10.5
Merged-chr7-101883262-3	chr7	101883177	101883377	+	865.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291353, intron 1 of 5)	intron (NM_001291353, intron 1 of 5)	1952.0	NM_001291353	75430.0	Mm.284491	NM_027532	ENSMUSG00000030649	Anapc15	3200002M19Rik|6330414C15Rik|APC15	anaphase prompoting complex C subunit 15	protein-coding	5.5	15.0	14.5	172.0	45.5	3.5	7.0	5.5
Merged-chr9-61371380-4	chr9	61371270	61371470	+	993.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083927)	promoter-TSS (NM_001083927)	-996.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	10.5	21.0	36.5	187.0	63.0	26.5	17.5	33.0
Merged-chr17-7316009-4	chr17	7315930	7316130	+	922.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8630.0	NM_011553	21461.0	Mm.264651	NM_011553	ENSMUSG00000071322	Tcp10a	D17Leh66A|D17Leh66aa|Gm10326|T66A-a|Tcp-10a	t-complex protein 10a	protein-coding	20.0	21.5	16.5	184.5	33.5	17.0	17.5	13.5
Merged-chr17-78407803-4	chr17	78407701	78407901	+	876.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 2 of 9)	intron (NM_001360407, intron 2 of 9)	10351.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	12.5	17.0	11.0	267.5	33.0	7.5	11.0	10.5
Merged-chr17-23925317-3	chr17	23925232	23925432	+	988.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7874.0	NM_001077633	620253.0	Mm.390964	NM_001077633	ENSMUSG00000057417	Dcpp3	Dcpp-3|EG620253|SPT-3	demilune cell and parotid protein 3	protein-coding	17.5	16.5	18.5	176.5	30.0	7.5	17.0	12.0
Merged-chr1-191835056-4	chr1	191834953	191835153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13580.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	36.0	44.5	29.0	652.5	56.0	7.0	26.0	30.0
Merged-chr16-15592327-3	chr16	15592229	15592429	+	846.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159351, intron 1 of 2)	B1F|SINE|Alu	2189.0	NM_001159351	70620.0	Mm.235407	NM_023585	ENSMUSG00000022674	Ube2v2	1110021H13Rik|4632410D19Rik|5730524P06Rik|6820402M05|AI848315|C81524|MMS2	ubiquitin-conjugating enzyme E2 variant 2	protein-coding	5.0	10.5	11.0	115.5	21.0	6.0	2.5	1.0
Merged-chr1-119917125-4	chr1	119917006	119917206	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3938.0	NM_175106	66343.0	Mm.49942	NM_175106	ENSMUSG00000036975	Tmem177	2300008B03Rik	transmembrane protein 177	protein-coding	12.5	4.5	16.5	332.5	32.5	10.0	10.0	16.0
Merged-chr13-37880278-3	chr13	37880180	37880380	+	898.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	-8154.0	NR_033218	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	10.5	11.5	3.0	126.0	13.0	7.5	4.5	9.0
Merged-chr11-45852668-4	chr11	45852550	45852750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045520, intron 1 of 11)	intron (NM_001045520, intron 1 of 11)	686.0	NM_001045520	216705.0	Mm.169673	NM_001045520	ENSMUSG00000006169	Clint1	AI642036|AW537616|C530049I24Rik|Enth|Epn4|F630206G17Rik|mKIAA0171	clathrin interactor 1	protein-coding	40.5	49.0	41.5	333.5	69.0	27.0	38.5	39.0
Merged-chr2-156722386-4	chr2	156722273	156722473	+	900.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042487, intron 1 of 6)	intron (NM_001042487, intron 1 of 6)	1094.0	NM_001042487	228836.0	Mm.22094	NM_146128	ENSMUSG00000061689	Dlgap4	AI225853|BC024558|DAP-4|DAP4|SAPAP-4|Sapap4|WBP16	DLG associated protein 4	protein-coding	15.5	39.0	8.0	171.0	20.0	10.0	12.5	16.0
Merged-chr7-107277135-3	chr7	107277045	107277245	+	766.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	67700.0	NM_029660	76572.0	Mm.128134	NM_029660	ENSMUSG00000073894	Rbmxl2	1700012H05Rik|Hnrnpg-t	RNA binding motif protein, X-linked-like 2	protein-coding	20.5	25.0	17.0	356.5	0.5	6.0	2.0	2.0
Merged-chr6-145802193-1	chr6	145802093	145802293	+	757.75	f0_balb.idr	Intergenic	Intergenic	-6190.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	8.0	6.5	14.0	116.5	12.0	7.0	5.0	7.5
Merged-chr2-101653038-3	chr2	101652933	101653133	+	759.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3501.0	NM_009019	19373.0	Mm.828	NM_009019	ENSMUSG00000061311	Rag1	Rag-1	recombination activating gene 1	protein-coding	6.0	7.5	0.5	115.0	24.5	9.5	14.0	13.5
Merged-chr15-81694147-4	chr15	81694055	81694255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164320, exon 3 of 6)	exon (NM_001164320, exon 3 of 6)	3132.0	NM_001164320	214685.0	Mm.393287	NM_001164320	ENSMUSG00000063765	Chadl	AY100452|D930017K21Rik	chondroadherin-like	protein-coding	50.5	87.0	31.0	624.0	96.0	40.0	42.5	37.5
Merged-chr18-56975349-4	chr18	56975250	56975450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029909)	promoter-TSS (NM_029909)	29.0	NM_029909	77422.0	Mm.256874	NM_029909	ENSMUSG00000024592	C330018D20Rik	AU018666	RIKEN cDNA C330018D20 gene	protein-coding	52.5	66.5	51.5	915.5	117.5	43.5	68.0	54.0
Merged-chr2-34807052-3	chr2	34806939	34807139	+	962.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164769, exon 7 of 7)	3' UTR (NM_001164769, exon 7 of 7)	-7127.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	10.0	7.0	12.5	159.0	16.5	9.5	8.0	9.0
Merged-chr1-172352582-4	chr1	172352472	172352672	+	934.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	11362.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	51.5	69.0	46.5	697.5	33.5	6.5	11.0	12.0
Merged-chr11-34001899-3	chr11	34001781	34001981	+	933.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-8688.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	15.0	10.0	15.0	146.5	14.0	4.5	9.5	6.0
Merged-chr4-150626563-4	chr4	150626482	150626682	+	850.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25592.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	9.5	18.5	7.5	142.5	23.5	22.0	8.0	12.0
Merged-chr1-93478924-4	chr1	93478814	93479014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159718)	promoter-TSS (NM_001159718)	3.0	NM_133808	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	259.5	417.0	272.0	3044.5	672.5	290.5	341.0	232.5
Merged-chr7-31000748-4	chr7	31000614	31000814	+	789.387512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18793.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	10.5	9.0	9.0	170.0	19.5	11.0	6.5	16.5
Merged-chr6-70872279-4	chr6	70872188	70872388	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 2 of 16)	intron (NM_010121, intron 2 of 16)	27773.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	29.5	64.0	18.5	306.5	58.5	18.0	16.5	20.0
Merged-chr9-123942224-4	chr9	123942153	123942353	+	957.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26439.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	19.5	32.0	33.5	293.0	36.0	10.0	19.5	9.0
Merged-chr13-52615229-4	chr13	52615137	52615337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 3 of 13)	intron (NM_011518, intron 3 of 13)	18355.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	167.0	222.0	171.5	2620.5	267.5	108.0	102.5	123.0
Merged-chr2-25588773-4	chr2	25588663	25588863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024616, intron 7 of 14)	intron (NM_001024616, intron 7 of 14)	-8664.0	NM_001005424	381353.0	Mm.379511	NM_001005424	ENSMUSG00000029419	Gm996	Ajm1	predicted gene 996	protein-coding	73.0	100.5	85.0	1090.5	159.0	67.0	86.5	64.0
Merged-chr9-16114497-4	chr9	16114407	16114607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	-239951.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	97.0	163.5	138.5	1879.0	273.5	72.0	104.0	116.0
Merged-chr1-156028551-4	chr1	156028457	156028657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144791, intron 4 of 6)	intron (NM_144791, intron 4 of 6)	6260.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	68.5	119.0	75.0	1122.5	152.0	72.0	79.0	76.0
Merged-chr1-91231975-4	chr1	91231873	91232073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18331.0	NM_001355763	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	28.0	40.0	30.5	408.0	56.5	21.0	23.5	21.0
Merged-chr19-47459092-4	chr19	47458973	47459173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	5338.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	73.0	93.0	70.5	993.0	57.5	35.0	41.5	33.0
Merged-chr7-55910595-4	chr7	55910484	55910684	+	873.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 22 of 30)	intron (NM_011370, intron 22 of 30)	51909.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	3.5	11.5	10.5	105.5	29.5	14.0	19.5	9.0
Merged-chr11-31796379-1	chr11	31796279	31796479	+	601.5	f0_balb.idr	Intergenic	Intergenic	28168.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	8.5	4.5	8.5	75.5	6.5	5.5	3.5	10.0
Merged-chr16-20496810-4	chr16	20496690	20496890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2027.0	NM_172265	224045.0	Mm.233855	NM_172265	ENSMUSG00000003235	Eif2b5	C81315	eukaryotic translation initiation factor 2B, subunit 5 epsilon	protein-coding	21.0	42.5	17.0	490.0	88.0	13.5	28.0	31.0
Merged-chr6-83831864-4	chr6	83831760	83831960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146169)	promoter-TSS (NM_146169)	-119.0	NM_146169	232164.0	Mm.404420	NM_146169	ENSMUSG00000045896	Paip2b	-	poly(A) binding protein interacting protein 2B	protein-coding	333.0	532.5	328.5	4701.5	840.0	391.5	335.0	382.0
Merged-chr8-94857460-4	chr8	94857366	94857566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009090)	promoter-TSS (NM_009090)	16.0	NM_009090	20021.0	Mm.292492	NM_009090	ENSMUSG00000031783	Polr2c	33kDa|RPB3|Rpo2-3|mRBP31	polymerase (RNA) II (DNA directed) polypeptide C	protein-coding	58.5	55.0	41.5	359.0	166.0	56.0	37.5	40.5
Merged-chr3-137846736-4	chr3	137846648	137846848	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-17739.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	24.5	46.0	24.0	469.0	76.5	17.5	14.5	18.0
Merged-chr15-59530848-4	chr15	59530741	59530941	+	963.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-117813.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	11.5	27.5	12.0	243.5	89.5	18.0	27.0	18.5
Merged-chr10-51483494-2	chr10	51483394	51483594	+	999.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008147, intron 5 of 8)	intron (NM_008147, intron 5 of 8)	2882.0	NM_001291892	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	5.0	8.5	5.0	100.0	6.5	4.0	5.0	2.5
Merged-chr19-41913060-2	chr19	41912960	41913160	+	785.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_023418, intron 1 of 3)	intron (NM_023418, intron 1 of 3)	1189.0	NM_023418	18648.0	Mm.16783	NM_023418	ENSMUSG00000011752	Pgam1	2310050F24Rik|Pgam-1	phosphoglycerate mutase 1	protein-coding	4.5	4.5	7.5	24.5	1.0	1.0	3.0	5.0
Merged-chr6-146913252-3	chr6	146913117	146913317	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355728, intron 1 of 30)	intron (NM_001355728, intron 1 of 30)	24723.0	NM_026221	67533.0	Mm.103382	NM_026221	ENSMUSG00000016487	Ppfibp1	4632409B19Rik|AW214454|AW261454	PTPRF interacting protein, binding protein 1 (liprin beta 1)	protein-coding	6.5	8.5	4.0	96.0	25.0	5.5	9.0	13.5
Merged-chr5-71593956-1	chr5	71593856	71594056	+	744.0	f0_balb.idr	intron (NM_001359050, intron 2 of 2)	intron (NM_001359050, intron 2 of 2)	-45751.0	NM_030052	78174.0	Mm.60690	NM_030052	ENSMUSG00000049387	Cox7b2	4930503B16Rik	cytochrome c oxidase subunit VIIb2	protein-coding	11.0	9.5	4.0	148.0	6.0	6.5	14.0	14.0
Merged-chr10-98792543-4	chr10	98792431	98792631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122111.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	66.5	72.0	66.5	998.0	152.5	32.5	36.0	55.0
Merged-chr15-103484321-3	chr15	103484222	103484422	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153505, intron 22 of 30)	intron (NM_153505, intron 22 of 30)	-18712.0	NM_008800	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	4.0	3.5	13.0	161.5	20.5	6.5	5.5	10.5
Merged-chr5-139300754-2	chr5	139300654	139300854	+	854.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 3 of 10)	intron (NM_172723, intron 3 of 10)	24710.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	4.5	8.0	4.0	5.5	35.0	6.5	4.5	7.0
Merged-chr15-53474771-3	chr15	53474658	53474858	+	575.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177225, intron 4 of 4)	intron (NM_177225, intron 4 of 4)	-128575.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.0	5.0	6.5	75.0	2.5	2.0	1.0	2.0
Merged-chr5-120775880-1	chr5	120775780	120775980	+	919.0	f0_balb.idr	intron (NM_145226, intron 1 of 15)	RLTR11A|LTR|ERVK	1779.0	NM_145226	246727.0	Mm.204887	NM_145226	ENSMUSG00000032661	Oas3	Oasl10	2'-5' oligoadenylate synthetase 3	protein-coding	16.0	21.5	5.5	64.5	15.5	7.5	6.0	10.5
Merged-chr3-109323983-4	chr3	109323845	109324045	+	874.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16738.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	18.0	9.0	13.0	124.5	28.5	10.5	11.5	5.0
Merged-chr15-81811404-4	chr15	81811321	81811521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017376)	promoter-TSS (NM_017376)	7.0	NM_017376	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	201.5	296.5	191.0	2608.5	486.0	206.5	266.5	188.5
Merged-chr19-6891311-4	chr19	6891208	6891408	+	922.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-18390.0	NM_001166370	67674.0	Mm.318804	NM_026306	ENSMUSG00000038812	Trmt112	0610038D11Rik|Trm112p	tRNA methyltransferase 11-2	protein-coding	16.5	17.5	17.0	58.5	34.5	17.0	12.5	3.5
Merged-chr5-113815955-3	chr5	113815843	113816043	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14558.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	19.5	12.0	4.5	75.5	19.0	4.0	9.5	9.5
Merged-chr15-78931786-4	chr15	78931681	78931881	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3152.0	NM_133800	97961.0	Mm.157216	NM_133800	ENSMUSG00000033099	Nol12	C78541|Nop25	nucleolar protein 12	protein-coding	34.0	76.0	17.0	310.5	48.0	25.0	27.0	17.5
Merged-chr11-117119338-8	chr11	117119195	117119395	+	983.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166507, intron 2 of 16)	RSINE1|SINE|B4	4123.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	8.0	10.5	16.5	95.5	24.0	14.5	9.0	8.5
Merged-chr5-148707548-4	chr5	148707433	148707633	+	805.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34307.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	1.0	3.0	8.5	97.0	36.0	17.0	25.0	15.5
Merged-chr16-58499838-4	chr16	58499756	58499956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 2 of 10)	intron (NM_001357433, intron 2 of 10)	23570.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	40.0	63.5	35.5	705.5	144.5	44.0	68.0	56.5
Merged-chr6-121343325-4	chr6	121343300	121343500	+	883.337524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347433, intron 1 of 14)	intron (NM_001347433, intron 1 of 14)	324.0	NM_001347433	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	2.5	11.0	7.5	112.5	26.0	7.5	12.5	8.5
Merged-chr14-47505771-2	chr14	47505663	47505863	+	657.666687	f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 2 of 5)	ORR1D2|LTR|ERVL-MaLR	33202.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	0.0	3.5	1.0	14.5	17.0	5.5	8.0	6.0
Merged-chr5-143731069-3	chr5	143730975	143731175	+	842.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029749, intron 1 of 17)	intron (NM_029749, intron 1 of 17)	1205.0	NM_029749	76800.0	Mm.259620	NM_029749	ENSMUSG00000051306	Usp42	2410140K03Rik|3110031A07Rik|A630018G05Rik|D5Ertd591e	ubiquitin specific peptidase 42	protein-coding	9.5	5.0	5.5	167.5	19.5	4.5	9.5	7.5
Merged-chr8-36613948-4	chr8	36613814	36614014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015802)	promoter-TSS (NM_015802)	29.0	NM_015802	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	75.5	102.5	75.0	1441.0	126.0	43.5	90.5	45.0
Merged-chr4-126533524-4	chr4	126533343	126533543	+	929.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153177)	promoter-TSS (NM_153177)	15.0	NM_153177	76850.0	Mm.86705	NM_153177	ENSMUSG00000042500	Ago4	5730550L01Rik|AI481660|Eif2c4	argonaute RISC catalytic subunit 4	protein-coding	4.5	4.5	9.0	93.5	20.0	3.0	11.5	8.5
Merged-chr9-116058630-4	chr9	116058524	116058724	+	870.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028638, intron 14 of 14)	intron (NM_028638, intron 14 of 14)	116739.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	10.5	20.0	21.5	276.5	15.0	8.0	10.5	15.0
Merged-chr4-151058094-4	chr4	151058007	151058207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009498)	promoter-TSS (NM_009498)	-154.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	300.5	475.0	243.5	3373.5	619.5	287.5	335.5	251.0
Merged-chr3-108865858-2	chr3	108865758	108865958	+	856.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001165965, intron 8 of 11)	intron (NM_001165965, intron 8 of 11)	24150.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	9.0	12.0	5.0	48.0	7.5	4.0	3.5	4.0
Merged-chr14-64688981-2	chr14	64688881	64689081	+	603.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 2 of 39)	intron (NM_001081177, intron 2 of 39)	36450.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	5.5	5.0	4.5	298.0	9.5	2.0	1.0	6.5
Merged-chr6-72132982-1	chr6	72132882	72133082	+	565.0	f0_balb.idr	intron (NM_001035228, intron 3 of 6)	intron (NM_001035228, intron 3 of 6)	-9785.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	5.0	27.5	7.5	84.5	28.0	4.0	8.0	2.5
Merged-chr10-85587946-2	chr10	85587856	85588056	+	942.666626	f0_c57.idr|f1_c57bl6.idr	intron (NM_028709, intron 3 of 16)	intron (NM_028709, intron 3 of 16)	-10455.0	NM_001017525	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	0.0	0.0	2.0	1.0	67.5	14.5	23.0	35.5
Merged-chr3-27188398-4	chr3	27188303	27188503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	5399.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	38.5	39.5	40.0	626.5	64.5	27.5	38.5	39.0
Merged-chr14-63410689-4	chr14	63410592	63410792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 1 of 12)	intron (NM_007549, intron 1 of 12)	6495.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	26.0	29.0	57.5	775.0	54.5	10.0	25.5	23.5
Merged-chr3-65950431-4	chr3	65950328	65950528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019937, intron 5 of 10)	intron (NM_019937, intron 5 of 10)	7821.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	33.5	44.5	26.5	470.5	55.5	22.5	30.0	18.5
Merged-chr1-161560537-4	chr1	161560441	161560641	+	993.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	65884.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	21.5	28.5	37.5	625.5	68.5	11.5	19.0	29.0
Merged-chr15-98832834-2	chr15	98832734	98832934	+	991.375	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033276, exon 55 of 55)	3' UTR (NM_001033276, exon 55 of 55)	-1326.0	NM_016781	19082.0	Mm.6670	NM_016781	ENSMUSG00000067713	Prkag1	AA571379|BB036179|Prkaac	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	protein-coding	7.5	6.0	3.0	32.0	7.5	5.5	6.5	4.5
Merged-chr1-58348866-4	chr1	58348744	58348944	+	819.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008419, intron 28 of 35)	intron (NM_001008419, intron 28 of 35)	-44292.0	NM_025824	66882.0	Mm.21848	NM_025824	ENSMUSG00000051223	Bzw1	1200015E15Rik|mKIAA0005	basic leucine zipper and W2 domains 1	protein-coding	9.5	4.5	0.0	141.0	48.0	15.0	6.5	16.0
Merged-chr17-46556335-4	chr17	46556224	46556424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020493)	promoter-TSS (NM_020493)	-162.0	NM_020493	20807.0	Mm.45044	NM_020493	ENSMUSG00000015605	Srf	AW049942|AW240594	serum response factor	protein-coding	232.5	349.5	208.5	3066.5	516.5	237.0	236.0	232.5
Merged-chr18-20745711-5	chr18	20745592	20745792	+	897.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019737, exon 1 of 9)	5' UTR (NM_019737, exon 1 of 9)	712.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	6.5	14.0	18.0	144.5	40.0	7.0	10.5	25.5
Merged-chr17-33640176-7	chr17	33640004	33640204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028279, intron 1 of 9)	intron (NR_028279, intron 1 of 9)	2009.0	NR_028279	378460.0	Mm.272606	NM_001002842	ENSMUSG00000032739	Pram1	AY665714	PML-RAR alpha-regulated adaptor molecule 1	protein-coding	54.5	74.5	58.0	685.0	97.5	38.5	34.0	42.5
Merged-chr2-167833744-4	chr2	167833642	167833842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98585.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	89.0	136.0	84.0	1224.5	208.0	73.0	70.5	118.0
Merged-chr7-90021247-4	chr7	90021152	90021352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7907.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	24.5	61.5	59.0	876.5	96.5	50.5	51.0	38.5
Merged-chr2-35718243-4	chr2	35718201	35718401	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001602, intron 8 of 13)	intron (NM_001001602, intron 8 of 13)	21569.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	21.0	11.5	33.0	356.5	30.5	10.5	14.5	14.5
Merged-chr4-41050900-4	chr4	41050799	41050999	+	676.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2763.0	NM_007473	11832.0	Mm.8728	NM_007473	ENSMUSG00000028427	Aqp7	AQP7L|AQPap	aquaporin 7	protein-coding	9.5	11.0	8.0	81.5	26.5	6.0	8.0	10.0
Merged-chr9-105648564-3	chr9	105648482	105648682	+	856.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081309, intron 2 of 19)	intron (NM_001081309, intron 2 of 19)	5587.0	NM_001081309	75669.0	Mm.274830	NM_029380	ENSMUSG00000032571	Pik3r4	2210010O15Rik|C730038E05Rik|C85833|D9Ertd418e|Vps15|p150	phosphoinositide-3-kinase regulatory subunit 4	protein-coding	13.0	14.5	17.0	349.0	0.0	2.5	2.5	0.0
Merged-chr10-8859659-4	chr10	8859556	8859756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	B1F1|SINE|Alu	26414.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	44.5	31.0	34.5	675.5	80.0	16.0	39.0	38.0
Merged-chr6-116669280-4	chr6	116669162	116669362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	MLTR14|LTR|ERV1	4574.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	95.5	181.0	86.0	1088.0	242.0	98.5	93.5	95.5
Merged-chr13-23581551-4	chr13	23581468	23581668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175654)	promoter-TSS (NM_175654)	-34.0	NM_175654	319156.0	Mm.260530	NM_175654	ENSMUSG00000061482	Hist1h4d	-	histone cluster 1, H4d	protein-coding	141.0	302.5	224.5	2425.0	391.0	217.5	247.0	187.5
Merged-chr2-167958992-4	chr2	167958896	167959096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	26669.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	79.5	104.0	46.0	1225.0	134.5	30.0	63.0	60.0
Merged-chr5-106709773-4	chr5	106709669	106709869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12939.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	19.5	25.5	26.0	372.0	61.0	26.5	23.0	26.0
Merged-chr7-101649694-3	chr7	101649624	101649824	+	920.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14044.0	NM_009191	20480.0	Mm.3990	NM_009191	ENSMUSG00000001829	Clpb	AL118244|Skd3	ClpB caseinolytic peptidase B	protein-coding	3.5	14.0	10.0	149.5	16.0	7.0	5.5	10.0
Merged-chr7-45536227-4	chr7	45536127	45536327	+	950.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148927, intron 6 of 19)	RMER16_Mm|LTR|ERVK	9897.0	NM_148927	69217.0	Mm.274158	NM_148927	ENSMUSG00000040428	Plekha4	2410005C22Rik|C88169|Pepp1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4	protein-coding	21.5	47.5	16.0	137.0	61.0	17.0	33.5	23.5
Merged-chr7-63937788-4	chr7	63937688	63937888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	CpG	1127.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	174.0	267.0	197.5	2638.0	508.5	168.5	271.0	180.0
Merged-chr7-4151410-3	chr7	4151319	4151519	+	868.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021454, exon 3 of 3)	exon (NM_021454, exon 3 of 3)	-1547.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	8.5	6.0	8.0	61.5	13.0	6.5	10.0	7.0
Merged-chr12-118748656-4	chr12	118748554	118748754	+	892.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97675.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	7.5	11.5	17.0	264.0	44.5	14.5	13.5	14.5
Merged-chr8-37062458-4	chr8	37062357	37062557	+	845.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38219.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	13.5	12.5	15.0	106.5	63.5	11.0	28.0	16.5
Merged-chr9-65359286-3	chr9	65359163	65359363	+	874.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016688, exon 5 of 5)	3' UTR (NM_016688, exon 5 of 5)	-1797.0	NM_001111145	208080.0	Mm.291862	NM_001111145	ENSMUSG00000086228	Ubap1l	Gm514	ubiquitin-associated protein 1-like	protein-coding	5.0	4.5	7.5	159.0	5.0	1.5	4.5	7.0
Merged-chr14-50971046-3	chr14	50970905	50971105	+	839.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	14864.0	NM_001123371	667034.0	Mm.482171	NM_001123371	ENSMUSG00000068417	Pnp2	-	purine-nucleoside phosphorylase 2	protein-coding	10.0	6.5	11.0	118.0	16.5	7.5	2.0	5.0
Merged-chr5-110416626-6	chr5	110416476	110416676	+	986.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 3 of 18)	(TG)n|Simple_repeat|Simple_repeat	-29449.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	14.0	5.0	8.5	94.5	30.5	3.5	9.5	13.0
Merged-chr12-84288681-4	chr12	84288580	84288780	+	679.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252625, intron 1 of 9)	B3|SINE|B2	3384.0	NM_001252626	77219.0	Mm.246127	NM_029880	ENSMUSG00000072946	Ptgr2	1810016I24Rik|9130222H03Rik|9630002F03Rik|AI838763|B830026H24Rik|PGR-2|PRG-2|Zadh1	prostaglandin reductase 2	protein-coding	6.5	2.5	3.0	111.0	30.0	12.0	9.0	11.5
Merged-chr5-121843506-6	chr5	121843436	121843636	+	938.205566	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-5461.0	NM_175474	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	11.0	15.0	9.0	149.5	17.5	12.0	5.5	13.5
Merged-chr2-11192499-4	chr2	11192410	11192610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	20128.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	32.5	62.0	35.5	456.0	140.0	53.0	43.5	45.5
Merged-chr19-45591908-4	chr19	45591758	45591958	+	988.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 5 of 8)	intron (NM_013907, intron 5 of 8)	31273.0	NM_172639	226162.0	Mm.21978	NM_172639	ENSMUSG00000041035	Dpcd	Ndac	deleted in primary ciliary dyskinesia	protein-coding	46.5	64.0	25.5	711.5	58.5	9.0	10.5	23.0
Merged-chr10-8811926-3	chr10	8811820	8812020	+	832.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 4 of 19)	L1MC4|LINE|L1	74150.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	7.0	9.0	29.5	332.0	6.5	0.0	1.5	1.0
Merged-chr17-28486192-4	chr17	28486076	28486276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010220)	promoter-TSS (NM_010220)	-27.0	NM_010220	14229.0	Mm.276405	NM_010220	ENSMUSG00000024222	Fkbp5	D17Ertd592e|Dit1|FKBP-5|FKBP51	FK506 binding protein 5	protein-coding	186.0	315.0	173.0	2592.5	372.0	157.5	179.5	148.5
Merged-chr7-46987470-2	chr7	46987370	46987570	+	716.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_033461, intron 4 of 4)	intron (NR_033461, intron 4 of 4)	10838.0	NR_033461	629141.0	Mm.229259	NR_033461	ENSMUSG00000056509	Gm9999	-	predicted gene 9999	ncRNA	5.5	4.0	6.5	141.0	6.5	8.5	5.0	11.0
Merged-chr1-153425149-4	chr1	153425065	153425265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033162)	promoter-TSS (NM_001033162)	-44.0	NM_001033162	71836.0	Mm.49460	NM_001033162	ENSMUSG00000042708	Shcbp1l	1700012A16Rik	Shc SH2-domain binding protein 1-like	protein-coding	48.0	48.0	36.5	428.0	95.5	35.5	32.5	43.0
Merged-chr11-80072491-3	chr11	80072399	80072599	+	786.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018776, intron 1 of 7)	intron (NM_018776, intron 1 of 7)	8492.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	13.5	23.0	2.5	125.0	31.5	7.0	7.0	11.0
Merged-chr14-73169537-4	chr14	73169431	73169631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134083, intron 10 of 14)	Lx3_Mus|LINE|L1	26746.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	21.5	32.0	33.0	247.5	63.5	25.0	26.5	24.0
Merged-chr7-90138577-4	chr7	90138487	90138687	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	8374.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	36.5	26.5	38.0	560.5	42.5	13.0	31.5	23.0
Merged-chr15-98417383-4	chr15	98417286	98417486	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	18941.0	NR_015496	73302.0	Mm.272760	NR_015496	ENSMUSG00000099353	1700031M16Rik	4930413L20Rik	RIKEN cDNA 1700031M16 gene	ncRNA	8.0	23.5	10.5	127.0	24.5	12.0	9.5	20.5
Merged-chr14-66264905-4	chr14	66264923	66265123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	16029.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	38.5	65.0	31.0	410.5	98.5	49.5	57.5	52.5
Merged-chr11-106305535-3	chr11	106305437	106305637	+	727.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3641.0	NM_008117	14599.0	Mm.343934	NM_008117	ENSMUSG00000020713	Gh	Gh1|Ghb1	growth hormone	protein-coding	11.0	18.0	9.0	56.5	26.0	22.5	15.5	9.0
Merged-chr2-169008878-4	chr2	169008771	169008971	+	849.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30602.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	9.0	22.0	10.0	427.5	22.5	5.5	16.5	12.0
Merged-chr14-20929289-4	chr14	20929190	20929390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009502)	promoter-TSS (NM_009502)	-108.0	NM_009502	22330.0	Mm.279361	NM_009502	ENSMUSG00000021823	Vcl	9430097D22|AA571387|AI462105|AW545629	vinculin	protein-coding	171.0	213.0	120.0	1939.5	282.5	127.0	139.0	95.0
Merged-chr6-55507749-2	chr6	55507649	55507849	+	999.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	55771.0	NM_007407	11517.0	Mm.44245	NM_007407	ENSMUSG00000029778	Adcyap1r1	2900024I10Rik|AI846590|PAC1|PAC1R|PACAP1-R	adenylate cyclase activating polypeptide 1 receptor 1	protein-coding	1.0	11.5	0.0	159.0	5.5	4.5	6.0	10.5
Merged-chr1-37904979-4	chr1	37904861	37905061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033427)	TTS (NM_001033427)	11532.0	NM_001033427	332427.0	Mm.332981	NM_001033427	ENSMUSG00000061584	Lyg2	Gm776	lysozyme G-like 2	protein-coding	43.5	67.0	42.5	521.5	120.5	40.0	26.0	43.0
Merged-chr19-4476988-2	chr19	4476888	4477088	+	694.5	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134164, exon 1 of 8)	5' UTR (NM_134164, exon 1 of 8)	155.0	NM_134164	171180.0	Mm.262270	NM_134164	ENSMUSG00000049303	Syt12	-	synaptotagmin XII	protein-coding	5.5	5.5	4.5	8.5	3.5	1.0	2.0	6.0
Merged-chr2-142703093-4	chr2	142702994	142703194	+	756.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 22 of 26)	L1MA4A|LINE|L1	198370.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	4.5	13.0	5.5	133.0	29.5	5.0	7.0	13.0
Merged-chr2-75991048-4	chr2	75990939	75991139	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081033)	TTS (NM_001081033)	-9072.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	20.0	31.0	17.0	237.5	40.5	15.5	21.0	16.5
Merged-chr19-46014732-4	chr19	46014638	46014838	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11260.0	NM_176785	20170.0	Mm.101110	NM_176785	ENSMUSG00000074811	Hps6	5330434M19Rik|BLOC2|ru	HPS6, biogenesis of lysosomal organelles complex 2 subunit 3	protein-coding	20.5	23.5	15.0	252.5	63.0	12.5	26.0	20.5
Merged-chr16-50632821-4	chr16	50632703	50632903	+	951.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040566, intron 3 of 4)	intron (NR_040566, intron 3 of 4)	-41649.0	NM_027046	69339.0	Mm.422869	NM_027046	ENSMUSG00000050685	Ccdc54	1700007N18Rik|AI644412|BB013989|NYD-SP17	coiled-coil domain containing 54	protein-coding	26.0	24.5	53.0	769.0	33.5	8.0	15.0	20.0
Merged-chr10-75504958-4	chr10	75504841	75505041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HERVL40-int|LTR|ERVL	12440.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	72.0	68.5	82.0	1219.0	146.0	47.5	58.5	51.0
Merged-chr10-40300890-4	chr10	40300786	40300986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009665, intron 1 of 7)	CpG	1300.0	NM_007444	100041585.0	Mm.476925	NM_007444	ENSMUSG00000063953	Amd2	AdoMetDC|Amd1|Amd3	S-adenosylmethionine decarboxylase 2	protein-coding	36.5	62.0	55.0	1027.5	97.0	36.5	83.5	52.0
Merged-chr19-57355637-4	chr19	57355558	57355758	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040316, intron 1 of 2)	intron (NR_040316, intron 1 of 2)	5241.0	NR_040316	320879.0	Mm.375089	NR_040316	ENSMUSG00000097785	B230217O12Rik	-	RIKEN cDNA B230217O12 gene	ncRNA	16.0	12.0	22.0	191.5	22.0	13.5	18.5	10.0
Merged-chr2-167001111-4	chr2	167001012	167001212	+	869.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-4813.0	NM_001109905	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	15.5	23.5	8.0	119.0	48.0	9.0	15.5	15.0
Merged-chr3-115682979-4	chr3	115682881	115683081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32074.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	40.5	34.0	50.0	620.0	51.5	35.5	39.0	24.5
Merged-chr2-31119222-4	chr2	31119138	31119338	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	intron (NM_001355105, intron 1 of 15)	-22738.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	33.0	53.5	10.0	138.0	35.5	33.0	16.0	10.0
Merged-chr9-100507756-4	chr9	100507654	100507854	+	933.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324530)	promoter-TSS (NM_001324530)	-898.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	17.5	25.0	20.0	354.5	31.5	7.5	15.5	7.0
Merged-chr2-174330376-1	chr2	174330276	174330476	+	1000.0	f0_balb.idr	exon (NM_001310083, exon 2 of 13)	exon (NM_001310083, exon 2 of 13)	287.0	NM_001077510	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	16.0	38.0	35.5	234.0	49.0	18.5	17.5	19.0
Merged-chr6-86793652-4	chr6	86793593	86793793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013471)	promoter-TSS (NM_013471)	-109.0	NM_013471	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	49.0	77.0	44.5	522.5	98.5	31.0	24.5	37.5
Merged-chr11-120948487-4	chr11	120948412	120948612	+	967.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030696)	promoter-TSS (NM_030696)	28.0	NM_030696	80879.0	Mm.28632	NM_030696	ENSMUSG00000025161	Slc16a3	Mct3|Mct4	solute carrier family 16 (monocarboxylic acid transporters), member 3	protein-coding	14.0	34.0	18.0	222.5	48.5	11.5	19.5	27.5
Merged-chr2-91710904-4	chr2	91710804	91711004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145528)	promoter-TSS (NM_145528)	52.0	NM_001356518	241547.0	Mm.130331	NM_178724	ENSMUSG00000027243	Harbi1	D230010M03Rik	harbinger transposase derived 1	protein-coding	56.0	66.5	45.0	556.0	113.5	50.0	72.5	54.5
Merged-chr9-58542035-3	chr9	58541945	58542145	+	971.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1105.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	14.5	40.5	24.0	312.5	29.0	7.5	8.5	8.0
Merged-chr14-69795552-3	chr14	69795449	69795649	+	719.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153514, intron 6 of 9)	intron (NM_153514, intron 6 of 9)	9996.0	NM_153514	246710.0	Mm.102367	NM_153514	ENSMUSG00000022075	Rhobtb2	Dbc2|E130206H14Rik|mKIAA0717	Rho-related BTB domain containing 2	protein-coding	1.0	15.5	1.5	92.5	18.0	5.5	5.5	7.0
Merged-chr14-79430470-4	chr14	79430369	79430569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001024135, exon 1 of 1)	3' UTR (NM_001024135, exon 1 of 1)	3958.0	NM_001024135	211255.0	Mm.284526	NM_001024135	ENSMUSG00000043881	Kbtbd7	1110008P08Rik|AU045792|Gm295	kelch repeat and BTB (POZ) domain containing 7	protein-coding	29.5	49.0	36.5	527.5	106.0	27.0	33.5	27.5
Merged-chr9-40797256-4	chr9	40797242	40797442	+	869.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTC)n|Simple_repeat|Simple_repeat	-3931.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	7.5	6.0	6.0	111.5	8.0	5.5	1.5	3.0
Merged-chr1-172083286-2	chr1	172083142	172083342	+	695.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021607)	promoter-TSS (NM_021607)	-493.0	NM_021607	59287.0	Mm.218203	NM_021607	ENSMUSG00000003458	Ncstn	9430068N19Rik|AA727311|Aph2|D1Dau13e|Kiaa0253|Nct|mKIAA0253	nicastrin	protein-coding	3.0	2.5	8.0	34.5	30.5	10.0	5.5	10.0
Merged-chr6-122566914-2	chr6	122566814	122567014	+	627.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13105.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	1.0	2.0	2.5	48.5	12.5	4.5	5.5	7.5
Merged-chr13-74350216-4	chr13	74350118	74350318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023281)	promoter-TSS (NM_023281)	22.0	NM_023281	66945.0	Mm.158231	NM_023281	ENSMUSG00000021577	Sdha	1500032O14Rik|2310034D06Rik|4921513A11|C81073|FP|SDH2|SDHF	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	protein-coding	129.0	213.0	161.0	1992.0	303.0	102.0	133.5	104.5
Merged-chr1-132384880-2	chr1	132384823	132385023	+	787.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_178874, intron 1 of 4)	intron (NM_178874, intron 1 of 4)	5395.0	NM_001311107	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	4.5	19.0	5.0	32.5	19.5	8.0	1.0	2.5
Merged-chr6-129097608-4	chr6	129097515	129097715	+	794.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153506, intron 2 of 4)	intron (NM_153506, intron 2 of 4)	3288.0	NM_153506	232409.0	Mm.30870	NM_153506	ENSMUSG00000030155	Clec2e	Clra|clr-a	C-type lectin domain family 2, member e	protein-coding	18.0	23.0	8.0	146.5	26.5	19.0	6.0	18.5
Merged-chr13-43171535-4	chr13	43171481	43171681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025935)	promoter-TSS (NM_025935)	-80.0	NM_001252640	67046.0	Mm.269213	NM_025935	ENSMUSG00000021368	Tbc1d7	2610009C09Rik	TBC1 domain family, member 7	protein-coding	53.5	75.5	46.0	549.5	109.0	42.5	60.0	40.0
Merged-chr8-13685836-4	chr8	13685748	13685948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD2|LINE|L1	-8261.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	59.5	103.0	66.0	908.5	134.5	59.0	94.0	38.0
Merged-chr7-90023195-4	chr7	90023099	90023299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5960.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	126.0	147.0	244.0	2149.5	286.5	100.0	139.5	123.0
Merged-chr1-156673744-4	chr1	156673634	156673834	+	961.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023141, intron 1 of 5)	intron (NM_023141, intron 1 of 5)	605.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	27.0	14.0	27.0	195.5	33.5	18.0	11.5	19.0
Merged-chr7-114347170-4	chr7	114347065	114347265	+	884.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029437, intron 1 of 3)	intron (NR_029437, intron 1 of 3)	67996.0	NR_029437	71045.0	Mm.235682	NR_029437	ENSMUSG00000087475	4933406I18Rik	4933403D24Rik	RIKEN cDNA 4933406I18 gene	ncRNA	17.5	17.5	15.0	354.0	24.5	3.0	10.5	14.5
Merged-chr9-62343136-4	chr9	62342987	62343187	+	983.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	CpG	1744.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	20.5	11.5	24.5	399.0	46.0	10.5	14.5	19.5
Merged-chr4-105162866-4	chr4	105162748	105162948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 1 of 5)	intron (NM_080555, intron 1 of 5)	5501.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	26.5	34.5	27.5	592.0	52.0	31.5	34.0	36.0
Merged-chr2-32775673-4	chr2	32775549	32775749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290567)	promoter-TSS (NM_001290567)	-16.0	NM_001290563	338348.0	Mm.475130	NM_177384	ENSMUSG00000039021	Ttc16	1200002K10Rik	tetratricopeptide repeat domain 16	protein-coding	128.5	149.5	83.0	1119.0	223.5	92.0	99.5	96.0
Merged-chr8-123478576-4	chr8	123478510	123478710	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028260, intron 1 of 15)	RMER15|LTR|ERVL	748.0	NR_028260	114896.0	Mm.287475	NM_054070	ENSMUSG00000031967	Afg3l1	1700047G05Rik|3110061K15Rik	AFG3-like AAA ATPase 1	protein-coding	25.0	29.5	21.0	223.0	24.0	13.0	10.5	18.0
Merged-chr1-134095235-4	chr1	134095122	134095322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16020.0	NM_001284525	71884.0	Mm.328268	NM_027979	ENSMUSG00000026450	Chit1	2300002L19Rik	chitinase 1 (chitotriosidase)	protein-coding	78.0	93.5	86.0	1440.0	194.0	63.5	110.0	68.5
Merged-chr7-122251915-4	chr7	122251826	122252026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32430.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	24.5	40.0	19.0	407.0	81.5	45.0	50.0	31.0
Merged-chr8-70522219-4	chr8	70522130	70522330	+	847.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029366, intron 1 of 4)	B2_Mm2|SINE|B2	950.0	NM_029366	75620.0	Mm.482129	NM_029366	ENSMUSG00000055553	Kxd1	0610030B01Rik|2810422J05Rik|C78305	KxDL motif containing 1	protein-coding	15.0	19.0	6.5	162.0	17.5	18.5	2.5	12.5
Merged-chr1-14740210-2	chr1	14740114	14740314	+	774.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	15752.0	NM_001360810	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	9.0	11.0	1.0	139.5	14.0	6.5	14.0	14.5
Merged-chr13-97198395-4	chr13	97198294	97198494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010422)	promoter-TSS (NM_010422)	-37.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	126.0	177.5	114.5	1967.0	248.5	108.5	176.5	109.0
Merged-chr6-34956459-4	chr6	34956352	34956552	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025573, intron 4 of 7)	intron (NM_001025573, intron 4 of 7)	21547.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	8.0	28.5	8.5	50.0	44.5	21.5	8.5	3.0
Merged-chr4-148676803-4	chr4	148676702	148676902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33485.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	30.0	64.0	26.5	466.5	90.0	42.0	57.5	37.0
Merged-chr2-127444595-4	chr2	127444539	127444739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029629)	promoter-TSS (NM_029629)	-74.0	NM_029629	68126.0	Mm.288676	NM_029629	ENSMUSG00000027371	Fahd2a	1500003K14Rik|B430104H02Rik|Cgi-105|Fahd2	fumarylacetoacetate hydrolase domain containing 2A	protein-coding	44.5	37.0	15.0	387.0	69.5	31.0	26.0	32.0
Merged-chr2-66256645-4	chr2	66256546	66256746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290669)	promoter-TSS (NM_001290669)	-29.0	NM_001290669	73668.0	Mm.250868	NM_001047604	ENSMUSG00000034848	Ttc21b	2410066K11Rik|Thm1|aln|mKIAA1992	tetratricopeptide repeat domain 21B	protein-coding	119.5	128.0	178.5	2261.5	260.0	93.0	143.0	105.0
Merged-chr15-78246844-4	chr15	78246727	78246927	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 1 of 9)	intron (NM_008677, intron 1 of 9)	2016.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	10.5	15.5	23.0	84.5	21.5	1.0	9.5	14.0
Merged-chr6-42693068-4	chr6	42692970	42693170	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029930)	promoter-TSS (NM_029930)	30.0	NM_029930	77574.0	Mm.24652	NM_029930	ENSMUSG00000036667	Tcaf1	2810407D09Rik|3321401G04Rik|A230020K05Rik|AI848529|Fam115a	TRPM8 channel-associated factor 1	protein-coding	33.0	57.5	43.0	608.5	41.5	19.0	25.0	24.0
Merged-chr1-180793669-4	chr1	180793564	180793764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19941.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	63.0	83.5	56.5	686.0	119.5	40.5	40.5	32.5
Merged-chr16-13671920-4	chr16	13671831	13672031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025653)	promoter-TSS (NM_025653)	73.0	NM_025653	67118.0	Mm.223689	NM_025653	ENSMUSG00000022684	Bfar	3010001A07Rik|3110001I22Rik|AI666707|AW107665|Bar|Rnf47	bifunctional apoptosis regulator	protein-coding	82.0	151.0	80.0	1280.0	246.5	74.5	112.5	74.0
Merged-chr6-128838460-4	chr6	128838369	128838569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	4.5SRNA|scRNA|scRNA	-12154.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	26.5	38.0	20.5	267.5	56.0	22.0	20.5	22.0
Merged-chr12-113017607-4	chr12	113017503	113017703	+	949.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081170, intron 1 of 23)	intron (NM_001081170, intron 1 of 23)	3095.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	10.5	37.0	21.0	355.5	45.0	18.5	20.0	16.0
Merged-chr17-5493511-4	chr17	5493371	5493571	+	972.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146073, exon 1 of 9)	exon (NM_146073, exon 1 of 9)	871.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	10.0	13.5	25.0	328.0	35.0	11.5	22.0	24.0
Merged-chr11-95293253-4	chr11	95293149	95293349	+	938.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195003, intron 5 of 14)	intron (NM_001195003, intron 5 of 14)	16997.0	NM_001195004	217127.0	Mm.90213	NM_177619	ENSMUSG00000038909	Kat7	Hbo1|Hboa|Myst2	K(lysine) acetyltransferase 7	protein-coding	26.5	28.0	16.0	384.5	46.5	22.0	18.5	27.5
Merged-chr1-165717903-4	chr1	165717800	165718000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9806.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	85.0	89.5	161.0	1670.5	132.0	51.5	76.0	41.5
Merged-chr11-84829120-4	chr11	84829017	84829217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046281)	promoter-TSS (NR_046281)	-61.0	NR_046281	74995.0	Mm.84413	NR_046281	ENSMUSG00000086799	4930502E09Rik	-	RIKEN cDNA 4930502E09 gene	ncRNA	197.5	233.5	177.0	2554.5	361.5	133.5	171.0	166.5
Merged-chr13-23895437-2	chr13	23895337	23895537	+	953.5	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_121611, exon 13 of 13)	non-coding (NR_121611, exon 13 of 13)	19570.0	NM_177016	319848.0	Mm.97959	NM_177016	ENSMUSG00000021336	Slc17a4	9130214H05Rik	solute carrier family 17 (sodium phosphate), member 4	protein-coding	6.5	7.5	6.0	112.0	14.5	4.0	9.5	3.0
Merged-chr2-163532178-3	chr2	163532069	163532269	+	789.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312906, intron 1 of 10)	intron (NM_001312906, intron 1 of 10)	9552.0	NR_027970	68314.0	Mm.46190	NM_197983	ENSMUSG00000046840	Hnf4aos	0610008F07Rik	hepatic nuclear factor 4 alpha, opposite strand	ncRNA	10.5	7.5	6.5	74.0	10.0	8.5	4.0	11.5
Merged-chr12-33148659-2	chr12	33148559	33148759	+	811.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	intron (NM_028139, intron 2 of 3)	973.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	3.5	5.0	6.5	165.0	16.0	14.0	5.5	8.0
Merged-chr16-87354339-4	chr16	87354227	87354427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159331, exon 1 of 5)	exon (NM_001159331, exon 1 of 5)	142.0	NM_026366	67768.0	Mm.296532	NM_026366	ENSMUSG00000044442	N6amt1	5830445C04Rik|Hemk2|Pred28	N-6 adenine-specific DNA methyltransferase 1 (putative)	protein-coding	149.5	170.5	218.0	1934.0	248.0	123.5	138.5	149.5
Merged-chr5-23453718-3	chr5	23453612	23453812	+	821.022217	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026984, intron 2 of 25)	B2_Mm2|SINE|B2	19283.0	NM_026984	69188.0	Mm.205190	NM_026984	ENSMUSG00000029004	Kmt2e	1810033J14Rik|9530077A04Rik|D230038D11Rik|Mll5|NKp44L	lysine (K)-specific methyltransferase 2E	protein-coding	4.0	12.0	4.0	9.5	28.5	15.5	14.5	18.0
Merged-chr9-37236095-4	chr9	37236016	37236216	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145960, intron 10 of 18)	intron (NM_001145960, intron 10 of 18)	19622.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	79.5	92.5	113.5	1789.0	23.0	15.0	6.0	12.0
Merged-chr4-145017928-3	chr4	145017819	145018019	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 66 of 69)	intron (NM_001276465, intron 66 of 69)	124782.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	13.5	12.0	23.0	582.5	13.5	1.0	9.5	5.5
Merged-chr3-61344717-4	chr3	61344607	61344807	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-19800.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	24.5	96.5	28.0	292.5	103.0	44.0	29.5	15.0
Merged-chr16-22119720-4	chr16	22119648	22119848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	intron (NM_183029, intron 2 of 15)	43551.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	55.0	104.0	56.0	1162.0	157.5	41.5	102.0	63.0
Merged-chr11-115153955-5	chr11	115153706	115153906	+	929.342834	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021411)	promoter-TSS (NM_021411)	-372.0	NM_021411	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	6.0	18.0	6.5	86.0	30.5	18.5	10.0	17.5
Merged-chr4-149793832-3	chr4	149793716	149793916	+	997.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19549.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	3.0	0.0	6.5	47.5	43.5	20.5	32.5	35.0
Merged-chr15-9128669-3	chr15	9128588	9128788	+	706.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 2 of 9)	intron (NM_013787, intron 2 of 9)	11766.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	12.5	13.0	5.0	234.0	4.5	1.5	1.0	0.5
Merged-chr6-129532730-4	chr6	129532649	129532849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020590)	promoter-TSS (NM_020590)	-443.0	NM_020590	57436.0	Mm.14638	NM_020590	ENSMUSG00000030161	Gabarapl1	3110025G09Rik|9130422N19Rik|AI196471|Apg8l|Atg8l|GECI|MNCb-0091	gamma-aminobutyric acid (GABA) A receptor-associated protein-like 1	protein-coding	54.5	56.0	29.0	484.5	67.0	32.5	29.0	28.0
Merged-chr2-155276390-4	chr2	155276312	155276512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025735)	promoter-TSS (NM_025735)	48.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	109.0	173.5	85.0	1299.5	272.5	115.0	117.5	124.5
Merged-chr7-6286436-4	chr7	6286332	6286532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024928)	promoter-TSS (NM_001024928)	-148.0	NM_001024928	384763.0	Mm.276279	NM_001024928	ENSMUSG00000054893	Zfp667	A830025F02Rik|Mip1|ZNF667	zinc finger protein 667	protein-coding	255.5	364.0	265.0	3196.5	548.0	213.0	331.0	227.5
Merged-chr2-52426851-4	chr2	52426739	52426939	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1965.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	14.5	24.5	18.0	273.5	44.5	15.5	22.0	34.0
Merged-chr9-70657262-4	chr9	70657191	70657391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172772)	promoter-TSS (NM_172772)	-117.0	NM_172772	235461.0	Mm.170855	NM_172772	ENSMUSG00000042444	Mindy2	AI465301|B230380D07Rik|Fam63b|mKIAA1164	MINDY lysine 48 deubiquitinase 2	protein-coding	193.0	388.0	194.0	2768.5	561.0	208.5	223.0	171.5
Merged-chr15-98934548-4	chr15	98934452	98934652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011654)	promoter-TSS (NM_011654)	-162.0	NM_011654	22143.0	Mm.392113	NM_011654	ENSMUSG00000023004	Tuba1b	Tuba2	tubulin, alpha 1B	protein-coding	114.0	151.0	61.5	1159.5	260.0	85.5	152.0	76.0
Merged-chr5-145115907-2	chr5	145115807	145116007	+	929.2999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	BC1_Mm|scRNA|scRNA	1651.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	4.5	18.5	7.5	34.5	13.5	4.0	3.5	9.0
Merged-chr14-120452423-4	chr14	120452327	120452527	+	848.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26034.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	17.0	25.5	16.0	163.0	28.0	8.0	11.5	10.0
Merged-chr7-142344895-3	chr7	142344791	142344991	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	L1MD|LINE|L1	27368.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	0.0	5.5	1.0	51.5	28.0	21.0	23.0	23.0
Merged-chr15-94683882-4	chr15	94683784	94683984	+	937.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178789, intron 2 of 7)	intron (NM_178789, intron 2 of 7)	54699.0	NM_178789	320709.0	Mm.74873	NM_178789	ENSMUSG00000063296	Tmem117	B930062P21Rik	transmembrane protein 117	protein-coding	8.0	14.5	4.0	190.5	37.0	22.5	14.0	16.0
Merged-chr12-111471336-4	chr12	111471223	111471423	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	14500.0	NM_001033248	212539.0	Mm.81916	NM_001033248	ENSMUSG00000010529	Gm266	-	predicted gene 266	protein-coding	58.5	148.0	40.5	232.5	133.5	60.5	36.5	17.5
Merged-chr17-28801679-4	chr17	28801585	28801785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081315, intron 1 of 12)	CpG	559.0	NM_001081315	268936.0	Mm.291877	NM_199061	ENSMUSG00000063952	Brpf3	AI413466|AW493400|mKIAA1286	bromodomain and PHD finger containing, 3	protein-coding	105.5	147.0	63.5	1025.0	234.0	81.5	115.0	84.0
Merged-chr1-153847085-4	chr1	153847000	153847200	+	833.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2959.0	NM_001243223	240816.0	Mm.329340	NM_001243223	ENSMUSG00000042641	Rgsl1	4930415K13Rik|Gm202|Rgsl2	regulator of G-protein signaling like 1	protein-coding	15.5	13.0	7.5	76.5	29.0	10.5	6.0	10.5
Merged-chr3-104818596-4	chr3	104818495	104818695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008619)	promoter-TSS (NM_008619)	-32.0	NM_001163440	17454.0	Mm.1597	NM_008619	ENSMUSG00000002227	Mov10	C77703|Mov-10	Moloney leukemia virus 10	protein-coding	29.0	32.5	33.0	557.0	74.0	16.0	28.0	27.0
Merged-chr1-166138340-4	chr1	166138247	166138447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360925, intron 1 of 5)	intron (NM_001360925, intron 1 of 5)	8126.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	95.5	148.0	98.5	1801.0	187.0	94.5	105.0	77.0
Merged-chr9-85343222-5	chr9	85343158	85343358	+	898.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16108.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	9.0	5.0	15.5	126.5	11.0	5.5	3.0	6.5
Merged-chr1-175625658-4	chr1	175625608	175625808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010209)	promoter-TSS (NM_010209)	-73.0	NM_010209	14194.0	Mm.41502	NM_010209	ENSMUSG00000026526	Fh1	Fh|Fh-1	fumarate hydratase 1	protein-coding	229.5	377.5	243.0	4475.0	533.5	196.0	278.5	202.5
Merged-chr16-90301092-4	chr16	90300986	90301186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16583.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	65.5	111.0	50.5	1151.0	152.5	56.0	60.0	58.5
Merged-chr16-17406723-4	chr16	17406652	17406852	+	746.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001983)	promoter-TSS (NM_001001983)	-438.0	NM_001001983	224020.0	Mm.5718	NM_001001983	ENSMUSG00000041720	Pi4ka	Pik4ca	phosphatidylinositol 4-kinase alpha	protein-coding	5.0	8.0	13.0	300.5	20.5	6.0	15.0	10.0
Merged-chr15-67175800-8	chr15	67175653	67175853	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 1 of 8)	intron (NM_009177, intron 1 of 8)	1129.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	5.0	5.0	11.0	68.0	3.5	5.5	1.5	1.5
Merged-chr7-88310947-1	chr7	88310847	88311047	+	700.0	f0_balb.idr	3' UTR (NM_009982, exon 7 of 7)	3' UTR (NM_009982, exon 7 of 7)	32862.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	11.5	15.5	5.5	92.5	1.0	1.0	3.5	2.0
Merged-chr7-84211647-3	chr7	84211575	84211775	+	958.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59782.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	4.5	6.0	5.0	3.5	64.5	14.0	23.0	15.0
Merged-chr6-115809076-4	chr6	115808960	115809160	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172086)	promoter-TSS (NM_172086)	-317.0	NM_172086	19951.0	Mm.104368	NM_172086	ENSMUSG00000057841	Rpl32	AU020185|rpL32-3A	ribosomal protein L32	protein-coding	23.0	23.5	23.5	323.0	44.0	16.0	21.5	22.5
Merged-chr18-30508152-4	chr18	30508039	30508239	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	235274.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	16.5	17.5	6.5	225.0	30.0	4.0	18.0	19.5
Merged-chr6-43848668-4	chr6	43848590	43848790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-182412.0	NM_001311111	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	71.5	97.5	104.0	1112.5	108.0	38.5	64.5	36.0
Merged-chr6-29279181-4	chr6	29279093	29279293	+	952.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1948.0	NM_001101486	245884.0	Mm.33683	NM_001101486	ENSMUSG00000079652	Fam71f2	AI507611|GARI	family with sequence similarity 71, member F2	protein-coding	15.5	28.5	7.0	225.0	40.5	12.0	17.5	16.5
Merged-chr6-50144862-3	chr6	50144760	50144960	+	737.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 2 of 13)	ORR1F|LTR|ERVL-MaLR	34000.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	16.0	13.5	9.5	331.0	16.0	10.5	5.5	8.5
Merged-chr6-131244688-4	chr6	131244580	131244780	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008462, intron 2 of 7)	intron (NM_008462, intron 2 of 7)	2682.0	NM_001170851	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	33.5	41.5	26.5	696.5	46.0	19.5	24.0	20.5
Merged-chr14-118137691-4	chr14	118137576	118137776	+	914.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021434, intron 1 of 8)	intron (NM_021434, intron 1 of 8)	549.0	NM_021434	58245.0	Mm.275411	NM_021434	ENSMUSG00000022131	Gpr180	AB041545|E130016I23Rik|Itr	G protein-coupled receptor 180	protein-coding	11.0	12.0	28.5	248.0	30.0	5.0	19.5	16.0
Merged-chr17-72917537-4	chr17	72917442	72917642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029999)	promoter-TSS (NM_029999)	-763.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	28.5	29.5	20.5	220.5	53.0	27.0	46.0	46.5
Merged-chr14-57357192-4	chr14	57357086	57357286	+	954.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 3 of 7)	intron (NM_030004, intron 3 of 7)	41297.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	13.0	28.5	10.0	197.0	42.5	6.5	17.5	7.0
Merged-chr17-27938542-4	chr17	27938454	27938654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	29248.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	29.5	43.5	37.5	457.5	64.5	22.5	34.5	39.0
Merged-chr7-7130897-3	chr7	7130788	7130988	+	923.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029584, exon 4 of 4)	3' UTR (NM_029584, exon 4 of 4)	5867.0	NM_029584	76373.0	Mm.159732	NM_029584	ENSMUSG00000063535	Zfp773	2810409K11Rik	zinc finger protein 773	protein-coding	10.0	12.0	14.5	97.0	19.0	6.0	3.5	7.0
Merged-chr6-22003083-4	chr6	22002994	22003194	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081351, intron 1 of 21)	intron (NM_001081351, intron 1 of 21)	17184.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	16.5	23.5	21.0	350.5	33.0	6.0	19.5	8.0
Merged-chr11-49869994-1	chr11	49869894	49870094	+	621.0	f0_c57.idr	intron (NM_016961, intron 5 of 11)	intron (NM_016961, intron 5 of 11)	23243.0	NM_016961	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	19.0	7.0	2.0	54.5	28.5	6.0	5.5	11.0
Merged-chr6-5269308-4	chr6	5269219	5269419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183308, intron 5 of 8)	intron (NM_183308, intron 5 of 8)	-13086.0	NM_173006	269823.0	Mm.9122	NM_173006	ENSMUSG00000029759	Pon3	2810004E20|AI786302	paraoxonase 3	protein-coding	48.5	107.0	57.5	898.5	132.5	50.0	50.0	57.0
Merged-chr1-161170824-4	chr1	161170704	161170904	+	943.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028664)	TTS (NM_028664)	-11490.0	NM_001195189	100502590.0	Mm.449990	NM_001195189	ENSMUSG00000049160	Tex50	4930469G21Rik	testis expressed 50	protein-coding	9.5	19.5	17.0	277.5	26.0	5.0	16.5	5.0
Merged-chr9-57433475-4	chr9	57433393	57433593	+	891.3833619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152145, intron 3 of 6)	intron (NR_152145, intron 3 of 6)	6243.0	NM_001357913	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	16.5	17.5	11.0	205.5	29.5	3.5	18.5	18.5
Merged-chr19-53421961-3	chr19	53421867	53422067	+	887.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31333.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	7.5	11.5	8.5	108.5	8.0	1.5	2.0	2.0
Merged-chr10-67114023-4	chr10	67113923	67114123	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13235.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	15.5	38.5	5.5	306.0	85.0	17.0	31.5	21.0
Merged-chr2-166665689-3	chr2	166665595	166665795	+	940.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	RMER15|LTR|ERVL	48137.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	14.0	26.0	25.0	123.0	37.0	3.5	4.5	5.0
Merged-chr14-61684376-4	chr14	61684265	61684465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1992.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	25.5	46.0	20.0	402.0	88.0	34.5	39.0	46.0
Merged-chr2-145824970-4	chr2	145824869	145825069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	38853.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	56.5	91.5	57.0	1013.5	164.5	64.5	90.5	74.5
Merged-chr17-13739050-4	chr17	13738906	13739106	+	764.737488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022311, intron 1 of 2)	intron (NM_022311, intron 1 of 2)	-21535.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	9.5	7.5	9.5	98.0	19.0	5.0	7.0	10.0
Merged-chr1-132391785-4	chr1	132391674	132391874	+	922.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178874)	promoter-TSS (NM_178874)	-388.0	NM_178874	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	16.0	30.0	16.5	411.5	30.0	7.5	15.5	13.5
Merged-chr1-39503353-4	chr1	39503251	39503451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24596.0	NM_001357521	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	59.0	149.0	101.5	943.5	156.5	47.0	40.5	36.5
Merged-chr11-54438072-4	chr11	54437971	54438171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173753)	promoter-TSS (NM_173753)	-108.0	NM_173753	216742.0	Mm.34087	NM_173753	ENSMUSG00000035992	Fnip1	A730024A03Rik|AI838773|AW557298	folliculin interacting protein 1	protein-coding	124.5	160.0	95.0	1096.5	318.5	130.0	118.0	144.0
Merged-chr18-73502138-4	chr18	73502039	73502239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-70566.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	53.5	60.5	69.0	982.5	70.0	23.5	53.0	40.0
Merged-chr13-62785807-7	chr13	62785698	62785898	+	996.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256065)	promoter-TSS (NM_001256065)	10.0	NM_001256065	380850.0	Mm.439823	NM_001256065	ENSMUSG00000091183	Gm5141	-	predicted gene 5141	protein-coding	25.5	30.0	28.0	160.0	47.0	30.0	41.5	34.5
Merged-chr9-124121520-4	chr9	124121404	124121604	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009917)	promoter-TSS (NM_009917)	-39.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	30.5	38.0	24.5	267.0	82.0	18.0	30.0	48.0
Merged-chr8-83652556-4	chr8	83652428	83652628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018771)	promoter-TSS (NM_018771)	-150.0	NM_018771	67903.0	Mm.20945	NM_018771	ENSMUSG00000019433	Gipc1	GIPC|Glut1CIP|Rgs19ip1|Semcap1|TIP-2|TaxIP2	GIPC PDZ domain containing family, member 1	protein-coding	171.5	271.0	164.0	2372.5	422.0	169.5	172.0	178.0
Merged-chr18-24470863-4	chr18	24470787	24470987	+	933.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026529)	promoter-TSS (NM_026529)	16.0	NM_026529	68046.0	Mm.276574	NM_026529	ENSMUSG00000024273	2700062C07Rik	AI195775|C87515	RIKEN cDNA 2700062C07 gene	protein-coding	11.0	29.0	21.0	143.5	29.5	12.5	15.5	19.5
Merged-chr4-115847639-4	chr4	115847586	115847786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285487, intron 2 of 14)	intron (NM_001285487, intron 2 of 14)	8488.0	NM_001355174	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	108.5	162.5	97.5	1409.0	263.0	124.5	88.5	136.0
Merged-chr19-11060119-4	chr19	11060005	11060205	+	809.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9539.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	11.0	14.5	10.0	88.5	41.5	13.5	10.5	7.0
Merged-chr2-164960791-3	chr2	164960692	164960892	+	945.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355480)	promoter-TSS (NM_001355480)	-54.0	NM_001355481	57138.0	Mm.252987	NM_020333	ENSMUSG00000017740	Slc12a5	KCC2|mKIAA1176	solute carrier family 12, member 5	protein-coding	9.0	13.5	6.0	86.0	30.5	7.0	7.0	12.5
Merged-chr8-40023644-4	chr8	40023539	40023739	+	787.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	263314.0	NM_030610	80857.0	Mm.425526	NM_030610	ENSMUSG00000031603	Fgf20	-	fibroblast growth factor 20	protein-coding	8.0	9.0	8.0	95.5	17.0	4.0	15.0	15.0
Merged-chr2-73395675-4	chr2	73395574	73395774	+	733.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-9194.0	NM_001276444	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	14.0	12.0	4.5	94.0	22.5	2.5	11.0	18.0
Merged-chr9-104814911-4	chr9	104814814	104815014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 2 of 15)	intron (NM_028719, intron 2 of 15)	-238354.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	28.5	31.5	21.0	559.5	101.0	24.0	41.0	34.0
Merged-chr10-80503734-2	chr10	80503634	80503834	+	694.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_139226, intron 1 of 1)	intron (NM_139226, intron 1 of 1)	8828.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	7.0	6.0	7.5	83.5	20.5	6.0	5.5	3.0
Merged-chr7-102016372-7	chr7	102016316	102016516	+	847.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010531, intron 4 of 6)	intron (NM_010531, intron 4 of 6)	1739.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	4.5	15.0	11.5	71.5	23.0	10.5	7.0	25.5
Merged-chr10-19570389-4	chr10	19570310	19570510	+	973.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21539.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	26.5	55.0	36.0	309.5	100.0	21.5	22.0	15.0
Merged-chr13-59656781-4	chr13	59656667	59656867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035122, intron 3 of 9)	RMER15|LTR|ERVL	19017.0	NM_001035122	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	22.0	33.5	39.0	336.5	60.5	16.0	34.5	31.0
Merged-chr8-119438354-3	chr8	119438162	119438362	+	915.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027950, intron 1 of 5)	intron (NM_027950, intron 1 of 5)	1100.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	17.0	12.0	8.5	53.0	24.5	3.5	7.0	13.5
Merged-chr10-75490930-4	chr10	75490833	75491033	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	26448.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	25.0	28.0	19.0	513.0	76.5	30.0	24.5	18.5
Merged-chr19-5663737-4	chr19	5663644	5663844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164482)	promoter-TSS (NM_001164482)	-37.0	NM_001164480	20469.0	Mm.3072	NM_011379	ENSMUSG00000056917	Sipa1	Spa1	signal-induced proliferation associated gene 1	protein-coding	81.5	110.0	61.0	788.0	183.0	53.0	83.0	57.0
Merged-chr7-79821672-4	chr7	79821578	79821778	+	951.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008486)	TTS (NM_008486)	10951.0	NM_008589	17293.0	Mm.31472	NM_008589	ENSMUSG00000030543	Mesp2	bHLHc6	mesoderm posterior 2	protein-coding	9.0	9.0	19.5	240.0	39.0	7.0	25.0	10.5
Merged-chr10-51534822-4	chr10	51534721	51534921	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	43923.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	30.5	32.5	24.0	31.5	44.5	18.0	14.0	19.0
Merged-chr2-90582486-1	chr2	90582386	90582586	+	595.0	f0_c57.idr	Intergenic	Intergenic	-1839.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	3.0	19.5	6.0	31.0	22.5	5.5	9.0	6.0
Merged-chr2-92460606-3	chr2	92460515	92460715	+	773.476196	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145832)	promoter-TSS (NM_145832)	-97.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	6.5	5.0	5.5	91.5	10.5	3.0	2.0	11.5
Merged-chr6-38714169-4	chr6	38714031	38714231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 12 of 14)	intron (NM_010433, intron 12 of 14)	51062.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	30.5	48.5	44.0	607.0	78.0	17.0	30.0	25.0
Merged-chr8-33652451-4	chr8	33652309	33652509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010344)	promoter-TSS (NM_010344)	-829.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	33.0	45.0	70.0	508.5	144.0	44.5	70.5	55.5
Merged-chr4-33031403-4	chr4	33031308	33031508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_036602)	promoter-TSS (NR_036602)	28.0	NM_001355494	56228.0	Mm.259095	NM_019586	ENSMUSG00000028277	Ube2j1	0710008M05Rik|1110030I22Rik|NCUBE-1|Ncube|Ncube1|Ubc6p	ubiquitin-conjugating enzyme E2J 1	protein-coding	188.5	284.5	195.5	3181.5	573.5	207.0	333.0	179.0
Merged-chr15-68257629-2	chr15	68257529	68257729	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 1 of 13)	intron (NR_152182, intron 1 of 13)	1227.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	6.0	5.0	7.5	142.0	22.5	5.5	14.5	4.0
Merged-chr5-5514898-4	chr5	5514813	5515013	+	942.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022890)	promoter-TSS (NM_022890)	63.0	NM_022890	64945.0	Mm.40132	NM_022890	ENSMUSG00000046798	Cldn12	-	claudin 12	protein-coding	10.0	11.5	22.5	281.0	31.5	6.0	12.5	12.0
Merged-chr8-13676589-4	chr8	13676472	13676672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	1015.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	67.0	75.0	66.0	979.0	173.5	64.5	94.5	85.5
Merged-chr9-35051082-2	chr9	35050982	35051182	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 9 of 10)	intron (NM_009178, intron 9 of 10)	-65646.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	10.5	11.0	5.0	73.0	17.5	6.5	6.5	10.5
Merged-chr13-112660683-4	chr13	112660590	112660790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178746)	promoter-TSS (NM_178746)	-76.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	124.5	145.0	101.0	2162.5	298.0	106.0	166.5	97.0
Merged-chr15-60825002-4	chr15	60824926	60825126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162926)	promoter-TSS (NM_001162926)	54.0	NM_001162926	399603.0	Mm.411968	NM_207269	ENSMUSG00000072568	Fam84b	BF642811|D330050I23Rik	family with sequence similarity 84, member B	protein-coding	67.0	89.0	57.0	772.5	99.0	52.0	51.0	43.0
Merged-chr11-21240971-3	chr11	21240866	21241066	+	767.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290628, intron 1 of 22)	intron (NM_001290628, intron 1 of 22)	1934.0	NM_001290628	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	3.0	19.5	3.5	49.0	44.5	5.0	12.5	7.5
Merged-chr6-86021113-2	chr6	86021013	86021213	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_012013)	TTS (NM_012013)	3922.0	NM_012013	26910.0	Mm.8024	NM_012013	ENSMUSG00000030001	Figla	FIGalpha|bHLHc8	folliculogenesis specific basic helix-loop-helix	protein-coding	0.0	22.0	2.0	75.5	17.5	11.0	11.0	7.0
Merged-chr3-95818193-3	chr3	95818088	95818288	+	783.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081293, intron 1 of 10)	intron (NM_001081293, intron 1 of 10)	765.0	NM_001081293	75137.0	Mm.196275	NM_028328	ENSMUSG00000028106	Rprd2	2810036A19Rik|4930535B03Rik|6720469I21Rik|AL022841|AL022940|AU021304|BB077382|mKIAA0460	regulation of nuclear pre-mRNA domain containing 2	protein-coding	3.5	7.5	13.0	114.5	12.0	5.5	6.5	14.5
Merged-chr2-127832724-4	chr2	127832621	127832821	+	764.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113179)	promoter-TSS (NM_001113179)	-862.0	NM_009772	12235.0	Mm.2185	NM_009772	ENSMUSG00000027379	Bub1	AL022991|Bub1a|C80208|D2Xrf87	BUB1, mitotic checkpoint serine/threonine kinase	protein-coding	11.0	25.0	3.0	136.0	25.5	11.5	14.0	21.5
Merged-chr7-19332977-4	chr7	19332881	19333081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12090.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	156.0	227.0	145.5	2308.0	351.0	164.0	249.5	164.5
Merged-chr1-91216635-4	chr1	91216531	91216731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016894, intron 2 of 2)	intron (NM_016894, intron 2 of 2)	-33673.0	NM_001355763	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	39.0	56.5	50.5	726.0	150.0	46.5	86.5	55.5
Merged-chr7-127011168-3	chr7	127011056	127011256	+	707.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080638, intron 1 of 14)	intron (NM_080638, intron 1 of 14)	3438.0	NM_080638	78388.0	Mm.228797	NM_080638	ENSMUSG00000030681	Mvp	2310009M24Rik|LRP|VAULT1	major vault protein	protein-coding	7.5	8.5	1.0	63.0	16.0	8.5	4.5	16.0
Merged-chr15-38655392-4	chr15	38655309	38655509	+	841.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6495.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	14.0	23.0	9.5	182.5	20.5	6.5	2.0	16.0
Merged-chr12-25089203-2	chr12	25089106	25089306	+	618.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR15|LTR|ERVK	6886.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	7.5	17.0	6.5	24.0	6.5	2.0	0.0	4.5
Merged-chr6-83659518-3	chr6	83659421	83659621	+	977.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3405.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	33.5	14.5	82.0	1640.0	19.5	8.5	12.5	14.0
Merged-chr18-60767145-7	chr18	60767040	60767240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7456.0	NM_020600	20044.0	Mm.43778	NM_020600	ENSMUSG00000024608	Rps14	2600014J02Rik|AL023078	ribosomal protein S14	protein-coding	35.5	49.5	56.0	785.5	61.0	19.0	24.0	42.0
Merged-chr10-87832274-4	chr10	87832171	87832371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25994.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	114.0	143.5	139.0	1988.0	289.5	130.0	124.0	119.5
Merged-chr10-127513008-4	chr10	127512893	127513093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1946.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	51.5	59.0	29.0	453.0	103.5	55.5	42.5	51.0
Merged-chr7-135768776-4	chr7	135768669	135768869	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52390.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	22.5	34.5	20.5	193.0	67.5	26.0	37.0	16.0
Merged-chr11-70655072-4	chr11	70654961	70655161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011072)	promoter-TSS (NM_011072)	-411.0	NM_011072	18643.0	Mm.2647	NM_011072	ENSMUSG00000018293	Pfn1	Pfn	profilin 1	protein-coding	73.0	64.5	32.5	525.5	206.5	60.0	65.0	53.0
Merged-chr12-85483304-4	chr12	85483196	85483396	+	945.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9406.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	30.0	27.0	12.0	196.0	31.0	13.5	14.0	10.0
Merged-chr5-93264840-4	chr5	93264779	93264979	+	919.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2694.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	16.0	55.0	13.0	123.0	82.0	20.0	13.0	13.5
Merged-chr11-106414360-3	chr11	106414270	106414470	+	918.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023913, exon 11 of 22)	exon (NM_023913, exon 11 of 22)	-31589.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	8.0	5.0	8.5	100.5	22.5	10.0	8.0	13.5
Merged-chr1-172306369-4	chr1	172306261	172306461	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6006.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	9.5	16.0	6.0	223.5	19.5	3.5	8.5	5.5
Merged-chr1-57868880-3	chr1	57868808	57869008	+	692.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164566, intron 2 of 11)	intron (NM_001164566, intron 2 of 11)	23337.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	5.5	9.5	5.0	115.5	0.0	1.0	3.5	1.5
Merged-chr11-83302690-4	chr11	83302556	83302756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001035854)	promoter-TSS (NM_001035854)	-41.0	NM_027915	71770.0	Mm.39053	NM_027915	ENSMUSG00000035152	Ap2b1	1300012O03Rik|AI788979|AP105B	adaptor-related protein complex 2, beta 1 subunit	protein-coding	53.0	109.5	40.5	405.0	154.0	51.5	58.0	44.0
Merged-chr1-33900327-4	chr1	33900241	33900441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	intron (NM_177235, intron 1 of 6)	7280.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	101.0	206.0	69.0	1358.0	239.5	94.0	77.0	73.0
Merged-chr5-43360516-3	chr5	43360430	43360630	+	848.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125176.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	4.5	10.5	8.5	218.0	17.0	10.0	10.0	8.0
Merged-chr17-13685837-4	chr17	13685741	13685941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74700.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	92.0	82.0	72.5	1328.5	215.0	80.5	107.0	98.0
Merged-chr7-102513224-4	chr7	102513102	102513302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18429.0	NM_146840	258837.0	Mm.377714	NM_146840	ENSMUSG00000044824	Olfr545	MOR42-1|S50	olfactory receptor 545	protein-coding	30.5	60.5	42.0	742.5	82.5	24.0	47.5	39.0
Merged-chr12-79298061-4	chr12	79297950	79298150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252562, intron 1 of 7)	intron (NM_001252562, intron 1 of 7)	699.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	27.5	37.5	33.5	555.5	40.0	20.5	22.0	25.0
Merged-chr7-121289195-1	chr7	121289095	121289295	+	592.666687	f0_balb.idr	Intergenic	Intergenic	-103101.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	7.5	11.0	5.5	79.5	11.0	6.5	3.0	2.5
Merged-chr6-88306549-3	chr6	88306443	88306643	+	814.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149744, intron 3 of 5)	intron (NR_149744, intron 3 of 5)	84275.0	NM_019964	56691.0	Mm.272871	NM_019964	ENSMUSG00000048206	Dnajb8	1700016F14Rik|1700031F10Rik|AI326313|mDj6	DnaJ heat shock protein family (Hsp40) member B8	protein-coding	4.5	6.0	8.0	90.5	12.0	1.0	6.5	7.5
Merged-chr8-126594660-4	chr8	126594556	126594756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-14677	-1220.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	288.5	395.0	261.0	4152.0	645.0	277.0	367.0	310.0
Merged-chr4-41349003-4	chr4	41348923	41349123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290454)	promoter-TSS (NM_001290454)	27.0	NM_023305	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	93.5	137.0	83.0	1072.0	264.0	105.5	107.0	117.5
Merged-chr4-143190828-2	chr4	143190728	143190928	+	744.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001256380, intron 2 of 7)	intron (NM_001256380, intron 2 of 7)	21881.0	NM_001081355	110593.0	Mm.332020	NM_001081355	ENSMUSG00000057637	Prdm2	4833427P12Rik|E330024L24Rik|Gm1033|Gm19732|KMT8|Riz|Riz1|Znfpr1c1	PR domain containing 2, with ZNF domain	protein-coding	1.0	5.0	4.5	57.0	17.0	4.5	7.5	6.5
Merged-chr10-62486927-4	chr10	62486819	62487019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133672)	promoter-TSS (NM_133672)	-114.0	NM_001358543	30930.0	Mm.260703	NM_133672	ENSMUSG00000020078	Vps26a	AA407240|HB58|Vps26	VPS26 retromer complex component A	protein-coding	148.0	280.0	99.0	1397.5	459.5	194.0	181.5	132.5
Merged-chr8-123859374-6	chr8	123859190	123859390	+	967.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028536, exon 2 of 4)	exon (NM_028536, exon 2 of 4)	919.0	NM_028536	73420.0	Mm.157746	NM_028536	ENSMUSG00000031971	Ccsap	1700054N08Rik|AI853424	centriole, cilia and spindle associated protein	protein-coding	23.0	32.0	44.0	442.5	40.5	25.5	36.0	30.5
Merged-chr3-9500121-2	chr3	9500021	9500221	+	730.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 2 of 8)	MIR3|SINE|MIR	97043.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	7.5	5.5	5.0	127.5	12.5	1.0	2.5	7.0
Merged-chr2-49745169-3	chr2	49745067	49745267	+	755.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 21 of 25)	intron (NM_008449, intron 21 of 25)	-42519.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	6.5	4.0	6.5	82.0	23.0	7.5	6.0	9.5
Merged-chr18-52768495-6	chr18	52768437	52768637	+	860.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199154, intron 1 of 10)	CpG	393.0	NM_001199154	67847.0	Mm.292168	NM_026408	ENSMUSG00000024534	Sncaip	2810407O15Rik|4933427B05Rik|BB104594|SYPH1	synuclein, alpha interacting protein (synphilin)	protein-coding	5.0	8.5	10.5	102.5	14.5	4.5	4.5	7.5
Merged-chr15-76537887-3	chr15	76537793	76537993	+	790.899963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013909, intron 2 of 8)	intron (NM_013909, intron 2 of 8)	853.0	NM_013909	30840.0	Mm.275279	NM_013909	ENSMUSG00000022559	Fbxl6	AU021795|Fbl6	F-box and leucine-rich repeat protein 6	protein-coding	1.0	10.0	7.0	93.0	13.0	6.5	7.0	9.5
Merged-chr12-32953977-4	chr12	32953895	32954095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_044986)	promoter-TSS (NR_044986)	50.0	NM_013635	19027.0	Mm.246304	NM_013635	ENSMUSG00000020570	Sypl	AI314763|AI604763|D12Ertd446e|PanI|Pphn|Sypl1	synaptophysin-like protein	protein-coding	280.0	429.5	290.5	4392.0	681.5	315.0	384.0	313.5
Merged-chr3-116613961-4	chr3	116613867	116614067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289571, exon 7 of 16)	exon (NM_001289571, exon 7 of 16)	620.0	NM_030016	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	37.5	43.5	51.5	830.5	51.0	31.5	39.5	25.5
Merged-chr15-81399713-4	chr15	81399616	81399816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347075)	promoter-TSS (NM_001347075)	-22.0	NM_133726	70356.0	Mm.180337	NM_133726	ENSMUSG00000022403	St13	1110007I03Rik|3110002K08Rik|AW555194|HIP|HOP|HSPABP|HSPABP1|PRO0786|SNC6|p48	suppression of tumorigenicity 13	protein-coding	91.5	136.5	62.0	879.0	214.0	86.5	95.0	65.0
Merged-chr8-84739524-1	chr8	84739424	84739624	+	857.0	f0_balb.idr	intron (NM_001081982, intron 2 of 9)	intron (NM_001081982, intron 2 of 9)	34845.0	NM_001081981	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	5.0	4.5	11.5	129.5	9.5	0.5	4.5	0.5
Merged-chr7-75699997-4	chr7	75699871	75700071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 16 of 36)	intron (NM_029332, intron 16 of 36)	-148367.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	35.5	36.0	39.0	638.0	62.0	22.0	23.5	23.5
Merged-chr7-90216122-4	chr7	90216015	90216215	+	943.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49317.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	12.0	14.0	14.0	355.0	9.5	6.0	20.5	13.5
Merged-chr11-60698988-3	chr11	60698882	60699082	+	891.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159405)	promoter-TSS (NM_001159405)	-708.0	NM_001159405	16897.0	Mm.285453	NM_008502	ENSMUSG00000020536	Llgl1	AI325176|Lgl1|Llglh|Mgl1	LLGL1 scribble cell polarity complex component	protein-coding	11.5	5.0	5.0	86.0	6.0	13.0	9.5	4.5
Merged-chr11-61029653-2	chr11	61029553	61029753	+	826.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001267593, intron 1 of 1)	intron (NM_001267593, intron 1 of 1)	7089.0	NM_001267593	16515.0	Mm.4970	NM_010603	ENSMUSG00000042529	Kcnj12	IRK-2|IRK2|Kir2.2|MB-IRK2	potassium inwardly-rectifying channel, subfamily J, member 12	protein-coding	11.5	8.0	4.5	72.0	15.0	4.5	11.5	10.5
Merged-chr1-105094814-2	chr1	105094714	105094914	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-261193.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	1.0	6.0	2.0	14.0	12.0	8.5	6.0	5.0
Merged-chr3-5860674-4	chr3	5860582	5860782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-284434.0	NM_008994	19302.0	Mm.132336	NM_008994	ENSMUSG00000040374	Pex2	D3Ertd138e|PAF-1|PMP35|Pxmp3	peroxisomal biogenesis factor 2	protein-coding	255.5	334.0	276.5	2090.5	482.0	199.5	234.5	527.5
Merged-chr15-6260500-4	chr15	6260396	6260596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39293.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	104.0	146.5	124.0	1806.5	154.0	44.5	75.5	74.5
Merged-chr2-130906473-4	chr2	130906364	130906564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009730)	promoter-TSS (NM_009730)	-31.0	NM_009730	11990.0	Mm.119936	NM_009730	ENSMUSG00000027312	Atrn	AW558010|Mgca|mg	attractin	protein-coding	93.5	133.5	88.0	1525.0	252.5	76.0	100.5	86.0
Merged-chr6-86503692-4	chr6	86503590	86503790	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15463.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	14.5	18.5	15.0	185.5	38.5	8.0	16.0	18.0
Merged-chr13-98874399-4	chr13	98874297	98874497	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 6 of 23)	intron (NM_178716, intron 6 of 23)	16645.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	57.0	55.5	38.5	699.5	85.5	35.5	42.5	22.5
Merged-chr3-32400111-4	chr3	32399974	32400174	+	925.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34409.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	7.0	30.5	11.0	241.5	38.0	10.0	15.0	13.5
Merged-chr13-37056911-4	chr13	37056799	37056999	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6655.0	NM_001166391	74145.0	Mm.235105	NM_028784	ENSMUSG00000039109	F13a1	1200014I03Rik|AI462306|F13a	coagulation factor XIII, A1 subunit	protein-coding	33.5	34.5	23.0	581.0	36.5	11.5	20.5	15.5
Merged-chr5-103691712-4	chr5	103691607	103691807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35975.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	38.0	45.5	34.5	804.0	167.5	56.5	65.5	69.0
Merged-chr8-36094191-2	chr8	36094094	36094294	+	926.0	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172911)	promoter-TSS (NM_172911)	-634.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	16.5	7.0	6.0	89.0	15.5	3.0	3.5	10.5
Merged-chr13-56168049-3	chr13	56167945	56168145	+	850.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10840.0	NM_145976	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	7.0	5.5	10.5	96.0	18.5	8.5	6.0	9.5
Merged-chr16-52060535-4	chr16	52060420	52060620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	28971.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	297.0	513.5	320.5	4746.0	858.0	277.5	347.0	272.0
Merged-chr14-21194526-4	chr14	21194422	21194622	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 4 of 10)	MER76|LTR|ERVL	118370.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	39.0	30.5	38.5	833.0	54.0	15.0	35.5	10.5
Merged-chr5-31202360-4	chr5	31202228	31202428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175311)	promoter-TSS (NM_175311)	-25.0	NM_175311	101023.0	Mm.45033	NM_175311	ENSMUSG00000043059	Zfp513	AW990386|D430028M17Rik|Znf513	zinc finger protein 513	protein-coding	180.0	292.0	188.0	2310.5	498.0	227.5	252.0	198.5
Merged-chr6-97343148-4	chr6	97343059	97343259	+	871.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 8 of 23)	intron (NM_145148, intron 8 of 23)	-90379.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	22.0	9.5	8.0	189.0	7.5	5.0	12.5	13.5
Merged-chr19-12796772-4	chr19	12796667	12796867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024093)	promoter-TSS (NR_024093)	574.0	NM_001361971	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	79.5	153.0	75.5	1143.0	156.0	95.0	81.0	74.5
Merged-chr3-79287311-4	chr3	79287201	79287401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-58075.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	244.5	264.0	180.5	3525.5	470.5	137.0	253.5	166.5
Merged-chr5-135196551-4	chr5	135196460	135196660	+	988.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011714, exon 2 of 19)	exon (NM_011714, exon 2 of 19)	9237.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	17.0	42.0	19.0	348.0	75.0	18.0	34.0	20.5
Merged-chr5-43293318-4	chr5	43293208	43293408	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57954.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	13.5	11.0	13.0	259.5	39.5	18.0	6.5	23.5
Merged-chr16-38713441-3	chr16	38713295	38713495	+	682.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020260)	promoter-TSS (NM_020260)	-360.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	11.5	12.5	5.5	116.0	27.5	14.0	20.0	13.0
Merged-chr7-79149032-2	chr7	79148944	79149144	+	913.2000119999999	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_008594)	promoter-TSS (NM_008594)	16.0	NM_001045489	17304.0	Mm.1451	NM_008594	ENSMUSG00000030605	Mfge8	AA408458|AI325141|MFG-E8|MP47|Mfgm|P47|SED1|lactadherin	milk fat globule-EGF factor 8 protein	protein-coding	15.0	11.5	18.5	189.0	4.5	4.5	13.0	3.0
Merged-chr19-40728919-4	chr19	40728811	40729011	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 7 of 9)	intron (NM_001304721, intron 7 of 9)	69141.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	15.0	26.5	30.5	564.5	37.0	24.0	26.0	16.5
Merged-chr5-43855976-4	chr5	43855863	43856063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12846.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	94.5	91.5	225.0	2392.5	242.5	59.5	101.0	86.5
Merged-chr3-132084337-3	chr3	132084218	132084418	+	848.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020265)	promoter-TSS (NM_020265)	-974.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	9.0	15.0	23.0	293.5	16.5	3.5	7.5	14.5
Merged-chr11-106920157-2	chr11	106920057	106920257	+	991.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025481, intron 1 of 18)	CpG	558.0	NM_025481	66313.0	Mm.340955	NM_025481	ENSMUSG00000018363	Smurf2	2810411E22Rik|AI558114|AI649275	SMAD specific E3 ubiquitin protein ligase 2	protein-coding	6.5	14.5	5.0	78.5	14.0	3.5	6.5	7.5
Merged-chr13-95957411-4	chr13	95957319	95957519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65497.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	178.5	197.5	195.5	2475.5	389.5	114.0	195.0	175.0
Merged-chr17-17866760-4	chr17	17866655	17866855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus4|LINE|L1	-11567.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	68.5	132.5	61.5	386.0	272.0	92.5	91.0	36.0
Merged-chr4-130790375-4	chr4	130790260	130790460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2177.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	44.5	80.5	44.5	673.5	105.5	48.0	45.5	34.0
Merged-chr15-81934172-4	chr15	81934072	81934272	+	924.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2587.0	NM_145473	105859.0	Mm.22524	NM_145473	ENSMUSG00000042109	Csdc2	AI415250|AI481750|Pippin	cold shock domain containing C2, RNA binding	protein-coding	22.0	11.0	11.0	396.0	28.5	17.5	7.5	29.0
Merged-chr17-83705804-4	chr17	83705685	83705885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171053)	promoter-TSS (NM_001171053)	-378.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	54.5	18.5	30.5	542.0	76.0	26.5	43.5	42.0
Merged-chr4-122886063-4	chr4	122885990	122886190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358036)	promoter-TSS (NM_001358036)	-14.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	228.0	354.5	199.0	2658.0	670.5	308.0	280.0	288.5
Merged-chr15-88733332-4	chr15	88733234	88733434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033274, intron 1 of 12)	intron (NM_001033274, intron 1 of 12)	885.0	NM_001033274	223770.0	Mm.254438	NM_001033274	ENSMUSG00000022387	Brd1	1110059H06Rik|AI316859|mKIAA4191	bromodomain containing 1	protein-coding	17.5	46.5	26.5	239.0	53.5	15.0	24.5	23.0
Merged-chr2-25451376-4	chr2	25451259	25451459	+	989.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5484.0	NM_027085	69454.0	Mm.44194	NM_027085	ENSMUSG00000015093	Clic3	2300003G24Rik	chloride intracellular channel 3	protein-coding	19.0	71.5	4.5	49.5	53.0	23.0	16.0	5.5
Merged-chr10-96163495-4	chr10	96163390	96163590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62717.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	29.5	61.0	31.5	535.5	73.5	33.5	53.0	55.5
Merged-chr8-36952396-7	chr8	36952267	36952467	+	911.214294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001194940)	promoter-TSS (NM_001194940)	75.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	20.0	20.5	22.0	325.0	30.0	8.0	6.0	15.5
Merged-chr13-25020337-4	chr13	25020245	25020445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013389)	promoter-TSS (NM_001013389)	-28.0	NM_001013389	380836.0	Mm.387097	NM_001013389	ENSMUSG00000021339	Mrs2	Gm902|HPT|Mrs2l|RPT	MRS2 magnesium transporter	protein-coding	118.5	137.5	71.0	1886.5	202.0	86.5	129.0	99.0
Merged-chr18-75924934-3	chr18	75924845	75925045	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	intron (NM_145356, intron 2 of 4)	104767.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	0.0	2.0	2.0	21.5	119.0	35.5	35.0	39.0
Merged-chr6-116108168-4	chr6	116108051	116108251	+	814.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	85223.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	12.5	35.0	12.0	221.0	31.0	7.5	3.5	14.5
Merged-chr9-106887234-4	chr9	106887146	106887346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175402)	promoter-TSS (NM_175402)	-246.0	NM_175402	109095.0	Mm.431589	NM_175402	ENSMUSG00000074102	Rbm15b	1810017N16Rik	RNA binding motif protein 15B	protein-coding	207.5	333.5	141.5	2502.0	487.5	201.0	214.0	174.5
Merged-chr1-126817847-4	chr1	126817750	126817950	+	860.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176957, intron 1 of 12)	intron (NM_176957, intron 1 of 12)	12782.0	NM_176957	210356.0	Mm.377234	NM_172484	ENSMUSG00000049690	Nckap5	8430408F21|D130011D22Rik|E030049G20Rik|Erih1|Erih2|Gm1548|Nap5	NCK-associated protein 5	protein-coding	14.5	27.5	9.5	185.0	75.5	34.0	32.0	23.0
Merged-chr12-99641534-4	chr12	99641427	99641627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13553.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	53.0	44.5	26.0	644.0	108.0	64.5	63.5	57.5
Merged-chr9-66624528-1	chr9	66624428	66624628	+	578.0	f0_balb.idr	Intergenic	Intergenic	-31413.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	4.0	9.0	5.0	85.0	23.0	11.5	6.5	7.5
Merged-chr4-129035276-4	chr4	129035185	129035385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-22986.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	61.0	100.5	35.0	516.0	134.5	50.5	52.0	40.0
Merged-chr4-66842360-4	chr4	66842249	66842449	+	904.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021297, exon 3 of 3)	3' UTR (NM_021297, exon 3 of 3)	14798.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	25.5	31.0	29.0	443.5	57.5	22.0	13.0	21.0
Merged-chr5-99414502-4	chr5	99414388	99414588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-161561.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	61.5	123.0	81.0	1198.0	115.5	38.5	45.5	66.0
Merged-chr13-104139770-4	chr13	104139661	104139861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361054, exon 11 of 11)	exon (NM_001361054, exon 11 of 11)	30020.0	NM_144838	218544.0	Mm.44416	NM_144838	ENSMUSG00000042743	Sgtb	C630001O05Rik	small glutamine-rich tetratricopeptide repeat (TPR)-containing, beta	protein-coding	31.0	35.5	43.5	512.0	96.0	27.5	39.5	28.0
Merged-chr8-10172493-4	chr8	10172370	10172570	+	940.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001319151, intron 1 of 34)	intron (NM_001319151, intron 1 of 34)	18559.0	NM_001319151	244281.0	Mm.422761	NM_001081397	ENSMUSG00000039057	Myo16	BM140241|C230040D10Rik|Gm1105|NYAP3|mKIAA0865	myosin XVI	protein-coding	10.5	22.0	7.0	179.5	44.0	18.5	13.0	19.0
Merged-chr8-46740572-4	chr8	46740501	46740701	+	885.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	CpG	856.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	12.0	8.5	17.0	65.5	26.5	15.5	9.0	17.5
Merged-chr9-110985784-3	chr9	110985690	110985890	+	813.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153100, exon 3 of 3)	3' UTR (NM_153100, exon 3 of 3)	-3709.0	NR_152179	791282.0	Mm.406769	NR_152179	ENSMUSG00000057802	Gm10030	-	predicted gene 10030	ncRNA	9.5	7.5	16.0	125.5	23.0	4.5	1.0	1.5
Merged-chr1-37308187-4	chr1	37308089	37308289	+	807.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	8351.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	2.5	8.0	0.5	118.0	36.0	12.0	10.5	7.5
Merged-chr2-33918971-4	chr2	33918872	33919072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31026.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	124.5	110.0	95.5	1213.0	246.5	99.0	132.5	90.5
Merged-chr16-30067023-4	chr16	30066944	30067144	+	980.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008235, exon 4 of 4)	exon (NM_008235, exon 4 of 4)	1687.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	12.5	50.5	28.5	433.5	71.5	15.5	12.0	18.0
Merged-chr4-133599910-4	chr4	133599854	133600054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_018754)	TTS (NM_018754)	2214.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	73.0	99.0	63.0	952.5	212.0	55.5	92.5	41.0
Merged-chr8-71297004-4	chr8	71296910	71297110	+	961.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	intron (NM_001142322, intron 2 of 39)	24296.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	38.5	27.0	16.5	551.0	57.5	15.0	13.0	18.5
Merged-chr4-124703965-7	chr4	124703942	124704142	+	849.5618900000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010213, intron 1 of 5)	(TG)n|Simple_repeat|Simple_repeat	3343.0	NM_010213	14201.0	Mm.331856	NM_010213	ENSMUSG00000032643	Fhl3	SLIM2	four and a half LIM domains 3	protein-coding	6.0	5.5	6.5	90.0	31.0	11.5	5.0	21.0
Merged-chr1-120533117-2	chr1	120533023	120533223	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28099.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	4.5	12.0	5.0	120.5	36.0	4.5	15.5	8.5
Merged-chr17-5429576-4	chr17	5429466	5429666	+	991.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027457, intron 3 of 3)	intron (NM_027457, intron 3 of 3)	10694.0	NM_027457	70544.0	Mm.46654	NM_027457	ENSMUSG00000004945	Tmem242	1110008A10Rik|2310046K16Rik|5730437N04Rik	transmembrane protein 242	protein-coding	26.0	37.5	16.5	231.0	53.0	17.5	21.0	22.0
Merged-chr5-103732785-4	chr5	103732625	103732825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21437.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	26.5	61.0	28.5	333.0	88.0	43.5	55.5	41.5
Merged-chr10-59323267-4	chr10	59323156	59323356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316371)	promoter-TSS (NM_001316371)	-40.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	254.5	448.5	284.5	3091.0	601.0	214.0	299.0	275.0
Merged-chr12-28732770-4	chr12	28732685	28732885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161410, intron 3 of 11)	intron (NM_001161410, intron 3 of 11)	17609.0	NM_001161410	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	57.0	136.0	71.0	1047.0	171.0	57.0	64.5	45.5
Merged-chr12-91590995-4	chr12	91590903	91591103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175335)	promoter-TSS (NM_175335)	-516.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	70.5	82.0	64.5	978.0	166.5	63.0	73.5	60.0
Merged-chr11-53492213-4	chr11	53492118	53492318	+	932.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12023.0	NM_183173	237761.0	Mm.145208	NM_183173	ENSMUSG00000044352	Sowaha	A830006N08Rik|Ankrd43	sosondowah ankyrin repeat domain family member A	protein-coding	23.0	45.5	21.5	434.0	26.5	15.5	10.0	12.5
Merged-chr14-8173151-4	chr14	8173073	8173273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024221)	promoter-TSS (NM_024221)	-181.0	NM_024221	68263.0	Mm.301527	NM_024221	ENSMUSG00000021748	Pdhb	2610103L06Rik|AL024199|C81408	pyruvate dehydrogenase (lipoamide) beta	protein-coding	476.5	782.5	606.0	8579.0	1230.5	476.5	599.0	517.5
Merged-chr7-131554016-3	chr7	131553927	131554127	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145998)	promoter-TSS (NM_145998)	-35.0	NM_145998	15372.0	Mm.303357	NM_145998	ENSMUSG00000050100	Hmx2	Nkx-5.2|Nkx5-2	H6 homeobox 2	protein-coding	11.0	14.5	10.0	98.0	29.5	5.5	10.0	5.0
Merged-chr18-38186055-4	chr18	38185965	38186165	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	23697.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	4.0	14.5	11.5	114.5	35.0	23.0	27.0	20.5
Merged-chr3-137938688-3	chr3	137938557	137938757	+	895.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 6 of 8)	intron (NM_011932, intron 6 of 8)	20102.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	11.5	12.0	5.0	98.5	15.5	2.5	7.0	7.5
Merged-chr19-4135709-3	chr19	4135635	4135835	+	753.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_144532, exon 6 of 6)	3' UTR (NM_144532, exon 6 of 6)	3874.0	NM_144532	73660.0	Mm.379226	NM_144532	ENSMUSG00000024842	Cabp4	2410038D05Rik	calcium binding protein 4	protein-coding	3.0	14.5	5.0	28.5	30.5	18.5	15.0	6.5
Merged-chr4-136311374-2	chr4	136311274	136311474	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355182)	promoter-TSS (NM_001355182)	-224.0	NM_001355182	74326.0	Mm.31051	NM_028871	ENSMUSG00000066037	Hnrnpr	2610003J05Rik|2610528B01Rik|Hnrpr	heterogeneous nuclear ribonucleoprotein R	protein-coding	8.5	8.0	10.5	118.5	22.0	7.0	8.0	16.0
Merged-chr3-95995607-2	chr3	95995507	95995707	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_023320, exon 2 of 6)	exon (NM_023320, exon 2 of 6)	232.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	9.0	3.5	5.0	83.5	15.0	7.0	7.0	13.0
Merged-chr5-21035883-4	chr5	21035784	21035984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356590)	promoter-TSS (NM_001356590)	-637.0	NM_001356590	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	107.0	121.5	91.5	1446.0	186.0	69.0	96.0	64.0
Merged-chr7-117470648-4	chr7	117470553	117470753	+	987.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 1 of 11)	intron (NM_175645, intron 1 of 11)	89674.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	46.0	42.0	41.0	540.5	57.0	19.0	16.5	30.5
Merged-chr5-138756052-4	chr5	138755868	138756068	+	644.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030565, exon 1 of 10)	exon (NM_030565, exon 1 of 10)	887.0	NM_001359593	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	8.0	7.5	13.0	61.0	15.0	4.5	4.0	11.5
Merged-chr18-34759442-6	chr18	34759292	34759492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357456)	promoter-TSS (NM_001357456)	65.0	NM_001357457	66306.0	Mm.29424	NM_175104	ENSMUSG00000034300	Fam53c	2810012G03Rik|Gm21179	family with sequence similarity 53, member C	protein-coding	23.5	49.5	41.5	317.0	89.0	35.5	25.0	49.0
Merged-chr9-100446219-4	chr9	100446133	100446333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40240.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	43.0	64.0	59.0	502.0	67.5	24.0	38.0	24.0
Merged-chr9-94538509-5	chr9	94538442	94538642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033145)	promoter-TSS (NM_001033145)	-461.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	213.0	300.0	297.5	3517.5	417.0	196.5	242.0	222.0
Merged-chr5-105500443-3	chr5	105500355	105500555	+	928.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19016.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	18.0	11.5	17.5	217.5	2.0	2.0	6.5	3.5
Merged-chr16-15637483-4	chr16	15637391	15637591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011159)	promoter-TSS (NM_011159)	-91.0	NM_008565	17217.0	Mm.1500	NM_008565	ENSMUSG00000022673	Mcm4	19G|AI325074|AU045576|Cdc21|Mcmd4|mKIAA4003|mcdc21	minichromosome maintenance complex component 4	protein-coding	266.5	447.0	288.5	4012.5	958.5	297.5	361.0	264.0
Merged-chr5-16553927-1	chr5	16553827	16554027	+	902.8333130000001	f0_balb.idr	promoter-TSS (NM_001289461)	promoter-TSS (NM_001289461)	26.0	NM_001289461	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	14.0	14.0	19.0	175.5	11.0	10.5	12.5	8.5
Merged-chr17-28429013-4	chr17	28428908	28429108	+	844.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 4 of 10)	intron (NM_010220, intron 4 of 10)	57141.0	NM_010220	14229.0	Mm.276405	NM_010220	ENSMUSG00000024222	Fkbp5	D17Ertd592e|Dit1|FKBP-5|FKBP51	FK506 binding protein 5	protein-coding	4.5	17.0	10.0	270.5	26.0	4.5	11.0	7.5
Merged-chr15-39783591-2	chr15	39783491	39783691	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164466, intron 9 of 9)	intron (NM_001164466, intron 9 of 9)	-13454.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	9.0	11.5	7.5	96.0	4.5	3.5	6.5	3.5
Merged-chr11-87122090-4	chr11	87121985	87122185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025377, exon 4 of 4)	3' UTR (NM_025377, exon 4 of 4)	-4990.0	NM_197987	68729.0	Mm.17436	NM_197987	ENSMUSG00000018548	Trim37	1110032A10Rik|2810004E07Rik|AI848587|AU043018|MUL|TEF3|mKIAA0898	tripartite motif-containing 37	protein-coding	31.0	71.5	29.5	651.5	108.0	37.5	38.0	43.5
Merged-chr9-78194091-4	chr9	78194006	78194206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010357, intron 1 of 6)	B2_Mm2|SINE|B2	2140.0	NM_010357	14860.0	Mm.2662	NM_010357	ENSMUSG00000032348	Gsta4	GST5.7|mGsta4	glutathione S-transferase, alpha 4	protein-coding	18.5	37.5	19.5	290.0	52.5	24.5	25.5	23.0
Merged-chr3-89280141-1	chr3	89280041	89280241	+	704.0	f0_balb.idr	promoter-TSS (NM_010107)	promoter-TSS (NM_010107)	-496.0	NM_010107	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	9.5	6.5	4.5	84.5	12.0	1.5	4.0	13.0
Merged-chr11-110563512-2	chr11	110563410	110563610	+	764.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	84170.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	6.0	1.5	7.0	186.0	29.0	5.0	8.5	8.0
Merged-chr13-115090679-3	chr13	115090575	115090775	+	869.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134058)	promoter-TSS (NM_134058)	-517.0	NM_134058	105083.0	Mm.486295	NM_134058	ENSMUSG00000042275	Pelo	AA409897|AI852218	pelota mRNA surveillance and ribosome rescue factor	protein-coding	7.0	24.5	17.5	188.5	34.0	11.0	7.0	17.0
Merged-chr11-96935233-4	chr11	96935150	96935350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146026, exon 3 of 3)	3' UTR (NM_146026, exon 3 of 3)	5926.0	NM_146026	217138.0	Mm.342551	NM_146026	ENSMUSG00000047040	Prr15l	Atad4|BC022765|E230006A12Rik	proline rich 15-like	protein-coding	38.5	37.0	28.5	447.0	115.0	30.5	40.5	39.0
Merged-chr2-129129707-4	chr2	129129635	129129835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025395)	promoter-TSS (NM_025395)	35.0	NM_025395	66170.0	Mm.40621	NM_025395	ENSMUSG00000037938	Chchd5	1110027L01Rik|AW045710	coiled-coil-helix-coiled-coil-helix domain containing 5	protein-coding	116.5	178.5	107.0	1636.5	264.0	81.0	122.5	98.5
Merged-chr11-117706422-4	chr11	117706333	117706533	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 3 of 21)	L1ME1|LINE|L1	52144.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	31.5	44.5	21.0	237.5	56.0	15.0	14.5	21.0
Merged-chr19-45790774-4	chr19	45790678	45790878	+	971.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7225.0	NM_023799	76055.0	Mm.122725	NM_023799	ENSMUSG00000025220	Mgea5	Hy5|Ncoat|OGA	meningioma expressed antigen 5 (hyaluronidase)	protein-coding	26.0	39.0	7.0	226.0	65.5	32.0	35.0	26.0
Merged-chr8-47917230-1	chr8	47917130	47917330	+	699.0	f0_balb.idr	intron (NM_133791, intron 2 of 22)	intron (NM_133791, intron 2 of 22)	73321.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	7.5	10.5	11.0	120.5	1.0	1.0	3.0	5.0
Merged-chr4-107315175-1	chr4	107315075	107315275	+	759.5	f0_c57.idr	intron (NM_001205156, intron 1 of 8)	L1MEc|LINE|L1	812.0	NM_001205156	230584.0	Mm.29118	NM_145550	ENSMUSG00000057375	Yipf1	C030002N13Rik	Yip1 domain family, member 1	protein-coding	0.0	3.5	5.5	20.5	28.5	9.0	7.0	19.0
Merged-chr3-87930216-4	chr3	87930121	87930321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177663)	promoter-TSS (NM_177663)	-26.0	NM_153562	229503.0	Mm.296008	NM_153562	ENSMUSG00000004896	Rrnad1	-	ribosomal RNA adenine dimethylase domain containing 1	protein-coding	103.0	157.0	85.0	1159.0	272.5	115.0	101.5	84.0
Merged-chr1-105781859-3	chr1	105781724	105781924	+	892.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	1101.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	7.0	10.0	11.0	79.5	12.0	1.0	4.0	3.0
Merged-chr6-65042713-4	chr6	65042591	65042791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355250)	promoter-TSS (NM_001355250)	100.0	NM_001355249	13990.0	Mm.99113	NM_007958	ENSMUSG00000029920	Smarcad1	AV081750|AW226546|D6Pas1|Etl1|etl-1|mKIAA1122	SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1	protein-coding	66.0	102.5	116.0	1074.0	177.0	69.0	79.0	81.5
Merged-chr3-109451633-4	chr3	109451529	109451729	+	963.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	110946.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	39.0	38.0	34.0	721.5	48.0	15.5	26.0	10.5
Merged-chr8-81015007-4	chr8	81014908	81015108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027554)	promoter-TSS (NM_027554)	-102.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	252.0	401.0	276.0	2784.5	589.0	247.0	227.0	210.5
Merged-chr15-96475603-4	chr15	96475520	96475720	+	932.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14777.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	17.0	27.5	27.5	258.0	16.0	10.5	15.5	20.5
Merged-chr10-30771293-3	chr10	30771171	30771371	+	613.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	intron (NM_001358842, intron 2 of 14)	32055.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	10.5	5.0	6.5	80.0	18.0	7.5	6.5	9.5
Merged-chr4-137389168-4	chr4	137389066	137389266	+	892.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20625.0	NM_001126318	242711.0	Mm.475541	NM_001126318	ENSMUSG00000078520	Cela3a	Gm13011	chymotrypsin-like elastase family, member 3A	protein-coding	9.0	24.5	11.5	220.5	27.0	9.5	7.0	13.0
Merged-chr13-3538668-4	chr13	3538512	3538712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	intron (NM_008112, intron 1 of 10)	537.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	45.0	35.5	56.5	537.0	73.5	31.0	34.0	50.5
Merged-chr12-35406270-4	chr12	35406174	35406374	+	941.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	128715.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	10.0	25.5	24.5	576.5	24.5	13.0	30.5	21.5
Merged-chr3-127762073-4	chr3	127761982	127762182	+	828.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	18445.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	9.0	13.5	7.5	130.0	21.5	3.5	4.0	10.5
Merged-chr10-44070828-4	chr10	44070722	44070922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65976.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	25.5	42.0	16.0	364.0	114.0	34.5	42.0	37.0
Merged-chr1-23419160-3	chr1	23419045	23419245	+	820.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35970.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	11.5	11.0	12.0	271.5	15.5	11.5	8.5	6.5
Merged-chr3-101288214-1	chr3	101288114	101288314	+	637.0	f0_balb.idr	promoter-TSS (NM_013486)	promoter-TSS (NM_013486)	-275.0	NM_013486	12481.0	Mm.22842	NM_013486	ENSMUSG00000027863	Cd2	LFA-2|Ly-37|Ly37	CD2 antigen	protein-coding	7.5	8.5	7.5	102.0	6.5	1.0	1.0	3.0
Merged-chr3-100431898-4	chr3	100431801	100432001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040543, intron 2 of 2)	intron (NR_040543, intron 2 of 2)	5496.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	42.5	49.5	30.0	848.0	128.5	54.0	64.5	49.0
Merged-chr11-8787820-4	chr11	8787717	8787917	+	964.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123282.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	25.0	26.5	14.5	417.5	50.5	11.0	11.0	21.0
Merged-chr1-20829894-2	chr1	20829794	20829994	+	786.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9582.0	NM_008563	17215.0	Mm.4502	NM_008563	ENSMUSG00000041859	Mcm3	AL033361|C80350|Mcmd|P1|P1-MCM3|p1.m	minichromosome maintenance complex component 3	protein-coding	5.5	3.0	9.0	74.5	6.5	4.5	5.0	6.0
Merged-chr13-20039833-3	chr13	20039735	20039935	+	817.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50672.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	12.0	21.0	11.0	205.5	11.5	9.5	4.0	3.0
Merged-chr4-11006856-4	chr4	11006704	11006904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175175, intron 1 of 1)	intron (NM_175175, intron 1 of 1)	815.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	25.5	22.0	42.0	498.0	58.0	12.5	17.5	29.5
Merged-chr5-64804185-4	chr5	64804095	64804295	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	CpG	672.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	17.0	23.5	24.0	225.0	42.5	12.5	13.0	24.0
Merged-chr9-114329954-4	chr9	114329838	114330038	+	786.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007535)	promoter-TSS (NM_007535)	-197.0	NM_007535	12046.0	Mm.378887	NM_007535	ENSMUSG00000053820	Bcl2a1c	A1-c	B cell leukemia/lymphoma 2 related protein A1c	protein-coding	13.5	32.0	31.0	228.5	15.0	9.0	11.0	13.0
Merged-chr1-182563424-2	chr1	182563324	182563524	+	637.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-1583.0	NM_001145806	170725.0	Mm.189201	NM_130890	ENSMUSG00000038599	Capn8	nCL-2|nCL-2'	calpain 8	protein-coding	8.5	6.5	5.5	36.0	2.0	1.5	0.5	7.0
Merged-chr16-4375254-3	chr16	4375085	4375285	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009624, intron 2 of 10)	intron (NM_009624, intron 2 of 10)	45313.0	NM_001291910	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	15.0	10.5	22.0	281.0	8.0	2.0	0.5	3.0
Merged-chr5-30135311-3	chr5	30135208	30135408	+	956.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178878, intron 7 of 19)	MTC|LTR|ERVL-MaLR	19672.0	NM_178878	97212.0	Mm.200497	NM_178878	ENSMUSG00000025745	Hadha	C77020|Mtpa	hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), alpha subunit	protein-coding	19.0	10.0	18.0	264.0	36.5	4.0	3.5	7.5
Merged-chr9-75071369-5	chr9	75071266	75071466	+	882.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010864, exon 1 of 41)	5' UTR (NM_010864, exon 1 of 41)	160.0	NM_010864	17918.0	Mm.3645	NM_010864	ENSMUSG00000034593	Myo5a	9630007J19Rik|AI413174|AI661011|Dbv|MVa|Myo5|MyoVA|Sev-1|d|d-120J|flail|flr	myosin VA	protein-coding	12.5	12.0	10.5	139.0	25.5	5.5	9.0	11.5
Merged-chr16-33535143-3	chr16	33535039	33535239	+	698.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 2 of 11)	intron (NM_001083902, intron 2 of 11)	16544.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	9.0	7.0	11.0	236.0	6.0	3.0	9.0	2.0
Merged-chr9-100642863-3	chr9	100642766	100642966	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357264)	promoter-TSS (NM_001357264)	-582.0	NM_009282	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	28.0	35.0	14.5	341.5	84.0	20.5	32.5	27.0
Merged-chr9-114639514-4	chr9	114639418	114639618	+	977.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153585, intron 1 of 19)	intron (NM_153585, intron 1 of 19)	682.0	NM_153585	78893.0	Mm.283708	NM_153585	ENSMUSG00000056167	Cnot10	2600001P13Rik	CCR4-NOT transcription complex, subunit 10	protein-coding	17.0	35.5	14.5	214.0	80.5	17.0	22.0	44.0
Merged-chr3-81051739-4	chr3	81051633	81051833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	15317.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	224.0	295.5	253.0	3733.0	515.0	198.0	256.5	203.5
Merged-chr9-122122316-4	chr9	122122203	122122403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357776, intron 1 of 5)	intron (NM_001357776, intron 1 of 5)	4844.0	NM_001357776	20623.0	Mm.257989	NM_133741	ENSMUSG00000038145	Snrk	2010012F07Rik|AI448042|AW547029|E030034B15|R74830|mKIAA0096	SNF related kinase	protein-coding	41.0	43.5	34.5	718.5	77.5	25.0	38.0	36.5
Merged-chr17-67353622-4	chr17	67353572	67353772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	CpG	787.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	21.0	48.5	23.5	272.0	74.5	25.0	16.5	38.5
Merged-chr14-64870265-2	chr14	64870165	64870365	+	886.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 4 of 9)	Lx5c|LINE|L1	79592.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	12.0	11.0	6.5	53.0	17.5	6.0	2.5	10.5
Merged-chr18-44387339-4	chr18	44387311	44387511	+	909.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 1 of 10)	intron (NM_027490, intron 1 of 10)	6911.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	8.5	8.0	7.5	86.0	20.0	4.5	2.5	9.5
Merged-chr5-101753827-4	chr5	101753709	101753909	+	829.779175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-11321.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	13.0	19.5	11.5	84.5	30.5	8.0	14.0	13.0
Merged-chr3-116483485-3	chr3	116483392	116483592	+	819.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24683.0	NM_025517	66368.0	Mm.251228	NM_025517	ENSMUSG00000000339	Rtca	2310009A18Rik|AI450277|RPC|Rtcd1	RNA 3'-terminal phosphate cyclase	protein-coding	13.5	8.5	11.0	255.0	18.0	8.5	13.0	13.5
Merged-chr11-6547183-3	chr11	6547096	6547296	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190343, intron 1 of 8)	CpG	309.0	NM_001190343	216527.0	Mm.221271	NM_146014	ENSMUSG00000000378	Ccm2	BC029157	cerebral cavernous malformation 2	protein-coding	35.0	52.0	25.0	477.5	75.5	42.5	33.0	26.0
Merged-chr6-72096959-1	chr6	72096859	72097059	+	855.0	f0_balb.idr	promoter-TSS (NM_011375)	promoter-TSS (NM_011375)	-649.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	6.5	11.5	8.5	109.0	16.0	6.5	8.0	13.0
Merged-chr11-59208304-4	chr11	59208215	59208415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024210)	promoter-TSS (NM_024210)	-46.0	NM_024210	67862.0	Mm.358708	NM_024210	ENSMUSG00000020441	2310033P09Rik	Mmtag2	RIKEN cDNA 2310033P09 gene	protein-coding	95.0	116.0	83.0	960.0	300.0	125.5	108.5	140.0
Merged-chr11-119942947-4	chr11	119942843	119943043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130862)	promoter-TSS (NM_130862)	-149.0	NM_001037754	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	173.0	251.5	134.5	2141.0	485.0	172.5	185.5	160.0
Merged-chr5-122911390-2	chr5	122911255	122911455	+	930.25	f0_balb.idr|f1_balb.idr	intron (NM_001003953, intron 12 of 22)	intron (NM_001003953, intron 12 of 22)	-11005.0	NM_013910	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	10.5	18.0	7.5	146.5	5.0	0.0	0.0	4.5
Merged-chr9-70761223-4	chr9	70761124	70761324	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007399, intron 9 of 15)	intron (NM_007399, intron 9 of 15)	82242.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	23.5	22.5	29.5	331.5	53.5	23.5	24.0	13.0
Merged-chr11-83058096-3	chr11	83057995	83058195	+	861.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7017.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	10.0	12.0	10.5	116.5	23.5	8.0	11.5	12.5
Merged-chr13-9354018-4	chr13	9353916	9354116	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	77491.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	13.5	21.5	7.0	242.0	15.0	19.5	6.0	15.5
Merged-chr14-76467137-4	chr14	76467028	76467228	+	901.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207652, intron 1 of 2)	intron (NM_207652, intron 1 of 2)	-21308.0	NM_001177751	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	18.5	22.0	15.0	391.5	37.5	10.0	29.0	21.0
Merged-chr18-54981214-2	chr18	54981114	54981314	+	879.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	8966.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	9.0	10.0	9.5	47.0	6.5	4.0	9.5	6.0
Merged-chr17-35915755-4	chr17	35915653	35915853	+	837.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361455, intron 1 of 5)	intron (NM_001361455, intron 1 of 5)	687.0	NM_001361455	66973.0	Mm.29484	NM_025878	ENSMUSG00000024436	Mrps18b	2400002C15Rik|MRP-S18-2|S18mt-b	mitochondrial ribosomal protein S18B	protein-coding	5.5	13.5	12.0	61.0	36.0	11.0	10.5	11.5
Merged-chr1-60804208-3	chr1	60804046	60804246	+	835.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	57758.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	4.5	12.5	6.5	100.0	6.0	0.5	2.5	2.0
Merged-chr19-43667278-4	chr19	43667170	43667370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145156, intron 1 of 3)	intron (NM_145156, intron 1 of 3)	7611.0	NM_145156	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	89.5	104.0	61.0	1171.5	158.0	76.0	76.0	57.5
Merged-chr1-40266067-1	chr1	40265967	40266167	+	745.0	f0_balb.idr	promoter-TSS (NM_001123382)	promoter-TSS (NM_001123382)	-519.0	NM_001123382	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	8.5	5.5	5.0	120.5	5.5	1.0	0.0	11.0
Merged-chr9-60985445-2	chr9	60985345	60985545	+	936.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31624.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	2.0	0.0	1.0	23.0	13.5	4.5	5.5	7.5
Merged-chr10-26564633-3	chr10	26564529	26564729	+	762.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110022.0	NR_033633	667572.0	Mm.482728	NR_033633	ENSMUSG00000098179	Gm8709	EG667572	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	3.0	4.0	9.5	41.0	28.5	9.5	13.0	10.5
Merged-chr13-30633267-4	chr13	30633164	30633364	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18221.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	20.0	12.0	16.0	223.0	40.5	16.5	11.0	15.5
Merged-chr2-25022286-4	chr2	25022193	25022393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146251, intron 20 of 34)	intron (NM_146251, intron 20 of 34)	-32086.0	NM_001177654	56876.0	Mm.42956	NM_020276	ENSMUSG00000006476	Nsmf	Jacob|Nelf	NMDA receptor synaptonuclear signaling and neuronal migration factor	protein-coding	26.0	39.0	29.5	547.5	99.5	28.5	50.5	47.5
Merged-chr2-59187564-4	chr2	59187465	59187665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	MIRb|SINE|MIR	26715.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	39.5	36.0	24.5	355.0	62.0	24.5	12.0	24.0
Merged-chr1-171171319-3	chr1	171171177	171171377	+	863.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15759.0	NM_001315500	17528.0	Mm.9986	NM_008623	ENSMUSG00000056569	Mpz	Mpp|P-zero|P0	myelin protein zero	protein-coding	1.0	2.0	3.0	8.5	48.5	15.0	19.0	23.5
Merged-chr7-81204759-4	chr7	81204738	81204938	+	686.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8966.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	4.0	10.5	3.5	69.0	10.0	5.0	8.5	7.0
Merged-chr13-95848110-3	chr13	95848013	95848213	+	935.511108	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	Lx8|LINE|L1	43809.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	4.0	0.0	5.0	74.0	71.5	18.5	20.0	19.5
Merged-chr11-11742914-4	chr11	11742817	11743017	+	736.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301865, intron 3 of 6)	Tigger16a|DNA|TcMar-Tigger	52740.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	9.0	10.0	6.0	96.0	14.0	5.5	11.0	15.5
Merged-chr4-155774595-4	chr4	155774512	155774712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147776)	promoter-TSS (NM_147776)	-51.0	NM_147776	246228.0	Mm.26515	NM_147776	ENSMUSG00000042116	Vwa1	4932416A11Rik|WARP	von Willebrand factor A domain containing 1	protein-coding	27.0	35.0	16.0	502.5	84.0	28.5	35.5	25.0
Merged-chr7-143474927-4	chr7	143474801	143475001	+	913.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042760)	promoter-TSS (NM_001042760)	-215.0	NM_001042760	18400.0	Mm.271740	NM_008767	ENSMUSG00000000154	Slc22a18	AW260131|BWR1A|BWSCR1A|HET|ITM|Impt1|Orctl2|Slc22a1l|TSSC5|p45-BWR1A	solute carrier family 22 (organic cation transporter), member 18	protein-coding	14.5	20.5	23.0	272.5	18.5	7.0	5.5	13.0
Merged-chr11-82570871-4	chr11	82570779	82570979	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62474.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	21.0	39.5	28.5	371.0	81.5	15.0	18.0	23.5
Merged-chr5-30871955-4	chr5	30871834	30872034	+	972.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144525, intron 4 of 16)	intron (NM_144525, intron 4 of 16)	2355.0	NM_144525	68796.0	Mm.205169	NM_144525	ENSMUSG00000038828	Tmem214	1110039B18Rik|4921530J21Rik|AI841294|AU018742|C76280	transmembrane protein 214	protein-coding	18.5	26.5	12.0	249.0	71.0	14.5	17.0	25.0
Merged-chr12-98261276-3	chr12	98261163	98261363	+	827.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1804.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	8.0	5.5	6.0	92.0	13.5	6.5	5.0	5.5
Merged-chr4-43499656-4	chr4	43499556	43499756	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013377, exon 4 of 12)	5' UTR (NM_001013377, exon 4 of 12)	6291.0	NM_001037913	622404.0	Mm.289109	NM_001037913	ENSMUSG00000028461	Ccdc107	-	coiled-coil domain containing 107	protein-coding	19.5	28.5	18.5	283.0	41.5	19.5	24.0	21.5
Merged-chr12-9570161-3	chr12	9570126	9570326	+	606.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045488, exon 2 of 4)	non-coding (NR_045488, exon 2 of 4)	359.0	NR_045488	69420.0	Mm.396193	NR_045488	ENSMUSG00000099360	1700022H16Rik	-	RIKEN cDNA 1700022H16 gene	ncRNA	4.5	7.0	4.5	79.0	4.5	4.0	2.0	4.0
Merged-chr15-8994498-4	chr15	8994391	8994591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198024, intron 1 of 13)	(A)n|Simple_repeat|Simple_repeat	26542.0	NM_198024	223332.0	Mm.321371	NM_198024	ENSMUSG00000048424	Ranbp3l	C130037N17Rik	RAN binding protein 3-like	protein-coding	16.5	26.5	22.0	499.0	87.5	17.5	20.0	21.0
Merged-chr2-124622207-4	chr2	124622091	124622291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	MTE2a|LTR|ERVL-MaLR	11895.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	164.5	249.5	240.5	3022.5	390.5	113.0	169.5	199.0
Merged-chr12-69177189-2	chr12	69177089	69177289	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081406, intron 3 of 3)	B2_Mm1a|SINE|B2	6878.0	NM_025589	66483.0	Mm.379115	NM_025589	ENSMUSG00000049751	Rpl36al	2410038A03Rik|RPL36A	ribosomal protein L36A-like	protein-coding	15.0	13.0	11.0	44.0	18.0	5.5	7.0	6.0
Merged-chr15-62060153-4	chr15	62060050	62060250	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	20893.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	26.5	22.0	48.5	833.5	74.0	36.0	34.0	41.5
Merged-chr13-34864608-4	chr13	34864515	34864715	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10879.0	NM_013830	19134.0	Mm.10027	NM_013830	ENSMUSG00000021413	Prpf4b	2610037H07|Prp4|Prp4k|Prpk|cbp143	pre-mRNA processing factor 4B	protein-coding	0.0	16.0	4.5	195.5	21.5	12.5	9.5	10.5
Merged-chr1-43916233-3	chr1	43916138	43916338	+	627.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-17756.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	2.5	10.5	10.5	80.0	15.0	6.5	7.0	6.0
Merged-chr13-60601884-4	chr13	60601785	60601985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285917)	promoter-TSS (NM_001285917)	-62.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	87.0	95.5	74.5	1079.0	186.0	44.0	77.5	78.0
Merged-chr6-65596694-4	chr6	65596597	65596797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001495, intron 3 of 7)	intron (NM_001001495, intron 3 of 7)	6299.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	24.0	53.0	45.0	369.5	98.5	39.5	29.0	32.0
Merged-chr1-138248274-4	chr1	138248180	138248380	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25458.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	44.5	31.5	24.5	382.0	64.0	18.5	27.5	24.5
Merged-chr4-99484404-4	chr4	99484301	99484501	+	675.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-171898.0	NM_010425	15221.0	Mm.4758	NM_010425	ENSMUSG00000067261	Foxd3	CWH3|Genesis|Hfh2	forkhead box D3	protein-coding	3.0	9.0	6.5	141.0	20.0	5.5	15.0	10.5
Merged-chr6-16964113-4	chr6	16964035	16964235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65694.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	57.0	72.5	66.5	1237.0	118.5	30.5	46.5	47.0
Merged-chr10-79883443-4	chr10	79883345	79883545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011178)	TTS (NM_011178)	-2867.0	NM_015779	50701.0	Mm.262194	NM_015779	ENSMUSG00000020125	Elane	Ela2|F430011M15Rik|NE	elastase, neutrophil expressed	protein-coding	25.0	26.0	20.5	472.5	68.5	24.5	34.0	28.5
Merged-chr6-54948808-4	chr6	54948684	54948884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 2 of 11)	intron (NM_001171007, intron 2 of 11)	22877.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	98.0	133.0	101.0	1360.0	257.5	103.5	79.0	70.5
Merged-chr14-78536968-4	chr14	78536881	78537081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164503)	promoter-TSS (NM_001164503)	-121.0	NM_001164503	219181.0	Mm.89413	NM_001164503	ENSMUSG00000022016	Akap11	6330501D17Rik|AKAP220|Gm80|PRKA11|mKIAA0629	A kinase (PRKA) anchor protein 11	protein-coding	152.5	231.0	144.5	2082.0	431.5	157.5	175.0	129.5
Merged-chr5-121597530-4	chr5	121597435	121597635	+	933.7958369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178799)	TTS (NM_178799)	-3711.0	NM_001308450	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	14.5	25.5	5.5	339.5	46.0	19.5	16.0	25.0
Merged-chr10-8888379-4	chr10	8888278	8888478	+	949.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2308.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	12.0	34.0	16.5	212.5	45.5	19.0	14.0	15.5
Merged-chr1-54896804-4	chr1	54896812	54897012	+	923.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	29475.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	17.0	7.5	10.5	140.0	14.0	4.5	5.5	14.0
Merged-chr14-25301788-3	chr14	25301724	25301924	+	748.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157361.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	5.0	6.5	4.5	104.5	1.5	1.0	3.0	4.0
Merged-chr13-119453799-1	chr13	119453699	119453899	+	654.0	f0_balb.idr	intron (NM_145457, intron 9 of 10)	intron (NM_145457, intron 9 of 10)	-8960.0	NR_153825	67392.0	Mm.390641	NM_026127	ENSMUSG00000062822	4833420G17Rik	2210017J06Rik|5730533D17Rik|AW107518|C85193	RIKEN cDNA 4833420G17 gene	protein-coding	8.0	14.0	15.0	114.5	16.0	9.5	7.0	2.5
Merged-chr10-119240161-4	chr10	119240064	119240264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027994)	promoter-TSS (NM_027994)	-109.0	NM_027994	71902.0	Mm.203965	NM_027994	ENSMUSG00000020114	Cand1	2310038O07Rik|6330512O03Rik|AI195005|AI846556|D10Ertd516e|Tp120a|mKIAA0829	cullin associated and neddylation disassociated 1	protein-coding	288.5	425.5	272.0	4174.5	828.0	318.5	324.5	288.0
Merged-chr4-84884927-4	chr4	84884798	84884998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175275, intron 1 of 25)	CpG	589.0	NM_177385	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	40.0	24.5	42.0	469.5	54.0	27.0	23.5	27.0
Merged-chr16-27376757-4	chr16	27376654	27376854	+	946.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6515.0	NM_198166	224065.0	Mm.326918	NM_198166	ENSMUSG00000056423	Uts2b	Gm538|U2B|Urp|Uts2d	urotensin 2B	protein-coding	18.5	27.0	7.5	266.0	52.0	10.5	19.5	12.0
Merged-chr14-48590615-1	chr14	48590515	48590715	+	635.0	f0_balb.idr	Intergenic	Intergenic	72119.0	NM_001360226	18424.0	Mm.134516	NM_144841	ENSMUSG00000021848	Otx2	E130306E05Rik	orthodenticle homeobox 2	protein-coding	5.0	5.5	7.0	138.5	0.0	0.0	0.0	1.0
Merged-chr7-46831447-4	chr7	46831368	46831568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14336.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	51.0	50.0	36.5	700.0	109.0	58.5	58.0	55.0
Merged-chr2-150914364-3	chr2	150914286	150914486	+	881.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 2 of 6)	intron (NM_027014, intron 2 of 6)	4792.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	4.0	5.5	3.0	67.5	18.5	7.0	6.0	14.5
Merged-chr13-92354880-8	chr13	92354762	92354962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010049)	promoter-TSS (NM_010049)	79.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	139.5	204.0	268.5	2269.5	250.0	152.0	117.5	133.5
Merged-chr12-117736180-4	chr12	117736073	117736273	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 22 of 27)	RLTR42-int|LTR|ERVK	-107688.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	15.0	44.5	14.0	303.5	69.0	22.0	22.5	27.0
Merged-chr17-67431016-4	chr17	67430928	67431128	+	979.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76537.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	23.5	39.0	22.0	390.0	44.0	16.5	17.5	10.0
Merged-chr15-83134916-4	chr15	83134804	83135004	+	968.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 3 of 7)	intron (NM_001347082, intron 3 of 7)	-12103.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	16.0	20.0	32.5	549.5	37.5	17.0	40.0	28.0
Merged-chr11-82100417-4	chr11	82100322	82100522	+	964.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1423.0	NM_011331	20293.0	Mm.867	NM_011331	ENSMUSG00000035352	Ccl12	MCP-5|Scya12	chemokine (C-C motif) ligand 12	protein-coding	12.5	41.5	29.5	324.0	57.5	20.0	26.5	14.5
Merged-chr16-35986531-4	chr16	35986431	35986631	+	919.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008465, intron 1 of 13)	intron (NM_008465, intron 1 of 13)	3168.0	NM_008465	16646.0	Mm.3991	NM_008465	ENSMUSG00000022905	Kpna1	AW494490|IPOA5|NPI1|Rch2|mSRP1	karyopherin (importin) alpha 1	protein-coding	16.0	23.0	36.5	369.5	25.5	5.5	14.5	16.0
Merged-chr3-96221526-4	chr3	96221432	96221632	+	993.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175662)	promoter-TSS (NM_175662)	460.0	NM_178214	319190.0	Mm.439791	NM_178214	ENSMUSG00000068854	Hist2h2be	AV127319|H2b-613|T25626	histone cluster 2, H2be	protein-coding	12.0	23.0	8.5	157.0	54.5	25.5	19.5	20.0
Merged-chr12-95749307-3	chr12	95749213	95749413	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	57087.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	24.5	9.0	19.0	300.0	26.0	16.0	8.0	5.5
Merged-chr10-128303304-4	chr10	128303198	128303398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252327)	promoter-TSS (NM_001252327)	-37.0	NM_133992	103135.0	Mm.244183	NM_133992	ENSMUSG00000005682	Pan2	1200014O24Rik|AI047843|AW742773|Usp52|mKIAA0710	PAN2 poly(A) specific ribonuclease subunit	protein-coding	113.5	260.5	68.0	1300.5	376.0	111.5	125.0	103.5
Merged-chr5-101864159-4	chr5	101864062	101864262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 50 of 66)	intron (NM_172882, intron 50 of 66)	99032.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	24.0	33.5	18.5	478.0	60.0	25.0	48.0	25.0
Merged-chr19-53579093-3	chr19	53578993	53579193	+	857.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21303.0	NM_007790	13006.0	Mm.14910	NM_007790	ENSMUSG00000024974	Smc3	Bamacan|Cspg6|HCAP|Mmip1|SMC-3|SmcD	structural maintenance of chromosomes 3	protein-coding	11.5	13.0	6.5	79.5	22.5	7.5	8.5	7.5
Merged-chr5-147918509-4	chr5	147918414	147918614	+	824.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23699.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	13.5	14.5	2.5	126.0	34.0	16.0	15.0	9.5
Merged-chr6-32319317-3	chr6	32319237	32319437	+	961.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-191804.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	6.0	15.5	13.5	277.0	6.0	1.5	8.0	9.0
Merged-chr8-117157905-4	chr8	117157803	117158003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081151)	promoter-TSS (NM_001081151)	-232.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	183.0	202.0	150.5	2367.5	386.0	138.0	191.0	162.5
Merged-chr16-38902319-4	chr16	38902241	38902441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170599)	promoter-TSS (NM_170599)	-4.0	NM_170599	207683.0	Mm.245564	NM_170599	ENSMUSG00000022790	Igsf11	1700025L02Rik|BT-IgSF|Igsf13	immunoglobulin superfamily, member 11	protein-coding	71.5	99.0	117.5	1171.0	146.5	62.5	84.5	63.5
Merged-chr1-173961649-4	chr1	173961598	173961798	+	987.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011940)	TTS (NM_011940)	-19026.0	NM_001302650	15950.0	Mm.463437	NM_008328	ENSMUSG00000039997	Ifi203	Ifi203a|Ifi203b|Mndal	interferon activated gene 203	protein-coding	187.0	170.5	111.0	2410.0	40.5	12.5	28.5	21.0
Merged-chr12-38767357-4	chr12	38767266	38767466	+	949.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11C_MM|LTR|ERVK	-12716.0	NM_001347379	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	14.0	47.5	37.5	420.0	60.5	16.0	19.0	17.5
Merged-chr9-63794293-1	chr9	63794193	63794393	+	676.0	f0_balb.idr	Intergenic	Intergenic	-36299.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	5.5	6.0	8.0	131.0	5.5	0.0	2.0	0.5
Merged-chr1-184731827-3	chr1	184731685	184731885	+	931.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008250, exon 1 of 4)	exon (NM_008250, exon 1 of 4)	708.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	3.5	26.5	10.0	73.5	19.0	14.5	13.0	14.5
Merged-chr18-15665222-3	chr18	15665109	15665309	+	785.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199055, intron 1 of 3)	intron (NM_199055, intron 1 of 3)	52837.0	NM_199055	71367.0	Mm.329304	NM_199055	ENSMUSG00000047161	Chst9	5430438D01Rik	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9	protein-coding	8.5	9.0	11.0	88.0	2.5	6.0	1.5	7.0
Merged-chr9-62510722-4	chr9	62510622	62510822	+	937.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175484, intron 1 of 11)	intron (NM_175484, intron 1 of 11)	26322.0	NM_175484	235431.0	Mm.335229	NM_175484	ENSMUSG00000041729	Coro2b	CLIPINC|E130012P22Rik	coronin, actin binding protein, 2B	protein-coding	22.0	28.0	11.0	497.5	44.0	11.5	14.5	7.0
Merged-chr6-37867066-4	chr6	37866951	37867151	+	854.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3760.0	NM_001272064	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	5.5	11.0	10.5	161.0	18.0	4.0	23.5	14.0
Merged-chr18-3337588-8	chr18	3337511	3337711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110852)	promoter-TSS (NM_001110852)	-22.0	NM_001110852	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	234.5	328.0	270.0	3439.5	442.0	228.5	185.5	184.5
Merged-chr11-11785742-4	chr11	11785638	11785838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23224.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	53.5	52.5	57.0	742.5	63.0	27.0	37.0	25.5
Merged-chr11-97997546-4	chr11	97997445	97997645	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1372.0	NR_152188	217151.0	Mm.277896	NM_207231	ENSMUSG00000038352	Arl5c	Arl12|BC065791	ADP-ribosylation factor-like 5C	protein-coding	31.5	60.0	32.0	187.5	91.0	37.5	12.5	24.5
Merged-chr2-80079789-4	chr2	80079666	80079866	+	952.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	-40864.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	15.5	17.0	28.0	588.0	41.5	11.5	17.5	17.0
Merged-chr9-96525294-4	chr9	96525203	96525403	+	875.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46628.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	10.5	11.0	9.5	95.5	27.0	15.0	19.0	22.0
Merged-chr1-60566859-4	chr1	60566760	60566960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045513)	promoter-TSS (NM_001045513)	-95.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	109.0	193.5	97.5	1872.5	198.5	88.0	128.0	74.5
Merged-chr10-19044070-4	chr10	19043984	19044184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	-28674.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	114.5	186.5	97.5	1781.0	226.0	80.5	125.5	74.5
Merged-chr13-3634070-4	chr13	3633991	3634191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267724)	promoter-TSS (NM_001267724)	59.0	NM_001267724	142688.0	Mm.253061	NM_178283	ENSMUSG00000033781	Asb13	2210015B19Rik|6430573K02Rik|Asb-13|C85285	ankyrin repeat and SOCS box-containing 13	protein-coding	93.0	124.0	102.5	1808.0	219.0	56.5	114.5	68.5
Merged-chr1-191122954-4	chr1	191122909	191123109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24595.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	66.0	79.0	70.5	943.0	150.5	68.0	83.0	78.0
Merged-chr2-50813953-4	chr2	50813847	50814047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95737.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	19.5	28.5	30.5	633.0	70.0	16.5	43.5	36.0
Merged-chr5-136186934-4	chr5	136186836	136187036	+	860.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025774, intron 5 of 5)	intron (NM_025774, intron 5 of 5)	12018.0	NM_025774	66801.0	Mm.425295	NM_025774	ENSMUSG00000039737	Prkrip1	8430424D23Rik|C114	Prkr interacting protein 1 (IL11 inducible)	protein-coding	13.0	17.5	11.0	54.0	27.0	5.5	10.0	3.0
Merged-chr6-128135220-4	chr6	128135100	128135300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	8378.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	62.0	120.5	99.5	1370.5	230.0	52.5	120.5	95.0
Merged-chr3-9001627-7	chr3	9001580	9001780	+	946.1904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	2524.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	8.0	7.0	6.0	104.0	14.5	10.0	17.0	20.0
Merged-chr7-104398648-4	chr7	104398549	104398749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40003.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	49.0	49.5	33.5	472.0	130.5	36.5	53.5	51.5
Merged-chr2-181675648-4	chr2	181675552	181675752	+	897.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4012.0	NM_009236	20672.0	Mm.264904	NM_009236	ENSMUSG00000046470	Sox18	AI385749|Ra|Ragl	SRY (sex determining region Y)-box 18	protein-coding	20.5	28.0	6.0	208.0	20.0	12.5	13.5	13.0
Merged-chr4-63568124-4	chr4	63568037	63568237	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144905, intron 4 of 9)	MIRb|SINE|MIR	7910.0	NM_144905	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	12.0	12.5	20.0	332.5	38.0	6.5	12.5	5.5
Merged-chr6-29773248-3	chr6	29773152	29773352	+	692.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	intron (NM_001171000, intron 1 of 16)	4809.0	NM_001171000	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	9.0	8.0	9.0	136.5	21.5	5.5	5.5	10.0
Merged-chr8-69088639-4	chr8	69088528	69088728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007509)	promoter-TSS (NM_007509)	-108.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	139.0	187.0	123.0	1595.5	409.0	175.5	155.5	177.0
Merged-chr6-124931357-4	chr6	124931264	124931464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170341)	promoter-TSS (NM_001170341)	-24.0	NM_145385	30853.0	Mm.29737	NM_145385	ENSMUSG00000030120	Mlf2	AI256856|AU018944|C77284	myeloid leukemia factor 2	protein-coding	193.5	243.0	182.5	2022.0	475.0	164.5	208.0	186.0
Merged-chr10-19014235-10	chr10	19014061	19014261	+	956.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009397, intron 1 of 8)	(CAAAA)n|Simple_repeat|Simple_repeat	1249.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	30.5	71.0	20.0	211.0	57.5	15.5	19.0	15.5
Merged-chr12-111669385-4	chr12	111669340	111669540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021273)	TTS (NM_021273)	2898.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	48.5	65.0	35.0	430.5	115.0	52.5	48.5	56.0
Merged-chr3-130796691-4	chr3	130796592	130796792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66294.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	24.0	50.5	39.0	732.5	72.5	33.5	37.5	45.0
Merged-chr3-121694111-4	chr3	121694011	121694211	+	911.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23348.0	NM_001033814	619318.0	Mm.371258	NM_001033814	ENSMUSG00000074248	4930432M17Rik	-	RIKEN cDNA 4930432M17 gene	protein-coding	10.0	29.5	16.0	223.5	30.0	12.0	12.5	15.5
Merged-chr8-56551538-4	chr8	56551445	56551645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001009951)	promoter-TSS (NM_001009951)	411.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	154.5	164.5	122.0	3137.5	369.0	117.5	196.5	139.5
Merged-chr9-49484929-3	chr9	49484880	49485080	+	792.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172770, intron 1 of 21)	intron (NM_172770, intron 1 of 21)	1245.0	NM_172770	235330.0	Mm.177413	NM_172770	ENSMUSG00000040219	Ttc12	E330017O07Rik	tetratricopeptide repeat domain 12	protein-coding	15.5	16.5	27.0	340.5	0.5	0.0	0.5	1.5
Merged-chr10-62491623-4	chr10	62491532	62491732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4827.0	NM_001358543	30930.0	Mm.260703	NM_133672	ENSMUSG00000020078	Vps26a	AA407240|HB58|Vps26	VPS26 retromer complex component A	protein-coding	32.5	83.0	25.5	413.0	120.0	30.5	56.5	57.5
Merged-chr15-53328240-3	chr15	53328150	53328350	+	778.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	17933.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	13.5	10.5	6.5	295.5	12.0	3.5	4.5	9.0
Merged-chr2-46371930-2	chr2	46371828	46372028	+	615.166626	f0_balb.idr|f0_c57.idr	Intergenic	L1M3c|LINE|L1	675323.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	8.5	11.0	7.0	107.0	31.0	3.5	8.0	7.5
Merged-chr7-13038146-4	chr7	13038026	13038226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243968)	promoter-TSS (NM_001243968)	-148.0	NM_145578	22192.0	Mm.196580	NM_145578	ENSMUSG00000005575	Ube2m	2510040H03Rik|UBC12|Ubc-rs2	ubiquitin-conjugating enzyme E2M	protein-coding	116.5	177.5	155.0	1276.5	196.0	116.5	91.5	93.0
Merged-chr13-9094822-1	chr13	9094722	9094922	+	969.0	f0_balb.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	941.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	10.0	22.5	20.5	266.0	59.5	17.0	18.5	26.5
Merged-chr2-73386011-1	chr2	73385911	73386111	+	673.0	f0_balb.idr	intron (NM_001276444, intron 1 of 15)	intron (NM_001276444, intron 1 of 15)	469.0	NM_001276443	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	10.0	18.5	10.5	56.5	12.5	8.5	7.0	13.5
Merged-chr10-93494262-1	chr10	93494162	93494362	+	615.5	f0_balb.idr	intron (NM_010401, intron 8 of 19)	CT-rich|Low_complexity|Low_complexity	5494.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	8.0	8.5	6.0	117.5	0.0	0.0	0.0	4.5
Merged-chr7-89941217-4	chr7	89941092	89941292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291288)	promoter-TSS (NM_001291288)	12.0	NM_001291289	67669.0	Mm.28679	NM_026304	ENSMUSG00000062797	Hikeshi	0610007P06Rik|1110002N09Rik|l(7)6Rn|l7Rn6	heat shock protein nuclear import factor	protein-coding	115.0	166.0	93.5	1893.0	345.5	138.5	134.0	130.5
Merged-chr9-40321654-4	chr9	40321577	40321777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357622)	promoter-TSS (NM_001357622)	-354.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	240.5	459.5	424.0	5366.0	692.5	257.5	381.0	239.5
Merged-chr9-121671558-4	chr9	121671464	121671664	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011703, exon 13 of 13)	3' UTR (NM_011703, exon 13 of 13)	28848.0	NM_011703	22354.0	Mm.282007	NM_011703	ENSMUSG00000032528	Vipr1	AV071699|VIP-R1|VPAC1	vasoactive intestinal peptide receptor 1	protein-coding	6.5	12.5	4.5	109.0	47.0	15.5	10.5	19.0
Merged-chr19-6141091-4	chr19	6140987	6141187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019722)	promoter-TSS (NM_019722)	50.0	NM_019722	56327.0	Mm.21071	NM_019722	ENSMUSG00000024944	Arl2	2610009M23Rik|AI115441|AW553335	ADP-ribosylation factor-like 2	protein-coding	60.5	125.0	69.5	596.5	155.0	71.0	44.5	52.5
Merged-chr9-45181916-4	chr9	45181821	45182021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145403, intron 5 of 12)	intron (NM_145403, intron 5 of 12)	-13845.0	NM_001198971	408059.0	Mm.249297	NM_001198971	ENSMUSG00000091996	BC049352	SMIM35	cDNA sequence BC049352	protein-coding	43.0	85.5	26.5	295.5	170.5	53.0	41.0	25.5
Merged-chr8-79059500-4	chr8	79059392	79059592	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	intron (NM_001294279, intron 1 of 14)	31055.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	29.5	24.0	37.0	978.0	39.5	5.0	13.0	8.0
Merged-chr13-67421371-4	chr13	67421283	67421483	+	911.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177811)	promoter-TSS (NM_177811)	35.0	NM_177811	328274.0	Mm.222470	NM_177811	ENSMUSG00000055560	Zfp459	9930025G17Rik|Rslcan-14	zinc finger protein 459	protein-coding	25.5	48.0	46.0	450.0	28.0	7.5	10.5	12.0
Merged-chr2-166155611-4	chr2	166155498	166155698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028072)	promoter-TSS (NM_028072)	85.0	NM_001252579	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	26.5	49.5	16.5	326.5	54.5	22.0	39.0	28.5
Merged-chr17-86973067-6	chr17	86973008	86973208	+	982.4074099999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	9997.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	10.0	14.0	7.5	45.5	29.5	10.0	4.5	5.5
Merged-chr1-87639972-4	chr1	87639871	87640071	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	19659.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	24.0	36.5	24.0	500.0	60.5	17.0	33.5	37.5
Merged-chr4-40301276-4	chr4	40301171	40301371	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11961.0	NR_040663	75819.0	Mm.399244	NR_040663	ENSMUSG00000087137	4930509K18Rik	-	RIKEN cDNA 4930509K18 gene	ncRNA	29.0	32.0	17.0	439.5	77.0	35.0	31.0	24.0
Merged-chr18-3355066-2	chr18	3354966	3355166	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_033457, intron 1 of 1)	MTC|LTR|ERVL-MaLR	-17477.0	NM_001110852	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	5.5	6.0	10.0	18.5	17.0	1.5	1.5	6.0
Merged-chr4-141794311-1	chr4	141794211	141794411	+	1000.0	f1_balb.idr	intron (NM_001355176, intron 1 of 8)	MIR3|SINE|MIR	699.0	NM_001277932	12371.0	Mm.88829	NM_015733	ENSMUSG00000028914	Casp9	AI115399|APAF-3|AW493809|CASP-9|Caspase-9|ICE-LAP6|Mch6	caspase 9	protein-coding	11.0	10.5	5.5	95.5	23.5	7.0	7.0	9.5
Merged-chr7-100500713-6	chr7	100500500	100500700	+	948.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011671)	TTS (NM_011671)	7242.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	8.0	6.5	3.0	103.0	10.0	7.0	6.5	9.5
Merged-chr9-116156771-3	chr9	116156666	116156866	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	18597.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	96.5	117.0	110.5	1438.0	9.5	3.5	4.0	5.5
Merged-chr7-3692263-6	chr7	3692202	3692402	+	889.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029934, intron 1 of 7)	intron (NM_029934, intron 1 of 7)	1223.0	NM_029934	77582.0	Mm.397541	NM_029934	ENSMUSG00000035596	Mboat7	5730589L02Rik|BB1|Leng4|Lpiat|Lpiat1|mBB1	membrane bound O-acyltransferase domain containing 7	protein-coding	1.0	9.0	6.0	39.0	19.5	4.5	6.0	10.0
Merged-chr7-120833320-4	chr7	120833234	120833434	+	906.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-9497.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	19.5	17.5	5.0	191.0	34.5	8.5	12.5	14.0
Merged-chr12-11276722-7	chr12	11276609	11276809	+	965.2551269999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361252, intron 4 of 9)	(TG)n|Simple_repeat|Simple_repeat	10823.0	NM_025695	67241.0	Mm.173953	NM_025695	ENSMUSG00000020608	Smc6	2810489L22Rik|3830418C19Rik|AA990493|AU018782|AW742439|SMC-6|Smc6l1|mKIAA4103	structural maintenance of chromosomes 6	protein-coding	11.5	13.0	8.5	176.0	37.0	12.0	9.5	18.0
Merged-chr9-109095588-3	chr9	109095509	109095709	+	909.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172775, exon 1 of 38)	5' UTR (NM_172775, exon 1 of 38)	173.0	NM_172775	235611.0	Mm.53862	NM_172775	ENSMUSG00000053646	Plxnb1	2900002G15Rik|AU042020|mKIAA0407	plexin B1	protein-coding	10.5	7.0	11.5	84.5	14.0	5.0	3.0	6.0
Merged-chr4-84362549-3	chr4	84362453	84362653	+	834.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172870, intron 4 of 5)	intron (NM_172870, intron 4 of 5)	312533.0	NM_172870	242509.0	Mm.190774	NM_172870	ENSMUSG00000028487	Bnc2	5031434M05Rik|8430420F16Rik	basonuclin 2	protein-coding	5.0	22.0	15.5	337.5	20.0	6.0	11.5	5.5
Merged-chr4-107367933-7	chr4	107367815	107368015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028355, exon 1 of 18)	5' UTR (NM_028355, exon 1 of 18)	131.0	NM_028355	72787.0	Mm.28478	NM_028355	ENSMUSG00000028614	Ndc1	2810475A17Rik|AI450313|Tmem48|sks	NDC1 transmembrane nucleoporin	protein-coding	33.0	51.5	44.5	439.0	55.0	31.5	29.0	35.5
Merged-chr4-136180576-3	chr4	136180476	136180676	+	946.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305399)	promoter-TSS (NM_001305399)	-206.0	NM_001305399	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	19.0	45.0	18.5	285.0	4.0	2.0	1.5	5.0
Merged-chr6-67195257-3	chr6	67195164	67195364	+	932.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71715.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	4.5	7.0	11.5	212.0	10.0	0.0	7.0	4.0
Merged-chr4-99033201-4	chr4	99033097	99033297	+	888.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013913, intron 2 of 6)	intron (NM_013913, intron 2 of 6)	2243.0	NM_013913	30924.0	Mm.28341	NM_013913	ENSMUSG00000028553	Angptl3	hypl	angiopoietin-like 3	protein-coding	8.0	14.5	23.0	281.5	17.0	10.5	16.5	10.5
Merged-chr10-111544956-3	chr10	111544804	111545004	+	745.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	38618.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	5.5	14.5	12.5	128.5	24.0	7.0	9.5	4.5
Merged-chr9-21286725-6	chr9	21286626	21286826	+	689.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145416, intron 2 of 18)	intron (NM_145416, intron 2 of 18)	1243.0	NM_145416	215194.0	Mm.290690	NM_145416	ENSMUSG00000035047	Kri1	-	KRI1 homolog	protein-coding	5.0	8.5	5.5	64.0	21.0	3.5	5.0	10.0
Merged-chr7-125588835-2	chr7	125588734	125588934	+	834.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14595.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	0.0	3.5	1.5	33.5	16.0	6.5	9.5	10.0
Merged-chr4-116655291-4	chr4	116655194	116655394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3620.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	58.5	76.5	69.0	781.5	115.5	62.0	54.5	64.0
Merged-chr12-112674540-5	chr12	112674512	112674712	+	921.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165894)	promoter-TSS (NM_001165894)	272.0	NM_001331107	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	9.5	10.0	9.0	73.0	15.0	9.0	7.5	28.5
Merged-chr5-31093496-4	chr5	31093413	31093613	+	835.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011773)	promoter-TSS (NM_011773)	14.0	NM_011773	22784.0	Mm.1396	NM_011773	ENSMUSG00000029151	Slc30a3	Znt3	solute carrier family 30 (zinc transporter), member 3	protein-coding	12.0	8.5	13.5	111.5	32.0	12.5	15.0	8.0
Merged-chr2-165493340-4	chr2	165493250	165493450	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007581)	promoter-TSS (NM_001007581)	-36.0	NM_001007581	381406.0	Mm.330785	NM_001007581	ENSMUSG00000039725	Trp53rka	2810408M09Rik	transformation related protein 53 regulating kinase A	protein-coding	33.0	33.0	17.0	409.5	52.5	19.0	17.5	44.5
Merged-chr5-100664239-6	chr5	100664145	100664345	+	844.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027978, intron 2 of 6)	intron (NM_027978, intron 2 of 6)	10011.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	4.5	10.0	10.0	76.5	13.0	6.0	7.5	5.5
Merged-chr13-105227189-4	chr13	105227070	105227270	+	920.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 5 of 7)	Lx9|LINE|L1	65844.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	18.5	28.5	30.0	328.0	34.5	16.0	26.0	12.5
Merged-chr9-7347353-4	chr9	7347228	7347428	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320076)	promoter-TSS (NM_001320076)	-46.0	NM_001320076	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	25.5	48.5	24.5	656.5	42.5	30.0	17.5	5.5
Merged-chr11-62550014-4	chr11	62549925	62550125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1146.0	NM_011664	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	46.0	71.0	54.0	681.5	119.0	39.5	48.5	43.0
Merged-chr4-35222112-4	chr4	35222012	35222212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	Tigger7|DNA|TcMar-Tigger	3768.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	129.0	231.5	194.0	2301.0	322.5	146.0	135.0	169.0
Merged-chr5-64212812-1	chr5	64212712	64212912	+	939.3333130000001	f0_balb.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-17545.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	11.5	23.5	18.0	261.5	34.5	11.0	6.0	12.5
Merged-chr6-3475105-3	chr6	3475020	3475220	+	734.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178899, intron 4 of 9)	intron (NM_178899, intron 4 of 9)	19378.0	NM_178899	101202.0	Mm.206911	NM_178899	ENSMUSG00000044156	Hepacam2	AI987662	HEPACAM family member 2	protein-coding	10.0	6.0	4.5	93.5	3.0	3.0	3.0	6.0
Merged-chr2-27667990-4	chr2	27667874	27668074	+	935.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9227.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	19.5	16.5	8.0	225.5	41.0	12.0	16.0	19.5
Merged-chr1-37430102-4	chr1	37429970	37430170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356528)	promoter-TSS (NM_001356528)	33.0	NM_198006	76178.0	Mm.28085	NM_198006	ENSMUSG00000026112	Coa5	1700001A24Rik|6330578E17Rik|Pet191	cytochrome C oxidase assembly factor 5	protein-coding	147.5	254.5	180.5	2538.5	436.0	181.5	197.5	160.5
Merged-chr7-139219265-4	chr7	139219168	139219368	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143755, intron 4 of 8)	intron (NM_001143755, intron 4 of 8)	-5961.0	NM_001162540	57740.0	Mm.65336	NM_021302	ENSMUSG00000015981	Stk32c	PKE|Pkek|YANK3	serine/threonine kinase 32C	protein-coding	45.0	55.5	37.5	917.5	54.0	10.5	19.5	25.5
Merged-chr17-67450301-4	chr17	67450209	67450409	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95818.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	21.5	24.0	17.5	476.5	47.0	16.5	30.5	30.5
Merged-chr9-21135174-4	chr9	21135062	21135262	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3887.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	7.5	30.0	17.5	92.5	58.5	11.0	20.0	18.5
Merged-chr1-191097820-3	chr1	191097771	191097971	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030060)	promoter-TSS (NM_030060)	-543.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	13.5	25.5	15.5	123.0	33.0	12.5	17.0	18.5
Merged-chr1-154794794-4	chr1	154794661	154794861	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-68841.0	NM_009782	12290.0	Mm.267517	NM_009782	ENSMUSG00000004110	Cacna1e	A430040I15|BII|Cach6|Cacnl1a6|Cav2.3|Cchra1|alpha1E	calcium channel, voltage-dependent, R type, alpha 1E subunit	protein-coding	23.0	36.5	24.0	392.5	56.0	25.0	16.5	14.0
Merged-chr7-16016149-2	chr7	16016049	16016249	+	953.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER91B|DNA|hAT-Tip100	-16654.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	8.5	14.0	8.5	47.0	11.0	3.0	3.5	1.0
Merged-chr9-37517707-3	chr9	37517602	37517802	+	913.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146222, intron 2 of 3)	intron (NM_146222, intron 2 of 3)	-10387.0	NR_136939	69524.0	Mm.41751	NM_027102	ENSMUSG00000001946	Esam	2310008D05Rik|Esam1|W117m	endothelial cell-specific adhesion molecule	protein-coding	10.5	7.0	11.0	113.5	14.5	9.0	2.5	2.5
Merged-chr17-46830148-4	chr17	46830033	46830233	+	905.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100452, intron 1 of 10)	intron (NM_001100452, intron 1 of 10)	1280.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	14.0	25.0	11.5	282.0	39.5	12.0	6.0	16.0
Merged-chr12-8667670-4	chr12	8667589	8667789	+	869.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6445.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	12.5	26.0	13.0	249.0	26.0	7.0	17.0	12.5
Merged-chr1-64198508-4	chr1	64198415	64198615	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77126.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	5.0	10.5	8.5	109.0	30.0	2.5	6.5	11.0
Merged-chr8-70627205-2	chr8	70627072	70627272	+	796.666626	f0_balb.idr|f1_balb.idr	Intergenic	MERVK26-int|LTR|ERVK	4923.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	12.5	13.5	13.5	115.0	7.5	3.0	1.0	5.5
Merged-chr7-104507895-4	chr7	104507760	104507960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167828)	promoter-TSS (NM_001167828)	-11.0	NM_001167828	209387.0	Mm.277377	NM_199146	ENSMUSG00000057596	Trim30d	AI451617|TRIM30-3|Trim79	tripartite motif-containing 30D	protein-coding	52.0	58.5	29.0	487.5	123.0	50.0	80.5	56.0
Merged-chr7-127091290-3	chr7	127091201	127091401	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178901)	promoter-TSS (NM_178901)	-135.0	NM_178901	101602.0	Mm.490357	NM_178901	ENSMUSG00000045165	AI467606	-	expressed sequence AI467606	protein-coding	83.0	91.0	43.0	759.0	10.0	2.5	2.0	9.0
Merged-chr14-37109543-4	chr14	37109419	37109619	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206684, intron 1 of 2)	intron (NM_001206684, intron 1 of 2)	582.0	NM_001206684	70045.0	Mm.271619	NM_001206684	ENSMUSG00000096001	2610528A11Rik	AW494830|Gpr15l	RIKEN cDNA 2610528A11 gene	protein-coding	24.0	23.5	36.5	430.0	57.5	12.5	20.5	28.5
Merged-chr16-95833510-6	chr16	95833411	95833611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040485, intron 3 of 3)	intron (NR_040485, intron 3 of 3)	65202.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	30.5	60.0	50.5	597.5	69.0	46.5	32.0	48.5
Merged-chr11-117109834-4	chr11	117109737	117109937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5335.0	NR_029459	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	73.5	162.5	68.0	1322.0	262.5	100.0	59.0	79.0
Merged-chr14-14706642-4	chr14	14706446	14706646	+	926.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360513, intron 1 of 25)	intron (NM_001360513, intron 1 of 25)	3521.0	NM_001360509	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	2.5	1.5	5.0	164.0	5.5	9.5	6.5	9.0
Merged-chr12-16920735-3	chr12	16920634	16920834	+	727.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	L2a|LINE|L2	25756.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	13.5	18.0	15.5	155.5	15.5	7.5	6.5	4.0
Merged-chr1-134747717-4	chr1	134747614	134747814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009307, exon 10 of 10)	3' UTR (NM_009307, exon 10 of 10)	38414.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	22.0	29.5	25.5	318.5	61.5	24.0	35.0	30.0
Merged-chr18-24530259-4	chr18	24530134	24530334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144861)	promoter-TSS (NM_144861)	-30.0	NM_001360807	225283.0	Mm.28427	NM_144861	ENSMUSG00000040446	Rprd1a	C77387|mKIAA4077	regulation of nuclear pre-mRNA domain containing 1A	protein-coding	203.0	281.0	171.0	3248.5	475.5	148.0	225.5	171.0
Merged-chr2-157430075-3	chr2	157429955	157430155	+	836.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 1 of 13)	B1F1|SINE|Alu	5762.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	14.5	18.0	10.5	103.5	11.0	5.0	1.5	5.0
Merged-chr9-108347803-4	chr9	108347713	108347913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311157)	promoter-TSS (NM_001311157)	-18.0	NM_001311157	22258.0	Mm.3974	NM_011678	ENSMUSG00000032612	Usp4	F730026I20Rik|Unp|mKIAA4155	ubiquitin specific peptidase 4 (proto-oncogene)	protein-coding	147.0	316.0	169.0	1937.0	400.0	178.0	169.5	208.5
Merged-chr10-80702622-4	chr10	80702515	80702715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027829)	promoter-TSS (NM_027829)	-78.0	NM_027829	71564.0	Mm.35802	NM_027829	ENSMUSG00000055862	Izumo4	9030607L17Rik|AI550407	IZUMO family member 4	protein-coding	101.0	155.5	93.0	1272.0	209.5	100.5	98.5	91.5
Merged-chr11-99073956-4	chr11	99073823	99074023	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172564, exon 7 of 13)	exon (NM_172564, exon 7 of 13)	15383.0	NM_172564	217169.0	Mm.262067	NM_172564	ENSMUSG00000017607	Tns4	9930017A07Rik|AA589547|AU016405|Cten	tensin 4	protein-coding	17.0	17.0	15.5	208.5	41.0	11.0	14.5	14.5
Merged-chr10-128525287-4	chr10	128525219	128525419	+	939.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011843, intron 1 of 30)	CpG	540.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	24.5	18.5	8.0	193.5	22.0	10.5	20.0	11.5
Merged-chr15-3271475-3	chr15	3271391	3271591	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009155, intron 1 of 4)	intron (NM_009155, intron 1 of 4)	514.0	NM_009155	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	9.5	15.5	14.0	123.5	12.5	11.5	8.0	14.0
Merged-chr10-80774772-4	chr10	80774676	80774876	+	905.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199322, intron 7 of 27)	intron (NM_199322, intron 7 of 27)	19573.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	11.0	21.0	5.0	133.5	37.5	10.5	22.0	21.5
Merged-chr15-30520249-4	chr15	30520148	30520348	+	989.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	347655.0	NM_008729	18163.0	Mm.321648	NM_008729	ENSMUSG00000022240	Ctnnd2	Catnd2|Nprap|neurojugin	catenin (cadherin associated protein), delta 2	protein-coding	11.5	34.5	28.5	587.0	70.0	33.5	31.0	25.5
Merged-chr6-83914765-2	chr6	83914660	83914860	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_008717, intron 1 of 26)	CpG	407.0	NM_001355284	18139.0	Mm.132392	NM_008717	ENSMUSG00000030016	Zfp638	AI323587|Np220|Zfml|Znf638|mNP220	zinc finger protein 638	protein-coding	25.0	37.5	62.5	317.5	30.0	11.0	22.5	36.0
Merged-chr19-44245957-3	chr19	44245866	44246066	+	910.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42678.0	NM_024450	30049.0	Mm.480594	NM_024450	ENSMUSG00000025202	Scd3	4930513N16Rik	stearoyl-coenzyme A desaturase 3	protein-coding	8.5	21.5	12.0	99.0	12.0	3.0	12.5	3.0
Merged-chr13-81233069-4	chr13	81232942	81233142	+	965.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	MIR|SINE|MIR	268968.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	17.5	15.5	31.5	758.0	41.0	19.0	13.0	25.5
Merged-chr10-63153821-3	chr10	63153710	63153910	+	890.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 6 of 19)	intron (NM_182992, intron 6 of 19)	50142.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	13.5	9.5	11.5	217.0	6.5	8.0	7.0	7.0
Merged-chr11-75531046-2	chr11	75530946	75531146	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173388)	promoter-TSS (NM_173388)	-648.0	NM_001199284	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	19.5	9.5	8.0	41.0	9.0	8.0	3.5	8.0
Merged-chr12-85478416-3	chr12	85478310	85478510	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	4520.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	21.0	20.0	16.0	178.5	29.0	17.0	12.5	23.5
Merged-chr19-41372564-4	chr19	41372456	41372656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	12514.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	45.0	69.0	41.5	838.5	97.5	26.5	37.5	30.0
Merged-chr15-96631372-5	chr15	96631294	96631494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166458, intron 1 of 15)	L1M2|LINE|L1	10568.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	19.0	30.0	31.0	357.5	96.0	21.5	32.5	22.5
Merged-chr13-8866889-4	chr13	8866778	8866978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039388, intron 1 of 13)	intron (NM_001039388, intron 1 of 13)	4166.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	28.5	55.5	42.5	778.0	125.5	50.5	39.0	55.0
Merged-chr5-35728120-4	chr5	35728033	35728233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359895, intron 1 of 17)	intron (NM_001359895, intron 1 of 17)	1143.0	NM_194344	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	31.0	57.0	49.0	943.0	77.5	26.5	38.0	46.0
Merged-chr3-19628746-4	chr3	19628638	19628838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15722.0	NM_001081281	381485.0	Mm.35419	NM_001081281	ENSMUSG00000060913	Trim55	D830041C10Rik|Murf2|Rnf29	tripartite motif-containing 55	protein-coding	157.5	275.0	244.0	2217.0	573.5	202.5	189.5	199.5
Merged-chr11-77335239-3	chr11	77335138	77335338	+	825.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 2 of 14)	MTD|LTR|ERVL-MaLR	-13042.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	14.5	16.0	11.0	176.0	5.5	1.5	17.5	10.0
Merged-chr2-153108511-4	chr2	153108395	153108595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010407)	promoter-TSS (NM_010407)	27.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	36.5	43.5	27.5	340.0	99.5	43.0	40.0	35.5
Merged-chr12-33156502-4	chr12	33156389	33156589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	ID4_|SINE|ID	8803.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	74.5	114.0	74.5	692.5	169.5	93.5	78.0	33.0
Merged-chr2-154187717-3	chr2	154187650	154187850	+	871.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3068.0	NM_001012392	228801.0	Mm.3783	NM_153418	ENSMUSG00000027485	Bpifb1	Lplunc1	BPI fold containing family B, member 1	protein-coding	10.5	11.5	8.0	95.5	7.5	6.0	6.0	5.5
Merged-chr15-86206629-4	chr15	86206522	86206722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7837.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	33.5	56.0	61.5	1016.0	76.5	30.5	41.5	33.5
Merged-chr17-35122103-4	chr17	35121977	35122177	+	818.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303476)	promoter-TSS (NM_001303476)	-24.0	NM_001303446	13001.0	Mm.378901	NM_009975	ENSMUSG00000024387	Csnk2b	CK II beta	casein kinase 2, beta polypeptide	protein-coding	8.5	15.5	8.0	70.5	20.0	6.5	4.5	19.5
Merged-chr1-180302910-4	chr1	180302798	180302998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27578.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	114.5	227.0	154.0	1823.0	373.0	146.5	199.0	109.0
Merged-chr4-149790843-4	chr4	149790759	149790959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-16592.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	39.0	53.0	64.0	670.5	72.5	25.5	36.5	40.0
Merged-chr1-91055138-4	chr1	91055067	91055267	+	948.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	1723.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	10.5	23.5	12.0	243.0	31.5	15.0	16.0	14.5
Merged-chr11-69325805-4	chr11	69325695	69325895	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010599)	promoter-TSS (NM_010599)	-463.0	NM_010599	16499.0	Mm.232472	NM_010599	ENSMUSG00000018470	Kcnab3	C330022D06Rik|Kcnab4|mKv(beta)4	potassium voltage-gated channel, shaker-related subfamily, beta member 3	protein-coding	21.5	23.5	13.0	152.5	56.0	21.0	27.0	22.5
Merged-chr10-21067340-4	chr10	21067234	21067434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177776, intron 4 of 6)	intron (NM_001177776, intron 4 of 6)	26514.0	NM_001177776	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	18.0	22.0	17.0	366.5	70.0	21.0	23.0	28.5
Merged-chr3-68794605-3	chr3	68794525	68794725	+	890.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33130.0	NR_153374	102639225.0	Mm.109095	NR_153374	ENSMUSG00000102936	Gm35584	-	predicted gene, 35584	ncRNA	11.5	19.0	15.0	242.5	11.5	6.0	3.5	16.5
Merged-chr5-115506624-4	chr5	115506538	115506738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133915)	promoter-TSS (NM_133915)	-38.0	NM_011223	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	66.0	128.0	76.0	1140.0	253.5	95.0	115.5	92.5
Merged-chr5-28037799-4	chr5	28037710	28037910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33602.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	46.0	74.0	82.5	1025.0	122.0	54.5	42.5	51.5
Merged-chr6-145193617-4	chr6	145193524	145193724	+	931.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177222, intron 7 of 15)	intron (NM_177222, intron 7 of 15)	17346.0	NM_177222	320662.0	Mm.207779	NM_177222	ENSMUSG00000043541	Casc1	A230084G12Rik|Las1	cancer susceptibility candidate 1	protein-coding	22.0	23.0	16.0	293.5	36.0	6.5	22.0	17.0
Merged-chr6-48700405-4	chr6	48700289	48700489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7855.0	NM_153175	231931.0	Mm.321047	NM_153175	ENSMUSG00000047867	Gimap6	4833419H03Rik|Ian6|mFLJ00102	GTPase, IMAP family member 6	protein-coding	19.0	51.0	24.5	207.0	159.5	56.0	55.5	26.0
Merged-chr13-44733752-8	chr13	44733656	44733856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	CpG	2485.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	31.0	102.5	38.5	472.5	100.0	43.0	54.5	42.0
Merged-chr12-69417835-3	chr12	69417773	69417973	+	869.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45723.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	9.5	18.0	8.5	185.5	7.5	3.0	4.5	3.5
Merged-chr16-37682786-4	chr16	37682682	37682882	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28414.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	19.0	30.5	10.5	221.0	46.0	23.0	32.0	21.0
Merged-chr5-34526952-4	chr5	34526867	34527067	+	870.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	1183.0	NM_011893	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	12.0	7.0	14.0	135.0	8.5	10.5	12.0	15.0
Merged-chr19-7483281-4	chr19	7483190	7483390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271487)	promoter-TSS (NM_001271487)	1.0	NM_001271486	20168.0	Mm.246990	NM_053076	ENSMUSG00000024758	Rtn3	RTN3-A1	reticulon 3	protein-coding	184.0	204.5	116.0	1513.5	314.5	191.0	150.0	165.0
Merged-chr8-3665680-4	chr8	3665576	3665776	+	902.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026985)	promoter-TSS (NM_026985)	-86.0	NM_026985	69189.0	Mm.175176	NM_026985	ENSMUSG00000013974	Mcemp1	1810033B17Rik	mast cell expressed membrane protein 1	protein-coding	10.5	17.0	29.5	181.0	25.0	12.0	19.5	14.0
Merged-chr15-96640874-4	chr15	96640775	96640975	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166458, intron 1 of 15)	intron (NM_001166458, intron 1 of 15)	1087.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	26.5	65.5	32.0	335.0	78.0	20.0	22.5	19.0
Merged-chr12-119470450-4	chr12	119470338	119470538	+	882.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	27028.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	8.5	15.0	9.5	244.0	27.0	20.0	18.0	10.5
Merged-chr16-24426410-4	chr16	24426302	24426502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 1 of 12)	intron (NM_178665, intron 1 of 12)	-21689.0	NM_001145952	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	20.0	61.5	33.0	475.5	74.0	20.0	33.0	34.5
Merged-chr7-17003397-3	chr7	17003301	17003501	+	892.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	8813.0	NM_001101535	434130.0	Mm.459162	NM_001101535	ENSMUSG00000041117	Ccdc8	-	coiled-coil domain containing 8	protein-coding	20.0	13.0	15.0	195.0	16.0	10.5	11.0	9.0
Merged-chr3-22058412-3	chr3	22058311	22058511	+	849.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18241.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	14.5	8.0	12.0	234.5	14.0	2.5	5.5	8.5
Merged-chr6-88084723-7	chr6	88084616	88084816	+	941.460327	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133933, exon 1 of 10)	exon (NM_133933, exon 1 of 10)	243.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	19.0	13.5	27.5	154.5	38.0	20.5	21.5	27.0
Merged-chr11-74925869-4	chr11	74925781	74925981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013761)	promoter-TSS (NM_013761)	9.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	54.5	100.5	83.0	700.0	123.0	74.5	48.0	63.0
Merged-chr11-119928432-4	chr11	119928314	119928514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 2)	intron (NR_039557, intron 2 of 2)	14604.0	NM_001085498	208092.0	Mm.306673	NM_001085498	ENSMUSG00000025371	Chmp6	2400004G01Rik	charged multivesicular body protein 6	protein-coding	36.0	69.0	55.5	853.5	119.0	33.0	45.0	49.5
Merged-chr4-105485379-4	chr4	105485277	105485477	+	910.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	328030.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	11.5	13.5	18.0	348.0	38.0	6.0	27.0	15.0
Merged-chr9-13466596-4	chr9	13466498	13466698	+	899.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35237.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	7.5	16.0	9.0	159.5	28.0	9.0	14.0	14.5
Merged-chr19-40343202-3	chr19	40343105	40343305	+	807.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034963, intron 12 of 22)	Tigger16a|DNA|TcMar-Tigger	59105.0	NM_001034964	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	11.0	13.0	10.5	135.5	18.5	10.0	5.0	10.5
Merged-chr12-86893218-4	chr12	86893112	86893312	+	882.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8398.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	7.5	13.5	4.0	80.5	43.0	22.5	13.5	19.0
Merged-chr11-104550607-4	chr11	104550526	104550726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285990)	promoter-TSS (NM_001285990)	-6.0	NM_001285988	217232.0	Mm.89845	NM_145436	ENSMUSG00000020687	Cdc27	AI452358|APC3|BC023187	cell division cycle 27	protein-coding	70.5	145.5	40.0	575.5	205.5	123.5	45.0	95.5
Merged-chr15-4000767-3	chr15	4000665	4000865	+	650.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045740, intron 2 of 2)	L1MD2|LINE|L1	4726.0	NR_045740	328489.0	Mm.447020	NR_045740	ENSMUSG00000097662	Gm2093	100039196|A630020A06	predicted gene 2093	ncRNA	6.0	7.5	10.0	95.0	10.0	10.5	6.5	3.5
Merged-chr9-111220746-4	chr9	111220641	111220841	+	874.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027742, intron 11 of 13)	intron (NM_027742, intron 11 of 13)	50867.0	NM_026810	17350.0	Mm.486383	NM_026810	ENSMUSG00000032498	Mlh1	1110035C23Rik|AI317206|AI325952|AI561766	mutL homolog 1	protein-coding	7.0	5.0	3.5	130.5	36.5	16.5	12.5	13.5
Merged-chr5-25086409-3	chr5	25086306	25086506	+	831.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	MIRb|SINE|MIR	14236.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	18.0	19.0	9.0	265.5	1.0	3.0	7.5	7.0
Merged-chr14-55101895-4	chr14	55101786	55101986	+	758.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007455, intron 14 of 21)	intron (NM_007455, intron 14 of 21)	4707.0	NM_001303502	11766.0	Mm.238879	NM_007455	ENSMUSG00000040701	Ap1g2	Adtg2|G2ad	adaptor protein complex AP-1, gamma 2 subunit	protein-coding	7.0	7.0	8.5	115.0	14.0	6.0	16.5	18.0
Merged-chr19-51227940-3	chr19	51227836	51228036	+	755.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-549290.0	NM_001290356	58178.0	Mm.313672	NM_021377	ENSMUSG00000043531	Sorcs1	Sorcs|mSorCS	sortilin-related VPS10 domain containing receptor 1	protein-coding	3.0	9.5	1.0	142.0	37.0	6.0	16.5	11.0
Merged-chr1-181211539-4	chr1	181211337	181211537	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145514, exon 1 of 14)	exon (NM_145514, exon 1 of 14)	541.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	23.5	31.5	24.5	180.0	40.0	27.0	35.0	27.5
Merged-chr12-40551494-4	chr12	40551409	40551609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	105456.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	35.5	73.0	47.5	702.5	108.0	48.0	68.0	33.5
Merged-chr5-122109983-4	chr5	122109869	122110069	+	906.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183307, intron 11 of 12)	intron (NM_183307, intron 11 of 12)	9018.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	27.0	27.5	37.0	296.0	31.5	9.5	21.5	18.5
Merged-chr5-122209935-3	chr5	122209818	122210018	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028752)	promoter-TSS (NM_028752)	189.0	NM_001042489	74096.0	Mm.28804	NM_028752	ENSMUSG00000064267	Hvcn1	0610039P13Rik|AI450555|BTS|HV1|Vsop.|mVSOP	hydrogen voltage-gated channel 1	protein-coding	18.0	26.0	27.0	183.0	8.0	14.0	6.0	10.0
Merged-chr2-128738876-2	chr2	128738776	128738976	+	955.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	39961.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	6.5	1.0	6.5	71.5	14.0	7.5	6.0	7.5
Merged-chr12-82401690-4	chr12	82401598	82401798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 12 of 23)	intron (NM_001167983, intron 12 of 23)	90349.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	55.0	94.0	38.5	1066.5	115.5	47.5	64.5	51.5
Merged-chr13-90967672-3	chr13	90967579	90967779	+	708.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 5 of 7)	intron (NM_025770, intron 5 of 7)	44557.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	11.0	7.0	11.0	98.0	13.0	4.0	20.0	11.5
Merged-chr4-114863407-3	chr4	114863301	114863501	+	768.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41681.0	NR_033617	433746.0	Mm.388908	NR_033617	ENSMUSG00000055198	Gm12830	-	predicted gene 12830	ncRNA	2.0	4.0	2.0	60.0	18.5	8.5	7.0	11.0
Merged-chr19-46356928-4	chr19	46356817	46357017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029186)	promoter-TSS (NM_029186)	37.0	NM_029186	75146.0	Mm.159290	NM_029186	ENSMUSG00000025227	Mfsd13a	4930449A08Rik|4930538D17Rik|Tmem180	major facilitator superfamily domain containing 13a	protein-coding	38.0	64.0	37.0	271.0	102.0	52.0	41.5	19.0
Merged-chr9-66832630-4	chr9	66832519	66832719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026674, intron 2 of 5)	intron (NM_026674, intron 2 of 5)	2087.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	59.0	115.5	58.5	818.0	241.5	77.5	72.0	80.0
Merged-chr15-74930966-4	chr15	74930873	74931073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-24078.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	34.5	39.0	24.0	566.0	81.0	34.0	30.0	36.5
Merged-chr4-117908446-3	chr4	117908307	117908507	+	968.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146152, intron 2 of 19)	intron (NM_146152, intron 2 of 19)	6592.0	NM_146152	230673.0	Mm.287810	NM_146152	ENSMUSG00000033365	Ipo13	Imp13|Kap13|Ranbp13	importin 13	protein-coding	11.5	6.5	6.0	187.5	12.5	4.5	6.0	10.0
Merged-chr2-180045529-4	chr2	180045430	180045630	+	964.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178750, intron 1 of 10)	intron (NM_178750, intron 1 of 10)	3047.0	NM_178750	269397.0	Mm.63068	NM_178750	ENSMUSG00000039086	Ss18l1	A230053O16Rik|CREST	SS18, nBAF chromatin remodeling complex subunit like 1	protein-coding	25.5	38.0	18.5	329.5	46.5	15.0	16.0	16.5
Merged-chr9-103364922-4	chr9	103364832	103365032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134427)	promoter-TSS (NM_001134427)	47.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	36.5	61.0	40.0	666.5	140.5	63.0	89.0	48.5
Merged-chr1-165604383-4	chr1	165604295	165604495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 4 of 5)	intron (NM_001083897, intron 4 of 5)	30146.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	31.0	50.5	34.0	902.0	76.5	22.5	50.5	39.0
Merged-chr11-52099902-4	chr11	52099754	52099954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019411, intron 1 of 6)	intron (NM_019411, intron 1 of 6)	1030.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	46.0	98.0	63.0	642.5	159.0	52.0	71.5	57.0
Merged-chr6-131245224-4	chr6	131245124	131245324	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001170851, exon 2 of 9)	exon (NM_001170851, exon 2 of 9)	2138.0	NM_001170851	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	30.0	27.0	43.0	465.0	43.0	14.0	23.0	20.0
Merged-chr11-49085037-4	chr11	49084932	49085132	+	923.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271677, intron 1 of 2)	intron (NM_001271677, intron 1 of 2)	-1985.0	NM_001271676	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	13.5	17.0	14.0	192.5	21.0	7.5	14.0	16.5
Merged-chr15-100729471-4	chr15	100729345	100729545	+	972.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161767)	promoter-TSS (NM_001161767)	-69.0	NM_172451	207839.0	Mm.22969	NM_172451	ENSMUSG00000037280	Galnt6	4632410F13|AW047994|GalNAc-T6	polypeptide N-acetylgalactosaminyltransferase 6	protein-coding	19.0	21.0	10.0	177.0	46.5	13.5	15.0	14.5
Merged-chr9-24504635-2	chr9	24504535	24504735	+	727.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-1495.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	3.0	1.0	0.5	38.0	7.0	5.0	9.0	5.0
Merged-chr6-140751188-4	chr6	140751084	140751284	+	961.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	124299.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	16.5	16.5	23.5	395.5	48.5	14.5	15.5	14.5
Merged-chr3-28099378-4	chr3	28099266	28099466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 19 of 25)	intron (NM_008875, intron 19 of 25)	115195.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	67.0	101.5	91.0	1159.0	205.5	76.0	87.5	75.0
Merged-chr12-79618119-4	chr12	79618011	79618211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	306622.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	25.5	25.5	16.5	290.5	44.5	13.5	7.5	6.0
Merged-chr10-95703213-7	chr10	95703113	95703313	+	967.8639529999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139067.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	16.0	8.5	18.0	100.5	21.0	6.0	8.5	6.0
Merged-chr19-55767431-4	chr19	55767324	55767524	+	920.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	25614.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	18.0	29.0	17.5	164.5	38.5	11.0	16.0	8.5
Merged-chr5-118404620-4	chr5	118404513	118404713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-156106.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	142.0	378.5	248.5	2790.5	392.5	117.5	215.5	184.5
Merged-chr2-75781275-4	chr2	75781138	75781338	+	860.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50939.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	9.5	22.0	7.0	168.0	21.5	19.0	12.0	17.0
Merged-chr4-132610760-4	chr4	132610669	132610869	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28277.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	31.0	35.0	20.0	201.5	42.5	20.5	14.0	14.5
Merged-chr2-164679346-4	chr2	164679247	164679447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5260.0	NM_001161806	629761.0	Mm.389336	NM_001161806	ENSMUSG00000078940	Wfdc11	-	WAP four-disulfide core domain 11	protein-coding	19.5	35.5	20.5	216.0	39.0	20.5	26.5	31.0
Merged-chr11-22814551-4	chr11	22814440	22814640	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45195.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	17.5	32.0	19.5	192.5	69.5	27.0	12.0	10.5
Merged-chr17-70709381-3	chr17	70709261	70709461	+	985.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360665, intron 9 of 14)	intron (NM_001360665, intron 9 of 14)	137416.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	33.5	36.5	13.0	198.0	8.5	3.0	1.5	4.0
Merged-chr16-20302404-4	chr16	20302276	20302476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005767)	promoter-TSS (NM_001005767)	-14.0	NM_001005767	381038.0	Mm.371737	NM_001005767	ENSMUSG00000033918	Parl	D16Ertd607e|PRO2207|PSARL1|PSENIP2|Psarl	presenilin associated, rhomboid-like	protein-coding	77.0	133.5	56.5	1064.0	177.5	42.5	49.0	81.0
Merged-chr2-60021776-4	chr2	60021682	60021882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 2 of 35)	intron (NM_001001182, intron 2 of 35)	103958.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	49.5	69.0	48.5	1042.0	125.0	37.5	61.0	71.0
Merged-chr7-100582923-4	chr7	100582833	100583033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003559, intron 1 of 7)	CpG	197.0	NM_198831	52443.0	Mm.473730	NM_198831	ENSMUSG00000030706	Mrpl48	1810030E20Rik|2610028L11Rik|CGI-118|D4Ertd786e|L48mt|MRP-L48	mitochondrial ribosomal protein L48	protein-coding	35.0	41.5	14.5	168.0	53.5	23.5	21.0	27.0
Merged-chr5-96912976-4	chr5	96912870	96913070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8302.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	65.0	108.0	55.5	1084.5	83.5	32.5	39.0	32.0
Merged-chr5-135686626-4	chr5	135686537	135686737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2508.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	77.5	117.5	56.5	972.5	139.0	64.0	60.5	37.5
Merged-chr14-51894465-3	chr14	51894356	51894556	+	995.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039676, exon 3 of 4)	exon (NM_001039676, exon 3 of 4)	846.0	NM_001039676	214922.0	Mm.281343	NM_001039676	ENSMUSG00000072572	Slc39a2	F730005G13Rik|Gm1789|Gm289|Zip2	solute carrier family 39 (zinc transporter), member 2	protein-coding	20.5	44.0	14.5	310.0	26.5	10.0	6.5	7.5
Merged-chr5-121833879-7	chr5	121833921	121834121	+	961.292542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306127, intron 1 of 8)	intron (NM_001306127, intron 1 of 8)	2083.0	NM_001306126	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	10.0	31.5	20.0	202.5	35.5	9.5	10.5	18.5
Merged-chr19-12433267-4	chr19	12433172	12433372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5367.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	41.5	88.0	43.5	726.0	71.5	18.5	25.5	19.5
Merged-chr12-3349576-4	chr12	3349458	3349658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15574.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	49.5	56.5	36.0	671.0	87.5	32.5	26.5	34.0
Merged-chr15-81858764-4	chr15	81858640	81858840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020507)	promoter-TSS (NM_020507)	-414.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	34.5	44.0	45.5	363.0	81.5	29.0	37.0	42.0
Merged-chr7-116443485-4	chr7	116443394	116443594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011083)	promoter-TSS (NM_011083)	-36.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	100.5	151.0	80.0	1398.5	285.5	104.5	117.0	109.5
Merged-chr2-35827035-4	chr2	35826946	35827146	+	898.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 6 of 9)	intron (NM_029774, intron 6 of 9)	7856.0	NR_040618	77665.0	Mm.400558	NR_040618	ENSMUSG00000086449	9030204H09Rik	-	RIKEN cDNA 9030204H09 gene	ncRNA	16.0	12.5	16.5	356.0	63.5	14.5	15.0	17.0
Merged-chr19-8724023-3	chr19	8723870	8724070	+	887.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161413)	promoter-TSS (NM_001161413)	483.0	NR_002896	83673.0	Mm.292489	NR_002896	ENSMUSG00000108414	Snhg1	-	small nucleolar RNA host gene 1	ncRNA	6.0	7.5	5.0	37.0	26.5	7.0	4.0	9.5
Merged-chr3-88526410-4	chr3	88526306	88526506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5989.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	33.5	45.0	16.5	443.5	87.0	29.5	75.0	29.0
Merged-chr8-3392997-4	chr8	3392916	3393116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133962)	promoter-TSS (NM_133962)	8.0	NM_133962	102098.0	Mm.170461	NM_133962	ENSMUSG00000004568	Arhgef18	AI467246|D030053O22Rik	rho/rac guanine nucleotide exchange factor (GEF) 18	protein-coding	59.5	75.5	31.5	756.5	125.5	44.5	52.0	45.5
Merged-chr3-75956283-4	chr3	75956181	75956381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175193, exon 1 of 15)	exon (NM_175193, exon 1 of 15)	668.0	NM_175193	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	70.5	65.5	62.0	1042.0	135.0	30.0	63.5	55.5
Merged-chr10-94372883-4	chr10	94372772	94372972	+	956.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	60923.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	23.0	38.0	17.5	514.5	35.5	20.5	17.5	17.0
Merged-chr17-46704498-2	chr17	46704398	46704598	+	997.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357684, intron 1 of 14)	intron (NM_001357684, intron 1 of 14)	504.0	NM_009358	21770.0	Mm.295009	NM_009358	ENSMUSG00000059409	Ppp2r5d	B'delta|TEG-271|Tex271	protein phosphatase 2, regulatory subunit B', delta	protein-coding	7.0	5.0	11.5	44.5	24.5	4.0	8.5	13.0
Merged-chr17-34317421-3	chr17	34317307	34317507	+	961.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010382)	TTS (NM_010382)	-8268.0	NM_001033978	381091.0	Mm.139204	NM_001033978	ENSMUSG00000067341	H2-Eb2	A130038H09Rik|H-2Eb2|Ia-5|Ia5|Iebeta2	histocompatibility 2, class II antigen E beta2	protein-coding	5.0	4.5	5.5	50.5	47.5	8.0	6.5	17.5
Merged-chr5-148495368-4	chr5	148495269	148495469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56304.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	276.0	406.5	286.0	3025.5	736.0	235.0	302.0	254.5
Merged-chr16-36936044-4	chr16	36935918	36936118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008225, intron 1 of 13)	intron (NM_008225, intron 1 of 13)	1035.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	104.0	112.0	63.5	1130.0	169.0	79.0	102.5	69.5
Merged-chr7-141363649-4	chr7	141363590	141363790	+	795.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133191)	TTS (NM_133191)	1420.0	NR_033532	320871.0	Mm.475463	NM_177280	ENSMUSG00000086844	B230206H07Rik	-	RIKEN cDNA B230206H07 gene	ncRNA	11.0	8.5	9.5	61.0	12.0	5.0	8.5	8.0
Merged-chr8-94532999-4	chr8	94532921	94533121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153507)	promoter-TSS (NM_153507)	-7.0	NM_153507	234577.0	Mm.291815	NM_153507	ENSMUSG00000034361	Cpne2	3322401K10Rik	copine II	protein-coding	51.0	71.5	56.0	986.0	101.0	41.5	42.5	44.0
Merged-chr14-60251970-3	chr14	60251814	60252014	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170591)	promoter-TSS (NM_170591)	-435.0	NM_001362439	71844.0	Mm.258051	NM_170591	ENSMUSG00000114797	Nupl1	1700017F11Rik|Nup58|mKIAA0410	nucleoporin like 1	protein-coding	26.5	32.0	26.5	341.5	69.5	25.5	37.0	28.0
Merged-chr19-21319792-3	chr19	21319685	21319885	+	718.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A1-int|LTR|ERVL-MaLR	47507.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	12.0	10.5	11.5	181.5	8.5	6.5	7.0	6.5
Merged-chr7-127842510-4	chr7	127842425	127842625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009294, exon 3 of 11)	exon (NM_009294, exon 3 of 11)	717.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	44.5	95.0	50.0	684.0	138.5	53.0	88.5	76.5
Merged-chr17-17525760-1	chr17	17525660	17525860	+	580.0	f1_c57bl6.idr	Intergenic	Intergenic	98729.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	5.0	8.5	5.0	34.0	23.5	0.5	4.0	2.5
Merged-chr13-43779182-4	chr13	43779058	43779258	+	972.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5954.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	34.0	54.0	30.0	418.0	82.5	11.5	39.5	20.5
Merged-chr4-94614478-4	chr4	94614390	94614590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290568)	promoter-TSS (NM_001290568)	-1.0	NM_001290568	67694.0	Mm.240619	NM_026319	ENSMUSG00000028576	Ift74	1700029H06Rik|Ccdc2|Cmg1|b2b796Clo	intraflagellar transport 74	protein-coding	92.5	103.0	74.0	1293.5	246.0	72.5	110.5	67.0
Merged-chr5-107984796-4	chr5	107984679	107984879	+	948.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	ID_B1|SINE|B4	2298.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	18.0	41.5	19.0	451.5	26.0	16.5	17.0	18.0
Merged-chr2-148558543-4	chr2	148558457	148558657	+	885.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114058.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	10.0	14.5	5.5	265.5	36.0	7.5	21.0	7.0
Merged-chr6-72566209-4	chr6	72566101	72566301	+	840.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_144917, exon 13 of 13)	3' UTR (NM_144917, exon 13 of 13)	16554.0	NM_001271395	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	13.0	23.0	10.0	167.0	29.0	17.0	17.0	17.0
Merged-chr4-131825997-3	chr4	131825906	131826106	+	883.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083119, intron 1 of 30)	intron (NM_001083119, intron 1 of 30)	12272.0	NM_011214	19273.0	Mm.4860	NM_011214	ENSMUSG00000028909	Ptpru	Ftp-1|PCP-2|PTP|PTP-lambda|PTPlambda|Pcp2|Ptpf|Ptprl|R-PTP-U|R-PTP-psi|RPTPlambda	protein tyrosine phosphatase, receptor type, U	protein-coding	5.0	22.5	7.0	113.5	35.0	8.5	4.5	8.5
Merged-chr14-40904801-3	chr14	40904687	40904887	+	942.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11822.0	NM_177816	328381.0	Mm.235694	NM_177816	ENSMUSG00000037833	Sh2d4b	A430109M18Rik|D030001E08	SH2 domain containing 4B	protein-coding	4.5	7.0	12.5	286.0	3.0	5.0	9.5	3.5
Merged-chr13-81108657-4	chr13	81108575	81108775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	144601.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	42.5	52.5	52.5	902.5	66.0	36.5	44.5	47.0
Merged-chr6-116461048-3	chr6	116460940	116461140	+	800.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009662, exon 1 of 14)	5' UTR (NM_009662, exon 1 of 14)	138.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	8.5	9.0	9.5	166.5	15.5	6.0	9.5	10.0
Merged-chr10-11281757-3	chr10	11281660	11281860	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168297, intron 1 of 2)	CpG	173.0	NM_001168297	71865.0	Mm.276229	NM_027968	ENSMUSG00000047648	Fbxo30	1700026A16Rik|MUSA1	F-box protein 30	protein-coding	22.5	22.5	35.5	211.5	28.0	16.5	13.0	31.0
Merged-chr10-20841618-3	chr10	20841517	20841717	+	953.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-110930.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	14.0	11.5	14.0	244.5	7.0	5.0	11.0	7.5
Merged-chr17-33563305-4	chr17	33563215	33563415	+	913.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053214, intron 1 of 27)	intron (NM_053214, intron 1 of 27)	7608.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	10.5	22.0	13.5	212.0	26.0	13.5	17.0	18.0
Merged-chr18-68195215-4	chr18	68195098	68195298	+	936.9874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-32748.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	18.5	31.0	14.0	114.5	45.5	22.5	20.5	14.5
Merged-chr9-21313411-4	chr9	21313306	21313506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1073.0	NM_009678	11768.0	Mm.22239	NM_009678	ENSMUSG00000003309	Ap1m2	D9Ertd818e|[m]1B|mu1B	adaptor protein complex AP-1, mu 2 subunit	protein-coding	54.0	112.0	40.5	632.0	129.0	39.0	50.5	44.0
Merged-chr13-64929253-2	chr13	64929152	64929352	+	804.083374	f0_balb.idr|f1_balb.idr	Intergenic	MurERV4-int|LTR|ERVK	11846.0	NM_030047	78124.0	Mm.342895	NM_030047	ENSMUSG00000056223	Spata31	4930458L03Rik|Aep1|Fam75a|Spata31a|Vad1.3	spermatogenesis associated 31	protein-coding	10.5	34.5	10.5	334.5	0.0	0.0	1.5	0.0
Merged-chr4-130816941-3	chr4	130816862	130817062	+	699.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011520, exon 2 of 5)	exon (NM_011520, exon 2 of 5)	24425.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	9.0	8.0	11.5	152.5	7.5	6.0	4.0	14.0
Merged-chr4-122995581-4	chr4	122995471	122995671	+	853.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303121)	promoter-TSS (NM_001303121)	-360.0	NM_001303121	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	6.5	14.5	13.0	171.0	17.5	6.0	12.5	15.5
Merged-chr9-73116960-3	chr9	73116836	73117036	+	873.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198609, intron 3 of 5)	(T)n|Simple_repeat|Simple_repeat	3467.0	NM_198609	225215.0	Mm.379366	NM_198609	ENSMUSG00000032215	Rsl24d1	2410159K22Rik	ribosomal L24 domain containing 1	protein-coding	11.0	5.0	0.0	43.5	36.5	10.5	11.0	14.5
Merged-chr7-30090498-4	chr7	30090391	30090591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152814)	promoter-TSS (NM_152814)	19.0	NM_152814	72556.0	Mm.441512	NM_152814	ENSMUSG00000078768	Zfp566	2700043M03Rik|mszf4	zinc finger protein 566	protein-coding	202.0	207.5	137.0	2308.5	485.5	175.0	207.5	168.5
Merged-chr17-87106849-4	chr17	87106783	87106983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019654)	promoter-TSS (NM_019654)	-796.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	31.0	54.5	41.5	586.5	112.0	54.0	41.5	42.5
Merged-chr6-34384255-4	chr6	34384165	34384365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172398)	promoter-TSS (NM_172398)	18.0	NR_149754	67861.0	Mm.70371	NM_172398	ENSMUSG00000061758	Akr1b10	2310005E10Rik|Akr1b16	aldo-keto reductase family 1, member B10 (aldose reductase)	protein-coding	62.5	46.5	51.5	794.5	113.0	37.5	61.0	52.5
Merged-chr4-135661513-3	chr4	135661417	135661617	+	913.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24940.0	NM_174851	242700.0	Mm.259623	NM_174851	ENSMUSG00000062157	Ifnlr1	CRF2-12|Il28ra	interferon lambda receptor 1	protein-coding	8.0	30.0	21.5	185.5	14.5	5.0	6.0	7.0
Merged-chr1-173350126-3	chr1	173350021	173350221	+	906.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053199, intron 1 of 8)	intron (NM_053199, intron 1 of 8)	-16618.0	NM_010045	13349.0	Mm.6393	NM_010045	ENSMUSG00000037872	Ackr1	AA162249|CCBP1|CD234|Darc|Dfy|ESTM35|FY|GPD	atypical chemokine receptor 1 (Duffy blood group)	protein-coding	16.0	19.0	6.5	279.0	12.0	2.0	9.0	8.0
Merged-chr8-111061793-4	chr8	111061666	111061866	+	855.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5427.0	NM_028274	72544.0	Mm.24174	NM_028274	ENSMUSG00000109941	Exosc6	2610510N21Rik|C76919|Mtr3	exosome component 6	protein-coding	5.0	6.0	10.0	115.0	17.5	1.5	3.5	12.5
Merged-chr10-71347748-4	chr10	71347655	71347855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347191)	promoter-TSS (NM_001347191)	-8.0	NM_001347191	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	133.0	246.5	142.0	2701.5	417.5	151.0	183.0	167.5
Merged-chr15-4734291-4	chr15	4734180	4734380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016704, intron 3 of 15)	intron (NM_016704, intron 3 of 15)	7070.0	NM_016704	12274.0	Mm.20247	NM_016704	ENSMUSG00000022181	C6	AW111623	complement component 6	protein-coding	95.5	111.5	157.5	1742.0	180.0	67.5	105.0	61.0
Merged-chr12-118775591-4	chr12	118775480	118775680	+	826.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70749.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	17.5	21.0	14.5	280.5	28.0	11.0	3.5	8.5
Merged-chr6-120453383-4	chr6	120453290	120453490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9807.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	73.0	90.5	118.5	1656.5	183.5	61.0	61.0	84.0
Merged-chr19-43511735-4	chr19	43511641	43511841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 2 of 8)	intron (NM_010324, intron 2 of 8)	12864.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	87.5	116.5	76.5	1382.5	111.5	48.5	91.0	72.0
Merged-chr15-76802105-4	chr15	76802011	76802211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	16059.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	33.5	49.5	34.0	614.0	59.5	19.0	30.0	19.5
Merged-chr2-120540035-4	chr2	120539935	120540135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011743, intron 3 of 21)	intron (NM_011743, intron 3 of 21)	23824.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	105.5	144.0	91.0	1853.5	206.0	62.5	95.5	86.0
Merged-chr6-57533695-4	chr6	57533509	57533709	+	957.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175523, intron 1 of 6)	intron (NM_175523, intron 1 of 6)	1817.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	6.0	17.5	14.5	162.5	22.5	8.0	9.0	13.0
Merged-chr2-90490473-4	chr2	90490368	90490568	+	953.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-11294.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	13.5	34.5	22.5	402.0	74.0	20.0	24.0	16.0
Merged-chr19-11231466-4	chr19	11231366	11231566	+	930.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045317, intron 1 of 2)	intron (NR_045317, intron 1 of 2)	34649.0	NR_045317	75138.0	Mm.490787	NR_045317	ENSMUSG00000097091	4930526L06Rik	-	RIKEN cDNA 4930526L06 gene	ncRNA	20.5	22.5	22.0	180.5	40.5	18.5	14.0	11.5
Merged-chr11-50213641-4	chr11	50213541	50213741	+	924.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2821.0	NM_011018	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	22.0	19.5	9.0	174.0	33.5	22.5	12.0	11.5
Merged-chr3-30855962-8	chr3	30855947	30856147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134386)	promoter-TSS (NM_001134386)	97.0	NM_001286994	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	25.0	32.5	18.0	331.0	48.0	23.0	22.0	40.0
Merged-chr5-90909171-4	chr5	90909068	90909268	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5269.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	15.0	18.0	4.5	228.0	58.5	23.0	24.5	8.0
Merged-chr18-68499156-3	chr18	68499028	68499228	+	898.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69808.0	NM_001301372	17200.0	Mm.426053	NM_008560	ENSMUSG00000045569	Mc2r	ACTH-R|ACTHR|MC2-R	melanocortin 2 receptor	protein-coding	7.0	14.0	14.0	36.0	8.0	5.5	12.0	2.0
Merged-chr9-46168934-3	chr9	46168837	46169037	+	954.305542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 4 of 24)	intron (NM_027498, intron 4 of 24)	-59693.0	NM_009692	11806.0	Mm.26743	NM_009692	ENSMUSG00000032083	Apoa1	Alp-1|Apoa-1|Brp-14|Ltw-1|Lvtw-1|Sep-1|Sep-2|Sep2|apo-AI|apoA-I	apolipoprotein A-I	protein-coding	4.0	17.5	5.0	24.0	61.0	15.0	22.5	14.0
Merged-chr12-52615922-3	chr12	52615822	52616022	+	638.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13600.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	1.0	0.0	2.5	32.0	21.0	7.0	14.0	8.0
Merged-chr2-78054113-4	chr2	78054013	78054213	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_108098, intron 1 of 6)	MER34A|LTR|ERV1	2936.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	28.5	47.5	35.0	477.5	33.0	20.5	14.5	22.0
Merged-chr3-144589277-4	chr3	144589168	144589368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053102, intron 2 of 4)	intron (NM_053102, intron 2 of 4)	18841.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	22.0	35.0	40.5	671.5	60.0	23.0	30.5	49.5
Merged-chr1-152604433-3	chr1	152604333	152604533	+	940.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	20784.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	13.5	23.5	15.5	179.0	33.5	4.0	9.0	8.5
Merged-chr12-69228136-4	chr12	69228014	69228214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011133)	promoter-TSS (NM_011133)	76.0	NM_011133	18974.0	Mm.9199	NM_011133	ENSMUSG00000020974	Pole2	-	polymerase (DNA directed), epsilon 2 (p59 subunit)	protein-coding	55.5	63.5	43.0	494.0	53.0	32.5	29.0	23.5
Merged-chr9-45828663-4	chr9	45828555	45828755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081373)	promoter-TSS (NM_001081373)	-17.0	NM_001081373	214552.0	Mm.260103	NM_172531	ENSMUSG00000043987	Cep164	AI450905|BC027092|D030051D21|mKIAA1052	centrosomal protein 164	protein-coding	77.0	86.5	42.0	870.5	166.0	61.0	98.5	58.0
Merged-chr3-9946681-4	chr3	9946583	9946783	+	967.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65902.0	NM_001272097	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	22.0	24.0	25.5	581.5	50.5	16.5	20.0	16.5
Merged-chr3-9034685-4	chr3	9034580	9034780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27284.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	33.5	34.0	29.5	601.0	340.5	100.0	198.0	131.0
Merged-chr14-17457423-2	chr14	17457323	17457523	+	622.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-203537.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	7.5	4.5	6.0	62.0	10.5	3.0	2.5	2.0
Merged-chr19-60811628-4	chr19	60811548	60811748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347464)	promoter-TSS (NM_001347464)	93.0	NM_001347464	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	93.5	128.5	183.5	1451.0	171.0	71.0	82.0	80.5
Merged-chr11-83067354-4	chr11	83067255	83067455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011408, intron 1 of 1)	RLTR11A|LTR|ERVK	2243.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	19.0	37.0	11.5	214.5	58.5	22.0	23.5	22.5
Merged-chr13-43750514-3	chr13	43750411	43750611	+	579.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	33720.0	NR_046022	622552.0	Mm.375036	NR_046022	ENSMUSG00000110016	Gm20751	-	predicted gene, 20751	ncRNA	8.5	8.0	3.0	55.5	19.0	5.0	12.0	4.5
Merged-chr1-176813579-4	chr1	176813533	176813733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1027.0	NR_151682	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	34.0	27.0	31.0	379.5	87.5	25.0	28.0	22.5
Merged-chr9-66915599-4	chr9	66915494	66915694	+	992.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	4111.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	17.0	53.0	18.0	303.0	72.5	17.0	34.5	20.5
Merged-chr8-105900404-4	chr8	105900299	105900499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173432)	promoter-TSS (NM_173432)	-75.0	NM_173432	244631.0	Mm.27627	NM_173432	ENSMUSG00000048310	Pskh1	AW539964|E130013P03Rik|b2b1230Clo	protein serine kinase H1	protein-coding	100.5	147.5	63.0	1297.0	230.5	97.0	82.5	123.0
Merged-chr3-87935916-2	chr3	87935816	87936016	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177663, intron 2 of 3)	MTEa-int|LTR|ERVL-MaLR	5602.0	NM_177663	229504.0	Mm.45744	NM_177663	ENSMUSG00000048039	Isg20l2	4930429N24|C80587	interferon stimulated exonuclease gene 20-like 2	protein-coding	2.0	3.0	2.5	51.0	6.5	8.0	4.5	8.0
Merged-chr18-67610938-4	chr18	67610831	67611031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	30424.0	NM_001357523	225659.0	Mm.111928	NM_001081073	ENSMUSG00000073542	Cep76	6230425F05Rik|9630013E05	centrosomal protein 76	protein-coding	59.5	32.5	37.5	574.0	84.0	51.0	46.0	25.5
Merged-chr13-63254080-3	chr13	63253981	63254181	+	938.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	14052.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	12.5	10.5	19.5	149.5	18.0	4.0	10.5	10.0
Merged-chr3-79128011-4	chr3	79127926	79128126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 1 of 23)	intron (NM_001099624, intron 1 of 23)	16861.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	54.0	85.5	42.0	806.5	213.5	62.5	69.5	93.0
Merged-chr8-26435567-4	chr8	26435466	26435666	+	914.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	277397.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	9.0	16.0	19.0	221.5	31.0	6.5	15.5	5.0
Merged-chr5-120518318-4	chr5	120518213	120518413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	intron (NM_001177595, intron 2 of 13)	7121.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	36.5	33.5	32.5	302.0	55.0	12.5	17.5	26.0
Merged-chr8-24422265-4	chr8	24422140	24422340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16706.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	29.0	33.0	20.0	507.5	51.0	20.5	25.5	32.0
Merged-chr8-22166405-4	chr8	22166338	22166538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011848)	promoter-TSS (NM_011848)	-3.0	NM_011848	23954.0	Mm.41413	NM_011848	ENSMUSG00000031478	Nek3	-	NIMA (never in mitosis gene a)-related expressed kinase 3	protein-coding	143.0	252.5	185.5	2074.5	392.5	163.0	228.0	180.5
Merged-chr3-51228218-4	chr3	51228138	51228338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009834, intron 1 of 2)	B3|SINE|B2	3791.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	25.0	68.5	25.0	390.5	68.5	21.0	41.5	30.5
Merged-chr17-33810440-4	chr17	33810351	33810551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357162)	promoter-TSS (NM_001357162)	-72.0	NM_001357162	80880.0	Mm.196330	NM_030697	ENSMUSG00000042099	Kank3	0610013D04Rik|Ankrd47|D17Ertd288e|NG28	KN motif and ankyrin repeat domains 3	protein-coding	95.0	183.0	97.0	1501.0	293.0	93.0	93.5	106.5
Merged-chr1-191124016-5	chr1	191124016	191124216	+	852.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25702.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	13.0	9.5	9.5	103.0	22.0	4.0	10.0	21.5
Merged-chr5-129864614-3	chr5	129864513	129864713	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026445)	TTS (NM_026445)	14475.0	NR_145486	18682.0	Mm.3159	NM_011079	ENSMUSG00000025537	Phkg1	Phkg	phosphorylase kinase gamma 1	protein-coding	25.5	31.5	27.0	335.5	9.5	1.5	3.0	3.5
Merged-chr1-186117361-4	chr1	186117259	186117459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146106)	promoter-TSS (NM_146106)	-49.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	277.5	330.5	211.5	4505.5	674.0	256.0	334.0	265.5
Merged-chr13-99030787-4	chr13	99030702	99030902	+	978.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46237.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	21.0	28.5	19.5	311.0	56.0	12.0	16.0	17.0
Merged-chr15-97379978-4	chr15	97379854	97380054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 5 of 5)	intron (NM_172293, intron 5 of 5)	-132667.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	35.0	49.5	32.5	339.5	69.5	33.5	39.5	25.0
Merged-chr11-103030420-4	chr11	103030314	103030514	+	920.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008707, intron 1 of 11)	intron (NM_008707, intron 1 of 11)	1871.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	15.0	38.0	7.0	157.5	46.0	18.0	9.5	11.0
Merged-chr3-65188480-4	chr3	65188368	65188568	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289450, intron 1 of 14)	intron (NM_001289450, intron 1 of 14)	365.0	NM_001289450	16497.0	Mm.316402	NM_010597	ENSMUSG00000027827	Kcnab1	Akr8a8|Kvbeta1.1|mKv(beta)1	potassium voltage-gated channel, shaker-related subfamily, beta member 1	protein-coding	21.5	20.0	27.5	258.0	47.5	17.5	21.0	18.0
Merged-chr1-131198493-4	chr1	131198388	131198588	+	912.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 2 of 5)	intron (NM_018750, intron 2 of 5)	1697.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	16.0	13.5	17.5	352.5	35.0	9.5	11.5	11.5
Merged-chr4-49608964-4	chr4	49608841	49609041	+	799.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11065.0	NM_025944	67063.0	Mm.454013	NM_025944	ENSMUSG00000039611	Tmem246	2810432L12Rik|9330170P15Rik|AI835809	transmembrane protein 246	protein-coding	7.0	14.5	6.0	173.5	22.5	2.0	11.0	2.0
Merged-chr19-41385172-4	chr19	41385053	41385253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031376)	promoter-TSS (NM_031376)	-83.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	75.5	110.0	58.0	757.0	134.5	76.5	53.0	42.5
Merged-chr11-20403687-4	chr11	20403581	20403781	+	976.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-70968.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	13.5	5.0	14.5	185.5	28.0	8.0	19.0	23.5
Merged-chr17-67405797-4	chr17	67405693	67405893	+	821.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51302.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	24.5	37.0	34.5	253.5	35.5	4.5	4.0	11.5
Merged-chr7-141638835-2	chr7	141638735	141638935	+	938.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001330001, intron 31 of 33)	intron (NM_001330001, intron 31 of 33)	16484.0	NM_001330001	353328.0	Mm.246621	NM_181729	ENSMUSG00000048191	Muc6	-	mucin 6, gastric	protein-coding	6.5	19.0	6.0	51.5	11.5	9.0	3.0	8.0
Merged-chr4-88707314-4	chr4	88707218	88707418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15190.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	68.5	106.5	62.0	1164.0	152.5	38.5	61.5	56.0
Merged-chr9-106171649-2	chr9	106171541	106171741	+	823.5	f0_balb.idr|f1_balb.idr	intron (NM_029896, intron 1 of 8)	intron (NM_029896, intron 1 of 8)	712.0	NM_029896	77305.0	Mm.265125	NM_029896	ENSMUSG00000020257	Wdr82	9430077D24Rik|CDW5/WDR82	WD repeat domain containing 82	protein-coding	6.0	16.5	10.0	98.0	24.5	2.0	6.5	9.5
Merged-chr15-74896508-4	chr15	74896439	74896639	+	757.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14835.0	NM_025929	67038.0	Mm.154566	NM_025929	ENSMUSG00000063522	2010109I03Rik	Ly6m	RIKEN cDNA 2010109I03 gene	protein-coding	7.5	11.5	3.0	136.5	21.0	11.0	6.5	12.0
Merged-chr12-55820415-3	chr12	55820296	55820496	+	893.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003719, intron 1 of 39)	intron (NM_001003719, intron 1 of 39)	1120.0	NM_019994	56784.0	Mm.292180	NM_019994	ENSMUSG00000021027	Ralgapa1	2310003F20Rik|4930400K19Rik|AI563624|GRIPE|Garnl1|Tulip1|mKIAA0884	Ral GTPase activating protein, alpha subunit 1	protein-coding	9.0	8.5	19.0	110.0	5.5	9.0	7.0	3.5
Merged-chr7-132813811-4	chr7	132813677	132813877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_212473)	promoter-TSS (NM_212473)	-581.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	44.5	67.0	29.0	688.0	81.0	22.0	52.0	44.5
Merged-chr14-69861597-4	chr14	69861487	69861687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 3 of 6)	intron (NM_028560, intron 3 of 6)	21180.0	NM_028526	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	33.0	60.5	22.5	454.5	79.5	47.0	45.0	35.0
Merged-chr18-23812714-5	chr18	23812595	23812795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	8725.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	22.0	42.5	25.0	161.0	56.5	27.5	21.5	22.0
Merged-chr15-5447059-4	chr15	5446949	5447149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49269.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	68.0	79.5	71.5	1019.5	241.0	60.5	63.0	53.0
Merged-chr6-72439128-4	chr6	72439025	72439225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_046011, exon 1 of 1)	non-coding (NR_046011, exon 1 of 1)	433.0	NM_145569	232087.0	Mm.29815	NM_145569	ENSMUSG00000053907	Mat2a	D630045P18Rik	methionine adenosyltransferase II, alpha	protein-coding	113.0	310.5	108.5	1782.0	523.5	213.0	160.0	154.0
Merged-chr14-55681965-4	chr14	55681852	55682052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145705)	promoter-TSS (NM_145705)	-135.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	191.0	271.5	142.5	2326.5	295.0	126.0	127.0	149.0
Merged-chr4-106911421-4	chr4	106911326	106911526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023672)	promoter-TSS (NM_023672)	-44.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	89.5	116.5	45.5	1358.0	215.0	85.0	125.0	62.5
Merged-chr8-94172134-1	chr8	94172034	94172234	+	630.0	f0_balb.idr	promoter-TSS (NM_008630)	promoter-TSS (NM_008630)	-484.0	NM_008630	17750.0	Mm.147226	NM_008630	ENSMUSG00000031762	Mt2	AA409533|MT-II|Mt-2	metallothionein 2	protein-coding	11.0	4.0	5.0	112.0	20.0	5.5	7.0	10.0
Merged-chr17-47499170-4	chr17	47499045	47499245	+	850.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356290, intron 2 of 7)	RMER6A|LTR|ERVK	3146.0	NM_001356290	63856.0	Mm.275901	NM_022015	ENSMUSG00000023980	Taf8	AW260255|Tbn	TATA-box binding protein associated factor 8	protein-coding	8.0	25.5	14.5	120.0	30.5	10.5	10.0	15.5
Merged-chr14-73509949-4	chr14	73509840	73510040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026119)	promoter-TSS (NM_026119)	-109.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	62.0	100.0	60.5	801.0	265.5	80.0	80.5	83.0
Merged-chr10-69352332-3	chr10	69352255	69352455	+	873.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007659, intron 1 of 7)	intron (NM_007659, intron 1 of 7)	557.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	7.0	5.0	21.0	130.0	24.0	8.5	12.5	10.5
Merged-chr5-147072042-3	chr5	147071935	147072135	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	4537.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	83.0	83.0	79.5	1094.0	2.5	3.0	10.0	2.0
Merged-chr4-87652434-4	chr4	87652330	87652530	+	876.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153893.0	NM_001286158	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	17.0	21.5	17.5	214.0	39.0	11.0	6.0	3.5
Merged-chr16-22517771-4	chr16	22517646	22517846	+	953.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_130988)	TTS (NR_130988)	6266.0	NR_130988	78082.0	Mm.243927	NR_130988	ENSMUSG00000089874	9230117E06Rik	-	RIKEN cDNA 9230117E06 gene	ncRNA	10.5	27.0	20.0	313.5	39.5	12.0	14.0	18.5
Merged-chr1-170277248-3	chr1	170277169	170277369	+	716.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012009)	promoter-TSS (NM_012009)	-49.0	NM_012009	26904.0	Mm.57009	NM_012009	ENSMUSG00000102418	Sh2d1b1	EAT-2|EAT-2A|Eat2|Eat2a|Sh2d1b	SH2 domain containing 1B1	protein-coding	9.0	11.5	16.0	145.5	19.5	3.0	1.5	1.5
Merged-chr2-62646749-1	chr2	62646649	62646849	+	545.0	f1_balb.idr	promoter-TSS (NM_027835)	promoter-TSS (NM_027835)	-494.0	NM_001164477	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	5.0	4.0	6.0	60.5	14.5	5.0	9.0	7.0
Merged-chr2-130274366-4	chr2	130274246	130274446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024193)	promoter-TSS (NM_024193)	-66.0	NM_024193	67134.0	Mm.29363	NM_024193	ENSMUSG00000027405	Nop56	2310044F10Rik|Nol5a	NOP56 ribonucleoprotein	protein-coding	176.0	290.0	100.5	1696.0	510.5	154.0	179.0	154.5
Merged-chr11-110697213-4	chr11	110697114	110697314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	217874.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	54.0	101.5	51.0	952.5	116.0	45.0	60.0	52.5
Merged-chr11-101657912-4	chr11	101657816	101658016	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7625.0	NM_025404	80981.0	Mm.266840	NM_025404	ENSMUSG00000034936	Arl4d	1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5	ADP-ribosylation factor-like 4D	protein-coding	18.5	16.0	18.0	116.5	31.0	7.5	12.5	23.5
Merged-chr1-80655377-4	chr1	80655290	80655490	+	962.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	9962.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	16.5	27.0	10.5	369.5	45.0	14.5	21.5	18.0
Merged-chr15-101267623-4	chr15	101267551	101267751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010444, intron 1 of 6)	intron (NM_010444, intron 1 of 6)	805.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	44.0	93.0	15.0	190.0	235.5	120.0	51.0	34.0
Merged-chr11-69759485-4	chr11	69759386	69759586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291068)	promoter-TSS (NM_001291068)	-853.0	NM_001291068	20020.0	Mm.16533	NM_009089	ENSMUSG00000005198	Polr2a	220kDa|Rpb1|Rpo2-1	polymerase (RNA) II (DNA directed) polypeptide A	protein-coding	41.5	76.5	35.5	321.5	117.5	50.5	30.0	37.5
Merged-chr13-101805854-4	chr13	101805749	101805949	+	911.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37632.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	12.0	17.5	14.5	249.0	62.0	11.5	33.0	4.5
Merged-chr4-55364536-3	chr4	55364429	55364629	+	728.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	B3|SINE|B2	14487.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	6.0	11.0	6.0	92.0	21.5	4.5	5.5	5.0
Merged-chr7-80232770-4	chr7	80232655	80232855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011870)	promoter-TSS (NM_011870)	50.0	NM_001291276	23991.0	Mm.30217	NM_011870	ENSMUSG00000030538	Cib1	Cibkip|Kip|Prkdcip	calcium and integrin binding 1 (calmyrin)	protein-coding	213.5	313.5	239.5	2886.0	634.0	267.0	245.5	186.0
Merged-chr3-9865053-4	chr3	9864953	9865153	+	886.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-31374.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	16.0	15.0	26.0	490.0	27.0	8.5	22.0	11.5
Merged-chr11-49243389-4	chr11	49243289	49243489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010794)	promoter-TSS (NM_010794)	-802.0	NM_010794	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	27.0	27.0	11.5	254.0	73.0	21.0	17.5	22.0
Merged-chr7-35086042-2	chr7	35085942	35086142	+	997.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-29476.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	5.5	5.0	5.0	52.0	14.0	4.5	4.0	6.0
Merged-chr9-123722909-4	chr9	123722808	123723008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5283.0	NR_151689	93730.0	Mm.378263	NM_033322	ENSMUSG00000025245	Lztfl1	5530402H04Rik|6130400H19Rik|AI414725|AW048545	leucine zipper transcription factor-like 1	protein-coding	32.0	76.5	35.0	241.5	104.0	44.0	37.5	25.5
Merged-chr9-96438833-3	chr9	96438757	96438957	+	731.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39818.0	NM_011279	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	7.0	5.5	4.5	71.0	12.5	7.0	2.0	10.5
Merged-chr2-154613941-1	chr2	154613841	154614041	+	1000.0	f1_balb.idr	intron (NM_199304, intron 1 of 14)	CpG	573.0	NM_199304	228807.0	Mm.103555	NM_199304	ENSMUSG00000059842	Zfp341	Znf341	zinc finger protein 341	protein-coding	18.0	25.0	13.5	142.5	32.5	6.5	18.0	26.0
Merged-chr13-43478717-3	chr13	43478635	43478835	+	964.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019930, intron 1 of 13)	intron (NM_019930, intron 1 of 13)	2238.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	8.0	14.0	3.0	182.0	16.0	6.5	4.5	11.5
Merged-chr2-80176186-2	chr2	80176086	80176286	+	715.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46528.0	NM_001355140	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	3.5	2.5	6.0	22.0	28.0	4.5	6.5	8.5
Merged-chr2-5804615-4	chr2	5804472	5804672	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356502, intron 8 of 11)	intron (NM_001356502, intron 8 of 11)	-40462.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	18.0	21.0	23.0	457.0	45.0	13.5	25.0	37.5
Merged-chr1-120265399-4	chr1	120265289	120265489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133186)	promoter-TSS (NM_133186)	-109.0	NM_133186	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	186.0	194.0	193.5	2996.0	263.0	96.0	157.5	118.5
Merged-chr2-44313827-3	chr2	44313713	44313913	+	970.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 12 of 14)	intron (NM_001301831, intron 12 of 14)	-248489.0	NR_040622	320872.0	Mm.445023	NR_040622	ENSMUSG00000085089	Arhgap15os	A430092G05Rik	Rho GTPase activating protein 15, opposite strand	ncRNA	6.5	5.0	9.5	249.0	13.5	8.0	10.5	7.0
Merged-chr14-19975152-4	chr14	19975084	19975284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285908, intron 1 of 3)	intron (NM_001285908, intron 1 of 3)	1509.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	43.5	63.5	26.0	587.0	71.5	32.0	28.5	38.0
Merged-chr2-34771959-4	chr2	34771925	34772125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022310)	promoter-TSS (NM_022310)	-65.0	NM_001163434	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	266.5	559.0	255.5	2785.0	749.0	364.0	325.0	257.0
Merged-chr19-40513835-4	chr19	40513743	40513943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009166)	promoter-TSS (NM_009166)	-31.0	NM_009166	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	280.0	359.0	247.0	4311.0	464.0	180.5	296.0	206.5
Merged-chr7-88242759-4	chr7	88242666	88242866	+	797.987488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35319.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	9.5	25.5	10.5	206.0	22.5	9.0	10.5	19.5
Merged-chr2-159783424-3	chr2	159783320	159783520	+	952.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163921.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	3.5	3.0	1.5	12.0	37.0	17.0	19.0	13.0
Merged-chr7-132226881-4	chr7	132226797	132226997	+	789.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72156.0	NM_018867	55987.0	Mm.471654	NM_018867	ENSMUSG00000030862	Cpxm2	4632435C11Rik|CPX-2|Cpx2	carboxypeptidase X 2 (M14 family)	protein-coding	7.0	4.5	1.5	92.5	33.0	12.0	9.5	6.5
Merged-chr7-133053031-4	chr7	133052932	133053132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	28828.0	NM_001347623	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	108.5	167.5	107.5	1774.5	249.5	103.0	136.5	111.5
Merged-chr8-26239832-4	chr8	26239749	26239949	+	871.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81680.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	7.0	14.0	13.0	242.5	9.0	8.0	12.5	10.0
Merged-chr16-77030615-4	chr16	77030510	77030710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 1 of 23)	intron (NM_013918, intron 1 of 23)	16541.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	135.5	184.5	164.0	1842.5	249.0	105.0	118.0	92.0
Merged-chr3-36857739-4	chr3	36857663	36857863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-5343.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	32.5	42.0	21.0	456.0	107.0	23.0	46.0	25.0
Merged-chr11-93980022-4	chr11	93979923	93980123	+	961.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11502.0	NM_008704	18102.0	Mm.439702	NM_008704	ENSMUSG00000037601	Nme1	AL024257|NDPK-A|NM23-M1|NM23A	NME/NM23 nucleoside diphosphate kinase 1	protein-coding	33.5	21.0	10.5	170.5	51.5	15.0	25.0	12.5
Merged-chr15-98728146-3	chr15	98728000	98728200	+	990.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357893)	promoter-TSS (NM_001357893)	98.0	NM_024169	66120.0	Mm.30729	NM_024169	ENSMUSG00000003355	Fkbp11	1110002O23Rik|FKBP-11	FK506 binding protein 11	protein-coding	14.0	18.5	13.5	143.5	16.5	3.0	12.5	6.5
Merged-chr8-14669607-4	chr8	14669542	14669742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-218894.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	77.5	121.5	85.5	1519.0	139.5	57.0	88.5	68.5
Merged-chr9-25251975-3	chr9	25251884	25252084	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001205367)	promoter-TSS (NM_001205367)	-7.0	NM_001359736	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	31.5	71.0	65.0	565.0	91.5	53.0	50.5	65.0
Merged-chr13-41469725-4	chr13	41469624	41469824	+	981.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	17636.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	36.5	55.5	56.0	582.0	60.5	24.5	16.5	20.0
Merged-chr8-3631722-4	chr8	3631611	3631811	+	977.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357168, intron 1 of 18)	intron (NM_001357168, intron 1 of 18)	602.0	NM_011503	20911.0	Mm.7247	NM_011503	ENSMUSG00000004626	Stxbp2	C79054|Munc-18-2|Munc-18b|Munc18b|Sxtbp2|Sxtp2|Unc18-2|Unc18b|muSec1	syntaxin binding protein 2	protein-coding	15.0	30.5	21.0	381.0	46.5	13.5	39.5	28.5
Merged-chr3-87906188-4	chr3	87906095	87906295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331052)	promoter-TSS (NM_001331052)	-126.0	NM_008231	15191.0	Mm.292208	NM_008231	ENSMUSG00000004897	Hdgf	AI118077|D3Ertd299e	hepatoma-derived growth factor	protein-coding	221.5	467.0	253.5	3378.0	416.5	157.5	204.0	158.0
Merged-chr13-89385868-4	chr13	89385782	89385982	+	851.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-154754.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	9.0	6.5	6.0	101.0	41.5	10.5	14.5	21.0
Merged-chr6-87496362-4	chr6	87496274	87496474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175476)	promoter-TSS (NM_175476)	-47.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	42.0	71.5	40.5	710.5	160.5	29.0	35.5	53.5
Merged-chr1-51498147-4	chr1	51498048	51498248	+	914.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19749.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	11.5	30.5	15.5	189.0	32.0	15.0	14.5	13.0
Merged-chr3-96661681-4	chr3	96661595	96661795	+	765.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302471, intron 27 of 29)	intron (NM_001302471, intron 27 of 29)	-8436.0	NM_001356539	213121.0	Mm.39732	NM_001081139	ENSMUSG00000038354	Ankrd35	4732436F15Rik	ankyrin repeat domain 35	protein-coding	10.5	9.5	7.5	108.5	25.5	13.5	6.0	5.5
Merged-chr15-36931634-4	chr15	36931535	36931735	+	881.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	75767.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	12.5	12.5	6.5	132.5	24.5	9.5	11.5	19.0
Merged-chr3-130795003-4	chr3	130794883	130795083	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64585.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	21.5	16.5	32.5	393.5	38.5	8.5	21.5	22.0
Merged-chr12-59066868-4	chr12	59066767	59066967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008891)	promoter-TSS (NM_008891)	-52.0	NM_008891	18949.0	Mm.22347	NM_008891	ENSMUSG00000020994	Pnn	AU045199|D12Ertd512e	pinin	protein-coding	232.5	415.5	223.0	3848.5	696.0	178.0	303.5	192.0
Merged-chr9-48161982-4	chr9	48161877	48162077	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR67B|LTR|ERVL	178921.0	NM_030069	78252.0	Mm.31626	NM_030069	ENSMUSG00000032028	Nxpe2	4432416J03Rik|AI323362|Fam55b	neurexophilin and PC-esterase domain family, member 2	protein-coding	24.5	53.5	9.0	441.0	42.0	26.5	13.0	12.0
Merged-chr14-58323327-4	chr14	58323217	58323417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	250631.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	33.5	43.0	47.5	749.0	51.0	23.0	31.0	30.0
Merged-chr10-84441263-4	chr10	84441142	84441342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004363)	promoter-TSS (NM_001004363)	-771.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	28.0	46.5	23.5	194.0	65.0	20.0	22.5	25.5
Merged-chr14-102982671-5	chr14	102982573	102982773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_039592)	promoter-TSS (NR_039592)	-36.0	NM_177715	239217.0	Mm.246466	NM_177715	ENSMUSG00000098557	Kctd12	AU046135|AW538430|Pfet1|Pfetin	potassium channel tetramerisation domain containing 12	protein-coding	238.0	310.0	276.5	3349.5	642.5	271.5	343.0	259.0
Merged-chr9-38820343-4	chr9	38820285	38820485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4977.0	NM_146781	258777.0	Mm.223208	NM_146781	ENSMUSG00000043911	Olfr922	MOR161-3	olfactory receptor 922	protein-coding	16.0	28.5	30.0	388.5	61.5	22.5	26.5	31.5
Merged-chr19-6278302-4	chr19	6278196	6278396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 1 of 4)	intron (NM_010119, intron 1 of 4)	1400.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	169.5	264.5	188.5	1910.5	309.5	148.5	194.5	79.0
Merged-chr2-147022210-4	chr2	147022119	147022319	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 1 of 28)	intron (NM_001356402, intron 1 of 28)	9220.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	33.0	28.5	23.0	466.5	62.0	14.5	26.5	34.5
Merged-chr17-78247219-4	chr17	78247108	78247308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	intron (NM_015800, intron 2 of 16)	46960.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	26.0	56.0	29.0	1006.0	100.5	23.5	43.5	36.0
Merged-chr11-78807591-3	chr11	78807496	78807696	+	799.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-18999.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	17.0	9.0	6.5	149.0	9.5	3.5	9.0	11.0
Merged-chr3-27446208-2	chr3	27446108	27446308	+	652.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 23 of 26)	intron (NM_001356953, intron 23 of 26)	74857.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	1.0	6.0	4.0	50.0	9.0	6.0	5.0	6.5
Merged-chr6-48504359-4	chr6	48504252	48504452	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015597)	promoter-TSS (NR_015597)	13.0	NR_027808	58894.0	Mm.31983	NR_015597	ENSMUSG00000107476	Zfp862-ps	4732460K03Rik|AI448302|Zfp862|mKIAA0543	zinc finger protein 862, pseudogene	pseudo	20.0	28.5	26.5	232.0	85.5	29.0	45.5	39.5
Merged-chr2-150666024-3	chr2	150665940	150666140	+	826.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080575, intron 1 of 13)	intron (NM_080575, intron 1 of 13)	-1454.0	NR_040331	109344.0	Mm.440012	NR_040331	ENSMUSG00000087406	E130215H24Rik	-	RIKEN cDNA E130215H24 gene	ncRNA	12.0	11.5	15.5	344.0	8.5	1.0	6.0	8.5
Merged-chr2-5895413-4	chr2	5895295	5895495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356411)	promoter-TSS (NM_001356411)	37.0	NM_021305	57743.0	Mm.21435	NM_021305	ENSMUSG00000025816	Sec61a2	-	Sec61, alpha subunit 2 (S. cerevisiae)	protein-coding	161.5	257.5	154.0	2159.0	346.5	152.5	214.0	142.0
Merged-chr1-51509230-4	chr1	51509131	51509331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_151621)	TTS (NR_151621)	-30832.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	65.0	81.0	38.5	572.0	117.5	29.5	46.5	36.5
Merged-chr10-51498517-4	chr10	51498411	51498611	+	912.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	7613.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	14.5	31.0	9.0	215.0	25.5	13.0	14.0	19.5
Merged-chr16-44725078-4	chr16	44724960	44725160	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145972, intron 1 of 8)	intron (NM_145972, intron 1 of 8)	759.0	NM_145972	212547.0	Mm.310573	NM_145972	ENSMUSG00000036208	Nepro	-	nucleolus and neural progenitor protein	protein-coding	2.0	11.5	8.5	141.5	24.0	14.0	11.5	9.0
Merged-chr6-124918024-6	chr6	124917867	124918067	+	898.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026988)	promoter-TSS (NM_026988)	-21.0	NM_026988	69202.0	Mm.142187	NM_026988	ENSMUSG00000030122	Ptms	2610009E16Rik	parathymosin	protein-coding	17.0	8.5	11.5	69.5	15.0	9.0	15.5	12.0
Merged-chr8-123190950-4	chr8	123190866	123191066	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007876, intron 1 of 10)	intron (NM_007876, intron 1 of 10)	4731.0	NM_007876	13479.0	Mm.20388	NM_007876	ENSMUSG00000019278	Dpep1	AI327012|MBD	dipeptidase 1 (renal)	protein-coding	19.0	21.5	19.5	159.0	64.0	16.5	19.5	19.5
Merged-chr11-98863579-4	chr11	98863489	98863689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197940)	promoter-TSS (NM_197940)	-9.0	NM_197940	68524.0	Mm.28661	NM_197940	ENSMUSG00000038013	Wipf2	1110014J05Rik|5730509C05Rik|AA407487|Gm1176|Wich|Wire	WAS/WASL interacting protein family, member 2	protein-coding	39.5	99.0	44.5	589.5	134.0	61.5	68.0	63.0
Merged-chr7-141455091-4	chr7	141454997	141455197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163689)	promoter-TSS (NM_001163689)	-91.0	NM_025802	66853.0	Mm.29998	NM_025802	ENSMUSG00000025509	Pnpla2	0610039C21Rik|1110001C14Rik|Atgl|TTS-2.2	patatin-like phospholipase domain containing 2	protein-coding	129.5	158.5	74.5	1070.5	285.5	101.0	98.0	63.0
Merged-chr13-40939226-4	chr13	40939120	40939320	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	intron (NM_133219, intron 1 of 2)	21586.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	34.0	48.5	59.0	722.5	86.0	16.0	36.0	17.0
Merged-chr18-65505996-4	chr18	65505845	65506045	+	936.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	MTC-int|LTR|ERVL-MaLR	-74285.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	23.5	67.0	42.5	539.5	34.5	7.0	11.0	15.5
Merged-chr3-28746319-4	chr3	28746214	28746414	+	917.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34963.0	NM_177586	208691.0	Mm.193670	NM_177586	ENSMUSG00000050192	Eif5a2	9630038B20|eIF5AII	eukaryotic translation initiation factor 5A2	protein-coding	18.5	34.5	13.5	342.5	45.0	16.0	26.5	12.0
Merged-chr5-64204188-4	chr5	64204151	64204351	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-26106.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	9.5	7.5	26.5	333.0	31.0	9.5	11.5	10.0
Merged-chr10-80566487-4	chr10	80566350	80566550	+	864.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_078477)	TTS (NM_078477)	-4890.0	NM_025852	66932.0	Mm.1116	NM_025852	ENSMUSG00000047417	Rexo1	1700021P10Rik|2610511M11Rik|AW050347|EloA-BP1|Rex1|Tceb3bp1	REX1, RNA exonuclease 1	protein-coding	10.0	15.0	4.5	65.0	29.5	9.0	18.0	10.5
Merged-chr5-19901851-4	chr5	19901736	19901936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	MIRb|SINE|MIR	-5682.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	20.0	24.5	28.0	533.5	60.0	24.5	33.0	37.0
Merged-chr7-27446833-4	chr7	27446699	27446899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032610)	promoter-TSS (NM_032610)	-210.0	NM_032610	80297.0	Mm.459123	NM_032610	ENSMUSG00000011751	Sptbn4	1700022P15Rik|5830426A08Rik|ROSA62|SpbIV|Spnb4|dyn|lnd|nmf261|nmf379|qv	spectrin beta, non-erythrocytic 4	protein-coding	65.0	67.0	66.5	951.5	122.0	47.5	72.5	38.5
Merged-chr1-45881534-4	chr1	45881433	45881633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44061.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	156.5	210.5	224.0	2340.0	339.0	126.0	132.5	133.5
Merged-chr5-113402874-4	chr5	113402776	113402976	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45582.0	NM_001012726	503692.0	Mm.348794	NM_001012726	ENSMUSG00000053873	Aym1	-	activator of yeast meiotic promoters 1	protein-coding	21.0	29.0	60.5	550.0	30.0	7.5	11.0	13.0
Merged-chr8-8992898-3	chr8	8992759	8992959	+	719.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139429.0	NR_045854	71249.0	Mm.158635	NR_045854	ENSMUSG00000108848	4933430N04Rik	-	RIKEN cDNA 4933430N04 gene	ncRNA	15.0	17.5	11.5	64.5	22.0	2.5	4.0	8.5
Merged-chr10-60835070-4	chr10	60834931	60835131	+	970.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3450.0	NM_001359273	107449.0	Mm.290433	NM_029770	ENSMUSG00000020099	Unc5b	6330415E02Rik|A630020F16|D10Bwg0792e|Unc5h2	unc-5 netrin receptor B	protein-coding	11.5	10.5	12.0	107.5	31.0	17.0	16.0	7.5
Merged-chr17-83682100-4	chr17	83681980	83682180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24083.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	3.5	6.5	24.0	257.0	39.5	7.0	26.0	17.5
Merged-chr1-53777947-2	chr1	53777854	53778054	+	663.0	f0_balb.idr|f1_balb.idr	intron (NM_133810, intron 1 of 7)	ORR1F|LTR|ERVL-MaLR	7261.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	11.0	11.5	5.5	113.5	9.0	4.5	1.5	2.5
Merged-chr11-117108851-2	chr11	117108751	117108951	+	724.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6321.0	NR_029459	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	2.0	6.5	4.0	91.5	5.0	7.0	5.0	6.0
Merged-chr19-53314318-4	chr19	53314242	53314442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	CpG	2897.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	210.5	267.0	205.5	3355.5	529.0	200.0	269.5	244.5
Merged-chr16-36477122-4	chr16	36477038	36477238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21746.0	NM_025288	20863.0	Mm.136573	NM_025288	ENSMUSG00000054905	Stfa3	Stf3	stefin A3	protein-coding	106.5	196.5	136.0	1953.0	399.0	105.0	169.0	183.5
Merged-chr2-25574885-4	chr2	25574748	25574948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029293)	promoter-TSS (NM_029293)	23.0	NM_029293	75454.0	Mm.458079	NM_029293	ENSMUSG00000036504	Phpt1	1700008C22Rik|PHP|Php14	phosphohistidine phosphatase 1	protein-coding	70.0	144.5	104.5	803.0	194.5	78.5	92.5	88.5
Merged-chr16-21692956-4	chr16	21692834	21693034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	RSINE1|SINE|B4	1731.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	86.0	121.0	42.5	709.5	206.0	70.0	50.0	49.0
Merged-chr6-86504358-4	chr6	86504268	86504468	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16141.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	7.5	13.5	4.0	204.0	43.5	15.5	22.0	13.0
Merged-chr10-95372102-4	chr10	95372009	95372209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35833.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	64.0	92.5	60.0	627.0	239.5	65.0	51.0	56.0
Merged-chr16-57385383-3	chr16	57385310	57385510	+	632.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	32133.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	11.0	5.0	15.0	91.0	10.0	8.0	14.0	3.5
Merged-chr11-100325214-4	chr11	100325059	100325259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5210.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	69.5	100.5	41.0	765.0	115.0	44.0	61.5	60.0
Merged-chr4-43820377-4	chr4	43820273	43820473	+	820.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019474)	TTS (NM_019474)	1060.0	NM_019474	29846.0	Mm.377121	NM_019474	ENSMUSG00000110970	Olfr156	MOR262-6|OR37B|Olfr37b|mOR37b	olfactory receptor 156	protein-coding	6.0	9.0	18.5	251.5	22.5	10.0	10.0	12.0
Merged-chr1-136346103-4	chr1	136346000	136346200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347110)	promoter-TSS (NM_001347110)	4.0	NM_001347109	67886.0	Mm.144143	NM_001081360	ENSMUSG00000041570	Camsap2	1600013L13Rik|4930541M15Rik|Camsap1l1|mKIAA1078	calmodulin regulated spectrin-associated protein family, member 2	protein-coding	73.0	63.0	75.0	848.0	124.0	28.0	55.0	56.0
Merged-chr9-99491248-3	chr9	99491158	99491358	+	908.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 18 of 21)	intron (NM_028768, intron 18 of 21)	20837.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	13.5	15.0	12.5	134.5	63.5	9.5	9.5	7.0
Merged-chr7-45081275-3	chr7	45081148	45081348	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	10965.0	NM_026555	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	9.5	8.5	17.0	194.0	28.5	3.0	6.0	6.0
Merged-chr6-100335598-3	chr6	100335476	100335676	+	584.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48218.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	6.0	8.5	4.5	96.0	17.0	3.5	6.0	7.0
Merged-chr9-90105680-4	chr9	90105596	90105796	+	925.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 3 of 12)	intron (NM_001039147, intron 3 of 12)	9124.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	12.5	30.5	16.5	234.5	46.0	10.5	16.0	17.0
Merged-chr10-26375969-4	chr10	26375862	26376062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172787)	promoter-TSS (NM_172787)	-743.0	NM_172787	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	15.0	32.0	19.5	230.0	46.5	19.5	28.5	24.5
Merged-chr2-5951893-4	chr2	5951756	5951956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081132, intron 1 of 21)	CpG	387.0	NM_001081132	326622.0	Mm.31102	NM_001081132	ENSMUSG00000043241	Upf2	-	UPF2 regulator of nonsense transcripts homolog (yeast)	protein-coding	32.5	29.0	20.5	285.0	43.0	21.0	22.0	18.0
Merged-chr2-128771245-4	chr2	128771151	128771351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 8 of 18)	intron (NM_008587, intron 8 of 18)	-47052.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	27.0	41.0	52.5	544.0	61.0	19.0	16.0	26.0
Merged-chr11-102295489-4	chr11	102295428	102295628	+	662.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098836, intron 1 of 12)	intron (NM_001098836, intron 1 of 12)	1101.0	NM_001098836	217218.0	Mm.390381	NM_001098836	ENSMUSG00000059995	Atxn7l3	E030022H21Rik	ataxin 7-like 3	protein-coding	9.5	15.0	4.0	39.5	19.0	8.5	13.0	8.0
Merged-chr13-119713593-1	chr13	119713493	119713693	+	1000.0	f0_balb.idr	intron (NM_175538, intron 3 of 3)	intron (NM_175538, intron 3 of 3)	23242.0	NM_001291439	208715.0	Mm.61526	NM_145942	ENSMUSG00000093930	Hmgcs1	B130032C06Rik	3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1	protein-coding	10.5	6.0	17.0	316.0	21.0	7.0	13.0	15.0
Merged-chr8-106563757-4	chr8	106563666	106563866	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23377.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	39.5	31.0	29.0	439.0	77.0	19.5	28.0	19.0
Merged-chr12-80014542-4	chr12	80014463	80014663	+	852.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78299.0	NR_131074	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	7.0	22.0	12.5	175.0	4.0	7.0	10.5	15.5
Merged-chr2-153299154-4	chr2	153299076	153299276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008444, intron 1 of 8)	MIRb|SINE|MIR	7760.0	NM_008444	16569.0	Mm.315560	NM_008444	ENSMUSG00000027475	Kif3b	AI854312|AW549267|mKIAA0359	kinesin family member 3B	protein-coding	96.0	89.0	108.5	1475.0	174.5	53.0	77.5	74.5
Merged-chr9-46028167-4	chr9	46028070	46028270	+	792.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	15350.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	17.5	18.0	12.0	269.5	24.0	10.5	29.5	15.0
Merged-chr14-17414439-4	chr14	17414339	17414539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-246521.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	77.0	84.0	91.0	1261.5	176.0	60.5	69.0	62.0
Merged-chr13-42077179-4	chr13	42077085	42077285	+	977.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	ORR1D2|LTR|ERVL-MaLR	25164.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	14.0	35.0	16.0	246.5	118.5	11.5	33.0	42.5
Merged-chr11-47156862-2	chr11	47156762	47156962	+	674.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 3 of 7)	B4A|SINE|B4	222440.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	6.5	8.0	4.5	44.0	11.5	3.5	8.5	4.5
Merged-chr1-165724922-1	chr1	165724822	165725022	+	788.333313	f0_balb.idr	Intergenic	Intergenic	-16828.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	8.5	13.0	6.5	131.5	12.5	7.5	11.0	9.0
Merged-chr1-46873636-2	chr1	46873536	46873736	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356417, intron 2 of 10)	intron (NM_001356417, intron 2 of 10)	-20018.0	NM_172653	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	16.0	24.0	11.5	252.5	37.5	11.0	15.0	21.0
Merged-chr7-128133847-4	chr7	128133751	128133951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021334, intron 8 of 29)	intron (NM_021334, intron 8 of 29)	4283.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	89.5	119.0	89.5	1120.5	175.0	53.0	75.0	75.0
Merged-chr2-167624515-2	chr2	167624415	167624615	+	839.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_023230, intron 1 of 3)	intron (NM_023230, intron 1 of 3)	7490.0	NM_001311146	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	8.5	3.0	1.0	31.5	20.0	5.5	4.5	9.0
Merged-chr3-116861184-2	chr3	116861078	116861278	+	813.0	f0_c57.idr|f1_balb.idr	promoter-TSS (NM_009146)	promoter-TSS (NM_009146)	-502.0	NM_009146	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	0.0	6.5	2.0	24.5	14.5	8.0	9.5	16.5
Merged-chr1-130549906-2	chr1	130549806	130550006	+	835.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	79700.0	NM_009581	22789.0	Mm.4644	NM_009581	ENSMUSG00000042554	Zp3r	AV264399|SP56	zona pellucida 3 receptor	protein-coding	3.5	10.0	1.0	94.0	8.5	5.5	14.5	5.5
Merged-chr12-104131253-4	chr12	104131163	104131363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173024, intron 2 of 4)	intron (NM_173024, intron 2 of 4)	3267.0	NM_173024	271047.0	Mm.120265	NM_173024	ENSMUSG00000066364	Serpina3b	6A1|A030003A19Rik	serine (or cysteine) peptidase inhibitor, clade A, member 3B	protein-coding	68.0	100.0	73.5	1057.5	135.0	49.5	95.5	72.5
Merged-chr2-117093089-4	chr2	117092951	117093151	+	842.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28020.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	10.5	6.0	5.5	132.0	11.5	8.5	9.0	11.5
Merged-chr2-35162814-4	chr2	35162714	35162914	+	876.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_012018, exon 31 of 44)	exon (NM_012018, exon 31 of 44)	30580.0	NM_001290635	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	10.0	44.5	16.5	182.5	26.5	11.0	5.5	19.0
Merged-chr9-107566228-4	chr9	107566120	107566320	+	820.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019742)	TTS (NM_019742)	-2943.0	NM_010489	15587.0	Mm.4834	NM_010489	ENSMUSG00000010047	Hyal2	AI256841|AU020858|AW555733	hyaluronoglucosaminidase 2	protein-coding	9.0	16.5	5.0	116.5	33.0	12.5	3.0	15.5
Merged-chr5-139324979-4	chr5	139324883	139325083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 1 of 10)	intron (NM_172723, intron 1 of 10)	481.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	35.5	63.5	28.0	420.5	88.5	21.0	20.0	33.5
Merged-chr13-55040245-4	chr13	55040147	55040347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359758, intron 11 of 14)	intron (NM_001359758, intron 11 of 14)	-18862.0	NM_001033245	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	44.0	62.5	71.5	758.0	116.0	44.0	42.0	67.5
Merged-chr2-48814002-6	chr2	48813890	48814090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007396)	promoter-TSS (NM_007396)	-119.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	48.5	76.0	54.5	619.0	129.5	63.0	72.5	45.0
Merged-chr18-84088170-4	chr18	84088046	84088246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146090)	promoter-TSS (NM_146090)	-12.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	74.5	95.0	85.5	1821.5	143.0	63.5	97.0	88.0
Merged-chr2-129570919-4	chr2	129570799	129570999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21940.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	70.0	138.5	51.5	694.5	123.5	66.5	65.5	30.0
Merged-chr2-160171285-4	chr2	160171163	160171363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154610.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	70.5	89.5	109.0	1250.5	140.5	35.0	92.0	68.0
Merged-chr2-170252727-6	chr2	170252594	170252794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103667.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	17.0	17.5	21.5	250.0	43.5	18.0	12.0	41.0
Merged-chr4-53860193-4	chr4	53860092	53860292	+	944.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028053, exon 6 of 6)	3' UTR (NM_028053, exon 6 of 6)	34147.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	19.0	23.0	20.0	384.5	33.5	14.5	11.0	17.0
Merged-chr1-173878011-3	chr1	173877855	173878055	+	779.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170853, intron 2 of 9)	Lx8b|LINE|L1	2232.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	4.5	8.0	5.0	47.5	2.5	2.0	2.0	2.0
Merged-chr7-35151039-4	chr7	35150962	35151162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31769.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	84.0	107.0	97.0	1406.5	215.5	77.0	96.5	92.0
Merged-chr15-99260120-4	chr15	99260041	99260241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045627, intron 1 of 2)	intron (NR_045627, intron 1 of 2)	-8180.0	NM_016766	51812.0	Mm.383472	NM_016766	ENSMUSG00000037570	Mcrs1	C78274|ICP22BP|MSP58|P78	microspherule protein 1	protein-coding	52.0	73.0	23.5	548.5	111.5	34.0	29.0	31.5
Merged-chr7-35737030-1	chr7	35736930	35737130	+	654.5	f0_balb.idr	intron (NM_178704, intron 3 of 18)	intron (NM_178704, intron 3 of 18)	17424.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	7.0	10.0	5.5	122.0	0.0	0.0	0.0	0.0
Merged-chr5-24100541-4	chr5	24100451	24100651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026448)	promoter-TSS (NM_026448)	-39.0	NM_026448	52323.0	Mm.273768	NM_026448	ENSMUSG00000028986	Klhl7	2700038B03Rik|D5Ertd363e|SBBI26	kelch-like 7	protein-coding	50.5	74.0	49.0	669.0	208.0	100.5	118.0	87.5
Merged-chr7-141477334-4	chr7	141477176	141477376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252588, intron 1 of 7)	MIRc|SINE|MIR	896.0	NM_001252588	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	14.5	23.5	22.5	297.0	36.5	18.5	24.5	19.5
Merged-chr3-54611761-4	chr3	54611656	54611856	+	822.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81059.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	24.5	11.0	13.5	245.5	32.5	8.0	9.0	16.5
Merged-chr1-88652800-4	chr1	88652714	88652914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	49377.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	76.5	95.5	85.0	1496.5	155.0	45.5	69.0	90.0
Merged-chr5-122303551-4	chr5	122303430	122303630	+	912.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177242, intron 1 of 5)	intron (NM_177242, intron 1 of 5)	19132.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	6.0	24.0	18.0	250.5	21.5	4.0	13.5	18.5
Merged-chr17-29259688-4	chr17	29259591	29259791	+	838.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026845, intron 2 of 3)	intron (NM_026845, intron 2 of 3)	4280.0	NM_026845	68816.0	Mm.328928	NM_026845	ENSMUSG00000024007	Ppil1	1110060O10Rik|AI327391|Cypl1	peptidylprolyl isomerase (cyclophilin)-like 1	protein-coding	10.5	15.5	8.0	92.5	35.5	9.5	11.0	15.5
Merged-chr7-96629406-3	chr7	96629301	96629501	+	908.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 5 of 32)	intron (NM_011858, intron 5 of 32)	172148.0	NR_045874	791381.0	Mm.402112	NR_045874	ENSMUSG00000053049	Gm15413	-	predicted gene 15413	ncRNA	17.0	10.0	9.5	236.0	0.0	0.5	2.5	0.5
Merged-chr14-62252171-4	chr14	62252071	62252271	+	899.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40808.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	10.0	18.0	8.5	134.5	35.0	8.5	13.5	9.5
Merged-chr1-33903837-4	chr1	33903727	33903927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	intron (NM_177235, intron 1 of 6)	3794.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	92.5	227.0	101.0	1333.5	279.5	114.0	100.5	79.5
Merged-chr8-111094587-4	chr8	111094491	111094691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198308)	promoter-TSS (NM_198308)	-154.0	NM_198308	319518.0	Mm.28350	NM_198308	ENSMUSG00000033624	Pdpr	4930402E16Rik|AU018056|mKIAA1990	pyruvate dehydrogenase phosphatase regulatory subunit	protein-coding	65.0	113.0	62.0	575.0	214.0	84.5	99.5	78.0
Merged-chr17-7869283-4	chr17	7869192	7869392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56708.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	45.5	38.5	31.0	527.0	89.5	20.5	27.5	40.0
Merged-chr6-72163344-4	chr6	72163277	72163477	+	955.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40180.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	12.5	21.0	18.5	511.5	13.5	13.0	7.5	26.0
Merged-chr1-87907484-3	chr1	87907382	87907582	+	879.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177646, intron 3 of 29)	L1MD1|LINE|L1	-53183.0	NR_136921	100503175.0	Mm.426422	NR_136921	ENSMUSG00000101942	Gm19582	-	predicted gene, 19582	ncRNA	8.5	12.0	1.5	125.0	15.0	4.5	14.0	5.5
Merged-chr10-19491982-3	chr10	19491874	19492074	+	740.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152784, intron 2 of 3)	intron (NR_152784, intron 2 of 3)	-2669.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	6.0	6.0	8.0	89.5	14.0	4.5	7.0	4.5
Merged-chr2-181242041-4	chr2	181241937	181242137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183162)	promoter-TSS (NM_183162)	-10.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	120.0	226.5	134.0	1361.0	464.0	182.0	192.5	155.5
Merged-chr4-59438195-4	chr4	59438081	59438281	+	946.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 1 of 16)	CpG	452.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	22.5	23.5	20.0	308.5	20.0	17.5	14.0	20.5
Merged-chr10-119079465-4	chr10	119079350	119079550	+	824.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13455.0	NR_045348	73400.0	Mm.416864	NR_045348	ENSMUSG00000100681	1700064J06Rik	-	RIKEN cDNA 1700064J06 gene	ncRNA	18.5	15.5	8.0	149.0	23.0	3.5	14.5	14.5
Merged-chr8-70864111-4	chr8	70864036	70864236	+	792.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7128.0	NM_032397	84036.0	Mm.32074	NM_032397	ENSMUSG00000002908	Kcnn1	AI854248|KCa2.1|SK1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	protein-coding	7.5	14.5	6.0	84.5	20.5	11.5	5.0	21.0
Merged-chr2-6213167-5	chr2	6213074	6213274	+	996.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024208)	promoter-TSS (NM_024208)	-180.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	17.5	28.0	20.0	284.0	32.0	17.5	16.5	13.0
Merged-chr15-99835298-4	chr15	99835164	99835364	+	929.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113545, intron 2 of 10)	intron (NM_001113545, intron 2 of 10)	-15115.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	25.0	18.5	14.5	193.0	30.0	9.5	11.0	10.0
Merged-chr13-112343788-4	chr13	112343676	112343876	+	815.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 6 of 11)	intron (NM_001168403, intron 6 of 11)	55258.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	32.0	16.0	11.5	190.0	14.5	22.0	24.0	16.0
Merged-chr6-141070058-4	chr6	141069938	141070138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179231.0	NM_018779	54611.0	Mm.103728	NM_018779	ENSMUSG00000041741	Pde3a	A930022O17Rik|C87899	phosphodiesterase 3A, cGMP inhibited	protein-coding	110.5	133.5	139.5	2137.0	235.0	70.5	181.0	115.0
Merged-chr8-116243250-4	chr8	116243157	116243357	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-261758.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	16.5	18.5	34.5	414.5	40.0	10.5	16.0	17.5
Merged-chr16-11067056-4	chr16	11066929	11067129	+	901.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009223, intron 1 of 1)	CpG	731.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	26.0	16.0	14.0	295.0	23.5	11.0	18.0	17.0
Merged-chr2-72262998-4	chr2	72262875	72263075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-22662.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	44.0	108.5	72.5	1161.0	226.5	72.0	101.5	94.5
Merged-chr10-121796298-3	chr10	121796233	121796433	+	734.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 18 of 21)	intron (NM_001081037, intron 18 of 21)	56403.0	NM_173022	270802.0	Mm.209172	NM_173022	ENSMUSG00000053684	BC048403	E030027L10	cDNA sequence BC048403	protein-coding	8.0	11.0	10.5	185.0	5.5	2.5	2.0	5.0
Merged-chr16-20717738-4	chr16	20717653	20717853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145632)	promoter-TSS (NM_145632)	-73.0	NM_145632	245841.0	Mm.288730	NM_145632	ENSMUSG00000021018	Polr2h	-	polymerase (RNA) II (DNA directed) polypeptide H	protein-coding	229.0	385.5	216.5	3739.5	585.5	223.5	307.0	226.0
Merged-chr16-52097008-3	chr16	52096910	52097110	+	726.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	Lx3C|LINE|L1	65461.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	7.0	4.0	9.5	77.5	9.5	4.5	4.5	5.0
Merged-chr10-127342499-4	chr10	127342404	127342604	+	931.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010296)	promoter-TSS (NM_010296)	-925.0	NM_010296	14632.0	Mm.391450	NM_010296	ENSMUSG00000025407	Gli1	AV235269|Zfp-5|Zfp5	GLI-Kruppel family member GLI1	protein-coding	15.0	21.5	10.5	183.0	41.5	10.0	23.5	11.5
Merged-chr17-29095508-4	chr17	29095406	29095606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007669, intron 1 of 2)	CpG	1737.0	NM_007669	12575.0	Mm.195663	NM_007669	ENSMUSG00000023067	Cdkn1a	CAP20|CDKI|CIP1|Cdkn1|P21|SDI1|Waf1|mda6|p21Cip1|p21WAF	cyclin-dependent kinase inhibitor 1A (P21)	protein-coding	154.5	244.5	164.0	1837.5	344.5	175.5	172.0	154.0
Merged-chr4-140963129-4	chr4	140963014	140963214	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355515, intron 1 of 7)	Lx8|LINE|L1	1843.0	NM_023374	67680.0	Mm.246965	NM_023374	ENSMUSG00000009863	Sdhb	0710008N11Rik	succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	protein-coding	16.0	27.5	15.0	361.5	82.0	20.0	32.0	23.0
Merged-chr7-143624777-4	chr7	143624692	143624892	+	906.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175649, intron 1 of 7)	intron (NM_175649, intron 1 of 7)	3053.0	NM_175649	244237.0	Mm.247498	NM_175649	ENSMUSG00000045362	Tnfrsf26	Tnfrh3|Tnfrsf24	tumor necrosis factor receptor superfamily, member 26	protein-coding	7.0	26.5	8.5	176.5	64.5	13.5	13.5	18.0
Merged-chr8-13292547-4	chr8	13292419	13292619	+	929.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172282, intron 2 of 12)	intron (NM_172282, intron 2 of 12)	-4393.0	NM_001042650	102323.0	Mm.368890	NM_001024504	ENSMUSG00000038506	Dcun1d2	AW495713|mFLJ10704	DCN1, defective in cullin neddylation 1, domain containing 2 (S. cerevisiae)	protein-coding	8.5	26.5	7.0	179.5	37.5	8.0	11.5	8.5
Merged-chr14-8171898-4	chr14	8171817	8172017	+	881.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024221, intron 2 of 9)	intron (NM_024221, intron 2 of 9)	1075.0	NM_024221	68263.0	Mm.301527	NM_024221	ENSMUSG00000021748	Pdhb	2610103L06Rik|AL024199|C81408	pyruvate dehydrogenase (lipoamide) beta	protein-coding	13.0	10.5	11.5	316.5	15.0	5.5	12.5	15.0
Merged-chr10-70214503-4	chr10	70214334	70214534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304739, intron 1 of 2)	intron (NM_001304739, intron 1 of 2)	9770.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	11.0	15.5	21.5	213.0	44.0	12.0	28.0	23.5
Merged-chr16-35983278-4	chr16	35983158	35983358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008465)	promoter-TSS (NM_008465)	-105.0	NM_008465	16646.0	Mm.3991	NM_008465	ENSMUSG00000022905	Kpna1	AW494490|IPOA5|NPI1|Rch2|mSRP1	karyopherin (importin) alpha 1	protein-coding	74.0	155.5	63.0	1185.0	211.0	90.5	111.5	78.5
Merged-chr4-16163874-4	chr4	16163744	16163944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329751)	promoter-TSS (NM_001329751)	-201.0	NR_138102	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	247.0	406.0	283.0	3090.0	906.5	361.5	382.0	260.5
Merged-chr4-47275187-4	chr4	47275119	47275319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 14 of 39)	intron (NM_009928, intron 14 of 39)	67207.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	78.5	138.0	45.5	622.0	200.0	77.0	60.5	51.0
Merged-chr2-145822143-4	chr2	145822048	145822248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	36032.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	175.0	304.0	194.0	2571.5	443.5	205.5	203.0	190.0
Merged-chr16-56717527-4	chr16	56717422	56717622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252443)	promoter-TSS (NM_001252443)	-72.0	NM_001357126	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	424.5	643.0	432.0	6853.0	931.0	379.5	448.5	343.0
Merged-chr2-27563936-4	chr2	27563842	27564042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48795.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	44.5	85.5	49.5	855.0	100.5	34.5	60.5	53.5
Merged-chr11-31736275-4	chr11	31736176	31736376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-64414.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	175.5	306.5	186.5	2900.5	434.0	155.0	170.0	167.5
Merged-chr9-119925447-4	chr9	119925329	119925529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028976)	TTS (NM_028976)	12129.0	NM_028976	74498.0	Mm.104789	NM_028976	ENSMUSG00000032513	Gorasp1	5430411C10Rik|GOLPH5|GRASP65|P65	golgi reassembly stacking protein 1	protein-coding	27.5	43.0	44.0	656.0	49.0	15.5	45.0	23.5
Merged-chr11-23666371-1	chr11	23666271	23666471	+	1000.0	f0_c57.idr	promoter-TSS (NM_023651)	promoter-TSS (NM_023651)	395.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	20.5	33.0	29.5	315.0	47.0	18.5	24.5	21.5
Merged-chr12-75735096-1	chr12	75734996	75735196	+	932.0	f0_balb.idr	exon (NM_030750, exon 1 of 3)	exon (NM_030750, exon 1 of 3)	633.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	10.5	8.5	21.0	69.0	22.5	5.5	5.5	14.5
Merged-chr18-32473204-3	chr18	32473082	32473282	+	864.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	86852.0	NM_001048207	71683.0	Mm.292145	NM_027863	ENSMUSG00000090523	Gypc	0610037F22Rik|Cd236r	glycophorin C	protein-coding	2.5	14.5	3.5	91.0	8.0	4.5	5.0	6.0
Merged-chr13-37633168-4	chr13	37633049	37633249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-192889.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	37.5	63.0	42.5	541.5	99.0	20.5	31.0	33.5
Merged-chr16-17531016-4	chr16	17530867	17531067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026909)	promoter-TSS (NM_026909)	85.0	NM_026909	69009.0	Mm.10174	NM_026909	ENSMUSG00000022760	Thap7	1810004B07Rik	THAP domain containing 7	protein-coding	99.0	142.0	146.0	1214.0	261.0	106.0	98.5	118.5
Merged-chr13-110599785-4	chr13	110599691	110599891	+	975.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	204747.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	23.5	25.5	14.0	263.5	50.0	23.5	18.5	37.0
Merged-chr2-103673829-3	chr2	103673738	103673938	+	916.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	87432.0	NM_153126	98956.0	Mm.288005	NM_153126	ENSMUSG00000027185	Nat10	AI429152	N-acetyltransferase 10	protein-coding	10.0	5.5	9.5	151.0	18.5	6.0	10.0	17.0
Merged-chr4-141065305-4	chr4	141065216	141065416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4771.0	NM_001145958	230872.0	Mm.80685	NM_172122	ENSMUSG00000040860	Crocc	-	ciliary rootlet coiled-coil, rootletin	protein-coding	21.0	35.5	8.5	223.0	70.0	23.5	31.5	34.0
Merged-chr2-85007900-4	chr2	85007784	85007984	+	779.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145526, intron 8 of 11)	B2_Mm2|SINE|B2	19669.0	NM_016914	53856.0	Mm.19943	NM_016914	ENSMUSG00000027072	Prg3	MBP2|MBPH	proteoglycan 3	protein-coding	10.0	9.5	9.0	110.5	12.0	3.5	7.5	16.5
Merged-chr1-181273051-2	chr1	181272951	181273151	+	686.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61073.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	8.5	10.0	6.5	51.5	26.5	7.0	6.5	9.0
Merged-chr12-102354140-2	chr12	102354040	102354240	+	968.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 4 of 9)	intron (NM_177620, intron 4 of 9)	70499.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	1.0	4.5	5.5	76.5	6.0	5.0	7.0	12.5
Merged-chr8-69271022-4	chr8	69270940	69271140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172491)	promoter-TSS (NM_172491)	-40.0	NM_172491	211135.0	Mm.294970	NM_172491	ENSMUSG00000079038	D130040H23Rik	-	RIKEN cDNA D130040H23 gene	protein-coding	83.5	138.0	79.5	1296.5	226.0	70.0	90.0	81.5
Merged-chr19-56723967-4	chr19	56723877	56724077	+	930.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007419, exon 1 of 1)	3' UTR (NM_007419, exon 1 of 1)	1605.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	5.0	6.5	9.0	127.0	19.0	10.5	7.0	9.0
Merged-chr10-76352110-4	chr10	76352010	76352210	+	971.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008787, intron 41 of 41)	ORR1E|LTR|ERVL-MaLR	-6819.0	NM_001081419	64451.0	Mm.33183	NM_001081419	ENSMUSG00000020231	Dip2a	4931420H10Rik|AI426328|Dip2|Kiaa0184-hp|mKIAA0184	disco interacting protein 2 homolog A	protein-coding	13.5	22.5	19.5	410.5	51.0	9.5	38.5	27.5
Merged-chr10-94317934-4	chr10	94317828	94318028	+	703.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	Lx2|LINE|L1	5979.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	10.0	14.5	6.0	85.5	22.5	7.0	8.5	10.0
Merged-chr4-58968202-1	chr4	58968102	58968302	+	811.5	f0_c57.idr	intron (NM_025968, intron 9 of 9)	intron (NM_025968, intron 9 of 9)	18876.0	NM_025968	67103.0	Mm.34497	NM_025968	ENSMUSG00000028378	Ptgr1	2510002C21Rik|Ltb4dh|Zadh3	prostaglandin reductase 1	protein-coding	0.0	0.0	2.0	41.0	40.0	11.5	14.0	25.5
Merged-chr13-104286499-3	chr13	104286398	104286598	+	739.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1337.0	NR_136938	108154.0	Mm.208125	NM_175496	ENSMUSG00000046169	Adamts6	A930019D11Rik|ADAM-TS6|b2b1879.1Clo|b2b2029Clo|b2b2182Clo|b2b2187.1Clo|b2b2228Clo	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	protein-coding	9.0	6.0	5.0	152.5	10.5	5.0	9.5	9.0
Merged-chr4-9116016-4	chr4	9115901	9116101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-153292.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	99.0	120.0	76.0	1443.0	285.0	107.0	107.0	103.5
Merged-chr3-142619834-4	chr3	142619733	142619933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010260)	promoter-TSS (NM_010260)	-830.0	NM_010260	14469.0	Mm.24038	NM_010260	ENSMUSG00000028270	Gbp2	-	guanylate binding protein 2	protein-coding	40.5	81.5	32.5	359.5	109.0	49.0	51.5	32.0
Merged-chr14-65328121-4	chr14	65328023	65328223	+	990.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30553.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	22.0	20.5	26.0	219.0	42.5	16.0	24.5	16.5
Merged-chr7-128312855-4	chr7	128312760	128312960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-14729.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	31.0	46.0	23.5	351.5	50.5	26.5	32.0	36.5
Merged-chr8-35377174-1	chr8	35377074	35377274	+	758.5	f1_c57bl6.idr	intron (NM_177741, intron 1 of 1)	intron (NM_177741, intron 1 of 1)	1433.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	8.0	7.5	11.0	83.0	16.5	1.5	2.0	9.0
Merged-chr11-20960324-3	chr11	20960215	20960415	+	712.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129207.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	10.0	11.0	10.5	162.0	14.5	11.0	9.0	5.0
Merged-chr1-39313908-4	chr1	39313807	39314007	+	637.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008719, intron 7 of 20)	intron (NM_008719, intron 7 of 20)	-53944.0	NM_053257	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	8.5	4.5	4.0	103.5	19.0	8.0	7.5	6.0
Merged-chr2-118307811-4	chr2	118307712	118307912	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045919, intron 2 of 2)	intron (NR_045919, intron 2 of 2)	2898.0	NR_045919	73358.0	Mm.437192	NR_045919	ENSMUSG00000085889	1700054M17Rik	-	RIKEN cDNA 1700054M17 gene	ncRNA	16.5	38.0	19.0	392.0	74.0	17.5	35.5	28.5
Merged-chr7-138909604-4	chr7	138909498	138909698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009760)	promoter-TSS (NM_009760)	-92.0	NM_009760	12176.0	Mm.378890	NM_009760	ENSMUSG00000078566	Bnip3	Nip3	BCL2/adenovirus E1B interacting protein 3	protein-coding	247.0	358.5	262.0	3848.0	548.5	197.0	245.5	241.5
Merged-chr4-75400952-4	chr4	75400854	75401054	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44A|LTR|ERVK	-122662.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	40.5	49.5	39.0	406.0	122.0	26.5	32.0	22.5
Merged-chr4-5645233-4	chr4	5645131	5645331	+	895.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173426, intron 1 of 2)	intron (NM_173426, intron 1 of 2)	1141.0	NM_173426	242297.0	Mm.331470	NM_173426	ENSMUSG00000049119	Fam110b	1700012H17Rik|5031405P22|AW049855	family with sequence similarity 110, member B	protein-coding	16.5	10.0	20.5	447.0	18.5	14.5	17.0	15.5
Merged-chr5-24166294-4	chr5	24166201	24166401	+	891.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153092, intron 1 of 6)	RMER6A|LTR|ERVK	1338.0	NM_001346582	231042.0	Mm.45513	NM_153092	ENSMUSG00000048439	Nupl2	AV116043|CG1|NLP-1|Nlp1	nucleoporin like 2	protein-coding	13.0	21.0	7.0	158.0	71.0	14.0	22.0	31.5
Merged-chr4-39611235-4	chr4	39611153	39611353	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	160960.0	NM_001081095	75471.0	Mm.23522	NM_001081095	ENSMUSG00000028287	1700009N14Rik	AI429145	RIKEN cDNA 1700009N14 gene	protein-coding	13.5	4.0	19.5	283.0	42.5	9.0	30.0	16.0
Merged-chr4-8979203-3	chr4	8979155	8979355	+	685.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	227931.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	1.0	5.0	3.5	41.0	39.0	8.0	15.0	7.0
Merged-chr4-59544924-4	chr4	59544816	59545016	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178164, intron 1 of 13)	intron (NM_178164, intron 1 of 13)	4448.0	NM_178164	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	29.5	28.0	29.5	409.0	43.0	23.0	16.5	16.5
Merged-chr12-86947957-3	chr12	86947847	86948047	+	874.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173735, intron 1 of 3)	CpG	604.0	NM_001289432	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	9.5	8.0	6.5	110.5	10.0	2.5	2.5	6.0
Merged-chr6-122598009-6	chr6	122597803	122598003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 2 of 7)	ID_B1|SINE|B4	4541.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	7.5	10.0	7.0	44.0	23.0	7.0	7.0	12.0
Merged-chr7-128110487-2	chr7	128110387	128110587	+	762.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 16 of 29)	Lx8b|LINE|L1	-19081.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	5.0	6.0	5.5	81.0	6.5	1.0	1.5	7.0
Merged-chr6-3201482-4	chr6	3201378	3201578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SSU-rRNA_Hsa|rRNA|rRNA	-87041.0	NR_036696	667335.0	Mm.380219	NR_036696	ENSMUSG00000106779	Gm8579	EG667335	spermatogenesis associated glutamate (E)-rich protein 4a pseudogene	pseudo	39.0	48.0	40.0	485.5	55.0	34.5	29.0	41.5
Merged-chr15-83415531-3	chr15	83415434	83415634	+	897.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	17316.0	NM_011862	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	15.0	26.0	11.0	245.5	7.5	3.0	5.5	4.5
Merged-chr11-69395442-2	chr11	69395344	69395544	+	825.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_030083)	promoter-TSS (NM_030083)	-98.0	NM_001045525	327951.0	Mm.415669	NM_001045525	ENSMUSG00000044795	Cyb5d1	Gm740	cytochrome b5 domain containing 1	protein-coding	21.5	24.5	4.0	134.0	60.0	22.0	22.0	33.0
Merged-chr17-66220557-4	chr17	66220463	66220663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97043.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	49.5	45.0	43.0	725.5	131.5	29.5	52.5	49.5
Merged-chr16-91899693-4	chr16	91899510	91899710	+	908.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010587, exon 33 of 39)	exon (NM_010587, exon 33 of 39)	32020.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	6.5	11.5	4.5	159.0	19.5	1.5	4.5	8.5
Merged-chr1-154788283-3	chr1	154788192	154788392	+	672.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62372.0	NM_009782	12290.0	Mm.267517	NM_009782	ENSMUSG00000004110	Cacna1e	A430040I15|BII|Cach6|Cacnl1a6|Cav2.3|Cchra1|alpha1E	calcium channel, voltage-dependent, R type, alpha 1E subunit	protein-coding	10.0	6.0	1.5	53.5	30.0	10.5	4.5	10.0
Merged-chr10-62650537-2	chr10	62650437	62650637	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358820)	promoter-TSS (NM_001358820)	681.0	NM_001358819	94213.0	Mm.114116	NM_053183	ENSMUSG00000020076	Ddx50	4933429B04Rik|8430408E17Rik|GU2|RH-II	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	protein-coding	6.0	11.0	10.5	141.5	33.5	13.0	14.5	18.0
Merged-chr11-78856470-3	chr11	78856389	78856589	+	892.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29894.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	13.0	23.0	7.0	125.5	31.5	7.0	7.5	11.0
Merged-chr4-121007439-3	chr4	121007353	121007553	+	637.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	9794.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	8.5	8.0	5.5	117.0	18.0	3.5	5.5	5.5
Merged-chr8-122432975-4	chr8	122432884	122433084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007806)	promoter-TSS (NM_007806)	-44.0	NM_007806	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	112.5	307.5	120.5	1159.0	351.0	90.5	133.5	82.0
Merged-chr6-121135147-3	chr6	121135024	121135224	+	921.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4102.0	NM_001270475	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	0.5	4.5	2.5	76.5	33.0	10.5	21.0	15.0
Merged-chr13-100854358-4	chr13	100854214	100854414	+	859.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20887.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	11.5	12.0	14.0	118.5	13.0	8.0	9.0	9.5
Merged-chr6-120783185-2	chr6	120783085	120783285	+	899.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081048, intron 1 of 9)	intron (NM_001081048, intron 1 of 9)	9417.0	NM_001081048	71803.0	Mm.425340	NM_001081048	ENSMUSG00000004902	Slc25a18	1500015I14Rik|AW125787	solute carrier family 25 (mitochondrial carrier), member 18	protein-coding	7.0	2.0	1.0	44.5	29.0	5.0	7.5	5.0
Merged-chr8-125649630-4	chr8	125649514	125649714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20204.0	NM_028908	74393.0	Mm.41709	NM_028908	ENSMUSG00000050930	Map10	4933403G14Rik|AI835009|mKIAA1383	microtubule-associated protein 10	protein-coding	45.0	60.0	60.5	1044.0	107.0	43.0	55.5	60.5
Merged-chr7-25250021-4	chr7	25249906	25250106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010155, intron 1 of 3)	CpG	752.0	NM_010155	13875.0	Mm.8068	NM_010155	ENSMUSG00000040857	Erf	-	Ets2 repressor factor	protein-coding	51.0	68.0	40.5	578.5	136.5	45.0	59.5	50.5
Merged-chr6-115993876-3	chr6	115993849	115994049	+	938.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026376, exon 1 of 36)	exon (NM_026376, exon 1 of 36)	1056.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	9.0	5.5	8.0	80.0	8.5	1.5	5.5	8.5
Merged-chr10-128140664-2	chr10	128140564	128140764	+	876.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039080, intron 6 of 13)	B1_Mus2|SINE|Alu	35904.0	NM_019711	56516.0	Mm.42247	NM_019711	ENSMUSG00000040043	Rbms2	2610315E04Rik|Scr3	RNA binding motif, single stranded interacting protein 2	protein-coding	4.5	5.5	7.5	69.5	9.5	2.0	6.5	2.0
Merged-chr4-130921408-6	chr4	130921305	130921505	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	8071.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	14.5	9.5	19.5	540.5	24.5	10.0	14.0	19.5
Merged-chr11-54902865-4	chr11	54902764	54902964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329860)	promoter-TSS (NM_001329860)	10.0	NM_008161	14778.0	Mm.200916	NM_008161	ENSMUSG00000018339	Gpx3	AA960521|EGPx|GPx|GSHPx-3|GSHPx-P	glutathione peroxidase 3	protein-coding	33.5	62.0	32.0	657.5	86.5	23.0	34.5	28.0
Merged-chr15-8340791-4	chr15	8340716	8340916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 11 of 45)	intron (NM_201232, intron 11 of 45)	103647.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	50.0	79.0	49.0	1043.5	153.0	55.0	50.0	54.0
Merged-chr8-22477441-3	chr8	22477278	22477478	+	942.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012667)	promoter-TSS (NM_001012667)	-499.0	NM_001146117	102032.0	Mm.378231	NM_001012667	ENSMUSG00000031534	Smim19	AI316807|BG694986|EST-c39	small integral membrane protein 19	protein-coding	13.0	10.0	22.5	140.5	33.5	5.5	11.5	20.5
Merged-chr3-8998515-4	chr3	8998416	8998616	+	956.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	5688.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	15.5	13.0	21.5	203.5	36.0	14.0	9.5	22.0
Merged-chr6-122596756-4	chr6	122596687	122596887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 2 of 7)	intron (NM_001134391, intron 2 of 7)	5657.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	48.5	80.5	34.5	444.5	138.5	58.5	81.0	42.5
Merged-chr8-94364145-3	chr8	94364048	94364248	+	920.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 24 of 24)	intron (NM_019415, intron 24 of 24)	-22281.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	13.0	12.0	11.0	111.0	14.5	5.5	10.5	12.5
Merged-chr11-110427361-4	chr11	110427264	110427464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	28262.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	63.0	107.0	34.5	686.0	193.0	69.0	73.0	48.5
Merged-chr19-37070068-4	chr19	37069973	37070173	+	840.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 7 of 10)	L1MA5|LINE|L1	-103770.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	9.5	9.5	12.5	232.5	26.0	6.0	12.5	17.0
Merged-chr11-71019450-4	chr11	71019344	71019544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291147)	promoter-TSS (NM_001291147)	-141.0	NM_033562	116891.0	Mm.28131	NM_033562	ENSMUSG00000018442	Derl2	CGI-101|Derlin-2|F-lana|Flana	Der1-like domain family, member 2	protein-coding	320.5	544.5	308.0	3600.5	673.0	323.0	288.0	249.0
Merged-chr16-12473740-4	chr16	12473647	12473847	+	888.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-337643.0	NR_040507	75493.0	Mm.396146	NR_040507	ENSMUSG00000101565	1700003L19Rik	-	RIKEN cDNA 1700003L19 gene	ncRNA	14.5	13.5	26.5	565.5	29.5	7.0	11.0	15.0
Merged-chr4-105483464-1	chr4	105483364	105483564	+	640.0	f0_balb.idr	Intergenic	Intergenic	326117.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	9.5	8.0	11.0	97.0	8.5	2.5	6.5	8.5
Merged-chr10-80136998-3	chr10	80136906	80137106	+	808.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036582, intron 3 of 10)	intron (NR_036582, intron 3 of 10)	381.0	NM_001195268	100503659.0	Mm.485395	NM_015761	ENSMUSG00000035640	Cbarp	9630008F14|Dos|R29144/1	calcium channel, voltage-dependent, beta subunit associated regulatory protein	protein-coding	9.5	7.0	7.5	36.0	16.0	17.5	12.5	11.5
Merged-chr2-14192236-4	chr2	14192143	14192343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 1 of 3)	intron (NM_001081310, intron 1 of 3)	17719.0	NM_001081310	625286.0	Mm.158781	NM_001081310	ENSMUSG00000061531	Tmem236	2010003H20Rik|Fam23a|Gm613	transmembrane protein 236	protein-coding	97.5	181.0	85.5	1579.0	196.5	89.5	103.5	59.5
Merged-chr10-127063453-4	chr10	127063355	127063555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009870)	promoter-TSS (NM_009870)	-80.0	NM_009870	12567.0	Mm.6839	NM_009870	ENSMUSG00000006728	Cdk4	Crk3	cyclin-dependent kinase 4	protein-coding	171.5	255.0	140.5	1882.0	423.5	170.0	162.5	163.5
Merged-chr10-10660172-4	chr10	10660074	10660274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54229.0	NR_033630	382450.0	Mm.422788	NR_033630	ENSMUSG00000098065	Gm5177	EG382450	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	30.5	46.5	26.5	671.0	81.5	25.0	55.5	37.5
Merged-chr6-84027821-4	chr6	84027731	84027931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	intron (NM_001310152, intron 1 of 53)	8445.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	20.5	10.0	22.0	295.0	36.5	10.5	3.0	20.5
Merged-chr17-86663736-4	chr17	86663631	86663831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-90133.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	48.5	62.5	65.0	891.5	58.5	34.5	50.5	53.0
Merged-chr11-100609054-4	chr11	100608942	100609142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019795, intron 1 of 13)	MTD|LTR|ERVL-MaLR	11126.0	NM_019795	56354.0	Mm.402409	NM_019795	ENSMUSG00000014195	Dnajc7	2010003F24Rik|2010004G07Rik|CCRP|Ttc2|mDj11|mTpr2	DnaJ heat shock protein family (Hsp40) member C7	protein-coding	39.5	89.5	51.0	912.5	132.0	49.5	50.5	77.0
Merged-chr10-34297465-4	chr10	34297367	34297567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030203)	promoter-TSS (NM_030203)	46.0	NM_030203	72480.0	Mm.21485	NM_030203	ENSMUSG00000039485	Tspyl4	2610102M01Rik|B230210I21Rik|D10Bwg0791e	TSPY-like 4	protein-coding	55.0	71.0	36.0	841.5	136.5	66.0	80.5	61.5
Merged-chr11-117878999-4	chr11	117878914	117879114	+	976.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5488.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	38.5	23.5	20.5	493.0	31.5	22.0	30.5	27.0
Merged-chr1-171183685-3	chr1	171183609	171183809	+	907.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025557, intron 1 of 2)	intron (NM_025557, intron 1 of 2)	12559.0	NM_025557	66425.0	Mm.482117	NM_025557	ENSMUSG00000038370	Pcp4l1	1500036F01Rik	Purkinje cell protein 4-like 1	protein-coding	7.5	7.0	2.0	28.0	32.0	12.0	18.0	13.0
Merged-chr15-101984441-4	chr15	101984336	101984536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19906.0	NM_031170	16691.0	Mm.358618	NM_031170	ENSMUSG00000049382	Krt8	AA960620|AL022697|AU019895|Card2|EndoA|K8|Krt-2.8|Krt2-8	keratin 8	protein-coding	100.0	143.0	79.5	1266.0	256.0	91.0	102.5	95.0
Merged-chr17-10318259-4	chr17	10318161	10318361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021881, intron 1 of 6)	CpG	1100.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	56.5	122.5	77.0	953.5	203.5	90.0	60.5	62.0
Merged-chr4-142091270-4	chr4	142091164	142091364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6960.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	76.5	108.0	111.5	1737.5	120.5	42.0	65.5	95.0
Merged-chr3-61389657-3	chr3	61389563	61389763	+	670.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25156.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	11.5	23.0	10.0	123.0	19.5	6.0	3.0	2.5
Merged-chr3-88521914-4	chr3	88521817	88522017	+	972.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10478.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	8.5	7.0	16.5	148.0	12.0	7.5	19.5	19.5
Merged-chr6-134366854-4	chr6	134366749	134366949	+	905.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153848, intron 3 of 8)	intron (NR_153848, intron 3 of 8)	-29480.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	47.0	42.0	32.5	601.5	42.0	11.0	13.0	11.0
Merged-chr11-89026821-3	chr11	89026703	89026903	+	714.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	27400.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	9.5	6.5	7.5	59.5	15.0	6.5	6.0	7.0
Merged-chr8-57512900-3	chr8	57512799	57512999	+	950.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008252, intron 2 of 4)	intron (NM_008252, intron 2 of 4)	1056.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	14.0	8.0	14.0	218.0	9.0	8.5	8.5	5.0
Merged-chr5-125137275-4	chr5	125137172	125137372	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 1 of 46)	intron (NM_011424, intron 1 of 46)	41942.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	39.0	55.0	40.0	625.5	28.0	6.0	10.5	10.0
Merged-chr6-97408072-4	chr6	97407909	97408109	+	944.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	ORR1A4-int|LTR|ERVL-MaLR	51277.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	18.5	28.0	17.0	254.0	40.0	11.0	12.5	8.0
Merged-chr7-19877044-6	chr7	19876978	19877178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177036, exon 7 of 7)	3' UTR (NM_177036, exon 7 of 7)	10887.0	NM_177036	319930.0	Mm.215839	NM_177036	ENSMUSG00000049848	Ceacam19	C130022P09Rik|CEAL1	carcinoembryonic antigen-related cell adhesion molecule 19	protein-coding	30.0	53.5	34.0	250.5	130.0	64.0	50.0	73.0
Merged-chr7-16043658-4	chr7	16043549	16043749	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28196.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	30.5	23.5	33.0	361.5	51.0	19.0	34.5	15.5
Merged-chr9-104271884-4	chr9	104271765	104271965	+	941.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8935.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	10.5	24.0	23.5	506.5	50.0	13.0	29.5	26.0
Merged-chr13-55622189-3	chr13	55622065	55622265	+	921.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007596)	promoter-TSS (NM_007596)	-840.0	NM_007596	12328.0	Mm.2313	NM_007596	ENSMUSG00000021501	Caml	AI385748|Camlg	calcium modulating ligand	protein-coding	10.0	9.0	9.0	143.5	22.5	5.5	2.0	6.0
Merged-chr4-136891988-6	chr4	136891947	136892147	+	923.9722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007574, intron 2 of 2)	MIRb|SINE|MIR	867.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	1.5	0.5	12.0	36.0	25.0	8.5	7.0	17.5
Merged-chr16-28914384-3	chr16	28914301	28914501	+	902.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177718, intron 1 of 1)	intron (NM_177718, intron 1 of 1)	15297.0	NM_177718	239796.0	Mm.155887	NM_177718	ENSMUSG00000051065	Mb21d2	1600021P15Rik|A430031N04|C87006	Mab-21 domain containing 2	protein-coding	3.0	3.0	0.0	9.5	56.0	28.0	14.5	15.0
Merged-chr19-10525449-8	chr19	10525358	10525558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025333)	promoter-TSS (NM_025333)	214.0	NM_172302	269061.0	Mm.490260	NM_172302	ENSMUSG00000034820	Cpsf7	5730453I16Rik|AL022757|C330017N18Rik	cleavage and polyadenylation specific factor 7	protein-coding	43.5	74.5	56.0	556.5	127.0	73.5	48.5	72.5
Merged-chr5-137776635-2	chr5	137776535	137776735	+	604.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2269.0	NM_001356989	69871.0	Mm.276058	NM_027242	ENSMUSG00000029725	Ppp1r35	2010007H12Rik|2010011D20Rik|AL024004	protein phosphatase 1, regulatory subunit 35	protein-coding	4.5	15.0	4.0	76.0	22.0	12.0	6.5	8.0
Merged-chr18-67289130-4	chr18	67289041	67289241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053261)	promoter-TSS (NM_053261)	-82.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	101.0	135.0	102.5	1060.5	316.0	116.0	142.5	114.0
Merged-chr7-128379641-4	chr7	128379558	128379758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 4 of 4)	intron (NM_026418, intron 4 of 4)	38514.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	34.5	25.0	30.5	348.5	69.5	28.0	26.0	43.0
Merged-chr7-84188402-4	chr7	84188312	84188512	+	860.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36519.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	5.5	8.5	10.5	142.5	38.5	9.5	11.0	9.0
Merged-chr1-56795335-1	chr1	56795235	56795435	+	632.0	f0_balb.idr	3' UTR (NM_139146, exon 11 of 11)	3' UTR (NM_139146, exon 11 of 11)	-157884.0	NM_027661	71066.0	Mm.152656	NM_027661	ENSMUSG00000045336	Hsfy2	4933413G11Rik|Hspy2l	heat shock transcription factor, Y-linked 2	protein-coding	12.5	4.5	5.0	94.0	2.0	2.5	6.5	2.0
Merged-chr9-123800002-4	chr9	123799877	123800077	+	892.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110253, intron 15 of 17)	G-rich|Low_complexity|Low_complexity	-6500.0	NM_030712	80901.0	Mm.124289	NM_030712	ENSMUSG00000048521	Cxcr6	BB217514|BONZO|STRL33	chemokine (C-X-C motif) receptor 6	protein-coding	10.5	16.5	18.5	230.5	16.5	13.0	14.5	21.5
Merged-chr19-34570207-4	chr19	34570109	34570309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355262, intron 1 of 2)	intron (NM_001355262, intron 1 of 2)	-13320.0	NM_010501	15959.0	Mm.426079	NM_010501	ENSMUSG00000074896	Ifit3	Ifi49|P49	interferon-induced protein with tetratricopeptide repeats 3	protein-coding	87.5	104.0	72.0	1257.5	251.5	83.5	91.0	81.0
Merged-chr3-145105120-3	chr3	145105021	145105221	+	947.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6015.0	NM_178697	229933.0	Mm.331420	NM_178697	ENSMUSG00000036960	Clca2	4732440A06|AI586120|Clca5	chloride channel accessory 2	protein-coding	12.0	24.5	17.0	61.5	30.5	6.0	2.5	9.5
Merged-chr9-110826050-4	chr9	110825949	110826149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199471)	promoter-TSS (NM_199471)	-641.0	NM_199471	272643.0	Mm.458525	NM_199471	ENSMUSG00000058398	Prss43	Gm661|Tessp3	protease, serine 43	protein-coding	39.0	41.5	25.0	730.0	85.5	23.5	39.5	18.5
Merged-chr6-54927038-3	chr6	54926930	54927130	+	737.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 11 of 11)	MTB_Mm|LTR|ERVL-MaLR	44631.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	4.5	11.5	6.0	41.0	29.5	12.5	6.5	7.5
Merged-chr17-44105783-4	chr17	44105706	44105906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199016)	promoter-TSS (NM_199016)	2.0	NM_199016	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	81.0	143.0	118.0	1324.0	253.0	101.0	112.0	100.5
Merged-chr10-52422615-2	chr10	52422515	52422715	+	620.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030250, intron 1 of 4)	intron (NM_030250, intron 1 of 4)	5068.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	6.0	8.5	6.0	84.0	6.0	0.0	0.5	3.0
Merged-chr16-76416599-4	chr16	76416498	76416698	+	610.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTG)n|Simple_repeat|Simple_repeat	-42771.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	4.5	4.0	2.0	72.5	31.0	5.5	10.0	10.0
Merged-chr4-88407020-4	chr4	88406933	88407133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 41 of 43)	intron (NM_001081184, intron 41 of 43)	31893.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	86.0	93.5	79.5	1275.0	156.0	54.5	104.0	59.5
Merged-chr11-5960775-4	chr11	5960675	5960875	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019661, intron 2 of 6)	intron (NM_019661, intron 2 of 6)	5017.0	NM_019661	56418.0	Mm.294821	NM_019661	ENSMUSG00000002741	Ykt6	0610042I15Rik|1810013M05Rik|AW105923	YKT6 v-SNARE homolog (S. cerevisiae)	protein-coding	13.5	11.0	22.0	260.0	26.5	8.5	16.5	21.5
Merged-chr8-119848016-4	chr8	119847892	119848092	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7413.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	8.5	10.0	11.0	150.5	23.0	9.0	13.5	13.0
Merged-chr15-83435462-3	chr15	83435368	83435568	+	886.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	-2618.0	NM_001159510	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	15.5	12.0	9.5	302.5	30.5	5.0	8.5	4.0
Merged-chr19-34922303-4	chr19	34922202	34922402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362434)	promoter-TSS (NM_001362434)	-56.0	NM_001362434	240641.0	Mm.278471	NM_183046	ENSMUSG00000024795	Kif20b	33cex|C330014J10Rik|MPP1|Mphosph1|magoo	kinesin family member 20B	protein-coding	139.0	172.5	103.5	2135.0	337.5	108.5	138.5	129.0
Merged-chr8-25978021-4	chr8	25977933	25978133	+	764.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1289.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	3.5	1.5	8.0	110.0	15.0	7.5	10.0	11.0
Merged-chr3-88140974-5	chr3	88140872	88141072	+	835.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1400.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	4.5	7.5	2.5	99.0	11.5	4.5	6.5	9.5
Merged-chr8-83693941-4	chr8	83693848	83694048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177262, intron 1 of 21)	intron (NM_177262, intron 1 of 21)	113.0	NM_001199593	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	31.0	42.5	51.5	430.0	63.5	30.0	26.5	41.5
Merged-chr13-12264915-4	chr13	12264811	12265011	+	833.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6798.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	10.0	33.5	6.0	172.5	30.5	14.0	13.0	3.5
Merged-chr4_GL456216_random-34502-1	chr4_GL456216_random	34402	34602	+	615.0	f0_c57.idr	intron (NM_001033326, intron 5 of 6)	CpG-10796	18621.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	24.0	5.5	9.0	19.5
Merged-chr1-55086578-3	chr1	55086507	55086707	+	895.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356512, intron 2 of 11)	intron (NM_001356512, intron 2 of 11)	1325.0	NM_010477	15510.0	Mm.1777	NM_010477	ENSMUSG00000025980	Hspd1	60kDa|CPN60|HSP-60|HSP-65|Hsp60	heat shock protein 1 (chaperonin)	protein-coding	7.0	8.5	8.5	115.0	16.0	3.5	2.0	3.5
Merged-chr6-38911371-4	chr6	38911279	38911479	+	911.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7607.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	11.0	26.0	13.0	248.5	35.5	12.5	11.0	15.0
Merged-chr10-77984844-4	chr10	77984756	77984956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026431, exon 7 of 7)	3' UTR (NM_026431, exon 7 of 7)	6206.0	NM_026431	67884.0	Mm.297512	NM_026431	ENSMUSG00000020284	1810043G02Rik	AV026620|D10Jhu13e	RIKEN cDNA 1810043G02 gene	protein-coding	19.0	29.0	8.5	236.5	46.5	18.5	33.0	26.0
Merged-chr1-152888008-4	chr1	152887912	152888112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160257, intron 1 of 23)	intron (NM_001160257, intron 1 of 23)	14633.0	NM_001359257	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	39.5	47.0	33.0	330.0	129.5	60.0	38.0	53.0
Merged-chr10-80340374-4	chr10	80340271	80340471	+	940.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104339, exon 12 of 12)	non-coding (NR_104339, exon 12 of 12)	8077.0	NM_001285435	66548.0	Mm.71891	NM_025629	ENSMUSG00000043822	Adamtsl5	2010109H09Rik|Thsd6	ADAMTS-like 5	protein-coding	19.5	30.0	29.5	152.5	34.0	11.5	13.0	7.0
Merged-chr16-57543558-3	chr16	57543416	57543616	+	676.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-5726.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	7.5	12.0	17.0	70.5	23.0	5.5	5.0	4.0
Merged-chr4-59471559-3	chr4	59471466	59471666	+	789.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178164)	TTS (NM_178164)	-32933.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	14.0	5.0	13.0	257.5	6.5	2.0	4.0	7.0
Merged-chr15-96562781-4	chr15	96562671	96562871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	79191.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	45.5	67.0	40.5	692.0	111.5	18.0	35.5	34.5
Merged-chr8-113664775-2	chr8	113664675	113664875	+	858.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11683.0	NR_136914	102631810.0	Mm.412563	NR_136914	ENSMUSG00000110582	Gm30052	-	predicted gene, 30052	ncRNA	2.0	7.5	0.0	66.5	13.5	4.5	6.0	4.5
Merged-chr13-81264729-5	chr13	81264636	81264836	+	975.5200199999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	L1PB4|LINE|L1	300662.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	10.5	3.5	21.0	223.0	10.0	10.5	9.5	10.0
Merged-chr4-144973473-4	chr4	144973374	144973574	+	774.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001276502, exon 69 of 69)	3' UTR (NM_001276502, exon 69 of 69)	80337.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	8.0	8.5	7.0	111.0	54.5	8.5	11.0	18.5
Merged-chr2-3769439-3	chr2	3769343	3769543	+	795.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	55985.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	3.5	9.5	6.5	191.0	28.0	7.0	11.5	14.5
Merged-chr15-3979579-4	chr15	3979466	3979666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134099)	promoter-TSS (NM_134099)	7.0	NM_134099	106052.0	Mm.234191	NM_134099	ENSMUSG00000022184	Fbxo4	1700096C12Rik|AI851261|AW494535|Fbx4	F-box protein 4	protein-coding	152.0	215.0	142.0	2757.0	369.0	156.0	243.0	146.0
Merged-chr3-87919516-4	chr3	87919397	87919597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026591)	promoter-TSS (NM_026591)	-47.0	NM_026591	67707.0	Mm.393802	NM_026591	ENSMUSG00000019710	Mrpl24	2010005E08Rik|2810470K06Rik|6720473G22Rik|AA407670	mitochondrial ribosomal protein L24	protein-coding	94.5	156.0	84.5	1180.5	255.0	101.0	92.5	105.0
Merged-chr1-92648149-8	chr1	92648038	92648238	+	948.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153114, intron 1 of 4)	intron (NM_153114, intron 1 of 4)	703.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	11.5	13.0	23.5	117.5	22.0	8.5	5.0	15.0
Merged-chr16-4909335-4	chr16	4909225	4909425	+	879.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 2 of 17)	intron (NM_001357062, intron 2 of 17)	23225.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	14.0	10.0	7.0	138.5	15.0	7.0	10.0	13.0
Merged-chr15-73147117-4	chr15	73146983	73147183	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	37864.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	7.5	9.5	11.0	138.5	37.5	5.0	9.5	13.5
Merged-chr1-120019650-4	chr1	120019533	120019733	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 1 of 13)	intron (NM_001012322, intron 1 of 13)	12653.0	NM_001012322	319229.0	Mm.189223	NM_001012322	ENSMUSG00000026387	Sctr	6530402O03Rik	secretin receptor	protein-coding	18.0	15.0	19.0	291.5	76.0	14.0	25.5	29.0
Merged-chr8-36685471-4	chr8	36685299	36685499	+	937.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 5 of 17)	intron (NM_001194940, intron 5 of 17)	47655.0	NM_001194941	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	12.0	7.0	15.0	69.5	20.5	3.0	10.0	5.0
Merged-chr10-80140857-2	chr10	80140757	80140957	+	781.833374	f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-1418.0	NM_001347092	66043.0	Mm.278560	NM_025313	ENSMUSG00000003072	Atp5d	0610008F14Rik|1500000I11Rik|AA960090|AI876556|AU020773|Atp5f1d|C85518	ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit	protein-coding	3.0	2.0	6.0	33.5	4.5	11.0	5.0	6.5
Merged-chr4-155735478-2	chr4	155735378	155735578	+	822.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001101506, exon 2 of 4)	exon (NM_001101506, exon 2 of 4)	674.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	6.5	4.5	18.5	78.5	16.5	8.5	4.0	12.0
Merged-chr6-115480473-4	chr6	115480378	115480578	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 7 of 7)	intron (NM_001308354, intron 7 of 7)	58412.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	22.0	31.5	13.5	495.0	42.5	22.5	44.5	28.0
Merged-chr13-105426173-4	chr13	105426067	105426267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-17526.0	NM_008308	15550.0	Mm.4716	NM_008308	ENSMUSG00000021721	Htr1a	Gpcr18	5-hydroxytryptamine (serotonin) receptor 1A	protein-coding	24.5	41.0	20.0	288.0	70.0	22.5	34.5	24.5
Merged-chr12-83597236-4	chr12	83597140	83597340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183154)	promoter-TSS (NM_183154)	-18.0	NM_001359166	217695.0	Mm.59257	NM_183154	ENSMUSG00000042628	Zfyve1	DFCP1|G630053K23|TAFF1|ZNFN2A1|mKIAA1589	zinc finger, FYVE domain containing 1	protein-coding	176.5	256.0	149.5	2596.5	365.5	127.0	182.0	166.5
Merged-chr5-100583309-4	chr5	100583203	100583403	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11098.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	8.5	21.5	16.0	319.0	61.5	23.0	39.5	24.5
Merged-chr16-21211053-1	chr16	21210953	21211153	+	622.0	f0_balb.idr	intron (NM_010143, intron 1 of 15)	intron (NM_010143, intron 1 of 15)	6258.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	7.0	5.0	7.0	91.0	16.5	6.0	9.0	4.5
Merged-chr13-34233169-3	chr13	34233056	34233256	+	788.8222049999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	70192.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	12.0	18.5	15.0	155.0	24.5	4.0	6.0	7.5
Merged-chr5-99460216-4	chr5	99460110	99460310	+	852.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-207283.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	18.0	13.5	12.5	148.5	21.5	10.0	9.5	8.0
Merged-chr5-102070023-4	chr5	102069944	102070144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172882)	promoter-TSS (NM_172882)	-123.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	106.0	154.0	145.0	1580.0	319.5	107.0	142.5	127.0
Merged-chr7-116307536-4	chr7	116307432	116307632	+	932.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305185, intron 3 of 26)	CpG	844.0	NM_001305185	233765.0	Mm.3741	NM_172743	ENSMUSG00000045659	Plekha7	A430081P20Rik|AI414265	pleckstrin homology domain containing, family A member 7	protein-coding	33.0	16.5	15.0	172.0	30.5	13.0	14.5	15.5
Merged-chr8-108625806-3	chr8	108625724	108625924	+	686.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41147.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	10.0	13.5	4.5	236.5	6.0	10.5	7.0	6.5
Merged-chr6-50381783-4	chr6	50381662	50381862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	MER5B|DNA|hAT-Charlie	1075.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	81.5	186.5	88.0	1202.0	311.5	114.5	103.0	99.0
Merged-chr14-47361936-7	chr14	47361791	47361991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-11969.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	13.0	16.0	15.0	519.0	173.0	48.5	78.5	66.0
Merged-chr3-28012417-4	chr3	28012333	28012533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 1 of 25)	intron (NM_008875, intron 1 of 25)	28262.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	104.5	155.5	125.5	2136.5	228.5	92.0	120.0	94.5
Merged-chr2-84956533-4	chr2	84956452	84956652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021398, intron 12 of 12)	intron (NM_021398, intron 12 of 12)	19906.0	NM_021398	58207.0	Mm.290729	NM_021398	ENSMUSG00000027074	Slc43a3	Eeg1|SEEEG-1	solute carrier family 43, member 3	protein-coding	80.0	104.5	88.0	2003.0	238.0	67.0	160.0	118.5
Merged-chr4-6386857-1	chr4	6386757	6386957	+	609.0	f0_balb.idr	intron (NM_001098227, intron 6 of 8)	intron (NM_001098227, intron 6 of 8)	21177.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	8.5	12.0	8.5	91.0	8.5	6.0	1.5	5.0
Merged-chr8-95419334-3	chr8	95419256	95419456	+	926.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008187)	TTS (NM_008187)	15513.0	NM_008187	14894.0	Mm.2080	NM_008187	ENSMUSG00000031796	Cfap20	2600014O15Rik|AL024127|Gtl3|T10-2A2	cilia and flagella associated protein 20	protein-coding	14.5	8.0	6.0	220.0	19.0	4.0	4.0	6.0
Merged-chr16-30064171-4	chr16	30064052	30064252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1205.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	144.0	231.5	184.5	2756.5	490.5	220.5	224.5	199.5
Merged-chr12-84243307-4	chr12	84243191	84243391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24410.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	47.0	48.5	25.5	784.0	105.5	27.0	37.5	46.0
Merged-chr10-63429576-4	chr10	63429484	63429684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177612)	promoter-TSS (NM_177612)	-514.0	NM_177612	216033.0	Mm.444692	NM_177612	ENSMUSG00000060843	Ctnna3	4930429L08Rik|4933408A16|Catna3|Vr22	catenin (cadherin associated protein), alpha 3	protein-coding	192.5	250.5	136.0	2261.0	518.5	185.5	176.5	183.5
Merged-chr17-80480495-4	chr17	80480417	80480617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009231)	promoter-TSS (NM_009231)	-64.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	68.0	73.5	59.5	929.0	159.0	70.5	66.5	54.0
Merged-chr11-107451260-4	chr11	107451133	107451333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	19487.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	51.0	41.0	76.5	1040.0	85.0	27.5	45.0	49.0
Merged-chr5-113993281-4	chr5	113993178	113993378	+	920.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 1 of 14)	CpG	479.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	9.5	15.5	14.0	121.0	27.0	17.5	13.0	18.0
Merged-chr6-135007834-4	chr6	135007743	135007943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3769.0	NM_026360	67755.0	Mm.166524	NM_026360	ENSMUSG00000030204	Ddx47	4930588A18Rik|C77285	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	protein-coding	76.5	89.0	109.5	1810.5	79.5	30.5	42.5	42.0
Merged-chr9-107724392-4	chr9	107724296	107724496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13921.0	NM_011349	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	44.0	36.5	33.0	644.5	115.0	26.5	50.0	35.0
Merged-chr11-69420007-4	chr11	69419900	69420100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081330)	TTS (NM_001081330)	-6325.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	36.0	61.5	27.0	293.0	89.0	35.0	41.5	24.0
Merged-chr5-21786727-4	chr5	21786629	21786829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011188, exon 2 of 13)	exon (NM_011188, exon 2 of 13)	1446.0	NM_011188	19181.0	Mm.2462	NM_011188	ENSMUSG00000028932	Psmc2	-	proteasome (prosome, macropain) 26S subunit, ATPase 2	protein-coding	64.0	82.0	38.5	781.0	140.0	54.0	81.0	82.0
Merged-chr10-87830191-4	chr10	87830123	87830323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G1|LTR|ERVL-MaLR	-28042.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	77.5	114.5	97.5	1273.0	137.5	55.5	71.5	58.0
Merged-chr7-28179987-4	chr7	28179883	28180083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271370)	promoter-TSS (NM_001271370)	-333.0	NM_001271370	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	160.5	194.5	124.0	1939.0	393.0	141.0	205.5	114.0
Merged-chr11-20103856-4	chr11	20103772	20103972	+	913.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146243, intron 1 of 8)	intron (NM_146243, intron 1 of 8)	9079.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	10.5	7.0	10.0	243.5	32.0	8.0	10.5	8.5
Merged-chr5-64315315-2	chr5	64315214	64315414	+	616.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 12 of 18)	intron (NM_001289514, intron 12 of 18)	84957.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	11.0	7.0	10.0	70.0	14.5	3.5	4.5	1.0
Merged-chr11-104590301-2	chr11	104590201	104590401	+	918.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13020.0	NM_001355755	17896.0	Mm.390355	NM_010858	ENSMUSG00000061086	Myl4	ALC1|AMLC|ELC|ELC1a|GT1|MLC1EMB|MLC1a|Myla	myosin, light polypeptide 4	protein-coding	11.0	3.0	2.5	25.5	13.0	5.0	6.0	9.5
Merged-chr14-30826732-4	chr14	30826641	30826841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028839, intron 1 of 7)	intron (NM_028839, intron 1 of 7)	1147.0	NM_028839	69179.0	Mm.143025	NM_028839	ENSMUSG00000006526	Tmem110	1810038N08Rik|2310014H19Rik|AW554125|STIMATE	transmembrane protein 110	protein-coding	35.0	73.5	36.0	419.0	148.0	37.0	48.5	38.0
Merged-chr13-110902961-3	chr13	110902871	110903071	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131193)	promoter-TSS (NR_131193)	-528.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	3.0	6.0	9.5	154.5	10.5	8.0	12.0	11.0
Merged-chr15-62056606-4	chr15	62056502	62056702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	17345.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	180.5	254.5	231.0	3160.0	417.0	120.0	188.5	152.0
Merged-chr13-59073836-4	chr13	59073765	59073965	+	917.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 16 of 17)	intron (NM_001025074, intron 16 of 17)	266168.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	13.5	10.5	10.5	154.5	35.5	7.5	13.5	6.5
Merged-chr18-34118147-4	chr18	34118050	34118250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102834.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	40.5	53.0	25.5	443.5	97.5	31.5	46.0	29.5
Merged-chr12-111559830-4	chr12	111559717	111559917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4c|LINE|L1	14585.0	NR_045295	100504687.0	Mm.26072	NR_045295	ENSMUSG00000096995	2810029C07Rik	AU017849	RIKEN cDNA 2810029C07 gene	ncRNA	60.5	111.5	57.5	893.0	159.0	63.0	75.5	76.5
Merged-chr11-20332132-1	chr11	20332032	20332232	+	689.5	f0_balb.idr	exon (NM_018861, exon 1 of 8)	exon (NM_018861, exon 1 of 8)	581.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	6.5	6.5	7.5	95.0	6.5	13.0	7.5	7.5
Merged-chr1-125447804-3	chr1	125447686	125447886	+	883.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12059.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	9.5	15.5	2.5	51.0	28.5	7.5	17.0	5.5
Merged-chr7-28972863-4	chr7	28972745	28972945	+	676.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028659, intron 6 of 7)	intron (NM_028659, intron 6 of 7)	9043.0	NM_001285943	73830.0	Mm.29714	NM_028659	ENSMUSG00000053565	Eif3k	1200009C21Rik|Eif3s12	eukaryotic translation initiation factor 3, subunit K	protein-coding	2.5	16.0	7.0	101.5	26.5	11.5	5.5	9.0
Merged-chr17-45724394-4	chr17	45724292	45724492	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9452.0	NM_028164	72240.0	Mm.482897	NM_028164	ENSMUSG00000094690	1600014C23Rik	-	RIKEN cDNA 1600014C23 gene	protein-coding	16.0	9.0	4.0	219.5	31.0	15.0	15.0	11.5
Merged-chr17-56008472-4	chr17	56008359	56008559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026530)	promoter-TSS (NM_026530)	-323.0	NM_145934	106766.0	Mm.204991	NM_145934	ENSMUSG00000038781	Stap2	AW049765|STAP-2	signal transducing adaptor family member 2	protein-coding	96.0	142.0	56.0	1221.5	202.0	65.0	89.5	67.5
Merged-chr10-127738323-2	chr10	127738223	127738423	+	898.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1215.0	NM_198035	320080.0	Mm.27258	NM_198035	ENSMUSG00000044617	Zbtb39	7030401O21Rik|mKIAA0352	zinc finger and BTB domain containing 39	protein-coding	9.0	9.0	1.0	43.0	12.0	13.0	6.0	12.5
Merged-chr11-69235367-4	chr11	69235267	69235467	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008192, intron 3 of 18)	C-rich|Low_complexity|Low_complexity	1655.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	21.5	54.5	15.5	196.5	46.0	14.0	22.0	13.5
Merged-chr10-96280422-3	chr10	96280323	96280523	+	794.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54216.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	16.0	19.5	13.5	215.0	21.5	7.5	6.0	13.0
Merged-chr4-128635724-2	chr4	128635624	128635824	+	954.8333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17105.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	12.0	9.5	4.5	64.5	23.5	8.0	4.5	6.5
Merged-chr7-3295861-4	chr7	3295756	3295956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001093766, intron 1 of 1)	intron (NM_001093766, intron 1 of 1)	2828.0	NM_001093766	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	79.5	101.0	56.0	1136.0	175.5	55.0	73.0	55.0
Merged-chr6-114643144-4	chr6	114643048	114643248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028835)	promoter-TSS (NM_028835)	51.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	30.0	62.5	26.5	491.5	90.0	30.5	35.0	34.5
Merged-chr18-38404470-4	chr18	38404378	38404578	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR48|LTR|ERV1	-14429.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	25.0	41.5	26.5	300.5	30.5	17.0	12.5	14.5
Merged-chr14-33319708-4	chr14	33319624	33319824	+	990.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 4 of 10)	CpG	91300.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	17.5	26.5	18.0	371.0	46.5	18.0	16.5	23.5
Merged-chr10-75517400-4	chr10	75517308	75517508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175133)	promoter-TSS (NM_175133)	-27.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	289.0	340.5	259.5	3809.0	785.0	269.0	332.5	250.0
Merged-chr6-71415646-3	chr6	71415558	71415758	+	882.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355745, intron 2 of 9)	intron (NM_001355745, intron 2 of 9)	24979.0	NM_001355745	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	6.5	8.0	9.5	174.0	7.0	2.0	8.5	6.5
Merged-chr12-16634214-3	chr12	16634119	16634319	+	798.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19251.0	NM_001361702	18217.0	Mm.281715	NM_008747	ENSMUSG00000020591	Ntsr2	NT-R-2|NT2R|NTR2|NTRL	neurotensin receptor 2	protein-coding	23.5	29.0	23.5	306.0	2.5	0.0	1.5	0.5
Merged-chr1-128593235-3	chr1	128593118	128593318	+	917.3428960000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009911)	promoter-TSS (NM_009911)	-919.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	9.5	20.5	10.5	150.0	8.0	5.0	5.0	5.5
Merged-chr9-114805338-4	chr9	114805216	114805416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 1 of 3)	intron (NM_027294, intron 1 of 3)	-23323.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	92.0	140.0	98.5	1658.5	173.0	78.5	81.5	37.5
Merged-chr12-99903056-4	chr12	99902961	99903161	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028354, intron 6 of 15)	intron (NM_028354, intron 6 of 15)	18546.0	NM_028354	104884.0	Mm.312323	NM_028354	ENSMUSG00000021177	Tdp1	2810481F14Rik|4921509N21Rik|AI838772|AW493413|E430034L06Rik|MLZ-501|SCAN1	tyrosyl-DNA phosphodiesterase 1	protein-coding	23.0	30.0	17.0	293.5	41.5	15.0	31.0	13.5
Merged-chr13-41467316-4	chr13	41467214	41467414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	20046.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	73.0	122.5	69.5	1345.5	186.0	74.5	100.0	59.5
Merged-chr6-85069455-4	chr6	85069350	85069550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177077)	promoter-TSS (NM_177077)	63.0	NM_177077	75914.0	Mm.159621	NM_177077	ENSMUSG00000033769	Exoc6b	4930569O18Rik|G430127E12Rik|Sec15b|Sec15l2|mKIAA0919	exocyst complex component 6B	protein-coding	57.5	72.5	90.5	1046.0	92.5	48.0	51.5	58.5
Merged-chr4-86575022-1	chr4	86574922	86575122	+	696.0	f0_balb.idr	promoter-TSS (NM_178376)	promoter-TSS (NM_178376)	-651.0	NM_178376	68441.0	Mm.31178	NM_178376	ENSMUSG00000070934	Rraga	1300010C19Rik|AI255374|FIP-1|RAGA	Ras-related GTP binding A	protein-coding	6.0	15.0	4.0	103.0	16.5	5.5	6.0	6.5
Merged-chr12-99979718-4	chr12	99979603	99979803	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	Lx7|LINE|L1	15204.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	51.0	55.0	44.5	1043.5	86.5	17.0	78.0	57.0
Merged-chr12-104174950-4	chr12	104174844	104175044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21072.0	NM_008458	16625.0	Mm.422814	NM_008458	ENSMUSG00000066361	Serpina3c	1A1|Kalbp|Klkbp|spi2	serine (or cysteine) peptidase inhibitor, clade A, member 3C	protein-coding	101.5	130.5	109.0	1951.0	297.5	66.0	158.0	128.0
Merged-chr14-26638031-4	chr14	26637929	26638129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007479)	promoter-TSS (NM_007479)	-105.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	425.5	628.0	509.0	5939.5	1021.0	412.0	445.5	427.5
Merged-chr15-67118560-4	chr15	67118463	67118663	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 3 of 8)	ORR1E|LTR|ERVL-MaLR	58319.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	47.0	74.0	58.0	886.0	60.0	28.5	36.5	12.0
Merged-chr10-62503353-5	chr10	62503229	62503429	+	913.4381099999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	B2_Mm2|SINE|B2	4428.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	8.0	9.0	12.5	75.0	23.0	8.0	12.0	15.0
Merged-chr3-51365484-4	chr3	51365389	51365589	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-24845.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	18.5	28.0	19.5	287.0	65.5	14.5	29.0	21.5
Merged-chr11-75152737-7	chr11	75152616	75152816	+	823.904785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 15 of 18)	intron (NM_001002764, intron 15 of 18)	15436.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	7.0	9.0	11.0	121.5	21.5	8.5	10.0	12.0
Merged-chr2-157368220-2	chr2	157368120	157368320	+	968.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026968, intron 1 of 2)	MER44B|DNA|TcMar-Tigger	626.0	NM_026968	69161.0	Mm.228619	NM_026968	ENSMUSG00000063019	Manbal	1810024K12Rik|AI836500	mannosidase, beta A, lysosomal-like	protein-coding	9.5	8.0	4.5	66.0	20.5	1.0	8.5	7.5
Merged-chr4-128689956-4	chr4	128689850	128690050	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 1 of 14)	intron (NM_018774, intron 1 of 14)	1212.0	NM_018774	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	30.0	32.5	27.0	434.5	67.5	18.0	14.0	28.0
Merged-chr16-23307645-4	chr16	23307539	23307739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	intron (NM_001252506, intron 1 of 6)	17169.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	55.0	54.5	47.5	1044.0	96.5	37.0	57.5	48.0
Merged-chr12-38854470-3	chr12	38854373	38854573	+	995.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347379, intron 9 of 11)	intron (NM_001347379, intron 9 of 11)	70762.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	12.0	8.0	18.5	218.5	12.0	2.5	19.0	7.5
Merged-chr2-9989836-4	chr2	9989735	9989935	+	963.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027748, intron 2 of 6)	intron (NM_027748, intron 2 of 6)	58774.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	18.0	19.5	19.5	345.0	32.0	12.5	28.0	21.5
Merged-chr10-57728515-4	chr10	57728416	57728616	+	938.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039050, intron 4 of 4)	intron (NM_001039050, intron 4 of 4)	-56407.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	12.5	38.0	17.5	242.0	27.0	11.5	22.0	23.0
Merged-chr6-71476850-3	chr6	71476732	71476932	+	739.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17045.0	NM_009543	22644.0	Mm.422969	NM_009543	ENSMUSG00000052656	Rnf103	AW146237|AW212918|Zfp103|kf-1	ring finger protein 103	protein-coding	9.0	11.0	23.5	52.0	17.0	4.5	3.5	4.5
Merged-chr8-73208346-3	chr8	73208237	73208437	+	780.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317391, intron 3 of 15)	intron (NM_001317391, intron 3 of 15)	145203.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	1.0	0.0	0.0	0.0	14.0	6.0	14.0	19.5
Merged-chr16-70385720-4	chr16	70385625	70385825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 2 of 15)	intron (NM_028803, intron 2 of 15)	71776.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	36.5	33.0	29.0	402.0	66.5	21.0	42.0	32.0
Merged-chr4-8803267-4	chr4	8803168	8803368	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 3 of 36)	intron (NM_001355382, intron 3 of 36)	51944.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	32.5	31.0	29.5	594.0	62.0	18.5	44.5	33.5
Merged-chr2-58850696-3	chr2	58850588	58850788	+	926.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 11 of 13)	MTEa|LTR|ERVL-MaLR	95504.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	13.0	17.5	17.5	199.5	6.5	6.0	2.0	7.5
Merged-chr19-5388737-4	chr19	5388609	5388809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016882)	promoter-TSS (NM_016882)	-6.0	NM_016882	20227.0	Mm.34562	NM_016882	ENSMUSG00000039148	Sart1	U5-110K	squamous cell carcinoma antigen recognized by T cells 1	protein-coding	93.5	113.5	57.0	1008.5	206.5	73.5	80.0	72.5
Merged-chr1-74588214-4	chr1	74588103	74588303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310668)	promoter-TSS (NM_001310668)	-86.0	NM_001305652	66821.0	Mm.358700	NM_025784	ENSMUSG00000026172	Bcs1l	9130022O19Rik	BCS1-like (yeast)	protein-coding	140.5	246.5	165.0	2702.5	366.5	130.0	202.5	113.5
Merged-chr19-45326642-2	chr19	45326542	45326742	+	578.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37092.0	NM_001360122	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	4.0	17.5	5.5	46.5	16.0	9.0	9.5	6.0
Merged-chr11-98787025-4	chr11	98786930	98787130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8486.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	47.0	84.0	25.5	594.5	153.0	59.0	72.0	69.5
Merged-chr18-61099958-4	chr18	61099871	61100071	+	791.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-5601.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	8.0	10.0	7.5	130.5	17.0	10.5	7.5	14.0
Merged-chr14-70889950-4	chr14	70889847	70890047	+	876.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008115)	promoter-TSS (NM_008115)	-160.0	NM_001302095	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	21.0	27.0	19.5	283.0	29.0	8.0	16.5	15.5
Merged-chr15-95791743-4	chr15	95791681	95791881	+	966.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	938.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	11.0	30.5	8.5	111.0	43.0	17.0	14.0	13.5
Merged-chr2-52965223-3	chr2	52965124	52965324	+	879.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	107356.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	12.0	16.0	11.5	152.5	21.5	3.0	11.0	9.5
Merged-chr7-143626431-2	chr7	143626331	143626531	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175649, intron 1 of 7)	intron (NM_175649, intron 1 of 7)	1414.0	NM_175649	244237.0	Mm.247498	NM_175649	ENSMUSG00000045362	Tnfrsf26	Tnfrh3|Tnfrsf24	tumor necrosis factor receptor superfamily, member 26	protein-coding	2.5	4.0	3.0	105.0	8.5	6.0	4.5	4.5
Merged-chr7-102248735-4	chr7	102248630	102248830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	1388.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	51.5	76.0	41.0	488.5	109.5	55.5	49.5	38.0
Merged-chr7-109752273-4	chr7	109752201	109752401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020050)	promoter-TSS (NM_020050)	-38.0	NM_020050	56786.0	Mm.240668	NM_020050	ENSMUSG00000031021	Tmem9b	2310004K06Rik|AW539847|D7H11orf15|ICRFP703B1614Q5.3	TMEM9 domain family, member B	protein-coding	49.5	77.5	32.0	752.5	124.5	63.0	84.5	90.5
Merged-chr15-84133712-2	chr15	84133593	84133793	+	643.75	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-10518.0	NM_029427	75772.0	Mm.159565	NM_029427	ENSMUSG00000018868	Pnpla5	4833426H19Rik|GS2L	patatin-like phospholipase domain containing 5	protein-coding	2.0	11.0	9.0	98.5	10.5	5.0	14.0	10.0
Merged-chr1-172277326-4	chr1	172277225	172277425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178405, intron 20 of 22)	intron (NM_178405, intron 20 of 22)	-18901.0	NM_013734	27222.0	Mm.482392	NM_013734	ENSMUSG00000007107	Atp1a4	-	ATPase, Na+/K+ transporting, alpha 4 polypeptide	protein-coding	91.0	95.0	120.0	1564.0	114.0	32.5	67.5	58.0
Merged-chr1-87649046-5	chr1	87648999	87649199	+	875.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	28787.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	7.5	15.0	21.0	219.5	31.0	13.5	12.5	9.0
Merged-chr11-98836808-4	chr11	98836720	98836920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080925)	promoter-TSS (NM_001080925)	35.0	NM_001080925	268480.0	Mm.340766	NM_001080925	ENSMUSG00000038020	Rapgefl1	B230105J10	Rap guanine nucleotide exchange factor (GEF)-like 1	protein-coding	48.0	84.0	40.0	480.5	86.0	25.0	27.5	46.0
Merged-chr1-43914730-4	chr1	43914623	43914823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19271.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	94.5	117.0	148.0	1568.0	174.0	44.0	65.5	66.0
Merged-chr1-172455505-4	chr1	172455422	172455622	+	882.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19838.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	8.5	9.5	23.0	375.0	22.5	3.5	15.5	15.0
Merged-chr15-100543061-4	chr15	100542948	100543148	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355497, intron 2 of 15)	IAPEY3-int|LTR|ERVK	8960.0	NM_033476	21422.0	Mm.219040	NM_033476	ENSMUSG00000009733	Tfcp2	CP-2|CP2|D230015P20Rik|LBP-1c|LBP-1d|LBP1|LSF|Tcfcp2|UBP-1	transcription factor CP2	protein-coding	6.0	11.0	10.5	43.5	32.0	9.0	2.0	5.0
Merged-chr12-85489392-4	chr12	85489265	85489465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TGG)n|Simple_repeat|Simple_repeat	15475.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	73.0	105.0	77.5	1034.5	94.0	29.5	57.0	40.5
Merged-chr15-27682815-4	chr15	27682690	27682890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1248.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	48.0	48.0	33.5	501.0	49.0	24.0	23.5	37.0
Merged-chr18-61640794-4	chr18	61640696	61640896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045420, intron 1 of 2)	L3|LINE|CR1	1143.0	NR_045420	545261.0	Mm.426593	NR_045420	ENSMUSG00000098098	Bvht	Braveheart|Gm20748	braveheart long non-coding RNA	ncRNA	22.5	70.5	26.0	227.0	82.5	47.0	23.5	40.5
Merged-chr19-46502947-4	chr19	46502838	46503038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053100, exon 1 of 6)	exon (NM_053100, exon 1 of 6)	1290.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	35.0	30.5	23.0	309.0	90.0	14.5	40.5	30.0
Merged-chr3-95526798-4	chr3	95526698	95526898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267695)	promoter-TSS (NM_001267695)	12.0	NM_001267695	13040.0	Mm.3619	NM_021281	ENSMUSG00000038642	Ctss	Cats	cathepsin S	protein-coding	49.5	65.0	35.0	582.0	90.5	44.0	47.0	45.5
Merged-chr1-92774975-3	chr1	92774889	92775089	+	930.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56656.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	13.0	13.0	6.5	146.5	15.0	8.0	4.5	6.5
Merged-chr10-121463829-5	chr10	121463680	121463880	+	839.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	RMER19B|LTR|ERVK	12470.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	13.0	7.5	5.5	52.5	7.0	1.5	8.0	10.5
Merged-chr11-80058811-2	chr11	80058711	80058911	+	646.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_018776, intron 4 of 7)	intron (NM_018776, intron 4 of 7)	22180.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	6.0	22.0	5.0	81.0	13.0	2.0	7.5	5.5
Merged-chr1-193160510-4	chr1	193160415	193160615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016851, intron 2 of 7)	intron (NM_016851, intron 2 of 7)	7403.0	NM_016851	54139.0	Mm.273695	NM_016851	ENSMUSG00000026638	Irf6	AI876454|E230028I05Rik|mirf6	interferon regulatory factor 6	protein-coding	77.0	88.5	66.5	1228.0	220.0	62.0	61.0	68.0
Merged-chr6-129434391-4	chr6	129434282	129434482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175526, intron 3 of 5)	intron (NM_175526, intron 3 of 5)	17618.0	NM_001347475	243653.0	Mm.131289	NM_175526	ENSMUSG00000033082	Clec1a	5930406N14Rik	C-type lectin domain family 1, member a	protein-coding	136.5	250.5	209.0	3043.5	367.0	164.0	160.0	132.5
Merged-chr2-164677214-2	chr2	164677109	164677309	+	653.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-3122.0	NM_001161806	629761.0	Mm.389336	NM_001161806	ENSMUSG00000078940	Wfdc11	-	WAP four-disulfide core domain 11	protein-coding	3.0	4.0	2.5	128.0	18.0	5.5	5.0	11.0
Merged-chr10-60333835-4	chr10	60333759	60333959	+	862.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 40 of 68)	intron (NM_001252635, intron 40 of 68)	-12992.0	NM_001159572	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	14.0	47.0	12.0	84.5	25.5	15.0	22.0	1.5
Merged-chr17-73107403-4	chr17	73107295	73107495	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177968)	promoter-TSS (NM_001177968)	-590.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	21.0	19.5	8.0	166.0	20.5	7.5	20.5	12.0
Merged-chr3-116712238-4	chr3	116712133	116712333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362374)	promoter-TSS (NM_001362374)	47.0	NM_144902	229782.0	Mm.190758	NM_144902	ENSMUSG00000027957	Slc35a3	2310050P13Rik	solute carrier family 35 (UDP-N-acetylglucosamine (UDP-GlcNAc) transporter), member 3	protein-coding	38.0	56.0	54.5	714.5	87.0	24.5	44.0	41.0
Merged-chr17-83632035-4	chr17	83631940	83632140	+	858.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153512)	promoter-TSS (NM_153512)	-145.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	10.0	19.0	8.0	143.0	29.0	7.5	5.5	11.0
Merged-chr2-145720937-4	chr2	145720837	145721037	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 2 of 3)	intron (NR_033220, intron 2 of 3)	19742.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	24.5	35.5	13.5	134.0	43.5	18.5	33.0	17.0
Merged-chr2-5845108-6	chr2	5845054	5845254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356501)	promoter-TSS (NM_001356501)	23.0	NM_001356502	98828.0	Mm.181490	NM_133837	ENSMUSG00000039128	Cdc123	AA959893|G431001I09Rik	cell division cycle 123	protein-coding	26.0	49.0	30.0	293.5	68.5	31.5	24.0	27.0
Merged-chr3-87982994-3	chr3	87982898	87983098	+	960.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11905.0	NM_016701	18008.0	Mm.331129	NM_016701	ENSMUSG00000004891	Nes	AA166324|C78523|ESTM46|Ifaprc2|Marc2|RC2	nestin	protein-coding	2.5	4.5	8.0	48.0	43.0	18.5	15.5	20.0
Merged-chr2-69803005-4	chr2	69802905	69803105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	13268.0	NM_028521	73373.0	Mm.9621	NM_028521	ENSMUSG00000027088	Phospho2	1700048E23Rik|AI661517|AU021728|AV006103|Phos2	phosphatase, orphan 2	protein-coding	22.5	28.0	26.0	312.0	122.5	68.5	92.5	60.5
Merged-chr3-96269120-4	chr3	96269042	96269242	+	862.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175666)	promoter-TSS (NM_175666)	488.0	NM_178215	319154.0	Mm.383293	NM_178215	ENSMUSG00000074403	Hist2h3b	H3-615|H3-616	histone cluster 2, H3b	protein-coding	7.5	6.5	3.5	78.0	36.0	6.0	12.0	24.5
Merged-chr9-90162864-2	chr9	90162782	90162982	+	638.75	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_001326294)	promoter-TSS (NM_001326294)	-96.0	NM_001003911	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	7.0	9.5	5.5	147.0	23.0	4.5	7.5	9.5
Merged-chr18-35553373-4	chr18	35553270	35553470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038073)	promoter-TSS (NR_038073)	-40.0	NR_038073	100503380.0	Mm.482118	NR_038073	ENSMUSG00000097769	Snhg4	Gm17457	small nucleolar RNA host gene 4	ncRNA	61.0	67.5	44.5	804.0	125.5	46.5	49.0	53.5
Merged-chr2-4457895-4	chr2	4457792	4457992	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	56916.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	16.0	23.5	16.5	172.0	117.0	24.5	37.0	12.0
Merged-chr2-102976405-4	chr2	102976301	102976501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-74736.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	39.0	70.0	57.5	611.0	122.5	62.0	74.5	32.5
Merged-chr15-41790825-3	chr15	41790740	41790940	+	789.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130163, intron 1 of 13)	MIR3|SINE|MIR	1325.0	NM_130885	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	4.5	6.0	7.0	105.0	5.0	4.0	6.0	5.0
Merged-chr15-12119159-1	chr15	12119059	12119259	+	766.0	f0_balb.idr	intron (NM_001358823, intron 2 of 18)	intron (NM_001358823, intron 2 of 18)	1308.0	NM_001358823	22763.0	Mm.273496	NM_011767	ENSMUSG00000022201	Zfr	C920030H05Rik	zinc finger RNA binding protein	protein-coding	9.5	10.5	13.0	109.0	24.5	11.0	11.0	13.0
Merged-chr5-99245562-5	chr5	99245447	99245647	+	808.286682	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	7380.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	13.0	14.0	9.5	68.0	24.5	11.5	7.5	10.5
Merged-chr8-122880128-4	chr8	122880006	122880206	+	956.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31732.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	6.5	18.5	14.5	120.0	33.5	6.5	18.0	14.5
Merged-chr2-114622726-4	chr2	114622626	114622826	+	796.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025675, intron 3 of 8)	intron (NM_025675, intron 3 of 8)	32238.0	NM_001356438	66632.0	Mm.117809	NM_025675	ENSMUSG00000057147	Dph6	5730421E18Rik|Atpbd4	diphthamine biosynthesis 6	protein-coding	5.5	10.0	9.5	101.0	37.0	7.5	17.5	7.5
Merged-chr10-44630517-6	chr10	44630390	44630590	+	839.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-171742.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	11.0	8.0	13.0	158.5	11.5	3.5	2.5	7.5
Merged-chr4-151861170-6	chr4	151861059	151861259	+	946.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 1 of 23)	CpG	609.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	17.5	11.0	6.5	191.0	39.5	13.5	18.0	27.5
Merged-chr2-160175256-3	chr2	160175155	160175355	+	758.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152239.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	9.0	7.0	3.5	104.0	22.0	5.5	10.5	8.5
Merged-chr13-52962581-3	chr13	52962491	52962691	+	882.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	18448.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	7.0	9.0	11.5	132.0	17.5	1.0	10.5	8.0
Merged-chr8-34107523-2	chr8	34107424	34107624	+	624.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011722, intron 1 of 6)	MTD|LTR|ERVL-MaLR	290.0	NM_001293758	22428.0	Mm.150373	NM_011722	ENSMUSG00000031516	Dctn6	AU044699|WS-3|p27	dynactin 6	protein-coding	6.0	5.5	2.0	107.0	17.0	4.5	9.0	6.0
Merged-chr9-106476756-2	chr9	106476701	106476901	+	793.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_145620)	promoter-TSS (NM_145620)	148.0	NM_001311150	235587.0	Mm.273659	NM_145619	ENSMUSG00000023249	Parp3	A930002C11Rik|AW990611|Adprt3|Adprtl3|PARP-3|pADPRT-3	poly (ADP-ribose) polymerase family, member 3	protein-coding	12.0	24.0	10.0	89.0	47.5	17.0	16.0	23.5
Merged-chr10-127263182-4	chr10	127263087	127263287	+	784.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008447, exon 1 of 28)	5' UTR (NM_008447, exon 1 of 28)	176.0	NM_008447	16572.0	Mm.30355	NM_008447	ENSMUSG00000074657	Kif5a	D10Bwg0738e|Khc|Kif5|Kns|mKIAA4086	kinesin family member 5A	protein-coding	12.0	9.0	10.5	126.0	20.5	7.0	8.0	10.5
Merged-chr14-67932772-3	chr14	67932648	67932848	+	979.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177780, intron 1 of 51)	intron (NM_177780, intron 1 of 51)	824.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	10.5	7.5	10.5	199.5	7.0	5.5	10.5	7.0
Merged-chr3-82029419-3	chr3	82029310	82029510	+	721.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32488.0	NM_021370	58170.0	Mm.88839	NM_021370	ENSMUSG00000028008	Asic5	Accn5|Blinac|Inac	acid-sensing (proton-gated) ion channel family member 5	protein-coding	3.0	6.5	14.0	137.5	28.0	9.0	8.0	9.0
Merged-chr17-36252602-4	chr17	36252448	36252648	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5298.0	NM_026308	67676.0	Mm.27131	NM_026308	ENSMUSG00000024446	Rpp21	0610037N01Rik	ribonuclease P 21 subunit	protein-coding	14.5	30.0	22.5	332.5	41.0	20.5	19.0	13.5
Merged-chr18-65524712-4	chr18	65524606	65524806	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 2 of 6)	intron (NR_105742, intron 2 of 6)	-55524.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	16.0	20.5	27.5	429.5	56.0	21.0	27.5	21.0
Merged-chr10-75781207-6	chr10	75781084	75781284	+	871.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133994, exon 1 of 5)	5' UTR (NM_133994, exon 1 of 5)	230.0	NM_133994	103140.0	Mm.5731	NM_133994	ENSMUSG00000001665	Gstt3	AI118089	glutathione S-transferase, theta 3	protein-coding	18.0	24.0	17.0	254.5	20.0	10.5	25.0	13.0
Merged-chr15-27919708-4	chr15	27919616	27919816	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	106132.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	21.5	30.5	32.0	215.5	72.5	22.5	19.0	24.5
Merged-chr3-142765980-4	chr3	142765872	142766072	+	971.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145546, intron 1 of 6)	intron (NM_145546, intron 1 of 6)	725.0	NM_145546	229906.0	Mm.271756	NM_145546	ENSMUSG00000028271	Gtf2b	-	general transcription factor IIB	protein-coding	14.5	34.5	24.5	270.5	39.5	12.5	14.5	11.0
Merged-chr9-110682557-4	chr9	110682454	110682654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	MIR|SINE|MIR	26051.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	28.0	31.0	18.0	401.5	96.0	35.5	33.5	48.5
Merged-chr5-125052354-4	chr5	125052242	125052442	+	914.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 18 of 46)	intron (NM_011424, intron 18 of 46)	48867.0	NM_028443	73121.0	Mm.296138	NM_028443	ENSMUSG00000037962	Rflna	3110032G18Rik|Fam101a|cfm|cfm2	refilin A	protein-coding	16.5	32.5	15.5	139.5	23.0	8.0	7.5	13.5
Merged-chr10-100016176-1	chr10	100016076	100016276	+	1000.0	f0_balb.idr	intron (NM_001347156, intron 1 of 8)	CpG	355.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	14.0	33.5	26.0	324.0	21.5	15.0	18.5	16.0
Merged-chr4-116626849-4	chr4	116626743	116626943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081475, intron 1 of 13)	CpG	654.0	NM_001081475	50927.0	Mm.257181	NM_016777	ENSMUSG00000028693	Nasp	5033430J04Rik|AI131596|AI317140|D4Ertd767e|Epcs32|Nasp-T	nuclear autoantigenic sperm protein (histone-binding)	protein-coding	40.5	76.5	30.0	449.5	122.5	54.5	54.0	42.0
Merged-chr15-78330171-3	chr15	78330075	78330275	+	774.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358854, intron 2 of 14)	intron (NM_001358854, intron 2 of 14)	4185.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	6.5	6.5	7.5	79.0	16.5	5.5	2.5	5.0
Merged-chr17-28432232-4	chr17	28432145	28432345	+	982.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 3 of 10)	MER90a|LTR|ERV1	53904.0	NM_010220	14229.0	Mm.276405	NM_010220	ENSMUSG00000024222	Fkbp5	D17Ertd592e|Dit1|FKBP-5|FKBP51	FK506 binding protein 5	protein-coding	15.0	21.5	17.0	616.5	69.0	19.5	30.5	31.5
Merged-chr7-46547768-3	chr7	46547657	46547857	+	855.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013789, intron 9 of 10)	Tigger14a|DNA|TcMar-Tigger	92050.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	8.0	7.5	6.0	70.0	13.5	6.0	6.5	2.5
Merged-chr2-49276217-4	chr2	49276110	49276310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290656, intron 6 of 9)	intron (NM_001290656, intron 6 of 9)	30310.0	NM_001290656	109241.0	Mm.440436	NM_029924	ENSMUSG00000036792	Mbd5	9430004D19Rik|AA536666|AI426407|C030040A15Rik|Gm1630	methyl-CpG binding domain protein 5	protein-coding	29.0	28.5	38.5	661.0	57.5	17.0	31.5	34.5
Merged-chr7-83814312-4	chr7	83814209	83814409	+	954.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19470.0	NM_029335	75556.0	Mm.17649	NM_029335	ENSMUSG00000011154	Cfap161	1700026D08Rik|AW047638|AW551802	cilia and flagella associated protein 161	protein-coding	16.0	23.5	40.5	497.0	27.0	16.0	20.0	19.5
Merged-chr7-123312064-4	chr7	123311969	123312169	+	845.470825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 8 of 19)	intron (NM_001316713, intron 8 of 19)	57846.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	15.5	13.0	11.0	212.5	40.0	15.5	26.0	19.5
Merged-chr3-94786551-4	chr3	94786463	94786663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037711)	promoter-TSS (NM_001037711)	-48.0	NM_001037711	70737.0	Mm.87634	NM_001037711	ENSMUSG00000068876	Cgn	6330408J11Rik	cingulin	protein-coding	36.0	30.5	33.0	456.0	49.0	31.5	31.5	33.5
Merged-chr2-6436230-4	chr2	6436136	6436336	+	891.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 13 of 13)	intron (NM_181399, intron 13 of 13)	83500.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	13.0	13.5	12.0	244.5	25.0	6.5	17.5	24.0
Merged-chr13-24757982-4	chr13	24757887	24758087	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020567, intron 2 of 6)	intron (NM_020567, intron 2 of 6)	3950.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	20.5	24.0	12.5	181.0	38.5	13.0	20.0	17.5
Merged-chr11-4600129-4	chr11	4600026	4600226	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-5311.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	35.5	12.5	12.5	264.5	74.0	17.0	16.5	21.5
Merged-chr12-3360189-4	chr12	3360088	3360288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4944.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	71.0	132.5	57.5	884.0	197.5	94.5	67.5	71.5
Merged-chr7-25811546-6	chr7	25811409	25811609	+	792.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028775, intron 3 of 8)	intron (NM_028775, intron 3 of 8)	5021.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	6.5	6.5	13.0	165.5	12.0	11.5	7.0	11.5
Merged-chr14-55884940-4	chr14	55884840	55885040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019820)	promoter-TSS (NM_019820)	-2.0	NM_027143	219094.0	Mm.37592	NM_027143	ENSMUSG00000047153	Khnyn	6330555F21|9130227C08Rik|AI605259|Kiaa0323|mKIAA0323	KH and NYN domain containing	protein-coding	151.5	180.0	146.0	1990.0	293.5	107.5	155.0	112.5
Merged-chr9-24349664-4	chr9	24349589	24349789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153451.0	NM_001359948	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	31.5	17.5	26.5	775.5	53.0	20.0	26.5	32.5
Merged-chr11-100319832-4	chr11	100319753	100319953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011508)	promoter-TSS (NM_011508)	-96.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	126.0	247.5	159.5	1647.5	419.5	212.0	170.5	158.5
Merged-chr4-58506958-4	chr4	58506860	58507060	+	994.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010336, intron 1 of 3)	intron (NM_010336, intron 1 of 3)	-7557.0	NM_001290486	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	14.0	35.0	42.5	547.0	57.5	16.0	23.5	27.0
Merged-chr4-150239692-3	chr4	150239566	150239766	+	917.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023119, intron 2 of 11)	PB1D10|SINE|Alu	2342.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	10.5	5.0	6.0	108.0	13.5	3.0	5.0	5.5
Merged-chr17-81538356-4	chr17	81538263	81538463	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	ORR1E|LTR|ERVL-MaLR	200024.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	13.5	19.0	20.0	355.5	49.0	16.0	37.5	18.5
Merged-chr17-72945405-3	chr17	72945319	72945519	+	717.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	27114.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	5.5	10.0	9.5	95.0	12.5	0.5	6.5	3.5
Merged-chr3-90111852-4	chr3	90111754	90111954	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029937, intron 2 of 39)	intron (NM_029937, intron 2 of 39)	7722.0	NM_029937	77595.0	Mm.159949	NM_029937	ENSMUSG00000027939	Nup210l	4930548O11Rik|R26-EGFP|Tg(Gt(ROSA)26Sor-EGFP)130910Eps	nucleoporin 210-like	protein-coding	23.5	27.5	17.5	433.5	19.0	9.5	36.0	18.5
Merged-chr11-60830669-4	chr11	60830560	60830760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145428)	promoter-TSS (NM_145428)	29.0	NM_145428	216820.0	Mm.21475	NM_145428	ENSMUSG00000042569	Dhrs7b	BC003479|C79874|C80074|PexRAP	dehydrogenase/reductase (SDR family) member 7B	protein-coding	80.5	131.5	63.5	870.0	228.0	97.5	77.0	73.0
Merged-chr17-78419369-4	chr17	78419243	78419443	+	963.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1191.0	NM_001285940	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	34.0	45.5	52.5	965.5	86.0	17.5	47.0	43.5
Merged-chr2-121474037-4	chr2	121473949	121474149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081975)	promoter-TSS (NM_001081975)	-26.0	NM_001081975	100034361.0	Mm.270393	NM_001081975	ENSMUSG00000048222	Mfap1b	-	microfibrillar-associated protein 1B	protein-coding	45.5	61.5	24.5	508.0	123.0	44.0	50.0	43.0
Merged-chr2-35755961-3	chr2	35755859	35756059	+	939.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 9 of 9)	intron (NM_029774, intron 9 of 9)	59227.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	9.5	12.0	10.0	182.5	21.5	15.5	7.0	5.0
Merged-chr1-36090223-4	chr1	36090124	36090324	+	951.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	21824.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	26.5	33.0	11.0	229.0	28.0	11.5	14.5	9.0
Merged-chr1-13363827-1	chr1	13363727	13363927	+	684.0	f0_balb.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	8602.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	5.0	13.0	10.0	82.0	8.5	3.5	3.0	4.0
Merged-chr2-165287006-3	chr2	165286921	165287121	+	786.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252575, intron 1 of 9)	intron (NM_001252575, intron 1 of 9)	766.0	NM_001252574	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	4.0	10.0	5.5	101.5	13.5	7.0	5.5	14.5
Merged-chr18-33719378-1	chr18	33719278	33719478	+	679.666687	f0_c57.idr	Intergenic	Intergenic	-75514.0	NR_038152	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	0.0	0.0	0.0	14.5	25.5	7.0	13.0	10.0
Merged-chr17-21422777-3	chr17	21422676	21422876	+	942.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011760)	promoter-TSS (NM_011760)	-451.0	NM_011760	22712.0	Mm.12916	NM_011760	ENSMUSG00000023882	Zfp54	2810034D10Rik|KRAB10|Zfp-54|Zfp76|mszf83	zinc finger protein 54	protein-coding	9.5	8.0	5.0	266.5	47.5	7.0	17.0	12.0
Merged-chr5-53997084-4	chr5	53996980	53997180	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1443.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	13.5	9.0	20.0	205.5	39.5	4.5	19.5	8.5
Merged-chr16-30922791-4	chr16	30922683	30922883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158649.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	51.0	60.5	40.0	551.0	97.5	41.0	25.0	31.5
Merged-chr14-46881112-4	chr14	46881014	46881214	+	944.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1851.0	NM_028966	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	17.0	8.5	8.0	264.5	43.5	16.5	21.0	20.5
Merged-chr1-43911988-4	chr1	43911870	43912070	+	845.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22024.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	5.0	9.0	9.0	148.5	16.5	4.0	12.0	14.5
Merged-chr1-191312796-4	chr1	191312716	191312916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025424, intron 1 of 3)	intron (NM_025424, intron 1 of 3)	5302.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	42.0	76.0	53.0	680.0	164.0	57.0	87.0	87.0
Merged-chr11-95336836-4	chr11	95336762	95336962	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172543)	promoter-TSS (NM_172543)	-156.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	23.5	35.0	16.0	200.5	50.0	24.0	25.0	14.5
Merged-chr13-46727719-2	chr13	46727619	46727819	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175749, exon 1 of 22)	5' UTR (NM_175749, exon 1 of 22)	130.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	24.5	50.5	26.0	382.0	86.0	40.0	46.0	68.0
Merged-chr11-95001273-4	chr11	95001132	95001332	+	701.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172261, exon 5 of 10)	exon (NM_172261, exon 5 of 10)	-8647.0	NM_146025	217125.0	Mm.297199	NM_146025	ENSMUSG00000047181	Samd14	AI839049|AI854782|BC034054	sterile alpha motif domain containing 14	protein-coding	6.0	10.0	10.0	80.5	8.5	6.5	8.5	5.5
Merged-chr7-83802154-4	chr7	83802048	83802248	+	866.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7309.0	NM_029335	75556.0	Mm.17649	NM_029335	ENSMUSG00000011154	Cfap161	1700026D08Rik|AW047638|AW551802	cilia and flagella associated protein 161	protein-coding	22.5	14.0	14.0	226.0	21.0	9.0	10.0	13.0
Merged-chr17-57449783-3	chr17	57449711	57449911	+	885.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355722, intron 16 of 22)	intron (NM_001355722, intron 16 of 22)	91125.0	NM_010130	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	2.5	9.5	2.5	23.0	22.5	6.0	10.0	5.5
Merged-chr4-48044355-4	chr4	48044244	48044444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015743)	promoter-TSS (NM_015743)	-961.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	27.5	19.0	14.5	517.0	49.0	23.0	36.5	32.0
Merged-chr13-51850420-4	chr13	51850289	51850489	+	820.071411	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3714.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	8.5	22.5	5.5	110.5	18.0	7.0	2.0	8.5
Merged-chr5-139483669-4	chr5	139483559	139483759	+	954.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159908, intron 1 of 6)	intron (NM_001159908, intron 1 of 6)	832.0	NM_133349	100494.0	Mm.24521	NM_133349	ENSMUSG00000053581	Zfand2a	AA407930|AU016206|Airap	zinc finger, AN1-type domain 2A	protein-coding	20.5	48.5	20.0	500.5	52.0	17.5	15.5	21.5
Merged-chr14-55147944-1	chr14	55147844	55148044	+	541.0	f0_balb.idr	Intergenic	Intergenic	-31009.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	9.0	7.0	6.5	80.5	8.0	3.0	1.5	12.0
Merged-chr11-85823364-3	chr11	85823271	85823471	+	706.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077059, intron 1 of 4)	intron (NR_077059, intron 1 of 4)	9017.0	NR_077059	69909.0	Mm.440214	NR_077059	ENSMUSG00000087013	2610027K06Rik	-	RIKEN cDNA 2610027K06 gene	ncRNA	9.5	9.0	7.5	87.5	13.5	4.5	13.0	9.0
Merged-chr12-100779584-4	chr12	100779458	100779658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145448, intron 1 of 12)	intron (NM_145448, intron 1 of 12)	501.0	NM_145448	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	13.0	34.0	27.5	230.0	60.0	19.0	7.5	28.5
Merged-chr8-124586822-3	chr8	124586718	124586918	+	992.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023709, intron 1 of 19)	intron (NM_023709, intron 1 of 19)	10707.0	NM_023709	73647.0	Mm.6209	NM_023709	ENSMUSG00000031981	Capn9	2200003B16Rik|GC36|nCL-4|nCL4	calpain 9	protein-coding	30.0	29.0	30.0	597.0	0.0	0.0	1.0	0.0
Merged-chr10-116949891-4	chr10	116949802	116950002	+	706.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038025)	promoter-TSS (NR_038025)	551.0	NM_001359645	216363.0	Mm.336394	NM_001003950	ENSMUSG00000064181	Rab3ip	B230311A06|Gtpat12|Rabin3	RAB3A interacting protein	protein-coding	5.5	10.0	6.0	94.0	27.5	9.0	8.0	17.5
Merged-chr15-58554232-4	chr15	58554180	58554380	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	138812.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	15.5	29.0	11.0	392.5	44.5	17.0	23.5	18.0
Merged-chr6-124859960-4	chr6	124859842	124860042	+	959.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013533, intron 3 of 4)	intron (NM_013533, intron 3 of 4)	-2255.0	NM_013534	14789.0	Mm.35708	NM_013534	ENSMUSG00000023191	P3h3	BC016431|Grcb|Leprel2	prolyl 3-hydroxylase 3	protein-coding	13.0	19.0	15.0	220.0	38.0	13.5	15.0	18.5
Merged-chr12-8437603-2	chr12	8437526	8437726	+	800.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62383.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	5.5	12.0	11.0	48.5	8.5	2.0	7.0	7.5
Merged-chr11-63788222-4	chr11	63788087	63788287	+	959.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134097.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	21.5	14.5	30.5	315.0	26.5	8.5	17.0	24.5
Merged-chr10-127288002-2	chr10	127287902	127288102	+	847.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347171, intron 1 of 12)	intron (NM_001347171, intron 1 of 12)	1016.0	NM_001347171	110962.0	Mm.372826	NM_033072	ENSMUSG00000025409	Mbd6	D10Wsu93e	methyl-CpG binding domain protein 6	protein-coding	5.5	10.5	6.5	45.5	18.5	2.0	5.5	8.0
Merged-chr2-68983707-4	chr2	68983607	68983807	+	790.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 3 of 10)	ID_B1|SINE|B4	122266.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	16.0	5.5	15.0	166.0	23.5	7.5	8.0	17.5
Merged-chr10-96624666-4	chr10	96624577	96624777	+	663.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7676.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	8.5	24.0	6.0	21.5	18.0	7.5	1.0	6.5
Merged-chr3-89246420-4	chr3	89246304	89246504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025327)	promoter-TSS (NM_025327)	-34.0	NM_025327	66059.0	Mm.177991	NM_025327	ENSMUSG00000042747	Krtcap2	0610010I12Rik|Kcp2	keratinocyte associated protein 2	protein-coding	55.0	82.0	26.5	809.5	144.5	43.5	49.0	49.5
Merged-chr6-51550141-4	chr6	51550027	51550227	+	691.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	L1MB8|LINE|L1	4834.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	10.5	16.5	2.0	109.0	22.5	9.0	8.5	10.0
Merged-chr13-117024557-4	chr13	117024507	117024707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 2 of 26)	CpG	909.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	35.0	46.5	56.5	322.5	95.5	28.0	27.5	31.0
Merged-chr18-20803210-4	chr18	20803114	20803314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-56810.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	35.5	38.0	30.5	771.0	56.0	20.5	59.5	37.5
Merged-chr1-74237909-4	chr1	74237814	74238014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	intron (NM_001357387, intron 2 of 10)	1397.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	26.5	35.5	42.0	381.5	88.5	25.0	36.0	35.5
Merged-chr11-11687812-4	chr11	11687718	11687918	+	723.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025597, intron 1 of 7)	intron (NM_001025597, intron 1 of 7)	1893.0	NM_001025597	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	5.0	10.0	5.5	86.0	36.0	4.0	4.0	10.5
Merged-chr11-119954445-4	chr11	119954340	119954540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037754, intron 1 of 13)	intron (NM_001037754, intron 1 of 13)	11348.0	NM_130862	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	42.0	71.0	41.5	762.0	61.5	28.5	51.0	44.5
Merged-chr10-5194886-6	chr10	5194789	5194989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001079686)	promoter-TSS (NM_001079686)	-182.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	33.0	35.0	54.5	636.0	65.5	35.0	29.5	40.5
Merged-chr9-25483419-5	chr9	25483209	25483409	+	900.1533199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026189, exon 2 of 8)	exon (NM_026189, exon 2 of 8)	1712.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	13.0	6.5	11.0	140.5	22.5	9.0	10.0	11.0
Merged-chr19-44407534-3	chr19	44407427	44407627	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009127, exon 1 of 6)	5' UTR (NM_009127, exon 1 of 6)	182.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	9.5	11.0	12.0	100.0	22.0	12.5	8.0	4.5
Merged-chr5-17885474-4	chr5	17885390	17885590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	3469.0	NM_001159558	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	45.0	53.5	27.5	853.5	63.0	31.0	30.5	42.0
Merged-chr13-41079625-4	chr13	41079499	41079699	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145802, intron 1 of 11)	CpG	107.0	NM_001145803	17152.0	Mm.8149	NM_008547	ENSMUSG00000021363	Mak	A930010O05Rik	male germ cell-associated kinase	protein-coding	32.5	26.5	18.0	191.5	43.5	20.0	15.0	24.0
Merged-chr4-140983535-4	chr4	140983419	140983619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3354.0	NM_029097	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	225.5	244.5	189.5	3232.0	394.0	158.0	248.5	174.5
Merged-chr16-38403845-4	chr16	38403733	38403933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134102, intron 8 of 10)	intron (NM_134102, intron 8 of 10)	29312.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	83.5	134.5	58.5	1000.5	110.5	37.0	53.0	52.0
Merged-chr11-70376350-4	chr11	70376249	70376449	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEf|LINE|L1	-24318.0	NM_009660	11687.0	Mm.4584	NM_009660	ENSMUSG00000018924	Alox15	12-LO|12/15-LO|15-LOX|Alox12l|L-12LO	arachidonate 15-lipoxygenase	protein-coding	31.5	35.5	18.5	334.5	46.5	11.0	16.0	22.5
Merged-chr2-129546972-4	chr2	129546855	129547055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-10353.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	145.5	216.5	179.0	1640.0	295.5	140.0	123.0	103.0
Merged-chr4-105109790-4	chr4	105109637	105109837	+	912.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178143, exon 1 of 9)	exon (NM_178143, exon 1 of 9)	161.0	NM_178143	108079.0	Mm.48638	NM_178143	ENSMUSG00000028518	Prkaa2	2310008I11Rik|A830082D05|AMPKalpha2	protein kinase, AMP-activated, alpha 2 catalytic subunit	protein-coding	9.5	7.0	11.5	89.0	21.5	7.0	10.0	7.5
Merged-chr14-26612691-4	chr14	26612577	26612777	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285467, intron 12 of 19)	intron (NM_001285467, intron 12 of 19)	-25457.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	27.5	48.0	24.5	299.5	71.5	31.5	20.5	29.0
Merged-chr14-17633056-4	chr14	17632948	17633148	+	853.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27912.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	14.0	22.0	10.0	289.5	29.5	5.0	9.5	8.5
Merged-chr5-36574342-3	chr5	36574249	36574449	+	761.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113362, intron 2 of 14)	MIRb|SINE|MIR	8048.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	5.5	11.5	8.0	94.5	7.0	2.0	6.5	5.5
Merged-chr3-103112390-3	chr3	103112281	103112481	+	621.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-15175.0	NM_177857	329727.0	Mm.293641	NM_177857	ENSMUSG00000007379	Dennd2c	A930010I20Rik	DENN/MADD domain containing 2C	protein-coding	5.0	10.5	5.0	74.0	2.5	0.5	1.5	2.5
Merged-chr2-60821863-4	chr2	60821769	60821969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	59569.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	130.5	154.5	148.0	2273.0	301.0	109.5	130.5	134.0
Merged-chr7-110557191-4	chr7	110557097	110557297	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 2 of 40)	intron (NM_177324, intron 2 of 40)	57723.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	26.0	21.0	6.0	133.0	53.5	12.0	8.5	10.0
Merged-chr13-74260197-7	chr13	74260087	74260287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317351, intron 2 of 9)	CpG	32144.0	NM_009644	11624.0	Mm.290446	NM_009644	ENSMUSG00000021575	Ahrr	mKIAA1234	aryl-hydrocarbon receptor repressor	protein-coding	30.5	30.0	50.5	509.5	81.5	29.0	43.5	47.0
Merged-chr4-126262213-4	chr4	126262113	126262313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013718)	promoter-TSS (NM_013718)	-192.0	NM_013718	27096.0	Mm.8392	NM_013718	ENSMUSG00000028847	Trappc3	1110058K12Rik|AI835942|AU019197|Bet3	trafficking protein particle complex 3	protein-coding	194.0	354.0	189.5	2026.5	448.0	232.5	210.5	167.5
Merged-chr15-76477833-2	chr15	76477733	76477933	+	971.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013481)	promoter-TSS (NM_013481)	471.0	NR_138589	15499.0	Mm.347444	NM_008296	ENSMUSG00000022556	Hsf1	AA960185|HSTF|HSTF 1|Hsf1alpha|Hsf1beta	heat shock factor 1	protein-coding	6.5	18.0	12.0	153.0	18.0	9.5	6.0	12.5
Merged-chr2-181090329-4	chr2	181090244	181090444	+	958.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003824, intron 10 of 16)	intron (NM_001003824, intron 10 of 16)	44945.0	NM_001006668	16536.0	Mm.40615	NM_010611	ENSMUSG00000016346	Kcnq2	HNSPC|KQT2|Nmf134	potassium voltage-gated channel, subfamily Q, member 2	protein-coding	12.5	15.5	17.5	272.0	46.0	5.5	26.5	29.5
Merged-chr4-152152397-4	chr4	152152283	152152483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207687)	promoter-TSS (NM_207687)	-176.0	NM_207687	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	34.5	34.0	56.0	492.5	55.5	14.5	21.5	28.0
Merged-chr1-151595747-2	chr1	151595647	151595847	+	896.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	MLT1A1|LTR|ERVL-MaLR	24374.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	4.5	6.0	7.0	58.5	7.0	2.0	3.0	4.0
Merged-chr6-122925779-3	chr6	122925677	122925877	+	640.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199311, intron 2 of 5)	intron (NM_199311, intron 2 of 5)	3929.0	NM_199311	269799.0	Mm.297275	NM_199311	ENSMUSG00000049037	Clec4a1	BC049354|Dcir4	C-type lectin domain family 4, member a1	protein-coding	8.0	7.5	4.0	148.0	7.0	12.5	7.0	7.5
Merged-chr7-19221573-3	chr7	19221446	19221646	+	935.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175668, exon 2 of 2)	5' UTR (NM_175668, exon 2 of 2)	-6843.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	19.0	29.0	6.0	76.0	24.0	7.0	3.0	5.5
Merged-chr13-4770555-3	chr13	4770461	4770661	+	905.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-161397.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	12.0	27.5	19.5	213.0	19.5	12.0	4.5	1.0
Merged-chr6-118139188-4	chr6	118139078	118139278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030165)	promoter-TSS (NM_030165)	-38.0	NM_030165	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	154.0	230.5	183.0	1892.0	453.5	162.0	193.5	149.0
Merged-chr6-127446752-4	chr6	127446658	127446858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346513)	promoter-TSS (NM_001346513)	-82.0	NM_001346513	101187.0	Mm.110818	NM_181402	ENSMUSG00000037997	Parp11	5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11	poly (ADP-ribose) polymerase family, member 11	protein-coding	31.5	46.5	25.0	557.5	154.5	55.0	39.0	46.0
Merged-chr13-117031842-3	chr13	117031740	117031940	+	967.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6324.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	11.5	27.0	15.0	175.5	20.0	9.5	6.0	8.5
Merged-chr5-114916939-4	chr5	114916850	114917050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6290.0	NM_001359946	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	64.5	116.5	62.0	1106.0	86.5	44.5	37.0	28.0
Merged-chr13-33934831-3	chr13	33934734	33934934	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243192, intron 2 of 7)	intron (NM_001243192, intron 2 of 7)	-1198.0	NR_040707	68808.0	Mm.443347	NR_040707	ENSMUSG00000085457	1110046J04Rik	-	RIKEN cDNA 1110046J04 gene	ncRNA	5.5	8.5	10.5	126.0	17.5	4.0	6.5	9.0
Merged-chr12-102432914-4	chr12	102432815	102433015	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	intron (NM_011175, intron 1 of 13)	6898.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	25.0	24.5	23.0	243.5	83.5	11.5	9.5	18.5
Merged-chr4-149662342-4	chr4	149662256	149662456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 3 of 23)	intron (NM_001029837, intron 3 of 23)	960.0	NM_001164052	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	33.0	48.0	56.0	753.0	66.0	25.0	36.5	40.0
Merged-chr8-125116746-4	chr8	125116665	125116865	+	976.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 3 of 12)	intron (NM_174854, intron 3 of 12)	62570.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	18.5	70.5	28.0	402.0	37.0	21.0	22.5	15.0
Merged-chr9-32539436-4	chr9	32539354	32539554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	1998.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	83.0	98.0	77.5	1543.5	144.5	62.0	75.5	62.0
Merged-chr17-10500981-4	chr17	10500947	10501147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 4 of 4)	intron (NM_027032, intron 4 of 4)	44831.0	NR_077238	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	66.5	67.0	52.0	803.0	90.5	23.0	43.5	41.0
Merged-chr2-79628789-2	chr2	79628683	79628883	+	733.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-6642.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	10.5	31.5	4.5	166.5	1.5	1.0	0.0	2.0
Merged-chr1-156617420-3	chr1	156617317	156617517	+	649.155579	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	(GGAA)n|Simple_repeat|Simple_repeat	56922.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	2.5	9.0	1.0	81.5	21.5	5.5	8.5	11.0
Merged-chr10-42780926-1	chr10	42780826	42781026	+	729.5	f0_balb.idr	intron (NM_001359285, intron 1 of 19)	MLT1D|LTR|ERVL-MaLR	19430.0	NM_153055	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	6.0	3.0	8.0	111.0	15.0	5.5	6.0	14.5
Merged-chr7-143038738-4	chr7	143038637	143038837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015529, intron 2 of 3)	ERVL-B4-int|LTR|ERVL	-14013.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	45.0	89.0	34.0	513.5	150.0	49.5	60.0	42.5
Merged-chr9-54507785-4	chr9	54507673	54507873	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-6147.0	NM_172771	235380.0	Mm.93636	NM_172771	ENSMUSG00000041268	Dmxl2	6330586A12|6430411K14Rik|E130119P06Rik|mKIAA0856	Dmx-like 2	protein-coding	21.5	26.0	25.5	205.5	60.0	25.0	24.0	30.5
Merged-chr15-76715341-4	chr15	76715238	76715438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145471)	TTS (NM_145471)	4697.0	NM_001358893	223664.0	Mm.277582	NM_145471	ENSMUSG00000033728	Lrrc14	E130306I01Rik|mKIAA0014	leucine rich repeat containing 14	protein-coding	65.5	78.5	56.5	888.0	214.0	44.5	92.0	98.0
Merged-chr16-23224819-4	chr16	23224718	23224918	+	923.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145933)	promoter-TSS (NM_145933)	78.0	NM_145933	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	16.5	17.0	15.5	285.0	28.0	7.5	19.5	30.5
Merged-chr7-19790133-3	chr7	19790041	19790241	+	824.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161844, intron 5 of 10)	intron (NM_001161844, intron 5 of 10)	6668.0	NM_001161844	80794.0	Mm.81698	NM_023224	ENSMUSG00000040525	Cblc	2310076I21Rik|2310079L19Rik|Cbl3	Casitas B-lineage lymphoma c	protein-coding	5.5	8.5	9.5	84.0	14.0	7.0	3.0	5.5
Merged-chr14-44989288-4	chr14	44989067	44989267	+	906.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008964, exon 1 of 2)	exon (NM_008964, exon 1 of 2)	1056.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	4.0	9.5	7.0	95.5	15.5	10.0	11.0	6.0
Merged-chr11-121228771-2	chr11	121228645	121228845	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001252549, intron 1 of 6)	intron (NM_001252549, intron 1 of 6)	195.0	NM_001254735	217370.0	Mm.27182	NM_144832	ENSMUSG00000039294	BC017643	-	cDNA sequence BC017643	protein-coding	14.5	31.5	18.5	228.5	33.5	16.0	17.0	24.5
Merged-chr17-36951759-4	chr17	36951660	36951860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029632)	promoter-TSS (NM_029632)	32.0	NM_029632	76497.0	Mm.46176	NM_029632	ENSMUSG00000036398	Ppp1r11	1500041B02Rik|AV117883|Hcgv|Tcte5|Tctex-5|Tctex5	protein phosphatase 1, regulatory (inhibitor) subunit 11	protein-coding	234.5	383.0	185.5	3561.0	587.5	175.0	270.0	230.5
Merged-chr13-60682951-3	chr13	60682853	60683053	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	80742.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	11.5	6.5	5.0	62.5	27.0	6.0	18.5	27.5
Merged-chr2-133552877-6	chr2	133552749	133552949	+	935.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007553, exon 1 of 3)	5' UTR (NM_007553, exon 1 of 3)	690.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	25.5	24.5	16.5	236.0	25.0	9.5	7.0	14.0
Merged-chr15-99033320-2	chr15	99033220	99033420	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	intron (NM_009448, intron 1 of 3)	3429.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	8.5	12.5	6.0	74.0	15.0	7.0	2.5	11.0
Merged-chr4-106988154-4	chr4	106988042	106988242	+	771.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355532, intron 1 of 14)	intron (NM_001355532, intron 1 of 14)	64957.0	NM_001355532	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	9.0	9.0	5.0	194.5	27.5	3.0	15.5	11.0
Merged-chr10-18943559-4	chr10	18943439	18943639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41B|LTR|ERVL	68424.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	24.5	37.5	76.5	919.5	68.0	26.5	64.0	64.5
Merged-chr10-40073808-4	chr10	40073717	40073917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 3 of 5)	RSINE1|SINE|B4	-48549.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	103.5	168.5	84.5	1908.5	235.0	70.5	99.5	92.0
Merged-chr7-97029329-4	chr7	97029232	97029432	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 7 of 13)	intron (NM_153591, intron 7 of 13)	-52419.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	30.0	33.5	40.5	433.5	51.0	25.0	28.0	14.0
Merged-chr6-135323573-4	chr6	135323445	135323645	+	934.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13161.0	NM_029595	76400.0	Mm.293018	NM_029595	ENSMUSG00000047104	Pbp2	1700023A18Rik|AI326308|Pebp-2|Pebp2	phosphatidylethanolamine binding protein 2	protein-coding	15.5	26.0	15.5	115.5	43.5	17.0	17.5	13.0
Merged-chr12-111456058-4	chr12	111455970	111456170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13409.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	46.5	147.0	69.5	561.0	109.5	87.0	32.0	47.0
Merged-chr14-121379284-7	chr14	121379153	121379353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145465)	promoter-TSS (NM_145465)	-23.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	51.5	81.5	52.5	872.0	178.0	72.0	122.0	78.5
Merged-chr14-30548306-8	chr14	30548237	30548437	+	917.5520630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009388)	promoter-TSS (NM_009388)	-794.0	NM_009388	21881.0	Mm.290692	NM_009388	ENSMUSG00000021957	Tkt	p68	transketolase	protein-coding	2.0	5.5	5.5	84.0	21.5	6.0	4.5	18.5
Merged-chr1-86154736-4	chr1	86154659	86154859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310702)	promoter-TSS (NM_001310702)	-21.0	NM_030184	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	122.5	149.5	88.0	1689.0	279.0	124.0	149.5	126.0
Merged-chr8-105339155-4	chr8	105339056	105339256	+	931.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	8814.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	21.0	16.0	19.0	314.5	36.0	11.5	13.5	10.5
Merged-chr1-131548730-4	chr1	131548616	131548816	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20813.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	15.5	41.0	23.5	442.5	36.0	13.0	16.5	20.0
Merged-chr5-75154786-2	chr5	75154711	75154911	+	804.0	f0_balb.idr|f1_balb.idr	intron (NM_001347719, intron 1 of 15)	intron (NM_001347719, intron 1 of 15)	-1355.0	NM_001083316	18595.0	Mm.221403	NM_011058	ENSMUSG00000029231	Pdgfra	AI115593|CD140a|Pdgfr-2	platelet derived growth factor receptor, alpha polypeptide	protein-coding	4.5	14.5	7.0	106.5	6.0	7.5	3.5	1.0
Merged-chr17-17608799-2	chr17	17608698	17608898	+	764.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	15691.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	2.5	5.5	2.5	56.0	16.0	7.5	6.0	8.5
Merged-chr17-45619567-2	chr17	45619467	45619667	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17465.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	4.5	13.5	5.0	26.0	13.5	9.5	6.0	7.0
Merged-chr3-96098315-4	chr3	96098226	96098426	+	822.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6201.0	NM_001025613	229603.0	Mm.272336	NM_001025613	ENSMUSG00000038495	Otud7b	2900060B22Rik|4930463P07Rik|AI462125|CEZANNE|Trabid2|Za20d1	OTU domain containing 7B	protein-coding	11.5	8.0	2.0	97.5	25.5	10.5	9.5	5.0
Merged-chr10-75832469-6	chr10	75832394	75832594	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010361, exon 4 of 5)	exon (NM_010361, exon 4 of 5)	2387.0	NM_010361	14872.0	Mm.24118	NM_010361	ENSMUSG00000033318	Gstt2	AI266894|Yrs|mGSTT2	glutathione S-transferase, theta 2	protein-coding	12.0	18.5	12.0	217.0	38.0	14.5	12.0	12.0
Merged-chr12-70915360-4	chr12	70915268	70915468	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-22489.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	16.0	17.0	25.5	213.5	26.0	8.5	16.5	9.5
Merged-chr3-60582287-3	chr3	60582188	60582388	+	790.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	81109.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	2.5	4.5	8.5	199.0	29.0	10.5	6.0	14.0
Merged-chr10-17550867-4	chr10	17550768	17550968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172360.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	53.0	86.5	140.5	1221.0	87.5	31.0	72.0	47.0
Merged-chr5-16309776-4	chr5	16309679	16309879	+	917.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110843, intron 12 of 38)	intron (NM_001110843, intron 12 of 38)	-243716.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	11.0	9.5	13.0	261.5	42.5	17.5	20.0	13.5
Merged-chr9-35265361-4	chr9	35265255	35265455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286604, intron 2 of 9)	intron (NM_001286604, intron 2 of 9)	2450.0	NM_175411	109229.0	Mm.24197	NM_175411	ENSMUSG00000050471	Fam118b	2310022O21Rik|2700018L24Rik|C030004A17Rik|Ppp4r1l	family with sequence similarity 118, member B	protein-coding	24.5	63.5	33.5	609.5	80.5	33.0	31.5	32.5
Merged-chr7-137405397-4	chr7	137405288	137405488	+	915.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029886, intron 1 of 3)	L1MEc|LINE|L1	5368.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	21.5	17.0	14.0	248.5	29.5	6.5	22.0	21.0
Merged-chr7-38001701-2	chr7	38001603	38001803	+	825.916626	f0_balb.idr|f1_balb.idr	intron (NM_011274, intron 1 of 10)	intron (NM_011274, intron 1 of 10)	17849.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	14.5	17.5	17.5	284.5	6.0	3.0	1.5	2.5
Merged-chr5-122900422-4	chr5	122900329	122900529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013910)	promoter-TSS (NM_013910)	-79.0	NM_013910	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	90.5	118.5	72.5	1094.0	233.5	67.5	115.5	74.0
Merged-chr17-70751328-4	chr17	70751249	70751449	+	817.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	95428.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	4.5	13.0	6.5	97.5	21.0	14.5	4.0	8.0
Merged-chr17-66121763-3	chr17	66121615	66121815	+	768.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1805.0	NM_001003919	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	12.5	5.5	6.0	121.0	6.5	5.0	9.0	8.0
Merged-chr1-156559357-4	chr1	156559273	156559473	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	CpG	586.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	12.5	17.5	20.0	146.0	50.0	23.5	31.0	36.0
Merged-chr19-29382995-4	chr19	29382895	29383095	+	877.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 5 of 6)	intron (NM_021893, intron 5 of 6)	15557.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	7.5	21.5	10.0	86.5	43.5	7.5	11.5	15.5
Merged-chr16-32877741-4	chr16	32877645	32877845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027226)	promoter-TSS (NM_027226)	-39.0	NM_001356387	69823.0	Mm.12831	NM_027226	ENSMUSG00000022800	Fyttd1	2010005M05Rik|3830411L18Rik|3830421F13Rik|4933423A17Rik|AI098218|AW539567|C85190	forty-two-three domain containing 1	protein-coding	76.0	119.5	83.5	967.5	219.5	85.0	98.5	88.5
Merged-chr7-100607533-4	chr7	100607433	100607633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163663)	promoter-TSS (NM_001163663)	-53.0	NM_024287	19346.0	Mm.28650	NM_024287	ENSMUSG00000030704	Rab6a	2610028L11Rik|AA419671|Rab6	RAB6A, member RAS oncogene family	protein-coding	132.5	241.0	167.5	1935.0	389.0	150.0	165.5	156.0
Merged-chr16-21637537-4	chr16	21637390	21637590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	RMER1B|Other|Other	57175.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	73.5	84.5	147.0	1747.5	169.0	59.5	121.5	88.5
Merged-chr7-19131575-4	chr7	19131465	19131665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175530, intron 1 of 1)	intron (NM_175530, intron 1 of 1)	11706.0	NM_175530	243867.0	Mm.230830	NM_175530	ENSMUSG00000050428	Fbxo46	20D7-FC4|4932704E22Rik|Fbxo34l	F-box protein 46	protein-coding	379.5	618.5	324.0	4693.0	754.0	321.0	340.5	304.0
Merged-chr5-66106596-4	chr5	66106497	66106697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	PB1D7|SINE|Alu	-8418.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	49.0	89.5	46.5	711.5	96.0	35.5	47.0	37.5
Merged-chr16-8672195-4	chr16	8672099	8672299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025821)	promoter-TSS (NM_025821)	-46.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	86.0	131.5	71.0	1151.5	208.5	82.5	136.0	75.0
Merged-chr1-156537861-4	chr1	156537698	156537898	+	913.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-20989.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	6.5	10.5	15.0	107.5	16.0	8.0	15.0	10.5
Merged-chr1-155902209-2	chr1	155902112	155902312	+	900.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001039184, intron 23 of 37)	intron (NM_001039184, intron 23 of 37)	71043.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	9.5	6.0	13.0	193.0	8.5	11.5	7.5	19.0
Merged-chr3-41039038-4	chr3	41038936	41039136	+	941.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44010.0	NM_027558	70804.0	Mm.40321	NM_027558	ENSMUSG00000049940	Pgrmc2	4631434O19Rik|5730409G06Rik|DG6|PMBP	progesterone receptor membrane component 2	protein-coding	13.5	31.0	9.5	125.0	18.5	19.5	27.0	9.0
Merged-chr10-19933818-4	chr10	19933649	19933849	+	998.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008580)	promoter-TSS (NM_008580)	-777.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	25.5	65.0	29.5	248.5	45.5	8.5	16.5	27.0
Merged-chr8-31112422-4	chr8	31112341	31112541	+	869.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175136, intron 1 of 5)	intron (NM_175136, intron 1 of 5)	595.0	NM_175136	68867.0	Mm.29532	NM_175136	ENSMUSG00000039328	Rnf122	1110063C11Rik	ring finger protein 122	protein-coding	9.0	7.0	19.5	221.0	24.0	8.5	12.5	20.0
Merged-chr2-90505970-3	chr2	90505933	90506133	+	848.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-26859.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	8.5	6.5	8.0	56.0	13.5	4.0	6.0	2.5
Merged-chr6-8509812-4	chr6	8509716	8509916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040452)	promoter-TSS (NR_040452)	216.0	NM_133236	170772.0	Mm.210787	NM_133236	ENSMUSG00000029638	Glcci1	2310047L21Rik|A130036A18Rik|Fam117c|Gig18|Tssn1	glucocorticoid induced transcript 1	protein-coding	80.0	143.0	120.0	1542.0	305.0	101.5	104.5	62.5
Merged-chr7-4752652-4	chr7	4752542	4752742	+	700.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172895)	TTS (NM_172895)	260.0	NM_183406	333182.0	Mm.29625	NM_183405	ENSMUSG00000051811	Cox6b2	1700067P11Rik|BC048670|COXVIB2	cytochrome c oxidase subunit VIb polypeptide 2	protein-coding	13.5	13.0	4.5	118.0	21.0	4.5	7.5	9.5
Merged-chr8-66388883-4	chr8	66388778	66388978	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	intron (NM_175188, intron 5 of 7)	2577.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	10.0	8.5	10.5	270.0	26.5	13.0	10.5	4.0
Merged-chr12-21370090-2	chr12	21369990	21370190	+	929.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 1 of 18)	intron (NM_001291871, intron 1 of 18)	3542.0	NR_102380	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	8.5	12.0	4.0	83.0	24.5	7.5	7.5	8.5
Merged-chr4-19682706-4	chr4	19682600	19682800	+	950.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_074090, intron 2 of 24)	intron (NR_074090, intron 2 of 24)	26304.0	NM_177327	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	24.0	24.5	24.0	586.0	22.0	21.5	12.5	20.0
Merged-chr6-116669710-3	chr6	116669626	116669826	+	903.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	B4A|SINE|B4	4110.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	6.0	7.0	10.0	33.5	26.0	13.0	8.5	10.0
Merged-chr14-47504736-3	chr14	47504672	47504872	+	736.6555179999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146085, intron 2 of 3)	intron (NM_001146085, intron 2 of 3)	32211.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	0.0	5.0	1.0	54.0	23.5	7.5	12.5	12.5
Merged-chr11-98938236-4	chr11	98938119	98938319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 1 of 8)	intron (NM_009024, intron 1 of 8)	501.0	NM_001177302	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	17.0	24.5	14.0	119.0	33.5	14.0	13.5	14.0
Merged-chr6-52921514-4	chr6	52921421	52921621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	-11901.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	61.0	54.0	38.5	880.5	84.5	42.5	52.0	40.0
Merged-chr19-56391894-2	chr19	56391794	56391994	+	987.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1856.0	NM_001286552	18175.0	Mm.386769	NM_008733	ENSMUSG00000049134	Nrap	-	nebulin-related anchoring protein	protein-coding	9.5	13.0	8.0	72.5	17.0	0.0	10.5	4.5
Merged-chr2-27764345-5	chr2	27764248	27764448	+	989.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53765.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	17.0	12.0	12.5	174.0	35.0	16.5	24.5	20.0
Merged-chr3-146154050-4	chr3	146153952	146154152	+	981.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	intron (NM_001005846, intron 1 of 13)	3878.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	57.0	128.0	47.5	338.5	144.5	36.5	20.0	13.5
Merged-chr15-63150110-2	chr15	63150000	63150200	+	815.666626	f0_balb.idr|f1_balb.idr	Intergenic	L3|LINE|CR1	329508.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	6.0	17.0	22.5	285.0	1.0	0.0	0.0	0.0
Merged-chr6-136930960-4	chr6	136930832	136931032	+	946.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301308, intron 2 of 4)	intron (NM_001301308, intron 2 of 4)	8595.0	NM_001301303	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	17.5	15.5	18.5	272.0	71.5	12.0	33.5	24.5
Merged-chr5-122049950-2	chr5	122049850	122050050	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312908)	promoter-TSS (NM_001312908)	-99.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	5.0	6.5	18.0	141.5	6.5	4.5	1.0	11.0
Merged-chr1-50805027-4	chr1	50804985	50805185	+	833.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122438.0	NM_019790	56363.0	Mm.245154	NM_019790	ENSMUSG00000026109	Tmeff2	4832418D20Rik|7630402F16Rik|TR-2	transmembrane protein with EGF-like and two follistatin-like domains 2	protein-coding	4.5	1.5	6.5	97.0	9.0	7.0	4.5	5.5
Merged-chr7-34811830-3	chr7	34811709	34811909	+	672.033325	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175140, intron 1 of 3)	CpG	902.0	NM_175140	68947.0	Mm.29380	NM_175140	ENSMUSG00000060402	Chst8	1500011J21Rik|AI426009	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 8	protein-coding	2.0	2.5	5.0	50.5	19.5	4.5	9.5	11.5
Merged-chr10-122576762-4	chr10	122576674	122576874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6883.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	24.0	43.5	25.5	502.0	64.0	43.5	37.5	43.5
Merged-chr4-83323776-1	chr4	83323676	83323876	+	1000.0	f0_balb.idr	intron (NM_027238, intron 1 of 19)	CpG	413.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	58.0	74.0	89.5	693.5	128.0	43.5	55.0	64.5
Merged-chr6-72550856-3	chr6	72550773	72550973	+	783.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271395, intron 1 of 9)	L3|LINE|CR1	1226.0	NM_001271395	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	14.5	9.0	12.5	181.5	29.5	7.5	3.5	6.0
Merged-chr6-98513477-4	chr6	98513376	98513576	+	966.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-170722.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	33.5	50.0	15.0	342.5	38.0	20.0	19.5	14.5
Merged-chr2-115368528-3	chr2	115368413	115368613	+	894.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24233.0	NR_040516	78193.0	Mm.189508	NR_040516	ENSMUSG00000087309	4930528P14Rik	-	RIKEN cDNA 4930528P14 gene	ncRNA	8.0	12.5	12.0	296.5	15.0	4.5	6.0	4.0
Merged-chr11-49076509-4	chr11	49076411	49076611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271677)	promoter-TSS (NM_001271677)	-76.0	NM_001271677	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	38.5	108.0	65.0	1006.0	153.5	63.5	59.5	66.5
Merged-chr11-5098397-4	chr11	5098366	5098566	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290491)	promoter-TSS (NM_001290491)	622.0	NM_001283062	14030.0	Mm.142822	NM_007968	ENSMUSG00000009079	Ewsr1	Ews|Ewsh	Ewing sarcoma breakpoint region 1	protein-coding	22.5	27.5	10.5	212.0	58.5	18.5	17.5	18.0
Merged-chr4-33310991-6	chr4	33310951	33311151	+	778.0888669999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305273, intron 1 of 15)	intron (NM_001305273, intron 1 of 15)	740.0	NM_001305273	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	7.5	5.0	19.0	68.0	13.5	5.5	3.0	12.0
Merged-chr5-147899185-3	chr5	147899095	147899295	+	829.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4380.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	3.0	4.0	1.0	40.0	32.5	6.5	10.0	15.5
Merged-chr4-117156072-4	chr4	117155992	117156192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009098)	promoter-TSS (NM_009098)	40.0	NM_009098	20116.0	Mm.260904	NM_009098	ENSMUSG00000047675	Rps8	-	ribosomal protein S8	protein-coding	63.5	68.0	29.0	506.5	147.5	61.0	60.5	68.0
Merged-chr11-66985112-2	chr11	66985012	66985212	+	756.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27218.0	NR_130646	71576.0	Mm.340077	NR_130315	ENSMUSG00000085683	Tmem238l	9130409J20Rik	transmembrane protein 238 like	ncRNA	8.0	9.0	5.0	53.5	3.0	4.0	8.0	4.0
Merged-chr16-57223150-4	chr16	57223054	57223254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 1 of 17)	intron (NM_026254, intron 1 of 17)	8312.0	NM_026254	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	42.5	49.5	33.5	670.0	75.5	31.5	36.5	60.5
Merged-chr10-24641574-4	chr10	24641480	24641680	+	983.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008813, exon 25 of 25)	3' UTR (NM_008813, exon 25 of 25)	46138.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	16.5	18.5	23.5	269.5	44.5	10.5	19.0	16.5
Merged-chr15-81730050-4	chr15	81729965	81730165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146174)	promoter-TSS (NM_001146174)	-146.0	NM_001358622	19387.0	Mm.270975	NM_011241	ENSMUSG00000022391	Rangap1	C79654|Fug1|mKIAA1835	RAN GTPase activating protein 1	protein-coding	244.5	338.5	164.0	3284.5	451.5	173.0	211.5	188.0
Merged-chr2-129592095-4	chr2	129591996	129592196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291020)	promoter-TSS (NM_001291020)	-743.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	110.0	170.5	89.0	1228.0	263.0	93.5	94.0	131.5
Merged-chr13-64161781-4	chr13	64161687	64161887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019986)	promoter-TSS (NM_019986)	-79.0	NM_019986	56541.0	Mm.40989	NM_019986	ENSMUSG00000021476	Habp4	4933413D03Rik|4933428J01Rik	hyaluronic acid binding protein 4	protein-coding	334.5	521.0	409.5	5164.5	797.0	324.5	470.5	363.0
Merged-chr5-135476420-4	chr5	135476339	135476539	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	68683.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	36.0	46.0	18.0	394.5	112.5	43.0	46.5	39.0
Merged-chr10-41963011-4	chr10	41962896	41963096	+	948.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 10 of 17)	intron (NM_001034858, intron 10 of 17)	55386.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	6.5	13.5	13.0	151.5	48.0	5.0	20.0	11.5
Merged-chr3-103801962-4	chr3	103801848	103802048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133865, exon 4 of 4)	3' UTR (NM_133865, exon 4 of 4)	-1181.0	NR_040412	100503157.0	Mm.445554	NR_040412	ENSMUSG00000084997	Gm15471	-	predicted gene 15471	ncRNA	83.0	68.5	91.0	1333.5	106.5	30.5	66.5	86.5
Merged-chr12-87443826-4	chr12	87443712	87443912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026958)	promoter-TSS (NM_026958)	27.0	NM_001102565	211064.0	Mm.486235	NM_001102565	ENSMUSG00000079036	Alkbh1	2700073G19Rik|Abh|Alkbh|alkB|hABH	alkB homolog 1, histone H2A dioxygenase	protein-coding	77.5	85.5	79.5	856.5	189.5	41.0	65.5	72.5
Merged-chr16-27387887-4	chr16	27387775	27387975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1081.0	NM_001025615	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	18.0	33.5	26.0	458.5	67.0	37.5	41.0	28.0
Merged-chr4-128787560-4	chr4	128787455	128787655	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081098, intron 4 of 8)	L1ME4c|LINE|L1	18557.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	4.5	15.0	0.0	77.5	55.0	19.0	30.5	23.5
Merged-chr19-9023366-4	chr19	9023260	9023460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039959, intron 4 of 5)	intron (NM_001039959, intron 4 of 5)	34076.0	NM_001286518	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	48.0	45.5	30.0	610.0	54.5	28.0	39.0	23.5
Merged-chr7-89243907-3	chr7	89243821	89244021	+	941.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360745, exon 4 of 14)	exon (NM_001360745, exon 4 of 14)	94866.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	32.0	14.0	13.0	448.0	41.5	14.0	9.5	12.5
Merged-chr8-22658714-4	chr8	22658612	22658812	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010546)	TTS (NM_010546)	-5275.0	NM_011130	18970.0	Mm.123211	NM_011130	ENSMUSG00000031536	Polb	A430088C08Rik	polymerase (DNA directed), beta	protein-coding	25.5	27.0	27.5	389.5	50.5	13.5	15.0	17.5
Merged-chr18-34380780-4	chr18	34380678	34380878	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7363.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	19.0	31.0	19.0	229.5	40.5	9.5	11.5	12.5
Merged-chr17-42883124-4	chr17	42883020	42883220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6696.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	18.5	46.0	36.0	420.5	65.5	16.5	27.5	34.5
Merged-chr1-31034132-4	chr1	31034027	31034227	+	914.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136907, intron 2 of 3)	intron (NR_136907, intron 2 of 3)	62327.0	NR_136907	102634473.0	Mm.484482	NR_136907	ENSMUSG00000100371	Gm29669	-	predicted gene 29669	ncRNA	10.5	8.0	13.0	218.0	24.5	20.5	32.5	41.5
Merged-chr5-64885233-4	chr5	64885149	64885349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47450.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	35.5	62.0	50.5	683.5	70.5	31.5	38.5	48.0
Merged-chr4-145019447-3	chr4	145019310	145019510	+	980.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 66 of 69)	intron (NM_001276465, intron 66 of 69)	126273.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	28.5	15.5	26.5	688.5	6.5	7.5	4.5	11.0
Merged-chr16-88483561-4	chr16	88483466	88483666	+	785.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3_Mus|LINE|L1	23412.0	NM_181490	239931.0	Mm.126860	NM_181490	ENSMUSG00000055811	Cldn17	-	claudin 17	protein-coding	4.5	19.0	9.5	122.0	24.5	0.5	11.5	8.5
Merged-chr19-17333980-4	chr19	17333870	17334070	+	938.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	5535.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	13.0	14.5	12.5	308.0	69.0	24.0	19.5	15.5
Merged-chr1-131658205-4	chr1	131658112	131658312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007799, intron 1 of 9)	intron (NM_007799, intron 1 of 9)	19898.0	NM_007799	13034.0	Mm.230249	NM_007799	ENSMUSG00000004552	Ctse	A430072O03Rik|C920004C08Rik|CE|CatE	cathepsin E	protein-coding	113.5	166.5	90.0	1706.0	168.0	67.5	75.5	74.0
Merged-chr7-74976894-4	chr7	74976799	74976999	+	839.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53312.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	6.0	10.0	4.0	175.0	35.5	8.5	11.5	16.5
Merged-chr4-46356937-4	chr4	46356828	46357028	+	726.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12734.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	14.0	17.0	11.0	88.0	29.0	16.0	25.5	12.5
Merged-chr8-22476583-3	chr8	22476483	22476683	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011394)	promoter-TSS (NM_011394)	-117.0	NM_011394	20516.0	Mm.323901	NM_011394	ENSMUSG00000037656	Slc20a2	MolPit2|Pit-2|Pit2|Ram-1|Ram1	solute carrier family 20, member 2	protein-coding	32.0	30.0	49.5	400.0	58.0	24.5	34.0	24.0
Merged-chr10-28540790-1	chr10	28540690	28540890	+	980.0	f0_balb.idr	intron (NM_001359356, intron 13 of 30)	intron (NM_001359356, intron 13 of 30)	-127570.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	18.0	6.5	4.5	163.0	1.0	0.0	1.0	3.5
Merged-chr11-61728244-4	chr11	61728125	61728325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7426.0	NM_001033227	109342.0	Mm.441070	NM_001033227	ENSMUSG00000042371	Slc5a10	C330021F16Rik|SGLT5	solute carrier family 5 (sodium/glucose cotransporter), member 10	protein-coding	56.5	47.5	51.0	912.0	129.5	51.0	68.5	59.0
Merged-chr11-94133547-4	chr11	94133520	94133720	+	959.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-77834.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	17.5	20.0	10.5	188.0	15.5	12.0	7.0	16.0
Merged-chr11-77411488-4	chr11	77411412	77411612	+	915.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 4 of 13)	intron (NM_001291190, intron 4 of 13)	-52401.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	23.0	18.0	3.5	286.5	43.5	8.5	12.5	18.5
Merged-chr7-98584746-4	chr7	98584658	98584858	+	822.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71811.0	NM_172280	233545.0	Mm.387819	NM_172280	ENSMUSG00000035401	Emsy	2210018M11Rik|2310016L09Rik|AU019521|AU019557	EMSY, BRCA2-interacting transcriptional repressor	protein-coding	9.0	14.0	7.5	105.0	24.5	11.0	8.0	13.5
Merged-chr3-31390153-4	chr3	31390065	31390265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-79846.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	53.5	58.5	52.0	1272.5	121.0	44.5	51.0	80.5
Merged-chr2-160019125-4	chr2	160019004	160019204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040499, intron 1 of 3)	intron (NR_040499, intron 1 of 3)	2451.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	59.0	107.5	88.0	1041.0	177.0	64.5	62.5	62.0
Merged-chr10-81401891-4	chr10	81401795	81401995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 8 of 8)	intron (NM_026756, intron 8 of 8)	-7680.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	86.5	119.0	75.5	1112.5	188.5	67.5	110.5	96.0
Merged-chr12-110813270-4	chr12	110813163	110813363	+	864.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011973, intron 7 of 11)	intron (NM_011973, intron 7 of 11)	27676.0	NM_011973	26448.0	Mm.140948	NM_011973	ENSMUSG00000056458	Mok	RAGE1|Rage|Stk30	MOK protein kinase	protein-coding	12.0	13.0	18.0	250.5	32.5	1.0	10.5	6.0
Merged-chr19-5924885-4	chr19	5924763	5924963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026772)	promoter-TSS (NM_026772)	-47.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	80.5	151.0	60.5	805.5	173.5	51.0	102.5	55.5
Merged-chr18-67369809-4	chr18	67369707	67369907	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20924.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	19.5	31.0	13.5	324.0	56.0	33.0	41.5	23.0
Merged-chr1-7088911-4	chr1	7088828	7089028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183028)	promoter-TSS (NM_183028)	8.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	627.0	812.0	650.5	8507.5	1799.5	698.0	797.0	631.5
Merged-chr3-135825608-4	chr3	135825513	135825713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135150)	promoter-TSS (NM_001135150)	-44.0	NM_001135149	67547.0	Mm.30239	NM_026228	ENSMUSG00000053897	Slc39a8	4933419D20Rik|AA986696|BIGM103|ZIP-8|Zip8	solute carrier family 39 (metal ion transporter), member 8	protein-coding	32.5	37.5	34.0	429.0	42.0	17.0	31.5	24.5
Merged-chr16-91456781-4	chr16	91456640	91456840	+	786.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-8364.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	8.0	14.0	7.0	100.5	26.0	12.5	10.5	10.5
Merged-chr10-49074947-3	chr10	49074823	49075023	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	713014.0	NM_001358866	14806.0	Mm.185993	NM_010349	ENSMUSG00000056073	Grik2	AW124492|C130030K03Rik|GluK2|Glur-6|Glur6|Glurbeta2	glutamate receptor, ionotropic, kainate 2 (beta 2)	protein-coding	23.5	26.5	26.5	343.5	10.0	9.5	12.0	5.5
Merged-chr2-33435955-4	chr2	33435857	33436057	+	796.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4633.0	NM_001276332	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	5.0	17.0	9.5	123.0	18.0	5.0	3.5	14.0
Merged-chr17-84790824-4	chr17	84790684	84790884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028233)	promoter-TSS (NM_028233)	2.0	NM_028233	72416.0	Mm.217027	NM_028233	ENSMUSG00000024120	Lrpprc	3110001K13Rik|C76645|Gp130|Lrp130|Lsfc	leucine-rich PPR-motif containing	protein-coding	106.0	201.0	139.0	1581.0	319.0	139.0	123.0	123.5
Merged-chr11-98796562-4	chr11	98796491	98796691	+	740.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361932, exon 1 of 3)	exon (NM_001361932, exon 1 of 3)	1075.0	NM_028722	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	6.0	7.0	5.0	41.5	19.5	4.5	8.5	12.5
Merged-chr12-110978672-1	chr12	110978572	110978772	+	1000.0	f0_c57.idr	promoter-TSS (NM_001361917)	promoter-TSS (NM_001361917)	-54.0	NM_001361917	74251.0	Mm.250989	NM_175207	ENSMUSG00000037904	Ankrd9	2500003O20Rik	ankyrin repeat domain 9	protein-coding	26.5	29.5	17.0	154.0	45.0	16.0	21.0	22.0
Merged-chr15-40060442-3	chr15	40060332	40060532	+	986.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155348, intron 2 of 2)	intron (NR_155348, intron 2 of 2)	15244.0	NR_155348	102636079.0	Mm.421381	NR_155348	ENSMUSG00000115142	Gm33251	-	predicted gene, 33251	ncRNA	5.0	5.0	11.0	228.0	7.5	4.5	11.5	7.5
Merged-chr5-148542399-4	chr5	148542309	148542509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	9264.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	50.5	67.0	68.5	881.5	102.5	46.5	87.0	58.0
Merged-chr11-111065273-2	chr11	111065173	111065373	+	727.583313	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008425)	promoter-TSS (NM_008425)	-891.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	5.0	5.5	7.0	13.5	13.0	5.5	4.5	2.0
Merged-chr5-102033477-4	chr5	102033393	102033593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	36428.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	61.0	78.5	81.5	1130.0	118.0	47.5	70.0	53.0
Merged-chr3-108204156-4	chr3	108204035	108204235	+	731.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175183, intron 10 of 11)	intron (NM_175183, intron 10 of 11)	-3301.0	NM_001081320	72023.0	Mm.246391	NM_028061	ENSMUSG00000048796	Cyb561d1	1600010M23Rik|AI605489|AW457162	cytochrome b-561 domain containing 1	protein-coding	3.5	10.5	5.0	68.0	17.5	11.5	8.0	11.0
Merged-chr13-58487427-4	chr13	58487341	58487541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84098.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	38.5	33.0	35.0	715.5	41.5	29.0	34.5	30.0
Merged-chr13-96388252-4	chr13	96388180	96388380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026173)	promoter-TSS (NM_026173)	-14.0	NM_026173	67463.0	Mm.86472	NM_026173	ENSMUSG00000021671	Poc5	1200014M14Rik|AV144706	POC5 centriolar protein	protein-coding	215.5	359.0	233.0	3186.0	427.0	200.5	195.5	231.5
Merged-chr16-44123529-4	chr16	44123430	44123630	+	819.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	15729.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	9.5	15.5	11.5	138.0	43.0	12.5	12.0	4.5
Merged-chr11-54028207-4	chr11	54028084	54028284	+	990.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330304)	promoter-TSS (NM_001330304)	-80.0	NM_001330304	30805.0	Mm.274590	NM_019687	ENSMUSG00000020334	Slc22a4	Octn1	solute carrier family 22 (organic cation transporter), member 4	protein-coding	30.5	61.5	29.5	465.0	42.5	34.5	31.5	14.0
Merged-chr2-155135301-4	chr2	155135226	155135426	+	891.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243712, intron 1 of 25)	RSINE1|SINE|B4	1845.0	NM_008395	16396.0	Mm.208286	NM_008395	ENSMUSG00000027598	Itch	6720481N21Rik|8030492O04Rik|A130065M08|AIP4|C230047C07Rik	itchy, E3 ubiquitin protein ligase	protein-coding	16.0	21.0	21.5	272.0	22.0	5.0	12.5	25.0
Merged-chr4-131838298-4	chr4	131838180	131838380	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011214)	promoter-TSS (NM_011214)	-2.0	NM_001083119	19273.0	Mm.4860	NM_011214	ENSMUSG00000028909	Ptpru	Ftp-1|PCP-2|PTP|PTP-lambda|PTPlambda|Pcp2|Ptpf|Ptprl|R-PTP-U|R-PTP-psi|RPTPlambda	protein tyrosine phosphatase, receptor type, U	protein-coding	50.0	63.0	15.5	543.0	96.0	33.5	44.0	47.5
Merged-chr1-177483769-4	chr1	177483663	177483863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	37942.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	35.0	53.5	31.5	630.0	91.5	32.0	26.5	31.5
Merged-chr10-99461795-4	chr10	99461704	99461904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147367.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	58.5	52.5	68.5	983.5	105.5	35.5	54.0	49.5
Merged-chr3-105841747-4	chr3	105841654	105841854	+	875.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	26187.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	9.0	5.0	6.5	201.0	39.0	8.5	19.0	10.5
Merged-chr13-12256028-4	chr13	12255929	12256129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081128, intron 1 of 32)	intron (NM_001081128, intron 1 of 32)	2084.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	78.0	111.5	128.5	1863.5	219.0	67.5	132.0	103.5
Merged-chr17-46111031-4	chr17	46110921	46111121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026768)	promoter-TSS (NM_026768)	17.0	NM_026768	68565.0	Mm.287443	NM_026768	ENSMUSG00000023967	Mrps18a	1110004O20Rik|C79712	mitochondrial ribosomal protein S18A	protein-coding	32.0	54.0	26.0	399.0	119.5	46.0	39.5	29.0
Merged-chr12-79841531-4	chr12	79841433	79841633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83200.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	81.5	99.0	58.5	1178.5	130.0	71.5	75.5	93.0
Merged-chr15-78935076-4	chr15	78934937	78935137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133800, exon 1 of 6)	exon (NM_133800, exon 1 of 6)	104.0	NM_133800	97961.0	Mm.157216	NM_133800	ENSMUSG00000033099	Nol12	C78541|Nop25	nucleolar protein 12	protein-coding	42.5	68.5	40.5	370.5	40.0	25.5	16.5	31.5
Merged-chr5-122550639-4	chr5	122550549	122550749	+	842.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001358917, exon 19 of 19)	3' UTR (NM_001358917, exon 19 of 19)	-48424.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	21.0	16.0	21.0	378.5	34.0	14.5	8.5	12.5
Merged-chr10-69309297-4	chr10	69309183	69309383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43629.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	39.5	29.5	45.5	863.5	80.0	24.0	44.5	53.5
Merged-chr9-120935242-4	chr9	120935142	120935342	+	948.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007614, intron 1 of 14)	intron (NM_007614, intron 1 of 14)	1664.0	NM_001165902	12387.0	Mm.291928	NM_007614	ENSMUSG00000006932	Ctnnb1	Bfc|Catnb|Mesc	catenin (cadherin associated protein), beta 1	protein-coding	14.0	26.0	21.5	387.0	35.0	7.5	16.5	16.0
Merged-chr12-81788872-4	chr12	81788775	81788975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7705.0	NM_001174107	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	46.0	68.5	37.0	960.0	129.5	50.0	53.5	62.0
Merged-chr8-35679217-4	chr8	35679106	35679306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081279, exon 3 of 3)	3' UTR (NM_001081279, exon 3 of 3)	-90186.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	47.5	51.5	71.5	789.0	136.5	32.5	65.0	29.5
Merged-chr19-37174247-3	chr19	37174139	37174339	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290828, exon 2 of 11)	exon (NM_001290828, exon 2 of 11)	396.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	7.0	5.5	12.0	162.0	13.0	7.5	9.5	5.0
Merged-chr13-22028875-4	chr13	22028774	22028974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6769.0	NM_175659	319168.0	Mm.250564	NM_175659	ENSMUSG00000069302	Hist1h2ah	-	histone cluster 1, H2ah	protein-coding	35.0	86.0	52.5	982.0	153.5	62.5	61.5	72.0
Merged-chr6-86526228-4	chr6	86526134	86526334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011865)	promoter-TSS (NM_011865)	-45.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	32.5	59.0	42.5	428.0	110.5	49.5	52.5	40.0
Merged-chr10-6712474-4	chr10	6712373	6712573	+	950.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46120.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	12.5	26.0	10.0	419.5	62.5	27.5	38.5	25.0
Merged-chr8-40890417-3	chr8	40890303	40890503	+	840.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007514, intron 1 of 11)	MLT1B|LTR|ERVL-MaLR	28036.0	NM_001044740	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	0.0	1.0	0.0	15.5	29.0	13.5	15.0	20.0
Merged-chr7-44496463-4	chr7	44496316	44496516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028169)	promoter-TSS (NM_028169)	97.0	NM_197991	69683.0	Mm.294759	NM_197991	ENSMUSG00000008140	Emc10	2310044H10Rik|5430410O10Rik|Inm02|Mirta22	ER membrane protein complex subunit 10	protein-coding	105.0	127.5	86.5	1074.0	238.5	110.5	103.0	103.5
Merged-chr2-131160146-4	chr2	131160064	131160264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026091)	promoter-TSS (NM_026091)	-83.0	NM_026091	67326.0	Mm.27711	NM_026091	ENSMUSG00000027327	1700037H04Rik	-	RIKEN cDNA 1700037H04 gene	protein-coding	136.0	263.0	117.0	2077.0	368.5	135.5	158.0	132.5
Merged-chr2-165922557-4	chr2	165922420	165922620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37682.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	36.0	30.0	22.0	260.0	80.0	27.0	35.5	27.0
Merged-chr6-124863724-3	chr6	124863630	124863830	+	882.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013488)	TTS (NM_013488)	253.0	NM_013533	14788.0	Mm.2514	NM_013533	ENSMUSG00000038390	Gpr162	A-2|BC031437|Grca	G protein-coupled receptor 162	protein-coding	15.5	12.5	7.0	56.0	13.5	6.0	6.5	8.5
Merged-chr17-42457684-4	chr17	42457588	42457788	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355270, intron 2 of 2)	MTC|LTR|ERVL-MaLR	141088.0	NM_001355270	627626.0	Mm.390999	NM_028474	ENSMUSG00000042256	Ptchd4	3110082D06Rik|Gm321	patched domain containing 4	protein-coding	5.0	6.5	13.0	183.0	54.0	17.5	40.0	34.5
Merged-chr17-48557996-4	chr17	48557896	48558096	+	790.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103095.0	NM_152823	76589.0	Mm.311629	NM_152823	ENSMUSG00000043592	Unc5cl	2510009H09Rik|BB155270|Zud	unc-5 family C-terminal like	protein-coding	15.5	41.5	9.5	186.0	42.0	14.0	10.0	12.0
Merged-chr10-88372673-4	chr10	88372580	88372780	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6732.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	21.5	80.5	31.5	148.5	74.0	35.0	23.5	28.0
Merged-chr12-79642917-4	chr12	79642810	79643010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	281823.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	72.0	84.5	72.0	832.5	112.5	42.5	65.0	47.5
Merged-chr5-124498413-4	chr5	124498333	124498533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021430, intron 6 of 6)	intron (NM_021430, intron 6 of 6)	15278.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	49.5	70.5	72.0	915.0	82.0	37.5	42.0	49.5
Merged-chr8-8690563-4	chr8	8690475	8690675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176849)	promoter-TSS (NM_176849)	-38.0	NM_176849	234023.0	Mm.251655	NM_176849	ENSMUSG00000040459	Arglu1	9430010O03Rik|C130008N12	arginine and glutamate rich 1	protein-coding	124.0	187.5	114.5	1687.0	370.0	153.5	170.5	100.0
Merged-chr3-19630269-4	chr3	19630165	19630365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14195.0	NM_001081281	381485.0	Mm.35419	NM_001081281	ENSMUSG00000060913	Trim55	D830041C10Rik|Murf2|Rnf29	tripartite motif-containing 55	protein-coding	118.0	132.0	157.0	2181.0	306.0	87.0	130.5	130.5
Merged-chr19-17264890-4	chr19	17264677	17264877	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74728.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	12.5	10.5	17.0	37.0	27.0	12.5	10.5	13.0
Merged-chr5-105056272-4	chr5	105056158	105056358	+	923.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-2697.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	16.5	11.0	20.5	148.0	47.5	10.5	6.0	21.0
Merged-chr1-172619425-4	chr1	172619334	172619534	+	773.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13540.0	NM_026725	68440.0	Mm.33024	NM_026725	ENSMUSG00000026544	Dusp23	1300005N15Rik|LDP-3	dual specificity phosphatase 23	protein-coding	13.5	17.5	6.0	88.0	57.0	8.5	13.0	12.0
Merged-chr4-155708742-4	chr4	155708634	155708834	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026899, intron 1 of 4)	B2_Mm2|SINE|B2	3919.0	NM_026899	68991.0	Mm.294770	NM_026899	ENSMUSG00000029038	Ssu72	1190002E22Rik|1500011L16Rik|2610101M12Rik	Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)	protein-coding	24.5	17.5	11.5	286.0	36.0	5.5	18.5	20.0
Merged-chr3-108890938-4	chr3	108890847	108891047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177091)	promoter-TSS (NM_177091)	-939.0	NM_001165965	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	39.0	38.0	26.5	460.0	77.5	44.0	49.0	59.0
Merged-chr4-48322329-3	chr4	48322219	48322419	+	761.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010569, intron 3 of 16)	L2c|LINE|L2	42559.0	NM_001281977	16348.0	Mm.317706	NM_010569	ENSMUSG00000028344	Invs	Nphp2|inv	inversin	protein-coding	6.0	5.5	12.0	138.0	19.0	5.5	14.5	9.0
Merged-chr11-44439344-2	chr11	44439252	44439452	+	774.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	31196.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	1.5	0.0	0.0	0.5	21.5	9.5	13.5	14.0
Merged-chr2-148393326-4	chr2	148393246	148393446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2031.0	NM_009219	20608.0	Mm.35324	NM_009219	ENSMUSG00000037014	Sstr4	Smstr4|sst4	somatostatin receptor 4	protein-coding	42.0	56.0	47.0	1117.0	94.5	41.0	51.0	58.5
Merged-chr7-101617081-2	chr7	101617038	101617238	+	747.0	f0_balb.idr|f0_c57.idr	Intergenic	MLTR11B|LTR|ERVK	-35977.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	9.0	16.5	7.0	56.5	24.5	6.5	8.5	11.5
Merged-chr6-122935047-4	chr6	122934956	122935156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_199311)	TTS (NM_199311)	13208.0	NM_199311	269799.0	Mm.297275	NM_199311	ENSMUSG00000049037	Clec4a1	BC049354|Dcir4	C-type lectin domain family 4, member a1	protein-coding	50.5	77.5	61.0	684.0	92.0	32.5	40.0	29.5
Merged-chr3-79664951-3	chr3	79664849	79665049	+	641.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212452, intron 9 of 17)	intron (NM_212452, intron 9 of 17)	35870.0	NM_029482	75939.0	Mm.221520	NM_029482	ENSMUSG00000027811	4930579G24Rik	-	RIKEN cDNA 4930579G24 gene	protein-coding	8.0	2.5	4.0	123.5	16.5	6.0	6.5	5.5
Merged-chr8-47693344-3	chr8	47693244	47693444	+	771.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18185.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	3.5	10.0	1.0	70.5	10.5	4.5	5.0	9.0
Merged-chr10-53925611-4	chr10	53925513	53925713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 8 of 12)	intron (NM_008548, intron 8 of 12)	150183.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	92.5	115.5	104.0	1481.0	160.5	47.0	66.5	64.5
Merged-chr5-108434428-4	chr5	108434265	108434465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007507)	promoter-TSS (NM_007507)	34.0	NR_154996	11958.0	Mm.136093	NM_007507	ENSMUSG00000050856	Atp5k	2610008D24Rik|Atp5i|Lfm1	ATP synthase, H+ transporting, mitochondrial F1F0 complex, subunit E	protein-coding	66.0	94.5	61.0	1098.5	108.5	43.0	50.5	50.0
Merged-chr3-108086744-4	chr3	108086592	108086792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028779)	promoter-TSS (NM_028779)	-26.0	NM_001289719	109674.0	Mm.274335	NM_028779	ENSMUSG00000027889	Ampd2	1200014F01Rik|AI552571|Ampd-2|m4521Dajl	adenosine monophosphate deaminase 2	protein-coding	30.5	56.0	36.5	476.5	108.0	44.0	42.5	24.5
Merged-chr3-98031386-4	chr3	98031329	98031529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	17891.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	51.5	43.5	56.0	607.5	54.5	22.0	21.5	27.0
Merged-chr8-71476665-5	chr8	71476572	71476772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001294259)	TTS (NM_001294259)	7478.0	NR_122114	66498.0	Mm.260360	NM_025600	ENSMUSG00000074247	Dda1	1500034J01Rik|1700095J19Rik|R74921	DET1 and DDB1 associated 1	protein-coding	41.5	58.0	57.5	483.0	45.5	19.0	28.0	23.0
Merged-chr14-57826206-4	chr14	57826073	57826273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198605)	promoter-TSS (NM_198605)	-10.0	NM_198605	219114.0	Mm.30173	NM_198605	ENSMUSG00000021965	Ska3	F630043A04Rik	spindle and kinetochore associated complex subunit 3	protein-coding	68.0	91.0	57.0	1258.5	210.5	66.5	101.5	94.0
Merged-chr1-152430041-4	chr1	152429933	152430133	+	936.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177756, intron 1 of 11)	L1M3|LINE|L1	30166.0	NM_177756	269132.0	Mm.23782	NM_177756	ENSMUSG00000032649	Colgalt2	AI427652|D730024P12|Glt25d2	collagen beta(1-O)galactosyltransferase 2	protein-coding	8.5	23.5	7.5	171.5	40.0	17.0	2.5	21.5
Merged-chr1-93478419-4	chr1	93478322	93478522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159718)	promoter-TSS (NM_001159718)	-45.0	NM_001357556	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	232.0	327.5	252.0	3622.5	686.0	263.5	294.0	290.5
Merged-chr8-64946626-4	chr8	64946513	64946713	+	957.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028427)	promoter-TSS (NM_028427)	-572.0	NM_001163747	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	11.5	17.5	17.0	254.0	24.5	13.5	18.5	17.0
Merged-chr4-54481889-3	chr4	54481790	54481990	+	712.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-466055.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	21.5	13.5	30.0	408.0	0.0	0.0	0.0	1.5
Merged-chr15-79804561-4	chr15	79804431	79804631	+	841.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030689, exon 1 of 5)	exon (NM_030689, exon 1 of 5)	178.0	NM_030689	73340.0	Mm.38438	NM_030689	ENSMUSG00000022421	Nptxr	1200009K17Rik|1700036C17Rik|5730406O18Rik|AI452369|AI785356|D15Bwg0580e|NPR|Npcd	neuronal pentraxin receptor	protein-coding	12.5	13.0	6.0	64.5	35.5	4.5	4.5	6.5
Merged-chr1-171871909-1	chr1	171871809	171872009	+	542.0	f0_balb.idr	intron (NM_001289470, intron 3 of 8)	MER63C|DNA|hAT-Blackjack	32212.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	5.0	12.5	3.0	67.5	15.0	5.5	9.0	7.5
Merged-chr11-95416173-4	chr11	95416077	95416277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359107, intron 1 of 9)	intron (NM_001359107, intron 1 of 9)	2094.0	NM_001359107	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	53.0	37.5	32.0	363.0	84.0	33.0	36.0	32.0
Merged-chr10-14117181-4	chr10	14117085	14117285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 4 of 12)	intron (NM_001358783, intron 4 of 12)	150806.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	39.5	76.5	65.5	757.5	102.0	30.5	45.5	59.0
Merged-chr6-134947604-4	chr6	134947519	134947719	+	896.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037956, intron 1 of 1)	intron (NR_037956, intron 1 of 1)	18527.0	NR_037955	381822.0	Mm.5935	NR_037955	ENSMUSG00000098318	Lockd	1190002F15Rik|AI120476|Droc	lncRNA downstream of Cdkn1b	ncRNA	8.5	9.5	6.0	126.5	46.5	12.0	6.0	16.5
Merged-chr2-31256788-4	chr2	31256682	31256882	+	848.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019681, intron 1 of 7)	intron (NM_019681, intron 1 of 7)	10859.0	NM_019681	14299.0	Mm.249318	NM_019681	ENSMUSG00000062661	Ncs1	9430075O15Rik|A730032G13Rik|AI836659|Freq|Mfreq|NCS-1	neuronal calcium sensor 1	protein-coding	8.0	27.5	6.0	142.5	16.0	4.0	11.0	20.0
Merged-chr1-58423098-4	chr1	58422986	58423186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042634, intron 1 of 12)	intron (NM_001042634, intron 1 of 12)	1002.0	NR_027854	12747.0	Mm.1761	NM_009905	ENSMUSG00000026034	Clk1	STY	CDC-like kinase 1	protein-coding	54.0	93.0	39.0	863.0	173.5	61.0	50.5	62.5
Merged-chr6-71930254-4	chr6	71930158	71930358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009088, intron 11 of 33)	intron (NM_009088, intron 11 of 33)	21205.0	NM_009088	20019.0	Mm.135581	NM_009088	ENSMUSG00000049553	Polr1a	194kDa|2900087K15Rik|3010014K16Rik|RPA194|Rpo1-4|mRPA1	polymerase (RNA) I polypeptide A	protein-coding	85.5	98.5	77.5	1375.0	157.5	43.5	66.5	58.5
Merged-chr9-13701949-4	chr9	13701845	13702045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173776, intron 2 of 3)	intron (NM_173776, intron 2 of 3)	39485.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	41.5	67.5	49.5	973.0	122.0	23.0	74.5	34.5
Merged-chr17-34604007-7	chr17	34603894	34604094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019403)	promoter-TSS (NM_019403)	-433.0	NM_019403	54197.0	Mm.274542	NM_019403	ENSMUSG00000015478	Rnf5	2410131O05Rik|AA407576|NG2	ring finger protein 5	protein-coding	248.0	395.0	231.5	2701.5	614.5	310.5	242.5	248.0
Merged-chr2-46371208-4	chr2	46371111	46371311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	674606.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	89.0	179.0	148.5	1303.0	249.5	119.0	103.0	72.5
Merged-chr18-73762531-4	chr18	73762429	73762629	+	709.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8050.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	13.5	12.0	7.0	166.5	19.0	11.0	15.5	17.5
Merged-chr2-124753844-4	chr2	124753735	124753935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	100254.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	58.5	65.5	87.0	999.5	59.5	32.5	43.0	57.5
Merged-chr6-136736008-3	chr6	136735904	136736104	+	861.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 12 of 25)	ORR1E|LTR|ERVL-MaLR	45738.0	NM_145067	14917.0	Mm.222729	NM_145067	ENSMUSG00000042638	Gucy2c	AI893437|GC-C|Gcc	guanylate cyclase 2c	protein-coding	8.5	16.5	9.0	169.5	16.0	4.0	5.0	6.0
Merged-chr2-25196825-4	chr2	25196746	25196946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146115)	promoter-TSS (NM_146115)	-33.0	NM_146115	227612.0	Mm.119747	NM_146115	ENSMUSG00000059555	Tor4a	A830007P12Rik	torsin family 4, member A	protein-coding	95.0	160.0	112.5	1612.0	239.0	80.5	143.5	94.0
Merged-chr11-6522961-4	chr11	6522894	6523094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2036.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	27.5	89.5	16.0	206.0	82.5	26.0	20.5	6.5
Merged-chr7-127713258-4	chr7	127713164	127713364	+	975.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301283, intron 1 of 2)	intron (NM_001301283, intron 1 of 2)	327.0	NM_001301283	13019.0	Mm.389954	NM_007795	ENSMUSG00000042340	Ctf1	CT-1	cardiotrophin 1	protein-coding	33.5	100.5	33.0	313.0	122.5	45.0	35.5	20.0
Merged-chr12-32200812-5	chr12	32200678	32200878	+	968.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020272, intron 3 of 10)	intron (NM_020272, intron 3 of 10)	7560.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	9.0	22.0	8.0	114.5	19.5	13.0	2.5	9.5
Merged-chr2-104493608-4	chr2	104493506	104493706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010434, intron 1 of 15)	CpG	883.0	NM_010434	15259.0	Mm.257925	NM_010434	ENSMUSG00000027177	Hipk3	DYRK6|FIST3|PKY|mir-1902	homeodomain interacting protein kinase 3	protein-coding	86.0	97.5	117.0	1311.0	201.5	63.5	83.5	96.5
Merged-chr4-10920600-6	chr4	10920581	10920781	+	931.263916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	46183.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	9.5	8.5	9.0	124.0	26.5	14.0	10.5	16.5
Merged-chr10-116893982-3	chr10	116893882	116894082	+	911.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033333, intron 1 of 24)	intron (NM_001033333, intron 1 of 24)	2897.0	NM_001033333	237558.0	Mm.336386	NM_001033333	ENSMUSG00000034057	Myrfl	Gm239	myelin regulatory factor-like	protein-coding	20.5	8.0	7.0	146.5	43.0	2.5	9.5	8.0
Merged-chr2-31130935-3	chr2	31130858	31131058	+	845.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	intron (NM_001355105, intron 1 of 15)	11050.0	NM_001355106	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	13.5	12.0	10.0	136.0	28.0	7.0	6.5	6.0
Merged-chr15-36173517-2	chr15	36173417	36173617	+	921.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023127)	promoter-TSS (NM_023127)	-493.0	NM_023127	17749.0	Mm.27375	NM_023127	ENSMUSG00000045996	Polr2k	ABC10-alpha|MafY|Mt1a|RPABC4|RPB10alpha|RPB12|RPB7.0	polymerase (RNA) II (DNA directed) polypeptide K	protein-coding	9.0	15.5	14.0	145.5	24.5	12.5	6.5	9.5
Merged-chr14-101658354-3	chr14	101658275	101658475	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016723, intron 2 of 8)	intron (NM_016723, intron 2 of 8)	4408.0	NM_016723	50933.0	Mm.275970	NM_016723	ENSMUSG00000022111	Uchl3	-	ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase)	protein-coding	9.5	3.0	9.0	153.5	21.0	7.5	6.0	7.0
Merged-chr9-31050433-4	chr9	31050335	31050535	+	918.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001115130, intron 1 of 5)	B4A|SINE|B4	19791.0	NM_172765	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	9.5	26.0	5.0	298.5	31.0	17.0	9.0	19.5
Merged-chr14-26534979-4	chr14	26534870	26535070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347494)	promoter-TSS (NM_001347494)	-346.0	NM_001310445	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	68.5	119.5	43.0	1018.0	198.5	60.0	74.5	64.0
Merged-chr9-64771389-4	chr9	64771263	64771463	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33607.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	53.0	39.5	83.5	1150.0	61.5	16.0	24.5	33.0
Merged-chr12-112808879-4	chr12	112808749	112808949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145450)	promoter-TSS (NM_145450)	-126.0	NM_145450	217887.0	Mm.186678	NM_145450	ENSMUSG00000037594	BC022687	AW050009|C130001I08Rik|Clba1|Flj20080	cDNA sequence BC022687	protein-coding	47.5	79.0	36.0	1097.5	151.5	48.0	59.0	60.0
Merged-chr13-23534293-3	chr13	23534205	23534405	+	715.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175661)	TTS (NM_175661)	394.0	NM_175661	319173.0	Mm.377878	NM_175661	ENSMUSG00000061991	Hist1h2af	H2a-221	histone cluster 1, H2af	protein-coding	6.0	5.5	5.0	83.5	21.5	4.0	10.0	3.5
Merged-chr1-88214772-2	chr1	88214672	88214872	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_201645, intron 1 of 4)	intron (NM_201645, intron 1 of 4)	2813.0	NM_201645	394436.0	Mm.300095	NM_201645	ENSMUSG00000089960	Ugt1a1	Gnt1|UDPGT 1-1|UGT1A01|Udpgt-1a|UgtBr1	UDP glucuronosyltransferase 1 family, polypeptide A1	protein-coding	1.0	6.0	2.5	69.5	9.0	4.5	6.5	5.5
Merged-chr1-72717179-2	chr1	72717079	72717279	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5919.0	NM_009084	19981.0	Mm.21529	NM_009084	ENSMUSG00000046330	Rpl37a	-	ribosomal protein L37a	protein-coding	3.0	9.5	7.5	68.5	7.5	14.5	6.5	11.5
Merged-chr5-21187009-4	chr5	21186904	21187104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 1 of 26)	intron (NR_153365, intron 1 of 26)	737.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	33.0	52.0	40.0	301.0	82.5	28.0	23.5	11.0
Merged-chr8-83662522-4	chr8	83662433	83662633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018771, intron 4 of 6)	intron (NM_018771, intron 4 of 6)	-4111.0	NM_013641	19216.0	Mm.213000	NM_013641	ENSMUSG00000019464	Ptger1	EP1|Ptgerep1	prostaglandin E receptor 1 (subtype EP1)	protein-coding	21.0	57.5	18.0	258.5	110.0	42.5	42.5	25.0
Merged-chr13-23701376-4	chr13	23701280	23701480	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010424)	TTS (NM_010424)	-2922.0	NM_178208	319155.0	Mm.261662	NM_178208	ENSMUSG00000060678	Hist1h4c	-	histone cluster 1, H4c	protein-coding	29.0	53.5	30.5	381.5	55.5	17.0	29.5	20.5
Merged-chr10-20666757-4	chr10	20666653	20666853	+	972.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	intron (NM_013875, intron 1 of 12)	58325.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	25.5	30.0	23.0	453.5	67.5	10.5	22.0	26.0
Merged-chr2-4492718-4	chr2	4492630	4492830	+	969.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 4 of 23)	intron (NM_001177843, intron 4 of 23)	-67024.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	17.0	15.0	14.5	171.5	36.5	10.0	21.0	21.5
Merged-chr16-57455798-4	chr16	57455713	57455913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-93429.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	46.0	76.0	55.0	397.0	129.5	49.0	51.0	42.0
Merged-chr1-156989729-1	chr1	156989629	156989829	+	934.0	f0_balb.idr	Intergenic	Lx10|LINE|L1	-50103.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	5.0	5.5	9.5	127.0	3.5	0.0	0.0	3.5
Merged-chr13-58214872-4	chr13	58214786	58214986	+	912.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026842, intron 1 of 10)	intron (NM_026842, intron 1 of 10)	767.0	NM_152234	56085.0	Mm.182053	NM_026842	ENSMUSG00000005312	Ubqln1	1110046H03Rik|1810030E05Rik|AU019746|C77538|D13Ertd372e|Da41|Dsk2|Plic-1|Plic1|Xdrp1	ubiquilin 1	protein-coding	11.0	12.5	4.5	167.5	62.0	10.5	9.0	15.0
Merged-chr7-80775450-4	chr7	80775388	80775588	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	B3|SINE|B2	27843.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	12.5	30.0	15.0	355.0	65.5	15.5	20.5	36.5
Merged-chr10-87830868-4	chr10	87830753	87830953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-27412.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	78.5	138.5	138.5	1604.5	192.5	76.0	86.5	71.0
Merged-chr18-34857828-3	chr18	34857739	34857939	+	850.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3368.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	3.5	10.0	5.0	34.0	40.0	4.5	12.0	15.0
Merged-chr3-27461269-4	chr3	27461167	27461367	+	990.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 18 of 26)	intron (NM_001356953, intron 18 of 26)	89916.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	14.5	29.0	6.0	347.0	36.0	24.5	19.5	25.0
Merged-chr3-108900351-4	chr3	108900248	108900448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10340.0	NM_001165965	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	52.5	90.0	60.5	915.0	141.0	37.0	66.0	48.5
Merged-chr1-144308474-4	chr1	144308393	144308593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59389.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	30.0	57.5	48.0	920.0	56.0	47.0	38.5	30.0
Merged-chr13-35941125-4	chr13	35941035	35941235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26771.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	30.0	41.0	26.0	516.0	47.5	20.0	38.5	27.5
Merged-chr1-23382199-3	chr1	23382078	23382278	+	854.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081079, intron 1 of 6)	intron (NM_001081079, intron 1 of 6)	997.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	7.5	4.0	9.0	141.0	18.5	8.5	10.0	9.5
Merged-chr13-81137600-4	chr13	81137511	81137711	+	883.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	173537.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	4.5	8.5	7.5	152.5	20.0	7.5	12.5	11.5
Merged-chr14-26579520-4	chr14	26579435	26579635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134465)	promoter-TSS (NM_001134465)	-15.0	NM_001134465	211922.0	Mm.260512	NM_145969	ENSMUSG00000040818	Dennd6a	Fam116a	DENN/MADD domain containing 6A	protein-coding	65.0	104.5	59.5	903.5	233.5	71.0	78.5	68.5
Merged-chr6-72599343-4	chr6	72599242	72599442	+	863.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144917)	promoter-TSS (NM_144917)	714.0	NM_026159	67442.0	Mm.305108	NM_026159	ENSMUSG00000056666	Retsat	0610039N19Rik|C80029|MMT-7|Ppsig	retinol saturase (all trans retinol 13,14 reductase)	protein-coding	10.0	10.5	15.0	171.0	23.0	10.0	15.5	9.5
Merged-chr10-9902125-4	chr10	9902023	9902223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1083.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	157.5	236.0	120.5	3285.5	337.0	133.5	167.5	87.0
Merged-chr6-148940563-4	chr6	148940446	148940646	+	598.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361398, intron 1 of 4)	B2_Mm2|SINE|B2	4280.0	NM_001355645	56306.0	Mm.18637	NM_019643	ENSMUSG00000039985	Fam60a	Ppcs1|Pptcs1|Sinhcaf|Tera	family with sequence similarity 60, member A	protein-coding	3.0	4.0	6.5	137.0	22.5	13.5	13.5	4.5
Merged-chr18-5986608-4	chr18	5986506	5986706	+	855.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	149492.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	12.5	32.0	7.5	214.0	6.0	11.5	17.5	10.5
Merged-chr16-24027557-3	chr16	24027428	24027628	+	711.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38676.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	7.0	13.5	2.0	49.0	12.5	7.0	9.5	6.0
Merged-chr18-78142219-4	chr18	78142115	78142315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171011)	promoter-TSS (NM_001171011)	-96.0	NM_001171011	108052.0	Mm.33832	NM_028122	ENSMUSG00000059336	Slc14a1	2610507K20Rik|3021401A05Rik|UT-B|Utb1	solute carrier family 14 (urea transporter), member 1	protein-coding	91.5	137.0	121.0	1736.0	280.5	94.0	134.0	117.5
Merged-chr11-70185327-3	chr11	70185242	70185442	+	981.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	18719.0	NM_010796	17312.0	Mm.252405	NM_010796	ENSMUSG00000000318	Clec10a	CD301a|M-ASGP-BP-1|Mgl|Mgl1	C-type lectin domain family 10, member A	protein-coding	14.5	2.0	15.5	294.5	15.5	7.0	6.0	25.0
Merged-chr4-136239838-4	chr4	136239737	136239937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008232, intron 17 of 24)	intron (NM_001008232, intron 17 of 24)	-8120.0	NM_011542	21401.0	Mm.112	NM_011542	ENSMUSG00000001604	Tcea3	S-II|SII-K1	transcription elongation factor A (SII), 3	protein-coding	52.0	81.5	26.5	538.5	109.5	38.0	39.0	46.0
Merged-chr6-82997913-4	chr6	82997811	82998011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 4 of 9)	intron (NM_033079, intron 4 of 9)	35560.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	51.0	80.0	56.5	1220.0	137.5	50.5	42.0	71.5
Merged-chr12-79072721-4	chr12	79072614	79072814	+	969.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181073, intron 20 of 28)	intron (NM_181073, intron 20 of 28)	16956.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	30.5	18.5	22.5	427.0	43.5	12.5	23.5	15.5
Merged-chr13-101592549-4	chr13	101592442	101592642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100088.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	18.0	28.0	23.0	326.0	74.0	16.5	22.0	31.5
Merged-chr10-118879196-4	chr10	118879120	118879320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-10317.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	52.0	132.5	117.0	886.5	136.0	52.0	62.5	42.0
Merged-chr17-34293726-4	chr17	34293588	34293788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5917.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	88.5	139.0	42.0	882.0	271.5	66.5	57.5	93.0
Merged-chr2-166875094-4	chr2	166874971	166875171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085495, intron 30 of 38)	intron (NM_001085495, intron 30 of 38)	-31025.0	NM_023565	110750.0	Mm.22417	NM_023565	ENSMUSG00000002718	Cse1l	2610100P18Rik|AA407533|Capts|Cas|Xpo2	chromosome segregation 1-like (S. cerevisiae)	protein-coding	54.5	42.5	42.0	706.5	103.5	20.5	31.0	39.5
Merged-chr11-79398571-3	chr11	79398465	79398665	+	846.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010897, intron 5 of 57)	Lx8|LINE|L1	58673.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	12.5	18.0	5.5	92.0	18.5	18.0	13.0	6.0
Merged-chr10-44268433-4	chr10	44268351	44268551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_053069, exon 1 of 8)	5' UTR (NM_053069, exon 1 of 8)	112.0	NM_001358596	11793.0	Mm.22264	NM_053069	ENSMUSG00000038160	Atg5	2010107M05Rik|3110067M24Rik|AW319544|Apg5l|Atg5l|C88337|Paddy	autophagy related 5	protein-coding	166.0	330.5	200.5	2728.0	519.0	234.0	260.0	228.5
Merged-chr15-95790113-2	chr15	95790013	95790213	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253813)	promoter-TSS (NM_001253813)	-730.0	NM_175344	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	5.5	8.5	9.0	21.0	23.5	11.0	10.5	14.0
Merged-chr11-83658982-4	chr11	83658884	83659084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3600.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	59.5	76.5	40.0	662.0	81.5	29.0	29.0	37.5
Merged-chr10-87859641-2	chr10	87859541	87859741	+	809.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111275, intron 1 of 3)	intron (NM_001111275, intron 1 of 3)	589.0	NM_010512	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	7.0	7.5	5.0	53.5	14.5	7.0	8.5	5.5
Merged-chr17-28770152-5	chr17	28770045	28770245	+	736.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011950, intron 2 of 11)	CpG-6188	828.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	13.0	4.5	6.0	85.0	13.0	5.0	6.0	4.5
Merged-chr4-150176714-3	chr4	150176604	150176804	+	609.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	24431.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	6.5	7.5	5.0	92.0	27.5	7.5	10.0	7.5
Merged-chr6-57824579-4	chr6	57824490	57824690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	CpG	535.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	51.5	67.0	89.0	802.0	105.5	40.0	71.5	56.0
Merged-chr14-13971875-3	chr14	13971819	13972019	+	845.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10067.0	NM_001359901	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	5.5	2.5	10.5	67.5	16.0	8.0	4.5	12.0
Merged-chr1-152682738-4	chr1	152682733	152682933	+	995.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-57616.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	22.0	34.0	14.5	272.0	49.5	18.5	17.5	18.5
Merged-chr1-157048321-4	chr1	157048196	157048396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60354.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	18.5	31.5	19.0	438.0	104.5	22.0	28.5	41.5
Merged-chr5-143039011-4	chr5	143038903	143039103	+	847.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	74017.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	19.5	38.0	14.0	80.0	23.5	10.5	10.0	7.5
Merged-chr16-92445615-4	chr16	92445513	92445713	+	812.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	B3A|SINE|B2	20556.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	14.0	11.5	8.0	70.5	18.0	3.0	12.5	7.0
Merged-chr11-70674715-4	chr11	70674612	70674812	+	918.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178116, exon 15 of 23)	exon (NM_178116, exon 15 of 23)	-5296.0	NM_001167669	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	11.5	13.0	14.0	176.5	27.5	12.5	7.5	8.5
Merged-chr2-129512332-4	chr2	129512262	129512462	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	L1_Mus2|LINE|L1	24240.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	43.0	50.0	56.5	213.0	64.5	17.5	23.0	27.5
Merged-chr6-32610885-4	chr6	32610784	32610984	+	904.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22692.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	7.0	15.0	8.0	150.5	49.0	12.0	20.0	16.0
Merged-chr1-156437520-4	chr1	156437429	156437629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 11 of 15)	intron (NM_009230, intron 11 of 15)	-16614.0	NM_001346967	77352.0	Mm.428709	NM_001033180	ENSMUSG00000026601	Axdnd1	9430070O13Rik|Gm979	axonemal dynein light chain domain containing 1	protein-coding	111.0	218.0	140.0	1967.0	276.5	142.0	117.0	125.0
Merged-chr8-64850011-4	chr8	64849912	64850112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178633)	promoter-TSS (NM_178633)	-88.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	56.5	79.0	71.0	1161.5	134.0	71.5	102.0	47.0
Merged-chr12-98266353-4	chr12	98266245	98266445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2290.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	90.0	127.0	90.5	1223.0	214.5	79.5	76.0	62.5
Merged-chr4-108460323-2	chr4	108460223	108460423	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175472, intron 2 of 30)	CpG-10127	897.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	26.0	14.5	9.0	196.0	46.0	21.5	18.5	38.0
Merged-chr4-99715602-4	chr4	99715519	99715719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081264)	promoter-TSS (NM_001081264)	-11.0	NM_001081264	320438.0	Mm.32408	NM_001081264	ENSMUSG00000073792	Alg6	E230028F23Rik	asparagine-linked glycosylation 6 (alpha-1,3,-glucosyltransferase)	protein-coding	138.5	199.0	153.5	2344.0	457.0	136.0	200.0	165.5
Merged-chr10-84412803-4	chr10	84412715	84412915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 1 of 6)	intron (NM_001004363, intron 1 of 6)	27656.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	32.0	95.5	52.0	861.5	90.5	31.5	39.5	40.0
Merged-chr7-28268006-3	chr7	28267955	28268155	+	847.9833369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198425, exon 1 of 1)	exon (NM_198425, exon 1 of 1)	174.0	NM_198425	386655.0	Mm.258201	NM_198425	ENSMUSG00000046058	Eid2	Cri2|EID-2	EP300 interacting inhibitor of differentiation 2	protein-coding	6.0	7.0	6.5	115.0	8.0	2.0	2.0	5.0
Merged-chr5-24842784-4	chr5	24842685	24842885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053075)	promoter-TSS (NM_053075)	-424.0	NM_053075	19744.0	Mm.319175	NM_053075	ENSMUSG00000028945	Rheb	Rheb1	Ras homolog enriched in brain	protein-coding	385.0	526.0	412.0	5123.0	1010.5	413.0	472.5	394.0
Merged-chr16-36817512-4	chr16	36817410	36817610	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134111, intron 2 of 5)	intron (NM_134111, intron 2 of 5)	-8805.0	NM_001113405	106389.0	Mm.432078	NM_134111	ENSMUSG00000022838	Eaf2	AW048865|FESTA-L|FESTA-S|Festa|Traits|U19	ELL associated factor 2	protein-coding	29.0	30.0	18.5	311.5	50.0	20.5	21.0	13.5
Merged-chr4-129377802-3	chr4	129377729	129377929	+	901.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028603, exon 1 of 5)	5' UTR (NM_028603, exon 1 of 5)	199.0	NM_028603	73680.0	Mm.32997	NM_028603	ENSMUSG00000028807	Zbtb8a	2410081M15Rik|AI480941	zinc finger and BTB domain containing 8a	protein-coding	6.5	13.0	11.5	107.0	7.5	8.0	6.0	2.5
Merged-chr9-5334507-3	chr9	5334384	5334584	+	825.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007609, intron 7 of 8)	ORR1A4-int|LTR|ERVL-MaLR	-10992.0	NM_009808	12364.0	Mm.42163	NM_009808	ENSMUSG00000025887	Casp12	-	caspase 12	protein-coding	13.5	13.5	10.5	59.5	22.5	4.5	9.0	6.5
Merged-chr5-120509024-4	chr5	120508919	120509119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2173.0	NM_001177595	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	30.0	52.5	27.0	379.0	64.5	20.5	43.5	32.0
Merged-chr15-99823560-4	chr15	99823478	99823678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113545, intron 3 of 10)	intron (NM_001113545, intron 3 of 10)	-3429.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	114.0	100.0	80.5	1197.0	227.5	68.5	101.0	116.0
Merged-chr16-4679800-4	chr16	4679691	4679891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030205)	promoter-TSS (NM_030205)	-71.0	NM_030205	78885.0	Mm.325512	NM_030205	ENSMUSG00000039637	Coro7	0610011B16Rik|AW048373|AW556392	coronin 7	protein-coding	166.5	259.5	135.0	2315.0	525.5	168.0	240.0	147.0
Merged-chr9-21410084-4	chr9	21409989	21410189	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045742, intron 1 of 4)	intron (NR_045742, intron 1 of 4)	1631.0	NR_045742	330902.0	Mm.437044	NR_045742	ENSMUSG00000097665	Gm16853	4930565O14	predicted gene, 16853	ncRNA	12.0	23.0	20.5	253.5	66.0	15.0	32.0	24.0
Merged-chr16-91365920-4	chr16	91365792	91365992	+	697.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6891.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	8.0	18.0	16.0	120.5	16.5	7.5	7.5	6.5
Merged-chr4-126819477-4	chr4	126819385	126819585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035525, intron 5 of 23)	intron (NM_001035525, intron 5 of 23)	65715.0	NM_001035526	100317.0	Mm.206206	NM_133886	ENSMUSG00000028830	AU040320	A730047D20Rik|AAVR|Kiaa0319l	expressed sequence AU040320	protein-coding	18.0	48.0	34.5	381.5	62.5	29.0	26.5	43.5
Merged-chr11-46076672-4	chr11	46076561	46076761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291890, intron 3 of 22)	ORR1D1|LTR|ERVL-MaLR	20677.0	NM_001291891	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	42.0	52.0	57.0	782.0	135.5	40.5	86.0	67.5
Merged-chr6-113748312-4	chr6	113748114	113748314	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347365, exon 24 of 24)	3' UTR (NM_001347365, exon 24 of 24)	-7533.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	8.0	5.5	8.0	92.0	10.0	2.5	6.5	15.5
Merged-chr2-18056632-4	chr2	18056541	18056741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149308, intron 1 of 9)	CpG	913.0	NR_149308	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	141.5	197.5	101.5	1809.0	375.0	146.0	178.0	106.0
Merged-chr10-118092346-3	chr10	118092298	118092498	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49389.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	3.0	6.5	1.0	22.5	43.0	15.5	17.5	21.0
Merged-chr12-84802842-4	chr12	84802745	84802945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 16 of 34)	intron (NM_013589, intron 16 of 34)	29575.0	NM_028863	74316.0	Mm.25719	NM_028863	ENSMUSG00000021241	Isca2	0710001C05Rik|5730594E03Rik|Hbld1	iron-sulfur cluster assembly 2	protein-coding	41.5	76.0	26.5	431.5	73.0	27.5	31.5	11.0
Merged-chr13-30745292-5	chr13	30745170	30745370	+	801.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3963.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	10.0	4.5	9.5	31.0	10.0	8.5	3.5	5.0
Merged-chr2-128731614-4	chr2	128731493	128731693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 2 of 18)	intron (NM_008587, intron 2 of 18)	32678.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	44.0	49.5	69.5	750.0	94.0	49.5	34.5	37.0
Merged-chr9-61025556-4	chr9	61025455	61025655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8486.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	58.5	70.0	53.0	773.0	154.5	52.0	59.0	52.0
Merged-chr4-59815611-4	chr4	59815520	59815720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	intron (NM_172468, intron 1 of 8)	9970.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	96.5	88.0	74.5	1018.0	178.5	60.0	65.0	82.0
Merged-chr8-106411753-3	chr8	106411638	106411838	+	767.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3601.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	3.0	6.5	6.5	202.5	25.0	5.5	4.5	9.0
Merged-chr17-35201207-4	chr17	35201124	35201324	+	975.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013693, intron 1 of 3)	intron (NM_013693, intron 1 of 3)	783.0	NM_013693	21926.0	Mm.1293	NM_013693	ENSMUSG00000024401	Tnf	DIF|TNF-a|TNF-alpha|TNFSF2|TNFalpha|Tnfa|Tnfsf1a|Tnlg1f	tumor necrosis factor	protein-coding	24.5	54.5	22.0	180.5	65.0	41.0	23.5	12.5
Merged-chr15-31468004-3	chr15	31467896	31468096	+	731.600037	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 22 of 25)	MTB|LTR|ERVL-MaLR	-14307.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	13.0	11.0	7.5	46.5	21.5	7.0	3.0	8.5
Merged-chr18-37998689-4	chr18	37998607	37998807	+	928.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001205336, exon 1 of 33)	5' UTR (NM_001205336, exon 1 of 33)	262.0	NM_001205336	106952.0	Mm.247642	NM_139206	ENSMUSG00000024451	Arap3	Centd3|Drag1|E030006K04Rik|cnt-d3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	protein-coding	24.5	24.5	39.0	393.0	18.5	18.0	15.5	13.5
Merged-chr10-8842984-3	chr10	8842888	8843088	+	937.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	43082.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	10.5	14.5	10.5	204.5	26.0	8.0	4.0	3.0
Merged-chr7-141460830-4	chr7	141460757	141460957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025103)	promoter-TSS (NM_001025103)	-237.0	NM_001025103	213573.0	Mm.386851	NM_001025103	ENSMUSG00000048200	Cracr2b	6330520A15Rik|BC026645|Cracr2a|Efcab4|Efcab4a	calcium release activated channel regulator 2B	protein-coding	91.0	158.5	102.0	1673.0	232.5	75.0	128.0	93.5
Merged-chr3-61409856-4	chr3	61409766	61409966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45359.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	44.5	70.5	60.0	686.5	113.5	37.5	55.5	20.5
Merged-chr9-64704707-4	chr9	64704614	64704814	+	991.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 23 of 24)	intron (NM_001134399, intron 23 of 24)	33042.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	52.0	48.5	17.5	470.5	66.5	17.5	11.5	30.5
Merged-chr1-170218673-4	chr1	170218581	170218781	+	895.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3274.0	NM_010633	16589.0	Mm.209150	NM_010633	ENSMUSG00000026667	Uhmk1	4732477C12Rik|4930500M09Rik|AA673513|AI449218|AU021979|C820018A03Rik|KIS|Kist|P-CIP2	U2AF homology motif (UHM) kinase 1	protein-coding	14.5	28.0	17.0	196.0	53.5	13.0	22.0	15.0
Merged-chr2-153443951-4	chr2	153443854	153444054	+	869.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134300, intron 4 of 10)	CpG	525.0	NM_001001986	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	7.0	10.5	11.0	115.5	26.0	5.5	10.5	10.5
Merged-chr14-61682366-4	chr14	61682299	61682499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028264)	promoter-TSS (NR_028264)	-26.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	196.0	340.5	217.0	1639.5	516.5	253.0	217.0	143.0
Merged-chr9-72491944-4	chr9	72491831	72492031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009359)	promoter-TSS (NM_009359)	28.0	NM_009359	21778.0	Mm.14485	NM_009359	ENSMUSG00000090626	Tex9	Gm19407|tsec-1	testis expressed gene 9	protein-coding	22.0	39.0	44.5	237.5	65.0	20.0	35.0	23.5
Merged-chr8-70898216-4	chr8	70898117	70898317	+	904.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029751)	promoter-TSS (NM_029751)	-774.0	NM_029751	76808.0	Mm.379251	NM_029751	ENSMUSG00000045128	Rpl18a	2510019J09Rik	ribosomal protein L18A	protein-coding	11.5	18.0	11.5	186.0	39.5	12.5	12.0	10.0
Merged-chr13-5866425-4	chr13	5866332	5866532	+	847.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 2 of 3)	intron (NM_011803, intron 2 of 3)	4943.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	27.0	18.0	8.5	111.5	26.0	11.0	8.0	13.0
Merged-chr3-65801170-3	chr3	65801068	65801268	+	780.366638	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166659, intron 9 of 12)	MTC|LTR|ERVL-MaLR	134940.0	NM_001166659	624866.0	Mm.296317	NM_001037923	ENSMUSG00000074579	Lekr1	EG546798|EG624866|Gm6534	leucine, glutamate and lysine rich 1	protein-coding	4.5	8.5	6.5	174.0	25.5	4.0	18.0	13.0
Merged-chr17-74880250-4	chr17	74880153	74880353	+	822.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125276.0	NM_019919	268977.0	Mm.269747	NM_019919	ENSMUSG00000001870	Ltbp1	9430031G15Rik|9830146M04|Ltbp-1|Ltbp1L|TGF-beta1-BP-1|Tgfb|b2b1000Clo	latent transforming growth factor beta binding protein 1	protein-coding	7.5	3.5	8.0	137.5	30.5	7.5	23.0	14.5
Merged-chr4-58535976-1	chr4	58535876	58536076	+	655.5	f0_c57.idr	intron (NM_010336, intron 1 of 3)	intron (NM_010336, intron 1 of 3)	17317.0	NM_172989	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	0.0	3.0	0.0	22.0	32.5	8.0	17.0	8.0
Merged-chr11-96765834-4	chr11	96765747	96765947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11708.0	NM_028965	74479.0	Mm.270781	NM_028965	ENSMUSG00000020876	Snx11	4933439F10Rik|A930041K09Rik|AI117694	sorting nexin 11	protein-coding	86.5	157.5	76.5	1243.0	243.0	85.0	97.5	88.0
Merged-chr1-39762206-4	chr1	39762105	39762305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41216.0	NM_001145660	619289.0	Mm.334107	NM_001145660	ENSMUSG00000057173	Rfx8	4933400N17Rik	regulatory factor X 8	protein-coding	46.0	53.5	53.0	884.5	76.0	36.0	64.0	59.5
Merged-chr3-137853463-4	chr3	137853374	137853574	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-11013.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	21.5	29.0	7.0	252.5	75.0	3.0	14.5	28.0
Merged-chr14-61083853-3	chr14	61083762	61083962	+	910.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37007.0	NM_013869	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	0.0	4.0	8.5	53.5	17.0	10.0	23.5	18.0
Merged-chr7-121446432-4	chr7	121446319	121446519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081327, intron 1 of 1)	intron (NM_001081327, intron 1 of 1)	54123.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	69.5	81.0	87.0	1149.5	145.0	31.0	81.0	59.5
Merged-chr15-80097692-4	chr15	80097589	80097789	+	883.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207708, intron 1 of 3)	intron (NM_207708, intron 1 of 3)	6355.0	NM_207708	20972.0	Mm.230301	NM_009303	ENSMUSG00000022415	Syngr1	R75468|Syngr1b|p29	synaptogyrin 1	protein-coding	18.0	15.0	10.5	297.5	43.0	12.5	11.0	15.5
Merged-chr16-30873701-4	chr16	30873599	30873799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	207733.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	26.0	43.0	15.0	378.5	53.0	19.5	30.0	28.5
Merged-chr2-45100186-5	chr2	45100036	45100236	+	844.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	10141.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	11.0	10.0	6.0	96.5	12.5	8.5	2.5	3.0
Merged-chr4-130783120-4	chr4	130783012	130783212	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9425.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	34.0	68.5	43.0	384.5	63.5	24.5	26.0	18.0
Merged-chr1-54927506-4	chr1	54927393	54927593	+	931.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1106.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	11.0	20.5	11.5	189.5	56.5	4.5	20.0	13.0
Merged-chr7-141392152-4	chr7	141392059	141392259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011528)	promoter-TSS (NM_011528)	-1.0	NM_011528	21351.0	Mm.29182	NM_011528	ENSMUSG00000025503	Taldo1	-	transaldolase 1	protein-coding	103.5	161.5	91.5	1141.5	317.0	112.0	120.0	108.0
Merged-chr7-143023695-4	chr7	143023596	143023796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110354, intron 4 of 4)	intron (NR_110354, intron 4 of 4)	18037.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	77.5	152.0	62.5	708.0	214.5	89.0	76.0	75.0
Merged-chr11-117939889-4	chr11	117939779	117939979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29487.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	55.0	56.5	33.5	453.5	69.0	43.5	53.0	29.0
Merged-chr17-86283907-3	chr17	86283811	86284011	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	3267.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	8.0	27.0	13.5	118.0	10.5	6.0	5.5	3.0
Merged-chr14-75032380-4	chr14	75032277	75032477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198642, exon 2 of 14)	exon (NM_198642, exon 2 of 14)	16350.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	30.0	40.5	37.0	474.5	49.5	28.0	37.0	20.0
Merged-chr18-35562635-4	chr18	35562521	35562721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010771, intron 1 of 14)	CpG	463.0	NM_010771	17184.0	Mm.215034	NM_010771	ENSMUSG00000037236	Matr3	1110061A14Rik|2810017I02Rik|AI841759|AW555618|D030046F20Rik|mKIAA0723	matrin 3	protein-coding	39.5	90.0	69.5	806.5	153.0	38.5	57.0	68.5
Merged-chr8-126908945-4	chr8	126908815	126909015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37006.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	99.5	145.0	86.5	1409.0	226.0	83.5	123.5	114.0
Merged-chr12-54830741-4	chr12	54830648	54830848	+	797.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32129.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	6.5	11.0	13.0	123.5	36.5	6.5	10.5	10.5
Merged-chr10-56339285-4	chr10	56339182	56339382	+	912.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38018.0	NM_010288	14609.0	Mm.378921	NM_010288	ENSMUSG00000050953	Gja1	AU042049|AW546267|Cnx43|Cx43|Cx43alpha1|Gja-1|Npm1|connexin43	gap junction protein, alpha 1	protein-coding	17.0	8.0	18.0	242.0	38.5	12.0	18.5	14.5
Merged-chr13-101907903-4	chr13	101907783	101907983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139666.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	94.0	159.5	152.5	1053.0	219.0	80.5	87.0	45.0
Merged-chr17-17899389-2	chr17	17899293	17899493	+	832.450012	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11569.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	6.5	10.5	4.5	48.0	15.0	3.0	10.5	11.5
Merged-chr14-61328130-1	chr14	61328030	61328230	+	701.799988	f0_balb.idr	Intergenic	Intergenic	18377.0	NM_177337	219144.0	Mm.206566	NM_177337	ENSMUSG00000043157	Arl11	ARLTS1|C730007L20Rik	ADP-ribosylation factor-like 11	protein-coding	13.5	12.0	11.5	118.0	7.0	5.5	5.5	6.5
Merged-chr1-165133505-2	chr1	165133405	165133605	+	744.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27268.0	NM_032005	83993.0	Mm.190649	NM_032005	ENSMUSG00000026572	Tbx19	AU019250|D1Ertd754e|Tpit	T-box 19	protein-coding	2.5	11.5	5.5	43.5	14.0	6.0	5.5	7.5
Merged-chr5-90882376-4	chr5	90882275	90882475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8870.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	38.0	29.5	42.0	682.5	40.5	14.5	8.5	8.5
Merged-chr7-24254725-4	chr7	24254658	24254858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018791)	promoter-TSS (NM_018791)	-36.0	NM_018791	54678.0	Mm.468052	NM_018791	ENSMUSG00000030486	Zfp108	-	zinc finger protein 108	protein-coding	25.5	39.0	41.0	747.0	94.5	27.0	49.0	47.5
Merged-chr7-111373589-4	chr7	111373498	111373698	+	996.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-250923.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	18.5	56.5	51.0	525.5	201.5	81.0	99.5	92.5
Merged-chr8-34963233-1	chr8	34963133	34963333	+	604.666687	f0_balb.idr	intron (NM_175091, intron 1 of 26)	intron (NM_175091, intron 1 of 26)	2457.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	6.5	16.5	6.0	87.5	11.5	2.5	2.0	5.0
Merged-chr8-88242076-3	chr8	88242003	88242203	+	800.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164499, intron 2 of 11)	intron (NM_001164499, intron 2 of 11)	-30300.0	NM_007406	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	1.5	6.0	8.0	2.5	22.0	7.0	9.0	9.5
Merged-chr11-68443490-4	chr11	68443419	68443619	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	11394.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	33.5	123.5	32.0	433.0	65.0	36.0	17.5	36.0
Merged-chr2-6455310-4	chr2	6455188	6455388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102552.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	21.0	27.5	18.5	409.5	53.5	8.0	24.5	33.0
Merged-chr10-8816929-4	chr10	8816826	8817026	+	974.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	69144.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	23.0	35.5	58.0	907.5	54.5	11.0	24.5	25.5
Merged-chr7-127875779-4	chr7	127875671	127875871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362191)	promoter-TSS (NM_001362191)	-129.0	NM_001362191	244219.0	Mm.207872	NM_146259	ENSMUSG00000049728	Zfp668	BC030314|E130018B19Rik|Znf668	zinc finger protein 668	protein-coding	65.0	132.5	69.5	893.0	205.5	90.0	84.0	78.0
Merged-chr2-158144927-1	chr2	158144827	158145027	+	1000.0	f0_balb.idr	intron (NM_009373, intron 1 of 12)	intron (NM_009373, intron 1 of 12)	1465.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	21.5	34.0	26.5	177.5	44.5	12.5	28.0	21.5
Merged-chr13-9277442-7	chr13	9277299	9277499	+	997.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	874.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	17.5	41.5	36.5	267.0	59.5	28.0	29.5	27.5
Merged-chr4-11579253-4	chr4	11579150	11579350	+	970.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256142)	promoter-TSS (NM_001256142)	-412.0	NM_001256142	100503583.0	Mm.249437	NM_001256142	ENSMUSG00000094595	Fsbp	-	fibrinogen silencer binding protein	protein-coding	24.5	26.0	18.5	361.0	35.0	10.5	18.5	21.5
Merged-chr10-96181550-4	chr10	96181435	96181635	+	902.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-44672.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	13.5	19.0	22.5	330.5	40.0	17.0	21.5	26.5
Merged-chr4-136469092-3	chr4	136468997	136469197	+	846.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024452)	promoter-TSS (NM_024452)	-664.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	14.0	6.5	10.0	277.5	19.0	4.5	4.5	14.5
Merged-chr7-125561497-4	chr7	125561388	125561588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	intron (NM_001008700, intron 1 of 10)	9206.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	69.5	92.5	53.5	716.0	168.0	59.0	58.5	65.0
Merged-chr2-25366178-3	chr2	25366069	25366269	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033293)	promoter-TSS (NM_001033293)	-506.0	NM_001033293	227620.0	Mm.33797	NM_001033293	ENSMUSG00000026956	Uap1l1	5730445F03Rik	UDP-N-acteylglucosamine pyrophosphorylase 1-like 1	protein-coding	7.0	4.5	2.5	76.0	28.5	5.5	5.5	11.0
Merged-chr16-14361013-4	chr16	14360920	14361120	+	834.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008576)	promoter-TSS (NM_008576)	-538.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	8.0	17.5	2.5	108.0	31.0	15.5	12.5	16.0
Merged-chr4-43547347-4	chr4	43547257	43547457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011602, intron 19 of 56)	intron (NM_011602, intron 19 of 56)	15226.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	30.0	42.5	29.5	555.5	51.5	24.5	37.5	29.5
Merged-chr2-121955942-4	chr2	121955848	121956048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290992)	promoter-TSS (NM_001290992)	-53.0	NM_001290992	329506.0	Mm.249405	NM_212450	ENSMUSG00000033411	Ctdspl2	D2Ertd485e|SCP4	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2	protein-coding	145.5	179.5	114.0	2076.0	386.0	128.5	210.5	122.0
Merged-chr15-5495659-4	chr15	5495554	5495754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045274)	promoter-TSS (NR_045274)	-664.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	38.0	68.5	48.0	577.0	131.5	43.5	44.5	54.0
Merged-chr6-108625097-4	chr6	108624995	108625195	+	801.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104577, intron 1 of 6)	intron (NR_104577, intron 1 of 6)	-1928.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	9.0	11.5	15.0	352.0	32.5	8.0	21.5	9.0
Merged-chr5-99576053-4	chr5	99575930	99576130	+	881.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	153030.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	6.5	11.0	12.0	205.5	19.0	7.0	13.0	19.5
Merged-chr11-98943537-4	chr11	98943418	98943618	+	952.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177303, intron 1 of 8)	intron (NM_001177303, intron 1 of 8)	3807.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	38.0	29.0	11.5	336.0	70.5	26.0	17.0	11.5
Merged-chr12-17467007-3	chr12	17466916	17467116	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77857.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	20.0	13.5	24.0	555.0	22.0	2.5	6.0	8.0
Merged-chr11-62821994-4	chr11	62821915	62822115	+	748.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053169, intron 1 of 5)	intron (NM_053169, intron 1 of 5)	1762.0	NM_053169	94092.0	Mm.117087	NM_053169	ENSMUSG00000047821	Trim16	9130006M08Rik|AI482483|EBBP	tripartite motif-containing 16	protein-coding	7.0	17.0	12.5	101.5	32.5	8.0	3.5	3.0
Merged-chr13-92038216-4	chr13	92038145	92038345	+	852.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50203.0	NM_009027	19418.0	Mm.248630	NM_009027	ENSMUSG00000021708	Rasgrf2	6330417G04Rik|AW048350|Grf2|Ras-GRF2	RAS protein-specific guanine nucleotide-releasing factor 2	protein-coding	18.0	13.5	10.5	300.5	29.5	7.5	9.0	2.0
Merged-chr4-155653275-3	chr4	155653163	155653363	+	881.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320235)	promoter-TSS (NM_001320235)	27.0	NM_001320235	26561.0	Mm.29373	NM_011985	ENSMUSG00000029061	Mmp23	CA-MMP	matrix metallopeptidase 23	protein-coding	6.0	11.0	7.0	115.0	10.0	7.0	7.5	7.0
Merged-chr19-10697409-2	chr19	10697309	10697509	+	604.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	L1MEc|LINE|L1	-3359.0	NM_001361964	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	5.5	20.0	13.0	34.5	12.0	9.5	10.5	8.0
Merged-chr10-44149119-3	chr10	44149023	44149223	+	896.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21324.0	NR_001582	70365.0	Mm.87073	NR_001582	ENSMUSG00000091358	Speer5-ps1	1700007C10Rik|SPEER-5|Speer5-ps	spermatogenesis associated glutamate (E)-rich protein 5, pseudogene 1	pseudo	6.0	6.5	4.0	177.0	23.0	5.0	8.5	12.5
Merged-chr12-84451155-4	chr12	84451093	84451293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173756)	promoter-TSS (NM_173756)	-169.0	NM_134042	104776.0	Mm.247510	NM_134042	ENSMUSG00000021238	Aldh6a1	1110038I05Rik|Mmsdh	aldehyde dehydrogenase family 6, subfamily A1	protein-coding	269.0	474.0	354.0	3959.5	739.5	292.5	301.5	306.0
Merged-chr7-46710607-4	chr7	46710487	46710687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030233)	promoter-TSS (NM_030233)	64.0	NM_030233	78935.0	Mm.289866	NM_030233	ENSMUSG00000006763	Saal1	5031425D22Rik|SPACIA1	serum amyloid A-like 1	protein-coding	42.0	63.5	52.0	488.0	69.5	33.5	27.0	40.0
Merged-chr11-45955225-4	chr11	45955132	45955332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290737)	promoter-TSS (NM_001290737)	-44.0	NM_001290737	66628.0	Mm.269083	NM_001080969	ENSMUSG00000011254	Thg1l	-	tRNA-histidine guanylyltransferase 1-like (S. cerevisiae)	protein-coding	110.0	191.0	93.5	1136.0	251.5	145.0	132.5	90.5
Merged-chr14-20674272-4	chr14	20674192	20674392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168273)	promoter-TSS (NM_001168273)	-29.0	NM_172596	218811.0	Mm.173119	NM_172596	ENSMUSG00000039367	Sec24c	2610204K03Rik|mKIAA0079	Sec24 related gene family, member C (S. cerevisiae)	protein-coding	96.0	155.5	70.0	1273.0	292.0	83.5	109.0	72.0
Merged-chr11-3159816-2	chr11	3159708	3159908	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 10 of 32)	MTD|LTR|ERVL-MaLR	33655.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	85.5	73.5	111.5	1316.5	0.0	0.5	0.0	0.0
Merged-chr2-153161771-1	chr2	153161671	153161871	+	1000.0	f0_balb.idr	intron (NM_133847, intron 1 of 17)	intron (NM_133847, intron 1 of 17)	470.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	27.0	28.0	19.5	366.5	54.5	41.0	26.5	32.0
Merged-chr11-6291679-7	chr11	6291560	6291760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252282)	promoter-TSS (NM_001252282)	1.0	NM_001361903	18293.0	Mm.276348	NM_010956	ENSMUSG00000020456	Ogdh	2210403E04Rik|2210412K19Rik|AA409584|d1401|mKIAA4192	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	protein-coding	115.0	225.5	192.0	1624.0	374.0	162.0	188.5	176.0
Merged-chr1-172335343-3	chr1	172335231	172335431	+	967.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5879.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	13.0	16.0	7.5	123.0	5.0	1.0	4.0	10.0
Merged-chr7-99531958-7	chr7	99531802	99532002	+	871.609497	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-3584.0	NM_178220	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	12.5	11.0	12.5	108.5	30.0	11.0	12.5	20.5
Merged-chr7-45707013-4	chr7	45706921	45707121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016974, intron 2 of 3)	CpG	1774.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	61.0	65.0	54.0	864.0	176.0	57.5	70.0	85.0
Merged-chr7-101348015-4	chr7	101347906	101348106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040111)	promoter-TSS (NM_001040111)	-63.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	59.5	47.5	32.5	441.0	72.0	25.0	27.0	35.0
Merged-chr16-38395623-4	chr16	38395524	38395724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_134102)	TTS (NM_134102)	33434.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	55.0	46.5	35.5	560.5	70.5	35.5	33.5	29.5
Merged-chr17-47508155-4	chr17	47508066	47508266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	3115.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	96.5	100.0	64.0	1063.0	172.0	53.0	63.5	54.0
Merged-chr11-46461592-4	chr11	46461476	46461676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134250, intron 3 of 6)	ID_B1|SINE|B4	6645.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	66.5	80.0	64.5	944.0	99.0	37.5	60.0	38.0
Merged-chr8-71289309-4	chr8	71289215	71289415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 1 of 39)	intron (NM_001142322, intron 1 of 39)	16601.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	128.5	122.5	141.0	2511.5	333.0	92.0	113.0	148.0
Merged-chr11-82561725-4	chr11	82561619	82561819	+	936.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-71634.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	15.5	19.0	11.5	149.0	31.0	15.0	13.5	18.0
Merged-chr4-132951253-4	chr4	132951190	132951390	+	828.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22805.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	13.5	11.5	8.5	101.5	22.0	14.0	11.0	11.5
Merged-chr14-74939535-4	chr14	74939443	74939643	+	803.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	8334.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	10.0	13.5	5.0	113.0	51.0	11.0	9.0	10.0
Merged-chr1-156043217-3	chr1	156043093	156043293	+	709.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172843, intron 2 of 6)	intron (NM_172843, intron 2 of 6)	2332.0	NM_022329	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	4.0	8.0	3.5	68.0	22.0	9.5	9.0	14.0
Merged-chr18-30513333-4	chr18	30513215	30513415	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	240450.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	19.5	20.5	9.0	234.5	51.5	15.5	13.5	10.0
Merged-chr9-71896094-4	chr9	71896012	71896212	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253864)	promoter-TSS (NM_001253864)	-16.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	20.5	20.5	14.0	298.0	49.0	17.5	32.5	16.5
Merged-chr18-82857060-4	chr18	82856965	82857165	+	981.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_125720, intron 2 of 2)	MIRc|SINE|MIR	1168.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	27.0	59.5	16.0	162.5	104.0	32.5	23.0	17.5
Merged-chr2-102876345-4	chr2	102876253	102876453	+	871.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	MIRc|SINE|MIR	25312.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	9.5	10.5	6.0	173.5	38.0	11.5	27.0	15.0
Merged-chr9-65718366-4	chr9	65718254	65718454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 3 of 9)	intron (NM_172536, intron 3 of 9)	41806.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	42.5	49.0	35.0	580.0	48.0	41.5	44.5	31.0
Merged-chr6-8505066-4	chr6	8504961	8505161	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	4100.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	16.0	21.0	18.5	383.5	48.5	4.5	26.5	31.5
Merged-chr1-194976398-4	chr1	194976326	194976526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033564, exon 1 of 5)	non-coding (NR_033564, exon 1 of 5)	533.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	83.0	127.0	197.5	1645.0	212.0	88.0	120.0	121.5
Merged-chr10-79664162-3	chr10	79664064	79664264	+	875.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013591)	promoter-TSS (NM_013591)	-395.0	NM_013591	17123.0	Mm.391556	NM_013591	ENSMUSG00000020310	Madcam1	AV211525|MAdCAM-1	mucosal vascular addressin cell adhesion molecule 1	protein-coding	13.0	16.0	7.5	108.0	30.0	9.0	7.0	9.0
Merged-chr8-122264458-4	chr8	122264342	122264542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17699.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	65.0	85.0	69.0	735.5	110.5	56.0	49.0	53.5
Merged-chr11-3162107-3	chr11	3162026	3162226	+	978.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 9 of 32)	intron (NM_030207, intron 9 of 32)	31337.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	32.0	42.0	45.5	458.0	1.0	2.0	0.5	3.0
Merged-chr1-181245203-4	chr1	181245097	181245297	+	903.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33219.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	6.5	31.0	7.5	106.5	43.0	31.0	13.5	6.5
Merged-chr5-25221852-3	chr5	25221754	25221954	+	848.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1018.0	NM_144908	231050.0	Mm.246718	NM_144908	ENSMUSG00000038072	Galnt11	A430075I06Rik|AI648252|E430002F06Rik	polypeptide N-acetylgalactosaminyltransferase 11	protein-coding	6.0	1.5	2.5	53.0	8.0	6.5	9.0	13.0
Merged-chr13-95503599-3	chr13	95503484	95503684	+	808.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	21656.0	NM_007974	14063.0	Mm.1614	NM_007974	ENSMUSG00000021678	F2rl1	Gpcr11|PAR-2|Par2	coagulation factor II (thrombin) receptor-like 1	protein-coding	0.0	0.0	2.0	2.0	53.5	11.5	18.0	25.0
Merged-chr3-89387818-3	chr3	89387721	89387921	+	779.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355206)	promoter-TSS (NM_001355206)	-150.0	NM_001355206	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	9.0	3.5	5.0	55.0	15.0	5.0	9.5	5.5
Merged-chr13-23717732-4	chr13	23717622	23717822	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1B-I_MM-int|LTR|ERVK	-6868.0	NM_010424	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	10.0	5.5	19.0	171.0	33.5	12.5	25.5	19.5
Merged-chr13-37857938-4	chr13	37857851	37858051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	-30483.0	NR_033218	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	42.0	68.5	57.5	576.0	121.0	49.5	40.5	50.0
Merged-chr4-139288305-3	chr4	139288229	139288429	+	842.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009798, intron 8 of 8)	intron (NM_009798, intron 8 of 8)	22379.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	4.5	8.5	21.0	143.5	9.5	4.5	3.5	2.5
Merged-chr16-33062414-4	chr16	33062300	33062500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172823)	promoter-TSS (NM_172823)	-121.0	NM_172823	239833.0	Mm.131951	NM_172823	ENSMUSG00000022802	Lmln	5330415H22Rik|AI465495	leishmanolysin-like (metallopeptidase M8 family)	protein-coding	177.0	249.5	186.5	2685.5	422.0	160.0	225.5	160.5
Merged-chr3-136669994-4	chr3	136669902	136670102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293622)	promoter-TSS (NM_001293622)	-64.0	NM_008913	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	320.0	404.5	307.0	4972.5	718.5	306.5	386.0	327.0
Merged-chr13-60759227-2	chr13	60759144	60759344	+	636.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 25 of 26)	intron (NM_134062, intron 25 of 26)	27120.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	5.5	5.5	5.5	14.0	4.0	1.5	4.5	3.0
Merged-chr5-108312736-4	chr5	108312611	108312811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081234)	promoter-TSS (NM_001081234)	-214.0	NM_001081234	433931.0	Mm.319881	NM_001081234	ENSMUSG00000029263	Pigg	Gpi7	phosphatidylinositol glycan anchor biosynthesis, class G	protein-coding	71.5	104.0	98.0	1188.5	123.5	48.0	64.0	72.0
Merged-chr10-80159987-4	chr10	80159897	80160097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	CpG	-7842.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	271.5	450.5	243.0	3740.0	773.0	351.5	330.5	292.5
Merged-chr9-116178342-4	chr9	116178236	116178436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2973.0	NM_029575	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	152.5	253.5	150.5	2154.0	330.0	118.0	188.0	135.0
Merged-chr7-81571237-4	chr7	81571156	81571356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004185)	promoter-TSS (NM_001004185)	-36.0	NM_001004185	434204.0	Mm.181641	NM_001004185	ENSMUSG00000045795	Whamm	BB081391|Whdc1|mKIAA1971	WAS protein homolog associated with actin, golgi membranes and microtubules	protein-coding	101.5	122.5	74.5	1571.5	248.0	92.5	110.0	83.5
Merged-chr19-36554449-2	chr19	36554342	36554542	+	692.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172637)	promoter-TSS (NM_172637)	-197.0	NM_001163471	226098.0	Mm.61107	NM_172637	ENSMUSG00000041180	Hectd2	4921524L07|A630025O09Rik|AW212605	HECT domain E3 ubiquitin protein ligase 2	protein-coding	5.0	19.0	6.0	77.0	5.0	1.5	3.0	8.0
Merged-chr1-181212050-4	chr1	181211957	181212157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145514)	promoter-TSS (NM_145514)	-79.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	43.5	56.5	35.5	480.0	81.5	29.5	37.0	39.0
Merged-chr15-99093455-4	chr15	99093355	99093555	+	990.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5727.0	NM_001024702	239659.0	Mm.309917	NM_001024702	ENSMUSG00000001076	C1ql4	C1qtnf11|CTRP11	complement component 1, q subcomponent-like 4	protein-coding	20.5	41.0	16.5	190.0	40.0	6.0	23.0	6.5
Merged-chr19-45059829-2	chr19	45059729	45059929	+	745.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25A|LTR|ERVK	12253.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	3.5	12.5	2.5	1.0	13.5	11.0	8.0	4.5
Merged-chr12-3872663-2	chr12	3872563	3872763	+	992.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 4 of 22)	intron (NM_007872, intron 4 of 22)	-10419.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	10.5	15.0	19.5	78.5	10.0	6.0	3.0	11.5
Merged-chr15-9463809-5	chr15	9463708	9463908	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029341, intron 4 of 4)	intron (NM_029341, intron 4 of 4)	27780.0	NM_029341	75568.0	Mm.82143	NM_029341	ENSMUSG00000039676	Capsl	1700028N11Rik|AW125205	calcyphosine-like	protein-coding	21.0	30.5	23.5	247.0	27.5	12.0	13.5	13.0
Merged-chr14-40894810-4	chr14	40894746	40894946	+	894.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1881.0	NM_177816	328381.0	Mm.235694	NM_177816	ENSMUSG00000037833	Sh2d4b	A430109M18Rik|D030001E08	SH2 domain containing 4B	protein-coding	15.0	19.0	16.0	181.0	36.0	8.0	13.0	10.5
Merged-chr4-150239050-4	chr4	150238944	150239144	+	833.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023119, intron 1 of 11)	intron (NM_023119, intron 1 of 11)	1720.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	7.0	6.0	11.5	194.0	25.5	4.0	9.0	14.0
Merged-chr15-97881576-1	chr15	97881476	97881676	+	828.0	f0_balb.idr	intron (NM_009504, intron 3 of 9)	intron (NM_009504, intron 3 of 9)	26720.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	12.5	5.0	8.0	153.5	7.5	5.5	7.0	4.0
Merged-chr17-46341438-4	chr17	46341339	46341539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-13416.0	NM_170680	224814.0	Mm.76543	NM_145140	ENSMUSG00000032842	Abcc10	Mrp7|mFLJ00002	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	protein-coding	111.5	162.0	131.0	2288.0	238.0	85.0	110.5	122.0
Merged-chr2-143991389-7	chr2	143991287	143991487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133626, intron 1 of 2)	intron (NM_133626, intron 1 of 2)	19876.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	22.0	29.5	19.0	362.5	39.5	20.0	21.5	30.0
Merged-chr7-104218844-4	chr7	104218719	104218919	+	690.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013616)	promoter-TSS (NM_001013616)	24.0	NM_001013616	94088.0	Mm.274843	NM_001013616	ENSMUSG00000072244	Trim6	C430046K18Rik|D7Ertd684e	tripartite motif-containing 6	protein-coding	6.0	6.0	7.0	104.0	24.5	18.5	14.0	5.5
Merged-chr8-71948869-3	chr8	71948804	71949004	+	656.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2162.0	NM_001164581	234413.0	Mm.334607	NM_001164581	ENSMUSG00000052446	Zfp961	A230105L22Rik|BC065788|mszf37|mszf55-2	zinc finger protein 961	protein-coding	4.5	1.0	9.5	60.5	23.0	10.0	6.5	6.5
Merged-chr7-7298730-4	chr7	7298603	7298803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_049193)	promoter-TSS (NR_049193)	133.0	NM_001302386	12727.0	Mm.297883	NM_011334	ENSMUSG00000000605	Clcn4	Clc4-2|Clcn4-2|clC-4	chloride channel, voltage-sensitive 4	protein-coding	247.0	332.5	386.0	2912.0	441.5	214.5	177.5	188.5
Merged-chr10-29206900-4	chr10	29206795	29206995	+	764.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4748.0	NM_001162537	212448.0	Mm.132789	NM_001162537	ENSMUSG00000004360	9330159F19Rik	-	RIKEN cDNA 9330159F19 gene	protein-coding	8.5	6.0	9.5	187.5	21.5	8.5	7.5	10.0
Merged-chr8-26907698-4	chr8	26907541	26907741	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69695.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	20.0	22.0	7.5	344.5	22.5	8.5	8.5	19.5
Merged-chr3-104524658-1	chr3	104524558	104524758	+	700.0	f0_balb.idr	Intergenic	Lx5c|LINE|L1	-12740.0	NM_001310698	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	8.0	5.0	7.5	138.0	12.5	4.0	3.5	3.5
Merged-chr3-105687612-4	chr3	105687513	105687713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017397)	promoter-TSS (NM_017397)	-42.0	NM_017397	53975.0	Mm.272826	NM_017397	ENSMUSG00000027905	Ddx20	GEMIN3|dp103	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	protein-coding	181.0	253.0	141.5	2065.5	435.5	195.0	190.5	197.5
Merged-chr16-57389839-4	chr16	57389731	57389931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	36554.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	55.5	84.0	77.0	1095.0	121.5	48.0	56.0	57.5
Merged-chr16-3892988-4	chr16	3892906	3893106	+	732.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290689, intron 1 of 5)	intron (NM_001290689, intron 1 of 5)	8387.0	NM_001290689	74763.0	Mm.28403	NM_029090	ENSMUSG00000005982	Naa60	1200013P24Rik|AI315146|HAT4|Nat15|NatF	N(alpha)-acetyltransferase 60, NatF catalytic subunit	protein-coding	17.0	6.0	9.5	121.5	27.5	9.0	9.0	8.0
Merged-chr1-183633799-2	chr1	183633603	183633803	+	892.333374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115274.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	0.0	0.0	0.0	8.0	15.0	6.0	7.0	10.5
Merged-chr6-43623636-3	chr6	43623535	43623735	+	955.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	Lx7|LINE|L1	42643.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	11.5	26.5	18.0	352.5	13.0	7.5	5.0	6.5
Merged-chr11-61267251-4	chr11	61267119	61267319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007437)	promoter-TSS (NM_007437)	-33.0	NM_007437	11671.0	Mm.398221	NM_007437	ENSMUSG00000010025	Aldh3a2	AI194803|Ahd-3|Ahd-3r|Ahd3|Ahd3-r|Aldh4|Aldh4-r|FALDH	aldehyde dehydrogenase family 3, subfamily A2	protein-coding	143.5	186.5	84.0	1635.0	319.5	109.0	108.0	145.0
Merged-chr19-5038333-4	chr19	5038220	5038420	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175383)	promoter-TSS (NM_175383)	-506.0	NM_175383	108902.0	Mm.29628	NM_175383	ENSMUSG00000047379	B4gat1	1500032M01Rik|B3gnt1|B3gnt6|BETA3GNT1|iGAT|iGNT	beta-1,4-glucuronyltransferase 1	protein-coding	24.5	32.0	8.5	181.0	34.5	7.5	8.5	13.0
Merged-chr4-105253310-2	chr4	105253210	105253410	+	767.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95963.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	5.5	5.5	4.5	15.5	17.5	5.0	2.5	3.5
Merged-chr15-53318158-3	chr15	53318057	53318257	+	823.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	28026.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	17.5	29.5	12.5	310.5	6.0	2.5	11.0	6.0
Merged-chr16-96081541-4	chr16	96081426	96081626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145125, intron 4 of 41)	intron (NM_145125, intron 4 of 41)	902.0	NM_001103179	93871.0	Mm.240871	NM_145125	ENSMUSG00000022914	Brwd1	5330419I02Rik|D530019K20Rik|G1-403-16|Wdr9|repro5	bromodomain and WD repeat domain containing 1	protein-coding	89.5	162.5	66.0	1042.0	282.0	66.0	93.5	105.0
Merged-chr2-90517307-3	chr2	90517209	90517409	+	740.688904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-38135.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	10.5	23.0	11.5	133.5	17.5	7.5	9.5	9.5
Merged-chr11-115579172-3	chr11	115579074	115579274	+	754.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002929, intron 11 of 18)	intron (NM_001002929, intron 11 of 18)	14730.0	NM_001002929	445007.0	Mm.4379	NM_001002929	ENSMUSG00000020739	Nup85	Pcnt1|frount	nucleoporin 85	protein-coding	3.5	10.5	1.0	61.5	28.0	5.0	14.5	15.5
Merged-chr16-38632242-3	chr16	38632150	38632350	+	772.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 3 of 11)	B3|SINE|B2	69436.0	NM_026407	67846.0	Mm.310476	NM_026407	ENSMUSG00000002845	Tmem39a	2610033C09Rik	transmembrane protein 39a	protein-coding	5.0	6.5	2.0	42.0	19.5	9.5	6.0	6.0
Merged-chr1-155051203-5	chr1	155051034	155051234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32130.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	20.0	25.5	18.0	313.0	57.0	18.5	20.5	24.5
Merged-chr15-80563839-4	chr15	80563738	80563938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER46C|DNA|TcMar-Tigger	-3368.0	NM_001163189	383075.0	Mm.297626	NM_001163189	ENSMUSG00000050439	Enthd1	Gm1242|Gm86	ENTH domain containing 1	protein-coding	27.5	40.0	18.0	421.0	59.5	21.0	29.0	19.5
Merged-chr4-83433064-4	chr4	83432969	83433169	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029949, intron 3 of 8)	intron (NM_029949, intron 3 of 8)	15345.0	NM_029949	77634.0	Mm.271985	NM_029949	ENSMUSG00000028483	Snapc3	1810020H02Rik|4930558A07Rik|5031401C21Rik|AI414457|E030018J20Rik	small nuclear RNA activating complex, polypeptide 3	protein-coding	15.5	32.0	30.5	454.5	15.5	8.5	25.5	16.5
Merged-chr2-119173008-3	chr2	119172902	119173102	+	889.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177157)	TTS (NM_177157)	-1507.0	NM_001039223	623781.0	Mm.389344	NM_001039223	ENSMUSG00000055926	Gm14137	-	predicted gene 14137	protein-coding	12.0	21.5	15.0	358.5	14.5	3.0	6.0	9.0
Merged-chr17-28709929-4	chr17	28709805	28710005	+	923.160706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	17337.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	9.5	15.0	7.5	200.5	27.0	11.0	2.0	7.0
Merged-chr14-45659083-4	chr14	45658973	45659173	+	871.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039106)	promoter-TSS (NM_001039106)	-930.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	2.5	11.0	8.5	151.5	31.0	4.5	18.0	10.5
Merged-chr8-61561588-4	chr8	61561487	61561687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	29582.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	41.5	71.5	37.5	479.5	105.5	24.5	44.0	34.0
Merged-chr5-21367671-4	chr5	21367568	21367768	+	927.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	-5005.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	13.5	25.0	7.0	209.5	61.0	12.5	17.5	24.0
Merged-chr17-37028350-1	chr17	37028250	37028450	+	629.0	f0_balb.idr	Intergenic	Intergenic	-4952.0	NM_010814	17441.0	Mm.210857	NM_010814	ENSMUSG00000076439	Mog	B230317G11Rik	myelin oligodendrocyte glycoprotein	protein-coding	8.5	6.5	5.0	116.5	13.5	6.5	8.5	6.5
Merged-chr4-59832973-2	chr4	59832859	59833059	+	597.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	intron (NM_172468, intron 1 of 8)	27309.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	5.0	8.0	6.5	118.5	3.5	6.5	5.0	2.5
Merged-chr5-21711686-4	chr5	21711591	21711791	+	878.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10069.0	NM_001359965	242864.0	Mm.153292	NM_178728	ENSMUSG00000044968	Napepld	A530089G06|Mbldc1|NAPE-PLD	N-acyl phosphatidylethanolamine phospholipase D	protein-coding	18.5	15.5	7.5	116.0	58.0	22.0	13.0	9.0
Merged-chr11-79623303-4	chr11	79623240	79623440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003283)	promoter-TSS (NR_003283)	-177.0	NR_003283	790912.0	Mm.447313	NR_003283	ENSMUSG00000087434	Rab11fip4os1	Gm11202	RAB11 family interacting protein 4 (class II), opposite strand 1	ncRNA	144.5	182.0	113.0	1447.0	307.5	134.0	97.5	87.0
Merged-chr8-124434561-4	chr8	124434453	124434653	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_171824)	promoter-TSS (NM_171824)	-617.0	NM_171824	209966.0	Mm.234233	NM_171824	ENSMUSG00000050751	Pgbd5	2900019M05Rik|AI854313	piggyBac transposable element derived 5	protein-coding	26.0	38.0	14.0	471.0	86.0	23.5	34.5	40.0
Merged-chr7-118764159-4	chr7	118764069	118764269	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 8 of 30)	RMER19B|LTR|ERVK	23898.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	39.0	61.5	37.5	602.5	30.0	18.5	22.5	16.0
Merged-chr8-85492497-4	chr8	85492441	85492641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173866)	promoter-TSS (NM_173866)	-76.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	44.5	97.5	57.5	901.0	124.0	61.0	76.0	63.0
Merged-chr2-75775399-4	chr2	75775293	75775493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56784.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	65.0	66.5	52.5	1063.0	122.5	31.5	71.5	67.0
Merged-chr5-118468243-3	chr5	118468153	118468353	+	878.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92466.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	19.5	14.5	22.0	162.0	18.0	2.0	7.5	5.0
Merged-chr16-58476546-4	chr16	58476468	58476668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	intron (NM_001357433, intron 6 of 10)	46858.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	103.0	117.5	120.0	1270.5	215.5	90.0	84.0	81.0
Merged-chr7-90017367-4	chr7	90017251	90017451	+	870.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	-11808.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	20.5	7.5	14.5	107.5	26.5	9.0	12.0	17.0
Merged-chr15-55072106-4	chr15	55072006	55072206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081288)	promoter-TSS (NM_001081288)	46.0	NM_001081288	319944.0	Mm.380957	NM_001081288	ENSMUSG00000037343	Taf2	150kDa|4732460C16Rik|AI425886|CIF150|TAF2B|TAFII-150|TAFII150	TATA-box binding protein associated factor 2	protein-coding	83.0	94.5	97.5	1326.0	142.5	70.0	88.5	86.5
Merged-chr10-111771525-4	chr10	111771423	111771623	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102853.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	23.5	25.5	24.5	520.0	41.5	10.0	34.0	20.0
Merged-chr7-99539454-4	chr7	99539317	99539517	+	947.107178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178220, intron 1 of 14)	intron (NM_178220, intron 1 of 14)	3931.0	NM_177231	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	9.0	14.0	20.5	108.5	27.0	9.0	4.5	5.5
Merged-chr12-44181443-3	chr12	44181331	44181531	+	967.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28637.0	NM_013760	27362.0	Mm.27432	NM_013760	ENSMUSG00000014905	Dnajb9	AA408011|AA673251|AA673481|AW556981|ERdj4|Mdg1|mDj7	DnaJ heat shock protein family (Hsp40) member B9	protein-coding	2.0	3.0	3.0	59.0	31.0	8.0	13.5	10.5
Merged-chr3-51046137-3	chr3	51046031	51046231	+	752.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-178316.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	5.0	11.0	7.5	280.0	2.0	0.0	3.0	5.5
Merged-chr11-6465319-3	chr11	6465205	6465405	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10771.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	5.0	4.0	1.5	9.5	108.5	36.5	20.0	28.0
Merged-chr16-21216198-4	chr16	21216088	21216288	+	839.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010143, intron 3 of 15)	intron (NM_010143, intron 3 of 15)	11393.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	2.0	14.5	7.5	168.5	22.0	13.5	17.0	12.5
Merged-chr1-170174334-4	chr1	170174264	170174464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133806, intron 1 of 10)	intron (NM_133806, intron 1 of 10)	600.0	NM_133806	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	17.0	35.5	18.0	253.0	58.5	15.0	23.0	30.5
Merged-chr11-115824040-4	chr11	115823963	115824163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145438)	promoter-TSS (NM_145438)	5.0	NM_001252532	217325.0	Mm.290450	NM_145438	ENSMUSG00000020782	Llgl2	9130006H11Rik|Llglh2	LLGL2 scribble cell polarity complex component	protein-coding	63.5	64.5	34.0	663.0	105.0	28.5	37.0	36.5
Merged-chr5-74312044-3	chr5	74311937	74312137	+	787.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	intron (NM_001114660, intron 5 of 8)	116711.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	13.5	26.0	12.0	211.5	3.5	2.0	5.0	2.0
Merged-chr15-62038992-5	chr15	62038839	62039039	+	825.617798	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132746)	promoter-TSS (NR_132746)	-318.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	4.0	7.5	6.0	100.0	22.0	6.0	7.0	9.5
Merged-chr9-22457643-3	chr9	22457587	22457787	+	788.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018739, intron 2 of 5)	intron (NM_018739, intron 2 of 5)	10669.0	NM_018739	55934.0	Mm.38235	NM_018739	ENSMUSG00000032239	Rp9	PAP-1|Rp9h	retinitis pigmentosa 9 (human)	protein-coding	5.0	4.0	8.0	70.0	8.5	11.0	11.5	10.0
Merged-chr9-61424447-4	chr9	61424342	61424542	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	52076.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	24.5	46.0	21.5	296.5	49.5	22.5	26.5	23.0
Merged-chr18-84590398-4	chr18	84590247	84590447	+	934.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033341)	promoter-TSS (NM_001033341)	-843.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	6.5	17.5	17.0	208.5	25.0	7.5	8.0	15.0
Merged-chr6-99540830-4	chr6	99540728	99540928	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19835.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	17.5	30.0	29.0	388.5	55.5	21.0	52.0	30.5
Merged-chr5-92091851-3	chr5	92091753	92091953	+	671.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-8109.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	9.0	15.0	13.5	105.5	24.0	8.5	9.0	14.5
Merged-chr11-101581437-7	chr11	101581311	101581511	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144830)	promoter-TSS (NM_144830)	-831.0	NM_001359326	217203.0	Mm.280559	NM_144830	ENSMUSG00000034947	Tmem106a	0610008L10Rik|AI043106|BC022145	transmembrane protein 106A	protein-coding	21.5	18.5	22.0	192.0	30.0	6.5	5.5	21.5
Merged-chr5-52386162-3	chr5	52386039	52386239	+	721.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256059, intron 10 of 11)	intron (NM_001256059, intron 10 of 11)	22335.0	NM_011435	20657.0	Mm.2407	NM_011435	ENSMUSG00000072941	Sod3	AI314465|EC-SOD	superoxide dismutase 3, extracellular	protein-coding	3.5	6.0	3.5	43.5	44.0	13.0	15.5	9.5
Merged-chr6-34781144-2	chr6	34781044	34781244	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178630, intron 1 of 18)	intron (NM_178630, intron 1 of 18)	712.0	NM_001289656	76223.0	Mm.150047	NM_178630	ENSMUSG00000038836	Agbl3	2900053G10Rik|4930431N21Rik|6530406M24Rik|CCP3	ATP/GTP binding protein-like 3	protein-coding	15.0	17.5	10.5	152.5	21.5	9.0	10.0	16.0
Merged-chr8-94365719-4	chr8	94365595	94365795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 24 of 24)	intron (NM_019415, intron 24 of 24)	-20734.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	187.5	282.0	284.0	2557.0	439.0	175.5	241.5	180.0
Merged-chr3-90085560-4	chr3	90085537	90085737	+	949.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357581, intron 1 of 8)	intron (NM_001357581, intron 1 of 8)	6116.0	NM_001293749	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	20.5	19.0	9.5	206.5	31.5	20.0	12.0	10.0
Merged-chr3-59260947-4	chr3	59260868	59261068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 32 of 43)	intron (NM_177855, intron 32 of 43)	2017.0	NM_027571	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	45.0	82.0	49.0	888.5	84.5	20.5	34.0	36.5
Merged-chr5-115051021-2	chr5	115050932	115051132	+	737.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029012, intron 1 of 10)	intron (NM_029012, intron 1 of 10)	39508.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	1.5	4.0	1.0	37.5	36.5	4.5	10.0	6.0
Merged-chr4-132422142-4	chr4	132422077	132422277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161797, intron 1 of 12)	CpG	269.0	NM_001161797	100169.0	Mm.158361	NM_175306	ENSMUSG00000066043	Phactr4	3110001B12Rik|AI527228|AW495572|C330013F19Rik|N28169|mKIAA4120	phosphatase and actin regulator 4	protein-coding	44.0	60.0	35.5	401.5	103.0	39.5	45.0	47.5
Merged-chr10-100015796-4	chr10	100015685	100015885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013598)	promoter-TSS (NM_013598)	-36.0	NM_001347156	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	51.5	61.0	27.5	807.0	99.0	45.5	41.5	23.0
Merged-chr3-52755124-4	chr3	52754994	52755194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038079, intron 1 of 3)	MIR|SINE|MIR	15370.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	28.5	59.0	72.5	906.5	228.5	76.5	88.0	75.5
Merged-chr17-83215770-7	chr17	83215706	83215906	+	947.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134117, exon 1 of 7)	exon (NM_134117, exon 1 of 7)	523.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	6.5	4.5	14.0	71.5	15.0	11.5	7.0	9.5
Merged-chr2-158107460-4	chr2	158107352	158107552	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15655.0	NR_040609	72340.0	Mm.443395	NR_040609	ENSMUSG00000100860	2010009K17Rik	-	RIKEN cDNA 2010009K17 gene	ncRNA	9.5	7.0	12.0	115.5	26.0	8.5	14.0	14.5
Merged-chr18-39141195-4	chr18	39141099	39141299	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 10 of 21)	MTD|LTR|ERVL-MaLR	148054.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	28.0	33.0	33.5	591.5	50.5	18.5	42.5	21.0
Merged-chr2-34108917-3	chr2	34108835	34109035	+	905.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1200.0	NR_130173	329387.0	Mm.125817	NR_130173	ENSMUSG00000087461	C230014O12Rik	-	RIKEN cDNA C230014O12 gene	ncRNA	5.0	11.0	6.5	150.0	30.5	3.5	8.0	8.0
Merged-chr11-32560222-4	chr11	32560134	32560334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	26968.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	38.5	40.0	48.5	864.5	65.5	9.0	15.0	18.5
Merged-chr9-111552053-4	chr9	111551933	111552133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112952.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	38.5	30.5	20.0	543.5	94.0	35.0	37.0	38.0
Merged-chr9-7569161-4	chr9	7569076	7569276	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008611)	TTS (NM_008611)	-2220.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	6.5	11.0	30.5	262.0	27.5	7.5	10.5	9.5
Merged-chr2-32167169-3	chr2	32167057	32167257	+	603.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172661, intron 1 of 29)	intron (NM_172661, intron 1 of 29)	16009.0	NM_001159634	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	8.5	8.0	9.0	138.0	10.0	3.5	2.0	3.0
Merged-chr8-104129964-3	chr8	104129870	104130070	+	669.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 6 of 11)	MTE2a|LTR|ERVL-MaLR	-24097.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	9.5	5.0	8.5	183.5	5.0	3.5	8.0	6.0
Merged-chr1-54557688-4	chr1	54557591	54557791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163314)	promoter-TSS (NM_001163314)	-7.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	67.0	68.0	43.0	720.5	151.5	50.0	56.5	53.0
Merged-chr10-78139221-3	chr10	78139077	78139277	+	862.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30591.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	1.5	7.5	0.5	56.0	7.0	7.0	9.0	6.0
Merged-chr3-40745996-1	chr3	40745896	40746096	+	1000.0	f0_c57.idr	intron (NM_011020, intron 1 of 18)	intron (NM_011020, intron 1 of 18)	383.0	NM_011020	18415.0	Mm.39330	NM_011020	ENSMUSG00000025757	Hspa4l	94kDa|AI461691|APG-1|Osp94	heat shock protein 4 like	protein-coding	16.5	16.0	22.5	307.5	40.0	19.0	17.0	24.5
Merged-chr10-94107362-4	chr10	94107257	94107457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 8 of 20)	intron (NM_053072, intron 8 of 20)	-40574.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	50.0	25.5	44.0	992.0	84.0	23.5	45.0	49.5
Merged-chr13-108044452-4	chr13	108044344	108044544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048250)	promoter-TSS (NM_001048250)	-30.0	NM_001048250	75616.0	Mm.491164	NM_001048250	ENSMUSG00000071180	Smim15	2810008M24Rik	small integral membrane protein 15	protein-coding	166.5	203.0	154.0	1884.5	427.0	141.0	180.5	145.0
Merged-chr4-151860774-2	chr4	151860683	151860883	+	946.666626	f0_balb.idr|f0_c57.idr	intron (NM_001081557, intron 1 of 23)	intron (NM_001081557, intron 1 of 23)	985.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	19.5	25.0	20.5	261.0	33.5	19.0	12.5	14.5
Merged-chr11-70865790-4	chr11	70865690	70865890	+	946.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291143, intron 2 of 18)	intron (NM_001291143, intron 2 of 18)	21029.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	17.5	25.0	2.5	63.5	56.0	18.0	5.0	7.5
Merged-chr10-19587849-4	chr10	19587744	19587944	+	902.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-4105.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	7.0	11.0	18.0	176.0	35.5	11.5	17.5	12.0
Merged-chr12-16866011-4	chr12	16865877	16866077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29001.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	50.5	95.0	49.5	1049.5	134.0	41.5	89.0	35.5
Merged-chr7-65650829-4	chr7	65650729	65650929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172310, intron 3 of 18)	URR1B|DNA|hAT-Charlie	5931.0	NM_172310	272396.0	Mm.35127	NM_172310	ENSMUSG00000030515	Tarsl2	A530046H20Rik	threonyl-tRNA synthetase-like 2	protein-coding	68.5	149.0	67.0	1319.0	193.0	86.5	71.5	83.0
Merged-chr9-31385593-2	chr9	31385493	31385693	+	804.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172766)	promoter-TSS (NM_172766)	-599.0	NM_172766	235134.0	Mm.238146	NM_172766	ENSMUSG00000042185	Nfrkb	A530090G11Rik	nuclear factor related to kappa B binding protein	protein-coding	5.0	4.5	5.0	28.5	8.5	1.0	1.5	3.0
Merged-chr1-140261358-4	chr1	140261265	140261465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081027, intron 1 of 27)	intron (NM_001081027, intron 1 of 27)	15108.0	NM_001081027	240776.0	Mm.483845	NM_001081027	ENSMUSG00000052726	Kcnt2	E330038N15Rik|Slick	potassium channel, subfamily T, member 2	protein-coding	26.0	46.5	32.5	303.5	20.5	18.0	20.5	6.5
Merged-chr11-103382081-4	chr11	103382002	103382202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 5 of 11)	intron (NM_183034, intron 5 of 11)	-18410.0	NM_001205236	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	118.0	144.5	122.0	1545.0	165.5	78.0	92.0	90.0
Merged-chr1-167337322-4	chr1	167337211	167337411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12680.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	35.0	79.0	64.5	892.0	110.0	41.0	36.5	41.0
Merged-chr5-123524255-4	chr5	123524153	123524353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023232)	promoter-TSS (NM_023232)	-89.0	NM_023232	66593.0	Mm.46716	NM_023232	ENSMUSG00000029433	Diablo	0610041G12Rik|1700006L01Rik|AU040403|Smac	diablo, IAP-binding mitochondrial protein	protein-coding	60.0	112.0	66.0	776.0	186.0	86.0	74.5	73.5
Merged-chr11-70970071-4	chr11	70969974	70970174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252413)	promoter-TSS (NM_001252413)	-101.0	NM_001276406	19069.0	Mm.288962	NM_172394	ENSMUSG00000040667	Nup88	Nup84|Prei2	nucleoporin 88	protein-coding	191.5	277.5	176.0	2214.5	439.5	155.5	216.0	193.5
Merged-chr14-8081434-3	chr14	8081342	8081542	+	802.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025938, intron 1 of 5)	RMER10A|LTR|ERVL	1129.0	NM_025938	67053.0	Mm.210048	NM_025938	ENSMUSG00000023156	Rpp14	2610511E03Rik|AA682089	ribonuclease P 14 subunit	protein-coding	6.0	8.0	4.5	124.0	18.5	5.0	2.5	5.0
Merged-chr7-90214712-2	chr7	90214612	90214812	+	940.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50720.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	8.5	2.0	8.5	74.5	17.0	10.5	9.5	8.5
Merged-chr2-103604397-4	chr2	103604280	103604480	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	38070.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	16.5	46.0	33.5	609.5	72.0	25.0	53.0	38.5
Merged-chr16-33348192-4	chr16	33348109	33348309	+	813.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32527.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	10.5	13.5	8.0	192.0	29.0	9.5	19.0	17.0
Merged-chr13-101548075-4	chr13	101547977	101548177	+	879.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33B|LTR|ERVL	144553.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	6.0	9.5	12.0	196.5	26.5	15.5	7.0	16.5
Merged-chr17-35202069-4	chr17	35201978	35202178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278601)	promoter-TSS (NM_001278601)	-71.0	NM_001278601	21926.0	Mm.1293	NM_013693	ENSMUSG00000024401	Tnf	DIF|TNF-a|TNF-alpha|TNFSF2|TNFalpha|Tnfa|Tnfsf1a|Tnlg1f	tumor necrosis factor	protein-coding	85.5	250.5	57.0	728.5	251.0	127.0	93.5	68.5
Merged-chr8-26118769-4	chr8	26118645	26118845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357292)	promoter-TSS (NM_001357292)	479.0	NM_207659	320191.0	Mm.334464	NM_207659	ENSMUSG00000037234	Hook3	5830454D03Rik|AI317159|E330005F07Rik	hook microtubule tethering protein 3	protein-coding	41.0	56.0	48.5	516.0	81.0	41.0	39.0	65.5
Merged-chr19-56713850-4	chr19	56713755	56713955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8517.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	79.5	181.0	131.0	1157.5	217.0	105.5	119.5	64.0
Merged-chr5-99252948-4	chr5	99252841	99253041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145839)	promoter-TSS (NM_145839)	-14.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	232.5	351.5	277.5	2652.0	730.0	270.5	303.0	271.0
Merged-chr11-120784663-2	chr11	120784563	120784763	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009053)	promoter-TSS (NM_009053)	148.0	NM_145370	209318.0	Mm.30195	NM_145370	ENSMUSG00000025156	Gps1	Cops1|Csn1|R75577|Sgn1	G protein pathway suppressor 1	protein-coding	5.5	8.0	12.0	78.5	17.0	5.5	8.0	10.0
Merged-chr2-168207453-4	chr2	168207357	168207557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009628)	promoter-TSS (NM_009628)	-345.0	NM_001310088	11538.0	Mm.201322	NM_009628	ENSMUSG00000051149	Adnp	AA589558|mKIAA0784	activity-dependent neuroprotective protein	protein-coding	120.0	218.5	118.0	1704.0	373.5	176.0	168.0	163.5
Merged-chr1-134081318-4	chr1	134081223	134081423	+	989.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2168.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	8.5	18.5	26.0	254.5	50.0	7.0	19.5	27.5
Merged-chr7-100009934-2	chr7	100009834	100010034	+	806.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291320)	promoter-TSS (NM_001291320)	16.0	NM_001291320	69121.0	Mm.285295	NM_133709	ENSMUSG00000030732	Chrdl2	1810022C01Rik|Chl2	chordin-like 2	protein-coding	6.0	6.0	5.0	42.5	11.5	1.0	5.0	9.5
Merged-chr16-38761594-4	chr16	38761513	38761713	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152434, intron 4 of 6)	ORR1F|LTR|ERVL-MaLR	19354.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	23.5	24.0	31.0	405.5	71.5	25.0	33.5	40.5
Merged-chr6-85432023-4	chr6	85431970	85432170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144918)	promoter-TSS (NM_144918)	94.0	NM_144918	232187.0	Mm.219946	NM_144918	ENSMUSG00000033706	Smyd5	AW536703|NN8-4AG|Rai15|Rrg1	SET and MYND domain containing 5	protein-coding	33.0	46.5	44.5	306.0	72.5	44.0	40.0	27.0
Merged-chr11-52231999-4	chr11	52231877	52232077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011543)	promoter-TSS (NM_011543)	-18.0	NM_011543	21402.0	Mm.42944	NM_011543	ENSMUSG00000036309	Skp1a	15kDa|2610043E24Rik|2610206H23Rik|EMC19|OCP-II|OCP2|SKP1|Tceb1l|p19A|p19Skp1	S-phase kinase-associated protein 1A	protein-coding	70.0	114.5	65.0	741.5	195.5	85.5	72.0	70.5
Merged-chr4-126110196-2	chr4	126110134	126110334	+	973.25	f0_balb.idr|f0_c57.idr	intron (NM_028800, intron 1 of 10)	intron (NM_028800, intron 1 of 10)	6277.0	NM_001145827	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	11.5	29.5	7.0	128.5	46.5	24.0	31.5	15.5
Merged-chr2-117352908-4	chr2	117352804	117353004	+	956.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10027.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	37.0	37.5	15.5	417.5	100.5	35.5	55.5	16.0
Merged-chr18-36735027-4	chr18	36734918	36735118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028036)	promoter-TSS (NM_028036)	-52.0	NM_028036	71983.0	Mm.135188	NM_028036	ENSMUSG00000006850	Tmco6	2410015B03Rik	transmembrane and coiled-coil domains 6	protein-coding	196.0	248.0	178.5	2813.5	454.5	161.0	195.0	212.5
Merged-chr5-64231005-4	chr5	64230882	64231082	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	intron (NM_001289514, intron 1 of 18)	625.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	8.0	33.0	17.0	176.5	37.5	10.5	11.0	17.0
Merged-chr5-24025131-2	chr5	24025026	24025226	+	884.1666869999999	f0_balb.idr|f1_balb.idr	intron (NM_053090, intron 1 of 10)	intron (NM_053090, intron 1 of 10)	5186.0	NM_001310471	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	9.0	18.0	17.0	234.0	2.0	1.5	1.0	1.0
Merged-chr10-94537278-4	chr10	94537171	94537371	+	852.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	B2_Mm1t|SINE|B2	-13601.0	NM_001359761	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	19.5	9.0	13.0	244.5	22.0	7.0	10.5	12.5
Merged-chr5-17854707-4	chr5	17854606	17854806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	-4914.0	NM_001159556	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	183.0	280.0	214.0	3623.0	358.0	138.5	180.0	151.0
Merged-chr10-12919456-4	chr10	12919364	12919564	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038028, intron 2 of 2)	intron (NR_038028, intron 2 of 2)	3663.0	NR_038027	320273.0	Mm.417706	NR_038027	ENSMUSG00000097378	B230208H11Rik	-	RIKEN cDNA B230208H11 gene	ncRNA	15.5	21.5	7.0	213.5	120.5	56.5	85.0	45.0
Merged-chr2-109230988-4	chr2	109230877	109231077	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029790, intron 2 of 5)	intron (NM_029790, intron 2 of 5)	47313.0	NM_029790	76894.0	Mm.330451	NM_029790	ENSMUSG00000057234	Mettl15	0610027B03Rik|AI303697|AW049952|Mett5d1	methyltransferase like 15	protein-coding	6.5	19.0	7.0	189.5	31.0	3.0	16.5	6.5
Merged-chr15-101266802-4	chr15	101266676	101266876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010444)	promoter-TSS (NM_010444)	-70.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	272.0	385.0	208.5	2882.5	796.5	304.5	356.5	328.0
Merged-chr2-129625211-4	chr2	129625107	129625307	+	963.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355158, intron 7 of 8)	intron (NM_001355158, intron 7 of 8)	29745.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	9.5	2.0	9.0	142.5	50.5	20.0	18.5	34.0
Merged-chr4-136031445-4	chr4	136031330	136031530	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9781.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	24.5	48.5	27.0	345.0	87.5	34.0	16.0	27.0
Merged-chr4-46277452-3	chr4	46277348	46277548	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66746.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	40.0	61.0	44.5	870.0	3.0	1.0	1.5	1.5
Merged-chr11-120579873-3	chr11	120579772	120579972	+	862.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133796, intron 3 of 5)	intron (NM_133796, intron 3 of 5)	1748.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	6.0	14.0	11.5	81.0	22.0	6.0	4.0	8.5
Merged-chr9-104337766-2	chr9	104337660	104337860	+	832.0	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019807)	promoter-TSS (NM_019807)	-38.0	NM_207668	56318.0	Mm.19941	NM_019807	ENSMUSG00000032561	Acpp	5'-NT|A030005E02Rik|FRAP|Lap|PAP|Ppal	acid phosphatase, prostate	protein-coding	21.0	18.5	5.5	304.5	11.5	7.5	5.5	11.0
Merged-chr10-17788681-4	chr10	17788597	17788797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-7522.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	91.0	189.5	83.0	567.5	348.0	119.0	96.5	74.0
Merged-chr8-70619030-4	chr8	70618921	70619121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153074, intron 2 of 2)	intron (NM_153074, intron 2 of 2)	2177.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	283.0	417.5	303.5	4204.5	626.0	248.5	262.0	283.5
Merged-chr17-73038682-4	chr17	73038568	73038768	+	960.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-69317.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	14.0	7.5	20.0	251.0	31.5	5.0	15.5	18.0
Merged-chr7-58844267-4	chr7	58844168	58844368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	186066.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	58.0	87.0	98.0	1633.0	83.5	29.0	28.0	31.0
Merged-chr11-93996831-4	chr11	93996696	93996896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027569, intron 1 of 28)	intron (NM_027569, intron 1 of 28)	705.0	NM_027569	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	65.5	142.0	71.5	900.0	171.5	67.0	75.5	58.0
Merged-chr5-114769727-3	chr5	114769632	114769832	+	918.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019834, exon 2 of 19)	exon (NM_019834, exon 2 of 19)	3759.0	NM_019834	26431.0	Mm.195632	NM_019834	ENSMUSG00000041890	Git2	1500036H07Rik|5830420E16Rik|6430510B20Rik|9630056M03Rik|B230104M05Rik|CAT2|mKIAA0148	G protein-coupled receptor kinase-interactor 2	protein-coding	12.0	20.5	9.5	248.5	19.5	7.0	9.5	1.0
Merged-chr9-107982823-4	chr9	107982710	107982910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023738, intron 21 of 23)	intron (NM_023738, intron 21 of 23)	3106.0	NM_026597	68176.0	Mm.76166	NM_026597	ENSMUSG00000042106	Fam212a	6230427J02Rik|Inka1	family with sequence similarity 212, member A	protein-coding	65.5	92.5	63.5	836.0	123.0	36.5	73.5	55.5
Merged-chr8-70549908-3	chr8	70549807	70550007	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	10232.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	56.5	42.5	57.0	583.0	8.5	4.0	2.5	1.0
Merged-chr10-82914287-3	chr10	82914185	82914385	+	742.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47659.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	4.5	5.0	14.5	112.5	6.0	1.5	0.5	6.5
Merged-chr13-44730617-4	chr13	44730519	44730719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205044)	promoter-TSS (NM_001205044)	-155.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	215.5	362.5	167.0	2828.0	548.0	187.0	292.5	178.0
Merged-chr12-25097330-4	chr12	25097225	25097425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1233.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	30.0	52.5	34.0	666.5	99.5	29.5	36.5	59.5
Merged-chr19-34194637-4	chr19	34194563	34194763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	(CA)n|Simple_repeat|Simple_repeat	1729.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	42.5	38.5	37.5	511.0	74.5	31.5	34.5	30.5
Merged-chr1-86516191-4	chr1	86516099	86516299	+	948.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10358.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	21.5	33.5	16.5	136.0	55.0	30.5	22.0	18.5
Merged-chr1-33876542-4	chr1	33876404	33876604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 3 of 6)	MIRb|SINE|MIR	31117.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	60.5	92.0	71.5	1097.5	137.5	73.5	60.5	49.0
Merged-chr14-70153641-6	chr14	70153525	70153725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001004155)	TTS (NM_001004155)	166.0	NM_146055	219158.0	Mm.218284	NM_146055	ENSMUSG00000033712	Ccar2	2610301G19Rik|Dbc1|mKIAA1967	cell cycle activator and apoptosis regulator 2	protein-coding	36.5	22.5	40.0	373.5	29.5	22.5	22.5	32.0
Merged-chr6-37223169-4	chr6	37223062	37223262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	76814.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	121.0	112.0	138.0	2038.5	262.0	97.0	137.5	143.5
Merged-chr4-123305968-4	chr4	123305859	123306059	+	717.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17720.0	NM_022033	64059.0	Mm.270287	NM_022033	ENSMUSG00000076436	Oxct2a	Oxct|Oxct2|Scot|Scot-t1	3-oxoacid CoA transferase 2A	protein-coding	3.5	21.5	21.0	112.5	22.0	7.5	9.5	9.5
Merged-chr18-75469245-3	chr18	75469158	75469358	+	912.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 10 of 11)	ORR1F|LTR|ERVL-MaLR	-45387.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	15.0	14.0	18.0	332.0	13.0	5.5	14.5	13.5
Merged-chr17-12210900-3	chr17	12210788	12210988	+	924.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 5 of 8)	intron (NM_026644, intron 5 of 8)	91604.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	8.5	11.5	7.0	144.0	19.0	6.0	4.0	14.5
Merged-chr11-54068936-2	chr11	54068836	54069036	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019417)	promoter-TSS (NM_019417)	81.0	NM_019417	30794.0	Mm.21830	NM_019417	ENSMUSG00000020388	Pdlim4	Ril	PDZ and LIM domain 4	protein-coding	16.5	13.0	6.5	104.0	12.5	9.0	8.5	10.5
Merged-chr1-152779238-4	chr1	152779152	152779352	+	973.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12710.0	NM_026369	67771.0	Mm.288974	NM_026369	ENSMUSG00000008475	Arpc5	5830443F10Rik|p16-Arc	actin related protein 2/3 complex, subunit 5	protein-coding	14.0	35.0	6.5	178.0	41.5	18.0	22.5	15.0
Merged-chr7-75571156-3	chr7	75571050	75571250	+	688.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 3 of 36)	intron (NM_029332, intron 3 of 36)	115616.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	5.5	5.5	12.0	187.5	15.0	3.0	4.0	11.0
Merged-chr3-9849979-4	chr3	9849878	9850078	+	974.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16299.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	8.5	22.0	27.0	354.5	58.0	18.0	18.0	21.0
Merged-chr2-156418571-4	chr2	156418475	156418675	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-2334.0	NM_001291122	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	8.0	7.5	19.5	280.0	11.0	8.5	13.5	13.0
Merged-chr18-69655651-3	chr18	69655539	69655739	+	927.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 14 of 19)	intron (NM_001361128, intron 14 of 19)	-269920.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	25.5	30.5	16.5	293.5	10.5	7.0	8.0	3.0
Merged-chr3-144586852-4	chr3	144586764	144586964	+	852.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053102, intron 2 of 4)	intron (NM_053102, intron 2 of 4)	16437.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	9.5	20.0	10.5	33.0	28.0	15.5	6.5	1.0
Merged-chr14-54392725-4	chr14	54392629	54392829	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	RSINE1|SINE|B4	16743.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	40.0	50.5	112.0	1451.5	40.0	6.5	10.0	17.5
Merged-chr2-45085814-4	chr2	45085697	45085897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355291, intron 2 of 9)	intron (NM_001355291, intron 2 of 9)	24480.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	133.0	279.5	127.0	1516.0	359.5	140.0	115.0	102.0
Merged-chr9-13536884-4	chr9	13536777	13536977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83112.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	61.0	177.0	71.0	1199.0	175.5	62.5	61.5	46.0
Merged-chr10-41477323-4	chr10	41477232	41477432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358838)	promoter-TSS (NM_001358838)	-678.0	NM_001358838	171580.0	Mm.290431	NM_138315	ENSMUSG00000019823	Mical1	MICAL|MICAL-1|Nical	microtubule associated monooxygenase, calponin and LIM domain containing 1	protein-coding	49.0	68.0	43.5	650.0	164.0	65.0	69.5	51.5
Merged-chr7-75794463-4	chr7	75794340	75794540	+	814.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-53898.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	10.5	10.0	16.5	156.5	36.5	7.5	11.5	10.5
Merged-chr11-115420545-2	chr11	115420445	115420645	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027862)	promoter-TSS (NM_027862)	419.0	NM_183285	70382.0	Mm.276299	NM_183285	ENSMUSG00000016940	Kctd2	2310012I15Rik	potassium channel tetramerisation domain containing 2	protein-coding	4.5	4.0	11.0	17.5	14.0	5.5	10.5	12.5
Merged-chr1-134556386-4	chr1	134556279	134556479	+	843.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3799.0	NM_152895	75605.0	Mm.28995	NM_152895	ENSMUSG00000042207	Kdm5b	2010009J12Rik|2210016I17Rik|AW556288|D1Ertd202e|Jarid1b|PLU-1|PUT1|Plu1|RBBP2H1A|Rb-Bp2|mKIAA4034	lysine (K)-specific demethylase 5B	protein-coding	7.5	9.5	3.0	131.5	22.5	7.5	7.0	8.5
Merged-chr2-71039883-4	chr2	71039769	71039969	+	932.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	intron (NM_145524, intron 1 of 9)	15737.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	10.5	7.0	14.5	274.5	39.0	9.0	20.0	20.0
Merged-chr6-48546439-1	chr6	48546339	48546539	+	644.0	f1_c57bl6.idr	Intergenic	Intergenic	-8360.0	NM_001110160	243371.0	Mm.290764	NM_177736	ENSMUSG00000073096	Lrrc61	BC027309	leucine rich repeat containing 61	protein-coding	5.5	5.0	4.5	100.0	22.0	3.0	4.0	2.5
Merged-chr8-91134118-4	chr8	91134020	91134220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302337)	promoter-TSS (NM_001302337)	-93.0	NM_001302268	14339.0	Mm.324588	NM_010241	ENSMUSG00000031667	Aktip	AL023020|Fif|Ft|Ft1|Fts	thymoma viral proto-oncogene 1 interacting protein	protein-coding	447.5	677.5	498.5	7282.0	1027.0	413.0	532.0	462.5
Merged-chr5-9107502-4	chr5	9107392	9107592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 2 of 4)	intron (NM_001081029, intron 2 of 4)	6755.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	39.5	62.0	44.0	757.5	79.5	37.5	36.0	40.5
Merged-chr1-128591469-2	chr1	128591375	128591575	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356509, intron 1 of 1)	CpG	824.0	NM_009911	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	11.5	19.5	19.0	174.0	24.5	6.0	4.5	18.5
Merged-chr9-7871285-4	chr9	7871167	7871367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	intron (NM_007464, intron 1 of 8)	1903.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	21.5	26.0	30.5	310.5	72.5	24.0	36.5	31.0
Merged-chr10-121429399-4	chr10	121429294	121429494	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	46856.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	73.0	43.0	54.0	856.0	66.5	14.5	21.0	43.0
Merged-chr5-31048404-7	chr5	31048312	31048512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177870)	promoter-TSS (NM_177870)	150.0	NM_001177621	330064.0	Mm.205463	NM_177870	ENSMUSG00000006641	Slc5a6	E430023I20	solute carrier family 5 (sodium-dependent vitamin transporter), member 6	protein-coding	58.5	101.5	96.5	818.0	117.0	71.5	45.5	69.5
Merged-chr15-78773533-4	chr15	78773436	78773636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008595)	promoter-TSS (NM_008595)	-91.0	NM_008595	17305.0	Mm.149235	NM_008595	ENSMUSG00000018169	Mfng	AW546563	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	51.0	44.0	20.0	337.0	107.5	39.0	61.5	56.5
Merged-chr6-54729948-4	chr6	54729846	54730046	+	962.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48322.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	19.0	43.0	22.5	107.5	60.0	28.0	22.0	24.0
Merged-chr2-72962342-3	chr2	72962230	72962430	+	737.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001018042, intron 4 of 6)	intron (NM_001018042, intron 4 of 6)	16951.0	NM_001098425	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	14.5	9.5	12.5	276.5	15.5	16.0	10.5	4.5
Merged-chr1-106643473-4	chr1	106643368	106643568	+	778.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009741, intron 1 of 1)	intron (NM_009741, intron 1 of 1)	70822.0	NM_009741	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	2.0	7.5	2.0	69.0	18.0	8.0	10.5	6.5
Merged-chr15-39771054-4	chr15	39770978	39771178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022722, intron 9 of 9)	intron (NM_022722, intron 9 of 9)	25148.0	NM_001289508	75766.0	Mm.159563	NM_029422	ENSMUSG00000022303	Dcstamp	4833414I07Rik|DC-STAMP|FIND|Tm7sf4|mDC-STAMP	dendrocyte expressed seven transmembrane protein	protein-coding	238.0	346.5	305.0	3930.5	548.0	190.5	327.0	236.0
Merged-chr11-16967966-4	chr11	16967823	16968023	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16513.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	18.5	24.5	8.5	286.0	28.5	13.0	10.0	9.0
Merged-chr7-110205055-4	chr7	110204969	110205169	+	787.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-16634.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	6.0	5.5	10.0	115.0	19.0	3.5	10.0	15.0
Merged-chr2-158145607-4	chr2	158145499	158145699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 1 of 12)	intron (NM_009373, intron 1 of 12)	793.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	147.0	381.5	246.5	2407.5	497.5	173.5	213.5	137.5
Merged-chr4-53150709-4	chr4	53150645	53150845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	9150.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	88.5	119.5	120.5	1517.5	250.5	73.5	130.5	104.5
Merged-chr4-137871119-3	chr4	137871026	137871226	+	878.2777710000001	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	L2|LINE|L2	8889.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	8.0	20.5	11.5	181.0	38.0	17.5	13.5	17.5
Merged-chr13-47043390-4	chr13	47043264	47043464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172262)	promoter-TSS (NM_172262)	-135.0	NM_172262	218214.0	Mm.31259	NM_172262	ENSMUSG00000038080	Kdm1b	4632428N09Rik|AI482520|Aof1	lysine (K)-specific demethylase 1B	protein-coding	380.0	606.5	387.5	3732.0	934.5	439.0	397.5	354.5
Merged-chr1-171038124-4	chr1	171038028	171038228	+	928.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	19202.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	13.0	18.5	6.5	89.0	58.0	13.0	13.5	21.0
Merged-chr6-70874597-4	chr6	70874483	70874683	+	845.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 2 of 16)	intron (NM_010121, intron 2 of 16)	30068.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	10.5	17.0	8.0	185.0	27.5	10.0	8.5	11.0
Merged-chr14-45092516-4	chr14	45092407	45092607	+	753.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104396.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	13.5	8.5	10.5	147.5	24.0	9.0	7.0	15.5
Merged-chr2-3475059-4	chr2	3474960	3475160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022724)	promoter-TSS (NM_022724)	-74.0	NR_027509	64707.0	Mm.23483	NM_022724	ENSMUSG00000026646	Suv39h2	4930507K23Rik|AA536750|D030054H19Rik|D2Ertd544e|KMT1B	suppressor of variegation 3-9 2	protein-coding	151.5	246.5	148.5	2396.0	412.5	141.0	228.5	165.5
Merged-chr6-115879908-4	chr6	115879779	115879979	+	961.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167763, intron 5 of 28)	intron (NM_001167763, intron 5 of 28)	26351.0	NM_031177	81896.0	Mm.333335	NM_031177	ENSMUSG00000030323	Ift122	C86139|Wdr10|sopb	intraflagellar transport 122	protein-coding	10.5	26.0	16.5	433.0	26.0	6.0	17.5	19.0
Merged-chr14-52019033-4	chr14	52018941	52019141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033805, intron 6 of 6)	intron (NM_001033805, intron 6 of 6)	672.0	NM_001253694	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	14.0	25.0	9.5	284.0	63.5	21.0	28.5	25.5
Merged-chr15-39737662-4	chr15	39737573	39737773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8257.0	NM_001289506	75766.0	Mm.159563	NM_029422	ENSMUSG00000022303	Dcstamp	4833414I07Rik|DC-STAMP|FIND|Tm7sf4|mDC-STAMP	dendrocyte expressed seven transmembrane protein	protein-coding	58.0	46.5	48.5	1162.0	96.0	48.5	64.5	55.5
Merged-chr3-105023551-4	chr3	105023435	105023635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	intron (NM_030249, intron 3 of 5)	29418.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	95.5	149.5	92.0	1463.5	246.5	90.0	139.5	127.5
Merged-chr17-71616131-4	chr17	71616008	71616208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175639)	promoter-TSS (NM_175639)	-107.0	NM_175639	72515.0	Mm.257762	NM_175639	ENSMUSG00000041057	Wdr43	2610318G08Rik|AU020887|AV024208|Wrd43|mKIAA0007	WD repeat domain 43	protein-coding	117.5	232.0	136.5	1992.5	377.5	170.5	179.0	126.5
Merged-chr16-28518359-1	chr16	28518259	28518459	+	1000.0	f1_balb.idr	intron (NM_010199, intron 2 of 5)	intron (NM_010199, intron 2 of 5)	46136.0	NM_001357064	14167.0	Mm.7996	NM_010199	ENSMUSG00000022523	Fgf12	AV114868|B230343J05Rik|FGF-12|FHF-1|Fhf1	fibroblast growth factor 12	protein-coding	11.5	11.0	11.5	167.0	4.0	3.0	1.0	5.0
Merged-chr4-139229405-3	chr4	139229293	139229493	+	796.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	35282.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	8.0	5.5	4.5	88.0	6.5	3.0	3.5	2.0
Merged-chr19-61266681-4	chr19	61266604	61266804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-38286.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	349.0	527.5	660.5	5396.0	829.5	329.0	341.5	483.5
Merged-chr3-88331486-3	chr3	88331382	88331582	+	812.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024246, intron 3 of 3)	intron (NM_024246, intron 3 of 3)	2951.0	NM_024246	71913.0	Mm.34256	NM_024246	ENSMUSG00000001420	Tmem79	2310042N02Rik|2310074C17Rik|Matt|ma	transmembrane protein 79	protein-coding	8.5	10.5	4.5	78.5	25.5	6.0	9.5	15.5
Merged-chr9-106685106-4	chr9	106684952	106685152	+	835.349976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104459, intron 1 of 4)	intron (NR_104459, intron 1 of 4)	764.0	NM_011573	21767.0	Mm.22266	NM_011573	ENSMUSG00000040813	Tex264	TEG-264	testis expressed gene 264	protein-coding	4.5	10.0	9.0	38.5	42.5	15.5	10.5	11.5
Merged-chr13-58590794-2	chr13	58590694	58590894	+	845.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_022317, intron 1 of 17)	B3|SINE|B2	20083.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	6.0	1.0	1.5	27.0	18.5	5.5	4.5	5.5
Merged-chr9-13574342-4	chr9	13574254	13574454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45635.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	27.0	35.5	41.0	595.0	54.0	20.0	24.5	35.0
Merged-chr4-48593047-4	chr4	48592957	48593157	+	944.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021436, intron 1 of 9)	intron (NM_021436, intron 1 of 9)	7883.0	NM_021436	230157.0	Mm.422686	NM_021436	ENSMUSG00000028347	Tmeff1	A830033E11|M7365|TR-1|Tr1	transmembrane protein with EGF-like and two follistatin-like domains 1	protein-coding	16.0	12.0	17.5	183.0	28.0	16.0	16.5	21.0
Merged-chr11-89021688-3	chr11	89021623	89021823	+	955.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	22320.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	15.5	18.5	12.5	221.0	17.0	7.0	3.5	0.5
Merged-chr18-39490900-4	chr18	39490795	39490995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3650.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	102.5	194.5	144.5	1777.0	330.0	93.5	124.5	136.5
Merged-chr18-50125816-4	chr18	50125703	50125903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2398.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	29.0	39.5	27.0	493.0	74.5	34.0	40.5	45.5
Merged-chr3-89773947-1	chr3	89773847	89774047	+	1000.0	f0_balb.idr	promoter-TSS (NR_130957)	promoter-TSS (NR_130957)	338.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	18.5	12.5	22.0	287.5	50.0	10.5	19.0	27.5
Merged-chr4-95106163-4	chr4	95106065	95106265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53943.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	137.5	172.0	168.5	3142.0	325.0	122.0	157.5	167.0
Merged-chr15-93387654-4	chr15	93387548	93387748	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347097, exon 7 of 8)	exon (NM_001347097, exon 7 of 8)	10686.0	NM_001347097	67197.0	Mm.293181	NM_026025	ENSMUSG00000022635	Zcrb1	2700088M22Rik|Madp-1	zinc finger CCHC-type and RNA binding motif 1	protein-coding	34.0	27.5	25.5	470.5	58.0	23.0	29.0	20.0
Merged-chr3-94456657-4	chr3	94456556	94456756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13320.0	NM_030116	78523.0	Mm.218515	NM_030116	ENSMUSG00000028140	Mrpl9	8030480E20Rik|AA409733|C330013D18Rik|L9mt	mitochondrial ribosomal protein L9	protein-coding	27.0	38.5	25.5	467.0	65.0	26.5	24.5	40.5
Merged-chr4-129585242-6	chr4	129585110	129585310	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6630.0	NM_182783	230766.0	Mm.20377	NM_182783	ENSMUSG00000050493	Fam167b	SEC	family with sequence similarity 167, member B	protein-coding	2.0	6.0	1.5	32.5	23.0	11.5	15.5	12.5
Merged-chr4-119167832-3	chr4	119167742	119167942	+	955.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6014.0	NM_001145935	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	1.0	13.0	1.0	31.5	30.5	16.5	26.5	21.5
Merged-chr17-24209104-5	chr17	24208984	24209184	+	865.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010947, exon 1 of 6)	5' UTR (NM_010947, exon 1 of 6)	303.0	NM_010947	18209.0	Mm.259542	NM_010947	ENSMUSG00000036473	Ntn3	Ntn2l	netrin 3	protein-coding	4.5	6.0	4.5	110.0	23.5	11.5	7.0	13.5
Merged-chr5-92099576-4	chr5	92099516	92099716	+	794.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-15872.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	4.5	10.5	9.5	92.5	25.0	11.5	9.5	10.5
Merged-chr19-24990616-4	chr19	24990510	24990710	+	981.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8919.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	34.0	19.0	18.0	362.0	51.0	33.0	30.5	29.0
Merged-chr6-52640334-4	chr6	52640179	52640379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145567)	promoter-TSS (NM_145567)	21.0	NM_145567	58875.0	Mm.286458	NM_145567	ENSMUSG00000029776	Hibadh	6430402H10Rik|AI265272	3-hydroxyisobutyrate dehydrogenase	protein-coding	185.0	226.5	151.5	2253.0	296.0	157.5	166.5	142.5
Merged-chr12-110696449-4	chr12	110696339	110696539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010480)	promoter-TSS (NM_010480)	-44.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	238.0	403.5	165.5	2424.0	533.5	281.0	226.5	201.0
Merged-chr14-20825102-4	chr14	20825003	20825203	+	926.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-11559.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	18.0	31.5	10.0	154.0	56.0	18.0	12.5	15.5
Merged-chr10-62865393-4	chr10	62865287	62865487	+	680.354187	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253857, intron 2 of 12)	intron (NM_001253857, intron 2 of 12)	21937.0	NM_001253857	52463.0	Mm.17774	NM_027384	ENSMUSG00000047146	Tet1	2510010B09Rik|AA517754|BB001228|Cxxc6|D10Ertd17e|LCX|mKIAA1676	tet methylcytosine dioxygenase 1	protein-coding	4.0	14.0	6.5	87.0	6.5	9.0	4.5	5.0
Merged-chr11-118455716-5	chr11	118455659	118455859	+	886.8599849999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045902)	promoter-TSS (NR_045902)	-764.0	NR_045902	100126224.0	Mm.441989	NR_045902	ENSMUSG00000086514	Gm11747	-	predicted gene 11747	ncRNA	5.0	7.0	9.5	64.5	21.0	5.0	1.5	3.0
Merged-chr5-36989086-4	chr5	36988974	36989174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011716)	promoter-TSS (NM_011716)	-92.0	NM_011716	22393.0	Mm.20916	NM_011716	ENSMUSG00000039474	Wfs1	AI481085|wolframin	wolframin ER transmembrane glycoprotein	protein-coding	341.5	479.5	318.5	5604.0	650.5	291.5	366.5	322.0
Merged-chr13-101740179-4	chr13	101740072	101740272	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	28045.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	16.0	28.0	15.0	171.0	35.0	16.5	13.5	21.5
Merged-chr8-18564815-4	chr8	18564715	18564915	+	991.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30316.0	NM_173189	244329.0	Mm.235296	NM_173189	ENSMUSG00000039842	Mcph1	5430437K10Rik|BRIT1|D030046N04Rik|MCT|Tg(HLA-A2.1)1Enge	microcephaly, primary autosomal recessive 1	protein-coding	37.5	31.0	34.5	837.5	31.5	25.5	22.0	34.5
Merged-chr7-25279441-4	chr7	25279353	25279553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302811, intron 2 of 20)	intron (NM_001302811, intron 2 of 20)	-2726.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	55.5	68.5	54.5	1067.5	193.0	75.5	79.0	79.5
Merged-chr9-32695975-4	chr9	32695856	32696056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011808)	promoter-TSS (NM_011808)	-86.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	166.0	223.5	177.0	3000.0	413.5	151.5	205.5	170.0
Merged-chr7-127184987-4	chr7	127184882	127185082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11095.0	NM_001285907	70233.0	Mm.28050	NM_027353	ENSMUSG00000042502	Cd2bp2	1500011B02Rik|2410024K20Rik|AW048183	CD2 antigen (cytoplasmic tail) binding protein 2	protein-coding	27.0	83.5	32.5	301.0	114.0	47.5	26.0	45.0
Merged-chr5-62765904-4	chr5	62765795	62765995	+	964.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178407, exon 1 of 33)	5' UTR (NM_178407, exon 1 of 33)	282.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	21.5	19.0	28.5	169.0	49.5	16.5	21.5	17.5
Merged-chr10-118121251-4	chr10	118121151	118121351	+	966.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20536.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	17.0	30.5	15.0	296.5	41.5	12.0	34.5	17.0
Merged-chr4-11190734-4	chr4	11190641	11190841	+	925.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009830)	promoter-TSS (NM_009830)	-610.0	NM_001037134	12448.0	Mm.35867	NM_009830	ENSMUSG00000028212	Ccne2	-	cyclin E2	protein-coding	13.0	12.5	13.5	160.5	41.5	14.5	26.5	6.5
Merged-chr10-117874158-4	chr10	117874073	117874273	+	921.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-28199.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	15.0	9.0	16.0	173.5	14.5	5.5	16.0	16.0
Merged-chr1-64338775-4	chr1	64338661	64338861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-194043.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	52.0	83.0	54.5	839.5	59.0	35.5	29.0	48.0
Merged-chr7-80081361-3	chr7	80081228	80081428	+	894.31665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146000, exon 2 of 6)	exon (NM_001146000, exon 2 of 6)	-6071.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	11.0	9.5	8.0	132.5	4.5	5.0	5.0	7.5
Merged-chr6-116077888-1	chr6	116077788	116077988	+	745.0	f0_balb.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	-82883.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	6.0	13.5	7.5	104.0	5.5	1.0	1.5	5.5
Merged-chr16-52044253-2	chr16	52044153	52044353	+	560.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 2 of 17)	intron (NM_001033238, intron 2 of 17)	12704.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	5.5	14.5	7.0	27.0	17.5	3.0	0.5	4.0
Merged-chr7-45362947-3	chr7	45362872	45363072	+	903.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029741, intron 1 of 29)	intron (NM_029741, intron 1 of 29)	-3189.0	NR_015480	50994.0	Mm.389897	NM_016664	ENSMUSG00000091510	Mtag2	MAG	metastasis associated gene 2	ncRNA	4.0	12.5	0.5	40.0	35.5	9.0	5.5	7.5
Merged-chr7-58829352-4	chr7	58829279	58829479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009728)	TTS (NM_009728)	171177.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	37.0	39.5	20.5	405.0	45.0	19.0	23.0	29.5
Merged-chr15-96770585-1	chr15	96770485	96770685	+	679.0	f0_balb.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-70857.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	11.0	5.5	8.5	88.5	18.5	2.0	6.0	2.5
Merged-chr5-105649950-5	chr5	105649873	105650073	+	743.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49996.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	11.5	7.0	4.0	89.5	36.0	20.5	34.0	41.0
Merged-chr2-35338619-3	chr2	35338557	35338757	+	824.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1648.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	5.5	17.5	8.0	149.5	35.0	7.5	8.5	9.0
Merged-chr5-25760032-4	chr5	25759957	25760157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310504)	promoter-TSS (NM_001310504)	84.0	NM_001004365	242894.0	Mm.150319	NM_001004365	ENSMUSG00000056367	Actr3b	9630005C02|ARP11|AW047569|Arp3b|Arp3beta	ARP3 actin-related protein 3B	protein-coding	31.5	77.0	80.0	579.5	79.0	46.5	42.0	48.5
Merged-chr10-118141745-4	chr10	118141638	118141838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010785)	promoter-TSS (NM_010785)	-49.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	363.5	576.5	418.0	6138.0	902.5	369.0	450.0	360.0
Merged-chr1-172203759-3	chr1	172203650	172203850	+	665.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329871, intron 1 of 3)	intron (NM_001329871, intron 1 of 3)	3054.0	NM_001329871	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	5.5	6.0	8.5	186.5	10.5	2.5	9.5	8.5
Merged-chr12-12262766-2	chr12	12262666	12262866	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	627.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	4.5	7.5	7.0	92.0	9.5	5.5	5.5	9.5
Merged-chr14-103011946-4	chr14	103011727	103011927	+	906.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	L1MA6|LINE|L1	21976.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	8.5	3.5	2.5	19.0	25.0	8.0	7.5	4.5
Merged-chr6-129388368-4	chr6	129388253	129388453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2479.0	NM_001204223	71183.0	Mm.79402	NM_027709	ENSMUSG00000030158	Clec12b	4933425B16Rik	C-type lectin domain family 12, member B	protein-coding	52.5	45.0	62.5	1026.0	48.0	16.0	38.0	27.5
Merged-chr4-59009333-4	chr4	59009232	59009432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033165, intron 1 of 3)	intron (NM_001033165, intron 1 of 3)	6139.0	NM_001033165	72429.0	Mm.317801	NM_001033165	ENSMUSG00000070972	Dnajc25	2010109C08Rik|2010203O07Rik	DnaJ heat shock protein family (Hsp40) member C25	protein-coding	37.0	85.0	59.0	874.0	93.0	27.5	22.0	41.0
Merged-chr13-115130320-3	chr13	115130222	115130422	+	607.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28358.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	4.5	5.5	0.5	75.0	12.0	6.5	6.0	5.5
Merged-chr17-29008130-4	chr17	29008032	29008232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134115)	promoter-TSS (NM_134115)	-137.0	NM_001357173	106504.0	Mm.439986	NM_134115	ENSMUSG00000024006	Stk38	5830476G13Rik|9530097A09Rik|AA617404|Ndr1	serine/threonine kinase 38	protein-coding	127.5	255.0	111.5	1388.5	390.0	140.0	135.0	111.0
Merged-chr10-59222684-4	chr10	59222587	59222787	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024911)	promoter-TSS (NM_001024911)	765.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	11.5	47.5	42.5	173.5	90.0	34.5	40.0	23.0
Merged-chr8-71511863-4	chr8	71511780	71511980	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032398)	promoter-TSS (NM_032398)	-111.0	NM_032398	84094.0	Mm.260768	NM_032398	ENSMUSG00000034845	Plvap	MECA32|Pv1	plasmalemma vesicle associated protein	protein-coding	3.5	31.0	10.0	231.5	30.0	11.0	15.5	8.0
Merged-chr17-23967207-4	chr17	23967115	23967315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8015.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	222.5	396.0	311.0	3519.0	519.5	202.5	264.5	226.0
Merged-chr13-101763217-6	chr13	101763149	101763349	+	775.680542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 1 of 15)	intron (NM_001077495, intron 1 of 15)	4968.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	8.5	9.0	13.0	88.0	28.0	4.0	9.0	9.5
Merged-chr15-78599341-4	chr15	78599234	78599434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028195, intron 1 of 12)	intron (NM_028195, intron 1 of 12)	2287.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	46.5	83.5	38.0	885.0	89.5	33.0	25.5	33.5
Merged-chr13-92678741-4	chr13	92678638	92678838	+	726.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 2 of 11)	intron (NM_172588, intron 2 of 11)	67600.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	10.0	15.5	6.0	107.0	20.5	8.5	9.5	4.0
Merged-chr7-12921822-4	chr7	12921743	12921943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009095)	promoter-TSS (NM_009095)	-468.0	NM_009095	20103.0	Mm.5291	NM_009095	ENSMUSG00000012848	Rps5	AA617411	ribosomal protein S5	protein-coding	106.0	174.0	79.5	1353.5	207.5	98.5	100.5	104.0
Merged-chr8-71487858-4	chr8	71487757	71487957	+	969.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032544)	promoter-TSS (NM_032544)	-246.0	NM_032544	70359.0	Mm.142112	NM_032544	ENSMUSG00000007610	Gtpbp3	2410009F13Rik|AI607903	GTP binding protein 3	protein-coding	17.0	17.5	12.0	231.0	37.5	26.5	26.0	28.0
Merged-chr2-58759799-2	chr2	58759699	58759899	+	751.916687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 2 of 7)	MER5A1|DNA|hAT-Charlie	4615.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	3.5	6.5	2.5	141.0	15.0	5.0	11.5	9.5
Merged-chr8-25840765-4	chr8	25840680	25840880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011791)	promoter-TSS (NM_011791)	7.0	NM_001359012	23808.0	Mm.27706	NM_011791	ENSMUSG00000031575	Ash2l	-	ASH2 like histone lysine methyltransferase complex subunit	protein-coding	71.0	68.5	37.0	740.5	139.0	73.5	66.0	53.5
Merged-chr3-146445713-4	chr3	146445618	146445818	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-4749.0	NM_028836	74245.0	Mm.45396	NM_028836	ENSMUSG00000028189	Ctbs	2210401K11Rik|CTB	chitobiase, di-N-acetyl-	protein-coding	26.5	30.0	27.0	386.5	23.5	12.5	19.0	16.5
Merged-chr17-29773525-4	chr17	29773423	29773623	+	878.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56506.0	NM_001163741	68597.0	Mm.390979	NM_026782	ENSMUSG00000024018	Ccdc167	1110021J02Rik	coiled-coil domain containing 167	protein-coding	12.0	17.0	8.0	82.0	41.5	10.5	21.0	9.5
Merged-chr5-107853960-3	chr5	107853863	107854063	+	715.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 1 of 17)	ORR1D1-int|LTR|ERVL-MaLR	21144.0	NM_007964	14020.0	Mm.35796	NM_007964	ENSMUSG00000011831	Evi5	NB4S	ecotropic viral integration site 5	protein-coding	7.0	4.5	12.0	137.5	20.5	6.5	2.0	7.5
Merged-chr3-10077320-4	chr3	10077195	10077395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10982.0	NR_045710	100041480.0	Mm.455632	NR_045710	ENSMUSG00000049230	Gm9833	-	myelin basic protein expression factor 2, repressor pseudogene	pseudo	26.5	80.5	30.0	398.5	53.5	29.5	31.0	29.0
Merged-chr15-79753202-4	chr15	79753092	79753292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045069, exon 4 of 4)	non-coding (NR_045069, exon 4 of 4)	10494.0	NR_045069	100504191.0	Mm.421420	NR_045069	ENSMUSG00000087543	Gm16576	-	predicted gene 16576	ncRNA	23.5	52.0	30.0	310.0	47.5	16.5	8.0	5.5
Merged-chr17-31996435-2	chr17	31996335	31996535	+	835.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_028902, intron 6 of 7)	intron (NM_028902, intron 6 of 7)	38073.0	NM_028902	74377.0	Mm.75856	NM_028902	ENSMUSG00000002076	Hsf2bp	4932437G14Rik	heat shock transcription factor 2 binding protein	protein-coding	7.5	11.0	6.5	63.0	3.0	2.0	3.5	8.5
Merged-chr1-178330752-4	chr1	178330590	178330790	+	869.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016805, exon 11 of 14)	exon (NM_016805, exon 11 of 14)	7125.0	NM_016805	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	9.0	6.5	4.5	122.0	19.0	10.0	10.5	7.0
Merged-chr18-60963681-2	chr18	60963581	60963781	+	764.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009792, exon 1 of 7)	5' UTR (NM_009792, exon 1 of 7)	127.0	NM_001286809	12322.0	Mm.131530	NM_009792	ENSMUSG00000024617	Camk2a	CaMKII|R74975|mKIAA0968	calcium/calmodulin-dependent protein kinase II alpha	protein-coding	6.5	10.5	6.0	19.5	9.5	0.5	4.5	1.0
Merged-chr3-58690739-4	chr3	58690637	58690837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009174, intron 1 of 1)	intron (NM_009174, intron 1 of 1)	1651.0	NM_009174	20439.0	Mm.2847	NM_009174	ENSMUSG00000036432	Siah2	AA415433|Sinh2	siah E3 ubiquitin protein ligase 2	protein-coding	92.0	96.5	86.5	1685.0	203.0	79.0	100.5	90.5
Merged-chr10-20076960-4	chr10	20076850	20077050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 12 of 29)	intron (NM_008580, intron 12 of 29)	-71970.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	42.5	86.0	40.5	487.5	87.5	32.0	32.5	29.5
Merged-chr13-32902707-3	chr13	32902601	32902801	+	780.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-4561.0	NM_173051	380839.0	Mm.250802	NM_173051	ENSMUSG00000079049	Serpinb1c	EIC|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1c	protein-coding	12.0	3.0	6.5	126.0	17.0	5.0	6.0	12.5
Merged-chr5-21055464-4	chr5	21055327	21055527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	CpG	484.0	NM_001356591	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	20.5	37.5	37.0	267.5	52.0	18.0	34.5	40.5
Merged-chr10-99467556-8	chr10	99467466	99467666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141605.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	11.5	19.5	36.5	210.0	42.5	24.0	9.5	22.0
Merged-chr19-53312663-4	chr19	53312529	53312729	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	intron (NM_001360348, intron 1 of 5)	1184.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	22.0	21.5	18.5	152.5	32.0	22.0	15.5	22.5
Merged-chr9-22131297-4	chr9	22131182	22131382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007388)	promoter-TSS (NM_007388)	583.0	NM_001102404	11433.0	Mm.46354	NM_007388	ENSMUSG00000001348	Acp5	TRACP|TRAP	acid phosphatase 5, tartrate resistant	protein-coding	32.0	66.0	41.5	354.0	69.5	39.0	23.5	30.5
Merged-chr11-17051740-6	chr11	17051640	17051840	+	881.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029861)	promoter-TSS (NM_029861)	-194.0	NM_029861	380686.0	Mm.425666	NM_029861	ENSMUSG00000044629	Cnrip1	1500041B16Rik|3110054C06Rik|5330437A18Rik|AI854501|C2orf32	cannabinoid receptor interacting protein 1	protein-coding	12.0	12.0	11.5	170.0	24.5	7.5	14.5	10.5
Merged-chr11-86739133-4	chr11	86739034	86739234	+	871.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	intron (NM_001003908, intron 1 of 31)	18433.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	14.5	17.0	14.5	125.0	37.5	10.0	8.0	12.0
Merged-chr1-95762411-4	chr1	95762302	95762502	+	927.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45884.0	NR_040479	75381.0	Mm.417807	NR_040479	ENSMUSG00000100777	4930598F16Rik	-	RIKEN cDNA 4930598F16 gene	ncRNA	12.0	16.5	7.0	264.0	44.5	19.0	15.5	16.0
Merged-chr7-80346402-3	chr7	80346302	80346502	+	915.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026812)	TTS (NM_026812)	3265.0	NM_026812	68695.0	Mm.21171	NM_026812	ENSMUSG00000030532	Hddc3	1110033O09Rik|C86475|MESH1	HD domain containing 3	protein-coding	12.5	15.5	7.0	164.5	3.0	3.0	1.5	3.0
Merged-chr16-89960603-2	chr16	89960503	89960703	+	797.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001145886, intron 1 of 27)	intron (NM_001145886, intron 1 of 27)	224.0	NM_009384	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	7.0	5.0	10.0	53.0	8.5	6.0	0.5	4.0
Merged-chr5-67327433-4	chr5	67327334	67327534	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178651, intron 4 of 17)	intron (NM_178651, intron 4 of 17)	20479.0	NM_001310629	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	17.0	47.0	38.5	491.0	98.5	18.5	27.0	36.0
Merged-chr4-117536009-4	chr4	117535897	117536097	+	942.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14327.0	NM_001356404	140546.0	Mm.235891	NM_080469	ENSMUSG00000033423	Eri3	PINT1|Prnpip1	exoribonuclease 3	protein-coding	6.5	18.5	17.5	169.0	45.5	12.5	16.0	12.5
Merged-chr12-85959606-4	chr12	85959491	85959691	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	119450.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	7.5	26.0	15.0	218.5	58.5	7.5	22.5	5.0
Merged-chr6-135250801-3	chr6	135250691	135250891	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080553, intron 1 of 5)	(A)n|Simple_repeat|Simple_repeat	-2907.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	8.5	7.0	26.0	231.5	5.0	2.0	0.5	2.0
Merged-chr7-120865201-3	chr7	120865132	120865332	+	808.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 2 of 17)	intron (NM_001267710, intron 2 of 17)	14043.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	8.5	9.0	6.5	118.5	9.5	1.0	4.0	4.5
Merged-chr5-115187996-4	chr5	115187912	115188112	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310712, intron 1 of 5)	intron (NM_001310712, intron 1 of 5)	-1891.0	NM_001310715	29867.0	Mm.38551	NM_013879	ENSMUSG00000029544	Cabp1	caldendrin	calcium binding protein 1	protein-coding	34.0	54.0	30.0	355.0	86.5	15.0	24.0	27.5
Merged-chr16-94724421-4	chr16	94724236	94724436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112917.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	49.0	67.5	46.5	601.0	62.0	30.0	40.5	48.0
Merged-chr15-76702157-4	chr15	76702068	76702268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027122, exon 1 of 5)	exon (NM_027122, exon 1 of 5)	626.0	NM_027122	69572.0	Mm.34920	NM_027122	ENSMUSG00000019080	Mfsd3	2310010G13Rik	major facilitator superfamily domain containing 3	protein-coding	24.0	31.0	20.0	302.0	66.5	27.0	42.0	21.0
Merged-chr12-31944031-4	chr12	31943925	31944125	+	845.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177993, intron 1 of 8)	intron (NM_177993, intron 1 of 8)	6220.0	NM_177993	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	9.0	6.5	8.0	126.5	34.0	11.5	6.5	9.5
Merged-chr7-59163092-3	chr7	59162996	59163196	+	886.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-65654.0	NM_001033962	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	12.0	13.5	12.5	102.5	33.5	9.0	9.5	3.0
Merged-chr2-144642166-3	chr2	144642076	144642276	+	834.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	intron (NM_025314, intron 4 of 5)	42223.0	NM_025314	66044.0	Mm.28109	NM_025314	ENSMUSG00000027430	Dtd1	0610006H08Rik|DTD|DUE-B|Hars2	D-tyrosyl-tRNA deacylase 1	protein-coding	10.0	15.0	5.5	226.0	13.5	3.0	4.5	9.5
Merged-chr13-45962100-2	chr13	45962000	45962200	+	857.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 1 of 6)	intron (NM_001199304, intron 1 of 6)	2891.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	3.5	14.0	1.5	15.5	9.0	5.5	8.0	4.5
Merged-chr12-87470466-4	chr12	87470405	87470605	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025507, intron 1 of 13)	MTB_Mm|LTR|ERVL-MaLR	1794.0	NM_025507	66354.0	Mm.271174	NM_025507	ENSMUSG00000021039	Snw1	2310008B08Rik|AW048543|NCoA-62|SKIP|Skiip	SNW domain containing 1	protein-coding	14.5	20.5	13.5	173.0	31.0	16.5	19.0	13.0
Merged-chr13-112990625-3	chr13	112990515	112990715	+	935.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081062, exon 3 of 3)	3' UTR (NM_001081062, exon 3 of 3)	2813.0	NM_001081062	218630.0	Mm.25457	NM_001081062	ENSMUSG00000042417	Ccno	C86987|Ccnu|E130318K11|UDG2|Ung2	cyclin O	protein-coding	11.5	16.0	13.5	156.5	13.0	8.5	14.0	5.0
Merged-chr2-167015294-4	chr2	167015207	167015407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153065)	promoter-TSS (NM_153065)	-6.0	NM_153065	228889.0	Mm.295031	NM_153065	ENSMUSG00000017999	Ddx27	C86129	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	protein-coding	61.5	72.5	24.5	635.0	106.5	56.0	23.5	38.5
Merged-chr19-24953839-1	chr19	24953739	24953939	+	623.0	f0_c57.idr	intron (NM_146097, intron 3 of 14)	intron (NM_146097, intron 3 of 14)	7777.0	NR_033744	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	0.0	0.0	0.0	5.5	23.0	5.0	4.5	11.5
Merged-chr15-103305304-4	chr15	103305204	103305404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	5134.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	196.5	298.0	155.5	2293.5	547.0	220.0	197.0	211.0
Merged-chr10-128176658-4	chr10	128176560	128176760	+	980.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019711)	promoter-TSS (NM_019711)	-92.0	NM_019711	56516.0	Mm.42247	NM_019711	ENSMUSG00000040043	Rbms2	2610315E04Rik|Scr3	RNA binding motif, single stranded interacting protein 2	protein-coding	31.5	30.0	21.5	321.0	72.5	15.0	20.5	22.5
Merged-chr5-124493641-4	chr5	124493590	124493790	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021430, exon 7 of 7)	3' UTR (NM_021430, exon 7 of 7)	10535.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	25.0	20.5	20.0	235.0	30.5	17.0	6.0	15.5
Merged-chr5-139460621-4	chr5	139460519	139460719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028469)	promoter-TSS (NM_028469)	-85.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	108.0	175.0	48.5	1153.0	319.5	109.5	92.5	98.5
Merged-chr5-123884620-4	chr5	123884529	123884729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4609.0	NM_175520	243270.0	Mm.33362	NM_175520	ENSMUSG00000049241	Hcar1	Gpr81	hydrocarboxylic acid receptor 1	protein-coding	73.5	113.0	51.5	761.0	195.5	65.0	49.0	96.5
Merged-chr1-166268509-2	chr1	166268409	166268609	+	892.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357432, intron 1 of 8)	intron (NM_001357432, intron 1 of 8)	14370.0	NM_001357428	100039795.0	Mm.101743	NM_001164528	ENSMUSG00000040612	Ildr2	2810478N18Rik|3110063L10Rik|AI852300|D1Ertd471e|Dbsm1|Ll	immunoglobulin-like domain containing receptor 2	protein-coding	6.5	7.0	6.5	136.5	17.5	1.0	10.0	8.5
Merged-chr17-84141087-4	chr17	84141068	84141268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46779.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	35.0	57.0	69.0	607.5	47.5	31.0	28.0	24.5
Merged-chr9-45417451-4	chr9	45417344	45417544	+	988.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040732, intron 4 of 4)	intron (NR_040732, intron 4 of 4)	11367.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	24.0	35.5	21.5	168.5	61.5	22.5	33.0	18.0
Merged-chr17-86168786-3	chr17	86168676	86168876	+	894.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011104, exon 1 of 15)	exon (NM_011104, exon 1 of 15)	991.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	6.0	7.5	7.5	102.5	12.5	4.5	8.5	7.0
Merged-chr16-17881047-3	chr16	17880939	17881139	+	869.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109750, intron 1 of 9)	B4A|SINE|B4	10689.0	NM_010048	13356.0	Mm.254515	NM_010048	ENSMUSG00000003166	Dgcr2	9930034O06Rik|DGS-C|Dgsc|Idd|Lan|Sez12|mKIAA0163	DiGeorge syndrome critical region gene 2	protein-coding	4.5	6.5	6.5	97.0	8.0	1.0	8.0	2.0
Merged-chr12-79633635-4	chr12	79633516	79633716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	291117.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	76.5	138.0	72.5	1109.5	142.5	46.5	63.0	68.0
Merged-chr15-36283221-4	chr15	36283103	36283303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013923)	promoter-TSS (NM_013923)	-56.0	NM_001357631	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	123.0	192.0	125.0	2123.0	373.0	133.0	181.0	119.5
Merged-chr17-46298780-4	chr17	46298662	46298862	+	925.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286013, intron 2 of 5)	intron (NM_001286013, intron 2 of 5)	834.0	NM_001286013	106565.0	Mm.23633	NM_134120	ENSMUSG00000047428	Dlk2	AI413481|DLK-2|Egfl9	delta like non-canonical Notch ligand 2	protein-coding	16.0	26.0	7.0	108.5	44.0	16.0	20.0	21.0
Merged-chr2-91080337-3	chr2	91080217	91080417	+	826.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-10002.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	6.5	11.0	4.0	54.0	16.5	7.5	4.5	10.5
Merged-chr3-127457960-1	chr3	127457860	127458060	+	679.333313	f0_c57.idr	intron (NM_001327938, intron 1 of 47)	B2_Mm2|SINE|B2	41155.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	0.0	10.0	39.5	11.5	11.5	8.0
Merged-chr13-118386786-3	chr13	118386702	118386902	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021556, exon 1 of 5)	exon (NM_021556, exon 1 of 5)	450.0	NM_021556	59054.0	Mm.143810	NM_021556	ENSMUSG00000021731	Mrps30	2610020A16Rik|AA968347|PAP|Pdcd9	mitochondrial ribosomal protein S30	protein-coding	17.0	9.0	18.0	272.5	50.5	21.5	27.5	24.0
Merged-chr12-33316637-4	chr12	33316520	33316720	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	14105.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	16.5	31.5	20.5	310.0	67.0	10.0	32.5	23.5
Merged-chr4-47057392-4	chr4	47057297	47057497	+	959.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356426)	promoter-TSS (NM_001356426)	-91.0	NM_001356426	75691.0	Mm.86866	NM_001024136	ENSMUSG00000066191	Anks6	2210417J20Rik|Ankrd14|Gm635|SamCystin|Samd6|b2b1801.1Clo	ankyrin repeat and sterile alpha motif domain containing 6	protein-coding	31.0	27.0	15.0	350.0	33.5	21.0	24.0	13.5
Merged-chr17-80483083-4	chr17	80482970	80483170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2617.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	146.5	172.0	143.0	2520.5	352.5	125.5	214.5	125.5
Merged-chr1-95313642-4	chr1	95313550	95313750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026321)	promoter-TSS (NM_026321)	22.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	167.0	245.0	160.0	2540.0	449.5	162.5	212.5	177.0
Merged-chr17-78205211-3	chr17	78205116	78205316	+	805.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 1 of 16)	intron (NM_015800, intron 1 of 16)	4968.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	2.0	6.5	15.5	143.5	13.0	9.0	8.5	5.0
Merged-chr6-5390389-3	chr6	5390295	5390495	+	998.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355662)	promoter-TSS (NM_001355662)	-15.0	NM_001355662	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	12.5	18.5	26.5	265.5	26.0	6.5	2.5	5.0
Merged-chr1-95397366-4	chr1	95397259	95397459	+	694.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	83731.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	6.5	18.5	8.0	145.0	21.5	8.0	13.0	14.5
Merged-chr19-59346347-2	chr19	59346247	59346447	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033222)	promoter-TSS (NM_001033222)	-567.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	7.0	4.5	6.0	94.5	23.0	3.0	5.0	10.5
Merged-chr2-119896856-1	chr2	119896756	119896956	+	1000.0	f0_c57.idr	promoter-TSS (NM_001164274)	promoter-TSS (NM_001164274)	-372.0	NM_001164274	29808.0	Mm.87532	NM_013720	ENSMUSG00000033943	Mga	AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5	MAX gene associated	protein-coding	27.5	74.0	10.5	251.5	57.0	34.5	20.5	22.0
Merged-chr5-136987515-4	chr5	136987413	136987613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310747)	promoter-TSS (NM_001310747)	446.0	NM_027318	70103.0	Mm.273147	NM_027318	ENSMUSG00000059518	Znhit1	2700001K05Rik|ZNFN4A1	zinc finger, HIT domain containing 1	protein-coding	36.0	26.5	21.5	318.0	51.5	26.0	27.0	35.0
Merged-chr4-40774863-3	chr4	40774763	40774963	+	922.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16978.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	5.0	10.0	11.0	115.5	32.0	7.5	8.5	12.0
Merged-chr8-45344473-4	chr8	45344384	45344584	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153535, exon 10 of 14)	exon (NM_153535, exon 10 of 14)	-11288.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	2.0	15.5	7.0	104.5	49.0	14.0	8.5	17.5
Merged-chr2-102988039-4	chr2	102987940	102988140	+	908.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85473.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	14.5	13.5	24.0	229.5	29.0	7.0	9.0	12.5
Merged-chr3-41377076-1	chr3	41376976	41377176	+	824.0	f0_balb.idr	Intergenic	Intergenic	116123.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	10.0	8.5	19.0	220.5	6.5	3.0	2.5	4.5
Merged-chr9-121985152-2	chr9	121985053	121985253	+	967.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289559, intron 1 of 2)	intron (NM_001289559, intron 1 of 2)	10873.0	NM_001289559	215494.0	Mm.402151	NM_153540	ENSMUSG00000066235	Pomgnt2	Ago61|C85492|Gtdc2	protein O-linked mannose beta 1,4-N-acetylglucosaminyltransferase 2	protein-coding	4.0	3.0	6.5	25.0	25.5	4.5	5.0	9.0
Merged-chr7-30698310-3	chr7	30698204	30698404	+	949.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026961)	promoter-TSS (NM_026961)	-622.0	NM_026961	69147.0	Mm.307035	NM_026961	ENSMUSG00000013083	2200002J24Rik	-	RIKEN cDNA 2200002J24 gene	protein-coding	16.5	24.5	9.0	195.5	16.0	12.0	7.0	11.0
Merged-chr11-116027984-4	chr11	116027873	116028073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-2343.0	NM_001286006	217331.0	Mm.297706	NM_172569	ENSMUSG00000020770	Unk	B230379M23Rik|Unkh|Zc3h5|Zc3hdc5|mKIAA1753	unkempt family zinc finger	protein-coding	69.0	195.0	54.5	676.0	232.0	77.5	67.5	83.5
Merged-chr11-111312352-2	chr11	111312252	111312452	+	717.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	246188.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	2.5	5.5	0.0	44.0	11.5	5.0	6.5	5.5
Merged-chr5-123394626-4	chr5	123394522	123394722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177582)	promoter-TSS (NM_177582)	-176.0	NM_133917	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	198.5	332.5	222.5	2277.5	422.5	178.5	192.0	160.5
Merged-chr19-5663180-2	chr19	5663080	5663280	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164481, intron 1 of 17)	intron (NM_001164481, intron 1 of 17)	527.0	NM_001164482	20469.0	Mm.3072	NM_011379	ENSMUSG00000056917	Sipa1	Spa1	signal-induced proliferation associated gene 1	protein-coding	4.0	6.5	0.5	28.0	11.0	7.5	5.0	8.5
Merged-chr6-83482623-4	chr6	83482533	83482733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149734, intron 4 of 6)	intron (NR_149734, intron 4 of 6)	24336.0	NM_013764	27369.0	Mm.42234	NM_013764	ENSMUSG00000014554	Dguok	dGK|dGK1|dGK2|dGK3	deoxyguanosine kinase	protein-coding	92.5	93.0	86.5	1285.0	114.0	38.0	52.5	68.0
Merged-chr11-101725180-4	chr11	101725083	101725283	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7773.0	NM_144831	217207.0	Mm.28186	NM_144831	ENSMUSG00000034931	Dhx8	Ddx8|mDEAH6|mKIAA4096	DEAH (Asp-Glu-Ala-His) box polypeptide 8	protein-coding	35.0	38.5	50.0	651.5	72.5	25.5	43.0	19.5
Merged-chr3-109464814-4	chr3	109464714	109464914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-109193.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	49.5	24.5	38.5	797.0	54.0	33.0	55.5	52.5
Merged-chr2-90581368-5	chr2	90581321	90581521	+	927.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008982)	promoter-TSS (NM_008982)	-774.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	4.0	10.5	9.5	113.0	14.0	9.0	4.5	16.0
Merged-chr13-21468587-4	chr13	21468479	21468679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025719)	promoter-TSS (NM_025719)	-78.0	NM_025719	66707.0	Mm.116869	NM_025719	ENSMUSG00000059395	Nkapl	4921504I05Rik	NFKB activating protein-like	protein-coding	90.5	101.0	102.0	1498.5	178.5	44.0	127.5	79.5
Merged-chr9-64914792-4	chr9	64914683	64914883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162917, intron 34 of 34)	intron (NM_001162917, intron 34 of 34)	36824.0	NM_144813	214111.0	Mm.156124	NM_144813	ENSMUSG00000034452	Slc24a1	-	solute carrier family 24 (sodium/potassium/calcium exchanger), member 1	protein-coding	41.5	57.0	35.0	332.5	112.5	19.0	27.0	42.5
Merged-chr19-8741569-8	chr19	8741475	8741675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019829)	promoter-TSS (NM_019829)	151.0	NM_001167799	56389.0	Mm.153061	NM_019829	ENSMUSG00000010110	Stx5a	0610031F24Rik|D19Ertd627e|Stx5	syntaxin 5A	protein-coding	57.5	109.0	66.5	612.0	145.0	66.5	50.5	78.0
Merged-chr3-95434304-4	chr3	95434199	95434399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009709)	promoter-TSS (NM_009709)	-91.0	NM_009709	11863.0	Mm.250265	NM_009709	ENSMUSG00000015522	Arnt	D3Ertd557e|Drnt|ESTM42|Hif1b|W08714|bHLHe2|mKIAA4051	aryl hydrocarbon receptor nuclear translocator	protein-coding	201.0	283.0	141.0	2652.0	489.5	236.0	291.5	199.5
Merged-chr13-113490165-2	chr13	113490065	113490265	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	12679.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	9.0	5.5	11.0	159.0	20.0	3.5	20.5	11.0
Merged-chr16-95731144-2	chr16	95731044	95731244	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28737.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	7.5	6.5	6.0	7.0	17.5	4.0	3.5	4.0
Merged-chr11-114571348-4	chr11	114571240	114571440	+	967.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97203.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	20.0	9.5	9.0	205.5	46.5	9.0	17.5	18.0
Merged-chr2-101696415-4	chr2	101696330	101696530	+	923.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303273, intron 6 of 6)	intron (NM_001303273, intron 6 of 6)	18010.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	18.5	25.0	13.5	408.5	25.5	12.0	19.5	18.5
Merged-chr6-112778384-4	chr6	112778306	112778506	+	971.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 5 of 21)	MIR3|SINE|MIR	-81736.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	23.5	16.5	31.0	560.0	39.5	24.0	32.0	21.0
Merged-chr11-54693917-3	chr11	54693811	54694011	+	967.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252496, intron 28 of 28)	intron (NM_001252496, intron 28 of 28)	93792.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	15.5	13.5	5.0	213.5	17.0	3.5	7.0	9.0
Merged-chr2-116980005-4	chr2	116979842	116980042	+	929.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79790.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	4.5	9.5	3.5	69.0	25.0	9.0	11.0	11.0
Merged-chr11-114675446-4	chr11	114675337	114675537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053273)	promoter-TSS (NM_053273)	-31.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	71.0	105.0	52.5	886.5	207.0	63.5	87.5	84.5
Merged-chr13-92576899-4	chr13	92576756	92576956	+	826.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030237)	promoter-TSS (NM_030237)	-624.0	NM_030237	79401.0	Mm.23520	NM_030237	ENSMUSG00000046957	Spz1	1700027M20Rik|AI429130	spermatogenic leucine zipper 1	protein-coding	6.0	16.0	4.0	69.0	19.0	10.0	14.0	19.5
Merged-chr6-99485395-4	chr6	99485321	99485521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347345, intron 1 of 19)	intron (NM_001347345, intron 1 of 19)	35572.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	32.0	66.0	63.5	1259.5	68.5	32.0	56.5	56.5
Merged-chr18-80416733-4	chr18	80416636	80416836	+	961.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 12 of 12)	intron (NM_026295, intron 12 of 12)	-52482.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	25.0	22.5	13.0	615.0	50.0	17.5	33.0	13.0
Merged-chr9-45301315-2	chr9	45301215	45301415	+	969.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17785.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	1.5	6.5	1.0	61.5	22.5	5.5	5.0	5.5
Merged-chr1-105795854-4	chr1	105795757	105795957	+	858.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	15134.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	12.5	14.5	10.0	323.0	66.0	11.0	12.0	13.5
Merged-chr9-101097838-2	chr9	101097738	101097938	+	544.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001100451, intron 1 of 1)	intron (NM_001100451, intron 1 of 1)	23076.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	1.0	8.5	7.0	26.0	4.5	12.0	8.5	9.0
Merged-chr17-81544652-1	chr17	81544552	81544752	+	551.0	f0_balb.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	193735.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	5.5	7.5	7.0	82.0	15.0	7.5	2.0	4.0
Merged-chr15-59643974-4	chr15	59643893	59644093	+	766.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4661.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	9.5	23.5	10.0	74.5	28.5	10.0	8.5	2.0
Merged-chr6-82042165-3	chr6	82042090	82042290	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145570, intron 1 of 2)	intron (NM_145570, intron 1 of 2)	562.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	4.5	10.0	6.0	49.5	1.5	1.5	0.0	0.5
Merged-chr15-25047994-4	chr15	25047859	25048059	+	887.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	365805.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	2.0	6.0	16.0	150.0	27.0	10.5	12.0	12.5
Merged-chr2-156144193-4	chr2	156144098	156144298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164216)	promoter-TSS (NM_001164216)	-12.0	NM_010911	18041.0	Mm.283604	NM_010911	ENSMUSG00000027618	Nfs1	AA987187|m-Nfs1|m-Nfsl	nitrogen fixation gene 1 (S. cerevisiae)	protein-coding	37.5	78.0	19.5	611.0	95.5	41.5	48.0	42.0
Merged-chr10-116580638-2	chr10	116580538	116580738	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359248)	promoter-TSS (NM_001359248)	-102.0	NM_001359248	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	9.5	8.5	9.5	105.5	26.5	10.5	12.0	17.0
Merged-chr9-108460151-4	chr9	108460049	108460249	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133744)	promoter-TSS (NM_133744)	-369.0	NM_133744	72454.0	Mm.46488	NM_133744	ENSMUSG00000049305	Ccdc71	2600016J21Rik	coiled-coil domain containing 71	protein-coding	33.0	65.5	21.5	242.5	129.5	48.5	28.5	22.5
Merged-chr16-23235536-4	chr16	23235420	23235620	+	847.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 1 of 7)	intron (NM_001252505, intron 1 of 7)	9499.0	NM_001252505	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	5.5	4.0	9.0	120.5	26.0	6.5	6.0	15.0
Merged-chr2-129261329-4	chr2	129261220	129261420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35892.0	NM_181589	70466.0	Mm.45785	NM_181589	ENSMUSG00000048327	Ckap2l	2010016H04Rik|2610318C08Rik|AV070319|radmis|rdm	cytoskeleton associated protein 2-like	protein-coding	43.0	59.0	25.0	589.5	73.0	40.0	36.0	39.5
Merged-chr2-104146133-2	chr2	104146033	104146233	+	586.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033347, exon 21 of 21)	3' UTR (NM_001033347, exon 21 of 21)	23364.0	NM_026634	68243.0	Mm.158191	NM_026634	ENSMUSG00000032671	A930018P22Rik	-	RIKEN cDNA A930018P22 gene	protein-coding	9.5	5.5	5.0	82.5	7.5	2.0	4.5	1.0
Merged-chr19-55683929-4	chr19	55683843	55684043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	MTD|LTR|ERVL-MaLR	18261.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	51.0	81.5	66.5	731.5	129.0	44.5	57.5	63.5
Merged-chr11-69945403-4	chr11	69945273	69945473	+	847.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009204, exon 7 of 11)	exon (NM_009204, exon 7 of 11)	2817.0	NM_009204	20528.0	Mm.10661	NM_009204	ENSMUSG00000018566	Slc2a4	GT2|Glut-4|Glut4|twgy	solute carrier family 2 (facilitated glucose transporter), member 4	protein-coding	8.5	14.0	10.5	102.5	23.5	12.0	12.0	11.0
Merged-chr13-8867558-4	chr13	8867464	8867664	+	776.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039388, intron 1 of 13)	URR1B|DNA|hAT-Charlie	3480.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	3.0	7.0	8.0	106.0	33.5	15.0	12.5	9.0
Merged-chr2-132029924-4	chr2	132029831	132030031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175445)	promoter-TSS (NM_175445)	57.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	75.5	76.0	37.5	721.0	66.0	40.0	33.0	54.5
Merged-chr16-10838670-4	chr16	10838574	10838774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162932, intron 1 of 1)	intron (NM_001162932, intron 1 of 1)	3615.0	NM_001162932	223970.0	Mm.325777	NM_001033278	ENSMUSG00000037991	Rmi2	A630055G03Rik|Gm537|Gm929	RecQ mediated genome instability 2	protein-coding	105.5	153.5	125.5	1520.5	220.0	99.0	118.0	81.0
Merged-chr6-88855822-2	chr6	88855722	88855922	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347327, intron 2 of 7)	intron (NM_001347327, intron 2 of 7)	12968.0	NR_045880	100038356.0	Mm.442704	NR_045880	ENSMUSG00000085828	Gm15612	-	predicted gene 15612	ncRNA	3.0	7.0	4.0	49.5	22.5	6.0	7.0	4.5
Merged-chr5-114567895-4	chr5	114567805	114568005	+	928.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004180)	promoter-TSS (NM_001004180)	-346.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	16.5	5.0	12.5	213.0	31.5	16.5	16.5	19.5
Merged-chr11-107131306-6	chr11	107131277	107131477	+	854.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176850, exon 1 of 28)	exon (NM_176850, exon 1 of 28)	545.0	NM_176850	207165.0	Mm.343986	NM_176850	ENSMUSG00000040481	Bptf	9430093H17Rik|Falz	bromodomain PHD finger transcription factor	protein-coding	7.0	13.0	13.5	105.0	20.5	3.0	2.5	13.5
Merged-chr10-94038724-1	chr10	94038624	94038824	+	719.5	f0_c57.idr	intron (NM_053072, intron 1 of 20)	RSINE1|SINE|B4	2723.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	1.0	0.0	2.0	28.5	24.5	8.5	14.0	12.5
Merged-chr7-29008901-3	chr7	29008799	29008999	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009109, intron 100 of 105)	intron (NM_009109, intron 100 of 105)	26045.0	NM_008279	26411.0	Mm.148278	NM_008279	ENSMUSG00000037337	Map4k1	Hpk1|mHPK1	mitogen-activated protein kinase kinase kinase kinase 1	protein-coding	24.0	33.5	20.5	269.0	5.0	3.0	1.5	6.5
Merged-chr11-103258415-4	chr11	103258320	103258520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	8981.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	55.0	66.0	31.0	530.5	127.0	36.0	51.0	45.0
Merged-chr16-91456067-4	chr16	91455955	91456155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9049.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	42.5	47.5	36.0	532.5	127.0	26.0	34.0	54.5
Merged-chr3-104968153-4	chr3	104968069	104968269	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6460.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	17.5	37.0	14.5	336.0	63.0	18.5	22.5	14.0
Merged-chr19-16128928-4	chr19	16128822	16129022	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3909.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	18.0	42.0	17.0	251.5	60.5	25.5	24.5	33.5
Merged-chr3-51326967-4	chr3	51326834	51327034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	MTC|LTR|ERVL-MaLR	13710.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	48.5	65.5	66.5	1010.5	131.5	52.5	43.0	57.5
Merged-chr17-48287033-4	chr17	48286924	48287124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-13014.0	NM_001033405	328833.0	Mm.329104	NM_001033405	ENSMUSG00000071068	Treml2	AW049306|Gm750|Tlt2	triggering receptor expressed on myeloid cells-like 2	protein-coding	32.5	79.0	36.5	552.5	94.0	35.0	48.5	36.5
Merged-chr19-56689372-4	chr19	56689275	56689475	+	959.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32997.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	11.0	20.0	9.0	171.0	38.5	6.5	17.0	2.5
Merged-chr15-96328887-4	chr15	96328777	96328977	+	889.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175251, intron 3 of 20)	intron (NM_175251, intron 3 of 20)	41355.0	NM_175251	77044.0	Mm.17166	NM_175251	ENSMUSG00000033237	Arid2	1700124K17Rik|4432409D24Rik|BAF200|zipzap/p200	AT rich interactive domain 2 (ARID, RFX-like)	protein-coding	29.5	21.5	10.0	163.5	30.0	17.5	10.5	11.0
Merged-chr1-46854129-1	chr1	46854029	46854229	+	1000.0	f0_c57.idr	promoter-TSS (NM_172653)	promoter-TSS (NM_172653)	-511.0	NM_172653	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	60.0	69.5	83.5	803.5	152.0	71.0	94.0	78.5
Merged-chr1-153532391-4	chr1	153532283	153532483	+	719.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 4 of 11)	intron (NM_028749, intron 4 of 11)	17331.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	11.0	13.0	15.0	167.5	31.5	10.5	10.0	6.5
Merged-chr2-163951924-4	chr2	163951807	163952007	+	930.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33224.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	11.0	22.5	25.0	277.5	41.5	14.5	19.5	12.5
Merged-chr9-57888241-4	chr9	57888119	57888319	+	977.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAAA)n|Simple_repeat|Simple_repeat	-22767.0	NM_027086	69459.0	Mm.41735	NM_027086	ENSMUSG00000055720	Ubl7	2300004C15Rik	ubiquitin-like 7 (bone marrow stromal cell-derived)	protein-coding	32.5	29.5	16.0	213.5	59.0	17.0	24.5	22.0
Merged-chr16-23272989-4	chr16	23272831	23273031	+	965.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	intron (NM_001252505, intron 2 of 7)	-17539.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	24.0	30.5	10.5	212.0	14.0	8.5	17.5	24.0
Merged-chr19-12806413-3	chr19	12806313	12806513	+	949.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134152, intron 2 of 8)	intron (NM_134152, intron 2 of 8)	7834.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	11.0	17.5	7.5	175.5	3.0	2.5	5.5	2.5
Merged-chr13-73488890-4	chr13	73488798	73488998	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145376, exon 3 of 14)	exon (NM_145376, exon 3 of 14)	21515.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	7.0	20.5	18.0	284.5	29.0	10.5	16.5	24.0
Merged-chr17-35218859-7	chr17	35218741	35218941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13490.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	18.5	33.0	25.0	128.5	63.0	14.5	22.0	19.0
Merged-chr4-126321721-4	chr4	126321623	126321823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133883)	promoter-TSS (NM_133883)	-20.0	NM_133883	100206.0	Mm.11285	NM_133883	ENSMUSG00000042558	Adprhl2	AI836109|Arh3	ADP-ribosylhydrolase like 2	protein-coding	49.5	107.5	41.0	887.5	177.5	93.0	73.5	71.5
Merged-chr13-9599531-4	chr13	9599426	9599626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 17 of 36)	ORR1E|LTR|ERVL-MaLR	164284.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	40.5	44.5	39.5	452.0	77.5	26.0	29.0	38.0
Merged-chr10-59616702-4	chr10	59616608	59616808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033259)	promoter-TSS (NM_001033259)	-16.0	NM_001033259	215999.0	Mm.296470	NM_001033259	ENSMUSG00000009647	Mcu	2010012O16Rik|AV064928|C10orf42|Ccdc109a|D130073L02Rik|Gm64	mitochondrial calcium uniporter	protein-coding	98.5	133.5	97.0	1237.5	209.5	71.5	108.0	88.0
Merged-chr3-59262939-4	chr3	59262841	59263041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357008)	promoter-TSS (NM_001357008)	44.0	NM_027571	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	64.5	92.5	64.5	1143.5	137.5	17.0	49.5	38.0
Merged-chr13-108316275-4	chr13	108316226	108316426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178683)	promoter-TSS (NM_178683)	-11.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	121.0	152.0	80.0	1678.5	282.0	99.0	118.5	119.0
Merged-chr17-44456210-4	chr17	44456106	44456306	+	849.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	267634.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	8.5	19.5	3.5	67.0	35.0	14.0	8.5	12.5
Merged-chr8-107589035-4	chr8	107588937	107589137	+	801.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010817)	promoter-TSS (NM_010817)	-555.0	NM_010817	17463.0	Mm.18347	NM_010817	ENSMUSG00000039067	Psmd7	AW107203|Mov-34|Mov34	proteasome (prosome, macropain) 26S subunit, non-ATPase, 7	protein-coding	10.0	13.0	5.0	34.5	20.5	12.5	10.0	11.0
Merged-chr7-142392032-4	chr7	142391931	142392131	+	837.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5a|LINE|L1	-4161.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	8.5	1.0	9.0	177.0	28.0	9.5	14.0	16.5
Merged-chr16-4316225-4	chr16	4316094	4316294	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009624, intron 3 of 10)	intron (NM_009624, intron 3 of 10)	86965.0	NR_003628	436332.0	Mm.478141	NM_001013830	ENSMUSG00000089645	Gm5766	EG436332	ribosomal protein L7a pseudogene	pseudo	12.0	16.5	8.5	271.0	50.5	12.0	15.5	16.5
Merged-chr5-103719953-4	chr5	103719851	103720051	+	911.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34211.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	13.5	21.5	4.0	92.0	72.0	26.0	24.0	14.0
Merged-chr16-11909329-4	chr16	11909233	11909433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146067)	promoter-TSS (NM_146067)	90.0	NM_146067	223978.0	Mm.86360	NM_146067	ENSMUSG00000065979	Cpped1	C530044N13Rik	calcineurin-like phosphoesterase domain containing 1	protein-coding	45.5	67.5	78.5	573.0	56.0	38.0	41.5	68.5
Merged-chr5-123620231-4	chr5	123620129	123620329	+	818.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 12 of 18)	intron (NM_001359224, intron 12 of 18)	-47214.0	NM_029929	77573.0	Mm.41372	NM_029929	ENSMUSG00000029434	Vps33a	3830421M04Rik|AI503300|AW048546|AW554476|bf	VPS33A CORVET/HOPS core subunit	protein-coding	8.5	5.5	5.5	153.0	15.5	6.5	9.5	14.5
Merged-chr2-167701650-4	chr2	167701552	167701752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10475.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	39.0	46.0	31.5	500.0	62.5	20.5	31.0	42.5
Merged-chr19-45149974-3	chr19	45149910	45150110	+	826.544434	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021901)	promoter-TSS (NM_021901)	-705.0	NM_021901	21908.0	Mm.391203	NM_021901	ENSMUSG00000025215	Tlx1	Hox-11|Hox11|Tlx-1	T cell leukemia, homeobox 1	protein-coding	1.0	3.5	2.0	54.5	27.5	6.0	9.0	13.0
Merged-chr9-55277793-3	chr9	55277684	55277884	+	724.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	B1F|SINE|Alu	5841.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	8.0	14.0	7.0	182.5	14.5	8.5	6.0	8.0
Merged-chr19-26697282-4	chr19	26697187	26697387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 22 of 32)	intron (NM_011416, intron 22 of 32)	-50878.0	NM_001347439	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	112.5	140.0	112.0	2024.0	178.5	68.0	124.5	77.5
Merged-chr8-81806980-4	chr8	81806881	81807081	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024617, intron 7 of 24)	intron (NM_001024617, intron 7 of 24)	464419.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	34.5	34.5	27.0	377.0	32.5	16.0	30.5	24.5
Merged-chr18-36540747-3	chr18	36540636	36540836	+	777.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271546, exon 20 of 22)	exon (NM_001271546, exon 20 of 22)	12584.0	NM_001271545	240215.0	Mm.135463	NM_172830	ENSMUSG00000024485	Slc4a9	AE4|D630003B07|D630024F24Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 9	protein-coding	2.5	7.0	6.0	119.5	8.0	4.5	6.5	8.5
Merged-chr10-94199006-4	chr10	94198923	94199123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025551)	promoter-TSS (NM_025551)	14.0	NM_025551	66414.0	Mm.27886	NM_025551	ENSMUSG00000020022	Ndufa12	2410011G03Rik|AW112974	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12	protein-coding	59.0	73.5	47.5	624.5	118.5	33.0	70.5	57.0
Merged-chr18-41949368-4	chr18	41949263	41949463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029942, intron 1 of 6)	MTD|LTR|ERVL-MaLR	1831.0	NM_029942	77619.0	Mm.30649	NM_029942	ENSMUSG00000056671	Prelid2	1700003A01Rik|C330008K14Rik	PRELI domain containing 2	protein-coding	32.0	34.0	55.5	758.5	25.0	9.0	28.0	27.5
Merged-chr13-99196437-4	chr13	99196365	99196565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	11642.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	30.5	48.0	59.0	982.5	101.0	19.5	37.0	40.5
Merged-chr10-80931499-2	chr10	80931399	80931599	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008655, intron 3 of 3)	intron (NM_008655, intron 3 of 3)	1408.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	7.0	10.0	9.0	60.0	17.5	6.0	9.5	13.5
Merged-chr10-60284463-4	chr10	60284342	60284542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146124)	promoter-TSS (NM_001146124)	-19.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	46.5	34.0	39.5	772.5	102.0	26.5	33.5	54.0
Merged-chr10-91137564-4	chr10	91137481	91137681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13618.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	174.0	214.5	193.0	2343.0	328.0	117.0	183.0	121.0
Merged-chr17-47011153-4	chr17	47011051	47011251	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177374)	promoter-TSS (NM_001177374)	-619.0	NM_001177374	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	25.5	48.5	15.0	247.0	64.5	14.0	32.0	24.0
Merged-chr2-91727165-4	chr2	91727003	91727203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3035.0	NM_172669	228361.0	Mm.436667	NM_172669	ENSMUSG00000040506	Ambra1	2310079H06Rik|A130023A14|AA474864|AV021921|D030051N19Rik|mKIAA1736	autophagy/beclin 1 regulator 1	protein-coding	18.0	33.5	11.0	277.5	34.0	13.5	15.0	21.0
Merged-chr17-27165610-4	chr17	27165522	27165722	+	893.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173027, intron 1 of 5)	intron (NM_173027, intron 1 of 5)	2142.0	NM_173027	271424.0	Mm.209679	NM_173027	ENSMUSG00000024210	Ip6k3	D830007E07Rik|Ihpk3	inositol hexaphosphate kinase 3	protein-coding	12.0	13.0	7.0	149.5	30.5	6.5	14.5	7.5
Merged-chr1-84838861-4	chr1	84838758	84838958	+	978.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025386)	promoter-TSS (NM_025386)	446.0	NM_133975	14897.0	Mm.209265	NM_133975	ENSMUSG00000026219	Trip12	1110036I07Rik|6720416K24Rik|AA410158|Gtl6|TRIP-12	thyroid hormone receptor interactor 12	protein-coding	23.0	13.0	30.0	237.0	59.0	15.0	24.5	31.5
Merged-chr15-11407573-4	chr15	11407458	11407658	+	947.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7900.0	NM_033074	110960.0	Mm.286061	NM_033074	ENSMUSG00000022241	Tars	D15Wsu59e|ThrRS	threonyl-tRNA synthetase	protein-coding	9.0	16.0	14.5	289.0	65.0	15.5	21.5	21.0
Merged-chr6-122853798-4	chr6	122853752	122853952	+	798.4381099999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009779, intron 1 of 1)	intron (NM_009779, intron 1 of 1)	2305.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	10.0	10.5	8.0	109.0	7.0	10.0	7.5	5.0
Merged-chr4-70546371-4	chr4	70546279	70546479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-11451.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	19.0	27.5	30.0	555.5	61.0	31.0	22.5	34.0
Merged-chr4-93520945-4	chr4	93520833	93521033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-185422.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	16.5	8.0	23.0	398.0	42.5	18.0	31.0	8.0
Merged-chr16-14109858-4	chr16	14109762	14109962	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081154, exon 27 of 27)	3' UTR (NM_001081154, exon 27 of 27)	49412.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	27.0	39.5	19.0	425.0	58.0	13.0	23.0	18.5
Merged-chr1-170535447-1	chr1	170535347	170535547	+	885.0	f0_balb.idr	intron (NM_001109985, intron 1 of 9)	intron (NM_001109985, intron 1 of 9)	21663.0	NM_027528	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	8.0	6.0	10.0	129.0	3.5	2.0	4.5	4.0
Merged-chr1-181257809-4	chr1	181257708	181257908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45830.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	32.0	66.5	39.5	573.0	89.0	29.5	30.5	24.0
Merged-chr11-79207887-4	chr11	79207776	79207976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35148.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	44.5	54.0	31.0	450.0	108.0	55.0	54.0	49.0
Merged-chr19-6291324-4	chr19	6291254	6291454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 2 of 4)	intron (NM_010119, intron 2 of 4)	14458.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	88.0	170.0	107.0	503.5	142.0	52.0	68.0	38.0
Merged-chr1-40115478-2	chr1	40115378	40115578	+	770.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010555, intron 5 of 8)	intron (NM_010555, intron 5 of 8)	29385.0	NM_001360800	16178.0	Mm.1349	NM_010555	ENSMUSG00000026073	Il1r2	CD121b|Il1r-2	interleukin 1 receptor, type II	protein-coding	6.5	3.0	2.0	68.5	6.5	7.0	5.0	6.5
Merged-chr7-139944111-4	chr7	139943968	139944168	+	754.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009482, exon 1 of 2)	exon (NM_009482, exon 1 of 2)	212.0	NM_009482	22286.0	Mm.10205	NM_009482	ENSMUSG00000047751	Utf1	AI505934	undifferentiated embryonic cell transcription factor 1	protein-coding	7.0	7.0	9.0	115.0	17.5	7.5	3.0	13.0
Merged-chr7-38267145-1	chr7	38267045	38267245	+	586.0	f0_c57.idr	intron (NM_025390, intron 3 of 6)	intron (NM_025390, intron 3 of 6)	4203.0	NM_025390	66161.0	Mm.22284	NM_025390	ENSMUSG00000030423	Pop4	1110023P21Rik|Rpp29	processing of precursor 4, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	3.0	3.0	1.0	59.0	18.0	9.0	6.5	7.5
Merged-chr7-125878191-4	chr7	125878078	125878278	+	887.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001101488)	TTS (NM_001101488)	170308.0	NM_001358287	233865.0	Mm.274389	NM_001081022	ENSMUSG00000032743	D430042O09Rik	Kiaa0556	RIKEN cDNA D430042O09 gene	protein-coding	19.0	10.0	13.0	271.0	31.0	6.5	15.5	15.0
Merged-chr19-18671230-3	chr19	18671115	18671315	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026120, intron 1 of 7)	CpG	435.0	NM_026120	67383.0	Mm.306602	NM_026120	ENSMUSG00000024726	Carnmt1	2410127L17Rik	carnosine N-methyltransferase 1	protein-coding	42.5	36.0	39.5	370.0	96.5	25.0	29.5	38.5
Merged-chr9-35062325-4	chr9	35062288	35062488	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	RMER6B|LTR|ERVK	-54340.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	12.0	19.5	15.5	90.5	44.5	15.5	5.5	6.5
Merged-chr12-87391528-3	chr12	87391423	87391623	+	825.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3168.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	6.0	21.0	8.0	96.5	5.0	7.5	12.5	5.5
Merged-chr10-8953160-3	chr10	8953063	8953263	+	972.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67093.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	1.0	7.5	8.5	184.0	25.5	5.0	9.0	6.5
Merged-chr5-8423511-3	chr5	8423398	8423598	+	718.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190717)	promoter-TSS (NM_001190717)	660.0	NM_178766	319653.0	Mm.146262	NM_178766	ENSMUSG00000054099	Slc25a40	B230315F11Rik	solute carrier family 25, member 40	protein-coding	5.0	4.0	8.0	77.5	9.5	6.5	8.5	5.0
Merged-chr1-134305275-3	chr1	134305192	134305392	+	851.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144855, intron 23 of 28)	intron (NM_001144855, intron 23 of 28)	15288.0	NM_031189	17928.0	Mm.16528	NM_031189	ENSMUSG00000026459	Myog	MYF4|bHLHc3|myo	myogenin	protein-coding	9.5	12.5	9.5	106.5	11.0	4.0	3.0	6.0
Merged-chr5-103911214-4	chr5	103911119	103911319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359986)	promoter-TSS (NM_001359986)	40.0	NM_001359987	246293.0	Mm.179871	NM_178741	ENSMUSG00000029312	Klhl8	2310001P09Rik|D5Ertd431e	kelch-like 8	protein-coding	71.0	102.5	68.5	1068.0	197.0	84.0	107.5	94.5
Merged-chr11-114897510-3	chr11	114897398	114897598	+	988.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170758, intron 3 of 6)	RSINE1|SINE|B4	7457.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	11.5	5.0	19.0	254.0	16.5	6.0	12.0	7.5
Merged-chr12-54794036-3	chr12	54793946	54794146	+	701.972229	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_026998, intron 2 of 13)	B3A|SINE|B2	1616.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	8.5	17.0	14.5	118.0	14.0	1.0	5.5	10.0
Merged-chr17-46388429-4	chr17	46388323	46388523	+	927.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021346, intron 2 of 7)	intron (NM_021346, intron 2 of 7)	4657.0	NM_021346	57908.0	Mm.439916	NM_021346	ENSMUSG00000015597	Zfp318	2610034E08Rik|D530032D06Rik|TZF|Znf318	zinc finger protein 318	protein-coding	17.5	35.0	14.0	282.0	43.5	13.0	18.5	10.5
Merged-chr15-61541028-4	chr15	61540914	61541114	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	233437.0	NR_040350	432956.0	Mm.404918	NR_040350	ENSMUSG00000116031	D030024E09Rik	-	RIKEN cDNA D030024E09 gene	ncRNA	16.5	22.0	13.5	285.5	22.0	8.0	7.5	12.0
Merged-chr13-92844798-4	chr13	92844659	92844859	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162945)	promoter-TSS (NM_001162945)	-28.0	NM_001162945	382793.0	Mm.296770	NM_001162945	ENSMUSG00000021704	Mtx3	4930470O13Rik|AA409304|AI853833|AU067765|EG624619|Gm1194|Gm6514	metaxin 3	protein-coding	28.0	39.5	29.0	365.5	59.5	15.0	36.5	36.0
Merged-chr9-58266639-4	chr9	58266543	58266743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13479.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	36.0	39.5	28.0	474.0	89.5	28.5	44.5	38.0
Merged-chr18-77954583-3	chr18	77954497	77954697	+	961.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 4 of 43)	intron (NM_001195633, intron 4 of 43)	16130.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	3.5	2.0	7.0	42.5	42.5	19.0	34.5	19.5
Merged-chr14-60912030-4	chr14	60911935	60912135	+	835.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125952.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	14.0	7.0	5.5	165.0	20.0	6.5	21.0	15.5
Merged-chr8-70901227-1	chr8	70901127	70901327	+	589.0	f0_c57.idr	Intergenic	RSINE1|SINE|B4	-3784.0	NM_029751	76808.0	Mm.379251	NM_029751	ENSMUSG00000045128	Rpl18a	2510019J09Rik	ribosomal protein L18A	protein-coding	1.0	1.0	0.0	4.5	21.5	5.0	4.5	12.0
Merged-chr19-25058031-4	chr19	25057934	25058134	+	975.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 2 of 47)	intron (NM_028785, intron 2 of 47)	58505.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	40.5	35.5	25.0	489.0	69.0	18.5	16.5	21.0
Merged-chr19-24281841-4	chr19	24281745	24281945	+	971.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1259.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	27.5	36.0	21.5	334.5	38.5	13.0	17.0	22.0
Merged-chr13-51107046-4	chr13	51106949	51107149	+	989.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283029, intron 1 of 5)	MTE2b|LTR|ERVL-MaLR	5502.0	NM_001283029	20729.0	Mm.188432	NM_011462	ENSMUSG00000021395	Spin1	Spin	spindlin 1	protein-coding	29.0	30.5	18.5	406.5	75.5	18.0	17.0	16.0
Merged-chr2-174436457-4	chr2	174436278	174436478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022325, intron 2 of 5)	intron (NM_022325, intron 2 of 5)	2661.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	53.0	83.5	51.5	655.5	87.5	40.0	29.0	52.0
Merged-chr4-11579595-2	chr4	11579495	11579695	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256142)	promoter-TSS (NM_001256142)	-67.0	NM_001256142	100503583.0	Mm.249437	NM_001256142	ENSMUSG00000094595	Fsbp	-	fibrinogen silencer binding protein	protein-coding	5.0	6.5	10.5	118.5	12.5	2.0	16.0	16.0
Merged-chr3-158076829-4	chr3	158076740	158076940	+	971.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40158.0	NM_001289524	67144.0	Mm.358704	NM_024194	ENSMUSG00000063052	Lrrc40	2610040E16Rik|AI837674	leucine rich repeat containing 40	protein-coding	13.5	21.0	5.5	168.5	37.5	21.0	19.0	24.5
Merged-chr9-62360900-4	chr9	62360803	62361003	+	848.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	CT-rich|Low_complexity|Low_complexity	19560.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	15.5	21.5	10.0	156.5	28.5	7.5	6.5	11.0
Merged-chr7-30492951-4	chr7	30492897	30493097	+	763.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019546)	promoter-TSS (NM_019546)	-661.0	NM_019546	56189.0	Mm.270525	NM_019546	ENSMUSG00000036892	Prodh2	2510028N04Rik|2510038B11Rik|HYPDH|MmPOX|MmPOX1|POX1	proline dehydrogenase (oxidase) 2	protein-coding	2.5	10.0	3.0	102.5	16.5	10.0	7.0	15.0
Merged-chr14-63438194-4	chr14	63438140	63438340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177628, intron 1 of 3)	ID_B1|SINE|B4	1846.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	96.5	210.5	95.5	1168.5	275.5	80.5	88.5	82.0
Merged-chr10-37979212-3	chr10	37979114	37979314	+	880.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-196560.0	NR_131035	75877.0	Mm.402094	NR_131035	ENSMUSG00000111234	4930591E09Rik	-	RIKEN cDNA 4930591E09 gene	ncRNA	6.5	20.5	16.0	219.0	13.0	9.0	17.0	13.5
Merged-chr7-39449444-4	chr7	39449368	39449568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243021)	promoter-TSS (NM_001243021)	-50.0	NM_001243021	233147.0	Mm.148946	NM_001243021	ENSMUSG00000030424	Zfp939	9430025M13Rik	zinc finger protein 939	protein-coding	137.5	222.0	181.0	3299.5	406.0	174.5	216.0	177.5
Merged-chr2-160020592-2	chr2	160020492	160020692	+	963.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NR_040499, intron 1 of 3)	intron (NR_040499, intron 1 of 3)	3939.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	8.0	1.0	6.0	51.5	10.0	4.5	8.5	5.0
Merged-chr17-67383836-2	chr17	67383734	67383934	+	764.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29343.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	6.0	2.0	1.0	47.0	11.0	8.0	11.0	6.0
Merged-chr7-127850316-4	chr7	127850217	127850417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8509.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	79.5	236.0	131.5	1823.0	378.0	99.5	165.5	132.0
Merged-chr2-122572665-4	chr2	122572569	122572769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38608.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	128.5	293.0	272.5	3199.5	328.5	159.5	158.5	202.5
Merged-chr9-100376826-3	chr9	100376726	100376926	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109647.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	24.0	38.5	22.0	376.5	19.5	1.5	16.5	11.5
Merged-chr6-97442170-4	chr6	97442076	97442276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	URR1A|DNA|hAT-Charlie	17110.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	22.5	34.5	37.0	446.5	63.5	27.5	38.5	31.0
Merged-chr2-161108580-4	chr2	161108500	161108700	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126509, intron 1 of 35)	CpG	486.0	NM_173368	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	14.5	17.5	11.0	294.5	30.5	4.5	22.0	18.5
Merged-chr6-13672899-4	chr6	13672817	13673017	+	879.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175312, intron 1 of 4)	B2_Mm2|SINE|B2	5049.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	12.5	19.5	6.5	201.0	36.0	24.5	10.0	11.5
Merged-chr8-40272435-1	chr8	40272335	40272535	+	821.5	f0_balb.idr	Intergenic	Intergenic	14518.0	NM_030610	80857.0	Mm.425526	NM_030610	ENSMUSG00000031603	Fgf20	-	fibroblast growth factor 20	protein-coding	9.0	7.0	13.0	185.5	6.5	12.5	2.0	0.5
Merged-chr10-37376399-3	chr10	37376294	37376494	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-237468.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.0	7.5	12.0	226.0	21.0	5.0	12.0	7.0
Merged-chr3-15876910-1	chr3	15876810	15877010	+	588.5	f0_balb.idr	Intergenic	Lx4A|LINE|L1	-28423.0	NM_001173459	100038947.0	Mm.330924	NM_001173459	ENSMUSG00000074677	LOC100038947	-	signal-regulatory protein beta 1-like	protein-coding	12.0	10.0	6.0	71.0	17.0	1.0	1.0	7.5
Merged-chr10-34206016-3	chr10	34205894	34206094	+	701.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	B3A|SINE|B2	1557.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	9.0	7.0	5.5	69.5	22.0	4.0	18.5	12.5
Merged-chr3-79180940-2	chr3	79180840	79181040	+	668.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31979.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	6.0	11.0	2.5	22.5	16.0	19.0	10.0	6.5
Merged-chr8-69006077-4	chr8	69005969	69006169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82667.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	34.5	64.0	37.0	433.5	124.0	49.0	67.5	72.5
Merged-chr6-46376522-4	chr6	46376426	46376626	+	823.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 11 of 23)	intron (NM_001004357, intron 11 of 23)	-867870.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	9.0	6.0	13.0	142.5	26.0	6.5	6.0	14.0
Merged-chr1-52655369-4	chr1	52655275	52655475	+	950.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133829)	TTS (NM_133829)	24670.0	NM_001142647	227094.0	Mm.83541	NM_172654	ENSMUSG00000043015	Nemp2	5330401P04Rik|9830163O08|Tmem194b	nuclear envelope integral membrane protein 2	protein-coding	20.5	23.0	28.0	349.0	41.5	5.5	17.0	10.5
Merged-chr8-106556353-4	chr8	106556258	106556458	+	734.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007665, exon 16 of 16)	3' UTR (NM_007665, exon 16 of 16)	-30785.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	8.0	6.0	9.0	109.0	30.5	5.5	13.0	8.5
Merged-chr16-92669725-4	chr16	92669628	92669828	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 4 of 6)	RMER17C|LTR|ERVK	27601.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	11.5	18.5	15.5	147.0	41.0	14.0	18.0	20.5
Merged-chr18-53862022-4	chr18	53861896	53862096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152809)	promoter-TSS (NM_152809)	-117.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	136.0	206.5	132.0	2161.5	328.0	144.0	166.0	107.5
Merged-chr3-148918605-4	chr3	148918502	148918702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081298, intron 1 of 23)	URR1B|DNA|hAT-Charlie	36033.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	200.5	310.5	341.5	4622.0	363.0	123.5	180.5	152.5
Merged-chr17-17645876-4	chr17	17645774	17645974	+	866.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21385.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	7.5	10.0	10.0	138.5	41.5	9.0	6.0	13.5
Merged-chr2-170144037-4	chr2	170143923	170144123	+	676.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1348.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	5.5	11.5	8.5	96.0	20.5	5.0	9.0	10.5
Merged-chr11-72301593-4	chr11	72301510	72301710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037713)	promoter-TSS (NM_001037713)	-19.0	NM_001291153	327959.0	Mm.291131	NM_001037713	ENSMUSG00000040483	Xaf1	Fbox39	XIAP associated factor 1	protein-coding	35.5	55.0	62.5	612.0	65.0	29.5	36.5	37.0
Merged-chr5-96210100-4	chr5	96210003	96210203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053158)	promoter-TSS (NM_053158)	-12.0	NM_001039084	94061.0	Mm.295499	NM_053158	ENSMUSG00000029486	Mrpl1	2410002L03Rik|5830418D04Rik|AI462572|L1mt	mitochondrial ribosomal protein L1	protein-coding	145.0	155.5	90.0	2150.5	309.0	125.5	159.5	107.0
Merged-chr6-127251928-4	chr6	127251827	127252027	+	748.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56040.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	20.5	17.5	9.0	113.0	21.0	7.0	11.5	15.0
Merged-chr9-57539649-2	chr9	57539549	57539749	+	918.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001166364, intron 4 of 4)	intron (NM_001166364, intron 4 of 4)	2121.0	NM_001166364	78323.0	Mm.25814	NM_175273	ENSMUSG00000032305	Fam219b	2310046O06Rik|AI594866	family with sequence similarity 219, member B	protein-coding	5.0	5.0	1.0	0.0	6.0	5.0	4.5	4.5
Merged-chr12-113218089-4	chr12	113217984	113218184	+	886.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32181.0	NM_153776	69195.0	Mm.313244	NM_153776	ENSMUSG00000049036	Tmem121	2410008J05Rik|Hole	transmembrane protein 121	protein-coding	12.5	17.5	8.5	182.0	27.5	8.0	17.0	15.5
Merged-chr8-45975866-4	chr8	45975774	45975974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033148)	promoter-TSS (NM_001033148)	346.0	NM_138668	192169.0	Mm.210882	NM_138668	ENSMUSG00000031634	Ufsp2	1810047C23Rik	UFM1-specific peptidase 2	protein-coding	32.5	16.5	24.5	411.0	94.5	26.5	27.5	22.5
Merged-chr7-63822179-4	chr7	63822086	63822286	+	921.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94671.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	13.0	23.5	17.0	345.5	18.5	17.0	26.5	20.0
Merged-chr9-114933997-4	chr9	114933890	114934090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175380)	promoter-TSS (NM_175380)	-3.0	NM_175380	333433.0	Mm.38198	NM_175380	ENSMUSG00000050627	Gpd1l	2210409H23Rik|D9Ertd660e	glycerol-3-phosphate dehydrogenase 1-like	protein-coding	143.5	203.5	126.5	2382.5	407.5	128.0	289.5	188.0
Merged-chr2-112266391-4	chr2	112266301	112266501	+	996.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133649)	promoter-TSS (NM_133649)	87.0	NM_133649	107723.0	Mm.491155	NM_133648	ENSMUSG00000027130	Slc12a6	9530023I19Rik|KCC3|gaxp	solute carrier family 12, member 6	protein-coding	19.0	42.5	21.5	279.0	64.0	16.5	19.5	18.5
Merged-chr13-112760703-4	chr13	112760599	112760799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40078.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	67.5	79.5	47.0	1058.5	151.5	54.0	69.0	82.0
Merged-chr2-117374008-4	chr2	117373912	117374112	+	767.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31135.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	6.0	13.0	5.0	110.0	26.0	12.5	11.0	9.5
Merged-chr10-5600343-4	chr10	5600211	5600411	+	859.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026793, intron 1 of 1)	intron (NM_026793, intron 1 of 1)	6583.0	NM_026793	68632.0	Mm.338242	NM_026793	ENSMUSG00000046916	Myct1	1110020B04Rik|AI225941|AI642973|Mtmc1	myc target 1	protein-coding	7.5	11.0	16.0	171.5	33.5	13.0	12.5	18.5
Merged-chr2-4593642-4	chr2	4593530	4593730	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 5 of 11)	intron (NM_001177844, intron 5 of 11)	33876.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	22.0	22.5	17.5	391.5	68.5	34.0	27.5	13.0
Merged-chr8-121652993-4	chr8	121652904	121653104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-14599	-1071.0	NM_080855	142682.0	Mm.103202	NM_080855	ENSMUSG00000061410	Zcchc14	AA792890|BDG29	zinc finger, CCHC domain containing 14	protein-coding	239.5	355.0	226.0	3591.0	455.5	193.5	301.5	181.5
Merged-chr7-79743115-4	chr7	79743030	79743230	+	992.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037927)	promoter-TSS (NM_001037927)	1.0	NR_153403	18631.0	Mm.20615	NM_011068	ENSMUSG00000030545	Pex11a	PEX11alpha	peroxisomal biogenesis factor 11 alpha	protein-coding	33.0	36.5	15.0	581.5	104.0	29.5	47.0	41.5
Merged-chr10-117063466-2	chr10	117063366	117063566	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001358767)	promoter-TSS (NM_001358767)	-91.0	NM_001358767	12461.0	Mm.247788	NM_007636	ENSMUSG00000034024	Cct2	Cctb	chaperonin containing Tcp1, subunit 2 (beta)	protein-coding	50.0	58.0	63.0	722.0	101.0	47.5	47.0	85.0
Merged-chr1-106138873-2	chr1	106138765	106138965	+	654.166626	f0_balb.idr|f0_c57.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	32659.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	10.0	9.5	11.5	139.5	18.5	5.0	12.5	9.5
Merged-chr5-103472886-4	chr5	103472789	103472989	+	938.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011204, intron 2 of 47)	intron (NM_011204, intron 2 of 47)	47697.0	NM_011204	19249.0	Mm.3414	NM_011204	ENSMUSG00000034573	Ptpn13	AI324989|PTP-BL|PTPL1|Ptpri|RIP	protein tyrosine phosphatase, non-receptor type 13	protein-coding	16.0	23.0	9.0	372.0	58.0	9.5	19.0	16.5
Merged-chr10-121374817-4	chr10	121374711	121374911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 3 of 13)	intron (NM_029364, intron 3 of 13)	9721.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	145.5	193.0	167.0	2257.0	400.5	122.5	156.5	122.0
Merged-chr2-165405397-6	chr2	165405295	165405495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_054055)	TTS (NM_054055)	-5001.0	NM_029021	74614.0	Mm.72179	NM_029021	ENSMUSG00000027670	Ocstamp	4833422F24Rik|OC-STAMP	osteoclast stimulatory transmembrane protein	protein-coding	34.0	75.5	66.5	472.5	104.5	41.0	35.0	42.5
Merged-chr5-65846782-3	chr5	65846679	65846879	+	672.472229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16790.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	6.0	2.5	3.0	65.5	25.0	11.0	10.0	14.0
Merged-chr17-5625672-7	chr17	5625494	5625694	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	RMER15|LTR|ERVL	132994.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	10.0	8.5	8.0	103.5	16.5	6.5	1.5	13.5
Merged-chr9-45520720-2	chr9	45520620	45520820	+	950.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	intron (NM_001081270, intron 3 of 32)	-89488.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	1.0	3.0	0.0	19.0	17.5	7.5	10.0	8.0
Merged-chr3-146110585-4	chr3	146110498	146110698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAAA)n|Simple_repeat|Simple_repeat	-2562.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	144.0	202.5	81.5	1602.5	325.5	111.0	70.0	109.0
Merged-chr3-84675860-3	chr3	84675758	84675958	+	940.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 1 of 6)	intron (NM_177260, intron 1 of 6)	9666.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	11.0	5.5	8.0	260.0	9.5	1.0	3.5	3.5
Merged-chr13-108015357-4	chr13	108015278	108015478	+	981.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29096.0	NM_001048250	75616.0	Mm.491164	NM_001048250	ENSMUSG00000071180	Smim15	2810008M24Rik	small integral membrane protein 15	protein-coding	20.0	24.5	19.5	395.5	48.0	20.0	22.5	16.0
Merged-chr2-62653267-2	chr2	62653178	62653378	+	553.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-7023.0	NM_001164477	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	9.0	5.5	5.0	117.0	21.5	5.0	8.5	10.0
Merged-chr15-27680782-4	chr15	27680689	27680889	+	988.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	753.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	19.0	23.0	14.5	280.5	33.5	12.0	19.0	23.0
Merged-chr7-130709649-1	chr7	130709549	130709749	+	594.0	f0_balb.idr	intron (NM_021314, intron 1 of 17)	intron (NM_021314, intron 1 of 17)	17093.0	NM_021314	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	0.0	3.0	12.0	94.5	17.0	5.5	13.5	5.0
Merged-chr18-11794449-4	chr18	11794390	11794590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44784.0	NM_001146287	63955.0	Mm.40717	NM_022021	ENSMUSG00000040957	Cables1	Cables|ik3-1	CDK5 and Abl enzyme substrate 1	protein-coding	86.5	71.5	98.0	1361.5	134.5	48.0	72.5	60.0
Merged-chr4-133814191-4	chr4	133814084	133814284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	60547.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	46.5	112.0	46.5	498.5	141.5	68.5	67.0	74.0
Merged-chr2-30967705-7	chr2	30967600	30967800	+	962.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144884, exon 1 of 5)	exon (NM_144884, exon 1 of 5)	218.0	NM_144884	30931.0	Mm.154994	NM_144884	ENSMUSG00000026849	Tor1a	DQ2|Dyt1|torsinA	torsin family 1, member A (torsin A)	protein-coding	11.5	22.0	20.0	80.0	65.5	28.0	17.0	29.0
Merged-chr9-61367805-3	chr9	61367713	61367913	+	952.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4553.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	4.5	40.0	5.5	50.5	28.5	11.5	6.0	11.5
Merged-chr13-63642760-4	chr13	63642662	63642862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69302.0	NM_001328514	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	5.0	19.0	7.5	220.0	55.0	23.5	36.5	35.0
Merged-chr10-99986924-3	chr10	99986817	99987017	+	782.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28904.0	NM_001347156	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	6.5	9.0	7.5	212.0	13.5	2.0	14.0	8.0
Merged-chr6-3182971-4	chr6	3182832	3183032	+	901.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105587.0	NR_036696	667335.0	Mm.380219	NR_036696	ENSMUSG00000106779	Gm8579	EG667335	spermatogenesis associated glutamate (E)-rich protein 4a pseudogene	pseudo	36.0	38.0	77.0	414.5	6.0	5.0	3.0	11.0
Merged-chr19-4097265-4	chr19	4097147	4097347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026373)	promoter-TSS (NM_026373)	-104.0	NM_026373	52004.0	Mm.29609	NM_026373	ENSMUSG00000024856	Cdk2ap2	5830466O21Rik|D19Ertd144e|Doc-1r	CDK2-associated protein 2	protein-coding	246.5	331.5	239.0	2974.5	659.5	219.5	240.0	186.0
Merged-chr5-75044629-4	chr5	75044524	75044724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028850)	promoter-TSS (NM_028850)	17.0	NM_028850	74277.0	Mm.239814	NM_028850	ENSMUSG00000029229	Chic2	1700081B18Rik|4930502K01Rik|BTL	cysteine-rich hydrophobic domain 2	protein-coding	83.5	141.5	69.5	894.5	170.5	93.5	105.5	38.0
Merged-chr16-17508876-4	chr16	17508777	17508977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331226)	promoter-TSS (NM_001331226)	194.0	NM_025808	66863.0	Mm.161726	NM_025808	ENSMUSG00000022761	Lztr1	1200003E21Rik|AI591627|AW550890	leucine-zipper-like transcriptional regulator, 1	protein-coding	62.5	93.0	47.0	820.5	117.5	76.0	75.5	53.0
Merged-chr6-13691871-4	chr6	13691787	13691987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13921.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	59.5	86.5	74.5	1514.0	157.5	48.5	55.0	50.5
Merged-chr11-16638683-5	chr11	16638663	16638863	+	976.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113440.0	NM_207655	13649.0	Mm.8534	NM_007912	ENSMUSG00000020122	Egfr	9030024J15Rik|AI552599|Erbb|Errb1|Errp|Wa5|wa-2|wa2	epidermal growth factor receptor	protein-coding	10.0	6.5	4.5	110.5	27.0	10.0	10.5	13.0
Merged-chr19-12830224-1	chr19	12830124	12830324	+	615.0	f0_balb.idr	intron (NM_134152, intron 7 of 8)	intron (NM_134152, intron 7 of 8)	-31553.0	NM_146702	258697.0	Mm.223132	NM_146702	ENSMUSG00000046272	Olfr1444	MOR202-4	olfactory receptor 1444	protein-coding	9.5	14.0	9.0	92.0	4.5	3.5	2.0	2.5
Merged-chr4-105164237-4	chr4	105164138	105164338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 1 of 5)	intron (NM_080555, intron 1 of 5)	6891.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	61.5	52.0	58.0	1254.5	198.0	62.5	80.5	66.0
Merged-chr12-3391555-4	chr12	3391462	3391662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008445, intron 5 of 7)	intron (NM_008445, intron 5 of 7)	26430.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	32.0	51.0	46.5	771.0	100.0	39.5	36.0	42.5
Merged-chr8-35429163-4	chr8	35428983	35429183	+	648.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53342.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	3.5	6.0	8.5	62.5	18.5	6.5	7.5	6.5
Merged-chr8-88619320-3	chr8	88619194	88619394	+	646.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16834.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	8.5	6.0	7.0	132.5	5.5	1.0	1.5	5.0
Merged-chr1-177463035-4	chr1	177462920	177463120	+	850.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1O|LTR|ERVL-MaLR	17199.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	4.0	13.0	10.0	183.5	22.5	9.0	11.0	12.0
Merged-chr2-173538199-4	chr2	173538121	173538321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15629.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	25.0	34.0	22.0	235.5	45.0	21.0	22.5	25.0
Merged-chr1-74997464-4	chr1	74997342	74997542	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029342, intron 2 of 4)	MTC|LTR|ERVL-MaLR	-45770.0	NM_010544	16147.0	Mm.439736	NM_010544	ENSMUSG00000006538	Ihh	HHG-2	Indian hedgehog	protein-coding	13.0	23.5	16.5	294.0	51.0	21.0	31.5	25.5
Merged-chr10-95563702-4	chr10	95563599	95563799	+	941.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027722, exon 1 of 5)	exon (NM_027722, exon 1 of 5)	447.0	NM_027722	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	10.0	19.0	21.0	155.0	30.0	11.5	12.5	15.5
Merged-chr10-80935979-2	chr10	80935879	80936079	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5888.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	1.5	12.5	10.5	43.5	36.0	5.5	9.5	7.5
Merged-chr5-136568103-4	chr5	136567982	136568182	+	788.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009986)	promoter-TSS (NM_009986)	-592.0	NM_001291238	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	10.0	4.0	11.5	80.5	22.0	5.5	5.0	8.0
Merged-chr3-152259633-4	chr3	152259542	152259742	+	909.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199465, intron 1 of 12)	intron (NM_199465, intron 1 of 12)	6153.0	NM_001357206	68810.0	Mm.200188	NM_199465	ENSMUSG00000039103	Nexn	1110046H09Rik|AA553326|NELIN	nexilin	protein-coding	23.5	36.5	8.0	224.0	25.5	11.0	12.5	3.5
Merged-chr19-8929492-4	chr19	8929406	8929606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009073)	promoter-TSS (NM_009073)	-150.0	NM_009073	19881.0	Mm.426094	NM_009073	ENSMUSG00000071648	Rom1	M101156|Rgsc1156|Rom-1|Rosp1|Tspan23	rod outer segment membrane protein 1	protein-coding	88.0	104.0	74.5	1388.5	194.0	101.5	127.5	96.0
Merged-chr11-99386064-4	chr11	99385944	99386144	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010660, exon 7 of 8)	exon (NM_010660, exon 7 of 8)	3320.0	NM_010660	16661.0	Mm.22662	NM_010660	ENSMUSG00000019761	Krt10	D130054E02Rik|K10|K1C1|Krt-1.10|Krt1-10	keratin 10	protein-coding	20.5	38.0	23.5	334.0	86.0	29.5	24.0	20.5
Merged-chr1-5508614-3	chr1	5508521	5508721	+	924.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-79872.0	NM_001204371	18387.0	Mm.7977	NM_011011	ENSMUSG00000025905	Oprk1	K-OR-1|KOR|KOR-1|MSL-1|Oprk2|R21	opioid receptor, kappa 1	protein-coding	12.0	13.0	12.5	133.0	11.0	3.0	8.0	13.5
Merged-chr6-87002901-4	chr6	87002770	87002970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177762, exon 20 of 20)	3' UTR (NM_177762, exon 20 of 20)	-6966.0	NM_001170591	56748.0	Mm.23809	NM_020045	ENSMUSG00000029993	Nfu1	0610006G17Rik|CGI-33|Hirip5	NFU1 iron-sulfur cluster scaffold	protein-coding	80.0	106.0	49.0	1494.0	105.5	36.5	52.0	69.0
Merged-chr18-62073871-4	chr18	62073768	62073968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	106113.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	52.5	55.0	77.0	833.0	70.0	24.5	53.5	30.5
Merged-chr2-60289733-3	chr2	60289674	60289874	+	986.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5290.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	15.0	6.0	14.0	138.5	26.0	4.0	4.5	3.5
Merged-chr15-98093418-4	chr15	98093318	98093518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144851, exon 1 of 18)	5' UTR (NM_144851, exon 1 of 18)	151.0	NM_144851	223870.0	Mm.384023	NM_144851	ENSMUSG00000033075	Senp1	2310046A20Rik|D15Ertd528e|E330036L07Rik|suPr-2	SUMO1/sentrin specific peptidase 1	protein-coding	59.5	79.5	35.5	568.0	137.5	56.0	60.5	57.0
Merged-chr1-43811169-4	chr1	43811067	43811267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026430, intron 1 of 14)	intron (NM_026430, intron 1 of 14)	16541.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	73.0	104.0	53.5	1455.0	115.0	46.0	50.5	55.0
Merged-chr12-87266286-4	chr12	87266162	87266362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142580)	promoter-TSS (NM_001142580)	24.0	NM_001142580	104799.0	Mm.208750	NM_134044	ENSMUSG00000021038	Vipas39	6720456H09Rik|9330175H22Rik|AI413782|SPE-39|Spe39|Vipar|hSPE-39	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog	protein-coding	92.5	105.5	81.5	1447.0	188.5	65.5	85.5	83.5
Merged-chr19-55098761-4	chr19	55098611	55098811	+	791.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356285, intron 3 of 22)	intron (NM_001356285, intron 3 of 22)	766.0	NM_008149	14732.0	Mm.210196	NM_008149	ENSMUSG00000024978	Gpam	GPAT|GPAT-1|GPAT1|P90	glycerol-3-phosphate acyltransferase, mitochondrial	protein-coding	10.0	11.5	12.0	192.5	25.0	4.0	6.0	9.0
Merged-chr1-183553375-3	chr1	183553277	183553477	+	855.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134129.0	NM_001308052	78772.0	Mm.29003	NM_030175	ENSMUSG00000053461	Hhipl2	4930507C10Rik|AW208802|Hhip3	hedgehog interacting protein-like 2	protein-coding	1.0	0.5	0.5	15.5	33.0	8.0	19.0	11.5
Merged-chr6-87010075-5	chr6	87009936	87010136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020045, intron 1 of 7)	CpG	200.0	NM_020045	56748.0	Mm.23809	NM_020045	ENSMUSG00000029993	Nfu1	0610006G17Rik|CGI-33|Hirip5	NFU1 iron-sulfur cluster scaffold	protein-coding	24.5	69.0	87.5	476.0	44.0	19.0	16.5	31.0
Merged-chr19-8983497-4	chr19	8983380	8983580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5804.0	NR_104460	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	61.0	61.5	53.0	472.0	81.5	41.0	60.5	34.5
Merged-chr2-60903699-4	chr2	60903591	60903791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-22253.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	32.0	50.5	50.5	586.5	102.5	50.0	67.5	62.5
Merged-chr19-4417390-2	chr19	4417290	4417490	+	818.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20313.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	17.5	6.0	6.0	113.5	17.5	12.0	6.0	10.0
Merged-chr9-4310932-4	chr9	4310834	4311034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164574, intron 1 of 2)	L2|LINE|L2	1118.0	NM_026962	69149.0	Mm.25946	NM_026962	ENSMUSG00000025893	Kbtbd3	2200003A07Rik|Bklhd3	kelch repeat and BTB (POZ) domain containing 3	protein-coding	46.0	118.5	82.0	1566.5	242.0	71.5	113.0	101.0
Merged-chr17-28720926-3	chr17	28720812	28721012	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168513, intron 3 of 11)	intron (NM_001168513, intron 3 of 11)	28344.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	18.0	12.5	16.5	196.5	21.5	4.0	6.5	7.0
Merged-chr5-24389499-4	chr5	24389405	24389605	+	938.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002897, intron 5 of 13)	intron (NM_001002897, intron 5 of 13)	2638.0	NM_001002897	213948.0	Mm.332252	NM_001002897	ENSMUSG00000038295	Atg9b	Apg912|Apg9l2|Apgdc2|Gm574|Nos3as|eONE|sONE	autophagy related 9B	protein-coding	14.0	33.0	16.5	194.0	53.0	18.5	23.0	18.5
Merged-chr8-22962256-4	chr8	22962164	22962364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12572.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	24.5	9.5	29.5	457.0	45.5	18.0	26.0	42.5
Merged-chr6-13684252-3	chr6	13684133	13684333	+	737.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-6267.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	8.0	11.0	9.0	106.5	13.5	4.5	4.5	6.0
Merged-chr10-67115227-4	chr10	67115121	67115321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12037.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	16.0	46.5	23.0	338.0	45.5	13.5	29.0	26.5
Merged-chr2-37430837-4	chr2	37430742	37430942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146253)	promoter-TSS (NM_146253)	77.0	NM_146253	241322.0	Mm.330182	NM_146253	ENSMUSG00000066798	Zbtb6	A830092L04Rik|ZID|Zfp482	zinc finger and BTB domain containing 6	protein-coding	67.0	61.5	39.5	896.5	190.5	48.0	75.0	54.5
Merged-chr1-171118430-4	chr1	171118335	171118535	+	911.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3226.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	16.5	29.5	8.5	155.0	30.0	11.5	13.0	16.0
Merged-chr18-36482663-4	chr18	36482562	36482762	+	788.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28167.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	8.5	57.5	20.5	134.5	33.5	9.0	11.5	4.0
Merged-chr10-93444576-4	chr10	93444470	93444670	+	848.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8826.0	NM_001313897	16993.0	Mm.271071	NM_008517	ENSMUSG00000015889	Lta4h	-	leukotriene A4 hydrolase	protein-coding	6.0	10.5	17.0	187.5	27.5	1.5	11.0	11.0
Merged-chr12-3572375-7	chr12	3572262	3572462	+	968.514282	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_149729)	promoter-TSS (NR_149729)	-29.0	NM_001162465	13528.0	Mm.286202	NM_007886	ENSMUSG00000071454	Dtnb	-	dystrobrevin, beta	protein-coding	7.0	15.0	10.5	52.5	41.0	16.5	9.5	9.0
Merged-chr17-3156354-4	chr17	3156257	3156457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134123, intron 3 of 19)	intron (NM_134123, intron 3 of 19)	41385.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	126.5	149.0	135.5	1751.0	243.0	91.0	139.0	93.0
Merged-chr3-133623443-8	chr3	133623307	133623507	+	991.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79017.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	22.5	20.0	20.0	183.5	22.5	15.5	12.5	6.5
Merged-chr4-116777245-3	chr4	116777133	116777333	+	986.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146151, intron 4 of 10)	L2|LINE|L2	30326.0	NM_026654	68276.0	Mm.30534	NM_026654	ENSMUSG00000028688	Toe1	4930584N22Rik|4933424D16Rik|AI413517	target of EGR1, member 1 (nuclear)	protein-coding	20.0	13.0	26.0	244.5	18.0	4.0	5.0	9.0
Merged-chr10-80475475-4	chr10	80475392	80475592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-19414.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	51.5	85.5	44.0	617.5	137.5	47.0	78.0	69.0
Merged-chr2-148585927-4	chr2	148585833	148586033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-86682.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	23.0	35.0	19.5	270.0	37.0	27.0	26.5	22.0
Merged-chr16-65664905-3	chr16	65664801	65665001	+	893.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-102204.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	3.0	3.5	3.5	51.5	26.0	7.5	13.5	4.5
Merged-chr8-95427782-4	chr8	95427675	95427875	+	946.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008187, intron 1 of 5)	intron (NM_008187, intron 1 of 5)	7094.0	NM_008187	14894.0	Mm.2080	NM_008187	ENSMUSG00000031796	Cfap20	2600014O15Rik|AL024127|Gtl3|T10-2A2	cilia and flagella associated protein 20	protein-coding	18.5	20.0	13.0	280.0	44.5	8.5	24.0	14.0
Merged-chr13-102860903-1	chr13	102860803	102861003	+	802.0	f0_balb.idr	intron (NM_175171, intron 4 of 28)	L2a|LINE|L2	100648.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	8.0	4.5	13.0	129.5	18.5	3.0	4.0	6.5
Merged-chr5-124377376-4	chr5	124377290	124377490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081203, intron 30 of 31)	intron (NM_001081203, intron 30 of 31)	-22762.0	NM_013812	13445.0	Mm.391838	NM_013812	ENSMUSG00000029394	Cdk2ap1	Apc10|Cdkap1|DORC1|Doc1|ST19|doc-1|p12	CDK2 (cyclin-dependent kinase 2)-associated protein 1	protein-coding	36.0	42.0	29.0	587.0	99.5	40.5	47.5	56.0
Merged-chr4-101293224-4	chr4	101293179	101293379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-27997.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	40.5	72.5	59.5	880.5	170.5	54.0	61.0	43.0
Merged-chr9-110781997-2	chr9	110781897	110782097	+	748.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16188.0	NM_153099	235628.0	Mm.292285	NM_153099	ENSMUSG00000044664	Prss42	Tessp2	protease, serine 42	protein-coding	6.5	4.0	6.0	108.0	5.0	5.0	5.0	7.5
Merged-chr5-32611585-4	chr5	32611485	32611685	+	905.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009535, exon 1 of 12)	5' UTR (NM_009535, exon 1 of 12)	414.0	NM_009535	22612.0	Mm.4558	NM_009535	ENSMUSG00000014932	Yes1	Yes|p61-Yes	YES proto-oncogene 1, Src family tyrosine kinase	protein-coding	9.5	4.5	10.5	100.5	23.5	7.5	6.5	16.5
Merged-chr4-153957209-4	chr4	153957093	153957293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163019)	promoter-TSS (NM_001163019)	-44.0	NM_175287	97159.0	Mm.7066	NM_175287	ENSMUSG00000047613	A430005L14Rik	C79672	RIKEN cDNA A430005L14 gene	protein-coding	161.0	183.5	158.0	1936.5	431.5	169.5	162.0	179.5
Merged-chr7-113180446-4	chr7	113180368	113180568	+	951.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-26997.0	NM_001243048	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	15.0	16.5	19.0	508.0	43.5	1.5	20.5	17.5
Merged-chr11-46431385-4	chr11	46431281	46431481	+	857.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5566.0	NM_001104557	66213.0	Mm.24159	NM_025426	ENSMUSG00000020397	Med7	1110063B05Rik|Crsp33|Crsp9	mediator complex subunit 7	protein-coding	13.0	20.5	6.0	114.5	30.0	4.0	17.5	15.5
Merged-chr14-54776333-4	chr14	54776211	54776411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	5575.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	30.0	69.5	27.0	728.0	70.5	39.0	26.0	32.0
Merged-chr4-55964192-4	chr4	55964095	55964295	+	981.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-431720.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	41.0	59.5	21.5	506.5	76.0	29.0	27.5	14.5
Merged-chr16-91396811-2	chr16	91396739	91396939	+	969.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 7 of 7)	intron (NM_001347258, intron 7 of 7)	-9396.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	6.0	6.5	6.0	53.0	16.0	5.5	5.5	9.5
Merged-chr12-100440282-3	chr12	100440171	100440371	+	952.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	intron (NM_001033213, intron 5 of 19)	80551.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	27.5	19.5	13.0	134.5	16.0	8.5	4.0	4.0
Merged-chr11-69260933-4	chr11	69260816	69261016	+	882.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23894.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	8.0	9.0	9.5	178.0	26.0	7.0	5.5	20.5
Merged-chr7-126378052-4	chr7	126377949	126378149	+	864.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023712)	promoter-TSS (NM_023712)	-115.0	NR_045537	73658.0	Mm.11112	NM_023712	ENSMUSG00000030741	Spns1	2210013K02Rik|Spin1|Spinl	spinster homolog 1	protein-coding	16.5	11.0	7.0	107.5	32.5	11.5	16.0	14.5
Merged-chr6-85037828-3	chr6	85037713	85037913	+	696.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 1 of 21)	intron (NM_177077, intron 1 of 21)	31700.0	NM_177077	75914.0	Mm.159621	NM_177077	ENSMUSG00000033769	Exoc6b	4930569O18Rik|G430127E12Rik|Sec15b|Sec15l2|mKIAA0919	exocyst complex component 6B	protein-coding	6.5	17.0	7.5	78.5	15.0	5.5	3.0	9.0
Merged-chr10-84390509-4	chr10	84390433	84390633	+	949.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 4 of 6)	intron (NM_001004363, intron 4 of 6)	49938.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	26.0	26.5	23.5	169.0	44.0	13.5	15.5	8.0
Merged-chr1-180850887-4	chr1	180850790	180850990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145943)	promoter-TSS (NM_145943)	-261.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	184.0	346.5	171.0	2423.5	700.0	293.5	394.5	284.0
Merged-chr15-12824753-4	chr15	12824648	12824848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029998)	promoter-TSS (NM_029998)	-67.0	NM_026799	14000.0	Mm.293142	NM_026799	ENSMUSG00000022191	Drosha	1110013A17Rik|AI874853|Etohi2|Rn3|Rnasen	drosha, ribonuclease type III	protein-coding	317.5	468.5	417.5	6666.5	715.5	221.0	343.0	246.5
Merged-chr3-132756429-4	chr3	132756319	132756519	+	918.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163455, intron 22 of 25)	intron (NM_001163455, intron 22 of 25)	72275.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	5.5	18.0	12.0	359.0	66.5	10.5	12.5	18.5
Merged-chr15-5242451-4	chr15	5242345	5242545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008965, exon 2 of 3)	exon (NM_008965, exon 2 of 3)	1742.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	15.5	21.0	27.0	200.0	37.0	14.5	25.5	24.5
Merged-chr9-25261202-4	chr9	25261109	25261309	+	832.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359738, intron 1 of 12)	intron (NM_001359738, intron 1 of 12)	8317.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	13.0	10.5	5.0	187.0	24.0	14.0	9.5	7.5
Merged-chr6-54284515-4	chr6	54284419	54284619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 7 of 12)	intron (NM_001163640, intron 7 of 12)	11697.0	NM_023543	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	80.0	105.0	78.0	1474.0	95.0	51.0	70.5	66.5
Merged-chr7-79935761-4	chr7	79935639	79935839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027420)	promoter-TSS (NM_027420)	-475.0	NM_027420	70420.0	Mm.34266	NM_027420	ENSMUSG00000039043	Arpin	2610034B18Rik	actin-related protein 2/3 complex inhibitor	protein-coding	115.5	142.5	84.5	1079.0	202.0	92.0	101.5	86.5
Merged-chr4-144905289-4	chr4	144905196	144905396	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	12159.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	17.5	36.5	26.5	455.5	42.0	15.5	22.5	15.0
Merged-chr1-63113716-7	chr1	63113644	63113844	+	989.595215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045915)	promoter-TSS (NR_045915)	523.0	NM_001081436	227195.0	Mm.74718	NM_001081436	ENSMUSG00000040865	Ino80d	7330405I11|A430093A21Rik|BC010584	INO80 complex subunit D	protein-coding	13.5	17.5	12.5	206.0	41.5	13.5	25.0	27.5
Merged-chr2-124752010-4	chr2	124751895	124752095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98414.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	23.5	35.5	23.0	459.5	53.5	16.0	26.0	33.5
Merged-chr16-18396681-6	chr16	18396593	18396793	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001272031, intron 1 of 16)	intron (NM_001272031, intron 1 of 16)	4130.0	NM_001272032	11877.0	Mm.293599	NM_033474	ENSMUSG00000000325	Arvcf	-	armadillo repeat gene deleted in velocardiofacial syndrome	protein-coding	6.0	17.0	17.0	232.0	10.0	6.0	6.0	4.5
Merged-chr10-80702100-4	chr10	80701987	80702187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027829)	promoter-TSS (NM_027829)	-267.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	357.0	599.0	445.5	5911.5	888.0	460.5	455.0	406.5
Merged-chr6-47594330-4	chr6	47594203	47594403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007971, intron 1 of 19)	CpG	727.0	NM_001146689	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	45.0	104.5	47.0	736.5	108.5	48.0	49.0	27.5
Merged-chr8-83738323-4	chr8	83738223	83738423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	intron (NM_011925, intron 1 of 19)	2988.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	143.0	172.5	140.5	1971.5	411.0	104.0	199.5	168.5
Merged-chr2-119289283-4	chr2	119289183	119289383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172269, intron 1 of 4)	intron (NM_172269, intron 1 of 4)	541.0	NM_172269	228545.0	Mm.294761	NM_172269	ENSMUSG00000034216	Vps18	9930024E13Rik	VPS18 CORVET/HOPS core subunit	protein-coding	70.5	75.5	36.5	727.5	107.0	33.0	45.0	49.0
Merged-chr1-191910797-4	chr1	191910684	191910884	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009579, exon 2 of 2)	3' UTR (NM_009579, exon 2 of 2)	-3257.0	NR_030669	98736.0	Mm.379232	NM_001024489	ENSMUSG00000055833	1700034H15Rik	4930557M11Rik|BB016121	RIKEN cDNA 1700034H15 gene	ncRNA	27.5	23.5	36.5	997.5	62.5	7.0	25.5	36.0
Merged-chr16-17146899-4	chr16	17146794	17146994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026940)	promoter-TSS (NM_026940)	-73.0	NM_026940	69101.0	Mm.101656	NM_026940	ENSMUSG00000041774	Ydjc	1810015A11Rik|4930521M19Rik	YdjC homolog (bacterial)	protein-coding	32.0	42.0	37.5	350.0	92.0	29.0	26.0	23.5
Merged-chr17-25833483-4	chr17	25833340	25833540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019719)	promoter-TSS (NM_019719)	-79.0	NM_019719	56424.0	Mm.277599	NM_019719	ENSMUSG00000039615	Stub1	0610033N24Rik|2210017D18Rik|2310040B03Rik|AW046544|Chip	STIP1 homology and U-Box containing protein 1	protein-coding	93.0	216.5	106.5	1579.5	324.5	110.5	160.0	131.5
Merged-chr16-90220613-4	chr16	90220505	90220705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011434)	promoter-TSS (NM_011434)	-137.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	196.0	271.0	195.5	2679.0	486.5	158.5	210.5	165.5
Merged-chr12-112670855-4	chr12	112670752	112670952	+	742.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331107, intron 2 of 13)	intron (NM_001331107, intron 2 of 13)	3424.0	NM_001165894	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	12.0	21.0	7.0	198.0	18.0	5.0	16.5	10.5
Merged-chr10-120848922-3	chr10	120848822	120849022	+	968.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 4 of 6)	intron (NM_177092, intron 4 of 6)	-8707.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	14.5	12.5	26.5	397.0	20.5	14.0	5.0	9.5
Merged-chr17-56926995-4	chr17	56926910	56927110	+	857.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022328, exon 2 of 12)	exon (NM_022328, exon 2 of 12)	8378.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	6.5	5.5	5.5	124.5	35.5	10.0	7.0	8.5
Merged-chr14-106787563-4	chr14	106787469	106787669	+	700.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-301049.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	5.5	15.0	10.5	232.5	14.0	13.0	7.5	12.0
Merged-chr1-128016321-4	chr1	128016223	128016423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 7 of 20)	intron (NM_001285945, intron 7 of 20)	86148.0	NM_027678	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	149.5	212.0	117.0	1934.0	365.0	127.5	165.5	150.5
Merged-chr19-5834001-4	chr19	5833917	5834117	+	883.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131212, exon 1 of 1)	non-coding (NR_131212, exon 1 of 1)	11461.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	12.0	20.0	20.0	173.5	19.5	4.5	5.5	10.5
Merged-chr9-99498100-4	chr9	99497989	99498189	+	809.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 16 of 21)	intron (NM_028768, intron 16 of 21)	27668.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	14.0	32.0	11.5	234.5	46.5	8.5	16.0	9.5
Merged-chr11-71996127-4	chr11	71996006	71996206	+	858.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41403.0	NM_053245	114230.0	Mm.95707	NM_053245	ENSMUSG00000040554	Aipl1	A930007I01Rik	aryl hydrocarbon receptor-interacting protein-like 1	protein-coding	7.5	14.0	11.0	229.5	18.0	4.0	10.0	6.0
Merged-chr8-95715882-4	chr8	95715805	95716005	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001035123)	promoter-TSS (NM_001035123)	-8.0	NM_001035123	66083.0	Mm.261321	NM_001035123	ENSMUSG00000031671	Setd6	0610039J04Rik|3110004G14Rik|AI413388|C76402	SET domain containing 6	protein-coding	30.0	18.0	24.0	420.5	54.0	12.5	35.0	23.5
Merged-chr19-55803302-4	chr19	55803187	55803387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	61477.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	47.0	42.5	77.5	947.5	55.0	20.0	41.5	23.0
Merged-chr5-142458923-1	chr5	142458823	142459023	+	850.0	f0_balb.idr	3' UTR (NM_199068, exon 9 of 9)	3' UTR (NM_199068, exon 9 of 9)	-5008.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	14.5	21.5	17.0	111.0	40.0	8.0	8.0	2.0
Merged-chr10-40301508-4	chr10	40301451	40301651	+	987.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009665, intron 1 of 7)	CpG	635.0	NM_007444	100041585.0	Mm.476925	NM_007444	ENSMUSG00000063953	Amd2	AdoMetDC|Amd1|Amd3	S-adenosylmethionine decarboxylase 2	protein-coding	23.0	23.0	17.5	271.5	45.5	13.5	16.5	19.5
Merged-chr6-145245428-3	chr6	145245336	145245536	+	898.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021284, intron 2 of 4)	(CAAA)n|Simple_repeat|Simple_repeat	4795.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	10.5	5.5	1.5	45.0	36.0	18.0	9.5	12.5
Merged-chr7-142497935-3	chr7	142497820	142498020	+	861.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163666)	promoter-TSS (NM_001163666)	-916.0	NM_001347549	21957.0	Mm.389992	NM_011620	ENSMUSG00000061723	Tnnt3	fTnT	troponin T3, skeletal, fast	protein-coding	3.5	7.0	11.0	73.0	11.5	7.0	10.0	8.5
Merged-chr14-21985426-3	chr14	21985373	21985573	+	754.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145459, exon 3 of 3)	exon (NM_145459, exon 3 of 3)	4128.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	5.0	1.0	1.0	111.5	16.0	5.5	5.5	9.5
Merged-chr5-33270786-4	chr5	33270690	33270890	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198860, intron 1 of 9)	intron (NM_001198860, intron 1 of 9)	4214.0	NM_001310535	13016.0	Mm.7286	NM_013502	ENSMUSG00000037373	Ctbp1	BARS|CtBP3/BARS|D4S115h|D5H4S115|D5H4S115E	C-terminal binding protein 1	protein-coding	12.0	9.5	3.0	211.0	50.5	8.5	22.0	20.0
Merged-chr18-46311922-4	chr18	46311814	46312014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160399)	promoter-TSS (NM_001160399)	14.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	101.5	101.0	78.5	1218.0	220.0	85.5	101.5	64.5
Merged-chr6-16903549-2	chr6	16903449	16903649	+	766.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS_Mm|LTR|ERV1	-5108.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	7.0	10.0	5.0	20.5	12.5	5.5	11.0	5.5
Merged-chr2-155764894-4	chr2	155764881	155765081	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10361.0	NM_010808	17391.0	Mm.389325	NM_010808	ENSMUSG00000027612	Mmp24	AU040325|MMP-21|MT5-MMP|MT5MMP|MTMMP5	matrix metallopeptidase 24	protein-coding	7.5	9.0	16.0	131.0	27.0	11.0	15.0	18.5
Merged-chr8-105331766-3	chr8	105331671	105331871	+	869.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177699, exon 15 of 22)	exon (NM_177699, exon 15 of 22)	5407.0	NM_025486	66320.0	Mm.29990	NM_025486	ENSMUSG00000014856	Tmem208	1700006C06Rik|2610030K20Rik|Hspc171	transmembrane protein 208	protein-coding	13.5	21.5	18.5	252.0	35.0	8.0	8.5	8.0
Merged-chr9-105759118-3	chr9	105759011	105759211	+	833.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102607, intron 13 of 36)	intron (NM_001102607, intron 13 of 36)	50537.0	NM_172927	245026.0	Mm.482507	NM_172927	ENSMUSG00000043719	Col6a6	E330019B14|E330026B02Rik	collagen, type VI, alpha 6	protein-coding	34.5	36.5	35.5	362.0	1.0	0.0	1.0	0.5
Merged-chr17-46254327-2	chr17	46254227	46254427	+	913.875	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001111142, exon 1 of 6)	5' UTR (NM_001111142, exon 1 of 6)	162.0	NM_001111142	224813.0	Mm.70999	NM_001111142	ENSMUSG00000071073	Lrrc73	Gm88	leucine rich repeat containing 73	protein-coding	10.5	18.0	5.0	145.0	33.0	2.5	9.5	10.0
Merged-chr4-130821130-3	chr4	130821037	130821237	+	730.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 3 of 4)	intron (NM_011520, intron 3 of 4)	28600.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	5.5	14.5	8.5	222.5	14.0	4.0	6.0	13.5
Merged-chr3-65319810-4	chr3	65319723	65319923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357358, intron 8 of 13)	intron (NM_001357358, intron 8 of 13)	-17138.0	NR_126080	102637797.0	Mm.446731	NR_126080	ENSMUSG00000104093	A330015K06Rik	-	RIKEN cDNA A330015K06 gene	ncRNA	113.5	151.0	147.5	1834.0	260.5	85.0	87.0	81.5
Merged-chr10-78457942-4	chr10	78457861	78458061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172134, intron 1 of 10)	intron (NM_172134, intron 1 of 10)	6987.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	71.5	75.0	59.0	1078.5	202.5	71.0	85.5	95.0
Merged-chr11-118104185-4	chr11	118104101	118104301	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167746, intron 19 of 80)	MER74A|LTR|ERVL	25018.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	33.0	45.0	8.5	325.0	55.5	30.0	47.0	31.0
Merged-chr17-24212464-4	chr17	24212372	24212572	+	962.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3085.0	NM_010947	18209.0	Mm.259542	NM_010947	ENSMUSG00000036473	Ntn3	Ntn2l	netrin 3	protein-coding	15.5	29.5	7.0	272.5	50.5	21.0	22.0	13.0
Merged-chr18-84442577-3	chr18	84442480	84442680	+	713.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 3 of 8)	intron (NM_001033341, intron 3 of 8)	146924.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	5.5	3.0	9.0	88.5	13.0	5.5	5.0	20.5
Merged-chr14-17967475-4	chr14	17967369	17967569	+	959.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 4 of 9)	intron (NM_001113417, intron 4 of 9)	-14175.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	19.0	30.5	35.5	370.5	51.0	11.5	30.5	15.0
Merged-chr6-120463956-6	chr6	120463815	120464015	+	974.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	intron (NM_008359, intron 1 of 12)	718.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	6.5	13.5	17.5	102.0	17.5	3.0	8.0	14.5
Merged-chr19-40693511-4	chr19	40693431	40693631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	33761.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	48.0	79.0	65.0	915.5	110.5	52.5	58.5	43.0
Merged-chr6-38342470-4	chr6	38342411	38342611	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	intron (NM_028864, intron 1 of 8)	12092.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	14.5	22.0	11.5	169.5	39.5	14.5	14.5	7.0
Merged-chr14-20294647-4	chr14	20294527	20294727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359868)	promoter-TSS (NM_001359868)	-63.0	NM_001359870	67725.0	Mm.317636	NM_026341	ENSMUSG00000021809	Nudt13	4933433B15Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 13	protein-coding	115.0	199.0	82.5	1094.0	271.5	112.0	125.0	75.0
Merged-chr10-70250947-4	chr10	70250845	70251045	+	810.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025807, intron 1 of 5)	intron (NM_025807, intron 1 of 5)	5669.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	9.0	8.0	17.0	206.5	24.0	9.5	25.5	21.0
Merged-chr15-95851816-4	chr15	95851706	95851906	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253813, intron 2 of 20)	intron (NM_001253813, intron 2 of 20)	-21734.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	23.0	39.0	49.0	684.5	59.0	15.0	23.0	18.0
Merged-chr12-77100615-3	chr12	77100521	77100721	+	780.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137483.0	NM_001252614	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	9.0	20.0	10.0	93.5	8.5	4.0	5.0	2.5
Merged-chr8-77435203-4	chr8	77435112	77435312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 3 of 22)	intron (NM_030113, intron 3 of 22)	-81844.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	128.5	196.0	147.5	1248.0	370.5	145.0	160.0	109.5
Merged-chr14-73140737-4	chr14	73140610	73140810	+	963.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1800.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	5.0	19.5	20.0	133.5	21.5	14.5	15.5	7.5
Merged-chr10-82793802-3	chr10	82793703	82793903	+	931.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B|LTR|ERVL	-18320.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	9.5	7.0	16.0	161.5	12.5	5.5	1.5	2.0
Merged-chr11-113777362-3	chr11	113777273	113777473	+	726.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25558.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	5.0	16.5	7.0	92.0	17.0	7.0	7.5	11.0
Merged-chr8-78626839-4	chr8	78626746	78626946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009981, intron 5 of 10)	intron (NM_001009981, intron 5 of 10)	117518.0	NM_001282108	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	51.0	50.5	59.5	851.5	77.0	30.0	35.0	41.5
Merged-chr3-116185418-4	chr3	116185338	116185538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-55750.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	27.0	50.0	22.5	483.5	69.0	27.0	41.5	36.0
Merged-chr19-10177316-4	chr19	10177218	10177418	+	881.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57C2|LTR|ERV1	-5570.0	NM_146094	76267.0	Mm.30158	NM_146094	ENSMUSG00000010663	Fads1	0710001O03Rik|A930006B21Rik|AI317215|DSD	fatty acid desaturase 1	protein-coding	11.0	33.5	13.5	131.0	25.5	12.0	3.5	2.5
Merged-chr1-189792751-4	chr1	189792679	189792879	+	938.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008976, intron 2 of 18)	intron (NM_008976, intron 2 of 18)	64511.0	NM_008976	19250.0	Mm.4498	NM_008976	ENSMUSG00000026604	Ptpn14	C130080N23Rik|PTP36	protein tyrosine phosphatase, non-receptor type 14	protein-coding	10.0	15.0	4.0	226.0	33.0	17.5	15.5	22.5
Merged-chr13-43398403-4	chr13	43398336	43398536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023554)	promoter-TSS (NM_023554)	60.0	NM_023554	70078.0	Mm.439927	NM_023554	ENSMUSG00000063200	Nol7	2210008F15Rik|5730556I21Rik|NOP27|RARG-1	nucleolar protein 7	protein-coding	70.0	107.5	94.5	658.5	212.5	81.5	74.5	79.5
Merged-chr1-155817766-1	chr1	155817666	155817866	+	906.6666869999999	f0_balb.idr	Intergenic	Intergenic	-4867.0	NM_001024945	104009.0	Mm.27035	NM_023268	ENSMUSG00000033684	Qsox1	1300003H02Rik|QSOX|Qscn6|SOx|b2b2673Clo	quiescin Q6 sulfhydryl oxidase 1	protein-coding	8.0	19.0	8.0	178.0	1.0	1.5	0.0	0.0
Merged-chr6-115823980-4	chr6	115823883	115824083	+	885.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110506, intron 1 of 8)	intron (NM_001110506, intron 1 of 8)	14429.0	NM_001110506	212516.0	Mm.333333	NM_198603	ENSMUSG00000030321	Efcab12	BB124106	EF-hand calcium binding domain 12	protein-coding	14.0	10.0	5.0	146.0	24.5	12.0	9.5	11.5
Merged-chr14-45388847-4	chr14	45388741	45388941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019425)	promoter-TSS (NM_019425)	-45.0	NM_019425	54342.0	Mm.312945	NM_019425	ENSMUSG00000037722	Gnpnat1	AU017428|AU040593|EMeg32|Gpnat1|Gsnpat	glucosamine-phosphate N-acetyltransferase 1	protein-coding	55.5	72.5	68.5	1215.5	103.5	35.5	58.5	56.0
Merged-chr19-11497433-4	chr19	11497336	11497536	+	871.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164202, intron 1 of 4)	intron (NM_001164202, intron 1 of 4)	5398.0	NM_001164202	666926.0	Mm.486382	NM_001164202	ENSMUSG00000058470	Gm8369	EG666926	predicted gene 8369	protein-coding	19.0	21.5	8.0	83.0	32.5	6.5	7.5	27.0
Merged-chr1-40294576-4	chr1	40294493	40294693	+	901.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123382, intron 4 of 10)	intron (NM_001123382, intron 4 of 10)	28007.0	NM_001123382	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	13.0	30.5	17.5	432.0	75.0	13.5	14.5	14.0
Merged-chr7-25250799-4	chr7	25250717	25250917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010155)	promoter-TSS (NM_010155)	-59.0	NM_010155	13875.0	Mm.8068	NM_010155	ENSMUSG00000040857	Erf	-	Ets2 repressor factor	protein-coding	105.0	164.0	71.5	1195.0	258.5	127.0	145.5	107.5
Merged-chr14-103891023-4	chr14	103890957	103891157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46581.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	63.5	74.0	50.0	1003.0	141.0	45.0	57.0	49.5
Merged-chr19-12010506-4	chr19	12010400	12010600	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26240.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	15.5	24.0	10.5	263.0	43.5	25.5	21.0	18.0
Merged-chr2-167895223-4	chr2	167895088	167895288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-37139.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	18.5	40.5	25.5	283.0	63.0	24.5	17.5	20.0
Merged-chr2-84529350-4	chr2	84529241	84529441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22468.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	38.5	48.5	23.0	238.5	55.0	16.5	20.5	21.0
Merged-chr13-42254049-4	chr13	42253953	42254153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47423.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	35.5	50.0	38.5	532.5	51.0	18.0	25.0	28.5
Merged-chr11-54995360-3	chr11	54995279	54995479	+	886.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 14 of 24)	MIR3|SINE|MIR	-32439.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	10.5	5.5	4.5	150.5	20.0	8.0	7.5	6.5
Merged-chr5-99227759-4	chr5	99227721	99227921	+	826.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 10 of 13)	intron (NM_181318, intron 10 of 13)	25106.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	9.0	14.0	4.5	51.5	23.5	12.5	7.5	5.5
Merged-chr4-62663578-4	chr4	62663457	62663657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-10417.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	38.0	47.5	50.0	547.0	128.0	28.0	53.0	63.0
Merged-chr4-141731977-4	chr4	141731888	141732088	+	834.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8569.0	NM_001017966	68817.0	Mm.393721	NM_001017966	ENSMUSG00000078515	Ddi2	1110056G13Rik|1700027M01Rik|9130022E05Rik|AI604911|AU040698	DNA-damage inducible protein 2	protein-coding	9.5	5.5	8.0	95.5	19.0	8.0	5.5	8.5
Merged-chr14-103346036-3	chr14	103345937	103346137	+	849.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 1 of 84)	(CA)n|Simple_repeat|Simple_repeat	763.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	13.0	8.5	11.0	134.5	23.0	12.0	8.5	13.5
Merged-chr2-122377478-4	chr2	122377372	122377572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8554.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	157.5	212.0	167.5	1619.5	422.5	134.5	153.0	192.0
Merged-chr11-117332391-4	chr11	117332275	117332475	+	875.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113488)	promoter-TSS (NM_001113488)	62.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	20.0	21.5	9.0	146.0	26.0	4.5	10.0	13.0
Merged-chr6-88306884-3	chr6	88306797	88306997	+	775.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149744, intron 3 of 5)	intron (NR_149744, intron 3 of 5)	84629.0	NM_019964	56691.0	Mm.272871	NM_019964	ENSMUSG00000048206	Dnajb8	1700016F14Rik|1700031F10Rik|AI326313|mDj6	DnaJ heat shock protein family (Hsp40) member B8	protein-coding	7.5	8.5	6.5	89.5	11.0	13.0	6.0	5.5
Merged-chr12-3744232-3	chr12	3744153	3744353	+	664.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-62727.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	6.0	15.5	8.0	127.5	10.5	3.5	7.0	2.5
Merged-chr2-52072801-4	chr2	52072711	52072911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175238)	promoter-TSS (NM_175238)	-26.0	NM_001355415	51869.0	Mm.254530	NM_175238	ENSMUSG00000036202	Rif1	5730435J01Rik|6530403D07Rik|AU016181|AW549474|D2Ertd145e	replication timing regulatory factor 1	protein-coding	74.0	90.5	75.5	1517.5	193.0	60.0	105.5	75.5
Merged-chr2-122126384-4	chr2	122126283	122126483	+	785.295837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 7 of 17)	intron (NM_026251, intron 7 of 17)	-7997.0	NM_145531	214585.0	Mm.222303	NM_145531	ENSMUSG00000033396	Spg11	6030465E24Rik|A330015I11|C530005A01Rik	SPG11, spatacsin vesicle trafficking associated	protein-coding	14.5	14.0	13.0	212.0	20.5	4.5	8.0	13.5
Merged-chr1-92180878-2	chr1	92180777	92180977	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_207225)	promoter-TSS (NM_207225)	-536.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	103.5	126.0	86.0	1491.0	275.5	124.0	132.0	146.0
Merged-chr17-55959327-7	chr17	55959293	55959493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_108021)	promoter-TSS (NR_108021)	8.0	NR_108021	100504333.0	Mm.391908	NR_108021	ENSMUSG00000097077	Gm16712	-	predicted gene, 16712	ncRNA	108.0	157.0	78.5	1081.5	231.0	99.0	104.5	132.5
Merged-chr8-119837616-3	chr8	119837523	119837723	+	867.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	2956.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	9.0	15.5	8.5	71.0	32.0	7.0	8.5	18.5
Merged-chr3-32409205-3	chr3	32409138	32409338	+	691.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26913.0	NM_008839	18706.0	Mm.260521	NM_008839	ENSMUSG00000027665	Pik3ca	6330412C24Rik|caPI3K|p110|p110alpha	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha	protein-coding	11.0	21.0	11.0	53.5	5.5	6.0	2.5	9.5
Merged-chr12-17666795-4	chr12	17666687	17666887	+	953.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24022.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	16.0	18.5	8.0	165.5	34.0	11.0	25.5	19.0
Merged-chr5-100675120-4	chr5	100674999	100675199	+	831.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027978)	promoter-TSS (NM_027978)	-843.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	16.0	17.0	8.5	113.5	29.5	12.5	10.0	12.0
Merged-chr11-4094563-4	chr11	4094461	4094661	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026443, intron 1 of 3)	intron (NM_026443, intron 1 of 3)	870.0	NM_026443	67900.0	Mm.41719	NM_026443	ENSMUSG00000004748	Mtfp1	1700020C11Rik|2610507A21Rik|AV005788|Mtp18	mitochondrial fission process 1	protein-coding	12.0	16.0	12.0	204.0	34.5	11.0	18.0	17.0
Merged-chr7-89403262-2	chr7	89403166	89403366	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 1 of 14)	intron (NM_001360746, intron 1 of 14)	956.0	NM_001360746	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	7.0	27.0	9.0	89.0	18.5	7.5	6.0	7.5
Merged-chr6-113638494-4	chr6	113638413	113638613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172161)	promoter-TSS (NM_172161)	46.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	130.0	231.0	145.0	1719.5	328.0	133.5	152.0	133.5
Merged-chr5-100588331-4	chr5	100588226	100588426	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16121.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	26.0	30.5	38.0	550.5	125.0	31.5	36.5	21.5
Merged-chr12-75413936-3	chr12	75413843	75414043	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175644, intron 2 of 2)	intron (NM_175644, intron 2 of 2)	2838.0	NM_175644	217674.0	Mm.252250	NM_175644	ENSMUSG00000048982	Gphb5	OGH|Zlut1	glycoprotein hormone beta 5	protein-coding	8.0	7.5	4.5	77.0	14.5	2.5	9.5	13.0
Merged-chr8-84639429-7	chr8	84639321	84639521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007578, exon 47 of 47)	exon (NM_007578, exon 47 of 47)	23431.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	93.5	179.0	38.0	975.5	350.0	202.0	189.5	116.5
Merged-chr7-28811417-4	chr7	28811321	28811521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177301, intron 1 of 12)	CpG	531.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	57.5	127.0	71.0	1039.0	182.0	68.5	63.0	90.5
Merged-chr6-52401636-4	chr6	52401544	52401744	+	891.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86812.0	NR_038163	70593.0	Mm.158412	NR_038163	ENSMUSG00000086126	Evx1os	5730457N03Rik|Evx1as	even skipped homeotic gene 1, opposite strand	ncRNA	19.0	25.0	14.0	446.0	22.0	8.5	15.5	6.0
Merged-chr4-105204385-4	chr4	105204298	105204498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 2 of 5)	MIRc|SINE|MIR	47051.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	21.0	31.0	48.5	613.0	75.5	20.0	40.5	45.5
Merged-chr7-19357346-4	chr7	19357243	19357443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007948)	TTS (NM_007948)	2140.0	NM_145822	70333.0	Mm.171370	NM_145822	ENSMUSG00000047649	Cd3eap	1190028F09|2610103M17Rik|ASE-1|Ase1|CAST|PAF49	CD3E antigen, epsilon polypeptide associated protein	protein-coding	31.0	31.0	15.5	313.5	74.0	22.5	40.0	35.5
Merged-chr8-120436911-4	chr8	120436826	120437026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51940.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	34.0	66.5	38.0	612.0	140.5	43.5	51.5	29.5
Merged-chr5-19896053-4	chr5	19895969	19896169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	MTD|LTR|ERVL-MaLR	-11449.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	88.5	79.5	100.5	1934.0	217.5	96.0	126.0	66.5
Merged-chr3-51276221-4	chr3	51276129	51276329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073429)	promoter-TSS (NR_073429)	-532.0	NR_073429	67746.0	Mm.441177	NR_073429	ENSMUSG00000087440	4930577N17Rik	-	RIKEN cDNA 4930577N17 gene	ncRNA	302.0	487.0	408.0	6091.5	709.0	305.0	354.0	308.0
Merged-chr3-95994682-4	chr3	95994570	95994770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023320, intron 2 of 5)	intron (NM_023320, intron 2 of 5)	1169.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	20.0	21.5	27.0	396.5	51.0	18.5	24.0	31.0
Merged-chr6-72899969-4	chr6	72899902	72900102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347231)	promoter-TSS (NM_001347231)	-23.0	NM_019715	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	53.0	67.5	57.0	815.0	87.0	28.5	42.5	44.5
Merged-chr11-58643624-1	chr11	58643524	58643724	+	568.0	f1_balb.idr	intron (NM_001039047, intron 2 of 5)	intron (NM_001039047, intron 2 of 5)	3159.0	NM_001039047	216781.0	Mm.339507	NM_001039047	ENSMUSG00000037124	Trim58	Gm16|Gm1783	tripartite motif-containing 58	protein-coding	10.5	7.5	11.0	30.0	6.0	6.5	6.5	8.5
Merged-chr15-59866896-4	chr15	59866787	59866987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71928.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	90.0	193.0	92.5	1157.0	229.0	87.5	99.0	67.5
Merged-chr19-44344075-4	chr19	44344034	44344234	+	918.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183216, intron 5 of 5)	B1_Mur4|SINE|Alu	10808.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	1.5	8.5	5.0	69.5	30.5	6.0	7.0	16.5
Merged-chr11-98801615-3	chr11	98801513	98801713	+	972.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001361932)	TTS (NM_001361932)	2959.0	NM_001361934	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	16.5	14.5	16.5	251.5	19.5	5.5	5.0	13.5
Merged-chr2-33736936-3	chr2	33736831	33737031	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 9 of 9)	intron (NM_175184, intron 9 of 9)	-68885.0	NR_045729	320482.0	Mm.442057	NR_045729	ENSMUSG00000086484	Nron	A630071L07Rik|Gm24353	non-protein coding RNA, repressor of NFAT	ncRNA	6.0	10.5	3.5	69.5	10.0	13.0	10.5	9.0
Merged-chr12-83594864-3	chr12	83594764	83594964	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183154, exon 2 of 12)	exon (NM_183154, exon 2 of 12)	2358.0	NM_001359167	217695.0	Mm.59257	NM_183154	ENSMUSG00000042628	Zfyve1	DFCP1|G630053K23|TAFF1|ZNFN2A1|mKIAA1589	zinc finger, FYVE domain containing 1	protein-coding	14.0	35.0	10.5	43.0	8.5	2.0	3.0	5.5
Merged-chr15-95772493-4	chr15	95772393	95772593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-18350.0	NM_175344	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	45.5	47.5	47.5	646.5	77.0	25.0	41.0	45.5
Merged-chr8-47690799-4	chr8	47690695	47690895	+	915.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15636.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	26.5	32.0	16.5	212.5	26.0	8.0	14.0	12.0
Merged-chr10-123209709-2	chr10	123209599	123209799	+	845.333374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-12680.0	NM_001301628	14479.0	Mm.244209	NM_027604	ENSMUSG00000020124	Usp15	4921514G19Rik|AI327321|E430033I05Rik|Gcap18	ubiquitin specific peptidase 15	protein-coding	9.5	8.0	5.5	102.5	6.0	2.0	4.0	6.0
Merged-chr6-120193332-4	chr6	120193235	120193435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347432)	promoter-TSS (NM_001347432)	-488.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	64.5	115.5	51.0	981.0	113.0	51.0	66.0	61.0
Merged-chr19-34193346-4	chr19	34193200	34193400	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360717, exon 1 of 12)	5' UTR (NM_001360717, exon 1 of 12)	366.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	7.5	20.0	9.5	159.5	26.5	6.0	14.5	8.5
Merged-chr17-81518838-4	chr17	81518762	81518962	+	838.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	219525.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	10.0	12.5	7.0	181.0	27.0	5.0	3.5	21.5
Merged-chr9-22156791-4	chr9	22156710	22156910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082532)	promoter-TSS (NM_001082532)	-36.0	NM_001082532	66268.0	Mm.28924	NM_025457	ENSMUSG00000010607	Pigyl	1810008A14Rik|PIG-Y|Pigy	phosphatidylinositol glycan anchor biosynthesis, class Y-like	protein-coding	178.5	250.5	162.5	2539.5	464.0	165.0	272.0	187.5
Merged-chr9-75410134-4	chr9	75410035	75410235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027418)	promoter-TSS (NM_027418)	-49.0	NR_040719	71274.0	Mm.399152	NR_040719	ENSMUSG00000097021	4933433G15Rik	4921522K19Rik	RIKEN cDNA 4933433G15 gene	ncRNA	373.0	513.0	419.0	4721.0	984.0	369.0	442.0	383.5
Merged-chr7-121280373-4	chr7	121280279	121280479	+	962.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-111917.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	12.0	21.0	18.0	269.5	36.5	20.5	6.0	13.5
Merged-chr19-5601921-4	chr19	5601870	5602070	+	882.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026616)	promoter-TSS (NM_026616)	97.0	NM_026616	68209.0	Mm.246200	NM_026616	ENSMUSG00000024925	Rnaseh2c	1500026D16Rik|AYP1	ribonuclease H2, subunit C	protein-coding	6.5	10.5	11.0	119.0	11.0	12.5	12.5	10.0
Merged-chr7-144939805-4	chr7	144939709	144939909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007631, exon 1 of 5)	5' UTR (NM_007631, exon 1 of 5)	116.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	35.5	73.0	23.0	407.5	118.0	39.5	51.5	38.0
Merged-chr16-85800828-3	chr16	85800733	85800933	+	816.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009621, intron 1 of 8)	intron (NM_009621, intron 1 of 8)	2280.0	NM_009621	11504.0	Mm.1421	NM_009621	ENSMUSG00000022893	Adamts1	ADAM-TS1|ADAMTS|ADAMTS-1|C3-C5|METH-1|METH1	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 1	protein-coding	26.0	30.0	11.5	472.5	11.5	2.5	1.0	1.5
Merged-chr5-99250023-4	chr5	99249934	99250134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	2893.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	19.5	53.5	70.5	864.5	109.5	35.0	80.5	60.0
Merged-chr7-27228621-4	chr7	27228537	27228737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181593)	promoter-TSS (NM_181593)	-40.0	NM_181593	233011.0	Mm.30963	NM_181593	ENSMUSG00000003752	Itpkc	9130023N17Rik	inositol 1,4,5-trisphosphate 3-kinase C	protein-coding	234.0	413.0	241.0	2713.5	666.5	237.5	257.5	215.0
Merged-chr7-19023555-4	chr7	19023431	19023631	+	943.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026605)	promoter-TSS (NM_026605)	8.0	NM_008260	15377.0	Mm.42260	NM_008260	ENSMUSG00000040891	Foxa3	Hnf-3g|Hnf3g|Tcf-3g|Tcf3g	forkhead box A3	protein-coding	9.5	8.0	11.5	135.5	42.0	14.0	15.0	18.0
Merged-chr9-69398019-5	chr9	69397982	69398182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145618)	promoter-TSS (NM_145618)	84.0	NM_145618	93697.0	Mm.35911	NM_145618	ENSMUSG00000032235	Ice2	B230343B06Rik|Narg2	interactor of little elongation complex ELL subunit 2	protein-coding	20.0	18.5	21.5	329.5	50.5	19.0	17.5	27.5
Merged-chr11-51617976-6	chr11	51617907	51618107	+	775.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1766.0	NM_026631	52530.0	Mm.28203	NM_026631	ENSMUSG00000001056	Nhp2	2410130M07Rik|D11Ertd175e|Nola2	NHP2 ribonucleoprotein	protein-coding	5.5	12.5	4.0	47.5	26.0	10.0	9.5	9.0
Merged-chr1-59143016-2	chr1	59142916	59143116	+	766.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164682, intron 12 of 22)	B3|SINE|B2	18620.0	NM_145143	227157.0	Mm.474049	NM_145143	ENSMUSG00000079550	Mpp4	Dlg6	membrane protein, palmitoylated 4 (MAGUK p55 subfamily member 4)	protein-coding	3.0	14.5	3.0	71.0	12.5	5.5	9.0	9.5
Merged-chr1-34005813-4	chr1	34005710	34005910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 3 of 102)	intron (NM_001276764, intron 3 of 102)	-6015.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	35.5	40.5	35.5	590.0	66.0	30.5	39.5	36.5
Merged-chr4-56026833-3	chr4	56026738	56026938	+	822.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-494363.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	10.0	6.0	12.5	165.0	18.0	4.0	5.5	11.0
Merged-chr1-154031047-3	chr1	154030945	154031145	+	861.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131116.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	9.0	8.0	6.5	82.0	30.0	8.0	6.0	6.0
Merged-chr10-120979441-4	chr10	120979337	120979537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081193)	promoter-TSS (NM_001081193)	-107.0	NM_001081193	380664.0	Mm.339371	NM_001081193	ENSMUSG00000048661	Lemd3	AI316861|Man1	LEM domain containing 3	protein-coding	91.0	199.0	125.0	1574.0	314.0	87.0	157.0	114.0
Merged-chr7-80180027-4	chr7	80179989	80180189	+	878.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6752.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	9.0	8.0	1.0	144.5	42.0	9.5	21.0	16.5
Merged-chr6-124425186-1	chr6	124425086	124425286	+	551.0	f0_balb.idr	Intergenic	Intergenic	-9331.0	NM_001360570	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	11.5	7.0	0.0	72.5	10.0	5.0	4.5	8.5
Merged-chr2-145813023-4	chr2	145812908	145813108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	26892.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	130.0	185.5	187.0	2818.0	313.5	139.0	186.5	135.5
Merged-chr8-94364873-4	chr8	94364782	94364982	+	913.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 24 of 24)	intron (NM_019415, intron 24 of 24)	-21547.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	10.5	32.5	10.5	133.0	35.0	24.5	23.0	20.0
Merged-chr6-125573396-4	chr6	125573290	125573490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 6 of 51)	intron (NM_011708, intron 6 of 51)	20442.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	72.5	133.0	48.0	895.5	199.5	58.0	79.5	61.0
Merged-chr2-170169347-3	chr2	170169252	170169452	+	803.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26677.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	22.0	10.5	9.0	56.5	8.5	6.5	5.0	4.0
Merged-chr10-127511293-2	chr10	127511193	127511393	+	830.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3646.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	4.0	8.5	2.5	25.5	10.0	4.5	5.0	6.5
Merged-chr5-43737698-3	chr5	43737626	43737826	+	755.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359906, intron 36 of 37)	intron (NM_001359906, intron 36 of 37)	44423.0	NM_001159963	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	12.0	12.0	23.0	317.5	0.0	3.5	1.0	1.0
Merged-chr4-100548145-4	chr4	100548024	100548224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033773, intron 9 of 9)	intron (NM_001033773, intron 9 of 9)	69257.0	NM_001033773	381534.0	Mm.318133	NM_001033773	ENSMUSG00000069733	Ube2u	-	ubiquitin-conjugating enzyme E2U (putative)	protein-coding	43.5	49.0	45.0	967.0	115.5	46.0	72.0	53.0
Merged-chr12-41487191-3	chr12	41487076	41487276	+	925.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	-1119.0	NM_010733	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	9.5	11.0	9.5	160.5	12.5	10.0	4.0	10.0
Merged-chr8-125061139-3	chr8	125061067	125061267	+	851.194458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 1 of 12)	RLTR40|LTR|ERVK	6972.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	2.0	0.0	1.5	33.5	23.5	8.5	15.0	14.0
Merged-chr13-74000708-3	chr13	74000620	74000820	+	684.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-8699.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	5.0	10.0	7.5	89.5	30.5	1.0	5.0	5.0
Merged-chr4-120054329-4	chr4	120054240	120054440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-106866.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	37.5	49.5	37.0	643.5	112.5	29.5	38.5	60.0
Merged-chr10-122105574-3	chr10	122105458	122105658	+	760.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8456.0	NM_153059	216395.0	Mm.236764	NM_153059	ENSMUSG00000034620	Tmem5	6330415D21Rik	transmembrane protein 5	protein-coding	9.0	8.5	4.5	140.0	25.0	4.0	9.5	5.0
Merged-chr10-86065173-4	chr10	86065072	86065272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013722, intron 10 of 13)	intron (NM_013722, intron 10 of 13)	-30682.0	NR_038024	78170.0	Mm.444790	NR_038024	ENSMUSG00000112493	4930486F22Rik	-	RIKEN cDNA 4930486F22 gene	ncRNA	40.0	72.0	74.5	847.0	270.0	61.5	122.5	106.0
Merged-chr14-58284666-4	chr14	58284549	58284749	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	211963.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	13.0	17.0	15.5	225.5	47.0	14.0	38.0	20.5
Merged-chr18-82464814-4	chr18	82464664	82464864	+	901.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-10359.0	NM_001025245	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	4.0	9.5	12.0	131.0	25.0	8.0	9.0	15.0
Merged-chr9-95559462-4	chr9	95559361	95559561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198414)	promoter-TSS (NM_198414)	-356.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	24.0	28.5	40.0	430.0	68.5	17.5	19.0	29.5
Merged-chr11-73049482-2	chr11	73049382	73049582	+	726.799988	f1_balb.idr|f1_c57bl6.idr	intron (NM_025818, intron 1 of 12)	intron (NM_025818, intron 1 of 12)	1615.0	NM_025818	66874.0	Mm.41903	NM_025818	ENSMUSG00000020783	Ncbp3	1200014J11Rik|C130061O14Rik|C78393	nuclear cap binding subunit 3	protein-coding	7.0	7.5	6.0	71.0	14.0	11.0	10.5	9.5
Merged-chr2-132029245-4	chr2	132029129	132029329	+	981.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 1 of 10)	CpG	759.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	25.5	23.0	15.5	363.0	30.0	10.0	27.5	29.5
Merged-chr11-54029207-4	chr11	54029088	54029288	+	928.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1084.0	NM_001330304	30805.0	Mm.274590	NM_019687	ENSMUSG00000020334	Slc22a4	Octn1	solute carrier family 22 (organic cation transporter), member 4	protein-coding	25.5	22.0	19.0	218.0	39.0	19.0	13.0	21.0
Merged-chr9-90109574-4	chr9	90109488	90109688	+	964.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 2 of 12)	intron (NM_001039147, intron 2 of 12)	5232.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	12.0	24.0	9.5	292.0	52.5	10.5	25.0	23.5
Merged-chr1-190169518-3	chr1	190169393	190169593	+	935.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360827)	promoter-TSS (NM_001360827)	22.0	NM_001360827	19130.0	Mm.132579	NM_008937	ENSMUSG00000010175	Prox1	A230003G05Rik|PROX-1	prospero homeobox 1	protein-coding	5.5	17.0	15.0	146.5	4.5	3.5	0.0	8.0
Merged-chr10-80159243-4	chr10	80159183	80159383	+	983.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021565)	TTS (NM_021565)	-8556.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	14.0	26.0	12.5	124.0	31.0	19.5	10.5	14.5
Merged-chr3-83817852-4	chr3	83817734	83817934	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23774.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	8.5	15.5	7.5	221.0	35.0	17.5	11.5	8.5
Merged-chr16-91390281-2	chr16	91390181	91390381	+	796.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 5 of 7)	B3A|SINE|B2	-15954.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	9.0	3.5	2.5	35.0	9.5	7.5	6.0	5.5
Merged-chr6-57542197-4	chr6	57542096	57542296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-6770.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	33.0	32.5	32.0	480.0	55.5	35.0	24.5	25.0
Merged-chr12-105785129-4	chr12	105785058	105785258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011112, intron 1 of 21)	CpG	461.0	NM_001347440	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	65.5	65.0	44.5	600.5	119.5	62.5	69.0	38.5
Merged-chr11-51349829-4	chr11	51349735	51349935	+	912.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153393, intron 2 of 28)	intron (NM_153393, intron 2 of 28)	59915.0	NM_153393	237759.0	Mm.154093	NM_153393	ENSMUSG00000063564	Col23a1	2810458L13Rik|AI429655	collagen, type XXIII, alpha 1	protein-coding	14.5	16.0	11.0	234.0	25.0	12.0	19.0	9.0
Merged-chr14-103815746-3	chr14	103815643	103815843	+	973.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007904, exon 7 of 7)	3' UTR (NM_007904, exon 7 of 7)	27958.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	12.5	27.5	22.0	339.0	16.0	7.0	15.5	11.5
Merged-chr2-5966185-3	chr2	5966079	5966279	+	946.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081132, intron 3 of 21)	intron (NM_001081132, intron 3 of 21)	14710.0	NM_001081132	326622.0	Mm.31102	NM_001081132	ENSMUSG00000043241	Upf2	-	UPF2 regulator of nonsense transcripts homolog (yeast)	protein-coding	17.5	19.5	4.0	145.0	16.0	9.0	11.0	21.5
Merged-chr1-135682446-4	chr1	135682342	135682542	+	806.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-37621.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	19.0	12.0	3.0	109.0	34.5	5.0	10.0	6.5
Merged-chr5-75043306-2	chr5	75043206	75043406	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028850, intron 1 of 5)	intron (NM_028850, intron 1 of 5)	1335.0	NM_028850	74277.0	Mm.239814	NM_028850	ENSMUSG00000029229	Chic2	1700081B18Rik|4930502K01Rik|BTL	cysteine-rich hydrophobic domain 2	protein-coding	6.5	6.5	7.5	28.0	10.0	6.0	4.5	7.0
Merged-chr5-139327959-4	chr5	139327856	139328056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-2492.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	64.5	59.5	55.5	669.5	122.0	34.0	36.0	54.5
Merged-chr2-32876078-4	chr2	32875965	32876165	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146119)	promoter-TSS (NM_146119)	-69.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	27.0	50.0	37.0	531.0	75.5	30.0	18.0	23.5
Merged-chr1-156454584-1	chr1	156454484	156454684	+	744.666687	f0_balb.idr	intron (NM_009230, intron 3 of 15)	intron (NM_009230, intron 3 of 15)	19744.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	9.5	6.0	10.0	106.5	10.5	1.5	3.0	4.5
Merged-chr4-136891022-7	chr4	136890843	136891043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007574, intron 2 of 2)	intron (NM_007574, intron 2 of 2)	1971.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	21.5	32.5	16.5	227.0	46.0	15.0	13.5	22.0
Merged-chr8-88635616-1	chr8	88635516	88635716	+	952.3333130000001	f1_c57bl6.idr	intron (NM_027840, intron 1 of 3)	intron (NM_027840, intron 1 of 3)	512.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	5.0	6.5	15.5	99.5	50.0	19.0	23.5	25.5
Merged-chr13-24806283-3	chr13	24806181	24806381	+	887.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024473, intron 3 of 4)	intron (NM_024473, intron 3 of 4)	4624.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	7.5	4.5	11.0	107.0	25.0	4.5	11.5	5.5
Merged-chr11-106999611-4	chr11	106999509	106999709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010655)	promoter-TSS (NM_010655)	-84.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	94.5	136.5	85.0	927.0	288.5	130.0	81.0	100.5
Merged-chr2-180701252-4	chr2	180701135	180701335	+	933.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291432, intron 1 of 5)	intron (NM_001291432, intron 1 of 5)	867.0	NM_011805	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	8.5	32.0	26.5	92.0	37.5	13.0	23.5	27.0
Merged-chr7-58677364-3	chr7	58677205	58677405	+	668.416687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009728, intron 1 of 20)	intron (NM_009728, intron 1 of 20)	19103.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	2.5	6.5	2.0	17.0	24.5	7.5	5.0	16.5
Merged-chr11-97987771-4	chr11	97987662	97987862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1316.0	NM_001163608	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	39.5	77.0	46.5	625.0	141.0	51.5	54.5	32.5
Merged-chr9-104306972-4	chr9	104306859	104307059	+	790.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019807, exon 9 of 11)	exon (NM_019807, exon 9 of 11)	30763.0	NM_019807	56318.0	Mm.19941	NM_019807	ENSMUSG00000032561	Acpp	5'-NT|A030005E02Rik|FRAP|Lap|PAP|Ppal	acid phosphatase, prostate	protein-coding	5.0	11.5	5.0	100.0	58.5	7.5	8.5	14.0
Merged-chr6-147116768-3	chr6	147116657	147116857	+	679.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25682.0	NM_001081237	232539.0	Mm.491206	NM_001081237	ENSMUSG00000040102	Klhl42	A330079N23Rik|AI450355|C230080I20Rik|Ctb9|Klhdc5|mKIAA1340	kelch-like 42	protein-coding	5.5	6.5	1.5	70.0	26.0	8.5	10.0	11.5
Merged-chr5-20702094-11	chr5	20702071	20702271	+	951.4772949999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001170745, exon 21 of 21)	3' UTR (NM_001170745, exon 21 of 21)	179953.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	7.0	12.0	19.5	302.5	26.0	7.0	12.0	19.5
Merged-chr4-47319024-1	chr4	47318924	47319124	+	632.333313	f0_balb.idr	Intergenic	LTR16C|LTR|ERVL	-34198.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	5.5	12.5	8.0	91.5	25.0	5.0	4.0	4.0
Merged-chr17-34187591-6	chr17	34187485	34187685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013683)	promoter-TSS (NM_013683)	29.0	NM_013683	21354.0	Mm.482076	NM_013683	ENSMUSG00000037321	Tap1	ABC17|APT1|Abcb2|Ham-1|Ham1|MTP1|PSF1|RING4|TAP|Tap-1|Y3	transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)	protein-coding	40.0	82.5	52.5	683.5	179.0	73.0	63.0	68.5
Merged-chr3-109249035-4	chr3	109248897	109249097	+	928.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-91686.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	12.5	19.0	8.5	41.5	40.0	18.0	14.0	11.0
Merged-chr17-49429281-4	chr17	49429175	49429375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020042, intron 1 of 10)	intron (NM_020042, intron 1 of 10)	911.0	NM_020042	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	97.0	166.5	89.0	1146.0	275.0	72.0	111.0	66.0
Merged-chr10-62980250-4	chr10	62980161	62980361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027425)	promoter-TSS (NM_027425)	38.0	NM_027425	70432.0	Mm.234587	NM_027425	ENSMUSG00000020070	Rufy2	2610111M19Rik|AI844453|Denn|LZ-FYVE|ZFYVE13	RUN and FYVE domain-containing 2	protein-coding	51.0	126.5	58.5	995.0	185.0	74.5	77.0	79.5
Merged-chr11-29247444-4	chr11	29247370	29247570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025740)	promoter-TSS (NM_025740)	-198.0	NM_025740	216618.0	Mm.128663	NM_025740	ENSMUSG00000020462	Cfap36	2300003H10|4931428D14Rik|Ccdc104	cilia and flagella associated protein 36	protein-coding	200.5	287.0	157.0	2905.0	512.5	206.5	285.0	201.0
Merged-chr4-130841139-4	chr4	130840981	130841181	+	796.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48544.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	9.5	10.0	14.5	224.5	12.0	7.0	5.5	1.0
Merged-chr3-138198322-4	chr3	138198203	138198403	+	806.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11590.0	NM_001163386	67741.0	Mm.383221	NM_001163385	ENSMUSG00000012042	4930579F01Rik	-	RIKEN cDNA 4930579F01 gene	protein-coding	1.5	4.5	3.5	211.5	35.0	5.0	8.5	20.0
Merged-chr2-160209613-3	chr2	160209508	160209708	+	914.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117886.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	10.0	5.0	12.5	154.0	21.0	4.0	5.0	6.5
Merged-chr13-97442508-4	chr13	97442403	97442603	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110432, intron 1 of 1)	intron (NR_110432, intron 1 of 1)	7533.0	NR_110432	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	16.0	27.5	21.0	403.5	67.0	10.0	16.5	18.5
Merged-chr17-33779496-4	chr17	33779373	33779573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020581, intron 3 of 6)	intron (NM_020581, intron 3 of 6)	2102.0	NM_020581	57875.0	Mm.196189	NM_020581	ENSMUSG00000002289	Angptl4	Arp4|Bk89|Fiaf|Hfarp|Ng27|Pgar|Pgarg|Pp1158	angiopoietin-like 4	protein-coding	84.5	75.5	49.5	697.0	95.5	36.5	32.0	32.5
Merged-chr11-76578054-4	chr11	76577964	76578164	+	807.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198894)	promoter-TSS (NM_198894)	-325.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	6.5	19.0	2.5	127.0	26.0	17.0	8.5	12.5
Merged-chr6-97464355-4	chr6	97464230	97464430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-5044.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	86.0	188.5	67.5	860.5	184.5	83.5	100.5	80.5
Merged-chr2-61512253-4	chr2	61512160	61512360	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-66326.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	19.5	22.0	14.5	390.5	41.5	4.5	20.5	11.0
Merged-chr13-37958753-4	chr13	37958647	37958847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	35461.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	157.5	187.5	134.5	2397.0	247.5	80.0	148.5	98.0
Merged-chr16-8671702-4	chr16	8671598	8671798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025821, intron 1 of 3)	CpG	455.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	25.5	53.0	24.0	330.5	49.0	22.0	55.0	24.5
Merged-chr11-97632151-4	chr11	97632056	97632256	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2440.0	NM_175332	103551.0	Mm.24506	NM_175332	ENSMUSG00000043439	Epop	AA409164|AI413509|AW539173|E13|E130012A19Rik|esPRC2p48	elongin BC and polycomb repressive complex 2 associated protein	protein-coding	46.5	54.0	22.0	324.5	75.0	24.5	30.0	17.5
Merged-chr2-156434496-4	chr2	156434386	156434586	+	891.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013510, intron 1 of 21)	MTC|LTR|ERVL-MaLR	13577.0	NM_001291123	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	10.5	37.5	28.0	238.0	24.0	3.5	10.5	13.0
Merged-chr13-17983370-4	chr13	17983267	17983467	+	984.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9984.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	20.5	30.5	13.0	221.5	77.0	19.0	23.0	16.0
Merged-chr7-120098582-4	chr7	120098477	120098677	+	956.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3849.0	NM_145586	233806.0	Mm.257952	NM_145586	ENSMUSG00000030917	Tmem159	8430420C20Rik	transmembrane protein 159	protein-coding	10.5	23.5	11.0	170.5	40.0	8.0	23.0	6.5
Merged-chr2-71898648-2	chr2	71898548	71898748	+	791.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360002, intron 10 of 10)	intron (NM_001360002, intron 10 of 10)	23744.0	NM_001360002	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	1.5	3.0	6.0	10.5	8.5	5.0	6.5	5.5
Merged-chr6-50295362-3	chr6	50295259	50295459	+	770.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347213, exon 24 of 24)	3' UTR (NM_001347213, exon 24 of 24)	-33590.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	20.0	15.5	12.5	364.0	21.5	5.5	12.0	10.5
Merged-chr7-29769904-4	chr7	29769786	29769986	+	990.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023750, intron 1 of 4)	intron (NM_023750, intron 1 of 4)	1334.0	NM_023750	74352.0	Mm.251083	NM_023750	ENSMUSG00000046185	Zfp84	2210410P13Rik|4633401C23Rik|AI415447|BB081605|C86188|KRAB18|Zfp69	zinc finger protein 84	protein-coding	16.5	32.5	26.5	302.5	45.0	15.5	21.0	30.5
Merged-chr7-27725846-4	chr7	27725821	27726021	+	772.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-5488.0	NM_029531	22718.0	Mm.66913	NM_009560	ENSMUSG00000037640	Zfp60	6330516O17Rik|AI426106|AI449354|Mfg-3|Mfg3	zinc finger protein 60	protein-coding	7.0	8.5	10.5	61.5	6.5	8.5	5.0	12.5
Merged-chr18-23752297-4	chr18	23752204	23752404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162942)	promoter-TSS (NM_001162942)	1.0	NR_126066	100502834.0	Mm.213614	NR_126066	ENSMUSG00000086287	Gm15972	-	predicted gene 15972	ncRNA	68.5	75.0	36.5	627.0	115.5	60.5	63.5	55.5
Merged-chr5-122704699-4	chr5	122704593	122704793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2851.0	NM_001310720	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	41.5	77.0	38.5	360.0	111.5	56.5	36.5	34.5
Merged-chr14-25487184-4	chr14	25487100	25487300	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	28015.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	18.5	37.0	18.0	339.0	37.5	20.5	16.0	19.5
Merged-chr10-20312951-4	chr10	20312874	20313074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025392, intron 1 of 12)	CpG	505.0	NM_001025393	72567.0	Mm.294783	NM_153787	ENSMUSG00000037608	Bclaf1	2610102K23Rik|2700025J07Rik|2810454G14Rik|5730534O06Rik|AI450190|AW556225|Btf|mKIAA0164	BCL2-associated transcription factor 1	protein-coding	111.0	159.5	109.0	1620.5	284.5	113.0	163.0	118.5
Merged-chr18-50033022-4	chr18	50032920	50033120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360935, intron 1 of 1)	intron (NM_001360935, intron 1 of 1)	2036.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	93.0	154.5	90.5	1002.5	111.0	56.5	40.5	26.5
Merged-chr18-52457889-2	chr18	52457778	52457978	+	627.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7815.0	NM_026040	67222.0	Mm.100617	NM_026040	ENSMUSG00000024528	Srfbp1	2810036K01Rik|p49/STRAP	serum response factor binding protein 1	protein-coding	6.0	12.0	2.0	79.5	26.0	5.0	8.5	8.5
Merged-chr15-101246434-4	chr15	101246330	101246530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-20416.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	331.0	464.0	295.0	3903.0	755.5	305.0	334.0	265.5
Merged-chr6-124319722-4	chr6	124319630	124319830	+	973.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170395, intron 10 of 16)	intron (NM_001170395, intron 10 of 16)	15079.0	NM_053094	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	23.5	36.0	26.0	262.5	43.0	4.5	10.0	10.5
Merged-chr2-169790941-2	chr2	169790836	169791036	+	571.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	157290.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	8.0	0.0	5.5	30.0	44.0	5.5	5.5	8.5
Merged-chr11-3930202-4	chr11	3930109	3930309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130458, intron 2 of 9)	intron (NM_001130458, intron 2 of 9)	1752.0	NM_001130459	21452.0	Mm.20948	NM_015749	ENSMUSG00000020432	Tcn2	AW208754|Tcn-2	transcobalamin 2	protein-coding	52.0	57.0	65.0	1059.0	105.5	27.0	64.5	46.0
Merged-chr7-100502748-3	chr7	100502636	100502836	+	970.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153527)	TTS (NM_153527)	9378.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	18.5	15.0	7.0	191.5	16.5	2.5	13.5	10.5
Merged-chr1-162006269-3	chr1	162006148	162006348	+	909.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040562, intron 2 of 2)	intron (NR_040562, intron 2 of 2)	1279.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	9.5	17.5	18.5	161.5	21.0	16.0	6.0	6.5
Merged-chr19-29485475-4	chr19	29485389	29485589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36498.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	41.0	63.0	101.5	752.5	112.5	31.5	47.5	31.5
Merged-chr1-75521872-4	chr1	75521783	75521983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027886, intron 2 of 24)	CpG-327	354.0	NM_027886	71728.0	Mm.312650	NM_027886	ENSMUSG00000026213	Stk11ip	1200014D22Rik|BB131189|LIP1|LKB1IP	serine/threonine kinase 11 interacting protein	protein-coding	42.5	81.0	64.5	570.0	89.0	61.5	40.5	58.5
Merged-chr10-122047834-4	chr10	122047733	122047933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242411)	promoter-TSS (NM_001242411)	-518.0	NM_001081037	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	17.5	32.0	28.5	392.0	71.0	23.5	43.5	30.5
Merged-chr3-89911390-4	chr3	89911243	89911443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	1853.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	205.5	306.0	228.5	2944.5	347.5	141.0	181.0	172.0
Merged-chr10-34267901-3	chr10	34267804	34268004	+	808.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14286.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	12.0	11.5	6.5	116.0	17.5	5.0	7.0	4.0
Merged-chr2-164009233-3	chr2	164009120	164009320	+	873.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018753, intron 1 of 5)	intron (NM_018753, intron 1 of 5)	14023.0	NM_018753	54401.0	Mm.34319	NM_018753	ENSMUSG00000018326	Ywhab	1300003C17Rik|14-3-3b	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide	protein-coding	10.0	8.0	5.5	94.5	13.0	6.0	2.0	7.5
Merged-chr6-24707858-3	chr6	24707765	24707965	+	932.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25380.0	NM_028920	74409.0	Mm.87331	NM_028920	ENSMUSG00000029679	Hyal6	4932701A20Rik|Hyal-ps1|Hyalp1	hyaluronoglucosaminidase 6	protein-coding	11.0	20.0	35.0	585.0	13.0	3.0	9.0	1.5
Merged-chr15-84127084-4	chr15	84126986	84127186	+	846.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3911.0	NM_029427	75772.0	Mm.159565	NM_029427	ENSMUSG00000018868	Pnpla5	4833426H19Rik|GS2L	patatin-like phospholipase domain containing 5	protein-coding	18.0	13.0	3.5	209.5	26.0	11.5	8.0	7.5
Merged-chr2-61713392-2	chr2	61713292	61713492	+	872.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_021526, intron 1 of 11)	PB1D7|SINE|Alu	1698.0	NM_021526	59029.0	Mm.218198	NM_021526	ENSMUSG00000026914	Psmd14	2610312C03Rik|3200001M20Rik|AA986732|Pad1|Poh1|rpm11	proteasome (prosome, macropain) 26S subunit, non-ATPase, 14	protein-coding	2.0	4.5	5.5	90.0	16.5	6.5	5.0	8.0
Merged-chr9-45294518-5	chr9	45294419	45294619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24581.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	16.5	20.5	25.5	270.0	74.5	26.5	19.5	12.5
Merged-chr4-127015768-4	chr4	127015678	127015878	+	971.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5523.0	NR_045010	71514.0	Mm.257276	NM_023603	ENSMUSG00000028820	Sfpq	1110004P21Rik|2810416M14Rik|5730453G22Rik|9030402K04Rik|AU021830|D4Ertd314e|Gm12940|PSF|REP1	splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)	protein-coding	25.5	24.0	5.0	190.5	118.5	37.5	47.0	53.0
Merged-chr5-20882319-4	chr5	20882227	20882427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177601)	promoter-TSS (NM_177601)	-126.0	NM_177601	212090.0	Mm.347525	NM_177601	ENSMUSG00000045435	Tmem60	BC027828	transmembrane protein 60	protein-coding	538.5	838.0	543.5	7854.0	1114.5	460.0	535.5	494.5
Merged-chr8-106958391-4	chr8	106958298	106958498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	22648.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	29.5	67.0	42.5	569.0	55.5	32.5	31.0	30.5
Merged-chr13-30612471-6	chr13	30612341	30612541	+	918.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2602.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	20.0	20.5	20.5	263.0	19.5	11.0	15.0	13.5
Merged-chr7-25436872-4	chr7	25436784	25436984	+	855.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015569, intron 4 of 6)	intron (NR_015569, intron 4 of 6)	-23998.0	NM_153576	232983.0	Mm.10545	NM_153576	ENSMUSG00000060188	Cxcl17	VCC-1|Vcc1	chemokine (C-X-C motif) ligand 17	protein-coding	15.0	24.5	6.5	266.5	40.5	15.0	10.5	19.5
Merged-chr17-67348052-4	chr17	67347944	67348144	+	813.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	6415.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	15.5	15.0	11.0	82.0	33.0	10.5	7.5	3.0
Merged-chr17-50369462-4	chr17	50369353	50369553	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75833.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	31.0	36.5	25.0	340.5	50.5	29.5	25.0	24.0
Merged-chr15-12795594-4	chr15	12795505	12795705	+	743.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29052.0	NM_029998	77877.0	Mm.207311	NM_029998	ENSMUSG00000022195	6030458C11Rik	-	RIKEN cDNA 6030458C11 gene	protein-coding	4.5	10.0	6.5	88.0	19.0	9.5	11.0	3.0
Merged-chr5-122268198-4	chr5	122268085	122268285	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3725.0	NM_001039153	654470.0	Mm.28804	NM_001039153	ENSMUSG00000038593	Tctn1	G730031O11Rik|Tect1	tectonic family member 1	protein-coding	16.0	18.5	18.0	285.5	42.0	23.0	12.0	25.0
Merged-chr16-18733745-4	chr16	18733656	18733856	+	944.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-43091.0	NM_013805	12741.0	Mm.22768	NM_013805	ENSMUSG00000041378	Cldn5	AI854493|MBEC1|Tmvcf	claudin 5	protein-coding	15.0	45.5	14.0	258.5	74.5	15.0	29.0	19.0
Merged-chr2-125788493-4	chr2	125788398	125788598	+	950.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5628.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	31.5	54.5	31.5	384.5	37.0	14.5	11.0	12.0
Merged-chr3-9067281-4	chr3	9067184	9067384	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040597, intron 2 of 2)	intron (NR_040597, intron 2 of 2)	5320.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	14.5	9.0	5.0	183.5	28.5	11.0	10.0	8.5
Merged-chr12-69360839-4	chr12	69360755	69360955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3679.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	29.5	61.0	33.5	444.5	73.0	32.5	36.5	36.5
Merged-chr14-20845513-3	chr14	20845392	20845592	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8830.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	4.5	14.0	10.5	70.5	15.0	11.0	6.5	2.5
Merged-chr6-73470610-2	chr6	73470511	73470711	+	944.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025737)	promoter-TSS (NM_025737)	410.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	0.5	1.0	4.0	25.0	11.5	9.0	4.5	6.0
Merged-chr19-5930388-4	chr19	5930291	5930491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5575.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	130.0	247.0	133.0	969.0	337.5	145.0	175.0	78.5
Merged-chr1-171231098-4	chr1	171230974	171231174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010185, intron 2 of 4)	intron (NM_010185, intron 2 of 4)	3275.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	23.0	30.5	25.5	223.0	69.5	48.0	20.0	28.5
Merged-chr5-139405694-4	chr5	139405580	139405780	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177000)	promoter-TSS (NM_177000)	-707.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	16.0	33.5	43.0	517.0	57.5	16.0	34.0	43.0
Merged-chr2-58752401-4	chr2	58752294	58752494	+	874.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 1 of 7)	intron (NM_001289660, intron 1 of 7)	-2790.0	NM_001289659	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	6.5	15.5	6.0	178.5	23.5	5.5	16.5	8.5
Merged-chr19-6877038-3	chr19	6876938	6877138	+	889.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19|LTR|ERVK	-18827.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	7.0	4.0	1.5	16.0	58.5	46.5	12.5	22.0
Merged-chr17-87327150-4	chr17	87327052	87327252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 8 of 19)	intron (NM_028639, intron 8 of 19)	44266.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	93.5	132.0	85.0	1469.0	205.5	51.0	76.0	67.0
Merged-chr17-56765076-6	chr17	56764947	56765147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360405, intron 1 of 11)	CpG	296.0	NM_144858	224907.0	Mm.293973	NM_144858	ENSMUSG00000007603	Dus3l	AI662135|AW557805	dihydrouridine synthase 3-like (S. cerevisiae)	protein-coding	43.5	86.0	52.0	717.0	143.0	70.0	65.5	86.0
Merged-chr4-88351129-4	chr4	88350988	88351188	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 28 of 43)	intron (NM_001081184, intron 28 of 43)	87838.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	17.0	8.5	16.0	241.5	23.5	10.5	8.5	10.0
Merged-chr3-97294941-3	chr3	97294858	97295058	+	767.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67594.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	3.0	3.5	4.5	59.0	22.5	8.0	11.0	4.5
Merged-chr19-6276092-4	chr19	6275981	6276181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010119)	promoter-TSS (NM_010119)	-815.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	92.5	231.5	103.5	946.0	285.0	100.5	86.0	99.5
Merged-chr6-125490102-1	chr6	125490002	125490202	+	666.666687	f0_balb.idr	intron (NM_007657, intron 1 of 7)	intron (NM_007657, intron 1 of 7)	4658.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	12.0	14.0	8.0	85.5	14.0	7.0	5.0	7.0
Merged-chr2-23097201-4	chr2	23097099	23097299	+	773.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355638, intron 10 of 13)	MTEb|LTR|ERVL-MaLR	28127.0	NM_001355638	74159.0	Mm.181973	NM_028793	ENSMUSG00000026781	Acbd5	1300014E15Rik	acyl-Coenzyme A binding domain containing 5	protein-coding	2.5	11.0	6.0	172.5	24.0	11.0	10.5	20.0
Merged-chr10-9136298-3	chr10	9136206	9136406	+	873.6889039999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-250236.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	3.5	8.0	7.5	51.0	40.5	17.5	8.5	10.0
Merged-chr5-23434418-6	chr5	23434302	23434502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026984)	promoter-TSS (NM_026984)	-27.0	NM_026984	69188.0	Mm.205190	NM_026984	ENSMUSG00000029004	Kmt2e	1810033J14Rik|9530077A04Rik|D230038D11Rik|Mll5|NKp44L	lysine (K)-specific methyltransferase 2E	protein-coding	34.0	55.5	20.0	324.0	108.5	59.5	67.5	38.5
Merged-chr5-77246349-4	chr5	77246262	77246462	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19132.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	20.5	56.0	48.5	165.5	94.5	34.5	40.0	18.0
Merged-chr13-58385042-4	chr13	58384938	58385138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027335, exon 1 of 4)	exon (NM_027335, exon 1 of 4)	187.0	NM_027335	70153.0	Mm.296610	NM_027335	ENSMUSG00000021550	2210016F16Rik	-	RIKEN cDNA 2210016F16 gene	protein-coding	41.5	40.0	45.5	535.0	58.5	27.5	18.0	21.0
Merged-chr17-35047278-4	chr17	35047185	35047385	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146215)	promoter-TSS (NM_001146215)	-540.0	NM_001146215	17687.0	Mm.24192	NM_013600	ENSMUSG00000007035	Msh5	Mut5	mutS homolog 5	protein-coding	13.0	15.0	10.5	251.5	55.5	10.0	24.5	25.5
Merged-chr13-101696063-4	chr13	101695972	101696172	+	885.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 7 of 15)	intron (NM_001077495, intron 7 of 15)	-3442.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	20.5	18.0	10.0	165.0	55.0	13.0	16.0	17.5
Merged-chr7-111478299-1	chr7	111478199	111478399	+	623.5	f0_balb.idr	intron (NM_001360903, intron 10 of 10)	intron (NM_001360903, intron 10 of 10)	301678.0	NM_001360903	233733.0	Mm.323322	NM_173739	ENSMUSG00000038296	Galnt18	2900011G21Rik|BC024988|Galntl4|galNAc-T18|mpp-GalNAc-T18(O18)	polypeptide N-acetylgalactosaminyltransferase 18	protein-coding	8.5	17.0	11.0	41.0	4.5	3.0	6.5	7.5
Merged-chr2-161041431-3	chr2	161041327	161041527	+	803.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126509, intron 4 of 35)	intron (NR_126509, intron 4 of 35)	67659.0	NM_173368	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	5.5	6.5	3.0	72.0	19.5	10.5	5.5	9.0
Merged-chr16-49504005-4	chr16	49503904	49504104	+	845.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-195290.0	NM_028680	73916.0	Mm.241276	NM_028680	ENSMUSG00000032965	Ift57	4833420A15Rik|Esrrbl1|Hippi|MHS4R2	intraflagellar transport 57	protein-coding	14.5	8.0	6.5	48.5	29.0	8.0	9.0	15.5
Merged-chr5-24389222-1	chr5	24389122	24389322	+	556.0	f0_balb.idr	intron (NM_001002897, intron 5 of 13)	intron (NM_001002897, intron 5 of 13)	2921.0	NM_001002897	213948.0	Mm.332252	NM_001002897	ENSMUSG00000038295	Atg9b	Apg912|Apg9l2|Apgdc2|Gm574|Nos3as|eONE|sONE	autophagy related 9B	protein-coding	8.0	14.0	10.0	66.0	15.0	7.5	7.0	8.0
Merged-chr5-103778423-4	chr5	103778344	103778544	+	799.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	23871.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	18.0	12.0	12.0	142.0	27.5	10.5	5.0	10.0
Merged-chr9-71959708-1	chr9	71959608	71959808	+	703.333313	f0_balb.idr	intron (NM_011544, intron 5 of 20)	intron (NM_011544, intron 5 of 20)	-63612.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	10.5	9.5	10.0	104.5	16.0	7.5	6.5	8.5
Merged-chr18-34856397-4	chr18	34856296	34856496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4811.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	137.0	239.5	142.5	2906.0	393.0	116.0	216.5	160.5
Merged-chr17-17581473-4	chr17	17581366	17581566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	43023.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	79.5	143.5	96.5	1680.0	149.0	41.5	80.0	63.5
Merged-chr6-145599422-4	chr6	145599295	145599495	+	960.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16568.0	NM_009449	22147.0	Mm.270295	NM_009449	ENSMUSG00000067338	Tuba3b	M[a]7|Tuba7	tubulin, alpha 3B	protein-coding	18.0	36.5	40.0	619.0	24.0	8.5	22.0	24.0
Merged-chr10-88676388-4	chr10	88676298	88676498	+	874.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011461, intron 5 of 5)	intron (NM_011461, intron 5 of 5)	6625.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	21.5	18.0	12.0	177.0	23.5	10.5	15.0	22.5
Merged-chr8-41374775-4	chr8	41374681	41374881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019734)	promoter-TSS (NM_019734)	-84.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	213.5	348.5	214.0	4459.0	640.5	200.0	316.5	226.0
Merged-chr17-73067131-4	chr17	73067013	73067213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40872.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	52.0	85.5	90.0	1320.5	148.0	51.5	57.5	52.0
Merged-chr4-129640200-3	chr4	129640059	129640259	+	830.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005506, intron 1 of 9)	intron (NM_001005506, intron 1 of 9)	646.0	NM_001005506	109658.0	Mm.268863	NM_001005506	ENSMUSG00000053841	Txlna	2600010N21Rik|AI425952|AW209241|Il14|Txln	taxilin alpha	protein-coding	7.0	2.0	6.5	79.0	6.0	10.5	5.0	8.0
Merged-chr2-13544499-4	chr2	13544412	13544612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010067, intron 1 of 10)	GC_rich|Low_complexity|Low_complexity	152.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	115.5	107.0	146.0	1338.5	180.0	60.5	112.5	131.5
Merged-chr15-66577519-4	chr15	66577434	66577634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081409)	promoter-TSS (NM_001081409)	-38.0	NM_001081409	239510.0	Mm.267473	NM_178718	ENSMUSG00000072501	Phf20l1	CGI-72|E130113K22Rik	PHD finger protein 20-like 1	protein-coding	106.5	176.0	67.5	1710.0	350.0	143.5	153.0	109.5
Merged-chr4-141963374-4	chr4	141963264	141963464	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 9 of 31)	intron (NM_177868, intron 9 of 31)	-19628.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	5.0	15.0	3.5	109.0	33.5	6.0	12.0	13.0
Merged-chr19-4048070-3	chr19	4047986	4048186	+	831.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5865.0	NM_181796	14869.0	Mm.441542	NM_181796	ENSMUSG00000038155	Gstp2	GSTpiA|Gst-3|Gst3	glutathione S-transferase, pi 2	protein-coding	6.0	8.5	4.5	82.5	14.5	9.5	11.5	9.5
Merged-chr13-99955742-3	chr13	99955603	99955803	+	622.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030026, intron 13 of 16)	intron (NM_030026, intron 13 of 16)	-55020.0	NM_001081493	27220.0	Mm.75498	NM_013732	ENSMUSG00000021647	Cartpt	Cart	CART prepropeptide	protein-coding	7.0	9.5	8.0	81.5	9.5	4.0	2.5	7.0
Merged-chr3-9407187-4	chr3	9407130	9407330	+	917.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015499, intron 1 of 1)	intron (NR_015499, intron 1 of 1)	4152.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	6.5	7.5	9.0	378.5	27.0	14.0	18.5	30.5
Merged-chr8-70869670-4	chr8	70869586	70869786	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026964, intron 2 of 4)	intron (NM_026964, intron 2 of 4)	3804.0	NM_026964	234388.0	Mm.295791	NM_026964	ENSMUSG00000007721	Ccdc124	1810023B24Rik	coiled-coil domain containing 124	protein-coding	26.0	18.5	17.5	179.5	44.5	18.5	29.5	15.0
Merged-chr12-79137100-3	chr12	79136993	79137193	+	932.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	L2b|LINE|L2	6305.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	6.5	11.0	11.0	249.5	23.5	4.5	3.5	6.5
Merged-chr11-73007931-2	chr11	73007831	73008031	+	980.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_008771, intron 1 of 11)	intron (NM_008771, intron 1 of 11)	8786.0	NM_008771	18436.0	Mm.25722	NM_008771	ENSMUSG00000020787	P2rx1	AI323649|BB122383|P2x|Pdcd3|RP-2	purinergic receptor P2X, ligand-gated ion channel, 1	protein-coding	2.5	6.0	4.0	24.0	14.5	7.0	5.0	4.5
Merged-chr1-36068235-4	chr1	36068153	36068353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015818)	promoter-TSS (NM_015818)	-147.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	198.5	241.5	254.0	3200.0	432.5	147.5	192.5	122.5
Merged-chr7-80184486-6	chr7	80184397	80184597	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-2344.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	4.5	10.0	3.0	24.5	37.5	12.5	7.0	16.5
Merged-chr4-114982757-4	chr4	114982654	114982854	+	712.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025647, intron 1 of 5)	B3|SINE|B2	4474.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	17.0	8.0	8.0	132.5	40.5	9.0	19.0	13.5
Merged-chr17-24470274-4	chr17	24470181	24470381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025954)	promoter-TSS (NM_025954)	-192.0	NM_025954	67078.0	Mm.28541	NM_025954	ENSMUSG00000043445	Pgp	1700012G19Rik|AI481330|AUM|G3PP	phosphoglycolate phosphatase	protein-coding	194.5	350.0	167.0	2530.5	443.0	222.5	251.5	213.5
Merged-chr1-185207995-4	chr1	185207878	185208078	+	921.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 1 of 34)	MTC|LTR|ERVL-MaLR	3810.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	16.5	20.5	23.0	305.0	51.0	11.5	18.0	16.0
Merged-chr19-7558928-3	chr19	7558817	7559017	+	927.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362425, intron 2 of 4)	MER97c|DNA|hAT-Tip100	1432.0	NM_001362425	225845.0	Mm.274810	NM_139269	ENSMUSG00000060675	Pla2g16	AdPLA|C78643|HRSL3|Hrasls3|Hrev107|MLP-3	phospholipase A2, group XVI	protein-coding	8.5	11.5	5.5	38.0	41.0	13.0	7.5	4.5
Merged-chr2-164924606-4	chr2	164924435	164924635	+	883.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12785.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	8.0	9.5	5.5	37.5	17.0	9.0	6.5	6.5
Merged-chr5-97007066-4	chr5	97006978	97007178	+	871.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 1 of 15)	intron (NM_080708, intron 1 of 15)	9389.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	34.5	33.5	18.5	249.0	23.0	13.5	8.5	11.0
Merged-chr1-111864937-4	chr1	111864824	111865024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081316)	promoter-TSS (NM_001081316)	-6.0	NM_001081316	319901.0	Mm.103468	NM_001081316	ENSMUSG00000038702	Dsel	9330132E09Rik|DS-epi2	dermatan sulfate epimerase-like	protein-coding	185.0	268.5	316.5	4470.5	385.0	128.5	255.5	165.5
Merged-chr8-94876383-4	chr8	94876285	94876485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053246)	promoter-TSS (NM_053246)	-73.0	NM_053246	114255.0	Mm.203949	NM_053246	ENSMUSG00000040631	Dok4	-	docking protein 4	protein-coding	29.5	33.5	25.5	351.0	96.5	30.5	20.0	24.5
Merged-chr3-61241549-3	chr3	61241455	61241655	+	891.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122952.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	4.5	7.0	13.5	140.5	13.0	3.0	7.0	8.5
Merged-chr13-23450645-4	chr13	23450531	23450731	+	879.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Thr-ACY_|tRNA|tRNA	15270.0	NM_013483	12231.0	Mm.1420	NM_013483	ENSMUSG00000000706	Btn1a1	Btn	butyrophilin, subfamily 1, member A1	protein-coding	12.0	28.5	23.5	207.0	25.5	8.0	8.5	19.0
Merged-chr18-74880205-4	chr18	74880080	74880280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	81083.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	40.0	38.0	42.0	726.5	115.0	42.0	55.5	47.5
Merged-chr13-104504262-1	chr13	104504162	104504362	+	611.0	f0_c57.idr	Intergenic	RMER6B|LTR|ERVK	216427.0	NM_001081020	108154.0	Mm.208125	NM_175496	ENSMUSG00000046169	Adamts6	A930019D11Rik|ADAM-TS6|b2b1879.1Clo|b2b2029Clo|b2b2182Clo|b2b2187.1Clo|b2b2228Clo	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	protein-coding	4.0	5.5	1.0	32.5	20.0	6.0	9.5	9.5
Merged-chr18-60729312-4	chr18	60729206	60729406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	-1740.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	99.5	168.0	123.0	1592.0	206.5	88.0	109.0	127.5
Merged-chr16-30389337-4	chr16	30389249	30389449	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128094)	promoter-TSS (NM_001128094)	-819.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	6.0	15.5	11.0	102.5	36.5	8.0	19.0	23.5
Merged-chr3-152105597-4	chr3	152105507	152105707	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 4 of 5)	intron (NM_016867, intron 4 of 5)	60293.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	21.0	34.5	42.5	588.5	27.0	3.5	14.5	11.0
Merged-chr11-98933366-4	chr11	98933265	98933465	+	940.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4331.0	NM_009024	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	27.5	39.5	18.5	241.0	58.0	11.0	15.5	12.0
Merged-chr11-51921921-4	chr11	51921827	51922027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-45704.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	78.0	102.0	54.5	1065.5	194.5	72.0	95.5	74.0
Merged-chr7-28444795-4	chr7	28444697	28444897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039192, intron 4 of 6)	intron (NM_001039192, intron 4 of 6)	3860.0	NM_001039192	63986.0	Mm.194536	NM_022024	ENSMUSG00000060791	Gmfg	0610039G16Rik|2310057N07Rik|AI324845	glia maturation factor, gamma	protein-coding	145.5	154.0	118.5	1409.0	227.0	97.5	122.0	103.0
Merged-chr10-127290648-4	chr10	127290545	127290745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007837)	promoter-TSS (NM_007837)	-148.0	NM_007837	13198.0	Mm.110220	NM_007837	ENSMUSG00000025408	Ddit3	CHOP-10|CHOP10|chop|gadd153	DNA-damage inducible transcript 3	protein-coding	243.0	386.0	190.5	3315.5	657.5	266.5	322.5	222.5
Merged-chr17-86961729-3	chr17	86961599	86961799	+	897.0499880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1412.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	26.0	20.5	24.5	388.5	13.0	9.0	7.0	10.5
Merged-chr5-72793812-3	chr5	72793727	72793927	+	937.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	-41050.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	8.5	12.5	9.0	207.5	12.5	2.5	13.0	4.5
Merged-chr5-5419434-4	chr5	5419353	5419553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39202.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	108.5	139.0	118.5	2117.5	308.0	90.5	95.5	127.0
Merged-chr2-163703148-4	chr2	163703058	163703258	+	945.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011106, intron 1 of 3)	intron (NM_011106, intron 1 of 3)	9121.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	32.5	31.0	15.0	426.5	74.0	29.5	23.0	11.0
Merged-chr3-136235722-4	chr3	136235585	136235785	+	863.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 5 of 16)	Lx8b|LINE|L1	90381.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	10.0	2.5	12.5	92.0	11.0	8.5	8.0	7.0
Merged-chr7-30973954-4	chr7	30973835	30974035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017405)	promoter-TSS (NM_017405)	131.0	NR_038860	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	54.0	75.5	68.0	721.0	153.0	59.0	76.0	62.5
Merged-chr7-88185356-3	chr7	88185282	88185482	+	701.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92703.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	11.0	6.0	7.5	460.5	10.5	5.0	10.5	9.0
Merged-chr13-58999292-4	chr13	58999178	58999378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	191581.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	8.0	14.0	9.0	234.5	46.5	14.0	10.5	6.5
Merged-chr10-41951358-4	chr10	41951249	41951449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 11 of 17)	MTD|LTR|ERVL-MaLR	63910.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	19.5	32.0	22.5	365.0	46.0	6.0	25.5	28.5
Merged-chr5-87056026-4	chr5	87055940	87056140	+	961.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_3-LTR_MM|LTR|ERVK	36515.0	NM_001029867	231396.0	Mm.439851	NM_001029867	ENSMUSG00000070704	Ugt2b36	-	UDP glucuronosyltransferase 2 family, polypeptide B36	protein-coding	14.5	22.5	35.5	279.5	34.0	12.5	17.5	34.0
Merged-chr3-88138401-4	chr3	88138304	88138504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3968.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	64.5	120.5	63.5	1064.0	224.5	85.0	76.0	77.0
Merged-chr1-88227292-4	chr1	88227142	88227342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281466, intron 1 of 41)	intron (NM_001281466, intron 1 of 41)	222.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	101.0	123.0	162.0	1762.5	234.5	77.5	148.0	93.0
Merged-chr2-143867484-4	chr2	143867480	143867680	+	978.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4407.0	NM_001291061	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	11.5	8.0	25.5	194.5	24.5	11.0	13.5	11.0
Merged-chr2-144695297-3	chr2	144695164	144695364	+	949.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	intron (NM_025314, intron 4 of 5)	95311.0	NM_025314	66044.0	Mm.28109	NM_025314	ENSMUSG00000027430	Dtd1	0610006H08Rik|DTD|DUE-B|Hars2	D-tyrosyl-tRNA deacylase 1	protein-coding	9.0	5.0	32.0	258.0	10.5	3.0	4.0	3.5
Merged-chr10-88799484-4	chr10	88799392	88799592	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175158, intron 19 of 61)	MTD|LTR|ERVL-MaLR	27322.0	NM_175158	70683.0	Mm.29631	NM_175158	ENSMUSG00000004356	Utp20	3830408P06Rik|AA617408|Drim|mDRIM|mDRIN	UTP20 small subunit processome component	protein-coding	20.0	18.5	15.0	337.5	25.0	12.0	26.5	12.0
Merged-chr14-15066563-4	chr14	15066491	15066691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	245776.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	47.5	93.0	156.0	1929.0	242.0	60.0	81.0	110.0
Merged-chr9-57517295-4	chr9	57517193	57517393	+	853.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3939.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	7.0	15.5	4.5	89.5	35.0	6.0	7.0	12.0
Merged-chr18-32856880-3	chr18	32856774	32856974	+	816.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110015, intron 16 of 22)	intron (NM_001110015, intron 16 of 22)	-19587.0	NR_045381	75795.0	Mm.382634	NR_045381	ENSMUSG00000097553	4930455D15Rik	-	RIKEN cDNA 4930455D15 gene	ncRNA	7.0	14.0	6.0	178.5	19.5	2.0	6.0	7.5
Merged-chr6-135169433-1	chr6	135169333	135169533	+	946.3333130000001	f0_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1218.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	6.5	22.5	17.0	228.5	6.5	1.5	5.0	2.5
Merged-chr15-58823629-4	chr15	58823534	58823734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175212)	promoter-TSS (NM_175212)	-207.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	275.5	406.5	313.0	3432.0	567.0	300.0	291.5	233.0
Merged-chr5-21379115-3	chr5	21379000	21379200	+	731.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008013)	TTS (NM_008013)	6427.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	8.0	5.5	7.5	83.5	32.0	2.5	4.0	8.0
Merged-chr7-126780776-4	chr7	126780616	126780816	+	745.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011538)	promoter-TSS (NM_011538)	-767.0	NM_011538	21389.0	Mm.727	NM_011538	ENSMUSG00000030699	Tbx6	rv	T-box 6	protein-coding	10.5	11.5	6.5	81.0	18.0	8.0	9.0	11.0
Merged-chr1-54810459-5	chr1	54810443	54810643	+	941.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 2 of 27)	intron (NM_001081433, intron 2 of 27)	115844.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	28.5	19.5	15.0	228.0	38.5	13.5	12.0	7.0
Merged-chr18-7693110-4	chr18	7693035	7693235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-66272.0	NM_001161620	75739.0	Mm.133293	NM_001081287	ENSMUSG00000057440	Mpp7	1110068J02Rik|2810038M04Rik|5430426E14Rik|AI415104|Gm955	membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7)	protein-coding	19.5	18.0	19.5	320.5	66.5	35.0	34.0	33.0
Merged-chr14-14686316-4	chr14	14686237	14686437	+	920.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16688.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	23.5	19.5	18.5	334.5	39.5	12.0	11.0	9.5
Merged-chr15-34307005-4	chr15	34306822	34307022	+	913.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358780, intron 1 of 18)	CpG	241.0	NM_016762	17181.0	Mm.396856	NM_016762	ENSMUSG00000022324	Matn2	Crtm2|matrilin-2	matrilin 2	protein-coding	8.0	5.5	7.5	153.5	11.5	6.5	8.5	5.5
Merged-chr12-100837429-4	chr12	100837320	100837520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145448, intron 3 of 12)	ORR1F|LTR|ERVL-MaLR	58363.0	NM_145448	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	28.0	44.0	14.0	371.0	118.0	40.5	55.0	51.0
Merged-chr9-14784432-6	chr9	14784255	14784455	+	940.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310728)	promoter-TSS (NM_001310728)	218.0	NM_019683	56503.0	Mm.272618	NM_019683	ENSMUSG00000031931	Ankrd49	AW060934|C86108|Gbif	ankyrin repeat domain 49	protein-coding	8.5	13.0	16.0	202.5	30.0	14.5	7.5	21.0
Merged-chr2-153496554-4	chr2	153496415	153496615	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134300, intron 1 of 10)	intron (NM_001134300, intron 1 of 10)	33456.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	25.0	22.0	18.5	485.5	44.5	16.5	26.5	17.0
Merged-chr13-29979387-3	chr13	29979332	29979532	+	929.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010093, intron 1 of 6)	intron (NM_010093, intron 1 of 6)	4959.0	NM_001289920	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	2.0	9.5	5.5	135.5	18.5	8.0	12.5	6.5
Merged-chr8-4258406-4	chr8	4258311	4258511	+	955.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183315, exon 2 of 2)	exon (NM_183315, exon 2 of 2)	863.0	NM_183315	330695.0	Mm.34210	NM_183315	ENSMUSG00000048644	Ctxn1	BC028881|Ctxn	cortexin 1	protein-coding	13.5	30.0	10.0	211.5	70.5	17.5	40.0	22.0
Merged-chr2-6707413-3	chr2	6707293	6707493	+	856.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	14269.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	17.5	6.0	5.5	148.5	7.5	1.5	4.0	7.0
Merged-chr12-3238774-6	chr12	3238648	3238848	+	926.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015551, intron 4 of 6)	intron (NR_015551, intron 4 of 6)	2957.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	6.5	17.0	6.0	77.0	33.0	12.0	9.0	7.0
Merged-chr1-64127016-4	chr1	64126927	64127127	+	896.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5638.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	6.5	23.0	21.5	307.5	30.5	5.5	11.0	7.0
Merged-chr14-21662597-3	chr14	21662491	21662691	+	764.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017479, intron 15 of 16)	intron (NM_017479, intron 15 of 16)	51985.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	6.0	12.5	6.5	103.5	22.0	1.0	3.5	7.5
Merged-chr4-41136529-4	chr4	41136427	41136627	+	830.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026275, intron 1 of 4)	intron (NM_026275, intron 1 of 4)	506.0	NM_026275	67615.0	Mm.389540	NM_026275	ENSMUSG00000036241	Ube2r2	1200003M11Rik|Cdc34b|Ubc3b	ubiquitin-conjugating enzyme E2R 2	protein-coding	9.5	11.0	8.0	128.5	30.5	11.0	14.5	23.5
Merged-chr11-32580672-4	chr11	32580581	32580781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 4 of 18)	intron (NM_009288, intron 4 of 18)	47415.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	100.5	199.5	83.5	1626.5	227.0	75.5	112.0	82.0
Merged-chr4-55651264-4	chr4	55651156	55651356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-118781.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	259.0	384.5	314.0	4198.0	699.0	282.5	413.5	352.5
Merged-chr16-44764718-1	chr16	44764618	44764818	+	681.0	f0_balb.idr	Intergenic	Intergenic	-1018.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	7.0	12.5	8.0	110.5	3.5	4.0	1.5	3.0
Merged-chr7-45704908-4	chr7	45704817	45705017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016974)	promoter-TSS (NM_016974)	-330.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	209.0	359.5	235.0	2892.0	611.5	236.5	243.5	213.5
Merged-chr5-43102792-4	chr5	43102694	43102894	+	970.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130669.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	43.5	46.5	30.5	854.5	65.0	25.0	30.5	17.0
Merged-chr7-84611761-4	chr7	84611643	84611843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5801.0	NM_010176	14085.0	Mm.3798	NM_010176	ENSMUSG00000030630	Fah	swst	fumarylacetoacetate hydrolase	protein-coding	24.5	21.0	35.0	669.0	76.5	16.5	31.5	39.0
Merged-chr17-84145538-4	chr17	84145440	84145640	+	723.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42407.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	8.5	9.0	11.0	71.5	21.5	4.5	7.0	14.0
Merged-chr11-115100678-4	chr11	115100587	115100787	+	833.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	intron (NM_001163753, intron 1 of 8)	9256.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	8.5	11.5	18.0	142.0	13.0	14.5	8.0	9.5
Merged-chr7-101051981-4	chr7	101051836	101052036	+	909.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39883.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	16.5	25.5	9.0	55.5	22.5	9.0	8.0	12.0
Merged-chr7-117429139-3	chr7	117429043	117429243	+	720.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 1 of 11)	MER74B|LTR|ERVL	48164.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	9.5	23.5	6.5	142.0	16.0	4.5	5.5	7.0
Merged-chr3-136898928-4	chr3	136898827	136899027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 8 of 13)	intron (NM_008913, intron 8 of 13)	228861.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	44.0	32.0	43.0	1189.0	49.5	16.0	26.0	29.5
Merged-chr15-79546146-4	chr15	79546072	79546272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040187, intron 1 of 12)	CpG	387.0	NM_199079	67040.0	Mm.29644	NM_152806	ENSMUSG00000055065	Ddx17	2610007K22Rik|A430025E01Rik|AI047725|C80929|Gm926|p72	DEAD (Asp-Glu-Ala-Asp) box polypeptide 17	protein-coding	32.0	37.0	30.5	311.0	70.5	20.5	25.5	51.0
Merged-chr2-174329981-4	chr2	174329831	174330031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077510)	promoter-TSS (NM_001077510)	-139.0	NM_201616	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	34.5	40.5	42.5	478.0	86.0	49.0	30.0	39.5
Merged-chr10-123063068-4	chr10	123062953	123063153	+	909.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163024, intron 1 of 34)	intron (NM_001163024, intron 1 of 34)	13452.0	NM_001163024	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	23.0	11.0	22.0	504.0	33.5	9.5	12.5	14.5
Merged-chr16-33777408-4	chr16	33777365	33777565	+	917.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-16572.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	7.5	45.5	8.0	267.5	25.5	8.5	16.5	19.5
Merged-chr14-103478158-4	chr14	103478051	103478251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35190.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	95.5	108.0	102.0	1606.5	167.5	45.0	82.0	76.5
Merged-chr16-64935130-3	chr16	64935041	64935241	+	829.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008310, intron 2 of 2)	MLT1A1|LTR|ERVL-MaLR	83140.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	0.0	1.0	0.5	14.5	34.5	16.0	20.5	24.0
Merged-chr5-27206408-3	chr5	27206315	27206515	+	892.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207282, intron 1 of 25)	intron (NM_207282, intron 1 of 25)	-55520.0	NM_001136060	13483.0	Mm.42078	NM_010075	ENSMUSG00000061576	Dpp6	B930011P16Rik|D5Buc3|D5Buc4|D5Buc5|DPP VI|Dpp-6|Gm1377|In(5)6H-p|Peplb|Rw	dipeptidylpeptidase 6	protein-coding	8.5	9.5	17.0	113.5	10.5	2.5	9.5	2.0
Merged-chr15-64261791-4	chr15	64261685	64261885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	50888.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	27.0	41.0	23.0	486.5	62.0	21.5	29.5	22.5
Merged-chr15-36367528-4	chr15	36367400	36367600	+	876.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-84353.0	NM_001357631	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	9.5	34.0	13.5	193.5	31.0	12.0	11.5	9.5
Merged-chr16-91761985-4	chr16	91761903	91762103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	32632.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	42.5	49.5	46.5	526.0	98.5	33.0	23.5	25.5
Merged-chr3-142881103-4	chr3	142881004	142881204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178654, intron 1 of 21)	intron (NM_178654, intron 1 of 21)	900.0	NM_178654	109333.0	Mm.244236	NM_178654	ENSMUSG00000004591	Pkn2	6030436C20Rik|AI507382|PRK2|Prkcl2|Stk7	protein kinase N2	protein-coding	16.5	15.0	19.5	336.5	61.0	25.0	15.0	26.5
Merged-chr5-52743472-4	chr5	52743375	52743575	+	883.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025951, intron 1 of 9)	intron (NM_025951, intron 1 of 9)	1901.0	NM_025951	67073.0	Mm.248647	NM_025951	ENSMUSG00000029186	Pi4k2b	2610042N09Rik|4933409G22Rik	phosphatidylinositol 4-kinase type 2 beta	protein-coding	14.0	28.5	15.5	370.5	27.5	4.0	17.0	15.5
Merged-chr3-106548391-4	chr3	106548304	106548504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133869)	promoter-TSS (NM_133869)	-602.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	41.5	57.0	56.0	1052.5	99.0	12.0	65.0	64.5
Merged-chr10-83922234-4	chr10	83922126	83922326	+	955.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	178471.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	13.0	20.0	19.5	285.5	39.5	12.5	21.0	25.0
Merged-chr15-8633773-4	chr15	8633655	8633855	+	901.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_148938)	TTS (NM_148938)	77052.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	5.0	7.0	14.5	95.5	19.0	13.0	9.5	10.0
Merged-chr17-35382859-2	chr17	35382760	35382960	+	791.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001143689, exon 4 of 6)	exon (NM_001143689, exon 4 of 6)	3243.0	NM_001143689	15015.0	Mm.464284	NM_001143689	ENSMUSG00000035929	H2-Q4	H-2Q4|H2-Gs10|Qa-4|Qa4|Qat-4|Qb-1|Qb1	histocompatibility 2, Q region locus 4	protein-coding	8.0	19.5	4.5	20.5	12.0	3.5	1.5	1.0
Merged-chr16-70408042-4	chr16	70407961	70408161	+	907.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 3 of 15)	intron (NM_028803, intron 3 of 15)	94112.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	25.0	27.5	24.5	651.0	21.5	8.5	5.5	11.5
Merged-chr5-92499666-4	chr5	92499564	92499764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	5993.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	96.0	114.0	149.5	1291.0	163.0	45.5	82.5	63.5
Merged-chr1-88635783-4	chr1	88635678	88635878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66413.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	77.5	119.0	56.0	611.0	147.0	53.5	61.0	57.5
Merged-chr6-13853448-3	chr6	13853357	13853557	+	797.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-13515.0	NM_145066	64450.0	Mm.167625	NM_145066	ENSMUSG00000048216	Gpr85	2900026B03Rik	G protein-coupled receptor 85	protein-coding	7.0	8.0	14.0	145.0	14.0	4.5	5.0	0.5
Merged-chr2-70963057-1	chr2	70962957	70963157	+	600.0	f0_c57.idr	Intergenic	Intergenic	55317.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	3.0	2.0	2.0	32.0	19.0	9.0	16.0	14.0
Merged-chr8-105170545-4	chr8	105170453	105170653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161457)	promoter-TSS (NM_001161457)	-121.0	NM_001161457	12400.0	Mm.2018	NM_022309	ENSMUSG00000031885	Cbfb	AI893578|PEA2|PEBP2b|Pebp2|Pebpb2	core binding factor beta	protein-coding	156.5	209.5	152.5	2395.5	338.5	104.5	111.5	111.0
Merged-chr8-22185756-4	chr8	22185626	22185826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004140)	promoter-TSS (NM_001004140)	93.0	NM_001004140	80986.0	Mm.22448	NM_001004140	ENSMUSG00000037725	Ckap2	AI461656|AW228814|LB1	cytoskeleton associated protein 2	protein-coding	74.5	107.5	154.0	1233.0	120.5	61.0	64.5	74.0
Merged-chr7-39655333-1	chr7	39655233	39655433	+	1000.0	f0_c57.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	137567.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	0.0	0.0	0.0	0.0	72.0	33.5	38.0	31.5
Merged-chr13-10686525-1	chr13	10686425	10686625	+	731.0	f0_c57.idr	Intergenic	RMER16|LTR|ERVK	-325722.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	4.0	7.0	3.5	126.0	26.5	9.5	8.0	26.0
Merged-chr4-45949715-1	chr4	45949615	45949815	+	671.0	f1_balb.idr	intron (NM_198660, intron 37 of 37)	intron (NM_198660, intron 37 of 37)	-15620.0	NM_001290475	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	8.5	10.0	7.0	42.0	17.5	10.0	4.0	13.5
Merged-chr4-134759746-4	chr4	134759655	134759855	+	925.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	8249.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	10.5	25.0	22.5	258.0	30.5	14.5	9.5	13.0
Merged-chr7-132859253-4	chr7	132859150	132859350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198017)	promoter-TSS (NM_198017)	25.0	NM_198017	109359.0	Mm.274824	NM_198017	ENSMUSG00000030965	Abraxas2	AA589499|AI853413|Abro1|C430003P19Rik|Fam175b	BRISC complex subunit	protein-coding	52.0	54.5	31.0	521.5	128.5	41.5	55.5	51.5
Merged-chr7-24662733-4	chr7	24662624	24662824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030681, exon 2 of 2)	non-coding (NR_030681, exon 2 of 2)	1430.0	NR_030681	100043706.0	Mm.483825	NR_030681	ENSMUSG00000108470	Gm4598	-	predicted gene 4598	ncRNA	31.0	31.5	14.0	390.0	97.0	30.5	25.5	21.0
Merged-chr19-21714636-4	chr19	21714551	21714751	+	780.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61342.0	NM_146096	226016.0	Mm.28796	NM_146096	ENSMUSG00000047368	Abhd17b	5730446C15Rik|Cgi67|Fam108b|Fam108b1	abhydrolase domain containing 17B	protein-coding	7.0	10.0	9.5	148.5	28.0	6.5	8.5	2.0
Merged-chr3-19301471-6	chr3	19301353	19301553	+	748.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122759, intron 1 of 12)	intron (NM_001122759, intron 1 of 12)	9869.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	7.0	7.5	7.5	204.5	14.0	2.0	8.0	6.0
Merged-chr12-26444190-3	chr12	26444079	26444279	+	995.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021384, exon 6 of 6)	3' UTR (NM_021384, exon 6 of 6)	12273.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	19.5	20.5	9.0	188.0	18.5	9.5	15.5	3.0
Merged-chr2-163766407-4	chr2	163766262	163766462	+	852.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16123.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	20.5	18.5	15.0	325.0	3.0	6.0	8.0	4.5
Merged-chr6-97929520-3	chr6	97929413	97929613	+	883.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001178049)	promoter-TSS (NM_001178049)	-304.0	NM_001178049	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	4.5	5.5	14.0	142.0	6.0	0.5	6.5	1.0
Merged-chr8-116629174-4	chr8	116629062	116629262	+	929.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 1 of 6)	intron (NM_029441, intron 1 of 6)	103829.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	15.5	35.0	4.5	96.0	52.0	22.0	13.0	15.0
Merged-chr2-92434188-4	chr2	92434083	92434283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009963)	promoter-TSS (NM_009963)	-114.0	NM_009963	12953.0	Mm.254181	NM_009963	ENSMUSG00000068742	Cry2	AV006279|D130054K12Rik	cryptochrome 2 (photolyase-like)	protein-coding	296.5	420.0	232.5	3550.5	648.0	265.0	308.5	238.5
Merged-chr10-127126827-4	chr10	127126729	127126929	+	798.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-5669.0	NM_001171026	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	12.0	14.0	2.5	124.5	22.0	10.5	10.0	13.5
Merged-chr6-149309641-4	chr6	149309487	149309687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001289662, exon 1 of 5)	5' UTR (NM_001289662, exon 1 of 5)	173.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	105.0	181.5	248.5	2212.0	292.0	134.0	166.5	165.5
Merged-chr13-101119757-3	chr13	101119638	101119838	+	705.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112389.0	NR_046158	328324.0	Mm.402274	NR_046158	ENSMUSG00000114590	5930438M14Rik	5930438M14	RIKEN cDNA 5930438M14 gene	ncRNA	8.0	11.0	6.5	148.0	13.0	4.5	2.5	4.5
Merged-chr14-47189403-4	chr14	47189306	47189506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008102)	promoter-TSS (NM_008102)	7.0	NM_008102	14528.0	Mm.10651	NM_008102	ENSMUSG00000037580	Gch1	GTP-CH|GTP-CH-I|GTPCH|Gch	GTP cyclohydrolase 1	protein-coding	52.0	100.0	48.5	867.5	194.0	49.5	38.0	52.0
Merged-chr16-36875040-4	chr16	36874936	36875136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134111)	promoter-TSS (NM_134111)	-210.0	NM_134111	106389.0	Mm.432078	NM_134111	ENSMUSG00000022838	Eaf2	AW048865|FESTA-L|FESTA-S|Festa|Traits|U19	ELL associated factor 2	protein-coding	284.5	459.5	301.0	4171.5	758.5	299.0	288.5	245.0
Merged-chr14-31830790-4	chr14	31830692	31830892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024604)	promoter-TSS (NM_001024604)	-377.0	NM_001024604	105522.0	Mm.37660	NM_001024604	ENSMUSG00000014496	Ankrd28	AI465466|AI604979|E430019N21Rik|mKIAA0379	ankyrin repeat domain 28	protein-coding	75.5	88.0	78.5	1333.5	214.0	74.5	105.5	53.5
Merged-chr2-129198646-4	chr2	129198497	129198697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159593)	promoter-TSS (NM_001159593)	-176.0	NM_015747	20515.0	Mm.272675	NM_015747	ENSMUSG00000027397	Slc20a1	AI607883|Glvr-1|Glvr1	solute carrier family 20, member 1	protein-coding	184.0	296.5	139.0	2213.5	525.5	219.5	258.5	206.5
Merged-chr12-85588781-3	chr12	85588686	85588886	+	839.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10319.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	13.5	15.0	4.0	145.0	12.5	9.0	4.5	5.0
Merged-chr9-32672563-4	chr9	32672466	32672666	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23476.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	36.5	34.5	40.5	905.5	43.0	13.5	12.5	17.5
Merged-chr1-151287725-4	chr1	151287626	151287826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56760.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	43.0	57.0	52.0	775.0	85.0	43.5	66.0	55.0
Merged-chr4-150799680-4	chr4	150799564	150799764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54132.0	NM_001356323	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	64.5	83.5	82.5	906.5	178.0	69.5	71.0	69.5
Merged-chr9-104629406-4	chr9	104629268	104629468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	59885.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	122.5	166.5	140.5	1712.5	321.5	115.5	141.5	134.5
Merged-chr5-109548974-4	chr5	109548892	109549092	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10001.0	NM_016715	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	25.0	84.0	41.0	251.0	161.0	94.5	64.0	54.0
Merged-chr5-105694322-6	chr5	105694264	105694464	+	992.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-5605.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	11.5	3.5	5.0	111.0	21.5	7.0	7.0	18.0
Merged-chr8-71528811-3	chr8	71528724	71528924	+	881.4722289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8613.0	NM_198095	69550.0	Mm.260325	NM_198095	ENSMUSG00000046718	Bst2	2310015I10Rik|Bst-2|C87040|CD317|DAMP-1|GREG	bone marrow stromal cell antigen 2	protein-coding	5.0	3.5	0.0	126.5	20.5	6.5	17.5	11.0
Merged-chr9-65432434-4	chr9	65432320	65432520	+	752.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3362.0	NM_027134	69606.0	Mm.287956	NM_027134	ENSMUSG00000059183	Mtfmt	2310020P08Rik	mitochondrial methionyl-tRNA formyltransferase	protein-coding	4.5	17.0	0.0	114.0	29.0	5.5	9.0	6.5
Merged-chr4-119959581-4	chr4	119959497	119959697	+	740.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	144919.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	5.0	16.5	11.0	184.5	41.5	10.0	11.5	9.0
Merged-chr10-30620063-4	chr10	30619968	30620168	+	899.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1702.0	NM_025798	66847.0	Mm.46218	NM_025798	ENSMUSG00000019791	Hint3	0610010I17Rik|AV009015|HINT-3|HINT-4|HINT4	histidine triad nucleotide binding protein 3	protein-coding	7.0	21.5	9.0	214.0	37.5	11.5	15.5	25.5
Merged-chr9-103425123-4	chr9	103425032	103425232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001002896, exon 7 of 7)	3' UTR (NM_001002896, exon 7 of 7)	1554.0	NR_040466	100529079.0	Mm.437003	NR_040466	ENSMUSG00000086236	5830418P13Rik	-	RIKEN cDNA 5830418P13 gene	ncRNA	37.5	64.0	50.5	570.0	124.5	31.5	32.0	69.0
Merged-chr13-97340665-4	chr13	97340558	97340758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94312.0	NR_110432	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	4.5	19.0	6.5	225.0	35.5	9.5	21.5	18.5
Merged-chr3-107084724-4	chr3	107084609	107084809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16858.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	21.0	59.0	22.5	385.5	105.0	40.0	43.5	46.5
Merged-chr11-78044856-3	chr11	78044737	78044937	+	760.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284228, intron 1 of 11)	intron (NM_001284228, intron 1 of 11)	4530.0	NM_001284228	14252.0	Mm.130227	NM_008028	ENSMUSG00000061981	Flot2	AI573412|Esa|reggie-2	flotillin 2	protein-coding	5.0	9.5	7.5	18.0	25.0	4.5	12.5	10.5
Merged-chr11-114934429-4	chr11	114934326	114934526	+	922.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199221)	promoter-TSS (NM_199221)	-40.0	NM_199221	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	24.5	26.0	25.0	438.5	49.0	19.5	23.0	19.5
Merged-chr3-52270083-4	chr3	52270009	52270209	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019739, intron 1 of 2)	intron (NM_019739, intron 1 of 2)	1772.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	28.0	22.5	17.5	316.5	50.5	13.5	21.5	28.0
Merged-chr8-119339472-3	chr8	119339354	119339554	+	947.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5084.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	6.0	12.0	18.5	161.0	6.0	3.0	4.5	8.5
Merged-chr5-119058586-7	chr5	119058466	119058666	+	987.127014	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49670.0	NR_040693	73477.0	Mm.410863	NR_040693	ENSMUSG00000100573	1700081H04Rik	-	RIKEN cDNA 1700081H04 gene	ncRNA	8.5	14.5	11.0	184.0	35.0	10.0	10.5	8.5
Merged-chr4-117132061-3	chr4	117132006	117132206	+	667.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313916, intron 5 of 14)	intron (NM_001313916, intron 5 of 14)	1857.0	NM_013807	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	3.5	8.5	9.0	29.0	5.0	4.5	6.5	11.0
Merged-chr17-87023625-4	chr17	87023502	87023702	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008838, intron 2 of 5)	intron (NM_008838, intron 2 of 5)	1799.0	NM_008838	18701.0	Mm.219685	NM_008838	ENSMUSG00000024145	Pigf	-	phosphatidylinositol glycan anchor biosynthesis, class F	protein-coding	23.5	16.5	30.5	404.0	187.5	51.5	85.0	63.5
Merged-chr4-108798683-2	chr4	108798583	108798783	+	669.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17595.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	3.5	11.0	5.5	53.5	11.5	12.0	10.0	5.5
Merged-chr6-125147010-4	chr6	125146913	125147113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039669, intron 1 of 9)	intron (NM_001039669, intron 1 of 9)	1789.0	NM_001302779	320678.0	Mm.129415	NM_178787	ENSMUSG00000038271	Iffo1	4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo	intermediate filament family orphan 1	protein-coding	184.0	291.0	134.0	2704.5	385.0	133.5	199.0	143.0
Merged-chr5-3300930-4	chr5	3300825	3301025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42968.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	27.0	47.0	36.5	877.5	59.0	26.0	23.0	34.5
Merged-chr5-7994225-4	chr5	7994117	7994317	+	946.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTTG)n|Simple_repeat|Simple_repeat	33745.0	NM_054098	117167.0	Mm.31403	NM_054098	ENSMUSG00000012428	Steap4	1110021O17Rik|AI481214|Tiarp|Tnfaip9	STEAP family member 4	protein-coding	10.0	22.5	13.0	290.5	44.5	15.0	18.0	21.5
Merged-chr14-67760701-1	chr14	67760601	67760801	+	563.5	f0_c57.idr	intron (NM_177780, intron 48 of 51)	intron (NM_177780, intron 48 of 51)	15520.0	NR_133010	14714.0	Mm.358309	NM_008145	ENSMUSG00000015812	Gnrh1	Gnrh|Gnrh2|LHRH|Lhrh1|Lnrh|hpg	gonadotropin releasing hormone 1	protein-coding	5.0	3.5	4.5	19.5	20.0	6.0	9.0	12.0
Merged-chr3-148961098-4	chr3	148960988	148961188	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6453.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	28.0	20.0	34.0	471.5	64.0	17.0	17.0	19.0
Merged-chr10-67047904-4	chr10	67047801	67048001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	42826.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	54.5	63.5	35.0	747.0	115.0	39.5	25.5	33.0
Merged-chr9-57557462-4	chr9	57557361	57557561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3483.0	NM_022813	24044.0	Mm.286069	NM_022813	ENSMUSG00000040188	Scamp2	AI875466|Sc2	secretory carrier membrane protein 2	protein-coding	53.0	69.0	30.0	772.5	81.5	23.5	30.0	34.5
Merged-chr2-43902810-4	chr2	43902712	43902912	+	887.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 6 of 14)	intron (NM_001301831, intron 6 of 14)	153988.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	8.5	7.0	9.5	218.5	41.0	12.0	9.5	7.5
Merged-chr4-131918803-4	chr4	131918641	131918841	+	866.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102394, intron 1 of 2)	intron (NR_102394, intron 1 of 2)	1288.0	NR_102394	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	6.0	8.0	17.5	266.5	15.5	5.0	10.0	4.0
Merged-chr2-71382124-4	chr2	71382021	71382221	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-7139.0	NM_026115	107435.0	Mm.272472	NM_026115	ENSMUSG00000027018	Hat1	2410071B14Rik|AA536933|Hat-1|KAT1	histone aminotransferase 1	protein-coding	19.5	12.0	6.5	193.5	46.0	16.0	20.0	23.5
Merged-chr15-39945183-4	chr15	39945081	39945281	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1187.0	NM_172814	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	15.0	40.0	24.5	372.0	43.0	17.0	14.5	22.5
Merged-chr9-61257729-4	chr9	61257619	61257819	+	984.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	36090.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	40.5	65.5	23.5	256.5	93.0	30.5	27.0	19.0
Merged-chr6-115367006-4	chr6	115366908	115367108	+	899.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 1 of 7)	intron (NM_001308354, intron 1 of 7)	4659.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	15.0	10.5	8.5	195.0	36.0	12.5	14.5	16.5
Merged-chr11-115010419-4	chr11	115010250	115010450	+	805.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8470.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	5.0	10.0	7.0	29.0	15.5	3.5	7.5	2.5
Merged-chr11-5792676-4	chr11	5792565	5792765	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146309, intron 2 of 12)	intron (NM_001146309, intron 2 of 12)	4182.0	NM_013810	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	19.0	28.0	27.5	433.0	35.5	15.0	21.5	24.0
Merged-chr5-67463885-3	chr5	67463781	67463981	+	737.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015582)	promoter-TSS (NR_015582)	-17.0	NR_110363	320479.0	Mm.387187	NR_015582	ENSMUSG00000107385	C330024D21Rik	-	RIKEN cDNA C330024D21 gene	ncRNA	9.0	6.5	9.0	308.5	1.0	0.0	0.0	0.0
Merged-chr9-113741380-4	chr9	113741287	113741487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286599)	promoter-TSS (NM_001286599)	-86.0	NM_001286599	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	62.5	60.5	62.5	692.5	130.0	46.5	69.5	63.0
Merged-chr12-8922967-4	chr12	8922874	8923074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008640, intron 1 of 6)	intron (NM_008640, intron 1 of 6)	1667.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	43.5	52.0	75.0	950.5	155.0	59.5	61.5	67.0
Merged-chr10-99211143-4	chr10	99211065	99211265	+	932.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4|LINE|L1	-52066.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	9.0	34.5	19.5	279.5	90.0	18.5	14.0	25.5
Merged-chr18-5348990-4	chr18	5348902	5349102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14195.0	NM_001360447	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	36.5	48.5	25.0	403.5	67.0	37.0	26.5	42.0
Merged-chr2-124599182-4	chr2	124599083	124599283	+	924.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-11113.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	12.0	21.5	12.0	225.5	44.5	11.5	33.0	7.5
Merged-chr1-181125343-4	chr1	181125245	181125445	+	715.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026171, intron 10 of 22)	ORR1D1|LTR|ERVL-MaLR	18859.0	NM_026171	67459.0	Mm.263464	NM_026171	ENSMUSG00000026516	Nvl	1200009I24Rik	nuclear VCP-like	protein-coding	8.0	13.0	4.0	89.5	33.0	7.5	5.5	13.0
Merged-chr1-38013325-4	chr1	38013203	38013403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	intron (NM_198303, intron 1 of 23)	15293.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	45.0	64.5	52.5	921.0	135.5	22.5	57.0	59.5
Merged-chr9-69667424-4	chr9	69667331	69667531	+	849.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93509.0	NM_022378	64290.0	Mm.440890	NM_022378	ENSMUSG00000059246	Foxb1	C43|Fkh5|Foxb1a|Foxb1b|Hfh-e5.1|Mf3|Twh	forkhead box B1	protein-coding	26.5	24.5	30.5	466.5	9.0	12.0	17.0	21.0
Merged-chr10-78481100-4	chr10	78481013	78481213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16165.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	29.0	29.0	44.5	460.0	61.5	24.5	37.5	33.5
Merged-chr14-65358472-4	chr14	65358367	65358567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199029)	promoter-TSS (NM_199029)	-209.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	55.5	49.5	39.5	535.0	149.0	56.0	53.5	47.5
Merged-chr8-77535205-3	chr8	77535078	77535278	+	798.744446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14219.0	NM_001081240	102182.0	Mm.197630	NM_178903	ENSMUSG00000037134	Prmt9	AI931714|Prmt10	protein arginine methyltransferase 9	protein-coding	17.5	16.0	11.0	101.0	6.5	5.0	6.5	6.5
Merged-chr11-51818433-4	chr11	51818309	51818509	+	898.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 12 of 12)	intron (NM_001357588, intron 12 of 12)	39072.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	13.5	16.5	18.5	299.5	24.5	10.0	10.5	15.5
Merged-chr11-115173676-4	chr11	115173604	115173804	+	838.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 1 of 5)	intron (NM_012030, intron 1 of 5)	10363.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	18.5	36.0	10.0	45.5	28.0	9.0	11.0	11.5
Merged-chr1-60609602-3	chr1	60609505	60609705	+	865.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42840.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	14.0	10.5	4.5	373.0	10.5	8.0	9.0	6.5
Merged-chr16-91461400-4	chr16	91461318	91461518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie7|DNA|hAT-Charlie	-3686.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	66.5	58.5	59.0	1043.0	78.0	31.5	38.0	30.0
Merged-chr6-125256746-4	chr6	125256636	125256836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8789.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	31.5	29.0	28.0	504.0	151.0	37.0	52.0	41.0
Merged-chr13-97474688-3	chr13	97474583	97474783	+	790.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110432, intron 1 of 1)	intron (NR_110432, intron 1 of 1)	-8018.0	NR_110430	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	1.0	10.0	2.0	45.0	19.0	6.5	13.5	13.0
Merged-chr13-102722486-4	chr13	102722354	102722554	+	758.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	28896.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	10.5	17.5	3.0	38.5	26.0	6.5	8.0	9.5
Merged-chr5-115319848-4	chr5	115319747	115319947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131932, exon 2 of 2)	non-coding (NR_131932, exon 2 of 2)	-7330.0	NM_025573	108014.0	Mm.287826	NM_025573	ENSMUSG00000029538	Srsf9	25kDa|2610029M16Rik|SRp30c|Sfrs9	serine/arginine-rich splicing factor 9	protein-coding	28.5	45.0	22.0	380.0	59.0	26.0	31.0	10.0
Merged-chr4-9641164-4	chr4	9641055	9641255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	2562.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	34.5	39.5	34.0	648.0	71.5	25.5	31.0	36.0
Merged-chr1-87873219-4	chr1	87873130	87873330	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177646, intron 1 of 29)	intron (NM_177646, intron 1 of 29)	-18931.0	NR_136921	100503175.0	Mm.426422	NR_136921	ENSMUSG00000101942	Gm19582	-	predicted gene, 19582	ncRNA	7.5	19.0	25.0	360.5	31.5	14.0	15.0	19.5
Merged-chr14-31234108-4	chr14	31233983	31234183	+	895.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16210.0	NM_001025379	218877.0	Mm.27812	NM_001025379	ENSMUSG00000021904	Sema3g	AK129018	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G	protein-coding	12.5	11.0	7.0	125.0	22.0	9.0	8.5	8.0
Merged-chr1-37544066-2	chr1	37543966	37544166	+	728.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-3050.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	6.0	5.0	9.0	64.5	15.0	2.5	5.5	7.5
Merged-chr10-69307216-6	chr10	69307082	69307282	+	882.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45730.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	5.0	11.0	7.0	66.5	32.5	8.5	3.0	6.0
Merged-chr14-70057453-1	chr14	70057353	70057553	+	1000.0	f0_c57.idr	intron (NM_028560, intron 6 of 6)	intron (NM_028560, intron 6 of 6)	-19992.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	79.0	182.0	103.0	887.0	247.0	115.5	98.0	82.5
Merged-chr10-20719400-4	chr10	20719297	20719497	+	760.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	G-rich|Low_complexity|Low_complexity	5681.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	12.5	9.0	4.5	100.0	24.5	10.5	10.0	6.0
Merged-chr10-24651332-4	chr10	24651193	24651393	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008813, exon 20 of 25)	exon (NM_008813, exon 20 of 25)	55851.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	15.5	25.0	40.5	373.0	53.5	10.5	30.5	21.0
Merged-chr3-101601014-4	chr3	101600903	101601103	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	3704.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	13.0	24.5	22.5	398.5	43.0	16.5	23.0	26.5
Merged-chr11-46785177-3	chr11	46785059	46785259	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-25640.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	0.0	5.5	2.5	23.0	100.0	23.0	50.5	37.0
Merged-chr2-4555427-4	chr2	4555317	4555517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 11 of 23)	intron (NM_001177843, intron 11 of 23)	-4337.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	112.0	135.5	99.5	1558.5	149.0	59.0	108.5	89.5
Merged-chr11-74505431-6	chr11	74505300	74505500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	MER2|DNA|TcMar-Tigger	84758.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	11.5	24.5	20.0	209.0	46.5	23.0	22.0	16.0
Merged-chr2-138258123-4	chr2	138258036	138258236	+	933.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025431, intron 1 of 4)	intron (NM_001025431, intron 1 of 4)	1552.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	21.0	31.0	12.0	246.0	58.0	23.0	11.0	13.5
Merged-chr11-101008791-4	chr11	101008685	101008885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243051)	promoter-TSS (NM_001243051)	-667.0	NM_016920	11975.0	Mm.340818	NM_016920	ENSMUSG00000019302	Atp6v0a1	AA959968|ATP6a1|Atp6n1|Atp6n1a|Atpv0a1|Vpp-1|Vpp1	ATPase, H+ transporting, lysosomal V0 subunit A1	protein-coding	42.5	73.0	30.0	524.0	108.5	38.0	25.0	40.5
Merged-chr3-82800636-4	chr3	82800526	82800726	+	906.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75857.0	NM_001277170	633285.0	Mm.265114	NM_001146328	ENSMUSG00000033882	Rbm46	EG633285|Gm761	RNA binding motif protein 46	protein-coding	15.5	20.0	35.5	486.5	28.0	14.0	18.0	14.5
Merged-chr2-53191327-4	chr2	53191232	53191432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022989)	promoter-TSS (NM_022989)	-145.0	NM_018785	56194.0	Mm.257474	NM_018785	ENSMUSG00000061136	Prpf40a	2810012K09Rik|FBP-11|FBP11|Fnbp11|Fnbp3	pre-mRNA processing factor 40A	protein-coding	258.5	443.5	296.0	4191.0	695.5	266.5	374.5	258.5
Merged-chr9-88719418-5	chr9	88719414	88719614	+	891.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359992)	promoter-TSS (NM_001359992)	73.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	7.0	14.5	13.5	137.0	33.0	7.5	16.0	10.5
Merged-chr15-57883934-3	chr15	57883837	57884037	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024207, intron 1 of 7)	intron (NM_024207, intron 1 of 7)	8481.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	2.5	13.0	3.5	127.5	14.5	6.0	13.0	8.5
Merged-chr12-85344425-3	chr12	85344317	85344517	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-5055.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	7.0	9.5	6.0	37.0	48.0	18.0	23.0	29.0
Merged-chr6-108827763-4	chr6	108827657	108827857	+	990.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138677)	promoter-TSS (NM_138677)	-884.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	19.5	16.0	18.0	275.0	47.0	20.0	19.5	12.5
Merged-chr1-172368959-4	chr1	172368895	172369095	+	922.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039484, exon 2 of 2)	exon (NM_001039484, exon 2 of 2)	-7536.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	10.5	8.5	4.0	130.0	40.5	16.5	19.5	21.0
Merged-chr6-90736361-2	chr6	90736261	90736461	+	724.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	CpG	-19832.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	6.0	5.0	5.0	77.0	19.0	2.5	4.5	8.0
Merged-chr14-56576633-6	chr14	56576530	56576730	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145978, intron 1 of 34)	intron (NM_001145978, intron 1 of 34)	1011.0	NM_001145978	328417.0	Mm.379357	NM_001145978	ENSMUSG00000054509	Parp4	Adprtl1|C030027K23Rik|E230037B21Rik|Gm743|PARPL|PH5P|VAULT3|VPARP|p193	poly (ADP-ribose) polymerase family, member 4	protein-coding	9.5	16.0	10.0	178.0	31.0	9.5	3.5	13.5
Merged-chr7-102258331-4	chr7	102258249	102258449	+	879.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8231.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	11.0	35.0	11.0	171.5	39.0	14.0	16.5	21.0
Merged-chr15-80255546-1	chr15	80255446	80255646	+	1000.0	f0_balb.idr	5' UTR (NM_009716, exon 1 of 3)	5' UTR (NM_009716, exon 1 of 3)	362.0	NM_009716	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	58.0	133.5	41.0	437.0	143.0	58.0	34.5	39.5
Merged-chr4-133131410-5	chr4	133131279	133131479	+	865.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	746.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	17.0	35.0	12.5	122.5	35.5	18.0	7.0	15.0
Merged-chr9-40806573-4	chr9	40806485	40806685	+	774.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5312.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	7.5	7.5	5.5	94.5	37.5	10.0	8.5	8.5
Merged-chr15-80083451-4	chr15	80083357	80083557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013762)	promoter-TSS (NM_013762)	-51.0	NM_013762	27367.0	Mm.290771	NM_013762	ENSMUSG00000060036	Rpl3	F2|J1	ribosomal protein L3	protein-coding	128.5	190.5	66.5	954.5	276.5	160.0	95.0	104.5
Merged-chr12-79296351-4	chr12	79296273	79296473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252562)	promoter-TSS (NM_001252562)	-91.0	NM_001008550	211978.0	Mm.297919	NM_001008550	ENSMUSG00000066440	Zfyve26	4930465A13|9330197E15Rik|A630028O16Rik|Gm893|mKIAA0321	zinc finger, FYVE domain containing 26	protein-coding	98.0	143.5	67.5	1286.5	244.5	104.0	94.5	107.5
Merged-chr4-7392675-3	chr4	7392575	7392775	+	898.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168013.0	NR_040645	71510.0	Mm.410775	NR_040645	ENSMUSG00000086070	8430436N08Rik	-	RIKEN cDNA 8430436N08 gene	ncRNA	2.0	5.5	1.5	173.0	13.5	13.5	16.5	7.0
Merged-chr4-139199279-4	chr4	139199187	139199387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	5176.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	66.5	60.5	94.5	1188.0	121.0	38.0	75.0	62.0
Merged-chr1-146967669-4	chr1	146967557	146967757	+	939.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	469970.0	NM_001145807	215378.0	Mm.441817	NM_153539	ENSMUSG00000035131	Brinp3	B830045N13Rik|Fam5c	bone morphogenetic protein/retinoic acid inducible neural specific 3	protein-coding	17.5	11.0	14.5	295.5	42.0	23.5	20.0	14.0
Merged-chr18-77065792-4	chr18	77065702	77065902	+	980.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164168, exon 1 of 14)	5' UTR (NM_001164168, exon 1 of 14)	122.0	NM_001164170	17344.0	Mm.6370	NM_008602	ENSMUSG00000025423	Pias2	6330408K17Rik|AI462206|ARIP3|AU018068|Dib|Miz1|PIASxalpha|PIASxb|PIASxbeta|SIZ2	protein inhibitor of activated STAT 2	protein-coding	10.5	22.0	30.5	189.5	42.0	12.0	11.0	13.0
Merged-chr4-119422341-4	chr4	119422223	119422423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355214)	promoter-TSS (NM_001355214)	97.0	NM_001355214	106564.0	Mm.27245	NM_026494	ENSMUSG00000028636	Ppcs	6330579B17Rik|AI413471|AI790434	phosphopantothenoylcysteine synthetase	protein-coding	35.5	64.5	35.0	311.0	79.0	27.5	33.0	21.0
Merged-chr7-143043126-4	chr7	143043019	143043219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 2 of 4)	intron (NR_110355, intron 2 of 4)	-9631.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	36.5	102.5	44.5	811.0	117.5	63.0	50.5	40.0
Merged-chr1-154786397-4	chr1	154786300	154786500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60480.0	NM_009782	12290.0	Mm.267517	NM_009782	ENSMUSG00000004110	Cacna1e	A430040I15|BII|Cach6|Cacnl1a6|Cav2.3|Cchra1|alpha1E	calcium channel, voltage-dependent, R type, alpha 1E subunit	protein-coding	39.5	50.0	19.0	514.5	75.0	40.0	26.5	29.0
Merged-chr3-9028118-4	chr3	9028024	9028224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23401.0	NM_001357075	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	28.0	62.0	66.5	788.0	118.5	27.5	42.5	51.5
Merged-chr2-118760025-3	chr2	118759925	118760125	+	783.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001982, intron 5 of 10)	intron (NM_001001982, intron 5 of 10)	2636.0	NM_001001982	214239.0	Mm.379342	NM_001001982	ENSMUSG00000045838	A430105I19Rik	Ccdc9b|Gm353	RIKEN cDNA A430105I19 gene	protein-coding	5.5	12.0	6.0	138.0	12.0	3.0	7.0	12.0
Merged-chr14-21049065-4	chr14	21048969	21049169	+	706.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018829, intron 1 of 8)	B3|SINE|B2	3373.0	NM_018829	55946.0	Mm.376269	NM_018829	ENSMUSG00000021824	Ap3m1	1200013D09Rik|C78982|R75378	adaptor-related protein complex 3, mu 1 subunit	protein-coding	8.0	14.0	5.5	84.0	26.0	14.0	13.5	13.0
Merged-chr9-27029445-3	chr9	27029355	27029555	+	690.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178113)	promoter-TSS (NM_178113)	639.0	NM_178027	69091.0	Mm.218717	NM_178027	ENSMUSG00000031988	Vps26b	1810012I05Rik|2310075A12Rik|AI848392	VPS26 retromer complex component B	protein-coding	7.0	14.5	11.5	91.5	34.5	9.0	7.0	11.0
Merged-chr9-118678465-4	chr9	118678284	118678484	+	872.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 11 of 27)	intron (NM_133721, intron 11 of 27)	-33308.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	2.5	2.5	7.5	48.0	31.5	13.0	13.5	14.0
Merged-chr16-32332761-4	chr16	32332643	32332843	+	874.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177633, intron 1 of 10)	CpG	491.0	NM_177633	224111.0	Mm.31275	NM_177633	ENSMUSG00000053774	Ubxn7	A630090P18|AI196514|Ubxd7|mKIAA0794	UBX domain protein 7	protein-coding	13.5	10.0	14.5	203.0	19.5	4.0	6.5	15.0
Merged-chr7-105767940-4	chr7	105767870	105768070	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162943, intron 2 of 20)	intron (NM_001162943, intron 2 of 20)	-15735.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	18.0	23.0	24.5	369.5	38.0	12.5	20.0	18.0
Merged-chr4-34643363-4	chr4	34643272	34643472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151507, intron 8 of 19)	intron (NR_151507, intron 8 of 19)	28415.0	NM_181406	109093.0	Mm.22363	NM_181406	ENSMUSG00000028292	Rars2	1500002I10Rik|PRO1992|Rarsl	arginyl-tRNA synthetase 2, mitochondrial	protein-coding	167.5	200.0	163.0	3289.5	397.0	118.0	174.5	163.0
Merged-chr17-86063698-4	chr17	86063586	86063786	+	874.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 14 of 20)	intron (NM_030133, intron 14 of 20)	81489.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	5.0	20.5	6.5	83.0	36.0	11.0	16.0	9.5
Merged-chr3-53462867-2	chr3	53462767	53462967	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173382)	promoter-TSS (NM_173382)	391.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	18.0	26.5	19.0	238.5	31.0	17.5	20.0	24.5
Merged-chr7-48750043-4	chr7	48749861	48750061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39042.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	12.5	27.5	36.5	293.0	32.0	13.5	17.0	26.5
Merged-chr1-107389939-4	chr1	107389831	107390031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	27617.0	NM_025867	66957.0	Mm.12638	NM_025867	ENSMUSG00000026327	Serpinb11	2310046M08Rik|AU015399	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 11	protein-coding	37.5	40.0	66.5	1045.5	82.0	30.0	34.0	32.0
Merged-chr9-25150761-2	chr9	25150661	25150861	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_020586, intron 1 of 7)	intron (NM_020586, intron 1 of 7)	1020.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	3.5	10.5	14.0	94.0	24.0	5.5	10.0	10.5
Merged-chr18-74913909-3	chr18	74913810	74914010	+	772.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	47353.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	6.5	15.0	4.0	135.0	15.0	8.0	8.5	4.5
Merged-chr17-25861475-4	chr17	25861346	25861546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163766)	promoter-TSS (NM_001163766)	69.0	NM_001163766	106618.0	Mm.35470	NM_134124	ENSMUSG00000073434	Wdr90	3230401M21Rik|AI551153|mKIAA1924	WD repeat domain 90	protein-coding	83.5	117.0	53.5	900.0	199.0	108.5	87.5	102.0
Merged-chr12-102524402-4	chr12	102524295	102524495	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30546.0	NM_007693	12652.0	Mm.4137	NM_007693	ENSMUSG00000021194	Chga	ChrA|cgA	chromogranin A	protein-coding	17.0	28.0	28.0	303.0	18.5	8.0	10.5	15.5
Merged-chr19-16050333-3	chr19	16050226	16050426	+	997.7666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65251.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	4.0	4.0	8.5	58.0	44.0	14.0	17.5	16.5
Merged-chr4-119845828-2	chr4	119845728	119845928	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	ORR1D2|LTR|ERVL-MaLR	31150.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	7.5	3.5	5.5	68.0	13.5	5.0	10.0	16.0
Merged-chr5-62847634-2	chr5	62847526	62847726	+	630.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 6 of 8)	intron (NM_001170705, intron 6 of 8)	33803.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	2.0	5.0	3.0	61.0	16.0	9.5	4.5	6.5
Merged-chr5-21200223-4	chr5	21200118	21200318	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 3 of 26)	intron (NR_153365, intron 3 of 26)	13951.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	37.0	46.5	21.0	392.0	74.0	22.0	21.5	16.5
Merged-chr2-29055247-4	chr2	29055135	29055335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166705)	promoter-TSS (NM_001166705)	-169.0	NM_001166705	329375.0	Mm.425079	NM_001085514	ENSMUSG00000079502	Cfap77	1700101E01Rik|Gm823	cilia and flagella associated protein 77	protein-coding	38.5	38.5	22.5	409.0	74.5	23.0	20.0	37.0
Merged-chr17-71287625-6	chr17	71287469	71287669	+	973.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	(CCA)n|Simple_repeat|Simple_repeat	23442.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	13.0	14.5	19.5	126.0	10.0	11.5	8.5	8.0
Merged-chr12-86893901-4	chr12	86893807	86894007	+	955.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9093.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	13.5	12.5	11.5	146.0	31.5	8.0	19.5	16.5
Merged-chr19-41933384-4	chr19	41933287	41933487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164561)	promoter-TSS (NM_001164561)	-58.0	NM_001360679	74168.0	Mm.20387	NM_023740	ENSMUSG00000025157	Zdhhc16	1500015N03Rik|Aph2	zinc finger, DHHC domain containing 16	protein-coding	207.5	224.5	178.0	2721.5	390.0	155.5	216.0	136.0
Merged-chr12-104471750-4	chr12	104471661	104471861	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010351, intron 2 of 2)	intron (NM_010351, intron 2 of 2)	1475.0	NM_010351	14836.0	Mm.129	NM_010351	ENSMUSG00000021095	Gsc	-	goosecoid homeobox	protein-coding	23.5	10.0	16.0	328.5	31.0	13.5	16.0	18.0
Merged-chr9-48561086-3	chr9	48560972	48561172	+	925.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44051.0	NM_010924	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	26.5	51.0	25.5	290.0	0.0	0.0	0.0	1.0
Merged-chr7-113143711-3	chr7	113143610	113143810	+	757.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1695.0	NR_045978	75239.0	Mm.381688	NR_045978	ENSMUSG00000110009	4930543E12Rik	4930545H14Rik	RIKEN cDNA 4930543E12 gene	ncRNA	10.5	7.0	5.5	69.0	32.5	9.5	7.5	9.0
Merged-chr6-121225127-4	chr6	121225013	121225213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017379, intron 4 of 4)	intron (NM_017379, intron 4 of 4)	14379.0	NM_017379	53857.0	Mm.32884	NM_017379	ENSMUSG00000030137	Tuba8	-	tubulin, alpha 8	protein-coding	68.0	59.0	75.5	1041.5	195.5	65.0	88.5	52.5
Merged-chr9-120118391-4	chr9	120118297	120118497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144793, intron 3 of 6)	Tigger7|DNA|TcMar-Tigger	7998.0	NM_144793	208638.0	Mm.236656	NM_144793	ENSMUSG00000032519	Slc25a38	AV019094|BC010801|appoptosin	solute carrier family 25, member 38	protein-coding	39.5	80.0	34.0	527.5	90.5	29.5	51.5	56.5
Merged-chr11-114765350-4	chr11	114765237	114765437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102615)	promoter-TSS (NM_001102615)	-52.0	NM_001102615	286942.0	Mm.308713	NM_001102615	ENSMUSG00000010021	Kif19a	Kif19	kinesin family member 19A	protein-coding	80.0	75.0	45.0	663.5	140.5	49.0	60.0	55.0
Merged-chr16-21616031-4	chr16	21615956	21616156	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	intron (NM_001081366, intron 45 of 46)	78609.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	9.5	15.5	7.5	216.5	22.5	3.5	11.5	13.5
Merged-chr9-120068335-3	chr9	120068282	120068482	+	992.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009987)	promoter-TSS (NM_009987)	-86.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	13.5	21.0	21.0	259.0	7.5	1.0	1.0	4.0
Merged-chr17-33823576-2	chr17	33823476	33823676	+	919.1666869999999	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_103515)	promoter-TSS (NR_103515)	986.0	NM_016844	54127.0	Mm.352374	NM_016844	ENSMUSG00000067288	Rps28	-	ribosomal protein S28	protein-coding	3.5	1.5	1.0	15.0	13.5	6.5	5.0	10.5
Merged-chr6-28261484-2	chr6	28261384	28261584	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081678, exon 1 of 6)	5' UTR (NM_001081678, exon 1 of 6)	117.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	14.5	28.0	22.0	224.0	74.5	18.0	17.5	11.5
Merged-chr8-40927791-4	chr8	40927673	40927873	+	989.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026840, intron 1 of 5)	intron (NM_026840, intron 1 of 5)	1540.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	23.0	23.0	25.5	414.5	37.0	13.0	19.5	14.0
Merged-chr12-16811040-4	chr12	16810956	16811156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027677)	promoter-TSS (NR_027677)	91.0	NM_033270	50496.0	Mm.23296	NM_033270	ENSMUSG00000057469	E2f6	AI462434|E2F6a|E2F6b|EMA	E2F transcription factor 6	protein-coding	39.0	64.0	54.0	700.5	73.0	19.0	21.5	36.0
Merged-chr1-173409203-4	chr1	173409109	173409309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11395.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	105.5	110.5	63.5	1119.0	155.0	62.5	71.0	58.0
Merged-chr11-109011901-4	chr11	109011834	109012034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	91585.0	NM_015732	12006.0	Mm.71710	NM_015732	ENSMUSG00000000142	Axin2	Axi1|Axil|Conductin	axin 2	protein-coding	183.5	292.0	202.0	1469.5	420.5	194.5	171.0	430.5
Merged-chr4-59553703-3	chr4	59553596	59553796	+	949.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4332.0	NM_144904	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	7.5	14.0	11.5	173.5	13.5	6.0	9.0	10.0
Merged-chr2-58497163-3	chr2	58497065	58497265	+	896.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355048, intron 3 of 10)	intron (NM_001355048, intron 3 of 10)	64245.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	10.5	15.5	9.0	230.5	14.5	11.5	15.5	10.0
Merged-chr1-164061450-4	chr1	164061337	164061537	+	847.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011346)	promoter-TSS (NM_011346)	-639.0	NM_001164059	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	7.5	13.5	5.0	140.5	22.5	7.0	7.5	15.5
Merged-chr19-23057511-3	chr19	23057421	23057621	+	785.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83705.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	11.0	13.5	13.5	105.5	26.5	3.5	4.0	8.0
Merged-chr19-10801257-4	chr19	10801152	10801352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009852, intron 1 of 12)	intron (NM_009852, intron 1 of 12)	28806.0	NM_001037801	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	57.0	105.5	65.0	981.0	171.0	53.5	65.0	74.0
Merged-chr13-73764644-2	chr13	73764544	73764744	+	952.599976	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 1 of 24)	intron (NM_001360694, intron 1 of 24)	947.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	9.5	7.5	4.5	57.5	11.5	2.5	7.0	2.0
Merged-chr13-45107628-2	chr13	45107486	45107686	+	799.5	f0_balb.idr|f1_balb.idr	Intergenic	ID_B1|SINE|B4	-105490.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	5.0	9.5	5.5	166.0	4.5	0.0	0.5	1.0
Merged-chr7-100608491-3	chr7	100608423	100608623	+	783.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153424)	promoter-TSS (NR_153424)	-222.0	NR_003559	52443.0	Mm.473730	NM_198831	ENSMUSG00000030706	Mrpl48	1810030E20Rik|2610028L11Rik|CGI-118|D4Ertd786e|L48mt|MRP-L48	mitochondrial ribosomal protein L48	protein-coding	8.5	8.0	9.0	67.0	17.0	11.5	10.5	8.0
Merged-chr2-91335399-4	chr2	91335297	91335497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 3 of 8)	intron (NM_175123, intron 3 of 8)	70282.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	42.0	81.5	69.5	826.0	170.5	54.5	93.0	55.5
Merged-chr11-55446788-4	chr11	55446701	55446901	+	882.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 3 of 3)	intron (NM_009720, intron 3 of 3)	14407.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	13.0	15.0	5.0	231.0	21.0	20.0	13.5	37.0
Merged-chr18-20809841-4	chr18	20809727	20809927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	-63423.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	111.0	167.5	158.0	1710.0	234.5	70.0	95.0	145.5
Merged-chr15-36505685-2	chr15	36505585	36505785	+	779.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347022, intron 13 of 13)	intron (NM_001347022, intron 13 of 13)	-8894.0	NM_175134	68839.0	Mm.396537	NM_175134	ENSMUSG00000048307	Ankrd46	1110054N06Rik|AI314978|AI987733	ankyrin repeat domain 46	protein-coding	8.5	4.5	4.0	102.5	22.0	6.0	17.0	7.0
Merged-chr6-51362786-4	chr6	51362686	51362886	+	927.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16924.0	NR_110455	625167.0	Mm.389772	NR_110455	ENSMUSG00000107660	Gm6559	EG625167	predicted gene 6559	ncRNA	18.0	22.0	17.0	281.0	39.0	9.5	23.0	8.5
Merged-chr4-47287679-4	chr4	47287580	47287780	+	937.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 22 of 39)	intron (NM_009928, intron 22 of 39)	-65542.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	5.0	31.0	17.5	105.0	33.5	19.5	21.5	4.0
Merged-chr1-157043551-1	chr1	157043451	157043651	+	852.5	f0_balb.idr	Intergenic	Intergenic	65099.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	5.0	7.5	9.0	125.0	18.5	2.0	0.5	5.0
Merged-chr7-80779502-4	chr7	80779405	80779605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	23826.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	210.5	381.0	209.0	2754.0	493.0	192.5	242.0	174.0
Merged-chr7-120851755-4	chr7	120851652	120851852	+	983.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267711, intron 1 of 17)	intron (NM_001267711, intron 1 of 17)	563.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	37.0	25.5	55.5	1149.5	41.0	14.0	25.0	35.5
Merged-chr8-34147171-4	chr8	34147031	34147231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026609)	promoter-TSS (NM_026609)	-392.0	NM_026609	68192.0	Mm.34212	NM_026609	ENSMUSG00000031513	Leprotl1	1110067H13Rik|1520402O14Rik|AI854296	leptin receptor overlapping transcript-like 1	protein-coding	30.0	57.0	31.0	752.0	117.5	29.5	38.5	41.0
Merged-chr18-56989696-4	chr18	56989603	56989803	+	918.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14324.0	NM_029909	77422.0	Mm.256874	NM_029909	ENSMUSG00000024592	C330018D20Rik	AU018666	RIKEN cDNA C330018D20 gene	protein-coding	23.0	18.0	21.5	325.5	31.0	10.5	11.5	12.5
Merged-chr18-9790797-5	chr18	9790679	9790879	+	912.0633539999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	L1_Mus2|LINE|L1	83131.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	10.0	12.0	11.0	42.5	5.0	3.5	1.0	2.0
Merged-chr5-77310082-4	chr5	77309992	77310192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153798)	promoter-TSS (NM_153798)	-6.0	NM_019836	56412.0	Mm.129136	NM_019836	ENSMUSG00000036285	Noa1	2610024G14Rik|AU022345|AtNOS1|mAtNOS1	nitric oxide associated 1	protein-coding	139.0	171.5	153.0	2240.5	370.5	134.5	214.0	120.0
Merged-chr1-152800122-4	chr1	152800068	152800268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010877)	promoter-TSS (NM_010877)	15.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	18.0	34.0	17.0	508.0	88.0	28.5	49.0	32.5
Merged-chr1-119463584-2	chr1	119463484	119463684	+	702.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	41198.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	3.0	5.0	6.5	55.0	19.5	8.5	5.0	8.5
Merged-chr2-153742022-3	chr2	153741922	153742122	+	910.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007896, intron 1 of 6)	intron (NM_007896, intron 1 of 6)	735.0	NM_007896	13589.0	Mm.143877	NM_007896	ENSMUSG00000027479	Mapre1	5530600P05Rik|AI462499|AI504412|AW260097|BIM1p|D2Ertd459e|Eb1	microtubule-associated protein, RP/EB family, member 1	protein-coding	14.0	17.0	14.0	112.0	31.0	7.5	8.0	10.0
Merged-chr6-87452142-3	chr6	87452041	87452241	+	731.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23147.0	NM_009756	12154.0	Mm.483321	NM_009756	ENSMUSG00000030046	Bmp10	b2b2711Clo	bone morphogenetic protein 10	protein-coding	5.5	16.0	5.5	78.0	4.0	1.0	4.0	7.0
Merged-chr2-57239301-4	chr2	57239220	57239420	+	838.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 1 of 16)	intron (NM_010274, intron 1 of 16)	938.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	9.0	5.5	5.5	132.5	18.0	9.5	5.5	9.5
Merged-chr14-103012724-4	chr14	103012634	103012834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	intron (NR_045657, intron 2 of 2)	21069.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	64.0	166.0	48.5	714.0	237.0	104.0	88.0	43.0
Merged-chr11-84619853-4	chr11	84619760	84619960	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3Cz|LINE|L1	94200.0	NR_038057	78365.0	Mm.260345	NR_038057	ENSMUSG00000087211	Lhx1os	1500016L03Rik|Lhx1as	LIM homeobox 1, opposite strand	ncRNA	25.0	23.5	15.0	382.5	77.0	14.0	15.0	27.5
Merged-chr8-115585818-4	chr8	115585714	115585914	+	892.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121080.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	38.5	56.5	35.0	358.0	38.0	21.5	9.0	14.0
Merged-chr19-9991867-2	chr19	9991763	9991963	+	758.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011913, intron 5 of 11)	MIR|SINE|MIR	9217.0	NM_010239	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	8.0	13.0	5.0	38.5	7.5	2.0	2.0	4.5
Merged-chr6-115343791-4	chr6	115343689	115343889	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17162.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	23.0	22.0	13.5	281.5	42.5	7.0	9.0	21.0
Merged-chr5-24908310-4	chr5	24908215	24908415	+	953.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310480, intron 3 of 13)	CpG	194.0	NM_001170556	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	15.0	14.5	31.0	129.0	43.0	15.0	20.5	27.5
Merged-chr8-13758571-3	chr8	13758437	13758637	+	932.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357247, intron 1 of 16)	intron (NM_001357247, intron 1 of 16)	881.0	NM_001357247	69957.0	Mm.182412	NM_027276	ENSMUSG00000038416	Cdc16	2700071J12Rik|2810431D22Rik|APC6	CDC16 cell division cycle 16	protein-coding	8.5	5.0	7.0	184.5	17.0	3.5	17.0	10.0
Merged-chr4-48124942-4	chr4	48124826	48125026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026343)	promoter-TSS (NM_026343)	7.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	79.5	89.0	71.5	1199.0	179.0	68.0	76.5	90.5
Merged-chr17-47441534-4	chr17	47441434	47441634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145489, intron 1 of 4)	MER5A1|DNA|hAT-Charlie	-4159.0	NM_029296	75462.0	Mm.46129	NM_029296	ENSMUSG00000047150	1700001C19Rik	-	RIKEN cDNA 1700001C19 gene	protein-coding	49.5	108.5	46.5	421.5	155.5	60.0	38.0	44.5
Merged-chr10-61134230-4	chr10	61134111	61134311	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 2 of 14)	RLTR17|LTR|ERVK	13473.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	18.5	21.0	14.0	249.0	56.5	22.0	28.5	21.5
Merged-chr13-73774155-3	chr13	73774036	73774236	+	833.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 1 of 24)	intron (NM_001360694, intron 1 of 24)	10439.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	8.0	5.0	7.0	83.5	10.0	2.5	3.0	8.5
Merged-chr6-51524497-5	chr6	51524454	51524654	+	859.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361581, intron 1 of 6)	intron (NM_001361581, intron 1 of 6)	294.0	NM_001361580	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	9.5	19.5	16.0	73.0	16.0	14.0	9.0	3.0
Merged-chr11-101442257-4	chr11	101442171	101442371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011289)	promoter-TSS (NM_011289)	26.0	NM_011289	19942.0	Mm.340658	NM_011289	ENSMUSG00000063316	Rpl27	-	ribosomal protein L27	protein-coding	218.0	357.5	168.5	2465.5	601.5	284.0	229.0	256.0
Merged-chr6-5509972-4	chr6	5509879	5510079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13701.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	242.0	306.0	330.0	5011.0	394.5	140.0	207.0	178.0
Merged-chr10-43994756-4	chr10	43994671	43994871	+	846.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172393, intron 2 of 19)	intron (NM_172393, intron 2 of 19)	10075.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	10.5	10.5	14.5	243.0	13.0	6.5	10.5	11.5
Merged-chr8-56865765-3	chr8	56865680	56865880	+	923.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	314646.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	4.5	10.0	11.0	132.5	3.0	4.0	4.5	5.5
Merged-chr14-105262544-4	chr14	105262438	105262638	+	688.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 1 of 7)	B3A|SINE|B2	3865.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	6.0	11.0	4.5	113.0	20.0	6.0	9.5	12.0
Merged-chr8-105758666-4	chr8	105758567	105758767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027469)	promoter-TSS (NM_027469)	-60.0	NM_027469	70575.0	Mm.40954	NM_027469	ENSMUSG00000013150	Gfod2	5730466C23Rik	glucose-fructose oxidoreductase domain containing 2	protein-coding	44.5	68.0	33.5	667.0	89.5	39.5	40.5	40.0
Merged-chr1-171686695-4	chr1	171686590	171686790	+	855.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007649, intron 1 of 3)	intron (NM_007649, intron 1 of 3)	4698.0	NM_001360767	12506.0	Mm.1738	NM_007649	ENSMUSG00000015355	Cd48	AI449234|AW610730|BCM1|BLAST|BLAST-1|BLAST1|Bcm-1|MEM-102|SLAMF2|Sgp-60	CD48 antigen	protein-coding	9.5	15.0	8.0	174.5	29.0	13.0	10.5	15.5
Merged-chr1-13386170-2	chr1	13386070	13386270	+	592.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12087.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	6.5	5.5	4.5	65.5	1.0	5.0	5.5	4.0
Merged-chr11-115513684-6	chr11	115513533	115513733	+	873.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008258, intron 1 of 4)	intron (NM_008258, intron 1 of 4)	760.0	NM_008258	15374.0	Mm.1775	NM_008258	ENSMUSG00000020737	Jpt1	Hn1	Jupiter microtubule associated homolog 1	protein-coding	7.5	5.0	10.0	53.0	11.0	6.5	9.0	7.5
Merged-chr6-50596933-4	chr6	50596822	50597022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027564)	promoter-TSS (NM_027564)	-332.0	NM_027564	70821.0	Mm.157323	NM_027564	ENSMUSG00000029828	4921507P07Rik	TISP74	RIKEN cDNA 4921507P07 gene	protein-coding	207.5	245.5	146.0	2674.5	351.5	148.0	200.5	167.0
Merged-chr17-10982332-4	chr17	10982242	10982442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	141983.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	34.0	65.5	45.5	1128.0	90.5	30.5	46.0	59.0
Merged-chr8-70001350-4	chr8	70001234	70001434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4950.0	NM_145596	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	174.0	227.5	141.0	2300.5	373.0	144.5	167.5	113.0
Merged-chr7-99500394-3	chr7	99500293	99500493	+	812.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16684.0	NM_012052	27050.0	Mm.236868	NM_012052	ENSMUSG00000030744	Rps3	D7Ertd795e|Rs_3	ribosomal protein S3	protein-coding	11.5	9.5	7.0	57.5	14.0	12.0	10.0	13.5
Merged-chr1-92034462-3	chr1	92034378	92034578	+	914.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 3 of 26)	intron (NM_207225, intron 3 of 26)	145863.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	1.0	2.5	3.5	25.5	71.0	16.0	44.0	49.5
Merged-chr7-127745462-4	chr7	127745343	127745543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1332.0	NM_172748	233902.0	Mm.259353	NM_172748	ENSMUSG00000030811	Fbxl19	6030430O11|BC059812|Fbl19	F-box and leucine-rich repeat protein 19	protein-coding	50.0	80.5	32.0	514.5	160.5	44.5	49.5	65.0
Merged-chr6-129559438-4	chr6	129559301	129559501	+	984.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18885.0	NM_153590	243655.0	Mm.30968	NM_153590	ENSMUSG00000050241	Klre1	Klre-1|NKG2I	killer cell lectin-like receptor family E member 1	protein-coding	5.0	23.0	16.0	217.5	37.5	9.5	14.0	10.0
Merged-chr9-61373049-3	chr9	61372921	61373121	+	886.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001083927, exon 1 of 20)	5' UTR (NM_001083927, exon 1 of 20)	655.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	6.0	7.5	15.5	93.0	31.0	9.5	6.5	15.0
Merged-chr8-125726841-5	chr8	125726862	125727062	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-7241.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	12.0	12.5	9.0	111.0	21.5	12.0	22.5	13.0
Merged-chr2-173186567-4	chr2	173186430	173186630	+	841.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32392.0	NM_021394	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	3.0	13.5	8.5	116.0	22.0	4.5	14.0	12.5
Merged-chr8-86891721-3	chr8	86891621	86891821	+	651.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	-6463.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	16.0	19.5	12.5	77.5	12.5	3.5	7.0	7.0
Merged-chr9-111037597-4	chr9	111037495	111037695	+	861.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008522, intron 14 of 16)	intron (NM_008522, intron 14 of 16)	18303.0	NM_008522	17002.0	Mm.282359	NM_008522	ENSMUSG00000032496	Ltf	Csp82|Lf|MMS10R|Ms10r	lactotransferrin	protein-coding	12.5	25.0	11.0	41.0	30.0	3.5	9.0	4.0
Merged-chr15-93398384-4	chr15	93398253	93398453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175363)	promoter-TSS (NM_175363)	3.0	NM_175363	223828.0	Mm.74208	NM_146062	ENSMUSG00000036167	Pphln1	CR|HSPC206|HSPC232	periphilin 1	protein-coding	53.0	115.0	48.0	895.5	277.5	94.5	146.5	107.0
Merged-chr3-60531460-4	chr3	60531374	60531574	+	961.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	30295.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	31.0	29.5	17.0	375.0	38.0	13.5	28.5	16.5
Merged-chr12-32135212-4	chr12	32135106	32135306	+	846.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73132.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	6.0	10.0	3.5	265.5	51.5	20.0	11.0	14.5
Merged-chr3-51561751-3	chr3	51561634	51561834	+	873.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080793)	promoter-TSS (NM_080793)	-911.0	NM_080793	73251.0	Mm.192111	NM_080793	ENSMUSG00000037111	Setd7	1600028F23Rik|H3K4MT|KMT7|Set7|Set7/9|mKIAA1717	SET domain containing (lysine methyltransferase) 7	protein-coding	18.5	11.0	15.0	79.5	10.0	6.0	3.5	7.5
Merged-chr3-9342256-3	chr3	9342152	9342352	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAAA)n|Simple_repeat|Simple_repeat	-60826.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	25.0	22.5	21.5	309.0	7.5	1.5	2.5	3.0
Merged-chr10-44553833-4	chr10	44553730	44553930	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-95082.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	27.5	47.0	18.0	382.5	34.0	24.5	18.5	32.0
Merged-chr11-97362867-5	chr11	97362793	97362993	+	862.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_138657, exon 1 of 10)	exon (NM_138657, exon 1 of 10)	342.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	12.5	9.5	9.0	65.0	28.5	8.0	6.5	16.5
Merged-chr11-61930324-4	chr11	61930225	61930425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019921)	promoter-TSS (NM_019921)	-68.0	NM_019921	56697.0	Mm.274404	NM_019921	ENSMUSG00000047804	Akap10	1500031L16Rik|B130049N18Rik|D-AKAP-2|D-AKAP2|PRKA10	A kinase (PRKA) anchor protein 10	protein-coding	103.5	209.5	69.0	1051.0	337.5	112.0	122.0	102.0
Merged-chr1-144316719-3	chr1	144316598	144316798	+	829.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67594.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	17.0	5.0	6.5	167.0	28.5	2.5	2.5	8.0
Merged-chr1-36065032-4	chr1	36064937	36065137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3363.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	118.5	250.5	118.0	805.5	345.0	103.5	99.0	70.0
Merged-chr10-62549930-4	chr10	62549832	62550032	+	967.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22487.0	NM_001358965	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	10.5	41.5	16.5	192.0	79.0	29.0	31.5	26.0
Merged-chr19-37175300-4	chr19	37175200	37175400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290827, intron 1 of 10)	intron (NM_001290827, intron 1 of 10)	763.0	NM_001290826	208922.0	Mm.391176	NM_198300	ENSMUSG00000039652	Cpeb3	4831444O18Rik|CPE-BP3|mKIAA0940	cytoplasmic polyadenylation element binding protein 3	protein-coding	47.5	53.0	67.0	843.5	73.5	17.5	43.0	32.0
Merged-chr7-123397573-4	chr7	123397457	123397657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025304, intron 1 of 10)	intron (NM_025304, intron 1 of 10)	-10260.0	NM_001355050	30949.0	Mm.260527	NM_025304	ENSMUSG00000030763	Lcmt1	AL033290|LCMT-1|Lcmt	leucine carboxyl methyltransferase 1	protein-coding	50.0	82.5	50.5	1092.0	192.0	44.0	56.5	59.5
Merged-chr12-73680408-4	chr12	73680315	73680515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	95619.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	52.5	45.0	28.5	779.0	83.0	24.0	35.0	28.0
Merged-chr17-46680974-4	chr17	46680866	46681066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027910)	promoter-TSS (NM_027910)	-20.0	NR_102392	17256.0	Mm.329083	NM_010787	ENSMUSG00000002768	Mea1	Mea-1	male enhanced antigen 1	protein-coding	216.5	320.5	216.0	2579.0	515.5	189.0	219.5	165.0
Merged-chr12-119313181-4	chr12	119313073	119313273	+	940.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74897.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	15.0	11.0	8.0	252.5	50.0	13.5	7.5	22.5
Merged-chr17-70852368-4	chr17	70852280	70852480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164075)	promoter-TSS (NM_001164075)	-646.0	NM_001164075	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	79.0	173.5	116.5	1153.0	228.5	94.5	83.5	80.5
Merged-chr12-113156239-4	chr12	113156152	113156352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134041)	promoter-TSS (NM_134041)	-169.0	NM_134041	104732.0	Mm.87616	NM_134041	ENSMUSG00000037466	Tedc1	4930427A07Rik|AA536649|mFLJ00116	tubulin epsilon and delta complex 1	protein-coding	353.5	602.5	444.0	5729.5	877.5	371.5	509.5	340.5
Merged-chr6-32396002-2	chr6	32395902	32396102	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-115139.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	10.5	8.0	7.0	272.0	9.5	6.5	12.0	8.5
Merged-chr8-35683721-3	chr8	35683626	35683826	+	979.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-94706.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	10.0	5.0	22.5	276.5	9.5	2.5	5.5	6.0
Merged-chr9-63678311-3	chr9	63678208	63678408	+	956.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	75662.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	14.5	15.5	13.0	172.5	13.5	10.5	8.5	12.5
Merged-chr17-42480349-3	chr17	42480240	42480440	+	850.5277710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355270, intron 2 of 2)	RCHARR1|DNA|hAT-Charlie	130973.0	NM_181753	353344.0	Mm.184937	NM_181753	ENSMUSG00000043972	Opn5	Gpr136|Neuropsin|PGR12|TMEM13	opsin 5	protein-coding	1.0	1.5	2.0	24.5	25.0	11.0	11.0	22.5
Merged-chr7-30322404-4	chr7	30322319	30322519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033140)	promoter-TSS (NM_001033140)	-44.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	266.5	357.5	297.5	3712.5	493.0	192.5	231.5	165.0
Merged-chr8-106893204-3	chr8	106893084	106893284	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011574)	promoter-TSS (NM_011574)	409.0	NM_145412	214987.0	Mm.490308	NM_145412	ENSMUSG00000046691	Chtf8	5830457O10Rik|Ctf8|Derpc	CTF8, chromosome transmission fidelity factor 8	protein-coding	34.0	33.0	53.0	372.0	46.5	25.0	21.5	31.5
Merged-chr4-115785000-4	chr4	115784848	115785048	+	966.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_181040, exon 1 of 9)	5' UTR (NM_181040, exon 1 of 9)	134.0	NM_181040	230649.0	Mm.109600	NM_181040	ENSMUSG00000028710	Atpaf1	6330547J17Rik|AI593252|ATP11|ATP11p	ATP synthase mitochondrial F1 complex assembly factor 1	protein-coding	11.0	24.0	17.5	165.0	47.5	12.5	18.0	18.5
Merged-chr15-30427551-4	chr15	30427422	30427622	+	830.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 2 of 21)	intron (NM_001355502, intron 2 of 21)	254929.0	NM_008729	18163.0	Mm.321648	NM_008729	ENSMUSG00000022240	Ctnnd2	Catnd2|Nprap|neurojugin	catenin (cadherin associated protein), delta 2	protein-coding	8.5	12.0	7.5	212.5	28.0	7.0	11.5	6.5
Merged-chr2-102829355-3	chr2	102829230	102829430	+	812.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039151, intron 5 of 8)	MERVL-int|LTR|ERVL	72335.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	15.0	10.0	5.5	21.0	24.5	13.0	12.5	13.5
Merged-chr10-99261119-4	chr10	99261042	99261242	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2089.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	15.5	12.5	7.0	116.5	21.0	9.0	3.5	7.0
Merged-chr3-137981592-4	chr3	137981509	137981709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310753)	promoter-TSS (NM_001310753)	-60.0	NM_011932	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	115.5	163.0	96.0	1603.5	239.0	58.0	96.5	71.5
Merged-chr16-64873969-4	chr16	64873876	64874076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21975.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	50.5	44.5	66.5	817.5	142.5	39.5	79.5	54.5
Merged-chr14-55643276-6	chr14	55643214	55643414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360063)	promoter-TSS (NM_001360063)	57.0	NM_001360063	74140.0	Mm.132857	NM_028780	ENSMUSG00000002320	Tm9sf1	1200014D02Rik|AI893436|MP70	transmembrane 9 superfamily member 1	protein-coding	14.5	36.5	32.5	246.0	81.0	32.5	28.0	50.5
Merged-chr15-59599058-4	chr15	59598959	59599159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 6 of 6)	intron (NM_026746, intron 6 of 6)	-49595.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	63.0	76.5	55.5	1001.0	122.0	56.5	62.5	45.0
Merged-chr18-60210767-4	chr18	60210686	60210886	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1291.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	13.5	21.0	16.0	197.0	73.0	17.0	32.0	22.5
Merged-chr19-37048094-4	chr19	37048046	37048246	+	951.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 9 of 10)	B3A|SINE|B2	122067.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	5.5	7.0	11.5	81.5	24.0	8.5	12.5	11.5
Merged-chr10-57492260-4	chr10	57492158	57492358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008297, intron 1 of 11)	RLTR20D|LTR|ERVK	5873.0	NM_008297	15500.0	Mm.261395	NM_008297	ENSMUSG00000019878	Hsf2	AI661205	heat shock factor 2	protein-coding	46.0	84.5	81.5	916.5	150.0	44.0	82.5	61.0
Merged-chr19-45161281-4	chr19	45161206	45161406	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10591.0	NM_021901	21908.0	Mm.391203	NM_021901	ENSMUSG00000025215	Tlx1	Hox-11|Hox11|Tlx-1	T cell leukemia, homeobox 1	protein-coding	20.0	22.5	8.0	303.5	42.5	18.5	22.0	18.5
Merged-chr17-53570557-4	chr17	53570458	53570658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151733, intron 1 of 16)	intron (NR_151733, intron 1 of 16)	3587.0	NR_151733	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	118.5	174.0	122.5	2047.5	277.5	104.0	157.5	135.5
Merged-chr19-42753829-3	chr19	42753732	42753932	+	969.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C2|LTR|ERVK	-1057.0	NM_029011	74580.0	Mm.329858	NM_029011	ENSMUSG00000060224	Pyroxd2	3830409H07Rik|4833409A17Rik	pyridine nucleotide-disulphide oxidoreductase domain 2	protein-coding	29.0	19.5	23.0	276.0	41.0	17.5	14.5	10.0
Merged-chr9-13526435-5	chr9	13526263	13526463	+	921.3666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93626.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	11.0	15.0	22.5	166.0	19.5	22.5	8.5	12.0
Merged-chr17-29022538-3	chr17	29022444	29022644	+	882.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10116.0	NM_013663	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	6.5	15.5	15.5	83.0	16.0	13.0	5.5	8.0
Merged-chr2-164047412-2	chr2	164047312	164047512	+	651.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001114079, intron 11 of 13)	intron (NM_001114079, intron 11 of 13)	22188.0	NM_001114079	381404.0	Mm.82301	NM_001114079	ENSMUSG00000054582	Pabpc1l	1810053B01Rik|Epab	poly(A) binding protein, cytoplasmic 1-like	protein-coding	7.0	8.5	6.0	42.0	11.5	4.5	8.0	5.0
Merged-chr2-68242263-4	chr2	68242190	68242390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 16 of 17)	intron (NM_016866, intron 16 of 17)	137618.0	NM_020283	26877.0	Mm.226435	NM_020283	ENSMUSG00000034780	B3galt1	beta3Gal-T1	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 1	protein-coding	54.0	79.0	54.0	708.0	80.5	33.0	37.5	28.0
Merged-chr1-34464781-4	chr1	34464683	34464883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 5 of 14)	L1MB8|LINE|L1	5037.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	57.0	76.0	66.5	993.0	147.5	77.5	66.0	75.0
Merged-chr7-4777020-4	chr7	4776929	4777129	+	890.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290423, intron 1 of 4)	CpG	1112.0	NM_008350	16156.0	Mm.35814	NM_008350	ENSMUSG00000004371	Il11	IL-11	interleukin 11	protein-coding	13.5	26.0	7.5	145.5	32.5	7.5	5.0	12.0
Merged-chr14-45075042-4	chr14	45074956	45075156	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86945.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	23.0	11.0	25.0	419.0	41.0	22.0	16.0	27.0
Merged-chr7-19676013-4	chr7	19675902	19676102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001309799, intron 1 of 3)	intron (NM_001309799, intron 1 of 3)	1939.0	NM_001277944	11813.0	Mm.28394	NM_001277944	ENSMUSG00000002992	Apoc2	apo-CII|apoC-II	apolipoprotein C-II	protein-coding	77.0	88.0	57.0	931.0	151.5	42.5	89.0	52.5
Merged-chr4-117139409-4	chr4	117139306	117139506	+	862.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-5443.0	NM_001313916	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	16.5	13.5	13.0	96.0	23.0	12.5	8.0	9.5
Merged-chr1-92679014-4	chr1	92678929	92679129	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30188.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	27.0	52.5	28.0	463.5	29.0	13.5	21.0	17.5
Merged-chr3-90383839-4	chr3	90383738	90383938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6100.0	NM_001316688	26568.0	Mm.45519	NM_011988	ENSMUSG00000027932	Slc27a3	Acsvl3|FATP-3|FATP3|Vlcs-3	solute carrier family 27 (fatty acid transporter), member 3	protein-coding	40.5	98.5	56.5	1199.0	100.0	25.5	54.5	53.5
Merged-chr12-112562778-3	chr12	112562646	112562846	+	775.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-26038.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	8.5	8.5	6.5	103.5	11.5	5.0	12.5	6.5
Merged-chr3-54013312-3	chr3	54013204	54013404	+	573.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-142753.0	NM_001253683	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	3.0	3.0	3.0	64.5	23.0	5.5	13.0	10.5
Merged-chr11-97127235-4	chr11	97127105	97127305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11874.0	NM_019507	57765.0	Mm.94519	NM_019507	ENSMUSG00000001444	Tbx21	TBT1|Tbet|Tblym	T-box 21	protein-coding	50.0	59.0	34.0	264.5	66.5	36.5	23.0	33.5
Merged-chr2-128741159-4	chr2	128741086	128741286	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	42271.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	39.5	34.0	32.5	358.0	64.0	31.5	11.5	34.0
Merged-chr10-37336974-1	chr10	37336874	37337074	+	898.0	f0_balb.idr	Intergenic	Intergenic	-198048.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	12.5	15.0	18.0	247.5	26.5	8.0	9.5	10.0
Merged-chr9-100434473-1	chr9	100434373	100434573	+	695.0	f0_balb.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	52000.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	15.0	5.0	13.0	45.5	16.5	3.0	1.5	3.0
Merged-chr8-68793902-4	chr8	68793791	68793991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293792)	promoter-TSS (NM_001293792)	-38.0	NM_001359129	70885.0	Mm.252421	NM_027590	ENSMUSG00000031864	Ints10	4921521J11Rik|AI462004	integrator complex subunit 10	protein-coding	154.0	199.0	101.0	2215.0	439.5	203.0	215.5	229.0
Merged-chr14-64652504-4	chr14	64652418	64652618	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081177)	promoter-TSS (NM_001081177)	-13.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	51.0	53.5	17.0	538.0	97.0	34.5	51.0	54.5
Merged-chr1-86064327-4	chr1	86064241	86064441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027357)	promoter-TSS (NM_027357)	-278.0	NM_027357	70247.0	Mm.280013	NM_027357	ENSMUSG00000026229	Psmd1	2410026J11Rik|P112|S1	proteasome (prosome, macropain) 26S subunit, non-ATPase, 1	protein-coding	40.5	47.5	36.0	388.0	124.5	32.5	43.5	39.0
Merged-chr7-55956957-4	chr7	55956848	55957048	+	673.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023647, intron 1 of 6)	MTD|LTR|ERVL-MaLR	5545.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	3.5	12.5	3.0	90.5	26.0	7.5	6.5	8.5
Merged-chr12-78918405-4	chr12	78918312	78918512	+	965.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11474.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	20.0	40.0	4.0	317.0	59.0	13.5	21.0	16.0
Merged-chr14-45218063-4	chr14	45217988	45218188	+	936.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310534, intron 2 of 20)	intron (NM_001310534, intron 2 of 20)	1337.0	NM_172597	70561.0	Mm.28129	NM_172597	ENSMUSG00000021830	Txndc16	5730420B22Rik|C77647	thioredoxin domain containing 16	protein-coding	10.0	21.5	14.0	362.5	68.0	12.0	14.5	18.5
Merged-chr10-34283656-2	chr10	34283556	34283756	+	671.25	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009433, exon 1 of 1)	3' UTR (NM_009433, exon 1 of 1)	1466.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	3.5	12.5	11.0	53.0	9.0	5.5	13.0	7.0
Merged-chr3-96102216-4	chr3	96102140	96102340	+	919.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2287.0	NM_001025613	229603.0	Mm.272336	NM_001025613	ENSMUSG00000038495	Otud7b	2900060B22Rik|4930463P07Rik|AI462125|CEZANNE|Trabid2|Za20d1	OTU domain containing 7B	protein-coding	10.0	13.0	20.0	226.0	25.0	4.0	17.0	14.0
Merged-chr4-10968039-4	chr4	10967919	10968119	+	961.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39600.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	34.5	31.5	26.5	467.5	59.5	9.5	27.5	19.5
Merged-chr4-55386952-4	chr4	55386843	55387043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 9 of 9)	RMER10B|LTR|ERVL	31899.0	NR_040674	100415914.0	Mm.261765	NR_040674	ENSMUSG00000087070	Gm12505	-	predicted gene 12505	ncRNA	47.5	58.0	80.0	1343.0	102.0	35.0	52.5	43.5
Merged-chr11-62731452-1	chr11	62731352	62731552	+	666.0	f0_c57.idr	Intergenic	Intergenic	-2359.0	NM_133208	170740.0	Mm.339982	NM_133208	ENSMUSG00000005267	Zfp287	B230333C16Rik|SKAT-2|Skat2|Znf287|mszf16|mszf74	zinc finger protein 287	protein-coding	2.0	12.0	8.0	114.5	17.5	12.0	10.0	9.5
Merged-chr5-88676218-4	chr5	88676087	88676287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178700)	promoter-TSS (NM_178700)	-16.0	NM_178700	231413.0	Mm.332474	NM_178700	ENSMUSG00000044221	Grsf1	BB232551|C80280|D5Wsu31e	G-rich RNA sequence binding factor 1	protein-coding	110.0	139.5	98.0	1790.0	272.5	75.0	144.0	107.0
Merged-chr17-21708629-3	chr17	21708524	21708724	+	879.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001008501, exon 2 of 6)	5' UTR (NM_001008501, exon 2 of 6)	883.0	NM_001008501	240034.0	Mm.34723	NM_001008501	ENSMUSG00000067928	Zfp760	9430018I06|BC029103	zinc finger protein 760	protein-coding	9.5	15.5	17.0	245.5	19.5	3.5	9.5	6.5
Merged-chr2-21205315-3	chr2	21205223	21205423	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027728)	promoter-TSS (NM_027728)	42.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	37.5	54.0	20.5	334.0	127.5	37.5	46.5	35.0
Merged-chr5-130718589-3	chr5	130718496	130718696	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021371, intron 4 of 5)	ORR1E|LTR|ERVL-MaLR	269804.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	25.5	27.0	21.0	496.5	42.0	7.0	10.0	5.0
Merged-chr5-115624238-4	chr5	115624141	115624341	+	964.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7575.0	NR_027810	66123.0	Mm.133063	NM_021417	ENSMUSG00000107121	1110006O24Rik	-	RIKEN cDNA 1110006O24 gene	ncRNA	12.0	19.5	16.5	228.5	48.5	19.5	19.0	18.5
Merged-chr13-47152557-4	chr13	47152463	47152663	+	836.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 1 of 7)	intron (NM_146042, intron 1 of 7)	-3893.0	NR_126083	319467.0	Mm.447279	NR_126083	ENSMUSG00000114961	A930002C04Rik	-	RIKEN cDNA A930002C04 gene	ncRNA	8.5	15.5	6.0	153.5	24.0	5.5	16.5	11.5
Merged-chr11-110448736-7	chr11	110448655	110448855	+	943.3952640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	-29760.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	17.5	7.0	4.0	41.5	18.0	9.0	10.5	8.0
Merged-chr13-35380793-3	chr13	35380702	35380902	+	934.488892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-168754.0	NR_126478	75543.0	Mm.489052	NR_126478	ENSMUSG00000113770	1700019C18Rik	-	RIKEN cDNA 1700019C18 gene	ncRNA	32.5	27.0	17.0	350.5	0.0	0.5	0.0	3.0
Merged-chr6-116198108-4	chr6	116198000	116198200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4726.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	105.0	218.5	113.5	1272.5	294.5	118.5	148.5	105.5
Merged-chr6-127108464-3	chr6	127108334	127108534	+	930.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177003, intron 1 of 5)	intron (NM_177003, intron 1 of 5)	1118.0	NM_177003	319801.0	Mm.101836	NM_177003	ENSMUSG00000038028	Tigar	9630033F20Rik|AA793651|AI595337|C79710|C85509	Trp53 induced glycolysis repulatory phosphatase	protein-coding	11.0	14.5	8.0	203.0	29.0	1.0	2.0	5.0
Merged-chr17-25914106-4	chr17	25914017	25914217	+	899.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139154, intron 2 of 6)	intron (NM_139154, intron 2 of 6)	5597.0	NM_139154	224624.0	Mm.328872	NM_139154	ENSMUSG00000025730	Rab40c	RAR3	Rab40C, member RAS oncogene family	protein-coding	17.0	7.5	21.0	410.0	22.0	6.0	12.5	24.5
Merged-chr7-67305120-3	chr7	67305034	67305234	+	680.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 3 of 11)	intron (NM_001357324, intron 3 of 11)	67724.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	7.5	11.0	9.0	90.0	11.5	7.0	5.0	2.5
Merged-chr13-107025831-4	chr13	107025727	107025927	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015471, intron 1 of 3)	RMER6A|LTR|ERVK	3257.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	19.0	20.5	12.5	173.0	30.0	11.0	18.5	5.5
Merged-chr3-89091008-4	chr3	89090935	89091135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028188, intron 2 of 10)	CpG	-1004.0	NM_001083808	72296.0	Mm.27687	NM_028188	ENSMUSG00000041263	Rusc1	2210403N08Rik|AA408288|NESCA	RUN and SH3 domain containing 1	protein-coding	18.0	23.5	30.5	361.0	40.0	20.0	23.0	15.5
Merged-chr7-142387426-2	chr7	142387326	142387526	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009983, intron 1 of 8)	intron (NM_009983, intron 1 of 8)	444.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	26.5	24.5	20.5	367.5	74.5	29.5	21.5	28.5
Merged-chr10-96377738-4	chr10	96377631	96377831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	151524.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	77.0	151.0	130.5	1559.5	179.0	54.5	100.0	86.5
Merged-chr6-117168628-3	chr6	117168600	117168800	+	630.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021704, exon 1 of 3)	exon (NM_021704, exon 1 of 3)	165.0	NM_021704	20315.0	Mm.303231	NM_013655	ENSMUSG00000061353	Cxcl12	Pbsf|Scyb12|Sdf1|Tlsf|Tpar1	chemokine (C-X-C motif) ligand 12	protein-coding	7.0	6.5	6.5	45.5	14.0	2.0	3.5	0.5
Merged-chr9-45829330-4	chr9	45829244	45829444	+	837.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081373)	promoter-TSS (NM_001081373)	-706.0	NM_001081373	214552.0	Mm.260103	NM_172531	ENSMUSG00000043987	Cep164	AI450905|BC027092|D030051D21|mKIAA1052	centrosomal protein 164	protein-coding	14.5	9.5	5.0	119.0	46.5	17.0	8.0	13.5
Merged-chr15-91190267-3	chr15	91190198	91190398	+	793.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 1 of 9)	intron (NM_011994, intron 1 of 9)	1709.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	4.5	7.5	10.0	104.5	18.5	4.0	3.5	7.5
Merged-chr15-74931809-4	chr15	74931710	74931910	+	953.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23241.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	12.5	22.0	13.0	354.0	138.5	42.0	62.5	39.5
Merged-chr1-155050354-4	chr1	155050258	155050458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32906.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	222.0	333.5	194.0	2723.5	454.0	178.5	208.0	207.0
Merged-chr1-86470704-4	chr1	86470617	86470817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44388.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	23.5	31.0	26.0	438.0	73.0	29.5	33.5	35.5
Merged-chr1-105742637-4	chr1	105742554	105742754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173187, intron 24 of 28)	intron (NM_173187, intron 24 of 28)	-38069.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	37.5	36.0	43.5	706.5	75.5	40.0	50.0	43.0
Merged-chr14-55604430-1	chr14	55604330	55604530	+	1000.0	f0_balb.idr	promoter-TSS (NM_001159418)	promoter-TSS (NM_001159418)	-149.0	NM_001159418	16391.0	Mm.2032	NM_008394	ENSMUSG00000002325	Irf9	Irf-9|Isgf3g|p48	interferon regulatory factor 9	protein-coding	29.0	30.0	12.5	436.5	70.0	35.0	33.5	27.0
Merged-chr10-4601785-4	chr10	4601623	4601823	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10266.0	NM_001302532	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	21.5	28.0	20.5	543.0	40.5	10.5	11.5	12.5
Merged-chr16-3920996-4	chr16	3920905	3921105	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029738, intron 6 of 11)	intron (NM_029738, intron 6 of 11)	11996.0	NM_029738	76779.0	Mm.458921	NM_029738	ENSMUSG00000014232	Cluap1	2310030D15Rik|2610111M03Rik	clusterin associated protein 1	protein-coding	11.5	11.0	13.5	320.0	17.5	4.0	14.5	22.0
Merged-chr1-119648619-4	chr1	119648500	119648700	+	869.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145506, intron 1 of 24)	CpG	400.0	NM_001113416	226352.0	Mm.253156	NM_145506	ENSMUSG00000026383	Epb41l5	1700030C16Rik|AL022914|BE37|E230025E14Rik|Epb4.1l5|Lulu1|NBL5	erythrocyte membrane protein band 4.1 like 5	protein-coding	15.5	13.5	20.5	153.5	26.0	3.0	15.0	14.5
Merged-chr11-43613308-4	chr11	43613212	43613412	+	881.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11750.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	15.5	16.5	7.0	147.5	27.0	6.0	5.0	18.5
Merged-chr6-113062461-3	chr6	113062353	113062553	+	684.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008188, intron 5 of 9)	intron (NM_008188, intron 5 of 9)	14791.0	NR_027010	14910.0	Mm.280950	NR_027008	ENSMUSG00000086429	Gt(ROSA)26Sor	AV258896|Gtrgeo26|Gtrosa26|R26|ROSA26|Thumpd3as1	gene trap ROSA 26, Philippe Soriano	ncRNA	8.0	14.0	8.0	111.5	20.5	7.0	8.5	4.5
Merged-chr4-145215125-2	chr4	145215025	145215225	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011610, exon 10 of 10)	3' UTR (NM_011610, exon 10 of 10)	-20120.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	8.0	1.5	5.5	69.5	9.0	7.0	8.5	9.0
Merged-chr11-53430958-5	chr11	53430901	53431101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326614)	promoter-TSS (NM_001326614)	-170.0	NM_001326614	22272.0	Mm.251621	NM_025352	ENSMUSG00000044894	Uqcrq	1100001F06Rik|1500040F11Rik|5830407L17Rik|9.5kDa|AA959903|QP-C|Qpc|Uqcrb|c1502	ubiquinol-cytochrome c reductase, complex III subunit VII	protein-coding	145.0	243.5	99.0	1343.5	522.0	176.5	162.5	164.0
Merged-chr19-45074746-11	chr19	45074666	45074866	+	987.636353	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362398)	promoter-TSS (NM_001362398)	-475.0	NM_001362398	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	27.0	24.0	13.5	156.5	42.0	15.5	11.0	15.0
Merged-chr19-9978584-4	chr19	9978476	9978676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2024.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	63.5	101.5	71.0	1003.0	162.5	74.5	65.5	55.0
Merged-chr5-99541763-4	chr5	99541665	99541865	+	936.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	187295.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	10.0	26.0	17.0	78.0	37.0	16.0	18.0	4.0
Merged-chr19-34420618-4	chr19	34420521	34420721	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54514.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	16.0	18.5	21.0	191.5	17.5	24.0	17.0	24.0
Merged-chr4-120925837-4	chr4	120925660	120925860	+	992.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160043)	promoter-TSS (NM_001160043)	-755.0	NM_001160043	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	19.0	31.0	20.5	194.5	33.0	25.5	13.0	18.5
Merged-chr19-34240761-4	chr19	34240661	34240861	+	987.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360716)	TTS (NM_001360716)	8136.0	NM_001360720	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	9.5	32.0	21.0	364.0	100.0	25.0	53.0	39.5
Merged-chr10-117363275-4	chr10	117363168	117363368	+	985.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013391, intron 3 of 9)	B2_Mm2|SINE|B2	13705.0	NM_001013391	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	28.5	24.0	7.5	242.0	60.0	20.0	19.0	27.5
Merged-chr17-12372203-4	chr17	12372109	12372309	+	944.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6400.0	NM_008877	18815.0	Mm.971	NM_008877	ENSMUSG00000059481	Plg	AI649309|Pg	plasminogen	protein-coding	8.0	21.0	18.5	118.5	38.5	16.5	21.5	13.0
Merged-chr10-91170756-4	chr10	91170659	91170859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001283048)	promoter-TSS (NM_001283048)	-209.0	NM_001283048	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	48.5	65.5	50.0	677.0	161.5	69.0	61.0	67.0
Merged-chr4-118083785-4	chr4	118083690	118083890	+	898.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285520, intron 2 of 11)	intron (NM_001285520, intron 2 of 11)	51156.0	NM_001285520	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	14.0	34.5	5.0	203.5	17.0	17.0	14.5	13.0
Merged-chr1-151661137-4	chr1	151661025	151661225	+	798.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 5 of 13)	intron (NM_022018, intron 5 of 13)	89752.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	9.0	8.5	9.0	220.5	34.5	12.5	11.0	9.0
Merged-chr8-10006607-4	chr8	10006511	10006711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033622)	promoter-TSS (NM_033622)	-22.0	NM_033622	24099.0	Mm.28835	NM_033622	ENSMUSG00000031497	Tnfsf13b	BAFF|BLyS|D8Ertd387e|TALL-1|TALL1|THANK|TNFSF20|Tnlg7a|zTNF4	tumor necrosis factor (ligand) superfamily, member 13b	protein-coding	145.5	298.0	140.0	2069.0	520.5	192.5	188.5	145.0
Merged-chr2-137942891-3	chr2	137942766	137942966	+	771.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-313718.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	5.0	17.0	7.0	205.5	8.0	4.5	3.0	3.0
Merged-chr5-64160291-4	chr5	64160243	64160443	+	923.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310611)	promoter-TSS (NM_001310611)	83.0	NM_001310611	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	12.5	9.5	13.0	121.0	26.5	8.5	5.5	13.5
Merged-chr9-108662100-4	chr9	108662015	108662215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020520)	promoter-TSS (NM_020520)	17.0	NM_020520	57279.0	Mm.29666	NM_020520	ENSMUSG00000032602	Slc25a20	1110007P09Rik|C78826|Cact|mCAC	solute carrier family 25 (mitochondrial carnitine/acylcarnitine translocase), member 20	protein-coding	50.0	54.5	31.5	354.0	118.5	38.5	52.5	41.0
Merged-chr11-77607965-4	chr11	77607865	77608065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144825)	promoter-TSS (NM_144825)	-150.0	NM_144825	216965.0	Mm.340436	NM_144825	ENSMUSG00000017291	Taok1	2810468K05Rik|AU020252|D130018F14Rik|Map3k16|Markk|Psk2|mKIAA1361	TAO kinase 1	protein-coding	88.5	122.0	67.5	947.5	228.0	83.5	79.5	59.5
Merged-chr6-146634458-4	chr6	146634369	146634569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026281, exon 1 of 12)	5' UTR (NM_026281, exon 1 of 12)	123.0	NM_026281	67623.0	Mm.278037	NM_026281	ENSMUSG00000040234	Tm7sf3	2010003B14Rik|NARP1	transmembrane 7 superfamily member 3	protein-coding	39.0	64.5	27.5	392.0	66.0	38.0	35.5	19.0
Merged-chr12-73693565-4	chr12	73693472	73693672	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 4 of 13)	B3|SINE|B2	108776.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	26.5	48.5	11.0	295.5	50.0	31.0	35.0	29.5
Merged-chr10-130231631-4	chr10	130231514	130231714	+	976.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20486.0	NM_146300	258297.0	Mm.377419	NM_146300	ENSMUSG00000045559	Olfr827	MOR210-5	olfactory receptor 827	protein-coding	64.0	64.0	44.5	1231.0	60.0	14.5	32.5	41.5
Merged-chr14-121929540-4	chr14	121929447	121929647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-13773.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	73.5	99.5	92.5	1246.5	143.5	44.0	65.0	50.5
Merged-chr5-112317559-2	chr5	112317459	112317659	+	894.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8810.0	NM_018783	54723.0	Mm.172947	NM_018783	ENSMUSG00000029345	Tfip11	2810002G02Rik|AF097181|AW046167|Srr1|TIP33|Tip39	tuftelin interacting protein 11	protein-coding	7.5	14.0	9.0	73.5	12.0	1.0	2.0	5.0
Merged-chr19-9993217-4	chr19	9993134	9993334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011913, exon 3 of 12)	exon (NM_011913, exon 3 of 12)	8399.0	NM_011913	24115.0	Mm.31577	NM_011913	ENSMUSG00000037418	Best1	Bmd|Vmd2|mBest1	bestrophin 1	protein-coding	20.0	37.5	16.0	263.5	75.0	25.5	36.0	36.5
Merged-chr3-19300343-3	chr3	19300275	19300475	+	756.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122759, intron 1 of 12)	(TG)n|Simple_repeat|Simple_repeat	10947.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	12.5	7.0	4.0	107.5	12.0	6.0	7.0	16.5
Merged-chr9-118821745-3	chr9	118821617	118821817	+	810.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 4 of 13)	intron (NM_001113514, intron 4 of 13)	-104819.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	2.0	8.0	3.0	32.0	22.5	9.5	11.5	6.5
Merged-chr3-15848577-4	chr3	15848456	15848656	+	969.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001173459)	promoter-TSS (NM_001173459)	-69.0	NM_001173459	100038947.0	Mm.330924	NM_001173459	ENSMUSG00000074677	LOC100038947	-	signal-regulatory protein beta 1-like	protein-coding	14.5	33.0	27.5	353.5	93.0	31.5	35.5	33.5
Merged-chr4-129877522-7	chr4	129877433	129877633	+	968.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28693.0	NR_045190	319894.0	Mm.59196	NR_045190	ENSMUSG00000086369	E330017L17Rik	-	RIKEN cDNA E330017L17 gene	ncRNA	12.0	15.0	15.0	69.0	30.5	16.5	11.5	14.5
Merged-chr3-35932866-4	chr3	35932842	35933042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205362)	promoter-TSS (NM_001205362)	24.0	NM_001205361	114893.0	Mm.374810	NM_033623	ENSMUSG00000027708	Dcun1d1	Rp42|SCCRO|Tes3|pTes3	DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)	protein-coding	40.0	33.0	40.0	464.5	57.0	33.0	48.0	19.0
Merged-chr7-128002276-4	chr7	128002176	128002376	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-2102.0	NM_001079932	434246.0	Mm.389924	NM_001079932	ENSMUSG00000042828	Trim72	BC067209|MG53	tripartite motif-containing 72	protein-coding	13.0	23.5	13.0	153.0	25.5	20.5	9.0	12.0
Merged-chr11-44415443-1	chr11	44415343	44415543	+	1000.0	f0_c57.idr	TTS (NM_001303244)	TTS (NM_001303244)	15380.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	18.5	38.0	32.0	304.0	75.0	19.5	44.5	37.0
Merged-chr4-127151315-4	chr4	127151201	127151401	+	981.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17903.0	NM_198618	242667.0	Mm.331885	NM_198618	ENSMUSG00000042388	Dlgap3	BC058433|DAP-3|DAP3|Prpl8|Sapap3	DLG associated protein 3	protein-coding	52.0	32.0	11.5	482.5	93.5	25.5	27.5	28.5
Merged-chr6-116460136-4	chr6	116460050	116460250	+	786.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 1 of 13)	intron (NM_009662, intron 1 of 13)	1028.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	7.0	12.0	4.0	164.5	21.0	12.0	9.0	8.5
Merged-chr2-75757510-4	chr2	75757432	75757632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52869.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	20.5	55.0	64.5	539.5	133.5	44.5	70.0	50.5
Merged-chr4-3681737-4	chr4	3681636	3681836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	intron (NM_001111096, intron 1 of 12)	3615.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	61.5	121.0	66.0	1021.5	183.0	75.5	68.5	75.0
Merged-chr13-112751975-4	chr13	112751874	112752074	+	872.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48803.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	13.0	9.5	12.5	142.5	24.0	8.5	11.5	12.0
Merged-chr14-25854261-4	chr14	25854154	25854354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013469, intron 1 of 14)	intron (NM_013469, intron 1 of 14)	12099.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	66.0	100.5	84.0	1183.0	135.5	44.0	70.5	53.5
Merged-chr3-50443730-4	chr3	50443675	50443875	+	947.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011990)	promoter-TSS (NM_011990)	-162.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	10.5	35.0	50.0	301.5	35.0	13.5	21.0	17.5
Merged-chr7-7281609-4	chr7	7281511	7281711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302386)	TTS (NM_001302386)	-3322.0	NR_003555	76229.0	Mm.387947	NM_001113468	ENSMUSG00000095730	Vmn2r29	6430701C03Rik	vomeronasal 2, receptor 29	protein-coding	146.5	204.0	212.0	3236.0	359.0	90.5	151.5	200.5
Merged-chr15-85859628-4	chr15	85859524	85859724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168672)	promoter-TSS (NM_001168672)	-83.0	NM_001168672	29870.0	Mm.20858	NM_013882	ENSMUSG00000022385	Gtse1	B99|Gtse-1	G two S phase expressed protein 1	protein-coding	139.5	200.5	98.0	1989.0	352.0	151.5	157.5	111.0
Merged-chr13-9231624-4	chr13	9231533	9231733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-44892.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	6.0	19.5	43.5	329.5	59.5	23.0	50.5	34.5
Merged-chr4-139176026-4	chr4	139175939	139176139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033543, exon 3 of 3)	non-coding (NR_033543, exon 3 of 3)	4616.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	88.0	86.0	56.0	1051.5	144.0	56.5	58.0	80.0
Merged-chr17-28408042-4	chr17	28407933	28408133	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 8 of 10)	intron (NM_010220, intron 8 of 10)	-42817.0	NM_021478	22157.0	Mm.42102	NM_021478	ENSMUSG00000037446	Tulp1	Tulp1l	tubby like protein 1	protein-coding	25.0	38.0	18.5	434.5	46.0	7.0	14.0	20.0
Merged-chr11-86750181-4	chr11	86750034	86750234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	intron (NM_001003908, intron 1 of 31)	7433.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	13.0	29.0	11.5	272.5	33.5	16.0	19.5	18.5
Merged-chr4-146168002-2	chr4	146167902	146168102	+	756.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177545, intron 2 of 4)	IAPLTR4|LTR|ERVK	10312.0	NM_001177545	667666.0	Mm.459230	NM_001177545	ENSMUSG00000066007	Zfp600	Gm13164	zinc finger protein 600	protein-coding	1.0	1.0	2.0	35.0	7.5	4.5	5.0	6.0
Merged-chr13-23570566-4	chr13	23570436	23570636	+	787.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178196)	promoter-TSS (NM_178196)	684.0	NM_178187	319166.0	Mm.261665	NM_178187	ENSMUSG00000069272	Hist1h2ae	1190022L06	histone cluster 1, H2ae	protein-coding	3.5	0.5	5.0	87.0	7.5	5.0	5.5	6.0
Merged-chr9-88546368-4	chr9	88546272	88546472	+	942.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-1648.0	NM_001163061	71640.0	Mm.259988	NM_001142943	ENSMUSG00000032425	Zfp949	4930422I07Rik|Nczf	zinc finger protein 949	protein-coding	26.5	32.5	17.5	332.0	77.0	9.5	23.0	13.5
Merged-chr6-30546942-4	chr6	30546849	30547049	+	893.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024698, intron 4 of 10)	intron (NM_001024698, intron 4 of 10)	5307.0	NM_001024698	232680.0	Mm.268855	NM_001024698	ENSMUSG00000071553	Cpa2	-	carboxypeptidase A2, pancreatic	protein-coding	17.5	33.0	16.5	205.0	43.5	20.0	16.0	15.0
Merged-chr7-80787530-3	chr7	80787414	80787614	+	859.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	LTRIS_Mus|LTR|ERV1	15817.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	2.0	17.5	1.0	16.0	25.0	8.5	10.0	14.5
Merged-chr5-143235153-4	chr5	143235059	143235259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289590)	promoter-TSS (NM_001289590)	-4.0	NM_001289589	231866.0	Mm.55211	NM_177681	ENSMUSG00000029587	Zfp12	C530015C18|Krox-7|Zfp-12|Znf12	zinc finger protein 12	protein-coding	51.0	87.5	30.0	776.0	96.5	51.5	39.0	58.0
Merged-chr1-167308639-4	chr1	167308498	167308698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039483)	promoter-TSS (NM_001039483)	-72.0	NM_001039483	68944.0	Mm.330045	NM_026881	ENSMUSG00000052428	Tmco1	1190006A08Rik|4930403O06Rik|AA109065|AU022572|ESTM39	transmembrane and coiled-coil domains 1	protein-coding	106.5	168.5	113.5	1452.5	249.5	123.5	127.5	107.5
Merged-chr7-112369184-3	chr7	112369082	112369282	+	889.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027587, intron 1 of 9)	intron (NM_027587, intron 1 of 9)	874.0	NM_027587	100504195.0	Mm.291129	NM_027587	ENSMUSG00000030771	Micalcl	4921517J23Rik	MICAL C-terminal like	protein-coding	13.5	20.0	6.0	173.0	11.0	10.0	4.0	7.5
Merged-chr2-32237268-6	chr2	32237114	32237314	+	972.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145145, intron 1 of 19)	intron (NM_145145, intron 1 of 19)	531.0	NM_145145	99011.0	Mm.31192	NM_145145	ENSMUSG00000039254	Pomt1	AI505244	protein-O-mannosyltransferase 1	protein-coding	6.5	7.5	1.0	47.5	8.0	5.0	6.0	8.0
Merged-chr7-36720224-4	chr7	36720113	36720313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172298, intron 1 of 1)	intron (NM_172298, intron 1 of 1)	22095.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	23.5	39.5	19.0	447.0	66.0	19.5	27.0	6.5
Merged-chr12-38863609-4	chr12	38863500	38863700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347379, intron 11 of 11)	intron (NM_001347379, intron 11 of 11)	79889.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	48.0	80.5	60.0	1196.5	120.0	51.5	39.0	41.5
Merged-chr1-39504411-3	chr1	39504312	39504512	+	694.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-25657.0	NM_001357521	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	1.0	14.0	3.0	87.5	14.5	8.0	9.0	5.0
Merged-chr8-108715290-3	chr8	108715240	108715440	+	942.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	CpG	696.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	9.0	11.0	14.0	136.0	18.5	10.0	9.5	10.0
Merged-chr19-44281926-2	chr19	44281826	44282026	+	779.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-11750.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	5.5	20.0	7.5	23.5	7.0	2.5	5.5	2.5
Merged-chr18-61093913-4	chr18	61093815	61094015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11657.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	21.5	71.5	31.0	410.5	85.0	35.0	41.5	20.0
Merged-chr19-46589335-3	chr19	46589233	46589433	+	978.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053196, intron 6 of 11)	intron (NM_053196, intron 6 of 11)	-9773.0	NM_001177812	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	3.5	1.0	0.5	23.5	32.5	14.5	22.5	23.0
Merged-chr6-113494607-4	chr6	113494447	113494647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172487, exon 4 of 4)	exon (NM_172487, exon 4 of 4)	7271.0	NM_172487	210673.0	Mm.133060	NM_172487	ENSMUSG00000045009	Prrt3	6330505P20|B230206N24Rik	proline-rich transmembrane protein 3	protein-coding	81.0	119.0	67.5	606.5	148.5	69.5	58.0	70.5
Merged-chr8-22861682-4	chr8	22861588	22861788	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 2 of 17)	intron (NM_001081149, intron 2 of 17)	2149.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	16.5	22.0	21.0	540.5	67.5	17.5	25.0	25.0
Merged-chr1-182953859-4	chr1	182953750	182953950	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016928)	promoter-TSS (NM_016928)	-938.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	19.5	37.0	32.0	530.5	85.0	15.0	28.5	42.5
Merged-chr5-33938637-4	chr5	33938498	33938698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-2340.0	NM_011914	24116.0	Mm.332320	NM_011914	ENSMUSG00000029111	Nelfa	Whsc2|Whsc2h	negative elongation factor complex member A, Whsc2	protein-coding	65.0	62.5	41.5	655.0	55.0	18.0	26.0	33.5
Merged-chr5-92370583-4	chr5	92370494	92370694	+	935.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-7298.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	15.0	54.5	14.0	125.0	61.0	33.0	12.0	11.5
Merged-chr1-173426894-2	chr1	173426816	173427016	+	827.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 1 of 8)	RLTR49|LTR|ERVK	6312.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	6.5	11.0	8.0	114.0	24.0	12.5	15.0	9.5
Merged-chr9-48558887-4	chr9	48558800	48559000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46223.0	NM_010924	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	123.0	223.5	110.5	1703.0	322.5	132.5	121.5	121.5
Merged-chr2-158500194-4	chr2	158500093	158500293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291138)	TTS (NM_001291138)	-2419.0	NM_145635	246747.0	Mm.28800	NM_145635	ENSMUSG00000044405	Adig	SMAF-1|Smaf1	adipogenin	protein-coding	33.5	86.5	42.0	476.0	62.5	31.0	32.5	25.5
Merged-chr14-21053307-2	chr14	21053207	21053407	+	746.333313	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018829)	promoter-TSS (NM_018829)	733.0	NM_134079	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	1.0	4.0	4.0	38.0	16.5	5.0	7.0	13.5
Merged-chr5-88566638-2	chr5	88566538	88566738	+	880.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289774, intron 1 of 17)	intron (NM_001289774, intron 1 of 17)	1598.0	NM_001289775	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	3.0	11.0	11.5	19.0	18.0	9.5	4.5	6.0
Merged-chr19-17165164-3	chr19	17165040	17165240	+	708.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	intron (NM_181348, intron 9 of 19)	174365.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	5.5	6.0	6.0	71.0	15.5	1.0	4.5	1.0
Merged-chr17-71250881-4	chr17	71250782	71250982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46228.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	54.5	148.5	113.0	1470.0	87.0	39.5	41.5	35.5
Merged-chr7-45370689-4	chr7	45370574	45370774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011698)	promoter-TSS (NM_011698)	-110.0	NM_011698	22342.0	Mm.20472	NM_011698	ENSMUSG00000003872	Lin7b	LIN-7B|MALS-2|Veli2	lin-7 homolog B (C. elegans)	protein-coding	50.0	49.5	22.0	510.5	68.5	32.0	33.0	30.5
Merged-chr7-45124455-4	chr7	45124293	45124493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013725)	promoter-TSS (NM_013725)	-4.0	NM_013725	27207.0	Mm.196538	NM_013725	ENSMUSG00000003429	Rps11	-	ribosomal protein S11	protein-coding	130.5	185.5	81.0	1387.5	399.5	157.5	164.0	140.5
Merged-chr3-81052530-4	chr3	81052441	81052641	+	941.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	16125.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	24.5	29.5	29.0	320.5	49.0	16.5	13.0	9.5
Merged-chr5-103706199-4	chr5	103706112	103706312	+	860.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47950.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	18.5	10.5	5.5	156.0	44.5	11.0	31.0	24.0
Merged-chr9-106411370-3	chr9	106411285	106411485	+	836.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18026.0	NM_001324533	19944.0	Mm.288696	NM_009082	ENSMUSG00000048758	Rpl29	Rpl43	ribosomal protein L29	protein-coding	8.0	6.0	4.5	141.0	16.0	8.5	7.5	2.0
Merged-chr2-150755253-4	chr2	150755154	150755354	+	612.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355068, intron 2 of 13)	intron (NM_001355068, intron 2 of 13)	6173.0	NM_172117	12497.0	Mm.275524	NM_172117	ENSMUSG00000033068	Entpd6	2700026H11Rik|Cd39l2|NTPDase-6	ectonucleoside triphosphate diphosphohydrolase 6	protein-coding	3.0	8.0	2.0	78.5	18.0	12.5	8.5	13.5
Merged-chr7-25129707-4	chr7	25129624	25129824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163556, intron 1 of 13)	intron (NM_001163556, intron 1 of 13)	2736.0	NM_011138	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	73.5	124.0	96.5	1112.5	231.5	66.0	123.5	106.0
Merged-chr10-34036769-4	chr10	34036625	34036825	+	761.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162937)	promoter-TSS (NM_001162937)	-872.0	NM_001162937	692132.0	Mm.383415	NM_001162937	ENSMUSG00000071340	Trappc3l	Bet3l	trafficking protein particle complex 3 like	protein-coding	5.5	9.0	12.5	93.0	23.0	5.5	9.0	4.5
Merged-chr10-26828566-4	chr10	26828472	26828672	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	L3b|LINE|CR1	56060.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	32.5	21.5	28.0	346.0	51.5	14.0	23.5	25.5
Merged-chr3-95754931-4	chr3	95754814	95755014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163618)	promoter-TSS (NM_001163618)	63.0	NR_151589	71807.0	Mm.271754	NM_027931	ENSMUSG00000028107	Tars2	2610024N01Rik|AI429208|Tarsl1|thrRS	threonyl-tRNA synthetase 2, mitochondrial (putative)	protein-coding	55.5	64.0	24.5	663.5	116.0	44.5	54.5	37.5
Merged-chr2-21205709-4	chr2	21205619	21205819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027728)	promoter-TSS (NM_027728)	-5.0	NM_001001297	208967.0	Mm.268841	NM_177588	ENSMUSG00000048550	Thnsl1	AW413632	threonine synthase-like 1 (bacterial)	protein-coding	128.0	219.5	162.5	2147.5	434.5	171.0	234.5	169.0
Merged-chr18-46612360-4	chr18	46612258	46612458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14654.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	82.5	142.0	66.5	1537.0	187.5	52.5	55.5	65.5
Merged-chr19-8718515-4	chr19	8718409	8718609	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161413, intron 1 of 9)	intron (NM_001161413, intron 1 of 9)	-4612.0	NM_008577	17254.0	Mm.4114	NM_008577	ENSMUSG00000010095	Slc3a2	4F2|4F2HC|AI314110|Cd98|Ly-10|Ly-m10|Ly10|Mdu1|Mgp-2hc|NACAE	solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2	protein-coding	22.5	23.0	18.5	269.5	67.0	14.5	23.5	23.5
Merged-chr6-7733286-4	chr6	7733187	7733387	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-40105.0	NM_012055	27053.0	Mm.2942	NM_012055	ENSMUSG00000029752	Asns	-	asparagine synthetase	protein-coding	14.0	22.0	13.5	218.0	48.0	11.0	18.5	14.0
Merged-chr6-97452405-4	chr6	97452286	97452486	+	982.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	6900.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	37.0	64.5	34.5	466.5	67.0	17.0	16.5	22.0
Merged-chr11-100360411-4	chr11	100360314	100360514	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-4273.0	NM_010404	15114.0	Mm.281700	NM_010404	ENSMUSG00000006930	Hap1	HAP-1	huntingtin-associated protein 1	protein-coding	13.0	21.0	15.0	289.0	42.0	27.0	33.5	20.5
Merged-chr7-119921220-4	chr7	119921110	119921310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21099.0	NR_126475	73919.0	Mm.46381	NM_029610	ENSMUSG00000030922	Lyrm1	1110065L10Rik|2310004B22Rik|4930404J24Rik	LYR motif containing 1	protein-coding	21.5	32.0	39.5	368.5	81.0	29.5	33.5	27.0
Merged-chr3-79171741-3	chr3	79171656	79171856	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-25881.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	4.0	8.0	3.5	26.5	60.0	30.0	25.0	22.5
Merged-chr8-33619064-3	chr8	33618952	33619152	+	965.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178648)	TTS (NM_178648)	19431.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	5.0	2.5	7.0	220.0	33.5	13.5	16.5	8.5
Merged-chr9-123808766-4	chr9	123808673	123808873	+	941.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030712, intron 1 of 1)	intron (NM_030712, intron 1 of 1)	2296.0	NM_030712	80901.0	Mm.124289	NM_030712	ENSMUSG00000048521	Cxcr6	BB217514|BONZO|STRL33	chemokine (C-X-C motif) receptor 6	protein-coding	25.5	15.0	13.5	264.0	42.5	24.0	28.0	13.0
Merged-chr14-17428022-4	chr14	17427901	17428101	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-232959.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	19.5	13.0	20.5	352.0	33.5	12.0	15.5	8.5
Merged-chr7-16913942-4	chr7	16913840	16914040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7450.0	NM_008967	19222.0	Mm.287572	NM_008967	ENSMUSG00000043017	Ptgir	IP|PGI2	prostaglandin I receptor (IP)	protein-coding	30.5	18.5	23.0	269.0	47.0	19.5	23.5	20.0
Merged-chr5-124354800-4	chr5	124354718	124354918	+	846.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013812)	promoter-TSS (NM_013812)	-190.0	NM_013812	13445.0	Mm.391838	NM_013812	ENSMUSG00000029394	Cdk2ap1	Apc10|Cdkap1|DORC1|Doc1|ST19|doc-1|p12	CDK2 (cyclin-dependent kinase 2)-associated protein 1	protein-coding	17.0	6.5	5.0	157.5	28.0	11.5	9.0	14.5
Merged-chr1-34839422-4	chr1	34839314	34839514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 1 of 6)	intron (NM_001160236, intron 1 of 6)	3636.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	70.0	80.0	37.0	1172.0	136.5	38.5	43.5	45.0
Merged-chr5-120749902-4	chr5	120749801	120750001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145227)	promoter-TSS (NM_145227)	-53.0	NM_001347448	246728.0	Mm.260926	NM_145227	ENSMUSG00000032690	Oas2	Oasl11	2'-5' oligoadenylate synthetase 2	protein-coding	43.0	80.0	61.5	973.5	132.0	39.5	67.0	61.0
Merged-chr8-13504114-1	chr8	13504014	13504214	+	875.6666869999999	f0_c57.idr	Intergenic	Intergenic	-9579.0	NM_019521	14456.0	Mm.3982	NM_019521	ENSMUSG00000031451	Gas6	Gas-6	growth arrest specific 6	protein-coding	33.0	31.0	47.0	562.5	19.5	20.0	15.0	25.5
Merged-chr4-123687690-2	chr4	123687552	123687752	+	622.799988	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-3292.0	NM_001199136	11426.0	Mm.402299	NM_009600	ENSMUSG00000028649	Macf1	ABP620|Acf7|Aclp7|MACF|R74989|mKIAA0465	microtubule-actin crosslinking factor 1	protein-coding	9.0	13.5	9.0	66.5	22.0	7.5	5.5	11.0
Merged-chr3-108151882-4	chr3	108151812	108152012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001305461, exon 2 of 3)	5' UTR (NM_001305461, exon 2 of 3)	3020.0	NM_001305461	229714.0	Mm.73666	NM_175470	ENSMUSG00000046793	Gpr61	-	G protein-coupled receptor 61	protein-coding	34.5	42.5	23.0	370.5	61.5	28.0	32.5	34.0
Merged-chr2-101797376-4	chr2	101797298	101797498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	CpG	309.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	37.0	37.5	33.5	332.5	107.5	39.5	23.0	22.5
Merged-chr19-24284391-4	chr19	24284302	24284502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-3816.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	24.5	70.0	52.0	546.0	134.0	40.5	74.5	45.0
Merged-chr19-11263162-4	chr19	11263082	11263282	+	797.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007641, intron 1 of 6)	intron (NM_007641, intron 1 of 6)	2969.0	NM_007641	12482.0	Mm.4046	NM_007641	ENSMUSG00000024673	Ms4a1	AA960661|Cd20|Ly-44|Ms4a2	membrane-spanning 4-domains, subfamily A, member 1	protein-coding	9.0	13.5	9.5	125.5	28.5	13.0	5.5	12.0
Merged-chr10-13835874-3	chr10	13835776	13835976	+	962.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 1 of 5)	intron (NM_025446, intron 1 of 5)	33081.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	13.5	44.5	13.0	230.0	8.0	5.5	1.0	2.5
Merged-chr3-16043555-3	chr3	16043461	16043661	+	816.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37229.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	2.5	10.5	5.5	117.5	24.5	5.5	6.0	5.0
Merged-chr2-124704392-4	chr2	124704310	124704510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	50829.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	26.5	45.0	36.0	321.0	71.5	19.5	34.5	44.5
Merged-chr15-59729744-2	chr15	59729644	59729844	+	903.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65215.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	5.0	4.5	10.5	91.5	11.0	0.5	8.5	2.0
Merged-chr17-83351812-4	chr17	83351703	83351903	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357886, intron 1 of 21)	intron (NM_001357886, intron 1 of 21)	872.0	NM_001357886	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	20.5	42.5	28.0	477.5	48.0	13.0	36.0	37.0
Merged-chr16-13239779-3	chr16	13239675	13239875	+	888.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-16706.0	NM_001122667	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	5.0	4.0	0.0	188.5	12.0	6.5	15.0	14.0
Merged-chr1-34823556-4	chr1	34823473	34823673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 3 of 6)	intron (NM_001160236, intron 3 of 6)	19477.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	42.0	61.0	37.0	631.5	131.0	36.0	67.0	33.0
Merged-chr16-56771531-3	chr16	56771422	56771622	+	878.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172825, intron 4 of 15)	intron (NM_172825, intron 4 of 15)	24336.0	NM_172825	239853.0	Mm.258979	NM_172825	ENSMUSG00000022755	Adgrg7	9130020O16Rik|Gpr128	adhesion G protein-coupled receptor G7	protein-coding	8.0	21.0	6.0	112.5	12.5	5.5	11.0	10.0
Merged-chr5-23712423-9	chr5	23712225	23712425	+	872.6611330000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015554, intron 1 of 4)	CpG	342.0	NR_038090	433855.0	Mm.205125	NR_015554	ENSMUSG00000105987	AI506816	-	expressed sequence AI506816	ncRNA	19.5	41.5	45.5	254.0	18.5	7.0	4.5	3.5
Merged-chr14-65262451-4	chr14	65262350	65262550	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021458)	promoter-TSS (NM_021458)	13.0	NM_021458	14365.0	Mm.214687	NM_021458	ENSMUSG00000007989	Fzd3	AU020229|D930050A07Rik|Fz3	frizzled class receptor 3	protein-coding	13.5	27.0	19.0	235.0	50.5	12.0	16.0	27.0
Merged-chr1-131087066-4	chr1	131086974	131087174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	10769.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	80.0	106.0	86.5	1379.0	216.0	64.5	93.5	107.5
Merged-chr15-81989896-4	chr15	81989809	81990009	+	837.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9369.0	NM_025503	66346.0	Mm.54292	NM_025503	ENSMUSG00000061633	1700029P11Rik	-	RIKEN cDNA 1700029P11 gene	protein-coding	8.0	19.0	7.0	128.0	23.0	14.5	10.5	17.0
Merged-chr8-111939990-4	chr8	111939890	111940090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026693)	promoter-TSS (NM_026693)	-713.0	NM_026693	93739.0	Mm.371666	NM_026693	ENSMUSG00000031950	Gabarapl2	0610012F20Rik|2900019O08Rik|AI173605|GATE-16|Gef2	gamma-aminobutyric acid (GABA) A receptor-associated protein-like 2	protein-coding	34.5	31.0	9.5	302.0	60.0	30.0	19.5	27.5
Merged-chr11-58235439-2	chr11	58235335	58235535	+	808.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	20458.0	NM_019440	54396.0	Mm.458517	NM_019440	ENSMUSG00000069874	Irgm2	AI481100|GTPI|Ifggd2|Iigp2	immunity-related GTPase family M member 2	protein-coding	12.0	10.0	8.0	108.5	12.0	2.0	7.5	5.5
Merged-chr14-76072775-4	chr14	76072664	76072864	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38051.0	NM_026177	67467.0	Mm.260767	NM_026177	ENSMUSG00000022008	Gpalpp1	1200011I18Rik|Kiaa1704	GPALPP motifs containing 1	protein-coding	9.5	6.5	6.5	144.0	21.0	4.0	22.5	16.5
Merged-chr13-45750221-3	chr13	45750105	45750305	+	721.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 4 of 6)	intron (NM_001199304, intron 4 of 6)	214786.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	6.5	15.0	7.5	114.5	14.0	4.5	4.0	6.0
Merged-chr5-72950436-3	chr5	72950318	72950518	+	563.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153567, intron 3 of 8)	Lx8|LINE|L1	36056.0	NM_153567	75991.0	Mm.121285	NM_153567	ENSMUSG00000036087	Slain2	5033405K12Rik|8030444K12Rik|AI596370	SLAIN motif family, member 2	protein-coding	8.0	10.0	6.5	65.0	1.5	1.5	6.0	3.5
Merged-chr1-24461226-4	chr1	24461130	24461330	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 12 of 50)	intron (NM_007733, intron 12 of 50)	126207.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	12.0	4.0	19.0	188.5	38.0	12.0	10.0	4.5
Merged-chr16-21995465-4	chr16	21995377	21995577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083894)	promoter-TSS (NM_001083894)	65.0	NM_001289582	239759.0	Mm.33192	NM_153404	ENSMUSG00000044626	Liph	C130037N08Rik|D16Wsu119e|H06|Lpdlr|P3|PLA1B|lpd1|lpd2|mPA-PLA1	lipase, member H	protein-coding	90.5	216.5	51.0	914.5	201.0	74.0	49.5	42.5
Merged-chr5-4876767-4	chr5	4876663	4876863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 14 of 14)	intron (NM_011074, intron 14 of 14)	-118547.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	46.0	37.0	43.0	1120.0	55.5	30.5	40.0	59.5
Merged-chr4-97814687-3	chr4	97814561	97814761	+	884.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	37035.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	10.5	11.0	15.0	199.5	12.5	6.5	9.5	7.0
Merged-chr1-184484780-5	chr1	184484643	184484843	+	916.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72948.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	1.5	7.0	10.5	82.0	16.5	9.0	10.5	16.5
Merged-chr15-58876352-4	chr15	58876224	58876424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026642, exon 1 of 1)	3' UTR (NM_026642, exon 1 of 1)	3675.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	46.0	60.0	21.5	566.5	133.5	38.5	35.5	57.0
Merged-chr4-128840568-4	chr4	128840436	128840636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34424.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	40.0	26.5	53.0	580.0	82.5	18.0	49.5	33.0
Merged-chr1-156002549-4	chr1	156002453	156002653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29298.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	24.5	31.0	16.5	606.5	123.0	24.0	64.5	39.0
Merged-chr13-34793266-4	chr13	34793152	34793352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53610.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	40.5	67.0	52.0	802.0	97.5	34.0	48.5	48.5
Merged-chr3-135691497-4	chr3	135691399	135691599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008689)	promoter-TSS (NM_008689)	48.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	93.0	159.0	100.5	903.5	309.0	139.5	144.0	86.0
Merged-chr6-113285137-4	chr6	113285043	113285243	+	981.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170673, intron 6 of 19)	intron (NM_170673, intron 6 of 19)	2836.0	NM_170673	211232.0	Mm.65597	NM_170673	ENSMUSG00000030270	Cpne9	A730016F12Rik|mKIAA4217	copine family member IX	protein-coding	30.0	21.0	13.5	257.5	61.5	22.5	35.5	12.5
Merged-chr10-94405680-4	chr10	94405556	94405756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	L2c|LINE|L2	93707.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	24.5	27.5	27.0	421.5	47.5	27.0	11.0	38.0
Merged-chr7-44866483-4	chr7	44866359	44866559	+	938.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133949, intron 5 of 11)	intron (NM_133949, intron 5 of 11)	3329.0	NM_133949	84113.0	Mm.42855	NM_133949	ENSMUSG00000038502	Ptov1	1110030G05Rik|AU041779|Gcap3	prostate tumor over expressed gene 1	protein-coding	25.5	35.0	10.0	282.5	25.0	14.5	11.0	30.5
Merged-chr15-59486301-4	chr15	59486202	59486402	+	885.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	112104.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	7.5	17.5	10.0	102.0	32.0	23.5	22.0	16.0
Merged-chr10-43707971-3	chr10	43707870	43708070	+	746.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38188.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	9.0	8.5	7.5	113.0	19.0	9.0	8.0	4.5
Merged-chr6-97454625-3	chr6	97454493	97454693	+	717.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	4693.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	8.5	8.5	21.5	76.5	11.0	7.5	5.0	7.0
Merged-chr19-37059796-3	chr19	37059667	37059867	+	810.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 8 of 10)	intron (NM_198300, intron 8 of 10)	-114076.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	4.5	5.0	9.0	128.5	9.0	8.5	7.0	6.5
Merged-chr1-170912449-4	chr1	170912340	170912540	+	978.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029984, intron 2 of 5)	intron (NM_001029984, intron 2 of 5)	501.0	NM_001029984	435653.0	Mm.337931	NM_001029984	ENSMUSG00000070524	Fcrlb	FREB-2|FREB2|FcRL2|Fcrlm2|Fcry|mFCRL2	Fc receptor-like B	protein-coding	20.5	34.0	12.5	165.0	18.0	17.0	16.5	15.5
Merged-chr6-52204526-4	chr6	52204425	52204625	+	965.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010453)	promoter-TSS (NM_010453)	62.0	NM_010453	15402.0	Mm.173	NM_010453	ENSMUSG00000038253	Hoxa5	Hox-1.3	homeobox A5	protein-coding	9.0	31.5	12.0	187.0	53.0	28.0	37.0	21.0
Merged-chr1-93512034-4	chr1	93511936	93512136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145519)	promoter-TSS (NM_145519)	-68.0	NM_145519	227377.0	Mm.243091	NM_145519	ENSMUSG00000034066	Farp2	AI465173|BC009153|D030026M03Rik|Fir|mKIAA0793	FERM, RhoGEF and pleckstrin domain protein 2	protein-coding	228.5	305.0	243.5	4277.0	565.5	196.5	248.5	194.0
Merged-chr1-74817024-4	chr1	74816920	74817120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	25001.0	NM_009518	22409.0	Mm.5130	NM_009518	ENSMUSG00000026167	Wnt10a	-	wingless-type MMTV integration site family, member 10A	protein-coding	60.0	90.0	57.0	716.0	186.5	57.5	76.5	69.0
Merged-chr9-106270067-4	chr9	106269975	106270175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10986.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	26.0	40.5	24.5	304.0	90.5	42.0	45.0	43.5
Merged-chr17-34105028-4	chr17	34104944	34105144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-9735.0	NR_046183	414076.0	Mm.473092	NR_046183	ENSMUSG00000098197	BC051537	-	cDNA sequence BC051537	ncRNA	31.5	36.5	16.0	357.0	139.5	27.0	37.0	44.5
Merged-chr9-108716364-4	chr9	108716249	108716449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008924, intron 2 of 10)	B4A|SINE|B4	24206.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	31.0	42.0	21.5	634.5	54.5	22.0	38.0	38.0
Merged-chr13-23799582-4	chr13	23799486	23799686	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7441.0	NM_144836	218103.0	Mm.24030	NM_144836	ENSMUSG00000036110	Slc17a2	C730032N17Rik|NPT3	solute carrier family 17 (sodium phosphate), member 2	protein-coding	35.0	26.5	46.0	727.5	50.5	10.5	31.5	20.5
Merged-chr7-125601238-3	chr7	125601136	125601336	+	842.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2193.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	7.5	11.0	8.0	111.5	32.5	2.5	4.5	6.5
Merged-chr3-87274551-4	chr3	87274443	87274643	+	753.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11019.0	NM_030707	80891.0	Mm.45173	NM_030707	ENSMUSG00000015852	Fcrls	2810439C17Rik|9330158F12|FcRH2sc|Fcrh2|IFGP2|IgSR|MMAN-g|Msr2|moFcRH2sc	Fc receptor-like S, scavenger receptor	protein-coding	12.0	12.5	12.0	232.0	13.0	17.5	7.0	14.0
Merged-chr10-122052048-4	chr10	122051940	122052140	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4725.0	NM_001081037	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	35.5	45.0	16.5	396.5	82.5	51.0	27.5	25.0
Merged-chr14-29973373-3	chr14	29973277	29973477	+	709.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019979, exon 4 of 5)	exon (NM_019979, exon 4 of 5)	-4960.0	NM_027493	56249.0	Mm.215110	NM_027493	ENSMUSG00000015971	Actr8	5730542K05Rik|ARP8	ARP8 actin-related protein 8	protein-coding	7.0	11.5	9.0	60.0	16.0	15.0	4.0	1.5
Merged-chr5-27185114-4	chr5	27185012	27185212	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207282, intron 1 of 25)	intron (NM_207282, intron 1 of 25)	-76823.0	NM_001136060	13483.0	Mm.42078	NM_010075	ENSMUSG00000061576	Dpp6	B930011P16Rik|D5Buc3|D5Buc4|D5Buc5|DPP VI|Dpp-6|Gm1377|In(5)6H-p|Peplb|Rw	dipeptidylpeptidase 6	protein-coding	26.5	18.0	28.0	475.5	13.5	4.0	18.0	12.5
Merged-chr1-86229591-4	chr1	86229513	86229713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 19 of 20)	intron (NM_027456, intron 19 of 20)	-73608.0	NM_145222	227327.0	Mm.86467	NM_145222	ENSMUSG00000079445	B3gnt7	C330001H22Rik|beta-3GnT7	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 7	protein-coding	93.5	100.0	83.5	1499.0	123.5	45.0	76.0	55.5
Merged-chr2-22795569-4	chr2	22795476	22795676	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	RLTR13C1|LTR|ERVK	21249.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	23.0	47.0	25.5	150.5	83.5	44.5	39.0	26.5
Merged-chr13-52156040-4	chr13	52155952	52156152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59311.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	33.0	35.5	27.0	702.5	95.5	22.5	44.5	31.5
Merged-chr11-101468087-4	chr11	101467990	101468190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009708)	promoter-TSS (NM_009708)	-85.0	NM_009708	11858.0	Mm.378883	NM_009708	ENSMUSG00000001313	Rnd2	Arhn|Rohn|rho7	Rho family GTPase 2	protein-coding	19.0	51.5	23.0	485.5	77.5	23.0	26.5	30.0
Merged-chr2-129618992-1	chr2	129618892	129619092	+	637.0	f1_c57bl6.idr	intron (NM_001355158, intron 6 of 8)	intron (NM_001355158, intron 6 of 8)	23530.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	4.0	0.0	0.5	16.5	25.0	6.5	5.5	8.0
Merged-chr11-117970054-4	chr11	117969950	117970150	+	914.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007707)	promoter-TSS (NM_007707)	-684.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	11.0	22.0	5.5	163.5	52.0	17.0	14.5	15.5
Merged-chr1-144312333-4	chr1	144312243	144312443	+	938.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63239.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	21.0	36.5	14.0	257.0	101.0	13.5	31.5	34.0
Merged-chr10-79840855-3	chr10	79840760	79840960	+	929.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	ZP3AR|Satellite|Satellite	-13572.0	NM_001077363	19205.0	Mm.265610	NM_008956	ENSMUSG00000006498	Ptbp1	AA407203|AL033359|HNRPI|PTB-1|PTB2|PTB3|PTB4|Ptb|pPTB	polypyrimidine tract binding protein 1	protein-coding	10.0	8.0	10.0	128.0	14.0	5.5	3.5	8.5
Merged-chr2-11187371-4	chr2	11187287	11187487	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	15005.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	13.5	24.5	11.0	259.5	69.0	21.0	27.0	41.5
Merged-chr3-108797968-4	chr3	108797854	108798054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011504, intron 16 of 18)	intron (NM_011504, intron 16 of 18)	42548.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	55.5	41.5	33.5	755.5	127.0	25.5	52.0	63.5
Merged-chr17-35125288-4	chr17	35125196	35125396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001128597)	TTS (NM_001128597)	-1106.0	NM_033477	114585.0	Mm.42070	NM_033477	ENSMUSG00000043311	D17H6S53E	G4|NG34	DNA segment, Chr 17, human D6S53E	protein-coding	35.0	57.5	29.0	439.5	82.5	39.0	29.0	36.5
Merged-chr16-65128041-4	chr16	65127952	65128152	+	872.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-22268.0	NM_008310	15557.0	Mm.5040	NM_008310	ENSMUSG00000050783	Htr1f	Htr1eb	5-hydroxytryptamine (serotonin) receptor 1F	protein-coding	10.0	13.0	13.0	264.0	64.5	14.5	18.0	15.0
Merged-chr1-9548826-4	chr1	9548724	9548924	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357377, intron 2 of 14)	intron (NM_001357377, intron 2 of 14)	876.0	NM_001357376	76187.0	Mm.28514	NM_175236	ENSMUSG00000025911	Adhfe1	6330565B14Rik|AI043035|Adh8|HOT	alcohol dehydrogenase, iron containing, 1	protein-coding	13.0	27.0	20.5	183.0	48.0	21.0	4.5	7.0
Merged-chr14-25861980-4	chr14	25861883	25862083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013469, intron 1 of 14)	intron (NM_013469, intron 1 of 14)	19828.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	89.5	136.0	93.5	1474.5	194.5	75.0	97.5	75.0
Merged-chr8-53505682-4	chr8	53505562	53505762	+	854.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6040.0	NM_001205054	11593.0	Mm.334535	NM_001005847	ENSMUSG00000031521	Aga	AW060726	aspartylglucosaminidase	protein-coding	12.0	23.0	20.0	256.0	22.5	9.5	14.5	10.0
Merged-chr9-121669610-2	chr9	121669478	121669678	+	860.458374	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011703, exon 13 of 13)	3' UTR (NM_011703, exon 13 of 13)	26862.0	NM_011703	22354.0	Mm.282007	NM_011703	ENSMUSG00000032528	Vipr1	AV071699|VIP-R1|VPAC1	vasoactive intestinal peptide receptor 1	protein-coding	4.0	1.5	6.0	60.5	15.5	7.5	7.5	10.5
Merged-chr7-45051080-3	chr7	45050994	45051194	+	701.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175022, intron 2 of 13)	intron (NM_175022, intron 2 of 13)	1787.0	NM_175022	233210.0	Mm.219137	NM_175022	ENSMUSG00000046574	Prr12	6720469B10|BC058674	proline rich 12	protein-coding	6.5	4.5	4.0	32.0	19.0	11.5	14.5	4.5
Merged-chr13-111494473-4	chr13	111494355	111494555	+	928.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-4328.0	NM_001361924	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	18.0	20.5	7.0	121.5	56.5	22.0	14.5	19.5
Merged-chr16-23993402-4	chr16	23993293	23993493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4541.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	67.0	134.0	80.5	1078.0	147.0	52.0	69.0	53.5
Merged-chr2-135439665-2	chr2	135439565	135439765	+	901.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_019677, intron 32 of 32)	intron (NM_019677, intron 32 of 32)	143555.0	NR_015544	320684.0	Mm.421433	NR_015544	ENSMUSG00000085631	9630028H03Rik	-	RIKEN cDNA 9630028H03 gene	ncRNA	5.5	1.5	3.5	55.5	9.5	6.5	9.0	6.0
Merged-chr7-25127946-2	chr7	25127846	25128046	+	897.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163556, intron 1 of 13)	intron (NM_001163556, intron 1 of 13)	4514.0	NM_011138	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	6.0	6.0	2.0	38.0	11.5	8.5	5.0	4.5
Merged-chr9-58204292-4	chr9	58204181	58204381	+	742.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161541)	promoter-TSS (NM_001161541)	38.0	NM_001161541	320563.0	Mm.186499	NM_177193	ENSMUSG00000051243	Islr2	B930052A04Rik|Linx|Mbu-3|mKIAA1465	immunoglobulin superfamily containing leucine-rich repeat 2	protein-coding	11.0	19.0	3.5	153.5	17.5	13.5	8.0	9.0
Merged-chr13-111489322-3	chr13	111489218	111489418	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028487, intron 1 of 12)	CpG	809.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	27.0	28.5	20.0	296.0	71.5	20.5	29.5	21.5
Merged-chr11-83463033-3	chr11	83462920	83463120	+	858.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172797)	promoter-TSS (NM_172797)	20.0	NM_172797	118453.0	Mm.264648	NM_080453	ENSMUSG00000020682	Mmp28	D130023P12	matrix metallopeptidase 28 (epilysin)	protein-coding	8.0	10.0	13.0	85.5	19.5	6.5	10.0	11.5
Merged-chr9-101182199-2	chr9	101182117	101182317	+	804.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001161362, intron 4 of 13)	intron (NM_001161362, intron 4 of 13)	16856.0	NM_172144	235542.0	Mm.335386	NM_172144	ENSMUSG00000043154	Ppp2r3a	3222402P14Rik|A730042E07	protein phosphatase 2, regulatory subunit B'', alpha	protein-coding	6.0	6.0	4.5	98.5	15.0	6.0	8.5	7.0
Merged-chr6-136941358-4	chr6	136941271	136941471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301301, intron 1 of 5)	intron (NM_001301301, intron 1 of 5)	132.0	NM_001301305	11857.0	Mm.2241	NM_007486	ENSMUSG00000030220	Arhgdib	D4|Gdid4|Ly-GDI	Rho, GDP dissociation inhibitor (GDI) beta	protein-coding	15.0	29.5	30.5	315.0	58.0	22.0	20.5	29.0
Merged-chr16-58712415-4	chr16	58712326	58712526	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6298.0	NM_001162955	71223.0	Mm.359970	NM_001162955	ENSMUSG00000047293	Gpr15	4933439K08Rik	G protein-coupled receptor 15	protein-coding	31.0	31.5	22.5	567.5	60.0	23.5	15.0	22.0
Merged-chr11-44586213-3	chr11	44586119	44586319	+	866.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126460)	promoter-TSS (NR_126460)	-98.0	NR_126460	75389.0	Mm.261421	NR_126460	ENSMUSG00000086501	4930597A21Rik	-	RIKEN cDNA 4930597A21 gene	ncRNA	8.0	7.0	12.5	122.0	24.5	3.5	6.5	12.5
Merged-chr8-117342587-3	chr8	117342493	117342693	+	944.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-6577.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	13.5	12.5	5.0	71.5	13.5	7.0	1.5	5.0
Merged-chr18-32377177-4	chr18	32377077	32377277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083334)	promoter-TSS (NM_001083334)	-40.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	112.5	175.0	86.0	1640.5	282.5	146.0	145.0	83.5
Merged-chr11-23256935-2	chr11	23256835	23257035	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001035226, intron 2 of 25)	intron (NM_001035226, intron 2 of 25)	894.0	NM_134014	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	4.5	23.0	23.5	184.0	45.0	19.5	10.5	17.0
Merged-chr2-6717165-4	chr2	6717074	6717274	+	893.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	4488.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	10.0	13.0	8.0	247.0	40.0	13.5	25.5	11.5
Merged-chr13-30604102-4	chr13	30603997	30604197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10946.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	38.0	57.0	51.5	683.5	78.0	23.5	37.5	22.0
Merged-chr14-122039449-2	chr14	122039349	122039549	+	799.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4775.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	6.5	5.0	4.5	126.0	20.5	3.5	8.0	14.0
Merged-chr11-62648436-2	chr11	62648336	62648536	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198861)	promoter-TSS (NM_198861)	87.0	NM_198861	192976.0	Mm.339972	NM_198861	ENSMUSG00000046417	Lrrc75a	Fam211a	leucine rich repeat containing 75A	protein-coding	16.0	31.5	12.5	189.0	36.0	10.0	16.5	11.5
Merged-chr1-88573741-4	chr1	88573650	88573850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	22233.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	29.0	37.5	28.5	438.5	112.0	34.5	39.5	46.5
Merged-chr11-115161168-3	chr11	115161097	115161297	+	936.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163753, exon 9 of 9)	3' UTR (NM_001163753, exon 9 of 9)	-2144.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	4.0	6.5	14.5	33.0	26.5	11.5	6.0	15.5
Merged-chr15-59415156-2	chr15	59415056	59415256	+	911.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	40958.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	8.5	7.0	5.0	50.5	14.5	0.0	5.5	16.0
Merged-chr18-36708412-4	chr18	36708224	36708424	+	849.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12399.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	0.5	3.0	15.0	18.0	15.5	8.0	12.0	7.0
Merged-chr4-155700639-3	chr4	155700553	155700753	+	729.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4162.0	NM_026899	68991.0	Mm.294770	NM_026899	ENSMUSG00000029038	Ssu72	1190002E22Rik|1500011L16Rik|2610101M12Rik	Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)	protein-coding	9.5	5.5	9.0	23.0	21.5	10.0	7.0	5.5
Merged-chr7-111079863-3	chr7	111079770	111079970	+	843.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013507, intron 4 of 21)	intron (NM_013507, intron 4 of 21)	3160.0	NM_001040131	13690.0	Mm.185453	NM_013507	ENSMUSG00000005610	Eif4g2	DAP-5|E130105L11Rik|Nat1|Natm1|p97	eukaryotic translation initiation factor 4, gamma 2	protein-coding	7.5	33.0	10.0	26.5	35.5	5.5	7.0	13.0
Merged-chr19-6452371-4	chr19	6452259	6452459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 5 of 22)	intron (NM_001205234, intron 5 of 22)	33621.0	NM_001205234	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	25.5	26.5	17.0	254.0	49.5	21.0	27.0	28.5
Merged-chr7-134689633-4	chr7	134689565	134689765	+	884.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	intron (NM_001033420, intron 1 of 51)	18978.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	6.0	10.5	11.5	80.0	33.0	9.0	6.0	16.0
Merged-chr8-117802057-4	chr8	117801934	117802134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026758)	promoter-TSS (NM_026758)	-60.0	NM_001357232	68533.0	Mm.181836	NM_026758	ENSMUSG00000031843	Mphosph6	1110001M01Rik|AA536809|C86426	M phase phosphoprotein 6	protein-coding	210.0	290.0	192.0	2954.0	460.5	218.0	282.5	203.0
Merged-chr18-32816789-4	chr18	32816684	32816884	+	883.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033206)	promoter-TSS (NR_033206)	-76.0	NR_033206	53603.0	Mm.143716	NM_021367	ENSMUSG00000024379	Tslp	-	thymic stromal lymphopoietin	protein-coding	14.0	13.0	14.0	208.5	33.5	23.0	13.0	13.5
Merged-chr8-117294631-2	chr8	117294501	117294701	+	823.916687	f0_balb.idr|f0_c57.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	37582.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	14.5	22.5	14.0	239.0	32.5	11.0	14.5	12.5
Merged-chr12-86799039-4	chr12	86798905	86799105	+	719.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64636.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	7.0	5.5	3.5	100.0	17.5	4.5	7.0	12.5
Merged-chr15-5133353-2	chr15	5133253	5133453	+	615.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-10508.0	NM_001013367	105787.0	Mm.207004	NM_001013367	ENSMUSG00000050697	Prkaa1	AI194361|AI450832|AL024255|AMPKalpha1|C130083N04Rik	protein kinase, AMP-activated, alpha 1 catalytic subunit	protein-coding	2.5	4.5	5.0	55.0	17.5	10.5	5.0	7.5
Merged-chr2-126477786-4	chr2	126477690	126477890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 3 of 27)	intron (NM_001359975, intron 3 of 27)	13763.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	108.0	196.5	147.5	1736.0	225.5	54.5	74.5	108.5
Merged-chr6-97488610-3	chr6	97488520	97488720	+	871.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346637)	promoter-TSS (NM_001346637)	-800.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	11.0	10.5	6.0	99.0	14.5	9.0	5.0	11.0
Merged-chr12-73287804-4	chr12	73287705	73287905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037717, intron 1 of 15)	intron (NM_001037717, intron 1 of 15)	957.0	NM_001037717	625098.0	Mm.32075	NM_001037717	ENSMUSG00000044712	Slc38a6	AW322671|EG625098	solute carrier family 38, member 6	protein-coding	66.5	78.5	58.0	1023.0	161.5	70.0	70.0	56.0
Merged-chr8-26979676-2	chr8	26979576	26979776	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001101502, exon 2 of 2)	exon (NM_001101502, exon 2 of 2)	2340.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	9.5	5.5	7.5	83.0	34.5	7.0	12.0	16.5
Merged-chr15-81836165-3	chr15	81836063	81836263	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22163.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	17.0	18.0	22.0	197.0	38.5	7.5	15.0	20.0
Merged-chr10-84919954-3	chr10	84919854	84920054	+	766.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013441, intron 1 of 8)	intron (NM_001013441, intron 1 of 8)	2341.0	NM_183172	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	15.0	12.5	13.0	128.0	22.5	6.5	6.5	3.0
Merged-chr19-32637443-4	chr19	32637334	32637534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360403, intron 3 of 11)	intron (NM_001360403, intron 3 of 11)	17429.0	NM_011864	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	69.5	66.0	76.5	1057.5	156.0	47.5	63.0	44.0
Merged-chr5-144255998-4	chr5	144255762	144255962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_018772, exon 2 of 3)	exon (NM_018772, exon 2 of 3)	637.0	NM_018772	55950.0	Mm.38011	NM_018772	ENSMUSG00000047843	Bri3	I3	brain protein I3	protein-coding	27.0	59.5	55.0	407.0	86.5	33.0	32.5	45.0
Merged-chr6-117891626-4	chr6	117891517	117891717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8723.0	NM_001166432	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	46.5	52.0	28.5	312.5	151.0	29.5	44.5	39.5
Merged-chr6-89294819-4	chr6	89294726	89294926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9101.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	125.0	196.5	112.0	1948.0	371.0	126.5	147.5	108.5
Merged-chr18-77704511-4	chr18	77704416	77704616	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178670, intron 1 of 4)	L1MC5|LINE|L1	9494.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	61.5	67.0	36.5	776.0	114.0	49.5	21.5	52.0
Merged-chr1-21271565-3	chr1	21271474	21271674	+	844.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26738.0	NR_002858	241041.0	Mm.290634	NR_002858	ENSMUSG00000025936	Gm4956	EG241041	predicted gene 4956	pseudo	5.5	11.0	38.0	177.5	5.0	5.5	6.5	8.0
Merged-chr11-50238678-4	chr11	50238589	50238789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008521)	promoter-TSS (NM_008521)	-157.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	46.5	60.0	54.5	571.5	81.0	40.0	30.0	23.5
Merged-chr10-23177503-8	chr10	23177346	23177546	+	927.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010167, intron 3 of 18)	intron (NM_010167, intron 3 of 18)	172444.0	NM_001347372	14051.0	Mm.332128	NM_010167	ENSMUSG00000010461	Eya4	B130023L16Rik	EYA transcriptional coactivator and phosphatase 4	protein-coding	6.5	12.5	7.5	167.0	7.0	7.0	7.0	4.5
Merged-chr4-86899398-1	chr4	86899298	86899498	+	794.333313	f0_balb.idr	intron (NM_001290541, intron 3 of 4)	intron (NM_001290541, intron 3 of 4)	24984.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	10.0	10.0	7.0	223.0	8.0	2.0	2.5	7.0
Merged-chr3-133310112-4	chr3	133310038	133310238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146141)	promoter-TSS (NM_146141)	28.0	NM_001293641	74776.0	Mm.210305	NM_146141	ENSMUSG00000028013	Ppa2	1110013G13Rik|Sid6306	pyrophosphatase (inorganic) 2	protein-coding	92.5	135.5	82.5	1336.5	174.5	79.0	104.0	100.0
Merged-chr4-43041414-3	chr4	43041322	43041522	+	883.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	-1121.0	NM_001253354	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	14.0	17.5	10.0	130.5	41.5	8.5	10.0	5.0
Merged-chr1-138124216-3	chr1	138124110	138124310	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111316, intron 2 of 31)	intron (NM_001111316, intron 2 of 31)	50916.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	15.5	4.5	2.5	122.0	18.0	9.0	9.0	6.0
Merged-chr2-75823983-4	chr2	75823876	75824076	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8201.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	18.0	19.0	23.5	196.0	44.5	16.0	18.0	19.0
Merged-chr10-86463945-4	chr10	86463848	86464048	+	783.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013722, intron 2 of 13)	intron (NM_013722, intron 2 of 13)	34948.0	NM_001164495	27204.0	Mm.394931	NM_013722	ENSMUSG00000059602	Syn3	-	synapsin III	protein-coding	21.0	8.0	7.0	201.0	21.0	5.5	7.0	13.0
Merged-chr12-100249349-1	chr12	100249249	100249449	+	541.0	f1_balb.idr	Intergenic	Intergenic	-27260.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	10.0	7.0	6.0	168.5	9.0	9.0	10.5	6.5
Merged-chr5-92491014-4	chr5	92490927	92491127	+	990.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	14630.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	34.5	46.5	48.0	352.5	52.5	24.0	17.0	18.5
Merged-chr4-115838405-4	chr4	115838299	115838499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021461)	promoter-TSS (NM_021461)	-799.0	NM_001285488	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	38.0	27.0	16.5	275.5	97.5	46.0	36.5	47.0
Merged-chr2-58801363-4	chr2	58801253	58801453	+	922.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46169.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	24.0	18.0	21.5	386.5	28.0	14.0	20.5	15.0
Merged-chr2-71055692-4	chr2	71055594	71055794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145524)	promoter-TSS (NM_145524)	-50.0	NM_001165982	75763.0	Mm.281668	NM_198005	ENSMUSG00000041966	Dcaf17	2810055O12Rik|4833418A01Rik|A030004A10Rik|A930009G19Rik|AI448937	DDB1 and CUL4 associated factor 17	protein-coding	182.5	200.0	146.5	2179.5	394.0	135.0	177.5	122.5
Merged-chr4-134102574-4	chr4	134102482	134102682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045571)	promoter-TSS (NR_045571)	-1.0	NR_045571	67586.0	Mm.282029	NM_026257	ENSMUSG00000012126	Ubxn11	4930506L07Rik|D4Bwg1540e|Soc|Soci|Ubxd5	UBX domain protein 11	protein-coding	60.0	116.5	37.0	829.5	149.5	53.0	78.5	68.0
Merged-chr10-96633013-3	chr10	96632950	96633150	+	891.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16049.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	11.5	19.0	4.5	66.0	22.0	7.5	2.0	4.0
Merged-chr1-161969140-4	chr1	161969038	161969238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204905)	promoter-TSS (NM_001204905)	10.0	NM_001204905	75368.0	Mm.108728	NM_001204904	ENSMUSG00000086277	4930558K02Rik	-	RIKEN cDNA 4930558K02 gene	protein-coding	92.5	135.0	94.0	1140.0	194.0	77.5	125.5	89.5
Merged-chr8-94601321-2	chr8	94601238	94601438	+	766.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026274)	promoter-TSS (NM_026274)	388.0	NM_028221	102122.0	Mm.250425	NM_028221	ENSMUSG00000031774	Fam192a	1700001O11Rik|2310065K24Rik|AI596259|Nip30	family with sequence similarity 192, member A	protein-coding	16.5	12.5	11.5	142.5	20.5	4.0	9.5	5.5
Merged-chr4-39276634-2	chr4	39276539	39276739	+	652.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-173654.0	NM_001081095	75471.0	Mm.23522	NM_001081095	ENSMUSG00000028287	1700009N14Rik	AI429145	RIKEN cDNA 1700009N14 gene	protein-coding	2.0	0.5	2.0	0.0	22.5	4.5	15.0	4.5
Merged-chr18-60381917-4	chr18	60381817	60382017	+	847.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021792, intron 2 of 2)	intron (NM_021792, intron 2 of 2)	5888.0	NM_001146275	60440.0	Mm.261140	NM_021792	ENSMUSG00000054072	Iigp1	2900074L10Rik|AI046432|AW111922|Ifgga1|Iigp|Irga6	interferon inducible GTPase 1	protein-coding	16.5	13.0	16.0	137.5	40.0	9.5	18.0	20.0
Merged-chr19-47004267-4	chr19	47004144	47004344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	intron (NM_001164363, intron 1 of 17)	-10454.0	NM_146100	226180.0	Mm.276251	NM_146100	ENSMUSG00000034336	Ina	AV028420|NF-66|NF66	internexin neuronal intermediate filament protein, alpha	protein-coding	26.5	33.5	25.0	436.0	68.5	26.0	19.0	28.0
Merged-chr6-124981984-3	chr6	124981897	124982097	+	869.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-14723.0	NM_175696	319352.0	Mm.295327	NM_175696	ENSMUSG00000030329	Pianp	AI255183|AU067746|C530028O21Rik|Panp	PILR alpha associated neural protein	protein-coding	4.0	12.0	3.0	64.0	15.5	11.5	7.0	9.0
Merged-chr8-79143968-4	chr8	79143863	79144063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	intron (NM_001294279, intron 8 of 14)	104620.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	38.0	59.5	97.0	1692.5	101.5	27.0	44.0	56.0
Merged-chr7-24611326-4	chr7	24611226	24611426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102613)	promoter-TSS (NM_001102613)	-2.0	NM_001102613	232970.0	Mm.333663	NM_001102613	ENSMUSG00000074277	Phldb3	EG232970|Gm10102	pleckstrin homology like domain, family B, member 3	protein-coding	93.5	128.5	69.5	1421.5	214.0	78.5	89.5	77.5
Merged-chr3-54277377-4	chr3	54277281	54277481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 4 of 11)	intron (NM_001253682, intron 4 of 11)	-83726.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	36.5	54.0	40.5	965.0	148.5	40.5	89.5	80.5
Merged-chr13-68582608-1	chr13	68582508	68582708	+	1000.0	f1_balb.idr	promoter-TSS (NR_131892)	promoter-TSS (NR_131892)	398.0	NR_138478	69577.0	Mm.23670	NM_027123	ENSMUSG00000021532	Fastkd3	2310010B21Rik|AW048587	FAST kinase domains 3	protein-coding	8.5	11.5	12.5	256.0	43.0	19.5	13.5	22.5
Merged-chr11-106664657-4	chr11	106664562	106664762	+	912.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 13 of 14)	intron (NM_001305158, intron 13 of 14)	50619.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	34.0	55.5	18.0	93.5	62.0	35.0	15.0	22.0
Merged-chr17-84267916-4	chr17	84267799	84267999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 30 of 37)	L1M3|LINE|L1	-79952.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	24.5	17.5	28.5	432.0	62.5	16.5	24.0	20.0
Merged-chr1-52307216-3	chr1	52307099	52307299	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73967.0	NM_001113383	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	140.0	208.5	173.0	2150.5	17.0	10.0	6.5	6.5
Merged-chr15-36967337-4	chr15	36967186	36967386	+	639.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40116.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	8.0	13.0	5.0	166.0	13.0	9.5	8.5	13.5
Merged-chr2-170121441-3	chr2	170121345	170121545	+	891.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159683, intron 2 of 6)	intron (NM_001159683, intron 2 of 6)	9775.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	10.5	11.0	10.5	152.5	11.5	5.0	7.0	8.5
Merged-chr13-100402041-3	chr13	100401936	100402136	+	797.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	50828.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	7.0	35.0	7.0	56.0	29.5	16.5	7.0	1.0
Merged-chr8-80272094-4	chr8	80271981	80272181	+	982.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-214073.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	22.5	33.0	45.5	560.5	59.0	15.0	40.0	21.0
Merged-chr1-171260624-2	chr1	171260536	171260736	+	798.5	f0_c57.idr|f1_c57bl6.idr	3' UTR (NM_172845, exon 9 of 9)	3' UTR (NM_172845, exon 9 of 9)	-9692.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	1.0	0.0	0.5	0.0	42.0	16.0	12.0	22.5
Merged-chr5-3212952-3	chr5	3212859	3213059	+	641.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130934.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	15.0	7.5	7.5	144.0	4.0	3.0	3.5	4.5
Merged-chr9-107709950-4	chr9	107709840	107710040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011349, intron 1 of 17)	CpG	535.0	NM_011349	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	36.5	31.0	30.5	428.5	68.5	30.5	29.5	35.0
Merged-chr12-84389098-4	chr12	84389017	84389217	+	961.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001026214, intron 6 of 15)	intron (NM_001026214, intron 6 of 15)	11817.0	NM_001286058	12499.0	Mm.10211	NM_007647	ENSMUSG00000021236	Entpd5	AI196558|AI987697|Cd39l4|ER-UDPase|NTPDase-5|NTPDase5|Pcph|mNTPase	ectonucleoside triphosphate diphosphohydrolase 5	protein-coding	26.5	29.5	27.0	216.0	40.5	16.5	10.5	15.0
Merged-chr2-52038034-4	chr2	52037952	52038152	+	977.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009398)	promoter-TSS (NM_009398)	-61.0	NM_009398	21930.0	Mm.3509	NM_009398	ENSMUSG00000053475	Tnfaip6	TSG-6|Tnfip6|Tsg6	tumor necrosis factor alpha induced protein 6	protein-coding	21.0	43.0	43.5	466.5	61.0	12.0	25.5	39.0
Merged-chr12-40548020-4	chr12	40547914	40548114	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	101961.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	6.5	21.5	12.0	94.0	38.0	13.0	15.5	12.5
Merged-chr9-123924247-4	chr9	123924158	123924358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44434.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	71.5	116.5	47.0	894.5	283.5	78.5	83.5	93.0
Merged-chr17-34592164-4	chr17	34592047	34592247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017463)	promoter-TSS (NM_017463)	-324.0	NM_017463	18515.0	Mm.390957	NM_017463	ENSMUSG00000034673	Pbx2	AU043397|G17	pre B cell leukemia homeobox 2	protein-coding	26.5	20.0	12.0	352.0	61.0	27.0	22.0	20.5
Merged-chr3-86842843-2	chr3	86842775	86842975	+	743.875	f0_balb.idr|f1_balb.idr	intron (NM_001195500, intron 2 of 11)	RLTR41A2|LTR|ERV1	78009.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	12.0	17.0	7.5	83.0	6.5	2.5	5.0	0.5
Merged-chr19-29403151-4	chr19	29403061	29403261	+	815.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7758.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	6.5	15.0	16.5	109.5	16.0	9.0	12.0	12.5
Merged-chr8-120821573-4	chr8	120821445	120821645	+	792.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82906.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	9.5	10.0	10.0	106.0	18.5	11.0	9.0	9.5
Merged-chr10-118818146-4	chr10	118818054	118818254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50749.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	145.0	250.0	150.5	1796.5	420.0	191.0	165.5	117.5
Merged-chr3-158061715-4	chr3	158061645	158061845	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359763, intron 11 of 13)	intron (NM_001359763, intron 11 of 13)	25063.0	NM_001289524	67144.0	Mm.358704	NM_024194	ENSMUSG00000063052	Lrrc40	2610040E16Rik|AI837674	leucine rich repeat containing 40	protein-coding	20.0	24.5	16.0	316.5	62.5	17.0	29.0	20.0
Merged-chr13-112386717-4	chr13	112386602	112386802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77368.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	26.0	31.0	17.5	281.5	95.0	30.0	27.0	20.0
Merged-chr8-40926197-4	chr8	40926083	40926283	+	872.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026840)	promoter-TSS (NM_026840)	-50.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	14.5	11.0	14.5	170.0	24.0	10.0	18.0	16.0
Merged-chr1-34459712-4	chr1	34459617	34459817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011206)	promoter-TSS (NM_011206)	-29.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	59.5	49.5	35.0	832.5	96.5	39.0	44.5	36.5
Merged-chr10-111134806-3	chr10	111134704	111134904	+	978.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D11|SINE|Alu	-29998.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	9.5	20.0	20.5	406.5	35.0	11.5	6.5	7.5
Merged-chr6-34910823-6	chr6	34910635	34910835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013366)	promoter-TSS (NM_001013366)	96.0	NM_001013366	101240.0	Mm.152120	NM_001013366	ENSMUSG00000058486	Wdr91	9530020G05Rik|AI987683|AU018665	WD repeat domain 91	protein-coding	68.0	182.5	135.5	1323.5	188.0	90.5	77.5	87.5
Merged-chr18-9491286-4	chr18	9491241	9491441	+	970.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41187.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	26.5	10.0	23.0	439.0	41.0	12.0	7.0	13.0
Merged-chr15-76780976-4	chr15	76780871	76781071	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	37199.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	25.0	26.0	28.5	704.0	11.0	7.5	9.5	18.0
Merged-chr7-80781729-3	chr7	80781671	80781871	+	776.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	21560.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	5.0	8.5	8.5	50.0	11.0	3.5	0.5	6.5
Merged-chr3-9038528-4	chr3	9038427	9038627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23437.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	54.5	63.5	38.5	654.0	123.0	54.0	101.5	69.0
Merged-chr2-91204846-4	chr2	91204739	91204939	+	918.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357067, intron 3 of 10)	intron (NM_001357067, intron 3 of 10)	1927.0	NM_007387	11432.0	Mm.45570	NM_007387	ENSMUSG00000002103	Acp2	Acp-2|LAP	acid phosphatase 2, lysosomal	protein-coding	10.5	19.0	14.0	194.5	32.0	8.5	20.5	8.0
Merged-chr3-116638525-1	chr3	116638425	116638625	+	795.0	f0_c57.idr	intron (NM_008246, intron 8 of 11)	intron (NM_008246, intron 8 of 11)	-23938.0	NM_030016	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	4.5	10.0	3.5	62.0	19.0	11.5	17.5	14.5
Merged-chr14-25473704-3	chr14	25473648	25473848	+	969.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	14563.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	11.5	17.0	7.0	168.0	23.5	6.5	8.5	6.0
Merged-chr11-59184047-1	chr11	59183947	59184147	+	941.0	f1_c57bl6.idr	promoter-TSS (NM_080454)	promoter-TSS (NM_080454)	-834.0	NM_080454	118454.0	Mm.40016	NM_080454	ENSMUSG00000043448	Gjc2	B230382L12Rik|Cx47|Gja12	gap junction protein, gamma 2	protein-coding	8.0	12.5	5.0	55.5	10.0	9.0	2.0	8.5
Merged-chr7-80324377-4	chr7	80324259	80324459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173445)	promoter-TSS (NM_173445)	95.0	NM_173445	269955.0	Mm.474502	NM_173445	ENSMUSG00000038930	Rccd1	5830436H09|E430018M08Rik	RCC1 domain containing 1	protein-coding	90.0	146.0	118.0	743.5	176.5	88.0	81.0	100.5
Merged-chr19-32804923-4	chr19	32804829	32805029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 5 of 8)	intron (NM_008960, intron 5 of 8)	47352.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	72.0	90.5	51.5	771.0	95.0	44.0	29.0	23.5
Merged-chr11-32532844-3	chr11	32532747	32532947	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359177)	promoter-TSS (NM_001359177)	-419.0	NM_001359178	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	83.5	128.0	39.5	619.5	135.5	59.0	50.5	37.5
Merged-chr6-22474812-4	chr6	22474698	22474898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118717.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	60.0	60.0	62.0	1027.5	148.5	49.5	62.5	40.0
Merged-chr2-29678744-4	chr2	29678635	29678835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	59015.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	35.5	78.5	40.0	402.5	116.5	26.5	38.0	39.0
Merged-chr4-149843093-4	chr4	149843008	149843208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	-68841.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	61.0	70.5	57.0	898.5	112.0	51.5	69.0	52.0
Merged-chr6-116265790-4	chr6	116265687	116265887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290339)	promoter-TSS (NM_001290339)	-745.0	NM_001290339	67492.0	Mm.272772	NM_001081317	ENSMUSG00000042213	Zfand4	Anubl1	zinc finger, AN1-type domain 4	protein-coding	42.5	36.0	21.0	324.5	69.5	23.5	29.5	27.5
Merged-chr12-71006282-4	chr12	71006167	71006367	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045055, intron 3 of 3)	intron (NR_045055, intron 3 of 3)	9556.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	13.5	26.0	33.5	247.5	34.5	10.5	10.5	22.5
Merged-chr5-92438333-3	chr5	92438228	92438428	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-3129.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	5.5	4.5	7.5	30.0	9.0	12.0	2.5	4.0
Merged-chr14-61680944-2	chr14	61680844	61681044	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	1429.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	80.5	160.5	73.0	707.0	199.5	94.0	54.0	79.0
Merged-chr13-95951245-4	chr13	95951150	95951350	+	963.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59328.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	15.0	7.0	18.0	249.0	39.5	14.0	21.0	13.0
Merged-chr9-108649396-4	chr9	108649292	108649492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011790)	promoter-TSS (NM_011790)	16.0	NM_011790	23807.0	Mm.290447	NM_011790	ENSMUSG00000064145	Arih2	AI843547|ARI2|TRIAD1|UIP48	ariadne RBR E3 ubiquitin protein ligase 2	protein-coding	129.0	247.0	131.0	1410.0	382.0	141.0	190.0	183.0
Merged-chr10-69185568-4	chr10	69185451	69185651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23001.0	NM_001252636	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	49.5	94.0	61.5	802.5	123.0	56.0	52.5	61.5
Merged-chr6-29621438-3	chr6	29621336	29621536	+	950.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11587.0	NM_001347079	320938.0	Mm.276381	NM_177296	ENSMUSG00000012535	Tnpo3	5730544L10Rik|C430013M08Rik|C81142|D6Ertd313e|Trn-SR|mKIAA4133	transportin 3	protein-coding	6.5	15.5	23.0	138.5	18.5	4.5	8.0	4.5
Merged-chr12-81907772-3	chr12	81907651	81907851	+	834.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 3 of 35)	intron (NM_018814, intron 3 of 35)	47721.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	13.0	20.0	12.5	160.5	15.0	4.0	2.0	4.5
Merged-chr17-65641916-3	chr17	65641814	65642014	+	865.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146002, intron 1 of 2)	intron (NM_001146002, intron 1 of 2)	290.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	8.0	10.5	11.0	143.5	27.5	5.5	7.5	6.5
Merged-chr18-44827860-3	chr18	44827750	44827950	+	994.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163013)	promoter-TSS (NM_001163013)	-815.0	NM_001163013	240255.0	Mm.244482	NM_001163013	ENSMUSG00000034653	Ythdc2	3010002F02Rik|BC037178	YTH domain containing 2	protein-coding	4.5	0.0	6.5	26.5	77.0	32.5	24.0	21.0
Merged-chr10-80939879-4	chr10	80939783	80939983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9792.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	86.0	153.0	89.0	670.5	259.0	80.5	112.0	61.0
Merged-chr3-87364815-4	chr3	87364710	87364910	+	856.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 2 of 5)	intron (NM_009690, intron 2 of 5)	6929.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	7.5	10.0	20.5	113.5	28.5	6.5	13.5	22.0
Merged-chr14-55788886-4	chr14	55788804	55789004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019955)	promoter-TSS (NM_019955)	-47.0	NM_001164108	56532.0	Mm.46612	NM_019955	ENSMUSG00000022221	Ripk3	2610528K09Rik|AW107945|Rip3	receptor-interacting serine-threonine kinase 3	protein-coding	61.5	99.0	39.0	739.5	109.0	51.0	38.5	39.0
Merged-chr4-133854931-3	chr4	133854815	133855015	+	890.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009097, intron 17 of 21)	intron (NM_009097, intron 17 of 21)	19816.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	8.0	19.0	9.5	136.5	5.0	4.0	2.0	2.0
Merged-chr8-106561275-4	chr8	106561171	106561371	+	837.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25872.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	15.0	14.5	7.5	118.0	28.0	3.5	13.5	10.5
Merged-chr11-75336876-2	chr11	75336776	75336976	+	803.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_026653, intron 4 of 16)	MTEa|LTR|ERVL-MaLR	11507.0	NM_001164223	68275.0	Mm.102574	NM_026653	ENSMUSG00000000751	Rpa1	5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa	replication protein A1	protein-coding	3.0	6.5	6.5	48.5	10.0	9.0	13.0	14.0
Merged-chr13-9878112-4	chr13	9878016	9878216	+	988.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033269, exon 5 of 5)	exon (NM_033269, exon 5 of 5)	-112795.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	18.0	18.5	22.0	448.0	60.5	12.5	50.5	27.0
Merged-chr3-90220374-3	chr3	90220250	90220450	+	681.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026677)	promoter-TSS (NM_026677)	-434.0	NM_026677	68328.0	Mm.29355	NM_026677	ENSMUSG00000027935	Rab13	0610007N03Rik|B230212B15Rik	RAB13, member RAS oncogene family	protein-coding	6.0	8.5	2.0	60.0	21.5	8.5	9.0	8.0
Merged-chr7-116093238-4	chr7	116093140	116093340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019772)	promoter-TSS (NM_019772)	-91.0	NR_029433	69350.0	Mm.440425	NR_029433	ENSMUSG00000087621	1700003G18Rik	2610312K03Rik	RIKEN cDNA 1700003G18 gene	ncRNA	248.5	392.0	241.0	4106.5	625.5	222.0	302.5	270.5
Merged-chr2-77276317-4	chr2	77276226	77276426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 1 of 17)	intron (NM_175465, intron 1 of 17)	4266.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	39.5	69.5	39.5	663.0	83.5	30.0	25.5	25.5
Merged-chr10-127030839-4	chr10	127030742	127030942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025537)	promoter-TSS (NM_025537)	-28.0	NM_025537	66399.0	Mm.29900	NM_025537	ENSMUSG00000040521	Tsfm	2310050B20Rik|9430024O13Rik|EF-TS|EF-Tsmt	Ts translation elongation factor, mitochondrial	protein-coding	46.0	60.5	27.0	477.5	112.5	43.5	41.5	36.5
Merged-chr17-32810868-4	chr17	32810766	32810966	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267583)	promoter-TSS (NM_001267583)	-935.0	NM_183177	240063.0	Mm.30675	NM_183177	ENSMUSG00000055202	Zfp811	BC052046	zinc finger protein 811	protein-coding	2.0	37.0	16.0	57.5	63.5	23.0	27.5	24.0
Merged-chr14-25855451-4	chr14	25855445	25855645	+	886.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013469, intron 1 of 14)	intron (NM_013469, intron 1 of 14)	13390.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	2.0	7.5	4.5	124.0	22.5	6.5	5.5	5.0
Merged-chr6-24664281-4	chr6	24664181	24664381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028459, intron 1 of 10)	intron (NM_028459, intron 1 of 10)	714.0	NM_001167745	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	54.5	89.0	87.0	801.5	157.5	60.0	56.5	45.5
Merged-chr11-81996354-4	chr11	81996244	81996444	+	809.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27948.0	NM_001034013	11418.0	Mm.234998	NM_007384	ENSMUSG00000020704	Asic2	ACIC2|Accn1|BNC1|BNaC1|BNaC1a|Mdeg	acid-sensing (proton-gated) ion channel 2	protein-coding	11.5	17.0	8.5	73.5	25.0	18.5	14.0	10.0
Merged-chr17-50510656-6	chr17	50510636	50510836	+	978.8412480000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	1189.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	12.5	42.5	12.0	96.0	37.5	22.5	8.5	14.5
Merged-chr13-98890998-4	chr13	98890886	98891086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048267)	promoter-TSS (NM_001048267)	56.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	23.0	84.0	44.5	582.5	67.5	32.0	31.5	32.0
Merged-chr7-81211910-1	chr7	81211810	81212010	+	543.0	f0_balb.idr	Intergenic	Intergenic	-1894.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	7.0	5.5	7.5	65.5	10.0	0.0	5.5	3.5
Merged-chr5-121399735-2	chr5	121399628	121399828	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172722, intron 1 of 23)	B1F2|SINE|Alu	1746.0	NM_172722	231713.0	Mm.33919	NM_172722	ENSMUSG00000042719	Naa25	4833422K13Rik|A630046C11|AI450868|C330023M02Rik|Mdm20	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	protein-coding	5.0	9.5	7.0	71.5	30.5	3.5	6.0	10.5
Merged-chr12-83928047-4	chr12	83927960	83928160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6126.0	NR_073564	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	37.0	81.5	48.0	494.0	132.0	45.0	58.0	42.0
Merged-chr7-126721821-4	chr7	126721660	126721860	+	979.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-16944.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	10.0	14.0	21.5	202.5	27.5	9.5	16.5	16.5
Merged-chr14-70781316-4	chr14	70781212	70781412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6931.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	140.5	176.5	142.5	1908.0	368.5	128.0	159.5	134.0
Merged-chr9-64252904-3	chr9	64252879	64253079	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008927, intron 1 of 10)	intron (NM_008927, intron 1 of 10)	626.0	NM_008927	26395.0	Mm.248907	NM_008927	ENSMUSG00000004936	Map2k1	MAPKK1|MEKK1|Mek1|Prkmk1	mitogen-activated protein kinase kinase 1	protein-coding	13.0	12.0	5.5	56.5	44.0	15.0	9.0	26.5
Merged-chr12-100740447-4	chr12	100740350	100740550	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15330.0	NM_153587	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	25.5	25.5	34.5	651.5	59.0	18.0	15.0	30.0
Merged-chr11-22850442-6	chr11	22850420	22850620	+	881.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	9215.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	7.5	6.0	5.0	55.5	8.5	1.0	2.5	6.5
Merged-chr3-83875274-4	chr3	83875191	83875391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERVK9C_I-int|LTR|ERVK	-33683.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	41.5	95.5	30.5	402.0	130.0	49.0	61.5	46.0
Merged-chr9-21161498-4	chr9	21161416	21161616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4198.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	114.0	178.0	105.5	1018.5	412.0	146.0	94.0	115.5
Merged-chr15-85811693-4	chr15	85811590	85811790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164625)	promoter-TSS (NM_001164625)	7.0	NM_001164626	72355.0	Mm.33706	NM_197998	ENSMUSG00000064284	Cdpf1	2210021J22Rik	cysteine rich, DPF motif domain containing 1	protein-coding	141.5	188.5	83.0	1711.0	270.5	122.0	135.0	119.5
Merged-chr3-21963210-3	chr3	21963122	21963322	+	930.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113430.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	8.5	8.0	10.5	139.0	11.0	2.5	8.0	3.5
Merged-chr7-92637132-4	chr7	92637054	92637254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028665)	promoter-TSS (NM_028665)	-12.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	103.5	140.0	74.5	1517.0	315.5	80.5	125.5	89.0
Merged-chr16-21423156-4	chr16	21423056	21423256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285894)	promoter-TSS (NM_001285894)	38.0	NM_001285894	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	109.5	126.5	63.0	1216.0	228.5	100.5	101.0	92.5
Merged-chr1-184845924-4	chr1	184845807	184846007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133684)	promoter-TSS (NM_133684)	-60.0	NM_133684	67247.0	Mm.177724	NM_133684	ENSMUSG00000073481	Marc2	2810484M10Rik|Mosc2|mARC1	mitochondrial amidoxime reducing component 2	protein-coding	192.0	307.5	191.0	3596.5	476.0	184.0	227.0	189.0
Merged-chr3-95694040-4	chr3	95693958	95694158	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6141.0	NM_001301705	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	25.5	31.5	16.5	278.0	26.5	15.5	21.5	18.5
Merged-chr17-31118261-3	chr17	31118130	31118330	+	860.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009593)	TTS (NM_009593)	11381.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	9.0	5.0	11.5	84.0	15.0	2.0	2.5	7.5
Merged-chr7-16207238-3	chr7	16207052	16207252	+	996.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027883, intron 7 of 16)	intron (NM_027883, intron 7 of 16)	14841.0	NM_001285931	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	4.0	2.5	3.0	118.0	45.5	20.0	14.5	21.5
Merged-chr5-136244944-4	chr5	136244850	136245050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302939)	promoter-TSS (NM_001302939)	-10.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	62.5	120.5	73.5	882.5	250.0	101.5	100.0	88.5
Merged-chr14-71218807-3	chr14	71218704	71218904	+	726.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	-32469.0	NR_046075	100043132.0	Mm.399336	NR_046075	ENSMUSG00000115139	Gm4251	-	predicted gene 4251	ncRNA	25.0	37.0	12.5	109.5	1.0	0.0	0.0	1.5
Merged-chr5-21692519-4	chr5	21692424	21692624	+	896.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359965, intron 1 of 4)	intron (NM_001359965, intron 1 of 4)	8872.0	NM_001359964	242864.0	Mm.153292	NM_178728	ENSMUSG00000044968	Napepld	A530089G06|Mbldc1|NAPE-PLD	N-acyl phosphatidylethanolamine phospholipase D	protein-coding	5.0	15.0	8.5	123.5	31.0	14.0	22.0	19.0
Merged-chr11-121734414-4	chr11	121734301	121734501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	31974.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	85.0	122.0	57.0	740.0	161.5	93.0	93.0	108.0
Merged-chr2-119189501-4	chr2	119189382	119189582	+	673.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139139, intron 1 of 10)	intron (NM_139139, intron 1 of 10)	14973.0	NM_001039223	623781.0	Mm.389344	NM_001039223	ENSMUSG00000055926	Gm14137	-	predicted gene 14137	protein-coding	7.0	12.0	4.5	92.0	18.0	5.5	10.0	5.0
Merged-chr14-25413744-4	chr14	25413655	25413855	+	905.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45430.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	14.5	19.0	23.5	190.5	9.5	13.5	13.0	6.5
Merged-chr15-6415543-3	chr15	6415463	6415663	+	702.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	28815.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	7.0	12.5	4.5	136.5	14.5	5.0	4.5	2.0
Merged-chr7-141464009-3	chr7	141463915	141464115	+	996.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152220)	promoter-TSS (NR_152220)	-111.0	NR_152220	100126795.0	Mm.386851	NR_152219	ENSMUSG00000073787	Gm10575	-	predicted gene 10575	ncRNA	17.5	13.5	19.0	330.0	28.5	7.0	8.5	9.5
Merged-chr1-131200214-4	chr1	131200109	131200309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311094)	promoter-TSS (NM_001311094)	-24.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	160.0	262.0	127.0	2246.0	412.5	100.0	205.0	158.5
Merged-chr7-105642040-3	chr7	105641820	105642020	+	745.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360053)	TTS (NM_001360053)	1475.0	NM_001360054	14356.0	Mm.220330	NM_019502	ENSMUSG00000089847	Timm10b	Fxc1|Tim10b|Tim9b	translocase of inner mitochondrial membrane 10B	protein-coding	1.0	3.5	3.5	25.5	7.5	7.0	8.0	12.5
Merged-chr17-56935584-4	chr17	56935492	56935692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022328)	promoter-TSS (NM_022328)	-204.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	197.5	274.5	171.5	2516.5	445.5	223.0	222.0	178.0
Merged-chr13-10253241-4	chr13	10253157	10253357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 1 of 4)	intron (NM_033269, intron 1 of 4)	107546.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	43.0	86.0	88.0	1588.5	148.5	60.5	82.5	97.0
Merged-chr9-121249944-4	chr9	121249861	121250061	+	969.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177589, intron 15 of 36)	intron (NM_177589, intron 15 of 36)	27211.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	15.0	14.5	16.0	236.5	63.0	20.5	35.0	25.5
Merged-chr15-77956763-4	chr15	77956654	77956854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168260)	promoter-TSS (NM_001168260)	-32.0	NM_001017983	239554.0	Mm.295605	NM_001017983	ENSMUSG00000016552	Foxred2	A430097D04Rik|D15Bwg0759e|Gm304	FAD-dependent oxidoreductase domain containing 2	protein-coding	31.0	83.5	34.5	737.5	129.0	33.5	55.5	37.5
Merged-chr5-135009885-5	chr5	135009764	135009964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033794, exon 1 of 5)	non-coding (NR_033794, exon 1 of 5)	408.0	NR_033794	68758.0	Mm.389700	NM_145215	ENSMUSG00000040532	Abhd11	1110054D16Rik|A630008N09Rik|Wbscr21	abhydrolase domain containing 11	protein-coding	43.0	74.0	83.5	690.0	136.0	52.0	67.5	73.0
Merged-chr2-150859879-4	chr2	150859770	150859970	+	879.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	intron (NR_151505, intron 1 of 12)	-17300.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	4.5	16.0	12.0	278.5	27.0	14.0	13.5	14.0
Merged-chr17-34639757-4	chr17	34639668	34639868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5115.0	NM_019873	56299.0	Mm.10025	NM_019873	ENSMUSG00000033739	Fkbpl	DIR1|NG7|Ppiase-X|Wisp39	FK506 binding protein-like	protein-coding	75.5	121.0	91.5	695.0	192.0	74.0	61.0	57.5
Merged-chr6-72107149-4	chr6	72107050	72107250	+	905.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	9542.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	10.0	28.0	19.0	344.5	25.5	9.0	8.0	18.0
Merged-chr12-79843304-2	chr12	79843204	79843404	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81429.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	4.0	6.0	6.5	102.0	14.5	10.5	8.0	8.0
Merged-chr1-95597019-4	chr1	95596916	95597116	+	847.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	Lx8b|LINE|L1	70578.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	13.5	9.5	6.0	240.5	21.5	10.0	4.5	8.0
Merged-chr13-67797741-2	chr13	67797645	67797845	+	765.833374	f0_c57.idr|f1_c57bl6.idr	intron (NR_045194, intron 2 of 2)	intron (NR_045194, intron 2 of 2)	-16071.0	NM_198322	212569.0	Mm.358842	NM_198322	ENSMUSG00000030446	Zfp273	6820416H06Rik|Rslcan1	zinc finger protein 273	protein-coding	1.0	0.0	1.0	19.0	41.0	9.5	18.5	15.0
Merged-chr2-120464935-3	chr2	120464822	120465022	+	936.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040608, intron 1 of 4)	ID4_|SINE|ID	1329.0	NM_007601	12335.0	Mm.458021	NM_007601	ENSMUSG00000079110	Capn3	AI323605|Capa-3|Capa3|Lp82|p94	calpain 3	protein-coding	14.0	17.5	19.5	352.5	6.0	10.5	10.5	6.0
Merged-chr1-59475789-4	chr1	59475679	59475879	+	915.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6368.0	NM_008057	14369.0	Mm.297906	NM_008057	ENSMUSG00000041075	Fzd7	Fz7	frizzled class receptor 7	protein-coding	22.0	15.0	8.0	274.0	60.0	11.5	15.5	12.5
Merged-chr16-55819025-3	chr16	55818905	55819105	+	723.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159394, exon 3 of 12)	exon (NM_001159394, exon 3 of 12)	3133.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	12.0	5.5	6.5	81.0	14.5	4.5	3.5	4.5
Merged-chr6-115662366-4	chr6	115662281	115662481	+	687.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029780, intron 1 of 16)	B1_Mur1|SINE|Alu	13507.0	NM_001356334	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	8.5	9.5	4.5	93.0	24.5	8.0	8.0	8.5
Merged-chr10-21712062-4	chr10	21711947	21712147	+	804.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21202.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	5.5	9.5	6.5	109.0	17.5	3.5	11.0	3.5
Merged-chr5-142895291-4	chr5	142895174	142895374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033312)	promoter-TSS (NM_001033312)	-36.0	NM_001033312	231863.0	Mm.89753	NM_001033312	ENSMUSG00000066640	Fbxl18	AI427077|B130019G13Rik|C330021B20Rik	F-box and leucine-rich repeat protein 18	protein-coding	70.0	98.5	31.5	728.5	134.0	46.0	44.0	38.0
Merged-chr9-55589240-1	chr9	55589140	55589340	+	582.0	f0_balb.idr	intron (NM_001357652, intron 28 of 32)	intron (NM_001357652, intron 28 of 32)	-32460.0	NM_001357653	244891.0	Mm.86588	NM_175536	ENSMUSG00000034007	Scaper	C430017I08|D530014O03Rik|Zfp291	S phase cyclin A-associated protein in the ER	protein-coding	5.0	9.0	6.0	100.0	0.0	5.0	2.5	4.0
Merged-chr15-83130056-3	chr15	83129961	83130161	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 6 of 7)	intron (NM_001347082, intron 6 of 7)	-7260.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	10.0	40.0	18.0	275.0	54.5	22.5	22.0	26.0
Merged-chr1-92895265-3	chr1	92895172	92895372	+	866.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347091, intron 4 of 17)	intron (NM_001347091, intron 4 of 17)	7634.0	NM_172850	241158.0	Mm.108280	NM_172850	ENSMUSG00000034212	Ankmy1	4930483I10Rik|ZMYND13	ankyrin repeat and MYND domain containing 1	protein-coding	16.5	6.0	3.5	90.0	20.5	6.0	15.0	6.0
Merged-chr4-133553189-4	chr4	133552991	133553191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011850)	promoter-TSS (NM_011850)	-285.0	NM_011850	23957.0	Mm.346759	NM_011850	ENSMUSG00000037583	Nr0b2	SHP|SHP-1|Shp1	nuclear receptor subfamily 0, group B, member 2	protein-coding	12.5	4.5	4.5	101.5	20.0	7.5	12.5	7.5
Merged-chr13-88459038-4	chr13	88458949	88459149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-362423.0	NM_010103	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	26.0	40.0	46.0	559.5	84.0	20.5	52.0	43.0
Merged-chr3-21808771-4	chr3	21808659	21808859	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-267893.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	40.5	88.0	55.0	703.5	82.5	31.0	30.0	17.0
Merged-chr14-75178838-7	chr14	75178680	75178880	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	42355.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	18.5	21.0	19.5	139.0	48.5	24.0	29.5	10.5
Merged-chr5-143679779-4	chr5	143679684	143679884	+	873.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163548, intron 1 of 12)	intron (NM_001163548, intron 1 of 12)	28543.0	NM_001163548	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	21.0	18.0	14.5	255.0	26.0	4.5	11.0	12.0
Merged-chr8-24420553-4	chr8	24420454	24420654	+	821.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18392.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	10.0	17.5	10.0	163.0	20.0	9.5	6.5	15.0
Merged-chr17-29318766-3	chr17	29318669	29318869	+	986.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023734)	promoter-TSS (NM_023734)	-113.0	NM_023734	74116.0	Mm.30950	NM_023734	ENSMUSG00000024011	Pi16	1200009H11Rik|Cripi|PI-16	peptidase inhibitor 16	protein-coding	23.0	22.0	10.0	287.0	10.5	7.5	6.5	15.5
Merged-chr4-99194148-4	chr4	99194020	99194220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145967)	promoter-TSS (NM_001145967)	-27.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	75.0	57.5	60.5	799.0	138.5	68.5	60.5	76.0
Merged-chr6-67036596-4	chr6	67036490	67036690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040278)	promoter-TSS (NR_040278)	-9.0	NR_040278	320172.0	Mm.449039	NR_040278	ENSMUSG00000087231	E230016M11Rik	-	RIKEN cDNA E230016M11 gene	ncRNA	40.5	69.0	54.5	802.5	110.0	46.5	69.0	51.5
Merged-chr2-10374128-3	chr2	10374014	10374214	+	812.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177386, intron 1 of 22)	CpG	1678.0	NM_177386	353282.0	Mm.329991	NM_177386	ENSMUSG00000061186	Sfmbt2	D2Wsu23e|D330030P06Rik	Scm-like with four mbt domains 2	protein-coding	10.5	5.5	5.5	72.0	9.5	4.0	5.0	12.5
Merged-chr17-84342579-4	chr17	84342501	84342701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	LTR40b|LTR|ERVL	123607.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	37.0	39.5	41.5	783.5	71.5	17.0	43.0	33.5
Merged-chr17-72944138-4	chr17	72944022	72944222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	25817.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	15.5	11.0	28.0	361.0	46.5	3.0	9.0	13.5
Merged-chr3-81046700-3	chr3	81046600	81046800	+	975.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	10284.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	29.5	14.5	24.0	499.0	17.5	7.5	8.0	26.0
Merged-chr4-86666041-7	chr4	86665967	86666167	+	830.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007408, intron 3 of 7)	MTC|LTR|ERVL-MaLR	3992.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	6.5	9.5	9.0	139.5	8.5	3.0	10.0	16.0
Merged-chr3-15959086-3	chr3	15958992	15959192	+	799.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081687, intron 3 of 3)	intron (NM_001081687, intron 3 of 3)	47240.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	15.0	15.5	18.0	311.0	3.5	0.5	0.5	1.0
Merged-chr2-84670035-2	chr2	84669935	84670135	+	673.333374	f1_balb.idr|f1_c57bl6.idr	exon (NM_001037279, exon 3 of 4)	exon (NM_001037279, exon 3 of 4)	673.0	NM_001033166	72657.0	Mm.259293	NM_001033166	ENSMUSG00000076437	Selenoh	2700094K13Rik|Selh	selenoprotein H	protein-coding	3.0	1.0	3.5	46.0	12.0	5.5	8.0	16.5
Merged-chr14-46981291-4	chr14	46981176	46981376	+	731.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	-20064.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	23.0	18.0	14.0	178.0	37.0	13.5	25.5	13.5
Merged-chr12-3686670-4	chr12	3686548	3686748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 8 of 17)	intron (NM_001162465, intron 8 of 17)	113664.0	NM_007886	13528.0	Mm.286202	NM_007886	ENSMUSG00000071454	Dtnb	-	dystrobrevin, beta	protein-coding	40.0	95.0	73.5	949.0	113.5	44.0	58.0	48.0
Merged-chr15-38371868-4	chr15	38371779	38371979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71168.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	117.5	200.0	140.0	1545.0	246.5	86.5	113.0	98.5
Merged-chr10-21961134-4	chr10	21961019	21961219	+	941.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 2 of 13)	intron (NM_001161845, intron 2 of 13)	-17553.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	65.0	73.0	50.0	682.5	56.0	13.5	21.5	13.5
Merged-chr7-64349853-3	chr7	64349762	64349962	+	940.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177893, intron 11 of 13)	intron (NM_177893, intron 11 of 13)	24233.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	12.5	13.5	31.0	600.5	12.5	6.5	17.5	7.5
Merged-chr16-37854788-4	chr16	37854687	37854887	+	706.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	5S|rRNA|rRNA	-13613.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	5.0	5.0	3.5	66.5	18.5	6.0	11.0	11.0
Merged-chr2-3512931-4	chr2	3512851	3513051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177647)	promoter-TSS (NM_177647)	-114.0	NM_177647	227526.0	Mm.211455	NM_177647	ENSMUSG00000039496	Cdnf	9330140G23|Armetl1	cerebral dopamine neurotrophic factor	protein-coding	416.0	701.5	378.0	5893.5	931.5	425.0	466.5	358.5
Merged-chr2-170511322-5	chr2	170511281	170511481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040367, exon 1 of 3)	non-coding (NR_040367, exon 1 of 3)	151.0	NM_001199902	109054.0	Mm.28808	NM_001013369	ENSMUSG00000052033	Pfdn4	0610025M10Rik|1810063B06Rik|C-1|C1|Pfd4	prefoldin 4	protein-coding	25.5	28.5	38.5	266.5	64.0	40.5	21.5	31.0
Merged-chr16-45024111-4	chr16	45024003	45024203	+	955.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69908.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	11.0	33.5	8.5	273.0	47.0	25.0	27.5	29.0
Merged-chr2-157081987-6	chr2	157081848	157082048	+	954.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2683.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	15.5	20.5	21.0	358.5	38.0	10.5	12.0	12.0
Merged-chr18-75473425-4	chr18	75473337	75473537	+	878.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 9 of 11)	L1MB2|LINE|L1	-41208.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	10.0	18.5	14.5	323.5	25.5	5.5	10.5	14.0
Merged-chr17-75119652-4	chr17	75119547	75119747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019919, intron 3 of 33)	intron (NM_019919, intron 3 of 33)	-59134.0	NM_001331236	268977.0	Mm.269747	NM_019919	ENSMUSG00000001870	Ltbp1	9430031G15Rik|9830146M04|Ltbp-1|Ltbp1L|TGF-beta1-BP-1|Tgfb|b2b1000Clo	latent transforming growth factor beta binding protein 1	protein-coding	43.5	81.0	49.5	967.0	171.0	56.0	77.5	70.5
Merged-chr16-91002369-4	chr16	91002251	91002451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045515, intron 2 of 32)	intron (NM_001045515, intron 2 of 32)	8744.0	NM_001045515	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	55.0	52.0	42.5	583.5	64.5	24.0	32.5	46.0
Merged-chr11-93968416-4	chr11	93968334	93968534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008704)	promoter-TSS (NM_008704)	87.0	NM_008704	18102.0	Mm.439702	NM_008704	ENSMUSG00000037601	Nme1	AL024257|NDPK-A|NM23-M1|NM23A	NME/NM23 nucleoside diphosphate kinase 1	protein-coding	90.5	180.5	99.0	995.0	329.0	148.5	123.0	101.5
Merged-chr5-121711674-6	chr5	121711549	121711749	+	995.4815060000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009125)	promoter-TSS (NM_009125)	40.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	11.0	29.0	20.0	209.0	55.0	17.5	5.5	28.0
Merged-chr8-13493604-3	chr8	13493445	13493645	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019521, intron 2 of 14)	intron (NM_019521, intron 2 of 14)	990.0	NM_019521	14456.0	Mm.3982	NM_019521	ENSMUSG00000031451	Gas6	Gas-6	growth arrest specific 6	protein-coding	4.5	8.5	8.5	104.5	10.0	1.5	9.0	6.0
Merged-chr16-93833049-4	chr16	93832942	93833142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045529, intron 1 of 16)	PB1D11|SINE|Alu	921.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	57.5	51.0	31.0	411.5	126.0	49.0	46.0	37.0
Merged-chr6-15726634-4	chr6	15726533	15726733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	5972.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	39.5	100.0	61.5	794.5	142.0	39.5	41.5	40.5
Merged-chr14-105275419-2	chr14	105275319	105275519	+	650.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 1 of 7)	intron (NM_029561, intron 1 of 7)	16746.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	6.5	5.0	5.5	150.5	10.0	3.0	7.5	5.0
Merged-chr12-24534324-4	chr12	24534220	24534420	+	804.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020614, intron 8 of 14)	intron (NM_020614, intron 8 of 14)	35739.0	NR_028341	21340.0	Mm.39082	NM_020614	ENSMUSG00000059669	Taf1b	4930408G01Rik|A230108M10Rik|TAFI68|Tafi86|p63	TATA-box binding protein associated factor, RNA polymerase I, B	protein-coding	17.0	13.0	9.0	121.0	21.5	13.5	11.5	31.0
Merged-chr17-62884401-3	chr17	62884283	62884483	+	846.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3066.0	NM_010109	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	5.0	8.0	10.0	116.0	11.0	6.5	18.0	4.0
Merged-chr18-67736996-4	chr18	67736888	67737088	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12367.0	NM_008977	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	18.0	19.5	15.0	337.5	37.0	22.0	39.5	29.0
Merged-chr13-111488845-4	chr13	111488695	111488895	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028487, intron 1 of 12)	CpG	1332.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	19.5	27.5	17.0	279.0	24.0	19.5	14.0	21.5
Merged-chr5-100821702-3	chr5	100821624	100821824	+	819.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172405)	promoter-TSS (NM_172405)	-789.0	NM_172405	70681.0	Mm.486560	NM_172405	ENSMUSG00000035234	Abraxas1	3830405G04Rik|5630400M01Rik|AI506069|AL024423|AV118690|Ccdc98|Fam175a	BRCA1 A complex subunit	protein-coding	8.5	8.5	11.0	66.5	6.5	5.5	3.0	7.0
Merged-chr7-78895853-4	chr7	78895752	78895952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162939)	promoter-TSS (NM_001162939)	-75.0	NM_026531	68048.0	Mm.34109	NM_026531	ENSMUSG00000030609	Aen	2700083B06Rik|Isg20l1	apoptosis enhancing nuclease	protein-coding	209.0	289.0	181.0	2906.0	436.5	161.5	279.5	195.5
Merged-chr13-112363349-4	chr13	112363224	112363424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 8 of 11)	intron (NM_001168403, intron 8 of 11)	74806.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	51.5	69.5	55.5	773.5	64.0	42.0	43.0	41.0
Merged-chr15-27876618-4	chr15	27876513	27876713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 10 of 56)	intron (NM_001081302, intron 10 of 56)	149235.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	21.5	29.0	35.0	559.5	47.0	19.0	36.0	20.5
Merged-chr8-117258073-4	chr8	117257977	117258177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	(T)n|Simple_repeat|Simple_repeat	1058.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	120.5	177.0	143.5	1702.0	297.0	115.0	100.0	103.5
Merged-chr4-3779109-2	chr4	3779009	3779209	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 10 of 12)	intron (NM_001111096, intron 10 of 12)	56546.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	5.5	7.5	4.5	74.0	16.5	3.0	5.0	12.5
Merged-chr19-5098570-2	chr19	5098470	5098670	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302333)	promoter-TSS (NM_001302333)	-49.0	NM_009920	12794.0	Mm.299737	NM_009920	ENSMUSG00000024873	Cnih2	CNIH-2|Cnil	cornichon family AMPA receptor auxiliary protein 2	protein-coding	5.5	6.0	5.5	34.5	8.5	6.5	7.0	1.5
Merged-chr4-152318880-6	chr4	152318687	152318887	+	805.847229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033489)	promoter-TSS (NM_001033489)	-162.0	NM_001033489	433809.0	Mm.156205	NM_001033489	ENSMUSG00000058498	Rnf207	D330010C22Rik|Gm143	ring finger protein 207	protein-coding	5.0	7.0	5.5	89.5	7.5	0.5	5.0	4.5
Merged-chr7-80504896-3	chr7	80504794	80504994	+	779.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042527, intron 5 of 21)	L3|LINE|CR1	30104.0	NM_007550	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	13.0	9.5	6.0	94.5	13.5	10.0	6.5	7.5
Merged-chr16-11134713-4	chr16	11134592	11134792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029582)	promoter-TSS (NM_029582)	-160.0	NM_029582	106200.0	Mm.291015	NM_029582	ENSMUSG00000022498	Txndc11	2810408E11Rik|AI427833|EFP1|Txdc11	thioredoxin domain containing 11	protein-coding	364.5	583.0	401.5	4820.0	915.0	365.5	450.5	384.5
Merged-chr17-30506976-4	chr17	30506901	30507101	+	964.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172618, intron 6 of 11)	intron (NM_172618, intron 6 of 11)	69286.0	NM_172618	224671.0	Mm.41220	NM_027060	ENSMUSG00000062202	Btbd9	1700023F20Rik|4930402L05|AI464421	BTB (POZ) domain containing 9	protein-coding	22.0	11.0	16.5	347.0	64.0	20.0	18.5	23.0
Merged-chr8-108612166-4	chr8	108612061	108612261	+	963.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27484.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	27.5	43.0	12.5	467.5	48.0	13.0	24.0	19.0
Merged-chr13-32339365-2	chr13	32339265	32339465	+	876.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146041)	promoter-TSS (NM_146041)	-821.0	NM_146041	218138.0	Mm.247143	NM_146041	ENSMUSG00000038372	Gmds	BC031788|C87208	GDP-mannose 4, 6-dehydratase	protein-coding	7.5	5.5	8.0	101.5	13.0	2.5	6.0	6.0
Merged-chr7-45301489-2	chr7	45301389	45301589	+	819.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18616.0	NM_001033176	76713.0	Mm.425445	NM_001033176	ENSMUSG00000070568	Slc6a21	1700039E15Rik|Gm19188	solute carrier family 6 member 21	protein-coding	7.0	1.5	0.5	17.5	14.5	10.5	4.5	7.0
Merged-chr8-80265128-4	chr8	80265039	80265239	+	950.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-207131.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	25.5	27.0	33.0	504.0	34.0	7.5	11.0	22.0
Merged-chr9-62812924-4	chr9	62812839	62813039	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-1291.0	NM_010193	14155.0	Mm.24069	NM_010193	ENSMUSG00000032244	Fem1b	mKIAA0396	feminization 1 homolog b (C. elegans)	protein-coding	32.0	45.0	21.5	392.0	40.0	13.5	13.5	19.5
Merged-chr8-70833758-1	chr8	70833658	70833858	+	1000.0	f1_balb.idr	Intergenic	Intergenic	5962.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	7.0	22.0	20.5	52.5	22.0	9.0	6.0	11.5
Merged-chr7-110615386-4	chr7	110615294	110615494	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177324)	promoter-TSS (NM_177324)	-474.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	26.5	55.5	34.0	314.5	90.5	41.0	12.5	24.0
Merged-chr2-159591779-8	chr2	159591668	159591868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-355573.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	10.0	24.5	21.5	326.0	67.5	16.5	18.0	24.0
Merged-chr2-30364114-4	chr2	30363997	30364197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175392)	promoter-TSS (NM_175392)	-136.0	NM_001242407	108958.0	Mm.254974	NM_175392	ENSMUSG00000026858	Miga2	5730472N09Rik|AA408683|AI790341|C9orf54|Fam73b|R74766	mitoguardin 2	protein-coding	256.5	343.5	182.5	3192.0	596.0	190.0	243.0	221.0
Merged-chr7-27238790-4	chr7	27238701	27238901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133770, intron 5 of 14)	intron (NM_133770, intron 5 of 14)	5788.0	NM_133770	76889.0	Mm.124728	NM_133770	ENSMUSG00000003762	Coq8b	0610012P18Rik|Adck4	coenzyme Q8B	protein-coding	180.5	284.5	205.0	2785.0	422.5	132.5	192.0	157.5
Merged-chr3-152193841-4	chr3	152193761	152193961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025926)	promoter-TSS (NM_025926)	-16.0	NM_025926	67035.0	Mm.46746	NM_025926	ENSMUSG00000028035	Dnajb4	1700029A20Rik|2010306G19Rik|5730460G06Rik	DnaJ heat shock protein family (Hsp40) member B4	protein-coding	107.5	193.0	109.5	1867.5	299.5	119.0	165.0	99.5
Merged-chr15-76552841-2	chr15	76552741	76552941	+	980.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13898.0	NM_029643	52710.0	Mm.28597	NM_029643	ENSMUSG00000022560	Slc52a2	2010003P03Rik|D15Ertd747e|GPCR42|Gpr172b|PAR2|mRFT1	solute carrier protein 52, member 2	protein-coding	5.5	6.0	11.0	30.0	13.5	7.0	4.0	5.0
Merged-chr5-121845725-6	chr5	121845612	121845812	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3285.0	NM_175474	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	7.0	15.5	19.5	108.5	13.5	6.5	4.0	12.5
Merged-chr1-191733939-4	chr1	191733826	191734026	+	752.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134829, intron 2 of 7)	intron (NM_001134829, intron 2 of 7)	15531.0	NM_001134829	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	6.0	10.0	8.5	111.5	9.5	1.0	7.5	10.0
Merged-chr10-10556780-2	chr10	10556680	10556880	+	952.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	1427.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	1.5	6.0	12.5	72.0	8.5	7.0	5.0	5.5
Merged-chr4-105268530-4	chr4	105268422	105268622	+	912.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111175.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.5	25.5	5.0	263.0	38.5	17.5	11.5	13.0
Merged-chr12-84023272-4	chr12	84023181	84023381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	13779.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	82.5	157.0	98.5	1082.0	214.0	83.0	79.5	112.5
Merged-chr7-127206834-4	chr7	127206740	127206940	+	999.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144522, intron 1 of 8)	intron (NM_144522, intron 1 of 8)	1628.0	NM_144522	68449.0	Mm.41420	NM_144522	ENSMUSG00000042492	Tbc1d10b	1110003P22Rik|C87963	TBC1 domain family, member 10b	protein-coding	26.0	22.0	23.0	286.0	35.0	33.5	32.0	23.0
Merged-chr15-9714834-4	chr15	9714726	9714926	+	762.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305042, intron 8 of 36)	intron (NM_001305042, intron 8 of 36)	34042.0	NM_177123	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	12.5	8.5	14.0	158.5	26.5	4.0	7.5	13.0
Merged-chr12-55303315-4	chr12	55303203	55303403	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021529)	promoter-TSS (NM_021529)	-303.0	NM_021529	59032.0	Mm.427307	NM_021529	ENSMUSG00000021022	Ppp2r3c	4930511A21Rik|5730412A08Rik|G4-1|G5pr	protein phosphatase 2, regulatory subunit B'', gamma	protein-coding	10.0	20.5	35.0	206.5	37.0	22.5	24.5	16.0
Merged-chr7-73593076-4	chr7	73592944	73593144	+	888.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34649.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	24.0	21.5	15.0	161.0	37.5	8.0	11.5	14.5
Merged-chr3-116649543-3	chr3	116649449	116649649	+	703.333313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_008246, intron 2 of 11)	intron (NM_008246, intron 2 of 11)	13128.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	5.0	13.0	12.0	176.0	39.5	6.0	6.5	11.5
Merged-chr1-138253643-4	chr1	138253536	138253736	+	934.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-20102.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	14.5	22.5	25.5	415.5	30.5	12.0	14.0	12.5
Merged-chr5-137886157-4	chr5	137886044	137886244	+	933.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14386.0	NM_001024932	545812.0	Mm.332769	NM_001024932	ENSMUSG00000066682	Pilrb2	EG545812	paired immunoglobin-like type 2 receptor beta 2	protein-coding	15.0	20.0	7.5	158.0	41.0	14.5	13.0	12.0
Merged-chr9-13493079-3	chr9	13492991	13493191	+	625.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61730.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	6.5	5.0	5.0	82.0	8.5	3.5	4.0	2.0
Merged-chr7-30613670-3	chr7	30613535	30613735	+	935.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026815)	promoter-TSS (NM_026815)	-901.0	NM_026815	109637.0	Mm.25471	NM_026815	ENSMUSG00000006313	Upk1a	1110031P12Rik|AU019298|C87192|Tspan21|Upk1	uroplakin 1A	protein-coding	5.5	2.0	3.0	84.0	12.0	8.0	6.0	8.0
Merged-chr6-129255179-4	chr6	129255070	129255270	+	887.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16688.0	NR_040268	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	11.0	10.5	3.5	140.0	52.0	17.0	9.5	19.0
Merged-chr8-10883506-3	chr8	10883420	10883620	+	939.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1066.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	8.5	10.5	18.0	223.0	7.5	2.0	7.5	4.0
Merged-chr2-152738005-7	chr2	152737968	152738168	+	972.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010495)	TTS (NM_010495)	1817.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	27.5	16.0	9.0	200.5	35.0	18.0	29.5	19.0
Merged-chr1-55809377-1	chr1	55809277	55809477	+	593.333313	f0_c57.idr	Intergenic	Intergenic	-121864.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	0.5	5.0	3.5	70.0	25.0	11.5	8.0	17.0
Merged-chr17-57347125-4	chr17	57347005	57347205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11581.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	131.5	226.5	155.5	1946.0	321.5	130.0	172.0	139.0
Merged-chr15-64046506-4	chr15	64046409	64046609	+	980.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	13255.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	18.5	17.0	18.5	208.0	36.5	8.0	12.0	20.5
Merged-chr2-11588157-4	chr2	11588026	11588226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 8 of 11)	MTE2a|LTR|ERVL-MaLR	15073.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	76.0	129.0	108.0	1396.0	214.0	54.5	85.0	90.0
Merged-chr8-120071989-2	chr8	120071889	120072089	+	943.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29483.0	NM_133967	102193.0	Mm.240076	NM_133967	ENSMUSG00000031823	Zdhhc7	AL024087|Gramp2	zinc finger, DHHC domain containing 7	protein-coding	8.5	6.0	6.0	45.5	23.0	2.0	4.0	4.5
Merged-chr4-99191866-4	chr4	99191809	99192009	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2025.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	3.5	14.0	14.5	96.0	23.0	19.5	5.0	10.5
Merged-chr10-78482082-4	chr10	78481983	78482183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-17135.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	58.5	90.0	76.5	919.5	126.5	51.0	80.0	67.0
Merged-chr9-83562466-4	chr9	83562379	83562579	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	14141.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	15.5	13.0	9.5	338.0	69.0	22.5	20.5	28.5
Merged-chr1-131287480-4	chr1	131287383	131287583	+	855.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081011, exon 23 of 23)	3' UTR (NM_001081011, exon 23 of 23)	-7920.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	12.5	58.5	9.0	130.5	28.5	28.5	7.5	14.5
Merged-chr12-100352291-4	chr12	100352173	100352373	+	744.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 16 of 19)	intron (NM_001033213, intron 16 of 19)	75664.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	6.5	7.0	12.0	118.0	23.5	1.0	8.5	8.0
Merged-chr17-29024600-4	chr17	29024506	29024706	+	844.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8054.0	NM_013663	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	1.5	35.0	17.0	130.0	29.5	10.5	7.0	10.0
Merged-chr11-114789371-4	chr11	114789313	114789513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001102615, exon 18 of 20)	exon (NM_001102615, exon 18 of 20)	6479.0	NM_028055	72014.0	Mm.38347	NM_028055	ENSMUSG00000000202	Btbd17	1500005I02Rik|Tango10a	BTB (POZ) domain containing 17	protein-coding	26.0	46.0	30.0	387.5	55.0	27.0	22.5	26.0
Merged-chr1-64690189-3	chr1	64690083	64690283	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038009, intron 1 of 1)	intron (NR_038009, intron 1 of 1)	476.0	NR_038009	69941.0	Mm.69044	NR_038009	ENSMUSG00000087213	2810408I11Rik	-	RIKEN cDNA 2810408I11 gene	ncRNA	15.0	24.5	21.0	134.5	53.0	12.5	6.5	6.5
Merged-chr11-34010391-4	chr11	34010296	34010496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-17203.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	65.0	112.5	58.0	617.5	195.0	90.0	78.0	46.5
Merged-chr4-132969537-4	chr4	132969472	132969672	+	881.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-4523.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	18.5	23.0	11.0	98.5	20.0	5.5	8.0	12.0
Merged-chr11-8621870-4	chr11	8621790	8621990	+	863.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	intron (NM_001083587, intron 1 of 30)	42645.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	15.0	15.0	11.0	153.0	17.0	6.5	7.5	8.5
Merged-chr8-103919533-3	chr8	103919440	103919640	+	761.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-182085.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	7.0	14.0	15.0	130.5	23.5	4.0	4.5	2.5
Merged-chr19-55827968-5	chr19	55827862	55828062	+	863.1199949999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-67359.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	8.0	14.0	13.0	115.5	21.5	3.0	7.5	7.5
Merged-chr5-148559648-4	chr5	148559547	148559747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-6859.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	13.0	24.5	33.0	209.0	45.0	28.0	25.5	32.5
Merged-chr5-64092954-4	chr5	64092834	64093034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356964)	promoter-TSS (NM_001356964)	-5.0	NM_025700	66681.0	Mm.2325	NM_025700	ENSMUSG00000029171	Pgm1	3230402E02Rik|Pgm-1|Pgm2	phosphoglucomutase 1	protein-coding	48.5	66.5	49.0	691.0	97.0	31.0	54.5	43.0
Merged-chr2-15055141-4	chr2	15055031	15055231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029466)	promoter-TSS (NM_029466)	-231.0	NM_029466	75869.0	Mm.174068	NM_029466	ENSMUSG00000017418	Arl5b	4930587A11Rik|AW146430|Arl8	ADP-ribosylation factor-like 5B	protein-coding	278.5	508.0	319.5	4657.5	797.0	319.5	428.0	304.0
Merged-chr6-129349641-4	chr6	129349536	129349736	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177686)	promoter-TSS (NM_177686)	-608.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	10.0	17.0	8.5	116.5	39.0	20.0	16.0	10.5
Merged-chr6-52825728-4	chr6	52825617	52825817	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 2 of 4)	intron (NM_173406, intron 2 of 4)	83903.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	20.5	46.0	34.0	388.0	51.0	30.5	18.5	15.0
Merged-chr17-54003731-4	chr17	54003624	54003824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-13093.0	NM_018751	20888.0	Mm.10108	NM_018751	ENSMUSG00000023943	Sult1c1	(PST)G|P-SULT|ST1C1|Stp2|Sult1a2|mOLFST	sulfotransferase family, cytosolic, 1C, member 1	protein-coding	77.0	122.5	122.0	2036.5	167.0	54.5	80.5	64.0
Merged-chr2-168956056-3	chr2	168955938	168956138	+	973.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009564)	promoter-TSS (NM_009564)	-451.0	NM_009564	22722.0	Mm.2095	NM_009564	ENSMUSG00000027551	Zfp64	-	zinc finger protein 64	protein-coding	25.5	15.5	10.0	232.5	15.5	2.5	6.5	27.5
Merged-chr1-164275633-4	chr1	164275532	164275732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029115)	promoter-TSS (NM_029115)	34.0	NM_029115	74895.0	Mm.167258	NM_029115	ENSMUSG00000026578	Ccdc181	4930455F23Rik|AI427889	coiled-coil domain containing 181	protein-coding	72.0	102.5	97.0	1520.0	230.5	79.5	150.5	72.5
Merged-chr13-107057262-4	chr13	107057165	107057365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34695.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	29.5	71.0	41.5	329.5	154.5	52.5	43.0	34.0
Merged-chr3-129944023-3	chr3	129943932	129944132	+	783.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025779, intron 1 of 7)	intron (NM_025779, intron 1 of 7)	26174.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	11.5	15.0	5.5	210.0	10.5	2.5	16.5	14.5
Merged-chr19-4085181-4	chr19	4085081	4085281	+	775.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013878, intron 3 of 6)	intron (NM_013878, intron 3 of 6)	1662.0	NM_013878	29866.0	Mm.46268	NM_013878	ENSMUSG00000024857	Cabp2	-	calcium binding protein 2	protein-coding	10.5	10.5	13.5	110.5	35.0	11.0	18.5	9.5
Merged-chr8-90861716-3	chr8	90861607	90861807	+	732.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	32872.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	13.5	16.5	12.0	197.5	20.0	9.0	2.5	9.5
Merged-chr8-23207885-4	chr8	23207807	23208007	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018743, intron 1 of 12)	CpG	546.0	NM_018743	102247.0	Mm.200898	NM_018743	ENSMUSG00000031545	Gpat4	AU041707|AW545732|Agpat6|Tsarg7	glycerol-3-phosphate acyltransferase 4	protein-coding	23.5	31.5	23.0	266.0	49.0	20.5	19.0	25.0
Merged-chr3-69679461-4	chr3	69679410	69679610	+	908.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-42545.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	4.0	19.0	15.5	106.5	20.0	11.5	10.5	15.0
Merged-chr11-111445963-2	chr11	111445863	111446063	+	780.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	379799.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	5.0	8.0	2.0	40.5	16.0	4.5	8.0	6.0
Merged-chr18-64594083-3	chr18	64593964	64594164	+	998.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001488, intron 2 of 27)	MTEa|LTR|ERVL-MaLR	66936.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	19.5	34.0	18.5	213.0	1.5	0.0	0.0	0.5
Merged-chr2-85048441-2	chr2	85048341	85048541	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2019.0	NM_001081260	228140.0	Mm.23606	NM_001081260	ENSMUSG00000033955	Tnks1bp1	Tab182|mKIAA1741	tankyrase 1 binding protein 1	protein-coding	31.5	20.5	39.0	385.0	40.5	31.5	30.5	28.0
Merged-chr11-21223004-3	chr11	21222875	21223075	+	909.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16057.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	5.0	4.5	10.5	87.0	14.0	5.5	3.0	7.0
Merged-chr5-20881593-4	chr5	20881510	20881710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177601)	promoter-TSS (NM_177601)	514.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	22.0	28.5	19.0	235.5	61.5	25.0	20.5	25.0
Merged-chr16-34111418-4	chr16	34111315	34111515	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 34 of 59)	L1MB3|LINE|L1	-144377.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	12.5	36.5	16.0	135.5	53.0	21.5	14.0	2.5
Merged-chr6-129095402-4	chr6	129095299	129095499	+	617.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153506, intron 2 of 4)	intron (NM_153506, intron 2 of 4)	5504.0	NM_153506	232409.0	Mm.30870	NM_153506	ENSMUSG00000030155	Clec2e	Clra|clr-a	C-type lectin domain family 2, member e	protein-coding	5.0	19.0	16.5	100.0	18.0	8.0	11.5	10.0
Merged-chr1-149842032-4	chr1	149841934	149842134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 16 of 17)	intron (NM_008869, intron 16 of 17)	80405.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	73.5	115.0	43.5	837.0	185.5	61.0	88.5	74.0
Merged-chr1-189871772-3	chr1	189871570	189871770	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008976, exon 19 of 19)	3' UTR (NM_008976, exon 19 of 19)	50621.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	9.0	5.0	17.5	84.5	7.0	1.5	0.0	3.0
Merged-chr12-3301595-4	chr12	3301491	3301691	+	818.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	intron (NM_016676, intron 1 of 5)	8378.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	7.0	23.0	5.0	172.5	42.0	16.5	12.0	7.0
Merged-chr10-67548278-6	chr10	67548213	67548413	+	990.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001005419, exon 1 of 1)	exon (NM_001005419, exon 1 of 1)	642.0	NM_001005419	211488.0	Mm.297250	NM_001005419	ENSMUSG00000057134	Ado	Gm237	2-aminoethanethiol (cysteamine) dioxygenase	protein-coding	12.0	15.0	23.5	181.5	27.5	8.5	7.5	16.5
Merged-chr2-167844194-4	chr2	167844100	167844300	+	945.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88127.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	20.5	6.0	9.5	179.0	40.5	4.0	18.5	11.5
Merged-chr8-92858694-3	chr8	92858593	92858793	+	785.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357375, intron 1 of 12)	intron (NM_001357375, intron 1 of 12)	3360.0	NM_001357374	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	11.0	11.5	10.0	270.5	3.0	0.5	3.5	0.0
Merged-chr6-35236573-4	chr6	35236477	35236677	+	975.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027513, intron 34 of 42)	intron (NM_027513, intron 34 of 42)	-16122.0	NR_015608	67705.0	Mm.228046	NR_015608	ENSMUSG00000073155	1810058I24Rik	AI414869|AI848234	RIKEN cDNA 1810058I24 gene	ncRNA	14.5	30.5	33.5	371.5	49.5	21.0	38.0	29.5
Merged-chr6-142346343-3	chr6	142346223	142346423	+	839.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183165, intron 1 of 11)	intron (NM_183165, intron 1 of 11)	626.0	NM_183165	232491.0	Mm.490474	NM_183165	ENSMUSG00000041671	Pyroxd1	-	pyridine nucleotide-disulphide oxidoreductase domain 1	protein-coding	7.5	5.0	9.0	80.0	17.0	2.5	2.5	8.0
Merged-chr14-30641916-4	chr14	30641802	30642002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12473.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	76.0	204.0	62.0	602.5	225.5	77.5	68.0	48.5
Merged-chr3-19904887-3	chr3	19904796	19904996	+	740.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10025.0	NR_027985	70808.0	Mm.427103	NR_027985	ENSMUSG00000048106	4632415L05Rik	AI662792	RRS1 ribosome biogenesis regulator homolog pseudogene	pseudo	5.0	4.0	6.5	122.5	8.5	5.0	8.5	4.5
Merged-chr11-5780326-8	chr11	5780237	5780437	+	907.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015577, exon 5 of 7)	non-coding (NR_015577, exon 5 of 7)	-8146.0	NM_001146309	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	11.5	24.5	11.5	199.0	12.5	2.5	8.0	18.0
Merged-chr5-135168846-4	chr5	135168746	135168946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009745, intron 1 of 5)	CpG	474.0	NM_009745	12054.0	Mm.405834	NM_009745	ENSMUSG00000029681	Bcl7b	-	B cell CLL/lymphoma 7B	protein-coding	244.5	320.5	180.0	2838.0	574.0	218.0	294.0	179.0
Merged-chr3-92150833-4	chr3	92150715	92150915	+	867.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8061.0	NM_027042	69332.0	Mm.120271	NM_027042	ENSMUSG00000027927	Lelp1	1700012F11Rik	late cornified envelope-like proline-rich 1	protein-coding	4.5	11.5	4.5	123.0	41.0	19.0	14.5	15.0
Merged-chr7-120830800-4	chr7	120830695	120830895	+	980.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12036.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	17.0	36.5	28.5	328.5	43.5	12.5	11.5	22.5
Merged-chr2-71843499-4	chr2	71843410	71843610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008397, intron 20 of 25)	intron (NM_008397, intron 20 of 25)	-29714.0	NM_172665	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	32.5	31.0	35.5	743.5	156.5	61.5	104.0	101.0
Merged-chr3-51636817-4	chr3	51636739	51636939	+	860.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24340.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	18.5	26.5	15.5	218.0	18.0	10.0	10.5	17.0
Merged-chr3-45378319-3	chr3	45378241	45378441	+	715.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098172)	promoter-TSS (NM_001098172)	-57.0	NM_001098172	18526.0	Mm.242644	NM_011043	ENSMUSG00000049100	Pcdh10	6430521D13Rik|6430703F07Rik|OL-pc|mKIAA1400	protocadherin 10	protein-coding	5.0	5.0	11.5	114.0	1.5	2.0	4.5	6.5
Merged-chr8-125569962-4	chr8	125569872	125570072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357372)	promoter-TSS (NM_001357372)	-109.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	225.5	315.5	189.0	2595.5	446.5	161.5	217.0	160.5
Merged-chr10-53863688-4	chr10	53863598	53863798	+	964.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112789.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	19.0	16.0	19.5	347.0	41.0	6.0	16.0	21.5
Merged-chr9-85331726-4	chr9	85331630	85331830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4580.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	49.5	68.5	114.5	1280.0	123.0	42.5	80.5	44.5
Merged-chr5-72250402-3	chr5	72250304	72250504	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 9 of 22)	intron (NR_003966, intron 9 of 22)	47061.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	9.0	9.5	8.0	86.0	14.5	6.0	10.5	8.0
Merged-chr10-41980941-4	chr10	41980848	41981048	+	922.7625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 5 of 17)	MIRc|SINE|MIR	37434.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	18.0	28.5	6.5	230.5	40.0	19.0	15.0	12.5
Merged-chr6-31413092-3	chr6	31412985	31413185	+	868.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 1 of 17)	intron (NM_013791, intron 1 of 17)	14257.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	8.0	9.0	7.5	162.5	11.0	5.0	2.0	6.0
Merged-chr2-28591669-4	chr2	28591575	28591775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	-8396.0	NM_001290484	70239.0	Mm.274120	NM_148928	ENSMUSG00000026816	Gtf3c5	2700084A09Rik|TFIIIC63|TFiiiC2-63	general transcription factor IIIC, polypeptide 5	protein-coding	177.5	353.0	204.5	1918.5	463.5	171.5	192.5	150.0
Merged-chr16-27388410-4	chr16	27388319	27388519	+	986.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026202)	promoter-TSS (NM_026202)	-537.0	NM_001025615	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	27.5	44.5	14.0	296.0	81.5	35.5	27.5	19.5
Merged-chr2-163716597-4	chr2	163716508	163716708	+	895.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 3 of 4)	intron (NM_001039390, intron 3 of 4)	22571.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	6.5	13.0	7.5	232.0	14.0	9.5	14.0	18.0
Merged-chr14-50897592-4	chr14	50897523	50897723	+	776.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4368.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	12.0	7.5	6.5	149.5	21.0	6.5	13.5	15.0
Merged-chr16-97922577-4	chr16	97922478	97922678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174847)	promoter-TSS (NM_174847)	55.0	NM_174847	207781.0	Mm.1465	NM_174847	ENSMUSG00000045975	C2cd2	5730563M15|5830404H04Rik|AI314146|AI449533|BF168443|ORF25|mKIAA4045	C2 calcium-dependent domain containing 2	protein-coding	177.0	197.5	161.0	2470.5	263.0	128.5	175.0	149.5
Merged-chr4-136163678-4	chr4	136163588	136163788	+	845.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8586.0	NM_177733	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	11.0	17.0	1.5	100.0	47.0	21.0	13.5	15.0
Merged-chr14-70333779-3	chr14	70333671	70333871	+	785.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144808, intron 1 of 9)	intron (NM_144808, intron 1 of 9)	14662.0	NM_001135152	213053.0	Mm.270647	NM_144808	ENSMUSG00000022094	Slc39a14	FAD-123|ZIP-14|Zip14|fad123	solute carrier family 39 (zinc transporter), member 14	protein-coding	13.5	13.5	7.5	147.5	7.0	1.5	5.5	18.0
Merged-chr8-104118072-4	chr8	104117972	104118172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 2 of 11)	ORR1E|LTR|ERVL-MaLR	-12199.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	20.0	25.0	35.0	668.0	75.5	27.5	50.0	51.5
Merged-chr7-110385663-4	chr7	110385557	110385757	+	938.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	intron (NM_177324, intron 17 of 40)	163954.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	14.0	18.5	17.5	330.5	47.0	9.5	19.5	9.5
Merged-chr11-3202477-4	chr11	3202365	3202565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166547)	promoter-TSS (NM_001166547)	112.0	NM_001166548	74203.0	Mm.255649	NM_023743	ENSMUSG00000020454	Eif4enif1	2610509L04Rik|A930019J01Rik|AA410001|AU021239|Clast4|D11Ertd166e	eukaryotic translation initiation factor 4E nuclear import factor 1	protein-coding	59.0	104.5	140.5	950.5	175.5	100.5	75.0	60.0
Merged-chr9-66347556-4	chr9	66347460	66347660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2890.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	57.0	85.5	42.0	785.0	149.0	46.5	63.0	70.0
Merged-chr8-39636216-3	chr8	39636122	39636322	+	996.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 1 of 9)	intron (NM_001113326, intron 1 of 9)	6456.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	17.0	46.5	16.5	148.5	13.0	10.0	5.0	10.5
Merged-chr14-120453790-4	chr14	120453711	120453911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_LTR|LTR|ERV1	-24650.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	29.5	58.5	53.0	301.0	103.0	40.0	48.5	26.0
Merged-chr19-44248304-4	chr19	44248202	44248402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	45014.0	NM_024450	30049.0	Mm.480594	NM_024450	ENSMUSG00000025202	Scd3	4930513N16Rik	stearoyl-coenzyme A desaturase 3	protein-coding	148.0	271.5	135.0	1691.0	243.0	118.5	123.5	102.0
Merged-chr6-124415930-4	chr6	124415834	124416034	+	919.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175933)	promoter-TSS (NM_175933)	-79.0	NM_001360570	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	11.0	15.5	13.0	173.0	58.5	7.0	14.5	6.5
Merged-chr3-89421602-4	chr3	89421523	89421723	+	899.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113331)	promoter-TSS (NM_001113331)	2.0	NM_001113331	20416.0	Mm.86595	NM_011368	ENSMUSG00000042626	Shc1	Shc|ShcA|p66|p66shc	src homology 2 domain-containing transforming protein C1	protein-coding	13.0	26.0	7.0	151.5	28.0	12.0	12.5	7.5
Merged-chr1-80454202-4	chr1	80454105	80454305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040460, intron 2 of 2)	ORR1E|LTR|ERVL-MaLR	8273.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	31.0	35.0	33.0	714.0	78.0	27.0	36.0	39.0
Merged-chr5-5321001-4	chr5	5320875	5321075	+	870.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	-54907.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	14.0	4.0	8.5	170.0	34.0	20.0	10.0	14.0
Merged-chr2-113648373-4	chr2	113648275	113648475	+	857.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 13 of 16)	intron (NM_001285459, intron 13 of 16)	-36715.0	NM_001287818	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	17.0	19.0	7.5	234.5	45.5	20.0	20.0	9.5
Merged-chr18-33720386-2	chr18	33720302	33720502	+	936.416626	f0_c57.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-74490.0	NR_038152	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	0.0	2.0	0.0	7.5	62.0	15.5	28.0	15.5
Merged-chr8-95037499-2	chr8	95037399	95037599	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173036, intron 8 of 11)	L1MC4a|LINE|L1	-17604.0	NM_001042715	330830.0	Mm.277112	NM_001042715	ENSMUSG00000031786	Drc7	Ccdc135|Gm770|SRG-L|SRG-S	dynein regulatory complex subunit 7	protein-coding	28.5	41.5	17.5	252.0	82.5	24.5	41.0	18.0
Merged-chr13-56334480-4	chr13	56334372	56334572	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-28428.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	51.5	55.0	45.0	560.0	40.0	37.5	33.5	29.0
Merged-chr2-156547592-4	chr2	156547438	156547638	+	887.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164818)	promoter-TSS (NM_001164818)	-38.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	6.5	11.0	3.5	82.0	33.5	9.0	8.5	15.0
Merged-chr4-109457018-4	chr4	109456906	109457106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013876, exon 2 of 3)	exon (NM_013876, exon 2 of 3)	19499.0	NM_013876	29864.0	Mm.392580	NM_013876	ENSMUSG00000028557	Rnf11	-	ring finger protein 11	protein-coding	21.0	29.0	20.5	606.0	74.5	21.5	29.5	27.0
Merged-chr1-92473831-4	chr1	92473735	92473935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024197)	promoter-TSS (NM_024197)	-77.0	NM_024197	67273.0	Mm.248778	NM_024197	ENSMUSG00000026260	Ndufa10	2900053E13Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 10	protein-coding	82.5	200.0	100.0	1466.5	354.0	150.0	107.5	168.5
Merged-chr7-38210023-1	chr7	38209923	38210123	+	782.0	f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	17971.0	NM_024413	72287.0	Mm.333798	NM_024413	ENSMUSG00000074170	Plekhf1	1810013P09Rik|APPD|LAPF|PHAFIN1|ZFYVE15	pleckstrin homology domain containing, family F (with FYVE domain) member 1	protein-coding	4.5	4.0	4.5	50.5	4.5	5.5	6.0	6.5
Merged-chr7-79660127-4	chr7	79660030	79660230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029835)	promoter-TSS (NM_029835)	-66.0	NM_029835	77011.0	Mm.28132	NM_029835	ENSMUSG00000046591	Ticrr	5730590G19Rik|BC028450|Lrrk1	TOPBP1-interacting checkpoint and replication regulator	protein-coding	216.0	321.0	176.5	3285.5	555.0	165.0	218.0	234.0
Merged-chr2-166900982-4	chr2	166900886	166901086	+	982.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5110.0	NM_023565	110750.0	Mm.22417	NM_023565	ENSMUSG00000002718	Cse1l	2610100P18Rik|AA407533|Capts|Cas|Xpo2	chromosome segregation 1-like (S. cerevisiae)	protein-coding	17.0	33.0	15.0	412.5	87.0	13.0	29.0	29.0
Merged-chr7-35647514-4	chr7	35647423	35647623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019746)	promoter-TSS (NM_019746)	-41.0	NM_019746	56330.0	Mm.371609	NM_019746	ENSMUSG00000030417	Pdcd5	2200003D22Rik|AA408513|Tfar19	programmed cell death 5	protein-coding	116.0	164.0	93.5	1649.5	296.0	97.0	117.5	124.5
Merged-chr6-125331174-4	chr6	125331070	125331270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011324, exon 2 of 12)	exon (NM_011324, exon 2 of 12)	9830.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	113.5	106.0	71.0	932.0	215.5	122.0	124.5	88.5
Merged-chr3-108881132-4	chr3	108881032	108881232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177091, intron 4 of 12)	intron (NM_177091, intron 4 of 12)	8876.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	38.0	55.0	65.0	645.0	80.5	21.0	51.5	32.5
Merged-chr11-69424083-4	chr11	69423978	69424178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 77 of 85)	intron (NM_001081330, intron 77 of 85)	-10403.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	96.0	163.0	119.0	1884.5	246.5	87.0	116.5	81.0
Merged-chr1-134106941-4	chr1	134106833	134107033	+	859.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4309.0	NM_001284525	71884.0	Mm.328268	NM_027979	ENSMUSG00000026450	Chit1	2300002L19Rik	chitinase 1 (chitotriosidase)	protein-coding	15.5	10.5	0.0	129.0	18.0	6.5	9.5	10.5
Merged-chr19-56734170-4	chr19	56734047	56734247	+	978.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11775.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	29.0	40.5	23.5	443.0	43.0	14.0	29.5	20.0
Merged-chr2-3658033-4	chr2	3657940	3658140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55418.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	112.5	105.5	92.5	1849.0	233.0	79.0	113.5	101.5
Merged-chr13-110597673-3	chr13	110597586	110597786	+	964.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	202642.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	11.0	8.5	8.0	233.0	11.0	4.0	4.5	7.0
Merged-chr15-77757106-4	chr15	77756992	77757192	+	846.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357895)	promoter-TSS (NM_001357895)	-82.0	NM_001357895	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	12.5	15.0	20.0	60.0	22.5	10.5	8.5	9.5
Merged-chr16-91549258-3	chr16	91549156	91549356	+	768.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 1 of 6)	IMPB_01|Satellite|Satellite	2162.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	5.0	5.0	3.5	39.0	24.0	10.5	10.5	11.5
Merged-chr11-96969285-3	chr11	96969210	96969410	+	802.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030220, intron 1 of 6)	intron (NM_030220, intron 1 of 6)	8378.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	3.5	9.5	6.0	135.5	11.5	4.5	8.0	7.0
Merged-chr10-82629277-4	chr10	82629166	82629366	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011561)	promoter-TSS (NM_011561)	-572.0	NM_001358517	21665.0	Mm.284252	NM_011561	ENSMUSG00000034674	Tdg	E130317C12Rik|JZA-3|Jza1	thymine DNA glycosylase	protein-coding	14.0	18.0	8.0	86.5	36.0	21.5	18.5	32.5
Merged-chr14-52190871-1	chr14	52190771	52190971	+	698.0	f0_balb.idr	intron (NM_033618, intron 1 of 25)	B3|SINE|B2	6368.0	NM_033618	114741.0	Mm.21662	NM_033618	ENSMUSG00000035726	Supt16	Cdc68|Fact140|Spt16|Supt16h	suppressor of Ty 16	protein-coding	8.0	11.0	6.5	130.0	3.0	1.0	1.0	3.5
Merged-chr8-35666008-3	chr8	35665915	35666115	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 2 of 2)	intron (NM_001081279, intron 2 of 2)	-76995.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	64.0	93.0	76.5	1285.0	12.5	5.0	6.0	3.0
Merged-chr10-80223331-4	chr10	80223231	80223431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	RLTR13C2|LTR|ERVK	-3267.0	NM_023431	68114.0	Mm.273418	NM_023431	ENSMUSG00000020156	Mum1	2610019J09|9430059D04Rik|UBE-1C2	melanoma associated antigen (mutated) 1	protein-coding	28.0	52.5	24.0	343.0	77.5	41.0	24.0	29.5
Merged-chr2-60878079-5	chr2	60877859	60878059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	3479.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	29.0	45.0	40.5	428.5	65.5	20.0	35.5	29.5
Merged-chr15-98541171-4	chr15	98541041	98541241	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6872.0	NR_153345	69612.0	Mm.229107	NM_133714	ENSMUSG00000022992	Kansl2	2310037I24Rik|B930009D17	KAT8 regulatory NSL complex subunit 2	protein-coding	19.0	31.0	10.5	205.5	42.5	13.5	10.5	9.0
Merged-chr12-75596358-4	chr12	75596276	75596476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012024)	promoter-TSS (NM_012024)	-176.0	NM_012024	26932.0	Mm.259626	NM_012024	ENSMUSG00000021051	Ppp2r5e	4633401M22Rik|AI449017|B56beta	protein phosphatase 2, regulatory subunit B', epsilon	protein-coding	276.0	338.0	259.5	4513.5	644.5	193.0	300.5	232.5
Merged-chr7-55868487-4	chr7	55868393	55868593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	Lx10|LINE|L1	26422.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	98.0	179.0	103.5	1580.0	247.5	121.0	97.5	106.5
Merged-chr17-56079291-5	chr17	56079247	56079447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304785)	promoter-TSS (NM_001304785)	-14.0	NM_024432	66530.0	Mm.28000	NM_024432	ENSMUSG00000019578	Ubxn6	1200008L11Rik|2210415J11Rik|AU040909|Ubxd1|Ubxdc2	UBX domain protein 6	protein-coding	311.0	491.5	363.0	3790.5	826.5	362.5	425.5	357.0
Merged-chr19-6979228-1	chr19	6979128	6979328	+	586.0	f0_balb.idr	intron (NM_008020, intron 1 of 5)	intron (NM_008020, intron 1 of 5)	164.0	NM_001360288	14227.0	Mm.4234	NM_008020	ENSMUSG00000056629	Fkbp2	mFKBP13|mFKBP2	FK506 binding protein 2	protein-coding	7.5	15.5	7.0	67.5	21.5	6.0	7.0	11.5
Merged-chr9-41168775-3	chr9	41168667	41168867	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-10705.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	11.5	8.5	4.5	168.5	16.0	5.0	4.0	4.0
Merged-chr19-6408938-4	chr19	6408852	6409052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011242, exon 12 of 17)	exon (NM_011242, exon 12 of 17)	8369.0	NM_011242	19395.0	Mm.77017	NM_011242	ENSMUSG00000032946	Rasgrp2	CDC25L|Caldaggef1	RAS, guanyl releasing protein 2	protein-coding	72.5	61.0	80.0	1060.0	157.5	39.0	84.5	46.0
Merged-chr14-40937319-4	chr14	40937213	40937413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	10896.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	63.0	65.5	55.5	1299.5	121.0	52.5	52.5	67.5
Merged-chr19-37515083-1	chr19	37514983	37515183	+	675.0	f0_balb.idr	Intergenic	Intergenic	-35335.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	5.0	6.0	11.0	105.5	5.0	12.5	5.0	1.5
Merged-chr2-84511733-4	chr2	84511585	84511785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-4812.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	27.5	40.0	33.0	241.5	152.5	56.0	59.5	45.5
Merged-chr7-143296658-4	chr7	143296582	143296782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_001461)	promoter-TSS (NR_001461)	-135.0	NR_001461	63830.0	Mm.356096	NR_001461	ENSMUSG00000101609	Kcnq1ot1	Kvlqt1-as|Lit1|Tssc8	KCNQ1 overlapping transcript 1	ncRNA	92.0	151.0	83.0	1404.0	272.0	105.5	112.5	101.0
Merged-chr2-59042846-4	chr2	59042754	59042954	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	intron (NM_001362394, intron 1 of 13)	117829.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	10.0	18.5	19.5	131.0	45.5	17.0	8.5	25.5
Merged-chr2-34727430-6	chr2	34727308	34727508	+	959.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151469, intron 4 of 26)	intron (NR_151469, intron 4 of 26)	27824.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	4.0	17.0	6.0	131.5	40.5	18.5	8.5	13.5
Merged-chr6-71125349-2	chr6	71125249	71125449	+	980.4166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19031.0	NM_001033929	232078.0	Mm.37547	NM_178413	ENSMUSG00000054474	Thnsl2	BC051244|TSH2	threonine synthase-like 2 (bacterial)	protein-coding	10.0	6.5	4.5	38.5	19.5	4.0	10.5	15.5
Merged-chr5-43672331-3	chr5	43672240	43672440	+	992.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359906, intron 4 of 37)	intron (NM_001359906, intron 4 of 37)	9961.0	NM_001359903	231214.0	Mm.44434	NM_172274	ENSMUSG00000039765	Cc2d2a	5730509K17Rik|b2b1035Clo	coiled-coil and C2 domain containing 2A	protein-coding	16.5	29.0	51.5	367.5	10.5	4.5	6.5	7.0
Merged-chr4-116632207-4	chr4	116632149	116632349	+	829.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4298.0	NM_016777	50927.0	Mm.257181	NM_016777	ENSMUSG00000028693	Nasp	5033430J04Rik|AI131596|AI317140|D4Ertd767e|Epcs32|Nasp-T	nuclear autoantigenic sperm protein (histone-binding)	protein-coding	5.5	9.0	13.0	162.5	17.0	6.0	10.5	17.0
Merged-chr1-191119104-4	chr1	191118978	191119178	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20664.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	37.0	57.0	15.5	336.5	39.0	15.0	31.5	12.5
Merged-chr17-46772738-4	chr17	46772604	46772804	+	964.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025966)	promoter-TSS (NM_025966)	69.0	NM_025966	67101.0	Mm.358702	NM_025966	ENSMUSG00000062619	2310039H08Rik	-	RIKEN cDNA 2310039H08 gene	protein-coding	29.0	38.0	12.5	242.0	42.5	11.0	20.0	11.5
Merged-chr14-45685447-4	chr14	45685345	45685545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27302.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	118.5	244.5	144.0	1418.0	235.0	89.5	84.5	80.0
Merged-chr5-105155778-3	chr5	105155673	105155873	+	903.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-16187.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	8.0	4.0	1.5	36.0	20.5	9.0	6.0	20.5
Merged-chr7-130546946-4	chr7	130546857	130547057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162855, intron 1 of 10)	CpG	424.0	NM_001162855	67872.0	Mm.21714	NM_001162855	ENSMUSG00000040331	Nsmce4a	2410003A14Rik	NSE4 homolog A, SMC5-SMC6 complex component	protein-coding	29.5	28.5	27.5	340.0	76.0	18.5	44.5	34.0
Merged-chr9-41073699-4	chr9	41073592	41073792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	5814.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	27.0	22.5	33.5	597.5	95.5	16.5	31.0	23.0
Merged-chr5-30960330-4	chr5	30960241	30960441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016703)	promoter-TSS (NM_016703)	-14.0	NM_016703	50907.0	Mm.272414	NM_016703	ENSMUSG00000045302	Preb	C85705	prolactin regulatory element binding	protein-coding	112.5	135.5	68.5	1441.0	288.0	112.0	160.5	161.5
Merged-chr3-87859980-4	chr3	87859894	87860094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033573, intron 6 of 6)	intron (NM_033573, intron 6 of 6)	13239.0	NM_021309	27371.0	Mm.86361	NM_021309	ENSMUSG00000028071	Sh2d2a	Lad|Ribp|Tsad	SH2 domain containing 2A	protein-coding	24.5	43.5	18.0	403.0	85.0	29.5	35.5	24.5
Merged-chr12-24493606-4	chr12	24493520	24493720	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4961.0	NM_020614	21340.0	Mm.39082	NM_020614	ENSMUSG00000059669	Taf1b	4930408G01Rik|A230108M10Rik|TAFI68|Tafi86|p63	TATA-box binding protein associated factor, RNA polymerase I, B	protein-coding	32.5	24.0	19.0	297.5	39.0	14.0	18.5	29.5
Merged-chr5-139726543-7	chr5	139726386	139726586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174850, intron 1 of 16)	ID_B1|SINE|B4	9847.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	48.5	121.5	69.0	902.0	163.5	76.5	66.0	81.5
Merged-chr12-3350526-4	chr12	3350406	3350606	+	967.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14626.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	20.5	23.5	13.5	307.0	28.5	8.0	12.0	15.5
Merged-chr9-59565796-4	chr9	59565709	59565909	+	866.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010421)	TTS (NM_010421)	-12528.0	NM_175235	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	8.5	7.0	13.5	197.0	19.0	8.0	12.0	11.0
Merged-chr8-46778311-4	chr8	46778237	46778437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	38592.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	118.5	208.0	114.5	1690.0	305.5	117.5	133.0	140.5
Merged-chr6-135276960-1	chr6	135276860	135277060	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-22624.0	NM_001080553	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	7.0	5.5	20.0	257.0	0.0	0.5	0.0	0.5
Merged-chr4-130878685-4	chr4	130878571	130878771	+	956.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34663.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	17.0	17.5	11.0	160.5	45.0	12.0	17.0	11.0
Merged-chr16-31933795-8	chr16	31933666	31933866	+	984.03125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172822)	promoter-TSS (NM_172822)	-85.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	8.5	6.0	8.0	175.5	41.0	8.0	8.0	21.0
Merged-chr8-70543806-2	chr8	70543706	70543906	+	838.5	f0_balb.idr|f1_balb.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	4131.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	8.0	9.5	5.0	114.0	17.0	3.5	6.5	9.5
Merged-chr1-53784440-4	chr1	53784331	53784531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133810, intron 1 of 7)	intron (NM_133810, intron 1 of 7)	784.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	28.0	30.0	34.5	438.5	104.5	28.5	50.5	43.0
Merged-chr4-142076046-4	chr4	142075876	142076076	+	947.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-8322.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	2.5	2.5	0.5	52.0	30.0	7.5	8.5	19.5
Merged-chr1-93635818-4	chr1	93635717	93635917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021537)	promoter-TSS (NM_021537)	-90.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	290.5	387.0	344.5	4661.5	622.0	261.0	382.5	284.5
Merged-chr17-35359564-2	chr17	35359415	35359615	+	874.2333369999999	f0_balb.idr|f1_balb.idr	Intergenic	CpG	17182.0	NM_010392	15013.0	Mm.427969	NM_010392	ENSMUSG00000091705	H2-Q2	BE136769|Gm11132|H-2Q2|gs14-2	histocompatibility 2, Q region locus 2	protein-coding	11.0	21.0	11.0	146.0	6.0	3.5	0.5	3.5
Merged-chr11-83039356-4	chr11	83039253	83039453	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355513, intron 1 of 5)	B2_Mm2|SINE|B2	689.0	NR_073523	237887.0	Mm.341645	NM_181542	ENSMUSG00000072621	Slfn10-ps	Slfn10|mFLJ00257	schlafen 10, pseudogene	protein-coding	24.0	40.0	11.5	166.0	62.0	31.0	22.5	21.0
Merged-chr11-98414255-3	chr11	98414154	98414354	+	845.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003817, intron 1 of 26)	intron (NM_001003817, intron 1 of 26)	1770.0	NM_001003817	13866.0	Mm.290822	NM_001003817	ENSMUSG00000062312	Erbb2	Erbb-2|HER-2|HER2|Neu|c-erbB2|c-neu|l11Jus8|mKIAA3023	erb-b2 receptor tyrosine kinase 2	protein-coding	5.0	12.5	8.5	124.5	17.5	1.5	2.0	5.0
Merged-chr2-33371466-4	chr2	33371345	33371545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290572)	promoter-TSS (NM_001290572)	49.0	NM_001290570	241308.0	Mm.274249	NM_175211	ENSMUSG00000038831	Ralgps1	5830418G11Rik|AI853783|AI854138|RALGEF2|RALGPS1A|RalGEF 2|mKIAA0351	Ral GEF with PH domain and SH3 binding motif 1	protein-coding	75.5	91.0	70.5	1097.0	186.5	77.0	96.5	60.0
Merged-chr11-51615785-4	chr11	51615694	51615894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3979.0	NM_026631	52530.0	Mm.28203	NM_026631	ENSMUSG00000001056	Nhp2	2410130M07Rik|D11Ertd175e|Nola2	NHP2 ribonucleoprotein	protein-coding	33.5	55.5	21.5	396.5	107.0	31.0	42.0	48.0
Merged-chr11-97315228-3	chr11	97315141	97315341	+	837.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025927)	promoter-TSS (NM_025927)	-475.0	NM_025927	67036.0	Mm.5381	NM_025927	ENSMUSG00000018882	Mrpl45	2600005P05Rik|AU043542|R75241	mitochondrial ribosomal protein L45	protein-coding	13.0	19.5	7.5	99.5	14.0	1.5	1.0	6.5
Merged-chr11-115049450-4	chr11	115049358	115049558	+	879.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1163.0	NM_199201	382551.0	Mm.424732	NM_199201	ENSMUSG00000069607	Cd300ld3	AY457049|Cd300lh|Clm3|Lmir7|clm-3	CD300 molecule like family member D3	protein-coding	11.5	23.0	12.5	156.0	50.5	9.0	11.0	21.5
Merged-chr6-124787178-3	chr6	124787069	124787269	+	979.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7442.0	NM_001302555	16977.0	Mm.3207	NM_013588	ENSMUSG00000030125	Lrrc23	4921537K05Rik|B7|Lrpb7	leucine rich repeat containing 23	protein-coding	19.5	20.0	14.5	52.5	8.0	4.5	7.0	5.5
Merged-chr2-30084320-4	chr2	30084214	30084414	+	916.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153805, intron 9 of 21)	MTD|LTR|ERVL-MaLR	5616.0	NM_153805	263803.0	Mm.233843	NM_153805	ENSMUSG00000026785	Pkn3	AW209115|BC034126	protein kinase N3	protein-coding	15.5	6.0	10.0	247.0	34.5	16.0	14.0	17.5
Merged-chr19-29469245-2	chr19	29469145	29469345	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	intron (NM_021396, intron 5 of 5)	52742.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	8.0	20.5	12.0	53.5	52.0	12.5	5.0	9.0
Merged-chr4-63417503-4	chr4	63417392	63417592	+	895.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008791, intron 10 of 12)	intron (NM_001008791, intron 10 of 12)	-14047.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	23.0	12.5	12.5	141.5	38.0	12.5	12.5	19.0
Merged-chr7-122242480-2	chr7	122242380	122242580	+	871.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22984.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	5.5	5.5	1.0	67.0	15.0	4.5	7.5	19.0
Merged-chr8-69717060-4	chr8	69716974	69717174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039965)	promoter-TSS (NM_001039965)	-172.0	NM_001039965	66869.0	Mm.334581	NM_181274	ENSMUSG00000054648	Zfp869	1200003I07Rik	zinc finger protein 869	protein-coding	368.5	619.0	379.5	5868.0	885.5	361.5	434.0	373.5
Merged-chr1-170136577-4	chr1	170136487	170136687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38377.0	NM_133806	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	18.0	34.0	25.5	502.0	50.5	20.0	32.5	35.0
Merged-chr10-88741613-4	chr10	88741532	88741732	+	932.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025859, intron 4 of 5)	C-rich|Low_complexity|Low_complexity	10218.0	NM_025859	104303.0	Mm.291247	NM_025859	ENSMUSG00000060904	Arl1	2310008D22Rik|AU019749	ADP-ribosylation factor-like 1	protein-coding	16.5	10.0	15.0	353.0	28.5	15.5	21.5	25.0
Merged-chr4-139193765-5	chr4	139193555	139193755	+	994.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271405)	promoter-TSS (NM_001271405)	-456.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	10.0	15.5	20.0	192.0	50.5	25.0	34.0	27.0
Merged-chr7-19359575-4	chr7	19359452	19359652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145822)	promoter-TSS (NM_145822)	-69.0	NM_145822	70333.0	Mm.171370	NM_145822	ENSMUSG00000047649	Cd3eap	1190028F09|2610103M17Rik|ASE-1|Ase1|CAST|PAF49	CD3E antigen, epsilon polypeptide associated protein	protein-coding	35.0	61.0	55.0	422.0	71.5	34.5	18.5	39.5
Merged-chr9-118703420-3	chr9	118703316	118703516	+	797.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 15 of 27)	intron (NM_133721, intron 15 of 27)	-8276.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	0.0	1.5	4.0	41.0	14.5	14.5	15.0	9.5
Merged-chr10-44448258-4	chr10	44448164	44448364	+	926.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007548, intron 3 of 6)	intron (NM_007548, intron 3 of 6)	10484.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	15.5	12.0	16.0	274.5	46.0	12.0	10.5	18.5
Merged-chr8-117305583-4	chr8	117305491	117305691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-43579.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	25.0	48.5	26.5	437.0	80.0	26.5	34.5	27.0
Merged-chr4-149518124-4	chr4	149518022	149518222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023465)	promoter-TSS (NM_023465)	-119.0	NM_023465	67087.0	Mm.299735	NM_023465	ENSMUSG00000028988	Ctnnbip1	1110008O09Rik|2310001I19Rik|AW457332|Catnbip1|Icat	catenin beta interacting protein 1	protein-coding	189.5	407.5	195.5	2516.5	514.5	187.0	222.0	178.5
Merged-chr10-81289474-4	chr10	81289339	81289539	+	879.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282095, intron 1 of 20)	intron (NM_001282095, intron 1 of 20)	1828.0	NM_013769	27375.0	Mm.27984	NM_013769	ENSMUSG00000034917	Tjp3	-	tight junction protein 3	protein-coding	7.5	14.5	6.5	70.0	37.0	8.0	12.5	9.0
Merged-chr4-42965534-4	chr4	42965416	42965616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4430.0	NM_026088	67317.0	Mm.478018	NM_026088	ENSMUSG00000028451	1700022I11Rik	-	RIKEN cDNA 1700022I11 gene	protein-coding	30.0	30.0	17.0	387.0	70.0	27.5	55.5	37.5
Merged-chr4-33244108-4	chr4	33243972	33244172	+	883.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	4715.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	4.5	20.0	13.0	117.0	25.5	9.5	5.5	9.0
Merged-chr12-91747936-2	chr12	91747836	91748036	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	38500.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	13.0	7.5	7.5	127.5	24.5	3.5	5.0	8.0
Merged-chr3-152111214-3	chr3	152111112	152111312	+	751.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 3 of 5)	intron (NM_016867, intron 3 of 5)	54688.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	15.5	10.0	12.5	97.0	13.5	4.0	5.0	2.0
Merged-chr7-99155530-3	chr7	99155421	99155621	+	956.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026384, intron 7 of 7)	intron (NM_026384, intron 7 of 7)	-14377.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	2.0	0.0	3.0	25.0	21.0	4.5	14.5	25.0
Merged-chr12-117558122-3	chr12	117557992	117558192	+	887.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 3 of 27)	intron (NM_175930, intron 3 of 27)	41613.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	19.0	16.5	18.0	367.5	12.5	7.0	4.0	1.5
Merged-chr11-69258596-4	chr11	69258554	69258754	+	842.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-21632.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	7.5	4.5	4.5	77.0	25.0	6.0	10.0	9.0
Merged-chr19-6118520-4	chr19	6118416	6118616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133678)	promoter-TSS (NM_133678)	70.0	NM_133678	66406.0	Mm.303924	NM_133678	ENSMUSG00000024790	Sac3d1	2410004C24Rik|AU015683|shd1	SAC3 domain containing 1	protein-coding	52.0	77.5	27.0	559.0	92.5	34.5	25.5	56.0
Merged-chr11-49100609-4	chr11	49100517	49100717	+	938.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	13140.0	NM_146337	258334.0	Mm.390388	NM_146337	ENSMUSG00000047511	Olfr1396	MOR276-2	olfactory receptor 1396	protein-coding	16.0	13.5	20.5	255.5	51.0	19.5	16.0	14.0
Merged-chr10-39418547-4	chr10	39418439	39418639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	48740.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	49.0	36.0	89.0	1787.0	132.0	29.5	54.0	55.0
Merged-chr9-114785551-4	chr9	114785460	114785660	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-3567.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	32.0	34.5	25.5	388.0	66.5	10.5	33.0	18.5
Merged-chr11-77318921-3	chr11	77318818	77319018	+	748.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 1 of 14)	RMER6A|LTR|ERVK	-29362.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	8.0	10.0	4.0	51.0	10.0	8.0	9.0	10.0
Merged-chr7-100780456-3	chr7	100780371	100780571	+	802.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178764, intron 2 of 8)	intron (NM_178764, intron 2 of 8)	73836.0	NM_001362170	319604.0	Mm.260362	NM_178764	ENSMUSG00000029461	Fam168a	2610030B18Rik|B930006L02Rik|mKIAA0280	family with sequence similarity 168, member A	protein-coding	6.0	7.5	7.0	160.5	16.5	5.0	8.5	6.5
Merged-chr1-88247044-4	chr1	88246971	88247171	+	905.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281466, intron 24 of 41)	intron (NM_001281466, intron 24 of 41)	20051.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	16.0	9.5	20.0	220.5	10.0	11.0	7.0	17.5
Merged-chr13-23533783-4	chr13	23533670	23533870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175661)	promoter-TSS (NM_175661)	-141.0	NM_175661	319173.0	Mm.377878	NM_175661	ENSMUSG00000061991	Hist1h2af	H2a-221	histone cluster 1, H2af	protein-coding	49.0	40.0	50.5	739.5	101.5	40.0	57.5	36.5
Merged-chr19-25672324-4	chr19	25672211	25672411	+	962.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045347)	promoter-TSS (NR_045347)	-72.0	NR_045347	100503074.0	Mm.140012	NR_045347	ENSMUSG00000101089	2610016A17Rik	2610317C19Rik	RIKEN cDNA 2610016A17 gene	ncRNA	9.0	16.5	14.0	234.0	92.0	29.5	57.5	52.5
Merged-chr19-5661169-4	chr19	5661067	5661267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164568, intron 1 of 15)	intron (NM_001164568, intron 1 of 15)	2540.0	NM_001164482	20469.0	Mm.3072	NM_011379	ENSMUSG00000056917	Sipa1	Spa1	signal-induced proliferation associated gene 1	protein-coding	75.5	86.0	43.0	941.5	146.0	59.5	65.5	67.5
Merged-chr10-112000628-4	chr10	112000524	112000724	+	839.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44B|DNA|TcMar-Tigger	-3360.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	10.0	25.0	21.0	37.0	38.0	9.5	6.0	7.5
Merged-chr3-116837182-3	chr3	116837040	116837240	+	827.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22427.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	11.0	8.0	11.0	85.5	5.5	4.5	2.5	4.5
Merged-chr1-172513564-4	chr1	172513471	172513671	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7559.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	6.5	9.5	5.5	98.0	27.0	12.0	16.0	16.5
Merged-chr5-53937329-3	chr5	53937212	53937412	+	956.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H2|LTR|ERVL-MaLR	-61211.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	11.5	15.5	19.0	253.0	6.0	6.5	1.0	5.0
Merged-chr12-86769183-4	chr12	86769068	86769268	+	786.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34799.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	6.5	4.5	3.5	101.0	12.5	18.0	11.0	16.0
Merged-chr11-43568465-3	chr11	43568376	43568576	+	593.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001045530, intron 3 of 5)	intron (NM_001045530, intron 3 of 5)	33086.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	3.5	6.5	7.0	77.5	7.0	10.5	4.5	15.5
Merged-chr10-58497997-4	chr10	58497924	58498124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162956)	promoter-TSS (NM_001162956)	87.0	NM_001162956	76138.0	Mm.211744	NM_001162956	ENSMUSG00000038010	Ccdc138	6230424H07Rik|BC042726	coiled-coil domain containing 138	protein-coding	105.0	207.0	219.0	1543.0	225.5	114.0	114.0	128.0
Merged-chr12-102430124-5	chr12	102430094	102430294	+	949.048767	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	CT-rich|Low_complexity|Low_complexity	9619.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	21.5	25.5	11.5	136.0	18.0	8.5	8.0	17.0
Merged-chr2-103968486-3	chr2	103968389	103968589	+	887.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142337, intron 1 of 3)	ID_B1|SINE|B4	-1068.0	NM_001142336	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	6.5	6.5	4.0	83.0	27.0	12.5	13.5	11.5
Merged-chr8-10848292-4	chr8	10848207	10848407	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34147.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	29.5	48.5	19.5	526.5	51.0	7.0	13.0	30.0
Merged-chr1-13383705-4	chr1	13383615	13383815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-9632.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	47.0	90.0	42.5	674.0	176.0	69.0	54.5	46.0
Merged-chr2-118804692-4	chr2	118804585	118804785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9318.0	NM_026412	51944.0	Mm.252695	NM_026412	ENSMUSG00000027331	Knstrn	1700025D04Rik|C15orf23|D2Ertd750e|SKAP|Traf4af1	kinetochore-localized astrin/SPAG5 binding	protein-coding	56.5	70.5	34.5	1349.5	105.5	39.0	41.0	54.5
Merged-chr9-70830334-4	chr9	70830249	70830449	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	104459.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	31.0	47.5	20.0	296.5	90.5	24.0	26.0	27.0
Merged-chr19-53855173-4	chr19	53855066	53855266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 12 of 13)	intron (NM_001170847, intron 12 of 13)	-37065.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	35.5	60.5	38.5	689.5	93.5	19.0	37.5	36.0
Merged-chr6-49039706-4	chr6	49039610	49039810	+	914.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053110, intron 1 of 10)	B3A|SINE|B2	3192.0	NM_053110	93695.0	Mm.302602	NM_053110	ENSMUSG00000029816	Gpnmb	DC-HIL|Dchil|ipd	glycoprotein (transmembrane) nmb	protein-coding	17.0	23.0	16.0	222.0	34.5	9.0	11.5	14.5
Merged-chr6-87543504-4	chr6	87543426	87543626	+	850.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-10267.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	8.0	9.5	3.5	111.0	16.0	7.0	5.0	11.0
Merged-chr13-35906099-4	chr13	35906067	35906267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145938, intron 1 of 7)	CpG	180.0	NM_145938	208366.0	Mm.35545	NM_145938	ENSMUSG00000021418	Rpp40	D8Bwg1265e|Rnasep1	ribonuclease P 40 subunit	protein-coding	54.0	106.5	103.0	1065.5	118.5	46.5	55.5	87.5
Merged-chr4-59803603-4	chr4	59803492	59803692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2058.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	52.5	97.5	66.5	1083.0	122.5	41.5	60.5	45.5
Merged-chr6-120457309-3	chr6	120457217	120457417	+	859.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5880.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	6.0	8.0	6.0	71.0	27.5	11.0	8.5	11.5
Merged-chr15-98699637-4	chr15	98699553	98699753	+	968.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8574.0	NM_153518	105833.0	Mm.26205	NM_153518	ENSMUSG00000003354	Ccdc65	4933417K04Rik|AI428139|AU020178|NYD-SP28	coiled-coil domain containing 65	protein-coding	19.0	32.0	14.0	207.0	46.5	11.0	21.5	21.0
Merged-chr13-98255212-4	chr13	98255136	98255336	+	977.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178918, intron 6 of 12)	intron (NM_178918, intron 6 of 12)	7756.0	NM_178918	105372.0	Mm.28221	NM_178918	ENSMUSG00000041747	Utp15	AW544865	UTP15 small subunit processome component	protein-coding	10.5	18.5	9.0	218.5	103.0	22.0	29.5	32.0
Merged-chr13-60660843-4	chr13	60660721	60660921	+	988.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	58610.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	41.5	57.5	47.5	680.5	43.5	35.5	23.5	16.0
Merged-chr8-71507802-4	chr8	71507691	71507891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_032398, exon 3 of 6)	exon (NM_032398, exon 3 of 6)	3978.0	NM_032398	84094.0	Mm.260768	NM_032398	ENSMUSG00000034845	Plvap	MECA32|Pv1	plasmalemma vesicle associated protein	protein-coding	35.5	49.5	23.0	533.5	191.5	68.0	70.0	75.0
Merged-chr14-32572705-3	chr14	32572608	32572808	+	723.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081221, intron 18 of 20)	intron (NM_001081221, intron 18 of 20)	-26700.0	NM_001347590	107751.0	Mm.119274	NM_001001796	ENSMUSG00000041730	Prrxl1	Drg11|Drgx	paired related homeobox protein-like 1	protein-coding	10.5	9.0	7.0	69.0	4.5	2.5	6.5	2.0
Merged-chr10-91195267-4	chr10	91195159	91195359	+	977.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13B|LTR|ERVK	-23640.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	18.5	34.0	20.5	232.5	50.5	11.0	33.5	17.5
Merged-chr2-145860763-4	chr2	145860635	145860835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028724, exon 9 of 13)	exon (NM_028724, exon 9 of 13)	-42506.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	57.0	87.0	89.0	1658.5	169.0	40.0	73.5	81.0
Merged-chr16-91623243-4	chr16	91623147	91623347	+	882.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357351, intron 19 of 21)	intron (NM_001357351, intron 19 of 21)	-4248.0	NM_138664	246738.0	Mm.101927	NM_138664	ENSMUSG00000039763	Dnajc28	BC020175|ORF28	DnaJ heat shock protein family (Hsp40) member C28	protein-coding	11.0	15.5	4.0	66.0	64.5	26.0	26.0	18.0
Merged-chr3-51481258-4	chr3	51481141	51481341	+	880.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2725.0	NM_016858	19338.0	Mm.1664	NM_016858	ENSMUSG00000027739	Rab33b	-	RAB33B, member RAS oncogene family	protein-coding	12.0	26.5	2.0	175.0	63.0	10.5	15.5	13.5
Merged-chr15-101262688-4	chr15	101262590	101262790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4156.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	131.5	138.5	133.0	1896.0	309.0	92.0	165.0	120.0
Merged-chr11-20204137-3	chr11	20204044	20204244	+	796.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 1 of 5)	intron (NM_008996, intron 1 of 5)	2732.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	4.5	17.0	12.0	52.5	13.0	9.0	5.0	2.0
Merged-chr13-44601262-1	chr13	44601162	44601362	+	547.0	f0_balb.idr	Intergenic	Intergenic	-129512.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	5.0	11.0	7.5	76.0	7.0	1.0	2.0	2.0
Merged-chr17-35135284-5	chr17	35135171	35135371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252468)	promoter-TSS (NM_001252468)	93.0	NM_057171	224727.0	Mm.203962	NM_057171	ENSMUSG00000024392	Bag6	2410045D21Rik|AA408914|BAG-6|Bat3|D17H6S52E|G3|Scythe	BCL2-associated athanogene 6	protein-coding	39.0	112.5	57.0	545.0	133.5	44.5	34.0	56.0
Merged-chr14-54383478-4	chr14	54383360	54383560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	22619.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	63.5	111.5	120.0	1875.0	141.0	48.5	71.0	63.5
Merged-chr11-113752476-4	chr11	113752381	113752581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163346)	promoter-TSS (NM_001163346)	-666.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	39.5	88.5	38.0	411.5	116.0	24.0	33.5	47.5
Merged-chr13-100775888-4	chr13	100775774	100775974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021886)	promoter-TSS (NM_021886)	25.0	NM_021886	26886.0	Mm.273502	NM_021886	ENSMUSG00000045273	Cenph	1700021I11Rik|2410018A12Rik|2610042E16Rik|2810046K12Rik|AU044255|CENP-H|ENP	centromere protein H	protein-coding	52.0	57.5	33.5	473.5	114.5	26.5	54.0	39.5
Merged-chr4-126155271-4	chr4	126155156	126155356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025856, intron 6 of 11)	MTE2a|LTR|ERVL-MaLR	7253.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	39.5	26.0	32.5	350.0	40.5	6.5	21.0	21.5
Merged-chr6-29252321-4	chr6	29252246	29252446	+	954.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20142.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	21.0	17.5	15.0	146.5	95.0	19.0	40.5	14.0
Merged-chr6-34481394-4	chr6	34481293	34481493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007563, intron 1 of 2)	intron (NM_007563, intron 1 of 2)	5037.0	NM_007563	12183.0	Mm.282863	NM_007563	ENSMUSG00000038871	Bpgm	AI323730|AL022789|C86192	2,3-bisphosphoglycerate mutase	protein-coding	42.5	40.0	27.5	697.5	53.5	26.0	40.0	39.0
Merged-chr13-10251957-4	chr13	10251864	10252064	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 1 of 4)	L1MC1|LINE|L1	108839.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	19.0	17.5	27.0	451.5	55.5	19.0	30.5	22.5
Merged-chr3-122638831-4	chr3	122638733	122638933	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19119.0	NM_001114665	214459.0	Mm.209491	NM_153118	ENSMUSG00000039735	Fnbp1l	2610318I01Rik|AW548221|TOCA1|toca-1	formin binding protein 1-like	protein-coding	19.5	29.5	17.0	424.5	37.0	22.5	23.0	19.0
Merged-chr16-57559186-3	chr16	57559093	57559293	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	9951.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	7.0	8.0	24.5	254.5	10.0	4.0	6.0	5.5
Merged-chr17-29033885-3	chr17	29033776	29033976	+	847.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036613, intron 1 of 6)	B1_Mm|SINE|Alu	1216.0	NR_036613	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	5.5	10.0	7.0	69.0	16.5	1.5	4.0	7.0
Merged-chr8-104253180-3	chr8	104253092	104253292	+	778.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037841, intron 1 of 2)	B3A|SINE|B2	2331.0	NM_001286383	75458.0	Mm.269219	NM_029295	ENSMUSG00000054400	Cklf	1700001C14Rik|1810018M11Rik|A730028G07Rik|C32|CKLF1|CKLF3|CKLF4|CKLF5|Cklf2|Cklf6|HSPC224|UCK-1	chemokine-like factor	protein-coding	10.5	10.0	4.5	145.5	26.5	8.0	7.0	6.5
Merged-chr4-41773684-4	chr4	41773588	41773788	+	969.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154591, intron 2 of 4)	CpG-9830	413.0	NM_001361246	20301.0	Mm.335946	NM_011336	ENSMUSG00000073888	Ccl27a	ALP|AW558992|CTACK|CTAK|Ccl27|ESkine|ILC|PESKY|Scya27|Scya27a	chemokine (C-C motif) ligand 27A	protein-coding	19.5	21.0	22.0	184.0	146.0	77.0	97.5	83.5
Merged-chr11-98774869-1	chr11	98774769	98774969	+	1000.0	f0_c57.idr	5' UTR (NM_145434, exon 1 of 8)	5' UTR (NM_145434, exon 1 of 8)	508.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	5.0	15.5	12.0	80.0	35.5	15.5	6.5	11.5
Merged-chr6-51551665-6	chr6	51551492	51551692	+	943.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	MTC|LTR|ERVL-MaLR	6299.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	23.5	30.5	21.0	313.5	38.5	24.5	15.5	22.0
Merged-chr8-13669731-3	chr8	13669642	13669842	+	789.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	7845.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	5.0	11.5	11.5	157.5	22.0	3.5	9.0	12.5
Merged-chr6-120112636-4	chr6	120112532	120112732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	19252.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	197.0	245.5	213.0	2979.0	326.5	133.0	146.5	134.0
Merged-chr3-95281832-4	chr3	95281727	95281927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173347, exon 1 of 8)	5' UTR (NM_173347, exon 1 of 8)	249.0	NM_173347	229589.0	Mm.14155	NM_173347	ENSMUSG00000015711	Prune1	9230112O05Rik|C130058A12|DRES-17|HTCD37|PRUNEM1|Prune|Prune-M1	prune exopolyphosphatase	protein-coding	135.5	142.5	61.5	1453.0	245.5	110.5	110.0	82.0
Merged-chr7-27331006-4	chr7	27330917	27331117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175641, intron 4 of 32)	CpG	2631.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	58.5	39.5	28.5	490.5	106.0	45.5	52.0	34.0
Merged-chr9-35114014-4	chr9	35113946	35114146	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-2682.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	14.5	18.5	11.0	157.5	34.0	20.5	15.5	21.5
Merged-chr3-81110922-3	chr3	81110815	81111015	+	638.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	74499.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	14.5	6.5	4.5	131.0	23.5	2.0	6.5	9.5
Merged-chr8-67879501-4	chr8	67879395	67879595	+	895.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177698, intron 8 of 14)	intron (NM_177698, intron 8 of 14)	31451.0	NM_030263	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	20.0	15.5	27.0	379.0	20.5	9.5	16.0	24.5
Merged-chr19-10948399-4	chr19	10948325	10948525	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023731, exon 1 of 4)	exon (NM_023731, exon 1 of 4)	841.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	17.0	25.0	30.0	213.0	56.0	18.0	26.5	22.0
Merged-chr2-166995449-4	chr2	166995359	166995559	+	820.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	intron (NM_001109905, intron 1 of 11)	840.0	NM_011490	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	12.0	7.0	10.5	40.5	39.0	8.5	4.5	10.0
Merged-chr17-31072156-2	chr17	31072046	31072246	+	779.0	f0_balb.idr|f1_balb.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	14452.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	6.5	5.0	11.5	112.5	4.5	3.0	4.0	1.0
Merged-chr9-56097972-7	chr9	56097870	56098070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	7994.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	12.0	26.5	16.5	167.5	52.0	22.5	18.0	19.0
Merged-chr10-94486192-3	chr10	94486112	94486312	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-28645.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	6.5	8.0	14.5	282.0	5.5	4.5	8.5	18.0
Merged-chr19-5924124-4	chr19	5924071	5924271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026772, intron 1 of 1)	intron (NM_026772, intron 1 of 1)	645.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	36.0	51.0	21.0	218.0	65.5	26.5	23.5	36.5
Merged-chr2-144266084-4	chr2	144265968	144266168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_030762)	TTS (NR_030762)	134.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	99.5	92.5	156.0	2734.5	196.0	51.0	120.0	111.5
Merged-chr7-29818929-4	chr7	29818802	29819002	+	938.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145880, intron 1 of 4)	intron (NM_001145880, intron 1 of 4)	2830.0	NM_001145880	233056.0	Mm.224766	NM_146185	ENSMUSG00000011427	Zfp790	6330581L23Rik	zinc finger protein 790	protein-coding	6.0	14.0	10.5	98.0	42.0	11.0	19.0	12.0
Merged-chr1-36071384-4	chr1	36071281	36071481	+	902.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	2981.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	20.5	30.0	16.5	268.5	25.5	18.5	7.5	16.0
Merged-chr3-146682657-3	chr3	146682565	146682765	+	634.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31348.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	5.5	6.0	7.5	81.5	6.5	3.0	2.0	2.5
Merged-chr8-105254284-4	chr8	105254178	105254378	+	989.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271915, exon 1 of 1)	exon (NM_001271915, exon 1 of 1)	875.0	NM_001271915	97440.0	Mm.489600	NM_178879	ENSMUSG00000069920	B3gnt9	3-Gn-T9|B3gnt9-ps|BGnT-9|C76565|C76566|beta-1|beta3Gn-T9	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 9	protein-coding	23.0	29.0	15.5	251.5	47.0	18.5	28.5	20.0
Merged-chr7-44745339-4	chr7	44745240	44745440	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289839, intron 1 of 4)	intron (NM_001289839, intron 1 of 4)	3009.0	NM_001289836	243963.0	Mm.382935	NM_178734	ENSMUSG00000048012	Zfp473	D030014N22Rik|Znf473|zfp-100	zinc finger protein 473	protein-coding	40.5	47.5	27.0	535.5	75.5	27.5	31.0	19.5
Merged-chr14-73325434-4	chr14	73325343	73325543	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 1 of 26)	CpG	379.0	NM_009029	19645.0	Mm.273862	NM_009029	ENSMUSG00000022105	Rb1	Rb|Rb-1|pRb|pp105	RB transcriptional corepressor 1	protein-coding	16.5	11.0	11.0	71.5	21.5	10.5	8.5	8.5
Merged-chr17-71082122-4	chr17	71082062	71082262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 17 of 36)	intron (NM_001083934, intron 17 of 36)	62605.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	84.0	56.5	106.0	1490.0	144.5	52.0	86.0	105.0
Merged-chr7-19590071-4	chr7	19589980	19590180	+	800.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_125836, intron 6 of 17)	intron (NR_125836, intron 6 of 17)	12793.0	NM_022409	63872.0	Mm.23310	NM_022409	ENSMUSG00000011267	Zfp296	2210018A16Rik|Znf296	zinc finger protein 296	protein-coding	7.0	12.0	6.0	84.0	30.0	7.5	8.5	13.0
Merged-chr4-63391459-4	chr4	63391354	63391554	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 4 of 21)	intron (NM_001045514, intron 4 of 21)	6786.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	48.0	30.5	65.5	667.5	79.0	25.0	24.0	15.5
Merged-chr9-41160692-2	chr9	41160592	41160792	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2630.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	17.5	26.0	19.5	311.0	38.5	23.5	24.5	22.5
Merged-chr12-75853713-4	chr12	75853616	75853816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 1 of 115)	intron (NM_001005510, intron 1 of 115)	35398.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	34.5	53.5	60.0	1372.5	83.5	24.5	46.5	48.0
Merged-chr8-20424831-4	chr8	20424728	20424928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028428)	promoter-TSS (NR_028428)	-14.0	NR_028428	381598.0	Mm.359054	NM_001024708	ENSMUSG00000071793	2610005L07Rik	2810038F24Rik|6720476A01Rik	cadherin 11 pseudogene	pseudo	201.5	293.0	89.5	663.0	251.5	118.5	128.0	91.5
Merged-chr6-76269143-3	chr6	76269047	76269247	+	939.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-973330.0	NR_155299	74342.0	Mm.292568	NM_028880	ENSMUSG00000060780	Lrrtm1	4632401D06Rik|AW125451	leucine rich repeat transmembrane neuronal 1	protein-coding	30.0	37.0	36.0	691.0	8.0	5.0	7.5	2.5
Merged-chr17-83271635-4	chr17	83271492	83271692	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	56309.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	11.0	16.5	4.5	186.0	19.5	7.5	9.0	11.0
Merged-chr17-46253868-4	chr17	46253789	46253989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111142)	promoter-TSS (NM_001111142)	-276.0	NM_001111142	224813.0	Mm.70999	NM_001111142	ENSMUSG00000071073	Lrrc73	Gm88	leucine rich repeat containing 73	protein-coding	83.0	130.0	60.0	1092.5	228.5	77.0	58.5	86.0
Merged-chr5-90894417-4	chr5	90894328	90894528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3183.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	87.5	72.0	92.0	1648.0	152.0	48.5	106.0	50.0
Merged-chr12-85601112-4	chr12	85601008	85601208	+	989.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	intron (NM_001205053, intron 1 of 3)	1090.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	15.5	10.5	8.5	116.0	28.0	16.0	12.0	15.5
Merged-chr9-89221015-4	chr9	89220919	89221119	+	886.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	intron (NM_001359993, intron 2 of 2)	9635.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	27.0	22.5	48.0	486.5	15.0	4.0	8.5	10.5
Merged-chr4-127077471-4	chr4	127077370	127077570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285885)	promoter-TSS (NM_001285885)	87.0	NM_001285887	100177.0	Mm.276096	NM_177462	ENSMUSG00000042408	Zmym6	9330177P20Rik|AI593204|AI661340|D4Wsu24e|Zfp258	zinc finger, MYM-type 6	protein-coding	103.5	204.0	62.0	1151.5	351.5	116.0	121.0	95.5
Merged-chr5-148741853-3	chr5	148741722	148741922	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028285)	promoter-TSS (NR_028285)	-18.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	4.0	28.0	13.5	58.0	159.0	60.5	45.0	41.5
Merged-chr16-33400385-4	chr16	33400276	33400476	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358569)	promoter-TSS (NM_001358569)	-69.0	NM_001358569	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	19.5	27.5	21.5	351.5	46.0	13.0	16.5	19.0
Merged-chr7-139366744-3	chr7	139366650	139366850	+	897.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22359.0	NM_183144	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	4.5	10.0	10.0	133.0	10.5	2.5	7.0	7.5
Merged-chr7-110006591-4	chr7	110006447	110006647	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037959)	promoter-TSS (NR_037959)	99.0	NR_037959	69781.0	Mm.440728	NR_037959	ENSMUSG00000101585	1600010M07Rik	-	RIKEN cDNA 1600010M07 gene	ncRNA	19.5	15.5	18.0	327.5	44.0	7.0	14.0	18.5
Merged-chr4-59549447-4	chr4	59549343	59549543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178164)	promoter-TSS (NM_178164)	-79.0	NM_144904	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	203.5	344.5	195.5	2821.0	510.0	228.5	223.5	184.5
Merged-chr4-137578432-4	chr4	137578335	137578535	+	880.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3255.0	NM_001033979	435811.0	Mm.359646	NM_001033979	ENSMUSG00000094035	Ldlrad2	-	low density lipoprotein receptor A domain containing 2	protein-coding	23.0	18.5	8.5	158.5	30.5	5.0	8.5	12.5
Merged-chr12-32292183-4	chr12	32292066	32292266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83517.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	25.5	52.5	19.0	385.5	52.0	29.5	24.0	15.0
Merged-chr11-76479888-4	chr11	76479788	76479988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 2 of 21)	MER117|DNA|hAT-Charlie	-11423.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	100.5	150.0	102.0	1354.5	209.5	99.5	84.0	94.5
Merged-chr4-99478766-4	chr4	99478652	99478852	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177547.0	NM_010425	15221.0	Mm.4758	NM_010425	ENSMUSG00000067261	Foxd3	CWH3|Genesis|Hfh2	forkhead box D3	protein-coding	15.0	34.5	38.5	914.5	87.0	27.0	54.0	39.0
Merged-chr10-91032634-3	chr10	91032537	91032737	+	863.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042558, intron 16 of 26)	intron (NM_001042558, intron 16 of 26)	50106.0	NM_001042558	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	2.0	6.0	0.5	86.5	72.0	15.0	36.5	29.0
Merged-chr14-103034270-4	chr14	103034187	103034387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045657)	promoter-TSS (NR_045657)	-484.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	59.0	148.0	53.0	1081.0	280.5	86.0	90.5	65.0
Merged-chr13-78163578-2	chr13	78163478	78163678	+	947.25	f1_balb.idr|f1_c57bl6.idr	exon (NM_001163419, exon 10 of 10)	exon (NM_001163419, exon 10 of 10)	32871.0	NM_001347538	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	9.5	11.0	6.0	129.0	29.0	2.5	7.5	9.0
Merged-chr4-45612329-4	chr4	45612234	45612434	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27602.0	NR_151513	100040557.0	Mm.383510	NR_151513	ENSMUSG00000085980	Gm12408	-	predicted gene 12408	ncRNA	12.5	9.0	4.0	130.5	23.0	11.0	16.0	21.0
Merged-chr14-9468847-4	chr14	9468753	9468953	+	925.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-415242.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	14.5	12.0	10.5	317.0	58.5	13.5	24.0	16.0
Merged-chr10-94525136-4	chr10	94525031	94525231	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	intron (NM_172051, intron 1 of 3)	10274.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	19.5	30.0	19.0	289.0	37.5	12.0	11.5	6.0
Merged-chr7-43664197-4	chr7	43664089	43664289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4028.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	55.5	73.5	63.0	942.0	99.5	40.0	53.5	38.0
Merged-chr2-102863735-3	chr2	102863681	102863881	+	608.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 2 of 13)	intron (NM_001039150, intron 2 of 13)	37884.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	8.0	8.0	8.0	54.5	13.0	8.0	2.5	8.0
Merged-chr11-69401387-4	chr11	69401298	69401498	+	969.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 17 of 22)	intron (NM_001017426, intron 17 of 22)	-3164.0	NM_025915	67020.0	Mm.390406	NM_025915	ENSMUSG00000045377	Tmem88	2600017H02Rik	transmembrane protein 88	protein-coding	24.5	29.0	10.5	103.5	62.5	18.5	22.5	22.5
Merged-chr16-31756612-3	chr16	31756511	31756711	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252436, intron 1 of 22)	intron (NM_001252436, intron 1 of 22)	2261.0	NM_001252436	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	16.0	21.5	10.5	407.0	14.5	4.5	8.5	10.0
Merged-chr5-92107440-4	chr5	92107278	92107478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	B2_Mm2|SINE|B2	-23634.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	14.5	19.0	28.5	323.5	44.0	20.0	32.5	26.0
Merged-chr1-172346929-3	chr1	172346837	172347037	+	916.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	5727.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	19.5	9.5	8.5	134.0	33.5	8.5	8.5	7.0
Merged-chr2-165792922-3	chr2	165792822	165793022	+	828.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252585, exon 19 of 22)	exon (NM_001252585, exon 19 of 22)	65251.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	5.0	8.0	7.5	105.5	10.5	7.0	4.0	4.0
Merged-chr19-18620022-4	chr19	18619900	18620100	+	769.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	11813.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	6.0	9.5	6.5	74.0	12.5	4.0	2.5	6.5
Merged-chr1-106071470-3	chr1	106071386	106071586	+	837.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81080.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	13.0	8.5	10.5	133.0	11.5	6.5	8.0	11.5
Merged-chr14-52280039-4	chr14	52279941	52280141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172601)	promoter-TSS (NM_172601)	-646.0	NM_172601	76338.0	Mm.32870	NM_172601	ENSMUSG00000022159	Rab2b	1500012D09Rik|4930528G15Rik|A230002G14|D530043M21Rik	RAB2B, member RAS oncogene family	protein-coding	29.0	50.5	29.5	425.5	128.5	39.0	44.5	51.5
Merged-chr7-100121052-4	chr7	100120995	100121195	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133692, intron 1 of 11)	intron (NM_133692, intron 1 of 11)	405.0	NM_133692	67967.0	Mm.37562	NM_133692	ENSMUSG00000030726	Pold3	2410142G14Rik|C85233|P66|P68	polymerase (DNA-directed), delta 3, accessory subunit	protein-coding	18.5	35.0	25.0	225.5	67.0	9.5	13.5	33.5
Merged-chr2-173089643-4	chr2	173089546	173089746	+	908.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29879.0	NM_001081387	664799.0	Mm.389396	NM_001081387	ENSMUSG00000070495	Ctcfl	Boris	CCCTC-binding factor (zinc finger protein)-like	protein-coding	10.0	6.0	8.0	120.5	43.0	14.0	7.0	15.5
Merged-chr14-77547069-4	chr14	77546953	77547153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253759, intron 7 of 19)	intron (NM_001253759, intron 7 of 19)	-40185.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	47.0	59.5	55.5	971.0	154.0	62.5	62.5	80.0
Merged-chr12-111427920-4	chr12	111427811	111428011	+	918.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 9 of 13)	intron (NM_001289487, intron 9 of 13)	10466.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	13.5	27.0	8.5	114.5	54.5	17.0	9.0	29.0
Merged-chr19-5842416-4	chr19	5842389	5842589	+	911.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_003513, exon 1 of 1)	non-coding (NR_003513, exon 1 of 1)	2989.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	15.5	15.5	23.5	143.5	27.0	10.0	17.5	14.0
Merged-chr8-68927137-2	chr8	68927048	68927248	+	590.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	46593.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	7.0	1.5	2.0	9.0	13.5	7.5	10.0	7.0
Merged-chr8-72272942-3	chr8	72272853	72273053	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32935.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	19.0	56.0	18.5	203.5	13.0	9.5	9.0	8.0
Merged-chr5-147913969-3	chr5	147913918	147914118	+	839.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19203.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	11.0	5.0	8.5	84.5	26.5	5.0	3.5	8.5
Merged-chr4-12090008-4	chr4	12089935	12090135	+	844.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198957, intron 2 of 3)	CpG-9730	665.0	NM_198957	77604.0	Mm.474129	NM_198957	ENSMUSG00000052137	Rbm12b2	AV299215|C430048L16Rik|Rbm12bb	RNA binding motif protein 12 B2	protein-coding	12.0	13.0	12.5	165.5	18.0	16.5	17.5	19.0
Merged-chr13-43785198-4	chr13	43785108	43785308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289915)	promoter-TSS (NM_001289915)	96.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	292.0	408.5	292.0	3305.0	645.0	331.5	337.5	262.5
Merged-chr1-92652155-3	chr1	92652088	92652288	+	805.988892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3347.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	9.0	5.5	8.5	113.5	17.5	3.0	6.5	4.5
Merged-chr2-181541973-4	chr2	181541873	181542073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271585, intron 2 of 5)	intron (NM_001271585, intron 2 of 5)	21488.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	34.5	33.0	25.5	444.0	47.5	20.0	18.5	29.5
Merged-chr17-21450355-4	chr17	21450256	21450456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308323)	promoter-TSS (NM_001308323)	-18.0	NM_001308323	22709.0	Mm.293030	NM_009558	ENSMUSG00000023892	Zfp51	Zfp-51|zfec12	zinc finger protein 51	protein-coding	108.5	189.5	104.0	2148.5	375.5	129.5	235.5	131.5
Merged-chr19-42094705-3	chr19	42094579	42094779	+	938.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145501, intron 1 of 8)	intron (NM_145501, intron 1 of 8)	4244.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	7.0	11.5	10.0	147.0	7.5	2.5	1.5	5.0
Merged-chr1-150165040-4	chr1	150164949	150165149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110420)	promoter-TSS (NR_110420)	-101.0	NR_110420	102639566.0	Mm.417208	NR_110420	ENSMUSG00000097754	Ptgs2os2	Gm26687|Linc-cox2|Lincrna-cox2	prostaglandin-endoperoxide synthase 2, opposite strand 2	ncRNA	108.0	239.5	192.0	1830.0	419.5	99.5	176.5	102.0
Merged-chr3-127754496-2	chr3	127754398	127754598	+	632.25	f0_balb.idr|f1_balb.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	26029.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	5.0	9.0	10.5	269.0	1.0	0.5	0.0	4.0
Merged-chr3-104220539-4	chr3	104220449	104220649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159354)	promoter-TSS (NM_001159354)	-143.0	NM_001159354	99470.0	Mm.264849	NM_133853	ENSMUSG00000052539	Magi3	4732496O19Rik|6530407C02Rik|AA407180|AI120132|mKIAA1634	membrane associated guanylate kinase, WW and PDZ domain containing 3	protein-coding	169.5	272.0	171.0	3146.5	566.5	204.5	319.5	241.0
Merged-chr8-70806716-4	chr8	70806621	70806821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1728.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	102.0	114.5	115.5	1467.5	155.0	50.5	59.5	74.0
Merged-chr2-150750837-4	chr2	150750719	150750919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355068, intron 1 of 13)	intron (NM_001355068, intron 1 of 13)	1738.0	NM_172117	12497.0	Mm.275524	NM_172117	ENSMUSG00000033068	Entpd6	2700026H11Rik|Cd39l2|NTPDase-6	ectonucleoside triphosphate diphosphohydrolase 6	protein-coding	25.0	32.0	26.0	697.0	75.0	19.0	42.5	28.0
Merged-chr2-127079655-4	chr2	127079569	127079769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 1 of 7)	MTA_Mm|LTR|ERVL-MaLR	9012.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	74.5	67.0	50.0	562.5	69.0	27.5	28.5	26.0
Merged-chr5-3343120-5	chr5	3343033	3343233	+	931.657166	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009873)	promoter-TSS (NM_009873)	-760.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	11.5	16.5	16.5	153.0	26.0	18.5	8.5	24.0
Merged-chr1-136525161-2	chr1	136525061	136525261	+	670.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001287179, intron 26 of 28)	intron (NM_001287179, intron 26 of 28)	57313.0	NM_001287179	381293.0	Mm.458468	NM_001081258	ENSMUSG00000041498	Kif14	D1Ertd367e|E130203M01	kinesin family member 14	protein-coding	3.5	6.0	4.0	56.0	12.5	5.0	8.0	7.5
Merged-chr11-74839128-4	chr11	74839028	74839228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010813, intron 4 of 5)	intron (NM_010813, intron 4 of 5)	8204.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	83.0	146.5	50.5	744.5	180.5	74.5	56.0	69.0
Merged-chr18-37934973-4	chr18	37934856	37935056	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	CpG	520.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	19.5	10.5	11.0	258.5	37.0	11.0	16.5	17.5
Merged-chr18-20816656-4	chr18	20816561	20816761	+	975.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001361188)	TTS (NM_001361188)	-70257.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	26.5	14.0	19.0	429.0	54.5	16.5	26.0	24.5
Merged-chr8-27058455-4	chr8	27058383	27058583	+	968.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15928.0	NM_054057	114863.0	Mm.277501	NM_054057	ENSMUSG00000031485	Plpbp	1700024N20Rik|2200002F22Rik|Prosc	pyridoxal phosphate binding protein	protein-coding	9.5	31.5	17.5	299.0	33.0	12.0	27.5	14.0
Merged-chr6-97496193-4	chr6	97496127	97496327	+	816.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-8407.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	3.0	28.5	10.0	115.0	50.0	13.5	13.0	9.0
Merged-chr7-79368880-4	chr7	79368788	79368988	+	738.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18139.0	NM_020599	19771.0	Mm.41653	NM_020599	ENSMUSG00000039194	Rlbp1	3110056M11Rik|CRALBP	retinaldehyde binding protein 1	protein-coding	7.0	9.0	12.5	145.0	26.0	11.0	5.5	16.5
Merged-chr7-118699035-4	chr7	118698912	118699112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019580, intron 1 of 5)	intron (NM_019580, intron 1 of 5)	6726.0	NM_019580	56209.0	Mm.273142	NM_019580	ENSMUSG00000033917	Gde1	1200003M13Rik|Mir16|RGS16	glycerophosphodiester phosphodiesterase 1	protein-coding	30.5	45.0	78.0	1045.5	108.0	28.0	64.0	62.0
Merged-chr11-11903643-4	chr11	11903535	11903735	+	898.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-5491.0	NM_001190448	13195.0	Mm.12906	NM_016672	ENSMUSG00000020182	Ddc	Aadc	dopa decarboxylase	protein-coding	11.5	15.0	20.0	105.5	52.0	18.0	36.5	37.0
Merged-chr15-99394305-4	chr15	99394254	99394454	+	874.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171036, intron 2 of 10)	intron (NM_001171036, intron 2 of 10)	1135.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	10.5	6.5	8.5	70.0	27.5	7.5	14.0	15.0
Merged-chr4-11602663-4	chr4	11602557	11602757	+	831.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039556, intron 8 of 14)	intron (NM_001039556, intron 8 of 14)	22995.0	NM_001256142	100503583.0	Mm.249437	NM_001256142	ENSMUSG00000094595	Fsbp	-	fibrinogen silencer binding protein	protein-coding	16.0	14.0	7.0	118.5	28.5	6.5	12.0	12.5
Merged-chr6-129407486-4	chr6	129407385	129407585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1377.0	NM_001205363	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	93.0	131.0	153.5	1887.0	175.0	78.0	87.0	62.5
Merged-chr3-83790016-6	chr3	83789919	83790119	+	908.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	23698.0	NM_009144	20319.0	Mm.19155	NM_009144	ENSMUSG00000027996	Sfrp2	AI851596|Sdf5	secreted frizzled-related protein 2	protein-coding	11.5	9.5	7.0	74.5	8.5	4.5	6.0	6.0
Merged-chr17-56849013-4	chr17	56848952	56849152	+	919.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039114, intron 10 of 14)	B1_Mus1|SINE|Alu	-18044.0	NM_027787	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	11.5	19.0	5.5	70.5	31.0	11.5	18.5	13.0
Merged-chr14-33266806-2	chr14	33266706	33266906	+	750.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	49983.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	3.5	8.0	0.5	129.5	7.5	6.0	4.5	6.0
Merged-chr5-3369529-4	chr5	3369442	3369642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	25649.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	26.5	26.0	22.5	632.0	59.5	23.5	54.5	27.5
Merged-chr16-16912036-4	chr16	16911932	16912132	+	873.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176833, intron 3 of 7)	intron (NM_176833, intron 3 of 7)	15563.0	NM_176833	68606.0	Mm.230296	NM_176833	ENSMUSG00000026181	Ppm1f	1110021B16Rik|4933427B07Rik|CaMKPase|Popx2|mKIAA0015	protein phosphatase 1F (PP2C domain containing)	protein-coding	17.5	11.0	12.0	183.5	16.0	12.5	8.0	7.5
Merged-chr6-115469458-4	chr6	115469357	115469557	+	862.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 6 of 7)	intron (NM_001308354, intron 6 of 7)	47391.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	21.0	25.5	13.0	302.0	37.0	7.5	13.0	10.5
Merged-chr12-84970916-4	chr12	84970790	84970990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178065)	promoter-TSS (NM_178065)	-4.0	NM_178065	68497.0	Mm.24446	NM_178065	ENSMUSG00000042350	Arel1	1110018G07Rik|AI649076|AW610792|Kiaa0317|mKIAA0317	apoptosis resistant E3 ubiquitin protein ligase 1	protein-coding	28.0	33.0	16.5	346.5	103.5	24.0	26.0	29.0
Merged-chr7-24374096-4	chr7	24373985	24374185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163510, intron 1 of 8)	intron (NM_001163510, intron 1 of 8)	3822.0	NM_008433	16534.0	Mm.9911	NM_008433	ENSMUSG00000054342	Kcnn4	IK1|IKCA1|KCA4|KCa3.1|SK4|SKCas|mIKCa1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	protein-coding	68.0	70.5	70.5	908.5	179.0	62.5	69.0	80.5
Merged-chr13-117025810-7	chr13	117025683	117025883	+	989.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081009)	promoter-TSS (NM_001081009)	-267.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	25.5	21.5	18.5	117.5	35.5	19.5	14.0	16.0
Merged-chr4-149323761-2	chr4	149323661	149323861	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10878.0	NR_131918	74310.0	Mm.440455	NR_131918	ENSMUSG00000085286	Ube4bos3	1700121F15Rik	ubiquitination factor E4B, opposite strand 3	ncRNA	8.5	8.0	8.0	52.5	14.5	5.0	2.0	5.0
Merged-chr3-127300052-3	chr3	127299962	127300162	+	761.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	108996.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	7.0	13.5	11.0	76.5	28.5	9.5	5.5	13.0
Merged-chr4-53440246-4	chr4	53440149	53440349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159633)	promoter-TSS (NM_001159633)	-164.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	86.0	187.0	107.5	1625.0	259.5	131.5	171.5	116.5
Merged-chr1-135147843-1	chr1	135147743	135147943	+	1000.0	f0_c57.idr	intron (NM_026823, intron 1 of 6)	intron (NM_026823, intron 1 of 6)	1009.0	NM_026823	68724.0	Mm.174998	NM_026823	ENSMUSG00000026426	Arl8a	1110033P22Rik|Arl10b|gie2	ADP-ribosylation factor-like 8A	protein-coding	59.5	91.5	54.0	807.0	181.0	46.0	65.0	71.0
Merged-chr1-162548554-4	chr1	162548449	162548649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144877)	promoter-TSS (NM_144877)	-204.0	NM_144877	71449.0	Mm.270569	NM_144877	ENSMUSG00000026694	Mettl13	5630401D24Rik	methyltransferase like 13	protein-coding	155.0	172.5	111.5	2034.5	304.5	114.0	155.0	110.0
Merged-chr2-6469369-4	chr2	6469247	6469447	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116611.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	17.5	18.5	6.5	440.0	40.5	24.0	37.0	19.5
Merged-chr4-66857193-4	chr4	66857086	66857286	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29635.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	56.5	84.0	43.0	646.0	66.5	29.5	17.5	21.0
Merged-chr2-26910725-4	chr2	26910633	26910833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013721)	promoter-TSS (NM_013721)	-74.0	NM_013721	27176.0	Mm.328601	NM_013721	ENSMUSG00000062647	Rpl7a	Surf3	ribosomal protein L7A	protein-coding	108.0	202.5	92.0	946.5	292.0	118.0	112.5	120.5
Merged-chr15-85090945-4	chr15	85090852	85091052	+	798.866638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080470, exon 17 of 25)	exon (NM_080470, exon 17 of 25)	41005.0	NM_080470	140557.0	Mm.182737	NM_080470	ENSMUSG00000022432	Smc1b	SMC-1B|SMC1beta|Smc1l2	structural maintenance of chromosomes 1B	protein-coding	10.0	16.0	11.0	189.0	19.0	14.5	13.5	11.0
Merged-chr2-160237935-4	chr2	160237831	160238031	+	948.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	89563.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	22.0	29.5	32.0	475.0	35.5	11.5	29.5	19.0
Merged-chr10-118162903-1	chr10	118162803	118163003	+	924.5	f0_balb.idr	intron (NM_001162904, intron 12 of 14)	intron (NM_001162904, intron 12 of 14)	21116.0	NM_010785	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	10.5	12.0	17.0	205.0	2.5	1.0	0.0	1.0
Merged-chr11-3289398-4	chr11	3289312	3289512	+	912.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045108, intron 1 of 5)	CpG	281.0	NR_045109	56218.0	Mm.275563	NM_019574	ENSMUSG00000020453	Patz1	8430401L15Rik|AI447519|Mazr|Patz|Zfp278	POZ (BTB) and AT hook containing zinc finger 1	protein-coding	9.0	11.0	11.5	177.5	29.0	8.5	5.5	17.5
Merged-chr2-129083712-4	chr2	129083601	129083801	+	911.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027192, intron 5 of 6)	intron (NM_027192, intron 5 of 6)	-17295.0	NM_009086	20017.0	Mm.259078	NM_009086	ENSMUSG00000027395	Polr1b	128kDa|D630020H17Rik|RPA116|RPA135|RPA2|Rpo1-2	polymerase (RNA) I polypeptide B	protein-coding	9.5	52.0	10.5	380.0	49.5	16.5	9.5	19.0
Merged-chr4-8939172-4	chr4	8939083	8939283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187859.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	20.5	39.5	27.5	614.0	82.0	34.0	28.0	47.5
Merged-chr10-77033157-4	chr10	77033053	77033253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031196)	promoter-TSS (NM_031196)	-59.0	NM_031196	20509.0	Mm.265060	NM_031196	ENSMUSG00000001436	Slc19a1	AI323572|RFC|RFC-1|RFC1	solute carrier family 19 (folate transporter), member 1	protein-coding	77.5	137.5	75.5	1132.5	220.5	81.0	82.5	95.5
Merged-chr11-75429200-4	chr11	75429101	75429301	+	982.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6578.0	NM_011340	20317.0	Mm.2044	NM_011340	ENSMUSG00000000753	Serpinf1	AI195227|EPC-1|Pedf|Pedfl|Sdf3	serine (or cysteine) peptidase inhibitor, clade F, member 1	protein-coding	19.5	35.5	12.5	448.0	45.0	24.5	22.0	25.0
Merged-chr5-9071531-4	chr5	9071432	9071632	+	826.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-29205.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	13.0	13.5	10.5	162.5	21.0	2.5	9.5	6.5
Merged-chr11-103361593-4	chr11	103361502	103361702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205236, intron 2 of 17)	intron (NM_001205236, intron 2 of 17)	2090.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	51.0	96.0	25.5	790.5	102.5	32.5	51.5	39.0
Merged-chr3-40800540-2	chr3	40800440	40800640	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045576, intron 1 of 15)	CpG	589.0	NR_045576	20873.0	Mm.3794	NM_011495	ENSMUSG00000025758	Plk4	1700028H20|AI385771|Sak|Stk18	polo like kinase 4	protein-coding	10.0	16.5	12.0	206.0	43.5	21.0	9.0	33.0
Merged-chr6-128362780-4	chr6	128362646	128362846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326586)	promoter-TSS (NM_001326586)	76.0	NM_001326586	72440.0	Mm.143908	NM_197981	ENSMUSG00000048668	Rhno1	2510047L19Rik|5930416I19Rik	RAD9-HUS1-RAD1 interacting nuclear orphan 1	protein-coding	69.5	125.5	122.5	1216.0	92.5	43.0	67.0	38.5
Merged-chr15-25860530-2	chr15	25860430	25860630	+	844.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	intron (NM_001034851, intron 1 of 8)	17232.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	6.5	5.5	6.0	124.5	14.5	1.0	7.5	3.0
Merged-chr2-24048791-3	chr2	24048691	24048891	+	743.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080462, exon 2 of 7)	exon (NM_080462, exon 2 of 7)	588.0	NM_080462	140483.0	Mm.33120	NM_080462	ENSMUSG00000026986	Hnmt	1500031F01Rik|AI788969	histamine N-methyltransferase	protein-coding	8.5	5.0	13.5	41.0	12.0	3.5	5.0	8.5
Merged-chr11-82570214-4	chr11	82570106	82570306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-63147.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	28.0	63.5	37.5	517.5	85.5	23.5	43.0	36.0
Merged-chr7-35051696-4	chr7	35051610	35051810	+	986.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009884, intron 1 of 1)	intron (NM_009884, intron 1 of 1)	4856.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	56.0	29.0	40.5	656.0	74.5	12.0	50.5	31.0
Merged-chr10-51481063-3	chr10	51480991	51481191	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291893, intron 2 of 7)	intron (NM_001291893, intron 2 of 7)	479.0	NM_001291892	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	24.0	69.5	11.0	241.5	50.5	14.0	12.5	14.5
Merged-chr19-37957395-4	chr19	37957283	37957483	+	934.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 21 of 53)	L1MC4|LINE|L1	86194.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	25.0	36.0	40.0	490.5	35.5	8.5	22.5	16.0
Merged-chr9-109038616-4	chr9	109038495	109038695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284332)	promoter-TSS (NM_001284332)	28.0	NM_025858	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	58.5	62.5	39.5	546.5	111.5	60.5	56.0	42.5
Merged-chr11-70683720-4	chr11	70683615	70683815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178116, intron 5 of 22)	intron (NM_178116, intron 5 of 22)	4390.0	NM_001190376	216874.0	Mm.473726	NM_178116	ENSMUSG00000040712	Camta2	Kiaa0909-hp|mKIAA0909	calmodulin binding transcription activator 2	protein-coding	49.5	114.0	51.0	393.0	175.0	53.5	55.5	26.5
Merged-chr15-64003333-4	chr15	64003223	64003423	+	955.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	GA-rich|Low_complexity|Low_complexity	-5257.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	25.5	15.5	21.0	425.5	64.5	12.5	16.0	26.5
Merged-chr6-120466736-4	chr6	120466619	120466819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	intron (NM_008359, intron 1 of 12)	3522.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	74.0	70.5	66.5	1023.0	112.5	34.5	44.5	40.0
Merged-chr11-74576027-4	chr11	74575916	74576116	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 1 of 24)	intron (NM_001015046, intron 1 of 24)	14142.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	31.0	29.0	36.5	537.5	51.0	16.0	31.0	24.5
Merged-chr13-110523219-1	chr13	110523119	110523319	+	612.0	f0_balb.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	128175.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	5.5	10.5	10.5	118.5	11.5	5.0	13.5	7.0
Merged-chr6-148914078-4	chr6	148913947	148914147	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17810.0	NM_181541	232560.0	Mm.150568	NM_181541	ENSMUSG00000030309	Caprin2	C1qdc1|Eeg1|rng140	caprin family member 2	protein-coding	24.5	23.0	23.0	593.0	29.0	7.5	43.5	31.0
Merged-chr3-7503454-4	chr3	7503339	7503539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173181)	promoter-TSS (NM_173181)	13.0	NM_173181	67306.0	Mm.332366	NM_173181	ENSMUSG00000043542	Zc2hc1a	3110050N22Rik|AI790358|AU023959|Fam164a	zinc finger, C2HC-type containing 1A	protein-coding	136.0	196.5	139.5	2180.5	383.0	135.5	274.5	177.5
Merged-chr18-57085771-4	chr18	57085621	57085821	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47369.0	NM_001001979	70417.0	Mm.297863	NM_001001979	ENSMUSG00000024593	Megf10	3000002B06Rik|Gm331	multiple EGF-like-domains 10	protein-coding	15.5	31.0	26.5	465.0	37.5	15.5	12.5	7.5
Merged-chr14-31205893-9	chr14	31205723	31205923	+	856.962952	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 1 of 13)	intron (NM_001347583, intron 1 of 13)	1003.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	6.5	6.5	8.0	96.0	12.0	5.5	4.5	15.0
Merged-chr19-6275352-4	chr19	6275269	6275469	+	849.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1527.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	12.0	18.0	1.0	89.5	35.0	10.5	7.5	5.0
Merged-chr18-39461778-1	chr18	39461678	39461878	+	643.0	f0_balb.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	25467.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	4.0	9.0	4.5	85.0	15.5	5.5	6.0	6.0
Merged-chr6-54958137-4	chr6	54958022	54958222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	13539.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	19.5	39.0	31.0	424.5	107.5	30.0	42.5	37.5
Merged-chr3-127282570-4	chr3	127282452	127282652	+	900.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	121247.0	NR_105029	100862268.0	Mm.444603	NR_105029	ENSMUSG00000097456	LOC100862268	-	uncharacterized LOC100862268	ncRNA	20.0	33.0	48.5	784.0	14.5	5.5	7.5	9.0
Merged-chr4-3627196-4	chr4	3627074	3627274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-29332.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	69.5	131.5	90.0	982.5	143.5	89.5	119.5	73.5
Merged-chr9-105395403-4	chr9	105395297	105395497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172461)	promoter-TSS (NM_172461)	35.0	NR_152139	66595.0	Mm.84941	NM_025651	ENSMUSG00000032567	Aste1	1100001A21Rik|AV006403	asteroid homolog 1	protein-coding	185.5	356.5	210.0	3211.5	715.0	266.0	367.5	234.5
Merged-chr2-150837041-3	chr2	150836953	150837153	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 10 of 12)	intron (NR_151505, intron 10 of 12)	5517.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	21.0	6.0	28.5	704.0	11.5	5.0	4.5	5.5
Merged-chr7-49741694-3	chr7	49741614	49741814	+	789.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17392.0	NM_001146053	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	5.0	16.5	7.5	156.0	16.5	7.5	6.0	6.0
Merged-chr7-121072198-2	chr7	121072098	121072298	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030691, intron 1 of 5)	intron (NM_030691, intron 1 of 5)	2332.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	12.5	11.0	6.0	75.5	23.0	4.0	4.0	7.5
Merged-chr2-165318060-4	chr2	165317967	165318167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080287, intron 1 of 20)	intron (NM_080287, intron 1 of 20)	-1716.0	NM_001302754	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	61.0	51.5	60.0	1061.0	80.5	21.0	45.5	41.0
Merged-chr4-139286805-2	chr4	139286705	139286905	+	766.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 6 of 9)	intron (NM_001037761, intron 6 of 9)	23903.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	4.0	3.0	1.0	24.5	5.0	6.0	5.0	5.0
Merged-chr9-88439057-4	chr9	88438960	88439160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172926)	promoter-TSS (NM_172926)	-109.0	NM_172926	244962.0	Mm.439873	NM_172926	ENSMUSG00000032422	Snx14	B830022K16|C330035N22Rik|YR-14	sorting nexin 14	protein-coding	280.5	434.5	353.5	4750.5	608.0	220.5	348.5	261.0
Merged-chr11-109363526-4	chr11	109363464	109363664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038097)	promoter-TSS (NR_038097)	90.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	27.5	62.0	53.5	462.0	141.0	48.5	48.5	58.0
Merged-chr2-32360968-4	chr2	32360881	32361081	+	897.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-2029.0	NM_001252538	68379.0	Mm.170508	NM_028412	ENSMUSG00000039205	Ciz1	0610038H21Rik|2900056O04Rik|LSFR1|ZNF356	CDKN1A interacting zinc finger protein 1	protein-coding	21.5	15.5	8.5	273.5	28.0	7.5	10.5	25.0
Merged-chr1-72963597-1	chr1	72963497	72963697	+	879.0	f0_balb.idr	Intergenic	Intergenic	52302.0	NM_009407	21958.0	Mm.425024	NM_009407	ENSMUSG00000026182	Tnp1	Stp-1|TP1|Tp-1	transition protein 1	protein-coding	9.0	12.0	20.5	175.0	2.0	0.5	1.0	0.5
Merged-chr1-21161867-3	chr1	21161732	21161932	+	847.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56743.0	NM_001290679	75712.0	Mm.304763	NM_029398	ENSMUSG00000025933	Tmem14a	5730496E24Rik|C85783|PTD011	transmembrane protein 14A	protein-coding	5.5	16.0	15.5	134.0	4.5	2.0	0.0	3.0
Merged-chr14-121405380-4	chr14	121405284	121405484	+	862.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26154.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	6.5	20.0	4.5	144.5	34.0	8.0	12.5	11.5
Merged-chr5-67608314-4	chr5	67608234	67608434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033415, exon 1 of 2)	5' UTR (NM_001033415, exon 1 of 2)	451.0	NM_001033415	330096.0	Mm.442747	NM_001033415	ENSMUSG00000050010	Shisa3	D830007B15Rik	shisa family member 3	protein-coding	23.5	23.0	29.0	346.5	55.0	20.0	23.5	21.5
Merged-chr19-47900732-4	chr19	47900667	47900867	+	956.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001738, intron 1 of 1)	intron (NM_001001738, intron 1 of 1)	18532.0	NM_001001738	414801.0	Mm.29457	NM_001001738	ENSMUSG00000044948	Itprip	4833424O12Rik|DANGER	inositol 1,4,5-triphosphate receptor interacting protein	protein-coding	11.5	14.5	22.0	312.0	24.5	13.0	21.5	5.5
Merged-chr15-98533324-3	chr15	98533153	98533353	+	800.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153345, intron 2 of 10)	intron (NR_153345, intron 2 of 10)	1016.0	NM_001359827	69612.0	Mm.229107	NM_133714	ENSMUSG00000022992	Kansl2	2310037I24Rik|B930009D17	KAT8 regulatory NSL complex subunit 2	protein-coding	7.0	6.5	4.5	57.0	11.0	4.5	6.5	13.0
Merged-chr11-119273551-3	chr11	119273512	119273712	+	756.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008064, intron 3 of 19)	intron (NM_008064, intron 3 of 19)	5649.0	NM_008064	14387.0	Mm.4793	NM_008064	ENSMUSG00000025579	Gaa	E430018M07Rik	glucosidase, alpha, acid	protein-coding	1.0	4.5	4.0	32.0	27.5	6.5	10.0	6.0
Merged-chr6-55230653-2	chr6	55230553	55230753	+	669.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001142781, intron 5 of 17)	MIRc|SINE|MIR	27270.0	NM_001142781	330323.0	Mm.268997	NM_177883	ENSMUSG00000038022	Mindy4	C330043M08Rik|Fam188b|Gm1406	MINDY lysine 48 deubiquitinase 4	protein-coding	2.0	0.0	0.0	19.0	15.0	5.0	7.5	6.5
Merged-chr10-88390409-6	chr10	88390307	88390507	+	899.0972289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 1 of 20)	intron (NM_001004164, intron 1 of 20)	10995.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	6.0	11.5	13.0	270.5	31.5	6.0	7.0	15.5
Merged-chr17-5541318-3	chr17	5541218	5541418	+	728.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	48718.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	7.5	14.5	6.5	159.0	8.5	2.5	5.5	3.5
Merged-chr11-29514538-4	chr11	29514460	29514660	+	899.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163454, intron 1 of 2)	B3A|SINE|B2	473.0	NM_026465	67939.0	Mm.251087	NM_026465	ENSMUSG00000032673	Prorsd1	2010316F05Rik|Ncrna00117|Prdxdd1	prolyl-tRNA synthetase domain containing 1	protein-coding	17.0	10.5	10.0	249.0	15.0	8.5	15.0	19.0
Merged-chr15-58775755-4	chr15	58775650	58775850	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47677.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	9.0	2.5	6.5	91.0	39.0	7.0	15.5	13.5
Merged-chr10-127557573-5	chr10	127557445	127557645	+	892.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008512, exon 49 of 89)	exon (NM_008512, exon 49 of 89)	-22986.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	5.0	6.5	12.0	67.5	11.5	2.0	8.5	6.0
Merged-chr4-134460465-4	chr4	134460375	134460575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-7845.0	NM_019641	16765.0	Mm.378957	NM_019641	ENSMUSG00000028832	Stmn1	19k|Lag|Lap18|Op18|P18|P19|Pig|Pp17|Pp18|Pp19|Pr22|Smn	stathmin 1	protein-coding	18.5	32.0	30.0	458.5	46.0	8.0	19.5	33.0
Merged-chr7-19299454-3	chr7	19299366	19299566	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	8397.0	NM_001025364	20167.0	Mm.24142	NM_013648	ENSMUSG00000030401	Rtn2	MMS10-P|Ms10p|NSPLI|Nspl1	reticulon 2 (Z-band associated protein)	protein-coding	11.5	7.5	4.0	40.0	22.0	12.0	6.0	6.0
Merged-chr11-45980595-2	chr11	45980495	45980695	+	895.166626	f1_balb.idr|f1_c57bl6.idr	exon (NM_173384, exon 1 of 5)	exon (NM_173384, exon 1 of 5)	285.0	NM_173384	214105.0	Mm.66708	NM_173384	ENSMUSG00000040489	Sox30	-	SRY (sex determining region Y)-box 30	protein-coding	4.0	8.5	3.5	57.5	17.0	7.0	11.5	4.5
Merged-chr15-25407375-4	chr15	25407258	25407458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	6406.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	46.0	103.0	53.0	511.0	156.0	53.5	45.0	41.5
Merged-chr11-104317461-3	chr11	104317393	104317593	+	702.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285454, intron 6 of 9)	intron (NM_001285454, intron 6 of 9)	86057.0	NM_001285454	17762.0	Mm.1287	NM_010838	ENSMUSG00000018411	Mapt	AI413597|AW045860|Mtapt|Tau	microtubule-associated protein tau	protein-coding	7.5	6.0	7.5	58.0	6.5	3.0	4.0	2.5
Merged-chr3-51341291-4	chr3	51341196	51341396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291059)	promoter-TSS (NM_001291059)	-652.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	79.0	179.5	102.5	1579.5	313.0	112.5	162.5	88.5
Merged-chr11-29374283-4	chr11	29374209	29374409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_176841, exon 1 of 32)	5' UTR (NM_176841, exon 1 of 32)	137.0	NM_176841	108686.0	Mm.338284	NM_176841	ENSMUSG00000032740	Ccdc88a	A430106J12Rik|AI848406|Ape|C130096N06Rik|C330012F17Rik|D130005J21Rik|Girdin|Giv|Grdn|Hkrp1	coiled coil domain containing 88A	protein-coding	62.0	80.5	57.5	630.5	117.5	49.0	54.0	30.5
Merged-chr4-147814703-4	chr4	147814603	147814803	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-4915.0	NM_001127189	100041677.0	Mm.327194	NM_001127189	ENSMUSG00000078495	Zfp984	Gm13157	zinc finger protein 984	protein-coding	15.0	36.5	17.5	188.5	86.0	42.5	30.0	26.0
Merged-chr19-42144749-4	chr19	42144661	42144861	+	915.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2628.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	11.5	24.5	14.0	231.5	32.0	10.5	11.5	22.5
Merged-chr13-64151743-4	chr13	64151640	64151840	+	902.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361047, intron 1 of 5)	intron (NM_001361047, intron 1 of 5)	633.0	NM_001361047	238673.0	Mm.300065	NM_175494	ENSMUSG00000044934	Zfp367	8030486J21Rik|ZFF29a|ZFF29b|Znf367	zinc finger protein 367	protein-coding	15.0	10.5	10.0	247.0	28.0	9.0	12.5	21.0
Merged-chr1-131462802-3	chr1	131462698	131462898	+	700.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	64563.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	10.0	17.0	5.0	110.0	15.0	21.5	9.5	10.5
Merged-chr13-53219690-4	chr13	53219605	53219805	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013846, intron 1 of 8)	intron (NM_013846, intron 1 of 8)	66404.0	NM_013846	26564.0	Mm.342774	NM_013846	ENSMUSG00000021464	Ror2	Ntrkr2	receptor tyrosine kinase-like orphan receptor 2	protein-coding	21.0	20.0	25.5	494.0	43.5	16.0	52.0	33.5
Merged-chr2-57330946-4	chr2	57330853	57331053	+	940.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 6 of 16)	intron (NM_010274, intron 6 of 16)	92571.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	9.0	23.5	20.0	368.0	34.0	9.0	22.0	13.0
Merged-chr16-30123462-4	chr16	30123364	30123564	+	902.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME2|LINE|L1	58107.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	13.0	38.5	27.5	299.5	34.5	10.5	17.5	20.5
Merged-chr2-158305903-2	chr2	158305815	158306015	+	746.25	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_008489)	promoter-TSS (NM_008489)	-578.0	NM_008489	16803.0	Mm.218846	NM_008489	ENSMUSG00000016024	Lbp	Bpifd2|Ly88	lipopolysaccharide binding protein	protein-coding	8.0	7.5	4.0	114.0	17.5	8.5	7.5	6.5
Merged-chr13-5420003-3	chr13	5419909	5420109	+	991.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	438083.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	22.0	9.0	26.5	285.0	15.5	8.0	13.5	7.0
Merged-chr12-28750437-4	chr12	28750337	28750537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178811)	promoter-TSS (NM_178811)	16.0	NM_001161411	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	66.5	137.5	65.0	1224.5	249.0	95.0	103.0	82.0
Merged-chr6-26304411-4	chr6	26304309	26304509	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	372983.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	17.5	27.5	45.5	557.0	54.0	14.0	23.0	33.5
Merged-chr4-155086452-4	chr4	155086347	155086547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026395)	promoter-TSS (NM_026395)	-130.0	NM_001081100	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	294.0	381.0	214.0	3168.5	610.5	187.0	227.0	221.5
Merged-chr3-60580098-4	chr3	60579988	60580188	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	RMER10A|LTR|ERVL	78909.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	13.0	23.0	34.5	470.0	59.0	21.0	15.5	23.0
Merged-chr9-106330366-4	chr9	106330265	106330465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 10 of 10)	MTC|LTR|ERVL-MaLR	-38267.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	29.0	51.0	20.5	272.5	101.0	42.0	36.5	41.0
Merged-chr4-145026769-3	chr4	145026677	145026877	+	941.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 65 of 69)	intron (NM_001276465, intron 65 of 69)	133640.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	5.0	10.5	14.5	296.0	19.5	5.5	4.5	3.0
Merged-chr7-115131470-4	chr7	115131358	115131558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	180184.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	51.5	57.5	63.0	887.0	97.0	29.5	46.5	48.5
Merged-chr19-11957550-3	chr19	11957438	11957638	+	905.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8306.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	1.5	1.0	1.0	10.5	42.5	13.5	13.0	28.5
Merged-chr10-7040328-4	chr10	7040224	7040424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17139.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	58.0	61.0	112.0	1581.5	78.5	34.5	83.0	45.0
Merged-chr3-97995013-4	chr3	97994889	97995089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18549.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	54.5	58.5	81.5	1023.5	79.5	27.0	52.5	30.5
Merged-chr18-38923233-3	chr18	38923134	38923334	+	915.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 3 of 4)	intron (NM_001033789, intron 3 of 4)	-4535.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	11.0	9.0	41.0	504.0	3.0	1.5	9.5	6.5
Merged-chr1-171665699-2	chr1	171665599	171665799	+	753.083313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3B|LINE|L1	-12662.0	NM_144539	75345.0	Mm.164642	NM_144539	ENSMUSG00000038179	Slamf7	19A|19A24|4930560D03Rik|CRACC|CS1	SLAM family member 7	protein-coding	4.5	4.5	5.5	21.0	14.5	4.5	3.0	11.0
Merged-chr19-4138132-4	chr19	4138043	4138243	+	935.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144532, intron 3 of 5)	MTD|LTR|ERVL-MaLR	1466.0	NM_144532	73660.0	Mm.379226	NM_144532	ENSMUSG00000024842	Cabp4	2410038D05Rik	calcium binding protein 4	protein-coding	29.0	41.0	13.5	187.5	37.5	11.5	14.0	11.5
Merged-chr18-36771436-3	chr18	36771345	36771545	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008214, intron 5 of 12)	intron (NM_008214, intron 5 of 12)	-5231.0	NM_173383	213236.0	Mm.234464	NM_173383	ENSMUSG00000044595	Dnd1	BC034897|RBMS4|Ter	DND microRNA-mediated repression inhibitor 1	protein-coding	26.5	43.5	29.0	600.0	5.0	3.0	4.0	0.0
Merged-chr16-43805766-3	chr16	43805735	43805935	+	859.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007877, intron 2 of 6)	intron (NM_007877, intron 2 of 6)	43614.0	NM_007877	13490.0	Mm.439735	NM_007877	ENSMUSG00000022705	Drd3	D3R	dopamine receptor D3	protein-coding	6.5	10.0	11.0	220.0	7.5	3.5	9.0	9.5
Merged-chr2-26902954-4	chr2	26902834	26903034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009298)	promoter-TSS (NM_009298)	-47.0	NM_009298	20935.0	Mm.245577	NM_009298	ENSMUSG00000036160	Surf6	D2Wsu129e|Surf-6	surfeit gene 6	protein-coding	97.5	138.5	63.0	946.5	220.5	106.0	80.5	99.0
Merged-chr2-128067541-4	chr2	128067460	128067660	+	925.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 14 of 17)	intron (NM_028765, intron 14 of 17)	-58478.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	14.0	43.5	14.0	86.0	78.5	29.0	28.0	34.5
Merged-chr11-78375886-2	chr11	78375786	78375986	+	843.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008238, intron 1 of 8)	intron (NM_008238, intron 1 of 8)	10722.0	NM_008238	15218.0	Mm.4496	NM_008238	ENSMUSG00000002057	Foxn1	D11Bhm185e|Fkh19|HFH-11|Hfh11|Whn|nu|nude	forkhead box N1	protein-coding	6.0	4.5	4.5	63.5	11.5	5.0	10.5	7.0
Merged-chr14-70931110-3	chr14	70931035	70931235	+	993.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	41028.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	8.0	7.0	10.5	214.5	15.0	2.5	9.5	5.5
Merged-chr10-99269900-3	chr10	99269795	99269995	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6664.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	11.0	19.5	5.0	126.0	14.5	6.5	7.5	8.0
Merged-chr4-43562489-4	chr4	43562377	43562577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013497)	promoter-TSS (NM_013497)	106.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	244.5	382.5	295.0	3741.0	531.0	308.5	259.5	276.5
Merged-chr6-114874384-7	chr6	114874288	114874488	+	972.2958980000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 3 of 5)	intron (NM_001356371, intron 3 of 5)	47433.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	11.5	20.5	13.0	105.0	22.0	7.0	7.0	11.5
Merged-chr1-64318613-4	chr1	64318509	64318709	+	844.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-197220.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	9.5	26.5	10.0	258.5	28.5	11.5	13.0	13.0
Merged-chr5-93120622-3	chr5	93120539	93120739	+	768.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 1 of 9)	intron (NM_001009818, intron 1 of 9)	27223.0	NM_001347377	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	3.5	7.0	9.0	107.5	9.0	6.0	8.5	5.5
Merged-chr9-75050180-2	chr9	75050080	75050280	+	911.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357880, intron 2 of 3)	intron (NM_001357880, intron 2 of 3)	12448.0	NM_021548	59046.0	Mm.247837	NM_021548	ENSMUSG00000007656	Arpp19	19kDa|2700024H10Rik|ARPP-19|AW559096|Arpp12	cAMP-regulated phosphoprotein 19	protein-coding	6.5	12.5	7.5	63.0	6.0	5.0	8.0	6.5
Merged-chr2-126674104-3	chr2	126674019	126674219	+	872.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271470, intron 1 of 8)	intron (NM_001271470, intron 1 of 8)	1233.0	NM_001355109	14391.0	Mm.293266	NM_010249	ENSMUSG00000027361	Gabpb1	BABPB2|E4TF1|E4TF1-47|E4TF1-53|E4Tf1B|GABPB|GABPB-1|GABPB-2|GABPB1-1|GABPB1-2|NRF2B1|NRF2B2	GA repeat binding protein, beta 1	protein-coding	6.0	10.5	9.5	84.0	16.5	2.5	5.0	11.5
Merged-chr18-70482115-1	chr18	70482015	70482215	+	660.0	f0_balb.idr	intron (NM_001289650, intron 5 of 8)	intron (NM_001289650, intron 5 of 8)	9449.0	NM_001289650	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	11.0	8.0	4.5	112.0	10.0	1.5	2.5	4.5
Merged-chr11-98864182-1	chr11	98864082	98864282	+	627.666687	f0_balb.idr	intron (NM_197940, intron 1 of 7)	intron (NM_197940, intron 1 of 7)	584.0	NM_197940	68524.0	Mm.28661	NM_197940	ENSMUSG00000038013	Wipf2	1110014J05Rik|5730509C05Rik|AA407487|Gm1176|Wich|Wire	WAS/WASL interacting protein family, member 2	protein-coding	8.0	12.0	9.0	86.0	7.0	7.0	5.5	12.5
Merged-chr15-36163980-4	chr15	36163942	36164142	+	811.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081253, intron 1 of 4)	intron (NM_001081253, intron 1 of 4)	842.0	NM_001081253	78803.0	Mm.26393	NM_175281	ENSMUSG00000048230	Fbxo43	4930533G20Rik|Emi2	F-box protein 43	protein-coding	4.0	9.0	8.0	66.0	14.5	7.5	6.0	8.0
Merged-chr1-40410053-3	chr1	40409950	40410150	+	968.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-int|LTR|ERVL	-19520.0	NM_001294171	17082.0	Mm.289824	NM_010743	ENSMUSG00000026069	Il1rl1	DER4|Fit-1|Ly84|ST2L|St2|St2-rs1|T1|T1/ST2	interleukin 1 receptor-like 1	protein-coding	18.5	14.0	24.0	346.0	14.5	5.5	14.0	9.0
Merged-chr16-18876595-4	chr16	18876501	18876701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010922)	promoter-TSS (NM_010922)	36.0	NM_010922	18100.0	Mm.20918	NM_010922	ENSMUSG00000022706	Mrpl40	Nlvcf	mitochondrial ribosomal protein L40	protein-coding	221.5	233.0	179.5	2893.0	375.5	130.0	196.0	134.5
Merged-chr1-191326401-4	chr1	191326299	191326499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 1 of 7)	CpG	434.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	30.0	72.0	43.0	332.5	134.0	47.5	47.0	47.0
Merged-chr10-12916990-2	chr10	12916890	12917090	+	558.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_038027, exon 4 of 4)	non-coding (NR_038027, exon 4 of 4)	6137.0	NR_038027	320273.0	Mm.417706	NR_038027	ENSMUSG00000097378	B230208H11Rik	-	RIKEN cDNA B230208H11 gene	ncRNA	5.0	3.0	4.0	45.0	15.0	9.0	6.0	8.5
Merged-chr17-84380533-2	chr17	84380433	84380633	+	577.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	RSINE1|SINE|B4	85675.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	4.0	5.0	5.0	21.0	9.0	7.5	8.0	7.0
Merged-chr5-146764808-4	chr5	146764690	146764890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 2 of 8)	MTC|LTR|ERVL-MaLR	30166.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	25.5	40.0	25.0	488.5	111.0	37.5	38.5	45.5
Merged-chr17-37286894-4	chr17	37286807	37287007	+	910.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-6489.0	NM_146515	258508.0	Mm.377544	NM_146515	ENSMUSG00000061972	Olfr99	MOR156-1	olfactory receptor 99	protein-coding	9.0	18.5	13.5	139.5	79.0	23.5	41.5	20.0
Merged-chr13-95973591-4	chr13	95973505	95973705	+	921.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029210, intron 12 of 12)	intron (NM_029210, intron 12 of 12)	-81683.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	18.0	22.5	6.0	233.0	34.5	8.0	13.5	23.0
Merged-chr1-180318682-4	chr1	180318608	180318808	+	865.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11768.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	8.5	13.5	16.0	135.5	30.0	8.0	13.0	13.5
Merged-chr10-79669152-5	chr10	79669076	79669276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148934)	promoter-TSS (NM_148934)	-234.0	NM_148934	110012.0	Mm.22623	NM_148934	ENSMUSG00000020308	Tpgs1	AV005629|Gm16517|Gtrgeo22|PGs1	tubulin polyglutamylase complex subunit 1	protein-coding	14.5	26.0	19.0	201.0	51.5	23.5	30.5	22.0
Merged-chr10-118080163-3	chr10	118080049	118080249	+	730.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B2|LTR|ERVK	-61638.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	10.0	13.5	6.5	111.0	3.5	1.5	2.0	4.0
Merged-chr18-46526036-4	chr18	46525920	46526120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173423)	promoter-TSS (NM_173423)	-49.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	283.0	421.5	310.5	3733.5	819.0	338.5	325.0	285.5
Merged-chr9-45405812-4	chr9	45405697	45405897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007503)	promoter-TSS (NM_007503)	-280.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	113.0	172.5	88.5	812.5	187.5	88.5	64.0	54.0
Merged-chr9-119983835-4	chr9	119983718	119983918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357560)	promoter-TSS (NM_001357560)	-39.0	NM_001357562	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	177.0	314.5	111.5	2172.5	585.0	233.5	254.5	142.5
Merged-chr1-87624997-2	chr1	87624897	87625097	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	4685.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	5.5	6.0	5.5	130.0	16.0	6.0	8.0	14.5
Merged-chr6-142573042-4	chr6	142572952	142573152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-1438.0	NM_001330366	16523.0	Mm.1482	NM_008428	ENSMUSG00000030247	Kcnj8	AI448900|Kir6.1|gnite|slmbr|sltr|uKATP-1	potassium inwardly-rectifying channel, subfamily J, member 8	protein-coding	20.5	34.0	39.5	462.0	43.0	31.0	20.0	30.0
Merged-chr13-35741958-4	chr13	35741841	35742041	+	955.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123386, intron 1 of 6)	CpG	539.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	13.5	11.0	25.0	113.5	29.0	20.0	9.5	15.0
Merged-chr5-30040036-4	chr5	30039922	30040122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26908.0	NM_031168	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	66.0	121.0	63.5	514.5	155.5	67.5	69.5	63.0
Merged-chr5-93195870-4	chr5	93195755	93195955	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017367, intron 2 of 6)	intron (NM_017367, intron 2 of 6)	10640.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	25.0	29.0	21.0	261.5	58.0	15.0	26.0	20.5
Merged-chr2-49619313-2	chr2	49619213	49619413	+	897.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008449)	promoter-TSS (NM_008449)	-1.0	NM_008449	16574.0	Mm.256342	NM_008449	ENSMUSG00000026764	Kif5c	KINN|Khc|NKHC|NKHC2	kinesin family member 5C	protein-coding	7.0	5.5	12.0	42.0	11.5	4.5	9.5	6.5
Merged-chr2-173769375-4	chr2	173769270	173769470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019806, intron 2 of 5)	intron (NM_019806, intron 2 of 5)	31799.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	47.5	46.5	34.0	511.0	57.0	16.5	38.0	36.0
Merged-chr17-79895443-4	chr17	79895278	79895478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357752, intron 1 of 13)	CpG	745.0	NM_178050	56298.0	Mm.175403	NM_019717	ENSMUSG00000059811	Atl2	2010110I21Rik|AA407293|AV334690|Aip-2|Arl6ip2	atlastin GTPase 2	protein-coding	30.0	45.5	62.5	517.0	89.0	45.5	38.0	47.5
Merged-chr1-93801990-4	chr1	93801910	93802110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023136)	promoter-TSS (NM_023136)	-76.0	NM_001105667	21915.0	Mm.250332	NM_023136	ENSMUSG00000026281	Dtymk	AU044245|CDC8|D10Ertd203e|TMPK|TYPK|Tmk|mtmk	deoxythymidylate kinase	protein-coding	185.5	306.5	220.0	2999.0	503.5	174.5	196.0	188.5
Merged-chr4-151995186-7	chr4	151995101	151995301	+	884.3095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172705, intron 1 of 3)	CpG	978.0	NM_172705	230936.0	Mm.25582	NM_172705	ENSMUSG00000047777	Phf13	BC029632|Phf5|SPOC1	PHD finger protein 13	protein-coding	2.0	9.0	14.5	76.5	29.5	11.0	7.5	12.5
Merged-chr11-86652358-2	chr11	86652258	86652458	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 5 of 11)	intron (NM_001356531, intron 5 of 11)	18917.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	10.0	12.0	2.5	148.0	28.0	8.0	11.5	12.0
Merged-chr4-141407062-3	chr4	141406963	141407163	+	877.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019701, intron 16 of 19)	intron (NM_019701, intron 16 of 19)	-8357.0	NM_024412	12733.0	Mm.167900	NM_024412	ENSMUSG00000033770	Clcnka	C75963|CLC-K1|Clcnk1	chloride channel, voltage-sensitive Ka	protein-coding	11.0	13.5	5.0	93.0	20.5	4.0	8.5	12.0
Merged-chr6-29735551-4	chr6	29735465	29735665	+	805.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176996)	promoter-TSS (NM_176996)	68.0	NM_176996	319757.0	Mm.29279	NM_176996	ENSMUSG00000001761	Smo	E130215L21Rik|Smoh|bnb|smoothened	smoothened, frizzled class receptor	protein-coding	11.5	9.5	12.0	103.0	18.0	4.0	4.0	8.5
Merged-chr7-81243259-4	chr7	81243160	81243360	+	828.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 1 of 21)	intron (NM_008803, intron 1 of 21)	29456.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	11.5	18.5	4.0	72.0	28.0	6.5	8.5	10.5
Merged-chr3-88336344-4	chr3	88336263	88336463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178246, exon 1 of 22)	5' UTR (NM_178246, exon 1 of 22)	103.0	NM_178246	229512.0	Mm.439830	NM_173188	ENSMUSG00000001415	Smg5	BC024683|mKIAA1089	Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	72.0	157.5	123.5	1012.0	172.5	88.5	79.0	110.5
Merged-chr3-106560275-4	chr3	106560171	106560371	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025582, intron 3 of 6)	B1F|SINE|Alu	-12469.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	32.5	36.0	30.0	304.0	47.5	15.0	28.5	36.5
Merged-chr12-86947301-4	chr12	86947200	86947400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289432)	promoter-TSS (NM_001289432)	-43.0	NM_173735	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	193.5	344.0	271.5	3237.0	531.0	220.0	313.0	215.5
Merged-chr14-70168111-4	chr14	70168021	70168221	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145978, intron 6 of 9)	intron (NM_145978, intron 6 of 9)	-8619.0	NM_001004155	268759.0	Mm.12148	NM_001004155	ENSMUSG00000044551	9930012K11Rik	-	RIKEN cDNA 9930012K11 gene	protein-coding	24.5	16.0	11.0	260.5	46.5	18.0	17.0	24.0
Merged-chr6-35177488-4	chr6	35177404	35177604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027513)	promoter-TSS (NM_027513)	-112.0	NM_027513	70699.0	Mm.261208	NM_027513	ENSMUSG00000038759	Nup205	3830404O05Rik|AV248391|mKIAA0225	nucleoporin 205	protein-coding	45.5	103.0	107.5	827.0	114.0	56.0	59.0	47.0
Merged-chr14-118941265-4	chr14	118941086	118941286	+	861.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008929, intron 1 of 11)	intron (NM_008929, intron 1 of 11)	3254.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	7.0	9.0	10.0	199.0	15.0	8.0	9.5	9.5
Merged-chr1-186704509-3	chr1	186704419	186704619	+	817.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001329107, exon 1 of 8)	exon (NM_001329107, exon 1 of 8)	1470.0	NM_009367	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	6.5	4.5	9.5	20.5	2.5	4.0	4.0	9.5
Merged-chr9-64143392-4	chr9	64143323	64143523	+	814.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026507, intron 17 of 18)	MTE2a|LTR|ERVL-MaLR	26276.0	NM_145835	235435.0	Mm.436581	NM_145835	ENSMUSG00000032401	Lctl	E130104I05Rik|KLPH	lactase-like	protein-coding	11.0	8.5	10.0	198.5	27.5	9.5	13.0	7.5
Merged-chr17-81574961-2	chr17	81574861	81575061	+	605.833374	f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	163426.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	8.5	8.5	7.0	42.0	8.5	3.0	2.0	1.5
Merged-chr4-106980744-3	chr4	106980677	106980877	+	902.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355532, intron 1 of 14)	intron (NM_001355532, intron 1 of 14)	57592.0	NM_001355532	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	1.0	4.5	3.0	89.0	27.5	7.5	16.0	13.5
Merged-chr10-95418034-4	chr10	95417918	95418118	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045339, intron 1 of 4)	intron (NR_045339, intron 1 of 4)	643.0	NR_045338	70523.0	Mm.158398	NR_045338	ENSMUSG00000097766	5730420D15Rik	-	RIKEN cDNA 5730420D15 gene	ncRNA	17.0	39.5	14.5	305.0	63.0	20.5	32.5	21.5
Merged-chr9-106365513-4	chr9	106365427	106365627	+	825.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-3105.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	10.5	13.0	3.0	104.0	20.0	9.5	7.0	16.5
Merged-chr6-125165184-2	chr6	125165095	125165295	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_001289726, intron 2 of 6)	CpG	578.0	NM_008084	14433.0	Mm.304088	NM_008084	ENSMUSG00000057666	Gapdh	Gapd	glyceraldehyde-3-phosphate dehydrogenase	protein-coding	29.0	58.5	43.5	291.5	117.0	35.5	42.5	53.5
Merged-chr16-4879317-4	chr16	4879210	4879410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145359, intron 1 of 2)	CpG	541.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	35.5	18.0	41.0	701.0	91.0	32.5	37.5	46.5
Merged-chr15-6562522-4	chr15	6562406	6562606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17341.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	115.0	168.0	130.0	1838.0	226.5	70.5	69.0	78.0
Merged-chr19-17256555-3	chr19	17256453	17256653	+	581.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	82952.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	9.0	15.5	10.5	84.5	2.5	3.5	4.5	2.0
Merged-chr17-69222518-4	chr17	69222416	69222616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 3 of 21)	intron (NM_001355736, intron 3 of 21)	54690.0	NR_045428	69750.0	Mm.439063	NR_045428	ENSMUSG00000100572	2410021H03Rik	-	RIKEN cDNA 2410021H03 gene	ncRNA	123.5	153.0	102.5	1603.5	273.5	116.5	120.5	92.0
Merged-chr4-128993167-4	chr4	128993052	128993252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033966)	promoter-TSS (NM_001033966)	-72.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	196.5	256.5	171.5	2485.5	463.5	184.0	145.5	180.0
Merged-chr16-21704684-4	chr16	21704595	21704795	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10030.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	17.0	33.5	12.0	282.0	48.5	11.0	15.0	13.0
Merged-chr15-67187520-4	chr15	67187427	67187627	+	616.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10645.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	8.5	5.5	11.5	125.0	20.5	8.0	3.0	13.5
Merged-chr4-40852680-4	chr4	40852587	40852787	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022305, intron 1 of 5)	intron (NM_022305, intron 1 of 5)	1850.0	NM_022305	14595.0	Mm.15622	NM_022305	ENSMUSG00000028413	B4galt1	B-1,4-GalT|B-1,4-GalT1|GalT|Ggtb|Ggtb2|b4Gal-T1|beta-1,4-GalT|beta-1,4-GalT1|beta4Gal-T1	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1	protein-coding	36.0	35.0	38.0	296.5	38.0	17.0	35.5	20.0
Merged-chr5-100429653-4	chr5	100429562	100429762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_034038)	promoter-TSS (NR_034038)	-127.0	NR_034038	100503199.0	Mm.392282	NR_034038	ENSMUSG00000097772	5430416N02Rik	100041797|Adapt33|Gm3514	RIKEN cDNA 5430416N02 gene	ncRNA	238.5	381.0	211.5	3556.5	577.5	230.5	255.0	249.0
Merged-chr9-77921117-4	chr9	77921019	77921219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 1 of 7)	intron (NM_134255, intron 1 of 7)	3754.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	16.5	31.5	9.0	268.0	75.5	10.0	30.5	35.5
Merged-chr10-95939941-2	chr10	95939841	95940041	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001932)	promoter-TSS (NM_001001932)	-722.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	4.0	16.0	5.5	49.0	10.5	10.5	4.5	8.0
Merged-chr8-123950321-3	chr8	123950243	123950443	+	872.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1078.0	NM_172288	234865.0	Mm.267812	NM_172288	ENSMUSG00000039509	Nup133	mermaid	nucleoporin 133	protein-coding	10.0	5.0	2.0	63.5	15.5	11.5	5.5	9.5
Merged-chr7-109528519-2	chr7	109528419	109528619	+	632.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001326, intron 14 of 19)	intron (NM_001001326, intron 14 of 19)	8387.0	NR_028079	100302499.0	Mm.482651	NR_028079	ENSMUSG00000065016	Snora3	MBI-28	small nucleolar RNA, H/ACA box 3	snoRNA	5.5	4.5	3.0	52.5	9.0	4.5	5.5	8.0
Merged-chr7-100198837-1	chr7	100198737	100198937	+	687.400024	f0_balb.idr	Intergenic	Lx6|LINE|L1	20154.0	NM_001190871	57442.0	Mm.282386	NM_020574	ENSMUSG00000035165	Kcne3	2210017H05Rik|MiRP2	potassium voltage-gated channel, Isk-related subfamily, gene 3	protein-coding	15.0	12.0	10.0	104.0	0.5	3.0	3.5	0.0
Merged-chr5-18013443-4	chr5	18013343	18013543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	50873.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	72.5	76.0	70.5	1360.5	162.5	61.5	62.5	68.5
Merged-chr17-71504043-4	chr17	71503938	71504138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023294, intron 13 of 16)	intron (NM_023294, intron 13 of 16)	22819.0	NM_023294	67052.0	Mm.225956	NM_023294	ENSMUSG00000024056	Ndc80	2610020P18Rik|AV139730|HEC|HEC1|Kntc2	NDC80 kinetochore complex component	protein-coding	29.0	46.5	23.5	492.5	104.0	50.5	38.5	38.0
Merged-chr6-89405189-4	chr6	89405081	89405281	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 5 of 6)	intron (NM_001167736, intron 5 of 6)	-42568.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	16.0	24.0	28.0	384.0	57.0	23.5	21.0	24.0
Merged-chr18-32693947-4	chr18	32693848	32694048	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045381, intron 4 of 4)	intron (NR_045381, intron 4 of 4)	-121435.0	NM_021367	53603.0	Mm.143716	NM_021367	ENSMUSG00000024379	Tslp	-	thymic stromal lymphopoietin	protein-coding	14.0	34.0	10.5	98.0	65.0	18.0	14.0	19.0
Merged-chr5-120612686-1	chr5	120612586	120612786	+	1000.0	f0_c57.idr	promoter-TSS (NM_028041)	promoter-TSS (NM_028041)	-97.0	NM_133908	100764.0	Mm.9654	NM_029096	ENSMUSG00000029600	Rita1	1110008J03Rik|AI853657|C86297|Rita	RBPJ interacting and tubulin associated 1	protein-coding	65.0	126.5	64.5	741.5	174.5	82.5	75.5	109.5
Merged-chr2-167351620-4	chr2	167351539	167351739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2461.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	37.5	65.0	37.5	686.0	135.5	45.5	48.5	34.0
Merged-chr2-144010524-4	chr2	144010490	144010690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133626, intron 1 of 2)	CpG	673.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	69.0	157.5	96.0	1479.5	333.5	133.5	144.0	121.0
Merged-chr3-142620652-4	chr3	142620541	142620741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010260)	promoter-TSS (NM_010260)	-22.0	NM_010260	14469.0	Mm.24038	NM_010260	ENSMUSG00000028270	Gbp2	-	guanylate binding protein 2	protein-coding	250.5	472.0	243.0	1634.0	387.5	142.5	135.5	101.5
Merged-chr16-92821203-4	chr16	92821050	92821250	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	MLT1C|LTR|ERVL-MaLR	4924.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	10.5	23.5	5.5	131.0	22.5	7.0	5.0	10.5
Merged-chr10-59578236-4	chr10	59578125	59578325	+	920.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033259, intron 1 of 7)	intron (NM_001033259, intron 1 of 7)	38467.0	NM_001033259	215999.0	Mm.296470	NM_001033259	ENSMUSG00000009647	Mcu	2010012O16Rik|AV064928|C10orf42|Ccdc109a|D130073L02Rik|Gm64	mitochondrial calcium uniporter	protein-coding	13.0	21.5	17.5	272.0	29.0	14.0	8.5	20.5
Merged-chr2-164867376-4	chr2	164867273	164867473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9665.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	70.0	108.0	100.5	1336.0	186.0	85.5	91.0	73.0
Merged-chr3-116184594-4	chr3	116184505	116184705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54917.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	30.0	58.0	43.5	525.5	104.0	37.0	30.5	43.0
Merged-chr3-88738819-4	chr3	88738735	88738935	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	21981.0	NR_028056	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	29.0	35.0	15.0	329.5	59.5	22.5	19.5	21.5
Merged-chr17-69199929-6	chr17	69199829	69200029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	40573.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	20.0	31.5	23.0	273.5	50.5	16.5	22.5	28.5
Merged-chr14-76114796-4	chr14	76114696	76114896	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013745, intron 3 of 9)	intron (NM_013745, intron 3 of 9)	3905.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	20.0	11.5	23.5	380.5	78.0	18.0	23.5	28.0
Merged-chr3-142598105-4	chr3	142597992	142598192	+	833.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010259, intron 1 of 10)	intron (NM_010259, intron 1 of 10)	3245.0	NM_010259	14468.0	Mm.457978	NM_010259	ENSMUSG00000040264	Gbp2b	Gbp-1|Gbp1|Mag-1|Mpa-1|Mpa1	guanylate binding protein 2b	protein-coding	5.0	4.0	10.0	81.0	29.5	10.0	15.0	18.0
Merged-chr6-124904248-4	chr6	124904142	124904342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008479)	TTS (NM_008479)	7463.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	36.0	42.0	37.0	413.0	75.5	32.5	24.0	35.5
Merged-chr9-110101037-4	chr9	110100933	110101133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252683)	promoter-TSS (NM_001252683)	54.0	NM_001252683	72831.0	Mm.276305	NM_133347	ENSMUSG00000032480	Dhx30	2810477H02Rik|C130058C04Rik|Ddx30|HELG|Ret-CoR	DEAH (Asp-Glu-Ala-His) box polypeptide 30	protein-coding	44.0	58.0	36.5	354.0	59.5	21.0	33.5	21.5
Merged-chr8-3648520-4	chr8	3648416	3648616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7254.0	NM_001204959	57264.0	Mm.1181	NM_022984	ENSMUSG00000012705	Retn	ADSF|Fizz3|Rstn|Xcp4	resistin	protein-coding	32.0	31.5	47.5	723.5	97.0	31.0	33.0	39.0
Merged-chr4-54338673-3	chr4	54338564	54338764	+	871.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	512619.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	6.0	7.0	22.0	236.5	1.0	0.5	3.0	0.5
Merged-chr6-145196757-2	chr6	145196659	145196859	+	586.75	f0_balb.idr|f1_c57bl6.idr	intron (NM_177222, intron 6 of 15)	intron (NM_177222, intron 6 of 15)	14211.0	NM_177222	320662.0	Mm.207779	NM_177222	ENSMUSG00000043541	Casc1	A230084G12Rik|Las1	cancer susceptibility candidate 1	protein-coding	10.0	9.5	11.5	86.0	0.0	0.0	0.0	2.0
Merged-chr5-137072776-3	chr5	137072648	137072848	+	970.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008871)	promoter-TSS (NM_008871)	-476.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	3.0	3.5	10.0	142.0	14.0	5.0	6.0	7.0
Merged-chr9-56272473-4	chr9	56272373	56272573	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 3 of 6)	intron (NM_172924, intron 3 of 6)	-111403.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	31.5	55.5	25.5	351.5	88.0	34.0	17.5	18.5
Merged-chr11-107323438-4	chr11	107323361	107323561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359616, intron 2 of 8)	intron (NM_001359616, intron 2 of 8)	-134080.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	80.5	102.0	61.5	841.5	176.5	50.5	97.0	49.0
Merged-chr8-13907702-4	chr8	13907608	13907808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347316)	promoter-TSS (NM_001347316)	-31.0	NM_025785	66822.0	Mm.37950	NM_025785	ENSMUSG00000038365	Fbxo25	9130015I06Rik|AI649137|Fbx25	F-box protein 25	protein-coding	74.0	124.5	71.5	1099.0	251.5	124.5	107.0	98.5
Merged-chr7-24387384-4	chr7	24387300	24387500	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12228.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	31.5	31.0	14.0	177.0	191.0	86.0	60.0	51.5
Merged-chr1-74438180-4	chr1	74438081	74438281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001310662, exon 24 of 24)	3' UTR (NM_001310662, exon 24 of 24)	28797.0	NM_009509	22349.0	Mm.471601	NM_009509	ENSMUSG00000026175	Vil1	Vil	villin 1	protein-coding	137.5	217.0	109.5	1743.5	280.0	102.5	139.5	133.0
Merged-chr15-53474332-4	chr15	53474223	53474423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177225, intron 4 of 4)	intron (NM_177225, intron 4 of 4)	-128140.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	34.5	24.0	37.0	663.5	89.5	22.0	47.0	33.5
Merged-chr16-90694938-3	chr16	90694839	90695039	+	854.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32432.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	12.5	6.0	9.0	88.5	29.0	2.5	8.0	2.5
Merged-chr6-31220372-4	chr6	31220263	31220463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040257)	promoter-TSS (NR_040257)	12.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	30.5	47.5	38.0	531.0	82.0	41.0	44.0	56.0
Merged-chr6-129233038-4	chr6	129232959	129233159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040268, intron 3 of 3)	intron (NR_040268, intron 3 of 3)	4986.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	271.5	400.0	263.0	3825.0	587.5	251.0	259.0	221.5
Merged-chr5-124353761-5	chr5	124353713	124353913	+	855.2899779999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013812, intron 1 of 3)	CpG	815.0	NM_013812	13445.0	Mm.391838	NM_013812	ENSMUSG00000029394	Cdk2ap1	Apc10|Cdkap1|DORC1|Doc1|ST19|doc-1|p12	CDK2 (cyclin-dependent kinase 2)-associated protein 1	protein-coding	10.0	23.0	12.5	128.0	40.0	14.0	11.5	21.0
Merged-chr9-62838050-4	chr9	62837963	62838163	+	976.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033175)	promoter-TSS (NM_001033175)	-724.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	12.5	18.0	6.5	260.5	27.0	10.0	20.0	29.5
Merged-chr13-113615735-5	chr13	113615653	113615853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	2811.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	96.5	117.5	153.5	1746.5	177.5	89.0	133.0	129.5
Merged-chr11-77793400-4	chr11	77793296	77793496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011586, intron 1 of 39)	intron (NM_011586, intron 1 of 39)	-7902.0	NM_001291214	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	81.0	128.5	81.0	948.0	184.5	69.5	60.0	60.5
Merged-chr13-91461978-4	chr13	91461882	91462082	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 1 of 15)	CpG	885.0	NM_024186	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	25.5	19.5	18.5	257.0	47.0	10.0	14.0	28.5
Merged-chr1-16227888-3	chr1	16227747	16227947	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025303)	TTS (NM_025303)	121965.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	18.0	7.0	9.5	132.0	10.0	9.0	3.5	9.5
Merged-chr12-85340182-4	chr12	85340111	85340311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145138)	promoter-TSS (NM_145138)	-849.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	56.0	51.0	39.0	675.5	129.0	36.5	52.5	46.0
Merged-chr9-62977400-4	chr9	62977299	62977499	+	960.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 1 of 13)	intron (NM_019663, intron 1 of 13)	3480.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	20.5	42.5	9.5	223.0	80.5	24.0	23.0	19.0
Merged-chr10-67960113-3	chr10	67960003	67960203	+	890.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0-int|LTR|ERVL-MaLR	13605.0	NR_152797	75067.0	Mm.416933	NR_152797	ENSMUSG00000112899	4930521O17Rik	-	RIKEN cDNA 4930521O17 gene	ncRNA	0.0	0.0	0.0	0.0	29.5	24.5	18.5	24.5
Merged-chr2-180042514-4	chr2	180042408	180042608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011969)	promoter-TSS (NM_011969)	25.0	NM_178750	269397.0	Mm.63068	NM_178750	ENSMUSG00000039086	Ss18l1	A230053O16Rik|CREST	SS18, nBAF chromatin remodeling complex subunit like 1	protein-coding	107.0	194.0	118.5	1792.0	306.0	137.5	150.5	113.5
Merged-chr5-145191580-4	chr5	145191481	145191681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020582)	promoter-TSS (NM_020582)	11.0	NM_020582	57423.0	Mm.133551	NM_020582	ENSMUSG00000038690	Atp5j2	1110019H14Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F2	protein-coding	69.5	58.0	34.0	816.0	145.5	74.5	64.5	61.0
Merged-chr13-98316854-6	chr13	98316682	98316882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_137279)	promoter-TSS (NR_137279)	185.0	NM_145455	218490.0	Mm.371688	NM_145455	ENSMUSG00000021660	Btf3	1700054E11Rik	basic transcription factor 3	protein-coding	18.0	32.0	48.5	279.5	71.5	39.5	26.5	45.0
Merged-chr16-57390870-3	chr16	57390765	57390965	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	37588.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	7.5	8.0	7.5	134.0	17.0	4.0	10.0	3.5
Merged-chr10-111108877-4	chr10	111108735	111108935	+	946.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55967.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	13.0	14.5	16.5	188.5	34.5	13.0	16.0	13.5
Merged-chr6-97856425-4	chr6	97856309	97856509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	49351.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	29.5	79.0	40.5	628.5	42.0	22.5	26.0	21.0
Merged-chr7-120823428-3	chr7	120823324	120823524	+	745.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19407.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	11.5	9.5	5.5	70.0	21.0	2.5	3.5	11.0
Merged-chr9-62196964-2	chr9	62196864	62197064	+	665.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47136.0	NR_040769	330958.0	Mm.411888	NR_040769	ENSMUSG00000111232	A730043L09Rik	A730043L09	RIKEN cDNA A730043L09 gene	ncRNA	5.0	11.5	4.5	33.5	7.5	3.0	6.0	6.0
Merged-chr4-24568224-4	chr4	24568124	24568324	+	942.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149739, intron 13 of 24)	intron (NR_149739, intron 13 of 24)	71773.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	27.0	29.0	29.5	525.5	24.0	13.5	14.0	24.5
Merged-chr1-53775263-3	chr1	53775139	53775339	+	888.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133810, intron 2 of 7)	intron (NM_133810, intron 2 of 7)	9976.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	10.5	11.0	4.5	144.5	5.0	11.0	5.5	8.5
Merged-chr5-101994259-6	chr5	101994051	101994251	+	887.5166630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	75770.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	8.0	3.0	2.0	49.0	24.5	13.0	21.5	9.5
Merged-chr13-23816315-4	chr13	23816201	23816401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144836, intron 5 of 11)	intron (NM_144836, intron 5 of 11)	9274.0	NM_144836	218103.0	Mm.24030	NM_144836	ENSMUSG00000036110	Slc17a2	C730032N17Rik|NPT3	solute carrier family 17 (sodium phosphate), member 2	protein-coding	41.5	50.0	31.0	753.0	58.0	24.5	37.0	26.0
Merged-chr15-97767935-4	chr15	97767816	97768016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144850)	promoter-TSS (NM_144850)	-250.0	NM_001357630	223864.0	Mm.24028	NM_144850	ENSMUSG00000022469	Rapgef3	2310016P22Rik|9330170P05Rik|Epac|Epac1	Rap guanine nucleotide exchange factor (GEF) 3	protein-coding	41.0	51.0	52.5	490.5	58.5	23.0	25.0	26.5
Merged-chr17-17392062-4	chr17	17392024	17392224	+	860.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025934, intron 9 of 9)	intron (NM_025934, intron 9 of 9)	-10562.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	15.0	12.0	9.5	132.0	36.5	11.0	6.5	9.0
Merged-chr11-93736830-4	chr11	93736732	93736932	+	972.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148934.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	11.0	5.0	12.5	330.5	77.0	23.5	48.0	23.5
Merged-chr9-71140330-4	chr9	71140258	71140458	+	837.237488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073483, intron 1 of 6)	intron (NR_073483, intron 1 of 6)	22275.0	NM_001271843	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	11.0	10.5	18.5	303.5	35.5	8.5	18.0	11.0
Merged-chr1-107583049-4	chr1	107582942	107583142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-6964.0	NM_011459	20725.0	Mm.83909	NM_011459	ENSMUSG00000026315	Serpinb8	CAP-2|CAP2|NK10|Spi8|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 8	protein-coding	151.5	225.5	188.5	2041.5	341.5	114.0	106.5	143.5
Merged-chr7-100495911-4	chr7	100495830	100496030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011671, intron 2 of 7)	intron (NM_011671, intron 2 of 7)	2572.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	258.5	295.5	147.0	2724.0	521.5	211.0	223.5	209.5
Merged-chr2-124690573-4	chr2	124690464	124690664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	36983.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	108.5	129.0	157.0	2783.0	207.0	71.0	153.0	105.5
Merged-chr18-34373343-8	chr18	34373363	34373563	+	937.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007874)	promoter-TSS (NM_007874)	-48.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	32.5	33.5	32.0	353.0	79.0	32.0	27.0	31.0
Merged-chr2-181409792-4	chr2	181409678	181409878	+	947.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028125)	TTS (NM_028125)	14610.0	NM_027656	72147.0	Mm.486504	NM_027656	ENSMUSG00000027583	Zbtb46	2610019F01Rik|4933406L05Rik|BZEL|Btbd4	zinc finger and BTB domain containing 46	protein-coding	17.0	18.5	8.5	269.0	36.0	14.5	23.5	13.0
Merged-chr2-170173920-3	chr2	170173843	170174043	+	641.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31268.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	9.0	10.0	10.0	111.0	12.0	4.5	8.5	5.0
Merged-chr11-3196499-7	chr11	3196339	3196539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2976.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	30.0	13.5	38.0	274.0	66.5	21.5	25.5	51.0
Merged-chr9-118922153-4	chr9	118922069	118922269	+	801.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4367.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	7.0	9.0	2.5	124.0	12.0	6.5	6.5	13.0
Merged-chr18-38428447-2	chr18	38428347	38428547	+	946.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	9540.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	5.0	8.0	7.0	55.0	5.0	3.0	6.0	3.5
Merged-chr13-45389669-4	chr13	45389570	45389770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153789)	promoter-TSS (NM_153789)	-72.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	271.5	448.0	241.0	3541.0	616.5	256.0	237.5	221.5
Merged-chr18-23753675-4	chr18	23753572	23753772	+	933.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162941)	promoter-TSS (NM_001162941)	-53.0	NM_001162941	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	12.5	12.5	16.5	252.5	53.0	15.0	22.0	13.0
Merged-chr1-179232187-4	chr1	179232076	179232276	+	688.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 5 of 11)	intron (NM_027188, intron 5 of 11)	285865.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	5.0	7.5	2.5	127.5	25.0	10.5	9.5	14.0
Merged-chr9-37613673-4	chr9	37613563	37613763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324545)	promoter-TSS (NM_001324545)	57.0	NM_011449	20686.0	Mm.8637	NM_011449	ENSMUSG00000001948	Spa17	Sp17	sperm autoantigenic protein 17	protein-coding	164.0	170.0	132.5	1763.5	466.0	189.5	192.5	182.5
Merged-chr19-17339782-3	chr19	17339682	17339882	+	998.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136484)	promoter-TSS (NM_001136484)	-277.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	36.0	27.5	26.0	321.5	23.5	10.5	9.5	10.0
Merged-chr17-7433299-2	chr17	7433199	7433399	+	889.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47994.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	5.0	4.5	14.0	108.5	20.5	5.0	11.0	12.0
Merged-chr13-60594443-4	chr13	60594336	60594536	+	960.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-7511.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	25.0	29.0	23.5	286.0	33.5	19.5	30.5	36.0
Merged-chr11-32552833-3	chr11	32552699	32552899	+	804.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	19533.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	11.0	13.0	6.0	140.0	7.5	6.5	5.0	3.0
Merged-chr2-14231616-4	chr2	14231515	14231715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 1 of 29)	intron (NM_008625, intron 1 of 29)	2201.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	71.0	90.5	53.5	796.0	143.0	59.0	41.0	51.5
Merged-chr1-16161627-4	chr1	16161521	16161721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	55739.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	67.5	111.0	72.0	925.0	159.0	54.0	64.5	49.5
Merged-chr4-125127930-4	chr4	125127825	125128025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153159)	promoter-TSS (NM_153159)	-44.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	144.0	281.5	101.0	1495.0	411.0	143.0	162.5	151.5
Merged-chr16-4777315-4	chr16	4777197	4777397	+	987.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358082, intron 1 of 5)	intron (NM_001358082, intron 1 of 5)	12165.0	NM_001358078	66626.0	Mm.157648	NM_025670	ENSMUSG00000004071	Cdip1	2700048O17Rik|5730403B10Rik|AU018521|AW742692|CDIP	cell death inducing Trp53 target 1	protein-coding	20.0	24.5	21.0	515.0	31.0	13.0	23.0	22.0
Merged-chr19-41345656-4	chr19	41345550	41345750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	39420.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	48.0	50.0	44.0	688.0	100.5	32.5	36.5	53.0
Merged-chr11-116409223-2	chr11	116409123	116409323	+	871.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 1 of 18)	L1M4|LINE|L1	3809.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	8.0	11.0	1.5	62.5	55.0	9.0	7.0	7.0
Merged-chr10-59879042-4	chr10	59878925	59879125	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019965)	promoter-TSS (NM_019965)	-566.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	21.0	18.5	15.5	286.0	36.5	13.0	23.0	21.5
Merged-chr7-126628213-1	chr7	126628113	126628313	+	634.666687	f0_c57.idr	Intergenic	Intergenic	-2743.0	NM_019738	56312.0	Mm.18742	NM_019738	ENSMUSG00000030717	Nupr1	2310032H04Rik|Com1|p8	nuclear protein transcription regulator 1	protein-coding	6.0	11.0	9.0	52.5	26.0	8.5	8.0	9.0
Merged-chr7-90030908-5	chr7	90030827	90031027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 1 of 5)	intron (NR_110365, intron 1 of 5)	1768.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	19.5	33.5	47.5	413.5	70.5	29.5	64.5	39.0
Merged-chr19-10739004-4	chr19	10738900	10739100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007650)	promoter-TSS (NM_007650)	-26.0	NM_007650	12507.0	Mm.779	NM_007650	ENSMUSG00000024669	Cd5	Ly-1|Ly-12|Ly-A|Lyt-1	CD5 antigen	protein-coding	34.0	51.5	19.5	401.0	60.5	18.0	28.5	22.0
Merged-chr5-32610306-4	chr5	32610219	32610419	+	897.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205133)	promoter-TSS (NM_001205133)	-852.0	NM_001205133	22612.0	Mm.4558	NM_009535	ENSMUSG00000014932	Yes1	Yes|p61-Yes	YES proto-oncogene 1, Src family tyrosine kinase	protein-coding	8.5	21.5	12.5	256.5	30.0	11.5	12.5	9.5
Merged-chr4-119339099-4	chr4	119339002	119339202	+	893.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270446, intron 5 of 9)	intron (NM_001270446, intron 5 of 9)	-18579.0	NM_001110130	66101.0	Mm.304080	NM_028677	ENSMUSG00000060288	Ppih	1100001J08Rik|2010111B15Rik|4833408F11Rik|AI464484|CYP-20|CYPH|D4Wsu43e	peptidyl prolyl isomerase H	protein-coding	16.0	26.0	13.5	224.5	31.5	12.0	8.0	23.5
Merged-chr3-136113178-4	chr3	136113117	136113317	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 7 of 16)	intron (NM_001033350, intron 7 of 16)	212849.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	43.0	45.5	40.0	533.0	40.0	9.5	17.0	13.5
Merged-chr10-18917327-4	chr10	18917317	18917517	+	848.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72346.0	NM_022032	64058.0	Mm.28209	NM_022032	ENSMUSG00000019851	Perp	1110017A08Rik|KCP1|KRTCAP1|PIGPC1|THW	PERP, TP53 apoptosis effector	protein-coding	6.5	11.0	11.0	118.5	20.0	2.0	4.0	11.5
Merged-chr9-21526166-4	chr9	21526083	21526283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_206536)	promoter-TSS (NM_206536)	6.0	NM_206536	382062.0	Mm.325205	NM_206536	ENSMUSG00000057191	AB124611	Gm1706	cDNA sequence AB124611	protein-coding	82.0	79.0	111.0	1363.5	110.5	44.0	51.0	45.5
Merged-chr4-22357612-4	chr4	22357511	22357711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104378)	promoter-TSS (NR_104378)	68.0	NR_104380	269514.0	Mm.40708	NM_172988	ENSMUSG00000040410	Fbxl4	AI836810|FBL4|FBL5	F-box and leucine-rich repeat protein 4	protein-coding	145.5	162.0	228.5	2724.0	272.0	96.5	159.5	148.5
Merged-chr16-22654567-4	chr16	22654474	22654674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346673, intron 1 of 23)	intron (NM_001346673, intron 1 of 23)	2657.0	NM_138650	110197.0	Mm.194986	NM_138650	ENSMUSG00000022861	Dgkg	2900055E17Rik|90kDa|AI854428|Dagk3|E430001K23Rik|mKIAA4131	diacylglycerol kinase, gamma	protein-coding	61.0	65.0	57.5	1009.5	122.0	35.5	51.0	49.5
Merged-chr9-58588863-4	chr9	58588766	58588966	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151824, intron 1 of 7)	intron (NR_151824, intron 1 of 7)	6626.0	NM_001357751	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	35.5	22.5	27.0	429.0	60.5	14.0	27.5	28.5
Merged-chr11-76884722-3	chr11	76884623	76884823	+	894.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21B|LTR|ERVL	-19822.0	NM_025655	66601.0	Mm.25138	NM_025655	ENSMUSG00000020839	Tmigd1	2010002A20Rik|Tmigd	transmembrane and immunoglobulin domain containing 1	protein-coding	19.5	26.5	21.5	270.5	7.5	6.0	5.5	13.0
Merged-chr14-62026761-4	chr14	62026667	62026867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	266212.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	36.5	35.5	31.5	440.5	75.0	9.5	25.0	24.5
Merged-chr15-8995001-5	chr15	8994842	8995042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198024, intron 1 of 13)	intron (NM_198024, intron 1 of 13)	26993.0	NM_198024	223332.0	Mm.321371	NM_198024	ENSMUSG00000048424	Ranbp3l	C130037N17Rik	RAN binding protein 3-like	protein-coding	17.0	21.5	16.0	384.5	43.5	17.5	13.0	20.5
Merged-chr3-105047800-4	chr3	105047703	105047903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 1 of 5)	B4A|SINE|B4	5150.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	58.0	69.0	43.5	801.0	112.0	32.5	49.5	39.5
Merged-chr9-77733939-4	chr9	77733846	77734046	+	948.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-20589.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	18.5	18.0	17.0	356.0	38.0	14.5	21.0	12.0
Merged-chr19-44408790-4	chr19	44408702	44408902	+	934.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-1093.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	5.5	24.5	8.5	150.0	35.5	7.0	13.0	15.0
Merged-chr7-127512972-4	chr7	127512870	127513070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024331)	promoter-TSS (NR_024331)	-101.0	NR_024331	629159.0	Mm.256720	NR_024331	ENSMUSG00000101225	1700008J07Rik	AW048743	RIKEN cDNA 1700008J07 gene	ncRNA	50.0	73.0	62.5	538.5	143.5	50.0	55.5	44.5
Merged-chr5-90783871-4	chr5	90783784	90783984	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2217.0	NM_203320	330122.0	Mm.244289	NM_203320	ENSMUSG00000029379	Cxcl3	Dcip1|Gm1960	chemokine (C-X-C motif) ligand 3	protein-coding	23.0	26.5	22.5	287.5	27.0	9.5	16.5	8.0
Merged-chr19-23246755-4	chr19	23246660	23246860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252684, intron 8 of 24)	L2|LINE|L2	25839.0	NM_001252685	226026.0	Mm.23267	NM_153808	ENSMUSG00000024943	Smc5	MLZ-453|SMC-5|Smc5l1|mKIAA0594|mSMC5	structural maintenance of chromosomes 5	protein-coding	82.0	128.5	128.5	1813.5	325.0	96.5	110.0	102.0
Merged-chr9-5345504-4	chr9	5345411	5345611	+	695.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009808)	promoter-TSS (NM_009808)	35.0	NM_009808	12364.0	Mm.42163	NM_009808	ENSMUSG00000025887	Casp12	-	caspase 12	protein-coding	10.5	4.0	8.5	100.5	27.5	7.5	8.5	6.0
Merged-chr10-80985759-4	chr10	80985648	80985848	+	926.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	CpG	15617.0	NM_001038655	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	14.5	51.5	9.0	128.0	111.0	31.5	14.5	13.0
Merged-chr11-94653873-4	chr11	94653749	94653949	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177752)	promoter-TSS (NM_177752)	58.0	NM_053161	94064.0	Mm.34951	NM_053161	ENSMUSG00000024414	Mrpl27	A630055F16Rik|D11Moh47|D18Ertd643e	mitochondrial ribosomal protein L27	protein-coding	23.5	30.0	17.5	163.0	78.5	26.0	20.0	30.0
Merged-chr10-88146968-4	chr10	88146865	88147065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027191)	promoter-TSS (NM_027191)	-24.0	NM_029249	75317.0	Mm.179378	NM_029249	ENSMUSG00000035365	Parpbp	4930547N16Rik|AI503644|PARI	PARP1 binding protein	protein-coding	35.5	35.0	21.5	493.5	81.0	21.5	38.5	35.0
Merged-chr3-65820087-3	chr3	65819991	65820191	+	936.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166659, exon 12 of 13)	exon (NM_001166659, exon 12 of 13)	138158.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	5.5	16.0	9.5	186.5	12.5	7.0	6.0	6.5
Merged-chr5-24598753-4	chr5	24598644	24598844	+	882.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025891, exon 2 of 13)	exon (NM_025891, exon 2 of 13)	3258.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	10.0	21.5	17.5	198.0	25.0	13.5	13.0	10.0
Merged-chr10-37156474-4	chr10	37156376	37156576	+	872.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17550.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	8.5	7.5	10.5	110.0	37.5	11.5	12.0	9.0
Merged-chr16-65197465-4	chr16	65197372	65197572	+	888.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-91688.0	NM_008310	15557.0	Mm.5040	NM_008310	ENSMUSG00000050783	Htr1f	Htr1eb	5-hydroxytryptamine (serotonin) receptor 1F	protein-coding	13.0	19.5	18.5	164.0	18.5	11.0	7.0	7.5
Merged-chr19-17125570-4	chr19	17125490	17125690	+	977.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181348, exon 9 of 20)	exon (NM_181348, exon 9 of 20)	169472.0	NM_181348	353211.0	Mm.257354	NM_181348	ENSMUSG00000039126	Prune2	6330414G02Rik|A230083H22Rik|A330102H22Rik|Bmcc1|mKIAA0367	prune homolog 2	protein-coding	41.0	25.5	18.0	606.0	40.5	21.5	15.5	28.5
Merged-chr2-13439122-4	chr2	13439022	13439222	+	887.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 22 of 66)	intron (NM_001081084, intron 22 of 66)	52754.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	15.0	30.0	8.5	137.5	29.0	10.0	12.5	11.5
Merged-chr5-99269253-3	chr5	99269158	99269358	+	832.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16331.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	12.0	15.5	8.0	118.5	21.5	6.5	5.0	9.5
Merged-chr3-19310868-2	chr3	19310768	19310968	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001122759, exon 1 of 13)	exon (NM_001122759, exon 1 of 13)	454.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	13.0	17.0	24.5	231.0	35.5	18.0	11.0	17.0
Merged-chr6-50074295-4	chr6	50074185	50074385	+	974.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16B_MM|LTR|ERVK	-35956.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	26.0	49.5	42.5	552.5	51.0	15.5	17.0	23.5
Merged-chr15-84190084-4	chr15	84189992	84190192	+	897.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_054088)	TTS (NM_054088)	-2141.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	8.0	17.5	12.0	99.0	55.5	13.5	15.5	22.0
Merged-chr19-53038694-4	chr19	53038589	53038789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133216)	promoter-TSS (NM_133216)	-35.0	NM_133216	170750.0	Mm.99776	NM_133216	ENSMUSG00000025027	Xpnpep1	D230045I08Rik|sAMP	X-prolyl aminopeptidase (aminopeptidase P) 1, soluble	protein-coding	333.0	544.0	348.5	4531.0	775.0	291.5	446.0	324.5
Merged-chr6-116631173-4	chr6	116631056	116631256	+	976.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2157.0	NM_026057	67255.0	Mm.18810	NM_026057	ENSMUSG00000059878	Zfp422	2900028O21Rik|AU041373|KOX15|Krox-25-2|Krox-26|Krox25|Krox26|Znf22	zinc finger protein 422	protein-coding	21.0	30.0	8.5	334.0	38.5	17.0	17.5	19.0
Merged-chr15-39232894-3	chr15	39232795	39232995	+	867.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256383, intron 1 of 25)	MERV1_I-int|LTR|ERV1	34609.0	NM_053271	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	15.5	7.5	9.0	185.0	13.0	2.5	7.0	6.5
Merged-chr2-45116051-7	chr2	45115836	45116036	+	924.31427	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355288, intron 1 of 10)	intron (NM_001355288, intron 1 of 10)	1506.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	12.0	6.5	6.5	56.5	24.0	13.0	10.0	10.5
Merged-chr7-141263910-2	chr7	141263810	141264010	+	621.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001252600, exon 7 of 9)	exon (NM_001252600, exon 7 of 9)	2514.0	NM_001252601	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	5.0	4.5	5.0	11.0	7.5	3.0	2.0	6.5
Merged-chr14-103547893-4	chr14	103547827	103548027	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022886, intron 8 of 30)	B1_Mm|SINE|Alu	34586.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	3.0	8.5	7.0	23.0	22.5	4.5	6.5	10.0
Merged-chr12-59207115-5	chr12	59206969	59207169	+	944.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033156, intron 1 of 3)	B1F|SINE|Alu	12414.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	2.0	20.0	5.5	189.5	11.0	7.0	10.0	4.5
Merged-chr2-52988063-4	chr2	52987948	52988148	+	937.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	130180.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	12.0	29.5	15.5	251.5	34.5	11.0	5.0	10.0
Merged-chr1-74854883-2	chr1	74854783	74854983	+	836.666687	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009872)	promoter-TSS (NM_009872)	-146.0	NM_009872	12570.0	Mm.153833	NM_009872	ENSMUSG00000090071	Cdk5r2	B230310J22Rik|p39	cyclin-dependent kinase 5, regulatory subunit 2 (p39)	protein-coding	12.5	13.5	6.0	45.5	11.5	12.0	2.0	3.0
Merged-chr6-113604807-4	chr6	113604729	113604929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133937)	promoter-TSS (NM_133937)	57.0	NM_133937	101314.0	Mm.485793	NM_133937	ENSMUSG00000033940	Brk1	6720456B07Rik|AW011779	BRICK1, SCAR/WAVE actin-nucleating complex subunit	protein-coding	32.0	38.0	49.5	312.5	48.5	31.0	24.0	30.5
Merged-chr13-119602410-2	chr13	119602310	119602510	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	intron (NM_001177666, intron 2 of 3)	-21409.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	6.0	9.5	14.0	28.5	3.5	6.0	3.0	7.0
Merged-chr1-189921906-1	chr1	189921806	189922006	+	1000.0	f1_balb.idr	intron (NM_026796, intron 1 of 11)	CpG	385.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	6.0	16.0	13.5	191.0	7.5	3.0	3.5	7.0
Merged-chr6-52905917-2	chr6	52905817	52906017	+	844.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	3703.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	4.5	4.5	17.0	44.0	16.0	6.0	7.5	11.5
Merged-chr16-44780850-3	chr16	44780749	44780949	+	847.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	15113.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	7.0	12.0	6.5	57.5	12.5	8.5	5.0	10.5
Merged-chr1-169969316-4	chr1	169969218	169969418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040438)	promoter-TSS (NR_040438)	-91.0	NR_040438	67303.0	Mm.396611	NR_040438	ENSMUSG00000097503	3110045C21Rik	AI838577	RIKEN cDNA 3110045C21 gene	ncRNA	234.0	446.0	254.0	4162.5	507.0	171.0	314.5	186.5
Merged-chr3-129969539-4	chr3	129969428	129969628	+	912.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025779, intron 1 of 7)	intron (NM_025779, intron 1 of 7)	678.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	9.5	30.0	9.0	323.0	27.0	9.0	12.0	19.5
Merged-chr3-54353454-4	chr3	54353374	54353574	+	947.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7633.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	14.0	21.0	10.0	201.0	38.0	9.5	23.5	17.5
Merged-chr1-150759715-1	chr1	150759615	150759815	+	727.0	f0_balb.idr	intron (NM_001024720, intron 15 of 106)	intron (NM_001024720, intron 15 of 106)	233720.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	10.0	5.5	9.5	85.5	3.0	0.5	1.5	2.0
Merged-chr14-54387890-3	chr14	54387762	54387962	+	856.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	21610.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	6.5	20.0	25.0	272.5	1.0	0.0	5.5	1.5
Merged-chr11-19965085-2	chr11	19964985	19965185	+	995.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	40643.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	2.5	27.5	5.0	49.0	44.0	14.5	11.5	5.5
Merged-chr10-6916740-4	chr10	6916659	6916859	+	941.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001170802)	TTS (NM_001170802)	63522.0	NM_001347225	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	23.0	19.5	4.5	364.0	30.5	15.5	14.0	15.0
Merged-chr10-85957798-4	chr10	85957678	85957878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145422)	promoter-TSS (NM_145422)	15.0	NM_145422	28088.0	Mm.9257	NM_145422	ENSMUSG00000001783	Rtcb	AI255213|AI463255|D10Wsu52e|FAAP|HSPC117	RNA 2',3'-cyclic phosphate and 5'-OH ligase	protein-coding	89.5	84.0	57.0	1234.0	193.5	66.0	69.0	86.0
Merged-chr11-113335029-1	chr11	113334929	113335129	+	1000.0	f1_balb.idr	intron (NM_027216, intron 6 of 9)	ORR1E|LTR|ERVL-MaLR	-125360.0	NR_040276	319871.0	Mm.383743	NR_040276	ENSMUSG00000085421	4732490B19Rik	-	RIKEN cDNA 4732490B19 gene	ncRNA	30.5	29.0	23.5	274.0	9.0	4.5	6.5	5.0
Merged-chr13-9150143-4	chr13	9150063	9150263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 9 of 17)	intron (NM_172585, intron 9 of 17)	56282.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	79.5	215.0	134.5	1099.0	176.5	63.5	42.0	33.0
Merged-chr9-7837922-1	chr9	7837822	7838022	+	1000.0	f0_c57.idr	promoter-TSS (NM_007465)	promoter-TSS (NM_007465)	-865.0	NM_007465	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	7.5	30.5	18.5	179.5	55.5	22.0	31.0	18.5
Merged-chr7-4964469-4	chr7	4964367	4964567	+	837.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146329)	promoter-TSS (NM_001146329)	-119.0	NM_001146329	381836.0	Mm.297829	NM_001146329	ENSMUSG00000030433	Sbk2	Gm1079|Sgk069	SH3-binding domain kinase family, member 2	protein-coding	40.0	44.5	11.5	359.5	28.0	10.5	11.0	12.0
Merged-chr18-34778277-2	chr18	34778177	34778377	+	865.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081256, intron 1 of 23)	intron (NM_001081256, intron 1 of 23)	1269.0	NM_001081256	277250.0	Mm.277906	NM_029518	ENSMUSG00000038773	Kdm3b	5830462I21Rik|JHDM2B|Jmjd1b|mKIAA1082	KDM3B lysine (K)-specific demethylase 3B	protein-coding	7.0	6.5	7.0	59.0	10.0	3.0	2.0	3.5
Merged-chr12-3737187-3	chr12	3737105	3737305	+	832.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-69775.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	7.5	7.5	6.0	94.0	32.0	15.0	8.5	12.5
Merged-chr2-27699703-4	chr2	27699559	27699759	+	945.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	-9633.0	NM_001290481	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	35.5	13.5	27.5	420.5	45.5	11.0	35.0	12.0
Merged-chr8-80272695-3	chr8	80272607	80272807	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-214699.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	3.5	7.5	19.0	193.0	9.5	4.5	5.5	5.5
Merged-chr7-5083430-4	chr7	5083297	5083497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010147, intron 2 of 11)	intron (NM_010147, intron 2 of 11)	3162.0	NM_001252454	13854.0	Mm.3091	NM_010147	ENSMUSG00000035203	Epn1	AA269831|Ibp1	epsin 1	protein-coding	19.0	33.0	32.0	488.0	41.5	21.0	37.5	32.0
Merged-chr8-122376516-4	chr8	122376407	122376607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310650)	promoter-TSS (NM_001310650)	-102.0	NM_001310650	76014.0	Mm.241489	NM_001029993	ENSMUSG00000017478	Zc3h18	1190001B23Rik|5830416A07Rik|Nhn1	zinc finger CCCH-type containing 18	protein-coding	107.5	154.0	97.0	923.5	324.0	114.5	125.5	110.5
Merged-chr15-100411256-2	chr15	100411145	100411345	+	994.916626	f0_c57.idr|f1_c57bl6.idr	intron (NM_001356952, intron 2 of 15)	intron (NM_001356952, intron 2 of 15)	11810.0	NM_001146161	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	0.0	3.0	0.0	10.5	53.0	22.5	24.0	19.0
Merged-chr19-12572815-3	chr19	12572726	12572926	+	773.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346545)	promoter-TSS (NM_001346545)	-684.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	4.5	5.5	8.5	8.5	28.0	10.5	10.5	10.0
Merged-chr18-56466632-4	chr18	56466538	56466738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	34506.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	38.0	40.0	33.0	714.5	116.5	24.5	34.5	32.0
Merged-chr12-103425935-4	chr12	103425835	103426035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020494)	promoter-TSS (NM_020494)	-68.0	NM_020494	27225.0	Mm.3935	NM_020494	ENSMUSG00000041645	Ddx24	1700055J08Rik|2510027P10Rik|AI649272	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	protein-coding	389.5	471.0	358.0	5396.5	709.0	319.0	441.5	292.5
Merged-chr14-21231910-4	chr14	21231791	21231991	+	859.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 4 of 10)	L1M3|LINE|L1	155739.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	7.5	14.0	15.0	192.5	22.0	2.0	9.0	11.5
Merged-chr5-123508330-4	chr5	123508256	123508456	+	930.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001289822)	TTS (NM_001289822)	-2104.0	NM_198611	231727.0	Mm.484068	NM_198611	ENSMUSG00000029431	B3gnt4	1010001G17Rik|BGnT-4	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 4	protein-coding	27.5	18.0	16.5	304.5	27.0	18.0	13.5	17.0
Merged-chr7-118742582-4	chr7	118742463	118742663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 1 of 30)	intron (NM_027815, intron 1 of 30)	2292.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	69.5	107.5	67.5	946.0	164.5	49.0	90.0	52.0
Merged-chr1-136127092-4	chr1	136127005	136127205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_046167)	TTS (NR_046167)	4078.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	36.0	48.0	32.0	659.0	100.0	46.5	46.0	43.0
Merged-chr12-40585090-4	chr12	40584964	40585164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	139011.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	169.0	277.5	175.0	2555.5	372.5	148.0	156.5	119.5
Merged-chr13-24713746-4	chr13	24713648	24713848	+	835.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029679, exon 17 of 23)	exon (NM_029679, exon 17 of 23)	48189.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	16.5	23.5	10.0	173.5	25.0	9.5	14.5	9.5
Merged-chr1-184622708-4	chr1	184622605	184622805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65014.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	45.5	63.5	37.0	893.5	100.5	39.0	46.0	47.0
Merged-chr5-29948320-4	chr5	29948240	29948440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64774.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	151.5	236.0	225.5	2229.0	373.5	134.0	159.0	157.0
Merged-chr2-20894360-4	chr2	20894259	20894459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 3 of 24)	MTD|LTR|ERVL-MaLR	73362.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	30.5	93.0	27.5	637.0	129.5	32.5	31.5	32.0
Merged-chr8-46136516-3	chr8	46136424	46136624	+	847.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-12378.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	7.5	20.5	12.0	151.0	14.5	3.5	12.5	6.5
Merged-chr11-98202870-5	chr11	98202862	98203062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109626)	promoter-TSS (NM_001109626)	-343.0	NM_001109628	69131.0	Mm.260516	NM_026952	ENSMUSG00000003119	Cdk12	1810022J16Rik|AI646528|Crk7|Crkrs|D11Ertd752e|Pksc	cyclin-dependent kinase 12	protein-coding	36.0	50.5	43.0	486.0	78.0	45.5	33.5	54.0
Merged-chr7-99625882-4	chr7	99625747	99625947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001195529, exon 1 of 1)	exon (NM_001195529, exon 1 of 1)	1256.0	NM_001195529	100503386.0	Mm.180719	NM_001195529	ENSMUSG00000096606	Tpbgl	EG245190|Gm4980	trophoblast glycoprotein-like	protein-coding	16.0	16.5	15.0	152.5	31.5	12.5	24.5	21.5
Merged-chr12-85374284-4	chr12	85374181	85374381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 1 of 4)	CpG	436.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	117.5	201.5	101.5	1625.5	239.0	125.0	178.0	137.0
Merged-chr7-6283759-4	chr7	6283646	6283846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2834.0	NM_001024928	384763.0	Mm.276279	NM_001024928	ENSMUSG00000054893	Zfp667	A830025F02Rik|Mip1|ZNF667	zinc finger protein 667	protein-coding	40.0	75.0	59.0	706.0	172.0	48.5	59.5	43.5
Merged-chr11-117721953-4	chr11	117721855	117722055	+	839.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198022, exon 5 of 22)	exon (NM_198022, exon 5 of 22)	57693.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	10.0	24.5	14.0	201.5	23.5	5.0	11.0	6.5
Merged-chr2-17932051-4	chr2	17931954	17932154	+	986.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64904.0	NM_026627	68231.0	Mm.23887	NM_026627	ENSMUSG00000062651	H2al2a	1700113O17Rik|H2A.Bbd|H2A.L.2|H2afb1|H2al2|TSEG-1|Tseg1	H2A histone family member L2A	protein-coding	23.0	27.5	27.5	357.0	47.5	14.0	16.0	25.0
Merged-chr12-81751323-4	chr12	81751226	81751426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001174107, intron 2 of 10)	ID_B1|SINE|B4	29844.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	38.0	30.5	13.5	384.5	62.5	11.0	31.5	31.5
Merged-chr5-33222166-2	chr5	33222066	33222266	+	864.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-3928.0	NM_133903	100689.0	Mm.34694	NM_133903	ENSMUSG00000037379	Spon2	2310045I24Rik|AI504350|M-spondin|Mindin|Mspondin	spondin 2, extracellular matrix protein	protein-coding	6.0	6.0	5.0	122.0	10.5	3.0	1.0	6.5
Merged-chr4-45097689-4	chr4	45097574	45097774	+	681.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10439.0	NM_001134646	68512.0	Mm.282081	NM_001099675	ENSMUSG00000078713	Tomm5	1110019J04Rik|Tom5	translocase of outer mitochondrial membrane 5	protein-coding	8.0	3.0	11.5	79.0	25.5	7.0	9.0	14.5
Merged-chr10-62486064-4	chr10	62485984	62486184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358543, intron 1 of 7)	intron (NM_001358543, intron 1 of 7)	514.0	NM_001113355	30930.0	Mm.260703	NM_133672	ENSMUSG00000020078	Vps26a	AA407240|HB58|Vps26	VPS26 retromer complex component A	protein-coding	19.0	27.0	26.5	333.0	70.5	24.0	22.0	32.0
Merged-chr17-85574221-3	chr17	85574121	85574321	+	977.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44175.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	23.0	9.0	12.5	205.5	12.5	12.5	3.5	0.5
Merged-chr8-121829650-4	chr8	121829567	121829767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145605)	promoter-TSS (NM_145605)	-98.0	NM_145605	234825.0	Mm.209329	NM_145605	ENSMUSG00000040263	Klhdc4	AA408426|AV352552|BC012312|G430025P05Rik	kelch domain containing 4	protein-coding	32.5	58.5	37.0	559.5	109.5	40.0	35.0	30.0
Merged-chr1-134076869-6	chr1	134076747	134076947	+	972.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007570, exon 2 of 2)	3' UTR (NM_007570, exon 2 of 2)	2308.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	4.5	16.5	10.5	143.0	30.0	3.0	13.5	17.5
Merged-chr12-78299356-4	chr12	78299305	78299505	+	978.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172952, intron 1 of 23)	L1_Mur1|LINE|L1	72750.0	NM_145965	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	12.0	44.0	22.0	178.5	118.0	58.5	47.5	12.5
Merged-chr4-119950410-3	chr4	119950305	119950505	+	680.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	135727.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	10.5	8.0	9.0	98.5	4.5	1.5	5.5	7.0
Merged-chr16-5049258-3	chr16	5049150	5049350	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356320)	promoter-TSS (NM_001356320)	660.0	NM_001359747	74022.0	Mm.21652	NM_028720	ENSMUSG00000022536	Glyr1	2810419J22Rik|3930401K13Rik|AW545332|Npac	glyoxylate reductase 1 homolog (Arabidopsis)	protein-coding	20.0	30.0	21.0	342.0	47.0	13.0	14.0	15.0
Merged-chr12-56405036-4	chr12	56404944	56405144	+	874.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59150.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	15.5	9.5	6.5	154.5	31.0	8.0	15.0	17.0
Merged-chr3-107778165-4	chr3	107778035	107778235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17666.0	NM_001113529	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	28.0	38.5	52.5	675.5	97.0	41.5	48.5	39.5
Merged-chr5-72350412-3	chr5	72350326	72350526	+	926.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122756, intron 10 of 21)	intron (NM_001122756, intron 10 of 21)	147083.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	10.5	7.0	13.0	194.0	22.5	2.5	6.5	8.0
Merged-chr10-18545943-1	chr10	18545843	18546043	+	724.5	f0_balb.idr	5' UTR (NM_019487, exon 1 of 4)	5' UTR (NM_019487, exon 1 of 4)	133.0	NM_019487	56016.0	Mm.35551	NM_019487	ENSMUSG00000019853	Hebp2	SOUL	heme binding protein 2	protein-coding	4.5	9.0	9.0	124.5	17.0	4.5	1.5	1.5
Merged-chr3-51209978-4	chr3	51209887	51210087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-14460.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	139.5	146.5	129.0	1795.5	208.0	85.0	113.5	95.5
Merged-chr12-83689101-4	chr12	83689007	83689207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008943, intron 1 of 11)	intron (NM_008943, intron 1 of 11)	544.0	NM_008943	19164.0	Mm.998	NM_008943	ENSMUSG00000019969	Psen1	Ad3h|PS-1|PS1|S182	presenilin 1	protein-coding	31.0	56.5	38.0	556.5	99.0	47.0	33.5	37.5
Merged-chr18-24529543-2	chr18	24529443	24529643	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360807, intron 1 of 7)	CpG	661.0	NM_144861	225283.0	Mm.28427	NM_144861	ENSMUSG00000040446	Rprd1a	C77387|mKIAA4077	regulation of nuclear pre-mRNA domain containing 1A	protein-coding	8.5	15.0	16.5	107.5	14.0	9.5	12.5	12.5
Merged-chr6-122571482-4	chr6	122571374	122571574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17665.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	93.5	160.5	143.0	1450.0	202.5	108.5	114.0	108.0
Merged-chr11-46833552-3	chr11	46833445	46833645	+	831.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 5 of 8)	MTC|LTR|ERVL-MaLR	22746.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	6.0	6.5	12.5	226.5	23.0	6.5	8.0	4.5
Merged-chr16-57549820-4	chr16	57549720	57549920	+	978.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	578.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	9.5	41.0	17.5	184.0	43.5	8.0	13.5	6.5
Merged-chr14-52307454-4	chr14	52307354	52307554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-2330.0	NM_019721	56335.0	Mm.271759	NM_019721	ENSMUSG00000022160	Mettl3	2310024F18Rik|M6A|Spo8	methyltransferase like 3	protein-coding	32.0	76.5	26.0	231.5	81.0	34.5	29.5	27.5
Merged-chr19-46619057-3	chr19	46618952	46619152	+	884.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177812, intron 2 of 4)	intron (NM_001177812, intron 2 of 4)	-4349.0	NM_001177813	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	23.5	4.0	5.0	77.5	48.5	7.0	11.5	7.0
Merged-chr16-96192275-4	chr16	96192148	96192348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001492)	promoter-TSS (NM_001001492)	9.0	NM_001001492	385668.0	Mm.24626	NM_001001492	ENSMUSG00000045275	Lca5l	4921526F01Rik|Lcca5l	Leber congenital amaurosis 5-like	protein-coding	83.0	114.0	62.5	1265.5	242.0	84.0	111.0	82.5
Merged-chr16-57390471-4	chr16	57390307	57390507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	37130.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	22.0	37.5	49.0	326.5	52.0	19.0	38.5	31.5
Merged-chr15-78246340-4	chr15	78246262	78246462	+	977.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 1 of 9)	intron (NM_008677, intron 1 of 9)	1551.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	15.5	55.5	51.5	394.0	71.0	31.5	52.0	26.0
Merged-chr2-157447653-4	chr2	157447563	157447763	+	946.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 2 of 13)	intron (NM_001025395, intron 2 of 13)	23370.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	45.0	63.5	21.0	468.0	38.5	13.5	13.0	15.5
Merged-chr11-32571330-4	chr11	32571277	32571477	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	38111.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	19.5	15.5	16.0	357.0	18.0	10.5	5.5	7.0
Merged-chr3-20155668-4	chr3	20155581	20155781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013755)	promoter-TSS (NM_013755)	-565.0	NM_013755	27357.0	Mm.6375	NM_013755	ENSMUSG00000019528	Gyg	AU017667|GN1|Gyg1	glycogenin	protein-coding	35.0	59.5	70.0	985.5	62.0	29.0	34.5	38.5
Merged-chr3-84345576-3	chr3	84345481	84345681	+	885.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34340.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	11.5	6.5	2.0	120.5	12.5	4.5	8.0	6.5
Merged-chr17-56040312-4	chr17	56040222	56040422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013733)	promoter-TSS (NM_013733)	-94.0	NM_013733	27221.0	Mm.391010	NM_013733	ENSMUSG00000002835	Chaf1a	AL023013|AL024058|CAF-1|Cac1p	chromatin assembly factor 1, subunit A (p150)	protein-coding	138.5	230.0	104.0	1582.0	364.5	122.0	117.5	105.5
Merged-chr16-50366784-4	chr16	50366660	50366860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	intron (NM_027444, intron 2 of 16)	65629.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	20.0	28.0	25.5	445.5	83.0	21.0	17.0	18.0
Merged-chr12-79050997-3	chr12	79050907	79051107	+	954.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181073, intron 4 of 28)	intron (NM_181073, intron 4 of 28)	21844.0	NM_181073	211945.0	Mm.478321	NM_181073	ENSMUSG00000060716	Plekhh1	AV308913|C77772|D630024D12Rik|mKIAA1200	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	protein-coding	16.0	25.5	17.0	223.0	52.0	11.0	10.0	6.0
Merged-chr6-134824588-4	chr6	134824417	134824617	+	944.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-5682.0	NM_177687	232430.0	Mm.267010	NM_177687	ENSMUSG00000032652	Crebl2	AI046348|B230205M03	cAMP responsive element binding protein-like 2	protein-coding	9.5	5.5	9.0	34.5	67.0	20.5	36.5	30.0
Merged-chr9-95700514-3	chr9	95700419	95700619	+	976.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	49839.0	NM_001311123	22063.0	Mm.149633	NM_011643	ENSMUSG00000032839	Trpc1	Mtrp1|Trp1|Trrp1	transient receptor potential cation channel, subfamily C, member 1	protein-coding	5.0	20.0	11.5	48.5	32.0	17.0	21.5	7.5
Merged-chr10-68434200-3	chr10	68434104	68434304	+	913.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 7 of 7)	intron (NM_028491, intron 7 of 7)	107671.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	6.0	8.0	25.5	140.0	10.5	0.5	4.0	1.0
Merged-chr6-3344515-4	chr6	3344419	3344619	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55052.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	38.5	48.0	35.0	144.0	60.5	15.0	19.5	12.0
Merged-chr10-77551131-4	chr10	77551025	77551225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 8 of 15)	intron (NM_008404, intron 8 of 15)	20777.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	201.5	356.0	254.5	3324.5	364.0	149.0	208.5	182.5
Merged-chr17-17585318-4	chr17	17585221	17585421	+	910.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	39168.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	32.5	18.0	10.5	216.0	32.5	8.0	21.5	6.0
Merged-chr1-131638895-4	chr1	131638801	131639001	+	858.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007799, intron 1 of 9)	Zaphod2|DNA|hAT-Tip100	587.0	NM_007799	13034.0	Mm.230249	NM_007799	ENSMUSG00000004552	Ctse	A430072O03Rik|C920004C08Rik|CE|CatE	cathepsin E	protein-coding	8.0	11.5	10.5	208.5	16.0	12.0	7.5	14.0
Merged-chr7-101362092-6	chr7	101362004	101362204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	14035.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	27.0	59.5	44.0	282.5	85.5	45.5	25.0	34.0
Merged-chr11-60811211-4	chr11	60811087	60811287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009171)	promoter-TSS (NM_009171)	78.0	NM_009171	20425.0	Mm.364956	NM_009171	ENSMUSG00000020534	Shmt1	AI324848|AI385541|C81125|Shmt|mshmt|mshmt1|mshmt2	serine hydroxymethyltransferase 1 (soluble)	protein-coding	127.5	220.0	145.5	1809.0	484.0	166.0	159.0	166.0
Merged-chr13-81711088-4	chr13	81711045	81711245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028372)	promoter-TSS (NM_028372)	-132.0	NM_001081176	67486.0	Mm.279781	NM_001081176	ENSMUSG00000035834	Polr3g	2310047G20Rik|AV275904|RPC32|RPC7	polymerase (RNA) III (DNA directed) polypeptide G	protein-coding	140.0	139.0	224.5	2163.0	264.0	145.0	144.5	142.0
Merged-chr9-7868208-4	chr9	7868110	7868310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	intron (NM_007464, intron 1 of 8)	4960.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	134.5	79.5	73.5	1294.5	199.0	70.5	103.0	74.0
Merged-chr17-32528925-4	chr17	32528839	32529039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001101445)	TTS (NM_001101445)	-7618.0	NM_001356302	70101.0	Mm.30504	NM_024442	ENSMUSG00000048440	Cyp4f16	2310021J05Rik|AI746515	cytochrome P450, family 4, subfamily f, polypeptide 16	protein-coding	24.5	42.0	37.0	486.0	39.0	27.0	26.5	39.0
Merged-chr8-119446645-4	chr8	119446543	119446743	+	747.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054095)	promoter-TSS (NM_054095)	-76.0	NM_054095	117148.0	Mm.356184	NM_054095	ENSMUSG00000031837	Necab2	Efcbp2	N-terminal EF-hand calcium binding protein 2	protein-coding	11.5	16.5	1.5	118.5	22.5	11.0	5.0	7.5
Merged-chr3-9879676-4	chr3	9879584	9879784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46005.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	21.5	25.5	31.5	346.0	51.5	24.5	17.5	22.5
Merged-chr17-35210346-4	chr17	35210228	35210428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4977.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	169.5	299.5	104.0	1254.0	376.0	140.0	121.5	142.5
Merged-chr13-64378862-3	chr13	64378759	64378959	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8339.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	26.0	44.0	37.0	642.0	10.5	0.5	1.5	0.0
Merged-chr7-31089889-3	chr7	31089797	31089997	+	883.8777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-13200.0	NM_008557	17178.0	Mm.263847	NM_008557	ENSMUSG00000057092	Fxyd3	Mat8	FXYD domain-containing ion transport regulator 3	protein-coding	27.0	26.5	24.5	444.0	18.5	4.5	11.0	7.0
Merged-chr15-88828421-3	chr15	88828322	88828522	+	841.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8776.0	NM_029720	76737.0	Mm.292567	NM_029720	ENSMUSG00000023272	Creld2	5730592L21Rik|C85758	cysteine-rich with EGF-like domains 2	protein-coding	3.0	9.5	3.0	65.0	26.5	5.0	5.5	7.0
Merged-chr12-110822563-4	chr12	110822463	110822663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011973, intron 4 of 11)	intron (NM_011973, intron 4 of 11)	18376.0	NM_011973	26448.0	Mm.140948	NM_011973	ENSMUSG00000056458	Mok	RAGE1|Rage|Stk30	MOK protein kinase	protein-coding	46.5	37.5	25.0	652.5	96.5	24.5	45.5	49.5
Merged-chr4-114987291-4	chr4	114987193	114987393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025647)	promoter-TSS (NM_025647)	-65.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	62.0	112.5	40.0	1113.0	229.5	80.0	114.0	79.0
Merged-chr6-114295744-4	chr6	114295634	114295834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178703, intron 1 of 15)	intron (NM_178703, intron 1 of 15)	13099.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	27.0	77.0	39.0	434.0	103.0	46.0	60.0	41.0
Merged-chr14-48199215-1	chr14	48199115	48199315	+	755.5	f0_balb.idr	intron (NR_003630, intron 1 of 2)	B4A|SINE|B4	499.0	NR_003630	624367.0	Mm.445185	NM_001037921	ENSMUSG00000021846	Gm6498	EG624367	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	7.0	13.0	8.5	158.5	2.0	1.5	1.0	0.0
Merged-chr10-61069383-3	chr10	61069267	61069467	+	839.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19964.0	NM_025273	13180.0	Mm.39473	NM_025273	ENSMUSG00000020098	Pcbd1	Dcoh|Pcbd|Pcd|Phs	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 1	protein-coding	4.5	5.0	5.5	95.0	7.5	2.5	9.0	8.0
Merged-chr18-20717112-3	chr18	20717010	20717210	+	870.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 3 of 8)	MER5A|DNA|hAT-Charlie	29294.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	5.0	6.5	6.5	127.5	16.0	3.5	8.5	13.5
Merged-chr6-120039817-4	chr6	120039714	120039914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1159.0	NM_001185021	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	53.0	64.0	38.5	583.5	123.5	41.0	38.5	31.0
Merged-chr3-146616735-4	chr3	146616625	146616825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009474, intron 4 of 7)	MLT1J1|LTR|ERVL-MaLR	-1127.0	NM_019957	56629.0	Mm.25853	NM_019957	ENSMUSG00000028185	Dnase2b	AI526873|Dlad|DnaseIIb	deoxyribonuclease II beta	protein-coding	119.5	186.0	125.5	1825.0	115.5	53.0	65.0	43.5
Merged-chr15-77542041-3	chr15	77541932	77542132	+	803.9111330000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8717.0	NM_175391	108956.0	Mm.86391	NM_175391	ENSMUSG00000044309	Apol7c	2210421G13Rik	apolipoprotein L 7c	protein-coding	1.0	11.0	2.5	57.5	40.5	12.0	10.5	10.5
Merged-chr6-87503067-4	chr6	87502942	87503142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	-6715.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	214.5	347.5	240.5	2978.5	490.5	241.5	251.5	226.0
Merged-chr17-26508368-6	chr17	26508283	26508483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013642)	promoter-TSS (NM_013642)	89.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	152.5	280.5	218.5	2982.5	447.5	200.5	252.0	219.0
Merged-chr1-23867560-4	chr1	23867455	23867655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290683, intron 4 of 9)	MTD|LTR|ERVL-MaLR	42181.0	NR_110972	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	46.5	50.0	27.5	793.5	96.5	35.5	63.0	62.0
Merged-chr3-7755714-4	chr3	7755623	7755823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-141963.0	NM_001313888	16196.0	Mm.3825	NM_008371	ENSMUSG00000040329	Il7	A630026I06Rik|Il-7|hlb368	interleukin 7	protein-coding	95.0	111.0	66.0	1005.5	252.0	81.0	105.0	87.5
Merged-chr4-153975134-4	chr4	153975065	153975265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007859)	promoter-TSS (NM_007859)	-84.0	NM_007859	13368.0	Mm.388918	NM_007859	ENSMUSG00000029027	Dffb	40kDa|5730477D02Rik|CAD|CPAN|DFF40|Didff	DNA fragmentation factor, beta subunit	protein-coding	152.0	181.0	103.0	2007.0	312.5	146.5	165.0	122.5
Merged-chr3-41083208-4	chr3	41083125	41083325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027558)	promoter-TSS (NM_027558)	-179.0	NM_027558	70804.0	Mm.40321	NM_027558	ENSMUSG00000049940	Pgrmc2	4631434O19Rik|5730409G06Rik|DG6|PMBP	progesterone receptor membrane component 2	protein-coding	356.0	480.5	357.5	4498.5	977.0	439.0	547.5	397.0
Merged-chr2-5951048-4	chr2	5950947	5951147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081132)	promoter-TSS (NM_001081132)	-422.0	NM_001081132	326622.0	Mm.31102	NM_001081132	ENSMUSG00000043241	Upf2	-	UPF2 regulator of nonsense transcripts homolog (yeast)	protein-coding	97.5	120.0	53.0	1116.5	304.5	107.5	112.0	73.5
Merged-chr10-96829054-3	chr10	96828943	96829143	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-206725.0	NR_045358	75301.0	Mm.108650	NR_045358	ENSMUSG00000111924	4930556N09Rik	-	RIKEN cDNA 4930556N09 gene	ncRNA	18.0	21.0	16.0	209.5	13.5	2.0	4.5	1.0
Merged-chr2-167996584-4	chr2	167996514	167996714	+	917.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080708, intron 4 of 21)	MLTR14|LTR|ERV1	13979.0	NM_001080708	69553.0	Mm.68454	NM_001080708	ENSMUSG00000074577	Ripor3	2310033K02Rik|Fam65c|Gm124	RIPOR family member 3	protein-coding	19.0	26.5	26.0	286.0	16.0	9.0	11.0	9.0
Merged-chr5-73548397-4	chr5	73548303	73548503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190733, intron 8 of 9)	intron (NM_001190733, intron 8 of 9)	57377.0	NM_178896	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	95.0	88.5	67.0	1387.0	142.5	55.0	87.0	89.0
Merged-chr4-11455014-2	chr4	11454914	11455114	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-30944.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	9.5	23.0	17.5	119.5	34.0	19.5	22.5	18.0
Merged-chr12-12265212-3	chr12	12265086	12265286	+	898.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	3047.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	5.0	14.5	4.5	44.5	24.5	9.0	6.0	5.5
Merged-chr12-79144357-3	chr12	79144274	79144474	+	718.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	intron (NM_009705, intron 2 of 7)	13586.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	8.0	12.5	5.5	74.0	11.5	5.5	3.5	1.5
Merged-chr1-88588201-1	chr1	88588101	88588301	+	612.0	f0_c57.idr	Intergenic	MTB|LTR|ERVL-MaLR	36684.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	7.5	8.0	13.0	51.0	15.0	9.5	7.5	16.5
Merged-chr10-98898198-4	chr10	98898078	98898278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16464.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	123.5	169.0	92.0	1722.5	260.5	97.5	138.0	126.0
Merged-chr12-11215718-3	chr12	11215601	11215801	+	782.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6753.0	NM_019544	56184.0	Mm.117113	NM_019544	ENSMUSG00000047002	Msgn1	Msgn|pMsgn1	mesogenin 1	protein-coding	10.0	11.0	13.0	145.0	3.5	0.0	1.0	0.5
Merged-chr16-55969324-3	chr16	55969222	55969422	+	921.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024218, intron 3 of 5)	B1_Mm|SINE|Alu	3047.0	NM_024218	68193.0	Mm.29221	NM_024218	ENSMUSG00000098274	Rpl24	0610008L05Rik|Bst	ribosomal protein L24	protein-coding	3.0	16.0	3.0	33.0	33.0	7.0	13.5	7.5
Merged-chr2-52905271-3	chr2	52905180	52905380	+	770.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	MLT1A|LTR|ERVL-MaLR	47412.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	1.5	4.0	4.5	67.5	36.0	5.5	4.5	4.5
Merged-chr13-4279421-2	chr13	4279324	4279524	+	666.25	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_013777)	promoter-TSS (NM_013777)	-25.0	NM_013777	622402.0	Mm.27447	NM_013777	ENSMUSG00000021211	Akr1c12	AI266976|Akra	aldo-keto reductase family 1, member C12	protein-coding	0.0	2.0	3.0	6.0	18.5	10.5	14.0	11.0
Merged-chr2-30441954-4	chr2	30441850	30442050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138748, intron 8 of 9)	intron (NM_138748, intron 8 of 9)	25900.0	NM_138748	110854.0	Mm.275393	NM_138748	ENSMUSG00000039515	Ptpa	2610042B21Rik|C77440|N28142|PR53|Ppp2r4	protein phosphatase 2 protein activator	protein-coding	70.0	91.0	65.5	713.5	168.5	96.0	75.5	70.5
Merged-chr5-5232724-4	chr5	5232633	5232833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 3 of 14)	L1_Mur3|LINE|L1	33335.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	44.5	100.5	46.5	771.0	55.0	26.5	35.0	35.0
Merged-chr2-3664307-4	chr2	3664190	3664390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49168.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	128.0	161.5	87.0	1611.0	198.0	69.5	82.5	68.5
Merged-chr16-56029378-3	chr16	56029275	56029475	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356449, intron 1 of 5)	CpG	342.0	NM_001356449	76302.0	Mm.310642	NM_001024622	ENSMUSG00000071533	Pcnp	1110018D06Rik|AI647035	PEST proteolytic signal containing nuclear protein	protein-coding	34.0	46.0	56.0	504.0	128.0	42.5	36.5	49.0
Merged-chr4-43052877-4	chr4	43052792	43052992	+	872.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6061.0	NM_021468	22249.0	Mm.128892	NM_021468	ENSMUSG00000028456	Unc13b	Munc13-1|Munc13-2|Unc13a|Unc13h1|Unc13h2	unc-13 homolog B (C. elegans)	protein-coding	7.0	13.0	4.5	102.0	40.5	7.5	12.0	14.0
Merged-chr9-107567021-4	chr9	107567001	107567201	+	917.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019742)	TTS (NM_019742)	-2062.0	NM_010489	15587.0	Mm.4834	NM_010489	ENSMUSG00000010047	Hyal2	AI256841|AU020858|AW555733	hyaluronoglucosaminidase 2	protein-coding	18.0	14.5	3.0	104.5	21.5	10.5	14.0	16.0
Merged-chr1-44162597-3	chr1	44162499	44162699	+	929.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011729, intron 6 of 14)	intron (NM_011729, intron 6 of 14)	14855.0	NM_011729	22592.0	Mm.2213	NM_011729	ENSMUSG00000026048	Ercc5	Xpg	excision repair cross-complementing rodent repair deficiency, complementation group 5	protein-coding	11.0	7.0	7.5	300.0	31.0	4.0	6.5	7.0
Merged-chr9-61706167-1	chr9	61706067	61706267	+	1000.0	f0_balb.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	208343.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	13.0	23.0	5.5	167.5	32.5	5.0	12.5	7.5
Merged-chr10-94689298-4	chr10	94689174	94689374	+	911.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015524)	promoter-TSS (NR_015524)	484.0	NM_029852	77048.0	Mm.296971	NM_029852	ENSMUSG00000020024	Cep83	2600001G24Rik|4921537D05Rik|5730513H21Rik|Ccdc41	centrosomal protein 83	protein-coding	20.5	28.5	14.5	205.5	47.5	7.5	5.5	8.0
Merged-chr1-170998887-2	chr1	170998787	170998987	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-20039.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	6.0	12.5	4.5	77.5	4.5	3.0	2.0	4.5
Merged-chr12-71864717-4	chr12	71864614	71864814	+	861.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 1 of 25)	intron (NM_026102, intron 1 of 25)	-24829.0	NM_001286452	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	11.5	33.0	21.5	214.5	27.5	10.5	27.5	14.5
Merged-chr19-10258534-3	chr19	10258430	10258630	+	830.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 9 of 19)	intron (NM_198114, intron 9 of 19)	-17782.0	NM_001033481	225908.0	Mm.329716	NM_001033481	ENSMUSG00000036098	Myrf	6030439E18|Gm1804|Gm98|Mrf	myelin regulatory factor	protein-coding	7.0	7.0	4.5	69.5	22.5	3.5	4.5	6.0
Merged-chr9-96035572-3	chr9	96035473	96035673	+	919.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311130, intron 33 of 41)	intron (NM_001311130, intron 33 of 41)	80813.0	NM_011916	24127.0	Mm.291179	NM_011916	ENSMUSG00000032410	Xrn1	Dhm2|exo|mXrn1	5'-3' exoribonuclease 1	protein-coding	7.5	12.5	10.0	128.5	22.0	11.5	8.0	6.5
Merged-chr1-80335276-4	chr1	80335151	80335351	+	850.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016716, intron 1 of 15)	intron (NM_016716, intron 1 of 15)	5439.0	NM_001313728	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	15.0	10.5	14.0	202.0	19.0	6.0	1.0	15.0
Merged-chr5-105701099-2	chr5	105700999	105701199	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	289.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	8.0	14.0	10.0	130.5	12.5	11.5	7.5	8.5
Merged-chr2-13786164-4	chr2	13786064	13786264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145838, intron 2 of 7)	L1_Mus4|LINE|L1	7356.0	NM_145838	241230.0	Mm.330004	NM_145838	ENSMUSG00000003418	St8sia6	1700007J08Rik|AI314453|AI875066|ST8SiaVI|Siat8f	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6	protein-coding	50.5	109.0	55.0	299.0	143.0	33.5	61.5	39.5
Merged-chr4-49620105-4	chr4	49620010	49620210	+	949.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11950.0	NM_001163263	109331.0	Mm.24765	NM_182999	ENSMUSG00000028309	Rnf20	4833430L21Rik|AW540162|C79397|mKIAA4116	ring finger protein 20	protein-coding	11.0	27.0	25.5	167.0	31.5	17.0	20.0	16.5
Merged-chr5-105594766-4	chr5	105594674	105594874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	75303.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	46.0	42.5	69.5	653.0	69.0	31.5	54.5	26.0
Merged-chr8-84903217-4	chr8	84903123	84903323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010635, exon 2 of 3)	exon (NM_010635, exon 2 of 3)	1295.0	NM_010635	16596.0	Mm.4847	NM_010635	ENSMUSG00000054191	Klf1	Eklf|Nan	Kruppel-like factor 1 (erythroid)	protein-coding	90.5	99.5	40.0	972.0	147.0	72.0	66.5	57.0
Merged-chr18-67389376-4	chr18	67389287	67389487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1344.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	57.0	91.5	38.0	564.5	132.0	49.0	55.5	62.0
Merged-chr17-27565837-4	chr17	27565740	27565940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002895)	promoter-TSS (NM_001002895)	-113.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	138.5	206.0	112.5	2079.0	395.0	149.5	168.0	147.0
Merged-chr11-83662457-4	chr11	83662383	83662583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013652)	promoter-TSS (NM_013652)	-101.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	97.5	231.5	101.0	1634.5	225.0	115.5	102.5	97.5
Merged-chr2-71274417-4	chr2	71274340	71274540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172436, exon 18 of 18)	3' UTR (NM_172436, exon 18 of 18)	62494.0	NM_010064	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	101.5	172.0	100.5	1605.0	280.0	102.5	68.0	95.0
Merged-chr10-111189335-4	chr10	111189218	111189418	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003717, intron 1 of 22)	MTC|LTR|ERVL-MaLR	24516.0	NM_175489	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	24.5	15.5	27.0	392.0	40.0	8.5	17.0	11.0
Merged-chr10-20312423-4	chr10	20312334	20312534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153787)	promoter-TSS (NM_153787)	-35.0	NM_001025392	72567.0	Mm.294783	NM_153787	ENSMUSG00000037608	Bclaf1	2610102K23Rik|2700025J07Rik|2810454G14Rik|5730534O06Rik|AI450190|AW556225|Btf|mKIAA0164	BCL2-associated transcription factor 1	protein-coding	266.0	393.0	178.5	2589.0	594.0	243.5	252.5	199.5
Merged-chr4-139599108-4	chr4	139598984	139599184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 1 of 8)	intron (NM_001205173, intron 1 of 8)	-23810.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	86.5	147.5	109.0	1298.5	236.5	138.5	122.0	84.5
Merged-chr6-97803837-4	chr6	97803749	97803949	+	944.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3209.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	32.5	34.5	20.5	168.5	47.5	29.5	9.5	18.0
Merged-chr4-43964704-4	chr4	43964613	43964813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 1 of 4)	intron (NM_027450, intron 1 of 4)	7011.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	81.5	134.5	117.0	1027.0	267.5	93.0	90.0	93.0
Merged-chr13-56134326-2	chr13	56134226	56134426	+	950.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159513, intron 1 of 8)	intron (NM_001159513, intron 1 of 8)	1224.0	NM_012015	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	6.0	7.5	5.5	61.0	18.5	5.0	4.5	3.5
Merged-chr5-43788564-4	chr5	43788479	43788679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6430.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	49.5	92.5	49.0	713.0	132.5	44.5	36.0	30.0
Merged-chr5-121501675-4	chr5	121501564	121501764	+	731.424988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172125, exon 1 of 1)	exon (NM_172125, exon 1 of 1)	1316.0	NM_172125	280667.0	Mm.444773	NM_172125	ENSMUSG00000062438	Adam1b	Adam1|Ftna	a disintegrin and metallopeptidase domain 1b	protein-coding	7.5	13.0	9.0	123.5	20.0	11.5	4.5	9.0
Merged-chr3-51914049-3	chr3	51913937	51914137	+	718.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	190969.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	6.5	11.0	5.5	68.0	3.5	2.5	5.0	3.5
Merged-chr15-76473740-2	chr15	76473616	76473816	+	703.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_013481, intron 2 of 15)	intron (NM_013481, intron 2 of 15)	3553.0	NM_013481	12181.0	Mm.4283	NM_013481	ENSMUSG00000022557	Bop1	AU020183|AW146150|D18861|Erb1p|Kiaa0124|mKIAA0124	block of proliferation 1	protein-coding	0.0	3.5	1.0	3.0	7.5	4.5	8.0	10.0
Merged-chr7-25477688-4	chr7	25477614	25477814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039187)	promoter-TSS (NM_001039187)	-89.0	NM_001039187	26365.0	Mm.322502	NM_011926	ENSMUSG00000074272	Ceacam1	Bgp|Bgp1|C-CAM|CD66a|Cc1|Cea-1|Cea-7|Cea1|Cea7|Hv-2|Hv2|MHVR|MHVR1|Mhv-1|bb-1|mCEA1|mmCGM1|mmCGM1a|mmCGM2	carcinoembryonic antigen-related cell adhesion molecule 1	protein-coding	43.0	56.5	43.0	579.5	57.5	22.5	27.0	28.5
Merged-chr2-140170643-4	chr2	140170530	140170730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081090)	promoter-TSS (NM_001081090)	-16.0	NM_027093	69487.0	Mm.287921	NM_027093	ENSMUSG00000027384	Ndufaf5	2310003L22Rik	NADH dehydrogenase (ubiquinone) complex I, assembly factor 5	protein-coding	85.5	143.5	95.5	1850.5	241.5	98.0	104.0	125.0
Merged-chr11-116581556-4	chr11	116581460	116581660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173755)	promoter-TSS (NM_173755)	-113.0	NM_173755	217342.0	Mm.243950	NM_173755	ENSMUSG00000020802	Ube2o	9630022H21|B230113M03Rik|E2-230K|mKIAA1734	ubiquitin-conjugating enzyme E2O	protein-coding	57.5	74.0	27.0	490.0	125.5	51.5	49.0	33.5
Merged-chr8-119835238-3	chr8	119835097	119835297	+	690.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	5382.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	11.5	18.0	5.5	37.0	6.5	6.0	1.5	11.0
Merged-chr9-100525398-4	chr9	100525293	100525493	+	849.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 1 of 3)	L1M4c|LINE|L1	-18537.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	6.0	17.5	2.0	118.5	27.0	5.0	10.5	6.5
Merged-chr2-26916421-4	chr2	26916313	26916513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013678)	promoter-TSS (NM_013678)	-8.0	NM_013678	20931.0	Mm.389260	NM_013678	ENSMUSG00000014873	Surf2	Surf-2	surfeit gene 2	protein-coding	81.0	117.5	44.5	813.0	162.0	67.5	62.5	61.0
Merged-chr7-19282586-4	chr7	19282507	19282707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013648)	promoter-TSS (NM_013648)	-17.0	NM_013648	20167.0	Mm.24142	NM_013648	ENSMUSG00000030401	Rtn2	MMS10-P|Ms10p|NSPLI|Nspl1	reticulon 2 (Z-band associated protein)	protein-coding	64.0	92.5	36.0	516.0	150.0	53.5	67.5	48.0
Merged-chr18-60763091-4	chr18	60763012	60763212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-11484.0	NM_020600	20044.0	Mm.43778	NM_020600	ENSMUSG00000024608	Rps14	2600014J02Rik|AL023078	ribosomal protein S14	protein-coding	84.5	102.5	102.0	1265.0	181.5	54.5	141.0	98.0
Merged-chr10-19527516-3	chr10	19527407	19527607	+	763.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	32864.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	17.0	9.0	6.0	128.5	25.5	4.0	1.0	12.5
Merged-chr11-87470991-4	chr11	87470882	87471082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	CpG	43391.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	42.5	104.0	55.5	564.0	135.5	63.0	58.0	50.0
Merged-chr15-6581089-4	chr15	6580960	6581160	+	864.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011815, intron 1 of 17)	intron (NM_011815, intron 1 of 17)	1213.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	7.5	25.5	17.0	105.5	34.0	9.5	11.0	6.5
Merged-chr13-23538420-4	chr13	23538309	23538509	+	907.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2991.0	NM_145073	97908.0	Mm.261657	NM_145073	ENSMUSG00000099517	Hist1h3g	H3.1-221|M32460	histone cluster 1, H3g	protein-coding	17.5	11.0	11.5	211.5	48.5	15.0	13.0	20.5
Merged-chr1-127776247-3	chr1	127776141	127776341	+	851.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028399, intron 2 of 8)	intron (NM_028399, intron 2 of 8)	2077.0	NM_028399	72949.0	Mm.268672	NM_028399	ENSMUSG00000026349	Ccnt2	2900041I18Rik|C81304|CycT2|CycT2a|CycT2b	cyclin T2	protein-coding	8.0	15.0	3.5	132.5	21.0	6.0	12.5	4.5
Merged-chr8-84235743-4	chr8	84235641	84235841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172503, intron 1 of 13)	intron (NM_172503, intron 1 of 13)	1301.0	NM_172503	212168.0	Mm.117094	NM_172503	ENSMUSG00000035671	Zswim4	D330002I24|E130119J17Rik	zinc finger SWIM-type containing 4	protein-coding	20.0	29.5	8.5	178.0	62.0	10.5	18.5	14.0
Merged-chr2-17896211-4	chr2	17896117	17896317	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	100741.0	NM_026627	68231.0	Mm.23887	NM_026627	ENSMUSG00000062651	H2al2a	1700113O17Rik|H2A.Bbd|H2A.L.2|H2afb1|H2al2|TSEG-1|Tseg1	H2A histone family member L2A	protein-coding	11.0	20.0	17.0	254.0	49.0	6.5	16.0	10.0
Merged-chr5-101840596-3	chr5	101840484	101840684	+	954.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 66 of 66)	L1M2|LINE|L1	75454.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	4.0	4.0	1.5	70.0	30.5	7.5	6.5	14.0
Merged-chr18-25668240-2	chr18	25668140	25668340	+	772.583313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 2 of 12)	intron (NM_001362322, intron 2 of 12)	11508.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	5.0	7.0	9.0	65.5	3.5	1.0	5.5	3.5
Merged-chr4-127169674-3	chr4	127169578	127169778	+	623.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198618, intron 1 of 11)	intron (NM_198618, intron 1 of 11)	474.0	NM_198618	242667.0	Mm.331885	NM_198618	ENSMUSG00000042388	Dlgap3	BC058433|DAP-3|DAP3|Prpl8|Sapap3	DLG associated protein 3	protein-coding	12.5	9.0	5.0	80.0	9.5	2.5	7.5	5.0
Merged-chr14-56375944-4	chr14	56375843	56376043	+	771.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138652, intron 10 of 22)	intron (NM_138652, intron 10 of 22)	10875.0	NM_138652	192113.0	Mm.273271	NM_138652	ENSMUSG00000022229	Atp12a	Atp1al1|HKalpha2|cHKA	ATPase, H+/K+ transporting, nongastric, alpha polypeptide	protein-coding	6.0	18.0	5.5	157.0	25.0	8.5	9.0	8.0
Merged-chr3-81058710-4	chr3	81058616	81058816	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	22300.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	21.5	25.5	29.5	414.0	47.5	18.0	12.5	16.0
Merged-chr5-136218156-4	chr5	136218055	136218255	+	939.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302938)	TTS (NM_001302938)	-19201.0	NM_025774	66801.0	Mm.425295	NM_025774	ENSMUSG00000039737	Prkrip1	8430424D23Rik|C114	Prkr interacting protein 1 (IL11 inducible)	protein-coding	23.5	53.5	21.0	108.0	39.5	17.5	20.5	18.5
Merged-chr16-70330855-4	chr16	70330756	70330956	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	intron (NM_028803, intron 1 of 15)	16907.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	11.5	15.5	20.0	328.0	119.5	52.5	53.5	38.0
Merged-chr3-105878072-4	chr3	105877979	105878179	+	937.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	7221.0	NM_001174169	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	14.5	27.0	21.0	200.5	31.5	14.0	36.5	20.5
Merged-chr18-84848687-3	chr18	84848589	84848789	+	952.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD2|LINE|L1	-2649.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	7.0	18.5	11.5	183.0	23.5	4.0	8.0	4.5
Merged-chr5-115515582-3	chr5	115515481	115515681	+	772.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	8905.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	4.0	3.0	5.5	65.5	31.5	6.5	8.5	4.5
Merged-chr10-62556657-4	chr10	62556557	62556757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21800.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	105.0	153.0	119.0	2336.5	276.5	116.0	171.0	127.5
Merged-chr1-156024639-2	chr1	156024560	156024760	+	861.0	f0_balb.idr|f1_balb.idr	intron (NM_144791, intron 4 of 6)	intron (NM_144791, intron 4 of 6)	10157.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	10.0	15.0	7.0	303.5	5.5	1.0	0.5	6.0
Merged-chr18-38228605-4	chr18	38228525	38228725	+	910.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-18863.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	18.5	12.0	8.5	275.5	24.5	10.0	14.5	20.0
Merged-chr3-14836942-3	chr3	14836840	14837040	+	746.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-26598.0	NM_007606	12350.0	Mm.300	NM_007606	ENSMUSG00000027559	Car3	BB219044|Ca3|Car-3	carbonic anhydrase 3	protein-coding	16.0	5.5	19.5	330.0	0.0	0.0	0.0	0.0
Merged-chr18-54979325-1	chr18	54979225	54979425	+	723.5	f0_balb.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	10855.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	5.5	7.5	7.0	84.5	17.0	8.5	3.5	10.0
Merged-chr15-27665802-4	chr15	27665702	27665902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	15740.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	85.5	163.0	93.0	1068.0	236.5	81.0	80.5	69.5
Merged-chr9-98350786-3	chr9	98350710	98350910	+	936.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	intron (NM_001357445, intron 1 of 3)	54240.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	9.5	19.5	12.0	177.0	11.5	0.5	8.0	4.5
Merged-chr12-85192854-4	chr12	85192761	85192961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15548.0	NM_008827	18654.0	Mm.4809	NM_008827	ENSMUSG00000004791	Pgf	AI854365|PIGF|Plgf	placental growth factor	protein-coding	27.0	48.5	35.5	504.0	68.5	28.0	26.0	27.5
Merged-chr15-66856747-4	chr15	66856650	66856850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24921.0	NM_009192	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	55.5	43.0	71.0	799.0	80.0	25.5	47.0	43.0
Merged-chr10-116513464-4	chr10	116513401	116513601	+	862.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037848, intron 4 of 4)	intron (NM_001037848, intron 4 of 4)	14448.0	NM_001359253	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	10.0	11.0	4.5	221.0	36.0	10.5	11.5	6.5
Merged-chr3-15850096-3	chr3	15849987	15850187	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1600.0	NM_001173459	100038947.0	Mm.330924	NM_001173459	ENSMUSG00000074677	LOC100038947	-	signal-regulatory protein beta 1-like	protein-coding	7.0	16.0	12.0	1.0	81.5	30.5	48.5	32.5
Merged-chr2-130491003-4	chr2	130490916	130491116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	40738.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	33.5	26.0	35.5	519.0	53.5	36.5	33.5	35.0
Merged-chr1-84284597-4	chr1	84284508	84284708	+	958.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003948)	promoter-TSS (NM_001003948)	37.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	23.5	18.5	31.0	342.0	50.5	21.0	28.5	16.0
Merged-chr8-71521830-4	chr8	71521733	71521933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10064.0	NM_032398	84094.0	Mm.260768	NM_032398	ENSMUSG00000034845	Plvap	MECA32|Pv1	plasmalemma vesicle associated protein	protein-coding	80.5	131.0	58.5	921.5	216.0	72.5	98.0	92.0
Merged-chr6-127266216-4	chr6	127266122	127266322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41745.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	92.5	101.0	84.0	1875.0	224.0	64.5	92.5	92.0
Merged-chr7-128622695-4	chr7	128622604	128622804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178641, intron 1 of 19)	intron (NM_178641, intron 1 of 19)	11339.0	NM_178641	101490.0	Mm.490344	NM_178641	ENSMUSG00000042105	Inpp5f	5830435P03Rik|AI115354|AW561896|SAC2|cI-27|hSAC2|mKIAA0966	inositol polyphosphate-5-phosphatase F	protein-coding	36.5	30.5	33.0	481.0	49.5	21.5	25.0	22.0
Merged-chr11-115060022-4	chr11	115059919	115060119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172050, intron 1 of 3)	intron (NM_172050, intron 1 of 3)	2020.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	37.0	95.0	96.5	1217.0	116.0	50.5	88.0	70.5
Merged-chr15-89074182-4	chr15	89074076	89074276	+	868.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040417, exon 2 of 4)	non-coding (NR_040417, exon 2 of 4)	1678.0	NR_040417	69120.0	Mm.276391	NR_040417	ENSMUSG00000087331	1810021B22Rik	-	RIKEN cDNA 1810021B22 gene	ncRNA	8.0	21.5	4.0	110.5	38.5	7.5	13.0	7.5
Merged-chr11-115859751-4	chr11	115859649	115859849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	35691.0	NM_001252532	217325.0	Mm.290450	NM_145438	ENSMUSG00000020782	Llgl2	9130006H11Rik|Llglh2	LLGL2 scribble cell polarity complex component	protein-coding	77.5	137.0	56.5	768.0	178.0	46.5	50.5	53.5
Merged-chr14-70776126-3	chr14	70776017	70776217	+	653.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010071, intron 3 of 4)	intron (NM_010071, intron 3 of 4)	1736.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	7.5	9.5	11.5	71.0	4.0	3.5	1.5	6.0
Merged-chr9-46933420-3	chr9	46933317	46933517	+	655.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19814.0	NR_015605	73040.0	Mm.265384	NR_015605	ENSMUSG00000099696	2900052N01Rik	AU067665	RIKEN cDNA 2900052N01 gene	ncRNA	4.5	10.5	3.5	76.0	5.5	5.0	10.5	6.0
Merged-chr2-90641633-4	chr2	90641557	90641757	+	997.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-35558.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	25.5	60.5	24.5	380.5	63.5	22.0	28.5	39.5
Merged-chr3-58525905-4	chr3	58525817	58526017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030685)	promoter-TSS (NM_030685)	-33.0	NM_030685	28146.0	Mm.29702	NM_030685	ENSMUSG00000027808	Serp1	D3Ucla1|Ramp4	stress-associated endoplasmic reticulum protein 1	protein-coding	340.5	579.0	470.0	6438.5	844.5	399.5	450.5	398.5
Merged-chr10-58529967-4	chr10	58529839	58530039	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162956, intron 10 of 15)	ORR1F|LTR|ERVL-MaLR	32002.0	NM_001162956	76138.0	Mm.211744	NM_001162956	ENSMUSG00000038010	Ccdc138	6230424H07Rik|BC042726	coiled-coil domain containing 138	protein-coding	7.0	25.0	12.5	107.5	61.0	20.0	18.0	23.0
Merged-chr5-72263846-4	chr5	72263737	72263937	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 11 of 22)	intron (NR_003966, intron 11 of 22)	60494.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	29.5	31.5	20.0	359.0	76.0	22.0	32.0	18.5
Merged-chr4-41738159-4	chr4	41738061	41738261	+	781.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001286551)	TTS (NM_001286551)	3198.0	NM_001286540	18391.0	Mm.425181	NM_011014	ENSMUSG00000036078	Sigmar1	Oprs1|Sig1R|sigma1R	sigma non-opioid intracellular receptor 1	protein-coding	5.0	5.5	10.0	141.0	17.0	6.0	9.0	5.5
Merged-chr6-146617136-2	chr6	146617040	146617240	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_026281, intron 6 of 11)	L1MC4|LINE|L1	17452.0	NM_026281	67623.0	Mm.278037	NM_026281	ENSMUSG00000040234	Tm7sf3	2010003B14Rik|NARP1	transmembrane 7 superfamily member 3	protein-coding	32.0	31.0	26.5	487.5	0.5	2.0	0.5	1.0
Merged-chr9-56068149-3	chr9	56068047	56068247	+	859.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21829.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	7.0	12.5	4.5	91.0	21.0	8.0	6.5	7.0
Merged-chr9-121354941-3	chr9	121354847	121355047	+	795.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	-12011.0	NM_001357973	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	6.0	10.0	8.0	104.5	10.5	5.0	4.5	4.0
Merged-chr4-132178800-4	chr4	132178704	132178904	+	964.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33452.0	NM_145393	213541.0	Mm.23998	NM_145393	ENSMUSG00000040025	Ythdf2	9430020E02Rik|HGRG8|NY-REN-2	YTH domain family 2	protein-coding	14.5	24.5	20.5	218.5	42.0	11.5	19.5	23.0
Merged-chr6-120903664-4	chr6	120903607	120903807	+	932.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007544, intron 1 of 5)	intron (NM_007544, intron 1 of 5)	13117.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	50.5	30.5	28.5	513.0	29.5	13.5	11.5	14.0
Merged-chr17-31856027-4	chr17	31855972	31856172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010831)	promoter-TSS (NM_010831)	-268.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	109.0	180.0	73.5	1206.5	294.5	116.5	92.5	134.5
Merged-chr3-40523003-4	chr3	40522861	40523061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040445)	promoter-TSS (NR_040445)	-49.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	21.5	35.5	31.0	441.5	51.5	33.5	38.5	26.5
Merged-chr17-34309952-3	chr17	34309895	34310095	+	842.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 2 of 5)	B3A|SINE|B2	4128.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	4.5	6.0	1.5	20.5	31.0	9.5	6.5	8.5
Merged-chr11-118244057-5	chr11	118243965	118244165	+	930.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	4527.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	5.5	6.0	8.0	104.0	14.5	2.0	13.5	7.5
Merged-chr11-21425925-4	chr11	21425843	21426043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54676.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	70.0	61.5	48.5	997.0	82.0	29.0	33.5	24.5
Merged-chr2-128751696-2	chr2	128751596	128751796	+	806.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 5 of 18)	URR1B|DNA|hAT-Charlie	52781.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	6.0	11.0	1.0	58.5	15.0	8.5	8.0	5.5
Merged-chr17-36042836-4	chr17	36042718	36042918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347382)	promoter-TSS (NM_001347382)	-76.0	NM_001359756	15039.0	Mm.195061	NM_010396	ENSMUSG00000056116	H2-T22	27b|H-2T17|H-2T22|H2-T17|T22b	histocompatibility 2, T region locus 22	protein-coding	170.5	241.5	175.0	1860.5	237.5	109.5	77.5	82.0
Merged-chr16-8830643-3	chr16	8830544	8830744	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081400, exon 1 of 4)	exon (NM_001081400, exon 1 of 4)	544.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	33.0	62.0	60.0	353.5	90.0	30.0	42.0	59.5
Merged-chr15-64046065-4	chr15	64045957	64046157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	13707.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	70.0	151.0	58.5	985.0	173.5	72.5	84.0	33.0
Merged-chr7-113759391-4	chr7	113759288	113759488	+	768.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6610.0	NM_145584	233744.0	Mm.334160	NM_145584	ENSMUSG00000038156	Spon1	AI666765|AW455831|BC020531|D330035F22Rik|FSP	spondin 1, (f-spondin) extracellular matrix protein	protein-coding	9.5	11.5	4.0	145.5	41.0	12.0	5.0	7.5
Merged-chr18-78140476-2	chr18	78140376	78140576	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001171011, intron 1 of 8)	intron (NM_001171011, intron 1 of 8)	1643.0	NM_001171011	108052.0	Mm.33832	NM_028122	ENSMUSG00000059336	Slc14a1	2610507K20Rik|3021401A05Rik|UT-B|Utb1	solute carrier family 14 (urea transporter), member 1	protein-coding	5.5	4.5	5.0	86.5	10.5	7.5	7.0	9.5
Merged-chr2-25224839-4	chr2	25224735	25224935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146116)	promoter-TSS (NM_146116)	-133.0	NM_146116	227613.0	Mm.227260	NM_146116	ENSMUSG00000036752	Tubb4b	4930542G03Rik|Tubb2c|Tubb2c1	tubulin, beta 4B class IVB	protein-coding	368.0	660.5	390.5	5173.5	794.0	327.5	327.5	317.0
Merged-chr11-93725860-3	chr11	93725797	93725997	+	854.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	159869.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	5.0	11.5	15.5	228.0	11.0	13.5	14.0	8.5
Merged-chr17-44614209-3	chr17	44614102	44614302	+	960.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271627, intron 6 of 7)	intron (NM_001271627, intron 6 of 7)	121974.0	NR_073425	12393.0	Mm.391013	NM_009820	ENSMUSG00000039153	Runx2	AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a	runt related transcription factor 2	protein-coding	7.0	20.0	7.5	262.0	6.5	9.5	18.5	10.0
Merged-chr5-147542460-4	chr5	147542366	147542566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 16 of 18)	intron (NM_028291, intron 16 of 18)	112310.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	105.5	127.5	104.5	2049.5	251.0	95.5	137.5	97.0
Merged-chr5-122059748-4	chr5	122059577	122059777	+	956.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9826.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	16.5	13.0	27.0	142.0	26.0	1.5	5.5	10.0
Merged-chr2-8660717-4	chr2	8660621	8660821	+	931.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-528794.0	NR_038180	73438.0	Mm.23558	NR_038180	ENSMUSG00000085580	1700061F12Rik	-	RIKEN cDNA 1700061F12 gene	ncRNA	20.0	37.0	27.0	519.5	31.0	9.0	26.5	15.0
Merged-chr19-34217199-3	chr19	34217132	34217332	+	860.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360719)	promoter-TSS (NM_001360719)	-276.0	NM_001360719	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	10.0	21.5	11.0	100.0	0.5	0.0	0.0	0.0
Merged-chr1-37999339-4	chr1	37999229	37999429	+	772.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	intron (NM_198303, intron 1 of 23)	1319.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	4.0	9.5	17.5	111.5	20.5	6.5	15.0	11.5
Merged-chr10-69217352-4	chr10	69217267	69217467	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252638, intron 2 of 11)	intron (NM_001252638, intron 2 of 11)	4173.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	3.5	8.5	7.5	238.5	28.5	10.5	11.5	27.0
Merged-chr12-8519136-1	chr12	8519036	8519236	+	676.0	f0_balb.idr	Intergenic	Intergenic	-19127.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	2.0	6.0	6.5	98.5	5.0	6.5	4.5	8.5
Merged-chr13-4777043-4	chr13	4776933	4777133	+	953.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167869.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	14.5	27.5	8.0	227.5	42.0	17.5	27.0	14.0
Merged-chr13-81691801-4	chr13	81691708	81691908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081176, intron 3 of 7)	intron (NM_001081176, intron 3 of 7)	19205.0	NM_001081176	67486.0	Mm.279781	NM_001081176	ENSMUSG00000035834	Polr3g	2310047G20Rik|AV275904|RPC32|RPC7	polymerase (RNA) III (DNA directed) polypeptide G	protein-coding	37.5	42.0	77.5	963.0	48.0	23.0	34.0	34.0
Merged-chr18-57593928-3	chr18	57593832	57594032	+	791.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029290, intron 4 of 6)	intron (NM_029290, intron 4 of 6)	-41535.0	NR_015494	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	10.5	7.5	11.0	227.5	18.5	7.0	4.0	10.0
Merged-chr12-111843670-4	chr12	111843553	111843753	+	803.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011625, exon 7 of 17)	exon (NM_011625, exon 7 of 17)	29483.0	NM_026752	68520.0	Mm.390497	NM_026752	ENSMUSG00000021286	Zfyve21	1110013H04Rik|AW558780|C85416	zinc finger, FYVE domain containing 21	protein-coding	11.0	3.0	11.0	135.5	21.0	5.0	9.5	15.0
Merged-chr19-3575933-4	chr19	3575842	3576042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028999)	promoter-TSS (NM_028999)	-193.0	NM_028999	52036.0	Mm.284686	NM_028999	ENSMUSG00000024908	Ppp6r3	4930528G08Rik|9130026N02Rik|D19Bwg1430e|D19Ertd703e|Pp6r3|Ppcs3|Pptcs3|Sapl|Saps3|mKIAA1558	protein phosphatase 6, regulatory subunit 3	protein-coding	206.5	339.0	217.5	2128.0	439.0	179.0	198.5	126.5
Merged-chr12-91778637-3	chr12	91778544	91778744	+	987.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	CpG	7792.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	4.5	9.5	17.5	144.5	45.0	16.0	17.0	16.5
Merged-chr11-96005852-2	chr11	96005752	96005952	+	921.7999880000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009951)	promoter-TSS (NM_009951)	92.0	NM_009951	140486.0	Mm.294769	NM_009951	ENSMUSG00000013415	Igf2bp1	AL024068|AW549074|CRD-BP|Crdbp|D030026A21Rik|D11Moh40e|D11Moh45|IMP-1|IMP1|Neilsen|ZBP-1|Zbp1|mir-3063	insulin-like growth factor 2 mRNA binding protein 1	protein-coding	5.5	5.0	6.5	78.0	30.0	5.0	4.5	12.0
Merged-chr4-132483172-4	chr4	132483075	132483275	+	915.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19254.0	NM_026039	67219.0	Mm.45929	NM_026039	ENSMUSG00000066042	Med18	2810046C01Rik	mediator complex subunit 18	protein-coding	17.5	14.0	11.0	238.0	35.0	16.0	10.5	12.0
Merged-chr17-74339337-7	chr17	74339259	74339459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162870, exon 1 of 17)	exon (NM_001162870, exon 1 of 17)	372.0	NM_016962	50850.0	Mm.19804	NM_016962	ENSMUSG00000024068	Spast	Spg4|mKIAA1083	spastin	protein-coding	33.0	33.0	44.5	372.5	48.5	20.0	18.5	40.0
Merged-chr7-80343097-4	chr7	80342994	80343194	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026812)	promoter-TSS (NM_026812)	-43.0	NM_026812	68695.0	Mm.21171	NM_026812	ENSMUSG00000030532	Hddc3	1110033O09Rik|C86475|MESH1	HD domain containing 3	protein-coding	38.0	55.0	16.5	538.0	104.0	37.0	38.0	40.0
Merged-chr1-155505168-3	chr1	155505060	155505260	+	977.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21951.0	NR_132128	433367.0	Mm.359304	NR_132128	ENSMUSG00000073535	Gm5532	EG433367	predicted gene 5532	ncRNA	6.0	7.0	15.0	285.5	11.5	4.5	19.0	3.0
Merged-chr3-105948491-3	chr3	105948408	105948608	+	934.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304719, intron 8 of 9)	L2|LINE|L2	-10990.0	NM_027432	70465.0	Mm.5110	NM_027432	ENSMUSG00000000561	Wdr77	2610003I18Rik|2610312E17Rik|C79984|p44/MEP50	WD repeat domain 77	protein-coding	10.5	13.0	14.5	229.0	25.0	1.0	9.0	6.0
Merged-chr16-70315377-2	chr16	70315277	70315477	+	827.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	intron (NM_028803, intron 1 of 15)	1428.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	4.5	8.5	4.5	36.5	10.5	3.5	2.5	0.5
Merged-chr11-5838027-4	chr11	5837924	5838124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017401)	promoter-TSS (NM_017401)	-8.0	NM_017401	54125.0	Mm.260194	NM_017401	ENSMUSG00000020474	Polm	AI462166|B230309I03Rik|Tdt-N	polymerase (DNA directed), mu	protein-coding	177.5	310.0	141.5	1805.5	358.5	124.0	164.0	117.0
Merged-chr7-109959757-4	chr7	109959655	109959855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021494, intron 1 of 22)	intron (NM_021494, intron 1 of 22)	667.0	NM_021494	19347.0	Mm.21904	NM_021494	ENSMUSG00000035901	Dennd5a	1500012B19Rik|AJ245569|AW496491|ORF37|Rab6ip1|mKIAA1091	DENN/MADD domain containing 5A	protein-coding	49.5	80.0	69.0	859.0	114.0	54.5	84.0	62.5
Merged-chr1-55552630-4	chr1	55552430	55552630	+	778.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	L1_Mus2|LINE|L1	146584.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	8.5	12.5	9.0	26.0	14.5	7.0	5.0	2.5
Merged-chr1-177260565-4	chr1	177260457	177260657	+	951.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11790.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	15.5	26.0	14.5	214.5	52.5	22.5	16.0	14.0
Merged-chr3-84703538-1	chr3	84703438	84703638	+	573.0	f0_balb.idr	3' UTR (NM_177260, exon 7 of 7)	3' UTR (NM_177260, exon 7 of 7)	37346.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	5.0	7.0	7.0	144.5	4.5	0.5	4.5	4.0
Merged-chr12-91590230-6	chr12	91590091	91590291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031391)	promoter-TSS (NM_031391)	296.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	238.0	306.0	147.0	2284.0	502.5	223.0	233.0	208.0
Merged-chr2-158154197-4	chr2	158154090	158154290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7798.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	45.5	25.5	22.0	304.0	58.5	25.0	28.5	35.0
Merged-chr7-132551936-4	chr7	132551851	132552051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24447.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	76.5	119.5	45.5	1385.5	151.0	69.5	99.5	72.0
Merged-chr16-42875627-4	chr16	42875529	42875729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040521)	promoter-TSS (NR_040521)	-42.0	NR_040521	75722.0	Mm.243747	NR_040521	ENSMUSG00000075070	4932412D23Rik	Gm10809	RIKEN cDNA 4932412D23 gene	ncRNA	536.0	825.0	708.0	9408.0	1453.5	641.5	671.0	517.5
Merged-chr5-105685085-4	chr5	105684990	105685190	+	973.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14879.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	23.0	35.0	21.0	280.0	60.0	25.0	10.5	17.5
Merged-chr19-46002454-4	chr19	46002356	46002556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152221, intron 1 of 1)	ORR1C2|LTR|ERVL-MaLR	-1022.0	NM_176785	20170.0	Mm.101110	NM_176785	ENSMUSG00000074811	Hps6	5330434M19Rik|BLOC2|ru	HPS6, biogenesis of lysosomal organelles complex 2 subunit 3	protein-coding	74.5	42.0	23.0	397.0	79.0	46.0	42.0	32.5
Merged-chr8-83573252-4	chr8	83573114	83573314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134118, intron 5 of 12)	intron (NM_134118, intron 5 of 12)	6456.0	NM_025843	66916.0	Mm.29683	NM_025843	ENSMUSG00000033938	Ndufb7	1110002H15Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 7	protein-coding	18.5	27.5	22.5	309.5	26.5	5.0	20.5	17.0
Merged-chr13-51849022-4	chr13	51848936	51849136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011817)	TTS (NM_011817)	2361.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	134.5	151.5	156.0	2177.5	306.5	113.5	158.5	134.0
Merged-chr5-24687931-4	chr5	24687826	24688026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305264, intron 1 of 14)	intron (NM_001305264, intron 1 of 14)	2111.0	NM_001305264	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	134.0	218.0	110.5	1641.5	365.0	121.5	122.5	127.0
Merged-chr7-45921474-4	chr7	45921367	45921567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010129)	promoter-TSS (NM_010129)	-41.0	NM_010129	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	41.5	74.0	31.5	616.5	56.5	23.0	38.5	27.0
Merged-chr10-121496778-4	chr10	121496670	121496870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-20520.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	169.5	159.0	188.0	2692.0	318.0	115.5	177.0	161.5
Merged-chr17-13055328-3	chr17	13055244	13055444	+	839.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3064.0	NM_001013832	436440.0	Mm.335670	NM_001013832	ENSMUSG00000071311	Gpr31b	12-HETER|GPR31c(t)|Gpr31|Gpr31c	G protein-coupled receptor 31, D17Leh66b region	protein-coding	8.5	13.5	30.0	195.5	16.0	9.0	8.5	6.5
Merged-chr4-43264559-3	chr4	43264479	43264679	+	766.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001310758, exon 39 of 39)	3' UTR (NM_001310758, exon 39 of 39)	-2580.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	5.5	9.0	5.0	109.5	9.0	2.5	2.5	9.0
Merged-chr14-61696567-4	chr14	61696482	61696682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14209.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	54.5	72.0	66.0	868.0	90.5	60.5	35.5	33.0
Merged-chr17-44116194-3	chr17	44116111	44116311	+	734.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-10402.0	NM_001357996	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	11.0	10.5	15.0	186.5	7.5	2.5	2.0	3.0
Merged-chr5-139327296-2	chr5	139327196	139327396	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1832.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	8.5	10.0	5.0	64.5	12.0	2.0	3.0	5.0
Merged-chr4-58913766-4	chr4	58913636	58913836	+	900.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172381)	promoter-TSS (NM_172381)	-987.0	NM_172381	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	10.5	11.5	7.5	209.5	42.0	9.5	10.5	7.0
Merged-chr12-98259473-4	chr12	98259379	98259579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008079)	promoter-TSS (NM_008079)	-20.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	101.0	141.0	96.0	1201.0	303.0	130.0	166.0	99.0
Merged-chr9-120691757-3	chr9	120691654	120691854	+	716.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114423.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	17.5	13.0	11.0	157.0	6.0	2.0	3.5	1.0
Merged-chr2-90488429-3	chr2	90488332	90488532	+	924.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	B3|SINE|B2	-9258.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	3.0	2.0	2.0	45.0	25.0	9.0	16.0	13.5
Merged-chr15-97415682-4	chr15	97415564	97415764	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168377.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	40.5	26.5	32.5	693.5	48.0	10.5	33.0	28.0
Merged-chr4-106910337-4	chr4	106910228	106910428	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1142.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	18.0	41.5	17.0	319.5	97.0	21.5	38.5	23.0
Merged-chr11-70410149-4	chr11	70410017	70410217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029231)	promoter-TSS (NM_029231)	-86.0	NM_029231	75273.0	Mm.340601	NM_029231	ENSMUSG00000018921	Pelp1	4930563C04Rik|MNAR	proline, glutamic acid and leucine rich protein 1	protein-coding	35.0	56.5	26.0	472.5	88.5	35.5	26.5	52.0
Merged-chr5-62843483-4	chr5	62843390	62843590	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 6 of 8)	Tigger5b|DNA|TcMar-Tigger	29667.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	37.5	48.5	29.5	384.0	42.5	10.5	7.0	9.5
Merged-chr7-80454975-4	chr7	80454850	80455050	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007550)	TTS (NM_007550)	-49514.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	9.5	34.0	15.5	171.5	61.5	26.0	19.5	15.0
Merged-chr5-33336105-2	chr5	33336005	33336205	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021500, intron 1 of 8)	CpG	533.0	NM_021500	59003.0	Mm.138617	NM_021500	ENSMUSG00000079562	Maea	1110030D19Rik|EMP|Gid9	macrophage erythroblast attacher	protein-coding	9.5	4.5	8.0	84.0	20.0	8.5	7.5	8.5
Merged-chr10-94147900-4	chr10	94147787	94147987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011629)	promoter-TSS (NM_011629)	-44.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	73.5	106.5	52.5	828.5	206.0	82.5	88.0	79.5
Merged-chr10-127339047-4	chr10	127339033	127339233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010296, intron 2 of 12)	intron (NM_010296, intron 2 of 12)	2446.0	NM_010296	14632.0	Mm.391450	NM_010296	ENSMUSG00000025407	Gli1	AV235269|Zfp-5|Zfp5	GLI-Kruppel family member GLI1	protein-coding	14.5	20.5	18.5	185.5	46.5	22.0	17.5	18.0
Merged-chr1-132007523-4	chr1	132007428	132007628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007923)	promoter-TSS (NM_007923)	-77.0	NM_007923	13714.0	Mm.254233	NM_007923	ENSMUSG00000026436	Elk4	2310011G17Rik|A130026I01Rik|BB162516|SAP-1|Sap1	ELK4, member of ETS oncogene family	protein-coding	75.5	88.0	64.5	842.0	174.0	63.5	64.5	79.0
Merged-chr12-52525058-4	chr12	52524955	52525155	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009706, intron 1 of 5)	intron (NM_009706, intron 1 of 5)	8978.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	18.0	27.5	17.5	250.0	28.0	6.0	18.0	12.0
Merged-chr6-122560548-4	chr6	122560437	122560637	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009645, intron 2 of 4)	(CA)n|Simple_repeat|Simple_repeat	6728.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	13.5	20.5	15.0	209.0	43.5	13.5	14.0	11.0
Merged-chr18-68119924-4	chr18	68119810	68120010	+	854.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	RMER19B|LTR|ERVK	-108036.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	6.0	12.0	6.0	155.5	22.5	8.0	6.5	2.5
Merged-chr2-128870916-4	chr2	128870826	128871026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024237, intron 1 of 7)	intron (NM_024237, intron 1 of 7)	6994.0	NM_024237	70370.0	Mm.5107	NM_024237	ENSMUSG00000027386	Fbln7	1600015H20Rik|AI464334|TM14	fibulin 7	protein-coding	51.0	120.5	92.5	949.0	90.5	41.0	48.5	31.0
Merged-chr12-73716035-4	chr12	73715934	73716134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 9 of 13)	intron (NM_008856, intron 9 of 13)	131238.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	72.5	136.0	105.0	1048.0	116.0	39.0	54.0	61.5
Merged-chr7-100505243-4	chr7	100505159	100505359	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153527, intron 5 of 7)	intron (NM_153527, intron 5 of 7)	9556.0	NM_153527	69387.0	Mm.278554	NM_153527	ENSMUSG00000030708	Dnajb13	1700014P03Rik|Tsarg	DnaJ heat shock protein family (Hsp40) member B13	protein-coding	9.0	11.5	3.0	117.5	45.0	21.5	35.0	49.0
Merged-chr13-92530778-4	chr13	92530636	92530836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173392)	promoter-TSS (NM_173392)	74.0	NM_173392	218441.0	Mm.259585	NM_173392	ENSMUSG00000021706	Zfyve16	AI035632|B130024H06Rik|B130031L15|mKIAA0305	zinc finger, FYVE domain containing 16	protein-coding	118.5	155.0	182.0	1534.5	277.5	152.5	141.0	168.0
Merged-chr7-126949938-4	chr7	126949820	126950020	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252567)	promoter-TSS (NM_001252567)	-338.0	NM_001361488	233879.0	Mm.444143	NM_001039645	ENSMUSG00000046378	Asphd1	A830007L07Rik|Gm168	aspartate beta-hydroxylase domain containing 1	protein-coding	19.5	34.0	14.0	407.5	45.0	16.5	26.0	20.0
Merged-chr1-71103086-4	chr1	71102988	71103188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007525)	promoter-TSS (NM_007525)	-116.0	NM_007525	12021.0	Mm.10764	NM_007525	ENSMUSG00000026196	Bard1	-	BRCA1 associated RING domain 1	protein-coding	333.0	476.0	303.0	4988.0	822.0	319.0	485.0	256.5
Merged-chr8-125177182-1	chr8	125177082	125177282	+	607.25	f0_balb.idr	intron (NM_174854, intron 9 of 12)	intron (NM_174854, intron 9 of 12)	122987.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	10.5	20.5	11.5	111.5	0.0	0.0	0.5	1.0
Merged-chr18-35063525-4	chr18	35063426	35063626	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-55386.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	7.5	18.0	13.0	306.5	18.5	7.0	23.0	27.5
Merged-chr4-130919890-4	chr4	130919780	130919980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	6546.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	20.5	44.5	29.5	717.0	90.0	18.0	23.5	34.5
Merged-chr18-32389836-4	chr18	32389726	32389926	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	intron (NM_001360876, intron 1 of 17)	-11542.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	24.0	22.5	24.0	645.5	46.0	8.0	25.5	22.5
Merged-chr14-25474157-4	chr14	25474067	25474267	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	14982.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	38.5	14.0	12.5	389.5	71.0	28.0	19.5	19.0
Merged-chr2-132316203-4	chr2	132316160	132316360	+	892.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30321.0	NM_001291039	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	13.0	10.0	3.0	124.0	17.0	6.0	7.5	11.0
Merged-chr7-4581674-2	chr7	4581574	4581774	+	572.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207270, intron 5 of 19)	intron (NM_207270, intron 5 of 19)	22367.0	NM_207270	545902.0	Mm.188925	NM_207270	ENSMUSG00000035429	Ptprh	R-PTP-H|sap-1	protein tyrosine phosphatase, receptor type, H	protein-coding	6.0	4.5	2.5	12.5	12.0	8.5	9.0	15.0
Merged-chr10-43901720-4	chr10	43901611	43901811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130892)	promoter-TSS (NM_130892)	25.0	NM_001081054	76563.0	Mm.5904	NM_001081054	ENSMUSG00000019863	Qrsl1	2700038P16Rik|C80053|GatA	glutaminyl-tRNA synthase (glutamine-hydrolyzing)-like 1	protein-coding	58.5	80.5	47.5	797.5	141.0	51.0	64.5	52.5
Merged-chr11-100611847-4	chr11	100611784	100611984	+	890.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019795, intron 1 of 13)	intron (NM_019795, intron 1 of 13)	8284.0	NM_019795	56354.0	Mm.402409	NM_019795	ENSMUSG00000014195	Dnajc7	2010003F24Rik|2010004G07Rik|CCRP|Ttc2|mDj11|mTpr2	DnaJ heat shock protein family (Hsp40) member C7	protein-coding	15.0	15.0	14.5	233.5	28.5	12.0	22.5	9.0
Merged-chr5-29735847-4	chr5	29735714	29735914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011847)	promoter-TSS (NM_011847)	-84.0	NM_001359198	23950.0	Mm.290110	NM_011847	ENSMUSG00000029131	Dnajb6	HSJ-2|Mrj|mDj4	DnaJ heat shock protein family (Hsp40) member B6	protein-coding	56.0	114.0	47.5	752.0	138.0	82.0	55.5	55.0
Merged-chr10-61211918-4	chr10	61211803	61212003	+	842.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081127, intron 14 of 21)	intron (NM_001081127, intron 14 of 21)	36641.0	NM_023064	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	5.5	12.0	5.5	114.0	31.5	8.0	11.5	10.5
Merged-chr12-99560817-4	chr12	99560723	99560923	+	848.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3018.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	9.0	12.5	7.5	123.0	37.0	10.0	9.0	8.5
Merged-chr5-136623336-4	chr5	136623249	136623449	+	891.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-55859.0	NM_001291238	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	4.0	16.5	8.5	121.0	17.0	20.5	9.0	23.5
Merged-chr1-161139690-4	chr1	161139578	161139778	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-3034.0	NM_028664	73844.0	Mm.38830	NM_028664	ENSMUSG00000044835	Ankrd45	4933409K03Rik	ankyrin repeat domain 45	protein-coding	20.5	15.5	10.5	257.5	127.5	36.0	45.5	39.5
Merged-chr17-21532236-4	chr17	21532095	21532295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131123, intron 2 of 2)	intron (NR_131123, intron 2 of 2)	-3344.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	39.5	50.0	45.0	873.0	81.0	32.0	63.0	41.5
Merged-chr9-90198075-4	chr9	90197953	90198153	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003911, intron 23 of 23)	intron (NM_001003911, intron 23 of 23)	35075.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	8.0	28.0	23.0	147.5	33.0	10.0	22.5	15.5
Merged-chr5-137883529-3	chr5	137883441	137883641	+	961.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11783.0	NM_001024932	545812.0	Mm.332769	NM_001024932	ENSMUSG00000066682	Pilrb2	EG545812	paired immunoglobin-like type 2 receptor beta 2	protein-coding	10.0	10.0	8.5	225.5	17.0	9.0	6.5	7.0
Merged-chr13-44231310-4	chr13	44231229	44231429	+	860.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14842.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	39.0	27.0	29.5	390.5	12.0	5.5	15.5	13.0
Merged-chr9-95552226-4	chr9	95552130	95552330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7587.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	18.5	26.5	32.5	380.0	46.0	18.5	22.0	21.0
Merged-chr15-58046794-4	chr15	58046677	58046877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001042438)	TTS (NM_001042438)	-12483.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	26.0	37.0	23.5	384.0	90.5	26.0	42.5	42.5
Merged-chr10-82128100-6	chr10	82128055	82128255	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163064, intron 1 of 3)	CpG	142.0	NM_001163064	216177.0	Mm.482395	NM_001163064	ENSMUSG00000078435	AU041133	-	expressed sequence AU041133	protein-coding	22.0	9.0	29.5	260.0	37.5	12.5	23.5	18.0
Merged-chr18-39345700-2	chr18	39345600	39345800	+	715.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 20 of 21)	intron (NM_001361073, intron 20 of 21)	141545.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	10.0	11.5	7.0	45.5	10.0	8.0	4.5	3.5
Merged-chr18-44392873-3	chr18	44392778	44392978	+	742.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 1 of 10)	intron (NM_027490, intron 1 of 10)	12378.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	5.5	4.5	6.5	100.0	0.0	1.0	3.5	1.5
Merged-chr15-102378029-2	chr15	102377929	102378129	+	751.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11061.0	NM_001348205	170574.0	Mm.263284	NM_130458	ENSMUSG00000060284	Sp7	6430578P22Rik|C22|Osx	Sp7 transcription factor 7	protein-coding	5.0	8.5	7.0	42.5	12.5	0.5	3.0	2.5
Merged-chr8-70873613-7	chr8	70873498	70873698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026964)	promoter-TSS (NM_026964)	-108.0	NM_026964	234388.0	Mm.295791	NM_026964	ENSMUSG00000007721	Ccdc124	1810023B24Rik	coiled-coil domain containing 124	protein-coding	31.0	45.0	29.0	276.5	79.5	41.5	22.5	30.0
Merged-chr8-91051246-4	chr8	91051177	91051377	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310530, exon 38 of 38)	exon (NM_001310530, exon 38 of 38)	-18780.0	NM_001282001	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	13.0	30.5	19.0	305.0	49.5	10.5	21.0	22.5
Merged-chr13-92680239-4	chr13	92680140	92680340	+	845.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 2 of 11)	intron (NM_172588, intron 2 of 11)	69102.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	7.5	23.5	12.5	268.5	24.0	9.0	7.5	22.0
Merged-chr5-32085760-4	chr5	32085670	32085870	+	919.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50702.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	15.5	14.0	18.0	301.5	34.0	13.5	14.0	20.0
Merged-chr17-12170438-3	chr17	12170342	12170542	+	973.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 2 of 8)	intron (NM_026644, intron 2 of 8)	51158.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	1.0	0.0	0.5	0.0	56.5	28.5	25.0	7.0
Merged-chr17-3314336-4	chr17	3314242	3314442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12231.0	NM_001122998	24001.0	Mm.137134	NM_011878	ENSMUSG00000023800	Tiam2	3000002F19Rik|STEF|mKIAA2016	T cell lymphoma invasion and metastasis 2	protein-coding	54.5	52.5	61.0	935.0	106.0	45.5	54.0	45.5
Merged-chr5-64626547-3	chr5	64626447	64626647	+	820.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15848.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	9.5	12.5	1.5	92.0	16.0	6.5	11.0	7.0
Merged-chr2-137807774-4	chr2	137807676	137807876	+	949.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-448808.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	32.0	31.0	54.0	530.5	31.0	32.5	14.5	16.0
Merged-chr2-75659099-4	chr2	75658999	75659199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198090)	promoter-TSS (NM_198090)	-160.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	296.0	355.0	297.0	4140.0	659.0	251.0	315.5	259.0
Merged-chr6-91153739-4	chr6	91153627	91153827	+	894.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3088.0	NM_144919	232232.0	Mm.206218	NM_144919	ENSMUSG00000034245	Hdac11	-	histone deacetylase 11	protein-coding	13.0	12.0	8.5	136.5	26.5	3.5	14.0	16.5
Merged-chr4-62674080-5	chr4	62673871	62674071	+	924.7800289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310706)	promoter-TSS (NM_001310706)	-3.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	4.0	6.5	6.5	85.0	8.5	7.5	5.5	9.5
Merged-chr11-120360240-4	chr11	120360121	120360321	+	984.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1313.0	NM_172802	238021.0	Mm.481403	NM_172802	ENSMUSG00000025380	Fscn2	A930022G03|Ahl8|C630046B20Rik	fascin actin-bundling protein 2	protein-coding	15.5	27.0	6.0	258.5	34.5	5.5	25.0	26.0
Merged-chr6-129546077-1	chr6	129545977	129546177	+	774.333313	f0_balb.idr	Intergenic	Intergenic	-12793.0	NR_045270	100504641.0	Mm.398286	NR_045270	ENSMUSG00000097675	1700101I11Rik	-	RIKEN cDNA 1700101I11 gene	ncRNA	10.0	8.5	8.5	178.5	2.0	0.0	0.5	1.0
Merged-chr18-61106843-4	chr18	61106800	61107000	+	874.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037859, intron 2 of 21)	intron (NM_001037859, intron 2 of 21)	1328.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	4.0	11.5	8.0	49.0	16.5	6.0	8.0	15.0
Merged-chr10-18194875-4	chr10	18194768	18194968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195036, intron 3 of 20)	intron (NM_001195036, intron 3 of 20)	16022.0	NM_001195036	100045792.0	Mm.380617	NM_001195036	ENSMUSG00000071392	Ect2l	C330021H03Rik|Gm10331	epithelial cell transforming sequence 2 oncogene-like	protein-coding	18.5	31.5	32.0	415.5	59.5	27.5	25.5	31.5
Merged-chr9-44512208-4	chr9	44512146	44512346	+	969.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030256)	TTS (NM_030256)	13110.0	NM_030256	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	18.0	38.0	25.5	218.5	44.0	10.5	27.0	22.0
Merged-chr13-30749931-4	chr13	30749841	30750041	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347508, intron 1 of 8)	intron (NM_001347508, intron 1 of 8)	708.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	16.5	35.0	9.5	183.5	41.0	13.5	13.0	11.5
Merged-chr1-191317958-4	chr1	191317868	191318068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025424, exon 1 of 4)	exon (NM_025424, exon 1 of 4)	150.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	39.5	69.0	76.5	528.5	85.0	40.0	30.0	56.5
Merged-chr18-4258333-4	chr18	4258189	4258389	+	970.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	92457.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	16.5	29.5	21.5	339.5	29.0	17.5	14.0	10.5
Merged-chr6-120077183-3	chr6	120077088	120077288	+	941.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-16192.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	14.5	14.0	5.0	166.5	11.5	5.0	5.0	7.0
Merged-chr6-7858686-3	chr6	7858583	7858783	+	942.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_052993, intron 1 of 3)	Tigger1|DNA|TcMar-Tigger	13459.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	9.0	18.5	7.5	183.0	7.5	2.0	11.5	7.0
Merged-chr5-5897919-3	chr5	5897829	5898029	+	636.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148612.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	6.0	7.0	8.0	117.0	5.0	4.0	1.5	1.5
Merged-chr6-97456830-1	chr6	97456730	97456930	+	920.5	f0_balb.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	2456.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	10.5	30.5	8.5	186.5	20.0	14.5	3.0	7.0
Merged-chr8-10835827-4	chr8	10835748	10835948	+	825.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46606.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	13.0	31.0	8.5	179.0	17.5	12.5	17.0	18.5
Merged-chr3-37769513-4	chr3	37769400	37769600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45140.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	238.0	358.0	248.5	3450.5	635.0	253.5	268.5	261.5
Merged-chr7-16452824-4	chr7	16452748	16452948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026938)	promoter-TSS (NM_026938)	69.0	NM_026938	69094.0	Mm.29633	NM_026938	ENSMUSG00000019158	Tmem160	1810008O21Rik	transmembrane protein 160	protein-coding	145.5	176.5	142.0	2554.0	264.0	81.5	164.0	115.5
Merged-chr11-101959993-4	chr11	101959904	101960104	+	938.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045806, exon 4 of 4)	non-coding (NR_045806, exon 4 of 4)	7011.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	21.5	48.0	26.0	234.0	90.5	9.0	27.5	13.5
Merged-chr9-36970805-4	chr9	36970678	36970878	+	708.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148950, intron 2 of 11)	intron (NM_148950, intron 2 of 11)	137204.0	NM_001357611	235180.0	Mm.5264	NM_183171	ENSMUSG00000032118	Fez1	UNC-76|UNC76	fasciculation and elongation protein zeta 1 (zygin I)	protein-coding	7.5	9.0	11.0	88.0	21.0	4.5	2.0	8.0
Merged-chr2-118012434-4	chr2	118012322	118012522	+	913.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	Lx9|LINE|L1	98780.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	12.5	16.5	23.5	288.0	39.5	25.0	38.5	16.0
Merged-chr18-75259273-4	chr18	75259178	75259378	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027727, intron 16 of 16)	intron (NM_027727, intron 16 of 16)	38039.0	NR_045394	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	13.5	9.5	47.0	628.5	30.0	6.0	9.5	17.5
Merged-chr2-160360645-4	chr2	160360539	160360739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6426.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	61.0	119.0	112.5	1756.0	117.5	67.0	57.5	29.0
Merged-chr10-94355585-4	chr10	94355475	94355675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	43626.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	31.0	55.0	24.5	498.0	76.0	29.5	55.5	43.0
Merged-chr12-99993700-4	chr12	99993596	99993796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	MIR|SINE|MIR	29197.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	131.5	159.5	166.5	2303.0	173.5	54.0	117.5	103.5
Merged-chr9-48494536-4	chr9	48494420	48494620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004191)	promoter-TSS (NM_001004191)	810.0	NM_001326355	67010.0	Mm.76911	NM_144948	ENSMUSG00000042396	Rbm7	1200007M24Rik|1500011D06Rik|AU041934|AW554393	RNA binding motif protein 7	protein-coding	69.5	99.0	50.0	543.5	94.0	24.0	23.0	22.0
Merged-chr3-51708798-4	chr3	51708674	51708874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	47595.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	28.5	24.5	25.5	465.0	50.5	22.5	21.5	21.5
Merged-chr12-51865205-4	chr12	51865101	51865301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35665.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	88.0	96.5	76.0	1568.0	126.0	52.0	53.0	52.0
Merged-chr15-81044606-4	chr15	81044449	81044649	+	895.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 3 of 13)	intron (NM_001082536, intron 3 of 13)	60498.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	11.5	10.0	7.0	174.5	19.0	5.5	7.0	14.5
Merged-chr6-15792959-4	chr6	15792856	15793056	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 4 of 4)	intron (NM_175088, intron 4 of 4)	72295.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	12.0	16.0	6.0	185.0	42.0	10.5	24.5	24.0
Merged-chr17-57098486-4	chr17	57098391	57098591	+	805.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033508, intron 3 of 3)	intron (NR_033508, intron 3 of 3)	-6894.0	NM_009404	21950.0	Mm.41171	NM_009404	ENSMUSG00000035678	Tnfsf9	4-1BB-L|4-1BBL|AI848817|Cd137l|Ly63l	tumor necrosis factor (ligand) superfamily, member 9	protein-coding	10.5	49.0	13.0	125.5	39.0	27.0	9.0	6.0
Merged-chr10-59950890-3	chr10	59950758	59950958	+	795.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029083, exon 3 of 3)	exon (NM_029083, exon 3 of 3)	912.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	16.5	9.5	12.0	99.0	20.0	7.0	19.0	10.0
Merged-chr16-38458923-4	chr16	38458808	38459008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009855)	promoter-TSS (NM_009855)	-25.0	NM_001359898	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	89.5	159.5	84.5	804.0	240.5	92.5	72.5	47.0
Merged-chr14-118938873-4	chr14	118938729	118938929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008929, intron 1 of 11)	intron (NM_008929, intron 1 of 11)	897.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	43.5	43.5	31.5	465.5	75.5	30.5	27.5	27.5
Merged-chr5-99215435-4	chr5	99215307	99215507	+	982.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37520.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	40.0	67.0	26.0	379.0	58.0	35.0	23.0	14.0
Merged-chr8-72583257-3	chr8	72583162	72583362	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357280, intron 4 of 4)	ORR1D2|LTR|ERVL-MaLR	11439.0	NM_001357279	74166.0	Mm.212927	NM_144534	ENSMUSG00000031791	Tmem38a	1110001E17Rik|AI413399|SPR-27|TRIC-A|mg33a	transmembrane protein 38A	protein-coding	4.0	0.5	2.0	96.0	142.5	75.5	76.5	79.5
Merged-chr13-21753806-5	chr13	21753599	21753799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178201)	promoter-TSS (NM_178201)	213.0	NM_178183	319169.0	Mm.370338	NM_178183	ENSMUSG00000063021	Hist1h2ak	-	histone cluster 1, H2ak	protein-coding	17.5	36.5	35.0	163.0	56.0	29.5	40.0	36.0
Merged-chr11-20656083-4	chr11	20655982	20656182	+	949.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24105.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	36.0	20.5	24.0	464.5	33.5	10.5	21.5	26.0
Merged-chr1-161976604-4	chr1	161976500	161976700	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204904, intron 1 of 6)	intron (NM_001204904, intron 1 of 6)	3036.0	NM_001204904	75368.0	Mm.108728	NM_001204904	ENSMUSG00000086277	4930558K02Rik	-	RIKEN cDNA 4930558K02 gene	protein-coding	16.5	26.0	13.0	264.0	82.5	13.5	28.5	28.0
Merged-chr6-39538430-4	chr6	39538337	39538537	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 1 of 18)	intron (NM_172477, intron 1 of 18)	19397.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	19.5	27.0	30.0	423.0	50.0	11.0	20.5	8.0
Merged-chr5-110284732-4	chr5	110284615	110284815	+	919.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008993, intron 1 of 4)	MTE2b|LTR|ERVL-MaLR	1453.0	NM_008993	19301.0	Mm.21853	NM_008993	ENSMUSG00000029499	Pxmp2	22kDa|PMP22	peroxisomal membrane protein 2	protein-coding	14.0	11.5	11.0	175.5	35.5	12.5	14.5	24.0
Merged-chr15-91260701-3	chr15	91260603	91260803	+	646.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68696.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	7.0	14.5	17.0	128.0	17.0	2.5	10.0	6.0
Merged-chr1-82787575-4	chr1	82787493	82787693	+	896.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19137.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	16.5	18.5	14.0	226.5	29.0	9.0	11.5	13.0
Merged-chr3-81113082-4	chr3	81112940	81113140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	B4A|SINE|B4	76624.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	24.5	20.0	18.0	431.0	85.5	19.0	27.0	24.0
Merged-chr8-35633533-2	chr8	35633430	35633630	+	894.5	f0_balb.idr|f1_balb.idr	intron (NM_001081279, intron 1 of 2)	B4A|SINE|B4	-44510.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	5.5	14.0	4.0	148.5	19.5	10.0	14.0	9.0
Merged-chr11-101316646-1	chr11	101316546	101316746	+	829.0	f0_c57.idr	intron (NM_011192, intron 1 of 10)	intron (NM_011192, intron 1 of 10)	433.0	NM_011192	19192.0	Mm.288477	NM_011192	ENSMUSG00000078652	Psme3	AA410043|AU020960|Ki|PA28gamma|REGgamma|pa28g	proteaseome (prosome, macropain) activator subunit 3 (PA28 gamma, Ki)	protein-coding	3.5	12.0	6.0	73.0	22.0	8.5	11.5	10.0
Merged-chr6-121226296-4	chr6	121226200	121226400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_017379)	TTS (NM_017379)	15566.0	NM_017379	53857.0	Mm.32884	NM_017379	ENSMUSG00000030137	Tuba8	-	tubulin, alpha 8	protein-coding	33.5	37.5	30.0	362.0	98.5	28.0	36.0	29.5
Merged-chr5-9101132-4	chr5	9101051	9101251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 1 of 4)	CpG	414.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	50.5	74.0	65.0	731.5	149.0	55.0	73.0	31.0
Merged-chr6-88829789-4	chr6	88829679	88829879	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	12156.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	28.0	26.0	14.5	245.0	72.0	19.0	27.0	20.0
Merged-chr4-101686552-4	chr4	101686440	101686640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30867.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	81.0	83.5	134.5	2130.0	257.5	86.0	174.5	106.5
Merged-chr13-60673163-4	chr13	60673057	60673257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	70946.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	347.0	544.5	445.5	5609.5	869.0	370.5	455.0	352.0
Merged-chr3-95217290-4	chr3	95217167	95217367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_108026)	promoter-TSS (NR_108026)	-190.0	NR_108026	100504029.0	Mm.478537	NR_108026	ENSMUSG00000097167	Gm16740	-	predicted gene, 16740	ncRNA	64.5	117.0	66.5	1122.5	205.0	73.5	84.0	76.0
Merged-chr2-180964225-4	chr2	180964128	180964328	+	875.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2997.0	NM_145760	228998.0	Mm.33765	NM_145760	ENSMUSG00000027575	Arfgap1	AI115377|Arf1gap	ADP-ribosylation factor GTPase activating protein 1	protein-coding	16.0	10.0	20.0	123.0	44.5	7.5	13.0	12.5
Merged-chr3-8989043-4	chr3	8988945	8989145	+	850.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	ORR1E|LTR|ERVL-MaLR	15159.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	8.5	11.5	9.0	230.0	28.0	9.5	14.5	14.0
Merged-chr7-122396126-3	chr7	122396014	122396214	+	811.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	106989.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	5.5	11.0	3.0	114.0	18.0	5.5	7.0	16.5
Merged-chr5-33782840-4	chr5	33782744	33782944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019694)	promoter-TSS (NM_019694)	-140.0	NM_019694	56384.0	Mm.260538	NM_019694	ENSMUSG00000005299	Letm1	-	leucine zipper-EF-hand containing transmembrane protein 1	protein-coding	99.0	148.0	99.0	2444.5	334.0	104.0	192.5	120.0
Merged-chr17-86788520-3	chr17	86788428	86788628	+	902.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010137, intron 1 of 15)	intron (NM_010137, intron 1 of 15)	34664.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	9.5	6.5	7.5	115.5	10.0	3.0	4.5	2.0
Merged-chr10-54154153-2	chr10	54154053	54154253	+	818.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78231.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	7.5	5.5	2.5	141.5	23.5	6.5	7.0	12.0
Merged-chr9-22314195-4	chr9	22314098	22314298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6560.0	NM_145612	235050.0	Mm.306038	NM_145612	ENSMUSG00000066829	Zfp810	BC005471	zinc finger protein 810	protein-coding	41.0	25.0	36.0	625.5	101.0	33.0	34.0	25.0
Merged-chr9-123850250-4	chr9	123850163	123850363	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148925, intron 1 of 18)	intron (NM_148925, intron 1 of 18)	1398.0	NM_148925	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	35.5	62.0	12.5	180.0	52.0	27.0	15.5	17.0
Merged-chr9-98298963-4	chr9	98298875	98299075	+	896.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	intron (NM_001357445, intron 1 of 3)	2405.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	12.0	42.0	10.5	254.0	34.5	10.0	15.0	11.5
Merged-chr8-13600315-4	chr8	13600225	13600425	+	973.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 4 of 23)	intron (NM_009025, intron 4 of 23)	-37864.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	41.0	24.0	39.0	665.0	35.0	10.0	24.5	16.0
Merged-chr11-60913804-4	chr11	60913699	60913899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025294)	promoter-TSS (NM_025294)	-7.0	NM_025294	24083.0	Mm.22780	NM_025294	ENSMUSG00000018931	Natd1	AI256713|F3-2|Gm16515|Gtlf3b	N-acetyltransferase domain containing 1	protein-coding	87.5	110.0	64.0	802.0	190.5	84.5	71.5	61.0
Merged-chr2-173538737-4	chr2	173538609	173538809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16117.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	24.0	28.5	48.0	557.5	93.5	29.0	43.0	32.0
Merged-chr3-53436653-1	chr3	53436553	53436753	+	742.599976	f0_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	26605.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	8.5	9.5	15.0	96.0	3.0	1.0	0.5	1.0
Merged-chr12-111039221-4	chr12	111039147	111039347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198023)	promoter-TSS (NM_198023)	-551.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	223.5	343.0	193.5	3087.5	502.5	178.0	258.0	199.0
Merged-chr2-150831239-4	chr2	150831126	150831326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153781, exon 20 of 20)	3' UTR (NM_153781, exon 20 of 20)	11344.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	60.5	63.5	86.5	1545.5	110.5	33.0	59.0	61.5
Merged-chr15-38247344-4	chr15	38247242	38247442	+	957.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28139.0	NM_008757	18285.0	Mm.252830	NM_008757	ENSMUSG00000061923	Odf1	-	outer dense fiber of sperm tails 1	protein-coding	19.0	25.0	17.5	180.0	55.0	32.5	23.5	16.5
Merged-chr12-76255252-4	chr12	76255157	76255357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138745)	promoter-TSS (NM_138745)	25.0	NM_138745	108156.0	Mm.29584	NM_138745	ENSMUSG00000021048	Mthfd1	Dcs|E430024A07Rik|Mthfd	methylenetetrahydrofolate dehydrogenase (NADP+ dependent), methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthase	protein-coding	146.0	213.0	169.5	2733.5	416.5	181.5	236.0	126.5
Merged-chr5-130023861-3	chr5	130023761	130023961	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133768, intron 2 of 16)	intron (NM_133768, intron 2 of 16)	520.0	NM_133768	109900.0	Mm.23869	NM_133768	ENSMUSG00000025533	Asl	2510006M18Rik|ASAL	argininosuccinate lyase	protein-coding	18.5	45.0	8.5	287.0	113.5	27.5	43.5	32.0
Merged-chr4-140952450-4	chr4	140952327	140952527	+	962.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008812, exon 16 of 16)	3' UTR (NM_008812, exon 16 of 16)	5475.0	NR_045911	100126227.0	Mm.404073	NR_045911	ENSMUSG00000087698	Gm13031	-	predicted gene 13031	ncRNA	13.0	20.0	8.0	139.5	68.0	21.0	24.0	28.5
Merged-chr5-76973663-4	chr5	76973588	76973788	+	902.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1013.0	NM_025691	66661.0	Mm.296976	NM_025691	ENSMUSG00000036323	Srp72	5730576P14Rik|72kDa|AI132477|BC019196|C77589	signal recognition particle 72	protein-coding	18.5	17.5	5.5	129.5	41.5	15.0	14.0	16.0
Merged-chr5-104508488-4	chr5	104508413	104508613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001166581, exon 1 of 2)	5' UTR (NM_001166581, exon 1 of 2)	161.0	NM_001166581	100042165.0	Mm.482189	NM_001166581	ENSMUSG00000079065	BC005561	-	cDNA sequence BC005561	protein-coding	19.0	19.5	45.0	321.0	60.5	33.5	26.5	29.5
Merged-chr1-75209265-7	chr1	75209170	75209370	+	937.392883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029010, intron 2 of 16)	intron (NM_029010, intron 2 of 16)	1508.0	NM_029010	74577.0	Mm.458319	NM_029010	ENSMUSG00000026200	Glb1l	4833408P15Rik	galactosidase, beta 1-like	protein-coding	7.0	25.5	14.0	81.5	15.0	4.0	10.5	10.0
Merged-chr5-54060251-3	chr5	54060154	54060354	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 2 of 11)	intron (NM_001081103, intron 2 of 11)	61731.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	10.5	7.0	15.5	171.0	16.0	8.5	5.5	5.0
Merged-chr18-38443717-3	chr18	38443609	38443809	+	884.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 2 of 7)	intron (NM_001355749, intron 2 of 7)	24802.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	6.0	14.5	5.0	27.5	46.0	8.0	16.5	7.5
Merged-chr8-94392328-1	chr8	94392228	94392428	+	542.0	f1_c57bl6.idr	exon (NM_022331, exon 6 of 8)	exon (NM_022331, exon 6 of 8)	5899.0	NM_022331	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	3.5	11.5	0.5	33.0	4.5	5.0	6.5	5.0
Merged-chr8-84662886-4	chr8	84662763	84662963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010499)	promoter-TSS (NM_010499)	-11.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	111.5	194.5	120.0	1446.5	374.5	161.0	146.5	135.5
Merged-chr12-73593574-4	chr12	73593472	73593672	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 1 of 13)	intron (NM_008856, intron 1 of 13)	8776.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	24.0	22.0	23.0	557.0	24.0	4.5	9.0	12.5
Merged-chr7-128740526-4	chr7	128740428	128740628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145955)	promoter-TSS (NM_145955)	-99.0	NM_145955	210711.0	Mm.58882	NM_145955	ENSMUSG00000048170	Mcmbp	1110007A13Rik|AU017382|BC025641|MCM-BP	minichromosome maintenance complex binding protein	protein-coding	87.0	100.0	52.0	1140.0	172.5	83.0	81.5	52.5
Merged-chr10-128529073-5	chr10	128528984	128529184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3225.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	20.5	32.5	21.5	245.5	53.5	20.0	14.0	24.5
Merged-chr6-114920781-3	chr6	114920683	114920883	+	824.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	1038.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	11.0	11.5	16.0	100.0	15.5	3.0	2.5	5.0
Merged-chr7-97580387-5	chr7	97580307	97580507	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177947)	promoter-TSS (NM_001177947)	511.0	NM_001081267	233532.0	Mm.43977	NM_001081267	ENSMUSG00000035623	Rsf1	4832420A03Rik|C030033M12Rik|Gm164|Hbxap|XAP8|p325	remodeling and spacing factor 1	protein-coding	7.0	11.0	14.5	104.0	30.0	14.5	7.0	6.5
Merged-chr5-130030024-3	chr5	130029931	130030131	+	797.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007761, intron 1 of 5)	MTD|LTR|ERVL-MaLR	725.0	NM_007761	12909.0	Mm.18072	NM_007761	ENSMUSG00000025532	Crcp	AL022669	calcitonin gene-related peptide-receptor component protein	protein-coding	9.5	4.0	4.0	188.0	14.5	4.5	4.5	6.5
Merged-chr17-69201552-4	chr17	69201434	69201634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	B4A|SINE|B4	42178.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	38.0	38.0	37.0	552.0	84.0	31.0	45.0	41.0
Merged-chr9-108569873-4	chr9	108569775	108569975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026378)	promoter-TSS (NM_026378)	-17.0	NM_026378	67789.0	Mm.458081	NM_026378	ENSMUSG00000019039	Dalrd3	6330580J24Rik|C77829|mir-425	DALR anticodon binding domain containing 3	protein-coding	84.0	102.0	61.5	932.5	203.5	68.5	113.0	70.0
Merged-chr10-123075983-2	chr10	123075883	123076083	+	936.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153395, exon 1 of 34)	5' UTR (NM_153395, exon 1 of 34)	522.0	NM_001163024	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	13.0	11.5	23.5	332.5	36.0	6.5	21.5	20.0
Merged-chr1-131983140-4	chr1	131983052	131983252	+	722.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145977)	TTS (NM_145977)	12543.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	9.0	12.0	8.5	97.5	18.0	6.5	5.5	5.5
Merged-chr10-75512663-4	chr10	75512549	75512749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347201, intron 1 of 5)	intron (NM_001347201, intron 1 of 5)	4732.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	50.5	86.0	46.0	701.0	139.5	49.5	89.5	47.5
Merged-chr14-52104250-4	chr14	52104147	52104347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360176)	promoter-TSS (NM_001360176)	-226.0	NM_001360180	15381.0	Mm.427321	NM_016884	ENSMUSG00000060373	Hnrnpc	AL022939|D14Wsu171e|Hnrpc|Hnrpc1|Hnrpc2|hnRNPC1|hnRNPC2|hnrnp-C	heterogeneous nuclear ribonucleoprotein C	protein-coding	415.0	610.0	467.5	6047.0	812.0	372.5	365.0	346.5
Merged-chr16-33531347-4	chr16	33531250	33531450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 1 of 11)	intron (NM_001083902, intron 1 of 11)	12755.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	74.0	82.0	122.5	1776.0	81.0	19.0	40.0	32.5
Merged-chr17-33930995-7	chr17	33930909	33931109	+	997.985718	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009059, intron 2 of 17)	intron (NM_009059, intron 2 of 17)	1115.0	NM_009059	19732.0	Mm.43777	NM_009059	ENSMUSG00000041354	Rgl2	KE1.5|Rab2l|Rgt2|Rlf	ral guanine nucleotide dissociation stimulator-like 2	protein-coding	22.0	31.5	19.0	128.5	78.0	35.0	13.5	22.5
Merged-chr17-31296189-3	chr17	31295982	31296182	+	918.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242427)	promoter-TSS (NM_001242427)	-142.0	NM_001242427	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	11.0	12.0	15.0	105.5	22.0	8.0	7.0	14.0
Merged-chr19-6679903-4	chr19	6679816	6680016	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-136846.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	23.5	32.0	29.5	161.5	40.0	8.5	8.5	10.5
Merged-chr14-46993395-3	chr14	46993294	46993494	+	908.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	-7946.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	8.0	8.0	9.0	199.5	21.5	5.0	5.0	4.5
Merged-chr6-91473591-4	chr6	91473499	91473699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133928)	promoter-TSS (NM_133928)	-152.0	NM_028766	74122.0	Mm.38801	NM_028766	ENSMUSG00000030095	Tmem43	1200015A22Rik|LUMA	transmembrane protein 43	protein-coding	281.5	390.0	282.5	4430.5	644.5	246.0	331.5	300.0
Merged-chr6-137688318-2	chr6	137688218	137688418	+	687.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39033.0	NM_007945	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	6.5	9.5	7.0	65.0	7.0	8.5	0.0	6.5
Merged-chr5-99374649-4	chr5	99374538	99374738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-121711.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	23.0	37.5	27.0	291.5	92.0	28.0	55.5	44.0
Merged-chr2-102685882-2	chr2	102685755	102685955	+	608.666626	f0_balb.idr|f1_balb.idr	intron (NM_001077514, intron 1 of 10)	intron (NM_001077514, intron 1 of 10)	-20583.0	NM_011393	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	5.5	4.5	7.0	91.0	10.0	2.0	5.5	4.0
Merged-chr4-138913489-2	chr4	138913376	138913576	+	630.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028453, intron 1 of 7)	CpG	471.0	NM_028453	73162.0	Mm.238081	NM_028453	ENSMUSG00000041161	Otud3	3110030K17Rik	OTU domain containing 3	protein-coding	6.0	7.0	12.0	46.5	11.5	5.0	5.0	9.0
Merged-chr7-127422037-4	chr7	127421924	127422124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026999)	promoter-TSS (NM_026999)	10.0	NM_026999	69234.0	Mm.20301	NM_026999	ENSMUSG00000045251	Zfp688	2810407K09Rik|AI326029	zinc finger protein 688	protein-coding	106.0	142.5	71.0	1323.0	218.0	79.0	93.5	71.5
Merged-chr2-170002784-4	chr2	170002683	170002883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	YREP_Mm|Unknown|Unknown	-39596.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	38.5	34.5	46.0	859.5	123.0	48.5	42.0	70.0
Merged-chr7-71785176-3	chr7	71785067	71785267	+	919.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124528.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	21.0	10.0	30.5	716.0	4.0	0.0	1.0	1.5
Merged-chr3-106790118-4	chr3	106790007	106790207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007651)	promoter-TSS (NM_007651)	42.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	74.0	132.5	69.5	1421.5	291.0	99.5	109.0	81.0
Merged-chr2-126030350-3	chr2	126030270	126030470	+	714.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029455, intron 11 of 16)	intron (NM_029455, intron 11 of 16)	-4288.0	NM_008008	14178.0	Mm.330557	NM_008008	ENSMUSG00000027208	Fgf7	Kgf	fibroblast growth factor 7	protein-coding	10.5	11.5	6.5	76.5	16.0	2.0	17.0	13.5
Merged-chr19-57452934-4	chr19	57452831	57453031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028115)	promoter-TSS (NM_028115)	25.0	NM_028115	72133.0	Mm.258404	NM_028115	ENSMUSG00000025086	Trub1	2610009I02Rik|9030425C13Rik|AI448235|BB118943|C76870	TruB pseudouridine (psi) synthase family member 1	protein-coding	58.5	71.0	47.5	780.0	74.5	41.0	51.5	44.0
Merged-chr9-25481527-4	chr9	25481437	25481637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026189)	promoter-TSS (NM_026189)	-60.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	169.5	302.0	226.0	2877.5	514.5	153.0	268.5	215.5
Merged-chr4-109676586-4	chr4	109676495	109676695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007983)	promoter-TSS (NM_007983)	-32.0	NM_007983	14084.0	Mm.318259	NM_007983	ENSMUSG00000010517	Faf1	AA408698|Dffrx|Fam	Fas-associated factor 1	protein-coding	136.5	178.0	119.0	1973.5	270.5	111.5	129.0	90.5
Merged-chr10-117323963-4	chr10	117323850	117324050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31082.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	40.0	38.5	31.0	488.5	105.5	36.0	52.0	31.5
Merged-chr2-143847100-4	chr2	143846997	143847197	+	961.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291061, intron 3 of 7)	LTR16E1|LTR|ERVL	16076.0	NM_009751	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	14.0	38.0	19.0	294.0	29.5	8.5	9.5	17.5
Merged-chr4-126251893-4	chr4	126251792	126251992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145970, intron 1 of 16)	intron (NM_001145970, intron 1 of 16)	4427.0	NM_144941	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	66.5	73.5	29.5	527.5	134.5	39.0	58.5	44.5
Merged-chr15-19857851-3	chr15	19857745	19857945	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	672472.0	NR_155419	102639102.0	Mm.463245	NR_155419	ENSMUSG00000115803	Gm35496	-	predicted gene, 35496	ncRNA	1.5	1.0	1.0	3.5	330.5	137.0	110.5	65.0
Merged-chr4-138014326-4	chr4	138014231	138014431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	16506.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	63.0	84.0	48.5	1056.0	51.0	23.5	25.5	34.0
Merged-chr7-29492080-4	chr7	29491977	29492177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081028, intron 2 of 22)	L1MC4|LINE|L1	13383.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	95.0	139.5	94.5	1703.0	291.5	112.5	107.5	114.5
Merged-chr9-106193169-1	chr9	106193069	106193269	+	569.0	f0_balb.idr	Intergenic	Intergenic	5770.0	NM_198931	67905.0	Mm.23018	NM_026447	ENSMUSG00000020253	Ppm1m	2810423O19Rik|AW610647|C77250|PP2Ceta	protein phosphatase 1M	protein-coding	6.5	5.0	6.5	94.5	9.0	6.0	1.5	11.0
Merged-chr12-13562838-3	chr12	13562744	13562944	+	866.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027706, intron 50 of 51)	intron (NM_027706, intron 50 of 51)	64802.0	NR_136761	102639399.0	Mm.122052	NR_136761	ENSMUSG00000113666	Gm35725	-	predicted gene, 35725	ncRNA	7.0	7.5	6.0	112.0	13.5	1.0	12.0	3.0
Merged-chr10-43479981-4	chr10	43479882	43480082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199028, intron 1 of 3)	CpG	842.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	176.0	311.5	202.0	2800.5	377.5	139.0	174.5	148.0
Merged-chr11-68440238-4	chr11	68440125	68440325	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	8100.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	24.0	60.0	20.0	312.5	44.0	24.0	22.5	16.5
Merged-chr6-72093352-3	chr6	72093273	72093473	+	914.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4235.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	12.5	10.0	5.5	195.5	11.0	2.0	5.0	9.0
Merged-chr13-111792287-1	chr13	111792187	111792387	+	636.0	f0_balb.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	16706.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	4.5	4.5	8.0	90.5	5.0	1.0	1.5	2.5
Merged-chr2-52513021-4	chr2	52512918	52513118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	45593.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	67.0	191.5	100.5	1053.0	249.5	74.0	86.5	57.5
Merged-chr8-88636120-4	chr8	88636009	88636209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027840)	promoter-TSS (NM_027840)	19.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	86.0	131.5	89.0	1337.0	207.0	98.5	106.0	110.0
Merged-chr10-80677966-4	chr10	80677878	80678078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1685.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	100.5	103.5	79.5	1045.0	194.0	72.5	87.0	84.0
Merged-chr7-4812358-3	chr7	4812264	4812464	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133777)	promoter-TSS (NM_133777)	-24.0	NM_133777	77891.0	Mm.389787	NM_133777	ENSMUSG00000060860	Ube2s	0910001J09Rik|6720465F12Rik|AA409170|E2-EPF	ubiquitin-conjugating enzyme E2S	protein-coding	50.0	79.0	43.0	438.0	216.5	95.5	95.0	95.5
Merged-chr1-59316182-4	chr1	59316068	59316268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356389, intron 10 of 13)	intron (NM_001356389, intron 10 of 13)	59262.0	NM_001356389	271697.0	Mm.297713	NM_001033373	ENSMUSG00000026023	Cdk15	Als2cr7|Pftk2	cyclin-dependent kinase 15	protein-coding	42.5	53.0	46.5	833.5	76.5	30.0	26.5	50.5
Merged-chr19-4283890-4	chr19	4283796	4283996	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026720)	promoter-TSS (NM_026720)	-759.0	NM_026720	68423.0	Mm.23642	NM_026720	ENSMUSG00000005986	Ankrd13d	0710001P18Rik|AI430801	ankyrin repeat domain 13 family, member D	protein-coding	37.0	29.0	23.0	335.5	42.0	21.0	13.0	10.5
Merged-chr6-97506480-4	chr6	97506383	97506583	+	949.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-18663.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	12.5	13.0	13.0	160.5	28.5	7.0	7.0	20.5
Merged-chr14-70205949-4	chr14	70205849	70206049	+	825.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271407)	promoter-TSS (NM_001271407)	73.0	NM_001271407	20410.0	Mm.5068	NM_011366	ENSMUSG00000022091	Sorbs3	SCAM-1|SH3P3|Sh3d4|vinexin-g	sorbin and SH3 domain containing 3	protein-coding	12.5	12.0	7.0	145.5	21.0	4.0	5.5	10.0
Merged-chr1-16688335-4	chr1	16688227	16688427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016923)	promoter-TSS (NM_016923)	-129.0	NM_016923	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	61.5	93.0	57.5	1219.0	201.5	79.5	70.5	57.0
Merged-chr7-139131678-4	chr7	139131538	139131738	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021302, intron 2 of 11)	intron (NM_021302, intron 2 of 11)	45637.0	NM_011993	26757.0	Mm.250414	NM_011993	ENSMUSG00000025478	Dpysl4	AI173505|CRMP-3|Crmp3|DPY4|Drp-4|Ulip4	dihydropyrimidinase-like 4	protein-coding	17.0	22.0	13.0	207.5	32.0	12.0	11.5	10.5
Merged-chr15-89075418-4	chr15	89075303	89075503	+	963.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355617)	promoter-TSS (NM_001355617)	451.0	NR_040417	69120.0	Mm.276391	NR_040417	ENSMUSG00000087331	1810021B22Rik	-	RIKEN cDNA 1810021B22 gene	ncRNA	26.5	27.0	11.5	324.5	30.0	19.0	15.0	19.0
Merged-chr1-87828501-4	chr1	87828375	87828575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009118, intron 10 of 15)	intron (NM_009118, intron 10 of 15)	24795.0	NM_009118	20215.0	Mm.1276	NM_009118	ENSMUSG00000056055	Sag	A930001K18Rik|Arr1|Irbp|arrestin	S-antigen, retina and pineal gland (arrestin)	protein-coding	102.0	106.0	133.5	2028.5	172.0	54.0	74.5	96.5
Merged-chr16-94725034-4	chr16	94724936	94725136	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	113617.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	16.0	25.5	24.5	361.0	32.5	17.5	29.0	27.5
Merged-chr18-80455730-4	chr18	80455627	80455827	+	845.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 5 of 12)	intron (NM_026295, intron 5 of 12)	13940.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	8.0	9.0	1.0	132.0	52.0	11.0	14.0	12.0
Merged-chr11-6267833-4	chr11	6267748	6267948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026538)	promoter-TSS (NM_026538)	-119.0	NM_026538	52513.0	Mm.29810	NM_026538	ENSMUSG00000004393	Ddx56	2600001H07Rik|D11Ertd619e|Noh61	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	protein-coding	156.0	212.5	136.0	1720.0	314.5	117.5	123.5	118.5
Merged-chr3-127496758-1	chr3	127496658	127496858	+	844.0	f0_c57.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	2357.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	1.0	6.5	27.5	7.5	13.0	7.5
Merged-chr3-146120170-3	chr3	146120111	146120311	+	734.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1580.0	NM_134160	171166.0	Mm.114683	NM_134160	ENSMUSG00000036853	Mcoln3	6720490O21Rik|TRPML3|Va	mucolipin 3	protein-coding	8.0	10.5	11.0	166.5	14.0	5.0	1.5	2.0
Merged-chr17-32891347-3	chr17	32891246	32891446	+	938.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207245, intron 1 of 3)	intron (NM_207245, intron 1 of 3)	257.0	NM_207245	240066.0	Mm.26636	NM_207245	ENSMUSG00000095325	Zfp870	AI173952	zinc finger protein 870	protein-coding	15.5	13.0	10.5	162.5	15.5	9.5	12.0	11.0
Merged-chr4-88436803-4	chr4	88436655	88436855	+	908.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025760, intron 2 of 6)	intron (NM_025760, intron 2 of 6)	2171.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	1.0	6.5	16.5	203.0	29.0	6.0	15.0	13.0
Merged-chr1-58031377-3	chr1	58031297	58031497	+	730.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009676, intron 1 of 34)	intron (NM_009676, intron 1 of 34)	1428.0	NM_009676	11761.0	Mm.26787	NM_009676	ENSMUSG00000063558	Aox1	AI196512|AI255253|Ao|Aox-1|Aox-2|Aox2|Moro|Ro	aldehyde oxidase 1	protein-coding	7.5	9.0	6.5	72.0	18.0	7.0	4.0	7.5
Merged-chr7-118490758-4	chr7	118490651	118490851	+	884.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033380, exon 1 of 1)	exon (NM_001033380, exon 1 of 1)	1224.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	8.0	27.5	7.0	168.0	23.5	16.0	12.0	22.5
Merged-chr2-5035224-4	chr2	5035143	5035343	+	846.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 7 of 13)	intron (NM_001356487, intron 7 of 13)	-22452.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	16.0	15.5	11.0	115.5	50.5	17.5	8.5	17.5
Merged-chr17-44053615-4	chr17	44053543	44053743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25159.0	NM_001168620	83965.0	Mm.30145	NM_032003	ENSMUSG00000023960	Enpp5	AW061004|D17Abb1e|E-NPP 5	ectonucleotide pyrophosphatase/phosphodiesterase 5	protein-coding	100.0	142.5	158.5	1914.0	248.5	90.5	156.0	139.0
Merged-chr6-39726392-3	chr6	39726310	39726510	+	823.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139294)	promoter-TSS (NM_139294)	-947.0	NM_139294	109880.0	Mm.245513	NM_139294	ENSMUSG00000002413	Braf	9930012E13Rik|AA120551|AA387315|AA473386|B-raf|Braf-2|Braf2|C230098H17|C87398|D6Ertd631e	Braf transforming gene	protein-coding	6.0	14.5	4.5	106.0	37.0	7.5	7.5	7.5
Merged-chr11-86652874-4	chr11	86652781	86652981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 5 of 11)	intron (NM_001356531, intron 5 of 11)	18394.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	46.0	41.0	18.5	337.0	104.5	38.5	26.0	45.0
Merged-chr2-14187100-4	chr2	14186996	14187196	+	850.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 1 of 3)	MLT1C-int|LTR|ERVL-MaLR	12572.0	NM_001081310	625286.0	Mm.158781	NM_001081310	ENSMUSG00000061531	Tmem236	2010003H20Rik|Fam23a|Gm613	transmembrane protein 236	protein-coding	19.0	12.0	11.0	190.5	26.5	5.5	7.5	10.5
Merged-chr3-147070773-1	chr3	147070673	147070873	+	541.0	f1_c57bl6.idr	Intergenic	Intergenic	218406.0	NM_001302957	70892.0	Mm.187793	NM_027594	ENSMUSG00000036745	Ttll7	1110049N09Rik|4921517B04Rik|C630030B20|mTTLL7	tubulin tyrosine ligase-like family, member 7	protein-coding	10.0	19.0	9.5	72.0	19.0	6.0	7.5	5.5
Merged-chr5-24454113-2	chr5	24454013	24454213	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359881, intron 1 of 15)	intron (NM_001359881, intron 1 of 15)	1936.0	NM_139153	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	16.5	5.5	9.0	147.5	38.0	9.0	13.0	9.0
Merged-chr18-67768513-4	chr18	67768341	67768541	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6435.0	NM_001360934	72124.0	Mm.307315	NM_028112	ENSMUSG00000079614	Seh1l	2610007A16Rik|AW540070|SEC13L|SEH1A|SEH1B|Seh1	SEH1-like (S. cerevisiae	protein-coding	7.5	18.0	17.0	118.0	16.0	12.5	12.0	10.0
Merged-chr9-70740185-4	chr9	70740075	70740275	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007399, exon 5 of 16)	exon (NM_007399, exon 5 of 16)	61193.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	24.0	28.5	14.5	380.0	49.0	14.0	21.0	32.5
Merged-chr5-102498970-4	chr5	102498875	102499075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146161, intron 1 of 8)	intron (NM_146161, intron 1 of 8)	17584.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	45.0	68.0	82.5	911.0	159.0	41.5	86.5	66.5
Merged-chr17-67347328-7	chr17	67347234	67347434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	7125.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	101.5	137.5	116.5	1317.5	153.0	97.0	92.5	70.5
Merged-chr2-73386691-4	chr2	73386600	73386800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190297)	promoter-TSS (NM_001190297)	-220.0	NM_001276444	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	459.0	663.5	409.0	6396.0	1047.0	472.5	521.5	429.5
Merged-chr2-71644253-4	chr2	71644144	71644344	+	861.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	(CA)n|Simple_repeat|Simple_repeat	-75173.0	NR_037979	381371.0	Mm.330284	NM_201366	ENSMUSG00000064263	Platr26	Gm1631	pluripotency associated transcript 26	ncRNA	18.0	21.0	18.0	207.5	26.5	19.5	20.5	12.0
Merged-chr14-26530533-3	chr14	26530425	26530625	+	625.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 1 of 22)	intron (NM_001310445, intron 1 of 22)	4099.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	7.0	5.5	5.0	122.0	20.0	5.5	7.0	12.5
Merged-chr6-83102182-5	chr6	83102149	83102349	+	915.2999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081266, exon 1 of 9)	exon (NM_001081266, exon 1 of 9)	733.0	NM_001081266	243510.0	Mm.436553	NM_001081266	ENSMUSG00000107499	Ccdc142	A230058J24Rik	coiled-coil domain containing 142	protein-coding	13.0	10.5	8.5	45.5	19.5	3.0	9.5	13.0
Merged-chr4-28813816-3	chr4	28813743	28813943	+	898.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010141, intron 1 of 16)	CpG	698.0	NM_001122889	13841.0	Mm.257266	NM_010141	ENSMUSG00000028289	Epha7	Cek11|Ebk|Ehk3|Hek11|Mdk1	Eph receptor A7	protein-coding	7.5	5.5	15.5	121.0	15.5	8.5	9.0	26.0
Merged-chr7-45739547-4	chr7	45739416	45739616	+	856.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360784, intron 1 of 5)	intron (NM_001360784, intron 1 of 5)	2962.0	NM_001360784	54200.0	Mm.271634	NM_017465	ENSMUSG00000003271	Sult2b1	AI326997|BB173635|ST2B1|SULT2B	sulfotransferase family, cytosolic, 2B, member 1	protein-coding	5.0	15.0	5.0	124.5	38.5	8.5	16.0	9.5
Merged-chr4-138969300-4	chr4	138969177	138969377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025786)	TTS (NM_025786)	2165.0	NM_025786	66825.0	Mm.252312	NM_025786	ENSMUSG00000070661	Rnf186	9130020G10Rik	ring finger protein 186	protein-coding	87.0	123.5	77.0	711.0	117.0	38.5	43.0	39.5
Merged-chr6-125661718-1	chr6	125661618	125661818	+	616.0	f0_c57.idr	intron (NM_011708, intron 38 of 51)	intron (NM_011708, intron 38 of 51)	-28701.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	4.0	9.0	7.5	54.5	31.0	10.5	4.5	5.0
Merged-chr3-19894767-4	chr3	19894677	19894877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027985)	promoter-TSS (NR_027985)	-94.0	NR_027985	70808.0	Mm.427103	NR_027985	ENSMUSG00000048106	4632415L05Rik	AI662792	RRS1 ribosome biogenesis regulator homolog pseudogene	pseudo	74.5	97.5	84.0	1479.0	168.0	62.5	95.0	71.5
Merged-chr4-129032862-4	chr4	129032771	129032971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25400.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	88.5	195.0	71.0	638.5	234.0	106.0	94.5	73.5
Merged-chr19-5488431-4	chr19	5488341	5488541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153768)	promoter-TSS (NR_153768)	-62.0	NR_153769	71711.0	Mm.27697	NM_027877	ENSMUSG00000024906	Mus81	1200008A18Rik|AI182501|AW045863	MUS81 structure-specific endonuclease subunit	protein-coding	93.5	162.5	95.5	1046.0	288.5	121.0	98.5	122.0
Merged-chr11-80137001-3	chr11	80136891	80137091	+	976.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183275, exon 4 of 4)	exon (NM_183275, exon 4 of 4)	5162.0	NM_183275	68550.0	Mm.18466	NM_183275	ENSMUSG00000046909	Tefm	1110002N22Rik	transcription elongation factor, mitochondrial	protein-coding	10.5	17.5	18.0	246.0	17.0	4.5	8.0	13.5
Merged-chr9-37245718-4	chr9	37245597	37245797	+	931.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145960, intron 1 of 18)	intron (NM_001145960, intron 1 of 18)	10041.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	11.5	11.0	15.5	246.5	33.0	20.0	13.5	16.5
Merged-chr1-165154368-3	chr1	165154301	165154501	+	557.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032005, intron 1 of 7)	intron (NM_032005, intron 1 of 7)	6372.0	NM_032005	83993.0	Mm.190649	NM_032005	ENSMUSG00000026572	Tbx19	AU019250|D1Ertd754e|Tpit	T-box 19	protein-coding	8.0	5.5	6.0	113.5	17.0	4.5	7.0	7.0
Merged-chr7-141025632-4	chr7	141025526	141025726	+	890.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42|LTR|ERVK	-8734.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	15.0	26.0	7.0	175.5	27.5	7.5	8.5	32.0
Merged-chr5-125271712-4	chr5	125271619	125271819	+	889.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69375.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	8.5	15.0	3.5	134.0	37.5	8.5	16.0	14.0
Merged-chr14-55142112-4	chr14	55142026	55142226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-25191.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	46.0	27.0	26.5	426.0	82.5	24.5	37.0	56.5
Merged-chr3-40529091-4	chr3	40528984	40529184	+	909.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-6172.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	17.5	20.0	7.0	105.0	49.0	16.5	19.0	18.5
Merged-chr1-161877748-2	chr1	161877637	161877837	+	978.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1055.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	5.5	5.5	10.0	68.5	9.0	5.0	6.5	11.0
Merged-chr15-96712588-2	chr15	96712488	96712688	+	816.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-12860.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	5.0	4.0	5.0	27.5	18.5	7.5	8.5	9.0
Merged-chr5-140735499-4	chr5	140735388	140735588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	11361.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	186.5	289.0	152.5	3084.5	398.0	98.5	163.5	139.0
Merged-chr5-122697493-3	chr5	122697444	122697644	+	968.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10000.0	NM_001310720	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	12.5	27.0	17.0	260.0	14.5	8.5	5.0	4.5
Merged-chr14-47418267-4	chr14	47418141	47418341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144553, exon 1 of 19)	5' UTR (NM_144553, exon 1 of 19)	166.0	NM_144553	218977.0	Mm.240543	NM_144553	ENSMUSG00000037544	Dlgap5	C77459|C86398|Dap-5|Dlg7|Hurp|mKIAA0008	DLG associated protein 5	protein-coding	121.5	159.0	72.5	1111.5	238.0	106.0	111.5	59.0
Merged-chr4-99062203-4	chr4	99062098	99062298	+	717.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 11 of 47)	L1MB8|LINE|L1	31244.0	NM_013913	30924.0	Mm.28341	NM_013913	ENSMUSG00000028553	Angptl3	hypl	angiopoietin-like 3	protein-coding	6.0	11.0	12.5	74.0	24.0	11.0	8.5	11.0
Merged-chr16-58511629-4	chr16	58511426	58511626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	B1_Mus2|SINE|Alu	11900.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	43.0	35.5	35.5	256.5	77.0	41.5	40.5	33.0
Merged-chr3-92081224-7	chr3	92081029	92081229	+	896.719055	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008508, exon 2 of 2)	exon (NM_008508, exon 2 of 2)	2013.0	NM_008508	16939.0	Mm.1121	NM_008508	ENSMUSG00000043165	Lor	AI036317|S77319	loricrin	protein-coding	6.0	5.5	3.0	199.5	19.5	6.0	10.5	13.5
Merged-chr18-12168638-4	chr18	12168536	12168736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029623)	promoter-TSS (NM_029623)	-94.0	NM_029623	76482.0	Mm.196596	NM_029623	ENSMUSG00000024410	3110002H16Rik	2400010D15Rik|Mic-1|Mic1|Rmc1|Wdr98	RIKEN cDNA 3110002H16 gene	protein-coding	236.0	313.0	217.0	2638.5	525.5	186.5	194.5	173.5
Merged-chr2-84705620-4	chr2	84705529	84705729	+	962.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144887, intron 2 of 11)	intron (NM_144887, intron 2 of 11)	9535.0	NM_144887	228136.0	Mm.288508	NM_144887	ENSMUSG00000034075	Zdhhc5	1110032A17Rik|AI451382|Zisp	zinc finger, DHHC domain containing 5	protein-coding	15.5	26.0	19.5	370.0	41.0	20.0	10.0	15.0
Merged-chr3-89438855-3	chr3	89438740	89438940	+	707.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146131, intron 1 of 10)	intron (NM_146131, intron 1 of 10)	2136.0	NM_146131	229534.0	Mm.65906	NM_146131	ENSMUSG00000042613	Pbxip1	4732463H20Rik	pre B cell leukemia transcription factor interacting protein 1	protein-coding	6.0	10.5	4.5	95.0	11.5	0.5	3.5	4.0
Merged-chr19-42139966-3	chr19	42139882	42140082	+	750.972229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-7407.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	8.5	16.0	7.5	89.5	16.0	5.0	1.0	5.0
Merged-chr18-84720204-4	chr18	84720102	84720302	+	894.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173770)	promoter-TSS (NM_173770)	58.0	NM_173770	240479.0	Mm.472378	NM_173770	ENSMUSG00000047992	Fam69c	B230399E16Rik	family with sequence similarity 69, member C	protein-coding	16.0	19.0	11.0	257.5	22.5	8.5	22.0	12.5
Merged-chr19-53939551-4	chr19	53939446	53939646	+	846.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195348, intron 2 of 3)	intron (NM_001195348, intron 2 of 3)	-4760.0	NM_001168505	56392.0	Mm.228669	NM_019658	ENSMUSG00000024976	Shoc2	AU017287|Sur8|mKIAA0862	soc-2 (suppressor of clear) homolog (C. elegans)	protein-coding	8.0	8.0	10.5	94.0	49.5	7.0	12.0	14.5
Merged-chr2-105428208-3	chr2	105428143	105428343	+	728.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28924.0	NM_009037	19672.0	Mm.4876	NM_009037	ENSMUSG00000005973	Rcn1	Rcn	reticulocalbin 1	protein-coding	7.0	10.5	7.5	144.5	22.0	0.5	7.5	3.0
Merged-chr4-40970289-2	chr4	40970189	40970389	+	688.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290449)	promoter-TSS (NM_001290449)	-617.0	NM_001290449	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	2.0	0.5	7.0	30.5	5.5	4.5	7.5	4.5
Merged-chr2-84811068-4	chr2	84810971	84811171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_024230)	TTS (NM_024230)	11581.0	NM_024230	68678.0	Mm.33452	NM_024230	ENSMUSG00000027077	Smtnl1	1110030K22Rik|CHASM	smoothelin-like 1	protein-coding	57.5	93.5	69.5	949.5	214.0	69.5	57.0	52.0
Merged-chr5-98016984-4	chr5	98016902	98017102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133738, intron 3 of 16)	intron (NM_133738, intron 3 of 16)	13960.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	64.0	95.0	78.0	1109.0	146.0	48.0	65.5	70.5
Merged-chr1-75559719-3	chr1	75559616	75559816	+	767.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009208)	TTS (NM_009208)	13254.0	NM_001357150	20536.0	Mm.5053	NM_009208	ENSMUSG00000006576	Slc4a3	A930038D23Rik|Ae3	solute carrier family 4 (anion exchanger), member 3	protein-coding	12.0	10.0	3.0	52.5	14.0	9.5	5.0	6.0
Merged-chr5-140721008-3	chr5	140720910	140721110	+	841.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-3117.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	8.0	24.5	11.5	262.5	15.5	3.5	10.0	4.5
Merged-chr6-124445676-3	chr6	124445574	124445774	+	863.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346656, intron 12 of 17)	intron (NM_001346656, intron 12 of 17)	17070.0	NM_001346656	232370.0	Mm.193701	NM_153508	ENSMUSG00000008153	Clstn3	CSTN3|Cs3|Cst-3|alc-beta	calsyntenin 3	protein-coding	5.5	10.0	7.5	139.5	15.0	8.0	6.0	7.0
Merged-chr13-56593393-4	chr13	56593306	56593506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16180.0	NM_009369	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	28.5	39.0	25.0	548.0	93.5	24.0	50.5	58.0
Merged-chr16-11000633-3	chr16	11000527	11000727	+	935.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7506.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	16.5	10.5	26.0	119.0	9.0	5.5	4.5	13.0
Merged-chr1-143740163-4	chr1	143740092	143740292	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038594)	promoter-TSS (NM_001038594)	-255.0	NM_001038594	69367.0	Mm.272727	NM_023505	ENSMUSG00000018196	Glrx2	1700010P22Rik|AI645710|Grx2	glutaredoxin 2 (thioltransferase)	protein-coding	16.5	9.5	14.5	236.5	24.5	6.0	8.0	16.0
Merged-chr7-125553350-8	chr7	125553251	125553451	+	905.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	intron (NM_001008700, intron 1 of 10)	1069.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	8.5	16.0	4.0	143.0	34.0	19.5	24.0	6.5
Merged-chr9-50946536-2	chr9	50946440	50946640	+	662.25	f0_balb.idr|f0_c57.idr	intron (NM_178710, intron 3 of 15)	intron (NM_178710, intron 3 of 15)	62533.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	6.0	16.5	6.5	181.0	17.5	4.5	11.0	6.0
Merged-chr9-38804970-2	chr9	38804870	38805070	+	859.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16-int|LTR|ERVK	-10438.0	NM_146781	258777.0	Mm.223208	NM_146781	ENSMUSG00000043911	Olfr922	MOR161-3	olfactory receptor 922	protein-coding	6.5	5.0	7.5	46.0	27.0	6.0	5.5	6.5
Merged-chr12-100626795-4	chr12	100626683	100626883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 3 of 17)	L1M4b|LINE|L1	98337.0	NM_001330702	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	66.5	113.0	90.0	1584.0	165.5	60.0	75.5	64.0
Merged-chr5-64093501-3	chr5	64093437	64093637	+	964.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025700, intron 1 of 13)	intron (NM_025700, intron 1 of 13)	598.0	NM_001356964	66681.0	Mm.2325	NM_025700	ENSMUSG00000029171	Pgm1	3230402E02Rik|Pgm-1|Pgm2	phosphoglucomutase 1	protein-coding	11.5	8.0	8.0	185.0	6.0	6.5	11.5	15.5
Merged-chr4-57904477-3	chr4	57904377	57904577	+	689.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11787.0	NM_178727	242484.0	Mm.23214	NM_178727	ENSMUSG00000052117	D630039A03Rik	-	RIKEN cDNA D630039A03 gene	protein-coding	7.5	8.5	5.5	92.5	9.5	7.0	4.0	7.5
Merged-chr6-136683850-4	chr6	136683745	136683945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER74C|LTR|ERVL	-21952.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	97.0	94.0	90.0	1668.5	133.0	50.5	101.0	74.5
Merged-chr8-106953777-3	chr8	106953668	106953868	+	915.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	18018.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	12.5	37.0	22.5	321.5	8.5	9.5	6.0	19.0
Merged-chr2-133495648-4	chr2	133495551	133495751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56508.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	111.0	76.0	102.0	1606.0	141.0	39.5	118.5	66.0
Merged-chr16-90280645-4	chr16	90280508	90280708	+	733.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 1 of 19)	intron (NM_001346799, intron 1 of 19)	3878.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	6.0	11.0	6.0	64.5	19.0	5.5	10.5	6.0
Merged-chr1-52844910-4	chr1	52844795	52844995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146108)	promoter-TSS (NM_146108)	-143.0	NM_146108	227095.0	Mm.222063	NM_146108	ENSMUSG00000041426	Hibch	2610509I15Rik|HIBYL-COA-H	3-hydroxyisobutyryl-Coenzyme A hydrolase	protein-coding	424.0	531.0	474.5	6988.5	1022.5	414.0	625.5	376.0
Merged-chr12-112146504-4	chr12	112146441	112146641	+	843.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001097621, intron 1 of 15)	CpG-3550	333.0	NM_001097621	668303.0	Mm.313104	NM_001097621	ENSMUSG00000021294	Kif26a	mKIAA1236	kinesin family member 26A	protein-coding	11.5	13.5	13.0	107.0	32.5	9.0	5.0	11.0
Merged-chr4-89486102-4	chr4	89486010	89486210	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 7 of 9)	intron (NR_132431, intron 7 of 9)	-175078.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	15.5	41.5	36.5	821.0	39.0	11.5	21.5	24.5
Merged-chr1-161295743-3	chr1	161295616	161295816	+	903.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44506.0	NM_001303408	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	4.5	23.0	6.0	102.5	12.5	6.5	4.0	3.0
Merged-chr1-151572048-4	chr1	151571952	151572152	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	679.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	24.5	81.5	26.5	227.5	85.0	40.0	19.0	10.0
Merged-chr7-122258687-4	chr7	122258579	122258779	+	984.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30446.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	19.5	30.5	25.5	481.0	54.5	28.0	14.0	32.5
Merged-chr9-44318540-4	chr9	44318488	44318688	+	784.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359259, intron 1 of 13)	intron (NM_001359259, intron 1 of 13)	1694.0	NM_001359259	71764.0	Mm.491174	NM_027909	ENSMUSG00000032120	C2cd2l	1300006O23Rik|Tmem24	C2 calcium-dependent domain containing 2-like	protein-coding	7.5	15.0	7.5	118.0	28.0	7.0	6.5	7.0
Merged-chr17-50490869-4	chr17	50490770	50490970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18677.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	32.0	49.5	35.0	640.5	83.5	25.5	41.0	43.0
Merged-chr3-137971177-2	chr3	137971077	137971277	+	637.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 1 of 8)	intron (NM_011932, intron 1 of 8)	10372.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	7.5	11.5	5.5	17.0	9.0	2.5	4.0	4.5
Merged-chr3-65930471-3	chr3	65930379	65930579	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27770.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	13.5	26.5	12.0	151.0	38.0	21.5	11.0	22.0
Merged-chr5-130003001-4	chr5	130002904	130003104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010368)	promoter-TSS (NM_010368)	45.0	NM_010368	110006.0	Mm.3317	NM_010368	ENSMUSG00000025534	Gusb	AI747421|Gur|Gus|Gus-r|Gus-s|Gus-t|Gus-u|Gut|asd|g	glucuronidase, beta	protein-coding	220.0	380.0	214.0	4132.5	492.0	188.5	258.0	213.5
Merged-chr8-105553048-4	chr8	105552952	105553152	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013477, intron 1 of 7)	intron (NM_013477, intron 1 of 7)	13012.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	24.5	22.0	29.0	130.0	23.0	4.0	18.0	9.0
Merged-chr11-20151494-4	chr11	20151406	20151606	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1-int|LTR|ERVL-MaLR	-38555.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	17.0	21.0	5.0	170.5	45.0	10.5	13.5	24.0
Merged-chr10-10457210-4	chr10	10457111	10457311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	15103.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	187.0	312.0	273.5	3411.0	585.0	204.5	277.0	233.0
Merged-chr5-137533197-4	chr5	137533084	137533284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010312, exon 1 of 10)	5' UTR (NM_010312, exon 1 of 10)	122.0	NM_010312	14693.0	Mm.30141	NM_010312	ENSMUSG00000029713	Gnb2	Gnb-2	guanine nucleotide binding protein (G protein), beta 2	protein-coding	33.0	44.0	34.0	324.5	82.0	42.5	27.5	32.5
Merged-chr1-56089691-3	chr1	56089589	56089789	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70711.0	NR_126076	69356.0	Mm.393775	NR_126075	ENSMUSG00000100372	1700003I22Rik	-	RIKEN cDNA 1700003I22 gene	ncRNA	35.0	53.5	58.0	919.5	3.0	3.0	3.0	3.0
Merged-chr1-150167371-4	chr1	150167274	150167474	+	893.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-2426.0	NR_110420	102639566.0	Mm.417208	NR_110420	ENSMUSG00000097754	Ptgs2os2	Gm26687|Linc-cox2|Lincrna-cox2	prostaglandin-endoperoxide synthase 2, opposite strand 2	ncRNA	6.0	14.5	21.0	183.0	32.5	13.5	12.0	16.5
Merged-chr8-14893555-3	chr8	14893464	14893664	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	5028.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	12.0	8.0	12.5	114.5	6.0	5.5	11.0	7.0
Merged-chr2-32982888-4	chr2	32982753	32982953	+	833.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019488)	promoter-TSS (NM_019488)	-770.0	NR_151460	56017.0	Mm.305754	NM_019488	ENSMUSG00000026791	Slc2a8	D2Ertd44e|GLUT8|GlutX1	solute carrier family 2, (facilitated glucose transporter), member 8	protein-coding	10.0	15.5	9.5	158.5	26.5	4.0	12.5	12.0
Merged-chr7-27258699-4	chr7	27258568	27258768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010950)	promoter-TSS (NM_010950)	-93.0	NM_010950	18223.0	Mm.458153	NM_010950	ENSMUSG00000063160	Numbl	nbl	numb-like	protein-coding	93.5	150.0	80.0	1239.5	258.0	107.5	103.0	76.5
Merged-chr11-97029928-4	chr11	97029846	97030046	+	987.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146027)	promoter-TSS (NM_146027)	-6.0	NM_146027	217140.0	Mm.46189	NM_146027	ENSMUSG00000020877	Scrn2	AV001119|D11Moh48|SES2	secernin 2	protein-coding	19.0	32.0	17.0	202.0	45.0	18.5	22.0	17.0
Merged-chr5-66079915-4	chr5	66079805	66080005	+	891.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	18274.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	18.0	15.0	9.5	137.0	49.0	11.5	32.0	15.0
Merged-chr13-119809730-4	chr13	119809649	119809849	+	965.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18627.0	NM_001302550	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	29.0	22.5	7.5	370.0	62.5	15.5	26.0	24.5
Merged-chr10-13501138-4	chr10	13501041	13501241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330198, exon 1 of 8)	5' UTR (NM_001330198, exon 1 of 8)	113.0	NM_025799	66848.0	Mm.26625	NM_025799	ENSMUSG00000019810	Fuca2	0610025O11Rik|5530401P20Rik	fucosidase, alpha-L- 2, plasma	protein-coding	162.0	244.0	130.5	1978.0	446.5	148.0	202.0	134.0
Merged-chr3-59213764-3	chr3	59213638	59213838	+	895.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	-2856.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	7.0	25.5	7.0	68.5	27.0	8.0	4.5	7.0
Merged-chr12-54985198-4	chr12	54985095	54985295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013815, intron 2 of 26)	CpG	1141.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	38.0	93.5	98.0	503.5	121.0	65.5	45.5	53.5
Merged-chr18-34416080-4	chr18	34415980	34416180	+	924.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016927, intron 4 of 14)	intron (NM_016927, intron 4 of 14)	6657.0	NM_016927	53871.0	Mm.445792	NM_016927	ENSMUSG00000014503	Pkd2l2	TRPP5	polycystic kidney disease 2-like 2	protein-coding	23.5	35.5	8.0	178.5	54.5	17.5	16.5	13.0
Merged-chr6-99784991-4	chr6	99784874	99785074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-58582.0	NM_001037539	50501.0	Mm.87365	NM_015768	ENSMUSG00000030069	Prok2	Bv8|PK2|Prok1	prokineticin 2	protein-coding	28.5	64.5	32.0	317.0	72.0	23.5	25.0	30.5
Merged-chr9-57652558-4	chr9	57652449	57652649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 1 of 14)	intron (NM_001304761, intron 1 of 14)	1082.0	NM_001304761	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	95.5	123.0	135.5	2071.0	244.0	63.0	117.5	144.5
Merged-chr1-16671279-4	chr1	16671193	16671393	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027415, intron 2 of 2)	B2_Mm2|SINE|B2	6102.0	NM_026392	70397.0	Mm.194225	NM_026392	ENSMUSG00000025940	Tmem70	1110020A09Rik|2210416J16Rik	transmembrane protein 70	protein-coding	15.0	23.0	6.5	286.5	115.5	27.0	25.5	20.5
Merged-chr12-117379268-3	chr12	117379092	117379292	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42180.0	NR_044987	432713.0	Mm.459210	NR_044987	ENSMUSG00000101930	Gm5441	-	predicted gene 5441	ncRNA	10.0	14.0	11.5	297.0	11.0	2.0	3.0	3.5
Merged-chr5-67830739-2	chr5	67830639	67830839	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	AT_rich|Low_complexity|Low_complexity	16692.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	3.0	4.0	3.0	98.0	26.0	6.0	5.0	7.0
Merged-chr2-35201114-4	chr2	35201011	35201211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026697)	promoter-TSS (NM_026697)	9.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	164.5	268.0	121.0	2538.0	492.0	160.5	204.0	144.0
Merged-chr7-64400945-4	chr7	64400841	64401041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028626, intron 2 of 2)	intron (NM_028626, intron 2 of 2)	8319.0	NM_001355124	73724.0	Mm.10093	NM_028626	ENSMUSG00000033429	Mcee	1110007A04Rik	methylmalonyl CoA epimerase	protein-coding	22.5	66.5	62.0	1139.5	51.0	22.5	22.5	46.0
Merged-chr5-115003455-3	chr5	115003385	115003585	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8039.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	29.5	44.5	11.5	348.5	27.5	17.0	3.5	6.5
Merged-chr17-81750269-4	chr17	81750157	81750357	+	854.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11870.0	NM_011406	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	11.0	7.0	4.0	124.0	11.0	14.0	17.0	19.0
Merged-chr5-143818182-1	chr5	143818082	143818282	+	1000.0	f0_balb.idr	Intergenic	CpG	-53680.0	NM_013557	15467.0	Mm.389709	NM_013557	ENSMUSG00000029613	Eif2ak1	HCR|Hri	eukaryotic translation initiation factor 2 alpha kinase 1	protein-coding	24.5	11.5	21.5	210.0	17.0	14.0	5.0	13.5
Merged-chr6-83906845-4	chr6	83906745	83906945	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-7508.0	NM_001166371	18139.0	Mm.132392	NM_008717	ENSMUSG00000030016	Zfp638	AI323587|Np220|Zfml|Znf638|mNP220	zinc finger protein 638	protein-coding	18.0	43.5	17.5	264.0	48.0	24.5	26.0	33.0
Merged-chr3-84039400-4	chr3	84039318	84039518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172681, intron 1 of 34)	CpG	743.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	38.5	52.5	31.0	433.0	115.0	24.0	44.0	37.0
Merged-chr11-31671937-4	chr11	31671832	31672032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024919)	promoter-TSS (NM_001024919)	-70.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	121.5	180.5	93.5	1853.5	306.0	94.0	152.0	92.5
Merged-chr2-155787111-3	chr2	155787032	155787232	+	561.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010808, intron 1 of 8)	MTD|LTR|ERVL-MaLR	11790.0	NM_010808	17391.0	Mm.389325	NM_010808	ENSMUSG00000027612	Mmp24	AU040325|MMP-21|MT5-MMP|MT5MMP|MTMMP5	matrix metallopeptidase 24	protein-coding	5.0	13.5	11.0	71.0	23.5	4.5	7.5	3.5
Merged-chr16-87654395-4	chr16	87654310	87654510	+	965.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44544.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	32.5	30.0	25.0	398.5	71.0	17.0	13.5	19.5
Merged-chr6-40580491-1	chr6	40580391	40580591	+	615.333313	f0_balb.idr	intron (NM_001038604, intron 5 of 6)	B4A|SINE|B4	5314.0	NM_021364	23845.0	Mm.103765	NM_021364	ENSMUSG00000029915	Clec5a	Clecsf5|Ly100|MDL-1|Mdl1	C-type lectin domain family 5, member a	protein-coding	13.0	14.0	16.0	80.0	45.0	7.0	8.0	1.5
Merged-chr5-24652235-4	chr5	24652151	24652351	+	719.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6798.0	NR_003953	72252.0	Mm.87446	NR_003953	ENSMUSG00000038165	1700022A21Rik	-	glycerol-3-phosphate dehydrogenase 1-like pseudogene	pseudo	11.5	14.5	7.5	231.0	26.0	7.5	21.0	20.0
Merged-chr17-43568959-2	chr17	43568854	43569054	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	503.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	19.0	20.5	21.5	150.5	16.0	10.5	6.5	7.0
Merged-chr7-43564776-4	chr7	43564663	43564863	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001008549, exon 2 of 5)	5' UTR (NM_001008549, exon 2 of 5)	2393.0	NM_001008549	210104.0	Mm.333821	NM_001008549	ENSMUSG00000056592	Zfp658	-	zinc finger protein 658	protein-coding	38.5	54.5	46.5	315.5	75.5	17.5	26.0	36.5
Merged-chr19-41402768-4	chr19	41402665	41402865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17695.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	123.5	163.5	104.5	1400.0	217.5	76.5	98.0	67.5
Merged-chr6-136989985-2	chr6	136989882	136990082	+	644.375	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	35459.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	14.0	11.0	10.5	110.5	20.5	14.0	12.5	6.0
Merged-chr4-155179230-4	chr4	155179152	155179352	+	692.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	43283.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	6.0	4.5	6.0	91.0	25.0	6.5	11.0	14.5
Merged-chr13-112769966-1	chr13	112769866	112770066	+	688.5	f0_balb.idr	Intergenic	ID_B1|SINE|B4	-30811.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	6.0	4.5	6.0	113.0	3.5	4.0	0.0	0.0
Merged-chr9-66646481-3	chr9	66646376	66646576	+	736.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53361.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	8.0	20.0	1.0	81.5	23.5	6.0	9.5	4.5
Merged-chr12-13249125-4	chr12	13248979	13249179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134040)	promoter-TSS (NM_134040)	95.0	NM_134040	104721.0	Mm.251255	NM_134040	ENSMUSG00000037149	Ddx1	AA409185|DBP-RB	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	protein-coding	32.0	27.0	41.5	237.5	45.0	12.0	23.5	20.0
Merged-chr2-117439309-4	chr2	117439203	117439403	+	872.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96426.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	8.0	21.0	7.0	172.0	25.5	10.5	15.5	9.0
Merged-chr2-172401245-4	chr2	172401109	172401309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 1 of 6)	intron (NM_001080820, intron 1 of 6)	7415.0	NM_001276423	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	235.0	312.0	241.5	2959.0	680.5	234.5	305.5	249.5
Merged-chr5-135013315-3	chr5	135013218	135013418	+	968.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_026688)	promoter-TSS (NR_026688)	-161.0	NR_026688	69812.0	Mm.18422	NR_026688	ENSMUSG00000085042	Abhd11os	2010001M06Rik|AI462243|Wbscr26|Wnscr26	abhydrolase domain containing 11, opposite strand	ncRNA	17.5	13.5	7.5	189.0	28.0	19.5	10.0	8.5
Merged-chr18-31804107-4	chr18	31804025	31804225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170966)	promoter-TSS (NM_001170966)	68.0	NM_001170966	74320.0	Mm.277705	NM_028866	ENSMUSG00000024400	Wdr33	1110001N06Rik|2310011G05Rik|2810021O11Rik|8430413N20Rik|WDC146	WD repeat domain 33	protein-coding	63.5	68.0	69.0	838.5	111.0	47.5	68.0	47.5
Merged-chr16-11343507-4	chr16	11343396	11343596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 1 of 20)	MIR3|SINE|MIR	20592.0	NM_028964	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	116.0	197.5	117.0	1861.0	303.0	103.5	150.5	117.5
Merged-chr18-24709881-2	chr18	24709781	24709981	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289654, intron 1 of 24)	CpG	1258.0	NM_001289655	225288.0	Mm.329322	NM_175276	ENSMUSG00000034295	Fhod3	A930009H06Rik|FHOS2|mKIAA1695	formin homology 2 domain containing 3	protein-coding	7.0	5.5	9.5	63.5	10.5	3.5	6.0	6.5
Merged-chr11-22666153-4	chr11	22666022	22666222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153839.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	203.5	299.0	206.0	2345.0	524.5	204.5	226.0	162.0
Merged-chr13-55593150-4	chr13	55593037	55593237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026211)	promoter-TSS (NM_026211)	2.0	NM_026211	67511.0	Mm.45233	NM_026211	ENSMUSG00000058569	Tmed9	2400003B06Rik	transmembrane p24 trafficking protein 9	protein-coding	68.5	98.5	45.0	996.0	180.5	73.0	100.0	69.5
Merged-chr3-31342754-4	chr3	31342656	31342856	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32437.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	40.0	41.0	29.5	425.5	54.5	18.5	24.0	16.0
Merged-chr1-45903527-2	chr1	45903427	45903627	+	880.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	22067.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	5.5	6.0	14.0	35.5	10.0	6.0	2.5	5.0
Merged-chr16-56062232-4	chr16	56062109	56062309	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360073, intron 1 of 24)	intron (NM_001360073, intron 1 of 24)	4679.0	NM_001360073	66315.0	Mm.255784	NM_025483	ENSMUSG00000052917	Senp7	2410152H17Rik|2810413I22Rik|2900036C23Rik|6030449K19Rik|AI790676	SUMO1/sentrin specific peptidase 7	protein-coding	10.0	13.5	14.5	213.0	19.0	5.5	13.5	10.5
Merged-chr5-137748720-6	chr5	137748677	137748877	+	872.013916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023910, intron 2 of 4)	intron (NM_023910, intron 2 of 4)	2808.0	NM_029805	78829.0	Mm.286399	NM_023910	ENSMUSG00000029723	Tsc22d4	0610009M14Rik|1700023B23Rik|AI415410|Thg-1pit|Tilz2	TSC22 domain family, member 4	protein-coding	8.5	7.0	9.0	110.5	16.0	8.0	4.0	2.5
Merged-chr19-5945188-4	chr19	5945071	5945271	+	860.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 13 of 17)	intron (NM_001164057, intron 13 of 17)	19035.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	38.0	52.5	34.5	462.0	21.5	9.5	8.5	7.5
Merged-chr8-124219311-4	chr8	124219221	124219421	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4|LINE|L1	-12073.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	29.0	36.5	49.5	426.0	29.0	15.5	38.5	29.5
Merged-chr11-75154357-4	chr11	75154272	75154472	+	992.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 15 of 18)	intron (NM_001002764, intron 15 of 18)	13780.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	26.5	42.0	29.0	462.5	57.0	23.5	17.0	23.5
Merged-chr14-118922914-3	chr14	118922849	118923049	+	789.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360413)	promoter-TSS (NM_001360413)	-158.0	NM_001360413	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	5.0	5.0	11.5	91.5	8.5	5.0	6.5	5.0
Merged-chr17-25476137-3	chr17	25476048	25476248	+	887.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027951, intron 5 of 5)	intron (NM_027951, intron 5 of 5)	4558.0	NM_027951	71840.0	Mm.282330	NM_027951	ENSMUSG00000024175	Tekt4	1700010L19Rik	tektin 4	protein-coding	4.5	19.0	16.5	116.5	32.5	4.5	6.5	5.5
Merged-chr6-83708299-4	chr6	83708203	83708403	+	837.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_075094, intron 1 of 2)	intron (NR_075094, intron 1 of 2)	2522.0	NR_075094	574519.0	Mm.487605	NR_002871	ENSMUSG00000085794	Vax2os	Vas2os|Vax2os1|Vax2os2	ventral anterior homeobox 2, opposite strand	ncRNA	6.5	13.5	11.5	101.0	24.0	2.5	12.0	14.5
Merged-chr10-122562682-4	chr10	122562573	122562773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7218.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	50.5	79.5	74.0	1157.0	156.5	49.5	79.5	74.0
Merged-chr10-80576531-4	chr10	80576436	80576636	+	988.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_078477, intron 1 of 1)	C-rich|Low_complexity|Low_complexity	760.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	18.0	22.0	19.5	176.0	56.5	31.0	15.0	25.0
Merged-chr10-37140421-5	chr10	37140250	37140450	+	900.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1424.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	2.5	9.0	3.5	102.0	31.0	6.5	6.5	5.5
Merged-chr6-125001351-4	chr6	125001258	125001458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145926, intron 4 of 5)	intron (NM_001145926, intron 4 of 5)	2748.0	NM_001145926	319352.0	Mm.295327	NM_175696	ENSMUSG00000030329	Pianp	AI255183|AU067746|C530028O21Rik|Panp	PILR alpha associated neural protein	protein-coding	32.5	58.5	30.5	623.5	93.0	24.5	42.0	50.0
Merged-chr4-12171640-6	chr4	12171561	12171761	+	888.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310743, intron 1 of 7)	CpG	354.0	NM_001310743	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	7.5	9.5	20.0	152.0	15.0	4.5	5.5	13.5
Merged-chr4-123919029-2	chr4	123918929	123919129	+	764.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_017475, intron 1 of 6)	ID_B1|SINE|B4	1596.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	7.5	6.0	8.5	50.5	13.0	1.5	2.5	2.5
Merged-chr15-25622396-4	chr15	25622283	25622483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019472)	promoter-TSS (NM_019472)	-167.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	336.5	638.5	333.0	5174.0	1006.0	371.0	445.0	332.5
Merged-chr17-17648943-4	chr17	17648825	17649025	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24436.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	3.0	7.5	20.0	160.0	13.5	6.5	11.5	12.5
Merged-chr7-89215925-4	chr7	89215837	89216037	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 5 of 14)	MTC|LTR|ERVL-MaLR	122850.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	18.5	27.0	29.5	392.5	49.5	11.5	21.5	21.0
Merged-chr11-119355923-2	chr11	119355835	119356035	+	943.0	f0_c57.idr|f1_balb.idr	promoter-TSS (NM_018822)	promoter-TSS (NM_018822)	378.0	NM_178743	268512.0	Mm.31869	NM_178743	ENSMUSG00000039908	Slc26a11	F630021I08Rik	solute carrier family 26, member 11	protein-coding	6.0	9.5	5.0	123.0	25.0	2.0	10.0	17.0
Merged-chr3-138026487-4	chr3	138026375	138026575	+	946.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40913.0	NR_037975	329763.0	Mm.169710	NM_177860	ENSMUSG00000049349	Gm5105	D830013H12|EG329763	predicted gene 5105	ncRNA	21.5	24.5	25.5	639.5	31.5	10.5	18.5	18.5
Merged-chr5-37971903-3	chr5	37971806	37972006	+	745.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-67324.0	NM_001289536	71116.0	Mm.18959	NM_026959	ENSMUSG00000029125	Stx18	1810035L21Rik|4933425D03Rik|AU041562	syntaxin 18	protein-coding	10.0	16.5	11.0	112.0	3.0	2.5	7.5	4.0
Merged-chr8-126598478-4	chr8	126598374	126598574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5038.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	42.5	40.0	35.0	706.5	88.5	36.0	61.0	70.0
Merged-chr18-73572472-4	chr18	73572375	73572575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039214)	promoter-TSS (NM_001039214)	-230.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	394.0	590.5	418.0	5876.5	1053.0	490.5	597.5	486.0
Merged-chr17-56883871-4	chr17	56883771	56883971	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030141, intron 10 of 13)	intron (NM_030141, intron 10 of 13)	8238.0	NM_030141	78625.0	Mm.160106	NM_030141	ENSMUSG00000024209	1700061G19Rik	1700026H02|AI507598	RIKEN cDNA 1700061G19 gene	protein-coding	12.5	31.0	19.5	163.5	42.0	12.0	21.5	26.5
Merged-chr11-57791326-4	chr11	57791229	57791429	+	762.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10138.0	NR_131042	76516.0	Mm.28485	NR_131042	ENSMUSG00000087165	2010001A14Rik	-	RIKEN cDNA 2010001A14 gene	ncRNA	11.5	13.0	9.0	109.5	10.0	6.0	11.0	10.5
Merged-chr9-87022648-3	chr9	87022553	87022753	+	865.93335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359962, intron 1 of 14)	intron (NM_001359962, intron 1 of 14)	624.0	NM_001359962	266690.0	Mm.30166	NM_024195	ENSMUSG00000032872	Cyb5r4	2810034J18Rik|B5+B5R|C79736|Cb5cb5r|Ncb5or|b5/b5r|b5b5r	cytochrome b5 reductase 4	protein-coding	9.5	11.0	6.0	74.5	29.5	9.5	10.0	15.5
Merged-chr16-91834245-4	chr16	91834170	91834370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 16 of 28)	URR1B|DNA|hAT-Charlie	97360.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	27.5	48.0	49.0	386.0	103.5	29.0	44.0	30.5
Merged-chr8-117209321-4	chr8	117209218	117209418	+	988.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47701.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	18.5	20.5	18.5	325.0	66.5	29.5	31.5	19.0
Merged-chr1-153749335-4	chr1	153749230	153749430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011882)	promoter-TSS (NM_011882)	-96.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	106.0	180.0	113.5	1775.0	262.0	75.5	114.0	86.0
Merged-chr16-33906377-3	chr16	33906292	33906492	+	952.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 8 of 14)	intron (NM_001145884, intron 8 of 14)	60646.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	8.5	6.0	12.0	383.5	15.0	3.0	8.0	6.5
Merged-chr4-134922434-4	chr4	134922371	134922571	+	922.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1154.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	10.5	15.5	11.0	112.5	34.0	5.5	8.5	20.5
Merged-chr10-39499291-3	chr10	39499192	39499392	+	904.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 3 of 13)	intron (NM_001122893, intron 3 of 13)	-113642.0	NM_134000	103213.0	Mm.436686	NM_134000	ENSMUSG00000019842	Traf3ip2	AI429613|Act1|CIKS	TRAF3 interacting protein 2	protein-coding	7.0	13.0	8.5	196.0	16.0	3.5	4.5	11.0
Merged-chr15-66807375-4	chr15	66807276	66807476	+	707.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029841, intron 1 of 7)	Tigger16a|DNA|TcMar-Tigger	24453.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	9.0	10.0	9.0	135.5	29.5	7.5	7.5	6.5
Merged-chr16-8667477-4	chr16	8667370	8667570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025821, intron 1 of 3)	intron (NM_025821, intron 1 of 3)	4683.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	61.5	108.5	62.0	999.0	135.0	75.5	88.0	64.0
Merged-chr1-9631182-4	chr1	9631090	9631290	+	967.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015470)	promoter-TSS (NR_015470)	-98.0	NR_015470	72481.0	Mm.279818	NR_015470	ENSMUSG00000079671	2610203C22Rik	2310007M24Rik	RIKEN cDNA 2610203C22 gene	ncRNA	18.5	24.5	16.5	374.5	62.5	23.5	25.5	24.0
Merged-chr9-77825881-4	chr9	77825759	77825959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71324.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	23.5	33.0	26.0	633.0	49.0	16.5	28.0	33.5
Merged-chr18-63694064-4	chr18	63693939	63694139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44E|LTR|ERVK	-1680.0	NM_016792	53382.0	Mm.19169	NM_016792	ENSMUSG00000024583	Txnl1	32kDa|TRP32|Txnl	thioredoxin-like 1	protein-coding	48.5	91.0	65.5	375.0	85.5	28.5	28.0	40.0
Merged-chr2-57238360-4	chr2	57238266	57238466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010274)	promoter-TSS (NM_010274)	-16.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	162.5	178.5	159.5	2923.5	447.0	146.0	245.5	178.0
Merged-chr5-99327252-4	chr5	99327135	99327335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-74308.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	165.5	267.5	180.5	2655.0	384.0	136.0	175.0	154.0
Merged-chr7-39518684-4	chr7	39518576	39518776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004139, intron 1 of 3)	ID_B1|SINE|B4	910.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	23.0	27.5	23.0	319.0	104.0	29.0	43.0	27.5
Merged-chr5-143652035-4	chr5	143651966	143652166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163548, intron 1 of 12)	MLT1N2|LTR|ERVL-MaLR	825.0	NM_001163548	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	35.5	31.0	37.0	406.5	75.0	21.0	20.0	22.0
Merged-chr17-67384786-4	chr17	67384685	67384885	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-30294.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	18.5	71.0	38.0	393.5	68.0	35.5	26.0	16.0
Merged-chr3-16006442-4	chr3	16006352	16006552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081687)	promoter-TSS (NM_001081687)	-120.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	140.5	156.5	141.0	2397.0	225.5	52.0	97.0	99.5
Merged-chr15-82138772-4	chr15	82138669	82138869	+	843.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_137170, intron 5 of 5)	intron (NR_137170, intron 5 of 5)	-8500.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	7.0	17.5	3.5	135.5	25.5	14.0	12.5	19.5
Merged-chr10-8945299-3	chr10	8945197	8945397	+	838.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59227.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	3.5	14.0	3.5	165.5	16.0	7.5	7.0	12.5
Merged-chr10-41451018-2	chr10	41450918	41451118	+	924.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NR_102360, intron 1 of 6)	intron (NR_102360, intron 1 of 6)	660.0	NR_102360	268294.0	Mm.258475	NM_153398	ENSMUSG00000019826	Zbtb24	BC055367|Bif1|Bsg1|ZNF450	zinc finger and BTB domain containing 24	protein-coding	2.0	7.0	9.0	55.5	8.5	6.0	6.5	6.5
Merged-chr11-116843540-4	chr11	116843457	116843657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033398)	promoter-TSS (NM_033398)	42.0	NM_028865	74319.0	Mm.429312	NM_028865	ENSMUSG00000090266	Mettl23	1110005A03Rik|1500035B17Rik|4933424L15Rik	methyltransferase like 23	protein-coding	240.5	385.0	268.0	2944.5	577.5	265.5	218.5	199.5
Merged-chr11-4195807-4	chr11	4195710	4195910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	intron (NM_134023, intron 1 of 8)	8977.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	317.5	537.5	283.0	4256.5	748.5	264.5	343.5	285.0
Merged-chr15-90310509-4	chr15	90310408	90310608	+	985.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-43202.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	42.5	43.0	22.0	651.5	54.0	17.5	21.5	13.0
Merged-chr3-108134861-4	chr3	108134735	108134935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010306, intron 1 of 8)	intron (NM_010306, intron 1 of 8)	11317.0	NM_010306	14679.0	Mm.271703	NM_010306	ENSMUSG00000000001	Gnai3	AI158965|AW537698|Galphai3|Gnai-3	guanine nucleotide binding protein (G protein), alpha inhibiting 3	protein-coding	37.5	75.0	46.0	879.5	126.0	24.0	47.5	50.0
Merged-chr12-40381381-4	chr12	40381285	40381485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178845, intron 1 of 11)	intron (NM_178845, intron 1 of 11)	64405.0	NM_172575	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	42.5	98.0	43.0	324.0	127.5	47.5	33.5	27.5
Merged-chr1-118321799-4	chr1	118321731	118321931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026472)	promoter-TSS (NM_026472)	-12.0	NM_026472	67949.0	Mm.280311	NM_026472	ENSMUSG00000026377	Nifk	AI852665|C130020J04Rik|Mki67ip	nucleolar protein interacting with the FHA domain of MKI67	protein-coding	109.0	145.0	68.5	1823.0	198.5	85.5	95.5	75.5
Merged-chr5-28269896-4	chr5	28269801	28270001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-24113.0	NM_001310512	269637.0	Mm.68286	NM_175651	ENSMUSG00000044681	Cnpy1	1500012D20Rik|9630008K15Rik|AI853839	canopy FGF signaling regulator 1	protein-coding	39.5	70.5	57.5	945.5	75.0	41.0	39.5	50.5
Merged-chr2-79087397-4	chr2	79087266	79087466	+	935.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168060.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	16.5	23.5	14.0	203.0	21.0	13.0	18.5	22.5
Merged-chr12-87407069-4	chr12	87406970	87407170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-18715.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	36.0	116.0	69.0	746.0	151.5	53.5	59.0	52.0
Merged-chr19-47169159-4	chr19	47169069	47169269	+	877.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-9651.0	NM_021360	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	8.5	27.5	9.5	64.5	34.0	11.0	4.0	12.0
Merged-chr11-3288687-3	chr11	3288620	3288820	+	694.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045109)	promoter-TSS (NR_045109)	-411.0	NR_045108	56218.0	Mm.275563	NM_019574	ENSMUSG00000020453	Patz1	8430401L15Rik|AI447519|Mazr|Patz|Zfp278	POZ (BTB) and AT hook containing zinc finger 1	protein-coding	11.5	20.0	4.5	75.5	15.0	6.0	3.5	9.5
Merged-chr17-37246868-4	chr17	37246761	37246961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14493.0	NM_146512	258505.0	Mm.353371	NM_146512	ENSMUSG00000058802	Olfr97	MOR156-2	olfactory receptor 97	protein-coding	46.0	54.5	18.0	397.0	154.5	40.0	57.5	54.0
Merged-chr7-143041290-3	chr7	143041201	143041401	+	908.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 2 of 4)	intron (NR_110355, intron 2 of 4)	-11449.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	3.5	12.0	9.5	38.5	45.5	10.5	16.5	9.5
Merged-chr6-146209556-2	chr6	146209456	146209656	+	856.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 45 of 56)	intron (NM_019923, intron 45 of 56)	275434.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	7.0	7.0	10.5	204.0	12.5	3.5	3.0	5.0
Merged-chr7-45136467-4	chr7	45136365	45136565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013520)	promoter-TSS (NM_013520)	-33.0	NR_102725	14256.0	Mm.1658	NM_013520	ENSMUSG00000110206	Flt3l	Flt3lg|Ly72L	FMS-like tyrosine kinase 3 ligand	protein-coding	36.0	43.0	50.0	528.0	131.5	39.5	54.5	48.0
Merged-chr8-105259949-4	chr8	105259854	105260054	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033161, exon 3 of 5)	exon (NM_001033161, exon 3 of 5)	4640.0	NM_001033161	71609.0	Mm.264255	NM_001033161	ENSMUSG00000031887	Tradd	9130005N23Rik|AA930854	TNFRSF1A-associated via death domain	protein-coding	22.0	23.0	19.5	208.5	36.0	11.5	15.0	18.0
Merged-chr4-130892468-2	chr4	130892368	130892568	+	961.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20866.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	7.0	5.5	6.0	63.5	11.5	4.0	5.5	5.5
Merged-chr3-95654794-6	chr3	95654715	95654915	+	877.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-3906.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	15.5	9.5	9.0	150.0	26.0	3.0	10.5	13.0
Merged-chr8-107031265-4	chr8	107031199	107031399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_126165)	promoter-TSS (NM_126165)	-27.0	NM_126165	116733.0	Mm.236004	NM_126165	ENSMUSG00000031913	Vps4a	4930589C15Rik|AI325971|AW553189	vacuolar protein sorting 4A	protein-coding	108.0	139.0	72.5	1387.5	252.5	118.5	109.5	92.0
Merged-chr9-40832220-3	chr9	40832105	40832305	+	847.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	30932.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	0.0	0.0	0.0	11.0	38.5	11.5	26.0	23.5
Merged-chr14-78849767-4	chr14	78849693	78849893	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027906, intron 1 of 44)	intron (NM_027906, intron 1 of 44)	615.0	NM_173758	219189.0	Mm.159651	NM_027906	ENSMUSG00000058997	Vwa8	1300010F03Rik|4932416F07Rik|AI957255|Kiaa0564|mKIAA0564	von Willebrand factor A domain containing 8	protein-coding	17.5	18.0	24.5	254.5	26.0	4.0	11.0	7.5
Merged-chr3-142394909-4	chr3	142394791	142394991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 1 of 12)	intron (NM_001190854, intron 1 of 12)	805.0	NM_001190853	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	146.5	240.5	150.0	2270.5	377.5	135.5	190.5	143.0
Merged-chr11-120378782-4	chr11	120378678	120378878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027980)	promoter-TSS (NM_027980)	-32.0	NM_027980	71885.0	Mm.274890	NM_027980	ENSMUSG00000025384	Faap100	2310003H01Rik	Fanconi anemia core complex associated protein 100	protein-coding	127.0	179.0	71.5	1578.0	281.5	126.0	107.5	91.5
Merged-chr2-132018363-4	chr2	132018252	132018452	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 1 of 10)	intron (NM_175445, intron 1 of 10)	11636.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	23.0	22.0	19.5	225.5	28.5	10.0	18.5	9.0
Merged-chr6-39526987-4	chr6	39526909	39527109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 1 of 18)	intron (NM_172477, intron 1 of 18)	30825.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	73.0	114.5	53.5	1415.0	200.5	68.5	90.5	97.5
Merged-chr4-35158042-4	chr4	35157933	35158133	+	838.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178061)	promoter-TSS (NM_178061)	-549.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	11.0	28.0	15.0	263.5	28.5	6.0	13.0	12.5
Merged-chr15-95883815-4	chr15	95883717	95883917	+	918.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 2 of 19)	intron (NM_175344, intron 2 of 19)	-53745.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	8.0	21.5	14.5	200.5	29.0	11.5	20.0	14.5
Merged-chr1-171053562-4	chr1	171053450	171053650	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356511, intron 4 of 4)	intron (NM_001356511, intron 4 of 4)	5844.0	NM_001356511	14131.0	Mm.22119	NM_010188	ENSMUSG00000059498	Fcgr3	CD16	Fc receptor, IgG, low affinity III	protein-coding	20.0	29.0	14.5	245.0	40.0	11.5	16.0	15.5
Merged-chr13-102240218-4	chr13	102240092	102240292	+	887.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-453355.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	9.0	9.5	11.5	267.0	26.5	8.0	10.0	26.5
Merged-chr15-101283356-4	chr15	101283254	101283454	+	865.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026566)	promoter-TSS (NM_026566)	-947.0	NM_026566	68118.0	Mm.482360	NM_026566	ENSMUSG00000037204	Atg101	9430023L20Rik|AA407441|AU022967	autophagy related 101	protein-coding	10.5	16.0	5.0	186.0	29.0	9.0	15.5	11.5
Merged-chr10-84409069-4	chr10	84408969	84409169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 2 of 6)	intron (NM_001004363, intron 2 of 6)	31402.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	33.5	44.5	22.5	459.0	71.0	22.0	29.0	32.5
Merged-chr2-17936699-3	chr2	17936598	17936798	+	782.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60260.0	NM_026627	68231.0	Mm.23887	NM_026627	ENSMUSG00000062651	H2al2a	1700113O17Rik|H2A.Bbd|H2A.L.2|H2afb1|H2al2|TSEG-1|Tseg1	H2A histone family member L2A	protein-coding	8.0	16.0	8.0	305.0	27.0	5.5	3.5	6.5
Merged-chr15-99670692-3	chr15	99670578	99670778	+	623.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009597, exon 1 of 12)	5' UTR (NM_009597, exon 1 of 12)	301.0	NM_009597	11419.0	Mm.440107	NM_009597	ENSMUSG00000023017	Asic1	AI843610|ASIC|ASIC1a|Accn2|B530003N02Rik|BNaC2	acid-sensing (proton-gated) ion channel 1	protein-coding	6.0	4.5	0.5	19.0	16.5	11.0	8.0	9.5
Merged-chr5-23844649-1	chr5	23844549	23844749	+	724.666687	f0_c57.idr	promoter-TSS (NM_025394)	promoter-TSS (NM_025394)	-504.0	NM_025394	66169.0	Mm.291868	NM_025394	ENSMUSG00000028998	Tomm7	1110020J08Rik|AW047273|Tom7	translocase of outer mitochondrial membrane 7	protein-coding	1.5	1.0	0.0	0.0	24.0	11.0	10.0	12.0
Merged-chr5-124862152-1	chr5	124862052	124862252	+	985.6666869999999	f1_balb.idr	promoter-TSS (NM_144819)	promoter-TSS (NM_144819)	69.0	NM_144819	215707.0	Mm.389693	NM_144819	ENSMUSG00000037979	Ccdc92	AW050178|D5Bwg0834e	coiled-coil domain containing 92	protein-coding	11.0	5.0	4.5	44.5	8.5	6.0	1.5	6.0
Merged-chr18-46280737-4	chr18	46280637	46280837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172627, exon 1 of 9)	exon (NM_172627, exon 1 of 9)	113.0	NM_172627	225467.0	Mm.262096	NM_172627	ENSMUSG00000024477	Pggt1b	2010207C17Rik|2610100E13|AI451237|AI551093|BGG1|GGT1	protein geranylgeranyltransferase type I, beta subunit	protein-coding	42.0	53.0	60.5	551.0	63.0	47.0	36.0	41.0
Merged-chr10-24930365-4	chr10	24930280	24930480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2910.0	NM_007482	11846.0	Mm.154144	NM_007482	ENSMUSG00000019987	Arg1	AI|AI256583|Arg-1|PGIF	arginase, liver	protein-coding	80.0	76.0	167.0	2102.5	174.0	83.5	95.0	120.5
Merged-chr19-28658700-4	chr19	28658585	28658785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175459, intron 2 of 10)	L1MC4|LINE|L1	-19539.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	69.5	73.5	80.5	1206.0	50.5	33.0	18.5	31.0
Merged-chr1-36264404-4	chr1	36264322	36264522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153408)	TTS (NM_153408)	9003.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	52.5	68.5	62.5	846.5	149.5	63.5	39.5	52.5
Merged-chr14-78699251-3	chr14	78699147	78699347	+	904.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081336, intron 2 of 29)	intron (NM_001081336, intron 2 of 29)	33482.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	22.0	43.5	23.5	203.0	7.0	6.0	3.0	0.0
Merged-chr1-191965244-4	chr1	191965134	191965334	+	922.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12136.0	NM_001177900	74023.0	Mm.274393	NM_023727	ENSMUSG00000049353	Rd3	3322402L07Rik|rd-3|rd3	retinal degeneration 3	protein-coding	22.0	7.0	16.5	145.0	51.0	16.5	27.5	13.5
Merged-chr1-62736701-4	chr1	62736593	62736793	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	33376.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	21.5	60.0	25.5	181.0	83.5	43.0	43.5	32.0
Merged-chr7-128129441-4	chr7	128129344	128129544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021334)	promoter-TSS (NM_021334)	-124.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	30.0	42.0	20.5	359.5	49.0	19.0	16.0	19.0
Merged-chr10-127103836-4	chr10	127103714	127103914	+	881.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177614, intron 5 of 13)	intron (NM_177614, intron 5 of 13)	17346.0	NM_177614	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	13.5	17.5	10.5	198.5	32.0	13.0	13.0	12.5
Merged-chr9-40482649-4	chr9	40482532	40482732	+	769.708313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	-26868.0	NM_172768	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	6.5	14.0	11.5	41.0	2.0	0.5	0.0	3.5
Merged-chr10-83198111-4	chr10	83198009	83198209	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139708.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	4.0	16.5	5.5	153.0	19.5	14.0	16.5	7.0
Merged-chr16-20401796-4	chr16	20401683	20401883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 6 of 6)	intron (NM_176839, intron 6 of 6)	24611.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	30.0	48.5	34.0	395.0	121.0	23.5	32.5	31.5
Merged-chr5-147584085-2	chr5	147583985	147584185	+	593.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_010228, intron 20 of 29)	intron (NM_010228, intron 20 of 29)	141903.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	0.0	6.0	2.5	69.5	14.5	6.0	6.0	5.5
Merged-chr13-67500527-4	chr13	67500444	67500644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007575)	promoter-TSS (NM_001007575)	-22.0	NM_001007575	238693.0	Mm.478914	NM_001007575	ENSMUSG00000071291	Zfp58	A530094I17Rik|Mfg-1|Mfg1|Rslcan5|Zfp817	zinc finger protein 58	protein-coding	34.0	55.0	31.0	949.0	188.5	78.5	107.0	79.5
Merged-chr10-77621683-3	chr10	77621564	77621764	+	947.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019803)	promoter-TSS (NM_019803)	-657.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	9.5	5.5	7.5	157.0	22.5	3.5	15.5	7.5
Merged-chr10-40129384-3	chr10	40129297	40129497	+	953.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	12857.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	25.0	16.5	9.0	211.5	29.5	4.0	8.5	16.0
Merged-chr17-13010122-4	chr17	13010028	13010228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013671, intron 2 of 4)	intron (NM_013671, intron 2 of 4)	2289.0	NM_013671	20656.0	Mm.290876	NM_013671	ENSMUSG00000006818	Sod2	MnSOD|Sod-2	superoxide dismutase 2, mitochondrial	protein-coding	96.5	275.0	128.5	907.0	298.5	120.5	74.5	63.5
Merged-chr8-75099951-4	chr8	75099868	75100068	+	843.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010442, exon 5 of 5)	exon (NM_010442, exon 5 of 5)	6350.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	13.0	14.5	7.5	93.0	22.5	15.0	11.5	3.0
Merged-chr6-57796068-4	chr6	57795958	57796158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	intron (NM_146168, intron 1 of 4)	29067.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	82.0	140.0	92.0	1042.0	231.0	73.0	66.5	48.5
Merged-chr8-18846301-4	chr8	18846209	18846409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026792)	promoter-TSS (NM_026792)	30.0	NM_026792	52123.0	Mm.24117	NM_026792	ENSMUSG00000031467	Agpat5	1110013A05Rik|D8Ertd319e	1-acylglycerol-3-phosphate O-acyltransferase 5 (lysophosphatidic acid acyltransferase, epsilon)	protein-coding	171.0	290.0	310.0	3013.0	361.5	142.0	212.5	198.0
Merged-chr17-56626927-4	chr17	56626809	56627009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028782)	promoter-TSS (NM_028782)	-6.0	NM_028782	74142.0	Mm.329136	NM_028782	ENSMUSG00000041168	Lonp1	1200017E13Rik|LON|Prss15	lon peptidase 1, mitochondrial	protein-coding	76.0	95.0	61.0	699.5	173.5	52.0	43.0	66.5
Merged-chr2-18989036-4	chr2	18988938	18989138	+	981.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	9083.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	59.5	50.0	43.5	999.0	88.0	14.5	61.5	41.5
Merged-chr17-65681122-3	chr17	65681019	65681219	+	861.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 5 of 6)	(GGA)n|Simple_repeat|Simple_repeat	-38915.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	12.5	10.5	5.0	75.0	11.0	3.5	5.5	10.0
Merged-chr13-30085201-4	chr13	30085093	30085293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51297.0	NM_153546	218121.0	Mm.89682	NM_153546	ENSMUSG00000038732	Mboat1	9130215M02Rik|BC023845|LPEAT1|Moact1|Oact1	membrane bound O-acyltransferase domain containing 1	protein-coding	39.5	43.5	16.0	403.5	54.5	28.5	35.5	26.0
Merged-chr1-91398236-2	chr1	91398136	91398336	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023343, intron 1 of 11)	CpG	587.0	NM_023343	67444.0	Mm.337240	NM_023343	ENSMUSG00000026309	Ilkap	0710007A14Rik|1600009O09Rik|PP2C-DELTA	integrin-linked kinase-associated serine/threonine phosphatase 2C	protein-coding	4.5	6.0	8.5	59.0	11.0	1.0	2.0	7.5
Merged-chr5-3461655-4	chr5	3461545	3461745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 4 of 7)	intron (NM_009873, intron 4 of 7)	-82188.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	64.5	59.0	43.0	1079.5	120.5	53.0	62.5	61.5
Merged-chr14-34616963-4	chr14	34616845	34617045	+	785.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16803.0	NM_013887	30044.0	Mm.272060	NM_013887	ENSMUSG00000021799	Opn4	1110007J02Rik|Gm533	opsin 4 (melanopsin)	protein-coding	10.5	10.5	8.5	168.5	17.5	8.5	8.5	3.5
Merged-chr9-32501598-4	chr9	32501487	32501687	+	919.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	39865.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	13.0	13.5	8.5	255.5	37.0	5.0	12.5	14.0
Merged-chr5-44052758-3	chr5	44052671	44052871	+	916.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163578, intron 3 of 22)	intron (NM_001163578, intron 3 of 22)	41997.0	NM_001163581	19126.0	Mm.6250	NM_008935	ENSMUSG00000029086	Prom1	4932416E19Rik|AC133|CD133|Prom|Prom-1|Proml1	prominin 1	protein-coding	3.5	5.0	8.5	75.5	60.5	10.0	37.5	44.0
Merged-chr6-125084594-4	chr6	125084500	125084700	+	962.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11381.0	NM_001346610	107932.0	Mm.333388	NM_145979	ENSMUSG00000063870	Chd4	9530019N15Rik|AA617397|BC005710|D6Ertd380e|Mi-2beta|mKIAA4075	chromodomain helicase DNA binding protein 4	protein-coding	24.0	20.0	16.0	394.0	44.0	10.0	28.0	11.5
Merged-chr8-88293989-7	chr8	88293851	88294051	+	973.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037724)	promoter-TSS (NM_001037724)	-253.0	NM_001037724	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	26.5	14.5	19.0	223.5	20.0	10.0	7.0	11.5
Merged-chr1-152291035-3	chr1	152290942	152291142	+	877.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95640.0	NM_025677	66637.0	Mm.379120	NM_025677	ENSMUSG00000014980	Tsen15	5730449L18Rik|AL023077|Sen15	tRNA splicing endonuclease subunit 15	protein-coding	12.5	18.0	10.5	118.0	26.0	6.5	6.0	4.5
Merged-chr4-145037167-4	chr4	145037070	145037270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 65 of 69)	intron (NM_001276465, intron 65 of 69)	144033.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	57.0	78.0	69.5	1382.5	111.5	29.5	48.5	50.0
Merged-chr2-98666870-1	chr2	98666770	98666970	+	1000.0	f0_balb.idr	Intergenic	GSAT_MM|Satellite|Satellite	1199213.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	1415.0	918.0	2217.5	10680.5	2022.5	1120.0	745.0	1734.5
Merged-chr18-69586701-4	chr18	69586591	69586791	+	973.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	240531.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	24.5	15.5	27.5	273.0	38.5	17.0	22.5	23.5
Merged-chr9-110297308-4	chr9	110297240	110297440	+	876.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7852.0	NM_001081381	72341.0	Mm.374250	NM_001081381	ENSMUSG00000054836	Elp6	2610001P13Rik|2610002I17Rik|AV159994|Tmem103	elongator acetyltransferase complex subunit 6	protein-coding	13.0	11.5	4.5	117.0	26.5	18.0	8.5	10.0
Merged-chr10-14209620-4	chr10	14209512	14209712	+	719.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243233.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	17.5	14.5	11.5	233.0	20.5	2.0	12.5	10.0
Merged-chr10-70183396-3	chr10	70183288	70183488	+	677.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111121, intron 7 of 8)	intron (NM_001111121, intron 7 of 8)	-21276.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	19.0	10.0	6.5	131.5	12.5	1.5	5.0	3.5
Merged-chr11-79088212-4	chr11	79088109	79088309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	-28373.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	78.5	122.0	55.5	1173.5	115.0	58.5	77.0	82.0
Merged-chr6-120480568-3	chr6	120480485	120480685	+	976.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 12 of 12)	intron (NM_008359, intron 12 of 12)	13222.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	12.5	17.5	18.5	222.0	32.5	4.5	9.5	5.0
Merged-chr6-51523990-4	chr6	51523880	51524080	+	967.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127349)	promoter-TSS (NM_001127349)	77.0	NM_001127349	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	21.0	21.5	21.5	323.0	36.0	23.5	11.5	19.0
Merged-chr7-99149250-4	chr7	99149132	99149332	+	957.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8088.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	20.5	10.0	12.0	170.0	60.5	13.0	24.0	20.5
Merged-chr7-80143526-4	chr7	80143427	80143627	+	957.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28177.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	27.5	19.5	23.0	454.5	47.5	16.0	11.5	23.5
Merged-chr14-19750638-3	chr14	19750535	19750735	+	968.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008695)	promoter-TSS (NM_008695)	-622.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	17.0	13.5	12.5	145.0	13.0	4.5	4.0	7.5
Merged-chr1-161885896-3	chr1	161885805	161886005	+	905.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9223.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	1.5	8.0	1.0	51.5	51.0	10.0	8.0	18.5
Merged-chr2-122619705-3	chr2	122619587	122619787	+	904.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8410.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	47.5	50.0	22.0	444.0	7.0	3.0	2.0	2.0
Merged-chr5-66293749-3	chr5	66293645	66293845	+	886.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302833, intron 10 of 12)	intron (NM_001302833, intron 10 of 12)	32904.0	NM_027602	70918.0	Mm.23166	NM_027602	ENSMUSG00000029206	Nsun7	4921525L17Rik	NOL1/NOP2/Sun domain family, member 7	protein-coding	4.0	4.5	3.5	130.5	35.5	15.5	12.5	19.5
Merged-chr17-26235561-4	chr17	26235545	26235745	+	944.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	8597.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	15.5	12.0	16.5	119.0	15.0	5.5	10.5	17.0
Merged-chr2-90745913-2	chr2	90745813	90746013	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_018828, intron 1 of 16)	CpG	543.0	NM_018828	55935.0	Mm.489638	NM_018828	ENSMUSG00000008200	Fnbp4	FBP30|Fnbp30|mKIAA1014	formin binding protein 4	protein-coding	15.5	18.5	19.5	184.0	43.5	23.0	9.5	26.5
Merged-chr14-45325663-3	chr14	45325533	45325733	+	914.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-4191.0	NM_025959	67089.0	Mm.18472	NM_025959	ENSMUSG00000021832	Psmc6	2300001E01Rik|AI451058	proteasome (prosome, macropain) 26S subunit, ATPase, 6	protein-coding	11.0	9.0	7.0	22.0	13.5	12.5	17.5	8.5
Merged-chr11-113544441-3	chr11	113544316	113544516	+	788.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 3 of 9)	intron (NM_027216, intron 3 of 9)	21399.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	7.0	8.0	13.5	167.5	14.5	7.0	3.0	8.0
Merged-chr1-43936132-3	chr1	43936040	43936240	+	617.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009418, intron 1 of 29)	intron (NM_009418, intron 1 of 29)	2146.0	NM_009418	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	6.5	3.5	2.5	106.0	18.5	5.0	5.5	5.0
Merged-chr10-80054102-2	chr10	80054002	80054202	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037741)	promoter-TSS (NM_001037741)	83.0	NM_001037741	625249.0	Mm.332810	NM_008162	ENSMUSG00000075706	Gpx4	GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx	glutathione peroxidase 4	protein-coding	28.5	65.5	48.0	509.0	86.5	35.0	46.5	32.0
Merged-chr10-19907475-4	chr10	19907381	19907581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008822, exon 1 of 10)	exon (NM_008822, exon 1 of 10)	193.0	NM_008822	18634.0	Mm.338363	NM_008822	ENSMUSG00000020003	Pex7	MmPEX7	peroxisomal biogenesis factor 7	protein-coding	117.0	178.0	167.5	1054.5	190.5	110.0	102.0	123.0
Merged-chr7-102441722-4	chr7	102441622	102441822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009103)	promoter-TSS (NM_009103)	27.0	NM_009103	20133.0	Mm.197486	NM_009103	ENSMUSG00000030978	Rrm1	RnrM1	ribonucleotide reductase M1	protein-coding	121.0	166.0	78.0	1575.5	238.5	95.5	138.5	122.0
Merged-chr4-63410783-4	chr4	63410690	63410890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7345.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	56.0	159.0	50.0	1186.5	183.0	80.0	97.0	72.5
Merged-chr11-94992049-4	chr11	94991987	94992187	+	807.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172261, exon 1 of 10)	exon (NM_172261, exon 1 of 10)	875.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	3.0	11.0	13.0	66.5	20.0	5.5	7.0	14.0
Merged-chr4-142054235-3	chr4	142054137	142054337	+	767.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	ID_B1|SINE|B4	-30061.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	1.5	9.5	4.0	133.0	14.0	5.5	12.5	4.5
Merged-chr8-70617800-6	chr8	70617720	70617920	+	857.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153074, exon 2 of 3)	exon (NM_153074, exon 2 of 3)	976.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	5.0	8.0	11.5	89.5	34.0	10.5	11.0	10.5
Merged-chr19-60817773-4	chr19	60817675	60817875	+	849.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026437, intron 3 of 8)	intron (NM_026437, intron 3 of 8)	6220.0	NM_001347464	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	8.0	3.5	8.0	205.5	59.5	6.0	20.0	8.5
Merged-chr7-81199265-3	chr7	81199149	81199349	+	877.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-14555.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	7.0	7.0	9.5	74.0	8.0	5.0	7.5	1.0
Merged-chr13-92977634-3	chr13	92977538	92977738	+	891.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20D|LTR|ERVK	-95666.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	0.0	0.0	0.0	15.0	86.5	38.5	72.0	55.5
Merged-chr10-21651652-4	chr10	21651549	21651749	+	947.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39196.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	14.0	17.0	17.5	414.0	28.0	4.0	20.0	15.0
Merged-chr3-104863855-4	chr3	104863737	104863937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253702)	promoter-TSS (NM_001253702)	668.0	NM_009797	12340.0	Mm.19142	NM_009797	ENSMUSG00000070372	Capza1	CAPZ|CAZ1|Cappa1|capZ alpha-1	capping protein (actin filament) muscle Z-line, alpha 1	protein-coding	47.5	68.5	53.0	748.0	82.5	49.0	45.5	34.5
Merged-chr9-106159935-4	chr9	106159799	106159999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1761.0	NM_174846	235582.0	Mm.335420	NM_174846	ENSMUSG00000020258	Glyctk	6230410P16Rik|C430006L12	glycerate kinase	protein-coding	21.5	56.0	9.0	214.0	68.0	34.5	27.0	25.0
Merged-chr3-8734045-4	chr3	8733978	8734178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67040.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	19.0	24.0	18.0	352.5	44.5	7.0	19.0	19.5
Merged-chr1-79581557-3	chr1	79581453	79581653	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90419.0	NM_183027	252903.0	Mm.32409	NM_183027	ENSMUSG00000054702	Ap1s3	1190009B22|Jr2|[s]3A	adaptor-related protein complex AP-1, sigma 3	protein-coding	20.5	32.0	25.0	449.0	8.0	1.0	1.0	2.5
Merged-chr8-10162425-2	chr8	10162325	10162525	+	788.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001319151, intron 1 of 34)	intron (NM_001319151, intron 1 of 34)	8514.0	NM_001319151	244281.0	Mm.422761	NM_001081397	ENSMUSG00000039057	Myo16	BM140241|C230040D10Rik|Gm1105|NYAP3|mKIAA0865	myosin XVI	protein-coding	6.0	6.0	4.5	113.0	17.0	5.5	10.0	6.0
Merged-chr1-125438154-4	chr1	125438060	125438260	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2433.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	25.0	30.0	24.5	264.0	45.0	26.0	16.5	23.5
Merged-chr19-6271457-4	chr19	6271345	6271545	+	859.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5451.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	19.0	13.5	9.0	183.5	17.0	4.5	14.0	16.5
Merged-chr14-30593348-4	chr14	30593226	30593426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	16984.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	169.0	229.5	167.0	1956.0	388.5	138.0	169.5	139.0
Merged-chr4-32343421-4	chr4	32343317	32343517	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74018.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	39.0	34.0	76.0	1181.0	33.0	3.0	23.5	37.0
Merged-chr11-106564462-4	chr11	106564364	106564564	+	962.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198292, intron 2 of 11)	intron (NM_198292, intron 2 of 11)	48466.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	49.5	98.0	65.0	1003.5	70.0	18.5	13.0	23.5
Merged-chr14-106692380-2	chr14	106692289	106692489	+	745.833374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-205869.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	10.5	13.0	12.5	268.5	4.0	2.5	0.5	3.0
Merged-chr9-116181857-3	chr9	116181738	116181938	+	793.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-6475.0	NM_029575	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	5.0	7.5	7.0	132.5	5.0	5.5	5.5	6.0
Merged-chr13-32312881-4	chr13	32312767	32312967	+	873.74585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146041, intron 1 of 10)	intron (NM_146041, intron 1 of 10)	25677.0	NM_146041	218138.0	Mm.247143	NM_146041	ENSMUSG00000038372	Gmds	BC031788|C87208	GDP-mannose 4, 6-dehydratase	protein-coding	13.0	19.0	11.0	341.0	42.0	20.5	19.5	15.5
Merged-chr17-15761429-4	chr17	15761350	15761550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 30 of 35)	intron (NM_007690, intron 30 of 35)	56483.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	54.0	90.5	54.0	969.0	180.5	75.5	75.5	63.0
Merged-chr17-17064018-4	chr17	17063917	17064117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005358)	promoter-TSS (NM_001005358)	-86.0	NM_001005358	449000.0	Mm.483718	NM_001005358	ENSMUSG00000096696	Zfp960	-	zinc finger protein 960	protein-coding	37.0	39.0	37.0	342.0	82.5	30.5	47.0	45.0
Merged-chr10-81136987-4	chr10	81136916	81137116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010731, intron 1 of 2)	CpG	745.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	28.5	39.5	27.5	342.0	103.0	54.0	46.5	49.0
Merged-chr15-13212142-3	chr15	13212036	13212236	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38461.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	9.0	9.0	12.5	209.0	15.5	3.5	9.5	11.0
Merged-chr10-128091127-4	chr10	128091029	128091229	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_016774)	TTS (NM_016774)	-1654.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	24.0	64.0	12.5	431.0	78.0	38.5	46.0	49.5
Merged-chr9-55307281-1	chr9	55307181	55307381	+	653.0	f0_balb.idr	Intergenic	Intergenic	-19632.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	8.5	5.0	7.0	85.0	8.0	2.0	3.5	1.5
Merged-chr6-40423923-3	chr6	40423821	40424021	+	897.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356375, intron 1 of 8)	intron (NM_001356375, intron 1 of 8)	12214.0	NM_001356375	243780.0	Mm.333006	NM_175528	ENSMUSG00000037172	E330009J07Rik	AI841796|Lchn|mKIAA1147	RIKEN cDNA E330009J07 gene	protein-coding	5.0	10.5	5.0	91.0	27.5	2.5	3.5	2.0
Merged-chr5-66145323-1	chr5	66145223	66145423	+	653.0	f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	5655.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	1.0	2.5	0.0	26.0	22.5	10.0	5.5	8.0
Merged-chr5-99497617-2	chr5	99497517	99497717	+	610.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	231443.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	1.0	4.0	3.0	32.0	32.0	8.0	7.5	6.0
Merged-chr10-86885910-4	chr10	86885814	86886014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 42 of 68)	intron (NM_138673, intron 42 of 68)	106909.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	76.0	120.0	115.0	2259.0	286.0	89.5	144.0	116.0
Merged-chr12-81910687-3	chr12	81910584	81910784	+	942.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 3 of 35)	intron (NM_018814, intron 3 of 35)	50654.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	13.5	13.0	15.0	205.0	9.5	3.0	14.5	8.0
Merged-chr6-108710125-4	chr6	108710021	108710221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49187.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	41.5	53.0	19.5	491.5	111.0	29.5	50.0	29.5
Merged-chr15-27647936-3	chr15	27647842	27648042	+	929.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTTG)n|Simple_repeat|Simple_repeat	-17249.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	13.0	8.5	10.5	156.5	18.5	7.0	11.5	6.0
Merged-chr15-75679456-4	chr15	75679337	75679537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355589)	promoter-TSS (NM_001355589)	-637.0	NM_028404	72960.0	Mm.182401	NM_028404	ENSMUSG00000000934	Top1mt	2900052H09Rik	DNA topoisomerase 1, mitochondrial	protein-coding	26.5	51.0	24.0	472.5	100.5	42.0	41.5	54.0
Merged-chr17-29549734-4	chr17	29549633	29549833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162901)	promoter-TSS (NM_001162901)	-69.0	NM_198647	381085.0	Mm.328934	NM_198647	ENSMUSG00000042203	Tbc1d22b	BC045600	TBC1 domain family, member 22B	protein-coding	70.0	71.5	46.0	899.5	131.0	32.0	59.5	59.5
Merged-chr3-79566846-4	chr3	79566754	79566954	+	961.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	825.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	12.0	25.0	30.0	304.0	40.0	13.5	17.0	21.5
Merged-chr13-95842140-3	chr13	95842010	95842210	+	920.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	49812.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	28.0	29.5	22.5	247.0	21.5	2.5	2.5	7.0
Merged-chr9-45274372-3	chr9	45274279	45274479	+	706.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5230.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	10.0	13.0	7.5	75.0	11.5	4.5	2.5	7.5
Merged-chr5-149267110-4	chr5	149267013	149267213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009663, intron 1 of 4)	intron (NM_009663, intron 1 of 4)	2109.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	61.5	87.0	68.0	1066.5	178.5	65.0	62.5	96.0
Merged-chr11-100721405-4	chr11	100721281	100721481	+	869.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	intron (NM_001305003, intron 1 of 5)	7531.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	3.5	14.5	9.5	137.5	25.5	14.5	5.5	13.0
Merged-chr17-88557257-4	chr17	88557158	88557358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 9 of 21)	intron (NM_028658, intron 9 of 21)	27134.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	31.5	35.0	24.5	405.5	69.5	34.0	29.5	38.0
Merged-chr3-108085925-4	chr3	108085830	108086030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346665)	promoter-TSS (NM_001346665)	-46.0	NM_001358018	791415.0	Mm.374791	NM_001358018	ENSMUSG00000056411	Gm12500	-	predicted gene 12500	protein-coding	50.5	78.5	63.5	671.5	144.0	55.0	55.0	28.0
Merged-chr2-156316606-1	chr2	156316506	156316706	+	669.0	f1_balb.idr	intron (NM_027585, intron 1 of 12)	intron (NM_027585, intron 1 of 12)	-3902.0	NM_020255	19018.0	Mm.389346	NM_020255	ENSMUSG00000046229	Scand1	2310003H23Rik|Leap1|PGC-2|Ppargc2	SCAN domain-containing 1	protein-coding	2.5	3.0	4.0	8.0	18.5	9.0	7.0	13.0
Merged-chr6-73239047-1	chr6	73238947	73239147	+	562.0	f0_c57.idr	Intergenic	Intergenic	-9458.0	NM_019879	56451.0	Mm.29845	NM_019879	ENSMUSG00000052738	Suclg1	1500000I01Rik|Sucla1	succinate-CoA ligase, GDP-forming, alpha subunit	protein-coding	2.0	0.0	0.5	4.5	12.0	5.0	8.0	8.5
Merged-chr4-99224982-4	chr4	99224863	99225063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 7 of 10)	intron (NM_175029, intron 7 of 10)	30816.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	29.5	46.5	44.5	599.0	117.0	24.5	42.5	26.5
Merged-chr13-44718442-4	chr13	44718348	44718548	+	923.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12326.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	16.5	18.5	14.0	252.5	35.0	14.5	23.5	18.0
Merged-chr1-14820077-3	chr1	14820006	14820206	+	812.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-64140.0	NM_010827	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	11.0	8.5	6.0	208.5	5.0	8.0	5.5	13.5
Merged-chr4-116169242-4	chr4	116169144	116169344	+	774.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1646.0	NM_133681	66805.0	Mm.45994	NM_133681	ENSMUSG00000028699	Tspan1	9030418M05Rik	tetraspanin 1	protein-coding	3.0	12.0	4.5	90.0	12.0	9.5	15.0	19.5
Merged-chr11-72946541-4	chr11	72946459	72946659	+	756.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14610.0	NM_016745	53313.0	Mm.6306	NM_016745	ENSMUSG00000020788	Atp2a3	SERCA3b|Serca3	ATPase, Ca++ transporting, ubiquitous	protein-coding	8.5	12.5	4.0	44.5	23.0	9.5	4.5	6.5
Merged-chr13-65242019-4	chr13	65241919	65242119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-36303.0	NM_175290	97895.0	Mm.315815	NM_175290	ENSMUSG00000032999	Nlrp4f	C330026N02Rik|C86045|Nalp-kappa|Nalp4f	NLR family, pyrin domain containing 4F	protein-coding	16.5	13.0	18.0	179.0	88.5	30.0	27.0	27.5
Merged-chr17-43052624-3	chr17	43052523	43052723	+	988.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	intron (NM_178589, intron 3 of 5)	36068.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	21.0	22.0	18.0	482.5	7.0	6.0	6.5	5.0
Merged-chr16-85072804-4	chr16	85072689	85072889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 5 of 15)	intron (NM_001198825, intron 5 of 15)	100578.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	51.5	81.0	56.5	1382.0	152.0	58.5	74.0	64.5
Merged-chr3-51483996-4	chr3	51483897	51484097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016858)	promoter-TSS (NM_016858)	31.0	NM_016858	19338.0	Mm.1664	NM_016858	ENSMUSG00000027739	Rab33b	-	RAB33B, member RAS oncogene family	protein-coding	139.0	175.5	145.0	1979.5	297.0	117.5	157.0	129.0
Merged-chr19-56591600-2	chr19	56591500	56591700	+	706.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_025811, exon 7 of 11)	exon (NM_025811, exon 7 of 11)	43339.0	NM_025811	66866.0	Mm.46346	NM_025811	ENSMUSG00000025078	Nhlrc2	1200003G01Rik|AI835049|AV002846|AW496455	NHL repeat containing 2	protein-coding	5.0	9.0	10.0	89.0	7.5	0.0	1.5	3.5
Merged-chr8-56548064-3	chr8	56547962	56548162	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009951, intron 1 of 10)	ORR1E|LTR|ERVL-MaLR	2504.0	NM_001009951	382010.0	Mm.425534	NM_001009951	ENSMUSG00000038215	Cep44	4933440G23Rik|mKIAA1712	centrosomal protein 44	protein-coding	9.5	12.0	2.5	143.0	8.5	5.0	14.0	15.0
Merged-chr7-83647784-4	chr7	83647679	83647879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 16 of 18)	intron (NM_001360088, intron 16 of 18)	7716.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	41.5	42.5	36.0	516.0	89.5	41.5	36.5	24.5
Merged-chr19-10284747-1	chr19	10284647	10284847	+	617.0	f0_balb.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	20130.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	9.0	6.0	8.0	146.0	7.0	4.5	3.0	8.0
Merged-chr7-18910564-4	chr7	18910449	18910649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033314)	promoter-TSS (NM_001033314)	-145.0	NM_001033314	232933.0	Mm.333624	NM_001033314	ENSMUSG00000074358	Ccdc61	C530028I08Rik|Gm159	coiled-coil domain containing 61	protein-coding	274.0	358.0	249.0	3672.0	611.5	234.0	274.0	198.0
Merged-chr19-6304936-4	chr19	6304863	6305063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1494.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	76.5	166.5	93.0	878.5	201.0	83.5	82.5	69.0
Merged-chr17-64661518-4	chr17	64661426	64661626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 6 of 21)	RLTR9E|LTR|ERVK	59877.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	40.5	20.0	23.5	445.0	66.0	22.5	27.5	30.0
Merged-chr16-94601805-4	chr16	94601688	94601888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	-9631.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	136.0	205.5	102.5	1840.5	356.5	166.0	207.0	143.0
Merged-chr2-126073898-4	chr2	126073802	126074002	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008008, intron 2 of 3)	intron (NM_008008, intron 2 of 3)	39244.0	NM_008008	14178.0	Mm.330557	NM_008008	ENSMUSG00000027208	Fgf7	Kgf	fibroblast growth factor 7	protein-coding	26.0	43.0	16.5	426.0	82.5	9.0	33.5	45.5
Merged-chr1-165667615-4	chr1	165667513	165667713	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	-33072.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	22.0	4.5	26.0	263.5	45.5	10.0	24.5	16.5
Merged-chr9-63500158-3	chr9	63500040	63500240	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030068, intron 14 of 21)	intron (NM_030068, intron 14 of 21)	-100896.0	NM_027090	69478.0	Mm.113942	NM_027090	ENSMUSG00000032403	2300009A05Rik	-	RIKEN cDNA 2300009A05 gene	protein-coding	5.5	19.0	8.5	75.5	35.5	10.0	9.5	4.5
Merged-chr14-51057617-3	chr14	51057517	51057717	+	738.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001011875)	promoter-TSS (NM_001011875)	-375.0	NM_001011875	497106.0	Mm.379740	NM_001011875	ENSMUSG00000068407	Rnase12	Rai1	ribonuclease, RNase A family, 12 (non-active)	protein-coding	10.5	8.5	13.5	75.0	10.0	1.0	4.0	8.0
Merged-chr14-62332124-4	chr14	62332077	62332277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026001, intron 1 of 10)	CpG	109.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	29.5	53.0	45.0	492.5	82.0	40.0	37.5	32.5
Merged-chr19-47865695-4	chr19	47865620	47865820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026619)	promoter-TSS (NM_026619)	-74.0	NM_026619	68214.0	Mm.63791	NM_026619	ENSMUSG00000025069	Gsto2	1700020F09Rik|4930425C18Rik|GSTO 2-2	glutathione S-transferase omega 2	protein-coding	281.0	420.5	300.0	3889.5	514.0	203.5	289.5	215.0
Merged-chr15-95820743-3	chr15	95820643	95820843	+	898.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	9329.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	12.5	10.5	6.0	122.5	12.5	10.0	2.5	4.5
Merged-chr8-14072735-3	chr8	14072610	14072810	+	609.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034862, intron 2 of 5)	intron (NM_001034862, intron 2 of 5)	17617.0	NM_001034862	234086.0	Mm.268896	NM_001034862	ENSMUSG00000051978	Erich1	-	glutamate rich 1	protein-coding	9.0	7.0	5.0	90.5	18.5	5.5	2.5	6.5
Merged-chr17-33394682-4	chr17	33394585	33394785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009542)	promoter-TSS (NM_009542)	-48.0	NM_009542	22643.0	Mm.4417	NM_009542	ENSMUSG00000055240	Zfp101	AI316498|AI325003	zinc finger protein 101	protein-coding	67.0	77.0	43.5	949.5	132.5	54.0	71.5	63.0
Merged-chr4-12500760-4	chr4	12500661	12500861	+	859.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-328746.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	12.5	30.5	8.0	212.5	36.5	10.5	16.0	8.0
Merged-chr12-56241989-2	chr12	56241889	56242089	+	806.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11254.0	NR_045048	100503961.0	Mm.136732	NR_045048	ENSMUSG00000112164	Gm19990	-	predicted gene, 19990	ncRNA	7.5	9.0	6.0	75.0	20.5	4.0	18.0	7.5
Merged-chr16-84735977-4	chr16	84735879	84736079	+	836.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017404)	promoter-TSS (NM_017404)	-677.0	NM_017404	27393.0	Mm.103655	NM_017404	ENSMUSG00000022889	Mrpl39	C21orf8|MRP-L5|ORF22|Rpml5	mitochondrial ribosomal protein L39	protein-coding	10.0	8.0	3.0	121.5	36.0	21.0	15.0	14.0
Merged-chr15-41832406-5	chr15	41832320	41832520	+	999.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130164, intron 1 of 5)	intron (NM_001130164, intron 1 of 5)	1462.0	NM_001130164	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	23.5	31.5	58.5	507.0	53.5	13.0	29.5	39.5
Merged-chr5-73256799-4	chr5	73256673	73256873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028194)	promoter-TSS (NM_028194)	-155.0	NM_028194	72313.0	Mm.260594	NM_028194	ENSMUSG00000070733	Fryl	2010313D22Rik|2310004H21Rik|2510002A14Rik|9030227G01Rik|mKIAA0826	FRY like transcription coactivator	protein-coding	335.5	448.5	363.0	5456.0	725.0	292.5	389.0	274.5
Merged-chr15-78532287-4	chr15	78532169	78532369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2618.0	NM_028331	72709.0	Mm.34776	NM_028331	ENSMUSG00000022440	C1qtnf6	2810036M19Rik|CTRP6	C1q and tumor necrosis factor related protein 6	protein-coding	44.0	52.0	36.5	397.0	90.5	28.5	39.5	24.0
Merged-chr19-37554168-4	chr19	37554120	37554320	+	911.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175353, intron 1 of 21)	intron (NM_175353, intron 1 of 21)	3802.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	6.5	15.5	11.0	61.5	21.0	7.0	10.0	9.5
Merged-chr13-99939473-4	chr13	99939370	99939570	+	680.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LFSINE_Vert|SINE|tRNA	-38787.0	NM_001081493	27220.0	Mm.75498	NM_013732	ENSMUSG00000021647	Cartpt	Cart	CART prepropeptide	protein-coding	9.0	15.0	10.0	98.5	27.0	5.0	4.5	14.0
Merged-chr12-16532589-3	chr12	16532488	16532688	+	747.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57182.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	7.5	20.0	22.5	287.5	17.0	2.5	4.0	2.5
Merged-chr11-6456276-4	chr11	6456166	6456366	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-11823.0	NM_001347064	77605.0	Mm.27624	NM_029938	ENSMUSG00000041126	H2afv	C530002L11Rik|H2a.z-2|H2av|Tg(Wnt1-cre)11Rth|Wnt1-Cre|Wnt1::Cre|Wnt1cre	H2A histone family, member V	protein-coding	4.0	23.5	8.0	241.0	44.5	9.0	12.5	8.0
Merged-chr18-57549221-2	chr18	57549121	57549321	+	687.5	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027945, exon 2 of 4)	non-coding (NR_027945, exon 2 of 4)	2646.0	NR_027945	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	5.5	5.5	5.5	57.0	8.0	3.5	1.5	3.0
Merged-chr12-85349966-3	chr12	85349858	85350058	+	895.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-10596.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	15.5	5.5	11.0	122.5	14.5	3.0	2.5	5.0
Merged-chr16-24902589-4	chr16	24902492	24902692	+	892.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-157047.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	8.5	27.0	19.5	514.0	20.5	2.0	11.0	3.0
Merged-chr13-104153022-1	chr13	104152922	104153122	+	623.5	f0_balb.idr	intron (NM_025879, intron 7 of 12)	intron (NM_025879, intron 7 of 12)	25444.0	NM_025879	66975.0	Mm.272541	NM_025879	ENSMUSG00000021711	Trappc13	2410002O22Rik|2610524F24Rik|AI451892|AU017229	trafficking protein particle complex 13	protein-coding	8.0	9.5	5.0	72.5	0.5	1.0	0.0	1.0
Merged-chr6-108574078-2	chr6	108573986	108574186	+	770.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	49081.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	14.0	14.5	11.5	290.5	5.0	0.5	2.0	2.0
Merged-chr2-52930383-6	chr2	52930341	52930541	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	72573.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	7.0	14.5	9.0	80.5	22.5	10.5	4.0	11.0
Merged-chr19-3574809-2	chr19	3574709	3574909	+	991.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360430, intron 1 of 22)	intron (NM_001360430, intron 1 of 22)	940.0	NM_001360430	52036.0	Mm.284686	NM_028999	ENSMUSG00000024908	Ppp6r3	4930528G08Rik|9130026N02Rik|D19Bwg1430e|D19Ertd703e|Pp6r3|Ppcs3|Pptcs3|Sapl|Saps3|mKIAA1558	protein phosphatase 6, regulatory subunit 3	protein-coding	6.5	3.5	5.5	40.0	24.5	4.5	5.0	6.0
Merged-chr4-141873860-3	chr4	141873782	141873982	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	1038.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	13.5	18.5	10.0	122.5	46.0	12.5	19.5	27.0
Merged-chr13-94296583-3	chr13	94296488	94296688	+	763.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10757.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	14.0	15.5	10.0	147.5	18.5	12.0	8.0	10.0
Merged-chr3-152114989-3	chr3	152114887	152115087	+	981.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 3 of 5)	intron (NM_016867, intron 3 of 5)	50913.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	15.0	34.0	23.5	299.0	15.5	3.0	2.5	3.5
Merged-chr10-21419402-4	chr10	21419315	21419515	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	42115.0	NM_178713	237320.0	Mm.90181	NM_178713	ENSMUSG00000037542	Aldh8a1	Raldh4	aldehyde dehydrogenase 8 family, member A1	protein-coding	6.0	12.5	16.5	165.5	152.5	41.0	54.5	75.0
Merged-chr7-80995895-4	chr7	80995775	80995975	+	797.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178707, intron 1 of 9)	L2c|LINE|L2	2191.0	NM_178707	233410.0	Mm.29525	NM_178707	ENSMUSG00000005621	Zfp592	A730014M16Rik|Znf592	zinc finger protein 592	protein-coding	7.0	9.5	6.0	169.0	20.0	8.5	6.5	12.5
Merged-chr11-107786738-3	chr11	107786633	107786833	+	814.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019431, intron 1 of 3)	intron (NM_019431, intron 1 of 3)	7961.0	NM_019431	54377.0	Mm.103724	NM_019431	ENSMUSG00000020723	Cacng4	AI413107|AW491861	calcium channel, voltage-dependent, gamma subunit 4	protein-coding	5.0	11.5	10.5	106.5	22.5	4.0	8.0	7.0
Merged-chr11-100425997-1	chr11	100425897	100426097	+	614.5	f0_balb.idr	intron (NM_026561, intron 8 of 8)	intron (NM_026561, intron 8 of 8)	10303.0	NM_001163481	14230.0	Mm.3894	NM_010221	ENSMUSG00000001555	Fkbp10	AI325255|FKBP-10|FKBP-65|FKBP65|Fkbp-rs1|Fkbp1-rs|Fkbp6|Fkbprp	FK506 binding protein 10	protein-coding	9.5	23.0	5.5	106.0	6.0	4.0	1.0	1.5
Merged-chr4-99177463-4	chr4	99177374	99177574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16460.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	48.0	61.5	62.0	857.5	112.5	32.0	45.0	46.5
Merged-chr1-181016691-4	chr1	181016603	181016803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010145, intron 1 of 8)	intron (NM_010145, intron 1 of 8)	866.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	40.5	51.5	73.5	1187.0	117.5	30.5	55.5	72.5
Merged-chr2-148573348-4	chr2	148573248	148573448	+	944.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99267.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	14.5	28.5	15.0	142.5	50.0	16.0	6.0	10.0
Merged-chr16-21998155-3	chr16	21998071	21998271	+	805.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2629.0	NM_001289581	239759.0	Mm.33192	NM_153404	ENSMUSG00000044626	Liph	C130037N08Rik|D16Wsu119e|H06|Lpdlr|P3|PLA1B|lpd1|lpd2|mPA-PLA1	lipase, member H	protein-coding	9.5	21.0	14.5	104.0	16.0	9.5	11.0	11.5
Merged-chr13-23517698-4	chr13	23517598	23517798	+	866.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Met-i|tRNA|tRNA	-13346.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	9.5	8.5	7.5	136.0	28.5	7.5	14.0	9.5
Merged-chr3-137952999-4	chr3	137952905	137953105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	28544.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	23.5	21.0	20.0	291.5	87.5	31.0	34.5	26.0
Merged-chr2-132595922-4	chr2	132595822	132596022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2274.0	NR_033468	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	81.5	119.0	44.5	952.0	118.5	56.5	50.0	62.5
Merged-chr1-37478073-4	chr1	37477947	37478147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 5 of 15)	L1MC|LINE|L1	10558.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	36.5	64.5	40.0	598.0	95.0	25.0	39.0	40.5
Merged-chr7-5101476-4	chr7	5101410	5101610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15401.0	NM_001145013	192658.0	Mm.28764	NM_138954	ENSMUSG00000035191	Rfpl4	D7Ertd486e|Rfpl4a	ret finger protein-like 4	protein-coding	96.0	145.0	139.5	2128.5	243.5	89.5	137.0	105.0
Merged-chr17-34091084-2	chr17	34090941	34091141	+	910.75	f1_balb.idr|f1_c57bl6.idr	intron (NR_046183, intron 3 of 4)	intron (NR_046183, intron 3 of 4)	-1338.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	2.0	5.0	0.0	27.5	15.0	10.0	5.5	5.0
Merged-chr17-56339035-2	chr17	56338935	56339135	+	950.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172132, intron 1 of 22)	intron (NM_172132, intron 1 of 22)	12985.0	NM_001357909	193796.0	Mm.45047	NM_172132	ENSMUSG00000024201	Kdm4b	4732474L06Rik|Jmjd2b	lysine (K)-specific demethylase 4B	protein-coding	1.5	3.0	0.5	47.0	6.5	8.0	13.0	6.0
Merged-chr9-96530829-4	chr9	96530732	96530932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52157.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	74.0	131.0	102.0	1503.0	307.0	94.5	134.0	136.5
Merged-chr7-100946656-3	chr7	100946585	100946785	+	848.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	-14524.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	18.5	23.0	25.0	231.5	8.0	8.0	7.0	10.5
Merged-chr3-30602476-4	chr3	30602379	30602579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030557, exon 1 of 8)	5' UTR (NM_030557, exon 1 of 8)	392.0	NM_001289622	80732.0	Mm.200378	NM_030557	ENSMUSG00000037730	Mynn	2810011C24Rik|AA415053|AI661031|AW049392|Mynr|SBBIZ1	myoneurin	protein-coding	74.0	162.5	214.5	1468.5	212.0	84.5	81.0	127.0
Merged-chr5-96919198-4	chr5	96919111	96919311	+	859.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2061.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	14.5	14.0	10.0	267.0	42.0	4.5	17.5	17.0
Merged-chr17-74338698-4	chr17	74338562	74338762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162870)	promoter-TSS (NM_001162870)	-325.0	NM_001357738	50850.0	Mm.19804	NM_016962	ENSMUSG00000024068	Spast	Spg4|mKIAA1083	spastin	protein-coding	45.0	59.5	39.5	728.0	77.5	35.5	40.5	52.5
Merged-chr7-99781557-4	chr7	99781451	99781651	+	949.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14387.0	NM_146356	258353.0	Mm.377450	NM_146356	ENSMUSG00000073997	Olfr521	MOR101-2	olfactory receptor 521	protein-coding	15.0	23.5	16.5	367.0	53.0	12.0	18.0	13.0
Merged-chr11-52094796-4	chr11	52094715	52094915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4009.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	90.5	55.5	69.5	1263.5	117.5	38.0	54.5	51.5
Merged-chr10-82048176-4	chr10	82048095	82048295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001319203)	promoter-TSS (NM_001319203)	68.0	NM_001024626	408062.0	Mm.391409	NM_001024626	ENSMUSG00000061371	Zfp873	-	zinc finger protein 873	protein-coding	26.0	37.5	44.0	574.5	67.5	26.0	37.0	43.5
Merged-chr16-45377561-3	chr16	45377457	45377657	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31496.0	NM_001358443	17470.0	Mm.245851	NM_010818	ENSMUSG00000022661	Cd200	Mox2|OX2	CD200 antigen	protein-coding	63.0	45.5	73.5	582.0	2.0	0.5	2.0	1.0
Merged-chr4-129820027-4	chr4	129819913	129820113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164745)	promoter-TSS (NM_001164745)	-466.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	195.5	333.5	191.0	2703.0	511.5	226.5	258.0	195.5
Merged-chr12-99956598-4	chr12	99956498	99956698	+	879.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7901.0	NM_001164426	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	20.0	21.0	16.0	313.5	30.0	4.5	11.5	14.5
Merged-chr11-97051341-2	chr11	97051241	97051441	+	971.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310509, intron 1 of 22)	intron (NM_001310509, intron 1 of 22)	521.0	NM_001081434	71240.0	Mm.190450	NM_001081434	ENSMUSG00000038534	Osbpl7	4933437E18Rik	oxysterol binding protein-like 7	protein-coding	4.0	13.5	3.0	26.0	14.5	5.0	7.0	9.0
Merged-chr2-52425712-3	chr2	52425586	52425786	+	702.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182994)	promoter-TSS (NM_182994)	-812.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	2.0	5.5	10.0	22.5	7.5	5.0	4.5	6.0
Merged-chr8-46640018-4	chr8	46639914	46640114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009810)	TTS (NM_009810)	22723.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	55.0	61.5	65.0	808.5	83.0	36.5	43.5	31.0
Merged-chr12-81780760-3	chr12	81780669	81780869	+	915.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177395, exon 1 of 8)	exon (NM_177395, exon 1 of 8)	401.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	5.5	10.5	9.5	143.0	18.5	14.5	7.5	4.0
Merged-chr10-87841774-4	chr10	87841682	87841882	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16483.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	20.0	40.5	28.5	375.5	70.0	15.5	17.5	23.0
Merged-chr9-123863368-4	chr9	123863276	123863476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1347.0	NM_011798	23832.0	Mm.390241	NM_011798	ENSMUSG00000060509	Xcr1	Ccxcr1|Gpr5|mXcr1	chemokine (C motif) receptor 1	protein-coding	30.5	46.0	37.5	572.5	132.0	28.0	41.0	59.0
Merged-chr6-137558994-4	chr6	137558891	137559091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271588, intron 1 of 20)	intron (NM_001271588, intron 1 of 20)	12018.0	NM_001271595	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	76.0	88.5	129.0	1863.0	165.5	52.5	83.0	76.5
Merged-chr14-64883281-4	chr14	64883212	64883412	+	950.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 4 of 9)	L1MC1|LINE|L1	66545.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	19.0	15.0	40.5	528.0	23.0	12.5	20.0	30.5
Merged-chr8-70211910-1	chr8	70211810	70212010	+	1000.0	f1_balb.idr	intron (NM_001007570, intron 1 of 7)	CpG	371.0	NM_001007570	73095.0	Mm.185413	NM_001007570	ENSMUSG00000002346	Slc25a42	2900084M01Rik	solute carrier family 25, member 42	protein-coding	7.0	15.0	17.5	84.0	21.0	7.5	6.0	19.0
Merged-chr2-13785457-4	chr2	13785359	13785559	+	910.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145838, intron 2 of 7)	intron (NM_145838, intron 2 of 7)	8061.0	NM_145838	241230.0	Mm.330004	NM_145838	ENSMUSG00000003418	St8sia6	1700007J08Rik|AI314453|AI875066|ST8SiaVI|Siat8f	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6	protein-coding	17.0	21.0	12.0	171.0	59.5	8.0	13.0	4.5
Merged-chr10-62411160-3	chr10	62411051	62411251	+	819.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145419, intron 4 of 17)	intron (NM_145419, intron 4 of 17)	11306.0	NM_145419	216019.0	Mm.213213	NM_145419	ENSMUSG00000020080	Hkdc1	BC016235	hexokinase domain containing 1	protein-coding	11.5	23.5	5.5	154.0	24.5	6.0	20.5	7.5
Merged-chr11-30196014-3	chr11	30195910	30196110	+	812.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175836, intron 1 of 34)	intron (NM_175836, intron 1 of 34)	2247.0	NM_009260	20742.0	Mm.123110	NM_009260	ENSMUSG00000020315	Sptbn1	9930031C03Rik|AL033301|SPTB2|Spnb-2|Spnb2|elf1|elf3|mKIAA4049	spectrin beta, non-erythrocytic 1	protein-coding	11.0	15.5	15.0	185.5	15.0	1.5	1.5	2.0
Merged-chr1-39614601-4	chr1	39614502	39614702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36580.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	17.5	33.0	22.0	322.5	79.0	20.5	33.0	33.5
Merged-chr6-146686974-4	chr6	146686876	146687076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29758.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	37.5	55.0	16.5	802.0	136.5	29.0	67.0	53.0
Merged-chr16-87634286-4	chr16	87634154	87634354	+	897.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64700.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	12.5	21.5	19.0	171.5	22.0	14.5	14.5	15.0
Merged-chr7-75667750-4	chr7	75667633	75667833	+	777.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 10 of 36)	intron (NM_029332, intron 10 of 36)	-180605.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	10.0	17.5	6.0	34.0	31.0	14.5	6.5	11.0
Merged-chr11-82270370-3	chr11	82270274	82270474	+	930.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90562.0	NM_011329	20290.0	Mm.1283	NM_011329	ENSMUSG00000020702	Ccl1	BF534335|I-309|P500|Scya1|Tca-3|Tca3	chemokine (C-C motif) ligand 1	protein-coding	19.5	22.0	16.5	180.0	11.0	10.5	10.5	10.5
Merged-chr3-129970110-4	chr3	129969951	129970151	+	974.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001293644, exon 1 of 7)	exon (NM_001293644, exon 1 of 7)	155.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	14.0	18.0	13.0	194.0	21.5	13.0	11.0	18.5
Merged-chr18-49979900-1	chr18	49979800	49980000	+	1000.0	f1_balb.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	473.0	NM_001177759	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	23.0	15.5	12.5	114.0	40.5	28.0	6.5	7.0
Merged-chr17-57194071-4	chr17	57193943	57194143	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019418, exon 1 of 4)	exon (NM_019418, exon 1 of 4)	138.0	NM_019418	50930.0	Mm.483369	NM_019418	ENSMUSG00000005824	Tnfsf14	HVEM-L|HVEML|LIGHT|LTg|Ly113|Tnlg1d	tumor necrosis factor (ligand) superfamily, member 14	protein-coding	11.0	30.5	19.5	232.5	33.0	12.0	13.0	19.5
Merged-chr2-26360143-4	chr2	26360050	26360250	+	955.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037747)	promoter-TSS (NM_001037747)	-603.0	NM_001037747	332579.0	Mm.330064	NM_001037747	ENSMUSG00000026928	Card9	Gm782	caspase recruitment domain family, member 9	protein-coding	16.5	31.0	12.0	265.0	38.5	11.5	17.0	19.5
Merged-chr8-106210076-3	chr8	106210002	106210202	+	699.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145404)	promoter-TSS (NM_145404)	831.0	NM_001007567	66432.0	Mm.269029	NM_001007567	ENSMUSG00000033106	Slc7a6os	2010007L18Rik|2400002F02Rik	solute carrier family 7, member 6 opposite strand	protein-coding	8.0	4.0	6.5	145.5	25.5	9.5	7.0	7.0
Merged-chr11-109495811-2	chr11	109495711	109495911	+	900.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361977, intron 1 of 10)	intron (NM_001361977, intron 1 of 10)	472.0	NM_001361977	74008.0	Mm.482224	NM_028710	ENSMUSG00000020604	Arsg	6330406P08Rik|AI846872|ASG	arylsulfatase G	protein-coding	3.0	1.0	7.5	63.0	15.5	11.5	8.0	8.0
Merged-chr12-79755274-3	chr12	79755169	79755369	+	999.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 8 of 10)	intron (NM_009014, intron 8 of 10)	169464.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	17.0	29.0	15.5	235.0	12.0	2.5	8.5	11.0
Merged-chr19-4204140-4	chr19	4204043	4204243	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2540.0	NM_011237	19367.0	Mm.277629	NM_011237	ENSMUSG00000024824	Rad9a	Rad9	RAD9 checkpoint clamp component A	protein-coding	16.5	19.5	7.5	165.5	39.5	9.5	10.5	17.5
Merged-chr3-129949589-4	chr3	129949485	129949685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025779, intron 1 of 7)	MLT1A|LTR|ERVL-MaLR	20621.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	52.0	66.5	51.5	1273.5	89.0	40.5	64.0	47.0
Merged-chr14-45351100-4	chr14	45351005	45351205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019637)	promoter-TSS (NM_019637)	-81.0	NM_019637	56291.0	Mm.202561	NM_019637	ENSMUSG00000053205	Styx	0610039A20Rik|hStyxb	serine/threonine/tyrosine interaction protein	protein-coding	150.0	196.0	180.0	2230.0	356.5	149.0	171.0	138.0
Merged-chr13-52078738-4	chr13	52078626	52078826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-18015.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	82.5	233.0	95.5	1000.0	219.0	89.5	83.5	47.5
Merged-chr16-44058914-4	chr16	44058802	44059002	+	837.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16894.0	NM_001359085	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	9.5	11.0	13.0	202.5	18.0	10.5	5.5	6.5
Merged-chr18-23433441-2	chr18	23433339	23433539	+	664.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361217, intron 1 of 20)	Lx3_Mus|LINE|L1	18030.0	NM_001361217	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	5.5	9.5	8.5	46.0	4.0	4.0	2.5	1.0
Merged-chr18-84311949-4	chr18	84311873	84312073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	223815.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	33.0	56.5	54.0	968.5	105.0	30.5	63.5	42.0
Merged-chr5-143475564-5	chr5	143475383	143475583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 4 of 14)	intron (NM_144915, intron 4 of 14)	10990.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	57.5	88.0	82.0	727.0	110.0	39.0	41.0	57.0
Merged-chr9-13246891-4	chr9	13246817	13247017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025534)	promoter-TSS (NM_025534)	-39.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	93.5	161.5	70.0	1124.0	351.5	131.5	166.0	121.5
Merged-chr9-116084852-4	chr9	116084738	116084938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	90525.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	71.5	66.5	88.0	1057.0	111.5	41.5	42.0	42.0
Merged-chr6-103649158-4	chr6	103649040	103649240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007697, intron 4 of 26)	SYNREP_MM|Satellite|Satellite	138264.0	NM_007697	12661.0	Mm.251288	NM_007697	ENSMUSG00000030077	Chl1	A530023M13Rik|AI465420|CALL|LICAM2	cell adhesion molecule L1-like	protein-coding	493.0	369.0	733.5	937.5	1207.5	440.5	315.0	1175.0
Merged-chr19-41265817-4	chr19	41265695	41265895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1791.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	15.5	17.5	14.0	169.5	52.5	22.0	28.0	25.5
Merged-chr4-135947133-4	chr4	135947058	135947258	+	989.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357529)	promoter-TSS (NM_001357529)	-248.0	NM_001357529	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	12.0	18.5	13.0	288.5	40.5	13.0	5.5	23.5
Merged-chr11-69465847-4	chr11	69465702	69465902	+	761.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 39 of 85)	intron (NM_001081330, intron 39 of 85)	-52127.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	4.5	26.5	7.5	28.5	26.0	9.0	6.5	7.5
Merged-chr13-44229542-4	chr13	44229417	44229617	+	973.1875	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13030.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	15.5	28.5	11.5	232.0	7.0	0.5	1.0	1.0
Merged-chr6-29527049-4	chr6	29526958	29527158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311083, intron 1 of 9)	CpG	433.0	NM_012057	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	49.0	159.0	69.5	494.0	281.0	125.0	117.5	61.0
Merged-chr2-167926253-4	chr2	167926156	167926356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-6071.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	68.5	102.0	100.5	1221.0	140.5	54.5	74.0	91.0
Merged-chr2-157095457-5	chr2	157095271	157095471	+	905.994263	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177439, intron 5 of 5)	intron (NM_001177439, intron 5 of 5)	8316.0	NM_001177439	383766.0	Mm.480305	NM_001177439	ENSMUSG00000074628	Tldc2	Gm1332	TBC/LysM associated domain containing 2	protein-coding	11.0	13.5	10.0	87.0	43.0	11.0	8.5	18.5
Merged-chr16-91847709-4	chr16	91847610	91847810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 19 of 28)	intron (NM_001110275, intron 19 of 28)	83920.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	65.0	62.0	119.0	1765.5	94.0	29.0	91.5	72.0
Merged-chr11-82041890-4	chr11	82041795	82041995	+	987.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-3817.0	NM_013654	20306.0	Mm.341574	NM_013654	ENSMUSG00000035373	Ccl7	MCP-3|Scya7|fic|marc|mcp3	chemokine (C-C motif) ligand 7	protein-coding	21.5	17.0	12.5	259.0	55.0	22.0	9.5	17.5
Merged-chr15-39362260-4	chr15	39362136	39362336	+	725.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053271, intron 5 of 26)	intron (NM_053271, intron 5 of 26)	163950.0	NM_053271	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	8.5	14.5	17.5	139.5	31.5	8.0	7.0	8.0
Merged-chr4-150110533-4	chr4	150110436	150110636	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-8808.0	NM_019741	56485.0	Mm.260220	NM_019741	ENSMUSG00000028976	Slc2a5	AI526984|Glut5|Slc5a	solute carrier family 2 (facilitated glucose transporter), member 5	protein-coding	14.0	26.0	13.5	290.5	133.5	52.5	49.0	47.0
Merged-chr2-167717428-4	chr2	167717371	167717571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26294.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	69.5	91.0	69.0	1063.0	107.0	28.5	58.0	58.0
Merged-chr2-164943077-4	chr2	164942983	164943183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5136.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	214.0	265.0	174.5	2488.0	430.5	149.0	210.0	186.0
Merged-chr13-37893219-3	chr13	37893119	37893319	+	948.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 3 of 9)	intron (NM_001039188, intron 3 of 9)	4348.0	NM_001177869	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	10.5	7.0	11.5	205.0	25.0	3.0	8.5	11.5
Merged-chr1-46078110-3	chr1	46077995	46078195	+	660.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160386, intron 2 of 65)	MTD|LTR|ERVL-MaLR	11357.0	NM_001160386	227058.0	Mm.296880	NM_001160386	ENSMUSG00000041144	Dnah7b	Dnahc7b|Gm107	dynein, axonemal, heavy chain 7B	protein-coding	8.5	9.5	6.0	69.0	33.5	10.5	15.0	12.5
Merged-chr8-71366815-4	chr8	71366673	71366873	+	843.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145780)	promoter-TSS (NM_001145780)	-75.0	NM_001145780	67023.0	Mm.41890	NM_025917	ENSMUSG00000002395	Use1	2010315L10Rik|5730403H22Rik|AV002165|D12|Ed2|Q-snare|p31	unconventional SNARE in the ER 1 homolog (S. cerevisiae)	protein-coding	4.5	6.5	13.0	35.0	19.5	9.0	12.5	11.0
Merged-chr2-90479942-4	chr2	90479841	90480041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135657)	promoter-TSS (NM_001135657)	-767.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	42.5	50.0	42.5	686.5	58.5	32.0	29.5	27.0
Merged-chr16-23332926-4	chr16	23332818	23333018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 5 of 7)	intron (NM_001252505, intron 5 of 7)	42448.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	37.0	31.5	34.5	478.0	73.5	33.5	42.5	22.5
Merged-chr1-156473199-4	chr1	156473044	156473244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	intron (NM_009230, intron 1 of 15)	1184.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	31.0	37.0	19.0	331.5	58.0	26.5	13.0	25.5
Merged-chr9-96392113-4	chr9	96392040	96392240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27709.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	181.5	318.0	209.5	2789.5	472.5	169.5	241.0	245.5
Merged-chr6-31157165-2	chr6	31157065	31157265	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_110471, intron 2 of 3)	intron (NR_110471, intron 2 of 3)	61309.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	2.0	11.5	6.0	86.5	12.5	10.5	9.0	7.5
Merged-chr4-132824164-4	chr4	132824069	132824269	+	940.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18965.0	NM_001355198	100336.0	Mm.105230	NM_146154	ENSMUSG00000028882	Ppp1r8	6330548N22Rik|AU044684|NIPP1	protein phosphatase 1, regulatory (inhibitor) subunit 8	protein-coding	13.0	18.0	6.5	175.5	42.5	12.0	20.5	31.0
Merged-chr19-55743632-4	chr19	55743513	55743713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 3 of 15)	intron (NR_138565, intron 3 of 15)	1803.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	47.0	75.5	55.5	475.0	138.5	61.0	44.0	38.0
Merged-chr1-151953733-4	chr1	151953643	151953843	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	intron (NM_197990, intron 3 of 5)	136577.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	11.0	11.5	10.5	225.5	13.0	5.0	11.5	13.5
Merged-chr12-55389880-4	chr12	55389773	55389973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 1 of 6)	intron (NM_001310583, intron 1 of 6)	5651.0	NM_001310583	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	117.5	120.0	105.0	1588.5	177.5	79.5	92.0	66.0
Merged-chr17-50470042-4	chr17	50469946	50470146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39501.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	37.5	58.0	64.5	749.5	119.5	44.0	42.0	41.0
Merged-chr18-6774854-4	chr18	6774733	6774933	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181070, intron 2 of 6)	intron (NM_181070, intron 2 of 6)	9666.0	NM_001278447	19330.0	Mm.132802	NM_181070	ENSMUSG00000073639	Rab18	AA959686	RAB18, member RAS oncogene family	protein-coding	25.0	27.5	24.5	479.5	63.5	18.5	18.0	21.0
Merged-chr4-155122856-3	chr4	155122780	155122980	+	952.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356327, intron 10 of 12)	intron (NM_001356327, intron 10 of 12)	36276.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	8.5	25.5	14.0	209.5	1.5	1.0	2.5	2.0
Merged-chr2-106974479-4	chr2	106974370	106974570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025102)	promoter-TSS (NM_001025102)	-73.0	NM_001025102	212772.0	Mm.381231	NM_173750	ENSMUSG00000027122	Arl14ep	2700007P21Rik|4930448O08Rik|ARF7EP	ADP-ribosylation factor-like 14 effector protein	protein-coding	118.5	173.5	130.5	2493.5	222.0	93.5	153.0	98.5
Merged-chr2-165855800-4	chr2	165855709	165855909	+	975.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 2 of 11)	intron (NM_001252587, intron 2 of 11)	2364.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	29.5	17.5	12.0	215.5	66.5	25.5	19.0	18.5
Merged-chr7-100988239-3	chr7	100988132	100988332	+	888.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23766.0	NM_001302347	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	6.5	19.5	7.5	114.5	23.5	14.5	9.5	8.0
Merged-chr8-45416104-4	chr8	45415991	45416191	+	807.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D2_MM|LTR|ERV1	-5472.0	NM_126166	142980.0	Mm.33874	NM_126166	ENSMUSG00000031639	Tlr3	AI957183	toll-like receptor 3	protein-coding	11.0	12.0	7.5	85.0	18.5	4.0	8.0	9.0
Merged-chr16-45970369-3	chr16	45970280	45970480	+	854.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152226, exon 3 of 3)	non-coding (NR_152226, exon 3 of 3)	24774.0	NR_152227	100503378.0	Mm.387133	NR_152226	ENSMUSG00000085826	Gm15638	Gm41457	predicted gene 15638	ncRNA	9.0	19.0	3.0	77.0	22.0	5.5	9.0	7.5
Merged-chr7-24715242-4	chr7	24715153	24715353	+	913.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_199150)	TTS (NM_199150)	5994.0	NM_199150	232972.0	Mm.293074	NM_199150	ENSMUSG00000045587	BC049730	Lypd10	cDNA sequence BC049730	protein-coding	21.0	18.0	28.5	365.0	25.5	14.5	20.0	14.0
Merged-chr5-65697918-4	chr5	65697785	65697985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081321)	promoter-TSS (NM_001081321)	-29.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	20.5	61.5	23.0	285.5	80.5	26.0	29.5	25.5
Merged-chr11-103359293-4	chr11	103359210	103359410	+	928.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_183288)	TTS (NM_183288)	4382.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	14.0	23.5	8.0	225.5	33.0	10.0	17.5	14.0
Merged-chr15-78326619-3	chr15	78326519	78326719	+	958.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358854, intron 2 of 14)	intron (NM_001358854, intron 2 of 14)	629.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	5.0	29.0	11.0	51.0	30.0	11.5	6.0	7.0
Merged-chr12-32893440-4	chr12	32893334	32893534	+	928.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	60355.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	18.5	21.0	8.0	321.5	57.0	15.5	36.0	16.5
Merged-chr9-85375279-1	chr9	85375179	85375379	+	641.666687	f0_balb.idr	Intergenic	Intergenic	-48129.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	6.0	12.0	9.5	106.0	18.0	5.0	6.0	8.5
Merged-chr13-96431904-4	chr13	96431801	96432001	+	912.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042714, intron 9 of 13)	intron (NM_001042714, intron 9 of 13)	39259.0	NM_001042714	271144.0	Mm.470057	NM_001042714	ENSMUSG00000047117	Ankdd1b	9330128J19Rik	ankyrin repeat and death domain containing 1B	protein-coding	13.0	28.0	7.0	257.0	51.0	13.5	16.5	17.0
Merged-chr16-30787690-4	chr16	30787586	30787786	+	921.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187963.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	4.0	5.0	13.0	77.5	18.5	8.0	6.5	12.5
Merged-chr7-71875460-3	chr7	71875365	71875565	+	868.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-34230.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	12.5	13.0	24.5	450.0	5.0	5.0	4.5	1.5
Merged-chr17-81668187-4	chr17	81668084	81668284	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	70203.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	28.5	38.5	26.5	491.0	92.0	17.0	22.5	30.5
Merged-chr6-29360388-4	chr6	29360282	29360482	+	953.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_184053, intron 2 of 6)	intron (NM_184053, intron 2 of 6)	12276.0	NM_007594	12321.0	Mm.392075	NM_007594	ENSMUSG00000029767	Calu	9530075H20Rik	calumenin	protein-coding	31.5	37.0	36.5	785.5	20.0	17.5	15.5	21.5
Merged-chr6-146724880-4	chr6	146724788	146724988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346666)	promoter-TSS (NM_001346666)	-42.0	NM_001346666	232533.0	Mm.322121	NM_172734	ENSMUSG00000001630	Stk38l	4930473A22Rik|Ndr2|Ndr54	serine/threonine kinase 38 like	protein-coding	171.5	277.0	184.0	2150.5	541.0	152.5	179.5	179.0
Merged-chr6-113075498-4	chr6	113075386	113075586	+	687.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027009, intron 1 of 1)	intron (NR_027009, intron 1 of 1)	1758.0	NR_027010	14910.0	Mm.280950	NR_027008	ENSMUSG00000086429	Gt(ROSA)26Sor	AV258896|Gtrgeo26|Gtrosa26|R26|ROSA26|Thumpd3as1	gene trap ROSA 26, Philippe Soriano	ncRNA	10.5	10.0	2.0	71.0	17.0	14.5	11.5	11.0
Merged-chr10-96620942-4	chr10	96620781	96620981	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007569, exon 2 of 2)	3' UTR (NM_007569, exon 2 of 2)	3880.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	19.5	26.5	15.0	191.5	39.5	19.0	13.0	7.5
Merged-chr7-130547373-4	chr7	130547283	130547483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162855)	promoter-TSS (NM_001162855)	-2.0	NM_001162855	67872.0	Mm.21714	NM_001162855	ENSMUSG00000040331	Nsmce4a	2410003A14Rik	NSE4 homolog A, SMC5-SMC6 complex component	protein-coding	53.5	86.0	66.0	921.5	175.5	57.0	86.5	56.5
Merged-chr13-60826228-4	chr13	60826138	60826338	+	725.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23394.0	NM_027344	70202.0	Mm.158337	NM_027344	ENSMUSG00000056728	Ctsll3	2310051M13Rik	cathepsin L-like 3	protein-coding	5.0	7.0	5.0	115.0	29.0	5.5	12.0	10.5
Merged-chr8-122145044-3	chr8	122144929	122145129	+	776.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137112.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	6.5	17.5	24.0	188.5	4.5	0.0	3.5	0.5
Merged-chr14-72685053-4	chr14	72684984	72685184	+	879.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 1 of 25)	intron (NM_207636, intron 1 of 25)	24919.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	14.5	25.5	12.0	206.5	27.0	9.0	9.0	9.0
Merged-chr4-129830446-4	chr4	129830345	129830545	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164745, intron 1 of 5)	intron (NM_001164745, intron 1 of 5)	9737.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	6.0	9.0	17.0	73.5	36.0	6.0	14.0	15.0
Merged-chr1-88586329-4	chr1	88586191	88586391	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	34774.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	17.5	18.0	8.0	120.0	37.5	11.0	12.0	11.0
Merged-chr6-117879496-5	chr6	117879334	117879534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	16553.0	NM_001001792	22685.0	Mm.249661	NM_008616	ENSMUSG00000042097	Zfp239	Mok-2|Mok2|Znf239	zinc finger protein 239	protein-coding	78.0	124.5	77.5	867.0	185.5	110.0	82.0	119.0
Merged-chr17-84791496-2	chr17	84791396	84791596	+	893.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028233)	promoter-TSS (NM_028233)	-710.0	NM_028233	72416.0	Mm.217027	NM_028233	ENSMUSG00000024120	Lrpprc	3110001K13Rik|C76645|Gp130|Lrp130|Lsfc	leucine-rich PPR-motif containing	protein-coding	6.0	5.5	2.5	59.5	14.0	9.5	6.0	14.5
Merged-chr19-53906316-4	chr19	53906242	53906442	+	889.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168491, intron 1 of 11)	intron (NM_001168491, intron 1 of 11)	2991.0	NM_001168491	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	13.5	6.5	17.0	244.0	17.5	14.0	11.0	10.5
Merged-chr2-18798928-4	chr2	18798845	18799045	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_131254)	TTS (NR_131254)	2873.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	13.5	21.0	6.5	333.0	58.5	23.5	24.0	16.5
Merged-chr13-117289842-4	chr13	117289670	117289870	+	839.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69197.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	5.5	4.0	6.5	87.5	24.5	11.0	7.0	7.0
Merged-chr18-67723974-2	chr18	67723874	67724074	+	727.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008977, intron 1 of 9)	CpG	647.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	11.0	23.5	18.5	246.0	34.0	16.0	22.0	24.0
Merged-chr16-87661301-4	chr16	87661203	87661403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37651.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	205.5	390.0	269.5	3662.0	678.5	255.0	205.5	172.5
Merged-chr2-171630363-2	chr2	171630247	171630447	+	749.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	332452.0	NR_040509	75655.0	Mm.396203	NR_040509	ENSMUSG00000086823	1700028P15Rik	-	RIKEN cDNA 1700028P15 gene	ncRNA	6.0	11.0	11.5	135.0	1.5	0.0	1.0	0.0
Merged-chr11-49237808-4	chr11	49237710	49237910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6381.0	NM_010794	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	15.0	24.5	25.5	346.0	44.5	16.5	30.0	43.5
Merged-chr1-191073239-4	chr1	191073132	191073332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 4 of 5)	intron (NM_198654, intron 4 of 5)	10211.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	242.5	503.5	304.5	3928.5	681.0	312.0	344.5	272.5
Merged-chr15-98807951-4	chr15	98807783	98807983	+	950.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013741)	promoter-TSS (NM_001013741)	42.0	NM_001013741	13199.0	Mm.390810	NM_001013741	ENSMUSG00000059213	Ddn	Gm748	dendrin	protein-coding	6.5	10.5	14.0	202.5	33.0	11.0	12.5	22.5
Merged-chr15-74687422-4	chr15	74687323	74687523	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14853.0	NM_018790	11838.0	Mm.491310	NM_018790	ENSMUSG00000022602	Arc	Arc3.1|C86064|arg3.1|mArc	activity regulated cytoskeletal-associated protein	protein-coding	15.0	3.0	17.0	241.5	24.0	9.5	15.0	17.0
Merged-chr11-45944065-2	chr11	45943965	45944165	+	897.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_028185, intron 1 of 3)	intron (NM_028185, intron 1 of 3)	870.0	NM_028185	72290.0	Mm.249827	NM_028185	ENSMUSG00000044847	Lsm11	2210404M20Rik|AV079530	U7 snRNP-specific Sm-like protein LSM11	protein-coding	5.0	10.5	4.5	59.0	9.5	6.5	3.0	6.0
Merged-chr5-146948648-4	chr5	146948528	146948728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025652)	promoter-TSS (NM_025652)	-29.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	60.0	98.5	65.0	1026.0	282.0	128.0	128.0	141.5
Merged-chr9-85749407-4	chr9	85749283	85749483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081282)	promoter-TSS (NM_001081282)	-49.0	NM_175371	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	126.0	175.5	102.0	1711.0	339.5	127.5	133.5	133.0
Merged-chr9-15357787-4	chr9	15357667	15357867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176976)	promoter-TSS (NM_176976)	21.0	NM_176976	319675.0	Mm.218317	NM_176976	ENSMUSG00000046111	Cep295	5830418K08Rik|5832426L23Rik|Gm1131|Kiaa1731	centrosomal protein 295	protein-coding	226.0	279.0	187.5	3440.0	622.5	254.5	333.0	216.5
Merged-chr6-71452963-4	chr6	71452862	71453062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-12325.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	80.5	138.5	72.5	849.0	115.5	47.5	50.5	38.5
Merged-chr6-108185484-4	chr6	108185363	108185563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145937, exon 1 of 9)	exon (NM_145937, exon 1 of 9)	120.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	45.0	62.0	98.5	476.5	99.0	50.5	39.5	46.0
Merged-chr10-81070013-4	chr10	81069913	81070113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022653)	promoter-TSS (NM_022653)	-70.0	NM_022653	50492.0	Mm.26995	NM_022653	ENSMUSG00000004929	Thop1	AI131655|AI327041|EP24.15	thimet oligopeptidase 1	protein-coding	264.5	394.0	171.0	2918.0	593.0	245.5	228.5	244.5
Merged-chr5-29289903-4	chr5	29289814	29290014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020295, intron 8 of 16)	intron (NM_020295, intron 8 of 16)	88476.0	NM_020295	56873.0	Mm.41572	NM_020295	ENSMUSG00000010721	Lmbr1	1110048D14Rik|AU017641	limb region 1	protein-coding	27.0	33.5	29.5	538.5	103.5	27.0	42.5	48.0
Merged-chr18-69570497-4	chr18	69570391	69570591	+	970.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	224331.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	21.0	29.0	27.0	392.5	26.5	24.5	20.5	18.0
Merged-chr12-4717583-1	chr12	4717483	4717683	+	621.0	f0_balb.idr	intron (NM_029107, intron 7 of 7)	intron (NM_029107, intron 7 of 7)	20800.0	NM_029107	74855.0	Mm.269534	NM_029107	ENSMUSG00000079177	Fam228a	4930417G10Rik	family with sequence similarity 228, member A	protein-coding	7.0	7.0	8.0	85.5	3.0	5.0	5.5	4.0
Merged-chr12-51704141-4	chr12	51704055	51704255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329698, intron 1 of 5)	intron (NM_001329698, intron 1 of 5)	-12241.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	48.5	50.5	51.0	1093.0	194.5	38.0	52.0	47.0
Merged-chr10-61151595-3	chr10	61151482	61151682	+	909.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3898.0	NM_001316674	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	13.5	12.5	10.0	100.5	28.0	6.0	7.0	7.0
Merged-chr7-105737365-4	chr7	105737233	105737433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025897)	promoter-TSS (NM_025897)	52.0	NM_133951	101867.0	Mm.231400	NM_025897	ENSMUSG00000030888	Rrp8	1500003O22Rik|2900001K19Rik|AW538116	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	protein-coding	29.5	58.5	33.5	576.0	86.0	24.0	32.0	28.0
Merged-chr10-98894612-4	chr10	98894511	98894711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B2|LTR|ERVL	-20031.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	97.5	93.5	97.5	1370.5	185.0	61.0	97.0	83.5
Merged-chr18-21000432-3	chr18	21000343	21000543	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303005)	promoter-TSS (NM_001303005)	-857.0	NM_019706	56515.0	Mm.253542	NM_019706	ENSMUSG00000024317	Rnf138	2410015A17Rik|2810480D20Rik|STRIN|Trif|Trif-d	ring finger protein 138	protein-coding	10.5	7.5	6.0	113.5	18.5	3.5	11.0	5.0
Merged-chr4-130922139-4	chr4	130922005	130922205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	8771.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	21.5	31.0	37.5	554.5	66.5	23.5	42.5	29.0
Merged-chr6-116666280-4	chr6	116666189	116666389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	L1MA4|LINE|L1	7547.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	44.0	54.5	35.0	426.0	87.0	56.5	40.5	43.5
Merged-chr12-79130799-4	chr12	79130678	79130878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009705)	promoter-TSS (NM_009705)	-10.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	119.5	169.5	115.5	1646.5	250.0	88.0	79.5	65.5
Merged-chr13-3541675-4	chr13	3541575	3541775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	intron (NM_008112, intron 1 of 10)	3600.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	84.0	93.0	95.0	1148.0	110.5	53.5	71.5	65.5
Merged-chr16-10495155-4	chr16	10495047	10495247	+	911.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302619, intron 2 of 19)	RLTR35B_MM|LTR|ERVL	5366.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	8.0	13.0	4.5	111.5	38.0	6.5	14.5	4.0
Merged-chr16-31024503-4	chr16	31024388	31024588	+	801.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 2 of 3)	intron (NM_198626, intron 2 of 3)	56944.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	13.5	6.5	6.0	119.0	27.0	13.5	10.0	5.5
Merged-chr15-57694996-3	chr15	57694902	57695102	+	926.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_199449, exon 1 of 4)	5' UTR (NM_199449, exon 1 of 4)	335.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	10.5	19.0	8.0	136.0	17.5	8.5	9.0	14.0
Merged-chr8-57530826-4	chr8	57530745	57530945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 11 of 11)	Lx7|LINE|L1	19002.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	75.5	87.5	73.0	1181.0	112.5	50.0	84.5	57.5
Merged-chr12-17741730-4	chr12	17741649	17741849	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	50940.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	31.0	30.0	33.5	477.5	48.0	15.5	18.5	18.5
Merged-chr1-55666411-4	chr1	55666291	55666491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	260445.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	24.5	31.0	15.5	437.5	63.5	49.0	41.0	31.5
Merged-chr11-86836560-4	chr11	86836464	86836664	+	932.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28904.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	12.0	19.5	9.0	167.0	39.5	16.5	18.5	21.5
Merged-chr16-22095958-4	chr16	22095874	22096074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	ORR1F|LTR|ERVL-MaLR	67325.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	43.0	56.5	52.0	673.0	68.0	20.5	28.5	38.0
Merged-chr19-45030713-6	chr19	45030467	45030667	+	897.680542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195265, intron 10 of 15)	MIRb|SINE|MIR	12432.0	NM_001130526	226154.0	Mm.28204	NM_145503	ENSMUSG00000035342	Lzts2	BC014695|LAPSER1|mKIAA1813	leucine zipper, putative tumor suppressor 2	protein-coding	6.0	9.0	5.5	41.0	17.0	2.5	6.5	4.0
Merged-chr3-84686936-4	chr3	84686819	84687019	+	855.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 3 of 6)	intron (NM_177260, intron 3 of 6)	20727.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	14.5	20.5	6.0	302.0	18.5	8.5	9.5	16.0
Merged-chr5-20256241-2	chr5	20256106	20256306	+	655.75	f0_c57.idr|f1_balb.idr	intron (NM_001170746, intron 6 of 22)	intron (NM_001170746, intron 6 of 22)	348688.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	4.5	5.0	14.5	125.0	18.0	2.0	6.5	6.0
Merged-chr7-100661493-3	chr7	100661415	100661615	+	679.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163182, intron 2 of 7)	intron (NM_001163182, intron 2 of 7)	879.0	NM_013746	27276.0	Mm.491216	NM_013746	ENSMUSG00000030701	Plekhb1	AI315628|PHR1|Phret1|evt-1	pleckstrin homology domain containing, family B (evectins) member 1	protein-coding	5.0	15.5	12.5	190.0	11.5	3.5	8.5	2.0
Merged-chr1-37479272-4	chr1	37479170	37479370	+	935.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 5 of 15)	L1M4|LINE|L1	9335.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	11.5	29.5	10.5	207.5	42.5	19.0	17.5	12.0
Merged-chr1-75168657-4	chr1	75168544	75168744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159906)	promoter-TSS (NM_001159906)	-2.0	NM_001159905	68818.0	Mm.32646	NM_026846	ENSMUSG00000026197	Zfand2b	1110060O18Rik|C81256	zinc finger, AN1 type domain 2B	protein-coding	70.5	133.0	63.5	1052.5	197.0	84.0	106.5	87.5
Merged-chr11-29373568-4	chr11	29373483	29373683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176841)	promoter-TSS (NM_176841)	-589.0	NM_176841	108686.0	Mm.338284	NM_176841	ENSMUSG00000032740	Ccdc88a	A430106J12Rik|AI848406|Ape|C130096N06Rik|C330012F17Rik|D130005J21Rik|Girdin|Giv|Grdn|Hkrp1	coiled coil domain containing 88A	protein-coding	118.5	227.0	118.0	2105.0	295.0	152.5	154.0	118.0
Merged-chr1-131438726-4	chr1	131438627	131438827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	88634.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	41.5	73.5	37.0	811.5	93.5	30.5	59.0	45.0
Merged-chr2-14228697-4	chr2	14228593	14228793	+	935.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008625)	promoter-TSS (NM_008625)	-721.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	21.0	18.0	18.5	386.5	33.0	13.5	13.5	14.5
Merged-chr14-103070212-4	chr14	103070136	103070336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033242)	promoter-TSS (NM_001033242)	20.0	NM_001033242	211286.0	Mm.295289	NM_001033242	ENSMUSG00000022125	Cln5	A730075N08Rik	ceroid-lipofuscinosis, neuronal 5	protein-coding	239.5	282.0	159.5	3104.0	519.5	211.0	246.0	196.0
Merged-chr6-4977647-4	chr6	4977541	4977741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	MTE2a|LTR|ERVL-MaLR	74321.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	40.0	109.5	45.5	801.0	72.5	34.0	36.5	50.0
Merged-chr6-114893993-4	chr6	114893907	114894107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	27814.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	164.0	233.5	144.5	1882.0	319.5	115.5	162.5	116.0
Merged-chr4-155840463-3	chr4	155840318	155840518	+	941.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024263, intron 1 of 9)	intron (NM_024263, intron 1 of 9)	738.0	NM_024263	74761.0	Mm.159028	NM_024263	ENSMUSG00000029070	Mxra8	1200013A08Rik|1700095D18Rik|AI131686|Asp3|Dicam	matrix-remodelling associated 8	protein-coding	9.5	9.0	6.0	179.5	6.5	2.5	5.0	2.5
Merged-chr8-46921320-3	chr8	46921218	46921418	+	597.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65569.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	4.5	6.0	9.0	74.5	1.5	1.0	0.0	3.0
Merged-chr12-55648303-4	chr12	55648209	55648409	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003719, intron 36 of 39)	intron (NM_001003719, intron 36 of 39)	49392.0	NM_020287	56856.0	Mm.114886	NM_020287	ENSMUSG00000045440	Insm2	Mlt1	insulinoma-associated 2	protein-coding	32.0	20.0	20.0	215.5	75.0	26.5	26.0	25.5
Merged-chr14-25745966-4	chr14	25745817	25746017	+	905.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 2 of 3)	intron (NM_001101433, intron 2 of 3)	22939.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	12.5	23.0	15.0	244.0	11.5	9.5	8.5	14.0
Merged-chr8-25518735-4	chr8	25518635	25518835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010206)	promoter-TSS (NM_010206)	-24.0	NM_001079909	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	22.0	40.5	30.0	707.0	69.0	25.5	65.0	42.5
Merged-chr3-144207730-3	chr3	144207632	144207832	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2477.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	15.0	12.5	1.5	114.0	18.0	7.0	9.0	5.5
Merged-chr2-147013880-3	chr2	147013761	147013961	+	998.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 1 of 28)	intron (NM_001356402, intron 1 of 28)	862.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	7.5	13.0	18.5	194.0	37.0	23.0	12.0	17.5
Merged-chr10-80901014-4	chr10	80900939	80901139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013895)	promoter-TSS (NM_013895)	-70.0	NM_013895	30055.0	Mm.142132	NM_013895	ENSMUSG00000020219	Timm13	D10Ertd378e|Tim9|Timm9	translocase of inner mitochondrial membrane 13	protein-coding	267.0	526.5	200.0	3885.5	850.0	359.0	306.0	263.5
Merged-chr1-33983745-4	chr1	33983653	33983853	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 3 of 102)	Lx6|LINE|L1	-28072.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	17.0	26.5	10.5	229.0	22.5	9.0	11.5	6.5
Merged-chr8-84871526-4	chr8	84871403	84871603	+	726.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027954)	promoter-TSS (NM_027954)	-608.0	NR_031759	71846.0	Mm.229128	NM_027954	ENSMUSG00000003824	Syce2	1700013H19Rik|AA407907|Cesc1	synaptonemal complex central element protein 2	protein-coding	16.5	16.0	4.5	58.0	15.5	4.5	5.5	6.0
Merged-chr8-84071942-3	chr8	84071840	84072040	+	693.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	intron (NM_009055, intron 1 of 20)	5104.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	14.5	9.5	8.0	74.5	18.5	3.5	9.0	14.5
Merged-chr6-87531198-3	chr6	87531121	87531321	+	720.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	MER5A|DNA|hAT-Charlie	2038.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	1.5	4.5	5.0	27.5	21.0	5.5	6.0	11.5
Merged-chr9-32508885-4	chr9	32508786	32508986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	32566.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	62.0	97.5	95.5	1334.0	163.0	56.5	99.0	80.5
Merged-chr12-73687573-4	chr12	73687500	73687700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	102804.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	101.5	143.0	108.5	1765.5	205.5	72.5	97.5	80.0
Merged-chr7-139400488-4	chr7	139400389	139400589	+	941.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355162)	promoter-TSS (NM_001355162)	-5.0	NM_001355162	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	14.5	18.0	2.5	137.5	30.5	7.0	14.0	14.5
Merged-chr3-58692265-4	chr3	58692146	58692346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045167)	promoter-TSS (NR_045167)	142.0	NM_009174	20439.0	Mm.2847	NM_009174	ENSMUSG00000036432	Siah2	AA415433|Sinh2	siah E3 ubiquitin protein ligase 2	protein-coding	130.5	229.0	219.5	2092.0	306.0	141.5	145.5	150.0
Merged-chr10-59735636-4	chr10	59735533	59735733	+	950.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359267, intron 3 of 11)	intron (NM_001359267, intron 3 of 11)	33070.0	NM_001291443	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	12.5	28.5	14.5	293.0	55.5	12.5	19.0	14.0
Merged-chr10-59237886-4	chr10	59237783	59237983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	15961.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	52.5	196.5	85.5	435.5	300.0	97.0	110.0	62.0
Merged-chr11-18925119-4	chr11	18925012	18925212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010789, intron 8 of 11)	intron (NM_010789, intron 8 of 11)	93857.0	NM_001193271	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	70.0	78.0	69.5	1372.5	156.0	54.0	71.5	51.0
Merged-chr8-71671737-4	chr8	71671654	71671854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029873)	promoter-TSS (NM_001029873)	3.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	56.0	68.0	29.0	832.0	144.0	42.5	49.5	66.0
Merged-chr4-133209566-4	chr4	133209458	133209658	+	841.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008154, exon 2 of 2)	3' UTR (NM_008154, exon 2 of 2)	2978.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	12.5	23.0	8.0	141.5	25.0	9.5	10.0	8.5
Merged-chr3-116601145-3	chr3	116601047	116601247	+	664.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030016, intron 1 of 11)	intron (NM_030016, intron 1 of 11)	6189.0	NM_001289571	72776.0	Mm.440836	NM_028349	ENSMUSG00000027959	Sass6	2810453L12Rik	SAS-6 centriolar assembly protein	protein-coding	9.0	17.5	5.5	105.0	10.5	6.0	5.0	10.0
Merged-chr18-53160375-4	chr18	53160279	53160479	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15913.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	9.0	23.5	24.5	175.0	43.0	7.0	14.5	15.0
Merged-chr6-100883414-2	chr6	100883314	100883514	+	700.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	49776.0	NM_182939	232314.0	Mm.27223	NM_182939	ENSMUSG00000052144	Ppp4r2	BE691708|C230060M08Rik	protein phosphatase 4, regulatory subunit 2	protein-coding	7.0	7.5	3.0	53.5	9.5	5.5	6.0	8.0
Merged-chr12-36155596-2	chr12	36155492	36155692	+	638.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_025840, intron 1 of 11)	intron (NM_025840, intron 1 of 11)	1233.0	NM_025840	66912.0	Mm.288669	NM_025840	ENSMUSG00000020547	Bzw2	1110001I24Rik|Bdm2|HSPC028	basic leucine zipper and W2 domains 2	protein-coding	1.0	2.0	4.0	20.0	7.5	5.0	5.0	5.0
Merged-chr17-71288326-4	chr17	71288242	71288442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	22669.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	134.0	223.5	143.0	2211.0	211.0	78.0	91.5	67.0
Merged-chr12-111016985-4	chr12	111016872	111017072	+	942.2625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22574.0	NR_036598	77878.0	Mm.293198	NR_036598	ENSMUSG00000113056	6030440G07Rik	-	RIKEN cDNA 6030440G07 gene	ncRNA	31.5	27.0	6.0	150.5	41.0	22.0	13.5	23.5
Merged-chr3-62496056-4	chr3	62495958	62496158	+	839.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028136, intron 5 of 24)	intron (NM_028136, intron 5 of 24)	10930.0	NM_028136	72162.0	Mm.224233	NM_028136	ENSMUSG00000027770	Dhx36	2810407E23Rik|AI452301|AU022184|Ddx36|mKIAA1488	DEAH (Asp-Glu-Ala-His) box polypeptide 36	protein-coding	10.5	7.0	7.0	156.0	38.0	12.0	16.5	12.0
Merged-chr10-119063223-3	chr10	119063137	119063337	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12738.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	48.0	53.5	56.5	948.5	123.0	46.0	74.5	64.5
Merged-chr10-78139856-4	chr10	78139741	78139941	+	929.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29927.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	23.0	78.0	36.5	265.5	47.5	9.5	19.0	11.0
Merged-chr11-117358431-4	chr11	117358305	117358505	+	926.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017380, intron 8 of 9)	intron (NM_017380, intron 8 of 9)	26092.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	17.5	38.0	6.5	257.0	84.5	16.0	10.5	13.0
Merged-chr2-32363049-4	chr2	32362959	32363159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028412)	promoter-TSS (NM_028412)	49.0	NM_001252536	68379.0	Mm.170508	NM_028412	ENSMUSG00000039205	Ciz1	0610038H21Rik|2900056O04Rik|LSFR1|ZNF356	CDKN1A interacting zinc finger protein 1	protein-coding	93.0	149.5	78.5	1206.5	187.5	99.5	89.0	64.0
Merged-chr15-78815927-4	chr15	78815874	78816074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-12932.0	NM_130859	105844.0	Mm.17629	NM_130859	ENSMUSG00000033170	Card10	AI449026|Bimp1|Carma3	caspase recruitment domain family, member 10	protein-coding	36.5	45.5	21.0	496.0	118.5	36.0	32.0	26.0
Merged-chr7-35796260-4	chr7	35796151	35796351	+	868.49585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177739, intron 2 of 6)	intron (NM_177739, intron 2 of 6)	-6341.0	NR_033567	78547.0	Mm.406883	NR_033567	ENSMUSG00000044997	E130304I02Rik	-	RIKEN cDNA E130304I02 gene	ncRNA	25.5	19.5	24.5	205.5	25.0	4.5	14.0	17.0
Merged-chr18-60625403-5	chr18	60625273	60625473	+	787.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1068.0	NM_177340	104027.0	Mm.252321	NM_177340	ENSMUSG00000043079	Synpo	9030217H17Rik|9130229N11|9330140I15Rik|AW046661	synaptopodin	protein-coding	7.0	8.0	10.0	67.5	12.0	1.5	4.0	9.0
Merged-chr15-58754785-3	chr15	58754679	58754879	+	868.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68648.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	12.0	6.0	16.5	148.5	17.5	3.0	1.0	2.5
Merged-chr6-98993414-4	chr6	98993322	98993522	+	980.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 8 of 17)	intron (NM_001197321, intron 8 of 17)	34876.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	20.5	27.0	12.5	207.0	50.5	18.0	18.0	10.5
Merged-chr2-132285912-3	chr2	132285822	132286022	+	783.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291039)	promoter-TSS (NM_001291039)	-17.0	NM_001291039	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	7.0	5.0	6.0	35.5	36.0	6.0	14.0	4.5
Merged-chr2-156475622-6	chr2	156475498	156475698	+	716.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001006664)	promoter-TSS (NM_001006664)	64.0	NM_001006664	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	15.5	18.5	11.0	151.5	18.5	10.0	5.5	9.5
Merged-chr9-63129945-3	chr9	63129830	63130030	+	681.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17050.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	8.5	8.0	7.0	149.5	10.0	3.5	2.0	6.0
Merged-chr3-68709468-4	chr3	68709359	68709559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18035.0	NM_008351	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	46.5	85.5	73.5	720.0	108.0	49.0	47.5	38.0
Merged-chr4-135495698-4	chr4	135495602	135495802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030189)	promoter-TSS (NM_030189)	-285.0	NM_030189	78806.0	Mm.374844	NM_030189	ENSMUSG00000028801	Stpg1	4930403G18Rik|4930555I21Rik|Mapo2	sperm tail PG rich repeat containing 1	protein-coding	29.0	35.5	17.5	309.0	91.0	43.5	38.0	44.0
Merged-chr7-3300411-4	chr7	3300310	3300510	+	892.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3122.0	NM_001291434	18752.0	Mm.7980	NM_011102	ENSMUSG00000078816	Prkcg	PKCgamma|Pkcc|Prkcc	protein kinase C, gamma	protein-coding	14.0	18.0	6.0	107.5	53.0	25.0	15.5	19.0
Merged-chr4-35225205-4	chr4	35225098	35225298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	intron (NM_001081343, intron 1 of 10)	682.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	125.0	185.5	175.5	2539.0	349.5	129.5	177.5	144.0
Merged-chr1-95598304-4	chr1	95598198	95598398	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	intron (NM_009183, intron 4 of 4)	69296.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	17.5	33.0	24.5	511.0	64.5	17.5	21.0	17.0
Merged-chr15-95804391-4	chr15	95804280	95804480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	13537.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	64.5	101.5	71.0	1089.0	211.0	63.0	67.5	60.5
Merged-chr17-84860139-4	chr17	84860053	84860253	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	-69367.0	NM_028233	72416.0	Mm.217027	NM_028233	ENSMUSG00000024120	Lrpprc	3110001K13Rik|C76645|Gp130|Lrp130|Lsfc	leucine-rich PPR-motif containing	protein-coding	40.0	33.5	53.0	795.5	67.5	14.0	33.0	44.0
Merged-chr10-88228776-4	chr10	88228694	88228894	+	853.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026070, intron 5 of 6)	intron (NM_026070, intron 5 of 6)	27697.0	NM_027487	67282.0	Mm.208465	NM_026070	ENSMUSG00000020056	Washc3	2900091E11Rik|5730495F03Rik|Ccdc53	WASH complex subunit 3	protein-coding	10.5	18.0	7.0	91.5	18.5	6.5	4.5	8.0
Merged-chr4-74271411-4	chr4	74271324	74271524	+	880.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 2 of 20)	intron (NM_001356561, intron 2 of 20)	19545.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	29.0	13.5	15.5	302.5	31.5	16.0	7.0	17.0
Merged-chr2-5025390-2	chr2	5025290	5025490	+	858.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356487, intron 12 of 13)	B2_Mm2|SINE|B2	-12599.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	8.5	8.0	6.5	37.0	18.0	4.5	6.5	8.5
Merged-chr2-180702057-4	chr2	180701955	180702155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175551)	promoter-TSS (NM_175551)	47.0	NM_011805	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	60.5	86.0	58.5	942.5	170.5	67.0	82.5	90.5
Merged-chr8-125569573-1	chr8	125569473	125569673	+	1000.0	f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	CpG	290.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	12.5	13.0	21.5	174.5	26.0	13.5	10.0	22.5
Merged-chr5-67815622-4	chr5	67815525	67815725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	31806.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	87.5	132.0	125.0	1887.5	257.5	92.0	100.0	98.0
Merged-chr8-123009075-4	chr8	123008990	123009190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	33194.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	19.5	31.5	20.0	352.0	67.5	22.5	18.0	23.5
Merged-chr15-41615622-4	chr15	41615532	41615732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	L3|LINE|CR1	166529.0	NM_001358977	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	56.0	91.5	62.0	1139.5	137.5	46.0	80.5	46.5
Merged-chr5-99203637-4	chr5	99203523	99203723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49304.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	60.0	53.0	33.5	730.5	94.5	38.5	22.5	31.5
Merged-chr12-4082838-4	chr12	4082667	4082867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153082, exon 1 of 7)	5' UTR (NM_153082, exon 1 of 7)	193.0	NM_153082	217378.0	Mm.271656	NM_153082	ENSMUSG00000020657	Dnajc27	AI639580|C330021A05Rik|Rabj|Rbj	DnaJ heat shock protein family (Hsp40) member C27	protein-coding	62.0	120.5	85.0	875.0	131.0	50.5	46.5	53.0
Merged-chr17-6142211-3	chr17	6142128	6142328	+	996.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054040, intron 1 of 13)	intron (NM_054040, intron 1 of 13)	4080.0	NM_054040	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	16.0	37.5	27.0	98.0	12.0	6.0	3.5	5.5
Merged-chr18-38372659-4	chr18	38372578	38372778	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-33685.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	9.0	28.5	5.0	110.0	54.0	18.5	19.0	7.5
Merged-chr18-25621499-3	chr18	25621405	25621605	+	776.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 2 of 12)	intron (NM_001362322, intron 2 of 12)	58243.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	7.0	14.5	6.5	111.5	9.0	2.0	2.5	6.5
Merged-chr16-85262322-1	chr16	85262222	85262422	+	797.666687	f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-88615.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	0.0	0.0	1.0	0.5	8.0	10.5	10.5	6.5
Merged-chr18-64991486-6	chr18	64991363	64991563	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-32064.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	8.0	8.5	7.5	122.5	22.0	8.5	10.5	6.0
Merged-chr6-54955266-4	chr6	54955224	54955424	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	16337.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	4.5	10.0	2.5	86.0	38.5	21.0	14.5	18.5
Merged-chr11-54485182-1	chr11	54485082	54485282	+	659.0	f0_balb.idr	intron (NM_173753, intron 6 of 17)	intron (NM_173753, intron 6 of 17)	-37663.0	NM_001252494	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	4.5	6.0	10.0	78.0	7.0	2.0	8.5	9.5
Merged-chr13-22040428-3	chr13	22040327	22040527	+	822.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175656)	TTS (NM_175656)	935.0	NM_175656	319158.0	Mm.14775	NM_175656	ENSMUSG00000060639	Hist1h4i	-	histone cluster 1, H4i	protein-coding	5.5	6.5	11.0	30.5	23.0	10.5	14.0	3.5
Merged-chr2-166293159-4	chr2	166293069	166293269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033467, intron 2 of 2)	intron (NR_033467, intron 2 of 2)	19261.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	67.0	118.0	32.0	686.5	115.0	43.5	50.0	52.0
Merged-chr4-152009778-4	chr4	152009733	152009933	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033352, exon 1 of 4)	exon (NM_001033352, exon 1 of 4)	942.0	NM_001033352	242785.0	Mm.22306	NM_001033352	ENSMUSG00000073700	Klhl21	1810045K06Rik|D330008A20|mKIAA0469	kelch-like 21	protein-coding	10.0	13.0	21.0	160.5	27.5	11.5	10.5	13.5
Merged-chr3-121369649-4	chr3	121369549	121369749	+	995.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-56892.0	NM_028044	71994.0	Mm.275555	NM_028044	ENSMUSG00000053931	Cnn3	1600014M03Rik|C85854|Calpo3	calponin 3, acidic	protein-coding	14.5	22.0	18.0	267.0	37.0	23.5	36.5	31.0
Merged-chr6-43848041-3	chr6	43847915	43848115	+	775.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-181737.0	NM_001311111	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	8.5	6.5	12.5	121.0	10.5	2.0	0.5	3.0
Merged-chr10-117375315-4	chr10	117375208	117375408	+	796.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013391, intron 1 of 9)	intron (NM_001013391, intron 1 of 9)	1665.0	NM_001013391	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	8.5	19.0	3.0	105.5	29.0	9.0	14.0	8.0
Merged-chr5-21213978-4	chr5	21213880	21214080	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 5 of 26)	intron (NR_153365, intron 5 of 26)	27713.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	34.5	25.5	19.0	364.5	55.0	9.5	21.5	19.5
Merged-chr5-134688827-4	chr5	134688732	134688932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010717)	promoter-TSS (NM_010717)	-242.0	NM_010717	16885.0	Mm.15409	NM_010717	ENSMUSG00000029674	Limk1	KIZ-1|LIMK-1|Limk	LIM-domain containing, protein kinase	protein-coding	349.0	711.0	322.0	4648.5	909.0	389.0	406.5	352.5
Merged-chr7-96476919-4	chr7	96476803	96477003	+	930.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 3 of 32)	intron (NM_011858, intron 3 of 32)	-134939.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	13.0	11.0	22.5	172.5	13.0	6.5	10.5	15.5
Merged-chr11-8689047-4	chr11	8688936	8689136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24501.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	93.5	80.0	90.0	1241.0	207.5	82.0	88.0	82.0
Merged-chr11-3188472-2	chr11	3188368	3188568	+	972.916626	f0_balb.idr|f0_c57.idr	intron (NM_030207, intron 2 of 32)	intron (NM_030207, intron 2 of 32)	4995.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	21.0	16.5	15.0	239.0	70.5	18.0	14.0	60.5
Merged-chr7-65475910-4	chr7	65475825	65476025	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-104681.0	NM_009386	21872.0	Mm.4342	NM_009386	ENSMUSG00000030516	Tjp1	ZO1	tight junction protein 1	protein-coding	14.0	16.5	27.0	490.0	57.5	17.5	20.5	29.0
Merged-chr13-3373155-4	chr13	3373099	3373299	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105104.0	NR_015522	76937.0	Mm.487240	NR_015522	ENSMUSG00000097709	2810429I04Rik	AI256682	RIKEN cDNA 2810429I04 gene	ncRNA	38.0	46.5	52.5	342.0	25.5	20.0	18.0	44.0
Merged-chr11-70490393-4	chr11	70490276	70490476	+	955.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-14898.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	11.0	37.0	20.5	188.0	53.5	14.0	15.5	19.5
Merged-chr5-63827934-2	chr5	63827841	63828041	+	993.5833130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	15446.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	5.5	6.5	5.0	23.0	8.0	6.5	5.5	6.0
Merged-chr8-70854078-3	chr8	70854001	70854201	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032397, intron 3 of 9)	intron (NM_032397, intron 3 of 9)	2907.0	NM_032397	84036.0	Mm.32074	NM_032397	ENSMUSG00000002908	Kcnn1	AI854248|KCa2.1|SK1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	protein-coding	7.5	12.0	5.0	165.0	13.5	6.0	7.0	6.0
Merged-chr9-60832908-3	chr9	60832810	60833010	+	880.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357408, intron 1 of 19)	L1MB2|LINE|L1	38468.0	NM_001357407	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	13.5	9.5	10.0	180.5	14.5	1.0	4.5	4.0
Merged-chr6-28882504-3	chr6	28882420	28882620	+	871.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 18 of 23)	intron (NM_019776, intron 18 of 23)	-50773.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	6.5	5.5	5.5	67.5	10.5	3.0	6.0	5.5
Merged-chr12-16894079-4	chr12	16893976	16894176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009072)	promoter-TSS (NM_009072)	-902.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	131.5	186.5	130.0	2212.0	280.5	99.0	136.0	97.0
Merged-chr1-36447101-1	chr1	36447001	36447201	+	615.333313	f0_balb.idr	Intergenic	Intergenic	-1830.0	NM_001310517	214895.0	Mm.287854	NM_001013374	ENSMUSG00000001143	Lman2l	A630028F14Rik|VIP36-like|VIPL	lectin, mannose-binding 2-like	protein-coding	6.0	9.5	12.0	80.0	12.0	7.0	5.0	2.5
Merged-chr5-122951749-4	chr5	122951605	122951805	+	923.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 6 of 22)	intron (NM_001003953, intron 6 of 22)	37394.0	NM_001003953	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	13.5	14.0	14.5	242.5	48.0	12.0	19.0	9.5
Merged-chr3-87017234-4	chr3	87017147	87017347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-17907.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	51.5	53.5	35.0	485.0	101.5	34.0	42.5	37.5
Merged-chr1-75477438-4	chr1	75477375	75477575	+	831.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001001566, exon 2 of 4)	exon (NM_001001566, exon 2 of 4)	1996.0	NM_001001566	74241.0	Mm.260577	NM_001001565	ENSMUSG00000032997	Chpf	1700028N03Rik|AI414328|D1Bwg1363e	chondroitin polymerizing factor	protein-coding	10.0	8.5	5.0	40.5	4.5	9.0	5.5	22.5
Merged-chr13-67332516-4	chr13	67332429	67332629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177622)	promoter-TSS (NM_177622)	31.0	NM_177622	218314.0	Mm.289695	NM_177622	ENSMUSG00000057842	Zfp595	A230042K10Rik|Rslcan23	zinc finger protein 595	protein-coding	138.5	193.0	104.0	1651.0	445.0	137.5	170.5	115.5
Merged-chr7-83878359-4	chr7	83878246	83878446	+	931.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5995.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	27.5	14.5	9.0	320.5	42.0	10.0	16.0	17.0
Merged-chr11-49713593-1	chr11	49713493	49713693	+	680.5	f0_balb.idr	promoter-TSS (NM_212484)	promoter-TSS (NM_212484)	-871.0	NM_212484	104625.0	Mm.247113	NM_212484	ENSMUSG00000020362	Cnot6	CCR4	CCR4-NOT transcription complex, subunit 6	protein-coding	12.5	6.5	10.0	99.5	13.5	6.0	5.0	12.0
Merged-chr12-91764495-4	chr12	91764396	91764596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	21940.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	46.0	47.5	73.5	1244.5	123.5	34.0	46.0	71.5
Merged-chr16-38731103-4	chr16	38731006	38731206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11153.0	NR_152434	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	31.5	60.5	21.5	518.5	111.0	24.5	62.0	27.5
Merged-chr7-16256156-3	chr7	16256044	16256244	+	890.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	ID_B1|SINE|B4	3194.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	6.0	10.0	4.5	73.0	17.0	6.5	1.5	8.0
Merged-chr12-76373162-3	chr12	76372976	76373176	+	915.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	PB1D10|SINE|Alu	2810.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	6.5	6.5	8.5	25.0	11.5	5.5	5.0	4.0
Merged-chr8-106148099-4	chr8	106148021	106148221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2233.0	NM_133792	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	39.0	57.5	52.0	726.5	134.0	42.0	54.0	76.0
Merged-chr2-18063876-4	chr2	18063819	18064019	+	991.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045539)	promoter-TSS (NR_045539)	-666.0	NM_001252560	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	36.0	49.5	17.5	577.5	99.5	22.0	36.0	45.0
Merged-chr3-61321868-4	chr3	61321787	61321987	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42620.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	27.5	41.5	24.5	519.5	55.5	17.5	19.0	11.5
Merged-chr10-80931137-2	chr10	80931037	80931237	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008655, exon 3 of 4)	exon (NM_008655, exon 3 of 4)	1046.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	7.5	11.0	1.5	79.5	49.0	12.0	10.0	10.5
Merged-chr19-4839390-4	chr19	4839291	4839491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207268)	promoter-TSS (NM_207268)	25.0	NM_207268	399599.0	Mm.444704	NM_207268	ENSMUSG00000067872	Ccdc87	4931419P11Rik	coiled-coil domain containing 87	protein-coding	150.0	257.5	99.0	1807.5	374.0	113.0	151.5	92.5
Merged-chr13-46634264-4	chr13	46634154	46634354	+	916.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026056, intron 7 of 12)	intron (NM_026056, intron 7 of 12)	-35268.0	NM_001033192	97863.0	Mm.275934	NM_001033192	ENSMUSG00000069237	Fam8a1	C78339	family with sequence similarity 8, member A1	protein-coding	25.5	18.0	10.0	286.5	66.5	10.5	23.0	24.5
Merged-chr7-55957377-4	chr7	55957294	55957494	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023647, intron 1 of 6)	intron (NM_023647, intron 1 of 6)	5099.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	35.0	55.5	15.0	299.0	93.5	23.5	20.0	21.0
Merged-chr16-33966356-3	chr16	33966278	33966478	+	765.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009471, intron 1 of 5)	intron (NM_009471, intron 1 of 5)	660.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	13.0	16.5	8.0	93.0	4.5	9.5	2.0	2.5
Merged-chr12-40558822-4	chr12	40558723	40558923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	112770.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	106.0	163.0	68.5	1041.5	274.0	49.0	93.0	72.0
Merged-chr1-119893176-4	chr1	119893086	119893286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER30|DNA|hAT-Charlie	19982.0	NM_175106	66343.0	Mm.49942	NM_175106	ENSMUSG00000036975	Tmem177	2300008B03Rik	transmembrane protein 177	protein-coding	19.5	35.5	25.0	355.0	69.5	11.5	20.0	7.0
Merged-chr13-62956870-3	chr13	62956812	62957012	+	659.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-7981.0	NM_001289926	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	9.0	10.0	4.5	120.5	10.5	3.5	2.0	3.0
Merged-chr18-46575555-8	chr18	46575367	46575567	+	863.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173394)	promoter-TSS (NM_173394)	-934.0	NM_173394	225471.0	Mm.149280	NM_173394	ENSMUSG00000056130	Ticam2	B430113A10|TICAM-2|TRAM|Tirp|Trif	toll-like receptor adaptor molecule 2	protein-coding	5.5	0.5	10.0	106.0	27.5	11.0	7.5	4.5
Merged-chr8-46932068-4	chr8	46931952	46932152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D5|LTR|ERVK	-54835.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	42.5	91.5	40.0	136.5	67.5	16.0	33.0	19.5
Merged-chr10-43856529-4	chr10	43856437	43856637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	30630.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	89.0	121.5	95.5	1615.5	235.5	72.5	87.5	75.0
Merged-chr10-82901622-4	chr10	82901528	82901728	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35002.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	13.5	15.5	15.5	153.0	50.0	24.0	33.0	16.5
Merged-chr15-78448395-4	chr15	78448286	78448486	+	800.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355601, intron 10 of 17)	intron (NM_001355601, intron 10 of 17)	19822.0	NR_110357	72844.0	Mm.390816	NM_001081367	ENSMUSG00000033287	Kctd17	2900008M13Rik|AA414907|AW742389|N28155	potassium channel tetramerisation domain containing 17	protein-coding	13.5	14.5	5.5	68.5	25.5	19.5	16.0	8.0
Merged-chr18-56479643-3	chr18	56479607	56479807	+	712.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360917, intron 5 of 13)	intron (NM_001360917, intron 5 of 13)	47575.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	8.0	15.5	5.0	198.5	15.0	3.0	8.5	14.5
Merged-chr6-83649220-3	chr6	83649112	83649312	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016751, intron 4 of 6)	intron (NM_016751, intron 4 of 6)	6904.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	6.5	4.5	19.0	334.0	9.5	1.0	7.0	13.0
Merged-chr13-45625954-3	chr13	45625846	45626046	+	966.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 5 of 6)	MIRb|SINE|MIR	118502.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	19.0	21.0	10.0	147.0	17.5	4.0	9.5	5.0
Merged-chr18-70478006-4	chr18	70477874	70478074	+	940.854126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289650, intron 5 of 8)	intron (NM_001289650, intron 5 of 8)	5308.0	NM_001289650	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	21.0	38.5	13.0	325.5	48.5	9.0	13.0	13.5
Merged-chr6-124478164-4	chr6	124478077	124478277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13393.0	NM_153508	232370.0	Mm.193701	NM_153508	ENSMUSG00000008153	Clstn3	CSTN3|Cs3|Cst-3|alc-beta	calsyntenin 3	protein-coding	74.5	127.5	67.5	638.5	198.5	77.5	60.0	69.0
Merged-chr4-41348029-4	chr4	41347931	41348131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290454)	promoter-TSS (NM_001290454)	-965.0	NM_001355509	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	35.5	34.5	22.5	526.5	83.5	23.0	42.0	46.0
Merged-chr12-40245673-4	chr12	40245587	40245787	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22323.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	21.0	28.0	17.5	188.5	30.0	11.5	37.0	11.5
Merged-chr2-33962225-3	chr2	33962119	33962319	+	854.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-74273.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	2.0	3.0	2.0	68.5	20.0	6.0	9.0	10.0
Merged-chr11-120633653-4	chr11	120633562	120633762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010756)	promoter-TSS (NM_010756)	-115.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	81.5	160.0	46.5	855.5	214.5	73.5	59.5	67.0
Merged-chr2-167885769-4	chr2	167885688	167885888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46539.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	55.5	78.0	42.5	520.5	126.5	54.5	61.0	32.5
Merged-chr4-32163025-1	chr4	32162925	32163125	+	862.0	f0_balb.idr	Intergenic	Intergenic	198918.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	5.5	16.0	5.0	127.5	16.5	2.0	5.0	8.5
Merged-chr12-85569570-3	chr12	85569519	85569719	+	861.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29486.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	7.0	8.5	13.5	101.5	11.5	3.5	6.5	9.0
Merged-chr4-142077176-1	chr4	142077076	142077276	+	641.5	f0_balb.idr	intron (NM_145402, intron 1 of 2)	ID_B1|SINE|B4	-7122.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	10.0	5.5	11.5	101.0	18.0	1.5	2.5	4.5
Merged-chr5-142926539-4	chr5	142926440	142926640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19786.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	30.0	25.5	22.0	337.0	74.5	26.0	44.0	30.5
Merged-chr5-3421411-4	chr5	3421311	3421511	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 3 of 7)	L1_Mus1|LINE|L1	77518.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	19.5	19.5	22.0	52.5	45.0	26.0	37.0	35.0
Merged-chr11-101562635-4	chr11	101562530	101562730	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008676, intron 7 of 23)	B2_Mm2|SINE|B2	9976.0	NM_001252223	17966.0	Mm.784	NM_008676	ENSMUSG00000017119	Nbr1	mKIAA0049	neighbor of Brca1 gene 1	protein-coding	20.5	63.5	24.5	297.0	82.5	29.5	19.5	28.0
Merged-chr9-7869407-4	chr9	7869269	7869469	+	902.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	intron (NM_007464, intron 1 of 8)	3801.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	18.0	15.0	7.0	107.5	27.5	11.5	10.5	13.0
Merged-chr2-155755922-4	chr2	155755823	155756023	+	934.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011171)	TTS (NM_011171)	4706.0	NM_011171	19124.0	Mm.3243	NM_011171	ENSMUSG00000027611	Procr	AI325044|Ccca|Ccd41|Epcr	protein C receptor, endothelial	protein-coding	11.0	13.5	3.0	117.0	88.5	28.5	20.5	18.0
Merged-chr7-141476818-3	chr7	141476741	141476941	+	915.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252588, intron 1 of 7)	intron (NM_001252588, intron 1 of 7)	461.0	NM_001252588	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	11.5	8.5	13.5	104.0	24.5	8.0	10.0	13.5
Merged-chr11-105447907-3	chr11	105447821	105448021	+	633.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039242, intron 3 of 5)	intron (NM_001039242, intron 3 of 5)	8814.0	NM_172568	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	5.5	12.5	8.0	100.5	9.0	6.5	8.5	7.5
Merged-chr4-136462774-7	chr4	136462661	136462861	+	832.071411	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7000.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	3.5	8.5	5.0	89.5	17.5	7.5	6.5	15.0
Merged-chr6-31233459-4	chr6	31233359	31233559	+	881.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040260, intron 1 of 5)	L3|LINE|CR1	13108.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	11.0	11.0	11.5	248.5	46.0	11.5	9.0	9.0
Merged-chr11-43656688-4	chr11	43656594	43656794	+	912.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25304.0	NM_027557	70802.0	Mm.397449	NM_027557	ENSMUSG00000044950	Pwwp2a	4631424J17Rik|AI891583|AU024105|D930040F23Rik	PWWP domain containing 2A	protein-coding	11.0	34.0	22.5	305.5	26.0	14.0	14.5	13.5
Merged-chr9-105408233-3	chr9	105408148	105408348	+	905.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	7460.0	NM_001164828	66595.0	Mm.84941	NM_025651	ENSMUSG00000032567	Aste1	1100001A21Rik|AV006403	asteroid homolog 1	protein-coding	2.0	3.0	0.0	37.5	47.0	18.5	26.0	29.5
Merged-chr15-93595839-5	chr15	93595719	93595919	+	977.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033217)	promoter-TSS (NM_001033217)	72.0	NM_001033217	106042.0	Mm.150314	NM_001033217	ENSMUSG00000036158	Prickle1	1110058P22Rik|AW215793|Prickle|b2b019Clo|mpk1	prickle planar cell polarity protein 1	protein-coding	13.5	11.0	9.5	101.5	10.5	3.0	2.5	6.0
Merged-chr7-114291625-4	chr7	114291579	114291779	+	945.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15563.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	14.0	16.5	18.5	172.5	24.0	10.5	16.0	22.5
Merged-chr18-75502776-4	chr18	75502686	75502886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 9 of 11)	intron (NM_201354, intron 9 of 11)	-11859.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	32.0	29.0	85.0	971.5	178.5	52.0	98.0	84.0
Merged-chr2-13561403-4	chr2	13561295	13561495	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12916.0	NM_011701	22352.0	Mm.268000	NM_011701	ENSMUSG00000026728	Vim	-	vimentin	protein-coding	25.0	30.5	6.0	170.0	53.5	19.5	16.5	15.0
Merged-chr3-27710094-2	chr3	27709994	27710194	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 1 of 26)	CpG	358.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	12.0	27.0	10.0	279.5	42.0	10.5	16.5	32.0
Merged-chr1-119495201-4	chr1	119495164	119495364	+	876.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022327, intron 1 of 4)	intron (NM_022327, intron 1 of 4)	9518.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	10.5	16.0	7.5	94.0	12.0	5.5	4.5	6.0
Merged-chr8-84601646-3	chr8	84601557	84601757	+	669.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252060, intron 32 of 47)	intron (NM_001252060, intron 32 of 47)	61195.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	0.5	1.0	0.0	0.0	21.5	8.5	4.5	18.0
Merged-chr6-35253178-4	chr6	35253084	35253284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027875, intron 1 of 2)	intron (NR_027875, intron 1 of 2)	452.0	NR_027875	67705.0	Mm.228046	NR_015608	ENSMUSG00000073155	1810058I24Rik	AI414869|AI848234	RIKEN cDNA 1810058I24 gene	ncRNA	40.0	63.5	22.5	486.5	104.0	46.0	33.0	38.0
Merged-chr2-91498430-4	chr2	91498351	91498551	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 31 of 37)	intron (NM_172668, intron 31 of 37)	-28311.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	5.0	16.5	9.5	58.0	86.0	42.0	26.5	33.5
Merged-chr6-82740396-3	chr6	82740314	82740514	+	921.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 7 of 17)	intron (NM_013820, intron 7 of 17)	34040.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	5.0	12.0	6.5	70.0	86.0	28.5	13.5	14.5
Merged-chr3-88149198-4	chr3	88149105	88149305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310593, intron 1 of 10)	intron (NM_001310593, intron 1 of 10)	6833.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	43.0	50.5	26.5	482.0	90.0	42.5	50.0	45.0
Merged-chr12-108641573-2	chr12	108641473	108641673	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	5820.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	8.5	21.5	17.5	246.5	51.0	14.0	20.5	19.5
Merged-chr7-126884872-4	chr7	126884762	126884962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001163775, exon 1 of 16)	5' UTR (NM_001163775, exon 1 of 16)	105.0	NM_001163775	381921.0	Mm.259634	NM_001163774	ENSMUSG00000059981	Taok2	1110033K02Rik|B230344N16|MAP3K17|PSK|PSK1|TAO1|TAO2|mKIAA0881	TAO kinase 2	protein-coding	192.0	373.5	146.0	2446.5	414.5	212.0	202.5	181.0
Merged-chr10-128590422-4	chr10	128590328	128590528	+	828.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010153)	promoter-TSS (NM_010153)	-927.0	NM_010153	13867.0	Mm.373043	NM_010153	ENSMUSG00000018166	Erbb3	C76256|Erbb-3|Erbb3r|Her3	erb-b2 receptor tyrosine kinase 3	protein-coding	13.0	8.5	13.0	118.5	17.0	7.5	8.5	16.5
Merged-chr17-71251346-4	chr17	71251213	71251413	+	930.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357336)	TTS (NM_001357336)	46659.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	50.5	94.5	59.5	484.0	42.0	11.5	9.0	15.0
Merged-chr18-39491590-4	chr18	39491484	39491684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4339.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	46.0	82.0	74.0	626.0	111.5	50.0	91.0	63.5
Merged-chr5-105139621-4	chr5	105139514	105139714	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256005)	promoter-TSS (NM_001256005)	-28.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	27.5	23.0	15.0	65.0	88.0	21.0	30.5	30.5
Merged-chr7-45361574-4	chr7	45361463	45361663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029741, intron 2 of 29)	CpG	-4598.0	NR_015480	50994.0	Mm.389897	NM_016664	ENSMUSG00000091510	Mtag2	MAG	metastasis associated gene 2	ncRNA	27.0	38.5	16.5	300.0	41.5	18.0	29.5	47.0
Merged-chr10-99460007-4	chr10	99459928	99460128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149143.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	178.5	247.0	141.5	2327.0	319.5	115.5	113.0	99.0
Merged-chr10-68136670-4	chr10	68136564	68136764	+	996.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 4 of 9)	intron (NM_023598, intron 4 of 9)	142062.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	36.5	40.0	30.5	520.0	41.5	19.0	30.5	18.0
Merged-chr11-117958419-4	chr11	117958345	117958545	+	979.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10921.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	21.5	30.5	17.5	169.5	22.0	10.5	5.0	13.5
Merged-chr11-53298718-2	chr11	53298618	53298818	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008300, intron 1 of 18)	intron (NM_008300, intron 1 of 18)	1761.0	NM_008300	15525.0	Mm.239865	NM_008300	ENSMUSG00000020361	Hspa4	70kDa|AI317151|APG-2|Hsp110|Hsp70RY|mKIAA4025	heat shock protein 4	protein-coding	2.5	2.0	1.5	0.0	5.5	5.0	5.0	6.0
Merged-chr6-40471407-4	chr6	40471306	40471506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286664)	promoter-TSS (NM_001286664)	-9.0	NM_212468	381760.0	Mm.276356	NM_028358	ENSMUSG00000029911	Ssbp1	2810480P10Rik|G630031O20Rik|MtSSB|mtDBP	single-stranded DNA binding protein 1	protein-coding	130.5	221.0	119.0	1821.0	349.0	124.0	151.0	114.0
Merged-chr13-100651151-4	chr13	100651075	100651275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001283011)	promoter-TSS (NM_001283011)	-114.0	NM_001283011	19356.0	Mm.248489	NM_011233	ENSMUSG00000021635	Rad17	MmRad24	RAD17 checkpoint clamp loader component	protein-coding	56.5	87.5	71.5	646.5	120.0	47.5	47.5	66.5
Merged-chr1-45917306-4	chr1	45917266	45917466	+	908.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016917, intron 5 of 7)	intron (NM_016917, intron 5 of 7)	8228.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	13.0	10.0	10.5	207.5	28.5	11.5	11.5	9.0
Merged-chr11-68875010-4	chr11	68874917	68875117	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13536.0	NM_177060	320040.0	Mm.305696	NM_177060	ENSMUSG00000046490	Rnf222	9930039A11Rik	ring finger protein 222	protein-coding	14.0	20.0	18.0	123.5	27.0	6.0	17.0	19.0
Merged-chr6-29794764-4	chr6	29794685	29794885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	intron (NM_001171000, intron 1 of 16)	26342.0	NM_001171000	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	126.5	191.5	93.5	1804.5	200.0	78.0	82.5	65.5
Merged-chr2-161214815-2	chr2	161214715	161214915	+	648.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105729.0	NR_126509	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	5.0	4.5	6.5	34.0	11.0	5.0	6.5	4.5
Merged-chr17-53468591-6	chr17	53468494	53468694	+	760.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5273.0	NM_172497	211482.0	Mm.60887	NM_172497	ENSMUSG00000023931	Efhb	4921525D22Rik	EF hand domain family, member B	protein-coding	9.5	9.0	15.0	175.5	16.0	5.0	8.0	14.5
Merged-chr8-93933029-2	chr8	93932929	93933129	+	805.583313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113384, intron 3 of 7)	intron (NM_001113384, intron 3 of 7)	79611.0	NM_011787	23802.0	Mm.34641	NM_011787	ENSMUSG00000031751	Amfr	gp78	autocrine motility factor receptor	protein-coding	10.0	6.5	4.5	81.5	9.0	1.5	4.0	8.5
Merged-chr1-164060251-4	chr1	164060145	164060345	+	949.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B2|LTR|ERVL	-1831.0	NM_001164059	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	13.5	15.5	16.5	177.0	53.5	24.5	20.5	19.0
Merged-chr16-57336903-4	chr16	57336810	57337010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025599, intron 1 of 9)	intron (NM_025599, intron 1 of 9)	-16367.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	141.5	244.5	148.5	2708.0	420.0	143.5	169.5	137.0
Merged-chr9-31130080-4	chr9	31129996	31130196	+	905.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011176, intron 1 of 18)	intron (NM_011176, intron 1 of 18)	1703.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	23.5	17.0	12.0	243.5	31.5	12.0	20.0	24.0
Merged-chr3-116333390-3	chr3	116333268	116333468	+	762.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173553, intron 5 of 13)	intron (NM_001173553, intron 5 of 13)	20876.0	NM_001355646	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	6.5	21.0	6.0	80.0	8.0	5.0	6.5	3.5
Merged-chr19-29414661-4	chr19	29414551	29414751	+	985.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 1 of 5)	intron (NM_021396, intron 1 of 5)	3732.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	36.5	37.0	15.5	352.0	53.0	14.0	11.5	16.5
Merged-chr7-101936124-4	chr7	101936023	101936223	+	960.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR4_MM-int|LTR|ERV1	-2266.0	NM_001162974	69358.0	Mm.214841	NM_027053	ENSMUSG00000064307	Lrrc51	1700008D07Rik|Lrtomt	leucine rich repeat containing 51	protein-coding	19.5	30.0	9.0	231.5	43.0	27.5	15.5	16.5
Merged-chr1-52232438-4	chr1	52232345	52232545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081081, intron 1 of 17)	CpG	787.0	NM_001081081	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	52.5	96.5	63.0	875.5	180.5	67.5	86.5	60.5
Merged-chr11-8604947-4	chr11	8604830	8605030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	59605.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	107.5	163.0	122.0	2103.0	219.5	82.0	75.5	107.0
Merged-chr16-9132312-4	chr16	9132220	9132420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	302220.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	18.0	47.0	24.0	435.0	56.0	32.0	20.5	32.5
Merged-chr2-145685103-3	chr2	145685015	145685215	+	694.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-16080.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	5.5	9.0	7.0	229.5	7.5	1.0	6.5	4.5
Merged-chr18-5821563-4	chr18	5821475	5821675	+	982.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	228928.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	11.0	32.0	24.0	269.5	96.0	24.0	39.5	25.5
Merged-chr5-66279821-4	chr5	66279725	66279925	+	787.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302833, intron 7 of 12)	L1MEg|LINE|L1	18984.0	NM_027602	70918.0	Mm.23166	NM_027602	ENSMUSG00000029206	Nsun7	4921525L17Rik	NOL1/NOP2/Sun domain family, member 7	protein-coding	18.0	6.0	10.5	197.0	34.0	16.5	13.5	26.0
Merged-chr10-99203753-4	chr10	99203664	99203864	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59467.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	18.0	23.0	20.5	493.0	38.0	13.5	10.0	22.5
Merged-chr9-45547335-3	chr9	45547220	45547420	+	885.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	intron (NM_001081270, intron 3 of 32)	-116088.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	0.0	4.5	2.5	32.0	25.0	9.5	9.5	17.5
Merged-chr7-29232518-4	chr7	29232356	29232556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033525)	promoter-TSS (NM_001033525)	66.0	NM_001033525	52150.0	Mm.24877	NM_001033525	ENSMUSG00000046410	Kcnk6	D7Ertd764e|Toss|Twik2	potassium inwardly-rectifying channel, subfamily K, member 6	protein-coding	35.5	39.5	43.0	351.0	93.5	19.5	30.0	23.5
Merged-chr5-151211063-4	chr5	151210951	151211151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20858.0	NR_153382	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	26.5	20.5	10.0	195.5	95.5	33.0	34.0	34.0
Merged-chr17-79303450-4	chr17	79303354	79303554	+	829.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51637.0	NM_026514	260409.0	Mm.140601	NM_026514	ENSMUSG00000036533	Cdc42ep3	3200001F04Rik|AA986861|Borg2|Cep3|UB1	CDC42 effector protein (Rho GTPase binding) 3	protein-coding	8.5	8.5	8.5	177.0	48.0	15.0	16.0	26.0
Merged-chr8-88209952-4	chr8	88209875	88210075	+	797.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164499, intron 2 of 11)	(TG)n|Simple_repeat|Simple_repeat	10762.0	NM_001164498	214627.0	Mm.491211	NM_001164497	ENSMUSG00000036779	Papd5	5730445M16Rik|5830428A09	PAP associated domain containing 5	protein-coding	12.0	7.0	12.0	221.0	17.5	3.0	5.5	8.0
Merged-chr6-146222808-3	chr6	146222698	146222898	+	997.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 45 of 56)	intron (NM_019923, intron 45 of 56)	279425.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	18.5	29.5	15.5	210.5	24.5	5.5	4.0	7.0
Merged-chr7-28702923-4	chr7	28702829	28703029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9785.0	NM_001163702	233040.0	Mm.116116	NM_207238	ENSMUSG00000037463	Fbxo27	E130008B10Rik|FBG5|Gm161	F-box protein 27	protein-coding	47.5	80.5	54.5	807.5	166.0	62.0	67.5	83.5
Merged-chr14-45599846-3	chr14	45599771	45599971	+	922.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176845, intron 11 of 12)	intron (NM_176845, intron 11 of 12)	56161.0	NR_045809	67651.0	Mm.55930	NR_045809	ENSMUSG00000115324	4930527F14Rik	-	RIKEN cDNA 4930527F14 gene	ncRNA	1.0	6.5	4.5	84.0	27.5	15.0	33.0	17.0
Merged-chr19-6995445-3	chr19	6995352	6995552	+	731.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027351)	promoter-TSS (NR_027351)	585.0	NM_026675	68323.0	Mm.49041	NM_026675	ENSMUSG00000037349	Nudt22	0610006K04Rik|AI851793|AW545547	nudix (nucleoside diphosphate linked moiety X)-type motif 22	protein-coding	7.5	11.0	4.0	120.5	13.0	9.0	4.5	5.0
Merged-chr13-23764808-2	chr13	23764719	23764919	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_030609)	TTS (NM_030609)	1151.0	NM_030609	80838.0	Mm.480242	NM_030609	ENSMUSG00000049539	Hist1h1a	H1.1|H1a|H1f1|H1var3	histone cluster 1, H1a	protein-coding	6.5	5.0	1.5	18.5	9.0	7.5	5.0	10.5
Merged-chr19-53424841-4	chr19	53424720	53424920	+	977.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34186.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	38.5	43.0	75.0	937.0	58.5	10.0	22.0	27.0
Merged-chr6-140715155-4	chr6	140715066	140715266	+	832.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88281.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	8.5	11.0	10.0	208.5	17.5	13.0	13.5	14.0
Merged-chr12-79617511-3	chr12	79617429	79617629	+	805.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	307204.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	9.0	6.0	8.5	20.0	16.5	8.5	4.5	5.0
Merged-chr15-75678440-4	chr15	75678335	75678535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028404, intron 1 of 13)	intron (NM_028404, intron 1 of 13)	365.0	NM_001355589	72960.0	Mm.182401	NM_028404	ENSMUSG00000000934	Top1mt	2900052H09Rik	DNA topoisomerase 1, mitochondrial	protein-coding	35.5	75.0	26.0	378.5	98.5	38.5	54.0	19.0
Merged-chr12-38594308-4	chr12	38594216	38594416	+	957.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045943, intron 1 of 8)	intron (NR_045943, intron 1 of 8)	20205.0	NR_045943	73867.0	Mm.78933	NR_045943	ENSMUSG00000112967	4930428E07Rik	-	RIKEN cDNA 4930428E07 gene	ncRNA	20.0	19.0	20.0	495.5	44.0	7.5	16.0	27.0
Merged-chr8-25087743-4	chr8	25087639	25087839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 2 of 11)	MIR3|SINE|MIR	14072.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	125.0	201.5	114.0	1736.5	325.0	118.0	122.0	110.0
Merged-chr15-80260836-4	chr15	80260746	80260946	+	839.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175109, exon 4 of 4)	3' UTR (NM_175109, exon 4 of 4)	3460.0	NM_175109	66538.0	Mm.39485	NM_175109	ENSMUSG00000051518	Rps19bp1	2510038A11Rik|AI604923|S19BP	ribosomal protein S19 binding protein 1	protein-coding	12.0	10.0	11.5	96.0	37.5	15.0	11.0	9.0
Merged-chr9-77959959-4	chr9	77959859	77960059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 2 of 7)	intron (NM_134255, intron 2 of 7)	42594.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	89.5	104.0	97.0	1768.0	120.5	41.0	63.0	52.5
Merged-chr1-85277816-1	chr1	85277716	85277916	+	1000.0	f1_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-7250.0	NM_001037909	620078.0	Mm.386456	NM_175219	ENSMUSG00000052477	C130026I21Rik	4930565N07Rik	RIKEN cDNA C130026I21 gene	protein-coding	8.5	7.5	9.5	22.5	0.0	0.0	0.0	0.0
Merged-chr14-45005929-4	chr14	45005839	45006039	+	974.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17828.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	16.5	26.5	9.0	174.5	28.5	8.5	8.0	8.5
Merged-chr7-30000797-3	chr7	30000684	30000884	+	922.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167873, intron 6 of 9)	intron (NM_001167873, intron 6 of 9)	16829.0	NM_001167872	243905.0	Mm.322432	NM_001033355	ENSMUSG00000074221	Zfp568	C80731|Gm1691|Znf568|chato	zinc finger protein 568	protein-coding	9.5	25.5	11.0	315.0	20.0	4.5	5.5	6.0
Merged-chr8-105566932-3	chr8	105566819	105567019	+	933.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013477)	promoter-TSS (NM_013477)	-855.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	4.5	2.0	6.0	94.5	17.5	4.5	5.5	9.5
Merged-chr5-148483457-4	chr5	148483359	148483559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68214.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	61.5	101.0	76.5	1366.0	188.0	77.0	90.0	83.5
Merged-chr14-66931773-3	chr14	66931657	66931857	+	925.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20549.0	NM_175498	239157.0	Mm.44358	NM_175498	ENSMUSG00000046204	Pnma2	A830049P17Rik|mKIAA0883	paraneoplastic antigen MA2	protein-coding	8.5	8.5	20.0	166.0	18.0	4.0	9.5	10.0
Merged-chr1-173429782-4	chr1	173429634	173429834	+	889.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	intron (NM_001013779, intron 2 of 8)	9130.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	5.0	5.0	2.0	41.0	36.0	8.5	10.0	13.5
Merged-chr1-173459687-2	chr1	173459580	173459780	+	820.0	f0_balb.idr|f1_balb.idr	intron (NM_001013779, intron 5 of 8)	CT-rich|Low_complexity|Low_complexity	39076.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	12.0	5.0	9.0	189.5	0.0	0.5	0.0	0.0
Merged-chr3-41405025-4	chr3	41404918	41405118	+	952.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88181.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	25.0	16.0	20.5	485.5	35.5	14.5	16.0	12.5
Merged-chr8-70131325-4	chr8	70131241	70131441	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104434)	promoter-TSS (NR_104434)	14.0	NM_001025587	75692.0	Mm.161167	NM_001025586	ENSMUSG00000071078	Nr2c2ap	2310073E15Rik	nuclear receptor 2C2-associated protein	protein-coding	14.0	46.5	21.5	320.5	101.0	23.0	31.5	23.5
Merged-chr7-140908802-4	chr7	140908718	140908918	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015583)	TTS (NR_015583)	2754.0	NR_015583	212965.0	Mm.387212	NR_015583	ENSMUSG00000109628	BC024386	BC039766	cDNA sequence BC023486	ncRNA	20.5	23.0	30.0	201.5	24.5	11.0	25.0	30.0
Merged-chr4-6427584-4	chr4	6427481	6427681	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 10 of 30)	intron (NM_010945, intron 10 of 30)	26690.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	16.5	19.5	10.5	487.0	38.0	24.0	23.5	12.5
Merged-chr6-117881437-4	chr6	117881321	117881521	+	850.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER68|LTR|ERVL	18540.0	NM_001001792	22685.0	Mm.249661	NM_008616	ENSMUSG00000042097	Zfp239	Mok-2|Mok2|Znf239	zinc finger protein 239	protein-coding	9.0	8.0	10.0	132.0	38.5	11.0	12.0	10.5
Merged-chr18-64954227-4	chr18	64954129	64954329	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	66473.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	8.5	7.0	5.0	93.5	47.5	22.0	20.5	19.5
Merged-chr2-70824705-1	chr2	70824605	70824805	+	598.5	f0_balb.idr	intron (NM_172664, intron 1 of 19)	intron (NM_172664, intron 1 of 19)	775.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	6.0	8.5	7.5	87.5	19.0	5.5	3.0	12.0
Merged-chr19-55227283-4	chr19	55227165	55227365	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 8 of 20)	intron (NM_001081076, intron 8 of 20)	13971.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	30.0	35.5	16.0	305.5	59.5	32.5	18.0	29.5
Merged-chr1-172563211-4	chr1	172563171	172563371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027644, exon 6 of 6)	non-coding (NR_027644, exon 6 of 6)	3365.0	NR_027644	240916.0	Mm.71940	NM_177723	ENSMUSG00000049598	Vsig8	A030011M19|EG240916	V-set and immunoglobulin domain containing 8	protein-coding	19.0	33.5	18.0	321.0	45.0	25.5	20.0	28.0
Merged-chr3-9350032-4	chr3	9349934	9350134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53044.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	49.0	49.5	69.5	1227.0	65.0	6.5	37.0	28.0
Merged-chr3-90445626-3	chr3	90445525	90445725	+	661.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-11989.0	NM_178876	229543.0	Mm.268564	NM_145540	ENSMUSG00000027933	Ints3	C77668	integrator complex subunit 3	protein-coding	11.5	13.5	4.5	56.0	20.0	3.0	8.0	1.0
Merged-chr1-74248937-4	chr1	74248827	74249027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 4 of 10)	intron (NM_001357387, intron 4 of 10)	12410.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	171.0	249.0	207.0	3123.0	369.0	137.0	227.5	176.0
Merged-chr13-23585556-2	chr13	23585456	23585656	+	784.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001290530)	TTS (NM_001290530)	414.0	NM_001290530	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	8.5	14.5	4.5	48.0	34.5	4.0	15.0	11.5
Merged-chr13-41502553-3	chr13	41502476	41502676	+	971.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-15216.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	7.0	15.5	6.5	111.0	12.5	14.0	4.0	2.0
Merged-chr14-31596660-4	chr14	31596573	31596773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-19290.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	69.0	139.5	108.5	1911.0	213.0	54.0	123.0	112.5
Merged-chr19-10880919-3	chr19	10880815	10881015	+	725.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134142, intron 1 of 3)	intron (NM_134142, intron 1 of 3)	828.0	NM_134142	68539.0	Mm.251890	NM_134142	ENSMUSG00000034659	Tmem109	1110006I15Rik|AA958958|C77652	transmembrane protein 109	protein-coding	9.5	16.5	5.5	49.0	11.5	3.5	3.5	3.0
Merged-chr11-78600720-4	chr11	78600607	78600807	+	866.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008702, intron 3 of 10)	intron (NM_008702, intron 3 of 10)	-49972.0	NM_133706	69071.0	Mm.29431	NM_133706	ENSMUSG00000037278	Tmem97	1810014L12Rik|AI115531|AL022956|D11Bhm182e	transmembrane protein 97	protein-coding	18.0	13.5	15.5	126.0	25.0	12.5	10.0	10.5
Merged-chr11-101095468-4	chr11	101095344	101095544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008949)	promoter-TSS (NM_008949)	-9.0	NM_008949	19183.0	Mm.18344	NM_008949	ENSMUSG00000019303	Psmc3ip	C79099|GT198|HOP2|Tbpip	proteasome (prosome, macropain) 26S subunit, ATPase 3, interacting protein	protein-coding	57.0	98.0	35.0	563.0	124.0	45.0	41.0	49.0
Merged-chr10-17485606-3	chr10	17485514	17485714	+	888.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-237614.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	7.0	8.0	13.0	113.0	13.5	9.0	6.5	4.0
Merged-chr11-106660823-4	chr11	106660731	106660931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001032378, intron 13 of 13)	intron (NM_001032378, intron 13 of 13)	-47901.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	43.5	68.0	45.5	606.5	56.5	34.5	26.5	36.5
Merged-chr19-40999087-4	chr19	40998966	40999166	+	938.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4531.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	39.0	16.0	20.5	438.5	30.5	10.5	13.0	13.0
Merged-chr13-93303728-4	chr13	93303634	93303834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284189)	promoter-TSS (NM_001284189)	-23.0	NM_147176	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	179.0	275.5	170.0	2483.0	438.0	182.0	172.0	191.5
Merged-chr8-70560300-4	chr8	70560187	70560387	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	20612.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	43.5	90.0	54.5	1281.5	48.0	14.5	28.5	43.0
Merged-chr4-88514638-4	chr4	88514543	88514743	+	809.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8151.0	NM_010510	15977.0	Mm.1245	NM_010510	ENSMUSG00000048806	Ifnb1	IFN-beta|IFNB|Ifb	interferon beta 1, fibroblast	protein-coding	12.5	13.0	6.0	126.5	18.5	7.5	13.0	6.5
Merged-chr2-169781986-1	chr2	169781886	169782086	+	726.0	f0_c57.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	148340.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	0.0	0.0	0.0	1.5	33.0	8.0	11.5	6.0
Merged-chr10-99425472-4	chr10	99425374	99425574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	162243.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	70.0	107.5	62.5	849.5	108.0	43.0	51.0	37.0
Merged-chr7-35318369-4	chr7	35318247	35318447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026181)	promoter-TSS (NM_026181)	93.0	NM_026181	67471.0	Mm.358705	NM_026181	ENSMUSG00000063808	Gpatch1	1300003A17Rik|ECGP|Gpatc1	G patch domain containing 1	protein-coding	48.0	54.5	76.5	668.5	86.5	28.5	43.0	39.0
Merged-chr1-144349198-2	chr1	144349098	144349298	+	692.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-100094.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	7.5	5.5	7.0	55.5	3.5	2.5	3.5	1.0
Merged-chr7-128391470-5	chr7	128391411	128391611	+	911.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	intron (NM_026418, intron 3 of 4)	26661.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	11.0	16.5	9.0	103.5	21.5	9.5	13.0	11.5
Merged-chr2-160304173-4	chr2	160304071	160304271	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	23323.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	29.5	21.0	15.5	350.0	25.5	7.5	20.0	8.0
Merged-chr7-16057314-4	chr7	16057197	16057397	+	884.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-14548.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	14.5	7.0	8.0	193.5	39.5	9.5	9.5	17.5
Merged-chr12-95292819-3	chr12	95292715	95292915	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-399411.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	23.5	40.5	38.0	566.0	34.5	8.0	4.0	5.0
Merged-chr2-38497761-4	chr2	38497655	38497855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13942.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	31.0	48.0	25.0	439.5	123.5	46.0	43.5	42.0
Merged-chr7-142399019-4	chr7	142398891	142399091	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-11121.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	10.5	6.5	12.5	92.5	43.5	12.0	12.5	11.5
Merged-chr18-60501365-7	chr18	60501294	60501494	+	940.552368	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134133, exon 1 of 2)	5' UTR (NM_134133, exon 1 of 2)	589.0	NM_134133	106878.0	Mm.273197	NM_134133	ENSMUSG00000038059	Smim3	2010002N04Rik|AI195350|AW561905|Nid67|cI-41	small integral membrane protein 3	protein-coding	10.5	1.5	7.0	40.5	11.5	11.5	8.0	14.5
Merged-chr19-17364963-2	chr19	17364859	17365059	+	629.333374	f0_balb.idr|f1_balb.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	7885.0	NM_010265	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	9.5	13.0	7.0	86.0	12.5	2.5	11.0	7.5
Merged-chr6-5339484-3	chr6	5339365	5339565	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3_Mus|LINE|L1	-41092.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	6.0	2.0	3.0	8.5	419.5	140.5	191.5	138.5
Merged-chr13-17977856-4	chr13	17977745	17977945	+	965.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15506.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	19.5	23.0	18.5	250.5	62.5	17.0	18.0	17.5
Merged-chr2-92438136-4	chr2	92438053	92438253	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4084.0	NM_009963	12953.0	Mm.254181	NM_009963	ENSMUSG00000068742	Cry2	AV006279|D130054K12Rik	cryptochrome 2 (photolyase-like)	protein-coding	20.0	33.5	10.5	340.5	68.5	30.5	22.0	23.5
Merged-chr5-65391484-4	chr5	65391371	65391571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011292)	promoter-TSS (NM_011292)	-26.0	NM_024471	79464.0	Mm.195776	NM_024471	ENSMUSG00000029199	Lias	2900022L22Rik|4933425M12Rik|7a5ex|C77512|LS|lip-syn	lipoic acid synthetase	protein-coding	117.5	174.5	106.5	1267.5	240.5	139.5	101.5	146.0
Merged-chr2-160451634-4	chr2	160451555	160451755	+	909.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84590.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	13.5	12.0	6.5	175.5	50.0	14.5	14.5	13.5
Merged-chr18-9492285-4	chr18	9492190	9492390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAGGA)n|Simple_repeat|Simple_repeat	-42136.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	70.5	58.0	77.0	1282.0	124.0	36.5	45.5	39.0
Merged-chr11-59810382-2	chr11	59810282	59810482	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271356)	promoter-TSS (NM_001271356)	302.0	NR_045686	100504104.0	Mm.391737	NR_045686	ENSMUSG00000087249	Gm16062	-	predicted gene 16062	ncRNA	14.0	26.5	11.0	56.0	20.0	16.0	25.5	17.5
Merged-chr9-106903958-4	chr9	106903865	106904065	+	844.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153413, intron 49 of 52)	intron (NM_153413, intron 49 of 52)	-12027.0	NM_029103	74840.0	Mm.29778	NM_029103	ENSMUSG00000032575	Manf	3230402M22Rik|AA407711|AA408789|AA673178|Armet|D17914|D18Mgi17	mesencephalic astrocyte-derived neurotrophic factor	protein-coding	5.5	13.5	4.0	102.0	30.5	6.0	20.0	14.0
Merged-chr7-75118266-4	chr7	75118172	75118372	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360573, intron 13 of 13)	intron (NM_001360573, intron 13 of 13)	88061.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	31.0	70.0	29.0	824.0	27.0	11.5	9.0	5.0
Merged-chr10-67182780-4	chr10	67182681	67182881	+	966.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 2 of 25)	intron (NM_207221, intron 2 of 25)	-2969.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	14.5	24.5	10.0	399.0	47.0	23.5	18.0	17.0
Merged-chr19-56770801-4	chr19	56770701	56770901	+	950.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42882.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	19.0	21.5	17.5	288.0	18.5	13.5	19.0	8.0
Merged-chr16-90934934-4	chr16	90934837	90935037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026502)	promoter-TSS (NM_026502)	-88.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	238.5	316.0	167.0	2445.5	457.0	191.0	229.5	161.0
Merged-chr3-9082497-3	chr3	9082389	9082589	+	806.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20525.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	9.0	8.5	18.0	90.0	9.5	7.5	3.0	13.0
Merged-chr9-37177240-4	chr9	37177068	37177268	+	821.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29846.0	NM_001029838	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	4.5	6.0	4.0	105.5	12.5	8.0	6.0	6.5
Merged-chr15-100461872-4	chr15	100461780	100461980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7131.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	133.0	153.5	97.0	1128.0	323.5	150.0	132.5	115.0
Merged-chr11-117829080-4	chr11	117828955	117829155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027827, intron 2 of 10)	intron (NM_027827, intron 2 of 10)	-3041.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	112.5	145.0	152.0	1328.0	242.5	81.0	108.5	78.0
Merged-chr12-55430160-4	chr12	55430075	55430275	+	949.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	31350.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	15.5	45.5	17.5	239.5	30.5	24.5	15.5	11.0
Merged-chr3-152783944-4	chr3	152783841	152784041	+	871.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025662, intron 10 of 10)	intron (NM_025662, intron 10 of 10)	69841.0	NM_025662	329777.0	Mm.331447	NM_025662	ENSMUSG00000039047	Pigk	3000001O05Rik|Gm38470|PIG-K	phosphatidylinositol glycan anchor biosynthesis, class K	protein-coding	12.0	13.0	12.0	144.5	23.5	9.0	14.5	12.0
Merged-chr2-145952929-3	chr2	145952833	145953033	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175280, intron 6 of 6)	intron (NM_175280, intron 6 of 6)	18149.0	NM_175280	78774.0	Mm.136347	NM_175280	ENSMUSG00000037143	Cfap61	4930529M08Rik|BB178539|BC024760	cilia and flagella associated protein 61	protein-coding	0.0	0.0	4.0	6.0	137.5	66.0	68.0	67.5
Merged-chr17-57011426-4	chr17	57011312	57011512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133801)	promoter-TSS (NM_133801)	-124.0	NM_133801	98053.0	Mm.24632	NM_133801	ENSMUSG00000002658	Gtf2f1	2810405L04Rik|C76800|RAP74	general transcription factor IIF, polypeptide 1	protein-coding	145.5	262.5	154.5	1971.0	425.0	191.5	139.5	181.5
Merged-chr15-12052404-3	chr15	12052289	12052489	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56382.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	18.0	9.0	9.0	431.0	11.0	4.0	4.5	7.0
Merged-chr12-16869618-3	chr12	16869469	16869669	+	892.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25409.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	7.0	14.5	6.0	126.5	12.0	4.0	1.0	11.0
Merged-chr13-112365981-4	chr13	112365845	112366045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 9 of 11)	intron (NM_001168403, intron 9 of 11)	77427.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	32.0	53.0	30.0	499.5	52.0	14.5	15.5	24.0
Merged-chr10-89686289-4	chr10	89686210	89686410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_130956)	promoter-TSS (NR_130956)	-16.0	NM_001310704	213326.0	Mm.27651	NM_198021	ENSMUSG00000069539	Scyl2	AU015688|AW536445|BC030932|CVAK104|D10Ertd802e	SCY1-like 2 (S. cerevisiae)	protein-coding	144.5	194.5	119.5	2370.0	424.0	145.5	232.0	168.5
Merged-chr1-179517575-2	chr1	179517475	179517675	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 1 of 11)	intron (NM_027188, intron 1 of 11)	466.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	22.0	16.5	6.5	217.5	32.0	11.0	17.5	15.5
Merged-chr16-77034866-4	chr16	77034754	77034954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 2 of 23)	MIR|SINE|MIR	20785.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	40.0	47.5	42.0	833.0	85.5	33.0	49.5	35.5
Merged-chr14-27356343-4	chr14	27356238	27356438	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	-5051.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	30.0	80.5	40.5	518.0	77.0	34.5	34.0	21.0
Merged-chr16-95825922-3	chr16	95825835	95826035	+	745.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72778.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	6.5	5.0	9.5	87.0	19.0	4.5	4.5	9.0
Merged-chr6-136803280-2	chr6	136803164	136803364	+	825.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_175652)	TTS (NM_175652)	1167.0	NM_175652	320332.0	Mm.246720	NM_175652	ENSMUSG00000096010	Hist4h4	B130044J01Rik	histone cluster 4, H4	protein-coding	4.0	1.5	6.0	65.0	10.0	6.5	6.0	9.5
Merged-chr19-10839690-4	chr19	10839603	10839803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2841.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	32.5	51.0	34.0	267.0	73.5	36.5	60.5	47.5
Merged-chr5-137757405-4	chr5	137757314	137757514	+	824.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023910, intron 3 of 4)	intron (NM_023910, intron 3 of 4)	11445.0	NM_029805	78829.0	Mm.286399	NM_023910	ENSMUSG00000029723	Tsc22d4	0610009M14Rik|1700023B23Rik|AI415410|Thg-1pit|Tilz2	TSC22 domain family, member 4	protein-coding	6.5	12.0	8.0	109.5	33.5	6.0	11.5	8.5
Merged-chr2-142766274-3	chr2	142766169	142766369	+	700.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 12 of 26)	(A)n|Simple_repeat|Simple_repeat	135195.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	7.0	4.5	9.0	182.0	16.0	4.0	3.0	3.0
Merged-chr19-29571266-4	chr19	29571161	29571361	+	882.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081319, intron 8 of 25)	MTEb|LTR|ERVL-MaLR	48979.0	NM_001081319	226089.0	Mm.353838	NM_177641	ENSMUSG00000038658	Ric1	C030046E11Rik|C130057E09Rik|Kiaa1432	RAB6A GEF complex partner 1	protein-coding	5.0	8.0	12.5	164.0	32.5	6.0	9.5	5.5
Merged-chr17-63402394-4	chr17	63402279	63402479	+	835.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	L1MDa|LINE|L1	-89406.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	9.5	42.0	21.5	101.0	65.5	22.5	19.5	14.0
Merged-chr15-58076662-4	chr15	58076569	58076769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042438)	promoter-TSS (NM_001042438)	-161.0	NM_009572	22770.0	Mm.244931	NM_009572	ENSMUSG00000022361	Zhx1	-	zinc fingers and homeoboxes 1	protein-coding	296.0	472.5	282.5	3542.5	812.0	330.5	339.0	279.0
Merged-chr10-75146209-4	chr10	75146113	75146313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081412, intron 8 of 22)	intron (NM_001081412, intron 8 of 22)	-65860.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	83.0	119.0	71.5	1905.5	167.0	42.5	80.0	79.5
Merged-chr7-35030610-3	chr7	35030517	35030717	+	681.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 11 of 14)	intron (NM_008820, intron 11 of 14)	25949.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	5.5	9.0	4.5	66.5	4.0	5.0	6.0	4.0
Merged-chr16-5145764-4	chr16	5145667	5145867	+	867.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1342.0	NM_001127725	665119.0	Mm.102072	NM_001127725	ENSMUSG00000091712	Sec14l5	-	SEC14-like lipid binding 5	protein-coding	5.0	26.0	2.0	210.0	37.5	10.0	18.0	18.5
Merged-chr8-14859657-4	chr8	14859649	14859849	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28787.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	8.5	21.5	17.5	379.5	27.0	6.5	11.0	16.0
Merged-chr1-6499054-3	chr1	6498968	6499168	+	763.366699	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001244693, intron 2 of 22)	L1MA9|LINE|L1	11837.0	NM_001244692	240690.0	Mm.234612	NM_173868	ENSMUSG00000033740	St18	AV348974|Myt3|NZF-3|Nzf3|mKIAA0535	suppression of tumorigenicity 18	protein-coding	6.5	16.5	5.0	40.5	22.0	4.5	15.0	12.5
Merged-chr2-127270712-4	chr2	127270628	127270828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139308, exon 1 of 8)	exon (NM_139308, exon 1 of 8)	499.0	NM_139308	99138.0	Mm.41271	NM_139308	ENSMUSG00000027367	Stard7	AI852671|AL022671|AW544915	START domain containing 7	protein-coding	72.5	169.5	72.5	1224.0	265.5	85.0	128.0	103.0
Merged-chr14-25402666-3	chr14	25402542	25402742	+	850.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56543.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	8.5	6.5	11.0	75.0	10.0	8.5	5.0	2.5
Merged-chr9-44479054-8	chr9	44478845	44479045	+	788.697937	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3880.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	17.0	7.0	8.5	90.5	10.0	9.0	14.5	7.0
Merged-chr1-155096881-4	chr1	155096794	155096994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010500, exon 1 of 1)	3' UTR (NM_010500, exon 1 of 1)	2742.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	60.0	50.5	42.0	1050.0	109.5	35.0	55.0	65.0
Merged-chr7-141370763-4	chr7	141370663	141370863	+	958.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-5653.0	NR_033532	320871.0	Mm.475463	NM_177280	ENSMUSG00000086844	B230206H07Rik	-	RIKEN cDNA B230206H07 gene	ncRNA	30.0	23.5	18.5	314.0	37.5	16.5	17.5	13.0
Merged-chr6-128872469-3	chr6	128872366	128872566	+	874.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254946, intron 2 of 2)	BGLII_B|LTR|ERVK	-15121.0	NM_001289706	93675.0	Mm.391513	NM_020257	ENSMUSG00000030365	Clec2i	Clr-g|Clrg|Dcl1|LCL-1|OCILrP2	C-type lectin domain family 2, member i	protein-coding	13.5	30.0	5.5	123.5	14.5	8.5	7.5	6.0
Merged-chr1-157553229-4	chr1	157553140	157553340	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159986, intron 14 of 25)	intron (NM_001159986, intron 14 of 25)	27070.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	20.0	46.5	21.0	348.5	75.0	18.0	41.5	20.5
Merged-chr4-42933844-3	chr4	42933745	42933945	+	836.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346526, exon 3 of 9)	exon (NM_001346526, exon 3 of 9)	-16022.0	NM_001355438	56323.0	Mm.20437	NM_019874	ENSMUSG00000036052	Dnajb5	1110058L06Rik|AI462558|Hsc40|Hsp40-3	DnaJ heat shock protein family (Hsp40) member B5	protein-coding	11.0	13.0	18.0	142.5	8.0	1.5	6.5	8.0
Merged-chr2-126427835-3	chr2	126427737	126427937	+	695.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 7 of 27)	intron (NM_001359975, intron 7 of 27)	63716.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	1.5	12.5	4.0	110.5	12.5	7.0	6.0	6.0
Merged-chr5-124478989-4	chr5	124478852	124479052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030259)	promoter-TSS (NM_030259)	-717.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	18.0	47.5	20.5	175.0	48.5	20.0	17.5	29.0
Merged-chr1-176824662-4	chr1	176824568	176824768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	intron (NM_001357390, intron 1 of 18)	10008.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	6.0	5.0	11.0	196.5	47.5	16.0	25.0	18.5
Merged-chr13-60737306-2	chr13	60737209	60737409	+	894.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 18 of 26)	intron (NM_134062, intron 18 of 26)	49055.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	5.0	10.5	17.5	59.5	15.0	6.0	1.5	7.5
Merged-chr15-26016525-4	chr15	26016431	26016631	+	826.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32165.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	6.0	18.0	6.0	258.5	26.5	13.0	10.5	19.0
Merged-chr17-29245886-4	chr17	29245766	29245966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8076.0	NM_001360239	240058.0	Mm.39905	NM_153166	ENSMUSG00000024008	Cpne5	A830083G22Rik	copine V	protein-coding	50.0	66.5	44.0	608.0	89.5	17.5	53.5	21.5
Merged-chr5-5409886-4	chr5	5409803	5410003	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER45B|DNA|hAT-Tip100	-29652.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	2.0	13.5	5.5	164.5	28.0	8.0	12.0	6.5
Merged-chr2-52471690-4	chr2	52471583	52471783	+	842.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 4 of 13)	intron (NM_001037099, intron 4 of 13)	-46809.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	7.0	9.5	12.5	123.5	23.0	7.0	15.5	10.0
Merged-chr18-20895880-2	chr18	20895782	20895982	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_177038, intron 1 of 28)	CpG	196.0	NM_029491	75964.0	Mm.273769	NM_029491	ENSMUSG00000033382	Trappc8	5033403J15Rik|AI845423|D030074E01Rik|Trs85|mKIAA1012	trafficking protein particle complex 8	protein-coding	19.0	41.5	32.0	507.0	70.0	29.5	37.5	36.5
Merged-chr2-131222715-4	chr2	131222606	131222806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-11357.0	NM_001206383	228607.0	Mm.287226	NM_144888	ENSMUSG00000037523	Mavs	D430028G21Rik|IPS-1|Visa|cardif	mitochondrial antiviral signaling protein	protein-coding	22.5	34.5	24.5	451.5	74.0	16.5	40.5	27.0
Merged-chr14-74990677-4	chr14	74990585	74990785	+	650.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15599.0	NR_046078	100043169.0	Mm.145900	NR_046078	ENSMUSG00000115019	Gm4278	-	predicted gene 4278	ncRNA	6.5	17.0	5.0	111.5	27.5	9.0	8.5	11.5
Merged-chr1-178309047-3	chr1	178308928	178309128	+	867.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-10125.0	NM_025511	66359.0	Mm.489720	NM_025511	ENSMUSG00000026500	Cox20	2310005N03Rik|Fam36a	COX20 Cox2 chaperone	protein-coding	4.5	10.5	14.5	31.0	26.0	9.5	12.0	14.0
Merged-chr17-50157543-4	chr17	50157449	50157649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	32948.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	86.0	174.0	128.5	1657.5	325.5	83.5	125.0	89.0
Merged-chr12-82122699-4	chr12	82122594	82122794	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47322.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	16.5	38.5	38.0	368.5	19.0	4.0	23.0	16.0
Merged-chr5-105662066-4	chr5	105661938	105662138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37931.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	100.0	145.0	117.5	1803.5	170.5	54.5	108.0	63.0
Merged-chr10-70150907-4	chr10	70150792	70150992	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111121, intron 2 of 8)	intron (NM_001111121, intron 2 of 8)	53771.0	NM_001111121	76551.0	Mm.281741	NM_001111121	ENSMUSG00000048701	Ccdc6	2810012H18Rik|AA536681|AA960498|AW061011	coiled-coil domain containing 6	protein-coding	18.0	34.0	22.0	544.5	27.5	13.5	16.0	21.5
Merged-chr1-164080121-3	chr1	164080027	164080227	+	814.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011346, exon 9 of 9)	3' UTR (NM_011346, exon 9 of 9)	18051.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	2.5	23.0	3.5	71.0	32.0	11.5	11.5	5.0
Merged-chr2-167503740-8	chr2	167503694	167503894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153838, intron 1 of 4)	CpG	351.0	NM_001360930	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	14.0	30.0	11.5	147.0	40.0	24.0	14.0	26.5
Merged-chr8-111090298-4	chr8	111090227	111090427	+	857.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4418.0	NM_198308	319518.0	Mm.28350	NM_198308	ENSMUSG00000033624	Pdpr	4930402E16Rik|AU018056|mKIAA1990	pyruvate dehydrogenase phosphatase regulatory subunit	protein-coding	10.0	10.5	6.5	84.0	34.5	6.0	7.5	14.0
Merged-chr13-91682961-3	chr13	91682866	91683066	+	707.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 9 of 15)	intron (NM_001360776, intron 9 of 15)	-58555.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	2.5	9.0	4.0	59.0	5.0	6.5	9.0	16.0
Merged-chr14-79519188-3	chr14	79519135	79519335	+	852.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	3561.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	9.0	4.5	13.5	105.5	18.0	11.0	3.5	5.5
Merged-chr2-158179679-2	chr2	158179579	158179779	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12329.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	11.0	4.5	6.5	40.0	7.5	1.0	3.5	2.0
Merged-chr19-41345152-4	chr19	41345038	41345238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	39932.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	39.5	79.0	40.5	685.5	119.5	71.0	41.5	47.0
Merged-chr8-39641763-4	chr8	39641652	39641852	+	971.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 1 of 9)	intron (NM_001113326, intron 1 of 9)	926.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	12.5	40.0	24.0	333.0	24.5	14.0	22.0	14.5
Merged-chr1-131277016-4	chr1	131276922	131277122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019777, intron 2 of 21)	intron (NM_019777, intron 2 of 21)	2541.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	112.5	182.5	79.0	654.5	308.0	123.5	129.5	70.5
Merged-chr5-96792602-4	chr5	96792513	96792713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013470)	promoter-TSS (NM_013470)	-772.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	22.5	34.0	43.5	516.5	118.5	29.0	41.0	47.0
Merged-chr9-104569613-4	chr9	104569516	104569716	+	824.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028719, exon 1 of 16)	5' UTR (NM_028719, exon 1 of 16)	133.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	38.5	25.5	17.0	478.5	37.5	9.0	12.5	9.0
Merged-chr5-41707170-4	chr5	41707067	41707267	+	951.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132325, intron 1 of 5)	intron (NR_132325, intron 1 of 5)	524.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	20.5	21.0	14.0	250.5	52.5	22.5	12.5	24.0
Merged-chr15-28405367-4	chr15	28405272	28405472	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133365, intron 61 of 78)	intron (NM_133365, intron 61 of 78)	201606.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	19.0	12.0	16.5	342.5	37.5	10.5	15.0	22.0
Merged-chr5-36465526-2	chr5	36465426	36465626	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126488)	promoter-TSS (NR_126488)	341.0	NM_024478	17713.0	Mm.21535	NM_024478	ENSMUSG00000029198	Grpel1	AA408748|mt-GrpE#1|mt-Grpel1	GrpE-like 1, mitochondrial	protein-coding	10.5	17.0	9.0	170.0	26.0	8.5	14.5	17.0
Merged-chr12-32215318-4	chr12	32215224	32215424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6675.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	30.5	39.0	29.5	418.5	44.0	16.0	11.0	12.0
Merged-chr17-6746190-4	chr17	6746101	6746301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 7 of 12)	intron (NM_009510, intron 7 of 12)	36579.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	135.0	159.5	144.0	2182.5	203.5	71.5	112.0	75.0
Merged-chr8-105161377-1	chr8	105161277	105161477	+	637.0	f0_balb.idr	Intergenic	URR1B|DNA|hAT-Charlie	-9297.0	NM_001161457	12400.0	Mm.2018	NM_022309	ENSMUSG00000031885	Cbfb	AI893578|PEA2|PEBP2b|Pebp2|Pebpb2	core binding factor beta	protein-coding	5.0	12.0	11.5	108.5	6.0	4.0	2.0	3.5
Merged-chr8-34809201-2	chr8	34809102	34809302	+	810.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_176933, intron 1 of 3)	CpG-13950	1592.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	5.5	5.5	6.5	27.0	7.0	2.5	1.5	7.0
Merged-chr11-110731979-3	chr11	110731761	110731961	+	982.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-236172.0	NM_010604	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	4.5	5.0	4.5	116.0	3.0	0.5	8.0	4.5
Merged-chr11-88068301-9	chr11	88068144	88068344	+	952.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016686)	promoter-TSS (NM_016686)	-35.0	NM_016686	22344.0	Mm.46628	NM_016686	ENSMUSG00000018377	Vezf1	AI848691|AW046909|db1	vascular endothelial zinc finger 1	protein-coding	8.5	11.0	6.0	49.0	35.5	11.0	25.5	8.5
Merged-chr3-79814022-4	chr3	79813946	79814146	+	860.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027495, exon 12 of 12)	3' UTR (NM_027495, exon 12 of 12)	28616.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	5.0	15.5	6.0	79.0	38.0	10.0	14.5	13.0
Merged-chr15-67145597-3	chr15	67145502	67145702	+	908.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 2 of 8)	(TG)n|Simple_repeat|Simple_repeat	31280.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	9.0	43.0	11.5	93.0	26.0	5.0	4.0	5.0
Merged-chr10-81559533-6	chr10	81559452	81559652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_074087, exon 1 of 7)	non-coding (NR_074087, exon 1 of 7)	108.0	NM_001276288	14797.0	Mm.180013	NM_010347	ENSMUSG00000054452	Aes	AL024115|Esp1|Grg|Grg-5|Grg5|Tle5	amino-terminal enhancer of split	protein-coding	18.5	21.5	19.5	241.5	38.0	15.0	18.5	21.5
Merged-chr17-35740546-4	chr17	35740441	35740641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-31909.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	68.5	156.5	141.5	1275.0	235.0	69.5	99.0	86.0
Merged-chr19-12795631-4	chr19	12795542	12795742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361971)	promoter-TSS (NM_001361971)	481.0	NR_024093	664779.0	Mm.290924	NM_001039718	ENSMUSG00000024695	Gm44505	Zfp91-Cntf|Zfp91Cntf	predicted readthrough transcript (NMD candidate), 44505	ncRNA	198.5	290.0	162.5	2405.5	440.5	190.5	236.5	187.5
Merged-chr4-150087755-2	chr4	150087655	150087855	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_177366, exon 1 of 4)	exon (NM_177366, exon 1 of 4)	252.0	NM_177366	269604.0	Mm.219307	NM_177366	ENSMUSG00000047875	Gpr157	F730108M23Rik	G protein-coupled receptor 157	protein-coding	28.0	63.5	67.0	630.0	58.5	27.5	46.5	37.0
Merged-chr3-30593916-4	chr3	30593808	30594008	+	980.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	5962.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	15.0	36.5	12.5	201.5	60.0	29.5	24.0	19.0
Merged-chr1-177982774-4	chr1	177982668	177982868	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8630.0	NR_155538	545391.0	Mm.442974	NM_001034899	ENSMUSG00000091476	Gm16432	EG545391|EG666250	predicted gene 16432	protein-coding	11.5	38.0	20.5	371.5	55.0	16.5	15.0	29.0
Merged-chr16-33024002-4	chr16	33023889	33024089	+	894.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178378, intron 8 of 10)	LTR41B|LTR|ERVL	32197.0	NM_178378	69707.0	Mm.227918	NM_178378	ENSMUSG00000035578	Iqcg	2400003L07Rik|G1-374-12|esgd12d|repro1|stubby12d	IQ motif containing G	protein-coding	21.0	17.0	8.0	114.0	16.5	14.0	15.5	17.5
Merged-chr19-33380539-3	chr19	33380436	33380636	+	838.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146342, intron 2 of 4)	intron (NM_001146342, intron 2 of 4)	11759.0	NM_001167818	67795.0	Mm.204591	NM_001146342	ENSMUSG00000071573	Rnls	6530404N21Rik|AI452315|AW060440|C10orf59	renalase, FAD-dependent amine oxidase	protein-coding	14.5	8.5	16.0	112.0	11.0	9.5	5.5	9.0
Merged-chr11-82039056-7	chr11	82038939	82039139	+	832.7023929999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3462.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	5.5	5.5	8.0	78.0	23.5	15.0	13.0	10.5
Merged-chr9-107611768-4	chr9	107611666	107611866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2525.0	NM_001291539	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	31.0	71.5	41.5	543.5	66.0	36.0	23.0	25.5
Merged-chr12-21316435-4	chr12	21316332	21316532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026347)	promoter-TSS (NM_026347)	40.0	NM_026347	67732.0	Mm.335830	NM_026347	ENSMUSG00000062054	Iah1	1500019E20Rik|4833421E05Rik	isoamyl acetate-hydrolyzing esterase 1 homolog	protein-coding	69.0	127.0	115.0	1155.5	116.0	38.5	42.5	60.5
Merged-chr5-99455822-3	chr5	99455687	99455887	+	955.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	MTC|LTR|ERVL-MaLR	-202860.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	8.0	12.5	8.0	44.0	31.5	11.5	9.0	7.5
Merged-chr3-84314740-4	chr3	84314638	84314838	+	973.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9963.0	NM_001271726	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	27.5	34.5	14.0	591.0	31.5	14.5	24.0	25.5
Merged-chr4-47378888-4	chr4	47378785	47378985	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312868, intron 1 of 8)	MTC|LTR|ERVL-MaLR	-7331.0	NM_001312869	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	14.0	23.0	31.5	476.0	67.0	21.0	20.5	31.0
Merged-chr2-132578214-4	chr2	132578115	132578315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291052)	promoter-TSS (NM_001291052)	33.0	NM_001291050	74182.0	Mm.211211	NM_027096	ENSMUSG00000027346	Gpcpd1	2310004G06Rik|2310032D16Rik|AU015213|Gde5|Prei4|mKIAA1434	glycerophosphocholine phosphodiesterase 1	protein-coding	179.5	308.5	191.0	2686.5	487.0	229.5	238.5	229.5
Merged-chr17-24171316-4	chr17	24171201	24171401	+	956.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-1623.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	12.5	14.5	12.0	142.5	52.5	12.5	16.0	14.0
Merged-chr10-105273327-4	chr10	105273195	105273395	+	952.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177368, intron 8 of 11)	intron (NM_177368, intron 8 of 11)	301184.0	NM_177368	278279.0	Mm.25225	NM_177368	ENSMUSG00000036019	Tmtc2	8430438D04Rik|D330034A10Rik	transmembrane and tetratricopeptide repeat containing 2	protein-coding	8.0	12.0	17.5	472.5	83.0	24.0	43.5	25.5
Merged-chr18-44662156-3	chr18	44662031	44662231	+	902.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_026853, exon 1 of 5)	non-coding (NR_026853, exon 1 of 5)	135.0	NM_001085374	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	8.0	10.0	11.5	153.0	11.5	2.5	1.5	8.5
Merged-chr2-6267764-4	chr2	6267652	6267852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	intron (NR_040333, intron 3 of 6)	-54758.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	91.0	119.5	104.0	1735.0	229.0	69.5	147.5	121.5
Merged-chr1-139454677-4	chr1	139454586	139454786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009791)	promoter-TSS (NM_009791)	-87.0	NM_009791	12316.0	Mm.168523	NM_009791	ENSMUSG00000033952	Aspm	Calmbp1|D330028K02Rik|MCPH5|Sha1	abnormal spindle microtubule assembly	protein-coding	201.5	306.5	162.0	3049.5	504.0	211.0	262.5	140.5
Merged-chr6-146125021-4	chr6	146124911	146125111	+	960.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 55 of 56)	intron (NM_019923, intron 55 of 56)	190889.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	12.5	50.5	45.5	484.0	101.0	24.5	21.5	16.5
Merged-chr16-45630544-4	chr16	45630446	45630646	+	727.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145389, intron 4 of 5)	intron (NM_145389, intron 4 of 5)	20106.0	NM_001159297	14525.0	Mm.4799	NM_008099	ENSMUSG00000022659	Gcsam	Gcet|Gcet2|M17|M17-L	germinal center associated, signaling and motility	protein-coding	7.0	6.5	4.0	209.5	26.5	5.5	20.5	6.5
Merged-chr2-26503820-4	chr2	26503737	26503937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008714)	promoter-TSS (NM_008714)	-15.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	48.0	87.5	45.0	833.5	115.5	76.5	81.0	60.0
Merged-chr15-102283093-3	chr15	102283007	102283207	+	908.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3651.0	NM_134100	106073.0	Mm.287740	NM_134100	ENSMUSG00000045665	Mfsd5	AA409375|AW556797|D15Mgi27	major facilitator superfamily domain containing 5	protein-coding	15.0	15.5	3.5	212.5	38.0	5.0	7.5	7.5
Merged-chr7-88998095-4	chr7	88997993	88998193	+	868.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	340694.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	8.5	18.0	13.5	177.0	17.0	2.5	10.0	7.0
Merged-chr16-10461401-4	chr16	10461301	10461501	+	784.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14039.0	NM_001013778	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	11.5	15.0	19.5	210.5	18.5	6.0	6.5	11.0
Merged-chr2-45480867-2	chr2	45480767	45480967	+	671.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-215738.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	5.0	7.0	4.5	63.5	13.0	6.0	10.5	16.0
Merged-chr14-51094610-2	chr14	51094416	51094616	+	791.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_021472, intron 1 of 1)	B1_Mur3|SINE|Alu	-1484.0	NM_007447	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	1.0	5.5	3.5	4.0	10.0	5.0	4.5	6.5
Merged-chr1-93803879-4	chr1	93803782	93803982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025454)	promoter-TSS (NM_025454)	-83.0	NM_025454	66262.0	Mm.64065	NM_025454	ENSMUSG00000026283	Ing5	1700001C14Rik|1700027H23Rik|1810018M11Rik|AI225768	inhibitor of growth family, member 5	protein-coding	249.5	345.5	237.0	4108.0	607.0	222.5	337.5	208.5
Merged-chr2-79349275-3	chr2	79349193	79349393	+	943.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048176, intron 5 of 12)	L1_Mur3|LINE|L1	79695.0	NM_001048176	228094.0	Mm.440704	NM_001033295	ENSMUSG00000075256	Cerkl	Gm1958|Rp26	ceramide kinase-like	protein-coding	3.5	9.5	8.0	191.0	15.5	4.5	15.5	21.0
Merged-chr18-65524274-3	chr18	65524179	65524379	+	891.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 2 of 6)	intron (NR_105742, intron 2 of 6)	-55951.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	15.0	9.5	5.0	111.0	12.0	6.0	4.5	10.0
Merged-chr2-19580740-4	chr2	19580634	19580834	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-26824.0	NM_027600	70909.0	Mm.158488	NM_027600	ENSMUSG00000026734	4921504E06Rik	4921522E24Rik	RIKEN cDNA 4921504E06 gene	protein-coding	11.0	16.0	14.5	232.0	58.0	10.5	16.0	14.5
Merged-chr4-53120549-4	chr4	53120433	53120633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	39362.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	243.5	429.0	272.5	3032.0	595.0	255.0	247.0	279.5
Merged-chr8-69087981-3	chr8	69087869	69088069	+	749.5	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_007509)	promoter-TSS (NM_007509)	-767.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	21.5	16.0	12.5	190.5	18.0	6.5	7.0	7.5
Merged-chr10-79997314-4	chr10	79997215	79997415	+	811.148804	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013850)	promoter-TSS (NM_013850)	-293.0	NM_001347081	27403.0	Mm.103351	NM_013850	ENSMUSG00000035722	Abca7	ABCX|Abc51	ATP-binding cassette, sub-family A (ABC1), member 7	protein-coding	7.0	7.0	8.0	110.5	21.0	12.5	9.0	9.0
Merged-chr5-139789712-3	chr5	139789588	139789788	+	873.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1848.0	NM_010757	17135.0	Mm.157313	NM_010757	ENSMUSG00000018143	Mafk	AW061068|NF-E2|Nfe2u	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	protein-coding	16.5	14.5	13.5	317.5	6.0	5.0	1.0	5.5
Merged-chr3-105981185-2	chr3	105981087	105981287	+	726.25	f0_balb.idr|f1_balb.idr	intron (NM_007696, intron 8 of 10)	intron (NM_007696, intron 8 of 10)	7385.0	NM_007696	12659.0	Mm.431947	NM_007696	ENSMUSG00000074340	Ovgp1	120kDa|AU016433|AU019448|Chit5|MOGP|OGP|muc9	oviductal glycoprotein 1	protein-coding	15.0	19.5	8.5	137.5	1.5	2.0	5.0	2.5
Merged-chr3-28007855-3	chr3	28007764	28007964	+	735.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 1 of 25)	intron (NM_008875, intron 1 of 25)	23693.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	5.5	7.0	2.0	61.0	42.5	10.5	9.5	7.5
Merged-chr7-99858986-4	chr7	99858864	99859064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025668)	promoter-TSS (NM_025668)	-81.0	NM_025668	66624.0	Mm.30043	NM_025668	ENSMUSG00000035227	Spcs2	5730406I15Rik|AA408713|mKIAA0102	signal peptidase complex subunit 2 homolog (S. cerevisiae)	protein-coding	130.5	190.5	81.0	1245.0	257.0	147.5	85.5	101.5
Merged-chr11-70084800-4	chr11	70084703	70084903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7841.0	NM_007493	11890.0	Mm.1357	NM_007493	ENSMUSG00000040963	Asgr2	ASGPR2|Asgr|Asgr-2|HL-2	asialoglycoprotein receptor 2	protein-coding	80.0	100.0	66.0	958.5	155.0	68.0	68.0	71.0
Merged-chr19-24279842-1	chr19	24279742	24279942	+	703.0	f1_c57bl6.idr	intron (NM_008044, intron 1 of 4)	MIRb|SINE|MIR	744.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	5.5	7.0	7.5	92.0	7.5	4.5	5.5	1.0
Merged-chr7-80387236-4	chr7	80387129	80387329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010194, exon 2 of 19)	exon (NM_010194, exon 2 of 19)	717.0	NM_010194	14159.0	Mm.48757	NM_010194	ENSMUSG00000053158	Fes	AI586313|BB137047|FPS|c-fes	feline sarcoma oncogene	protein-coding	32.5	27.5	31.0	414.5	64.5	31.0	28.5	36.0
Merged-chr5-124424882-4	chr5	124424790	124424990	+	941.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081203, intron 1 of 31)	CpG	712.0	NM_001359979	243272.0	Mm.23879	NM_145631	ENSMUSG00000038095	Sbno1	9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno	strawberry notch 1	protein-coding	17.0	29.0	19.0	115.5	45.5	25.5	14.0	17.5
Merged-chr18-82843746-4	chr18	82843658	82843858	+	853.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-12139.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	9.0	17.5	9.0	159.0	27.5	9.5	14.0	13.5
Merged-chr2-156278857-3	chr2	156278754	156278954	+	970.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 9 of 17)	intron (NM_172674, intron 9 of 17)	-33619.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	25.0	18.5	11.0	255.5	16.0	6.0	10.5	10.5
Merged-chr5-136567327-4	chr5	136567253	136567453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009986, exon 1 of 24)	5' UTR (NM_009986, exon 1 of 24)	137.0	NM_001291234	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	37.0	83.0	26.5	556.5	93.0	43.0	30.5	44.5
Merged-chr10-78244156-4	chr10	78244075	78244275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081055, intron 1 of 22)	CpG	467.0	NM_001081055	216131.0	Mm.27539	NM_001081055	ENSMUSG00000000374	Trappc10	B230307C21Rik|Gm870|Tmem1|b2b2416Clo|b2b2613Clo	trafficking protein particle complex 10	protein-coding	33.5	57.0	32.0	301.0	84.5	23.5	16.0	24.5
Merged-chr17-31074856-4	chr17	31074764	31074964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	17170.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	85.5	166.0	104.0	1126.5	153.5	47.0	52.5	52.0
Merged-chr7-12010690-3	chr7	12010534	12010734	+	873.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30665.0	NM_001166731	628946.0	Mm.484974	NM_001166731	ENSMUSG00000095864	Vmn1r77	Gm6935	vomeronasal 1 receptor 77	protein-coding	8.5	8.5	13.0	36.0	10.0	4.5	7.5	24.5
Merged-chr3-79174219-4	chr3	79174129	79174329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28354.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	39.5	42.5	38.5	448.5	107.5	29.5	41.0	38.0
Merged-chr10-8416291-3	chr10	8416205	8416405	+	861.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 1 of 7)	intron (NM_177387, intron 1 of 7)	102520.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	9.0	10.5	12.5	187.5	33.0	6.0	8.0	7.5
Merged-chr4-103341414-1	chr4	103341314	103341514	+	814.5	f0_balb.idr	intron (NM_025909, intron 7 of 8)	intron (NM_025909, intron 7 of 8)	27568.0	NM_025909	67013.0	Mm.30021	NM_025909	ENSMUSG00000035069	Oma1	2010001O09Rik|MPRP-1|ZMPOMA1	OMA1 zinc metallopeptidase	protein-coding	7.0	13.5	9.0	236.0	3.5	1.0	1.0	5.0
Merged-chr11-62576004-4	chr11	62575876	62576076	+	935.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011706, exon 2 of 16)	5' UTR (NM_011706, exon 2 of 16)	1490.0	NM_011706	22368.0	Mm.288064	NM_011706	ENSMUSG00000018507	Trpv2	GRC|OTRPC2|VRL-1|Vrl1	transient receptor potential cation channel, subfamily V, member 2	protein-coding	16.5	23.5	30.5	130.0	30.0	18.5	14.5	14.0
Merged-chr11-95751187-2	chr11	95751087	95751287	+	944.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_201609, intron 1 of 4)	intron (NM_201609, intron 1 of 4)	2120.0	NM_201609	268469.0	Mm.389038	NM_201609	ENSMUSG00000075595	Zfp652	9530033F24Rik|ZNF652	zinc finger protein 652	protein-coding	5.0	13.0	2.5	15.0	22.0	13.0	7.0	6.5
Merged-chr8-83737525-3	chr8	83737385	83737585	+	699.43335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	B3|SINE|B2	3826.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	8.5	10.0	2.0	25.5	20.5	6.0	8.5	9.0
Merged-chr2-166746684-3	chr2	166746589	166746789	+	888.4166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTRETN_Mm|LTR|ERVK	-32857.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	2.0	11.5	8.0	18.5	20.0	4.5	6.5	10.0
Merged-chr12-41197453-4	chr12	41197368	41197568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	173378.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	36.5	34.5	65.5	961.5	65.0	23.0	39.0	34.0
Merged-chr2-122028505-4	chr2	122028405	122028605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144545)	promoter-TSS (NM_144545)	-75.0	NM_144545	78655.0	Mm.458184	NM_144545	ENSMUSG00000027236	Eif3j1	1810016I04Rik|2700079K05Rik|AA409117|AA409446|C78575|Eif3j|Eif3j-1|Eif3j-2|Eif3j2|Eif3s1|eIF-3-alpha-A|eIF-3-alpha-B|eIF3-alpha|eIF3-p35|eIF3j-A|eIF3j-B	eukaryotic translation initiation factor 3, subunit J1	protein-coding	290.5	470.5	308.5	3749.5	845.5	318.0	409.5	312.0
Merged-chr4-111721108-2	chr4	111721008	111721208	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026470, intron 1 of 12)	intron (NM_026470, intron 1 of 12)	1098.0	NM_026470	67946.0	Mm.275526	NM_026470	ENSMUSG00000034401	Spata6	1700062C23Rik|AI790763|Hash|KRP|Mash	spermatogenesis associated 6	protein-coding	4.5	5.0	6.5	62.0	11.0	8.0	7.5	5.0
Merged-chr7-25784277-4	chr7	25784193	25784393	+	945.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 4 of 19)	intron (NM_009465, intron 4 of 19)	4440.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	12.0	19.0	23.5	339.5	42.5	6.5	26.0	17.0
Merged-chr2-132846632-4	chr2	132846539	132846739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024385)	promoter-TSS (NM_001024385)	-27.0	NM_001024385	66586.0	Mm.357342	NM_025646	ENSMUSG00000027357	Crls1	0610009I22Rik|4930557M15Rik|5730490M08Rik	cardiolipin synthase 1	protein-coding	61.5	106.0	49.0	884.0	194.0	74.5	70.0	84.0
Merged-chr4-46497713-4	chr4	46497616	46497816	+	952.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053179, intron 2 of 5)	intron (NM_053179, intron 2 of 5)	8387.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	11.0	6.5	10.5	169.5	54.0	21.0	4.0	16.0
Merged-chr8-83805859-2	chr8	83805759	83805959	+	725.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64548.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	6.0	10.0	5.5	74.5	15.0	2.5	4.0	1.5
Merged-chr11-72608487-4	chr11	72608390	72608590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025985, intron 1 of 5)	CpG	1229.0	NM_025985	67128.0	Mm.458052	NM_025985	ENSMUSG00000020794	Ube2g1	2700059C12Rik|AI256795|AU014992|AW552068|D130023C12Rik	ubiquitin-conjugating enzyme E2G 1	protein-coding	113.5	129.5	96.0	1282.0	281.0	68.0	82.5	89.0
Merged-chr19-17247546-4	chr19	17247448	17247648	+	798.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91957.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	22.5	21.5	12.0	197.0	31.0	7.0	12.0	22.5
Merged-chr18-8678021-4	chr18	8677918	8678118	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-534838.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	7.0	28.5	12.0	107.0	77.0	9.5	22.0	22.5
Merged-chr6-39781130-4	chr6	39781017	39781217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29819.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	40.0	40.5	25.0	482.0	129.0	43.0	41.0	42.5
Merged-chr18-68220453-4	chr18	68220342	68220542	+	971.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	L1M4b|LINE|L1	-7504.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	22.5	18.0	25.0	384.0	49.5	22.5	28.0	28.5
Merged-chr5-99602940-4	chr5	99602846	99603046	+	841.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	126114.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	6.5	10.0	14.0	248.0	19.0	14.5	10.5	18.5
Merged-chr4-28176971-4	chr4	28176871	28177071	+	778.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SYNREP_MM|Satellite|Satellite	-636160.0	NM_001290434	13841.0	Mm.257266	NM_010141	ENSMUSG00000028289	Epha7	Cek11|Ebk|Ehk3|Hek11|Mdk1	Eph receptor A7	protein-coding	15.5	8.5	16.5	318.5	37.5	16.0	7.5	21.0
Merged-chr15-97727366-3	chr15	97727280	97727480	+	966.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168693, intron 1 of 9)	intron (NM_001168693, intron 1 of 9)	4025.0	NM_001168693	19011.0	Mm.1001	NM_008902	ENSMUSG00000022468	Endou	Pp11r|Tcl-30	endonuclease, polyU-specific	protein-coding	13.5	7.0	22.0	268.0	18.5	0.0	2.5	7.5
Merged-chr4-45407784-4	chr4	45407694	45407894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009949, intron 1 of 2)	intron (NM_001009949, intron 1 of 2)	972.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	32.5	81.0	70.0	854.5	128.0	55.5	52.5	50.5
Merged-chr13-23697621-4	chr13	23697531	23697731	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178208)	TTS (NM_178208)	827.0	NM_178208	319155.0	Mm.261662	NM_178208	ENSMUSG00000060678	Hist1h4c	-	histone cluster 1, H4c	protein-coding	21.0	20.5	18.5	306.0	30.5	10.5	19.0	18.5
Merged-chr2-102009816-4	chr2	102009693	102009893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178886, intron 4 of 5)	intron (NM_178886, intron 4 of 5)	123531.0	NM_029635	76501.0	Mm.330424	NM_029635	ENSMUSG00000027163	Commd9	1810029F08Rik|AA409293	COMM domain containing 9	protein-coding	24.5	42.0	53.5	657.5	94.5	21.0	22.0	40.5
Merged-chr4-139175430-4	chr4	139175311	139175511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033543)	TTS (NR_033543)	5244.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	76.0	141.0	99.5	1104.5	122.0	39.0	55.5	67.0
Merged-chr5-105599023-4	chr5	105598914	105599114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	79543.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	154.0	232.5	176.0	1972.0	320.0	111.0	166.0	93.5
Merged-chr13-52624276-4	chr13	52624169	52624369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 6 of 13)	intron (NM_011518, intron 6 of 13)	27387.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	30.5	83.0	48.0	725.5	99.5	16.5	43.0	30.0
Merged-chr17-48825695-4	chr17	48825599	48825799	+	974.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-106883.0	NM_027452	70530.0	Mm.133607	NM_027452	ENSMUSG00000040490	Lrfn2	5730420O05Rik|SALM1|mKIAA1246	leucine rich repeat and fibronectin type III domain containing 2	protein-coding	41.0	40.5	35.5	540.5	35.0	9.0	24.5	20.5
Merged-chr5-121009672-4	chr5	121009558	121009758	+	755.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011286)	promoter-TSS (NM_011286)	-120.0	NM_011286	19894.0	Mm.181166	NM_011286	ENSMUSG00000029608	Rph3a	2900002P20Rik|AU022689|AW108370	rabphilin 3A	protein-coding	6.5	10.0	5.5	106.0	21.5	7.5	12.0	13.5
Merged-chr5-113945385-4	chr5	113945277	113945477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 14 of 14)	intron (NM_198109, intron 14 of 14)	-36671.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	131.0	167.5	126.5	2040.0	187.0	70.0	157.0	85.5
Merged-chr7-110616023-4	chr7	110615937	110616137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1117.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	26.5	49.0	32.5	489.5	104.5	16.5	56.5	31.5
Merged-chr15-93399817-4	chr15	93399712	93399912	+	824.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358749, intron 2 of 8)	T-rich|Low_complexity|Low_complexity	1348.0	NM_001285863	223828.0	Mm.74208	NM_146062	ENSMUSG00000036167	Pphln1	CR|HSPC206|HSPC232	periphilin 1	protein-coding	8.5	7.5	6.0	124.5	39.0	9.0	5.5	13.0
Merged-chr11-53825596-4	chr11	53825505	53825705	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 2 of 3)	intron (NR_033332, intron 2 of 3)	33651.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	1.0	9.5	8.5	199.5	47.0	16.0	19.5	17.5
Merged-chr3-96596946-4	chr3	96596831	96597031	+	940.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024851, intron 1 of 1)	intron (NM_001024851, intron 1 of 1)	295.0	NM_001024851	545554.0	Mm.267664	NM_001024851	ENSMUSG00000049097	Ankrd34a	AW060394|Ankrd34	ankyrin repeat domain 34A	protein-coding	5.5	28.5	9.0	234.5	44.0	14.0	18.0	33.5
Merged-chr11-82078234-4	chr11	82078138	82078338	+	806.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20406.0	NM_011330	20292.0	Mm.4686	NM_011330	ENSMUSG00000020676	Ccl11	Scya11|eotaxin	chemokine (C-C motif) ligand 11	protein-coding	10.5	24.0	9.0	91.0	23.5	10.0	12.5	9.0
Merged-chr19-46339840-4	chr19	46339739	46339939	+	981.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1179.0	NM_001164292	67116.0	Mm.218848	NM_024192	ENSMUSG00000036748	Cuedc2	3010002G01Rik	CUE domain containing 2	protein-coding	32.5	18.0	12.0	206.0	48.5	19.5	20.0	24.0
Merged-chr19-53141441-4	chr19	53141341	53141541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164101, intron 1 of 13)	intron (NM_001164101, intron 1 of 13)	998.0	NM_001164101	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	27.5	22.5	33.0	592.5	59.5	33.0	31.0	40.0
Merged-chr2-92296618-4	chr2	92296517	92296717	+	933.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109690, intron 3 of 15)	intron (NM_001109690, intron 3 of 15)	74440.0	NM_001290774	228366.0	Mm.31158	NM_172670	ENSMUSG00000040434	Large2	5730485C17Rik|AI891893|Gyltl1b|Largel|mKIAA4105	LARGE xylosyl- and glucuronyltransferase 2	protein-coding	25.0	20.5	11.5	270.0	55.0	16.0	20.5	21.0
Merged-chr10-87817031-4	chr10	87816961	87817161	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41204.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	22.5	27.5	19.0	514.5	51.5	20.5	16.0	19.5
Merged-chr9-72985482-4	chr9	72985393	72985593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114328)	promoter-TSS (NM_001114328)	-11.0	NM_001286545	72278.0	Mm.268475	NM_028181	ENSMUSG00000034563	Ccpg1	1700030B06Rik|1810073J13Rik|9430028F23Rik|AI426686|AI875170|CPR8|D9Ertd392e	cell cycle progression 1	protein-coding	191.5	282.0	203.0	3204.0	524.5	190.0	296.5	209.5
Merged-chr12-75670552-2	chr12	75670452	75670652	+	999.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-1015.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	18.0	5.5	4.5	72.0	8.5	5.5	5.5	10.5
Merged-chr2-35108316-4	chr2	35108212	35108412	+	916.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1180.0	NM_012018	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	30.5	29.5	12.0	156.0	33.0	10.5	15.5	20.5
Merged-chr9-115740122-3	chr9	115740043	115740243	+	785.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-169312.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	0.0	2.0	0.5	0.0	21.5	9.0	19.5	8.0
Merged-chr11-88869634-3	chr11	88869546	88869746	+	658.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126433, intron 3 of 4)	intron (NR_126433, intron 3 of 4)	-5060.0	NM_001042541	11640.0	Mm.2969	NM_009648	ENSMUSG00000018428	Akap1	AKAP121|AKAP84|Akap|C76494|C81186|DAKAP1|S-AKAP84	A kinase (PRKA) anchor protein 1	protein-coding	5.0	5.0	3.0	92.0	24.5	7.5	14.0	11.0
Merged-chr13-74062247-4	chr13	74062131	74062331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028959)	promoter-TSS (NM_028959)	54.0	NM_028959	74470.0	Mm.73234	NM_028959	ENSMUSG00000021572	Cep72	2610029E11Rik|4933440J22Rik	centrosomal protein 72	protein-coding	97.5	118.5	170.0	1441.5	166.0	81.0	90.0	73.0
Merged-chr18-74780066-4	chr18	74779934	74780134	+	963.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177470, intron 1 of 9)	intron (NM_177470, intron 1 of 9)	822.0	NM_177470	52538.0	Mm.245724	NM_177470	ENSMUSG00000036880	Acaa2	0610011L04Rik|AI255831|AI265397|D18Ertd240e	acetyl-Coenzyme A acyltransferase 2 (mitochondrial 3-oxoacyl-Coenzyme A thiolase)	protein-coding	13.0	26.0	7.0	167.5	27.0	16.5	9.5	18.5
Merged-chr10-13184282-4	chr10	13184140	13184340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181470, intron 4 of 10)	intron (NM_181470, intron 4 of 10)	-6217.0	NM_029172	75122.0	Mm.159433	NM_029172	ENSMUSG00000019815	Zc2hc1b	4930519B02Rik|Fam164b	zinc finger, C2HC-type containing 1B	protein-coding	36.0	44.5	46.5	621.0	74.0	18.0	24.0	27.0
Merged-chr2-90904711-4	chr2	90904556	90904756	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311116)	promoter-TSS (NM_001311116)	65.0	NM_026688	68349.0	Mm.30113	NM_026688	ENSMUSG00000005510	Ndufs3	0610010M09Rik|CI-30kD	NADH dehydrogenase (ubiquinone) Fe-S protein 3	protein-coding	31.0	39.0	19.0	323.5	77.0	9.5	28.0	27.5
Merged-chr11-116195458-4	chr11	116195393	116195593	+	947.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271898, intron 2 of 13)	intron (NM_001271898, intron 2 of 13)	-3362.0	NM_027107	69535.0	Mm.390347	NM_027107	ENSMUSG00000020778	Ten1	2310004N24Rik	TEN1 telomerase capping complex subunit	protein-coding	26.0	26.5	12.5	398.5	41.5	15.5	12.0	10.0
Merged-chr12-51355501-4	chr12	51355400	51355600	+	774.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015099, intron 4 of 14)	MTD|LTR|ERVL-MaLR	7270.0	NM_001015099	217558.0	Mm.253264	NM_001015099	ENSMUSG00000035293	G2e3	6030408C04Rik|9030416F18|AW046379|D930034K21Rik|mKIAA1333	G2/M-phase specific E3 ubiquitin ligase	protein-coding	15.5	7.0	9.0	204.0	31.5	3.0	6.0	13.5
Merged-chr10-25128620-4	chr10	25128505	25128705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	71565.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	36.5	43.5	50.0	467.5	49.0	28.5	31.5	29.0
Merged-chr3-59206161-3	chr3	59206050	59206250	+	752.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	4732.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	11.0	23.5	9.5	114.5	11.5	14.0	3.0	10.0
Merged-chr10-78069746-4	chr10	78069646	78069846	+	958.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015790, intron 1 of 6)	CpG	378.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	12.0	18.0	17.5	260.0	47.0	8.5	25.5	19.0
Merged-chr12-40536206-7	chr12	40536042	40536242	+	866.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	MLTR11A|LTR|ERVK	90089.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	10.0	19.5	11.0	142.5	21.0	5.0	9.5	15.0
Merged-chr6-17754626-3	chr6	17754534	17754734	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	5464.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	10.5	6.5	14.0	160.5	17.0	2.5	8.0	8.0
Merged-chr5-121712973-4	chr5	121712895	121713095	+	896.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	CpG	1386.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	7.5	6.0	8.0	166.0	21.0	4.0	12.0	8.5
Merged-chr6-97508210-2	chr6	97508110	97508310	+	896.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-20390.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	8.5	6.0	6.0	89.0	15.0	3.0	2.0	5.5
Merged-chr7-106215394-4	chr7	106215289	106215489	+	892.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029000).2	promoter-TSS (NM_029000).2	-49.0	NM_029000	74558.0	Mm.458429	NM_029000	ENSMUSG00000045868	Gvin1	9130002C22Rik|9830104F22Rik|Iigs1|VLIG|VLIG-1	GTPase, very large interferon inducible 1	protein-coding	18.5	19.5	12.0	185.0	57.5	21.0	31.5	12.0
Merged-chr13-78199274-3	chr13	78199178	78199378	+	874.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010151)	promoter-TSS (NM_010151)	-405.0	NM_010151	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	13.0	17.5	8.0	172.0	15.5	5.5	14.0	5.5
Merged-chr17-65783786-4	chr17	65783679	65783879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152099, intron 2 of 20)	CpG-6545	424.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	15.5	37.0	25.5	354.5	37.5	24.0	38.0	29.5
Merged-chr9-120011263-4	chr9	120011168	120011368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	12330.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	122.0	134.0	57.5	1032.0	253.0	92.0	128.5	109.5
Merged-chr11-51918058-4	chr11	51918015	51918215	+	921.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49516.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	11.0	21.0	11.0	197.0	26.0	12.0	14.5	14.5
Merged-chr7-105762956-4	chr7	105762859	105763059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162943, exon 10 of 21)	exon (NM_001162943, exon 10 of 21)	-10724.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	41.0	84.5	25.0	684.0	196.0	70.0	94.5	67.5
Merged-chr2-120134926-4	chr2	120134811	120135011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 2 of 5)	intron (NM_133838, intron 2 of 5)	19664.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	66.5	71.5	40.5	831.0	131.5	41.5	63.5	75.0
Merged-chr5-35575073-4	chr5	35574953	35575153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030208)	promoter-TSS (NM_030208)	17.0	NM_030208	78890.0	Mm.98522	NM_030208	ENSMUSG00000029097	Trmt44	2310079F23Rik|Mettl19	tRNA methyltransferase 44	protein-coding	68.5	60.5	44.0	874.0	184.5	49.5	56.5	54.5
Merged-chr17-88284649-4	chr17	88284537	88284737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-156067.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	21.0	44.5	15.5	477.0	111.5	24.5	41.5	43.5
Merged-chr7-16286347-4	chr7	16286240	16286440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136471, intron 1 of 13)	CpG	455.0	NM_001136471	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	285.0	501.0	267.0	3715.0	717.0	293.0	326.5	275.0
Merged-chr14-54735223-3	chr14	54735100	54735300	+	933.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 5 of 10)	intron (NM_016972, intron 5 of 10)	-23026.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	19.0	27.0	5.0	105.0	38.0	5.0	5.5	5.5
Merged-chr1-9859156-4	chr1	9859060	9859260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037759, intron 1 of 16)	intron (NM_001037759, intron 1 of 16)	10879.0	NM_001037759	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	66.0	82.5	62.0	1065.5	171.0	35.0	62.0	49.5
Merged-chr12-56336729-4	chr12	56336618	56336818	+	930.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145442, intron 6 of 8)	intron (NM_145442, intron 6 of 8)	9176.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	17.5	26.5	8.5	369.0	48.5	5.5	28.0	17.0
Merged-chr1-131094079-4	chr1	131093969	131094169	+	945.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	3774.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	14.5	12.0	12.5	193.0	57.0	19.0	21.0	28.0
Merged-chr4-149709091-3	chr4	149708996	149709196	+	901.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7467.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	13.5	12.5	15.5	210.5	41.0	7.5	8.0	6.5
Merged-chr17-27025489-4	chr17	27025384	27025584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001251881, intron 2 of 6)	intron (NM_001251881, intron 2 of 6)	3143.0	NM_007523	12018.0	Mm.2443	NM_007523	ENSMUSG00000057789	Bak1	Bak|N-BAK1|N-Bak	BCL2-antagonist/killer 1	protein-coding	72.5	126.5	88.0	1239.0	189.0	71.5	62.0	84.0
Merged-chr6-122820632-5	chr6	122820535	122820735	+	872.64447	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021899, exon 1 of 11)	5' UTR (NM_021899, exon 1 of 11)	451.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	4.0	15.0	8.5	113.0	49.5	12.0	7.5	12.5
Merged-chr5-146757434-4	chr5	146757299	146757499	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 3 of 8)	intron (NM_011669, intron 3 of 8)	37557.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	12.5	18.5	15.0	394.0	45.5	15.0	10.0	17.0
Merged-chr9-45961970-4	chr9	45961849	45962049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6700.0	NM_172257	214597.0	Mm.379345	NM_172257	ENSMUSG00000034908	Sidt2	B930096O19|BC023957|CGI-40	SID1 transmembrane family, member 2	protein-coding	79.0	107.0	98.5	1162.0	174.0	66.0	65.5	77.0
Merged-chr6-72940659-3	chr6	72940558	72940758	+	860.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17574.0	NM_001039392	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	9.5	9.5	1.5	70.5	14.0	4.5	9.5	4.5
Merged-chr11-68706678-4	chr11	68706586	68706786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175260, intron 2 of 40)	Charlie1a|DNA|hAT-Charlie	14771.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	98.0	121.5	84.0	970.5	158.5	49.0	58.5	69.0
Merged-chr14-26675931-3	chr14	26675828	26676028	+	996.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6082.0	NM_178668	211948.0	Mm.290758	NM_178668	ENSMUSG00000043702	Pde12	2'-PDE|E430028B21Rik	phosphodiesterase 12	protein-coding	14.5	31.0	18.0	361.0	12.5	7.5	19.5	10.0
Merged-chr9-78463569-4	chr9	78463477	78463677	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026658, intron 9 of 11)	intron (NM_026658, intron 9 of 11)	15367.0	NM_026658	68291.0	Mm.291779	NM_026658	ENSMUSG00000032342	Mto1	2310039H01Rik|5730419A02Rik	mitochondrial tRNA translation optimization 1	protein-coding	20.0	29.5	31.5	556.5	80.5	13.5	19.0	21.0
Merged-chr10-80098783-4	chr10	80098669	80098869	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359637, intron 1 of 3)	intron (NM_001359637, intron 1 of 3)	2418.0	NM_001359635	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	39.5	61.0	16.5	543.5	105.5	27.5	61.5	40.0
Merged-chr4-116627500-4	chr4	116627405	116627605	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284229)	promoter-TSS (NM_001284229)	-8.0	NM_001284229	50927.0	Mm.257181	NM_016777	ENSMUSG00000028693	Nasp	5033430J04Rik|AI131596|AI317140|D4Ertd767e|Epcs32|Nasp-T	nuclear autoantigenic sperm protein (histone-binding)	protein-coding	20.5	30.0	17.5	253.0	76.0	20.0	23.5	20.5
Merged-chr14-30152298-4	chr14	30152177	30152377	+	990.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 8 of 46)	intron (NM_001083616, intron 8 of 46)	129644.0	NM_175343	218865.0	Mm.259916	NM_172264	ENSMUSG00000015970	Chdh	AU041472|D630034H06Rik	choline dehydrogenase	protein-coding	28.0	55.0	24.0	266.5	57.0	29.5	18.0	21.5
Merged-chr2-72384373-4	chr2	72384280	72384480	+	918.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 9 of 19)	intron (NM_023057, intron 9 of 19)	-91839.0	NM_025866	66953.0	Mm.270676	NM_025866	ENSMUSG00000055612	Cdca7	2310021G01Rik|AU044109|JPO1	cell division cycle associated 7	protein-coding	14.5	9.5	5.0	205.0	47.5	12.0	15.0	21.5
Merged-chr12-8496883-17	chr12	8496806	8497006	+	933.397034	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007483)	TTS (NM_007483)	3103.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	8.0	16.5	8.5	302.5	43.0	21.0	10.5	21.0
Merged-chr7-81167293-3	chr7	81167190	81167390	+	584.083313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001004184, intron 14 of 17)	B2_Mm2|SINE|B2	-46514.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	7.5	9.5	8.0	75.5	20.5	6.5	8.5	20.5
Merged-chr5-130456704-3	chr5	130456614	130456814	+	832.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021371, intron 1 of 5)	intron (NM_021371, intron 1 of 5)	7922.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	4.0	13.0	8.5	194.5	18.0	4.5	10.5	8.0
Merged-chr1-181888986-4	chr1	181888885	181889085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46584.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	45.5	59.0	27.0	489.5	138.5	71.0	47.5	65.0
Merged-chr17-37524765-4	chr17	37524668	37524868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5189.0	NM_001005485	545205.0	Mm.383371	NM_001005485	ENSMUSG00000090675	Olfr111	-	olfactory receptor 111	protein-coding	47.0	57.0	59.5	636.5	105.0	41.5	50.5	52.5
Merged-chr12-102877586-6	chr12	102877495	102877695	+	968.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172806, intron 1 of 11)	CpG	811.0	NM_172806	238386.0	Mm.63456	NM_172806	ENSMUSG00000041702	Btbd7	5730507E09Rik|8030448M07|E130118E17Rik|FUP1|mKIAA1525	BTB (POZ) domain containing 7	protein-coding	5.0	16.0	12.0	278.0	29.0	11.0	17.0	12.5
Merged-chr3-148986986-2	chr3	148986911	148987111	+	601.333374	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32376.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	6.0	7.5	9.0	100.5	9.0	4.0	4.0	1.5
Merged-chr6-108702794-4	chr6	108702706	108702906	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41872.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	26.0	50.0	23.5	433.5	82.0	15.0	43.5	29.5
Merged-chr5-30867096-3	chr5	30866999	30867199	+	921.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310516)	TTS (NM_001310516)	-2480.0	NM_144525	68796.0	Mm.205169	NM_144525	ENSMUSG00000038828	Tmem214	1110039B18Rik|4921530J21Rik|AI841294|AU018742|C76280	transmembrane protein 214	protein-coding	7.0	17.0	14.5	138.5	14.5	6.5	8.0	4.0
Merged-chr1-124045503-7	chr1	124045459	124045659	+	797.221436	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199021)	promoter-TSS (NM_199021)	0.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	6.5	6.5	15.0	113.0	15.0	6.0	10.5	5.5
Merged-chr14-70212807-4	chr14	70212702	70212902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5131.0	NM_011366	20410.0	Mm.5068	NM_011366	ENSMUSG00000022091	Sorbs3	SCAM-1|SH3P3|Sh3d4|vinexin-g	sorbin and SH3 domain containing 3	protein-coding	104.0	134.5	72.5	1241.0	208.0	88.5	98.5	75.0
Merged-chr15-27987916-3	chr15	27987826	27988026	+	825.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	37922.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	11.5	8.5	14.5	222.0	17.5	4.5	10.0	8.0
Merged-chr2-103153476-4	chr2	103153373	103153573	+	972.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79798.0	NM_019735	56369.0	Mm.24772	NM_019735	ENSMUSG00000010911	Apip	APIP2|CGI-29|Mmrp19	APAF1 interacting protein	protein-coding	19.5	26.0	15.5	260.0	46.5	5.0	17.0	4.0
Merged-chr5-63906716-4	chr5	63906601	63906801	+	912.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62196.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	12.0	15.5	12.5	185.5	29.5	18.5	25.5	9.5
Merged-chr3-144562149-3	chr3	144562059	144562259	+	757.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355234, intron 1 of 6)	L1MA8|LINE|L1	8057.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	3.5	2.5	8.5	116.0	12.5	5.5	7.0	9.5
Merged-chr7-143107249-10	chr7	143107182	143107382	+	898.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008434)	promoter-TSS (NM_008434)	28.0	NM_008434	16535.0	Mm.439769	NM_008434	ENSMUSG00000009545	Kcnq1	AW559127|KVLQT1|Kcna9	potassium voltage-gated channel, subfamily Q, member 1	protein-coding	13.0	4.5	13.0	90.5	29.5	8.0	14.5	12.5
Merged-chr11-52343377-4	chr11	52343269	52343469	+	689.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17493.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	11.0	16.5	12.0	71.5	20.0	6.5	6.0	10.0
Merged-chr2-34775510-2	chr2	34775410	34775610	+	839.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163434, intron 8 of 8)	intron (NM_001163434, intron 8 of 8)	3420.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	6.5	10.0	3.5	70.0	9.5	9.5	13.0	6.5
Merged-chr3-97265184-4	chr3	97265100	97265300	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-37836.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	5.0	11.5	5.5	127.0	56.0	5.0	17.5	8.0
Merged-chr5-3505730-4	chr5	3505619	3505819	+	986.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-38114.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	20.5	30.5	16.0	278.5	34.0	17.5	20.5	16.5
Merged-chr9-57524624-3	chr9	57524528	57524728	+	806.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007747, intron 1 of 4)	intron (NM_007747, intron 1 of 4)	3396.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	5.0	6.5	10.0	122.5	21.0	3.5	3.0	12.0
Merged-chr3-133092471-4	chr3	133092378	133092578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026231)	promoter-TSS (NM_026231)	-439.0	NM_001356309	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	65.0	98.0	42.5	752.0	117.0	48.5	52.5	30.0
Merged-chr3-52070052-4	chr3	52069939	52070139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	34967.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	102.0	143.0	83.5	1360.5	251.0	73.0	99.0	81.5
Merged-chr2-32784503-4	chr2	32784424	32784624	+	947.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025619)	promoter-TSS (NM_025619)	-119.0	NM_025619	227736.0	Mm.441499	NM_025619	ENSMUSG00000038987	Cfap157	1700019L03Rik	cilia and flagella associated protein 157	protein-coding	27.5	22.5	4.5	149.0	34.5	8.5	14.0	8.5
Merged-chr7-136327285-4	chr7	136327217	136327417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22098.0	NR_040459	330664.0	Mm.127762	NR_040459	ENSMUSG00000109633	C230079O03Rik	C230079O03	RIKEN cDNA C230079O03 gene	ncRNA	21.5	25.5	35.5	419.5	77.5	24.5	44.0	29.5
Merged-chr19-40660885-1	chr19	40660785	40660985	+	772.0	f0_balb.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	1115.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	17.5	14.5	14.0	214.0	27.5	6.5	16.0	17.5
Merged-chr7-79877961-3	chr7	79877860	79878060	+	749.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009682, exon 6 of 6)	3' UTR (NM_009682, exon 6 of 6)	-29750.0	NM_008486	16790.0	Mm.4487	NM_008486	ENSMUSG00000039062	Anpep	AP-M|AP-N|Apn|Cd13|P150	alanyl (membrane) aminopeptidase	protein-coding	9.5	13.5	3.0	62.5	18.5	5.5	6.5	6.0
Merged-chr5-148746944-4	chr5	148746859	148747059	+	893.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44D|LTR|ERVK	5119.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	9.0	12.0	9.0	71.5	97.5	26.0	27.0	21.5
Merged-chr4-148041118-4	chr4	148041034	148041234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161798)	promoter-TSS (NM_001161798)	-55.0	NR_027809	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	54.0	73.0	60.5	658.0	170.0	57.0	82.5	71.5
Merged-chr6-125651533-3	chr6	125651427	125651627	+	781.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 34 of 51)	intron (NM_011708, intron 34 of 51)	-38892.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	6.0	6.0	8.5	128.0	13.5	6.0	5.5	6.5
Merged-chr3-100161248-2	chr3	100161141	100161341	+	816.041626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355657, intron 1 of 26)	intron (NM_001355657, intron 1 of 26)	1166.0	NM_175552	269470.0	Mm.24591	NM_175552	ENSMUSG00000033285	Wdr3	AW546279|D030020G18Rik	WD repeat domain 3	protein-coding	3.0	9.5	5.5	83.0	16.5	7.0	5.0	9.0
Merged-chr10-40276110-4	chr10	40276015	40276215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18403.0	NM_001359492	67371.0	Mm.64104	NM_026113	ENSMUSG00000019837	Gtf3c6	2410016F19Rik|AU019813	general transcription factor IIIC, polypeptide 6, alpha	protein-coding	51.5	96.5	76.5	1323.0	79.0	31.0	51.0	52.0
Merged-chr4-150864144-3	chr4	150864042	150864242	+	804.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133753, intron 1 of 3)	intron (NM_133753, intron 1 of 3)	9072.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	8.0	13.5	8.0	67.0	14.0	7.0	1.0	5.0
Merged-chr8-26158775-4	chr8	26158676	26158876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199042, intron 1 of 2)	CpG	607.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	110.5	181.0	109.5	1465.0	188.0	80.5	87.5	70.5
Merged-chr7-98793262-1	chr7	98793162	98793362	+	975.0	f0_balb.idr	Intergenic	Intergenic	-41850.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	7.5	10.5	9.5	163.0	6.0	2.0	2.0	3.5
Merged-chr11-100712454-4	chr11	100712388	100712588	+	881.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020004)	promoter-TSS (NM_020004)	-21.0	NM_020004	14534.0	Mm.218837	NM_020004	ENSMUSG00000020918	Kat2a	1110051E14Rik|AW212720|Gcn5|Gcn5l2|mmGCN5	K(lysine) acetyltransferase 2A	protein-coding	10.0	13.5	6.0	97.0	41.0	12.5	14.5	8.5
Merged-chr11-114706512-4	chr11	114706420	114706620	+	872.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 6 of 13)	intron (NM_053273, intron 6 of 13)	-20892.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	10.0	7.5	12.0	99.5	15.0	6.5	20.5	17.0
Merged-chr2-92183259-6	chr2	92183157	92183357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346704)	promoter-TSS (NM_001346704)	-925.0	NM_138755	192285.0	Mm.330408	NM_138755	ENSMUSG00000058318	Phf21a	80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1	PHD finger protein 21A	protein-coding	27.0	28.5	33.5	329.0	48.5	18.5	22.5	40.0
Merged-chr1-91187544-4	chr1	91187427	91187627	+	974.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168392, intron 1 of 3)	intron (NM_001168392, intron 1 of 3)	7705.0	NM_001168392	51801.0	Mm.3272	NM_016894	ENSMUSG00000034353	Ramp1	9130218E19Rik	receptor (calcitonin) activity modifying protein 1	protein-coding	30.0	23.5	49.5	733.5	38.0	15.5	30.0	22.0
Merged-chr6-115033727-4	chr6	115033610	115033810	+	904.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026894, intron 2 of 7)	intron (NM_026894, intron 2 of 7)	4164.0	NM_026894	68971.0	Mm.24937	NM_026894	ENSMUSG00000030316	Tamm41	1500001M20Rik|TAM41	TAM41 mitochondrial translocator assembly and maintenance homolog	protein-coding	7.5	20.0	8.5	248.5	28.5	3.0	12.0	12.0
Merged-chr14-20298303-4	chr14	20298205	20298405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359869, intron 3 of 9)	intron (NM_001359869, intron 3 of 9)	3615.0	NR_153364	67725.0	Mm.317636	NM_026341	ENSMUSG00000021809	Nudt13	4933433B15Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 13	protein-coding	41.5	74.0	46.0	708.5	132.5	63.5	58.0	55.5
Merged-chr5-121284984-3	chr5	121284894	121285094	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181421, intron 11 of 75)	intron (NM_181421, intron 11 of 75)	64775.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	6.5	13.0	4.5	231.5	10.0	2.0	15.5	5.0
Merged-chr5-41563604-4	chr5	41563514	41563714	+	881.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144077.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	5.0	10.0	7.0	106.0	47.0	21.5	17.5	24.5
Merged-chr13-44996487-4	chr13	44996383	44996583	+	840.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 1 of 9)	intron (NM_025772, intron 1 of 9)	5613.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	9.0	10.0	14.0	134.5	29.5	2.0	8.5	15.0
Merged-chr3-89482494-2	chr3	89482394	89482594	+	713.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22923.0	NM_027348	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	1.5	2.0	3.5	65.0	14.5	10.5	8.0	8.0
Merged-chr2-152806234-4	chr2	152806123	152806323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	22266.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	187.5	232.0	229.0	2930.0	299.5	104.0	123.5	146.0
Merged-chr17-10702984-4	chr17	10702888	10703088	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	137203.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	81.0	64.0	92.0	1233.5	66.5	23.0	22.5	20.5
Merged-chr6-96087167-3	chr6	96087069	96087269	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-25985.0	NM_182808	320265.0	Mm.489890	NM_182808	ENSMUSG00000059187	Fam19a1	C630007B19Rik|FAM19A1 TAFA-1|TAFA1|Tafa-1	family with sequence similarity 19, member A1	protein-coding	25.0	31.5	49.0	607.5	12.5	1.5	5.5	9.5
Merged-chr8-69184287-4	chr8	69184186	69184386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24760.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	53.0	64.0	61.0	1404.5	122.5	37.0	83.0	57.5
Merged-chr2-148478497-4	chr2	148478397	148478597	+	829.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34962.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	41.5	15.0	31.0	334.5	21.5	15.5	14.5	14.5
Merged-chr19-44582847-4	chr19	44582745	44582945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19991.0	NM_176958	319594.0	Mm.145278	NM_176958	ENSMUSG00000036450	Hif1an	2310046M24Rik|A830014H24Rik|FIH|FIH1	hypoxia-inducible factor 1, alpha subunit inhibitor	protein-coding	43.5	63.0	37.5	636.5	90.5	32.0	63.0	33.0
Merged-chr2-155101849-1	chr2	155101749	155101949	+	656.0	f0_balb.idr	Intergenic	Intergenic	-1770.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	7.5	4.5	5.0	87.5	4.0	6.0	1.5	5.0
Merged-chr11-98023313-4	chr11	98023213	98023413	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031173)	promoter-TSS (NM_031173)	-686.0	NM_001282978	12295.0	Mm.41252	NM_031173	ENSMUSG00000020882	Cacnb1	CAB1|Cchb1|Cchlb1	calcium channel, voltage-dependent, beta 1 subunit	protein-coding	24.5	42.5	9.5	375.0	80.0	25.0	30.0	25.0
Merged-chr13-12340784-4	chr13	12340680	12340880	+	942.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033268)	promoter-TSS (NM_033268)	-48.0	NM_033268	11472.0	Mm.37638	NM_033268	ENSMUSG00000052374	Actn2	1110008F24Rik	actinin alpha 2	protein-coding	18.0	14.5	14.5	200.5	39.5	15.0	13.0	26.5
Merged-chr1-64297023-4	chr1	64296921	64297121	+	947.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	-175632.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	31.0	33.0	14.0	412.0	32.5	8.5	30.5	15.5
Merged-chr3-55227141-4	chr3	55227130	55227330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15134.0	NM_019978	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	14.0	7.5	14.5	326.5	57.5	14.5	28.5	22.0
Merged-chr4-129575441-4	chr4	129575400	129575600	+	875.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1859.0	NM_001162433	16818.0	Mm.293753	NM_010693	ENSMUSG00000000409	Lck	Hck-3|Lsk|Lskt|p56<lck>|p56Lck	lymphocyte protein tyrosine kinase	protein-coding	20.5	14.0	14.0	125.0	25.5	5.5	6.0	8.0
Merged-chr12-111575394-6	chr12	111575288	111575488	+	891.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045295)	promoter-TSS (NR_045295)	878.0	NM_022801	17169.0	Mm.260504	NM_021516	ENSMUSG00000007411	Mark3	1600015G02Rik|A430080F22Rik|C-TAK1|ETK-1|ETK1|Emk2|MPK10	MAP/microtubule affinity regulating kinase 3	protein-coding	12.0	6.5	3.0	88.5	30.0	8.5	11.5	6.0
Merged-chr11-120232799-4	chr11	120232692	120232892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347621)	promoter-TSS (NM_001347621)	-155.0	NM_001347621	268515.0	Mm.309498	NM_198423	ENSMUSG00000039741	Bahcc1	B930044J06|BC060615	BAH domain and coiled-coil containing 1	protein-coding	48.5	84.5	29.0	749.0	263.0	103.5	106.5	87.0
Merged-chr5-43180239-1	chr5	43180139	43180339	+	914.0	f0_balb.idr	intron (NR_028417, intron 5 of 7)	intron (NR_028417, intron 5 of 7)	-53224.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	10.0	7.5	9.0	150.5	15.0	2.0	12.5	4.5
Merged-chr7-101548993-4	chr7	101548898	101549098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6804.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	62.5	130.5	110.5	1274.5	213.0	74.5	98.0	92.5
Merged-chr4-126677604-4	chr4	126677516	126677716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011970)	promoter-TSS (NM_011970)	-27.0	NM_011970	26445.0	Mm.22233	NM_011970	ENSMUSG00000028837	Psmb2	AU045357|AW108089|C7-I|D4Wsu33e|HC7-I	proteasome (prosome, macropain) subunit, beta type 2	protein-coding	164.5	216.0	84.0	1536.0	374.5	185.5	167.5	170.5
Merged-chr1-16106520-3	chr1	16106408	16106608	+	824.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133832, intron 1 of 5)	intron (NM_133832, intron 1 of 5)	626.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	9.0	7.0	6.0	122.5	12.5	6.5	10.5	5.5
Merged-chr9-45095311-3	chr9	45095213	45095413	+	978.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 6 of 10)	intron (NM_001005421, intron 6 of 10)	16130.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	28.0	42.0	10.5	314.5	26.0	3.5	4.5	4.5
Merged-chr16-32277639-6	chr16	32277566	32277766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027355, exon 1 of 6)	5' UTR (NM_027355, exon 1 of 6)	205.0	NM_027355	70238.0	Mm.228263	NM_027355	ENSMUSG00000014074	Rnf168	3110001H15Rik	ring finger protein 168	protein-coding	19.0	33.0	23.5	293.5	39.5	20.0	24.5	26.5
Merged-chr10-99107577-2	chr10	99107477	99107677	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015737)	promoter-TSS (NM_015737)	495.0	NR_153333	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	11.5	16.0	13.5	153.0	30.5	15.5	14.0	15.5
Merged-chr13-69382957-4	chr13	69382842	69383042	+	874.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150922.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	4.0	12.5	4.0	184.5	49.0	20.5	27.0	19.0
Merged-chr14-27383633-3	chr14	27383528	27383728	+	790.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 4 of 10)	intron (NM_027871, intron 4 of 10)	22239.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	8.5	10.5	15.0	110.0	10.0	3.0	2.5	7.0
Merged-chr5-64866827-3	chr5	64866729	64866929	+	790.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63306.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	7.0	10.5	2.0	114.0	18.0	5.0	9.5	11.5
Merged-chr14-87141274-4	chr14	87141163	87141363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019670)	promoter-TSS (NM_019670)	-39.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	223.0	284.0	205.0	4402.0	548.0	227.0	298.0	216.0
Merged-chr4-109665281-4	chr4	109665149	109665349	+	923.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007671, exon 1 of 2)	5' UTR (NM_007671, exon 1 of 2)	123.0	NM_007671	12580.0	Mm.1912	NM_007671	ENSMUSG00000028551	Cdkn2c	C77269|INK4c|p18|p18-INK4c|p18-INK6|p18INK4c	cyclin dependent kinase inhibitor 2C	protein-coding	12.5	8.0	14.5	134.5	21.0	7.5	14.5	12.5
Merged-chr17-53980096-2	chr17	53979998	53980198	+	770.0	f0_balb.idr|f1_balb.idr	intron (NM_018751, intron 1 of 7)	L1_Mur3|LINE|L1	10533.0	NM_018751	20888.0	Mm.10108	NM_018751	ENSMUSG00000023943	Sult1c1	(PST)G|P-SULT|ST1C1|Stp2|Sult1a2|mOLFST	sulfotransferase family, cytosolic, 1C, member 1	protein-coding	17.0	15.0	10.0	333.0	0.0	0.0	1.5	0.0
Merged-chr11-80154869-5	chr11	80154742	80154942	+	849.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 1 of 10)	intron (NM_172133, intron 1 of 10)	680.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	9.5	8.0	7.0	34.0	13.5	19.0	15.5	20.0
Merged-chr17-34250747-3	chr17	34250657	34250857	+	876.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11852.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	23.5	21.0	11.0	197.5	8.0	0.0	3.5	3.0
Merged-chr12-70783065-3	chr12	70782967	70783167	+	659.783325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42447.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	5.0	7.0	6.5	175.5	8.0	2.0	2.5	8.0
Merged-chr7-16874353-4	chr7	16874250	16874450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081655)	promoter-TSS (NM_001081655)	536.0	NR_152128	320950.0	Mm.420078	NR_152128	ENSMUSG00000097842	9330104G04Rik	-	RIKEN cDNA 9330104G04 gene	ncRNA	30.0	59.5	36.0	442.5	130.5	47.0	37.5	43.0
Merged-chr1-131963041-7	chr1	131962943	131963143	+	984.68573	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001177628, exon 1 of 5)	5' UTR (NM_001177628, exon 1 of 5)	128.0	NM_001177628	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	20.0	20.5	17.5	162.0	37.5	14.0	16.0	14.0
Merged-chr10-29338858-4	chr10	29338759	29338959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110195, intron 5 of 5)	intron (NM_001110195, intron 5 of 5)	18854.0	NM_001284279	68031.0	Mm.28930	NM_026518	ENSMUSG00000038876	Rnf146	2610509H23Rik|Iduna	ring finger protein 146	protein-coding	37.0	51.0	23.5	750.0	136.5	40.5	35.5	54.0
Merged-chr12-113153388-3	chr12	113153325	113153525	+	740.644409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007763, intron 2 of 4)	intron (NM_007763, intron 2 of 4)	1413.0	NM_007763	12925.0	Mm.272368	NM_007763	ENSMUSG00000006360	Crip1	CRHP|CRP1|Crip	cysteine-rich protein 1 (intestinal)	protein-coding	4.5	13.5	8.0	134.5	4.0	1.0	2.0	10.5
Merged-chr11-69630126-2	chr11	69630026	69630226	+	944.9166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2845.0	NM_011814	23879.0	Mm.41930	NM_011814	ENSMUSG00000018765	Fxr2	Fxr2h	fragile X mental retardation, autosomal homolog 2	protein-coding	4.5	2.5	3.0	34.0	7.0	10.5	7.5	16.5
Merged-chr8-25990226-6	chr8	25990083	25990283	+	923.288879	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029037, intron 1 of 4)	intron (NM_029037, intron 1 of 4)	3938.0	NM_029037	74653.0	Mm.17631	NM_029037	ENSMUSG00000037251	Pomk	4930444A02Rik|Sgk196	protein-O-mannose kinase	protein-coding	7.5	17.0	1.0	138.0	29.5	11.5	17.0	17.5
Merged-chr11-115161861-5	chr11	115161834	115162034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163753, exon 9 of 9)	3' UTR (NM_001163753, exon 9 of 9)	-1407.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	11.5	33.5	39.5	318.0	55.5	21.5	27.5	19.0
Merged-chr16-84834933-4	chr16	84834835	84835035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302216)	promoter-TSS (NM_001302216)	41.0	NM_001358500	11957.0	Mm.353	NM_016755	ENSMUSG00000022890	Atp5j	CF6	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F	protein-coding	246.0	266.5	215.5	3080.5	557.5	223.0	271.5	194.5
Merged-chr5-28317013-4	chr5	28316918	28317118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028234)	promoter-TSS (NM_028234)	-171.0	NM_028234	381626.0	Mm.304075	NM_028234	ENSMUSG00000048271	Rbm33	3200001K10Rik|6430512A10Rik|AA386890|Prr8	RNA binding motif protein 33	protein-coding	46.0	42.0	46.5	687.0	85.5	42.0	57.5	30.0
Merged-chr1-138322855-4	chr1	138322769	138322969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49131.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	118.5	213.0	90.5	1572.5	271.5	119.5	99.0	107.0
Merged-chr12-111744227-4	chr12	111744122	111744322	+	983.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163388, intron 4 of 5)	intron (NM_001163388, intron 4 of 5)	-14627.0	NM_001361612	16593.0	Mm.278357	NM_008450	ENSMUSG00000021288	Klc1	AI874768|Kns2	kinesin light chain 1	protein-coding	18.0	22.0	6.5	405.5	55.5	19.0	22.0	17.0
Merged-chr11-120894180-3	chr11	120894080	120894280	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 10 of 18)	RSINE1|SINE|B4	38692.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	33.5	36.0	26.5	429.0	22.0	3.0	5.5	8.0
Merged-chr6-24984802-3	chr6	24984700	24984900	+	911.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28675.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	12.5	18.0	18.0	349.5	17.0	7.0	7.0	6.5
Merged-chr7-106760194-4	chr7	106760109	106760309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6823.0	NM_146602	258595.0	Mm.377585	NM_146602	ENSMUSG00000059087	Olfr698	MOR283-3	olfactory receptor 698	protein-coding	56.5	62.0	69.5	801.0	158.5	45.0	64.5	64.0
Merged-chr7-5058330-4	chr7	5058257	5058457	+	917.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146178, intron 3 of 4)	intron (NM_146178, intron 3 of 4)	1631.0	NM_146178	232821.0	Mm.482157	NM_146178	ENSMUSG00000035228	Ccdc106	BC018462	coiled-coil domain containing 106	protein-coding	21.0	28.0	9.0	233.5	45.0	22.5	12.0	14.0
Merged-chr12-3868765-4	chr12	3868646	3868846	+	944.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 4 of 22)	intron (NM_007872, intron 4 of 22)	-6502.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	23.0	28.0	20.5	348.0	33.0	14.5	13.5	24.0
Merged-chr11-94585961-3	chr11	94585857	94586057	+	963.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153807, intron 1 of 15)	B3|SINE|B2	15829.0	NM_153807	264895.0	Mm.386885	NM_153807	ENSMUSG00000076435	Acsf2	-	acyl-CoA synthetase family member 2	protein-coding	15.0	12.0	2.5	167.0	24.5	7.0	8.0	11.5
Merged-chr6-108659516-4	chr6	108659410	108659610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104577, intron 1 of 6)	CpG	-1119.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	184.0	288.5	236.0	3659.0	335.0	109.5	180.0	136.0
Merged-chr7-45897430-3	chr7	45897335	45897535	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291064)	promoter-TSS (NM_001291064)	366.0	NM_144801	70209.0	Mm.163766	NM_144801	ENSMUSG00000002781	Tmem143	2310076O21Rik|AI481604	transmembrane protein 143	protein-coding	20.0	20.0	18.0	215.0	32.0	5.0	20.5	13.0
Merged-chr5-73286806-4	chr5	73286700	73286900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2616.0	NR_040687	72276.0	Mm.271215	NR_040687	ENSMUSG00000100175	1700025M24Rik	-	RIKEN cDNA 1700025M24 gene	ncRNA	45.5	64.0	54.0	956.5	123.0	31.5	72.5	44.5
Merged-chr5-36695851-7	chr5	36695760	36695960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081232, exon 1 of 9)	5' UTR (NM_001081232, exon 1 of 9)	161.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	36.5	77.5	59.5	372.0	134.5	36.0	56.5	63.0
Merged-chr1-33901891-4	chr1	33901791	33901991	+	908.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	Lx9|LINE|L1	5730.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	17.0	24.0	15.0	181.0	50.5	14.0	19.5	11.0
Merged-chr13-73471790-2	chr13	73471690	73471890	+	752.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 1 of 13)	MTC|LTR|ERVL-MaLR	4407.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	2.0	7.0	0.0	4.0	29.0	5.5	5.5	8.0
Merged-chr8-122432540-4	chr8	122432452	122432652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301284, intron 1 of 4)	intron (NM_001301284, intron 1 of 4)	388.0	NM_001301284	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	120.0	284.0	139.5	1186.0	407.5	148.0	123.5	97.5
Merged-chr4-11146853-2	chr4	11146753	11146953	+	744.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9588.0	NM_001199105	60599.0	Mm.393018	NM_021897	ENSMUSG00000028211	Trp53inp1	2700057G22Rik|SIP|SIP18|SIP27|Stinp|Teap|p53DINP1	transformation related protein 53 inducible nuclear protein 1	protein-coding	6.0	4.5	11.0	30.5	9.0	2.0	1.0	3.0
Merged-chr10-96430374-4	chr10	96430271	96430471	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186630.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	30.5	48.0	22.0	635.5	71.5	15.5	29.5	35.5
Merged-chr4-45848226-4	chr4	45848076	45848276	+	881.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028788)	promoter-TSS (NM_028788)	-640.0	NM_001305421	74152.0	Mm.63645	NM_028788	ENSMUSG00000028327	Stra6l	1300002K09Rik|Rbpr2	STRA6-like	protein-coding	9.5	18.5	20.0	128.5	16.0	7.0	5.5	11.0
Merged-chr12-85600505-3	chr12	85600431	85600631	+	951.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	intron (NM_001205053, intron 1 of 3)	513.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	8.5	12.5	7.5	127.0	24.0	8.0	11.0	11.0
Merged-chr2-84727369-4	chr2	84727275	84727475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133840)	promoter-TSS (NM_133840)	-107.0	NM_133840	98985.0	Mm.21583	NM_133840	ENSMUSG00000027079	Clp1	AI462438|Heab	CLP1, cleavage and polyadenylation factor I subunit	protein-coding	191.5	268.5	172.5	2592.0	473.0	244.5	205.0	189.5
Merged-chr1-43804344-4	chr1	43804248	43804448	+	787.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026430, intron 4 of 14)	Lx8|LINE|L1	23360.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	9.5	9.0	11.0	138.5	23.5	8.0	7.5	8.5
Merged-chr2-156417416-4	chr2	156417312	156417512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3497.0	NM_001291122	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	31.5	50.0	44.5	711.0	72.0	27.5	36.5	36.0
Merged-chr10-91180324-6	chr10	91180313	91180513	+	834.3555299999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8794.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	3.5	4.5	5.0	34.0	17.0	5.5	6.0	8.0
Merged-chr17-34151179-2	chr17	34151073	34151273	+	988.75	f0_balb.idr|f1_balb.idr	TTS (NM_010388)	TTS (NM_010388)	-2018.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	23.0	36.5	36.0	170.5	3.0	1.0	2.0	0.0
Merged-chr9-108999281-4	chr9	108999195	108999395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 3 of 13)	intron (NR_153430, intron 3 of 13)	7393.0	NR_153430	270198.0	Mm.132391	NM_173019	ENSMUSG00000025648	Pfkfb4	C230090D14	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4	protein-coding	37.0	50.5	42.0	730.5	108.0	37.5	61.5	41.0
Merged-chr1-12983365-4	chr1	12983244	12983444	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172841, intron 1 of 8)	intron (NM_172841, intron 1 of 8)	7791.0	NM_172841	240726.0	Mm.24481	NM_172841	ENSMUSG00000025938	Slco5a1	4732454B15|A630033C23Rik|AA407151	solute carrier organic anion transporter family, member 5A1	protein-coding	17.5	24.0	38.5	449.5	56.5	18.0	18.0	20.5
Merged-chr4-121024086-4	chr4	121023985	121024185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6838.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	120.0	128.0	97.5	1332.0	252.0	86.5	70.5	77.5
Merged-chr10-41571705-2	chr10	41571605	41571805	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 36 of 47)	B4|SINE|B4	3689.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	7.5	1.0	6.5	66.5	12.0	5.5	7.0	8.0
Merged-chr16-91547556-4	chr16	91547454	91547654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 1 of 6)	intron (NM_008338, intron 1 of 6)	460.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	80.0	157.0	59.0	707.0	203.0	79.5	85.5	60.0
Merged-chr12-44283546-3	chr12	44283429	44283629	+	972.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026164, exon 2 of 10)	exon (NM_026164, exon 2 of 10)	14375.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	12.5	20.0	18.5	235.5	10.5	9.5	8.5	7.0
Merged-chr11-117338687-3	chr11	117338570	117338770	+	956.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113488, intron 1 of 9)	intron (NM_001113488, intron 1 of 9)	6357.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	9.0	18.0	28.0	265.0	13.0	7.0	8.0	8.5
Merged-chr10-70040474-4	chr10	70040367	70040567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56654.0	NM_001111121	76551.0	Mm.281741	NM_001111121	ENSMUSG00000048701	Ccdc6	2810012H18Rik|AA536681|AA960498|AW061011	coiled-coil domain containing 6	protein-coding	24.5	22.5	19.0	528.0	96.5	25.0	37.0	43.0
Merged-chr19-41384632-3	chr19	41384564	41384764	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 1 of 16)	intron (NM_031376, intron 1 of 16)	406.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	13.5	38.5	18.0	160.5	41.0	19.5	15.0	23.0
Merged-chr8-81767553-1	chr8	81767453	81767653	+	918.0	f0_c57.idr	intron (NM_001297593, intron 4 of 23)	intron (NM_001297593, intron 4 of 23)	424991.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	13.0	14.0	11.0	116.0	39.0	13.0	24.5	13.5
Merged-chr7-45080104-4	chr7	45080130	45080330	+	897.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11983.0	NM_026555	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	4.5	6.0	7.5	47.0	7.5	3.5	2.5	10.0
Merged-chr2-35449875-4	chr2	35449766	35449966	+	852.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	11583.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	9.0	11.0	19.5	315.0	13.0	3.0	10.0	10.5
Merged-chr15-59375062-4	chr15	59374993	59375193	+	694.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153548)	promoter-TSS (NM_153548)	895.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	9.0	6.5	13.0	68.5	5.0	5.5	5.5	16.5
Merged-chr6-97450916-4	chr6	97450718	97450918	+	932.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	L1_Mus1|LINE|L1	8468.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	4.5	8.0	5.0	72.5	12.5	10.0	2.5	4.0
Merged-chr10-127674946-4	chr10	127674782	127674982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2183.0	NM_173732	210035.0	Mm.251075	NM_173732	ENSMUSG00000040195	Nemp1	Tmem194|Tmem194a	nuclear envelope integral membrane protein 1	protein-coding	24.5	64.0	42.0	813.5	84.5	45.0	39.5	54.5
Merged-chr7-81290726-4	chr7	81290609	81290809	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 3 of 21)	MER105|DNA|DNA	54525.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	20.5	21.5	13.0	391.0	25.0	8.0	12.5	15.0
Merged-chr13-101847374-1	chr13	101847274	101847474	+	578.666687	f0_balb.idr	Intergenic	Intergenic	-79157.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	8.5	10.0	7.0	84.0	3.0	2.0	1.0	1.5
Merged-chr12-32435403-2	chr12	32435331	32435531	+	771.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	56642.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	5.0	5.0	5.5	62.5	10.0	7.0	5.0	4.5
Merged-chr14-67007666-4	chr14	67007582	67007782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009761, intron 1 of 5)	intron (NM_009761, intron 1 of 5)	1195.0	NM_009761	12177.0	Mm.29820	NM_009761	ENSMUSG00000022051	Bnip3l	C86132|D14Ertd719e|Nip3L|Nix	BCL2/adenovirus E1B interacting protein 3-like	protein-coding	52.5	72.5	67.0	841.0	110.5	32.0	52.5	50.0
Merged-chr16-38400092-3	chr16	38400005	38400205	+	997.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134102, intron 9 of 10)	intron (NM_134102, intron 9 of 10)	33040.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	19.5	21.0	17.0	292.0	10.0	0.5	6.0	4.0
Merged-chr11-115182553-4	chr11	115182517	115182717	+	887.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025400)	TTS (NM_025400)	4699.0	NM_025400	66176.0	Mm.86823	NM_025400	ENSMUSG00000015542	Nat9	1110028N05Rik	N-acetyltransferase 9 (GCN5-related, putative)	protein-coding	4.0	12.5	6.5	53.5	35.0	14.5	15.0	8.5
Merged-chr8-19784655-4	chr8	19784594	19784794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270553, intron 6 of 9)	CpG	55118.0	NM_001039553	626415.0	Mm.425517	NM_001039553	ENSMUSG00000096265	4930467E23Rik	TSAP	RIKEN cDNA 4930467E23 gene	protein-coding	414.0	534.0	270.5	3071.5	555.5	242.0	262.0	255.5
Merged-chr11-70166566-4	chr11	70166464	70166664	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010796)	promoter-TSS (NM_010796)	-59.0	NM_001204252	17312.0	Mm.252405	NM_010796	ENSMUSG00000000318	Clec10a	CD301a|M-ASGP-BP-1|Mgl|Mgl1	C-type lectin domain family 10, member A	protein-coding	28.0	30.0	21.5	530.5	48.5	9.5	25.5	26.0
Merged-chr14-19950952-4	chr14	19950836	19951036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285909, intron 3 of 5)	ORR1C1|LTR|ERVL-MaLR	25757.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	91.0	89.0	65.0	1473.5	149.0	52.0	65.0	70.0
Merged-chr1-45858232-4	chr1	45858113	45858313	+	964.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63047.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	52.0	96.0	52.0	775.0	81.5	27.5	25.5	14.5
Merged-chr3-123332538-1	chr3	123332438	123332638	+	716.5	f0_balb.idr	intron (NM_027135, intron 10 of 22)	intron (NM_027135, intron 10 of 22)	53452.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	4.5	9.0	13.5	102.5	9.0	3.5	7.5	6.0
Merged-chr11-83067770-1	chr11	83067670	83067870	+	842.6666869999999	f0_balb.idr	intron (NM_011408, intron 1 of 1)	MTC|LTR|ERVL-MaLR	2658.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	19.5	16.0	4.0	152.0	29.0	14.5	6.5	7.5
Merged-chr14-47506825-4	chr14	47506730	47506930	+	924.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 2 of 5)	intron (NR_027414, intron 2 of 5)	34269.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	14.0	11.5	10.5	136.0	76.0	24.0	22.0	19.0
Merged-chr10-44679748-4	chr10	44679656	44679856	+	975.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-221008.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	34.0	106.5	17.0	156.5	94.5	30.5	22.0	16.0
Merged-chr1-180263650-4	chr1	180263558	180263758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEb|LINE|L1	-7358.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	132.0	214.5	112.5	1714.5	271.0	124.5	111.0	116.5
Merged-chr7-16314083-4	chr7	16313996	16314196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 3 of 3)	intron (NM_133234, intron 3 of 3)	4513.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	98.0	179.5	67.5	1365.5	317.5	101.5	121.5	119.0
Merged-chr13-69535407-1	chr13	69535307	69535507	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-1543.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	15.5	20.0	15.5	293.0	21.0	4.0	5.5	17.5
Merged-chr7-45488837-4	chr7	45488725	45488925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027903)	promoter-TSS (NM_027903)	-20.0	NM_027903	71755.0	Mm.34208	NM_027903	ENSMUSG00000011382	Dhdh	1300018L09Rik|AA591799|B830008H07Rik|Xld-1|Xld1	dihydrodiol dehydrogenase (dimeric)	protein-coding	59.5	86.5	55.5	771.0	141.0	45.0	65.0	69.5
Merged-chr8-105565523-4	chr8	105565409	105565609	+	982.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013477, intron 1 of 7)	intron (NM_013477, intron 1 of 7)	555.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	14.5	17.0	15.5	151.5	38.0	17.5	19.5	35.0
Merged-chr1-37586314-4	chr1	37586235	37586435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45319.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	139.0	135.5	105.0	1427.0	259.5	102.5	76.5	92.5
Merged-chr2-14494358-4	chr2	14494225	14494425	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012305, intron 12 of 12)	intron (NM_001012305, intron 12 of 12)	105927.0	NM_001012305	277468.0	Mm.44662	NM_001012305	ENSMUSG00000036949	Slc39a12	AW046938|Gm731	solute carrier family 39 (zinc transporter), member 12	protein-coding	27.0	18.5	27.5	479.5	23.0	7.5	21.5	11.0
Merged-chr14-61548769-4	chr14	61548668	61548868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310603, intron 2 of 3)	ORR1F|LTR|ERVL-MaLR	8118.0	NM_025697	66674.0	Mm.282706	NM_025697	ENSMUSG00000021930	Spryd7	6330409N04Rik|Clld6	SPRY domain containing 7	protein-coding	39.5	204.5	80.5	904.5	167.0	58.5	63.0	92.0
Merged-chr7-47054830-4	chr7	47054719	47054919	+	849.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026436)	TTS (NM_026436)	4179.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	5.5	9.0	12.5	201.5	23.0	0.5	4.5	8.5
Merged-chr18-56925618-4	chr18	56925533	56925733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177115)	promoter-TSS (NM_177115)	-85.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	345.0	507.5	339.0	6417.5	880.0	346.0	478.5	358.0
Merged-chr13-112799979-4	chr13	112799908	112800108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008247)	promoter-TSS (NM_008247)	-769.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	51.5	112.5	36.5	1058.0	246.5	83.0	60.5	67.0
Merged-chr11-88048379-4	chr11	88048275	88048475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001078167, intron 1 of 2)	CpG	1002.0	NM_173374	110809.0	Mm.391719	NM_173374	ENSMUSG00000018379	Srsf1	1110054N12Rik|5730507C05Rik|6330415C05Rik|AI482334|AW491331|Asf|Sf2|Sfrs1	serine/arginine-rich splicing factor 1	protein-coding	24.5	36.5	29.5	345.0	110.5	31.5	41.0	40.5
Merged-chr19-11559811-4	chr19	11559684	11559884	+	971.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22935.0	NM_025658	66607.0	Mm.441056	NM_025658	ENSMUSG00000024678	Ms4a4d	2210417J23Rik	membrane-spanning 4-domains, subfamily A, member 4D	protein-coding	33.0	30.0	18.5	50.5	57.0	25.5	20.5	18.0
Merged-chr8-10706186-4	chr8	10706096	10706296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	176258.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	43.0	49.0	42.5	920.5	45.5	8.0	18.0	29.5
Merged-chr13-113592930-4	chr13	113592829	113593029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_130796, exon 2 of 2)	3' UTR (NM_130796, exon 2 of 2)	25635.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	30.5	26.5	33.5	547.0	53.0	19.5	26.5	18.5
Merged-chr18-82913233-4	chr18	82913091	82913291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183033, intron 1 of 5)	intron (NM_183033, intron 1 of 5)	-1441.0	NM_001177464	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	77.5	102.0	56.0	952.0	200.5	97.0	108.5	99.0
Merged-chr13-9424693-4	chr13	9424596	9424796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	MTA_Mm|LTR|ERVL-MaLR	148171.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	33.5	34.5	43.0	299.5	84.0	44.5	32.5	42.0
Merged-chr11-70849414-4	chr11	70849364	70849564	+	942.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291143, intron 2 of 18)	B2_Mm1a|SINE|B2	4703.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	20.5	28.5	19.5	99.0	32.0	13.5	14.5	12.0
Merged-chr6-114893547-2	chr6	114893447	114893647	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	28274.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	29.0	22.5	9.0	134.0	23.5	11.0	10.0	10.0
Merged-chr7-45459458-4	chr7	45459358	45459558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010240, intron 1 of 3)	intron (NM_010240, intron 1 of 3)	428.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	67.5	180.0	64.0	1119.0	346.0	158.0	141.5	164.0
Merged-chr5-64769473-4	chr5	64769372	64769572	+	909.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34051.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	11.0	12.5	8.0	291.5	46.0	14.0	11.0	5.5
Merged-chr2-16184138-2	chr2	16184038	16184238	+	902.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 35 of 38)	MTD|LTR|ERVL-MaLR	-172166.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	8.0	6.0	5.5	53.0	7.0	4.0	5.0	4.0
Merged-chr10-8881299-6	chr10	8881166	8881366	+	935.5277710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	4804.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	14.0	24.0	18.5	108.0	17.0	10.5	4.5	19.5
Merged-chr9-62998806-4	chr9	62998708	62998908	+	857.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-17929.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	14.5	12.0	5.0	96.5	33.5	3.0	12.5	11.5
Merged-chr4-132806996-4	chr4	132806900	132807100	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-10636.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	5.5	9.5	8.5	195.0	53.0	7.5	10.5	27.5
Merged-chr6-40436083-4	chr6	40436027	40436227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356375)	promoter-TSS (NM_001356375)	8.0	NM_001356375	243780.0	Mm.333006	NM_175528	ENSMUSG00000037172	E330009J07Rik	AI841796|Lchn|mKIAA1147	RIKEN cDNA E330009J07 gene	protein-coding	31.0	65.5	42.0	630.0	67.0	26.5	45.0	42.5
Merged-chr11-52097202-4	chr11	52097101	52097301	+	951.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1623.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	28.0	35.0	16.5	337.5	39.5	10.0	17.0	8.0
Merged-chr6-114358414-3	chr6	114358304	114358504	+	981.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-39532.0	NM_001317125	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	13.0	20.5	16.0	239.5	33.5	9.0	9.5	11.5
Merged-chr12-110889196-4	chr12	110889104	110889304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027223)	promoter-TSS (NM_027223)	-59.0	NM_026048	67236.0	Mm.287157	NM_026048	ENSMUSG00000021276	Cinp	1810047K05Rik|2810452K22Rik	cyclin-dependent kinase 2 interacting protein	protein-coding	131.5	207.5	81.0	1549.0	311.5	125.0	139.5	113.5
Merged-chr11-120236573-3	chr11	120236479	120236679	+	854.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198423, intron 1 of 27)	CpG	3632.0	NM_198423	268515.0	Mm.309498	NM_198423	ENSMUSG00000039741	Bahcc1	B930044J06|BC060615	BAH domain and coiled-coil containing 1	protein-coding	6.5	9.0	9.5	74.0	15.5	10.0	6.5	7.5
Merged-chr10-59981035-4	chr10	59980924	59981124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21781.0	NM_026937	69090.0	Mm.155839	NM_026937	ENSMUSG00000044475	Ascc1	1810015P09Rik|AI550520|ASC1p50|CGI-18	activating signal cointegrator 1 complex subunit 1	protein-coding	68.5	68.0	94.0	2002.5	98.0	48.0	44.5	76.5
Merged-chr10-121466646-4	chr10	121466558	121466758	+	865.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	9592.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	18.5	25.0	13.5	143.0	41.0	19.5	17.5	19.0
Merged-chr5-29972964-4	chr5	29972870	29973070	+	944.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40144.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	19.0	38.0	19.0	143.5	48.0	11.0	21.5	23.0
Merged-chr9-70841985-4	chr9	70841884	70842084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	92824.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	22.5	34.5	21.0	236.5	52.5	15.0	24.5	31.5
Merged-chr14-60771258-4	chr14	60771151	60771351	+	853.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183175, intron 1 of 3)	L1MB2|LINE|L1	3117.0	NM_183175	239126.0	Mm.319636	NM_183175	ENSMUSG00000071347	C1qtnf9	9130217G22Rik|CTRP9|Ciqtnf9	C1q and tumor necrosis factor related protein 9	protein-coding	20.0	18.5	14.5	165.0	22.5	16.5	14.5	6.5
Merged-chr2-13271442-4	chr2	13271345	13271545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009105)	promoter-TSS (NM_009105)	-30.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	325.5	444.0	337.0	4749.0	842.0	353.5	459.5	311.0
Merged-chr1-60070877-4	chr1	60070786	60070986	+	991.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27021.0	NM_021312	57750.0	Mm.281079	NM_021312	ENSMUSG00000026019	Wdr12	4933402C23Rik|Ytm1|Ytm1p	WD repeat domain 12	protein-coding	29.5	34.5	17.0	124.5	70.5	21.5	24.5	25.0
Merged-chr9-96719884-4	chr9	96719776	96719976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359960)	promoter-TSS (NM_001359960)	-26.0	NM_001359959	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	41.0	59.5	54.0	610.0	117.5	45.5	65.5	55.0
Merged-chr3-154318016-3	chr3	154317920	154318120	+	760.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010713, intron 6 of 8)	intron (NM_010713, intron 6 of 8)	12540.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	9.0	6.5	5.0	94.5	10.5	4.5	7.5	5.0
Merged-chr1-24471421-4	chr1	24471335	24471535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 11 of 50)	intron (NM_007733, intron 11 of 50)	116002.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	85.0	145.0	155.5	909.5	207.5	77.0	77.0	48.5
Merged-chr5-114934711-3	chr5	114934603	114934803	+	576.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359946, intron 3 of 4)	MTB_Mm|LTR|ERVL-MaLR	-7499.0	NM_028211	72357.0	Mm.292672	NM_028211	ENSMUSG00000029559	2210016L21Rik	-	RIKEN cDNA 2210016L21 gene	protein-coding	1.0	9.0	2.5	19.0	21.0	11.0	5.5	12.0
Merged-chr7-126566439-4	chr7	126566290	126566490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146200)	promoter-TSS (NM_146200)	-24.0	NM_146200	56347.0	Mm.22776	NM_146200	ENSMUSG00000030738	Eif3c	110kDa|3230401O13Rik|Eif3s8|NIPIL(A3)|NipilA3|Xs|Xsl	eukaryotic translation initiation factor 3, subunit C	protein-coding	33.0	46.0	30.5	310.0	76.5	29.0	28.5	32.0
Merged-chr2-117092063-4	chr2	117091959	117092159	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29012.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	7.5	7.0	12.0	158.5	29.5	8.0	11.5	6.0
Merged-chr12-103065190-4	chr12	103065075	103065275	+	778.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081017, intron 14 of 48)	intron (NM_001081017, intron 14 of 48)	116316.0	NM_001081017	217843.0	Mm.387073	NM_177621	ENSMUSG00000021198	Unc79	9030205A07Rik|Mlca3	unc-79 homolog (C. elegans)	protein-coding	16.0	12.5	8.0	299.5	26.5	8.0	7.5	9.5
Merged-chr13-89339995-4	chr13	89339890	89340090	+	942.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200646.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	13.5	12.5	21.5	309.0	112.0	23.0	76.0	72.0
Merged-chr4-99936932-3	chr4	99936819	99937019	+	634.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028132, intron 1 of 10)	intron (NM_028132, intron 1 of 10)	7468.0	NM_028132	72157.0	Mm.217764	NM_028132	ENSMUSG00000025791	Pgm2	2610020G18Rik|AA407108|AI098105|Pgm-2|Pgm1	phosphoglucomutase 2	protein-coding	8.5	6.0	5.0	109.0	18.0	4.5	7.5	11.5
Merged-chr4-137358408-3	chr4	137358325	137358525	+	858.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243769)	promoter-TSS (NM_001243769)	-666.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	11.5	9.5	10.0	106.5	15.0	8.0	3.5	13.0
Merged-chr7-7188090-7	chr7	7187935	7188135	+	808.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16682.0	NM_146179	232854.0	Mm.184857	NM_146179	ENSMUSG00000034538	Zfp418	A230102I05Rik	zinc finger protein 418	protein-coding	6.0	8.5	17.5	114.0	1.5	8.0	0.5	5.0
Merged-chr4-148074751-3	chr4	148074654	148074854	+	720.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	13310.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	14.5	22.0	11.0	135.0	12.0	7.5	7.0	16.0
Merged-chr8-83596597-3	chr8	83596499	83596699	+	731.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER12|LTR|ERVK	-2108.0	NM_134118	106529.0	Mm.352239	NM_027179	ENSMUSG00000031708	Tecr	2410016D23Rik|A230102P12Rik|AI173355|D17Ertd178e|Gpsn2|SC2	trans-2,3-enoyl-CoA reductase	protein-coding	10.0	12.0	5.0	87.5	14.0	7.0	3.0	4.5
Merged-chr1-157101302-4	chr1	157101199	157101399	+	974.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305061, intron 5 of 8)	intron (NM_001305061, intron 5 of 8)	7351.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	8.5	15.5	12.0	243.0	75.5	24.5	59.5	34.5
Merged-chr13-94285406-4	chr13	94285281	94285481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029153)	promoter-TSS (NM_029153)	-100.0	NM_029153	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	52.5	54.5	47.5	701.5	127.5	38.5	55.0	47.0
Merged-chr1-36557778-13	chr1	36557648	36557848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304330)	promoter-TSS (NM_001304330)	-191.0	NM_001304329	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	14.0	36.5	49.0	271.5	50.5	16.5	25.0	21.5
Merged-chr2-152187298-4	chr2	152187201	152187401	+	859.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-39539.0	NM_007788	12995.0	Mm.23692	NM_007788	ENSMUSG00000074698	Csnk2a1	CK2|Csnk2a1-rs4	casein kinase 2, alpha 1 polypeptide	protein-coding	9.5	19.5	8.0	202.5	25.0	5.0	11.5	12.0
Merged-chr16-25042150-4	chr16	25042060	25042260	+	896.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17479.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	15.0	16.5	21.5	172.0	34.0	16.5	9.5	6.0
Merged-chr7-118488334-4	chr7	118488263	118488463	+	966.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033380, exon 1 of 1)	3' UTR (NM_001033380, exon 1 of 1)	3612.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	11.5	17.5	5.5	182.0	62.0	17.5	36.5	31.0
Merged-chr5-22549428-4	chr5	22549340	22549540	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102315)	promoter-TSS (NR_102315)	891.0	NM_011959	26429.0	Mm.412217	NM_011959	ENSMUSG00000029012	Orc5	AL033327|MmORC5|Orc5l	origin recognition complex, subunit 5	protein-coding	10.0	10.5	9.5	387.5	13.0	11.5	17.5	21.0
Merged-chr13-113500781-4	chr13	113500681	113500881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	ORR1F|LTR|ERVL-MaLR	2063.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	44.5	84.0	65.0	1089.0	133.5	22.5	48.5	36.5
Merged-chr9-95575109-4	chr9	95575013	95575213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15296.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	17.0	47.5	42.0	590.0	66.0	15.0	21.0	21.5
Merged-chr8-120364550-4	chr8	120364451	120364651	+	910.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124315.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	7.5	30.0	13.5	264.0	32.5	22.5	14.0	12.5
Merged-chr15-100614627-4	chr15	100614513	100614713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045701, exon 2 of 2)	non-coding (NR_045701, exon 2 of 2)	497.0	NR_045701	78445.0	Mm.44383	NR_045701	ENSMUSG00000097093	C330013E15Rik	-	RIKEN cDNA C330013E15 gene	ncRNA	27.0	26.5	31.0	650.0	68.0	22.0	25.0	39.0
Merged-chr1-169370908-3	chr1	169370817	169371017	+	930.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	160547.0	NM_023284	66977.0	Mm.151315	NM_023284	ENSMUSG00000026683	Nuf2	2410003C07Rik|AU044112|C85691|Cdca1|NUF2R	NUF2, NDC80 kinetochore complex component	protein-coding	12.0	5.0	15.5	132.5	7.0	4.5	2.0	4.5
Merged-chr11-116130619-4	chr11	116130515	116130715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178802, exon 1 of 6)	exon (NM_178802, exon 1 of 6)	513.0	NM_178802	338364.0	Mm.439976	NM_178802	ENSMUSG00000054517	Trim65	4732463G12Rik	tripartite motif-containing 65	protein-coding	64.0	73.5	26.0	566.0	107.0	51.5	49.0	40.0
Merged-chr6-42340333-4	chr6	42340264	42340464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-9464.0	NM_001289619	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	39.5	63.5	52.5	1016.0	122.0	37.0	36.5	52.5
Merged-chr5-28071209-4	chr5	28071115	28071315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153526)	promoter-TSS (NM_153526)	-197.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	361.0	517.0	374.5	4552.5	846.5	329.5	397.0	306.0
Merged-chr2-157201644-4	chr2	157201556	157201756	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011249, intron 1 of 21)	intron (NM_011249, intron 1 of 21)	2878.0	NM_011249	19650.0	Mm.244671	NM_011249	ENSMUSG00000027641	Rbl1	AW547426|PRB1|p107	RB transcriptional corepressor like 1	protein-coding	19.0	20.0	18.5	216.0	39.0	18.5	22.5	21.5
Merged-chr11-57980495-4	chr11	57980409	57980609	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28555.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	5.0	12.5	11.0	89.0	42.5	4.5	19.0	25.0
Merged-chr10-40097637-4	chr10	40097538	40097738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	MTC-int|LTR|ERVL-MaLR	44616.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	93.0	74.0	51.0	1201.5	101.0	35.5	65.0	42.0
Merged-chr14-21890642-4	chr14	21890541	21890741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-41731.0	NM_026965	69156.0	Mm.11827	NM_026965	ENSMUSG00000021773	Comtd1	1810030M08Rik|MT773	catechol-O-methyltransferase domain containing 1	protein-coding	150.5	251.5	127.0	1998.0	307.5	122.5	107.5	100.0
Merged-chr19-34751264-3	chr19	34751166	34751366	+	917.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4155.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	12.5	12.0	12.0	186.0	11.0	3.0	10.0	2.0
Merged-chr10-78009839-4	chr10	78009750	78009950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008826)	promoter-TSS (NM_008826)	-43.0	NM_001358793	18641.0	Mm.269649	NM_008826	ENSMUSG00000020277	Pfkl	AA407869|ATP-PFK|PFK-B|PFK-L	phosphofructokinase, liver, B-type	protein-coding	95.5	158.5	80.0	1382.0	243.5	82.0	128.0	77.0
Merged-chr10-68127343-4	chr10	68127241	68127441	+	869.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 6 of 9)	intron (NM_023598, intron 6 of 9)	147771.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	23.5	17.5	18.5	356.0	20.5	8.5	6.5	16.5
Merged-chr12-102579271-3	chr12	102579172	102579372	+	786.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172584, intron 7 of 9)	intron (NM_172584, intron 7 of 9)	24331.0	NM_007693	12652.0	Mm.4137	NM_007693	ENSMUSG00000021194	Chga	ChrA|cgA	chromogranin A	protein-coding	6.5	6.0	7.0	69.5	13.0	2.5	1.5	8.0
Merged-chr9-90235516-4	chr9	90235424	90235624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	35245.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	266.5	389.0	278.0	3895.5	554.5	185.0	291.5	274.5
Merged-chr19-10795190-4	chr19	10795098	10795298	+	871.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009852, intron 6 of 12)	intron (NM_009852, intron 6 of 12)	34860.0	NM_001037801	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	19.5	21.5	19.0	159.0	21.5	6.0	15.0	3.5
Merged-chr8-126666655-4	chr8	126666507	126666707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73171.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	56.5	72.5	60.5	935.0	104.0	50.0	62.5	60.5
Merged-chr16-17561324-3	chr16	17561235	17561435	+	963.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011028)	promoter-TSS (NM_011028)	-88.0	NM_001145435	74685.0	Mm.38634	NM_029053	ENSMUSG00000022759	Lrrc74b	4930451C15Rik|mCG12354|mCP17390	leucine rich repeat containing 74B	protein-coding	25.5	41.0	27.0	350.0	14.0	3.5	1.0	4.5
Merged-chr11-89035732-4	chr11	89035620	89035820	+	944.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25028.0	NM_019505	56077.0	Mm.153695	NM_019505	ENSMUSG00000000276	Dgke	C87606|DAGK6|DGK	diacylglycerol kinase, epsilon	protein-coding	13.0	8.5	11.0	210.0	114.0	48.5	61.0	74.0
Merged-chr2-35346215-4	chr2	35346125	35346325	+	891.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9216.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	8.0	13.5	10.5	173.5	41.5	2.0	12.5	16.5
Merged-chr1-180261625-2	chr1	180261525	180261725	+	622.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5325.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	0.5	3.5	1.5	38.5	12.0	9.5	5.5	5.0
Merged-chr12-104749782-2	chr12	104749636	104749836	+	681.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_148948, intron 1 of 26)	intron (NM_148948, intron 1 of 26)	2216.0	NM_148948	192119.0	Mm.21135	NM_148948	ENSMUSG00000041415	Dicer1	1110006F08Rik|D12Ertd7e|mKIAA0928	dicer 1, ribonuclease type III	protein-coding	6.0	5.0	5.5	48.0	9.5	1.0	3.0	4.5
Merged-chr2-30407396-4	chr2	30407293	30407493	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007760, intron 6 of 13)	intron (NM_007760, intron 6 of 13)	8355.0	NM_007760	12908.0	Mm.20396	NM_007760	ENSMUSG00000026853	Crat	AW107812|CARAT	carnitine acetyltransferase	protein-coding	22.0	41.5	23.5	377.5	69.0	16.5	29.5	40.0
Merged-chr12-17348344-4	chr12	17348248	17348448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008421)	promoter-TSS (NM_001008421)	-145.0	NM_001008421	217431.0	Mm.27536	NM_001008421	ENSMUSG00000061458	Nol10	Gm67	nucleolar protein 10	protein-coding	91.0	119.0	99.0	1362.0	263.0	80.0	102.0	89.0
Merged-chr16-33951094-4	chr16	33951010	33951210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15928.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	60.5	105.0	68.0	1164.5	148.0	89.0	52.5	69.5
Merged-chr11-62458457-4	chr11	62458335	62458535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039536)	promoter-TSS (NM_001039536)	-25.0	NM_001039536	327942.0	Mm.390358	NM_199026	ENSMUSG00000014245	Pigl	Gm737	phosphatidylinositol glycan anchor biosynthesis, class L	protein-coding	34.0	61.5	43.5	376.0	105.5	29.0	38.0	45.5
Merged-chr1-80326186-4	chr1	80326083	80326283	+	716.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016716, intron 1 of 15)	MIR|SINE|MIR	14507.0	NM_001313728	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	11.0	10.0	7.5	161.5	29.5	10.0	14.5	3.0
Merged-chr10-77903092-4	chr10	77903076	77903276	+	744.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145152)	promoter-TSS (NM_145152)	-640.0	NM_145152	237387.0	Mm.133301	NM_145152	ENSMUSG00000051652	Lrrc3	1300011L04Rik|C21orf102	leucine rich repeat containing 3	protein-coding	4.5	5.0	12.0	97.5	18.0	7.5	5.0	8.0
Merged-chr14-55660363-4	chr14	55660264	55660464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028316, exon 1 of 5)	non-coding (NR_028316, exon 1 of 5)	144.0	NM_023397	67881.0	Mm.24601	NM_023397	ENSMUSG00000002329	Mdp1	1810034K20Rik|AI035604	magnesium-dependent phosphatase 1	protein-coding	77.5	110.5	68.0	762.5	118.5	42.5	45.5	37.0
Merged-chr2-49364046-4	chr2	49364007	49364207	+	931.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1-int|LTR|ERVL-MaLR	-87379.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	11.5	30.5	19.5	416.0	33.5	12.0	15.0	13.0
Merged-chr11-61469500-4	chr11	61469388	61469588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15496.0	NM_001291024	22671.0	Mm.89201	NM_009548	ENSMUSG00000010086	Rnf112	ZNF179|Zfp179|bfp|neurolastin	ring finger protein 112	protein-coding	138.5	185.0	116.0	1656.5	337.0	131.0	114.0	126.5
Merged-chr15-80030659-4	chr15	80030623	80030823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-15915.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	54.0	76.0	60.0	804.0	82.5	27.5	27.5	41.5
Merged-chr1-52726922-4	chr1	52726836	52727036	+	991.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357464, intron 1 of 7)	CpG	382.0	NM_178081	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	33.0	27.0	31.0	359.0	43.0	26.0	22.0	13.0
Merged-chr14-75754605-4	chr14	75754513	75754713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177381)	promoter-TSS (NM_177381)	-120.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	130.0	165.5	102.5	1785.5	322.5	153.0	156.5	137.0
Merged-chr17-74528358-4	chr17	74528241	74528441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007566)	promoter-TSS (NM_007566)	46.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	378.5	530.5	416.0	5765.5	912.0	386.5	493.5	385.5
Merged-chr5-144223155-1	chr5	144223055	144223255	+	1000.0	f1_c57bl6.idr	intron (NM_027410, intron 1 of 24)	intron (NM_027410, intron 1 of 24)	460.0	NM_001356992	70381.0	Mm.239412	NM_027410	ENSMUSG00000066621	Tecpr1	2210010N04Rik|mKIAA1358	tectonin beta-propeller repeat containing 1	protein-coding	5.0	6.5	4.5	22.5	3.5	3.0	6.0	5.0
Merged-chr11-106255969-6	chr11	106255875	106256075	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008950)	promoter-TSS (NM_008950)	109.0	NM_025310	56095.0	Mm.29795	NM_025310	ENSMUSG00000020706	Ftsj3	AA537063|AU045295|C79843|D11Ertd400e|Epcs3	FtsJ RNA methyltransferase homolog 3 (E. coli)	protein-coding	9.5	29.5	26.5	249.5	29.0	26.0	6.0	16.0
Merged-chr12-99084386-4	chr12	99084287	99084487	+	863.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78421.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	6.0	8.5	7.0	119.5	24.5	10.0	15.5	15.0
Merged-chr4-62662258-4	chr4	62662164	62662364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-11710.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	36.0	57.0	17.0	364.5	110.0	39.0	44.5	32.5
Merged-chr11-11694309-4	chr11	11694207	11694407	+	807.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301863, intron 1 of 7)	intron (NM_001301863, intron 1 of 7)	4130.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	7.5	18.0	11.5	227.5	26.0	2.5	13.0	11.5
Merged-chr15-98513848-4	chr15	98513753	98513953	+	777.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	5981.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	2.5	11.0	8.0	68.0	17.5	11.0	7.0	11.0
Merged-chr13-93301156-4	chr13	93301064	93301264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2593.0	NM_147176	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	45.0	60.0	28.5	619.0	46.5	19.5	30.0	31.5
Merged-chr17-87315423-4	chr17	87315343	87315543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 5 of 19)	intron (NM_028639, intron 5 of 19)	32557.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	48.0	47.5	16.5	558.5	81.0	25.0	29.5	26.0
Merged-chr11-114747975-4	chr11	114747894	114748094	+	950.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034878, intron 8 of 12)	intron (NM_001034878, intron 8 of 12)	-17395.0	NM_001102615	286942.0	Mm.308713	NM_001102615	ENSMUSG00000010021	Kif19a	Kif19	kinesin family member 19A	protein-coding	22.0	33.5	12.0	374.5	63.0	28.5	16.0	19.0
Merged-chr15-86362880-3	chr15	86362780	86362980	+	754.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358062, intron 6 of 9)	intron (NM_001358062, intron 6 of 9)	85205.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	5.0	15.0	5.0	134.0	6.0	7.0	1.5	7.0
Merged-chr8-123235684-4	chr8	123235595	123235795	+	804.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357300, exon 1 of 2)	exon (NM_001357300, exon 1 of 2)	563.0	NM_001357301	78779.0	Mm.41459	NM_030176	ENSMUSG00000033594	Spata2l	2610039E05Rik|AI648233	spermatogenesis associated 2-like	protein-coding	13.0	10.0	4.0	103.0	18.0	10.5	13.5	16.5
Merged-chr19-47919831-1	chr19	47919731	47919931	+	1000.0	f0_balb.idr	promoter-TSS (NM_001001738)	promoter-TSS (NM_001001738)	-532.0	NM_001001738	414801.0	Mm.29457	NM_001001738	ENSMUSG00000044948	Itprip	4833424O12Rik|DANGER	inositol 1,4,5-triphosphate receptor interacting protein	protein-coding	17.5	31.5	4.0	187.5	34.5	14.0	18.5	14.0
Merged-chr3-96239618-3	chr3	96239516	96239716	+	787.166626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178216)	promoter-TSS (NM_178216)	-474.0	NM_178216	15077.0	Mm.422680	NM_178216	ENSMUSG00000093769	Hist2h3c1	BE691662|H3-615|H3f2|Hist2h3ca1	histone cluster 2, H3c1	protein-coding	16.5	22.5	9.0	102.5	18.0	6.0	14.0	6.0
Merged-chr10-98878032-4	chr10	98877913	98878113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36629.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	77.0	106.5	40.0	765.5	144.0	61.5	57.0	54.5
Merged-chr11-101009468-4	chr11	101009388	101009588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243051)	promoter-TSS (NM_001243051)	36.0	NM_001243051	11975.0	Mm.340818	NM_016920	ENSMUSG00000019302	Atp6v0a1	AA959968|ATP6a1|Atp6n1|Atp6n1a|Atpv0a1|Vpp-1|Vpp1	ATPase, H+ transporting, lysosomal V0 subunit A1	protein-coding	90.0	179.5	55.0	1352.0	242.5	78.0	83.0	85.0
Merged-chr3-58122882-4	chr3	58122780	58122980	+	876.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40927.0	NR_040538	67850.0	Mm.416968	NR_040538	ENSMUSG00000100666	1700007F19Rik	-	RIKEN cDNA 1700007F19 gene	ncRNA	11.0	28.5	7.0	217.0	44.5	16.5	9.0	17.0
Merged-chr9-21152865-4	chr9	21152744	21152944	+	900.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2938.0	NM_016742	12539.0	Mm.32331	NM_016742	ENSMUSG00000019471	Cdc37	p50|p50Cdc37	cell division cycle 37	protein-coding	12.0	13.5	5.5	87.0	33.0	13.5	7.0	6.0
Merged-chr17-46347358-4	chr17	46347283	46347483	+	892.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY3-int|LTR|ERVK	-19360.0	NM_170680	224814.0	Mm.76543	NM_145140	ENSMUSG00000032842	Abcc10	Mrp7|mFLJ00002	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	protein-coding	12.5	17.5	15.0	149.0	28.5	9.0	11.5	11.0
Merged-chr19-34878061-4	chr19	34877966	34878166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023792)	promoter-TSS (NM_023792)	-149.0	NM_023792	75735.0	Mm.24742	NM_023792	ENSMUSG00000033610	Pank1	Pank|Pank1b	pantothenate kinase 1	protein-coding	96.5	169.0	105.0	1677.5	197.0	86.0	99.5	47.5
Merged-chr10-128493054-4	chr10	128492996	128493196	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317220)	promoter-TSS (NM_001317220)	-87.0	NM_001317219	17904.0	Mm.337074	NM_010860	ENSMUSG00000090841	Myl6	ESMLC|LC17|LC17-GI|MLC-3|MLC1SM|Myln	myosin, light polypeptide 6, alkali, smooth muscle and non-muscle	protein-coding	14.0	28.0	15.0	277.5	68.0	34.5	46.0	40.5
Merged-chr10-75170623-4	chr10	75170514	75170714	+	963.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081412, intron 16 of 22)	intron (NM_001081412, intron 16 of 22)	-41459.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	10.5	12.0	17.5	217.5	50.0	14.5	20.5	26.0
Merged-chr10-37236696-2	chr10	37236596	37236796	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97770.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	8.0	8.5	8.0	90.0	12.5	3.0	0.0	8.0
Merged-chr17-57305849-3	chr17	57305755	57305955	+	864.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 19 of 25)	ZP3AR|Satellite|Satellite	26755.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	8.0	19.0	6.0	37.5	28.0	7.5	21.5	2.5
Merged-chr11-49846131-4	chr11	49846017	49846217	+	884.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163672)	promoter-TSS (NM_001163672)	-634.0	NM_001163671	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	14.5	9.5	9.0	97.5	35.0	21.5	15.5	19.5
Merged-chr1-147010850-4	chr1	147010744	147010944	+	927.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	513157.0	NM_001145807	215378.0	Mm.441817	NM_153539	ENSMUSG00000035131	Brinp3	B830045N13Rik|Fam5c	bone morphogenetic protein/retinoic acid inducible neural specific 3	protein-coding	15.0	65.0	28.5	127.0	75.5	19.0	37.0	13.0
Merged-chr14-57407902-1	chr14	57407802	57408002	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-9419.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	13.5	20.5	9.5	300.5	45.5	14.0	15.5	18.0
Merged-chr9-123941553-4	chr9	123941463	123941663	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27129.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	29.5	36.5	37.5	784.5	52.5	15.0	18.5	34.5
Merged-chr14-65069468-2	chr14	65069368	65069568	+	734.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360385, intron 2 of 5)	intron (NM_001360385, intron 2 of 5)	28638.0	NM_018788	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	11.5	7.0	4.0	56.5	14.5	6.5	8.0	6.5
Merged-chr1-120430318-3	chr1	120430219	120430419	+	900.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	74705.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	0.0	1.0	1.0	24.5	51.0	16.5	26.5	19.5
Merged-chr10-95510181-4	chr10	95510086	95510286	+	807.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-4976.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	13.0	32.0	9.0	156.5	38.0	11.5	16.0	16.5
Merged-chr10-80165151-4	chr10	80165004	80165204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-2735.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	53.5	97.0	51.5	930.0	151.5	57.0	54.0	68.5
Merged-chr3-144720303-4	chr3	144720236	144720436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282042)	promoter-TSS (NM_001282042)	-1.0	NM_001282037	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	139.0	294.0	204.5	3341.0	555.0	206.5	336.0	244.5
Merged-chr2-136485939-3	chr2	136485845	136486045	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46376.0	NM_175667	319196.0	Mm.477841	NM_175667	ENSMUSG00000074771	Ankef1	AV276460|Ankrd5	ankyrin repeat and EF-hand domain containing 1	protein-coding	40.5	49.0	33.0	867.5	23.0	12.5	19.0	10.5
Merged-chr10-127177937-4	chr10	127177861	127178061	+	982.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177615, exon 5 of 17)	exon (NM_177615, exon 5 of 17)	2684.0	NM_177615	216441.0	Mm.248373	NM_177615	ENSMUSG00000040441	Slc26a10	C78409|D630010I07	solute carrier family 26, member 10	protein-coding	26.5	34.0	15.5	258.5	40.5	29.5	18.0	11.5
Merged-chr11-69059630-4	chr11	69059522	69059722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028005)	promoter-TSS (NM_028005)	-153.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	169.5	278.5	118.0	1533.0	410.5	198.5	163.5	148.5
Merged-chr6-38949217-4	chr6	38949124	38949324	+	961.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 2 of 12)	intron (NM_011539, intron 2 of 12)	30238.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	14.0	39.5	13.5	323.5	51.5	29.0	14.5	19.0
Merged-chr13-52628740-4	chr13	52628649	52628849	+	935.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 7 of 13)	intron (NM_011518, intron 7 of 13)	31867.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	14.0	19.0	11.0	228.5	75.5	12.0	21.0	17.5
Merged-chr1-185196512-4	chr1	185196436	185196636	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7632.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	28.0	32.0	17.0	389.0	21.0	16.0	14.5	17.5
Merged-chr5-52741590-4	chr5	52741483	52741683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025951)	promoter-TSS (NM_025951)	9.0	NM_025951	67073.0	Mm.248647	NM_025951	ENSMUSG00000029186	Pi4k2b	2610042N09Rik|4933409G22Rik	phosphatidylinositol 4-kinase type 2 beta	protein-coding	31.0	64.5	29.5	593.5	85.0	36.5	36.0	43.0
Merged-chr14-21268433-4	chr14	21268309	21268509	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 6 of 10)	RMER19B|LTR|ERVK	192257.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	20.0	27.0	29.0	578.0	48.5	7.0	10.0	25.0
Merged-chr6-142814797-4	chr6	142814695	142814895	+	650.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045707, intron 2 of 6)	intron (NR_045707, intron 2 of 6)	564.0	NR_045707	665037.0	Mm.401493	NR_045707	ENSMUSG00000072683	Gm7457	EG665037	predicted gene 7457	ncRNA	8.5	10.0	4.0	177.0	29.5	11.0	15.0	6.0
Merged-chr3-127918218-3	chr3	127918122	127918322	+	709.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040552, intron 1 of 4)	ORR1D2|LTR|ERVL-MaLR	2051.0	NR_040552	329753.0	Mm.119720	NR_040552	ENSMUSG00000104763	9830132P13Rik	9830132P13	RIKEN cDNA 9830132P13 gene	ncRNA	1.0	2.0	0.0	14.0	21.5	11.5	22.0	12.0
Merged-chr7-119794186-6	chr7	119794112	119794312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027698)	promoter-TSS (NM_027698)	25.0	NM_001004187	434234.0	Mm.38237	NM_028129	ENSMUSG00000030924	Rexo5	2610020H08Rik	RNA exonuclease 5	protein-coding	29.0	27.5	27.5	388.5	55.5	33.5	36.5	35.0
Merged-chr2-101881982-4	chr2	101881875	101882075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	1052.0	NM_001355625	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	105.0	143.0	100.0	1487.5	267.0	119.0	102.0	94.0
Merged-chr10-22142632-6	chr10	22142474	22142674	+	991.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254744, intron 1 of 1)	intron (NM_001254744, intron 1 of 1)	6696.0	NM_001254744	319887.0	Mm.177746	NM_001254744	ENSMUSG00000097327	E030030I06Rik	-	RIKEN cDNA E030030I06 gene	protein-coding	15.0	30.0	36.0	120.0	30.5	17.0	13.5	46.0
Merged-chr1-43535877-4	chr1	43535791	43535991	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 3 of 4)	L3|LINE|CR1	90140.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	42.0	24.0	49.5	578.0	72.0	13.5	29.0	35.0
Merged-chr12-80213467-4	chr12	80213373	80213573	+	908.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	MIR3|SINE|MIR	46898.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	13.5	17.5	14.0	236.0	46.0	11.5	16.5	14.5
Merged-chr11-106821201-4	chr11	106821094	106821294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025481, exon 19 of 19)	3' UTR (NM_025481, exon 19 of 19)	31942.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	35.0	33.5	18.5	302.5	75.0	19.5	21.5	26.0
Merged-chr5-146769757-3	chr5	146769613	146769813	+	594.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	25243.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	4.0	8.0	8.0	67.5	22.5	7.0	6.0	7.5
Merged-chr7-28179412-4	chr7	28179314	28179514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010092)	promoter-TSS (NM_010092)	-69.0	NM_001037957	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	120.0	200.0	97.5	1416.0	325.5	124.0	112.5	127.5
Merged-chr4-41314980-4	chr4	41314872	41315072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026893)	promoter-TSS (NM_026893)	-71.0	NM_026893	68970.0	Mm.28891	NM_026893	ENSMUSG00000028436	Dcaf12	1500001L20Rik|5830424K06Rik|AA420338|AI851081|Wdr40a	DDB1 and CUL4 associated factor 12	protein-coding	134.5	239.5	154.0	1943.0	339.0	147.5	156.5	108.0
Merged-chr17-46383593-4	chr17	46383490	46383690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207671)	promoter-TSS (NM_207671)	-176.0	NM_207671	57908.0	Mm.439916	NM_021346	ENSMUSG00000015597	Zfp318	2610034E08Rik|D530032D06Rik|TZF|Znf318	zinc finger protein 318	protein-coding	208.5	313.5	178.0	2648.0	462.5	199.0	226.5	178.0
Merged-chr1-165770428-4	chr1	165770326	165770526	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 3 of 4)	intron (NR_149310, intron 3 of 4)	6668.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	13.5	16.0	17.5	357.5	51.5	4.5	16.0	30.0
Merged-chr1-135746286-4	chr1	135746168	135746368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360782, intron 3 of 5)	intron (NM_001360782, intron 3 of 5)	17101.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	76.0	116.0	135.5	1539.0	329.0	111.5	181.0	153.0
Merged-chr9-70841193-4	chr9	70841086	70841286	+	949.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	93622.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	14.5	28.0	15.5	146.0	23.5	8.5	18.5	12.0
Merged-chr9-21320694-4	chr9	21320598	21320798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199186)	promoter-TSS (NM_001199186)	-21.0	NM_001359227	68682.0	Mm.148425	NM_152808	ENSMUSG00000057193	Slc44a2	1110028E10Rik|CTL2	solute carrier family 44, member 2	protein-coding	61.0	96.0	68.5	988.5	185.5	68.5	86.0	90.5
Merged-chr6-54794542-3	chr6	54794476	54794676	+	728.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-22340.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	4.5	10.0	8.0	105.0	0.0	2.5	0.0	0.0
Merged-chr1-172525325-4	chr1	172525227	172525427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027972, intron 1 of 11)	intron (NM_027972, intron 1 of 11)	4197.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	43.5	24.5	47.5	530.0	71.5	20.0	45.0	28.5
Merged-chr13-91452476-1	chr13	91452376	91452576	+	634.0	f0_balb.idr	Intergenic	Intergenic	-8621.0	NM_024272	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	7.0	6.5	9.5	95.5	3.0	3.5	3.0	3.0
Merged-chr2-3512181-4	chr2	3512080	3512280	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177647)	promoter-TSS (NM_177647)	634.0	NR_103465	50497.0	Mm.89341	NM_015765	ENSMUSG00000051396	Hspa14	70kDa|HSP70L1|Hsp70-4|NST-1|hsr.1	heat shock protein 14	protein-coding	30.5	101.0	24.0	177.5	115.0	42.0	43.5	24.0
Merged-chr2-101679380-4	chr2	101679316	101679516	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303273, intron 1 of 6)	intron (NM_001303273, intron 1 of 6)	996.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	20.0	42.5	13.0	155.5	59.5	20.0	24.5	9.0
Merged-chr10-80596285-4	chr10	80596170	80596370	+	764.770813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5929.0	NM_145421	216169.0	Mm.29802	NM_145421	ENSMUSG00000003346	Abhd17a	1700013O15Rik|BC005632|D10Bwg1364e|Fam108a	abhydrolase domain containing 17A	protein-coding	14.0	17.5	10.5	113.0	44.0	11.0	12.0	18.5
Merged-chr6-117906779-4	chr6	117906689	117906889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166431)	promoter-TSS (NM_001166431)	7.0	NM_133834	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	240.0	415.5	266.5	3304.0	670.0	255.5	349.0	254.0
Merged-chr6-125345767-4	chr6	125345663	125345863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011324)	TTS (NM_011324)	-3960.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	51.5	50.5	24.0	593.5	139.0	39.5	62.0	38.5
Merged-chr10-8771028-1	chr10	8770928	8771128	+	648.5	f0_balb.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	115042.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	12.0	13.5	8.5	83.0	25.5	5.0	1.0	4.5
Merged-chr1-74125401-4	chr1	74125297	74125497	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027884)	promoter-TSS (NM_027884)	-144.0	NM_001170641	435626.0	Mm.240447	NM_001034060	ENSMUSG00000061815	Rufy4	F930048N03Rik	RUN and FYVE domain containing 4	protein-coding	22.5	30.0	2.5	191.0	38.5	4.5	11.5	10.5
Merged-chr11-23217627-4	chr11	23217524	23217724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38417.0	NM_001035226	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	44.0	41.0	42.0	652.5	73.0	31.0	22.5	28.5
Merged-chr5-74470983-4	chr5	74470896	74471096	+	805.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 3 of 8)	L1M2|LINE|L1	60746.0	NM_178672	212986.0	Mm.134147	NM_178672	ENSMUSG00000062110	Scfd2	E430013M20Rik|STXBP1L1	Sec1 family domain containing 2	protein-coding	8.5	18.0	12.0	135.5	28.5	6.5	16.5	22.5
Merged-chr4-123928160-4	chr4	123928063	123928263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017475, intron 5 of 6)	intron (NM_017475, intron 5 of 6)	10730.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	120.5	215.0	131.5	2599.0	408.5	108.5	149.0	156.0
Merged-chr6-38940353-3	chr6	38940248	38940448	+	746.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	intron (NM_011539, intron 1 of 12)	21362.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	1.5	5.0	6.0	238.5	24.0	6.5	5.0	8.0
Merged-chr17-17870411-1	chr17	17870311	17870511	+	665.333313	f1_c57bl6.idr	Intergenic	ZP3AR|Satellite|Satellite	13528.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	2.0	1.0	1.5	8.5	5.0	8.0	9.0	11.0
Merged-chr4-136129547-4	chr4	136129446	136129646	+	924.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-14276.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	11.5	14.0	12.5	261.0	34.5	11.5	25.0	21.0
Merged-chr14-70057135-4	chr14	70057025	70057225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 6 of 6)	intron (NM_028560, intron 6 of 6)	-20320.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	243.5	387.5	326.0	3994.0	571.0	236.0	291.5	261.5
Merged-chr7-67308296-4	chr7	67308190	67308390	+	933.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 3 of 11)	intron (NM_001357324, intron 3 of 11)	64568.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	19.5	16.5	6.5	392.5	37.0	7.0	12.5	12.5
Merged-chr15-88514487-5	chr15	88514417	88514617	+	822.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85785.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	19.5	8.5	13.5	114.5	16.0	8.0	17.5	9.5
Merged-chr3-84654294-4	chr3	84654205	84654405	+	806.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11887.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	3.5	11.5	8.5	115.5	15.5	10.0	10.5	14.0
Merged-chr3-87351229-4	chr3	87351093	87351293	+	974.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6688.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	24.0	43.0	48.0	322.0	87.5	34.0	39.5	47.0
Merged-chr11-61794969-4	chr11	61794873	61795073	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013881, intron 20 of 26)	intron (NM_013881, intron 20 of 26)	-32885.0	NM_001164243	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	23.5	21.0	34.0	522.0	39.5	15.5	18.0	26.5
Merged-chr16-38753688-4	chr16	38753579	38753779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152434, intron 2 of 6)	intron (NR_152434, intron 2 of 6)	11420.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	39.5	48.0	54.0	682.5	108.0	31.0	61.5	42.5
Merged-chr8-25593662-4	chr8	25593566	25593766	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173012, intron 3 of 10)	intron (NM_173012, intron 3 of 10)	3821.0	NM_173012	270035.0	Mm.268349	NM_173012	ENSMUSG00000037363	Letm2	6030453H13|D030041N04Rik	leucine zipper-EF-hand containing transmembrane protein 2	protein-coding	21.5	26.5	21.5	472.0	50.5	12.5	27.0	27.0
Merged-chr10-99181717-4	chr10	99181620	99181820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	73585.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	165.0	279.5	256.0	3583.5	309.5	112.0	206.5	199.5
Merged-chr11-109298184-4	chr11	109298055	109298255	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011268)	promoter-TSS (NM_011268)	26.0	NM_001165934	19739.0	Mm.38548	NM_011268	ENSMUSG00000020599	Rgs9	RGS9-1|Rgs9-2	regulator of G-protein signaling 9	protein-coding	12.0	21.0	10.5	407.5	47.5	12.0	22.0	10.5
Merged-chr5-118556506-4	chr5	118556412	118556612	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4207.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	9.5	33.0	30.5	419.5	23.0	5.5	12.5	24.0
Merged-chr6-145824024-4	chr6	145823936	145824136	+	707.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15653.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	7.5	9.0	1.5	141.5	13.0	7.5	13.0	12.0
Merged-chr6-38951077-4	chr6	38950976	38951176	+	871.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 2 of 12)	intron (NM_011539, intron 2 of 12)	32090.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	4.5	40.5	15.5	233.0	29.5	11.0	8.0	6.5
Merged-chr1-173440933-1	chr1	173440833	173441033	+	662.0	f1_balb.idr	intron (NM_001013779, intron 2 of 8)	intron (NM_001013779, intron 2 of 8)	20329.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	2.0	7.5	0.5	31.0	7.5	6.0	4.5	5.0
Merged-chr2-168905004-2	chr2	168904904	168905104	+	561.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	50583.0	NM_009564	22722.0	Mm.2095	NM_009564	ENSMUSG00000027551	Zfp64	-	zinc finger protein 64	protein-coding	3.0	1.0	1.0	18.5	17.5	5.0	8.5	5.5
Merged-chr10-42225302-4	chr10	42225192	42225392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	51450.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	84.5	79.5	70.5	1185.5	90.0	53.0	49.5	77.0
Merged-chr8-11113434-3	chr8	11113336	11113536	+	983.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105006.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	25.5	30.0	15.5	468.0	28.0	1.5	6.0	10.0
Merged-chr19-4232346-4	chr19	4232214	4232414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132280)	promoter-TSS (NR_132280)	-101.0	NR_132280	69745.0	Mm.32518	NM_027196	ENSMUSG00000024854	Pold4	2410012M21Rik|AI463381|AW060307|Polds|p12	polymerase (DNA-directed), delta 4	protein-coding	30.5	39.0	43.0	397.5	69.0	27.5	22.0	38.0
Merged-chr1-136570221-2	chr1	136570121	136570321	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54680.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	5.0	6.5	5.0	37.0	14.5	3.5	2.5	1.5
Merged-chr11-75462475-4	chr11	75462378	75462578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030711, intron 1 of 2)	intron (NR_030711, intron 1 of 2)	939.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	41.0	80.5	44.5	547.5	118.5	52.5	61.0	91.5
Merged-chr4-43259832-3	chr4	43259689	43259889	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 37 of 39)	intron (NM_001081413, intron 37 of 39)	-7370.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	44.0	44.5	35.0	500.0	3.0	0.0	0.0	1.0
Merged-chr4-134761912-4	chr4	134761830	134762030	+	876.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	6074.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	12.5	14.5	10.5	166.0	34.5	5.0	6.5	15.5
Merged-chr7-80191580-4	chr7	80191410	80191610	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013659, intron 1 of 14)	intron (NM_013659, intron 1 of 14)	4669.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	9.5	4.0	9.5	107.5	19.0	5.5	7.0	21.0
Merged-chr8-11456056-3	chr8	11455956	11456156	+	863.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	MTE2b|LTR|ERVL-MaLR	-21873.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	6.0	10.0	7.0	91.5	11.0	5.0	3.5	10.0
Merged-chr1-161976110-2	chr1	161975985	161976185	+	845.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001204904, intron 1 of 6)	ORR1F|LTR|ERVL-MaLR	3551.0	NM_001204904	75368.0	Mm.108728	NM_001204904	ENSMUSG00000086277	4930558K02Rik	-	RIKEN cDNA 4930558K02 gene	protein-coding	6.5	6.5	3.0	100.0	14.5	6.0	10.0	8.5
Merged-chr17-25139005-4	chr17	25138892	25139092	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317404, intron 1 of 24)	B4|SINE|B4	2361.0	NM_001317404	26373.0	Mm.270587	NM_011930	ENSMUSG00000036636	Clcn7	ClC-7|D17Wsu51e	chloride channel, voltage-sensitive 7	protein-coding	13.5	28.5	12.0	165.0	115.0	33.0	30.0	41.5
Merged-chr6-106794252-4	chr6	106794144	106794344	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175357, exon 4 of 11)	exon (NM_175357, exon 4 of 11)	5843.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	18.5	18.0	15.0	363.0	61.0	11.5	39.0	15.5
Merged-chr14-87486089-2	chr14	87485987	87486187	+	627.25	f0_c57.idr|f1_balb.idr	intron (NM_001253755, intron 8 of 11)	intron (NM_001253755, intron 8 of 11)	69504.0	NM_001253755	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	1.0	6.0	4.0	104.0	26.0	9.0	12.5	12.5
Merged-chr2-113327692-4	chr2	113327615	113327815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285458)	promoter-TSS (NM_001285458)	-21.0	NM_001285458	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	148.5	193.5	165.5	2408.5	283.5	125.0	183.5	134.5
Merged-chr18-10726254-7	chr18	10726142	10726342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144860, exon 1 of 21)	5' UTR (NM_144860, exon 1 of 21)	617.0	NM_144860	225164.0	Mm.21500	NM_144860	ENSMUSG00000024294	Mib1	DIP-1|E430019M12Rik|Mib|mKIAA1323	mindbomb E3 ubiquitin protein ligase 1	protein-coding	29.0	31.0	54.5	281.5	57.0	21.0	28.0	20.0
Merged-chr1-34481008-4	chr1	34480894	34481094	+	991.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17418.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	22.0	17.0	21.5	275.0	81.5	22.5	37.0	32.5
Merged-chr10-77531119-4	chr10	77531021	77531221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 1 of 15)	intron (NM_008404, intron 1 of 15)	773.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	45.0	65.5	49.5	577.5	57.5	35.0	22.0	35.5
Merged-chr11-30198126-6	chr11	30198079	30198279	+	959.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009260)	promoter-TSS (NM_009260)	78.0	NM_009260	20742.0	Mm.123110	NM_009260	ENSMUSG00000020315	Sptbn1	9930031C03Rik|AL033301|SPTB2|Spnb-2|Spnb2|elf1|elf3|mKIAA4049	spectrin beta, non-erythrocytic 1	protein-coding	21.0	10.5	19.5	137.5	33.0	10.0	4.0	24.5
Merged-chr7-120918253-2	chr7	120918153	120918353	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164096, intron 1 of 19)	CpG	509.0	NM_001164096	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	23.5	14.5	14.5	72.5	40.5	10.5	18.5	22.5
Merged-chr14-70213235-4	chr14	70213129	70213329	+	957.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5558.0	NM_011366	20410.0	Mm.5068	NM_011366	ENSMUSG00000022091	Sorbs3	SCAM-1|SH3P3|Sh3d4|vinexin-g	sorbin and SH3 domain containing 3	protein-coding	22.5	17.0	24.5	164.5	28.5	15.0	14.5	20.5
Merged-chr14-120327289-4	chr14	120327183	120327383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	20831.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	108.0	192.5	123.5	1887.5	269.5	112.5	99.5	91.0
Merged-chr8-119422237-3	chr8	119422146	119422346	+	967.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14916.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	9.5	16.0	8.5	181.5	13.5	3.0	2.5	12.5
Merged-chr14-13368525-2	chr14	13368425	13368625	+	785.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028052, intron 2 of 5)	intron (NM_028052, intron 2 of 5)	83745.0	NM_028052	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	6.5	7.0	6.0	64.5	8.0	0.5	2.5	2.5
Merged-chr13-104863538-2	chr13	104863465	104863665	+	642.0	f0_balb.idr|f1_balb.idr	exon (NM_029984, exon 1 of 3)	exon (NM_029984, exon 1 of 3)	328.0	NM_029984	77803.0	Mm.159995	NM_029984	ENSMUSG00000042655	Fam159b	A930021C24Rik|Shisal2b	family with sequence similarity 159, member B	protein-coding	5.5	4.5	5.5	126.0	5.5	2.0	6.5	9.0
Merged-chr15-34469897-4	chr15	34469786	34469986	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173421, intron 1 of 2)	intron (NM_173421, intron 1 of 2)	16574.0	NM_173421	239368.0	Mm.211977	NM_173421	ENSMUSG00000044726	Erich5	-	glutamate rich 5	protein-coding	7.0	8.5	4.5	83.5	28.5	12.0	17.5	10.0
Merged-chr5-142794778-4	chr5	142794694	142794894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178242, intron 2 of 15)	intron (NM_178242, intron 2 of 15)	22593.0	NM_178242	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	107.0	138.0	79.0	2097.5	274.0	63.0	130.5	92.0
Merged-chr17-23982358-4	chr17	23982247	23982447	+	879.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7117.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	5.0	9.0	2.5	98.0	25.5	7.0	9.5	12.5
Merged-chr2-156523209-4	chr2	156523107	156523307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291122, intron 14 of 20)	intron (NM_001291122, intron 14 of 20)	-24369.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	73.5	86.0	69.5	1200.0	177.0	59.5	61.5	92.5
Merged-chr4-40963155-4	chr4	40963073	40963273	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029814, intron 7 of 7)	MTC|LTR|ERVL-MaLR	-7733.0	NM_001290449	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	10.5	8.0	14.5	215.0	20.5	1.0	6.5	19.0
Merged-chr4-135272909-4	chr4	135272817	135273017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013885)	promoter-TSS (NM_013885)	-157.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	369.5	582.5	373.5	4189.5	858.5	381.0	405.5	293.5
Merged-chr10-5806655-4	chr10	5806553	5806753	+	861.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1188.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	8.5	18.5	10.5	173.5	17.0	7.5	8.5	13.0
Merged-chr15-84324701-4	chr15	84324563	84324763	+	865.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022321)	promoter-TSS (NM_022321)	-57.0	NM_022321	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	7.5	6.0	14.0	151.0	20.0	5.5	10.0	18.5
Merged-chr3-151749973-3	chr3	151749875	151750075	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133871)	promoter-TSS (NM_133871)	-16.0	NM_133871	99899.0	Mm.30756	NM_133871	ENSMUSG00000028037	Ifi44	A430056A10Rik|AW261460|MTAP44|p44	interferon-induced protein 44	protein-coding	44.0	54.0	39.0	1050.5	14.0	6.0	4.0	4.0
Merged-chr13-55536619-4	chr13	55536521	55536721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134059)	promoter-TSS (NM_134059)	37.0	NM_134059	72935.0	Mm.205045	NM_134059	ENSMUSG00000021494	Ddx41	2900024F02Rik|AA958953|ABS|AI324246	DEAD (Asp-Glu-Ala-Asp) box polypeptide 41	protein-coding	250.0	427.0	164.0	2731.0	582.5	271.5	212.0	157.0
Merged-chr3-138488765-2	chr3	138488675	138488875	+	814.0	f0_balb.idr|f1_balb.idr	intron (NM_175224, intron 1 of 10)	intron (NM_175224, intron 1 of 10)	607.0	NM_175224	75624.0	Mm.26833	NM_175224	ENSMUSG00000005813	Metap1	1700029C17Rik|AW047992|mKIAA0094	methionyl aminopeptidase 1	protein-coding	5.5	16.0	13.5	88.0	13.5	5.5	5.0	5.0
Merged-chr15-59860930-4	chr15	59860803	59861003	+	861.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65944.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	12.5	19.5	17.5	149.0	28.5	8.5	16.0	8.5
Merged-chr4-126553266-4	chr4	126553160	126553360	+	908.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3720.0	NM_175554	269582.0	Mm.243962	NM_175554	ENSMUSG00000042489	Clspn	B130025E01|C85083|E130314M08Rik	claspin	protein-coding	22.5	23.5	19.5	410.0	23.5	9.5	10.0	9.5
Merged-chr9-106212117-4	chr9	106212013	106212213	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011876, intron 3 of 8)	intron (NM_011876, intron 3 of 8)	9005.0	NM_011876	23999.0	Mm.274346	NM_011876	ENSMUSG00000023277	Twf2	A6-related|AU014993|Ptk9l|Ptk9r	twinfilin actin binding protein 2	protein-coding	12.0	86.0	34.0	369.5	85.5	28.5	29.5	20.5
Merged-chr2-71500056-4	chr2	71499982	71500182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025633, intron 1 of 9)	intron (NM_025633, intron 1 of 9)	-29363.0	NM_010053	13390.0	Mm.475101	NM_010053	ENSMUSG00000041911	Dlx1	Dlx|Dlx-1	distal-less homeobox 1	protein-coding	90.0	153.0	66.0	1406.5	233.5	78.0	71.5	86.0
Merged-chr10-8834097-4	chr10	8834035	8834235	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	51935.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	15.0	24.5	25.5	215.0	31.0	21.5	11.0	17.0
Merged-chr7-44929742-4	chr7	44929622	44929822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007458)	promoter-TSS (NM_007458)	-232.0	NM_001077264	11771.0	Mm.6877	NM_007458	ENSMUSG00000060279	Ap2a1	Adtaa	adaptor-related protein complex 2, alpha 1 subunit	protein-coding	410.0	707.5	519.0	6058.5	1077.5	493.5	551.0	431.5
Merged-chr9-44239647-2	chr9	44239547	44239747	+	984.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1030.0	NM_001360344	270150.0	Mm.347681	NM_001081369	ENSMUSG00000070306	Ccdc153	-	coiled-coil domain containing 153	protein-coding	5.5	9.0	9.0	48.0	30.0	10.0	4.5	9.5
Merged-chr2-128803638-4	chr2	128803536	128803736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008587)	TTS (NM_008587)	-14667.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	40.0	47.0	45.0	891.5	54.5	20.0	22.0	28.0
Merged-chr11-23953745-4	chr11	23953656	23953856	+	954.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	-58486.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	13.5	16.0	15.0	134.0	39.0	8.0	9.0	18.0
Merged-chr13-95639827-3	chr13	95639747	95639947	+	996.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 30 of 35)	intron (NM_027711, intron 30 of 35)	-21381.0	NM_010169	14062.0	Mm.24816	NM_010169	ENSMUSG00000048376	F2r	AI482343|Cf2r|Par1|ThrR	coagulation factor II (thrombin) receptor	protein-coding	5.0	15.0	2.0	66.5	53.5	20.0	13.0	28.0
Merged-chr12-102745036-4	chr12	102744908	102745108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001324515, exon 2 of 2)	exon (NM_001324515, exon 2 of 2)	1248.0	NM_177140	320351.0	Mm.86546	NM_177140	ENSMUSG00000046675	Tmem251	D230037D09Rik	transmembrane protein 251	protein-coding	56.5	89.0	60.5	955.5	170.5	37.5	52.5	63.5
Merged-chr5-112277733-2	chr5	112277675	112277875	+	940.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	(TG)n|Simple_repeat|Simple_repeat	1084.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	7.5	6.0	4.5	45.0	11.5	1.0	3.0	4.0
Merged-chr12-36187303-4	chr12	36187206	36187406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146033, intron 6 of 9)	intron (NM_146033, intron 6 of 9)	30182.0	NM_146033	217473.0	Mm.130422	NM_146033	ENSMUSG00000036188	Ankmy2	AI035571|ZMYND20	ankyrin repeat and MYND domain containing 2	protein-coding	118.5	129.5	141.0	2925.5	192.5	69.0	118.0	90.0
Merged-chr12-52049547-4	chr12	52049450	52049650	+	949.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21487.0	NM_008159	14762.0	Mm.12890	NM_008159	ENSMUSG00000035148	Gpr33	-	G protein-coupled receptor 33	protein-coding	4.5	17.5	20.0	308.0	30.0	6.0	19.5	13.0
Merged-chr13-42101614-4	chr13	42101500	42101700	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	49579.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	12.0	7.5	9.5	134.5	40.5	12.0	15.5	13.0
Merged-chr5-30014742-4	chr5	30014647	30014847	+	959.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001314054, intron 2 of 4)	intron (NM_001314054, intron 2 of 4)	1633.0	NM_031168	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	27.0	27.0	12.0	286.0	70.0	18.5	29.5	17.5
Merged-chr5-34781934-3	chr5	34781853	34782053	+	737.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010414, intron 1 of 66)	intron (NM_010414, intron 1 of 66)	20213.0	NM_010414	15194.0	Mm.209071	NM_010414	ENSMUSG00000029104	Htt	AI256365|C430023I11Rik|Hd|Hdh|IT15	huntingtin	protein-coding	0.0	3.0	1.0	32.0	19.5	5.0	7.5	18.0
Merged-chr1-170608842-3	chr1	170608762	170608962	+	912.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19013.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	10.0	4.5	8.0	129.0	24.5	9.0	5.5	4.0
Merged-chr2-31108405-4	chr2	31108302	31108502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	MTD|LTR|ERVL-MaLR	-11902.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	33.0	60.0	33.0	585.0	58.5	17.5	35.5	35.5
Merged-chr4-132586331-2	chr4	132586231	132586431	+	758.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22264.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	11.5	10.0	6.0	56.0	12.5	5.5	2.0	2.5
Merged-chr1-157407724-1	chr1	157407624	157407824	+	721.5	f0_balb.idr	intron (NM_177644, intron 1 of 17)	intron (NM_177644, intron 1 of 17)	-4628.0	NR_027984	69953.0	Mm.286863	NM_027274	ENSMUSG00000049881	2810025M15Rik	AI429618	RIKEN cDNA 2810025M15 gene	ncRNA	5.5	8.5	9.0	106.0	9.5	3.5	7.0	6.0
Merged-chr7-75639671-4	chr7	75639504	75639704	+	854.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	184070.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	6.0	11.0	12.5	57.5	14.0	9.5	2.5	8.0
Merged-chr1-171006550-4	chr1	171006462	171006662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12364.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	45.0	55.0	30.5	527.0	85.5	29.5	42.5	39.5
Merged-chr9-90251233-4	chr9	90251148	90251348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	19521.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	72.5	77.5	77.5	1165.5	116.0	43.0	38.5	46.0
Merged-chr19-23135053-4	chr19	23134940	23135140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6186.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	125.0	233.0	178.5	1982.0	253.0	137.5	163.5	112.5
Merged-chr11-29318888-4	chr11	29318786	29318986	+	969.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	-55286.0	NM_176841	108686.0	Mm.338284	NM_176841	ENSMUSG00000032740	Ccdc88a	A430106J12Rik|AI848406|Ape|C130096N06Rik|C330012F17Rik|D130005J21Rik|Girdin|Giv|Grdn|Hkrp1	coiled coil domain containing 88A	protein-coding	25.0	46.5	49.5	583.5	46.5	12.0	34.5	23.5
Merged-chr2-30286400-4	chr2	30286293	30286493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177648)	promoter-TSS (NM_177648)	-39.0	NM_177648	227697.0	Mm.26690	NM_177648	ENSMUSG00000075419	Dolk	BC026973|Tmem15|mKIAA1094	dolichol kinase	protein-coding	95.5	88.0	42.0	853.0	223.5	90.5	81.5	86.0
Merged-chr1-160906323-4	chr1	160906238	160906438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024952)	promoter-TSS (NM_001024952)	-73.0	NM_001024952	381305.0	Mm.329667	NM_001024952	ENSMUSG00000040423	Rc3h1	5730557L09Rik|Gm551|N28103|mKIAA2025	RING CCCH (C3H) domains 1	protein-coding	301.0	434.5	235.0	3819.5	665.5	291.5	300.5	239.5
Merged-chr5-64376681-4	chr5	64376572	64376772	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	91270.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	31.0	30.5	15.0	279.0	86.0	18.5	35.5	34.0
Merged-chr17-63895369-4	chr17	63895288	63895488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286415, intron 1 of 17)	intron (NM_001286415, intron 1 of 17)	17322.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	78.5	114.0	124.0	1281.5	180.5	72.5	110.0	113.0
Merged-chr2-76367389-4	chr2	76367292	76367492	+	966.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2592.0	NM_153405	241490.0	Mm.33310	NM_153405	ENSMUSG00000042369	Rbm45	Drb1|Drbp1|G430095G15Rik	RNA binding motif protein 45	protein-coding	30.5	60.0	18.0	413.5	92.0	30.0	18.0	31.5
Merged-chr10-74967062-4	chr10	74966992	74967192	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010311)	promoter-TSS (NM_010311)	-85.0	NM_010311	14687.0	Mm.32595	NM_010311	ENSMUSG00000040009	Gnaz	AI847979|Gz	guanine nucleotide binding protein, alpha z subunit	protein-coding	19.5	23.0	21.0	324.5	18.5	6.0	13.0	12.5
Merged-chr5-63821375-4	chr5	63821265	63821465	+	877.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	8870.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	10.0	14.0	9.0	128.0	29.0	15.5	13.5	15.5
Merged-chr5-113986033-4	chr5	113985944	113986144	+	903.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 2 of 14)	intron (NM_198109, intron 2 of 14)	7713.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	4.0	8.0	10.5	88.5	15.5	14.0	9.5	6.5
Merged-chr14-70541139-3	chr14	70541038	70541238	+	978.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4113.0	NM_180588	72549.0	Mm.46742	NM_180588	ENSMUSG00000033589	Reep4	2700029E10Rik	receptor accessory protein 4	protein-coding	14.0	30.5	10.0	249.5	10.0	1.5	6.5	9.0
Merged-chr3-157534354-6	chr3	157534246	157534446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152231)	promoter-TSS (NR_152231)	181.0	NM_001355386	53861.0	Mm.259036	NM_017381	ENSMUSG00000028180	Zranb2	AI227013|Zfp265|Zis|Znf265	zinc finger, RAN-binding domain containing 2	protein-coding	90.5	149.0	112.5	1340.0	224.5	138.5	131.5	158.0
Merged-chr11-98774522-2	chr11	98774422	98774622	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145434, intron 1 of 7)	intron (NM_145434, intron 1 of 7)	855.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	11.0	17.0	8.0	174.0	32.5	17.5	9.5	17.0
Merged-chr7-34198545-4	chr7	34198435	34198635	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-1865.0	NM_001360710	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	13.5	19.5	11.5	189.0	46.5	20.0	24.5	22.0
Merged-chr17-64609124-4	chr17	64609048	64609248	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	7499.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	23.0	40.0	25.5	455.0	36.0	19.0	36.5	19.5
Merged-chr11-40694951-4	chr11	40694798	40694998	+	951.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001199274, exon 1 of 7)	5' UTR (NM_001199274, exon 1 of 7)	305.0	NM_001199274	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	11.5	12.0	14.5	317.5	31.5	9.0	10.5	22.0
Merged-chr19-10843682-4	chr19	10843561	10843761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023044, intron 1 of 7)	MIR3|SINE|MIR	1117.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	19.5	26.5	19.0	245.5	56.5	15.5	23.0	37.5
Merged-chr12-85362675-3	chr12	85362574	85362774	+	847.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 1 of 4)	L1MC3|LINE|L1	12043.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	13.0	31.0	11.5	291.0	23.0	2.5	5.5	8.5
Merged-chr7-135653263-2	chr7	135653163	135653363	+	694.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015548)	promoter-TSS (NR_015548)	-949.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	12.5	6.5	4.5	77.5	5.0	3.0	2.5	8.5
Merged-chr13-99306382-4	chr13	99306280	99306480	+	885.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38298.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	14.0	22.0	9.5	285.0	31.5	13.0	10.5	9.5
Merged-chr9-40343284-3	chr9	40343197	40343397	+	815.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040728)	TTS (NR_040728)	2948.0	NM_001357623	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	7.5	6.5	9.5	97.5	28.5	7.0	8.5	10.0
Merged-chr9-71485766-7	chr9	71485616	71485816	+	993.464294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164793)	promoter-TSS (NM_001164793)	267.0	NM_178602	28015.0	Mm.21094	NM_178602	ENSMUSG00000032199	Polr2m	AA407243|AA408799|AI303746|AW553238|D9Wsu138e|Grinl1a|mKIAA4185	polymerase (RNA) II (DNA directed) polypeptide M	protein-coding	5.5	15.5	24.0	117.5	40.0	15.5	22.0	24.5
Merged-chr4-109280871-4	chr4	109280771	109280971	+	875.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007943, intron 1 of 24)	CpG	596.0	NM_007943	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	4.5	11.0	14.0	132.5	21.0	8.5	9.0	16.0
Merged-chr8-24725857-3	chr8	24725742	24725942	+	900.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009619)	promoter-TSS (NM_009619)	10.0	NM_009619	11497.0	Mm.5168	NM_009619	ENSMUSG00000031553	Adam3	Cyrn1|Taz83|tMDC	a disintegrin and metallopeptidase domain 3 (cyritestin)	protein-coding	6.0	10.5	14.5	140.0	10.0	1.5	3.5	2.0
Merged-chr10-41386071-4	chr10	41385958	41386158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-64300.0	NM_001277229	268294.0	Mm.258475	NM_153398	ENSMUSG00000019826	Zbtb24	BC055367|Bif1|Bsg1|ZNF450	zinc finger and BTB domain containing 24	protein-coding	52.0	75.5	65.5	779.5	98.5	47.5	67.0	66.0
Merged-chr8-46152489-4	chr8	46152384	46152584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11167.0	NM_025747	66756.0	Mm.133623	NM_025747	ENSMUSG00000031631	Cfap97	1110068E21Rik|4933411K20Rik|AW049273|Kiaa1430	cilia and flagella associated protein 97	protein-coding	49.0	66.0	49.0	645.5	129.0	39.0	63.0	43.5
Merged-chr6-24756590-4	chr6	24756495	24756695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029848, exon 3 of 5)	exon (NM_029848, exon 3 of 5)	8228.0	NM_029848	77042.0	Mm.66017	NM_029848	ENSMUSG00000029680	Hyal4	4632428M18Rik|CSHY	hyaluronoglucosaminidase 4	protein-coding	188.5	245.0	275.5	3326.5	341.5	116.5	173.5	109.5
Merged-chr9-27023795-4	chr9	27023680	27023880	+	980.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178027, intron 1 of 5)	intron (NM_178027, intron 1 of 5)	6314.0	NM_178027	69091.0	Mm.218717	NM_178027	ENSMUSG00000031988	Vps26b	1810012I05Rik|2310075A12Rik|AI848392	VPS26 retromer complex component B	protein-coding	18.5	19.5	18.5	451.5	64.5	15.5	10.0	26.0
Merged-chr8-107056755-4	chr8	107056645	107056845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164472)	promoter-TSS (NM_001164472)	-8.0	NM_139229	97484.0	Mm.288641	NM_139229	ENSMUSG00000031916	Cog8	BB235941|C87832	component of oligomeric golgi complex 8	protein-coding	128.5	209.0	116.5	1770.0	346.0	128.5	143.0	196.0
Merged-chr19-21653070-4	chr19	21652988	21653188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025423)	promoter-TSS (NM_025423)	-221.0	NM_146096	226016.0	Mm.28796	NM_146096	ENSMUSG00000047368	Abhd17b	5730446C15Rik|Cgi67|Fam108b|Fam108b1	abhydrolase domain containing 17B	protein-coding	293.0	455.0	367.5	5459.0	770.5	276.0	369.0	259.5
Merged-chr11-108252123-4	chr11	108252007	108252207	+	932.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	91781.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	10.5	21.5	16.5	165.5	42.5	19.5	9.0	12.0
Merged-chr3-89102044-4	chr3	89101941	89102141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134469)	promoter-TSS (NM_134469)	-74.0	NM_001253751	110196.0	Mm.39472	NM_134469	ENSMUSG00000059743	Fdps	6030492I17Rik|AI256750|Fdpsl1|mKIAA1293	farnesyl diphosphate synthetase	protein-coding	168.0	311.0	134.5	2225.5	443.0	153.0	150.5	159.0
Merged-chr12-108808209-4	chr12	108808096	108808296	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009537, intron 2 of 4)	intron (NM_009537, intron 2 of 4)	14885.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	8.0	21.0	3.0	100.0	29.5	9.5	6.5	7.5
Merged-chr18-56608891-4	chr18	56608772	56608972	+	781.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20524.0	NM_026099	67343.0	Mm.87057	NM_026099	ENSMUSG00000032900	Tex43	1700065I17Rik|Tseg7	testis expressed 43	protein-coding	7.0	12.5	0.0	157.0	40.0	9.0	9.0	14.5
Merged-chr10-4612461-2	chr10	4612361	4612561	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007956, intron 1 of 8)	intron (NM_007956, intron 1 of 8)	472.0	NM_007956	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	8.5	4.5	8.0	105.0	17.0	5.0	15.0	10.0
Merged-chr16-30510875-5	chr16	30510927	30511127	+	999.159973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172614)	TTS (NM_172614)	39551.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	6.5	11.0	10.5	93.0	8.5	5.0	5.0	6.5
Merged-chr9-108203201-4	chr9	108203105	108203305	+	937.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12822.0	NM_007567	12217.0	Mm.20425	NM_007567	ENSMUSG00000032589	Bsn	-	bassoon	protein-coding	9.5	33.0	14.0	163.0	57.0	20.5	19.5	20.5
Merged-chr11-103051479-4	chr11	103051377	103051577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008707, intron 3 of 11)	intron (NM_008707, intron 3 of 11)	22934.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	85.0	122.5	77.5	1119.0	80.5	45.5	40.0	33.5
Merged-chr6-122605653-2	chr6	122605553	122605753	+	957.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008108, exon 2 of 2)	3' UTR (NM_008108, exon 2 of 2)	-3209.0	NM_001134391	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	4.5	4.0	2.0	23.0	11.0	9.0	5.5	10.0
Merged-chr1-45880688-2	chr1	45880588	45880788	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	44906.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	3.0	7.0	1.5	56.5	13.5	7.0	8.5	11.0
Merged-chr7-44304073-1	chr7	44303973	44304173	+	582.0	f0_c57.idr	3' UTR (NM_009131, exon 4 of 4)	3' UTR (NM_009131, exon 4 of 4)	2886.0	NM_009131	20256.0	Mm.20428	NM_009131	ENSMUSG00000004473	Clec11a	AW457320|Clecsf3|Scgf	C-type lectin domain family 11, member a	protein-coding	3.0	0.5	5.0	13.5	18.5	14.5	4.5	4.5
Merged-chr2-102990449-4	chr2	102990358	102990558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83055.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	43.0	32.5	25.5	477.0	50.0	22.0	20.5	25.0
Merged-chr11-102246450-4	chr11	102246345	102246545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2437.0	NM_153544	217216.0	Mm.247335	NM_153544	ENSMUSG00000034773	BC030867	-	cDNA sequence BC030867	protein-coding	34.0	39.5	52.5	487.0	67.5	29.5	31.5	35.5
Merged-chr5-129959288-3	chr5	129959196	129959396	+	866.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001327, intron 1 of 1)	intron (NM_001001327, intron 1 of 1)	17187.0	NM_027121	69568.0	Mm.288718	NM_027121	ENSMUSG00000066735	Vkorc1l1	2310024K08Rik	vitamin K epoxide reductase complex, subunit 1-like 1	protein-coding	14.0	4.5	2.5	157.0	12.5	7.5	14.0	6.0
Merged-chr12-55399169-2	chr12	55399069	55399269	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011968, intron 1 of 6)	CpG	344.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	14.5	25.5	18.5	171.0	20.5	8.0	13.5	8.5
Merged-chr11-94322037-4	chr11	94321947	94322147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155068)	promoter-TSS (NR_155068)	-84.0	NM_001361573	67684.0	Mm.30927	NM_026313	ENSMUSG00000020863	Luc7l3	3300001P08Rik|Luc7a	LUC7-like 3 (S. cerevisiae)	protein-coding	41.5	71.0	35.5	572.0	162.5	47.0	58.5	52.5
Merged-chr15-38650989-4	chr15	38650895	38651095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10909.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	34.0	32.5	37.0	641.0	65.0	16.5	30.5	35.0
Merged-chr10-5191762-4	chr10	5191649	5191849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079686, intron 2 of 54)	intron (NM_001079686, intron 2 of 54)	2958.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	116.5	175.0	102.5	2425.0	327.5	100.0	108.5	153.0
Merged-chr14-33168871-2	chr14	33168771	33168971	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 1 of 58)	intron (NM_001146022, intron 1 of 58)	16195.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	6.0	7.0	5.5	114.5	11.5	4.0	10.0	16.5
Merged-chr10-21188905-3	chr10	21188806	21189006	+	745.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152786)	TTS (NR_152786)	1962.0	NR_152786	102636600.0	Mm.227606	NR_152786	ENSMUSG00000111005	Gm33619	-	predicted gene, 33619	ncRNA	2.5	14.0	3.0	95.5	17.5	5.0	6.0	6.0
Merged-chr9-120933398-4	chr9	120933284	120933484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165902)	promoter-TSS (NM_001165902)	-16.0	NM_007614	12387.0	Mm.291928	NM_007614	ENSMUSG00000006932	Ctnnb1	Bfc|Catnb|Mesc	catenin (cadherin associated protein), beta 1	protein-coding	133.0	217.0	120.0	1345.5	387.0	153.0	140.0	129.0
Merged-chr4-140905495-3	chr4	140905405	140905605	+	848.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008812)	promoter-TSS (NM_008812)	-855.0	NM_008812	18600.0	Mm.2296	NM_008812	ENSMUSG00000028927	Padi2	Pdi|Pdi2|mKIAA0994	peptidyl arginine deiminase, type II	protein-coding	4.5	9.0	4.5	48.5	12.0	2.0	3.0	10.5
Merged-chr2-72852725-4	chr2	72852620	72852820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39003.0	NR_102349	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	112.5	147.5	96.5	1673.5	264.5	106.0	128.5	107.5
Merged-chr9-44435964-4	chr9	44435868	44436068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033469, exon 3 of 5)	exon (NM_001033469, exon 3 of 5)	4900.0	NM_001033469	382074.0	Mm.335103	NM_001033469	ENSMUSG00000074397	Foxr1	Foxn5|Gm1115	forkhead box R1	protein-coding	35.0	40.0	20.0	393.0	73.5	26.5	27.0	32.5
Merged-chr17-26138678-4	chr17	26138613	26138813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009733)	promoter-TSS (NM_009733)	27.0	NM_001159598	12005.0	Mm.23684	NM_009733	ENSMUSG00000024182	Axin1	AI316800|Axin|Fu|Kb|Ki|fused|kinky|knobbly	axin 1	protein-coding	117.0	153.5	100.0	1138.0	237.0	90.5	100.5	107.0
Merged-chr4-132816605-4	chr4	132816506	132816706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20242.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	46.5	43.0	37.0	549.0	68.0	49.0	43.5	42.0
Merged-chr11-79963506-4	chr11	79963426	79963626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1139.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	24.0	32.5	19.0	416.0	61.5	34.5	30.5	33.5
Merged-chr10-81086811-4	chr10	81086701	81086901	+	841.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145365, intron 8 of 11)	B4A|SINE|B4	12071.0	NM_145365	208677.0	Mm.294693	NM_145365	ENSMUSG00000035041	Creb3l3	BC010786|CREB-H|D10Bur1e	cAMP responsive element binding protein 3-like 3	protein-coding	18.5	12.0	4.0	209.0	23.5	7.0	14.5	17.0
Merged-chr6-108874615-2	chr6	108874472	108874672	+	952.0	f0_balb.idr|f1_balb.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	45931.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	6.0	13.0	10.0	54.0	5.0	4.0	3.0	2.5
Merged-chr8-72318986-4	chr8	72318879	72319079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008452)	promoter-TSS (NM_008452)	-83.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	335.5	492.5	372.0	4945.5	986.0	391.0	558.0	406.0
Merged-chr4-148114931-4	chr4	148114815	148115015	+	899.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027426, intron 2 of 6)	intron (NM_027426, intron 2 of 6)	15783.0	NM_027426	70433.0	Mm.275288	NM_027426	ENSMUSG00000029005	Draxin	2610109H07Rik|neucrin	dorsal inhibitory axon guidance protein	protein-coding	4.5	12.0	11.5	198.5	34.5	11.5	16.0	13.5
Merged-chr18-23805871-4	chr18	23805790	23805990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	1920.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	101.5	120.5	74.0	1490.5	280.5	105.0	130.0	91.0
Merged-chr1-135729263-5	chr1	135729228	135729428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007791, intron 1 of 5)	CpG	161.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	25.5	46.0	51.0	629.0	187.5	64.0	68.0	42.0
Merged-chr17-78679624-2	chr17	78679527	78679727	+	774.25	f0_balb.idr|f1_balb.idr	intron (NM_011500, intron 6 of 17)	Lx10|LINE|L1	56933.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	9.0	13.0	6.5	176.0	6.0	1.5	1.5	4.0
Merged-chr12-85220001-2	chr12	85219901	85220101	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145445, intron 2 of 7)	intron (NM_145445, intron 2 of 7)	520.0	NM_145445	217715.0	Mm.29041	NM_145445	ENSMUSG00000004788	Eif2b2	EIF-2Bbeta|EIF2B	eukaryotic translation initiation factor 2B, subunit 2 beta	protein-coding	4.0	3.0	0.0	38.5	16.0	6.0	5.5	7.5
Merged-chr7-127254265-4	chr7	127254153	127254353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177362, exon 3 of 3)	exon (NM_177362, exon 3 of 3)	6414.0	NM_023203	66422.0	Mm.29898	NM_023203	ENSMUSG00000042462	Dctpp1	2410015N17Rik|AI854235|RS21-C6	dCTP pyrophosphatase 1	protein-coding	122.5	168.0	101.5	1206.0	389.5	133.5	139.5	164.5
Merged-chr8-80338117-4	chr8	80338001	80338201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-155944.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	50.0	59.5	56.5	640.5	93.0	26.0	39.5	38.0
Merged-chr9-94665421-4	chr9	94665321	94665521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4471.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	56.0	32.0	51.5	739.5	97.5	38.5	43.5	28.5
Merged-chr6-108197313-4	chr6	108197212	108197412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11729.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	84.0	115.5	92.5	1526.5	166.5	42.5	96.5	73.5
Merged-chr16-49049442-4	chr16	49049324	49049524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8062.0	NM_001166210	667772.0	Mm.301387	NM_001166210	ENSMUSG00000092009	Myh15	EG667772	myosin, heavy chain 15	protein-coding	34.5	26.0	57.0	1236.0	96.0	23.5	69.0	47.5
Merged-chr4-19894779-4	chr4	19894688	19894888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	L1MC3|LINE|L1	27778.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	87.5	126.0	121.5	1512.0	192.0	65.5	104.0	79.0
Merged-chr2-164941234-4	chr2	164941119	164941319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-7000.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	43.0	57.0	35.0	637.5	125.5	42.5	59.5	53.0
Merged-chr9-45202549-4	chr9	45202450	45202650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198971, intron 1 of 4)	intron (NM_001198971, intron 1 of 4)	1525.0	NM_145403	214523.0	Mm.436756	NM_145403	ENSMUSG00000032091	Tmprss4	mCAP2	transmembrane protease, serine 4	protein-coding	22.0	34.5	36.0	232.0	39.0	5.0	14.5	7.5
Merged-chr14-30828323-3	chr14	30828218	30828418	+	777.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028839, intron 1 of 7)	intron (NM_028839, intron 1 of 7)	2724.0	NM_028839	69179.0	Mm.143025	NM_028839	ENSMUSG00000006526	Tmem110	1810038N08Rik|2310014H19Rik|AW554125|STIMATE	transmembrane protein 110	protein-coding	9.5	16.5	8.5	41.5	18.0	14.5	4.0	6.5
Merged-chr11-76033595-3	chr11	76033486	76033686	+	724.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5804.0	NM_029658	76566.0	Mm.34131	NM_029658	ENSMUSG00000020846	Rflnb	1500005K14Rik|Fam101b|RefilinB|cfm	refilin B	protein-coding	7.0	9.5	5.5	128.5	6.0	6.0	2.0	8.0
Merged-chr3-106496149-4	chr3	106496047	106496247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001093754, intron 8 of 11)	intron (NM_001093754, intron 8 of 11)	10107.0	NM_028110	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	32.5	45.5	34.0	343.5	51.0	40.5	21.0	35.5
Merged-chr8-66334458-4	chr8	66334344	66334544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 4 of 7)	intron (NM_175188, intron 4 of 7)	-51857.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	55.0	91.0	64.0	1304.5	127.5	39.5	61.0	77.5
Merged-chr18-32818735-4	chr18	32818649	32818849	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021367, intron 4 of 4)	intron (NM_021367, intron 4 of 4)	1889.0	NR_033206	53603.0	Mm.143716	NM_021367	ENSMUSG00000024379	Tslp	-	thymic stromal lymphopoietin	protein-coding	18.0	64.5	51.5	227.5	136.5	49.5	38.5	22.0
Merged-chr4-83235643-3	chr4	83235567	83235767	+	747.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 17 of 19)	intron (NM_027238, intron 17 of 19)	88522.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	1.5	0.5	13.5	82.0	19.0	5.0	5.0	9.0
Merged-chr7-83581089-1	chr7	83580989	83581189	+	779.5	f0_c57.idr	Intergenic	Intergenic	-3842.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	0.0	2.0	0.0	48.0	20.0	5.0	19.0	11.5
Merged-chr9-13742646-3	chr9	13742559	13742759	+	898.455566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6522.0	NR_024025	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	9.0	15.5	11.0	164.5	18.0	4.5	5.5	20.0
Merged-chr15-4821317-4	chr15	4821186	4821386	+	814.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	-77451.0	NM_001166066	223825.0	Mm.159281	NM_001166066	ENSMUSG00000022155	Mroh2b	4930455B06Rik|Heatr7b2|SPIF	maestro heat-like repeat family member 2B	protein-coding	12.0	29.0	17.0	168.5	15.5	11.5	7.5	4.0
Merged-chr2-102887659-4	chr2	102887564	102887764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	14001.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	20.5	26.0	30.0	351.0	76.0	18.0	59.0	32.5
Merged-chr11-29823383-4	chr11	29823307	29823507	+	841.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_176829, exon 1 of 1)	3' UTR (NM_176829, exon 1 of 1)	2261.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	8.5	7.0	9.5	187.0	16.5	3.0	11.0	10.5
Merged-chr16-57482445-4	chr16	57482350	57482550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-66792.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	74.5	113.0	86.5	1351.5	245.5	60.5	92.5	76.0
Merged-chr1-132312888-4	chr1	132312797	132312997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3228.0	NM_001195025	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	40.0	63.0	41.5	584.5	107.0	34.5	43.0	46.0
Merged-chr3-152209818-4	chr3	152209677	152209877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355372)	promoter-TSS (NM_001355372)	306.0	NM_001356363	67035.0	Mm.46746	NM_025926	ENSMUSG00000028035	Dnajb4	1700029A20Rik|2010306G19Rik|5730460G06Rik	DnaJ heat shock protein family (Hsp40) member B4	protein-coding	52.0	128.0	46.5	903.0	177.0	58.0	75.0	54.0
Merged-chr19-23141077-4	chr19	23140967	23141167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010638)	promoter-TSS (NM_010638)	-159.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	258.5	298.5	236.5	3100.0	599.0	288.5	333.0	202.5
Merged-chr9-96720812-3	chr9	96720699	96720899	+	612.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359959)	promoter-TSS (NM_001359959)	-949.0	NM_001359959	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	4.0	5.0	10.0	79.0	11.5	6.5	6.0	5.5
Merged-chr9-72965523-4	chr9	72965421	72965621	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163725, intron 4 of 6)	B1F|SINE|Alu	6736.0	NM_001163725	67685.0	Mm.31817	NM_026314	ENSMUSG00000092192	Dyx1c1	1700010I24Rik|Dnaaf4|EKN1|b2b811.1Clo|b2b811Clo	dyslexia susceptibility 1 candidate 1	protein-coding	11.0	24.0	11.0	250.5	57.0	7.0	9.5	16.0
Merged-chr1-92659574-4	chr1	92659479	92659679	+	877.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10738.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	8.5	10.5	20.5	348.5	23.5	12.5	9.5	21.0
Merged-chr4-107213598-3	chr4	107213494	107213694	+	825.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081272, intron 2 of 4)	intron (NM_001081272, intron 2 of 4)	4414.0	NM_001081272	546840.0	Mm.331755	NM_001081272	ENSMUSG00000070877	Ldlrad1	-	low density lipoprotein receptor class A domain containing 1	protein-coding	11.5	5.0	18.0	78.5	9.0	9.0	5.0	5.5
Merged-chr2-29965451-4	chr2	29965350	29965550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309460)	promoter-TSS (NM_001309460)	-110.0	NM_001177668	20740.0	Mm.204969	NM_001076554	ENSMUSG00000057738	Sptan1	2610027H02Rik|Spna-2|Spna2	spectrin alpha, non-erythrocytic 1	protein-coding	211.5	366.0	195.0	2474.5	509.0	236.5	228.5	183.5
Merged-chr12-41196629-4	chr12	41196557	41196757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	172567.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	26.0	41.0	34.5	455.5	61.0	28.0	22.0	35.0
Merged-chr10-4047265-3	chr10	4047166	4047366	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 17 of 27)	intron (NM_001170785, intron 17 of 27)	74191.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	18.0	23.0	26.5	584.5	15.0	7.0	5.5	11.0
Merged-chr14-17903247-4	chr14	17903150	17903350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-78394.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	24.5	27.5	51.0	978.0	58.0	20.5	40.0	24.0
Merged-chr12-73881670-4	chr12	73881570	73881770	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19654.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	37.5	70.5	12.5	679.0	89.5	36.0	46.5	41.5
Merged-chr9-21424820-4	chr9	21424723	21424923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253893)	promoter-TSS (NM_001253893)	-85.0	NM_007871	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	262.5	403.5	213.5	3236.5	517.0	266.0	232.5	242.5
Merged-chr1-165681589-4	chr1	165681414	165681614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	26580.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	61.0	111.5	70.0	910.5	113.0	54.0	36.0	43.5
Merged-chr12-110908011-3	chr12	110907914	110908114	+	926.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175336, intron 3 of 20)	intron (NM_175336, intron 3 of 20)	18750.0	NM_001081057	104859.0	Mm.35583	NM_175336	ENSMUSG00000021275	Tecpr2	4930573I19Rik|AI604920|mKIAA0297	tectonin beta-propeller repeat containing 2	protein-coding	9.0	23.5	21.5	193.5	11.5	9.0	15.5	9.5
Merged-chr11-30163309-3	chr11	30163228	30163428	+	999.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175836, intron 1 of 34)	intron (NM_175836, intron 1 of 34)	34929.0	NM_009260	20742.0	Mm.123110	NM_009260	ENSMUSG00000020315	Sptbn1	9930031C03Rik|AL033301|SPTB2|Spnb-2|Spnb2|elf1|elf3|mKIAA4049	spectrin beta, non-erythrocytic 1	protein-coding	32.0	19.0	28.5	479.0	2.0	0.0	0.5	0.0
Merged-chr7-100965293-4	chr7	100965191	100965391	+	917.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183168)	promoter-TSS (NM_183168)	-925.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	14.5	31.5	10.5	251.0	25.5	16.0	14.5	20.5
Merged-chr19-53802038-4	chr19	53801942	53802142	+	879.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	intron (NM_001170847, intron 1 of 13)	-90189.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	11.5	5.5	5.0	115.0	36.5	4.0	12.0	15.5
Merged-chr11-109331546-4	chr11	109331442	109331642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15325.0	NR_027883	67927.0	Mm.394490	NR_027883	ENSMUSG00000099630	1700096J18Rik	-	RIKEN cDNA 1700096J18 gene	ncRNA	75.0	104.5	54.5	988.0	197.0	68.5	97.5	61.0
Merged-chr1-182907484-3	chr1	182907382	182907582	+	851.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47306.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	9.5	2.5	4.0	248.0	10.0	10.0	5.0	15.5
Merged-chr5-32721602-2	chr5	32721507	32721707	+	816.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	24735.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	7.0	7.0	13.0	171.0	5.5	1.5	0.0	0.0
Merged-chr13-6002659-4	chr13	6002576	6002776	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	X3_LINE|LINE|RTE-BovB	141187.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	5.5	1.5	10.5	168.5	20.5	7.0	15.0	11.5
Merged-chr2-18835694-4	chr2	18835585	18835785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33867.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	42.5	55.5	33.5	661.5	71.0	34.5	45.5	49.5
Merged-chr10-111103335-4	chr10	111103248	111103448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61454.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	192.0	305.5	243.0	4093.5	446.0	148.5	255.5	220.0
Merged-chr10-68732414-4	chr10	68732314	68732514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	8668.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	40.0	29.0	67.5	767.0	111.0	39.0	84.5	44.0
Merged-chr9-32516892-4	chr9	32516843	32517043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	24509.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	80.0	131.0	99.5	1441.5	123.5	41.5	66.5	55.0
Merged-chr6-115507572-4	chr6	115507475	115507675	+	937.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-37129.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	16.0	23.5	20.5	298.0	32.5	13.5	16.5	14.5
Merged-chr13-9636727-2	chr13	9636627	9636827	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 30 of 36)	intron (NM_001081426, intron 30 of 36)	127083.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	6.0	4.0	5.0	173.5	30.0	7.0	5.5	8.0
Merged-chr1-93444470-2	chr1	93444370	93444570	+	687.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133808, intron 1 of 27)	intron (NM_133808, intron 1 of 27)	1231.0	NM_001301364	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	6.0	2.5	3.5	38.0	16.0	4.5	5.5	4.5
Merged-chr2-163712852-5	chr2	163712750	163712950	+	879.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 3 of 4)	intron (NM_001039390, intron 3 of 4)	18813.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	18.5	7.5	10.0	249.5	15.5	3.5	3.5	7.5
Merged-chr5-123671196-4	chr5	123671101	123671301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	intron (NM_001359224, intron 1 of 18)	13160.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	25.5	45.0	27.5	473.5	70.0	22.0	25.5	47.5
Merged-chr2-148889154-4	chr2	148889056	148889256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13644.0	NM_009976	13010.0	Mm.4263	NM_009976	ENSMUSG00000027447	Cst3	CysC	cystatin C	protein-coding	54.5	37.5	28.0	576.5	83.5	27.5	33.5	26.5
Merged-chr12-24980333-8	chr12	24980217	24980417	+	812.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081378, intron 1 of 31)	(CAGG)n|Simple_repeat|Simple_repeat	5385.0	NM_001081378	77480.0	Mm.250641	NM_001081378	ENSMUSG00000036333	Kidins220	3110039L19Rik|AI194387|AI316525|C330002I19Rik|mKIAA1250	kinase D-interacting substrate 220	protein-coding	0.0	9.0	2.0	67.5	33.0	10.0	7.5	10.5
Merged-chr17-46646164-4	chr17	46646058	46646258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029091)	promoter-TSS (NM_029091)	-63.0	NM_001316742	27398.0	Mm.391007	NM_025302	ENSMUSG00000002767	Mrpl2	CGI-22|L2mt|MRP-L14|MRP-L2|Rpml14	mitochondrial ribosomal protein L2	protein-coding	94.5	188.5	81.5	1540.0	277.5	123.0	93.0	103.5
Merged-chr6-48083982-3	chr6	48083880	48084080	+	934.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362062, intron 1 of 5)	intron (NM_001362062, intron 1 of 5)	2613.0	NM_001347142	69228.0	Mm.207555	NM_001163475	ENSMUSG00000057691	Zfp746	2810407L07Rik|AI317225|Znf746	zinc finger protein 746	protein-coding	9.5	19.5	11.0	249.5	4.5	4.5	4.0	10.0
Merged-chr7-25689334-4	chr7	25689216	25689416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011577, intron 1 of 6)	CpG	2314.0	NM_011577	21803.0	Mm.248380	NM_011577	ENSMUSG00000002603	Tgfb1	TGF-beta1|TGFbeta1|Tgfb|Tgfb-1	transforming growth factor, beta 1	protein-coding	245.0	451.0	339.0	3544.5	710.0	222.5	268.0	204.5
Merged-chr14-13901872-4	chr14	13901773	13901973	+	869.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59440.0	NM_001285780	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	5.5	17.5	23.5	268.5	15.0	9.5	10.0	15.5
Merged-chr17-10444748-1	chr17	10444648	10444848	+	705.5	f0_balb.idr	intron (NM_027032, intron 4 of 4)	(TG)n|Simple_repeat|Simple_repeat	-11468.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	5.5	10.0	7.0	75.5	3.0	2.5	1.0	2.0
Merged-chr9-42124385-4	chr9	42124315	42124515	+	896.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011436)	promoter-TSS (NM_011436)	-118.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	7.0	10.5	17.0	232.5	47.5	9.0	24.0	11.5
Merged-chr11-103419360-4	chr11	103419260	103419460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6696.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	14.0	30.0	36.5	278.5	69.5	29.5	28.5	44.5
Merged-chr15-82353819-1	chr15	82353719	82353919	+	697.0	f1_c57bl6.idr	intron (NM_025987, intron 1 of 2)	intron (NM_025987, intron 1 of 2)	472.0	NM_025987	67130.0	Mm.27570	NM_025987	ENSMUSG00000022450	Ndufa6	14kDa|2700038D15Rik|B230217P19Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 6 (B14)	protein-coding	9.5	6.0	12.5	53.5	18.0	6.0	10.0	11.5
Merged-chr4-131920366-4	chr4	131920330	131920530	+	956.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102393)	promoter-TSS (NR_102393)	-401.0	NR_102393	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	15.0	19.5	34.0	455.5	37.5	11.0	18.5	9.0
Merged-chr13-113611066-2	chr13	113610972	113611172	+	905.0	f0_balb.idr|f0_c57.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	7492.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	18.5	26.5	14.0	99.0	55.5	16.0	19.0	18.5
Merged-chr11-46849350-2	chr11	46849252	46849452	+	682.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	38553.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	13.5	9.5	6.5	253.5	5.0	1.0	0.0	1.5
Merged-chr6-120151899-4	chr6	120151808	120152008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	ORR1F|LTR|ERVL-MaLR	-41915.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	67.5	95.0	80.5	1149.5	148.5	52.5	65.0	49.0
Merged-chr11-106319056-6	chr11	106318980	106319180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133199, exon 24 of 24)	3' UTR (NM_133199, exon 24 of 24)	-4518.0	NM_001313939	15985.0	Mm.2987	NM_008339	ENSMUSG00000040592	Cd79b	B29|Ig-beta|Igb|Igbeta	CD79B antigen	protein-coding	33.5	28.5	28.5	153.5	33.0	19.5	17.5	22.5
Merged-chr7-89178153-3	chr7	89178050	89178250	+	963.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 6 of 14)	intron (NM_001360746, intron 6 of 14)	160637.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	9.5	15.0	6.0	298.5	15.5	14.0	10.5	6.5
Merged-chr3-90265709-4	chr3	90265626	90265826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201407)	promoter-TSS (NM_201407)	491.0	NM_001356483	229541.0	Mm.30571	NM_201407	ENSMUSG00000042404	Dennd4b	-	DENN/MADD domain containing 4B	protein-coding	292.0	544.5	387.0	4723.0	731.5	303.0	386.5	266.5
Merged-chr4-22358764-3	chr4	22358668	22358868	+	932.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172988, intron 1 of 8)	intron (NM_172988, intron 1 of 8)	1225.0	NR_104380	269514.0	Mm.40708	NM_172988	ENSMUSG00000040410	Fbxl4	AI836810|FBL4|FBL5	F-box and leucine-rich repeat protein 4	protein-coding	7.5	10.5	28.5	239.5	22.0	4.5	3.5	6.5
Merged-chr19-18670741-4	chr19	18670649	18670849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026120)	promoter-TSS (NM_026120)	-31.0	NM_026120	67383.0	Mm.306602	NM_026120	ENSMUSG00000024726	Carnmt1	2410127L17Rik	carnosine N-methyltransferase 1	protein-coding	358.5	535.5	393.5	5523.0	785.0	271.5	460.0	265.0
Merged-chr2-160361673-4	chr2	160361595	160361795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5370.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	48.5	62.0	64.0	931.5	75.0	31.5	50.0	29.5
Merged-chr18-62253999-4	chr18	62253878	62254078	+	889.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70226.0	NM_008313	15562.0	Mm.20440	NM_008313	ENSMUSG00000026322	Htr4	5-HT-4|5-HT4|5-HT<4L>|5HTR4	5 hydroxytryptamine (serotonin) receptor 4	protein-coding	10.0	19.0	7.5	204.0	46.5	9.0	11.0	16.0
Merged-chr8-111596004-4	chr8	111595900	111596100	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	intron (NM_001168623, intron 1 of 4)	34322.0	NM_027570	52815.0	Mm.27589	NM_027570	ENSMUSG00000031958	Ldhd	4733401P21Rik|D8Bwg1320e	lactate dehydrogenase D	protein-coding	22.0	22.0	27.5	514.5	26.5	12.0	10.5	11.5
Merged-chr6-34955694-4	chr6	34955600	34955800	+	861.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025573, intron 5 of 7)	intron (NM_001025573, intron 5 of 7)	22299.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	7.5	17.5	13.5	150.0	23.5	14.0	10.5	14.0
Merged-chr9-75542139-3	chr9	75542038	75542238	+	879.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	17519.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	3.0	4.5	2.5	60.0	45.5	5.0	6.5	20.0
Merged-chr4-11004496-2	chr4	11004396	11004596	+	746.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175175, intron 1 of 1)	intron (NM_175175, intron 1 of 1)	3123.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	1.5	1.0	1.0	15.5	5.5	6.0	9.0	5.5
Merged-chr11-44373029-4	chr11	44372902	44373102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27061.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	15.0	17.0	14.0	169.0	110.0	47.0	32.5	34.0
Merged-chr7-45277436-4	chr7	45277347	45277547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5426.0	NM_001033176	76713.0	Mm.425445	NM_001033176	ENSMUSG00000070568	Slc6a21	1700039E15Rik|Gm19188	solute carrier family 6 member 21	protein-coding	33.0	73.0	23.0	516.5	92.0	29.5	34.5	42.5
Merged-chr15-100457565-4	chr15	100457457	100457657	+	831.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11454.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	9.0	16.0	10.0	149.0	45.0	8.5	10.5	15.5
Merged-chr6-49074332-1	chr6	49074232	49074432	+	822.0	f1_c57bl6.idr	intron (NM_029353, intron 1 of 3)	intron (NM_029353, intron 1 of 3)	537.0	NM_029353	75593.0	Mm.439947	NM_029353	ENSMUSG00000029815	Malsu1	2410003K15Rik|Matsu1	mitochondrial assembly of ribosomal large subunit 1	protein-coding	4.0	11.5	10.5	77.0	31.0	11.0	11.5	21.0
Merged-chr1-7397055-4	chr1	7396967	7397167	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	308147.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	15.5	34.0	14.0	325.5	77.0	17.5	25.5	24.0
Merged-chr19-47090328-3	chr19	47090233	47090433	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011053)	promoter-TSS (NM_011053)	292.0	NM_023211	66477.0	Mm.29722	NM_023211	ENSMUSG00000071528	Usmg5	2010301L15Rik	upregulated during skeletal muscle growth 5	protein-coding	17.5	9.0	9.5	159.0	20.5	9.5	16.5	13.5
Merged-chr7-81863371-4	chr7	81863251	81863451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291282, intron 2 of 9)	intron (NM_001291282, intron 2 of 9)	664.0	NM_001291282	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	49.0	34.0	37.0	780.5	88.0	29.0	37.0	63.0
Merged-chr6-125378320-4	chr6	125378243	125378443	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198604, intron 3 of 16)	intron (NM_198604, intron 3 of 16)	2161.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	42.0	48.0	24.5	515.0	31.0	15.5	17.0	15.5
Merged-chr16-92443837-3	chr16	92443728	92443928	+	945.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	22341.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	26.5	21.0	49.5	906.5	3.5	3.5	5.0	4.5
Merged-chr4-133241571-7	chr4	133241381	133241581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016693, intron 1 of 28)	CpG	663.0	NM_016693	53608.0	Mm.36640	NM_016693	ENSMUSG00000028862	Map3k6	Ask2|MAPKKK6|MEKK6	mitogen-activated protein kinase kinase kinase 6	protein-coding	48.5	48.5	28.0	373.0	93.0	48.0	45.5	45.5
Merged-chr13-20049826-4	chr13	20049733	20049933	+	736.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	-40674.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	7.0	9.5	6.5	138.5	31.5	8.5	9.5	10.0
Merged-chr11-32912013-3	chr11	32911905	32912105	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-87411.0	NM_027050	69351.0	Mm.65488	NM_027050	ENSMUSG00000020270	Smim23	1700008A04Rik	small integral membrane protein 23	protein-coding	77.0	43.0	63.0	1086.5	2.5	0.0	0.0	0.0
Merged-chr4-122924024-4	chr4	122923911	122924111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37177.0	NM_029662	76574.0	Mm.331842	NM_029662	ENSMUSG00000028655	Mfsd2a	1700018O18Rik|Mfsd2|NLS1	major facilitator superfamily domain containing 2A	protein-coding	49.5	53.5	35.0	513.5	99.0	24.0	48.5	31.0
Merged-chr4-7457642-4	chr4	7457561	7457761	+	967.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103027.0	NR_040645	71510.0	Mm.410775	NR_040645	ENSMUSG00000086070	8430436N08Rik	-	RIKEN cDNA 8430436N08 gene	ncRNA	26.0	20.5	25.5	504.5	25.0	14.0	35.5	30.0
Merged-chr7-84665545-2	chr7	84665454	84665654	+	641.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001360577, intron 1 of 7)	intron (NM_001360577, intron 1 of 7)	13842.0	NM_022985	65098.0	Mm.209349	NM_022985	ENSMUSG00000030629	Zfand6	3110005P07Rik|Awp1|Za20d3	zinc finger, AN1-type domain 6	protein-coding	12.5	28.0	20.0	73.5	13.0	4.5	1.5	10.5
Merged-chr18-47306528-3	chr18	47306411	47306611	+	966.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311097, intron 1 of 17)	intron (NM_001311097, intron 1 of 17)	62357.0	NM_018744	20358.0	Mm.40909	NM_018744	ENSMUSG00000019647	Sema6a	A730020P05Rik|AI851735|Sema6A-1|Semaq|VIa	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	protein-coding	15.0	17.0	23.0	368.5	7.5	1.0	4.0	6.5
Merged-chr10-14173560-3	chr10	14173428	14173628	+	723.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	207149.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	6.0	7.5	2.5	60.0	21.0	7.0	10.5	11.0
Merged-chr8-13640477-3	chr8	13640383	13640583	+	903.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	37104.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	10.0	16.0	7.5	128.0	16.0	3.5	5.5	8.5
Merged-chr18-80225060-3	chr18	80224987	80225187	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025299, exon 4 of 4)	3' UTR (NM_025299, exon 4 of 4)	18220.0	NM_001042408	27366.0	Mm.172411	NM_025299	ENSMUSG00000057130	Txnl4a	D18Wsu98e|Dim1|Txnl4|U5-15kD|U5-15kDa	thioredoxin-like 4A	protein-coding	41.0	28.0	34.5	447.5	9.0	7.5	3.5	16.5
Merged-chr1-154104388-4	chr1	154104285	154104485	+	981.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	-96802.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	25.0	18.5	19.0	375.0	50.5	7.0	16.5	18.0
Merged-chr17-27028049-4	chr17	27027991	27028191	+	924.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149749, intron 1 of 6)	intron (NR_149749, intron 1 of 6)	536.0	NM_007523	12018.0	Mm.2443	NM_007523	ENSMUSG00000057789	Bak1	Bak|N-BAK1|N-Bak	BCL2-antagonist/killer 1	protein-coding	18.0	19.0	13.0	191.5	39.5	12.0	6.5	16.0
Merged-chr9-121840084-3	chr9	121839991	121840191	+	781.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028384)	promoter-TSS (NM_028384)	-630.0	NM_028384	100502861.0	Mm.335550	NM_028384	ENSMUSG00000079235	Ccdc13	2900041A11Rik|Gm188	coiled-coil domain containing 13	protein-coding	5.0	2.0	3.5	112.5	27.0	8.0	9.5	21.0
Merged-chr11-49103467-3	chr11	49103364	49103564	+	865.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10293.0	NM_146337	258334.0	Mm.390388	NM_146337	ENSMUSG00000047511	Olfr1396	MOR276-2	olfactory receptor 1396	protein-coding	12.0	13.5	3.0	70.5	24.5	12.0	12.0	11.5
Merged-chr19-29419040-3	chr19	29418908	29419108	+	950.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 1 of 5)	intron (NM_021396, intron 1 of 5)	8089.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	22.0	12.5	7.5	243.0	8.5	5.5	13.5	8.5
Merged-chr14-118910112-4	chr14	118910034	118910234	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360412, intron 8 of 22)	PB1D10|SINE|Alu	12657.0	NM_001360413	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	25.0	36.0	38.0	481.5	56.5	16.0	43.0	9.5
Merged-chr18-68194632-4	chr18	68194535	68194735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-33311.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	123.5	183.5	130.5	1913.5	279.0	91.5	172.0	110.0
Merged-chr3-135608353-4	chr3	135608254	135608454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 12 of 24)	intron (NM_008689, intron 12 of 24)	83193.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	80.5	111.0	102.5	1453.5	176.0	55.5	59.0	47.0
Merged-chr11-69621979-4	chr11	69621863	69622063	+	925.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356469)	promoter-TSS (NM_001356469)	-89.0	NM_026991	69215.0	Mm.340410	NM_026991	ENSMUSG00000069835	Sat2	2610016A03Rik|SSAT-2|SSAT2	spermidine/spermine N1-acetyl transferase 2	protein-coding	7.0	21.0	9.5	155.0	51.0	12.5	16.0	14.0
Merged-chr3-139042681-4	chr3	139042585	139042785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 2 of 13)	intron (NM_001356388, intron 2 of 13)	32516.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	82.5	180.0	91.5	1024.0	269.0	68.0	87.5	46.0
Merged-chr7-49923604-4	chr7	49923496	49923696	+	897.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146013, intron 5 of 15)	intron (NM_001146013, intron 5 of 15)	11896.0	NM_148931	104245.0	Mm.207053	NM_148931	ENSMUSG00000039728	Slc6a5	Glyt2|prestin	solute carrier family 6 (neurotransmitter transporter, glycine), member 5	protein-coding	18.5	40.0	12.0	369.0	40.0	13.0	16.5	9.0
Merged-chr2-30392273-4	chr2	30392179	30392379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290508)	promoter-TSS (NM_001290508)	25.0	NM_001290508	57170.0	Mm.285167	NM_020329	ENSMUSG00000026856	Dolpp1	0610011H20Rik|AB030189|LSFR2	dolichyl pyrophosphate phosphatase 1	protein-coding	270.5	401.0	249.5	3486.0	542.5	218.0	258.5	195.5
Merged-chr9-63006255-4	chr9	63006137	63006337	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25358.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	8.0	17.5	19.0	191.0	22.5	7.5	7.0	11.5
Merged-chr15-12377024-3	chr15	12376954	12377154	+	867.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081064, intron 18 of 23)	intron (NM_001081064, intron 18 of 23)	55558.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	4.5	8.5	10.5	129.0	11.5	12.5	4.5	8.0
Merged-chr6-118141107-4	chr6	118141012	118141212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1972.0	NM_030165	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	83.5	136.5	75.5	1274.0	177.5	71.0	66.5	56.0
Merged-chr17-26229993-4	chr17	26229881	26230081	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	14261.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	22.0	23.0	18.0	393.5	31.5	9.0	14.5	25.0
Merged-chr7-63897029-4	chr7	63896938	63897138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	CpG	-19819.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	128.0	153.0	86.5	1699.0	287.5	121.0	167.5	134.5
Merged-chr19-55688780-4	chr19	55688683	55688883	+	923.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	13421.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	15.5	11.5	9.0	130.0	53.0	8.5	16.5	19.5
Merged-chr16-38506245-3	chr16	38506141	38506341	+	841.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024273, intron 4 of 6)	intron (NM_024273, intron 4 of 6)	16422.0	NM_024273	76916.0	Mm.132231	NM_024273	ENSMUSG00000002846	Timmdc1	2810021C21Rik|4930455C21Rik|AV135763	translocase of inner mitochondrial membrane domain containing 1	protein-coding	12.5	7.5	7.0	77.0	23.5	7.5	12.5	7.5
Merged-chr1-43811960-4	chr1	43811868	43812068	+	994.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026430, intron 1 of 14)	ORR1D2|LTR|ERVL-MaLR	15740.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	29.5	61.0	31.5	465.5	69.5	20.5	14.5	21.0
Merged-chr8-31149847-4	chr8	31149717	31149917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199988)	promoter-TSS (NM_001199988)	-499.0	NM_144927	234138.0	Mm.349800	NM_144927	ENSMUSG00000031577	Tti2	-	TELO2 interacting protein 2	protein-coding	63.5	110.0	71.0	1110.0	196.0	69.5	75.5	86.0
Merged-chr5-8675683-6	chr5	8675550	8675750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011076, intron 6 of 29)	Tigger7|DNA|TcMar-Tigger	-52698.0	NM_198620	242819.0	Mm.332192	NM_198620	ENSMUSG00000040570	Rundc3b	Gm440	RUN domain containing 3B	protein-coding	13.5	16.0	25.5	273.0	45.5	14.5	15.0	19.5
Merged-chr10-71362592-3	chr10	71362509	71362709	+	667.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	intron (NM_027184, intron 1 of 5)	14846.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	8.5	11.5	10.5	78.0	16.5	6.5	5.5	4.5
Merged-chr12-84761888-1	chr12	84761788	84761988	+	1000.0	f0_balb.idr	intron (NM_023409, intron 2 of 3)	RSINE1|SINE|B4	11224.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	23.0	23.0	16.0	284.5	44.5	16.5	20.0	22.0
Merged-chr14-74913758-4	chr14	74913688	74913888	+	956.828552	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	34089.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	4.5	19.0	18.0	147.0	29.5	13.0	17.0	17.0
Merged-chr18-39620062-4	chr18	39619967	39620167	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132822.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	18.0	31.0	20.5	204.5	36.0	13.5	7.5	18.5
Merged-chr2-102451892-7	chr2	102451824	102452024	+	880.56427	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010218)	promoter-TSS (NM_010218)	-132.0	NM_010218	14221.0	Mm.29730	NM_010218	ENSMUSG00000075012	Fjx1	-	four jointed box 1	protein-coding	3.0	6.5	4.5	41.0	12.5	6.5	9.5	11.0
Merged-chr1-181232821-4	chr1	181232720	181232920	+	981.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20842.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	22.5	21.0	28.5	157.5	41.5	20.0	26.0	12.5
Merged-chr13-55100223-4	chr13	55100045	55100245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293660, intron 1 of 12)	CpG	155.0	NR_121592	20184.0	Mm.259301	NM_011307	ENSMUSG00000025878	Uimc1	9430016E08Rik|D330018D10Rik|D630032M02Rik|RIP110|Rxrip110	ubiquitin interaction motif containing 1	protein-coding	38.0	49.0	38.0	473.0	73.5	41.0	33.0	49.0
Merged-chr5-34573687-4	chr5	34573583	34573783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331081)	promoter-TSS (NM_001331081)	19.0	NM_001331086	11518.0	Mm.289106	NM_013457	ENSMUSG00000029106	Add1	AI256389	adducin 1 (alpha)	protein-coding	198.5	235.0	148.5	2224.5	385.0	153.0	182.5	162.0
Merged-chr8-120529375-3	chr8	120529317	120529517	+	826.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	L1MB5|LINE|L1	-6440.0	NM_001145897	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	7.5	5.5	12.5	131.0	8.5	9.0	4.5	2.5
Merged-chr7-122329786-4	chr7	122329689	122329889	+	946.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	40664.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	23.5	39.0	15.0	297.5	23.5	19.0	19.5	30.0
Merged-chr9-57835163-4	chr9	57835078	57835278	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019689)	promoter-TSS (NM_019689)	-944.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	4.0	16.0	8.5	113.0	25.0	8.0	8.0	15.0
Merged-chr3-95523955-4	chr3	95523863	95524063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2823.0	NM_021281	13040.0	Mm.3619	NM_021281	ENSMUSG00000038642	Ctss	Cats	cathepsin S	protein-coding	70.0	115.0	78.0	1325.0	130.5	47.0	62.5	66.0
Merged-chr3-31138649-4	chr3	31138566	31138766	+	884.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-11254.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	7.5	18.0	9.0	149.5	63.5	11.0	12.0	16.5
Merged-chr11-34010008-1	chr11	34009908	34010108	+	1000.0	f0_balb.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-16815.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	22.0	48.5	28.0	281.0	56.5	18.5	23.5	24.0
Merged-chr13-17803611-4	chr13	17803501	17803701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081058, exon 1 of 14)	exon (NM_001081058, exon 1 of 14)	1496.0	NM_001081058	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	35.5	55.5	31.5	730.0	127.0	41.5	58.5	58.0
Merged-chr5-121546755-4	chr5	121546657	121546857	+	933.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010765)	promoter-TSS (NM_010765)	-865.0	NM_010765	17165.0	Mm.272206	NM_010765	ENSMUSG00000029454	Mapkapk5	MK5|PRAK	MAP kinase-activated protein kinase 5	protein-coding	16.5	13.5	9.5	197.0	28.0	10.0	17.0	6.0
Merged-chr11-94327966-4	chr11	94327882	94328082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146024)	promoter-TSS (NM_146024)	-19.0	NM_027799	71452.0	Mm.141054	NM_027799	ENSMUSG00000020864	Ankrd40	1110011C06Rik|5530600A18Rik|Gcap15	ankyrin repeat domain 40	protein-coding	63.0	106.5	42.5	545.0	162.5	49.0	54.0	31.0
Merged-chr16-52089616-2	chr16	52089516	52089716	+	595.25	f0_balb.idr|f0_c57.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	58067.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	9.5	9.5	19.0	96.0	28.5	9.5	8.5	3.0
Merged-chr19-11485466-4	chr19	11485375	11485575	+	973.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6563.0	NM_001164202	666926.0	Mm.486382	NM_001164202	ENSMUSG00000058470	Gm8369	EG666926	predicted gene 8369	protein-coding	37.5	36.0	23.0	284.0	54.0	34.5	14.0	15.0
Merged-chr11-4294681-3	chr11	4294592	4294792	+	776.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27896.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	9.5	29.0	16.0	128.5	7.5	3.5	4.5	8.5
Merged-chr1-91056623-4	chr1	91056542	91056742	+	809.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	3198.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	4.5	17.0	5.5	140.5	49.0	15.5	9.0	16.0
Merged-chr10-77613682-4	chr10	77613575	77613775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125903)	promoter-TSS (NR_125903)	-34.0	NR_125903	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	62.5	78.5	45.0	711.0	139.0	47.5	44.5	45.5
Merged-chr13-115148741-4	chr13	115148635	115148835	+	978.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46771.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	26.5	27.5	15.0	252.5	58.0	32.0	18.5	22.0
Merged-chr2-160086564-4	chr2	160086418	160086618	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69865.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	24.0	58.5	39.0	247.5	30.5	14.5	11.0	9.0
Merged-chr2-6479175-4	chr2	6479062	6479262	+	955.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126426.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	12.5	19.5	17.5	342.0	39.5	11.0	30.0	20.5
Merged-chr6-113749267-4	chr6	113749135	113749335	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 19 of 19)	intron (NM_001036684, intron 19 of 19)	-8554.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	12.5	8.0	5.0	183.5	18.0	4.5	13.5	16.0
Merged-chr2-166976555-4	chr2	166976470	166976670	+	949.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	intron (NM_001109905, intron 1 of 11)	-11853.0	NR_111895	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	29.0	30.5	12.5	410.5	69.0	33.0	14.5	18.0
Merged-chr7-45923628-4	chr7	45923526	45923726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2200.0	NM_010129	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	152.5	298.5	182.5	2406.0	443.0	164.0	195.0	161.5
Merged-chr8-69625410-8	chr8	69625341	69625541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045553)	promoter-TSS (NM_001045553)	107.0	NM_172754	234362.0	Mm.458487	NM_172754	ENSMUSG00000060427	Zfp868	AI449175|AW108241|C530032E20|mszf62	zinc finger protein 868	protein-coding	92.0	157.5	97.5	1117.0	167.5	87.5	91.5	94.5
Merged-chr4-129742417-4	chr4	129742332	129742532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045036)	promoter-TSS (NR_045036)	-129.0	NR_045036	20218.0	Mm.8256	NM_011317	ENSMUSG00000028790	Khdrbs1	Sam68|p62|p68	KH domain containing, RNA binding, signal transduction associated 1	protein-coding	118.0	184.0	82.0	979.0	346.0	117.5	93.5	120.5
Merged-chr12-100924853-2	chr12	100924753	100924953	+	917.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026681, intron 25 of 29)	intron (NM_026681, intron 25 of 29)	-16655.0	NM_001177673	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	15.5	20.5	6.5	207.5	17.0	12.5	9.5	18.5
Merged-chr7-25756252-4	chr7	25756149	25756349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190974)	TTS (NM_001190974)	-1490.0	NM_178089	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	150.5	251.0	159.0	1826.0	339.5	125.0	160.0	123.0
Merged-chr19-41104618-4	chr19	41104504	41104704	+	932.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011904, intron 12 of 20)	B4|SINE|B4	-27491.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	11.0	4.0	13.0	370.0	52.5	11.0	15.5	20.0
Merged-chr8-95808103-4	chr8	95808016	95808216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178078)	promoter-TSS (NM_178078)	-654.0	NM_001205226	234594.0	Mm.259220	NM_153164	ENSMUSG00000036550	Cnot1	6030411K04Rik|AA815922|D830048B13	CCR4-NOT transcription complex, subunit 1	protein-coding	82.5	178.5	70.0	1505.0	250.0	109.0	144.0	127.0
Merged-chr7-45744575-4	chr7	45744471	45744671	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017465, intron 1 of 6)	intron (NM_017465, intron 1 of 6)	-2093.0	NM_001360784	54200.0	Mm.271634	NM_017465	ENSMUSG00000003271	Sult2b1	AI326997|BB173635|ST2B1|SULT2B	sulfotransferase family, cytosolic, 2B, member 1	protein-coding	10.0	11.5	2.5	91.5	80.5	20.0	31.0	32.0
Merged-chr2-19554215-4	chr2	19554087	19554287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027600)	promoter-TSS (NM_027600)	-277.0	NM_027600	70909.0	Mm.158488	NM_027600	ENSMUSG00000026734	4921504E06Rik	4921522E24Rik	RIKEN cDNA 4921504E06 gene	protein-coding	34.0	39.5	44.5	481.0	73.0	19.0	31.5	44.0
Merged-chr13-74808708-4	chr13	74808618	74808818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009817)	promoter-TSS (NM_009817)	42.0	NM_001301153	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	28.0	21.5	53.0	539.5	61.5	27.5	35.0	40.0
Merged-chr4-10965133-6	chr4	10964995	10965195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42524.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	27.5	52.0	51.0	452.0	57.0	31.0	35.5	21.5
Merged-chr12-51829486-4	chr12	51829387	51829587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144788)	promoter-TSS (NM_144788)	49.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	50.0	126.5	126.5	956.0	146.0	61.5	58.0	62.0
Merged-chr16-58501194-6	chr16	58501108	58501308	+	912.422241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 2 of 10)	L1_Mus4|LINE|L1	22218.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	10.0	20.0	12.0	133.5	24.5	13.5	9.0	16.0
Merged-chr16-36935405-1	chr16	36935305	36935505	+	1000.0	f0_balb.idr	intron (NM_008225, intron 1 of 13)	intron (NM_008225, intron 1 of 13)	422.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	18.0	37.0	23.5	70.0	21.5	12.5	13.0	11.5
Merged-chr18-43477779-3	chr18	43477703	43477903	+	788.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-39517.0	NM_001291455	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	15.0	26.0	16.5	331.0	10.0	7.0	5.5	10.0
Merged-chr11-95834527-4	chr11	95834422	95834622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025659, intron 3 of 7)	intron (NM_025659, intron 3 of 7)	-7773.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	113.0	115.0	104.0	1655.0	220.0	56.0	98.5	98.5
Merged-chr2-120544945-4	chr2	120544870	120545070	+	917.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011743, intron 3 of 21)	Lx7|LINE|L1	18889.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	28.0	14.0	13.0	406.0	33.0	9.5	12.5	21.0
Merged-chr1-136582782-3	chr1	136582685	136582885	+	855.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-42116.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	4.5	9.5	11.5	74.5	18.5	4.0	3.5	8.0
Merged-chr1-54500746-2	chr1	54500646	54500846	+	718.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163314, intron 19 of 26)	RLTR45|LTR|ERVK	56938.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	13.0	6.0	5.0	44.5	16.0	5.5	9.5	5.5
Merged-chr1-170863243-3	chr1	170863157	170863357	+	845.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 1 of 15)	L2|LINE|L2	4514.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	7.0	14.5	7.0	200.5	9.0	1.5	5.0	10.5
Merged-chr5-115333875-4	chr5	115333772	115333972	+	861.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025573)	TTS (NM_025573)	6695.0	NR_036616	108014.0	Mm.287826	NM_025573	ENSMUSG00000029538	Srsf9	25kDa|2610029M16Rik|SRp30c|Sfrs9	serine/arginine-rich splicing factor 9	protein-coding	14.5	15.0	23.0	302.0	22.0	5.0	12.5	20.5
Merged-chr19-11065401-4	chr19	11065314	11065514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-14848.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	64.5	46.5	47.0	646.5	66.0	19.5	32.0	35.0
Merged-chr10-40139843-4	chr10	40139766	40139966	+	892.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	2388.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	5.0	17.0	10.0	255.5	22.0	8.0	7.5	20.5
Merged-chr14-103513255-4	chr14	103513149	103513349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022886)	promoter-TSS (NM_022886)	-92.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	49.0	38.0	52.0	1070.5	35.5	19.0	34.0	22.0
Merged-chr1-131103928-4	chr1	131103842	131104042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6099.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	118.0	179.5	129.0	1633.0	246.5	73.0	142.5	83.5
Merged-chr9-67845230-4	chr9	67845128	67845328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177184, intron 1 of 84)	intron (NM_177184, intron 1 of 84)	4832.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	86.5	156.0	109.5	1324.0	170.0	42.5	57.5	90.0
Merged-chr1-152540004-4	chr1	152539903	152540103	+	899.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346119, exon 10 of 18)	exon (NM_001346119, exon 10 of 18)	85214.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	9.0	16.0	16.5	256.0	33.0	11.0	10.0	14.0
Merged-chr16-95839704-4	chr16	95839618	95839818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040485, intron 3 of 3)	MLT1A1|LTR|ERVL-MaLR	58995.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	51.5	61.0	61.5	937.0	108.0	40.0	74.0	45.5
Merged-chr17-5941538-4	chr17	5941397	5941597	+	951.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001113353, exon 1 of 27)	exon (NM_001113353, exon 1 of 27)	217.0	NM_001113352	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	16.5	23.0	10.0	222.0	38.5	16.5	18.0	14.0
Merged-chr5-34187224-4	chr5	34187164	34187364	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010753, intron 2 of 5)	CpG	446.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	14.5	14.5	22.0	226.5	27.5	14.5	16.0	27.0
Merged-chr6-67267569-3	chr6	67267460	67267660	+	991.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113565, intron 1 of 7)	CpG	581.0	NM_025814	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	14.5	15.5	36.0	254.0	28.0	10.5	15.5	42.0
Merged-chr10-118820068-4	chr10	118819975	118820175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48828.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	71.5	84.5	104.0	1529.5	89.5	31.5	74.5	37.0
Merged-chr11-120571282-4	chr11	120571162	120571362	+	950.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011032, intron 2 of 10)	intron (NM_011032, intron 2 of 10)	1991.0	NM_011032	18453.0	Mm.16660	NM_011032	ENSMUSG00000025130	P4hb	ERp59|PDI|Pdia1|Thbp	prolyl 4-hydroxylase, beta polypeptide	protein-coding	60.0	120.5	64.5	1103.5	29.0	7.5	13.5	6.5
Merged-chr6-72349813-4	chr6	72349730	72349930	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026696, exon 4 of 4)	3' UTR (NM_026696, exon 4 of 4)	2513.0	NM_026696	68364.0	Mm.52711	NM_026696	ENSMUSG00000058706	0610030E20Rik	1500031N04Rik|2810411C16Rik|AI461894	RIKEN cDNA 0610030E20 gene	protein-coding	19.5	27.0	27.0	283.0	12.0	11.0	16.0	18.5
Merged-chr6-52919207-3	chr6	52919114	52919314	+	819.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	-9594.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	5.5	1.0	13.5	50.5	23.5	6.5	9.0	4.5
Merged-chr10-80692388-4	chr10	80692311	80692511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	ID_B1|SINE|B4	9409.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	46.5	70.5	41.0	428.0	131.0	56.0	38.5	71.5
Merged-chr7-16820546-4	chr7	16820443	16820643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039878, intron 1 of 17)	intron (NM_001039878, intron 1 of 17)	-3811.0	NM_173430	243853.0	Mm.39703	NM_173430	ENSMUSG00000048920	Fkrp	A830029B19Rik|AI842067|AI847300|LGMD1I|MDC1C	fukutin related protein	protein-coding	47.5	35.5	46.0	658.5	105.0	23.5	40.5	47.0
Merged-chr19-21896557-4	chr19	21896488	21896688	+	843.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	118248.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	8.5	5.0	10.5	176.0	29.5	7.0	8.5	4.0
Merged-chr19-55556422-4	chr19	55556345	55556545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	145759.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	39.5	69.0	50.0	674.5	103.5	33.5	40.0	31.5
Merged-chr11-51911708-4	chr11	51911625	51911825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-54095.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	36.5	37.0	38.5	562.5	71.5	20.5	29.0	28.5
Merged-chr7-6331334-4	chr7	6331235	6331435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033249)	promoter-TSS (NM_001033249)	-901.0	NM_001033249	213011.0	Mm.333558	NM_001033249	ENSMUSG00000030443	Zfp583	BC056221|Znf583	zinc finger protein 583	protein-coding	57.5	61.5	70.5	796.5	70.0	54.0	74.0	64.0
Merged-chr6-31218456-4	chr6	31218375	31218575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110471)	promoter-TSS (NR_110471)	-1.0	NR_110470	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	46.0	82.0	40.0	748.5	178.5	61.5	76.5	69.5
Merged-chr2-118728528-4	chr2	118728426	118728626	+	940.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290790)	promoter-TSS (NM_001290790)	-88.0	NM_001290790	18796.0	Mm.215156	NM_177568	ENSMUSG00000040061	Plcb2	AI550384|B230205M18Rik|B230399N12	phospholipase C, beta 2	protein-coding	18.5	34.0	20.0	274.0	30.5	15.5	20.0	20.5
Merged-chr16-44986287-4	chr16	44986202	44986402	+	934.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	42624.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	18.5	13.5	16.5	285.5	52.0	15.0	22.0	16.0
Merged-chr3-59344314-4	chr3	59344221	59344421	+	804.857178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162884)	promoter-TSS (NM_001162884)	-65.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	13.0	9.0	5.0	102.5	14.5	8.5	5.0	11.5
Merged-chr15-12322988-4	chr15	12322891	12323091	+	665.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025673, intron 1 of 3)	intron (NM_025673, intron 1 of 3)	1495.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	13.0	8.5	7.5	94.5	18.5	4.0	12.0	3.0
Merged-chr5-124050582-4	chr5	124050482	124050682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18322.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	53.0	123.0	46.5	859.5	178.0	58.0	48.0	57.5
Merged-chr11-84354559-4	chr11	84354460	84354660	+	843.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133360, intron 43 of 53)	intron (NM_133360, intron 43 of 53)	158941.0	NM_019816	56321.0	Mm.257482	NM_019816	ENSMUSG00000018697	Aatf	4933415H02Rik|5830465M17Rik|Che-1|Trb	apoptosis antagonizing transcription factor	protein-coding	20.5	7.5	17.5	177.5	18.5	10.0	10.0	10.0
Merged-chr15-93276449-3	chr15	93276341	93276541	+	931.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1262.0	NM_001346785	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	8.0	11.0	20.0	222.0	16.0	8.5	6.0	16.0
Merged-chr13-34651114-4	chr13	34650989	34651189	+	890.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025831, intron 1 of 4)	intron (NM_025831, intron 1 of 4)	1592.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	9.5	20.5	20.5	348.5	25.0	8.0	10.0	12.5
Merged-chr9-63044295-4	chr9	63044209	63044409	+	904.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-63430.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	13.5	20.5	9.5	185.0	36.0	4.5	22.0	13.0
Merged-chr4-141512352-3	chr4	141512258	141512458	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	26239.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	0.0	0.5	1.0	0.0	129.0	50.0	61.5	61.0
Merged-chr7-28014132-3	chr7	28014039	28014239	+	909.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254951)	promoter-TSS (NM_001254951)	-24.0	NM_001254951	100043772.0	Mm.129275	NM_001100456	ENSMUSG00000096916	Zfp850	C130069I09Rik|Gm4636	zinc finger protein 850	protein-coding	7.0	10.0	10.5	92.5	9.5	6.5	7.5	16.0
Merged-chr14-50926724-4	chr14	50926637	50926837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310505)	TTS (NM_001310505)	1788.0	NM_009687	11792.0	Mm.203	NM_009687	ENSMUSG00000035960	Apex1	APE|Apex|HAP1|Ref-1	apurinic/apyrimidinic endonuclease 1	protein-coding	35.0	44.5	25.0	627.0	79.0	18.0	39.5	35.5
Merged-chr6-127146099-4	chr6	127146003	127146203	+	834.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009829, exon 3 of 5)	exon (NM_009829, exon 3 of 5)	-3286.0	NR_040274	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	16.0	19.5	8.0	138.5	17.0	6.5	17.5	7.0
Merged-chr10-122678774-4	chr10	122678629	122678829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106182)	promoter-TSS (NR_106182)	-33.0	NM_176919	319468.0	Mm.489703	NM_176919	ENSMUSG00000034613	Ppm1h	A430075L18Rik|ARHCL1|C030002B11Rik	protein phosphatase 1H (PP2C domain containing)	protein-coding	71.5	114.0	88.5	1124.5	177.5	74.0	97.5	88.5
Merged-chr13-43739830-3	chr13	43739714	43739914	+	883.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23023.0	NR_046022	622552.0	Mm.375036	NR_046022	ENSMUSG00000110016	Gm20751	-	predicted gene, 20751	ncRNA	19.5	15.0	11.0	125.5	21.0	9.0	15.5	13.0
Merged-chr13-112786387-4	chr13	112786291	112786491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-14386.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	51.5	138.0	79.5	806.0	275.5	70.0	90.5	86.5
Merged-chr5-65476029-4	chr5	65475932	65476132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	intron (NM_133697, intron 1 of 4)	16803.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	27.5	55.0	47.0	612.0	97.5	25.0	19.0	25.5
Merged-chr7-120981641-4	chr7	120981534	120981734	+	785.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028955)	promoter-TSS (NM_028955)	678.0	NM_007672	12585.0	Mm.1640	NM_007672	ENSMUSG00000030878	Cdr2	AA617262	cerebellar degeneration-related 2	protein-coding	5.0	8.0	2.0	58.0	14.5	7.0	11.0	11.0
Merged-chr16-75877403-4	chr16	75877306	75877506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 4 of 7)	intron (NM_023380, intron 4 of 7)	31860.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	143.5	214.0	143.5	2400.5	298.0	97.5	123.0	104.5
Merged-chr17-48270025-4	chr17	48269929	48270129	+	942.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033922, intron 4 of 5)	intron (NM_001033922, intron 4 of 5)	5734.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	20.0	29.0	21.5	429.0	47.0	17.0	22.5	23.5
Merged-chr13-52252855-4	chr13	52252766	52252966	+	871.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	156125.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	15.5	17.0	7.5	120.0	47.0	11.0	13.0	10.0
Merged-chr1-149833143-4	chr1	149833049	149833249	+	757.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 17 of 17)	intron (NM_008869, intron 17 of 17)	89290.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	7.0	12.0	9.0	152.0	41.0	13.5	22.5	16.5
Merged-chr19-43940194-4	chr19	43940085	43940285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028029)	promoter-TSS (NM_028029)	13.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	68.0	80.0	57.5	717.5	129.0	44.0	81.5	49.5
Merged-chr17-12999301-3	chr17	12999206	12999406	+	963.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-6767.0	NM_175394	60532.0	Mm.275521	NM_175394	ENSMUSG00000060475	Wtap	2810408K05Rik|9430038B09Rik	Wilms tumour 1-associating protein	protein-coding	4.0	6.5	6.5	74.5	42.5	17.0	16.0	13.5
Merged-chr5-102062008-2	chr5	102061908	102062108	+	660.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	7913.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	3.0	2.0	3.5	24.0	4.5	6.0	4.5	7.0
Merged-chr3-97158757-4	chr3	97158664	97158864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019800)	promoter-TSS (NM_019800)	-13.0	NM_019800	66659.0	Mm.101368	NM_019800	ENSMUSG00000028093	Acp6	5730559A09Rik|ACPL1|AU022842|mPACPL1	acid phosphatase 6, lysophosphatidic	protein-coding	101.0	168.5	102.0	1717.0	264.5	99.0	142.5	111.5
Merged-chr15-78942893-4	chr15	78942774	78942974	+	903.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133800)	TTS (NM_133800)	-4850.0	NM_001039156	110253.0	Mm.123714	NM_138579	ENSMUSG00000033088	Triobp	AI428493|EST478828|Tara|mKIAA1662	TRIO and F-actin binding protein	protein-coding	13.5	7.0	13.5	119.5	32.0	11.5	14.0	17.0
Merged-chr9-83555181-4	chr9	83555081	83555281	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	6843.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	8.0	16.5	6.5	200.0	93.5	19.0	37.0	27.5
Merged-chr19-23015675-1	chr19	23015575	23015775	+	790.333313	f0_c57.idr	Intergenic	Intergenic	-125551.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	4.5	6.5	5.5	89.0	37.5	11.5	17.0	6.5
Merged-chr13-111966759-3	chr13	111966671	111966871	+	888.644409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98835.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	9.5	14.0	12.5	100.5	0.0	0.0	2.5	1.5
Merged-chr7-16311705-4	chr7	16311658	16311858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 1 of 3)	intron (NM_133234, intron 1 of 3)	2175.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	43.0	46.5	46.5	410.5	61.5	21.0	35.0	27.0
Merged-chr4-128711605-4	chr4	128711490	128711690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 6 of 14)	intron (NM_018774, intron 6 of 14)	-15981.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	30.5	52.5	25.5	358.0	93.5	34.0	42.5	35.0
Merged-chr13-58402393-7	chr13	58402289	58402489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301343)	promoter-TSS (NM_001301343)	123.0	NR_153504	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	82.0	148.5	116.5	1002.0	172.5	128.5	78.5	104.5
Merged-chr10-40077798-4	chr10	40077703	40077903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 2 of 5)	intron (NM_001114332, intron 2 of 5)	-52535.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	58.5	74.5	35.0	959.5	95.0	33.0	46.5	33.5
Merged-chr11-34034965-4	chr11	34034860	34035060	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	MIRc|SINE|MIR	-11968.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	33.0	70.0	23.0	222.0	80.5	36.0	26.0	19.0
Merged-chr13-43531548-4	chr13	43531337	43531537	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28754.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	31.5	26.0	26.5	351.0	13.5	13.5	8.0	17.5
Merged-chr6-28864804-4	chr6	28864742	28864942	+	978.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 16 of 23)	intron (NM_019776, intron 16 of 23)	-33095.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	34.0	114.5	37.0	192.5	88.0	39.0	28.0	17.5
Merged-chr8-18699459-8	chr8	18699365	18699565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007426, intron 5 of 8)	L3|LINE|CR1	42097.0	NM_007426	11601.0	Mm.439874	NM_007426	ENSMUSG00000031465	Angpt2	Agpt2|Ang-2|Ang2	angiopoietin 2	protein-coding	25.5	21.0	34.5	294.5	27.5	13.5	7.0	18.0
Merged-chr11-114879834-4	chr11	114879736	114879936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10205.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	73.5	96.0	75.5	996.5	175.0	74.0	83.5	76.0
Merged-chr7-98489971-4	chr7	98489894	98490094	+	903.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4228.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	17.5	13.5	20.0	296.5	43.0	13.0	16.0	11.5
Merged-chr10-49049426-4	chr10	49049347	49049547	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	738490.0	NM_001358866	14806.0	Mm.185993	NM_010349	ENSMUSG00000056073	Grik2	AW124492|C130030K03Rik|GluK2|Glur-6|Glur6|Glurbeta2	glutamate receptor, ionotropic, kainate 2 (beta 2)	protein-coding	60.0	72.0	85.5	891.5	33.0	21.5	11.0	15.5
Merged-chr3-132169222-4	chr3	132169084	132169284	+	939.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	intron (NM_020265, intron 1 of 3)	83892.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	22.5	25.5	14.0	437.0	27.0	13.5	14.5	11.0
Merged-chr9-14842596-4	chr9	14842506	14842706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17604.0	NM_001310734	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	66.0	88.5	73.5	1090.0	115.0	45.5	89.0	52.0
Merged-chr19-42639730-4	chr19	42639609	42639809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26903.0	NM_053083	67573.0	Mm.178767	NM_053083	ENSMUSG00000025185	Loxl4	4833426I20Rik|Loxc	lysyl oxidase-like 4	protein-coding	58.5	58.5	39.5	662.5	98.0	27.5	35.0	43.0
Merged-chr9-40801130-7	chr9	40801027	40801227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031165)	promoter-TSS (NM_031165)	-146.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	335.5	617.5	342.5	4856.0	973.5	409.5	457.5	345.5
Merged-chr11-100571257-4	chr11	100571156	100571356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 11 of 11)	intron (NM_028918, intron 11 of 11)	-3683.0	NM_009923	12799.0	Mm.15711	NM_009923	ENSMUSG00000006782	Cnp	CNPase|Cnp-1|Cnp1	2',3'-cyclic nucleotide 3' phosphodiesterase	protein-coding	47.0	37.0	28.0	402.0	70.5	35.0	28.5	39.5
Merged-chr10-117893340-4	chr10	117893246	117893446	+	992.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32113.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	13.5	21.5	8.5	212.5	48.5	17.0	27.0	26.5
Merged-chr16-44811749-4	chr16	44811651	44811851	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8977.0	NM_207244	239849.0	Mm.445045	NM_207244	ENSMUSG00000062082	Cd200r4	F630107N04Rik|MCD200RLa	CD200 receptor 4	protein-coding	20.0	19.5	18.0	382.5	36.5	11.5	17.5	23.0
Merged-chr16-36669707-4	chr16	36669598	36669798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3621.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	20.5	33.0	46.5	625.0	74.5	24.0	31.0	19.0
Merged-chr7-81008510-2	chr7	81008410	81008610	+	741.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178707, intron 1 of 9)	BGLII_B|LTR|ERVK	14826.0	NM_178707	233410.0	Mm.29525	NM_178707	ENSMUSG00000005621	Zfp592	A730014M16Rik|Znf592	zinc finger protein 592	protein-coding	2.5	12.5	7.5	0.0	17.0	6.0	8.5	6.0
Merged-chr8-86873284-4	chr8	86873178	86873378	+	987.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	11980.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	28.5	35.0	24.5	296.5	80.5	29.0	22.5	22.0
Merged-chr14-63164975-3	chr14	63164834	63165034	+	824.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360211, intron 1 of 7)	intron (NM_001360211, intron 1 of 7)	12953.0	NM_001360211	14137.0	Mm.474432	NM_010191	ENSMUSG00000021273	Fdft1	SQS|SS	farnesyl diphosphate farnesyl transferase 1	protein-coding	8.5	13.0	1.0	120.0	18.5	5.5	11.5	5.5
Merged-chr2-80298547-2	chr2	80298447	80298647	+	737.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	6077.0	NM_177256	320769.0	Mm.60992	NM_177256	ENSMUSG00000050114	Prdx6b	1-cysPrx-P1|4930414C22Rik|Aop2-rs1|Prdx5-rs1|Prdx6-ps1|Prdx6-rs1|Prdx6-rs1-ps	peroxiredoxin 6B	protein-coding	5.0	5.5	4.5	132.5	17.0	5.0	5.5	5.5
Merged-chr2-132212414-3	chr2	132212289	132212489	+	901.4523929999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35399.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	2.5	21.0	8.5	117.5	15.0	11.0	6.0	8.5
Merged-chr14-77836925-4	chr14	77836793	77836993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 5 of 5)	intron (NM_025384, intron 5 of 5)	-37925.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	85.5	103.0	123.5	1860.5	206.5	103.5	107.0	92.0
Merged-chr2-122573811-2	chr2	122573691	122573891	+	802.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	37486.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	7.5	17.5	12.0	46.5	14.5	1.5	2.0	1.5
Merged-chr10-53596846-4	chr10	53596742	53596942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025541)	promoter-TSS (NM_025541)	-119.0	NM_025541	66403.0	Mm.272989	NM_025541	ENSMUSG00000019857	Asf1a	2310079C17Rik|C79052	anti-silencing function 1A histone chaperone	protein-coding	221.0	299.0	211.5	3683.0	484.5	167.5	282.0	229.5
Merged-chr8-61621470-3	chr8	61621386	61621586	+	991.761902	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	-30317.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	23.0	22.5	21.5	256.0	7.0	9.5	5.0	2.0
Merged-chr15-27675300-4	chr15	27675196	27675396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	6246.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	102.0	139.0	70.5	1532.5	207.5	74.0	65.0	89.0
Merged-chr5-35235615-3	chr5	35235515	35235715	+	686.266663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42951.0	NM_007418	11553.0	Mm.57205	NM_007418	ENSMUSG00000045318	Adra2c	Adra-2c|[a]2C|alpha2-C4|alpha2C	adrenergic receptor, alpha 2c	protein-coding	6.0	7.0	7.5	66.0	9.5	2.0	13.5	16.0
Merged-chr10-20673908-4	chr10	20673820	20674020	+	909.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	intron (NM_013875, intron 1 of 12)	51158.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	21.5	13.5	29.5	459.5	27.5	7.5	10.5	8.5
Merged-chr2-164910702-4	chr2	164910589	164910789	+	828.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_199027, exon 2 of 28)	exon (NM_199027, exon 2 of 28)	1061.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	4.5	9.5	4.5	92.5	24.5	5.5	7.5	14.5
Merged-chr19-47937665-4	chr19	47937538	47937738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163267)	promoter-TSS (NM_001163267)	-74.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	25.0	42.0	9.0	356.0	99.5	19.0	27.0	31.5
Merged-chr16-92801055-4	chr16	92800956	92801156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	25018.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	42.5	35.0	39.5	634.5	93.0	17.0	39.5	40.5
Merged-chr10-22334184-3	chr10	22334094	22334294	+	961.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	L1_Mus1|LINE|L1	27474.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	36.0	42.5	24.0	237.5	3.0	2.5	3.0	0.5
Merged-chr5-143465554-4	chr5	143465461	143465661	+	803.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 1 of 14)	ID_B1|SINE|B4	1068.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	6.0	16.0	9.5	90.5	23.5	7.5	8.0	10.5
Merged-chr15-81804881-1	chr15	81804781	81804981	+	577.0	f0_balb.idr	intron (NM_153484, intron 1 of 3)	intron (NM_153484, intron 1 of 3)	2208.0	NM_153484	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	4.5	10.0	9.0	85.5	22.0	9.0	6.5	9.5
Merged-chr13-113493193-4	chr13	113493094	113493294	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	9650.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	15.0	23.0	10.0	169.0	35.5	8.0	20.0	8.5
Merged-chr9-110742394-3	chr9	110742304	110742504	+	636.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001083936, exon 1 of 14)	5' UTR (NM_001083936, exon 1 of 14)	206.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	11.5	13.0	7.0	111.5	23.5	2.5	7.0	11.0
Merged-chr8-94923631-3	chr8	94923530	94923730	+	824.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145972)	promoter-TSS (NM_001145972)	-64.0	NM_001033468	382045.0	Mm.334726	NM_001033468	ENSMUSG00000061577	Adgrg5	Gm1109|Gpr114|PGR27	adhesion G protein-coupled receptor G5	protein-coding	11.5	19.5	10.5	175.0	12.5	5.0	4.5	3.5
Merged-chr8-106683545-4	chr8	106683423	106683623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173037, intron 1 of 17)	intron (NM_173037, intron 1 of 17)	455.0	NM_173037	272538.0	Mm.87151	NM_173037	ENSMUSG00000041949	Tango6	AW413431|E330010G16|Tmco7	transport and golgi organization 6	protein-coding	29.5	75.5	34.5	475.5	71.5	26.5	54.5	43.5
Merged-chr13-67728216-1	chr13	67728116	67728316	+	562.0	f0_c57.idr	intron (NM_145622, intron 1 of 3)	intron (NM_145622, intron 1 of 3)	957.0	NM_145622	235907.0	Mm.440123	NM_145622	ENSMUSG00000071281	Zfp65	KRAB5|Zfp71-rs1|pz114	zinc finger protein 65	protein-coding	4.5	3.5	2.0	62.5	19.0	4.5	5.0	8.5
Merged-chr14-55557242-4	chr14	55557197	55557397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2732.0	NR_037572	28199.0	Mm.11535	NM_133734	ENSMUSG00000022214	Dcaf11	0710008A13Rik|C76035|D14Ucla1|Dacf11|GLO14|Wdr23	DDB1 and CUL4 associated factor 11	protein-coding	103.5	98.5	77.5	1207.0	120.5	54.0	60.5	69.0
Merged-chr2-166710066-4	chr2	166709961	166710161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	3771.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	81.0	88.5	70.5	926.5	164.0	56.0	59.0	48.0
Merged-chr14-19416647-6	chr14	19416559	19416759	+	970.507935	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	185928.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	18.5	8.5	16.0	666.5	86.5	35.5	30.0	67.5
Merged-chr5-66041495-4	chr5	66041401	66041601	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 3 of 6)	Lx9|LINE|L1	-37216.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	15.5	62.5	42.5	165.0	47.0	30.0	35.5	11.5
Merged-chr6-28807218-3	chr6	28807117	28807317	+	798.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 16 of 23)	intron (NM_019776, intron 16 of 23)	24530.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	10.5	15.5	16.0	213.5	1.5	4.5	8.5	1.0
Merged-chr10-12884789-4	chr10	12884688	12884888	+	886.470825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-23053.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	10.0	12.0	24.0	328.0	29.5	10.0	28.0	8.5
Merged-chr7-74944882-4	chr7	74944783	74944983	+	873.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEd|LINE|L1	-85328.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	6.5	5.0	12.5	116.0	38.0	8.5	11.5	11.5
Merged-chr16-13117428-3	chr16	13117325	13117525	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015769, intron 2 of 10)	intron (NM_015769, intron 2 of 10)	7689.0	NM_015769	50505.0	Mm.287837	NM_015769	ENSMUSG00000022545	Ercc4	AI606920|Xpf	excision repair cross-complementing rodent repair deficiency, complementation group 4	protein-coding	4.0	6.0	4.0	140.5	21.5	12.0	6.5	8.0
Merged-chr11-63906724-4	chr11	63906675	63906875	+	920.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018805, intron 1 of 1)	intron (NM_018805, intron 1 of 1)	15509.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	14.0	16.0	10.5	151.5	26.5	13.0	14.5	24.5
Merged-chr2-4458484-4	chr2	4458389	4458589	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	57513.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	6.0	10.0	3.0	122.5	82.5	16.5	40.5	22.0
Merged-chr5-22856647-3	chr5	22856549	22856749	+	873.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	intron (NM_001359998, intron 1 of 3)	-109765.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	0.5	0.0	0.0	18.5	59.5	27.5	31.0	33.0
Merged-chr1-93071579-4	chr1	93071489	93071689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294150, intron 9 of 46)	intron (NM_001294150, intron 9 of 46)	10891.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	233.0	414.5	359.5	3693.5	592.0	272.0	252.5	236.5
Merged-chr5-139409602-4	chr5	139409472	139409672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177000, intron 1 of 1)	intron (NM_177000, intron 1 of 1)	3185.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	35.0	43.5	71.5	1499.5	72.5	31.0	28.5	63.0
Merged-chr12-111041358-4	chr12	111041239	111041439	+	977.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198023, intron 2 of 11)	intron (NM_198023, intron 2 of 11)	1541.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	12.0	27.0	9.5	180.0	37.0	18.0	13.0	24.0
Merged-chr2-167960455-4	chr2	167960355	167960555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	28128.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	26.0	30.5	25.0	503.0	34.5	7.5	11.0	7.0
Merged-chr18-42762128-3	chr18	42761937	42762137	+	949.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028392, intron 1 of 8)	intron (NM_028392, intron 1 of 8)	137469.0	NR_073583	72930.0	Mm.26134	NM_027531	ENSMUSG00000024500	Ppp2r2b	2900026H06Rik|6330404L05Rik|E130009M08Rik|PP2A-PR55B|PR55-BETA|SCA12	protein phosphatase 2, regulatory subunit B, beta	protein-coding	8.0	10.0	7.5	110.0	12.0	2.0	3.5	3.0
Merged-chr19-32180353-4	chr19	32180273	32180473	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	30640.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	36.5	34.5	26.0	361.0	47.0	14.5	17.0	23.5
Merged-chr6-83673635-4	chr6	83673548	83673748	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144943, intron 4 of 5)	MLT1I|LTR|ERVL-MaLR	4209.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	9.0	13.5	21.0	389.5	37.0	10.5	19.0	27.0
Merged-chr8-84436112-1	chr8	84436012	84436212	+	668.0	f0_balb.idr	intron (NM_001252060, intron 1 of 47)	intron (NM_001252060, intron 1 of 47)	20748.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	7.5	17.5	12.5	177.5	0.5	0.0	0.5	1.0
Merged-chr10-85871852-4	chr10	85871749	85871949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133993)	promoter-TSS (NM_133993)	18.0	NM_133993	103136.0	Mm.18834	NM_133993	ENSMUSG00000001785	Pwp1	2310058A11Rik|2610205J09Rik|AI098170|AL022879|AV083409|AW550690	PWP1 homolog, endonuclein	protein-coding	42.0	68.5	39.5	667.5	152.0	73.0	65.0	57.5
Merged-chr17-27827166-4	chr17	27827063	27827263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6621.0	NM_001271511	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	64.0	112.0	27.5	434.5	149.0	88.5	36.5	46.0
Merged-chr1-153914074-4	chr1	153913986	153914186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14157.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	67.0	69.0	82.5	1081.0	104.0	42.5	55.0	53.0
Merged-chr9-65293230-4	chr9	65293131	65293331	+	925.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1029.0	NM_011802	270166.0	Mm.30088	NM_011802	ENSMUSG00000015357	Clpx	AU014732|E330029I21	caseinolytic mitochondrial matrix peptidase chaperone subunit	protein-coding	29.5	35.5	6.0	116.5	29.5	12.5	6.0	4.0
Merged-chr1-107497027-4	chr1	107496937	107497137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14386.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	81.0	77.5	91.0	1374.5	128.0	36.5	68.0	63.0
Merged-chr2-31572654-4	chr2	31572542	31572742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033389)	promoter-TSS (NM_001033389)	-9.0	NM_001033389	320267.0	Mm.207261	NM_001033389	ENSMUSG00000026843	Fubp3	A330051M14Rik|AV006371|FBP3|Marta2	far upstream element (FUSE) binding protein 3	protein-coding	27.5	25.5	19.0	272.0	51.0	21.0	20.0	27.0
Merged-chr17-46524231-4	chr17	46524143	46524343	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081335, intron 16 of 40)	intron (NM_001081335, intron 16 of 40)	22145.0	NM_001081335	78309.0	Mm.329076	NM_001081335	ENSMUSG00000040327	Cul9	1810035I07Rik|Cul-9|Parc|mKIAA0708	cullin 9	protein-coding	25.0	29.5	24.5	460.5	64.0	16.0	18.5	23.0
Merged-chr10-59736210-4	chr10	59736121	59736321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359267, intron 3 of 11)	intron (NM_001359267, intron 3 of 11)	33658.0	NM_001291443	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	77.0	124.5	79.0	835.5	122.5	35.0	59.0	25.5
Merged-chr6-87923837-4	chr6	87923740	87923940	+	927.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173737, intron 4 of 6)	intron (NM_173737, intron 4 of 6)	9864.0	NM_173737	232210.0	Mm.246241	NM_173737	ENSMUSG00000030060	Hmces	8430410A17Rik|C85376	5-hydroxymethylcytosine (hmC) binding, ES cell specific	protein-coding	19.0	16.0	21.0	343.5	27.5	7.5	21.5	19.5
Merged-chr2-163642938-4	chr2	163642823	163643023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012032, intron 1 of 9)	RLTR4_Mm|LTR|ERV1	-1927.0	NR_028113	68386.0	Mm.410649	NR_028113	ENSMUSG00000058812	0610039K10Rik	-	RIKEN cDNA 0610039K10 gene	ncRNA	38.5	51.5	33.5	697.0	85.0	25.5	34.0	31.5
Merged-chr1-165642443-4	chr1	165642363	165642563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7922.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	66.5	110.5	111.0	764.5	143.5	71.5	66.5	77.5
Merged-chr9-124103432-4	chr9	124103310	124103510	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009915, intron 1 of 2)	intron (NM_009915, intron 1 of 2)	1227.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	6.5	14.0	8.0	146.0	20.5	12.0	8.0	14.0
Merged-chr17-47792672-4	chr17	47792581	47792781	+	833.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001161723)	TTS (NM_001161723)	6937.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	9.5	6.0	3.5	68.0	19.0	6.0	7.5	17.5
Merged-chr9-56962604-4	chr9	56962483	56962683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178374, intron 2 of 8)	intron (NM_178374, intron 2 of 8)	11659.0	NM_178374	66069.0	Mm.220984	NM_178374	ENSMUSG00000055334	Snupn	0610031A09Rik|Rnut1|Snupn1	snurportin 1	protein-coding	54.5	102.5	39.0	494.5	127.0	34.5	29.5	22.5
Merged-chr9-13545901-4	chr9	13545793	13545993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74096.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	71.0	107.5	97.5	1458.0	149.5	46.0	64.0	51.0
Merged-chr7-128399704-4	chr7	128399602	128399802	+	818.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	MTC|LTR|ERVL-MaLR	18470.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	11.0	22.0	12.5	162.5	32.0	10.0	9.0	19.0
Merged-chr13-98871374-4	chr13	98871151	98871351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 6 of 23)	PB1D9|SINE|Alu	19791.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	6.0	4.0	12.0	129.5	30.0	20.0	19.0	16.0
Merged-chr10-70257323-4	chr10	70257205	70257405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025807, intron 2 of 5)	intron (NM_025807, intron 2 of 5)	12029.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	31.0	53.5	33.0	350.5	58.5	31.5	21.0	20.0
Merged-chr13-21172811-3	chr13	21172709	21172909	+	962.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7122.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	15.0	11.0	10.0	144.0	8.5	0.5	4.5	9.5
Merged-chr12-59133209-2	chr12	59133109	59133309	+	948.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001165253, intron 1 of 22)	B3A|SINE|B2	1756.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	5.0	7.5	8.0	67.5	22.5	11.5	5.0	7.5
Merged-chr5-105732668-4	chr5	105732583	105732783	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122768, intron 2 of 2)	intron (NM_001122768, intron 2 of 2)	31873.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	22.0	30.0	25.0	296.5	42.5	11.0	25.5	16.5
Merged-chr13-89740945-4	chr13	89740831	89741031	+	949.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081249, intron 1 of 14)	intron (NM_001081249, intron 1 of 14)	1581.0	NM_001081249	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	6.5	28.0	13.5	99.5	40.5	18.5	20.0	20.5
Merged-chr18-67324521-4	chr18	67324419	67324619	+	959.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033214, exon 2 of 4)	non-coding (NR_033214, exon 2 of 4)	-19045.0	NM_007702	12683.0	Mm.449	NM_007702	ENSMUSG00000024526	Cidea	AW212747	cell death-inducing DNA fragmentation factor, alpha subunit-like effector A	protein-coding	26.5	22.5	11.5	405.0	63.5	22.5	29.0	20.5
Merged-chr11-114903302-6	chr11	114903225	114903425	+	968.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13284.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	12.0	17.5	15.0	266.5	19.0	14.5	7.5	11.0
Merged-chr11-55204889-3	chr11	55204757	55204957	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153139, intron 1 of 10)	intron (NM_153139, intron 1 of 10)	517.0	NM_153139	215335.0	Mm.35732	NM_153139	ENSMUSG00000020261	Slc36a1	5830411H19Rik|AI839897|Pat1	solute carrier family 36 (proton/amino acid symporter), member 1	protein-coding	2.5	12.5	5.0	77.5	5.0	6.5	10.5	23.5
Merged-chr6-129153956-3	chr6	129153846	129154046	+	725.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-26669.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	0.0	0.0	0.0	0.0	20.5	11.0	17.5	10.5
Merged-chr8-68735191-3	chr8	68735123	68735323	+	849.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252623)	promoter-TSS (NM_001252623)	-77.0	NM_172753	234356.0	Mm.334569	NM_172753	ENSMUSG00000036356	Csgalnact1	4732435N03Rik|CSGalNAcT-1	chondroitin sulfate N-acetylgalactosaminyltransferase 1	protein-coding	11.5	7.5	10.0	109.5	4.5	3.0	6.5	10.5
Merged-chr11-3913362-3	chr11	3913238	3913438	+	907.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153142, exon 1 of 2)	5' UTR (NM_153142, exon 1 of 2)	1326.0	NM_153142	103710.0	Mm.171514	NM_153142	ENSMUSG00000048807	Slc35e4	A330108F03Rik|AI414849|AI536442	solute carrier family 35, member E4	protein-coding	7.5	11.5	13.0	93.5	13.0	9.5	9.0	8.5
Merged-chr19-59342062-2	chr19	59341972	59342172	+	566.0	f0_balb.idr|f0_c57.idr	intron (NM_001033222, intron 1 of 4)	intron (NM_001033222, intron 1 of 4)	3708.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	7.0	7.0	5.5	95.0	26.0	0.5	10.0	4.5
Merged-chr14-50834182-4	chr14	50834094	50834294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 41 of 54)	intron (NM_009351, intron 41 of 54)	26278.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	216.0	255.0	208.5	3188.5	604.0	204.0	284.0	220.5
Merged-chr17-65656971-3	chr17	65656879	65657079	+	809.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 6 of 6)	intron (NM_133685, intron 6 of 6)	-14775.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	8.0	5.0	14.5	172.5	10.5	7.0	5.5	7.0
Merged-chr18-66477445-6	chr18	66477298	66477498	+	884.319458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	18794.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	2.5	4.5	6.0	86.0	18.5	5.0	5.5	7.0
Merged-chr18-73812797-4	chr18	73812688	73812888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145494, intron 1 of 15)	B4A|SINE|B4	2604.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	51.0	65.5	94.5	1271.0	50.5	20.5	29.5	39.0
Merged-chr5-139015198-4	chr5	139015113	139015313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20260.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	133.0	155.0	121.5	1734.5	233.5	110.5	92.0	86.0
Merged-chr12-75818278-4	chr12	75818195	75818395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005510)	promoter-TSS (NM_001005510)	-23.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	85.0	107.0	70.5	1142.5	204.0	63.0	104.5	86.5
Merged-chr4-32570157-4	chr4	32570045	32570245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_026843, intron 1 of 4)	intron (NR_026843, intron 1 of 4)	1517.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	142.0	209.0	200.0	2765.5	327.0	85.0	195.5	168.0
Merged-chr1-33912756-4	chr1	33912654	33912854	+	971.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 2 of 102)	intron (NM_001276764, intron 2 of 102)	4529.0	NM_001276764	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	17.5	25.5	16.5	322.0	56.5	27.0	22.0	16.0
Merged-chr13-103974180-3	chr13	103974085	103974285	+	679.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53599.0	NM_001005868	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	8.0	10.5	17.5	137.0	23.0	19.5	10.5	11.5
Merged-chr1-44042358-4	chr1	44042239	44042439	+	648.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-22333.0	NM_001013799	433294.0	Mm.123621	NM_001013799	ENSMUSG00000047343	Mettl21c	A530098C11Rik	methyltransferase like 21C	protein-coding	13.0	13.0	5.5	81.0	18.0	7.0	7.0	9.5
Merged-chr12-84614201-4	chr12	84614124	84614324	+	983.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008992, intron 3 of 18)	intron (NM_008992, intron 3 of 18)	3242.0	NM_008992	19300.0	Mm.229109	NM_008992	ENSMUSG00000021240	Abcd4	P69r|P70R|Pxmp1l	ATP-binding cassette, sub-family D (ALD), member 4	protein-coding	28.5	51.5	17.5	393.0	55.5	11.5	17.0	19.0
Merged-chr10-78069271-4	chr10	78069190	78069390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015790)	promoter-TSS (NM_015790)	-78.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	32.0	42.5	35.0	427.5	96.5	24.0	41.5	38.5
Merged-chr10-128194774-2	chr10	128194751	128194951	+	999.25	f1_balb.idr|f1_c57bl6.idr	exon (NM_001033264, exon 1 of 18)	exon (NM_001033264, exon 1 of 18)	216.0	NM_001285779	216456.0	Mm.30102	NM_001033264	ENSMUSG00000044005	Gls2	A330074B06Rik|AI195532|GA|GLS|Lga	glutaminase 2 (liver, mitochondrial)	protein-coding	7.5	21.5	7.5	129.0	21.5	8.5	6.5	11.5
Merged-chr11-116618548-3	chr11	116618448	116618648	+	794.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	5704.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	13.0	5.5	5.5	176.5	18.5	7.0	6.5	7.5
Merged-chr8-35826486-4	chr8	35826421	35826621	+	780.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027998)	promoter-TSS (NM_027998)	38.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	10.5	9.0	12.5	80.5	31.0	2.0	19.0	16.5
Merged-chr16-87584876-3	chr16	87584744	87584944	+	870.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144854, intron 4 of 4)	intron (NM_144854, intron 4 of 4)	31514.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	8.0	10.5	7.0	88.5	8.5	1.0	3.5	6.0
Merged-chr5-150665035-3	chr5	150664967	150665167	+	865.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362416, intron 1 of 7)	intron (NM_001362416, intron 1 of 7)	545.0	NM_001362416	381695.0	Mm.246934	NM_201369	ENSMUSG00000029655	N4bp2l2	2700092H06Rik|Gm38758|zag1	NEDD4 binding protein 2-like 2	protein-coding	9.0	16.5	22.0	174.0	26.5	18.5	15.0	28.0
Merged-chr15-89429481-4	chr15	89429377	89429577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_004843, exon 1 of 27)	non-coding (NR_004843, exon 1 of 27)	450.0	NR_037154	12651.0	Mm.485045	NM_007692	ENSMUSG00000022617	Chkb	Chetk|Chkl|Ck|Ck/Ek|Ck/Ek-beta|Ckb|Ckekb|Ek	choline kinase beta	protein-coding	147.0	190.5	115.5	2004.5	318.0	118.0	198.0	117.5
Merged-chr6-122870120-4	chr6	122870028	122870228	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4429.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	26.5	25.0	30.0	305.0	41.5	18.0	12.5	19.0
Merged-chr8-57574621-4	chr8	57574528	57574728	+	947.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 2 of 11)	intron (NM_001167981, intron 2 of 11)	62785.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	13.0	26.5	16.5	213.0	52.5	18.5	36.5	13.5
Merged-chr4-136878834-4	chr4	136878718	136878918	+	808.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	7359.0	NM_009777	12260.0	Mm.2570	NM_009777	ENSMUSG00000036905	C1qb	-	complement component 1, q subcomponent, beta polypeptide	protein-coding	11.5	21.0	12.0	129.5	40.0	7.0	11.0	10.0
Merged-chr17-47610973-3	chr17	47610886	47611086	+	938.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020048)	promoter-TSS (NM_020048)	506.0	NM_016859	53414.0	Mm.472101	NM_016859	ENSMUSG00000023988	Bysl	Bys|Enp1	bystin-like	protein-coding	10.0	17.0	10.0	89.5	13.5	5.5	11.5	9.5
Merged-chr10-59326820-4	chr10	59326726	59326926	+	811.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316370, intron 1 of 13)	intron (NM_001316370, intron 1 of 13)	3530.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	13.0	14.5	8.0	150.0	24.5	12.5	6.5	0.5
Merged-chr4-128724362-4	chr4	128724279	128724479	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 9 of 14)	intron (NM_018774, intron 9 of 14)	-3192.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	34.0	31.5	48.0	934.0	61.0	14.5	44.0	38.0
Merged-chr1-144243171-2	chr1	144243071	144243271	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5933.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	18.5	20.5	23.5	182.5	32.0	14.5	14.0	7.0
Merged-chr3-131698328-4	chr3	131698238	131698438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	132306.0	NM_001289477	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	203.5	251.0	188.0	2649.0	473.5	193.0	189.5	171.0
Merged-chr1-94058503-4	chr1	94058399	94058599	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-5946.0	NM_008798	18566.0	Mm.5024	NM_008798	ENSMUSG00000026285	Pdcd1	Ly101|PD-1|Pdc1	programmed cell death 1	protein-coding	37.0	25.5	63.5	402.0	13.5	11.5	15.5	25.0
Merged-chr2-128747689-4	chr2	128747607	128747807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	48792.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	99.5	186.0	180.5	1550.0	191.0	92.5	82.5	98.0
Merged-chr11-4535674-2	chr11	4535574	4535774	+	634.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 1 of 17)	intron (NM_028860, intron 1 of 17)	59141.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	6.0	8.0	5.0	104.0	9.0	1.5	5.0	7.0
Merged-chr12-84417294-4	chr12	84417189	84417389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025525)	promoter-TSS (NM_025525)	89.0	NM_025525	66381.0	Mm.24846	NM_025525	ENSMUSG00000098134	Rnf113a2	2310020H19Rik|AI426758|Rnf113a	ring finger protein 113A2	protein-coding	32.0	44.5	52.5	349.5	133.5	39.0	32.5	38.5
Merged-chr16-91855917-4	chr16	91855808	91856008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 23 of 28)	intron (NM_001110275, intron 23 of 28)	75722.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	30.5	27.0	22.0	437.0	50.0	22.5	20.0	20.5
Merged-chr4-48046769-3	chr4	48046671	48046871	+	851.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015743, intron 1 of 7)	intron (NM_015743, intron 1 of 7)	1466.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	6.5	5.5	6.0	77.0	7.5	5.0	3.5	13.0
Merged-chr1-161512372-4	chr1	161512277	161512477	+	886.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	17720.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	21.5	18.0	12.5	355.0	19.5	14.5	23.0	12.0
Merged-chr4-88720468-4	chr4	88720373	88720573	+	904.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172871, exon 1 of 1)	exon (NM_172871, exon 1 of 1)	2035.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	16.5	16.5	8.0	359.0	11.5	6.5	18.0	13.0
Merged-chr1-165189027-4	chr1	165188974	165189174	+	684.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151711, intron 1 of 6)	intron (NR_151711, intron 1 of 6)	5359.0	NM_145512	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	4.5	17.0	4.0	103.0	22.0	7.0	13.5	11.5
Merged-chr7-132804185-4	chr7	132804087	132804287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	9009.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	83.5	121.0	85.5	1538.5	173.5	57.0	105.5	62.0
Merged-chr1-60662667-5	chr1	60662543	60662743	+	855.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83745.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	19.5	14.0	30.0	169.0	17.5	3.5	5.0	6.5
Merged-chr14-73141282-2	chr14	73141182	73141382	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1228.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	6.5	6.5	8.0	46.5	18.5	5.5	2.5	9.0
Merged-chr5-146811223-3	chr5	146811126	146811326	+	837.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16270.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	5.0	7.0	11.5	101.5	17.5	12.0	11.5	16.5
Merged-chr12-3236859-4	chr12	3236751	3236951	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015551, intron 1 of 6)	intron (NR_015551, intron 1 of 6)	1060.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	11.5	21.5	6.0	167.0	45.0	4.0	17.0	31.5
Merged-chr4-32161040-4	chr4	32160921	32161121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	196914.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	36.5	67.5	79.5	970.5	78.5	27.0	55.5	71.5
Merged-chr11-5955743-4	chr11	5955663	5955863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019661)	promoter-TSS (NM_019661)	5.0	NM_019661	56418.0	Mm.294821	NM_019661	ENSMUSG00000002741	Ykt6	0610042I15Rik|1810013M05Rik|AW105923	YKT6 v-SNARE homolog (S. cerevisiae)	protein-coding	109.0	109.5	91.5	1384.0	232.5	75.0	126.5	84.5
Merged-chr17-56134719-4	chr17	56134603	56134803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013662)	promoter-TSS (NM_013662)	-851.0	NM_013662	20359.0	Mm.8029	NM_013662	ENSMUSG00000001227	Sema6b	Sema|Seman|VIb|semaZ	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B	protein-coding	22.0	25.5	39.5	284.0	44.5	23.0	22.0	27.0
Merged-chr15-38301780-3	chr15	38301749	38301949	+	922.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1138.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	10.5	16.0	16.0	138.5	22.0	9.5	17.5	15.5
Merged-chr1-185203300-4	chr1	185203213	185203413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163754)	promoter-TSS (NM_001163754)	-855.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	20.0	24.5	22.0	367.0	89.5	31.5	36.5	51.5
Merged-chr12-12300348-4	chr12	12300240	12300440	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	38201.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	16.0	41.0	22.0	222.0	59.0	18.0	18.0	29.0
Merged-chr11-19925234-2	chr11	19925134	19925334	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	CpG	792.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	27.0	75.0	46.0	576.5	129.0	47.0	58.5	47.0
Merged-chr17-34027363-4	chr17	34027291	34027491	+	967.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008202)	TTS (NM_008202)	664.0	NM_013543	14979.0	Mm.275452	NM_013543	ENSMUSG00000073422	H2-Ke6	D17H6S112E|H-2Ke6|Hsd17b8|Ke-6|Ke6|Ring2	H2-K region expressed gene 6	protein-coding	20.0	19.5	9.5	196.5	85.5	31.0	24.0	22.5
Merged-chr2-11637288-4	chr2	11637189	11637389	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5503.0	NM_008367	16184.0	Mm.915	NM_008367	ENSMUSG00000026770	Il2ra	CD25|Il2r|Ly-43	interleukin 2 receptor, alpha chain	protein-coding	20.5	15.5	18.0	372.5	51.5	16.5	32.0	20.0
Merged-chr15-96684466-5	chr15	96684337	96684537	+	778.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15291.0	NM_001355633	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	12.5	12.5	4.5	81.5	3.5	3.5	9.0	5.0
Merged-chr3-65387089-3	chr3	65386990	65387190	+	824.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026155, intron 3 of 4)	Lx9|LINE|L1	5463.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	5.5	11.5	7.0	104.0	9.0	2.0	3.0	7.0
Merged-chr14-43830613-4	chr14	43830511	43830711	+	788.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-10972.0	NM_007894	13586.0	Mm.86948	NM_007894	ENSMUSG00000072601	Ear1	EAR-1|ECP 1|Raf1	eosinophil-associated, ribonuclease A family, member 1	protein-coding	12.5	10.0	9.5	26.0	22.5	13.5	17.0	8.5
Merged-chr17-12030964-4	chr17	12030838	12031038	+	736.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016694, intron 10 of 11)	intron (NM_016694, intron 10 of 11)	-88346.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	10.5	12.0	4.5	147.5	22.5	7.0	11.5	3.5
Merged-chr19-45749269-5	chr19	45749124	45749324	+	988.313416	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008723, intron 1 of 5)	CpG-7591	339.0	NM_008723	18150.0	Mm.1406	NM_008723	ENSMUSG00000056209	Npm3	Nub1	nucleoplasmin 3	protein-coding	7.5	7.5	11.5	65.0	13.5	11.5	11.0	8.0
Merged-chr1-64925892-4	chr1	64925811	64926011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	intron (NM_001039493, intron 2 of 7)	30913.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	161.5	245.5	149.0	2721.0	322.5	95.5	127.0	130.5
Merged-chr9-5333619-3	chr9	5333493	5333693	+	767.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007609, intron 7 of 8)	ORR1A4-int|LTR|ERVL-MaLR	-11883.0	NM_009808	12364.0	Mm.42163	NM_009808	ENSMUSG00000025887	Casp12	-	caspase 12	protein-coding	7.5	9.5	7.5	137.5	32.0	5.0	8.5	13.5
Merged-chr11-98606913-2	chr11	98606813	98607013	+	656.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8622.0	NM_001195544	192852.0	Mm.342821	NM_001195544	ENSMUSG00000086545	Lrrc3c	Gm12	leucine rich repeat containing 3C	protein-coding	2.5	3.0	0.0	37.0	5.0	8.0	4.5	11.0
Merged-chr1-34859738-4	chr1	34859616	34859816	+	747.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	intron (NM_001357425, intron 2 of 8)	9727.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	8.0	4.0	9.0	89.5	15.5	12.0	13.0	10.0
Merged-chr6-6004973-3	chr6	6004901	6005101	+	881.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010063, intron 14 of 16)	intron (NM_010063, intron 14 of 16)	-27608.0	NR_040255	72249.0	Mm.443268	NR_040255	ENSMUSG00000085416	1700019G24Rik	-	RIKEN cDNA 1700019G24 gene	ncRNA	8.5	13.0	14.5	119.0	7.0	3.5	5.0	7.0
Merged-chr11-44410686-4	chr11	44410584	44410784	+	747.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303244, intron 5 of 7)	intron (NM_001303244, intron 5 of 7)	10621.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	0.0	11.0	11.5	96.0	38.0	9.0	19.5	13.0
Merged-chr18-36708978-4	chr18	36708871	36709071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER4B-int|LTR|ERV1	-13046.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	179.0	258.0	173.5	1963.0	273.5	116.0	137.5	117.5
Merged-chr5-81020052-7	chr5	81019982	81020182	+	931.371399	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347367)	promoter-TSS (NM_001347367)	-489.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	17.5	13.5	8.0	137.5	29.5	10.5	20.5	16.5
Merged-chr11-99187001-4	chr11	99186896	99187096	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31919.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	43.5	110.0	22.5	261.0	154.5	49.5	56.0	19.5
Merged-chr11-96896055-3	chr11	96895955	96896155	+	923.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20459.0	NM_001308183	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	3.5	2.0	0.0	49.5	50.0	24.5	22.5	26.5
Merged-chr3-83823962-4	chr3	83823862	83824062	+	884.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1VL4|LINE|L1	17646.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	16.5	15.5	14.0	197.0	36.5	9.0	11.0	13.5
Merged-chr1-7398061-4	chr1	7397957	7398157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	309137.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	413.0	500.5	419.0	5725.5	849.5	316.5	385.0	313.0
Merged-chr1-46894616-4	chr1	46894506	46894706	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356417, intron 1 of 10)	ORR1D2|LTR|ERVL-MaLR	31170.0	NM_001356417	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	21.0	23.0	27.0	476.0	68.0	16.0	33.5	18.0
Merged-chr14-25832473-4	chr14	25832381	25832581	+	939.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9674.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	15.0	24.0	28.5	249.5	25.0	10.0	14.0	16.0
Merged-chr8-73886141-3	chr8	73886046	73886246	+	864.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-532606.0	NM_010687	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	30.5	33.0	22.5	753.5	5.0	1.5	0.0	2.0
Merged-chr3-87566724-2	chr3	87566618	87566818	+	837.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	41140.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	1.0	0.0	2.0	48.0	33.0	10.5	6.5	17.5
Merged-chr1-155416308-4	chr1	155416216	155416416	+	865.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 1 of 14)	intron (NM_011273, intron 1 of 14)	1128.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	20.5	14.0	9.5	219.5	25.0	19.0	10.0	21.5
Merged-chr4-140684693-4	chr4	140684535	140684735	+	859.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16838.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	2.5	17.5	11.0	80.0	17.0	4.5	15.5	11.5
Merged-chr7-139949981-4	chr7	139949888	139950088	+	761.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6132.0	NM_009482	22286.0	Mm.10205	NM_009482	ENSMUSG00000047751	Utf1	AI505934	undifferentiated embryonic cell transcription factor 1	protein-coding	3.5	12.5	8.0	109.5	34.0	10.0	8.0	13.5
Merged-chr5-103692279-4	chr5	103692204	103692404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-36572.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	88.5	113.5	81.5	1262.5	250.0	102.0	157.0	124.5
Merged-chr11-60114412-3	chr11	60114302	60114502	+	813.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009021, intron 1 of 5)	intron (NM_009021, intron 1 of 5)	9389.0	NM_009021	19377.0	Mm.296366	NM_009021	ENSMUSG00000062115	Rai1	Gt1	retinoic acid induced 1	protein-coding	10.5	11.0	4.5	76.0	6.0	4.0	0.5	4.5
Merged-chr7-117487054-4	chr7	117486958	117487158	+	992.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 2 of 11)	MIR|SINE|MIR	106079.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	22.5	34.0	42.0	403.5	44.5	13.5	20.5	23.5
Merged-chr11-50369632-4	chr11	50369552	50369752	+	955.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8067.0	NM_021510	59013.0	Mm.21740	NM_021510	ENSMUSG00000007850	Hnrnph1	AI642080|E430005G16Rik|Hnrnph|Hnrph1	heterogeneous nuclear ribonucleoprotein H1	protein-coding	17.5	31.0	15.5	351.5	26.5	17.0	18.0	16.0
Merged-chr7-132316430-5	chr7	132316450	132316650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028578, exon 1 of 1)	non-coding (NR_028578, exon 1 of 1)	476.0	NM_001360768	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	23.0	34.0	31.0	320.5	79.5	18.0	31.5	45.0
Merged-chr5-77266135-7	chr5	77266030	77266230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011263, intron 1 of 3)	CpG	636.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	24.5	20.0	47.5	447.5	75.5	39.5	25.5	39.0
Merged-chr3-146657644-4	chr3	146657533	146657733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6316.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	235.0	241.0	262.0	3811.5	340.0	177.0	217.0	166.5
Merged-chr7-3957606-3	chr7	3957506	3957706	+	824.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42105.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	12.5	20.0	15.5	213.0	15.0	13.5	8.0	4.0
Merged-chr1-173962858-2	chr1	173962783	173962983	+	721.333374	f0_balb.idr|f1_balb.idr	intron (NM_008327, intron 6 of 6)	intron (NM_008327, intron 6 of 6)	19961.0	NM_008327	26388.0	Mm.218770	NM_008327	ENSMUSG00000026535	Ifi202b	Ifbip-1|Ifi202|Ifi202a|p202	interferon activated gene 202B	protein-coding	11.0	12.5	6.0	202.5	0.0	1.0	0.5	1.5
Merged-chr11-17166834-4	chr11	17166734	17166934	+	827.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 1 of 5)	intron (NM_024459, intron 1 of 5)	7536.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	7.0	10.0	10.5	161.0	24.0	9.5	6.5	11.5
Merged-chr12-84061100-3	chr12	84061006	84061206	+	786.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001346701)	TTS (NM_001346701)	-8218.0	NM_001347417	217698.0	Mm.484019	NM_145444	ENSMUSG00000042540	Acot5	BC016076|PTE-Ic	acyl-CoA thioesterase 5	protein-coding	7.5	7.5	6.0	127.0	11.0	13.5	11.5	7.5
Merged-chr5-147418944-4	chr5	147418838	147419038	+	856.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033625, intron 1 of 2)	intron (NR_033625, intron 1 of 2)	318.0	NR_033625	100039805.0	Mm.394705	NR_033625	ENSMUSG00000106820	D5Ertd605e	Gm2433	DNA segment, Chr 5, ERATO Doi 605, expressed	ncRNA	8.5	19.0	5.5	203.5	19.0	4.5	8.5	11.5
Merged-chr4-59864086-4	chr4	59863994	59864194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 2 of 8)	intron (NM_172468, intron 2 of 8)	50962.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	75.5	84.0	88.5	1470.5	137.5	50.0	87.0	93.0
Merged-chr10-93564811-3	chr10	93564719	93564919	+	943.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359749, intron 4 of 13)	intron (NM_001359749, intron 4 of 13)	9938.0	NM_001359749	237465.0	Mm.477086	NM_175488	ENSMUSG00000036168	Ccdc38	4933417K05Rik	coiled-coil domain containing 38	protein-coding	23.5	38.0	21.5	442.0	20.0	2.0	10.0	7.5
Merged-chr13-19395304-4	chr13	19395199	19395399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347485, intron 1 of 7)	(A)n|Simple_repeat|Simple_repeat	514.0	NM_024270	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	45.0	65.0	21.0	655.5	129.5	49.0	53.0	55.5
Merged-chr14-50944133-3	chr14	50944035	50944235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	promoter-TSS (NM_013632)	promoter-TSS (NM_013632)	-168.0	NM_013632	18950.0	Mm.17932	NM_013632	ENSMUSG00000115338	Pnp	AL024301|AU015798|Np|Np-1|Np-2|Pnp1	purine-nucleoside phosphorylase	protein-coding	49.0	82.0	63.0	527.0	101.0	48.0	54.5	63.0
Merged-chr11-101972292-4	chr11	101972206	101972406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028207, exon 3 of 3)	3' UTR (NM_028207, exon 3 of 3)	-5291.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	73.5	101.0	55.0	774.0	149.0	93.0	66.0	75.5
Merged-chr18-64958314-4	chr18	64958237	64958437	+	976.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-65190.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	13.5	16.0	11.0	212.5	87.5	26.0	31.5	26.0
Merged-chr1-36231085-4	chr1	36230976	36231176	+	920.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198899, intron 2 of 40)	intron (NM_198899, intron 2 of 40)	13226.0	NM_198899	320011.0	Mm.261022	NM_198899	ENSMUSG00000037470	Uggt1	0910001L17Rik|A930007H10Rik|AA589501|AI414429|AI448372|C820010P03Rik|GT|UGT1|Ugcgl1	UDP-glucose glycoprotein glucosyltransferase 1	protein-coding	13.0	19.0	13.0	299.5	37.0	10.0	20.5	18.0
Merged-chr17-67448236-4	chr17	67448153	67448353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93762.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	25.5	31.5	41.0	579.0	51.5	18.5	24.0	27.5
Merged-chr15-59951375-2	chr15	59951275	59951475	+	844.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65243.0	NM_027668	71088.0	Mm.425950	NM_027668	ENSMUSG00000071749	4933412E24Rik	-	RIKEN cDNA 4933412E24 gene	protein-coding	1.5	4.0	1.5	97.5	10.0	6.5	4.5	6.5
Merged-chr4-55798222-4	chr4	55798119	55798319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-265744.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	45.5	73.0	54.5	1173.0	133.0	37.0	48.5	52.5
Merged-chr8-124020918-2	chr8	124020818	124021018	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357315, exon 1 of 5)	5' UTR (NM_001357315, exon 1 of 5)	138.0	NM_001357315	102162.0	Mm.291777	NM_133966	ENSMUSG00000038697	Taf5l	1110005N04Rik|AI849020	TATA-box binding protein associated factor 5 like	protein-coding	19.0	23.5	10.5	167.0	50.5	16.0	22.5	16.5
Merged-chr6-124480471-4	chr6	124480371	124480571	+	846.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-12642.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	6.0	18.5	5.0	105.0	27.0	18.0	12.0	13.5
Merged-chr5-64344487-4	chr5	64344393	64344593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 17 of 18)	intron (NM_001289514, intron 17 of 18)	114136.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	92.5	125.5	83.0	1298.0	252.5	114.5	148.0	93.5
Merged-chr14-77864279-4	chr14	77864167	77864367	+	932.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 1 of 5)	intron (NM_025384, intron 1 of 5)	10650.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	17.5	20.0	14.0	286.0	28.5	8.0	15.5	11.0
Merged-chr8-83989444-4	chr8	83989350	83989550	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008854, intron 5 of 9)	intron (NM_008854, intron 5 of 9)	-8222.0	NM_001081415	666704.0	Mm.298091	NM_001081415	ENSMUSG00000079003	Samd1	AA589507	sterile alpha motif domain containing 1	protein-coding	31.0	23.5	21.0	345.5	58.5	19.5	19.0	21.0
Merged-chr4-107731088-1	chr4	107730988	107731188	+	837.0	f0_balb.idr	Intergenic	Intergenic	-46926.0	NM_019872	56296.0	Mm.141324	NM_019872	ENSMUSG00000028610	Dmrtb1	Dmrt6|Prp13	DMRT-like family B with proline-rich C-terminal, 1	protein-coding	5.5	9.5	12.5	138.0	0.5	2.0	0.0	4.0
Merged-chr19-6018320-4	chr19	6018225	6018425	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045783, exon 5 of 5)	non-coding (NR_045783, exon 5 of 5)	-2500.0	NM_001110504	12333.0	Mm.6221	NM_007600	ENSMUSG00000024942	Capn1	Capa-1|Capa1|mu-calpin	calpain 1	protein-coding	15.0	36.0	3.5	149.5	45.5	19.5	16.5	9.5
Merged-chr1-152536679-4	chr1	152536557	152536757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 11 of 17)	intron (NM_016846, intron 11 of 17)	88560.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	227.0	349.5	316.5	4394.0	529.0	179.0	243.5	232.5
Merged-chr2-181186748-4	chr2	181186667	181186867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151465)	promoter-TSS (NR_151465)	-55.0	NR_151465	66496.0	Mm.213943	NM_025598	ENSMUSG00000016344	Ppdpf	0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik	pancreatic progenitor cell differentiation and proliferation factor	protein-coding	32.0	48.0	32.0	445.0	84.0	36.0	30.0	39.5
Merged-chr4-135292924-4	chr4	135292801	135293001	+	811.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20141.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	13.5	39.5	15.5	119.0	29.0	12.0	14.0	13.0
Merged-chr6-122810336-4	chr6	122810231	122810431	+	912.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-9853.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	11.0	11.5	4.5	154.5	33.5	16.0	12.5	15.0
Merged-chr19-3323321-4	chr19	3323220	3323420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013495)	promoter-TSS (NM_013495)	19.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	86.0	157.0	104.5	1045.0	224.0	94.0	90.0	99.5
Merged-chr4-132795350-1	chr4	132795250	132795450	+	1000.0	f0_c57.idr	intron (NM_001033308, intron 1 of 5)	intron (NM_001033308, intron 1 of 5)	1014.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	19.0	27.0	8.0	227.0	44.5	13.0	23.5	24.0
Merged-chr13-112003315-4	chr13	112003178	112003378	+	957.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135342.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	17.0	38.0	14.5	141.0	37.0	12.5	4.0	7.5
Merged-chr2-131353606-4	chr2	131353508	131353708	+	623.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178607)	promoter-TSS (NM_178607)	-716.0	NM_178607	51902.0	Mm.477523	NM_178607	ENSMUSG00000048911	Rnf24	2810473M14Rik|4930505A13Rik|AI317164|C86507|D2Ertd504e	ring finger protein 24	protein-coding	12.0	7.0	7.0	90.5	31.0	10.5	4.0	10.0
Merged-chr6-138140495-4	chr6	138140388	138140588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019946)	promoter-TSS (NM_019946)	-39.0	NM_001361308	56615.0	Mm.14796	NM_019946	ENSMUSG00000008540	Mgst1	1500002K10Rik|Gst	microsomal glutathione S-transferase 1	protein-coding	47.0	42.5	24.5	520.0	48.5	18.0	20.5	12.5
Merged-chr3-51184970-4	chr3	51184883	51185083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2C1|LTR|ERVL	-39464.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	66.0	56.5	72.5	1180.5	239.0	83.5	123.5	80.0
Merged-chr6-38967407-4	chr6	38967322	38967522	+	937.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	ORR1D2|LTR|ERVL-MaLR	48436.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	14.5	6.5	24.0	370.5	37.0	8.5	21.0	20.5
Merged-chr10-17775318-4	chr10	17775231	17775431	+	949.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20888.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	16.0	5.5	12.5	182.0	45.5	21.5	31.5	15.0
Merged-chr2-73312674-4	chr2	73312598	73312798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029022)	promoter-TSS (NM_029022)	46.0	NM_001355711	74616.0	Mm.247457	NM_029022	ENSMUSG00000008226	Scrn3	4833415E20Rik|AI427019|AV002033|Ses3	secernin 3	protein-coding	140.0	289.5	179.5	1975.5	485.0	163.0	171.5	171.0
Merged-chr4-126035563-4	chr4	126035446	126035646	+	937.9916380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252651, intron 7 of 14)	intron (NM_001252651, intron 7 of 14)	10887.0	NM_001252651	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	33.0	19.0	9.5	228.0	37.0	13.0	18.5	5.5
Merged-chr12-70713702-4	chr12	70713592	70713792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111822.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	49.5	43.0	23.5	448.5	62.0	22.0	26.5	21.0
Merged-chr4-59862583-4	chr4	59862495	59862695	+	977.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 2 of 8)	L1_Mus4|LINE|L1	52461.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	27.5	48.5	36.0	365.0	42.5	19.0	18.0	13.5
Merged-chr4-46087132-4	chr4	46087063	46087263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021883, intron 4 of 9)	intron (NM_021883, intron 4 of 9)	47941.0	NM_021883	21916.0	Mm.249594	NM_021883	ENSMUSG00000028328	Tmod1	E-Tmod|Tmod	tropomodulin 1	protein-coding	37.0	33.5	30.0	375.5	42.5	9.5	25.0	20.0
Merged-chr19-18600434-3	chr19	18600333	18600533	+	782.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 2 of 9)	intron (NM_017375, intron 2 of 9)	31380.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	7.0	4.5	14.5	263.0	12.5	2.5	11.0	3.0
Merged-chr14-17427068-3	chr14	17426960	17427160	+	930.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42-int|LTR|ERVK	-233900.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	9.5	3.5	17.0	196.0	17.5	7.0	8.0	9.5
Merged-chr11-53803267-4	chr11	53803165	53803365	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	32792.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	29.5	37.5	26.5	475.5	71.0	17.5	35.0	26.5
Merged-chr12-34297218-4	chr12	34297133	34297333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 16 of 27)	intron (NM_001271386, intron 16 of 27)	231656.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	34.0	35.5	55.5	963.0	75.0	18.0	48.0	42.5
Merged-chr2-80580952-10	chr2	80580868	80581068	+	936.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355410, exon 1 of 32)	5' UTR (NM_001355410, exon 1 of 32)	214.0	NM_001290745	50884.0	Mm.25203	NM_016965	ENSMUSG00000027002	Nckap1	C79304|H19|Hem-2|Hem2|Nap1|mKIAA0587|mh19|p125Nap1	NCK-associated protein 1	protein-coding	7.0	13.5	8.5	97.0	25.5	8.5	5.5	12.5
Merged-chr7-28444147-4	chr7	28444039	28444239	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039192, intron 4 of 6)	intron (NM_001039192, intron 4 of 6)	3202.0	NM_001039192	63986.0	Mm.194536	NM_022024	ENSMUSG00000060791	Gmfg	0610039G16Rik|2310057N07Rik|AI324845	glia maturation factor, gamma	protein-coding	17.0	27.0	8.0	177.0	48.0	17.0	21.5	21.0
Merged-chr11-62731852-4	chr11	62731751	62731951	+	932.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2758.0	NM_133208	170740.0	Mm.339982	NM_133208	ENSMUSG00000005267	Zfp287	B230333C16Rik|SKAT-2|Skat2|Znf287|mszf16|mszf74	zinc finger protein 287	protein-coding	14.0	23.0	18.5	221.0	27.5	7.5	15.0	25.5
Merged-chr6-145277068-4	chr6	145276971	145277171	+	960.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26519.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	22.5	18.5	19.5	288.0	36.5	12.0	18.5	21.0
Merged-chr13-81176277-4	chr13	81176187	81176387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 86 of 89)	intron (NM_054053, intron 86 of 89)	212213.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	21.0	55.0	27.5	253.5	59.5	19.0	35.0	10.0
Merged-chr7-109486485-4	chr7	109486372	109486572	+	821.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181853, intron 1 of 19)	intron (NM_181853, intron 1 of 19)	7266.0	NM_001170913	330627.0	Mm.183528	NM_181853	ENSMUSG00000031026	Trim66	Kiaa0298-hp|Tif1d	tripartite motif-containing 66	protein-coding	6.5	5.5	4.5	122.0	21.5	5.0	13.5	17.0
Merged-chr11-98597517-3	chr11	98597421	98597621	+	586.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195544)	promoter-TSS (NM_001195544)	-770.0	NM_001195544	192852.0	Mm.342821	NM_001195544	ENSMUSG00000086545	Lrrc3c	Gm12	leucine rich repeat containing 3C	protein-coding	2.0	12.5	0.5	124.0	8.5	12.5	7.0	9.0
Merged-chr11-94979128-4	chr11	94979038	94979238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2811.0	NM_009161	20391.0	Mm.18709	NM_009161	ENSMUSG00000001508	Sgca	50DAG|Asg	sarcoglycan, alpha (dystrophin-associated glycoprotein)	protein-coding	82.0	75.5	51.0	790.5	185.0	53.0	48.5	59.0
Merged-chr1-173451863-4	chr1	173451775	173451975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	intron (NM_001013779, intron 2 of 8)	31271.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	92.5	94.5	103.5	1849.5	134.5	35.0	92.5	73.0
Merged-chr14-21499556-5	chr14	21499572	21499772	+	891.330017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205241)	promoter-TSS (NM_001205241)	-98.0	NM_001205241	54169.0	Mm.248967	NM_017479	ENSMUSG00000021767	Kat6b	AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf	K(lysine) acetyltransferase 6B	protein-coding	16.0	9.5	24.0	148.0	29.5	4.5	8.0	15.0
Merged-chr13-20182408-4	chr13	20182311	20182511	+	791.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	91904.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	5.0	15.5	6.0	69.0	31.0	9.0	10.0	15.0
Merged-chr6-24663652-3	chr6	24663493	24663693	+	800.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028459, intron 1 of 10)	intron (NM_028459, intron 1 of 10)	1402.0	NM_001167745	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	7.5	8.0	6.5	70.0	6.0	6.5	2.5	10.0
Merged-chr1-37000493-4	chr1	37000405	37000605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-60978.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	68.5	66.5	39.5	625.0	146.5	43.0	58.0	42.0
Merged-chr17-3114645-1	chr17	3114545	3114745	+	1000.0	f0_c57.idr	promoter-TSS (NM_134123)	promoter-TSS (NM_134123)	-327.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	43.0	86.5	58.0	639.0	124.0	54.0	39.0	67.0
Merged-chr8-11461117-4	chr8	11460982	11461182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-16847.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	190.5	263.5	203.5	2513.5	408.0	169.5	178.0	186.5
Merged-chr11-118469999-4	chr11	118469896	118470096	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57-int|LTR|ERV1	-6836.0	NM_172573	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	14.0	7.0	17.5	98.0	19.5	6.0	13.0	12.0
Merged-chr12-98268648-4	chr12	98268544	98268744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008152)	promoter-TSS (NM_008152)	9.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	37.5	66.5	44.5	536.0	141.5	54.5	94.5	51.5
Merged-chr5-137657225-4	chr5	137657163	137657363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178162, intron 6 of 11)	RSINE1|SINE|B4	-11549.0	NM_010571	16369.0	Mm.24486	NM_010571	ENSMUSG00000047182	Irs3	AA408304	insulin receptor substrate 3	protein-coding	55.5	79.5	33.0	665.0	118.5	54.5	51.5	40.0
Merged-chr19-5894135-4	chr19	5894008	5894208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362045)	promoter-TSS (NM_001362045)	20.0	NM_001362045	332359.0	Mm.329642	NM_198634	ENSMUSG00000044390	Tigd3	-	tigger transposable element derived 3	protein-coding	38.0	67.5	44.0	431.0	102.0	52.5	30.5	50.5
Merged-chr12-37287866-2	chr12	37287766	37287966	+	714.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178767, intron 3 of 12)	ORR1E|LTR|ERVL-MaLR	46227.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	8.0	7.0	3.5	222.0	13.5	8.0	23.0	14.5
Merged-chr8-71592117-4	chr8	71592034	71592234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025396)	promoter-TSS (NM_025396)	-50.0	NM_025396	66171.0	Mm.282284	NM_025396	ENSMUSG00000031807	Pgls	1110030K05Rik|AI447866|Plgs	6-phosphogluconolactonase	protein-coding	142.0	169.5	123.5	1864.0	379.5	116.0	121.0	112.0
Merged-chr15-84856203-4	chr15	84856118	84856318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081166)	promoter-TSS (NM_001081166)	-89.0	NR_030731	271305.0	Mm.101022	NM_001081166	ENSMUSG00000016624	Phf21b	A730032D07Rik	PHD finger protein 21B	protein-coding	26.0	37.0	17.0	331.5	119.0	37.0	42.5	36.5
Merged-chr9-118610242-4	chr9	118610113	118610313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	3504.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	20.5	67.0	34.0	455.0	66.5	21.5	45.0	33.5
Merged-chr13-58128796-7	chr13	58128718	58128918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029872)	promoter-TSS (NM_029872)	-262.0	NM_029872	77134.0	Mm.490274	NM_029872	ENSMUSG00000007836	Hnrnpa0	1110055B05Rik|3010025E17Rik|Hnrpa0|hnRNP A0	heterogeneous nuclear ribonucleoprotein A0	protein-coding	66.5	86.0	81.5	775.0	165.0	101.0	54.5	97.5
Merged-chr16-44173085-4	chr16	44172994	44173194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029889)	promoter-TSS (NM_001029889)	-303.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	257.0	337.0	296.5	4638.0	634.5	206.5	326.0	241.5
Merged-chr17-35814982-4	chr17	35814764	35814964	+	894.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6849.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	6.0	5.0	7.5	18.5	13.0	7.5	2.5	7.0
Merged-chr18-60775324-3	chr18	60775219	60775419	+	912.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020600, intron 1 of 4)	intron (NM_020600, intron 1 of 4)	723.0	NM_020600	20044.0	Mm.43778	NM_020600	ENSMUSG00000024608	Rps14	2600014J02Rik|AL023078	ribosomal protein S14	protein-coding	2.0	9.5	8.0	98.5	13.0	8.0	6.5	14.0
Merged-chr6-72789377-8	chr6	72789216	72789416	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009332)	promoter-TSS (NM_009332)	-271.0	NM_009332	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	17.0	17.5	10.0	209.0	43.0	13.5	28.0	24.0
Merged-chr5-9186636-4	chr5	9186514	9186714	+	970.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24838.0	NR_152861	23857.0	Mm.22480	NM_011806	ENSMUSG00000042508	Dmtf1	Dimp|Dmp1	cyclin D binding myb-like transcription factor 1	protein-coding	12.5	7.5	16.5	286.0	42.5	12.0	26.5	25.5
Merged-chr10-111986630-4	chr10	111986542	111986742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028608, exon 4 of 6)	exon (NM_028608, exon 4 of 6)	10622.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	53.0	67.5	47.0	994.5	123.0	42.5	40.0	51.5
Merged-chr10-121256615-3	chr10	121256515	121256715	+	937.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53966.0	NR_152796	74647.0	Mm.370609	NR_152796	ENSMUSG00000112846	4930432O09Rik	-	RIKEN cDNA 4930432O09 gene	ncRNA	8.0	21.0	9.5	268.5	32.0	5.5	4.0	3.0
Merged-chr1-58445535-4	chr1	58445418	58445618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027351)	promoter-TSS (NM_027351)	-32.0	NM_027351	70225.0	Mm.340195	NM_027351	ENSMUSG00000026035	Ppil3	2310076N22Rik|2510026K04Rik|Cyp10l	peptidylprolyl isomerase (cyclophilin)-like 3	protein-coding	32.0	57.5	53.5	1126.0	120.5	39.5	52.0	45.5
Merged-chr10-41678952-4	chr10	41678849	41679049	+	864.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 7 of 47)	intron (NM_001358562, intron 7 of 47)	37514.0	NM_001358562	75973.0	Mm.228517	NM_029493	ENSMUSG00000075225	Ccdc162	5033413D22Rik|Ccdc162p|Gm29096|Gm61|Gm6976	coiled-coil domain containing 162	protein-coding	11.5	14.5	10.0	132.0	32.5	6.5	12.0	6.0
Merged-chr7-122033545-1	chr7	122033445	122033645	+	580.0	f0_c57.idr	TTS (NM_026140)	TTS (NM_026140)	-12347.0	NM_028758	74105.0	Mm.29619	NM_028758	ENSMUSG00000030872	Gga2	1200007E24Rik|mKIAA1080	golgi associated, gamma adaptin ear containing, ARF binding protein 2	protein-coding	2.5	7.0	1.5	107.0	21.0	5.0	9.5	9.0
Merged-chr17-26715542-4	chr17	26715426	26715626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029870)	promoter-TSS (NM_029870)	-124.0	NM_029870	77128.0	Mm.275414	NM_029870	ENSMUSG00000048249	Crebrf	A930001N09Rik|LRF	CREB3 regulatory factor	protein-coding	148.5	253.5	118.5	1815.5	484.5	188.0	152.0	169.0
Merged-chr17-84188651-4	chr17	84188556	84188756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001806)	promoter-TSS (NM_001001806)	-709.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	254.0	308.0	270.0	4000.5	532.5	212.5	252.0	276.5
Merged-chr8-84970446-2	chr8	84970351	84970551	+	776.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_011563, exon 3 of 6)	exon (NM_011563, exon 3 of 6)	829.0	NM_011563	21672.0	Mm.347009	NM_011563	ENSMUSG00000005161	Prdx2	AL022839|Band-8|NkefB|PRP|PrxII|TDX1|TPx|TPx-B|TR|TSA|Tdpx1|Torin	peroxiredoxin 2	protein-coding	9.0	4.5	9.0	44.0	2.0	4.5	6.5	10.0
Merged-chr14-66844795-4	chr14	66844687	66844887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	23813.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	35.5	56.5	29.0	449.5	103.0	63.5	41.0	29.0
Merged-chr18-73574049-12	chr18	73574027	73574227	+	945.569458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039214, intron 1 of 1)	intron (NM_001039214, intron 1 of 1)	1422.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	13.0	9.5	11.0	161.0	30.0	12.0	10.5	15.0
Merged-chr6-116472771-4	chr6	116472684	116472884	+	873.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11606.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	17.5	10.5	18.5	198.0	25.0	15.0	15.5	11.0
Merged-chr17-57279811-4	chr17	57279664	57279864	+	833.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	CT-rich|Low_complexity|Low_complexity	664.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	7.5	9.5	13.0	117.0	26.5	10.0	7.0	6.5
Merged-chr2-165234764-4	chr2	165234665	165234865	+	907.0458369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174988)	promoter-TSS (NM_174988)	-28.0	NM_174988	104010.0	Mm.151819	NM_174988	ENSMUSG00000053166	Cdh22	-	cadherin 22	protein-coding	9.5	20.5	8.5	136.5	35.0	21.5	12.5	16.5
Merged-chr11-121743362-4	chr11	121743262	121743462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40935.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	47.0	44.0	32.5	584.5	78.5	26.0	29.0	45.5
Merged-chr1-152521027-4	chr1	152520903	152521103	+	831.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 17 of 17)	intron (NM_016846, intron 17 of 17)	104214.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	10.0	15.5	7.0	86.0	22.0	4.5	14.5	14.0
Merged-chr14-120362715-4	chr14	120362615	120362815	+	845.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	56263.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	10.5	13.0	23.0	390.0	19.5	7.0	7.0	6.0
Merged-chr2-61578583-4	chr2	61578489	61578689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011529)	promoter-TSS (NM_011529)	3.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	110.0	194.0	151.5	1022.5	368.0	140.0	118.5	110.0
Merged-chr5-113872401-4	chr5	113872321	113872521	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 2 of 10)	intron (NM_011779, intron 2 of 10)	36285.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	30.0	26.0	18.0	443.5	40.5	14.5	10.5	21.5
Merged-chr16-21947574-4	chr16	21947471	21947671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025693)	promoter-TSS (NM_025693)	-19.0	NR_037773	66664.0	Mm.46480	NM_025693	ENSMUSG00000022856	Tmem41a	2900010K02Rik|5730578N08Rik	transmembrane protein 41a	protein-coding	86.5	120.0	62.5	1285.0	188.5	68.0	93.5	57.5
Merged-chr12-84175116-2	chr12	84175016	84175216	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	18899.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	16.0	23.5	5.5	174.5	29.5	11.0	13.0	16.0
Merged-chr8-83103201-4	chr8	83103155	83103355	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62097.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	28.5	30.0	32.5	419.5	33.0	15.0	6.5	8.5
Merged-chr12-80259679-7	chr12	80259567	80259767	+	874.38092	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	CpG	704.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	10.5	15.0	5.5	140.5	15.0	11.0	5.5	8.0
Merged-chr11-119089298-4	chr11	119089177	119089377	+	793.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3040.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	10.5	24.5	7.5	56.5	18.5	7.5	6.0	10.0
Merged-chr13-93997182-4	chr13	93997105	93997305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60591.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	18.5	16.0	25.5	388.5	63.5	23.5	9.5	21.5
Merged-chr19-5610020-7	chr19	5609884	5610084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037603)	promoter-TSS (NR_037603)	110.0	NM_001199249	81601.0	Mm.228930	NM_178637	ENSMUSG00000024926	Kat5	AI839539|CPLA2|Htatip|Htatip1|PLIP|Tip55|Tip60	K(lysine) acetyltransferase 5	protein-coding	38.0	86.5	31.5	283.5	107.0	48.0	36.5	47.0
Merged-chr18-25727007-3	chr18	25726895	25727095	+	749.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 1 of 12)	intron (NM_001362322, intron 1 of 12)	26988.0	NM_001146295	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	7.5	9.0	9.0	92.0	17.5	11.0	4.5	10.0
Merged-chr6-124641239-2	chr6	124641139	124641339	+	695.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5154.0	NM_173864	317677.0	Mm.483270	NM_173864	ENSMUSG00000079343	C1s2	C1sb|EG317677|Gm5077	complement component 1, s subcomponent 2	protein-coding	7.5	7.0	2.0	61.0	23.5	5.0	8.5	5.5
Merged-chr15-83097832-4	chr15	83097731	83097931	+	858.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2374.0	NM_023475	68607.0	Mm.30056	NM_023475	ENSMUSG00000058586	Serhl	0610008B10Rik|1110019M09Rik|AU019786	serine hydrolase-like	protein-coding	8.0	17.5	2.5	72.0	53.5	22.0	15.0	7.0
Merged-chr4-6384731-4	chr4	6384647	6384847	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016807, intron 4 of 8)	intron (NM_016807, intron 4 of 8)	19067.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	36.0	27.5	40.0	494.5	59.5	19.5	25.0	21.0
Merged-chr9-95954787-4	chr9	95954673	95954873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011916)	promoter-TSS (NM_011916)	13.0	NM_011916	24127.0	Mm.291179	NM_011916	ENSMUSG00000032410	Xrn1	Dhm2|exo|mXrn1	5'-3' exoribonuclease 1	protein-coding	86.0	123.0	67.0	972.5	229.5	98.0	108.5	108.5
Merged-chr7-28380297-4	chr7	28380206	28380406	+	930.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1078.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	21.0	9.0	11.0	306.5	36.0	16.5	18.5	16.0
Merged-chr7-34266194-4	chr7	34266087	34266287	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172741, intron 1 of 12)	intron (NM_172741, intron 1 of 12)	19422.0	NM_172741	233103.0	Mm.491097	NM_172741	ENSMUSG00000066571	4931406P16Rik	AA553327|mKIAA0355	RIKEN cDNA 4931406P16 gene	protein-coding	6.0	10.0	9.0	108.0	27.5	9.0	23.5	12.0
Merged-chr8-41240471-2	chr8	41240386	41240586	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 1 of 37)	intron (NM_023662, intron 1 of 37)	727.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	16.5	13.5	3.0	89.0	48.5	10.0	16.0	23.0
Merged-chr9-109057670-4	chr9	109057566	109057766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011637)	TTS (NM_011637)	1585.0	NM_001012236	22040.0	Mm.439964	NM_011637	ENSMUSG00000049734	Trex1	AU041952	three prime repair exonuclease 1	protein-coding	67.5	87.0	38.0	775.5	144.5	56.0	76.0	66.0
Merged-chr11-21079931-4	chr11	21079830	21080030	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11394.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	31.0	37.5	24.0	352.5	45.0	23.0	17.0	25.0
Merged-chr14-56813711-4	chr14	56813597	56813797	+	943.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152252, exon 1 of 1)	non-coding (NR_152252, exon 1 of 1)	1708.0	NR_152252	100503842.0	Mm.297636	NR_152252	ENSMUSG00000100017	2410022M11Rik	-	RIKEN cDNA 2410022M11 gene	ncRNA	9.0	30.5	12.0	140.0	50.5	19.5	18.5	20.5
Merged-chr5-139732999-4	chr5	139732917	139733117	+	882.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174850, intron 1 of 16)	intron (NM_174850, intron 1 of 16)	3316.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	15.0	10.5	7.0	162.0	26.5	16.0	20.5	5.5
Merged-chr14-75229995-4	chr14	75229871	75230071	+	821.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001247984, exon 16 of 16)	3' UTR (NM_001247984, exon 16 of 16)	-12316.0	NM_019775	56373.0	Mm.24242	NM_019775	ENSMUSG00000021999	Cpb2	1110032P04Rik|4930405E17Rik|AI255929|CPR|Cpu|TAFI	carboxypeptidase B2 (plasma)	protein-coding	8.5	4.5	9.0	89.5	22.0	9.5	9.5	16.5
Merged-chr9-40651602-7	chr9	40651500	40651700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34364.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	33.0	29.5	52.0	666.0	56.0	26.0	21.5	24.0
Merged-chr19-32384931-4	chr19	32384830	32385030	+	889.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 1 of 9)	intron (NM_144792, intron 1 of 9)	3119.0	NM_001362423	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	14.0	13.0	8.5	217.0	30.5	13.0	18.0	15.5
Merged-chr14-26502883-4	chr14	26502831	26503031	+	795.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 1 of 22)	L1_Mur2|LINE|L1	31693.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	5.0	6.5	5.5	68.0	23.5	7.5	11.0	5.5
Merged-chr11-120041938-4	chr11	120041867	120042067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198787)	promoter-TSS (NM_001198787)	-186.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	134.0	211.0	156.5	2749.0	348.0	99.5	169.0	140.5
Merged-chr5-103824842-4	chr5	103824743	103824943	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133919, intron 7 of 19)	intron (NM_133919, intron 7 of 19)	70270.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	6.5	16.5	13.0	206.5	49.0	7.0	30.5	24.0
Merged-chr14-101481381-4	chr14	101481290	101481490	+	838.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 8 of 18)	HAL1|LINE|L1	127801.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	5.5	10.0	4.5	139.0	22.5	8.0	8.0	3.0
Merged-chr10-39266766-4	chr10	39266676	39266876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102982.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	31.0	28.0	22.0	423.0	44.0	16.0	27.0	30.5
Merged-chr5-72559244-3	chr5	72559151	72559351	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133921, exon 2 of 23)	exon (NM_133921, exon 2 of 23)	394.0	NM_001359837	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	16.0	23.0	25.5	158.0	25.0	15.5	19.0	30.5
Merged-chr1-23432762-2	chr1	23432662	23432862	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49587.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	8.0	6.5	7.5	33.0	6.5	2.0	4.5	4.0
Merged-chr2-120101210-3	chr2	120101112	120101312	+	721.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 4 of 5)	intron (NM_133838, intron 4 of 5)	53363.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	3.0	4.0	2.0	102.5	24.5	4.5	12.0	9.0
Merged-chr5-36730895-4	chr5	36730788	36730988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17791.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	31.5	42.5	24.5	436.0	83.5	29.0	33.0	43.5
Merged-chr15-25285628-4	chr15	25285517	25285717	+	928.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	128147.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	6.0	17.0	10.5	280.5	61.5	6.5	15.5	14.0
Merged-chr3-40745298-4	chr3	40745202	40745402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011020)	promoter-TSS (NM_011020)	-311.0	NM_011020	18415.0	Mm.39330	NM_011020	ENSMUSG00000025757	Hspa4l	94kDa|AI461691|APG-1|Osp94	heat shock protein 4 like	protein-coding	139.0	264.0	239.0	3667.5	365.0	148.5	175.0	159.0
Merged-chr13-63815301-4	chr13	63815226	63815426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023507)	promoter-TSS (NM_023507)	86.0	NM_023507	76251.0	Mm.186610	NM_023507	ENSMUSG00000021470	Ercc6l2	0610007P08Rik|1700019D06Rik|9330134C04Rik|Rad26l|Sr278	excision repair cross-complementing rodent repair deficiency, complementation group 6 like 2	protein-coding	236.0	358.5	164.5	3631.0	613.5	283.0	253.0	306.5
Merged-chr5-76292853-3	chr5	76292741	76292941	+	845.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007715, intron 2 of 22)	L1_Mus2|LINE|L1	10661.0	NM_001305222	12753.0	Mm.3552	NM_007715	ENSMUSG00000029238	Clock	5330400M04Rik|KAT13D	circadian locomotor output cycles kaput	protein-coding	5.5	11.5	17.0	87.0	19.0	3.5	6.0	4.0
Merged-chr3-37754348-3	chr3	37754245	37754445	+	794.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29985.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	9.0	14.0	8.5	163.5	12.5	2.5	9.0	10.0
Merged-chr9-116111836-3	chr9	116111724	116111924	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 3 of 6)	URR1B|DNA|hAT-Charlie	63539.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	72.0	70.5	62.5	825.5	5.5	5.5	4.0	3.0
Merged-chr3-55673429-3	chr3	55673314	55673514	+	627.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 48 of 57)	intron (NM_030595, intron 48 of 57)	-109096.0	NM_010750	17116.0	Mm.440209	NM_010750	ENSMUSG00000056947	Mab21l1	AW047968	mab-21-like 1 (C. elegans)	protein-coding	7.0	10.5	8.5	99.0	4.5	3.5	1.5	4.0
Merged-chr16-10192948-4	chr16	10192845	10193045	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153123)	promoter-TSS (NM_153123)	39.0	NM_029253	75329.0	Mm.108729	NM_029253	ENSMUSG00000039200	Atf7ip2	4930558K11Rik|BC018510|Get-1|PSM2	activating transcription factor 7 interacting protein 2	protein-coding	12.0	15.5	20.5	305.0	27.0	5.5	16.5	15.5
Merged-chr14-31482565-4	chr14	31482456	31482656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359849, intron 4 of 4)	intron (NM_001359849, intron 4 of 4)	12202.0	NM_001359850	67011.0	Mm.291731	NM_025907	ENSMUSG00000021891	Mettl6	1600013P15Rik|AI467521|AU020711	methyltransferase like 6	protein-coding	52.0	55.0	23.0	741.0	122.5	33.5	63.5	57.0
Merged-chr17-65605110-4	chr17	65604979	65605179	+	891.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355402, intron 1 of 6)	Tigger7|DNA|TcMar-Tigger	8476.0	NM_001355402	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	9.5	15.5	10.5	206.5	27.0	7.5	15.5	17.5
Merged-chr1-101902288-4	chr1	101902196	101902396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	746528.0	NR_037989	100504525.0	Mm.87065	NR_037989	ENSMUSG00000100684	Gm20268	-	predicted gene, 20268	ncRNA	47.5	56.5	54.5	789.0	73.5	31.0	48.0	38.5
Merged-chr3-127634278-4	chr3	127634146	127634346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009718, exon 2 of 2)	exon (NM_009718, exon 2 of 2)	1110.0	NM_009718	11924.0	Mm.42017	NM_009718	ENSMUSG00000027967	Neurog2	Atoh4|Math4A|bHLHa8|ngn-2|ngn2	neurogenin 2	protein-coding	21.0	28.5	18.0	397.0	59.5	22.5	35.0	28.0
Merged-chr15-103163392-4	chr15	103163278	103163478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027885)	promoter-TSS (NM_027885)	-94.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	74.0	123.5	61.0	1199.0	175.0	78.0	80.0	80.5
Merged-chr4-88760662-3	chr4	88760553	88760753	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085531)	promoter-TSS (NM_001085531)	-121.0	NM_001085531	545645.0	Mm.489553	NM_001085531	ENSMUSG00000100505	Gm13283	EG545645	predicted gene 13283	protein-coding	0.0	0.0	0.0	0.0	111.0	46.5	59.0	58.5
Merged-chr14-76505961-3	chr14	76505871	76506071	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310647, intron 2 of 2)	intron (NM_001310647, intron 2 of 2)	1461.0	NM_009366	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	29.0	34.0	25.5	362.5	14.0	1.5	6.0	9.0
Merged-chr7-24564810-4	chr7	24564721	24564921	+	846.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360168, intron 4 of 17)	intron (NM_001360168, intron 4 of 17)	13334.0	NM_001360169	22594.0	Mm.4347	NM_009532	ENSMUSG00000051768	Xrcc1	Xrcc-1	X-ray repair complementing defective repair in Chinese hamster cells 1	protein-coding	2.5	9.0	4.5	113.5	23.5	10.0	9.0	8.5
Merged-chr14-74841903-4	chr14	74841802	74842002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 2 of 19)	RLTR11A2|LTR|ERVK	105975.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	43.0	74.0	26.5	529.0	105.5	34.5	50.5	29.5
Merged-chr15-66833536-4	chr15	66833415	66833615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 43 of 47)	intron (NM_009375, intron 43 of 47)	-1686.0	NM_009192	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	29.0	38.5	48.5	484.5	52.0	15.5	22.0	31.0
Merged-chr6-47813519-4	chr6	47813433	47813633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009787)	promoter-TSS (NM_009787)	-21.0	NM_009787	12304.0	Mm.2442	NM_009787	ENSMUSG00000025823	Pdia4	AI987846|Cai|ERp-72|Erp72	protein disulfide isomerase associated 4	protein-coding	309.5	521.0	453.0	5686.0	738.5	304.5	434.0	346.0
Merged-chr15-83036356-4	chr15	83036238	83036438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2941.0	NM_001271411	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	52.0	57.0	44.5	856.0	101.5	39.0	71.0	56.0
Merged-chr8-71951024-4	chr8	71950940	71951140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164581)	promoter-TSS (NM_001164581)	-26.0	NM_001164581	234413.0	Mm.334607	NM_001164581	ENSMUSG00000052446	Zfp961	A230105L22Rik|BC065788|mszf37|mszf55-2	zinc finger protein 961	protein-coding	234.0	310.0	243.0	3214.0	342.0	185.5	195.0	177.0
Merged-chr10-9722792-4	chr10	9722695	9722895	+	956.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38073.0	NR_038036	620417.0	Mm.378085	NR_038036	ENSMUSG00000111901	Gm6150	-	predicted gene 6150	ncRNA	15.0	36.5	28.0	495.0	32.0	10.5	54.5	29.5
Merged-chr2-144337435-4	chr2	144337334	144337534	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-5354.0	NM_026924	107586.0	Mm.252750	NM_026924	ENSMUSG00000037279	Ovol2	1700108N11Rik|1810007D21Rik|M-OVO|M-OVO-A|M-OVO-B|MOVO|Ovo2|Zfp339|movo2	ovo like zinc finger 2	protein-coding	16.0	24.5	19.0	179.5	30.5	11.5	10.5	13.0
Merged-chr11-104469086-3	chr11	104468989	104469189	+	938.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359634)	promoter-TSS (NM_001359634)	-228.0	NM_001359634	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	18.5	14.5	5.0	162.0	24.5	10.5	9.5	12.0
Merged-chr6-87993003-4	chr6	87992911	87993111	+	978.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11328.0	NR_026990	434064.0	Mm.371796	NR_026990	ENSMUSG00000084950	Gm5577	EG434064	predicted gene 5577	ncRNA	18.0	27.5	20.5	423.5	43.0	14.0	22.0	25.5
Merged-chr8-126581004-4	chr8	126580910	126581110	+	949.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	12426.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	15.5	19.5	15.0	207.5	44.5	11.0	18.5	21.5
Merged-chr14-70769720-4	chr14	70769603	70769803	+	863.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3075.0	NM_023045	65246.0	Mm.152987	NM_023045	ENSMUSG00000022100	Xpo7	4930506C02Rik|BB164534|Ranbp16|exp7	exportin 7	protein-coding	10.0	12.0	8.0	117.0	30.5	28.0	17.0	8.5
Merged-chr3-87401454-4	chr3	87401396	87401596	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310545, intron 10 of 10)	intron (NM_001310545, intron 10 of 10)	25109.0	NM_178165	229499.0	Mm.255203	NM_153090	ENSMUSG00000059994	Fcrl1	A230020G22Rik|Bxmas1|Bxmh1|Bxmh1b|Fcrh1|Fcrh1l|Fcrh1s|Ifgp1	Fc receptor-like 1	protein-coding	9.0	6.5	12.5	95.0	69.0	24.0	33.0	38.5
Merged-chr7-141266108-1	chr7	141266008	141266208	+	1000.0	f0_balb.idr	intron (NM_001252601, intron 1 of 9)	intron (NM_001252601, intron 1 of 9)	316.0	NM_001252601	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	29.5	41.5	33.5	332.0	124.0	37.0	35.0	55.0
Merged-chr6-122874478-4	chr6	122874365	122874565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026267)	promoter-TSS (NM_026267)	-92.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	89.0	162.0	68.0	1097.0	277.0	130.0	95.0	91.5
Merged-chr19-5489193-4	chr19	5489092	5489292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153768)	promoter-TSS (NR_153768)	-813.0	NR_153769	71711.0	Mm.27697	NM_027877	ENSMUSG00000024906	Mus81	1200008A18Rik|AI182501|AW045863	MUS81 structure-specific endonuclease subunit	protein-coding	100.5	175.0	63.0	1147.0	288.5	136.0	137.0	107.5
Merged-chr8-85840752-4	chr8	85840667	85840867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199446)	promoter-TSS (NM_199446)	182.0	NM_028007	71927.0	Mm.61018	NM_028007	ENSMUSG00000031703	Itfg1	2310047C21Rik|AI314457|Cda08|D8Wsu49e	integrin alpha FG-GAP repeat containing 1	protein-coding	31.5	52.5	36.5	624.5	111.0	42.0	41.5	53.0
Merged-chr4-137365837-4	chr4	137365747	137365947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8088.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	72.0	107.5	69.0	1127.5	130.5	46.0	50.5	65.0
Merged-chr9-124023209-3	chr9	124023099	124023299	+	873.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009914, intron 1 of 1)	intron (NM_009914, intron 1 of 1)	1228.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	13.0	36.0	12.5	212.0	6.0	0.5	3.0	0.0
Merged-chr11-78826565-4	chr11	78826456	78826656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001076681)	promoter-TSS (NM_001076681)	-39.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	73.5	101.5	39.5	705.0	185.0	85.0	60.5	109.0
Merged-chr18-21669930-3	chr18	21669823	21670023	+	861.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17555.0	NM_001081403	225266.0	Mm.436836	NM_001081403	ENSMUSG00000042514	Klhl14	6330403N15Rik|AI785250|printor	kelch-like 14	protein-coding	15.0	24.5	10.5	248.5	4.0	0.5	2.0	3.5
Merged-chr7-74555006-4	chr7	74554880	74555080	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023908)	promoter-TSS (NM_023908)	-200.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	18.5	7.5	23.5	202.5	43.5	16.5	20.5	14.0
Merged-chr10-111010747-2	chr10	111010647	111010847	+	801.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172554)	promoter-TSS (NM_172554)	-681.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	8.5	2.5	7.5	85.5	14.0	8.0	7.5	12.5
Merged-chr5-33936447-4	chr5	33936360	33936560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011914)	promoter-TSS (NM_011914)	-202.0	NM_011914	24116.0	Mm.332320	NM_011914	ENSMUSG00000029111	Nelfa	Whsc2|Whsc2h	negative elongation factor complex member A, Whsc2	protein-coding	163.0	256.0	146.0	2060.5	501.5	178.5	158.5	174.5
Merged-chr6-28866341-4	chr6	28866248	28866448	+	737.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 16 of 23)	intron (NM_019776, intron 16 of 23)	-34601.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	17.5	29.0	14.0	145.5	38.5	18.0	8.0	5.5
Merged-chr12-108794455-5	chr12	108794300	108794500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009537, intron 1 of 4)	CpG-3499	1089.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	64.0	93.5	105.5	879.0	147.0	62.5	69.0	69.0
Merged-chr2-167314860-3	chr2	167314785	167314985	+	827.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	B4|SINE|B4	34293.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	6.0	21.5	14.0	255.5	12.5	5.5	7.0	10.0
Merged-chr13-34282261-3	chr13	34282159	34282359	+	935.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	62923.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	12.0	9.0	19.5	170.5	13.0	4.0	14.0	8.5
Merged-chr2-124605528-4	chr2	124605423	124605623	+	726.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-4773.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	13.5	9.5	6.0	91.5	29.5	10.5	14.5	15.0
Merged-chr16-85281906-2	chr16	85281812	85282012	+	608.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108205.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	0.0	0.0	0.0	0.0	27.0	9.5	14.0	4.5
Merged-chr13-45391275-2	chr13	45391175	45391375	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_153789, exon 2 of 7)	exon (NM_153789, exon 2 of 7)	1533.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	9.0	5.5	7.0	131.0	16.5	2.5	14.5	2.0
Merged-chr10-68283271-4	chr10	68283161	68283361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4535.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	76.0	104.5	58.0	868.5	158.0	62.5	79.0	54.5
Merged-chr2-154791379-4	chr2	154791265	154791465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001139511, exon 1 of 8)	5' UTR (NM_001139511, exon 1 of 8)	255.0	NM_001139511	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	60.0	131.5	49.5	581.0	269.0	143.5	76.0	89.5
Merged-chr4-135206433-4	chr4	135206328	135206528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	66332.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	48.0	110.5	53.0	846.5	110.0	60.0	51.5	53.0
Merged-chr18-66437999-4	chr18	66437912	66438112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20592.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	128.5	183.0	92.5	1541.5	325.5	111.5	146.0	126.0
Merged-chr2-84633287-3	chr2	84633161	84633361	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	intron (NM_007615, intron 1 of 19)	16219.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	5.0	7.0	4.5	94.0	19.0	4.5	8.5	4.0
Merged-chr10-80929920-4	chr10	80929802	80930002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008655)	promoter-TSS (NM_008655)	-189.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	217.5	426.0	170.0	2131.0	711.0	314.0	311.5	244.0
Merged-chr2-142900591-4	chr2	142900496	142900696	+	936.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 1 of 26)	intron (NM_001355123, intron 1 of 26)	868.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	22.0	12.5	28.5	583.0	40.5	13.5	15.0	10.5
Merged-chr5-76132244-4	chr5	76132153	76132353	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8020.0	NM_020611	57357.0	Mm.289446	NM_020611	ENSMUSG00000029233	Srd5a3	1110025P14Rik|A430076C09|AV364670|AW987574|D730040M03Rik|H5ar|S5AR 3|Srd5a2l	steroid 5 alpha-reductase 3	protein-coding	8.5	28.0	27.5	293.0	37.5	5.5	19.0	16.0
Merged-chr13-110558529-3	chr13	110558412	110558612	+	654.083313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163468.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	1.5	0.0	1.5	17.0	58.0	9.5	19.0	13.0
Merged-chr1-74053290-4	chr1	74053200	74053400	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289895, intron 3 of 32)	intron (NM_001289895, intron 3 of 32)	71147.0	NM_027884	21961.0	Mm.309975	NM_027884	ENSMUSG00000055322	Tns1	1110018I21Rik|1200014E20Rik|AI648117|E030018G17Rik|E030037J05Rik|Tns	tensin 1	protein-coding	12.0	21.5	16.0	220.0	42.5	6.0	26.5	19.5
Merged-chr17-7169976-4	chr17	7169872	7170072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011299)	promoter-TSS (NM_011299)	-143.0	NM_011299	20112.0	Mm.268383	NM_011299	ENSMUSG00000023809	Rps6ka2	90kDa|D17Wsu134e|Rps6ka-rs1|Rsk3|p90rsk|pp90rsk	ribosomal protein S6 kinase, polypeptide 2	protein-coding	398.5	587.5	428.5	6961.5	822.5	356.0	429.5	360.5
Merged-chr10-112990927-4	chr10	112990820	112991020	+	990.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61894.0	NM_001033474	382423.0	Mm.431239	NM_001033474	ENSMUSG00000074748	Atxn7l3b	4921506J03Rik|6230409E21Rik|AI315132	ataxin 7-like 3B	protein-coding	44.0	25.0	62.0	835.5	58.0	22.5	46.0	40.0
Merged-chr4-63401809-4	chr4	63401707	63401907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 1 of 21)	intron (NM_001045514, intron 1 of 21)	1638.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	89.0	132.5	120.5	1566.5	199.0	90.0	92.5	86.5
Merged-chr9-58560416-4	chr9	58560310	58560510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19470.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	50.0	63.5	33.0	526.0	83.5	47.5	57.0	25.0
Merged-chr1-191281368-4	chr1	191281256	191281456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36762.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	144.0	175.0	129.0	1754.5	404.5	162.0	204.0	147.0
Merged-chr17-12783423-4	chr17	12783313	12783513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027784, intron 2 of 2)	intron (NR_027784, intron 2 of 2)	-13707.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	61.0	127.5	74.0	1095.0	207.0	80.5	107.0	97.5
Merged-chr15-73176732-4	chr15	73176638	73176838	+	933.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	8209.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	14.0	26.5	14.5	301.5	61.0	14.5	22.5	12.5
Merged-chr5-113910227-4	chr5	113910121	113910321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1515.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	60.5	91.5	36.0	703.5	128.0	54.0	60.5	60.0
Merged-chr3-116186616-4	chr3	116186519	116186719	+	730.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56931.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	7.0	5.0	4.0	179.0	30.0	14.0	8.0	16.0
Merged-chr7-46833451-4	chr7	46833344	46833544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12360.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	48.5	62.0	75.5	1605.0	96.5	32.0	57.5	61.5
Merged-chr5-77309415-4	chr5	77309144	77309344	+	868.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019836, exon 1 of 7)	exon (NM_019836, exon 1 of 7)	842.0	NM_019836	56412.0	Mm.129136	NM_019836	ENSMUSG00000036285	Noa1	2610024G14Rik|AU022345|AtNOS1|mAtNOS1	nitric oxide associated 1	protein-coding	4.5	5.0	7.0	52.5	12.0	6.0	6.5	6.5
Merged-chr10-88330897-4	chr10	88330807	88331007	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 4 of 6)	intron (NM_027878, intron 4 of 6)	26168.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	5.5	10.5	2.5	185.0	27.5	6.0	16.5	12.5
Merged-chr12-83487830-4	chr12	83487727	83487927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267626)	promoter-TSS (NM_001267626)	-91.0	NM_058212	70127.0	Mm.151308	NM_058212	ENSMUSG00000021221	Dpf3	2810403B03Rik|6530402L11Rik|BAF45C|C78788|CERD4|cer-d4	D4, zinc and double PHD fingers, family 3	protein-coding	54.0	114.5	46.5	1250.0	121.0	49.5	71.5	57.0
Merged-chr15-59049024-4	chr15	59048924	59049124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	33002.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	59.0	77.0	56.5	761.5	120.0	29.0	57.5	47.5
Merged-chr3-27984098-4	chr3	27983989	27984189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008875)	promoter-TSS (NM_008875)	-82.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	37.5	38.0	32.0	766.5	106.5	23.0	48.5	28.5
Merged-chr1-186549405-3	chr1	186549303	186549503	+	909.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131124, intron 1 of 2)	L1MB3|LINE|L1	9278.0	NR_131124	320449.0	Mm.404477	NR_131124	ENSMUSG00000103690	A730004F24Rik	-	RIKEN cDNA A730004F24 gene	ncRNA	7.5	7.5	18.0	294.0	12.5	7.0	8.0	4.0
Merged-chr11-78080364-4	chr11	78080269	78080469	+	981.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022313)	promoter-TSS (NM_022313)	14.0	NM_022313	57837.0	Mm.21096	NM_022313	ENSMUSG00000020832	Eral1	2610524P08Rik|9130407C09Rik|AU019798|Era|M-ERA|MERA-S|MERA-W	Era (G-protein)-like 1 (E. coli)	protein-coding	28.5	26.0	11.0	256.0	35.0	23.0	16.0	22.0
Merged-chr1-152529748-2	chr1	152529648	152529848	+	891.599976	f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 14 of 17)	intron (NM_016846, intron 14 of 17)	95469.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	1.5	3.0	6.0	60.5	19.5	9.0	6.5	14.0
Merged-chr8-84414409-3	chr8	84414306	84414506	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007578)	promoter-TSS (NM_007578)	-958.0	NM_001252060	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	121.5	207.0	98.0	1639.0	2.5	0.0	4.0	3.0
Merged-chr3-35909149-3	chr3	35909061	35909261	+	781.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033623, intron 4 of 6)	intron (NM_033623, intron 4 of 6)	20913.0	NM_033623	114893.0	Mm.374810	NM_033623	ENSMUSG00000027708	Dcun1d1	Rp42|SCCRO|Tes3|pTes3	DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)	protein-coding	13.0	3.0	16.0	275.0	12.5	8.0	5.5	8.0
Merged-chr5-35105737-4	chr5	35105637	35105837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013587)	promoter-TSS (NM_013587)	-40.0	NM_013587	16976.0	Mm.277661	NM_013587	ENSMUSG00000029103	Lrpap1	AA617339|AI790446|AU042172|C77774|HBP44|RAP	low density lipoprotein receptor-related protein associated protein 1	protein-coding	87.5	158.5	90.0	875.5	153.5	79.0	70.5	72.0
Merged-chr15-89170259-4	chr15	89170135	89170335	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159521, intron 3 of 37)	intron (NM_001159521, intron 3 of 37)	3716.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	11.0	20.5	12.0	173.5	57.0	8.5	21.5	21.5
Merged-chr2-58042099-4	chr2	58041964	58042164	+	907.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10688.0	NM_029972	77767.0	Mm.91712	NM_029972	ENSMUSG00000026830	Ermn	A330104H05Rik|AI854460|ermin|mKIAA1189	ermin, ERM-like protein	protein-coding	14.0	27.5	34.0	449.0	27.0	10.5	18.0	9.5
Merged-chr17-35258289-5	chr17	35258112	35258312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4882.0	NM_010380	14964.0	Mm.439675	NM_010380	ENSMUSG00000073411	H2-D1	H-2D|H2-D	histocompatibility 2, D region locus 1	protein-coding	33.0	51.0	34.5	358.0	78.5	41.0	29.5	39.5
Merged-chr6-125332969-4	chr6	125332842	125333042	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 3 of 11)	intron (NM_011324, intron 3 of 11)	11602.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	13.5	22.0	19.0	200.0	71.5	23.0	28.0	21.5
Merged-chr16-87636019-4	chr16	87635929	87636129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62925.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	53.5	71.0	55.0	807.5	94.0	26.5	26.5	21.0
Merged-chr11-99449837-4	chr11	99449759	99449959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11706.0	NM_023256	66809.0	Mm.28042	NM_023256	ENSMUSG00000035775	Krt20	9030623C06Rik|Ck-20|Ck20|K20|Krt21	keratin 20	protein-coding	29.5	20.0	25.0	473.5	73.5	24.0	30.5	31.0
Merged-chr14-25481080-4	chr14	25480982	25481182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	21897.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	84.0	132.5	120.0	1645.5	175.0	54.0	107.0	72.5
Merged-chr13-52188810-4	chr13	52188700	52188900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92059.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	33.5	38.0	20.0	388.0	92.0	33.0	37.0	28.0
Merged-chr18-46535361-4	chr18	46535245	46535445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9374.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	47.0	40.5	57.5	815.5	136.0	42.5	48.5	22.0
Merged-chr8-71570506-4	chr8	71570414	71570614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357182)	promoter-TSS (NM_001357182)	-80.0	NM_001357182	26457.0	Mm.38165	NM_011977	ENSMUSG00000031808	Slc27a1	FATP1|Fatp	solute carrier family 27 (fatty acid transporter), member 1	protein-coding	216.5	310.5	196.5	2671.5	430.0	164.5	176.5	173.0
Merged-chr2-167925175-4	chr2	167925059	167925259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7168.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	277.0	454.0	271.5	4076.5	482.5	212.0	304.0	232.0
Merged-chr10-88678207-1	chr10	88678107	88678307	+	593.5	f0_balb.idr	intron (NM_011461, intron 4 of 5)	B1_Mur4|SINE|Alu	4816.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	9.5	14.5	4.5	92.5	8.0	1.5	4.5	4.5
Merged-chr5-137786822-4	chr5	137786718	137786918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144913)	promoter-TSS (NM_144913)	-117.0	NM_144913	231803.0	Mm.61193	NM_144913	ENSMUSG00000029726	Mepce	Bcdin3|D5Wsu46e	methylphosphate capping enzyme	protein-coding	214.5	307.5	119.5	1468.5	470.0	227.0	162.5	143.5
Merged-chr12-4548822-4	chr12	4548725	4548925	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24712.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	11.0	34.0	5.0	128.0	61.0	22.5	15.5	15.5
Merged-chr3-109045726-4	chr3	109045608	109045808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18101.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	18.5	48.0	46.0	275.5	67.0	31.0	28.0	26.0
Merged-chr16-5256039-4	chr16	5255918	5256118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027446)	promoter-TSS (NM_027446)	-62.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	307.5	462.0	396.5	4669.0	755.0	331.0	450.5	333.0
Merged-chr18-9585077-2	chr18	9584977	9585177	+	837.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17A-int|LTR|ERVK	34392.0	NM_007593	26369.0	Mm.195831	NM_007593	ENSMUSG00000050996	Cetn1	caltractin	centrin 1	protein-coding	5.0	13.5	8.5	42.5	17.5	6.0	11.0	5.0
Merged-chr2-145730688-4	chr2	145730536	145730736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 2 of 3)	intron (NR_033220, intron 2 of 3)	29441.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	30.0	43.5	29.5	508.0	42.0	21.0	41.5	23.0
Merged-chr14-20702000-3	chr14	20701883	20702083	+	813.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_029446)	TTS (NR_029446)	-1044.0	NM_025366	66121.0	Mm.246996	NM_025366	ENSMUSG00000063787	Chchd1	1110001O19Rik|2400010G13Rik|MRP-S37	coiled-coil-helix-coiled-coil-helix domain containing 1	protein-coding	6.0	28.5	14.5	49.5	38.0	5.5	5.0	4.5
Merged-chr8-73242248-4	chr8	73242136	73242336	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	intron (NM_010687, intron 1 of 14)	111304.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	25.0	9.5	20.5	513.5	47.0	13.5	21.5	36.0
Merged-chr11-120776256-4	chr11	120776165	120776365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7939.0	NM_009053	19719.0	Mm.871	NM_009053	ENSMUSG00000025158	Rfng	-	RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	36.0	60.5	25.0	486.5	111.0	58.0	49.0	45.0
Merged-chr8-45331037-4	chr8	45330923	45331123	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133969, intron 1 of 10)	intron (NM_133969, intron 1 of 10)	2173.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	20.5	46.5	14.5	366.5	77.0	30.5	31.5	25.0
Merged-chr10-59589583-4	chr10	59589470	59589670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033259, intron 1 of 7)	intron (NM_001033259, intron 1 of 7)	27122.0	NM_001033259	215999.0	Mm.296470	NM_001033259	ENSMUSG00000009647	Mcu	2010012O16Rik|AV064928|C10orf42|Ccdc109a|D130073L02Rik|Gm64	mitochondrial calcium uniporter	protein-coding	23.5	41.5	31.0	485.0	103.0	30.5	44.5	33.5
Merged-chr15-13370045-4	chr15	13369959	13370159	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-196384.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	12.5	10.0	31.0	369.5	51.5	22.0	18.5	20.5
Merged-chr14-55490631-3	chr14	55490529	55490729	+	873.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155103)	promoter-TSS (NR_155103)	-22.0	NR_155103	268747.0	Mm.151577	NM_001024645	ENSMUSG00000022211	Carmil3	Lrrc16b|mFLJ00240	capping protein regulator and myosin 1 linker 3	protein-coding	8.0	11.5	8.5	85.5	14.5	7.0	0.0	10.0
Merged-chr5-31880619-4	chr5	31880531	31880731	+	972.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 6 of 11)	MTD|LTR|ERVL-MaLR	182581.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	12.5	30.0	13.5	207.5	40.0	22.0	17.5	22.5
Merged-chr6-72155912-3	chr6	72155845	72156045	+	952.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-32748.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	7.0	12.0	6.5	104.5	5.0	4.0	7.0	7.0
Merged-chr15-36325288-4	chr15	36325166	36325366	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR24B_MM|LTR|ERV1	-42119.0	NM_001357631	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	21.0	53.0	14.5	171.5	67.0	11.0	16.0	11.5
Merged-chr8-105693841-2	chr8	105693741	105693941	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357333, intron 29 of 38)	CpG	-7307.0	NM_001047436	56513.0	Mm.472753	NM_019695	ENSMUSG00000005699	Pard6a	0710008C04Rik|2610010A15Rik|PAR-6A|PAR6alpha|Par-6|Par6|Par6c|TAX40|Tip-40	par-6 family cell polarity regulator alpha	protein-coding	6.0	8.5	5.0	91.0	6.5	4.5	5.0	7.5
Merged-chr4-59864890-3	chr4	59864793	59864993	+	956.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 2 of 8)	intron (NM_172468, intron 2 of 8)	50163.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	10.0	15.5	20.0	263.0	9.0	7.5	7.0	7.0
Merged-chr4-40970981-4	chr4	40970886	40971086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290449)	promoter-TSS (NM_001290449)	43.0	NM_023739	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	76.0	105.5	51.0	704.0	214.0	91.5	100.5	90.5
Merged-chr16-92039701-4	chr16	92039588	92039788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18634.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	72.0	89.5	46.5	581.0	132.5	46.0	65.0	45.0
Merged-chr9-37489001-7	chr9	37488876	37489076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146222)	promoter-TSS (NM_146222)	-345.0	NM_146222	235184.0	Mm.127892	NM_146222	ENSMUSG00000042138	Msantd2	2810450G17Rik|9530092B10Rik	Myb/SANT-like DNA-binding domain containing 2	protein-coding	65.5	75.0	62.5	1020.0	156.0	71.5	102.0	86.0
Merged-chr10-86637103-4	chr10	86637015	86637215	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48412.0	NR_015572	66263.0	Mm.392261	NR_015572	ENSMUSG00000097412	1810014B01Rik	-	RIKEN cDNA 1810014B01 gene	pseudo	22.0	44.0	39.5	248.5	43.5	12.5	18.0	26.5
Merged-chr1-128020543-4	chr1	128020424	128020624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 6 of 20)	L1ME1|LINE|L1	81947.0	NM_027678	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	32.5	56.5	26.5	753.5	71.5	16.0	23.0	36.0
Merged-chr13-42052844-4	chr13	42052738	42052938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 1 of 8)	intron (NM_007772, intron 1 of 8)	817.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	81.0	144.5	63.5	541.5	181.0	66.0	67.0	46.5
Merged-chr2-180116217-2	chr2	180116117	180116317	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3149.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	16.5	11.0	23.0	196.0	19.0	8.5	13.0	14.0
Merged-chr8-46908366-4	chr8	46908265	46908465	+	881.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78522.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	12.0	12.0	8.0	370.5	29.5	15.5	24.5	11.5
Merged-chr19-10759734-4	chr19	10759629	10759829	+	667.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027805, intron 1 of 3)	L2a|LINE|L2	18782.0	NR_027805	403202.0	Mm.34482	NM_207529	ENSMUSG00000067577	A430093F15Rik	Gm674	RIKEN cDNA A430093F15 gene	ncRNA	4.5	15.0	13.0	109.5	20.0	13.0	15.0	5.5
Merged-chr12-87388466-4	chr12	87388371	87388571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011479)	promoter-TSS (NM_011479)	-116.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	348.0	552.5	321.5	4770.5	855.5	389.5	344.5	306.0
Merged-chr10-79909307-4	chr10	79909191	79909391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359629)	promoter-TSS (NM_001359629)	-353.0	NM_001359629	216154.0	Mm.260089	NM_198107	ENSMUSG00000013833	Med16	95kDa|A630083L04|DRIP92|Thrap5|Trap95	mediator complex subunit 16	protein-coding	65.0	78.0	64.0	391.5	110.0	49.0	52.0	69.0
Merged-chr5-33652481-5	chr5	33652309	33652509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001356983)	TTS (NM_001356983)	165.0	NM_001289725	20492.0	Mm.4172	NM_009193	ENSMUSG00000004642	Slbp	-	stem-loop binding protein	protein-coding	62.5	138.0	84.0	932.0	202.0	125.5	113.0	102.0
Merged-chr18-43492985-4	chr18	43492885	43493085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-54699.0	NM_001291455	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	6.5	20.0	17.5	258.0	41.5	14.0	19.5	6.0
Merged-chr4-125118152-4	chr4	125118055	125118255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153159)	TTS (NM_153159)	9726.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	94.0	117.0	98.5	1737.5	199.0	63.5	73.0	95.0
Merged-chr9-114844884-2	chr9	114844784	114844984	+	966.0	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_027294)	promoter-TSS (NM_027294)	-732.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	16.5	24.0	12.5	282.5	37.0	8.5	9.0	20.0
Merged-chr17-45557546-4	chr17	45557440	45557640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008690, intron 1 of 5)	intron (NM_008690, intron 1 of 5)	1840.0	NM_001304956	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	57.5	103.0	53.5	342.5	158.0	71.0	70.5	42.5
Merged-chr6-113690615-4	chr6	113690517	113690717	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 10 of 11)	RLTR35B_MM|LTR|ERVL	-6433.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	26.0	12.0	15.5	502.0	51.0	21.5	14.5	22.5
Merged-chr12-88445645-4	chr12	88445558	88445758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361598, intron 5 of 9)	intron (NM_001361598, intron 5 of 9)	-68335.0	NR_045888	71818.0	Mm.490789	NR_045888	ENSMUSG00000113434	3200001D21Rik	-	RIKEN cDNA 3200001D21 gene	ncRNA	41.5	59.0	42.0	881.5	132.5	35.5	46.5	41.0
Merged-chr9-57765119-4	chr9	57765054	57765254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007713, exon 1 of 13)	exon (NM_007713, exon 1 of 13)	706.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	83.0	148.0	58.0	1076.0	247.5	94.5	134.0	138.5
Merged-chr10-80855235-4	chr10	80855130	80855330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025349)	promoter-TSS (NM_025349)	-21.0	NM_001359148	66094.0	Mm.379101	NM_025349	ENSMUSG00000035215	Lsm7	0910001B06Rik|1110033F18Rik	LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	61.0	108.0	48.5	841.5	245.0	73.0	86.0	103.0
Merged-chr3-31435763-3	chr3	31435667	31435867	+	944.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125448.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	15.5	11.0	25.0	288.5	18.5	2.5	20.5	12.0
Merged-chr9-108005306-3	chr9	108005216	108005416	+	877.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013785, intron 1 of 5)	intron (NM_013785, intron 1 of 5)	2668.0	NM_013785	27399.0	Mm.276155	NM_013785	ENSMUSG00000032594	Ip6k1	1200016D08Rik|AU022776|Ihpk1|InsP6|InsP6k1|Itpk6	inositol hexaphosphate kinase 1	protein-coding	5.5	10.0	6.5	144.5	14.5	10.0	13.5	10.5
Merged-chr6-108828457-4	chr6	108828339	108828539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138677)	promoter-TSS (NM_138677)	-202.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	481.5	633.0	572.5	8553.5	1131.5	434.0	650.0	427.5
Merged-chr13-22041005-1	chr13	22040905	22041105	+	1000.0	f0_balb.idr	TTS (NM_175656)	TTS (NM_175656)	357.0	NM_175656	319158.0	Mm.14775	NM_175656	ENSMUSG00000060639	Hist1h4i	-	histone cluster 1, H4i	protein-coding	30.0	43.5	13.0	256.5	33.5	19.0	21.0	35.0
Merged-chr8-120441932-3	chr8	120441836	120442036	+	993.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46930.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	3.5	4.5	9.5	182.0	14.5	5.0	13.0	12.5
Merged-chr12-52502321-4	chr12	52502228	52502428	+	961.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13749.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	29.0	19.5	11.5	527.0	62.0	20.0	18.5	23.5
Merged-chr5-124538972-4	chr5	124538892	124539092	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-1799.0	NM_019770	56334.0	Mm.325307	NM_019770	ENSMUSG00000029390	Tmed2	1110032D12Rik|1810020N21Rik|Rnp24|Sid394|p24beta1	transmembrane p24 trafficking protein 2	protein-coding	4.0	12.0	10.0	168.0	19.5	5.0	12.0	10.5
Merged-chr7-98711717-4	chr7	98711631	98711831	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355114, intron 4 of 5)	intron (NM_001355114, intron 4 of 5)	8484.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	17.5	25.5	23.5	260.5	35.5	6.0	14.5	18.0
Merged-chr3-108886277-4	chr3	108886152	108886352	+	717.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165965, intron 2 of 11)	intron (NM_001165965, intron 2 of 11)	3756.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	8.5	11.0	4.0	62.5	25.0	6.0	9.5	7.5
Merged-chr11-50225950-6	chr11	50225923	50226123	+	909.513916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145926, intron 1 of 14)	intron (NM_145926, intron 1 of 14)	688.0	NM_145926	103534.0	Mm.86759	NM_145926	ENSMUSG00000036620	Mgat4b	AA407995|GnTIVb	mannoside acetylglucosaminyltransferase 4, isoenzyme B	protein-coding	6.5	17.5	11.0	119.5	11.5	6.0	10.5	4.5
Merged-chr7-73527434-4	chr7	73527331	73527531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	14315.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	40.0	44.0	30.0	609.5	103.5	41.0	42.0	46.5
Merged-chr10-81060302-4	chr10	81060203	81060403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024499)	promoter-TSS (NM_024499)	-32.0	NM_024499	52551.0	Mm.30068	NM_024499	ENSMUSG00000004937	Sgta	5330427H01Rik|AI194281|D10Ertd190e|Sgt|Stg	small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha	protein-coding	84.5	198.0	77.0	763.5	259.0	133.0	77.5	111.5
Merged-chr16-21694215-4	chr16	21694117	21694317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001001881, exon 1 of 2)	exon (NM_001001881, exon 1 of 2)	448.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	53.0	113.5	63.5	736.5	142.0	48.0	54.5	29.5
Merged-chr2-38927315-4	chr2	38927197	38927397	+	975.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010264)	promoter-TSS (NM_010264)	-836.0	NM_010264	14536.0	Mm.439703	NM_010264	ENSMUSG00000063972	Nr6a1	1700113M01Rik|Gcnf|NCNF|RTR	nuclear receptor subfamily 6, group A, member 1	protein-coding	24.0	25.5	21.5	140.5	48.0	17.5	28.0	25.0
Merged-chr4-155492472-4	chr4	155492387	155492587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160017, intron 1 of 10)	CpG	1126.0	NM_001160016	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	17.0	30.0	31.0	282.5	52.5	20.0	26.5	32.0
Merged-chr14-121798503-4	chr14	121798349	121798549	+	974.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134074)	promoter-TSS (NM_134074)	-715.0	NM_134074	105445.0	Mm.378591	NM_134074	ENSMUSG00000025558	Dock9	AA959601|AW538057|B230309H04Rik|D14Wsu89e|Zizimin1|mKIAA1058	dedicator of cytokinesis 9	protein-coding	36.0	54.0	40.0	337.5	50.0	7.0	30.0	26.0
Merged-chr6-57534936-4	chr6	57534846	57535046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175523, intron 1 of 6)	intron (NM_175523, intron 1 of 6)	480.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	18.5	9.5	23.0	143.5	29.5	11.5	17.0	21.0
Merged-chr13-44734515-4	chr13	44734390	44734590	+	895.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	intron (NM_001205043, intron 1 of 17)	3219.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	12.5	33.0	11.0	35.5	26.5	12.5	13.5	9.0
Merged-chr10-42679880-4	chr10	42679785	42679985	+	869.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172416, intron 1 of 5)	intron (NM_172416, intron 1 of 5)	969.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	6.5	9.5	7.0	210.0	22.5	6.0	7.0	17.5
Merged-chr5-100570833-3	chr5	100570755	100570955	+	648.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 1 of 4)	intron (NM_139198, intron 1 of 4)	1350.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	9.0	5.0	5.5	58.0	23.0	6.5	8.0	10.0
Merged-chr10-94344735-3	chr10	94344586	94344786	+	929.1222529999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	32737.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	8.5	5.0	0.5	32.5	19.5	12.5	19.5	5.5
Merged-chr5-124425833-6	chr5	124425740	124425940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359978)	promoter-TSS (NM_001359978)	117.0	NM_001081203	243272.0	Mm.23879	NM_145631	ENSMUSG00000038095	Sbno1	9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno	strawberry notch 1	protein-coding	56.0	112.0	67.5	854.0	164.0	83.0	41.0	78.0
Merged-chr9-90244580-4	chr9	90244484	90244684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 2 of 12)	intron (NM_194334, intron 2 of 12)	26185.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	71.0	117.0	130.0	868.5	232.5	62.5	96.5	49.5
Merged-chr12-111430051-4	chr12	111429926	111430126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 13 of 13)	intron (NM_001289487, intron 13 of 13)	12581.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	58.5	143.5	74.5	410.0	205.5	109.5	61.0	40.5
Merged-chr19-28777983-4	chr19	28777904	28778104	+	969.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-57162.0	NM_009199	20510.0	Mm.246670	NM_009199	ENSMUSG00000024935	Slc1a1	D130048G10Rik|EAAC1|EAAC2|EAAT3|MEAAC1	solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1	protein-coding	16.0	22.0	35.0	301.0	41.5	16.5	22.0	26.0
Merged-chr19-8683248-4	chr19	8683165	8683365	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001112697, exon 3 of 3)	3' UTR (NM_001112697, exon 3 of 3)	19260.0	NM_001112697	12669.0	Mm.240607	NM_007698	ENSMUSG00000032773	Chrm1	Chrm-1|M1|M1R	cholinergic receptor, muscarinic 1, CNS	protein-coding	13.5	17.5	10.0	232.5	27.0	21.0	15.5	12.5
Merged-chr19-4058428-2	chr19	4058328	4058528	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144869, intron 4 of 6)	intron (NM_144869, intron 4 of 6)	1019.0	NM_144869	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	6.5	4.0	2.0	31.5	26.0	7.0	5.0	8.5
Merged-chr13-24792531-4	chr13	24792406	24792606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9151.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	50.5	70.0	64.0	1072.0	176.0	69.0	79.5	51.0
Merged-chr9-44344001-4	chr9	44343888	44344088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013551, intron 1 of 13)	CpG	240.0	NM_013551	15288.0	Mm.247676	NM_013551	ENSMUSG00000032126	Hmbs	PBGD|T25658|Ups|Uros1	hydroxymethylbilane synthase	protein-coding	99.0	160.5	123.5	1286.0	233.0	126.5	91.0	125.0
Merged-chr13-104041208-4	chr13	104041114	104041314	+	935.6166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029447, intron 9 of 12)	intron (NM_029447, intron 9 of 12)	68400.0	NM_029447	75805.0	Mm.127692	NM_029447	ENSMUSG00000021710	Nln	4930472G13Rik|C79345	neurolysin (metallopeptidase M3 family)	protein-coding	18.5	27.0	11.5	421.5	61.0	3.5	23.0	17.5
Merged-chr2-122409166-4	chr2	122409064	122409264	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31656.0	NM_172980	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	8.5	21.5	12.0	355.5	41.5	24.5	17.0	18.0
Merged-chr1-160211842-4	chr1	160211759	160211959	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009786, intron 1 of 5)	intron (NM_009786, intron 1 of 5)	1033.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	28.0	37.0	23.0	595.0	29.5	12.5	19.0	15.0
Merged-chr2-102839288-3	chr2	102839187	102839387	+	951.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 6 of 13)	intron (NM_001039150, intron 6 of 13)	62378.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	19.0	15.5	11.0	230.5	21.5	6.5	2.0	3.5
Merged-chr11-31808120-4	chr11	31808054	31808254	+	935.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102312, intron 1 of 4)	intron (NR_102312, intron 1 of 4)	16393.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	28.0	21.0	10.5	247.5	42.0	13.5	3.0	11.5
Merged-chr4-45013233-4	chr4	45013131	45013331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163284)	promoter-TSS (NM_001163284)	-819.0	NM_173399	230119.0	Mm.44222	NM_173399	ENSMUSG00000049657	Zbtb5	5930421I10|9430083K24Rik|AI646847|mKIAA0354	zinc finger and BTB domain containing 5	protein-coding	20.0	33.5	21.0	265.5	50.5	20.0	16.0	16.5
Merged-chr13-55714688-4	chr13	55714568	55714768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175150)	promoter-TSS (NM_175150)	18.0	NM_175150	69672.0	Mm.294457	NM_175150	ENSMUSG00000021497	Txndc15	2310047H23Rik|AI854086|C5orf14|UNQ335	thioredoxin domain containing 15	protein-coding	44.5	98.5	24.0	474.5	114.5	26.5	45.0	34.5
Merged-chr1-119895185-3	chr1	119895091	119895291	+	955.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17977.0	NM_175106	66343.0	Mm.49942	NM_175106	ENSMUSG00000036975	Tmem177	2300008B03Rik	transmembrane protein 177	protein-coding	15.0	4.0	13.0	133.5	17.0	9.5	9.0	10.0
Merged-chr18-75697641-4	chr18	75697534	75697734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201354)	promoter-TSS (NM_201354)	62.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	54.5	72.5	100.5	895.5	128.5	42.0	67.0	66.5
Merged-chr15-63985910-4	chr15	63985861	63986061	+	840.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	intron (NM_144846, intron 1 of 11)	12105.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	19.0	6.0	6.0	100.0	15.5	8.5	10.0	11.0
Merged-chr3-108151493-4	chr3	108151410	108151610	+	943.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001305461, exon 2 of 3)	5' UTR (NM_001305461, exon 2 of 3)	3422.0	NM_001305461	229714.0	Mm.73666	NM_175470	ENSMUSG00000046793	Gpr61	-	G protein-coupled receptor 61	protein-coding	10.0	20.5	13.5	158.5	23.0	11.0	20.0	15.5
Merged-chr1-157443896-3	chr1	157443759	157443959	+	820.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14709.0	NM_001356418	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	6.5	7.0	6.5	62.5	8.5	10.0	1.0	7.0
Merged-chr7-30650283-4	chr7	30650170	30650370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133693)	promoter-TSS (NM_133693)	-42.0	NM_133693	68035.0	Mm.401747	NM_133693	ENSMUSG00000036733	Rbm42	1700003D06Rik|3100004P22Rik	RNA binding motif protein 42	protein-coding	224.5	419.0	203.5	3341.5	606.0	224.5	240.5	189.0
Merged-chr9-83400930-3	chr9	83400810	83401010	+	776.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029434, intron 4 of 7)	GA-rich|Low_complexity|Low_complexity	-30637.0	NR_102437	100039186.0	Mm.212721	NR_102437	ENSMUSG00000099718	Gm2087	-	predicted gene 2087	ncRNA	15.0	11.5	14.5	236.0	10.0	1.5	15.0	9.0
Merged-chr15-96658948-4	chr15	96658836	96659036	+	912.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16023.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	10.5	25.0	14.0	213.5	17.5	13.5	17.5	14.5
Merged-chr8-15519942-4	chr8	15519848	15520048	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	462295.0	NM_008664	17930.0	Mm.272115	NM_008664	ENSMUSG00000031461	Myom2	AW146149	myomesin 2	protein-coding	20.0	29.5	26.0	77.0	23.5	23.0	7.0	19.5
Merged-chr15-59081385-6	chr15	59081293	59081493	+	836.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 1 of 14)	CpG	633.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	13.5	12.5	14.5	158.5	26.5	13.5	8.0	16.0
Merged-chr15-31413113-3	chr15	31413023	31413223	+	821.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	40566.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	12.5	21.0	9.0	124.5	15.0	9.0	8.0	8.5
Merged-chr16-43953197-4	chr16	43953089	43953289	+	900.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027801, intron 12 of 15)	MTD|LTR|ERVL-MaLR	25861.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	10.5	12.0	21.0	180.5	32.5	5.5	18.0	11.0
Merged-chr11-83224391-4	chr11	83224281	83224481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015519, intron 2 of 3)	intron (NR_015519, intron 2 of 3)	805.0	NR_015519	100043636.0	Mm.295569	NR_015519	ENSMUSG00000087107	AI662270	AW496474	expressed sequence AI662270	ncRNA	61.0	80.0	61.0	762.5	193.5	58.0	57.5	71.5
Merged-chr2-91457718-2	chr2	91457618	91457818	+	994.333374	f1_balb.idr|f1_c57bl6.idr	exon (NM_001145857, exon 1 of 12)	exon (NM_001145857, exon 1 of 12)	187.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	4.0	5.0	6.0	63.0	18.5	5.0	4.5	6.5
Merged-chr10-81291738-4	chr10	81291633	81291833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282095)	promoter-TSS (NM_001282095)	-152.0	NM_001282095	27375.0	Mm.27984	NM_013769	ENSMUSG00000034917	Tjp3	-	tight junction protein 3	protein-coding	46.5	64.0	30.5	546.0	114.0	59.5	35.0	56.0
Merged-chr8-82774156-4	chr8	82774061	82774261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145600)	promoter-TSS (NM_145600)	-35.0	NM_145600	30932.0	Mm.269248	NM_145600	ENSMUSG00000031711	Zfp330	BC008086|Noa36|Znf330	zinc finger protein 330	protein-coding	78.5	91.5	74.5	1260.0	151.0	53.5	83.5	73.5
Merged-chr4-32352127-4	chr4	32352031	32352231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER119|DNA|hAT-Charlie	-65304.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	57.0	98.0	114.0	1880.0	88.5	18.5	45.0	47.0
Merged-chr17-22225183-1	chr17	22225083	22225283	+	811.0	f0_c57.idr	intron (NM_001205095, intron 1 of 4)	Lx2|LINE|L1	431.0	NM_001205095	240038.0	Mm.227945	NM_001205095	ENSMUSG00000096433	Zfp994	EG240038|Gm4944	zinc finger protein 994	protein-coding	1.0	2.0	0.0	4.0	57.0	9.5	23.5	8.0
Merged-chr5-20951138-7	chr5	20951082	20951282	+	997.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030699, exon 1 of 1)	non-coding (NR_030699, exon 1 of 1)	193.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	11.0	31.5	10.0	242.0	58.5	14.0	12.0	21.0
Merged-chr7-132735393-4	chr7	132735287	132735487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347630, intron 3 of 3)	intron (NM_001347630, intron 3 of 3)	41529.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	64.0	110.0	71.5	1030.0	103.0	49.0	82.0	42.0
Merged-chr19-5599396-3	chr19	5599305	5599505	+	931.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2468.0	NM_026616	68209.0	Mm.246200	NM_026616	ENSMUSG00000024925	Rnaseh2c	1500026D16Rik|AYP1	ribonuclease H2, subunit C	protein-coding	18.0	16.5	17.5	366.0	2.0	0.5	0.0	0.5
Merged-chr13-98944795-4	chr13	98944689	98944889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18405.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	32.5	43.0	30.0	368.5	66.0	35.0	37.0	23.0
Merged-chr1-64360691-4	chr1	64360604	64360804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172100.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	31.0	30.0	49.0	634.0	48.0	20.5	28.5	26.0
Merged-chr2-31172270-4	chr2	31172209	31172409	+	985.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178760, intron 5 of 17)	intron (NM_178760, intron 5 of 17)	19993.0	NM_178760	277463.0	Mm.236074	NM_178760	ENSMUSG00000000194	Gpr107	9930033D15Rik|AI790205|C530034M11|mKIAA1624	G protein-coupled receptor 107	protein-coding	20.5	31.0	15.5	460.0	29.0	12.5	26.0	27.0
Merged-chr18-67641487-4	chr18	67641377	67641577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134138)	promoter-TSS (NM_134138)	-122.0	NM_001081073	225659.0	Mm.111928	NM_001081073	ENSMUSG00000073542	Cep76	6230425F05Rik|9630013E05	centrosomal protein 76	protein-coding	76.0	99.5	82.0	907.5	106.5	43.0	47.5	60.5
Merged-chr1-54920294-4	chr1	54920191	54920391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	6096.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	26.0	41.5	24.5	586.0	58.5	16.0	25.0	21.5
Merged-chr10-128373494-4	chr10	128373378	128373578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3441.0	NM_001081040	210582.0	Mm.296876	NM_001081040	ENSMUSG00000039914	Coq10a	Gm1	coenzyme Q10A	protein-coding	241.0	356.5	238.5	3992.5	602.0	228.5	278.5	266.5
Merged-chr1-59604131-3	chr1	59604029	59604229	+	762.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 12 of 19)	intron (NM_001013771, intron 12 of 19)	66705.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	8.5	5.0	4.5	133.5	10.5	4.0	11.5	0.5
Merged-chr12-100639962-1	chr12	100639862	100640062	+	672.0	f0_balb.idr	intron (NM_153587, intron 3 of 17)	intron (NM_153587, intron 3 of 17)	85158.0	NM_001330702	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	6.0	17.0	6.0	101.0	10.0	7.0	5.0	11.0
Merged-chr19-43511271-3	chr19	43511157	43511357	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 2 of 8)	intron (NM_010324, intron 2 of 8)	13348.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	8.5	4.5	16.0	181.0	13.5	7.0	10.0	10.0
Merged-chr12-80946163-4	chr12	80946077	80946277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045057)	promoter-TSS (NR_045057)	678.0	NM_001347415	20384.0	Mm.43331	NM_009159	ENSMUSG00000021134	Srsf5	Sfrs5	serine/arginine-rich splicing factor 5	protein-coding	259.0	463.0	249.0	3278.0	685.5	235.5	293.5	252.5
Merged-chr17-21449881-4	chr17	21449780	21449980	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308323)	promoter-TSS (NM_001308323)	-494.0	NM_001308323	22709.0	Mm.293030	NM_009558	ENSMUSG00000023892	Zfp51	Zfp-51|zfec12	zinc finger protein 51	protein-coding	18.5	28.5	23.0	296.5	59.5	28.0	30.5	18.5
Merged-chr16-75961255-4	chr16	75961148	75961348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39536.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	176.0	227.0	150.0	2524.0	371.0	191.0	210.5	136.5
Merged-chr7-4812822-4	chr7	4812718	4812918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133777)	promoter-TSS (NM_133777)	-478.0	NM_133777	77891.0	Mm.389787	NM_133777	ENSMUSG00000060860	Ube2s	0910001J09Rik|6720465F12Rik|AA409170|E2-EPF	ubiquitin-conjugating enzyme E2S	protein-coding	258.0	380.5	235.0	3208.0	689.0	295.0	340.0	242.5
Merged-chr2-152112106-4	chr2	152111990	152112190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029688)	TTS (NM_029688)	6566.0	NM_029688	76650.0	Mm.218639	NM_029688	ENSMUSG00000032802	Srxn1	1700127B04Rik|AI854065|AW488194|Npn3|Srx|Srx1|TX01	sulfiredoxin 1 homolog (S. cerevisiae)	protein-coding	35.5	75.5	21.0	601.0	110.0	47.5	55.5	61.5
Merged-chr10-21688524-2	chr10	21688424	21688624	+	609.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2321.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	4.5	5.0	4.5	126.5	12.0	0.0	2.5	0.5
Merged-chr4-46555896-4	chr4	46555831	46556031	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 2 of 11)	intron (NM_001164804, intron 2 of 11)	10509.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	50.0	46.0	44.5	679.5	89.0	17.5	45.5	52.5
Merged-chr5-21326692-3	chr5	21326596	21326796	+	900.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 4 of 18)	intron (NM_029195, intron 4 of 18)	-45977.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	11.0	20.0	7.0	114.5	20.5	12.5	17.5	7.5
Merged-chr7-105736515-4	chr7	105736395	105736595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025897)	promoter-TSS (NM_025897)	89.0	NM_025897	101867.0	Mm.231400	NM_025897	ENSMUSG00000030888	Rrp8	1500003O22Rik|2900001K19Rik|AW538116	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	protein-coding	229.5	386.5	272.5	3945.0	527.0	171.0	276.5	180.5
Merged-chr11-70670034-6	chr11	70669909	70670109	+	892.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172561)	promoter-TSS (NM_172561)	-593.0	NM_001167669	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	10.5	7.5	6.0	64.0	15.5	8.5	5.5	9.0
Merged-chr12-5206583-2	chr12	5206483	5206683	+	929.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 3 of 13)	intron (NM_001164493, intron 3 of 13)	169099.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	2.5	1.0	8.0	67.5	10.0	5.0	6.0	5.5
Merged-chr6-125342350-4	chr6	125342247	125342447	+	923.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 7 of 11)	L1M4|LINE|L1	-7376.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	3.5	9.0	7.5	124.5	33.5	20.0	20.0	24.0
Merged-chr10-80074337-4	chr10	80074253	80074453	+	767.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359635, intron 4 of 31)	intron (NM_001359635, intron 4 of 31)	1086.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	8.5	15.0	6.0	73.5	32.0	12.0	7.5	14.5
Merged-chr10-51824093-4	chr10	51824007	51824207	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-66913.0	NR_045158	71090.0	Mm.72588	NM_027670	ENSMUSG00000062224	4933411G06Rik	-	Sumo1 pseudogene	pseudo	15.0	16.0	14.5	192.5	46.0	16.0	19.0	10.0
Merged-chr7-29303926-4	chr7	29303821	29304021	+	868.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013874)	promoter-TSS (NM_013874)	-84.0	NM_013874	29861.0	Mm.101885	NM_013874	ENSMUSG00000030584	Dpf1	Neud4	D4, zinc and double PHD fingers family 1	protein-coding	8.5	12.0	3.0	180.0	33.5	14.0	16.5	16.0
Merged-chr19-21384131-4	chr19	21384030	21384230	+	842.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	88531.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	6.0	8.5	27.5	167.5	29.5	10.5	11.5	12.5
Merged-chr10-19506623-4	chr10	19506504	19506704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152785, intron 2 of 2)	intron (NR_152785, intron 2 of 2)	11961.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	32.0	25.5	34.5	443.5	54.0	28.0	31.0	31.5
Merged-chr15-89181926-4	chr15	89181768	89181968	+	876.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027081)	TTS (NM_027081)	-1080.0	NM_138749	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	9.0	18.0	10.0	127.0	25.0	7.5	3.5	12.5
Merged-chr1-59613984-4	chr1	59613890	59614090	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 13 of 19)	intron (NM_001013771, intron 13 of 19)	56844.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	25.5	37.5	14.0	276.0	47.0	26.5	22.5	24.0
Merged-chr1-63114543-6	chr1	63114435	63114635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081436)	promoter-TSS (NM_001081436)	64.0	NR_045915	100380944.0	Mm.392955	NR_045914	ENSMUSG00000084799	Ino80dos	Gm11602	INO80 complex subunit D, opposite strand	ncRNA	46.0	76.5	65.0	532.0	114.0	59.0	35.0	79.5
Merged-chr4-154943907-1	chr4	154943807	154944007	+	546.0	f0_c57.idr	Intergenic	Intergenic	-15830.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	6.0	32.0	7.5	97.0	38.5	11.0	9.5	7.5
Merged-chr5-124862989-1	chr5	124862889	124863089	+	990.0	f0_balb.idr	promoter-TSS (NM_144819)	promoter-TSS (NM_144819)	284.0	NM_001081750	269704.0	Mm.138617	NM_001081750	ENSMUSG00000079215	Zfp664	AW060232|D930038J03Rik|ZFOC1|Znf664	zinc finger protein 664	protein-coding	8.5	9.5	11.5	144.0	12.5	9.5	7.0	17.0
Merged-chr7-126976121-4	chr7	126976007	126976207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362232)	promoter-TSS (NM_001362232)	193.0	NM_001347656	52858.0	Mm.28219	NM_026638	ENSMUSG00000030682	Cdipt	9530042F15Rik|D7Bwg0575e|Pis|Pis1	CDP-diacylglycerol--inositol 3-phosphatidyltransferase (phosphatidylinositol synthase)	protein-coding	84.0	104.0	47.0	725.0	225.5	73.5	82.5	84.0
Merged-chr14-51941393-4	chr14	51941274	51941474	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18601.0	NM_001011687	497071.0	Mm.378602	NM_001011687	ENSMUSG00000068392	Rnase13	-	ribonuclease, RNase A family, 13 (non-active)	protein-coding	55.5	82.0	55.0	573.0	73.0	31.5	41.0	21.5
Merged-chr4-45455314-3	chr4	45455209	45455409	+	990.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 3 of 5)	intron (NM_001033306, intron 3 of 5)	-46543.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	11.5	10.5	18.5	195.0	12.5	5.5	2.5	2.5
Merged-chr1-155049190-4	chr1	155049102	155049302	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34062.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	21.0	32.5	14.0	265.5	47.5	12.0	27.0	21.5
Merged-chr17-10558884-3	chr17	10558789	10558989	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 4 of 4)	Lx8|LINE|L1	102673.0	NR_077238	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	8.0	12.5	35.5	399.0	19.0	3.0	8.5	13.5
Merged-chr3-94612456-4	chr3	94612346	94612546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011656)	TTS (NM_011656)	-29730.0	NM_029721	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	58.5	41.0	47.0	972.5	108.5	22.0	62.0	49.0
Merged-chr12-38814144-3	chr12	38814068	38814268	+	960.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163154, intron 2 of 9)	intron (NM_001163154, intron 2 of 9)	30457.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	14.0	16.0	14.0	174.5	16.5	6.0	3.5	7.0
Merged-chr14-73389288-4	chr14	73389185	73389385	+	845.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3996.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	15.5	16.0	8.5	262.0	22.0	10.5	8.0	11.5
Merged-chr19-18647038-4	chr19	18646941	18647141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145497, intron 8 of 8)	PB1D10|SINE|Alu	15025.0	NM_145497	225994.0	Mm.211595	NM_145497	ENSMUSG00000037847	Nmrk1	AA408380|D630020N23Rik|Nrk1	nicotinamide riboside kinase 1	protein-coding	68.0	54.5	90.0	1594.5	119.0	44.0	58.0	34.5
Merged-chr7-63912173-4	chr7	63912095	63912295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-4662.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	69.5	72.5	75.0	1010.0	177.0	61.5	71.5	63.5
Merged-chr15-8681282-3	chr15	8681164	8681364	+	933.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 3 of 9)	intron (NM_148938, intron 3 of 9)	29543.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	17.0	6.5	4.5	193.5	32.0	5.5	10.5	7.0
Merged-chr17-27557050-14	chr17	27557085	27557285	+	931.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039356, intron 2 of 5)	CpG-6152	532.0	NM_001166477	111241.0	Mm.426212	NM_001166476	ENSMUSG00000078249	Hmga1b	Hmga1-rs1|Hmgi-rs1	high mobility group AT-hook 1B	protein-coding	10.0	10.5	21.0	117.5	38.0	12.5	5.5	17.0
Merged-chr6-82808192-4	chr6	82808096	82808296	+	869.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33742.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	4.5	14.0	13.5	196.0	20.5	12.5	6.5	16.0
Merged-chr5-72170311-4	chr5	72170210	72170410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2121.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	82.0	150.5	112.5	1668.5	218.0	87.5	86.0	92.5
Merged-chr3-69228208-2	chr3	69228108	69228308	+	704.708374	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	5789.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	6.0	0.0	8.0	59.0	28.5	4.5	6.5	8.5
Merged-chr16-95648043-4	chr16	95647963	95648163	+	762.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54344.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	5.5	8.5	6.5	88.5	24.0	3.0	9.5	10.0
Merged-chr13-95942059-4	chr13	95941950	95942150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR73|LTR|ERV1	-50128.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	32.0	53.5	37.0	665.0	79.5	26.5	40.0	48.5
Merged-chr11-69934362-4	chr11	69934269	69934469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1530.0	NM_016875	53422.0	Mm.29286	NM_016875	ENSMUSG00000018554	Ybx2	Msy2	Y box protein 2	protein-coding	17.5	28.0	6.5	210.0	41.0	16.0	26.0	32.5
Merged-chr14-16365049-4	chr14	16364920	16365120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009409)	promoter-TSS (NM_009409)	-186.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	266.0	321.0	278.5	4102.0	649.5	203.0	298.0	215.0
Merged-chr15-99771977-3	chr15	99771875	99772075	+	721.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028015, intron 1 of 9)	CpG	540.0	NM_028015	71949.0	Mm.390821	NM_028015	ENSMUSG00000023021	Cers5	2310081H14Rik|AU045339|AW544927|Lass5|Trh4	ceramide synthase 5	protein-coding	11.0	5.0	12.5	81.5	15.0	5.0	5.0	9.0
Merged-chr5-135184664-4	chr5	135184563	135184763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-2660.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	29.5	44.0	24.0	333.5	89.5	20.5	25.0	31.0
Merged-chr3-152406169-4	chr3	152406070	152406270	+	934.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287139, intron 1 of 13)	intron (NM_001287139, intron 1 of 13)	9486.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	12.5	14.5	12.0	348.0	32.0	19.0	24.0	16.5
Merged-chr13-36132249-5	chr13	36132239	36132439	+	935.339417	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 1 of 5)	intron (NM_001039189, intron 1 of 5)	14696.0	NM_001039189	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	7.5	9.5	6.0	85.5	21.5	11.5	4.0	13.0
Merged-chr2-117146220-4	chr2	117146119	117146319	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277256, intron 1 of 4)	intron (NM_001277256, intron 1 of 4)	25148.0	NM_033524	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	6.0	34.5	15.0	207.0	42.0	22.0	7.5	7.5
Merged-chr5-29950600-4	chr5	29950514	29950714	+	985.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA9|LINE|L1	-62500.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	24.5	27.5	13.0	227.5	56.0	22.0	23.5	9.0
Merged-chr11-115119680-4	chr11	115119580	115119780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169153, intron 4 of 6)	intron (NM_001169153, intron 4 of 6)	14312.0	NM_001347648	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	59.5	96.5	65.5	944.5	154.5	34.0	41.5	63.0
Merged-chr5-33005589-3	chr5	33005491	33005691	+	905.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13225.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	16.0	9.5	15.5	83.5	15.5	5.0	6.5	24.0
Merged-chr2-130179376-4	chr2	130179318	130179518	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009225)	promoter-TSS (NM_009225)	-54.0	NM_009225	20638.0	Mm.88216	NM_009225	ENSMUSG00000027404	Snrpb	AL024368|AU018828|SM-B|SM11|SMB|SNRNP-B	small nuclear ribonucleoprotein B	protein-coding	26.5	40.5	13.0	233.5	65.5	22.5	15.5	24.5
Merged-chr8-82874359-4	chr8	82874247	82874447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	ORR1D2|LTR|ERVL-MaLR	10991.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	42.0	39.5	59.5	642.5	62.0	37.5	44.5	29.0
Merged-chr11-21224614-4	chr11	21224511	21224711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14421.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	43.0	87.0	41.0	597.5	137.5	38.0	49.5	33.5
Merged-chr5-98030528-4	chr5	98030438	98030638	+	859.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133738, exon 1 of 17)	exon (NM_133738, exon 1 of 17)	424.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	8.5	8.0	17.0	176.0	21.0	7.5	11.0	11.5
Merged-chr5-67845420-4	chr5	67845335	67845535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	1996.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	14.5	23.5	32.5	348.0	39.5	13.5	15.0	27.0
Merged-chr6-146640795-4	chr6	146640714	146640914	+	842.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1765.0	NM_025315	108098.0	Mm.26212	NM_025315	ENSMUSG00000030291	Med21	0610007L03Rik|AI449604|D19234|D6Ertd782e|Srb7|Surb7	mediator complex subunit 21	protein-coding	14.0	19.0	14.0	140.5	22.0	10.0	9.0	11.5
Merged-chr1-144247110-4	chr1	144247015	144247215	+	903.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015811, intron 3 of 4)	intron (NM_015811, intron 3 of 4)	1989.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	17.5	11.5	7.0	189.0	25.5	13.5	11.0	10.0
Merged-chr3-27217230-4	chr3	27217157	27217357	+	939.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	34253.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	18.5	17.0	4.0	176.5	31.5	6.5	5.5	8.0
Merged-chr13-62015927-3	chr13	62015806	62016006	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113984.0	NM_001039239	630579.0	Mm.440905	NM_001039239	ENSMUSG00000074867	Zfp808	EG630579|Gm7036	zinc finger protein 808	protein-coding	0.0	0.0	0.0	0.0	89.5	24.5	48.0	39.5
Merged-chr16-77174912-4	chr16	77174821	77175021	+	942.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-154407.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	21.0	28.0	19.5	425.0	29.5	11.0	22.0	32.0
Merged-chr2-59211912-4	chr2	59211833	59212033	+	978.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	L3|LINE|CR1	51083.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	16.5	15.5	19.0	426.5	35.5	12.5	12.0	13.5
Merged-chr8-70634259-4	chr8	70634128	70634328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1772.0	NM_001330687	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	95.0	124.5	58.0	1207.5	207.0	54.5	96.5	85.5
Merged-chr2-156540770-4	chr2	156540770	156540970	+	887.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013510, exon 22 of 22)	3' UTR (NM_013510, exon 22 of 22)	-6706.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	10.0	14.0	3.5	116.5	19.0	11.0	6.0	12.0
Merged-chr17-46835626-4	chr17	46835519	46835719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-4206.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	32.0	47.0	37.5	385.0	80.5	23.0	39.5	19.0
Merged-chr4-15986683-4	chr4	15986584	15986784	+	859.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013752, intron 13 of 15)	intron (NM_013752, intron 13 of 15)	27154.0	NM_001355615	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	9.5	13.0	6.0	159.0	37.0	13.0	8.0	9.5
Merged-chr4-8691112-4	chr4	8691026	8691226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277149, intron 1 of 37)	CpG	720.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	27.5	23.0	24.5	667.0	54.5	23.0	27.0	24.0
Merged-chr5-109751846-4	chr5	109751746	109751946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82296.0	NR_027964	667213.0	Mm.454429	NR_027964	ENSMUSG00000105044	Gm10416	EG667213	zinc finger protein pseudogene	pseudo	54.5	77.0	126.5	902.0	61.0	38.0	36.5	62.5
Merged-chr8-10910657-4	chr8	10910570	10910770	+	972.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10748.0	NR_102285	71624.0	Mm.139075	NR_102285	ENSMUSG00000109089	4833411C07Rik	-	RIKEN cDNA 4833411C07 gene	ncRNA	47.0	42.5	54.0	943.0	54.5	11.0	30.5	31.0
Merged-chr11-119491432-4	chr11	119491343	119491543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153849)	promoter-TSS (NR_153849)	96.0	NM_001164636	338371.0	Mm.271946	NM_177394	ENSMUSG00000039850	Endov	A730011L01Rik	endonuclease V	protein-coding	52.0	116.0	74.5	814.5	129.0	63.5	39.0	63.0
Merged-chr2-79131449-4	chr2	79131345	79131545	+	874.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123981.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	19.0	15.0	16.5	178.0	25.0	16.5	13.5	1.5
Merged-chr10-94473563-3	chr10	94473446	94473646	+	759.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-41311.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	5.5	10.0	10.5	117.0	17.5	6.5	9.0	11.5
Merged-chr12-32008891-1	chr12	32008791	32008991	+	1000.0	f0_c57.idr	intron (NM_011158, intron 2 of 10)	B1_Mur2|SINE|Alu	52388.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	2.5	1.5	2.0	1.0	46.0	16.5	21.5	6.0
Merged-chr7-19272921-3	chr7	19272808	19273008	+	912.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1054.0	NM_001282022	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	6.0	6.5	3.5	36.5	26.0	10.5	5.0	13.5
Merged-chr2-173378127-2	chr2	173378027	173378227	+	845.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101594.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	8.5	4.5	5.5	71.5	8.0	3.5	1.0	9.0
Merged-chr15-66680156-4	chr15	66680036	66680236	+	843.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 8 of 47)	intron (NM_009375, intron 8 of 47)	9366.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	13.5	10.5	10.0	305.0	18.5	6.0	10.0	8.5
Merged-chr4-155249996-4	chr4	155249891	155250091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190445)	promoter-TSS (NM_001190445)	25.0	NR_033802	67513.0	Mm.10374	NM_001190445	ENSMUSG00000073684	Faap20	2610002J02Rik	Fanconi anemia core complex associated protein 20	protein-coding	16.5	28.5	18.0	292.0	85.0	32.0	41.5	47.0
Merged-chr1-184023260-4	chr1	184023167	184023367	+	866.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10731.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	10.5	23.0	11.0	187.5	30.5	8.5	11.5	10.5
Merged-chr6-125494375-3	chr6	125494386	125494586	+	840.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007657, intron 1 of 7)	CpG	274.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	10.5	4.5	6.0	37.5	17.5	2.5	8.0	5.5
Merged-chr9-106888856-4	chr9	106888771	106888971	+	818.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029103, exon 4 of 4)	3' UTR (NM_029103, exon 4 of 4)	-1871.0	NM_175402	109095.0	Mm.431589	NM_175402	ENSMUSG00000074102	Rbm15b	1810017N16Rik	RNA binding motif protein 15B	protein-coding	10.0	11.5	6.5	90.5	19.0	13.0	9.5	10.0
Merged-chr13-101908605-2	chr13	101908505	101908705	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-140388.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	3.5	2.0	1.0	58.5	13.5	12.0	4.5	6.5
Merged-chr9-37098654-1	chr9	37098554	37098754	+	904.0	f0_balb.idr	intron (NM_001029838, intron 1 of 12)	intron (NM_001029838, intron 1 of 12)	48668.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	14.5	7.0	11.5	147.0	0.5	0.0	0.0	0.5
Merged-chr9-61032299-4	chr9	61032224	61032424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15255.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	14.5	48.0	17.5	281.0	85.0	41.0	30.0	21.0
Merged-chr3-20304956-4	chr3	20304856	20305056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29223.0	NM_029706	76703.0	Mm.34692	NM_029706	ENSMUSG00000011463	Cpb1	0910001A18Rik|1810063F02Rik|2210008M23Rik|AI504870	carboxypeptidase B1 (tissue)	protein-coding	126.0	135.0	165.5	2028.0	220.5	76.0	113.5	73.0
Merged-chr14-20702968-4	chr14	20702862	20703062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025366)	promoter-TSS (NM_025366)	-65.0	NM_025366	66121.0	Mm.246996	NM_025366	ENSMUSG00000063787	Chchd1	1110001O19Rik|2400010G13Rik|MRP-S37	coiled-coil-helix-coiled-coil-helix domain containing 1	protein-coding	46.0	85.0	70.5	469.0	105.0	38.5	49.5	36.5
Merged-chr7-30588365-2	chr7	30588257	30588457	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_001290573, exon 1 of 37)	exon (NM_001290573, exon 1 of 37)	369.0	NM_001290573	75410.0	Mm.168688	NM_029274	ENSMUSG00000006307	Kmt2b	2610014H22Rik|Mll2|Wbp7|mKIAA0304	lysine (K)-specific methyltransferase 2B	protein-coding	14.0	13.0	13.5	210.0	26.5	20.0	12.5	32.0
Merged-chr2-45277773-4	chr2	45277678	45277878	+	918.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160336.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	26.5	20.5	16.0	165.5	33.5	13.0	16.0	12.5
Merged-chr9-66344819-3	chr9	66344720	66344920	+	884.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-5630.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	17.0	19.0	9.0	96.0	14.0	4.0	2.5	11.0
Merged-chr2-155534273-3	chr2	155534170	155534370	+	889.605591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019811, intron 2 of 17)	intron (NM_019811, intron 2 of 17)	16227.0	NM_019811	60525.0	Mm.255026	NM_019811	ENSMUSG00000027605	Acss2	1110017C11Rik|ACAS|Acas1|Acas2|AceCS1|Acs1	acyl-CoA synthetase short-chain family member 2	protein-coding	15.0	31.5	14.0	226.0	4.0	1.0	3.5	0.5
Merged-chr7-25385854-4	chr7	25385739	25385939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_073028)	TTS (NR_073028)	4273.0	NM_001039507	16890.0	Mm.158548	NM_010719	ENSMUSG00000003123	Lipe	4933403G17Rik|HSL	lipase, hormone sensitive	protein-coding	41.5	30.5	35.0	379.5	69.5	28.0	43.0	30.5
Merged-chr10-62500396-4	chr10	62500305	62500505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	intron (NM_001358965, intron 2 of 3)	7352.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	35.5	67.5	15.0	568.0	127.5	51.5	54.0	30.5
Merged-chr2-32078717-4	chr2	32078634	32078834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151493, intron 2 of 5)	intron (NR_151493, intron 2 of 5)	4971.0	NM_175511	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	86.5	135.5	80.5	908.0	194.5	60.5	82.0	50.0
Merged-chr3-121580114-4	chr3	121579997	121580197	+	991.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47753.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	31.5	26.0	17.0	341.0	44.5	15.5	28.0	26.5
Merged-chr2-59162361-3	chr2	59162260	59162460	+	875.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	1510.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	7.0	9.5	12.5	228.0	20.5	4.5	19.5	4.5
Merged-chr13-8744731-4	chr13	8744641	8744841	+	773.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 8 of 10)	intron (NR_110345, intron 8 of 10)	126303.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	9.0	15.5	10.5	194.0	28.5	5.0	9.5	13.0
Merged-chr4-137175764-4	chr4	137175674	137175874	+	925.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-10708.0	NR_040443	100503595.0	Mm.421314	NR_040443	ENSMUSG00000085833	Gm13003	-	predicted gene 13003	ncRNA	10.5	16.0	0.5	108.5	43.0	9.5	23.5	18.0
Merged-chr3-88000583-4	chr3	88000488	88000688	+	868.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109758)	promoter-TSS (NM_001109758)	-232.0	NM_001109758	12032.0	Mm.4598	NM_007529	ENSMUSG00000004892	Bcan	Cspg7	brevican	protein-coding	6.5	9.0	7.5	160.0	39.0	6.5	9.5	14.5
Merged-chr3-87971356-3	chr3	87971224	87971424	+	784.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016701, exon 1 of 4)	exon (NM_016701, exon 1 of 4)	231.0	NM_016701	18008.0	Mm.331129	NM_016701	ENSMUSG00000004891	Nes	AA166324|C78523|ESTM46|Ifaprc2|Marc2|RC2	nestin	protein-coding	9.0	9.0	6.5	106.5	3.5	0.5	4.0	1.5
Merged-chr5-151057189-4	chr5	151057086	151057286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153382, intron 7 of 13)	intron (NR_153382, intron 7 of 13)	104579.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	102.5	127.0	106.5	1856.5	227.5	69.0	123.5	72.5
Merged-chr4-150248249-4	chr4	150248146	150248346	+	795.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023119, intron 11 of 11)	intron (NM_023119, intron 11 of 11)	10922.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	7.0	10.0	5.5	106.5	19.0	6.0	16.0	15.0
Merged-chr19-37435894-4	chr19	37435810	37436010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008245, intron 1 of 3)	intron (NM_008245, intron 1 of 3)	1069.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	27.5	30.5	23.0	593.0	46.5	28.0	26.0	17.0
Merged-chr17-35048560-4	chr17	35048443	35048643	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1700.0	NM_033444	114584.0	Mm.29524	NM_033444	ENSMUSG00000007041	Clic1	Clcp|G6	chloride intracellular channel 1	protein-coding	20.0	32.5	30.0	454.0	45.0	9.5	15.5	24.5
Merged-chr8-122284205-3	chr8	122284102	122284302	+	849.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009569, intron 1 of 9)	intron (NM_009569, intron 1 of 9)	2061.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	5.5	7.0	5.0	73.5	8.0	7.5	5.5	6.0
Merged-chr11-20159137-4	chr11	20159036	20159236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42276.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	44.5	35.5	43.5	849.0	69.5	28.5	51.5	43.5
Merged-chr3-65551349-4	chr3	65551251	65551451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178892, intron 4 of 5)	intron (NM_178892, intron 4 of 5)	-21937.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	22.0	33.0	30.5	602.0	42.0	9.0	19.0	24.0
Merged-chr8-123212871-4	chr8	123212780	123212980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177279)	promoter-TSS (NM_177279)	22.0	NM_177279	320869.0	Mm.258354	NM_177279	ENSMUSG00000048478	Spata33	4732415M23Rik|AI847264	spermatogenesis associated 33	protein-coding	92.0	111.0	100.5	1087.5	243.0	90.5	90.5	92.5
Merged-chr10-77530289-4	chr10	77530184	77530384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008404)	promoter-TSS (NM_008404)	-64.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	70.5	72.0	44.5	884.0	113.5	43.5	76.5	55.5
Merged-chr6-122599403-5	chr6	122599233	122599433	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 2 of 7)	ID_B1|SINE|B4	3111.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	17.5	28.0	7.5	229.0	54.5	21.5	14.0	30.0
Merged-chr15-87624147-1	chr15	87624047	87624247	+	808.0	f0_balb.idr	intron (NM_001252310, intron 1 of 3)	CpG	-1083.0	NM_134096	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	5.0	12.5	5.0	159.0	0.5	1.0	0.0	2.5
Merged-chr12-54862133-4	chr12	54862054	54862254	+	801.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007688, intron 1 of 3)	intron (NM_007688, intron 1 of 3)	723.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	14.0	26.0	12.0	253.0	28.5	14.5	10.0	7.0
Merged-chr2-132843582-2	chr2	132843482	132843682	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025676, exon 18 of 18)	3' UTR (NM_025676, exon 18 of 18)	-3084.0	NM_001024385	66586.0	Mm.357342	NM_025646	ENSMUSG00000027357	Crls1	0610009I22Rik|4930557M15Rik|5730490M08Rik	cardiolipin synthase 1	protein-coding	1.0	3.5	2.5	39.0	26.0	5.5	9.0	12.5
Merged-chr11-79286533-4	chr11	79286422	79286622	+	834.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31827.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	7.0	11.5	6.0	56.5	17.0	4.5	4.0	11.0
Merged-chr10-30787882-4	chr10	30787763	30787963	+	790.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	15463.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	1.0	11.5	8.5	116.5	22.5	11.0	6.5	5.0
Merged-chr4-129810421-4	chr4	129810334	129810534	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10045.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	17.0	30.5	17.5	258.5	41.5	11.0	22.0	21.5
Merged-chr2-33131916-4	chr2	33131857	33132057	+	921.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355201)	promoter-TSS (NM_001355201)	-521.0	NM_001355201	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	10.0	20.5	10.0	145.5	25.5	9.0	11.0	5.5
Merged-chr11-117912896-4	chr11	117912797	117912997	+	905.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39371.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	17.0	27.0	4.5	183.0	38.5	15.0	20.0	17.5
Merged-chr2-148050577-3	chr2	148050483	148050683	+	889.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3614.0	NM_010446	15376.0	Mm.938	NM_010446	ENSMUSG00000037025	Foxa2	HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b	forkhead box A2	protein-coding	3.5	8.0	0.0	62.0	34.5	11.0	12.5	13.5
Merged-chr6-87802653-4	chr6	87802566	87802766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	ORR1F|LTR|ERVL-MaLR	7091.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	17.5	32.0	20.0	353.5	88.0	17.5	23.5	24.0
Merged-chr11-96977821-4	chr11	96977728	96977928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080964)	promoter-TSS (NM_001080964)	-140.0	NM_001080964	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	350.0	533.5	277.0	3585.0	631.5	301.5	251.5	255.5
Merged-chr11-29546366-4	chr11	29546258	29546458	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133767)	TTS (NM_133767)	-1592.0	NM_028504	73324.0	Mm.69388	NM_028504	ENSMUSG00000020461	Clhc1	1700034F02Rik	clathrin heavy chain linker domain containing 1	protein-coding	22.0	28.5	40.5	263.0	58.0	18.0	17.0	18.0
Merged-chr1-152922084-3	chr1	152922000	152922200	+	733.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19454.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	7.0	5.0	3.5	80.5	18.5	5.0	7.5	6.5
Merged-chr5-99985038-4	chr5	99984885	99985085	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6047.0	NM_001077267	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	15.5	10.5	15.0	259.0	22.0	14.5	12.5	15.0
Merged-chr15-10470666-4	chr15	10470550	10470750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030046)	promoter-TSS (NM_030046)	-134.0	NM_030046	78244.0	Mm.297862	NM_030046	ENSMUSG00000044224	Dnajc21	4930461P20Rik|9930116P15Rik	DnaJ heat shock protein family (Hsp40) member C21	protein-coding	88.5	109.0	91.5	1030.0	210.5	59.0	109.5	82.0
Merged-chr7-127260813-4	chr7	127260706	127260906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023203)	promoter-TSS (NM_023203)	-139.0	NM_023203	66422.0	Mm.29898	NM_023203	ENSMUSG00000042462	Dctpp1	2410015N17Rik|AI854235|RS21-C6	dCTP pyrophosphatase 1	protein-coding	257.0	413.0	247.5	3069.5	648.5	281.5	263.0	269.5
Merged-chr10-13986713-4	chr10	13986574	13986774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	20295.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	50.0	90.5	101.5	1439.0	162.5	57.0	61.0	60.0
Merged-chr11-93955298-1	chr11	93955198	93955398	+	1000.0	f1_c57bl6.idr	intron (NM_001077529, intron 1 of 3)	intron (NM_001077529, intron 1 of 3)	485.0	NM_001077529	18103.0	Mm.1260	NM_008705	ENSMUSG00000020857	Nme2	NM23-H2|NM23B|nm23-M2	NME/NM23 nucleoside diphosphate kinase 2	protein-coding	12.0	4.5	9.5	122.0	21.5	3.0	4.0	9.0
Merged-chr12-80111335-8	chr12	80111295	80111495	+	786.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007564, intron 1 of 1)	intron (NM_007564, intron 1 of 1)	1618.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	6.5	15.0	10.0	48.5	16.0	10.0	4.0	10.5
Merged-chr3-127626236-3	chr3	127626133	127626333	+	756.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GC_rich|Low_complexity|Low_complexity	-6903.0	NM_009718	11924.0	Mm.42017	NM_009718	ENSMUSG00000027967	Neurog2	Atoh4|Math4A|bHLHa8|ngn-2|ngn2	neurogenin 2	protein-coding	8.5	17.0	9.0	96.5	6.5	3.0	1.5	3.5
Merged-chr18-56378117-4	chr18	56378036	56378236	+	753.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22204.0	NM_001360917	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	6.0	15.5	11.0	218.5	20.5	4.5	18.0	11.0
Merged-chr10-67283717-3	chr10	67283616	67283816	+	816.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036293, intron 1 of 3)	intron (NM_001036293, intron 1 of 3)	1565.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	2.5	19.5	2.5	117.0	16.5	7.0	4.5	5.0
Merged-chr10-39731506-4	chr10	39731405	39731605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011264)	promoter-TSS (NM_011264)	502.0	NR_038037	327744.0	Mm.295265	NM_183198	ENSMUSG00000087177	E130307A14Rik	-	RIKEN cDNA E130307A14 gene	ncRNA	118.5	154.0	114.5	2141.5	282.5	112.5	161.5	113.0
Merged-chr9-40577366-4	chr9	40577252	40577452	+	966.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45969.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	23.0	27.0	24.0	237.0	37.5	6.5	21.0	11.0
Merged-chr11-53931239-4	chr11	53931123	53931323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39520.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	35.0	104.0	25.0	297.0	119.0	29.0	28.0	12.5
Merged-chr5-106803296-2	chr5	106803196	106803396	+	544.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106466.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	2.5	3.5	1.5	20.0	7.0	5.5	8.0	6.0
Merged-chr5-104982702-4	chr5	104982605	104982805	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030239)	promoter-TSS (NM_030239)	12.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	13.5	19.5	12.5	189.0	46.0	17.5	18.5	20.0
Merged-chr12-117560634-4	chr12	117560557	117560757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 3 of 27)	intron (NM_175930, intron 3 of 27)	44178.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	95.5	123.0	180.5	2677.5	417.5	118.0	201.5	160.0
Merged-chr9-53610388-4	chr9	53610285	53610485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144784)	promoter-TSS (NM_144784)	-35.0	NM_144784	110446.0	Mm.293233	NM_144784	ENSMUSG00000032047	Acat1	6330585C21Rik|Acat	acetyl-Coenzyme A acetyltransferase 1	protein-coding	121.0	191.5	111.0	1687.5	306.0	108.5	174.0	140.0
Merged-chr2-72366176-4	chr2	72366082	72366282	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 4 of 19)	intron (NM_023057, intron 4 of 19)	80481.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	17.0	17.5	19.0	282.5	52.0	16.0	15.5	21.5
Merged-chr2-52906677-4	chr2	52906607	52906807	+	752.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	48839.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	11.0	7.5	5.5	190.0	27.5	9.5	7.0	7.5
Merged-chr3-135438677-2	chr3	135438577	135438777	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030689)	promoter-TSS (NR_030689)	-12.0	NR_030689	319587.0	Mm.358971	NR_030689	ENSMUSG00000097032	4930539J05Rik	8030475D13Rik	RIKEN cDNA 4930539J05 gene	ncRNA	98.0	181.0	121.0	1260.5	356.0	159.5	155.0	151.5
Merged-chr13-98926445-4	chr13	98926325	98926525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178716)	promoter-TSS (NM_178716)	-41.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	65.0	119.5	50.5	1295.0	210.0	90.5	89.5	78.0
Merged-chr13-55211524-4	chr13	55211441	55211641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008739, intron 1 of 22)	CpG	1759.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	67.0	141.5	94.5	882.5	199.5	96.0	76.5	97.5
Merged-chr7-127104726-4	chr7	127104619	127104819	+	856.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13283.0	NM_178901	101602.0	Mm.490357	NM_178901	ENSMUSG00000045165	AI467606	-	expressed sequence AI467606	protein-coding	17.0	18.5	11.5	128.5	34.0	16.5	14.0	12.5
Merged-chr1-84957878-4	chr1	84957769	84957969	+	979.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-22786.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	16.0	34.0	18.5	233.0	25.5	14.5	29.0	21.0
Merged-chr8-105637983-3	chr8	105637867	105638067	+	624.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151743)	promoter-TSS (NR_151743)	-493.0	NR_151742	546100.0	Mm.471801	NR_151742	ENSMUSG00000098120	Gm5914	-	predicted gene 5914	ncRNA	4.5	6.0	8.0	128.0	3.5	4.0	10.5	2.5
Merged-chr16-92801800-4	chr16	92801692	92801892	+	931.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	24282.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	20.0	12.5	18.5	448.5	23.5	4.0	4.0	21.5
Merged-chr2-112367937-4	chr2	112367808	112368008	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026519, exon 1 of 5)	5' UTR (NM_026519, exon 1 of 5)	119.0	NM_026519	68032.0	Mm.220942	NM_026519	ENSMUSG00000027131	Emc4	2610318K02Rik|Tmem85	ER membrane protein complex subunit 4	protein-coding	27.5	38.0	28.5	294.5	52.5	8.5	23.0	37.0
Merged-chr17-10326762-4	chr17	10326662	10326862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045461, intron 2 of 2)	intron (NR_045461, intron 2 of 2)	2160.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	157.5	232.0	248.5	2849.5	369.0	159.0	189.0	165.5
Merged-chr11-73047792-4	chr11	73047693	73047893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025818)	promoter-TSS (NM_025818)	-74.0	NM_025818	66874.0	Mm.41903	NM_025818	ENSMUSG00000020783	Ncbp3	1200014J11Rik|C130061O14Rik|C78393	nuclear cap binding subunit 3	protein-coding	100.5	211.0	87.0	1429.0	264.0	111.0	129.5	92.0
Merged-chr3-103206595-4	chr3	103206486	103206686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34931.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	149.5	367.0	245.5	2606.0	507.0	207.5	238.0	212.0
Merged-chr4-155891783-4	chr4	155891678	155891878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207223)	promoter-TSS (NM_207223)	-16.0	NM_001033490	433813.0	Mm.259270	NM_001033490	ENSMUSG00000051557	Pusl1	2810021I11Rik|AI853843|D18346	pseudouridylate synthase-like 1	protein-coding	46.5	63.5	29.0	532.5	136.0	44.0	47.0	43.5
Merged-chr6-86733398-4	chr6	86733316	86733516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011818)	promoter-TSS (NM_011818)	-38.0	NM_011818	23885.0	Mm.321452	NM_011818	ENSMUSG00000001157	Gmcl1	2810049L19Rik|Btbd13|DIP|Gcl|Gcl-1|glc-1|mglc-1	germ cell-less, spermatogenesis associated 1	protein-coding	178.5	246.5	183.0	2141.5	331.5	137.0	160.5	154.0
Merged-chr2-167770530-2	chr2	167770430	167770630	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79353.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	3.0	10.0	5.5	67.5	20.0	8.5	4.5	9.0
Merged-chr4-62519984-4	chr4	62519872	62520072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008525)	promoter-TSS (NM_008525)	-63.0	NM_001276446	17025.0	Mm.6988	NM_008525	ENSMUSG00000028393	Alad	ALADH|Lv	aminolevulinate, delta-, dehydratase	protein-coding	278.5	347.0	280.0	4858.0	210.5	108.0	122.5	111.0
Merged-chr4-41468815-4	chr4	41468709	41468909	+	854.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025539, intron 1 of 2)	intron (NM_025539, intron 1 of 2)	3661.0	NM_025539	66401.0	Mm.28574	NM_025539	ENSMUSG00000028443	Nudt2	2310051L06Rik|AA939917|APAH1	nudix (nucleoside diphosphate linked moiety X)-type motif 2	protein-coding	13.5	24.5	7.0	105.5	40.0	4.0	6.0	16.5
Merged-chr4-155943739-4	chr4	155943614	155943814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039157)	promoter-TSS (NM_001039157)	-99.0	NM_001039158	140499.0	Mm.371673	NM_021402	ENSMUSG00000023286	Ube2j2	1200007B18Rik|2400008G19Rik|5730472G04Rik|AL022923|NCUBE-2|Ubc6|Ubc6p	ubiquitin-conjugating enzyme E2J 2	protein-coding	81.5	134.5	75.5	1122.0	218.0	83.0	115.0	78.5
Merged-chr18-32405493-4	chr18	32405398	32405598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	ORR1F|LTR|ERVL-MaLR	-27214.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	43.5	34.5	38.0	509.5	86.0	34.0	57.0	49.5
Merged-chr5-35583577-4	chr5	35583476	35583676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357020, exon 1 of 19)	5' UTR (NM_001357020, exon 1 of 19)	542.0	NM_030721	80911.0	Mm.291503	NM_030721	ENSMUSG00000029098	Acox3	BI685180|EST-s59|PCOX	acyl-Coenzyme A oxidase 3, pristanoyl	protein-coding	63.0	107.0	24.5	827.0	173.5	56.0	52.5	43.0
Merged-chr12-8501054-4	chr12	8500980	8501180	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1071.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	24.5	22.0	14.0	350.0	37.0	9.0	11.5	20.0
Merged-chr17-28693755-3	chr17	28693652	28693852	+	719.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	1184.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	8.0	14.5	4.5	77.5	19.0	4.0	6.0	8.5
Merged-chr15-3251157-3	chr15	3251067	3251267	+	761.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19600.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	8.5	7.0	2.0	143.5	19.0	4.5	15.0	5.5
Merged-chr1-125458708-4	chr1	125458601	125458801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22974.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	53.5	56.0	56.0	767.0	106.0	45.5	65.0	60.5
Merged-chr10-120201526-4	chr10	120201440	120201640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028679)	promoter-TSS (NM_028679)	57.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	102.0	202.0	121.5	808.0	308.5	146.0	126.5	48.5
Merged-chr15-100747162-3	chr15	100747060	100747260	+	952.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-14423.0	NR_045782	619313.0	Mm.123436	NR_045781	ENSMUSG00000116504	I730030J21Rik	-	RIKEN cDNA I730030J21 gene	ncRNA	12.0	21.0	25.0	321.0	6.0	6.5	2.5	10.0
Merged-chr2-75733424-4	chr2	75733345	75733545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28782.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	117.5	182.0	112.0	1598.5	313.0	98.5	109.5	129.0
Merged-chr6-106794648-4	chr6	106794553	106794753	+	913.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021449, intron 3 of 10)	intron (NM_021449, intron 3 of 10)	5434.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	25.0	19.5	21.5	289.0	57.5	11.0	31.0	17.0
Merged-chr4-66822698-4	chr4	66822612	66822812	+	938.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4839.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	24.0	20.5	22.5	425.0	26.0	2.5	15.0	12.0
Merged-chr5-125141219-4	chr5	125141065	125141265	+	909.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 1 of 46)	intron (NM_011424, intron 1 of 46)	38049.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	7.0	8.0	5.0	101.5	14.5	9.5	15.0	6.0
Merged-chr2-70992940-4	chr2	70992839	70993039	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 3 of 9)	B4A|SINE|B4	25435.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	16.0	9.0	25.0	458.5	58.0	15.5	19.0	23.0
Merged-chr14-54227052-4	chr14	54226969	54227169	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26860.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	13.0	20.5	8.5	256.5	56.0	10.0	19.0	16.0
Merged-chr12-85380523-4	chr12	85380393	85380593	+	945.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-5776.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	15.5	29.5	16.0	266.0	27.0	10.0	12.5	27.0
Merged-chr7-80370193-4	chr7	80370037	80370237	+	911.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172903, intron 2 of 23)	RSINE1|SINE|B4	1238.0	NM_172903	140481.0	Mm.269245	NM_172903	ENSMUSG00000038886	Man2a2	1700052O22Rik|4931438M07Rik|AI480988|MX|Man IIx	mannosidase 2, alpha 2	protein-coding	12.0	1.0	7.5	153.5	48.0	11.0	15.0	17.5
Merged-chr8-71709859-3	chr8	71709814	71710014	+	883.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028267, intron 24 of 26)	intron (NR_028267, intron 24 of 26)	-8114.0	NM_028189	72297.0	Mm.290837	NM_028189	ENSMUSG00000031803	B3gnt3	2210008L19Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 3	protein-coding	5.5	10.0	2.0	40.5	19.5	9.0	11.5	9.0
Merged-chr17-64668653-4	chr17	64668535	64668735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 7 of 21)	intron (NM_008549, intron 7 of 21)	66986.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	73.0	74.5	73.0	1459.5	122.0	39.0	74.5	55.0
Merged-chr17-73972480-4	chr17	73972352	73972552	+	989.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22256.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	7.5	11.0	9.0	336.0	55.5	15.5	35.5	51.5
Merged-chr1-131339916-3	chr1	131339805	131340005	+	987.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 10 of 22)	intron (NM_001081011, intron 10 of 22)	-60342.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	12.5	23.5	18.0	238.0	17.5	3.5	8.5	14.5
Merged-chr6-120836168-4	chr6	120836070	120836270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153516)	promoter-TSS (NM_153516)	-60.0	NM_153516	94044.0	Mm.27990	NM_153516	ENSMUSG00000009112	Bcl2l13	BCL-RAMBO|E430016C20Rik|Mil-1|Mil1	BCL2-like 13 (apoptosis facilitator)	protein-coding	128.5	195.0	105.0	1688.5	391.5	124.0	176.5	113.5
Merged-chr17-86787992-2	chr17	86787881	86788081	+	746.75	f0_balb.idr|f1_balb.idr	intron (NM_010137, intron 1 of 15)	intron (NM_010137, intron 1 of 15)	34117.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	6.0	13.0	11.0	201.0	7.0	1.0	1.5	1.5
Merged-chr11-106036811-4	chr11	106036722	106036922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027946)	promoter-TSS (NM_027946)	-50.0	NM_027946	71833.0	Mm.307455	NM_027946	ENSMUSG00000049354	Dcaf7	1700012F10Rik|2610037L01Rik|C86529|HAN11|Wdr68	DDB1 and CUL4 associated factor 7	protein-coding	181.0	291.0	138.0	2341.5	439.5	191.5	209.5	198.5
Merged-chr19-11604819-4	chr19	11604722	11604922	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026835)	promoter-TSS (NM_026835)	-18.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	38.0	32.0	25.0	370.0	49.0	18.0	16.0	16.0
Merged-chr2-31770828-4	chr2	31770761	31770961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283045, intron 1 of 10)	intron (NM_001283045, intron 1 of 10)	10688.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	30.5	57.0	26.0	422.5	80.0	53.0	33.5	41.0
Merged-chr5-114781074-4	chr5	114780973	114781173	+	793.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026718, intron 1 of 14)	intron (NM_026718, intron 1 of 14)	5933.0	NM_026718	68420.0	Mm.275554	NM_026718	ENSMUSG00000041870	Ankrd13a	1100001D10Rik|ANKRD13|AU046136	ankyrin repeat domain 13a	protein-coding	11.0	21.5	6.0	132.5	47.5	14.0	16.5	12.5
Merged-chr2-31670685-4	chr2	31670582	31670782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144886)	promoter-TSS (NM_144886)	-33.0	NM_144886	227715.0	Mm.150972	NM_144886	ENSMUSG00000039356	Exosc2	Rrp4	exosome component 2	protein-coding	62.0	61.5	23.0	303.0	139.5	38.5	30.5	34.5
Merged-chr6-38352686-4	chr6	38352639	38352839	+	900.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	intron (NM_028864, intron 1 of 8)	1864.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	15.5	32.0	8.0	82.0	32.0	16.0	7.0	10.5
Merged-chr6-72144816-3	chr6	72144698	72144898	+	756.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 4 of 6)	intron (NM_001035228, intron 4 of 6)	-21601.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	7.0	4.5	7.5	76.5	7.0	2.5	8.5	9.0
Merged-chr10-12868776-1	chr10	12868676	12868876	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-7041.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	19.5	22.0	16.5	179.5	35.5	7.5	9.0	8.0
Merged-chr3-94814523-3	chr3	94814416	94814616	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23051.0	NM_001165948	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	9.0	12.0	8.5	147.5	15.5	7.0	7.0	10.5
Merged-chr9-95845275-4	chr9	95845179	95845379	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033210)	promoter-TSS (NM_001033210)	0.0	NM_001033210	102502.0	Mm.11869	NM_001033210	ENSMUSG00000049493	Pls1	AI427122	plastin 1 (I-isoform)	protein-coding	22.5	24.5	12.5	178.5	56.5	19.5	16.0	21.0
Merged-chr8-85499359-3	chr8	85499241	85499441	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 2 of 11)	B3A|SINE|B2	6724.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	9.5	9.5	8.0	93.5	16.5	7.0	3.5	6.0
Merged-chr8-54529541-4	chr8	54529435	54529635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029701, intron 1 of 4)	CpG	463.0	NM_029701	76687.0	Mm.86437	NM_029701	ENSMUSG00000054408	Spcs3	1810011E08Rik|SPC22/23	signal peptidase complex subunit 3 homolog (S. cerevisiae)	protein-coding	71.5	124.5	128.5	2067.5	227.0	76.5	147.5	88.5
Merged-chr15-87077986-4	chr15	87077872	87078072	+	840.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-466327.0	NM_001252310	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	4.5	7.0	10.0	57.0	7.5	5.0	7.5	6.5
Merged-chr11-86671234-4	chr11	86671134	86671334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356531)	promoter-TSS (NM_001356531)	41.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	64.5	78.0	64.5	784.0	165.5	50.0	79.0	67.0
Merged-chr19-60608970-4	chr19	60608875	60609075	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger8|DNA|TcMar-Tigger	-27952.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	25.0	23.0	15.5	394.5	41.0	21.0	26.5	15.5
Merged-chr2-104110285-4	chr2	104110184	104110384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007652, intron 2 of 3)	intron (NM_007652, intron 2 of 3)	-12485.0	NM_026634	68243.0	Mm.158191	NM_026634	ENSMUSG00000032671	A930018P22Rik	-	RIKEN cDNA A930018P22 gene	protein-coding	62.0	77.5	33.0	757.0	26.0	3.0	19.0	17.5
Merged-chr14-58071169-4	chr14	58071015	58071215	+	622.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1571.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	5.5	8.0	5.5	47.0	12.0	2.0	4.5	14.0
Merged-chr6-82753797-4	chr6	82753713	82753913	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 2 of 17)	intron (NM_013820, intron 2 of 17)	20641.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	5.0	19.0	14.5	126.5	34.0	8.0	22.5	13.0
Merged-chr5-20973255-2	chr5	20973155	20973355	+	727.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21433.0	NM_001080977	242860.0	Mm.254286	NM_001080977	ENSMUSG00000039968	Rsbn1l	8430412F05Rik|AI447441|C330002G24Rik	round spermatid basic protein 1-like	protein-coding	5.0	7.0	3.0	64.0	17.5	7.5	8.5	9.0
Merged-chr5-12184604-3	chr5	12184480	12184680	+	865.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-198586.0	NM_028882	108151.0	Mm.89313	NM_028882	ENSMUSG00000040254	Sema3d	4631426B19Rik	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	protein-coding	5.0	2.0	6.0	151.0	19.5	5.5	23.0	4.5
Merged-chr8-70864917-4	chr8	70864857	70865057	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7949.0	NM_032397	84036.0	Mm.32074	NM_032397	ENSMUSG00000002908	Kcnn1	AI854248|KCa2.1|SK1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	protein-coding	24.0	23.5	23.5	230.0	42.0	16.0	11.0	12.5
Merged-chr2-133512825-4	chr2	133512709	133512909	+	993.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39350.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	23.5	21.5	34.5	622.0	77.5	21.5	37.0	19.5
Merged-chr14-54742590-3	chr14	54742480	54742680	+	968.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	-30406.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	23.0	10.0	46.5	942.0	10.5	3.5	3.5	9.0
Merged-chr1-172357683-4	chr1	172357541	172357741	+	804.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	16431.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	9.0	8.5	12.0	149.0	24.0	8.0	4.5	10.0
Merged-chr17-26536406-1	chr17	26536306	26536506	+	604.0	f1_c57bl6.idr	Intergenic	Intergenic	-25106.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	5.0	9.0	5.0	15.0	15.5	0.0	3.5	5.5
Merged-chr15-78405864-3	chr15	78405736	78405936	+	821.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162493)	promoter-TSS (NM_001162493)	23.0	NM_009437	22117.0	Mm.15312	NM_009437	ENSMUSG00000044986	Tst	Rhodanese	thiosulfate sulfurtransferase, mitochondrial	protein-coding	4.5	4.0	1.0	42.5	16.5	4.5	4.5	5.5
Merged-chr11-114895169-2	chr11	114895069	114895269	+	725.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_170758, intron 3 of 6)	intron (NM_170758, intron 3 of 6)	5128.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	6.0	16.5	4.0	64.5	20.0	10.0	5.0	5.0
Merged-chr6-26454548-4	chr6	26454456	26454656	+	962.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	523130.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	19.5	27.0	43.0	172.5	47.5	11.5	22.0	25.0
Merged-chr8-33384346-3	chr8	33384222	33384422	+	899.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122822, intron 1 of 33)	intron (NM_001122822, intron 1 of 33)	1205.0	NM_001122822	22427.0	Mm.228805	NM_011721	ENSMUSG00000031583	Wrn	AI846146	Werner syndrome RecQ like helicase	protein-coding	8.5	12.0	11.0	184.5	5.0	5.5	1.5	4.0
Merged-chr9-22367683-4	chr9	22367574	22367774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028390, intron 8 of 23)	A-rich|Low_complexity|Low_complexity	21532.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	33.5	39.5	30.0	568.5	70.0	24.0	31.5	25.0
Merged-chr3-105865231-3	chr3	105865150	105865350	+	725.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58A|DNA|hAT-Charlie	-5608.0	NM_027025	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	5.0	11.0	8.5	95.5	16.5	1.0	7.5	8.0
Merged-chr4-62654132-3	chr4	62654001	62654201	+	793.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-19873.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	4.0	9.0	4.5	123.5	17.0	4.5	7.0	6.5
Merged-chr16-43506461-3	chr16	43506374	43506574	+	695.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 3 of 6)	intron (NM_181058, intron 3 of 6)	-86278.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	8.5	8.0	5.5	138.5	16.5	1.5	6.0	9.5
Merged-chr17-26916969-4	chr17	26916881	26917081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053173)	promoter-TSS (NM_053173)	-110.0	NM_053173	16580.0	Mm.491138	NM_016761	ENSMUSG00000024301	Kifc5b	Hset|KNSL2|Kifc5a	kinesin family member C5B	protein-coding	151.0	273.0	133.0	1182.0	422.0	206.5	143.0	146.5
Merged-chr10-95500911-4	chr10	95500856	95501056	+	856.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359476, intron 1 of 5)	intron (NM_001359476, intron 1 of 5)	993.0	NM_001359476	67270.0	Mm.30008	NM_026065	ENSMUSG00000062981	Mrpl42	2700009F22Rik|2900055D03Rik|D10Ertd322e|HSPC204|L31mt|L42mt|MRP-L31|MRP-L42|MRP-S32|PTD007|Rpml31|S32mt	mitochondrial ribosomal protein L42	protein-coding	7.0	17.0	3.5	120.5	25.0	6.5	11.0	9.0
Merged-chr1-184618235-4	chr1	184618135	184618335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60544.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	120.0	167.0	124.5	1636.0	235.0	73.5	85.5	82.5
Merged-chr7-34388593-4	chr7	34388521	34388721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025948, intron 1 of 10)	intron (NM_025948, intron 1 of 10)	1084.0	NM_001360654	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	34.0	63.0	22.5	545.5	122.5	46.5	53.5	25.0
Merged-chr7-45247829-4	chr7	45247744	45247944	+	913.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324535, intron 1 of 12)	B2_Mm2|SINE|B2	7091.0	NM_001324535	381884.0	Mm.490944	NM_001324535	ENSMUSG00000094152	Slc6a16	Gm1084	solute carrier family 6, member 16	protein-coding	13.5	35.5	7.0	144.0	38.0	21.0	15.5	24.5
Merged-chr15-64234592-4	chr15	64234497	64234697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	78076.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	55.5	50.5	62.5	736.5	119.0	39.5	53.0	75.0
Merged-chr15-35293149-4	chr15	35293077	35293277	+	820.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2935.0	NM_054049	107587.0	Mm.46336	NM_054049	ENSMUSG00000022330	Osr2	5430409I15Rik|Osr2A|Osr2B	odd-skipped related 2	protein-coding	12.5	11.5	20.0	131.5	22.0	12.5	10.5	9.0
Merged-chr5-67426378-2	chr5	67426278	67426478	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164806, intron 1 of 4)	intron (NM_001164806, intron 1 of 4)	1421.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	5.0	11.0	5.0	40.5	6.5	0.0	4.5	10.0
Merged-chr12-16875903-4	chr12	16875796	16875996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19082.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	102.5	163.5	75.5	1158.0	267.5	100.0	142.5	82.5
Merged-chr1-9797302-4	chr1	9797245	9797445	+	915.339294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177547)	promoter-TSS (NM_177547)	-785.0	NM_133220	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	17.5	8.5	12.5	116.5	25.0	2.0	5.0	9.0
Merged-chr11-110380267-5	chr11	110380173	110380373	+	889.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18829.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.0	9.5	8.0	88.5	20.0	7.0	8.5	10.5
Merged-chr3-96812602-4	chr3	96812531	96812731	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163497, intron 1 of 3)	MIRb|SINE|MIR	1890.0	NM_018767	54215.0	Mm.34693	NM_018767	ENSMUSG00000038304	Cd160	AU045688|By55	CD160 antigen	protein-coding	29.5	34.5	16.0	488.5	48.0	18.0	16.0	36.0
Merged-chr9-121248193-3	chr9	121248091	121248291	+	654.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_177589, intron 16 of 36)	intron (NM_177589, intron 16 of 36)	28981.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	11.0	8.0	3.0	124.5	31.0	9.0	8.0	18.0
Merged-chr5-113634412-3	chr5	113634312	113634512	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	9191.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	32.5	86.0	67.5	627.5	111.0	30.0	54.5	55.5
Merged-chr7-125596607-4	chr7	125596519	125596719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-6810.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	39.5	45.5	25.5	439.5	103.5	33.5	46.0	35.5
Merged-chr2-50982918-4	chr2	50982828	50983028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73244.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	39.0	63.5	35.5	611.5	84.0	21.0	47.5	34.0
Merged-chr4-149705541-4	chr4	149705443	149705643	+	901.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3914.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	16.0	13.5	15.0	281.0	36.5	14.0	19.0	13.5
Merged-chr11-48790446-4	chr11	48790350	48790550	+	861.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9910.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	8.5	22.5	12.0	80.0	25.5	6.5	9.0	16.5
Merged-chr6-120915042-4	chr6	120914935	120915135	+	853.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007544, intron 1 of 5)	intron (NM_007544, intron 1 of 5)	1789.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	12.5	13.0	18.0	206.5	16.0	17.5	11.0	7.5
Merged-chr18-52909357-4	chr18	52909243	52909443	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199151, intron 11 of 11)	intron (NM_001199151, intron 11 of 11)	141199.0	NM_001199154	67847.0	Mm.292168	NM_026408	ENSMUSG00000024534	Sncaip	2810407O15Rik|4933427B05Rik|BB104594|SYPH1	synuclein, alpha interacting protein (synphilin)	protein-coding	6.5	16.0	9.5	177.0	17.0	18.0	9.0	4.5
Merged-chr10-24111417-5	chr10	24111333	24111533	+	741.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1899.0	NM_001010831	503558.0	Mm.300923	NM_001010831	ENSMUSG00000037424	Taar9	Gm231|taR-9	trace amine-associated receptor 9	protein-coding	4.5	14.5	5.5	96.0	10.0	0.0	6.5	6.5
Merged-chr4-140674484-3	chr4	140674381	140674581	+	940.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8576.0	NM_001112722	72754.0	Mm.29329	NM_172415	ENSMUSG00000040964	Arhgef10l	2810441C07Rik	Rho guanine nucleotide exchange factor (GEF) 10-like	protein-coding	1.5	4.0	5.0	39.0	23.0	13.5	18.5	7.0
Merged-chr17-72814137-4	chr17	72814053	72814253	+	715.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22475.0	NM_027166	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	4.5	6.5	14.5	106.5	19.0	4.5	6.5	8.5
Merged-chr10-128410712-2	chr10	128410612	128410812	+	955.599976	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104288)	promoter-TSS (NR_104288)	-161.0	NM_001358972	69917.0	Mm.46614	NM_027257	ENSMUSG00000025374	Nabp2	2610036N15Rik|Obfc2b|SSB1	nucleic acid binding protein 2	protein-coding	8.0	7.0	8.5	57.0	19.5	2.5	4.0	6.5
Merged-chr16-36530795-4	chr16	36530673	36530873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013803, intron 1 of 6)	intron (NM_013803, intron 1 of 6)	31361.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	52.0	72.0	57.5	974.0	91.0	36.0	76.0	53.5
Merged-chr5-117408457-2	chr5	117408357	117408557	+	686.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5545.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	3.0	8.5	3.0	35.0	20.0	4.5	7.0	6.0
Merged-chr11-71008496-4	chr11	71008383	71008583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291147, exon 7 of 7)	3' UTR (NM_001291147, exon 7 of 7)	-4051.0	NM_178367	216877.0	Mm.35399	NM_178367	ENSMUSG00000040620	Dhx33	3110057P17Rik|9430096J02Rik|Ddx33	DEAH (Asp-Glu-Ala-His) box polypeptide 33	protein-coding	79.0	127.5	46.0	520.5	208.0	64.5	53.5	48.5
Merged-chr1-173763276-2	chr1	173763181	173763381	+	705.599976	f0_c57.idr|f1_balb.idr	intron (NM_008329, intron 1 of 8)	Lx8|LINE|L1	3638.0	NM_008329	15951.0	Mm.261270	NM_008329	ENSMUSG00000073489	Ifi204	Ifi16|p204	interferon activated gene 204	protein-coding	0.0	0.0	0.0	0.0	41.5	23.5	12.0	25.0
Merged-chr11-86734383-4	chr11	86734297	86734497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 2 of 31)	intron (NM_001003908, intron 2 of 31)	23170.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	36.5	60.0	36.5	245.5	101.5	39.0	30.5	29.5
Merged-chr3-90509540-4	chr3	90509433	90509633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293781)	promoter-TSS (NM_001293781)	-35.0	NM_001293778	66511.0	Mm.154136	NM_023215	ENSMUSG00000001017	Chtop	2500003M10Rik|Fop|Srag	chromatin target of PRMT1	protein-coding	121.5	209.5	123.0	1344.5	285.0	127.5	107.0	131.5
Merged-chr17-70683957-3	chr17	70683870	70684070	+	758.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360665, intron 9 of 14)	intron (NM_001360665, intron 9 of 14)	122223.0	NM_001128181	224997.0	Mm.311840	NM_027712	ENSMUSG00000003279	Dlgap1	4933422O14Rik|9630002F18|AI845682|AI848168|BB075781|D17Bwg0511e|GKAP/SAPAP|GKPA/SAPAP|Gkap|Sapap1|mKIAA4162	DLG associated protein 1	protein-coding	7.5	9.5	2.0	162.5	10.5	6.5	7.0	11.0
Merged-chr7-45452962-3	chr7	45452857	45453057	+	874.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030678, intron 14 of 15)	B1_Mus1|SINE|Alu	6929.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	14.0	10.5	4.5	35.5	13.0	3.0	3.0	11.5
Merged-chr9-65681108-4	chr9	65680993	65681193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301307, intron 1 of 4)	intron (NM_001301307, intron 1 of 4)	4545.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	60.5	88.5	45.5	752.5	71.0	30.5	22.0	37.0
Merged-chr10-22354362-4	chr10	22354162	22354362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-7632.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	87.5	169.0	98.5	785.0	132.0	77.0	57.5	60.0
Merged-chr9-116083734-4	chr9	116083631	116083831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91632.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	35.0	77.0	52.0	596.5	125.5	30.0	51.0	32.0
Merged-chr12-91711840-4	chr12	91711742	91711942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	74594.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	119.0	242.0	183.5	2409.5	269.0	87.0	131.5	145.0
Merged-chr1-180849730-4	chr1	180849640	180849840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1411.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	78.0	118.0	73.5	1093.0	227.0	74.5	67.5	78.0
Merged-chr15-98831541-4	chr15	98831457	98831657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016781)	promoter-TSS (NM_016781)	-49.0	NM_016781	19082.0	Mm.6670	NM_016781	ENSMUSG00000067713	Prkag1	AA571379|BB036179|Prkaac	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	protein-coding	151.0	273.0	116.0	1575.0	391.5	176.5	153.0	192.0
Merged-chr11-58955088-4	chr11	58954975	58955175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_134309)	promoter-TSS (NR_134309)	390.0	NM_178218	319162.0	Mm.212549	NM_178218	ENSMUSG00000078851	Hist3h2a	-	histone cluster 3, H2a	protein-coding	44.5	77.5	67.0	444.0	141.5	49.5	39.5	51.5
Merged-chr19-12735182-3	chr19	12735089	12735289	+	857.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30443.0	NM_170786	12803.0	Mm.290924	NM_053007	ENSMUSG00000079415	Cntf	AI429687	ciliary neurotrophic factor	protein-coding	11.0	12.5	22.0	199.5	18.0	7.0	10.5	9.5
Merged-chr12-3778401-3	chr12	3778318	3778518	+	748.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027870, intron 18 of 19)	intron (NR_027870, intron 18 of 19)	-28562.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	11.5	10.0	8.5	268.5	13.5	10.5	8.0	12.0
Merged-chr7-127208979-4	chr7	127208886	127209086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144522)	promoter-TSS (NM_144522)	87.0	NM_001347655	17907.0	Mm.14526	NM_016754	ENSMUSG00000030672	Mylpf	2410014J02Rik|MLC-2|Mlc2	myosin light chain, phosphorylatable, fast skeletal muscle	protein-coding	335.5	559.0	325.5	4236.0	782.0	372.5	325.5	302.5
Merged-chr12-59131826-1	chr12	59131726	59131926	+	1000.0	f0_balb.idr	intron (NM_001165253, intron 1 of 22)	intron (NM_001165253, intron 1 of 22)	373.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	33.5	31.5	26.0	430.0	60.0	34.5	21.0	37.0
Merged-chr9-96350239-4	chr9	96350148	96350348	+	860.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357213, intron 1 of 7)	intron (NM_001357213, intron 1 of 7)	13467.0	NM_001357213	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	9.5	29.0	5.5	109.5	24.0	11.0	9.5	9.5
Merged-chr13-64154846-4	chr13	64154724	64154924	+	707.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1625.0	NM_175494	238673.0	Mm.300065	NM_175494	ENSMUSG00000044934	Zfp367	8030486J21Rik|ZFF29a|ZFF29b|Znf367	zinc finger protein 367	protein-coding	7.5	9.5	5.5	131.0	20.5	4.5	12.5	12.0
Merged-chr7-101838353-2	chr7	101838253	101838453	+	924.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122739)	promoter-TSS (NM_001122739)	-127.0	NM_010567	16332.0	Mm.476000	NM_010567	ENSMUSG00000032737	Inppl1	51C|SHIP2	inositol polyphosphate phosphatase-like 1	protein-coding	13.5	12.5	8.5	79.0	13.5	8.0	7.0	23.5
Merged-chr9-61013130-8	chr9	61013035	61013235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3934.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	22.0	12.0	18.0	165.0	42.0	14.5	12.0	18.0
Merged-chr12-52851000-4	chr12	52850912	52851112	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198111, intron 2 of 13)	intron (NM_198111, intron 2 of 13)	151629.0	NM_198111	238161.0	Mm.310822	NM_198111	ENSMUSG00000061603	Akap6	AI482140|Akapalpha|Akapbeta|PRKA	A kinase (PRKA) anchor protein 6	protein-coding	8.5	36.0	6.5	177.0	51.5	18.0	19.5	19.0
Merged-chr14-55879803-4	chr14	55879708	55879908	+	904.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019820, exon 3 of 3)	3' UTR (NM_019820, exon 3 of 3)	4448.0	NM_019820	56410.0	Mm.97163	NM_019820	ENSMUSG00000040380	Cbln3	-	cerebellin 3 precursor protein	protein-coding	10.5	11.5	9.5	174.5	45.5	13.5	23.5	10.5
Merged-chr12-91534701-4	chr12	91534613	91534813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011648, intron 9 of 9)	intron (NM_011648, intron 9 of 9)	54936.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	36.5	49.5	60.0	955.0	104.5	33.5	50.0	44.5
Merged-chr3-144689455-3	chr3	144689360	144689560	+	946.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019464, exon 9 of 9)	3' UTR (NM_019464, exon 9 of 9)	30875.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	21.5	27.0	12.0	654.0	15.5	0.5	6.0	5.5
Merged-chr11-121795109-4	chr11	121794976	121795176	+	843.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35142.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	8.0	12.0	5.0	46.0	26.5	15.5	6.5	8.5
Merged-chr7-38141963-4	chr7	38141881	38142081	+	865.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34491.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	17.0	29.0	9.0	161.5	24.0	14.5	14.5	14.0
Merged-chr2-38545258-4	chr2	38545165	38545365	+	927.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159631, intron 1 of 9)	intron (NM_001159631, intron 1 of 9)	33389.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	21.0	19.5	29.0	432.0	40.0	8.0	6.0	12.0
Merged-chr4-56831256-3	chr4	56831161	56831361	+	979.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018761, intron 8 of 18)	intron (NM_018761, intron 8 of 18)	-28930.0	NM_026079	230233.0	Mm.282743	NM_026079	ENSMUSG00000028431	Ikbkap	3110040G09Rik|6030413P05|C78473|Elp1|IKAP	inhibitor of kappa light polypeptide enhancer in B cells, kinase complex-associated protein	protein-coding	4.5	6.0	16.5	147.5	13.5	7.0	5.5	8.0
Merged-chr12-12269330-4	chr12	12269227	12269427	+	880.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	7188.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	14.0	51.5	11.5	93.0	85.0	32.5	13.5	13.5
Merged-chr12-79181947-3	chr12	79181863	79182063	+	819.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021557, intron 6 of 6)	B2_Mm2|SINE|B2	8998.0	NM_001362269	17252.0	Mm.291799	NM_021557	ENSMUSG00000066441	Rdh11	2610319N22Rik|AI428145|AU045252|Arsdr1|C85936|CGI-82|HCBP12|M42C60|Mdt1|Psdr1|SCALD|UBE-1c1|Ube-1c|ralR1	retinol dehydrogenase 11	protein-coding	9.0	16.5	6.5	111.0	9.0	10.0	8.5	6.5
Merged-chr7-39517901-4	chr7	39517756	39517956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004139)	promoter-TSS (NM_001004139)	90.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	187.5	281.5	401.5	3011.5	336.5	193.0	183.5	206.5
Merged-chr15-34083809-2	chr15	34083710	34083910	+	929.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357925, intron 1 of 10)	intron (NM_001357925, intron 1 of 10)	1091.0	NM_001357925	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	11.0	20.5	10.0	159.0	11.5	7.0	8.0	12.5
Merged-chr2-71275938-4	chr2	71275798	71275998	+	925.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 17 of 17)	intron (NM_172436, intron 17 of 17)	63952.0	NM_010064	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	10.5	19.0	23.0	397.5	29.0	7.5	14.0	8.5
Merged-chr10-99182346-4	chr10	99182250	99182450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	74215.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	62.0	64.0	68.0	743.0	105.0	40.5	52.5	30.5
Merged-chr15-58980782-2	chr15	58980682	58980882	+	910.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	46972.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	4.5	7.5	9.5	92.5	3.0	1.0	0.0	8.5
Merged-chr2-6405423-4	chr2	6405324	6405524	+	761.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 4 of 13)	intron (NM_181399, intron 4 of 13)	52688.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	9.0	12.5	10.5	126.5	16.0	8.0	15.5	10.5
Merged-chr10-127666180-2	chr10	127666080	127666280	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045171)	promoter-TSS (NR_045171)	523.0	NM_001122895	17937.0	Mm.336898	NM_008668	ENSMUSG00000025402	Nab2	AI451907	Ngfi-A binding protein 2	protein-coding	6.5	11.5	4.0	42.5	13.5	7.0	5.0	6.0
Merged-chr15-7085290-4	chr15	7085180	7085380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44292.0	NM_001113386	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	58.0	75.0	41.5	1132.5	157.5	56.0	70.0	58.0
Merged-chr15-84341226-4	chr15	84341116	84341316	+	934.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162500, intron 12 of 12)	intron (NM_001162500, intron 12 of 12)	15097.0	NM_001162500	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	17.5	16.5	7.5	140.0	41.5	16.5	8.0	9.5
Merged-chr16-92419204-4	chr16	92419098	92419298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-19120.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	146.5	209.5	125.0	1743.0	83.0	29.0	28.5	27.5
Merged-chr14-54603480-4	chr14	54603388	54603588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028890, intron 1 of 6)	CpG	2420.0	NM_028890	74359.0	Mm.79815	NM_028890	ENSMUSG00000022179	4931414P19Rik	Rtfc	RIKEN cDNA 4931414P19 gene	protein-coding	102.0	179.0	94.0	1608.5	335.0	142.5	172.5	116.5
Merged-chr2-124775865-4	chr2	124775637	124775837	+	936.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122156.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	4.5	14.5	6.5	159.0	11.0	5.5	7.0	8.0
Merged-chr9-21927479-4	chr9	21927380	21927580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253870)	promoter-TSS (NM_001253870)	9.0	NM_025977	67119.0	Mm.154305	NM_025977	ENSMUSG00000006241	Ccdc159	2510048L02Rik	coiled-coil domain containing 159	protein-coding	227.0	354.5	138.0	2684.0	403.5	186.0	178.0	146.5
Merged-chr10-75675846-4	chr10	75675745	75675945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 29 of 36)	intron (NM_172549, intron 29 of 36)	-31837.0	NM_027890	71733.0	Mm.247956	NM_027890	ENSMUSG00000006342	Susd2	1200011D11Rik	sushi domain containing 2	protein-coding	44.0	40.5	27.5	533.0	76.5	25.0	46.5	30.0
Merged-chr5-16538207-4	chr5	16538123	16538323	+	983.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15272.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	34.0	55.0	69.0	483.0	65.0	13.0	30.5	28.0
Merged-chr9-67847328-3	chr9	67847263	67847463	+	943.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177184, intron 1 of 84)	intron (NM_177184, intron 1 of 84)	6967.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	10.5	9.5	9.0	227.0	7.0	10.0	5.0	4.5
Merged-chr1-135719663-3	chr1	135719560	135719760	+	905.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360782)	promoter-TSS (NM_001360782)	-403.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	9.0	18.5	7.5	121.0	24.5	4.0	6.5	19.5
Merged-chr15-79409484-4	chr15	79409383	79409583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6180.0	NM_172608	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	47.0	64.0	56.0	744.0	123.5	36.0	60.0	63.5
Merged-chr6-98234316-2	chr6	98234216	98234416	+	888.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108438.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	5.0	6.5	4.5	150.0	15.5	6.5	8.0	14.5
Merged-chr8-126944961-3	chr8	126944928	126945128	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024214, intron 1 of 4)	intron (NM_024214, intron 1 of 4)	893.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	8.0	6.0	11.0	86.5	10.5	4.0	8.0	11.5
Merged-chr13-92963714-3	chr13	92963658	92963858	+	768.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109546.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	0.0	3.0	2.5	18.5	31.0	7.0	12.0	7.5
Merged-chr2-150783014-3	chr2	150782908	150783108	+	888.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-3788.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	13.0	19.5	12.5	81.5	27.0	7.5	20.5	10.5
Merged-chr19-17356468-4	chr19	17356401	17356601	+	747.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	CpG	166.0	NM_173442	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	5.0	9.5	5.5	127.5	20.0	10.0	9.5	7.0
Merged-chr13-58126362-4	chr13	58126247	58126447	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029872, exon 1 of 1)	3' UTR (NM_029872, exon 1 of 1)	2209.0	NM_029872	77134.0	Mm.490274	NM_029872	ENSMUSG00000007836	Hnrnpa0	1110055B05Rik|3010025E17Rik|Hnrpa0|hnRNP A0	heterogeneous nuclear ribonucleoprotein A0	protein-coding	8.0	7.5	4.5	170.5	24.5	13.5	10.5	9.5
Merged-chr8-84975606-4	chr8	84975504	84975704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011563)	TTS (NM_011563)	3144.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	28.0	40.0	40.0	536.0	87.0	28.5	31.0	32.0
Merged-chr3-135720089-4	chr3	135719999	135720199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28552.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	33.5	49.5	33.0	611.0	128.5	37.0	33.5	50.0
Merged-chr1-16203280-3	chr1	16203194	16203394	+	785.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97412.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	3.5	11.5	6.0	39.0	30.5	16.0	7.5	5.5
Merged-chr10-76442324-4	chr10	76442235	76442435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008787, intron 1 of 41)	CpG	577.0	NM_008787	18541.0	Mm.251794	NM_008787	ENSMUSG00000001151	Pcnt	AW476095|C86676|KEN|Pcnt2|kendrin|m239Asp|m275Asp	pericentrin (kendrin)	protein-coding	86.5	87.5	48.5	790.5	178.0	59.0	117.5	59.0
Merged-chr2-70825706-4	chr2	70825630	70825830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172664)	promoter-TSS (NM_172664)	-250.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	40.5	97.0	56.0	618.5	114.0	35.0	31.5	48.5
Merged-chr2-181592674-7	chr2	181592548	181592748	+	918.514282	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164597)	promoter-TSS (NM_001164597)	-187.0	NM_001164597	269401.0	Mm.386888	NM_001164597	ENSMUSG00000000823	Zfp512b	Gm632|Znf512b	zinc finger protein 512B	protein-coding	4.0	10.0	4.0	32.0	13.5	11.0	7.5	10.0
Merged-chr7-135706004-4	chr7	135705910	135706110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081117, intron 6 of 13)	intron (NM_001081117, intron 6 of 13)	10369.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	47.0	98.5	52.5	780.0	173.0	39.5	78.5	39.0
Merged-chr8-75097009-4	chr8	75096920	75097120	+	633.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010442, exon 3 of 5)	exon (NM_010442, exon 3 of 5)	3402.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	9.5	11.0	20.0	57.0	15.0	11.0	8.0	12.5
Merged-chr11-55028656-4	chr11	55028553	55028753	+	975.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 1 of 24)	intron (NR_138556, intron 1 of 24)	4818.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	23.5	33.0	14.5	343.0	54.0	19.5	26.0	16.5
Merged-chr3-95930202-4	chr3	95930123	95930323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253758, intron 1 of 4)	CpG	966.0	NM_023210	66471.0	Mm.218657	NM_023210	ENSMUSG00000015749	Anp32e	2810018A15Rik|AI047746|AI326868|CPD1|LANP-L|LANPL|mLANP-L	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	protein-coding	26.5	44.0	30.0	327.5	53.5	33.0	32.0	27.5
Merged-chr15-7217220-4	chr15	7217109	7217309	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289496, intron 20 of 22)	intron (NM_001289496, intron 20 of 22)	76667.0	NM_013584	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	17.0	20.5	20.0	348.5	49.5	26.5	20.5	19.5
Merged-chr11-87436443-3	chr11	87436320	87436520	+	812.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	8829.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	3.5	2.0	1.5	41.0	20.5	5.5	10.0	8.0
Merged-chr1-131867252-4	chr1	131867141	131867341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144875)	promoter-TSS (NM_144875)	-36.0	NM_144875	226422.0	Mm.34027	NM_144875	ENSMUSG00000026433	Rab29	Rab7l1	RAB29, member RAS oncogene family	protein-coding	62.0	139.0	51.0	1087.0	213.0	89.5	128.0	97.5
Merged-chr14-21751391-4	chr14	21751269	21751469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359953)	promoter-TSS (NM_001359953)	-183.0	NM_001359953	67630.0	Mm.102765	NM_026283	ENSMUSG00000021770	Samd8	1110053F04Rik|1700010P07Rik|SMSr	sterile alpha motif domain containing 8	protein-coding	35.5	45.5	55.0	513.0	109.5	26.5	44.0	24.0
Merged-chr19-43965794-4	chr19	43965675	43965875	+	992.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030703, intron 6 of 8)	intron (NM_030703, intron 6 of 8)	20745.0	NM_030703	93721.0	Mm.206774	NM_030703	ENSMUSG00000025196	Cpn1	0610011F20Rik|CPN	carboxypeptidase N, polypeptide 1	protein-coding	25.0	25.0	46.0	299.5	34.5	11.5	18.5	14.0
Merged-chr17-74454497-3	chr17	74454407	74454607	+	958.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 1 of 8)	RLTR26B_MM|LTR|ERVK	4601.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	17.0	13.5	14.0	151.5	24.5	10.0	13.5	16.0
Merged-chr1-139003737-4	chr1	139003641	139003841	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	26084.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	23.5	36.0	26.0	333.5	35.0	20.5	16.5	11.5
Merged-chr4-135981115-3	chr4	135980986	135981186	+	863.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025411, intron 3 of 5)	L1MA5|LINE|L1	6158.0	NM_025411	66193.0	Mm.29131	NM_025411	ENSMUSG00000028669	Pithd1	1110049F12Rik|AA408179|Trp26	PITH (C-terminal proteasome-interacting domain of thioredoxin-like) domain containing 1	protein-coding	5.5	11.5	8.5	60.0	15.5	8.5	5.5	10.5
Merged-chr4-126199843-3	chr4	126199733	126199933	+	760.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356455, intron 1 of 11)	intron (NM_001356455, intron 1 of 11)	1174.0	NM_001356456	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	1.0	5.0	5.0	46.5	15.0	5.0	5.5	10.5
Merged-chr2-167759497-2	chr2	167759397	167759597	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68320.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	9.0	7.0	15.5	154.0	24.0	5.5	1.0	13.0
Merged-chr13-34738721-4	chr13	34738591	34738791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138746)	promoter-TSS (NM_138746)	-951.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	31.0	35.0	33.5	580.0	58.0	21.0	26.5	31.5
Merged-chr2-32095542-4	chr2	32095451	32095651	+	812.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145521)	promoter-TSS (NM_145521)	23.0	NM_001355238	227721.0	Mm.257236	NM_145521	ENSMUSG00000051373	Plpp7	D830019K17Rik|NET39|Ppapdc3	phospholipid phosphatase 7 (inactive)	protein-coding	10.0	16.0	12.5	172.0	23.5	11.0	15.5	10.0
Merged-chr12-3791233-3	chr12	3791162	3791362	+	825.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15718.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	2.0	2.5	1.5	55.0	18.5	8.5	7.0	4.5
Merged-chr2-174329191-5	chr2	174329087	174329287	+	994.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077510)	promoter-TSS (NM_001077510)	-883.0	NM_201616	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	27.0	35.5	33.5	243.0	39.0	20.5	20.0	27.0
Merged-chr1-172206345-2	chr1	172206255	172206455	+	883.0	f0_balb.idr|f0_c57.idr	intron (NM_001329871, intron 1 of 3)	intron (NM_001329871, intron 1 of 3)	449.0	NM_001329871	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	13.0	49.0	17.0	182.5	26.5	15.5	20.5	9.0
Merged-chr1-64615880-6	chr1	64615826	64616026	+	822.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025964, intron 1 of 2)	intron (NM_025964, intron 1 of 2)	1242.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	5.0	9.5	10.5	189.5	32.5	5.5	5.5	8.0
Merged-chr17-71158385-2	chr17	71158285	71158485	+	682.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25147.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	6.0	5.0	4.5	59.0	8.5	0.0	6.0	5.0
Merged-chr18-20735601-3	chr18	20735493	20735693	+	929.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	intron (NM_019737, intron 1 of 8)	10811.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	11.0	16.0	6.5	214.5	21.5	8.0	10.5	4.5
Merged-chr10-98880300-4	chr10	98880196	98880396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34346.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	124.0	205.5	155.0	2493.0	428.0	149.5	174.5	153.5
Merged-chr8-120634566-4	chr8	120634422	120634622	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197988)	promoter-TSS (NM_197988)	-140.0	NM_197988	68918.0	Mm.473736	NM_197988	ENSMUSG00000043687	1190005I06Rik	-	RIKEN cDNA 1190005I06 gene	protein-coding	15.0	21.5	21.0	186.0	21.0	6.0	7.5	14.5
Merged-chr11-118230150-4	chr11	118230045	118230245	+	984.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	-17403.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	13.5	20.0	55.0	607.0	33.5	6.5	14.0	22.0
Merged-chr17-6783174-4	chr17	6783101	6783301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009510)	promoter-TSS (NM_009510)	-421.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	41.0	40.0	52.5	490.5	48.0	17.5	18.5	25.0
Merged-chr7-118279163-3	chr7	118279073	118279273	+	748.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35266.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	5.5	4.0	1.0	53.0	24.5	7.5	6.0	19.0
Merged-chr1-191131910-4	chr1	191131813	191132013	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32904.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	13.5	9.0	18.0	141.0	14.0	11.0	7.0	14.5
Merged-chr19-45079907-3	chr19	45079832	45080032	+	794.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001362398)	TTS (NM_001362398)	3845.0	NM_001362397	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	6.5	12.0	1.5	96.5	14.0	10.5	5.0	10.0
Merged-chr6-120363284-4	chr6	120363167	120363367	+	834.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145997)	promoter-TSS (NM_145997)	-832.0	NM_145997	214899.0	Mm.404761	NM_145997	ENSMUSG00000030180	Kdm5a	AA409370|C76986|Jarid1a|RBP2|Rbbp2	lysine (K)-specific demethylase 5A	protein-coding	6.0	21.5	14.0	76.5	43.0	7.0	9.0	13.5
Merged-chr6-99205365-4	chr6	99205264	99205464	+	968.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	61151.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	24.0	45.0	21.0	403.5	46.5	23.5	22.0	13.5
Merged-chr5-130222334-4	chr5	130222225	130222425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027854)	promoter-TSS (NM_027854)	-10.0	NM_027854	71667.0	Mm.258508	NM_027854	ENSMUSG00000053094	Tmem248	0610007L01Rik|A930023A16Rik|AW557951|G430067H08Rik	transmembrane protein 248	protein-coding	66.5	98.5	39.0	793.5	267.5	75.5	80.5	67.0
Merged-chr11-104001180-4	chr11	104001095	104001295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34324.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	103.0	209.5	123.5	1405.5	307.5	96.5	128.5	92.0
Merged-chr4-32586756-2	chr4	32586656	32586856	+	604.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001109661)	TTS (NM_001109661)	-15094.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	1.5	0.5	10.0	53.0	13.5	6.0	7.0	7.0
Merged-chr16-30676032-4	chr16	30675926	30676126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76303.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	29.5	37.5	21.0	473.0	99.0	27.0	45.5	38.0
Merged-chr17-34932491-2	chr17	34932391	34932591	+	599.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010893, intron 2 of 5)	intron (NM_010893, intron 2 of 5)	1238.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	3.0	7.0	1.5	43.0	8.5	5.0	4.5	8.0
Merged-chr12-110706396-4	chr12	110706291	110706491	+	826.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-9996.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	11.5	10.0	13.0	103.0	23.0	7.5	13.5	12.5
Merged-chr9-78429846-3	chr9	78429732	78429932	+	641.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_173386)	TTS (NM_173386)	13405.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	5.0	6.0	12.5	99.0	10.0	2.0	6.0	1.0
Merged-chr9-74976125-4	chr9	74976029	74976229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153584)	promoter-TSS (NM_153584)	18.0	NM_153584	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	102.0	129.0	103.5	1812.5	220.0	85.5	148.5	101.5
Merged-chr1-64343442-4	chr1	64343319	64343519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-189385.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	24.0	36.5	28.0	521.5	61.5	21.5	22.5	23.0
Merged-chr3-144207092-4	chr3	144206998	144207198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1843.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	22.0	61.0	25.5	259.0	72.5	28.5	25.0	22.0
Merged-chr5-33274028-2	chr5	33273978	33274178	+	941.400024	f0_balb.idr|f0_c57.idr	intron (NM_001198860, intron 1 of 9)	intron (NM_001198860, intron 1 of 9)	926.0	NM_001310535	13016.0	Mm.7286	NM_013502	ENSMUSG00000037373	Ctbp1	BARS|CtBP3/BARS|D4S115h|D5H4S115|D5H4S115E	C-terminal binding protein 1	protein-coding	23.0	12.0	21.0	321.0	25.0	12.0	18.0	13.0
Merged-chr11-101425038-4	chr11	101424936	101425136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172566)	promoter-TSS (NM_172566)	-49.0	NM_172566	217201.0	Mm.305941	NM_172566	ENSMUSG00000035007	Rundc1	AW125546|D930024B17	RUN domain containing 1	protein-coding	106.5	145.5	88.5	1159.0	298.5	85.5	110.0	104.0
Merged-chr14-27172299-3	chr14	27172202	27172402	+	925.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	MTC|LTR|ERVL-MaLR	28309.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	10.0	4.5	14.0	119.5	15.0	4.0	5.5	5.0
Merged-chr19-5424945-4	chr19	5424860	5425060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256515)	promoter-TSS (NM_001256515)	19.0	NM_024176	66556.0	Mm.275446	NM_024176	ENSMUSG00000024914	Drap1	2310074H19Rik|NC2-alpha	Dr1 associated protein 1 (negative cofactor 2 alpha)	protein-coding	121.0	163.0	76.0	1216.5	326.0	115.0	105.0	101.5
Merged-chr7-74908504-4	chr7	74908405	74908605	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121706.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	29.0	17.5	33.0	641.5	84.0	25.0	45.0	47.0
Merged-chr4-128621526-4	chr4	128621448	128621648	+	803.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2929.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	12.0	23.0	6.5	294.5	27.5	10.0	18.5	13.0
Merged-chr14-66183331-4	chr14	66183233	66183433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 5 of 30)	RLTR49|LTR|ERVK	30491.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	50.0	72.0	56.0	874.5	150.0	42.0	54.5	60.0
Merged-chr2-113469715-4	chr2	113469621	113469821	+	797.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	intron (NM_001285459, intron 2 of 16)	28657.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	5.0	4.5	13.5	131.0	27.5	5.0	12.5	3.0
Merged-chr6-87038399-4	chr6	87038301	87038501	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4445.0	NM_013528	14583.0	Mm.19893	NM_013528	ENSMUSG00000029992	Gfpt1	2810423A18Rik|AI324119|AI449986|GFA|GFAT|GFAT1|GFAT1m|Gfpt	glutamine fructose-6-phosphate transaminase 1	protein-coding	10.5	23.0	5.5	240.0	119.0	18.0	28.5	39.5
Merged-chr1-131448547-4	chr1	131448446	131448646	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	78815.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	40.5	59.0	23.5	453.0	65.5	23.0	16.0	19.5
Merged-chr1-80641985-4	chr1	80641870	80642070	+	967.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	23382.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	18.0	32.0	7.5	167.5	35.0	20.5	15.0	17.0
Merged-chr3-9752430-3	chr3	9752311	9752511	+	825.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	81268.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	12.0	5.0	5.5	261.0	30.5	4.5	2.5	9.0
Merged-chr1-89463295-3	chr1	89463211	89463411	+	748.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	8500.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	9.5	9.0	9.0	98.0	12.5	3.5	7.5	3.5
Merged-chr12-69455767-4	chr12	69455662	69455862	+	961.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19788.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	25.0	25.0	20.0	391.5	26.5	10.0	20.5	18.5
Merged-chr9-122785421-4	chr9	122785311	122785511	+	967.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199736, intron 12 of 19)	intron (NM_001199736, intron 12 of 19)	-20136.0	NM_001013405	382117.0	Mm.215892	NM_001013405	ENSMUSG00000046603	Tcaim	D9Ertd402e|Gm1129|TOAG-1	T cell activation inhibitor, mitochondrial	protein-coding	17.0	9.0	15.0	373.5	60.0	8.0	54.0	21.0
Merged-chr5-45856641-4	chr5	45856510	45856710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172153)	promoter-TSS (NM_172153)	-58.0	NM_172153	209707.0	Mm.71498	NM_172153	ENSMUSG00000015882	Lcorl	Mlr1	ligand dependent nuclear receptor corepressor-like	protein-coding	79.5	78.0	56.0	1007.5	159.0	42.5	51.5	73.5
Merged-chr17-47767294-4	chr17	47767212	47767412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-18432.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	59.0	35.5	31.0	626.0	82.0	28.5	23.5	52.5
Merged-chr15-100737861-4	chr15	100737780	100737980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5143.0	NR_045782	619313.0	Mm.123436	NR_045781	ENSMUSG00000116504	I730030J21Rik	-	RIKEN cDNA I730030J21 gene	ncRNA	73.5	124.5	105.0	1360.0	254.5	59.5	98.0	76.0
Merged-chr9-113664621-4	chr9	113664537	113664737	+	984.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164678, intron 12 of 17)	intron (NM_001164678, intron 12 of 17)	43622.0	NM_001164678	18571.0	Mm.29816	NM_011052	ENSMUSG00000032504	Pdcd6ip	AI480591|AW544830|Aip1|Alix|C76364|Eig2|mKIAA1375	programmed cell death 6 interacting protein	protein-coding	34.5	24.5	32.5	848.0	54.5	13.0	34.0	21.5
Merged-chr6-148609109-4	chr6	148608969	148609169	+	945.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045867, exon 3 of 3)	non-coding (NR_045867, exon 3 of 3)	5240.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	16.5	20.0	20.5	219.0	30.0	7.0	20.5	10.5
Merged-chr1-138131334-4	chr1	138131176	138131376	+	901.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	43850.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	4.5	14.5	6.5	183.5	17.5	3.5	8.0	9.5
Merged-chr9-47386320-4	chr9	47386220	47386420	+	848.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143850.0	NM_001310841	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	7.5	19.0	14.0	159.0	24.0	9.0	9.0	8.5
Merged-chr2-156147456-3	chr2	156147368	156147568	+	752.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291114, exon 17 of 17)	3' UTR (NM_001291114, exon 17 of 17)	3235.0	NM_025946	67067.0	Mm.371623	NM_025946	ENSMUSG00000067847	Romo1	2010100O12Rik|AI853864	reactive oxygen species modulator 1	protein-coding	8.0	23.0	12.0	150.5	3.5	2.0	1.0	0.0
Merged-chr10-14045967-2	chr10	14045930	14046130	+	771.833374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	79651.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	1.0	2.0	1.0	0.5	24.0	11.0	6.5	4.5
Merged-chr2-32757723-4	chr2	32757668	32757868	+	911.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290563, intron 14 of 14)	intron (NM_001290563, intron 14 of 14)	534.0	NM_152800	30933.0	Mm.200695	NM_152800	ENSMUSG00000009563	Tor2a	Prosalusin	torsin family 2, member A	protein-coding	13.0	10.0	8.5	63.5	31.0	21.0	14.0	13.5
Merged-chr2-93214976-2	chr2	93214876	93215076	+	786.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_183180, intron 5 of 9)	intron (NM_183180, intron 5 of 9)	27428.0	NM_001025246	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	6.0	7.0	7.5	8.0	14.0	9.5	4.5	1.5
Merged-chr13-24797794-4	chr13	24797684	24797884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-3873.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	5.0	10.0	38.0	368.5	37.0	4.5	22.0	19.0
Merged-chr19-24166641-3	chr19	24166536	24166736	+	973.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011597, intron 1 of 22)	intron (NM_011597, intron 1 of 22)	7553.0	NM_001198985	21873.0	Mm.104744	NM_011597	ENSMUSG00000024812	Tjp2	ZO-2	tight junction protein 2	protein-coding	2.5	6.5	1.0	49.0	41.5	12.5	24.0	32.0
Merged-chr14-19768870-4	chr14	19768775	19768975	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008695, exon 4 of 21)	exon (NM_008695, exon 4 of 21)	17618.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	33.5	34.5	20.5	451.5	70.0	21.5	38.5	14.5
Merged-chr3-135440296-4	chr3	135440200	135440400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356598, intron 2 of 8)	intron (NM_001356598, intron 2 of 8)	1174.0	NM_001356597	66105.0	Mm.49884	NM_025356	ENSMUSG00000078578	Ube2d3	1100001F19Rik|9430029A22Rik|AA414951	ubiquitin-conjugating enzyme E2D 3	protein-coding	25.5	38.0	36.5	435.5	81.5	32.0	36.5	50.0
Merged-chr15-74752975-4	chr15	74752876	74753076	+	837.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011838)	promoter-TSS (NM_011838)	3.0	NM_011838	23936.0	Mm.257067	NM_011838	ENSMUSG00000022594	Lynx1	AI838844|SLURP-2	Ly6/neurotoxin 1	protein-coding	14.0	8.5	6.0	106.0	31.0	16.0	8.0	8.0
Merged-chr12-117728498-4	chr12	117728404	117728604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 20 of 27)	intron (NM_175930, intron 20 of 27)	-115357.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	26.5	29.0	19.5	357.0	64.0	16.0	23.5	24.5
Merged-chr6-124857153-4	chr6	124857064	124857264	+	979.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013534, intron 1 of 14)	CpG	523.0	NM_013534	14789.0	Mm.35708	NM_013534	ENSMUSG00000023191	P3h3	BC016431|Grcb|Leprel2	prolyl 3-hydroxylase 3	protein-coding	26.5	33.5	10.5	308.0	64.5	23.5	24.0	21.5
Merged-chr1-82831996-3	chr1	82831901	82832101	+	902.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7459.0	NM_010472	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	9.5	12.5	9.5	97.5	25.5	8.0	5.5	5.0
Merged-chr1-127135938-4	chr1	127135830	127136030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69056.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	41.0	31.0	52.5	606.5	63.5	22.5	34.0	39.0
Merged-chr13-49173253-4	chr13	49173167	49173367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-14280.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	27.5	30.5	53.5	338.0	78.5	35.5	34.5	42.0
Merged-chr15-31367431-11	chr15	31367334	31367534	+	877.4560550000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026153, exon 1 of 2)	5' UTR (NM_026153, exon 1 of 2)	325.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	10.5	17.0	25.5	136.0	14.0	6.5	7.5	7.5
Merged-chr11-85123629-7	chr11	85123545	85123745	+	884.4761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029934, intron 1 of 33)	B1_Mur1|SINE|Alu	16310.0	NM_001029934	237898.0	Mm.178524	NM_001029934	ENSMUSG00000000804	Usp32	2900074J03Rik|6430526O11Rik|AW045245	ubiquitin specific peptidase 32	protein-coding	3.5	4.5	11.5	59.0	25.0	7.0	5.5	8.5
Merged-chr2-34944914-4	chr2	34944837	34945037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009421, intron 10 of 10)	intron (NM_009421, intron 10 of 10)	16835.0	NM_009421	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	56.0	87.5	60.0	808.5	103.5	55.0	68.0	32.5
Merged-chr9-65193359-3	chr9	65193256	65193456	+	877.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21334.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	9.5	12.5	7.5	105.0	11.0	1.0	9.0	8.5
Merged-chr12-69574703-8	chr12	69574585	69574785	+	702.510437	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8343.0	NM_001033236	207965.0	Mm.102487	NM_001033236	ENSMUSG00000049882	Vcpkmt	Gm71|Mettl21d|Mettl221d|VCP-KMT	valosin containing protein lysine (K) methyltransferase	protein-coding	12.0	7.5	7.5	89.5	14.5	5.5	11.5	9.0
Merged-chr10-81266778-4	chr10	81266664	81266864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025317, intron 1 of 2)	CpG	162.0	NM_025317	66047.0	Mm.43397	NM_025317	ENSMUSG00000034932	Mrpl54	0610008M19Rik|D10Sut1e	mitochondrial ribosomal protein L54	protein-coding	77.5	151.0	108.5	927.5	194.0	102.5	68.5	136.0
Merged-chr4-53826459-4	chr4	53826365	53826565	+	949.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028053, intron 1 of 5)	intron (NM_028053, intron 1 of 5)	420.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	13.5	29.0	17.5	261.5	32.0	10.5	14.0	19.5
Merged-chr3-55354206-4	chr3	55354102	55354302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 3 of 16)	intron (NM_001357475, intron 3 of 16)	-107526.0	NM_001195539	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	165.0	174.0	168.5	2797.0	375.5	169.5	169.0	168.0
Merged-chr2-160085484-2	chr2	160085384	160085584	+	820.333374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	68831.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	18.0	11.5	7.0	181.5	14.5	6.5	10.0	10.5
Merged-chr3-88410059-4	chr3	88409970	88410170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178696)	TTS (NM_178696)	327.0	NM_001310605	67037.0	Mm.36715	NM_025928	ENSMUSG00000028066	Pmf1	2600009M07Rik|AL033286|AW060657	polyamine-modulated factor 1	protein-coding	78.5	134.5	54.5	1098.5	227.0	100.0	96.5	101.0
Merged-chr3-116166454-4	chr3	116166279	116166479	+	874.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER104|DNA|TcMar-Tc2	-36691.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	8.0	11.5	18.0	77.0	20.0	4.0	8.5	7.5
Merged-chr15-13474465-3	chr15	13474365	13474565	+	734.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-300790.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	5.0	3.0	4.5	179.5	22.5	5.5	7.0	11.0
Merged-chr11-23846113-4	chr11	23845987	23846187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49183.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	11.5	20.0	28.0	272.5	47.0	14.0	25.0	22.0
Merged-chr6-115485876-3	chr6	115485749	115485949	+	735.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 7 of 7)	intron (NM_001308354, intron 7 of 7)	-58855.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	11.0	13.0	4.5	138.0	22.5	11.0	9.0	5.0
Merged-chr6-124662184-2	chr6	124662084	124662284	+	578.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145130)	promoter-TSS (NM_145130)	-920.0	NR_149320	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	8.0	13.0	6.0	63.0	22.5	4.5	9.5	4.5
Merged-chr17-83703493-4	chr17	83703374	83703574	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2689.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	29.0	16.5	26.0	403.0	53.0	20.5	36.0	47.0
Merged-chr6-82863673-3	chr6	82863581	82863781	+	847.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18172.0	NR_040520	69652.0	Mm.96357	NR_040520	ENSMUSG00000100291	2310069B03Rik	-	RIKEN cDNA 2310069B03 gene	ncRNA	11.5	19.0	13.5	201.5	7.5	10.0	5.5	4.0
Merged-chr2-6450899-4	chr2	6450813	6451013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98177.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	33.5	52.0	62.5	664.0	88.5	21.5	42.5	29.5
Merged-chr14-57746112-4	chr14	57745979	57746179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015771)	promoter-TSS (NM_015771)	44.0	NM_015771	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	46.0	71.0	58.5	658.5	142.0	47.5	46.5	48.0
Merged-chr1-180736759-4	chr1	180736652	180736852	+	787.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133225, exon 4 of 8)	exon (NM_133225, exon 4 of 8)	10709.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	18.5	9.0	10.5	186.5	29.0	11.0	7.0	16.0
Merged-chr3-68713767-3	chr3	68713663	68713863	+	883.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22339.0	NM_008351	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	13.5	11.0	9.0	158.0	15.5	5.0	12.0	7.0
Merged-chr6-134897951-4	chr6	134897847	134898047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167696)	promoter-TSS (NM_001167696)	-14.0	NR_029441	72813.0	Mm.409034	NR_029441	ENSMUSG00000100876	2810454H06Rik	-	RIKEN cDNA 2810454H06 gene	ncRNA	74.5	125.5	46.0	725.0	255.5	72.5	75.5	91.0
Merged-chr10-128343738-3	chr10	128343634	128343834	+	766.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026444, intron 1 of 10)	intron (NM_026444, intron 1 of 10)	6007.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	8.5	9.5	10.5	121.0	19.5	8.0	4.0	6.0
Merged-chr1-92648950-4	chr1	92648848	92649048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153114)	promoter-TSS (NM_153114)	-107.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	19.0	34.0	15.0	459.5	67.0	20.5	29.5	35.0
Merged-chr16-38775580-4	chr16	38775466	38775666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178924, intron 7 of 7)	intron (NM_178924, intron 7 of 7)	24637.0	NM_178924	22268.0	Mm.130793	NM_178924	ENSMUSG00000049436	Upk1b	AI413235|Tspan20|UPIb|Upk1	uroplakin 1B	protein-coding	60.5	36.5	107.0	1312.5	119.5	33.5	80.0	64.0
Merged-chr2-166996364-4	chr2	166996278	166996478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011490)	promoter-TSS (NM_011490)	-79.0	NM_001109905	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	196.0	207.5	133.5	1771.0	363.5	120.5	211.5	109.5
Merged-chr5-43885214-4	chr5	43885127	43885327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	16418.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	72.5	67.0	66.0	1394.5	141.0	33.0	51.5	47.5
Merged-chr2-28539377-3	chr2	28539261	28539461	+	872.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145836, intron 1 of 17)	intron (NM_001145836, intron 1 of 17)	5897.0	NM_001145836	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	11.0	6.5	10.0	66.0	18.0	6.0	5.0	9.5
Merged-chr5-140636875-4	chr5	140636772	140636972	+	815.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308040, intron 1 of 12)	intron (NM_001308040, intron 1 of 12)	12159.0	NM_001308040	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	17.0	17.5	5.5	165.5	17.0	11.0	15.5	12.0
Merged-chr14-44988351-8	chr14	44988260	44988460	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008964, exon 1 of 2)	5' UTR (NM_008964, exon 1 of 2)	249.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	6.5	26.5	21.0	230.5	20.5	8.0	19.5	18.0
Merged-chr16-92457848-4	chr16	92457753	92457953	+	792.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	MLT1A|LTR|ERVL-MaLR	8316.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	15.0	19.5	9.0	172.0	39.0	12.5	16.0	21.5
Merged-chr9-32652438-4	chr9	32652347	32652547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-43595.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	51.0	65.5	23.0	894.0	77.0	33.5	37.0	33.5
Merged-chr7-113207280-4	chr7	113207167	113207367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007489)	promoter-TSS (NM_007489)	-198.0	NM_001243048	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	331.0	587.0	374.5	6440.0	946.0	406.5	418.0	311.0
Merged-chr3-87033605-4	chr3	87033497	87033697	+	930.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34257.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	12.0	19.5	4.0	150.5	27.5	13.5	7.5	20.5
Merged-chr7-7374703-2	chr7	7374597	7374797	+	759.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	24930.0	NM_001105062	100042591.0	Mm.469891	NM_001105062	ENSMUSG00000096373	Vmn2r31	-	vomeronasal 2, receptor 31	protein-coding	4.5	4.0	1.0	21.0	33.5	22.0	16.0	8.0
Merged-chr5-148453011-4	chr5	148452921	148453121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53117.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	36.5	74.0	80.0	957.5	153.0	53.0	52.5	54.0
Merged-chr5-93267584-4	chr5	93267499	93267699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007635)	promoter-TSS (NM_007635)	26.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	60.0	100.0	74.5	611.5	131.0	61.0	57.5	61.5
Merged-chr15-94545018-4	chr15	94544930	94545130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029926, intron 1 of 11)	RLTR42-int|LTR|ERVK	1370.0	NM_029926	266632.0	Mm.422858	NM_029926	ENSMUSG00000059883	Irak4	8430405M07Rik|9330209D03Rik|IRAK-4|NY-REN-64	interleukin-1 receptor-associated kinase 4	protein-coding	40.5	51.5	25.0	312.5	113.5	32.0	26.0	25.0
Merged-chr1-92675984-4	chr1	92675891	92676091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27150.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	28.0	43.0	24.5	424.5	42.5	26.5	31.5	29.0
Merged-chr6-52838899-4	chr6	52838808	52839008	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 2 of 4)	intron (NM_173406, intron 2 of 4)	70712.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	18.5	33.0	17.0	389.5	74.5	42.0	27.0	29.5
Merged-chr1-181921698-3	chr1	181921599	181921799	+	904.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010135, exon 7 of 15)	exon (NM_010135, exon 7 of 15)	-79298.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	8.5	12.0	9.0	143.5	12.5	6.5	12.0	10.0
Merged-chr8-117256579-4	chr8	117256450	117256650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163262)	promoter-TSS (NM_001163262)	-469.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	213.5	385.5	287.0	3243.0	516.5	263.5	282.5	252.0
Merged-chr17-28294592-4	chr17	28294496	28294696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 3 of 7)	intron (NM_011145, intron 3 of 7)	-18934.0	NR_028297	72775.0	Mm.201859	NM_028348	ENSMUSG00000007570	Fance	2810451D06Rik|AI415634|AW209126	Fanconi anemia, complementation group E	protein-coding	70.5	62.0	34.5	905.5	119.0	31.5	42.5	55.5
Merged-chr17-88462892-4	chr17	88462812	88463012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001355743, exon 2 of 5)	exon (NM_001355743, exon 2 of 5)	22208.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	124.5	143.5	112.0	2046.5	180.0	73.0	106.5	72.0
Merged-chr2-35451815-4	chr2	35451731	35451931	+	914.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	9618.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	38.0	31.0	40.0	651.5	25.0	12.0	18.0	21.5
Merged-chr5-86086924-4	chr5	86086795	86086995	+	857.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310639, intron 4 of 7)	intron (NM_001310639, intron 4 of 7)	15149.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	6.5	8.5	7.0	83.5	34.5	5.0	7.5	10.5
Merged-chr4-95193208-4	chr4	95193109	95193309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140987.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	113.5	98.0	105.0	2203.5	208.0	67.0	108.5	65.0
Merged-chr8-77116904-4	chr8	77116802	77117002	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083906, intron 3 of 8)	intron (NM_001083906, intron 3 of 8)	214394.0	NM_001083906	110784.0	Mm.324393	NM_001083906	ENSMUSG00000031618	Nr3c2	MR|Mlr	nuclear receptor subfamily 3, group C, member 2	protein-coding	11.0	12.0	5.5	236.5	68.0	25.5	13.5	30.5
Merged-chr8-23208437-4	chr8	23208330	23208530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018743)	promoter-TSS (NM_018743)	23.0	NM_018743	102247.0	Mm.200898	NM_018743	ENSMUSG00000031545	Gpat4	AU041707|AW545732|Agpat6|Tsarg7	glycerol-3-phosphate acyltransferase 4	protein-coding	101.5	142.5	115.0	2039.0	218.5	71.0	156.5	86.0
Merged-chr13-51395916-4	chr13	51395833	51396033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12685.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	37.0	28.5	45.0	498.5	70.5	27.0	20.5	25.0
Merged-chr19-14597465-7	chr19	14597283	14597483	+	970.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302951)	promoter-TSS (NM_001302951)	-170.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	20.5	23.5	14.0	155.0	54.0	23.5	20.5	22.5
Merged-chr3-121885051-4	chr3	121884940	121885140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68189.0	NM_172525	214137.0	Mm.229287	NM_172525	ENSMUSG00000039831	Arhgap29	6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1	Rho GTPase activating protein 29	protein-coding	26.0	23.5	18.5	369.5	57.0	22.5	17.5	21.5
Merged-chr11-32533199-4	chr11	32533090	32533290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359177)	promoter-TSS (NM_001359177)	-76.0	NM_001359178	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	145.0	224.0	149.0	2398.0	314.5	141.5	185.5	120.5
Merged-chr2-154574429-3	chr2	154574357	154574557	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4565.0	NM_007891	13555.0	Mm.18036	NM_007891	ENSMUSG00000027490	E2f1	E2F-1|Tg(Wnt1-cre)2Sor|mKIAA4009	E2F transcription factor 1	protein-coding	0.5	0.0	0.0	8.5	53.0	20.0	14.0	21.5
Merged-chr3-20005812-4	chr3	20005697	20005897	+	957.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276250, intron 19 of 19)	intron (NM_001276250, intron 19 of 19)	29513.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	14.0	16.0	19.0	424.0	48.5	8.0	20.0	14.0
Merged-chr17-6795224-3	chr17	6795178	6795378	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-12498.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	12.5	12.0	3.0	119.0	23.0	8.0	12.5	15.0
Merged-chr3-21936096-4	chr3	21935983	21936183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140569.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	92.5	141.0	123.0	1378.0	279.0	91.0	92.5	92.0
Merged-chr11-86807763-4	chr11	86807689	86807889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026191)	promoter-TSS (NM_026191)	-129.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	42.0	60.5	55.0	380.5	114.5	35.5	37.0	51.5
Merged-chr4-59214910-4	chr4	59214804	59215004	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011673, intron 5 of 8)	intron (NM_011673, intron 5 of 8)	25354.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	24.0	26.0	26.0	504.5	92.0	21.0	27.5	21.5
Merged-chr15-99030055-7	chr15	99029979	99030179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009448, exon 1 of 4)	5' UTR (NM_009448, exon 1 of 4)	188.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	54.0	105.0	65.5	698.0	202.0	106.5	100.5	129.5
Merged-chr2-3657018-4	chr2	3656922	3657122	+	898.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-56436.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	12.5	12.5	13.0	270.5	22.0	20.5	29.0	17.0
Merged-chr2-132114697-4	chr2	132114606	132114806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	30402.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	52.5	75.5	72.5	1171.0	200.0	54.5	56.0	67.0
Merged-chr11-5444975-4	chr11	5444864	5445064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080924)	promoter-TSS (NM_001080924)	-117.0	NM_001080924	407821.0	Mm.216313	NM_001080924	ENSMUSG00000041961	Znrf3	Gm1167	zinc and ring finger 3	protein-coding	146.5	193.0	88.5	1050.0	515.5	150.5	171.5	123.5
Merged-chr13-64439233-4	chr13	64439114	64439314	+	927.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_053180, exon 8 of 8)	3' UTR (NM_053180, exon 8 of 8)	6661.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	15.5	15.5	19.5	373.0	26.5	8.5	17.5	11.0
Merged-chr6-72115070-4	chr6	72114969	72115169	+	905.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	7871.0	NR_045163	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	26.0	16.0	7.0	180.5	39.5	8.0	4.0	15.5
Merged-chr15-36708599-4	chr15	36708497	36708697	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	82335.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	22.0	35.5	19.5	316.0	30.0	20.0	26.0	23.0
Merged-chr6-137704453-3	chr6	137704348	137704548	+	955.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30634.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	7.5	14.0	19.5	192.5	24.5	9.0	8.5	10.0
Merged-chr7-98816903-2	chr7	98816803	98817003	+	896.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18209.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	2.5	3.0	0.5	10.0	6.0	7.0	4.5	4.5
Merged-chr17-73096714-4	chr17	73096610	73096810	+	850.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11275.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	18.0	23.0	12.0	155.0	38.5	9.5	11.0	21.0
Merged-chr5-64716757-4	chr5	64716634	64716834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86789.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	46.5	60.5	53.5	800.0	207.5	82.0	72.0	73.5
Merged-chr2-32288196-4	chr2	32288096	32288296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133852)	promoter-TSS (NM_133852)	-57.0	NM_133852	99412.0	Mm.106376	NM_133852	ENSMUSG00000002546	Golga2	AW555139|GM130|mKIAA4150	golgi autoantigen, golgin subfamily a, 2	protein-coding	241.0	428.0	207.0	2605.5	518.5	252.5	245.0	200.0
Merged-chr11-69409535-4	chr11	69409438	69409638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 1 of 22)	intron (NM_001017426, intron 1 of 22)	4137.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	144.5	296.5	129.5	1802.0	484.5	195.5	170.0	180.0
Merged-chr19-10862327-2	chr19	10862227	10862427	+	965.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_133804, intron 7 of 10)	intron (NM_133804, intron 7 of 10)	7452.0	NM_133804	98170.0	Mm.490254	NM_133804	ENSMUSG00000024736	Tmem132a	6720481D13Rik|Hspa5bp1|Orai1|R74613	transmembrane protein 132A	protein-coding	6.0	8.0	5.0	16.5	3.5	2.5	6.0	6.5
Merged-chr9-102479141-2	chr9	102479041	102479241	+	550.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26997.0	NM_024291	16716.0	Mm.101692	NM_024291	ENSMUSG00000035606	Ky	CD1|D9Mgc44e|ky	kyphoscoliosis peptidase	protein-coding	1.5	7.5	3.0	47.5	11.0	6.5	5.5	5.0
Merged-chr10-88327643-4	chr10	88327547	88327747	+	825.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 5 of 6)	intron (NM_027878, intron 5 of 6)	29428.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	4.5	18.0	8.0	149.0	21.5	8.0	12.0	10.0
Merged-chr2-118923053-1	chr2	118922953	118923153	+	620.0	f0_balb.idr	3' UTR (NM_001045523, exon 7 of 7)	3' UTR (NM_001045523, exon 7 of 7)	-3444.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	4.5	13.5	2.5	124.0	22.5	9.5	7.0	8.5
Merged-chr5-142817872-4	chr5	142817780	142817980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122730)	promoter-TSS (NM_001122730)	-493.0	NM_001122730	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	154.5	229.5	133.0	1523.5	385.0	179.0	168.0	166.0
Merged-chr5-114130822-4	chr5	114130727	114130927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011677)	promoter-TSS (NM_011677)	-329.0	NM_011677	22256.0	Mm.1393	NM_011677	ENSMUSG00000029591	Ung	UNG1|UNG2	uracil DNA glycosylase	protein-coding	65.0	82.0	47.0	869.5	202.0	83.5	68.0	78.5
Merged-chr4-19893987-4	chr4	19893886	19894086	+	868.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	28580.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	5.0	14.0	15.5	403.5	42.5	4.0	7.5	19.5
Merged-chr1-171114074-4	chr1	171113987	171114187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7574.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	97.0	75.5	72.0	1008.0	203.5	66.5	76.0	50.0
Merged-chr16-32401715-4	chr16	32401582	32401782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160402, intron 1 of 4)	intron (NM_001160402, intron 1 of 4)	1176.0	NM_001160402	277203.0	Mm.484240	NM_001160402	ENSMUSG00000079625	Tm4sf19	EG277203	transmembrane 4 L six family member 19	protein-coding	48.5	63.0	57.0	823.5	106.0	35.5	52.5	43.0
Merged-chr7-64360235-4	chr7	64360151	64360351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177893, intron 8 of 13)	intron (NM_177893, intron 8 of 13)	13844.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	54.5	47.0	49.0	895.5	99.0	29.5	36.5	28.5
Merged-chr1-165762595-2	chr1	165762495	165762695	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1163.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	6.0	4.0	14.5	93.5	18.0	7.5	7.0	10.5
Merged-chr10-44024945-3	chr10	44024845	44025045	+	863.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20099.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	5.5	16.5	0.5	126.5	11.5	8.5	10.5	7.0
Merged-chr5-135551787-4	chr5	135551709	135551909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-6687.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	55.5	107.0	46.5	630.5	89.0	43.0	34.0	39.0
Merged-chr13-9191382-4	chr13	9191272	9191472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85153.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	65.0	70.0	74.5	1240.5	118.0	63.5	51.5	67.5
Merged-chr16-43108021-4	chr16	43107930	43108130	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285805, intron 2 of 10)	intron (NM_001285805, intron 2 of 10)	-139254.0	NM_181058	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	22.0	20.0	31.5	506.5	54.5	22.0	21.5	25.0
Merged-chr2-156306030-3	chr2	156305927	156306127	+	700.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 17 of 17)	B2_Mm2|SINE|B2	-6446.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	5.5	11.5	4.5	68.5	25.5	2.5	9.5	5.0
Merged-chr13-19418041-4	chr13	19417907	19418107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22194.0	NM_001347485	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	44.5	91.0	41.0	447.0	133.0	35.5	54.0	42.0
Merged-chr10-40141659-2	chr10	40141559	40141759	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	595.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	9.5	23.0	18.0	211.5	73.0	22.0	29.0	23.5
Merged-chr5-68735374-4	chr5	68735261	68735461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	606348.0	NM_175519	243043.0	Mm.234821	NM_175519	ENSMUSG00000037653	Kctd8	A730087N02Rik	potassium channel tetramerisation domain containing 8	protein-coding	87.0	113.0	156.0	1966.5	330.0	111.0	186.5	156.0
Merged-chr18-68154313-4	chr18	68154201	68154401	+	873.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-73645.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	19.5	18.0	6.0	201.5	19.5	10.5	14.5	6.0
Merged-chr14-21049564-4	chr14	21049475	21049675	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018829, intron 1 of 8)	intron (NM_018829, intron 1 of 8)	2867.0	NM_018829	55946.0	Mm.376269	NM_018829	ENSMUSG00000021824	Ap3m1	1200013D09Rik|C78982|R75378	adaptor-related protein complex 3, mu 1 subunit	protein-coding	24.0	36.5	16.5	230.5	64.0	17.0	22.0	21.0
Merged-chr11-97050767-4	chr11	97050653	97050853	+	839.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081434)	promoter-TSS (NM_001081434)	-67.0	NM_001310509	71240.0	Mm.190450	NM_001081434	ENSMUSG00000038534	Osbpl7	4933437E18Rik	oxysterol binding protein-like 7	protein-coding	12.5	14.5	8.0	203.5	26.0	4.0	8.5	11.0
Merged-chr11-95414951-4	chr11	95414756	95414956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359107, intron 1 of 9)	intron (NM_001359107, intron 1 of 9)	773.0	NM_001359107	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	47.5	90.0	67.0	394.5	115.5	74.0	67.0	75.5
Merged-chr7-140078892-3	chr7	140078798	140078998	+	815.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026769, intron 1 of 5)	B3|SINE|B2	3403.0	NM_001190386	68566.0	Mm.44241	NM_026769	ENSMUSG00000025468	Caly	0710001P07Rik|1110004A22Rik|Calcyon|Drd1ip	calcyon neuron-specific vesicular protein	protein-coding	7.0	7.0	5.0	113.5	23.0	11.0	12.0	10.5
Merged-chr5-124095360-3	chr5	124095245	124095445	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019875, intron 1 of 11)	intron (NM_019875, intron 1 of 11)	453.0	NM_019875	56325.0	Mm.254839	NM_019875	ENSMUSG00000029408	Abcb9	TAPL|mKIAA1520	ATP-binding cassette, sub-family B (MDR/TAP), member 9	protein-coding	10.5	10.5	6.5	41.5	20.5	8.5	10.5	9.0
Merged-chr5-144935429-4	chr5	144935312	144935512	+	910.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038627, intron 1 of 17)	intron (NM_001038627, intron 1 of 17)	30418.0	NM_001038627	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	9.5	27.5	9.5	142.0	38.5	13.0	13.5	15.0
Merged-chr7-103762396-3	chr7	103762303	103762503	+	729.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5053.0	NM_147098	259102.0	Mm.377844	NM_147098	ENSMUSG00000050281	Olfr630	MOR17-1	olfactory receptor 630	protein-coding	0.0	0.0	0.0	0.0	29.0	8.0	8.0	8.5
Merged-chr3-51340521-8	chr3	51340442	51340642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291059, exon 1 of 10)	5' UTR (NM_001291059, exon 1 of 10)	102.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	54.5	57.0	51.5	471.0	84.5	38.0	43.0	58.0
Merged-chr4-133353598-4	chr4	133353483	133353683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14268.0	NM_199306	230796.0	Mm.226576	NM_199306	ENSMUSG00000037622	Wdtc1	Gm695|adipose|adp	WD and tetratricopeptide repeats 1	protein-coding	27.5	67.0	21.5	357.0	84.5	28.0	37.5	32.5
Merged-chr18-53312146-4	chr18	53312041	53312241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	ORR1D2|LTR|ERVL-MaLR	66479.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	119.0	113.0	109.0	2143.0	174.5	66.0	125.5	97.5
Merged-chr2-103565374-3	chr2	103565269	103565469	+	602.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178890)	promoter-TSS (NM_178890)	-941.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	4.0	3.5	2.0	90.0	12.5	4.5	5.0	6.5
Merged-chr19-53781024-4	chr19	53780927	53781127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	intron (NM_001170847, intron 1 of 13)	103721.0	NM_001170847	73713.0	Mm.313695	NM_001170847	ENSMUSG00000043639	Rbm20	1110018J23Rik|2010003H22Rik|AI646761	RNA binding motif protein 20	protein-coding	26.5	20.5	21.0	264.5	63.5	13.5	34.5	23.0
Merged-chr8-11100479-3	chr8	11100372	11100572	+	941.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92042.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	9.0	21.0	18.0	213.5	12.5	3.0	7.0	3.5
Merged-chr9-106789090-4	chr9	106788987	106789187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030730, exon 1 of 22)	5' UTR (NM_030730, exon 1 of 22)	126.0	NM_030730	81000.0	Mm.246689	NM_030730	ENSMUSG00000040661	Rad54l2	Arip4|D130058C05|G630026H09Rik|Srisnf2l	RAD54 like 2 (S. cerevisiae)	protein-coding	16.0	32.0	25.5	183.5	59.0	33.5	26.0	25.0
Merged-chr4-141617475-4	chr4	141617394	141617594	+	957.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151462, intron 2 of 5)	intron (NR_151462, intron 2 of 5)	1139.0	NM_145987	213989.0	Mm.34891	NM_145987	ENSMUSG00000043085	Tmem82	-	transmembrane protein 82	protein-coding	26.5	41.5	8.5	328.5	77.0	15.0	17.0	38.0
Merged-chr19-15829291-3	chr19	15829205	15829405	+	925.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95317.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	29.0	21.5	27.5	523.5	19.5	7.0	4.5	18.0
Merged-chr13-44760757-2	chr13	44760657	44760857	+	654.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	intron (NM_001205043, intron 1 of 17)	29486.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	10.0	9.5	5.0	47.0	13.0	2.0	3.0	9.5
Merged-chr6-148705895-3	chr6	148705806	148706006	+	665.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-27906.0	NR_131024	75831.0	Mm.159595	NR_131024	ENSMUSG00000084909	4930528G23Rik	-	RIKEN cDNA 4930528G23 gene	ncRNA	7.0	4.0	1.5	166.0	26.0	8.5	10.5	7.0
Merged-chr10-95236560-4	chr10	95236485	95236685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	87124.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	101.0	113.5	150.5	2251.0	158.5	58.0	98.5	100.0
Merged-chr9-62838653-4	chr9	62838536	62838736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033175)	promoter-TSS (NM_001033175)	-151.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	127.5	129.5	83.0	1335.0	176.5	84.5	75.5	54.5
Merged-chr2-118491496-5	chr2	118491465	118491665	+	880.534973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11869.0	NM_009273	20813.0	Mm.363404	NM_009273	ENSMUSG00000009549	Srp14	14kDa|AW536328	signal recognition particle 14	protein-coding	5.5	2.5	22.0	94.5	13.0	21.0	7.0	10.5
Merged-chr14-8174861-3	chr14	8174752	8174952	+	784.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1860.0	NM_024221	68263.0	Mm.301527	NM_024221	ENSMUSG00000021748	Pdhb	2610103L06Rik|AL024199|C81408	pyruvate dehydrogenase (lipoamide) beta	protein-coding	1.5	7.0	2.0	52.5	22.0	11.5	11.5	9.0
Merged-chr8-4677917-4	chr8	4677822	4678022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	64752.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	212.5	345.0	254.0	4723.0	825.5	304.0	416.0	333.5
Merged-chr5-35755540-4	chr5	35755444	35755644	+	975.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2336.0	NM_001177697	231148.0	Mm.254446	NM_177678	ENSMUSG00000029095	Ablim2	AI606905|C230091L11	actin-binding LIM protein 2	protein-coding	28.5	84.5	31.5	351.5	75.0	39.0	31.5	15.0
Merged-chr10-22283001-3	chr10	22282902	22283102	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177775, intron 1 of 5)	intron (NM_001177775, intron 1 of 5)	9528.0	NM_001177775	667281.0	Mm.484254	NM_001177775	ENSMUSG00000075297	H60b	EG667281	histocompatibility 60b	protein-coding	75.0	72.5	63.5	1126.0	9.0	2.0	5.0	1.5
Merged-chr9-57525787-4	chr9	57525693	57525893	+	977.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007747, intron 1 of 4)	ID_B1|SINE|B4	4561.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	25.5	36.0	20.0	386.0	51.5	10.5	22.5	25.5
Merged-chr11-101645585-4	chr11	101645464	101645664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17615.0	NM_025654	66599.0	Mm.41449	NM_025654	ENSMUSG00000010362	Rdm1	2410008M22Rik|AW212028|Rad52b	RAD52 motif 1	protein-coding	29.0	66.5	33.0	421.0	55.0	20.0	20.0	20.0
Merged-chr2-165949840-4	chr2	165949758	165949958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42779.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	70.0	101.0	83.5	939.5	158.5	62.0	73.0	59.0
Merged-chr17-65783393-2	chr17	65783292	65783492	+	692.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NR_104465)	promoter-TSS (NR_104465)	37.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	11.5	9.0	12.0	136.5	29.0	8.0	10.0	8.5
Merged-chr2-58166961-4	chr2	58166868	58167068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045895, intron 2 of 3)	intron (NR_045895, intron 2 of 3)	2994.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	24.5	24.0	24.5	398.5	34.5	7.5	24.0	9.0
Merged-chr4-95052300-4	chr4	95052215	95052415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010591)	promoter-TSS (NM_010591)	-93.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	353.5	545.0	392.0	5072.5	993.0	384.5	395.5	379.5
Merged-chr4-41507096-4	chr4	41506988	41507188	+	974.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253788, intron 4 of 5)	CpG	676.0	NM_028624	73721.0	Mm.45614	NM_028624	ENSMUSG00000028441	1110017D15Rik	Cbe1|Smrp1	RIKEN cDNA 1110017D15 gene	protein-coding	41.0	41.5	27.0	456.5	49.0	15.5	46.5	34.0
Merged-chr9-90233519-4	chr9	90233424	90233624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	37245.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	115.0	167.5	122.0	1940.5	270.0	82.5	120.0	86.0
Merged-chr5-110107750-4	chr5	110107637	110107837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145147, intron 1 of 9)	CpG-11316	460.0	NM_145147	107999.0	Mm.86267	NM_145147	ENSMUSG00000033434	Gtpbp6	AV119224|Pgbpll|pgpl	GTP binding protein 6 (putative)	protein-coding	101.0	135.0	110.0	2069.0	348.5	128.5	231.5	150.5
Merged-chr17-43579911-4	chr17	43579820	43580020	+	918.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	11469.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	18.5	32.5	15.5	133.0	38.0	12.5	17.5	8.5
Merged-chr7-84102769-4	chr7	84102656	84102856	+	656.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-16251.0	NM_030728	80982.0	Mm.160389	NM_030728	ENSMUSG00000052353	Cemip	12H19.01.T7|6330404C01Rik|9930013L23Rik|AY007814|Kiaa1199	cell migration inducing protein, hyaluronan binding	protein-coding	8.5	7.0	5.5	159.0	25.5	4.5	8.0	2.5
Merged-chr14-75863936-4	chr14	75863818	75864018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15995.0	NR_028481	100303751.0	Mm.484707	NR_028481	ENSMUSG00000065147	Snora31	MBI-161	small nucleolar RNA, H/ACA box 31	snoRNA	78.0	93.5	72.5	1340.0	166.5	48.5	81.5	99.5
Merged-chr8-110997771-4	chr8	110997641	110997841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007916)	promoter-TSS (NM_007916)	82.0	NM_007916	13680.0	Mm.287901	NM_007916	ENSMUSG00000015023	Ddx19a	DBP5|Ddx19|Eif4a-rs1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 19a	protein-coding	52.0	73.0	60.0	577.0	112.5	36.5	34.0	46.0
Merged-chr17-23786120-4	chr17	23785881	23786081	+	944.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029798)	promoter-TSS (NM_029798)	100.0	NM_029798	76917.0	Mm.269613	NM_029798	ENSMUSG00000023911	Flywch2	2810417J12Rik|3010014L17Rik|AW548203	FLYWCH family member 2	protein-coding	13.5	12.0	6.0	75.0	9.0	3.5	12.0	4.5
Merged-chr15-59774214-3	chr15	59774105	59774305	+	940.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20754.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	14.0	11.0	39.5	342.5	16.0	12.0	29.5	13.0
Merged-chr9-57940192-4	chr9	57940134	57940334	+	832.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011352)	promoter-TSS (NM_011352)	99.0	NM_011352	20361.0	Mm.335187	NM_011352	ENSMUSG00000038264	Sema7a	2900057C09Rik|CDw108|H-Sema-L|M-Sema-L|Semal	sema domain, immunoglobulin domain (Ig), and GPI membrane anchor, (semaphorin) 7A	protein-coding	12.0	5.5	11.0	109.5	11.5	7.0	4.5	5.0
Merged-chr12-71309765-5	chr12	71309658	71309858	+	823.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021532)	promoter-TSS (NM_021532)	-126.0	NM_021532	59036.0	Mm.46662	NM_021532	ENSMUSG00000044548	Dact1	4921528D17Rik|AI115603|DAPPER|DAPPER1|FRODO|Frd1|Frodo1|MDpr1|MTNG3|THYEX3	dishevelled-binding antagonist of beta-catenin 1	protein-coding	9.0	16.0	11.0	319.5	16.5	7.0	6.5	11.5
Merged-chr11-40855975-4	chr11	40855871	40856071	+	971.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	-100685.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	16.5	20.5	27.0	358.0	54.5	15.5	29.0	14.0
Merged-chr17-86903799-3	chr17	86903691	86903891	+	800.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13557.0	NM_001277980	78469.0	Mm.67234	NM_030104	ENSMUSG00000037689	Tmem247	1700090G07Rik	transmembrane protein 247	protein-coding	13.0	10.0	5.5	236.5	8.0	6.0	7.5	13.0
Merged-chr13-95801623-2	chr13	95801524	95801724	+	740.0	f0_balb.idr|f1_balb.idr	intron (NM_027711, intron 2 of 35)	intron (NM_027711, intron 2 of 35)	90298.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	9.0	7.5	7.5	198.5	8.5	0.5	0.0	3.5
Merged-chr2-160646518-5	chr2	160646516	160646716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009408, exon 2 of 21)	exon (NM_009408, exon 2 of 21)	719.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	12.0	43.0	24.0	128.5	60.5	27.0	10.5	43.5
Merged-chr6-39451134-1	chr6	39451034	39451234	+	544.0	f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	30756.0	NR_152168	621427.0	Mm.389742	NR_152168	ENSMUSG00000068601	Gm10244	Anmkrn1	predicted gene 10244	ncRNA	9.5	12.5	4.5	39.5	8.5	2.5	2.0	5.5
Merged-chr16-91398755-1	chr16	91398655	91398855	+	1000.0	f0_c57.idr	intron (NM_001347258, intron 7 of 7)	intron (NM_001347258, intron 7 of 7)	-7480.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	14.0	16.0	7.5	242.0	43.0	19.0	23.0	16.5
Merged-chr17-33909364-4	chr17	33909289	33909489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045146)	promoter-TSS (NR_045146)	-56.0	NR_149750	13163.0	Mm.271809	NM_007829	ENSMUSG00000002307	Daxx	-	Fas death domain-associated protein	protein-coding	158.5	240.5	159.0	2132.0	438.0	163.0	198.5	174.5
Merged-chr7-66385998-1	chr7	66385898	66386098	+	571.5	f0_c57.idr	intron (NM_146191, intron 1 of 33)	Lx7|LINE|L1	2343.0	NM_146191	233328.0	Mm.33284	NM_146191	ENSMUSG00000015133	Lrrk1	AW319595|C230002E15Rik|D130026O16Rik|mKIAA1790	leucine-rich repeat kinase 1	protein-coding	7.0	7.5	5.5	70.5	27.0	14.5	9.0	4.0
Merged-chr13-98929169-4	chr13	98929044	98929244	+	830.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2760.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	10.5	9.5	7.5	116.5	31.5	7.0	7.0	12.5
Merged-chr8-13157343-4	chr8	13157242	13157442	+	878.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-1819.0	NM_001317353	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	20.5	7.0	10.0	203.0	24.5	12.5	13.5	14.5
Merged-chr8-120768764-4	chr8	120768679	120768879	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30140.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	14.5	33.0	25.5	276.0	59.0	13.5	18.0	15.0
Merged-chr10-127621148-6	chr10	127621071	127621271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008512)	promoter-TSS (NM_008512)	-23.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	53.0	66.5	64.5	873.5	115.5	56.5	80.5	49.0
Merged-chr12-98735544-3	chr12	98735441	98735641	+	961.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011877)	promoter-TSS (NM_011877)	-896.0	NM_011877	24000.0	Mm.4420	NM_011877	ENSMUSG00000021009	Ptpn21	PTPD1|PTPRL10	protein tyrosine phosphatase, non-receptor type 21	protein-coding	10.0	6.5	16.0	210.0	6.5	4.0	9.5	8.0
Merged-chr3-108085424-4	chr3	108085322	108085522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346665)	promoter-TSS (NM_001346665)	4.0	NM_001289720	109674.0	Mm.274335	NM_028779	ENSMUSG00000027889	Ampd2	1200014F01Rik|AI552571|Ampd-2|m4521Dajl	adenosine monophosphate deaminase 2	protein-coding	60.5	50.0	40.5	930.0	126.5	54.5	52.5	59.5
Merged-chr14-101595811-4	chr14	101595702	101595902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	13389.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	44.0	36.0	26.5	823.5	83.5	20.5	43.5	40.5
Merged-chr11-3191777-16	chr11	3191652	3191852	+	969.3797609999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 1 of 32)	RCHARR1|DNA|hAT-Charlie	1711.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	16.0	18.5	25.5	82.0	31.0	10.0	14.5	36.5
Merged-chr2-29130260-3	chr2	29130137	29130337	+	960.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198033, exon 4 of 26)	exon (NM_198033, exon 4 of 26)	5245.0	NM_198033	269254.0	Mm.41867	NM_198033	ENSMUSG00000043535	Setx	A130090N03|A930037J23Rik|AOA2|AW060766|Als4|SCAR1|Sen1|mKIAA0625	senataxin	protein-coding	10.0	12.5	8.5	148.0	11.5	1.0	6.5	10.5
Merged-chr9-40750388-3	chr9	40750288	40750488	+	915.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-50885.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	7.0	3.0	11.5	108.5	8.0	8.0	10.0	8.5
Merged-chr2-93045647-4	chr2	93045553	93045753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177536, intron 1 of 6)	CpG	491.0	NM_001177536	100042784.0	Mm.102816	NM_001177536	ENSMUSG00000075028	Prdm11	8030443D09Rik|AA163972|Gm707	PR domain containing 11	protein-coding	135.0	197.0	118.0	2444.0	334.0	143.0	194.5	144.5
Merged-chr16-33756631-4	chr16	33756483	33756683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 12 of 14)	intron (NM_175256, intron 12 of 14)	-37454.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	22.5	38.0	22.5	484.0	57.5	25.0	34.0	34.0
Merged-chr19-5636732-4	chr19	5636635	5636835	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009045)	promoter-TSS (NM_009045)	-755.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	14.5	36.5	25.5	54.0	38.5	21.0	9.0	6.0
Merged-chr18-70620292-4	chr18	70620201	70620401	+	940.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010773, intron 5 of 6)	intron (NM_010773, intron 5 of 6)	52009.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	9.0	14.0	8.0	128.5	52.0	9.0	23.5	20.5
Merged-chr2-91112694-3	chr2	91112593	91112793	+	967.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 2 of 4)	intron (NM_011355, intron 2 of 4)	-5451.0	NM_008653	17868.0	Mm.10728	NM_008653	ENSMUSG00000002100	Mybpc3	-	myosin binding protein C, cardiac	protein-coding	21.5	45.5	10.5	369.5	23.0	6.5	5.5	4.5
Merged-chr18-5401693-4	chr18	5401609	5401809	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66902.0	NM_001360447	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	27.5	43.5	14.5	586.0	52.0	7.5	14.5	9.5
Merged-chr10-77565970-4	chr10	77565869	77566069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008404)	TTS (NM_008404)	-15686.0	NM_145925	108705.0	Mm.28853	NM_145925	ENSMUSG00000009291	Pttg1ip	1810010L20Rik|AI314311|AU018448|C79540|PBF	pituitary tumor-transforming 1 interacting protein	protein-coding	24.0	86.0	21.0	443.5	116.0	50.5	58.5	46.0
Merged-chr5-122548825-4	chr5	122548715	122548915	+	858.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46590.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	19.5	14.5	21.0	375.0	12.0	3.0	11.0	13.5
Merged-chr8-111243778-4	chr8	111243674	111243874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009149, intron 1 of 25)	intron (NM_009149, intron 1 of 25)	15428.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	46.0	46.5	49.0	459.5	90.0	22.5	29.5	40.0
Merged-chr16-55755628-3	chr16	55755538	55755738	+	931.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66500.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	5.5	42.5	13.5	136.0	48.5	7.5	5.5	4.0
Merged-chr4-139382140-3	chr4	139382055	139382255	+	776.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160319, intron 1 of 105)	B3A|SINE|B2	1496.0	NM_001160319	69116.0	Mm.271956	NM_001160319	ENSMUSG00000066036	Ubr4	1810009A16Rik|A930005E13Rik|D930005K06Rik|Gm1032|Gm1666|N28143|RBAF600|Zubr1|mKIAA0462|p600	ubiquitin protein ligase E3 component n-recognin 4	protein-coding	6.5	9.0	7.5	104.0	17.5	10.0	5.0	8.5
Merged-chr1-170953405-4	chr1	170953289	170953489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22682.0	NM_010187	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	74.0	74.0	77.5	1200.5	129.0	66.5	50.5	64.0
Merged-chr17-84329682-4	chr17	84329595	84329795	+	712.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 28 of 37)	intron (NM_183021, intron 28 of 37)	136513.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	15.5	32.5	12.0	64.0	17.5	6.0	7.5	14.5
Merged-chr8-106500173-4	chr8	106500079	106500279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10673.0	NM_007665	12560.0	Mm.4658	NM_007665	ENSMUSG00000061048	Cdh3	AI385538|Cadp|Cdhp|P-cadherin|Pcad	cadherin 3	protein-coding	177.0	234.5	130.0	2270.5	334.5	128.5	108.0	131.5
Merged-chr9-45396092-3	chr9	45395988	45396188	+	895.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022004)	TTS (NM_022004)	-3621.0	NR_028499	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	11.0	19.0	20.5	339.0	19.5	3.5	5.0	8.5
Merged-chr5-140615863-4	chr5	140615770	140615970	+	879.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008494)	TTS (NM_008494)	8529.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	12.0	32.0	12.5	77.0	41.0	29.0	13.0	14.5
Merged-chr18-5760478-3	chr18	5760358	5760558	+	905.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360982, intron 4 of 7)	intron (NM_001360982, intron 4 of 7)	167811.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	14.0	22.0	17.5	153.5	0.5	0.5	1.0	2.0
Merged-chr10-22307504-2	chr10	22307404	22307604	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_015465, intron 2 of 2)	intron (NR_015465, intron 2 of 2)	784.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	7.0	3.0	9.5	92.5	14.0	7.0	4.5	4.5
Merged-chr19-53479666-3	chr19	53479556	53479756	+	865.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-14860.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	17.5	13.5	26.0	343.0	8.0	3.5	4.0	3.5
Merged-chr7-139684744-3	chr7	139684616	139684816	+	918.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302546)	promoter-TSS (NM_001302546)	-901.0	NM_001302546	212124.0	Mm.425507	NM_177212	ENSMUSG00000049571	Cfap46	9330101J02Rik|E030019B06Rik|Gm170|Ttc40	cilia and flagella associated protein 46	protein-coding	13.0	10.5	12.0	217.5	8.5	4.5	6.5	7.5
Merged-chr13-9750005-4	chr13	9749895	9750095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347474, intron 1 of 14)	intron (NM_001347474, intron 1 of 14)	13815.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	19.0	44.5	37.0	406.5	60.5	39.5	23.5	26.5
Merged-chr12-80832401-4	chr12	80832316	80832516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	intron (NM_178682, intron 2 of 5)	41884.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	67.5	86.0	45.0	1052.0	123.0	46.0	39.0	53.0
Merged-chr1-64753315-4	chr1	64753221	64753421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15571.0	NM_022721	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	46.0	61.5	45.0	909.0	123.5	39.0	57.0	50.5
Merged-chr9-115746641-4	chr9	115746532	115746732	+	971.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162823.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	2.0	3.0	17.5	146.0	31.0	7.0	25.0	30.0
Merged-chr7-80836137-4	chr7	80836036	80836236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25972.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	85.5	89.5	71.5	1396.0	219.5	61.5	81.0	84.0
Merged-chr9-13827572-4	chr9	13827474	13827674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310721)	promoter-TSS (NM_001310721)	-142.0	NM_001358259	72826.0	Mm.246174	NM_176836	ENSMUSG00000037808	Fam76b	2810485I05Rik|C78303	family with sequence similarity 76, member B	protein-coding	391.0	724.0	479.0	6095.0	1150.5	451.5	506.5	424.0
Merged-chr10-121305652-3	chr10	121305550	121305750	+	914.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 4 of 12)	intron (NM_001361015, intron 4 of 12)	5746.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	4.0	16.5	10.0	187.5	6.0	4.5	10.5	7.5
Merged-chr2-21091186-4	chr2	21091094	21091294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114171.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	51.0	62.0	48.0	818.5	115.5	29.5	55.0	64.5
Merged-chr11-6391729-4	chr11	6391616	6391816	+	960.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3409.0	NM_001005867	52915.0	Mm.1144	NM_028601	ENSMUSG00000041164	Zmiz2	Zimp7	zinc finger, MIZ-type containing 2	protein-coding	25.0	52.5	11.5	95.5	83.0	43.0	23.5	21.5
Merged-chr14-55724570-4	chr14	55724493	55724693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2330.0	NM_001360387	56187.0	Mm.87216	NM_019519	ENSMUSG00000040472	Rabggta	gm	Rab geranylgeranyl transferase, a subunit	protein-coding	91.0	113.0	77.0	1040.5	297.5	100.0	79.0	81.0
Merged-chr14-103016109-4	chr14	103016007	103016207	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	intron (NR_045657, intron 2 of 2)	17696.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	38.5	119.0	65.0	501.0	117.5	48.5	41.5	25.5
Merged-chr17-71127661-4	chr17	71127550	71127750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010867)	TTS (NM_010867)	-55882.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	99.0	132.0	117.5	1977.0	191.0	75.0	153.0	99.0
Merged-chr18-54997748-4	chr18	54997634	54997834	+	987.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5143.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	18.0	23.0	17.5	273.0	60.5	35.0	37.5	12.5
Merged-chr3-9751670-4	chr3	9751568	9751768	+	900.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	82011.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	22.0	8.5	24.5	437.5	20.5	10.0	18.0	15.0
Merged-chr15-76229582-4	chr15	76229504	76229704	+	873.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201385)	promoter-TSS (NM_201385)	-107.0	NM_201385	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	10.5	17.5	6.0	250.0	34.0	13.0	12.5	8.5
Merged-chr4-133156587-4	chr4	133156456	133156656	+	800.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	L2|LINE|L2	25923.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	4.5	9.5	11.5	153.0	11.5	4.0	14.5	12.5
Merged-chr4-155066987-4	chr4	155066879	155067079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042407)	promoter-TSS (NM_001042407)	-51.0	NM_001042407	668173.0	Mm.133114	NM_001042407	ENSMUSG00000029047	Pex10	AV128229|Gm142	peroxisomal biogenesis factor 10	protein-coding	207.5	326.5	158.5	2658.5	433.0	164.5	225.0	171.0
Merged-chr10-34131542-4	chr10	34131444	34131644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3572.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	91.5	163.0	111.0	1573.0	269.5	79.5	90.0	73.5
Merged-chr10-80261744-4	chr10	80261590	80261790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347119)	promoter-TSS (NM_001347119)	-678.0	NM_010255	14431.0	Mm.7329	NM_010255	ENSMUSG00000020150	Gamt	AA571402|Spintz1	guanidinoacetate methyltransferase	protein-coding	101.5	181.5	97.0	1182.0	254.5	110.0	127.5	124.0
Merged-chr13-96548089-4	chr13	96547986	96548186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023420, intron 1 of 17)	intron (NM_023420, intron 1 of 17)	5351.0	NM_023420	68018.0	Mm.24125	NM_023420	ENSMUSG00000021669	Col4a3bp	2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP	collagen, type IV, alpha 3 (Goodpasture antigen) binding protein	protein-coding	97.0	97.5	80.5	1276.0	158.0	52.5	47.5	69.0
Merged-chr14-16243308-4	chr14	16243212	16243412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359883)	promoter-TSS (NM_001359883)	19.0	NM_001359883	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	171.5	261.5	152.0	2310.5	422.5	188.0	170.5	174.0
Merged-chr11-60775108-4	chr11	60775016	60775216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009410, intron 1 of 18)	intron (NM_009410, intron 1 of 18)	2249.0	NM_009410	21975.0	Mm.10708	NM_009410	ENSMUSG00000002814	Top3a	-	topoisomerase (DNA) III alpha	protein-coding	73.0	76.0	41.0	377.5	129.5	44.5	31.5	23.5
Merged-chr5-33203785-4	chr5	33203678	33203878	+	929.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14460.0	NM_133903	100689.0	Mm.34694	NM_133903	ENSMUSG00000037379	Spon2	2310045I24Rik|AI504350|M-spondin|Mindin|Mspondin	spondin 2, extracellular matrix protein	protein-coding	18.5	26.5	8.0	218.5	70.0	12.0	17.0	19.5
Merged-chr3-107099336-3	chr3	107099259	107099459	+	888.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-2208.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	6.0	12.5	7.0	58.5	38.5	10.0	10.0	2.5
Merged-chr7-48908917-4	chr7	48908821	48909021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27325.0	NM_001360812	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	64.5	85.0	71.0	948.5	108.0	47.5	73.5	47.0
Merged-chr9-21917735-2	chr9	21917635	21917835	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_031874, intron 1 of 4)	intron (NM_031874, intron 1 of 4)	448.0	NM_031874	19340.0	Mm.260157	NM_031874	ENSMUSG00000019066	Rab3d	C130057E11Rik	RAB3D, member RAS oncogene family	protein-coding	5.0	2.5	7.5	46.0	32.0	9.5	6.0	12.5
Merged-chr10-77606579-4	chr10	77606469	77606669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301671)	promoter-TSS (NM_001301671)	-29.0	NM_001301671	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	167.0	304.0	155.5	2544.5	557.5	210.0	257.0	170.5
Merged-chr11-50134311-4	chr11	50134206	50134406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029745, intron 1 of 20)	Arthur1|DNA|hAT-Tip100	2946.0	NM_029745	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	66.0	146.5	37.0	982.0	165.5	82.0	58.5	47.5
Merged-chr7-80057567-4	chr7	80057463	80057663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	17694.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	60.5	73.0	39.0	742.5	62.5	18.5	19.5	21.5
Merged-chr7-118479327-4	chr7	118479198	118479398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12677.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	92.5	155.0	116.5	2282.0	251.0	72.5	112.5	110.5
Merged-chr3-97202111-4	chr3	97202006	97202206	+	941.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25258.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	10.5	15.0	6.5	211.0	53.0	18.5	8.5	18.0
Merged-chr5-149068392-4	chr5	149068285	149068485	+	899.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15328.0	NM_010439	15289.0	Mm.207047	NM_010439	ENSMUSG00000066551	Hmgb1	HMG-1|Hmg1|SBP-1|p30	high mobility group box 1	protein-coding	8.0	10.0	2.5	187.0	35.0	6.0	13.0	7.0
Merged-chr1-173934636-4	chr1	173934529	173934729	+	918.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302649, intron 5 of 9)	intron (NM_001302649, intron 5 of 9)	7863.0	NM_001302649	15950.0	Mm.463437	NM_008328	ENSMUSG00000039997	Ifi203	Ifi203a|Ifi203b|Mndal	interferon activated gene 203	protein-coding	41.0	48.5	33.0	346.0	31.0	12.5	10.5	13.5
Merged-chr2-164972939-4	chr2	164972848	164973048	+	866.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020333, intron 1 of 25)	L2b|LINE|L2	4960.0	NM_020333	57138.0	Mm.252987	NM_020333	ENSMUSG00000017740	Slc12a5	KCC2|mKIAA1176	solute carrier family 12, member 5	protein-coding	2.5	6.0	7.5	150.0	24.5	13.5	11.0	7.5
Merged-chr5-34210424-4	chr5	34210327	34210527	+	868.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 8 of 12)	intron (NM_001015039, intron 8 of 12)	-22717.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	12.0	17.5	7.5	190.0	47.5	10.5	13.5	14.0
Merged-chr13-23576167-3	chr13	23576069	23576269	+	999.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178204)	TTS (NM_178204)	406.0	NM_178204	319149.0	Mm.347699	NM_178204	ENSMUSG00000099583	Hist1h3d	H3-b	histone cluster 1, H3d	protein-coding	16.0	29.0	6.0	105.0	24.0	17.5	11.0	29.5
Merged-chr7-127448742-4	chr7	127448621	127448821	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175163, exon 1 of 3)	exon (NM_175163, exon 1 of 3)	437.0	NM_175163	71131.0	Mm.474533	NM_175163	ENSMUSG00000048921	Zfp689	4933416E05Rik|Znf689	zinc finger protein 689	protein-coding	25.0	42.5	15.0	227.5	44.5	20.0	16.0	28.5
Merged-chr10-60733921-4	chr10	60733801	60734001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	intron (NM_023596, intron 2 of 5)	18881.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	39.5	46.5	51.5	1107.0	68.0	27.0	47.0	32.0
Merged-chr9-22259723-3	chr9	22259599	22259799	+	778.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181419, intron 1 of 4)	CpG	196.0	NM_181419	235048.0	Mm.292381	NM_181419	ENSMUSG00000062794	Zfp599	6720416P20	zinc finger protein 599	protein-coding	5.5	2.0	5.0	41.5	9.0	4.5	7.0	10.5
Merged-chr10-51454142-4	chr10	51454044	51454244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26468.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	130.0	238.5	153.5	2408.0	380.5	139.0	162.0	122.0
Merged-chr10-99393254-4	chr10	99393164	99393364	+	929.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	130033.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	23.5	43.5	17.0	252.5	28.5	13.0	12.0	6.5
Merged-chr2-79512103-4	chr2	79512008	79512208	+	848.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55472.0	NM_010894	18012.0	Mm.4636	NM_010894	ENSMUSG00000034701	Neurod1	BETA2|BHF-1|Nd1|Neurod|bHLHa3	neurogenic differentiation 1	protein-coding	8.5	21.0	20.5	255.0	25.5	2.5	4.0	10.5
Merged-chr9-78108595-4	chr9	78108492	78108692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023605)	promoter-TSS (NM_023605)	64.0	NM_023605	71538.0	Mm.28584	NM_023605	ENSMUSG00000001366	Fbxo9	9030401P18Rik|AA986398	f-box protein 9	protein-coding	58.5	65.0	34.0	904.5	106.0	30.0	36.5	53.0
Merged-chr8-119826596-4	chr8	119826502	119826702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	13977.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	46.5	54.0	32.0	555.5	104.5	43.0	41.0	24.5
Merged-chr10-118599830-4	chr10	118599731	118599931	+	947.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-43306.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	27.5	28.5	13.0	266.5	53.5	12.0	21.0	21.5
Merged-chr10-118868059-4	chr10	118867940	118868140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014390, intron 2 of 2)	CpG	863.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	67.5	208.0	118.0	725.0	357.0	122.5	188.5	79.0
Merged-chr3-105705324-1	chr3	105705224	105705424	+	850.5	f0_balb.idr	promoter-TSS (NM_001163356)	promoter-TSS (NM_001163356)	-134.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	11.0	9.0	4.5	133.5	14.5	1.5	6.5	6.0
Merged-chr1-60904721-2	chr1	60904621	60904821	+	740.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4304.0	NM_009843	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	5.0	3.0	3.5	29.5	10.5	10.0	8.0	7.0
Merged-chr7-35649241-4	chr7	35649085	35649285	+	721.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-1703.0	NM_019746	56330.0	Mm.371609	NM_019746	ENSMUSG00000030417	Pdcd5	2200003D22Rik|AA408513|Tfar19	programmed cell death 5	protein-coding	4.5	10.0	5.0	46.0	10.5	6.0	5.5	9.5
Merged-chr13-93428539-5	chr13	93428449	93428649	+	969.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71259.0	NM_021310	57748.0	Mm.100273	NM_021310	ENSMUSG00000021690	Jmy	-	junction-mediating and regulatory protein	protein-coding	13.5	24.0	24.5	302.0	4.0	6.0	9.0	4.5
Merged-chr10-42464428-3	chr10	42464337	42464537	+	793.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359297, intron 1 of 11)	L2c|LINE|L2	14128.0	NM_001359297	215951.0	Mm.89646	NM_145743	ENSMUSG00000038302	Afg1l	CG8520|Lace1	AFG1 like ATPase	protein-coding	9.0	11.5	8.0	101.0	5.5	3.0	8.0	3.0
Merged-chr12-102002337-3	chr12	102002222	102002422	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016856, intron 13 of 14)	intron (NM_016856, intron 13 of 14)	26348.0	NM_016856	51786.0	Mm.716	NM_016856	ENSMUSG00000041781	Cpsf2	100kDa|2610024B04Rik|AI662483|Cpsf|MCPSF|mKIAA1367	cleavage and polyadenylation specific factor 2	protein-coding	2.0	8.0	5.5	59.0	41.0	5.0	24.5	22.5
Merged-chr8-36532881-4	chr8	36532736	36532936	+	926.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43645.0	NM_176952	319582.0	Mm.180924	NM_176952	ENSMUSG00000039620	6430573F11Rik	Kiaa1456|TRM9L|Trmt9b	RIKEN cDNA 6430573F11 gene	protein-coding	12.5	23.5	45.0	293.5	18.5	12.0	18.0	9.0
Merged-chr12-34714400-3	chr12	34714308	34714508	+	955.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-185519.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	12.0	20.5	5.5	184.5	13.0	2.0	10.5	8.0
Merged-chr1-127248762-4	chr1	127248684	127248884	+	946.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	43798.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	20.0	21.0	16.0	306.0	37.5	12.0	9.0	19.0
Merged-chr5-100536890-4	chr5	100536795	100536995	+	790.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359204, intron 7 of 10)	Tigger17a|DNA|TcMar-Tigger	18586.0	NM_001359204	26891.0	Mm.957	NM_012001	ENSMUSG00000035297	Cops4	AW208976|D5Ertd774e|SGN4	COP9 signalosome subunit 4	protein-coding	4.5	6.0	9.5	113.0	20.5	6.5	15.0	12.5
Merged-chr8-77112981-4	chr8	77112902	77113102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083906, intron 3 of 8)	intron (NM_001083906, intron 3 of 8)	210494.0	NM_001083906	110784.0	Mm.324393	NM_001083906	ENSMUSG00000031618	Nr3c2	MR|Mlr	nuclear receptor subfamily 3, group C, member 2	protein-coding	28.0	26.0	19.5	396.0	37.0	16.0	18.5	18.0
Merged-chr15-6384196-3	chr15	6384087	6384287	+	971.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	-2561.0	NM_023118	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	20.5	22.5	10.5	264.5	20.5	4.5	16.0	10.0
Merged-chr7-45830860-4	chr7	45830763	45830963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153419)	promoter-TSS (NM_153419)	-74.0	NM_153419	101612.0	Mm.274847	NM_153419	ENSMUSG00000053801	Grwd1	A301|AI504353|Grwd|Wdr28	glutamate-rich WD repeat containing 1	protein-coding	40.0	65.5	34.0	390.5	71.5	38.0	30.0	28.0
Merged-chr3-101003939-5	chr3	101003852	101004052	+	820.9023440000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 7 of 8)	intron (NM_001167906, intron 7 of 8)	25543.0	NM_001167906	630146.0	Mm.190915	NM_001099332	ENSMUSG00000086564	Cd101	EWI-101|Gm1016|Gm734|Igsf2	CD101 antigen	protein-coding	14.0	17.5	12.5	77.5	17.5	7.0	10.5	10.5
Merged-chr15-67733193-4	chr15	67733122	67733322	+	889.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	506453.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	3.0	9.0	3.5	87.5	70.0	28.5	39.5	27.0
Merged-chr11-116100573-4	chr11	116100473	116100673	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9662.0	NM_001205081	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	26.0	23.0	22.0	372.0	56.0	18.0	17.5	25.5
Merged-chr12-8924512-4	chr12	8924419	8924619	+	964.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008640, intron 1 of 6)	intron (NM_008640, intron 1 of 6)	3212.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	10.0	15.5	20.0	296.0	45.5	17.5	24.5	11.0
Merged-chr7-19024860-4	chr7	19024735	19024935	+	965.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360713, intron 1 of 22)	intron (NM_001360713, intron 1 of 22)	458.0	NM_026605	68188.0	Mm.130902	NM_026605	ENSMUSG00000023118	Sympk	1500016F02Rik|4632415H16Rik|AA125406|AI449890|SPK|SYM	symplekin	protein-coding	9.0	19.0	5.5	127.0	34.0	15.0	15.0	24.5
Merged-chr8-123021933-3	chr8	123021819	123022019	+	809.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	20365.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	10.0	9.5	3.0	116.5	10.0	12.5	9.0	8.0
Merged-chr6-114458392-4	chr6	114458272	114458472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317124)	promoter-TSS (NM_001317124)	-150.0	NM_001317124	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	152.0	258.0	128.0	2071.0	353.5	160.0	165.5	159.5
Merged-chr1-74236460-4	chr1	74236361	74236561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029711)	promoter-TSS (NM_029711)	-56.0	NM_001357387	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	120.5	246.5	158.0	1603.0	370.5	131.5	151.5	168.0
Merged-chr3-89998719-4	chr3	89998625	89998825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310681)	promoter-TSS (NM_001310681)	-9.0	NM_001282032	23897.0	Mm.256035	NM_011826	ENSMUSG00000027944	Hax1	HAX-1|HSP1BP-1|Hs1bp1|SIG-111|Silg111|mHAX-1s	HCLS1 associated X-1	protein-coding	61.0	69.5	23.5	507.5	165.5	67.0	55.0	73.5
Merged-chr9-21436315-6	chr9	21436252	21436452	+	923.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357721, intron 1 of 19)	intron (NM_001357721, intron 1 of 19)	11444.0	NM_001357719	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	13.5	17.0	12.5	127.0	22.0	8.0	10.0	14.5
Merged-chr1-67061669-4	chr1	67061560	67061760	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22788.0	NM_021295	14768.0	Mm.20522	NM_021295	ENSMUSG00000026000	Lancl1	AW124738|Gpr69|Gpr69a|p40	LanC (bacterial lantibiotic synthetase component C)-like 1	protein-coding	16.5	22.5	12.5	230.5	23.5	19.0	15.5	16.5
Merged-chr1-136344502-1	chr1	136344402	136344602	+	806.5	f0_balb.idr	intron (NM_001347109, intron 1 of 17)	intron (NM_001347109, intron 1 of 17)	1602.0	NM_001347109	67886.0	Mm.144143	NM_001081360	ENSMUSG00000041570	Camsap2	1600013L13Rik|4930541M15Rik|Camsap1l1|mKIAA1078	calmodulin regulated spectrin-associated protein family, member 2	protein-coding	9.0	7.0	5.5	149.5	13.0	5.5	1.5	6.5
Merged-chr3-104460328-3	chr3	104460227	104460427	+	969.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025067, intron 17 of 17)	B4A|SINE|B4	51591.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	18.0	14.0	34.5	602.0	11.5	7.0	12.0	8.5
Merged-chr6-114922675-5	chr6	114922703	114922903	+	912.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177683)	promoter-TSS (NM_177683)	-982.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	8.5	6.0	4.5	30.0	8.0	4.0	2.5	13.5
Merged-chr7-127196088-4	chr7	127195994	127196194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027353)	promoter-TSS (NM_027353)	-17.0	NM_027353	70233.0	Mm.28050	NM_027353	ENSMUSG00000042502	Cd2bp2	1500011B02Rik|2410024K20Rik|AW048183	CD2 antigen (cytoplasmic tail) binding protein 2	protein-coding	128.5	147.5	67.5	1048.0	289.0	103.0	82.5	123.5
Merged-chr17-24463979-4	chr17	24463892	24464092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6481.0	NM_025954	67078.0	Mm.28541	NM_025954	ENSMUSG00000043445	Pgp	1700012G19Rik|AI481330|AUM|G3PP	phosphoglycolate phosphatase	protein-coding	49.5	77.0	49.0	756.0	59.0	16.5	33.0	25.5
Merged-chr11-106131964-4	chr11	106131858	106132058	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 6 of 15)	intron (NM_011947, intron 6 of 15)	27969.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	20.0	23.0	13.5	174.5	20.5	12.0	7.0	17.0
Merged-chr17-86151100-4	chr17	86151001	86151201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5926.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	109.0	151.0	90.5	1813.5	157.5	72.0	84.0	55.5
Merged-chr1-130462608-4	chr1	130462522	130462722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010016, exon 1 of 10)	exon (NM_010016, exon 1 of 10)	122.0	NM_010016	13136.0	Mm.101591	NM_010016	ENSMUSG00000026399	Cd55	Daf|Daf-GPI|Daf1|GPI-DAF	CD55 molecule, decay accelerating factor for complement	protein-coding	36.5	61.5	71.0	778.0	72.0	37.0	50.5	38.5
Merged-chr19-10841820-4	chr19	10841716	10841916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023044)	promoter-TSS (NM_023044)	-728.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	209.0	330.0	209.5	3029.5	528.5	166.5	237.0	215.0
Merged-chr15-103361535-4	chr15	103361423	103361623	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001314041, intron 1 of 30)	intron (NM_001314041, intron 1 of 30)	5268.0	NM_010577	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	59.0	56.5	24.0	441.0	85.0	34.5	35.5	23.0
Merged-chr16-22857690-4	chr16	22857600	22857800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026400)	promoter-TSS (NM_026400)	-31.0	NM_001316746	70573.0	Mm.68291	NM_001081368	ENSMUSG00000004462	Tbccd1	5730478M09Rik|AU015083|BB165076	TBCC domain containing 1	protein-coding	361.0	550.5	326.0	4308.5	776.5	310.0	328.0	261.0
Merged-chr2-153784834-4	chr2	153784737	153784937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036629, intron 3 of 7)	intron (NR_036629, intron 3 of 7)	3958.0	NR_036629	100504221.0	Mm.246778	NM_177849	ENSMUSG00000044083	Efcab8	A630008I04|EG329541	EF-hand calcium binding domain 8	ncRNA	37.0	45.0	24.0	455.0	79.0	29.5	16.5	37.5
Merged-chr15-103239502-4	chr15	103239413	103239613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002885)	promoter-TSS (NR_002885)	339.0	NM_001358950	12419.0	Mm.262059	NM_007626	ENSMUSG00000009575	Cbx5	2610029O15Rik|C75991|HP1|Hp1a|Hp1alpha	chromobox 5	protein-coding	115.0	202.0	95.5	2206.5	336.0	150.0	179.0	127.5
Merged-chr15-95793966-4	chr15	95793863	95794063	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	3120.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	39.5	82.5	43.0	353.0	105.5	45.0	42.0	18.5
Merged-chr4-3650572-5	chr4	3650468	3650668	+	944.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5938.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	9.5	8.5	7.5	109.0	17.0	3.5	5.5	7.0
Merged-chr2-58791920-3	chr2	58791821	58792021	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029692)	TTS (NM_029692)	36737.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	1.5	9.5	2.5	125.5	7.0	5.0	6.0	4.5
Merged-chr11-90245825-4	chr11	90245742	90245942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3634.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	63.0	83.5	103.0	1102.0	108.5	34.5	36.0	62.0
Merged-chr1-165703234-4	chr1	165703119	165703319	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	4875.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	13.5	89.0	24.0	108.5	122.5	39.0	23.5	6.5
Merged-chr2-148681555-4	chr2	148681466	148681666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355689, intron 1 of 5)	intron (NM_001355689, intron 1 of 5)	446.0	NM_028986	74533.0	Mm.136913	NM_028986	ENSMUSG00000027439	Gzf1	8430437G08Rik|Zfp336|mGZF1	GDNF-inducible zinc finger protein 1	protein-coding	33.5	42.5	42.0	387.0	74.0	42.5	55.0	29.5
Merged-chr10-128566180-4	chr10	128566085	128566285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011119)	promoter-TSS (NM_011119)	-251.0	NM_011119	18813.0	Mm.4742	NM_011119	ENSMUSG00000025364	Pa2g4	38kDa|AA672939|Ebp1|Plfap	proliferation-associated 2G4	protein-coding	289.0	462.0	358.0	4305.0	583.0	241.0	340.0	257.5
Merged-chr16-90810041-2	chr16	90809941	90810141	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029497, intron 1 of 38)	intron (NM_029497, intron 1 of 38)	372.0	NM_029497	207932.0	Mm.328688	NM_029497	ENSMUSG00000039929	Urb1	4921511H13Rik|5730405K23Rik|AA670781|AI645590|mKIAA0539	URB1 ribosome biogenesis 1 homolog (S. cerevisiae)	protein-coding	8.0	19.0	16.5	198.5	36.5	6.0	22.5	7.5
Merged-chr12-33027351-4	chr12	33027345	33027545	+	887.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65430.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	5.5	7.5	9.0	102.0	13.0	4.0	2.5	8.5
Merged-chr5-125179281-4	chr5	125179170	125179370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253904)	promoter-TSS (NM_001253904)	-56.0	NM_001253904	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	79.0	85.5	56.0	977.5	185.0	86.0	87.0	76.0
Merged-chr2-4562542-2	chr2	4562442	4562642	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 1 of 11)	intron (NM_001177844, intron 1 of 11)	2788.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	9.0	1.0	3.0	38.5	14.0	5.0	8.5	5.5
Merged-chr9-13575130-4	chr9	13574995	13575195	+	802.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-44894.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	12.5	20.0	7.5	126.5	14.0	4.0	12.5	11.0
Merged-chr19-4333506-2	chr19	4333406	4333606	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001984, intron 12 of 20)	intron (NM_001001984, intron 12 of 20)	-27284.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	1.0	8.5	4.0	86.0	15.0	4.5	10.5	4.5
Merged-chr16-11017988-4	chr16	11017868	11018068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9070.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	26.0	106.0	34.0	313.0	114.5	45.0	33.5	30.0
Merged-chr11-76179715-4	chr11	76179609	76179809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026664)	promoter-TSS (NM_026664)	-79.0	NM_026664	68299.0	Mm.46397	NM_026664	ENSMUSG00000017288	Vps53	2010002A08Rik|2310040I21Rik|3100002B05Rik|Hccs1	VPS53 GARP complex subunit	protein-coding	42.5	63.0	33.0	477.0	85.5	27.5	48.5	24.5
Merged-chr10-70197854-4	chr10	70197753	70197953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6811.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	61.0	68.5	79.5	1120.0	149.5	37.0	81.0	57.0
Merged-chr16-75617784-4	chr16	75617671	75617871	+	691.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24880.0	NM_198302	224344.0	Mm.273214	NM_198302	ENSMUSG00000032940	Rbm11	A330018F01	RNA binding motif protein 11	protein-coding	18.0	9.5	4.5	150.0	21.0	3.5	10.0	9.0
Merged-chr1-152526971-2	chr1	152526871	152527071	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 15 of 17)	intron (NM_016846, intron 15 of 17)	98246.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	3.0	14.0	4.0	158.0	25.0	12.5	9.5	15.5
Merged-chr5-65956061-4	chr5	65956060	65956260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10964.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	31.5	78.0	33.5	382.5	106.5	36.0	31.5	44.5
Merged-chr4-132803748-3	chr4	132803644	132803844	+	808.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-7380.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	6.0	11.5	3.0	6.5	28.0	10.5	8.0	7.5
Merged-chr17-28217816-4	chr17	28217723	28217923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027185, intron 3 of 10)	intron (NM_027185, intron 3 of 10)	10045.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	21.0	35.0	19.0	355.5	39.5	16.5	25.0	22.5
Merged-chr7-19218086-3	chr7	19218024	19218224	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175668, intron 1 of 1)	intron (NM_175668, intron 1 of 1)	5586.0	NM_175668	319197.0	Mm.135984	NM_175668	ENSMUSG00000044317	Gpr4	-	G protein-coupled receptor 4	protein-coding	8.5	14.5	11.0	118.0	16.5	9.0	5.0	5.0
Merged-chr4-150509273-4	chr4	150509179	150509379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 9 of 22)	intron (NM_001085492, intron 9 of 22)	142895.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	41.0	65.5	69.5	1328.5	94.5	24.0	60.0	65.5
Merged-chr8-121580627-4	chr8	121580538	121580738	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1832.0	NM_133765	76454.0	Mm.24829	NM_133765	ENSMUSG00000052934	Fbxo31	1110003O08Rik|2310046N15Rik|Fbx14|Fbxo14	F-box protein 31	protein-coding	31.0	25.0	12.0	382.5	58.5	20.0	15.0	24.5
Merged-chr3-55627302-4	chr3	55627190	55627390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 57 of 57)	intron (NM_030595, intron 57 of 57)	-155220.0	NM_010750	17116.0	Mm.440209	NM_010750	ENSMUSG00000056947	Mab21l1	AW047968	mab-21-like 1 (C. elegans)	protein-coding	44.5	28.5	51.5	879.5	48.5	8.5	33.5	33.5
Merged-chr6-121338325-4	chr6	121338234	121338434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144512)	TTS (NM_144512)	-4742.0	NM_001347433	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	25.0	32.5	22.0	312.0	77.0	33.5	57.0	33.5
Merged-chr6-86527177-3	chr6	86527066	86527266	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011865)	promoter-TSS (NM_011865)	-164.0	NR_037960	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	28.5	69.0	33.5	440.5	76.5	40.0	44.0	64.5
Merged-chr1-75521504-4	chr1	75521420	75521620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027886)	promoter-TSS (NM_027886)	-9.0	NM_027886	71728.0	Mm.312650	NM_027886	ENSMUSG00000026213	Stk11ip	1200014D22Rik|BB131189|LIP1|LKB1IP	serine/threonine kinase 11 interacting protein	protein-coding	48.5	64.5	50.5	641.0	155.0	41.5	63.0	45.5
Merged-chr1-128244166-4	chr1	128243998	128244198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026390)	promoter-TSS (NM_026390)	-39.0	NM_026390	67812.0	Mm.293321	NM_026390	ENSMUSG00000026353	Ubxn4	1300013G12Rik|Ubxd2|mKIAA0242	UBX domain protein 4	protein-coding	119.5	181.0	82.0	1524.5	346.0	130.0	152.0	117.0
Merged-chr8-79139831-3	chr8	79139729	79139929	+	859.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	intron (NM_001294279, intron 8 of 14)	108754.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	2.0	6.0	5.5	59.0	41.0	10.0	11.0	8.5
Merged-chr4-45418394-3	chr4	45418292	45418492	+	849.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9626.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	14.5	7.5	5.0	106.5	12.0	4.0	7.0	4.5
Merged-chr6-72534274-4	chr6	72534155	72534355	+	879.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10136.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	18.5	17.0	10.0	123.0	22.5	9.0	7.0	15.5
Merged-chr1-78894384-7	chr1	78894291	78894491	+	918.107117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151519, intron 3 of 3)	intron (NR_151519, intron 3 of 3)	77480.0	NM_021342	57814.0	Mm.24386	NM_021342	ENSMUSG00000047330	Kcne4	AW487937|MiRP3	potassium voltage-gated channel, Isk-related subfamily, gene 4	protein-coding	8.5	4.5	16.0	90.5	18.0	3.5	7.0	5.5
Merged-chr4-93467574-1	chr4	93467474	93467674	+	762.0	f0_balb.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-132063.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	3.0	12.0	4.5	194.5	6.0	7.5	9.0	10.0
Merged-chr6-83653337-8	chr6	83653227	83653427	+	949.0083619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016751, intron 3 of 6)	intron (NM_016751, intron 3 of 6)	2789.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	3.5	1.5	14.5	128.5	8.5	6.0	9.0	8.5
Merged-chr5-144772230-4	chr5	144772121	144772321	+	941.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081362, intron 3 of 70)	intron (NM_001081362, intron 3 of 70)	3429.0	NM_001081362	100683.0	Mm.273570	NM_001081362	ENSMUSG00000045482	Trrap	AI481500	transformation/transcription domain-associated protein	protein-coding	16.0	25.0	14.0	227.0	33.0	13.0	19.0	11.5
Merged-chr15-83129747-4	chr15	83129653	83129853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 6 of 7)	intron (NM_001347082, intron 6 of 7)	-6952.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	31.0	72.5	25.0	598.5	101.0	33.0	35.5	34.0
Merged-chr9-66877575-4	chr9	66877473	66877673	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	42132.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	8.0	26.5	20.0	542.5	33.5	14.0	6.0	19.5
Merged-chr10-88683097-4	chr10	88682979	88683179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011461)	promoter-TSS (NM_011461)	-56.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	104.0	124.0	87.5	1468.0	240.0	72.0	91.5	97.0
Merged-chr10-105490892-3	chr10	105490808	105491008	+	980.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177368, intron 1 of 11)	intron (NM_177368, intron 1 of 11)	83571.0	NM_177368	278279.0	Mm.25225	NM_177368	ENSMUSG00000036019	Tmtc2	8430438D04Rik|D330034A10Rik	transmembrane and tetratricopeptide repeat containing 2	protein-coding	10.5	5.5	6.0	171.0	9.5	6.5	13.0	7.0
Merged-chr6-146479398-3	chr6	146479245	146479445	+	912.4682619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 1 of 56)	intron (NM_019923, intron 1 of 56)	22878.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	6.5	11.0	12.5	119.5	3.0	0.0	1.5	2.0
Merged-chr10-37232081-4	chr10	37231981	37232181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93155.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	156.5	254.5	238.5	2820.5	395.0	182.5	240.0	229.5
Merged-chr12-83950663-4	chr12	83950569	83950769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023633)	promoter-TSS (NM_023633)	61.0	NM_023633	71952.0	Mm.251483	NM_023633	ENSMUSG00000046791	Riox1	2410016O06Rik|MAPJD|NO66	ribosomal oxygenase 1	protein-coding	24.5	56.5	18.5	326.0	68.0	28.5	30.0	31.5
Merged-chr1-64304217-4	chr1	64304130	64304330	+	872.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-182841.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	14.5	25.5	7.5	193.0	28.0	13.5	11.0	15.0
Merged-chr1-24481804-4	chr1	24481705	24481905	+	860.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 11 of 50)	intron (NM_007733, intron 11 of 50)	105632.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	8.5	6.0	6.5	180.0	38.5	11.5	18.0	8.0
Merged-chr11-120035031-4	chr11	120034946	120035146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198785, intron 1 of 13)	intron (NM_001198785, intron 1 of 13)	6735.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	51.5	53.5	36.0	453.5	62.5	27.5	18.5	27.0
Merged-chr12-99381062-4	chr12	99380963	99381163	+	843.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 2 of 5)	Lx4A|LINE|L1	69011.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	6.0	59.5	19.5	124.5	51.0	25.0	25.5	13.0
Merged-chr2-58183861-4	chr2	58183751	58183951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19877.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	49.0	67.0	89.5	1508.5	116.0	62.5	80.5	65.5
Merged-chr3-79438438-4	chr3	79438354	79438554	+	958.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142953, intron 3 of 4)	intron (NM_001142953, intron 3 of 4)	93078.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	32.5	40.5	23.5	607.0	51.0	12.0	17.0	32.5
Merged-chr17-83695971-4	chr17	83695874	83696074	+	806.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-10189.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	13.5	23.0	7.5	271.0	21.0	9.5	20.5	15.0
Merged-chr12-69871781-4	chr12	69871690	69871890	+	909.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201519, intron 2 of 30)	intron (NM_201519, intron 2 of 30)	-21315.0	NM_178628	73991.0	Mm.474462	NM_178628	ENSMUSG00000021066	Atl1	4930435M24Rik|Adfsp|Fsp1|Spg3|Spg3a	atlastin GTPase 1	protein-coding	17.0	23.0	14.0	342.5	17.5	3.5	21.0	12.0
Merged-chr18-52684440-4	chr18	52684330	52684530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9249.0	NM_010293	14625.0	Mm.32242	NM_010293	ENSMUSG00000053624	Gykl1	AI449806|Gk-rs1	glycerol kinase-like 1	protein-coding	56.0	33.0	55.5	482.0	111.5	36.5	37.5	44.0
Merged-chr3-96580330-4	chr3	96580240	96580440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027241, intron 5 of 7)	intron (NM_027241, intron 5 of 7)	-13539.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	88.5	98.5	37.0	812.5	213.5	40.5	73.0	83.0
Merged-chr2-164804998-4	chr2	164804879	164805079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178375)	promoter-TSS (NM_178375)	-98.0	NM_133240	170789.0	Mm.277878	NM_133240	ENSMUSG00000017307	Acot8	PTE-2|Pte1	acyl-CoA thioesterase 8	protein-coding	205.5	307.0	183.0	2233.0	461.0	156.5	144.5	133.5
Merged-chr2-23039154-4	chr2	23039022	23039222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	intron (NM_001077190, intron 1 of 10)	1119.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	32.5	115.0	36.0	340.0	194.5	68.0	68.5	47.0
Merged-chr5-65863602-4	chr5	65863489	65863689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081105)	promoter-TSS (NM_001081105)	20.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	44.0	47.5	22.5	387.0	53.5	24.0	28.0	28.5
Merged-chr3-142563684-3	chr3	142563584	142563784	+	764.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355403, intron 3 of 11)	intron (NM_001355403, intron 3 of 11)	3328.0	NM_001289493	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	5.0	6.0	10.0	96.0	8.0	5.0	5.5	10.0
Merged-chr16-18289032-1	chr16	18288932	18289132	+	1000.0	f0_c57.idr	intron (NM_033324, intron 1 of 13)	CpG	136.0	NM_033324	94223.0	Mm.447352	NM_033324	ENSMUSG00000022718	Dgcr8	D16H22S1742E|D16H22S788E|D16Wis2|Gy1|N41|Vo59c07|mir-1306	DGCR8, microprocessor complex subunit	protein-coding	71.0	94.0	90.5	920.0	108.0	59.5	70.0	66.0
Merged-chr8-46828922-3	chr8	46828822	46829022	+	956.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008391, intron 6 of 8)	intron (NM_008391, intron 6 of 8)	89177.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	9.0	4.5	10.0	159.5	13.0	4.0	12.0	10.5
Merged-chr2-117343605-6	chr2	117343463	117343663	+	934.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011246)	promoter-TSS (NM_011246)	-686.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	3.0	10.5	10.5	98.0	25.5	9.0	16.5	12.0
Merged-chr5-86078920-4	chr5	86078889	86079089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310639, intron 2 of 7)	intron (NM_001310639, intron 2 of 7)	7243.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	141.5	151.5	167.0	2591.5	494.0	201.0	272.0	248.5
Merged-chr4-133844425-3	chr4	133844385	133844585	+	951.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	30246.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	9.0	13.0	5.0	148.0	18.0	3.5	3.5	5.5
Merged-chr13-113983937-3	chr13	113983823	113984023	+	788.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 4 of 4)	intron (NM_172595, intron 4 of 4)	167669.0	NR_045836	319803.0	Mm.386896	NM_177004	ENSMUSG00000114213	A430090L17Rik	-	RIKEN cDNA A430090L17 gene	ncRNA	4.5	5.5	5.0	271.5	26.5	8.5	17.5	5.0
Merged-chr6-128834626-4	chr6	128834544	128834744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-8329.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	130.5	221.5	165.0	1732.5	317.5	119.0	129.0	76.0
Merged-chr11-106106369-4	chr11	106106256	106106456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 2 of 15)	intron (NM_011947, intron 2 of 15)	21454.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	21.0	39.0	30.0	404.0	74.5	15.5	34.5	32.0
Merged-chr5-134522064-4	chr5	134521975	134522175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 3 of 15)	ORR1F|LTR|ERVL-MaLR	30359.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	59.0	83.0	53.5	898.0	142.0	55.0	73.0	37.5
Merged-chr12-3873028-4	chr12	3872920	3873120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 5 of 22)	intron (NM_007872, intron 5 of 22)	-10776.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	72.5	105.5	51.0	718.0	237.0	47.0	85.5	72.5
Merged-chr17-34135493-4	chr17	34135391	34135591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010386, exon 2 of 6)	5' UTR (NM_010386, exon 2 of 6)	-9925.0	NM_010388	15000.0	Mm.195060	NM_010388	ENSMUSG00000037548	H2-DMb2	H-2Mb2|H2-Mb2	histocompatibility 2, class II, locus Mb2	protein-coding	141.5	273.0	148.5	2267.0	448.0	177.0	170.0	139.0
Merged-chr2-172392369-3	chr2	172392277	172392477	+	867.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1417.0	NM_001080820	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	5.5	10.0	11.5	96.0	7.0	1.5	0.5	5.0
Merged-chr12-110601997-4	chr12	110601866	110602066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030238, intron 1 of 76)	CpG	571.0	NM_030238	13424.0	Mm.181430	NM_030238	ENSMUSG00000018707	Dync1h1	9930018I23Rik|AI894280|DHC1|DHC1a|DNCL|Dnchc1|Dnec1|Dnecl|Loa|MAP1C|P22|Swl|mKIAA0325	dynein cytoplasmic 1 heavy chain 1	protein-coding	17.0	31.0	30.0	357.0	44.5	11.5	34.0	27.5
Merged-chr17-57250040-1	chr17	57249940	57250140	+	912.8333130000001	f0_balb.idr	intron (NM_001242390, intron 1 of 14)	intron (NM_001242390, intron 1 of 14)	589.0	NM_001242389	106628.0	Mm.37368	NM_134125	ENSMUSG00000019487	Trip10	AI646975|Cip4	thyroid hormone receptor interactor 10	protein-coding	17.5	21.0	15.0	152.5	22.5	3.5	11.5	10.0
Merged-chr18-54860856-2	chr18	54860756	54860956	+	710.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129324.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	21.0	9.0	7.0	65.5	18.5	11.0	7.5	9.0
Merged-chr9-37420833-4	chr9	37420732	37420932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164767, intron 17 of 27)	CpG	12343.0	NM_001164767	19649.0	Mm.212826	NM_011248	ENSMUSG00000032128	Robo3	Rbig1|Rig-1|Rig1|Robo3a|Robo3b	roundabout guidance receptor 3	protein-coding	173.0	239.5	201.5	3091.0	410.5	104.5	270.0	162.5
Merged-chr1-170937265-4	chr1	170937163	170937363	+	882.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	-9680.0	NM_001160215	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	15.0	9.5	14.0	460.0	6.5	9.5	7.0	14.0
Merged-chr17-5978550-7	chr17	5978417	5978617	+	997.365051	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151772, intron 2 of 25)	intron (NR_151772, intron 2 of 25)	2931.0	NM_011523	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	18.0	23.0	22.5	228.5	44.0	17.5	11.0	17.5
Merged-chr2-12228500-4	chr2	12228405	12228605	+	760.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 13 of 29)	intron (NM_001001309, intron 13 of 29)	-72741.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	5.0	9.0	7.0	174.0	28.5	8.5	6.5	8.5
Merged-chr2-101628441-2	chr2	101628339	101628539	+	840.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_009020, intron 2 of 2)	intron (NM_009020, intron 2 of 2)	547.0	NM_026592	68170.0	Mm.31263	NM_026592	ENSMUSG00000027165	B230118H07Rik	NWC	RIKEN cDNA B230118H07 gene	protein-coding	9.0	8.5	4.0	147.5	35.0	9.5	17.0	12.0
Merged-chr19-5571995-4	chr19	5571872	5572072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033448)	TTS (NM_001033448)	3948.0	NM_001033448	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	87.0	81.0	65.5	1228.0	122.0	56.0	62.5	53.0
Merged-chr8-123860084-3	chr8	123860024	123860224	+	971.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028536)	promoter-TSS (NM_028536)	85.0	NM_028536	73420.0	Mm.157746	NM_028536	ENSMUSG00000031971	Ccsap	1700054N08Rik|AI853424	centriole, cilia and spindle associated protein	protein-coding	9.0	10.0	18.0	158.5	14.5	3.0	6.0	7.0
Merged-chr17-57331152-4	chr17	57331026	57331226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-27560.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	36.0	51.0	48.5	606.0	104.0	23.5	51.0	32.5
Merged-chr4-99224475-4	chr4	99224390	99224590	+	963.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001145967, exon 7 of 11)	exon (NM_001145967, exon 7 of 11)	30343.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	15.5	5.5	7.0	161.5	45.0	9.5	17.5	25.0
Merged-chr10-62602860-4	chr10	62602776	62602976	+	940.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019553)	promoter-TSS (NM_019553)	-578.0	NM_019553	56200.0	Mm.413275	NM_019553	ENSMUSG00000020075	Ddx21	AI255159|AL022742|D10Ertd645e|D10Wsu42e	DEAD (Asp-Glu-Ala-Asp) box polypeptide 21	protein-coding	7.0	12.5	4.5	141.0	28.5	10.0	16.0	12.0
Merged-chr6-120916901-4	chr6	120916779	120916979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007544)	promoter-TSS (NM_007544)	-55.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	74.5	122.0	67.0	977.5	211.0	99.5	110.0	99.0
Merged-chr13-45912080-4	chr13	45911972	45912172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	52919.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	33.5	62.5	32.0	394.5	46.0	33.0	38.5	35.0
Merged-chr14-105897379-4	chr14	105897273	105897473	+	934.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011897)	promoter-TSS (NM_011897)	-554.0	NM_011897	24064.0	Mm.89982	NM_011897	ENSMUSG00000022114	Spry2	sprouty2	sprouty RTK signaling antagonist 2	protein-coding	43.5	32.0	30.0	688.0	34.5	12.5	12.5	11.0
Merged-chr17-35749994-4	chr17	35749899	35750099	+	924.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22451.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	1.0	16.0	8.5	104.5	40.5	26.5	14.0	22.0
Merged-chr15-75920380-5	chr15	75920229	75920429	+	942.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025412, intron 1 of 5)	intron (NM_025412, intron 1 of 5)	1231.0	NM_025412	66194.0	Mm.250599	NM_025412	ENSMUSG00000022571	Pycrl	1110058B13Rik|2700073G24Rik|Pycr3	pyrroline-5-carboxylate reductase-like	protein-coding	5.0	5.5	6.5	78.0	16.5	4.0	12.0	1.5
Merged-chr11-59538586-4	chr11	59538480	59538680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2989.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	153.0	205.0	134.0	1924.5	290.5	116.0	141.5	113.0
Merged-chr14-55763643-5	chr14	55763542	55763742	+	858.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020490)	TTS (NM_020490)	2214.0	NM_020490	57260.0	Mm.159670	NM_020490	ENSMUSG00000040432	Ltb4r2	5830462O07Rik|BLT2|LTB4-R 2|LTB4-R-2|LTB4-R2	leukotriene B4 receptor 2	protein-coding	14.0	16.5	6.0	138.0	38.5	7.5	9.0	17.5
Merged-chr11-90245023-4	chr11	90244920	90245120	+	816.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4456.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	20.0	23.0	17.5	304.0	26.0	12.5	14.0	11.0
Merged-chr5-148556738-3	chr5	148556693	148556893	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4005.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	1.0	7.0	3.0	43.5	94.5	33.0	44.5	35.5
Merged-chr5-123228237-4	chr5	123228132	123228332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026000)	promoter-TSS (NM_026000)	42.0	NM_026000	67151.0	Mm.278997	NM_026000	ENSMUSG00000029440	Psmd9	1500011J20Rik|2610202L11Rik|Bridge-1|P27	proteasome (prosome, macropain) 26S subunit, non-ATPase, 9	protein-coding	40.0	83.5	18.5	321.0	142.5	56.5	21.0	41.0
Merged-chr13-55513470-4	chr13	55513371	55513571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026131)	promoter-TSS (NM_026131)	-25.0	NM_001114088	67399.0	Mm.275648	NM_026131	ENSMUSG00000021493	Pdlim7	LMP	PDZ and LIM domain 7	protein-coding	29.5	44.0	20.5	368.5	98.5	40.0	26.5	33.0
Merged-chr9-96364501-4	chr9	96364404	96364604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007502)	promoter-TSS (NM_007502)	-73.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	234.0	329.5	206.0	3327.5	756.5	293.5	304.0	287.5
Merged-chr19-46056499-4	chr19	46056432	46056632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081214)	promoter-TSS (NM_001081214)	-7.0	NM_001346801	226169.0	Mm.2415	NM_145504	ENSMUSG00000055491	Pprc1	A930018M19|BC013720|PRC|mKIAA0595	peroxisome proliferative activated receptor, gamma, coactivator-related 1	protein-coding	80.5	123.0	50.0	898.5	204.0	58.5	61.5	70.0
Merged-chr15-79544750-4	chr15	79544644	79544844	+	907.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040187, intron 1 of 12)	intron (NM_001040187, intron 1 of 12)	1815.0	NM_199079	67040.0	Mm.29644	NM_152806	ENSMUSG00000055065	Ddx17	2610007K22Rik|A430025E01Rik|AI047725|C80929|Gm926|p72	DEAD (Asp-Glu-Ala-Asp) box polypeptide 17	protein-coding	3.5	20.0	12.5	99.0	37.5	6.5	6.0	12.5
Merged-chr8-71680685-1	chr8	71680585	71680785	+	639.5	f1_c57bl6.idr	exon (NM_010589, exon 8 of 25)	exon (NM_010589, exon 8 of 25)	4302.0	NM_010589	16453.0	Mm.249645	NM_010589	ENSMUSG00000031805	Jak3	fae|wil	Janus kinase 3	protein-coding	0.0	1.5	0.0	24.5	13.0	6.0	5.0	8.5
Merged-chr1-156450322-2	chr1	156450214	156450414	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_009230, intron 3 of 15)	intron (NM_009230, intron 3 of 15)	24014.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	22.5	28.0	11.0	222.0	1.5	1.0	2.0	4.5
Merged-chr4-15233890-3	chr4	15233793	15233993	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31927.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	26.5	26.0	42.0	830.0	0.0	0.0	0.5	0.0
Merged-chr8-13661042-1	chr8	13660942	13661142	+	1000.0	f0_balb.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	16545.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	12.0	6.0	8.0	187.0	7.5	3.5	0.0	5.5
Merged-chr16-20358061-4	chr16	20357966	20358166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 24 of 29)	intron (NM_013790, intron 24 of 29)	-32662.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	61.0	57.0	58.5	1156.0	122.5	41.5	46.0	57.0
Merged-chr2-119675566-3	chr2	119675445	119675645	+	998.888916	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_030112, intron 1 of 17)	CpG	477.0	NM_030112	76246.0	Mm.33437	NM_030112	ENSMUSG00000027304	Rtf1	2900005O08Rik|6530416A09Rik|AI853581|AU043144|AW553985|Gtl7|cbp82	RTF1, Paf1/RNA polymerase II complex component	protein-coding	24.0	32.0	15.5	175.5	62.5	18.0	22.0	11.5
Merged-chr14-64310063-4	chr14	64309946	64310146	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253714, intron 1 of 4)	intron (NM_001253714, intron 1 of 4)	106910.0	NM_001253716	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	14.0	17.5	24.0	379.0	35.0	6.5	30.5	18.5
Merged-chr3-135423342-4	chr3	135423237	135423437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025902)	promoter-TSS (NM_025902)	96.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	128.5	224.5	264.5	1794.0	296.5	117.0	116.5	152.5
Merged-chr6-31184686-4	chr6	31184581	31184781	+	972.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 1 of 2)	intron (NR_110470, intron 1 of 2)	33793.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	51.0	69.0	57.5	777.0	32.0	8.0	27.5	21.0
Merged-chr3-81262992-3	chr3	81262881	81263081	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	226565.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	8.0	3.0	4.5	46.0	72.5	53.0	30.5	33.0
Merged-chr9-30480666-4	chr9	30480543	30480743	+	974.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53314.0	NM_028874	102607.0	Mm.35084	NM_028874	ENSMUSG00000031993	Snx19	3526401K03Rik|AI195321|AI848208|mKIAA0254	sorting nexin 19	protein-coding	28.0	35.0	12.5	609.0	54.0	24.5	43.5	31.5
Merged-chr14-75186436-4	chr14	75186334	75186534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	50009.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	69.0	103.0	38.5	441.5	119.5	77.5	47.5	29.5
Merged-chr18-78048602-4	chr18	78048499	78048699	+	973.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101038, exon 3 of 6)	exon (NM_001101038, exon 3 of 6)	8669.0	NM_001101038	620235.0	Mm.35607	NM_001101038	ENSMUSG00000091055	Siglec15	Cd33l3|EG620235|SIGLEC-I	sialic acid binding Ig-like lectin 15	protein-coding	24.5	19.5	11.5	256.0	36.5	17.0	24.0	21.5
Merged-chr18-10610276-4	chr18	10610188	10610388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081222)	promoter-TSS (NM_001081222)	64.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	172.5	332.0	245.0	2989.0	530.5	217.0	249.5	171.0
Merged-chr2-173740120-3	chr2	173740022	173740222	+	918.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019806, intron 1 of 5)	intron (NM_019806, intron 1 of 5)	2551.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	10.5	7.0	7.0	112.0	15.0	5.5	5.0	6.0
Merged-chr16-21728070-4	chr16	21727974	21728174	+	908.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33409.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	21.0	14.0	15.0	171.5	48.5	17.0	10.5	17.0
Merged-chr19-46057172-4	chr19	46057049	46057249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346801, intron 1 of 13)	CpG	610.0	NM_001081214	226169.0	Mm.2415	NM_145504	ENSMUSG00000055491	Pprc1	A930018M19|BC013720|PRC|mKIAA0595	peroxisome proliferative activated receptor, gamma, coactivator-related 1	protein-coding	45.5	58.0	36.0	540.5	104.5	41.5	35.0	63.0
Merged-chr8-25099687-4	chr8	25099596	25099796	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 1 of 11)	intron (NM_031257, intron 1 of 11)	2115.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	27.0	35.5	15.5	426.0	48.0	14.5	23.5	17.5
Merged-chr1-180261982-4	chr1	180261862	180262062	+	901.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5662.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	14.0	14.0	20.5	136.0	27.0	4.5	14.0	17.0
Merged-chr2-141008638-4	chr2	141008531	141008731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 4 of 18)	intron (NM_001013802, intron 4 of 18)	-337155.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	30.5	45.0	28.0	553.5	92.0	30.0	27.0	45.0
Merged-chr19-4099975-4	chr19	4099902	4100102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_075078)	promoter-TSS (NR_075078)	4.0	NR_075078	18739.0	Mm.1860	NM_008851	ENSMUSG00000024851	Pitpnm1	DRES9|Mpt-1|Nir-2|PITPnm 1|Pitpnm|R75447|Rd9|RdgB|RdgB1	phosphatidylinositol transfer protein, membrane-associated 1	protein-coding	40.0	42.0	23.5	556.5	126.0	41.0	43.0	60.0
Merged-chr4-137469071-2	chr4	137468971	137469171	+	662.5	f0_balb.idr|f0_c57.idr	intron (NM_008305, intron 1 of 96)	CpG	268.0	NM_008305	15530.0	Mm.273662	NM_008305	ENSMUSG00000028763	Hspg2	AI852380|Pcn|Plc|per	perlecan (heparan sulfate proteoglycan 2)	protein-coding	9.5	29.5	13.5	108.5	23.0	9.0	10.5	4.0
Merged-chr10-44527299-4	chr10	44527230	44527430	+	869.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68582.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	14.5	15.0	11.0	115.5	15.5	11.5	20.0	14.0
Merged-chr19-53600069-4	chr19	53600059	53600259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007790)	promoter-TSS (NM_007790)	-237.0	NM_007790	13006.0	Mm.14910	NM_007790	ENSMUSG00000024974	Smc3	Bamacan|Cspg6|HCAP|Mmip1|SMC-3|SmcD	structural maintenance of chromosomes 3	protein-coding	175.5	273.5	154.5	1850.0	402.0	210.5	199.0	184.0
Merged-chr8-13600954-4	chr8	13600831	13601031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 4 of 23)	intron (NM_009025, intron 4 of 23)	-38470.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	27.5	58.0	14.5	248.5	42.5	39.5	19.5	12.0
Merged-chr6-123227732-4	chr6	123227625	123227825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2118.0	NM_001190320	56620.0	Mm.271782	NM_020001	ENSMUSG00000023349	Clec4n	Clec6a|Clecsf10|Nkcl	C-type lectin domain family 4, member n	protein-coding	62.0	58.5	47.0	614.0	96.0	22.0	43.0	37.0
Merged-chr2-157688685-4	chr2	157688541	157688741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-48760.0	NM_025680	66642.0	Mm.45193	NM_025680	ENSMUSG00000027649	Ctnnbl1	5730471K09Rik|NAP|NYD-SP19|P14L	catenin, beta like 1	protein-coding	14.5	40.0	14.0	207.0	79.5	23.5	23.5	22.0
Merged-chr2-153350922-6	chr2	153350794	153350994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039939, intron 1 of 11)	intron (NM_001039939, intron 1 of 11)	4755.0	NM_001039939	228790.0	Mm.330677	NM_001039939	ENSMUSG00000042548	Asxl1	mKIAA0978	additional sex combs like 1	protein-coding	44.0	51.0	38.0	466.0	76.0	24.0	23.0	34.0
Merged-chr9-48547468-4	chr9	48547368	48547568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52125.0	NM_001004191	434402.0	Mm.386950	NM_001004191	ENSMUSG00000042293	Gm5617	EG434402	predicted gene 5617	protein-coding	45.5	103.0	33.5	653.0	105.5	43.5	34.0	24.0
Merged-chr6-29609896-4	chr6	29609807	29610007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347079)	promoter-TSS (NM_001347079)	-58.0	NM_001347079	320938.0	Mm.276381	NM_177296	ENSMUSG00000012535	Tnpo3	5730544L10Rik|C430013M08Rik|C81142|D6Ertd313e|Trn-SR|mKIAA4133	transportin 3	protein-coding	88.0	156.5	53.0	1202.5	222.0	84.0	65.5	75.5
Merged-chr5-123027738-4	chr5	123027660	123027860	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175423, intron 1 of 1)	intron (NM_175423, intron 1 of 1)	12686.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	25.5	14.0	19.0	384.5	24.5	5.5	14.5	19.0
Merged-chr14-33324793-4	chr14	33324700	33324900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 4 of 10)	intron (NM_153800, intron 4 of 10)	86224.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	47.0	42.5	50.5	997.5	61.5	21.5	24.0	31.5
Merged-chr15-99500401-3	chr15	99500308	99500508	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038658, intron 11 of 11)	intron (NM_001038658, intron 11 of 11)	-25678.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	6.5	10.0	10.5	103.0	13.0	6.5	6.5	9.5
Merged-chr3-121500362-3	chr3	121500270	121500470	+	944.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145394, intron 9 of 14)	intron (NM_145394, intron 9 of 14)	31974.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	3.0	13.0	8.5	187.5	30.5	5.5	7.0	6.0
Merged-chr13-15853292-4	chr13	15853163	15853363	+	832.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155430, intron 3 of 3)	MLT1A1|LTR|ERVL-MaLR	46020.0	NR_046131	328190.0	Mm.446957	NR_046131	ENSMUSG00000113338	A530046M15Rik	A530046M15	RIKEN cDNA A530046M15 gene	ncRNA	3.0	13.0	2.5	109.5	43.5	7.0	8.5	9.5
Merged-chr12-99264537-4	chr12	99264441	99264641	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 4 of 5)	intron (NM_183186, intron 4 of 5)	-101733.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	33.5	37.0	59.5	860.0	52.5	16.0	40.0	21.0
Merged-chr1-182512012-4	chr1	182511916	182512116	+	976.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009794, intron 2 of 20)	intron (NM_009794, intron 2 of 20)	5594.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	17.5	26.0	21.0	192.0	32.0	14.0	17.5	19.0
Merged-chr19-34262529-4	chr19	34262501	34262701	+	895.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-7228.0	NM_007392	11475.0	Mm.213025	NM_007392	ENSMUSG00000035783	Acta2	0610041G09Rik|Actvs|SMAalpha|SMalphaA|a-SMA|alphaSMA	actin, alpha 2, smooth muscle, aorta	protein-coding	17.5	13.5	12.5	203.0	17.5	10.0	16.0	14.0
Merged-chr5-33658038-4	chr5	33657939	33658139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310541)	promoter-TSS (NM_001310541)	-62.0	NM_001356985	68366.0	Mm.491151	NM_026698	ENSMUSG00000019295	Tmem129	0610039G24Rik|2410015J15Rik|AA409575	transmembrane protein 129	protein-coding	219.0	334.0	221.0	2954.5	572.5	197.0	283.5	229.0
Merged-chr15-79467102-4	chr15	79466998	79467198	+	816.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24955.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	12.5	13.0	9.0	119.0	34.5	13.5	20.5	10.5
Merged-chr15-101248141-4	chr15	101248034	101248234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18712.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	17.5	31.5	26.0	505.0	75.5	25.0	41.5	41.0
Merged-chr4-140702756-4	chr4	140702720	140702920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173867, intron 2 of 12)	CpG-10575	1347.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	23.0	32.5	29.0	336.5	69.5	35.5	21.5	30.0
Merged-chr16-45676685-2	chr16	45676585	45676785	+	633.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172455, intron 9 of 17)	L2a|LINE|L2	16973.0	NM_172455	208171.0	Mm.186306	NM_172455	ENSMUSG00000033177	Tmprss7	B230219I23Rik|Gm1748	transmembrane serine protease 7	protein-coding	0.0	2.0	0.0	12.5	15.0	6.0	5.0	6.0
Merged-chr2-119336094-4	chr2	119335998	119336198	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019454)	TTS (NM_019454)	-9901.0	NR_030683	100043609.0	Mm.185068	NR_030683	ENSMUSG00000074912	Gm14207	Dll4	predicted gene 14207	ncRNA	17.5	29.0	25.5	99.0	32.5	17.0	13.5	5.0
Merged-chr15-73350513-4	chr15	73350410	73350610	+	862.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358046, intron 2 of 34)	intron (NM_001358046, intron 2 of 34)	72681.0	NM_007982	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	10.0	34.0	13.0	326.0	31.0	12.0	10.0	21.5
Merged-chr14-30827580-4	chr14	30827456	30827656	+	763.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028839, intron 1 of 7)	intron (NM_028839, intron 1 of 7)	1962.0	NM_028839	69179.0	Mm.143025	NM_028839	ENSMUSG00000006526	Tmem110	1810038N08Rik|2310014H19Rik|AW554125|STIMATE	transmembrane protein 110	protein-coding	13.5	29.0	13.0	82.5	35.5	12.0	7.5	9.5
Merged-chr18-60848991-4	chr18	60848873	60849073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198984)	promoter-TSS (NM_001198984)	-9.0	NM_001198984	21453.0	Mm.486251	NM_011552	ENSMUSG00000024613	Tcof1	AA408847|AW209012|treacle	treacle ribosome biogenesis factor 1	protein-coding	187.0	247.0	128.0	2031.5	423.0	175.5	186.5	153.0
Merged-chr5-64212366-4	chr5	64212306	64212506	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-17951.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	14.5	26.5	38.0	788.5	53.5	15.0	11.0	24.0
Merged-chr2-168206443-4	chr2	168206293	168206493	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310086, intron 1 of 4)	CpG	719.0	NM_009628	11538.0	Mm.201322	NM_009628	ENSMUSG00000051149	Adnp	AA589558|mKIAA0784	activity-dependent neuroprotective protein	protein-coding	4.5	6.5	6.5	82.0	31.5	3.5	11.0	13.0
Merged-chr12-86891572-2	chr12	86891472	86891672	+	886.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6758.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	1.5	3.5	1.5	58.5	14.0	6.5	5.5	8.5
Merged-chr7-119899552-4	chr7	119899446	119899646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126475)	promoter-TSS (NR_126475)	-565.0	NR_126475	73919.0	Mm.46381	NM_029610	ENSMUSG00000030922	Lyrm1	1110065L10Rik|2310004B22Rik|4930404J24Rik	LYR motif containing 1	protein-coding	29.0	49.0	50.5	683.5	121.5	36.0	42.5	58.0
Merged-chr1-178336603-4	chr1	178336480	178336680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149827, intron 1 of 16)	CpG	1235.0	NM_016805	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	177.0	263.5	192.0	2314.5	482.0	184.5	202.0	180.0
Merged-chr15-63924535-6	chr15	63924304	63924504	+	908.904785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029414, intron 10 of 10)	intron (NR_029414, intron 10 of 10)	9943.0	NR_029414	74460.0	Mm.390801	NR_029414	ENSMUSG00000100127	Gsdmcl-ps	4933426G20Rik	gasdermin C-like, pseudogene	pseudo	3.5	11.5	13.5	35.5	18.5	8.5	12.5	10.5
Merged-chr2-3726834-6	chr2	3726703	3726903	+	996.0476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	13345.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	30.0	20.0	24.5	543.5	51.0	17.5	18.5	22.5
Merged-chr14-47542639-4	chr14	47542535	47542735	+	910.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172599, exon 10 of 10)	3' UTR (NM_172599, exon 10 of 10)	25799.0	NM_172599	100504663.0	Mm.287279	NM_172599	ENSMUSG00000037526	Atg14	4832427M01|Atg14L|D14Ertd114e|D14Ertd436e	autophagy related 14	protein-coding	7.0	4.0	9.0	137.5	13.0	10.0	11.0	10.0
Merged-chr5-147471431-4	chr5	147471320	147471520	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 4 of 18)	intron (NM_028291, intron 4 of 18)	41264.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	22.5	22.0	22.0	320.0	45.0	17.0	12.5	26.5
Merged-chr2-170317005-4	chr2	170316895	170317095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39366.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	66.0	92.0	68.5	1273.5	161.5	63.0	70.0	77.5
Merged-chr1-120099657-4	chr1	120099555	120099755	+	937.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21264.0	NM_001037999	13167.0	Mm.2785	NM_007830	ENSMUSG00000026385	Dbi	ACBD1|Acbp|EP|endozepine	diazepam binding inhibitor	protein-coding	11.0	19.5	14.5	108.5	180.0	60.0	87.0	78.0
Merged-chr9-61363369-2	chr9	61363269	61363469	+	848.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-8997.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	5.0	10.0	8.0	36.5	17.0	1.0	2.0	3.0
Merged-chr4-122902348-4	chr4	122902232	122902432	+	826.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER12B|LTR|ERVK	-16256.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	12.5	16.0	10.0	102.0	22.0	9.0	18.0	13.0
Merged-chr13-92986085-3	chr13	92985974	92986174	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87230.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	0.0	4.5	0.5	57.0	70.0	22.0	35.0	33.0
Merged-chr4-149780064-6	chr4	149779946	149780146	+	996.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-5779.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	9.5	20.5	13.0	266.5	29.5	11.0	16.0	11.5
Merged-chr19-11447429-2	chr19	11447329	11447529	+	975.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021718, intron 1 of 6)	intron (NM_021718, intron 1 of 6)	3871.0	NM_021718	60361.0	Mm.33957	NM_021718	ENSMUSG00000056290	Ms4a4b	AI463180|Chandra|Ly116	membrane-spanning 4-domains, subfamily A, member 4B	protein-coding	7.5	14.0	10.0	77.0	12.0	8.0	5.5	4.0
Merged-chr5-45926157-4	chr5	45926050	45926250	+	978.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110478)	TTS (NR_110478)	6259.0	NR_110478	78106.0	Mm.243807	NR_110478	ENSMUSG00000106602	4930405L22Rik	-	RIKEN cDNA 4930405L22 gene	ncRNA	15.5	16.5	30.0	200.5	42.0	3.5	10.5	16.0
Merged-chr6-88379040-4	chr6	88378938	88379138	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023060, intron 1 of 6)	intron (NM_023060, intron 1 of 6)	67501.0	NM_023060	65967.0	Mm.333237	NM_023060	ENSMUSG00000033216	Eefsec	Selb|mSelB|sec	eukaryotic elongation factor, selenocysteine-tRNA-specific	protein-coding	23.5	6.5	21.0	361.0	21.5	6.0	11.0	15.5
Merged-chr14-14800551-4	chr14	14800452	14800652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360516)	TTS (NM_001360516)	-20263.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	35.0	48.0	46.0	791.5	56.5	25.0	37.0	37.0
Merged-chr3-13471687-4	chr3	13471574	13471774	+	891.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178631)	promoter-TSS (NM_178631)	19.0	NM_001357035	76897.0	Mm.422625	NM_178631	ENSMUSG00000039717	Ralyl	0710005M24Rik	RALY RNA binding protein-like	protein-coding	17.5	39.0	44.5	368.5	24.5	13.0	17.0	10.5
Merged-chr11-48853833-7	chr11	48853680	48853880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16309.0	NM_001347446	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	28.5	37.5	32.0	265.5	51.5	19.0	15.0	16.5
Merged-chr4-6223242-3	chr4	6223140	6223340	+	952.5833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32135.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	4.0	1.0	0.0	62.5	32.5	8.5	17.5	19.0
Merged-chr5-66105571-4	chr5	66105471	66105671	+	984.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-7392.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	37.0	18.5	27.0	529.5	71.0	19.0	26.5	18.5
Merged-chr4-40781378-3	chr4	40781280	40781480	+	834.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23495.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	15.0	12.5	3.5	239.5	24.5	5.5	6.0	7.5
Merged-chr11-110475164-3	chr11	110475063	110475263	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	-3352.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.5	31.5	7.5	79.5	58.0	15.5	28.5	9.0
Merged-chr4-101355574-3	chr4	101355479	101355679	+	848.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040640, intron 1 of 3)	intron (NR_040640, intron 1 of 3)	669.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	9.5	6.5	11.5	65.5	10.5	6.5	8.5	13.0
Merged-chr1-80371656-3	chr1	80371563	80371763	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-30973.0	NM_016716	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	5.0	13.0	9.0	135.5	11.5	2.0	8.0	5.0
Merged-chr14-30908140-4	chr14	30908046	30908246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008407)	TTS (NM_008407)	15441.0	NM_008407	16426.0	Mm.4517	NM_008407	ENSMUSG00000006522	Itih3	AW108094|ITI-HC3|Intin3|Itih-3	inter-alpha trypsin inhibitor, heavy chain 3	protein-coding	50.5	70.0	46.0	900.5	193.0	53.0	79.5	69.5
Merged-chr5-41281213-3	chr5	41281103	41281303	+	774.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	426488.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	5.0	1.5	0.0	50.0	20.5	11.5	21.5	14.0
Merged-chr5-136664731-2	chr5	136664631	136664831	+	770.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28415.0	NM_001303019	59310.0	Mm.5178	NM_021611	ENSMUSG00000005474	Myl10	1700027I08Rik|Mylc2pl|PLRLC	myosin, light chain 10, regulatory	protein-coding	5.0	14.0	4.0	45.0	12.5	10.5	5.5	13.5
Merged-chr14-52023080-6	chr14	52022986	52023186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2353.0	NM_027248	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	21.0	43.0	23.0	292.0	53.0	29.0	22.0	28.5
Merged-chr12-35076141-4	chr12	35076040	35076240	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	28951.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	4.5	10.0	0.5	118.0	65.0	22.5	26.5	46.0
Merged-chr6-127420072-3	chr6	127419978	127420178	+	763.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-26762.0	NM_001346513	101187.0	Mm.110818	NM_181402	ENSMUSG00000037997	Parp11	5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11	poly (ADP-ribose) polymerase family, member 11	protein-coding	6.0	6.5	9.5	102.0	0.5	0.0	0.5	0.0
Merged-chr2-129408660-4	chr2	129408545	129408745	+	827.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37506.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	17.5	18.0	10.5	97.5	21.0	2.0	20.0	9.5
Merged-chr19-47090752-4	chr19	47090654	47090854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011053)	promoter-TSS (NM_011053)	-12.0	NM_011053	18572.0	Mm.41166	NM_011053	ENSMUSG00000025047	Pdcd11	1110021I22Rik|ALG-4|Pdcd7|mKIAA0185	programmed cell death 11	protein-coding	168.0	245.5	118.0	2533.0	431.5	147.0	152.5	136.0
Merged-chr6-37870654-4	chr6	37870552	37870752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272064)	promoter-TSS (NM_001272064)	-159.0	NM_001272064	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	300.0	385.5	340.5	5644.5	868.0	319.5	450.0	293.5
Merged-chr12-110465090-3	chr12	110464999	110465199	+	710.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135001, intron 2 of 13)	intron (NM_001135001, intron 2 of 13)	17920.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	12.0	13.5	7.5	181.5	8.5	6.0	7.5	3.0
Merged-chr11-84180218-4	chr11	84180134	84180334	+	979.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12758.0	NM_001037932	628813.0	Mm.390389	NM_001037932	ENSMUSG00000051452	Gm11437	AI463690	predicted gene 11437	protein-coding	12.0	28.5	24.0	244.0	40.5	15.5	10.5	29.0
Merged-chr2-129912461-1	chr2	129912361	129912561	+	898.6666869999999	f0_balb.idr	Intergenic	Intergenic	-99879.0	NM_009374	21818.0	Mm.2961	NM_009374	ENSMUSG00000027401	Tgm3	AI893889|TG E|TG(E)|TGE|TGase E|TGase-3|we	transglutaminase 3, E polypeptide	protein-coding	15.5	16.0	14.5	182.5	1.5	0.0	1.0	3.0
Merged-chr1-149939478-3	chr1	149939383	149939583	+	919.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	-17044.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	14.5	4.5	11.5	149.5	22.5	1.0	10.5	13.0
Merged-chr15-65786095-4	chr15	65785950	65786150	+	799.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356582)	promoter-TSS (NM_001356582)	-970.0	NM_133766	76740.0	Mm.260647	NM_133766	ENSMUSG00000015002	Efr3a	A130089M23Rik|BB071175|C76891|C920006C10Rik|D030063F01Rik|mKIAA0143	EFR3 homolog A	protein-coding	10.5	17.0	3.0	151.5	22.5	7.0	7.0	10.5
Merged-chr10-119610598-4	chr10	119610472	119610672	+	863.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133442, intron 1 of 21)	intron (NM_133442, intron 1 of 21)	151127.0	NR_045359	75321.0	Mm.402041	NR_045359	ENSMUSG00000084764	Grip1os2	4930564G21Rik	glutamate receptor interacting protein 1, opposite strand 2	ncRNA	2.5	9.5	12.5	145.5	18.0	8.0	8.0	14.5
Merged-chr9-123563786-4	chr9	123563693	123563893	+	974.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357485, intron 7 of 19)	intron (NM_001357485, intron 7 of 19)	34040.0	NM_030692	83493.0	Mm.273671	NM_030692	ENSMUSG00000025240	Sacm1l	SAC1|Sac1p|mKIAA0851	SAC1 suppressor of actin mutations 1-like (yeast)	protein-coding	18.5	19.5	20.0	647.5	60.5	16.0	24.0	25.0
Merged-chr4-41760424-4	chr4	41760325	41760525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172054)	promoter-TSS (NM_001172054)	-18.0	NM_001163401	16157.0	Mm.193451	NM_010549	ENSMUSG00000073889	Il11ra1	AI314697|GP130|Il-11ra|Il11ra|Il11ra2|NR1	interleukin 11 receptor, alpha chain 1	protein-coding	89.0	114.5	84.5	1851.5	268.5	84.5	122.5	110.5
Merged-chr9-65557185-4	chr9	65557082	65557282	+	768.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 5 of 5)	intron (NM_153119, intron 5 of 5)	22905.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	12.5	6.0	6.0	47.5	22.0	10.5	2.5	6.5
Merged-chr12-12249704-4	chr12	12249580	12249780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12459.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	36.5	59.0	39.5	509.5	120.5	36.5	45.0	25.0
Merged-chr12-76552542-4	chr12	76552443	76552643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	-4618.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	81.5	122.0	106.5	1855.0	244.0	84.5	120.5	107.5
Merged-chr2-70503617-3	chr2	70503521	70503721	+	866.138855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040496, intron 1 of 2)	intron (NR_040496, intron 1 of 2)	-5198.0	NM_025744	66748.0	Mm.423014	NM_025744	ENSMUSG00000075302	Erich2	4933404M02Rik	glutamate rich 2	protein-coding	13.0	11.0	18.0	157.0	14.0	7.5	6.0	6.5
Merged-chr11-117825871-4	chr11	117825709	117825909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027827)	promoter-TSS (NM_027827)	-110.0	NM_027827	71562.0	Mm.273958	NM_027827	ENSMUSG00000017718	Afmid	9030621K19Rik|Ammd|FKF|KFA|Kf|formylase	arylformamidase	protein-coding	18.5	20.5	21.5	249.0	60.0	11.0	16.0	19.0
Merged-chr9-110527881-4	chr9	110527780	110527980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4717.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	26.5	23.5	19.5	346.5	80.0	25.0	30.0	22.5
Merged-chr9-55309731-4	chr9	55309633	55309833	+	815.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17180.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	8.0	12.5	17.5	108.5	8.5	6.0	6.0	10.0
Merged-chr17-17915150-3	chr17	17915042	17915242	+	949.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27318.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	2.5	7.0	4.0	56.0	52.0	7.5	11.0	6.0
Merged-chr6-148444867-3	chr6	148444732	148444932	+	968.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347518)	promoter-TSS (NM_001347518)	-480.0	NM_001347518	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	9.0	6.5	12.5	236.5	17.0	5.5	4.0	13.5
Merged-chr10-87805943-4	chr10	87805854	87806054	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52311.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	29.5	84.5	29.5	231.5	93.0	42.5	24.5	23.0
Merged-chr10-12871266-3	chr10	12871196	12871396	+	821.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	-9561.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	1.0	2.5	0.0	0.0	51.5	14.0	22.0	21.5
Merged-chr15-62096829-4	chr15	62096732	62096932	+	852.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	57575.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	10.0	13.0	15.0	160.5	24.0	7.0	11.5	13.0
Merged-chr14-61817888-1	chr14	61817788	61817988	+	622.0	f0_balb.idr	Intergenic	Intergenic	-135515.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	8.5	7.0	4.5	109.0	10.0	6.0	7.5	13.0
Merged-chr4-43556116-4	chr4	43556031	43556231	+	960.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011602, intron 3 of 56)	intron (NM_011602, intron 3 of 56)	6452.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	50.5	43.5	56.5	685.5	72.5	12.5	28.5	21.0
Merged-chr11-76611059-3	chr11	76610957	76611157	+	860.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33318.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	11.5	12.0	2.5	57.5	23.0	5.0	7.0	7.5
Merged-chr15-41842133-4	chr15	41841986	41842186	+	673.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 12 of 17)	intron (NR_152565, intron 12 of 17)	11128.0	NM_001130164	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	7.5	11.0	14.0	70.5	11.5	2.5	3.5	9.5
Merged-chr12-70107113-4	chr12	70106994	70107194	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286079, intron 1 of 28)	MIRb|SINE|MIR	-4240.0	NM_001081453	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	19.0	30.5	13.0	344.5	19.5	17.0	16.0	10.0
Merged-chr5-21386572-4	chr5	21386484	21386684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	L1MB3|LINE|L1	13911.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	77.5	73.5	69.0	1831.0	203.0	54.5	88.5	82.5
Merged-chr1-43303000-4	chr1	43302891	43303091	+	958.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106230.0	NM_001289533	14200.0	Mm.6799	NM_010212	ENSMUSG00000008136	Fhl2	FHL-2|SLIM-3|SLIM3	four and a half LIM domains 2	protein-coding	11.5	10.0	12.5	200.0	63.0	27.5	41.0	24.0
Merged-chr4-139381693-2	chr4	139381593	139381793	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001160319, intron 1 of 105)	intron (NM_001160319, intron 1 of 105)	1034.0	NM_001160319	69116.0	Mm.271956	NM_001160319	ENSMUSG00000066036	Ubr4	1810009A16Rik|A930005E13Rik|D930005K06Rik|Gm1032|Gm1666|N28143|RBAF600|Zubr1|mKIAA0462|p600	ubiquitin protein ligase E3 component n-recognin 4	protein-coding	8.0	6.0	7.5	20.0	8.0	0.5	2.5	3.0
Merged-chr2-20898910-4	chr2	20898788	20898988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 3 of 24)	intron (NM_001128084, intron 3 of 24)	68833.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	29.5	41.5	28.0	490.0	100.0	19.0	34.5	25.0
Merged-chr18-24178917-4	chr18	24178827	24179027	+	970.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-26417.0	NM_013814	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	8.5	25.5	15.0	279.0	34.5	5.5	20.0	16.0
Merged-chr7-13009261-4	chr7	13009145	13009345	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024699, intron 1 of 2)	intron (NM_001024699, intron 1 of 2)	607.0	NM_001024699	232879.0	Mm.279272	NM_001024699	ENSMUSG00000049600	Zbtb45	BB161562|Gm157|Zfp499	zinc finger and BTB domain containing 45	protein-coding	13.0	14.5	14.0	200.5	54.5	11.0	16.0	12.0
Merged-chr10-28485831-1	chr10	28485731	28485931	+	730.0	f0_balb.idr	intron (NM_001359356, intron 11 of 30)	intron (NM_001359356, intron 11 of 30)	-182529.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	10.0	6.5	4.5	120.0	5.5	1.0	2.0	2.5
Merged-chr14-20393635-4	chr14	20393552	20393752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155747)	promoter-TSS (NR_155747)	-18.0	NM_025440	66242.0	Mm.23747	NM_025440	ENSMUSG00000049960	Mrps16	1500011E11Rik|Mprs16|S16mt	mitochondrial ribosomal protein S16	protein-coding	330.5	472.5	315.5	5001.5	645.5	247.5	314.5	268.5
Merged-chr3-142395711-4	chr3	142395613	142395813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190855)	promoter-TSS (NM_001190855)	-17.0	NM_019808	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	234.0	421.0	217.0	3430.5	759.0	232.0	296.5	223.5
Merged-chr8-10832165-6	chr8	10832106	10832306	+	944.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCCCCA)n|Simple_repeat|Simple_repeat	50248.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	10.0	6.5	14.0	187.5	32.0	9.5	12.5	9.0
Merged-chr4-9630695-4	chr4	9630590	9630790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001177856, exon 5 of 5)	3' UTR (NM_001177856, exon 5 of 5)	13027.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	144.0	199.0	136.0	2459.0	377.5	103.5	183.0	140.0
Merged-chr11-107028083-4	chr11	107028019	107028219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163473)	promoter-TSS (NM_001163473)	-104.0	NM_001163473	69066.0	Mm.40679	NM_001163473	ENSMUSG00000078607	1810010H24Rik	-	RIKEN cDNA 1810010H24 gene	protein-coding	47.5	69.5	26.0	584.0	130.5	34.5	43.5	35.0
Merged-chr17-45642950-2	chr17	45642863	45643063	+	992.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013767, intron 4 of 21)	intron (NM_001013767, intron 4 of 21)	16346.0	NM_001013767	268958.0	Mm.426026	NM_001013767	ENSMUSG00000058626	Capn11	-	calpain 11	protein-coding	7.0	10.5	9.5	85.0	10.5	4.0	5.5	10.5
Merged-chr10-42118716-4	chr10	42118609	42118809	+	936.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100327.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	21.5	42.0	25.0	477.5	50.5	11.0	29.0	10.5
Merged-chr6-29517336-4	chr6	29517227	29517427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9298.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	42.5	69.0	37.0	662.5	108.0	35.0	43.5	50.0
Merged-chr2-94389189-4	chr2	94389080	94389280	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183106, intron 1 of 24)	intron (NM_183106, intron 1 of 24)	17509.0	NM_183106	74569.0	Mm.248504	NM_183106	ENSMUSG00000027194	Ttc17	9130020K17Rik|D2Bwg1005e	tetratricopeptide repeat domain 17	protein-coding	29.5	36.5	35.5	445.5	59.5	15.5	34.5	34.0
Merged-chr11-59180849-4	chr11	59180739	59180939	+	836.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080454, intron 1 of 1)	L1MD3|LINE|L1	1987.0	NM_175452	118454.0	Mm.40016	NM_080454	ENSMUSG00000043448	Gjc2	B230382L12Rik|Cx47|Gja12	gap junction protein, gamma 2	protein-coding	9.0	12.5	5.0	142.5	23.0	6.0	11.5	14.5
Merged-chr11-76647758-4	chr11	76647647	76647847	+	802.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24723.0	NM_177182	320522.0	Mm.131585	NM_177182	ENSMUSG00000044243	Bhlha9	A830053O21Rik|Fingerin	basic helix-loop-helix family, member a9	protein-coding	8.5	13.0	5.5	75.0	21.0	9.0	7.0	5.5
Merged-chr12-55491280-4	chr12	55491209	55491409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010907, exon 3 of 6)	exon (NM_010907, exon 3 of 6)	1338.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	51.5	175.0	58.5	268.0	221.5	110.5	55.5	23.5
Merged-chr7-104366516-4	chr7	104366426	104366626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7880.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	47.5	61.0	35.5	927.0	106.5	38.0	54.0	36.0
Merged-chr5-138619751-4	chr5	138619664	138619864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001044747)	promoter-TSS (NM_001044747)	-21.0	NM_001044747	24135.0	Mm.27575	NM_013844	ENSMUSG00000058291	Zfp68	KRAB3|KRAZ2|Zfp70|mszf22|mszf49	zinc finger protein 68	protein-coding	114.0	136.0	109.0	1568.0	250.5	95.0	145.5	84.5
Merged-chr5-76951255-4	chr5	76951167	76951367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356973)	promoter-TSS (NM_001356973)	-35.0	NM_001356974	67054.0	Mm.182931	NM_025939	ENSMUSG00000029247	Paics	2610511I09Rik|ADE2H1|AIRC|PAIS	phosphoribosylaminoimidazole carboxylase, phosphoribosylaminoribosylaminoimidazole, succinocarboxamide synthetase	protein-coding	214.5	413.5	252.0	3784.5	681.5	258.0	325.0	221.5
Merged-chr11-98960521-4	chr11	98960384	98960584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001176528)	promoter-TSS (NM_001176528)	13.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	34.5	50.5	25.5	355.0	109.5	21.0	22.5	36.5
Merged-chr3-67374097-4	chr3	67374003	67374203	+	886.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039543)	promoter-TSS (NM_001039543)	6.0	NM_010801	17349.0	Mm.10414	NM_010801	ENSMUSG00000048416	Mlf1	HLS7	myeloid leukemia factor 1	protein-coding	16.0	35.0	24.5	505.0	23.0	21.5	11.5	11.5
Merged-chr3-146157619-3	chr3	146157513	146157713	+	883.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	MTE2b|LTR|ERVL-MaLR	7439.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	9.5	9.0	8.0	87.0	32.5	10.0	6.5	11.5
Merged-chr4-106651023-4	chr4	106650926	106651126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285784)	promoter-TSS (NM_001285784)	-43.0	NM_001285783	230577.0	Mm.134029	NM_172272	ENSMUSG00000043572	Pars2	BC027073	prolyl-tRNA synthetase (mitochondrial)(putative)	protein-coding	82.0	117.0	49.0	1046.0	221.5	76.0	124.0	74.5
Merged-chr18-36678525-4	chr18	36678387	36678587	+	929.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083317)	promoter-TSS (NM_001083317)	-728.0	NM_001360989	67843.0	Mm.273350	NM_026404	ENSMUSG00000033272	Slc35a4	2610030J16Rik	solute carrier family 35, member A4	protein-coding	15.0	18.0	21.0	185.0	11.0	15.5	4.5	21.0
Merged-chr10-41587367-5	chr10	41587222	41587422	+	970.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 32 of 47)	intron (NM_001358562, intron 32 of 47)	19306.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	6.5	20.0	32.5	153.5	24.5	17.5	18.0	18.0
Merged-chr14-121381977-4	chr14	121381877	121382077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2747.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	36.0	28.5	49.0	761.0	64.5	21.5	44.5	47.5
Merged-chr6-120152998-4	chr6	120152969	120153169	+	969.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	B1_Mm|SINE|Alu	-40754.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	20.0	31.5	29.0	114.5	15.5	9.0	4.0	13.0
Merged-chr11-60116143-3	chr11	60116026	60116226	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009021, intron 1 of 5)	PB1D10|SINE|Alu	11113.0	NM_009021	19377.0	Mm.296366	NM_009021	ENSMUSG00000062115	Rai1	Gt1	retinoic acid induced 1	protein-coding	14.5	20.0	6.5	231.0	8.5	3.0	11.5	4.0
Merged-chr2-93507813-4	chr2	93507710	93507910	+	859.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-44860.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	13.5	18.5	23.0	109.0	33.0	15.0	19.5	10.0
Merged-chr17-79580439-4	chr17	79580340	79580540	+	825.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34460.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	11.5	7.5	5.0	141.5	35.5	13.5	9.0	16.0
Merged-chr10-7140513-2	chr10	7140420	7140620	+	709.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 5 of 12)	intron (NM_172546, intron 5 of 12)	71717.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	5.5	7.0	5.0	199.0	1.0	0.5	2.5	1.0
Merged-chr9-104581762-3	chr9	104581656	104581856	+	855.783325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	12273.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	16.0	8.0	20.0	405.0	4.0	3.5	6.0	6.0
Merged-chr14-103543555-4	chr14	103543452	103543652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022886, intron 7 of 30)	intron (NM_022886, intron 7 of 30)	30211.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	37.5	33.5	30.0	713.0	42.5	26.0	22.5	39.5
Merged-chr16-37685358-3	chr16	37685280	37685480	+	905.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31012.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	5.0	9.0	9.5	103.0	14.5	6.0	5.5	12.5
Merged-chr13-45966713-4	chr13	45966615	45966815	+	868.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1724.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	6.5	17.5	8.5	119.0	39.5	11.5	23.0	11.5
Merged-chr12-69425076-4	chr12	69424984	69425184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50466.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	92.5	139.5	99.0	2139.5	52.5	23.5	33.5	26.0
Merged-chr8-70775884-5	chr8	70775863	70776063	+	790.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029440)	promoter-TSS (NR_029440)	749.0	NM_008841	18709.0	Mm.12945	NM_008841	ENSMUSG00000031834	Pik3r2	p85beta	phosphoinositide-3-kinase regulatory subunit 2	protein-coding	13.0	3.0	8.0	38.5	8.0	6.0	4.5	13.5
Merged-chr2-71043526-4	chr2	71043398	71043598	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	MTD|LTR|ERVL-MaLR	12108.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	22.0	27.5	32.5	382.5	35.5	7.5	11.5	27.0
Merged-chr4-120914719-4	chr4	120914617	120914817	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10288.0	NM_028457	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	23.0	29.0	16.0	294.0	36.0	13.5	24.5	15.5
Merged-chr13-37338037-4	chr13	37337906	37338106	+	979.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7339.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	16.5	29.5	22.5	259.0	50.5	15.0	20.0	24.0
Merged-chr5-135887873-4	chr5	135887780	135887980	+	936.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013560)	promoter-TSS (NM_013560)	-39.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	19.0	25.0	20.0	242.5	35.0	12.0	12.5	11.0
Merged-chr10-67996420-2	chr10	67996320	67996520	+	848.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359318, intron 2 of 11)	intron (NM_001359318, intron 2 of 11)	16850.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	3.0	4.5	1.0	67.5	14.0	5.0	8.0	6.5
Merged-chr11-54733675-1	chr11	54733575	54733775	+	682.5	f0_balb.idr	intron (NM_178626, intron 3 of 5)	ORR1F|LTR|ERVL-MaLR	54028.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	8.0	8.5	6.5	121.5	8.5	2.0	1.5	6.5
Merged-chr17-56476106-1	chr17	56476006	56476206	+	941.0	f0_c57.idr	intron (NM_001252455, intron 1 of 27)	CpG	374.0	NM_001252455	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	8.0	12.5	4.0	128.5	30.0	14.0	6.0	13.5
Merged-chr8-3848353-2	chr8	3848253	3848453	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_130905, exon 6 of 6)	3' UTR (NM_130905, exon 6 of 6)	5933.0	NM_130905	170780.0	Mm.52281	NM_130905	ENSMUSG00000040197	Cd209e	SIGNR4|mSIGNR4	CD209e antigen	protein-coding	5.5	7.5	6.5	230.0	2.0	4.0	3.0	3.5
Merged-chr7-4227152-3	chr7	4227020	4227220	+	649.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10634.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	0.0	0.0	0.0	0.0	21.0	4.5	13.0	17.5
Merged-chr6-119395741-6	chr6	119395622	119395822	+	975.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197985, intron 1 of 7)	intron (NM_197985, intron 1 of 7)	-6988.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	12.0	7.5	10.0	131.0	29.5	15.5	5.5	10.0
Merged-chr8-70631612-4	chr8	70631521	70631721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330687, exon 2 of 3)	5' UTR (NM_001330687, exon 2 of 3)	474.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	24.5	75.0	51.0	719.0	173.5	52.5	63.5	41.5
Merged-chr7-30169820-4	chr7	30169740	30169940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357557)	promoter-TSS (NM_001357557)	-82.0	NM_001033540	330503.0	Mm.434058	NM_001033540	ENSMUSG00000066647	Gm5113	B430201F14|EG330503	predicted gene 5113	protein-coding	99.0	134.0	62.0	1108.5	255.5	66.0	109.5	89.5
Merged-chr5-139378053-4	chr5	139377963	139378163	+	967.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033147, exon 1 of 1)	non-coding (NR_033147, exon 1 of 1)	366.0	NR_033147	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	19.0	19.0	14.0	269.0	48.5	15.5	12.5	17.5
Merged-chr13-102886378-4	chr13	102886261	102886461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	126106.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	50.0	69.0	31.5	997.0	128.0	39.0	42.0	60.5
Merged-chr4-8691761-6	chr4	8691748	8691948	+	935.4027710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277149, intron 1 of 37)	CpG	1442.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	10.5	6.0	17.5	154.0	33.5	13.5	8.0	32.0
Merged-chr7-79728439-4	chr7	79728339	79728539	+	846.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175640, intron 3 of 8)	intron (NM_175640, intron 3 of 8)	4337.0	NM_175640	103968.0	Mm.254917	NM_175640	ENSMUSG00000030546	Plin1	6030432J05Rik|Peri|Plin	perilipin 1	protein-coding	9.5	15.0	13.0	130.0	16.5	6.0	6.0	7.0
Merged-chr11-90242029-4	chr11	90241959	90242159	+	801.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-7417.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	15.0	23.5	10.0	276.5	23.5	4.5	8.5	7.0
Merged-chr3-8789966-3	chr3	8789856	8790056	+	709.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB2_1A-I_MM-int|LTR|ERVK	-122918.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	10.0	7.5	5.0	122.0	16.0	0.0	9.5	6.5
Merged-chr4-135307688-3	chr4	135307589	135307789	+	974.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34929.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	7.0	57.5	4.0	99.0	37.5	12.0	7.5	5.0
Merged-chr7-25282431-3	chr7	25282338	25282538	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027882, exon 1 of 20)	5' UTR (NM_027882, exon 1 of 20)	259.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	89.5	138.5	89.5	949.5	233.0	101.0	110.0	89.5
Merged-chr16-95898093-4	chr16	95897987	95898187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040485, exon 2 of 4)	non-coding (NR_040485, exon 2 of 4)	626.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	47.0	103.0	42.0	450.5	147.5	80.5	75.5	30.0
Merged-chr13-113359075-4	chr13	113358991	113359191	+	991.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	143753.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	22.5	13.0	14.0	317.5	55.5	22.0	32.5	23.5
Merged-chr11-83223496-4	chr11	83223380	83223580	+	970.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015519)	promoter-TSS (NR_015519)	-96.0	NR_015519	100043636.0	Mm.295569	NR_015519	ENSMUSG00000087107	AI662270	AW496474	expressed sequence AI662270	ncRNA	17.5	28.5	10.5	397.5	100.5	27.5	31.0	33.0
Merged-chr5-147418569-4	chr5	147418477	147418677	+	902.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033625)	promoter-TSS (NR_033625)	-43.0	NR_033625	100039805.0	Mm.394705	NR_033625	ENSMUSG00000106820	D5Ertd605e	Gm2433	DNA segment, Chr 5, ERATO Doi 605, expressed	ncRNA	19.0	28.0	16.0	285.5	20.5	11.5	13.5	15.0
Merged-chr2-170324912-4	chr2	170324812	170325012	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-31449.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	16.5	20.5	17.0	270.0	62.0	19.5	12.0	32.5
Merged-chr13-95618566-4	chr13	95618474	95618674	+	951.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010169)	promoter-TSS (NM_010169)	-108.0	NM_010169	14062.0	Mm.24816	NM_010169	ENSMUSG00000048376	F2r	AI482343|Cf2r|Par1|ThrR	coagulation factor II (thrombin) receptor	protein-coding	17.0	20.5	16.0	280.5	13.5	15.5	8.5	23.0
Merged-chr4-141385441-3	chr4	141385390	141385590	+	744.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024412, intron 18 of 19)	intron (NM_024412, intron 18 of 19)	12609.0	NM_001146307	12733.0	Mm.167900	NM_024412	ENSMUSG00000033770	Clcnka	C75963|CLC-K1|Clcnk1	chloride channel, voltage-sensitive Ka	protein-coding	7.5	2.0	0.5	71.5	25.5	6.0	7.0	4.5
Merged-chr13-96510769-4	chr13	96510694	96510894	+	945.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_144624, intron 2 of 10)	intron (NR_144624, intron 2 of 10)	8393.0	NR_144623	27015.0	Mm.89926	NM_012048	ENSMUSG00000021668	Polk	DINP|Dinb1	polymerase (DNA directed), kappa	protein-coding	22.5	31.0	20.0	484.5	32.5	7.0	11.5	13.0
Merged-chr6-11925866-4	chr6	11925764	11925964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029404)	promoter-TSS (NM_029404)	-17.0	NM_001362122	75725.0	Mm.212411	NM_029404	ENSMUSG00000029629	Phf14	1110001C23Rik|4932409F11Rik|5730446A07Rik|AA623952|AV297001|mKIAA0783	PHD finger protein 14	protein-coding	56.5	63.5	57.5	1101.0	139.5	50.0	72.5	66.0
Merged-chr2-130629948-4	chr2	130629824	130630024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001255993, exon 1 of 7)	5' UTR (NM_001255993, exon 1 of 7)	103.0	NM_198176	380601.0	Mm.27090	NM_198176	ENSMUSG00000079043	Fastkd5	C78212|mKIAA1792	FAST kinase domains 5	protein-coding	21.5	32.0	26.0	345.5	55.0	18.0	24.0	23.0
Merged-chr14-34673854-4	chr14	34673763	34673963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301330)	promoter-TSS (NM_001301330)	-65.0	NM_001004436	218914.0	Mm.27957	NM_001004436	ENSMUSG00000041408	Wapl	A530089A20Rik|BC037674|DIF-2|FOE|Wapal	WAPL cohesin release factor	protein-coding	168.0	208.0	140.5	2579.0	415.0	142.0	218.5	160.5
Merged-chr7-110715817-4	chr7	110715690	110715890	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52416.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	15.0	22.0	5.5	183.0	47.0	16.0	17.0	10.5
Merged-chr16-43109523-4	chr16	43109416	43109616	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285805, intron 2 of 10)	Lx3B|LINE|L1	-137768.0	NM_181058	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	18.0	29.5	23.5	300.5	24.0	4.0	11.0	7.5
Merged-chr5-137672113-4	chr5	137672022	137672222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303271, intron 1 of 12)	intron (NM_001303271, intron 1 of 12)	12631.0	NM_001303271	231801.0	Mm.260869	NM_145566	ENSMUSG00000029722	Agfg2	A630095P14Rik|Hrbl|RAB-R|RABR	ArfGAP with FG repeats 2	protein-coding	66.0	72.5	38.0	533.0	94.5	62.0	28.0	47.0
Merged-chr17-56930228-4	chr17	56930116	56930316	+	838.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022328, intron 1 of 11)	intron (NM_022328, intron 1 of 11)	5172.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	6.0	12.5	8.5	115.5	18.5	14.5	8.5	15.5
Merged-chr7-4149373-4	chr7	4149270	4149470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175529, exon 1 of 1)	exon (NM_175529, exon 1 of 1)	502.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	42.0	65.5	72.0	791.5	103.5	50.5	72.0	69.5
Merged-chr9-13749157-4	chr9	13749077	13749277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023858)	promoter-TSS (NM_023858)	-4.0	NR_024025	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	94.0	193.5	107.5	1762.0	261.0	114.5	161.0	98.5
Merged-chr2-144165510-4	chr2	144165420	144165620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	23770.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	26.0	48.0	58.5	590.5	86.5	40.0	46.5	67.5
Merged-chr1-43843658-4	chr1	43843517	43843717	+	923.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15909.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	8.0	15.5	7.5	132.0	13.5	16.5	8.5	8.0
Merged-chr5-108001129-4	chr5	108001019	108001219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14042.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	24.5	40.5	10.5	298.5	66.0	16.0	29.5	28.5
Merged-chr10-13869749-4	chr10	13869658	13869858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347362)	promoter-TSS (NM_001347362)	-801.0	NM_001347362	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	15.5	17.0	7.5	368.5	46.5	8.0	23.0	32.5
Merged-chr12-118759768-3	chr12	118759659	118759859	+	776.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Plat_L3|LINE|CR1	-86570.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	6.5	7.0	11.0	194.0	19.5	5.0	7.5	14.0
Merged-chr9-66593147-4	chr9	66593068	66593268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302116)	promoter-TSS (NM_001302116)	-53.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	112.0	173.5	54.0	849.5	375.5	119.0	130.0	116.0
Merged-chr15-78247853-4	chr15	78247743	78247943	+	978.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 1 of 9)	intron (NM_008677, intron 1 of 9)	3032.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	81.5	130.0	85.5	790.5	173.0	58.0	38.5	15.5
Merged-chr15-84680983-3	chr15	84680904	84681104	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146061)	promoter-TSS (NM_146061)	6.0	NM_146061	109270.0	Mm.291372	NM_146061	ENSMUSG00000036106	Prr5	AU043908|Arhgap8|C030017C09Rik|C78947|Protor-1|Protor1	proline rich 5 (renal)	protein-coding	32.5	50.0	27.5	415.5	13.5	6.0	18.5	10.0
Merged-chr19-4113311-4	chr19	4113234	4113434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001276284)	TTS (NM_001276284)	8241.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	85.5	78.5	51.5	854.5	163.5	55.5	45.0	56.0
Merged-chr8-70213202-4	chr8	70213075	70213275	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007570)	promoter-TSS (NM_001007570)	-894.0	NM_001007570	73095.0	Mm.185413	NM_001007570	ENSMUSG00000002346	Slc25a42	2900084M01Rik	solute carrier family 25, member 42	protein-coding	38.0	39.0	10.5	497.0	154.0	49.5	84.0	58.5
Merged-chr14-10209220-4	chr14	10209123	10209323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 5 of 9)	MTD|LTR|ERVL-MaLR	244235.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	33.0	27.5	37.5	649.5	86.0	22.5	34.5	36.0
Merged-chr2-27680715-4	chr2	27680624	27680824	+	906.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	3523.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	13.0	11.0	12.0	202.0	24.5	9.5	10.5	12.0
Merged-chr12-21208428-3	chr12	21208336	21208536	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004364, intron 7 of 26)	intron (NM_001004364, intron 7 of 26)	77848.0	NM_008403	16413.0	Mm.273333	NM_008403	ENSMUSG00000062352	Itgb1bp1	AI449260|AU019480|Icap1	integrin beta 1 binding protein 1	protein-coding	16.0	35.0	25.0	254.5	9.5	0.5	3.0	6.5
Merged-chr12-69184076-4	chr12	69183879	69184079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025589)	promoter-TSS (NM_025589)	88.0	NM_025589	66483.0	Mm.379115	NM_025589	ENSMUSG00000049751	Rpl36al	2410038A03Rik|RPL36A	ribosomal protein L36A-like	protein-coding	97.0	173.0	152.5	1290.0	287.5	93.5	124.0	121.0
Merged-chr11-61843647-3	chr11	61843536	61843736	+	822.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013881, intron 3 of 26)	intron (NM_013881, intron 3 of 26)	11456.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	5.5	9.5	7.5	127.5	20.5	3.5	5.5	6.5
Merged-chr4-63389482-3	chr4	63389383	63389583	+	895.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 4 of 21)	intron (NM_001045514, intron 4 of 21)	8757.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	7.5	12.0	16.0	100.5	35.0	3.5	11.5	8.0
Merged-chr9-25175392-4	chr9	25175281	25175481	+	877.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23600.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	16.0	13.5	10.5	225.0	37.5	12.0	15.0	12.0
Merged-chr15-77801378-4	chr15	77801272	77801472	+	740.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	40803.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	11.0	8.5	12.5	99.0	22.5	8.5	10.5	10.0
Merged-chr4-133928937-6	chr4	133928821	133929021	+	981.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	39070.0	NM_016957	15331.0	Mm.319660	NM_016957	ENSMUSG00000003038	Hmgn2	HMG-17|Hmg17	high mobility group nucleosomal binding domain 2	protein-coding	8.5	13.5	6.0	252.0	25.5	11.0	10.0	16.5
Merged-chr7-136065897-1	chr7	136065797	136065997	+	865.5	f0_balb.idr	Intergenic	Intergenic	-202427.0	NR_102277	77383.0	Mm.227745	NR_102277	ENSMUSG00000110027	C030029H02Rik	-	RIKEN cDNA C030029H02 gene	ncRNA	22.5	27.0	8.5	145.5	0.0	4.5	6.5	1.0
Merged-chr7-63941723-4	chr7	63941618	63941818	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2803.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	16.0	50.0	20.5	191.0	79.5	34.0	38.0	19.0
Merged-chr11-60803887-3	chr11	60803800	60804000	+	612.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009171, intron 3 of 11)	PB1|SINE|Alu	7365.0	NM_009171	20425.0	Mm.364956	NM_009171	ENSMUSG00000020534	Shmt1	AI324848|AI385541|C81125|Shmt|mshmt|mshmt1|mshmt2	serine hydroxymethyltransferase 1 (soluble)	protein-coding	7.0	12.5	6.0	12.5	24.0	11.0	3.5	11.5
Merged-chr1-131561572-2	chr1	131561472	131561672	+	774.791626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	33669.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	5.0	7.5	5.5	79.5	6.0	8.5	6.0	11.5
Merged-chr14-121000736-3	chr14	121000598	121000798	+	867.0499880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-34876.0	NM_134082	223254.0	Mm.223980	NM_134082	ENSMUSG00000025555	Farp1	AW228844|BC030329|Cdep	FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)	protein-coding	1.0	1.0	2.5	42.5	23.5	11.5	14.0	21.5
Merged-chr4-57956459-4	chr4	57956356	57956556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011660)	promoter-TSS (NM_011660)	-45.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	278.5	519.0	350.0	4424.5	783.0	292.5	397.5	270.0
Merged-chr12-79612943-4	chr12	79612852	79613052	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	311781.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	17.5	29.0	5.5	176.5	37.0	13.0	12.5	17.0
Merged-chr3-121184689-3	chr3	121184578	121184778	+	968.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12983.0	NM_025637	66568.0	Mm.263163	NM_025637	ENSMUSG00000028133	Rwdd3	2510027J23Rik|3110037C01Rik|AI035684|AI662458|Rsume|X2CR1	RWD domain containing 3	protein-coding	5.0	13.5	5.0	212.5	16.0	4.0	9.0	10.5
Merged-chr15-97949835-4	chr15	97949716	97949916	+	966.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14413.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	19.0	31.0	12.5	240.0	48.5	11.0	30.5	18.5
Merged-chr14-63122645-4	chr14	63122522	63122722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	CpG	160.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	180.0	266.5	207.0	2718.5	430.5	190.0	235.5	223.5
Merged-chr10-51450607-2	chr10	51450507	51450707	+	774.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-30005.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	2.5	6.5	4.5	96.5	30.0	6.0	9.5	5.0
Merged-chr16-62854333-4	chr16	62854242	62854442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011173)	promoter-TSS (NM_011173)	35.0	NM_011173	19128.0	Mm.127156	NM_011173	ENSMUSG00000022912	Pros1	AW214361	protein S (alpha)	protein-coding	62.0	57.0	55.0	791.5	117.5	56.5	71.5	51.0
Merged-chr12-71136566-4	chr12	71136486	71136686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029818)	promoter-TSS (NM_029818)	89.0	NM_001024853	30056.0	Mm.207767	NM_013896	ENSMUSG00000021079	Timm9	2810011L15Rik|Tim10a|Timm10	translocase of inner mitochondrial membrane 9	protein-coding	29.5	44.5	31.0	314.0	38.5	9.0	25.0	15.0
Merged-chr12-75449094-4	chr12	75449017	75449217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32336.0	NM_175644	217674.0	Mm.252250	NM_175644	ENSMUSG00000048982	Gphb5	OGH|Zlut1	glycoprotein hormone beta 5	protein-coding	37.0	43.0	29.5	744.5	66.5	23.5	30.0	27.5
Merged-chr3-84443070-1	chr3	84442970	84443170	+	741.5	f0_balb.idr	3' UTR (NM_001205355, exon 12 of 12)	3' UTR (NM_001205355, exon 12 of 12)	36421.0	NM_001205355	229474.0	Mm.331107	NM_001033301	ENSMUSG00000041842	Fhdc1	6330505N24Rik|Gm126	FH2 domain containing 1	protein-coding	6.5	9.5	14.0	137.0	0.0	2.0	2.5	10.0
Merged-chr8-68278477-4	chr8	68278376	68278576	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028182, intron 1 of 8)	intron (NM_028182, intron 1 of 8)	1948.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	10.5	16.5	2.0	83.5	43.0	16.0	8.5	6.5
Merged-chr14-103363322-4	chr14	103363232	103363432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16532.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	29.0	22.0	27.5	403.0	73.5	30.5	24.5	23.5
Merged-chr6-43655053-4	chr6	43654953	43655153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	intron (NM_013861, intron 2 of 8)	11225.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	58.0	42.5	53.0	1019.0	76.0	29.0	37.0	25.0
Merged-chr16-24487844-4	chr16	24487751	24487951	+	906.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 3 of 12)	intron (NM_178665, intron 3 of 12)	39760.0	NM_001145952	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	10.0	25.0	11.5	301.5	24.0	18.5	14.0	14.0
Merged-chr15-5237611-2	chr15	5237511	5237711	+	775.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136079, intron 2 of 2)	intron (NM_001136079, intron 2 of 2)	6576.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	0.0	3.5	0.0	71.5	14.5	5.5	5.0	9.0
Merged-chr16-95752704-4	chr16	95752601	95752801	+	966.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50294.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	25.5	46.5	23.5	312.0	61.5	10.5	45.5	22.5
Merged-chr9-113704924-3	chr9	113704842	113705042	+	931.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164678, intron 1 of 17)	intron (NM_001164678, intron 1 of 17)	3317.0	NM_001164678	18571.0	Mm.29816	NM_011052	ENSMUSG00000032504	Pdcd6ip	AI480591|AW544830|Aip1|Alix|C76364|Eig2|mKIAA1375	programmed cell death 6 interacting protein	protein-coding	7.0	6.5	9.0	128.0	9.5	6.5	3.5	10.5
Merged-chr5-122602451-3	chr5	122602398	122602598	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009879, intron 6 of 18)	intron (NM_009879, intron 6 of 18)	12046.0	NM_001358919	12589.0	Mm.10125	NM_009879	ENSMUSG00000029469	Ift81	AW060663|Cdv-1|Cdv-1r|Cdv1	intraflagellar transport 81	protein-coding	4.5	0.0	1.0	0.0	65.0	28.5	34.5	18.0
Merged-chr17-88552149-4	chr17	88552078	88552278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 7 of 21)	intron (NM_028658, intron 7 of 21)	22054.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	37.5	61.5	61.0	804.0	83.0	38.0	44.5	40.5
Merged-chr3-133091824-4	chr3	133091714	133091914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027927)	promoter-TSS (NM_027927)	11.0	NM_026231	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	86.5	140.0	72.0	1225.5	276.0	80.0	99.0	85.5
Merged-chr1-155091502-4	chr1	155091410	155091610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8126.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	152.5	176.0	130.0	2079.0	268.5	125.0	135.5	140.0
Merged-chr17-56990265-4	chr17	56990182	56990382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017393)	promoter-TSS (NM_017393)	18.0	NM_017393	53895.0	Mm.287892	NM_017393	ENSMUSG00000002660	Clpp	AU019820|D17Wsu160e	caseinolytic mitochondrial matrix peptidase proteolytic subunit	protein-coding	106.0	133.5	53.0	1532.5	240.0	100.0	148.5	101.0
Merged-chr7-97581007-4	chr7	97580918	97581118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081267, intron 1 of 15)	intron (NM_001081267, intron 1 of 15)	1122.0	NM_001081267	233532.0	Mm.43977	NM_001081267	ENSMUSG00000035623	Rsf1	4832420A03Rik|C030033M12Rik|Gm164|Hbxap|XAP8|p325	remodeling and spacing factor 1	protein-coding	54.0	62.0	51.5	728.0	51.5	20.0	39.5	34.0
Merged-chr5-24453038-4	chr5	24452957	24453157	+	826.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359881, intron 1 of 15)	intron (NM_001359881, intron 1 of 15)	880.0	NM_139153	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	7.5	4.5	7.0	146.0	24.5	9.5	8.0	21.0
Merged-chr6-83689590-4	chr6	83689508	83689708	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11751.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	9.0	34.0	35.5	303.0	46.0	16.0	15.0	6.5
Merged-chr10-10460332-3	chr10	10460234	10460434	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	L1MEd|LINE|L1	11980.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	5.5	3.0	1.0	85.5	233.0	57.5	64.0	26.5
Merged-chr8-115427592-4	chr8	115427502	115427702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	279292.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	78.5	96.5	53.5	725.0	120.5	58.5	60.0	48.0
Merged-chr3-59241754-4	chr3	59241665	59241865	+	960.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 20 of 43)	intron (NM_177855, intron 20 of 43)	21220.0	NM_027571	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	41.0	40.0	15.0	420.0	35.5	22.5	20.0	13.0
Merged-chr7-125618190-4	chr7	125618083	125618283	+	939.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021887, intron 1 of 8)	intron (NM_021887, intron 1 of 8)	14754.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	18.0	18.0	53.0	745.5	36.0	17.0	29.5	15.0
Merged-chr15-96568498-4	chr15	96568400	96568600	+	967.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR37-int|LTR|ERV1	73462.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	22.0	23.0	23.5	391.0	39.5	13.0	13.5	18.5
Merged-chr2-24355565-4	chr2	24355471	24355671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10200.0	NM_001039701	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	22.5	34.0	35.5	390.0	39.0	20.5	37.5	28.0
Merged-chr7-7210018-4	chr7	7209910	7210110	+	969.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145577)	promoter-TSS (NM_145577)	-12.0	NM_145577	232855.0	Mm.360403	NM_145577	ENSMUSG00000066838	Zfp772	-	zinc finger protein 772	protein-coding	28.0	36.0	21.5	237.0	83.0	22.0	35.0	19.5
Merged-chr11-108343240-3	chr11	108343064	108343264	+	830.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 1 of 16)	CpG	724.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	7.5	7.0	13.0	65.0	12.5	0.0	4.5	4.5
Merged-chr13-55063480-3	chr13	55063381	55063581	+	580.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121592, intron 6 of 13)	intron (NR_121592, intron 6 of 13)	30925.0	NM_001359757	20184.0	Mm.259301	NM_011307	ENSMUSG00000025878	Uimc1	9430016E08Rik|D330018D10Rik|D630032M02Rik|RIP110|Rxrip110	ubiquitin interaction motif containing 1	protein-coding	7.5	8.0	9.5	211.5	15.0	4.0	7.0	5.5
Merged-chr12-111122551-2	chr12	111122451	111122651	+	573.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43819.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	3.0	9.0	2.0	36.5	18.0	7.0	6.0	6.0
Merged-chr7-38108471-2	chr7	38108355	38108555	+	951.5	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007633)	promoter-TSS (NM_007633)	-965.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	13.5	9.5	5.0	113.0	19.5	5.0	10.0	7.5
Merged-chr8-125052254-4	chr8	125052163	125052363	+	687.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-int|LTR|ERVL	-1932.0	NM_174853	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	9.0	13.0	9.5	64.5	31.5	2.5	6.5	8.0
Merged-chr9-99183472-4	chr9	99183367	99183567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-43256.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	123.5	243.0	130.0	1912.5	370.0	141.5	155.0	98.5
Merged-chr5-139379193-4	chr5	139379092	139379292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033147, exon 1 of 1)	non-coding (NR_033147, exon 1 of 1)	-1447.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	35.5	41.5	25.5	683.5	62.5	15.0	22.0	25.5
Merged-chr8-83736171-4	chr8	83736096	83736296	+	845.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	RLTR11A2|LTR|ERVK	5115.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	7.0	20.0	9.5	113.0	49.5	14.0	10.5	5.5
Merged-chr2-167230747-4	chr2	167230637	167230837	+	868.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008968, intron 1 of 9)	intron (NM_008968, intron 1 of 9)	9800.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	17.5	19.0	8.0	119.0	42.5	10.0	11.0	7.5
Merged-chr8-56324375-1	chr8	56324275	56324475	+	707.0	f0_balb.idr	Intergenic	Intergenic	29823.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	14.0	7.0	11.5	113.5	6.5	4.0	2.5	0.5
Merged-chr4-48045083-4	chr4	48045005	48045205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015743)	promoter-TSS (NM_015743)	-200.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	154.0	239.0	133.0	2423.5	450.5	154.5	217.5	206.0
Merged-chr11-101067195-4	chr11	101067113	101067313	+	693.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2881.0	NM_013792	27419.0	Mm.95452	NM_013792	ENSMUSG00000001751	Naglu	-	alpha-N-acetylglucosaminidase (Sanfilippo disease IIIB)	protein-coding	10.0	14.5	9.0	76.0	24.5	9.5	9.5	11.5
Merged-chr12-76676541-3	chr12	76676454	76676654	+	956.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 1 of 35)	intron (NM_013675, intron 1 of 35)	33993.0	NM_013675	20741.0	Mm.32881	NM_013675	ENSMUSG00000021061	Sptb	AI842465|D330027P03Rik|Gm1301|Spnb-1|Spnb1|ja|jaundiced|mKIAA4219	spectrin beta, erythrocytic	protein-coding	22.0	12.5	11.5	326.5	14.0	6.5	8.0	7.5
Merged-chr7-107275045-3	chr7	107274958	107275158	+	726.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID2|SINE|ID	65613.0	NM_029660	76572.0	Mm.128134	NM_029660	ENSMUSG00000073894	Rbmxl2	1700012H05Rik|Hnrnpg-t	RNA binding motif protein, X-linked-like 2	protein-coding	10.0	7.5	16.5	196.0	0.5	1.0	4.0	1.5
Merged-chr7-80015563-4	chr7	80015467	80015667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9247.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	67.0	63.0	42.5	894.0	129.0	64.0	58.0	58.0
Merged-chr5-23978752-3	chr5	23978656	23978856	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053090, intron 10 of 10)	intron (NM_053090, intron 10 of 10)	51556.0	NM_001310471	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	39.5	49.0	47.0	1044.0	19.0	3.5	8.0	3.5
Merged-chr7-25297513-4	chr7	25297310	25297510	+	977.40625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008776, exon 2 of 6)	exon (NM_008776, exon 2 of 6)	545.0	NM_008776	18476.0	Mm.597	NM_008776	ENSMUSG00000005447	Pafah1b3	Pafahg|mus[g]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 3	protein-coding	5.0	6.5	14.5	70.5	14.0	11.0	1.0	7.0
Merged-chr4-45015801-3	chr4	45015704	45015904	+	897.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2805.0	NM_022811	64424.0	Mm.282932	NM_022811	ENSMUSG00000028318	Polr1e	53kDa|AU042259|D030019D19Rik|Paf53|Praf1	polymerase (RNA) I polypeptide E	protein-coding	7.5	7.0	9.5	161.5	49.0	5.5	11.0	13.5
Merged-chr8-66491976-3	chr8	66491863	66492063	+	814.122253	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5433.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	4.5	15.5	6.5	59.5	41.0	15.0	17.5	13.0
Merged-chr3-87488106-4	chr3	87487967	87488167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113238, intron 11 of 11)	intron (NM_001113238, intron 11 of 11)	-37511.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	22.0	20.5	24.5	252.0	62.5	26.0	34.5	33.5
Merged-chr11-99168198-4	chr11	99168100	99168300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13123.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	77.5	185.0	100.0	779.0	278.5	82.5	114.0	61.5
Merged-chr3-51226797-4	chr3	51226608	51226808	+	887.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009834, intron 1 of 2)	intron (NM_009834, intron 1 of 2)	2261.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	3.0	3.0	3.5	69.5	11.0	8.0	8.0	7.5
Merged-chr5-125334803-3	chr5	125334726	125334926	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	6268.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	8.5	14.5	14.5	131.0	5.5	4.0	0.0	2.0
Merged-chr1-106714394-4	chr1	106714291	106714491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177410)	promoter-TSS (NM_177410)	-101.0	NM_177410	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	52.0	75.5	63.5	1342.0	143.5	69.0	83.5	62.5
Merged-chr3-90213703-4	chr3	90213606	90213806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027015)	promoter-TSS (NM_027015)	-9.0	NM_001293741	68328.0	Mm.29355	NM_026677	ENSMUSG00000027935	Rab13	0610007N03Rik|B230212B15Rik	RAB13, member RAS oncogene family	protein-coding	124.5	217.0	100.0	1281.5	319.5	99.5	110.5	101.5
Merged-chr1-144242001-4	chr1	144241895	144242095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	7109.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	40.0	75.0	31.5	313.0	78.0	28.5	27.0	36.0
Merged-chr14-56668210-4	chr14	56668124	56668324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023773)	promoter-TSS (NM_023773)	-24.0	NR_153396	75339.0	Mm.152466	NM_023773	ENSMUSG00000079184	Mphosph8	1500035L22Rik|4930548G07Rik|AU040635	M-phase phosphoprotein 8	protein-coding	249.5	342.0	257.5	3783.0	489.0	181.5	225.0	202.5
Merged-chr5-50059027-4	chr5	50058892	50059092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133911)	promoter-TSS (NM_133911)	4.0	NM_133911	70693.0	Mm.272974	NM_133911	ENSMUSG00000029090	Adgra3	3830613O22Rik|AU044632|Gpr125|Tem5-like	adhesion G protein-coupled receptor A3	protein-coding	75.0	73.0	74.0	1785.0	52.0	18.5	31.5	28.0
Merged-chr10-67115765-4	chr10	67115660	67115860	+	974.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11498.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	26.0	26.5	19.5	266.0	43.5	17.0	12.0	28.0
Merged-chr2-51304915-3	chr2	51304809	51305009	+	850.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63078.0	NR_040636	329404.0	Mm.417725	NR_040636	ENSMUSG00000086349	Gm13497	A730015I17	predicted gene 13497	ncRNA	8.5	23.0	12.0	94.0	16.0	11.0	7.0	7.0
Merged-chr10-80808720-2	chr10	80808620	80808820	+	725.799988	f1_balb.idr|f1_c57bl6.idr	exon (NM_028001, exon 7 of 7)	exon (NM_028001, exon 7 of 7)	3472.0	NM_007445	11705.0	Mm.376094	NM_007445	ENSMUSG00000035262	Amh	MIS	anti-Mullerian hormone	protein-coding	4.0	3.5	4.0	39.0	23.5	10.5	5.5	4.5
Merged-chr6-134919530-2	chr6	134919431	134919631	+	845.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009875)	promoter-TSS (NM_009875)	-870.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	3.0	5.0	2.0	27.5	10.5	6.5	5.0	5.5
Merged-chr9-104039954-4	chr9	104039872	104040072	+	965.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028721, intron 24 of 26)	AT_rich|Low_complexity|Low_complexity	23149.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	14.0	25.5	4.5	120.0	42.0	7.5	14.5	10.0
Merged-chr2-61583118-4	chr2	61582985	61583185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011529, intron 1 of 7)	L1M4|LINE|L1	4499.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	79.5	119.5	62.0	1129.5	157.5	55.5	98.0	61.5
Merged-chr14-75064801-4	chr14	75064706	75064906	+	812.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	48779.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	1.5	5.0	5.0	70.0	30.5	18.0	12.5	11.0
Merged-chr7-43648297-2	chr7	43648197	43648397	+	730.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 5 of 5)	RLTR20B2|LTR|ERVK	11864.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	5.0	7.5	8.0	73.0	15.5	4.5	15.0	5.0
Merged-chr5-121385112-4	chr5	121385008	121385208	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172275, intron 1 of 11)	intron (NM_172275, intron 1 of 11)	301.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	12.0	21.5	4.5	171.0	26.5	12.0	26.5	20.5
Merged-chr13-112800733-4	chr13	112800609	112800809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008247)	promoter-TSS (NM_008247)	-68.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	157.5	192.0	163.0	2713.0	382.0	104.0	193.5	124.0
Merged-chr2-167716046-4	chr2	167715927	167716127	+	884.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24850.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	7.0	11.5	11.0	71.5	11.0	5.5	5.5	9.0
Merged-chr17-24549013-7	chr17	24548897	24549097	+	915.4761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013630)	promoter-TSS (NM_013630)	-953.0	NM_013630	18763.0	Mm.30435	NM_013630	ENSMUSG00000032855	Pkd1	PC1|mFLJ00285	polycystin 1, transient receptor poteintial channel interacting	protein-coding	17.0	14.0	8.5	58.0	24.5	12.5	13.0	14.0
Merged-chr16-90186296-6	chr16	90186149	90186349	+	878.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34493.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	4.5	8.0	10.5	97.0	4.5	3.5	3.0	4.5
Merged-chr6-53064305-4	chr6	53064196	53064396	+	840.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	ORR1E|LTR|ERVL-MaLR	4328.0	NM_173406	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	10.0	20.0	10.5	295.5	22.5	5.0	18.0	13.0
Merged-chr1-151428532-4	chr1	151428415	151428615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025819)	promoter-TSS (NM_025819)	-27.0	NM_026876	98685.0	Mm.289373	NM_026876	ENSMUSG00000053286	Trmt1l	1190005F20Rik|AW226554|C1orf25|Trm1-like|Trm1l	tRNA methyltransferase 1 like	protein-coding	333.5	530.0	317.5	5264.0	651.5	302.5	351.5	305.5
Merged-chr7-142363277-3	chr7	142363171	142363371	+	896.3666380000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347541, intron 2 of 2)	intron (NM_001347541, intron 2 of 2)	8988.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	6.0	0.0	1.0	12.0	66.5	37.5	37.0	30.0
Merged-chr17-31057988-9	chr17	31057875	31058075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 1 of 14)	CpG	281.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	28.5	53.0	42.0	407.5	52.5	23.0	34.5	39.5
Merged-chr2-91187620-4	chr2	91187420	91187620	+	721.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355279, intron 7 of 9)	intron (NM_001355279, intron 7 of 9)	-4473.0	NM_145527	228355.0	Mm.36410	NM_145527	ENSMUSG00000040687	Madd	9630059K23Rik|IG20	MAP-kinase activating death domain	protein-coding	3.0	2.0	3.5	57.0	5.5	6.5	4.5	14.5
Merged-chr1-131364610-4	chr1	131364513	131364713	+	961.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	intron (NM_001081011, intron 4 of 22)	-85050.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	17.0	40.0	23.5	130.0	44.0	18.5	5.0	7.5
Merged-chr9-63758168-4	chr9	63758071	63758271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016769)	promoter-TSS (NM_016769)	-177.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	121.5	198.5	175.0	1842.0	280.5	120.5	146.5	109.0
Merged-chr17-71254892-4	chr17	71254813	71255013	+	809.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 7 of 7)	intron (NM_001357337, intron 7 of 7)	50259.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	7.5	13.5	6.0	57.5	16.5	12.0	5.5	19.5
Merged-chr11-32205310-4	chr11	32205174	32205374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030093)	promoter-TSS (NM_030093)	-141.0	NM_030093	78372.0	Mm.29952	NM_030093	ENSMUSG00000040767	Snrnp25	3300001G02Rik|AL033324|C16ORF33	small nuclear ribonucleoprotein 25 (U11/U12)	protein-coding	190.5	204.5	139.0	2858.5	377.0	171.0	261.5	144.0
Merged-chr19-4305230-2	chr19	4305130	4305330	+	996.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_130863, intron 1 of 21)	intron (NM_130863, intron 1 of 21)	992.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	6.0	7.5	8.0	26.0	12.0	1.5	7.0	2.5
Merged-chr14-118925452-1	chr14	118925352	118925552	+	672.666687	f0_balb.idr	promoter-TSS (NM_025943)	promoter-TSS (NM_025943)	18.0	NM_025943	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	4.5	17.0	10.5	125.5	7.5	4.5	7.0	8.5
Merged-chr13-6471838-4	chr13	6471753	6471953	+	872.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76304.0	NM_145131	69617.0	Mm.41933	NM_145131	ENSMUSG00000021193	Pitrm1	2310012C15Rik|AA410010|MP-1|MP1|Ntup1|PreP|mKIAA1104	pitrilysin metallepetidase 1	protein-coding	18.5	10.0	4.0	150.5	26.5	9.5	18.5	9.0
Merged-chr11-3514801-4	chr11	3514720	3514920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_053267, exon 1 of 5)	5' UTR (NM_053267, exon 1 of 5)	136.0	NM_053267	114679.0	Mm.34046	NM_053267	ENSMUSG00000075702	Selenom	1500040L08Rik|A230103K18|Selm|Sepm	selenoprotein M	protein-coding	41.5	65.0	55.5	770.5	75.0	21.0	37.5	35.0
Merged-chr8-116627356-4	chr8	116627267	116627467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 1 of 6)	Lx8|LINE|L1	105624.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	43.0	51.5	26.5	481.0	130.5	43.0	35.0	40.0
Merged-chr10-81366239-4	chr10	81366121	81366321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014836)	promoter-TSS (NM_001014836)	-401.0	NM_001014836	432479.0	Mm.440450	NM_001014836	ENSMUSG00000020234	4930404N11Rik	2210409H10Rik|5730551K18Rik|AI854616	RIKEN cDNA 4930404N11 gene	protein-coding	44.0	66.5	33.5	635.5	69.0	27.0	64.0	34.0
Merged-chr12-85596394-2	chr12	85596291	85596491	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2714.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	26.5	33.0	9.0	242.5	54.5	22.5	24.0	15.5
Merged-chr16-36627036-4	chr16	36626943	36627143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 2 of 7)	intron (NM_019388, intron 2 of 7)	39034.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	150.0	241.0	176.5	2375.5	363.5	113.5	223.5	128.5
Merged-chr10-84087747-4	chr10	84087629	84087829	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152790, intron 1 of 4)	intron (NR_152790, intron 1 of 4)	12968.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	7.0	21.0	25.5	446.5	28.5	19.5	32.0	16.5
Merged-chr19-28975467-3	chr19	28975365	28975565	+	858.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11311.0	NM_198651	381218.0	Mm.280653	NM_198651	ENSMUSG00000064202	4430402I18Rik	AW122618|Spata6l	RIKEN cDNA 4430402I18 gene	protein-coding	11.0	10.5	11.0	67.5	14.0	6.0	8.5	5.0
Merged-chr10-121471756-4	chr10	121471676	121471876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	4474.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	55.5	55.0	94.5	1296.5	74.5	16.5	35.0	51.5
Merged-chr5-59854992-4	chr5	59854899	59855099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131003.0	NR_040683	71057.0	Mm.50817	NR_040682	ENSMUSG00000106013	4933402J10Rik	-	RIKEN cDNA 4933402J10 gene	ncRNA	31.5	27.0	20.5	618.0	85.5	28.5	27.5	29.5
Merged-chr18-61401863-4	chr18	61401759	61401959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1428.0	NM_133249	170826.0	Mm.415302	NM_133249	ENSMUSG00000033871	Ppargc1b	4631412G21Rik|Perc	peroxisome proliferative activated receptor, gamma, coactivator 1 beta	protein-coding	57.0	49.0	34.5	702.5	84.5	18.5	44.0	22.5
Merged-chr7-125546526-3	chr7	125546431	125546631	+	906.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-5751.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	5.0	3.0	1.0	57.0	37.0	11.0	13.0	12.0
Merged-chr7-43530554-4	chr7	43530451	43530651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111058, intron 3 of 6)	intron (NM_001111058, intron 3 of 6)	2620.0	NM_001111058	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	142.0	164.0	180.0	1693.5	295.5	106.0	125.0	93.5
Merged-chr1-172426976-4	chr1	172426879	172427079	+	976.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-48381.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	16.5	23.5	20.5	322.5	64.0	28.0	15.5	20.5
Merged-chr2-125782112-2	chr2	125782013	125782213	+	789.233337	f1_balb.idr|f1_c57bl6.idr	intron (NM_177608, intron 1 of 17)	intron (NM_177608, intron 1 of 17)	757.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	4.0	4.5	7.0	33.5	13.0	5.5	6.0	18.5
Merged-chr7-145089412-4	chr7	145089301	145089501	+	904.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	118718.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	12.5	19.0	14.0	290.0	26.5	12.5	10.0	16.5
Merged-chr6-90740850-4	chr6	90740749	90740949	+	788.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	intron (NM_001356440, intron 1 of 13)	-24320.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	11.0	8.0	5.0	107.5	16.5	1.5	10.5	12.5
Merged-chr1-161497492-4	chr1	161497405	161497605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183391, intron 1 of 2)	MIR|SINE|MIR	2848.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	46.5	77.5	52.0	853.0	126.0	47.5	48.0	63.0
Merged-chr1-183273278-4	chr1	183273098	183273298	+	829.674988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	-23862.0	NM_181732	108909.0	Mm.290502	NM_145626	ENSMUSG00000042901	Aida	2610208M17Rik|BC004835	axin interactor, dorsalization associated	protein-coding	4.0	12.0	5.5	111.5	15.0	6.5	8.5	7.0
Merged-chr5-125440745-4	chr5	125440645	125440845	+	956.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029752)	promoter-TSS (NM_029752)	-823.0	NM_001359486	76809.0	Mm.290720	NM_029752	ENSMUSG00000037905	Bri3bp	2410150I18Rik|AI841257|AW742481	Bri3 binding protein	protein-coding	10.5	27.0	15.0	280.5	43.0	12.0	22.5	18.0
Merged-chr10-125331552-4	chr10	125331453	125331653	+	926.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2590.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	31.5	16.5	36.5	580.0	41.0	9.0	33.0	18.5
Merged-chr8-61928136-4	chr8	61928043	61928243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293783)	promoter-TSS (NM_001293783)	56.0	NM_001293783	234311.0	Mm.275233	NM_144928	ENSMUSG00000037921	Ddx60	9830118M07	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	protein-coding	42.0	56.5	24.5	504.5	99.0	39.0	41.5	30.5
Merged-chr18-4336440-7	chr18	4336357	4336557	+	989.5064699999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 5 of 7)	intron (NM_007746, intron 5 of 7)	16496.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	18.0	36.5	13.0	217.0	34.0	12.0	12.5	18.0
Merged-chr6-136684282-2	chr6	136684155	136684355	+	885.0	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-22362.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	4.0	4.0	2.0	74.0	27.5	6.0	25.5	18.0
Merged-chr11-86816393-2	chr11	86816293	86816493	+	904.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR6_Mm|LTR|ERV1	-8733.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	5.0	4.5	6.0	95.0	5.5	3.0	1.5	6.5
Merged-chr15-78245657-5	chr15	78245520	78245720	+	830.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 1 of 9)	intron (NM_008677, intron 1 of 9)	809.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	6.5	5.0	5.0	17.0	6.5	6.0	2.5	3.0
Merged-chr3-116865577-4	chr3	116865480	116865680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009146, intron 1 of 16)	(TCTG)n|Simple_repeat|Simple_repeat	3900.0	NM_009146	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	58.0	94.0	53.5	704.0	152.5	69.0	59.5	67.5
Merged-chr15-102225567-4	chr15	102225441	102225641	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013566, intron 2 of 14)	intron (NM_013566, intron 2 of 14)	6394.0	NM_013566	16421.0	Mm.58	NM_013566	ENSMUSG00000001281	Itgb7	Ly69	integrin beta 7	protein-coding	13.5	13.5	9.5	126.0	38.0	10.5	7.5	15.0
Merged-chr10-10408342-4	chr10	10408246	10408446	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 13 of 36)	intron (NM_001127353, intron 13 of 36)	63968.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	31.0	33.5	22.5	451.5	63.5	21.0	26.0	19.5
Merged-chr17-64201832-4	chr17	64201727	64201927	+	906.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	130056.0	NM_144859	224938.0	Mm.489681	NM_144859	ENSMUSG00000024083	Pja2	AI447901|AL022700|Neurodap1|mKIAA0438	praja ring finger ubiquitin ligase 2	protein-coding	10.0	10.0	19.0	416.0	39.0	9.5	24.0	24.5
Merged-chr13-105341000-4	chr13	105340883	105341083	+	785.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46498.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	13.5	15.5	14.5	380.5	28.0	7.0	13.0	16.0
Merged-chr10-89443333-4	chr10	89443253	89443453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079876, intron 1 of 10)	intron (NM_001079876, intron 1 of 10)	614.0	NM_001284344	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	255.5	375.5	336.5	4603.0	637.5	240.5	280.5	256.0
Merged-chr10-78087306-4	chr10	78087179	78087379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17911.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	106.5	134.5	90.5	1455.5	220.0	81.5	97.0	87.5
Merged-chr4-140988804-4	chr4	140988729	140988929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164366, intron 1 of 28)	intron (NM_001164366, intron 1 of 28)	1956.0	NM_001164366	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	114.5	165.0	94.0	1949.5	189.0	74.5	101.0	110.0
Merged-chr5-112281931-4	chr5	112281788	112281988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	MER44B|DNA|TcMar-Tigger	5197.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	38.5	45.0	47.5	850.5	31.0	21.0	16.0	25.0
Merged-chr18-20896443-4	chr18	20896339	20896539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029491)	promoter-TSS (NM_029491)	-361.0	NM_177038	75964.0	Mm.273769	NM_029491	ENSMUSG00000033382	Trappc8	5033403J15Rik|AI845423|D030074E01Rik|Trs85|mKIAA1012	trafficking protein particle complex 8	protein-coding	145.5	235.0	115.0	2127.0	442.0	170.0	190.5	166.0
Merged-chr17-81518502-4	chr17	81518400	81518600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	219887.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	25.5	45.5	22.5	806.5	78.5	17.0	29.0	30.0
Merged-chr11-70688052-4	chr11	70687980	70688180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178116)	promoter-TSS (NM_178116)	25.0	NM_001190376	216874.0	Mm.473726	NM_178116	ENSMUSG00000040712	Camta2	Kiaa0909-hp|mKIAA0909	calmodulin binding transcription activator 2	protein-coding	70.0	76.5	89.5	1205.5	153.0	51.5	100.5	70.0
Merged-chr11-115413383-4	chr11	115413293	115413493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347645)	TTS (NM_001347645)	6526.0	NM_027862	71679.0	Mm.371641	NM_027862	ENSMUSG00000034566	Atp5h	0610009D10Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit D	protein-coding	61.0	110.0	36.0	646.0	156.5	70.5	60.0	59.0
Merged-chr10-81359052-4	chr10	81358973	81359173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028657, intron 1 of 9)	intron (NM_028657, intron 1 of 9)	1582.0	NM_028657	73822.0	Mm.182281	NM_028657	ENSMUSG00000034854	Mfsd12	C19orf28|F630110N24Rik|Wdt1|gr	major facilitator superfamily domain containing 12	protein-coding	66.0	77.5	38.0	1008.0	105.0	35.0	39.5	53.0
Merged-chr16-91001298-4	chr16	91001183	91001383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045515, intron 2 of 32)	intron (NM_001045515, intron 2 of 32)	9812.0	NM_001045515	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	107.0	149.5	93.5	1136.0	215.0	83.0	99.0	66.5
Merged-chr19-32182032-4	chr19	32181926	32182126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	28987.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	75.0	137.5	115.5	957.0	87.5	33.5	46.0	29.0
Merged-chr5-137025360-3	chr5	137025255	137025455	+	862.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4940.0	NM_001039385	381677.0	Mm.389697	NM_001039385	ENSMUSG00000037428	Vgf	Gm1052	VGF nerve growth factor inducible	protein-coding	5.5	9.0	3.5	40.5	33.5	11.0	7.5	6.5
Merged-chr17-86963237-4	chr17	86963190	86963390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145491, exon 1 of 5)	5' UTR (NM_145491, exon 1 of 5)	179.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	106.5	116.5	71.0	1110.0	239.5	82.5	111.5	71.5
Merged-chr2-167467557-1	chr2	167467457	167467657	+	692.0	f0_balb.idr	intron (NM_001304542, intron 10 of 15)	intron (NM_001304542, intron 10 of 15)	-25088.0	NM_030743	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	5.0	12.5	4.5	104.5	5.0	1.0	0.0	4.0
Merged-chr10-81545317-4	chr10	81545232	81545432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010301)	promoter-TSS (NM_010301)	-286.0	NM_010301	14672.0	Mm.260925	NM_010301	ENSMUSG00000034781	Gna11	Dsk7|E430025L19	guanine nucleotide binding protein, alpha 11	protein-coding	359.0	572.5	289.5	3913.0	767.0	355.0	359.5	322.0
Merged-chr11-72428801-3	chr11	72428702	72428902	+	788.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6724.0	NM_027819	71522.0	Mm.23336	NM_027819	ENSMUSG00000040471	Ggt6	9030405D14Rik|AI427679|AW490214	gamma-glutamyltransferase 6	protein-coding	11.5	10.0	5.5	55.5	18.0	8.5	6.0	12.0
Merged-chr17-78917965-4	chr17	78917860	78918060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177403, intron 1 of 4)	intron (NM_001177403, intron 1 of 4)	1461.0	NM_001177402	68554.0	Mm.391820	NM_001177402	ENSMUSG00000062691	Cebpzos	1110001A16Rik	CCAAT/enhancer binding protein (C/EBP), zeta, opposite strand	protein-coding	88.5	78.0	182.0	2567.5	194.0	44.5	137.0	97.5
Merged-chr1-133132884-4	chr1	133132778	133132978	+	838.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133819, exon 1 of 2)	exon (NM_133819, exon 1 of 2)	1712.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	7.5	24.0	13.5	124.0	17.5	6.0	9.0	20.5
Merged-chr15-64197992-4	chr15	64197879	64198079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 4 of 28)	intron (NM_001276461, intron 4 of 28)	114694.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	82.5	163.0	143.0	2079.0	250.5	74.0	96.5	76.5
Merged-chr7-38019074-4	chr7	38018964	38019164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011274, intron 1 of 10)	CpG	488.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	40.0	52.5	53.0	511.0	93.5	37.0	47.5	66.0
Merged-chr5-76525305-4	chr5	76525206	76525406	+	916.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-4001.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	11.5	15.5	8.5	252.5	51.5	6.0	18.5	17.0
Merged-chr4-135067313-4	chr4	135067209	135067409	+	808.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53336.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	9.5	17.0	5.0	106.5	36.5	13.5	8.0	18.5
Merged-chr8-68062476-4	chr8	68062367	68062567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-87893.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	32.5	34.5	32.5	618.0	66.0	24.5	59.0	37.0
Merged-chr11-109413288-4	chr11	109413175	109413375	+	790.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-12671.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	10.0	35.5	16.0	85.5	53.0	22.0	8.0	11.5
Merged-chr1-162005434-5	chr1	162005340	162005540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040562, exon 2 of 3)	non-coding (NR_040562, exon 2 of 3)	471.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	27.0	48.5	68.0	860.5	121.0	64.5	66.0	53.5
Merged-chr16-75906990-2	chr16	75906890	75907090	+	778.93335	f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 1 of 7)	intron (NM_023380, intron 1 of 7)	2276.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	5.0	10.0	7.0	48.0	23.0	10.5	4.5	4.5
Merged-chr6-39268830-4	chr6	39268710	39268910	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62037.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	25.5	35.0	25.0	490.5	27.5	8.0	17.5	19.5
Merged-chr2-22771554-4	chr2	22771450	22771650	+	787.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2777.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	4.0	15.0	13.5	72.0	65.5	22.5	14.0	7.0
Merged-chr5-125147457-4	chr5	125147393	125147593	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 1 of 46)	intron (NM_011424, intron 1 of 46)	31721.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	7.5	34.0	10.0	107.0	34.5	4.5	8.0	6.0
Merged-chr19-12464882-3	chr19	12464784	12464984	+	880.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010821, exon 2 of 2)	3' UTR (NM_010821, exon 2 of 2)	4105.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	10.0	23.0	8.0	116.0	22.5	15.5	8.5	12.0
Merged-chr11-20561451-3	chr11	20561341	20561541	+	855.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021372, intron 1 of 1)	intron (NM_021372, intron 1 of 1)	18188.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	12.0	13.5	5.5	156.5	11.5	10.0	6.0	6.0
Merged-chr2-3358124-4	chr2	3358032	3358232	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145921, intron 3 of 7)	intron (NM_145921, intron 3 of 7)	8437.0	NM_145921	99035.0	Mm.13808	NM_145921	ENSMUSG00000026645	Olah	AI607300|E230009B14Rik|Thedc1	oleoyl-ACP hydrolase	protein-coding	9.5	34.0	27.0	224.5	36.0	11.0	12.0	11.5
Merged-chr4-149143772-3	chr4	149143683	149143883	+	852.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6183.0	NM_027263	69928.0	Mm.260893	NM_027263	ENSMUSG00000073705	Cenps	2610040C18Rik|2810407L01Rik|Apitd1|CENP-S	centromere protein S	protein-coding	20.5	24.0	10.5	273.0	12.5	3.5	5.5	8.0
Merged-chr3-84842999-4	chr3	84842895	84843095	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 1 of 13)	RLTR31B2|LTR|ERVK	-21150.0	NM_001177774	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	23.5	43.0	18.0	261.5	58.0	14.0	35.5	19.0
Merged-chr1-157445062-3	chr1	157444973	157445173	+	985.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13495.0	NM_001356418	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	12.0	6.0	13.0	177.0	17.5	9.0	11.0	14.5
Merged-chr9-90275561-10	chr9	90275465	90275665	+	958.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-4796.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	13.0	9.5	15.0	159.5	31.5	12.5	20.5	28.5
Merged-chr17-17900964-4	chr17	17900873	17901073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13149.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	231.0	417.5	230.0	3096.0	566.5	220.0	289.0	158.0
Merged-chr7-19308739-4	chr7	19308616	19308816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347586, intron 1 of 4)	CpG	1329.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	224.5	239.5	222.0	3228.5	507.0	239.5	297.5	249.5
Merged-chr2-147023808-4	chr2	147023715	147023915	+	926.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 1 of 28)	intron (NM_001356402, intron 1 of 28)	10816.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	25.0	11.0	22.5	620.0	28.0	11.5	14.5	8.5
Merged-chr10-118104149-3	chr10	118104041	118104241	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	-37646.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	4.5	7.0	10.0	64.0	15.5	4.0	4.0	7.0
Merged-chr1-164088073-4	chr1	164087987	164088187	+	916.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26011.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	17.5	17.0	17.5	159.5	16.0	11.5	17.0	21.0
Merged-chr11-100548284-4	chr11	100548190	100548390	+	917.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 1 of 11)	intron (NM_028918, intron 1 of 11)	2658.0	NM_028918	74407.0	Mm.31590	NM_028918	ENSMUSG00000006784	Ttc25	4933404O19Rik	tetratricopeptide repeat domain 25	protein-coding	19.0	18.0	19.0	269.0	19.5	11.0	20.5	17.0
Merged-chr4-83265783-2	chr4	83265687	83265887	+	772.5	f0_balb.idr|f1_balb.idr	intron (NM_027238, intron 3 of 19)	intron (NM_027238, intron 3 of 19)	58402.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	18.0	19.0	12.0	216.0	11.0	1.5	1.5	1.0
Merged-chr19-41830917-2	chr19	41830817	41831017	+	608.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008043, exon 1 of 1)	exon (NM_008043, exon 1 of 1)	947.0	NM_008043	14296.0	Mm.4573	NM_008043	ENSMUSG00000067199	Frat1	AW060382	frequently rearranged in advanced T cell lymphomas	protein-coding	6.0	10.5	9.0	58.5	11.5	5.5	6.5	10.5
Merged-chr16-38536908-4	chr16	38536792	38536992	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153380, intron 6 of 10)	intron (NR_153380, intron 6 of 10)	13364.0	NR_153380	224143.0	Mm.284366	NM_172380	ENSMUSG00000034064	Poglut1	9630046K23Rik|Clp46|Ktelc1|Rumi|wsnp	protein O-glucosyltransferase 1	protein-coding	12.5	8.5	2.0	109.5	42.5	18.5	13.0	14.0
Merged-chr17-34304916-4	chr17	34304825	34305025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010382)	promoter-TSS (NM_010382)	-942.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	99.5	183.0	87.0	779.5	408.0	151.0	154.5	134.0
Merged-chr7-19217719-4	chr7	19217624	19217824	+	973.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175668, intron 1 of 1)	ID4_|SINE|ID	5186.0	NM_175668	319197.0	Mm.135984	NM_175668	ENSMUSG00000044317	Gpr4	-	G protein-coupled receptor 4	protein-coding	23.0	33.5	41.0	454.0	46.5	11.0	24.0	34.5
Merged-chr15-25773944-4	chr15	25773849	25774049	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001353141)	promoter-TSS (NM_001353141)	-64.0	NM_001353141	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	13.5	36.0	21.5	341.0	48.5	5.0	22.0	15.5
Merged-chr13-24965695-3	chr13	24965584	24965784	+	597.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008156, intron 11 of 25)	ERVB7_2-LTR_MM|LTR|ERVK	22532.0	NM_008156	14756.0	Mm.291831	NM_008156	ENSMUSG00000021340	Gpld1	6330541J12Rik|AW546131	glycosylphosphatidylinositol specific phospholipase D1	protein-coding	9.0	5.5	9.0	61.0	15.0	3.0	7.0	8.0
Merged-chr8-123034321-4	chr8	123034214	123034414	+	939.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	7970.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	27.0	32.5	33.0	249.5	36.5	12.5	13.5	15.5
Merged-chr6-72162374-4	chr6	72162287	72162487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39190.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	117.5	111.5	99.5	1784.0	177.0	72.0	108.5	83.5
Merged-chr15-95885142-3	chr15	95885071	95885271	+	593.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 2 of 19)	intron (NM_175344, intron 2 of 19)	-55099.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	2.5	19.5	8.0	78.5	23.5	5.0	5.5	6.0
Merged-chr5-102070651-4	chr5	102070541	102070741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172882)	promoter-TSS (NM_172882)	-720.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	120.0	138.5	130.0	1898.0	233.0	93.0	131.0	109.0
Merged-chr4-145214618-4	chr4	145214526	145214726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011610, exon 10 of 10)	3' UTR (NM_011610, exon 10 of 10)	-19621.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	31.0	41.5	29.0	360.0	105.5	21.5	59.0	34.5
Merged-chr11-17005095-4	chr11	17004997	17005197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	RSINE1|SINE|B4	3621.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	228.5	259.5	198.0	3315.5	433.5	172.0	267.0	216.0
Merged-chr9-77931069-4	chr9	77930998	77931198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 1 of 7)	intron (NM_134255, intron 1 of 7)	13733.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	45.0	108.0	72.0	975.0	109.5	43.0	40.5	54.5
Merged-chr9-107950942-4	chr9	107950837	107951037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011634)	promoter-TSS (NM_011634)	-26.0	NM_011634	22036.0	Mm.297870	NM_011634	ENSMUSG00000032586	Traip	Trip	TRAF-interacting protein	protein-coding	49.0	35.0	24.5	359.0	62.0	47.5	33.5	30.5
Merged-chr15-73725519-6	chr15	73725408	73725608	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001166388, exon 1 of 6)	5' UTR (NM_001166388, exon 1 of 6)	578.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	8.5	16.5	7.5	102.5	16.0	7.0	13.0	18.5
Merged-chr11-55155221-4	chr11	55155124	55155324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3518.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	68.0	82.0	61.5	992.5	158.0	34.5	70.5	66.0
Merged-chr12-69485823-4	chr12	69485730	69485930	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10280.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	15.5	15.5	17.5	134.5	49.0	12.5	19.0	16.0
Merged-chr13-60736636-4	chr13	60736539	60736739	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 18 of 26)	intron (NM_134062, intron 18 of 26)	49725.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	22.0	30.0	26.5	608.5	50.5	17.5	23.0	30.0
Merged-chr3-88771611-4	chr3	88771481	88771681	+	875.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018804, intron 1 of 3)	intron (NM_018804, intron 1 of 3)	1018.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	17.0	24.5	16.5	61.5	36.5	21.0	10.0	16.5
Merged-chr3-65949675-4	chr3	65949551	65949751	+	808.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019937, intron 5 of 10)	intron (NM_019937, intron 5 of 10)	8598.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	23.5	17.0	8.0	295.5	20.5	21.0	6.0	17.0
Merged-chr6-145803054-4	chr6	145802952	145803152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5331.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	231.5	348.5	267.5	4492.5	517.0	149.0	245.5	241.0
Merged-chr5-125408145-4	chr5	125408051	125408251	+	957.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18134.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	23.0	36.0	15.5	338.0	54.5	13.0	32.5	26.0
Merged-chr17-24455389-4	chr17	24455336	24455536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007893)	promoter-TSS (NM_007893)	-44.0	NR_125990	13560.0	Mm.163132	NM_007893	ENSMUSG00000024137	E4f1	p120E4F|phi-AP3	E4F transcription factor 1	protein-coding	137.5	228.0	131.5	1609.0	371.5	168.0	133.0	152.0
Merged-chr3-144048053-4	chr3	144047941	144048141	+	953.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154291.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	36.0	65.5	18.0	180.5	79.0	48.5	24.5	17.5
Merged-chr11-32650548-4	chr11	32650448	32650648	+	975.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	7993.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	18.5	32.0	12.0	168.5	49.5	19.0	26.5	28.5
Merged-chr3-50406125-4	chr3	50406038	50406238	+	961.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 6 of 11)	intron (NM_011990, intron 6 of 11)	37475.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	57.5	52.5	72.0	825.5	29.5	18.0	35.5	34.5
Merged-chr9-25155972-4	chr9	25155871	25156071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-4190.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	35.5	58.5	37.0	963.5	120.0	34.0	49.5	60.5
Merged-chr17-32284767-4	chr17	32284692	32284892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198094)	promoter-TSS (NM_198094)	-659.0	NM_020508	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	36.5	39.0	30.5	306.5	84.5	40.5	48.0	36.5
Merged-chr2-78050078-4	chr2	78049987	78050187	+	940.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1090.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	5.5	14.5	12.5	197.5	31.5	18.0	1.5	16.5
Merged-chr9-66593579-3	chr9	66593495	66593695	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302116)	promoter-TSS (NM_001302116)	-480.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	25.5	22.5	17.0	223.0	45.5	16.5	17.5	9.5
Merged-chr13-85189925-3	chr13	85189845	85190045	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023243, intron 1 of 8)	intron (NM_023243, intron 1 of 8)	560.0	NM_023243	66671.0	Mm.18474	NM_023243	ENSMUSG00000021548	Ccnh	6330408H09Rik|AI661354|AV102684|AW538719	cyclin H	protein-coding	30.5	31.5	44.0	343.5	62.5	28.5	23.0	29.0
Merged-chr9-99165030-4	chr9	99164932	99165132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24821.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	27.0	20.0	28.0	489.0	74.0	23.5	26.5	28.5
Merged-chr2-102900506-4	chr2	102900459	102900659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	1106.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	12.5	46.0	16.0	222.5	33.5	26.5	32.0	26.5
Merged-chr16-94618698-4	chr16	94618585	94618785	+	795.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 2 of 11)	RSINE1|SINE|B4	7266.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	10.5	17.5	9.0	122.0	41.0	9.5	28.5	8.5
Merged-chr1-140183316-4	chr1	140183166	140183366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009888, exon 1 of 22)	exon (NM_009888, exon 1 of 22)	145.0	NM_009888	12628.0	Mm.8655	NM_009888	ENSMUSG00000026365	Cfh	Mud-1|NOM|Sas-1|Sas1	complement component factor h	protein-coding	99.5	89.5	104.5	1730.0	111.5	41.5	67.5	57.0
Merged-chr9-44326716-6	chr9	44326583	44326783	+	991.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007875)	promoter-TSS (NM_007875)	-162.0	NM_007875	13478.0	Mm.18353	NM_007875	ENSMUSG00000032123	Dpagt1	AU021132|Dpagt2|GPT|Gnpta	dolichyl-phosphate (UDP-N-acetylglucosamine) acetylglucosaminephosphotransferase 1 (GlcNAc-1-P transferase)	protein-coding	11.0	19.0	27.0	202.0	35.0	18.0	14.5	25.0
Merged-chr10-99211690-4	chr10	99211616	99211816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51515.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	93.5	158.0	122.5	1427.5	231.5	93.5	109.5	101.0
Merged-chr13-64126138-4	chr13	64126030	64126230	+	804.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001321, intron 1 of 11)	MTD|LTR|ERVL-MaLR	3200.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	2.5	2.0	10.0	117.0	27.5	8.0	28.0	31.0
Merged-chr5-132467218-1	chr5	132467118	132467318	+	1000.0	f0_balb.idr	intron (NM_177047, intron 1 of 19)	intron (NM_177047, intron 1 of 19)	75125.0	NM_177047	319974.0	Mm.409595	NM_177047	ENSMUSG00000029673	Auts2	2700063G02Rik|A730011F23Rik|D830032G16Rik	autism susceptibility candidate 2	protein-coding	38.0	8.5	14.0	315.0	1.5	0.0	0.0	0.5
Merged-chr9-118868025-4	chr9	118867920	118868120	+	960.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 9 of 13)	intron (NM_001113514, intron 9 of 13)	-58516.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	16.0	43.0	28.0	525.0	44.0	14.5	37.0	21.0
Merged-chr13-20208279-4	chr13	20208182	20208382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 3 of 21)	intron (NM_080288, intron 3 of 21)	117775.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	96.5	89.5	117.0	1530.5	215.0	71.5	97.5	110.0
Merged-chr14-64834699-4	chr14	64834619	64834819	+	953.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 6 of 9)	intron (NM_177338, intron 6 of 9)	115138.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	32.5	20.5	29.0	442.5	53.0	18.0	21.5	19.0
Merged-chr19-21785941-4	chr19	21785845	21786045	+	904.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031997, intron 2 of 24)	intron (NM_031997, intron 2 of 24)	7605.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	43.5	21.0	20.0	429.0	30.5	9.5	12.0	11.0
Merged-chr3-9466433-3	chr3	9466337	9466537	+	943.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 4 of 8)	intron (NM_133218, intron 4 of 8)	63359.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	7.0	14.5	16.5	182.0	22.0	8.0	9.0	4.0
Merged-chr14-75168694-4	chr14	75168620	75168820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	MLTR11B|LTR|ERVK	32295.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	37.0	34.0	33.0	827.0	75.0	26.0	56.0	23.5
Merged-chr2-77280277-4	chr2	77280184	77280384	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 1 of 17)	CpG	308.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	8.5	28.5	27.0	188.0	48.5	25.0	21.0	25.5
Merged-chr4-101155743-4	chr4	101155656	101155856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 22 of 24)	intron (NM_146145, intron 22 of 24)	86718.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	98.0	146.0	121.5	1718.5	208.5	78.5	107.0	106.0
Merged-chr11-57517208-4	chr11	57517065	57517265	+	818.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026342, intron 1 of 13)	MTE2a|LTR|ERVL-MaLR	1479.0	NM_001168667	67726.0	Mm.25632	NM_026342	ENSMUSG00000020523	Fam114a2	1810073G14Rik|9030624B09Rik	family with sequence similarity 114, member A2	protein-coding	3.0	6.0	4.5	123.0	21.5	4.5	9.5	7.5
Merged-chr19-42779795-4	chr19	42779738	42779938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001346703, exon 1 of 20)	5' UTR (NM_001346703, exon 1 of 20)	140.0	NM_001346703	192236.0	Mm.218381	NM_019424	ENSMUSG00000025188	Hps1	6030422N11Rik|BB405864|Gm21361|Hps|ep	HPS1, biogenesis of lysosomal organelles complex 3 subunit 1	protein-coding	115.0	156.0	160.5	1461.0	263.5	116.0	114.0	126.5
Merged-chr18-35941739-2	chr18	35941639	35941839	+	911.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23091.0	NM_001289602	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	10.5	5.0	4.5	46.0	4.5	4.5	3.5	1.5
Merged-chr3-88058414-4	chr3	88058304	88058504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144897)	promoter-TSS (NM_144897)	91.0	NM_144897	246703.0	Mm.205996	NM_144897	ENSMUSG00000028070	Naxe	AA087124|AI-BP|AIBP|Apoa1bp|Apoa1ip|ESTM37	NAD(P)HX epimerase	protein-coding	50.0	63.0	77.5	649.5	90.0	47.0	32.5	58.0
Merged-chr17-34647100-4	chr17	34647004	34647204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017406)	promoter-TSS (NM_017406)	-42.0	NM_017406	12915.0	Mm.4068	NM_017406	ENSMUSG00000015461	Atf6b	AA617266|ATF6beta|Creb-rp|Crebl1	activating transcription factor 6 beta	protein-coding	170.0	288.0	96.0	2278.0	480.0	191.0	215.5	169.5
Merged-chr2-160366262-2	chr2	160366162	160366362	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_010658, exon 1 of 1)	exon (NM_010658, exon 1 of 1)	803.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	34.5	61.0	38.5	324.5	56.5	35.5	26.5	26.5
Merged-chr15-51990621-1	chr15	51990521	51990721	+	583.0	f0_balb.idr	intron (NM_009009, intron 1 of 13)	intron (NM_009009, intron 1 of 13)	1139.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	10.0	7.0	11.0	98.0	9.5	3.5	2.0	9.5
Merged-chr19-59075736-4	chr19	59075636	59075836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175172, exon 1 of 15)	5' UTR (NM_175172, exon 1 of 15)	333.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	18.5	20.5	41.0	347.0	44.5	18.5	20.5	14.5
Merged-chr12-78868304-4	chr12	78868192	78868392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026114, intron 2 of 7)	RLTR35B_MM|LTR|ERVL	6220.0	NM_026114	13665.0	Mm.196220	NM_026114	ENSMUSG00000021116	Eif2s1	0910001O23Rik|2410026C18Rik|35kDa|Eif2a|eIF2alpha	eukaryotic translation initiation factor 2, subunit 1 alpha	protein-coding	71.0	78.5	47.5	886.0	122.5	44.5	61.0	54.0
Merged-chr4-93511033-4	chr4	93510927	93511127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175516.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	44.0	39.0	28.0	675.0	131.5	40.0	74.5	34.0
Merged-chr2-12317576-4	chr2	12317473	12317673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15629.0	NM_001001309	241226.0	Mm.329997	NM_001001309	ENSMUSG00000026768	Itga8	AI447669	integrin alpha 8	protein-coding	119.0	115.0	166.5	2171.0	263.0	92.5	188.5	120.5
Merged-chr6-88813090-4	chr6	88812990	88813190	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166249, intron 5 of 7)	intron (NM_001166249, intron 5 of 7)	28845.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	32.0	38.0	8.0	284.0	85.5	32.0	29.0	30.0
Merged-chr15-36518018-4	chr15	36517915	36518115	+	976.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025712, intron 11 of 13)	B3|SINE|B2	-21224.0	NM_175134	68839.0	Mm.396537	NM_175134	ENSMUSG00000048307	Ankrd46	1110054N06Rik|AI314978|AI987733	ankyrin repeat domain 46	protein-coding	9.0	28.5	12.5	264.5	70.0	7.0	18.0	22.0
Merged-chr8-26978086-4	chr8	26977987	26978187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101502, intron 1 of 1)	CpG	751.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	38.0	62.0	60.5	725.5	140.0	39.0	66.0	62.5
Merged-chr8-85298709-4	chr8	85298612	85298812	+	966.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019716)	promoter-TSS (NM_019716)	785.0	NM_022997	65114.0	Mm.296520	NM_022997	ENSMUSG00000031696	Vps35	AI647796|Mem3	VPS35 retromer complex component	protein-coding	27.5	37.0	20.5	378.5	64.0	15.5	19.5	12.0
Merged-chr8-11556440-2	chr8	11556340	11556540	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011919)	promoter-TSS (NM_011919)	-17.0	NM_011919	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	97.5	179.0	89.5	859.0	288.5	108.5	105.0	85.0
Merged-chr2-3322888-1	chr2	3322788	3322988	+	558.0	f0_balb.idr	intron (NM_008708, intron 11 of 13)	intron (NM_008708, intron 11 of 13)	9740.0	NM_001013376	227522.0	Mm.293948	NM_001013376	ENSMUSG00000049950	Rpp38	C330006A15Rik	ribonuclease P/MRP 38 subunit	protein-coding	8.0	9.0	4.0	73.5	8.5	6.0	10.0	7.5
Merged-chr13-37606415-2	chr13	37606315	37606515	+	941.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-219623.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	6.5	3.5	6.5	75.5	7.0	12.0	5.0	11.0
Merged-chr12-87262867-4	chr12	87262771	87262971	+	969.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142581, intron 2 of 18)	MTD|LTR|ERVL-MaLR	1373.0	NM_134044	104799.0	Mm.208750	NM_134044	ENSMUSG00000021038	Vipas39	6720456H09Rik|9330175H22Rik|AI413782|SPE-39|Spe39|Vipar|hSPE-39	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog	protein-coding	10.5	29.0	19.5	438.5	54.0	34.0	27.0	30.5
Merged-chr8-108742880-3	chr8	108742772	108742972	+	754.716675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	28228.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	10.5	11.5	8.0	196.0	11.0	3.0	6.0	23.5
Merged-chr2-150861273-4	chr2	150861180	150861380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	B2_Mm2|SINE|B2	-18710.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	65.5	57.5	62.0	1036.0	102.5	30.5	65.0	45.5
Merged-chr7-98869274-4	chr7	98869157	98869357	+	887.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30412.0	NM_001285795	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	7.0	21.5	7.0	145.5	28.5	11.5	17.5	17.5
Merged-chr3-135607888-3	chr3	135607798	135607998	+	850.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 13 of 24)	MER44A|DNA|TcMar-Tigger	83649.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	9.5	9.0	8.5	85.5	25.5	7.0	8.0	16.0
Merged-chr10-22059581-2	chr10	22059492	22059692	+	918.833374	f0_c57.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	8487.0	NM_053264	114671.0	Mm.288194	NM_053264	ENSMUSG00000069712	4930444G20Rik	-	RIKEN cDNA 4930444G20 gene	protein-coding	2.0	3.0	0.0	35.5	36.0	10.5	17.5	17.0
Merged-chr19-3907068-4	chr19	3906969	3907169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167784)	promoter-TSS (NM_001167784)	64.0	NM_001136091	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	59.0	102.5	53.5	671.0	166.0	67.5	88.5	67.5
Merged-chr10-86704809-4	chr10	86704723	86704923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003939)	promoter-TSS (NM_001003939)	621.0	NM_011631	22027.0	Mm.87773	NM_011631	ENSMUSG00000020048	Hsp90b1	ERp99|GRP94|TA-3|Targ2|Tra-1|Tra1|endoplasmin|gp96	heat shock protein 90, beta (Grp94), member 1	protein-coding	53.5	129.0	85.0	1062.5	150.0	62.5	40.0	57.0
Merged-chr7-45367304-7	chr7	45367240	45367440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029741)	promoter-TSS (NM_029741)	107.0	NR_027802	50994.0	Mm.389897	NM_016664	ENSMUSG00000091510	Mtag2	MAG	metastasis associated gene 2	ncRNA	62.0	100.0	99.0	712.5	142.0	73.5	70.5	67.0
Merged-chr2-160083815-4	chr2	160083690	160083890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67137.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	61.5	70.5	68.5	943.5	60.0	26.5	32.5	23.0
Merged-chr16-91743207-4	chr16	91743087	91743287	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	13816.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	29.0	30.0	14.5	279.0	42.5	7.0	25.0	8.5
Merged-chr11-117344562-3	chr11	117344467	117344667	+	975.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113488, intron 1 of 9)	intron (NM_001113488, intron 1 of 9)	12254.0	NM_001113488	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	8.5	29.0	20.0	279.0	26.0	3.5	5.0	5.0
Merged-chr1-87026207-4	chr1	87026124	87026324	+	914.287476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172157, intron 15 of 21)	Lx8|LINE|L1	63704.0	NM_007433	11650.0	Mm.195224	NM_007433	ENSMUSG00000026246	Alppl2	Akp5|C77216|D1Ertd816e|EAP	alkaline phosphatase, placental-like 2	protein-coding	12.5	14.0	11.0	176.5	25.5	10.5	10.0	15.5
Merged-chr4-59804955-4	chr4	59804859	59805059	+	807.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172468)	promoter-TSS (NM_172468)	-691.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	5.5	8.0	10.5	177.0	26.5	5.5	11.5	14.0
Merged-chr9-20727934-4	chr9	20727835	20728035	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357635)	promoter-TSS (NM_001357635)	294.0	NM_173777	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	9.5	17.5	6.5	142.0	42.5	10.5	11.5	15.5
Merged-chr15-9747616-2	chr15	9747516	9747716	+	706.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001305042, intron 1 of 36)	intron (NM_001305042, intron 1 of 36)	1252.0	NM_177123	320277.0	Mm.127822	NM_177123	ENSMUSG00000072663	Spef2	C230086A09Rik	sperm flagellar 2	protein-coding	7.0	5.5	7.5	80.5	7.0	1.5	3.5	4.5
Merged-chr1-153487716-4	chr1	153487605	153487805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007842)	promoter-TSS (NM_007842)	-45.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	85.5	163.5	44.0	1005.0	280.0	71.5	93.0	69.0
Merged-chr11-32271395-2	chr11	32271295	32271495	+	923.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-3688.0	NM_001284359	17168.0	Mm.263161	NM_181569	ENSMUSG00000020289	Nprl3	Aag|CGTHBA|HS-26|HS-40|Mare|Phg|Prox1|m(alpha)RE	nitrogen permease regulator-like 3	protein-coding	6.0	14.5	5.5	30.5	13.0	2.5	3.5	1.0
Merged-chr12-54981145-4	chr12	54981056	54981256	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013815, intron 2 of 26)	MIRb|SINE|MIR	5180.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	15.5	24.0	12.0	298.5	37.5	17.0	14.0	16.5
Merged-chr11-57962721-4	chr11	57962600	57962800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46364.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	47.0	49.5	29.5	432.5	86.0	31.0	39.5	32.0
Merged-chr8-88200247-6	chr8	88200107	88200307	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164497, exon 2 of 13)	exon (NM_001164497, exon 2 of 13)	994.0	NM_001164498	214627.0	Mm.491211	NM_001164497	ENSMUSG00000036779	Papd5	5730445M16Rik|5830428A09	PAP associated domain containing 5	protein-coding	17.5	27.5	24.0	204.5	31.0	10.5	13.0	18.0
Merged-chr3-83080939-4	chr3	83080841	83081041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	25403.0	NM_016784	53317.0	Mm.286349	NM_016784	ENSMUSG00000027998	Plrg1	AA958940|C80566|Tango4	pleiotropic regulator 1	protein-coding	27.0	57.0	19.0	556.5	48.5	25.0	32.0	39.0
Merged-chr19-11698508-4	chr19	11698403	11698603	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033283, intron 1 of 5)	intron (NM_001033283, intron 1 of 5)	1448.0	NM_001033283	225923.0	Mm.297596	NM_001033283	ENSMUSG00000055933	Oosp3	Gm97	oocyte secreted protein 3	protein-coding	36.0	24.5	20.0	547.5	68.5	16.0	19.0	32.5
Merged-chr11-114852537-4	chr11	114852401	114852601	+	897.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147217, intron 1 of 3)	CpG	471.0	NM_147217	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	12.0	11.5	24.5	159.5	30.0	10.5	10.5	11.0
Merged-chr4-11126730-2	chr4	11126630	11126830	+	976.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151526, exon 3 of 3)	non-coding (NR_151526, exon 3 of 3)	2772.0	NR_151526	100503518.0	Mm.102270	NR_151526	ENSMUSG00000086765	Gm11827	-	predicted gene 11827	ncRNA	3.0	10.0	14.5	57.0	15.5	9.0	6.5	10.5
Merged-chr13-108214413-4	chr13	108214333	108214533	+	747.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029001)	promoter-TSS (NM_029001)	29.0	NM_029001	74559.0	Mm.286127	NM_029001	ENSMUSG00000021696	Elovl7	9130013K24Rik|AI840082	ELOVL family member 7, elongation of long chain fatty acids (yeast)	protein-coding	7.5	9.5	5.0	78.5	17.5	5.5	7.5	5.5
Merged-chr16-36641202-4	chr16	36641110	36641310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	24867.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	113.0	141.0	108.0	1331.0	302.0	94.5	111.0	90.5
Merged-chr5-4530476-4	chr5	4530341	4530541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227775.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	88.0	139.5	94.0	1249.0	187.0	107.0	105.5	85.5
Merged-chr5-96911727-4	chr5	96911638	96911838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9534.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	120.0	185.5	168.0	2229.5	319.0	132.5	175.0	136.5
Merged-chr10-24635633-4	chr10	24635534	24635734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	40192.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	82.0	183.0	146.0	1987.0	262.5	78.5	90.5	73.5
Merged-chr3-96268654-4	chr3	96268559	96268759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178215)	promoter-TSS (NM_178215)	5.0	NM_178215	319154.0	Mm.383293	NM_178215	ENSMUSG00000074403	Hist2h3b	H3-615|H3-616	histone cluster 2, H3b	protein-coding	78.5	80.0	61.0	673.0	119.0	61.5	62.5	60.5
Merged-chr3-106545760-4	chr3	106545662	106545862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293694, intron 1 of 8)	intron (NM_001293694, intron 1 of 8)	1863.0	NM_001357818	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	46.0	88.5	73.5	579.5	178.0	70.5	59.5	71.5
Merged-chr14-52014921-4	chr14	52014844	52015044	+	957.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253695)	promoter-TSS (NM_001253695)	-386.0	NM_001253695	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	15.0	14.0	13.0	349.0	38.0	15.5	13.5	15.5
Merged-chr10-99203393-4	chr10	99203287	99203487	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59844.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	26.0	37.0	19.5	291.0	46.5	18.5	19.0	27.0
Merged-chr9-119246695-2	chr9	119246601	119246801	+	688.25	f0_balb.idr|f0_c57.idr	intron (NM_001359582, intron 14 of 18)	intron (NM_001359582, intron 14 of 18)	-15009.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	4.0	10.0	6.5	96.0	42.5	7.0	10.5	13.0
Merged-chr7-114276156-4	chr7	114276055	114276255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011965)	promoter-TSS (NM_011965)	-39.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	147.0	250.0	109.5	1757.0	492.0	158.5	164.5	156.5
Merged-chr1-65107815-4	chr1	65107718	65107918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001285881, exon 8 of 8)	3' UTR (NM_001285881, exon 8 of 8)	-4455.0	NM_007774	12964.0	Mm.26904	NM_007774	ENSMUSG00000044429	Cryga	Cryg-4|DGcry-4	crystallin, gamma A	protein-coding	33.5	41.0	30.0	567.0	109.0	22.5	27.5	37.5
Merged-chr10-40141127-4	chr10	40141038	40141238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	1116.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	83.0	97.5	134.0	1730.0	191.0	44.5	99.0	90.0
Merged-chr17-67340513-4	chr17	67340426	67340626	+	949.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	ID_B1|SINE|B4	13933.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	24.5	29.0	26.0	350.5	39.0	14.0	12.5	25.0
Merged-chr15-97945444-4	chr15	97945340	97945540	+	805.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18789.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	9.0	15.5	17.5	97.5	27.0	14.0	8.0	10.0
Merged-chr18-62176815-11	chr18	62176610	62176810	+	904.0242310000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3271.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	7.0	22.5	1.5	68.5	13.5	8.0	6.5	5.0
Merged-chr6-8259233-4	chr6	8259148	8259348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026632)	promoter-TSS (NM_026632)	-40.0	NM_001302354	100036521.0	Mm.446106	NM_001302353	ENSMUSG00000089862	Umad1	Gm16039	UMAP1-MVP12 associated (UMA) domain containing 1	protein-coding	364.5	483.5	437.0	6538.5	835.0	299.0	501.0	346.0
Merged-chr3-37759068-3	chr3	37758949	37759149	+	841.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34689.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	13.0	18.5	1.5	101.0	15.5	19.0	9.0	5.5
Merged-chr9-89237322-4	chr9	89237232	89237432	+	904.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	intron (NM_001359993, intron 2 of 2)	25948.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	21.0	37.5	21.5	296.0	41.0	14.0	24.0	26.5
Merged-chr9-120571054-4	chr9	120570978	120571178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025974)	promoter-TSS (NM_025974)	-439.0	NM_025974	67115.0	Mm.289810	NM_025974	ENSMUSG00000025794	Rpl14	3100001N19Rik|AA407502|AL022816|CAG-ISL-7|CTG-B33|L14	ribosomal protein L14	protein-coding	55.5	65.0	63.0	790.5	160.5	50.5	83.0	54.5
Merged-chr16-42876216-3	chr16	42876119	42876319	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040521)	promoter-TSS (NR_040521)	-457.0	NR_040522	75722.0	Mm.243747	NR_040521	ENSMUSG00000075070	4932412D23Rik	Gm10809	RIKEN cDNA 4932412D23 gene	ncRNA	84.5	75.0	90.0	863.5	115.0	52.0	43.5	51.0
Merged-chr15-100421368-4	chr15	100421256	100421456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008732, intron 1 of 16)	intron (NM_008732, intron 1 of 16)	1699.0	NM_001146161	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	142.0	230.0	115.5	1454.5	372.5	139.0	123.0	158.0
Merged-chr1-54921768-1	chr1	54921668	54921868	+	813.0	f0_balb.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	4619.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	12.5	6.0	4.0	159.5	11.5	7.0	8.0	6.0
Merged-chr5-31512683-4	chr5	31512589	31512789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133756, exon 14 of 14)	3' UTR (NM_133756, exon 14 of 14)	14073.0	NM_028150	72195.0	Mm.164187	NM_028150	ENSMUSG00000053134	Supt7l	2610524B01Rik|6030455L14Rik	suppressor of Ty 7-like	protein-coding	38.0	36.5	23.5	336.0	73.5	29.0	20.5	26.0
Merged-chr19-40640048-4	chr19	40639958	40640158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-19712.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	49.0	48.0	41.5	451.5	103.5	53.0	40.0	32.5
Merged-chr7-44955857-2	chr7	44955757	44955957	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001077591, intron 8 of 10)	B2_Mm2|SINE|B2	12617.0	NM_011651	22116.0	Mm.84502	NM_011651	ENSMUSG00000059891	Tsks	Stk22s1|Tssks1	testis-specific serine kinase substrate	protein-coding	9.0	5.0	0.5	61.0	23.0	4.5	7.0	11.0
Merged-chr4-132596493-2	chr4	132596393	132596593	+	901.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32426.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	4.0	1.0	0.0	93.0	8.5	4.5	7.5	4.5
Merged-chr4-148042218-3	chr4	148042111	148042311	+	842.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027809, intron 2 of 12)	intron (NR_027809, intron 2 of 12)	1022.0	NM_001161798	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	11.0	12.0	13.5	148.5	23.5	6.5	4.5	13.5
Merged-chr4-120909936-4	chr4	120909808	120910008	+	811.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15097.0	NM_028457	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	8.5	8.0	6.0	105.0	17.0	6.0	8.0	12.0
Merged-chr12-44273659-3	chr12	44273557	44273757	+	838.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026164, intron 1 of 9)	intron (NM_026164, intron 1 of 9)	4503.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	5.0	13.0	7.5	92.5	17.0	4.5	2.5	4.0
Merged-chr7-89392996-2	chr7	89392896	89393096	+	611.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 1 of 14)	intron (NM_001360746, intron 1 of 14)	11226.0	NM_001360746	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	6.0	8.0	2.0	65.0	16.5	4.5	6.0	8.5
Merged-chr13-97190573-4	chr13	97190473	97190673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010422, intron 3 of 13)	LSU-rRNA_Hsa|rRNA|rRNA	7784.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	40.5	55.0	32.0	583.5	102.0	40.5	30.5	81.0
Merged-chr3-108904079-4	chr3	108903956	108904156	+	929.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356292, exon 7 of 7)	exon (NM_001356292, exon 7 of 7)	7673.0	NM_025845	66921.0	Mm.51049	NM_025845	ENSMUSG00000027881	Prpf38b	1110021E09Rik|AU018955	PRP38 pre-mRNA processing factor 38 (yeast) domain containing B	protein-coding	20.5	13.0	16.0	272.0	37.5	7.0	22.0	22.0
Merged-chr5-16470055-4	chr5	16469954	16470154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83441.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	231.5	261.5	314.5	4868.0	511.0	179.5	276.5	230.0
Merged-chr11-59964986-3	chr11	59964885	59965085	+	910.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009026)	promoter-TSS (NM_009026)	-41.0	NM_009026	19416.0	Mm.3903	NM_009026	ENSMUSG00000049892	Rasd1	Dexras1	RAS, dexamethasone-induced 1	protein-coding	6.5	13.0	6.0	143.0	9.0	2.0	3.5	10.0
Merged-chr5-113007206-1	chr5	113007106	113007306	+	558.0	f0_balb.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	8332.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	9.0	6.0	7.0	88.5	8.5	5.0	2.5	2.0
Merged-chr7-100493702-3	chr7	100493621	100493821	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011671, intron 1 of 7)	intron (NM_011671, intron 1 of 7)	363.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	92.5	142.5	54.5	691.5	110.0	56.0	39.0	33.5
Merged-chr12-111820923-2	chr12	111820823	111821023	+	636.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026752, intron 1 of 6)	intron (NM_026752, intron 1 of 6)	6753.0	NM_026752	68520.0	Mm.390497	NM_026752	ENSMUSG00000021286	Zfyve21	1110013H04Rik|AW558780|C85416	zinc finger, FYVE domain containing 21	protein-coding	7.0	5.0	5.0	88.5	0.0	2.5	3.5	2.5
Merged-chr16-28911703-4	chr16	28911682	28911882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177718, intron 1 of 1)	intron (NM_177718, intron 1 of 1)	17916.0	NM_177718	239796.0	Mm.155887	NM_177718	ENSMUSG00000051065	Mb21d2	1600021P15Rik|A430031N04|C87006	Mab-21 domain containing 2	protein-coding	15.0	29.0	37.0	251.5	79.5	37.0	23.5	31.0
Merged-chr15-77917363-4	chr15	77917233	77917433	+	722.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019913, intron 3 of 3)	intron (NM_019913, intron 3 of 3)	11661.0	NM_019913	56551.0	Mm.291917	NM_019913	ENSMUSG00000005354	Txn2	2510006J11Rik|AI788873|Trx2	thioredoxin 2	protein-coding	10.0	20.5	11.0	98.0	27.5	5.5	9.0	9.5
Merged-chr10-117224398-4	chr10	117224307	117224507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026570)	promoter-TSS (NM_026570)	100.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	58.5	122.5	109.0	858.0	146.0	89.5	68.0	61.5
Merged-chr1-131678222-4	chr1	131678120	131678320	+	844.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10475.0	NM_001311096	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	7.0	5.0	12.5	140.5	28.5	8.5	21.0	9.0
Merged-chr1-121327382-2	chr1	121327282	121327482	+	837.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178082, intron 1 of 5)	intron (NM_178082, intron 1 of 5)	296.0	NM_001271531	72999.0	Mm.27136	NM_133748	ENSMUSG00000003721	Insig2	2900053I11Rik|C730043J18Rik|Insig-2	insulin induced gene 2	protein-coding	5.0	6.0	9.0	93.0	27.5	9.5	10.0	4.0
Merged-chr18-31802851-3	chr18	31802757	31802957	+	765.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1200.0	NM_028866	74320.0	Mm.277705	NM_028866	ENSMUSG00000024400	Wdr33	1110001N06Rik|2310011G05Rik|2810021O11Rik|8430413N20Rik|WDC146	WD repeat domain 33	protein-coding	5.0	12.5	5.0	91.5	3.5	5.5	6.5	5.0
Merged-chr12-12222188-2	chr12	12222088	12222288	+	734.666687	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-39951.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	10.5	9.5	8.0	108.0	21.5	6.5	1.0	12.5
Merged-chr8-41395499-3	chr8	41395409	41395609	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-20812.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	17.5	35.0	16.5	313.0	0.0	0.5	0.0	0.0
Merged-chr19-32792817-1	chr19	32792717	32792917	+	701.333313	f0_balb.idr	intron (NM_008960, intron 3 of 8)	intron (NM_008960, intron 3 of 8)	35240.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	6.5	9.0	9.5	177.5	20.5	2.5	10.0	10.5
Merged-chr17-83666774-4	chr17	83666663	83666863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34868.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	57.5	61.5	33.0	671.0	128.5	58.0	57.0	56.5
Merged-chr5-68012865-4	chr5	68012768	68012968	+	816.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18967.0	NM_001018019	433899.0	Mm.332422	NM_001018019	ENSMUSG00000068082	Grxcr1	Tg(Eno2-Gabrb3)0370Brll|pi|tde	glutaredoxin, cysteine rich 1	protein-coding	8.0	14.5	2.5	128.5	20.5	11.0	17.0	18.0
Merged-chr4-53350764-4	chr4	53350674	53350874	+	787.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80542.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	10.0	5.5	14.0	273.0	39.5	2.5	11.0	13.0
Merged-chr4-35157475-4	chr4	35157368	35157568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178061)	promoter-TSS (NM_178061)	16.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	51.0	62.5	33.5	678.5	105.5	31.0	46.0	36.0
Merged-chr3-108609094-4	chr3	108608979	108609179	+	917.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358055, intron 1 of 14)	Lx7|LINE|L1	17346.0	NM_001358055	99512.0	Mm.285968	NM_181400	ENSMUSG00000040389	Wdr47	1810073M12Rik|AA552998|mKIAA0893	WD repeat domain 47	protein-coding	25.0	24.5	10.5	265.0	28.5	19.0	26.0	12.5
Merged-chr5-72861861-3	chr5	72861745	72861945	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 1 of 17)	intron (NM_013689, intron 1 of 17)	6603.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	9.5	20.0	19.0	220.5	10.5	4.0	1.5	8.5
Merged-chr12-69356712-3	chr12	69356607	69356807	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025441, intron 1 of 32)	MIRb|SINE|MIR	469.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	8.0	9.0	9.0	92.5	11.0	5.0	5.0	8.5
Merged-chr4-133277729-4	chr4	133277648	133277848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110978)	promoter-TSS (NR_110978)	42.0	NM_025667	52174.0	Mm.244748	NM_025667	ENSMUSG00000028857	Tmem222	5730406H10Rik|AA409341|D4Ertd196e	transmembrane protein 222	protein-coding	57.0	106.0	38.0	517.0	272.0	97.5	95.0	70.5
Merged-chr8-40511805-4	chr8	40511759	40511959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011135)	promoter-TSS (NM_011135)	76.0	NM_033560	52348.0	Mm.489696	NM_033560	ENSMUSG00000031600	Vps37a	2210018P21Rik|4930592A21Rik|AW261445|D8Ertd531e	vacuolar protein sorting 37A	protein-coding	106.0	176.5	168.0	1751.0	275.0	108.0	112.0	110.0
Merged-chr1-125439416-4	chr1	125439287	125439487	+	826.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3660.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	13.5	12.5	13.0	165.5	12.5	2.0	11.0	7.5
Merged-chr13-49271994-4	chr13	49271909	49272109	+	913.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 14 of 17)	intron (NM_015759, intron 14 of 17)	-23303.0	NM_028340	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	18.5	8.0	7.0	192.0	24.0	11.0	20.0	26.5
Merged-chr4-46452545-5	chr4	46452400	46452600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130889, intron 1 of 6)	CpG	1574.0	NM_130889	67628.0	Mm.263913	NM_130889	ENSMUSG00000028333	Anp32b	2410015B15Rik|PAL31|PHAPI2a|Ssp29	acidic (leucine-rich) nuclear phosphoprotein 32 family, member B	protein-coding	23.0	52.5	31.5	297.5	61.5	32.0	25.5	27.0
Merged-chr10-84576503-4	chr10	84576285	84576485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146008)	promoter-TSS (NM_146008)	-562.0	NM_146008	216198.0	Mm.296142	NM_146008	ENSMUSG00000020034	Tcp11l2	E430026E19Rik	t-complex 11 (mouse) like 2	protein-coding	52.5	64.0	47.0	459.0	94.5	65.5	44.0	67.5
Merged-chr1-65060286-4	chr1	65060194	65060394	+	916.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3146.0	NM_007776	12967.0	Mm.425031	NM_007776	ENSMUSG00000067299	Crygd	Aey4|Cryg-1|DGcry-1|Lop12	crystallin, gamma D	protein-coding	8.5	17.0	23.5	329.0	27.0	4.0	11.5	11.5
Merged-chr8-25597064-4	chr8	25596971	25597171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173012, intron 1 of 10)	CpG	416.0	NM_173012	270035.0	Mm.268349	NM_173012	ENSMUSG00000037363	Letm2	6030453H13|D030041N04Rik	leucine zipper-EF-hand containing transmembrane protein 2	protein-coding	78.0	139.5	116.5	1404.0	169.0	73.0	98.5	60.5
Merged-chr5-41684157-2	chr5	41684055	41684255	+	861.0	f0_balb.idr|f1_balb.idr	intron (NM_001310592, intron 4 of 6)	Lx7|LINE|L1	23536.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	22.0	21.0	14.5	216.5	20.0	3.5	8.0	9.0
Merged-chr2-157424167-4	chr2	157424059	157424259	+	899.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009271)	promoter-TSS (NM_009271)	-134.0	NM_009271	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	14.0	14.0	14.0	148.0	33.5	11.5	13.5	6.0
Merged-chr10-57721224-4	chr10	57721153	57721353	+	811.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	intron (NM_008863, intron 4 of 5)	-63670.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	8.5	16.0	15.0	155.0	25.0	8.0	14.5	10.0
Merged-chr12-25097980-4	chr12	25097874	25098074	+	847.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1882.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	4.0	10.5	8.5	104.5	20.0	11.5	9.5	19.5
Merged-chr2-150648122-4	chr2	150648024	150648224	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080575, intron 2 of 13)	B3A|SINE|B2	-19370.0	NR_040331	109344.0	Mm.440012	NR_040331	ENSMUSG00000087406	E130215H24Rik	-	RIKEN cDNA E130215H24 gene	ncRNA	19.5	20.5	27.0	620.5	33.5	15.0	24.5	19.0
Merged-chr14-50799995-3	chr14	50799897	50800097	+	823.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4269.0	NM_001111119	239083.0	Mm.343880	NM_001111119	ENSMUSG00000071470	Ccnb1ip1	Gm288|Hei10|mei4	cyclin B1 interacting protein 1	protein-coding	4.5	5.0	3.0	116.0	21.0	10.0	4.5	15.5
Merged-chr9-32472517-4	chr9	32472426	32472626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 2 of 8)	Lx8|LINE|L1	68926.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	34.5	46.5	42.5	811.5	54.5	23.5	25.0	30.5
Merged-chr6-29170186-4	chr6	29170096	29170296	+	750.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101443, exon 5 of 5)	exon (NM_001101443, exon 5 of 5)	-5472.0	NM_133925	68272.0	Mm.40802	NM_026650	ENSMUSG00000029701	Rbm28	2810480G15Rik|AI503051	RNA binding motif protein 28	protein-coding	7.0	11.0	6.5	81.0	20.0	5.5	8.0	4.5
Merged-chr9-111289219-3	chr9	111289143	111289343	+	790.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17398.0	NM_175266	77781.0	Mm.209005	NM_175266	ENSMUSG00000046785	Epm2aip1	A930003G21Rik|mKIAA0766	EPM2A (laforin) interacting protein 1	protein-coding	9.0	11.5	7.0	147.0	20.0	4.5	5.5	12.0
Merged-chr18-6490817-4	chr18	6490724	6490924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276350)	promoter-TSS (NM_001276350)	33.0	NM_027497	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	71.5	85.0	64.0	869.5	137.5	50.5	74.5	61.5
Merged-chr5-21768690-4	chr5	21768610	21768810	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009584, exon 8 of 17)	exon (NM_009584, exon 8 of 17)	16455.0	NM_009584	22791.0	Mm.266312	NM_009584	ENSMUSG00000029014	Dnajc2	AU020218|MIDA1|Zrf1|Zrf2	DnaJ heat shock protein family (Hsp40) member C2	protein-coding	18.0	38.5	20.5	296.5	88.0	15.5	23.0	24.0
Merged-chr3-103857544-3	chr3	103857446	103857646	+	975.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-2249.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	3.0	2.5	6.0	48.5	128.5	33.0	64.0	42.5
Merged-chr11-77442849-4	chr11	77442750	77442950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 13 of 14)	intron (NM_177710, intron 13 of 14)	-21063.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	101.0	139.5	126.0	1670.5	273.0	109.5	122.0	85.5
Merged-chr8-117262904-4	chr8	117262796	117262996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	5877.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	39.0	76.0	43.0	477.0	105.5	37.0	40.0	37.0
Merged-chr1-171917678-4	chr1	171917595	171917795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030710, exon 1 of 8)	5' UTR (NM_030710, exon 1 of 8)	233.0	NM_001347186	30925.0	Mm.486404	NM_030710	ENSMUSG00000015314	Slamf6	KAL1|KAL1b|Ly108|NTB-A|NTBA|SF2000	SLAM family member 6	protein-coding	34.0	36.0	55.5	789.5	71.0	33.5	26.5	47.5
Merged-chr7-90476857-1	chr7	90476757	90476957	+	812.5	f0_balb.idr	promoter-TSS (NM_026734)	promoter-TSS (NM_026734)	-862.0	NM_026734	68472.0	Mm.289791	NM_026734	ENSMUSG00000030614	Tmem126b	1110001A23Rik	transmembrane protein 126B	protein-coding	4.5	8.0	17.5	143.5	13.5	5.0	3.5	7.5
Merged-chr11-97548122-3	chr11	97548040	97548240	+	639.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 3 of 19)	intron (NM_018873, intron 3 of 19)	26986.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	12.0	8.0	0.0	48.5	33.5	12.0	6.0	5.5
Merged-chr14-32281777-4	chr14	32281667	32281867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011960, intron 15 of 17)	intron (NM_011960, intron 15 of 17)	-40252.0	NM_001081130	239017.0	Mm.318302	NM_001081130	ENSMUSG00000021913	Ogdhl	-	oxoglutarate dehydrogenase-like	protein-coding	46.0	83.0	74.5	963.0	91.5	36.5	53.5	44.0
Merged-chr17-87256450-3	chr17	87256352	87256552	+	970.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176808, intron 4 of 4)	intron (NM_176808, intron 4 of 4)	9495.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	14.0	17.0	26.5	345.0	22.0	6.0	17.0	9.0
Merged-chr11-121658481-4	chr11	121658362	121658562	+	821.795837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178664, intron 3 of 12)	intron (NM_178664, intron 3 of 12)	14689.0	NM_178664	210004.0	Mm.386847	NM_178664	ENSMUSG00000046605	B3gntl1	6030413G23Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1	protein-coding	19.5	14.0	13.0	87.5	26.5	8.0	12.5	5.0
Merged-chr16-10496203-4	chr16	10496131	10496331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302619, intron 2 of 19)	intron (NM_001302619, intron 2 of 19)	6450.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	26.0	51.5	14.0	257.0	57.0	25.5	28.0	28.5
Merged-chr17-56304194-4	chr17	56304110	56304310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111080)	promoter-TSS (NM_001111080)	-103.0	NM_001111078	18140.0	Mm.42196	NM_010931	ENSMUSG00000001228	Uhrf1	AL022808|ICBP90|Np95|RNF106	ubiquitin-like, containing PHD and RING finger domains, 1	protein-coding	81.5	97.5	43.0	854.5	188.5	78.0	91.5	60.5
Merged-chr1-88282348-6	chr1	88282191	88282391	+	829.438904	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	-4712.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	7.5	5.0	6.0	33.5	4.0	1.0	8.5	12.0
Merged-chr12-100729207-4	chr12	100729105	100729305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4085.0	NM_153587	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	51.5	90.0	64.5	876.5	146.0	39.5	35.5	47.0
Merged-chr11-117146299-4	chr11	117146197	117146397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166507, intron 7 of 16)	intron (NM_001166507, intron 7 of 16)	31125.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	52.0	64.0	30.5	608.0	148.5	41.0	36.5	33.5
Merged-chr13-37559796-2	chr13	37559696	37559896	+	629.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	214451.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	5.0	4.5	5.0	11.5	10.5	0.5	1.0	4.5
Merged-chr6-115887025-4	chr6	115886866	115887066	+	636.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031177, exon 9 of 29)	exon (NM_031177, exon 9 of 29)	33438.0	NM_031177	81896.0	Mm.333335	NM_031177	ENSMUSG00000030323	Ift122	C86139|Wdr10|sopb	intraflagellar transport 122	protein-coding	2.0	2.5	6.5	27.0	11.5	4.5	4.5	5.0
Merged-chr2-35696561-4	chr2	35696462	35696662	+	909.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290639)	promoter-TSS (NM_001290639)	-170.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	25.5	23.0	16.5	295.0	35.5	12.0	9.5	14.0
Merged-chr2-101830685-4	chr2	101830547	101830747	+	786.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	8333.0	NM_001110849	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	5.0	13.5	9.0	63.5	17.0	7.5	6.0	11.5
Merged-chr5-38560787-4	chr5	38560695	38560895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011715, intron 2 of 14)	intron (NM_011715, intron 2 of 14)	800.0	NM_011715	22388.0	Mm.2654	NM_011715	ENSMUSG00000005103	Wdr1	Aip1|D5Wsu185e|rede	WD repeat domain 1	protein-coding	91.0	138.5	78.5	1391.5	245.5	92.5	101.5	92.0
Merged-chr7-28675230-4	chr7	28675100	28675300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17649.0	NM_207238	233040.0	Mm.116116	NM_207238	ENSMUSG00000037463	Fbxo27	E130008B10Rik|FBG5|Gm161	F-box protein 27	protein-coding	23.0	25.0	18.0	283.0	73.0	32.0	27.0	25.0
Merged-chr10-94035437-4	chr10	94035326	94035526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053072)	promoter-TSS (NM_053072)	316.0	NM_001304720	215008.0	Mm.124177	NM_172538	ENSMUSG00000036099	Vezt	A630071D13Rik|AI848282	vezatin, adherens junctions transmembrane protein	protein-coding	18.0	36.0	23.5	301.5	63.0	23.5	36.5	35.0
Merged-chr1-92676889-2	chr1	92676789	92676989	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28048.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	5.0	17.0	5.5	97.5	13.5	7.5	4.0	4.5
Merged-chr9-14893628-3	chr9	14893530	14893730	+	812.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176807, intron 4 of 4)	MTEb|LTR|ERVL-MaLR	10321.0	NM_176807	64931.0	Mm.86738	NM_022888	ENSMUSG00000031933	Izumo1r	0910001L11Rik|C86255|Folbp3|Folr4|Juno	IZUMO1 receptor, JUNO	protein-coding	3.0	10.0	12.0	248.0	13.5	7.5	8.5	9.0
Merged-chr9-85762542-4	chr9	85762451	85762651	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13217.0	NM_175371	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	9.5	8.5	14.0	289.5	47.0	24.0	41.5	17.0
Merged-chr7-141395028-4	chr7	141394928	141395128	+	965.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011528, intron 1 of 7)	intron (NM_011528, intron 1 of 7)	2868.0	NM_011528	21351.0	Mm.29182	NM_011528	ENSMUSG00000025503	Taldo1	-	transaldolase 1	protein-coding	15.5	31.5	14.0	222.0	63.5	24.5	16.0	28.5
Merged-chr10-111178102-6	chr10	111177986	111178186	+	832.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003717, intron 1 of 22)	intron (NM_001003717, intron 1 of 22)	13284.0	NM_175489	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	15.0	6.0	35.5	285.5	13.5	4.0	6.0	17.5
Merged-chr2-153711023-2	chr2	153710923	153711123	+	863.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30264.0	NM_007896	13589.0	Mm.143877	NM_007896	ENSMUSG00000027479	Mapre1	5530600P05Rik|AI462499|AI504412|AW260097|BIM1p|D2Ertd459e|Eb1	microtubule-associated protein, RP/EB family, member 1	protein-coding	3.5	6.5	4.5	62.0	8.5	5.0	7.5	12.5
Merged-chr14-57729598-3	chr14	57729476	57729676	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153382, intron 1 of 1)	intron (NM_153382, intron 1 of 1)	4842.0	NM_153382	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	13.0	10.5	8.0	176.0	1.5	1.0	1.5	8.0
Merged-chr13-111870585-3	chr13	111870467	111870667	+	864.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130345, intron 2 of 2)	intron (NR_130345, intron 2 of 2)	2631.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	9.0	9.0	9.5	110.0	10.0	4.0	16.0	4.0
Merged-chr11-21223754-4	chr11	21223662	21223862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15270.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	77.0	78.5	63.0	976.0	191.5	59.0	75.5	83.0
Merged-chr5-99523020-2	chr5	99522920	99523120	+	696.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	206040.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	5.0	11.5	6.0	40.0	2.5	6.5	3.5	5.5
Merged-chr7-145111598-4	chr7	145111504	145111704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96515.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	149.0	301.0	239.5	2889.5	430.5	155.0	216.0	196.0
Merged-chr1-106712591-3	chr1	106712535	106712735	+	604.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177410, exon 1 of 1)	exon (NM_177410, exon 1 of 1)	1655.0	NM_009741	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	10.5	10.0	4.5	50.0	16.5	1.0	3.0	8.0
Merged-chr15-27234949-3	chr15	27234834	27235034	+	993.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-231743.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	14.0	18.0	8.5	263.0	24.5	6.0	19.5	11.0
Merged-chr2-25428577-4	chr2	25428466	25428666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007379)	promoter-TSS (NM_007379)	-108.0	NM_007379	11305.0	Mm.2210	NM_007379	ENSMUSG00000026944	Abca2	AI413825|Abc2|D2H0S1474E|mKIAA1062	ATP-binding cassette, sub-family A (ABC1), member 2	protein-coding	111.0	155.5	54.0	1139.5	257.0	75.5	86.5	91.0
Merged-chr1-45825380-4	chr1	45825273	45825473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	30207.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	27.0	32.0	43.0	324.0	53.0	21.0	24.0	30.0
Merged-chr14-78732842-4	chr14	78732755	78732955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081336)	promoter-TSS (NM_001081336)	-126.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	81.0	122.0	63.0	1200.0	140.0	54.0	64.5	60.0
Merged-chr6-50378101-4	chr6	50377861	50378061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	L1MB1|LINE|L1	4876.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	42.5	67.0	60.5	583.0	99.0	69.0	68.0	75.5
Merged-chr15-101144921-4	chr15	101144825	101145025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001277259, exon 12 of 12)	3' UTR (NM_001277259, exon 12 of 12)	16403.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	37.0	52.5	28.5	407.5	46.0	27.0	22.0	34.5
Merged-chr11-116464052-4	chr11	116463962	116464162	+	870.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-9715.0	NM_001033267	217341.0	Mm.387352	NM_001033267	ENSMUSG00000070331	Qrich2	Gm66	glutamine rich 2	protein-coding	7.5	9.0	7.5	96.5	32.0	4.5	13.5	17.5
Merged-chr11-89006609-4	chr11	89006531	89006731	+	964.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 2 of 8)	MLT1J|LTR|ERVL-MaLR	7228.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	22.0	40.0	32.0	658.0	41.0	16.5	5.0	7.5
Merged-chr17-22424203-4	chr17	22424094	22424294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331195)	promoter-TSS (NM_001331195)	-8.0	NM_001331197	74149.0	Mm.30767	NM_198003	ENSMUSG00000071266	Zfp946	1300003B13Rik	zinc finger protein 946	protein-coding	60.0	59.5	47.5	885.0	129.5	56.5	66.5	58.5
Merged-chr1-128613968-2	chr1	128613882	128614082	+	878.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21683.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	6.5	8.0	6.5	173.0	8.0	8.5	4.0	6.5
Merged-chr5-21737189-4	chr5	21737100	21737300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028431)	promoter-TSS (NM_028431)	40.0	NM_028431	73078.0	Mm.301655	NM_028431	ENSMUSG00000029017	Pmpcb	3110004O18Rik|MPP11|MPPB|MPPP52	peptidase (mitochondrial processing) beta	protein-coding	47.0	74.0	80.0	748.5	131.0	47.0	58.0	45.0
Merged-chr9-99112302-4	chr9	99112190	99112390	+	921.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 2 of 23)	intron (NM_029094, intron 2 of 23)	27921.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	14.0	16.5	6.0	150.0	28.5	15.5	14.5	7.0
Merged-chr14-27317362-3	chr14	27317265	27317465	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 2 of 10)	intron (NM_027871, intron 2 of 10)	-18672.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	5.0	9.0	5.5	152.5	15.5	4.5	4.5	6.5
Merged-chr10-21882207-2	chr10	21882107	21882307	+	814.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161845)	promoter-TSS (NM_001161845)	23.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	7.0	7.5	4.5	63.5	8.0	3.0	7.0	8.0
Merged-chr15-65744685-3	chr15	65744585	65744785	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42335.0	NM_133766	76740.0	Mm.260647	NM_133766	ENSMUSG00000015002	Efr3a	A130089M23Rik|BB071175|C76891|C920006C10Rik|D030063F01Rik|mKIAA0143	EFR3 homolog A	protein-coding	16.5	11.0	9.0	126.0	14.0	4.5	9.0	9.5
Merged-chr2-174109892-3	chr2	174109804	174110004	+	973.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_213733)	promoter-TSS (NM_213733)	-447.0	NM_213733	228961.0	Mm.295629	NM_213733	ENSMUSG00000039263	Npepl1	BC023239|C85514|mKIAA1974	aminopeptidase-like 1	protein-coding	14.0	8.0	7.0	146.5	18.0	16.5	16.5	19.5
Merged-chr15-93274380-3	chr15	93274288	93274488	+	755.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346785, intron 1 of 7)	intron (NM_001346785, intron 1 of 7)	791.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	7.5	3.0	3.0	74.0	23.5	6.0	12.0	8.0
Merged-chr6-134049116-4	chr6	134049012	134049212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	MTD|LTR|ERVL-MaLR	13412.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	27.0	47.5	28.5	445.5	87.0	20.0	31.0	55.0
Merged-chr5-105145921-4	chr5	105145811	105146011	+	959.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6325.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	16.5	16.5	10.0	210.0	64.0	38.5	23.5	23.5
Merged-chr6-116208091-4	chr6	116207997	116208197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026585)	promoter-TSS (NM_026585)	64.0	NM_026585	28006.0	Mm.28524	NM_026585	ENSMUSG00000024104	Washc2	A130095H06|C530005J20Rik|D6Wsu116e|Fam21	WASH complex subunit 2	protein-coding	104.5	160.0	79.0	1362.0	188.0	64.0	71.0	75.5
Merged-chr2-76673852-4	chr2	76673730	76673930	+	757.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010222)	promoter-TSS (NM_010222)	-732.0	NM_001355080	14231.0	Mm.24720	NM_010222	ENSMUSG00000002732	Fkbp7	23kDa|FKBP-7|FKBP23	FK506 binding protein 7	protein-coding	9.5	9.5	8.5	74.5	35.5	4.0	10.0	8.0
Merged-chr11-100414577-4	chr11	100414485	100414685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176830, exon 1 of 8)	exon (NM_176830, exon 1 of 8)	234.0	NM_176830	66180.0	Mm.4940	NM_176830	ENSMUSG00000006931	P3h4	1110036O03Rik|AI413214|Leprel4|Sc65	prolyl 3-hydroxylase family member 4 (non-enzymatic)	protein-coding	33.0	53.0	39.5	387.5	59.0	21.5	26.0	32.5
Merged-chr10-94904804-4	chr10	94904699	94904899	+	894.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 4 of 30)	intron (NM_018797, intron 4 of 30)	39779.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	19.5	18.0	9.5	182.5	30.5	3.0	17.0	9.0
Merged-chr17-45599614-4	chr17	45599544	45599744	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199115)	promoter-TSS (NM_001199115)	-41.0	NM_001199115	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	23.5	27.5	16.0	238.5	32.0	12.5	32.0	23.5
Merged-chr6-134261585-1	chr6	134261485	134261685	+	716.0	f0_balb.idr	intron (NM_001303102, intron 6 of 8)	intron (NM_001303102, intron 6 of 8)	-134744.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	7.5	19.5	21.0	123.5	24.5	3.5	4.5	3.5
Merged-chr1-144317790-4	chr1	144317692	144317892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68688.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	183.0	279.5	235.5	3197.5	249.5	104.5	134.5	112.5
Merged-chr19-11240704-3	chr19	11240600	11240800	+	853.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045317, intron 1 of 2)	Lx|LINE|L1	25451.0	NM_007641	12482.0	Mm.4046	NM_007641	ENSMUSG00000024673	Ms4a1	AA960661|Cd20|Ly-44|Ms4a2	membrane-spanning 4-domains, subfamily A, member 1	protein-coding	11.5	10.0	16.5	122.5	19.5	11.5	8.0	7.5
Merged-chr5-123132640-6	chr5	123132467	123132667	+	887.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175092)	promoter-TSS (NM_175092)	62.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	16.0	15.0	8.5	157.0	19.5	9.5	10.0	7.5
Merged-chr4-106981606-4	chr4	106981503	106981703	+	750.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355532, intron 1 of 14)	intron (NM_001355532, intron 1 of 14)	58418.0	NM_001355532	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	11.5	15.0	7.5	96.0	27.0	3.0	12.5	4.5
Merged-chr19-41051870-3	chr19	41051758	41051958	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001043228, intron 8 of 10)	intron (NM_001043228, intron 8 of 10)	22583.0	NM_009345	21673.0	Mm.25620	NM_009345	ENSMUSG00000025014	Dntt	Tdt	deoxynucleotidyltransferase, terminal	protein-coding	2.5	6.0	11.5	127.5	11.5	5.0	12.0	21.5
Merged-chr8-64733748-4	chr8	64733655	64733855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025436)	promoter-TSS (NM_025436)	-177.0	NM_025436	66234.0	Mm.30119	NM_025436	ENSMUSG00000031604	Msmo1	1500001G16Rik|C78600|DESP4|ERG25|Sc4mol	methylsterol monoxygenase 1	protein-coding	376.5	563.0	406.5	5980.0	895.0	331.0	532.0	300.5
Merged-chr7-143784222-1	chr7	143784122	143784322	+	677.5	f0_balb.idr	5' UTR (NM_175534, exon 1 of 2)	5' UTR (NM_175534, exon 1 of 2)	278.0	NM_175534	244238.0	Mm.183561	NM_175534	ENSMUSG00000048965	Mrgpre	C130069N09Rik|Ebrt3|Mgrf|MrgE	MAS-related GPR, member E	protein-coding	8.0	4.0	10.0	90.5	8.5	5.0	5.0	4.5
Merged-chr1-16060303-1	chr1	16060203	16060403	+	861.0	f1_c57bl6.idr	Intergenic	MER5B|DNA|hAT-Charlie	33022.0	NM_001243238	75799.0	Mm.78557	NM_001243238	ENSMUSG00000067795	4930444P10Rik	-	RIKEN cDNA 4930444P10 gene	protein-coding	3.5	2.0	1.0	10.0	17.5	7.0	7.5	6.0
Merged-chr8-94363504-4	chr8	94363396	94363596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 24 of 24)	intron (NM_019415, intron 24 of 24)	-22933.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	51.0	63.5	34.5	534.0	78.0	31.0	51.0	31.0
Merged-chr11-120549702-4	chr11	120549604	120549804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033231)	promoter-TSS (NM_001033231)	23.0	NM_001033231	192173.0	Mm.262300	NM_001033231	ENSMUSG00000061111	Mcrip1	Fam195b	MAPK regulated corepressor interacting protein 1	protein-coding	78.0	130.5	49.5	604.5	216.0	92.5	86.5	72.5
Merged-chr9-20581411-4	chr9	20581287	20581487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172919)	promoter-TSS (NM_172919)	59.0	NM_172919	244721.0	Mm.86627	NM_172919	ENSMUSG00000058192	Zfp846	2210010B09Rik|9130221F13|Znf846	zinc finger protein 846	protein-coding	129.5	171.0	158.0	2235.5	320.0	111.0	165.5	133.0
Merged-chr4-139235729-3	chr4	139235637	139235837	+	984.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	41626.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	40.5	79.0	44.0	345.5	29.0	6.0	1.0	4.5
Merged-chr18-80001427-2	chr18	80001341	80001541	+	716.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45454.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	6.0	8.0	4.5	57.0	6.5	7.5	8.0	4.0
Merged-chr13-111980442-4	chr13	111980339	111980539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112503.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	157.5	192.0	185.0	2509.0	140.5	42.0	79.5	61.0
Merged-chr11-115692980-4	chr11	115692882	115693082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	6552.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	125.0	192.0	145.5	1838.5	286.5	117.0	182.0	163.5
Merged-chr4-126102554-4	chr4	126102477	126102677	+	996.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1380.0	NM_028800	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	68.0	184.0	43.0	594.0	110.5	46.5	26.0	23.0
Merged-chr16-56064537-4	chr16	56064434	56064634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360073, intron 1 of 24)	(CAAAA)n|Simple_repeat|Simple_repeat	7004.0	NM_001360073	66315.0	Mm.255784	NM_025483	ENSMUSG00000052917	Senp7	2410152H17Rik|2810413I22Rik|2900036C23Rik|6030449K19Rik|AI790676	SUMO1/sentrin specific peptidase 7	protein-coding	63.5	53.0	85.5	1030.0	120.5	30.5	60.5	40.0
Merged-chr12-79135168-3	chr12	79135078	79135278	+	756.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	intron (NM_009705, intron 2 of 7)	4390.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	12.0	16.0	9.5	149.0	13.0	5.0	3.0	1.0
Merged-chr2-156439873-1	chr2	156439773	156439973	+	642.0	f0_c57.idr	intron (NM_001291120, intron 2 of 22)	intron (NM_001291120, intron 2 of 22)	18964.0	NM_001291123	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	3.0	0.0	1.0	0.5	32.0	6.0	9.0	7.0
Merged-chr8-45975338-4	chr8	45975237	45975437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138668)	promoter-TSS (NM_138668)	-85.0	NM_001033148	69479.0	Mm.158282	NM_001033148	ENSMUSG00000071103	1700029J07Rik	-	RIKEN cDNA 1700029J07 gene	protein-coding	346.0	629.5	395.0	5699.0	842.5	350.5	411.0	369.5
Merged-chr12-79190980-4	chr12	79190906	79191106	+	998.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362269)	promoter-TSS (NM_001362269)	-45.0	NM_001362269	17252.0	Mm.291799	NM_021557	ENSMUSG00000066441	Rdh11	2610319N22Rik|AI428145|AU045252|Arsdr1|C85936|CGI-82|HCBP12|M42C60|Mdt1|Psdr1|SCALD|UBE-1c1|Ube-1c|ralR1	retinol dehydrogenase 11	protein-coding	28.0	56.5	33.0	381.5	72.0	14.5	31.0	21.5
Merged-chr11-23822724-2	chr11	23822624	23822824	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51754.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	3.5	3.0	5.0	79.5	9.5	4.5	8.5	14.0
Merged-chr2-164832937-4	chr2	164832874	164833074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008906)	promoter-TSS (NM_008906)	102.0	NM_001038492	19025.0	Mm.359633	NM_008906	ENSMUSG00000017760	Ctsa	AU019505|PPCA|Ppgb	cathepsin A	protein-coding	26.0	56.5	23.0	358.5	48.5	30.0	32.5	33.5
Merged-chr3-108389379-4	chr3	108389268	108389468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5530.0	NM_019976	56742.0	Mm.389499	NM_019976	ENSMUSG00000068744	Psrc1	5430413I02Rik|AL033312|Dda3	proline/serine-rich coiled-coil 1	protein-coding	89.0	105.0	54.5	1032.0	197.5	83.0	67.0	58.0
Merged-chr1-153754844-3	chr1	153754738	153754938	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011882, exon 4 of 9)	exon (NM_011882, exon 4 of 9)	5412.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	7.0	12.0	5.0	111.5	23.0	3.0	5.0	8.5
Merged-chr1-187216873-4	chr1	187216778	187216978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357645, intron 1 of 9)	intron (NM_001357645, intron 1 of 9)	1135.0	NM_001357645	67769.0	Mm.138321	NM_026367	ENSMUSG00000039210	Gpatch2	5830433G22Rik|5830436K05Rik|AI427714|AI447508|AW107440|AW491060|Gpatc2	G patch domain containing 2	protein-coding	29.5	26.0	16.5	449.0	56.5	16.0	26.5	11.0
Merged-chr19-55099484-4	chr19	55099372	55099572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008149)	promoter-TSS (NM_008149)	5.0	NM_008149	14732.0	Mm.210196	NM_008149	ENSMUSG00000024978	Gpam	GPAT|GPAT-1|GPAT1|P90	glycerol-3-phosphate acyltransferase, mitochondrial	protein-coding	59.5	95.0	35.0	1052.0	194.0	54.5	64.0	80.5
Merged-chr1-135700814-4	chr1	135700759	135700959	+	845.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19204.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	8.5	8.5	8.0	106.0	28.5	12.0	12.5	12.0
Merged-chr7-88203034-3	chr7	88202937	88203137	+	724.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-75048.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	7.5	6.0	9.5	127.5	6.5	2.5	8.0	9.0
Merged-chr14-118768167-4	chr14	118768075	118768275	+	987.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19696.0	NM_001160098	58187.0	Mm.390755	NM_021386	ENSMUSG00000022132	Cldn10	6720456I16Rik|Cldn10a|Cldn10b|D14Ertd728e	claudin 10	protein-coding	23.0	35.5	25.5	615.0	51.0	11.0	36.0	26.0
Merged-chr18-12947923-4	chr18	12947844	12948044	+	965.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6103.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	14.0	18.0	18.0	325.0	28.5	19.0	19.0	18.0
Merged-chr1-97647778-3	chr1	97647686	97647886	+	909.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355071, intron 1 of 1)	intron (NM_001355071, intron 1 of 1)	13890.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	9.5	14.5	9.5	263.0	17.5	6.0	6.0	12.0
Merged-chr5-114620459-4	chr5	114620297	114620497	+	890.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38024.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	12.0	20.0	9.0	77.5	30.0	11.0	11.5	4.5
Merged-chr2-158046514-4	chr2	158046426	158046626	+	950.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027434, intron 3 of 6)	intron (NM_027434, intron 3 of 6)	18029.0	NM_001291135	70470.0	Mm.290810	NM_027434	ENSMUSG00000027651	Rprd1b	2610304G08Rik|2810446G03Rik|Crept	regulation of nuclear pre-mRNA domain containing 1B	protein-coding	15.5	22.5	35.0	373.5	30.0	10.5	13.0	14.5
Merged-chr3-88337528-3	chr3	88337473	88337673	+	914.6555789999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178246, intron 1 of 21)	intron (NM_178246, intron 1 of 21)	1313.0	NM_178246	229512.0	Mm.439830	NM_173188	ENSMUSG00000001415	Smg5	BC024683|mKIAA1089	Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	13.0	7.0	4.0	66.0	46.0	18.0	12.0	22.0
Merged-chr4-62479947-4	chr4	62479845	62480045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138653)	promoter-TSS (NM_138653)	-122.0	NM_138653	192120.0	Mm.29808	NM_138653	ENSMUSG00000028392	Bspry	-	B-box and SPRY domain containing	protein-coding	26.5	35.0	34.5	252.5	73.0	24.0	31.0	30.5
Merged-chr2-166045221-4	chr2	166045112	166045312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 2 of 22)	intron (NM_008679, intron 2 of 22)	52575.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	59.5	119.5	64.5	1077.0	118.5	45.5	53.5	70.0
Merged-chr8-79587483-3	chr8	79587383	79587583	+	966.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52193.0	NM_001256033	73945.0	Mm.34348	NM_001081164	ENSMUSG00000036990	Otud4	4930431L18Rik|AI449692|D8Ertd69e|mKIAA1046	OTU domain containing 4	protein-coding	19.5	20.5	11.5	252.0	11.0	8.0	12.5	3.5
Merged-chr5-92000987-4	chr5	92000894	92001094	+	947.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13521.0	NM_001177577	381651.0	Mm.332494	NM_001177577	ENSMUSG00000096035	Odaph	Gm1045|Gm1045-a|Gm1045-b	odontogenesis associated phosphoprotein	protein-coding	15.0	26.5	25.0	237.5	56.5	18.0	22.5	12.5
Merged-chr6-96105788-3	chr6	96105681	96105881	+	859.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-7373.0	NM_182808	320265.0	Mm.489890	NM_182808	ENSMUSG00000059187	Fam19a1	C630007B19Rik|FAM19A1 TAFA-1|TAFA1|Tafa-1	family with sequence similarity 19, member A1	protein-coding	24.0	18.5	34.0	309.0	18.0	4.5	6.0	1.5
Merged-chr17-35861466-7	chr17	35861320	35861520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134122, exon 1 of 4)	exon (NM_134122, exon 1 of 4)	102.0	NM_134122	106582.0	Mm.390992	NM_134122	ENSMUSG00000059791	Nrm	2610307M02Rik|AI429796	nurim (nuclear envelope membrane protein)	protein-coding	61.0	112.5	78.0	696.0	129.5	70.5	55.5	66.0
Merged-chr8-70762032-3	chr8	70761942	70762142	+	883.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023065)	TTS (NM_023065)	-1121.0	NM_183170	234384.0	Mm.213010	NM_183170	ENSMUSG00000035559	Mpv17l2	Fksg24	MPV17 mitochondrial membrane protein-like 2	protein-coding	10.0	8.0	6.5	116.0	10.5	8.0	1.5	11.0
Merged-chr3-79177323-4	chr3	79177190	79177390	+	963.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31415.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	22.5	23.0	6.0	124.5	70.0	26.0	27.0	19.5
Merged-chr9-40581962-4	chr9	40581904	40582104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50621.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	126.5	169.5	191.5	2233.5	319.0	125.0	170.0	154.5
Merged-chr7-27451459-4	chr7	27451366	27451566	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290525)	promoter-TSS (NM_001290525)	-952.0	NM_001290525	233016.0	Mm.24021	NM_144923	ENSMUSG00000040466	Blvrb	-	biliverdin reductase B (flavin reductase (NADPH))	protein-coding	29.0	27.5	16.5	431.0	43.0	16.0	12.5	19.5
Merged-chr8-121108401-4	chr8	121108301	121108501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166482)	promoter-TSS (NM_001166482)	-22.0	NM_001166482	234814.0	Mm.31690	NM_172761	ENSMUSG00000031816	Mthfsd	AW049977|BC052066|C920004D05	methenyltetrahydrofolate synthetase domain containing	protein-coding	149.5	314.5	137.0	2216.0	559.5	167.5	170.0	189.0
Merged-chr5-136087505-4	chr5	136087429	136087629	+	828.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	3613.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	8.0	14.5	7.0	68.0	32.5	6.0	3.5	11.0
Merged-chr13-34709167-4	chr13	34709052	34709252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30490.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	83.0	116.5	74.5	847.0	116.5	47.0	67.5	38.0
Merged-chr8-120750772-4	chr8	120750656	120750856	+	983.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 6 of 8)	intron (NM_001301811, intron 6 of 8)	12117.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	34.0	12.5	40.0	1059.5	57.0	4.5	22.5	23.5
Merged-chr12-79015050-3	chr12	79014992	79015192	+	817.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7815.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	13.5	33.0	19.0	114.5	2.0	3.5	1.0	0.0
Merged-chr6-135116693-1	chr6	135116593	135116793	+	629.0	f0_balb.idr	exon (NM_001205396, exon 2 of 4)	exon (NM_001205396, exon 2 of 4)	1590.0	NM_053118	93746.0	Mm.49902	NM_053118	ENSMUSG00000030205	Gprc5d	-	G protein-coupled receptor, family C, group 5, member D	protein-coding	6.0	6.5	7.0	167.5	9.5	3.0	4.0	4.0
Merged-chr4-3929780-4	chr4	3929682	3929882	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019969, intron 1 of 5)	intron (NM_019969, intron 1 of 5)	8623.0	NM_019969	56711.0	Mm.331467	NM_019969	ENSMUSG00000003282	Plag1	-	pleiomorphic adenoma gene 1	protein-coding	25.5	21.5	18.0	241.5	64.5	18.0	32.5	24.5
Merged-chr6-114883603-4	chr6	114883498	114883698	+	982.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 3 of 5)	intron (NM_001356371, intron 3 of 5)	38223.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	23.0	23.5	19.5	301.0	38.5	6.5	16.0	23.5
Merged-chr17-10358935-3	chr17	10358847	10359047	+	818.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34345.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	2.0	14.5	3.0	137.5	18.0	8.0	7.5	11.0
Merged-chr7-102507012-4	chr7	102506913	102507113	+	852.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12240.0	NM_146840	258837.0	Mm.377714	NM_146840	ENSMUSG00000044824	Olfr545	MOR42-1|S50	olfactory receptor 545	protein-coding	12.0	9.5	7.5	207.0	19.5	11.0	7.0	12.5
Merged-chr3-133094518-4	chr3	133094397	133094597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027927, intron 1 of 6)	intron (NM_027927, intron 1 of 6)	-2458.0	NM_001356309	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	41.5	61.0	22.5	655.5	53.0	18.0	28.0	21.5
Merged-chr8-66490834-4	chr8	66490718	66490918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4288.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	35.5	76.5	42.5	426.5	147.0	60.0	68.5	54.0
Merged-chr13-67553074-4	chr13	67552930	67553130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131100)	promoter-TSS (NR_131100)	122.0	NM_001035231	212276.0	Mm.422831	NM_183145	ENSMUSG00000095432	Zfp748	KRAB-O|Rslcan20/21|Zfp208|mszf54	zinc finger protein 748	protein-coding	78.0	95.0	107.5	1102.0	136.0	47.5	73.0	60.5
Merged-chr4-129455529-4	chr4	129455432	129455632	+	764.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6147.0	NM_133889	100383.0	Mm.17918	NM_133889	ENSMUSG00000040859	Bsdc1	1110063F24Rik|AW011758	BSD domain containing 1	protein-coding	8.5	13.5	5.5	118.0	20.0	7.0	12.5	7.5
Merged-chr12-25091956-1	chr12	25091856	25092056	+	955.0	f0_balb.idr	Intergenic	URR1A|DNA|hAT-Charlie	4136.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	19.5	30.0	10.5	148.0	10.5	10.5	6.0	10.0
Merged-chr4-88727438-4	chr4	88727344	88727544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4936.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	35.0	39.5	55.5	672.0	80.5	23.0	25.0	27.0
Merged-chr2-122581885-4	chr2	122581785	122581985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	29392.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	36.0	44.5	96.0	957.0	64.5	21.5	24.5	32.5
Merged-chr5-24165022-4	chr5	24164929	24165129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346582)	promoter-TSS (NM_001346582)	66.0	NM_001346582	231042.0	Mm.45513	NM_153092	ENSMUSG00000048439	Nupl2	AV116043|CG1|NLP-1|Nlp1	nucleoporin like 2	protein-coding	69.0	75.0	81.0	989.0	204.0	65.5	68.5	88.5
Merged-chr19-47918696-4	chr19	47918589	47918789	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001738, intron 1 of 1)	intron (NM_001001738, intron 1 of 1)	610.0	NM_001001738	414801.0	Mm.29457	NM_001001738	ENSMUSG00000044948	Itprip	4833424O12Rik|DANGER	inositol 1,4,5-triphosphate receptor interacting protein	protein-coding	29.0	32.0	34.5	532.5	82.0	16.0	58.5	42.5
Merged-chr6-124730021-4	chr6	124729917	124730117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077705, intron 3 of 15)	intron (NM_001077705, intron 3 of 15)	3137.0	NM_013545	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	72.5	113.5	76.5	1336.5	255.0	90.5	122.5	106.0
Merged-chr3-9897218-4	chr3	9897111	9897311	+	891.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-63532.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	14.0	18.0	14.0	208.5	26.5	9.5	14.5	15.5
Merged-chr16-94544773-5	chr16	94544691	94544891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18162.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	12.0	19.0	12.5	143.5	47.5	30.5	15.5	24.0
Merged-chr1-180215245-4	chr1	180215154	180215354	+	944.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19234.0	NM_001359268	67426.0	Mm.38330	NM_023341	ENSMUSG00000026489	Coq8a	4632432J16Rik|AI462003|Adck3|Cabc1|mKIAA0451	coenzyme Q8A	protein-coding	18.5	23.0	5.0	93.0	41.5	13.5	18.0	11.0
Merged-chr19-60890209-4	chr19	60890106	60890306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_018869, exon 1 of 16)	5' UTR (NM_018869, exon 1 of 16)	457.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	96.0	161.0	92.0	1659.5	204.0	63.5	121.5	84.0
Merged-chr3-28053292-4	chr3	28053202	28053402	+	809.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 11 of 25)	L1MD2|LINE|L1	69131.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	16.5	7.5	13.5	118.5	36.0	13.5	3.5	17.5
Merged-chr14-76702273-4	chr14	76702194	76702394	+	763.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24726.0	NR_015485	73272.0	Mm.116804	NR_015485	ENSMUSG00000101009	1700108F19Rik	1700020I02Rik|BB065030	RIKEN cDNA 1700108F19 gene	ncRNA	2.0	12.0	4.0	116.5	27.5	11.0	8.0	16.0
Merged-chr10-13201959-4	chr10	13201905	13202105	+	944.857178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8868.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	21.5	26.0	17.0	336.0	33.5	10.0	8.0	15.5
Merged-chr14-30654359-4	chr14	30654269	30654469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177815)	promoter-TSS (NM_177815)	-6.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	94.5	142.0	69.5	1388.5	335.0	88.5	77.5	63.0
Merged-chr1-93824809-2	chr1	93824709	93824909	+	966.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178882)	promoter-TSS (NM_178882)	-431.0	NM_178882	98314.0	Mm.383401	NM_178882	ENSMUSG00000073609	D2hgdh	AA408776|AA408778|AI325464	D-2-hydroxyglutarate dehydrogenase	protein-coding	7.0	8.0	14.0	77.0	6.5	3.0	6.0	10.5
Merged-chr6-89281665-6	chr6	89281589	89281789	+	915.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131021, intron 1 of 3)	intron (NR_131021, intron 1 of 3)	4036.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	8.5	18.0	9.0	186.0	19.5	10.5	7.0	16.5
Merged-chr3-5576307-4	chr3	5576203	5576403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163301)	promoter-TSS (NM_001163301)	-55.0	NM_008994	19302.0	Mm.132336	NM_008994	ENSMUSG00000040374	Pex2	D3Ertd138e|PAF-1|PMP35|Pxmp3	peroxisomal biogenesis factor 2	protein-coding	369.5	519.0	435.0	7180.5	1164.0	400.0	548.0	389.0
Merged-chr11-8610621-4	chr11	8610542	8610742	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	53893.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	6.5	18.5	10.5	245.5	32.5	14.5	20.0	25.5
Merged-chr15-81586089-4	chr15	81585998	81586198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177821)	promoter-TSS (NM_177821)	-116.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	29.0	32.0	30.5	386.0	87.5	20.5	29.0	36.5
Merged-chr17-63865417-2	chr17	63865317	63865517	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	intron (NM_001037997, intron 1 of 18)	1436.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	7.0	5.0	5.0	65.0	17.0	2.0	4.0	3.0
Merged-chr3-95509044-3	chr3	95508933	95509133	+	874.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007802, exon 8 of 8)	3' UTR (NM_007802, exon 8 of 8)	9823.0	NM_007802	13038.0	Mm.272085	NM_007802	ENSMUSG00000028111	Ctsk	AI323530|MMS10-Q|Ms10q|catK	cathepsin K	protein-coding	14.0	14.0	16.0	231.5	13.0	4.5	5.0	7.0
Merged-chr2-150904717-4	chr2	150904617	150904817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024465)	promoter-TSS (NM_024465)	14.0	NM_024465	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	203.5	270.5	233.5	3296.5	549.0	155.0	285.5	222.5
Merged-chr11-107334338-3	chr11	107334242	107334442	+	794.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359616, intron 2 of 8)	intron (NM_001359616, intron 2 of 8)	136378.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	7.0	6.0	5.0	98.0	8.5	5.5	2.5	4.0
Merged-chr1-139443200-2	chr1	139443100	139443300	+	622.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_172643, intron 10 of 10)	B2_Mm1a|SINE|B2	-11573.0	NM_009791	12316.0	Mm.168523	NM_009791	ENSMUSG00000033952	Aspm	Calmbp1|D330028K02Rik|MCPH5|Sha1	abnormal spindle microtubule assembly	protein-coding	9.0	6.0	6.5	56.5	4.0	4.0	4.0	2.0
Merged-chr11-86993829-4	chr11	86993733	86993933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005341)	promoter-TSS (NM_001005341)	-71.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	93.5	102.5	71.5	851.0	164.0	60.0	80.5	60.0
Merged-chr17-88458269-4	chr17	88458172	88458372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355742, intron 1 of 5)	intron (NM_001355742, intron 1 of 5)	17568.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	30.5	72.0	36.0	699.5	122.0	37.5	52.5	41.5
Merged-chr2-167005060-4	chr2	167004972	167005172	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-8773.0	NM_001109905	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	20.5	75.5	32.0	304.0	114.5	32.5	42.0	24.5
Merged-chr12-80794592-2	chr12	80794492	80794692	+	909.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	B1_Mus1|SINE|Alu	4060.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	6.0	4.5	9.0	10.5	6.5	3.0	0.0	2.5
Merged-chr11-77680248-3	chr11	77680138	77680338	+	804.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-5901.0	NM_001024205	68564.0	Mm.428996	NM_001024205	ENSMUSG00000037857	Nufip2	1110001M19Rik|9530056D24Rik|AI256692|AI461731|PIG1|mKIAA1321	nuclear fragile X mental retardation protein interacting protein 2	protein-coding	5.5	10.5	8.0	110.5	9.0	4.0	8.0	5.5
Merged-chr2-70091950-4	chr2	70091840	70092040	+	943.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177376, intron 2 of 34)	RLTR14|LTR|ERV1	52814.0	NM_177376	329421.0	Mm.99648	NM_177376	ENSMUSG00000042064	Myo3b	A430065P19Rik	myosin IIIB	protein-coding	28.0	57.0	40.0	470.5	30.5	13.0	20.0	17.5
Merged-chr12-3906634-3	chr12	3906552	3906752	+	916.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 16 of 17)	intron (NM_153743, intron 16 of 17)	14908.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	5.0	8.0	16.0	247.5	15.0	4.0	9.0	10.5
Merged-chr9-25158444-1	chr9	25158344	25158544	+	766.0	f0_balb.idr	Intergenic	L2c|LINE|L2	-6663.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	8.5	7.0	13.0	174.5	10.5	4.5	12.0	14.0
Merged-chr4-47311660-4	chr4	47311556	47311756	+	777.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 39 of 39)	intron (NM_009928, intron 39 of 39)	-41566.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	18.5	13.5	7.0	142.5	29.5	13.0	14.0	10.5
Merged-chr14-46912696-4	chr14	46912590	46912790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	29725.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	70.5	90.0	47.5	836.0	104.0	61.0	42.5	53.0
Merged-chr11-110271887-4	chr11	110271781	110271981	+	720.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_147219, exon 39 of 39)	3' UTR (NM_147219, exon 39 of 39)	-20105.0	NM_001166557	76184.0	Mm.159704	NM_147218	ENSMUSG00000044749	Abca6	6330565N06Rik	ATP-binding cassette, sub-family A (ABC1), member 6	protein-coding	14.0	8.5	13.5	81.0	20.5	4.5	10.5	4.0
Merged-chr6-89338855-4	chr6	89338753	89338953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008881, intron 9 of 31)	intron (NM_008881, intron 9 of 31)	23760.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	19.5	60.0	43.0	964.0	83.0	24.5	46.0	32.5
Merged-chr3-104781717-4	chr3	104781566	104781766	+	814.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027982, intron 1 of 9)	CpG	610.0	NM_027982	71887.0	Mm.379204	NM_027982	ENSMUSG00000002228	Ppm1j	2310008J22Rik|PP2Czeta|Ppp2cz	protein phosphatase 1J	protein-coding	12.5	8.0	11.0	168.0	32.5	11.5	8.5	14.0
Merged-chr2-26351641-2	chr2	26351541	26351741	+	807.25	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001037747)	TTS (NM_001037747)	469.0	NM_026828	52838.0	Mm.31239	NM_026828	ENSMUSG00000075467	Dnlz	1110034G11Rik|D2Bwg1335e|HEP1	DNL-type zinc finger	protein-coding	6.0	10.0	22.5	76.5	13.5	3.0	3.5	11.5
Merged-chr7-119880543-4	chr7	119880439	119880639	+	981.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163703, intron 1 of 2)	intron (NM_001163703, intron 1 of 2)	14919.0	NM_173408	233805.0	Mm.31539	NM_173408	ENSMUSG00000048787	Dcun1d3	1700020A13Rik|BC030335	DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)	protein-coding	16.5	24.0	17.5	326.5	49.5	25.5	16.0	25.5
Merged-chr13-102899452-4	chr13	102899362	102899562	+	979.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	139207.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	29.0	17.5	31.0	574.0	89.0	11.5	20.5	41.0
Merged-chr17-29246799-3	chr17	29246693	29246893	+	822.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9003.0	NM_001360239	240058.0	Mm.39905	NM_153166	ENSMUSG00000024008	Cpne5	A830083G22Rik	copine V	protein-coding	8.0	13.5	9.0	129.0	7.5	8.0	8.5	6.5
Merged-chr15-6396133-4	chr15	6396046	6396246	+	953.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	9398.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	18.0	35.5	15.5	213.0	31.5	14.5	16.0	4.0
Merged-chr3-107149187-2	chr3	107149087	107149287	+	966.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33956.0	NM_001081140	242151.0	Mm.245155	NM_001081140	ENSMUSG00000042861	Kcna10	Gm1962|Kcna8|Kv1.8	potassium voltage-gated channel, shaker-related subfamily, member 10	protein-coding	7.0	5.0	3.5	63.0	16.0	7.5	7.5	6.5
Merged-chr12-113152035-4	chr12	113151899	113152099	+	969.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007763)	promoter-TSS (NM_007763)	-13.0	NM_007763	12925.0	Mm.272368	NM_007763	ENSMUSG00000006360	Crip1	CRHP|CRP1|Crip	cysteine-rich protein 1 (intestinal)	protein-coding	19.5	24.0	13.0	239.5	30.5	13.5	11.0	7.0
Merged-chr13-5774045-4	chr13	5773963	5774163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84029.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	68.0	120.0	85.5	1444.5	150.5	53.0	44.0	43.0
Merged-chr17-6962543-2	chr17	6962443	6962643	+	648.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1387.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	0.0	0.0	0.0	0.0	13.5	10.0	9.5	9.5
Merged-chr2-12108553-4	chr2	12108475	12108675	+	915.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_138462, exon 31 of 31)	non-coding (NR_138462, exon 31 of 31)	-192671.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	19.5	23.5	28.5	313.0	26.0	11.0	22.0	13.5
Merged-chr7-67645334-4	chr7	67645229	67645429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175124)	promoter-TSS (NM_175124)	-93.0	NR_028143	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	247.5	386.5	218.0	3645.0	550.0	245.0	266.5	255.5
Merged-chr2-142883032-4	chr2	142882930	142883130	+	848.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 1 of 26)	intron (NM_001355123, intron 1 of 26)	18434.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	19.0	16.5	12.0	327.0	20.5	2.5	11.0	11.5
Merged-chr16-58454652-1	chr16	58454552	58454752	+	591.0	f0_balb.idr	intron (NM_001356484, intron 9 of 15)	intron (NM_001356484, intron 9 of 15)	46117.0	NM_028523	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	5.5	8.0	7.5	60.0	8.0	5.0	10.5	5.0
Merged-chr15-62046486-4	chr15	62046394	62046594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	7237.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	50.0	75.5	37.0	880.0	183.5	61.5	114.5	79.5
Merged-chr9-88728556-2	chr9	88728522	88728722	+	986.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007536, intron 1 of 1)	intron (NM_007536, intron 1 of 1)	3228.0	NM_007536	12047.0	Mm.378888	NM_007536	ENSMUSG00000099974	Bcl2a1d	A1-d	B cell leukemia/lymphoma 2 related protein A1d	protein-coding	6.0	9.0	10.5	22.0	13.5	4.0	14.0	3.5
Merged-chr2-36232210-4	chr2	36232114	36232314	+	979.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 2 of 10)	intron (NM_008969, intron 2 of 10)	1788.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	19.5	20.5	37.5	469.0	63.5	16.0	26.0	30.5
Merged-chr2-143844629-1	chr2	143844529	143844729	+	583.5	f0_balb.idr	intron (NM_001291061, intron 4 of 7)	MLT1A1|LTR|ERVL-MaLR	18544.0	NM_009751	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	8.0	8.5	5.0	74.0	14.5	3.5	4.0	4.0
Merged-chr11-52360196-2	chr11	52360096	52360296	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011694)	promoter-TSS (NM_011694)	-666.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	7.0	6.0	7.0	133.0	19.5	4.0	8.5	10.5
Merged-chr1-177257542-6	chr1	177257545	177257745	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8878.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	10.0	14.5	24.0	217.5	25.0	18.0	15.0	29.0
Merged-chr15-79270501-4	chr15	79270393	79270593	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177580, intron 7 of 13)	CpG	15016.0	NM_177580	207495.0	Mm.309647	NM_177580	ENSMUSG00000018126	Baiap2l2	BC048937	BAI1-associated protein 2-like 2	protein-coding	16.5	16.5	11.0	193.0	32.5	14.0	2.5	7.0
Merged-chr11-51916766-4	chr11	51916676	51916876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50855.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	81.0	114.5	66.5	894.5	206.0	76.0	87.5	58.0
Merged-chr7-127922546-4	chr7	127922438	127922638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360699, intron 6 of 10)	intron (NM_001360699, intron 6 of 10)	7575.0	NM_133351	76560.0	Mm.5875	NM_133351	ENSMUSG00000030800	Prss8	2410039E18Rik|AI313909|C79772|CAP1|fr|mCAP1	protease, serine 8 (prostasin)	protein-coding	105.5	143.0	110.5	1538.5	173.0	69.5	70.0	81.5
Merged-chr17-5454418-4	chr17	5454305	5454505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14145.0	NM_027457	70544.0	Mm.46654	NM_027457	ENSMUSG00000004945	Tmem242	1110008A10Rik|2310046K16Rik|5730437N04Rik	transmembrane protein 242	protein-coding	36.0	46.0	52.5	701.0	181.5	47.5	58.5	66.5
Merged-chr13-9082790-3	chr13	9082681	9082881	+	817.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11100.0	NM_001311117	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	6.0	6.5	11.5	128.0	17.5	4.0	1.0	6.0
Merged-chr4-88696629-4	chr4	88696526	88696726	+	979.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5358.0	NM_008336	15974.0	Mm.377093	NM_008336	ENSMUSG00000100079	Ifnab	-	interferon alpha B	protein-coding	16.0	40.0	17.5	309.0	37.5	17.5	14.5	19.5
Merged-chr5-135010726-4	chr5	135010602	135010802	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145215, intron 2 of 5)	intron (NM_145215, intron 2 of 5)	1246.0	NR_033794	68758.0	Mm.389700	NM_145215	ENSMUSG00000040532	Abhd11	1110054D16Rik|A630008N09Rik|Wbscr21	abhydrolase domain containing 11	protein-coding	13.0	34.5	10.5	177.0	90.5	12.5	14.0	22.5
Merged-chr11-53737760-4	chr11	53737679	53737879	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16985.0	NM_010558	16191.0	Mm.4461	NM_010558	ENSMUSG00000036117	Il5	Il-5	interleukin 5	protein-coding	15.0	20.5	11.5	183.5	52.5	19.5	14.0	19.0
Merged-chr7-51861797-4	chr7	51861701	51861901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330608)	promoter-TSS (NM_001330608)	-214.0	NM_001330608	14453.0	Mm.207360	NM_008087	ENSMUSG00000030498	Gas2	Gas-2	growth arrest specific 2	protein-coding	80.5	92.0	71.0	1016.0	181.0	71.5	116.0	64.0
Merged-chr2-86020637-4	chr2	86020507	86020707	+	824.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146578)	promoter-TSS (NM_146578)	-33.0	NM_146578	258571.0	Mm.223099	NM_146578	ENSMUSG00000045392	Olfr1033	MOR199-2	olfactory receptor 1033	protein-coding	6.5	11.0	4.5	128.5	21.5	7.5	16.0	16.0
Merged-chr10-5824196-4	chr10	5824129	5824329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175374)	promoter-TSS (NM_175374)	-286.0	NM_175374	108853.0	Mm.55082	NM_175374	ENSMUSG00000019774	Mtrf1l	9130004K12Rik	mitochondrial translational release factor 1-like	protein-coding	292.0	466.0	390.0	4085.5	741.0	335.5	420.0	335.0
Merged-chr4-139575448-4	chr4	139575431	139575631	+	975.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001205173, exon 1 of 9)	exon (NM_001205173, exon 1 of 9)	811.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	5.5	12.5	4.0	101.5	29.0	17.5	10.0	19.5
Merged-chr11-76458972-4	chr11	76458926	76459126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 9 of 21)	intron (NM_001346670, intron 9 of 21)	9439.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	44.0	61.0	33.0	312.5	88.5	30.0	22.5	48.0
Merged-chr4-32565176-4	chr4	32565083	32565283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 3 of 4)	intron (NM_001109661, intron 3 of 4)	6479.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	69.5	81.0	75.0	736.0	138.0	42.5	66.5	34.5
Merged-chr15-76069841-4	chr15	76069734	76069934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134089)	promoter-TSS (NM_134089)	-50.0	NM_001310542	105782.0	Mm.25568	NM_134089	ENSMUSG00000022568	Scrib	AI118201|CRIB|Crc|SCRIB1|Scrb1|mKIAA0147|vartul	scribbled planar cell polarity	protein-coding	90.0	136.5	60.0	1207.0	271.5	107.0	98.0	114.0
Merged-chr1-34835824-4	chr1	34835715	34835915	+	946.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 2 of 6)	intron (NM_001160236, intron 2 of 6)	7235.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	8.5	21.5	11.5	489.0	40.5	11.5	13.0	24.5
Merged-chr3-52047170-4	chr3	52047069	52047269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	57837.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	178.0	276.5	217.0	3749.5	494.5	174.5	234.5	203.0
Merged-chr19-37307985-4	chr19	37307882	37308082	+	918.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031156, intron 10 of 23)	L1M5|LINE|L1	22631.0	NM_031156	15925.0	Mm.28366	NM_031156	ENSMUSG00000056999	Ide	1300012G03Rik|4833415K22Rik|AA675336|AI507533	insulin degrading enzyme	protein-coding	18.5	10.0	14.0	154.5	31.0	7.5	12.0	7.0
Merged-chr10-81450298-4	chr10	81450210	81450410	+	957.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22821.0	NM_001311127	319586.0	Mm.152689	NM_176954	ENSMUSG00000034818	Celf5	4930565A21Rik|Brunol5	CUGBP, Elav-like family member 5	protein-coding	21.5	23.5	7.5	116.0	51.5	17.5	7.5	20.5
Merged-chr10-86727810-4	chr10	86727724	86727924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003910, intron 4 of 15)	intron (NM_001003910, intron 4 of 15)	15059.0	NM_153595	103220.0	Mm.440762	NM_153595	ENSMUSG00000044937	Ttc41	AI449705|AU041509|Gnn	tetratricopeptide repeat domain 41	protein-coding	96.0	73.0	80.5	1207.0	103.5	33.5	43.0	57.0
Merged-chr12-82366969-3	chr12	82366895	82367095	+	871.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 7 of 23)	intron (NM_001167983, intron 7 of 23)	55646.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	6.5	15.5	10.0	161.5	28.0	2.0	11.0	10.0
Merged-chr8-120321972-4	chr8	120321877	120322077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93747.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	26.5	68.5	24.5	420.0	133.5	54.0	25.0	41.0
Merged-chr4-86925268-2	chr4	86925164	86925364	+	592.5	f0_balb.idr|f1_balb.idr	intron (NM_001290543, intron 5 of 5)	intron (NM_001290543, intron 5 of 5)	50850.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	5.5	8.0	5.0	89.5	12.0	3.5	7.0	2.0
Merged-chr3-86774707-4	chr3	86774575	86774775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077688, intron 54 of 54)	Tigger6a|DNA|TcMar-Tigger	146209.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	44.5	63.0	39.5	545.0	65.5	24.0	36.5	28.0
Merged-chr9-119981820-8	chr9	119981692	119981892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153287, intron 1 of 4)	intron (NM_153287, intron 1 of 4)	1231.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	16.0	25.0	14.0	187.5	43.0	17.5	11.0	16.5
Merged-chr11-105506520-4	chr11	105506412	105506612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49777.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	54.0	71.5	61.0	797.5	159.0	48.0	45.5	43.5
Merged-chr5-110110117-4	chr5	110110009	110110209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163996)	promoter-TSS (NM_001163996)	17.0	NM_001163996	675812.0	Mm.442122	NM_001163996	ENSMUSG00000023284	Zfp605	A830023I12Rik	zinc finger protein 605	protein-coding	53.0	85.5	45.5	943.5	178.0	54.5	83.0	60.5
Merged-chr6-120454259-4	chr6	120454172	120454372	+	962.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8925.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	29.0	22.5	20.0	354.5	41.0	12.5	16.5	25.5
Merged-chr15-63506091-1	chr15	63505991	63506191	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-26483.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	3.5	7.5	11.0	252.0	5.0	5.0	4.5	5.5
Merged-chr1-120044879-3	chr1	120044778	120044978	+	820.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 7 of 13)	intron (NM_001012322, intron 7 of 13)	28902.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	11.0	5.5	15.0	224.0	11.5	5.5	6.5	9.0
Merged-chr10-81082329-4	chr10	81082210	81082410	+	885.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022653)	TTS (NM_022653)	12227.0	NM_022653	50492.0	Mm.26995	NM_022653	ENSMUSG00000004929	Thop1	AI131655|AI327041|EP24.15	thimet oligopeptidase 1	protein-coding	13.5	11.0	9.0	73.0	18.0	12.0	6.0	11.0
Merged-chr14-76687240-3	chr14	76687144	76687344	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015485)	TTS (NR_015485)	9676.0	NR_015485	73272.0	Mm.116804	NR_015485	ENSMUSG00000101009	1700108F19Rik	1700020I02Rik|BB065030	RIKEN cDNA 1700108F19 gene	ncRNA	3.0	9.5	2.0	140.0	91.5	21.0	57.5	28.0
Merged-chr1-183508043-1	chr1	183507943	183508143	+	560.0	f0_balb.idr	Intergenic	Intergenic	88795.0	NM_001308052	78772.0	Mm.29003	NM_030175	ENSMUSG00000053461	Hhipl2	4930507C10Rik|AW208802|Hhip3	hedgehog interacting protein-like 2	protein-coding	4.5	6.5	9.5	75.5	8.0	2.0	1.5	4.0
Merged-chr4-106828080-3	chr4	106827953	106828153	+	757.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-23046.0	NM_001347159	329910.0	Mm.222956	NM_025590	ENSMUSG00000034853	Acot11	1110020M10Rik|2010309H15Rik|AW060409|BFIT|BFIT1|Thea|Them1|mKIAA0707	acyl-CoA thioesterase 11	protein-coding	11.0	5.0	6.0	106.0	9.0	2.5	4.0	9.5
Merged-chr13-29855484-6	chr13	29855363	29855563	+	857.511108	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308486, intron 1 of 5)	CpG	210.0	NR_131896	68916.0	Mm.212227	NM_144536	ENSMUSG00000006191	Cdkal1	1190005B03Rik|6620401C13Rik	CDK5 regulatory subunit associated protein 1-like 1	protein-coding	10.0	13.5	16.0	142.0	24.5	15.0	17.5	13.5
Merged-chr8-78508893-4	chr8	78508806	78509006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009033)	promoter-TSS (NM_009033)	22.0	NM_001252089	19656.0	Mm.24718	NM_009033	ENSMUSG00000037070	Rbmxl1	Hnrpg|Rbmx|Rbmxrt	RNA binding motif protein, X-linked like-1	protein-coding	38.0	43.5	29.5	679.0	123.5	45.5	46.5	35.5
Merged-chr2-58923787-2	chr2	58923687	58923887	+	753.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	168603.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	5.5	5.0	6.0	74.0	5.5	5.0	12.0	2.5
Merged-chr1-39969225-4	chr1	39969130	39969330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 3 of 29)	intron (NM_001252202, intron 3 of 29)	68317.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	30.0	34.5	31.0	707.5	107.0	25.0	36.5	32.5
Merged-chr14-105232635-4	chr14	105232540	105232740	+	920.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26033.0	NM_029561	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	7.0	12.5	12.0	156.5	31.0	15.5	7.5	8.0
Merged-chr9-61370643-4	chr9	61370539	61370739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1727.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	149.0	236.0	70.5	1468.5	367.0	152.5	104.5	151.5
Merged-chr11-98942900-5	chr11	98942772	98942972	+	931.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177303, intron 1 of 8)	intron (NM_001177303, intron 1 of 8)	3161.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	4.0	2.0	5.0	81.5	13.0	8.0	4.5	7.5
Merged-chr1-171660603-4	chr1	171660506	171660706	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER77B|LTR|ERVL	-7569.0	NM_144539	75345.0	Mm.164642	NM_144539	ENSMUSG00000038179	Slamf7	19A|19A24|4930560D03Rik|CRACC|CS1	SLAM family member 7	protein-coding	18.5	39.5	17.0	390.0	67.5	16.5	23.0	28.5
Merged-chr1-86059604-4	chr1	86059513	86059713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5006.0	NM_027357	70247.0	Mm.280013	NM_027357	ENSMUSG00000026229	Psmd1	2410026J11Rik|P112|S1	proteasome (prosome, macropain) 26S subunit, non-ATPase, 1	protein-coding	41.5	72.0	33.0	795.0	138.0	25.0	46.5	45.0
Merged-chr7-66175969-4	chr7	66175863	66176063	+	970.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66448.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	7.0	15.5	16.5	207.5	49.0	6.5	20.0	10.0
Merged-chr4-44014938-4	chr4	44014847	44015047	+	919.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080384, intron 2 of 5)	intron (NM_001080384, intron 2 of 5)	2297.0	NM_001290470	12757.0	Mm.298875	NM_016760	ENSMUSG00000028478	Clta	AV026556|Lca	clathrin, light polypeptide (Lca)	protein-coding	25.0	14.0	29.0	469.0	27.5	7.0	14.5	12.0
Merged-chr16-11174835-4	chr16	11174777	11174977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027502, intron 1 of 22)	intron (NR_027502, intron 1 of 22)	1516.0	NR_027502	106205.0	Mm.226860	NM_145931	ENSMUSG00000037965	Zc3h7a	A430104C18Rik|AI447294|AW556219|HSPC055|Zc3h7|Zc3hdc7	zinc finger CCCH type containing 7 A	protein-coding	20.5	21.0	15.0	165.5	38.5	18.0	15.5	25.0
Merged-chr13-49307246-2	chr13	49307146	49307346	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	1962.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	2.5	10.5	6.0	178.5	15.5	9.5	6.0	11.5
Merged-chr4-99208640-4	chr4	99208541	99208741	+	970.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 1 of 10)	RLTR49|LTR|ERVK	14494.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	18.0	38.5	25.5	114.0	124.5	49.5	68.5	41.5
Merged-chr1-171844364-4	chr1	171844278	171844478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	intron (NM_001289470, intron 2 of 8)	4681.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	102.5	117.0	136.0	1819.0	209.0	98.0	117.5	132.5
Merged-chr18-39319878-4	chr18	39319770	39319970	+	980.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 20 of 21)	intron (NM_001361073, intron 20 of 21)	167375.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	17.5	14.0	12.5	206.5	54.0	23.5	35.5	29.5
Merged-chr11-101971589-3	chr11	101971489	101971689	+	883.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028207, exon 3 of 3)	3' UTR (NM_028207, exon 3 of 3)	-4574.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	9.0	10.0	5.5	77.5	22.5	10.0	12.5	4.5
Merged-chr17-73933845-1	chr17	73933745	73933945	+	752.0	f0_balb.idr	intron (NM_011723, intron 6 of 35)	intron (NM_011723, intron 6 of 35)	16351.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	5.0	4.5	9.0	105.0	7.0	2.5	1.5	5.0
Merged-chr6-114649326-2	chr6	114649226	114649426	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 2 of 19)	intron (NM_001253718, intron 2 of 19)	6229.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	8.5	5.0	9.0	135.5	9.5	2.5	4.0	14.0
Merged-chr14-87417129-6	chr14	87417055	87417255	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253755, intron 1 of 11)	CpG	572.0	NM_001253755	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	28.5	24.0	28.5	416.0	47.0	11.5	19.5	11.5
Merged-chr8-39308336-3	chr8	39308246	39308446	+	908.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044988, intron 2 of 3)	intron (NR_044988, intron 2 of 3)	10366.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	21.5	30.0	22.0	362.0	0.0	0.0	1.0	0.0
Merged-chr17-26012311-4	chr17	26012235	26012435	+	936.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162869, intron 5 of 14)	intron (NM_001162869, intron 5 of 14)	9525.0	NM_153140	215445.0	Mm.41191	NM_153140	ENSMUSG00000037098	Rab11fip3	Cart1|D030060O14Rik|Rab11-FIP3|mKIAA0665	RAB11 family interacting protein 3 (class II)	protein-coding	24.0	17.5	10.5	273.0	50.5	19.5	13.0	20.5
Merged-chr1-87758540-2	chr1	87758432	87758632	+	634.25	f0_balb.idr|f1_balb.idr	intron (NM_029846, intron 1 of 17)	intron (NM_029846, intron 1 of 17)	2521.0	NM_001205392	77040.0	Mm.272972	NM_029846	ENSMUSG00000026289	Atg16l1	1500009K01Rik|Apg16l|Atg16l|WDR30	autophagy related 16-like 1 (S. cerevisiae)	protein-coding	10.0	15.0	4.5	104.0	9.5	2.0	3.0	4.5
Merged-chr14-50925644-4	chr14	50925502	50925702	+	793.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133676)	promoter-TSS (NM_133676)	653.0	NM_009687	11792.0	Mm.203	NM_009687	ENSMUSG00000035960	Apex1	APE|Apex|HAP1|Ref-1	apurinic/apyrimidinic endonuclease 1	protein-coding	8.0	4.0	9.0	72.5	17.0	5.0	8.5	9.5
Merged-chr1-156471278-4	chr1	156471183	156471383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	intron (NM_009230, intron 1 of 15)	3045.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	52.5	86.0	51.0	1002.5	177.5	43.5	61.5	60.0
Merged-chr6-97279508-5	chr6	97279375	97279575	+	886.679077	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-26695.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	6.0	7.5	8.5	75.5	15.5	5.5	6.5	3.5
Merged-chr4-11481859-4	chr4	11481733	11481933	+	848.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4125.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	9.0	11.0	10.5	163.5	20.5	5.0	19.5	10.5
Merged-chr12-35418125-4	chr12	35418012	35418212	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116877.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	14.5	30.5	15.0	333.5	103.0	39.5	50.5	34.0
Merged-chr1-171463336-4	chr1	171463214	171463414	+	802.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172647, exon 10 of 10)	3' UTR (NM_172647, exon 10 of 10)	25753.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	7.0	14.0	4.0	91.5	15.5	7.0	17.0	16.5
Merged-chr11-99311033-2	chr11	99310956	99311156	+	779.416687	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	11885.0	NM_133730	70810.0	Mm.268173	NM_133730	ENSMUSG00000035831	Krt25	4631426H08Rik|Ka38|Krt25a|mIRSa1	keratin 25	protein-coding	1.0	4.0	4.0	47.0	14.5	7.0	5.5	12.0
Merged-chr1-51492055-4	chr1	51492028	51492228	+	919.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13729.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	4.0	8.0	4.0	49.0	9.5	10.5	11.5	7.5
Merged-chr8-94343492-3	chr8	94343410	94343610	+	738.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 13 of 24)	intron (NM_019415, intron 13 of 24)	14302.0	NM_001205311	20497.0	Mm.25804	NM_019415	ENSMUSG00000031766	Slc12a3	AI035291|NCC|NCCT|TSC	solute carrier family 12, member 3	protein-coding	10.0	9.5	10.0	97.0	12.5	3.5	6.5	9.0
Merged-chr1-185224854-4	chr1	185224759	185224959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 2 of 34)	MT2A|LTR|ERVL	-18067.0	NR_034044	100217449.0	Mm.429560	NR_034044	ENSMUSG00000077571	Snora36b	MBI-87	small nucleolar RNA, H/ACA box 36B	snoRNA	71.0	64.5	43.0	1033.5	116.5	30.0	60.5	61.0
Merged-chr1-162626090-1	chr1	162625990	162626190	+	641.0	f0_balb.idr	Intergenic	Intergenic	-13060.0	NM_010865	17926.0	Mm.10694	NM_010865	ENSMUSG00000026697	Myoc	AI957332|GLC1A|TIGR	myocilin	protein-coding	10.5	7.0	9.0	111.5	5.0	5.0	2.0	8.5
Merged-chr6-54593256-4	chr6	54593157	54593357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153573)	promoter-TSS (NM_153573)	-129.0	NM_153573	231997.0	Mm.274693	NM_153573	ENSMUSG00000038074	Fkbp14	BC029109|FKBP-14|FKBP22	FK506 binding protein 14	protein-coding	54.5	88.5	71.0	1036.5	119.0	47.0	75.0	56.0
Merged-chr9-106204685-4	chr9	106204596	106204796	+	933.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011876, intron 1 of 8)	intron (NM_011876, intron 1 of 8)	1588.0	NM_011876	23999.0	Mm.274346	NM_011876	ENSMUSG00000023277	Twf2	A6-related|AU014993|Ptk9l|Ptk9r	twinfilin actin binding protein 2	protein-coding	8.0	26.0	9.5	120.0	31.5	6.5	17.0	21.0
Merged-chr7-142894803-3	chr7	142894697	142894897	+	698.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009377, intron 9 of 12)	intron (NM_009377, intron 9 of 12)	5169.0	NM_009377	21823.0	Mm.1292	NM_009377	ENSMUSG00000000214	Th	-	tyrosine hydroxylase	protein-coding	5.0	8.0	5.5	115.0	20.5	5.5	2.5	3.0
Merged-chr2-50741552-3	chr2	50741461	50741661	+	613.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-168123.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	7.5	7.5	6.0	126.0	6.5	4.5	5.5	9.5
Merged-chr2-25180016-2	chr2	25179916	25180116	+	827.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025980)	promoter-TSS (NM_025980)	-742.0	NM_025980	67122.0	Mm.46539	NM_025980	ENSMUSG00000078202	Nrarp	2700054M22Rik	Notch-regulated ankyrin repeat protein	protein-coding	5.5	4.5	4.5	29.5	7.5	4.5	0.5	2.5
Merged-chr11-110538402-4	chr11	110538311	110538511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59071.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	39.5	55.5	43.0	716.0	78.0	23.5	34.0	78.5
Merged-chr10-25289739-3	chr10	25289676	25289876	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	intron (NM_018747, intron 1 of 7)	9387.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	9.0	6.0	6.5	122.5	9.0	1.5	5.5	2.0
Merged-chr17-27975490-3	chr17	27975385	27975585	+	698.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 2 of 24)	intron (NM_181413, intron 2 of 24)	66179.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	16.0	26.0	16.5	325.5	4.0	0.5	0.5	2.0
Merged-chr7-4228509-4	chr7	4228380	4228580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	-9274.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	24.5	27.5	17.0	413.5	108.0	31.0	28.0	32.5
Merged-chr5-135615481-4	chr5	135615371	135615571	+	900.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-17183.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	13.0	10.0	11.0	258.5	24.0	3.0	8.0	11.5
Merged-chr12-8635785-4	chr12	8635706	8635906	+	866.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36740.0	NM_177802	328059.0	Mm.46326	NM_177802	ENSMUSG00000020600	Slc7a15	Arpat	solute carrier family 7 (cationic amino acid transporter, y+ system), member 15	protein-coding	5.5	11.5	6.5	156.5	27.5	5.0	9.5	9.5
Merged-chr11-69767682-4	chr11	69767583	69767783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029348, intron 1 of 3)	intron (NM_029348, intron 1 of 3)	1771.0	NM_029348	75580.0	Mm.426361	NM_029348	ENSMUSG00000018750	Zbtb4	2310026P19Rik|9230111I22Rik|mKIAA1538	zinc finger and BTB domain containing 4	protein-coding	65.0	56.5	62.0	1089.5	190.0	43.5	85.5	97.5
Merged-chr7-81339916-2	chr7	81339816	81340016	+	795.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	5318.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	5.5	14.5	9.0	82.0	16.0	4.0	5.5	3.5
Merged-chr5-43842880-4	chr5	43842777	43842977	+	900.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009763, exon 9 of 9)	3' UTR (NM_009763, exon 9 of 9)	23984.0	NM_009763	12182.0	Mm.246332	NM_009763	ENSMUSG00000029082	Bst1	114/A10|A530073F09|BP-3|Bp3|Bsta1|CD157|Ly65	bone marrow stromal cell antigen 1	protein-coding	17.5	21.0	21.0	154.0	35.0	15.0	7.5	12.5
Merged-chr8-106603332-3	chr8	106603244	106603444	+	627.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009864)	promoter-TSS (NM_009864)	-6.0	NM_009864	12550.0	Mm.35605	NM_009864	ENSMUSG00000000303	Cdh1	AA960649|ARC-1|E-cad|Ecad|L-CAM|UVO|Um	cadherin 1	protein-coding	6.5	10.5	4.5	54.0	9.0	2.5	4.0	4.5
Merged-chr17-32788032-3	chr17	32787916	32788116	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346705)	promoter-TSS (NM_001346705)	271.0	NM_172458	208292.0	Mm.38813	NM_172458	ENSMUSG00000024298	Zfp871	4732483N19|9030612M13Rik|AI118577|AI265322|mKIAA3006	zinc finger protein 871	protein-coding	19.0	20.5	16.5	147.5	57.0	19.0	11.5	37.5
Merged-chr4-155784261-4	chr4	155784195	155784395	+	900.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033394, exon 2 of 2)	exon (NM_001033394, exon 2 of 2)	1579.0	NM_001033394	320587.0	Mm.384382	NM_001033394	ENSMUSG00000073680	Tmem88b	A230069A22Rik	transmembrane protein 88B	protein-coding	15.5	17.5	29.5	161.0	22.5	12.5	12.5	28.0
Merged-chr17-15467848-3	chr17	15467750	15467950	+	868.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30426.0	NM_011185	19170.0	Mm.32912	NM_011185	ENSMUSG00000014769	Psmb1	AA409053|C81484|Lmpc5	proteasome (prosome, macropain) subunit, beta type 1	protein-coding	5.5	8.5	9.0	99.0	18.5	4.0	6.0	8.0
Merged-chr13-43778323-4	chr13	43778240	43778440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6772.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	85.0	137.5	97.5	1076.0	180.5	63.5	80.0	70.5
Merged-chr11-32226502-4	chr11	32226396	32226596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010822)	promoter-TSS (NM_010822)	-9.0	NM_010822	268395.0	Mm.263161	NM_010822	ENSMUSG00000020287	Mpg	9830006D05|AI326268|APNG|Aag|Mid1	N-methylpurine-DNA glycosylase	protein-coding	81.0	121.5	56.0	1269.0	167.0	61.5	86.0	67.5
Merged-chr19-11804630-4	chr19	11804530	11804730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	14773.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	33.5	51.0	46.0	539.0	39.0	28.0	38.5	35.0
Merged-chr14-70100852-4	chr14	70100739	70100939	+	939.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021328, intron 1 of 8)	intron (NM_021328, intron 1 of 8)	746.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	12.5	16.5	10.5	128.5	42.0	12.5	16.5	18.0
Merged-chr17-65737836-4	chr17	65737721	65737921	+	928.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	34931.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	17.0	29.5	26.5	330.5	43.0	15.5	12.0	13.5
Merged-chr11-100850592-4	chr11	100850470	100850670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113563)	promoter-TSS (NM_001113563)	15.0	NM_001113563	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	64.5	100.5	32.0	725.0	191.5	89.5	84.5	90.5
Merged-chr14-17479119-3	chr14	17479022	17479222	+	994.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-181838.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	5.0	3.0	8.5	184.0	20.0	9.0	5.0	9.0
Merged-chr2-75965199-4	chr2	75965110	75965310	+	919.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12969.0	NM_001081228	620631.0	Mm.389286	NM_001081228	ENSMUSG00000075272	Ttc30a2	-	tetratricopeptide repeat domain 30A2	protein-coding	18.0	17.0	6.0	202.5	27.5	16.0	18.5	21.0
Merged-chr7-43637300-4	chr7	43637163	43637363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 2 of 5)	intron (NM_028236, intron 2 of 5)	2524.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	51.5	84.0	59.5	556.5	164.5	48.0	55.0	64.0
Merged-chr9-111272515-2	chr9	111272415	111272615	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026810)	promoter-TSS (NM_026810)	670.0	NM_175266	77781.0	Mm.209005	NM_175266	ENSMUSG00000046785	Epm2aip1	A930003G21Rik|mKIAA0766	EPM2A (laforin) interacting protein 1	protein-coding	6.5	11.0	17.5	152.0	35.0	7.5	7.0	18.0
Merged-chr18-77868585-4	chr18	77868460	77868660	+	980.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013831, intron 6 of 14)	ID2|SINE|ID	-69907.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	7.0	26.0	8.5	89.0	47.5	3.5	9.5	22.5
Merged-chr10-19526523-4	chr10	19526424	19526624	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31881.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	30.0	55.5	59.5	703.0	51.5	15.5	24.5	17.5
Merged-chr11-30986423-4	chr11	30986326	30986526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026527)	promoter-TSS (NM_026527)	-61.0	NM_001290667	68044.0	Mm.32656	NM_026527	ENSMUSG00000020309	Chac2	-	ChaC, cation transport regulator 2	protein-coding	53.5	108.5	77.0	1077.5	156.0	62.5	106.0	82.5
Merged-chr9-85750009-2	chr9	85749909	85750109	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081282)	promoter-TSS (NM_001081282)	-675.0	NM_175371	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	4.0	18.0	13.5	126.5	14.5	12.0	9.0	14.0
Merged-chr4-145234057-4	chr4	145233992	145234192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	12778.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	103.0	191.0	140.0	1802.0	250.5	109.5	156.5	133.0
Merged-chr7-100856440-4	chr7	100856334	100856534	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	6979.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	24.5	34.0	14.0	345.5	61.0	14.0	27.0	13.0
Merged-chr5-105151013-4	chr5	105150917	105151117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11431.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	27.5	72.0	41.5	307.0	118.5	44.5	51.0	25.5
Merged-chr12-31950440-4	chr12	31950357	31950557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361928)	promoter-TSS (NM_001361928)	-212.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	363.5	595.0	414.5	5617.5	965.0	405.0	437.5	397.0
Merged-chr15-76511978-4	chr15	76511881	76512081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010046)	promoter-TSS (NM_010046)	13.0	NM_010046	13350.0	Mm.22633	NM_010046	ENSMUSG00000022555	Dgat1	ARAT|C75990|D15Ertd23e|Dgat	diacylglycerol O-acyltransferase 1	protein-coding	254.0	497.0	221.5	3125.0	551.0	251.5	276.0	255.0
Merged-chr18-64515723-5	chr18	64515553	64515753	+	941.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142950, intron 1 of 14)	intron (NM_001142950, intron 1 of 14)	904.0	NM_027350	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	1.5	1.0	2.5	21.5	5.5	4.5	4.5	4.5
Merged-chr17-83687163-6	chr17	83687012	83687212	+	824.194458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-19051.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	6.5	8.0	9.0	164.0	26.0	7.0	7.5	11.0
Merged-chr11-118200532-4	chr11	118200430	118200630	+	660.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	L1MB3|LINE|L1	12212.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	5.5	1.0	8.0	96.0	17.0	7.0	9.0	8.0
Merged-chr4-139086214-3	chr4	139086117	139086317	+	721.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008675, intron 1 of 3)	intron (NM_008675, intron 1 of 3)	6753.0	NM_008675	17965.0	Mm.9404	NM_008675	ENSMUSG00000041120	Nbl1	D4H1S1733E|DAN|Dana|NO3	neuroblastoma, suppression of tumorigenicity 1	protein-coding	11.5	12.0	4.0	90.5	19.0	6.5	5.0	13.5
Merged-chr5-115556383-4	chr5	115556246	115556446	+	906.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133915)	TTS (NM_133915)	-3121.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	18.0	18.0	10.5	114.5	18.0	9.0	10.0	10.0
Merged-chr12-108937691-4	chr12	108937591	108937791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	43419.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	35.5	61.0	48.5	831.5	51.0	21.0	34.0	20.0
Merged-chr14-51237716-4	chr14	51237640	51237840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18372.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	53.5	72.0	54.5	519.0	85.0	26.0	30.5	43.0
Merged-chr11-114676028-3	chr11	114675927	114676127	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	559.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	20.5	15.0	16.0	137.5	27.5	13.0	18.0	22.5
Merged-chr4-129783021-4	chr4	129782942	129783142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-37437.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	46.0	78.5	37.5	726.5	74.5	39.0	24.5	25.5
Merged-chr15-66662175-4	chr15	66662082	66662282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-8588.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	39.0	61.5	33.5	679.0	96.5	20.0	26.0	34.0
Merged-chr5-31220695-4	chr5	31220614	31220814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008014)	promoter-TSS (NM_008014)	-169.0	NM_008014	14208.0	Mm.14501	NM_008014	ENSMUSG00000029147	Ppm1g	AI385652|Fin13	protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform	protein-coding	193.5	220.5	158.5	1962.5	424.0	147.5	161.5	177.0
Merged-chr5-134613893-3	chr5	134613756	134613956	+	711.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020044, intron 1 of 12)	intron (NM_020044, intron 1 of 12)	1169.0	NM_022964	56743.0	Mm.391375	NM_020044	ENSMUSG00000040751	Lat2	AW125574|LAB|NTAL|WSCR5|Wbscr15|Wbscr5	linker for activation of T cells family, member 2	protein-coding	4.5	5.5	5.5	86.0	11.0	1.5	5.0	7.5
Merged-chr10-21889616-4	chr10	21889558	21889758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 1 of 13)	intron (NM_001161845, intron 1 of 13)	7474.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	51.0	127.5	64.0	1040.0	139.0	68.5	78.5	64.0
Merged-chr1-172528874-4	chr1	172528770	172528970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027972, intron 2 of 11)	intron (NM_027972, intron 2 of 11)	7740.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	28.0	43.0	29.5	482.5	106.5	40.5	39.0	30.0
Merged-chr13-24641636-3	chr13	24641538	24641738	+	683.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080381, intron 1 of 14)	intron (NM_001080381, intron 1 of 14)	2990.0	NM_029679	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	7.0	6.0	9.0	85.0	19.0	5.0	4.5	13.5
Merged-chr15-34046545-4	chr15	34046436	34046636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36183.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	237.5	339.5	284.0	3295.5	549.0	195.5	249.0	182.5
Merged-chr16-8459347-3	chr16	8459234	8459434	+	742.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11479.0	NM_146247	239706.0	Mm.214953	NM_146247	ENSMUSG00000039345	Mettl22	-	methyltransferase like 22	protein-coding	9.0	11.0	8.5	68.0	12.0	8.5	4.5	10.0
Merged-chr4-133240713-2	chr4	133240625	133240825	+	889.400024	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016693)	promoter-TSS (NM_016693)	-93.0	NM_016693	53608.0	Mm.36640	NM_016693	ENSMUSG00000028862	Map3k6	Ask2|MAPKKK6|MEKK6	mitogen-activated protein kinase kinase kinase 6	protein-coding	0.0	6.5	2.0	21.0	12.0	8.0	11.5	5.0
Merged-chr16-36697802-3	chr16	36697704	36697904	+	893.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 1 of 7)	intron (NM_001285788, intron 1 of 7)	3826.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	7.5	2.5	17.5	144.5	11.5	5.5	7.5	4.5
Merged-chr4-129066489-3	chr4	129066377	129066577	+	727.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	L1_Mus2|LINE|L1	8206.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	9.0	15.5	5.0	11.0	15.5	7.5	6.0	6.5
Merged-chr8-84986056-6	chr8	84985940	84986140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4555.0	NM_133255	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	124.5	221.0	184.5	1605.5	285.5	119.0	134.0	155.0
Merged-chr5-136905882-2	chr5	136905782	136905982	+	756.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2268.0	NM_026073	67286.0	Mm.41779	NM_026073	ENSMUSG00000007987	Ift22	3110017O03Rik|AI835745|AI847427|Rabl5	intraflagellar transport 22	protein-coding	0.0	3.0	0.0	27.0	5.5	7.0	4.5	4.5
Merged-chr11-113787398-7	chr11	113787330	113787530	+	843.595215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172800, intron 44 of 44)	intron (NM_172800, intron 44 of 44)	-35615.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	5.0	4.5	7.5	45.0	11.0	4.0	4.5	5.0
Merged-chr10-24160575-4	chr10	24160492	24160692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	11275.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	40.0	27.5	24.0	546.0	88.5	23.0	35.5	37.0
Merged-chr17-57248490-4	chr17	57248368	57248568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134125)	promoter-TSS (NM_134125)	-779.0	NM_030084	78308.0	Mm.28468	NM_030084	ENSMUSG00000005823	Gpr108	1810015L19Rik|AA589464|C79132|Lustr2	G protein-coupled receptor 108	protein-coding	55.5	99.0	22.5	609.0	92.5	43.5	40.0	39.0
Merged-chr17-50025792-3	chr17	50025709	50025909	+	961.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 7 of 9)	ORR1G|LTR|ERVL-MaLR	164688.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	13.0	5.0	11.0	124.5	23.0	8.5	5.0	4.0
Merged-chr9-122310895-4	chr9	122310805	122311005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-16482.0	NM_133979	102566.0	Mm.87676	NM_133979	ENSMUSG00000037949	Ano10	AI604832|Tmem16k	anoctamin 10	protein-coding	31.0	76.0	38.5	390.0	84.0	34.5	38.0	43.0
Merged-chr2-151973043-3	chr2	151972952	151973152	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146127, intron 1 of 1)	intron (NM_146127, intron 1 of 1)	342.0	NM_001289151	73847.0	Mm.272444	NM_028666	ENSMUSG00000027459	Fam110a	1700008J10Rik|5430432M24Rik|AI747080	family with sequence similarity 110, member A	protein-coding	8.5	14.0	14.0	77.0	14.5	5.0	6.0	8.0
Merged-chr13-73490132-4	chr13	73490035	73490235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 3 of 13)	MTD|LTR|ERVL-MaLR	22752.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	65.5	73.5	79.5	1666.5	120.5	36.5	77.5	100.0
Merged-chr2-60210537-4	chr2	60210433	60210633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020575, intron 1 of 9)	intron (NM_020575, intron 1 of 9)	597.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	53.0	85.5	55.5	699.0	159.0	52.0	44.0	62.5
Merged-chr7-31127584-3	chr7	31127485	31127685	+	803.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011322)	promoter-TSS (NM_011322)	-562.0	NM_011322	20266.0	Mm.1418	NM_011322	ENSMUSG00000019194	Scn1b	-	sodium channel, voltage-gated, type I, beta	protein-coding	6.5	17.5	4.5	71.5	14.0	6.5	2.5	8.0
Merged-chr5-21332340-4	chr5	21332249	21332449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 3 of 18)	intron (NM_029195, intron 3 of 18)	-40324.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	70.0	77.0	51.0	1070.0	112.5	52.5	38.5	34.0
Merged-chr2-124666583-3	chr2	124666506	124666706	+	954.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172537, exon 17 of 17)	3' UTR (NM_172537, exon 17 of 17)	13025.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	7.0	6.0	5.0	239.0	24.0	3.5	14.0	7.5
Merged-chr17-25015367-3	chr17	25015262	25015462	+	917.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020608)	promoter-TSS (NM_020608)	-132.0	NM_020608	57354.0	Mm.328854	NM_020608	ENSMUSG00000038002	Cramp1l	5830477H08Rik|AI256853|AI790734|Cramp1|Tce4|mKIAA1426	cramped chromatin regulator homolog 1	protein-coding	11.5	18.5	14.0	126.5	35.0	14.5	13.5	18.0
Merged-chr16-57339643-4	chr16	57339558	57339758	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025599, intron 1 of 9)	intron (NM_025599, intron 1 of 9)	-13619.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	17.5	26.0	19.0	213.0	62.0	26.0	18.0	7.0
Merged-chr13-20493888-2	chr13	20493781	20493981	+	624.0	f0_balb.idr|f0_c57.idr	intron (NM_198093, intron 1 of 6)	intron (NM_198093, intron 1 of 6)	20891.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	8.0	9.0	9.5	197.5	23.5	8.5	7.0	7.0
Merged-chr4-55665028-4	chr4	55664936	55665136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132561.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	85.5	93.0	77.0	1880.5	167.5	45.5	55.0	93.5
Merged-chr11-114890246-4	chr11	114890167	114890367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347654, exon 1 of 7)	5' UTR (NM_001347654, exon 1 of 7)	226.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	179.5	210.0	208.0	2463.5	410.0	147.0	163.5	201.5
Merged-chr1-64189725-4	chr1	64189640	64189840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-68351.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	36.0	31.0	33.5	368.0	86.5	22.5	33.0	32.5
Merged-chr13-105293439-4	chr13	105293349	105293549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027934)	promoter-TSS (NM_027934)	-435.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	37.0	49.5	61.5	424.5	80.0	25.0	29.5	12.0
Merged-chr7-110844400-4	chr7	110844305	110844505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025999)	promoter-TSS (NM_025999)	-24.0	NM_025999	67150.0	Mm.96867	NM_025999	ENSMUSG00000030788	Rnf141	2610110L04Rik|AA792898|AU022812|ZFP36|ZNF230	ring finger protein 141	protein-coding	46.0	83.0	30.5	565.0	145.0	62.0	50.0	55.5
Merged-chr5-122502994-4	chr5	122502906	122503106	+	914.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009722)	promoter-TSS (NM_009722)	-781.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	18.0	10.5	10.5	180.0	33.0	7.0	4.5	14.5
Merged-chr7-99136375-3	chr7	99136260	99136460	+	723.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	MER21C|LTR|ERVL	4784.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	12.0	10.5	5.0	98.5	5.0	3.0	1.0	3.0
Merged-chr13-97567847-4	chr13	97567788	97567988	+	976.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046157, intron 2 of 2)	intron (NR_046157, intron 2 of 2)	7888.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	25.0	30.0	20.5	392.5	48.0	23.0	20.5	14.0
Merged-chr3-37142037-4	chr3	37141938	37142138	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B5_MM|LTR|ERVK	-16084.0	NM_008366	16183.0	Mm.14190	NM_008366	ENSMUSG00000027720	Il2	Il-2	interleukin 2	protein-coding	44.5	28.5	24.5	596.0	46.0	10.5	21.0	38.0
Merged-chr9-7272424-4	chr9	7272327	7272527	+	982.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008607)	promoter-TSS (NM_008607)	-87.0	NM_008607	17386.0	Mm.5022	NM_008607	ENSMUSG00000050578	Mmp13	Clg|MMP-13|Mmp1	matrix metallopeptidase 13	protein-coding	46.0	38.0	42.5	791.0	42.0	13.5	30.5	11.0
Merged-chr14-70766771-4	chr14	70766724	70766924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023045)	promoter-TSS (NM_023045)	-196.0	NM_023045	65246.0	Mm.152987	NM_023045	ENSMUSG00000022100	Xpo7	4930506C02Rik|BB164534|Ranbp16|exp7	exportin 7	protein-coding	141.5	175.5	96.5	1776.5	247.5	114.5	125.5	126.0
Merged-chr2-32835907-3	chr2	32835806	32836006	+	849.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113569, intron 1 of 19)	intron (NM_001113569, intron 1 of 19)	11326.0	NM_009295	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	8.0	5.0	9.0	91.0	15.5	2.5	1.0	8.5
Merged-chr1-156042063-3	chr1	156041968	156042168	+	937.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172843, intron 2 of 6)	intron (NM_172843, intron 2 of 6)	1207.0	NM_022329	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	1.5	3.5	6.5	53.5	41.5	12.0	6.5	13.5
Merged-chr3-27710519-4	chr3	27710405	27710605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173182)	promoter-TSS (NM_173182)	-53.0	NM_173182	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	72.5	109.0	62.0	1092.0	178.0	77.5	94.0	75.5
Merged-chr8-46887510-4	chr8	46887415	46887615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-99372.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	65.5	72.0	68.0	1008.0	144.0	47.0	63.0	64.5
Merged-chr4-128707616-4	chr4	128707521	128707721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 2 of 14)	intron (NM_018774, intron 2 of 14)	18883.0	NM_018774	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	29.0	54.0	39.0	466.5	83.0	42.0	28.0	29.5
Merged-chr2-34802333-4	chr2	34802275	34802475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2463.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	107.0	168.5	94.0	1167.0	278.0	99.5	100.5	109.5
Merged-chr12-34997939-1	chr12	34997839	34998039	+	848.0	f0_balb.idr	Intergenic	Intergenic	13178.0	NM_029294	75456.0	Mm.79179	NM_029294	ENSMUSG00000092305	Prps1l1	1700011K15Rik	phosphoribosyl pyrophosphate synthetase 1-like 1	protein-coding	12.5	14.0	19.5	287.0	2.0	3.0	0.0	3.0
Merged-chr15-84916794-3	chr15	84916692	84916892	+	909.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-B4-int|LTR|ERVL	-6636.0	NM_016714	18141.0	Mm.28379	NM_016714	ENSMUSG00000016619	Nup50	1700030K07Rik|AI413123|Npap60	nucleoporin 50	protein-coding	3.5	11.5	10.5	273.5	13.5	5.0	9.5	13.5
Merged-chr12-102517841-4	chr12	102517758	102517958	+	924.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37083.0	NM_007693	12652.0	Mm.4137	NM_007693	ENSMUSG00000021194	Chga	ChrA|cgA	chromogranin A	protein-coding	21.5	15.5	6.5	289.0	33.0	9.0	8.5	20.5
Merged-chr18-65501558-1	chr18	65501458	65501658	+	727.666687	f0_balb.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	70561.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	14.5	20.5	14.5	115.0	3.0	0.0	1.0	1.5
Merged-chr1-57429903-4	chr1	57429767	57429967	+	857.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23193.0	NM_001302963	68736.0	Mm.288490	NM_001037742	ENSMUSG00000048495	Tyw5	1110034B05Rik	tRNA-yW synthesizing protein 5	protein-coding	7.5	13.5	10.5	177.0	16.5	3.5	7.0	8.5
Merged-chr4-125116715-4	chr4	125116601	125116801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11180.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	101.0	142.0	153.5	1932.5	230.0	79.0	144.0	97.5
Merged-chr7-5059657-4	chr7	5059540	5059740	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290432, exon 5 of 6)	exon (NM_001290432, exon 5 of 6)	-2503.0	NM_133671	22185.0	Mm.360389	NM_133671	ENSMUSG00000030435	U2af2	65kDa	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2	protein-coding	8.0	20.0	6.0	84.5	23.5	17.5	7.5	17.0
Merged-chr2-45262140-4	chr2	45262024	45262224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144682.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	152.5	232.5	142.5	2114.0	287.0	116.0	142.5	134.0
Merged-chr5-107980135-1	chr5	107980035	107980235	+	798.400024	f0_balb.idr	intron (NM_026062, intron 1 of 4)	L1MB2|LINE|L1	6942.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	13.5	15.5	9.5	164.0	21.0	4.0	7.5	6.0
Merged-chr1-156066298-3	chr1	156066194	156066394	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001358627, exon 6 of 6)	3' UTR (NM_001358627, exon 6 of 6)	25433.0	NM_022329	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	1.0	5.5	0.0	25.0	84.0	28.5	33.5	35.0
Merged-chr7-102210364-4	chr7	102210345	102210545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022979)	promoter-TSS (NM_022979)	110.0	NM_001291358	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	291.5	413.0	271.5	3751.5	592.5	233.0	272.0	225.5
Merged-chr1-148920530-1	chr1	148920430	148920630	+	1000.0	f0_balb.idr	Intergenic	Intergenic	1001909.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	4.5	7.0	28.0	305.0	3.5	4.5	13.0	2.5
Merged-chr4-101716825-4	chr4	101716727	101716927	+	844.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122899)	promoter-TSS (NM_001122899)	-580.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	7.0	19.5	11.0	117.5	38.5	15.0	10.0	4.0
Merged-chr8-46889914-3	chr8	46889795	46889995	+	934.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96992.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	8.0	13.0	9.5	192.5	8.0	6.0	3.5	11.0
Merged-chr15-12233261-4	chr15	12233143	12233343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 3 of 15)	intron (NM_001356498, intron 3 of 15)	28215.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	33.0	78.5	85.0	1364.5	111.0	42.5	76.5	44.5
Merged-chr1-30873427-1	chr1	30873327	30873527	+	1000.0	f0_c57.idr	Intergenic	CpG	-10171.0	NM_001081080	213109.0	Mm.194486	NM_025871	ENSMUSG00000048874	Phf3	2310061N19Rik	PHD finger protein 3	protein-coding	44.0	74.5	75.5	724.0	157.0	53.5	52.5	72.0
Merged-chr6-72851758-3	chr6	72851660	72851860	+	925.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019715, intron 3 of 6)	intron (NM_019715, intron 3 of 6)	47532.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	11.5	20.5	8.5	107.0	6.0	4.5	8.0	8.5
Merged-chr17-28007343-4	chr17	28007234	28007434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 11 of 24)	intron (NM_181413, intron 11 of 24)	73250.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	33.0	43.5	53.0	923.0	67.5	17.0	35.0	22.0
Merged-chr4-16088542-4	chr4	16088481	16088681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74693.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	146.0	148.5	159.0	2167.0	334.0	116.5	154.0	149.5
Merged-chr10-78015631-4	chr10	78015543	78015743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5836.0	NM_001358793	18641.0	Mm.269649	NM_008826	ENSMUSG00000020277	Pfkl	AA407869|ATP-PFK|PFK-B|PFK-L	phosphofructokinase, liver, B-type	protein-coding	53.0	126.0	41.5	681.5	93.5	41.5	37.0	59.5
Merged-chr10-76513384-3	chr10	76513284	76513484	+	857.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019434, intron 28 of 28)	MTD-int|LTR|ERVL-MaLR	-18221.0	NM_146006	16987.0	Mm.55075	NM_146006	ENSMUSG00000033105	Lss	2810025N20Rik|D10Ertd116e|Osc	lanosterol synthase	protein-coding	6.5	17.0	6.0	60.0	27.5	4.0	15.5	12.0
Merged-chr9-114394921-4	chr9	114394826	114395026	+	896.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4214.0	NM_019922	56693.0	Mm.20904	NM_019922	ENSMUSG00000032431	Crtap	5730529N23Rik|CASP|Leprel3|P3h5	cartilage associated protein	protein-coding	12.0	6.0	15.5	231.5	27.5	11.0	10.5	19.5
Merged-chr2-26444573-3	chr2	26444479	26444679	+	859.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153125, intron 1 of 29)	intron (NM_153125, intron 1 of 29)	637.0	NM_153125	227648.0	Mm.206371	NM_153125	ENSMUSG00000026924	Sec16a	AU024582|C230052J16Rik	SEC16 homolog A, endoplasmic reticulum export factor	protein-coding	6.5	6.0	8.0	57.0	24.5	9.0	9.0	7.0
Merged-chr17-34248928-3	chr17	34248828	34249028	+	984.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10023.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	4.5	4.0	3.0	73.0	70.5	13.5	28.5	17.5
Merged-chr19-44294901-4	chr19	44294836	44295036	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009128, exon 2 of 6)	exon (NM_009128, exon 2 of 6)	1260.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	24.5	43.0	8.5	306.0	53.5	16.5	18.5	19.5
Merged-chr10-81378651-4	chr10	81378558	81378758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019757)	promoter-TSS (NM_019757)	-288.0	NM_019757	56371.0	Mm.24202	NM_019757	ENSMUSG00000020235	Fzr1	AW108046|Cdh1|FZR|FZR2|Fyr|HCDH|HCDH1	fizzy and cell division cycle 20 related 1	protein-coding	347.5	548.5	237.0	3744.5	954.5	409.5	432.0	303.5
Merged-chr17-35469120-1	chr17	35469020	35469220	+	562.0	f0_balb.idr	promoter-TSS (NM_010391)	promoter-TSS (NM_010391)	-969.0	NM_010391	15007.0	Mm.88795	NM_010391	ENSMUSG00000067235	H2-Q10	H-2Q10|Q10|Qa10	histocompatibility 2, Q region locus 10	protein-coding	5.5	10.0	5.0	92.5	2.5	0.0	0.5	1.5
Merged-chr19-3325526-4	chr19	3325424	3325624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 1 of 18)	CpG	2223.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	101.5	163.5	55.0	1404.5	298.5	114.5	84.5	110.0
Merged-chr8-120323225-4	chr8	120323115	120323315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94985.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	55.0	97.5	82.5	1326.0	133.0	42.0	53.5	49.5
Merged-chr10-42762690-2	chr10	42762590	42762790	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359285, intron 1 of 19)	intron (NM_001359285, intron 1 of 19)	1194.0	NM_153055	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	6.5	8.0	12.5	43.5	14.5	4.0	4.0	5.5
Merged-chr9-20878297-4	chr9	20878197	20878397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145154, exon 2 of 6)	exon (NM_145154, exon 2 of 6)	1413.0	NM_145154	70726.0	Mm.34019	NM_145154	ENSMUSG00000038742	Angptl6	6330404E11Rik|AGF|ARP3|Arp5	angiopoietin-like 6	protein-coding	297.0	552.0	300.0	3900.0	833.0	376.0	362.5	304.0
Merged-chr17-87281548-4	chr17	87281404	87281604	+	869.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015506, intron 1 of 4)	intron (NR_015506, intron 1 of 4)	1310.0	NR_015506	74597.0	Mm.63783	NR_015506	ENSMUSG00000085287	4833418N02Rik	-	RIKEN cDNA 4833418N02 gene	ncRNA	10.0	14.5	9.5	77.5	41.0	6.0	9.0	10.0
Merged-chr17-24719985-4	chr17	24719875	24720075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008503)	promoter-TSS (NM_008503)	-10.0	NR_027900	73474.0	Mm.443320	NR_027900	ENSMUSG00000090101	Snhg9	1700072N11Rik	small nucleolar RNA host gene 9	ncRNA	164.5	358.0	103.5	1486.5	468.0	227.5	215.5	149.5
Merged-chr17-8140435-4	chr17	8140354	8140554	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026611, intron 4 of 8)	intron (NM_026611, intron 4 of 8)	7334.0	NM_001083938	100037283.0	Mm.426736	NM_001083938	ENSMUSG00000095687	Rnaset2a	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2A	protein-coding	36.5	66.5	35.0	315.0	25.5	15.0	17.5	8.5
Merged-chr2-118374025-4	chr2	118373890	118374090	+	890.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201367)	promoter-TSS (NM_201367)	-571.0	NM_201367	381413.0	Mm.70979	NM_201367	ENSMUSG00000040133	Gpr176	Gm1012	G protein-coupled receptor 176	protein-coding	4.5	10.0	8.5	71.5	27.0	12.5	12.0	20.5
Merged-chr8-24395014-4	chr8	24394913	24395113	+	726.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43933.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	4.0	16.5	5.0	159.5	36.0	7.0	9.5	9.0
Merged-chr15-58798201-4	chr15	58798101	58798301	+	810.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 1 of 6)	intron (NM_175212, intron 1 of 6)	25226.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	7.0	8.0	5.5	63.0	25.5	9.0	8.5	14.0
Merged-chr11-60726869-3	chr11	60726766	60726966	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022009, intron 1 of 29)	CpG	397.0	NM_022009	14248.0	Mm.339755	NM_022009	ENSMUSG00000002812	Flii	3632430F08Rik|Fliih	flightless I actin binding protein	protein-coding	20.0	23.5	20.0	292.0	31.5	9.5	20.0	16.5
Merged-chr8-122985502-3	chr8	122985411	122985611	+	593.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	56773.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	12.0	11.0	11.5	85.0	7.5	0.0	0.5	2.0
Merged-chr3-89863876-4	chr3	89863786	89863986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32516.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	74.0	98.5	65.5	1119.5	112.5	48.0	56.0	44.5
Merged-chr1-170853775-4	chr1	170853678	170853878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 2 of 15)	intron (NM_001081304, intron 2 of 15)	13993.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	88.0	144.5	61.5	1051.0	175.5	87.0	73.5	47.5
Merged-chr10-20828513-4	chr10	20828418	20828618	+	775.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-103440.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	18.0	20.5	6.5	209.0	34.0	10.0	10.0	9.5
Merged-chr1-153803137-4	chr1	153803050	153803250	+	931.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243223, intron 13 of 20)	intron (NM_001243223, intron 13 of 20)	40991.0	NM_001243223	240816.0	Mm.329340	NM_001243223	ENSMUSG00000042641	Rgsl1	4930415K13Rik|Gm202|Rgsl2	regulator of G-protein signaling like 1	protein-coding	18.5	46.0	21.0	101.5	63.0	16.0	13.0	11.5
Merged-chr4-103359304-3	chr4	103359235	103359435	+	892.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025909, intron 8 of 8)	intron (NM_025909, intron 8 of 8)	-23165.0	NR_040673	622167.0	Mm.244115	NR_040673	ENSMUSG00000086136	Gm12718	-	predicted gene 12718	ncRNA	11.5	6.5	12.0	212.0	17.5	6.0	6.5	9.0
Merged-chr3-105959308-4	chr3	105959214	105959414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027432)	promoter-TSS (NM_027432)	-184.0	NM_027432	70465.0	Mm.5110	NM_027432	ENSMUSG00000000561	Wdr77	2610003I18Rik|2610312E17Rik|C79984|p44/MEP50	WD repeat domain 77	protein-coding	84.0	168.5	99.5	800.5	271.5	151.0	79.0	137.0
Merged-chr5-136086360-7	chr5	136086271	136086471	+	958.9761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	2455.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	3.0	8.5	7.0	52.5	22.0	11.0	6.5	8.5
Merged-chr2-118260015-4	chr2	118259926	118260126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3060.0	NM_027759	71313.0	Mm.85046	NM_027759	ENSMUSG00000027344	Fsip1	1700012M13Rik|4933432K11Rik	fibrous sheath-interacting protein 1	protein-coding	52.0	62.5	22.5	512.0	99.0	53.5	41.0	43.0
Merged-chr9-50593161-4	chr9	50593064	50593264	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10685.0	NM_025848	66925.0	Mm.10406	NM_025848	ENSMUSG00000000171	Sdhd	3110001M13Rik|AVLL5809|C78570|PRO19626	succinate dehydrogenase complex, subunit D, integral membrane protein	protein-coding	17.5	31.0	9.5	270.0	35.0	20.0	20.5	12.5
Merged-chr7-141131274-4	chr7	141131183	141131383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013782)	promoter-TSS (NM_013782)	-3.0	NM_013782	27388.0	Mm.293591	NM_013782	ENSMUSG00000025495	Ptdss2	AI481134|AI988017|PSS2	phosphatidylserine synthase 2	protein-coding	51.5	88.0	35.0	680.0	110.5	65.5	70.5	58.0
Merged-chr1-166631938-4	chr1	166631855	166632055	+	907.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164312, intron 8 of 8)	intron (NM_001164312, intron 8 of 8)	15738.0	NM_001164312	226604.0	Mm.330032	NM_001164312	ENSMUSG00000051081	Gm4847	EG226604|Fmo12	predicted gene 4847	protein-coding	7.0	26.5	33.0	433.5	29.5	8.0	27.0	18.5
Merged-chr3-79126860-3	chr3	79126756	79126956	+	701.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 1 of 23)	intron (NM_001099624, intron 1 of 23)	18031.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	1.0	1.0	0.5	22.5	19.0	9.5	7.5	8.5
Merged-chr4-138866686-2	chr4	138866568	138866768	+	734.56665	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3199.0	NM_001122954	18784.0	Mm.486532	NM_011110	ENSMUSG00000041193	Pla2g5	PLA2|sPLA2	phospholipase A2, group V	protein-coding	7.0	11.5	5.5	67.0	12.5	0.5	4.0	9.0
Merged-chr4-155121400-4	chr4	155121292	155121492	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356327, intron 10 of 12)	intron (NM_001356327, intron 10 of 12)	34788.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	24.0	25.5	33.0	454.0	22.0	2.5	15.5	8.5
Merged-chr12-51706991-3	chr12	51706892	51707092	+	906.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329698, intron 1 of 5)	intron (NM_001329698, intron 1 of 5)	-15078.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	9.0	8.5	8.0	190.5	14.5	6.5	12.5	27.0
Merged-chr13-42061055-2	chr13	42060954	42061154	+	682.5	f0_balb.idr|f0_c57.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	9033.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	10.5	13.0	2.0	116.5	23.0	8.5	18.0	5.5
Merged-chr12-111417587-4	chr12	111417490	111417690	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028807, exon 1 of 13)	5' UTR (NM_028807, exon 1 of 13)	145.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	16.5	9.0	16.0	66.5	31.0	6.5	15.0	9.5
Merged-chr7-128344630-5	chr7	128344497	128344697	+	675.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46466.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	10.0	2.0	3.0	153.0	15.5	4.5	12.0	7.0
Merged-chr11-84916393-4	chr11	84916293	84916493	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005223)	promoter-TSS (NM_001005223)	-27.0	NM_001005223	448850.0	Mm.379733	NM_001005223	ENSMUSG00000020526	Znhit3	Myohd1|TRIP-3|Trip3	zinc finger, HIT type 3	protein-coding	51.0	49.5	20.5	292.5	118.5	37.5	18.0	26.0
Merged-chr17-50470636-4	chr17	50470523	50470723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38924.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	61.0	104.5	28.0	693.5	231.0	82.0	38.0	60.0
Merged-chr17-17454828-4	chr17	17454761	17454961	+	990.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025681, intron 5 of 5)	intron (NM_025681, intron 5 of 5)	52175.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	36.5	58.5	24.0	313.5	51.5	12.0	25.5	17.0
Merged-chr2-6209358-3	chr2	6209266	6209466	+	638.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024208, intron 1 of 4)	intron (NM_024208, intron 1 of 4)	3628.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	9.0	7.0	11.0	137.5	4.0	2.0	4.0	2.5
Merged-chr18-34118648-1	chr18	34118548	34118748	+	591.0	f1_c57bl6.idr	Intergenic	MER5B|DNA|hAT-Charlie	-102336.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	5.5	6.5	5.0	57.0	11.5	3.0	10.0	5.5
Merged-chr13-38193040-3	chr13	38192942	38193142	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023842, exon 23 of 24)	exon (NM_023842, exon 23 of 24)	-11897.0	NM_026382	67797.0	Mm.250783	NM_026382	ENSMUSG00000021431	Snrnp48	1110050F08Rik|6530403A03Rik|C6orf151	small nuclear ribonucleoprotein 48 (U11/U12)	protein-coding	47.5	62.5	47.0	1241.0	2.0	3.5	0.5	0.0
Merged-chr6-54886416-3	chr6	54886312	54886512	+	798.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199143, intron 4 of 4)	intron (NM_199143, intron 4 of 4)	69496.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	8.5	14.5	9.0	281.5	17.0	4.5	8.0	7.5
Merged-chr2-77268731-1	chr2	77268631	77268831	+	616.0	f0_balb.idr	intron (NM_175465, intron 1 of 17)	intron (NM_175465, intron 1 of 17)	11861.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	6.5	7.0	1.0	168.5	10.5	9.0	11.0	14.5
Merged-chr5-5186291-4	chr5	5186218	5186418	+	994.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 5 of 14)	intron (NM_011074, intron 5 of 14)	79750.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	21.0	19.5	22.0	491.5	59.0	20.0	19.0	20.5
Merged-chr7-100817365-1	chr7	100817265	100817465	+	632.0	f0_balb.idr	intron (NM_178764, intron 4 of 8)	ID_B1|SINE|B4	46048.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	5.0	5.0	9.0	87.0	16.0	7.5	4.5	2.5
Merged-chr15-59615100-4	chr15	59614995	59615195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33559.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	56.0	71.0	59.0	1108.5	200.5	71.5	74.5	78.0
Merged-chr8-66438059-4	chr8	66437956	66438156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 6 of 7)	intron (NM_175188, intron 6 of 7)	48474.0	NM_025465	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	72.5	95.5	69.0	1022.0	168.0	50.5	95.0	74.5
Merged-chr10-121571707-4	chr10	121571608	121571808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019786, intron 5 of 20)	intron (NM_019786, intron 5 of 20)	15086.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	41.0	96.5	42.5	770.5	202.0	86.0	89.5	80.0
Merged-chr2-58161128-4	chr2	58161046	58161246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1024.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	145.5	146.5	158.0	2460.5	378.0	124.5	218.5	141.5
Merged-chr2-120481705-4	chr2	120481604	120481804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109761, intron 2 of 20)	intron (NM_001109761, intron 2 of 20)	4795.0	NM_001109761	12335.0	Mm.458021	NM_007601	ENSMUSG00000079110	Capn3	AI323605|Capa-3|Capa3|Lp82|p94	calpain 3	protein-coding	28.5	53.5	42.5	517.0	36.5	15.5	19.5	23.5
Merged-chr1-172217318-4	chr1	172217190	172217390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009813, intron 2 of 10)	intron (NM_009813, intron 2 of 10)	2605.0	NM_009813	12372.0	Mm.12829	NM_009813	ENSMUSG00000007122	Casq1	CSQ|CSQ-1|CSQ1|sCSQ	calsequestrin 1	protein-coding	37.0	52.5	46.5	613.5	125.0	42.0	38.0	40.0
Merged-chr16-91740375-3	chr16	91740277	91740477	+	955.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	11006.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	12.0	7.0	4.0	219.5	7.0	4.5	4.5	9.5
Merged-chr4-116597601-4	chr4	116597518	116597718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029450)	promoter-TSS (NR_029450)	12.0	NR_029450	654318.0	Mm.255685	NR_029450	ENSMUSG00000085408	C530005A16Rik	D930044c15rik	RIKEN cDNA C530005A16 gene	ncRNA	58.5	82.5	56.0	995.0	179.5	60.5	53.5	49.0
Merged-chr2-164083807-4	chr2	164083708	164083908	+	894.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021420, intron 3 of 10)	intron (NM_021420, intron 3 of 10)	9630.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	20.5	10.0	15.5	114.0	32.0	6.0	16.0	8.5
Merged-chr13-91132998-3	chr13	91132879	91133079	+	760.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 3 of 7)	intron (NM_025770, intron 3 of 7)	91008.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	13.0	5.0	7.0	129.5	2.5	4.0	5.0	5.0
Merged-chr14-118691932-6	chr14	118691793	118691993	+	841.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163676, intron 1 of 29)	intron (NM_001163676, intron 1 of 29)	14326.0	NM_001163676	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	5.5	4.5	8.0	46.5	36.0	19.5	16.0	14.0
Merged-chr15-95810689-4	chr15	95810590	95810790	+	943.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	19382.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	15.0	12.0	9.5	118.5	31.0	2.0	19.0	24.0
Merged-chr9-113792820-4	chr9	113792715	113792915	+	931.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286603)	promoter-TSS (NM_001286603)	-515.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	23.5	19.5	13.5	341.0	27.0	5.0	17.5	14.5
Merged-chr7-129526218-3	chr7	129526126	129526326	+	928.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65637.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	17.5	14.5	28.0	123.0	24.5	13.5	9.0	3.5
Merged-chr7-38018659-4	chr7	38018552	38018752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011274, intron 1 of 10)	(TG)n|Simple_repeat|Simple_repeat	900.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	29.5	35.5	25.0	420.0	112.0	41.0	53.5	48.5
Merged-chr2-153174493-4	chr2	153174414	153174614	+	954.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	L1ME1|LINE|L1	13213.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	22.0	29.5	12.0	163.0	46.5	16.5	10.0	16.5
Merged-chr10-37222842-3	chr10	37222760	37222960	+	838.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83934.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.0	20.0	13.0	87.5	22.5	11.0	10.0	1.0
Merged-chr19-45015728-3	chr19	45015660	45015860	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145503, intron 1 of 4)	CpG	550.0	NM_001130525	226154.0	Mm.28204	NM_145503	ENSMUSG00000035342	Lzts2	BC014695|LAPSER1|mKIAA1813	leucine zipper, putative tumor suppressor 2	protein-coding	17.5	6.0	6.5	67.0	16.5	3.0	7.5	3.5
Merged-chr6-38550797-4	chr6	38550690	38550890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138680)	promoter-TSS (NM_138680)	-544.0	NM_138680	192196.0	Mm.276133	NM_138680	ENSMUSG00000029823	Luc7l2	4930471C18Rik|AA522013|AU015269|CGI59|Cgi74	LUC7-like 2 (S. cerevisiae)	protein-coding	38.0	75.0	36.5	743.0	105.5	40.5	50.0	31.0
Merged-chr6-87887845-4	chr6	87887733	87887933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017477)	promoter-TSS (NM_017477)	-107.0	NM_017477	54161.0	Mm.258785	NM_017477	ENSMUSG00000030058	Copg1	AU019265|BC056168|Copg|D6Ertd71e|D6Wsu16e	coatomer protein complex, subunit gamma 1	protein-coding	150.0	256.5	120.5	1819.5	362.5	173.0	136.0	158.0
Merged-chr8-108683906-4	chr8	108683806	108684006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30738.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	21.5	44.5	38.0	478.5	48.5	22.0	26.0	19.5
Merged-chr4-117918924-4	chr4	117918832	117919032	+	668.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-3933.0	NM_146152	230673.0	Mm.287810	NM_146152	ENSMUSG00000033365	Ipo13	Imp13|Kap13|Ranbp13	importin 13	protein-coding	3.5	13.5	9.5	137.0	18.0	9.0	8.0	9.5
Merged-chr15-63497385-4	chr15	63497276	63497476	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17768.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	20.0	22.5	23.0	446.0	46.0	22.5	15.0	24.5
Merged-chr10-7955445-4	chr10	7955350	7955550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138667, intron 1 of 6)	CpG	673.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	39.5	89.0	96.0	813.5	140.0	57.5	57.0	62.5
Merged-chr11-80382726-1	chr11	80382626	80382826	+	645.0	f0_c57.idr	promoter-TSS (NM_011751)	promoter-TSS (NM_011751)	-553.0	NM_001130169	22680.0	Mm.401332	NM_011751	ENSMUSG00000017421	Zfp207	8430401D15Rik|BuGZ|Zep|Znf207	zinc finger protein 207	protein-coding	5.0	13.0	6.0	139.0	22.5	13.0	3.5	12.5
Merged-chr6-83616669-4	chr6	83616579	83616779	+	921.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	39437.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	25.0	20.5	13.0	246.0	55.0	13.0	18.5	15.0
Merged-chr2-103058428-3	chr2	103058324	103058524	+	788.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175094, intron 2 of 10)	intron (NM_175094, intron 2 of 10)	15089.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	13.0	9.0	11.0	172.0	26.0	6.0	5.5	6.5
Merged-chr17-50512411-4	chr17	50512300	50512500	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	2853.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	3.5	15.0	9.5	157.0	28.0	17.5	18.0	10.0
Merged-chr18-60723374-4	chr18	60723277	60723477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	4189.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	43.5	84.0	33.5	1049.5	116.0	39.5	44.5	32.5
Merged-chr7-75701972-4	chr7	75701869	75702069	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 16 of 36)	intron (NM_029332, intron 16 of 36)	-146369.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	19.0	21.5	22.5	332.0	47.0	13.0	17.0	14.0
Merged-chr17-5596690-4	chr17	5596610	5596810	+	814.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	104110.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	7.5	20.0	9.5	164.0	22.0	3.5	7.5	7.0
Merged-chr4-134094135-4	chr4	134094051	134094251	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013706, intron 1 of 1)	intron (NM_013706, intron 1 of 1)	922.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	7.0	12.5	5.5	81.5	99.5	31.5	31.0	26.5
Merged-chr11-72782296-4	chr11	72782196	72782396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024926, intron 3 of 3)	ORR1E|LTR|ERVL-MaLR	13543.0	NM_001024926	192986.0	Mm.194755	NM_001024926	ENSMUSG00000057778	Cyb5d2	9330151E16Rik|Gm2	cytochrome b5 domain containing 2	protein-coding	35.0	57.0	22.5	434.0	92.5	24.5	36.0	38.5
Merged-chr17-86732269-4	chr17	86732175	86732375	+	990.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21589.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	49.0	49.0	39.5	681.0	60.0	15.5	26.5	30.0
Merged-chr4-122872128-4	chr4	122872043	122872243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007598, intron 2 of 12)	intron (NM_007598, intron 2 of 12)	13933.0	NM_001358035	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	62.0	104.0	41.0	632.0	152.0	76.0	79.0	62.0
Merged-chr5-77140311-3	chr5	77140206	77140406	+	712.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25183.0	NM_175606	74318.0	Mm.181852	NM_175606	ENSMUSG00000059325	Hopx	1110018K11Rik|1200015P04Rik|2300002F06Rik|AI848177|AW490897|Cameo|Hdop|Hod|Hop|Ob1|Obl|Toto	HOP homeobox	protein-coding	1.0	7.0	8.0	44.0	18.5	6.0	5.0	9.0
Merged-chr9-119403650-2	chr9	119403550	119403750	+	772.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007397, intron 1 of 9)	intron (NM_007397, intron 1 of 9)	1472.0	NM_001313757	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	12.0	8.0	8.5	63.0	15.0	5.0	7.0	8.5
Merged-chr17-33904097-4	chr17	33904001	33904201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1034.0	NR_040470	474160.0	Mm.206186	NR_040470	ENSMUSG00000092349	Platr17	-	pluripotency associated transcript 17	ncRNA	22.5	76.0	28.5	297.0	96.0	43.5	31.0	33.5
Merged-chr7-142462746-4	chr7	142462670	142462870	+	917.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136071, intron 1 of 10)	intron (NM_001136071, intron 1 of 10)	1958.0	NM_001136071	16985.0	Mm.234003	NM_019391	ENSMUSG00000018819	Lsp1	Lsp-1|WP34|p50|pp52	lymphocyte specific 1	protein-coding	8.5	15.0	8.0	28.5	86.5	45.5	25.5	25.5
Merged-chr1-40322035-4	chr1	40321929	40322129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2560.0	NM_001356478	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	82.5	80.5	78.5	1363.0	144.0	60.5	90.0	84.0
Merged-chr11-58939576-3	chr11	58939475	58939675	+	844.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022423)	promoter-TSS (NM_022423)	-669.0	NM_022423	108660.0	Mm.249986	NM_022423	ENSMUSG00000020496	Rnf187	2410016F01Rik|AB030190|RACO-1	ring finger protein 187	protein-coding	8.0	14.0	6.5	32.0	17.0	7.0	5.5	7.5
Merged-chr5-135909683-4	chr5	135909587	135909787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018871, exon 2 of 2)	3' UTR (NM_018871, exon 2 of 2)	21768.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	85.0	93.5	120.0	1388.5	153.0	63.5	90.0	106.0
Merged-chr12-71807500-4	chr12	71807418	71807618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD2|LINE|L1	-23550.0	NM_026102	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	18.5	23.0	19.0	480.5	50.0	18.0	39.5	27.0
Merged-chr15-67301854-1	chr15	67301754	67301954	+	765.666687	f0_balb.idr	intron (NR_045140, intron 5 of 8)	intron (NR_045140, intron 5 of 8)	75085.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	15.0	16.0	14.5	140.0	6.0	1.0	6.0	1.0
Merged-chr7-92874393-6	chr7	92874222	92874422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028243)	promoter-TSS (NM_028243)	-75.0	NM_001080995	74041.0	Mm.26468	NM_028729	ENSMUSG00000030641	Ddias	4632434I11Rik|noxin	DNA damage-induced apoptosis suppressor	protein-coding	128.5	164.5	176.0	1483.5	219.5	89.5	133.5	97.5
Merged-chr6-126939607-4	chr6	126939514	126939714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138594)	promoter-TSS (NM_138594)	-27.0	NM_009013	19362.0	Mm.204634	NM_009013	ENSMUSG00000030346	Rad51ap1	2510006L10Rik|RAB22	RAD51 associated protein 1	protein-coding	141.0	198.5	170.0	2044.0	350.0	139.0	190.0	161.5
Merged-chr16-94526584-4	chr16	94526478	94526678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007834)	promoter-TSS (NM_007834)	51.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	155.0	267.0	151.0	1638.0	524.5	247.5	234.0	174.0
Merged-chr12-70136600-4	chr12	70136496	70136696	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17575.0	NM_001195033	100504285.0	Mm.291105	NM_001195033	ENSMUSG00000090121	Abhd12b	Gm804	abhydrolase domain containing 12B	protein-coding	35.0	34.0	21.5	555.0	56.0	27.0	19.0	20.0
Merged-chr6-40573825-4	chr6	40573720	40573920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2432.0	NM_146383	258381.0	Mm.377469	NM_146383	ENSMUSG00000045514	Olfr460	MOR120-2	olfactory receptor 460	protein-coding	70.5	85.0	145.0	2108.0	162.5	59.0	67.5	58.0
Merged-chr5-122108287-4	chr5	122108177	122108377	+	903.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289809, intron 11 of 11)	intron (NM_001289809, intron 11 of 11)	7326.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	16.0	34.5	13.5	148.0	25.0	6.0	19.0	11.0
Merged-chr7-54861421-1	chr7	54861321	54861521	+	831.75	f0_balb.idr	intron (NM_178705, intron 1 of 11)	intron (NM_178705, intron 1 of 11)	26176.0	NM_178705	233271.0	Mm.387344	NM_178705	ENSMUSG00000063297	Luzp2	9330154K17Rik|D130073E01	leucine zipper protein 2	protein-coding	10.5	21.0	8.0	154.5	4.5	0.0	2.0	2.0
Merged-chr4-119738834-4	chr4	119738729	119738929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75849.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	30.0	44.0	14.0	384.5	95.0	21.5	32.0	28.5
Merged-chr11-104469465-4	chr11	104469381	104469581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359634)	promoter-TSS (NM_001359634)	-620.0	NM_001359634	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	35.0	33.0	18.0	371.5	94.5	35.5	39.5	29.5
Merged-chr6-15842058-4	chr6	15841950	15842150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121389.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	39.5	31.5	26.5	167.0	87.5	26.5	28.0	26.5
Merged-chr3-88177678-4	chr3	88177581	88177781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045997, exon 1 of 3)	non-coding (NR_045997, exon 1 of 3)	104.0	NR_045997	76642.0	Mm.424420	NR_045997	ENSMUSG00000096935	1700113A16Rik	2210408E11Rik|AA408983	RIKEN cDNA 1700113A16 gene	ncRNA	174.5	308.5	147.0	2413.0	444.5	199.0	198.5	195.0
Merged-chr2-156729903-5	chr2	156729831	156730031	+	932.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042487, intron 1 of 6)	intron (NM_001042487, intron 1 of 6)	8652.0	NM_001042487	228836.0	Mm.22094	NM_146128	ENSMUSG00000061689	Dlgap4	AI225853|BC024558|DAP-4|DAP4|SAPAP-4|Sapap4|WBP16	DLG associated protein 4	protein-coding	31.5	24.5	33.5	328.0	28.0	14.5	14.0	11.0
Merged-chr11-70813179-4	chr11	70813067	70813267	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045526)	promoter-TSS (NM_001045526)	-606.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	13.5	19.5	11.5	180.0	28.5	3.5	11.5	12.5
Merged-chr12-76369557-4	chr12	76369462	76369662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172104)	promoter-TSS (NM_001172104)	-2.0	NM_028356	109929.0	Mm.41880	NM_028356	ENSMUSG00000056459	Zbtb25	2810462M08Rik|2900064P18Rik|AI842128|Kup|Zfp-50|Zfp50	zinc finger and BTB domain containing 25	protein-coding	138.5	216.5	198.0	2091.5	373.5	146.5	207.5	123.0
Merged-chr2-32647464-3	chr2	32647371	32647571	+	955.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146348, intron 1 of 14)	intron (NM_001146348, intron 1 of 14)	876.0	NM_001146348	13805.0	Mm.225297	NM_007932	ENSMUSG00000026814	Eng	AI528660|AI662476|CD105|Endo|S-endoglin	endoglin	protein-coding	9.0	17.0	19.5	267.0	11.0	3.5	9.5	7.0
Merged-chr12-106683855-3	chr12	106683761	106683961	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32463.0	NR_015512	71033.0	Mm.159404	NR_015512	ENSMUSG00000085820	4933406K04Rik	4930426M03Rik|4930485I22Rik|4933427G14Rik	RIKEN cDNA 4933406K04 gene	ncRNA	5.0	15.5	18.5	289.0	13.0	3.5	6.0	9.0
Merged-chr6-115987533-2	chr6	115987433	115987633	+	992.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026376, intron 1 of 35)	intron (NM_026376, intron 1 of 35)	7472.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	7.5	18.5	8.0	40.5	14.5	5.5	10.0	6.0
Merged-chr8-41417114-4	chr8	41417000	41417200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013522)	promoter-TSS (NM_013522)	18.0	NM_013522	14300.0	Mm.217312	NM_013522	ENSMUSG00000031590	Frg1	-	FSHD region gene 1	protein-coding	103.0	132.5	70.5	1115.5	200.5	90.5	98.5	95.0
Merged-chr18-15202413-4	chr18	15202319	15202519	+	962.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50973.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	25.5	8.0	34.0	467.5	48.0	20.5	32.0	18.0
Merged-chr2-125791570-4	chr2	125791425	125791625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8655.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	70.5	80.5	60.5	953.5	170.0	70.5	81.0	84.5
Merged-chr12-35888249-1	chr12	35888149	35888349	+	637.0	f1_balb.idr	Intergenic	Intergenic	-37372.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	9.5	6.5	4.5	174.0	2.0	0.5	2.0	1.0
Merged-chr17-35232241-4	chr17	35232127	35232327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010909, intron 2 of 3)	intron (NM_010909, intron 2 of 3)	-2783.0	NM_001347351	66237.0	Mm.396107	NM_023179	ENSMUSG00000024403	Atp6v1g2	1500002D01Rik|Atp6g2|NG38|VAG2	ATPase, H+ transporting, lysosomal V1 subunit G2	protein-coding	36.5	64.5	20.5	318.0	53.0	26.5	22.5	28.0
Merged-chr5-21372087-3	chr5	21371972	21372172	+	886.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008013)	promoter-TSS (NM_008013)	-601.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	4.0	8.5	3.5	165.5	25.0	6.0	6.0	17.0
Merged-chr17-31038577-4	chr17	31038481	31038681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19113.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	160.5	196.5	186.0	2519.0	192.0	51.0	68.5	74.0
Merged-chr4-46485833-4	chr4	46485713	46485913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3516.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	45.0	40.0	29.5	531.5	78.5	36.0	62.5	45.5
Merged-chr8-35109911-2	chr8	35109868	35110068	+	768.791626	f0_balb.idr|f1_balb.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-144278.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	9.0	11.5	8.0	186.5	16.0	4.0	2.5	9.5
Merged-chr13-37486462-3	chr13	37486349	37486549	+	864.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	141104.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	17.0	14.5	23.5	441.0	0.0	0.5	0.0	1.5
Merged-chr6-122650755-4	chr6	122650653	122650853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24329.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	116.5	187.5	72.5	781.0	271.0	118.5	134.0	66.0
Merged-chr7-7299545-4	chr7	7299449	7299649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302386)	promoter-TSS (NM_001302386)	8.0	NM_001302387	12727.0	Mm.297883	NM_011334	ENSMUSG00000000605	Clcn4	Clc4-2|Clcn4-2|clC-4	chloride channel, voltage-sensitive 4	protein-coding	94.5	141.0	66.5	719.0	250.5	95.5	114.0	106.5
Merged-chr11-111067031-4	chr11	111066930	111067130	+	953.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008425, intron 1 of 1)	intron (NM_008425, intron 1 of 1)	866.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	13.5	31.5	8.0	150.0	54.5	18.5	31.0	10.5
Merged-chr7-88304650-4	chr7	88304548	88304748	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 5 of 6)	intron (NM_009982, intron 5 of 6)	26563.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	22.0	34.0	31.0	623.0	47.5	12.5	9.5	13.5
Merged-chr12-86884815-4	chr12	86884699	86884899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145836)	promoter-TSS (NM_145836)	15.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	84.5	136.5	100.5	970.5	243.0	96.5	110.5	122.0
Merged-chr8-25192076-3	chr8	25191976	25192176	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177089, intron 2 of 12)	intron (NM_177089, intron 2 of 12)	9466.0	NM_199323	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	7.0	7.5	8.0	152.0	13.5	4.0	7.5	4.5
Merged-chr8-9008433-6	chr8	9008379	9008579	+	894.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123809.0	NR_045854	71249.0	Mm.158635	NR_045854	ENSMUSG00000108848	4933430N04Rik	-	RIKEN cDNA 4933430N04 gene	ncRNA	9.5	21.5	4.5	117.5	5.0	5.0	3.5	2.5
Merged-chr15-36683062-4	chr15	36682948	36683148	+	891.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74075.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	10.5	14.0	6.0	262.0	27.0	7.0	14.0	11.5
Merged-chr3-105900892-4	chr3	105900784	105900984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-3537.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	41.5	67.0	34.0	734.0	117.5	25.0	58.0	44.0
Merged-chr2-119897218-4	chr2	119897127	119897327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164274)	promoter-TSS (NM_001164274)	-1.0	NM_001164274	29808.0	Mm.87532	NM_013720	ENSMUSG00000033943	Mga	AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5	MAX gene associated	protein-coding	152.5	152.5	95.5	1679.0	241.5	113.5	91.5	92.0
Merged-chr4_GL456216_random-34969-1	chr4_GL456216_random	34869	35069	+	946.0	f0_c57.idr	intron (NM_001033326, intron 6 of 6)	CpG-10796	19088.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	44.5	18.5	16.5	26.5
Merged-chr3-96708506-4	chr3	96708420	96708620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030094)	promoter-TSS (NM_030094)	40.0	NM_001162925	78373.0	Mm.423186	NM_030094	ENSMUSG00000028100	Nudt17	2410015C20Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 17	protein-coding	24.0	32.0	26.0	323.0	62.0	23.5	39.0	31.0
Merged-chr3-106482669-7	chr3	106482539	106482739	+	856.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033207, exon 2 of 2)	non-coding (NR_033207, exon 2 of 2)	189.0	NM_001278941	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	16.5	22.5	14.5	175.0	31.0	10.0	15.0	15.5
Merged-chr11-68655742-4	chr11	68655660	68655860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36155.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	83.0	136.5	152.0	1710.0	212.5	72.0	104.0	114.0
Merged-chr14-31458703-4	chr14	31458588	31458788	+	935.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22588.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	15.0	23.0	12.0	454.5	30.0	13.5	27.5	28.5
Merged-chr2-31689234-4	chr2	31689151	31689351	+	888.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153862)	promoter-TSS (NR_153862)	714.0	NM_001283046	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	2.0	18.0	17.0	134.0	28.5	6.5	9.5	13.5
Merged-chr1-172027387-4	chr1	172027273	172027473	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033509)	promoter-TSS (NM_033509)	-78.0	NM_033509	93840.0	Mm.36148	NM_033509	ENSMUSG00000026556	Vangl2	C530001F03Rik|Lootl|Lp|Lpp1|Ltap|Vang1l2|loop-tail|ska17|ska<m17Jus>|stbm|strabismus	VANGL planar cell polarity 2	protein-coding	18.5	37.5	20.0	271.5	31.0	12.5	8.0	14.0
Merged-chr12-111035353-4	chr12	111035261	111035461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4437.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	49.5	39.0	29.0	425.5	97.0	48.0	52.5	29.0
Merged-chr15-78926678-3	chr15	78926576	78926776	+	698.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008495)	promoter-TSS (NM_008495)	-49.0	NM_008495	16852.0	Mm.43831	NM_008495	ENSMUSG00000068220	Lgals1	AA410090|Gal-1|Galbp|L-14.5|L14|Lect14|galectin-1	lectin, galactose binding, soluble 1	protein-coding	8.5	23.5	12.0	157.0	5.0	4.0	1.5	1.5
Merged-chr6-115767542-4	chr6	115767444	115767644	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-5078.0	NM_001168256	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	18.5	36.0	12.0	389.0	61.0	23.5	20.5	29.5
Merged-chr11-74898029-4	chr11	74897930	74898130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177325)	promoter-TSS (NM_177325)	-50.0	NM_177325	104662.0	Mm.220843	NM_177325	ENSMUSG00000038335	Tsr1	AU040765|AW550801|mKIAA1401	TSR1 20S rRNA accumulation	protein-coding	55.5	71.5	46.5	574.0	108.5	40.0	59.5	44.0
Merged-chr2-112232826-4	chr2	112232719	112232919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7022.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	164.0	180.5	168.0	2981.0	423.0	125.5	187.5	175.0
Merged-chr1-131084427-4	chr1	131084324	131084524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	13419.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	86.5	184.0	62.0	1001.5	198.0	85.5	93.5	65.5
Merged-chr12-4907524-7	chr12	4907410	4907610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145441)	promoter-TSS (NM_145441)	10.0	NM_145441	217379.0	Mm.259170	NM_145441	ENSMUSG00000020634	Ubxn2a	6330407P03Rik|Ubxd4	UBX domain protein 2A	protein-coding	52.0	90.0	49.5	782.0	148.5	56.5	58.5	56.5
Merged-chr1-135691136-4	chr1	135691024	135691224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28939.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	29.0	41.0	28.0	292.0	37.0	15.0	16.0	20.0
Merged-chr5-114773541-4	chr5	114773449	114773649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019834)	promoter-TSS (NM_019834)	-57.0	NM_001347400	26431.0	Mm.195632	NM_019834	ENSMUSG00000041890	Git2	1500036H07Rik|5830420E16Rik|6430510B20Rik|9630056M03Rik|B230104M05Rik|CAT2|mKIAA0148	G protein-coupled receptor kinase-interactor 2	protein-coding	168.5	252.0	114.5	1878.0	279.0	110.5	109.5	103.5
Merged-chr1-131245163-4	chr1	131245019	131245219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313731)	promoter-TSS (NM_001313731)	59.0	NM_001313731	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	17.0	27.5	22.0	371.5	76.0	23.0	35.0	19.5
Merged-chr16-87594289-3	chr16	87594195	87594395	+	891.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144854, exon 5 of 5)	exon (NM_144854, exon 5 of 5)	40965.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	11.5	21.0	29.5	407.5	20.5	2.5	11.5	6.5
Merged-chr13-34303611-4	chr13	34303506	34303706	+	817.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 2 of 10)	intron (NM_001033167, intron 2 of 10)	41576.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	2.5	17.0	9.0	334.5	23.0	6.0	17.0	13.0
Merged-chr4-129024963-4	chr4	129024875	129025075	+	873.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31751.0	NM_001033966	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	16.0	12.0	12.0	210.0	35.5	5.0	4.5	9.5
Merged-chr1-15799114-4	chr1	15799014	15799214	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6532.0	NM_009352	21749.0	Mm.4306	NM_009352	ENSMUSG00000025925	Terf1	Pin2|Trbf1|Trf1	telomeric repeat binding factor 1	protein-coding	34.0	50.5	30.5	473.5	36.0	14.0	18.0	9.5
Merged-chr7-142399493-4	chr7	142399397	142399597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11627.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	196.0	273.5	200.0	2861.0	486.5	187.5	182.5	203.0
Merged-chr9-44268204-4	chr9	44268117	44268317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163743)	promoter-TSS (NM_001163743)	-30.0	NM_001163743	270151.0	Mm.3957	NM_178420	ENSMUSG00000032109	Nlrx1	BC034204|NOD9	NLR family member X1	protein-coding	47.0	50.5	24.5	469.5	81.5	44.0	45.0	37.5
Merged-chr9-42473605-2	chr9	42473505	42473705	+	695.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1347.0	NM_173038	272589.0	Mm.34483	NM_173038	ENSMUSG00000037287	Tbcel	D330014K23|E130107N23Rik|Lrrc35	tubulin folding cofactor E-like	protein-coding	2.0	15.5	2.0	36.5	20.0	12.0	9.5	9.5
Merged-chr10-41393641-3	chr10	41393550	41393750	+	787.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56708.0	NM_001277229	268294.0	Mm.258475	NM_153398	ENSMUSG00000019826	Zbtb24	BC055367|Bif1|Bsg1|ZNF450	zinc finger and BTB domain containing 24	protein-coding	6.5	9.5	11.0	73.0	13.0	2.5	6.0	13.0
Merged-chr5-90247317-3	chr5	90247224	90247424	+	849.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198010, intron 27 of 32)	ORR1A2-int|LTR|ERVL-MaLR	-23328.0	NM_001163456	231430.0	Mm.319697	NM_001033310	ENSMUSG00000035505	Cox18	BC038311	cytochrome c oxidase assembly protein 18	protein-coding	5.5	14.0	7.5	186.5	16.5	1.5	10.0	6.5
Merged-chr18-37933256-4	chr18	37933179	37933379	+	886.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	intron (NM_001305981, intron 1 of 28)	2197.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	24.5	19.5	15.5	243.0	19.5	16.0	12.5	10.5
Merged-chr15-53400537-4	chr15	53400413	53400613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-54330.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	97.0	89.5	101.5	1536.0	190.5	59.0	93.5	55.5
Merged-chr7-141024929-4	chr7	141024835	141025035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8043.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	46.5	59.5	48.0	698.0	119.5	26.5	58.0	44.5
Merged-chr2-167926844-4	chr2	167926813	167927013	+	869.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5414.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	13.0	5.0	6.5	88.0	17.5	7.5	5.5	13.0
Merged-chr6-114293573-4	chr6	114293472	114293672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178703, intron 1 of 15)	intron (NM_178703, intron 1 of 15)	10937.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	82.0	180.5	100.0	883.5	280.0	78.0	85.0	55.0
Merged-chr10-37197042-3	chr10	37196961	37197161	+	857.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-58135.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	12.5	7.0	9.5	122.0	11.0	1.0	8.5	6.5
Merged-chr18-84682038-4	chr18	84681938	84682138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289531)	promoter-TSS (NM_001289531)	21.0	NM_001289531	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	149.0	258.5	124.0	2102.0	459.5	175.5	215.5	125.5
Merged-chr12-34696956-4	chr12	34696831	34697031	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-168042.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	29.5	26.5	20.5	347.5	54.5	21.0	17.0	14.5
Merged-chr2-68368033-3	chr2	68367939	68368139	+	731.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 7 of 17)	intron (NM_016866, intron 7 of 17)	103942.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	15.5	5.5	12.0	116.5	17.0	1.5	5.0	4.0
Merged-chr12-73534766-3	chr12	73534661	73534861	+	661.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11634.0	NM_178715	238257.0	Mm.251196	NM_178715	ENSMUSG00000034435	Tmem30b	9130011B11Rik	transmembrane protein 30B	protein-coding	10.0	5.5	6.0	75.0	15.0	7.5	3.5	6.5
Merged-chr2-24950326-4	chr2	24950220	24950420	+	874.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_147179, exon 1 of 6)	5' UTR (NM_147179, exon 1 of 6)	162.0	NM_147179	67187.0	Mm.296106	NM_026021	ENSMUSG00000026974	Zmynd19	2700064H14Rik|AA536891|AU014915|mizip	zinc finger, MYND domain containing 19	protein-coding	6.5	9.0	1.5	91.0	26.0	7.5	7.5	11.0
Merged-chr18-75599947-4	chr18	75599858	75600058	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 6 of 11)	RMER1C|Other|Other	85313.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	17.5	28.5	15.5	353.5	80.5	30.5	26.5	33.5
Merged-chr5-117520180-2	chr5	117520080	117520280	+	965.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 3 of 19)	intron (NM_001312914, intron 3 of 19)	106178.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	4.5	5.0	10.0	55.0	6.0	3.5	3.0	4.5
Merged-chr17-42938928-4	chr17	42938841	42939041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62517.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	55.5	77.5	42.0	972.5	139.0	59.5	54.0	64.0
Merged-chr5-39644660-4	chr5	39644505	39644705	+	852.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010474)	promoter-TSS (NM_010474)	26.0	NM_010474	15476.0	Mm.12559	NM_010474	ENSMUSG00000051022	Hs3st1	3-Ost|D5Wsu110e|Hsg3ost	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	protein-coding	7.0	7.0	4.5	116.0	9.5	8.5	10.5	7.5
Merged-chr19-61198708-3	chr19	61198609	61198809	+	645.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-22400.0	NM_001177513	633057.0	Mm.426097	NM_001177513	ENSMUSG00000094649	Gm7102	EG633057	predicted gene 7102	protein-coding	12.0	14.5	19.0	8.5	22.0	7.5	4.0	29.5
Merged-chr7-19228767-4	chr7	19228669	19228869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207525, intron 1 of 1)	CpG	380.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	235.0	418.0	251.5	3524.5	639.5	266.5	318.5	235.0
Merged-chr10-10429838-4	chr10	10429757	10429957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 9 of 36)	intron (NM_001127353, intron 9 of 36)	42457.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	21.0	75.5	49.5	745.0	186.5	36.5	57.0	48.0
Merged-chr5-147861123-4	chr5	147861015	147861215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025624, intron 1 of 5)	intron (NM_025624, intron 1 of 5)	487.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	24.0	21.5	21.0	343.5	67.0	15.5	36.5	32.0
Merged-chr11-89017988-3	chr11	89017895	89018095	+	831.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009546, exon 9 of 9)	3' UTR (NM_009546, exon 9 of 9)	18592.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	6.5	10.5	4.5	43.0	16.0	9.5	1.0	4.5
Merged-chr17-79175532-2	chr17	79175425	79175625	+	854.5833130000001	f0_c57.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	123619.0	NM_001316729	70536.0	Mm.293870	NM_027455	ENSMUSG00000024084	Qpct	5730422A13Rik	glutaminyl-peptide cyclotransferase (glutaminyl cyclase)	protein-coding	1.0	2.0	1.0	19.5	39.0	10.0	17.0	16.0
Merged-chr4-121016055-4	chr4	121015959	121016159	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	1188.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	14.5	20.0	4.5	47.0	67.0	15.5	9.0	6.5
Merged-chr17-26500473-4	chr17	26500350	26500550	+	916.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	8022.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	24.5	66.5	8.0	73.0	43.5	10.0	7.5	12.5
Merged-chr13-14064849-4	chr13	14064726	14064926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_198122, exon 2 of 23)	5' UTR (NM_198122, exon 2 of 23)	1042.0	NM_198122	94246.0	Mm.439784	NM_194262	ENSMUSG00000039219	Arid4b	BCAA|BRCAA1|RBBP1L1|Rbp1l1|SAP180	AT rich interactive domain 4B (RBP1-like)	protein-coding	15.5	27.0	15.0	278.0	34.0	22.0	17.0	24.0
Merged-chr6-38918928-4	chr6	38918819	38919019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011539)	promoter-TSS (NM_011539)	-67.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	57.5	95.5	53.5	950.0	132.5	76.5	74.5	85.0
Merged-chr8-110619891-4	chr8	110619790	110619990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151675, intron 1 of 17)	MER3|DNA|hAT-Charlie	1323.0	NR_151675	234729.0	Mm.274894	NM_146216	ENSMUSG00000010936	Vac14	AA959718|BC032215|D8Wsu151e|Tax1bp2|Trx|ingls	Vac14 homolog (S. cerevisiae)	protein-coding	32.0	60.5	40.5	896.5	100.5	22.5	47.5	36.5
Merged-chr8-24987659-7	chr8	24987553	24987753	+	923.334534	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270996, intron 11 of 21)	Lx4A|LINE|L1	29269.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	14.5	7.0	11.5	131.0	11.5	11.0	7.0	13.0
Merged-chr10-117877567-2	chr10	117877467	117877667	+	925.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31593.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	1.5	3.5	3.5	31.5	15.5	5.5	7.5	11.0
Merged-chr17-34587533-4	chr17	34587378	34587578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010929, exon 30 of 30)	exon (NM_010929, exon 30 of 30)	-2328.0	NM_134116	106512.0	Mm.26584	NM_134116	ENSMUSG00000034786	Gpsm3	AA960287|AGS4	G-protein signalling modulator 3 (AGS3-like, C. elegans)	protein-coding	69.5	161.0	92.0	949.0	181.0	71.5	74.0	102.0
Merged-chr19-55545740-4	chr19	55545642	55545842	+	875.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	156462.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	9.5	28.5	9.0	170.0	19.5	12.0	12.5	16.0
Merged-chr19-5729227-8	chr19	5729044	5729244	+	854.8402710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181452, intron 1 of 1)	intron (NM_181452, intron 1 of 1)	522.0	NM_181452	17826.0	Mm.391142	NM_023166	ENSMUSG00000024939	Fam89b	1110021A21Rik|MMTV|Mtvr2	family with sequence similarity 89, member B	protein-coding	5.0	12.5	8.0	136.5	40.0	6.5	8.0	9.5
Merged-chr9-100545341-3	chr9	100545236	100545436	+	820.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 1 of 3)	intron (NM_010878, intron 1 of 3)	798.0	NM_010878	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	11.5	17.5	5.5	166.5	17.5	8.0	6.5	5.0
Merged-chr12-85575633-4	chr12	85575531	85575731	+	841.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23474.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	10.0	16.5	17.0	329.5	43.5	8.5	15.5	25.5
Merged-chr8-95136025-3	chr8	95135938	95136138	+	739.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010631, intron 2 of 19)	(TTTTG)n|Simple_repeat|Simple_repeat	6502.0	NM_010631	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	7.0	8.0	8.0	27.5	26.5	3.5	3.0	8.5
Merged-chr19-10244497-2	chr19	10244397	10244597	+	645.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_198114)	TTS (NM_198114)	-3749.0	NM_001033481	225908.0	Mm.329716	NM_001033481	ENSMUSG00000036098	Myrf	6030439E18|Gm1804|Gm98|Mrf	myelin regulatory factor	protein-coding	6.5	4.5	8.5	23.5	7.5	5.0	2.5	7.0
Merged-chr6-82041645-1	chr6	82041545	82041745	+	852.0	f0_balb.idr	promoter-TSS (NM_145570)	promoter-TSS (NM_145570)	17.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	11.0	11.5	9.0	134.5	7.0	0.0	0.0	8.0
Merged-chr16-90197021-4	chr16	90196929	90197129	+	807.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23713.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	11.5	5.0	10.5	140.5	15.5	8.5	5.0	10.5
Merged-chr14-70618279-4	chr14	70618151	70618351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252663, exon 2 of 14)	exon (NM_001252663, exon 2 of 14)	318.0	NM_001252666	13829.0	Mm.210863	NM_013514	ENSMUSG00000022099	Dmtn	AI325486|Epb4.9|Epb49|dematin	dematin actin binding protein	protein-coding	28.0	36.0	37.0	387.0	40.5	16.5	17.5	18.5
Merged-chr19-6401607-4	chr19	6401520	6401720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011242, intron 1 of 16)	CpG	1037.0	NM_011242	19395.0	Mm.77017	NM_011242	ENSMUSG00000032946	Rasgrp2	CDC25L|Caldaggef1	RAS, guanyl releasing protein 2	protein-coding	81.0	91.5	65.0	880.5	193.0	77.5	102.5	81.0
Merged-chr7-101384664-4	chr7	101384560	101384760	+	987.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027180)	promoter-TSS (NM_027180)	-866.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	24.0	39.0	23.0	201.5	52.5	18.5	16.0	42.0
Merged-chr4-141148559-4	chr4	141148456	141148656	+	907.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172518, intron 1 of 9)	CpG	634.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	23.0	25.5	12.5	225.5	23.0	16.0	9.0	28.0
Merged-chr16-42897321-4	chr16	42897222	42897422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040402, intron 1 of 3)	intron (NR_040402, intron 1 of 3)	-10323.0	NM_001285805	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	33.0	41.5	31.5	672.0	54.5	17.5	43.5	29.5
Merged-chr9-86579817-4	chr9	86579733	86579933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7780.0	NM_027100	69519.0	Mm.272517	NM_027100	ENSMUSG00000032417	Rwdd2a	1700030C20Rik|AI848608|Rwdd2	RWD domain containing 2A	protein-coding	26.0	25.0	40.0	506.0	31.0	5.0	34.5	20.5
Merged-chr7-19421464-4	chr7	19421352	19421552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073014)	promoter-TSS (NR_073014)	-35.0	NR_073015	100503495.0	Mm.410762	NR_073014	ENSMUSG00000040705	A930016O22Rik	-	RIKEN cDNA A930016O22 gene	ncRNA	61.5	110.5	48.0	1020.5	157.0	61.0	84.0	48.5
Merged-chr10-25279499-4	chr10	25279386	25279586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 3 of 7)	intron (NM_018747, intron 3 of 7)	19677.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	28.0	27.5	43.5	628.5	48.5	16.0	34.0	42.0
Merged-chr17-21962317-3	chr17	21962190	21962390	+	968.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025373)	promoter-TSS (NM_001025373)	174.0	NM_001199048	73233.0	Mm.311219	NM_001199048	ENSMUSG00000071267	Zfp942	3110048L19Rik	zinc finger protein 942	protein-coding	15.5	29.5	51.0	249.5	63.0	31.0	31.5	31.5
Merged-chr7-99483745-4	chr7	99483642	99483842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012052)	promoter-TSS (NM_012052)	-33.0	NM_012052	27050.0	Mm.236868	NM_012052	ENSMUSG00000030744	Rps3	D7Ertd795e|Rs_3	ribosomal protein S3	protein-coding	180.0	300.0	169.5	1898.0	427.5	188.5	131.5	159.0
Merged-chr7-6171171-2	chr7	6171071	6171271	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1342.0	NM_028316	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	5.5	5.5	6.0	32.5	8.5	6.0	3.5	13.5
Merged-chr10-40189863-4	chr10	40189780	40189980	+	831.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR6-int|LTR|ERV1	-47626.0	NM_001114332	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	5.0	7.0	7.0	167.5	24.5	7.0	9.0	11.5
Merged-chr12-33132068-4	chr12	33131928	33132128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015602, intron 4 of 5)	intron (NR_015602, intron 4 of 5)	15558.0	NR_015602	320046.0	Mm.208337	NR_015602	ENSMUSG00000052125	F730043M19Rik	-	RIKEN cDNA F730043M19 gene	ncRNA	30.5	22.5	22.0	366.5	91.0	20.0	32.0	32.5
Merged-chr6-72758823-4	chr6	72758735	72758935	+	879.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	ORR1D2-int|LTR|ERVL-MaLR	30210.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	8.0	11.5	9.5	213.5	32.0	11.5	24.5	14.0
Merged-chr1-87813791-4	chr1	87813697	87813897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009118, intron 4 of 15)	intron (NM_009118, intron 4 of 15)	10117.0	NM_009118	20215.0	Mm.1276	NM_009118	ENSMUSG00000056055	Sag	A930001K18Rik|Arr1|Irbp|arrestin	S-antigen, retina and pineal gland (arrestin)	protein-coding	24.5	65.5	45.0	843.0	89.0	23.5	30.5	32.5
Merged-chr14-27230904-4	chr14	27230803	27231003	+	847.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 3 of 12)	intron (NM_001289686, intron 3 of 12)	-7107.0	NM_027871	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	13.5	14.0	4.5	120.5	24.5	14.5	17.5	11.5
Merged-chr15-36684314-3	chr15	36684221	36684421	+	794.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-75348.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	13.5	8.5	2.5	90.0	18.0	10.0	9.5	5.5
Merged-chr15-86170853-4	chr15	86170746	86170946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-14882.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	23.5	38.0	32.5	487.0	71.5	47.0	42.5	33.0
Merged-chr16-76332300-3	chr16	76332218	76332418	+	892.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358238, intron 2 of 3)	intron (NM_001358238, intron 2 of 3)	40731.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	4.0	11.5	6.5	39.5	42.0	9.0	11.0	5.5
Merged-chr7-105810029-4	chr7	105809948	105810148	+	980.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025301, exon 3 of 3)	exon (NM_025301, exon 3 of 3)	1039.0	NM_025301	27397.0	Mm.44225	NM_025301	ENSMUSG00000030879	Mrpl17	MRP-L26|Rpml26	mitochondrial ribosomal protein L17	protein-coding	23.0	30.5	21.5	399.5	64.5	17.5	14.5	28.5
Merged-chr16-23506042-3	chr16	23505946	23506146	+	711.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359083, intron 2 of 10)	intron (NM_001359083, intron 2 of 10)	14769.0	NM_008555	17174.0	Mm.1213	NM_008555	ENSMUSG00000022887	Masp1	AW048060|CCPII|Crarf|Masp1/3	mannan-binding lectin serine peptidase 1	protein-coding	6.5	5.0	4.5	140.0	17.5	5.5	5.5	13.0
Merged-chr7-28338840-4	chr7	28338744	28338944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013676)	promoter-TSS (NM_013676)	-125.0	NM_013676	20924.0	Mm.285906	NM_013676	ENSMUSG00000003435	Supt5	AL033283|AL033321|AU019549|Spt5|Supt5h	suppressor of Ty 5	protein-coding	146.0	269.0	95.5	1752.5	411.5	161.0	166.0	111.5
Merged-chr7-114292711-4	chr7	114292600	114292800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16584.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	47.0	54.5	99.5	716.0	115.5	54.5	67.0	64.5
Merged-chr9-121572054-4	chr9	121571956	121572156	+	854.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14964.0	NR_040740	75384.0	Mm.445955	NR_040740	ENSMUSG00000084995	Lyzl4os	4930589B17Rik|4930596M17Rik	lysozyme-like 4, opposite strand	ncRNA	12.0	28.0	13.0	171.0	18.5	14.5	16.5	14.0
Merged-chr4-65589984-4	chr4	65589884	65590084	+	753.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207109, intron 16 of 22)	intron (NM_207109, intron 16 of 22)	-15002.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	10.5	14.0	7.0	177.0	11.5	6.5	13.5	14.0
Merged-chr9-107633509-4	chr9	107633411	107633611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008138, intron 1 of 8)	intron (NM_008138, intron 1 of 8)	1831.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	32.5	44.5	36.0	383.0	89.0	36.0	59.5	41.5
Merged-chr4-48076888-4	chr4	48076766	48076966	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015743, intron 7 of 7)	intron (NM_015743, intron 7 of 7)	25620.0	NM_001307989	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	7.0	18.5	15.0	215.0	39.0	14.0	19.5	14.0
Merged-chr16-33529925-4	chr16	33529817	33530017	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 1 of 11)	intron (NM_001083902, intron 1 of 11)	11322.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	47.0	61.0	145.5	2003.5	51.0	15.5	33.5	43.0
Merged-chr6-56608396-3	chr6	56608285	56608485	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96314.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	4.5	19.0	13.0	262.0	18.0	5.5	4.0	2.5
Merged-chr3-37640444-4	chr3	37640354	37640554	+	828.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305441, intron 1 of 1)	CpG	507.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	11.5	8.5	12.0	119.5	21.0	8.5	9.0	14.5
Merged-chr7-16005165-3	chr7	16005060	16005260	+	947.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5665.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	5.5	21.5	5.5	149.5	13.5	5.0	16.0	6.0
Merged-chr10-125314258-4	chr10	125314161	125314361	+	947.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 1 of 5)	intron (NM_001358496, intron 1 of 5)	-5445.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	28.0	19.5	38.0	519.0	24.0	16.0	18.0	15.5
Merged-chr9-62952885-1	chr9	62952785	62952985	+	571.0	f0_balb.idr	intron (NM_019663, intron 1 of 13)	intron (NM_019663, intron 1 of 13)	27994.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	10.5	16.5	6.5	45.0	20.0	3.5	6.0	1.5
Merged-chr9-102784611-3	chr9	102784499	102784699	+	800.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44951.0	NR_033301	434510.0	Mm.387937	NM_001034892	ENSMUSG00000093812	Gm5627	EG434510	predicted gene 5627	ncRNA	2.0	9.5	11.5	102.5	22.5	7.0	12.5	10.0
Merged-chr13-100145328-4	chr13	100145234	100145434	+	960.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 15 of 15)	intron (NM_001126182, intron 15 of 15)	20479.0	NM_011420	20595.0	Mm.2025	NM_011420	ENSMUSG00000021645	Smn1	AI849087|Gemin1|Smn	survival motor neuron 1	protein-coding	21.5	20.0	18.5	373.0	32.5	10.5	25.0	18.0
Merged-chr8-70607576-5	chr8	70607473	70607673	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133772, intron 1 of 16)	intron (NM_133772, intron 1 of 16)	741.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	5.5	9.0	8.0	83.5	22.0	5.0	4.0	8.5
Merged-chr2-165917411-4	chr2	165917309	165917509	+	976.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-32571.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	25.0	31.5	14.5	281.5	48.0	22.0	13.5	23.0
Merged-chr6-24707304-3	chr6	24707204	24707404	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25941.0	NM_028920	74409.0	Mm.87331	NM_028920	ENSMUSG00000029679	Hyal6	4932701A20Rik|Hyal-ps1|Hyalp1	hyaluronoglucosaminidase 6	protein-coding	33.5	65.5	27.0	635.5	6.0	12.0	11.0	3.0
Merged-chr11-6497848-3	chr11	6497749	6497949	+	775.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21773.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	0.5	0.0	1.0	0.0	31.0	5.5	15.0	5.5
Merged-chr14-44086775-3	chr14	44086676	44086876	+	891.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15878.0	NM_007895	13587.0	Mm.327386	NM_007895	ENSMUSG00000072596	Ear2	EAR-13|EAR-2|ECP|ECP 2|Raf3|Rnase2	eosinophil-associated, ribonuclease A family, member 2	protein-coding	4.5	8.0	10.0	62.5	28.0	10.5	14.0	2.5
Merged-chr11-114893968-5	chr11	114893886	114894086	+	950.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347654, intron 2 of 6)	intron (NM_001347654, intron 2 of 6)	3945.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	15.0	9.5	9.5	109.0	17.0	1.0	4.0	6.5
Merged-chr11-93955917-4	chr11	93955774	93955974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077529)	promoter-TSS (NM_001077529)	-91.0	NM_001077529	18103.0	Mm.1260	NM_008705	ENSMUSG00000020857	Nme2	NM23-H2|NM23B|nm23-M2	NME/NM23 nucleoside diphosphate kinase 2	protein-coding	43.0	78.5	107.5	749.0	108.0	61.5	55.5	46.0
Merged-chr7-25813757-4	chr7	25813607	25813807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028775, intron 2 of 8)	L2c|LINE|L2	2823.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	10.0	23.5	12.5	188.0	50.0	14.5	17.0	32.0
Merged-chr11-76253305-3	chr11	76253200	76253400	+	972.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9564.0	NM_183263	67390.0	Mm.24886	NM_183263	ENSMUSG00000038046	Mrm3	4833420N02Rik|AI255153|HC90|Rnmtl1	mitochondrial rRNA methyltransferase 3	protein-coding	5.0	16.0	6.0	89.0	46.0	13.5	17.5	17.0
Merged-chr5-122994641-4	chr5	122994553	122994753	+	972.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045820, intron 2 of 2)	intron (NR_045820, intron 2 of 2)	5299.0	NR_045820	109202.0	Mm.30769	NM_175405	ENSMUSG00000056735	A930024E05Rik	-	RIKEN cDNA A930024E05 gene	ncRNA	37.0	36.5	23.5	194.0	57.5	24.0	20.0	10.5
Merged-chr15-64052237-4	chr15	64052120	64052320	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	7544.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	22.5	23.5	10.0	178.5	50.5	15.5	15.0	10.5
Merged-chr4-53159371-3	chr4	53159276	53159476	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	519.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	50.5	94.0	67.5	517.5	132.0	46.5	72.5	54.5
Merged-chr8-19703429-3	chr8	19703375	19703575	+	961.238098	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-26101.0	NM_001270553	100861668.0	Mm.491087	NM_001270553	ENSMUSG00000095294	Gm21119	-	predicted gene, 21119	protein-coding	5.0	6.0	18.0	73.5	4.5	3.0	2.0	11.5
Merged-chr13-111797733-3	chr13	111797635	111797835	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	11258.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	12.5	10.5	11.5	64.0	13.5	2.5	5.0	6.0
Merged-chr12-100194339-4	chr12	100194219	100194419	+	773.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045282)	TTS (NR_045282)	-5116.0	NM_009790	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	6.0	9.0	10.0	82.0	20.0	1.0	8.5	6.5
Merged-chr6-50974020-4	chr6	50973932	50974132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	197917.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	18.0	36.0	29.5	458.5	97.5	26.5	60.0	48.0
Merged-chr17-32111335-3	chr17	32111236	32111436	+	954.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19913.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	14.0	10.0	8.0	123.0	9.0	1.0	6.0	7.0
Merged-chr7-97765409-4	chr7	97765329	97765529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23112.0	NM_001357365	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	40.0	65.0	41.5	887.0	83.0	26.5	37.5	43.0
Merged-chr15-96638330-4	chr15	96638236	96638436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166458, intron 1 of 15)	intron (NM_001166458, intron 1 of 15)	3626.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	194.0	438.5	274.5	3288.5	777.5	275.5	303.0	278.0
Merged-chr11-120796450-4	chr11	120796349	120796549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026824)	promoter-TSS (NM_026824)	-54.0	NM_026824	68730.0	Mm.180622	NM_026824	ENSMUSG00000025155	Dus1l	1110032N12Rik	dihydrouridine synthase 1-like (S. cerevisiae)	protein-coding	57.5	130.0	39.0	701.0	167.0	80.0	63.0	71.0
Merged-chr15-59819330-4	chr15	59819193	59819393	+	989.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24334.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	12.0	40.5	29.0	537.0	106.0	22.5	55.5	31.5
Merged-chr12-25093453-5	chr12	25093349	25093549	+	972.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010496)	TTS (NM_010496)	2643.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	20.0	40.5	19.0	258.5	30.5	14.0	16.0	20.5
Merged-chr8-6138811-3	chr8	6138715	6138915	+	861.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1033528.0	NM_011388	20494.0	Mm.3500	NM_011388	ENSMUSG00000023073	Slc10a2	9130221J18Rik|AI605518|ASBT|IBAT|ISBT	solute carrier family 10, member 2	protein-coding	0.0	0.0	1.0	46.0	19.0	14.5	9.5	9.0
Merged-chr9-41461855-3	chr9	41461745	41461945	+	878.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131928, intron 3 of 4)	intron (NR_131928, intron 3 of 4)	-13048.0	NR_131931	73144.0	Mm.38166	NM_001033153	ENSMUSG00000074415	3110039I08Rik	2610203C20Rik|AI848448|D230004N17Rik|D3Mgi9|Mir100hg	RIKEN cDNA 3110039I08 gene	ncRNA	9.0	8.0	8.0	104.0	16.5	5.5	10.0	5.0
Merged-chr17-33919596-4	chr17	33919522	33919722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020625)	TTS (NM_020625)	144.0	NM_009318	21356.0	Mm.154457	NM_009318	ENSMUSG00000024308	Tapbp	D17Wsu91e|TPN	TAP binding protein	protein-coding	64.5	146.5	50.5	888.0	228.0	74.0	49.5	100.0
Merged-chr12-99883935-4	chr12	99883839	99884039	+	763.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028354)	promoter-TSS (NM_028354)	-497.0	NM_030172	78767.0	Mm.235920	NM_030172	ENSMUSG00000021176	Efcab11	2610021K21Rik|2610110A13Rik	EF-hand calcium binding domain 11	protein-coding	14.0	17.0	8.5	145.5	18.0	12.5	14.5	13.5
Merged-chr13-83572151-4	chr13	83572044	83572244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347566, intron 1 of 10)	intron (NM_001347566, intron 1 of 10)	-1463.0	NM_001347577	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	115.0	130.5	116.5	2279.5	257.5	80.0	154.0	89.5
Merged-chr18-75019567-4	chr18	75019462	75019662	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027727, intron 1 of 16)	intron (NM_027727, intron 1 of 16)	790.0	NM_027727	69190.0	Mm.173826	NM_027727	ENSMUSG00000035765	Dym	1810041M12Rik|4933427L07Rik|C030019K18Rik	dymeclin	protein-coding	10.5	16.0	17.5	211.5	22.5	10.5	6.0	15.5
Merged-chr12-26356379-4	chr12	26356296	26356496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130981, intron 2 of 4)	intron (NR_130981, intron 2 of 4)	9686.0	NR_130981	75243.0	Mm.444753	NR_130981	ENSMUSG00000114048	4930549C15Rik	-	RIKEN cDNA 4930549C15 gene	ncRNA	25.5	79.5	40.5	294.0	50.5	32.0	23.0	4.5
Merged-chr10-40437375-3	chr10	40437276	40437476	+	962.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291817, intron 4 of 11)	L1_Mus2|LINE|L1	88068.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	18.5	18.5	30.5	186.5	16.0	3.5	12.5	10.0
Merged-chr4-101213760-4	chr4	101213643	101213843	+	975.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	MIR|SINE|MIR	51539.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	23.0	30.5	48.0	501.5	44.5	10.0	20.0	19.0
Merged-chr2-157513823-4	chr2	157513745	157513945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46233.0	NM_001291129	18111.0	Mm.34330	NM_010923	ENSMUSG00000067786	Nnat	5730414I02Rik|AW107673|Peg5	neuronatin	protein-coding	43.0	74.5	46.0	685.5	139.0	48.5	74.0	58.0
Merged-chr9-32541417-4	chr9	32541344	32541544	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008026)	promoter-TSS (NM_008026)	8.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	26.5	36.5	24.5	298.5	34.5	24.5	27.5	21.5
Merged-chr5-136929228-3	chr5	136929128	136929328	+	912.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015555, intron 3 of 3)	intron (NR_015555, intron 3 of 3)	10082.0	NR_015555	66752.0	Mm.135764	NR_015555	ENSMUSG00000097908	4933404O12Rik	AW494809	RIKEN cDNA 4933404O12 gene	ncRNA	4.5	6.5	5.0	44.5	37.5	14.5	12.0	15.0
Merged-chr4-145222190-4	chr4	145222086	145222286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 8 of 9)	intron (NM_011610, intron 8 of 9)	24684.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	70.5	66.5	138.0	1982.5	200.5	58.5	121.0	149.5
Merged-chr8-103940709-4	chr8	103940610	103940810	+	884.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160915.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	15.0	15.5	14.5	369.5	21.0	15.0	12.5	5.5
Merged-chr5-16326853-1	chr5	16326753	16326953	+	686.0	f0_balb.idr	intron (NM_001110843, intron 20 of 38)	intron (NM_001110843, intron 20 of 38)	-226642.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	6.5	7.0	17.0	94.0	8.0	0.5	5.5	7.5
Merged-chr1-155322375-4	chr1	155322269	155322469	+	971.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 7 of 14)	intron (NM_011273, intron 7 of 14)	95075.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	13.0	14.0	20.0	260.5	28.5	5.5	17.5	11.5
Merged-chr11-116666787-4	chr11	116666706	116666906	+	917.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163318, intron 4 of 4)	intron (NM_001163318, intron 4 of 4)	-4854.0	NR_027821	66293.0	Mm.432051	NM_025472	ENSMUSG00000020812	1810032O08Rik	-	RIKEN cDNA 1810032O08 gene	ncRNA	29.0	42.0	8.5	138.5	70.5	10.5	18.0	23.5
Merged-chr12-98901439-4	chr12	98901341	98901541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081191)	promoter-TSS (NM_001081191)	43.0	NM_001081191	319670.0	Mm.390484	NM_001081191	ENSMUSG00000051166	Eml5	BC027154|C130068M19Rik	echinoderm microtubule associated protein like 5	protein-coding	62.0	83.0	72.5	852.0	135.5	42.0	62.5	50.5
Merged-chr18-70601522-2	chr18	70601422	70601622	+	708.299988	f1_balb.idr|f1_c57bl6.idr	intron (NM_010773, intron 3 of 6)	intron (NM_010773, intron 3 of 6)	33230.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	4.5	6.0	6.0	106.5	10.0	3.5	11.5	8.0
Merged-chr15-97817178-3	chr15	97817082	97817282	+	697.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	-2319.0	NM_001204281	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	23.0	14.5	7.0	78.5	12.0	3.5	0.0	6.0
Merged-chr15-57906845-4	chr15	57906735	57906935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5364.0	NM_001081396	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	157.0	242.0	171.0	2129.5	419.0	173.0	173.5	144.5
Merged-chr5-43081981-4	chr5	43081866	43082066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-151497.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	27.5	27.5	21.0	730.5	59.5	18.0	30.0	34.5
Merged-chr3-96161651-2	chr3	96161551	96161751	+	855.400024	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181409)	promoter-TSS (NM_181409)	-319.0	NM_181409	194126.0	Mm.268536	NM_181409	ENSMUSG00000045934	Mtmr11	AI035306|BC051083|Cra	myotubularin related protein 11	protein-coding	8.0	3.5	4.5	80.0	6.0	6.0	4.5	5.5
Merged-chr12-91765802-4	chr12	91765683	91765883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	B4A|SINE|B4	20653.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	20.5	22.5	22.5	420.5	60.0	11.0	21.0	26.0
Merged-chr10-98917250-6	chr10	98917194	98917394	+	799.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	2142.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	8.5	4.5	3.0	52.0	18.0	9.0	4.5	7.0
Merged-chr10-85970070-4	chr10	85969965	85970165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177772, intron 12 of 15)	intron (NM_177772, intron 12 of 15)	-12272.0	NM_145422	28088.0	Mm.9257	NM_145422	ENSMUSG00000001783	Rtcb	AI255213|AI463255|D10Wsu52e|FAAP|HSPC117	RNA 2',3'-cyclic phosphate and 5'-OH ligase	protein-coding	46.0	83.0	51.0	686.5	119.5	53.0	61.5	34.0
Merged-chr8-106902107-2	chr8	106902007	106902207	+	994.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358982, intron 5 of 16)	intron (NM_001358982, intron 5 of 16)	8467.0	NM_001358982	21771.0	Mm.10665	NM_011574	ENSMUSG00000041438	Utp4	Cirh1a|Cirhin|Naic|Teg-292|Tex292	UTP4 small subunit processome component	protein-coding	4.5	7.0	6.5	149.0	10.0	0.0	1.5	3.0
Merged-chr13-99375794-3	chr13	99375710	99375910	+	791.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173757, intron 4 of 10)	intron (NM_173757, intron 4 of 10)	31024.0	NM_173757	218506.0	Mm.30208	NM_173757	ENSMUSG00000041632	Mrps27	2610028H14Rik	mitochondrial ribosomal protein S27	protein-coding	5.5	8.5	11.0	131.5	7.5	0.0	5.5	11.0
Merged-chr2-52924518-4	chr2	52924410	52924610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	66642.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	53.0	47.0	46.5	516.0	117.0	30.0	35.5	22.5
Merged-chr1-14577121-4	chr1	14577026	14577226	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	178840.0	NM_001360810	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	21.0	28.5	21.0	296.0	41.0	20.0	21.5	16.5
Merged-chr4-32391470-1	chr4	32391370	32391570	+	632.0	f0_balb.idr	Intergenic	Intergenic	-25965.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	4.5	4.5	11.0	83.5	1.0	2.0	1.0	2.5
Merged-chr3-94310179-4	chr3	94310100	94310300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029431)	promoter-TSS (NM_029431)	68.0	NM_029431	75778.0	Mm.45092	NM_029431	ENSMUSG00000028145	Them4	2700077M13Rik|4921507I02Rik	thioesterase superfamily member 4	protein-coding	197.5	286.0	199.0	3725.0	467.0	149.5	286.5	203.0
Merged-chr2-129300666-1	chr2	129300566	129300766	+	635.0	f0_c57.idr	3' UTR (NM_010554, exon 7 of 7)	3' UTR (NM_010554, exon 7 of 7)	3296.0	NR_040371	100503468.0	Mm.446943	NR_040371	ENSMUSG00000085498	Gm14023	-	predicted gene 14023	ncRNA	3.0	16.5	1.5	46.5	30.5	8.0	11.0	6.5
Merged-chr15-91254329-4	chr15	91254239	91254439	+	866.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62332.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	17.5	11.5	16.5	350.5	23.0	6.0	8.5	7.0
Merged-chr2-153342781-4	chr2	153342689	153342889	+	831.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040318, exon 2 of 2)	non-coding (NR_040318, exon 2 of 2)	3021.0	NR_040318	72326.0	Mm.400102	NR_040318	ENSMUSG00000073236	2500004C02Rik	-	RIKEN cDNA 2500004C02 gene	ncRNA	6.0	16.5	6.0	104.5	35.5	13.0	3.0	16.0
Merged-chr7-79392311-4	chr7	79392201	79392401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145946)	promoter-TSS (NM_145946)	-37.0	NM_145946	208836.0	Mm.349493	NM_145946	ENSMUSG00000039187	Fanci	-	Fanconi anemia, complementation group I	protein-coding	47.5	99.0	32.5	697.0	113.0	52.0	68.0	49.0
Merged-chr11-85844259-4	chr11	85844149	85844349	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	11634.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	13.0	12.5	18.0	192.0	24.5	5.5	10.0	8.5
Merged-chr6-140614114-4	chr6	140614008	140614208	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8555.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	20.5	71.5	35.0	137.5	96.5	48.0	25.0	16.0
Merged-chr4-137047783-3	chr4	137047675	137047875	+	765.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198248, intron 1 of 18)	intron (NM_198248, intron 1 of 18)	920.0	NM_198248	230848.0	Mm.31068	NM_198248	ENSMUSG00000060862	Zbtb40	BC059177|C230087D24|Gm571|mKIAA0478	zinc finger and BTB domain containing 40	protein-coding	8.5	38.5	7.5	38.5	28.5	13.5	6.0	6.5
Merged-chr9-121675133-3	chr9	121675035	121675235	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	29894.0	NM_178677	215474.0	Mm.31421	NM_178677	ENSMUSG00000061536	Sec22c	4932412K21|5930407I15Rik|C530046H07|Sec22l3	SEC22 homolog C, vesicle trafficking protein	protein-coding	1.0	1.0	1.0	56.0	104.5	42.0	54.5	71.0
Merged-chr9-95189024-2	chr9	95188924	95189124	+	789.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 14 of 15)	MIRb|SINE|MIR	218246.0	NM_018763	54371.0	Mm.212446	NM_018763	ENSMUSG00000033350	Chst2	AI428561|AW121776|C130041E03Rik|Chts2|GST-2|GlcNAc6ST|Gn6st	carbohydrate sulfotransferase 2	protein-coding	5.5	4.5	4.5	141.5	4.0	4.0	2.0	3.5
Merged-chr17-24021870-2	chr17	24021768	24021968	+	653.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-16375.0	NM_175440	213171.0	Mm.133083	NM_175440	ENSMUSG00000050762	Prss27	CAPH2|Mpn|marapsin	protease, serine 27	protein-coding	3.0	0.0	2.0	7.5	17.0	8.0	5.0	10.5
Merged-chr7-80774329-4	chr7	80774155	80774355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	MIRb|SINE|MIR	29076.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	25.0	25.0	18.5	541.0	70.5	36.5	25.5	31.0
Merged-chr1-16619809-2	chr1	16619709	16619909	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025773)	promoter-TSS (NM_025773)	-471.0	NM_001271017	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	12.0	9.0	13.5	226.0	33.5	15.5	9.5	13.5
Merged-chr13-111467486-4	chr13	111467380	111467580	+	827.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028487, intron 2 of 12)	intron (NM_028487, intron 2 of 12)	22647.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	8.0	22.0	10.5	150.0	57.5	11.0	14.5	6.5
Merged-chr17-80768187-4	chr17	80768069	80768269	+	930.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40144.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	16.0	26.5	12.5	330.0	46.0	12.0	21.5	14.5
Merged-chr17-28553244-4	chr17	28553130	28553330	+	826.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001034871)	TTS (NM_001034871)	3743.0	NM_001034871	328788.0	Mm.99400	NM_001034871	ENSMUSG00000024224	Clpsl2	Gm749	colipase-like 2	protein-coding	7.0	22.0	6.0	73.5	33.5	7.0	10.5	12.0
Merged-chr7-41500550-4	chr7	41500493	41500693	+	994.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033530)	promoter-TSS (NM_001033530)	-703.0	NM_001033530	101835.0	Mm.370336	NM_001033530	ENSMUSG00000074166	AW146154	AI451288	expressed sequence AW146154	protein-coding	17.5	35.0	22.5	199.5	31.0	14.5	14.5	18.5
Merged-chr3-86884174-1	chr3	86884074	86884274	+	871.0	f0_balb.idr	intron (NM_001195500, intron 2 of 11)	intron (NM_001195500, intron 2 of 11)	36710.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	14.5	20.0	8.5	130.0	0.0	0.0	1.0	1.5
Merged-chr4-145257515-4	chr4	145257415	145257615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-10645.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	33.0	46.5	23.0	376.0	67.5	35.0	27.0	18.5
Merged-chr7-120873136-3	chr7	120873040	120873240	+	977.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 2 of 17)	intron (NM_001267710, intron 2 of 17)	21951.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	25.0	13.0	16.0	356.0	11.0	10.0	4.5	7.0
Merged-chr18-9506065-5	chr18	9506014	9506214	+	840.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55960.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	15.0	5.0	12.0	122.5	14.5	9.0	5.0	8.0
Merged-chr2-112367474-3	chr2	112367340	112367540	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026519, exon 2 of 5)	exon (NM_026519, exon 2 of 5)	587.0	NM_026519	68032.0	Mm.220942	NM_026519	ENSMUSG00000027131	Emc4	2610318K02Rik|Tmem85	ER membrane protein complex subunit 4	protein-coding	3.0	5.5	4.5	44.0	7.0	6.5	6.5	6.5
Merged-chr1-154093553-4	chr1	154093469	154093669	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107618.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	54.0	68.5	30.0	563.0	69.5	30.5	19.0	27.5
Merged-chr1-170795965-4	chr1	170795868	170796068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 10 of 15)	intron (NM_001081304, intron 10 of 15)	71803.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	78.0	86.0	78.5	1030.5	145.5	56.0	40.0	62.5
Merged-chr4-150548289-3	chr4	150548177	150548377	+	768.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	103897.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	9.0	10.5	12.0	258.5	2.0	0.0	2.5	2.5
Merged-chr15-76233083-3	chr15	76233013	76233213	+	865.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163575, exon 11 of 11)	3' UTR (NM_001163575, exon 11 of 11)	-1735.0	NM_011117	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	8.0	9.0	5.0	99.0	14.0	3.5	9.5	5.5
Merged-chr8-31148985-4	chr8	31148858	31149058	+	807.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1358.0	NM_144927	234138.0	Mm.349800	NM_144927	ENSMUSG00000031577	Tti2	-	TELO2 interacting protein 2	protein-coding	5.5	9.0	8.0	80.5	16.5	7.5	11.5	11.0
Merged-chr1-155083581-4	chr1	155083467	155083667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151545)	promoter-TSS (NR_151545)	-303.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	164.5	235.0	153.5	1904.5	450.5	186.5	231.5	199.0
Merged-chr4-132040306-5	chr4	132040176	132040376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	8802.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	56.0	65.5	59.5	786.5	88.5	48.0	33.5	51.0
Merged-chr7-145188020-3	chr7	145187919	145188119	+	735.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132643, intron 20 of 22)	intron (NR_132643, intron 20 of 22)	20100.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	9.0	14.5	11.5	223.5	2.5	3.0	4.0	5.0
Merged-chr6-124359525-1	chr6	124359425	124359625	+	606.0	f0_balb.idr	Intergenic	L1M4|LINE|L1	-2439.0	NM_001177502	76921.0	Mm.425335	NM_001177502	ENSMUSG00000079346	1700013D24Rik	-	RIKEN cDNA 1700013D24 gene	protein-coding	13.5	15.0	5.0	108.5	13.0	3.0	2.0	2.0
Merged-chr19-42166357-3	chr19	42166246	42166446	+	902.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4221.0	NM_177319	319740.0	Mm.287359	NM_177319	ENSMUSG00000018820	Zfyve27	2210011N02Rik|9530077C24Rik|AI426636|AI593546|AI835681	zinc finger, FYVE domain containing 27	protein-coding	9.0	10.0	11.0	121.5	14.5	10.0	6.5	10.0
Merged-chr9-103366739-4	chr9	103366599	103366799	+	838.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134426)	promoter-TSS (NM_001134426)	-919.0	NM_175565	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	10.5	20.0	4.5	16.5	27.0	7.0	2.0	4.0
Merged-chr18-80150193-4	chr18	80150077	80150277	+	951.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175028, intron 1 of 3)	intron (NM_175028, intron 1 of 3)	1305.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	17.5	25.5	9.0	263.5	35.0	12.5	20.5	16.5
Merged-chr17-31519565-1	chr17	31519465	31519665	+	1000.0	f1_balb.idr	promoter-TSS (NM_030087)	promoter-TSS (NM_030087)	-550.0	NM_030087	78330.0	Mm.28349	NM_030087	ENSMUSG00000024038	Ndufv3	1500032D16Rik	NADH dehydrogenase (ubiquinone) flavoprotein 3	protein-coding	5.5	13.0	6.0	48.5	16.0	5.0	12.5	18.0
Merged-chr7-45568302-4	chr7	45568194	45568394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025330)	TTS (NM_025330)	-1859.0	NM_009737	12036.0	Mm.24210	NM_009737	ENSMUSG00000030826	Bcat2	Bcat(m)|Bcat-2|Eca40	branched chain aminotransferase 2, mitochondrial	protein-coding	115.0	172.5	89.5	1917.0	363.5	110.5	106.0	127.0
Merged-chr11-113339908-3	chr11	113339801	113340001	+	957.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 6 of 9)	intron (NM_027216, intron 6 of 9)	-130232.0	NR_040276	319871.0	Mm.383743	NR_040276	ENSMUSG00000085421	4732490B19Rik	-	RIKEN cDNA 4732490B19 gene	ncRNA	10.0	9.5	10.0	121.5	3.5	5.0	6.5	6.0
Merged-chr17-31277367-4	chr17	31277261	31277461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025290)	promoter-TSS (NM_025290)	-5.0	NM_025290	22092.0	Mm.12743	NM_025290	ENSMUSG00000024033	Rsph1	MCA|Tsga2	radial spoke head 1 homolog (Chlamydomonas)	protein-coding	39.5	72.5	27.0	455.5	113.5	50.0	54.5	24.5
Merged-chr8-11463882-4	chr8	11463809	11464009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-14020.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	161.5	198.0	188.5	2255.0	391.0	187.5	199.0	196.0
Merged-chr1-87187148-4	chr1	87187054	87187254	+	942.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027084, exon 11 of 13)	exon (NM_027084, exon 11 of 13)	-3443.0	NM_021600	11447.0	Mm.2811	NM_021600	ENSMUSG00000026251	Chrnd	Achr-4|Acrd|L10076	cholinergic receptor, nicotinic, delta polypeptide	protein-coding	15.5	21.0	15.5	263.0	31.0	10.0	14.5	18.5
Merged-chr18-61556217-6	chr18	61556292	61556492	+	896.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357498, intron 1 of 10)	intron (NM_001357498, intron 1 of 10)	1119.0	NM_146087	93687.0	Mm.26908	NM_146087	ENSMUSG00000024576	Csnk1a1	2610208K14Rik|4632404G05Rik|5430427P18Rik|CK1a|Csnk1a	casein kinase 1, alpha 1	protein-coding	7.0	2.0	3.0	34.0	12.0	9.0	5.5	8.0
Merged-chr17-70970356-4	chr17	70970269	70970469	+	825.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	20147.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	4.0	13.5	10.0	115.0	35.5	11.0	22.5	14.5
Merged-chr4-155122065-3	chr4	155121970	155122170	+	934.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356327, intron 10 of 12)	intron (NM_001356327, intron 10 of 12)	35466.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	9.0	11.5	9.0	194.5	2.5	0.0	2.0	3.0
Merged-chr11-115105347-4	chr11	115105244	115105444	+	839.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	intron (NM_001163753, intron 1 of 8)	13913.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	14.5	21.0	7.5	120.0	20.5	7.5	9.5	6.5
Merged-chr3-121722139-2	chr3	121722039	121722239	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1398.0	NM_010171	14066.0	Mm.273188	NM_010171	ENSMUSG00000028128	F3	AA409063|CD142|Cf-3|Cf3|TF	coagulation factor III	protein-coding	9.5	13.5	10.0	102.0	23.0	17.5	7.0	6.5
Merged-chr19-5649679-4	chr19	5649639	5649839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12249.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	123.5	124.5	122.5	1343.5	197.0	57.5	65.5	59.0
Merged-chr12-28654433-4	chr12	28654316	28654516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286865, intron 3 of 7)	intron (NM_001286865, intron 3 of 7)	4814.0	NM_001286865	19819.0	Mm.10152	NM_011275	ENSMUSG00000020630	Rnaseh1	-	ribonuclease H1	protein-coding	32.0	35.5	20.0	405.5	101.0	33.5	30.0	47.0
Merged-chr5-136140172-4	chr5	136140086	136140286	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028070, exon 3 of 3)	exon (NM_028070, exon 3 of 3)	1405.0	NM_028070	72041.0	Mm.294725	NM_028070	ENSMUSG00000039754	Alkbh4	2010004B12Rik|Abj4	alkB homolog 4, lysine demethylase	protein-coding	37.5	37.5	43.5	418.5	56.0	13.0	33.5	24.0
Merged-chr5-34187921-4	chr5	34187826	34188026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010753)	promoter-TSS (NM_010753)	-216.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	440.5	669.0	578.0	6519.5	1011.5	410.5	543.0	459.5
Merged-chr11-94412749-3	chr11	94412621	94412821	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009783, intron 33 of 35)	intron (NM_009783, intron 33 of 35)	-19745.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	5.0	7.5	14.5	157.0	11.5	4.0	4.5	9.5
Merged-chr5-115534483-4	chr5	115534451	115534651	+	877.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	B1_Mus2|SINE|Alu	-24916.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	4.5	9.0	12.5	51.5	19.0	5.5	2.5	9.0
Merged-chr5-121943780-3	chr5	121943689	121943889	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 2 of 22)	intron (NM_007804, intron 2 of 22)	94792.0	NM_001359949	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	36.0	65.5	34.0	732.5	13.5	16.0	9.5	9.5
Merged-chr3-119779407-4	chr3	119779291	119779491	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310711, intron 2 of 13)	L1ME2z|LINE|L1	3997.0	NM_001310711	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	13.5	25.0	22.5	437.0	29.5	15.0	14.5	18.0
Merged-chr7-25249368-5	chr7	25249284	25249484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010155, intron 1 of 3)	CpG	1374.0	NM_010155	13875.0	Mm.8068	NM_010155	ENSMUSG00000040857	Erf	-	Ets2 repressor factor	protein-coding	10.5	30.0	14.0	218.5	40.5	22.5	15.5	35.0
Merged-chr1-16696790-3	chr1	16696705	16696905	+	778.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159711, intron 2 of 4)	intron (NM_001159711, intron 2 of 4)	8349.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	4.5	22.5	11.5	202.5	6.0	3.5	1.5	2.0
Merged-chr2-6273563-4	chr2	6273461	6273661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	intron (NR_040333, intron 3 of 6)	-49196.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	97.5	95.5	65.0	1254.0	168.0	58.0	71.0	73.0
Merged-chr3-131894593-4	chr3	131894559	131894759	+	956.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-190633.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	7.5	8.5	11.0	247.0	85.5	15.0	31.5	34.0
Merged-chr9-86449763-3	chr9	86449653	86449853	+	890.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027394, intron 2 of 9)	intron (NM_027394, intron 2 of 9)	15163.0	NM_027394	70348.0	Mm.53469	NM_027394	ENSMUSG00000032415	Ube2cbp	2610018I03Rik|Ube3d	ubiquitin-conjugating enzyme E2C binding protein	protein-coding	5.0	12.5	6.0	64.0	11.0	6.0	6.5	7.5
Merged-chr2-45279640-4	chr2	45279568	45279768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162226.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	161.5	235.5	153.0	1658.5	326.5	148.0	92.0	121.5
Merged-chr16-92853779-3	chr16	92853670	92853870	+	846.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27696.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	9.5	6.5	7.0	207.5	15.0	7.0	8.5	5.5
Merged-chr9-72110707-2	chr9	72110607	72110807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253865, intron 2 of 14)	intron (NM_001253865, intron 2 of 14)	494.0	NM_001253862	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	6.5	5.5	8.5	16.5	8.5	2.0	3.0	6.5
Merged-chr11-44540443-4	chr11	44540320	44540520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 3 of 5)	MTD|LTR|ERVL-MaLR	21043.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	23.0	33.0	13.5	403.5	53.0	24.5	33.0	25.5
Merged-chr6-134928741-4	chr6	134928647	134928847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037955)	promoter-TSS (NR_037955)	-345.0	NR_037956	381822.0	Mm.5935	NR_037955	ENSMUSG00000098318	Lockd	1190002F15Rik|AI120476|Droc	lncRNA downstream of Cdkn1b	ncRNA	140.5	209.5	181.5	1992.0	461.0	173.5	206.5	161.0
Merged-chr2-124707556-3	chr2	124707465	124707665	+	891.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53984.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	5.5	5.5	5.5	135.5	10.0	7.5	5.0	4.5
Merged-chr13-56658242-2	chr13	56658142	56658342	+	624.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44768.0	NM_008541	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	4.0	7.0	0.5	41.0	6.5	10.5	5.5	11.0
Merged-chr5-81037317-4	chr5	81037240	81037440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 1 of 27)	intron (NM_198702, intron 1 of 27)	15747.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	31.0	52.5	40.0	1006.5	76.0	24.5	39.5	43.0
Merged-chr5-123863208-4	chr5	123863090	123863290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030701)	TTS (NM_030701)	2326.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	73.5	158.0	61.0	940.0	169.0	48.5	69.5	63.0
Merged-chr7-105412042-1	chr7	105411942	105412142	+	598.0	f0_c57.idr	Intergenic	Intergenic	7474.0	NM_001033317	233649.0	Mm.99556	NM_001033317	ENSMUSG00000030897	Cnga4	-	cyclic nucleotide gated channel alpha 4	protein-coding	7.0	11.5	5.5	127.0	32.5	7.5	11.5	6.5
Merged-chr19-4145145-4	chr19	4145043	4145243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_206973, exon 2 of 2)	3' UTR (NM_206973, exon 2 of 2)	-3520.0	NM_011778	23789.0	Mm.276859	NM_011778	ENSMUSG00000024835	Coro1b	-	coronin, actin binding protein 1B	protein-coding	52.5	46.0	47.5	567.5	115.0	46.5	30.5	53.0
Merged-chr7-96951526-4	chr7	96951442	96951642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153591)	promoter-TSS (NM_153591)	15.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	158.5	236.5	142.5	2120.0	352.0	127.0	173.0	144.0
Merged-chr14-29968321-4	chr14	29968238	29968438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019979)	promoter-TSS (NM_019979)	-42.0	NM_019979	80795.0	Mm.104491	NM_019979	ENSMUSG00000042682	Selenok	1110001C03Rik|AA673253|HSPC030|Hsp30|Selk	selenoprotein K	protein-coding	198.5	324.0	180.0	2616.0	558.5	214.5	225.0	251.0
Merged-chr2-84798290-4	chr2	84798205	84798405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019949)	promoter-TSS (NM_019949)	-523.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	36.0	103.0	18.0	433.0	122.5	78.0	54.5	41.0
Merged-chr16-75986699-2	chr16	75986599	75986799	+	623.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14085.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	6.0	5.5	6.0	116.0	3.0	0.5	0.5	1.0
Merged-chr1-154096332-4	chr1	154096251	154096451	+	932.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104836.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	13.5	13.0	12.0	189.5	27.0	13.0	10.0	15.0
Merged-chr10-121334743-4	chr10	121334675	121334875	+	969.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 2 of 12)	intron (NM_001361015, intron 2 of 12)	16869.0	NM_001361015	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	7.5	15.0	9.5	228.0	56.0	18.0	26.5	18.5
Merged-chr14-25747752-4	chr14	25747701	25747901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 2 of 3)	intron (NM_001101433, intron 2 of 3)	21055.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	35.5	40.0	39.0	646.0	69.0	20.5	39.0	29.0
Merged-chr8-106972923-5	chr8	106972820	106973020	+	951.675537	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	37170.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	11.5	9.5	10.5	81.0	28.0	9.5	8.5	7.5
Merged-chr2-25500722-4	chr2	25500617	25500817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027062)	promoter-TSS (NM_027062)	-33.0	NM_001356407	30839.0	Mm.29170	NM_013908	ENSMUSG00000015095	Fbxw5	AI159739|Fbw5	F-box and WD-40 domain protein 5	protein-coding	108.5	174.5	157.5	1304.0	296.0	98.5	110.0	151.5
Merged-chr12-8547453-4	chr12	8547341	8547541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177802, intron 2 of 6)	intron (NM_177802, intron 2 of 6)	-7875.0	NM_001286385	328059.0	Mm.46326	NM_177802	ENSMUSG00000020600	Slc7a15	Arpat	solute carrier family 7 (cationic amino acid transporter, y+ system), member 15	protein-coding	102.0	129.5	96.0	1280.0	101.0	30.0	62.0	58.5
Merged-chr12-40555246-4	chr12	40555158	40555358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	109205.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	58.5	68.5	72.5	1025.0	153.0	50.0	44.5	32.5
Merged-chr7-122087750-4	chr7	122087648	122087848	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028177, exon 5 of 5)	3' UTR (NM_028177, exon 5 of 5)	14100.0	NR_153798	70316.0	Mm.3014	NM_028177	ENSMUSG00000030869	Ndufab1	2210401F17Rik|2310039H15Rik|2610003B19Rik|8kDa|9130423F15Rik|ACP|CI-SDAP|SDAP	NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1	protein-coding	20.0	19.0	35.5	670.0	52.0	5.5	28.0	28.0
Merged-chr6-70804801-4	chr6	70804683	70804883	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12608.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	15.5	21.0	15.5	223.0	45.0	19.0	18.0	23.0
Merged-chr6-99523472-4	chr6	99523355	99523555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2462.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	34.5	54.0	25.0	345.0	67.5	17.5	29.0	19.5
Merged-chr14-52004242-4	chr14	52004125	52004325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198249, intron 21 of 23)	intron (NM_198249, intron 21 of 23)	10333.0	NM_001253695	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	29.0	27.5	16.5	336.0	86.0	29.0	26.5	41.5
Merged-chr18-32173107-3	chr18	32173021	32173221	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011946, intron 1 of 16)	intron (NM_011946, intron 1 of 16)	10032.0	NM_011946	26405.0	Mm.211762	NM_011946	ENSMUSG00000024383	Map3k2	9630061B06Rik|AI585793|Mekk2|Mekk2b	mitogen-activated protein kinase kinase kinase 2	protein-coding	8.0	6.0	5.5	120.0	16.5	3.0	6.0	11.0
Merged-chr10-115315531-4	chr10	115315427	115315627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024454)	promoter-TSS (NM_024454)	64.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	59.5	89.0	82.5	1024.5	133.5	58.0	46.0	44.5
Merged-chr9-96536450-4	chr9	96536323	96536523	+	861.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-57748.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	23.0	15.5	16.5	36.5	17.5	13.0	11.0	11.5
Merged-chr1-13589400-4	chr1	13589297	13589497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028173, intron 1 of 10)	CpG	513.0	NM_028173	72265.0	Mm.28765	NM_028173	ENSMUSG00000025935	Tram1	1810049E02Rik|TRAMP	translocating chain-associating membrane protein 1	protein-coding	33.0	66.0	58.0	936.0	179.5	69.0	101.5	75.0
Merged-chr16-85175030-2	chr16	85174938	85175138	+	864.9166869999999	f0_balb.idr|f1_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1331.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	12.0	28.0	23.5	404.5	3.5	0.5	5.0	1.5
Merged-chr3-36551924-4	chr3	36551818	36552018	+	862.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019393)	promoter-TSS (NM_019393)	-688.0	NM_019393	50911.0	Mm.116711	NM_019393	ENSMUSG00000027714	Exosc9	PM/Scl-75|Pmscl1|RRP45|p5|p6	exosome component 9	protein-coding	10.0	23.5	14.0	129.5	24.0	13.5	8.0	8.5
Merged-chr8-39655648-2	chr8	39655552	39655752	+	671.625	f0_balb.idr|f0_c57.idr	Intergenic	Lx7|LINE|L1	-12974.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	12.0	9.5	16.0	187.0	21.0	7.5	6.5	16.5
Merged-chr4-128924373-4	chr4	128924288	128924488	+	908.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38067.0	NM_172875	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	20.0	22.5	3.5	144.0	27.0	13.0	7.0	9.0
Merged-chr7-4087720-4	chr7	4087623	4087823	+	926.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033568, intron 6 of 8)	intron (NR_033568, intron 6 of 8)	-24519.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	12.0	11.0	5.5	251.5	38.5	11.5	17.5	23.0
Merged-chr4-33251067-4	chr4	33250974	33251174	+	744.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2287.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	7.5	6.0	8.5	88.5	14.0	5.0	10.0	17.5
Merged-chr5-34334535-4	chr5	34334433	34334633	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1717.0	NM_011278	19822.0	Mm.21281	NM_011278	ENSMUSG00000029110	Rnf4	AU018689|Gtrgeo8|SNURF	ring finger protein 4	protein-coding	25.0	29.0	16.0	363.5	68.5	31.5	30.5	39.5
Merged-chr18-10029133-3	chr18	10029034	10029234	+	701.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038589, intron 1 of 14)	intron (NM_001038589, intron 1 of 14)	679.0	NM_001360884	59025.0	Mm.329277	NM_021522	ENSMUSG00000047879	Usp14	2610005K12Rik|2610037B11Rik|AW107924|C78769|ax|nmf375	ubiquitin specific peptidase 14	protein-coding	7.5	10.5	7.0	90.5	13.5	3.0	3.5	6.5
Merged-chr1-181616295-4	chr1	181616205	181616405	+	779.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104854.0	NM_207280	403180.0	Mm.220754	NM_207280	ENSMUSG00000050625	Ccdc121	6530421E24Rik|Gm755	coiled-coil domain containing 121	protein-coding	8.0	10.0	6.0	155.5	29.5	4.5	7.5	16.5
Merged-chr2-142858968-4	chr2	142858856	142859056	+	870.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 3 of 26)	intron (NM_001355123, intron 3 of 26)	42508.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	11.5	6.0	16.5	292.0	12.0	5.0	11.5	12.5
Merged-chr17-74454849-4	chr17	74454757	74454957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 1 of 8)	intron (NM_001033367, intron 1 of 8)	4251.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	21.0	46.0	32.5	583.0	83.0	31.0	38.0	29.0
Merged-chr2-31726930-4	chr2	31726832	31727032	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283047, intron 2 of 11)	intron (NM_001283047, intron 2 of 11)	-33007.0	NM_009594	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	11.5	20.0	12.5	170.5	57.0	13.5	14.0	13.0
Merged-chr12-80231620-4	chr12	80231549	80231749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	intron (NM_134156, intron 1 of 20)	28722.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	64.0	66.5	45.5	812.0	89.5	24.5	52.0	36.0
Merged-chr2-28593035-4	chr2	28592944	28593144	+	907.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9765.0	NM_001290484	70239.0	Mm.274120	NM_148928	ENSMUSG00000026816	Gtf3c5	2700084A09Rik|TFIIIC63|TFiiiC2-63	general transcription factor IIIC, polypeptide 5	protein-coding	9.5	34.0	17.5	162.0	38.5	9.5	27.5	13.5
Merged-chr19-32200228-3	chr19	32200111	32200311	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	10802.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	27.0	55.5	24.0	547.5	10.0	5.0	6.0	6.0
Merged-chr7-69971641-4	chr7	69971548	69971748	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	366174.0	NR_131145	624549.0	Mm.116344	NR_131144	ENSMUSG00000109097	Gm29683	Gm44536	predicted gene, 29683	ncRNA	32.5	24.5	29.5	564.0	49.5	22.5	31.5	19.5
Merged-chr1-105167251-2	chr1	105167151	105167351	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-188756.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	2.0	6.0	6.0	52.0	8.5	12.0	6.0	7.5
Merged-chr3-137948317-4	chr3	137948181	137948381	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	B4A|SINE|B4	29726.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	10.5	26.0	5.5	168.5	32.5	6.5	12.0	8.5
Merged-chr2-58567289-4	chr2	58567186	58567386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110205)	promoter-TSS (NM_001110205)	-48.0	NM_001289660	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	48.0	68.0	44.5	889.5	120.0	38.5	90.5	48.0
Merged-chr16-36704900-4	chr16	36704812	36705012	+	912.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 1 of 7)	intron (NM_001285788, intron 1 of 7)	10934.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	6.0	19.0	13.5	163.5	31.5	10.5	8.5	11.0
Merged-chr10-99270599-4	chr10	99270502	99270702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7371.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	106.0	170.0	138.5	2503.0	246.5	113.0	122.0	104.5
Merged-chr1-75218580-6	chr1	75218481	75218681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313723, intron 1 of 3)	intron (NM_001313723, intron 1 of 3)	713.0	NM_001313723	22145.0	Mm.1155	NM_009447	ENSMUSG00000026202	Tuba4a	M[a]4|Tuba4	tubulin, alpha 4A	protein-coding	13.0	14.5	32.0	422.0	57.5	20.5	28.5	23.0
Merged-chr15-102239412-3	chr15	102239300	102239500	+	825.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011244, exon 8 of 10)	exon (NM_011244, exon 8 of 10)	7100.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	6.5	5.0	10.5	50.0	30.5	12.5	11.5	8.0
Merged-chr7-92980973-4	chr7	92980864	92981064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98915.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	49.0	50.5	48.0	841.5	98.5	32.5	68.5	57.0
Merged-chr9-103490562-2	chr9	103490462	103490662	+	861.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359465, intron 3 of 4)	intron (NM_001359465, intron 3 of 4)	-10234.0	NM_001002896	107993.0	Mm.335403	NM_001002896	ENSMUSG00000032556	Bfsp2	AI448593|CP49	beaded filament structural protein 2, phakinin	protein-coding	5.0	10.5	5.0	52.0	13.0	1.0	2.0	1.5
Merged-chr12-69962618-1	chr12	69962518	69962718	+	554.0	f0_balb.idr	promoter-TSS (NR_036607)	promoter-TSS (NR_036607)	-791.0	NR_036607	100040999.0	Mm.394588	NR_036607	ENSMUSG00000079076	Gm3086	-	RuvB-like protein 1 pseudogene	pseudo	5.0	4.5	6.0	85.5	18.5	3.0	2.5	3.5
Merged-chr16-8784923-3	chr16	8784823	8785023	+	772.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-45177.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	15.5	12.5	4.0	123.5	13.5	13.0	8.5	6.5
Merged-chr13-55369760-4	chr13	55369653	55369853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016758)	promoter-TSS (NM_016758)	21.0	NM_016758	51791.0	Mm.1426	NM_016758	ENSMUSG00000052087	Rgs14	RPIP1	regulator of G-protein signaling 14	protein-coding	69.5	83.0	56.0	765.5	161.0	81.5	69.0	69.0
Merged-chr5-139324280-3	chr5	139324184	139324384	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 1 of 10)	intron (NM_172723, intron 1 of 10)	1180.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	2.5	12.5	4.5	66.0	10.5	5.5	6.5	7.0
Merged-chr5-124014990-4	chr5	124014891	124015091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	17269.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	95.0	137.0	147.0	1455.0	273.5	71.5	85.5	79.5
Merged-chr11-53775966-4	chr11	53775882	53776082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159396, exon 9 of 10)	exon (NM_001159396, exon 9 of 10)	5509.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	58.0	63.0	30.5	773.5	123.0	34.0	49.5	48.5
Merged-chr11-110464114-4	chr11	110463999	110464199	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	MTE2a|LTR|ERVL-MaLR	-14416.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	10.0	14.5	6.5	127.0	38.5	17.0	32.0	11.0
Merged-chr17-50528693-4	chr17	50528596	50528796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	MTEa|LTR|ERVL-MaLR	19149.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	39.5	73.0	21.0	603.0	116.0	41.0	39.5	37.0
Merged-chr8-85036838-4	chr8	85036758	85036958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122843)	promoter-TSS (NM_001122843)	-57.0	NM_145390	212999.0	Mm.220357	NM_145390	ENSMUSG00000031691	Tnpo2	1110034O24Rik|AA414969|AI464345|AI852433|IPO3|Knpb2b|Kpnb2b|TRN2	transportin 2 (importin 3, karyopherin beta 2b)	protein-coding	60.0	112.0	60.0	1092.0	232.5	115.0	89.5	106.0
Merged-chr15-5144245-2	chr15	5144145	5144345	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013367, intron 1 of 8)	intron (NM_001013367, intron 1 of 8)	384.0	NM_001355640	105787.0	Mm.207004	NM_001013367	ENSMUSG00000050697	Prkaa1	AI194361|AI450832|AL024255|AMPKalpha1|C130083N04Rik	protein kinase, AMP-activated, alpha 1 catalytic subunit	protein-coding	9.0	14.5	18.5	88.5	27.5	9.5	10.0	17.0
Merged-chr2-94405051-4	chr2	94404958	94405158	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183106, intron 1 of 24)	intron (NM_183106, intron 1 of 24)	1631.0	NM_183106	74569.0	Mm.248504	NM_183106	ENSMUSG00000027194	Ttc17	9130020K17Rik|D2Bwg1005e	tetratricopeptide repeat domain 17	protein-coding	20.0	37.5	19.0	304.0	41.0	15.0	22.5	23.0
Merged-chr5-151322128-4	chr5	151322023	151322223	+	965.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-46552.0	NR_045700	625175.0	Mm.443286	NR_045699	ENSMUSG00000097321	1700028E10Rik	A630054D14|Gm6561	RIKEN cDNA 1700028E10 gene	ncRNA	13.0	14.5	20.5	203.0	91.5	11.5	50.0	33.0
Merged-chr19-10947417-4	chr19	10947271	10947471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023731, intron 1 of 3)	intron (NM_023731, intron 1 of 3)	1895.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	99.5	151.0	127.5	1340.5	193.0	77.5	66.5	56.0
Merged-chr1-44102502-4	chr1	44102414	44102614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029368)	promoter-TSS (NM_029368)	-73.0	NM_001356297	75623.0	Mm.348017	NM_029368	ENSMUSG00000026049	Tex30	1700029F09Rik|3110030D08Rik	testis expressed 30	protein-coding	213.0	221.5	188.0	3386.0	402.5	144.0	150.0	178.0
Merged-chr17-28756596-4	chr17	28756498	28756698	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12719.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	14.5	24.5	11.0	260.0	17.0	14.5	21.5	12.0
Merged-chr1-7053577-3	chr1	7053466	7053666	+	840.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35354.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	2.0	4.0	7.5	107.0	16.5	6.5	5.5	5.0
Merged-chr15-27709426-4	chr15	27709357	27709557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27915.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	79.5	108.5	60.5	1097.5	124.5	71.5	90.5	56.5
Merged-chr3-31145937-6	chr3	31145838	31146038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3982.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	11.5	27.0	20.0	255.5	31.5	11.5	15.0	15.0
Merged-chr17-34934051-4	chr17	34933962	34934162	+	879.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010893, exon 4 of 6)	exon (NM_010893, exon 4 of 6)	2809.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	9.5	15.0	13.0	111.0	29.5	5.0	15.0	1.5
Merged-chr2-160363351-3	chr2	160363251	160363451	+	973.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010658)	TTS (NM_010658)	3714.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	13.0	19.5	18.5	160.5	17.5	7.5	11.0	12.0
Merged-chr5-113724660-3	chr5	113724563	113724763	+	853.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033216, exon 1 of 3)	non-coding (NR_033216, exon 1 of 3)	109.0	NR_033216	381707.0	Mm.159016	NR_033216	ENSMUSG00000042184	1700069L16Rik	1700096P12Rik	RIKEN cDNA 1700069L16 gene	ncRNA	6.0	9.0	7.0	108.0	20.0	10.5	12.0	3.5
Merged-chr13-90923045-7	chr13	90922944	90923144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024175)	promoter-TSS (NM_024175)	-78.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	111.0	138.0	101.5	1173.0	181.0	107.0	72.5	63.5
Merged-chr11-105599600-2	chr11	105599500	105599700	+	733.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_181071, intron 1 of 25)	intron (NM_181071, intron 1 of 25)	9614.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	12.0	5.5	6.0	57.5	7.0	4.5	2.5	0.5
Merged-chr12-116460581-4	chr12	116460483	116460683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133762, exon 29 of 29)	exon (NM_133762, exon 29 of 29)	-25137.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	38.5	57.0	52.0	1224.0	187.5	89.5	89.5	74.0
Merged-chr17-71616787-4	chr17	71616670	71616870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175639, intron 1 of 17)	CpG	555.0	NM_175639	72515.0	Mm.257762	NM_175639	ENSMUSG00000041057	Wdr43	2610318G08Rik|AU020887|AV024208|Wrd43|mKIAA0007	WD repeat domain 43	protein-coding	15.5	28.0	32.0	297.5	46.0	27.5	20.0	34.0
Merged-chr6-123261703-3	chr6	123261601	123261801	+	661.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010819)	promoter-TSS (NM_010819)	-406.0	NM_001163161	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	9.0	13.0	3.5	76.0	20.0	12.5	6.0	4.5
Merged-chr9-61020127-3	chr9	61020017	61020217	+	881.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040767)	TTS (NR_040767)	3048.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	8.0	15.5	6.5	116.0	39.0	8.0	5.5	10.5
Merged-chr7-35735455-3	chr7	35735352	35735552	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 3 of 18)	intron (NM_178704, intron 3 of 18)	19002.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	159.5	117.5	201.0	3028.5	0.0	1.0	0.5	0.0
Merged-chr7-109613951-4	chr7	109613839	109614039	+	971.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001326, intron 1 of 19)	intron (NM_001001326, intron 1 of 19)	2629.0	NR_037617	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	22.5	35.5	21.0	224.0	77.5	31.0	24.5	14.5
Merged-chr6-28482389-4	chr6	28482292	28482492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 1 of 23)	intron (NM_019776, intron 1 of 23)	2044.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	25.0	98.5	30.0	332.5	164.5	69.0	65.0	47.5
Merged-chr1-64301447-7	chr1	64301363	64301563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-180074.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	51.0	117.5	122.5	1094.0	151.5	92.0	74.5	81.5
Merged-chr13-31806505-4	chr13	31806391	31806591	+	876.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008592)	promoter-TSS (NM_008592)	-155.0	NM_008592	17300.0	Mm.12949	NM_008592	ENSMUSG00000050295	Foxc1	FREAC3|Fkh1|Mf1|Mf4|ch|fkh-1|frkhda	forkhead box C1	protein-coding	16.5	14.5	22.0	297.0	29.0	3.0	13.5	9.0
Merged-chr13-59818527-4	chr13	59818441	59818641	+	654.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153538, intron 2 of 27)	intron (NM_153538, intron 2 of 27)	4606.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	6.5	8.0	11.5	127.5	25.0	10.5	8.5	9.0
Merged-chr7-51862279-4	chr7	51862168	51862368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001115087)	promoter-TSS (NM_001115087)	-1.0	NM_001115087	100040608.0	Mm.322643	NM_001115087	ENSMUSG00000092118	Fancf	A730016A17	Fanconi anemia, complementation group F	protein-coding	142.0	154.5	163.5	2384.0	291.5	83.0	158.5	122.5
Merged-chr7-27542604-6	chr7	27542509	27542709	+	867.535339	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317355, intron 3 of 13)	intron (NM_001317355, intron 3 of 13)	10609.0	NM_011116	18807.0	Mm.6483	NM_011116	ENSMUSG00000003363	Pld3	Sam-9	phospholipase D family, member 3	protein-coding	6.0	9.0	16.5	81.5	12.0	8.0	5.0	13.5
Merged-chr13-37541858-4	chr13	37541771	37541971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	196526.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	33.5	41.0	26.5	312.0	85.0	23.0	36.5	23.0
Merged-chr2-119300344-4	chr2	119300259	119300459	+	955.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11617.0	NM_172269	228545.0	Mm.294761	NM_172269	ENSMUSG00000034216	Vps18	9930024E13Rik	VPS18 CORVET/HOPS core subunit	protein-coding	23.0	26.5	9.0	228.0	35.0	19.0	23.5	15.5
Merged-chr16-45408808-3	chr16	45408741	45408941	+	754.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010818, intron 1 of 5)	intron (NM_010818, intron 1 of 5)	212.0	NM_001358443	17470.0	Mm.245851	NM_010818	ENSMUSG00000022661	Cd200	Mox2|OX2	CD200 antigen	protein-coding	8.5	4.5	6.0	113.5	8.0	4.0	3.0	8.5
Merged-chr4-11156349-4	chr4	11156255	11156455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021897)	promoter-TSS (NM_021897)	-86.0	NM_001199105	60599.0	Mm.393018	NM_021897	ENSMUSG00000028211	Trp53inp1	2700057G22Rik|SIP|SIP18|SIP27|Stinp|Teap|p53DINP1	transformation related protein 53 inducible nuclear protein 1	protein-coding	251.5	305.5	239.5	3441.5	563.5	181.0	266.0	204.0
Merged-chr10-57570466-4	chr10	57570408	57570608	+	952.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-37979.0	NM_019760	56442.0	Mm.29344	NM_019760	ENSMUSG00000019877	Serinc1	1500011D18Rik|AI315070|AIGP-2|TMS-2|Tde1l|Tde2|Tms2|mKIAA1253	serine incorporator 1	protein-coding	18.0	14.0	45.5	499.0	54.0	9.5	14.0	28.0
Merged-chr16-32876889-3	chr16	32876806	32877006	+	880.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027226)	promoter-TSS (NM_027226)	-878.0	NM_001356387	69823.0	Mm.12831	NM_027226	ENSMUSG00000022800	Fyttd1	2010005M05Rik|3830411L18Rik|3830421F13Rik|4933423A17Rik|AI098218|AW539567|C85190	forty-two-three domain containing 1	protein-coding	11.5	15.0	8.5	213.0	15.5	5.0	6.5	10.0
Merged-chr7-143119411-4	chr7	143119262	143119462	+	901.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008434, intron 1 of 15)	intron (NM_008434, intron 1 of 15)	12108.0	NM_008434	16535.0	Mm.439769	NM_008434	ENSMUSG00000009545	Kcnq1	AW559127|KVLQT1|Kcna9	potassium voltage-gated channel, subfamily Q, member 1	protein-coding	19.5	18.0	5.0	149.5	18.5	8.5	6.5	17.5
Merged-chr8-35567473-4	chr8	35567367	35567567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20331.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	110.0	129.5	136.0	2031.5	85.5	42.0	45.5	44.0
Merged-chr8-126494623-4	chr8	126494523	126494723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19558.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	129.0	176.0	176.5	2554.5	268.5	109.0	148.5	123.0
Merged-chr1-151250347-2	chr1	151250247	151250447	+	686.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94139.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	4.5	6.5	6.5	31.5	11.0	7.0	2.0	2.0
Merged-chr16-95990956-4	chr16	95990841	95991041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019537)	promoter-TSS (NM_019537)	19.0	NM_019537	56088.0	Mm.396248	NM_019537	ENSMUSG00000022913	Psmg1	AW552102|Dscr2	proteasome (prosome, macropain) assembly chaperone 1	protein-coding	117.0	145.5	98.5	1695.0	322.0	105.0	129.5	141.0
Merged-chr9-121632091-4	chr9	121631906	121632106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026915, intron 1 of 5)	intron (NM_026915, intron 1 of 5)	9587.0	NM_026915	69032.0	Mm.33351	NM_026915	ENSMUSG00000032530	Lyzl4	1810009N24Rik|AI504271|Lyc4|Lyza	lysozyme-like 4	protein-coding	47.5	73.0	85.0	1161.5	164.0	64.5	69.5	95.5
Merged-chr17-50120292-4	chr17	50120215	50120415	+	904.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	70182.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	7.5	6.0	3.5	257.0	93.0	37.5	68.0	61.0
Merged-chr1-53742245-3	chr1	53742154	53742354	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35470.0	NM_001252070	627872.0	Mm.184692	NM_001252070	ENSMUSG00000096141	Dnah7a	Dnahc7|Dnahc7a|Gm992	dynein, axonemal, heavy chain 7A	protein-coding	0.0	1.0	2.0	23.5	154.0	55.0	74.5	50.5
Merged-chr3-122620050-8	chr3	122620060	122620260	+	821.770813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153118)	promoter-TSS (NM_153118)	-446.0	NM_001114665	214459.0	Mm.209491	NM_153118	ENSMUSG00000039735	Fnbp1l	2610318I01Rik|AW548221|TOCA1|toca-1	formin binding protein 1-like	protein-coding	3.5	6.5	5.0	80.0	17.0	11.5	5.5	14.0
Merged-chr2-104742776-4	chr2	104742637	104742837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144804)	promoter-TSS (NM_144804)	64.0	NM_144804	211896.0	Mm.288805	NM_144804	ENSMUSG00000027173	Depdc7	AV216087	DEP domain containing 7	protein-coding	63.5	134.0	146.5	1148.5	123.5	51.5	58.5	53.0
Merged-chr7-35065095-4	chr7	35064982	35065182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8516.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	107.5	114.5	68.5	1245.5	239.0	73.5	95.5	89.5
Merged-chr13-37600381-4	chr13	37600278	37600478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-225660.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	39.0	87.5	76.0	771.0	106.0	53.0	43.5	40.0
Merged-chr12-80279637-4	chr12	80279554	80279754	+	961.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-19273.0	NM_001346669	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	20.5	21.0	13.5	343.5	58.5	15.5	22.5	22.5
Merged-chr4-35105504-4	chr4	35105394	35105594	+	872.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-46561.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	8.5	12.0	22.5	299.5	18.0	13.0	8.0	16.5
Merged-chr8-46850711-3	chr8	46850617	46850817	+	721.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110972.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	7.5	10.0	12.5	97.0	10.5	7.0	6.5	14.5
Merged-chr10-87740716-1	chr10	87740616	87740816	+	661.0	f0_balb.idr	Intergenic	Intergenic	-117549.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	8.5	7.0	10.0	104.5	14.5	11.0	8.0	7.0
Merged-chr2-170195737-3	chr2	170195620	170195820	+	588.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53045.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	8.5	12.5	8.0	95.5	7.5	3.5	4.0	5.0
Merged-chr11-54149986-4	chr11	54149880	54150080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	49056.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	97.0	124.0	76.0	1315.5	123.5	46.5	62.5	79.5
Merged-chr10-125745043-5	chr10	125744935	125745135	+	860.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-221184.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	12.0	22.5	28.0	369.0	32.5	6.5	14.0	12.5
Merged-chr14-69238392-4	chr14	69238276	69238476	+	860.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46727.0	NM_026331	67712.0	Mm.293635	NM_026331	ENSMUSG00000034248	Slc25a37	1700020E22Rik|4930513O14Rik|4930526G11Rik|AI848481|C330015G08Rik|Mfrn|Mfrn1|Mscp|frascati|mitoferrin	solute carrier family 25, member 37	protein-coding	10.0	10.5	0.0	142.5	22.0	8.5	9.0	12.5
Merged-chr9-108341175-4	chr9	108341048	108341248	+	934.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001329528)	TTS (NM_001329528)	2068.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	8.5	18.0	22.5	169.5	39.0	11.0	17.5	11.5
Merged-chr11-54984310-2	chr11	54984210	54984410	+	869.833374	f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 22 of 24)	Kanga1a|DNA|TcMar-Tc2	-21370.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	8.0	3.5	4.0	82.0	8.5	11.0	6.0	5.0
Merged-chr5-99630311-4	chr5	99630186	99630386	+	912.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	98774.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	9.0	16.0	5.5	202.5	46.0	23.0	12.5	22.0
Merged-chr2-118541053-4	chr2	118540953	118541153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 3 of 3)	intron (NM_001331221, intron 3 of 3)	3534.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	22.5	39.5	20.5	311.5	91.0	38.5	42.0	40.5
Merged-chr1-125526186-3	chr1	125526080	125526280	+	938.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34415.0	NM_001356294	74150.0	Mm.28654	NM_028787	ENSMUSG00000026342	Slc35f5	1300003P13Rik|AI646727	solute carrier family 35, member F5	protein-coding	8.5	13.5	9.0	195.5	5.5	5.0	10.5	4.0
Merged-chr6-32519565-3	chr6	32519452	32519652	+	801.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	8411.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	4.5	14.0	6.5	156.5	9.0	2.5	3.5	9.0
Merged-chr1-40295036-4	chr1	40294937	40295137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123382, intron 5 of 10)	intron (NM_001123382, intron 5 of 10)	28451.0	NM_001123382	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	113.0	146.0	105.5	1798.0	299.5	138.0	127.0	101.0
Merged-chr8-8661992-4	chr8	8661891	8662091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1218.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	23.5	34.0	28.0	548.5	49.5	26.0	38.5	35.0
Merged-chr5-113592039-4	chr5	113591932	113592132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41612.0	NM_177292	320916.0	Mm.102783	NM_177292	ENSMUSG00000063430	Wscd2	4933413A10Rik|C530024P05Rik|Gm450	WSC domain containing 2	protein-coding	57.5	129.5	67.0	1203.0	263.0	117.5	98.0	80.5
Merged-chr15-80977876-4	chr15	80977814	80978014	+	988.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357669, intron 1 of 20)	CpG	149.0	NM_134091	105835.0	Mm.274943	NM_134091	ENSMUSG00000042303	Sgsm3	1810012I01Rik|AI428557|BB175482|Cip85|R75178|RUSC3|Rutbc3	small G protein signaling modulator 3	protein-coding	22.0	15.5	24.5	160.5	32.5	19.5	12.0	30.0
Merged-chr12-86949698-3	chr12	86949584	86949784	+	791.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173735, intron 1 of 3)	intron (NM_173735, intron 1 of 3)	2341.0	NM_001289432	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	17.5	8.0	8.0	221.0	13.0	2.0	9.0	3.0
Merged-chr9-110709931-4	chr9	110709810	110710010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028312, exon 4 of 7)	exon (NM_028312, exon 4 of 7)	32700.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	57.0	78.0	54.5	797.5	164.5	47.5	69.0	60.5
Merged-chr13-18782332-3	chr13	18782229	18782429	+	945.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 4 of 28)	intron (NM_172120, intron 4 of 28)	65037.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	10.5	20.5	14.5	225.0	7.0	5.0	7.0	7.5
Merged-chr18-50053423-4	chr18	50053312	50053512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134131, exon 1 of 2)	5' UTR (NM_134131, exon 1 of 2)	130.0	NM_134131	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	81.5	207.0	73.5	918.5	239.5	137.0	104.5	92.5
Merged-chr12-40460003-4	chr12	40459904	40460104	+	930.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	13951.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	8.5	13.0	8.0	234.5	35.0	16.0	16.0	12.5
Merged-chr16-23557891-4	chr16	23557792	23557992	+	949.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19A|LTR|ERVK	-37077.0	NM_001359083	17174.0	Mm.1213	NM_008555	ENSMUSG00000022887	Masp1	AW048060|CCPII|Crarf|Masp1/3	mannan-binding lectin serine peptidase 1	protein-coding	2.5	11.5	9.0	244.5	50.0	11.0	10.0	24.0
Merged-chr2-147013438-4	chr2	147013285	147013485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 1 of 28)	CpG	386.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	31.0	59.0	42.0	455.0	124.5	45.5	69.0	42.0
Merged-chr19-53566050-3	chr19	53565957	53566157	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AmnSINE1|SINE|Deu	-34339.0	NM_007790	13006.0	Mm.14910	NM_007790	ENSMUSG00000024974	Smc3	Bamacan|Cspg6|HCAP|Mmip1|SMC-3|SmcD	structural maintenance of chromosomes 3	protein-coding	65.0	33.0	62.0	558.5	14.5	12.0	3.5	2.0
Merged-chr12-102389587-2	chr12	102389487	102389687	+	876.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 9 of 9)	intron (NM_177620, intron 9 of 9)	50226.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	7.5	8.5	6.0	26.5	4.0	6.5	3.0	5.5
Merged-chr10-80603046-7	chr10	80602932	80603132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019575, intron 1 of 6)	CpG	150.0	NM_019575	56214.0	Mm.273170	NM_019575	ENSMUSG00000113949	Scamp4	2410022D05Rik|AI448940|AU022392|AW742369|Sc4	secretory carrier membrane protein 4	protein-coding	62.5	118.5	91.0	595.5	124.0	53.0	61.5	64.5
Merged-chr4-145233419-2	chr4	145233319	145233519	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	13451.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	9.5	15.0	17.0	238.5	30.0	13.5	13.5	12.5
Merged-chr7-16931115-4	chr7	16931051	16931251	+	892.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7119.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	2.5	6.0	3.0	85.5	43.0	4.5	7.5	8.5
Merged-chr6-65453670-3	chr6	65453562	65453762	+	710.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175524, intron 4 of 5)	intron (NM_175524, intron 4 of 5)	72368.0	NM_175524	243407.0	Mm.389758	NM_175524	ENSMUSG00000029917	C130060K24Rik	-	RIKEN cDNA C130060K24 gene	protein-coding	12.0	5.0	8.0	91.5	17.5	3.5	6.0	3.0
Merged-chr14-52279490-4	chr14	52279373	52279573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172601)	promoter-TSS (NM_172601)	-78.0	NM_172601	76338.0	Mm.32870	NM_172601	ENSMUSG00000022159	Rab2b	1500012D09Rik|4930528G15Rik|A230002G14|D530043M21Rik	RAB2B, member RAS oncogene family	protein-coding	242.5	424.0	283.0	4235.5	641.5	242.0	309.5	268.0
Merged-chr16-78217091-4	chr16	78216987	78217187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38367.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	101.0	148.0	149.5	2360.0	315.5	89.5	144.5	121.5
Merged-chr11-46436952-4	chr11	46436849	46437049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025426)	promoter-TSS (NM_025426)	2.0	NM_001104530	66213.0	Mm.24159	NM_025426	ENSMUSG00000020397	Med7	1110063B05Rik|Crsp33|Crsp9	mediator complex subunit 7	protein-coding	97.0	132.0	120.5	1448.5	243.5	76.0	118.5	90.5
Merged-chr6-142708647-4	chr6	142708535	142708735	+	879.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6361.0	NM_001310143	20928.0	Mm.35670	NM_011511	ENSMUSG00000030249	Abcc9	AI414027|AI449286|SUR2A|SUR2B|Sur2	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	protein-coding	22.0	12.0	9.0	179.0	34.0	18.5	16.5	10.0
Merged-chr6-54939938-4	chr6	54939828	54940028	+	888.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 4 of 11)	intron (NM_001171007, intron 4 of 11)	31733.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	7.0	3.0	11.5	244.0	10.5	7.5	8.0	16.0
Merged-chr5-149016021-3	chr5	149015894	149016094	+	723.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9032.0	NR_040429	100503307.0	Mm.188008	NR_040429	ENSMUSG00000086610	Gm15408	-	predicted gene 15408	ncRNA	6.5	11.0	10.0	74.5	19.5	9.0	8.5	6.5
Merged-chr2-174069825-4	chr2	174069718	174069918	+	799.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7233.0	NM_172675	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	13.0	13.5	23.5	406.5	26.0	4.0	22.0	11.5
Merged-chr1-153796218-3	chr1	153796119	153796319	+	923.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243223, intron 15 of 20)	MTA_Mm|LTR|ERVL-MaLR	46793.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	10.5	29.0	11.5	169.5	23.5	11.0	9.0	18.0
Merged-chr7-83859914-4	chr7	83859838	83860038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24403.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	94.0	83.5	128.5	1434.5	133.0	44.0	106.5	67.0
Merged-chr6-137696677-4	chr6	137696575	137696775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38407.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	42.5	36.0	61.5	543.0	75.0	25.5	29.0	31.0
Merged-chr10-88731812-2	chr10	88731712	88731912	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037166)	promoter-TSS (NM_001037166)	398.0	NM_025859	104303.0	Mm.291247	NM_025859	ENSMUSG00000060904	Arl1	2310008D22Rik|AU019749	ADP-ribosylation factor-like 1	protein-coding	8.5	17.0	19.5	180.5	34.0	15.5	16.5	22.0
Merged-chr2-167687704-6	chr2	167687576	167687776	+	862.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-1239.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	8.5	11.0	16.0	199.0	19.0	7.5	6.5	12.0
Merged-chr4-132491949-4	chr4	132491843	132492043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144907)	TTS (NM_144907)	18513.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	35.0	30.5	61.0	803.0	65.5	23.0	40.5	31.0
Merged-chr3-117868305-3	chr3	117868214	117868414	+	834.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190156, intron 1 of 7)	intron (NM_001190156, intron 1 of 7)	622.0	NM_001190156	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	9.5	11.0	25.0	107.0	7.0	5.5	4.0	5.5
Merged-chr11-102309105-4	chr11	102308992	102309192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001044383, intron 12 of 19)	CpG	8195.0	NM_001044383	21429.0	Mm.2845	NM_011551	ENSMUSG00000020923	Ubtf	A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1	upstream binding transcription factor, RNA polymerase I	protein-coding	80.0	147.0	60.5	1182.5	306.5	121.5	111.5	137.5
Merged-chr7-139971612-3	chr7	139971518	139971718	+	648.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347613)	TTS (NM_001347613)	7137.0	NM_001347614	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	16.0	6.0	12.5	94.5	7.0	0.5	3.5	4.0
Merged-chr19-53464843-4	chr19	53464749	53464949	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028427)	promoter-TSS (NR_028427)	-53.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	67.0	118.0	74.5	1174.0	53.5	15.5	19.0	8.5
Merged-chr5-108566730-3	chr5	108566622	108566822	+	874.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16695.0	NM_007756	12889.0	Mm.5195	NM_007756	ENSMUSG00000033615	Cplx1	921-S	complexin 1	protein-coding	9.0	15.5	15.5	218.5	12.5	2.0	10.5	6.0
Merged-chr2-174110512-10	chr2	174110417	174110617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_213733, exon 1 of 12)	exon (NM_213733, exon 1 of 12)	166.0	NM_213733	228961.0	Mm.295629	NM_213733	ENSMUSG00000039263	Npepl1	BC023239|C85514|mKIAA1974	aminopeptidase-like 1	protein-coding	20.0	21.0	36.5	395.5	28.0	21.5	18.0	13.5
Merged-chr12-88472161-4	chr12	88472041	88472241	+	950.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB7_1-LTR_MM|LTR|ERVK	-94818.0	NR_045888	71818.0	Mm.490789	NR_045888	ENSMUSG00000113434	3200001D21Rik	-	RIKEN cDNA 3200001D21 gene	ncRNA	25.0	31.5	33.5	302.0	29.0	18.0	14.0	21.5
Merged-chr7-25726158-4	chr7	25726083	25726283	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360789, exon 12 of 15)	exon (NM_001360789, exon 12 of 15)	-7130.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	41.5	73.5	38.0	512.0	66.5	42.5	28.5	20.0
Merged-chr17-48316124-4	chr17	48316040	48316240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177083)	promoter-TSS (NM_177083)	-22.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	38.0	49.0	20.0	460.5	82.0	23.0	38.5	44.0
Merged-chr4-118428083-4	chr4	118427991	118428191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019422)	promoter-TSS (NM_019422)	-2.0	NM_001039175	54325.0	Mm.282096	NM_019422	ENSMUSG00000006390	Elovl1	AA407424|BB151133|Ssc1	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1	protein-coding	204.5	294.5	237.0	2912.5	551.5	199.5	267.5	212.0
Merged-chr2-144338307-3	chr2	144338209	144338409	+	737.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-6229.0	NM_026924	107586.0	Mm.252750	NM_026924	ENSMUSG00000037279	Ovol2	1700108N11Rik|1810007D21Rik|M-OVO|M-OVO-A|M-OVO-B|MOVO|Ovo2|Zfp339|movo2	ovo like zinc finger 2	protein-coding	7.5	7.5	4.5	37.5	21.0	7.5	3.5	17.5
Merged-chr8-18759955-5	chr8	18759828	18760028	+	736.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173189, intron 12 of 13)	MER126|DNA|DNA	-18366.0	NM_007426	11601.0	Mm.439874	NM_007426	ENSMUSG00000031465	Angpt2	Agpt2|Ang-2|Ang2	angiopoietin 2	protein-coding	8.5	10.5	11.0	92.5	6.0	8.5	4.5	2.0
Merged-chr6-116712268-4	chr6	116712162	116712362	+	847.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178768, intron 1 of 4)	intron (NM_178768, intron 1 of 4)	4496.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	1.0	12.5	4.5	137.5	24.5	5.5	8.0	5.0
Merged-chr8-111536519-4	chr8	111536426	111536626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168621)	promoter-TSS (NM_001168621)	-114.0	NM_001168622	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	31.5	51.5	23.0	372.5	74.5	28.0	35.5	28.5
Merged-chr1-153510583-4	chr1	153510478	153510678	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 10 of 11)	intron (NM_028749, intron 10 of 11)	-22918.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	26.0	70.0	29.0	266.5	117.5	34.5	51.5	17.5
Merged-chr8-104565069-4	chr8	104564962	104565162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23753.0	NM_001301165	12354.0	Mm.129265	NM_053070	ENSMUSG00000031883	Car7	AV343731|Ca7	carbonic anhydrase 7	protein-coding	54.0	99.5	45.0	785.0	170.5	53.0	102.0	75.5
Merged-chr4-56070236-4	chr4	56070144	56070344	+	858.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-537769.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	11.0	9.5	12.5	239.0	15.5	7.5	11.0	16.0
Merged-chr7-58742866-2	chr7	58742766	58742966	+	974.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_009728, intron 2 of 20)	MTEb|LTR|ERVL-MaLR	84664.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	3.0	6.0	6.0	138.5	18.0	5.0	10.5	12.5
Merged-chr7-98103457-3	chr7	98103347	98103547	+	935.833374	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 3 of 48)	intron (NM_008663, intron 3 of 48)	5801.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	6.0	2.5	2.0	30.0	34.0	12.0	6.0	16.5
Merged-chr11-79140338-4	chr11	79140254	79140454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	6119.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	57.5	64.0	40.0	812.0	76.0	19.0	38.0	58.0
Merged-chr5-104973652-4	chr5	104973564	104973764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030239, intron 5 of 15)	intron (NM_030239, intron 5 of 15)	9053.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	51.5	45.5	44.0	761.5	152.0	53.5	77.5	57.0
Merged-chr19-46467251-4	chr19	46467113	46467313	+	837.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 8 of 11)	intron (NM_001025391, intron 8 of 11)	-34435.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	11.5	9.0	6.5	146.0	17.0	12.0	12.0	5.5
Merged-chr1-177191808-4	chr1	177191695	177191895	+	800.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	intron (NM_011785, intron 1 of 12)	56972.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	11.0	8.0	8.0	230.0	28.0	8.5	12.5	7.5
Merged-chr6-125509971-3	chr6	125509855	125510055	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-15195.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	6.0	11.0	2.5	44.0	89.5	23.5	42.5	30.5
Merged-chr13-45507485-4	chr13	45507396	45507596	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025508)	promoter-TSS (NM_025508)	52.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	15.5	21.5	25.0	227.5	26.5	9.0	10.0	15.0
Merged-chr12-55491939-4	chr12	55491861	55492061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010907, intron 1 of 5)	intron (NM_010907, intron 1 of 5)	686.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	273.5	419.0	260.5	3289.5	580.0	250.5	292.0	177.0
Merged-chr15-11972057-4	chr15	11971947	11972147	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4985.0	NR_040447	73339.0	Mm.231975	NR_040447	ENSMUSG00000099349	1700047G03Rik	-	RIKEN cDNA 1700047G03 gene	ncRNA	20.5	36.0	35.0	489.0	59.0	17.5	25.5	19.5
Merged-chr15-75021538-3	chr15	75021438	75021638	+	987.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23507.0	NM_010738	110454.0	Mm.425949	NM_010738	ENSMUSG00000075602	Ly6a	Ly-6A.2|Ly-6A/E|Ly-6E.1|Sca-1|Sca1|TAP	lymphocyte antigen 6 complex, locus A	protein-coding	2.5	2.5	0.0	0.0	63.0	29.5	17.5	37.0
Merged-chr10-42487083-4	chr10	42486980	42487180	+	743.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8515.0	NM_145743	215951.0	Mm.89646	NM_145743	ENSMUSG00000038302	Afg1l	CG8520|Lace1	AFG1 like ATPase	protein-coding	4.0	9.0	1.5	98.5	15.0	10.0	14.5	9.5
Merged-chr8-71308149-4	chr8	71308020	71308220	+	813.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	intron (NM_001142322, intron 2 of 39)	35406.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	13.5	29.0	4.5	200.5	17.5	9.5	7.0	12.5
Merged-chr1-7894863-1	chr1	7894763	7894963	+	1000.0	f0_balb.idr	Intergenic	RMER19B2|LTR|ERVK	805943.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	9.5	5.0	5.5	229.0	0.5	1.0	0.0	1.5
Merged-chr10-89741221-4	chr10	89741122	89741322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3769.0	NM_029166	75089.0	Mm.268922	NM_029166	ENSMUSG00000019951	Uhrf1bp1l	2010319N22Rik|4930506D01Rik|AA589495|C80672|E030041M21Rik|mKIAA0701	UHRF1 (ICBP90) binding protein 1-like	protein-coding	30.0	43.5	25.5	727.0	72.0	34.0	24.5	38.5
Merged-chr5-140370611-3	chr5	140370509	140370709	+	909.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 1 of 10)	intron (NM_172277, intron 1 of 10)	18699.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	10.0	11.0	9.5	183.5	23.5	4.0	5.5	9.0
Merged-chr2-137969397-3	chr2	137969318	137969518	+	970.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-287166.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	5.5	5.0	9.5	137.5	7.5	4.5	5.5	7.0
Merged-chr1-86532554-4	chr1	86532447	86532647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5990.0	NM_001360830	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	32.0	51.0	19.5	300.5	110.0	32.5	26.0	28.0
Merged-chr5-72203288-4	chr5	72203180	72203380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153389)	promoter-TSS (NM_153389)	-49.0	NR_003966	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	135.5	228.5	120.5	2591.5	344.5	130.0	206.5	123.5
Merged-chr10-20916607-4	chr10	20916507	20916707	+	836.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35940.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	15.5	27.0	10.0	121.5	24.0	5.5	9.5	13.5
Merged-chr9-96483842-4	chr9	96483746	96483946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5171.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	44.0	90.0	62.5	940.0	135.0	56.0	64.0	51.5
Merged-chr9-22096241-4	chr9	22096124	22096324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3029.0	NM_009922	12797.0	Mm.4356	NM_009922	ENSMUSG00000001349	Cnn1	CN|CnnI	calponin 1	protein-coding	112.5	164.5	106.0	1504.0	241.0	81.0	138.0	117.5
Merged-chr1-79672029-4	chr1	79671931	79672131	+	963.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183027)	promoter-TSS (NM_183027)	-59.0	NM_183027	252903.0	Mm.32409	NM_183027	ENSMUSG00000054702	Ap1s3	1190009B22|Jr2|[s]3A	adaptor-related protein complex AP-1, sigma 3	protein-coding	21.0	18.0	20.5	275.0	40.5	13.5	16.0	24.0
Merged-chr13-60508464-3	chr13	60508399	60508599	+	775.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93448.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	2.0	3.0	1.5	26.5	15.0	13.0	6.5	13.5
Merged-chr5-127615616-4	chr5	127615523	127615723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 1 of 7)	intron (NM_133895, intron 1 of 7)	1769.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	27.0	58.5	57.0	636.0	112.5	35.0	38.0	27.5
Merged-chr6-116681670-4	chr6	116681571	116681771	+	952.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7835.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	28.0	24.5	32.0	374.0	35.0	10.5	14.5	19.5
Merged-chr4-155116713-3	chr4	155116614	155116814	+	963.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356327, intron 10 of 12)	intron (NM_001356327, intron 10 of 12)	30110.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	20.0	15.0	21.0	426.0	18.5	2.5	17.5	8.5
Merged-chr12-79089570-4	chr12	79089441	79089641	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029988, exon 1 of 4)	exon (NM_029988, exon 1 of 4)	129.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	10.5	19.0	37.0	150.0	23.0	12.5	9.5	18.5
Merged-chr1-135283079-2	chr1	135282972	135283172	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001159624, intron 1 of 9)	intron (NM_001159624, intron 1 of 9)	1012.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	19.5	38.0	40.5	447.5	88.0	14.0	29.5	47.0
Merged-chr4-75275942-4	chr4	75275848	75276048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	2344.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	76.0	115.5	80.0	1147.5	207.5	63.0	130.0	85.0
Merged-chr11-4704316-4	chr11	4704219	4704419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356391)	promoter-TSS (NM_001356391)	25.0	NM_197979	66152.0	Mm.269736	NM_197979	ENSMUSG00000059534	Uqcr10	1110020P15Rik|AA960494|Ucrc	ubiquinol-cytochrome c reductase, complex III subunit X	protein-coding	58.0	82.5	30.0	535.0	152.0	66.5	58.0	52.0
Merged-chr1-86228940-4	chr1	86228862	86229062	+	989.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 19 of 20)	intron (NM_027456, intron 19 of 20)	74182.0	NM_001310702	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	31.0	28.0	40.5	504.0	39.5	15.5	17.5	16.0
Merged-chr9-85369722-4	chr9	85369652	85369852	+	973.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42602.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	43.0	51.0	57.5	1050.5	34.5	17.5	23.0	11.5
Merged-chr6-128334548-3	chr6	128334450	128334650	+	841.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011657, exon 3 of 11)	exon (NM_011657, exon 3 of 11)	21301.0	NM_011657	22158.0	Mm.291783	NM_011657	ENSMUSG00000001521	Tulp3	2310022L06Rik|AI316887	tubby-like protein 3	protein-coding	9.5	14.0	8.0	167.0	17.0	8.0	7.0	13.0
Merged-chr7-139388900-4	chr7	139388828	139389028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127363)	promoter-TSS (NM_001127363)	-181.0	NM_183144	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	376.0	628.0	397.0	5376.0	988.5	425.5	579.5	363.5
Merged-chr15-79892360-4	chr15	79892299	79892499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160415)	promoter-TSS (NM_001160415)	-9.0	NM_001160415	80287.0	Mm.284059	NM_030255	ENSMUSG00000009585	Apobec3	Apobec|Arp3|BC003314|Cem15|Gm20117|Rfv3	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3	protein-coding	82.5	111.0	54.0	1033.5	125.0	39.5	41.0	42.5
Merged-chr2-12033935-4	chr2	12033762	12033962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	256109.0	NM_177268	320816.0	Mm.260201	NM_177268	ENSMUSG00000047909	Ankrd16	2810455F06Rik|AI646698|D430029B21Rik	ankyrin repeat domain 16	protein-coding	16.0	43.0	43.0	443.5	81.5	29.5	23.5	36.0
Merged-chr3-31107888-3	chr3	31107791	31107991	+	912.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039090, intron 2 of 6)	intron (NM_001039090, intron 2 of 6)	12833.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	3.0	13.0	13.5	122.0	9.0	11.5	10.0	14.0
Merged-chr4-127061139-4	chr4	127061062	127061262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356311)	promoter-TSS (NM_001356311)	-8.0	NM_001356311	68310.0	Mm.273806	NM_026670	ENSMUSG00000043872	Zmym1	5830412B09Rik|AW209050	zinc finger, MYM domain containing 1	protein-coding	14.0	43.5	22.5	230.0	95.0	33.0	34.5	24.5
Merged-chr2-173224214-4	chr2	173224107	173224307	+	913.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022995)	TTS (NM_022995)	-5285.0	NM_001139519	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	4.5	28.0	13.0	134.0	39.5	11.0	11.0	18.0
Merged-chr11-101172103-4	chr11	101172009	101172209	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346769)	promoter-TSS (NM_001346769)	-737.0	NM_001346769	217198.0	Mm.273254	NM_146030	ENSMUSG00000035172	Plekhh3	BC020025	pleckstrin homology domain containing, family H (with MyTH4 domain) member 3	protein-coding	22.0	18.5	12.5	230.5	52.0	23.5	27.5	14.5
Merged-chr3-131892172-3	chr3	131892071	131892271	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-193121.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	0.0	0.0	0.5	9.5	175.0	67.5	56.0	54.5
Merged-chr3-9705289-3	chr3	9705166	9705366	+	764.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 3 of 7)	intron (NM_053182, intron 3 of 7)	-95181.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	3.5	8.0	6.5	102.5	15.5	7.0	4.5	5.5
Merged-chr13-45965232-5	chr13	45965142	45965342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009124)	promoter-TSS (NM_009124)	-251.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	65.5	114.5	56.0	683.5	138.5	72.5	61.5	64.0
Merged-chr6-147092152-2	chr6	147092052	147092252	+	783.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001081237, exon 1 of 3)	exon (NM_001081237, exon 1 of 3)	1077.0	NM_001081237	232539.0	Mm.491206	NM_001081237	ENSMUSG00000040102	Klhl42	A330079N23Rik|AI450355|C230080I20Rik|Ctb9|Klhdc5|mKIAA1340	kelch-like 42	protein-coding	12.0	9.0	7.0	43.0	12.0	0.5	7.0	6.5
Merged-chr4-149173859-4	chr4	149173741	149173941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7136.0	NM_001081274	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	68.5	123.5	82.5	1583.0	144.0	66.0	96.5	85.0
Merged-chr6-127574195-4	chr6	127574081	127574281	+	979.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3794.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	21.5	21.5	28.0	402.0	39.0	8.0	24.0	18.5
Merged-chr16-55795733-6	chr16	55795674	55795874	+	948.267822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26364.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	6.0	27.0	24.5	257.0	23.5	5.5	15.0	12.5
Merged-chr7-127931718-4	chr7	127931618	127931818	+	883.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001319147)	TTS (NM_001319147)	-1605.0	NM_133351	76560.0	Mm.5875	NM_133351	ENSMUSG00000030800	Prss8	2410039E18Rik|AI313909|C79772|CAP1|fr|mCAP1	protease, serine 8 (prostasin)	protein-coding	28.5	18.0	20.5	468.0	18.5	14.0	11.0	10.0
Merged-chr4-55327724-3	chr4	55327614	55327814	+	699.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22328.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	6.0	5.5	13.5	159.0	11.0	1.0	1.5	7.5
Merged-chr8-47991143-4	chr8	47991061	47991261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133791)	promoter-TSS (NM_133791)	-610.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	101.0	137.5	115.5	1884.0	158.5	50.0	81.5	76.0
Merged-chr11-46846141-3	chr11	46846034	46846234	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35335.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	22.0	37.5	38.0	611.0	27.0	6.0	7.5	9.5
Merged-chr4-36158421-3	chr4	36158330	36158530	+	733.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 4 of 8)	intron (NM_001166000, intron 4 of 8)	-313226.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	9.5	13.0	13.5	287.0	8.0	2.5	10.0	11.0
Merged-chr8-83748063-4	chr8	83747973	83748173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6762.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	131.0	168.5	103.0	1866.0	543.0	176.0	298.5	150.5
Merged-chr12-3391078-4	chr12	3390989	3391189	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008445, intron 5 of 7)	intron (NM_008445, intron 5 of 7)	25957.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	22.0	41.5	12.0	337.5	72.5	24.5	42.0	31.0
Merged-chr1-120073099-4	chr1	120072986	120073186	+	925.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019432, intron 1 of 1)	intron (NM_019432, intron 1 of 1)	694.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	20.0	14.5	12.5	182.0	39.5	15.5	12.0	13.5
Merged-chr18-34776923-4	chr18	34776827	34777027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081256)	promoter-TSS (NM_001081256)	-81.0	NM_001081256	277250.0	Mm.277906	NM_029518	ENSMUSG00000038773	Kdm3b	5830462I21Rik|JHDM2B|Jmjd1b|mKIAA1082	KDM3B lysine (K)-specific demethylase 3B	protein-coding	127.5	213.0	73.0	1503.5	322.5	137.5	149.5	100.5
Merged-chr2-62640047-3	chr2	62639929	62640129	+	677.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164477, intron 1 of 14)	intron (NM_001164477, intron 1 of 14)	6226.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	5.5	9.0	4.0	91.5	22.5	11.0	7.0	6.0
Merged-chr1-67038858-4	chr1	67038772	67038972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021295)	promoter-TSS (NM_021295)	0.0	NM_001190985	14768.0	Mm.20522	NM_021295	ENSMUSG00000026000	Lancl1	AW124738|Gpr69|Gpr69a|p40	LanC (bacterial lantibiotic synthetase component C)-like 1	protein-coding	84.0	101.0	94.5	1765.0	160.0	63.0	115.0	111.5
Merged-chr17-15830308-4	chr17	15830223	15830423	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3737.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	14.0	10.5	16.0	203.5	27.0	6.0	15.5	11.0
Merged-chr6-106793724-4	chr6	106793632	106793832	+	834.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021449, intron 4 of 10)	intron (NM_021449, intron 4 of 10)	6355.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	6.5	8.5	12.0	89.0	44.0	8.5	10.0	9.0
Merged-chr1-62721551-4	chr1	62721453	62721653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	18236.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	53.0	62.0	24.5	715.0	105.0	28.5	38.0	33.0
Merged-chr13-49191864-4	chr13	49191730	49191930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	4283.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	56.5	50.5	84.0	978.0	81.5	31.5	41.0	41.5
Merged-chr4-126467907-4	chr4	126467801	126468001	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153403, intron 1 of 18)	intron (NM_153403, intron 1 of 18)	682.0	NM_001317174	236511.0	Mm.30800	NM_153403	ENSMUSG00000041530	Ago1	Eif2c1	argonaute RISC catalytic subunit 1	protein-coding	18.5	19.5	26.0	259.0	41.5	15.0	9.5	10.5
Merged-chr5-74793718-3	chr5	74793685	74793885	+	871.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90882.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	20.0	19.0	26.5	177.0	0.5	0.0	0.5	0.0
Merged-chr6-137397544-3	chr6	137397422	137397622	+	741.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 10 of 26)	intron (NM_011216, intron 10 of 26)	-13199.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	4.5	8.5	8.5	98.5	10.0	2.0	17.0	1.0
Merged-chr18-30507187-4	chr18	30507073	30507273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	234308.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	76.5	66.5	56.0	736.5	260.5	80.0	103.0	53.5
Merged-chr1-191422919-4	chr1	191422822	191423022	+	962.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25881.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	14.0	18.5	9.0	180.0	57.0	20.0	23.5	17.0
Merged-chr11-53519829-4	chr11	53519732	53519932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252332)	promoter-TSS (NM_001252332)	96.0	NM_001347496	20362.0	Mm.274399	NM_033144	ENSMUSG00000018398	Sept8	AW046166|Sepl	septin 8	protein-coding	58.0	71.5	27.0	719.0	107.5	38.5	50.0	47.5
Merged-chr17-80776040-4	chr17	80775932	80776132	+	798.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48007.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	5.5	11.0	10.0	166.5	25.5	5.5	17.0	11.5
Merged-chr11-77216170-4	chr11	77216082	77216282	+	891.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177710)	promoter-TSS (NM_177710)	-243.0	NM_177710	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	8.5	18.0	6.5	156.5	48.0	9.0	15.0	16.0
Merged-chr16-91561764-4	chr16	91561673	91561873	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008338, exon 6 of 7)	exon (NM_008338, exon 6 of 7)	14679.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	25.0	18.0	15.5	295.5	107.5	50.5	38.0	66.0
Merged-chr12-80872593-2	chr12	80872493	80872693	+	785.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 5 of 6)	MTC|LTR|ERVL-MaLR	51854.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	3.0	2.0	6.0	52.5	25.0	7.5	6.0	6.0
Merged-chr3-97231465-4	chr3	97231368	97231568	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4104.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	4.0	12.0	6.0	82.0	16.0	9.0	9.5	19.5
Merged-chr16-33756188-4	chr16	33756091	33756291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 12 of 14)	intron (NM_175256, intron 12 of 14)	-37846.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	68.5	140.0	97.5	1432.0	217.0	88.0	90.0	86.0
Merged-chr3-84666231-4	chr3	84666132	84666332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177260)	promoter-TSS (NM_177260)	40.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	64.5	53.5	28.0	781.5	80.5	32.0	22.0	53.0
Merged-chr7-16229210-3	chr7	16229116	16229316	+	798.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7184.0	NM_027883	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	10.5	4.0	1.5	88.0	20.0	13.5	8.5	10.5
Merged-chr18-35874575-4	chr18	35874480	35874680	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19893.0	NM_001357459	67393.0	Mm.94560	NM_133687	ENSMUSG00000046668	Cxxc5	4930415K17Rik	CXXC finger 5	protein-coding	23.0	18.5	16.5	265.0	24.0	7.0	23.5	11.0
Merged-chr11-90231803-4	chr11	90231696	90231896	+	974.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER103C|DNA|hAT-Charlie	-17680.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	13.5	49.5	28.5	415.5	66.5	16.0	14.0	20.5
Merged-chr18-53244021-6	chr18	53244030	53244230	+	884.690735	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1532.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	14.0	14.5	14.0	210.5	30.5	14.5	10.5	23.0
Merged-chr11-60837999-4	chr11	60837849	60838049	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172112, intron 1 of 6)	intron (NM_001172112, intron 1 of 6)	7318.0	NM_145428	216820.0	Mm.21475	NM_145428	ENSMUSG00000042569	Dhrs7b	BC003479|C79874|C80074|PexRAP	dehydrogenase/reductase (SDR family) member 7B	protein-coding	20.0	31.0	13.5	243.5	38.5	11.0	13.0	25.5
Merged-chr5-8894824-4	chr5	8894730	8894930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008830, intron 2 of 27)	intron (NM_008830, intron 2 of 27)	1109.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	28.5	24.5	53.5	992.0	71.5	17.5	62.0	38.5
Merged-chr12-85712824-4	chr12	85712683	85712883	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26063.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	25.5	27.5	13.0	187.5	47.5	18.5	17.5	29.0
Merged-chr2-79621594-4	chr2	79621497	79621697	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-13828.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	24.0	30.0	24.0	400.5	33.5	7.0	3.0	20.0
Merged-chr10-42299613-3	chr10	42299511	42299711	+	703.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD|LINE|L1	-22869.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	8.5	8.0	6.5	133.0	11.0	3.5	7.0	17.0
Merged-chr12-99627337-3	chr12	99627229	99627429	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045288, intron 1 of 1)	intron (NR_045288, intron 1 of 1)	645.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	7.0	4.5	3.0	81.0	7.0	5.0	9.5	5.5
Merged-chr6-17611828-4	chr6	17611717	17611917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-25193.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	45.0	73.0	42.0	898.5	149.0	54.0	85.0	51.5
Merged-chr4-141722200-4	chr4	141722096	141722296	+	984.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017966, intron 1 of 9)	intron (NM_001017966, intron 1 of 9)	1223.0	NM_001017966	68817.0	Mm.393721	NM_001017966	ENSMUSG00000078515	Ddi2	1110056G13Rik|1700027M01Rik|9130022E05Rik|AI604911|AU040698	DNA-damage inducible protein 2	protein-coding	15.0	29.5	21.0	230.5	43.0	15.0	28.0	20.0
Merged-chr16-13780729-4	chr16	13780639	13780839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039521)	promoter-TSS (NM_001039521)	40.0	NM_001039521	106298.0	Mm.288606	NM_001039521	ENSMUSG00000022682	Rrn3	AL023001|E130302O19Rik|R75565|TIF-1A|Tif1a	RRN3 RNA polymerase I transcription factor homolog (yeast)	protein-coding	121.0	126.0	102.0	1781.5	237.5	99.0	122.0	92.5
Merged-chr2-181193208-4	chr2	181193100	181193300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5953.0	NM_001356427	66496.0	Mm.213943	NM_025598	ENSMUSG00000016344	Ppdpf	0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik	pancreatic progenitor cell differentiation and proliferation factor	protein-coding	25.5	28.0	49.5	737.0	55.5	19.0	38.0	32.0
Merged-chr7-100159249-2	chr7	100159156	100159356	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_026010)	promoter-TSS (NM_026010)	-21.0	NM_026010	67164.0	Mm.46777	NM_026010	ENSMUSG00000030725	Lipt2	2610209A20Rik	lipoyl(octanoyl) transferase 2 (putative)	protein-coding	20.5	23.5	12.0	216.5	52.5	30.0	22.0	29.0
Merged-chr4-108405936-4	chr4	108405847	108406047	+	954.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024198, intron 1 of 2)	intron (NM_024198, intron 1 of 2)	766.0	NM_024198	67305.0	Mm.20164	NM_024198	ENSMUSG00000028597	Gpx7	3110050F08Rik|AI327032|GPX6	glutathione peroxidase 7	protein-coding	6.5	24.5	14.0	193.5	42.0	13.0	18.5	22.5
Merged-chr3-89785549-4	chr3	89785391	89785591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11882.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	32.5	56.0	38.5	490.0	64.0	26.0	32.5	55.0
Merged-chr13-113596165-4	chr13	113596058	113596258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	22406.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	39.0	35.0	75.5	1523.0	105.0	24.5	57.5	47.5
Merged-chr14-75284315-4	chr14	75284209	75284409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026083)	promoter-TSS (NM_026083)	-57.0	NM_001359875	67302.0	Mm.74704	NM_026083	ENSMUSG00000022000	Zc3h13	2600010B19Rik|3110050K21Rik|4930570G11Rik|C87618	zinc finger CCCH type containing 13	protein-coding	87.0	104.5	79.0	1098.0	269.5	84.5	86.0	87.5
Merged-chr3-105046098-3	chr3	105045990	105046190	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 1 of 5)	intron (NM_030249, intron 1 of 5)	6863.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	5.5	12.5	14.0	97.0	18.5	4.5	8.0	5.0
Merged-chr8-120116292-4	chr8	120116218	120116418	+	893.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	intron (NM_172286, intron 1 of 12)	2166.0	NM_001163761	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	5.0	13.5	14.0	193.5	20.5	9.5	5.5	5.5
Merged-chr18-80255214-4	chr18	80255112	80255312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164420)	promoter-TSS (NM_001164420)	-33.0	NM_001164420	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	61.0	86.0	56.0	814.5	125.0	34.0	57.0	42.0
Merged-chr8-25603542-4	chr8	25603506	25603706	+	944.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001735, intron 1 of 9)	intron (NM_001001735, intron 1 of 9)	1322.0	NM_001308482	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	12.5	5.5	14.5	171.5	31.0	8.0	13.5	13.0
Merged-chr2-158174685-4	chr2	158174604	158174804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17304.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	111.0	153.0	127.5	1950.5	283.0	106.0	125.0	119.0
Merged-chr17-25920042-4	chr17	25919946	25920146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139154)	promoter-TSS (NM_139154)	-332.0	NM_139154	224624.0	Mm.328872	NM_139154	ENSMUSG00000025730	Rab40c	RAR3	Rab40C, member RAS oncogene family	protein-coding	417.5	625.5	387.5	5034.5	950.5	414.5	447.0	410.5
Merged-chr6-125330760-2	chr6	125330660	125330860	+	556.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 1 of 11)	intron (NM_011324, intron 1 of 11)	9420.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	6.5	8.5	5.0	31.0	16.0	2.5	3.5	8.5
Merged-chr4-128884503-2	chr4	128884403	128884603	+	671.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_178110, exon 1 of 5)	exon (NM_178110, exon 1 of 5)	363.0	NM_178110	67525.0	Mm.30653	NM_178110	ENSMUSG00000041000	Trim62	6330414G21Rik|AI450348|Dear1	tripartite motif-containing 62	protein-coding	6.0	6.5	1.5	82.0	11.5	6.5	5.0	15.0
Merged-chr9-121314246-4	chr9	121314146	121314346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	16744.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	112.0	160.0	70.0	919.5	250.0	106.5	113.0	64.5
Merged-chr10-125271705-4	chr10	125271632	125271832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	intron (NM_001358496, intron 3 of 5)	37084.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	59.5	83.0	86.5	1569.5	106.0	38.5	62.0	62.0
Merged-chr12-70347436-4	chr12	70347329	70347529	+	811.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001286387, exon 1 of 14)	5' UTR (NM_001286387, exon 1 of 14)	185.0	NM_001286386	94090.0	Mm.184012	NM_053167	ENSMUSG00000021071	Trim9	-	tripartite motif-containing 9	protein-coding	3.5	16.5	11.5	137.0	25.5	5.0	16.5	15.5
Merged-chr4-141742107-1	chr4	141742007	141742207	+	755.0	f0_balb.idr	Intergenic	Intergenic	-4568.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	9.0	11.5	6.0	202.0	2.5	0.0	0.0	0.5
Merged-chr6-55182536-4	chr6	55182442	55182642	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-7552.0	NM_009349	21743.0	Mm.299	NM_009349	ENSMUSG00000003477	Inmt	Temt	indolethylamine N-methyltransferase	protein-coding	14.5	13.5	13.5	234.5	21.5	9.5	21.5	13.5
Merged-chr6-5255058-3	chr6	5254973	5255173	+	585.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173006, intron 1 of 8)	intron (NM_173006, intron 1 of 8)	1160.0	NM_173006	269823.0	Mm.9122	NM_173006	ENSMUSG00000029759	Pon3	2810004E20|AI786302	paraoxonase 3	protein-coding	11.0	11.0	5.5	76.0	14.0	6.0	6.0	6.5
Merged-chr5-110653469-4	chr5	110653367	110653567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027156)	promoter-TSS (NM_027156)	16.0	NM_027156	69663.0	Mm.5267	NM_027156	ENSMUSG00000029504	Ddx51	2310061O04Rik|AA537002|C81583|R75505	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	protein-coding	72.0	111.5	40.5	1171.0	227.5	65.0	71.0	73.5
Merged-chr16-93816590-4	chr16	93816522	93816722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15499.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	149.0	270.5	243.5	3360.5	535.5	193.0	274.0	240.5
Merged-chr3-87619292-4	chr3	87619194	87619394	+	944.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360197, intron 1 of 38)	intron (NM_001360197, intron 1 of 38)	1735.0	NM_001360195	213498.0	Mm.287267	NM_001003912	ENSMUSG00000041977	Arhgef11	PDZ-RhoGEF|Prg|RhoGEF|mKIAA0380	Rho guanine nucleotide exchange factor (GEF) 11	protein-coding	6.5	27.5	16.0	154.0	21.0	11.5	22.0	17.0
Merged-chr5-123471029-4	chr5	123470932	123471132	+	907.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B2|LTR|ERVL	11069.0	NM_029594	76399.0	Mm.75049	NM_029594	ENSMUSG00000029437	Il31	1700013B14Rik	interleukin 31	protein-coding	12.0	23.0	7.0	234.5	38.0	19.0	17.5	14.0
Merged-chr1-180885871-3	chr1	180885772	180885972	+	703.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7236.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	6.5	6.0	5.5	119.5	11.0	4.5	2.5	5.0
Merged-chr10-61052337-3	chr10	61052209	61052409	+	664.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21006.0	NR_040638	327760.0	Mm.23529	NR_040638	ENSMUSG00000093568	Gm20611	4930565A17	predicted gene 20611	ncRNA	3.0	3.0	6.5	61.0	19.5	14.5	6.5	6.5
Merged-chr6-142735529-4	chr6	142735429	142735629	+	780.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21157.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	9.5	8.5	3.0	158.5	27.0	12.0	12.0	8.0
Merged-chr8-35565299-3	chr8	35565208	35565408	+	878.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	-22490.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	7.5	10.0	20.5	393.0	18.5	6.0	11.0	11.0
Merged-chr1-172047152-4	chr1	172047128	172047328	+	806.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10368.0	NM_010916	18071.0	Mm.2474	NM_010916	ENSMUSG00000051251	Nhlh1	Hen1|Nscl|Tal2|bHLHa35	nescient helix loop helix 1	protein-coding	10.5	5.0	11.0	120.5	23.0	4.5	6.0	3.5
Merged-chr8-61931343-4	chr8	61931250	61931450	+	930.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293783, intron 1 of 37)	Lx7|LINE|L1	3263.0	NM_001293783	234311.0	Mm.275233	NM_144928	ENSMUSG00000037921	Ddx60	9830118M07	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	protein-coding	10.5	12.5	4.0	322.0	27.0	15.5	10.0	16.5
Merged-chr9-75436124-4	chr9	75436030	75436230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5394.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	147.5	271.0	163.5	2203.5	459.5	148.0	208.5	159.0
Merged-chr10-20046325-4	chr10	20046232	20046432	+	928.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 7 of 29)	intron (NM_008580, intron 7 of 29)	-102588.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	18.0	12.5	18.0	379.0	40.0	10.5	19.5	16.0
Merged-chr6-87466448-4	chr6	87466357	87466557	+	780.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104483, exon 8 of 11)	non-coding (NR_104483, exon 8 of 11)	29870.0	NR_104483	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	2.5	13.5	3.0	78.5	22.0	8.5	9.0	9.0
Merged-chr1-162571579-4	chr1	162571445	162571645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016796, intron 1 of 7)	CpG	717.0	NM_016796	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	134.5	173.0	132.0	1741.0	246.5	88.0	174.5	135.0
Merged-chr8-70844695-4	chr8	70844526	70844726	+	917.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032397, intron 9 of 9)	intron (NM_032397, intron 9 of 9)	-4906.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	8.0	16.0	12.0	131.0	26.0	7.0	8.5	16.0
Merged-chr10-8925450-4	chr10	8925346	8925546	+	845.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39376.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	6.5	6.5	13.5	117.0	33.5	13.0	23.0	16.5
Merged-chr6-13607801-5	chr6	13607628	13607828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028990, intron 1 of 4)	CpG	370.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	83.5	161.5	89.0	1463.0	284.5	133.5	125.0	109.5
Merged-chr7-99833268-3	chr7	99833178	99833378	+	720.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4861.0	NM_016720	50877.0	Mm.103703	NM_016720	ENSMUSG00000035239	Neu3	-	neuraminidase 3	protein-coding	2.0	6.0	2.5	57.0	22.0	6.5	5.0	11.5
Merged-chr8-109607828-4	chr8	109607727	109607927	+	907.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020046, intron 1 of 8)	B3A|SINE|B2	846.0	NM_020046	56749.0	Mm.23894	NM_020046	ENSMUSG00000031730	Dhodh	2810417D19Rik|AI834883	dihydroorotate dehydrogenase	protein-coding	11.0	20.0	16.0	214.5	32.0	19.5	6.0	14.5
Merged-chr6-115523178-3	chr6	115523076	115523276	+	958.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21528.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	17.0	7.5	19.0	279.5	16.0	8.0	7.0	6.0
Merged-chr15-88862421-1	chr15	88862321	88862521	+	1000.0	f0_c57.idr	5' UTR (NM_145478, exon 1 of 6)	5' UTR (NM_145478, exon 1 of 6)	227.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	100.5	197.5	86.0	1402.0	372.5	145.5	117.0	126.0
Merged-chr14-106194319-3	chr14	106194227	106194427	+	895.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	88129.0	NR_073203	212085.0	Mm.78128	NM_198601	ENSMUSG00000022113	Trim52	4921513B05Rik	tripartite motif-containing 52	protein-coding	7.0	15.0	9.0	117.0	5.5	1.5	4.5	5.0
Merged-chr17-24708041-2	chr17	24707934	24708134	+	960.5	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_145396)	promoter-TSS (NM_145396)	-381.0	NM_145396	213773.0	Mm.100353	NM_145396	ENSMUSG00000040688	Tbl3	9430070M15Rik	transducin (beta)-like 3	protein-coding	5.0	5.5	2.5	35.0	37.5	14.0	14.5	19.0
Merged-chr1-64358529-1	chr1	64358429	64358629	+	808.0	f0_balb.idr	Intergenic	Intergenic	-174275.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	5.0	9.5	10.0	203.0	2.5	0.0	4.0	0.0
Merged-chr2-156008012-4	chr2	156007870	156008070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145352)	promoter-TSS (NM_001145352)	7.0	NM_001145352	320095.0	Mm.442175	NM_001145351	ENSMUSG00000074646	6430550D23Rik	-	RIKEN cDNA 6430550D23 gene	protein-coding	160.0	220.0	150.5	2089.5	364.0	136.0	217.0	142.0
Merged-chr12-111376786-3	chr12	111376670	111376870	+	970.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183016, intron 1 of 36)	intron (NM_183016, intron 1 of 36)	948.0	NM_183016	217866.0	Mm.27397	NM_183016	ENSMUSG00000021279	Cdc42bpb	MRCKb	CDC42 binding protein kinase beta	protein-coding	12.0	10.0	13.5	144.0	31.5	4.5	9.5	19.5
Merged-chr5-99279157-4	chr5	99279063	99279263	+	687.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26236.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	12.5	9.0	5.5	76.0	18.0	3.0	7.0	2.5
Merged-chr3-146583687-3	chr3	146583579	146583779	+	684.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019957, intron 6 of 6)	intron (NM_019957, intron 6 of 6)	-13470.0	NM_009474	22262.0	Mm.10865	NM_009474	ENSMUSG00000028186	Uox	AI663847	urate oxidase	protein-coding	12.5	9.5	13.0	89.0	14.5	7.5	11.5	10.0
Merged-chr9-103175244-1	chr9	103175144	103175344	+	613.0	f0_c57.idr	intron (NM_173781, intron 7 of 7)	intron (NM_173781, intron 7 of 7)	26821.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	2.5	3.5	4.5	80.5	16.5	5.5	11.0	17.0
Merged-chr1-180268809-4	chr1	180268715	180268915	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12515.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	17.0	42.0	21.0	256.5	59.0	20.5	31.5	22.0
Merged-chr10-127479989-4	chr10	127479864	127480064	+	898.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359246, intron 13 of 23)	intron (NM_001359246, intron 13 of 23)	-21722.0	NM_001359751	237611.0	Mm.32087	NM_177707	ENSMUSG00000040287	Stac3	9830125E18	SH3 and cysteine rich domain 3	protein-coding	15.5	13.0	8.0	98.0	37.0	9.5	5.5	7.5
Merged-chr6-91440882-4	chr6	91440767	91440967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045980)	promoter-TSS (NR_045980)	-13.0	NR_045980	75787.0	Mm.30842	NR_045980	ENSMUSG00000097693	4930471M09Rik	4930427C17Rik	RIKEN cDNA 4930471M09 gene	ncRNA	61.5	85.5	44.5	833.5	143.0	52.5	53.5	45.5
Merged-chr4-41304520-3	chr4	41304426	41304626	+	935.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026893, intron 2 of 8)	intron (NM_026893, intron 2 of 8)	10375.0	NM_026893	68970.0	Mm.28891	NM_026893	ENSMUSG00000028436	Dcaf12	1500001L20Rik|5830424K06Rik|AA420338|AI851081|Wdr40a	DDB1 and CUL4 associated factor 12	protein-coding	17.0	4.5	3.5	250.0	17.5	6.5	7.5	10.0
Merged-chr4-133918594-3	chr4	133918503	133918703	+	739.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10-int|LTR|ERVK	-30806.0	NM_009097	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	0.0	0.0	0.0	0.0	49.5	10.0	10.5	16.5
Merged-chr5-72241718-3	chr5	72241621	72241821	+	943.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 4 of 22)	intron (NR_003966, intron 4 of 22)	38378.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	13.5	5.0	8.0	277.0	21.0	0.5	3.5	9.0
Merged-chr9-96630866-6	chr9	96630706	96630906	+	998.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053268, intron 1 of 23)	CpG	697.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	8.0	11.0	12.5	117.0	36.5	11.5	11.0	14.0
Merged-chr9-51030364-4	chr9	51030272	51030472	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-21299.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	34.0	31.5	14.0	255.0	62.5	21.0	21.0	15.5
Merged-chr3-121629480-4	chr3	121629374	121629574	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14011.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	10.5	18.0	10.5	116.5	29.5	4.5	11.5	10.0
Merged-chr12-31984819-4	chr12	31984722	31984922	+	869.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011158, intron 4 of 10)	Lx8|LINE|L1	-34577.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	13.0	14.5	16.0	219.5	26.0	10.5	14.5	17.0
Merged-chr17-33818205-2	chr17	33818079	33818279	+	1000.0	f0_balb.idr|f1_balb.idr	exon (NM_030697, exon 3 of 11)	exon (NM_030697, exon 3 of 11)	6383.0	NM_016844	54127.0	Mm.352374	NM_016844	ENSMUSG00000067288	Rps28	-	ribosomal protein S28	protein-coding	17.0	15.0	10.5	270.5	26.0	9.5	13.5	17.0
Merged-chr7-92746344-2	chr7	92746244	92746444	+	986.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029494, intron 1 of 4)	intron (NM_029494, intron 1 of 4)	4630.0	NM_029494	75985.0	Mm.323004	NM_029494	ENSMUSG00000030643	Rab30	5033421K01Rik|AI323892|Rsb30	RAB30, member RAS oncogene family	protein-coding	7.0	5.0	6.5	56.0	17.0	2.5	5.0	9.5
Merged-chr2-69135756-4	chr2	69135654	69135854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181547)	promoter-TSS (NM_181547)	-46.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	28.5	54.0	29.5	491.5	86.0	31.0	72.5	23.5
Merged-chr5-107987118-7	chr5	107987017	107987217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026062)	promoter-TSS (NM_026062)	-40.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	38.5	33.5	28.5	383.5	136.0	45.0	71.0	32.0
Merged-chr10-71365212-3	chr10	71365111	71365311	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 2 of 5)	intron (NM_027184, intron 2 of 5)	17448.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	28.0	25.5	54.0	747.0	14.0	8.5	6.5	6.0
Merged-chr7-34126047-4	chr7	34125935	34126135	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207212, intron 1 of 7)	ORR1E|LTR|ERVL-MaLR	7233.0	NM_207212	101543.0	Mm.422738	NM_207212	ENSMUSG00000036459	Wtip	-	WT1-interacting protein	protein-coding	24.5	19.5	31.0	707.5	23.5	3.0	18.5	22.5
Merged-chr6-34865466-3	chr6	34865346	34865546	+	849.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197986, intron 1 of 1)	intron (NM_197986, intron 1 of 1)	2300.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	6.0	12.0	6.5	33.0	23.5	4.5	5.0	5.5
Merged-chr10-14017904-4	chr10	14017794	14017994	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	51515.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	11.5	34.0	31.5	164.5	57.5	19.5	3.5	6.0
Merged-chr1-89466529-3	chr1	89466407	89466607	+	830.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	MTEa|LTR|ERVL-MaLR	11696.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	16.0	12.0	10.0	132.5	17.0	3.0	5.0	4.5
Merged-chr7-130762262-3	chr7	130762168	130762368	+	726.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021314, intron 17 of 17)	intron (NM_021314, intron 17 of 17)	-11801.0	NM_001081038	330660.0	Mm.271550	NM_001081038	ENSMUSG00000040298	Btbd16	E330040A16Rik	BTB (POZ) domain containing 16	protein-coding	1.0	15.0	3.0	96.0	9.0	5.0	4.5	5.5
Merged-chr2-132252745-4	chr2	132252667	132252867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011045, intron 1 of 5)	CpG	413.0	NM_011045	18538.0	Mm.7141	NM_011045	ENSMUSG00000027342	Pcna	-	proliferating cell nuclear antigen	protein-coding	85.5	129.0	76.5	1158.5	200.0	80.5	110.0	80.5
Merged-chr15-50698283-3	chr15	50698189	50698389	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	190760.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	39.0	55.5	41.0	463.0	101.5	31.5	48.0	41.5
Merged-chr10-75212071-4	chr10	75211969	75212169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145826)	promoter-TSS (NM_001145826)	-4.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	216.5	308.5	196.0	2827.5	506.5	254.0	285.5	186.0
Merged-chr8-41292213-4	chr8	41292112	41292312	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 21 of 37)	intron (NM_023662, intron 21 of 37)	52453.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	7.0	9.5	5.5	198.0	94.0	30.0	25.0	36.0
Merged-chr1-152526436-4	chr1	152526336	152526536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 15 of 17)	intron (NM_016846, intron 15 of 17)	98781.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	33.0	72.5	24.5	290.0	104.5	33.5	30.0	36.5
Merged-chr11-109473830-4	chr11	109473748	109473948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134038)	promoter-TSS (NM_134038)	-252.0	NM_001029842	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	200.0	285.5	182.0	2487.5	471.0	207.5	177.0	204.0
Merged-chr14-121992773-3	chr14	121992585	121992785	+	998.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 6 of 8)	intron (NM_026861, intron 6 of 8)	-27492.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	0.5	1.5	0.0	47.5	28.5	12.0	17.0	10.5
Merged-chr2-32534520-4	chr2	32534442	32534642	+	908.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153560)	promoter-TSS (NM_153560)	-817.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	23.5	27.5	6.0	168.0	43.0	15.0	14.0	18.0
Merged-chr7-100182589-4	chr7	100182488	100182688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190869, intron 3 of 4)	intron (NM_001190869, intron 3 of 4)	3905.0	NM_001190871	57442.0	Mm.282386	NM_020574	ENSMUSG00000035165	Kcne3	2210017H05Rik|MiRP2	potassium voltage-gated channel, Isk-related subfamily, gene 3	protein-coding	30.0	38.0	21.0	464.5	82.5	16.0	23.5	34.0
Merged-chr7-98770612-3	chr7	98770530	98770730	+	636.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21B|LTR|ERV1	-64482.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	5.5	16.0	6.0	78.0	6.0	3.0	4.5	12.5
Merged-chr5-77174962-4	chr5	77174856	77175056	+	989.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36249.0	NM_001289767	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	5.0	17.0	3.0	171.0	32.0	18.5	23.0	20.5
Merged-chr10-17723150-4	chr10	17723051	17723251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010828)	promoter-TSS (NM_010828)	-77.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	145.0	194.0	95.0	1810.5	435.0	159.0	143.5	159.5
Merged-chr2-3424014-4	chr2	3423915	3424115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146114)	promoter-TSS (NM_146114)	-116.0	NM_146114	227525.0	Mm.23483	NM_146114	ENSMUSG00000026648	Dclre1c	9930121L06Rik|AI661365|Art|Snm1l	DNA cross-link repair 1C	protein-coding	327.0	467.0	328.5	5436.0	724.5	306.0	368.5	317.0
Merged-chr12-84178260-2	chr12	84178160	84178360	+	829.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	15755.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	8.0	6.0	5.0	81.0	14.0	3.5	3.0	8.5
Merged-chr5-97082229-4	chr5	97082151	97082351	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198422, exon 7 of 7)	3' UTR (NM_198422, exon 7 of 7)	29345.0	NM_001359910	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	19.5	22.0	19.5	355.0	80.5	9.5	27.0	27.5
Merged-chr2-28204340-4	chr2	28204258	28204458	+	757.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038613, intron 1 of 5)	intron (NM_001038613, intron 1 of 5)	-1331.0	NM_001038612	56177.0	Mm.43278	NM_019498	ENSMUSG00000026833	Olfm1	AMY|AW742568|Noe1|OlfA|Pancortin|Pancortin3	olfactomedin 1	protein-coding	4.0	22.0	3.5	120.5	31.0	8.5	8.5	12.5
Merged-chr3-8817033-4	chr3	8816966	8817166	+	817.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025434, intron 2 of 2)	L1_Mus3|LINE|L1	106791.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	7.5	22.5	26.5	79.5	19.5	5.5	11.0	9.5
Merged-chr14-55730343-4	chr14	55730237	55730437	+	969.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8074.0	NM_001360387	56187.0	Mm.87216	NM_019519	ENSMUSG00000040472	Rabggta	gm	Rab geranylgeranyl transferase, a subunit	protein-coding	13.0	40.5	19.0	163.0	43.0	21.0	17.5	15.0
Merged-chr11-116807659-1	chr11	116807559	116807759	+	794.666687	f0_balb.idr	3' UTR (NM_001347633, exon 5 of 5)	3' UTR (NM_001347633, exon 5 of 5)	20387.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	15.0	14.5	8.0	161.0	6.5	3.0	5.0	0.0
Merged-chr2-60928069-4	chr2	60927962	60928162	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	35142.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	6.0	15.5	5.0	298.5	44.5	7.0	15.5	14.0
Merged-chr3-94582704-4	chr3	94582604	94582804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029721)	promoter-TSS (NM_029721)	12.0	NM_001082484	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	84.0	117.0	79.5	1053.0	167.0	46.0	74.5	59.0
Merged-chr1-7394265-4	chr1	7394177	7394377	+	905.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	305357.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	7.0	9.5	10.0	145.0	25.0	7.5	18.0	7.0
Merged-chr15-58744651-4	chr15	58744546	58744746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78781.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	73.5	129.5	73.0	925.5	217.5	70.0	87.0	78.0
Merged-chr8-83997036-4	chr8	83996935	83997135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081415)	promoter-TSS (NM_001081415)	-637.0	NM_001081415	666704.0	Mm.298091	NM_001081415	ENSMUSG00000079003	Samd1	AA589507	sterile alpha motif domain containing 1	protein-coding	136.0	133.5	109.0	1374.5	341.5	135.0	133.5	133.0
Merged-chr5-99284529-4	chr5	99284435	99284635	+	816.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31608.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	5.5	16.0	5.5	99.5	10.0	8.5	11.5	15.5
Merged-chr9-48740320-2	chr9	48740220	48740420	+	640.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 3 of 6)	intron (NM_001033324, intron 3 of 6)	95625.0	NM_001033324	235320.0	Mm.457803	NM_001033324	ENSMUSG00000066687	Zbtb16	AI467657|PLZF|Zfp145|lu	zinc finger and BTB domain containing 16	protein-coding	1.5	2.5	2.0	37.0	17.5	10.5	7.5	11.0
Merged-chr6-54817641-4	chr6	54817532	54817732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199143, intron 1 of 4)	intron (NM_199143, intron 1 of 4)	716.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	135.5	156.5	140.5	2107.5	212.5	75.0	75.5	89.0
Merged-chr18-35662238-4	chr18	35662124	35662324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027733)	promoter-TSS (NM_027733)	-38.0	NM_029485	71242.0	Mm.151498	NM_027733	ENSMUSG00000024352	Spata24	2700012K08Rik|4930583E11Rik|5133400G04Rik|AU016220|TIPT|TIPT2	spermatogenesis associated 24	protein-coding	33.0	55.5	52.0	634.5	105.5	42.5	66.0	56.5
Merged-chr15-55112344-4	chr15	55112232	55112432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145470)	promoter-TSS (NM_145470)	15.0	NM_145470	97998.0	Mm.295397	NM_145470	ENSMUSG00000022419	Deptor	Depdc6	DEP domain containing MTOR-interacting protein	protein-coding	153.0	254.0	116.5	2548.5	321.5	122.0	159.5	123.5
Merged-chr6-73010216-4	chr6	73010096	73010296	+	855.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51448.0	NM_001190327	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	9.0	8.0	12.5	185.0	21.0	9.0	10.0	13.0
Merged-chr15-88505964-3	chr15	88505841	88506041	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94361.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	0.0	1.5	0.0	0.5	96.5	27.0	27.5	31.5
Merged-chr10-60350584-4	chr10	60350418	60350618	+	926.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 1 of 6)	intron (NM_028732, intron 1 of 6)	3667.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	8.0	15.5	12.5	171.0	52.5	17.5	7.5	11.0
Merged-chr6-87451221-3	chr6	87451110	87451310	+	620.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22216.0	NM_009756	12154.0	Mm.483321	NM_009756	ENSMUSG00000030046	Bmp10	b2b2711Clo	bone morphogenetic protein 10	protein-coding	5.5	4.5	5.5	79.0	10.0	4.5	4.5	5.0
Merged-chr9-88702344-4	chr9	88702245	88702445	+	934.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359992, intron 2 of 2)	URR1B|DNA|hAT-Charlie	17242.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	14.5	25.0	17.0	86.0	46.0	18.5	16.0	20.0
Merged-chr12-59219895-4	chr12	59219804	59220004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033156)	promoter-TSS (NM_001033156)	-421.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	232.0	356.0	246.0	3567.5	568.5	244.5	275.0	246.0
Merged-chr5-114175793-4	chr5	114175715	114175915	+	911.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133904, intron 1 of 51)	intron (NM_133904, intron 1 of 51)	10297.0	NM_133904	100705.0	Mm.81793	NM_133904	ENSMUSG00000042010	Acacb	AI597064|AW743042|Acc2|Accb	acetyl-Coenzyme A carboxylase beta	protein-coding	96.5	198.0	95.5	1392.5	28.5	9.0	14.0	11.5
Merged-chr17-84365518-4	chr17	84365432	84365632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	intron (NM_183021, intron 26 of 37)	100676.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	19.0	43.5	26.0	405.5	121.0	29.5	43.5	33.5
Merged-chr13-5605606-4	chr13	5605536	5605736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	252456.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	29.5	58.0	45.5	820.0	125.0	14.0	36.5	29.5
Merged-chr2-152295448-4	chr2	152295328	152295528	+	900.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024196, intron 1 of 7)	intron (NM_024196, intron 1 of 7)	1556.0	NM_024196	67231.0	Mm.288733	NM_024196	ENSMUSG00000027465	Tbc1d20	1110028I04Rik|2810442O16Rik|AI414693|bs	TBC1 domain family, member 20	protein-coding	16.0	13.0	9.0	194.5	34.0	18.5	6.0	18.0
Merged-chr11-11573872-4	chr11	11573775	11573975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53963.0	NM_001305143	102631730.0	Mm.159430	NM_001305143	ENSMUSG00000062511	4930512M02Rik	-	RIKEN cDNA 4930512M02 gene	protein-coding	41.5	56.0	24.5	741.5	75.0	26.5	70.5	47.0
Merged-chr4-95775724-3	chr4	95775623	95775823	+	959.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 8 of 10)	intron (NM_029347, intron 8 of 10)	191312.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	14.0	5.0	4.5	182.0	8.0	5.5	3.0	4.5
Merged-chr6-129491473-4	chr6	129491385	129491585	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301096, intron 1 of 3)	intron (NM_001301096, intron 1 of 3)	15680.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	14.5	8.0	10.5	271.5	27.0	5.0	12.5	16.0
Merged-chr16-38467584-4	chr16	38467473	38467673	+	965.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359898, intron 1 of 5)	intron (NM_001359898, intron 1 of 5)	8640.0	NM_009855	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	11.0	74.5	29.5	212.5	89.0	20.0	21.0	16.0
Merged-chr5-34233945-4	chr5	34233845	34234045	+	759.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 4 of 12)	intron (NM_001015039, intron 4 of 12)	-46235.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	11.5	24.5	9.0	155.0	33.5	11.5	13.0	4.5
Merged-chr17-14943154-4	chr17	14943045	14943245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083880)	promoter-TSS (NM_001083880)	-21.0	NM_175173	71682.0	Mm.122698	NM_175173	ENSMUSG00000046991	Wdr27	0610012K18Rik	WD repeat domain 27	protein-coding	164.0	214.0	162.5	2502.0	464.0	158.5	182.0	141.0
Merged-chr2-132604065-3	chr2	132603959	132604159	+	821.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 2 of 3)	intron (NR_033469, intron 2 of 3)	5863.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	16.0	11.0	17.5	333.0	8.5	4.0	4.0	6.5
Merged-chr3-69691225-4	chr3	69691122	69691322	+	927.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-30833.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	10.0	20.0	10.0	98.5	55.5	20.5	19.5	21.0
Merged-chr15-27625502-4	chr15	27625407	27625607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013792, intron 1 of 6)	intron (NM_001013792, intron 1 of 6)	5186.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	48.0	52.0	58.5	1160.0	121.0	51.5	78.0	62.5
Merged-chr3-67515629-4	chr3	67515522	67515722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164763)	promoter-TSS (NM_001164763)	-99.0	NM_001164763	109222.0	Mm.38002	NM_001164763	ENSMUSG00000049404	Rarres1	5430417P09Rik|AI662122	retinoic acid receptor responder (tazarotene induced) 1	protein-coding	15.0	20.5	30.5	332.0	87.0	18.5	31.5	30.5
Merged-chr17-5187670-4	chr17	5187564	5187764	+	880.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	192590.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	13.0	21.5	7.5	180.0	22.5	3.5	12.0	10.5
Merged-chr14-70932151-1	chr14	70932051	70932251	+	793.666687	f0_balb.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	42044.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	11.0	16.5	15.0	165.0	6.5	3.5	4.5	5.0
Merged-chr10-95867748-3	chr10	95867648	95867848	+	640.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie18a|DNA|hAT-Charlie	-72915.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	13.5	17.5	9.0	142.5	25.5	7.5	7.0	6.5
Merged-chr13-12395221-4	chr13	12395117	12395317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144835)	promoter-TSS (NM_144835)	-158.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	247.0	405.5	302.0	2907.0	833.0	307.0	385.0	276.5
Merged-chr6-38900939-4	chr6	38900848	38901048	+	813.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18038.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	13.5	8.5	9.0	68.5	25.5	5.5	7.0	15.0
Merged-chr4-138068820-4	chr4	138068750	138068950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 4 of 34)	intron (NM_001256195, intron 4 of 34)	69668.0	NR_126429	73563.0	Mm.444294	NR_126429	ENSMUSG00000084804	1700095J12Rik	-	RIKEN cDNA 1700095J12 gene	ncRNA	56.5	111.5	41.0	880.0	157.0	42.0	67.0	62.0
Merged-chr11-50207343-3	chr11	50207247	50207447	+	872.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290769, intron 3 of 7)	intron (NM_001290769, intron 3 of 7)	3473.0	NM_001290769	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	6.0	13.5	7.0	41.0	24.5	8.5	10.0	6.5
Merged-chr17-87036667-2	chr17	87036567	87036767	+	681.833374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_019936)	TTS (NM_019936)	11106.0	NM_019936	56724.0	Mm.109329	NM_019936	ENSMUSG00000024146	Cript	1200020A08Rik|AA589469	cysteine-rich PDZ-binding protein	protein-coding	8.5	7.5	10.5	66.5	15.0	8.0	6.0	8.0
Merged-chr10-95300413-4	chr10	95300297	95300497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	ORR1E|LTR|ERVL-MaLR	23312.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	99.0	149.0	85.5	898.5	196.0	78.0	59.0	73.0
Merged-chr12-99647087-4	chr12	99646981	99647181	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR50A|LTR|ERVK	-19107.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	21.0	13.0	20.0	138.0	97.0	35.5	55.5	39.0
Merged-chr1-171196295-3	chr1	171196210	171196410	+	828.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025557)	promoter-TSS (NM_025557)	-42.0	NM_025557	66425.0	Mm.482117	NM_025557	ENSMUSG00000038370	Pcp4l1	1500036F01Rik	Purkinje cell protein 4-like 1	protein-coding	4.5	9.5	6.0	101.5	17.0	4.0	6.0	8.5
Merged-chr1-172148715-4	chr1	172148644	172148844	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357204, intron 1 of 13)	intron (NM_001357204, intron 1 of 13)	729.0	NM_001357204	98193.0	Mm.159915	NM_153555	ENSMUSG00000026554	Dcaf8	AA408877|AA433120|AA792214|AU018973|C76055|D1Dau35e|D1Ucla4|H326|Wdr42a	DDB1 and CUL4 associated factor 8	protein-coding	17.0	17.0	19.5	165.0	36.5	19.5	16.5	16.5
Merged-chr10-80313809-3	chr10	80313715	80313915	+	967.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011789, exon 14 of 14)	exon (NM_011789, exon 14 of 14)	6733.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	15.0	20.0	12.5	205.0	15.5	8.5	5.0	9.0
Merged-chr11-72564487-3	chr11	72564372	72564572	+	883.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14226.0	NM_029932	77577.0	Mm.46185	NM_029932	ENSMUSG00000020798	Spns3	9830002I17Rik	spinster homolog 3	protein-coding	16.5	20.5	9.5	19.5	13.5	12.0	5.5	8.0
Merged-chr1-138458297-4	chr1	138458176	138458376	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161481.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	18.5	30.0	29.5	471.5	32.5	10.5	23.0	28.5
Merged-chr8-84069443-3	chr8	84069368	84069568	+	782.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	intron (NM_009055, intron 1 of 20)	2632.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	11.0	10.5	2.5	31.5	15.5	5.0	4.5	5.0
Merged-chr14-31376937-2	chr14	31376837	31377037	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 6 of 7)	intron (NM_001347585, intron 6 of 7)	40299.0	NM_009796	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	5.5	10.0	8.0	129.0	14.5	7.0	12.5	13.5
Merged-chr16-88487952-4	chr16	88487851	88488051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19027.0	NM_181490	239931.0	Mm.126860	NM_181490	ENSMUSG00000055811	Cldn17	-	claudin 17	protein-coding	58.5	89.0	54.0	1428.5	147.0	53.0	62.5	72.0
Merged-chr7-104446146-4	chr7	104446049	104446249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357467)	promoter-TSS (NM_001357467)	-24.0	NM_001357467	20128.0	Mm.295578	NM_009099	ENSMUSG00000030921	Trim30a	Rpt-1|Rpt1|Trim30	tripartite motif-containing 30A	protein-coding	110.5	138.5	73.5	1466.5	249.0	93.0	108.5	94.5
Merged-chr16-33687589-4	chr16	33687505	33687705	+	937.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 1 of 14)	intron (NM_175256, intron 1 of 14)	3139.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	12.0	21.5	15.0	338.5	38.0	10.0	15.0	17.5
Merged-chr1-134719892-4	chr1	134719803	134720003	+	931.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355726, intron 1 of 8)	intron (NM_001355726, intron 1 of 8)	10603.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	31.5	23.5	10.0	236.5	59.0	19.0	23.5	17.5
Merged-chr14-8173832-4	chr14	8173717	8173917	+	918.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024221)	promoter-TSS (NM_024221)	-825.0	NM_024221	68263.0	Mm.301527	NM_024221	ENSMUSG00000021748	Pdhb	2610103L06Rik|AL024199|C81408	pyruvate dehydrogenase (lipoamide) beta	protein-coding	18.0	21.0	7.5	112.0	37.5	19.0	2.5	12.5
Merged-chr1-78484618-3	chr1	78484509	78484709	+	941.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278075, intron 1 of 17)	MLT1F2|LTR|ERVL-MaLR	4288.0	NR_102758	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	10.5	22.5	12.0	127.0	7.5	11.0	7.0	4.5
Merged-chr17-23726888-3	chr17	23726785	23726985	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023058, intron 1 of 7)	intron (NM_023058, intron 1 of 7)	549.0	NM_023058	268930.0	Mm.182193	NM_023058	ENSMUSG00000023908	Pkmyt1	6230424P17|AW209059|Myt1	protein kinase, membrane associated tyrosine/threonine 1	protein-coding	9.0	12.0	8.5	119.5	83.0	21.5	37.0	35.0
Merged-chr3-136078774-4	chr3	136078671	136078871	+	864.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 11 of 16)	intron (NM_001033350, intron 11 of 16)	-238502.0	NR_040540	71038.0	Mm.410798	NR_040540	ENSMUSG00000106306	4933401H06Rik	-	RIKEN cDNA 4933401H06 gene	ncRNA	18.0	16.5	9.5	269.0	46.0	8.0	11.0	8.0
Merged-chr3-89396519-3	chr3	89396424	89396624	+	795.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040404, intron 1 of 1)	intron (NR_040404, intron 1 of 1)	2234.0	NR_040404	545539.0	Mm.393389	NR_040403	ENSMUSG00000074466	Gm15417	-	predicted gene 15417	ncRNA	5.0	13.5	4.5	64.5	12.0	6.5	8.5	14.5
Merged-chr17-17624033-4	chr17	17623944	17624144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	CpG	445.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	22.0	30.0	26.5	442.5	67.0	20.5	30.0	39.5
Merged-chr12-87488928-4	chr12	87488840	87489040	+	970.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-16641.0	NM_025507	66354.0	Mm.271174	NM_025507	ENSMUSG00000021039	Snw1	2310008B08Rik|AW048543|NCoA-62|SKIP|Skiip	SNW domain containing 1	protein-coding	21.5	30.5	13.0	225.5	64.0	21.5	25.5	15.5
Merged-chr6-42264918-4	chr6	42264813	42265013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007610)	promoter-TSS (NM_007610)	-72.0	NM_007610	12366.0	Mm.3921	NM_007610	ENSMUSG00000029863	Casp2	CASP-2|ICH-1|NEDD-2|Nedd2	caspase 2	protein-coding	203.0	261.0	153.5	2529.0	394.5	140.5	192.5	148.0
Merged-chr8-45452861-4	chr8	45452771	45452971	+	790.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-42252.0	NM_126166	142980.0	Mm.33874	NM_126166	ENSMUSG00000031639	Tlr3	AI957183	toll-like receptor 3	protein-coding	10.5	25.5	9.5	165.0	26.5	9.0	11.0	20.0
Merged-chr6-87400085-3	chr6	87399976	87400176	+	656.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11141.0	NM_026860	68888.0	Mm.46387	NM_026860	ENSMUSG00000030048	Gkn3	1190003M12Rik	gastrokine 3	protein-coding	8.5	7.0	11.0	106.5	2.5	4.0	4.0	9.0
Merged-chr11-62470631-4	chr11	62470535	62470735	+	950.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039536, intron 1 of 6)	L1MB4|LINE|L1	12175.0	NM_001039536	327942.0	Mm.390358	NM_199026	ENSMUSG00000014245	Pigl	Gm737	phosphatidylinositol glycan anchor biosynthesis, class L	protein-coding	18.0	34.5	14.5	179.0	51.0	18.0	13.0	18.5
Merged-chr9-110352501-4	chr9	110352393	110352593	+	816.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001144, intron 1 of 22)	intron (NM_001001144, intron 1 of 22)	19137.0	NM_001001144	235623.0	Mm.288741	NM_001001144	ENSMUSG00000032485	Scap	9530044G19|mKIAA0199	SREBF chaperone	protein-coding	12.0	12.5	11.0	208.0	40.5	13.0	7.0	12.5
Merged-chr10-86947731-3	chr10	86947632	86947832	+	980.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 17 of 68)	L2a|LINE|L2	60210.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	11.0	32.0	15.0	270.5	12.5	7.0	13.0	9.0
Merged-chr3-88142658-1	chr3	88142558	88142758	+	1000.0	f0_c57.idr	5' UTR (NM_133665, exon 1 of 11)	5' UTR (NM_133665, exon 1 of 11)	286.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	52.0	98.0	77.0	723.5	121.0	64.5	64.0	51.0
Merged-chr3-106684963-4	chr3	106684874	106685074	+	984.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039478)	promoter-TSS (NM_001039478)	-13.0	NM_001039478	321000.0	Mm.259638	NM_028081	ENSMUSG00000056260	Lrif1	2010012G17Rik|4933421E11Rik|AI450568	ligand dependent nuclear receptor interacting factor 1	protein-coding	39.0	39.0	8.5	423.5	70.5	16.0	54.0	35.0
Merged-chr2-59438597-4	chr2	59438501	59438701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46052.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	43.5	82.0	40.5	710.0	173.5	66.5	82.5	64.0
Merged-chr6-24721897-3	chr6	24721799	24721999	+	861.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11346.0	NM_028920	74409.0	Mm.87331	NM_028920	ENSMUSG00000029679	Hyal6	4932701A20Rik|Hyal-ps1|Hyalp1	hyaluronoglucosaminidase 6	protein-coding	6.0	8.0	6.5	91.0	11.5	3.0	0.0	2.5
Merged-chr10-96379229-4	chr10	96379144	96379344	+	971.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153037.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	28.0	33.0	40.0	409.5	51.0	10.5	15.5	19.0
Merged-chr6-72347584-6	chr6	72347469	72347669	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026696, intron 1 of 3)	CpG	252.0	NM_026696	68364.0	Mm.52711	NM_026696	ENSMUSG00000058706	0610030E20Rik	1500031N04Rik|2810411C16Rik|AI461894	RIKEN cDNA 0610030E20 gene	protein-coding	20.5	24.0	16.0	205.0	52.5	25.5	14.5	23.5
Merged-chr11-5521577-4	chr11	5521442	5521642	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013842, intron 1 of 4)	CpG	901.0	NM_001271730	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	21.5	33.5	24.0	202.5	35.0	14.0	13.5	44.5
Merged-chr17-34129137-2	chr17	34129078	34129278	+	673.06665	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360530, intron 1 of 5)	intron (NM_001360530, intron 1 of 5)	3660.0	NM_001360530	14998.0	Mm.16373	NM_010386	ENSMUSG00000037649	H2-DMa	H-2Ma|H2-Ma	histocompatibility 2, class II, locus DMa	protein-coding	5.5	13.0	6.5	13.5	9.5	5.0	4.0	4.0
Merged-chr5-115508920-4	chr5	115508811	115509011	+	943.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	2235.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	12.0	12.0	38.0	394.0	23.5	13.5	35.0	42.5
Merged-chr7-116334177-4	chr7	116334085	116334285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026533)	promoter-TSS (NM_026533)	5.0	NM_026533	68052.0	Mm.14798	NM_026533	ENSMUSG00000090862	Rps13	2700063M04Rik	ribosomal protein S13	protein-coding	130.5	206.5	129.0	1481.0	411.5	144.5	204.0	185.5
Merged-chr8-56315376-4	chr8	56315274	56315474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 4 of 6)	intron (NM_008278, intron 4 of 6)	20822.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	44.5	56.0	49.5	968.5	78.0	21.5	44.5	39.0
Merged-chr6-125353801-2	chr6	125353701	125353901	+	992.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	4078.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	5.5	9.5	5.0	86.0	9.5	1.5	9.0	11.0
Merged-chr10-68472988-4	chr10	68472907	68473107	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 5 of 7)	intron (NM_028491, intron 5 of 7)	68868.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	18.5	43.0	22.0	606.5	41.5	24.0	31.0	20.5
Merged-chr10-19522378-3	chr10	19522277	19522477	+	964.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27734.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	8.5	23.0	20.0	206.0	21.5	1.0	8.0	17.0
Merged-chr13-19841319-4	chr13	19841275	19841475	+	856.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17118.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	7.5	12.5	7.0	98.5	26.5	5.0	3.5	8.0
Merged-chr17-78372811-4	chr17	78372710	78372910	+	778.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 16 of 16)	intron (NM_015800, intron 16 of 16)	45342.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	6.0	24.0	18.0	135.0	21.5	4.5	12.0	7.0
Merged-chr11-20249508-4	chr11	20249415	20249615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172260)	promoter-TSS (NM_172260)	-91.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	201.0	235.0	142.5	2806.5	474.5	155.0	211.5	161.5
Merged-chr15-62044896-4	chr15	62044786	62044986	+	884.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	5629.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	16.0	13.5	11.0	133.5	40.0	16.0	14.5	15.0
Merged-chr6-129476912-4	chr6	129476811	129477011	+	857.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4132.0	NR_132130	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	11.0	8.5	5.0	97.5	32.0	5.5	12.0	5.5
Merged-chr5-32747016-2	chr5	32746935	32747135	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347332)	promoter-TSS (NM_001347332)	-693.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	8.0	9.0	4.5	67.0	7.5	5.0	6.5	6.5
Merged-chr12-32199611-4	chr12	32199523	32199723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020272, intron 4 of 10)	intron (NM_020272, intron 4 of 10)	8715.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	33.5	42.0	44.0	865.0	67.5	29.5	27.0	21.5
Merged-chr9-35199348-4	chr9	35199295	35199495	+	961.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177845, intron 1 of 6)	intron (NM_001177845, intron 1 of 6)	510.0	NM_001177847	117149.0	Mm.23987	NM_054096	ENSMUSG00000032041	Tirap	AA407980|C130027E04Rik|Mal|Tlr4ap|Wyatt	toll-interleukin 1 receptor (TIR) domain-containing adaptor protein	protein-coding	12.0	28.0	14.5	321.0	47.5	15.5	13.0	17.5
Merged-chr8-128605791-4	chr8	128605617	128605817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-79937.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	52.0	69.5	40.5	1207.0	68.0	24.0	56.5	39.5
Merged-chr2-73547430-4	chr2	73547336	73547536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-17949.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	36.5	81.5	79.0	702.0	95.5	30.0	50.0	54.5
Merged-chr1-125466827-4	chr1	125466735	125466935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31108.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	99.0	144.0	127.5	1880.0	198.0	63.5	114.5	112.0
Merged-chr11-46215530-4	chr11	46215448	46215648	+	779.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 26 of 30)	MER20|DNA|hAT-Charlie	-20009.0	NM_177075	320116.0	Mm.39600	NM_177075	ENSMUSG00000048721	Fndc9	C030019I05Rik	fibronectin type III domain containing 9	protein-coding	8.0	14.0	6.0	89.0	22.5	0.5	12.0	10.0
Merged-chr13-59856556-2	chr13	59856470	59856670	+	764.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-33423.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	11.5	17.0	7.5	91.0	27.0	5.5	5.5	8.5
Merged-chr15-91651686-1	chr15	91651586	91651786	+	610.0	f0_balb.idr	Intergenic	Intergenic	-21538.0	NM_025730	66725.0	Mm.37558	NM_025730	ENSMUSG00000036273	Lrrk2	4921513O20Rik|9330188B09Rik|AW561911|D630001M17Rik|Gm927|cI-46	leucine-rich repeat kinase 2	protein-coding	9.0	8.5	5.5	125.5	13.0	0.0	9.0	7.5
Merged-chr10-99616000-4	chr10	99615902	99616102	+	939.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038019, intron 1 of 2)	intron (NR_038019, intron 1 of 2)	6831.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	9.5	17.0	4.0	189.0	47.5	13.5	30.5	14.5
Merged-chr14-41006428-4	chr14	41006333	41006533	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316732, intron 1 of 6)	intron (NM_001316732, intron 1 of 6)	487.0	NM_001316739	70564.0	Mm.27227	NM_027464	ENSMUSG00000021792	Fam213a	5730469M10Rik|AU040822|Adrx|Pamm	family with sequence similarity 213, member A	protein-coding	18.0	15.0	3.5	238.0	37.5	9.5	18.0	11.0
Merged-chr10-24165836-4	chr10	24165714	24165914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	16497.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	32.0	36.5	44.5	559.5	83.5	25.0	37.0	38.0
Merged-chr13-113266757-3	chr13	113266639	113266839	+	794.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57080.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	4.5	4.5	5.0	102.0	10.5	3.5	4.0	10.5
Merged-chr10-17656060-1	chr10	17655960	17656160	+	706.666687	f0_balb.idr	Intergenic	Intergenic	-67168.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	8.0	16.5	12.5	89.5	18.0	10.0	6.0	13.0
Merged-chr6-91715220-4	chr6	91715115	91715315	+	943.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	31148.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	15.5	31.0	27.5	696.0	28.0	10.5	23.5	10.0
Merged-chr12-69538701-4	chr12	69538604	69538804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44324.0	NM_001033236	207965.0	Mm.102487	NM_001033236	ENSMUSG00000049882	Vcpkmt	Gm71|Mettl21d|Mettl221d|VCP-KMT	valosin containing protein lysine (K) methyltransferase	protein-coding	37.5	54.0	29.0	494.5	74.0	21.5	34.0	31.5
Merged-chr5-72188308-4	chr5	72188208	72188408	+	902.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15021.0	NR_003966	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	11.0	23.5	24.0	353.0	20.5	9.0	20.5	29.0
Merged-chr15-64059899-4	chr15	64059795	64059995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360038)	promoter-TSS (NM_001360038)	-131.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	58.0	81.0	54.0	902.0	169.0	58.5	80.0	83.5
Merged-chr2-165878248-4	chr2	165878115	165878315	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291158, exon 1 of 24)	5' UTR (NM_001291158, exon 1 of 24)	222.0	NM_001291158	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	23.0	31.0	38.0	522.5	101.5	13.0	43.0	25.5
Merged-chr11-121451903-4	chr11	121451799	121451999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029878)	promoter-TSS (NM_029878)	-50.0	NM_029878	108903.0	Mm.23686	NM_029878	ENSMUSG00000039230	Tbcd	2310057L06Rik|A030005L14Rik|mKIAA0988	tubulin-specific chaperone d	protein-coding	67.0	128.0	48.5	785.0	191.0	76.5	61.0	67.0
Merged-chr1-37318140-3	chr1	37318043	37318243	+	953.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	18305.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	13.0	20.5	14.5	349.5	11.5	6.5	7.0	5.5
Merged-chr13-119329669-4	chr13	119329560	119329760	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR2b|LTR|Gypsy	79351.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	21.5	37.5	18.5	623.0	79.5	14.5	46.5	27.5
Merged-chr1-191849649-4	chr1	191849555	191849755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28182.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	50.0	71.0	71.0	1632.0	253.0	58.5	165.0	165.5
Merged-chr11-60106171-11	chr11	60106066	60106266	+	948.7727050000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009021, intron 1 of 5)	CpG	1153.0	NM_009021	19377.0	Mm.296366	NM_009021	ENSMUSG00000062115	Rai1	Gt1	retinoic acid induced 1	protein-coding	7.0	23.5	11.5	173.5	44.0	14.5	9.0	13.5
Merged-chr15-100406273-3	chr15	100406137	100406337	+	933.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008732, intron 6 of 16)	intron (NM_008732, intron 6 of 16)	16818.0	NM_001146161	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	11.0	19.5	11.5	172.0	12.5	2.5	7.5	2.5
Merged-chr8-34158405-4	chr8	34158310	34158510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026432, intron 1 of 5)	intron (NM_026432, intron 1 of 5)	3847.0	NM_026432	67887.0	Mm.290353	NM_026432	ENSMUSG00000031532	Saraf	1810045K07Rik|Tmem66	store-operated calcium entry-associated regulatory factor	protein-coding	74.5	94.5	92.5	1194.5	152.5	52.5	67.5	79.5
Merged-chr12-17777201-4	chr12	17777091	17777291	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361645, intron 2 of 4)	intron (NM_001361645, intron 2 of 4)	86382.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	13.0	12.0	5.5	48.0	83.0	35.0	30.5	21.0
Merged-chr16-27349503-4	chr16	27349410	27349610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198112, intron 4 of 4)	intron (NM_198112, intron 4 of 4)	20729.0	NM_198166	224065.0	Mm.326918	NM_198166	ENSMUSG00000056423	Uts2b	Gm538|U2B|Urp|Uts2d	urotensin 2B	protein-coding	51.5	98.5	35.5	557.0	189.5	46.0	53.0	53.5
Merged-chr7-89981162-4	chr7	89981073	89981273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021876)	promoter-TSS (NM_021876)	-197.0	NM_021876	13626.0	Mm.380914	NM_021876	ENSMUSG00000030619	Eed	l(7)5Rn|l7Rn5|lusk	embryonic ectoderm development	protein-coding	38.0	68.5	36.0	517.0	98.5	20.0	37.0	31.0
Merged-chr13-58158311-4	chr13	58158226	58158426	+	898.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198004, intron 1 of 4)	(TG)n|Simple_repeat|Simple_repeat	677.0	NM_198004	75731.0	Mm.293919	NM_198004	ENSMUSG00000050002	Idnk	5133401N09Rik	idnK gluconokinase homolog (E. coli)	protein-coding	11.0	11.0	15.0	89.0	51.5	12.5	13.0	17.5
Merged-chr6-115268085-3	chr6	115267995	115268195	+	727.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111015, intron 10 of 12)	intron (NM_001111015, intron 10 of 12)	-15890.0	NM_001356406	110595.0	Mm.255607	NM_080639	ENSMUSG00000030317	Timp4	Timp-4	tissue inhibitor of metalloproteinase 4	protein-coding	10.5	13.0	2.5	102.5	20.5	5.0	7.0	7.0
Merged-chr13-95844478-4	chr13	95844379	95844579	+	985.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	47443.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	23.5	34.5	14.5	386.5	157.5	54.0	55.5	48.0
Merged-chr15-80133130-4	chr15	80133044	80133244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025609)	promoter-TSS (NM_025609)	-10.0	NM_025609	66513.0	Mm.288245	NM_025609	ENSMUSG00000022414	Tab1	2310012M03Rik|Map3k7ip1|b2b449Clo	TGF-beta activated kinase 1/MAP3K7 binding protein 1	protein-coding	74.0	160.0	46.0	915.5	146.5	65.5	58.0	64.0
Merged-chr11-115285503-2	chr11	115285403	115285603	+	838.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178035, intron 3 of 5)	intron (NM_178035, intron 3 of 5)	-8534.0	NM_007997	14149.0	Mm.4719	NM_007997	ENSMUSG00000018861	Fdxr	AR	ferredoxin reductase	protein-coding	5.5	8.0	1.0	43.0	14.5	4.5	8.0	11.5
Merged-chr6-97804631-4	chr6	97804537	97804737	+	833.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2421.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	10.0	17.0	1.5	127.5	22.0	10.5	13.5	10.5
Merged-chr14-19722170-3	chr14	19722069	19722269	+	808.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29088.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	13.5	9.0	3.0	200.0	16.5	5.0	12.5	11.0
Merged-chr7-118118585-4	chr7	118118498	118118698	+	958.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019419)	TTS (NM_019419)	-2451.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	30.5	27.0	26.5	547.5	71.5	10.5	30.5	29.0
Merged-chr4-135981698-4	chr4	135981608	135981808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025411, intron 3 of 5)	L1MA5|LINE|L1	5536.0	NM_025411	66193.0	Mm.29131	NM_025411	ENSMUSG00000028669	Pithd1	1110049F12Rik|AA408179|Trp26	PITH (C-terminal proteasome-interacting domain of thioredoxin-like) domain containing 1	protein-coding	91.0	119.5	70.0	1196.5	152.0	54.5	63.5	46.0
Merged-chr7-5016246-4	chr7	5016158	5016358	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025324, intron 1 of 1)	MIRb|SINE|MIR	750.0	NM_025324	66056.0	Mm.19974	NM_025324	ENSMUSG00000051184	Zfp524	0610012F07Rik|2300009P13Rik|Znf524	zinc finger protein 524	protein-coding	28.5	57.5	11.0	170.5	73.0	18.5	12.0	23.5
Merged-chr12-4160555-4	chr12	4160463	4160663	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 2 of 21)	intron (NM_001159537, intron 2 of 21)	26410.0	NM_138305	104111.0	Mm.489807	NM_138305	ENSMUSG00000020654	Adcy3	AC3|mKIAA0511	adenylate cyclase 3	protein-coding	24.5	15.0	24.5	366.5	46.5	20.5	15.5	18.5
Merged-chr15-35152711-4	chr15	35152613	35152813	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357821, intron 1 of 11)	intron (NM_001357821, intron 1 of 11)	3093.0	NM_001357821	56274.0	Mm.262330	NM_019635	ENSMUSG00000022329	Stk3	0610042I06Rik|MST|Mst2|Mst3|Ste20|mess1	serine/threonine kinase 3	protein-coding	31.5	23.5	28.5	756.5	59.5	13.0	24.0	22.0
Merged-chr3-81057924-4	chr3	81057814	81058014	+	977.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	MT2A|LTR|ERVL	21498.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	34.0	44.5	23.5	455.0	118.5	30.5	33.0	17.5
Merged-chr6-28319813-4	chr6	28319704	28319904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58203.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	17.0	24.5	4.0	250.0	60.5	28.5	45.5	30.5
Merged-chr16-45122699-1	chr16	45122599	45122799	+	787.0	f0_balb.idr	intron (NM_026439, intron 5 of 7)	intron (NM_026439, intron 5 of 7)	28688.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	8.0	13.0	14.5	117.5	0.5	0.0	0.0	1.5
Merged-chr1-58743551-4	chr1	58743452	58743652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 7 of 8)	intron (NM_001355056, intron 7 of 8)	13000.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	142.5	221.0	208.0	2296.0	337.0	135.0	125.0	137.0
Merged-chr2-168579739-3	chr2	168579641	168579841	+	814.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291169, intron 1 of 10)	intron (NM_001291169, intron 1 of 10)	10624.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	7.0	20.0	7.5	143.0	12.5	0.0	1.0	3.0
Merged-chr8-84642144-3	chr8	84642049	84642249	+	862.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	20703.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	1.0	18.0	10.0	63.5	25.0	11.5	11.5	4.5
Merged-chr5-117978082-4	chr5	117977992	117978192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346588, intron 2 of 11)	intron (NM_001346588, intron 2 of 11)	1322.0	NM_001346588	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	24.0	34.0	26.0	514.5	66.5	21.0	37.5	47.0
Merged-chr9-85577556-4	chr9	85577468	85577668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	171766.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	51.0	65.5	23.0	648.0	111.5	35.5	28.0	36.5
Merged-chr6-34876199-4	chr6	34876142	34876342	+	913.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199145, intron 2 of 3)	intron (NM_199145, intron 2 of 3)	1823.0	NM_199145	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	12.5	17.0	6.0	212.5	30.0	14.0	5.0	14.5
Merged-chr1-127202449-4	chr1	127202362	127202562	+	965.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2524.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	22.5	33.0	25.0	521.5	40.5	11.5	21.0	19.5
Merged-chr11-70587181-4	chr11	70587070	70587270	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 1 of 30)	RMER15|LTR|ERVL	24289.0	NM_016713	50932.0	Mm.42967	NM_016713	ENSMUSG00000020827	Mink1	B55|MINK|Map4k6|Ysk2	misshapen-like kinase 1 (zebrafish)	protein-coding	17.0	26.0	10.0	96.0	77.5	50.5	13.0	10.0
Merged-chr5-122762359-4	chr5	122762287	122762487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199676, intron 2 of 16)	PB1D9|SINE|Alu	17023.0	NM_001199676	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	78.5	111.5	58.5	1125.0	98.0	39.5	54.0	61.5
Merged-chr19-32279673-3	chr19	32279559	32279759	+	905.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168525, intron 2 of 9)	intron (NM_001168525, intron 2 of 9)	-68646.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	11.0	16.5	11.5	257.0	18.5	5.0	4.0	3.0
Merged-chr12-4840999-3	chr12	4840930	4841130	+	900.5238039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016863, intron 1 of 3)	intron (NM_016863, intron 1 of 3)	565.0	NM_016863	14226.0	Mm.20453	NM_016863	ENSMUSG00000020635	Fkbp1b	12.6kDa|AW494148|FKBP12.6|calstabin2	FK506 binding protein 1b	protein-coding	10.0	10.0	6.0	65.0	18.0	6.5	7.0	10.0
Merged-chr13-34187767-4	chr13	34187653	34187853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 10 of 10)	intron (NM_001033167, intron 10 of 10)	24789.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	45.5	78.0	67.0	972.5	83.0	53.5	70.0	43.5
Merged-chr6-140888934-4	chr6	140888818	140889018	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	262033.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	23.5	24.5	33.5	473.5	44.0	9.5	19.0	15.0
Merged-chr4-145196761-4	chr4	145196658	145196858	+	830.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1753.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	5.0	17.0	6.5	155.5	25.5	2.5	15.0	7.0
Merged-chr3-142273428-4	chr3	142273353	142273553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 8 of 12)	intron (NM_001190854, intron 8 of 12)	-104028.0	NM_001277216	12167.0	Mm.39089	NM_007560	ENSMUSG00000052430	Bmpr1b	AI385617|ALK-6|AV355320|Acvrlk6|Alk6|BMPR-1B|BMPR-IB|CFK-43a|SKR6	bone morphogenetic protein receptor, type 1B	protein-coding	28.0	30.0	17.0	336.5	97.5	22.5	40.0	24.0
Merged-chr11-83066041-3	chr11	83065963	83066163	+	827.133362	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011408, intron 1 of 1)	intron (NM_011408, intron 1 of 1)	951.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	6.5	15.5	6.0	55.0	16.5	5.5	6.5	6.0
Merged-chr6-33824235-4	chr6	33824141	33824341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 12 of 17)	intron (NM_009148, intron 12 of 17)	-205207.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	81.0	166.0	98.0	1828.5	234.5	87.0	89.0	93.0
Merged-chr7-27167171-4	chr7	27167079	27167279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053208)	promoter-TSS (NM_053208)	-377.0	NM_053208	112406.0	Mm.29978	NM_053208	ENSMUSG00000058709	Egln2	0610011A13Rik|C85656|Hif-p4h-1|Ier4|Phd1|SM-20	egl-9 family hypoxia-inducible factor 2	protein-coding	141.5	197.0	123.0	2129.0	356.5	159.0	171.5	163.0
Merged-chr10-80940671-7	chr10	80940536	80940736	+	951.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10545.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	8.5	24.0	5.5	143.0	15.5	14.0	8.0	10.5
Merged-chr11-69666232-4	chr11	69666133	69666333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291058)	promoter-TSS (NM_001291058)	-63.0	NR_110993	12514.0	Mm.15819	NM_009853	ENSMUSG00000018774	Cd68	Lamp4|Scard1|gp110	CD68 antigen	protein-coding	242.0	422.5	234.5	2836.0	512.5	193.0	196.0	233.5
Merged-chr11-110727842-2	chr11	110727734	110727934	+	662.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-240199.0	NM_010604	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	4.5	4.5	7.5	116.0	5.0	1.0	1.5	1.0
Merged-chr2-69789614-4	chr2	69789526	69789726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028521)	promoter-TSS (NM_028521)	-111.0	NM_028521	73373.0	Mm.9621	NM_028521	ENSMUSG00000027088	Phospho2	1700048E23Rik|AI661517|AU021728|AV006103|Phos2	phosphatase, orphan 2	protein-coding	167.5	191.5	151.5	2425.0	403.5	146.5	211.5	142.0
Merged-chr7-123207663-4	chr7	123207547	123207747	+	936.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7219.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	11.5	19.0	6.5	209.0	26.0	4.5	18.0	25.5
Merged-chr10-67210145-4	chr10	67210073	67210273	+	799.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 3 of 25)	MTC|LTR|ERVL-MaLR	24423.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	4.0	9.5	4.5	58.5	21.0	5.5	4.5	13.0
Merged-chr11-86746253-4	chr11	86746131	86746331	+	992.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	intron (NM_001003908, intron 1 of 31)	11336.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	30.0	40.5	31.5	343.0	102.0	18.5	17.5	20.5
Merged-chr18-34955255-2	chr18	34955164	34955364	+	700.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_010481)	promoter-TSS (NM_010481)	-913.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	10.0	13.5	3.5	97.0	12.5	4.5	8.5	11.0
Merged-chr2-51089917-4	chr2	51089818	51090018	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59193.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	19.0	8.5	9.5	249.0	13.0	10.5	11.0	17.5
Merged-chr13-98354204-3	chr13	98354164	98354364	+	731.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008242)	promoter-TSS (NM_008242)	19.0	NM_008242	15229.0	Mm.347441	NM_008242	ENSMUSG00000078302	Foxd1	AI385632|BF-2|FREAC4|Hfh10|Hfhbf2	forkhead box D1	protein-coding	2.5	9.5	13.5	115.5	16.5	11.0	16.5	16.0
Merged-chr10-50894602-4	chr10	50894443	50894643	+	836.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1108.0	NM_011376	20464.0	Mm.4774	NM_011376	ENSMUSG00000019913	Sim1	bHLHe14|mSIM1	single-minded family bHLH transcription factor 1	protein-coding	14.0	18.5	34.5	336.0	22.0	5.5	6.0	23.0
Merged-chr12-76265151-4	chr12	76265046	76265246	+	826.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138745, intron 1 of 27)	RLTR11B|LTR|ERVK	9914.0	NM_138745	108156.0	Mm.29584	NM_138745	ENSMUSG00000021048	Mthfd1	Dcs|E430024A07Rik|Mthfd	methylenetetrahydrofolate dehydrogenase (NADP+ dependent), methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthase	protein-coding	13.0	8.5	17.0	58.5	28.0	11.5	16.0	6.5
Merged-chr19-45660452-4	chr19	45660365	45660565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013907)	promoter-TSS (NM_013907)	-272.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	32.5	39.5	17.5	406.5	74.5	25.0	53.5	40.5
Merged-chr19-37963106-4	chr19	37962986	37963186	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 19 of 53)	L1MB3|LINE|L1	80491.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	6.0	5.0	7.0	99.5	40.0	21.0	22.0	11.0
Merged-chr11-105311769-3	chr11	105311660	105311860	+	835.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008626, intron 1 of 29)	intron (NM_008626, intron 1 of 29)	19114.0	NM_008626	17534.0	Mm.235616	NM_008626	ENSMUSG00000020695	Mrc2	Endo180|mKIAA0709|uPARAP	mannose receptor, C type 2	protein-coding	11.0	6.5	7.0	68.5	13.0	5.0	6.5	8.0
Merged-chr2-3050242-4	chr2	3050151	3050351	+	766.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A1|LTR|ERVL-MaLR	-63973.0	NM_001310434	269233.0	Mm.23044	NM_001081161	ENSMUSG00000050530	Fam171a1	9630050M13Rik|AA409679	family with sequence similarity 171, member A1	protein-coding	8.0	5.5	22.0	163.0	34.5	13.0	12.0	18.5
Merged-chr19-60790103-3	chr19	60790010	60790210	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010123, intron 1 of 21)	CpG	583.0	NM_010123	13669.0	Mm.2238	NM_010123	ENSMUSG00000024991	Eif3a	A830012B05Rik|Csma|Eif3|Eif3s10|mKIAA0139	eukaryotic translation initiation factor 3, subunit A	protein-coding	16.5	17.0	24.0	259.5	40.0	30.5	15.5	27.5
Merged-chr4-145096992-4	chr4	145096876	145097076	+	890.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 42 of 69)	intron (NM_001276465, intron 42 of 69)	93690.0	NM_001276502	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	22.0	14.5	28.5	686.0	22.0	9.5	11.5	13.5
Merged-chr15-13244512-4	chr15	13244425	13244625	+	874.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70850.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	15.5	1.0	17.0	273.0	29.5	6.0	15.0	12.0
Merged-chr1-191025505-3	chr1	191025437	191025637	+	965.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027298, exon 1 of 2)	non-coding (NR_027298, exon 1 of 2)	186.0	NR_027298	100125339.0	Mm.472263	NR_027298	ENSMUSG00000097845	A230020J21Rik	-	RIKEN cDNA A230020J21 gene	ncRNA	12.5	13.5	15.0	121.5	32.5	7.5	10.0	12.5
Merged-chr1-131525303-4	chr1	131525225	131525425	+	902.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081011, exon 2 of 23)	5' UTR (NM_001081011, exon 2 of 23)	2036.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	6.5	18.0	10.5	169.5	37.5	10.5	9.5	9.0
Merged-chr11-100994812-4	chr11	100994637	100994837	+	901.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	-14715.0	NM_016920	11975.0	Mm.340818	NM_016920	ENSMUSG00000019302	Atp6v0a1	AA959968|ATP6a1|Atp6n1|Atp6n1a|Atpv0a1|Vpp-1|Vpp1	ATPase, H+ transporting, lysosomal V0 subunit A1	protein-coding	20.0	18.0	5.0	65.0	33.0	8.0	6.5	6.5
Merged-chr4-130916860-4	chr4	130916777	130916977	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	3543.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	28.5	25.0	18.0	498.0	48.5	19.5	22.0	32.5
Merged-chr2-150844926-4	chr2	150844789	150844989	+	960.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 4 of 12)	intron (NR_151505, intron 4 of 12)	-2319.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	27.0	8.5	23.0	621.0	37.0	10.0	11.0	24.0
Merged-chr16-17722774-4	chr16	17722618	17722818	+	987.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285886, intron 1 of 16)	CpG	182.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	27.5	86.0	73.5	542.0	98.5	41.0	35.0	56.5
Merged-chr10-98775513-4	chr10	98775415	98775615	+	885.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139127.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	15.0	20.0	8.5	139.0	24.5	7.5	7.5	10.5
Merged-chr1-165691691-4	chr1	165691583	165691783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	16411.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	74.0	136.0	74.0	1101.0	206.5	42.0	80.0	47.5
Merged-chr10-8842518-2	chr10	8842418	8842618	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	ORR1F|LTR|ERVL-MaLR	43552.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.0	8.0	5.5	140.5	10.5	0.0	4.0	5.5
Merged-chr5-105558787-4	chr5	105558692	105558892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	intron (NM_133897, intron 2 of 3)	39321.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	61.0	125.5	35.0	592.0	195.0	71.5	74.5	60.5
Merged-chr13-115150072-4	chr13	115149969	115150169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48105.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	49.0	56.0	64.0	976.0	117.0	31.5	35.0	38.5
Merged-chr12-71864044-4	chr12	71863968	71864168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 1 of 25)	intron (NM_026102, intron 1 of 25)	-25475.0	NM_001286452	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	33.0	106.0	40.0	435.0	105.0	37.5	13.0	32.0
Merged-chr7-139979151-4	chr7	139979047	139979247	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347613)	promoter-TSS (NM_001347613)	-392.0	NM_001347613	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	21.0	17.0	24.0	288.5	13.5	6.5	10.0	15.0
Merged-chr5-16466578-4	chr5	16466568	16466768	+	833.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-86827.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	6.0	7.0	12.5	99.0	14.0	5.5	10.0	7.0
Merged-chr18-31759864-4	chr18	31759690	31759890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242430)	promoter-TSS (NM_001242430)	-34.0	NM_153515	225339.0	Mm.290804	NM_153515	ENSMUSG00000041915	Ammecr1l	5430429D03Rik|AU022236|AU040755|AW111353|E230022H04Rik	AMME chromosomal region gene 1-like	protein-coding	89.0	152.0	62.5	1293.0	161.0	77.5	105.5	103.0
Merged-chr11-87358995-4	chr11	87358920	87359120	+	762.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177167)	promoter-TSS (NM_177167)	-26.0	NM_177167	320472.0	Mm.341988	NM_177167	ENSMUSG00000046442	Ppm1e	AW049266|B930008A12Rik|POPX1|PP2CH|mKIAA1072	protein phosphatase 1E (PP2C domain containing)	protein-coding	9.0	10.0	8.0	79.0	24.0	4.5	5.5	10.0
Merged-chr15-51683660-1	chr15	51683560	51683760	+	591.0	f0_balb.idr	Intergenic	Intergenic	181801.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	7.0	5.0	7.0	67.5	7.5	0.0	0.5	2.5
Merged-chr4-130087543-2	chr4	130087439	130087639	+	741.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_028266, intron 55 of 69)	intron (NM_028266, intron 55 of 69)	-20017.0	NM_026441	67898.0	Mm.20818	NM_026441	ENSMUSG00000028779	Pef1	2600002E23Rik|Peflin	penta-EF hand domain containing 1	protein-coding	6.0	4.5	3.0	82.5	10.5	12.5	6.0	7.0
Merged-chr16-55951183-4	chr16	55951133	55951333	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME2z|LINE|L1	-15042.0	NM_024218	68193.0	Mm.29221	NM_024218	ENSMUSG00000098274	Rpl24	0610008L05Rik|Bst	ribosomal protein L24	protein-coding	21.0	37.5	24.5	695.5	60.0	17.0	20.0	23.0
Merged-chr11-118446057-4	chr11	118445968	118446168	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045902, intron 2 of 2)	intron (NR_045902, intron 2 of 2)	2534.0	NM_001204130	56745.0	Mm.23845	NM_019959	ENSMUSG00000017446	C1qtnf1	1600017K21Rik|CTRP1|Zsig37	C1q and tumor necrosis factor related protein 1	protein-coding	13.5	21.5	5.5	173.0	37.5	13.5	14.5	19.0
Merged-chr8-92998816-4	chr8	92998711	92998911	+	792.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009209, exon 14 of 14)	3' UTR (NM_009209, exon 14 of 14)	37764.0	NM_009209	20538.0	Mm.57040	NM_009209	ENSMUSG00000055368	Slc6a2	NE-T|NET|Slc6a5	solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2	protein-coding	8.5	20.0	9.5	151.0	18.5	16.0	9.0	10.5
Merged-chr10-10554427-4	chr10	10554320	10554520	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	3787.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	19.0	16.0	13.0	313.5	33.5	21.0	16.5	8.0
Merged-chr18-58699314-1	chr18	58699214	58699414	+	1000.0	f0_balb.idr	Intergenic	Lx7|LINE|L1	39832.0	NM_025478	66307.0	Mm.182574	NM_025478	ENSMUSG00000024601	Isoc1	2610034N03Rik	isochorismatase domain containing 1	protein-coding	11.0	5.5	13.5	192.0	3.0	1.0	0.5	5.0
Merged-chr9-56104468-4	chr9	56104366	56104566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	14490.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	47.5	91.5	40.5	846.5	140.0	61.0	68.0	52.5
Merged-chr3-116614511-3	chr3	116614390	116614590	+	853.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030016)	promoter-TSS (NM_030016)	97.0	NM_030016	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	6.5	17.0	15.5	294.0	12.0	7.0	6.0	4.5
Merged-chr16-94328200-5	chr16	94328093	94328293	+	874.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133229)	promoter-TSS (NM_133229)	-229.0	NM_133229	170765.0	Mm.42604	NM_133229	ENSMUSG00000022941	Ripply3	Dscr6	ripply transcriptional repressor 3	protein-coding	14.5	12.5	10.5	194.0	47.0	16.5	11.0	20.5
Merged-chr7-92848447-4	chr7	92848356	92848556	+	796.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	25791.0	NM_001355126	74041.0	Mm.26468	NM_028729	ENSMUSG00000030641	Ddias	4632434I11Rik|noxin	DNA damage-induced apoptosis suppressor	protein-coding	13.5	5.0	10.0	88.5	21.5	6.5	12.0	11.0
Merged-chr2-160220725-4	chr2	160220617	160220817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106777.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	23.0	39.0	43.5	465.0	42.5	6.5	20.5	15.0
Merged-chr3-31270113-3	chr3	31269996	31270196	+	736.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172861, intron 1 of 7)	L2|LINE|L2	40223.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	7.0	14.5	10.5	129.0	10.0	4.5	6.0	6.0
Merged-chr3-97206673-4	chr3	97206552	97206752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029933, intron 9 of 9)	intron (NM_029933, intron 9 of 9)	20712.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	24.0	62.5	23.0	587.0	94.0	23.5	45.0	62.5
Merged-chr8-66494595-4	chr8	66494507	66494707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8077.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	44.5	138.0	84.0	458.0	280.0	106.0	89.0	70.5
Merged-chr2-30436354-3	chr2	30436249	30436449	+	732.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138748, intron 5 of 9)	intron (NM_138748, intron 5 of 9)	20299.0	NM_138748	110854.0	Mm.275393	NM_138748	ENSMUSG00000039515	Ptpa	2610042B21Rik|C77440|N28142|PR53|Ppp2r4	protein phosphatase 2 protein activator	protein-coding	7.5	13.0	7.5	69.5	18.5	9.5	8.0	11.5
Merged-chr7-119871960-2	chr7	119871860	119872060	+	691.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163703, intron 1 of 2)	intron (NM_001163703, intron 1 of 2)	23498.0	NM_173408	233805.0	Mm.31539	NM_173408	ENSMUSG00000048787	Dcun1d3	1700020A13Rik|BC030335	DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)	protein-coding	6.5	8.0	7.0	63.5	16.0	4.0	13.0	5.0
Merged-chr10-13324228-4	chr10	13324147	13324347	+	905.8833619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033257)	promoter-TSS (NM_001033257)	42.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	16.0	18.5	15.0	170.5	26.5	10.5	21.5	15.5
Merged-chr6-128846251-4	chr6	128846141	128846341	+	699.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19926.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	4.5	8.0	5.5	71.5	9.5	7.5	8.5	12.5
Merged-chr9-50482939-4	chr9	50482834	50483034	+	895.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11591.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	16.5	16.0	23.0	250.5	26.0	7.0	11.0	24.5
Merged-chr9-99240766-3	chr9	99240658	99240858	+	917.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2583.0	NM_023873	68121.0	Mm.288739	NM_023873	ENSMUSG00000056267	Cep70	6720484E09Rik|Bite|C030018L16Rik	centrosomal protein 70	protein-coding	7.0	17.5	12.5	222.0	18.5	7.0	6.0	11.0
Merged-chr9-113743421-4	chr9	113743300	113743500	+	995.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 1 of 39)	intron (NM_001114347, intron 1 of 39)	1927.0	NM_001114347	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	18.5	29.0	26.5	605.5	44.0	11.5	29.5	34.0
Merged-chr1-63119903-4	chr1	63119812	63120012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045914, intron 1 of 3)	intron (NR_045914, intron 1 of 3)	5172.0	NR_045914	100380944.0	Mm.392955	NR_045914	ENSMUSG00000084799	Ino80dos	Gm11602	INO80 complex subunit D, opposite strand	ncRNA	44.0	57.5	25.5	556.0	92.5	24.0	33.0	30.5
Merged-chr11-59554881-4	chr11	59554758	59554958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 5 of 9)	intron (NR_153314, intron 5 of 9)	12172.0	NR_153314	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	68.5	108.0	65.0	936.5	152.0	46.5	51.0	48.0
Merged-chr7-104465266-4	chr7	104465183	104465383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009099)	promoter-TSS (NM_009099)	-90.0	NM_009099	20128.0	Mm.295578	NM_009099	ENSMUSG00000030921	Trim30a	Rpt-1|Rpt1|Trim30	tripartite motif-containing 30A	protein-coding	158.0	202.0	124.0	1346.0	255.5	105.0	110.0	138.0
Merged-chr4-43559878-4	chr4	43559794	43559994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011602, intron 1 of 56)	intron (NM_011602, intron 1 of 56)	2689.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	70.0	94.0	76.0	951.0	228.0	58.5	86.0	79.0
Merged-chr10-100589207-4	chr10	100589103	100589303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175128)	promoter-TSS (NM_175128)	56.0	NM_175128	68281.0	Mm.268474	NM_175128	ENSMUSG00000046567	4930430F08Rik	4930571E09Rik|A730088G13Rik|AW551239|C430008C19Rik	RIKEN cDNA 4930430F08 gene	protein-coding	88.5	112.0	118.0	1792.0	174.5	62.0	104.0	75.5
Merged-chr4-114934286-4	chr4	114934161	114934361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-8248.0	NM_015758	30923.0	Mm.377122	NM_015758	ENSMUSG00000044518	Foxe3	FREAC8|dyl|rct	forkhead box E3	protein-coding	35.0	49.5	38.5	789.5	128.5	49.5	65.5	82.5
Merged-chr17-50292922-4	chr17	50292856	50293056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010021, intron 1 of 10)	CpG	664.0	NM_010021	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	113.0	140.5	78.0	1004.0	216.0	78.5	115.0	65.0
Merged-chr11-88222135-1	chr11	88222035	88222235	+	771.5	f0_balb.idr	Intergenic	Eulor3|DNA?|DNA?	17747.0	NM_001291271	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	11.0	12.0	11.0	192.0	0.0	2.0	0.0	1.0
Merged-chr12-72760493-4	chr12	72760395	72760595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008910)	promoter-TSS (NM_008910)	-716.0	NM_008910	19042.0	Mm.261045	NM_008910	ENSMUSG00000021096	Ppm1a	2310003C21Rik|2900017D14Rik|AI427932|AU017636|MMPa-2|MPPa-1	protein phosphatase 1A, magnesium dependent, alpha isoform	protein-coding	26.0	59.5	49.5	456.5	54.0	34.0	49.5	34.0
Merged-chr1-182375351-3	chr1	182375259	182375459	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33753.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	12.0	5.0	8.0	94.5	12.5	3.0	6.5	2.5
Merged-chr9-52288082-4	chr9	52287964	52288164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119953.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	54.0	62.5	37.0	851.0	94.5	28.0	61.5	55.0
Merged-chr17-8199246-4	chr17	8199136	8199336	+	943.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33718.0	NM_201230	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	22.5	23.5	16.0	322.0	23.0	9.0	30.5	19.0
Merged-chr8-115571907-4	chr8	115571793	115571993	+	939.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	135001.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	25.0	13.5	9.0	312.5	48.0	14.5	14.0	8.0
Merged-chr2-83625826-4	chr2	83625723	83625923	+	911.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18755.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	17.0	28.0	17.5	244.5	27.0	7.0	13.0	13.5
Merged-chr12-99392141-4	chr12	99392052	99392252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 1 of 5)	CpG	57922.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	96.5	159.5	66.0	1269.0	181.5	83.5	98.0	100.5
Merged-chr16-34573732-4	chr16	34573666	34573866	+	871.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-59739.0	NM_177357	545156.0	Mm.82274	NM_177357	ENSMUSG00000061751	Kalrn	2210407G14Rik|AV235988|DUET|E530005C20Rik|Gm539|Hapip|TRAD	kalirin, RhoGEF kinase	protein-coding	5.0	13.5	18.0	116.5	20.0	3.0	10.0	6.0
Merged-chr7-144895985-3	chr7	144895870	144896070	+	952.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008003)	promoter-TSS (NM_008003)	-562.0	NM_008003	14170.0	Mm.3904	NM_008003	ENSMUSG00000031073	Fgf15	FGF19	fibroblast growth factor 15	protein-coding	22.0	31.5	16.5	215.5	33.5	5.5	3.0	9.0
Merged-chr7-123366157-6	chr7	123365988	123366188	+	864.0639039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	intron (NM_001316713, intron 1 of 19)	3827.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	22.5	15.0	8.0	211.0	27.5	9.0	8.5	17.0
Merged-chr1-36612713-4	chr1	36612598	36612798	+	938.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201365, intron 6 of 9)	intron (NM_201365, intron 6 of 9)	-19366.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	10.5	26.5	12.0	131.0	36.0	27.5	16.0	18.0
Merged-chr16-92441059-3	chr16	92440969	92441169	+	775.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	25100.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	13.0	15.5	9.5	171.0	2.5	5.5	0.0	9.5
Merged-chr5-24034282-4	chr5	24034187	24034387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3597.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	33.0	47.0	66.5	1144.5	80.0	54.0	31.0	51.5
Merged-chr11-82890606-4	chr11	82890447	82890647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102717)	promoter-TSS (NR_102717)	77.0	NR_102719	19364.0	Mm.9286	NM_011235	ENSMUSG00000018841	Rad51d	R51H3|Rad51l3|TRAD|Trad-d5	RAD51 paralog D	protein-coding	25.5	51.0	52.0	364.5	61.0	30.0	30.0	35.5
Merged-chr1-152424940-4	chr1	152424859	152425059	+	833.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177756, intron 1 of 11)	intron (NM_177756, intron 1 of 11)	25092.0	NM_177756	269132.0	Mm.23782	NM_177756	ENSMUSG00000032649	Colgalt2	AI427652|D730024P12|Glt25d2	collagen beta(1-O)galactosyltransferase 2	protein-coding	13.5	19.0	10.0	141.5	18.5	6.5	14.0	4.5
Merged-chr2-25372267-4	chr2	25372180	25372380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290407, exon 1 of 6)	5' UTR (NM_001290407, exon 1 of 6)	245.0	NM_001081085	72080.0	Mm.250293	NM_001081085	ENSMUSG00000026955	Sapcd2	2010317E24Rik|6030458L21Rik|AL033337|ang	suppressor APC domain containing 2	protein-coding	83.5	99.0	72.0	1135.5	187.0	48.0	69.5	54.0
Merged-chr7-83645645-4	chr7	83645543	83645743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 18 of 18)	intron (NM_001360088, intron 18 of 18)	9852.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	78.5	177.0	104.5	1797.0	282.5	97.0	108.5	88.0
Merged-chr9-64703712-4	chr9	64703609	64703809	+	837.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 23 of 24)	MIRc|SINE|MIR	34047.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	15.5	17.5	12.0	173.0	24.0	4.0	9.0	8.0
Merged-chr2-118961727-4	chr2	118961629	118961829	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35232.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	17.5	37.0	24.5	430.0	285.0	97.0	119.5	122.0
Merged-chr14-77546737-4	chr14	77546636	77546836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253759, intron 7 of 19)	intron (NM_001253759, intron 7 of 19)	-39868.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	24.5	27.5	19.5	408.5	47.5	23.5	35.5	36.0
Merged-chr10-8059739-4	chr10	8059632	8059832	+	947.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103609.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	48.0	38.0	54.0	943.5	30.0	16.0	32.0	35.0
Merged-chr10-75258399-2	chr10	75258299	75258499	+	578.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 6 of 15)	intron (NM_153406, intron 6 of 15)	46009.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	7.5	6.5	5.5	124.5	18.0	5.0	4.0	5.5
Merged-chr8-47680515-4	chr8	47680422	47680622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5363.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	52.0	73.0	27.0	742.5	130.0	29.5	47.5	49.0
Merged-chr2-11705303-4	chr2	11705190	11705390	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133836)	promoter-TSS (NM_133836)	-3.0	NM_001271498	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	21.0	26.0	9.0	312.5	64.0	17.5	29.0	27.0
Merged-chr11-6444215-2	chr11	6444109	6444309	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_029938, intron 1 of 4)	CpG	234.0	NM_029938	77605.0	Mm.27624	NM_029938	ENSMUSG00000041126	H2afv	C530002L11Rik|H2a.z-2|H2av|Tg(Wnt1-cre)11Rth|Wnt1-Cre|Wnt1::Cre|Wnt1cre	H2A histone family, member V	protein-coding	94.5	173.5	124.0	1217.5	287.0	106.0	126.0	108.0
Merged-chr9-89198910-1	chr9	89198810	89199010	+	1000.0	f0_balb.idr	promoter-TSS (NM_007534)	promoter-TSS (NM_007534)	-363.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	17.0	39.0	23.5	20.5	35.0	18.5	20.0	12.0
Merged-chr18-61065744-3	chr18	61065667	61065867	+	733.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146268, exon 7 of 23)	exon (NM_001146268, exon 7 of 23)	20617.0	NM_008809	18596.0	Mm.4146	NM_008809	ENSMUSG00000024620	Pdgfrb	AI528809|CD140b|PDGFR-1|Pdgfr	platelet derived growth factor receptor, beta polypeptide	protein-coding	5.5	16.5	13.0	123.5	5.0	1.0	2.0	2.0
Merged-chr10-8736152-4	chr10	8736082	8736282	+	861.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 16 of 19)	L1MB2|LINE|L1	149888.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.0	10.0	9.5	243.5	38.0	7.0	19.5	7.5
Merged-chr8-4259338-4	chr8	4259251	4259451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183315)	promoter-TSS (NM_183315)	-77.0	NM_183315	330695.0	Mm.34210	NM_183315	ENSMUSG00000048644	Ctxn1	BC028881|Ctxn	cortexin 1	protein-coding	70.5	78.0	75.0	1156.5	128.5	51.5	75.5	60.0
Merged-chr5-114567277-4	chr5	114567176	114567376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004180)	promoter-TSS (NM_001004180)	-975.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	93.0	163.0	97.0	1099.5	183.0	91.0	74.0	92.5
Merged-chr3-116808242-4	chr3	116808153	116808353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081326)	promoter-TSS (NM_001081326)	-87.0	NM_001081326	77559.0	Mm.237099	NM_001081326	ENSMUSG00000033400	Agl	1110061O17Rik|9430004C13Rik|9630046L06Rik|AI850929|C77197	amylo-1,6-glucosidase, 4-alpha-glucanotransferase	protein-coding	130.0	170.5	87.5	2047.0	341.0	115.0	162.0	151.5
Merged-chr19-53310486-4	chr19	53310383	53310583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008542)	promoter-TSS (NM_001008542)	-23.0	NM_001008542	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	54.5	40.5	45.5	644.5	79.0	41.0	58.0	39.5
Merged-chr3-144695470-4	chr3	144695384	144695584	+	911.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 9 of 10)	intron (NM_001282037, intron 9 of 10)	24851.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	12.0	15.5	16.0	327.0	34.0	12.5	14.0	23.0
Merged-chr10-117844403-4	chr10	117844305	117844505	+	982.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	1569.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	12.5	64.5	21.0	365.5	60.5	23.5	28.5	18.5
Merged-chr14-120741861-4	chr14	120741751	120741951	+	931.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-169343.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	18.5	21.0	58.0	843.5	31.0	15.0	16.5	25.5
Merged-chr15-77842289-4	chr15	77842189	77842389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022410)	promoter-TSS (NM_022410)	-114.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	351.0	508.5	310.5	4402.5	829.5	365.0	347.5	348.5
Merged-chr4-103214754-4	chr4	103214627	103214827	+	989.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356276, exon 1 of 12)	exon (NM_001356276, exon 1 of 12)	449.0	NM_001356276	242585.0	Mm.281800	NM_177732	ENSMUSG00000028521	Slc35d1	AI834976|C330011J09|UGTREL7|mKIAA0260	solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1	protein-coding	29.5	25.0	23.5	313.0	36.5	14.0	29.0	14.0
Merged-chr15-98918247-4	chr15	98918154	98918354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029098)	promoter-TSS (NM_029098)	-156.0	NM_029098	74775.0	Mm.385020	NM_029098	ENSMUSG00000022999	Lmbr1l	1110013E13Rik|AA415653|D15Ertd735e|Limr	limb region 1 like	protein-coding	274.0	450.5	234.5	3468.0	557.0	251.0	248.5	218.0
Merged-chr4-150557046-4	chr4	150556940	150557140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	95134.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	90.0	86.0	56.0	770.5	166.0	58.5	85.0	79.0
Merged-chr4-133941659-4	chr4	133941558	133941758	+	976.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26333.0	NM_016957	15331.0	Mm.319660	NM_016957	ENSMUSG00000003038	Hmgn2	HMG-17|Hmg17	high mobility group nucleosomal binding domain 2	protein-coding	52.0	91.0	45.5	665.5	50.5	21.5	16.0	16.5
Merged-chr5-139286751-4	chr5	139286640	139286840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	33243.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	59.0	94.5	51.5	608.5	146.5	56.5	74.0	43.5
Merged-chr1-93236384-4	chr1	93236249	93236449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172463, intron 1 of 30)	CpG	452.0	NM_172463	208777.0	Mm.271897	NM_172463	ENSMUSG00000047793	Sned1	6720455I24Rik|AI197264|AI642697|D430044C15Rik|SST3|Snep	sushi, nidogen and EGF-like domains 1	protein-coding	15.0	26.5	21.0	287.0	44.0	7.0	28.5	21.0
Merged-chr4-141445513-4	chr4	141445412	141445612	+	829.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009541, intron 1 of 15)	intron (NM_009541, intron 1 of 15)	839.0	NM_009541	22642.0	Mm.389590	NM_009541	ENSMUSG00000006215	Zbtb17	AA589413|Lp-1|Miz1|Zfp100|mZ13	zinc finger and BTB domain containing 17	protein-coding	14.0	49.5	10.5	50.5	65.0	12.0	12.5	12.5
Merged-chr2-29624136-4	chr2	29624029	29624229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	4409.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	47.5	55.5	38.5	657.0	129.5	44.0	59.5	44.5
Merged-chr7-97355347-4	chr7	97355257	97355457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16260.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	90.0	162.5	107.0	1323.0	167.5	74.0	108.0	64.5
Merged-chr1-131246053-4	chr1	131245954	131246154	+	848.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313731)	promoter-TSS (NM_001313731)	-876.0	NM_018750	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	10.0	16.0	7.5	132.5	25.0	16.0	12.5	6.0
Merged-chr18-50095852-4	chr18	50095749	50095949	+	876.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-32352.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	21.5	16.0	6.5	306.5	31.0	16.0	11.0	17.0
Merged-chr11-110130950-1	chr11	110130850	110131050	+	744.0	f1_c57bl6.idr	intron (NM_147220, intron 23 of 38)	intron (NM_147220, intron 23 of 38)	-35013.0	NM_153145	217258.0	Mm.344148	NM_153145	ENSMUSG00000041828	Abca8a	-	ATP-binding cassette, sub-family A (ABC1), member 8a	protein-coding	3.0	1.0	5.5	52.0	14.0	13.5	8.0	8.5
Merged-chr2-120128767-4	chr2	120128660	120128860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 2 of 5)	intron (NM_133838, intron 2 of 5)	25815.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	36.0	43.0	35.5	610.5	62.5	34.0	43.5	34.0
Merged-chr7-44748450-4	chr7	44748354	44748554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133945)	promoter-TSS (NM_133945)	-63.0	NM_001289839	243963.0	Mm.382935	NM_178734	ENSMUSG00000048012	Zfp473	D030014N22Rik|Znf473|zfp-100	zinc finger protein 473	protein-coding	168.0	310.0	127.5	2356.5	481.0	154.0	194.0	173.0
Merged-chr17-80933784-4	chr17	80933697	80933897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_131127)	TTS (NR_131127)	-10835.0	NM_026516	68027.0	Mm.357108	NM_026516	ENSMUSG00000024245	Tmem178	2810417M05Rik|Tmem178a	transmembrane protein 178	protein-coding	70.5	79.0	98.0	1563.5	219.0	29.5	70.0	84.5
Merged-chr2-3703952-4	chr2	3703850	3704050	+	968.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9508.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	17.5	24.5	15.5	293.5	31.5	16.0	18.5	24.0
Merged-chr4-145209486-3	chr4	145209411	145209611	+	805.964294	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-14506.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	4.0	12.0	8.5	96.0	19.0	12.5	9.5	5.0
Merged-chr19-16084490-4	chr19	16084392	16084592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48339.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	111.0	182.0	140.5	1895.5	322.5	113.5	141.5	121.5
Merged-chr4-9650079-1	chr4	9649979	9650179	+	785.0	f1_balb.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	-6362.0	NM_001177852	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	0.0	1.5	1.5	22.5	15.0	6.0	12.5	8.0
Merged-chr10-80693772-7	chr10	80693616	80693816	+	854.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	8104.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	12.0	7.0	2.5	82.5	13.5	5.0	5.5	9.5
Merged-chr8-35707095-3	chr8	35706991	35707191	+	757.377747	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118071.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	2.0	2.5	1.5	29.0	44.0	15.5	17.5	13.5
Merged-chr6-16977534-3	chr6	16977430	16977630	+	825.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79089.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	5.0	14.0	5.0	105.5	10.0	1.5	15.5	6.5
Merged-chr4-9131803-4	chr4	9131714	9131914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-137479.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	123.0	215.0	196.5	3054.5	309.0	111.0	154.0	136.5
Merged-chr1-120020632-4	chr1	120020549	120020749	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 1 of 13)	MTD|LTR|ERVL-MaLR	13669.0	NM_001012322	319229.0	Mm.189223	NM_001012322	ENSMUSG00000026387	Sctr	6530402O03Rik	secretin receptor	protein-coding	35.0	45.5	45.0	734.0	57.5	13.5	16.0	38.5
Merged-chr17-69226167-4	chr17	69226070	69226270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 3 of 21)	RLTR16|LTR|ERVK	51036.0	NR_045428	69750.0	Mm.439063	NR_045428	ENSMUSG00000100572	2410021H03Rik	-	RIKEN cDNA 2410021H03 gene	ncRNA	104.0	204.0	122.5	2094.5	499.5	129.0	167.5	135.5
Merged-chr14-73442136-4	chr14	73442047	73442247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56858.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	187.0	293.5	204.5	3250.5	418.5	131.0	243.5	192.5
Merged-chr9-103347193-4	chr9	103347049	103347249	+	952.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176979, intron 27 of 27)	RSINE1|SINE|B4	17830.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	6.5	9.0	7.0	88.5	37.0	18.0	16.0	17.5
Merged-chr12-8922152-6	chr12	8922105	8922305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008640, exon 1 of 7)	exon (NM_008640, exon 1 of 7)	898.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	81.5	186.0	212.0	1733.0	166.0	107.0	93.0	134.5
Merged-chr3-85601987-2	chr3	85601883	85602083	+	675.666626	f0_balb.idr|f0_c57.idr	intron (NM_144896, intron 3 of 12)	intron (NM_144896, intron 3 of 12)	27854.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	8.0	14.5	7.5	121.0	25.0	7.0	10.5	6.0
Merged-chr1-161131479-4	chr1	161131331	161131531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039482)	promoter-TSS (NM_001039482)	48.0	NM_001039482	226541.0	Mm.255165	NM_144876	ENSMUSG00000026705	Klhl20	AI504637|D930050H05Rik|Kleip|mKIAA4210	kelch-like 20	protein-coding	91.5	113.5	110.5	1473.0	153.5	48.0	69.0	80.5
Merged-chr8-61921211-4	chr8	61921110	61921310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6877.0	NM_001293783	234311.0	Mm.275233	NM_144928	ENSMUSG00000037921	Ddx60	9830118M07	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	protein-coding	23.0	24.5	26.0	490.5	81.0	17.5	26.5	23.0
Merged-chr8-71654736-4	chr8	71654620	71654820	+	780.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029873, intron 15 of 41)	intron (NM_001029873, intron 15 of 41)	17037.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	8.5	10.5	8.5	61.5	18.5	8.5	13.5	17.0
Merged-chr9-44066984-4	chr9	44066873	44067073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198092)	promoter-TSS (NM_198092)	-48.0	NM_198092	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	142.0	263.0	93.5	1400.0	377.0	130.5	106.5	129.5
Merged-chr17-48325911-4	chr17	48325830	48326030	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177083, exon 6 of 6)	3' UTR (NM_177083, exon 6 of 6)	9768.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	38.0	70.5	43.5	640.0	63.0	29.0	18.0	26.0
Merged-chr16-43363104-4	chr16	43362997	43363197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	LFSINE_Vert|SINE|tRNA	57099.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	43.5	44.5	58.0	682.0	62.0	31.5	35.5	29.0
Merged-chr15-27213097-3	chr15	27212998	27213198	+	757.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-253579.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	8.0	10.5	9.5	188.0	8.0	4.0	10.0	11.5
Merged-chr19-44267066-4	chr19	44266956	44267156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-26620.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	24.5	35.5	29.5	353.5	57.0	21.5	25.5	14.5
Merged-chr6-134544299-4	chr6	134544205	134544405	+	839.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	22608.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	9.5	18.5	7.0	199.5	19.0	6.0	12.5	19.0
Merged-chr1-75219295-4	chr1	75219202	75219402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009447)	promoter-TSS (NM_009447)	-8.0	NM_001313724	22145.0	Mm.1155	NM_009447	ENSMUSG00000026202	Tuba4a	M[a]4|Tuba4	tubulin, alpha 4A	protein-coding	107.0	143.5	64.5	1211.5	170.5	65.5	140.5	91.0
Merged-chr19-29925028-3	chr19	29924916	29925116	+	722.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133775)	promoter-TSS (NM_133775)	-97.0	NM_133775	77125.0	Mm.182359	NM_133775	ENSMUSG00000024810	Il33	9230117N10Rik|Il-33|Il1f11|NF-HEV	interleukin 33	protein-coding	8.0	13.5	8.0	74.0	13.0	7.5	6.5	4.0
Merged-chr16-36692647-4	chr16	36692527	36692727	+	886.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1351.0	NM_001285788	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	12.0	16.5	14.0	122.0	49.0	8.0	12.5	18.0
Merged-chr6-129398481-6	chr6	129398394	129398594	+	922.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204253, intron 1 of 3)	RLTR21|LTR|ERVK	1197.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	4.0	15.0	4.5	105.0	14.5	5.0	8.0	20.0
Merged-chr3-95217956-4	chr3	95217866	95218066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172512)	promoter-TSS (NM_172512)	-24.0	NM_029885	213054.0	Mm.224820	NM_029885	ENSMUSG00000038766	Gabpb2	1810015F01Rik|5830427M07|9430006E19Rik|A430024B14Rik|AV050852|Gabpb2-1	GA repeat binding protein, beta 2	protein-coding	35.5	45.5	17.5	406.0	95.5	34.0	41.0	24.0
Merged-chr6-88465375-4	chr6	88465272	88465472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019685)	promoter-TSS (NM_019685)	-37.0	NM_019685	56505.0	Mm.42195	NM_019685	ENSMUSG00000030079	Ruvbl1	2510009G06Rik|Pontin52|Tip49a	RuvB-like protein 1	protein-coding	130.5	200.5	93.5	1683.0	352.5	103.5	175.5	91.0
Merged-chr10-95844046-4	chr10	95843954	95844154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	-96609.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	26.5	24.5	22.0	537.5	103.0	18.5	25.0	28.5
Merged-chr15-102406724-4	chr15	102406623	102406823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013672, intron 1 of 5)	CpG-5406	407.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	61.5	118.5	46.0	832.0	204.5	72.0	119.0	77.5
Merged-chr1-75458356-4	chr1	75458249	75458449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183022, intron 1 of 9)	intron (NM_183022, intron 1 of 9)	7839.0	NM_183022	241118.0	Mm.110790	NM_183022	ENSMUSG00000033007	Asic4	Accn4|BNAC4	acid-sensing (proton-gated) ion channel family member 4	protein-coding	18.5	40.5	30.5	506.5	46.0	22.0	26.5	37.5
Merged-chr1-192138161-4	chr1	192138064	192138264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144814)	promoter-TSS (NM_144814)	-124.0	NM_001290282	214742.0	Mm.207457	NM_144814	ENSMUSG00000037395	Rcor3	4921514E24Rik|C730034D20Rik|E130101E15Rik	REST corepressor 3	protein-coding	53.0	61.5	42.0	1016.5	116.0	46.5	59.0	35.5
Merged-chr5-136035079-4	chr5	136034966	136035166	+	898.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-3430.0	NM_175309	100647.0	Mm.3089	NM_175309	ENSMUSG00000042985	Upk3b	AI447729|AI957187|P35|PMS2L14|UpIIIb	uroplakin 3B	protein-coding	12.0	18.5	20.5	125.5	23.5	11.0	19.0	11.0
Merged-chr10-117818758-4	chr10	117818606	117818806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 5 of 7)	intron (NM_024457, intron 5 of 7)	-26001.0	NM_134010	103468.0	Mm.12568	NM_134010	ENSMUSG00000052798	Nup107	AW541137|C76801	nucleoporin 107	protein-coding	111.5	240.0	79.5	1299.5	217.5	106.5	72.5	75.5
Merged-chr1-74773289-4	chr1	74773205	74773405	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009526, intron 1 of 3)	intron (NM_009526, intron 1 of 3)	1413.0	NM_009526	22420.0	Mm.268282	NM_009526	ENSMUSG00000033227	Wnt6	AA409270|Wnt-6	wingless-type MMTV integration site family, member 6	protein-coding	38.5	51.0	52.5	798.0	84.0	19.0	55.5	44.0
Merged-chr11-68901482-4	chr11	68901363	68901563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003373)	promoter-TSS (NR_003373)	-103.0	NM_009080	19941.0	Mm.3229	NM_009080	ENSMUSG00000060938	Rpl26	SIG-20	ribosomal protein L26	protein-coding	76.5	100.0	50.5	677.0	215.5	87.5	43.0	83.0
Merged-chr4-154334889-3	chr4	154334803	154335003	+	748.194458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291026, intron 11 of 16)	intron (NM_001291026, intron 11 of 16)	-35008.0	NM_001112744	230972.0	Mm.38481	NM_001112744	ENSMUSG00000029032	Arhgef16	-	Rho guanine nucleotide exchange factor (GEF) 16	protein-coding	6.0	4.0	5.5	32.5	25.5	12.0	8.5	16.0
Merged-chr8-68368768-1	chr8	68368668	68368868	+	552.0	f0_balb.idr	intron (NR_038181, intron 1 of 3)	MER63A|DNA|hAT-Blackjack	309.0	NR_038181	73609.0	Mm.443247	NR_038181	ENSMUSG00000085197	1700125H03Rik	4930510D22Rik	RIKEN cDNA 1700125H03 gene	ncRNA	9.5	5.0	5.5	81.5	2.5	1.5	1.0	1.5
Merged-chr17-28691267-4	chr17	28691170	28691370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011951)	promoter-TSS (NM_011951)	-72.0	NM_001168508	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	171.0	274.5	171.5	1847.5	485.0	218.5	173.0	161.0
Merged-chr9-71952736-4	chr9	71952633	71952833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011544, intron 5 of 20)	MIRc|SINE|MIR	-56637.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	38.0	51.0	23.5	674.0	91.5	30.5	31.5	76.5
Merged-chr16-17234149-4	chr16	17234050	17234250	+	925.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178922, intron 1 of 2)	intron (NM_178922, intron 1 of 2)	563.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	10.0	12.5	28.0	124.0	43.0	15.0	13.0	22.5
Merged-chr8-83700619-3	chr8	83700499	83700699	+	687.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1420.0	NM_177262	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	7.0	8.0	8.0	119.5	4.0	3.0	6.0	7.5
Merged-chr15-77538111-4	chr15	77538009	77538209	+	770.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-4794.0	NM_175391	108956.0	Mm.86391	NM_175391	ENSMUSG00000044309	Apol7c	2210421G13Rik	apolipoprotein L 7c	protein-coding	6.0	8.0	7.0	64.5	69.0	18.0	10.0	13.5
Merged-chr7-18840683-4	chr7	18840605	18840805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153760, intron 1 of 4)	intron (NM_153760, intron 1 of 4)	739.0	NM_153760	243864.0	Mm.233503	NM_153760	ENSMUSG00000040987	Mill2	Micb	MHC I like leukocyte 2	protein-coding	18.0	69.5	39.0	498.5	118.0	32.5	54.0	44.5
Merged-chr10-26799043-4	chr10	26798953	26799153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	26541.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	78.5	150.5	128.5	1738.5	173.5	56.5	78.5	61.5
Merged-chr13-51307786-3	chr13	51307688	51307888	+	957.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100830.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	22.5	16.5	14.0	194.0	15.5	14.5	10.5	10.0
Merged-chr11-110698623-4	chr11	110698522	110698722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	219282.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	98.0	125.0	69.5	822.5	176.5	70.5	80.5	91.5
Merged-chr18-49633977-3	chr18	49633878	49634078	+	892.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110689.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	13.5	5.5	39.5	542.0	26.5	2.0	13.5	12.0
Merged-chr17-26535487-4	chr17	26535417	26535617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25995.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	248.0	344.5	292.0	3771.0	577.0	224.0	311.0	262.5
Merged-chr12-85510680-3	chr12	85510577	85510777	+	849.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A2|LTR|ERVL	36787.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	13.5	16.0	2.5	68.5	33.5	10.5	7.0	10.0
Merged-chr1-120510487-2	chr1	120510378	120510578	+	578.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-5454.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	3.0	6.0	4.5	54.5	28.0	4.5	11.5	14.5
Merged-chr10-19570955-4	chr10	19570872	19571072	+	955.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-20977.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	19.5	30.0	17.0	289.5	32.5	20.0	15.5	14.0
Merged-chr17-12318807-4	chr17	12318711	12318911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045290)	promoter-TSS (NR_045290)	-15.0	NM_001357722	26407.0	Mm.28587	NM_011948	ENSMUSG00000014426	Map3k4	D17Rp17|D17Rp17e|MAPKKK4|MEKK 4|MTK1|Mek4b|Mekk4|RP17|Rp17a|Tas|mKIAA0213	mitogen-activated protein kinase kinase kinase 4	protein-coding	79.0	135.5	94.0	1942.5	252.5	107.5	124.0	122.5
Merged-chr2-28402361-4	chr2	28402284	28402484	+	845.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45557.0	NM_001005420	241289.0	Mm.330095	NM_001005420	ENSMUSG00000035829	Ppp1r26	Gm347|Kiaa0649|mKIAA0649	protein phosphatase 1, regulatory subunit 26	protein-coding	17.0	19.5	18.5	227.0	14.5	6.0	15.5	15.0
Merged-chr2-73509779-4	chr2	73509664	73509864	+	834.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	19723.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	11.0	10.0	21.5	375.5	30.5	6.5	13.0	12.5
Merged-chr10-81303515-4	chr10	81303411	81303611	+	997.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	intron (NM_001293647, intron 1 of 17)	10548.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	15.5	36.0	14.0	234.0	49.0	21.0	14.0	25.0
Merged-chr5-38516437-1	chr5	38516337	38516537	+	542.0	f0_c57.idr	Intergenic	Intergenic	-14285.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	8.0	4.5	5.5	70.5	20.0	4.0	8.0	10.5
Merged-chr1-124103208-3	chr1	124103108	124103308	+	586.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-57649.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	11.5	11.5	7.0	83.0	13.5	1.5	10.5	5.5
Merged-chr12-64917819-4	chr12	64917733	64917933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025605)	promoter-TSS (NM_001025605)	-78.0	NM_001025605	217648.0	Mm.341586	NM_001025605	ENSMUSG00000047227	Gm527	-	predicted gene 527	protein-coding	203.0	317.5	207.5	3916.5	625.5	231.0	322.5	200.0
Merged-chr3-87885747-4	chr3	87885643	87885843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033573)	promoter-TSS (NM_033573)	-181.0	NM_033573	94315.0	Mm.35089	NM_033573	ENSMUSG00000004895	Prcc	-	papillary renal cell carcinoma (translocation-associated)	protein-coding	305.0	469.0	291.0	3494.5	575.0	203.0	245.5	254.0
Merged-chr11-4187169-2	chr11	4187069	4187269	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	CpG	336.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	29.0	29.0	14.0	176.5	48.0	19.0	18.0	26.5
Merged-chr2-144556174-4	chr2	144556044	144556244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019787)	promoter-TSS (NM_019787)	-85.0	NM_001252544	27054.0	Mm.248492	NM_019787	ENSMUSG00000027429	Sec23b	-	SEC23 homolog B, COPII coat complex component	protein-coding	101.0	119.5	73.0	1119.5	224.0	91.5	128.5	91.5
Merged-chr7-138919220-4	chr7	138919117	138919317	+	888.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9711.0	NM_009760	12176.0	Mm.378890	NM_009760	ENSMUSG00000078566	Bnip3	Nip3	BCL2/adenovirus E1B interacting protein 3	protein-coding	10.0	14.0	9.0	297.5	28.0	11.5	12.0	12.0
Merged-chr11-29870390-4	chr11	29870287	29870487	+	881.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 7 of 41)	L1M2|LINE|L1	-44719.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	12.5	13.0	22.0	442.5	35.0	8.5	15.5	12.0
Merged-chr5-90895900-2	chr5	90895800	90896000	+	972.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	4655.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	12.5	13.5	5.0	14.5	10.0	6.5	4.0	0.5
Merged-chr1-166345775-4	chr1	166345659	166345859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33408.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	96.0	101.5	115.5	1879.5	190.5	61.5	92.0	92.0
Merged-chr6-47953366-4	chr6	47953240	47953440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178898)	promoter-TSS (NM_178898)	-50.0	NM_178898	101197.0	Mm.241063	NM_178898	ENSMUSG00000045466	Zfp956	AI894139	zinc finger protein 956	protein-coding	76.0	81.0	74.0	1213.0	118.5	58.0	77.5	63.0
Merged-chr15-59456734-4	chr15	59456627	59456827	+	953.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	82529.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	28.0	45.0	38.0	419.0	72.0	27.0	12.5	15.0
Merged-chr10-13304868-4	chr10	13304755	13304955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	19434.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	83.5	167.5	93.0	1190.0	271.5	103.5	67.0	72.5
Merged-chr12-69583092-4	chr12	69582985	69583185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033236)	promoter-TSS (NM_001033236)	-57.0	NM_001033236	207965.0	Mm.102487	NM_001033236	ENSMUSG00000049882	Vcpkmt	Gm71|Mettl21d|Mettl221d|VCP-KMT	valosin containing protein lysine (K) methyltransferase	protein-coding	99.5	160.0	81.0	1505.0	141.5	31.5	69.0	59.5
Merged-chr9-22307041-2	chr9	22306941	22307141	+	876.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_145612, intron 1 of 7)	intron (NM_145612, intron 1 of 7)	597.0	NM_145612	235050.0	Mm.306038	NM_145612	ENSMUSG00000066829	Zfp810	BC005471	zinc finger protein 810	protein-coding	1.5	2.5	3.5	40.0	5.0	4.5	7.5	4.5
Merged-chr18-4635601-1	chr18	4635501	4635701	+	547.0	f1_c57bl6.idr	intron (NM_001081963, intron 1 of 3)	intron (NM_001081963, intron 1 of 3)	672.0	NM_001081963	240185.0	Mm.33179	NM_001081963	ENSMUSG00000033960	Jcad	1110056P05Rik|9430020K01Rik|Gm328|mKIAA1462	junctional cadherin 5 associated	protein-coding	5.0	11.0	9.0	36.5	7.0	3.5	1.0	5.0
Merged-chr14-57730514-4	chr14	57730414	57730614	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153382, intron 1 of 1)	intron (NM_153382, intron 1 of 1)	3904.0	NM_153382	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	6.0	12.5	12.0	168.0	26.5	8.5	14.0	6.5
Merged-chr17-45556795-6	chr17	45556699	45556899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008690, intron 1 of 5)	intron (NM_008690, intron 1 of 5)	1099.0	NM_001304956	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	32.5	39.5	46.5	155.0	100.0	36.5	26.5	35.0
Merged-chr9-40787500-4	chr9	40787387	40787587	+	729.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGAGAA)n|Simple_repeat|Simple_repeat	-13786.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	7.0	9.5	8.5	301.0	46.5	13.0	9.5	20.0
Merged-chr17-80128077-4	chr17	80127981	80128181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 1 of 6)	intron (NM_176963, intron 1 of 6)	610.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	74.0	99.5	113.5	1377.0	138.5	39.0	55.5	60.0
Merged-chr2-73467270-4	chr2	73467124	73467324	+	646.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-13335.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	9.5	6.5	9.5	172.0	17.0	9.0	6.5	10.0
Merged-chr1-131528968-1	chr1	131528868	131529068	+	581.0	f0_balb.idr	intron (NM_175382, intron 1 of 3)	intron (NM_175382, intron 1 of 3)	1065.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	6.0	3.5	3.0	97.5	10.5	5.5	7.5	8.0
Merged-chr14-73381276-2	chr14	73381176	73381376	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	4013.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	14.5	4.5	8.0	121.5	20.0	8.0	11.0	10.5
Merged-chr14-41013773-4	chr14	41013646	41013846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316735)	promoter-TSS (NM_001316735)	87.0	NM_001316734	70564.0	Mm.27227	NM_027464	ENSMUSG00000021792	Fam213a	5730469M10Rik|AU040822|Adrx|Pamm	family with sequence similarity 213, member A	protein-coding	50.5	66.0	61.5	942.5	92.5	37.0	54.5	58.5
Merged-chr4-141605479-1	chr4	141605379	141605579	+	1000.0	f1_c57bl6.idr	intron (NM_133754, intron 1 of 8)	intron (NM_133754, intron 1 of 8)	573.0	NM_133754	74202.0	Mm.490327	NM_133754	ENSMUSG00000006219	Fblim1	2410043F08Rik|Cal|Fblp1|Gt10|migfilin|migfilin(s)	filamin binding LIM protein 1	protein-coding	2.0	2.0	6.0	0.5	19.0	6.5	6.0	13.5
Merged-chr10-80623735-4	chr10	80623646	80623846	+	930.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134002, intron 1 of 10)	intron (NM_134002, intron 1 of 10)	966.0	NM_134002	103236.0	Mm.29873	NM_134002	ENSMUSG00000003345	Csnk1g2	2810429I12Rik|AI463719	casein kinase 1, gamma 2	protein-coding	6.0	43.0	13.0	201.0	58.5	15.0	12.5	22.5
Merged-chr7-110179414-4	chr7	110179296	110179496	+	968.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42307.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	19.5	16.5	7.5	194.0	67.0	10.5	19.0	10.0
Merged-chr8-105340032-4	chr8	105339919	105340119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	7951.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	78.0	123.5	63.5	1220.5	250.5	59.5	111.5	82.5
Merged-chr17-45478660-3	chr17	45478562	45478762	+	857.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3724.0	NM_001357831	71020.0	Mm.44257	NM_027649	ENSMUSG00000023935	Spats1	1700011H05Rik|4933400B06Rik|Ddip|Srsp1	spermatogenesis associated, serine-rich 1	protein-coding	6.0	6.5	3.5	149.5	19.0	5.5	12.0	6.5
Merged-chr19-5488024-3	chr19	5487929	5488129	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153768, exon 1 of 16)	non-coding (NR_153768, exon 1 of 16)	350.0	NM_027877	71711.0	Mm.27697	NM_027877	ENSMUSG00000024906	Mus81	1200008A18Rik|AI182501|AW045863	MUS81 structure-specific endonuclease subunit	protein-coding	37.5	44.0	25.0	370.5	100.5	34.5	27.5	55.0
Merged-chr11-11886559-4	chr11	11886456	11886656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190448, intron 1 of 14)	intron (NM_001190448, intron 1 of 14)	3852.0	NM_016672	13195.0	Mm.12906	NM_016672	ENSMUSG00000020182	Ddc	Aadc	dopa decarboxylase	protein-coding	56.0	123.5	91.5	1181.0	273.0	96.5	103.5	73.5
Merged-chr18-84085881-3	chr18	84085785	84085985	+	901.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081300, exon 1 of 2)	5' UTR (NM_001081300, exon 1 of 2)	677.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	10.5	15.0	16.5	247.0	18.0	4.0	11.5	5.5
Merged-chr18-36018300-4	chr18	36018190	36018390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167891, exon 10 of 10)	exon (NM_001167891, exon 10 of 10)	53460.0	NR_110349	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	75.5	104.5	49.5	933.5	153.0	55.0	81.5	69.5
Merged-chr18-6760969-3	chr18	6760858	6761058	+	827.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4209.0	NM_181070	19330.0	Mm.132802	NM_181070	ENSMUSG00000073639	Rab18	AA959686	RAB18, member RAS oncogene family	protein-coding	1.5	9.0	2.0	91.0	38.5	7.0	7.5	8.5
Merged-chr10-78457268-3	chr10	78457125	78457325	+	788.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172134, intron 1 of 10)	intron (NM_172134, intron 1 of 10)	7723.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	3.0	9.5	2.5	110.0	11.5	9.0	7.0	7.0
Merged-chr17-65764607-2	chr17	65764507	65764707	+	640.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	Lx5|LINE|L1	8145.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	1.5	0.0	8.0	32.0	9.5	4.5	5.0	5.5
Merged-chr17-50994311-2	chr17	50994228	50994428	+	705.5	f0_balb.idr|f0_c57.idr	intron (NM_028162, intron 3 of 21)	RLTR14-int|LTR|ERV1	165050.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	15.0	11.5	5.5	118.5	27.0	14.5	10.5	7.5
Merged-chr3-145924908-4	chr3	145924792	145924992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009740, intron 1 of 2)	CpG	630.0	NM_009740	12042.0	Mm.239141	NM_009740	ENSMUSG00000028191	Bcl10	AI132454|BCL-10|C81403|CARMEN|CIPER|CLAP|ME10|cE10	B cell leukemia/lymphoma 10	protein-coding	35.5	67.0	43.0	435.0	133.0	41.5	66.5	56.0
Merged-chr1-156560646-4	chr1	156560518	156560718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	1831.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	27.5	66.5	33.0	654.0	118.5	46.0	43.0	37.5
Merged-chr6-34922136-4	chr6	34922026	34922226	+	914.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009292, intron 1 of 8)	intron (NM_009292, intron 1 of 8)	1178.0	NM_009292	20899.0	Mm.5171	NM_009292	ENSMUSG00000029848	Stra8	-	stimulated by retinoic acid gene 8	protein-coding	9.5	16.5	4.5	247.5	42.0	9.5	30.0	16.5
Merged-chr6-89286914-4	chr6	89286834	89287034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1209.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	55.0	83.5	26.5	785.0	135.5	52.5	41.5	48.5
Merged-chr2-131502719-4	chr2	131502629	131502829	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 1 of 3)	intron (NM_001177840, intron 1 of 3)	10867.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	14.5	17.5	9.5	256.0	30.5	7.5	6.5	11.5
Merged-chr1-72019068-1	chr1	72018968	72019168	+	768.5	f0_balb.idr	Intergenic	Intergenic	-13873.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	7.0	4.5	10.0	134.0	11.5	3.5	6.0	6.5
Merged-chr8-11497546-4	chr8	11497449	11497649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026995)	promoter-TSS (NM_026995)	-19.0	NM_026995	69225.0	Mm.64911	NM_026995	ENSMUSG00000031505	Naxd	0710008K08Rik|2810407E01Rik|Carkd	NAD(P)HX dehydratase	protein-coding	146.5	180.0	110.5	2360.5	367.5	125.5	239.5	137.5
Merged-chr14-70798776-4	chr14	70798679	70798879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	24398.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	56.0	66.0	57.5	639.0	94.5	47.0	52.0	39.0
Merged-chr7-81348453-4	chr7	81348342	81348542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357107, intron 9 of 9)	intron (NM_001357107, intron 9 of 9)	-3208.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	55.0	97.5	64.5	1068.5	97.0	41.5	45.0	35.0
Merged-chr7-123368601-10	chr7	123368520	123368720	+	925.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	intron (NM_001316713, intron 1 of 19)	1295.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	5.0	8.0	2.0	70.0	35.0	4.5	7.0	11.5
Merged-chr17-12119937-3	chr17	12119834	12120034	+	704.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 1 of 8)	intron (NM_026644, intron 1 of 8)	650.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	14.0	8.0	5.0	89.0	18.5	3.0	7.0	2.5
Merged-chr15-76799617-4	chr15	76799515	76799715	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	18555.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	21.5	31.5	31.5	339.0	28.5	11.0	19.5	5.5
Merged-chr13-53377402-4	chr13	53377305	53377505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009269)	promoter-TSS (NM_009269)	-44.0	NM_009269	268656.0	Mm.240336	NM_009269	ENSMUSG00000021468	Sptlc1	AW552086|C77762|E030036H05|Lcb1|SPT1	serine palmitoyltransferase, long chain base subunit 1	protein-coding	43.5	46.0	31.0	408.0	246.0	69.0	77.0	113.5
Merged-chr8-36994373-4	chr8	36994286	36994486	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039220, exon 1 of 1)	exon (NM_001039220, exon 1 of 1)	811.0	NM_001039220	621080.0	Mm.373292	NM_001039220	ENSMUSG00000074384	AI429214	-	expressed sequence AI429214	protein-coding	49.5	47.0	56.5	1116.5	37.5	9.5	15.5	9.0
Merged-chr11-4297099-3	chr11	4296967	4297167	+	816.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30271.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	7.0	16.0	14.0	148.5	12.0	6.0	4.0	0.5
Merged-chr17-47767844-3	chr17	47767816	47768016	+	782.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-17828.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	6.5	6.5	9.5	35.5	19.0	5.0	1.5	3.5
Merged-chr6-38610351-3	chr6	38610253	38610453	+	867.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_138680)	TTS (NM_138680)	26886.0	NM_001033171	74253.0	Mm.121859	NM_001033171	ENSMUSG00000071537	Klrg2	2310020F24Rik	killer cell lectin-like receptor subfamily G, member 2	protein-coding	7.0	3.0	8.5	252.5	17.0	4.5	8.5	4.5
Merged-chr15-59649224-4	chr15	59649144	59649344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144549, exon 1 of 3)	exon (NM_144549, exon 1 of 3)	590.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	34.0	49.0	26.0	413.5	80.5	33.0	40.5	36.0
Merged-chr17-32165053-4	chr17	32164966	32165166	+	816.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008716, intron 1 of 32)	intron (NM_008716, intron 1 of 32)	1786.0	NM_008716	18131.0	Mm.439741	NM_008716	ENSMUSG00000038146	Notch3	AW229011|N3|hpbk	notch 3	protein-coding	7.5	5.0	8.5	116.5	25.5	4.5	2.5	14.5
Merged-chr6-113226920-3	chr6	113226821	113227021	+	784.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-10922.0	NM_001362183	97287.0	Mm.197816	NM_026849	ENSMUSG00000030269	Mtmr14	1110061O04Rik|AW553738|C76151	myotubularin related protein 14	protein-coding	5.0	6.5	3.0	45.0	25.0	7.0	9.0	11.5
Merged-chr11-51917246-4	chr11	51917165	51917365	+	944.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-50366.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	8.0	8.5	9.0	115.5	23.0	7.0	10.0	11.5
Merged-chr16-62857700-4	chr16	62857611	62857811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011173, intron 1 of 14)	intron (NM_011173, intron 1 of 14)	3404.0	NM_011173	19128.0	Mm.127156	NM_011173	ENSMUSG00000022912	Pros1	AW214361	protein S (alpha)	protein-coding	58.5	75.0	37.5	1060.0	173.5	44.0	69.5	57.0
Merged-chr5-95935227-4	chr5	95935122	95935322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21717.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	140.0	215.0	155.5	1841.5	306.5	102.5	95.5	79.5
Merged-chr10-12964434-4	chr10	12964284	12964484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029075)	promoter-TSS (NM_029075)	-125.0	NM_001163591	74732.0	Mm.248648	NM_029075	ENSMUSG00000039232	Stx11	5830405C08Rik	syntaxin 11	protein-coding	54.5	133.5	88.0	573.0	149.0	79.0	49.5	59.0
Merged-chr6-113857676-4	chr6	113857613	113857813	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009723, intron 3 of 21)	intron (NM_009723, intron 3 of 21)	33826.0	NM_001036684	11941.0	Mm.321755	NM_009723	ENSMUSG00000030302	Atp2b2	D6Abb2e|Gena300|PMCA2|Tmy|dfw|jog|wms|wri	ATPase, Ca++ transporting, plasma membrane 2	protein-coding	10.5	29.5	15.5	335.5	30.5	11.0	15.5	21.5
Merged-chr19-42131338-4	chr19	42131258	42131458	+	918.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2365.0	NM_027106	69534.0	Mm.30060	NM_027106	ENSMUSG00000018821	Avpi1	2310008N12Rik|AA410041|VIT32|esu|mVIT32	arginine vasopressin-induced 1	protein-coding	14.5	47.0	24.0	215.0	22.0	16.5	12.0	10.0
Merged-chr1-61638907-4	chr1	61638827	61639027	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081050, exon 1 of 23)	5' UTR (NM_001081050, exon 1 of 23)	103.0	NM_001081050	72823.0	Mm.35153	NM_001081050	ENSMUSG00000052062	Pard3b	1810008K04Rik|2010002N16Rik|2810455B10Rik|Als2cr19|PAR3B|PAR3L|PAR3beta	par-3 family cell polarity regulator beta	protein-coding	51.5	61.5	31.5	757.5	21.0	10.5	18.0	13.0
Merged-chr6-87531722-4	chr6	87531638	87531838	+	885.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	1521.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	16.5	15.0	11.0	282.5	45.0	5.0	10.5	13.0
Merged-chr16-62856496-4	chr16	62856395	62856595	+	805.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011173, intron 1 of 14)	intron (NM_011173, intron 1 of 14)	2188.0	NM_011173	19128.0	Mm.127156	NM_011173	ENSMUSG00000022912	Pros1	AW214361	protein S (alpha)	protein-coding	10.0	9.5	8.0	217.0	36.0	18.5	19.5	12.0
Merged-chr7-118117690-4	chr7	118117588	118117788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-1541.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	51.0	79.5	43.0	735.0	198.5	73.5	63.0	56.5
Merged-chr5-135773272-3	chr5	135773165	135773365	+	794.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029659, intron 1 of 8)	intron (NM_029659, intron 1 of 8)	5036.0	NM_001289554	76571.0	Mm.247666	NM_029659	ENSMUSG00000019178	Styxl1	1700011C14Rik|Dusp24|Mkstyx	serine/threonine/tyrosine interacting-like 1	protein-coding	7.0	10.0	5.0	129.0	10.0	5.0	3.5	3.0
Merged-chr8-126596418-4	chr8	126596319	126596519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2983.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	257.0	379.5	279.5	3536.0	588.5	240.5	290.0	304.5
Merged-chr7-45898343-3	chr7	45898249	45898449	+	863.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144801, intron 2 of 7)	intron (NM_144801, intron 2 of 7)	1280.0	NM_144801	70209.0	Mm.163766	NM_144801	ENSMUSG00000002781	Tmem143	2310076O21Rik|AI481604	transmembrane protein 143	protein-coding	18.0	9.5	7.5	50.0	21.0	4.0	7.0	12.5
Merged-chr4-139199858-4	chr4	139199741	139199941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	5730.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	37.5	70.5	56.0	833.5	126.0	43.0	77.5	55.0
Merged-chr17-26933119-4	chr17	26933020	26933220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302397)	promoter-TSS (NM_001302397)	-7.0	NM_001302397	21652.0	Mm.258953	NM_009343	ENSMUSG00000024193	Phf1	AW557215|D17Ertd455e|Pcl1|Phf2|Tctex3	PHD finger protein 1	protein-coding	64.0	153.0	109.0	821.0	159.0	71.0	57.5	79.5
Merged-chr19-60819330-3	chr19	60819225	60819425	+	948.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026437, intron 3 of 8)	intron (NM_026437, intron 3 of 8)	7770.0	NM_001347464	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	4.0	2.0	4.0	57.0	39.5	18.0	27.0	16.5
Merged-chr2-124897422-4	chr2	124897300	124897500	+	763.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-170727.0	NM_175034	317750.0	Mm.330538	NM_175034	ENSMUSG00000035183	Slc24a5	F630045L20Rik|JSX|NCKX5|NCX5|Oca6	solute carrier family 24, member 5	protein-coding	12.5	20.5	10.0	254.5	19.0	7.0	10.0	15.5
Merged-chr6-148896190-4	chr6	148896074	148896274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301351)	promoter-TSS (NM_001301351)	63.0	NM_001301351	232560.0	Mm.150568	NM_181541	ENSMUSG00000030309	Caprin2	C1qdc1|Eeg1|rng140	caprin family member 2	protein-coding	131.5	162.5	126.5	2028.5	260.5	120.0	97.5	112.5
Merged-chr3-144628201-3	chr3	144628099	144628299	+	731.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR73|LTR|ERV1	57772.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	8.5	13.5	7.0	107.5	8.5	3.0	4.0	10.5
Merged-chr10-60287455-4	chr10	60287355	60287555	+	889.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146124, intron 1 of 13)	intron (NM_001146124, intron 1 of 13)	2994.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	9.5	3.5	7.0	186.0	21.5	4.5	4.5	11.5
Merged-chr5-140608132-6	chr5	140608108	140608308	+	979.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008494, intron 1 of 7)	intron (NM_008494, intron 1 of 7)	867.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	10.0	19.5	26.5	344.0	49.5	12.0	16.0	11.5
Merged-chr13-69383470-3	chr13	69383353	69383553	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150411.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	3.0	6.5	0.0	51.5	66.5	17.0	24.0	25.5
Merged-chr18-3281914-4	chr18	3281821	3282021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311067)	promoter-TSS (NM_001311067)	-174.0	NM_001110855	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	48.5	57.0	111.0	1396.0	190.0	53.0	92.0	104.0
Merged-chr9-104061461-1	chr9	104061361	104061561	+	719.0	f0_balb.idr	intron (NM_025692, intron 1 of 11)	intron (NM_025692, intron 1 of 11)	1660.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	7.0	10.5	7.5	108.0	7.0	1.5	2.0	3.5
Merged-chr2-13415673-4	chr2	13415593	13415793	+	851.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 27 of 66)	intron (NM_001081084, intron 27 of 66)	76183.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	8.5	10.5	17.0	133.5	21.5	6.0	9.0	11.0
Merged-chr4-70578462-4	chr4	70578364	70578564	+	815.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-43536.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	16.5	8.0	16.0	210.0	26.5	5.0	20.0	22.0
Merged-chr7-122099314-4	chr7	122099201	122099401	+	875.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153798, intron 1 of 3)	intron (NR_153798, intron 1 of 3)	2547.0	NR_153798	70316.0	Mm.3014	NM_028177	ENSMUSG00000030869	Ndufab1	2210401F17Rik|2310039H15Rik|2610003B19Rik|8kDa|9130423F15Rik|ACP|CI-SDAP|SDAP	NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1	protein-coding	8.0	12.5	10.5	131.0	18.0	13.0	7.0	5.5
Merged-chr18-6135144-3	chr18	6135037	6135237	+	962.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039692, intron 1 of 18)	intron (NM_001039692, intron 1 of 18)	961.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	10.5	9.0	9.0	115.0	39.5	6.5	8.5	16.5
Merged-chr18-25472591-4	chr18	25472483	25472683	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	207165.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	27.0	39.0	27.0	443.0	112.5	19.5	40.0	22.0
Merged-chr7-81578088-4	chr7	81577977	81578177	+	939.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004185, intron 2 of 9)	intron (NM_001004185, intron 2 of 9)	6785.0	NM_001004185	434204.0	Mm.181641	NM_001004185	ENSMUSG00000045795	Whamm	BB081391|Whdc1|mKIAA1971	WAS protein homolog associated with actin, golgi membranes and microtubules	protein-coding	14.0	16.0	12.0	205.5	34.0	12.5	18.0	17.0
Merged-chr4-107067455-3	chr4	107067290	107067490	+	849.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025500)	promoter-TSS (NM_025500)	402.0	NM_175471	230582.0	Mm.44608	NM_175471	ENSMUSG00000028621	Cyb5rl	2810410C14Rik	cytochrome b5 reductase-like	protein-coding	6.5	8.0	2.0	87.5	17.5	4.5	6.0	9.5
Merged-chr8-92840011-4	chr8	92839912	92840112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008610, intron 8 of 12)	intron (NM_008610, intron 8 of 12)	12715.0	NM_008610	17390.0	Mm.29564	NM_008610	ENSMUSG00000031740	Mmp2	Clg4a|GelA|MMP-2	matrix metallopeptidase 2	protein-coding	59.0	74.0	62.0	1020.5	154.0	42.5	60.5	61.5
Merged-chr15-84260484-2	chr15	84260384	84260584	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	intron (NM_133167, intron 1 of 12)	28441.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	7.0	10.5	7.0	54.0	6.5	5.0	10.0	7.0
Merged-chr10-93051120-4	chr10	93051015	93051215	+	842.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347060, intron 5 of 67)	intron (NM_001347060, intron 5 of 67)	30481.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	5.0	20.0	9.0	158.5	26.0	9.0	11.0	10.5
Merged-chr4-102720192-4	chr4	102720106	102720306	+	949.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-39929.0	NM_001285860	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	22.0	42.5	31.0	437.5	32.5	9.0	19.5	16.5
Merged-chr6-33867054-4	chr6	33866943	33867143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 14 of 17)	intron (NM_009148, intron 14 of 17)	-162405.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	27.0	60.0	28.0	488.5	57.5	28.5	24.0	17.0
Merged-chr9-119100498-3	chr9	119100358	119100558	+	840.544434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2020.0	NM_177117	320256.0	Mm.110648	NM_177117	ENSMUSG00000038060	Dlec1	D630005C06Rik	deleted in lung and esophageal cancer 1	protein-coding	12.0	10.5	4.5	85.0	19.5	2.5	4.5	11.5
Merged-chr6-90428540-4	chr6	90428521	90428721	+	905.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173775)	promoter-TSS (NM_173775)	-141.0	NM_173775	243538.0	Mm.386876	NM_173775	ENSMUSG00000048794	Cfap100	AW048498|C030041G11Rik|C230069K22Rik|Ccdc37	cilia and flagella associated protein 100	protein-coding	8.0	21.0	5.0	139.0	8.0	2.5	7.0	10.0
Merged-chr7-49252622-3	chr7	49252531	49252731	+	789.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 1 of 37)	intron (NM_175272, intron 1 of 37)	6442.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	10.5	8.5	2.0	109.5	8.0	10.0	5.5	10.5
Merged-chr13-103915891-3	chr13	103915788	103915988	+	834.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	intron (NM_001005868, intron 1 of 26)	4698.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	10.5	6.0	10.5	106.5	9.0	7.5	7.0	4.0
Merged-chr9-90040515-4	chr9	90040413	90040613	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-13754.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	25.0	28.0	27.5	549.0	27.0	6.5	15.0	16.0
Merged-chr18-62192230-4	chr18	62192138	62192338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12138.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	41.0	40.5	32.0	484.5	68.5	25.5	29.0	29.0
Merged-chr11-19955874-4	chr11	19955767	19955967	+	963.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	B4|SINE|B4	31425.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	15.0	22.0	18.5	188.5	45.5	10.0	28.0	12.5
Merged-chr2-173586760-4	chr2	173586665	173586865	+	813.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027957, intron 13 of 14)	CpG	-8424.0	NM_027303	70065.0	Mm.425115	NM_027303	ENSMUSG00000027517	Ankrd60	1700019A24Rik|1700030G11Rik	ankyrin repeat domain 60	protein-coding	9.0	17.0	10.5	175.0	28.0	4.0	24.0	13.0
Merged-chr9-21261963-3	chr9	21261875	21262075	+	812.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5|DNA|TcMar-Tigger	-3310.0	NM_153583	235040.0	Mm.440165	NM_153583	ENSMUSG00000002820	Atg4d	9830134P12Rik|APG4-D|Apg4d|Atg4dl|Autl4	autophagy related 4D, cysteine peptidase	protein-coding	6.0	9.0	14.0	139.0	28.5	6.0	3.5	11.0
Merged-chr7-6343776-3	chr7	6343708	6343908	+	894.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13374.0	NM_001033249	213011.0	Mm.333558	NM_001033249	ENSMUSG00000030443	Zfp583	BC056221|Znf583	zinc finger protein 583	protein-coding	5.0	7.5	5.5	101.5	12.5	4.0	7.0	3.5
Merged-chr4-134000944-4	chr4	134000828	134001028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026144)	promoter-TSS (NM_026144)	-64.0	NM_026144	67422.0	Mm.100290	NM_026144	ENSMUSG00000012117	Dhdds	3222401G21Rik|CIT|DS|HDS|W91638	dehydrodolichyl diphosphate synthase	protein-coding	91.5	169.5	67.5	1102.5	292.5	133.0	111.5	142.5
Merged-chr4-99116085-4	chr4	99116003	99116203	+	796.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 1 of 47)	intron (NM_026082, intron 1 of 47)	4812.0	NM_001290636	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	12.0	10.0	15.5	204.5	19.0	16.5	8.5	12.5
Merged-chr6-129275482-4	chr6	129275382	129275582	+	811.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033122)	promoter-TSS (NM_001033122)	-113.0	NM_001033122	12515.0	Mm.74745	NM_001033122	ENSMUSG00000030156	Cd69	5830438K24Rik|AI452015|AIM|VEA	CD69 antigen	protein-coding	23.0	33.5	8.0	98.5	36.5	14.0	13.5	6.0
Merged-chr6-113700923-2	chr6	113700823	113701023	+	979.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347356, intron 2 of 7)	intron (NM_001347356, intron 2 of 7)	3873.0	NM_001033463	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	8.0	8.0	5.5	59.5	14.5	6.5	10.0	5.5
Merged-chr8-70755194-4	chr8	70755087	70755287	+	958.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166399, intron 1 of 4)	CpG	508.0	NM_001166399	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	26.0	31.0	19.5	434.0	39.0	11.0	18.0	26.5
Merged-chr17-66519010-4	chr17	66518898	66519098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024448, intron 1 of 5)	intron (NM_024448, intron 1 of 5)	672.0	NM_024448	19328.0	Mm.248313	NM_024448	ENSMUSG00000023460	Rab12	2900054P15Rik|AW555448|C77700	RAB12, member RAS oncogene family	protein-coding	43.0	122.0	45.0	383.5	186.0	60.5	60.0	34.5
Merged-chr7-16401130-6	chr7	16401035	16401235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198631)	promoter-TSS (NM_198631)	-61.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	33.5	38.0	40.5	560.0	65.5	44.5	35.5	48.5
Merged-chr9-66895852-2	chr9	66895763	66895963	+	663.5	f0_balb.idr|f0_c57.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	23842.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	20.5	14.5	1.0	88.0	22.0	7.5	9.0	8.5
Merged-chr7-28170522-2	chr7	28170422	28170622	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007991, intron 1 of 8)	intron (NM_007991, intron 1 of 8)	774.0	NM_007991	14113.0	Mm.4595	NM_007991	ENSMUSG00000046865	Fbl	AL022665|FIB|FLRN|RNU3IP1	fibrillarin	protein-coding	8.5	8.0	1.5	34.0	14.5	7.5	7.5	8.0
Merged-chr5-35103283-4	chr5	35103179	35103379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013587, intron 1 of 7)	intron (NM_013587, intron 1 of 7)	2418.0	NM_013587	16976.0	Mm.277661	NM_013587	ENSMUSG00000029103	Lrpap1	AA617339|AI790446|AU042172|C77774|HBP44|RAP	low density lipoprotein receptor-related protein associated protein 1	protein-coding	59.0	95.0	49.0	837.0	162.0	37.0	83.5	51.5
Merged-chr19-4086514-4	chr19	4086407	4086607	+	879.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001160253, exon 5 of 6)	exon (NM_001160253, exon 5 of 6)	2988.0	NM_013878	29866.0	Mm.46268	NM_013878	ENSMUSG00000024857	Cabp2	-	calcium binding protein 2	protein-coding	1.0	22.5	8.5	105.0	28.0	12.0	17.5	7.0
Merged-chr16-19973654-4	chr16	19973540	19973740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	intron (NM_183390, intron 1 of 6)	9409.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	50.0	32.5	39.5	815.0	108.0	34.5	40.0	39.5
Merged-chr7-44467975-4	chr7	44467874	44468074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205070)	promoter-TSS (NM_001205070)	-6.0	NM_001360604	66124.0	Mm.358691	NM_025368	ENSMUSG00000038695	Josd2	1110007C05Rik	Josephin domain containing 2	protein-coding	148.0	225.0	110.5	2170.5	376.0	124.5	223.5	132.0
Merged-chr2-164911622-8	chr2	164911510	164911710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_199027, exon 1 of 28)	5' UTR (NM_199027, exon 1 of 28)	140.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	18.0	55.0	19.0	245.0	77.0	36.0	25.5	57.0
Merged-chr1-75317736-4	chr1	75317632	75317832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016878)	promoter-TSS (NM_016878)	-95.0	NM_001110831	13437.0	Mm.24680	NM_016878	ENSMUSG00000026209	Dnpep	AA407814	aspartyl aminopeptidase	protein-coding	455.5	717.5	467.5	6533.5	1016.0	464.0	538.0	419.5
Merged-chr8-125461770-4	chr8	125461674	125461874	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 10 of 21)	intron (NM_001357372, intron 10 of 21)	31059.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	15.5	32.0	20.0	497.5	52.5	21.0	45.0	33.5
Merged-chr19-6015422-6	chr19	6015410	6015610	+	787.896851	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007600)	promoter-TSS (NM_007600)	-263.0	NM_007600	12333.0	Mm.6221	NM_007600	ENSMUSG00000024942	Capn1	Capa-1|Capa1|mu-calpin	calpain 1	protein-coding	8.0	7.0	8.5	68.5	9.0	10.0	8.0	14.5
Merged-chr11-87025538-4	chr11	87025442	87025642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31780.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	67.5	109.0	33.5	386.0	125.5	62.5	31.5	41.0
Merged-chr3-57706267-3	chr3	57706164	57706364	+	709.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-13727.0	NM_001033349	242037.0	Mm.291091	NM_001033349	ENSMUSG00000074591	Ankub1	Gm410	ankrin repeat and ubiquitin domain containing 1	protein-coding	10.0	5.0	5.0	87.0	19.0	9.5	14.0	5.5
Merged-chr4-108339611-3	chr4	108339543	108339743	+	803.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027250, exon 3 of 3)	3' UTR (NM_027250, exon 3 of 3)	11491.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	10.0	22.0	5.5	172.5	16.0	6.0	9.5	5.0
Merged-chr5-64896775-4	chr5	64896671	64896871	+	772.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35928.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	12.0	16.0	6.0	187.0	27.5	5.5	17.0	14.0
Merged-chr9-66383546-4	chr9	66383442	66383642	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145617, intron 3 of 77)	T-rich|Low_complexity|Low_complexity	33092.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	38.0	30.0	16.5	348.5	64.5	22.5	10.0	17.5
Merged-chr11-17159205-4	chr11	17159102	17159302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024459)	promoter-TSS (NM_024459)	-96.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	229.0	318.5	284.5	4067.0	613.5	202.0	280.5	196.5
Merged-chr17-34143662-4	chr17	34143542	34143742	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1774.0	NM_010388	15000.0	Mm.195060	NM_010388	ENSMUSG00000037548	H2-DMb2	H-2Mb2|H2-Mb2	histocompatibility 2, class II, locus Mb2	protein-coding	15.5	39.0	12.5	216.5	58.5	21.5	17.0	17.0
Merged-chr2-102986574-4	chr2	102986479	102986679	+	908.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84914.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	23.5	26.5	10.0	160.5	43.5	15.0	13.5	17.0
Merged-chr1-37487159-4	chr1	37487072	37487272	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024017, exon 1 of 1)	non-coding (NR_024017, exon 1 of 1)	1433.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	25.0	15.5	24.5	232.5	52.0	13.5	17.5	24.5
Merged-chr6-121272087-4	chr6	121271910	121272110	+	898.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26104.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	4.5	7.5	7.0	60.5	26.5	9.0	10.5	7.0
Merged-chr13-58516512-4	chr13	58516409	58516609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	94368.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	73.0	111.5	68.5	1125.5	211.5	85.0	101.5	76.5
Merged-chr14-64792764-4	chr14	64792659	64792859	+	941.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 37 of 39)	MTC|LTR|ERVL-MaLR	140228.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	14.0	13.0	13.5	271.0	33.5	6.0	11.0	17.5
Merged-chr2-181659804-4	chr2	181659745	181659945	+	914.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11795.0	NM_009236	20672.0	Mm.264904	NM_009236	ENSMUSG00000046470	Sox18	AI385749|Ra|Ragl	SRY (sex determining region Y)-box 18	protein-coding	20.0	30.0	29.0	209.0	39.5	11.5	11.0	18.0
Merged-chr3-129437861-3	chr3	129437765	129437965	+	961.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4192.0	NR_033594	435755.0	Mm.430561	NR_033594	ENSMUSG00000105712	Pou5f1-rs4	EG435755|Gm5712|Oct4P1|Otf3-rs4|Otf3d	POU domain, class 5, transcription factor 1, related sequence 4	pseudo	8.5	6.0	11.5	148.5	17.5	1.5	4.0	5.5
Merged-chr6-51470959-4	chr6	51470782	51470982	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182650)	promoter-TSS (NM_182650)	266.0	NM_007624	12417.0	Mm.280968	NM_007624	ENSMUSG00000029836	Cbx3	HP1g|M32	chromobox 3	protein-coding	10.5	19.0	11.5	331.5	40.5	13.5	13.0	22.5
Merged-chr2-121448405-4	chr2	121448298	121448498	+	767.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011354)	promoter-TSS (NM_011354)	-800.0	NM_011354	378702.0	Mm.262252	NM_011354	ENSMUSG00000074884	Serf2	C80083|Msmac1l|m4F5rel	small EDRK-rich factor 2	protein-coding	12.0	16.5	8.0	95.5	21.0	6.0	9.5	16.5
Merged-chr11-30024769-5	chr11	30024697	30024897	+	758.776184	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_146016, exon 2 of 42)	5' UTR (NM_146016, exon 2 of 42)	1236.0	NM_146016	237711.0	Mm.445271	NM_146016	ENSMUSG00000044072	Eml6	2900083P10Rik|C230094A16Rik|EMAP-6	echinoderm microtubule associated protein like 6	protein-coding	10.0	10.5	6.0	87.5	15.0	9.0	4.5	8.5
Merged-chr2-163597907-2	chr2	163597807	163598007	+	977.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4407.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	0.5	6.5	6.0	17.0	10.0	4.5	7.5	13.0
Merged-chr19-11321313-4	chr19	11321215	11321415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001276398, exon 7 of 7)	3' UTR (NM_001276398, exon 7 of 7)	13380.0	NM_001276398	109225.0	Mm.491251	NM_027836	ENSMUSG00000024672	Ms4a7	9130422I10Rik|A430103C15Rik|CD20l4|CFFMA	membrane-spanning 4-domains, subfamily A, member 7	protein-coding	61.0	73.5	56.5	495.0	85.5	44.0	28.5	22.0
Merged-chr3-107333191-4	chr3	107333100	107333300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045807)	promoter-TSS (NM_001045807)	89.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	299.5	539.0	353.5	4663.5	799.0	278.0	341.0	285.0
Merged-chr8-105701611-4	chr8	105701504	105701704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348349)	promoter-TSS (NM_001348349)	-43.0	NM_001047435	56513.0	Mm.472753	NM_019695	ENSMUSG00000005699	Pard6a	0710008C04Rik|2610010A15Rik|PAR-6A|PAR6alpha|Par-6|Par6|Par6c|TAX40|Tip-40	par-6 family cell polarity regulator alpha	protein-coding	75.0	129.0	47.5	770.0	150.5	80.0	60.0	53.5
Merged-chr7-80905074-4	chr7	80905069	80905269	+	807.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291280)	promoter-TSS (NM_001291280)	-107.0	NM_001291280	68039.0	Mm.22246	NM_026523	ENSMUSG00000025723	Nmb	3110023K12Rik	neuromedin B	protein-coding	10.0	14.0	14.5	63.5	17.0	6.0	3.0	3.0
Merged-chr2-166730764-4	chr2	166730658	166730858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16926.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	22.0	55.5	28.0	625.5	118.0	34.0	50.5	22.5
Merged-chr3-51234626-4	chr3	51234514	51234714	+	855.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009834, intron 1 of 2)	intron (NM_009834, intron 1 of 2)	10167.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	18.5	19.5	3.0	135.0	42.0	8.0	8.5	10.5
Merged-chr17-71531694-3	chr17	71531597	71531797	+	765.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4840.0	NM_023294	67052.0	Mm.225956	NM_023294	ENSMUSG00000024056	Ndc80	2610020P18Rik|AV139730|HEC|HEC1|Kntc2	NDC80 kinetochore complex component	protein-coding	3.0	1.0	0.0	0.0	17.5	8.0	23.5	12.0
Merged-chr11-34047552-2	chr11	34047452	34047652	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 1 of 20)	intron (NM_010696, intron 1 of 20)	624.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	22.5	95.0	20.5	86.5	97.5	70.5	20.5	15.5
Merged-chr1-89524638-4	chr1	89524577	89524777	+	920.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	69866.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	34.5	16.5	11.0	325.0	31.0	9.5	13.5	13.5
Merged-chr1-72142104-4	chr1	72141994	72142194	+	754.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70213.0	NM_001005423	381269.0	Mm.422636	NM_001005423	ENSMUSG00000039395	Mreg	Gm974|Wdt2|dsu	melanoregulin	protein-coding	9.5	10.5	12.5	138.0	31.5	7.0	14.5	18.5
Merged-chr7-6937318-3	chr7	6937238	6937438	+	722.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360502, intron 5 of 7)	intron (NM_001360502, intron 5 of 7)	39324.0	NR_036631	116811.0	Mm.381671	NR_036631	ENSMUSG00000108043	Zim3	1700128I23Rik	zinc finger, imprinted 3	ncRNA	7.5	13.5	4.5	177.5	23.5	1.5	5.0	7.0
Merged-chr14-79481142-5	chr14	79481059	79481259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007920)	promoter-TSS (NM_007920)	-35.0	NM_007920	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	70.5	120.0	64.5	876.5	170.0	79.0	51.0	61.0
Merged-chr11-82780250-2	chr11	82780150	82780350	+	642.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291247)	promoter-TSS (NM_001291247)	792.0	NR_126068	100503272.0	Mm.486964	NR_126067	ENSMUSG00000085175	Gm11423	-	predicted gene 11423	ncRNA	6.5	9.5	9.5	31.5	12.0	3.5	0.5	5.0
Merged-chr6-99028067-3	chr6	99027959	99028159	+	879.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 4 of 17)	intron (NM_001197321, intron 4 of 17)	239.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	9.0	5.0	19.0	110.0	13.5	6.5	2.5	10.0
Merged-chr15-75085628-4	chr15	75085528	75085728	+	991.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	26309.0	NM_001357693	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	44.5	59.5	73.5	236.0	99.5	57.0	47.0	143.0
Merged-chr11-101969046-4	chr11	101968948	101969148	+	882.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2033.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	10.5	9.5	12.0	145.0	33.5	9.0	12.0	15.0
Merged-chr16-26041518-4	chr16	26041431	26041631	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173379, intron 1 of 14)	intron (NM_173379, intron 1 of 14)	64253.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	53.5	15.5	22.0	703.5	18.0	10.0	21.5	18.5
Merged-chr1-151615842-4	chr1	151615735	151615935	+	876.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	44462.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	10.0	22.5	13.0	104.5	44.0	16.5	13.5	7.0
Merged-chr3-137947733-4	chr3	137947653	137947853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	29198.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	57.5	103.0	66.5	960.0	153.0	52.0	72.0	34.0
Merged-chr17-32280709-4	chr17	32280602	32280802	+	868.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286630, intron 1 of 19)	intron (NM_001286630, intron 1 of 19)	3421.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	28.0	19.0	19.0	91.5	36.5	9.5	13.5	10.0
Merged-chr19-26853910-4	chr19	26853811	26854011	+	838.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30004.0	NR_045306	70942.0	Mm.411548	NR_045306	ENSMUSG00000093772	4931403E22Rik	-	RIKEN cDNA 4931403E22 gene	ncRNA	22.0	25.0	15.5	418.0	9.5	19.5	13.0	13.0
Merged-chr14-20695713-2	chr14	20695609	20695809	+	1000.0	f0_balb.idr|f0_c57.idr	TTS (NM_001168273)	TTS (NM_001168273)	741.0	NM_028428	73068.0	Mm.277552	NM_028428	ENSMUSG00000039357	Fut11	3110009G03Rik|AI317183	fucosyltransferase 11	protein-coding	46.5	52.5	30.0	517.0	112.5	27.0	39.5	36.0
Merged-chr4-47322591-4	chr4	47322513	47322713	+	834.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-30609.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	13.5	20.0	14.0	183.0	19.5	5.5	6.0	13.0
Merged-chr12-4151209-4	chr12	4151107	4151307	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 2 of 21)	intron (NM_001159537, intron 2 of 21)	17054.0	NM_138305	104111.0	Mm.489807	NM_138305	ENSMUSG00000020654	Adcy3	AC3|mKIAA0511	adenylate cyclase 3	protein-coding	29.5	8.5	41.5	822.5	24.5	3.0	11.5	24.0
Merged-chr11-89023605-3	chr11	89023503	89023703	+	991.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24200.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	4.0	5.5	5.0	116.0	39.5	19.0	14.0	23.5
Merged-chr16-57502434-4	chr16	57502317	57502517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-46825.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	210.0	372.5	257.5	3049.5	411.5	184.5	186.0	146.5
Merged-chr5-18009342-4	chr5	18009220	18009420	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	46750.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	12.5	17.5	11.0	264.5	44.5	21.5	21.5	27.0
Merged-chr11-59212504-4	chr11	59212413	59212613	+	854.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001130408, exon 5 of 5)	3' UTR (NM_001130408, exon 5 of 5)	4152.0	NM_024210	67862.0	Mm.358708	NM_024210	ENSMUSG00000020441	2310033P09Rik	Mmtag2	RIKEN cDNA 2310033P09 gene	protein-coding	9.0	17.0	11.5	102.0	23.0	4.5	11.5	10.5
Merged-chr9-57158277-4	chr9	57158186	57158386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025417)	promoter-TSS (NM_025417)	13.0	NM_025417	66199.0	Mm.41687	NM_025417	ENSMUSG00000032299	Commd4	1110039H05Rik	COMM domain containing 4	protein-coding	52.5	59.0	37.0	561.5	92.5	24.5	41.0	51.5
Merged-chr17-71143455-4	chr17	71143315	71143515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-40117.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	23.5	26.5	39.0	610.0	60.0	23.0	31.0	24.0
Merged-chr6-38892251-4	chr6	38892148	38892348	+	960.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16058.0	NM_001294143	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	25.0	18.0	26.5	519.0	27.5	17.0	23.0	28.0
Merged-chr10-24490682-4	chr10	24490576	24490776	+	959.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104766.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	12.0	6.0	7.0	177.0	34.0	24.0	17.5	20.0
Merged-chr11-19021150-1	chr11	19021050	19021250	+	748.0	f0_balb.idr	Intergenic	Intergenic	-2181.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	8.5	10.0	9.0	117.5	8.0	2.5	7.5	12.0
Merged-chr10-127070825-2	chr10	127070725	127070925	+	688.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025982)	promoter-TSS (NM_025982)	344.0	NR_040660	100504703.0	Mm.387029	NR_040660	ENSMUSG00000112639	A730063M14Rik	-	RIKEN cDNA A730063M14 gene	ncRNA	9.0	7.0	4.0	43.0	7.0	9.0	6.5	13.0
Merged-chr13-94322646-4	chr13	94322526	94322726	+	966.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	36297.0	NR_045619	328309.0	Mm.174191	NM_183205	ENSMUSG00000042857	Gm9776	A530089L17	predicted gene 9776	ncRNA	35.0	49.5	26.0	902.0	31.5	13.5	25.5	34.0
Merged-chr16-48832232-4	chr16	48832140	48832340	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10312.0	NM_020509	57262.0	Mm.441868	NM_020509	ENSMUSG00000061100	Retnla	1810019L16Rik|Fizz-1|Fizz1|HIMF|RELM-alpha|RELMa|RELMalpha|Xcp2	resistin like alpha	protein-coding	17.5	19.0	14.5	488.5	40.0	9.0	18.0	8.5
Merged-chr13-73604326-2	chr13	73604226	73604426	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_146047, exon 1 of 17)	exon (NM_146047, exon 1 of 17)	324.0	NM_146047	218335.0	Mm.30099	NM_146047	ENSMUSG00000021610	Clptm1l	C130052I12Rik|Crr9	CLPTM1-like	protein-coding	11.0	13.0	23.5	160.0	25.5	9.5	10.5	9.5
Merged-chr11-69685404-4	chr11	69685288	69685488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011614)	TTS (NM_011614)	166.0	NM_001159505	69583.0	Mm.8983	NM_023517	ENSMUSG00000089669	Tnfsf13	2310026N09Rik|April|Tall2|Tnlg7b|Trdl1	tumor necrosis factor (ligand) superfamily, member 13	protein-coding	39.0	55.5	34.0	644.5	95.0	25.5	38.0	50.0
Merged-chr6-29241893-4	chr6	29241783	29241983	+	831.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER119|DNA|hAT-Charlie	-25519.0	NM_001302934	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	22.5	16.5	4.5	166.0	19.5	15.0	14.0	10.5
Merged-chr7-27493249-4	chr7	27493164	27493364	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6060.0	NM_198048	19153.0	Mm.10119	NM_019412	ENSMUSG00000053198	Prx	L-Periaxin	periaxin	protein-coding	9.5	6.5	12.5	97.5	20.0	10.5	5.0	13.0
Merged-chr1-163779584-4	chr1	163779490	163779690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010629)	promoter-TSS (NM_010629)	7.0	NM_010629	16579.0	Mm.4651	NM_010629	ENSMUSG00000026585	Kifap3	KAP-3|KAP3|SMAP	kinesin-associated protein 3	protein-coding	380.0	638.5	429.0	8315.5	1010.5	415.0	622.5	482.0
Merged-chr12-46857028-3	chr12	46856936	46857136	+	740.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-38261.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	5.0	6.0	11.5	145.5	13.0	1.5	9.0	1.0
Merged-chr2-14340578-4	chr2	14340511	14340711	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47787.0	NM_001012305	277468.0	Mm.44662	NM_001012305	ENSMUSG00000036949	Slc39a12	AW046938|Gm731	solute carrier family 39 (zinc transporter), member 12	protein-coding	56.0	75.5	56.0	1144.0	29.5	16.5	27.0	30.0
Merged-chr3-15203020-3	chr3	15202917	15203117	+	944.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129285.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	14.5	10.5	11.0	153.5	9.5	7.0	7.5	5.0
Merged-chr3-87529770-4	chr3	87529687	87529887	+	820.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359750, intron 4 of 4)	intron (NM_001359750, intron 4 of 4)	4209.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	19.0	32.5	19.0	219.0	21.0	10.0	2.0	11.0
Merged-chr14-17873825-3	chr14	17873725	17873925	+	797.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-107819.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	6.0	8.5	19.5	232.0	16.5	7.5	19.5	8.5
Merged-chr6-115375525-4	chr6	115375409	115375609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 1 of 7)	intron (NM_001308354, intron 1 of 7)	13160.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	39.5	38.5	42.0	602.0	105.0	30.5	37.5	44.5
Merged-chr1-139424125-3	chr1	139424020	139424220	+	828.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172643, exon 2 of 11)	exon (NM_172643, exon 2 of 11)	1737.0	NM_172643	226470.0	Mm.119711	NM_172643	ENSMUSG00000033964	Zbtb41	8430415N23Rik|9430031N01|9830132G07Rik|AI316857	zinc finger and BTB domain containing 41	protein-coding	1.5	6.5	6.5	68.5	25.5	9.0	13.0	9.5
Merged-chr3-51182711-4	chr3	51182622	51182822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41725.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	25.0	42.5	25.5	616.0	96.0	18.5	50.0	43.5
Merged-chr12-98271225-5	chr12	98271127	98271327	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008152, intron 1 of 1)	Lx2B2|LINE|L1	2592.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	18.5	23.5	15.0	229.5	49.5	16.0	31.5	22.0
Merged-chr5-142815500-4	chr5	142815395	142815595	+	829.145874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178242, intron 1 of 15)	CpG-11746	1892.0	NM_178242	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	7.0	11.0	7.0	141.5	31.0	12.0	10.0	15.0
Merged-chr12-81675768-3	chr12	81675673	81675873	+	879.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	44524.0	NM_001033149	69480.0	Mm.130002	NM_001033149	ENSMUSG00000042734	Ttc9	-	tetratricopeptide repeat domain 9	protein-coding	15.0	12.0	5.5	201.5	17.0	11.5	3.0	11.5
Merged-chr18-34777542-6	chr18	34777471	34777671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081256, intron 1 of 23)	CpG	563.0	NM_001081256	277250.0	Mm.277906	NM_029518	ENSMUSG00000038773	Kdm3b	5830462I21Rik|JHDM2B|Jmjd1b|mKIAA1082	KDM3B lysine (K)-specific demethylase 3B	protein-coding	22.0	35.5	29.0	335.0	76.5	25.5	39.0	30.0
Merged-chr3-108442519-3	chr3	108442428	108442628	+	807.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011319, intron 1 of 11)	PB1D11|SINE|Alu	2731.0	NM_011319	20226.0	Mm.28688	NM_011319	ENSMUSG00000068739	Sars	Sars1|Strs|serRS	seryl-aminoacyl-tRNA synthetase	protein-coding	8.5	9.0	11.0	171.5	6.5	0.5	0.5	5.0
Merged-chr5-125381689-2	chr5	125381589	125381789	+	847.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8328.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	8.5	33.0	5.0	8.5	22.5	13.0	2.0	5.0
Merged-chr4-74311306-3	chr4	74311200	74311400	+	801.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 5 of 20)	intron (NM_001356561, intron 5 of 20)	59421.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	4.5	14.5	8.0	164.0	22.5	6.0	22.5	5.0
Merged-chr16-64907654-4	chr16	64907482	64907682	+	920.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55581.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	5.5	7.5	5.0	157.0	25.5	6.5	11.5	11.5
Merged-chr11-87662572-4	chr11	87662476	87662676	+	946.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172448)	promoter-TSS (NM_172448)	-511.0	NM_172448	207742.0	Mm.440230	NM_172448	ENSMUSG00000034177	Rnf43	4732452J19Rik	ring finger protein 43	protein-coding	7.0	28.5	6.5	252.5	32.5	7.5	19.0	11.0
Merged-chr9-41102321-4	chr9	41102243	41102443	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	B1F|SINE|Alu	-22837.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	12.0	15.5	17.5	393.5	45.5	12.0	19.0	6.0
Merged-chr5-150599682-4	chr5	150599587	150599787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001362416)	TTS (NM_001362416)	-5162.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	42.0	41.0	54.0	388.5	92.5	33.0	36.5	35.5
Merged-chr7-99268407-2	chr7	99268307	99268507	+	701.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001043355)	promoter-TSS (NM_001043355)	61.0	NM_001043355	17760.0	Mm.154087	NM_010837	ENSMUSG00000055407	Map6	2810411E12Rik|Map-6|Mtap6|STOP	microtubule-associated protein 6	protein-coding	1.0	4.0	8.0	59.5	28.0	6.5	7.5	5.5
Merged-chr13-20311792-4	chr13	20311689	20311889	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 13 of 21)	intron (NM_080288, intron 13 of 21)	-161201.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	15.0	15.0	12.5	170.5	24.5	6.5	14.0	12.0
Merged-chr18-4918524-4	chr18	4918419	4918619	+	827.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	106033.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	16.0	7.5	14.5	353.5	21.0	12.0	20.0	5.5
Merged-chr10-121476425-4	chr10	121476330	121476530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138956)	promoter-TSS (NM_138956)	-180.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	237.0	303.0	255.5	2721.0	449.5	187.5	209.0	161.5
Merged-chr1-64534108-4	chr1	64534011	64534211	+	849.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037726, intron 1 of 6)	intron (NM_001037726, intron 1 of 6)	1307.0	NM_001037726	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	11.0	14.5	6.5	152.0	44.0	15.5	14.0	8.0
Merged-chr4-132529483-4	chr4	132529409	132529609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5905.0	NM_007512	11983.0	Mm.2171	NM_007512	ENSMUSG00000054428	Atpif1	Atpi|IF(1)|If1	ATPase inhibitory factor 1	protein-coding	37.0	70.5	75.0	572.0	126.0	52.5	39.5	36.5
Merged-chr7-111083165-4	chr7	111083071	111083271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040131)	promoter-TSS (NM_001040131)	-141.0	NM_013507	13690.0	Mm.185453	NM_013507	ENSMUSG00000005610	Eif4g2	DAP-5|E130105L11Rik|Nat1|Natm1|p97	eukaryotic translation initiation factor 4, gamma 2	protein-coding	277.5	389.0	269.5	3897.5	658.5	268.0	299.5	295.0
Merged-chr18-82635679-4	chr18	82635587	82635787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177832, intron 13 of 29)	RLTR22_Mur|LTR|ERVK	57047.0	NM_177832	329002.0	Mm.34438	NM_177832	ENSMUSG00000041258	Zfp236	AI447957|Gm335	zinc finger protein 236	protein-coding	36.0	41.5	36.0	581.0	72.5	25.5	18.0	32.0
Merged-chr16-10965154-4	chr16	10965048	10965248	+	923.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 2 of 3)	intron (NM_019980, intron 2 of 3)	27973.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	13.0	17.5	14.5	257.0	39.0	14.0	14.0	11.0
Merged-chr1-177442682-2	chr1	177442582	177442782	+	805.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355099, intron 1 of 1)	CpG	331.0	NM_001355100	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	4.5	6.0	10.0	96.0	16.0	6.5	11.0	7.0
Merged-chr13-3769598-1	chr13	3769498	3769698	+	742.5	f0_balb.idr	Intergenic	Intergenic	34720.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	9.5	6.5	4.5	133.5	6.0	2.0	5.0	1.0
Merged-chr13-112416644-4	chr13	112416565	112416765	+	690.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47405.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	9.0	8.0	9.5	126.0	18.5	6.0	5.5	7.5
Merged-chr9-96363794-4	chr9	96363677	96363877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357213)	promoter-TSS (NM_001357213)	-62.0	NM_001357213	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	82.5	174.0	98.5	1531.5	242.0	116.5	116.0	99.0
Merged-chr11-97022025-4	chr11	97021974	97022174	+	863.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_133649, exon 1 of 2)	non-coding (NR_133649, exon 1 of 2)	4344.0	NR_133649	100127433.0	Mm.156282	NR_133649	ENSMUSG00000087067	Gm11532	Sp6os	predicted gene 11532	ncRNA	11.5	10.5	8.5	116.5	16.0	10.5	8.0	6.5
Merged-chr11-110430803-4	chr11	110430714	110430914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	31712.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	54.0	102.0	47.0	628.5	193.5	69.5	68.5	69.0
Merged-chr6-29781961-4	chr6	29781867	29782067	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	intron (NM_001171000, intron 1 of 16)	13524.0	NM_001171000	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	13.0	32.0	19.0	368.5	64.5	21.0	12.0	25.0
Merged-chr7-62464499-4	chr7	62464398	62464598	+	900.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013788)	promoter-TSS (NM_013788)	12.0	NM_013788	27412.0	Mm.422745	NM_013788	ENSMUSG00000070526	Peg12	Frat3	paternally expressed 12	protein-coding	75.5	100.5	113.0	1264.0	24.5	10.0	17.0	11.5
Merged-chr16-20622533-4	chr16	20622421	20622621	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177940, intron 2 of 18)	intron (NM_177940, intron 2 of 18)	-1243.0	NM_028420	73047.0	Mm.425977	NM_028420	ENSMUSG00000051146	Camk2n2	2900075A18Rik	calcium/calmodulin-dependent protein kinase II inhibitor 2	protein-coding	18.5	31.0	21.5	498.5	63.0	12.0	28.0	25.5
Merged-chr4-59199552-4	chr4	59199466	59199666	+	809.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011673, intron 1 of 8)	intron (NM_011673, intron 1 of 8)	10016.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	9.5	20.0	9.5	141.0	33.5	12.0	19.0	7.5
Merged-chr4-132639004-4	chr4	132638921	132639121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_211357)	promoter-TSS (NM_211357)	-25.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	58.0	106.0	56.5	927.0	204.5	71.5	88.5	72.0
Merged-chr10-13948383-1	chr10	13948283	13948483	+	588.5	f0_balb.idr	Intergenic	Intergenic	-17692.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	4.0	9.5	6.0	71.5	20.5	5.0	5.0	5.5
Merged-chr8-90824483-3	chr8	90824399	90824599	+	781.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4336.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	9.5	6.5	3.0	109.0	9.5	7.0	6.5	10.5
Merged-chr13-113869438-4	chr13	113869327	113869527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	74919.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	40.0	68.0	53.0	1057.5	96.0	31.5	66.5	44.5
Merged-chr11-4261311-4	chr11	4261218	4261418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008501, intron 1 of 3)	intron (NM_008501, intron 1 of 3)	3750.0	NM_008501	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	28.5	40.0	26.5	412.5	44.0	17.0	38.0	19.5
Merged-chr10-21636872-4	chr10	21636772	21636972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43727.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	35.5	50.0	52.5	722.5	86.0	36.5	41.0	41.0
Merged-chr11-78984964-4	chr11	78984859	78985059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159301)	promoter-TSS (NM_001159301)	-35.0	NM_010708	16859.0	Mm.341434	NM_010708	ENSMUSG00000001123	Lgals9	AA407335|AI194909|AI265545|LGALS35|Lgals5|gal-9|galectin-9	lectin, galactose binding, soluble 9	protein-coding	98.0	174.5	113.0	1950.5	286.5	114.0	110.5	89.0
Merged-chr4-132380958-4	chr4	132380852	132381052	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161797, intron 3 of 12)	intron (NM_001161797, intron 3 of 12)	-27266.0	NR_003270	399101.0	Mm.486919	NR_002904	ENSMUSG00000085241	Snhg3	Rnu17d|U17HG	small nucleolar RNA host gene 3	ncRNA	7.5	20.5	8.5	132.5	30.5	11.5	16.5	26.0
Merged-chr10-94545682-4	chr10	94545586	94545786	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	intron (NM_172051, intron 1 of 3)	-5186.0	NM_001359761	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	24.5	21.0	11.0	218.0	54.5	9.0	9.0	18.0
Merged-chr13-17805365-4	chr13	17805274	17805474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081058)	promoter-TSS (NM_001081058)	-277.0	NM_027118	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	324.0	531.0	418.5	5326.0	739.0	325.5	417.5	342.0
Merged-chr17-81380076-3	chr17	81379985	81380185	+	809.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104580, exon 9 of 9)	non-coding (NR_104580, exon 9 of 9)	-315000.0	NM_028138	72167.0	Mm.273257	NM_028138	ENSMUSG00000024246	Thumpd2	2810025A12Rik	THUMP domain containing 2	protein-coding	3.5	12.0	9.5	111.0	12.5	6.5	5.5	7.0
Merged-chr6-52842763-4	chr6	52842661	52842861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 2 of 4)	MTC|LTR|ERVL-MaLR	66859.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	68.5	87.5	59.0	1561.5	128.0	69.5	80.5	63.0
Merged-chr12-33429537-4	chr12	33429429	33429629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172253)	promoter-TSS (NM_172253)	-95.0	NM_172253	28071.0	Mm.196472	NM_172253	ENSMUSG00000020561	Twistnb	2410173G11|2810024J17Rik|D16Wsu83e	twist basic helix-loop-helix transcription factor 1 neighbor	protein-coding	80.5	140.0	83.5	1077.0	206.0	88.5	72.5	81.0
Merged-chr13-34064079-4	chr13	34063902	34064102	+	854.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026512, exon 6 of 7)	exon (NM_026512, exon 6 of 7)	14006.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	7.5	7.0	8.5	106.5	22.0	12.5	6.0	7.5
Merged-chr13-60628029-4	chr13	60627912	60628112	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	25801.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	43.5	53.5	98.5	1118.0	66.0	17.5	40.0	20.0
Merged-chr4_GL456216_random-13910-1	chr4_GL456216_random	13810	14010	+	1000.0	f0_c57.idr	Intergenic	RLTR9E|LTR|ERVK	-1971.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	206.5	58.5	102.0	58.0
Merged-chr17-13146463-3	chr17	13146370	13146570	+	886.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER12B|LTR|ERVK	-14679.0	NM_199252	381058.0	Mm.390935	NM_199252	ENSMUSG00000067049	Unc93a	Unc93l|unc-93A	unc-93 homolog A (C. elegans)	protein-coding	12.5	14.0	13.5	17.5	27.0	7.5	3.5	4.5
Merged-chr4-85005776-4	chr4	85005683	85005883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175275, intron 11 of 25)	intron (NM_175275, intron 11 of 25)	121474.0	NM_177385	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	27.0	26.0	36.0	612.5	55.5	21.5	40.5	39.0
Merged-chr1-51476572-4	chr1	51476497	51476697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028696, intron 2 of 5)	intron (NM_028696, intron 2 of 5)	1802.0	NM_001310548	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	39.0	69.5	18.0	506.0	110.5	23.0	31.5	23.5
Merged-chr2-167483304-4	chr2	167483222	167483422	+	883.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_170756, exon 3 of 3)	3' UTR (NM_170756, exon 3 of 3)	-9323.0	NM_030743	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	18.5	19.5	9.5	251.5	51.5	12.5	15.5	9.5
Merged-chr16-48865196-4	chr16	48865074	48865274	+	954.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7434.0	NM_181596	245195.0	Mm.231288	NM_181596	ENSMUSG00000022651	Retnlg	Fizz3|Relmg|Xcp1	resistin like gamma	protein-coding	21.0	20.0	25.0	390.0	26.0	5.0	37.5	20.0
Merged-chr2-11496886-4	chr2	11496778	11496978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	MTEb|LTR|ERVL-MaLR	5212.0	NM_001177754	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	65.0	154.5	172.0	2074.5	275.5	48.5	119.0	120.5
Merged-chr1-165679829-3	chr1	165679681	165679881	+	786.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	28313.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	10.0	19.0	9.0	39.5	17.0	6.5	1.0	3.0
Merged-chr4-46507446-4	chr4	46507321	46507521	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029077, exon 6 of 6)	exon (NM_029077, exon 6 of 6)	18092.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	62.5	56.0	45.0	492.5	58.5	26.5	18.0	27.0
Merged-chr4-135972631-4	chr4	135972532	135972732	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011942)	promoter-TSS (NM_011942)	-38.0	NM_011942	26394.0	Mm.34302	NM_011942	ENSMUSG00000028670	Lypla2	LysoII	lysophospholipase 2	protein-coding	11.5	28.5	17.5	183.5	46.0	11.5	18.5	7.5
Merged-chr10-67189160-3	chr10	67189072	67189272	+	694.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242396, intron 1 of 24)	intron (NM_001242396, intron 1 of 24)	3422.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	9.5	16.0	4.0	81.5	21.0	6.0	7.0	8.5
Merged-chr17-5770458-4	chr17	5770339	5770539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28218.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	60.5	40.0	66.5	753.5	78.0	26.5	56.5	41.0
Merged-chr12-54655628-4	chr12	54655522	54655722	+	945.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134054, intron 1 of 1)	intron (NM_134054, intron 1 of 1)	950.0	NM_134054	104725.0	Mm.485026	NM_134054	ENSMUSG00000044408	Sptssa	1110002B05Rik|AA407909|AA409588|AU041967|Ssspta	serine palmitoyltransferase, small subunit A	protein-coding	28.0	36.0	30.5	556.0	27.0	17.0	14.5	25.0
Merged-chr5-137830393-4	chr5	137830284	137830484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153510, intron 3 of 6)	intron (NM_153510, intron 3 of 6)	5894.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	36.0	38.0	30.5	603.5	58.5	20.0	20.0	29.0
Merged-chr8-85513415-4	chr8	85513289	85513489	+	920.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 6 of 11)	MER5A|DNA|hAT-Charlie	20772.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	9.5	11.0	38.5	316.5	5.0	3.0	15.0	11.5
Merged-chr17-26512598-4	chr17	26512478	26512678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4106.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	33.5	34.5	30.5	419.0	42.0	15.0	30.5	31.0
Merged-chr11-69689830-4	chr11	69689758	69689958	+	867.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011614, intron 5 of 6)	intron (NM_011614, intron 5 of 6)	-4304.0	NM_023517	69583.0	Mm.8983	NM_023517	ENSMUSG00000089669	Tnfsf13	2310026N09Rik|April|Tall2|Tnlg7b|Trdl1	tumor necrosis factor (ligand) superfamily, member 13	protein-coding	7.0	6.5	23.0	119.5	8.5	2.5	5.0	7.5
Merged-chr12-8482337-2	chr12	8482237	8482437	+	614.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17672.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	10.0	6.5	7.5	22.0	5.0	1.0	6.5	4.0
Merged-chr2-112268055-4	chr2	112267921	112268121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133649, intron 1 of 24)	intron (NM_133649, intron 1 of 24)	1707.0	NM_133649	107723.0	Mm.491155	NM_133648	ENSMUSG00000027130	Slc12a6	9530023I19Rik|KCC3|gaxp	solute carrier family 12, member 6	protein-coding	42.5	60.0	45.5	968.5	79.0	24.0	23.5	35.5
Merged-chr19-10709564-4	chr19	10709480	10709680	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361959, intron 2 of 3)	intron (NM_001361959, intron 2 of 3)	8812.0	NM_001361964	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	21.5	25.0	18.5	194.5	31.0	8.5	14.0	15.5
Merged-chr10-99081746-4	chr10	99081630	99081830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25352.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	100.5	193.0	110.0	932.0	344.0	128.0	106.0	106.0
Merged-chr5-120516273-4	chr5	120516180	120516380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	intron (NM_001177595, intron 2 of 13)	5088.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	105.0	200.0	131.5	1950.0	316.0	113.0	189.0	114.5
Merged-chr18-70568245-4	chr18	70568169	70568369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311071)	promoter-TSS (NM_001311071)	-23.0	NM_001311071	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	116.0	191.5	117.0	1862.5	377.5	144.5	243.5	124.5
Merged-chr19-56724608-4	chr19	56724482	56724682	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007419, exon 1 of 1)	3' UTR (NM_007419, exon 1 of 1)	2210.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	27.0	24.0	45.5	393.0	26.0	18.0	29.5	32.5
Merged-chr19-18617631-4	chr19	18617504	18617704	+	903.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	MIRb|SINE|MIR	14209.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	13.0	19.5	31.5	136.5	20.0	8.5	10.5	11.5
Merged-chr15-81045544-4	chr15	81045434	81045634	+	959.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	59513.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	41.5	30.5	39.0	555.5	70.5	10.0	27.5	22.0
Merged-chr9-124090663-4	chr9	124090565	124090765	+	839.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11518.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	12.0	24.5	12.5	166.5	32.0	20.0	17.5	12.5
Merged-chr9-103234229-4	chr9	103234128	103234328	+	758.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3942.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	8.5	12.5	10.0	149.0	19.0	4.5	13.0	6.0
Merged-chr15-58732197-4	chr15	58732103	58732303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	91224.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	28.5	36.0	41.0	644.5	70.5	24.5	27.5	21.5
Merged-chr6-143751412-4	chr6	143751298	143751498	+	774.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100110.0	NR_045732	73425.0	Mm.417844	NR_045732	ENSMUSG00000086887	1700060C16Rik	-	RIKEN cDNA 1700060C16 gene	ncRNA	10.5	15.0	10.0	260.5	27.5	2.5	7.0	14.5
Merged-chr19-36792791-4	chr19	36792691	36792891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41441.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	19.5	24.0	21.5	253.5	60.0	21.5	39.5	31.0
Merged-chr12-85385045-3	chr12	85384943	85385143	+	826.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10326.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	9.5	9.5	10.5	95.5	16.5	5.0	5.0	4.5
Merged-chr4-9643720-4	chr4	9643616	9643816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177852)	promoter-TSS (NM_001177852)	1.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	62.0	54.5	47.0	963.5	144.5	21.0	74.0	64.0
Merged-chr13-92610056-4	chr13	92609888	92610088	+	822.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1150.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	8.0	10.0	8.5	138.5	8.5	2.0	7.0	7.5
Merged-chr5-124476587-4	chr5	124476472	124476672	+	779.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 1 of 3)	intron (NM_030259, intron 1 of 3)	1663.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	7.0	3.5	5.5	102.5	18.0	6.0	13.0	11.0
Merged-chr1-144243639-4	chr1	144243507	144243707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5497.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	32.5	49.0	47.5	459.0	58.5	31.0	32.0	37.0
Merged-chr2-163516650-4	chr2	163516536	163516736	+	917.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312906, intron 1 of 10)	intron (NM_001312906, intron 1 of 10)	9779.0	NM_001312907	15378.0	Mm.202383	NM_008261	ENSMUSG00000017950	Hnf4a	HNF-4|Hnf4|Hnf4alpha|MODY1|Nr2a1|TCF-14|Tcf14	hepatic nuclear factor 4, alpha	protein-coding	21.5	27.0	13.5	216.0	33.0	9.5	11.0	20.0
Merged-chr2-153092864-4	chr2	153092762	153092962	+	921.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15606.0	NM_001172117	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	13.5	22.5	30.5	265.0	36.0	33.0	22.5	22.5
Merged-chr9-82974331-4	chr9	82974244	82974444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081216, intron 4 of 39)	(CCG)n|Simple_repeat|Simple_repeat	1145.0	NM_001081216	83946.0	Mm.221688	NM_031879	ENSMUSG00000032253	Phip	2810004D21Rik|4632404O06Rik|Ndrp|Wdr11	pleckstrin homology domain interacting protein	protein-coding	91.5	103.5	68.0	1367.0	237.0	81.0	114.5	93.5
Merged-chr1-144320214-4	chr1	144320125	144320325	+	956.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71121.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	14.5	9.5	9.5	429.5	42.0	3.0	16.0	19.0
Merged-chr2-164414809-4	chr2	164414705	164414905	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009036, exon 12 of 12)	3' UTR (NM_009036, exon 12 of 12)	-9645.0	NM_001252563	17183.0	Mm.29428	NM_013592	ENSMUSG00000016995	Matn4	matrilin-4	matrilin 4	protein-coding	34.0	57.5	20.5	561.0	11.0	11.5	8.5	13.5
Merged-chr5-101990493-3	chr5	101990392	101990592	+	757.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	79429.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	4.5	6.5	8.0	140.5	15.5	3.5	6.0	8.0
Merged-chr14-26580262-3	chr14	26580161	26580361	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145969, intron 1 of 17)	intron (NM_145969, intron 1 of 17)	711.0	NM_145969	211922.0	Mm.260512	NM_145969	ENSMUSG00000040818	Dennd6a	Fam116a	DENN/MADD domain containing 6A	protein-coding	38.0	67.0	77.0	935.5	100.0	30.5	47.5	28.0
Merged-chr11-70334697-2	chr11	70334597	70334797	+	784.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12167.0	NM_145684	11685.0	Mm.274093	NM_145684	ENSMUSG00000018907	Alox12e	12-LOX|8-LOX|AW259591|Alox12-ps1|Alox12-ps2|Aloxe|e-LOX1	arachidonate lipoxygenase, epidermal	protein-coding	2.0	4.5	0.0	25.0	14.0	9.5	11.0	9.0
Merged-chr6-87849895-4	chr6	87849814	87850014	+	837.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355195, intron 1 of 4)	intron (NM_001355195, intron 1 of 4)	1192.0	NM_001109745	12785.0	Mm.290251	NM_013493	ENSMUSG00000030057	Cnbp	AA408710|Cnbp1|Znf9	cellular nucleic acid binding protein	protein-coding	5.5	6.5	12.5	241.5	26.0	8.5	8.5	10.0
Merged-chr2-116977991-4	chr2	116977876	116978076	+	898.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77824.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	7.5	17.5	15.0	115.0	27.0	18.5	16.0	11.0
Merged-chr1-7113085-4	chr1	7112985	7113185	+	973.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183028, intron 1 of 5)	intron (NM_183028, intron 1 of 5)	24165.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	14.5	16.0	20.5	357.0	20.5	9.0	19.5	24.5
Merged-chr2-150669826-4	chr2	150669735	150669935	+	925.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040331)	TTS (NR_040331)	-1595.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	14.5	17.5	11.5	342.0	27.0	7.5	11.5	15.5
Merged-chr6-50545683-7	chr6	50545595	50545795	+	986.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20779.0	NM_007808	13063.0	Mm.35389	NM_007808	ENSMUSG00000063694	Cycs	-	cytochrome c, somatic	protein-coding	16.0	20.0	20.5	252.5	40.0	17.5	15.5	15.0
Merged-chr10-88621533-4	chr10	88621433	88621633	+	854.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16381.0	NM_175418	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	2.5	20.0	3.5	149.5	33.0	5.0	10.0	22.0
Merged-chr6-37258755-3	chr6	37258660	37258860	+	973.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	41216.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	38.5	14.0	17.5	358.5	5.0	5.5	6.5	0.0
Merged-chr2-155751502-4	chr2	155751314	155751514	+	927.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011171, exon 1 of 4)	exon (NM_011171, exon 1 of 4)	197.0	NM_011171	19124.0	Mm.3243	NM_011171	ENSMUSG00000027611	Procr	AI325044|Ccca|Ccd41|Epcr	protein C receptor, endothelial	protein-coding	8.5	15.0	8.5	109.5	30.5	12.0	5.5	9.5
Merged-chr7-80064463-4	chr7	80064359	80064559	+	972.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045695, intron 2 of 2)	intron (NR_045695, intron 2 of 2)	10798.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	27.0	43.0	29.0	306.5	33.5	12.0	14.5	15.5
Merged-chr16-91648261-4	chr16	91648133	91648333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019973, intron 1 of 4)	CpG-5863	409.0	NM_178880	20658.0	Mm.46401	NM_019973	ENSMUSG00000022961	Son	2900011L12Rik|AA409051|AU067731|C81487|mKIAA1019|nrebp	Son DNA binding protein	protein-coding	17.0	39.5	30.5	220.5	45.0	22.0	16.5	39.5
Merged-chr4-26444008-1	chr4	26443908	26444108	+	606.5	f0_balb.idr	Intergenic	RMER4B|LTR|ERVK	-97356.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	5.0	9.5	7.0	86.5	13.0	0.0	4.5	0.5
Merged-chr4-34730175-4	chr4	34730075	34730275	+	947.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027041)	promoter-TSS (NM_027041)	31.0	NM_027041	69329.0	Mm.389548	NM_027041	ENSMUSG00000028294	Cfap206	1700003M02Rik|AU024269	cilia and flagella associated protein 206	protein-coding	11.5	18.5	20.5	247.0	34.0	10.5	15.5	21.5
Merged-chr19-6976244-4	chr19	6976154	6976354	+	879.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008889, intron 1 of 3)	intron (NM_008889, intron 1 of 3)	1206.0	NM_008889	18938.0	Mm.140	NM_008889	ENSMUSG00000056612	Ppp1r14b	AOM172|PHI-1|PLCB3N|Png	protein phosphatase 1, regulatory (inhibitor) subunit 14B	protein-coding	11.5	9.5	6.0	107.0	32.0	10.0	7.0	11.0
Merged-chr3-8736177-4	chr3	8736093	8736293	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69155.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	29.5	49.5	40.0	606.5	82.0	35.5	52.0	18.0
Merged-chr2-21676807-4	chr2	21676700	21676900	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004761, intron 5 of 10)	intron (NM_001004761, intron 5 of 10)	309233.0	NM_001004761	241263.0	Mm.166647	NM_175706	ENSMUSG00000045967	Gpr158	5330427M13Rik|mKIAA1136	G protein-coupled receptor 158	protein-coding	3.0	9.0	12.5	174.0	32.0	5.5	13.0	9.0
Merged-chr12-76804086-2	chr12	76803986	76804186	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347406, intron 2 of 6)	intron (NM_001347406, intron 2 of 6)	-8532.0	NM_030677	14776.0	Mm.441856	NM_030677	ENSMUSG00000042808	Gpx2	GI-GPx|GPx-GI|GSHPx-2|GSHPx-GI	glutathione peroxidase 2	protein-coding	10.5	4.5	8.0	28.0	14.0	3.5	4.0	4.5
Merged-chr14-21076027-4	chr14	21075926	21076126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243041)	promoter-TSS (NM_001243041)	-126.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	262.0	393.0	256.0	4137.5	478.5	180.0	253.0	207.0
Merged-chr6-85325284-4	chr6	85325193	85325393	+	854.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178639, intron 1 of 13)	intron (NM_178639, intron 1 of 13)	8129.0	NM_178639	94282.0	Mm.121485	NM_178639	ENSMUSG00000033720	Sfxn5	C230001H08Rik	sideroflexin 5	protein-coding	18.0	12.5	9.0	124.0	32.0	13.5	9.5	12.0
Merged-chr13-76410833-1	chr13	76410733	76410933	+	717.5	f0_balb.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	25872.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	8.0	6.0	8.5	139.0	0.0	0.0	3.5	2.0
Merged-chr13-33931799-4	chr13	33931728	33931928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243192, intron 2 of 7)	intron (NM_001243192, intron 2 of 7)	-4204.0	NR_040707	68808.0	Mm.443347	NR_040707	ENSMUSG00000085457	1110046J04Rik	-	RIKEN cDNA 1110046J04 gene	ncRNA	41.5	36.5	43.5	844.0	66.0	34.0	32.0	42.5
Merged-chr18-56759332-4	chr18	56759225	56759425	+	878.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51512.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	7.5	25.5	9.0	151.5	19.5	8.5	24.5	20.5
Merged-chr7-128320639-4	chr7	128320540	128320740	+	791.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID|SINE|ID	-22509.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	7.5	18.5	5.5	90.5	28.0	10.0	11.5	7.0
Merged-chr9-106892048-4	chr9	106891964	106892164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029103)	promoter-TSS (NM_029103)	-126.0	NM_029103	74840.0	Mm.29778	NM_029103	ENSMUSG00000032575	Manf	3230402M22Rik|AA407711|AA408789|AA673178|Armet|D17914|D18Mgi17	mesencephalic astrocyte-derived neurotrophic factor	protein-coding	218.0	320.0	219.0	2845.0	740.5	240.0	344.0	264.0
Merged-chr2-24345269-4	chr2	24345173	24345373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159562)	promoter-TSS (NM_001159562)	-18.0	NM_001159562	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	83.5	140.0	78.0	1037.5	250.0	118.0	105.0	81.5
Merged-chr13-37779955-1	chr13	37779855	37780055	+	582.0	f0_balb.idr	Intergenic	Intergenic	-46083.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	9.5	11.5	12.5	81.0	22.0	6.0	5.5	13.5
Merged-chr13-56184496-4	chr13	56184422	56184622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5637.0	NM_001168615	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	74.5	94.5	42.0	1074.5	122.5	49.0	50.5	68.0
Merged-chr17-27623545-4	chr17	27623453	27623653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019837)	promoter-TSS (NM_019837)	-101.0	NM_019837	56409.0	Mm.144699	NM_019837	ENSMUSG00000024213	Nudt3	1110011B09Rik|AA960325|Dipp|Dipp1	nudix (nucleotide diphosphate linked moiety X)-type motif 3	protein-coding	81.0	106.5	74.0	822.0	152.5	74.5	73.5	72.0
Merged-chr17-27635332-4	chr17	27635222	27635422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025963)	promoter-TSS (NM_025963)	-80.0	NM_025963	67097.0	Mm.275810	NM_025963	ENSMUSG00000052146	Rps10	2210402A09Rik	ribosomal protein S10	protein-coding	100.0	136.5	45.5	850.0	242.5	67.5	100.0	93.0
Merged-chr2-92055513-4	chr2	92055400	92055600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-31330.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	34.0	58.0	45.0	540.0	139.5	30.5	43.0	40.5
Merged-chr2-126475946-4	chr2	126475858	126476058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 3 of 27)	intron (NM_001359975, intron 3 of 27)	15595.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	59.5	67.0	81.0	915.5	117.5	38.0	39.5	60.5
Merged-chr2-167293509-4	chr2	167293430	167293630	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52993.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	25.5	46.0	32.5	620.0	65.5	6.5	14.0	19.0
Merged-chr7-99043540-4	chr7	99043442	99043642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	intron (NM_178635, intron 6 of 14)	97602.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	83.0	123.0	54.5	1290.5	169.0	55.5	84.0	66.0
Merged-chr2-153609798-4	chr2	153609747	153609947	+	944.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22934.0	NM_001195390	99311.0	Mm.294478	NM_133850	ENSMUSG00000056941	Commd7	2310010I22Rik|AW060956|mU3	COMM domain containing 7	protein-coding	25.0	16.5	10.0	255.5	15.0	12.5	11.5	12.5
Merged-chr10-18423708-4	chr10	18423622	18423822	+	942.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173390, intron 1 of 6)	intron (NM_173390, intron 1 of 6)	16047.0	NM_173390	215819.0	Mm.297971	NM_173390	ENSMUSG00000039835	Nhsl1	5730409E15Rik|A630035H13Rik|A730096F01|BC013565|D10Bwg0940e|mKIAA1357	NHS-like 1	protein-coding	25.0	30.5	25.0	383.0	24.5	20.0	31.0	14.0
Merged-chr13-45266872-4	chr13	45266776	45266976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122866.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	60.0	68.0	39.0	863.5	131.5	26.5	34.0	58.0
Merged-chr8-81014126-7	chr8	81014055	81014255	+	910.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027554, exon 1 of 10)	exon (NM_027554, exon 1 of 10)	751.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	10.5	12.0	11.5	38.0	29.0	10.5	9.5	24.5
Merged-chr7-46882197-3	chr7	46882100	46882300	+	845.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20937.0	NM_013580	16833.0	Mm.16563	NM_013580	ENSMUSG00000030851	Ldhc	LDH-C4|Ldh-3|Ldh-x|Ldh3|Ldhc4	lactate dehydrogenase C	protein-coding	4.5	7.5	2.0	123.0	25.0	5.5	5.5	17.0
Merged-chr6-82798067-2	chr6	82797967	82798167	+	862.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23613.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	3.5	3.5	1.5	62.5	11.5	5.5	6.5	7.5
Merged-chr15-73716569-4	chr15	73716492	73716692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6553.0	NM_001166390	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	25.5	37.0	31.0	355.0	45.5	29.5	24.5	20.0
Merged-chr17-35825295-4	chr17	35825207	35825407	+	875.4583130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008027, intron 6 of 12)	intron (NM_008027, intron 6 of 12)	1950.0	NM_008027	14251.0	Mm.2931	NM_008027	ENSMUSG00000059714	Flot1	reggie-2	flotillin 1	protein-coding	7.0	12.5	6.5	24.0	14.0	7.5	6.0	3.0
Merged-chr12-51845106-4	chr12	51844972	51845172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15536.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	88.0	131.5	85.5	1424.0	195.5	62.5	79.0	76.0
Merged-chr2-167417809-3	chr2	167417708	167417908	+	908.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3902.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	5.0	15.0	5.5	95.0	10.5	4.0	5.0	7.0
Merged-chr5-105749297-3	chr5	105749215	105749415	+	737.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122768, intron 2 of 2)	intron (NM_001122768, intron 2 of 2)	48505.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	0.0	0.0	0.0	0.5	38.5	8.5	15.0	8.0
Merged-chr3-59219546-4	chr3	59219432	59219632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357010, intron 3 of 3)	intron (NM_001357010, intron 3 of 3)	-8650.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	31.5	73.5	28.5	492.5	86.5	49.5	24.0	24.0
Merged-chr18-69592583-4	chr18	69592484	69592684	+	881.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	246424.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	12.5	14.5	28.5	130.0	28.5	14.0	15.5	11.5
Merged-chr13-89779440-4	chr13	89779288	89779488	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36876.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	12.5	21.0	10.0	115.5	30.5	8.0	8.0	7.0
Merged-chr2-160288103-1	chr2	160288003	160288203	+	863.3333130000001	f0_balb.idr	Intergenic	Intergenic	39391.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	9.5	5.0	9.5	158.5	8.0	0.0	6.0	5.0
Merged-chr7-27408909-4	chr7	27408794	27408994	+	930.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_032610, exon 14 of 36)	exon (NM_032610, exon 14 of 36)	-12341.0	NM_001199236	80297.0	Mm.459123	NM_032610	ENSMUSG00000011751	Sptbn4	1700022P15Rik|5830426A08Rik|ROSA62|SpbIV|Spnb4|dyn|lnd|nmf261|nmf379|qv	spectrin beta, non-erythrocytic 4	protein-coding	17.5	7.5	18.5	299.0	19.0	11.0	11.5	11.0
Merged-chr18-53905838-3	chr18	53905726	53905926	+	774.600037	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 3 of 12)	MIR|SINE|MIR	43713.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	5.0	11.0	4.0	160.5	27.0	7.0	9.0	6.0
Merged-chr1-167246469-4	chr1	167246384	167246584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030724, intron 1 of 6)	L1M4|LINE|L1	38643.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	57.0	41.5	38.0	637.5	74.5	20.5	29.5	25.0
Merged-chr3-18243193-6	chr3	18243099	18243299	+	853.772217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007825, exon 1 of 6)	exon (NM_007825, exon 1 of 6)	139.0	NM_007825	13123.0	Mm.316000	NM_007825	ENSMUSG00000039519	Cyp7b1	AW261589|D3Ertd552e|hct-1	cytochrome P450, family 7, subfamily b, polypeptide 1	protein-coding	12.5	5.0	13.5	87.0	10.0	6.0	8.5	11.5
Merged-chr8-60969272-2	chr8	60969172	60969372	+	718.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_007711, intron 1 of 11)	intron (NM_007711, intron 1 of 11)	14039.0	NM_173873	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	5.5	7.0	5.5	59.5	7.5	6.0	0.5	5.0
Merged-chr9-123930970-6	chr9	123930805	123931005	+	946.227783	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	37787.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	10.5	10.0	8.5	54.0	6.0	5.5	5.5	6.0
Merged-chr3-9250725-4	chr3	9250642	9250842	+	857.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177660, exon 1 of 6)	5' UTR (NM_177660, exon 1 of 6)	175.0	NM_177660	229055.0	Mm.103262	NM_177660	ENSMUSG00000069114	Zbtb10	4832414A18|AU021107|RINZF	zinc finger and BTB domain containing 10	protein-coding	16.0	10.5	19.5	165.5	27.0	7.5	7.0	13.5
Merged-chr6-128143689-4	chr6	128143627	128143827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175414)	promoter-TSS (NM_175414)	-149.0	NM_001356301	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	71.5	85.5	127.0	811.0	111.5	62.0	64.0	78.5
Merged-chr4-134917209-4	chr4	134917109	134917309	+	946.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-2293.0	NM_027935	71817.0	Mm.88349	NM_027935	ENSMUSG00000028822	Tmem50a	3200001F09Rik|CAM|Smp1	transmembrane protein 50A	protein-coding	15.5	22.0	18.0	442.5	47.5	4.0	11.5	26.5
Merged-chr4-8536161-4	chr4	8536078	8536278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021518, intron 1 of 7)	CpG	534.0	NM_021518	59021.0	Mm.397471	NM_021518	ENSMUSG00000047187	Rab2a	9330148M11Rik|C80220|Rab2	RAB2A, member RAS oncogene family	protein-coding	28.5	68.5	50.0	709.0	137.5	45.0	42.5	52.5
Merged-chr16-5234154-1	chr16	5234054	5234254	+	1000.0	f0_balb.idr	intron (NM_145362, intron 1 of 12)	intron (NM_145362, intron 1 of 12)	533.0	NM_145362	208211.0	Mm.34581	NM_145362	ENSMUSG00000039427	Alg1	HMAT1|HMT1	asparagine-linked glycosylation 1 (beta-1,4-mannosyltransferase)	protein-coding	20.5	20.5	8.0	283.5	33.0	11.5	17.5	13.5
Merged-chr4-133754118-1	chr4	133754018	133754218	+	1000.0	f0_balb.idr	promoter-TSS (NM_001080819)	promoter-TSS (NM_001080819)	-507.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	35.5	50.5	34.0	409.5	78.5	33.0	22.0	33.5
Merged-chr15-41973477-3	chr15	41973373	41973573	+	816.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103753.0	NM_175456	223513.0	Mm.148913	NM_175456	ENSMUSG00000042895	Abra	C130068O12Rik|STARS	actin-binding Rho activating protein	protein-coding	7.5	11.5	10.0	134.5	14.5	7.0	10.0	11.0
Merged-chr2-170451092-3	chr2	170450984	170451184	+	777.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23239.0	NM_029815	76960.0	Mm.240850	NM_029815	ENSMUSG00000013523	Bcas1	2210416M21Rik|9030223A09Rik|AI841227|NABC1	breast carcinoma amplified sequence 1	protein-coding	3.5	5.0	2.5	95.0	18.5	9.0	4.5	7.0
Merged-chr19-40965423-3	chr19	40965322	40965522	+	812.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008528, intron 3 of 16)	intron (NM_008528, intron 3 of 16)	29113.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	11.5	12.5	12.5	47.0	15.5	13.5	4.0	7.5
Merged-chr7-89404291-4	chr7	89404203	89404403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008055)	promoter-TSS (NM_008055)	-63.0	NM_008055	14366.0	Mm.86755	NM_008055	ENSMUSG00000049791	Fzd4	Fz4	frizzled class receptor 4	protein-coding	181.5	227.5	213.0	3265.0	394.5	144.5	215.5	173.0
Merged-chr13-97196984-3	chr13	97196851	97197051	+	835.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010422, intron 1 of 13)	intron (NM_010422, intron 1 of 13)	1406.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	5.0	7.0	10.5	101.0	15.5	3.5	6.0	2.5
Merged-chr12-108758091-4	chr12	108757999	108758199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35212.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	252.5	321.0	186.5	2800.5	432.0	179.5	227.0	181.0
Merged-chr10-77608800-3	chr10	77608700	77608900	+	978.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301671, intron 1 of 3)	intron (NM_001301671, intron 1 of 3)	2202.0	NM_001301671	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	14.0	22.5	8.0	286.0	18.0	4.0	17.0	12.0
Merged-chr15-91179452-4	chr15	91179374	91179574	+	928.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 3 of 9)	intron (NM_011994, intron 3 of 9)	12533.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	12.0	11.0	5.5	201.0	29.0	9.5	5.5	12.0
Merged-chr17-56133957-4	chr17	56133860	56134060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013662)	promoter-TSS (NM_013662)	-108.0	NM_013662	20359.0	Mm.8029	NM_013662	ENSMUSG00000001227	Sema6b	Sema|Seman|VIb|semaZ	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B	protein-coding	167.0	231.5	212.5	2412.0	397.0	177.5	205.0	198.0
Merged-chr1-171226440-4	chr1	171226346	171226546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_131173)	TTS (NR_131173)	1392.0	NM_013474	11807.0	Mm.389209	NM_013474	ENSMUSG00000005681	Apoa2	Alp-2|Apo-AII|ApoA-II|ApoAII|Apoa-2|Hdl-1	apolipoprotein A-II	protein-coding	60.5	64.0	65.0	1037.0	134.0	34.0	53.0	43.5
Merged-chr11-61934818-3	chr11	61934725	61934925	+	975.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-4568.0	NM_019921	56697.0	Mm.274404	NM_019921	ENSMUSG00000047804	Akap10	1500031L16Rik|B130049N18Rik|D-AKAP-2|D-AKAP2|PRKA10	A kinase (PRKA) anchor protein 10	protein-coding	14.0	20.0	8.5	210.0	40.5	8.0	7.5	11.5
Merged-chr2-25357941-4	chr2	25357842	25358042	+	969.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1610.0	NM_031843	83768.0	Mm.21440	NM_031843	ENSMUSG00000026958	Dpp7	DPPII|Dpp2|QPP	dipeptidylpeptidase 7	protein-coding	38.5	64.5	9.5	185.0	63.5	35.5	22.5	13.0
Merged-chr5-98031156-4	chr5	98031060	98031260	+	994.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133738)	promoter-TSS (NM_133738)	-198.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	42.5	40.0	54.0	498.5	25.5	24.5	17.5	21.0
Merged-chr6-82797607-4	chr6	82797498	82797698	+	975.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23144.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	18.5	27.5	20.0	192.5	41.0	17.5	11.5	16.0
Merged-chr4-95209558-4	chr4	95209444	95209644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157322.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	63.5	129.5	52.0	1037.0	98.5	59.5	29.5	34.0
Merged-chr7-100434027-4	chr7	100433939	100434139	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 23 of 32)	intron (NM_001017985, intron 23 of 32)	-38952.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	25.5	22.0	15.0	235.5	26.5	14.5	19.0	15.5
Merged-chr17-79015969-3	chr17	79015869	79016069	+	977.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171004, intron 1 of 18)	intron (NM_001171004, intron 1 of 18)	4847.0	NM_001171004	75292.0	Mm.252776	NM_029239	ENSMUSG00000024070	Prkd3	4930557O20Rik|5730497N19Rik|PKD3|Pkcnu|Prkcn	protein kinase D3	protein-coding	5.0	5.0	14.0	192.5	16.0	6.5	9.5	16.0
Merged-chr6-88189731-3	chr6	88189625	88189825	+	877.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4166.0	NM_001355253	14461.0	Mm.491156	NM_008090	ENSMUSG00000015053	Gata2	Gata-2	GATA binding protein 2	protein-coding	10.0	18.5	3.5	121.0	10.5	8.0	4.5	8.0
Merged-chr13-80968698-3	chr13	80968613	80968813	+	663.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	RLTR16|LTR|ERVK	4639.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	7.5	5.5	9.5	166.0	10.5	5.0	5.0	11.0
Merged-chr5-130170788-4	chr5	130170684	130170884	+	972.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1035.0	NM_001199059	56715.0	Mm.288639	NM_019983	ENSMUSG00000025340	Rabgef1	Rab5ef|Rabex5|Rin2	RAB guanine nucleotide exchange factor (GEF) 1	protein-coding	14.0	15.5	10.5	278.5	45.5	15.5	15.5	22.0
Merged-chr9-25504920-4	chr9	25504825	25505025	+	957.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	23328.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	12.5	24.0	12.0	244.0	34.0	16.0	19.0	24.0
Merged-chr16-16535464-1	chr16	16535364	16535564	+	548.0	f0_c57.idr	intron (NM_001301817, intron 1 of 16)	RMER10A|LTR|ERVL	-8053.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	5.0	4.5	4.5	35.5	18.0	2.0	9.5	3.0
Merged-chr14-79107016-4	chr14	79106915	79107115	+	915.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027906, intron 37 of 44)	intron (NM_027906, intron 37 of 44)	92175.0	NR_152203	100043765.0	Mm.435553	NR_152203	ENSMUSG00000115111	Gm4632	-	predicted gene 4632	ncRNA	12.5	8.0	10.0	158.5	19.5	3.0	10.5	15.0
Merged-chr1-133135132-3	chr1	133135051	133135251	+	805.1777950000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133819, intron 1 of 1)	intron (NM_133819, intron 1 of 1)	3985.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	3.5	10.0	8.0	73.0	5.5	12.0	6.0	6.5
Merged-chr10-88352857-4	chr10	88352760	88352960	+	922.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 1 of 6)	intron (NM_027878, intron 1 of 6)	4215.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	16.5	42.5	20.0	334.0	73.0	13.0	22.5	13.0
Merged-chr4-155833384-3	chr4	155833282	155833482	+	648.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025338)	TTS (NM_025338)	2113.0	NM_025338	66077.0	Mm.28999	NM_025338	ENSMUSG00000065990	Aurkaip1	0610033H09Rik|Aip|Akip|MRP-S38	aurora kinase A interacting protein 1	protein-coding	1.5	0.0	0.0	17.5	26.0	8.5	21.0	16.5
Merged-chr17-88341797-4	chr17	88341702	88341902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98902.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	115.5	148.0	132.5	1932.5	328.0	120.5	127.5	114.0
Merged-chr18-33795556-2	chr18	33795413	33795613	+	923.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_013512)	TTS (NM_013512)	621.0	NR_038151	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	1.0	2.0	2.0	77.0	15.0	4.5	8.0	10.5
Merged-chr4-126136956-4	chr4	126136873	126137073	+	934.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 8 of 10)	intron (NM_028800, intron 8 of 10)	-11030.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	11.0	25.0	21.5	193.0	27.0	14.5	8.5	10.5
Merged-chr4-32572327-4	chr4	32572216	32572416	+	978.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_026843)	promoter-TSS (NR_026843)	-654.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	41.5	37.5	42.0	685.0	71.0	13.0	26.0	40.0
Merged-chr2-84619341-2	chr2	84619241	84619441	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 5 of 18)	intron (NM_001355064, intron 5 of 18)	30139.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	4.5	11.5	9.0	86.5	18.0	15.0	10.5	3.5
Merged-chr14-50842697-4	chr14	50842601	50842801	+	944.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 28 of 54)	MTE2b|LTR|ERVL-MaLR	27853.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	9.0	14.5	13.0	371.0	101.5	20.5	44.0	36.0
Merged-chr4-46389864-4	chr4	46389779	46389979	+	870.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029086)	promoter-TSS (NM_029086)	-442.0	NM_001347095	74753.0	Mm.45973	NM_029086	ENSMUSG00000028331	Trmo	5830415F09Rik|AV014846|Nap1	tRNA methyltransferase O	protein-coding	4.5	11.0	5.5	146.5	43.0	12.5	9.5	6.5
Merged-chr6-122819889-4	chr6	122819803	122820003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021899)	promoter-TSS (NM_021899)	-281.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	38.0	38.5	25.0	374.0	121.0	38.5	44.5	37.5
Merged-chr5-149635960-2	chr5	149635860	149636060	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347534, intron 1 of 16)	CpG	355.0	NM_013559	15505.0	Mm.270681	NM_013559	ENSMUSG00000029657	Hsph1	105kDa|AI790491|Hsp105|Hsp110|hsp-E7I|hsp110/105	heat shock 105kDa/110kDa protein 1	protein-coding	15.0	13.0	8.5	208.0	39.5	13.5	14.5	29.5
Merged-chr2-58802665-4	chr2	58802585	58802785	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47501.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	17.5	37.0	31.0	438.5	84.5	17.0	28.0	34.0
Merged-chr2-164470418-3	chr2	164470276	164470476	+	753.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001271575)	TTS (NM_001271575)	3348.0	NM_001271575	73603.0	Mm.472883	NM_001271575	ENSMUSG00000017720	Trp53tg5	1700126L10Rik	transformation related protein 53 target 5	protein-coding	11.5	10.0	5.5	99.0	22.0	7.0	6.0	3.0
Merged-chr18-61078021-2	chr18	61077921	61078121	+	934.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008809, intron 16 of 22)	intron (NM_008809, intron 16 of 22)	-27551.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	1.5	3.0	2.5	9.5	6.5	5.0	4.5	8.0
Merged-chr9-63985319-4	chr9	63985210	63985410	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	36749.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	15.5	35.5	26.0	189.5	30.5	12.5	18.0	8.5
Merged-chr12-52390451-4	chr12	52390357	52390557	+	788.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90152.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	11.5	9.0	10.0	232.5	29.0	9.0	10.5	12.5
Merged-chr6-87919972-2	chr6	87919872	87920072	+	808.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173737, intron 3 of 6)	MTD|LTR|ERVL-MaLR	5996.0	NM_173737	232210.0	Mm.246241	NM_173737	ENSMUSG00000030060	Hmces	8430410A17Rik|C85376	5-hydroxymethylcytosine (hmC) binding, ES cell specific	protein-coding	6.5	6.5	3.0	100.0	12.0	10.5	10.0	6.0
Merged-chr8-72485986-3	chr8	72485892	72486092	+	971.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177766, intron 4 of 5)	intron (NM_177766, intron 4 of 5)	6622.0	NM_177766	270066.0	Mm.291461	NM_177766	ENSMUSG00000019731	Slc35e1	6030458H05|AA408278	solute carrier family 35, member E1	protein-coding	2.0	0.0	3.0	14.0	31.5	17.5	22.5	24.5
Merged-chr12-104290045-4	chr12	104289949	104290149	+	819.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ETnERV2-int|LTR|ERVK	-24521.0	NM_001101472	238395.0	Mm.436975	NM_001101472	ENSMUSG00000079013	Serpina3j	AI506554|EG238395|Gm4931	serine (or cysteine) peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 3J	protein-coding	7.5	6.0	16.5	143.0	49.0	11.0	8.0	11.0
Merged-chr8-11458353-4	chr8	11458233	11458433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-19596.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	205.5	407.5	255.5	2158.5	554.0	251.5	237.0	134.5
Merged-chr5-142747444-2	chr5	142747344	142747544	+	770.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001122730, intron 16 of 27)	L1M5|LINE|L1	45343.0	NM_146257	243328.0	Mm.125942	NM_146257	ENSMUSG00000050822	Slc29a4	ENT4|mPMAT	solute carrier family 29 (nucleoside transporters), member 4	protein-coding	15.5	10.0	3.5	69.5	15.5	7.0	5.0	8.0
Merged-chr2-172399480-5	chr2	172399375	172399575	+	887.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 1 of 6)	intron (NM_001080820, intron 1 of 6)	5681.0	NM_001276423	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	8.0	11.5	6.0	101.0	12.5	4.0	4.5	3.5
Merged-chr2-98667155-4	chr2	98667083	98667283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	1199526.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	2860.5	2179.5	2943.5	33627.0	6880.5	3169.0	2838.0	4693.0
Merged-chr10-26799821-4	chr10	26799716	26799916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	27304.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	292.0	411.0	388.5	4524.5	594.0	232.0	289.0	231.5
Merged-chr2-93471397-4	chr2	93471318	93471518	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8468.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	26.5	27.5	12.5	313.5	57.0	27.5	18.0	21.0
Merged-chr10-20763423-3	chr10	20763325	20763525	+	902.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38347.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	13.0	11.5	6.0	120.5	20.0	9.5	8.5	7.0
Merged-chr1-50962489-1	chr1	50962389	50962589	+	755.333313	f0_balb.idr	intron (NM_019790, intron 4 of 9)	intron (NM_019790, intron 4 of 9)	34966.0	NM_019790	56363.0	Mm.245154	NM_019790	ENSMUSG00000026109	Tmeff2	4832418D20Rik|7630402F16Rik|TR-2	transmembrane protein with EGF-like and two follistatin-like domains 2	protein-coding	11.5	15.0	5.5	121.5	7.0	11.5	4.0	4.0
Merged-chr13-58188661-4	chr13	58188577	58188777	+	635.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026842, intron 6 of 10)	MTE-int|LTR|ERVL-MaLR	26976.0	NM_152234	56085.0	Mm.182053	NM_026842	ENSMUSG00000005312	Ubqln1	1110046H03Rik|1810030E05Rik|AU019746|C77538|D13Ertd372e|Da41|Dsk2|Plic-1|Plic1|Xdrp1	ubiquilin 1	protein-coding	11.0	16.5	3.0	97.0	22.5	5.0	9.5	9.0
Merged-chr17-17884991-4	chr17	17884904	17885104	+	997.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1065.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	28.0	67.5	19.0	198.0	103.0	60.0	37.5	18.5
Merged-chr7-142394439-4	chr7	142394312	142394512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6542.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	19.0	35.0	25.0	515.5	71.0	35.5	41.5	36.5
Merged-chr5-140322010-2	chr5	140321910	140322110	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010752)	promoter-TSS (NM_010752)	388.0	NM_001356585	17766.0	Mm.118846	NM_008637	ENSMUSG00000036639	Nudt1	Mth1	nudix (nucleoside diphosphate linked moiety X)-type motif 1	protein-coding	16.5	22.5	17.5	191.5	41.5	11.0	10.0	14.5
Merged-chr5-121917765-3	chr5	121917664	121917864	+	901.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 4 of 22)	intron (NM_007804, intron 4 of 22)	68767.0	NM_001359949	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	11.5	16.5	9.0	104.0	7.0	2.0	6.5	10.0
Merged-chr11-106093329-3	chr11	106093229	106093429	+	849.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 1 of 15)	MIRc|SINE|MIR	8427.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	6.0	20.5	0.0	65.0	13.5	8.5	5.0	5.5
Merged-chr7-81213226-4	chr7	81213112	81213312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008803)	promoter-TSS (NM_008803)	-592.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	103.5	170.0	104.5	1871.0	269.0	111.0	136.0	127.0
Merged-chr11-115654232-4	chr11	115654143	115654343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 3 of 5)	RSINE1|SINE|B4	-25948.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	40.0	58.5	35.5	989.5	117.5	36.5	41.0	46.0
Merged-chr2-84799342-4	chr2	84799228	84799428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019949, intron 1 of 3)	intron (NM_019949, intron 1 of 3)	500.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	94.0	181.0	62.5	1011.0	227.5	82.0	68.0	49.0
Merged-chr1-128747495-3	chr1	128747352	128747552	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-155153.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	32.5	41.0	100.0	1093.0	6.0	0.0	4.5	7.0
Merged-chr5-92509125-4	chr5	92508989	92509189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3432.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	72.5	128.5	52.5	1111.0	186.0	54.0	52.0	48.0
Merged-chr18-31761027-4	chr18	31760930	31761130	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001242430, exon 1 of 8)	5' UTR (NM_001242430, exon 1 of 8)	414.0	NM_001242430	225339.0	Mm.290804	NM_153515	ENSMUSG00000041915	Ammecr1l	5430429D03Rik|AU022236|AU040755|AW111353|E230022H04Rik	AMME chromosomal region gene 1-like	protein-coding	17.0	41.5	17.0	285.0	86.0	23.0	42.5	30.5
Merged-chr11-4596832-4	chr11	4596720	4596920	+	961.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2005.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	22.0	36.0	14.5	285.0	66.0	4.5	22.0	14.0
Merged-chr2-27721260-4	chr2	27721180	27721380	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	10697.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	9.0	22.5	16.0	169.0	32.0	13.0	8.5	12.0
Merged-chr2-140395963-3	chr2	140395882	140396082	+	974.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028387, intron 1 of 3)	CpG	547.0	NM_028387	72899.0	Mm.229466	NM_028387	ENSMUSG00000068205	Macrod2	1110033L15Rik|2610107G07Rik|2900006F19Rik	MACRO domain containing 2	protein-coding	12.5	7.5	20.5	197.5	23.5	9.0	4.5	2.5
Merged-chr15-73135144-4	chr15	73135041	73135241	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 3 of 18)	ORR1B1|LTR|ERVL-MaLR	44729.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	17.5	9.5	22.0	160.0	44.5	9.5	24.0	18.5
Merged-chr16-4559932-4	chr16	4559821	4560021	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031182)	promoter-TSS (NM_031182)	-201.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	15.0	45.5	20.5	262.5	61.5	19.5	5.0	30.5
Merged-chr7-4526454-4	chr7	4526249	4526449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033548, intron 9 of 11)	intron (NM_001033548, intron 9 of 11)	-3821.0	NM_009406	21954.0	Mm.27674	NM_009406	ENSMUSG00000035458	Tnni3	Tn1|cTnI	troponin I, cardiac 3	protein-coding	12.5	18.0	21.5	110.0	45.5	26.0	29.0	25.5
Merged-chr15-78369118-4	chr15	78369030	78369230	+	868.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19639.0	NM_001163613	73376.0	Mm.73222	NM_028522	ENSMUSG00000062154	Tex33	1700061J05Rik|Ean57	testis expressed 33	protein-coding	25.0	18.5	11.5	211.5	28.0	9.5	12.0	10.0
Merged-chr18-34550122-3	chr18	34550031	34550231	+	993.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7803.0	NM_009290	20890.0	Mm.558	NM_009290	ENSMUSG00000012282	Wnt8a	Stra11|Wnt-8A|Wnt-8D|Wnt8d	wingless-type MMTV integration site family, member 8A	protein-coding	4.5	6.5	0.5	55.0	35.5	8.0	18.0	19.0
Merged-chr17-25809069-3	chr17	25808961	25809161	+	783.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164225)	promoter-TSS (NM_001164225)	-24.0	NM_001164225	214931.0	Mm.152289	NM_001164225	ENSMUSG00000025738	Fbxl16	BC042620|Scirr1	F-box and leucine-rich repeat protein 16	protein-coding	10.0	7.0	5.5	83.0	8.5	8.5	1.0	9.5
Merged-chr19-46607694-4	chr19	46607602	46607802	+	972.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177812, intron 2 of 4)	intron (NM_001177812, intron 2 of 4)	8596.0	NM_146099	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	23.5	34.5	21.0	251.5	104.0	31.0	40.0	25.0
Merged-chr19-3768869-4	chr19	3768781	3768981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167889, intron 2 of 10)	CpG-7172	1460.0	NM_001167885	225888.0	Mm.278578	NM_144871	ENSMUSG00000045098	Kmt5b	AA117471|C630029K18Rik|Suv4-20h1|Suv420h1	lysine methyltransferase 5B	protein-coding	186.0	294.5	127.0	1994.0	328.0	162.5	168.0	113.5
Merged-chr4-40156296-4	chr4	40156212	40156412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007386, intron 1 of 20)	intron (NM_007386, intron 1 of 20)	13047.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	36.0	76.0	25.0	602.5	128.5	40.5	74.0	47.5
Merged-chr9-121299451-4	chr9	121299449	121299649	+	777.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	2047.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	4.5	4.5	10.0	32.0	16.5	9.0	7.0	4.0
Merged-chr13-33001850-3	chr13	33001746	33001946	+	930.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-2695.0	NM_009256	20723.0	Mm.245041	NM_009256	ENSMUSG00000045827	Serpinb9	BB283241|CAP-3|CAP3|PI-9|PI9|Spi6|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9	protein-coding	8.0	1.5	6.0	41.5	38.0	6.0	9.0	17.5
Merged-chr5-67778233-4	chr5	67778146	67778346	+	734.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284345, intron 7 of 36)	intron (NM_001284345, intron 7 of 36)	69185.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	3.0	7.5	6.5	81.5	29.0	6.0	14.0	5.5
Merged-chr19-4294579-4	chr19	4294485	4294685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 2 of 20)	intron (NM_001290818, intron 2 of 20)	-11448.0	NM_026720	68423.0	Mm.23642	NM_026720	ENSMUSG00000005986	Ankrd13d	0710001P18Rik|AI430801	ankyrin repeat domain 13 family, member D	protein-coding	137.0	206.5	162.5	1809.5	348.5	107.0	134.0	124.5
Merged-chr7-25219203-4	chr7	25219114	25219314	+	952.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207677, intron 1 of 4)	CpG	645.0	NM_207677	67379.0	Mm.280594	NM_026117	ENSMUSG00000054499	Dedd2	2410050E11Rik|FLAME-3	death effector domain-containing DNA binding protein 2	protein-coding	9.5	21.5	11.0	97.5	63.0	16.0	8.0	22.5
Merged-chr14-79509116-4	chr14	79509008	79509208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	intron (NM_007920, intron 1 of 8)	-6566.0	NM_001286412	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	34.5	57.5	62.0	851.0	85.5	33.5	38.5	37.5
Merged-chr7-80860911-4	chr7	80860821	80861021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1187.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	141.5	163.0	96.0	1698.5	292.5	114.5	115.5	106.5
Merged-chr10-5805604-4	chr10	5805535	5805735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025995)	promoter-TSS (NM_025995)	-170.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	287.5	404.5	223.5	4319.5	723.5	288.5	405.5	270.0
Merged-chr4-155733394-4	chr4	155733276	155733476	+	617.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026899, intron 4 of 4)	intron (NM_026899, intron 4 of 4)	-1428.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	6.0	1.5	2.5	60.0	22.0	7.0	8.5	13.0
Merged-chr4-133754418-4	chr4	133754317	133754517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080819)	promoter-TSS (NM_001080819)	-806.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	133.5	214.5	79.0	1439.5	359.0	130.0	80.0	105.5
Merged-chr16-23986369-2	chr16	23986269	23986469	+	590.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	intron (NM_009744, intron 1 of 9)	2483.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	4.5	9.5	2.5	41.0	14.0	6.0	4.5	10.0
Merged-chr19-32906249-4	chr19	32906140	32906340	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148663.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	61.5	36.5	30.5	712.5	77.5	18.0	39.0	23.0
Merged-chr11-30954003-4	chr11	30953857	30954057	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023906)	promoter-TSS (NM_023906)	174.0	NM_025745	66753.0	Mm.294641	NM_025745	ENSMUSG00000020311	Erlec1	4933407N01Rik	endoplasmic reticulum lectin 1	protein-coding	17.0	23.0	16.5	224.0	61.0	21.5	17.0	18.0
Merged-chr18-20746356-4	chr18	20746257	20746457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019737)	promoter-TSS (NM_019737)	47.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	78.0	128.0	105.5	1523.0	179.0	65.0	121.0	83.0
Merged-chr1-165459803-6	chr1	165459698	165459898	+	961.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028759, intron 1 of 18)	CpG	665.0	NM_028759	74106.0	Mm.227605	NM_028759	ENSMUSG00000026571	Dcaf6	1200006M05Rik|Iqwd1|PC326	DDB1 and CUL4 associated factor 6	protein-coding	11.5	9.0	7.0	71.0	30.5	11.0	9.5	12.5
Merged-chr4-11156992-3	chr4	11156883	11157083	+	924.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199105, intron 1 of 4)	intron (NM_001199105, intron 1 of 4)	542.0	NM_021897	60599.0	Mm.393018	NM_021897	ENSMUSG00000028211	Trp53inp1	2700057G22Rik|SIP|SIP18|SIP27|Stinp|Teap|p53DINP1	transformation related protein 53 inducible nuclear protein 1	protein-coding	11.0	9.0	7.0	155.5	26.5	7.0	14.5	10.0
Merged-chr10-81517435-4	chr10	81517352	81517552	+	828.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010304, intron 1 of 6)	intron (NM_010304, intron 1 of 6)	6773.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	9.5	13.5	9.5	94.5	32.0	4.0	13.0	11.5
Merged-chr8-105573578-2	chr8	105573478	105573678	+	789.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271806, intron 1 of 4)	(TC)n|Simple_repeat|Simple_repeat	-5277.0	NM_007427	11604.0	Mm.441696	NM_007427	ENSMUSG00000005705	Agrp	Agrt|Art	agouti related neuropeptide	protein-coding	5.0	9.5	6.0	67.5	16.5	6.5	10.0	4.5
Merged-chr6-108179244-4	chr6	108179139	108179339	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145937, intron 1 of 8)	intron (NM_145937, intron 1 of 8)	6344.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	16.5	24.0	8.0	529.5	33.5	8.5	18.0	14.0
Merged-chr7-34448548-4	chr7	34448442	34448642	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58837.0	NM_025948	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	69.5	55.0	44.5	915.0	104.5	18.0	28.5	30.0
Merged-chr13-99288092-4	chr13	99287976	99288176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56602.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	21.5	27.0	36.5	460.5	117.5	34.5	34.0	36.5
Merged-chr5-68049791-4	chr5	68049683	68049883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001018019, intron 1 of 3)	intron (NM_001018019, intron 1 of 3)	17948.0	NM_001018019	433899.0	Mm.332422	NM_001018019	ENSMUSG00000068082	Grxcr1	Tg(Eno2-Gabrb3)0370Brll|pi|tde	glutaredoxin, cysteine rich 1	protein-coding	32.0	43.5	27.0	325.0	111.5	32.5	45.0	30.0
Merged-chr13-45392227-4	chr13	45392131	45392331	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153789, intron 2 of 6)	intron (NM_153789, intron 2 of 6)	2489.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	21.0	28.5	17.5	411.0	42.0	14.5	18.0	27.5
Merged-chr9-50768350-4	chr9	50768239	50768439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361107)	promoter-TSS (NM_001361107)	101.0	NM_198675	382137.0	Mm.390169	NM_198675	ENSMUSG00000037845	Fdxacb1	D630004A14Rik	ferredoxin-fold anticodon binding domain containing 1	protein-coding	57.0	162.5	98.0	762.5	171.5	91.5	61.0	95.0
Merged-chr15-64075894-4	chr15	64075721	64075921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15373.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	138.0	235.0	152.0	1968.5	321.5	132.0	137.0	126.5
Merged-chr12-85526252-4	chr12	85526169	85526369	+	903.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	52379.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	24.0	20.0	12.0	217.5	25.5	13.5	10.5	14.5
Merged-chr1-43912467-4	chr1	43912356	43912556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21538.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	65.0	90.5	58.5	671.0	91.5	38.0	55.5	44.0
Merged-chr19-12012432-4	chr19	12012353	12012553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24287.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	60.5	95.5	48.5	728.0	159.0	45.5	52.5	55.5
Merged-chr12-31967759-4	chr12	31967663	31967863	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011158, intron 6 of 10)	intron (NM_011158, intron 6 of 10)	-17518.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	19.0	30.5	13.5	257.5	62.5	22.0	33.0	31.0
Merged-chr9-22225732-4	chr9	22225649	22225849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172763)	promoter-TSS (NM_172763)	37.0	NM_001164624	235047.0	Mm.290849	NM_172763	ENSMUSG00000057982	Zfp809	BB114266|C330026E23	zinc finger protein 809	protein-coding	144.0	186.5	148.0	1837.0	244.0	94.0	99.0	103.0
Merged-chr6-91878027-4	chr6	91877983	91878183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172730)	promoter-TSS (NM_172730)	30.0	NM_172730	232236.0	Mm.234879	NM_172730	ENSMUSG00000034083	Ccdc174	C130022K22Rik	coiled-coil domain containing 174	protein-coding	107.0	202.0	114.0	1600.0	258.0	111.0	91.0	108.0
Merged-chr2-165445122-4	chr2	165445032	165445232	+	925.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054055, intron 3 of 12)	intron (NM_054055, intron 3 of 12)	28065.0	NM_054055	114644.0	Mm.250738	NM_054055	ENSMUSG00000018459	Slc13a3	NaDC-3|NaDC3|SDCT2	solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 3	protein-coding	10.5	22.5	21.0	147.5	38.0	8.5	14.0	26.5
Merged-chr10-34022027-2	chr10	34021927	34022127	+	625.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17D2|LTR|ERVK	-2411.0	NM_025614	66521.0	Mm.28528	NM_025614	ENSMUSG00000019782	Rwdd1	0710001K08Rik|2610002D06Rik|2700069A07Rik|IH1	RWD domain containing 1	protein-coding	4.5	8.5	9.5	64.0	10.0	10.5	4.5	9.0
Merged-chr14-25769166-4	chr14	25769062	25769262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101433)	promoter-TSS (NM_001101433)	-306.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	28.0	36.5	22.5	480.5	54.0	26.5	32.5	25.5
Merged-chr9-64281576-4	chr9	64281456	64281656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324557)	promoter-TSS (NM_001324557)	-29.0	NM_025372	66131.0	Mm.196219	NM_025372	ENSMUSG00000032397	Tipin	1110005A05Rik|1110018P21Rik	timeless interacting protein	protein-coding	72.5	139.5	46.5	820.5	235.0	83.0	66.0	91.5
Merged-chr5-130842552-4	chr5	130842434	130842634	+	912.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	393742.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	6.5	6.5	17.0	274.5	20.5	3.5	11.5	14.0
Merged-chr11-117847636-4	chr11	117847543	117847743	+	884.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4A|LTR|ERVK	-1594.0	NM_001012273	11799.0	Mm.8552	NM_009689	ENSMUSG00000017716	Birc5	AAC-11|Api4|TIAP|survivin40	baculoviral IAP repeat-containing 5	protein-coding	11.0	8.5	9.5	146.0	32.0	14.0	13.0	10.5
Merged-chr6-116135801-3	chr6	116135704	116135904	+	799.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 2 of 5)	intron (NM_177412, intron 2 of 5)	57570.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	17.0	9.0	6.0	114.5	21.5	5.0	6.0	4.0
Merged-chr16-57189700-4	chr16	57189613	57189813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 10 of 17)	intron (NM_026254, intron 10 of 17)	11758.0	NM_001358434	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	69.0	107.5	61.5	914.5	120.5	51.5	77.5	47.0
Merged-chr12-70695251-4	chr12	70695146	70695346	+	925.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130268.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	16.0	39.5	14.5	277.0	4.0	14.5	17.0	7.5
Merged-chr15-53343348-4	chr15	53343257	53343457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	2826.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	106.0	203.5	156.5	2834.0	315.5	91.5	142.0	113.0
Merged-chr1-80614316-4	chr1	80614206	80614406	+	970.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 4 of 55)	RLTR20A4|LTR|ERVK	51046.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	32.0	26.0	25.5	422.0	55.5	10.5	31.0	15.0
Merged-chr6-146162794-4	chr6	146162695	146162895	+	989.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 52 of 56)	intron (NM_019923, intron 52 of 56)	228673.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	53.5	49.5	51.5	1166.5	107.0	17.5	54.5	46.0
Merged-chr8-126917702-3	chr8	126917597	126917797	+	970.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28224.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	18.5	7.0	16.5	173.0	17.0	5.5	9.0	6.0
Merged-chr8-22808012-4	chr8	22807932	22808132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2378.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	70.0	94.5	50.0	803.0	134.5	65.5	75.5	73.0
Merged-chr6-142747395-4	chr6	142747297	142747497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9289.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	84.0	67.0	76.5	1254.5	204.5	61.0	72.0	117.5
Merged-chr5-105700631-4	chr5	105700521	105700721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178701)	promoter-TSS (NM_178701)	-189.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	140.5	123.0	100.5	1552.0	245.5	79.5	106.5	94.0
Merged-chr14-61861591-4	chr14	61861499	61861699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179226.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	107.0	176.5	119.0	1765.0	170.5	80.0	77.5	112.5
Merged-chr2-79618308-3	chr2	79618195	79618395	+	941.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17130.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	34.0	15.5	14.5	321.5	7.5	6.5	5.0	4.5
Merged-chr9-65740779-3	chr9	65740679	65740879	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 2 of 9)	intron (NM_172536, intron 2 of 9)	64231.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	36.0	69.0	25.5	303.0	6.5	4.0	1.5	6.5
Merged-chr1-192745666-4	chr1	192745553	192745753	+	941.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 3 of 11)	U5|snRNA|snRNA	25566.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	11.0	13.5	19.5	180.5	57.5	26.5	43.5	10.5
Merged-chr16-22511451-4	chr16	22511348	22511548	+	933.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_130988)	promoter-TSS (NR_130988)	-32.0	NR_130988	78082.0	Mm.243927	NR_130988	ENSMUSG00000089874	9230117E06Rik	-	RIKEN cDNA 9230117E06 gene	ncRNA	22.0	19.0	15.0	241.0	35.5	13.0	7.0	22.0
Merged-chr11-74981606-4	chr11	74981436	74981636	+	899.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 8 of 18)	intron (NM_001002764, intron 8 of 18)	55664.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	8.5	17.5	5.0	161.5	20.5	6.0	9.5	10.5
Merged-chr7-48788525-4	chr7	48788426	48788626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028031)	promoter-TSS (NM_028031)	-477.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	81.5	99.0	57.0	1390.0	182.5	56.5	69.5	79.5
Merged-chr10-17178073-2	chr10	17177961	17178161	+	831.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-82279.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	6.0	9.0	12.0	230.5	36.0	10.5	16.5	5.5
Merged-chr7-96546139-4	chr7	96546039	96546239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310762, intron 4 of 32)	intron (NM_001310762, intron 4 of 32)	-204175.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	61.0	64.0	92.5	1235.0	56.0	21.5	49.0	52.0
Merged-chr15-79327484-4	chr15	79327394	79327594	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016915, intron 1 of 15)	intron (NM_016915, intron 1 of 15)	877.0	NM_016915	53357.0	Mm.155620	NM_016915	ENSMUSG00000042632	Pla2g6	BB112799|PNPLA9|iPLA(2)beta|iPLA2|iPLA2beta	phospholipase A2, group VI	protein-coding	17.5	33.5	17.0	201.5	43.5	16.0	17.0	14.5
Merged-chr13-24614141-4	chr13	24614042	24614242	+	863.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286101)	promoter-TSS (NM_001286101)	-464.0	NM_001286101	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	11.5	18.0	5.5	67.0	29.0	9.5	6.0	14.5
Merged-chr12-32292967-4	chr12	32292865	32293065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR67B|LTR|ERVL	-84316.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	37.0	45.0	29.0	335.0	89.0	37.0	60.0	30.5
Merged-chr8-40894104-1	chr8	40894004	40894204	+	596.0	f0_c57.idr	intron (NM_007514, intron 1 of 11)	intron (NM_007514, intron 1 of 11)	31737.0	NM_001044740	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	0.5	0.5	2.0	46.5	20.5	10.0	7.0	11.5
Merged-chr12-52625197-1	chr12	52625097	52625297	+	1000.0	f0_balb.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-22875.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	14.0	12.0	16.0	209.0	27.5	9.0	13.0	12.5
Merged-chr2-58931997-3	chr2	58931900	58932100	+	757.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	176816.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	6.0	5.0	10.5	160.0	16.5	10.5	13.0	5.5
Merged-chr6-86396753-3	chr6	86396653	86396853	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025823, intron 1 of 5)	intron (NM_025823, intron 1 of 5)	397.0	NM_001355687	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	20.0	43.5	32.0	329.5	51.5	10.0	28.5	17.0
Merged-chr16-44130671-4	chr16	44130575	44130775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	8584.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	33.0	62.0	48.5	1103.5	113.0	21.0	43.5	73.5
Merged-chr7-31181392-4	chr7	31181299	31181499	+	976.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	19041.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	19.5	26.0	10.0	308.0	38.5	4.5	18.0	19.5
Merged-chr3-106568701-1	chr3	106568601	106568801	+	708.0	f0_balb.idr	intron (NM_001025582, intron 5 of 6)	Lx7|LINE|L1	-20899.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	8.5	7.0	10.0	107.5	5.0	6.5	9.0	7.0
Merged-chr14-25479968-4	chr14	25479869	25480069	+	912.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	20784.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	9.0	8.5	6.5	112.0	59.5	22.0	26.0	27.5
Merged-chr7-98349345-2	chr7	98349245	98349445	+	828.6999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11943.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	12.0	7.0	8.0	62.5	11.0	2.5	6.5	9.5
Merged-chr13-54578332-4	chr13	54578228	54578428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019968, intron 2 of 3)	intron (NM_019968, intron 2 of 3)	3315.0	NM_019968	56795.0	Mm.89484	NM_019968	ENSMUSG00000025870	Arl10	Arl10a|Arm1	ADP-ribosylation factor-like 10	protein-coding	42.5	44.5	31.0	661.5	93.0	34.5	45.0	46.5
Merged-chr17-34589963-4	chr17	34589816	34590016	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134116, exon 1 of 4)	5' UTR (NM_134116, exon 1 of 4)	110.0	NM_134116	106512.0	Mm.26584	NM_134116	ENSMUSG00000034786	Gpsm3	AA960287|AGS4	G-protein signalling modulator 3 (AGS3-like, C. elegans)	protein-coding	18.0	33.0	31.5	336.0	39.0	15.0	17.0	26.0
Merged-chr14-31413912-4	chr14	31413812	31414012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	MLT1K|LTR|ERVL-MaLR	3765.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	72.0	102.0	86.0	1438.0	117.5	48.5	64.5	70.0
Merged-chr4-65562635-3	chr4	65562535	65562735	+	903.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207109, intron 17 of 22)	intron (NM_207109, intron 17 of 22)	-42351.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	10.5	7.0	5.5	152.5	9.5	6.0	7.5	4.0
Merged-chr7-110646035-2	chr7	110645935	110646135	+	726.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18378.0	NM_009627	11535.0	Mm.1408	NM_009627	ENSMUSG00000030790	Adm	AM	adrenomedullin	protein-coding	1.5	5.0	7.0	54.5	15.0	4.5	7.0	4.5
Merged-chr19-56655406-2	chr19	56655306	56655506	+	599.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66966.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	4.5	7.5	5.5	58.0	13.5	4.5	5.0	3.5
Merged-chr4-107921514-3	chr4	107921382	107921582	+	888.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009949, intron 1 of 4)	intron (NM_009949, intron 1 of 4)	2107.0	NM_009949	12896.0	Mm.307620	NM_009949	ENSMUSG00000028607	Cpt2	AI323697|CPTII	carnitine palmitoyltransferase 2	protein-coding	9.5	10.0	4.0	174.5	11.0	8.0	7.0	7.0
Merged-chr16-77013658-4	chr16	77013574	77013774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013918)	promoter-TSS (NM_013918)	-395.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	223.5	396.0	274.0	4197.5	790.5	248.0	362.5	238.0
Merged-chr16-62847087-4	chr16	62846986	62847186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026577)	promoter-TSS (NM_026577)	-46.0	NM_026577	68146.0	Mm.96833	NM_026577	ENSMUSG00000022911	Arl13b	A530097K21Rik|A930014M17Rik|Arl2l1|C530009C10Rik|hnn	ADP-ribosylation factor-like 13B	protein-coding	331.0	473.0	318.5	5724.5	929.0	324.0	452.0	303.0
Merged-chr10-99190958-4	chr10	99190836	99191036	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	B3|SINE|B2	-72295.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	23.5	21.5	12.0	286.5	63.0	26.5	29.0	26.0
Merged-chr12-40521994-2	chr12	40521894	40522094	+	714.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	75941.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	6.0	7.0	12.0	170.0	21.5	4.5	3.5	1.5
Merged-chr1-52648313-4	chr1	52648229	52648429	+	959.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_024590, intron 7 of 8)	intron (NR_024590, intron 7 of 8)	17624.0	NM_001142647	227094.0	Mm.83541	NM_172654	ENSMUSG00000043015	Nemp2	5330401P04Rik|9830163O08|Tmem194b	nuclear envelope integral membrane protein 2	protein-coding	14.0	16.5	13.5	262.0	38.0	15.0	17.5	20.5
Merged-chr5-117388493-3	chr5	117388385	117388585	+	919.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028128, intron 1 of 10)	intron (NM_028128, intron 1 of 10)	538.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	5.0	4.0	9.5	81.0	13.0	5.0	13.0	5.5
Merged-chr19-17342493-2	chr19	17342394	17342594	+	596.0	f0_balb.idr|f0_c57.idr	intron (NM_010265, intron 1 of 2)	MIRb|SINE|MIR	-2989.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	4.5	8.5	9.0	76.5	29.5	9.0	5.0	8.5
Merged-chr5-21030405-4	chr5	21030287	21030487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	intron (NM_011203, intron 1 of 17)	4860.0	NM_001356592	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	67.0	92.5	75.5	1294.5	103.0	30.0	53.0	43.0
Merged-chr15-88537398-4	chr15	88537325	88537525	+	826.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62877.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	8.5	9.0	4.5	95.0	30.0	6.5	9.5	12.0
Merged-chr7-105396348-3	chr7	105396238	105396438	+	737.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242363, intron 1 of 12)	L2c|LINE|L2	3716.0	NM_001242364	74349.0	Mm.30254	NM_199009	ENSMUSG00000044465	Fam160a2	4632419K20Rik|6530415H11Rik|FHIP	family with sequence similarity 160, member A2	protein-coding	8.0	13.0	7.5	94.0	30.0	2.5	3.5	9.0
Merged-chr1-148904286-4	chr1	148904180	148904380	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1018159.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	24.0	47.5	42.5	606.5	86.5	25.5	32.0	23.0
Merged-chr2-156719091-4	chr2	156719049	156719249	+	977.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040505, intron 1 of 3)	MTB_Mm|LTR|ERVL-MaLR	1760.0	NR_040505	74846.0	Mm.443946	NR_040505	ENSMUSG00000086638	4930405A21Rik	-	RIKEN cDNA 4930405A21 gene	ncRNA	25.5	33.0	20.5	183.5	62.5	17.5	10.5	16.5
Merged-chr15-60855281-3	chr15	60855184	60855384	+	803.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30204.0	NM_001162926	399603.0	Mm.411968	NM_207269	ENSMUSG00000072568	Fam84b	BF642811|D330050I23Rik	family with sequence similarity 84, member B	protein-coding	7.5	7.5	7.0	226.5	22.0	12.5	12.5	8.0
Merged-chr3-51719615-4	chr3	51719512	51719712	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	58433.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	8.0	12.5	5.5	198.5	19.0	7.0	9.5	9.0
Merged-chr9-78149990-4	chr9	78149909	78150109	+	912.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163780, intron 5 of 13)	intron (NM_001163780, intron 5 of 13)	-25905.0	NR_040401	320295.0	Mm.131285	NR_040401	ENSMUSG00000097574	C920006O11Rik	-	RIKEN cDNA C920006O11 gene	ncRNA	14.5	16.5	7.5	73.5	69.5	15.0	11.5	30.5
Merged-chr1-91179261-4	chr1	91179211	91179411	+	790.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178401)	promoter-TSS (NM_178401)	-511.0	NM_016894	51801.0	Mm.3272	NM_016894	ENSMUSG00000034353	Ramp1	9130218E19Rik	receptor (calcitonin) activity modifying protein 1	protein-coding	8.5	10.5	11.5	203.0	19.5	7.5	3.5	6.5
Merged-chr4-135240503-4	chr4	135240396	135240596	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 1 of 5)	intron (NM_013885, intron 1 of 5)	32264.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	39.0	49.5	15.5	345.0	69.0	23.0	28.5	20.0
Merged-chr5-148907825-2	chr5	148907725	148907925	+	993.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_153572, intron 3 of 10)	intron (NM_153572, intron 3 of 10)	20822.0	NM_153572	231912.0	Mm.397405	NM_153572	ENSMUSG00000041298	Katnal1	-	katanin p60 subunit A-like 1	protein-coding	3.5	3.0	7.5	59.0	18.5	4.5	7.0	8.0
Merged-chr1-131527645-4	chr1	131527545	131527745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175382)	promoter-TSS (NM_175382)	-258.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	418.0	590.0	405.5	5916.0	838.0	305.0	336.5	311.5
Merged-chr16-78264758-3	chr16	78264670	78264870	+	937.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-9316.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	5.0	7.0	8.0	90.5	8.5	8.5	4.5	6.5
Merged-chr17-67317067-1	chr17	67316967	67317167	+	651.0	f0_balb.idr	intron (NM_001357625, intron 1 of 32)	MLT1E1A|LTR|ERVL-MaLR	37392.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	8.5	5.0	6.0	104.5	2.0	0.5	1.5	0.5
Merged-chr1-93166036-1	chr1	93165936	93166136	+	780.0	f0_balb.idr	Intergenic	L1MB3|LINE|L1	-2387.0	NM_001310428	381284.0	Mm.193346	NM_001310428	ENSMUSG00000084989	Crocc2	E030010N08Rik|Gm976	ciliary rootlet coiled-coil, rootletin family member 2	protein-coding	6.5	15.5	5.5	135.5	12.0	4.5	4.0	2.0
Merged-chr9-51963427-4	chr9	51963315	51963515	+	983.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001301728, exon 1 of 4)	exon (NM_001301728, exon 1 of 4)	187.0	NM_001301728	14148.0	Mm.1061	NM_007996	ENSMUSG00000032051	Fdx1	-	ferredoxin 1	protein-coding	11.5	35.5	40.5	266.0	33.5	9.0	8.5	28.0
Merged-chr7-24884508-4	chr7	24884398	24884598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360119)	promoter-TSS (NM_001360119)	-94.0	NM_001360128	20085.0	Mm.300281	NM_023133	ENSMUSG00000040952	Rps19	Dsk3	ribosomal protein S19	protein-coding	224.0	364.0	197.0	2044.0	538.5	231.0	146.5	150.5
Merged-chr15-102471775-4	chr15	102471671	102471871	+	952.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001174073, intron 1 of 12)	intron (NM_001174073, intron 1 of 12)	1139.0	NM_001174073	18521.0	Mm.236513	NM_011042	ENSMUSG00000056851	Pcbp2	AW412548|Hnrpx|alphaCP-2	poly(rC) binding protein 2	protein-coding	16.0	21.5	10.0	260.0	42.0	14.5	10.5	24.0
Merged-chr10-8837855-4	chr10	8837743	8837943	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	48227.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	14.0	25.5	20.0	261.0	31.5	6.0	11.5	23.0
Merged-chr12-79070138-3	chr12	79070048	79070248	+	910.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181073, intron 18 of 28)	intron (NM_181073, intron 18 of 28)	19522.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	15.0	42.5	13.5	188.5	6.0	0.0	1.5	1.5
Merged-chr10-86881707-4	chr10	86881627	86881827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 44 of 68)	MTE2a|LTR|ERVL-MaLR	102722.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	37.5	53.5	43.0	913.5	78.5	26.0	48.0	30.0
Merged-chr1-171845137-4	chr1	171845013	171845213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	intron (NM_001289470, intron 2 of 8)	5416.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	17.0	28.5	23.0	256.5	57.0	28.0	27.0	25.5
Merged-chr17-70848425-4	chr17	70848367	70848567	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164074, intron 1 of 2)	intron (NM_001164074, intron 1 of 2)	1323.0	NM_001164076	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	20.0	19.5	23.0	248.0	51.0	16.0	15.0	21.0
Merged-chr2-26566339-2	chr2	26566239	26566439	+	995.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14717.0	NM_178444	353156.0	Mm.268933	NM_178444	ENSMUSG00000026921	Egfl7	VE-statin|Zneu1	EGF-like domain 7	protein-coding	13.5	5.5	6.0	55.0	15.0	2.0	2.5	6.5
Merged-chr14-14870667-4	chr14	14870546	14870746	+	987.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 21 of 34)	intron (NM_001195229, intron 21 of 34)	49831.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	33.0	16.0	16.0	526.0	44.5	25.5	26.5	30.5
Merged-chr19-34526913-3	chr19	34526825	34527025	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021460, intron 1 of 9)	intron (NM_021460, intron 1 of 9)	549.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	9.5	16.0	21.5	163.0	56.0	15.0	16.0	32.0
Merged-chr7-144932571-4	chr7	144932485	144932685	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007631, exon 5 of 5)	3' UTR (NM_007631, exon 5 of 5)	7340.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	26.0	29.5	17.0	451.5	61.5	14.5	27.5	20.0
Merged-chr7-80901278-4	chr7	80901169	80901369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027976)	promoter-TSS (NR_027976)	0.0	NR_152101	71968.0	Mm.274226	NM_028026	ENSMUSG00000025722	Wdr73	1200011I23Rik|2410008B13Rik|AI848574|C85352	WD repeat domain 73	protein-coding	103.0	100.0	53.0	1324.0	212.5	57.0	101.5	68.5
Merged-chr18-4337260-3	chr18	4337157	4337357	+	736.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 5 of 7)	intron (NM_007746, intron 5 of 7)	15696.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	13.5	4.5	10.5	149.5	30.0	3.5	6.0	3.5
Merged-chr9-121330196-4	chr9	121330070	121330270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	B4|SINE|B4	32668.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	31.0	36.0	57.5	629.0	62.0	16.0	31.0	34.0
Merged-chr8-70744442-4	chr8	70744353	70744553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201607, intron 3 of 16)	CpG	-10226.0	NM_001328047	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	29.0	60.0	64.0	835.0	42.0	23.0	32.5	22.0
Merged-chr14-68672054-4	chr14	68671934	68672134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16192.0	NM_183366	13522.0	Mm.117450	NM_010082	ENSMUSG00000014725	Adam28	C130072N01Rik|D430033C21Rik|Dtgn1|MDC-L|MDCL|TECADAM|eMDCII	a disintegrin and metallopeptidase domain 28	protein-coding	34.5	88.0	47.0	451.0	75.5	27.5	20.0	12.0
Merged-chr14-101586214-2	chr14	101586114	101586314	+	780.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	22977.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	6.0	6.0	9.0	47.5	15.5	6.5	2.0	5.0
Merged-chr6-30318595-2	chr6	30318495	30318695	+	701.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-14056.0	NM_001169576	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	6.0	7.0	6.5	141.0	5.0	3.5	5.5	8.5
Merged-chr6-145632427-2	chr6	145632327	145632527	+	677.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16464.0	NM_009449	22147.0	Mm.270295	NM_009449	ENSMUSG00000067338	Tuba3b	M[a]7|Tuba7	tubulin, alpha 3B	protein-coding	4.5	5.5	6.0	69.5	12.0	1.5	2.0	3.0
Merged-chr2-180041776-3	chr2	180041685	180041885	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178750)	promoter-TSS (NM_178750)	679.0	NM_001289476	26444.0	Mm.21728	NM_011969	ENSMUSG00000027566	Psma7	C6-I	proteasome (prosome, macropain) subunit, alpha type 7	protein-coding	20.0	11.5	11.0	238.0	24.5	8.5	8.0	17.5
Merged-chr1-143918559-4	chr1	143918473	143918673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85576.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	64.0	89.0	69.0	1545.5	166.0	75.5	64.5	79.5
Merged-chr17-71294819-4	chr17	71294815	71295015	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	L2c|LINE|L2	16096.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	11.0	13.0	10.5	120.0	29.5	11.5	11.0	9.5
Merged-chr7-97371652-4	chr7	97371591	97371791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199035)	promoter-TSS (NM_199035)	74.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	42.0	80.0	68.5	650.5	127.0	54.5	52.5	49.5
Merged-chr16-16896504-4	chr16	16896412	16896612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176833)	promoter-TSS (NM_176833)	43.0	NM_176833	68606.0	Mm.230296	NM_176833	ENSMUSG00000026181	Ppm1f	1110021B16Rik|4933427B07Rik|CaMKPase|Popx2|mKIAA0015	protein phosphatase 1F (PP2C domain containing)	protein-coding	176.0	231.5	115.0	1972.5	329.5	155.0	195.5	158.5
Merged-chr8-123374335-4	chr8	123374230	123374430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359076, intron 1 of 16)	CpG	619.0	NM_001286363	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	78.5	83.0	59.5	627.0	150.0	48.5	44.5	61.5
Merged-chr9-99182320-4	chr9	99182239	99182439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42128.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	281.5	438.5	334.5	3868.5	683.0	273.5	321.5	272.0
Merged-chr11-50226568-2	chr11	50226468	50226668	+	799.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_145926, intron 1 of 14)	intron (NM_145926, intron 1 of 14)	1233.0	NM_145926	103534.0	Mm.86759	NM_145926	ENSMUSG00000036620	Mgat4b	AA407995|GnTIVb	mannoside acetylglucosaminyltransferase 4, isoenzyme B	protein-coding	4.5	9.0	6.5	38.0	4.0	4.5	7.5	3.0
Merged-chr8-69008052-4	chr8	69007951	69008151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80685.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	45.5	100.5	70.5	1159.5	165.0	49.5	82.5	82.0
Merged-chr17-28762086-4	chr17	28761981	28762181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7236.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	33.0	34.5	22.0	329.5	52.0	29.0	37.0	27.0
Merged-chr12-33156982-4	chr12	33156885	33157085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	MIRb|SINE|MIR	9299.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	35.0	48.5	26.0	439.0	41.5	17.0	39.0	28.5
Merged-chr15-97786175-4	chr15	97786044	97786244	+	971.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026353, intron 1 of 2)	intron (NM_026353, intron 1 of 2)	1779.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	22.5	14.0	19.0	212.5	26.0	13.0	8.0	13.5
Merged-chr3-109340028-3	chr3	109339918	109340118	+	854.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020505)	promoter-TSS (NM_020505)	-665.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	12.5	5.0	2.0	109.0	23.5	7.5	5.0	5.0
Merged-chr19-23057041-4	chr19	23056938	23057138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84188.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	54.5	27.0	44.5	812.5	68.0	19.0	56.0	31.0
Merged-chr7-110286983-4	chr7	110286830	110287030	+	788.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65227.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	5.0	10.5	6.5	47.0	16.0	8.5	7.0	4.0
Merged-chr10-41923645-7	chr10	41923523	41923723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 15 of 17)	B1_Mus2|SINE|Alu	36184.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	17.5	33.5	26.0	111.5	52.5	24.0	30.0	24.0
Merged-chr14-47354291-4	chr14	47354185	47354385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19575.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	40.0	49.0	31.0	642.0	112.0	29.0	39.0	29.5
Merged-chr15-27863166-3	chr15	27863059	27863259	+	834.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 11 of 56)	intron (NM_001081302, intron 11 of 56)	162689.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	7.5	27.5	7.0	179.0	19.5	9.0	4.5	8.0
Merged-chr19-5490031-2	chr19	5489931	5490131	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007687)	promoter-TSS (NM_007687)	-424.0	NM_007687	12631.0	Mm.329655	NM_007687	ENSMUSG00000056201	Cfl1	AA959946|Cof	cofilin 1, non-muscle	protein-coding	6.0	18.0	4.5	45.5	49.0	18.5	11.5	21.5
Merged-chr3-79173491-4	chr3	79173416	79173616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27641.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	314.5	551.5	353.0	3596.5	728.0	301.5	322.5	273.5
Merged-chr12-4197271-4	chr12	4197221	4197421	+	932.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 7 of 21)	MTD|LTR|ERVL-MaLR	36644.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	11.5	13.0	12.5	219.5	29.0	7.5	7.0	12.5
Merged-chr2-120027502-4	chr2	120027377	120027577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114637)	promoter-TSS (NM_001114637)	-6.0	NR_104353	102238433.0	Mm.41467	NR_104353	ENSMUSG00000033852	Gm28042	Jmjd7-pla2g4b	predicted gene, 28042	ncRNA	66.5	88.0	72.0	1012.0	142.0	60.0	72.5	40.0
Merged-chr2-84479255-4	chr2	84479163	84479363	+	930.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR18-int|LTR|ERVK	-2488.0	NM_001177320	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	16.0	17.0	5.5	188.0	41.0	14.5	13.5	18.0
Merged-chr16-21204562-4	chr16	21204460	21204660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010143)	promoter-TSS (NM_010143)	-235.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	139.0	237.5	156.0	2281.0	460.0	169.5	203.5	158.0
Merged-chr3-145937999-4	chr3	145937966	145938166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356284)	promoter-TSS (NM_001356284)	52.0	NR_151446	66421.0	Mm.25137	NM_025555	ENSMUSG00000036873	2410004B18Rik	4930572C24Rik	RIKEN cDNA 2410004B18 gene	protein-coding	105.5	152.0	147.0	2068.0	250.5	101.5	134.0	135.0
Merged-chr8-82984676-3	chr8	82984578	82984778	+	914.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	ORR1F|LTR|ERVL-MaLR	121322.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	8.0	7.0	6.5	241.5	36.0	15.0	27.0	13.5
Merged-chr19-45047671-4	chr19	45047598	45047798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_155547, exon 1 of 11)	non-coding (NR_155547, exon 1 of 11)	122.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	76.5	103.0	86.0	756.0	130.0	40.0	48.0	58.5
Merged-chr4-133675918-4	chr4	133675801	133676001	+	863.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2735.0	NM_001356466	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	11.0	18.5	12.5	233.0	27.5	8.5	12.0	13.5
Merged-chr11-48858157-4	chr11	48858072	48858272	+	925.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13248.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	12.0	20.5	12.0	141.0	38.0	15.0	17.0	12.0
Merged-chr19-46152391-4	chr19	46152289	46152489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178930)	promoter-TSS (NM_178930)	-169.0	NM_178930	107338.0	Mm.271620	NM_178930	ENSMUSG00000025224	Gbf1	1700083E03Rik|AI035702|AW049900|mKIAA0248	golgi-specific brefeldin A-resistance factor 1	protein-coding	277.5	475.5	258.0	4278.5	497.5	172.5	168.0	192.5
Merged-chr17-36892477-4	chr17	36892365	36892565	+	729.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2340.0	NM_001172168	195359.0	Mm.32606	NM_001033235	ENSMUSG00000073399	Trim40	Gm319|Gm35|Gm865	tripartite motif-containing 40	protein-coding	16.0	9.5	2.0	192.5	21.0	5.0	9.0	12.0
Merged-chr17-5602160-4	chr17	5602066	5602266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	109566.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	151.0	68.0	77.5	2122.0	142.0	28.5	65.5	42.0
Merged-chr15-86182077-4	chr15	86182036	86182236	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-3592.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	12.5	9.5	21.5	260.0	23.5	11.5	9.5	11.5
Merged-chr2-37452150-4	chr2	37452068	37452268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033960)	promoter-TSS (NM_001033960)	-86.0	NM_001033960	227800.0	Mm.383192	NM_146121	ENSMUSG00000035437	Rabgap1	Gapcena|mKIAA4104	RAB GTPase activating protein 1	protein-coding	191.5	257.5	175.0	2979.5	484.5	157.0	266.5	188.5
Merged-chr2-136891116-3	chr2	136891056	136891256	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028201)	promoter-TSS (NM_028201)	-62.0	NM_028201	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	66.5	84.5	66.0	1136.5	255.0	117.0	135.5	116.5
Merged-chr2-93461009-4	chr2	93460894	93461094	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040532, intron 2 of 4)	intron (NR_040532, intron 2 of 4)	857.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	18.5	33.5	19.5	206.5	89.5	24.0	19.0	16.0
Merged-chr13-62971056-4	chr13	62970941	62971141	+	927.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 1 of 15)	intron (NM_001289926, intron 1 of 15)	6148.0	NM_001289924	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	26.0	37.5	48.5	373.0	30.0	11.0	25.0	12.5
Merged-chr13-58486803-2	chr13	58486703	58486903	+	986.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83460.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	5.0	2.5	3.5	78.0	12.5	4.5	5.5	6.0
Merged-chr11-60697692-3	chr11	60697587	60697787	+	874.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2003.0	NM_001159405	16897.0	Mm.285453	NM_008502	ENSMUSG00000020536	Llgl1	AI325176|Lgl1|Llglh|Mgl1	LLGL1 scribble cell polarity complex component	protein-coding	13.0	13.0	5.0	73.0	25.0	10.5	3.0	15.0
Merged-chr13-41552834-4	chr13	41552705	41552905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-53411.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	18.5	36.0	34.0	382.0	92.0	29.5	37.0	35.5
Merged-chr1-54585403-4	chr1	54585309	54585509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27725.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	38.0	50.5	63.0	786.0	106.5	26.5	37.5	28.5
Merged-chr7-110236318-4	chr7	110236229	110236429	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 1 of 11)	intron (NM_009302, intron 1 of 11)	14626.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	14.5	17.5	18.0	413.0	27.0	7.5	13.5	9.0
Merged-chr2-84634400-4	chr2	84634359	84634559	+	901.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	(TC)n|Simple_repeat|Simple_repeat	15021.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	14.0	21.0	6.0	147.0	13.0	3.0	5.5	9.5
Merged-chr13-114071660-4	chr13	114071582	114071782	+	829.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 4 of 4)	L1MA4|LINE|L1	79910.0	NR_045836	319803.0	Mm.386896	NM_177004	ENSMUSG00000114213	A430090L17Rik	-	RIKEN cDNA A430090L17 gene	ncRNA	5.0	5.0	7.5	154.0	30.0	8.0	9.0	9.5
Merged-chr2-129310023-4	chr2	129309929	129310129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010554)	promoter-TSS (NM_010554)	-57.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	46.0	103.0	63.0	619.5	162.0	48.5	73.0	55.0
Merged-chr2-131430628-4	chr2	131430530	131430730	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61232.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	19.5	45.5	15.0	239.0	60.0	13.5	16.5	7.5
Merged-chr12-102748319-4	chr12	102748232	102748432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142939, intron 1 of 1)	intron (NM_001142939, intron 1 of 1)	4572.0	NM_177140	320351.0	Mm.86546	NM_177140	ENSMUSG00000046675	Tmem251	D230037D09Rik	transmembrane protein 251	protein-coding	88.0	129.0	82.0	2112.5	231.0	80.5	106.5	97.0
Merged-chr4-57928039-3	chr4	57927946	57928146	+	693.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11782.0	NM_178727	242484.0	Mm.23214	NM_178727	ENSMUSG00000052117	D630039A03Rik	-	RIKEN cDNA D630039A03 gene	protein-coding	2.0	16.5	4.5	50.0	22.5	10.0	11.0	10.0
Merged-chr7-144553281-2	chr7	144553181	144553381	+	777.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001195086, intron 1 of 31)	intron (NM_001195086, intron 1 of 31)	448.0	NM_001033319	233977.0	Mm.490347	NM_001033319	ENSMUSG00000037519	Ppfia1	C030014K08Rik|C87158|LIP.1|LIP1	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1	protein-coding	5.0	6.5	6.0	80.0	16.0	6.0	6.5	7.0
Merged-chr7-142095356-4	chr7	142095264	142095464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008748)	promoter-TSS (NM_008748)	-80.0	NM_008748	18218.0	Mm.39725	NM_008748	ENSMUSG00000037887	Dusp8	5530400B01Rik|AI593498|Nttp1	dual specificity phosphatase 8	protein-coding	102.5	230.0	74.5	1441.0	199.5	76.5	71.0	89.0
Merged-chr2-109913376-4	chr2	109913248	109913448	+	734.488098	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033473)	promoter-TSS (NR_033473)	-29.0	NR_033473	100038454.0	Mm.365649	NR_033473	ENSMUSG00000063751	Platr8	Gm13939	pluripotency associated transcript 8	ncRNA	5.5	6.0	6.0	60.0	7.5	3.0	7.5	2.5
Merged-chr16-11456485-4	chr16	11456371	11456571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 13 of 20)	intron (NM_028964, intron 13 of 20)	50823.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	128.5	227.5	145.5	1295.5	545.5	254.5	258.0	243.5
Merged-chr3-27742338-4	chr3	27742238	27742438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31886.0	NM_173182	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	75.0	100.5	52.5	891.5	134.5	50.5	55.5	52.5
Merged-chr17-13760283-4	chr17	13760203	13760403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010806)	promoter-TSS (NM_010806)	-238.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	30.5	55.0	31.0	579.0	72.5	33.0	44.5	39.0
Merged-chr2-94405640-4	chr2	94405539	94405739	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183106, intron 1 of 24)	(CA)n|Simple_repeat|Simple_repeat	1050.0	NM_183106	74569.0	Mm.248504	NM_183106	ENSMUSG00000027194	Ttc17	9130020K17Rik|D2Bwg1005e	tetratricopeptide repeat domain 17	protein-coding	6.5	1.0	8.5	175.5	38.5	11.5	9.0	19.0
Merged-chr17-65604517-4	chr17	65604407	65604607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355402, intron 1 of 6)	MTE2b|LTR|ERVL-MaLR	9048.0	NM_001355402	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	38.0	37.5	21.0	400.5	74.0	33.5	33.5	41.5
Merged-chr1-134099306-4	chr1	134099195	134099395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11947.0	NM_001284525	71884.0	Mm.328268	NM_027979	ENSMUSG00000026450	Chit1	2300002L19Rik	chitinase 1 (chitotriosidase)	protein-coding	190.0	289.0	296.5	3178.0	468.5	180.5	281.5	215.0
Merged-chr2-35330975-4	chr2	35330864	35331064	+	962.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	6045.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	18.0	51.0	17.5	284.0	62.5	28.0	13.0	16.0
Merged-chr2-70092340-2	chr2	70092240	70092440	+	844.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177376, intron 2 of 34)	RLTR21|LTR|ERVK	53214.0	NM_177376	329421.0	Mm.99648	NM_177376	ENSMUSG00000042064	Myo3b	A430065P19Rik	myosin IIIB	protein-coding	7.0	6.5	9.0	129.0	4.5	1.0	1.5	2.5
Merged-chr14-55680830-3	chr14	55680727	55680927	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145705, exon 4 of 9)	exon (NM_145705, exon 4 of 9)	990.0	NM_145705	28113.0	Mm.29346	NM_145705	ENSMUSG00000007589	Tinf2	AW552114|D14Wsu146e|Tin2	Terf1 (TRF1)-interacting nuclear factor 2	protein-coding	12.0	19.5	3.5	70.0	17.5	15.0	9.5	6.5
Merged-chr11-82035455-4	chr11	82035373	82035573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011333)	promoter-TSS (NM_011333)	-104.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	106.0	196.5	110.5	1692.0	264.0	114.0	134.0	105.5
Merged-chr14-73234710-4	chr14	73234615	73234815	+	958.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	-3176.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	13.5	22.0	22.0	391.0	36.0	12.0	21.0	20.5
Merged-chr4-132303348-4	chr4	132303273	132303473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081651)	promoter-TSS (NM_001081651)	-17.0	NM_001081651	242681.0	Mm.331927	NM_001081651	ENSMUSG00000089687	Rab42	9530096D07Rik|Rab42-ps	RAB42, member RAS oncogene family	protein-coding	36.0	79.0	38.0	558.0	100.5	33.0	42.5	44.5
Merged-chr13-74040158-3	chr13	74040062	74040262	+	962.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028959, exon 11 of 12)	exon (NM_028959, exon 11 of 12)	22123.0	NM_028959	74470.0	Mm.73234	NM_028959	ENSMUSG00000021572	Cep72	2610029E11Rik|4933440J22Rik	centrosomal protein 72	protein-coding	15.5	17.0	11.0	260.5	20.0	9.5	7.5	13.0
Merged-chr8-46770116-4	chr8	46770011	46770211	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	30366.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	17.5	17.0	13.5	295.0	38.0	8.5	21.5	12.0
Merged-chr12-75658686-4	chr12	75658604	75658804	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028203, intron 1 of 1)	MTC|LTR|ERVL-MaLR	10833.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	10.5	16.5	7.5	267.5	25.5	8.0	6.0	9.5
Merged-chr6-129237039-4	chr6	129236946	129237146	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040268, intron 2 of 3)	MTE2a|LTR|ERVL-MaLR	999.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	24.0	30.5	22.0	155.5	71.5	15.0	11.5	19.5
Merged-chr7-99130227-4	chr7	99130132	99130332	+	921.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	10912.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	16.5	37.0	8.0	35.5	75.5	19.0	25.5	16.5
Merged-chr10-25058891-4	chr10	25058789	25058989	+	660.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131419.0	NM_007482	11846.0	Mm.154144	NM_007482	ENSMUSG00000019987	Arg1	AI|AI256583|Arg-1|PGIF	arginase, liver	protein-coding	13.0	6.5	8.5	96.0	25.0	4.5	14.0	3.0
Merged-chr11-88070643-3	chr11	88070542	88070742	+	792.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016686, intron 1 of 5)	intron (NM_016686, intron 1 of 5)	2363.0	NM_016686	22344.0	Mm.46628	NM_016686	ENSMUSG00000018377	Vezf1	AI848691|AW046909|db1	vascular endothelial zinc finger 1	protein-coding	7.5	14.0	4.5	141.0	18.0	6.0	8.5	13.0
Merged-chr13-92267279-2	chr13	92267179	92267379	+	621.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001311120, intron 15 of 23)	Lx8|LINE|L1	-87504.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	2.0	4.0	3.5	109.0	15.5	6.0	8.5	9.5
Merged-chr5-118155384-4	chr5	118155177	118155377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172721, exon 1 of 11)	exon (NM_172721, exon 1 of 11)	181.0	NM_172721	231672.0	Mm.221769	NM_172721	ENSMUSG00000032867	Fbxw8	4930438M06Rik|FBW6|FBW8|FBXO29|Fbx29	F-box and WD-40 domain protein 8	protein-coding	9.5	16.5	23.0	148.5	32.5	14.0	12.5	17.5
Merged-chr3-51415929-4	chr3	51415769	51415969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053089)	promoter-TSS (NM_053089)	-147.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	58.0	82.0	60.0	918.5	143.0	56.0	61.0	53.0
Merged-chr11-6561047-4	chr11	6560962	6561162	+	974.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190344, intron 1 of 9)	intron (NM_001190344, intron 1 of 9)	879.0	NM_001190344	216527.0	Mm.221271	NM_146014	ENSMUSG00000000378	Ccm2	BC029157	cerebral cavernous malformation 2	protein-coding	31.0	25.5	69.0	682.5	41.0	11.5	28.0	32.5
Merged-chr17-23193695-4	chr17	23193603	23193803	+	946.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009555)	promoter-TSS (NM_009555)	-451.0	NM_001357697	22700.0	Mm.437934	NM_009555	ENSMUSG00000002617	Zfp40	CTfin12|NTfin12|Zfp-40	zinc finger protein 40	protein-coding	26.5	42.0	19.5	521.0	30.0	22.0	23.0	12.5
Merged-chr16-10417501-3	chr16	10417406	10417606	+	889.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011955, intron 3 of 10)	intron (NM_011955, intron 3 of 10)	5568.0	NM_011955	26425.0	Mm.29037	NM_011955	ENSMUSG00000022503	Nubp1	-	nucleotide binding protein 1	protein-coding	9.0	14.0	8.5	142.5	50.5	9.0	7.5	7.5
Merged-chr14-121938866-4	chr14	121938732	121938932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-23058.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	97.5	132.0	51.0	1028.5	148.0	53.0	45.0	47.5
Merged-chr9-59723313-4	chr9	59723239	59723439	+	839.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15575.0	NM_001033498	546134.0	Mm.297580	NM_001033498	ENSMUSG00000074259	Gramd2	BC064463|Gramd2a	GRAM domain containing 2	protein-coding	8.5	14.0	7.5	145.5	38.5	5.5	6.5	12.5
Merged-chr5-64210036-3	chr5	64209922	64210122	+	711.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-20335.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	12.5	20.0	23.0	185.0	4.5	3.0	7.0	8.5
Merged-chr1-155494604-4	chr1	155494497	155494697	+	924.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32514.0	NR_132128	433367.0	Mm.359304	NR_132128	ENSMUSG00000073535	Gm5532	EG433367	predicted gene 5532	ncRNA	9.0	23.0	9.5	197.5	34.0	10.0	25.0	31.0
Merged-chr5-124022546-4	chr5	124022446	124022646	+	981.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	9714.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	17.5	17.0	20.5	247.0	52.0	14.5	25.5	14.0
Merged-chr5-136919099-4	chr5	136918979	136919179	+	963.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015555)	promoter-TSS (NR_015555)	-67.0	NR_015555	66752.0	Mm.135764	NR_015555	ENSMUSG00000097908	4933404O12Rik	AW494809	RIKEN cDNA 4933404O12 gene	ncRNA	13.5	16.0	5.5	144.0	39.5	11.5	16.5	31.0
Merged-chr10-40349836-4	chr10	40349736	40349936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291816, intron 1 of 11)	CpG	528.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	12.0	13.5	15.5	309.5	29.0	25.5	18.0	25.0
Merged-chr3-98042513-4	chr3	98042406	98042606	+	751.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	28968.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	10.5	9.0	12.0	126.0	34.0	19.5	9.0	10.5
Merged-chr7-141902508-4	chr7	141902409	141902609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347562)	promoter-TSS (NM_001347562)	-48.0	NM_001347562	54473.0	Mm.103551	NM_023764	ENSMUSG00000025139	Tollip	4930403G24Rik|4931428G15Rik	toll interacting protein	protein-coding	149.0	224.5	132.5	1639.5	355.5	143.0	160.5	130.5
Merged-chr9-5308174-4	chr9	5308073	5308273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007609)	promoter-TSS (NM_007609)	-676.0	NM_007609	12363.0	Mm.1569	NM_007609	ENSMUSG00000033538	Casp4	CASP-11|CASP-4|Casp11|Caspl|ich-3	caspase 4, apoptosis-related cysteine peptidase	protein-coding	60.5	57.0	24.5	379.0	76.5	32.0	27.0	27.0
Merged-chr18-36559886-4	chr18	36559804	36560004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175375)	promoter-TSS (NM_175375)	-699.0	NM_175375	108857.0	Mm.482287	NM_175375	ENSMUSG00000024483	Ankhd1	1110004O12Rik|4933432B13Rik|9130019P20Rik|A530027J04Rik|A630021B20Rik|AA571404|Mask|mFLJ00246|mKIAA1085	ankyrin repeat and KH domain containing 1	protein-coding	78.0	118.5	51.5	910.5	175.0	74.0	69.5	87.5
Merged-chr2-45196693-4	chr2	45196587	45196787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79245.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	63.5	87.5	69.5	1030.5	166.0	45.5	72.0	60.5
Merged-chr16-4559051-2	chr16	4558951	4559151	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_031182, intron 1 of 6)	CpG	669.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	20.0	39.0	12.5	218.0	37.0	7.5	18.0	18.0
Merged-chr10-20653481-4	chr10	20653366	20653566	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	B4A|SINE|B4	71612.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	42.0	53.5	34.5	763.0	86.5	26.5	33.5	21.0
Merged-chr6-134595016-5	chr6	134594845	134595045	+	970.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-28032.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	14.0	21.5	26.5	438.5	47.0	18.5	16.0	23.0
Merged-chr1-85598793-4	chr1	85598682	85598882	+	891.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030194)	promoter-TSS (NM_030194)	28.0	NM_030194	109032.0	Mm.335802	NM_030194	ENSMUSG00000070034	Sp110	5031415C07Rik|52kDa|5830484A20Rik|Ifi75|Ipr1	Sp110 nuclear body protein	protein-coding	15.0	27.0	12.0	135.0	33.5	13.5	19.5	15.0
Merged-chr6-55017760-4	chr6	55017575	55017775	+	862.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20326.0	NM_180678	353172.0	Mm.250004	NM_180678	ENSMUSG00000029777	Gars	GENA202|Gena201|Nmf249|Sgrp23	glycyl-tRNA synthetase	protein-coding	11.5	12.0	8.5	213.0	13.5	14.5	4.5	17.5
Merged-chr7-145293426-4	chr7	145293340	145293540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7469.0	NM_145379	211577.0	Mm.215151	NM_145379	ENSMUSG00000031070	Mrgprf	BC019711|Mgrc|MrgF	MAS-related GPR, member F	protein-coding	101.0	133.0	123.0	1556.0	203.0	79.0	127.0	74.5
Merged-chr3-95457907-4	chr3	95457734	95457934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037737, intron 3 of 21)	intron (NM_001037737, intron 3 of 21)	23444.0	NM_001037737	11863.0	Mm.250265	NM_009709	ENSMUSG00000015522	Arnt	D3Ertd557e|Drnt|ESTM42|Hif1b|W08714|bHLHe2|mKIAA4051	aryl hydrocarbon receptor nuclear translocator	protein-coding	14.0	18.5	22.5	231.5	38.0	12.5	14.5	13.5
Merged-chr10-82867081-4	chr10	82866982	82867182	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025499, exon 1 of 1)	exon (NM_025499, exon 1 of 1)	456.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	21.0	29.5	43.5	360.5	59.5	23.0	30.0	22.0
Merged-chr3-16005617-3	chr3	16005520	16005720	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081687, intron 1 of 3)	Lx2|LINE|L1	712.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	4.5	8.5	12.0	79.5	14.0	3.5	6.0	13.5
Merged-chr7-112233602-1	chr7	112233502	112233702	+	860.0	f0_balb.idr	intron (NM_001193305, intron 1 of 25)	intron (NM_001193305, intron 1 of 25)	7766.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	9.0	5.5	12.5	204.5	0.0	0.5	1.5	0.0
Merged-chr10-68126271-4	chr10	68126178	68126378	+	881.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 7 of 9)	intron (NM_023598, intron 7 of 9)	146708.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	23.5	14.0	13.0	137.5	21.0	13.0	13.0	10.5
Merged-chr16-16524538-3	chr16	16524444	16524644	+	724.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	2867.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	10.5	13.0	13.5	136.0	12.0	1.0	3.0	3.0
Merged-chr12-55493497-2	chr12	55493397	55493597	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010907)	promoter-TSS (NM_010907)	-850.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	3.0	9.5	13.5	59.5	14.5	5.5	9.0	10.0
Merged-chr7-84197595-3	chr7	84197462	84197662	+	863.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45669.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	1.0	13.0	4.0	33.5	30.5	15.5	10.5	12.0
Merged-chr9-65524153-4	chr9	65524036	65524236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55951.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	33.0	50.0	24.5	334.0	100.0	27.0	45.5	36.5
Merged-chr9-15015828-4	chr9	15015781	15015981	+	778.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019482, intron 2 of 4)	intron (NM_019482, intron 2 of 4)	29597.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	0.5	7.0	2.0	55.5	14.5	6.0	5.5	11.0
Merged-chr14-70927631-4	chr14	70927524	70927724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	37517.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	47.5	47.5	52.0	942.0	151.0	33.5	53.0	50.5
Merged-chr15-5236724-4	chr15	5236625	5236825	+	771.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136079, intron 2 of 2)	intron (NM_001136079, intron 2 of 2)	7462.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	12.0	13.5	3.0	164.5	30.5	14.0	14.0	10.0
Merged-chr12-3981537-4	chr12	3981446	3981646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082483, intron 10 of 22)	intron (NM_001082483, intron 10 of 22)	26601.0	NM_001278583	18976.0	Mm.277996	NM_008895	ENSMUSG00000020660	Pomc	ACTH|BE|Beta-LPH|Clip|Gamma-LPH|Npp|Pomc-1|Pomc1|alpha-MSH|alphaMSH|beta-MSH|gamma-MSH	pro-opiomelanocortin-alpha	protein-coding	90.5	135.5	79.5	1462.5	176.5	60.5	133.5	86.5
Merged-chr10-4431007-1	chr10	4430907	4431107	+	811.0	f0_balb.idr	intron (NM_001358796, intron 1 of 13)	MTEb|LTR|ERVL-MaLR	1381.0	NM_025343	66084.0	Mm.153111	NM_025343	ENSMUSG00000019763	Rmnd1	0610042C05Rik|AA408137|AI462664|AW536662	required for meiotic nuclear division 1 homolog	protein-coding	2.5	10.5	28.5	161.0	17.5	6.5	8.5	11.0
Merged-chr10-34207805-4	chr10	34207696	34207896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172508)	promoter-TSS (NM_172508)	-245.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	21.5	42.0	16.0	64.5	60.0	23.0	20.5	8.0
Merged-chr8-88137847-4	chr8	88137749	88137949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106039)	promoter-TSS (NR_106039)	-36.0	NM_172757	234549.0	Mm.36291	NM_172757	ENSMUSG00000031657	Heatr3	C030036P15Rik	HEAT repeat containing 3	protein-coding	50.5	67.0	44.0	750.0	115.5	26.5	54.0	52.0
Merged-chr7-19006651-4	chr7	19006497	19006697	+	944.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178757, exon 1 of 1)	3' UTR (NM_178757, exon 1 of 1)	2532.0	NM_178757	272359.0	Mm.274237	NM_178757	ENSMUSG00000044030	Irf2bp1	6330414O09Rik|C530033F24	interferon regulatory factor 2 binding protein 1	protein-coding	22.0	11.5	7.0	117.0	20.5	9.0	10.0	10.0
Merged-chr15-84131651-4	chr15	84131538	84131738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8463.0	NM_029427	75772.0	Mm.159565	NM_029427	ENSMUSG00000018868	Pnpla5	4833426H19Rik|GS2L	patatin-like phospholipase domain containing 5	protein-coding	44.0	34.5	55.0	914.5	46.5	24.5	25.0	38.5
Merged-chr11-43767107-4	chr11	43767002	43767202	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-19129.0	NM_133795	66827.0	Mm.271974	NM_133795	ENSMUSG00000041278	Ttc1	4833412C19Rik|C79328|TPR1	tetratricopeptide repeat domain 1	protein-coding	20.5	36.5	30.0	249.5	36.5	11.5	21.0	23.0
Merged-chr8-61896960-4	chr8	61896853	61897053	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 1 of 21)	intron (NM_001293772, intron 1 of 21)	5737.0	NM_001081390	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	13.5	30.5	20.0	349.0	34.0	5.5	19.5	8.5
Merged-chr5-23598136-3	chr5	23598035	23598235	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152854, intron 2 of 14)	MTC|LTR|ERVL-MaLR	18436.0	NM_001359175	20817.0	Mm.288728	NM_009274	ENSMUSG00000062604	Srpk2	AW226533|AW492537|AW547358|Wbp6|mSRPK2	serine/arginine-rich protein specific kinase 2	protein-coding	15.0	11.5	10.5	287.0	15.5	3.5	9.5	8.0
Merged-chr2-119050422-1	chr2	119050322	119050522	+	619.0	f0_balb.idr	intron (NM_029617, intron 1 of 23)	intron (NM_029617, intron 1 of 23)	3303.0	NM_029617	76464.0	Mm.202518	NM_029617	ENSMUSG00000027326	Knl1	2310043D08Rik|5730505K17Rik|Casc5	kinetochore scaffold 1	protein-coding	10.5	10.5	4.5	73.5	13.0	4.0	8.5	8.0
Merged-chr1-43915362-4	chr1	43915276	43915476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18618.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	58.0	97.5	86.0	705.5	127.5	42.5	52.5	40.5
Merged-chr15-102136289-4	chr15	102136180	102136380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033277)	promoter-TSS (NM_001033277)	-65.0	NM_001033277	223918.0	Mm.385009	NM_001033277	ENSMUSG00000036966	Spryd3	BC008150	SPRY domain containing 3	protein-coding	179.0	201.0	99.5	2167.0	397.5	151.0	171.0	157.0
Merged-chr5-44050381-4	chr5	44050266	44050466	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163578, intron 3 of 22)	intron (NM_001163578, intron 3 of 22)	44402.0	NM_001163581	19126.0	Mm.6250	NM_008935	ENSMUSG00000029086	Prom1	4932416E19Rik|AC133|CD133|Prom|Prom-1|Proml1	prominin 1	protein-coding	18.5	21.5	23.0	494.0	88.0	34.0	33.0	29.5
Merged-chr6-56901999-4	chr6	56901913	56902113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252374)	promoter-TSS (NM_001252374)	-127.0	NM_001252374	107569.0	Mm.158936	NM_026004	ENSMUSG00000029780	Nt5c3	1600024P05Rik|2610206B05Rik|3110004A18Rik|AI842776|Nt5c3a|Nt5y|P5'N-1|P5N-1|PN-1|PN-I|PSN1|UMPH|Umph-1|Umph1|cN-III|lupin|p36	5'-nucleotidase, cytosolic III	protein-coding	45.0	51.0	56.0	823.5	139.5	55.5	65.5	65.0
Merged-chr6-21985920-4	chr6	21985814	21986014	+	880.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081351)	promoter-TSS (NM_001081351)	4.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	14.5	10.5	10.0	251.5	34.5	8.5	6.5	8.0
Merged-chr3-95629958-3	chr3	95629848	95630048	+	829.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001026212, exon 3 of 3)	3' UTR (NM_001026212, exon 3 of 3)	4968.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	9.5	5.0	10.0	130.0	21.5	6.5	5.0	17.0
Merged-chr2-91205620-4	chr2	91205561	91205761	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357067, intron 3 of 10)	intron (NM_001357067, intron 3 of 10)	2749.0	NM_007387	11432.0	Mm.45570	NM_007387	ENSMUSG00000002103	Acp2	Acp-2|LAP	acid phosphatase 2, lysosomal	protein-coding	20.0	10.0	28.5	226.5	38.5	9.0	14.5	27.0
Merged-chr5-8911771-3	chr5	8911625	8911825	+	643.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008830, intron 8 of 27)	intron (NM_008830, intron 8 of 27)	18004.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	6.0	9.0	5.5	27.5	5.5	0.5	4.0	5.5
Merged-chr3-145628040-4	chr3	145627961	145628161	+	612.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21924.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	5.0	7.5	2.5	112.5	28.5	4.5	16.5	9.5
Merged-chr17-5190236-4	chr17	5190144	5190344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	195170.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	79.5	106.0	81.0	937.0	139.0	79.5	92.0	88.5
Merged-chr3-101812670-3	chr3	101812547	101812747	+	743.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172295)	TTS (NM_172295)	23576.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	4.5	15.5	7.5	91.5	11.0	6.5	4.0	11.5
Merged-chr6-129200178-4	chr6	129200053	129200253	+	850.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	19538.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	12.0	53.5	29.0	191.5	23.5	4.5	9.5	13.0
Merged-chr16-4003821-4	chr16	4003712	4003912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2134.0	NM_177472	52864.0	Mm.29935	NM_177472	ENSMUSG00000039738	Slx4	AI256635|AI426760|Btbd12|D16Bwg1016e	SLX4 structure-specific endonuclease subunit homolog (S. cerevisiae)	protein-coding	195.0	233.0	180.5	2612.0	444.0	179.0	205.0	180.5
Merged-chr1-88584801-2	chr1	88584701	88584901	+	598.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33284.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	6.5	6.0	4.5	18.5	7.5	3.0	6.5	2.5
Merged-chr8-115597325-4	chr8	115597218	115597418	+	989.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109576.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	26.5	28.0	16.0	297.5	68.0	18.0	22.0	17.5
Merged-chr10-56378058-3	chr10	56377987	56378187	+	867.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010288, intron 1 of 1)	intron (NM_010288, intron 1 of 1)	787.0	NM_010288	14609.0	Mm.378921	NM_010288	ENSMUSG00000050953	Gja1	AU042049|AW546267|Cnx43|Cx43|Cx43alpha1|Gja-1|Npm1|connexin43	gap junction protein, alpha 1	protein-coding	9.0	12.0	9.0	127.0	8.5	4.5	2.0	4.0
Merged-chr2-38378490-4	chr2	38378394	38378594	+	716.287476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27186.0	NM_010710	16870.0	Mm.142856	NM_010710	ENSMUSG00000000247	Lhx2	LH2A|Lh-2|Lim2|ap|apterous	LIM homeobox protein 2	protein-coding	10.5	25.5	6.5	93.5	29.0	4.0	8.0	10.5
Merged-chr2-30242756-4	chr2	30242634	30242834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177725, intron 2 of 3)	intron (NM_177725, intron 2 of 3)	4965.0	NM_177725	241296.0	Mm.389232	NM_177725	ENSMUSG00000007476	Lrrc8a	Lrrc8|mKIAA1437	leucine rich repeat containing 8A	protein-coding	45.5	85.0	31.0	980.5	78.5	18.5	44.0	28.0
Merged-chr13-14062714-4	chr13	14062616	14062816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331178, intron 1 of 4)	intron (NM_001331178, intron 1 of 4)	772.0	NM_001331119	14593.0	Mm.148039	NM_010282	ENSMUSG00000021302	Ggps1	1810026C22Rik|9530089B04Rik|AI843169|C79210	geranylgeranyl diphosphate synthase 1	protein-coding	20.0	60.5	30.0	452.0	100.0	23.0	27.0	30.5
Merged-chr6-32183920-4	chr6	32183810	32184010	+	891.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 22 of 31)	intron (NM_175750, intron 22 of 31)	133622.0	NM_029587	76382.0	Mm.23510	NM_029587	ENSMUSG00000029766	1700012A03Rik	AI429084	RIKEN cDNA 1700012A03 gene	protein-coding	15.0	11.0	17.0	381.5	30.0	2.0	7.5	14.0
Merged-chr5-74068500-4	chr5	74068466	74068666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177561)	promoter-TSS (NM_177561)	-155.0	NM_177561	69727.0	Mm.48795	NM_177561	ENSMUSG00000054814	Usp46	1190009E20Rik|2410018I08Rik|AI451644	ubiquitin specific peptidase 46	protein-coding	44.0	65.0	72.0	657.5	75.0	31.5	53.5	35.0
Merged-chr3-45254997-3	chr3	45254894	45255094	+	693.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	123266.0	NR_045172	72511.0	Mm.140700	NR_045172	ENSMUSG00000097040	2610316D01Rik	-	RIKEN cDNA 2610316D01 gene	ncRNA	23.0	26.5	18.0	153.0	33.0	5.5	4.5	7.5
Merged-chr12-54791645-3	chr12	54791555	54791755	+	996.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026998, intron 2 of 13)	intron (NM_026998, intron 2 of 13)	4007.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	15.5	27.5	18.5	278.0	19.0	3.5	9.0	17.0
Merged-chr7-88242319-3	chr7	88242225	88242425	+	683.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35760.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	6.5	7.5	9.0	104.5	16.5	7.5	0.5	4.0
Merged-chr6-35500172-2	chr6	35500072	35500272	+	564.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	39716.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	6.0	6.5	4.5	79.0	7.0	2.0	3.5	3.5
Merged-chr4-44292769-3	chr4	44292676	44292876	+	825.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8141.0	NM_010790	17279.0	Mm.268668	NM_010790	ENSMUSG00000035683	Melk	AI327312|MPK38|mKIAA0175	maternal embryonic leucine zipper kinase	protein-coding	2.5	3.0	4.0	49.5	29.0	9.0	6.0	17.5
Merged-chr6-121147054-4	chr6	121146953	121147153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16031.0	NM_001270475	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	49.0	106.5	58.5	1183.0	105.0	45.0	77.0	87.0
Merged-chr16-91548158-4	chr16	91548059	91548259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 1 of 6)	intron (NM_008338, intron 1 of 6)	1065.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	50.0	65.0	57.0	961.0	128.5	47.5	57.0	50.5
Merged-chr7-120984655-4	chr7	120984551	120984751	+	923.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028955, intron 1 of 7)	intron (NM_028955, intron 1 of 7)	2142.0	NM_028955	74466.0	Mm.189707	NM_028955	ENSMUSG00000030877	Mfsd13b	4933427G17Rik	major facilitator superfamily domain containing 13B	protein-coding	19.0	10.5	9.5	337.5	17.5	6.0	17.5	22.0
Merged-chr1-85698351-3	chr1	85698244	85698444	+	660.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013673, intron 14 of 19)	intron (NM_013673, intron 14 of 19)	38262.0	NM_177055	319997.0	Mm.116691	NM_177055	ENSMUSG00000052760	A630001G21Rik	-	RIKEN cDNA A630001G21 gene	protein-coding	4.5	8.0	5.5	89.0	12.5	4.5	5.0	4.5
Merged-chr11-50915832-3	chr11	50915726	50915926	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294323, intron 1 of 5)	CpG	350.0	NM_178447	22678.0	Mm.259230	NM_009550	ENSMUSG00000049321	Zfp2	9930007F06Rik|Fnp-2|Zfp-2|mKR2|mkr-2|mszf87	zinc finger protein 2	protein-coding	14.0	12.0	23.0	210.5	23.0	11.0	10.5	22.0
Merged-chr7-19573345-4	chr7	19573219	19573419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027189)	promoter-TSS (NM_027189)	24.0	NM_027189	69731.0	Mm.24540	NM_027189	ENSMUSG00000044709	Gemin7	2400008I04Rik|AI120175|AI461688	gem nuclear organelle associated protein 7	protein-coding	27.0	52.0	35.5	366.5	75.0	35.0	33.5	49.5
Merged-chr8-72572077-4	chr8	72571973	72572173	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151663, exon 1 of 3)	non-coding (NR_151663, exon 1 of 3)	250.0	NM_001357279	74166.0	Mm.212927	NM_144534	ENSMUSG00000031791	Tmem38a	1110001E17Rik|AI413399|SPR-27|TRIC-A|mg33a	transmembrane protein 38A	protein-coding	55.5	42.5	24.0	657.5	58.0	25.5	25.0	18.5
Merged-chr1-166802158-4	chr1	166802065	166802265	+	866.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120320.0	NM_001347135	240894.0	Mm.246610	NM_172844	ENSMUSG00000026560	Fmo9	4831428F09Rik	flavin containing monooxygenase 9	protein-coding	10.0	16.0	14.5	286.5	23.0	8.5	17.0	17.5
Merged-chr16-17928805-4	chr16	17928702	17928902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153150)	promoter-TSS (NM_153150)	-583.0	NM_153150	13358.0	Mm.229291	NM_153150	ENSMUSG00000003528	Slc25a1	1300019P08Rik|2610100G11Rik|AI194714|Ctp|Dgsj|Slc20a3	solute carrier family 25 (mitochondrial carrier, citrate transporter), member 1	protein-coding	67.5	110.5	56.5	761.0	209.0	57.5	71.0	77.0
Merged-chr7-127297319-4	chr7	127297215	127297415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253873, intron 1 of 30)	intron (NM_001253873, intron 1 of 30)	1055.0	NM_001253874	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	93.0	202.5	88.5	921.0	234.0	98.0	87.0	44.0
Merged-chr9-121605613-4	chr9	121605518	121605718	+	930.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040740, intron 3 of 3)	intron (NR_040740, intron 3 of 3)	18598.0	NR_040740	75384.0	Mm.445955	NR_040740	ENSMUSG00000084995	Lyzl4os	4930589B17Rik|4930596M17Rik	lysozyme-like 4, opposite strand	ncRNA	10.0	19.5	5.5	118.5	49.0	6.5	17.0	19.0
Merged-chr9-113663666-4	chr9	113663556	113663756	+	908.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164678, intron 12 of 17)	B4A|SINE|B4	44603.0	NM_001164678	18571.0	Mm.29816	NM_011052	ENSMUSG00000032504	Pdcd6ip	AI480591|AW544830|Aip1|Alix|C76364|Eig2|mKIAA1375	programmed cell death 6 interacting protein	protein-coding	6.5	9.5	15.5	332.0	29.5	14.0	17.5	18.0
Merged-chr4-105149681-4	chr4	105149624	105149824	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58B|DNA|hAT-Charlie	-7623.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	2.0	3.0	15.5	245.5	26.0	6.0	15.0	17.0
Merged-chr7-125470132-3	chr7	125470035	125470235	+	843.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360659, intron 5 of 7)	intron (NM_001360659, intron 5 of 7)	21407.0	NM_001360659	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	3.0	10.0	3.0	42.0	34.5	4.5	13.5	8.5
Merged-chr14-29966234-6	chr14	29966220	29966420	+	917.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	-2060.0	NM_019979	80795.0	Mm.104491	NM_019979	ENSMUSG00000042682	Selenok	1110001C03Rik|AA673253|HSPC030|Hsp30|Selk	selenoprotein K	protein-coding	6.5	8.0	5.0	101.5	27.5	10.5	4.5	15.0
Merged-chr12-108913038-4	chr12	108912942	108913142	+	966.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	18770.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	31.0	32.5	27.5	504.0	59.0	14.0	20.5	23.0
Merged-chr1-136116370-4	chr1	136116260	136116460	+	847.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081023, intron 40 of 43)	intron (NM_001081023, intron 40 of 43)	14823.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	9.5	14.5	4.5	182.0	18.0	11.5	11.5	18.0
Merged-chr6-29248616-3	chr6	29248540	29248740	+	813.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23848.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	8.5	7.5	4.5	105.5	13.0	10.0	1.0	5.0
Merged-chr9-89224794-4	chr9	89224678	89224878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	(TTTG)n|Simple_repeat|Simple_repeat	13394.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	155.5	223.5	125.0	1405.0	296.5	84.0	123.5	116.5
Merged-chr7-43671895-4	chr7	43671788	43671988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145582)	promoter-TSS (NM_145582)	-143.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	201.0	300.0	202.0	2845.5	452.0	157.0	285.5	202.5
Merged-chr2-45107759-4	chr2	45107677	45107877	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	2500.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	13.5	14.0	15.5	158.0	37.0	17.0	17.0	9.0
Merged-chr9-65346113-4	chr9	65346005	65346205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016688)	promoter-TSS (NM_016688)	37.0	NM_016688	50996.0	Mm.29193	NM_016688	ENSMUSG00000041837	Pdcd7	C80112|ES18	programmed cell death 7	protein-coding	29.5	80.0	42.0	652.0	114.5	62.0	33.5	59.0
Merged-chr10-59910554-3	chr10	59910475	59910675	+	758.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	30984.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	0.0	8.5	2.5	63.0	7.5	5.0	9.0	5.0
Merged-chr15-85042737-4	chr15	85042630	85042830	+	774.237488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356616)	promoter-TSS (NM_001356616)	-12.0	NM_001356616	73225.0	Mm.247535	NM_133750	ENSMUSG00000022434	Fam118a	-	family with sequence similarity 118, member A	protein-coding	18.0	27.0	7.0	113.0	36.5	9.5	17.0	14.5
Merged-chr3-53463697-4	chr3	53463592	53463792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172501)	promoter-TSS (NM_172501)	-125.0	NM_173382	212127.0	Mm.491292	NM_173382	ENSMUSG00000049504	Proser1	2810046L04Rik|9330161F11	proline and serine rich 1	protein-coding	118.5	199.0	129.5	1650.5	312.5	157.0	154.0	138.5
Merged-chr1-191421166-4	chr1	191421064	191421264	+	871.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24123.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	17.0	12.0	12.0	191.0	22.5	10.5	15.5	10.0
Merged-chr10-16995185-3	chr10	16995077	16995277	+	806.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038020, intron 1 of 8)	intron (NR_038020, intron 1 of 8)	100605.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	7.5	5.5	5.5	84.0	34.0	14.0	3.5	4.0
Merged-chr5-139024659-4	chr5	139024558	139024758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359099, intron 9 of 10)	intron (NM_001359099, intron 9 of 10)	-29705.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	122.5	199.0	174.5	2244.5	322.0	136.5	125.0	131.5
Merged-chr8-105264649-4	chr8	105264549	105264749	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015821)	promoter-TSS (NM_015821)	1.0	NM_015821	50788.0	Mm.334764	NM_015821	ENSMUSG00000033313	Fbxl8	FBL8	F-box and leucine-rich repeat protein 8	protein-coding	24.5	36.0	19.5	428.5	64.0	25.0	50.5	19.5
Merged-chr15-73755334-4	chr15	73755230	73755430	+	720.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166389, exon 4 of 6)	exon (NM_001166389, exon 4 of 6)	7304.0	NM_008975	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	3.0	12.5	5.0	142.5	24.0	5.0	8.5	14.5
Merged-chr8-126971111-4	chr8	126971003	126971203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172762)	promoter-TSS (NM_172762)	-24.0	NM_172762	52202.0	Mm.28199	NM_172762	ENSMUSG00000033931	Rbm34	4930547K05Rik|6330444B11|D8Ertd233e	RNA binding motif protein 34	protein-coding	119.0	200.5	105.5	1818.0	280.5	103.5	135.5	85.5
Merged-chr8-106456798-2	chr8	106456698	106456898	+	591.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41459.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	7.5	5.5	14.0	46.5	6.0	1.5	6.0	3.0
Merged-chr10-88204460-3	chr10	88204366	88204566	+	711.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026070, intron 2 of 6)	MERVL_2A-int|LTR|ERVL	3369.0	NM_027487	67282.0	Mm.208465	NM_026070	ENSMUSG00000020056	Washc3	2900091E11Rik|5730495F03Rik|Ccdc53	WASH complex subunit 3	protein-coding	9.5	14.0	10.0	168.0	11.0	2.0	5.0	5.5
Merged-chr6-57692056-4	chr6	57691952	57692152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025574)	promoter-TSS (NM_025574)	26.0	NM_025574	66459.0	Mm.44201	NM_025574	ENSMUSG00000043162	Pyurf	2610022G08Rik|AI847956|Prey	Pigy upstream reading frame	protein-coding	66.5	119.0	139.0	1845.5	167.0	53.0	119.0	76.0
Merged-chr10-81482752-4	chr10	81482589	81482789	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311124)	promoter-TSS (NM_001311124)	20.0	NM_176954	319586.0	Mm.152689	NM_176954	ENSMUSG00000034818	Celf5	4930565A21Rik|Brunol5	CUGBP, Elav-like family member 5	protein-coding	25.5	12.0	9.5	272.0	53.5	31.0	23.5	25.0
Merged-chr1-161517560-4	chr1	161517431	161517631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22874.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	32.0	57.0	50.0	710.5	79.5	27.0	30.0	22.5
Merged-chr16-56715744-4	chr16	56715659	56715859	+	876.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357126, intron 1 of 8)	intron (NM_001357126, intron 1 of 8)	1691.0	NM_001357124	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	19.5	15.5	14.0	185.0	28.0	9.0	11.5	8.5
Merged-chr4-58999896-4	chr4	58999799	58999999	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3294.0	NM_001033165	72429.0	Mm.317801	NM_001033165	ENSMUSG00000070972	Dnajc25	2010109C08Rik|2010203O07Rik	DnaJ heat shock protein family (Hsp40) member C25	protein-coding	16.0	10.0	9.0	140.5	32.5	7.0	4.0	11.5
Merged-chr7-67464799-4	chr7	67464698	67464898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91940.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	81.0	63.5	45.0	788.0	124.5	32.5	61.0	55.5
Merged-chr1-165644558-4	chr1	165644459	165644659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10018.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	43.5	72.5	83.0	1153.0	94.5	35.5	55.0	49.0
Merged-chr1-161058692-4	chr1	161058588	161058788	+	855.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172644, intron 7 of 16)	intron (NM_172644, intron 7 of 16)	11972.0	NM_172644	226539.0	Mm.28125	NM_172644	ENSMUSG00000026709	Dars2	5830468K18Rik|aspRS	aspartyl-tRNA synthetase 2 (mitochondrial)	protein-coding	11.0	10.5	10.0	206.5	22.5	5.5	10.5	15.5
Merged-chr5-121377170-2	chr5	121377070	121377270	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359947, intron 6 of 11)	B2_Mm1t|SINE|B2	8239.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	9.5	13.0	5.5	34.0	18.5	12.5	6.5	6.5
Merged-chr3-144049358-2	chr3	144049258	144049458	+	630.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152974.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	5.5	7.0	10.0	48.5	18.0	2.0	8.0	2.5
Merged-chr2-170247908-3	chr2	170247829	170248029	+	564.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105254.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	4.5	4.0	4.5	102.0	13.5	5.0	6.0	9.5
Merged-chr7-28392307-2	chr7	28392207	28392407	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019458)	promoter-TSS (NM_019458)	383.0	NM_026042	67224.0	Mm.41647	NM_026042	ENSMUSG00000003444	Med29	2810405O22Rik|AU020902|Ixl	mediator complex subunit 29	protein-coding	8.0	25.5	5.5	118.5	28.0	15.5	11.0	21.0
Merged-chr18-64511112-4	chr18	64511034	64511234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142950, intron 5 of 14)	intron (NM_001142950, intron 5 of 14)	5423.0	NM_027350	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	47.5	61.0	35.5	784.0	132.0	32.5	74.5	57.5
Merged-chr2-122145946-4	chr2	122145864	122146064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	intron (NM_026251, intron 2 of 17)	-1723.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	34.0	43.0	26.5	347.5	61.0	19.0	34.0	32.5
Merged-chr2-59194848-3	chr2	59194715	59194915	+	819.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	33965.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	8.5	10.0	12.0	311.5	7.5	3.0	7.0	7.5
Merged-chr3-84655060-2	chr3	84654960	84655160	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-11132.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	12.0	2.0	10.0	47.5	5.5	7.0	4.5	4.5
Merged-chr12-31634651-4	chr12	31634580	31634780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164090)	promoter-TSS (NM_001164090)	-22.0	NM_001164090	12033.0	Mm.242379	NM_007530	ENSMUSG00000020650	Bcap29	AW208404|Bap29	B cell receptor associated protein 29	protein-coding	52.5	95.5	42.5	689.0	192.5	68.5	63.5	48.5
Merged-chr13-52982131-2	chr13	52982031	52982231	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1092.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	5.5	8.5	2.5	9.5	18.0	5.5	5.0	9.0
Merged-chr8-95332985-3	chr8	95332893	95333093	+	891.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133954, intron 1 of 6)	intron (NM_133954, intron 1 of 6)	709.0	NM_133954	101985.0	Mm.29069	NM_133954	ENSMUSG00000031792	Usb1	AA960436	U6 snRNA biogenesis 1	protein-coding	8.5	10.5	5.0	156.0	13.5	4.0	17.5	7.0
Merged-chr6-97439150-4	chr6	97439050	97439250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	20136.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	72.5	89.0	83.5	1529.5	162.0	50.5	67.5	63.0
Merged-chr16-36798505-3	chr16	36798404	36798604	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134111, intron 5 of 5)	ORR1A3-int|LTR|ERVL-MaLR	10201.0	NM_001113405	106389.0	Mm.432078	NM_134111	ENSMUSG00000022838	Eaf2	AW048865|FESTA-L|FESTA-S|Festa|Traits|U19	ELL associated factor 2	protein-coding	11.5	14.5	5.5	113.5	2.5	4.0	6.0	2.0
Merged-chr19-6236330-4	chr19	6236232	6236432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198168)	promoter-TSS (NM_198168)	-492.0	NM_198168	225849.0	Mm.118076	NM_198168	ENSMUSG00000024777	Ppp2r5b	B'beta|BC026670	protein phosphatase 2, regulatory subunit B', beta	protein-coding	68.0	106.5	46.5	882.5	159.0	59.0	72.0	47.0
Merged-chr17-65699043-4	chr17	65698960	65699160	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 3 of 6)	intron (NM_133685, intron 3 of 6)	-56856.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	16.5	26.0	14.5	448.5	41.5	16.0	21.5	20.5
Merged-chr15-75709404-4	chr15	75709286	75709486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163465, intron 4 of 14)	MIR3|SINE|MIR	5098.0	NM_008164	14787.0	Mm.57052	NM_008164	ENSMUSG00000022580	Rhpn1	BB023497|Grbp|Rhophilin|mKIAA1929	rhophilin, Rho GTPase binding protein 1	protein-coding	27.0	70.5	22.5	430.0	119.0	32.5	44.5	27.5
Merged-chr8-35114156-3	chr8	35114040	35114240	+	673.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148450.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	7.5	7.5	5.5	131.0	7.5	0.5	5.0	5.5
Merged-chr11-110430004-4	chr11	110429928	110430128	+	918.9652710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	30926.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	12.0	39.5	18.5	61.0	48.5	17.5	24.5	19.5
Merged-chr1-183671446-4	chr1	183671338	183671538	+	947.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77539.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	18.5	16.0	10.0	259.0	45.5	14.0	21.0	25.5
Merged-chr1-60098283-4	chr1	60098196	60098396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199061)	promoter-TSS (NM_001199061)	49.0	NM_001285463	241066.0	Mm.276441	NM_139150	ENSMUSG00000026017	Carf	Als2cr8|ECBRC-FC1|ECBRC-FC2	calcium response factor	protein-coding	65.0	113.5	68.0	709.0	148.0	65.0	67.5	84.0
Merged-chr2-116999022-3	chr2	116998925	116999125	+	727.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98873.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	9.0	29.0	16.5	71.5	19.5	7.0	2.5	3.5
Merged-chr4-117829661-2	chr4	117829561	117829761	+	708.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5597.0	NM_008135	14664.0	Mm.244549	NM_008135	ENSMUSG00000028542	Slc6a9	Glyt-1|Glyt1	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	protein-coding	4.5	1.0	4.0	26.0	9.5	6.0	9.5	11.0
Merged-chr5-86085163-4	chr5	86085063	86085263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310639, intron 3 of 7)	intron (NM_001310639, intron 3 of 7)	13417.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	70.0	89.0	124.5	1536.5	182.5	84.0	125.0	107.0
Merged-chr7-123370001-4	chr7	123369882	123370082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122643)	promoter-TSS (NM_001122643)	-67.0	NM_001316713	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	282.5	355.0	162.0	2705.5	554.5	286.0	224.0	224.0
Merged-chr2-131239718-5	chr2	131239597	131239797	+	941.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206382, intron 3 of 7)	PB1D10|SINE|Alu	5634.0	NM_144888	228607.0	Mm.287226	NM_144888	ENSMUSG00000037523	Mavs	D430028G21Rik|IPS-1|Visa|cardif	mitochondrial antiviral signaling protein	protein-coding	14.5	13.5	11.5	120.0	39.0	8.0	8.5	15.5
Merged-chr15-86240016-2	chr15	86239916	86240116	+	923.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 4 of 12)	intron (NM_145476, intron 4 of 12)	25557.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	3.5	4.5	2.5	73.5	20.0	7.0	8.5	5.0
Merged-chr8-117267615-4	chr8	117267499	117267699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	10580.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	21.5	31.5	30.5	320.0	46.0	26.0	49.0	27.5
Merged-chr13-37290904-4	chr13	37290792	37290992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54453.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	28.5	35.0	24.0	392.5	58.0	22.0	31.5	37.5
Merged-chr17-5599158-4	chr17	5599064	5599264	+	931.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	106564.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	37.5	10.5	22.5	532.5	12.5	16.5	25.5	15.0
Merged-chr5-23616618-4	chr5	23616542	23616742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009274)	promoter-TSS (NM_009274)	-71.0	NM_009274	20817.0	Mm.288728	NM_009274	ENSMUSG00000062604	Srpk2	AW226533|AW492537|AW547358|Wbp6|mSRPK2	serine/arginine-rich protein specific kinase 2	protein-coding	26.0	15.0	20.5	264.0	46.0	16.5	28.5	22.0
Merged-chr16-24879326-4	chr16	24879232	24879432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 9 of 12)	intron (NM_178665, intron 9 of 12)	157477.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	37.5	54.0	38.5	916.0	103.5	43.0	33.5	42.5
Merged-chr12-52097765-4	chr12	52097670	52097870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029760)	promoter-TSS (NM_029760)	24.0	NM_029760	76826.0	Mm.244781	NM_029760	ENSMUSG00000035142	Nubpl	2410170E07Rik	nucleotide binding protein-like	protein-coding	65.0	92.5	90.5	1210.5	154.0	59.5	66.5	57.0
Merged-chr2-32710600-4	chr2	32710498	32710698	+	966.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130860, intron 2 of 6)	intron (NM_130860, intron 2 of 6)	2186.0	NM_130860	107951.0	Mm.27557	NM_130860	ENSMUSG00000009555	Cdk9	PITALRE	cyclin-dependent kinase 9 (CDC2-related kinase)	protein-coding	30.5	28.0	18.5	302.5	50.5	13.5	15.0	17.0
Merged-chr19-10693174-4	chr19	10693072	10693272	+	926.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	L1MB3|LINE|L1	4437.0	NM_001361959	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	18.0	30.0	5.0	172.5	34.5	25.5	15.0	7.5
Merged-chr11-120930197-3	chr11	120930065	120930265	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 1 of 18)	RLTR33|LTR|ERVK	2707.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	0.5	8.0	2.5	51.5	42.0	5.5	25.5	17.5
Merged-chr11-9537923-2	chr11	9537823	9538023	+	644.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 47 of 61)	intron (NM_178259, intron 47 of 61)	345981.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	0.0	1.0	4.0	100.0	13.5	5.5	14.0	9.5
Merged-chr2-181161644-4	chr2	181161540	181161740	+	857.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4625.0	NM_007906	13628.0	Mm.2645	NM_007906	ENSMUSG00000016349	Eef1a2	EEF1AL|EF-1-alpha-2|Eef1a|S1|STN|wasted|wst	eukaryotic translation elongation factor 1 alpha 2	protein-coding	1.5	12.0	6.5	125.5	23.5	5.0	22.5	19.0
Merged-chr8-84660700-1	chr8	84660600	84660800	+	594.0	f0_c57.idr	TTS (NM_010499)	TTS (NM_010499)	2152.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	11.0	14.0	9.5	41.0	32.0	8.0	11.5	4.5
Merged-chr9-59548055-4	chr9	59547929	59548129	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	L2c|LINE|L2	8489.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	24.5	20.0	8.5	174.0	43.0	9.0	9.0	6.5
Merged-chr6-40325487-4	chr6	40325256	40325456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023538)	promoter-TSS (NM_023538)	-122.0	NM_023538	69923.0	Mm.32840	NM_023538	ENSMUSG00000029916	Agk	2610037M15Rik|6720408I04Rik|AI465370|Mulk	acylglycerol kinase	protein-coding	21.0	10.5	10.5	253.0	71.0	21.5	22.5	28.5
Merged-chr8-80808332-3	chr8	80808229	80808429	+	727.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021356, intron 1 of 9)	intron (NM_021356, intron 1 of 9)	-68870.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	14.0	19.0	3.0	60.0	7.5	6.0	5.0	10.5
Merged-chr2-75613303-4	chr2	75613203	75613403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45956.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	18.5	33.5	19.0	332.0	93.5	41.0	33.5	45.5
Merged-chr18-69663274-4	chr18	69663199	69663399	+	890.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	MIR3|SINE|MIR	-262260.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	8.5	9.5	11.5	264.0	35.5	8.0	18.5	15.0
Merged-chr7-127027379-4	chr7	127027281	127027481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010772)	promoter-TSS (NM_010772)	-902.0	NM_010772	17188.0	Mm.378964	NM_010772	ENSMUSG00000030678	Maz	MAZI|PUR1|Pur-1|SAF-1|SAF-2	MYC-associated zinc finger protein (purine-binding transcription factor)	protein-coding	167.5	236.0	143.5	1729.5	513.5	197.5	182.5	189.0
Merged-chr18-32352819-4	chr18	32352722	32352922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-24395.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	81.0	178.5	100.5	1292.0	192.5	60.5	97.0	77.5
Merged-chr10-42862460-4	chr10	42862348	42862548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359265, intron 1 of 6)	intron (NM_001359265, intron 1 of 6)	1936.0	NM_001359264	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	61.5	71.5	36.5	777.0	144.5	48.0	38.0	48.5
Merged-chr13-113442409-4	chr13	113442288	113442488	+	891.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60456.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	2.5	2.5	14.5	187.5	8.0	12.0	13.0	10.5
Merged-chr9-21526596-2	chr9	21526496	21526696	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001198794, intron 1 of 6)	intron (NM_001198794, intron 1 of 6)	419.0	NM_206536	382062.0	Mm.325205	NM_206536	ENSMUSG00000057191	AB124611	Gm1706	cDNA sequence AB124611	protein-coding	6.5	15.5	13.5	123.0	17.0	9.0	9.0	8.5
Merged-chr1-161713161-3	chr1	161713075	161713275	+	997.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75320.0	NM_001205243	14103.0	Mm.3355	NM_010177	ENSMUSG00000000817	Fasl	APT1LG1|CD178|CD95-L|CD95L|Fas-L|Faslg|Tnfsf6|Tnlg1a|gld	Fas ligand (TNF superfamily, member 6)	protein-coding	15.0	34.5	17.5	414.5	22.0	5.0	7.5	21.0
Merged-chr1-180822480-4	chr1	180822360	180822560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8855.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	42.5	52.0	31.5	733.0	87.5	30.0	46.5	48.5
Merged-chr6-134922132-1	chr6	134922032	134922232	+	637.0	f1_c57bl6.idr	intron (NM_009875, intron 2 of 2)	intron (NM_009875, intron 2 of 2)	1731.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	6.0	4.0	3.0	50.5	14.0	4.5	11.0	11.5
Merged-chr13-23581028-2	chr13	23580928	23581128	+	988.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175654)	promoter-TSS (NM_175654)	-574.0	NM_175654	319156.0	Mm.260530	NM_175654	ENSMUSG00000061482	Hist1h4d	-	histone cluster 1, H4d	protein-coding	7.0	16.0	6.5	62.0	23.0	11.0	10.0	8.5
Merged-chr7-24653816-3	chr7	24653709	24653909	+	779.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7485.0	NR_030681	100043706.0	Mm.483825	NR_030681	ENSMUSG00000108470	Gm4598	-	predicted gene 4598	ncRNA	5.5	16.5	8.0	95.0	13.0	2.5	8.5	8.0
Merged-chr19-53547762-3	chr19	53547675	53547875	+	836.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18457.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	6.5	10.0	16.5	320.5	6.5	1.0	2.5	5.0
Merged-chr13-58443968-4	chr13	58443879	58444079	+	864.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40636.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	15.5	28.5	20.5	374.0	57.5	9.0	23.0	9.5
Merged-chr6-128760883-4	chr6	128760781	128760981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27760.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	86.0	89.0	77.0	850.5	105.0	50.0	55.0	58.5
Merged-chr14-122649643-4	chr14	122649517	122649717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 8 of 24)	intron (NR_153443, intron 8 of 24)	115289.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	42.0	60.5	83.0	624.5	114.0	43.5	58.0	44.5
Merged-chr14-63372696-2	chr14	63372596	63372796	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_007549)	TTS (NM_007549)	44491.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	6.0	7.0	2.0	29.0	20.5	5.0	4.5	8.0
Merged-chr9-54863676-4	chr9	54863579	54863779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022655)	promoter-TSS (NM_022655)	-76.0	NM_022655	64602.0	Mm.208991	NM_022655	ENSMUSG00000032293	Ireb2	D9Ertd85e|Irp2	iron responsive element binding protein 2	protein-coding	172.0	290.5	138.5	1708.5	498.0	203.5	155.5	127.5
Merged-chr1-159232206-4	chr1	159232106	159232306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360878)	promoter-TSS (NM_001360878)	6.0	NM_011931	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	154.5	153.0	143.0	2053.5	306.5	89.5	129.5	110.0
Merged-chr2-68873912-4	chr2	68873801	68874001	+	975.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	12460.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	9.5	28.5	14.5	260.0	38.0	13.0	15.0	15.5
Merged-chr11-8605985-4	chr11	8605948	8606148	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	58487.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	8.5	15.5	5.0	82.0	25.5	12.5	5.0	5.5
Merged-chr9-120128196-2	chr9	120128096	120128296	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011029, intron 1 of 6)	intron (NM_011029, intron 1 of 6)	430.0	NM_011029	16785.0	Mm.4071	NM_011029	ENSMUSG00000032518	Rpsa	67kDa|67lr|AL022858|Lamr|Lamr1|Lamrl1|MLR|P40|P40-3|P40-8	ribosomal protein SA	protein-coding	0.0	15.0	10.5	135.5	21.5	13.5	15.0	18.5
Merged-chr4-46489244-4	chr4	46489107	46489307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053179)	promoter-TSS (NM_053179)	-122.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	133.0	223.0	157.0	2071.0	402.5	144.0	164.0	121.5
Merged-chr7-102032039-4	chr7	102031955	102032155	+	965.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029211, intron 4 of 8)	intron (NM_029211, intron 4 of 8)	-13900.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	11.5	24.0	37.5	338.5	49.0	13.5	16.0	21.5
Merged-chr4-8709743-4	chr4	8709648	8709848	+	782.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277149, intron 1 of 37)	intron (NM_001277149, intron 1 of 37)	19342.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	9.0	7.5	8.0	224.5	30.5	4.5	11.0	10.5
Merged-chr10-34532782-4	chr10	34532679	34532879	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358769, intron 2 of 8)	MTD|LTR|ERVL-MaLR	49379.0	NM_010237	14302.0	Mm.332432	NM_010237	ENSMUSG00000019779	Frk	BSK|BSK/IYK|C85044|GTK|RAK	fyn-related kinase	protein-coding	14.5	26.0	8.5	181.5	44.5	16.0	13.5	16.5
Merged-chr7-48998254-7	chr7	48998121	48998321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	39148.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	18.0	24.0	29.5	444.0	34.0	17.0	21.0	8.5
Merged-chr12-81859899-4	chr12	81859794	81859994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018814)	promoter-TSS (NM_018814)	-136.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	32.5	49.5	29.5	467.5	55.0	21.5	45.0	19.0
Merged-chr2-62441463-4	chr2	62441362	62441562	+	895.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29231.0	NM_001159543	13482.0	Mm.1151	NM_010074	ENSMUSG00000035000	Dpp4	Cd26|Dpp-4|THAM	dipeptidylpeptidase 4	protein-coding	8.0	7.0	13.0	200.0	24.0	3.5	15.0	19.5
Merged-chr7-19813727-4	chr7	19813641	19813841	+	812.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033601, intron 2 of 8)	intron (NM_033601, intron 2 of 8)	9014.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	7.5	10.0	6.0	143.5	19.5	5.0	9.0	4.0
Merged-chr8-83100251-3	chr8	83100146	83100346	+	817.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65106.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	5.0	15.0	2.5	97.0	30.0	9.0	6.5	8.0
Merged-chr5-114928438-4	chr5	114928309	114928509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359945, intron 2 of 5)	intron (NM_001359945, intron 2 of 5)	5169.0	NM_001359945	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	31.0	110.0	37.5	302.5	168.0	45.0	52.0	38.0
Merged-chr2-127133967-4	chr2	127133855	127134055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144818)	promoter-TSS (NM_144818)	-1.0	NM_144818	215387.0	Mm.29786	NM_144818	ENSMUSG00000034906	Ncaph	A730011O11Rik|Brrn1|CAP-H|HCAP-H|mCAP-H	non-SMC condensin I complex, subunit H	protein-coding	38.5	48.5	19.5	482.5	112.5	44.5	33.0	51.0
Merged-chr11-23657935-4	chr11	23657831	23658031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023651, intron 1 of 3)	intron (NM_023651, intron 1 of 3)	-7743.0	NM_028956	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	74.5	88.5	89.0	1313.0	161.5	46.0	85.5	62.5
Merged-chr2-91972363-4	chr2	91972261	91972461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58B|DNA|hAT-Charlie	-8798.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	199.0	280.0	226.0	2843.0	413.0	175.0	196.0	216.5
Merged-chr6-32528266-4	chr6	32528172	32528372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	17131.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	93.5	138.0	85.0	1360.5	179.0	74.0	94.5	71.5
Merged-chr4-138972858-4	chr4	138972758	138972958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029857)	promoter-TSS (NM_029857)	-47.0	NM_029857	77056.0	Mm.122336	NM_029857	ENSMUSG00000041143	Tmco4	4632413C14Rik|AI430825	transmembrane and coiled-coil domains 4	protein-coding	34.0	38.5	22.5	406.5	94.0	26.0	27.5	38.0
Merged-chr2-104710919-4	chr2	104710827	104711027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177190, intron 1 of 9)	L2c|LINE|L2	1235.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	24.5	59.0	17.0	308.0	84.0	33.0	19.0	24.5
Merged-chr9-75630872-4	chr9	75630768	75630968	+	974.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027309, intron 1 of 2)	intron (NM_027309, intron 1 of 2)	5136.0	NM_027309	70082.0	Mm.19119	NM_027309	ENSMUSG00000032184	Lysmd2	2210402C18Rik|AV033872|AW538442	LysM, putative peptidoglycan-binding, domain containing 2	protein-coding	14.5	22.5	22.5	216.5	84.5	28.0	39.5	33.5
Merged-chr8-94089890-4	chr8	94089816	94090016	+	871.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026116, intron 2 of 16)	intron (NM_026116, intron 2 of 16)	8895.0	NM_026116	67378.0	Mm.292107	NM_026116	ENSMUSG00000031755	Bbs2	2410125H22Rik|AI447581	Bardet-Biedl syndrome 2 (human)	protein-coding	10.0	10.5	8.5	269.0	25.0	3.5	9.0	11.0
Merged-chr5-142936486-4	chr5	142936391	142936591	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23864.0	NM_007984	14086.0	Mm.289707	NM_007984	ENSMUSG00000029581	Fscn1	AI663989|Fan1|fascin-1	fascin actin-bundling protein 1	protein-coding	12.5	10.5	4.0	106.0	74.0	17.5	8.5	16.5
Merged-chr12-81915773-3	chr12	81915666	81915866	+	700.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 5 of 35)	intron (NM_018814, intron 5 of 35)	55736.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	6.0	14.5	7.5	80.5	15.5	7.0	8.0	10.5
Merged-chr2-25626146-3	chr2	25626054	25626254	+	641.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007995, intron 6 of 9)	intron (NM_007995, intron 6 of 9)	1820.0	NM_007995	14133.0	Mm.10510	NM_007995	ENSMUSG00000026938	Fcna	Fcn1	ficolin A	protein-coding	6.5	12.0	10.0	177.0	11.0	1.0	1.5	6.0
Merged-chr10-126986847-4	chr10	126986741	126986941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113470, intron 1 of 7)	intron (NM_001113470, intron 1 of 7)	8124.0	NM_001113470	52468.0	Mm.29490	NM_146012	ENSMUSG00000078429	Ctdsp2	AI586070|D10Ertd73e|OS-4|OS4|SCP2	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2	protein-coding	34.0	19.0	36.0	700.0	55.0	23.5	32.5	29.5
Merged-chr7-43282843-4	chr7	43282685	43282885	+	772.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30515.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	5.5	5.0	4.0	65.0	19.0	11.0	9.5	5.0
Merged-chr11-5261762-4	chr11	5261662	5261862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032396)	promoter-TSS (NM_032396)	-152.0	NM_032396	84035.0	Mm.209989	NM_032396	ENSMUSG00000020393	Kremen1	AV002070|Kremen|Krm1	kringle containing transmembrane protein 1	protein-coding	86.0	147.5	76.5	1168.0	243.0	89.5	116.5	82.5
Merged-chr5-64412567-4	chr5	64412455	64412655	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55387.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	22.0	59.0	18.0	117.0	45.0	20.5	11.5	8.0
Merged-chr10-120364261-3	chr10	120364175	120364375	+	576.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010441, exon 5 of 5)	exon (NM_010441, exon 5 of 5)	-25248.0	NR_040626	320626.0	Mm.446091	NR_040626	ENSMUSG00000090191	9230105E05Rik	-	RIKEN cDNA 9230105E05 gene	ncRNA	8.0	8.0	9.0	61.5	10.5	7.0	2.5	10.5
Merged-chr10-121489297-3	chr10	121489195	121489395	+	898.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-13045.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	17.0	13.5	21.0	267.5	41.0	11.5	19.5	23.0
Merged-chr18-4347798-3	chr18	4347663	4347863	+	750.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 2 of 7)	intron (NM_007746, intron 2 of 7)	5190.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	2.5	3.0	4.0	49.0	11.5	6.0	4.5	9.0
Merged-chr12-40585801-6	chr12	40585688	40585888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	139735.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	29.0	45.0	32.5	318.0	58.0	33.0	31.0	32.0
Merged-chr1-165192409-4	chr1	165192318	165192518	+	973.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151711, intron 1 of 6)	(T)n|Simple_repeat|Simple_repeat	2015.0	NM_145512	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	23.0	52.5	20.0	185.5	75.5	32.5	29.0	18.5
Merged-chr19-12005700-4	chr19	12005617	12005817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31023.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	43.0	64.5	45.5	717.5	120.5	32.0	24.5	32.5
Merged-chr19-34526383-4	chr19	34526328	34526528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021460, intron 1 of 9)	intron (NM_021460, intron 1 of 9)	1046.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	52.5	45.0	40.0	616.0	108.5	30.5	37.0	45.5
Merged-chr15-59568812-4	chr15	59568721	59568921	+	774.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-79833.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	9.0	17.0	3.0	155.5	29.5	13.5	16.0	10.5
Merged-chr16-90198386-2	chr16	90198286	90198486	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22356.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	4.5	10.5	5.0	30.0	16.5	12.5	3.0	4.5
Merged-chr3-108722283-4	chr3	108722127	108722327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029522)	promoter-TSS (NM_029522)	72.0	NM_029522	76123.0	Mm.226941	NM_029522	ENSMUSG00000027883	Gpsm2	6230410J09Rik|LGN|Pins	G-protein signalling modulator 2 (AGS3-like, C. elegans)	protein-coding	74.5	117.5	105.0	1174.5	157.5	66.0	81.0	61.5
Merged-chr5-138684051-3	chr5	138683945	138684145	+	611.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	61186.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	8.5	10.0	6.5	102.5	7.5	2.0	2.5	10.0
Merged-chr14-74983240-3	chr14	74983134	74983334	+	936.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046078, intron 2 of 2)	intron (NR_046078, intron 2 of 2)	8148.0	NR_046078	100043169.0	Mm.145900	NR_046078	ENSMUSG00000115019	Gm4278	-	predicted gene 4278	ncRNA	10.5	24.0	12.5	231.5	22.5	9.0	6.0	7.0
Merged-chr7-67372296-3	chr7	67372189	67372389	+	969.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 1 of 11)	CpG	569.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	14.0	33.5	20.0	135.0	33.5	16.5	9.0	6.0
Merged-chr4-126702680-4	chr4	126702583	126702783	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011970, intron 3 of 5)	intron (NM_011970, intron 3 of 5)	25040.0	NM_011970	26445.0	Mm.22233	NM_011970	ENSMUSG00000028837	Psmb2	AU045357|AW108089|C7-I|D4Wsu33e|HC7-I	proteasome (prosome, macropain) subunit, beta type 2	protein-coding	21.0	16.0	4.5	335.0	25.0	7.0	10.0	18.5
Merged-chr7-72299871-1	chr7	72299771	72299971	+	833.0	f0_balb.idr	intron (NM_001024703, intron 1 of 22)	intron (NM_001024703, intron 1 of 22)	6724.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	11.0	11.0	13.5	240.0	0.5	4.5	0.5	1.0
Merged-chr3-105910654-4	chr3	105910564	105910764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	6243.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	36.5	48.5	35.0	589.0	81.5	33.0	53.5	41.5
Merged-chr14-31183870-4	chr14	31183803	31184003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347583, exon 14 of 14)	3' UTR (NM_001347583, exon 14 of 14)	-15262.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	55.0	70.5	54.5	885.0	59.5	29.0	19.5	29.0
Merged-chr4-137388553-4	chr4	137388445	137388645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	21246.0	NM_001126318	242711.0	Mm.475541	NM_001126318	ENSMUSG00000078520	Cela3a	Gm13011	chymotrypsin-like elastase family, member 3A	protein-coding	69.5	86.5	85.0	932.5	151.5	47.5	50.0	88.5
Merged-chr11-3667704-4	chr11	3667607	3667807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198162, intron 3 of 25)	intron (NM_198162, intron 3 of 25)	9007.0	NM_198162	74522.0	Mm.139127	NM_198162	ENSMUSG00000034543	Morc2a	8430403M08Rik|Zcwcc1	microrchidia 2A	protein-coding	16.5	36.0	23.5	601.5	113.0	34.5	49.5	29.5
Merged-chr2-155729459-4	chr2	155729340	155729540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145537)	promoter-TSS (NM_145537)	35.0	NM_145537	108687.0	Mm.273706	NM_145537	ENSMUSG00000038312	Edem2	9530090G24Rik|AI327354	ER degradation enhancer, mannosidase alpha-like 2	protein-coding	59.0	87.5	44.5	809.5	111.0	67.5	73.5	47.0
Merged-chr6-122633496-4	chr6	122633375	122633575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	7051.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	39.5	76.0	50.0	507.0	69.0	39.0	39.0	78.0
Merged-chr8-8143186-4	chr8	8143104	8143304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	517569.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	38.5	59.5	19.0	296.0	215.5	63.0	93.5	63.0
Merged-chr17-8283791-4	chr17	8283688	8283888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018819)	promoter-TSS (NM_018819)	-25.0	NM_018819	55951.0	Mm.288510	NM_018819	ENSMUSG00000023861	Mpc1	0610006G08Rik|3830411I18Rik|Brp44l	mitochondrial pyruvate carrier 1	protein-coding	173.0	263.0	238.5	2480.5	396.5	159.0	236.5	159.0
Merged-chr1-60937506-4	chr1	60937406	60937606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1d|LTR|Gypsy	28481.0	NM_001281976	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	29.0	49.5	21.5	624.5	90.5	26.0	50.5	49.5
Merged-chr11-58905020-2	chr11	58904920	58905120	+	786.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011758)	promoter-TSS (NM_011758)	-795.0	NM_011758	22698.0	Mm.127646	NM_011758	ENSMUSG00000037001	Zfp39	CTfin33|Zfp-39	zinc finger protein 39	protein-coding	9.5	15.5	4.5	36.0	25.0	9.5	9.0	1.5
Merged-chr17-50157936-4	chr17	50157825	50158025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	32572.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	54.0	106.5	31.5	391.5	187.0	77.5	58.5	25.0
Merged-chr4-55534645-4	chr4	55534538	55534738	+	822.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2163.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	11.0	17.0	15.0	168.5	21.0	10.5	11.0	10.0
Merged-chr16-20535385-4	chr16	20535285	20535485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009679)	promoter-TSS (NM_009679)	-95.0	NM_001302970	11773.0	Mm.18946	NM_009679	ENSMUSG00000022841	Ap2m1	-	adaptor-related protein complex 2, mu 1 subunit	protein-coding	300.0	499.5	288.5	4197.5	569.5	274.0	272.5	231.5
Merged-chr2-30952944-4	chr2	30952842	30953042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133673)	promoter-TSS (NM_133673)	-59.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	60.0	102.0	36.0	684.5	171.5	71.5	65.0	78.5
Merged-chr17-34121185-5	chr17	34121162	34121362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204973, intron 1 of 12)	CpG-6274	485.0	NM_010238	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	47.5	89.0	57.5	617.5	182.0	79.5	66.0	73.0
Merged-chr7-35167162-4	chr7	35167067	35167267	+	964.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-19218.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	14.0	28.5	21.5	426.5	56.0	16.0	32.5	13.5
Merged-chr13-30767925-4	chr13	30767836	30768036	+	858.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013674)	TTS (NM_013674)	18703.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	16.5	12.5	20.5	303.0	23.5	10.0	11.0	32.0
Merged-chr9-95639030-4	chr9	95638931	95639131	+	930.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 2 of 8)	intron (NM_029620, intron 2 of 8)	1403.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	12.5	11.5	23.0	346.5	36.5	6.0	10.5	25.0
Merged-chr6-30403680-4	chr6	30403596	30403796	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311087, intron 1 of 8)	intron (NM_001311087, intron 1 of 8)	1841.0	NM_001311087	76788.0	Mm.277308	NM_029742	ENSMUSG00000029775	Klhdc10	2410127E18Rik|AI593221|mKIAA0265	kelch domain containing 10	protein-coding	12.5	33.5	11.5	206.0	44.0	14.0	14.0	6.0
Merged-chr13-91223989-4	chr13	91223886	91224086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025770)	promoter-TSS (NM_025770)	1.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	171.0	177.5	201.5	2166.0	362.0	134.0	186.0	128.0
Merged-chr2-165319702-4	chr2	165319574	165319774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080287, intron 1 of 20)	intron (NM_080287, intron 1 of 20)	1152.0	NM_001302752	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	96.0	150.0	110.0	1633.5	185.5	85.5	95.5	90.0
Merged-chr7-63911481-4	chr7	63911405	63911605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-5352.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	80.5	61.0	63.0	1006.5	110.5	40.5	69.5	51.5
Merged-chr2-151000954-4	chr2	151000856	151001056	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207204, intron 1 of 23)	B3|SINE|B2	8442.0	NM_207204	78177.0	Mm.120911	NM_207204	ENSMUSG00000068115	Ninl	4930519N13Rik|Gm1004|Gm1634|mKIAA0980	ninein-like	protein-coding	7.5	11.0	11.0	209.5	32.0	6.0	11.5	16.5
Merged-chr17-50513041-4	chr17	50512938	50513138	+	890.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	3491.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	9.5	15.5	3.0	163.5	65.5	18.5	13.0	14.0
Merged-chr18-6163190-4	chr18	6163104	6163304	+	965.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27106.0	NM_001039692	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	23.5	9.0	22.0	366.5	40.5	10.5	30.0	17.0
Merged-chr15-58418270-4	chr15	58418148	58418348	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145959, intron 1 of 23)	intron (NM_145959, intron 1 of 23)	2780.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	16.5	18.0	13.5	310.0	28.0	9.5	12.0	13.5
Merged-chr6-88067913-4	chr6	88067822	88068022	+	988.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D11|SINE|Alu	-16551.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	20.0	31.5	15.0	371.5	51.5	15.0	26.5	30.0
Merged-chr3-86894666-4	chr3	86894568	86894768	+	976.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195500, intron 2 of 11)	intron (NM_001195500, intron 2 of 11)	26216.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	36.0	66.0	51.0	932.5	37.5	13.5	31.0	19.5
Merged-chr2-5741078-4	chr2	5740969	5741169	+	959.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26307.0	NM_177343	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	14.5	21.0	21.5	217.5	28.5	11.5	15.5	22.5
Merged-chr3-40711175-1	chr3	40711075	40711275	+	590.0	f0_balb.idr	intron (NM_178386, intron 1 of 5)	L1_Mus3|LINE|L1	2304.0	NM_178386	73333.0	Mm.78691	NM_178386	ENSMUSG00000069041	Slc25a31	1700034J06Rik|Ant4|Sfec	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 31	protein-coding	8.5	13.5	11.0	49.0	10.0	9.0	1.0	2.5
Merged-chr9-78527515-4	chr9	78527401	78527601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45777.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	197.0	345.5	240.5	2688.5	445.0	203.5	162.0	170.5
Merged-chr13-92241590-4	chr13	92241497	92241697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010829, intron 19 of 23)	intron (NM_010829, intron 19 of 23)	-113186.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	88.5	104.0	89.5	1187.0	111.0	56.5	54.5	56.5
Merged-chr3-75814816-2	chr3	75814716	75814916	+	616.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	142133.0	NM_175193	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	2.5	7.0	3.5	44.0	4.5	5.0	4.5	4.5
Merged-chr15-58749306-4	chr15	58749222	58749422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74105.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	41.5	23.0	22.0	560.0	86.5	24.0	32.0	40.0
Merged-chr19-60962829-2	chr19	60962724	60962924	+	677.25	f0_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	MTEb|LTR|ERVL-MaLR	73075.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	10.0	5.0	12.5	119.0	9.0	7.5	5.5	3.0
Merged-chr12-76534963-1	chr12	76534863	76535063	+	939.0	f0_balb.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	1403.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	5.0	20.0	17.5	64.0	36.0	8.0	7.0	7.5
Merged-chr9-77912073-4	chr9	77911959	77912159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5306.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	37.5	58.5	52.5	583.5	157.0	37.0	40.5	49.5
Merged-chr10-96618020-3	chr10	96617874	96618074	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007569, intron 1 of 1)	intron (NM_007569, intron 1 of 1)	973.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	15.5	27.5	29.0	228.5	85.5	33.0	25.5	22.0
Merged-chr7-25711059-6	chr7	25710997	25711197	+	734.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028771)	TTS (NM_028771)	7956.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	6.0	9.0	7.0	119.0	26.5	7.0	2.5	2.5
Merged-chr7-113134033-1	chr7	113133933	113134133	+	570.0	f0_balb.idr	intron (NR_045978, intron 2 of 5)	intron (NR_045978, intron 2 of 5)	7982.0	NR_045978	75239.0	Mm.381688	NR_045978	ENSMUSG00000110009	4930543E12Rik	4930545H14Rik	RIKEN cDNA 4930543E12 gene	ncRNA	6.0	13.5	11.0	65.0	6.5	4.0	12.0	0.5
Merged-chr8-94386915-2	chr8	94386841	94387041	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357205, intron 1 of 7)	intron (NM_001357205, intron 1 of 7)	512.0	NM_022331	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	29.0	109.0	21.5	370.5	100.5	46.5	27.5	29.0
Merged-chr9-47531299-7	chr9	47531118	47531318	+	914.380981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	CpG	866.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	8.5	20.5	21.0	168.5	33.5	9.0	6.0	15.0
Merged-chr14-67211919-4	chr14	67211823	67212023	+	952.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21369.0	NM_010095	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	13.5	21.5	7.0	200.0	49.5	25.5	18.5	13.5
Merged-chr19-21275866-4	chr19	21275773	21275973	+	795.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 1 of 5)	intron (NM_009551, intron 1 of 5)	3595.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	3.0	7.0	7.5	40.0	15.0	5.5	4.5	12.5
Merged-chr8-83141512-4	chr8	83141435	83141635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23817.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	87.5	132.0	73.5	1048.5	118.5	46.5	43.0	51.5
Merged-chr3-31232993-4	chr3	31232877	31233077	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172861, intron 4 of 7)	intron (NM_172861, intron 4 of 7)	77342.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	34.0	43.0	65.5	1181.5	44.0	6.5	18.5	27.0
Merged-chr19-15923632-6	chr19	15923531	15923731	+	836.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177420, intron 1 of 8)	MTC|LTR|ERVL-MaLR	991.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	9.5	10.0	18.5	205.5	11.5	2.0	3.0	10.5
Merged-chr6-142711200-7	chr6	142711146	142711346	+	793.676208	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCCCCT)n|Simple_repeat|Simple_repeat	-8972.0	NM_001310143	20928.0	Mm.35670	NM_011511	ENSMUSG00000030249	Abcc9	AI414027|AI449286|SUR2A|SUR2B|Sur2	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	protein-coding	10.0	14.5	16.0	124.0	20.5	6.0	8.0	11.0
Merged-chr13-20180745-7	chr13	20180506	20180706	+	975.035706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	ORR1F|LTR|ERVL-MaLR	90099.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	17.0	5.0	13.5	182.5	28.0	16.5	15.5	17.5
Merged-chr7-81860759-4	chr7	81860649	81860849	+	965.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111910, intron 1 of 7)	intron (NR_111910, intron 1 of 7)	1748.0	NM_145375	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	30.5	25.0	18.0	497.5	32.0	19.5	31.5	31.5
Merged-chr9-104233290-4	chr9	104233194	104233394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 6 of 56)	intron (NM_001359740, intron 6 of 56)	29636.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	53.0	61.0	79.5	1388.0	193.0	61.5	90.0	92.0
Merged-chr7-45434686-4	chr7	45434562	45434762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011304)	promoter-TSS (NM_011304)	-177.0	NM_030678	14936.0	Mm.275654	NM_030678	ENSMUSG00000003865	Gys1	Gys3|MGS	glycogen synthase 1, muscle	protein-coding	190.0	330.0	215.0	2502.0	567.0	273.0	224.5	222.0
Merged-chr15-96569326-4	chr15	96569188	96569388	+	820.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72674.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	1.0	16.5	10.5	75.0	16.5	6.0	8.0	10.0
Merged-chr18-64972389-1	chr18	64972289	64972489	+	740.0	f0_balb.idr	intron (NM_001114386, intron 1 of 30)	B4A|SINE|B4	-51138.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	3.0	14.0	7.0	223.5	12.5	7.5	8.5	9.5
Merged-chr16-4541960-4	chr16	4541855	4542055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	17765.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	300.5	431.5	272.5	3821.5	649.5	247.0	259.5	218.0
Merged-chr7-89337482-4	chr7	89337377	89337577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	MER5A1|DNA|hAT-Charlie	1310.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	65.0	140.0	58.0	769.0	194.5	67.5	100.0	33.5
Merged-chr2-3641224-4	chr2	3641103	3641303	+	987.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72255.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	21.5	53.0	50.0	424.0	73.5	13.5	15.5	19.0
Merged-chr11-5732880-4	chr11	5732810	5733010	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	intron (NM_001361588, intron 1 of 6)	8266.0	NM_001361590	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	18.0	27.5	15.0	258.0	70.0	15.5	26.0	14.5
Merged-chr1-64295501-4	chr1	64295412	64295612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4b|LINE|L1	-174123.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	124.0	195.0	127.0	1378.5	222.5	94.5	96.5	55.5
Merged-chr3-95662956-4	chr3	95662837	95663037	+	861.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008562, exon 3 of 3)	3' UTR (NM_008562, exon 3 of 3)	4216.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	10.0	13.0	5.5	83.0	27.5	0.0	8.0	15.5
Merged-chr10-80988227-4	chr10	80988114	80988314	+	992.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	13151.0	NM_001038655	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	21.5	53.5	16.5	284.0	59.5	17.0	19.5	19.5
Merged-chr9-95557531-4	chr9	95557418	95557618	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2299.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	25.0	45.0	28.5	271.5	69.5	15.0	12.0	11.5
Merged-chr6-116676649-4	chr6	116676555	116676755	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2819.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	44.0	63.5	25.5	177.0	153.0	50.0	28.0	21.5
Merged-chr17-24645238-4	chr17	24645218	24645418	+	752.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023449)	promoter-TSS (NM_023449)	-361.0	NM_023449	65962.0	Mm.21587	NM_023055	ENSMUSG00000002504	Slc9a3r2	0610011L07Rik|1200011K07Rik|2010007A20Rik|E3karp|NHERF-2|Nherf2|Octs2|Sip-1|Sip1|Sryip1|Tka-1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 2	protein-coding	8.0	21.0	2.0	108.5	27.0	6.0	7.5	9.5
Merged-chr11-87761859-18	chr11	87762028	87762228	+	940.6239619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172449, intron 1 of 31)	intron (NM_172449, intron 1 of 31)	1587.0	NM_172449	207777.0	Mm.342019	NM_172449	ENSMUSG00000034156	Tspoap1	Bzrap1|D230016K05|PRAX-1|mKIAA0612	TSPO associated protein 1	protein-coding	5.0	31.5	2.0	18.0	36.0	11.5	8.0	15.5
Merged-chr17-12770131-3	chr17	12770021	12770221	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010515)	promoter-TSS (NM_010515)	-415.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	18.0	35.0	11.5	143.5	40.0	18.0	14.5	15.0
Merged-chr6-100288272-2	chr6	100288172	100288372	+	579.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019743)	promoter-TSS (NM_019743)	-914.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	2.0	1.5	3.0	31.0	20.5	7.0	8.0	10.0
Merged-chr5-65493393-4	chr5	65493282	65493482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133697)	promoter-TSS (NM_133697)	-547.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	41.0	97.0	56.0	1109.0	188.5	72.5	80.5	57.5
Merged-chr8-117481997-4	chr8	117481920	117482120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16255.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	101.5	143.0	65.5	1107.5	239.5	87.0	110.0	68.5
Merged-chr9-65460872-4	chr9	65460766	65460966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138584)	promoter-TSS (NM_138584)	-71.0	NM_138584	27965.0	Mm.272475	NM_138584	ENSMUSG00000032388	Spg21	ACP33|BM-019|C78576|D9Wsu18e|GL010|MAST	SPG21, maspardin	protein-coding	95.5	155.0	164.0	1797.0	291.0	113.5	117.0	124.0
Merged-chr2-167505422-4	chr2	167505324	167505524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153838, intron 1 of 4)	intron (NR_153838, intron 1 of 4)	1981.0	NM_001360930	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	40.5	61.0	23.5	325.5	95.5	55.0	33.0	49.0
Merged-chr13-24801277-5	chr13	24801239	24801439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024473)	promoter-TSS (NM_024473)	-318.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	59.5	135.0	100.0	1158.0	275.5	132.5	101.0	117.5
Merged-chr16-23984378-4	chr16	23984290	23984490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	intron (NM_009744, intron 1 of 9)	-3107.0	NM_001348026	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	31.5	47.0	14.5	435.0	94.5	28.0	30.0	38.5
Merged-chr7-27449440-4	chr7	27449343	27449543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144923, intron 1 of 4)	intron (NM_144923, intron 1 of 4)	1465.0	NM_144923	233016.0	Mm.24021	NM_144923	ENSMUSG00000040466	Blvrb	-	biliverdin reductase B (flavin reductase (NADPH))	protein-coding	54.0	61.5	72.5	811.0	121.0	33.0	73.5	55.0
Merged-chr3-122245527-5	chr3	122245420	122245620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008129)	promoter-TSS (NM_008129)	-37.0	NM_008129	14630.0	Mm.292676	NM_008129	ENSMUSG00000028124	Gclm	AI649393|Gcmc|Glclr	glutamate-cysteine ligase, modifier subunit	protein-coding	140.5	225.0	138.5	1791.5	461.0	168.0	262.5	119.0
Merged-chr10-121995572-4	chr10	121995492	121995692	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	intron (NM_001081037, intron 1 of 21)	51723.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	44.0	94.0	106.0	1306.0	50.0	16.5	24.5	18.0
Merged-chr13-56609545-4	chr13	56609465	56609665	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009369)	promoter-TSS (NM_009369)	-21.0	NM_009369	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	18.0	28.5	16.0	298.0	46.0	9.5	13.0	31.5
Merged-chr9-104234010-4	chr9	104233906	104234106	+	954.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 5 of 56)	intron (NM_001359740, intron 5 of 56)	28924.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	24.5	27.0	13.5	412.5	78.0	21.5	19.5	53.5
Merged-chr7-140948397-4	chr7	140948227	140948427	+	909.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053088)	TTS (NM_053088)	1912.0	NM_053088	73835.0	Mm.389989	NM_053088	ENSMUSG00000025489	Ifitm5	1110003J06Rik|AW213665|Bril|DSPA1|Hrmp1|Hrtm1	interferon induced transmembrane protein 5	protein-coding	4.5	4.0	7.5	190.5	12.5	5.0	10.5	10.0
Merged-chr3-84229126-4	chr3	84229011	84229211	+	925.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271726, intron 1 of 11)	intron (NM_001271726, intron 1 of 11)	-8234.0	NM_030706	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	13.5	35.5	21.0	184.0	24.0	9.0	17.0	23.0
Merged-chr2-181305088-4	chr2	181304981	181305181	+	868.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9419.0	NM_009133	20262.0	Mm.2319	NM_009133	ENSMUSG00000027581	Stmn3	9330161A03Rik|AI604839|R75323|Sclip	stathmin-like 3	protein-coding	5.0	14.5	19.0	158.0	19.0	5.5	10.0	7.0
Merged-chr13-51733207-2	chr13	51733107	51733307	+	848.650024	f1_balb.idr|f1_c57bl6.idr	intron (NM_013660, intron 2 of 15)	B1_Mus1|SINE|Alu	60540.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	9.0	4.5	5.5	64.5	18.0	5.0	8.5	8.5
Merged-chr4-57958406-4	chr4	57958290	57958490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1979.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	33.0	28.0	19.0	314.5	91.0	28.0	24.5	22.5
Merged-chr12-111676919-4	chr12	111676810	111677010	+	936.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1195.0	NM_001099792	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	17.0	14.5	10.5	255.0	27.0	10.0	12.0	24.0
Merged-chr12-99627993-4	chr12	99627888	99628088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045288)	promoter-TSS (NR_045288)	-14.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	122.0	182.5	170.0	2267.0	407.0	150.0	172.0	154.5
Merged-chr1-84883138-4	chr1	84883031	84883231	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025386, intron 2 of 3)	intron (NM_025386, intron 2 of 3)	43290.0	NM_025386	66153.0	Mm.381192	NM_025386	ENSMUSG00000073633	Fbxo36	0610008D19Rik|1110020F21Rik|2410002G19Rik|D1Ertd757e	F-box protein 36	protein-coding	13.0	25.0	20.0	414.5	58.0	8.5	35.0	31.5
Merged-chr8-75033828-7	chr8	75033735	75033935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136259, intron 1 of 15)	CpG	149.0	NM_011622	21968.0	Mm.1967	NM_011622	ENSMUSG00000042870	Tom1	-	target of myb1 trafficking protein	protein-coding	108.5	157.5	155.0	793.5	254.0	150.5	114.0	118.0
Merged-chr7-137314551-4	chr7	137314448	137314648	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010096)	promoter-TSS (NM_010096)	-103.0	NM_010096	13593.0	Mm.258708	NM_010096	ENSMUSG00000010476	Ebf3	3110018A08Rik|O/E-2|mKIAA4201	early B cell factor 3	protein-coding	7.0	12.0	5.0	151.0	17.0	12.5	14.5	4.5
Merged-chr13-75822643-3	chr13	75822549	75822749	+	774.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17236.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	18.5	20.0	14.0	211.0	0.0	1.0	0.5	3.5
Merged-chr11-94689153-4	chr11	94689050	94689250	+	851.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-11657.0	NM_145828	217119.0	Mm.100638	NM_145828	ENSMUSG00000020868	Xylt2	E030002B02Rik|XT-II|XT2|xylT-II	xylosyltransferase II	protein-coding	14.0	14.5	11.0	136.5	28.5	4.0	12.0	12.0
Merged-chr13-113590390-4	chr13	113590325	113590525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28139.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	90.0	160.5	111.0	1275.0	177.5	71.0	87.5	61.0
Merged-chr10-20349121-4	chr10	20349012	20349212	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027930, intron 2 of 6)	MTC|LTR|ERVL-MaLR	1293.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	13.5	18.0	10.5	285.5	222.5	95.5	99.5	95.5
Merged-chr1-43933897-4	chr1	43933806	43934006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310540)	promoter-TSS (NM_001310540)	-88.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	244.5	415.0	222.0	3344.0	719.5	257.0	310.5	253.0
Merged-chr2-181487764-5	chr2	181487718	181487918	+	754.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5388.0	NM_183181	241850.0	Mm.87455	NM_183181	ENSMUSG00000055882	Abhd16b	1700095H12	abhydrolase domain containing 16B	protein-coding	9.0	14.5	15.0	98.5	21.0	4.0	12.0	15.0
Merged-chr10-67386241-4	chr10	67386166	67386366	+	891.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100985.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	12.5	21.0	14.0	230.5	25.5	15.0	21.0	12.0
Merged-chr16-92864304-4	chr16	92864207	92864407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38233.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	144.5	177.0	123.5	1662.0	334.0	161.0	190.5	116.5
Merged-chr10-34280779-4	chr10	34280693	34280893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1397.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	25.5	54.5	29.0	291.0	80.5	28.0	38.0	31.0
Merged-chr16-97461487-4	chr16	97461384	97461584	+	778.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010846, intron 1 of 10)	intron (NM_010846, intron 1 of 10)	1421.0	NM_010846	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	7.0	8.0	3.5	161.5	26.5	8.5	7.0	9.0
Merged-chr10-68280099-4	chr10	68279957	68280157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1331.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	19.0	54.5	24.5	382.0	55.5	18.0	30.0	26.0
Merged-chr11-88145922-3	chr11	88145821	88146021	+	693.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198013, intron 1 of 10)	intron (NM_198013, intron 1 of 10)	-23644.0	NM_001172099	103841.0	Mm.374846	NM_198013	ENSMUSG00000018378	Cuedc1	AI841487|C330016O16Rik	CUE domain containing 1	protein-coding	4.0	15.5	2.0	133.5	14.0	8.0	10.0	10.5
Merged-chr12-100776663-1	chr12	100776563	100776763	+	563.0	f0_c57.idr	Intergenic	Intergenic	-2394.0	NM_001361023	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	9.5	22.0	8.5	100.0	19.0	12.0	6.0	4.0
Merged-chr11-86758776-4	chr11	86758634	86758834	+	902.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1167.0	NM_001356393	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	8.5	8.0	9.0	100.0	26.5	5.0	3.5	9.0
Merged-chr18-80194086-3	chr18	80193986	80194186	+	908.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_131039)	TTS (NR_131039)	6533.0	NM_199197	68731.0	Mm.186936	NM_199197	ENSMUSG00000024570	Rbfa	1110032A13Rik|AI595940	ribosome binding factor A	protein-coding	10.0	16.0	6.5	142.0	4.5	8.5	6.0	1.5
Merged-chr1-39443815-2	chr1	39443715	39443915	+	731.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357521, intron 1 of 19)	intron (NM_001357521, intron 1 of 19)	34932.0	NM_018775	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	4.5	7.5	6.0	49.5	21.5	2.0	4.5	2.0
Merged-chr12-78749472-4	chr12	78749300	78749500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019579, intron 1 of 14)	CpG	453.0	NM_019579	56217.0	Mm.425777	NM_019579	ENSMUSG00000021112	Mpp5	3830420B02Rik|AI255216|AI644496|Pals1	membrane protein, palmitoylated 5 (MAGUK p55 subfamily member 5)	protein-coding	22.0	53.5	40.0	306.5	79.5	25.5	28.0	32.0
Merged-chr16-94607583-3	chr16	94607487	94607687	+	846.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	-3832.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	5.5	9.0	12.0	160.5	23.5	4.5	9.5	15.0
Merged-chr7-19665025-4	chr7	19664929	19665129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019649)	promoter-TSS (NM_019649)	1.0	NM_019649	56457.0	Mm.290960	NM_019649	ENSMUSG00000002981	Clptm1	HS9|N14	cleft lip and palate associated transmembrane protein 1	protein-coding	55.5	122.5	44.5	765.5	182.5	65.5	56.5	51.5
Merged-chr16-30788367-3	chr16	30788284	30788484	+	894.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	188661.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	5.5	11.0	7.0	144.0	14.5	5.0	12.0	5.0
Merged-chr10-111774001-3	chr10	111773899	111774099	+	928.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	100377.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	19.5	40.5	40.0	267.5	27.0	16.5	10.0	6.0
Merged-chr12-79613736-7	chr12	79613559	79613759	+	951.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	311074.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	7.0	8.5	4.5	174.0	19.0	16.0	6.5	8.5
Merged-chr10-80741829-1	chr10	80741729	80741929	+	586.0	f0_c57.idr	intron (NM_007460, intron 1 of 30)	CpG	446.0	NM_007460	11776.0	Mm.27082	NM_007460	ENSMUSG00000020198	Ap3d1	AA407035|Ap3d|Bolvr|mBLVR1|mh|mocha	adaptor-related protein complex 3, delta 1 subunit	protein-coding	2.0	7.0	6.5	99.0	38.5	8.0	7.5	12.0
Merged-chr19-6668748-4	chr19	6668625	6668825	+	956.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125655.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	32.5	43.5	33.0	358.0	68.0	14.0	14.0	28.0
Merged-chr6-30401713-5	chr6	30401562	30401762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311087)	promoter-TSS (NM_001311087)	-193.0	NM_029742	76788.0	Mm.277308	NM_029742	ENSMUSG00000029775	Klhdc10	2410127E18Rik|AI593221|mKIAA0265	kelch domain containing 10	protein-coding	68.5	99.0	75.5	727.0	136.5	58.5	43.0	57.0
Merged-chr11-60879601-4	chr11	60879446	60879646	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168507)	promoter-TSS (NM_001168507)	-508.0	NM_001168507	216821.0	Mm.28063	NM_173453	ENSMUSG00000043284	Tmem11	5730466P16Rik|AA409091	transmembrane protein 11	protein-coding	25.5	32.0	15.5	211.0	54.5	14.5	15.5	20.0
Merged-chr17-64531337-4	chr17	64531246	64531446	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045899, intron 1 of 3)	intron (NR_045899, intron 1 of 3)	24244.0	NR_045899	100043582.0	Mm.11170	NR_045899	ENSMUSG00000073377	AU016765	-	expressed sequence AU016765	ncRNA	21.0	64.0	34.5	335.0	59.5	10.5	28.5	18.5
Merged-chr18-36348443-7	chr18	36348344	36348544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081365)	promoter-TSS (NM_001081365)	-180.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	29.0	39.0	32.0	414.0	55.0	23.0	28.5	30.5
Merged-chr10-116726229-4	chr10	116726127	116726327	+	982.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045345, intron 1 of 2)	intron (NR_045345, intron 1 of 2)	2950.0	NR_045345	72286.0	Mm.396207	NR_045345	ENSMUSG00000100198	1700030O20Rik	-	RIKEN cDNA 1700030O20 gene	ncRNA	6.5	18.5	5.0	140.0	57.0	16.0	24.5	25.5
Merged-chr2-170153819-4	chr2	170153726	170153926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11151.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	44.5	70.0	45.0	476.0	114.5	36.5	49.5	38.0
Merged-chr10-24809028-2	chr10	24808927	24809127	+	693.25	f0_c57.idr|f1_c57bl6.idr	intron (NM_134005, intron 7 of 24)	RSINE1|SINE|B4	27168.0	NM_134005	209558.0	Mm.338425	NM_134005	ENSMUSG00000019989	Enpp3	AI876438|CD203c	ectonucleotide pyrophosphatase/phosphodiesterase 3	protein-coding	2.5	2.0	1.5	70.5	27.5	4.5	9.0	5.0
Merged-chr1-36789612-4	chr1	36789506	36789706	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	10622.0	NM_001289612	22637.0	Mm.8038	NM_009539	ENSMUSG00000026117	Zap70	Srk|ZAP-70|mrtle|mur	zeta-chain (TCR) associated protein kinase	protein-coding	14.0	20.0	13.0	280.0	30.0	3.0	26.5	21.0
Merged-chr15-62032323-3	chr15	62032222	62032422	+	649.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5664.0	NR_132747	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	8.0	12.5	1.0	186.0	20.0	8.0	7.0	4.5
Merged-chr14-30715643-4	chr14	30715543	30715743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166532)	promoter-TSS (NM_001166532)	28.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	45.0	75.5	27.0	402.0	91.0	49.0	48.5	32.5
Merged-chr11-75630884-4	chr11	75630792	75630992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008916)	promoter-TSS (NM_008916)	-128.0	NM_008916	19062.0	Mm.1458	NM_008916	ENSMUSG00000006127	Inpp5k	C62|Pps|SKIP	inositol polyphosphate 5-phosphatase K	protein-coding	187.5	374.5	225.0	2555.0	599.5	212.5	298.5	196.0
Merged-chr11-70229087-4	chr11	70228983	70229183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007528, exon 2 of 9)	exon (NM_007528, exon 2 of 9)	715.0	NM_007528	12029.0	Mm.12930	NM_007528	ENSMUSG00000000317	Bcl6b	Bazf	B cell CLL/lymphoma 6, member B	protein-coding	15.5	47.0	23.5	299.5	106.5	35.5	44.0	32.5
Merged-chr11-100395429-4	chr11	100395334	100395534	+	968.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010593, intron 1 of 13)	intron (NM_010593, intron 1 of 13)	2356.0	NM_010593	16480.0	Mm.299774	NM_010593	ENSMUSG00000001552	Jup	Ctnng|D930025P04Rik|PG	junction plakoglobin	protein-coding	26.0	28.5	13.0	319.5	57.0	24.0	11.0	17.5
Merged-chr12-40559307-4	chr12	40559208	40559408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	113255.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	108.5	176.0	141.5	1852.0	308.0	97.0	103.5	87.5
Merged-chr1-189689198-3	chr1	189689081	189689281	+	712.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1095.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	10.5	9.0	14.0	187.5	6.5	10.5	3.0	5.0
Merged-chr10-14133103-4	chr10	14133015	14133215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 5 of 9)	intron (NM_001358782, intron 5 of 9)	166736.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	57.5	107.0	51.5	778.5	156.0	59.5	47.5	40.5
Merged-chr9-44230277-1	chr9	44230177	44230377	+	1000.0	f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	intron (NM_007619, intron 1 of 15)	3769.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	11.5	8.0	6.0	59.0	20.0	1.0	2.5	8.5
Merged-chr5-3490565-4	chr5	3490463	3490663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-53270.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	74.0	92.5	59.0	930.0	163.0	61.0	89.5	55.5
Merged-chr9-121476281-2	chr9	121476181	121476381	+	877.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19413.0	NM_001284508	12424.0	Mm.2619	NM_031161	ENSMUSG00000032532	Cck	-	cholecystokinin	protein-coding	5.0	10.5	5.0	39.5	14.5	6.5	11.0	5.5
Merged-chr2-118111785-4	chr2	118111659	118111859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011580)	promoter-TSS (NM_011580)	-117.0	NM_011580	21825.0	Mm.4159	NM_011580	ENSMUSG00000040152	Thbs1	TSP-1|TSP1|Thbs-1|tbsp1	thrombospondin 1	protein-coding	29.5	32.0	32.5	357.0	58.5	13.5	21.0	17.0
Merged-chr14-31385092-4	chr14	31384967	31385167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	32610.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	79.5	109.5	105.5	1341.5	204.5	59.5	120.5	106.0
Merged-chr14-20845890-4	chr14	20845793	20845993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9231.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	29.0	75.0	36.5	581.5	77.5	29.5	53.5	31.5
Merged-chr17-57342465-6	chr17	57342351	57342551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-16235.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	19.5	25.5	25.0	292.0	53.5	24.5	17.0	23.0
Merged-chr2-19120111-4	chr2	19120026	19120226	+	924.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78992.0	NM_001271563	70882.0	Mm.276696	NM_001081083	ENSMUSG00000037683	Armc3	4921513G22Rik	armadillo repeat containing 3	protein-coding	21.0	15.5	11.0	251.0	36.0	23.0	17.0	14.5
Merged-chr1-179488171-4	chr1	179488081	179488281	+	862.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 1 of 11)	intron (NM_027188, intron 1 of 11)	29860.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	5.0	13.5	7.5	159.0	26.0	7.0	20.5	17.0
Merged-chr5-31614055-4	chr5	31613948	31614148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025796)	promoter-TSS (NM_025796)	97.0	NM_025796	66845.0	Mm.120763	NM_025796	ENSMUSG00000106918	Mrpl33	0610009M10Rik|L33mt|MRP-L33	mitochondrial ribosomal protein L33	protein-coding	38.5	62.5	44.0	380.0	66.0	24.5	40.0	35.0
Merged-chr15-97849639-7	chr15	97849544	97849744	+	936.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5142.0	NM_001204278	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	13.0	18.0	10.0	138.5	24.5	12.5	13.0	8.5
Merged-chr19-24967173-4	chr19	24967061	24967261	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5545.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	13.0	37.0	21.0	241.0	49.0	17.5	16.0	22.5
Merged-chr16-38709366-3	chr16	38709289	38709489	+	921.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	3646.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	11.5	8.5	9.5	59.0	39.5	3.5	16.0	11.0
Merged-chr19-11055840-4	chr19	11055756	11055956	+	935.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	-5290.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	18.5	24.5	8.5	127.5	45.5	22.5	6.5	16.0
Merged-chr17-83395543-4	chr17	83395449	83395649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357886, intron 1 of 21)	MTEa|LTR|ERVL-MaLR	44618.0	NM_001357886	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	18.0	32.5	21.5	431.0	54.0	28.5	39.5	27.0
Merged-chr1-36277457-4	chr1	36277361	36277561	+	956.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4036.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	20.0	32.0	2.0	251.0	50.0	20.0	13.5	19.5
Merged-chr3-15007131-1	chr3	15007031	15007231	+	541.0	f0_balb.idr	Intergenic	RLTR45|LTR|ERVK	35930.0	NR_040550	77127.0	Mm.195792	NR_040549	ENSMUSG00000098008	A930001A20Rik	-	RIKEN cDNA A930001A20 gene	ncRNA	4.5	12.0	12.0	64.0	1.0	1.0	2.0	0.0
Merged-chr8-86585296-1	chr8	86585196	86585396	+	585.0	f0_c57.idr	Intergenic	Intergenic	-18706.0	NM_172912	244562.0	Mm.67485	NM_172912	ENSMUSG00000036872	Abcc12	4930467B22Rik|MRP9	ATP-binding cassette, sub-family C (CFTR/MRP), member 12	protein-coding	14.5	9.5	0.5	49.0	23.0	4.5	9.0	5.0
Merged-chr2-52741858-2	chr2	52741758	52741958	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019667, intron 1 of 13)	intron (NM_019667, intron 1 of 13)	291.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	12.5	24.0	21.0	167.0	33.0	13.5	18.5	12.0
Merged-chr3-146107629-4	chr3	146107526	146107726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172864, intron 1 of 22)	intron (NM_172864, intron 1 of 22)	410.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	19.0	19.0	23.5	361.0	65.5	27.5	34.0	42.5
Merged-chr10-20835412-4	chr10	20835307	20835507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-110329.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	166.0	226.0	111.0	2638.0	438.5	132.5	169.0	174.5
Merged-chr16-90445593-4	chr16	90445495	90445695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 2 of 10)	intron (NM_015755, intron 2 of 10)	59198.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	27.0	47.5	29.0	536.0	67.5	31.5	25.5	25.5
Merged-chr17-83645445-4	chr17	83645346	83645546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13551.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	142.5	196.0	122.0	2317.0	302.0	103.0	154.5	124.5
Merged-chr3-67557372-4	chr3	67557254	67557454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25414.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	217.5	406.0	227.5	4093.0	707.5	299.0	288.5	246.0
Merged-chr12-73780091-4	chr12	73779908	73780108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121316.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	25.5	39.5	13.0	405.0	50.5	15.0	15.5	23.0
Merged-chr6-37419764-4	chr6	37419679	37419879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	22369.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	34.0	54.5	25.5	546.0	106.5	38.5	48.0	38.0
Merged-chr13-49306946-4	chr13	49306843	49307043	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	2265.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	24.5	20.0	17.5	358.0	31.0	14.5	15.5	16.5
Merged-chr19-32665469-4	chr19	32665346	32665546	+	937.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011864, exon 13 of 13)	exon (NM_011864, exon 13 of 13)	45441.0	NM_011864	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	6.5	25.0	17.5	362.0	29.5	16.0	22.5	13.0
Merged-chr1-64376579-4	chr1	64376469	64376669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-156235.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	61.5	94.5	102.5	1197.5	143.5	50.5	72.5	58.0
Merged-chr12-33302252-4	chr12	33302162	33302362	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033436)	promoter-TSS (NM_001033436)	-253.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	31.0	36.5	8.0	321.0	91.5	23.0	51.0	22.0
Merged-chr14-120398444-4	chr14	120398346	120398546	+	918.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 7 of 7)	intron (NM_001360380, intron 7 of 7)	-80015.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	13.0	23.5	17.5	169.5	37.0	8.0	15.0	12.5
Merged-chr3-75297192-4	chr3	75297074	75297274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27096.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	71.0	81.5	47.5	817.5	112.5	50.5	32.0	50.5
Merged-chr2-174415770-4	chr2	174415663	174415863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020580)	promoter-TSS (NM_020580)	-41.0	NM_020580	57314.0	Mm.271709	NM_020580	ENSMUSG00000016253	Nelfcd	2410003I03Rik|C77797|Th1|Th1l	negative elongation factor complex member C/D, Th1l	protein-coding	115.5	226.5	56.0	1136.0	352.0	123.5	125.0	103.5
Merged-chr18-6335472-3	chr18	6335355	6335555	+	914.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-93931.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	6.5	6.0	9.0	123.5	23.0	8.0	8.0	7.0
Merged-chr8-120812274-3	chr8	120812193	120812393	+	894.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73654.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	5.5	11.5	9.0	133.0	6.5	2.5	8.0	6.0
Merged-chr11-118156724-4	chr11	118156642	118156842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27523.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	66.5	83.5	91.0	747.0	120.0	43.5	56.5	58.0
Merged-chr19-56801476-4	chr19	56801379	56801579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170757, intron 6 of 14)	intron (NM_170757, intron 6 of 14)	12204.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	66.5	113.0	52.5	663.0	69.5	37.5	30.0	30.0
Merged-chr17-24669635-4	chr17	24669543	24669743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183149)	promoter-TSS (NM_183149)	-44.0	NM_001348231	213753.0	Mm.219581	NM_183149	ENSMUSG00000041130	Zfp598	BC023040|Ntrap|Znf598	zinc finger protein 598	protein-coding	134.0	296.0	91.0	2124.0	358.0	158.0	210.0	152.5
Merged-chr3-122372871-3	chr3	122372774	122372974	+	977.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46883.0	NM_013867	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	13.5	21.5	22.0	428.0	12.0	1.0	8.5	6.5
Merged-chr16-57345001-4	chr16	57344903	57345103	+	864.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025599, intron 1 of 9)	MERVL_2A-int|LTR|ERVL	-8274.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	5.0	9.5	8.5	126.0	22.5	2.0	13.5	13.0
Merged-chr11-103101626-4	chr11	103101525	103101725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025988)	promoter-TSS (NM_025988)	33.0	NM_152813	72469.0	Mm.264743	NM_152813	ENSMUSG00000020937	Plcd3	2610205J15Rik|mKIAA1964	phospholipase C, delta 3	protein-coding	25.5	41.5	48.5	397.5	72.5	17.5	19.5	27.5
Merged-chr9-99200511-3	chr9	99200423	99200623	+	697.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36716.0	NM_001244762	623459.0	Mm.260891	NM_001244762	ENSMUSG00000096316	Faiml	EG623459|Gm6432	Fas apoptotic inhibitory molecule like	protein-coding	9.0	6.0	9.0	104.5	22.0	3.5	4.5	3.5
Merged-chr7-27577817-4	chr7	27577704	27577904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175107, intron 8 of 9)	MTC|LTR|ERVL-MaLR	-13748.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	20.0	40.0	35.5	350.0	192.5	55.0	74.5	54.5
Merged-chr14-62342992-5	chr14	62342979	62343179	+	919.82666	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026001, intron 1 of 10)	intron (NM_026001, intron 1 of 10)	11011.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	6.5	6.0	8.5	37.0	6.5	2.0	5.5	6.0
Merged-chr3-104794672-4	chr3	104794562	104794762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291859)	TTS (NM_001291859)	5628.0	NM_001291859	11853.0	Mm.262	NM_007484	ENSMUSG00000002233	Rhoc	AI324259|Arh9|Arhc	ras homolog family member C	protein-coding	103.0	139.5	112.0	2112.5	133.0	52.5	82.0	51.5
Merged-chr17-43030352-3	chr17	43030266	43030466	+	650.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 1 of 5)	intron (NM_178589, intron 1 of 5)	13811.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	12.5	7.0	12.0	120.5	6.5	2.5	2.5	3.0
Merged-chr6-142752200-4	chr6	142752100	142752300	+	742.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-4486.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	11.5	9.5	9.0	123.0	28.5	9.5	6.0	16.0
Merged-chr4-48108825-4	chr4	48108720	48108920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16099.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	33.0	50.5	28.0	1010.0	93.5	35.0	28.5	38.5
Merged-chr7-89411516-4	chr7	89411427	89411627	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7161.0	NM_008055	14366.0	Mm.86755	NM_008055	ENSMUSG00000049791	Fzd4	Fz4	frizzled class receptor 4	protein-coding	65.0	55.0	69.5	1269.5	52.5	15.0	24.0	29.5
Merged-chr11-22780485-4	chr11	22780456	22780656	+	928.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	79179.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	5.0	5.0	8.5	139.0	12.5	3.5	3.5	3.5
Merged-chr1-127206346-5	chr1	127206252	127206452	+	992.9933470000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	1366.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	15.0	17.5	24.5	327.0	49.0	14.5	20.0	18.5
Merged-chr11-94550348-4	chr11	94550246	94550446	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1139.0	NM_001013381	237926.0	Mm.342275	NM_001013381	ENSMUSG00000039096	Rsad1	B430319G23|BC056485	radical S-adenosyl methionine domain containing 1	protein-coding	14.0	39.5	20.0	264.5	36.0	42.0	30.0	10.5
Merged-chr18-62046065-1	chr18	62045965	62046165	+	656.5	f0_balb.idr	Intergenic	L2a|LINE|L2	92990.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	9.5	10.0	6.0	118.5	19.5	4.5	5.0	10.5
Merged-chr11-46834383-4	chr11	46834270	46834470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 5 of 8)	intron (NM_178759, intron 5 of 8)	23571.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	29.0	23.5	23.5	296.0	59.0	17.5	25.0	29.5
Merged-chr8-109608515-4	chr8	109608401	109608601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020046, exon 1 of 9)	5' UTR (NM_020046, exon 1 of 9)	172.0	NM_020046	56749.0	Mm.23894	NM_020046	ENSMUSG00000031730	Dhodh	2810417D19Rik|AI834883	dihydroorotate dehydrogenase	protein-coding	202.5	282.5	200.0	3025.0	392.0	141.5	170.5	164.5
Merged-chr13-64281158-4	chr13	64280992	64281192	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-6104.0	NM_172587	218294.0	Mm.25335	NM_172587	ENSMUSG00000033102	Cdc14b	2810432N10Rik|A530086E13Rik|AA472821|CDC14B3|Cdc14B1	CDC14 cell division cycle 14B	protein-coding	18.5	26.5	11.5	263.5	40.5	9.0	22.5	15.5
Merged-chr2-160026048-3	chr2	160025942	160026142	+	712.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040499, intron 2 of 3)	intron (NR_040499, intron 2 of 3)	9389.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	11.5	24.5	11.5	98.0	5.0	2.0	3.0	0.5
Merged-chr1-156439809-2	chr1	156439709	156439909	+	582.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 8 of 15)	intron (NM_009230, intron 8 of 15)	-18894.0	NM_001346967	77352.0	Mm.428709	NM_001033180	ENSMUSG00000026601	Axdnd1	9430070O13Rik|Gm979	axonemal dynein light chain domain containing 1	protein-coding	5.0	4.5	6.5	70.5	5.0	1.0	2.0	1.5
Merged-chr7-43667763-4	chr7	43667680	43667880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS_Mm|LTR|ERV1	-4251.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	31.0	61.5	13.5	51.0	156.5	31.0	27.0	27.5
Merged-chr13-30698096-4	chr13	30698002	30698202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 4 of 7)	intron (NM_134068, intron 4 of 7)	38043.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	48.0	40.0	17.5	364.0	72.0	11.0	27.0	18.5
Merged-chr5-130139582-4	chr5	130139468	130139668	+	887.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5320.0	NM_172509	212919.0	Mm.55812	NM_172509	ENSMUSG00000034110	Kctd7	4932409E18|9430010P06Rik	potassium channel tetramerisation domain containing 7	protein-coding	22.5	34.5	13.5	215.5	17.0	19.0	8.0	12.5
Merged-chr2-130525664-4	chr2	130525560	130525760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 7 of 21)	intron (NM_001355161, intron 7 of 21)	38089.0	NR_040348	321014.0	Mm.442588	NR_040348	ENSMUSG00000060029	4930473A02Rik	-	RIKEN cDNA 4930473A02 gene	ncRNA	98.5	146.5	118.0	1190.5	135.5	58.0	84.5	76.0
Merged-chr14-66189037-4	chr14	66188937	66189137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 4 of 30)	intron (NM_001162366, intron 4 of 30)	24787.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	30.5	37.0	25.5	417.5	87.5	24.5	29.0	30.5
Merged-chr6-114659697-4	chr6	114659599	114659799	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 2 of 19)	intron (NM_001253718, intron 2 of 19)	16602.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	18.0	30.0	21.5	335.0	26.0	9.5	17.5	18.0
Merged-chr3-103279719-4	chr3	103279626	103279826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_053170, exon 1 of 20)	5' UTR (NM_053170, exon 1 of 20)	433.0	NM_053170	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	89.0	100.0	63.0	1284.5	220.5	82.0	106.5	109.5
Merged-chr8-61607750-4	chr8	61607605	61607805	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	-16536.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	7.5	6.5	3.5	125.5	26.5	7.5	6.0	10.5
Merged-chr12-102365270-4	chr12	102365167	102365367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 5 of 9)	intron (NM_177620, intron 5 of 9)	74546.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	114.5	151.0	113.0	1656.0	265.5	65.5	98.5	111.5
Merged-chr7-131802226-3	chr7	131802118	131802318	+	714.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164242.0	NM_173410	233919.0	Mm.208740	NM_173410	ENSMUSG00000040125	Gpr26	9630036A11Rik|A730021D22	G protein-coupled receptor 26	protein-coding	6.0	9.0	7.0	146.0	10.5	3.5	7.0	5.5
Merged-chr4-87826555-4	chr4	87826464	87826664	+	962.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027326, intron 5 of 10)	intron (NM_027326, intron 5 of 10)	-20241.0	NM_029931	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	9.5	15.5	18.5	360.5	72.5	23.5	57.0	52.0
Merged-chr11-48818518-4	chr11	48818417	48818617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1126.0	NM_145377	211007.0	Mm.794	NM_145377	ENSMUSG00000040365	Trim41	AW552703|BC020156|R75223|RINCK	tripartite motif-containing 41	protein-coding	59.0	100.5	35.5	420.0	133.5	66.5	40.5	47.5
Merged-chr7-141440803-4	chr7	141440685	141440885	+	925.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360523, exon 8 of 16)	exon (NM_001360523, exon 8 of 16)	-2911.0	NM_001360724	68267.0	Mm.33729	NM_026646	ENSMUSG00000019082	Slc25a22	1300006L01Rik|AI060884|Gc1	solute carrier family 25 (mitochondrial carrier, glutamate), member 22	protein-coding	22.0	13.5	12.0	215.5	35.0	8.0	11.0	24.0
Merged-chr7-38028897-4	chr7	38028860	38029060	+	780.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9408.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	9.5	6.5	9.0	127.0	15.5	7.5	4.5	4.5
Merged-chr9-40343949-3	chr9	40343844	40344044	+	684.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040728)	TTS (NR_040728)	2301.0	NM_001357623	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	12.0	10.0	10.0	116.5	7.5	4.5	1.5	6.0
Merged-chr15-60825538-2	chr15	60825438	60825638	+	589.083374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162926)	promoter-TSS (NM_001162926)	-458.0	NM_001162926	399603.0	Mm.411968	NM_207269	ENSMUSG00000072568	Fam84b	BF642811|D330050I23Rik	family with sequence similarity 84, member B	protein-coding	7.0	5.5	6.0	46.5	2.5	4.0	3.0	8.0
Merged-chr17-67449599-4	chr17	67449465	67449665	+	744.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-95074.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	11.5	14.5	5.5	65.5	33.0	9.0	6.5	13.0
Merged-chr2-36214240-4	chr2	36214132	36214332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16194.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	30.5	71.0	33.0	658.5	109.0	43.5	47.5	37.0
Merged-chr11-85811374-4	chr11	85811306	85811506	+	905.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077059, intron 1 of 4)	intron (NR_077059, intron 1 of 4)	20982.0	NR_077059	69909.0	Mm.440214	NR_077059	ENSMUSG00000087013	2610027K06Rik	-	RIKEN cDNA 2610027K06 gene	ncRNA	19.0	9.0	11.5	186.5	27.5	1.5	10.0	22.0
Merged-chr13-92274657-4	chr13	92274542	92274742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311120, intron 14 of 23)	intron (NM_001311120, intron 14 of 23)	-80141.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	69.0	102.5	92.5	1986.5	146.5	44.5	64.5	69.5
Merged-chr3-28146147-4	chr3	28146083	28146283	+	894.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-117031.0	NM_001163007	665113.0	Mm.126193	NM_026910	ENSMUSG00000027692	Tnik	1500031A17Rik|4831440I19Rik|AI451411|C530008O15Rik|C630040K21Rik	TRAF2 and NCK interacting kinase	protein-coding	11.5	13.5	11.5	233.5	52.5	16.0	11.5	15.0
Merged-chr11-65806590-4	chr11	65806484	65806684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026107)	promoter-TSS (NM_026107)	-591.0	NM_001302374	52712.0	Mm.340052	NM_026107	ENSMUSG00000018347	Zkscan6	1700128E15Rik|D11Ertd714e|KOX11|Zfp535|Znf18	zinc finger with KRAB and SCAN domains 6	protein-coding	112.5	132.0	68.0	1686.5	188.0	80.0	74.0	55.5
Merged-chr8-122556808-4	chr8	122556729	122556929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5500.0	NM_001357349	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	34.0	46.5	38.5	790.5	98.0	37.5	65.5	55.5
Merged-chr5-31881689-2	chr5	31881589	31881789	+	790.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 6 of 11)	intron (NM_144541, intron 6 of 11)	183639.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	3.0	5.0	3.0	90.0	12.5	7.5	6.5	7.0
Merged-chr7-19279754-4	chr7	19279688	19279888	+	754.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177691, exon 1 of 5)	exon (NM_177691, exon 1 of 5)	261.0	NM_177691	232941.0	Mm.134068	NM_177691	ENSMUSG00000030402	Ppm1n	A930002H20|C79127	protein phosphatase, Mg2+/Mn2+ dependent, 1N (putative)	protein-coding	7.5	10.0	3.5	76.0	22.5	10.0	4.5	9.0
Merged-chr9-108068048-3	chr9	108067961	108068161	+	869.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311152, intron 15 of 38)	intron (NM_001311152, intron 15 of 38)	11240.0	NM_001311152	84585.0	Mm.379272	NM_032543	ENSMUSG00000041528	Rnf123	BC003945|Kpc1	ring finger protein 123	protein-coding	10.5	11.5	6.5	113.5	22.0	6.0	7.0	9.0
Merged-chr18-84688511-4	chr18	84688420	84688620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2818.0	NM_023149	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	51.5	69.0	36.5	632.5	163.0	57.0	62.0	66.5
Merged-chr11-116379758-4	chr11	116379663	116379863	+	843.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 2 of 18)	intron (NM_027258, intron 2 of 18)	33269.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	9.0	17.0	7.0	124.5	33.5	9.0	11.0	17.5
Merged-chr5-99267535-4	chr5	99267419	99267619	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14592.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	23.0	55.0	28.0	514.5	52.0	16.5	22.5	16.0
Merged-chr14-21654033-4	chr14	21653935	21654135	+	967.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017479, intron 12 of 16)	MTD|LTR|ERVL-MaLR	60541.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	16.0	35.5	41.5	550.5	46.5	12.5	19.0	29.5
Merged-chr11-100369173-3	chr11	100369062	100369262	+	875.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010593, exon 14 of 14)	3' UTR (NM_010593, exon 14 of 14)	-13021.0	NM_010404	15114.0	Mm.281700	NM_010404	ENSMUSG00000006930	Hap1	HAP-1	huntingtin-associated protein 1	protein-coding	6.5	11.0	4.5	78.0	34.0	5.5	9.0	9.0
Merged-chr18-84680703-4	chr18	84680597	84680797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023149, intron 3 of 11)	intron (NM_023149, intron 3 of 11)	1362.0	NM_001289531	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	111.5	196.5	177.0	1920.0	318.0	98.5	122.5	107.5
Merged-chr10-71348505-4	chr10	71348395	71348595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	CpG	732.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	37.0	66.5	65.0	896.5	81.5	29.5	42.0	38.0
Merged-chr17-56763572-4	chr17	56763477	56763677	+	981.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1174.0	NM_001360405	224907.0	Mm.293973	NM_144858	ENSMUSG00000007603	Dus3l	AI662135|AW557805	dihydrouridine synthase 3-like (S. cerevisiae)	protein-coding	18.5	33.5	27.5	227.0	61.0	27.0	29.0	17.5
Merged-chr13-113636108-4	chr13	113636025	113636225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17561.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	60.0	60.0	58.5	1318.0	134.5	54.5	71.5	80.0
Merged-chr6-149132527-4	chr6	149132435	149132635	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8978.0	NM_001252096	320204.0	Mm.274099	NM_177101	ENSMUSG00000039958	Etfbkmt	4833442J19Rik|AI256744|ETFB-KMT|Mettl20	electron transfer flavoprotein beta subunit lysine methyltransferase	protein-coding	11.5	19.5	7.5	283.5	62.5	9.0	22.0	15.0
Merged-chr7-67759856-4	chr7	67759747	67759947	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201639)	promoter-TSS (NM_201639)	-105.0	NM_207663	233335.0	Mm.60526	NM_183312	ENSMUSG00000030554	Synm	4930412K21Rik|AI852401|Dmn|E130104F11|Syn|Synemin	synemin, intermediate filament protein	protein-coding	17.0	18.0	35.5	516.0	72.0	6.0	14.5	17.0
Merged-chr18-35477973-3	chr18	35477866	35478066	+	621.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030749, intron 1 of 9)	RMER4B|LTR|ERVK	-8014.0	NM_001360814	81500.0	Mm.291482	NM_030749	ENSMUSG00000024357	Sil1	1810057E01Rik|AI042831|wz	endoplasmic reticulum chaperone SIL1 homolog (S. cerevisiae)	protein-coding	7.0	9.5	5.5	78.5	3.5	4.0	7.0	7.5
Merged-chr17-70853715-4	chr17	70853626	70853826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164074)	promoter-TSS (NM_001164074)	-194.0	NM_001164074	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	91.0	131.5	92.0	2024.0	245.0	63.0	149.5	108.5
Merged-chr17-5800330-1	chr17	5800230	5800430	+	1000.0	f0_balb.idr	intron (NR_045080, intron 1 of 1)	intron (NR_045080, intron 1 of 1)	840.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	23.0	43.0	18.0	197.5	55.0	17.5	18.0	24.5
Merged-chr9-40834870-4	chr9	40834779	40834979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33606.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	34.5	39.5	41.5	410.5	91.5	34.0	29.0	37.5
Merged-chr5-99360349-4	chr5	99360235	99360435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-107408.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	73.0	88.5	65.0	1312.5	131.5	32.5	34.5	41.0
Merged-chr8-71537539-4	chr8	71537440	71537640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198095)	promoter-TSS (NM_198095)	-103.0	NM_198095	69550.0	Mm.260325	NM_198095	ENSMUSG00000046718	Bst2	2310015I10Rik|Bst-2|C87040|CD317|DAMP-1|GREG	bone marrow stromal cell antigen 2	protein-coding	108.5	205.5	93.0	1233.5	240.0	95.0	84.0	96.5
Merged-chr2-170322257-4	chr2	170322140	170322340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34121.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	64.5	101.0	77.0	971.0	118.0	39.5	55.5	65.0
Merged-chr6-34868493-4	chr6	34868399	34868599	+	957.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197986, intron 1 of 1)	intron (NM_197986, intron 1 of 1)	5353.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	8.0	24.5	20.0	342.0	24.5	6.0	17.0	10.5
Merged-chr10-118766213-4	chr10	118766118	118766318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102685.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	55.5	63.0	49.0	670.5	160.0	51.0	87.5	48.5
Merged-chr19-28659367-3	chr19	28659286	28659486	+	880.455566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175459, intron 2 of 10)	intron (NM_175459, intron 2 of 10)	-18838.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	11.5	10.5	9.0	237.0	7.5	5.5	0.0	4.0
Merged-chr1-155218267-3	chr1	155218163	155218363	+	786.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59560.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	6.0	4.5	7.0	66.0	12.5	3.5	5.5	12.0
Merged-chr2-167675361-2	chr2	167675261	167675461	+	830.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13554.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	5.0	10.5	2.0	25.5	11.5	16.5	9.5	9.0
Merged-chr18-12218688-1	chr18	12218588	12218788	+	642.0	f0_balb.idr	intron (NM_008720, intron 4 of 24)	B3|SINE|B2	17698.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	6.0	5.0	7.5	116.0	5.5	0.0	1.5	2.0
Merged-chr2-163433998-3	chr2	163433914	163434114	+	838.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4453.0	NM_144891	228858.0	Mm.102080	NM_144891	ENSMUSG00000017943	Gdap1l1	Gdap1l	ganglioside-induced differentiation-associated protein 1-like 1	protein-coding	7.0	6.0	6.0	112.5	9.0	2.5	0.0	7.0
Merged-chr15-76659822-4	chr15	76659732	76659932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358912)	promoter-TSS (NM_001358912)	-26.0	NM_001358910	16581.0	Mm.378950	NM_010630	ENSMUSG00000004187	Kifc2	-	kinesin family member C2	protein-coding	122.5	191.5	106.0	1838.5	282.0	140.0	192.5	96.5
Merged-chr5-148303173-2	chr5	148303073	148303273	+	622.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359505, intron 6 of 8)	Lx9|LINE|L1	37956.0	NM_001359505	77521.0	Mm.244177	NM_029920	ENSMUSG00000029651	Mtus2	5730592G18Rik|A730013O20Rik|AU067634|C130038G02Rik|Cazip|Gm763|mKIAA0774	microtubule associated tumor suppressor candidate 2	protein-coding	5.5	1.0	2.5	11.5	14.5	4.5	7.0	9.0
Merged-chr3-144453855-4	chr3	144453743	144453943	+	885.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355234, intron 3 of 6)	intron (NM_001355234, intron 3 of 6)	116373.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	16.5	17.0	8.5	228.0	39.0	11.5	18.5	17.0
Merged-chr10-128096849-4	chr10	128096758	128096958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 2 of 29)	CpG	4075.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	65.0	60.5	46.5	557.5	142.5	46.0	44.5	60.0
Merged-chr8-61387823-3	chr8	61387717	61387917	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021506, intron 11 of 11)	intron (NM_021506, intron 11 of 11)	-98945.0	NR_045475	69279.0	Mm.417857	NR_045475	ENSMUSG00000099419	1700001D01Rik	-	RIKEN cDNA 1700001D01 gene	ncRNA	9.5	15.0	4.5	150.0	9.5	0.0	6.0	9.0
Merged-chr6-17481229-4	chr6	17481106	17481306	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008591, intron 1 of 21)	intron (NM_008591, intron 1 of 21)	17249.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	15.0	9.5	21.5	140.5	18.0	6.5	6.5	11.5
Merged-chr5-123171794-3	chr5	123171675	123171875	+	800.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008277)	TTS (NM_008277)	10948.0	NM_008277	15445.0	Mm.439709	NM_008277	ENSMUSG00000029445	Hpd	4HPPD|Fla|Flp|Hppd|Laf	4-hydroxyphenylpyruvic acid dioxygenase	protein-coding	6.5	21.0	5.0	122.0	33.5	7.5	5.5	7.0
Merged-chr9-35040780-2	chr9	35040680	35040880	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75948.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	2.5	2.5	0.0	26.5	16.0	4.5	5.5	8.5
Merged-chr10-4386967-7	chr10	4386865	4387065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033466, intron 1 of 2)	CpG	510.0	NM_001359811	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	202.0	287.0	215.0	2677.5	510.0	206.0	291.5	179.0
Merged-chr18-80490786-4	chr18	80490701	80490901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21134.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	37.5	48.0	21.5	232.0	77.5	21.0	26.5	24.0
Merged-chr18-53088904-2	chr18	53088804	53089004	+	998.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87388.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	3.0	0.0	2.0	40.0	14.5	5.5	8.5	11.0
Merged-chr9-89827146-4	chr9	89827028	89827228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040735, exon 1 of 6)	non-coding (NR_040735, exon 1 of 6)	609.0	NR_040735	74700.0	Mm.159306	NR_040735	ENSMUSG00000098627	4930524O08Rik	-	RIKEN cDNA 4930524O08 gene	ncRNA	24.0	19.0	19.0	313.5	55.5	20.5	15.0	18.0
Merged-chr14-33215061-4	chr14	33214971	33215171	+	796.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1752.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	4.0	7.0	2.5	36.0	9.0	5.5	6.0	8.0
Merged-chr10-54112688-6	chr10	54112601	54112801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36779.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	8.0	6.5	16.5	329.5	23.5	5.5	18.0	6.5
Merged-chr6-125252907-4	chr6	125252809	125253009	+	955.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-12616.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	17.5	24.0	27.0	292.0	37.5	13.0	20.0	11.0
Merged-chr11-106392001-4	chr11	106391892	106392092	+	996.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9211.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	20.0	18.5	4.5	56.5	52.0	1.5	17.5	23.0
Merged-chr6-67266875-4	chr6	67266735	67266935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025814)	promoter-TSS (NM_025814)	-144.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	170.0	246.0	186.5	3176.0	420.0	156.0	223.0	161.5
Merged-chr12-98677613-4	chr12	98677506	98677706	+	964.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011877, exon 19 of 19)	3' UTR (NM_011877, exon 19 of 19)	49464.0	NM_001289574	104871.0	Mm.210053	NM_178914	ENSMUSG00000021007	Spata7	AI661438|B230306G18Rik|HSD3	spermatogenesis associated 7	protein-coding	17.5	20.5	16.5	404.0	74.0	11.0	37.0	17.0
Merged-chr12-71003872-4	chr12	71003726	71003926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045055, intron 3 of 3)	B2_Mm1t|SINE|B2	11997.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	38.0	58.5	37.0	297.0	92.5	46.0	18.5	23.0
Merged-chr3-9199116-3	chr3	9199002	9199202	+	942.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51465.0	NM_177660	229055.0	Mm.103262	NM_177660	ENSMUSG00000069114	Zbtb10	4832414A18|AU021107|RINZF	zinc finger and BTB domain containing 10	protein-coding	15.0	17.0	6.5	298.0	15.0	2.0	4.5	8.0
Merged-chr5-63969000-4	chr5	63968902	63969102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145923)	promoter-TSS (NM_145923)	-105.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	227.5	367.5	271.5	3943.0	715.5	257.5	319.0	233.5
Merged-chr2-118263570-4	chr2	118263489	118263689	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6623.0	NM_027759	71313.0	Mm.85046	NM_027759	ENSMUSG00000027344	Fsip1	1700012M13Rik|4933432K11Rik	fibrous sheath-interacting protein 1	protein-coding	32.0	54.0	36.0	409.0	141.5	45.5	39.5	18.0
Merged-chr12-75413108-4	chr12	75413019	75413219	+	903.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175644, intron 2 of 2)	L2a|LINE|L2	3662.0	NM_175644	217674.0	Mm.252250	NM_175644	ENSMUSG00000048982	Gphb5	OGH|Zlut1	glycoprotein hormone beta 5	protein-coding	14.0	8.0	4.5	186.5	21.0	19.0	18.5	22.0
Merged-chr5-123973636-3	chr5	123973543	123973743	+	719.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145070)	promoter-TSS (NM_145070)	15.0	NM_145070	29816.0	Mm.149954	NM_145070	ENSMUSG00000000915	Hip1r	AA410023|mKIAA0655	huntingtin interacting protein 1 related	protein-coding	5.5	12.5	12.5	72.0	2.5	2.5	3.0	6.0
Merged-chr10-21425944-3	chr10	21425846	21426046	+	855.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48646.0	NM_178713	237320.0	Mm.90181	NM_178713	ENSMUSG00000037542	Aldh8a1	Raldh4	aldehyde dehydrogenase 8 family, member A1	protein-coding	0.0	2.0	0.0	30.0	30.5	15.0	6.0	14.5
Merged-chr2-103934873-4	chr2	103934779	103934979	+	774.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23116.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	7.5	13.0	9.0	111.5	30.0	9.5	7.5	3.0
Merged-chr19-5447727-4	chr19	5447758	5447958	+	932.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010235, exon 1 of 4)	5' UTR (NM_010235, exon 1 of 4)	160.0	NM_010235	14283.0	Mm.6215	NM_010235	ENSMUSG00000024912	Fosl1	AW538199|Fra1|fra-1	fos-like antigen 1	protein-coding	5.5	20.0	6.0	62.0	24.5	5.5	5.0	12.5
Merged-chr17-45752866-4	chr17	45752787	45752987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	intron (NR_152153, intron 2 of 4)	18381.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	281.5	456.0	424.0	5010.5	527.0	182.0	316.5	234.0
Merged-chr4-129782430-4	chr4	129782312	129782512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38067.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	59.5	109.5	49.5	566.5	160.0	70.5	62.0	60.5
Merged-chr3-51652916-4	chr3	51652797	51652997	+	862.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8282.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	11.5	16.5	9.0	155.5	20.5	8.5	11.5	8.5
Merged-chr3-130946154-3	chr3	130945993	130946193	+	766.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164204.0	NM_010703	16842.0	Mm.255219	NM_010703	ENSMUSG00000027985	Lef1	3000002B05|AI451430|Lef-1	lymphoid enhancer binding factor 1	protein-coding	5.5	8.5	12.0	91.0	4.5	7.5	1.0	3.0
Merged-chr2-48950195-7	chr2	48950073	48950273	+	904.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355296)	promoter-TSS (NM_001355296)	61.0	NM_001355296	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	23.0	20.5	10.5	212.0	32.5	8.5	13.5	18.0
Merged-chr8-124948568-2	chr8	124948467	124948667	+	716.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_053207, exon 1 of 5)	exon (NM_053207, exon 1 of 5)	687.0	NM_053207	112405.0	Mm.140619	NM_053207	ENSMUSG00000031987	Egln1	AI503754|C1orf12|HIF-PH2|HPH-2|Hif-p4h-2|ORF13|Phd2|SM-20	egl-9 family hypoxia-inducible factor 1	protein-coding	1.5	5.0	9.5	58.0	6.5	5.5	8.0	11.5
Merged-chr1-171270316-4	chr1	171270213	171270413	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020579)	promoter-TSS (NM_020579)	-15.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	45.0	35.0	10.0	376.5	74.0	19.5	20.0	19.0
Merged-chr19-46503623-8	chr19	46503588	46503788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053100, intron 1 of 5)	intron (NM_053100, intron 1 of 5)	2040.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	30.0	44.5	27.5	548.0	68.0	38.5	38.0	40.5
Merged-chr11-102697737-4	chr11	102697606	102697806	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025918)	promoter-TSS (NM_025918)	19.0	NM_025918	52715.0	Mm.277638	NM_025918	ENSMUSG00000020925	Ccdc43	2610001E01Rik|D11Ertd707e	coiled-coil domain containing 43	protein-coding	20.0	39.0	14.0	194.0	48.5	15.5	17.0	19.5
Merged-chr15-79071847-4	chr15	79071753	79071953	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3370.0	NM_145139	223691.0	Mm.206404	NM_145139	ENSMUSG00000033047	Eif3l	0610011H21Rik|D15N1e|Eif3eip|Eif3ip|Eif3s6ip|HSP-66Y|PAF67	eukaryotic translation initiation factor 3, subunit L	protein-coding	6.5	19.0	6.5	146.0	33.0	9.0	13.0	27.5
Merged-chr5-138209703-3	chr5	138209602	138209802	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	15388.0	NM_177878	330216.0	Mm.19719	NM_177878	ENSMUSG00000049285	Mblac1	-	metallo-beta-lactamase domain containing 1	protein-coding	32.5	36.5	46.5	753.0	0.0	0.0	2.0	0.0
Merged-chr2-180726215-4	chr2	180726118	180726318	+	873.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183161, intron 1 of 12)	intron (NM_183161, intron 1 of 12)	879.0	NM_183161	228993.0	Mm.87189	NM_183161	ENSMUSG00000023393	Slc17a9	1700019H03Rik|BC019537|Vnut	solute carrier family 17, member 9	protein-coding	17.5	10.5	5.0	193.0	18.5	8.0	12.5	19.0
Merged-chr7-83742860-3	chr7	83742738	83742938	+	885.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7299.0	NM_010551	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	4.0	1.5	3.0	38.0	29.0	8.0	8.0	11.5
Merged-chr9-108694280-4	chr9	108694214	108694414	+	940.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008924, intron 1 of 10)	L1M4|LINE|L1	2171.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	15.5	18.5	21.5	219.0	33.5	2.5	15.0	13.5
Merged-chr2-142768948-3	chr2	142768844	142769044	+	881.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 12 of 26)	MER2B|DNA|TcMar-Tigger	132520.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	7.5	12.0	12.5	237.0	22.5	6.5	8.5	2.0
Merged-chr10-39444191-4	chr10	39444108	39444308	+	847.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	74409.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	12.5	15.5	6.5	159.5	23.0	9.0	19.5	12.5
Merged-chr2-165882056-4	chr2	165881959	165882159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 1 of 11)	intron (NM_001252587, intron 1 of 11)	219.0	NM_001281926	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	59.5	92.0	48.0	785.5	96.0	22.5	25.5	35.0
Merged-chr11-75268054-4	chr11	75267934	75268134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177708)	TTS (NM_177708)	74041.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	35.0	50.5	25.5	440.5	52.5	18.0	37.0	33.0
Merged-chr14-9389427-4	chr14	9389334	9389534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-494661.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	63.5	93.5	94.5	1412.0	177.5	46.0	71.5	89.5
Merged-chr16-4896819-4	chr16	4896726	4896926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	10726.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	67.5	140.5	65.5	568.0	207.5	82.0	44.0	46.0
Merged-chr18-78312281-4	chr18	78312184	78312384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207651, intron 3 of 21)	intron (NM_207651, intron 3 of 21)	-105844.0	NM_001110274	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	32.0	71.0	33.5	737.0	102.0	48.5	64.0	58.0
Merged-chr7-64388911-3	chr7	64388814	64389014	+	893.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026483, exon 3 of 11)	exon (NM_026483, exon 3 of 11)	3322.0	NM_026483	67973.0	Mm.26973	NM_026483	ENSMUSG00000030521	Mphosph10	2810453H10Rik|5730405D16Rik|AI326008	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	protein-coding	7.0	14.0	7.0	127.0	38.5	6.5	6.0	7.5
Merged-chr9-110623214-4	chr9	110623107	110623307	+	815.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026012, exon 2 of 5)	5' UTR (NM_026012, exon 2 of 5)	1186.0	NM_026012	67169.0	Mm.46680	NM_026012	ENSMUSG00000032491	Nradd	2610311B09Rik|BB104149|NRDD|NRH2|PLAIDD	neurotrophin receptor associated death domain	protein-coding	7.5	15.5	8.5	162.0	35.0	9.0	5.0	11.5
Merged-chr7-68756985-4	chr7	68756892	68757092	+	964.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-7754.0	NM_025549	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	26.5	48.0	28.5	192.0	78.0	22.0	24.5	14.0
Merged-chr10-78095319-4	chr10	78095215	78095415	+	895.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25947.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	13.5	7.5	9.5	171.0	28.5	13.5	16.0	11.0
Merged-chr11-104440692-4	chr11	104440586	104440786	+	809.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 2 of 14)	intron (NM_001359634, intron 2 of 14)	1605.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	3.5	14.5	3.0	113.0	37.0	13.0	8.0	10.5
Merged-chr10-94122751-4	chr10	94122651	94122851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 9 of 20)	intron (NM_053072, intron 9 of 20)	-25180.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	43.0	51.5	57.0	1219.5	178.5	43.0	57.0	56.0
Merged-chr10-95291340-4	chr10	95291245	95291445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	32364.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	48.5	58.5	41.0	706.5	119.0	37.5	62.5	32.5
Merged-chr8-85081419-4	chr8	85081329	85081529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026399)	promoter-TSS (NM_026399)	466.0	NM_001001493	414077.0	Mm.35790	NM_001001493	ENSMUSG00000059355	Wdr83os	-	WD repeat domain 83 opposite strand	protein-coding	52.5	69.0	52.0	783.5	115.5	43.0	71.5	63.5
Merged-chr4-148709638-3	chr4	148709532	148709732	+	620.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	66315.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	6.0	7.0	6.0	106.5	29.5	2.5	6.0	4.0
Merged-chr7-130671482-3	chr7	130671387	130671587	+	862.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_206856, intron 3 of 20)	intron (NM_206856, intron 3 of 20)	-21069.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	8.5	21.5	21.5	160.0	13.0	4.0	6.0	15.0
Merged-chr16-4568142-4	chr16	4568048	4568248	+	807.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8428.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	9.0	3.5	4.5	136.0	21.5	6.0	16.5	7.0
Merged-chr3-65523576-4	chr3	65523480	65523680	+	812.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4867.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	7.0	20.0	3.0	94.0	49.0	13.0	16.0	11.0
Merged-chr8-119558853-4	chr8	119558759	119558959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019709)	promoter-TSS (NM_019709)	-98.0	NM_019709	56453.0	Mm.206934	NM_019709	ENSMUSG00000031835	Mbtps1	0610038M03Rik|AV003995|S1P|SKI-1|Ski1|mKIAA0091	membrane-bound transcription factor peptidase, site 1	protein-coding	152.0	209.5	79.0	1488.5	412.5	192.0	183.5	134.5
Merged-chr7-109139583-3	chr7	109139458	109139658	+	958.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302205, intron 3 of 3)	intron (NM_001302205, intron 3 of 3)	30954.0	NM_001302206	109594.0	Mm.360145	NM_057173	ENSMUSG00000036111	Lmo1	Rbtn-1|Rbtn1|Ttg1	LIM domain only 1	protein-coding	2.0	14.0	9.0	151.0	28.5	6.0	7.5	11.5
Merged-chr11-113165351-2	chr11	113165304	113165504	+	830.5	f0_c57.idr|f1_balb.idr	intron (NR_015556, intron 1 of 2)	intron (NR_015556, intron 1 of 2)	36434.0	NR_015556	72386.0	Mm.266961	NR_015556	ENSMUSG00000087259	2610035D17Rik	-	RIKEN cDNA 2610035D17 gene	ncRNA	3.0	1.0	0.0	19.5	19.0	5.5	8.5	13.0
Merged-chr6-6280995-3	chr6	6280927	6281127	+	969.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_136906, exon 3 of 3)	non-coding (NR_136906, exon 3 of 3)	32368.0	NR_136905	101056138.0	Mm.389085	NR_136904	ENSMUSG00000093482	Gm20619	-	predicted gene 20619	ncRNA	11.0	15.5	29.0	463.5	13.0	9.5	20.0	11.0
Merged-chr9-84545571-4	chr9	84545451	84545651	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-228847.0	NR_040739	75253.0	Mm.401984	NR_040739	ENSMUSG00000099724	4930554C24Rik	-	RIKEN cDNA 4930554C24 gene	ncRNA	9.0	17.5	7.0	211.0	239.5	36.0	69.5	85.0
Merged-chr15-58135144-4	chr15	58135042	58135242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027435)	promoter-TSS (NM_027435)	-60.0	NM_027435	70472.0	Mm.221758	NM_027435	ENSMUSG00000022360	Atad2	2610509G12Rik	ATPase family, AAA domain containing 2	protein-coding	165.0	251.0	201.0	2161.5	478.5	174.5	185.0	162.5
Merged-chr13-111508786-4	chr13	111508695	111508895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18668.0	NM_001361924	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	71.0	76.5	42.0	401.0	152.0	59.5	50.0	75.0
Merged-chr5-112344294-4	chr5	112344188	112344388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359853, exon 2 of 14)	5' UTR (NM_001359853, exon 2 of 14)	1193.0	NM_138646	192232.0	Mm.238043	NM_138646	ENSMUSG00000042328	Hps4	2010205O06Rik|AU040608|BLOC-3|C130020P05Rik|le|mKIAA1667	HPS4, biogenesis of lysosomal organelles complex 3 subunit 2	protein-coding	35.5	63.0	22.5	650.0	169.5	44.5	50.5	63.5
Merged-chr11-82016620-4	chr11	82016514	82016714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18963.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	91.0	175.0	68.5	811.0	161.5	72.5	85.0	65.0
Merged-chr19-46573256-4	chr19	46573135	46573335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019718)	promoter-TSS (NM_019718)	-53.0	NM_019718	56350.0	Mm.22085	NM_019718	ENSMUSG00000025035	Arl3	-	ADP-ribosylation factor-like 3	protein-coding	185.0	328.5	190.5	2287.5	484.5	230.0	224.0	179.5
Merged-chr13-110560767-4	chr13	110560670	110560870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	165726.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	51.5	81.0	85.0	1046.0	158.5	52.5	67.0	59.0
Merged-chr7-133124298-4	chr7	133124212	133124412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009980)	promoter-TSS (NM_009980)	-829.0	NM_009980	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	100.5	192.0	111.5	1427.0	398.0	128.5	197.0	126.0
Merged-chr10-127643892-4	chr10	127643800	127644000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009284, intron 1 of 21)	intron (NM_009284, intron 1 of 21)	914.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	86.5	140.5	90.5	593.5	176.5	81.5	70.5	55.5
Merged-chr3-40500617-4	chr3	40500498	40500698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	22314.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	34.5	78.5	67.5	496.0	308.0	95.5	138.5	126.0
Merged-chr6-89280760-4	chr6	89280710	89280910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131021, intron 1 of 3)	intron (NR_131021, intron 1 of 3)	4915.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	212.0	317.0	190.5	3308.0	412.5	145.5	278.0	191.0
Merged-chr7-101553498-4	chr7	101553401	101553601	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007490, intron 2 of 2)	intron (NM_007490, intron 2 of 2)	2301.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	18.0	85.5	20.5	398.0	95.0	41.5	36.0	14.5
Merged-chr8-83899917-6	chr8	83899837	83900037	+	955.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181039)	promoter-TSS (NM_181039)	-161.0	NM_181039	330814.0	Mm.260733	NM_181039	ENSMUSG00000013033	Adgrl1	2900070I05Rik|AI182398|CLIBA|Lec2|Lphn1|mKIAA0821	adhesion G protein-coupled receptor L1	protein-coding	6.5	15.0	24.5	163.0	27.5	9.0	11.0	10.0
Merged-chr9-75547041-2	chr9	75546931	75547131	+	948.5	f0_balb.idr|f0_c57.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	12626.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	10.5	17.5	7.0	258.0	55.0	12.5	12.5	25.5
Merged-chr10-37139351-4	chr10	37139240	37139440	+	899.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008538)	promoter-TSS (NM_008538)	-414.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	5.5	15.5	12.5	110.5	35.0	20.0	14.5	7.0
Merged-chr2-170347468-4	chr2	170347394	170347594	+	877.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164369, exon 12 of 12)	3' UTR (NM_001164369, exon 12 of 12)	-8867.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	7.0	6.0	10.5	102.0	20.0	11.0	4.0	7.0
Merged-chr15-80458241-4	chr15	80458104	80458304	+	855.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163189, intron 5 of 5)	intron (NM_001163189, intron 5 of 5)	-19601.0	NR_155274	102633578.0	Mm.397484	NR_155274	ENSMUSG00000115888	Gm31369	-	predicted gene, 31369	ncRNA	15.5	17.5	6.0	121.0	27.0	12.0	9.0	9.0
Merged-chr15-63650302-4	chr15	63650201	63650401	+	789.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158438.0	NM_031378	83492.0	Mm.335619	NM_031378	ENSMUSG00000079025	Gsdmc	Gsdmc1|Mlze	gasdermin C	protein-coding	13.5	23.5	14.0	193.5	19.0	10.5	7.5	6.0
Merged-chr4-59009902-3	chr4	59009792	59009992	+	693.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033165, intron 1 of 3)	PB1D7|SINE|Alu	6699.0	NM_001033165	72429.0	Mm.317801	NM_001033165	ENSMUSG00000070972	Dnajc25	2010109C08Rik|2010203O07Rik	DnaJ heat shock protein family (Hsp40) member C25	protein-coding	12.5	10.0	8.0	151.5	13.0	4.0	10.0	10.0
Merged-chr18-36679406-4	chr18	36679302	36679502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357512)	promoter-TSS (NM_001357512)	-36.0	NM_146085	225372.0	Mm.89673	NM_146085	ENSMUSG00000006050	Apbb3	Fe65l2|Rirl2|TR2S	amyloid beta (A4) precursor protein-binding, family B, member 3	protein-coding	183.5	251.5	150.5	2276.5	472.0	195.5	197.0	184.0
Merged-chr16-95800797-3	chr16	95800694	95800894	+	951.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97919.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	4.0	11.0	5.0	174.0	19.0	5.0	5.5	7.0
Merged-chr12-41238315-4	chr12	41238225	41238425	+	977.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	214235.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	22.0	32.0	29.0	422.0	34.0	14.5	18.5	32.5
Merged-chr5-65260267-3	chr5	65260162	65260362	+	891.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001359879)	TTS (NM_001359879)	60566.0	NM_153391	213081.0	Mm.127550	NM_153391	ENSMUSG00000037890	Wdr19	C330027H04Rik|D330023L08Rik|DYF2|Ift144|PWDMP|mKIAA1638	WD repeat domain 19	protein-coding	6.5	10.0	7.5	130.5	11.0	3.0	11.5	9.5
Merged-chr13-93188362-1	chr13	93188262	93188462	+	563.0	f0_balb.idr	intron (NR_154997, intron 1 of 15)	L1_Rod|LINE|L1	4055.0	NM_001361536	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	4.5	10.0	4.5	72.0	14.0	3.5	7.0	7.0
Merged-chr17-32635116-4	chr17	32635027	32635227	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001100187, exon 13 of 13)	exon (NM_001100187, exon 13 of 13)	13808.0	NM_001100187	677156.0	Mm.484117	NM_001100187	ENSMUSG00000062464	Cyp4f37	Gm9705	cytochrome P450, family 4, subfamily f, polypeptide 37	protein-coding	19.5	29.0	17.5	238.0	51.0	13.5	25.5	11.0
Merged-chr11-107468424-4	chr11	107468283	107468483	+	872.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	2337.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	9.0	17.0	8.0	160.5	26.5	9.0	6.5	21.0
Merged-chr10-62511671-3	chr10	62511564	62511764	+	886.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 1 of 3)	intron (NM_001358965, intron 1 of 3)	-3907.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	5.0	6.5	14.0	123.0	13.5	4.0	10.5	9.5
Merged-chr18-9485440-4	chr18	9485336	9485536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35282.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	24.0	35.0	47.0	826.0	148.0	27.5	37.0	43.5
Merged-chr7-98362257-4	chr7	98362125	98362325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168539)	promoter-TSS (NM_001168539)	-897.0	NM_001168539	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	52.5	63.0	40.5	509.5	96.0	35.0	32.0	21.0
Merged-chr10-128194364-4	chr10	128194264	128194464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285779)	promoter-TSS (NM_001285779)	-271.0	NM_001285777	216456.0	Mm.30102	NM_001033264	ENSMUSG00000044005	Gls2	A330074B06Rik|AI195532|GA|GLS|Lga	glutaminase 2 (liver, mitochondrial)	protein-coding	61.5	117.0	38.0	1024.5	179.5	64.0	113.5	98.5
Merged-chr9-100435396-4	chr9	100435342	100435542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51031.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	90.0	207.0	97.5	891.0	183.0	81.5	66.5	48.0
Merged-chr17-13544206-4	chr17	13544125	13544325	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045436, intron 2 of 4)	RLTR11B|LTR|ERVK	9869.0	NR_045436	72578.0	Mm.46549	NR_045436	ENSMUSG00000038347	2700054A10Rik	-	RIKEN cDNA 2700054A10 gene	ncRNA	11.5	16.5	23.5	325.5	44.5	26.5	32.0	38.5
Merged-chr18-39800383-4	chr18	39800300	39800500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26903.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	131.0	249.5	153.0	1924.0	309.5	127.5	151.5	103.0
Merged-chr18-9490673-4	chr18	9490585	9490785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40531.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	57.0	43.5	96.5	1219.5	101.5	31.0	54.0	43.0
Merged-chr15-97939641-3	chr15	97939552	97939752	+	897.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24577.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	9.5	26.5	8.5	41.5	39.0	14.0	12.0	12.5
Merged-chr2-84635806-4	chr2	84635707	84635907	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	intron (NM_007615, intron 1 of 19)	13673.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	21.0	9.0	15.0	178.0	22.5	12.5	7.0	11.0
Merged-chr10-40212603-4	chr10	40212496	40212696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34383.0	NM_001042556	67239.0	Mm.11480	NM_023323	ENSMUSG00000038510	Rpf2	2810470K21Rik|AU040229|AU043242|Bxdc1	ribosome production factor 2 homolog	protein-coding	79.0	154.0	80.0	1203.5	175.5	76.0	93.5	74.0
Merged-chr6-71166960-4	chr6	71166854	71167054	+	808.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22574.0	NM_178413	232078.0	Mm.37547	NM_178413	ENSMUSG00000054474	Thnsl2	BC051244|TSH2	threonine synthase-like 2 (bacterial)	protein-coding	12.0	12.5	8.5	146.0	29.5	6.5	7.5	23.0
Merged-chr5-65763573-4	chr5	65763471	65763671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024917)	promoter-TSS (NM_001024917)	50.0	NM_001024917	333789.0	Mm.332398	NM_001024917	ENSMUSG00000037795	N4bp2	B3bp|E430014I16|Gm1791|Gm868	NEDD4 binding protein 2	protein-coding	16.5	25.5	21.0	266.5	40.0	16.0	16.0	17.0
Merged-chr7-29007949-3	chr7	29007836	29008036	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009109, intron 101 of 105)	PB1D9|SINE|Alu	25082.0	NM_008279	26411.0	Mm.148278	NM_008279	ENSMUSG00000037337	Map4k1	Hpk1|mHPK1	mitogen-activated protein kinase kinase kinase kinase 1	protein-coding	32.0	40.5	44.5	487.5	14.0	4.0	6.0	13.0
Merged-chr19-26748331-4	chr19	26748224	26748424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026003)	promoter-TSS (NM_026003)	-79.0	NM_026003	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	153.5	168.5	102.0	2318.5	226.0	101.5	105.5	80.0
Merged-chr17-31110444-4	chr17	31110332	31110532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 11 of 14)	ORR1E|LTR|ERVL-MaLR	19179.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	104.5	126.5	90.0	1561.0	142.0	52.5	73.5	60.0
Merged-chr5-64029930-4	chr5	64029829	64030029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15044.0	NR_045384	74757.0	Mm.159329	NR_045384	ENSMUSG00000106219	5830416I19Rik	-	RIKEN cDNA 5830416I19 gene	ncRNA	42.0	37.0	44.0	616.0	111.5	45.0	58.5	44.5
Merged-chr12-72847883-3	chr12	72847808	72848008	+	777.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69857.0	NM_029444	75801.0	Mm.242892	NM_029444	ENSMUSG00000021098	4930447C04Rik	4921504I02Rik|A930035O15Rik|Six6OS|Six6as|Six6os1	RIKEN cDNA 4930447C04 gene	protein-coding	17.0	19.0	5.5	113.0	13.0	2.0	4.0	10.5
Merged-chr4-32249910-4	chr4	32249834	32250034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167501.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	38.5	55.5	60.5	925.5	109.0	36.5	69.0	57.0
Merged-chr12-3357012-4	chr12	3356896	3357096	+	990.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8136.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	36.0	71.0	27.0	288.0	92.5	44.0	55.0	22.0
Merged-chr17-34912294-4	chr17	34912197	34912397	+	911.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286575, intron 25 of 27)	intron (NM_001286575, intron 25 of 27)	-2169.0	NM_023557	70129.0	Mm.183126	NM_023557	ENSMUSG00000007034	Slc44a4	2210409B01Rik|NG22|mTPPT1	solute carrier family 44, member 4	protein-coding	10.0	12.0	2.5	98.0	34.5	5.5	16.5	11.5
Merged-chr2-160617433-3	chr2	160617308	160617508	+	814.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28489.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	7.0	14.5	5.0	91.5	10.0	2.5	1.0	2.0
Merged-chr7-64392697-4	chr7	64392592	64392792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026483)	promoter-TSS (NM_026483)	70.0	NM_001355124	73724.0	Mm.10093	NM_028626	ENSMUSG00000033429	Mcee	1110007A04Rik	methylmalonyl CoA epimerase	protein-coding	248.5	348.0	203.5	3672.0	610.0	191.0	335.5	240.5
Merged-chr15-39611105-4	chr15	39611003	39611203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053271, intron 21 of 26)	intron (NM_053271, intron 21 of 26)	-48408.0	NM_001256384	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	93.0	121.0	65.5	1263.0	147.5	44.0	67.5	75.0
Merged-chr10-75635846-4	chr10	75635745	75635945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001162913)	TTS (NM_001162913)	8163.0	NM_001162913	71733.0	Mm.247956	NM_027890	ENSMUSG00000006342	Susd2	1200011D11Rik	sushi domain containing 2	protein-coding	30.0	41.5	28.0	419.5	90.5	19.5	24.5	27.0
Merged-chr9-61169214-2	chr9	61169114	61169314	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30699.0	NR_045705	619328.0	Mm.325722	NR_045705	ENSMUSG00000110998	I730028E13Rik	-	RIKEN cDNA I730028E13 gene	ncRNA	6.5	8.0	5.0	173.0	25.5	4.0	8.5	5.0
Merged-chr2-32961704-4	chr2	32961601	32961801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009076)	promoter-TSS (NM_009076)	-11.0	NM_009076	269261.0	Mm.250030	NM_009076	ENSMUSG00000038900	Rpl12	E430018F03	ribosomal protein L12	protein-coding	80.0	87.5	78.0	681.0	182.0	61.5	74.5	78.5
Merged-chr1-173973392-3	chr1	173973308	173973508	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008327, intron 3 of 6)	intron (NM_008327, intron 3 of 6)	9436.0	NM_008327	26388.0	Mm.218770	NM_008327	ENSMUSG00000026535	Ifi202b	Ifbip-1|Ifi202|Ifi202a|p202	interferon activated gene 202B	protein-coding	43.5	55.5	106.5	959.0	1.0	0.0	1.5	3.5
Merged-chr19-12574319-4	chr19	12574191	12574391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026640, intron 1 of 3)	intron (NM_026640, intron 1 of 3)	766.0	NM_026640	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	22.5	46.0	35.0	418.0	105.0	35.0	35.5	33.5
Merged-chr15-72917614-4	chr15	72917506	72917706	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029640, intron 15 of 21)	intron (NM_029640, intron 15 of 21)	-107282.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	16.5	31.0	14.5	330.5	70.0	20.5	23.0	30.5
Merged-chr6-120493015-3	chr6	120492926	120493126	+	763.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033567, exon 1 of 1)	exon (NM_033567, exon 1 of 1)	781.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	6.0	6.0	7.5	66.5	8.0	3.0	6.0	3.0
Merged-chr19-37127155-4	chr19	37126990	37127190	+	879.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290829, intron 3 of 9)	B1_Mur1|SINE|Alu	-46753.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	4.0	16.5	8.5	170.0	18.0	6.0	8.0	9.0
Merged-chr12-100778963-4	chr12	100778850	100779050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361020)	promoter-TSS (NM_001361020)	-107.0	NM_001361023	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	80.5	217.5	69.5	724.5	155.0	88.0	63.5	32.0
Merged-chr9-21135704-4	chr9	21135592	21135792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4417.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	21.5	37.5	27.0	355.5	112.0	28.5	29.0	25.0
Merged-chr10-118049520-3	chr10	118049423	118049623	+	882.7333369999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92264.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	6.0	5.0	1.0	150.0	27.0	9.0	16.0	21.5
Merged-chr10-62426747-3	chr10	62426656	62426856	+	753.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4299.0	NM_145419	216019.0	Mm.213213	NM_145419	ENSMUSG00000020080	Hkdc1	BC016235	hexokinase domain containing 1	protein-coding	7.0	12.5	4.5	111.0	14.5	3.0	8.0	15.0
Merged-chr7-143154090-4	chr7	143153986	143154186	+	909.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008434, intron 2 of 15)	intron (NM_008434, intron 2 of 15)	46832.0	NM_008434	16535.0	Mm.439769	NM_008434	ENSMUSG00000009545	Kcnq1	AW559127|KVLQT1|Kcna9	potassium voltage-gated channel, subfamily Q, member 1	protein-coding	11.0	17.0	20.0	205.0	16.5	14.5	20.5	15.5
Merged-chr15-102331738-4	chr15	102331632	102331832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021713)	promoter-TSS (NM_021713)	23.0	NM_021713	60315.0	Mm.251638	NM_021713	ENSMUSG00000001285	Myg1	0610023A07Rik|2810433J21Rik|5830429P19Rik|AI325965|Gamm1	melanocyte proliferating gene 1	protein-coding	45.5	68.5	43.5	583.5	119.0	41.5	55.5	56.0
Merged-chr8-119432432-4	chr8	119432344	119432544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4718.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	62.0	113.0	68.0	803.0	156.5	47.0	47.5	31.5
Merged-chr1-6406586-4	chr1	6406478	6406678	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47247.0	NM_001195732	620393.0	Mm.388992	NM_001195732	ENSMUSG00000087247	Alkal1	EG620393|Fam150a	ALK and LTK ligand 1	protein-coding	33.5	47.0	17.5	585.5	64.5	17.5	33.0	17.5
Merged-chr19-44067473-4	chr19	44067360	44067560	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145502, intron 2 of 10)	intron (NM_145502, intron 2 of 10)	2226.0	NM_145502	226144.0	Mm.279865	NM_145502	ENSMUSG00000025198	Erlin1	2810439N09Rik|C80197|Keo4|Spfh1	ER lipid raft associated 1	protein-coding	36.5	29.5	8.5	262.0	50.0	18.0	28.5	22.5
Merged-chr18-39240625-1	chr18	39240525	39240725	+	562.0	f0_balb.idr	intron (NM_001361073, intron 14 of 21)	intron (NM_001361073, intron 14 of 21)	246620.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	6.5	4.5	5.5	73.5	11.0	5.5	5.0	9.0
Merged-chr15-94601533-4	chr15	94601433	94601633	+	943.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-11709.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	19.5	19.0	15.0	259.0	38.0	13.0	18.5	14.0
Merged-chr6-129623930-4	chr6	129623842	129624042	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286018)	promoter-TSS (NM_001286018)	-78.0	NM_001286018	27007.0	Mm.8217	NM_033078	ENSMUSG00000030149	Klrk1	D6H12S2489E|NKG2-D|Nkg2d	killer cell lectin-like receptor subfamily K, member 1	protein-coding	26.0	55.5	39.5	732.0	63.0	14.5	22.0	30.0
Merged-chr6-65164355-4	chr6	65164263	65164463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19633.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	31.5	12.5	24.5	748.5	50.5	18.0	24.0	22.5
Merged-chr2-164879390-4	chr2	164879294	164879494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146129)	promoter-TSS (NM_146129)	26.0	NM_146129	228866.0	Mm.241134	NM_146129	ENSMUSG00000039849	Pcif1	2310022K11Rik|C20orf67|F730014I05Rik	PDX1 C-terminal inhibiting factor 1	protein-coding	33.0	33.0	22.5	360.5	109.0	34.5	24.5	39.0
Merged-chr17-56897870-3	chr17	56897766	56897966	+	822.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022328, intron 6 of 11)	intron (NM_022328, intron 6 of 11)	22233.0	NM_030141	78625.0	Mm.160106	NM_030141	ENSMUSG00000024209	1700061G19Rik	1700026H02|AI507598	RIKEN cDNA 1700061G19 gene	protein-coding	11.5	8.0	12.0	85.5	22.0	1.0	21.5	9.0
Merged-chr8-39619980-4	chr8	39619862	39620062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031195, exon 5 of 9)	exon (NM_031195, exon 5 of 9)	22716.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	72.5	106.5	60.5	1602.0	179.5	60.5	90.0	60.0
Merged-chr1-155558234-4	chr1	155558124	155558324	+	998.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028250, exon 1 of 8)	5' UTR (NM_028250, exon 1 of 8)	104.0	NM_028250	72482.0	Mm.288249	NM_026683	ENSMUSG00000033701	Acbd6	0610010G04Rik|2610100E10Rik	acyl-Coenzyme A binding domain containing 6	protein-coding	27.0	23.0	20.0	259.0	48.5	20.0	14.5	24.0
Merged-chr5-31180022-4	chr5	31179888	31180088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027901, exon 1 of 19)	5' UTR (NM_027901, exon 1 of 19)	156.0	NM_027901	71752.0	Mm.271923	NM_027901	ENSMUSG00000106864	Gtf3c2	1300004C11Rik|2610510G03Rik|AI225816|AU041069|TFIIIC110|mKIAA0011	general transcription factor IIIC, polypeptide 2, beta	protein-coding	58.0	96.0	58.5	715.0	163.5	53.5	68.0	81.5
Merged-chr2-91966481-4	chr2	91966400	91966600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-2937.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	100.5	119.5	76.0	909.0	194.5	66.5	74.5	90.0
Merged-chr5-33003757-4	chr5	33003632	33003832	+	827.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15084.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	17.0	12.0	23.5	299.0	11.5	12.5	10.5	7.0
Merged-chr15-58980363-4	chr15	58980266	58980466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	46556.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	60.5	68.5	53.5	806.5	89.0	31.5	40.5	36.0
Merged-chr9-44605208-7	chr9	44605113	44605313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357703, exon 1 of 14)	intron (NM_001110826, intron 1 of 13)	321.0	NM_181324	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	14.0	36.0	16.0	198.5	48.5	27.0	25.0	51.0
Merged-chr8-72322619-4	chr8	72322538	72322738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008452)	TTS (NM_008452)	3576.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	179.0	327.0	260.0	3099.5	572.0	214.0	246.5	265.5
Merged-chr12-86047799-7	chr12	86047707	86047907	+	942.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081423, intron 33 of 33)	intron (NM_001081423, intron 33 of 33)	31234.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	23.5	15.5	21.0	506.0	51.0	10.5	35.0	25.5
Merged-chr19-4216204-4	chr19	4216094	4216294	+	849.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310038, intron 2 of 3)	intron (NM_001310038, intron 2 of 3)	1805.0	NM_001310039	56708.0	Mm.347919	NM_019952	ENSMUSG00000040663	Clcf1	BSF-3|Bsf3|CLC|NNT-1	cardiotrophin-like cytokine factor 1	protein-coding	20.0	12.0	7.5	159.5	24.0	3.5	8.5	14.5
Merged-chr16-11875411-4	chr16	11875311	11875511	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146067, intron 2 of 3)	intron (NM_146067, intron 2 of 3)	-25953.0	NR_033509	791359.0	Mm.227592	NR_033509	ENSMUSG00000055015	Gm9961	-	predicted gene 9961	ncRNA	2.5	17.5	1.5	273.0	32.5	18.5	17.0	17.0
Merged-chr11-49712807-4	chr11	49712692	49712892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_212484)	promoter-TSS (NM_212484)	-70.0	NM_212484	104625.0	Mm.247113	NM_212484	ENSMUSG00000020362	Cnot6	CCR4	CCR4-NOT transcription complex, subunit 6	protein-coding	177.5	227.5	124.5	2258.5	398.0	163.5	200.0	145.0
Merged-chr13-82073561-4	chr13	82073471	82073671	+	995.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	290324.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	11.0	23.0	20.5	196.5	122.5	34.5	41.5	36.5
Merged-chr5-143065378-3	chr5	143065284	143065484	+	889.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	47636.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	4.5	4.5	14.0	119.0	12.0	2.0	5.0	7.0
Merged-chr13-5778391-4	chr13	5778337	5778537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	79655.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	34.5	36.0	34.5	397.5	49.0	17.5	20.0	30.5
Merged-chr9-58269027-4	chr9	58268946	58269146	+	924.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	15882.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	12.5	12.0	11.0	77.0	39.5	14.0	6.0	7.5
Merged-chr5-103744774-4	chr5	103744671	103744871	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9391.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	29.5	21.0	6.0	299.0	62.0	16.5	31.5	22.5
Merged-chr8-114452919-4	chr8	114452824	114453024	+	865.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 4 of 8)	intron (NM_019573, intron 4 of 8)	13272.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	2.0	12.0	3.5	188.5	30.5	6.5	14.0	6.5
Merged-chr11-70374538-4	chr11	70374440	70374640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEf|LINE|L1	-22509.0	NM_009660	11687.0	Mm.4584	NM_009660	ENSMUSG00000018924	Alox15	12-LO|12/15-LO|15-LOX|Alox12l|L-12LO	arachidonate 15-lipoxygenase	protein-coding	45.5	80.5	36.0	669.5	69.0	36.0	43.0	33.0
Merged-chr11-83663742-4	chr11	83663629	83663829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013652, intron 2 of 2)	intron (NM_013652, intron 2 of 2)	1145.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	65.5	125.5	54.0	883.5	134.5	57.5	67.0	60.5
Merged-chr1-24682097-4	chr1	24681994	24682194	+	940.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310483, intron 1 of 15)	MTC|LTR|ERVL-MaLR	3176.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	14.5	14.0	8.5	151.0	48.0	13.0	17.5	22.5
Merged-chr19-6856921-4	chr19	6856828	6857028	+	940.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081291, exon 6 of 27)	exon (NM_001081291, exon 6 of 27)	1283.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	19.5	23.5	17.5	122.5	56.5	12.0	10.5	17.0
Merged-chr2-144714783-4	chr2	144714669	144714869	+	937.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	RMER13B|LTR|ERVK	-108897.0	NM_025490	66328.0	Mm.45377	NM_025490	ENSMUSG00000027431	Scp2d1	1700010M22Rik	SCP2 sterol-binding domain containing 1	protein-coding	17.5	38.0	10.0	280.5	33.0	12.0	10.5	10.5
Merged-chr7-128728904-4	chr7	128728802	128729002	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145955, intron 1 of 15)	L1MD|LINE|L1	11527.0	NM_145955	210711.0	Mm.58882	NM_145955	ENSMUSG00000048170	Mcmbp	1110007A13Rik|AU017382|BC025641|MCM-BP	minichromosome maintenance complex binding protein	protein-coding	22.5	14.5	16.0	281.5	53.5	15.5	10.0	16.5
Merged-chr5-121718646-4	chr5	121718561	121718761	+	891.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	intron (NM_009125, intron 1 of 24)	7052.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	14.0	45.5	14.0	287.0	31.0	12.0	12.5	14.5
Merged-chr8-41138692-3	chr8	41138601	41138801	+	702.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4975.0	NM_001005863	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	0.0	2.0	2.5	73.0	35.5	4.5	14.5	12.0
Merged-chr9-105519632-3	chr9	105519521	105519721	+	750.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253831, intron 1 of 26)	intron (NM_001253831, intron 1 of 26)	1636.0	NM_001253831	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	1.0	3.0	0.0	42.5	28.5	14.0	18.5	18.5
Merged-chr8-84663604-2	chr8	84663504	84663704	+	994.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010499)	promoter-TSS (NM_010499)	-752.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	7.5	7.0	2.0	51.5	24.5	11.5	12.5	11.0
Merged-chr11-75651329-7	chr11	75651239	75651439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008659)	promoter-TSS (NM_008659)	-170.0	NM_008659	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	36.0	41.0	42.0	376.5	67.0	45.5	32.0	53.0
Merged-chr5-33274661-4	chr5	33274586	33274786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198860, intron 1 of 9)	CpG	318.0	NM_001310535	13016.0	Mm.7286	NM_013502	ENSMUSG00000037373	Ctbp1	BARS|CtBP3/BARS|D4S115h|D5H4S115|D5H4S115E	C-terminal binding protein 1	protein-coding	34.5	59.0	42.5	397.0	98.0	72.0	41.0	41.0
Merged-chr5-100574572-4	chr5	100574472	100574672	+	960.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-2367.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	16.0	18.5	16.0	174.5	70.0	22.5	22.5	16.0
Merged-chr10-117449925-4	chr10	117449843	117450043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-2508.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	23.5	35.0	26.5	511.0	68.0	18.5	37.0	35.5
Merged-chr11-83604828-4	chr11	83604720	83604920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 2 of 8)	intron (NR_036453, intron 2 of 8)	-11733.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	61.5	119.0	70.5	939.0	162.5	60.5	79.0	54.0
Merged-chr18-39801315-4	chr18	39801207	39801407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27810.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	56.5	91.0	82.5	1183.5	185.0	71.5	90.0	80.5
Merged-chr8-115568571-4	chr8	115568462	115568662	+	943.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	138332.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	27.0	22.0	17.0	245.0	25.5	11.5	13.0	17.5
Merged-chr10-127666973-4	chr10	127666869	127667069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045171)	promoter-TSS (NR_045171)	-154.0	NR_045171	72243.0	Mm.482902	NR_045171	ENSMUSG00000040195	1700012D01Rik	-	RIKEN cDNA 1700012D01 gene	ncRNA	98.0	96.0	123.0	1388.5	345.0	138.0	189.5	135.0
Merged-chr11-96916636-4	chr11	96916534	96916734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308183)	promoter-TSS (NM_001308183)	-120.0	NM_030248	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	191.0	342.0	130.5	2400.0	450.0	150.0	164.5	143.5
Merged-chr13-111805897-4	chr13	111805819	111806019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	3074.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	37.0	33.5	31.0	764.5	97.0	33.5	51.0	37.5
Merged-chr5-34243512-3	chr5	34243432	34243632	+	647.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 1 of 12)	intron (NM_001015039, intron 1 of 12)	44792.0	NM_001015039	231125.0	Mm.113388	NM_001015039	ENSMUSG00000037224	Zfyve28	9630058O20Rik|Gm146|mKIAA1643	zinc finger, FYVE domain containing 28	protein-coding	4.5	7.0	12.5	169.0	10.0	7.5	7.5	3.0
Merged-chr16-32332197-4	chr16	32332075	32332275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177633)	promoter-TSS (NM_177633)	-77.0	NM_177633	224111.0	Mm.31275	NM_177633	ENSMUSG00000053774	Ubxn7	A630090P18|AI196514|Ubxd7|mKIAA0794	UBX domain protein 7	protein-coding	58.5	113.5	32.0	766.5	193.0	60.0	67.5	53.5
Merged-chr10-111365256-4	chr10	111365144	111365344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66565.0	NM_027914	71769.0	Mm.45256	NM_027914	ENSMUSG00000035759	Bbs10	1300007O09Rik|AI452285	Bardet-Biedl syndrome 10 (human)	protein-coding	31.0	30.0	53.5	1110.0	26.5	3.5	31.0	28.0
Merged-chr8-115570511-4	chr8	115570422	115570622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136372.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	23.5	62.0	43.5	474.0	93.5	40.5	31.5	12.5
Merged-chr1-152686094-4	chr1	152686015	152686215	+	929.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-60898.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	8.0	36.5	32.0	372.5	36.0	16.5	10.0	12.0
Merged-chr15-88876467-4	chr15	88876351	88876551	+	914.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14257.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	16.5	7.0	16.0	107.5	33.0	18.5	12.5	6.5
Merged-chr1-167284881-3	chr1	167284775	167284975	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030724, exon 1 of 7)	5' UTR (NM_030724, exon 1 of 7)	252.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	11.0	15.5	9.0	87.5	8.5	3.5	10.0	10.0
Merged-chr11-117832424-4	chr11	117832330	117832530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027827, exon 3 of 11)	exon (NM_027827, exon 3 of 11)	-6416.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	56.0	70.5	37.5	510.5	96.5	35.0	34.5	46.0
Merged-chr11-49082188-3	chr11	49082099	49082299	+	761.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271677, intron 1 of 2)	intron (NM_001271677, intron 1 of 2)	-4818.0	NM_001271676	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	16.5	9.5	10.5	114.5	27.5	4.0	9.0	5.5
Merged-chr4-94603216-4	chr4	94603115	94603315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172695)	promoter-TSS (NM_172695)	32.0	NM_172695	18786.0	Mm.490101	NM_172695	ENSMUSG00000028577	Plaa	2410007N06|AI536418|AU018445|AW208417|D4Ertd618e|PLA2P|PLAP|Ufd3	phospholipase A2, activating protein	protein-coding	103.5	145.5	113.0	1560.0	372.5	151.0	162.5	123.5
Merged-chr1-13373501-4	chr1	13373412	13373612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	CpG	571.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	41.0	64.0	38.5	500.5	87.0	43.0	34.0	42.0
Merged-chr5-115490772-2	chr5	115490679	115490879	+	999.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-6295.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	6.0	9.0	4.5	111.0	16.5	4.5	4.0	19.0
Merged-chr11-67559774-4	chr11	67559655	67559855	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	-26745.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	10.0	72.0	32.0	283.5	67.5	24.0	61.0	49.0
Merged-chr13-14064402-2	chr13	14064302	14064502	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331176)	promoter-TSS (NM_001331176)	618.0	NM_198122	94246.0	Mm.439784	NM_194262	ENSMUSG00000039219	Arid4b	BCAA|BRCAA1|RBBP1L1|Rbp1l1|SAP180	AT rich interactive domain 4B (RBP1-like)	protein-coding	16.0	16.5	23.5	206.5	53.5	16.5	20.0	20.5
Merged-chr17-26677296-4	chr17	26677183	26677383	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025272, intron 1 of 3)	intron (NM_025272, intron 1 of 3)	887.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	37.5	45.0	29.5	453.5	101.5	37.5	18.5	32.0
Merged-chr15-77840690-4	chr15	77840599	77840799	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	U6|snRNA|snRNA	1476.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	18.5	23.0	15.5	302.0	46.0	20.0	34.0	27.0
Merged-chr9-69441185-4	chr9	69441119	69441319	+	675.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12464.0	NM_007585	12306.0	Mm.238343	NM_007585	ENSMUSG00000032231	Anxa2	AW215814|Cal1h	annexin A2	protein-coding	6.5	3.0	6.5	159.0	20.0	6.5	6.5	12.0
Merged-chr5-90224058-4	chr5	90223937	90224137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033310)	promoter-TSS (NM_001033310)	-41.0	NM_001163456	231430.0	Mm.319697	NM_001033310	ENSMUSG00000035505	Cox18	BC038311	cytochrome c oxidase assembly protein 18	protein-coding	281.0	445.5	310.0	4575.0	834.5	369.0	420.5	359.5
Merged-chr3-69044966-5	chr3	69044914	69045114	+	934.8800050000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025863)	promoter-TSS (NM_025863)	-272.0	NM_025863	66949.0	Mm.176695	NM_025863	ENSMUSG00000034317	Trim59	2310035M22Rik|2700022F13Rik|Mrf1|TSBF1	tripartite motif-containing 59	protein-coding	26.5	24.0	22.0	319.0	31.5	14.0	15.0	14.0
Merged-chr9-23597947-4	chr9	23597821	23598021	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	374845.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	31.5	27.5	24.5	316.5	65.0	12.5	18.5	23.5
Merged-chr4-155734518-4	chr4	155734389	155734589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101506)	promoter-TSS (NM_001101506)	-315.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	142.0	163.5	129.5	1940.5	380.5	88.5	140.5	124.5
Merged-chr9-109932650-7	chr9	109932527	109932727	+	825.080933	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205332, intron 1 of 17)	intron (NM_001205332, intron 1 of 17)	853.0	NM_008633	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	9.0	9.5	4.0	67.0	8.0	8.0	6.0	11.0
Merged-chr12-110840969-4	chr12	110840840	110841040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011973)	promoter-TSS (NM_011973)	-1.0	NM_011973	26448.0	Mm.140948	NM_011973	ENSMUSG00000056458	Mok	RAGE1|Rage|Stk30	MOK protein kinase	protein-coding	31.5	48.5	21.0	407.5	102.0	44.5	35.5	31.0
Merged-chr9-64253687-4	chr9	64253529	64253729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008927)	promoter-TSS (NM_008927)	-24.0	NM_008927	26395.0	Mm.248907	NM_008927	ENSMUSG00000004936	Map2k1	MAPKK1|MEKK1|Mek1|Prkmk1	mitogen-activated protein kinase kinase 1	protein-coding	122.5	208.5	96.0	1413.5	341.5	122.0	131.0	128.5
Merged-chr4-141658971-4	chr4	141658867	141659067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	5148.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	24.5	23.5	39.5	583.0	49.5	19.5	22.5	42.0
Merged-chr7-45343762-3	chr7	45343663	45343863	+	826.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029741, exon 22 of 30)	exon (NM_029741, exon 22 of 30)	8494.0	NM_010473	15464.0	Mm.39968	NM_010473	ENSMUSG00000038239	Hrc	-	histidine rich calcium binding protein	protein-coding	16.0	15.0	4.0	74.0	11.0	9.0	6.0	7.0
Merged-chr3-105001571-4	chr3	105001462	105001662	+	962.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163332)	TTS (NM_001163332)	-39853.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	29.5	15.0	31.5	442.5	38.0	13.0	17.5	18.0
Merged-chr3-38565075-4	chr3	38564977	38565177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-80261.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	69.5	61.5	81.0	1661.5	181.0	54.5	90.0	82.5
Merged-chr7-125491491-4	chr7	125491375	125491575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026330)	promoter-TSS (NM_026330)	67.0	NM_001360659	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	124.5	186.0	105.0	1711.5	287.5	102.0	126.0	124.5
Merged-chr5-117120853-2	chr5	117120753	117120953	+	977.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199685, intron 1 of 20)	intron (NM_001199685, intron 1 of 20)	724.0	NM_001199685	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	3.0	4.5	6.5	39.5	12.0	4.5	6.0	9.5
Merged-chr5-140396764-3	chr5	140396671	140396871	+	728.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7463.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	5.0	5.0	8.0	12.0	25.5	8.5	2.5	7.0
Merged-chr3-61363797-4	chr3	61363706	61363906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028712)	promoter-TSS (NM_028712)	-701.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	268.5	360.0	277.5	3714.5	588.5	236.0	323.0	270.0
Merged-chr10-9675490-6	chr10	9675498	9675698	+	862.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177271)	promoter-TSS (NM_177271)	-390.0	NM_177271	320825.0	Mm.101115	NM_177271	ENSMUSG00000060487	Samd5	E130306M17Rik	sterile alpha motif domain containing 5	protein-coding	10.0	16.0	19.5	209.0	23.5	4.0	9.0	13.0
Merged-chr9-32591897-4	chr9	32591791	32591991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50439.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	34.0	45.5	27.0	680.0	93.5	28.5	34.0	26.0
Merged-chr2-60902725-4	chr2	60902637	60902837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-21299.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	11.5	22.5	17.0	272.0	56.0	18.0	22.0	25.5
Merged-chr5-142424773-3	chr5	142424726	142424926	+	707.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 1 of 8)	intron (NM_199068, intron 1 of 8)	23329.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	8.0	11.0	24.0	96.5	5.0	6.0	3.0	3.5
Merged-chr2-6476919-4	chr2	6476812	6477012	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124176.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	4.0	7.0	10.0	269.5	18.5	11.0	23.5	24.5
Merged-chr2-32385147-3	chr2	32384999	32385199	+	696.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008491, intron 5 of 5)	intron (NM_008491, intron 5 of 5)	2640.0	NM_008491	16819.0	Mm.9537	NM_008491	ENSMUSG00000026822	Lcn2	24p3|AW212229|NRL|Sip24	lipocalin 2	protein-coding	2.0	7.5	2.0	47.5	10.5	5.0	5.5	7.5
Merged-chr3-96301333-3	chr3	96301228	96301428	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7359.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	23.5	39.0	23.5	401.5	90.5	24.5	35.5	55.5
Merged-chr4-118366384-3	chr4	118366289	118366489	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198170, intron 65 of 71)	intron (NM_198170, intron 65 of 71)	6390.0	NR_003946	68180.0	Mm.193212	NM_026601	ENSMUSG00000006395	Hyi	2700033B16Rik|6430559E15Rik|HT036	hydroxypyruvate isomerase (putative)	protein-coding	23.5	49.0	34.0	313.0	6.5	2.0	3.0	4.5
Merged-chr7-45395818-4	chr7	45395714	45395914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009224)	promoter-TSS (NM_009224)	-72.0	NR_126538	20637.0	Mm.216386	NM_009224	ENSMUSG00000063511	Snrnp70	2700022N21Rik|3200002N22Rik|AI325098|R74807|Rnu1p70|Rnulp70|Snrp70|Srnp70|U1-70|U1-70K	small nuclear ribonucleoprotein 70 (U1)	protein-coding	305.0	459.0	199.0	3739.0	614.0	318.0	255.5	276.0
Merged-chr11-101143821-4	chr11	101143695	101143895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12089.0	NM_134028	103768.0	Mm.142348	NM_134028	ENSMUSG00000045007	Tubg2	AI504772|Tubgl	tubulin, gamma 2	protein-coding	23.5	64.5	17.0	276.5	81.0	29.5	31.0	30.5
Merged-chr8-84831673-4	chr8	84831572	84831772	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183358)	promoter-TSS (NM_183358)	593.0	NR_033145	23863.0	Mm.304252	NM_201227	ENSMUSG00000053226	Dand5	Cerl-2|Cerl2|Cerr2|Dte|GREM3|coco	DAN domain family member 5, BMP antagonist	protein-coding	21.5	56.0	5.0	187.5	51.5	24.5	21.0	28.0
Merged-chr10-44729178-4	chr10	44729075	44729275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_C_Mam|LINE|RTE-X	-270427.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	42.0	77.0	44.0	485.0	150.5	41.0	51.0	26.5
Merged-chr9-63109466-4	chr9	63109363	63109563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37517.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	44.0	51.0	41.0	551.0	96.0	31.0	35.5	41.0
Merged-chr2-91089230-4	chr2	91089153	91089353	+	972.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7425.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	15.5	15.0	29.0	434.0	50.5	22.5	17.0	18.0
Merged-chr4-49521163-4	chr4	49521090	49521290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289901)	promoter-TSS (NM_001289901)	14.0	NM_001289901	230162.0	Mm.186994	NM_145547	ENSMUSG00000039634	Zfp189	BB131811|C430015I23Rik	zinc finger protein 189	protein-coding	148.0	194.5	146.5	3144.0	313.0	111.5	228.5	146.5
Merged-chr5-97113678-4	chr5	97113552	97113752	+	863.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-2056.0	NM_001359913	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	13.0	25.0	12.5	100.0	32.0	5.0	9.5	15.0
Merged-chr16-30236599-4	chr16	30236520	30236720	+	879.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5B|DNA|hAT-Charlie	30912.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	11.5	15.0	5.5	57.0	30.0	6.5	6.5	17.0
Merged-chr5-142879523-4	chr5	142879411	142879611	+	818.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033312, intron 3 of 4)	intron (NM_001033312, intron 3 of 4)	15727.0	NM_001033312	231863.0	Mm.89753	NM_001033312	ENSMUSG00000066640	Fbxl18	AI427077|B130019G13Rik|C330021B20Rik	F-box and leucine-rich repeat protein 18	protein-coding	7.0	15.5	8.5	127.0	34.0	7.5	16.0	9.5
Merged-chr5-142797866-3	chr5	142797750	142797950	+	811.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178242, intron 2 of 15)	intron (NM_178242, intron 2 of 15)	19537.0	NM_178242	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	6.0	14.0	6.0	89.0	38.5	2.5	5.5	9.5
Merged-chr15-73632447-4	chr15	73632361	73632561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7717.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	59.5	62.5	77.5	1474.0	94.5	22.0	49.5	40.0
Merged-chr10-81241077-4	chr10	81240949	81241149	+	756.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034895, intron 4 of 17)	intron (NM_001034895, intron 4 of 17)	7886.0	NM_001034895	103406.0	Mm.158783	NM_001034895	ENSMUSG00000034949	Zfr2	2010013I23Rik|9130206N08Rik|AW045600|mKIAA1086	zinc finger RNA binding protein 2	protein-coding	10.0	11.5	14.0	106.5	37.0	12.0	8.0	9.0
Merged-chr4-101185469-4	chr4	101185369	101185569	+	939.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 4 of 24)	intron (NM_146145, intron 4 of 24)	79813.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	14.0	11.5	16.5	655.5	36.0	9.0	33.0	20.5
Merged-chr17-45686941-4	chr17	45686830	45687030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198167)	promoter-TSS (NM_198167)	581.0	NM_026732	68463.0	Mm.379158	NM_026732	ENSMUSG00000023939	Mrpl14	1110006I11Rik|AI846816|MRP-L32|Rpml32	mitochondrial ribosomal protein L14	protein-coding	29.0	61.0	27.0	181.5	70.5	21.5	16.0	17.5
Merged-chr1-91298290-4	chr1	91298210	91298410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016717)	promoter-TSS (NM_016717)	-28.0	NM_016717	50880.0	Mm.25724	NM_016717	ENSMUSG00000026307	Scly	9830169H08|A930015N15Rik|SCL|Scly1|Scly2	selenocysteine lyase	protein-coding	278.5	401.5	275.0	4590.5	581.5	246.0	389.0	264.0
Merged-chr10-42678889-4	chr10	42678800	42679000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172416)	promoter-TSS (NM_172416)	-16.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	112.0	164.5	71.0	1836.0	328.0	121.0	139.0	134.0
Merged-chr13-81132899-4	chr13	81132788	81132988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	168814.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	80.5	106.5	86.5	1238.0	185.0	78.0	73.0	83.5
Merged-chr18-64516612-4	chr18	64516524	64516724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027350)	promoter-TSS (NM_027350)	-67.0	NM_001142950	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	208.0	368.5	243.0	2996.0	540.5	214.5	260.5	188.0
Merged-chr3-136426741-4	chr3	136426650	136426850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22599.0	NR_040592	70055.0	Mm.261063	NR_040592	ENSMUSG00000099508	1700030L20Rik	-	RIKEN cDNA 1700030L20 gene	ncRNA	115.0	128.0	121.5	1918.0	235.0	95.0	119.0	97.0
Merged-chr6-30509756-4	chr6	30509636	30509836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178625)	promoter-TSS (NM_178625)	37.0	NM_001347087	72649.0	Mm.45418	NM_178625	ENSMUSG00000029782	Tmem209	2700094F01Rik|AI428435	transmembrane protein 209	protein-coding	110.0	143.5	62.0	1004.0	265.0	84.5	116.5	99.5
Merged-chr7-19683897-4	chr7	19683793	19683993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-2433.0	NM_001309799	105886299.0	Mm.28394	NM_001309799	ENSMUSG00000109350	Gm44805	Apoc4-apoc2	predicted gene 44805	protein-coding	127.0	152.5	132.5	1730.0	213.5	86.5	95.5	108.0
Merged-chr13-67268728-3	chr13	67268620	67268820	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_155551, exon 1 of 6)	non-coding (NR_155551, exon 1 of 6)	274.0	NR_155551	238690.0	Mm.306358	NM_001001152	ENSMUSG00000055480	Zfp458	BC062958|Gm33446|Rslcan-7|Znf728|mszf59-2	zinc finger protein 458	protein-coding	32.0	34.5	41.5	284.0	24.0	10.0	7.5	15.5
Merged-chr1-179847938-4	chr1	179847835	179848035	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43920.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	19.0	32.5	24.0	358.0	52.0	20.5	37.5	22.0
Merged-chr1-71098135-3	chr1	71098026	71098226	+	821.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007525, intron 1 of 10)	MTD|LTR|ERVL-MaLR	4846.0	NM_007525	12021.0	Mm.10764	NM_007525	ENSMUSG00000026196	Bard1	-	BRCA1 associated RING domain 1	protein-coding	13.0	18.5	10.0	85.0	20.5	3.5	21.5	7.5
Merged-chr2-32847329-4	chr2	32847223	32847423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009295)	promoter-TSS (NM_009295)	-86.0	NM_001113569	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	179.0	314.5	144.5	2153.0	506.5	190.0	214.0	159.5
Merged-chr8-27018603-4	chr8	27018472	27018672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42-int|LTR|ERVK	-5227.0	NM_153592	244373.0	Mm.277699	NM_153592	ENSMUSG00000031483	Erlin2	BC036333|C87251|Spfh2	ER lipid raft associated 2	protein-coding	147.0	194.5	168.0	2341.0	354.5	126.5	127.5	122.0
Merged-chr8-26981860-4	chr8	26981758	26981958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001101502)	TTS (NM_001101502)	4522.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	76.5	104.5	62.0	965.0	160.0	46.5	75.5	53.0
Merged-chr8-35376587-4	chr8	35376490	35376690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177741, intron 1 of 1)	CpG	849.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	165.5	250.5	134.0	2202.0	318.5	116.0	146.0	134.0
Merged-chr1-144283505-3	chr1	144283398	144283598	+	801.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34394.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	7.0	9.5	13.0	217.0	12.5	2.5	8.5	9.5
Merged-chr8-83695512-4	chr8	83695435	83695635	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177262, intron 1 of 21)	(CA)n|Simple_repeat|Simple_repeat	-1474.0	NM_001199593	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	31.5	32.0	30.5	368.5	53.5	25.0	20.5	35.0
Merged-chr2-154658068-4	chr2	154657956	154658156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029362, intron 1 of 4)	intron (NM_029362, intron 1 of 4)	1030.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	84.0	157.5	73.0	1451.0	274.5	122.5	137.5	110.0
Merged-chr11-117654141-1	chr11	117654041	117654241	+	1000.0	f0_balb.idr	promoter-TSS (NM_198022)	promoter-TSS (NM_198022)	-148.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	23.5	32.5	12.0	115.0	27.0	20.5	11.0	14.5
Merged-chr12-56541275-3	chr12	56541176	56541376	+	788.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4368.0	NM_009385	21869.0	Mm.89972	NM_009385	ENSMUSG00000001496	Nkx2-1	AV026640|Nkx2.1|T/EBP|Titf1|Ttf-1	NK2 homeobox 1	protein-coding	3.5	8.0	6.5	119.5	17.5	6.5	4.5	8.0
Merged-chr13-13524298-4	chr13	13524171	13524371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66138.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	28.0	37.0	24.0	191.0	143.5	24.5	35.0	43.5
Merged-chr7-115084887-4	chr7	115084774	115084974	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	133600.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	37.0	44.5	45.0	699.5	56.0	13.5	28.5	25.0
Merged-chr8-95335910-4	chr8	95335790	95335990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133954, intron 2 of 6)	intron (NM_133954, intron 2 of 6)	3606.0	NM_133954	101985.0	Mm.29069	NM_133954	ENSMUSG00000031792	Usb1	AA960436	U6 snRNA biogenesis 1	protein-coding	22.5	56.5	17.0	486.0	97.0	34.5	27.0	26.5
Merged-chr17-24533779-4	chr17	24533677	24533877	+	957.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177375)	promoter-TSS (NM_177375)	-30.0	NM_177375	328778.0	Mm.266033	NM_177375	ENSMUSG00000079657	Rab26	A830020M03Rik	RAB26, member RAS oncogene family	protein-coding	24.0	38.0	20.5	266.5	65.0	12.0	31.0	17.5
Merged-chr14-25412236-6	chr14	25412069	25412269	+	770.527771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47016.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	5.5	32.0	10.0	22.0	14.0	5.5	3.0	8.5
Merged-chr9-74425823-3	chr9	74425732	74425932	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	315498.0	NM_001033500	546144.0	Mm.335289	NM_177908	ENSMUSG00000044976	Wdr72	AW558070|D230040E23	WD repeat domain 72	protein-coding	5.0	8.0	6.0	156.0	11.0	5.5	14.0	7.5
Merged-chr3-105801356-4	chr3	105801253	105801453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145541)	promoter-TSS (NM_145541)	28.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	44.0	57.5	48.5	660.5	195.5	46.0	76.0	64.5
Merged-chr16-92867462-4	chr16	92867365	92867565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-41391.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	184.5	246.0	207.0	2661.0	423.0	147.5	162.0	206.0
Merged-chr8-94180169-4	chr8	94180087	94180287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013602, exon 3 of 3)	exon (NM_013602, exon 3 of 3)	1098.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	55.5	55.5	60.5	992.0	184.5	40.0	57.0	59.0
Merged-chr4-55514906-4	chr4	55514806	55515006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	17569.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	45.0	113.0	64.0	773.0	102.0	58.0	80.5	70.5
Merged-chr9-107575090-3	chr9	107574989	107575189	+	962.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1838.0	NM_008317	15586.0	Mm.475658	NM_008317	ENSMUSG00000010051	Hyal1	Hya1|Hyal-1	hyaluronoglucosaminidase 1	protein-coding	1.5	3.5	2.0	33.0	39.0	36.5	18.5	23.0
Merged-chr6-38353431-2	chr6	38353331	38353531	+	992.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	intron (NM_028864, intron 1 of 8)	1172.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	3.5	8.5	5.0	30.5	14.0	9.0	7.0	14.0
Merged-chr9-57440124-4	chr9	57440016	57440216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357914)	promoter-TSS (NM_001357914)	-2.0	NM_001357916	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	121.0	174.0	84.5	1164.0	256.5	87.0	108.0	104.5
Merged-chr6-61180388-3	chr6	61180311	61180511	+	986.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164316)	promoter-TSS (NM_001164316)	86.0	NM_183310	232035.0	Mm.150324	NM_183310	ENSMUSG00000039578	Ccser1	6230405M12Rik|C130092O11Rik|Fam190a	coiled-coil serine rich 1	protein-coding	6.5	8.5	7.0	171.0	9.5	1.0	1.0	3.0
Merged-chr2-30496036-4	chr2	30495907	30496107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21808.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	23.0	32.5	17.5	310.0	61.5	33.0	42.5	39.0
Merged-chr9-114688698-4	chr9	114688597	114688797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146229)	promoter-TSS (NM_146229)	-134.0	NM_146229	235661.0	Mm.128627	NM_146229	ENSMUSG00000032435	Dync1li1	1110053F02Rik|Dnclic1|LIC-1	dynein cytoplasmic 1 light intermediate chain 1	protein-coding	117.5	225.5	111.5	1465.0	432.5	204.5	176.0	139.5
Merged-chr11-29787046-4	chr11	29786949	29787149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 24 of 41)	intron (NM_146016, intron 24 of 41)	38619.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	54.0	54.5	29.0	795.5	142.5	51.5	64.5	38.5
Merged-chr6-134218062-3	chr6	134217971	134218171	+	704.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	-178258.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	9.5	2.5	3.0	191.5	20.5	6.5	5.5	8.5
Merged-chr7-133046751-4	chr7	133046647	133046847	+	887.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	-31500.0	NM_001170744	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	24.0	9.5	2.0	187.5	36.5	10.0	13.5	16.0
Merged-chr16-91545167-4	chr16	91545047	91545247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	-1947.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	30.0	50.5	26.5	490.0	93.5	38.0	54.5	61.0
Merged-chr8-125543341-3	chr8	125543202	125543402	+	993.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	26561.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	23.5	30.0	36.5	434.0	12.0	2.0	2.0	10.0
Merged-chr15-13172448-4	chr15	13172349	13172549	+	917.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007666, intron 1 of 11)	intron (NM_007666, intron 1 of 11)	1226.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	19.5	22.5	11.5	136.5	24.0	12.5	19.5	9.5
Merged-chr3-61413786-2	chr3	61413686	61413886	+	810.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49279.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	2.0	5.0	2.0	31.0	9.5	5.5	5.5	5.0
Merged-chr11-94317734-3	chr11	94317661	94317861	+	615.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361574, intron 1 of 9)	B3|SINE|B2	4202.0	NR_155069	67684.0	Mm.30927	NM_026313	ENSMUSG00000020863	Luc7l3	3300001P08Rik|Luc7a	LUC7-like 3 (S. cerevisiae)	protein-coding	11.0	12.0	7.5	58.0	5.0	3.5	6.5	7.0
Merged-chr9-22155774-4	chr9	22155693	22155893	+	984.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1053.0	NM_001082532	66268.0	Mm.28924	NM_025457	ENSMUSG00000010607	Pigyl	1810008A14Rik|PIG-Y|Pigy	phosphatidylinositol glycan anchor biosynthesis, class Y-like	protein-coding	27.5	29.0	27.0	222.5	35.0	14.5	19.5	15.5
Merged-chr2-91950926-4	chr2	91950934	91951134	+	908.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166597)	promoter-TSS (NM_001166597)	-686.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	13.5	7.5	13.0	105.5	27.5	5.0	3.0	1.5
Merged-chr13-59820340-4	chr13	59820241	59820441	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153538, intron 2 of 27)	intron (NM_153538, intron 2 of 27)	2806.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	10.5	13.0	6.5	77.0	39.0	7.5	12.5	6.0
Merged-chr9-115710293-3	chr9	115710222	115710422	+	791.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-199133.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	7.5	8.0	5.5	62.5	11.5	3.5	3.5	9.5
Merged-chr13-73508900-3	chr13	73508792	73508992	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 9 of 13)	intron (NM_145376, intron 9 of 13)	-27855.0	NM_010020	13162.0	Mm.41993	NM_010020	ENSMUSG00000021609	Slc6a3	DAT|Dat1	solute carrier family 6 (neurotransmitter transporter, dopamine), member 3	protein-coding	8.5	7.0	6.0	98.5	5.0	1.5	7.5	2.0
Merged-chr6-86572579-4	chr6	86572453	86572653	+	963.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	45152.0	NR_037961	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	25.5	48.5	19.0	171.5	58.0	28.5	15.5	15.5
Merged-chr1-128643676-4	chr1	128643547	128643747	+	952.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51348.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	14.5	18.0	25.0	158.5	25.5	8.5	14.5	6.0
Merged-chr14-61799464-4	chr14	61799376	61799576	+	941.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117103.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	12.0	21.5	15.0	355.5	41.0	8.5	17.5	23.0
Merged-chr8-85432878-4	chr8	85432773	85432973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025722)	promoter-TSS (NM_025722)	-32.0	NM_025722	66714.0	Mm.272748	NM_025722	ENSMUSG00000036934	4921524J17Rik	-	RIKEN cDNA 4921524J17 gene	protein-coding	171.0	256.5	153.0	2921.0	392.5	165.0	224.0	146.5
Merged-chr2-102531206-3	chr2	102531123	102531323	+	734.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TCC)n|Simple_repeat|Simple_repeat	-18798.0	NM_173749	210622.0	Mm.28649	NM_173749	ENSMUSG00000027188	Pamr1	5930437L24|E430002G05Rik|Ramp	peptidase domain containing associated with muscle regeneration 1	protein-coding	2.0	0.0	1.0	12.5	47.5	10.5	11.0	32.0
Merged-chr7-122477179-2	chr7	122477079	122477279	+	795.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 5 of 16)	intron (NM_001316672, intron 5 of 16)	188054.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	4.5	5.5	7.5	33.5	14.0	2.0	4.5	1.0
Merged-chr16-33954935-4	chr16	33954829	33955029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009471, exon 6 of 6)	3' UTR (NM_009471, exon 6 of 6)	12109.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	33.0	62.0	58.5	703.5	117.5	29.0	43.5	32.0
Merged-chr10-9901226-4	chr10	9901138	9901338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081344)	promoter-TSS (NM_001081344)	-198.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	41.5	49.0	17.0	690.5	96.0	17.5	33.0	26.5
Merged-chr6-145304703-3	chr6	145304588	145304788	+	860.288879	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54136.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	0.0	10.0	0.5	67.0	27.0	11.5	7.0	12.0
Merged-chr19-12462797-8	chr19	12462722	12462922	+	987.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010821, exon 2 of 2)	exon (NM_010821, exon 2 of 2)	2043.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	8.5	25.0	13.0	203.5	34.0	12.0	14.5	22.5
Merged-chr11-101082474-7	chr11	101082351	101082551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305982)	promoter-TSS (NM_001305982)	-114.0	NM_001305982	71743.0	Mm.182271	NM_027896	ENSMUSG00000001755	Coasy	1300003G02Rik|Dpck|Ppat|Ukr1	Coenzyme A synthase	protein-coding	36.5	67.0	40.0	375.0	92.5	40.5	34.0	43.5
Merged-chr15-26365613-4	chr15	26365500	26365700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310774, intron 2 of 2)	intron (NM_001310774, intron 2 of 2)	56552.0	NM_001310774	211147.0	Mm.54257	NM_177597	ENSMUSG00000022269	March11	9630025C22	membrane-associated ring finger (C3HC4) 11	protein-coding	46.0	51.0	50.0	822.0	82.5	27.0	43.5	25.0
Merged-chr7-141461945-5	chr7	141461857	141462057	+	865.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152220, exon 2 of 2)	non-coding (NR_152220, exon 2 of 2)	863.0	NM_001025103	213573.0	Mm.386851	NM_001025103	ENSMUSG00000048200	Cracr2b	6330520A15Rik|BC026645|Cracr2a|Efcab4|Efcab4a	calcium release activated channel regulator 2B	protein-coding	9.5	8.0	11.5	106.5	6.5	2.5	4.0	4.5
Merged-chr1-89563641-4	chr1	89563539	89563739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	108828.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	38.0	63.0	36.0	619.5	71.5	35.5	30.5	29.5
Merged-chr7-101549426-4	chr7	101549338	101549538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	6364.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	15.0	40.0	9.0	191.0	176.5	61.0	76.0	69.0
Merged-chr18-76978157-3	chr18	76978059	76978259	+	758.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33775.0	NM_001361227	76987.0	Mm.236127	NM_029826	ENSMUSG00000025421	Hdhd2	0610039H12Rik|3110052N05Rik	haloacid dehalogenase-like hydrolase domain containing 2	protein-coding	5.0	5.5	0.0	142.0	37.0	8.0	8.5	12.0
Merged-chr15-99725504-4	chr15	99725392	99725592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183256)	promoter-TSS (NM_183256)	-126.0	NM_183256	66379.0	Mm.5265	NM_183256	ENSMUSG00000023020	Cox14	2310016M24Rik|AA959804	cytochrome c oxidase assembly protein 14	protein-coding	179.5	288.5	154.5	2011.0	466.0	172.5	153.0	183.0
Merged-chr11-3170688-2	chr11	3170587	3170787	+	1000.0	f0_balb.idr|f1_balb.idr	exon (NM_030207, exon 7 of 33)	exon (NM_030207, exon 7 of 33)	22776.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	54.0	89.5	57.5	664.5	0.0	0.5	0.0	0.0
Merged-chr9-110464198-4	chr9	110464083	110464283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360306, intron 1 of 9)	intron (NM_001360306, intron 1 of 9)	12511.0	NM_001360306	270201.0	Mm.41744	NM_177771	ENSMUSG00000054792	Klhl18	A930041K15|AW545966	kelch-like 18	protein-coding	53.5	55.5	51.0	940.0	86.0	21.0	25.5	32.5
Merged-chr14-30043513-4	chr14	30043411	30043611	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 45 of 46)	intron (NM_001083616, intron 45 of 46)	20878.0	NM_175343	218865.0	Mm.259916	NM_172264	ENSMUSG00000015970	Chdh	AU041472|D630034H06Rik	choline dehydrogenase	protein-coding	20.5	25.0	19.0	307.5	80.5	13.0	30.5	29.0
Merged-chr11-97440265-5	chr11	97440179	97440379	+	807.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9881.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	6.0	6.0	7.5	81.0	17.0	2.5	5.5	6.0
Merged-chr3-89360486-3	chr3	89360397	89360597	+	806.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029974, intron 3 of 15)	L2|LINE|L2	4756.0	NM_029974	77772.0	Mm.164013	NM_029974	ENSMUSG00000042672	Dcst1	A330106H01Rik	DC-STAMP domain containing 1	protein-coding	10.0	9.5	1.0	147.0	9.5	5.5	6.0	5.5
Merged-chr12-84767668-4	chr12	84767571	84767771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023409, intron 1 of 3)	intron (NM_023409, intron 1 of 3)	5441.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	129.5	151.0	94.0	1434.5	215.0	93.5	101.0	103.0
Merged-chr7-130647487-2	chr7	130647387	130647587	+	802.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004468, intron 3 of 21)	intron (NM_001004468, intron 3 of 21)	-45069.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	2.5	2.5	2.0	39.5	17.0	7.0	5.5	9.0
Merged-chr13-41550733-4	chr13	41550631	41550831	+	844.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B3|LTR|ERVL	-55485.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	9.0	5.5	20.0	128.0	17.0	12.0	14.0	15.5
Merged-chr8-117543131-3	chr8	117543033	117543233	+	703.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 2 of 32)	intron (NM_172285, intron 2 of 32)	44858.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	13.0	12.0	4.5	100.5	36.5	7.5	6.5	7.5
Merged-chr14-93235584-2	chr14	93235471	93235671	+	598.666626	f0_balb.idr|f1_c57bl6.idr	intron (NM_001271800, intron 3 of 3)	intron (NM_001271800, intron 3 of 3)	655098.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	8.5	10.5	6.5	234.5	3.0	0.0	0.0	5.0
Merged-chr6-53376597-3	chr6	53376491	53376691	+	786.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 3 of 10)	intron (NM_001327821, intron 3 of 10)	89288.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	12.5	2.0	7.5	80.5	18.5	10.0	6.5	8.0
Merged-chr4-130828937-2	chr4	130828837	130829037	+	999.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36400.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	12.0	4.0	7.5	216.0	21.0	6.0	9.5	4.5
Merged-chr9-37406574-3	chr9	37406484	37406684	+	730.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001309390, intron 10 of 17)	intron (NM_001309390, intron 10 of 17)	4687.0	NM_001309390	74144.0	Mm.485070	NM_028783	ENSMUSG00000032125	Robo4	1200012D01Rik|AI593217	roundabout guidance receptor 4	protein-coding	4.5	9.5	6.5	83.5	22.0	3.5	6.0	13.5
Merged-chr13-9027456-4	chr13	9027357	9027557	+	885.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31445.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	15.0	32.0	14.0	328.0	27.0	7.5	11.5	13.5
Merged-chr4-150136888-4	chr4	150136790	150136990	+	973.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019741, intron 7 of 13)	intron (NM_019741, intron 7 of 13)	-12082.0	NM_001085529	435818.0	Mm.359648	NM_001085529	ENSMUSG00000062064	Slc2a7	-	solute carrier family 2 (facilitated glucose transporter), member 7	protein-coding	15.0	28.0	3.5	293.5	40.0	15.0	29.5	33.5
Merged-chr10-17722415-4	chr10	17722302	17722502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010828)	promoter-TSS (NM_010828)	-826.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	61.5	55.0	42.5	944.0	173.5	62.0	68.0	40.0
Merged-chr17-47054776-4	chr17	47054663	47054863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44231.0	NM_001177374	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	28.5	25.5	34.5	628.0	55.0	23.5	21.5	37.5
Merged-chr9-38724216-4	chr9	38724115	38724315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145957, intron 6 of 18)	intron (NM_001145957, intron 6 of 18)	5947.0	NM_172767	67776.0	Mm.290950	NM_172767	ENSMUSG00000023186	Vwa5a	5830475I06Rik|AW552491|BCSC-1|E130119J22|Loh11cr2a	von Willebrand factor A domain containing 5A	protein-coding	22.5	24.0	19.5	416.0	69.5	16.5	21.0	35.0
Merged-chr6-140624209-4	chr6	140624135	140624335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309437)	promoter-TSS (NM_001309437)	-674.0	NM_001309437	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	17.0	28.5	18.5	258.0	43.5	23.5	24.5	34.0
Merged-chr8-94179068-4	chr8	94178955	94179155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013602)	promoter-TSS (NM_013602)	-34.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	352.5	559.0	413.5	5533.5	831.5	337.5	413.5	338.5
Merged-chr16-93711153-4	chr16	93711074	93711274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026700)	promoter-TSS (NM_026700)	-733.0	NM_026700	70028.0	Mm.23230	NM_026700	ENSMUSG00000022946	Dopey2	0610038M01Rik|2610510B01Rik|AI503246|C21orf5|mKIAA0933	dopey family member 2	protein-coding	45.5	55.0	44.5	347.0	120.0	55.5	42.5	45.5
Merged-chr11-50154398-4	chr11	50154287	50154487	+	890.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029745, intron 10 of 20)	L1MB3|LINE|L1	-20464.0	NM_026543	68067.0	Mm.40828	NM_026543	ENSMUSG00000020381	Mrnip	2900016G09Rik|3010026O09Rik|AI851514|AW475975	MRN complex interacting protein	protein-coding	29.5	48.5	32.0	598.0	17.5	11.5	8.0	6.5
Merged-chr10-12868295-4	chr10	12868200	12868400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6565.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	34.5	51.0	43.5	496.5	75.0	21.0	33.0	40.5
Merged-chr12-99523090-4	chr12	99523005	99523205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-40736.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	37.0	63.5	37.5	762.0	96.5	32.0	40.0	51.5
Merged-chr11-51927390-4	chr11	51927276	51927476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40255.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	84.0	121.5	164.5	1994.5	220.0	67.5	95.0	106.5
Merged-chr19-7341792-4	chr19	7341701	7341901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007928)	promoter-TSS (NM_007928)	59.0	NM_001080389	13728.0	Mm.258986	NM_007928	ENSMUSG00000024969	Mark2	EMK-1|Emk|Par-1|Par-1b	MAP/microtubule affinity regulating kinase 2	protein-coding	154.0	223.5	86.0	878.5	320.5	146.5	112.0	115.0
Merged-chr4-141766578-4	chr4	141766493	141766693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172338, intron 12 of 14)	intron (NM_172338, intron 12 of 14)	19918.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	49.0	78.0	47.5	961.0	110.5	43.0	48.0	52.0
Merged-chr19-15815388-3	chr19	15815289	15815489	+	929.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109233.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	20.5	10.0	29.5	380.5	19.0	3.5	5.0	18.0
Merged-chr9-101076668-4	chr9	101076575	101076775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100451, intron 1 of 1)	intron (NM_001100451, intron 1 of 1)	1913.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	41.5	95.5	63.5	405.0	158.0	60.5	64.5	38.5
Merged-chr7-100226046-4	chr7	100225965	100226165	+	807.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1542.0	NM_027629	70974.0	Mm.440524	NM_027629	ENSMUSG00000030729	Pgm2l1	4931406N15Rik|AI553438|BM32A	phosphoglucomutase 2-like 1	protein-coding	18.5	34.0	12.0	110.0	24.0	12.5	16.0	11.5
Merged-chr6-126910498-1	chr6	126910398	126910598	+	597.5	f0_balb.idr	intron (NM_207210, intron 2 of 14)	intron (NM_207210, intron 2 of 14)	11341.0	NM_207210	101320.0	Mm.44896	NM_207210	ENSMUSG00000030345	Dyrk4	AW049118|Dyrk4a|Dyrk4b	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4	protein-coding	7.5	6.5	11.5	97.0	5.0	4.0	3.0	7.0
Merged-chr11-89985411-4	chr11	89985299	89985499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316372, intron 4 of 4)	intron (NM_001316372, intron 4 of 4)	17495.0	NM_008796	18559.0	Mm.5062	NM_008796	ENSMUSG00000020553	Pctp	PC-TP|StarD2	phosphatidylcholine transfer protein	protein-coding	78.0	95.5	89.5	848.5	102.0	55.5	38.5	42.0
Merged-chr2-25054440-4	chr2	25054327	25054527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020276)	promoter-TSS (NM_020276)	48.0	NM_001177655	56876.0	Mm.42956	NM_020276	ENSMUSG00000006476	Nsmf	Jacob|Nelf	NMDA receptor synaptonuclear signaling and neuronal migration factor	protein-coding	57.5	88.5	59.0	833.5	151.0	59.5	86.5	59.5
Merged-chr2-71327302-4	chr2	71327198	71327398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 4 of 17)	intron (NM_172436, intron 4 of 17)	40256.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	143.0	231.5	148.5	2048.0	331.5	127.0	146.5	151.5
Merged-chr11-79530531-4	chr11	79530437	79530637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033711)	promoter-TSS (NM_001033711)	72.0	NM_146023	101488212.0	Mm.439665	NM_146023	ENSMUSG00000070354	Evi2	Evi2a-evi2b|Gm21975	ecotropic viral integration site 2	protein-coding	66.0	93.5	55.0	723.5	164.0	65.5	57.0	65.0
Merged-chr6-97479036-4	chr6	97478964	97479164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	8756.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	77.0	146.5	163.5	1501.0	241.5	97.0	143.0	126.0
Merged-chr5-18043206-4	chr5	18043092	18043292	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80622.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	11.0	7.5	11.0	244.0	23.5	4.0	15.5	17.0
Merged-chr4-101167215-2	chr4	101167115	101167315	+	704.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 11 of 24)	intron (NM_146145, intron 11 of 24)	98067.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	5.5	8.0	6.5	138.0	13.0	2.5	8.5	3.0
Merged-chr6-35587124-3	chr6	35587024	35587224	+	865.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-47236.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	6.0	7.0	1.5	25.0	16.0	7.0	16.5	15.5
Merged-chr1-74435764-4	chr1	74435653	74435853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009509)	TTS (NM_009509)	26369.0	NM_009509	22349.0	Mm.471601	NM_009509	ENSMUSG00000026175	Vil1	Vil	villin 1	protein-coding	72.0	87.5	56.0	818.0	135.5	48.5	59.5	39.5
Merged-chr10-117906637-4	chr10	117906466	117906666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18893.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	29.0	55.5	56.5	433.0	87.0	30.5	42.5	52.5
Merged-chr9-107247693-3	chr9	107247594	107247794	+	868.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15785.0	NM_153413	208869.0	Mm.150259	NM_153413	ENSMUSG00000039716	Dock3	MOCA|PBP|mKIAA0299	dedicator of cyto-kinesis 3	protein-coding	14.5	33.0	26.0	364.5	4.0	0.0	3.0	4.0
Merged-chr4-115839166-4	chr4	115839083	115839283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021461)	promoter-TSS (NM_021461)	-15.0	NM_001285488	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	131.5	141.5	92.5	1222.0	302.5	114.5	142.0	109.5
Merged-chr3-101836290-4	chr3	101836208	101836408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172295)	promoter-TSS (NM_172295)	-85.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	22.0	29.0	33.0	455.0	81.5	30.5	37.5	30.5
Merged-chr4-119293103-4	chr4	119292971	119293171	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011732, intron 2 of 7)	intron (NM_011732, intron 2 of 7)	1442.0	NM_011732	22608.0	Mm.258204	NM_011732	ENSMUSG00000028639	Ybx1	1700102N10Rik|C79409|EF1A|MSY1|Nsep1|YB-1|dbpB|mYB-1a	Y box protein 1	protein-coding	19.0	32.0	17.0	309.5	62.5	24.5	17.0	26.0
Merged-chr12-82220894-3	chr12	82220798	82220998	+	857.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 1 of 23)	intron (NM_001167983, intron 1 of 23)	50882.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	7.0	22.5	8.0	80.5	22.0	11.0	7.5	2.5
Merged-chr17-17549128-4	chr17	17549013	17549213	+	840.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 11 of 17)	intron (NM_172827, intron 11 of 17)	75376.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	8.0	13.5	6.0	195.0	46.5	8.0	14.0	5.5
Merged-chr13-37581633-3	chr13	37581516	37581716	+	657.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	236271.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	11.0	10.0	6.0	62.0	22.0	9.5	8.5	13.5
Merged-chr2-172345457-4	chr2	172345355	172345555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025912)	promoter-TSS (NM_025912)	-122.0	NM_025912	67017.0	Mm.30013	NM_025912	ENSMUSG00000027495	Fam210b	2010011I20Rik|AI430961|AV108736	family with sequence similarity 210, member B	protein-coding	330.5	589.5	375.5	4716.0	907.0	357.0	470.0	319.5
Merged-chr6-142748118-4	chr6	142748006	142748206	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8580.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	5.5	7.0	31.0	203.5	19.5	7.5	9.0	13.5
Merged-chr12-95745665-1	chr12	95745565	95745765	+	642.0	f0_balb.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	53439.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	13.5	5.0	11.0	103.5	14.5	8.5	5.0	8.5
Merged-chr4-152176819-4	chr4	152176731	152176931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1269.0	NM_133348	70025.0	Mm.296191	NM_133348	ENSMUSG00000028937	Acot7	2410041A17Rik|Ach1|Act|Bach|CTE-IIa|Cte-II|Lach1	acyl-CoA thioesterase 7	protein-coding	29.5	39.5	19.5	418.5	49.0	18.5	25.0	34.5
Merged-chr9-59659927-4	chr9	59659819	59660019	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253883, intron 1 of 10)	intron (NM_001253883, intron 1 of 10)	3551.0	NM_011099	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	11.5	26.0	12.5	112.0	58.5	22.0	27.5	31.0
Merged-chr8-31187376-5	chr8	31187331	31187531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286424)	promoter-TSS (NM_001286424)	100.0	NM_001286425	171167.0	Mm.334477	NM_134161	ENSMUSG00000046152	Fut10	fuc-TX|fut10A	fucosyltransferase 10	protein-coding	15.5	49.0	53.0	282.0	60.0	15.0	27.0	27.5
Merged-chr8-26888257-4	chr8	26888148	26888348	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-63825.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	30.0	37.0	21.0	531.0	28.5	11.5	15.5	11.5
Merged-chr8-124247729-4	chr8	124247641	124247841	+	904.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139272, intron 1 of 15)	MTD|LTR|ERVL-MaLR	16347.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	13.0	4.0	19.0	221.0	34.5	10.5	18.5	29.0
Merged-chr14-30596012-7	chr14	30595941	30596141	+	882.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 17 of 17)	intron (NM_011103, intron 17 of 17)	14269.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	11.5	8.5	5.5	39.5	20.5	10.0	9.0	7.0
Merged-chr17-31040707-4	chr17	31040622	31040822	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16972.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	36.5	31.0	17.0	428.0	25.5	12.5	8.5	15.0
Merged-chr10-118096347-4	chr10	118096284	118096484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45403.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	96.0	93.5	160.0	2026.0	258.0	85.5	154.5	124.0
Merged-chr16-91347587-4	chr16	91347470	91347670	+	957.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25213.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	8.5	10.0	11.0	215.0	35.0	13.0	11.5	15.0
Merged-chr4-138922199-4	chr4	138922040	138922240	+	855.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8193.0	NM_028453	73162.0	Mm.238081	NM_028453	ENSMUSG00000041161	Otud3	3110030K17Rik	OTU domain containing 3	protein-coding	13.0	8.5	2.5	74.5	30.5	10.5	13.0	7.5
Merged-chr5-122894956-4	chr5	122894874	122895074	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 12 of 22)	intron (NM_001003953, intron 12 of 22)	5376.0	NM_013910	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	33.5	26.0	18.0	478.5	37.5	18.5	18.5	33.0
Merged-chr9-114401229-7	chr9	114401124	114401324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009752, exon 1 of 16)	exon (NM_009752, exon 1 of 16)	129.0	NM_001200002	100504715.0	Mm.290516	NM_001200002	ENSMUSG00000079260	Tmppe	-	transmembrane protein with metallophosphoesterase domain	protein-coding	40.0	78.0	59.0	550.5	79.0	37.5	40.5	44.5
Merged-chr2-25422754-4	chr2	25422584	25422784	+	906.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289453)	promoter-TSS (NM_001289453)	-558.0	NM_001289453	14347.0	Mm.1203	NM_013524	ENSMUSG00000036587	Fut7	AI853193|FTVII|Fuc-TVII|FucT-VII	fucosyltransferase 7	protein-coding	12.0	7.5	8.5	62.0	16.5	7.0	5.0	10.0
Merged-chr1-165621916-4	chr1	165621826	165622026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	12615.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	27.5	26.0	51.5	69.0	70.0	20.5	34.5	41.5
Merged-chr3-22061370-3	chr3	22061276	22061476	+	821.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15276.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	8.5	7.0	21.0	178.0	14.0	5.0	10.5	17.5
Merged-chr11-32331233-4	chr11	32331208	32331408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16503.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	43.5	92.5	59.5	1063.0	133.0	51.0	46.5	39.0
Merged-chr5-72817858-4	chr5	72817737	72817937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	50611.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	57.0	89.5	76.5	474.5	74.5	19.5	39.0	15.5
Merged-chr7-122289061-4	chr7	122288950	122289150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008855)	promoter-TSS (NM_008855)	-75.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	53.0	50.5	31.0	625.5	99.5	33.5	51.0	43.5
Merged-chr17-17402433-4	chr17	17402321	17402521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025681)	promoter-TSS (NM_025681)	-265.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	60.5	103.0	75.5	931.5	129.5	63.5	62.5	43.5
Merged-chr7-125542766-4	chr7	125542668	125542868	+	905.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9514.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	7.5	19.5	10.0	196.5	49.5	7.5	15.0	35.0
Merged-chr13-6639774-3	chr13	6639679	6639879	+	806.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019703, intron 1 of 21)	B1_Mur3|SINE|Alu	8992.0	NM_019703	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	2.0	15.0	5.0	105.0	30.0	5.0	10.5	6.5
Merged-chr1-92082976-4	chr1	92082870	92083070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 2 of 26)	intron (NM_207225, intron 2 of 26)	97371.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	78.5	82.5	85.5	1268.0	151.5	38.0	71.5	57.0
Merged-chr17-46637302-4	chr17	46637199	46637399	+	909.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357130, intron 6 of 15)	intron (NM_001357130, intron 6 of 15)	-7795.0	NM_175168	71461.0	Mm.181833	NM_175168	ENSMUSG00000023972	Ptk7	8430404F20Rik|chz|mPTK7/CCK4	PTK7 protein tyrosine kinase 7	protein-coding	15.5	17.5	6.0	190.0	20.0	6.0	10.5	14.0
Merged-chr2-163710993-4	chr2	163710885	163711085	+	938.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 3 of 4)	intron (NM_001039390, intron 3 of 4)	16948.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	6.5	9.0	13.0	254.0	35.5	3.5	13.5	9.0
Merged-chr12-79016228-2	chr12	79016222	79016422	+	720.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9045.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	6.5	13.5	8.0	37.5	0.0	0.0	0.0	0.5
Merged-chr14-70963723-3	chr14	70963625	70963825	+	570.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	73618.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	2.5	7.0	4.0	122.0	21.0	16.0	8.5	6.0
Merged-chr11-58904233-4	chr11	58904149	58904349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011758)	promoter-TSS (NM_011758)	-24.0	NM_011758	22698.0	Mm.127646	NM_011758	ENSMUSG00000037001	Zfp39	CTfin33|Zfp-39	zinc finger protein 39	protein-coding	127.5	208.5	141.0	1777.0	301.0	111.5	143.0	105.0
Merged-chr5-138257192-4	chr5	138257100	138257300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081108, intron 2 of 3)	intron (NM_001081108, intron 2 of 3)	1718.0	NM_001081108	66096.0	Mm.206901	NM_001081108	ENSMUSG00000050552	Lamtor4	0910001L09Rik|AV006840	late endosomal/lysosomal adaptor, MAPK and MTOR activator 4	protein-coding	31.5	65.0	53.0	788.5	43.5	17.5	18.0	38.0
Merged-chr8-105263551-4	chr8	105263430	105263630	+	867.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033161, intron 1 of 4)	intron (NM_001033161, intron 1 of 4)	1064.0	NM_001033161	71609.0	Mm.264255	NM_001033161	ENSMUSG00000031887	Tradd	9130005N23Rik|AA930854	TNFRSF1A-associated via death domain	protein-coding	6.0	15.0	11.0	208.5	28.0	6.0	13.5	18.0
Merged-chr5-135907096-4	chr5	135907006	135907206	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	19187.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	31.5	74.5	59.5	841.5	44.5	13.5	21.5	37.5
Merged-chr2-122146843-4	chr2	122146759	122146959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009735)	promoter-TSS (NM_009735)	-828.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	31.5	40.0	29.0	457.5	125.5	41.0	38.0	32.5
Merged-chr11-118232284-4	chr11	118232211	118232411	+	978.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	16281.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	23.5	20.5	16.5	160.0	51.0	13.5	19.0	39.0
Merged-chr11-105466967-4	chr11	105466866	105467066	+	956.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10231.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	13.0	16.5	10.5	229.5	33.5	11.0	8.0	18.0
Merged-chr3-15128539-3	chr3	15128429	15128629	+	970.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	157328.0	NR_040550	77127.0	Mm.195792	NR_040549	ENSMUSG00000098008	A930001A20Rik	-	RIKEN cDNA A930001A20 gene	ncRNA	15.5	24.5	21.0	701.5	16.5	6.5	17.0	8.0
Merged-chr19-21781653-3	chr19	21781576	21781776	+	626.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031997, intron 2 of 24)	intron (NM_031997, intron 2 of 24)	3336.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	5.0	6.5	8.5	102.5	26.0	3.5	11.0	12.0
Merged-chr18-26864270-4	chr18	26864173	26864373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-1110116.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	71.0	80.5	61.5	1579.0	190.5	62.0	84.0	112.5
Merged-chr11-48869553-2	chr11	48869453	48869653	+	893.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008326, intron 1 of 2)	intron (NM_008326, intron 1 of 2)	1867.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	7.5	5.5	5.0	23.0	11.5	8.5	0.5	4.5
Merged-chr6-13606620-6	chr6	13606585	13606785	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028990, intron 1 of 4)	L2|LINE|L2	1413.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	8.5	19.0	3.0	152.5	43.0	4.5	10.0	16.5
Merged-chr11-116586980-4	chr11	116586874	116587074	+	888.1124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5527.0	NM_173755	217342.0	Mm.243950	NM_173755	ENSMUSG00000020802	Ube2o	9630022H21|B230113M03Rik|E2-230K|mKIAA1734	ubiquitin-conjugating enzyme E2O	protein-coding	13.0	43.5	5.0	128.5	63.0	19.5	11.5	18.5
Merged-chr6-141050929-2	chr6	141050829	141051029	+	836.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198340.0	NM_018779	54611.0	Mm.103728	NM_018779	ENSMUSG00000041741	Pde3a	A930022O17Rik|C87899	phosphodiesterase 3A, cGMP inhibited	protein-coding	5.0	7.0	6.0	27.0	12.0	3.5	4.0	2.0
Merged-chr15-88743564-4	chr15	88743451	88743651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-8160.0	NM_181412	223773.0	Mm.396622	NM_181412	ENSMUSG00000034333	Zbed4	1700009F06Rik	zinc finger, BED type containing 4	protein-coding	23.5	30.0	30.0	316.5	42.5	17.0	24.0	37.0
Merged-chr5-76588715-4	chr5	76588585	76588785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3029.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	107.5	147.5	97.0	1856.0	254.5	118.5	154.0	100.5
Merged-chr7-67260040-3	chr7	67259942	67260142	+	831.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 7 of 11)	intron (NM_001357324, intron 7 of 11)	37426.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	7.5	17.0	9.5	215.0	20.0	9.0	4.0	12.5
Merged-chr4-132815226-4	chr4	132815127	132815327	+	869.8291630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	-18863.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	13.0	27.5	2.0	119.5	55.0	17.5	14.5	19.0
Merged-chr2-160318452-4	chr2	160318353	160318553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033411, intron 1 of 2)	intron (NM_001033411, intron 1 of 2)	9041.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	37.5	50.0	23.0	504.0	75.5	34.0	32.0	32.0
Merged-chr9-85573991-3	chr9	85573889	85574089	+	699.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	175345.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	8.0	5.5	8.0	155.0	14.0	1.5	4.5	3.5
Merged-chr7-128745365-4	chr7	128745263	128745463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029982, intron 1 of 18)	L2c|LINE|L2	493.0	NM_001029982	207352.0	Mm.297105	NM_001029982	ENSMUSG00000055319	Sec23ip	D7Ertd373e|p125	Sec23 interacting protein	protein-coding	24.5	93.0	23.0	236.0	78.0	39.5	30.5	27.0
Merged-chr17-27565308-4	chr17	27565225	27565425	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002895, intron 1 of 4)	intron (NM_001002895, intron 1 of 4)	402.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	19.0	16.5	13.5	222.5	48.0	14.0	22.5	12.5
Merged-chr7-87924771-3	chr7	87924677	87924877	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 4 of 9)	L1M2|LINE|L1	340609.0	NM_001143834	108071.0	Mm.235018	NM_001033224	ENSMUSG00000049583	Grm5	6430542K11Rik|AI850523|Glu5R|Gprc1e|mGluR5|mGluR5b	glutamate receptor, metabotropic 5	protein-coding	7.0	4.5	11.0	273.0	4.5	2.0	3.5	5.5
Merged-chr8-14608093-3	chr8	14608052	14608252	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-280384.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	31.0	28.5	45.5	791.5	19.5	2.0	9.0	5.0
Merged-chr8-116975223-4	chr8	116975142	116975342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027103, intron 1 of 2)	intron (NM_027103, intron 1 of 2)	3411.0	NM_001357254	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	53.5	34.5	44.0	897.5	101.5	21.5	38.5	51.0
Merged-chr13-58601456-4	chr13	58601349	58601549	+	916.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022317, intron 1 of 17)	intron (NM_022317, intron 1 of 17)	9428.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	10.5	29.5	12.0	126.0	39.0	16.5	24.0	22.0
Merged-chr4-120851175-3	chr4	120851077	120851277	+	749.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3622.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	12.0	7.5	11.0	79.0	9.5	6.5	3.0	13.5
Merged-chr5-61846074-2	chr5	61845974	61846174	+	556.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37231.0	NM_019468	14380.0	Mm.347430	NM_019468	ENSMUSG00000089992	G6pd2	G6pdx-ps1|Gpd-2|Gpd2	glucose-6-phosphate dehydrogenase 2	protein-coding	3.0	3.0	1.0	82.5	16.0	5.0	5.5	5.0
Merged-chr5-86129994-4	chr5	86129923	86130123	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172712, intron 23 of 32)	intron (NM_172712, intron 23 of 32)	42720.0	NM_172712	231380.0	Mm.34012	NM_172712	ENSMUSG00000035898	Uba6	4930542H01|5730469D23Rik|AU021846|AW124799|E1-L2|Ube1l2	ubiquitin-like modifier activating enzyme 6	protein-coding	22.5	24.5	29.0	626.0	61.5	15.0	24.0	26.0
Merged-chr7-41599241-4	chr7	41599155	41599355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34276.0	NM_001360675	67607.0	Mm.384626	NM_023363	ENSMUSG00000074165	Zfp788	2810426N06Rik|AI256342|AI605193	zinc finger protein 788	protein-coding	180.5	228.5	140.5	1882.5	432.5	149.0	200.5	211.5
Merged-chr16-36673374-4	chr16	36673272	36673472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7295.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	52.0	85.5	63.5	1294.0	110.5	44.5	78.0	51.5
Merged-chr5-36515328-4	chr5	36515218	36515418	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 7 of 13)	intron (NM_133910, intron 7 of 13)	15305.0	NM_001113364	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	94.0	133.5	102.0	1626.0	60.0	15.0	35.0	42.0
Merged-chr17-27897255-3	chr17	27897175	27897375	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001080769, exon 21 of 21)	3' UTR (NM_001080769, exon 21 of 21)	11967.0	NM_026836	68776.0	Mm.267998	NM_026836	ENSMUSG00000024218	Taf11	1110038O14Rik|AI115401|AL024207|AW552398|PRO214|TAF2I|TAFII28	TATA-box binding protein associated factor 11	protein-coding	0.5	1.5	1.0	5.5	71.0	21.5	25.0	24.5
Merged-chr6-17281202-4	chr6	17281101	17281301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277756)	promoter-TSS (NM_001277756)	16.0	NM_016900	12390.0	Mm.396075	NM_016900	ENSMUSG00000000058	Cav2	AI447843	caveolin 2	protein-coding	29.0	31.5	32.5	513.5	63.5	22.5	28.0	27.5
Merged-chr9-44603653-4	chr9	44603552	44603752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER89|LTR|ERV1	-1240.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	25.5	80.5	29.5	619.0	123.5	64.0	48.0	61.5
Merged-chr9-61671242-4	chr9	61671143	61671343	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243267.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	16.0	23.5	23.5	318.5	46.5	9.0	23.0	29.0
Merged-chr3-52103859-4	chr3	52103751	52103951	+	849.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001004176, exon 1 of 5)	exon (NM_001004176, exon 1 of 5)	1155.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	9.0	13.0	12.0	112.0	17.0	9.5	7.5	17.0
Merged-chr13-34044137-4	chr13	34044032	34044232	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026512, intron 1 of 6)	MTD|LTR|ERVL-MaLR	6491.0	NM_026512	68021.0	Mm.140243	NM_026512	ENSMUSG00000038286	Bphl	2010012D11Rik|5730533B08Rik|AI115341	biphenyl hydrolase-like (serine hydrolase, breast epithelial mucin-associated antigen)	protein-coding	30.5	37.0	24.5	380.5	45.5	13.0	8.5	11.5
Merged-chr4-138973235-1	chr4	138973135	138973335	+	1000.0	f0_balb.idr	5' UTR (NM_029857, exon 1 of 17)	5' UTR (NM_029857, exon 1 of 17)	330.0	NM_029857	77056.0	Mm.122336	NM_029857	ENSMUSG00000041143	Tmco4	4632413C14Rik|AI430825	transmembrane and coiled-coil domains 4	protein-coding	16.5	33.5	17.5	209.0	46.5	20.0	13.0	15.5
Merged-chr8-61579012-4	chr8	61578939	61579139	+	860.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	12130.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	14.5	15.0	12.5	106.5	45.5	14.5	23.0	13.0
Merged-chr12-4477217-7	chr12	4477104	4477304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010881)	promoter-TSS (NM_010881)	-22.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	8.0	17.0	7.0	87.5	54.0	16.5	26.5	23.0
Merged-chr11-74493330-4	chr11	74493242	74493442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	96816.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	69.0	114.5	46.0	725.5	188.5	58.5	65.5	55.5
Merged-chr2-5715234-2	chr2	5715134	5715334	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177343)	promoter-TSS (NM_177343)	-472.0	NM_177343	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	10.0	14.0	10.5	99.0	15.0	13.0	9.0	10.5
Merged-chr1-74506691-3	chr1	74506571	74506771	+	982.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310662)	promoter-TSS (NM_001310662)	611.0	NM_021383	58184.0	Mm.291708	NM_021383	ENSMUSG00000026174	Cnot9	2610007F23Rik|AI593551|Fl10|Rqcd1	CCR4-NOT transcription complex, subunit 9	protein-coding	7.5	11.5	10.0	45.5	34.5	14.0	8.0	18.0
Merged-chr11-116143972-2	chr11	116143872	116144072	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172571, intron 30 of 30)	intron (NM_172571, intron 30 of 30)	-5104.0	NM_024177	60441.0	Mm.29974	NM_024177	ENSMUSG00000020775	Mrpl38	1110036N21Rik|4733401F03Rik|MRP-L3|R75240|Rpml3	mitochondrial ribosomal protein L38	protein-coding	4.5	9.5	10.0	19.5	7.5	6.0	5.0	13.5
Merged-chr7-114479983-4	chr7	114479887	114480087	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 1 of 15)	intron (NM_011055, intron 1 of 15)	64733.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	31.0	38.0	34.5	772.0	45.5	16.5	11.0	16.0
Merged-chr13-91517161-4	chr13	91517077	91517277	+	932.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 1 of 15)	ORR1D2|LTR|ERVL-MaLR	56080.0	NM_024186	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	51.0	52.5	71.5	664.0	36.5	12.0	17.5	5.0
Merged-chr19-36834229-4	chr19	36834133	36834333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163635)	promoter-TSS (NM_001163635)	1.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	78.0	115.5	46.5	1009.5	189.5	80.0	93.0	78.5
Merged-chr1-194985999-4	chr1	194985901	194986101	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-9042.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	34.0	34.0	25.5	364.0	44.0	21.0	17.0	17.5
Merged-chr9-118638857-4	chr9	118638772	118638972	+	965.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 4 of 27)	intron (NM_133721, intron 4 of 27)	32163.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	59.5	29.5	58.0	737.5	98.0	15.0	42.5	36.5
Merged-chr11-90238816-4	chr11	90238707	90238907	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10669.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	24.5	46.0	34.0	172.0	70.5	37.0	33.0	13.0
Merged-chr17-71195239-4	chr17	71195142	71195342	+	947.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	-9412.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	10.5	32.5	11.0	171.5	55.5	13.5	16.5	21.5
Merged-chr9-13748327-3	chr9	13748231	13748431	+	852.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023858)	promoter-TSS (NM_023858)	-850.0	NR_024025	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	5.5	21.0	9.0	156.0	10.5	4.0	10.0	9.0
Merged-chr4-47312911-3	chr4	47312814	47313014	+	907.138855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009928, exon 40 of 40)	3' UTR (NM_009928, exon 40 of 40)	-40308.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	7.5	10.5	16.0	159.5	12.5	8.0	7.0	4.0
Merged-chr14-22814850-1	chr14	22814750	22814950	+	827.0	f0_balb.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-272052.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	9.5	6.5	7.5	245.5	14.5	3.5	10.5	2.5
Merged-chr10-89708965-1	chr10	89708865	89709065	+	787.0	f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	22602.0	NR_130956	69002.0	Mm.293947	NR_130956	ENSMUSG00000097383	1500026H17Rik	-	RIKEN cDNA 1500026H17 gene	ncRNA	1.0	0.0	0.0	0.0	11.0	7.0	4.5	11.0
Merged-chr5-43854318-4	chr5	43854201	43854401	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14508.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	33.5	32.5	47.5	605.5	53.0	16.5	32.5	18.0
Merged-chr4-135256750-4	chr4	135256648	135256848	+	916.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 1 of 5)	intron (NM_013885, intron 1 of 5)	16012.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	17.0	30.0	8.0	333.0	34.5	22.0	8.0	21.0
Merged-chr11-61762116-4	chr11	61761975	61762175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164242)	promoter-TSS (NM_001164242)	13.0	NM_144806	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	94.5	157.0	64.5	849.0	257.5	93.0	70.0	69.0
Merged-chr9-108190198-2	chr9	108190098	108190298	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_007567, exon 1 of 12)	exon (NM_007567, exon 1 of 12)	185.0	NM_007567	12217.0	Mm.20425	NM_007567	ENSMUSG00000032589	Bsn	-	bassoon	protein-coding	5.5	5.5	14.0	35.5	8.5	4.0	4.0	8.5
Merged-chr13-51846607-4	chr13	51846506	51846706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011817)	promoter-TSS (NM_011817)	-69.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	166.5	301.0	185.5	2358.5	505.0	213.5	216.0	189.0
Merged-chr15-38661065-4	chr15	38660960	38661160	+	892.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025494)	promoter-TSS (NM_025494)	-844.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	10.0	21.5	8.0	189.5	20.0	11.5	14.0	15.5
Merged-chr15-31602622-4	chr15	31602551	31602751	+	840.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007637)	promoter-TSS (NM_007637)	535.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	11.0	13.0	10.5	203.5	21.0	8.5	11.0	13.0
Merged-chr1-191314104-3	chr1	191314002	191314202	+	837.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025424, intron 1 of 3)	intron (NM_025424, intron 1 of 3)	4016.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	15.5	6.5	8.5	120.5	12.5	11.0	4.5	12.5
Merged-chr8-83622411-4	chr8	83622226	83622426	+	826.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13778.0	NM_001308227	81489.0	Mm.282092	NM_018808	ENSMUSG00000005483	Dnajb1	0610007I11Rik|DjB1|HSPF1|Hdj1|Hsp40	DnaJ heat shock protein family (Hsp40) member B1	protein-coding	8.5	13.0	20.5	106.5	9.0	2.0	4.0	5.5
Merged-chr8-46163668-4	chr8	46163560	46163760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357215)	promoter-TSS (NM_001357215)	9.0	NM_025747	66756.0	Mm.133623	NM_025747	ENSMUSG00000031631	Cfap97	1110068E21Rik|4933411K20Rik|AW049273|Kiaa1430	cilia and flagella associated protein 97	protein-coding	124.0	153.0	91.5	1792.5	279.0	87.0	128.5	91.0
Merged-chr14-21280667-4	chr14	21280569	21280769	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 6 of 10)	intron (NM_134079, intron 6 of 10)	204517.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	25.5	33.0	29.0	779.0	36.0	8.5	24.0	9.5
Merged-chr8-61877790-3	chr8	61877682	61877882	+	653.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081390, exon 2 of 20)	exon (NM_001081390, exon 2 of 20)	24908.0	NM_001081390	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	4.5	11.0	4.5	101.0	3.5	0.5	8.0	5.0
Merged-chr8-70234487-4	chr8	70234300	70234500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133972)	promoter-TSS (NM_133972)	22.0	NM_133972	76813.0	Mm.383251	NM_133972	ENSMUSG00000002343	Armc6	2410153K17Rik|AW554412	armadillo repeat containing 6	protein-coding	53.5	96.0	58.0	862.0	191.0	58.5	58.5	72.5
Merged-chr13-43480411-3	chr13	43480290	43480490	+	905.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019930, intron 1 of 13)	intron (NM_019930, intron 1 of 13)	583.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	1.5	4.0	4.0	67.5	10.0	5.0	5.5	11.5
Merged-chr18-60523938-4	chr18	60523842	60524042	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2212.0	NM_026302	67665.0	Mm.272801	NM_026302	ENSMUSG00000024603	Dctn4	1110001K06Rik|4930547K17Rik|C130039E17Rik|p62	dynactin 4	protein-coding	24.0	27.0	23.5	295.5	45.5	6.0	13.5	14.5
Merged-chr16-64873561-2	chr16	64873461	64873661	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21560.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	12.5	15.0	9.5	168.5	21.0	10.5	11.5	5.5
Merged-chr9-62235814-2	chr9	62235714	62235914	+	663.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8286.0	NR_040769	330958.0	Mm.411888	NR_040769	ENSMUSG00000111232	A730043L09Rik	A730043L09	RIKEN cDNA A730043L09 gene	ncRNA	0.5	13.5	3.0	54.0	8.5	6.0	12.5	6.0
Merged-chr2-91206452-4	chr2	91206343	91206543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357067, intron 6 of 10)	intron (NM_001357067, intron 6 of 10)	3531.0	NM_007387	11432.0	Mm.45570	NM_007387	ENSMUSG00000002103	Acp2	Acp-2|LAP	acid phosphatase 2, lysosomal	protein-coding	151.0	283.5	125.5	1871.5	395.0	148.5	157.0	140.0
Merged-chr6-128604675-4	chr6	128604572	128604772	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18262.0	NM_001159902	17057.0	Mm.16729	NM_010737	ENSMUSG00000030361	Klrb1a	Ly55a|NKR-P1.7|NKR-P1A|NKRP12|Nkrp1-a|Nkrp1a|ly-55A	killer cell lectin-like receptor subfamily B member 1A	protein-coding	26.0	29.5	13.5	345.5	44.0	14.0	19.0	23.0
Merged-chr3-151424563-3	chr3	151424515	151424715	+	778.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13267.0	NM_133222	170757.0	Mm.317261	NM_133222	ENSMUSG00000039167	Adgrl4	1110033N21Rik|ETL1|Eltd1|Etl	adhesion G protein-coupled receptor L4	protein-coding	10.0	5.5	16.0	118.0	1.5	0.5	0.0	2.0
Merged-chr4-134923576-4	chr4	134923467	134923667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023665)	promoter-TSS (NM_023665)	-58.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	135.0	204.5	85.0	1307.5	340.5	175.5	156.5	140.5
Merged-chr3-108383704-4	chr3	108383579	108383779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040560)	promoter-TSS (NR_040560)	62.0	NR_040560	100038453.0	Mm.214328	NR_040560	ENSMUSG00000074281	Gm12522	-	predicted gene 12522	ncRNA	32.5	64.5	32.5	367.0	39.0	30.0	27.5	22.5
Merged-chr10-20915833-4	chr10	20915743	20915943	+	959.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36704.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	6.5	20.0	17.0	244.0	38.0	14.5	19.5	23.0
Merged-chr4-33247777-4	chr4	33247652	33247852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033225, intron 1 of 1)	CpG	1035.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	414.0	637.0	388.0	6337.5	1026.5	432.5	566.5	482.5
Merged-chr12-84217159-3	chr12	84217047	84217247	+	787.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	1734.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	9.5	9.0	7.0	152.0	13.0	4.5	7.0	7.0
Merged-chr15-38289719-4	chr15	38289593	38289793	+	819.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10207.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	8.5	8.5	6.5	125.5	26.5	14.0	7.5	8.5
Merged-chr2-102987129-4	chr2	102987041	102987241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85476.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	85.0	138.0	100.0	911.0	141.5	57.0	47.5	32.5
Merged-chr18-59175214-4	chr18	59175130	59175330	+	909.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081328)	promoter-TSS (NM_001081328)	-110.0	NM_001081328	78923.0	Mm.84007	NM_001081328	ENSMUSG00000058152	Chsy3	4833446K15Rik|AI662215	chondroitin sulfate synthase 3	protein-coding	9.5	50.5	20.0	412.5	20.0	7.0	9.5	14.5
Merged-chr14-30746483-3	chr14	30746419	30746619	+	997.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166531, intron 2 of 21)	intron (NM_001166531, intron 2 of 21)	30904.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	13.5	7.5	23.5	268.0	17.0	4.0	4.0	12.0
Merged-chr3-30977341-4	chr3	30977250	30977450	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7935.0	NM_001165956	241915.0	Mm.233173	NM_153421	ENSMUSG00000037652	Phc3	E030046K01Rik|Edr3|Hph3	polyhomeotic 3	protein-coding	19.0	43.0	20.5	394.5	48.0	18.5	27.5	20.0
Merged-chr13-110627828-4	chr13	110627732	110627932	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	232788.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	41.0	36.0	52.5	787.5	35.5	15.5	27.5	36.5
Merged-chr8-40584820-4	chr8	40584727	40584927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040699, intron 6 of 13)	intron (NM_001040699, intron 6 of 13)	49965.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	50.0	87.0	73.0	1247.5	225.0	56.5	84.5	87.0
Merged-chr2-120137617-4	chr2	120137486	120137686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 1 of 5)	intron (NM_133838, intron 1 of 5)	16989.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	40.0	52.0	24.0	471.5	79.0	25.5	39.0	36.5
Merged-chr4-129577283-2	chr4	129577183	129577383	+	860.4166869999999	f1_balb.idr|f1_c57bl6.idr	exon (NM_182783, exon 2 of 2)	exon (NM_182783, exon 2 of 2)	1297.0	NM_182783	230766.0	Mm.20377	NM_182783	ENSMUSG00000050493	Fam167b	SEC	family with sequence similarity 167, member B	protein-coding	8.5	4.5	4.5	72.5	21.5	5.0	2.0	9.0
Merged-chr19-12472117-4	chr19	12472016	12472216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172442, intron 8 of 8)	intron (NM_172442, intron 8 of 8)	11337.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	67.5	72.5	105.0	1120.0	85.5	22.0	27.5	40.0
Merged-chr5-5367122-4	chr5	5366967	5367167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	13184.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	5.0	4.0	6.0	34.5	111.0	36.0	43.0	81.5
Merged-chr12-32001853-1	chr12	32001753	32001953	+	554.0	f0_balb.idr	intron (NM_011158, intron 2 of 10)	intron (NM_011158, intron 2 of 10)	-51608.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	0.0	0.0	6.0	46.0	5.5	5.5	6.5	7.0
Merged-chr1-91455563-1	chr1	91455463	91455663	+	708.0	f0_c57.idr	intron (NM_011066, intron 1 of 22)	intron (NM_011066, intron 1 of 22)	3765.0	NM_011066	18627.0	Mm.482463	NM_011066	ENSMUSG00000055866	Per2	mKIAA0347|mPer2	period circadian clock 2	protein-coding	3.0	5.5	14.5	166.5	18.5	4.5	12.0	12.5
Merged-chr1-123934526-4	chr1	123934418	123934618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199021, intron 1 of 25)	intron (NM_199021, intron 1 of 25)	111041.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	120.5	180.5	162.0	2731.5	373.0	142.5	152.5	115.5
Merged-chr13-67082256-4	chr13	67082160	67082360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012448)	promoter-TSS (NM_001012448)	-715.0	NM_001292066	432769.0	Mm.458849	NM_001012325	ENSMUSG00000058883	Zfp708	Rslcan11	zinc finger protein 708	protein-coding	27.5	42.0	27.5	375.5	73.5	24.0	31.5	30.0
Merged-chr17-65730123-4	chr17	65730026	65730226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	42626.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	64.0	139.5	87.0	1582.0	294.5	95.5	134.0	118.5
Merged-chr3-146100167-3	chr3	146100065	146100265	+	775.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172864, intron 3 of 22)	MTEb|LTR|ERVL-MaLR	7871.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	14.5	15.5	18.0	295.5	2.0	1.0	2.0	3.0
Merged-chr2-34646456-4	chr2	34646360	34646560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	108772.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	33.0	49.5	22.0	338.5	61.0	27.5	33.0	23.0
Merged-chr7-78911648-2	chr7	78911548	78911748	+	863.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001162939)	TTS (NM_001162939)	-1776.0	NM_001291221	57444.0	Mm.322843	NM_020583	ENSMUSG00000039236	Isg20	1600023I01Rik|2010107M23Rik|20kDa|DnaQL|HEM45	interferon-stimulated protein	protein-coding	3.0	5.5	1.5	84.5	11.5	4.5	7.0	5.0
Merged-chr4-149780775-4	chr4	149780681	149780881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD|LINE|L1	-6514.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	165.5	222.5	116.5	1845.0	312.5	124.0	114.0	131.0
Merged-chr15-91168201-7	chr15	91168096	91168296	+	900.9761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 6 of 9)	intron (NM_011994, intron 6 of 9)	23811.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	7.5	7.0	14.0	81.0	24.5	6.5	2.5	9.0
Merged-chr2-10142859-1	chr2	10142759	10142959	+	979.0	f0_balb.idr	Intergenic	Intergenic	-10684.0	NM_172471	209378.0	Mm.313876	NM_172471	ENSMUSG00000025780	Itih5	4631408O11Rik|5430408M01Rik|E130106B02	inter-alpha (globulin) inhibitor H5	protein-coding	5.0	7.0	13.0	172.5	15.5	2.0	3.0	10.0
Merged-chr8-110217863-4	chr8	110217749	110217949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146215)	promoter-TSS (NM_146215)	-111.0	NM_146215	234728.0	Mm.275341	NM_146215	ENSMUSG00000046441	Cmtr2	AU022703|C730036L12Rik|Ftsjd1|MTr2	cap methyltransferase 2	protein-coding	235.5	335.0	202.0	3039.0	622.0	179.0	289.5	220.5
Merged-chr9-57879384-4	chr9	57879299	57879499	+	926.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31587.0	NM_027086	69459.0	Mm.41735	NM_027086	ENSMUSG00000055720	Ubl7	2300004C15Rik	ubiquitin-like 7 (bone marrow stromal cell-derived)	protein-coding	12.0	13.0	20.5	202.5	73.0	20.0	14.5	20.0
Merged-chr1-155065965-4	chr1	155065848	155066048	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 3 of 6)	intron (NR_151545, intron 3 of 6)	17316.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	21.0	33.0	17.0	449.0	56.5	12.0	29.5	27.0
Merged-chr7-144971193-4	chr7	144971102	144971302	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31277.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	19.0	8.0	16.5	223.0	25.5	19.5	14.0	7.0
Merged-chr3-79088650-4	chr3	79088548	79088748	+	864.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310536, exon 12 of 24)	exon (NM_001310536, exon 12 of 24)	56239.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	10.0	16.0	12.5	172.0	22.5	0.0	11.0	6.5
Merged-chr16-4587827-3	chr16	4587720	4587920	+	689.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6893.0	NM_031184	83396.0	Mm.134072	NM_031184	ENSMUSG00000014303	Glis2	Gli5|Klf16|Nkl	GLIS family zinc finger 2	protein-coding	7.5	14.0	11.5	70.5	8.5	6.0	3.0	8.5
Merged-chr6-38940804-2	chr6	38940704	38940904	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	intron (NM_011539, intron 1 of 12)	21818.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	9.0	5.5	5.0	152.0	14.0	10.5	6.0	7.5
Merged-chr7-107599635-1	chr7	107599535	107599735	+	543.0	f0_balb.idr	intron (NM_008905, intron 1 of 24)	intron (NM_008905, intron 1 of 24)	4584.0	NM_008905	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	6.0	12.0	8.0	72.0	9.5	7.0	1.0	5.5
Merged-chr14-32201944-4	chr14	32201836	32202036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016897)	promoter-TSS (NM_016897)	-35.0	NM_001359915	26430.0	Mm.15962	NM_011960	ENSMUSG00000021911	Parg	AI413217	poly (ADP-ribose) glycohydrolase	protein-coding	62.5	81.0	35.0	457.5	160.5	44.0	58.0	74.0
Merged-chr16-34114882-4	chr16	34114813	34115013	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 34 of 59)	intron (NM_177357, intron 34 of 59)	-147875.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	13.5	10.5	6.5	160.0	27.5	11.0	3.5	9.5
Merged-chr12-17658610-4	chr12	17658504	17658704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32205.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	71.0	153.5	140.0	715.5	110.5	27.0	40.5	20.5
Merged-chr5-136151730-4	chr5	136151636	136151836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178751, intron 2 of 2)	intron (NM_178751, intron 2 of 2)	12955.0	NM_028070	72041.0	Mm.294725	NM_028070	ENSMUSG00000039754	Alkbh4	2010004B12Rik|Abj4	alkB homolog 4, lysine demethylase	protein-coding	28.0	83.0	43.0	523.5	60.0	31.0	34.0	34.0
Merged-chr17-5800569-4	chr17	5800482	5800682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045080, intron 1 of 1)	intron (NR_045080, intron 1 of 1)	1092.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	19.5	55.5	33.5	949.0	83.0	33.0	47.0	50.5
Merged-chr12-11178973-3	chr12	11178934	11179134	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25468.0	NR_131084	77442.0	Mm.159922	NR_131083	ENSMUSG00000112041	9530020I12Rik	-	RIKEN cDNA 9530020I12 gene	ncRNA	23.5	29.5	11.0	344.5	8.0	2.0	10.5	3.0
Merged-chr1-59584858-4	chr1	59584763	59584963	+	685.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 12 of 19)	intron (NM_001013771, intron 12 of 19)	60569.0	NM_001357842	381260.0	Mm.486706	NM_001013771	ENSMUSG00000047361	Gm973	AW554518	predicted gene 973	protein-coding	10.0	13.0	13.0	127.0	23.0	4.5	13.0	6.0
Merged-chr15-58734770-3	chr15	58734655	58734855	+	774.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	88672.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	8.0	11.5	6.5	123.0	15.0	3.0	2.0	9.0
Merged-chr7-88255069-4	chr7	88254981	88255181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-23004.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	50.0	74.0	78.5	733.5	99.5	32.5	57.5	22.5
Merged-chr17-71684420-4	chr17	71684342	71684542	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177087, intron 1 of 19)	intron (NM_177087, intron 1 of 19)	11181.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	27.0	68.5	31.5	391.5	51.5	26.5	28.0	16.0
Merged-chr12-73594622-4	chr12	73594538	73594738	+	792.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	9842.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	10.5	20.0	27.5	229.0	25.0	14.5	11.5	7.5
Merged-chr3-10331302-4	chr3	10331202	10331402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001010834)	TTS (NM_001010834)	137.0	NM_001310433	55980.0	Mm.183042	NM_018864	ENSMUSG00000027531	Impa1	2610002K09Rik|2900059K10Rik|AI325909	inositol (myo)-1(or 4)-monophosphatase 1	protein-coding	72.5	105.0	145.5	1333.5	127.0	51.5	47.0	70.5
Merged-chr5-134214593-4	chr5	134214494	134214694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359852, intron 13 of 14)	intron (NM_001359852, intron 13 of 14)	15031.0	NM_001286037	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	49.5	58.0	47.5	595.0	62.0	19.5	40.0	22.5
Merged-chr4-151981536-4	chr4	151981440	151981640	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172704, exon 16 of 16)	3' UTR (NM_172704, exon 16 of 16)	7446.0	NM_175152	69876.0	Mm.226820	NM_175152	ENSMUSG00000039759	Thap3	2010013E08Rik|2210418H06Rik	THAP domain containing, apoptosis associated protein 3	protein-coding	18.0	23.0	15.0	210.5	50.0	9.5	20.0	16.5
Merged-chr11-109471496-3	chr11	109471420	109471620	+	880.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029842, intron 1 of 5)	intron (NM_001029842, intron 1 of 5)	1709.0	NM_134038	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	6.5	4.5	5.5	75.0	6.0	3.5	1.5	6.5
Merged-chr5-63942299-3	chr5	63942197	63942397	+	802.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	intron (NM_145923, intron 1 of 6)	26600.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	8.5	4.5	6.5	164.0	15.0	0.5	4.5	9.5
Merged-chr16-64754906-2	chr16	64754806	64755006	+	788.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16033.0	NM_026273	67609.0	Mm.212157	NM_026273	ENSMUSG00000059920	4930453N24Rik	AI649104|din	RIKEN cDNA 4930453N24 gene	protein-coding	4.5	7.5	0.0	54.5	10.0	5.5	7.0	7.0
Merged-chr14-33857171-4	chr14	33857037	33857237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-45854.0	NR_131113	218902.0	Mm.107791	NR_131113	ENSMUSG00000115751	4930503F20Rik	4930453C15	RIKEN cDNA 4930503F20 gene	ncRNA	29.5	34.0	18.5	647.5	54.0	22.0	26.0	21.5
Merged-chr2-26327991-2	chr2	26327891	26328091	+	661.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355575, intron 9 of 13)	ORR1C2|LTR|ERVL-MaLR	8221.0	NM_001199147	67839.0	Mm.266611	NM_153410	ENSMUSG00000026930	Gpsm1	1810037C22Rik|AW107933|Ags3	G-protein signalling modulator 1 (AGS3-like, C. elegans)	protein-coding	4.5	14.5	5.0	25.0	6.5	15.0	3.0	1.0
Merged-chr6-59180585-4	chr6	59180478	59180678	+	944.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28292.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	14.5	23.0	12.5	238.0	34.0	7.5	23.0	11.0
Merged-chr10-42637404-4	chr10	42637304	42637504	+	761.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41512.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	12.0	12.5	5.0	160.0	36.0	8.0	6.0	15.0
Merged-chr9-107909047-3	chr9	107908958	107909158	+	650.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_109782, intron 1 of 18)	intron (NR_109782, intron 1 of 18)	2169.0	NM_009074	19882.0	Mm.3901	NM_009074	ENSMUSG00000032584	Mst1r	CD136|CDw136|Fv-2|Fv2|PTK8|Ron|STK	macrophage stimulating 1 receptor (c-met-related tyrosine kinase)	protein-coding	3.0	3.5	1.5	43.5	25.0	7.5	9.5	4.5
Merged-chr11-115631675-4	chr11	115631582	115631782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3387.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	18.5	38.5	26.0	184.5	81.5	16.5	19.5	19.0
Merged-chr3-55354917-4	chr3	55354778	55354978	+	814.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 3 of 16)	intron (NM_001357475, intron 3 of 16)	-106850.0	NM_001195539	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	5.0	5.5	7.0	78.5	21.0	6.0	7.0	13.0
Merged-chr11-79142202-4	chr11	79142116	79142316	+	885.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	4257.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	13.0	18.5	17.5	161.5	34.0	10.0	13.0	12.0
Merged-chr6-51586155-2	chr6	51586055	51586255	+	956.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 5 of 6)	intron (NM_001361577, intron 5 of 6)	40862.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	3.5	8.0	5.5	94.0	26.5	7.0	6.0	6.5
Merged-chr14-99899718-2	chr14	99899618	99899818	+	947.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010636, intron 6 of 6)	intron (NM_010636, intron 6 of 6)	250078.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	6.0	7.5	4.0	103.5	27.5	8.0	13.5	6.5
Merged-chr7-74647527-4	chr7	74647410	74647610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92730.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	45.0	41.0	31.0	440.5	254.0	86.0	68.0	66.5
Merged-chr9-106299455-4	chr9	106299340	106299540	+	898.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 7 of 10)	PB1D10|SINE|Alu	18379.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	11.0	28.5	5.0	131.5	38.5	7.5	9.0	8.5
Merged-chr2-128698858-4	chr2	128698754	128698954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008587)	promoter-TSS (NM_008587)	-61.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	86.0	83.0	94.5	1592.5	154.0	65.0	83.0	58.0
Merged-chr19-34234109-4	chr19	34234003	34234203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360716, exon 6 of 11)	exon (NM_001360716, exon 6 of 11)	1478.0	NM_001360720	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	23.5	26.0	30.0	746.5	87.0	18.5	42.0	31.5
Merged-chr6-83326138-4	chr6	83326101	83326301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145571, exon 1 of 6)	5' UTR (NM_145571, exon 1 of 6)	162.0	NM_145571	232157.0	Mm.29500	NM_145571	ENSMUSG00000043131	Mob1a	4022402H07Rik|MOB1|MOB4B|Mobk1b|Mobkl1b	MOB kinase activator 1A	protein-coding	85.0	118.0	144.0	1024.5	123.5	53.5	42.0	79.5
Merged-chr13-23575748-4	chr13	23575640	23575840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178204)	promoter-TSS (NM_178204)	-23.0	NM_178204	319149.0	Mm.347699	NM_178204	ENSMUSG00000099583	Hist1h3d	H3-b	histone cluster 1, H3d	protein-coding	87.5	159.0	96.0	1489.5	236.5	111.0	143.5	138.5
Merged-chr11-50107405-6	chr11	50107239	50107439	+	859.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 7 of 7)	intron (NM_001290750, intron 7 of 7)	-24021.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	6.0	9.0	7.0	168.0	18.0	3.0	4.0	7.5
Merged-chr3-113630100-4	chr3	113629920	113630120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026043, exon 1 of 15)	exon (NM_026043, exon 1 of 15)	129.0	NM_001287015	67225.0	Mm.316928	NM_026043	ENSMUSG00000027981	Rnpc3	2810441O16Rik|AI447568|C030014B17Rik	RNA-binding region (RNP1, RRM) containing 3	protein-coding	127.0	222.0	213.0	2226.5	291.0	124.5	126.0	144.5
Merged-chr5-151070006-4	chr5	151069914	151070114	+	949.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359985, intron 3 of 12)	intron (NM_001359985, intron 3 of 12)	117407.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	20.5	28.0	7.5	276.5	32.0	10.0	19.5	23.0
Merged-chr7-143207266-2	chr7	143207166	143207366	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008434, intron 10 of 15)	L1ME1|LINE|L1	89281.0	NR_001461	63830.0	Mm.356096	NR_001461	ENSMUSG00000101609	Kcnq1ot1	Kvlqt1-as|Lit1|Tssc8	KCNQ1 overlapping transcript 1	ncRNA	0.5	14.0	2.0	60.0	14.0	7.5	8.5	6.0
Merged-chr9-107744317-4	chr9	107744225	107744425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_148930, exon 21 of 25)	exon (NM_148930, exon 21 of 25)	26677.0	NM_148930	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	124.0	300.0	116.0	1342.5	277.5	126.0	108.0	62.5
Merged-chr4-138913986-4	chr4	138913877	138914077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028453)	promoter-TSS (NM_028453)	-30.0	NM_028453	73162.0	Mm.238081	NM_028453	ENSMUSG00000041161	Otud3	3110030K17Rik	OTU domain containing 3	protein-coding	53.0	69.0	32.5	670.0	295.5	114.0	112.0	116.0
Merged-chr13-62964801-4	chr13	62964677	62964877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289924)	promoter-TSS (NM_001289924)	-116.0	NM_001289926	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	99.5	95.0	73.0	1194.5	198.5	67.0	93.5	91.0
Merged-chr15-100153247-4	chr15	100153183	100153383	+	957.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 5 of 37)	intron (NM_001159361, intron 5 of 37)	-1113.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	16.5	12.5	15.5	378.0	36.0	13.5	16.0	12.5
Merged-chr8-72586223-1	chr8	72586123	72586323	+	1000.0	f1_c57bl6.idr	non-coding (NR_151663, exon 3 of 3)	non-coding (NR_151663, exon 3 of 3)	14400.0	NM_001357279	74166.0	Mm.212927	NM_144534	ENSMUSG00000031791	Tmem38a	1110001E17Rik|AI413399|SPR-27|TRIC-A|mg33a	transmembrane protein 38A	protein-coding	0.5	5.5	4.5	14.0	30.0	4.5	5.5	6.5
Merged-chr9-40730887-3	chr9	40730759	40730959	+	943.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	44895.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	8.5	13.0	22.5	197.0	11.5	4.0	2.0	3.5
Merged-chr18-63864458-3	chr18	63864354	63864554	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014981, intron 20 of 27)	intron (NM_001014981, intron 20 of 27)	155759.0	NM_001014981	104082.0	Mm.30850	NM_001014981	ENSMUSG00000040560	Wdr7	AI462727|TRAG|mKIAA0541	WD repeat domain 7	protein-coding	8.0	6.0	14.0	192.5	3.5	3.0	6.0	4.5
Merged-chr13-3825877-4	chr13	3825772	3825972	+	792.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11885.0	NM_020036	80796.0	Mm.21075	NM_020036	ENSMUSG00000033765	Calm4	2310037J09Rik|AI649108|DD112|Scarf	calmodulin 4	protein-coding	17.5	12.0	18.5	273.0	18.5	10.5	13.5	9.5
Merged-chr2-166701355-2	chr2	166701255	166701455	+	780.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	12477.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	5.0	8.0	4.5	34.0	17.5	3.5	4.0	6.5
Merged-chr1-148821739-4	chr1	148821631	148821831	+	870.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1100708.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	2.5	1.0	11.0	155.0	23.0	10.0	20.5	11.0
Merged-chr7-141308830-4	chr7	141308709	141308909	+	968.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016874, intron 10 of 11)	intron (NM_016874, intron 10 of 11)	16803.0	NM_007878	13491.0	Mm.41075	NM_007878	ENSMUSG00000025496	Drd4	AW125663|D4R|Drd-4	dopamine receptor D4	protein-coding	23.0	30.5	26.5	313.0	41.5	25.5	16.0	36.0
Merged-chr5-146906001-3	chr5	146905906	146906106	+	712.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42651.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	3.0	11.5	8.0	76.5	8.5	4.5	7.0	11.5
Merged-chr18-82692333-4	chr18	82692259	82692459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177832, intron 1 of 29)	CpG	375.0	NM_177832	329002.0	Mm.34438	NM_177832	ENSMUSG00000041258	Zfp236	AI447957|Gm335	zinc finger protein 236	protein-coding	38.0	68.5	61.5	516.5	94.5	45.5	36.5	38.5
Merged-chr1-171044729-5	chr1	171044640	171044840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14654.0	NM_001356511	14131.0	Mm.22119	NM_010188	ENSMUSG00000059498	Fcgr3	CD16	Fc receptor, IgG, low affinity III	protein-coding	21.5	39.0	26.0	408.5	88.5	33.0	37.5	44.5
Merged-chr11-107402384-4	chr11	107402292	107402492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	68328.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	42.0	39.0	44.0	690.0	55.0	9.0	34.0	15.5
Merged-chr5-64396391-3	chr5	64396277	64396477	+	644.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	71565.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	11.0	11.5	8.0	109.0	10.0	0.0	3.5	1.5
Merged-chr9-59656411-4	chr9	59656298	59656498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011099)	promoter-TSS (NM_011099)	30.0	NM_011099	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	98.5	159.5	38.0	1005.5	264.0	119.5	69.5	71.0
Merged-chr8-116268882-4	chr8	116268795	116268995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-236120.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	26.0	28.0	32.5	492.5	85.5	22.0	48.5	20.0
Merged-chr7-133050820-4	chr7	133050716	133050916	+	860.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	31044.0	NM_001347623	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	15.5	17.5	9.5	266.5	35.5	9.0	6.5	6.5
Merged-chr4-141031930-4	chr4	141031832	141032032	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145958, intron 19 of 35)	intron (NM_001145958, intron 19 of 35)	21295.0	NM_008546	17150.0	Mm.7386	NM_008546	ENSMUSG00000060572	Mfap2	AI893631|Magp|Magp1	microfibrillar-associated protein 2	protein-coding	11.5	36.0	12.0	240.0	50.0	20.0	21.5	19.5
Merged-chr3-37837520-3	chr3	37837427	37837627	+	709.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61286.0	NR_040559	626410.0	Mm.389417	NR_040559	ENSMUSG00000106461	Gm20755	-	predicted gene, 20755	ncRNA	10.5	10.0	10.0	113.5	12.5	7.5	18.5	4.5
Merged-chr4-134372540-4	chr4	134372400	134372600	+	808.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019578)	promoter-TSS (NM_019578)	47.0	NM_001355493	56219.0	Mm.30978	NM_019578	ENSMUSG00000028838	Extl1	D430033M16Rik	exostoses (multiple)-like 1	protein-coding	12.5	9.5	15.0	113.5	6.0	8.5	6.0	11.5
Merged-chr10-99266142-5	chr10	99266119	99266319	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026268, exon 3 of 3)	exon (NM_026268, exon 3 of 3)	2988.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	16.0	21.0	17.5	265.5	21.0	18.5	14.5	12.5
Merged-chr8-117054913-2	chr8	117054813	117055013	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_029686, exon 14 of 43)	exon (NM_029686, exon 14 of 43)	27536.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	9.5	9.5	12.5	259.0	36.5	7.5	16.5	15.0
Merged-chr11-98963402-2	chr11	98963302	98963502	+	751.799988	f1_balb.idr|f1_c57bl6.idr	intron (NM_001176528, intron 1 of 7)	intron (NM_001176528, intron 1 of 7)	-1470.0	NM_001361954	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	3.5	4.5	6.5	44.0	14.5	4.5	6.0	15.0
Merged-chr5-141004421-7	chr5	141004322	141004522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3826.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	33.5	60.0	59.0	589.0	92.5	25.0	31.5	48.5
Merged-chr7-46607904-4	chr7	46607805	46608005	+	979.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013789, intron 8 of 10)	intron (NM_013789, intron 8 of 10)	31902.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	31.0	47.0	28.5	719.0	52.5	10.0	26.5	29.0
Merged-chr5-147957222-4	chr5	147957121	147957321	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029920)	promoter-TSS (NM_029920)	-99.0	NM_001359503	77521.0	Mm.244177	NM_029920	ENSMUSG00000029651	Mtus2	5730592G18Rik|A730013O20Rik|AU067634|C130038G02Rik|Cazip|Gm763|mKIAA0774	microtubule associated tumor suppressor candidate 2	protein-coding	23.5	30.5	20.5	292.5	75.0	15.5	32.0	30.0
Merged-chr16-17070157-4	chr16	17070049	17070249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291053)	promoter-TSS (NM_001291053)	10.0	NM_001291047	106369.0	Mm.237941	NM_023249	ENSMUSG00000022773	Ypel1	0610009L05Rik|1700016N17Rik|1700019O22Rik|4921520K19Rik|4930511F14Rik|AV118478|DGL-1|Dgl1|Ppil2|mdgl-1	yippee like 1	protein-coding	50.5	58.0	45.0	874.5	71.0	30.0	38.0	28.5
Merged-chr11-116093867-4	chr11	116093764	116093964	+	973.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6869.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	21.5	65.0	10.5	353.0	87.0	34.5	39.5	31.5
Merged-chr8-111642736-5	chr8	111642675	111642875	+	906.3800050000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011742)	promoter-TSS (NM_011742)	-668.0	NM_001037665	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	18.5	19.0	13.0	182.0	36.5	22.5	15.5	7.0
Merged-chr7-42505770-4	chr7	42505649	42505849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309388)	promoter-TSS (NM_001309388)	4.0	NM_001309389	434178.0	Mm.333810	NM_001309388	ENSMUSG00000092416	Zfp141	-	zinc finger protein 141	protein-coding	107.5	185.5	100.0	1188.5	340.5	129.5	142.5	136.5
Merged-chr10-110932006-4	chr10	110931904	110932104	+	683.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007792, exon 2 of 6)	exon (NM_007792, exon 2 of 6)	11828.0	NM_007792	13008.0	Mm.2020	NM_007792	ENSMUSG00000020186	Csrp2	AW551867|Crp2|SmLim	cysteine and glycine-rich protein 2	protein-coding	14.0	9.5	14.0	247.0	22.0	7.5	13.5	6.5
Merged-chr10-128923107-4	chr10	128923004	128923204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015740, intron 1 of 3)	CpG	420.0	NM_015740	14533.0	Mm.30118	NM_015740	ENSMUSG00000090247	Bloc1s1	AI839753|BLOS1|Gcn5l1	biogenesis of lysosomal organelles complex-1, subunit 1	protein-coding	101.5	189.5	91.5	1798.0	269.5	103.0	131.0	124.5
Merged-chr8-120490934-3	chr8	120490833	120491033	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	intron (NM_198671, intron 1 of 15)	2067.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	11.5	14.5	7.0	88.5	39.5	3.5	6.0	8.0
Merged-chr11-75651942-4	chr11	75651845	75652045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080774)	promoter-TSS (NM_001080774)	-205.0	NM_001080774	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	29.0	37.0	11.0	396.5	78.5	28.5	41.0	20.0
Merged-chr3-145905767-3	chr3	145905663	145905863	+	733.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18499.0	NM_009740	12042.0	Mm.239141	NM_009740	ENSMUSG00000028191	Bcl10	AI132454|BCL-10|C81403|CARMEN|CIPER|CLAP|ME10|cE10	B cell leukemia/lymphoma 10	protein-coding	6.5	5.5	7.0	153.0	6.0	5.0	3.0	3.5
Merged-chr5-24842088-3	chr5	24842008	24842208	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053075, intron 1 of 7)	CpG	253.0	NM_053075	19744.0	Mm.319175	NM_053075	ENSMUSG00000028945	Rheb	Rheb1	Ras homolog enriched in brain	protein-coding	22.0	18.5	19.5	286.0	71.5	38.0	20.0	40.0
Merged-chr8-46893142-4	chr8	46893066	46893266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A|LTR|ERVL	-93721.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	100.5	188.0	140.5	1524.0	283.5	107.5	145.0	100.0
Merged-chr18-53250872-4	chr18	53250775	53250975	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	5213.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	28.0	22.0	10.0	393.5	52.5	13.0	23.5	26.5
Merged-chr7-100663403-4	chr7	100663270	100663470	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013746)	promoter-TSS (NM_013746)	-976.0	NM_001163182	27276.0	Mm.491216	NM_013746	ENSMUSG00000030701	Plekhb1	AI315628|PHR1|Phret1|evt-1	pleckstrin homology domain containing, family B (evectins) member 1	protein-coding	20.0	41.5	16.5	265.0	36.5	14.5	25.0	26.0
Merged-chr10-60388541-4	chr10	60388451	60388651	+	974.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 30 of 68)	intron (NM_001252635, intron 30 of 68)	-11175.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	15.5	32.0	17.0	443.0	32.5	4.0	13.5	17.0
Merged-chr13-89883772-3	chr13	89883688	89883888	+	843.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 7 of 7)	intron (NM_028012, intron 7 of 7)	-141276.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	12.5	13.0	23.5	164.0	22.0	12.0	9.0	8.0
Merged-chr7-29128982-4	chr7	29128859	29129059	+	843.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-3808.0	NM_009109	20190.0	Mm.439745	NM_009109	ENSMUSG00000030592	Ryr1	AI528790|RYR-1|Ryr|skrr	ryanodine receptor 1, skeletal muscle	protein-coding	14.5	7.5	12.0	161.0	21.0	8.0	13.5	14.5
Merged-chr14-46734960-4	chr14	46734871	46735071	+	786.424988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25570.0	NM_001360041	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	7.0	17.0	12.5	262.0	38.0	5.5	15.0	9.0
Merged-chr12-69157636-4	chr12	69157526	69157726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009093)	TTS (NM_009093)	1560.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	34.0	35.5	60.5	703.0	75.5	25.5	43.0	39.5
Merged-chr8-47989929-2	chr8	47989829	47990029	+	917.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 1 of 22)	CpG	622.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	11.5	3.5	19.0	235.0	13.5	10.5	8.0	14.0
Merged-chr3-113630903-4	chr3	113630819	113631019	+	757.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026043)	promoter-TSS (NM_026043)	-770.0	NM_001038696	67225.0	Mm.316928	NM_026043	ENSMUSG00000027981	Rnpc3	2810441O16Rik|AI447568|C030014B17Rik	RNA-binding region (RNP1, RRM) containing 3	protein-coding	3.0	7.0	5.0	177.5	17.5	8.5	5.0	9.5
Merged-chr4-43479698-4	chr4	43479581	43479781	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4028.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	19.5	12.5	7.0	213.0	76.5	20.0	14.0	12.0
Merged-chr10-16658709-3	chr10	16658613	16658813	+	857.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	437069.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	0.0	0.5	0.0	12.0	23.0	11.0	16.5	8.0
Merged-chr15-67899569-4	chr15	67899504	67899704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	359252.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	38.5	63.0	35.0	386.5	84.0	44.0	22.5	30.5
Merged-chr3-79491842-4	chr3	79491747	79491947	+	956.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 10 of 16)	intron (NM_001162999, intron 10 of 16)	75832.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	68.0	57.5	91.0	1667.0	38.5	17.5	42.5	39.5
Merged-chr6-135087935-3	chr6	135087871	135088071	+	768.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22309.0	NM_181444	232431.0	Mm.23575	NM_181444	ENSMUSG00000046733	Gprc5a	Rai3|Raig1	G protein-coupled receptor, family C, group 5, member A	protein-coding	1.0	6.0	3.5	43.5	8.5	4.5	14.0	8.5
Merged-chr4-109143602-3	chr4	109143505	109143705	+	885.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346502, intron 3 of 23)	intron (NM_001346502, intron 3 of 23)	-5692.0	NM_001355190	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	10.5	19.0	19.0	365.0	6.0	6.0	3.5	3.5
Merged-chr16-76380373-4	chr16	76380267	76380467	+	896.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-6540.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	13.5	15.5	6.5	131.5	34.0	12.0	14.0	7.5
Merged-chr3-84772065-4	chr3	84771962	84772162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43515.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	99.0	152.0	121.0	1091.0	206.0	82.0	101.5	74.0
Merged-chr4-131910770-4	chr4	131910677	131910877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102393, intron 3 of 4)	RMER15-int|LTR|ERVL	9252.0	NR_102394	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	124.5	126.5	145.0	2027.0	272.5	72.0	78.0	81.5
Merged-chr17-36162540-4	chr17	36162437	36162637	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033517)	TTS (NR_033517)	6000.0	NM_001081032	667977.0	Mm.441651	NM_001081032	ENSMUSG00000073402	Gm8909	EG667977|H2-Tw5l|H2-gs17	predicted gene 8909	protein-coding	1.0	11.0	3.0	134.0	28.5	4.5	14.5	7.5
Merged-chr9-122138864-4	chr9	122138753	122138953	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357775, intron 4 of 7)	L1M5|LINE|L1	21394.0	NM_001357776	20623.0	Mm.257989	NM_133741	ENSMUSG00000038145	Snrk	2010012F07Rik|AI448042|AW547029|E030034B15|R74830|mKIAA0096	SNF related kinase	protein-coding	42.0	37.0	22.0	331.0	36.0	18.5	12.0	30.5
Merged-chr6-86823977-2	chr6	86823877	86824077	+	826.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25463.0	NR_028298	67170.0	Mm.119489	NR_028298	ENSMUSG00000100164	2610306M01Rik	-	RIKEN cDNA 2610306M01 gene	ncRNA	4.5	5.0	7.0	186.5	8.0	2.0	7.5	21.0
Merged-chr11-46062041-4	chr11	46061945	46062145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291890, intron 2 of 22)	intron (NM_001291890, intron 2 of 22)	6061.0	NM_001291891	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	55.0	80.0	49.0	743.5	151.0	55.0	61.5	60.0
Merged-chr4-53440869-3	chr4	53440774	53440974	+	981.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133891, intron 1 of 15)	CpG	461.0	NM_133891	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	25.5	14.5	7.5	177.0	21.0	12.0	6.5	14.0
Merged-chr2-129387686-4	chr2	129387593	129387793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16554.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	45.0	94.5	40.0	335.5	130.0	55.5	55.5	26.0
Merged-chr7-122459803-4	chr7	122459746	122459946	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 5 of 16)	intron (NM_001316672, intron 5 of 16)	170721.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	10.5	28.5	5.0	227.5	52.5	9.5	15.0	6.5
Merged-chr2-61579581-4	chr2	61579480	61579680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011529, intron 1 of 7)	intron (NM_011529, intron 1 of 7)	994.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	65.5	109.5	56.5	1036.5	232.0	62.0	80.0	63.5
Merged-chr11-50025644-3	chr11	50025584	50025784	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 1 of 7)	CpG	353.0	NM_001290750	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	8.5	6.5	33.0	162.0	30.5	13.0	12.0	24.5
Merged-chr2-170153025-3	chr2	170152929	170153129	+	704.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-10354.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	4.5	13.5	10.5	81.5	11.5	6.0	3.5	11.0
Merged-chr1-30873120-3	chr1	30873019	30873219	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9863.0	NM_001081080	213109.0	Mm.194486	NM_025871	ENSMUSG00000048874	Phf3	2310061N19Rik	PHD finger protein 3	protein-coding	33.5	46.5	43.0	614.5	74.5	38.0	43.5	49.5
Merged-chr7-139233902-4	chr7	139233790	139233990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027164, intron 8 of 10)	intron (NM_027164, intron 8 of 10)	-14592.0	NM_001033206	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	56.0	73.0	53.0	821.5	102.0	28.0	54.0	27.0
Merged-chr17-86972506-2	chr17	86972406	86972606	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	9395.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	1.0	3.0	3.5	52.5	16.5	5.5	4.5	6.5
Merged-chr9-25482577-4	chr9	25482489	25482689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026189, exon 2 of 8)	exon (NM_026189, exon 2 of 8)	992.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	88.0	65.0	88.0	1611.0	140.0	35.5	97.5	44.0
Merged-chr1-128106559-2	chr1	128106459	128106659	+	842.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_181750, intron 1 of 26)	intron (NM_181750, intron 1 of 26)	3253.0	NM_181750	226412.0	Mm.221041	NM_181750	ENSMUSG00000056211	R3hdm1	R3hdm	R3H domain containing 1	protein-coding	1.5	3.0	4.0	68.5	7.5	7.0	10.5	6.0
Merged-chr15-35030518-3	chr15	35030418	35030618	+	961.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357821, intron 7 of 11)	intron (NM_001357821, intron 7 of 11)	125288.0	NM_001357821	56274.0	Mm.262330	NM_019635	ENSMUSG00000022329	Stk3	0610042I06Rik|MST|Mst2|Mst3|Ste20|mess1	serine/threonine kinase 3	protein-coding	23.0	18.0	31.5	447.0	15.5	8.5	30.5	14.5
Merged-chr12-71114078-4	chr12	71113982	71114182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029227, intron 2 of 4)	intron (NM_029227, intron 2 of 4)	2654.0	NM_029227	75266.0	Mm.402075	NM_029227	ENSMUSG00000021078	Tomm20l	4930553D19Rik	translocase of outer mitochondrial membrane 20-like	protein-coding	44.5	56.0	28.5	788.5	107.0	29.0	38.5	36.0
Merged-chr4-155669473-6	chr4	155669328	155669528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256107)	promoter-TSS (NM_001256107)	-174.0	NM_001256107	76580.0	Mm.235738	NM_145124	ENSMUSG00000029060	Mib2	2210008I11Rik|Zzank1|skd	mindbomb E3 ubiquitin protein ligase 2	protein-coding	103.0	149.0	130.5	774.5	183.0	122.0	77.5	122.0
Merged-chr2-165968390-3	chr2	165968245	165968445	+	775.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24292.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	9.0	8.5	7.0	81.5	7.0	4.5	1.0	4.0
Merged-chr14-27344735-4	chr14	27344636	27344836	+	939.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	8699.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	21.0	22.5	17.5	189.0	38.5	10.0	18.0	21.5
Merged-chr13-38635110-4	chr13	38635017	38635217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139063)	promoter-TSS (NM_139063)	-8.0	NM_139063	17828.0	Mm.261554	NM_139063	ENSMUSG00000038982	Bloc1s5	1810074A19Rik|Muted|mu	biogenesis of lysosomal organelles complex-1, subunit 5, muted	protein-coding	66.0	80.5	64.5	955.0	190.5	61.0	78.5	72.0
Merged-chr2-155585641-4	chr2	155585551	155585751	+	987.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291111, intron 1 of 11)	MIR|SINE|MIR	7159.0	NM_001291111	14854.0	Mm.252316	NM_008180	ENSMUSG00000027610	Gss	AI314904|GS-A/GS-B|GSH-S	glutathione synthetase	protein-coding	14.5	45.0	26.5	345.5	63.0	13.5	23.5	27.0
Merged-chr1-85652069-1	chr1	85651969	85652169	+	635.0	f0_balb.idr	intron (NM_013673, intron 1 of 19)	RSINE1|SINE|B4	2081.0	NM_001313714	20684.0	Mm.290906	NM_013673	ENSMUSG00000026222	Sp100	A430075G10Rik	nuclear antigen Sp100	protein-coding	11.0	7.0	5.5	114.5	12.0	2.5	2.5	3.5
Merged-chr8-109917433-2	chr8	109917333	109917533	+	619.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001122594, intron 9 of 18)	intron (NM_001122594, intron 9 of 18)	44772.0	NM_212447	73608.0	Mm.86833	NM_028584	ENSMUSG00000001672	Marveld3	1810006A16Rik|AI642133|Marvd3|Mrvldc3	MARVEL (membrane-associating) domain containing 3	protein-coding	9.0	1.0	4.5	83.0	17.5	8.0	4.5	6.0
Merged-chr1-16225598-4	chr1	16225499	16225699	+	901.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119717.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	15.5	16.5	5.5	140.0	29.0	9.0	7.5	17.0
Merged-chr6-134535005-4	chr6	134534846	134535046	+	918.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 2 of 22)	intron (NM_008514, intron 2 of 22)	31967.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	19.5	19.0	5.5	216.0	30.5	3.5	12.0	11.5
Merged-chr15-12012649-3	chr15	12012553	12012753	+	798.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-16646.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	10.0	14.5	6.5	235.0	9.5	5.5	4.5	12.0
Merged-chr19-6992658-4	chr19	6992562	6992762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357001)	promoter-TSS (NM_001357001)	-80.0	NM_001357000	57431.0	Mm.10721	NM_020566	ENSMUSG00000024963	Dnajc4	Hspf2|Mcg18	DnaJ heat shock protein family (Hsp40) member C4	protein-coding	164.0	300.0	116.5	2083.5	310.0	121.5	128.0	127.5
Merged-chr5-64237806-4	chr5	64237631	64237831	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	Lx9|LINE|L1	7374.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	15.5	3.5	10.0	158.5	27.0	8.5	12.0	7.0
Merged-chr7-130519611-4	chr7	130519489	130519689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136054)	promoter-TSS (NM_001136054)	-9.0	NM_013799	11907.0	Mm.216321	NM_013799	ENSMUSG00000030850	Ate1	AI225793|AW547406	arginyltransferase 1	protein-coding	131.0	206.5	164.0	1786.0	363.0	124.5	143.0	154.5
Merged-chr15-3259742-1	chr15	3259642	3259842	+	688.0	f0_balb.idr	Intergenic	Intergenic	-11025.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	7.0	6.5	11.0	93.5	5.0	2.5	5.0	8.0
Merged-chr1-21079352-4	chr1	21079254	21079454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177409)	promoter-TSS (NM_177409)	-129.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	339.5	506.0	367.0	5309.0	748.5	308.0	410.0	266.5
Merged-chr6-16889644-4	chr6	16889576	16889776	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 1 of 6)	intron (NM_031198, intron 1 of 6)	8765.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	23.5	27.5	43.0	577.5	47.5	16.5	19.5	20.5
Merged-chr17-35165465-1	chr17	35165365	35165565	+	1000.0	f0_c57.idr	promoter-TSS (NM_020027)	promoter-TSS (NM_020027)	-588.0	NM_020027	53761.0	Mm.272462	NM_020027	ENSMUSG00000024393	Prrc2a	3110039B05Rik|Bat-2|Bat2|D17H6S51E|G2|Wbp12|mKIAA4178	proline-rich coiled-coil 2A	protein-coding	50.5	82.5	20.0	427.5	181.0	52.5	53.5	49.5
Merged-chr11-43544241-3	chr11	43544137	43544337	+	898.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045530, intron 2 of 5)	intron (NM_001045530, intron 2 of 5)	15488.0	NM_001045530	380694.0	Mm.247595	NM_001045530	ENSMUSG00000044707	Ccnjl	Gm877	cyclin J-like	protein-coding	8.5	7.5	4.5	109.0	9.5	1.0	1.0	2.5
Merged-chr19-11107965-4	chr19	11107857	11108057	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 4 of 6)	intron (NM_027058, intron 4 of 6)	22921.0	NM_027058	69369.0	Mm.391200	NM_027058	ENSMUSG00000024729	1700017D01Rik	-	RIKEN cDNA 1700017D01 gene	protein-coding	27.0	30.5	37.0	458.0	35.0	6.0	10.5	11.0
Merged-chr1-36446429-7	chr1	36446334	36446534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11B|LTR|ERVK	-1163.0	NM_001310517	214895.0	Mm.287854	NM_001013374	ENSMUSG00000001143	Lman2l	A630028F14Rik|VIP36-like|VIPL	lectin, mannose-binding 2-like	protein-coding	20.5	29.0	20.0	319.0	52.5	18.5	14.0	21.0
Merged-chr13-9895251-4	chr13	9895137	9895337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 4 of 4)	intron (NM_033269, intron 4 of 4)	-129916.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	26.5	34.5	39.0	622.0	77.5	22.0	40.0	42.5
Merged-chr13-30725101-4	chr13	30725023	30725223	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24110.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	25.0	54.5	28.5	270.0	58.0	34.0	23.5	20.0
Merged-chr1-164059529-3	chr1	164059427	164059627	+	723.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2549.0	NM_001164059	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	7.0	4.0	2.0	29.0	27.5	5.0	14.0	10.5
Merged-chr9-56995640-4	chr9	56995510	56995710	+	829.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019651, exon 1 of 13)	exon (NM_019651, exon 1 of 13)	642.0	NM_019651	56294.0	Mm.325643	NM_019651	ENSMUSG00000032290	Ptpn9	MEG2	protein tyrosine phosphatase, non-receptor type 9	protein-coding	11.0	23.0	1.5	87.5	15.5	14.5	9.0	14.0
Merged-chr12-54862917-4	chr12	54862797	54862997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007688)	promoter-TSS (NM_007688)	-20.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	80.0	108.5	108.5	1456.0	154.0	70.5	85.0	79.0
Merged-chr7-25282065-4	chr7	25281978	25282178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027882)	promoter-TSS (NM_027882)	-101.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	252.5	411.0	283.0	4056.0	630.5	211.0	337.5	239.5
Merged-chr1-89454708-4	chr1	89454618	89454818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178119)	promoter-TSS (NM_178119)	-93.0	NM_178119	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	189.5	240.0	187.5	3455.5	470.0	167.5	248.0	183.0
Merged-chr15-64002129-4	chr15	64002027	64002227	+	970.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	intron (NM_144846, intron 1 of 11)	-4061.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	20.0	25.5	26.5	483.0	54.5	20.5	33.0	16.5
Merged-chr11-29147657-4	chr11	29147551	29147751	+	958.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027869, intron 17 of 27)	intron (NM_027869, intron 17 of 27)	16900.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	18.0	12.5	4.5	214.5	70.0	25.5	25.5	30.0
Merged-chr15-62011928-4	chr15	62011834	62012034	+	877.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-26052.0	NR_132747	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	20.5	12.0	8.0	314.0	24.5	12.5	12.0	9.5
Merged-chr11-4660030-4	chr11	4659942	4660142	+	870.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029291, intron 8 of 19)	intron (NM_029291, intron 8 of 19)	22249.0	NM_029291	75452.0	Mm.439906	NM_029291	ENSMUSG00000020412	Ascc2	1700011I11Rik|2610034L15Rik|AI482016|ASC1p100|AW046480	activating signal cointegrator 1 complex subunit 2	protein-coding	10.0	12.5	8.5	250.0	21.0	11.5	7.0	17.5
Merged-chr5-34636686-4	chr5	34636618	34636818	+	940.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356979, exon 2 of 13)	exon (NM_001356979, exon 2 of 13)	494.0	NM_001356978	68294.0	Mm.34564	NM_026660	ENSMUSG00000001082	Mfsd10	0610009O03Rik|Tetran	major facilitator superfamily domain containing 10	protein-coding	25.5	19.0	19.5	126.0	31.5	9.0	8.0	25.0
Merged-chr18-36400679-2	chr18	36400579	36400779	+	959.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52055.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	4.5	10.0	3.0	90.5	7.0	10.5	6.0	10.5
Merged-chr2-75938475-4	chr2	75938367	75938567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028235)	promoter-TSS (NM_028235)	-5.0	NM_028235	72421.0	Mm.275109	NM_028235	ENSMUSG00000075273	Ttc30b	2510042P03Rik|Tcc30b	tetratricopeptide repeat domain 30B	protein-coding	26.0	33.5	32.5	239.0	59.0	34.0	19.5	21.5
Merged-chr1-80402141-4	chr1	80402028	80402228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43804.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	51.5	38.5	33.0	815.5	96.0	31.0	62.0	60.0
Merged-chr7-4705313-3	chr7	4705204	4705404	+	816.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001168572, exon 10 of 10)	3' UTR (NM_001168572, exon 10 of 10)	14376.0	NM_001168572	381979.0	Mm.297064	NM_001003920	ENSMUSG00000035390	Brsk1	Gm1100|SAD-B|SADB	BR serine/threonine kinase 1	protein-coding	8.5	6.5	8.5	137.5	12.0	8.0	5.5	6.0
Merged-chr11-6299681-4	chr11	6299613	6299813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010956, intron 2 of 22)	B3|SINE|B2	7134.0	NM_001361902	18293.0	Mm.276348	NM_010956	ENSMUSG00000020456	Ogdh	2210403E04Rik|2210412K19Rik|AA409584|d1401|mKIAA4192	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	protein-coding	124.0	107.5	90.5	1551.0	272.5	94.0	104.5	105.5
Merged-chr5-91962379-4	chr5	91962293	91962493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028429)	promoter-TSS (NR_028429)	163.0	NR_073442	68098.0	Mm.159453	NM_026557	ENSMUSG00000029397	Rchy1	ARNIP|CHIMP|Pirh2|Zfp363|Znf363	ring finger and CHY zinc finger domain containing 1	protein-coding	75.5	125.5	113.5	1435.5	183.5	79.0	114.0	82.5
Merged-chr6-114282785-4	chr6	114282660	114282860	+	956.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178703, exon 1 of 16)	5' UTR (NM_178703, exon 1 of 16)	125.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	17.0	26.5	9.5	216.5	39.0	14.5	16.0	9.5
Merged-chr4-101648832-4	chr4	101648724	101648924	+	906.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175036, intron 1 of 3)	intron (NM_175036, intron 1 of 3)	1041.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	5.0	14.0	9.5	278.0	24.5	12.5	29.0	19.5
Merged-chr4-102625154-4	chr4	102625034	102625234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35291.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	207.5	313.5	263.0	3105.5	437.0	202.0	287.5	186.0
Merged-chr11-20133138-4	chr11	20133040	20133240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20189.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	65.0	113.0	53.0	833.0	180.5	61.0	66.0	48.0
Merged-chr10-88504018-4	chr10	88503916	88504116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146690)	promoter-TSS (NM_001146690)	-46.0	NM_001146690	212862.0	Mm.288897	NM_144807	ENSMUSG00000060002	Chpt1	-	choline phosphotransferase 1	protein-coding	192.0	289.5	194.0	2779.5	408.5	165.5	227.5	165.0
Merged-chr2-18959250-1	chr2	18959150	18959350	+	873.0	f0_balb.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	38871.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	9.5	7.0	6.0	147.0	8.0	3.0	3.5	0.5
Merged-chr11-23255763-4	chr11	23255658	23255858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134014)	promoter-TSS (NM_134014)	-283.0	NM_001035226	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	481.5	651.0	553.5	6866.0	1103.5	462.0	566.5	505.5
Merged-chr10-50592679-4	chr10	50592595	50592795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198007)	promoter-TSS (NM_198007)	26.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	245.5	371.0	257.5	3149.0	605.5	270.0	318.0	259.0
Merged-chr7-45162334-5	chr7	45162290	45162490	+	957.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1531.0	NM_182993	72961.0	Mm.255631	NM_182993	ENSMUSG00000070570	Slc17a7	2900052E22Rik|AI851913|Vglut1	solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 7	protein-coding	24.5	23.0	7.5	189.0	25.5	10.5	7.5	17.0
Merged-chr2-153558628-4	chr2	153558544	153558744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28673.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	32.5	79.0	40.5	320.0	122.5	50.0	49.5	34.5
Merged-chr12-78227500-6	chr12	78227446	78227646	+	871.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172952, intron 1 of 23)	intron (NM_172952, intron 1 of 23)	891.0	NM_145965	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	11.5	12.0	13.0	204.5	41.0	13.5	17.0	20.5
Merged-chr11-54439541-3	chr11	54439492	54439692	+	889.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173753, intron 1 of 17)	intron (NM_173753, intron 1 of 17)	1413.0	NM_173753	216742.0	Mm.34087	NM_173753	ENSMUSG00000035992	Fnip1	A730024A03Rik|AI838773|AW557298	folliculin interacting protein 1	protein-coding	4.0	6.0	13.0	50.5	12.5	4.5	8.5	8.5
Merged-chr8-43368742-3	chr8	43368606	43368806	+	896.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61697.0	NM_009556	22702.0	Mm.285848	NM_009556	ENSMUSG00000051176	Zfp42	Rex-1|Rex1|Zfp-42	zinc finger protein 42	protein-coding	1.5	4.5	6.5	93.0	23.5	8.0	23.5	16.0
Merged-chr10-111957906-4	chr10	111957816	111958016	+	899.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14779.0	NM_178610	52705.0	Mm.34606	NM_178610	ENSMUSG00000063334	Krr1	2610511F02Rik|AI255219|AI428520|D10Ertd773e|Hrb2	KRR1, small subunit (SSU) processome component, homolog (yeast)	protein-coding	16.5	17.0	7.5	162.5	32.0	13.5	19.0	15.5
Merged-chr2-153562441-3	chr2	153562352	153562552	+	756.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-32481.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	8.5	8.5	9.5	54.0	15.0	5.5	8.5	20.5
Merged-chr5-22896009-3	chr5	22895912	22896112	+	844.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	intron (NM_001359998, intron 1 of 3)	-149128.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	0.0	3.0	1.0	1.5	37.0	6.0	6.5	14.5
Merged-chr6-72549139-4	chr6	72549069	72549269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271395)	promoter-TSS (NM_001271395)	-104.0	NM_001042534	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	52.0	90.0	56.5	624.5	111.0	61.0	38.5	32.0
Merged-chr5-135400487-4	chr5	135400367	135400567	+	929.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5921.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	12.0	20.0	14.0	174.5	35.0	14.5	11.5	20.0
Merged-chr16-30764342-4	chr16	30764244	30764444	+	846.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	164621.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	11.0	21.5	9.0	125.0	26.5	11.0	13.5	10.5
Merged-chr3-96567298-4	chr3	96567198	96567398	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040409)	promoter-TSS (NR_040409)	-497.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	13.0	17.5	8.5	196.0	33.5	7.5	17.0	21.0
Merged-chr9-77919336-3	chr9	77919235	77919435	+	950.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 1 of 7)	(TG)n|Simple_repeat|Simple_repeat	1970.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	15.5	12.0	12.5	193.0	20.0	7.0	6.0	9.0
Merged-chr1-160195132-4	chr1	160195026	160195226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025474)	promoter-TSS (NM_025474)	-89.0	NM_025474	64659.0	Mm.29599	NM_025474	ENSMUSG00000058267	Mrps14	1810032L21Rik|AL022847|Rpms14	mitochondrial ribosomal protein S14	protein-coding	452.5	680.0	479.5	6633.0	1304.0	511.0	550.0	478.0
Merged-chr17-34101858-4	chr17	34101719	34101919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6510.0	NR_046183	414076.0	Mm.473092	NR_046183	ENSMUSG00000098197	BC051537	-	cDNA sequence BC051537	ncRNA	23.5	43.5	26.0	309.0	117.0	72.5	44.5	64.5
Merged-chr4-101641694-4	chr4	101641601	101641801	+	887.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164585, exon 20 of 20)	3' UTR (NM_001164585, exon 20 of 20)	-6082.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	14.5	37.0	15.0	85.5	35.5	13.5	13.0	9.5
Merged-chr16-58524618-4	chr16	58524519	58524719	+	873.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357435)	promoter-TSS (NM_001357435)	-366.0	NM_001357434	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	25.0	22.0	15.5	473.5	30.0	6.5	20.0	14.5
Merged-chr12-79191893-4	chr12	79191791	79191991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362269)	promoter-TSS (NM_001362269)	-36.0	NM_021557	17252.0	Mm.291799	NM_021557	ENSMUSG00000066441	Rdh11	2610319N22Rik|AI428145|AU045252|Arsdr1|C85936|CGI-82|HCBP12|M42C60|Mdt1|Psdr1|SCALD|UBE-1c1|Ube-1c|ralR1	retinol dehydrogenase 11	protein-coding	36.0	36.0	23.5	389.5	105.0	29.5	50.0	30.5
Merged-chr10-117841124-3	chr10	117841029	117841229	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	4845.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	8.5	7.0	10.5	108.0	17.5	3.0	5.5	4.0
Merged-chr6-52920881-4	chr6	52920793	52920993	+	858.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	-11273.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	8.0	8.0	15.0	139.0	19.0	3.5	8.0	14.0
Merged-chr6-29212352-4	chr6	29212251	29212451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011829)	promoter-TSS (NM_011829)	-54.0	NM_011829	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	63.5	81.0	74.5	1246.0	152.0	63.5	93.0	64.0
Merged-chr3-123267383-4	chr3	123267248	123267448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027135)	promoter-TSS (NM_027135)	-148.0	NM_027135	69608.0	Mm.29293	NM_027135	ENSMUSG00000039234	Sec24d	2310020L09Rik|Gm1349	Sec24 related gene family, member D (S. cerevisiae)	protein-coding	124.0	159.0	111.5	1345.5	275.5	108.0	138.5	133.5
Merged-chr14-63860874-2	chr14	63860774	63860974	+	983.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028228, intron 1 of 6)	intron (NM_028228, intron 1 of 6)	562.0	NM_028228	72400.0	Mm.379214	NM_028228	ENSMUSG00000021958	Pinx1	2210403I16Rik|2610028A01Rik|67-11-3|AU024023|LPTS|LPTS1	PIN2/TERF1 interacting, telomerase inhibitor 1	protein-coding	5.5	7.5	5.0	45.0	4.5	5.5	5.0	4.0
Merged-chr1-150165846-4	chr1	150165742	150165942	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110420)	promoter-TSS (NR_110420)	-894.0	NR_110420	102639566.0	Mm.417208	NR_110420	ENSMUSG00000097754	Ptgs2os2	Gm26687|Linc-cox2|Lincrna-cox2	prostaglandin-endoperoxide synthase 2, opposite strand 2	ncRNA	15.0	20.5	17.5	195.0	28.5	7.0	6.0	13.5
Merged-chr17-50513574-2	chr17	50513480	50513680	+	835.5	f0_balb.idr|f1_balb.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	4033.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	5.5	20.5	7.5	150.5	11.0	8.5	1.5	6.0
Merged-chr4-133905367-4	chr4	133905269	133905469	+	753.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-17572.0	NM_009097	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	7.5	15.0	5.5	160.5	17.0	6.0	11.5	16.0
Merged-chr10-57785955-4	chr10	57785784	57785984	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021272, intron 2 of 3)	intron (NM_021272, intron 2 of 3)	961.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	11.5	21.5	22.5	235.0	27.0	14.0	11.5	5.5
Merged-chr11-11716867-3	chr11	11716771	11716971	+	927.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301865, intron 3 of 6)	intron (NM_001301865, intron 3 of 6)	26694.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	7.5	4.5	10.5	209.5	26.5	10.0	5.5	27.5
Merged-chr11-6389147-4	chr11	6389050	6389250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5975.0	NM_001005867	52915.0	Mm.1144	NM_028601	ENSMUSG00000041164	Zmiz2	Zimp7	zinc finger, MIZ-type containing 2	protein-coding	144.5	280.5	207.5	2275.5	333.0	132.5	186.5	148.0
Merged-chr11-23830479-4	chr11	23830385	23830585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-59515.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	28.5	52.0	33.5	319.5	78.5	18.0	22.5	21.5
Merged-chr3-79178232-4	chr3	79178146	79178346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32371.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	110.0	159.5	118.5	1413.0	225.5	103.0	91.5	71.5
Merged-chr18-65416408-4	chr18	65416281	65416481	+	859.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	-14616.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	11.5	8.5	11.5	114.0	17.0	1.0	7.0	5.0
Merged-chr2-153704446-3	chr2	153704336	153704536	+	787.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-36851.0	NM_007896	13589.0	Mm.143877	NM_007896	ENSMUSG00000027479	Mapre1	5530600P05Rik|AI462499|AI504412|AW260097|BIM1p|D2Ertd459e|Eb1	microtubule-associated protein, RP/EB family, member 1	protein-coding	4.0	10.0	0.0	35.5	31.5	5.5	11.5	8.0
Merged-chr9-58246251-4	chr9	58246159	58246359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008884, intron 2 of 7)	intron (NM_008884, intron 2 of 7)	3527.0	NM_008884	18854.0	Mm.392123	NM_008884	ENSMUSG00000036986	Pml	1200009E24Rik|AI661194|Trim19	promyelocytic leukemia	protein-coding	45.0	47.0	28.5	518.0	86.0	22.5	41.5	51.5
Merged-chr1-107525803-4	chr1	107525696	107525896	+	800.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001174170)	TTS (NM_001174170)	-3207.0	NM_001160307	241197.0	Mm.123919	NM_198028	ENSMUSG00000092572	Serpinb10	9830131G07|BB233602|Serpinb10-ps	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 10	protein-coding	10.0	8.5	8.5	272.0	15.0	8.5	11.5	6.0
Merged-chr8-98999349-3	chr8	98999241	98999441	+	837.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12546.0	NR_110579	100873092.0	Mm.414599	NR_110579	ENSMUSG00000089819	Gm15679	-	predicted gene 15679	ncRNA	13.0	10.5	6.5	234.5	9.0	6.5	6.5	1.0
Merged-chr16-75900380-3	chr16	75900280	75900480	+	555.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 1 of 7)	intron (NM_023380, intron 1 of 7)	8886.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	7.0	7.5	5.5	70.0	15.5	3.0	9.0	8.5
Merged-chr19-5807924-4	chr19	5807825	5808025	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5253.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	23.5	31.5	20.0	286.5	35.0	22.0	23.5	29.5
Merged-chr13-106998795-4	chr13	106998693	106998893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008442, intron 1 of 21)	intron (NM_008442, intron 1 of 21)	23321.0	NM_001145779	16563.0	Mm.355686	NM_008442	ENSMUSG00000021693	Kif2a	C530030B14Rik|Kif2|Kns2|M-kinesin	kinesin family member 2A	protein-coding	52.0	35.0	35.0	780.0	91.0	28.5	42.5	37.5
Merged-chr10-111074093-4	chr10	111074012	111074212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64046.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	43.5	39.0	44.0	610.0	73.0	29.5	38.0	32.0
Merged-chr7-4145991-4	chr7	4145874	4146074	+	833.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172736, exon 15 of 15)	3' UTR (NM_172736, exon 15 of 15)	3898.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	2.0	16.0	3.5	132.5	30.0	11.0	25.0	20.0
Merged-chr12-8674583-4	chr12	8674527	8674727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030723)	promoter-TSS (NM_030723)	-54.0	NM_030723	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	31.5	50.5	78.0	504.0	106.0	39.0	42.5	45.0
Merged-chr1-86441583-4	chr1	86441493	86441693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	15264.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	28.0	54.5	28.0	377.0	109.5	69.5	35.5	55.0
Merged-chr15-26361903-4	chr15	26361814	26362014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310774, intron 2 of 2)	intron (NM_001310774, intron 2 of 2)	52866.0	NM_001310774	211147.0	Mm.54257	NM_177597	ENSMUSG00000022269	March11	9630025C22	membrane-associated ring finger (C3HC4) 11	protein-coding	32.0	61.0	37.5	637.5	108.5	45.0	43.5	41.5
Merged-chr2-6258656-4	chr2	6258563	6258763	+	963.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	intron (NR_040333, intron 3 of 6)	-45669.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	17.5	21.0	12.0	414.0	26.0	9.0	19.5	25.5
Merged-chr4-133449915-2	chr4	133449819	133450019	+	767.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-30214.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	11.0	27.5	11.5	162.0	12.0	2.0	1.0	2.5
Merged-chr8-85554536-4	chr8	85554422	85554622	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019794, intron 1 of 8)	intron (NM_019794, intron 1 of 8)	749.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	23.5	32.0	13.5	242.5	64.0	24.5	15.5	33.0
Merged-chr16-82761624-3	chr16	82761539	82761739	+	687.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1560942.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	6.0	8.5	9.0	124.0	14.5	5.0	4.0	5.5
Merged-chr13-37218777-4	chr13	37218677	37218877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126568.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	98.5	185.0	91.5	1695.0	209.0	66.5	61.5	68.0
Merged-chr1-134077856-4	chr1	134077740	134077940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007570, intron 1 of 1)	intron (NM_007570, intron 1 of 1)	1315.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	48.0	68.5	67.0	828.5	128.5	54.0	78.0	69.5
Merged-chr18-23894446-4	chr18	23894329	23894529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001162942)	TTS (NM_001162942)	-60259.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	41.0	62.5	76.5	1197.0	63.5	41.5	52.5	44.0
Merged-chr8-122407837-4	chr8	122407761	122407961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029993, intron 10 of 18)	intron (NM_001029993, intron 10 of 18)	-14159.0	NM_145834	234836.0	Mm.222808	NM_145834	ENSMUSG00000046108	Il17c	IL-17C	interleukin 17C	protein-coding	64.0	79.5	118.0	1426.5	111.0	32.5	79.5	87.5
Merged-chr2-103638146-3	chr2	103638047	103638247	+	874.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	71837.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	14.5	12.0	18.5	225.5	10.0	6.0	3.0	10.5
Merged-chr7-29523862-3	chr7	29523771	29523971	+	950.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18411.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	17.5	16.5	11.5	186.5	18.5	11.5	6.5	14.5
Merged-chr10-98778484-4	chr10	98778409	98778609	+	673.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136133.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	15.0	17.5	5.5	208.5	28.0	11.0	11.0	7.0
Merged-chr1-125432630-4	chr1	125432528	125432728	+	828.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205386, intron 2 of 12)	intron (NM_001205386, intron 2 of 12)	3099.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	9.0	20.0	3.5	43.0	24.0	13.0	6.0	11.0
Merged-chr7-101374320-3	chr7	101374207	101374407	+	755.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 3 of 33)	intron (NM_001040111, intron 3 of 33)	-3815.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	6.0	18.0	0.5	47.0	30.5	7.0	10.0	11.0
Merged-chr1-13360855-4	chr1	13360761	13360961	+	894.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	RLTR12BD_Mm|LTR|ERVK	11568.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	7.5	26.0	12.0	187.5	33.5	12.5	16.5	16.5
Merged-chr2-172441384-4	chr2	172441274	172441474	+	893.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025542, intron 1 of 8)	intron (NM_025542, intron 1 of 8)	796.0	NM_025542	66404.0	Mm.25157	NM_025542	ENSMUSG00000027502	Rtf2	1700067C04Rik|2410001C21Rik|5730427M17Rik|AA589417|Rtfdc1	replication termination factor 2	protein-coding	27.0	32.0	28.0	316.0	26.5	7.0	11.0	14.0
Merged-chr10-111107593-4	chr10	111107484	111107684	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-57218.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	30.5	38.0	24.0	465.5	55.5	11.0	32.5	32.5
Merged-chr6-82969579-4	chr6	82969462	82969662	+	961.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 3 of 9)	L1MCa|LINE|L1	22640.0	NM_033079	110958.0	Mm.100652	NM_033079	ENSMUSG00000030041	M1ap	D6Mm5e	meiosis 1 associated protein	protein-coding	21.0	69.0	19.5	232.5	55.0	16.0	14.5	10.0
Merged-chr3-131300090-4	chr3	131300000	131300200	+	912.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027816, intron 1 of 4)	L1M5|LINE|L1	3127.0	NM_027816	71519.0	Mm.473179	NM_027816	ENSMUSG00000027983	Cyp2u1	8430436A10Rik	cytochrome P450, family 2, subfamily u, polypeptide 1	protein-coding	24.0	29.0	13.5	297.0	45.5	29.0	13.0	19.5
Merged-chr12-55450561-4	chr12	55450469	55450669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	42078.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	113.5	169.0	235.0	2820.5	269.0	103.0	152.0	114.0
Merged-chr11-20732496-3	chr11	20732396	20732596	+	975.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181411, intron 1 of 8)	L1MD2|LINE|L1	9060.0	NM_001290545	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	28.5	26.0	15.5	303.5	15.0	4.0	10.0	4.0
Merged-chr2-129380956-4	chr2	129380861	129381061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9822.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	39.0	52.5	21.0	727.0	107.5	44.5	49.0	55.5
Merged-chr9-78109867-4	chr9	78109775	78109975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081490)	promoter-TSS (NM_001081490)	683.0	NM_001163780	56542.0	Mm.288719	NM_019987	ENSMUSG00000009828	Ick	2210420N10Rik|AI848300|Mrk	intestinal cell kinase	protein-coding	31.5	64.5	12.5	315.0	70.5	31.5	38.0	26.0
Merged-chr9-66114116-4	chr9	66114007	66114207	+	855.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019727, intron 1 of 14)	intron (NM_019727, intron 1 of 14)	10779.0	NM_019727	56440.0	Mm.271891	NM_019727	ENSMUSG00000032382	Snx1	-	sorting nexin 1	protein-coding	9.5	21.5	20.0	106.0	26.0	7.0	14.5	10.5
Merged-chr4-95084152-3	chr4	95084054	95084254	+	814.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-31932.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	11.5	23.5	19.0	286.0	15.0	5.5	10.0	11.0
Merged-chr5-88559346-3	chr5	88559253	88559453	+	804.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4891.0	NM_023054	65961.0	Mm.490364	NM_023054	ENSMUSG00000070697	Utp3	2400011K09Rik|AW557551|C87704|Crl-1|Crl1|Crlz1|Sas10	UTP3 small subunit processome component	protein-coding	7.5	12.0	8.0	101.5	36.5	4.0	8.5	10.5
Merged-chr1-163899809-4	chr1	163899700	163899900	+	926.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305643, intron 19 of 19)	intron (NM_001305643, intron 19 of 19)	-29300.0	NM_001286002	240880.0	Mm.389213	NM_028776	ENSMUSG00000026584	Scyl3	1200016D23Rik|6030457O16|AW214499|Pace1	SCY1-like 3 (S. cerevisiae)	protein-coding	8.0	34.0	16.5	442.0	58.5	10.0	20.5	13.0
Merged-chr5-143528106-4	chr5	143527998	143528198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009007)	promoter-TSS (NM_009007)	-67.0	NM_001347530	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	73.0	113.5	84.5	1070.5	263.5	98.5	104.5	83.5
Merged-chr11-20216588-2	chr11	20216488	20216688	+	793.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 2 of 5)	B2_Mm2|SINE|B2	15176.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	6.0	11.0	2.0	53.5	20.0	17.5	7.0	8.5
Merged-chr5-114772063-4	chr5	114771967	114772167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077359, intron 1 of 18)	intron (NM_001077359, intron 1 of 18)	1424.0	NM_019834	26431.0	Mm.195632	NM_019834	ENSMUSG00000041890	Git2	1500036H07Rik|5830420E16Rik|6430510B20Rik|9630056M03Rik|B230104M05Rik|CAT2|mKIAA0148	G protein-coupled receptor kinase-interactor 2	protein-coding	47.5	43.5	24.5	408.5	64.0	27.0	29.5	21.5
Merged-chr2-150786703-4	chr2	150786621	150786821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153781)	promoter-TSS (NM_153781)	-75.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	88.0	125.5	121.5	1722.5	251.0	79.5	120.0	94.5
Merged-chr5-150097906-3	chr5	150097812	150098012	+	910.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79237.0	NM_001289566	140498.0	Mm.444643	NM_080468	ENSMUSG00000053368	Rxfp2	Gpr106|Great|Lgr8	relaxin/insulin-like family peptide receptor 2	protein-coding	14.5	22.0	13.5	106.0	9.0	2.0	7.5	8.0
Merged-chr6-125501414-3	chr6	125501341	125501541	+	958.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6681.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	20.0	15.5	10.5	204.0	10.0	5.0	8.0	25.0
Merged-chr13-41074035-4	chr13	41073928	41074128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145802, intron 1 of 11)	intron (NM_001145802, intron 1 of 11)	-3563.0	NM_008547	17152.0	Mm.8149	NM_008547	ENSMUSG00000021363	Mak	A930010O05Rik	male germ cell-associated kinase	protein-coding	23.0	52.5	24.5	302.5	68.5	35.5	21.0	38.5
Merged-chr2-122164494-4	chr2	122164395	122164595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080510, intron 1 of 6)	intron (NM_080510, intron 1 of 6)	3795.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	67.0	69.0	58.0	1010.5	186.5	46.5	58.5	46.0
Merged-chr1-80340924-4	chr1	80340842	80341042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313728)	promoter-TSS (NM_001313728)	-252.0	NM_016716	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	157.5	211.5	162.5	1371.0	398.5	163.0	172.0	151.5
Merged-chr13-92335306-4	chr13	92335191	92335391	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311120, intron 8 of 23)	intron (NM_001311120, intron 8 of 23)	-19492.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	28.5	38.5	48.5	812.5	47.0	6.5	14.0	21.5
Merged-chr7-100276647-2	chr7	100276548	100276748	+	607.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027629, exon 14 of 14)	3' UTR (NM_027629, exon 14 of 14)	-8872.0	NM_177161	320452.0	Mm.150294	NM_177161	ENSMUSG00000051048	P4ha3	D930031A02Rik	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide III	protein-coding	4.0	4.0	3.5	44.5	7.0	5.5	4.5	8.0
Merged-chr19-3955266-3	chr19	3955164	3955364	+	729.8222049999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3544.0	NM_028545	73458.0	Mm.482922	NM_028545	ENSMUSG00000037263	Aldh3b3	1700055N04Rik	aldehyde dehydrogenase 3 family, member B3	protein-coding	9.5	11.5	2.5	69.5	8.5	4.5	6.5	5.5
Merged-chr17-70958460-3	chr17	70958370	70958570	+	951.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	32046.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	13.5	9.0	5.0	49.5	53.0	11.0	19.0	22.0
Merged-chr6-87394049-4	chr6	87393959	87394159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-5124.0	NM_026860	68888.0	Mm.46387	NM_026860	ENSMUSG00000030048	Gkn3	1190003M12Rik	gastrokine 3	protein-coding	32.5	51.5	18.5	559.0	65.5	18.0	22.5	28.5
Merged-chr6-57790734-4	chr6	57790627	57790827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	intron (NM_146168, intron 1 of 4)	34398.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	38.0	38.0	49.0	606.0	84.5	27.0	55.5	36.0
Merged-chr13-112466785-4	chr13	112466688	112466888	+	933.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010560, intron 1 of 16)	intron (NM_010560, intron 1 of 16)	2718.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	22.0	29.5	14.5	202.5	71.5	5.5	16.0	15.0
Merged-chr2-155764136-4	chr2	155764039	155764239	+	976.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11203.0	NM_010808	17391.0	Mm.389325	NM_010808	ENSMUSG00000027612	Mmp24	AU040325|MMP-21|MT5-MMP|MT5MMP|MTMMP5	matrix metallopeptidase 24	protein-coding	24.5	39.0	8.5	139.5	56.0	20.0	7.0	10.5
Merged-chr8-75151050-4	chr8	75150949	75151149	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41540.0	NM_008566	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	9.5	15.5	25.5	322.5	44.5	15.0	39.5	10.0
Merged-chr11-103470701-4	chr11	103470601	103470801	+	945.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-58037.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	12.5	41.5	14.5	309.5	56.0	23.5	14.0	23.0
Merged-chr16-57423609-4	chr16	57423524	57423724	+	915.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	70347.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	21.0	20.5	9.5	285.0	51.0	19.5	27.5	12.0
Merged-chr5-114699770-2	chr5	114699670	114699870	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR2a2_Mm|LTR|ERVK	-8009.0	NM_029992	77832.0	Mm.239698	NM_029992	ENSMUSG00000002486	Tchp	A930031F18Rik|AV279199	trichoplein, keratin filament binding	protein-coding	23.0	16.0	6.0	25.5	47.0	17.5	14.5	33.5
Merged-chr5-135394574-4	chr5	135394479	135394679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148932)	promoter-TSS (NM_148932)	-33.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	96.0	161.0	48.0	838.0	186.0	84.0	86.0	81.5
Merged-chr3-75281026-2	chr3	75280926	75281126	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10948.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	12.0	8.5	5.5	39.5	4.5	3.0	1.0	4.5
Merged-chr6-108658152-3	chr6	108658061	108658261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NR_104577, intron 1 of 6)	intron (NR_104577, intron 1 of 6)	-2468.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	110.5	171.0	82.5	1409.5	241.5	75.5	85.5	62.0
Merged-chr10-128626826-4	chr10	128626704	128626904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013765)	promoter-TSS (NM_013765)	-298.0	NM_013765	27370.0	Mm.32118	NM_013765	ENSMUSG00000025362	Rps26	-	ribosomal protein S26	protein-coding	94.5	141.5	49.0	1122.5	265.0	96.5	123.0	79.5
Merged-chr18-85698142-4	chr18	85698002	85698202	+	811.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-696850.0	NM_001360910	246317.0	Mm.329578	NM_144946	ENSMUSG00000050321	Neto1	AI851453|Btcl1|C130005O10Rik	neuropilin (NRP) and tolloid (TLL)-like 1	protein-coding	10.0	17.0	27.5	19.5	17.0	12.5	11.5	25.0
Merged-chr8-26689353-4	chr8	26689253	26689453	+	859.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135070.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	10.5	18.5	9.5	189.5	30.0	16.0	24.0	19.5
Merged-chr17-5402862-4	chr17	5402746	5402946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15921.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	19.0	27.5	17.5	292.5	53.0	27.5	20.5	31.0
Merged-chr19-12013411-4	chr19	12013316	12013516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23324.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	107.5	173.0	114.0	1528.5	278.0	90.0	120.0	79.0
Merged-chr7-16228316-2	chr7	16228197	16228397	+	751.666626	f0_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-6265.0	NM_027883	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	7.5	13.0	8.0	144.5	10.5	5.0	4.0	4.0
Merged-chr2-158132640-2	chr2	158132540	158132740	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 4 of 12)	intron (NM_009373, intron 4 of 12)	13752.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	2.0	1.5	2.0	19.0	8.0	6.0	4.5	5.5
Merged-chr1-171410373-4	chr1	171410260	171410460	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305677)	promoter-TSS (NM_001305677)	-953.0	NM_001305678	22278.0	Mm.8	NM_009480	ENSMUSG00000026641	Usf1	bHLHb11	upstream transcription factor 1	protein-coding	34.5	38.5	16.0	406.0	47.5	20.5	29.0	24.0
Merged-chr7-99530073-4	chr7	99529971	99530171	+	802.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-5415.0	NM_178220	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	13.0	23.0	8.5	77.5	35.0	8.5	5.5	6.5
Merged-chr8-24546478-4	chr8	24546377	24546577	+	791.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145949, intron 7 of 9)	intron (NM_145949, intron 7 of 9)	29856.0	NM_145949	209176.0	Mm.219580	NM_145949	ENSMUSG00000031549	Ido2	AI265623|C230043N17Rik|Ido-2|Indol1	indoleamine 2,3-dioxygenase 2	protein-coding	9.0	12.0	4.5	128.0	23.5	5.5	10.5	12.0
Merged-chr13-34693285-1	chr13	34693185	34693385	+	616.0	f0_balb.idr	Intergenic	MER117|DNA|hAT-Charlie	40362.0	NR_105041	101056149.0	Mm.421309	NR_105041	ENSMUSG00000086786	Gm15908	-	predicted gene 15908	ncRNA	6.0	6.5	8.0	147.5	7.0	3.0	5.5	2.0
Merged-chr17-28408483-2	chr17	28408383	28408583	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 8 of 10)	intron (NM_010220, intron 8 of 10)	-43267.0	NM_021478	22157.0	Mm.42102	NM_021478	ENSMUSG00000037446	Tulp1	Tulp1l	tubby like protein 1	protein-coding	12.0	12.0	3.5	131.0	16.5	5.0	8.0	6.5
Merged-chr15-59202517-4	chr15	59202411	59202611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104437.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	108.0	183.5	132.5	1952.0	242.5	104.0	134.5	109.0
Merged-chr7-126738108-4	chr7	126738016	126738216	+	994.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-21510.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	19.5	30.5	9.5	217.5	47.0	28.5	26.0	21.5
Merged-chr4-37412971-4	chr4	37412870	37413070	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163567.0	NR_151605	102636890.0	Mm.109154	NR_151605	ENSMUSG00000086026	Gm12374	-	predicted gene 12374	ncRNA	37.5	36.5	36.0	557.5	54.5	12.5	23.0	16.5
Merged-chr7-100863475-4	chr7	100863365	100863565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177073)	promoter-TSS (NM_177073)	-52.0	NM_177073	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	92.5	138.0	72.0	997.0	247.5	104.0	99.0	96.5
Merged-chr4-117251964-4	chr4	117251906	117252106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285812)	promoter-TSS (NM_001285812)	55.0	NM_001285815	68777.0	Mm.331805	NM_026837	ENSMUSG00000048772	Tmem53	1110038M16Rik|1500001P22Rik|1700012A05Rik	transmembrane protein 53	protein-coding	38.5	78.0	29.5	568.5	104.0	50.0	62.5	35.5
Merged-chr2-152739553-8	chr2	152739467	152739667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	3316.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	45.0	68.5	29.0	416.0	85.0	40.0	46.0	40.5
Merged-chr17-74807509-3	chr17	74807434	74807634	+	951.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	intron (NM_152817, intron 13 of 19)	89784.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	3.0	2.0	1.0	23.0	40.0	15.0	5.0	12.5
Merged-chr1-162740121-4	chr1	162740039	162740239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081290, intron 1 of 34)	CpG	417.0	NM_001081290	226562.0	Mm.245446	NM_001081290	ENSMUSG00000040225	Prrc2c	1810043M20Rik|9630039I18Rik|A630006J20|Bat2d|Bat2d1|Bat2l2|E130112L15Rik|Prrc3|mKIAA1096	proline-rich coiled-coil 2C	protein-coding	35.5	51.0	74.5	755.0	96.0	47.0	64.5	51.5
Merged-chr1-180429993-4	chr1	180429903	180430103	+	883.113098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	53501.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	12.0	18.5	8.0	182.0	20.5	7.5	15.0	27.5
Merged-chr8-116636156-4	chr8	116636039	116636239	+	825.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 1 of 6)	L1MC3|LINE|L1	96852.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	4.5	14.5	5.5	72.0	54.5	5.0	12.5	11.5
Merged-chr15-64287678-3	chr15	64287568	64287768	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	25005.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	11.5	5.0	14.0	265.5	11.0	3.0	9.0	9.0
Merged-chr5-107944965-4	chr5	107944878	107945078	+	750.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	L1MD1|LINE|L1	42099.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	4.5	6.0	5.5	93.0	51.5	10.5	16.5	11.5
Merged-chr2-167188978-8	chr2	167188907	167189107	+	739.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008420)	promoter-TSS (NM_008420)	-189.0	NM_008420	16500.0	Mm.205341	NM_008420	ENSMUSG00000050556	Kcnb1	Kcr1-1|Kv2.1|Shab	potassium voltage gated channel, Shab-related subfamily, member 1	protein-coding	13.5	18.5	13.0	158.0	18.5	9.0	11.5	12.5
Merged-chr8-80874359-4	chr8	80874259	80874459	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021356, intron 1 of 9)	intron (NM_021356, intron 1 of 9)	6120.0	NM_021356	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	41.5	68.0	69.0	867.5	56.0	11.5	34.0	29.0
Merged-chr6-87536295-4	chr6	87536185	87536385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3026.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	26.0	42.0	28.0	564.5	47.0	19.0	30.0	47.5
Merged-chr6-142752717-4	chr6	142752635	142752835	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3951.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	27.5	33.5	19.5	764.5	77.0	15.5	33.5	16.0
Merged-chr13-95639009-4	chr13	95638896	95639096	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 30 of 35)	intron (NM_027711, intron 30 of 35)	-20530.0	NM_010169	14062.0	Mm.24816	NM_010169	ENSMUSG00000048376	F2r	AI482343|Cf2r|Par1|ThrR	coagulation factor II (thrombin) receptor	protein-coding	7.5	28.5	19.5	201.0	68.5	24.0	30.0	20.0
Merged-chr2-30062638-7	chr2	30062557	30062757	+	974.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023871, intron 1 of 7)	intron (NM_023871, intron 1 of 7)	661.0	NM_023871	56086.0	Mm.326055	NM_023871	ENSMUSG00000054766	Set	2610030F17Rik|5730420M11Rik|AA407739|I-2PP2A|StF-IT-1|TAF-I	SET nuclear oncogene	protein-coding	21.0	32.0	28.5	181.0	34.0	17.0	11.0	26.5
Merged-chr2-30554055-4	chr2	30553949	30554149	+	875.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-40995.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	23.0	18.0	10.0	119.5	29.5	11.5	13.5	6.0
Merged-chr18-4313447-1	chr18	4313347	4313547	+	611.0	f0_c57.idr	Intergenic	Intergenic	39506.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	6.0	4.5	12.0	167.5	19.5	8.0	13.5	8.0
Merged-chr9-85389190-4	chr9	85389099	85389299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62049.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	57.5	123.5	58.0	716.0	210.0	66.0	88.5	46.5
Merged-chr18-80707770-4	chr18	80707663	80707863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	CpG	410.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	24.5	30.5	27.5	269.0	46.0	16.0	30.5	40.5
Merged-chr7-88097922-4	chr7	88097819	88098019	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 9 of 9)	intron (NM_001081414, intron 9 of 9)	-180166.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	20.0	33.5	10.5	349.0	50.5	27.5	20.5	18.0
Merged-chr7-132672699-3	chr7	132672612	132672812	+	992.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 6 of 6)	intron (NM_029609, intron 6 of 6)	62069.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	13.5	24.0	21.5	319.0	2.0	5.5	5.0	2.5
Merged-chr7-35802938-4	chr7	35802828	35803028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177739)	promoter-TSS (NM_177739)	61.0	NM_177739	668501.0	Mm.286296	NM_177739	ENSMUSG00000044452	Zfp507	1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084	zinc finger protein 507	protein-coding	25.5	33.5	33.5	287.5	56.0	27.0	18.5	31.5
Merged-chr6-135350365-3	chr6	135350255	135350455	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12576.0	NM_010128	13730.0	Mm.182785	NM_010128	ENSMUSG00000030208	Emp1	I-8-09|TMP	epithelial membrane protein 1	protein-coding	55.5	73.0	84.0	1404.0	17.0	2.0	5.0	7.5
Merged-chr10-25286470-3	chr10	25286383	25286583	+	900.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 2 of 7)	ID_B1|SINE|B4	12680.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	8.0	4.5	7.0	243.0	21.0	4.0	9.5	5.0
Merged-chr13-95949566-4	chr13	95949484	95949684	+	854.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-57662.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	9.5	14.0	19.5	284.5	36.0	8.0	9.5	18.5
Merged-chr1-34468419-7	chr1	34468284	34468484	+	959.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 6 of 14)	intron (NM_011206, intron 6 of 14)	8638.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	13.0	9.5	6.5	96.0	18.5	13.0	9.5	7.0
Merged-chr2-75588765-4	chr2	75588671	75588871	+	894.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70488.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	14.0	23.0	10.0	224.0	32.5	12.0	19.5	10.5
Merged-chr12-52687567-3	chr12	52687489	52687689	+	839.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11794.0	NM_198111	238161.0	Mm.310822	NM_198111	ENSMUSG00000061603	Akap6	AI482140|Akapalpha|Akapbeta|PRKA	A kinase (PRKA) anchor protein 6	protein-coding	15.0	25.5	18.5	347.0	10.5	6.5	7.0	4.0
Merged-chr13-64100421-3	chr13	64100327	64100527	+	721.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001321, intron 9 of 11)	intron (NM_001001321, intron 9 of 11)	-11226.0	NM_008291	15487.0	Mm.5109	NM_008291	ENSMUSG00000033122	Hsd17b3	-	hydroxysteroid (17-beta) dehydrogenase 3	protein-coding	3.5	6.0	2.5	171.0	27.0	8.0	13.0	13.0
Merged-chr1-77515942-1	chr1	77515842	77516042	+	689.0	f0_balb.idr	promoter-TSS (NM_007936)	promoter-TSS (NM_007936)	-854.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	14.5	5.0	12.5	105.0	5.0	4.5	1.0	11.5
Merged-chr5-3146759-4	chr5	3146660	3146860	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-197133.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	14.5	26.5	12.0	210.0	49.5	20.0	25.0	29.5
Merged-chr6-135177478-4	chr6	135177315	135177515	+	796.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G|LTR|ERVL-MaLR	-9200.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	12.0	13.5	5.5	60.5	30.5	17.0	7.5	1.5
Merged-chr6-100286713-4	chr6	100286602	100286802	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019743, intron 1 of 4)	CpG	656.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	10.0	17.0	19.0	201.5	17.0	20.0	15.5	11.0
Merged-chr5-81022198-7	chr5	81022128	81022328	+	888.4761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 1 of 27)	intron (NM_198702, intron 1 of 27)	635.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	23.0	10.5	17.5	123.0	12.5	12.5	10.0	3.0
Merged-chr6-40236084-6	chr6	40236025	40236225	+	832.402771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004182, intron 2 of 2)	intron (NM_001004182, intron 2 of 2)	-89353.0	NM_023538	69923.0	Mm.32840	NM_023538	ENSMUSG00000029916	Agk	2610037M15Rik|6720408I04Rik|AI465370|Mulk	acylglycerol kinase	protein-coding	4.0	15.5	12.5	204.0	19.5	8.0	4.5	15.0
Merged-chr9-120577726-4	chr9	120577622	120577822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073359, exon 1 of 1)	non-coding (NR_073359, exon 1 of 1)	391.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	34.5	72.0	40.5	573.5	88.0	27.5	37.5	35.5
Merged-chr5-86068485-4	chr5	86068427	86068627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2944.0	NM_007683	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	31.0	30.0	35.5	452.5	66.5	25.5	28.0	19.0
Merged-chr12-85341340-4	chr12	85341234	85341434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026775, exon 5 of 5)	3' UTR (NM_026775, exon 5 of 5)	-1972.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	35.0	50.5	23.5	370.0	101.5	38.5	25.5	44.0
Merged-chr9-72111213-4	chr9	72111072	72111272	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253862)	promoter-TSS (NM_001253862)	29.0	NM_001253862	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	20.5	25.5	9.0	248.5	49.0	15.0	29.5	22.0
Merged-chr1-38011859-4	chr1	38011777	38011977	+	907.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	intron (NM_198303, intron 1 of 23)	13867.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	13.0	17.0	11.5	325.0	44.5	13.5	16.5	16.5
Merged-chr6-82766690-4	chr6	82766581	82766781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	intron (NM_013820, intron 1 of 17)	7773.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	44.5	55.5	50.0	580.0	111.5	42.0	46.0	32.0
Merged-chr1-152582101-4	chr1	152582026	152582226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	43091.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	42.0	24.0	22.0	510.0	64.0	18.0	27.5	22.5
Merged-chr15-51083814-4	chr15	51083714	51083914	+	966.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-193773.0	NM_032000	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	16.0	36.5	18.5	274.5	52.0	13.0	16.5	35.0
Merged-chr4-10962568-4	chr4	10962472	10962672	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45047.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	20.5	35.0	21.5	211.5	44.5	15.5	11.5	12.0
Merged-chr4-150855840-3	chr4	150855754	150855954	+	719.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040649)	promoter-TSS (NR_040649)	784.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	1.5	8.5	3.5	119.5	21.0	9.0	5.0	8.5
Merged-chr11-54879587-4	chr11	54879481	54879681	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13198.0	NM_008248	15254.0	Mm.425	NM_008248	ENSMUSG00000020267	Hint1	AA673479|Hint|Ipk1|PKCI-1|PRKCNH1	histidine triad nucleotide binding protein 1	protein-coding	20.5	30.0	13.5	322.0	62.0	27.0	24.5	30.0
Merged-chr7-96213120-1	chr7	96213020	96213220	+	582.0	f0_balb.idr	intron (NM_001310760, intron 1 of 32)	intron (NM_001310760, intron 1 of 32)	1449.0	NM_001310760	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	6.5	6.5	9.0	126.5	6.5	2.5	1.0	4.5
Merged-chr11-75623098-2	chr11	75622993	75623193	+	697.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_008850, intron 10 of 11)	intron (NM_008850, intron 10 of 11)	-7927.0	NM_008916	19062.0	Mm.1458	NM_008916	ENSMUSG00000006127	Inpp5k	C62|Pps|SKIP	inositol polyphosphate 5-phosphatase K	protein-coding	9.0	8.0	6.0	167.0	7.5	1.0	1.5	7.0
Merged-chr4-126030896-4	chr4	126030820	126031020	+	841.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252651, intron 4 of 14)	intron (NM_001252651, intron 4 of 14)	6261.0	NM_001252651	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	19.0	13.0	4.5	109.0	27.0	1.5	14.5	16.0
Merged-chr12-84175859-4	chr12	84175767	84175967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	18148.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	113.0	204.0	96.0	1788.0	293.5	119.0	134.5	107.5
Merged-chr14-70370680-4	chr14	70370569	70370769	+	971.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19245.0	NM_001135151	213053.0	Mm.270647	NM_144808	ENSMUSG00000022094	Slc39a14	FAD-123|ZIP-14|Zip14|fad123	solute carrier family 39 (zinc transporter), member 14	protein-coding	17.0	30.5	25.0	293.0	79.5	25.0	27.0	13.5
Merged-chr9-64925937-4	chr9	64925826	64926026	+	826.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144813, intron 9 of 9)	intron (NM_144813, intron 9 of 9)	25681.0	NM_144813	214111.0	Mm.156124	NM_144813	ENSMUSG00000034452	Slc24a1	-	solute carrier family 24 (sodium/potassium/calcium exchanger), member 1	protein-coding	7.0	14.5	10.0	197.0	23.0	7.5	8.0	7.0
Merged-chr15-25993544-4	chr15	25993434	25993634	+	970.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144523, intron 4 of 5)	intron (NM_144523, intron 4 of 5)	9168.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	18.5	22.5	8.5	331.0	84.0	22.5	24.5	19.0
Merged-chr13-3776652-4	chr13	3776571	3776771	+	694.62085	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57C2|LTR|ERV1	27647.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	11.0	14.0	15.5	195.5	24.5	7.0	12.5	14.5
Merged-chr15-25354928-4	chr15	25354838	25355038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58826.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	127.0	166.5	205.0	2850.5	357.5	73.0	162.5	101.0
Merged-chr11-76525128-3	chr11	76525029	76525229	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198894, intron 1 of 22)	intron (NM_198894, intron 1 of 22)	-15710.0	NM_198018	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	7.5	13.5	3.5	113.5	21.5	7.5	12.5	5.0
Merged-chr17-65884975-4	chr17	65884873	65885073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198949)	promoter-TSS (NM_001198949)	-50.0	NM_001198949	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	402.5	612.0	546.0	6877.5	1005.0	363.5	585.0	379.0
Merged-chr7-44501913-3	chr7	44501829	44502029	+	677.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028169)	TTS (NM_028169)	5341.0	NM_028169	75538.0	Mm.258841	NM_028169	ENSMUSG00000051113	Fam71e1	0610007G24Rik|1700021N13Rik|1700021P22Rik|GARI-L5	family with sequence similarity 71, member E1	protein-coding	10.0	12.0	0.5	45.5	12.5	5.5	6.0	12.5
Merged-chr13-69391784-4	chr13	69391731	69391931	+	828.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142033.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	5.5	4.5	6.0	81.5	35.5	15.0	12.5	10.5
Merged-chr17-15695771-4	chr17	15695668	15695868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9199.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	87.5	137.5	89.0	1754.0	238.5	87.0	122.5	108.5
Merged-chr17-31073507-4	chr17	31073402	31073602	+	919.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	15808.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	19.0	33.0	14.5	148.0	28.0	25.0	20.0	10.5
Merged-chr6-42396613-4	chr6	42396504	42396704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3634.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	193.5	268.0	220.0	3237.5	423.5	143.0	178.0	194.0
Merged-chr8-11636462-4	chr8	11636356	11636556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281975)	promoter-TSS (NM_001281975)	-699.0	NM_001281974	102334.0	Mm.12459	NM_133971	ENSMUSG00000031508	Ankrd10	4833425P12Rik|AW549277	ankyrin repeat domain 10	protein-coding	92.0	105.5	81.0	1408.5	237.5	74.5	107.0	76.5
Merged-chr17-78434935-2	chr17	78434835	78435035	+	860.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-16783.0	NM_001285940	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	5.0	5.5	8.0	70.5	21.0	6.0	7.5	4.5
Merged-chr4-116995348-4	chr4	116995257	116995457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009478)	promoter-TSS (NM_009478)	9.0	NM_175244	76608.0	Mm.251420	NM_175244	ENSMUSG00000046861	Hectd3	1700064K09Rik|AI467540|AW743312	HECT domain E3 ubiquitin protein ligase 3	protein-coding	21.0	30.5	27.0	313.0	43.5	19.5	34.0	21.0
Merged-chr19-45843610-4	chr19	45843525	45843725	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198296, intron 24 of 25)	intron (NM_198296, intron 24 of 25)	-27562.0	NM_145703	80906.0	Mm.213204	NM_030716	ENSMUSG00000025221	Kcnip2	KChIP2	Kv channel-interacting protein 2	protein-coding	44.5	37.5	27.0	637.0	73.0	24.5	22.5	32.0
Merged-chr4-62869805-2	chr4	62869709	62869909	+	714.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-95765.0	NM_028326	72701.0	Mm.26479	NM_028326	ENSMUSG00000028358	Zfp618	2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1	zinc finger protein 618	protein-coding	19.0	8.5	17.5	171.0	2.0	0.0	0.0	1.0
Merged-chr17-27037828-2	chr17	27037746	27037946	+	855.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8587.0	NM_027544	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	1.5	0.0	3.0	2.0	12.0	6.5	14.0	4.5
Merged-chr8-120796358-4	chr8	120796258	120796458	+	972.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57719.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	14.0	13.5	17.0	153.0	22.5	4.5	12.5	15.5
Merged-chr4-141874963-4	chr4	141874864	141875064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025994)	promoter-TSS (NM_025994)	-44.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	99.0	131.5	79.5	1060.5	304.0	96.5	159.5	110.5
Merged-chr13-113486652-4	chr13	113486559	113486759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	16185.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	189.0	237.5	234.5	3366.0	429.0	137.5	217.0	170.0
Merged-chr9-66611831-4	chr9	66611717	66611917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18702.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	29.5	48.5	23.5	237.5	67.0	29.0	31.0	28.0
Merged-chr15-43282417-2	chr15	43282317	43282517	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008388, intron 1 of 12)	CpG	319.0	NM_008388	16341.0	Mm.289992	NM_008388	ENSMUSG00000022336	Eif3e	48kDa|Eif3s6|Int6|eIF3-p46|eIF3-p48	eukaryotic translation initiation factor 3, subunit E	protein-coding	42.0	51.5	54.0	454.5	88.0	37.0	45.5	82.5
Merged-chr4-154019670-4	chr4	154019566	154019766	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163722)	TTS (NM_001163722)	6378.0	NM_001163722	68859.0	Mm.477488	NM_001033144	ENSMUSG00000078350	Smim1	0610011H04Rik|1190007F08Rik|2700009I11Rik	small integral membrane protein 1	protein-coding	22.0	17.0	14.0	257.0	28.5	13.0	15.5	7.0
Merged-chr4-86421601-3	chr4	86421514	86421714	+	858.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029967, intron 25 of 27)	Lx8|LINE|L1	136689.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	6.0	4.5	7.0	162.5	34.5	3.5	8.0	7.5
Merged-chr8-83297576-3	chr8	83297473	83297673	+	826.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009463, intron 5 of 5)	intron (NM_009463, intron 5 of 5)	7225.0	NM_009463	22227.0	Mm.4177	NM_009463	ENSMUSG00000031710	Ucp1	AI385626|Slc25a7|Ucp	uncoupling protein 1 (mitochondrial, proton carrier)	protein-coding	15.0	11.0	4.5	171.0	15.0	6.5	9.0	7.5
Merged-chr10-96371123-4	chr10	96371024	96371224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144917.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	47.5	40.0	23.0	440.5	74.5	11.5	42.5	29.0
Merged-chr12-52308800-4	chr12	52308686	52308886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 10 of 10)	intron (NM_029760, intron 10 of 10)	171823.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	46.0	41.0	52.5	1179.0	77.5	26.0	70.5	34.0
Merged-chr4-132768195-4	chr4	132768106	132768306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011284)	promoter-TSS (NM_011284)	-154.0	NM_011284	19891.0	Mm.2870	NM_011284	ENSMUSG00000028884	Rpa2	AA409079|AI325195|AU020965|RPA34|Rf-A2	replication protein A2	protein-coding	145.0	169.0	76.5	1140.5	289.0	121.0	134.5	116.5
Merged-chr2-91453436-3	chr2	91453316	91453516	+	824.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4115.0	NM_172668	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	7.0	12.5	8.0	262.0	14.5	10.5	7.0	18.0
Merged-chr19-18625240-4	chr19	18625121	18625321	+	762.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	6592.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	7.0	12.0	7.0	106.5	13.5	10.0	6.5	5.5
Merged-chr14-66231087-4	chr14	66230969	66231169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-17245.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	144.5	270.0	139.0	1820.0	368.0	128.5	134.5	84.5
Merged-chr16-78200280-4	chr16	78200181	78200381	+	951.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55173.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	18.5	29.0	23.0	314.5	34.5	9.5	14.5	18.0
Merged-chr5-38684662-4	chr5	38684542	38684742	+	987.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081144, intron 1 of 3)	CpG	184.0	NM_001177902	100515.0	Mm.38277	NM_001081144	ENSMUSG00000046572	Zfp518b	6820424L24Rik|AA410078|AI661722|Znf518b	zinc finger protein 518B	protein-coding	17.0	20.5	35.0	313.5	14.5	17.5	16.0	14.0
Merged-chr2-156863044-4	chr2	156862951	156863151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015591)	promoter-TSS (NR_015591)	-71.0	NM_026124	67388.0	Mm.29264	NM_026124	ENSMUSG00000027637	1110008F13Rik	AI316789	RIKEN cDNA 1110008F13 gene	protein-coding	192.5	356.0	169.0	2272.5	395.0	156.5	194.5	147.0
Merged-chr5-76705627-4	chr5	76705523	76705723	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	113909.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	23.0	22.0	18.5	412.5	89.5	34.5	26.5	22.0
Merged-chr8-103577363-4	chr8	103577285	103577485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26414.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	157.0	177.5	278.0	3588.0	277.0	129.0	178.5	211.0
Merged-chr9-66975423-4	chr9	66975324	66975524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030717)	promoter-TSS (NM_030717)	60.0	NM_030717	80907.0	Mm.157882	NM_030717	ENSMUSG00000032370	Lactb	LACT-1|Lact1|Mrpl56	lactamase, beta	protein-coding	42.0	64.5	45.5	519.0	154.5	43.5	48.5	41.5
Merged-chr2-25332623-4	chr2	25332528	25332728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027448)	promoter-TSS (NR_027448)	-57.0	NR_027448	100272219.0	Mm.382103	NR_027448	ENSMUSG00000097345	AA543186	-	expressed sequence AA543186	ncRNA	198.0	286.5	121.0	1728.5	472.5	173.5	143.0	182.0
Merged-chr2-60852057-4	chr2	60851986	60852186	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	29352.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	32.0	26.5	26.0	549.5	87.0	30.0	56.0	20.0
Merged-chr11-104367117-4	chr11	104366987	104367187	+	935.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 5 of 14)	ID_B1|SINE|B4	75204.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	17.0	26.5	26.5	366.0	33.5	10.0	14.0	18.5
Merged-chr15-6708882-3	chr15	6708786	6708986	+	885.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030168, intron 2 of 37)	CpG-4767	505.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	9.5	16.0	20.5	80.5	22.5	9.5	6.5	14.0
Merged-chr14-61666061-4	chr14	61665960	61666160	+	954.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	16313.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	22.5	29.0	31.5	330.0	44.5	10.0	22.5	20.0
Merged-chr17-13867631-4	chr17	13867517	13867717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 22 of 33)	intron (NR_151731, intron 22 of 33)	-80756.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	108.0	92.5	137.5	1735.0	128.0	49.5	89.0	69.0
Merged-chr2-120652151-5	chr2	120652090	120652290	+	971.3599849999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGTG)n|Simple_repeat|Simple_repeat	42595.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	8.0	4.0	3.5	84.5	29.0	8.5	30.5	47.0
Merged-chr18-34372401-2	chr18	34372301	34372501	+	774.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007874, intron 2 of 4)	intron (NM_007874, intron 2 of 4)	1014.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	3.0	4.5	7.5	49.5	9.0	5.0	6.5	5.0
Merged-chr2-167752999-4	chr2	167752904	167753104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61827.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	85.0	118.5	73.0	528.0	153.5	68.5	52.5	39.5
Merged-chr9-62972349-4	chr9	62972287	62972487	+	934.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 1 of 13)	intron (NM_019663, intron 1 of 13)	8492.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	10.0	10.5	7.0	108.0	24.0	5.5	7.5	10.0
Merged-chr13-111896475-4	chr13	111896380	111896580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28544.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	73.0	45.5	63.0	1307.5	99.5	20.5	44.0	41.5
Merged-chr6-134036873-6	chr6	134036740	134036940	+	807.972229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	intron (NM_007961, intron 1 of 7)	1140.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	3.5	13.0	2.0	31.0	13.5	8.0	9.5	10.0
Merged-chr19-3931922-4	chr19	3931802	3932002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2186.0	NM_026316	67689.0	Mm.109341	NM_026316	ENSMUSG00000024885	Aldh3b1	1700001N19Rik|ALDH4|ALDH7	aldehyde dehydrogenase 3 family, member B1	protein-coding	157.0	260.0	174.5	2150.5	300.0	120.0	141.0	122.0
Merged-chr8-83715160-4	chr8	83715092	83715292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197982)	promoter-TSS (NM_197982)	15.0	NM_197982	68278.0	Mm.28222	NM_197982	ENSMUSG00000005481	Ddx39	2610307C23Rik|BAT1|DDXL|Ddx39a|URH49	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	protein-coding	163.5	308.0	154.5	2194.0	456.0	186.5	224.0	191.5
Merged-chr8-94199678-4	chr8	94199559	94199759	+	843.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14905.0	NM_001357266	71805.0	Mm.458170	NM_172410	ENSMUSG00000032939	Nup93	2410008G02Rik	nucleoporin 93	protein-coding	5.0	9.5	12.0	119.5	35.5	11.0	8.0	8.5
Merged-chr4-126062835-2	chr4	126062735	126062935	+	763.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172701, intron 1 of 9)	T-rich|Low_complexity|Low_complexity	4270.0	NM_172701	230751.0	Mm.38907	NM_172701	ENSMUSG00000042616	Oscp1	1810007P19Rik|5730415O04|6030436A01Rik	organic solute carrier partner 1	protein-coding	1.0	3.5	2.0	32.0	24.0	7.0	7.5	10.0
Merged-chr6-140767489-4	chr6	140767387	140767587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140602.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	29.5	34.5	42.0	601.0	115.5	50.0	65.5	50.5
Merged-chr1-123929301-2	chr1	123929201	123929401	+	892.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_199021, intron 1 of 25)	RMER13A2|LTR|ERVK	116258.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	4.0	5.5	4.5	69.5	14.5	5.5	5.5	11.0
Merged-chr9-94665120-1	chr9	94665020	94665220	+	773.0	f0_balb.idr	Intergenic	Intergenic	-4772.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	14.5	11.5	10.0	99.5	37.5	14.5	13.5	9.5
Merged-chr3-116191579-4	chr3	116191466	116191666	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61878.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	7.5	23.0	6.5	174.5	36.5	11.0	21.0	11.0
Merged-chr5-146777251-4	chr5	146777133	146777333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	17723.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	59.5	55.5	53.0	583.5	135.5	52.5	53.0	57.0
Merged-chr2-120348324-4	chr2	120348206	120348406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147153, intron 2 of 25)	intron (NM_147153, intron 2 of 25)	4827.0	NR_027618	269338.0	Mm.246131	NM_147153	ENSMUSG00000027291	Vps39	A230065P22Rik|AW743070|Vam6|Vam6P|mVam6	VPS39 HOPS complex subunit	protein-coding	59.0	71.0	42.0	1084.0	125.0	36.5	48.0	53.0
Merged-chr5-99365375-4	chr5	99365219	99365419	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-112392.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	18.0	32.5	30.0	188.5	51.5	4.5	11.5	10.0
Merged-chr9-8004626-3	chr9	8004498	8004698	+	742.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171147)	promoter-TSS (NM_001171147)	-2.0	NM_001171147	22601.0	Mm.221992	NM_009534	ENSMUSG00000053110	Yap1	AI325207|Yap|Yap65|Yki|Yorkie	yes-associated protein 1	protein-coding	0.5	7.0	4.0	80.0	17.0	8.5	6.0	5.5
Merged-chr9-116101413-4	chr9	116101319	116101519	+	899.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	73944.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	14.0	17.5	17.5	234.5	29.0	6.0	11.0	10.0
Merged-chr16-88480346-4	chr16	88480245	88480445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26633.0	NM_181490	239931.0	Mm.126860	NM_181490	ENSMUSG00000055811	Cldn17	-	claudin 17	protein-coding	64.5	86.0	60.5	1362.0	111.5	48.5	49.5	43.0
Merged-chr16-8766386-4	chr16	8766303	8766503	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28061.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	36.0	33.5	20.5	561.5	60.0	23.5	15.5	23.5
Merged-chr12-40569265-4	chr12	40569165	40569365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	123212.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	74.0	92.5	67.5	914.5	105.0	76.0	60.0	40.0
Merged-chr6-116124270-3	chr6	116124168	116124368	+	930.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	MT2B2|LTR|ERVL	69106.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	11.0	13.5	9.5	192.0	10.5	4.5	13.0	6.0
Merged-chr7-90052393-1	chr7	90052293	90052493	+	908.6666869999999	f0_c57.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	23234.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	1.0	4.0	3.0	7.5	39.0	23.5	15.0	9.5
Merged-chr1-84286400-3	chr1	84286301	84286501	+	821.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1756.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	28.0	16.5	15.5	147.0	32.0	5.0	9.0	7.5
Merged-chr7-35710483-4	chr7	35710339	35710539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 12 of 18)	intron (NM_178704, intron 12 of 18)	44015.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	55.5	71.0	104.5	868.5	57.5	22.5	37.0	40.0
Merged-chr6-87153131-4	chr6	87153039	87153239	+	913.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054041, intron 17 of 17)	ORR1F|LTR|ERVL-MaLR	48393.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	9.0	11.5	15.0	192.5	34.0	6.5	7.5	16.5
Merged-chr9-107295696-2	chr9	107295584	107295784	+	645.0	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_009895)	promoter-TSS (NM_009895)	-975.0	NM_009895	12700.0	Mm.4592	NM_009895	ENSMUSG00000032578	Cish	CIS-1|CIS1|Cis|F17|F23|SOCS	cytokine inducible SH2-containing protein	protein-coding	9.0	8.0	1.5	38.0	40.5	8.0	7.0	4.5
Merged-chr11-60936154-4	chr11	60936057	60936257	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008928, intron 1 of 11)	MIRb|SINE|MIR	4100.0	NM_008928	26397.0	Mm.18494	NM_008928	ENSMUSG00000018932	Map2k3	AW212142|MEK3|MKK3|Prkmk3|mMKK3b	mitogen-activated protein kinase kinase 3	protein-coding	20.5	22.5	16.5	318.5	46.5	18.0	27.5	32.0
Merged-chr2-11288622-4	chr2	11288525	11288725	+	970.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 15 of 17)	intron (NM_008859, intron 15 of 17)	-50864.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	24.5	14.0	20.5	231.0	52.0	11.0	37.5	22.0
Merged-chr15-59145803-4	chr15	59145713	59145913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63787.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	28.5	40.0	34.0	526.5	74.5	18.0	38.0	51.0
Merged-chr16-76364807-4	chr16	76364709	76364909	+	851.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	8240.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	12.0	20.0	10.5	156.5	29.0	13.0	7.5	14.5
Merged-chr15-6565374-4	chr15	6565269	6565469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14478.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	94.5	156.5	95.0	1333.5	178.5	72.5	82.5	63.0
Merged-chr2-164487205-5	chr2	164487059	164487259	+	800.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048229)	promoter-TSS (NM_001048229)	282.0	NM_001048228	52840.0	Mm.256927	NM_026797	ENSMUSG00000017734	Dbndd2	1110017A21Rik|2900022J10Rik|AU041050|AW048677|D2Bwg0891e|Nkip|R74724	dysbindin (dystrobrevin binding protein 1) domain containing 2	protein-coding	9.0	13.0	5.0	104.0	21.5	6.0	8.5	6.0
Merged-chr9-118647645-2	chr9	118647549	118647749	+	646.049988	f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 4 of 27)	intron (NM_133721, intron 4 of 27)	40940.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	5.5	8.0	2.0	82.0	10.5	6.5	4.5	10.0
Merged-chr2-53200706-4	chr2	53200594	53200794	+	952.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022989, intron 2 of 3)	intron (NM_022989, intron 2 of 3)	8610.0	NM_022989	65103.0	Mm.37623	NM_022989	ENSMUSG00000026960	Arl6ip6	2310057C01Rik|2610529A11Rik|Aip-6	ADP-ribosylation factor-like 6 interacting protein 6	protein-coding	22.5	20.0	17.5	187.5	32.5	15.0	16.0	16.0
Merged-chr15-62106707-4	chr15	62106594	62106794	+	973.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	67437.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	41.5	22.5	22.0	730.0	41.5	22.5	19.5	44.0
Merged-chr17-64591898-3	chr17	64591809	64592009	+	919.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9740.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	8.5	4.5	3.5	28.5	21.5	5.5	15.0	6.0
Merged-chr10-11323758-3	chr10	11323656	11323856	+	996.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19689.0	NM_010146	13853.0	Mm.89946	NM_010146	ENSMUSG00000055493	Epm2a	TG-B|Tg(TcraK,TcrbK)TG-BFlv	epilepsy, progressive myoclonic epilepsy, type 2 gene alpha	protein-coding	22.0	21.5	24.0	354.5	42.0	7.5	4.5	10.5
Merged-chr2-166806140-1	chr2	166806040	166806240	+	1000.0	f0_balb.idr	intron (NM_001085495, intron 1 of 38)	intron (NM_001085495, intron 1 of 38)	559.0	NM_001085495	99371.0	Mm.297192	NM_001085495	ENSMUSG00000074582	Arfgef2	AI463430|AW493672|BIG2|E230011G24Rik	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	protein-coding	4.5	29.5	15.0	169.5	44.5	21.0	15.0	22.5
Merged-chr9-78109107-4	chr9	78108982	78109182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023605)	promoter-TSS (NM_023605)	-17.0	NM_001081490	71538.0	Mm.28584	NM_023605	ENSMUSG00000001366	Fbxo9	9030401P18Rik|AA986398	f-box protein 9	protein-coding	152.0	173.5	103.0	1984.0	316.5	117.5	159.5	137.5
Merged-chr14-70111044-4	chr14	70110995	70111195	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021328, intron 1 of 8)	intron (NM_021328, intron 1 of 8)	11002.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	13.5	32.0	26.0	271.0	19.0	13.0	17.5	16.0
Merged-chr13-56712378-3	chr13	56712284	56712484	+	935.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164042, intron 1 of 6)	intron (NM_001164042, intron 1 of 6)	8716.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	9.5	8.5	3.5	217.0	16.0	9.5	15.5	13.5
Merged-chr13-49187632-4	chr13	49187542	49187742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013610)	promoter-TSS (NM_013610)	95.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	220.5	451.0	223.5	2431.0	560.0	294.0	249.5	193.5
Merged-chr3-101597903-4	chr3	101597795	101597995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	6812.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	61.5	62.0	27.5	758.5	106.0	44.5	50.0	39.0
Merged-chr12-9030999-4	chr12	9030905	9031105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029321, intron 1 of 2)	intron (NM_029321, intron 1 of 2)	1008.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	33.0	41.5	51.0	713.5	85.5	25.0	57.0	36.5
Merged-chr5-100820911-4	chr5	100820818	100821018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172405)	promoter-TSS (NM_172405)	17.0	NM_172405	70681.0	Mm.486560	NM_172405	ENSMUSG00000035234	Abraxas1	3830405G04Rik|5630400M01Rik|AI506069|AL024423|AV118690|Ccdc98|Fam175a	BRCA1 A complex subunit	protein-coding	40.5	38.0	37.5	467.0	68.0	17.5	29.5	24.0
Merged-chr11-20204513-4	chr11	20204418	20204618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 1 of 5)	B1F|SINE|Alu	3106.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	30.0	78.0	74.0	1203.0	182.0	62.0	50.5	59.5
Merged-chr15-66825586-1	chr15	66825486	66825686	+	740.333313	f0_balb.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	6243.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	11.0	7.5	10.5	118.0	8.5	4.0	6.5	3.0
Merged-chr18-39639005-4	chr18	39638888	39639088	+	933.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	-134509.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	14.0	14.5	12.0	94.5	41.0	8.0	8.5	14.0
Merged-chr4-130797987-3	chr4	130797890	130798090	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	5453.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	1.5	5.5	5.5	72.0	8.5	6.5	6.5	8.5
Merged-chr16-8412433-3	chr16	8412316	8412516	+	760.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029070, intron 2 of 3)	intron (NM_029070, intron 2 of 3)	12720.0	NM_029070	74720.0	Mm.159318	NM_029070	ENSMUSG00000022715	Tmem114	4930511J11Rik|Cldn26	transmembrane protein 114	protein-coding	5.0	8.0	3.5	100.0	5.0	7.5	12.0	9.5
Merged-chr2-10080494-4	chr2	10080370	10080570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025280)	promoter-TSS (NM_025280)	40.0	NM_020615	11949.0	Mm.12677	NM_020615	ENSMUSG00000025781	Atp5c1	1700094F02Rik|Atp5f1c	ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1	protein-coding	164.5	286.0	226.0	3444.5	494.5	203.0	244.5	222.5
Merged-chr13-64402110-4	chr13	64401997	64402197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER68-int|LTR|ERVL	-30456.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	104.5	108.5	141.5	2154.5	141.0	36.5	93.5	93.5
Merged-chr12-21336014-4	chr12	21335912	21336112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 11 of 18)	intron (NM_001291871, intron 11 of 18)	19620.0	NM_026347	67732.0	Mm.335830	NM_026347	ENSMUSG00000062054	Iah1	1500019E20Rik|4833421E05Rik	isoamyl acetate-hydrolyzing esterase 1 homolog	protein-coding	121.0	212.0	88.5	1341.5	393.0	141.0	141.5	113.0
Merged-chr9-72468944-3	chr9	72468773	72468973	+	752.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009359, intron 10 of 11)	intron (NM_009359, intron 10 of 11)	23086.0	NM_009359	21778.0	Mm.14485	NM_009359	ENSMUSG00000090626	Tex9	Gm19407|tsec-1	testis expressed gene 9	protein-coding	4.0	0.5	6.0	22.0	8.0	8.0	6.5	7.5
Merged-chr4-133613775-4	chr4	133613672	133613872	+	950.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 4 of 7)	intron (NM_001017968, intron 4 of 7)	-11604.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	25.0	20.0	56.0	427.0	28.5	10.5	12.5	10.0
Merged-chr14-14602102-4	chr14	14602003	14602203	+	820.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100922.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	19.0	11.5	11.5	277.5	65.0	11.0	10.0	15.5
Merged-chr3-22087940-3	chr3	22087843	22088043	+	721.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	11291.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	7.0	2.5	10.0	168.0	14.5	13.0	6.0	11.0
Merged-chr19-23028401-4	chr19	23028300	23028500	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112826.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	32.0	30.5	34.0	373.5	48.5	23.5	29.5	10.5
Merged-chr10-96620076-5	chr10	96619967	96620167	+	947.405701	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007569, exon 2 of 2)	3' UTR (NM_007569, exon 2 of 2)	3066.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	14.0	20.0	18.0	221.0	23.5	12.5	7.5	5.5
Merged-chr4-141015473-4	chr4	141015376	141015576	+	649.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161799, intron 8 of 8)	intron (NM_001161799, intron 8 of 8)	4839.0	NM_008546	17150.0	Mm.7386	NM_008546	ENSMUSG00000060572	Mfap2	AI893631|Magp|Magp1	microfibrillar-associated protein 2	protein-coding	8.5	8.0	8.5	128.0	17.5	6.5	12.5	16.5
Merged-chr11-6484570-6	chr11	6484485	6484685	+	874.5361330000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8509.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	5.5	10.0	5.5	57.0	26.5	6.5	6.0	6.0
Merged-chr6-39259379-4	chr6	39259255	39259455	+	893.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52582.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	15.5	17.5	19.0	415.5	25.0	8.0	15.0	17.0
Merged-chr2-80062845-3	chr2	80062730	80062930	+	812.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	L1_Mus3|LINE|L1	-23928.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	6.5	16.0	22.5	283.5	15.5	2.0	8.5	11.0
Merged-chr5-65247473-4	chr5	65247382	65247582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153391, exon 28 of 37)	exon (NM_153391, exon 28 of 37)	47786.0	NM_153391	213081.0	Mm.127550	NM_153391	ENSMUSG00000037890	Wdr19	C330027H04Rik|D330023L08Rik|DYF2|Ift144|PWDMP|mKIAA1638	WD repeat domain 19	protein-coding	57.0	78.5	43.5	549.0	139.5	70.5	22.5	34.5
Merged-chr1-191576042-4	chr1	191575932	191576132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029766)	promoter-TSS (NM_029766)	396.0	NM_001306204	77065.0	Mm.338175	NM_178632	ENSMUSG00000037461	Ints7	5930412E23Rik|int7	integrator complex subunit 7	protein-coding	94.0	158.5	75.5	1343.5	306.0	103.5	160.0	130.0
Merged-chr8-25062136-4	chr8	25062041	25062241	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 5 of 11)	intron (NM_031257, intron 5 of 11)	-23179.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	21.0	28.0	24.5	381.0	54.0	21.0	16.5	26.5
Merged-chr6-97210695-4	chr6	97210586	97210786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022992)	promoter-TSS (NM_022992)	-106.0	NM_022992	65106.0	Mm.291014	NM_022992	ENSMUSG00000035199	Arl6ip5	5930404D22Rik|AV001879|Aip-5|Gtrap3-18|addiscin	ADP-ribosylation factor-like 6 interacting protein 5	protein-coding	56.5	100.0	79.0	659.5	189.0	68.0	79.0	73.0
Merged-chr11-113334658-4	chr11	113334546	113334746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 6 of 9)	intron (NM_027216, intron 6 of 9)	-124977.0	NR_040276	319871.0	Mm.383743	NR_040276	ENSMUSG00000085421	4732490B19Rik	-	RIKEN cDNA 4732490B19 gene	ncRNA	113.5	114.0	86.5	1284.5	62.5	24.5	36.0	31.0
Merged-chr1-92676447-4	chr1	92676364	92676564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27623.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	7.5	18.5	20.0	232.5	28.0	10.0	22.0	9.0
Merged-chr5-43391920-4	chr5	43391849	43392049	+	906.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123620.0	NM_001135172	109323.0	Mm.275553	NM_175425	ENSMUSG00000061535	C1qtnf7	5530401N20Rik|8430425G24Rik|Ctrp7	C1q and tumor necrosis factor related protein 7	protein-coding	7.0	13.5	23.0	165.5	21.0	8.5	13.5	23.5
Merged-chr2-73541048-4	chr2	73540933	73541133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11546.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	83.0	82.0	95.5	1312.0	196.0	41.0	58.5	103.0
Merged-chr8-88656182-4	chr8	88656102	88656302	+	970.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 2 of 12)	intron (NM_145857, intron 2 of 12)	8855.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	14.5	27.0	24.0	204.0	38.0	26.0	21.5	15.5
Merged-chr2-32966223-3	chr2	32966120	32966320	+	938.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	2919.0	NR_002898	104367.0	Mm.250030	NR_002898	ENSMUSG00000065124	Snora65	MBII-351|Rnu65	small nucleolar RNA, H/ACA box 65	snoRNA	12.5	8.5	10.0	130.5	27.5	6.5	2.5	5.0
Merged-chr8-61907353-4	chr8	61907244	61907444	+	758.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4650.0	NM_001293772	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	4.0	11.5	5.0	176.0	28.0	7.0	7.5	13.5
Merged-chr1-85900687-3	chr1	85900590	85900790	+	874.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022417, intron 1 of 5)	intron (NM_022417, intron 1 of 5)	6180.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	4.5	3.5	8.0	51.0	14.5	9.5	10.0	9.5
Merged-chr10-118581537-4	chr10	118581437	118581637	+	955.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25012.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	11.0	11.0	25.0	567.5	17.5	11.0	18.5	21.0
Merged-chr17-27501825-3	chr17	27501724	27501924	+	944.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013385, intron 1 of 8)	intron (NM_001013385, intron 1 of 8)	1709.0	NM_001013385	268934.0	Mm.358940	NM_001013385	ENSMUSG00000063239	Grm4	Gprc1d|mGluR4	glutamate receptor, metabotropic 4	protein-coding	11.5	11.5	16.0	109.5	22.5	2.0	4.0	5.0
Merged-chr2-152802380-4	chr2	152802281	152802481	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	B2_Mm2|SINE|B2	26108.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	53.0	71.0	74.0	780.5	95.5	15.0	21.5	22.5
Merged-chr7-109838817-4	chr7	109838705	109838905	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020052, intron 7 of 21)	intron (NM_020052, intron 7 of 21)	26874.0	NM_020052	56788.0	Mm.40447	NM_020052	ENSMUSG00000007279	Scube2	4932442O19Rik|Cegf1|Cegp1	signal peptide, CUB domain, EGF-like 2	protein-coding	24.5	48.0	33.5	603.5	141.5	17.0	46.5	61.5
Merged-chr13-55321726-6	chr13	55321438	55321638	+	923.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025596)	promoter-TSS (NM_025596)	442.0	NM_009000	19336.0	Mm.220923	NM_009000	ENSMUSG00000034789	Rab24	6530406O07Rik	RAB24, member RAS oncogene family	protein-coding	7.0	5.5	11.0	55.0	11.5	8.5	6.5	7.5
Merged-chr10-128094072-2	chr10	128093972	128094172	+	904.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 1 of 29)	intron (NM_054078, intron 1 of 29)	1289.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	5.0	0.0	1.5	36.0	13.5	8.0	6.0	4.5
Merged-chr14-31410397-4	chr14	31410286	31410486	+	913.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	7291.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	11.0	25.5	19.0	355.0	25.0	5.5	13.0	4.5
Merged-chr13-99287398-4	chr13	99287281	99287481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57297.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	55.0	50.0	46.5	824.5	101.5	34.5	37.0	49.5
Merged-chr3-107038339-4	chr3	107038208	107038408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008418)	TTS (NM_008418)	-1196.0	NR_033498	229694.0	Mm.347584	NM_173787	ENSMUSG00000056145	AI504432	A230102G19	expressed sequence AI504432	ncRNA	25.5	28.0	21.0	382.5	67.5	9.0	18.5	22.0
Merged-chr5-32196189-4	chr5	32196071	32196271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36537.0	NM_030072	665270.0	Mm.160067	NM_030072	ENSMUSG00000029134	Plb1	4632413E21Rik|4930433E17Rik|4930539A06Rik|BC033606	phospholipase B1	protein-coding	77.0	107.0	103.5	1172.5	258.0	97.5	114.0	125.0
Merged-chr19-36816127-3	chr19	36816047	36816247	+	812.844421	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18085.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	7.0	16.0	12.0	165.0	15.0	9.0	4.5	3.0
Merged-chr1-40084584-4	chr1	40084458	40084658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360801)	promoter-TSS (NM_001360801)	-156.0	NM_010555	16178.0	Mm.1349	NM_010555	ENSMUSG00000026073	Il1r2	CD121b|Il1r-2	interleukin 1 receptor, type II	protein-coding	41.0	64.0	50.0	698.0	132.5	42.0	55.5	56.5
Merged-chr19-41932751-4	chr19	41932646	41932846	+	957.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023740)	promoter-TSS (NM_023740)	568.0	NM_001164561	66583.0	Mm.289086	NM_025644	ENSMUSG00000034321	Exosc1	2610035C18Rik|2610104C07Rik|2610312F07Rik|AI447561	exosome component 1	protein-coding	17.0	37.0	15.0	44.0	45.5	16.0	14.5	15.0
Merged-chr7-121034436-6	chr7	121034284	121034484	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021554)	promoter-TSS (NM_021554)	-61.0	NM_021554	59052.0	Mm.29122	NM_021554	ENSMUSG00000030876	Mettl9	0610012D09Rik|AA517660|Drev|MNCb-5680	methyltransferase like 9	protein-coding	33.0	49.0	16.0	236.5	106.0	37.0	54.5	44.5
Merged-chr11-32561789-6	chr11	32561697	32561897	+	965.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	28531.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	14.5	10.0	11.0	358.5	25.5	9.5	11.5	13.5
Merged-chr11-68520086-6	chr11	68520061	68520261	+	884.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004435, intron 1 of 19)	intron (NM_001004435, intron 1 of 19)	17142.0	NR_126154	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	1.5	8.0	2.0	27.0	5.0	7.0	4.5	7.5
Merged-chr5-148634155-3	chr5	148634061	148634261	+	916.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81373.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	2.0	4.0	5.0	16.0	70.5	18.5	16.5	15.0
Merged-chr11-63402930-1	chr11	63402830	63403030	+	635.0	f0_c57.idr	Intergenic	Intergenic	270127.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	0.0	4.5	1.0	7.0	18.0	10.5	12.5	8.0
Merged-chr16-44991144-4	chr16	44991038	44991238	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47460.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	40.0	42.0	48.5	672.0	46.5	30.0	17.5	13.5
Merged-chr18-9489679-6	chr18	9489681	9489881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39627.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	63.0	70.5	93.5	1032.5	175.5	42.0	49.5	67.0
Merged-chr13-40843595-3	chr13	40843459	40843659	+	797.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16209.0	NM_023887	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	4.0	9.0	6.5	80.0	18.5	9.0	6.5	5.5
Merged-chr7-16056710-4	chr7	16056674	16056874	+	931.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-15071.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	9.5	10.0	8.5	104.5	17.0	9.5	12.0	22.5
Merged-chr1-135154605-4	chr1	135154502	135154702	+	865.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026823, intron 5 of 6)	intron (NM_026823, intron 5 of 6)	7768.0	NM_026823	68724.0	Mm.174998	NM_026823	ENSMUSG00000026426	Arl8a	1110033P22Rik|Arl10b|gie2	ADP-ribosylation factor-like 8A	protein-coding	18.0	17.0	6.5	112.0	25.0	9.0	14.0	16.5
Merged-chr9-99390675-3	chr9	99390512	99390712	+	653.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008624, intron 4 of 5)	intron (NM_008624, intron 4 of 5)	-32082.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	3.5	5.0	9.0	90.0	8.5	8.0	6.5	10.5
Merged-chr16-57211287-4	chr16	57211204	57211404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 4 of 17)	(TC)n|Simple_repeat|Simple_repeat	-9833.0	NM_001358434	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	58.0	75.0	93.0	560.0	136.0	54.0	43.5	75.5
Merged-chr17-12171292-4	chr17	12171117	12171317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026644, intron 2 of 8)	intron (NM_026644, intron 2 of 8)	51933.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	14.0	46.5	72.0	640.0	174.0	57.0	85.0	55.5
Merged-chr7-45125197-2	chr7	45125097	45125297	+	782.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013725)	promoter-TSS (NM_013725)	-808.0	NM_013725	27207.0	Mm.196538	NM_013725	ENSMUSG00000003429	Rps11	-	ribosomal protein S11	protein-coding	5.0	18.5	7.0	28.5	18.5	2.5	7.5	10.0
Merged-chr15-37906279-2	chr15	37906167	37906367	+	634.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	54589.0	NM_001357023	382985.0	Mm.24738	NM_199476	ENSMUSG00000022292	Rrm2b	p53R2	ribonucleotide reductase M2 B (TP53 inducible)	protein-coding	0.0	6.0	5.5	75.5	21.0	4.5	5.5	11.0
Merged-chr7-142449357-4	chr7	142449257	142449457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	6889.0	NM_009405	21953.0	Mm.39469	NM_009405	ENSMUSG00000031097	Tnni2	-	troponin I, skeletal, fast 2	protein-coding	22.0	44.5	22.5	309.5	162.5	79.0	76.0	106.0
Merged-chr1-155442650-2	chr1	155442550	155442750	+	990.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25206.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	5.5	8.5	6.0	282.0	5.0	1.0	13.5	6.5
Merged-chr17-6107500-4	chr17	6107357	6107557	+	970.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001103181, intron 1 of 13)	intron (NM_001103181, intron 1 of 13)	627.0	NM_001103181	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	30.5	53.5	22.0	220.5	55.0	27.0	13.5	13.0
Merged-chr1-168432438-4	chr1	168432318	168432518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291509)	promoter-TSS (NM_001291509)	-249.0	NM_008783	18514.0	Mm.43358	NM_008783	ENSMUSG00000052534	Pbx1	2310056B04Rik|D230003C07Rik|Pbx-1	pre B cell leukemia homeobox 1	protein-coding	276.5	379.0	278.0	4390.5	621.5	208.5	327.5	275.5
Merged-chr10-128036095-3	chr10	128035994	128036194	+	953.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013608, intron 1 of 7)	CpG	748.0	NM_001113199	17938.0	Mm.3746	NM_013608	ENSMUSG00000061315	Naca	AL022831|AL024382|Gm1878|mKIAA0363|skNAC	nascent polypeptide-associated complex alpha polypeptide	protein-coding	5.0	19.5	12.0	215.0	37.5	15.5	27.0	24.5
Merged-chr19-5741989-4	chr19	5741878	5742078	+	874.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008520, exon 2 of 28)	5' UTR (NM_008520, exon 2 of 28)	1074.0	NM_008520	16998.0	Mm.182396	NM_008520	ENSMUSG00000024940	Ltbp3	Ltbp2|mFLJ00070	latent transforming growth factor beta binding protein 3	protein-coding	8.5	13.0	8.5	176.5	19.5	8.5	18.0	9.0
Merged-chr4-121197183-4	chr4	121197078	121197278	+	978.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346660, intron 1 of 7)	intron (NM_001346660, intron 1 of 7)	17906.0	NM_001346660	109263.0	Mm.215745	NM_001081013	ENSMUSG00000049878	Rlf	9230110M18Rik|AI195322|MommeD8	rearranged L-myc fusion sequence	protein-coding	45.0	59.5	31.0	549.0	80.0	25.0	44.0	17.5
Merged-chr11-75254702-4	chr11	75254601	75254801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177708, intron 1 of 1)	intron (NM_177708, intron 1 of 1)	60708.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	29.5	74.0	17.5	208.5	83.0	24.5	45.0	30.0
Merged-chr3-36863046-4	chr3	36862921	36863121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172679)	promoter-TSS (NM_172679)	-85.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	236.5	321.5	256.0	3429.5	545.5	233.0	285.0	258.5
Merged-chr2-6674580-2	chr2	6674481	6674681	+	582.0	f0_balb.idr|f0_c57.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	47081.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	8.0	10.0	7.5	96.0	23.5	9.5	11.5	9.0
Merged-chr7-118798384-4	chr7	118798239	118798439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 19 of 30)	RSINE1|SINE|B4	57274.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	43.5	68.5	60.5	456.5	98.0	33.5	27.5	46.5
Merged-chr3-90251066-4	chr3	90250900	90251100	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013901, intron 3 of 3)	B1F|SINE|Alu	2808.0	NM_013901	30791.0	Mm.294709	NM_013901	ENSMUSG00000052310	Slc39a1	Zip1|Zirtl	solute carrier family 39 (zinc transporter), member 1	protein-coding	4.5	7.5	6.0	55.5	10.0	4.0	3.0	6.0
Merged-chr19-37704144-2	chr19	37704044	37704244	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6336.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	11.5	10.0	3.5	59.0	16.5	6.5	7.5	5.5
Merged-chr7-130969244-2	chr7	130969144	130969344	+	890.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_019564, intron 3 of 8)	intron (NM_019564, intron 3 of 8)	33041.0	NM_019564	56213.0	Mm.30156	NM_019564	ENSMUSG00000006205	Htra1	AI429470|HTRA|L56|Prss11|RSPP11	HtrA serine peptidase 1	protein-coding	5.5	3.0	6.0	107.0	11.0	8.0	17.0	10.5
Merged-chr4-108834362-7	chr4	108834275	108834475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356361)	promoter-TSS (NM_001356361)	-73.0	NM_001356361	70533.0	Mm.379178	NM_027453	ENSMUSG00000028568	Btf3l4	4632412E09Rik|5730434I03Rik|AI316863|AU022207|AW552446	basic transcription factor 3-like 4	protein-coding	18.5	23.0	21.5	182.0	53.0	30.5	34.5	40.0
Merged-chr10-20773350-4	chr10	20773245	20773445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48267.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	31.5	27.0	27.0	777.0	113.0	31.0	41.0	74.5
Merged-chr1-135269344-4	chr1	135269238	135269438	+	705.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 4 of 9)	PB1D10|SINE|Alu	-10866.0	NM_007921	13710.0	Mm.441439	NM_007921	ENSMUSG00000003051	Elf3	ESE-1|ESX|jen	E74-like factor 3	protein-coding	9.0	18.0	12.0	149.0	34.0	10.5	9.0	6.0
Merged-chr11-3165576-3	chr11	3165511	3165711	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030207, exon 8 of 33)	exon (NM_030207, exon 8 of 33)	27852.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	54.0	44.5	69.5	565.0	2.5	2.5	0.5	4.0
Merged-chr16-18108410-4	chr16	18108310	18108510	+	760.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19220.0	NM_011172	19125.0	Mm.28456	NM_011172	ENSMUSG00000003526	Prodh	Pro-1|Pro1|Ym24d07	proline dehydrogenase	protein-coding	7.0	12.5	11.0	110.0	20.0	10.0	20.0	13.5
Merged-chr6-89289431-4	chr6	89289308	89289508	+	992.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-3683.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	16.0	35.0	26.0	134.5	61.0	25.0	27.5	28.5
Merged-chr7-84163775-4	chr7	84163667	84163867	+	954.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11874.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	10.5	15.5	16.0	213.0	52.5	17.0	25.5	13.5
Merged-chr11-101466194-4	chr11	101466099	101466299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012037)	promoter-TSS (NM_012037)	0.0	NM_012037	26949.0	Mm.29210	NM_012037	ENSMUSG00000034993	Vat1	VAT-1	vesicle amine transport 1	protein-coding	63.5	57.5	30.5	736.0	85.5	49.5	37.0	43.5
Merged-chr19-26635746-4	chr19	26635652	26635852	+	863.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 4 of 32)	intron (NM_011416, intron 4 of 32)	30592.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	7.5	24.5	16.0	245.5	22.0	10.0	20.5	9.5
Merged-chr5-93194033-2	chr5	93193933	93194133	+	958.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_017367, intron 2 of 6)	intron (NM_017367, intron 2 of 6)	12462.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	4.0	8.0	14.0	72.5	16.5	7.5	10.0	4.5
Merged-chr14-73525013-4	chr14	73524944	73525144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172527, intron 3 of 4)	CpG	205.0	NM_001360484	214254.0	Mm.386852	NM_172527	ENSMUSG00000033405	Nudt15	6530403O17|A730068G11Rik|MTH2	nudix (nucleoside diphosphate linked moiety X)-type motif 15	protein-coding	62.5	118.0	111.0	747.0	151.5	69.5	92.0	75.5
Merged-chr2-79611293-4	chr2	79611196	79611396	+	971.892822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24129.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	27.5	33.0	35.5	367.0	14.5	12.0	16.0	14.5
Merged-chr9-89197637-4	chr9	89197546	89197746	+	934.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B2|LTR|ERVL	-1627.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	13.0	40.0	21.5	212.5	45.5	11.0	13.0	7.5
Merged-chr12-111912003-4	chr12	111911944	111912144	+	764.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-3989.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	13.5	12.5	8.5	120.0	33.5	9.0	6.0	19.0
Merged-chr8-71298694-4	chr8	71298603	71298803	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	L1MB5|LINE|L1	25989.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	11.0	26.5	17.5	352.5	32.5	15.5	23.5	27.0
Merged-chr19-44401890-3	chr19	44401786	44401986	+	980.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009127, exon 4 of 6)	exon (NM_009127, exon 4 of 6)	5823.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	8.0	20.0	20.5	206.5	15.0	1.0	8.5	11.0
Merged-chr5-31942817-3	chr5	31942686	31942886	+	806.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 7 of 11)	intron (NM_144541, intron 7 of 11)	-193686.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	15.0	17.5	11.0	285.0	3.0	0.5	1.5	0.0
Merged-chr9-124068581-3	chr9	124068485	124068685	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33598.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	12.0	15.0	7.0	104.5	23.0	4.0	10.0	12.5
Merged-chr2-76677065-1	chr2	76676965	76677165	+	671.333313	f0_balb.idr	intron (NM_031256, intron 1 of 7)	intron (NM_031256, intron 1 of 7)	1750.0	NM_031256	83435.0	Mm.41636	NM_031256	ENSMUSG00000002733	Plekha3	FAPP1	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 3	protein-coding	8.0	9.5	14.5	154.0	19.0	8.0	4.5	7.5
Merged-chr16-44029452-4	chr16	44029361	44029561	+	912.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359085, intron 4 of 16)	intron (NM_001359085, intron 4 of 16)	-1516.0	NM_001172107	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	3.0	12.0	10.5	271.5	56.5	10.5	24.0	17.0
Merged-chr14-30613554-4	chr14	30613449	30613649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	-3239.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	47.5	99.5	57.5	555.5	65.5	27.0	40.0	25.0
Merged-chr15-68011382-4	chr15	68011297	68011497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	247459.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	25.0	28.0	38.0	423.0	38.0	17.0	27.0	30.0
Merged-chr1-36022801-2	chr1	36022701	36022901	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-45599.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	9.0	8.5	6.0	23.0	19.0	9.5	14.5	11.0
Merged-chr2-152227365-1	chr2	152227265	152227465	+	1000.0	f0_c57.idr	intron (NM_007788, intron 1 of 12)	CpG	525.0	NM_007788	12995.0	Mm.23692	NM_007788	ENSMUSG00000074698	Csnk2a1	CK2|Csnk2a1-rs4	casein kinase 2, alpha 1 polypeptide	protein-coding	19.0	43.5	32.5	414.5	84.5	27.5	38.5	31.0
Merged-chr4-126132415-2	chr4	126132310	126132510	+	998.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 6 of 10)	MIR3|SINE|MIR	-15593.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	6.5	7.5	10.5	79.5	11.0	7.5	8.5	12.5
Merged-chr3-58416039-3	chr3	58415920	58416120	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081229, exon 1 of 4)	exon (NM_001081229, exon 1 of 4)	1300.0	NM_001347233	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	16.5	13.0	17.5	200.5	38.0	29.0	14.5	21.5
Merged-chr2-98665145-4	chr2	98665052	98665252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SYNREP_MM|Satellite|Satellite	1197495.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	1160.5	873.0	1608.5	6519.0	2453.0	935.5	759.0	2554.5
Merged-chr9-35210427-4	chr9	35210325	35210525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026130)	promoter-TSS (NM_026130)	630.0	NM_172291	235169.0	Mm.138512	NM_172291	ENSMUSG00000039048	Foxred1	BC024806|TEG-23|Tex23	FAD-dependent oxidoreductase domain containing 1	protein-coding	43.0	50.0	40.0	773.5	88.0	52.0	48.0	49.5
Merged-chr2-122349104-2	chr2	122349006	122349206	+	978.5	f0_c57.idr|f1_c57bl6.idr	3' UTR (NM_001013829, exon 6 of 6)	3' UTR (NM_001013829, exon 6 of 6)	19812.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	10.5	17.5	16.0	91.5	7.0	4.5	11.0	16.0
Merged-chr5-110479357-3	chr5	110479259	110479459	+	789.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30856.0	NM_001142642	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	9.0	10.5	5.5	129.5	23.5	7.0	10.0	5.0
Merged-chr11-58009837-4	chr11	58009757	58009957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028451, intron 1 of 18)	CpG	793.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	25.0	38.5	28.5	271.5	74.5	33.5	36.5	38.5
Merged-chr3-31091335-3	chr3	31091235	31091435	+	859.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3723.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	4.5	12.5	3.5	75.5	32.5	7.5	6.0	13.0
Merged-chr11-82023525-2	chr11	82023425	82023625	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11B|LTR|ERVK	-12052.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	2.0	12.0	2.0	92.0	14.5	9.5	5.5	6.5
Merged-chr16-10950730-4	chr16	10950633	10950833	+	970.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35936.0	NR_131135	545180.0	Mm.373756	NR_131135	ENSMUSG00000095369	Gm21859	-	predicted gene, 21859	ncRNA	15.5	27.0	8.0	190.0	64.5	23.0	17.5	44.5
Merged-chr16-23591835-4	chr16	23591705	23591905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18114.0	NM_023386	67775.0	Mm.475107	NM_023386	ENSMUSG00000033355	Rtp4	5830458K16Rik|Ifrg28	receptor transporter protein 4	protein-coding	29.0	52.5	39.0	503.0	85.5	33.5	28.5	37.0
Merged-chr3-82030547-3	chr3	82030462	82030662	+	771.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33640.0	NM_021370	58170.0	Mm.88839	NM_021370	ENSMUSG00000028008	Asic5	Accn5|Blinac|Inac	acid-sensing (proton-gated) ion channel family member 5	protein-coding	3.0	11.0	7.5	191.0	10.5	4.5	8.5	10.5
Merged-chr1-170709681-4	chr1	170709601	170709801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081304, exon 16 of 16)	3' UTR (NM_001081304, exon 16 of 16)	65169.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	148.5	225.0	184.5	2703.0	242.0	111.5	185.5	141.0
Merged-chr18-39636271-4	chr18	39636178	39636378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137219.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	45.0	96.0	39.5	574.0	94.0	31.5	33.0	27.0
Merged-chr15-98512497-2	chr15	98512397	98512597	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	7337.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	4.5	9.0	11.5	95.5	16.0	5.5	5.5	7.5
Merged-chr1-127242999-4	chr1	127242913	127243113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	38027.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	30.5	50.5	31.5	548.0	108.5	42.5	26.0	32.0
Merged-chr1-143917314-2	chr1	143917214	143917414	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86835.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	6.5	5.5	12.5	54.5	18.5	4.5	1.5	5.5
Merged-chr17-74328327-3	chr17	74328218	74328418	+	753.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4374.0	NM_024428	66310.0	Mm.28536	NM_024428	ENSMUSG00000024067	Dpy30	2810410M20Rik|C87842	dpy-30, histone methyltransferase complex regulatory subunit	protein-coding	11.0	15.0	5.5	75.0	47.0	11.0	18.0	14.5
Merged-chr9-106356671-4	chr9	106356567	106356767	+	977.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-11965.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	16.5	21.5	13.0	384.0	99.5	18.5	30.5	45.5
Merged-chr11-120237402-4	chr11	120237297	120237497	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198423, intron 2 of 27)	CpG-2934	4450.0	NM_198423	268515.0	Mm.309498	NM_198423	ENSMUSG00000039741	Bahcc1	B930044J06|BC060615	BAH domain and coiled-coil containing 1	protein-coding	5.5	20.5	4.5	119.0	57.5	15.0	20.0	33.0
Merged-chr7-128138562-3	chr7	128138465	128138665	+	804.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021334, intron 14 of 29)	MTEa|LTR|ERVL-MaLR	8997.0	NM_021334	16411.0	Mm.22378	NM_021334	ENSMUSG00000030789	Itgax	AI449405|Cd11c|Cr4|N418	integrin alpha X	protein-coding	16.0	7.0	8.0	179.5	9.5	7.5	6.0	5.0
Merged-chr3-145729769-4	chr3	145729694	145729894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28898.0	NM_026993	69219.0	Mm.234247	NM_026993	ENSMUSG00000028194	Ddah1	2410006N07Rik|2510015N06Rik|AI987801|AW050362	dimethylarginine dimethylaminohydrolase 1	protein-coding	32.0	23.0	24.0	476.0	52.5	19.5	34.5	29.5
Merged-chr8-80314988-4	chr8	80314893	80315093	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179052.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	66.5	53.0	64.5	805.5	66.5	46.0	35.0	21.0
Merged-chr15-27664794-4	chr15	27664709	27664909	+	765.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001242423, exon 2 of 8)	exon (NM_001242423, exon 2 of 8)	16733.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	5.0	2.0	7.5	84.5	18.0	6.5	10.5	5.0
Merged-chr4-132564155-4	chr4	132564057	132564257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081211)	promoter-TSS (NM_001081211)	90.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	75.0	112.0	68.0	926.5	95.0	50.0	48.5	37.5
Merged-chr13-111805093-1	chr13	111804993	111805193	+	1000.0	f0_c57.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	3900.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	39.5	44.5	40.0	695.5	83.5	26.0	48.5	50.0
Merged-chr4-46565248-4	chr4	46565095	46565295	+	838.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178893, intron 1 of 12)	intron (NM_178893, intron 1 of 12)	1245.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	10.5	15.5	11.5	309.0	21.0	8.5	4.5	12.0
Merged-chr5-43847725-4	chr5	43847636	43847836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21073.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	96.5	102.0	90.5	1229.5	89.5	51.0	52.5	33.0
Merged-chr8-25445291-4	chr8	25445219	25445419	+	929.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-73440.0	NM_001079909	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	8.5	25.0	28.0	472.0	18.0	10.5	21.5	19.5
Merged-chr19-46876004-4	chr19	46875907	46876107	+	843.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033569, intron 6 of 7)	intron (NM_033569, intron 6 of 7)	86344.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	10.0	15.0	8.0	131.0	25.5	9.0	7.5	8.5
Merged-chr2-44927172-4	chr2	44927091	44927291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-65569.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	270.0	388.0	271.0	2679.5	589.0	287.0	343.5	193.0
Merged-chr10-75227205-3	chr10	75227118	75227318	+	781.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145826, intron 2 of 18)	MIR|SINE|MIR	14828.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	3.5	14.0	4.5	134.0	15.0	5.0	7.5	8.0
Merged-chr6-39076727-4	chr6	39076628	39076828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 10 of 12)	intron (NM_011539, intron 10 of 12)	-9142.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	68.0	84.5	77.0	1099.5	136.5	66.0	69.0	86.5
Merged-chr8-71396702-4	chr8	71396598	71396798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181418)	promoter-TSS (NM_181418)	-157.0	NM_026636	68251.0	Mm.21749	NM_026636	ENSMUSG00000031820	Babam1	5430437P03Rik|Merit40	BRISC and BRCA1 A complex member 1	protein-coding	162.5	259.5	158.5	2490.0	515.0	216.5	224.0	199.5
Merged-chr15-76817087-4	chr15	76816984	76817184	+	900.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	1086.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	17.5	16.0	5.5	203.0	31.5	6.0	10.5	13.5
Merged-chr5-43662683-4	chr5	43662537	43662737	+	690.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359906, intron 1 of 37)	intron (NM_001359906, intron 1 of 37)	258.0	NM_001359903	231214.0	Mm.44434	NM_172274	ENSMUSG00000039765	Cc2d2a	5730509K17Rik|b2b1035Clo	coiled-coil and C2 domain containing 2A	protein-coding	10.5	7.5	4.5	115.0	1.5	3.5	1.5	1.5
Merged-chr4-124738950-4	chr4	124738864	124739064	+	798.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151694, intron 3 of 3)	intron (NR_151694, intron 3 of 3)	-2886.0	NM_008385	16330.0	Mm.296202	NM_008385	ENSMUSG00000028894	Inpp5b	5PTase|AW260155|INPP5P	inositol polyphosphate-5-phosphatase B	protein-coding	10.5	12.5	12.5	119.0	19.0	10.0	7.5	14.5
Merged-chr4-41697692-4	chr4	41697658	41697858	+	781.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016673)	promoter-TSS (NM_016673)	-667.0	NM_016673	12804.0	Mm.425178	NM_016673	ENSMUSG00000028444	Cntfr	Cntfralpha	ciliary neurotrophic factor receptor	protein-coding	8.0	7.0	5.5	25.5	19.5	6.0	8.5	11.5
Merged-chr19-60940136-4	chr19	60940040	60940240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	intron (NM_018869, intron 1 of 15)	50391.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	78.5	89.5	103.0	1338.5	174.5	53.5	92.5	69.5
Merged-chr15-55090302-6	chr15	55090237	55090437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001355594, exon 1 of 10)	exon (NM_001355594, exon 1 of 10)	154.0	NM_183089	72107.0	Mm.486550	NM_183089	ENSMUSG00000022422	Dscc1	2010006I05Rik|2600005O03Rik|Dcc1	DNA replication and sister chromatid cohesion 1	protein-coding	17.0	29.5	43.5	258.0	36.0	19.0	17.0	30.0
Merged-chr7-45389138-3	chr7	45389046	45389246	+	918.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126539, intron 4 of 9)	intron (NR_126539, intron 4 of 9)	6596.0	NM_009224	20637.0	Mm.216386	NM_009224	ENSMUSG00000063511	Snrnp70	2700022N21Rik|3200002N22Rik|AI325098|R74807|Rnu1p70|Rnulp70|Snrp70|Srnp70|U1-70|U1-70K	small nuclear ribonucleoprotein 70 (U1)	protein-coding	11.0	9.0	11.5	154.5	15.5	10.0	18.0	7.5
Merged-chr17-8264842-3	chr17	8264750	8264950	+	822.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18963.0	NM_018819	55951.0	Mm.288510	NM_018819	ENSMUSG00000023861	Mpc1	0610006G08Rik|3830411I18Rik|Brp44l	mitochondrial pyruvate carrier 1	protein-coding	11.0	7.5	6.0	140.0	11.5	10.0	11.0	7.0
Merged-chr16-29579325-4	chr16	29579227	29579427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199177)	promoter-TSS (NM_001199177)	-7.0	NM_133752	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	119.5	195.0	111.0	1548.0	269.5	126.0	158.5	99.0
Merged-chr13-3805872-3	chr13	3805771	3805971	+	824.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1553.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	9.0	4.5	13.5	100.0	7.5	3.5	5.0	6.5
Merged-chr3-109025748-4	chr3	109025651	109025851	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 1 of 10)	intron (NM_001163567, intron 1 of 10)	1856.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	21.5	24.5	14.0	158.5	49.5	20.5	31.0	32.5
Merged-chr6-137404422-3	chr6	137404309	137404509	+	822.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 12 of 26)	intron (NM_011216, intron 12 of 26)	-6312.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	12.5	48.5	17.5	114.0	11.0	4.5	9.5	4.0
Merged-chr1-85114877-2	chr1	85114770	85114970	+	642.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-5017.0	NM_213615	381287.0	Mm.487565	NM_213615	ENSMUSG00000089844	A530032D15Rik	Gm1888	RIKEN cDNA A530032D15Rik gene	protein-coding	10.0	13.0	7.0	78.5	8.0	1.5	3.5	2.0
Merged-chr8-22945079-4	chr8	22945003	22945203	+	839.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29733.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	10.5	17.0	6.0	131.5	24.5	14.0	3.5	6.0
Merged-chr1-9944918-2	chr1	9944771	9944971	+	792.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024067)	promoter-TSS (NR_024067)	-753.0	NR_024067	73824.0	Mm.28311	NR_024067	ENSMUSG00000098234	Snhg6	1110008H02Rik	small nucleolar RNA host gene 6	ncRNA	8.0	5.5	9.0	23.0	24.0	4.0	5.5	5.5
Merged-chr11-78983133-4	chr11	78983007	78983207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010708, intron 1 of 10)	intron (NM_010708, intron 1 of 10)	1817.0	NM_001159301	16859.0	Mm.341434	NM_010708	ENSMUSG00000001123	Lgals9	AA407335|AI194909|AI265545|LGALS35|Lgals5|gal-9|galectin-9	lectin, galactose binding, soluble 9	protein-coding	53.5	72.5	47.0	775.5	97.0	38.0	47.5	62.5
Merged-chr17-32284406-1	chr17	32284306	32284506	+	1000.0	f0_c57.idr	promoter-TSS (NM_198094)	promoter-TSS (NM_198094)	-273.0	NM_020508	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	24.0	39.5	16.0	197.0	67.5	49.5	25.0	33.5
Merged-chr7-143056122-4	chr7	143056029	143056229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133655, intron 1 of 7)	intron (NM_133655, intron 1 of 7)	-2443.0	NR_110354	97423.0	Mm.5250	NM_133790	ENSMUSG00000059277	R74862	-	expressed sequence R74862	ncRNA	45.5	34.5	25.0	421.5	76.5	31.0	33.5	40.0
Merged-chr2-163750075-5	chr2	163749950	163750150	+	960.161926	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001272052, intron 1 of 11)	CpG	189.0	NM_007398	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	7.5	19.0	18.0	95.0	14.0	13.5	5.0	10.0
Merged-chr12-78859025-4	chr12	78858908	78859108	+	770.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023721, intron 1 of 8)	(A)n|Simple_repeat|Simple_repeat	2630.0	NM_023721	73834.0	Mm.311549	NM_023721	ENSMUSG00000021114	Atp6v1d	1110004P10Rik|Atp6m|VATD|Vma8	ATPase, H+ transporting, lysosomal V1 subunit D	protein-coding	13.0	9.5	7.0	158.5	19.0	4.0	6.5	10.5
Merged-chr19-11770386-4	chr19	11770272	11770472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025606)	promoter-TSS (NM_025606)	-43.0	NM_025606	94063.0	Mm.203928	NM_025606	ENSMUSG00000024683	Mrpl16	2310039D06Rik	mitochondrial ribosomal protein L16	protein-coding	24.5	39.0	9.5	303.5	59.0	33.5	27.5	36.0
Merged-chr9-45272377-4	chr9	45272284	45272484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3235.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	58.0	118.0	56.5	514.0	91.5	34.5	32.5	22.0
Merged-chr5-134184008-4	chr5	134183905	134184105	+	928.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053266)	promoter-TSS (NM_053266)	-33.0	NM_001359852	114674.0	Mm.218744	NM_053266	ENSMUSG00000015942	Gtf2ird2	1700012P16Rik	GTF2I repeat domain containing 2	protein-coding	16.5	24.0	10.5	165.0	27.0	15.5	20.0	17.0
Merged-chr2-58496786-4	chr2	58496703	58496903	+	918.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355048, intron 3 of 10)	intron (NM_001355048, intron 3 of 10)	64607.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	14.5	12.5	15.5	233.0	54.0	6.5	21.5	10.5
Merged-chr4-134496745-4	chr4	134496624	134496824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285847)	promoter-TSS (NM_001285847)	-37.0	NM_001285845	71904.0	Mm.142343	NM_027995	ENSMUSG00000037348	Paqr7	2310021M12Rik|AV001994|BB007237|Mpra|PGLP|mPR	progestin and adipoQ receptor family member VII	protein-coding	108.5	161.5	116.0	2071.5	152.0	74.5	86.0	106.5
Merged-chr14-99104680-1	chr14	99104580	99104780	+	1000.0	f0_balb.idr	intron (NM_029320, intron 2 of 17)	intron (NM_029320, intron 2 of 17)	-4910.0	NR_153390	72662.0	Mm.163339	NM_028315	ENSMUSG00000033166	Dis3	2810028N01Rik	DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease	protein-coding	6.5	7.5	17.5	172.0	14.0	3.0	13.5	9.0
Merged-chr2-170184783-4	chr2	170184675	170184875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42100.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	90.0	84.0	61.5	1060.0	186.5	71.0	77.0	76.5
Merged-chr3-30975554-4	chr3	30975458	30975658	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6143.0	NM_001165956	241915.0	Mm.233173	NM_153421	ENSMUSG00000037652	Phc3	E030046K01Rik|Edr3|Hph3	polyhomeotic 3	protein-coding	7.5	29.5	12.5	235.0	30.0	7.5	15.5	16.5
Merged-chr6-139882237-3	chr6	139882131	139882331	+	615.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207683, intron 25 of 31)	intron (NM_207683, intron 25 of 31)	40786.0	NM_011084	18705.0	Mm.333471	NM_011084	ENSMUSG00000030228	Pik3c2g	C80387|PI3K-C2-gamma	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 gamma	protein-coding	2.0	5.0	7.0	100.5	10.5	7.5	9.0	13.0
Merged-chr2-167492413-4	chr2	167492316	167492516	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030743)	promoter-TSS (NM_030743)	-229.0	NM_030743	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	13.0	29.5	13.5	167.5	54.0	21.5	11.0	24.0
Merged-chr6-43349050-3	chr6	43348999	43349199	+	926.422241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 8 of 8)	Lx8|LINE|L1	-39545.0	NM_130869	18291.0	Mm.17715	NM_130869	ENSMUSG00000029736	Nobox	OG2|Og2x	NOBOX oogenesis homeobox	protein-coding	9.5	13.0	14.0	293.5	17.5	4.5	8.5	3.5
Merged-chr4-86679967-1	chr4	86679867	86680067	+	875.5	f0_balb.idr	Intergenic	Intergenic	-9908.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	10.0	6.0	10.5	188.5	7.0	1.5	5.0	8.5
Merged-chr11-49250544-4	chr11	49250410	49250610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110150)	promoter-TSS (NM_001110150)	-42.0	NM_001110150	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	41.0	66.0	39.5	642.0	124.5	60.5	55.5	49.5
Merged-chr18-39854045-3	chr18	39853945	39854145	+	736.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80548.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	3.0	9.5	2.5	123.0	22.5	8.0	12.0	9.0
Merged-chr15-59374125-4	chr15	59374009	59374209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026746)	promoter-TSS (NM_026746)	43.0	NM_153548	223593.0	Mm.218665	NM_153548	ENSMUSG00000022350	Washc5	AL022848|C76463|E430025E21Rik|Kiaa0196|mKIAA0196|strumpellin	WASH complex subunit 5	protein-coding	51.5	74.5	70.0	530.5	128.5	49.5	41.0	68.5
Merged-chr7-100208027-4	chr7	100207900	100208100	+	875.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19607.0	NM_027629	70974.0	Mm.440524	NM_027629	ENSMUSG00000030729	Pgm2l1	4931406N15Rik|AI553438|BM32A	phosphoglucomutase 2-like 1	protein-coding	16.5	35.0	10.5	151.5	24.0	9.0	7.0	8.5
Merged-chr1-64118927-4	chr1	64118833	64119033	+	973.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033563, intron 1 of 3)	intron (NM_033563, intron 1 of 3)	2456.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	13.5	15.5	28.0	251.0	54.0	19.0	20.0	23.0
Merged-chr14-47473096-4	chr14	47472980	47473180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030236, intron 1 of 1)	CpG	519.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	55.0	132.5	63.5	1195.0	206.0	55.0	90.0	97.5
Merged-chr8-70660532-4	chr8	70660447	70660647	+	905.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023217)	promoter-TSS (NM_023217)	-809.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	30.5	22.5	20.5	477.0	55.0	9.5	16.0	10.0
Merged-chr19-6274434-3	chr19	6274326	6274526	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2470.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	12.0	24.0	6.0	129.5	17.0	6.5	8.5	5.0
Merged-chr1-23397788-1	chr1	23397688	23397888	+	578.0	f0_balb.idr	Intergenic	Intergenic	-14613.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	7.5	4.5	5.0	170.5	7.5	2.5	3.0	5.5
Merged-chr12-70235358-4	chr12	70235254	70235454	+	860.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7513.0	NR_045174	414124.0	Mm.416164	NR_045174	ENSMUSG00000085298	F730035M05Rik	-	RIKEN cDNA F730035M05 gene	ncRNA	11.0	17.0	15.5	133.5	17.5	16.5	12.0	9.5
Merged-chr13-22051141-4	chr13	22051062	22051262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	7932.0	NM_178198	319183.0	Mm.371766	NM_178198	ENSMUSG00000069300	Hist1h2bj	-	histone cluster 1, H2bj	protein-coding	59.5	56.5	49.5	896.5	145.0	55.0	65.5	56.0
Merged-chr15-36578092-1	chr15	36577992	36578192	+	743.0	f0_balb.idr	Intergenic	L1MB8|LINE|L1	-22519.0	NM_025712	66696.0	Mm.253627	NM_025712	ENSMUSG00000013611	Snx31	4631426E05Rik	sorting nexin 31	protein-coding	8.0	12.0	8.5	165.0	6.0	6.5	5.0	0.5
Merged-chr2-103945551-2	chr2	103945451	103945651	+	832.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12444.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	2.0	7.0	4.5	31.5	11.0	6.0	4.5	16.0
Merged-chr8-106140986-4	chr8	106140869	106141069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3995.0	NM_176838	77411.0	Mm.183003	NM_176838	ENSMUSG00000084128	Esrp2	9530027K23Rik|Rbm35b	epithelial splicing regulatory protein 2	protein-coding	33.5	50.0	22.5	470.0	67.0	42.5	28.0	27.5
Merged-chr11-52080174-4	chr11	52080064	52080264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	intron (NM_001166654, intron 13 of 13)	-18660.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	152.0	210.0	132.5	2384.0	346.0	105.5	155.5	143.0
Merged-chr7-19360546-4	chr7	19360449	19360649	+	941.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001010836)	promoter-TSS (NM_001010836)	-667.0	NM_001010836	333654.0	Mm.333640	NM_001010836	ENSMUSG00000040734	Ppp1r13l	AV260376|IASPP|Nkip1|wa3	protein phosphatase 1, regulatory (inhibitor) subunit 13 like	protein-coding	12.5	12.0	15.5	108.5	59.0	7.0	11.0	16.5
Merged-chr14-63130828-4	chr14	63130717	63130917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	8355.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	66.5	102.0	74.5	1288.0	170.0	68.0	73.0	65.0
Merged-chr10-39261734-1	chr10	39261634	39261834	+	888.0	f0_balb.idr	Intergenic	Intergenic	-97940.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	17.0	20.0	9.5	94.0	18.5	2.0	11.5	5.5
Merged-chr4-155219968-3	chr4	155219854	155220054	+	798.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	2581.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	6.0	12.5	10.5	119.0	9.0	2.5	6.0	4.0
Merged-chr2-48333005-6	chr2	48332868	48333068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-481141.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	18.0	6.5	16.5	242.5	50.5	26.5	28.0	34.0
Merged-chr3-27237415-4	chr3	27237292	27237492	+	983.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	intron (NM_178772, intron 3 of 4)	54388.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	15.0	31.5	9.5	186.5	60.5	18.5	15.5	23.0
Merged-chr15-35938016-6	chr15	35937892	35938092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053071, intron 1 of 3)	CpG	254.0	NM_053071	12864.0	Mm.548	NM_053071	ENSMUSG00000014313	Cox6c	-	cytochrome c oxidase subunit VIc	protein-coding	13.5	45.5	51.5	489.0	35.5	18.0	24.0	33.0
Merged-chr2-154737193-3	chr2	154737144	154737344	+	843.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-53866.0	NM_001139512	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	23.5	33.5	16.5	273.0	0.0	0.0	0.5	0.5
Merged-chr3-105019893-4	chr3	105019787	105019987	+	967.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	intron (NM_030249, intron 3 of 5)	33066.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	24.0	19.5	23.0	407.5	46.5	12.5	39.0	34.5
Merged-chr2-113656102-4	chr2	113655974	113656174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 13 of 16)	intron (NM_001285459, intron 13 of 16)	-29016.0	NM_001287818	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	46.0	59.0	57.5	837.5	90.5	35.5	54.5	29.5
Merged-chr5-99289324-4	chr5	99289232	99289432	+	922.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	-36405.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	23.0	24.5	30.0	140.5	16.5	7.5	14.0	16.5
Merged-chr11-110472289-4	chr11	110472176	110472376	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	-6239.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	15.5	33.5	10.5	102.0	107.0	31.0	42.5	25.5
Merged-chr19-36554082-3	chr19	36553993	36554193	+	795.1777950000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172637)	promoter-TSS (NM_172637)	-546.0	NM_001163471	226098.0	Mm.61107	NM_172637	ENSMUSG00000041180	Hectd2	4921524L07|A630025O09Rik|AW212605	HECT domain E3 ubiquitin protein ligase 2	protein-coding	9.0	9.0	8.0	93.0	9.0	3.0	5.5	7.5
Merged-chr10-128083175-4	chr10	128083075	128083275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016774)	promoter-TSS (NM_016774)	-132.0	NM_016774	11947.0	Mm.238973	NM_016774	ENSMUSG00000025393	Atp5b	Atp5f1b	ATP synthase, H+ transporting mitochondrial F1 complex, beta subunit	protein-coding	238.5	428.0	236.5	3060.0	733.5	286.0	237.5	218.5
Merged-chr5-30651633-4	chr5	30651530	30651730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175675, intron 1 of 5)	intron (NM_175675, intron 1 of 5)	3691.0	NM_175675	74919.0	Mm.247985	NM_175675	ENSMUSG00000029175	Slc35f6	4930471M23Rik|5730478O19Rik|ANT2BP|P40|Tango9	solute carrier family 35, member F6	protein-coding	56.0	74.0	93.0	1210.0	136.5	50.5	43.5	64.0
Merged-chr10-96616867-4	chr10	96616760	96616960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007569)	promoter-TSS (NM_007569)	-141.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	358.5	551.5	320.5	4254.0	970.5	414.5	440.5	387.0
Merged-chr6-99436484-4	chr6	99436371	99436571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347345, intron 1 of 19)	intron (NM_001347345, intron 1 of 19)	-1126.0	NM_053202	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	34.0	54.5	35.0	758.0	43.0	19.5	27.0	21.5
Merged-chr14-54405993-3	chr14	54405907	54406107	+	854.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	L1M2|LINE|L1	3465.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	11.0	10.5	18.5	159.0	19.0	10.5	4.0	10.0
Merged-chr2-163838252-4	chr2	163838164	163838364	+	920.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15486.0	NM_001030292	241769.0	Mm.295337	NM_001030292	ENSMUSG00000035238	Kcnk15	KCNK11|KCNK14|KT3.3|TASK5	potassium channel, subfamily K, member 15	protein-coding	9.0	24.5	9.0	299.5	39.5	13.5	26.5	8.0
Merged-chr4-70546075-4	chr4	70545985	70546185	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-11157.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	15.0	19.5	19.0	361.5	42.5	15.5	24.0	19.0
Merged-chr10-17416336-4	chr10	17416227	17416427	+	837.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-306901.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	10.5	20.5	23.5	240.5	30.5	17.5	19.0	11.0
Merged-chr11-71159967-3	chr11	71159866	71160066	+	935.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040696, intron 12 of 14)	intron (NM_001040696, intron 12 of 14)	-15262.0	NM_001004142	195046.0	Mm.240227	NM_001004142	ENSMUSG00000069830	Nlrp1a	CARD7|DEFCAP|Gm14|Gm15|NAC|Nalp1|Nalp1a|Nlrp1|PP1044	NLR family, pyrin domain containing 1A	protein-coding	30.0	26.0	12.0	179.5	31.0	6.5	1.5	13.0
Merged-chr18-60214428-7	chr18	60214196	60214396	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033767, intron 2 of 2)	intron (NM_001033767, intron 2 of 2)	2219.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	5.5	12.5	3.0	39.0	59.5	17.5	22.5	19.0
Merged-chr10-60933648-4	chr10	60933557	60933757	+	909.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033616, intron 1 of 2)	intron (NR_033616, intron 1 of 2)	4475.0	NR_033616	73616.0	Mm.159038	NR_033616	ENSMUSG00000037247	Pldi	1700125F08Rik|Poldi	polymorphic derived intron containing	ncRNA	12.0	10.5	12.5	221.5	32.5	13.0	17.5	24.0
Merged-chr2-21139420-4	chr2	21139319	21139519	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65946.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	12.0	25.0	14.5	158.5	64.5	36.0	31.5	26.5
Merged-chr4-132608414-4	chr4	132608311	132608511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30635.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	20.5	32.0	19.0	248.5	55.0	27.0	29.0	20.0
Merged-chr11-117076807-4	chr11	117076702	117076902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027059)	promoter-TSS (NR_027059)	19.0	NR_027059	76972.0	Mm.309167	NR_027059	ENSMUSG00000086859	Snhg20	2810008D09Rik	small nucleolar RNA host gene 20	ncRNA	55.0	56.5	22.0	470.0	42.5	32.5	40.5	19.5
Merged-chr4-14865647-4	chr4	14865562	14865762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028264, intron 1 of 6)	intron (NM_028264, intron 1 of 6)	1443.0	NM_028264	72519.0	Mm.279158	NM_028264	ENSMUSG00000028221	Tmem55a	2610319K07Rik|AI315591|AV001360|Pip4p2	transmembrane protein 55A	protein-coding	51.5	68.5	28.0	347.5	107.5	32.0	28.0	35.0
Merged-chr11-116274166-4	chr11	116274055	116274255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146032)	promoter-TSS (NM_146032)	62.0	NM_146032	217337.0	Mm.29655	NM_146032	ENSMUSG00000020780	Srp68	2610024I03Rik	signal recognition particle 68	protein-coding	38.5	52.0	28.0	508.0	60.5	24.5	35.0	38.5
Merged-chr11-54736976-3	chr11	54736838	54737038	+	773.549988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 3 of 5)	intron (NM_178626, intron 3 of 5)	50765.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	7.5	5.5	5.0	87.5	7.0	0.5	5.5	1.0
Merged-chr3-106556054-4	chr3	106555954	106556154	+	772.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025582, intron 3 of 6)	ORR1G|LTR|ERVL-MaLR	-8252.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	9.0	14.0	8.0	123.0	27.5	12.0	4.0	7.0
Merged-chr8-35408041-3	chr8	35407917	35408117	+	768.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32276.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	10.0	28.5	19.0	273.5	7.0	1.0	4.5	5.0
Merged-chr8-22060619-4	chr8	22060522	22060722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243161)	promoter-TSS (NM_001243161)	-99.0	NR_040650	207958.0	Mm.267439	NM_183142	ENSMUSG00000063362	Alg11	AI849156|AW492253|B230397C21|Mmat-4(5)	asparagine-linked glycosylation 11 (alpha-1,2-mannosyltransferase)	protein-coding	259.5	398.0	304.0	4965.5	664.0	286.5	409.5	280.0
Merged-chr11-93963210-4	chr11	93963087	93963287	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008704, intron 3 of 4)	intron (NM_008704, intron 3 of 4)	5334.0	NM_008704	18102.0	Mm.439702	NM_008704	ENSMUSG00000037601	Nme1	AL024257|NDPK-A|NM23-M1|NM23A	NME/NM23 nucleoside diphosphate kinase 1	protein-coding	16.0	31.0	14.0	250.0	90.5	43.5	45.0	47.0
Merged-chr7-4355568-1	chr7	4355468	4355668	+	554.0	f1_balb.idr	Intergenic	Intergenic	17844.0	NM_010746	17086.0	Mm.240231	NM_010746	ENSMUSG00000062524	Ncr1	Ly94|NKp46	natural cytotoxicity triggering receptor 1	protein-coding	8.0	9.5	7.5	34.0	10.0	2.5	2.0	3.0
Merged-chr5-77061659-3	chr5	77061555	77061755	+	662.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027970)	TTS (NM_027970)	33612.0	NM_001159901	74318.0	Mm.181852	NM_175606	ENSMUSG00000059325	Hopx	1110018K11Rik|1200015P04Rik|2300002F06Rik|AI848177|AW490897|Cameo|Hdop|Hod|Hop|Ob1|Obl|Toto	HOP homeobox	protein-coding	8.5	8.5	13.5	87.5	12.0	3.0	5.5	4.5
Merged-chr6-39120303-4	chr6	39120166	39120366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045813, intron 1 of 3)	RMER16|LTR|ERVK	1793.0	NR_045813	75379.0	Mm.348014	NR_045813	ENSMUSG00000073144	4930599N23Rik	-	RIKEN cDNA 4930599N23 gene	ncRNA	44.0	50.5	43.0	427.5	80.0	31.5	42.0	29.0
Merged-chr19-21273718-4	chr19	21273615	21273815	+	895.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 1 of 5)	intron (NM_009551, intron 1 of 5)	1437.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	5.0	10.5	9.5	133.5	30.0	4.5	11.5	13.5
Merged-chr6-145187626-4	chr6	145187478	145187678	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177222, intron 9 of 15)	MTEa|LTR|ERVL-MaLR	23392.0	NM_177222	320662.0	Mm.207779	NM_177222	ENSMUSG00000043541	Casc1	A230084G12Rik|Las1	cancer susceptibility candidate 1	protein-coding	9.5	31.0	12.5	268.5	41.5	8.0	8.5	13.5
Merged-chr5-43879990-4	chr5	43879899	43880099	+	985.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	T-rich|Low_complexity|Low_complexity	11190.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	15.0	43.0	47.0	225.5	73.5	22.5	34.5	29.5
Merged-chr8-31981051-1	chr8	31980951	31981151	+	816.666687	f0_balb.idr	Intergenic	Intergenic	-62848.0	NM_178591	211323.0	Mm.153432	NM_178591	ENSMUSG00000062991	Nrg1	6030402G23Rik|ARIA|D230005F13Rik|GGF|GGFII|HRG|HRGalpha|Hgl|NDF|SMDF	neuregulin 1	protein-coding	6.5	14.0	13.5	124.5	0.5	0.5	2.0	0.5
Merged-chr15-91673174-4	chr15	91673082	91673282	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025730)	promoter-TSS (NM_025730)	-42.0	NM_025730	66725.0	Mm.37558	NM_025730	ENSMUSG00000036273	Lrrk2	4921513O20Rik|9330188B09Rik|AW561911|D630001M17Rik|Gm927|cI-46	leucine-rich repeat kinase 2	protein-coding	18.5	35.0	18.5	294.0	37.0	27.5	28.5	12.0
Merged-chr2-84532478-3	chr2	84532370	84532570	+	664.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	-25597.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	6.0	10.0	12.0	112.0	16.0	2.5	5.5	8.5
Merged-chr10-39321627-6	chr10	39321483	39321683	+	924.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48216.0	NM_001122892	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	7.0	2.0	9.5	227.5	17.0	4.5	16.5	11.5
Merged-chr11-21448183-3	chr11	21448076	21448276	+	816.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	63004.0	NR_028259	237694.0	Mm.72926	NM_172792	ENSMUSG00000078962	4932414J04Rik	-	RIKEN cDNA 4932414J04 gene	ncRNA	3.0	2.5	0.0	1.0	23.5	6.0	12.0	10.5
Merged-chr6-134642041-4	chr6	134641916	134642116	+	908.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026371, intron 1 of 3)	intron (NM_026371, intron 1 of 3)	1076.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	49.0	78.5	47.0	960.0	28.0	8.0	9.0	13.5
Merged-chr11-87045643-4	chr11	87045541	87045741	+	886.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025638, intron 5 of 9)	intron (NM_025638, intron 5 of 9)	28496.0	NM_025638	66569.0	Mm.281887	NM_025638	ENSMUSG00000061666	Gdpd1	2610020H15Rik	glycerophosphodiester phosphodiesterase domain containing 1	protein-coding	17.0	21.5	14.5	527.5	32.0	10.0	18.0	3.5
Merged-chr3-84622209-2	chr3	84622109	84622309	+	798.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28635.0	NM_207278	403175.0	Mm.83086	NM_207278	ENSMUSG00000047819	Tigd4	C130063O11Rik|Gm418	tigger transposable element derived 4	protein-coding	5.0	8.0	4.5	111.5	12.5	2.5	2.5	7.5
Merged-chr1-166731049-3	chr1	166730938	166731138	+	706.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49193.0	NM_001347135	240894.0	Mm.246610	NM_172844	ENSMUSG00000026560	Fmo9	4831428F09Rik	flavin containing monooxygenase 9	protein-coding	8.5	10.0	2.0	138.5	13.0	6.0	11.0	12.0
Merged-chr4-111886783-1	chr4	111886683	111886883	+	566.0	f0_balb.idr	intron (NM_145551, intron 11 of 14)	intron (NM_145551, intron 11 of 14)	16013.0	NM_145551	230612.0	Mm.26630	NM_145551	ENSMUSG00000028544	Slc5a9	AI159731|SGLT4	solute carrier family 5 (sodium/glucose cotransporter), member 9	protein-coding	5.0	4.5	6.5	138.5	23.0	11.5	10.5	4.0
Merged-chr17-32947444-4	chr17	32947369	32947569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130882)	promoter-TSS (NM_130882)	-108.0	NM_130882	170716.0	Mm.254838	NM_130882	ENSMUSG00000024055	Cyp4f13	0610030I10Rik|Cypf13	cytochrome P450, family 4, subfamily f, polypeptide 13	protein-coding	117.0	128.5	65.5	1337.0	212.0	76.5	123.5	71.5
Merged-chr3-88950466-2	chr3	88950372	88950572	+	1000.0	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022994)	promoter-TSS (NM_022994)	-190.0	NM_001164533	65111.0	Mm.29028	NM_022994	ENSMUSG00000068921	Dap3	4921514D13Rik|DAP-3|MRP-S29|S29mt	death associated protein 3	protein-coding	40.5	47.0	36.0	343.5	63.5	31.0	34.0	40.0
Merged-chr13-55587135-3	chr13	55587033	55587233	+	750.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-6002.0	NM_026211	67511.0	Mm.45233	NM_026211	ENSMUSG00000058569	Tmed9	2400003B06Rik	transmembrane p24 trafficking protein 9	protein-coding	12.0	10.0	2.0	16.0	32.5	9.0	7.5	13.0
Merged-chr5-20967997-4	chr5	20967876	20968076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16154.0	NM_001080977	242860.0	Mm.254286	NM_001080977	ENSMUSG00000039968	Rsbn1l	8430412F05Rik|AI447441|C330002G24Rik	round spermatid basic protein 1-like	protein-coding	20.0	54.5	31.0	748.0	58.5	17.0	28.5	26.0
Merged-chr11-9117991-4	chr11	9117890	9118090	+	716.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159402)	promoter-TSS (NM_001159402)	-18.0	NM_001159401	22271.0	Mm.4610	NM_009477	ENSMUSG00000020407	Upp1	AI325217|UPase|UdRPase|Up|Upp	uridine phosphorylase 1	protein-coding	9.0	8.5	14.0	157.0	25.0	9.0	8.0	6.0
Merged-chr1-65154990-3	chr1	65154903	65155103	+	762.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24139.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	8.0	19.0	18.0	319.5	5.5	2.0	13.0	10.0
Merged-chr4-47294042-1	chr4	47293942	47294142	+	682.0	f0_balb.idr	intron (NM_009928, intron 28 of 39)	intron (NM_009928, intron 28 of 39)	-59180.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	8.5	13.0	8.0	124.0	7.5	6.5	3.5	6.0
Merged-chr5-5514402-4	chr5	5514253	5514453	+	843.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001193660, exon 2 of 5)	5' UTR (NM_001193660, exon 2 of 5)	436.0	NM_001193660	64945.0	Mm.40132	NM_022890	ENSMUSG00000046798	Cldn12	-	claudin 12	protein-coding	11.5	8.5	14.5	131.0	26.0	10.0	10.5	11.0
Merged-chr6-146127011-4	chr6	146126848	146127048	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 55 of 56)	intron (NM_019923, intron 55 of 56)	192826.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	11.5	15.5	7.5	273.5	20.5	1.5	8.0	6.0
Merged-chr5-143044170-4	chr5	143044100	143044300	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	68820.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	30.0	7.0	6.5	156.0	43.0	12.5	14.5	27.5
Merged-chr5-5755216-3	chr5	5755134	5755334	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5917.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	6.0	8.0	4.5	177.5	12.0	4.0	2.0	1.5
Merged-chr5-99406074-3	chr5	99405983	99406183	+	698.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-153156.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	4.5	10.5	4.5	75.0	10.5	2.5	3.0	11.0
Merged-chr17-24478876-4	chr17	24478797	24478997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252463, intron 1 of 8)	CpG	181.0	NM_001252464	56716.0	Mm.289516	NM_019988	ENSMUSG00000024142	Mlst8	0610033N12Rik|AA409454|AI505104|AI851821|Gbl	MTOR associated protein, LST8 homolog (S. cerevisiae)	protein-coding	79.5	127.0	94.0	887.0	139.5	52.5	53.0	91.0
Merged-chr11-69326187-4	chr11	69326081	69326281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010599)	promoter-TSS (NM_010599)	-77.0	NM_010599	16499.0	Mm.232472	NM_010599	ENSMUSG00000018470	Kcnab3	C330022D06Rik|Kcnab4|mKv(beta)4	potassium voltage-gated channel, shaker-related subfamily, beta member 3	protein-coding	63.0	125.0	46.0	867.0	174.0	68.0	71.0	70.0
Merged-chr18-66475485-2	chr18	66475385	66475585	+	992.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16881.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	5.5	24.5	5.5	55.0	50.5	17.0	10.5	13.5
Merged-chr19-14587410-3	chr19	14587296	14587496	+	940.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302951, intron 4 of 19)	intron (NM_001302951, intron 4 of 19)	9817.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	7.5	9.5	23.5	203.5	22.0	3.0	5.0	8.5
Merged-chr16-30974734-4	chr16	30974637	30974837	+	969.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	L1MA9|LINE|L1	106695.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	22.0	24.5	10.0	305.0	43.0	27.5	21.5	17.5
Merged-chr17-23980706-4	chr17	23980603	23980803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-5473.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	87.0	115.5	80.5	1389.0	241.0	78.0	86.0	94.0
Merged-chr6-99670986-4	chr6	99670900	99671100	+	855.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4229.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	8.5	20.0	9.5	125.5	32.5	7.0	3.5	22.0
Merged-chr19-6487330-4	chr19	6487204	6487404	+	772.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 11 of 22)	intron (NM_001205234, intron 11 of 22)	55766.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	7.0	12.0	10.0	217.0	25.5	8.0	13.0	23.5
Merged-chr1-97319788-4	chr1	97319703	97319903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-191500.0	NM_028942	74441.0	Mm.60362	NM_028942	ENSMUSG00000026331	Slco6c1	4933404A18Rik|C79179	solute carrier organic anion transporter family, member 6c1	protein-coding	73.0	71.5	71.0	1361.5	89.5	28.5	49.5	29.0
Merged-chr13-24687534-3	chr13	24687441	24687641	+	757.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080381, intron 8 of 14)	intron (NM_001080381, intron 8 of 14)	48893.0	NM_029679	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	10.0	9.5	5.0	131.5	19.5	5.5	7.5	9.0
Merged-chr11-63051274-4	chr11	63051193	63051393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10366.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	164.0	197.5	134.0	2328.0	334.5	104.5	183.5	131.5
Merged-chr1-84428834-3	chr1	84428703	84428903	+	799.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 8 of 12)	intron (NM_152915, intron 8 of 12)	-144158.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	8.5	6.0	9.0	160.5	24.0	3.0	7.0	14.0
Merged-chr12-34591908-4	chr12	34591812	34592012	+	769.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	RCHARR1|DNA|hAT-Charlie	-63023.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	10.0	8.5	9.5	186.0	18.5	14.0	13.0	13.5
Merged-chr17-10765056-4	chr17	10764969	10765169	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	Lx7|LINE|L1	75122.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	14.5	18.5	17.5	328.0	37.5	16.5	18.5	20.0
Merged-chr1-13267638-4	chr1	13267465	13267665	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 2 of 22)	(CCG)n|Simple_repeat|Simple_repeat	104864.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	9.0	9.0	12.5	128.0	27.5	8.5	8.5	22.0
Merged-chr10-8021505-4	chr10	8021413	8021613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-65390.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	44.0	50.0	36.5	842.0	83.5	36.0	55.0	39.5
Merged-chr9-120926407-3	chr9	120926308	120926508	+	872.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040753, intron 2 of 2)	intron (NR_040753, intron 2 of 2)	4394.0	NR_040753	78060.0	Mm.463884	NR_040753	ENSMUSG00000086365	4930593C16Rik	-	RIKEN cDNA 4930593C16 gene	ncRNA	9.5	19.5	7.5	124.5	30.0	6.0	9.5	9.0
Merged-chr12-32910277-4	chr12	32910205	32910405	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43484.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	11.0	22.5	5.0	246.5	16.5	2.5	8.5	12.0
Merged-chr2-158773025-4	chr2	158772928	158773128	+	948.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027975, intron 1 of 3)	intron (NM_027975, intron 1 of 3)	4929.0	NM_027975	71878.0	Mm.85162	NM_027975	ENSMUSG00000027654	Fam83d	2310007D09Rik|BB104611	family with sequence similarity 83, member D	protein-coding	23.5	20.0	15.5	382.5	30.0	19.5	17.0	22.0
Merged-chr5-139398005-4	chr5	139397916	139398116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	8112.0	NM_001038703	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	85.5	83.0	133.0	1395.5	158.0	78.5	72.0	100.5
Merged-chr8-11050020-1	chr8	11049920	11050120	+	747.0	f0_balb.idr	intron (NR_046017, intron 2 of 4)	intron (NR_046017, intron 2 of 4)	-41590.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	5.0	12.0	6.0	146.0	5.0	0.5	4.0	0.5
Merged-chr15-100131874-3	chr15	100131770	100131970	+	801.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 2 of 37)	intron (NM_001159361, intron 2 of 37)	-22526.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	13.0	20.0	5.0	89.5	25.5	0.0	3.0	5.5
Merged-chr4-152214276-3	chr4	152214163	152214363	+	821.116638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133348, intron 2 of 8)	intron (NM_133348, intron 2 of 8)	14419.0	NM_001146058	70025.0	Mm.296191	NM_133348	ENSMUSG00000028937	Acot7	2410041A17Rik|Ach1|Act|Bach|CTE-IIa|Cte-II|Lach1	acyl-CoA thioesterase 7	protein-coding	3.0	12.0	6.5	116.0	10.5	6.5	8.5	9.5
Merged-chr1-191599435-4	chr1	191599330	191599530	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178632, intron 7 of 19)	intron (NM_178632, intron 7 of 19)	23794.0	NM_001306204	77065.0	Mm.338175	NM_178632	ENSMUSG00000037461	Ints7	5930412E23Rik|int7	integrator complex subunit 7	protein-coding	16.5	24.0	18.5	313.0	116.5	33.5	45.0	26.0
Merged-chr15-59752451-4	chr15	59752349	59752549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	42510.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	41.5	65.5	24.0	654.5	60.5	21.0	56.0	44.0
Merged-chr10-82859179-4	chr10	82859081	82859281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015762)	promoter-TSS (NM_015762)	-25.0	NM_001042513	50493.0	Mm.210155	NM_015762	ENSMUSG00000020250	Txnrd1	TR|TR1|TrxR1	thioredoxin reductase 1	protein-coding	257.0	413.5	275.5	2785.5	675.5	250.0	287.5	270.5
Merged-chr8-69017609-4	chr8	69017518	69017718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71118.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	34.5	46.5	34.5	681.0	120.5	37.0	65.0	53.5
Merged-chr18-69571210-4	chr18	69571136	69571336	+	900.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	225076.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	13.5	17.5	6.0	158.0	55.5	15.5	14.5	11.0
Merged-chr11-72221440-4	chr11	72221295	72221495	+	888.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5803.0	NM_026068	67279.0	Mm.159496	NM_026068	ENSMUSG00000020801	Med31	3110004H13Rik|CGI-125|l11Jus15	mediator complex subunit 31	protein-coding	5.0	11.5	4.5	76.5	13.0	4.5	8.0	6.5
Merged-chr10-93262356-4	chr10	93262208	93262408	+	838.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282967, intron 2 of 3)	intron (NM_001282967, intron 2 of 3)	48851.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	5.0	7.0	3.0	71.5	33.5	4.5	14.5	15.5
Merged-chr16-18812306-4	chr16	18812209	18812409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009862)	promoter-TSS (NM_009862)	15.0	NM_011672	22230.0	Mm.237594	NM_011672	ENSMUSG00000005262	Ufd1	Ufd1l	ubiquitin recognition factor in ER-associated degradation 1	protein-coding	32.0	61.5	21.0	575.5	103.0	24.0	60.0	63.5
Merged-chr6-129397463-5	chr6	129397418	129397618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001204239, exon 1 of 5)	5' UTR (NM_001204239, exon 1 of 5)	221.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	26.5	32.5	15.5	418.5	101.0	36.5	66.0	44.0
Merged-chr8-124830199-3	chr8	124830095	124830295	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198632, exon 10 of 10)	3' UTR (NM_198632, exon 10 of 10)	32834.0	NM_025615	66523.0	Mm.436864	NM_025615	ENSMUSG00000031984	2810004N23Rik	3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55	RIKEN cDNA 2810004N23 gene	protein-coding	32.5	75.5	32.5	390.5	11.0	6.0	3.0	7.5
Merged-chr11-16507581-4	chr11	16507500	16507700	+	961.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011343, intron 1 of 3)	intron (NM_011343, intron 1 of 3)	884.0	NM_011343	20335.0	Mm.325350	NM_011343	ENSMUSG00000078974	Sec61g	-	SEC61, gamma subunit	protein-coding	9.0	23.0	26.5	262.0	46.0	12.5	13.5	26.5
Merged-chr9-89872380-4	chr9	89872303	89872503	+	751.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37372.0	NM_001357744	19417.0	Mm.44561	NM_011245	ENSMUSG00000032356	Rasgrf1	AI844718|CDC25|CDC25Mm|Gnrp|Grf1|Grfbeta|P190-A|Ras-GRF1|p190|p190RhoGEF	RAS protein-specific guanine nucleotide-releasing factor 1	protein-coding	2.5	16.0	7.0	82.0	30.0	6.5	14.0	8.5
Merged-chr11-46052475-2	chr11	46052375	46052575	+	794.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-2027.0	NM_001291890	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	2.0	2.5	1.0	60.5	10.5	4.5	10.0	5.0
Merged-chr6-149357293-4	chr6	149357185	149357385	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB3_1-LTR_MM|LTR|ERVK	47871.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	30.0	21.5	31.5	312.0	111.0	42.5	54.5	59.5
Merged-chr2-154603865-4	chr2	154603813	154604013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021534)	promoter-TSS (NM_021534)	-240.0	NM_021534	59038.0	Mm.24673	NM_021534	ENSMUSG00000000876	Pxmp4	3010018P03Rik|Pmp24	peroxisomal membrane protein 4	protein-coding	431.0	717.5	453.0	6313.0	539.5	226.0	235.5	206.0
Merged-chr11-107321713-4	chr11	107321629	107321829	+	753.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359616, intron 2 of 8)	polypurine|Low_complexity|Low_complexity	-132348.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	10.0	10.0	2.0	116.0	27.5	5.5	10.5	11.0
Merged-chr6-38690779-4	chr6	38690674	38690874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27705.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	58.0	64.0	42.5	892.5	76.0	21.5	38.5	40.5
Merged-chr17-57280583-4	chr17	57280484	57280684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	intron (NM_001163816, intron 1 of 25)	1484.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	127.0	172.5	176.5	2147.0	249.0	73.5	139.0	68.0
Merged-chr7-98809592-4	chr7	98809496	98809696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-25516.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	125.5	102.5	143.5	2049.5	277.5	92.0	183.5	144.5
Merged-chr2-129388020-1	chr2	129387920	129388120	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-16881.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	21.0	45.5	25.0	323.5	88.0	25.0	30.5	27.0
Merged-chr8-111537284-3	chr8	111537202	111537402	+	905.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001168621, exon 1 of 5)	exon (NM_001168621, exon 1 of 5)	662.0	NM_001168621	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	6.0	3.5	7.0	91.0	19.0	8.5	6.5	9.0
Merged-chr6-143099557-2	chr6	143099438	143099638	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001362118, intron 2 of 25)	CpG	614.0	NM_001362118	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	26.0	23.5	26.5	374.5	54.5	18.5	12.5	19.5
Merged-chr11-86356342-4	chr11	86356235	86356435	+	943.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080931, intron 1 of 29)	intron (NM_001080931, intron 1 of 29)	1190.0	NM_001080931	327987.0	Mm.341886	NM_001080931	ENSMUSG00000034297	Med13	1110067M05Rik|D030023K18|Thrap1|Trap240	mediator complex subunit 13	protein-coding	20.5	36.0	14.5	127.0	37.5	23.0	14.5	22.0
Merged-chr4-126023756-4	chr4	126023747	126023947	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045561)	promoter-TSS (NR_045561)	-812.0	NR_045561	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	7.5	11.0	4.0	141.0	61.0	22.5	20.0	27.5
Merged-chr11-103265429-4	chr11	103265329	103265529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	1972.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	21.0	19.0	24.5	376.0	75.0	19.0	27.0	24.5
Merged-chr12-79750398-4	chr12	79750269	79750469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 8 of 10)	intron (NM_009014, intron 8 of 10)	174364.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	130.0	212.0	91.5	1382.0	238.5	95.5	157.5	111.0
Merged-chr13-111936147-4	chr13	111936041	111936241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68205.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	212.0	249.5	240.5	3272.0	428.5	136.0	214.5	195.5
Merged-chr6-39226725-4	chr6	39226654	39226854	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19981.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	21.0	23.0	36.5	424.5	25.0	8.0	10.0	14.5
Merged-chr13-67375773-4	chr13	67375676	67375876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001186)	promoter-TSS (NM_001001186)	-13.0	NM_001001186	408065.0	Mm.461583	NM_001001186	ENSMUSG00000078995	Zfp456	BC065418|Rslcan-13	zinc finger protein 456	protein-coding	180.0	243.5	103.5	1900.5	489.5	179.0	217.5	153.5
Merged-chr10-122097372-4	chr10	122097271	122097471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153059)	promoter-TSS (NM_153059)	-269.0	NM_153059	216395.0	Mm.236764	NM_153059	ENSMUSG00000034620	Tmem5	6330415D21Rik	transmembrane protein 5	protein-coding	299.5	452.5	331.0	4738.5	787.5	274.5	425.0	278.5
Merged-chr6-142525029-4	chr6	142524923	142525123	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17066.0	NM_001316322	16832.0	Mm.9745	NM_008492	ENSMUSG00000030246	Ldhb	AI790582|H-Ldh|LDH-B|LDH-H|Ldh-2|Ldh2	lactate dehydrogenase B	protein-coding	5.0	8.5	11.0	110.0	21.0	11.0	13.0	7.0
Merged-chr3-86976732-4	chr3	86976620	86976820	+	845.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9866.0	NM_001289449	12480.0	Mm.389465	NM_007640	ENSMUSG00000041750	Cd1d2	CD1.2|Cd1b|Ly-38	CD1d2 antigen	protein-coding	8.0	7.0	12.5	217.5	26.5	10.0	8.0	9.5
Merged-chr1-45907561-1	chr1	45907461	45907661	+	1000.0	f0_balb.idr	TTS (NM_016917)	TTS (NM_016917)	18033.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	7.5	13.5	5.5	141.5	21.0	4.5	4.5	16.5
Merged-chr14-30624442-4	chr14	30624341	30624541	+	815.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	1767.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	11.5	16.5	19.5	100.5	35.5	7.5	18.0	14.5
Merged-chr13-5845361-4	chr13	5845247	5845447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12745.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	35.5	44.5	44.5	494.0	70.0	35.5	29.5	41.0
Merged-chr2-102967631-4	chr2	102967524	102967724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65959.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	73.5	86.5	49.5	1109.5	138.5	52.0	62.0	46.0
Merged-chr9-86478935-2	chr9	86478835	86479035	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 1 of 38)	intron (NM_177208, intron 1 of 38)	11781.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	4.5	7.0	17.5	196.0	16.0	22.0	10.5	15.5
Merged-chr1-84881745-4	chr1	84881652	84881852	+	940.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025386, intron 2 of 3)	RMER15|LTR|ERVL	41911.0	NM_025386	66153.0	Mm.381192	NM_025386	ENSMUSG00000073633	Fbxo36	0610008D19Rik|1110020F21Rik|2410002G19Rik|D1Ertd757e	F-box protein 36	protein-coding	5.0	12.0	9.5	251.5	70.0	24.0	37.5	34.0
Merged-chr7-49794530-3	chr7	49794454	49794654	+	732.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133740, intron 8 of 15)	intron (NM_133740, intron 8 of 15)	16196.0	NM_133740	71974.0	Mm.33202	NM_133740	ENSMUSG00000030505	Prmt3	2010005E20Rik|2410018A17Rik|AL033309|Hrmt1l3	protein arginine N-methyltransferase 3	protein-coding	6.0	10.0	8.0	118.0	6.5	1.0	4.5	1.0
Merged-chr5-95941905-3	chr5	95941795	95941995	+	760.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15044.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	17.5	12.0	3.5	136.5	14.5	4.5	6.5	5.0
Merged-chr5-19888655-4	chr5	19888560	19888760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	intron (NM_001170746, intron 2 of 22)	-18858.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	53.5	80.0	56.5	1119.5	125.5	62.5	72.0	56.5
Merged-chr8-116633998-4	chr8	116633907	116634107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 1 of 6)	MTD|LTR|ERVL-MaLR	98984.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	47.0	51.0	34.5	582.0	143.0	32.0	77.5	42.0
Merged-chr13-81134573-4	chr13	81134467	81134667	+	758.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	RMER10A|LTR|ERVL	170493.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	12.5	14.0	7.5	124.5	12.0	9.5	5.0	12.5
Merged-chr5-148451173-2	chr5	148451073	148451273	+	859.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51269.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	6.0	12.0	2.5	51.5	19.5	10.0	7.0	5.0
Merged-chr3-137879884-4	chr3	137879786	137879986	+	909.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033155, intron 1 of 7)	(TTG)n|Simple_repeat|Simple_repeat	12211.0	NM_001033155	70604.0	Mm.256488	NM_001033155	ENSMUSG00000074212	Dnajb14	5730496F10Rik	DnaJ heat shock protein family (Hsp40) member B14	protein-coding	22.0	15.5	4.0	217.0	27.5	8.0	15.5	21.5
Merged-chr2-174440052-4	chr2	174439916	174440116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022325)	promoter-TSS (NM_022325)	-977.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	60.5	66.0	40.0	543.5	155.0	57.5	50.0	62.0
Merged-chr1-39847256-4	chr1	39847160	39847360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040465)	promoter-TSS (NR_040465)	70.0	NR_040465	73426.0	Mm.396239	NR_040465	ENSMUSG00000101634	1700066B17Rik	-	RIKEN cDNA 1700066B17 gene	ncRNA	76.0	144.0	80.0	957.5	199.0	102.5	97.0	66.0
Merged-chr4-32238628-4	chr4	32238522	32238722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-178813.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	62.5	96.0	107.5	1166.5	112.0	45.5	56.5	55.5
Merged-chr18-53059279-4	chr18	53059163	53059363	+	970.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117029.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	12.0	17.0	27.0	418.0	48.0	22.5	47.5	31.0
Merged-chr4-139192721-4	chr4	139192625	139192825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009798)	promoter-TSS (NM_009798)	-174.0	NM_009798	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	253.5	424.5	274.5	3608.5	663.5	265.0	431.0	294.0
Merged-chr10-39412952-4	chr10	39412849	39413049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	43150.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	57.0	95.5	96.5	1682.5	207.0	56.0	113.0	92.0
Merged-chr14-50956188-3	chr14	50956077	50956277	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123371)	promoter-TSS (NM_001123371)	36.0	NM_001123371	667034.0	Mm.482171	NM_001123371	ENSMUSG00000068417	Pnp2	-	purine-nucleoside phosphorylase 2	protein-coding	0.5	0.0	0.0	0.0	45.0	39.5	20.0	16.0
Merged-chr2-84425310-4	chr2	84425190	84425390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018782)	promoter-TSS (NM_018782)	-24.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	66.0	92.0	60.5	1239.0	187.0	49.0	77.5	61.5
Merged-chr7-4504906-4	chr7	4504801	4505001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360154, intron 12 of 12)	intron (NM_001360154, intron 12 of 12)	-3221.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	65.5	91.0	68.0	934.0	210.0	69.5	92.0	74.5
Merged-chr5-32122560-4	chr5	32122448	32122648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13924.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	99.5	142.0	102.0	1112.0	196.5	60.0	72.0	42.0
Merged-chr2-122637830-4	chr2	122637732	122637932	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004174)	promoter-TSS (NM_001004174)	-55.0	NM_001004174	433470.0	Mm.36783	NM_001004174	ENSMUSG00000033213	AA467197	Nmes1|mir-147	expressed sequence AA467197	protein-coding	28.5	43.0	15.5	261.0	48.0	38.0	37.0	25.5
Merged-chr15-65108781-3	chr15	65108674	65108874	+	884.8833619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186478.0	NM_009623	11514.0	Mm.1425	NM_009623	ENSMUSG00000022376	Adcy8	AC8|AW060868	adenylate cyclase 8	protein-coding	12.5	9.0	11.0	312.5	9.0	6.0	2.0	1.0
Merged-chr6-39118228-4	chr6	39118086	39118286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045813)	promoter-TSS (NR_045813)	163.0	NM_172893	243771.0	Mm.268462	NM_172893	ENSMUSG00000038507	Parp12	9930021O16|AA409132|AA536654|ARTD12|PARP-12|Zc3hdc1	poly (ADP-ribose) polymerase family, member 12	protein-coding	61.5	68.0	58.5	775.5	130.0	39.5	49.0	47.5
Merged-chr15-99252095-4	chr15	99251994	99252194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016766)	promoter-TSS (NM_016766)	-133.0	NM_016766	51812.0	Mm.383472	NM_016766	ENSMUSG00000037570	Mcrs1	C78274|ICP22BP|MSP58|P78	microspherule protein 1	protein-coding	158.0	257.5	101.5	1595.5	410.5	181.0	138.0	157.0
Merged-chr16-31080756-3	chr16	31080661	31080861	+	845.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 1 of 3)	CpG	671.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	10.5	9.5	12.0	155.5	14.0	6.5	7.5	8.0
Merged-chr4-99929427-4	chr4	99929319	99929519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028132)	promoter-TSS (NM_028132)	-32.0	NM_028132	72157.0	Mm.217764	NM_028132	ENSMUSG00000025791	Pgm2	2610020G18Rik|AA407108|AI098105|Pgm-2|Pgm1	phosphoglucomutase 2	protein-coding	76.0	110.0	81.0	1411.0	177.5	69.5	92.0	71.5
Merged-chr2-11548743-4	chr2	11548637	11548837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	5192.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	49.5	57.5	61.0	966.5	105.0	31.5	51.5	63.0
Merged-chr9-107268202-4	chr9	107268108	107268308	+	816.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316691, intron 1 of 7)	intron (NM_001316691, intron 1 of 7)	21188.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	9.0	9.5	13.0	247.0	27.5	6.5	9.0	10.0
Merged-chr9-109923997-4	chr9	109923914	109924114	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7760.0	NM_001205331	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	19.5	27.5	16.0	223.0	68.0	23.5	33.5	29.0
Merged-chr3-41375374-3	chr3	41375277	41375477	+	973.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	117822.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	15.0	11.5	30.0	395.0	12.0	7.0	10.5	3.0
Merged-chr4-118428712-4	chr4	118428597	118428797	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039175, intron 1 of 6)	intron (NM_001039175, intron 1 of 6)	604.0	NM_019422	54325.0	Mm.282096	NM_019422	ENSMUSG00000006390	Elovl1	AA407424|BB151133|Ssc1	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1	protein-coding	9.5	21.5	12.5	188.0	44.5	7.5	12.5	22.5
Merged-chr8-125489026-3	chr8	125488918	125489118	+	864.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 3 of 21)	intron (NM_001357372, intron 3 of 21)	3815.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	11.0	24.0	15.5	169.0	19.0	5.5	23.0	8.0
Merged-chr16-20538110-4	chr16	20538008	20538208	+	965.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302970, intron 2 of 10)	intron (NM_001302970, intron 2 of 10)	2628.0	NM_009679	11773.0	Mm.18946	NM_009679	ENSMUSG00000022841	Ap2m1	-	adaptor-related protein complex 2, mu 1 subunit	protein-coding	13.0	30.0	16.0	223.0	34.5	11.5	15.0	22.0
Merged-chr12-75684202-6	chr12	75684087	75684287	+	901.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-14650.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	11.0	20.0	29.0	72.5	12.5	3.5	13.0	13.0
Merged-chr1-61772238-3	chr1	61772129	61772329	+	964.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081050, intron 2 of 22)	intron (NM_001081050, intron 2 of 22)	133405.0	NM_001081050	72823.0	Mm.35153	NM_001081050	ENSMUSG00000052062	Pard3b	1810008K04Rik|2010002N16Rik|2810455B10Rik|Als2cr19|PAR3B|PAR3L|PAR3beta	par-3 family cell polarity regulator beta	protein-coding	9.5	4.5	11.5	109.0	8.0	3.0	6.0	12.0
Merged-chr4-119422823-4	chr4	119422728	119422928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355214)	promoter-TSS (NM_001355214)	144.0	NM_001014900	332934.0	Mm.388911	NM_001014900	ENSMUSG00000070806	Zmynd12	AI414736	zinc finger, MYND domain containing 12	protein-coding	28.5	44.0	18.5	384.0	94.0	35.5	38.0	25.5
Merged-chr17-17624617-4	chr17	17624509	17624709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172827)	promoter-TSS (NM_172827)	-120.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	221.5	325.5	171.5	3323.5	573.5	211.5	250.5	236.0
Merged-chr13-45388382-4	chr13	45388333	45388533	+	797.892822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1309.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	14.0	14.0	7.5	51.5	16.0	4.0	3.0	3.0
Merged-chr6-34346787-4	chr6	34346682	34346882	+	895.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7364.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	13.0	19.5	12.0	194.0	23.5	10.0	19.0	5.5
Merged-chr2-26325960-3	chr2	26325872	26326072	+	682.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355575, intron 7 of 13)	intron (NM_001355575, intron 7 of 13)	6202.0	NM_001199147	67839.0	Mm.266611	NM_153410	ENSMUSG00000026930	Gpsm1	1810037C22Rik|AW107933|Ags3	G-protein signalling modulator 1 (AGS3-like, C. elegans)	protein-coding	4.5	7.0	7.5	67.0	13.5	4.0	9.5	8.5
Merged-chr10-77314901-4	chr10	77314805	77315005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024838, intron 6 of 11)	MTE2b|LTR|ERVL-MaLR	55605.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	112.0	193.0	108.0	2386.5	232.5	71.0	139.5	131.5
Merged-chr7-123149093-4	chr7	123148995	123149195	+	718.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144925, intron 3 of 23)	intron (NM_144925, intron 3 of 23)	25210.0	NM_144925	233833.0	Mm.102305	NM_144925	ENSMUSG00000052707	Tnrc6a	2010321I05Rik|3110054G10Rik|AW557223|CAGH26|D130023A07Rik|GW182|Tnrc6	trinucleotide repeat containing 6a	protein-coding	5.5	3.5	8.0	165.0	21.5	7.0	11.0	10.5
Merged-chr8-18846928-4	chr8	18846835	18847035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026792, intron 1 of 7)	CpG	656.0	NM_026792	52123.0	Mm.24117	NM_026792	ENSMUSG00000031467	Agpat5	1110013A05Rik|D8Ertd319e	1-acylglycerol-3-phosphate O-acyltransferase 5 (lysophosphatidic acid acyltransferase, epsilon)	protein-coding	78.0	88.0	106.5	1438.0	178.0	66.0	88.5	93.5
Merged-chr6-97523325-4	chr6	97523228	97523428	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-35508.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	29.0	37.5	9.0	205.5	61.5	21.5	11.5	20.0
Merged-chr4-3801828-2	chr4	3801745	3801945	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17B|LTR|ERVK	33810.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	5.5	5.0	3.0	13.5	5.0	6.5	6.5	5.0
Merged-chr11-6366097-4	chr11	6365988	6366188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29037.0	NM_001005867	52915.0	Mm.1144	NM_028601	ENSMUSG00000041164	Zmiz2	Zimp7	zinc finger, MIZ-type containing 2	protein-coding	97.5	140.0	42.0	778.5	196.0	75.5	61.5	41.0
Merged-chr2-167843645-2	chr2	167843545	167843745	+	565.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-88682.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	5.5	11.5	6.5	27.0	8.0	2.0	2.0	5.0
Merged-chr5-35670672-4	chr5	35670572	35670772	+	952.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042615, intron 2 of 6)	intron (NM_001042615, intron 2 of 6)	9108.0	NM_001042615	78558.0	Mm.274255	NM_030127	ENSMUSG00000029096	Htra3	2210021K23Rik|9530081K03Rik|Prsp|Tasp	HtrA serine peptidase 3	protein-coding	27.5	24.0	49.0	542.0	23.0	17.0	24.0	29.0
Merged-chr3-88718050-4	chr3	88717930	88718130	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028056, intron 3 of 5)	intron (NR_028056, intron 3 of 5)	1176.0	NR_028056	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	21.0	24.5	27.5	384.0	76.0	18.5	33.5	39.5
Merged-chr15-82899776-4	chr15	82899680	82899880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045068, intron 1 of 3)	CpG	700.0	NR_045068	100504637.0	Mm.440928	NR_045068	ENSMUSG00000100199	Gm20324	-	predicted gene, 20324	ncRNA	65.5	120.0	53.5	433.0	166.0	56.5	38.5	33.0
Merged-chr14-57264156-4	chr14	57264050	57264250	+	970.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130539.0	NM_001010937	14623.0	Mm.25652	NM_008128	ENSMUSG00000040055	Gjb6	AA958971|Cx30|D14Bwg0506e	gap junction protein, beta 6	protein-coding	12.5	25.5	21.0	347.0	51.5	8.5	20.0	27.0
Merged-chr13-70650276-4	chr13	70650093	70650293	+	923.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-12559.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	12.0	5.0	29.0	315.0	35.5	4.5	5.0	13.0
Merged-chr16-18249921-2	chr16	18249821	18250021	+	998.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_001080999, exon 2 of 12)	exon (NM_001080999, exon 2 of 12)	1038.0	NM_001081000	15547.0	Mm.271798	NM_008307	ENSMUSG00000022721	Trmt2a	Htf9c	TRM2 tRNA methyltransferase 2A	protein-coding	8.0	8.0	9.0	94.5	13.5	5.0	5.0	14.0
Merged-chr1-84935881-4	chr1	84935773	84935973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027921)	promoter-TSS (NM_027921)	-790.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	36.0	40.0	31.0	610.5	52.5	21.0	23.5	27.0
Merged-chr5-43845231-3	chr5	43845107	43845307	+	950.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23602.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	11.5	15.5	15.5	258.0	14.5	5.5	16.5	4.0
Merged-chr1-56980213-4	chr1	56980107	56980307	+	759.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358580)	promoter-TSS (NM_001358580)	41.0	NM_001358580	212712.0	Mm.145599	NM_139146	ENSMUSG00000038331	Satb2	mKIAA1034	special AT-rich sequence binding protein 2	protein-coding	13.5	12.5	11.0	205.0	23.0	9.0	13.0	17.0
Merged-chr6-92943162-3	chr6	92943068	92943268	+	835.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	CpG	2586.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	7.5	19.0	24.0	230.5	0.0	1.0	1.0	4.5
Merged-chr8-104334047-4	chr8	104333958	104334158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-6536.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	141.0	153.0	193.0	2422.0	334.0	104.5	151.5	148.5
Merged-chr3-149088717-4	chr3	149088616	149088816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134081.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	22.0	47.5	59.0	815.0	83.0	21.0	55.0	36.5
Merged-chr12-102695543-4	chr12	102695391	102695591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172584, intron 1 of 9)	intron (NM_172584, intron 1 of 9)	9378.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	22.5	18.5	22.0	422.0	43.0	22.0	19.0	22.0
Merged-chr2-145827321-6	chr2	145827216	145827416	+	781.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	B1F|SINE|Alu	41200.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	11.5	13.0	7.0	137.0	16.5	6.5	7.5	12.0
Merged-chr13-37356203-4	chr13	37356101	37356301	+	929.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	10856.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	17.0	12.5	9.5	243.5	31.5	8.5	24.5	22.0
Merged-chr11-86840066-4	chr11	86839934	86840134	+	927.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32374.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	9.0	17.0	7.5	116.5	15.5	10.0	7.0	19.5
Merged-chr5-102053058-4	chr5	102052965	102053165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	16856.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	36.0	34.5	53.0	566.5	72.0	20.5	37.0	42.5
Merged-chr5-147073142-3	chr5	147073041	147073241	+	950.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	3431.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	15.0	20.5	10.5	241.5	9.0	3.0	0.0	0.0
Merged-chr19-59350742-3	chr19	59350608	59350808	+	830.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4928.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	12.0	12.5	10.5	175.0	22.5	6.0	7.5	2.0
Merged-chr9-70839232-4	chr9	70839128	70839328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	95580.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	27.0	39.0	25.0	326.5	63.0	18.0	25.5	26.5
Merged-chr2-30594971-4	chr2	30594864	30595064	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030137)	promoter-TSS (NM_030137)	-80.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	26.0	19.5	19.5	299.0	28.0	20.5	22.0	30.5
Merged-chr1-182376365-3	chr1	182376262	182376462	+	894.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32805.0	NM_173378	209456.0	Mm.287450	NM_173378	ENSMUSG00000026510	Trp53bp2	53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550	transformation related protein 53 binding protein 2	protein-coding	6.5	5.5	8.5	104.5	9.0	2.0	11.0	4.5
Merged-chr2-144258071-1	chr2	144257971	144258171	+	802.666687	f0_balb.idr	intron (NM_024225, intron 4 of 12)	intron (NM_024225, intron 4 of 12)	8131.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	9.5	4.5	10.5	153.0	24.0	3.5	6.0	8.0
Merged-chr4-131873473-4	chr4	131873338	131873538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020587)	promoter-TSS (NM_020587)	-201.0	NM_020587	57317.0	Mm.2478	NM_020587	ENSMUSG00000028911	Srsf4	5730499P16Rik|AW550192|MNCb-2616|SRp75|Sfrs4	serine/arginine-rich splicing factor 4	protein-coding	117.5	173.0	93.0	1178.0	310.0	149.5	138.5	100.5
Merged-chr11-22807656-3	chr11	22807534	22807734	+	890.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	52101.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	7.5	15.5	15.0	178.5	16.0	7.5	8.0	19.5
Merged-chr11-43470358-3	chr11	43470256	43470456	+	775.272217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3950.0	NM_026979	69183.0	Mm.390374	NM_026979	ENSMUSG00000046491	C1qtnf2	1810033K05Rik|CTRP2	C1q and tumor necrosis factor related protein 2	protein-coding	10.0	17.0	10.5	146.5	15.5	2.5	12.0	3.0
Merged-chr11-51815456-3	chr11	51815377	51815577	+	621.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_199299, exon 12 of 12)	3' UTR (NM_199299, exon 12 of 12)	42004.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	7.0	4.5	3.5	82.0	18.0	7.0	7.0	6.5
Merged-chr8-111821319-4	chr8	111821207	111821407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011801, intron 5 of 6)	(A)n|Simple_repeat|Simple_repeat	33003.0	NM_011801	23837.0	Mm.279437	NM_011801	ENSMUSG00000031954	Cfdp1	AA408409|Bcnt|Bucentaur|Cfdp|cp27	craniofacial development protein 1	protein-coding	56.5	140.0	77.0	840.5	192.5	76.0	66.0	90.0
Merged-chr3-31093391-2	chr3	31093291	31093491	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1667.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	17.5	20.0	8.0	171.5	63.0	25.5	27.5	18.5
Merged-chr7-25794957-4	chr7	25794852	25795052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6219.0	NM_001190975	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	41.0	60.5	29.5	612.5	93.0	27.5	42.0	40.5
Merged-chr7-49253190-4	chr7	49253124	49253324	+	998.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 1 of 37)	intron (NM_175272, intron 1 of 37)	7035.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	50.0	50.5	41.0	885.0	50.5	52.5	15.0	22.0
Merged-chr5-139666678-4	chr5	139666564	139666764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69669.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	48.5	53.5	43.0	751.5	83.0	33.0	21.5	37.0
Merged-chr9-59485873-4	chr9	59485763	59485963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019927, intron 1 of 13)	CpG	511.0	NM_019927	23806.0	Mm.305925	NM_019927	ENSMUSG00000025234	Arih1	AU021774|Ari|Ari1|Hari|Hhari|Ubch7bp|Uip77	ariadne RBR E3 ubiquitin protein ligase 1	protein-coding	36.5	68.0	36.5	572.0	130.5	43.5	49.0	45.5
Merged-chr3-142766369-4	chr3	142766263	142766463	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145546, intron 1 of 6)	intron (NM_145546, intron 1 of 6)	1116.0	NM_145546	229906.0	Mm.271756	NM_145546	ENSMUSG00000028271	Gtf2b	-	general transcription factor IIB	protein-coding	25.5	34.5	11.5	241.0	66.5	24.5	14.0	27.5
Merged-chr12-39510163-4	chr12	39510063	39510263	+	851.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	527213.0	NM_007487	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	8.0	28.5	7.0	222.0	23.5	12.0	17.0	9.5
Merged-chr12-112632490-3	chr12	112632393	112632593	+	930.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 3 of 12)	intron (NM_007421, intron 3 of 12)	-12335.0	NM_001161737	30954.0	Mm.289812	NM_013929	ENSMUSG00000064326	Siva1	CD27bp|Siva	SIVA1, apoptosis-inducing factor	protein-coding	13.0	15.0	7.5	146.5	10.0	3.5	5.0	15.0
Merged-chr17-20944365-4	chr17	20944260	20944460	+	949.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-1094.0	NM_016891	51792.0	Mm.294138	NM_016891	ENSMUSG00000007564	Ppp2r1a	6330556D22Rik|PP2A|PR65	protein phosphatase 2, regulatory subunit A, alpha	protein-coding	13.5	17.5	23.0	313.5	26.5	5.0	7.5	19.0
Merged-chr6-120363907-6	chr6	120363813	120364013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145997)	promoter-TSS (NM_145997)	-186.0	NM_145997	214899.0	Mm.404761	NM_145997	ENSMUSG00000030180	Kdm5a	AA409370|C76986|Jarid1a|RBP2|Rbbp2	lysine (K)-specific demethylase 5A	protein-coding	43.0	62.0	60.5	398.5	90.0	48.5	39.0	51.5
Merged-chr5-142907394-4	chr5	142907305	142907505	+	874.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007393)	promoter-TSS (NM_007393)	-651.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	15.0	15.0	5.0	38.0	10.0	14.0	9.0	15.0
Merged-chr6-129740467-3	chr6	129740344	129740544	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177155)	promoter-TSS (NM_177155)	40.0	NM_177155	320407.0	Mm.123265	NM_177155	ENSMUSG00000043932	Klri2	A530090P03Rik	killer cell lectin-like receptor family I member 2	protein-coding	15.0	12.5	2.5	206.5	6.0	4.5	8.0	5.5
Merged-chr4-136142921-4	chr4	136142845	136143045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008321)	promoter-TSS (NM_008321)	-877.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	18.0	23.5	19.5	297.0	57.5	11.5	18.0	24.5
Merged-chr6-124688519-4	chr6	124688351	124688551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149320, intron 1 of 11)	intron (NR_149320, intron 1 of 11)	23727.0	NM_013536	14791.0	Mm.6390	NM_013536	ENSMUSG00000004268	Emg1	C2f|Grcc2f	EMG1 N1-specific pseudouridine methyltransferase	protein-coding	41.5	43.0	31.0	297.0	83.5	15.5	19.5	25.0
Merged-chr16-10545339-4	chr16	10545252	10545452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204229)	promoter-TSS (NM_001204229)	13.0	NM_001204229	74374.0	Mm.159176	NM_177562	ENSMUSG00000068663	Clec16a	4932416N17Rik|curt|mKIAA0350	C-type lectin domain family 16, member A	protein-coding	126.0	206.0	111.0	2058.0	302.5	115.5	142.0	78.0
Merged-chr4-141663148-4	chr4	141663052	141663252	+	857.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	PB1D10|SINE|Alu	963.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	20.5	8.0	11.5	154.0	16.0	8.0	13.0	10.0
Merged-chr2-127070612-4	chr2	127070498	127070698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026678)	promoter-TSS (NM_026678)	-59.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	107.0	126.0	72.0	1581.5	195.0	59.5	115.0	85.5
Merged-chr10-126330729-3	chr10	126330619	126330819	+	837.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	364500.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	14.5	16.5	10.0	449.0	4.0	1.5	1.0	4.0
Merged-chr8-4493952-4	chr8	4493833	4494033	+	953.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026058, intron 1 of 10)	intron (NM_026058, intron 1 of 10)	528.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	17.0	21.0	8.5	265.0	34.5	20.5	21.0	14.0
Merged-chr3-95658773-4	chr3	95658663	95658863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008562)	promoter-TSS (NM_008562)	42.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	293.5	476.0	210.5	2636.0	736.0	324.5	303.5	252.5
Merged-chr7-81307757-4	chr7	81307628	81307828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 9 of 21)	intron (NM_008803, intron 9 of 21)	37506.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	26.5	22.5	37.5	585.5	77.5	23.0	45.5	33.5
Merged-chr7-142061037-4	chr7	142060943	142061143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028308)	promoter-TSS (NM_028308)	-9.0	NM_028308	101513.0	Mm.53259	NM_028308	ENSMUSG00000025147	Mob2	1110017M21Rik|2700078K21Rik|AI256456|Mmh	MOB kinase activator 2	protein-coding	75.5	107.5	52.5	1415.5	203.0	63.5	94.0	64.5
Merged-chr12-4915694-4	chr12	4915600	4915800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1653.0	NM_001099628	320817.0	Mm.210966	NM_001099628	ENSMUSG00000052812	Atad2b	1110014E10Rik|BC032887|C79189|D530031C13Rik	ATPase family, AAA domain containing 2B	protein-coding	33.0	53.0	38.5	828.0	101.5	44.0	33.0	50.0
Merged-chr5-32714057-4	chr5	32714009	32714209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	32233.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	114.0	185.0	105.0	1082.5	270.0	128.0	83.0	106.0
Merged-chr4-120570089-4	chr4	120570014	120570214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355491)	promoter-TSS (NM_001355491)	162.0	NM_016748	51797.0	Mm.1815	NM_016748	ENSMUSG00000028633	Ctps	Ctps1	cytidine 5'-triphosphate synthase	protein-coding	54.5	108.5	150.5	1158.5	181.5	74.0	90.5	87.5
Merged-chr11-90227670-4	chr11	90227553	90227753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21823.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	45.5	42.0	46.0	854.5	75.0	26.5	54.5	33.0
Merged-chr8-80984097-4	chr8	80983985	80984185	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027554, intron 9 of 9)	intron (NM_027554, intron 9 of 9)	30821.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	22.0	78.0	26.5	306.5	122.0	26.0	31.0	16.5
Merged-chr8-79029447-4	chr8	79029428	79029628	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	CpG	1091.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	14.5	14.5	27.0	267.5	35.5	9.0	6.0	12.5
Merged-chr2-180705325-4	chr2	180705227	180705427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291432, intron 1 of 5)	intron (NM_001291432, intron 1 of 5)	-3225.0	NM_175551	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	25.5	25.0	36.5	419.0	59.5	22.0	29.0	39.0
Merged-chr1-135146885-6	chr1	135146824	135147024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026823)	promoter-TSS (NM_026823)	90.0	NM_026823	68724.0	Mm.174998	NM_026823	ENSMUSG00000026426	Arl8a	1110033P22Rik|Arl10b|gie2	ADP-ribosylation factor-like 8A	protein-coding	17.5	18.5	23.0	350.5	64.5	20.5	23.5	22.5
Merged-chr13-37666526-4	chr13	37666463	37666663	+	847.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-159475.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	12.0	40.0	16.0	84.5	19.5	12.0	9.5	8.5
Merged-chr4-56757904-3	chr4	56757800	56758000	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026079, intron 34 of 36)	URR1B|DNA|hAT-Charlie	14478.0	NM_009611	11470.0	Mm.30959	NM_009611	ENSMUSG00000070979	Actl7a	Tact2	actin-like 7a	protein-coding	1.0	1.0	0.0	29.0	125.0	26.0	50.5	38.5
Merged-chr19-46504332-4	chr19	46504238	46504438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053100, intron 1 of 5)	intron (NM_053100, intron 1 of 5)	2690.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	117.0	204.0	198.5	1747.0	267.5	105.5	153.0	130.5
Merged-chr3-146158546-4	chr3	146158459	146158659	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	B4|SINE|B4	8385.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	6.5	19.0	7.5	159.5	37.0	13.5	8.5	27.0
Merged-chr9-65538367-4	chr9	65538287	65538487	+	957.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41700.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	12.0	23.0	41.0	432.5	102.5	14.0	38.5	26.0
Merged-chr15-73731910-2	chr15	73731810	73732010	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001166388, intron 1 of 5)	intron (NM_001166388, intron 1 of 5)	6980.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	9.5	8.0	6.5	49.5	23.0	7.0	7.0	17.0
Merged-chr4-107347593-4	chr4	107347485	107347685	+	950.839294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205156, intron 7 of 8)	intron (NM_001205156, intron 7 of 8)	-20199.0	NM_028355	72787.0	Mm.28478	NM_028355	ENSMUSG00000028614	Ndc1	2810475A17Rik|AI450313|Tmem48|sks	NDC1 transmembrane nucleoporin	protein-coding	12.0	11.0	7.0	127.0	17.0	8.5	10.5	21.0
Merged-chr8-12672148-4	chr8	12672036	12672236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198031)	promoter-TSS (NM_198031)	-36.0	NM_198031	259279.0	Mm.142095	NM_198031	ENSMUSG00000000759	Tubgcp3	GCP3|Spc98p	tubulin, gamma complex associated protein 3	protein-coding	79.5	117.0	73.0	1578.0	200.0	84.0	92.0	96.5
Merged-chr18-38542738-4	chr18	38542637	38542837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58531.0	NM_011898	24066.0	Mm.42038	NM_011898	ENSMUSG00000024427	Spry4	A030006O18Rik|sprouty4	sprouty RTK signaling antagonist 4	protein-coding	35.0	121.5	35.0	215.0	62.5	40.5	25.0	2.0
Merged-chr11-90232757-2	chr11	90232657	90232857	+	878.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16719.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	8.5	5.0	9.0	26.5	11.5	0.5	2.5	0.0
Merged-chr13-59003913-4	chr13	59003811	59004011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	196214.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	78.5	90.0	65.5	971.0	202.0	80.0	67.5	78.0
Merged-chr2-125731941-4	chr2	125731858	125732058	+	975.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7810.0	NM_199022	271849.0	Mm.425101	NM_199022	ENSMUSG00000035109	Shc4	6230417E10Rik|9930029B02Rik|Gm685|RaLP	SHC (Src homology 2 domain containing) family, member 4	protein-coding	33.0	39.5	46.5	379.0	45.5	15.5	27.0	14.0
Merged-chr4-116631124-4	chr4	116631022	116631222	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3171.0	NM_016777	50927.0	Mm.257181	NM_016777	ENSMUSG00000028693	Nasp	5033430J04Rik|AI131596|AI317140|D4Ertd767e|Epcs32|Nasp-T	nuclear autoantigenic sperm protein (histone-binding)	protein-coding	20.0	71.5	35.0	374.0	74.0	26.0	50.5	41.5
Merged-chr1-39602637-4	chr1	39602534	39602734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25287.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	33.5	33.5	31.5	602.5	66.5	30.0	24.5	23.0
Merged-chr18-75244995-3	chr18	75244803	75245003	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027727, intron 16 of 16)	ORR1F|LTR|ERVL-MaLR	52414.0	NR_045394	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	9.5	14.0	18.5	336.0	5.5	0.5	1.5	7.0
Merged-chr12-100203588-4	chr12	100203473	100203673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313934, intron 2 of 5)	intron (NM_001313934, intron 2 of 5)	3429.0	NM_001313934	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	42.5	95.5	43.5	823.0	80.5	33.5	33.0	41.5
Merged-chr7-128172695-4	chr7	128172591	128172791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1255.0	NM_001029872	381924.0	Mm.334257	NM_001029872	ENSMUSG00000070369	Itgad	Cd11d	integrin, alpha D	protein-coding	43.0	24.5	36.5	585.0	62.0	18.0	23.5	31.5
Merged-chr6-38552103-4	chr6	38552010	38552210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170848, intron 1 of 8)	CpG	776.0	NM_001170849	192196.0	Mm.276133	NM_138680	ENSMUSG00000029823	Luc7l2	4930471C18Rik|AA522013|AU015269|CGI59|Cgi74	LUC7-like 2 (S. cerevisiae)	protein-coding	197.5	268.5	162.5	2569.5	391.0	180.5	235.0	208.0
Merged-chr3-115816075-4	chr3	115815967	115816167	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71992.0	NR_027894	68161.0	Mm.392043	NR_015487	ENSMUSG00000054426	A930005H10Rik	-	RIKEN cDNA A930005H10 gene	ncRNA	32.0	34.5	9.5	350.5	64.0	19.0	39.5	19.0
Merged-chr1-106796263-2	chr1	106796163	106796363	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009190, intron 1 of 10)	CpG	462.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	25.0	34.5	27.0	397.5	59.5	20.5	30.0	39.5
Merged-chr4-6444029-4	chr4	6443910	6444110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	intron (NM_010945, intron 1 of 30)	10261.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	22.0	26.5	22.5	338.0	52.0	19.5	21.0	22.0
Merged-chr5-67260678-4	chr5	67260574	67260774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028975, exon 1 of 8)	5' UTR (NM_028975, exon 1 of 8)	109.0	NM_030108	67878.0	Mm.23217	NM_028975	ENSMUSG00000037720	Tmem33	1110006G02Rik|1600019D15Rik|2410089A21Rik|2700052H22Rik|5430406L04Rik|AA388285|AI314185|AI426615|db83	transmembrane protein 33	protein-coding	124.5	213.0	125.0	1871.5	340.0	143.0	160.5	148.0
Merged-chr9-83575571-4	chr9	83575463	83575663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	MLT1A0|LTR|ERVL-MaLR	27225.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	47.0	58.0	77.5	1172.5	62.5	23.0	47.5	51.5
Merged-chr7-100992151-4	chr7	100992039	100992239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19859.0	NM_001302347	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	85.5	135.0	63.5	835.0	172.0	62.5	48.0	50.0
Merged-chr9-44084857-4	chr9	44084768	44084968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198091)	promoter-TSS (NM_198091)	-52.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	111.0	204.0	143.5	2025.0	287.5	101.0	160.5	103.5
Merged-chr7-19669097-4	chr7	19669011	19669211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4081.0	NM_019649	56457.0	Mm.290960	NM_019649	ENSMUSG00000002981	Clptm1	HS9|N14	cleft lip and palate associated transmembrane protein 1	protein-coding	50.5	87.5	26.0	645.5	115.5	43.5	66.0	54.5
Merged-chr7-28372839-4	chr7	28372738	28372938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083912)	promoter-TSS (NM_001083912)	-176.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	270.5	427.0	261.0	3640.5	735.0	334.5	306.5	286.0
Merged-chr9-42837724-4	chr9	42837632	42837832	+	984.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175481, intron 1 of 20)	intron (NM_175481, intron 1 of 20)	106639.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	36.0	24.5	50.0	580.5	70.5	19.5	38.0	17.5
Merged-chr7-99978217-2	chr7	99978117	99978317	+	953.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	PB1D10|SINE|Alu	2241.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	19.0	9.0	6.0	51.5	15.5	2.0	0.0	3.0
Merged-chr3-41402029-4	chr3	41401932	41402132	+	912.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91167.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	22.0	16.0	22.5	334.5	14.0	11.0	13.0	14.5
Merged-chr5-144358114-5	chr5	144358048	144358248	+	760.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025833)	promoter-TSS (NM_025833)	-36.0	NM_025833	66898.0	Mm.18814	NM_025833	ENSMUSG00000038859	Baiap2l1	1300006M19Rik|AI585895|IRTKS	BAI1-associated protein 2-like 1	protein-coding	9.5	14.0	6.5	95.5	6.0	4.0	6.0	8.0
Merged-chr3-9031111-2	chr3	9031010	9031210	+	888.0833130000001	f0_c57.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-26387.0	NM_001357075	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	1.0	1.0	1.0	19.0	14.0	7.5	7.5	11.5
Merged-chr7-102100285-4	chr7	102100164	102100364	+	879.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291354)	promoter-TSS (NM_001291354)	-35.0	NM_007491	11875.0	Mm.2816	NM_007491	ENSMUSG00000070424	Art5	ARTC5|Yac-2	ADP-ribosyltransferase 5	protein-coding	9.5	15.0	6.0	111.0	35.5	5.5	13.5	16.0
Merged-chr17-74295164-7	chr17	74295054	74295254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133771)	promoter-TSS (NM_133771)	-291.0	NM_133771	76890.0	Mm.311874	NM_133771	ENSMUSG00000058704	Memo1	0610016J10Rik|D930048L02Rik	mediator of cell motility 1	protein-coding	30.5	43.5	16.5	366.5	104.5	63.0	65.5	29.5
Merged-chr2-26360984-4	chr2	26360906	26361106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1459.0	NM_001037747	332579.0	Mm.330064	NM_001037747	ENSMUSG00000026928	Card9	Gm782	caspase recruitment domain family, member 9	protein-coding	102.5	99.5	72.5	1208.0	187.0	84.5	120.0	89.5
Merged-chr8-94804739-4	chr8	94804621	94804821	+	897.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5732.0	NM_011332	20295.0	Mm.41988	NM_011332	ENSMUSG00000031780	Ccl17	Abcd-2|Scya17|Scya17l|Tarc	chemokine (C-C motif) ligand 17	protein-coding	6.0	12.0	9.0	152.5	32.0	8.0	20.0	15.5
Merged-chr4-33148019-3	chr4	33147956	33148156	+	864.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008075, intron 2 of 9)	B3|SINE|B2	15500.0	NM_008075	14408.0	Mm.14116	NM_008075	ENSMUSG00000028280	Gabrr1	GABA-C	gamma-aminobutyric acid (GABA) C receptor, subunit rho 1	protein-coding	8.0	11.0	4.5	102.0	23.5	11.5	7.0	6.0
Merged-chr1-36508414-4	chr1	36508325	36508525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_033570, exon 7 of 7)	3' UTR (NM_033570, exon 7 of 7)	-3442.0	NM_001331209	94218.0	Mm.256323	NM_053186	ENSMUSG00000001138	Cnnm3	Acdp3|Clp3|mACDP3	cyclin M3	protein-coding	60.0	71.0	63.5	900.5	88.5	19.5	54.5	46.0
Merged-chr12-41494872-3	chr12	41494777	41494977	+	930.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	-8820.0	NM_010733	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	10.0	13.0	17.5	312.5	10.5	1.0	3.5	14.5
Merged-chr18-11353259-3	chr18	11353142	11353342	+	874.622192	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-280034.0	NM_001252495	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	13.5	29.5	8.5	192.0	8.0	5.0	3.5	4.5
Merged-chr15-25284539-4	chr15	25284434	25284634	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129230.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	14.0	11.5	12.0	532.0	56.0	11.5	38.0	10.5
Merged-chr4-44911160-3	chr4	44911057	44911257	+	610.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138590, intron 6 of 8)	intron (NM_138590, intron 6 of 8)	-70237.0	NM_080289	76238.0	Mm.196574	NM_080289	ENSMUSG00000035637	Grhpr	1110059D05Rik|6430629L09Rik|Glxr	glyoxylate reductase/hydroxypyruvate reductase	protein-coding	6.0	6.5	10.5	77.0	24.0	3.5	5.5	0.5
Merged-chr10-111159959-4	chr10	111159868	111160068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1-int|LTR|ERVL-MaLR	-4834.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	57.5	110.0	62.5	1120.0	77.5	23.0	22.5	22.5
Merged-chr10-30723191-4	chr10	30723098	30723298	+	789.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	ID4|SINE|ID	-67331.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	14.5	8.0	5.5	142.0	17.5	9.0	15.0	14.5
Merged-chr11-24079696-2	chr11	24079596	24079796	+	668.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159290)	promoter-TSS (NM_001159290)	-999.0	NM_001159290	14025.0	Mm.53687	NM_016707	ENSMUSG00000000861	Bcl11a	2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809	B cell CLL/lymphoma 11A (zinc finger protein)	protein-coding	7.0	6.0	5.0	70.5	6.5	4.5	1.0	9.0
Merged-chr1-160251634-3	chr1	160251547	160251747	+	782.844421	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038621, intron 3 of 8)	intron (NM_001038621, intron 3 of 8)	-38755.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	17.0	8.0	16.0	329.0	5.0	2.0	1.0	6.5
Merged-chr4-75262544-1	chr4	75262444	75262644	+	673.0	f0_balb.idr	Intergenic	Intergenic	15748.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	6.0	12.0	11.5	77.5	8.0	3.5	1.0	8.0
Merged-chr5-72647775-4	chr5	72647688	72647888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081205)	promoter-TSS (NM_001081205)	-8.0	NM_001081205	70701.0	Mm.38884	NM_001081205	ENSMUSG00000067219	Nipal1	3830408G10Rik|Npal1	NIPA-like domain containing 1	protein-coding	49.5	48.5	55.0	914.5	77.5	24.0	53.0	46.0
Merged-chr6-82048150-3	chr6	82048051	82048251	+	919.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145570, intron 1 of 2)	intron (NM_145570, intron 1 of 2)	6523.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	23.5	17.0	47.5	571.0	0.5	1.5	1.0	0.0
Merged-chr11-85352736-4	chr11	85352648	85352848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166642)	promoter-TSS (NM_001166642)	-416.0	NM_001166642	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	49.0	93.0	38.0	494.0	149.5	43.5	45.0	59.0
Merged-chr14-40924512-3	chr14	40924436	40924636	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	MIR3|SINE|MIR	23673.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	15.0	20.5	18.5	422.5	17.0	3.5	8.0	8.5
Merged-chr8-77610769-4	chr8	77610665	77610865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145599)	promoter-TSS (NM_145599)	-112.0	NM_145599	234463.0	Mm.273578	NM_145599	ENSMUSG00000031617	Tmem184c	8430433H16Rik|AI645453|AL033298|BC004056|Tmem34	transmembrane protein 184C	protein-coding	154.0	253.0	161.0	3014.0	471.0	135.0	186.0	151.0
Merged-chr12-17693135-4	chr12	17693039	17693239	+	823.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	2330.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	8.0	12.5	2.5	232.0	28.5	7.0	12.5	10.5
Merged-chr15-103515241-4	chr15	103515148	103515348	+	967.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001285890, exon 1 of 15)	5' UTR (NM_001285890, exon 1 of 15)	271.0	NM_001285890	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	10.0	22.5	16.0	267.0	47.0	14.0	28.5	17.0
Merged-chr10-18887116-4	chr10	18887019	18887219	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42048.0	NM_022032	64058.0	Mm.28209	NM_022032	ENSMUSG00000019851	Perp	1110017A08Rik|KCP1|KRTCAP1|PIGPC1|THW	PERP, TP53 apoptosis effector	protein-coding	23.0	32.0	26.0	729.5	39.5	17.5	10.5	31.0
Merged-chr6-38533151-2	chr6	38533051	38533251	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1710.0	NM_025363	66117.0	Mm.158971	NM_025363	ENSMUSG00000019689	Fmc1	1110001J03Rik	formation of mitochondrial complex V assembly factor 1	protein-coding	7.5	16.5	7.5	151.5	20.5	13.0	17.5	23.0
Merged-chr17-34114996-2	chr17	34114896	34115096	+	889.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_037970, exon 7 of 13)	non-coding (NR_037970, exon 7 of 13)	4904.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	2.5	23.0	4.5	23.5	17.5	7.0	8.5	7.0
Merged-chr11-32286981-4	chr11	32286844	32287044	+	706.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033981)	promoter-TSS (NM_001033981)	-20.0	NM_001033981	544763.0	Mm.450958	NM_001033981	ENSMUSG00000073063	Hbq1b	F830116E18Rik|Hbqt1	hemoglobin, theta 1B	protein-coding	3.5	11.0	2.5	43.5	30.0	10.0	7.5	8.0
Merged-chr19-56774560-4	chr19	56774470	56774670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39113.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	142.5	124.0	190.0	2767.5	149.5	39.0	115.0	75.5
Merged-chr16-11070184-5	chr16	11070090	11070290	+	899.8350220000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009223, intron 1 of 1)	intron (NM_009223, intron 1 of 1)	3892.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	8.0	17.0	12.0	214.5	19.0	7.0	15.5	13.5
Merged-chr3-126621492-3	chr3	126621438	126621638	+	871.9166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	24587.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	4.0	3.0	5.5	38.0	35.0	12.0	20.5	17.5
Merged-chr2-59240802-3	chr2	59240712	59240912	+	946.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	intron (NM_175464, intron 2 of 20)	79962.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	4.0	7.0	13.5	119.0	16.5	6.5	19.0	10.0
Merged-chr13-94743673-4	chr13	94743556	94743756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-45287.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	60.0	70.5	41.5	942.5	107.0	31.0	81.5	56.5
Merged-chr17-6961766-4	chr17	6961660	6961860	+	893.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147155)	promoter-TSS (NM_147155)	-604.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	16.5	67.0	18.5	161.5	29.5	25.0	9.0	17.0
Merged-chr14-100286126-6	chr14	100286038	100286238	+	868.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136342.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	6.0	15.0	12.5	144.5	15.5	5.0	3.0	11.0
Merged-chr10-81015064-4	chr10	81014964	81015164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010319)	promoter-TSS (NM_010319)	-139.0	NM_010319	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	272.0	419.0	230.5	3068.0	564.5	212.5	239.5	180.0
Merged-chr2-180255865-4	chr2	180255757	180255957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-1522.0	NM_025587	66481.0	Mm.289669	NM_025587	ENSMUSG00000039001	Rps21	1810049N11Rik|2410030A14Rik	ribosomal protein S21	protein-coding	21.0	37.0	18.5	416.0	53.5	18.0	29.0	25.5
Merged-chr17-28810322-3	chr17	28810224	28810424	+	944.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081315, intron 2 of 12)	intron (NM_001081315, intron 2 of 12)	9198.0	NM_001081315	268936.0	Mm.291877	NM_199061	ENSMUSG00000063952	Brpf3	AI413466|AW493400|mKIAA1286	bromodomain and PHD finger containing, 3	protein-coding	5.5	17.0	17.5	167.0	14.5	5.0	1.5	8.0
Merged-chr2-127890782-4	chr2	127890690	127890890	+	842.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 8 of 17)	intron (NM_028765, intron 8 of 17)	36162.0	NM_028765	74121.0	Mm.244835	NM_028765	ENSMUSG00000027380	Acoxl	1200014P05Rik|AV025673	acyl-Coenzyme A oxidase-like	protein-coding	8.5	27.0	7.0	103.0	34.0	19.5	15.0	10.0
Merged-chr4-130914846-4	chr4	130914723	130914923	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	MIR3|SINE|MIR	1489.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	1.5	14.5	23.5	183.5	31.5	6.0	7.0	15.5
Merged-chr11-60707879-4	chr11	60707775	60707975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008502, intron 11 of 20)	intron (NM_008502, intron 11 of 20)	8185.0	NM_008502	16897.0	Mm.285453	NM_008502	ENSMUSG00000020536	Llgl1	AI325176|Lgl1|Llglh|Mgl1	LLGL1 scribble cell polarity complex component	protein-coding	43.5	60.0	35.5	625.0	74.0	26.5	39.5	30.0
Merged-chr2-167761823-4	chr2	167761728	167761928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie8|DNA|hAT-Charlie	70651.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	134.5	155.5	157.0	2155.0	368.0	116.5	143.0	118.5
Merged-chr15-5244793-1	chr15	5244693	5244893	+	573.0	f0_balb.idr	promoter-TSS (NM_008965)	promoter-TSS (NM_008965)	-606.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	7.5	4.5	7.0	98.0	16.5	5.5	4.0	18.0
Merged-chr17-80684069-3	chr17	80683974	80684174	+	840.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360278, intron 1 of 33)	intron (NM_001360278, intron 1 of 33)	43951.0	NM_001360278	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	4.0	10.5	10.0	93.5	22.0	7.0	6.0	9.0
Merged-chr12-24974987-4	chr12	24974892	24975092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081378)	promoter-TSS (NM_001081378)	60.0	NM_001081378	77480.0	Mm.250641	NM_001081378	ENSMUSG00000036333	Kidins220	3110039L19Rik|AI194387|AI316525|C330002I19Rik|mKIAA1250	kinase D-interacting substrate 220	protein-coding	46.0	86.0	69.0	803.0	134.5	51.5	56.0	55.0
Merged-chr13-34204489-4	chr13	34204377	34204577	+	840.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 4 of 10)	MIR|SINE|MIR	41513.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	10.5	14.0	9.5	180.5	26.0	4.5	16.5	11.0
Merged-chr9-79785181-4	chr9	79785085	79785285	+	778.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133718, intron 1 of 6)	L2|LINE|L2	8245.0	NM_133718	69981.0	Mm.486324	NM_133718	ENSMUSG00000032328	Tmem30a	2010200I23Rik|AW540225|Cdc50a|D9Wsu20e	transmembrane protein 30A	protein-coding	8.0	7.0	2.0	118.0	17.0	5.0	13.5	18.5
Merged-chr11-50931611-4	chr11	50931463	50931663	+	962.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013744)	promoter-TSS (NM_013744)	72.0	NM_013744	27274.0	Mm.74670	NM_013744	ENSMUSG00000020335	Zfp354b	Kid2|Tcf17l1|Znf354b	zinc finger protein 354B	protein-coding	26.0	30.5	26.0	313.0	25.0	18.5	14.5	14.0
Merged-chr1-85995039-3	chr1	85994925	85995125	+	736.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26917.0	NM_001122732	70060.0	Mm.196313	NM_027029	ENSMUSG00000026226	Spata3	1700011N12Rik|1700029H01Rik|4930424D10Rik|Mtsarg1|Tsarg1	spermatogenesis associated 3	protein-coding	7.0	7.5	4.0	72.5	27.5	9.0	14.0	16.0
Merged-chr8-79294965-4	chr8	79294842	79295042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133823)	promoter-TSS (NM_133823)	14.0	NM_133823	109136.0	Mm.26510	NM_133823	ENSMUSG00000037022	Mmaa	2810018E08Rik|AI840684	methylmalonic aciduria (cobalamin deficiency) type A	protein-coding	320.0	468.5	374.5	4178.5	678.5	274.5	339.0	268.5
Merged-chr19-5460636-4	chr19	5460521	5460721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253832)	promoter-TSS (NM_001253832)	14.0	NM_021438	58249.0	Mm.329656	NM_021438	ENSMUSG00000024911	Fibp	2010004G08Rik|2010005N21Rik|3010027N18Rik	fibroblast growth factor (acidic) intracellular binding protein	protein-coding	34.0	45.5	17.0	333.5	67.0	37.0	36.0	31.0
Merged-chr17-71133268-4	chr17	71133170	71133370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50262.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	36.0	35.0	31.0	696.5	84.5	23.0	37.5	28.0
Merged-chr2-49744442-4	chr2	49744395	49744595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 20 of 25)	intron (NM_008449, intron 20 of 25)	-43191.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	81.0	95.0	118.0	1838.5	289.0	94.0	142.5	125.0
Merged-chr19-32651244-4	chr19	32651131	32651331	+	960.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011864, intron 8 of 12)	intron (NM_011864, intron 8 of 12)	31226.0	NM_011864	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	12.5	13.0	25.5	355.0	41.0	6.0	23.0	20.0
Merged-chr7-30332104-4	chr7	30331969	30332169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9694.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	26.5	39.5	27.5	305.0	44.0	19.0	33.5	22.5
Merged-chr9-20696322-2	chr9	20696222	20696422	+	746.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357639, intron 1 of 5)	MIRb|SINE|MIR	30681.0	NM_001357635	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	1.0	3.5	5.0	50.5	16.0	6.0	7.0	10.5
Merged-chr6-54917771-4	chr6	54917679	54917879	+	900.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	53882.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	13.0	17.0	12.0	282.5	30.5	4.5	12.0	12.5
Merged-chr8-120678609-4	chr8	120678512	120678712	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10292.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	15.5	8.5	3.5	96.0	27.0	6.0	16.0	7.0
Merged-chr1-192536647-4	chr1	192536553	192536753	+	916.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 11 of 11)	intron (NM_144881, intron 11 of 11)	234566.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	5.0	22.5	12.0	336.5	38.5	5.5	17.5	17.5
Merged-chr4-71307662-4	chr4	71307560	71307760	+	735.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-772732.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	12.0	13.0	7.5	210.5	18.0	4.5	9.0	8.0
Merged-chr11-79076696-4	chr11	79076600	79076800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	-16864.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	37.5	73.5	22.5	524.5	76.5	21.5	26.0	32.0
Merged-chr2-144267851-4	chr2	144267744	144267944	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024225, intron 1 of 12)	intron (NM_024225, intron 1 of 12)	-1642.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	38.5	46.5	53.0	1156.5	83.5	15.5	41.0	83.5
Merged-chr1-55237153-4	chr1	55237070	55237270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175439)	promoter-TSS (NM_175439)	-7.0	NM_175439	212679.0	Mm.19223	NM_175439	ENSMUSG00000046994	Mars2	C730026E21Rik|MetRS	methionine-tRNA synthetase 2 (mitochondrial)	protein-coding	184.0	291.0	130.0	2998.5	503.5	156.5	259.5	169.0
Merged-chr16-33691509-4	chr16	33691403	33691603	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 1 of 14)	intron (NM_175256, intron 1 of 14)	7037.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	31.0	49.0	26.5	435.5	44.0	23.5	24.5	18.0
Merged-chr8-13841568-4	chr8	13841468	13841668	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3479.0	NM_153093	231201.0	Mm.423959	NM_153093	ENSMUSG00000057116	AF366264	Susp4	cDNA sequence AF366264	protein-coding	22.5	19.0	16.5	343.5	34.0	6.0	13.5	14.0
Merged-chr12-26439507-4	chr12	26439358	26439558	+	957.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16994.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	76.5	215.0	89.0	1180.0	50.0	17.5	16.5	13.5
Merged-chr6-112718199-4	chr6	112718087	112718287	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_080448, exon 22 of 22)	3' UTR (NM_080448, exon 22 of 22)	-21517.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	25.5	20.0	37.5	397.0	26.5	7.5	15.5	18.5
Merged-chr13-60691803-1	chr13	60691703	60691903	+	618.666687	f0_balb.idr	intron (NM_134062, intron 2 of 26)	ORR1D2|LTR|ERVL-MaLR	89592.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	11.5	9.0	8.0	81.0	14.5	0.0	4.0	1.5
Merged-chr17-80083429-4	chr17	80083335	80083535	+	936.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21167.0	NM_144802	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	30.5	19.0	13.0	330.5	63.0	10.0	17.5	21.0
Merged-chr6-124282907-1	chr6	124282807	124283007	+	708.0	f0_balb.idr	Intergenic	Intergenic	-21744.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	7.0	10.5	8.5	131.5	13.0	4.0	9.5	9.5
Merged-chr15-64023892-4	chr15	64023795	64023995	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	-25829.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	22.5	33.5	35.0	577.0	49.5	16.0	29.0	32.5
Merged-chr7-107707883-3	chr7	107707768	107707968	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357438, intron 3 of 20)	intron (NM_001357438, intron 3 of 20)	16025.0	NM_001357438	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	8.0	12.0	10.0	177.0	20.5	2.0	6.5	10.0
Merged-chr15-11716324-4	chr15	11716192	11716392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	189382.0	NM_008728	18162.0	Mm.25259	NM_008728	ENSMUSG00000022206	Npr3	ANP-C|ANPR-C|EF-2|NPR-C|lgj|stri	natriuretic peptide receptor 3	protein-coding	121.5	217.0	165.5	2752.0	350.0	104.0	155.0	134.0
Merged-chr5-108692497-4	chr5	108692413	108692613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1716.0	NM_001164259	116701.0	Mm.35691	NM_054071	ENSMUSG00000008090	Fgfrl1	FGFR5|FGFR5beta|FGFR5gamma	fibroblast growth factor receptor-like 1	protein-coding	26.5	23.5	14.0	200.5	60.0	25.5	25.0	31.0
Merged-chr11-3330695-4	chr11	3330608	3330808	+	906.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178149)	promoter-TSS (NM_178149)	-23.0	NM_178149	216505.0	Mm.390323	NM_178149	ENSMUSG00000034614	Pik3ip1	1500004A08Rik|5830455E04Rik|Crkd|Hgfl	phosphoinositide-3-kinase interacting protein 1	protein-coding	8.5	7.0	9.0	211.0	30.5	21.5	8.5	14.5
Merged-chr4-33265442-4	chr4	33265290	33265490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	-16603.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	38.5	35.5	40.0	729.0	104.0	24.5	39.5	49.5
Merged-chr10-40489249-3	chr10	40489138	40489338	+	865.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81124.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	5.5	2.0	5.0	79.5	18.5	10.5	4.5	13.0
Merged-chr14-103020978-3	chr14	103020884	103021084	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	intron (NR_045657, intron 2 of 2)	12819.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	6.0	8.0	17.5	205.0	32.0	7.5	31.5	7.5
Merged-chr10-127211153-2	chr10	127211053	127211253	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359280, intron 1 of 10)	intron (NM_001359280, intron 1 of 10)	469.0	NM_054097	117150.0	Mm.22682	NM_054097	ENSMUSG00000025417	Pip4k2c	Pip5k2c	phosphatidylinositol-5-phosphate 4-kinase, type II, gamma	protein-coding	9.5	7.5	10.0	73.0	17.5	4.5	3.5	14.0
Merged-chr15-84842674-4	chr15	84842572	84842772	+	715.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356573, intron 2 of 12)	intron (NM_001356573, intron 2 of 12)	12427.0	NM_001356573	271305.0	Mm.101022	NM_001081166	ENSMUSG00000016624	Phf21b	A730032D07Rik	PHD finger protein 21B	protein-coding	3.5	9.0	5.0	91.5	7.5	6.0	19.0	11.5
Merged-chr5-41449663-4	chr5	41449572	41449772	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	258019.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	5.0	9.5	15.0	425.0	115.5	46.5	80.5	71.5
Merged-chr9-77652064-2	chr9	77651964	77652164	+	664.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172925, intron 2 of 2)	L1MA5A|LINE|L1	15332.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	5.0	4.5	4.0	129.0	17.5	7.5	5.0	10.5
Merged-chr8-111743753-5	chr8	111743633	111743833	+	816.349976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009954, exon 1 of 7)	5' UTR (NM_009954, exon 1 of 7)	116.0	NM_009954	12927.0	Mm.3758	NM_009954	ENSMUSG00000031955	Bcar1	AI385681|Cas|Crkas	breast cancer anti-estrogen resistance 1	protein-coding	10.5	6.5	12.5	72.5	5.0	2.5	7.5	6.0
Merged-chr3-59264199-4	chr3	59264110	59264310	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 35 of 43)	intron (NM_177855, intron 35 of 43)	-1225.0	NM_001357010	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	31.5	31.5	7.5	262.5	75.5	31.0	34.5	26.5
Merged-chr11-100640219-4	chr11	100640126	100640326	+	616.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177790, intron 1 of 7)	CpG	10467.0	NM_177790	278304.0	Mm.274734	NM_177790	ENSMUSG00000014198	Zfp385c	A930006D11Rik|Znf385c	zinc finger protein 385C	protein-coding	10.0	8.5	4.5	98.5	25.0	3.5	9.5	11.0
Merged-chr10-81464509-3	chr10	81464394	81464594	+	953.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176954, intron 9 of 11)	CpG-1367	8637.0	NM_001311127	319586.0	Mm.152689	NM_176954	ENSMUSG00000034818	Celf5	4930565A21Rik|Brunol5	CUGBP, Elav-like family member 5	protein-coding	11.5	18.0	15.5	115.5	19.0	3.0	6.0	5.0
Merged-chr6-51606411-4	chr6	51606306	51606506	+	930.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61113.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	31.5	30.0	35.5	793.0	27.5	10.5	16.5	16.0
Merged-chr16-31209980-4	chr16	31209831	31210031	+	886.622192	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8693.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	12.0	14.5	16.0	153.0	35.5	10.0	9.0	9.0
Merged-chr5-113220889-3	chr5	113220749	113220949	+	636.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6060.0	NM_001033428	333048.0	Mm.332586	NM_001033428	ENSMUSG00000066964	Tmem211	Gm854	transmembrane protein 211	protein-coding	5.0	5.0	11.5	35.0	1.0	2.0	0.0	7.5
Merged-chr14-93654007-3	chr14	93653954	93654154	+	927.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081377, intron 2 of 4)	LTR50|LTR|ERVL	236615.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	13.5	10.5	19.0	214.0	10.0	2.5	3.5	5.0
Merged-chr1-127009901-2	chr1	127009801	127010001	+	776.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179269.0	NM_001081756	210356.0	Mm.377234	NM_172484	ENSMUSG00000049690	Nckap5	8430408F21|D130011D22Rik|E030049G20Rik|Erih1|Erih2|Gm1548|Nap5	NCK-associated protein 5	protein-coding	3.0	2.5	3.5	94.0	16.5	7.5	4.5	8.5
Merged-chr8-119347669-3	chr8	119347575	119347775	+	870.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024219, intron 3 of 3)	intron (NM_024219, intron 3 of 3)	3137.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	18.0	16.0	3.5	191.5	15.0	4.5	11.0	9.5
Merged-chr4-129701674-4	chr4	129701573	129701773	+	981.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4828.0	NM_001356378	230770.0	Mm.257157	NM_199305	ENSMUSG00000053730	Tmem39b	6330509E05Rik|BC037095	transmembrane protein 39b	protein-coding	14.5	24.5	7.0	227.0	71.5	27.0	29.0	37.5
Merged-chr10-10411231-4	chr10	10411105	10411305	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 12 of 36)	intron (NM_001127353, intron 12 of 36)	61109.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	8.0	5.0	15.0	94.5	66.5	20.5	18.5	16.5
Merged-chr8-70720835-4	chr8	70720683	70720883	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195253, intron 2 of 3)	RLTR25B|LTR|ERVK	2240.0	NM_001195253	100502950.0	Mm.52981	NM_001195253	ENSMUSG00000095026	Gm3336	100041434|2410018E23Rik	predicted gene 3336	protein-coding	15.0	39.5	20.5	45.5	25.0	6.5	13.0	14.5
Merged-chr9-119403135-3	chr9	119403024	119403224	+	818.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007397, intron 1 of 9)	CpG	946.0	NM_001313757	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	12.0	6.0	14.0	116.0	13.5	8.5	7.0	4.5
Merged-chr4-122853278-4	chr4	122853193	122853393	+	872.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 5 of 8)	intron (NM_008917, intron 5 of 8)	17066.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	15.5	9.0	5.0	240.0	27.0	14.0	13.5	12.0
Merged-chr12-117481186-4	chr12	117481086	117481286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35293.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	304.5	508.0	272.5	3612.0	803.5	314.0	359.0	293.5
Merged-chr10-58393232-4	chr10	58393136	58393336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201242, intron 1 of 9)	intron (NM_201242, intron 1 of 9)	-1137.0	NM_001193303	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	85.5	131.0	115.5	1693.0	295.5	110.5	102.0	106.0
Merged-chr12-91585457-4	chr12	91585354	91585554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175335, intron 2 of 8)	intron (NM_175335, intron 2 of 8)	4195.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	22.5	42.5	31.5	383.0	67.0	28.5	22.0	20.0
Merged-chr6-122990089-4	chr6	122989970	122990170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005860)	promoter-TSS (NM_001005860)	-297.0	NM_001005860	474145.0	Mm.263483	NM_001005860	ENSMUSG00000059639	Clec4a4	Dcir2	C-type lectin domain family 4, member a4	protein-coding	41.0	39.5	27.0	659.5	59.5	24.5	31.0	24.5
Merged-chr13-97295528-4	chr13	97295402	97295602	+	952.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54397.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	37.0	56.5	24.0	228.5	77.5	24.0	13.5	20.5
Merged-chr12-83929370-4	chr12	83929266	83929466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7432.0	NR_073564	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	53.0	91.0	27.5	839.5	97.5	31.5	21.5	33.0
Merged-chr1-36068784-2	chr1	36068684	36068884	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_015818, exon 1 of 2)	exon (NM_015818, exon 1 of 2)	384.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	10.0	11.5	14.0	116.0	30.0	9.0	6.0	7.0
Merged-chr15-93953744-4	chr15	93953644	93953844	+	916.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26633.0	NR_045737	77248.0	Mm.410768	NR_045737	ENSMUSG00000116360	9430014N10Rik	-	RIKEN cDNA 9430014N10 gene	ncRNA	8.5	14.0	8.5	356.0	50.5	4.5	18.0	22.0
Merged-chr2-80579540-4	chr2	80579480	80579680	+	872.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290745, intron 1 of 31)	intron (NM_001290745, intron 1 of 31)	1602.0	NM_001290745	50884.0	Mm.25203	NM_016965	ENSMUSG00000027002	Nckap1	C79304|H19|Hem-2|Hem2|Nap1|mKIAA0587|mh19|p125Nap1	NCK-associated protein 1	protein-coding	6.5	13.0	10.5	109.5	16.0	6.5	8.5	7.0
Merged-chr7-97579713-4	chr7	97579593	97579793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177947)	promoter-TSS (NM_001177947)	-196.0	NM_001177947	66273.0	Mm.41583	NM_183251	ENSMUSG00000035642	Aamdc	1810020D17Rik|1810037D19Rik|LI2	adipogenesis associated Mth938 domain containing	protein-coding	119.5	209.0	136.0	2107.0	362.0	144.5	167.0	151.5
Merged-chr14-120478266-4	chr14	120478169	120478369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029519)	promoter-TSS (NM_029519)	-192.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	268.0	369.0	268.0	3506.5	743.0	248.0	347.5	259.0
Merged-chr19-40641049-4	chr19	40640967	40641167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-18703.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	101.0	120.5	114.0	1493.0	171.0	80.0	66.5	66.5
Merged-chr7-19235229-4	chr7	19235117	19235317	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207525, intron 1 of 1)	ID_B1|SINE|B4	6828.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	16.0	11.0	23.5	144.5	28.5	17.5	22.5	12.0
Merged-chr8-25448132-4	chr8	25448022	25448222	+	949.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-70637.0	NM_001079909	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	21.5	28.5	17.0	348.0	39.5	9.5	20.5	14.0
Merged-chr2-45216713-3	chr2	45216599	45216799	+	825.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99257.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	4.5	4.5	5.5	10.5	0.5	2.5	2.0	0.0
Merged-chr8-39639160-3	chr8	39639033	39639233	+	794.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 1 of 9)	intron (NM_001113326, intron 1 of 9)	3545.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	13.0	10.0	10.5	65.5	18.0	3.5	6.0	3.5
Merged-chr2-91196918-4	chr2	91196807	91197007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1791.0	NM_001177730	22259.0	Mm.22690	NM_013839	ENSMUSG00000002108	Nr1h3	AU018371|LXR|RLD1|Unr1	nuclear receptor subfamily 1, group H, member 3	protein-coding	197.0	388.0	238.5	2569.0	487.0	182.5	208.5	192.5
Merged-chr10-117865877-3	chr10	117865767	117865967	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-19893.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	8.0	6.5	2.0	74.0	43.5	14.0	6.5	22.0
Merged-chr1-180199687-3	chr1	180199580	180199780	+	899.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-3660.0	NM_001359268	67426.0	Mm.38330	NM_023341	ENSMUSG00000026489	Coq8a	4632432J16Rik|AI462003|Adck3|Cabc1|mKIAA0451	coenzyme Q8A	protein-coding	7.5	11.5	3.0	32.5	63.5	15.0	15.0	5.5
Merged-chr12-111071942-4	chr12	111071812	111072012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198023, intron 2 of 11)	intron (NM_198023, intron 2 of 11)	32114.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	65.0	110.0	48.5	883.5	176.0	47.0	64.0	59.5
Merged-chr16-94632110-4	chr16	94632009	94632209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 2 of 11)	intron (NM_001113389, intron 2 of 11)	20690.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	37.0	52.5	40.5	746.0	123.0	32.0	58.5	53.0
Merged-chr3-88649523-4	chr3	88649395	88649595	+	939.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3647.0	NM_181817	242093.0	Mm.269130	NM_181817	ENSMUSG00000049741	Rxfp4	GPCR142|Gpr100|Rln3r2|SALPR	relaxin family peptide receptor 4	protein-coding	16.0	27.0	27.5	266.0	41.0	7.0	10.0	22.0
Merged-chr6-92269214-4	chr6	92269119	92269319	+	814.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24569.0	NM_009426	22044.0	Mm.1363	NM_009426	ENSMUSG00000005892	Trh	Pro-TRH|Trf	thyrotropin releasing hormone	protein-coding	10.0	5.5	2.0	103.0	37.5	7.5	16.0	10.5
Merged-chr7-19345284-6	chr7	19345132	19345332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127324, intron 1 of 6)	CpG	161.0	NM_007948	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	32.5	27.0	24.5	256.5	34.5	25.5	23.5	36.5
Merged-chr10-34198280-4	chr10	34198170	34198370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	9281.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	70.5	101.0	59.5	1662.0	185.5	56.0	85.5	77.5
Merged-chr8-72350226-4	chr8	72350127	72350327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007944, intron 22 of 23)	intron (NM_007944, intron 22 of 23)	31165.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	42.5	44.0	44.0	839.5	75.0	26.0	44.5	37.5
Merged-chr6-66929831-4	chr6	66929736	66929936	+	945.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177556, intron 2 of 3)	Lx8|LINE|L1	32945.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	11.0	17.0	24.0	318.0	38.0	8.5	23.0	24.0
Merged-chr12-105684104-4	chr12	105684011	105684211	+	942.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029654, intron 1 of 41)	intron (NM_029654, intron 1 of 41)	1130.0	NM_029654	76559.0	Mm.114362	NM_029654	ENSMUSG00000041341	Atg2b	2410024A21Rik|AI047755|AI503411|AW558123|C030004M05Rik|C630028L02Rik|mKIAA4067	autophagy related 2B	protein-coding	18.0	31.5	6.5	183.5	35.5	10.5	12.5	9.0
Merged-chr6-108721816-3	chr6	108721719	108721919	+	778.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60885.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	10.0	10.0	12.0	414.0	4.0	3.0	3.0	5.5
Merged-chr12-3873719-6	chr12	3873601	3873801	+	900.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 6 of 22)	intron (NM_007872, intron 6 of 22)	-11457.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	8.5	10.0	6.5	93.5	27.5	7.0	6.5	6.5
Merged-chr4-130896583-4	chr4	130896503	130896703	+	831.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16731.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	9.5	4.0	7.0	77.5	36.5	13.5	15.0	12.5
Merged-chr8-84665062-4	chr8	84664986	84665186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2234.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	28.5	21.0	38.0	293.0	109.0	35.5	48.5	46.5
Merged-chr19-12445197-4	chr19	12445090	12445290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-15589.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	68.5	122.5	57.0	935.0	170.5	49.5	54.0	56.0
Merged-chr8-92849866-4	chr8	92849769	92849969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008610, intron 11 of 12)	intron (NM_008610, intron 11 of 12)	-5464.0	NM_173014	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	37.5	21.5	23.0	405.5	154.0	61.5	40.0	50.5
Merged-chr2-32509467-4	chr2	32509375	32509575	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25884.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	21.0	25.5	28.5	323.5	44.0	17.0	19.0	34.0
Merged-chr3-87357855-4	chr3	87357753	87357953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009690)	promoter-TSS (NM_009690)	-28.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	55.0	130.5	92.0	1566.0	172.0	63.0	95.0	96.0
Merged-chr4-24597141-4	chr4	24596997	24597197	+	954.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149739, intron 22 of 24)	intron (NR_149739, intron 22 of 24)	100646.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	13.0	22.0	24.0	270.5	23.0	14.0	18.5	15.0
Merged-chr3-146331120-4	chr3	146331006	146331206	+	931.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47838.0	NR_033542	100038607.0	Mm.365888	NR_033542	ENSMUSG00000105602	Gm10636	-	predicted gene 10636	ncRNA	23.0	36.5	14.0	113.0	52.0	17.5	10.5	9.0
Merged-chr13-46905210-4	chr13	46905142	46905342	+	954.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 2 of 37)	intron (NM_010617, intron 2 of 37)	24476.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	22.5	11.5	23.0	278.5	72.5	34.0	21.5	33.5
Merged-chr2-26380540-4	chr2	26380335	26380535	+	942.488098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290419, intron 1 of 23)	CpG	218.0	NM_172339	227644.0	Mm.207460	NM_172339	ENSMUSG00000036281	Snapc4	5730436L13Rik	small nuclear RNA activating complex, polypeptide 4	protein-coding	4.5	12.0	10.5	52.0	18.0	4.5	7.5	14.0
Merged-chr2-122150673-7	chr2	122150593	122150793	+	826.68573	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009735, intron 1 of 3)	intron (NM_009735, intron 1 of 3)	3006.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	7.0	15.5	8.5	86.5	25.0	10.0	8.5	7.5
Merged-chr13-36529055-3	chr13	36528955	36529155	+	772.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 5 of 5)	ORR1F|LTR|ERVL-MaLR	205422.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	4.0	11.5	0.0	125.0	15.5	6.5	4.5	7.5
Merged-chr1-159232979-4	chr1	159232914	159233114	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011931, intron 1 of 19)	intron (NM_011931, intron 1 of 19)	814.0	NM_011931	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	10.0	14.5	16.0	191.0	48.5	13.0	13.5	16.5
Merged-chr1-24550705-3	chr1	24550605	24550805	+	906.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 4 of 50)	intron (NM_007733, intron 4 of 50)	36732.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	19.0	9.0	20.0	159.0	15.0	10.5	17.5	7.0
Merged-chr19-3847633-4	chr19	3847538	3847738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4135.0	NM_001271496	12660.0	Mm.225505	NM_013490	ENSMUSG00000024843	Chka	CK|CK/EK-alpha|Chetk-alpha|Chk|ChoK|EK|EtnK-alpha	choline kinase alpha	protein-coding	26.0	89.5	23.0	178.0	100.5	44.0	39.5	40.0
Merged-chr2-25706726-2	chr2	25706626	25706826	+	745.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023326)	promoter-TSS (NM_023326)	-153.0	NM_023326	107771.0	Mm.330057	NM_023326	ENSMUSG00000049086	Bmyc	2900002K07Rik|AW060705|Mycb	brain expressed myelocytomatosis oncogene	protein-coding	5.5	7.0	9.0	47.5	8.0	5.5	0.0	8.5
Merged-chr2-27540298-4	chr2	27540191	27540391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	25144.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	202.5	364.0	184.5	2445.5	543.0	207.5	199.5	154.5
Merged-chr6-42396254-4	chr6	42396184	42396384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-3954.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	60.5	77.0	53.5	1028.0	165.0	52.0	78.5	71.0
Merged-chr2-180115876-4	chr2	180115773	180115973	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3493.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	28.0	41.5	36.0	683.0	44.5	15.5	27.5	29.5
Merged-chr7-135914438-4	chr7	135914343	135914543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198064.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	53.0	50.0	58.0	897.5	90.5	28.0	36.5	45.5
Merged-chr10-70251396-4	chr10	70251323	70251523	+	908.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025807, intron 1 of 5)	intron (NM_025807, intron 1 of 5)	6147.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	10.5	9.5	8.0	200.5	30.0	13.5	15.5	13.5
Merged-chr11-21453895-4	chr11	21453797	21453997	+	970.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57283.0	NR_028259	237694.0	Mm.72926	NM_172792	ENSMUSG00000078962	4932414J04Rik	-	RIKEN cDNA 4932414J04 gene	ncRNA	20.0	24.0	8.5	171.0	42.5	16.5	9.0	8.0
Merged-chr7-24112601-1	chr7	24112501	24112701	+	760.0	f0_balb.idr	intron (NM_021307, intron 1 of 4)	intron (NM_021307, intron 1 of 4)	281.0	NM_021307	57745.0	Mm.82678	NM_021307	ENSMUSG00000052675	Zfp112	Znf112|Znf228	zinc finger protein 112	protein-coding	8.0	4.5	5.0	141.5	12.0	5.0	2.0	7.5
Merged-chr8-20557767-3	chr8	20557707	20557907	+	984.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-57120.0	NM_001270553	100861668.0	Mm.491087	NM_001270553	ENSMUSG00000095294	Gm21119	-	predicted gene, 21119	protein-coding	1.5	1.0	1.5	32.5	54.5	15.5	20.5	25.5
Merged-chr10-41530158-4	chr10	41530071	41530271	+	971.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016898, exon 6 of 6)	3' UTR (NM_016898, exon 6 of 6)	10671.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	30.0	19.0	38.0	761.0	66.0	23.0	48.5	24.5
Merged-chr12-51678525-4	chr12	51678396	51678596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172098, intron 1 of 15)	MTD|LTR|ERVL-MaLR	-12470.0	NM_001329699	11782.0	Mm.386749	NM_021710	ENSMUSG00000020955	Ap4s1	AI314282	adaptor-related protein complex AP-4, sigma 1	protein-coding	22.0	26.5	18.0	430.5	55.0	16.5	24.0	33.0
Merged-chr1-131116104-4	chr1	131116021	131116221	+	879.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18278.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	11.5	15.0	12.5	58.5	59.0	14.0	19.0	12.0
Merged-chr11-20248498-4	chr11	20248428	20248628	+	816.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172260, intron 1 of 6)	intron (NM_172260, intron 1 of 6)	896.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	8.0	12.5	20.0	114.5	21.0	7.5	8.0	10.0
Merged-chr11-110473624-4	chr11	110473510	110473710	+	854.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	-4905.0	NM_001356347	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	7.0	25.0	2.0	57.5	54.5	14.5	12.5	18.0
Merged-chr7-16309471-4	chr7	16309341	16309541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133234)	promoter-TSS (NM_133234)	-142.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	128.5	300.5	85.0	1336.0	376.5	169.0	140.5	105.5
Merged-chr12-31059693-3	chr12	31059597	31059797	+	847.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14271.0	NM_027828	104943.0	Mm.248938	NM_027828	ENSMUSG00000036136	Fam110c	9030611O19Rik|AU019489	family with sequence similarity 110, member C	protein-coding	0.5	1.0	0.5	17.5	53.0	10.0	13.5	17.0
Merged-chr11-29693819-4	chr11	29693715	29693915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194051)	promoter-TSS (NM_194051)	41.0	NM_194051	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	61.5	87.5	81.5	777.5	151.0	62.5	86.5	66.0
Merged-chr14-50060725-3	chr14	50060616	50060816	+	744.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	23963.0	NM_146316	258313.0	Mm.463727	NM_146316	ENSMUSG00000060523	Olfr726	MOR246-4	olfactory receptor 726	protein-coding	0.0	0.0	0.0	0.0	21.5	10.0	13.0	10.0
Merged-chr6-106769110-4	chr6	106769023	106769223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027296)	promoter-TSS (NM_027296)	-15.0	NM_001242358	70047.0	Mm.196332	NM_027296	ENSMUSG00000013736	Trnt1	2410043H24Rik|2610044E04Rik|9830143O18Rik|AA408384|C76540|CGI-47|mt-Trat	tRNA nucleotidyl transferase, CCA-adding, 1	protein-coding	99.5	177.5	95.5	1358.5	384.0	163.0	139.5	121.0
Merged-chr11-35308668-4	chr11	35308575	35308775	+	944.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011412, intron 4 of 35)	intron (NM_011412, intron 4 of 35)	187219.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	10.5	8.0	16.5	200.5	92.5	31.0	28.0	15.0
Merged-chr5-117181819-4	chr5	117181757	117181957	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	48269.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	20.0	22.0	28.0	403.0	27.5	10.0	23.0	20.0
Merged-chr19-36928555-2	chr19	36928455	36928655	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001080706, intron 1 of 37)	intron (NM_001080706, intron 1 of 37)	2476.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	7.0	9.0	6.0	31.0	16.5	7.0	6.0	6.0
Merged-chr3-98069486-4	chr3	98069369	98069569	+	903.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	55931.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	18.5	20.0	22.0	305.0	14.0	7.0	11.0	16.0
Merged-chr2-92609152-2	chr2	92609052	92609252	+	677.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356552, intron 2 of 3)	intron (NM_001356552, intron 2 of 3)	8035.0	NM_001356553	76969.0	Mm.38021	NM_023850	ENSMUSG00000027221	Chst1	2610008E20Rik|AW125896|C6ST|GST-1|Gst1|KS6ST|KSGAL6ST|KSST	carbohydrate (keratan sulfate Gal-6) sulfotransferase 1	protein-coding	2.0	1.0	5.0	45.0	10.0	4.5	4.5	5.5
Merged-chr1-155122063-2	chr1	155121963	155122163	+	979.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22427.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	9.0	25.5	3.0	41.0	30.0	7.5	6.0	9.5
Merged-chr8-105827341-4	chr8	105827273	105827473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024445)	promoter-TSS (NM_024445)	-23.0	NM_145824	74334.0	Mm.4206	NM_145824	ENSMUSG00000037415	Ranbp10	4432417N03Rik	RAN binding protein 10	protein-coding	192.5	374.0	212.0	3017.0	565.0	242.0	234.0	219.0
Merged-chr2-168250453-3	chr2	168250356	168250556	+	849.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18875.0	NM_001081134	241794.0	Mm.425102	NM_001081134	ENSMUSG00000074575	Kcng1	AW536275	potassium voltage-gated channel, subfamily G, member 1	protein-coding	6.5	2.5	3.0	98.0	12.5	6.5	13.0	10.0
Merged-chr15-9070453-4	chr15	9070391	9070591	+	936.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286255)	promoter-TSS (NM_001286255)	-769.0	NM_001286255	68646.0	Mm.244226	NM_001040395	ENSMUSG00000022253	Nadk2	MNADK|Nadkd1	NAD kinase 2, mitochondrial	protein-coding	12.5	20.5	14.5	172.0	56.5	8.0	11.0	13.5
Merged-chr6-67037450-4	chr6	67037352	67037552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007836)	promoter-TSS (NM_007836)	-45.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	231.5	326.0	253.5	4406.5	533.0	192.5	311.5	192.5
Merged-chr7-127478434-3	chr7	127478323	127478523	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6798.0	NM_010183	14123.0	Mm.323505	NM_010183	ENSMUSG00000042423	Fbrs	Fbs|Fbs1	fibrosin	protein-coding	75.0	160.5	38.0	826.5	187.0	99.0	83.5	84.5
Merged-chr7-31158755-4	chr7	31158668	31158868	+	962.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-3590.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	41.5	94.0	54.0	379.0	64.5	27.5	18.5	16.5
Merged-chr1-167517894-4	chr1	167517868	167518068	+	928.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51188.0	NM_001013382	240899.0	Mm.159799	NM_001013382	ENSMUSG00000040485	Lrrc52	4930413P14Rik	leucine rich repeat containing 52	protein-coding	37.5	51.5	57.5	585.5	24.0	7.0	15.0	18.0
Merged-chr11-29495901-4	chr11	29495797	29495997	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176841, intron 25 of 31)	intron (NM_176841, intron 25 of 31)	19136.0	NM_026465	67939.0	Mm.251087	NM_026465	ENSMUSG00000032673	Prorsd1	2010316F05Rik|Ncrna00117|Prdxdd1	prolyl-tRNA synthetase domain containing 1	protein-coding	59.0	58.0	41.5	758.0	76.5	18.5	17.0	38.5
Merged-chr7-105811138-4	chr7	105811040	105811240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025301)	promoter-TSS (NM_025301)	-53.0	NM_025301	27397.0	Mm.44225	NM_025301	ENSMUSG00000030879	Mrpl17	MRP-L26|Rpml26	mitochondrial ribosomal protein L17	protein-coding	378.0	574.0	425.5	5220.0	889.0	361.0	411.0	368.0
Merged-chr5-148595534-4	chr5	148595451	148595651	+	951.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42763.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	9.5	6.5	5.0	191.5	54.5	14.0	15.5	23.5
Merged-chr4-132261051-4	chr4	132260941	132261141	+	895.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122992, intron 1 of 10)	CpG	508.0	NM_020273	56809.0	Mm.103489	NM_020273	ENSMUSG00000028901	Gmeb1	1110050A04Rik|AI256615|AI481278	glucocorticoid modulatory element binding protein 1	protein-coding	9.0	14.0	16.5	114.5	29.0	7.0	19.0	11.0
Merged-chr5-98329377-4	chr5	98329245	98329445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024614)	promoter-TSS (NM_001024614)	41.0	NM_001024614	75784.0	Mm.443240	NM_001024614	ENSMUSG00000057816	1700007G11Rik	4930428O21Rik	RIKEN cDNA 1700007G11 gene	protein-coding	59.0	61.0	86.5	882.0	56.5	23.5	27.5	40.5
Merged-chr5-118478377-4	chr5	118478287	118478487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82332.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	78.5	115.5	70.5	775.0	127.0	42.5	56.0	59.0
Merged-chr11-68852643-1	chr11	68852543	68852743	+	1000.0	f0_balb.idr	intron (NM_023668, intron 1 of 8)	CpG	488.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	22.5	35.5	18.5	239.5	91.0	27.0	38.5	34.5
Merged-chr2-90579258-4	chr2	90579174	90579374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	1373.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	65.0	136.5	68.5	786.0	180.0	99.5	108.5	62.5
Merged-chr14-25459217-4	chr14	25459123	25459323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310666)	promoter-TSS (NM_001310666)	38.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	57.5	76.5	38.0	757.5	74.0	34.0	30.0	42.0
Merged-chr3-36496966-4	chr3	36496871	36497071	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9838.0	NR_040590	329623.0	Mm.490730	NR_040590	ENSMUSG00000085320	Gm11548	E330009D11	predicted gene 11548	ncRNA	13.5	25.0	16.0	229.5	48.0	19.5	21.0	18.0
Merged-chr5-146810817-4	chr5	146810730	146810930	+	792.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15874.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	8.5	5.5	7.5	103.5	25.5	10.5	9.0	11.5
Merged-chr1-156624410-4	chr1	156624308	156624508	+	848.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 3 of 12)	intron (NM_001136104, intron 3 of 12)	49931.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	23.0	16.5	3.5	145.0	44.0	20.5	10.5	16.0
Merged-chr5-92441661-4	chr5	92441569	92441769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007644, exon 12 of 12)	3' UTR (NM_007644, exon 12 of 12)	-6470.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	174.5	220.0	142.5	2381.0	375.0	151.0	206.5	157.5
Merged-chr10-68725199-4	chr10	68725083	68725283	+	966.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	1437.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	3.5	12.0	9.5	224.0	33.5	13.0	11.5	24.5
Merged-chr3-129671951-2	chr3	129671851	129672051	+	568.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	53135.0	NM_001310737	13645.0	Mm.252481	NM_010113	ENSMUSG00000028017	Egf	AI790464	epidermal growth factor	protein-coding	0.0	4.0	8.0	31.5	10.0	8.0	15.0	6.0
Merged-chr5-123391552-4	chr5	123391447	123391647	+	949.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	-3251.0	NM_133917	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	25.5	40.0	15.5	227.0	62.0	36.5	19.0	16.0
Merged-chr1-165762094-4	chr1	165762002	165762202	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11B|LTR|ERVK	-1656.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	24.0	17.5	23.0	225.5	65.0	18.5	19.5	13.0
Merged-chr14-57387165-4	chr14	57387058	57387258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 1 of 7)	intron (NM_030004, intron 1 of 7)	11325.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	43.0	48.0	38.0	681.5	111.5	40.0	24.0	30.5
Merged-chr4-141643724-4	chr4	141643609	141643809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	-19875.0	NM_001013780	384071.0	Mm.295682	NM_001013780	ENSMUSG00000040740	Slc25a34	Gm1369	solute carrier family 25, member 34	protein-coding	29.5	49.0	37.5	507.5	121.5	28.0	35.0	68.0
Merged-chr14-98817205-3	chr14	98817101	98817301	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	228935.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	35.0	71.0	32.5	867.5	11.5	8.5	15.0	8.0
Merged-chr4-43249374-4	chr4	43249279	43249479	+	961.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 24 of 39)	intron (NM_001081413, intron 24 of 39)	-17780.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	60.0	87.5	62.5	872.5	48.5	12.5	19.5	19.5
Merged-chr11-120932851-4	chr11	120932756	120932956	+	944.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027745)	promoter-TSS (NM_027745)	16.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	13.0	39.0	8.0	132.5	66.0	20.5	15.0	28.5
Merged-chr3-81036257-4	chr3	81036206	81036406	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019971)	promoter-TSS (NM_019971)	-110.0	NM_019971	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	34.5	24.5	35.5	295.0	50.5	15.5	17.0	18.0
Merged-chr4-138973555-4	chr4	138973473	138973673	+	993.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029857, intron 1 of 16)	intron (NM_029857, intron 1 of 16)	668.0	NM_029857	77056.0	Mm.122336	NM_029857	ENSMUSG00000041143	Tmco4	4632413C14Rik|AI430825	transmembrane and coiled-coil domains 4	protein-coding	15.5	52.5	20.5	164.5	63.5	15.5	18.5	17.0
Merged-chr4-103122805-3	chr4	103122707	103122907	+	836.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039081, intron 1 of 12)	intron (NM_001039081, intron 1 of 12)	3417.0	NM_001039081	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	5.0	6.5	6.0	89.5	19.5	8.0	4.0	9.0
Merged-chr8-24938812-3	chr8	24938716	24938916	+	964.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153397, intron 1 of 21)	MTD|LTR|ERVL-MaLR	9988.0	NM_001293693	353188.0	Mm.269223	NM_153397	ENSMUSG00000037437	Adam32	-	a disintegrin and metallopeptidase domain 32	protein-coding	9.5	20.0	25.5	355.5	20.0	2.0	18.5	5.0
Merged-chr5-107986372-4	chr5	107986257	107986457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	MamSINE1|SINE|tRNA	720.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	34.0	29.0	22.5	376.0	45.5	15.0	27.5	28.5
Merged-chr16-76977164-4	chr16	76977032	76977232	+	889.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33749.0	NR_040573	76601.0	Mm.396217	NR_040573	ENSMUSG00000100857	1700041M19Rik	-	RIKEN cDNA 1700041M19 gene	ncRNA	4.0	10.0	21.5	235.0	22.0	13.0	7.5	10.5
Merged-chr9-123925453-4	chr9	123925323	123925523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	43269.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	44.5	65.0	41.0	259.5	103.0	56.5	32.0	53.5
Merged-chr1-171578010-1	chr1	171577910	171578110	+	542.0	f1_c57bl6.idr	intron (NM_018729, intron 5 of 8)	intron (NM_018729, intron 5 of 8)	18817.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	6.0	5.0	6.0	45.5	17.5	1.5	3.0	6.0
Merged-chr11-51816024-4	chr11	51815909	51816109	+	809.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_199299, exon 12 of 12)	3' UTR (NM_199299, exon 12 of 12)	41472.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	11.5	7.0	8.0	82.0	25.5	10.0	11.0	5.5
Merged-chr12-17762315-3	chr12	17762184	17762384	+	733.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	71475.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	15.5	5.0	6.0	160.5	14.0	12.0	1.0	3.0
Merged-chr13-21940455-4	chr13	21940353	21940553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4641.0	NM_183014	193452.0	Mm.187446	NM_183014	ENSMUSG00000006720	Zfp184	4930500C15Rik	zinc finger protein 184 (Kruppel-like)	protein-coding	80.5	117.0	66.5	1033.0	125.0	65.0	53.5	39.5
Merged-chr8-22963267-4	chr8	22963168	22963368	+	852.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11568.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	8.0	24.5	13.0	149.0	24.5	11.0	25.5	7.5
Merged-chr13-44420027-4	chr13	44419941	44420141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19686.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	20.5	53.0	26.0	455.5	72.5	36.5	32.5	38.5
Merged-chr4-133672591-4	chr4	133672499	133672699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145956)	promoter-TSS (NM_001145956)	48.0	NM_001145955	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	70.0	122.5	67.5	709.5	102.0	76.0	56.5	58.5
Merged-chr2-33427224-4	chr2	33427134	33427334	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276332, intron 1 of 1)	MIRb|SINE|MIR	4090.0	NM_001085507	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	29.0	28.5	15.0	287.0	35.0	9.5	15.0	20.5
Merged-chr10-117731410-4	chr10	117731348	117731548	+	970.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	14910.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	16.0	31.5	12.0	192.5	40.0	19.5	21.5	16.0
Merged-chr11-83705436-4	chr11	83705337	83705537	+	956.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081957, intron 2 of 2)	intron (NM_001081957, intron 2 of 2)	1381.0	NM_001081957	100034251.0	Mm.24097	NM_001081957	ENSMUSG00000069792	Wfdc17	Amwap|Gm11428	WAP four-disulfide core domain 17	protein-coding	43.0	40.0	7.5	108.5	62.5	36.0	12.5	5.0
Merged-chr3-144692228-4	chr3	144692104	144692304	+	946.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 9 of 10)	intron (NM_001282037, intron 9 of 10)	28131.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	15.0	15.5	10.5	236.5	38.5	14.5	16.5	18.0
Merged-chr13-49220809-3	chr13	49220699	49220899	+	760.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-4773.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	11.5	6.5	2.0	70.5	28.0	8.5	11.0	9.5
Merged-chr19-11037739-2	chr19	11037639	11037839	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	12827.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	5.5	11.0	8.5	48.5	25.0	2.0	5.0	12.0
Merged-chr7-110268164-3	chr7	110268079	110268279	+	905.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 6 of 11)	intron (NM_009302, intron 6 of 11)	46476.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	11.0	33.0	9.0	80.5	36.0	19.0	17.5	13.0
Merged-chr1-42866188-3	chr1	42866099	42866299	+	910.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023514, intron 2 of 10)	RLTR9A3|LTR|ERVK	14966.0	NM_023514	69527.0	Mm.252982	NM_023514	ENSMUSG00000060679	Mrps9	2310002A08Rik|AW322516|Mrp-S9|S9mt|mg637	mitochondrial ribosomal protein S9	protein-coding	14.0	25.5	23.5	334.5	15.5	8.5	5.5	7.5
Merged-chr10-79852383-4	chr10	79852286	79852486	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_029447, exon 1 of 1)	non-coding (NR_029447, exon 1 of 1)	-2046.0	NM_001077363	19205.0	Mm.265610	NM_008956	ENSMUSG00000006498	Ptbp1	AA407203|AL033359|HNRPI|PTB-1|PTB2|PTB3|PTB4|Ptb|pPTB	polypyrimidine tract binding protein 1	protein-coding	26.5	18.0	37.0	348.5	54.0	19.0	9.0	30.0
Merged-chr10-87890079-4	chr10	87889955	87890155	+	817.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111274, intron 2 of 4)	intron (NM_001111274, intron 2 of 4)	28944.0	NM_001111276	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	8.5	7.5	10.5	228.0	19.5	9.5	6.5	15.0
Merged-chr11-4536126-4	chr11	4536027	4536227	+	833.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 1 of 17)	L1MB8|LINE|L1	58688.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	16.0	17.5	5.5	215.5	15.0	12.5	12.5	13.0
Merged-chr3-149086294-4	chr3	149086189	149086389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-131654.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	68.0	61.5	62.0	1141.0	127.5	50.0	61.5	70.0
Merged-chr12-69446623-6	chr12	69446532	69446732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28918.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	55.0	107.0	93.5	1188.5	78.5	28.5	31.0	49.5
Merged-chr17-35127049-4	chr17	35126958	35127158	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033477, exon 3 of 3)	5' UTR (NM_033477, exon 3 of 3)	656.0	NM_033477	114585.0	Mm.42070	NM_033477	ENSMUSG00000043311	D17H6S53E	G4|NG34	DNA segment, Chr 17, human D6S53E	protein-coding	12.5	26.0	12.5	185.0	59.0	14.0	32.0	34.0
Merged-chr11-102496358-4	chr11	102496247	102496447	+	828.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159492, intron 6 of 7)	intron (NM_001159492, intron 6 of 7)	-26464.0	NM_010575	16399.0	Mm.26646	NM_010575	ENSMUSG00000034664	Itga2b	AI172977|CD41|CD41B|GpIIb|alphaIIb	integrin alpha 2b	protein-coding	18.5	13.5	4.5	143.5	21.5	3.5	8.5	10.0
Merged-chr8-105516200-6	chr8	105516134	105516334	+	933.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2512.0	NM_008289	15484.0	Mm.5079	NM_008289	ENSMUSG00000031891	Hsd11b2	11HSD2	hydroxysteroid 11-beta dehydrogenase 2	protein-coding	11.5	12.5	3.5	92.5	19.0	9.5	11.5	8.0
Merged-chr13-12460632-4	chr13	12460555	12460755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291057, intron 1 of 8)	intron (NM_001291057, intron 1 of 8)	1083.0	NM_001291060	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	91.5	137.5	79.0	1082.0	235.5	95.0	69.5	70.5
Merged-chr9-101034007-2	chr9	101033881	101034081	+	914.033325	f1_balb.idr|f1_c57bl6.idr	intron (NM_001311149, intron 1 of 13)	intron (NM_001311149, intron 1 of 13)	903.0	NM_001311149	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	6.5	13.0	7.5	39.0	25.0	4.5	1.5	6.5
Merged-chr8-105291094-4	chr8	105291001	105291201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357379, intron 8 of 12)	intron (NM_001357379, intron 8 of 12)	-1573.0	NM_028888	74356.0	Mm.204876	NM_028888	ENSMUSG00000014837	4931428F04Rik	AI426165|Kiaa0895l	RIKEN cDNA 4931428F04 gene	protein-coding	35.5	38.5	7.5	302.5	66.0	26.0	25.0	23.0
Merged-chr3-109467457-4	chr3	109467289	109467489	+	920.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-106618.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	13.0	8.0	16.0	453.0	15.5	3.0	4.5	16.5
Merged-chr5-28094095-3	chr5	28094020	28094220	+	838.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22708.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	4.0	6.0	9.0	63.5	25.0	8.0	9.5	9.5
Merged-chr7-45896834-4	chr7	45896745	45896945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291064)	promoter-TSS (NM_001291064)	-134.0	NM_021482	58867.0	Mm.214217	NM_021482	ENSMUSG00000040231	Syngr4	1700016O14Rik	synaptogyrin 4	protein-coding	205.5	392.0	196.0	2339.0	490.5	244.0	219.0	184.0
Merged-chr2-93943214-3	chr2	93943107	93943307	+	733.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13893.0	NM_001145034	620695.0	Mm.482106	NM_001145034	ENSMUSG00000087006	Gm13889	Ag2	predicted gene 13889	protein-coding	8.0	4.0	8.5	151.0	16.5	9.0	12.5	9.0
Merged-chr5-123257266-4	chr5	123257168	123257368	+	959.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29078.0	NM_026000	67151.0	Mm.278997	NM_026000	ENSMUSG00000029440	Psmd9	1500011J20Rik|2610202L11Rik|Bridge-1|P27	proteasome (prosome, macropain) 26S subunit, non-ATPase, 9	protein-coding	26.0	40.0	25.5	157.5	56.5	25.0	12.5	20.0
Merged-chr9-110887634-4	chr9	110887497	110887697	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153354, intron 8 of 25)	intron (NR_153354, intron 8 of 25)	7275.0	NM_001146060	235633.0	Mm.86338	NM_146228	ENSMUSG00000044037	Als2cl	79H19D|79H19E|BC022645|D930044G19Rik|mRn.49018	ALS2 C-terminal like	protein-coding	9.5	8.5	11.5	179.0	23.5	3.5	11.0	16.5
Merged-chr16-20620006-4	chr16	20619906	20620106	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028420, exon 2 of 2)	3' UTR (NM_028420, exon 2 of 2)	1272.0	NM_028420	73047.0	Mm.425977	NM_028420	ENSMUSG00000051146	Camk2n2	2900075A18Rik	calcium/calmodulin-dependent protein kinase II inhibitor 2	protein-coding	13.0	27.5	13.5	155.0	32.5	12.0	14.0	12.0
Merged-chr7-24445719-3	chr7	24445618	24445818	+	811.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199013)	promoter-TSS (NM_199013)	-36.0	NM_199013	210145.0	Mm.33811	NM_199013	ENSMUSG00000062028	Irgc1	F630044M05Rik|Gm1102|Gm474|Ifgge|Iigp5|Irgc	immunity-related GTPase family, cinema 1	protein-coding	10.0	14.5	4.5	78.0	8.0	0.0	4.0	5.0
Merged-chr1-36572364-3	chr1	36572269	36572469	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-13988.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	13.5	9.5	13.0	172.0	30.0	10.5	9.5	15.5
Merged-chr9-83557468-4	chr9	83557321	83557521	+	811.37915	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	9083.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	5.5	19.0	12.5	72.5	12.5	11.5	6.5	5.0
Merged-chr2-120572322-4	chr2	120572216	120572416	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009222, intron 1 of 7)	T-rich|Low_complexity|Low_complexity	4645.0	NM_009222	20619.0	Mm.245715	NM_009222	ENSMUSG00000027287	Snap23	23kDa|AA408749|SNAP-23|Sndt|Syndet	synaptosomal-associated protein 23	protein-coding	21.5	38.5	17.5	155.5	60.5	23.0	19.0	23.5
Merged-chr3-108574207-4	chr3	108574107	108574307	+	797.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025444, intron 2 of 3)	intron (NM_025444, intron 2 of 3)	2508.0	NM_025444	99730.0	Mm.24431	NM_025444	ENSMUSG00000048100	Taf13	1810004N01Rik|2010309N11Rik|AI847295|TAFII18	TATA-box binding protein associated factor 13	protein-coding	10.5	18.0	9.0	91.5	20.5	14.0	29.0	17.5
Merged-chr16-29453450-4	chr16	29453370	29453570	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164613, intron 13 of 21)	intron (NM_001164613, intron 13 of 21)	-74738.0	NM_175650	268878.0	Mm.9823	NM_175650	ENSMUSG00000048939	Atp13a5	C630015F21Rik	ATPase type 13A5	protein-coding	23.0	45.0	28.0	598.5	67.0	24.0	52.0	20.5
Merged-chr13-92274008-4	chr13	92273907	92274107	+	866.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010829, exon 15 of 24)	exon (NM_010829, exon 15 of 24)	-80776.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	10.0	7.5	11.0	164.0	30.0	3.5	13.0	6.0
Merged-chr8-88274891-4	chr8	88274790	88274990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007406, intron 1 of 27)	intron (NM_007406, intron 1 of 27)	2487.0	NM_007406	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	42.0	49.5	45.0	599.0	71.0	23.0	30.5	43.5
Merged-chr4-11929573-4	chr4	11929469	11929669	+	952.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36144.0	NM_001098231	381511.0	Mm.331489	NM_001033453	ENSMUSG00000049225	Pdp1	Gm1024|Ppm2c	pyruvate dehyrogenase phosphatase catalytic subunit 1	protein-coding	18.0	20.0	18.0	327.5	43.0	8.0	14.0	17.5
Merged-chr5-140768532-4	chr5	140768440	140768640	+	894.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 2 of 3)	intron (NM_010302, intron 2 of 3)	44413.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	13.5	4.5	8.0	240.5	21.5	7.5	9.5	5.0
Merged-chr4-102759492-6	chr4	102759323	102759523	+	878.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285852)	promoter-TSS (NM_001285852)	-712.0	NM_001285860	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	7.0	10.5	15.0	149.5	9.0	10.5	8.0	11.0
Merged-chr5-73491930-6	chr5	73491844	73492044	+	992.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178896, intron 1 of 10)	CpG	918.0	NM_178896	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	12.0	12.5	10.5	140.0	31.0	10.5	13.5	11.0
Merged-chr18-76930042-4	chr18	76929935	76930135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025409)	promoter-TSS (NM_025409)	8.0	NM_025409	66191.0	Mm.28593	NM_025409	ENSMUSG00000090000	Ier3ip1	1110057H19Rik|AI644142|AL022842|AL022863|AV026606	immediate early response 3 interacting protein 1	protein-coding	108.0	142.5	96.5	1395.0	338.0	112.5	110.5	188.5
Merged-chr18-33213496-2	chr18	33213384	33213584	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001347624, intron 1 of 5)	intron (NM_001347624, intron 1 of 5)	378.0	NM_133774	170459.0	Mm.127058	NM_133774	ENSMUSG00000024378	Stard4	4632419C16Rik|9030213J02Rik	StAR-related lipid transfer (START) domain containing 4	protein-coding	30.5	38.5	32.5	381.0	72.5	32.5	29.5	19.5
Merged-chr17-13945430-4	chr17	13945301	13945501	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2972.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	50.0	31.5	68.5	807.0	83.0	10.0	52.5	42.0
Merged-chr13-106947076-4	chr13	106946968	106947168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025447)	promoter-TSS (NM_025447)	-61.0	NM_025447	66254.0	Mm.9563	NM_025447	ENSMUSG00000021692	Dimt1	1500031M22Rik|AV111347|Dimt1l	DIM1 dimethyladenosine transferase 1-like (S. cerevisiae)	protein-coding	248.0	386.0	233.5	4134.5	582.0	189.5	293.0	210.5
Merged-chr19-53423564-4	chr19	53423483	53423683	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32949.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	26.0	30.5	30.0	185.0	25.5	9.5	9.0	5.5
Merged-chr10-86863654-3	chr10	86863529	86863729	+	748.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 54 of 68)	intron (NM_138673, intron 54 of 68)	84624.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	7.0	9.5	5.0	93.0	24.0	4.0	6.5	8.5
Merged-chr7-46919929-4	chr7	46919839	46920039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348089)	promoter-TSS (NM_001348089)	30.0	NM_001348089	22088.0	Mm.241334	NM_021884	ENSMUSG00000014402	Tsg101	AI255943|CC2	tumor susceptibility gene 101	protein-coding	80.0	104.0	72.0	1122.0	174.0	73.0	86.5	102.0
Merged-chr9-70007154-3	chr9	70007053	70007253	+	767.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016787, exon 11 of 11)	3' UTR (NM_016787, exon 11 of 11)	-5395.0	NM_001282084	235459.0	Mm.293117	NM_199151	ENSMUSG00000033543	Gtf2a2	TFIIA-gamma|TfIIg|Tfiia2	general transcription factor II A, 2	protein-coding	13.0	24.0	15.0	320.5	12.5	5.5	9.5	6.5
Merged-chr5-136085016-4	chr5	136084915	136085115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	1099.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	58.5	103.5	48.5	893.0	157.5	66.5	59.0	75.5
Merged-chr12-69374607-3	chr12	69374511	69374711	+	922.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007481, exon 2 of 2)	3' UTR (NM_007481, exon 2 of 2)	2461.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	17.5	13.0	12.0	127.0	17.0	7.5	4.5	9.0
Merged-chr10-63460539-4	chr10	63460441	63460641	+	928.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164376, intron 1 of 17)	intron (NM_001164376, intron 1 of 17)	3030.0	NM_001164376	216033.0	Mm.444692	NM_177612	ENSMUSG00000060843	Ctnna3	4930429L08Rik|4933408A16|Catna3|Vr22	catenin (cadherin associated protein), alpha 3	protein-coding	12.0	28.0	11.5	133.0	44.5	9.5	24.0	23.0
Merged-chr15-50751201-3	chr15	50751124	50751324	+	942.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	137825.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	16.5	39.0	7.0	100.5	27.0	5.5	3.5	4.0
Merged-chr1-127774644-1	chr1	127774544	127774744	+	1000.0	f0_c57.idr	promoter-TSS (NR_045298)	promoter-TSS (NR_045298)	480.0	NM_028399	72949.0	Mm.268672	NM_028399	ENSMUSG00000026349	Ccnt2	2900041I18Rik|C81304|CycT2|CycT2a|CycT2b	cyclin T2	protein-coding	33.0	23.5	26.5	346.5	70.0	18.0	43.5	53.0
Merged-chr5-3787712-3	chr5	3787620	3787820	+	937.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003909, intron 1 of 19)	MER68-int|LTR|ERVL	-14933.0	NM_001289529	70797.0	Mm.130148	NM_001003909	ENSMUSG00000040351	Ankib1	2310061P20Rik|4631416I11Rik|AW494740|C80642|mKIAA1386	ankyrin repeat and IBR domain containing 1	protein-coding	10.5	7.0	14.5	336.5	14.5	12.0	7.0	10.5
Merged-chr6-116675018-4	chr6	116674905	116675105	+	733.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1169.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	4.5	7.5	2.0	69.0	19.0	6.0	10.0	9.0
Merged-chr7-4309836-3	chr7	4309729	4309929	+	732.861084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	-27895.0	NM_010746	17086.0	Mm.240231	NM_010746	ENSMUSG00000062524	Ncr1	Ly94|NKp46	natural cytotoxicity triggering receptor 1	protein-coding	0.0	0.0	0.0	0.0	30.0	8.5	12.0	20.5
Merged-chr9-21936931-4	chr9	21936831	21937031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290299)	promoter-TSS (NM_001290299)	-79.0	NM_001290299	235044.0	Mm.277521	NM_144935	ENSMUSG00000040563	Plppr2	Lppr2|PRG-4	phospholipid phosphatase related 2	protein-coding	101.5	220.5	88.0	1522.0	293.5	87.0	117.0	109.0
Merged-chr9-72533075-2	chr9	72532976	72533176	+	954.2000119999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033536, intron 1 of 8)	intron (NM_001033536, intron 1 of 8)	836.0	NM_001033536	319758.0	Mm.32081	NM_001033536	ENSMUSG00000037674	Rfx7	2510005N23Rik|9930116O05Rik|D130086K05Rik|Rfxdc2	regulatory factor X, 7	protein-coding	0.5	7.0	7.5	85.5	22.5	8.5	6.5	7.5
Merged-chr6-34608805-4	chr6	34608697	34608897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	intron (NM_001347100, intron 1 of 13)	10293.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	52.5	85.5	62.5	853.5	135.0	32.0	88.0	61.5
Merged-chr8-119423964-4	chr8	119423861	119424061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13201.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	56.0	71.0	39.0	970.0	111.5	32.5	36.5	45.5
Merged-chr11-44441430-3	chr11	44441335	44441535	+	842.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29113.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	0.5	1.5	1.0	0.0	53.0	8.5	25.5	18.5
Merged-chr4-106316167-4	chr4	106316067	106316267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183225)	promoter-TSS (NM_183225)	-46.0	NM_183225	329908.0	Mm.234544	NM_183225	ENSMUSG00000028514	Usp24	2700066K03Rik|2810030C21Rik|AI414051|B130021E18|C79851	ubiquitin specific peptidase 24	protein-coding	33.5	40.0	37.0	414.0	69.0	27.0	39.5	35.0
Merged-chr1-64621460-4	chr1	64621345	64621545	+	962.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5b|DNA|TcMar-Tigger	-4277.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	12.0	29.0	18.5	335.0	50.0	11.5	19.0	18.0
Merged-chr9-40521330-4	chr9	40521228	40521428	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	10055.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	14.5	19.0	38.0	500.5	49.5	5.5	13.5	12.0
Merged-chr7-135522157-3	chr7	135522054	135522254	+	883.9332890000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178669, intron 1 of 2)	intron (NM_178669, intron 1 of 2)	6500.0	NM_178669	212070.0	Mm.39721	NM_178669	ENSMUSG00000050866	Clrn3	AI649392|Tmem12	clarin 3	protein-coding	6.0	15.0	13.5	201.0	7.0	3.5	2.5	3.5
Merged-chr4-124908380-3	chr4	124908275	124908475	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256432, intron 8 of 16)	intron (NM_001256432, intron 8 of 16)	-13593.0	NR_040651	73628.0	Mm.398337	NR_040651	ENSMUSG00000085263	1700125G02Rik	-	RIKEN cDNA 1700125G02 gene	ncRNA	8.0	12.0	3.0	95.5	9.5	7.0	5.0	6.0
Merged-chr7-19496388-4	chr7	19496304	19496504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11927.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	64.5	82.5	83.5	1105.5	125.5	40.5	45.0	45.0
Merged-chr19-8892990-4	chr19	8892887	8893087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176843)	promoter-TSS (NM_176843)	0.0	NM_176843	109077.0	Mm.290474	NM_176843	ENSMUSG00000071652	Ints5	1110055N21Rik|mKIAA1698	integrator complex subunit 5	protein-coding	24.5	59.5	10.0	169.5	71.5	27.0	31.0	32.0
Merged-chr15-57898138-4	chr15	57898028	57898228	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5710.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	7.5	18.5	15.0	276.5	38.0	9.0	24.0	23.0
Merged-chr11-115601279-4	chr11	115601084	115601284	+	935.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173048, intron 1 of 16)	intron (NM_173048, intron 1 of 16)	2732.0	NM_001252067	260302.0	Mm.119479	NM_173048	ENSMUSG00000020740	Gga3	C230037M19Rik|mKIAA0154	golgi associated, gamma adaptin ear containing, ARF binding protein 3	protein-coding	15.0	33.0	15.0	280.5	17.5	10.0	7.0	11.0
Merged-chr16-30309613-2	chr16	30309513	30309713	+	602.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_008148, exon 2 of 2)	exon (NM_008148, exon 2 of 2)	1168.0	NM_008148	14729.0	Mm.3519	NM_008148	ENSMUSG00000047953	Gp5	GPV	glycoprotein 5 (platelet)	protein-coding	4.5	7.0	4.5	99.5	7.0	3.5	7.0	5.5
Merged-chr13-41521509-4	chr13	41521401	41521601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-34141.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	91.5	148.5	75.5	1213.5	152.5	52.0	83.5	95.0
Merged-chr19-12573434-4	chr19	12573335	12573535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346545)	promoter-TSS (NM_001346545)	-75.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	153.5	249.5	123.0	2022.5	321.5	129.5	185.0	130.5
Merged-chr7-143625275-4	chr7	143625170	143625370	+	912.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175649, intron 1 of 7)	RMER4A|LTR|ERVK	2575.0	NM_175649	244237.0	Mm.247498	NM_175649	ENSMUSG00000045362	Tnfrsf26	Tnfrh3|Tnfrsf24	tumor necrosis factor receptor superfamily, member 26	protein-coding	15.0	20.5	8.5	127.5	32.5	24.0	3.5	13.0
Merged-chr15-76368929-4	chr15	76368847	76369047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021555)	promoter-TSS (NM_021555)	49.0	NM_021555	59053.0	Mm.133202	NM_021555	ENSMUSG00000022554	Hgh1	Brp16|D15Ertd741e|Fam203a|MNCb-5873	HGH1 homolog	protein-coding	34.5	85.5	41.5	792.5	77.0	22.5	31.5	36.0
Merged-chr12-113026846-3	chr12	113026749	113026949	+	833.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081170, intron 1 of 23)	intron (NM_001081170, intron 1 of 23)	12341.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	23.0	18.5	17.0	309.0	33.0	4.0	4.5	12.0
Merged-chr10-125419034-4	chr10	125418946	125419146	+	668.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90083.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	6.0	11.5	6.0	89.5	22.5	4.5	8.0	14.0
Merged-chr14-27562819-4	chr14	27562714	27562914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-54354.0	NM_177111	320234.0	Mm.247767	NM_177111	ENSMUSG00000046753	Ccdc66	E230015L20Rik	coiled-coil domain containing 66	protein-coding	46.0	54.0	73.0	456.5	91.0	47.5	60.0	49.0
Merged-chr1-132370939-4	chr1	132370857	132371057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178874, intron 2 of 4)	intron (NM_178874, intron 2 of 4)	-3009.0	NM_001311108	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	40.0	48.0	71.0	731.0	79.5	19.5	41.5	41.0
Merged-chr11-116168255-4	chr11	116168154	116168354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172571)	promoter-TSS (NM_172571)	-76.0	NM_172571	217335.0	Mm.35241	NM_172571	ENSMUSG00000020776	Fbf1	1110033G01Rik|5930413D20|mKIAA1863	Fas (TNFRSF6) binding factor 1	protein-coding	96.5	141.5	59.0	1143.5	226.5	65.0	84.5	65.0
Merged-chr3-107274037-4	chr3	107273938	107274138	+	932.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4820.0	NM_026774	68576.0	Mm.290035	NM_026774	ENSMUSG00000087260	Lamtor5	1110003H18Rik|Hbxip|XIP	late endosomal/lysosomal adaptor, MAPK and MTOR activator 5	protein-coding	16.0	11.0	9.0	329.0	55.0	18.0	18.0	24.5
Merged-chr6-134120880-4	chr6	134120780	134120980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	85180.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	36.5	80.5	60.0	699.5	125.0	60.5	103.0	70.0
Merged-chr9-32668228-4	chr9	32668120	32668320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27822.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	41.0	43.0	40.5	777.5	60.0	26.0	45.5	44.5
Merged-chr15-88868013-4	chr15	88867931	88868131	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	5837.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	16.5	35.5	13.0	138.5	57.0	18.5	12.5	20.0
Merged-chr7-49923133-3	chr7	49923041	49923241	+	890.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146013, intron 5 of 15)	PB1D11|SINE|Alu	11441.0	NM_148931	104245.0	Mm.207053	NM_148931	ENSMUSG00000039728	Slc6a5	Glyt2|prestin	solute carrier family 6 (neurotransmitter transporter, glycine), member 5	protein-coding	19.0	19.5	15.0	166.5	3.5	8.0	6.0	6.0
Merged-chr11-54711106-3	chr11	54710998	54711198	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76605.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	8.5	9.5	7.0	90.5	14.5	4.5	8.0	10.5
Merged-chr1-4768528-4	chr1	4768439	4768639	+	734.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17187.0	NM_001177658	27395.0	Mm.182927	NM_025300	ENSMUSG00000033845	Mrpl15	HSPC145|MRP-L7|Rpml7	mitochondrial ribosomal protein L15	protein-coding	11.0	11.5	12.0	74.5	24.5	11.5	9.0	14.5
Merged-chr11-59506664-1	chr11	59506564	59506764	+	1000.0	f0_balb.idr	promoter-TSS (NM_001130529)	promoter-TSS (NM_001130529)	-24.0	NM_172941	268417.0	Mm.239793	NM_172941	ENSMUSG00000020472	Zkscan17	Nizp1|Zfp496|Znf496	zinc finger with KRAB and SCAN domains 17	protein-coding	15.5	31.0	6.0	134.0	25.5	13.5	9.5	17.5
Merged-chr13-23751107-4	chr13	23751013	23751213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175660)	promoter-TSS (NM_175660)	25.0	NM_175660	319172.0	Mm.423402	NM_175660	ENSMUSG00000061615	Hist1h2ab	H2A.1|H2a-53	histone cluster 1, H2ab	protein-coding	29.0	26.0	17.0	350.5	49.5	39.5	33.0	49.5
Merged-chr1-62724676-4	chr1	62724574	62724774	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	21357.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	27.5	31.0	21.5	313.0	45.0	6.5	10.5	14.5
Merged-chr13-17944270-4	chr13	17944172	17944372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019491)	promoter-TSS (NM_019491)	-55.0	NM_019491	56044.0	Mm.27348	NM_019491	ENSMUSG00000008859	Rala	3010001O15Rik|AW322615|Ral|Rasl1	v-ral simian leukemia viral oncogene A (ras related)	protein-coding	73.0	101.5	86.5	1499.5	225.0	79.0	137.5	106.0
Merged-chr2-150608572-4	chr2	150608475	150608675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027977)	promoter-TSS (NM_027977)	-8.0	NM_001356492	71881.0	Mm.26599	NM_027977	ENSMUSG00000033096	Apmap	2310001A20Rik|AI314817	adipocyte plasma membrane associated protein	protein-coding	144.5	179.0	125.0	2094.0	408.0	151.5	176.0	190.0
Merged-chr15-82244527-4	chr15	82244427	82244627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080158)	promoter-TSS (NM_001080158)	-191.0	NM_001080158	66570.0	Mm.23596	NM_025639	ENSMUSG00000068101	Cenpm	2610019I03Rik|AI853711|Pane1	centromere protein M	protein-coding	77.5	128.5	84.5	911.5	144.0	79.5	71.0	84.5
Merged-chr8-111877940-2	chr8	111877840	111878040	+	746.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-1265.0	NM_025781	66817.0	Mm.345350	NM_025781	ENSMUSG00000031953	Tmem170	9030409E16Rik|AA403674|D8Bwg1414e|Tmem170a	transmembrane protein 170	protein-coding	7.0	7.0	5.0	45.0	8.5	1.0	6.0	2.5
Merged-chr10-20056493-4	chr10	20056404	20056604	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008580, exon 9 of 30)	exon (NM_008580, exon 9 of 30)	-92416.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	25.5	25.0	17.0	395.0	47.0	14.0	32.0	18.5
Merged-chr2-92037140-3	chr2	92037033	92037233	+	858.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12963.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	8.5	11.0	4.5	85.5	17.0	2.0	8.0	17.0
Merged-chr10-127617017-10	chr10	127616861	127617061	+	786.955017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 1 of 88)	intron (NM_008512, intron 1 of 88)	4187.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	1.5	10.5	12.5	166.5	24.0	5.0	8.5	6.0
Merged-chr11-80428578-4	chr11	80428482	80428682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178616)	promoter-TSS (NM_178616)	-33.0	NM_178616	69077.0	Mm.260539	NM_178616	ENSMUSG00000017428	Psmd11	1700089D09Rik|1810019E17Rik|2610024G20Rik|2810055C24Rik|C78232|P44.5|S9	proteasome (prosome, macropain) 26S subunit, non-ATPase, 11	protein-coding	101.0	109.5	62.0	1040.0	202.0	93.0	87.5	93.0
Merged-chr7-127290417-4	chr7	127290317	127290517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-5843.0	NM_001253873	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	71.0	128.0	53.0	695.5	136.0	67.0	59.0	49.0
Merged-chr5-65703434-3	chr5	65703353	65703553	+	897.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5597.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	3.0	13.5	4.0	98.5	13.0	6.0	8.0	13.0
Merged-chr16-92697414-4	chr16	92697326	92697526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009821)	promoter-TSS (NM_009821)	-97.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	45.0	83.5	45.5	1007.0	153.5	55.0	58.0	72.0
Merged-chr7-107748164-3	chr7	107748058	107748258	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001205227)	TTS (NM_001205227)	9874.0	NM_001205227	320635.0	Mm.132828	NM_177216	ENSMUSG00000048065	Cyb5r2	D630003K02Rik|b5R.2	cytochrome b5 reductase 2	protein-coding	5.0	5.5	12.0	180.0	17.5	3.0	5.0	6.5
Merged-chr8-105269783-4	chr8	105269688	105269888	+	962.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256044)	promoter-TSS (NM_001256044)	-13.0	NM_011939	26386.0	Mm.89204	NM_011939	ENSMUSG00000033249	Hsf4	HSF 4|HSTF 4|HSTF4|ldis1|mHSF4	heat shock transcription factor 4	protein-coding	34.0	41.5	19.0	566.0	73.0	14.0	16.0	17.0
Merged-chr15-79224892-4	chr15	79224797	79224997	+	945.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4276.0	NM_008837	18693.0	Mm.259464	NM_008837	ENSMUSG00000068206	Pick1	Prkcabp	protein interacting with C kinase 1	protein-coding	25.0	45.0	14.0	203.5	37.5	35.5	18.5	18.0
Merged-chr7-100855384-4	chr7	100855225	100855425	+	872.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	8088.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	6.0	9.0	3.5	95.5	15.0	11.5	8.0	8.5
Merged-chr11-70280663-4	chr11	70280579	70280779	+	860.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25309.0	NM_007440	11684.0	Mm.12286	NM_007440	ENSMUSG00000000320	Alox12	9930022G08Rik|Alox12p|P-12LO	arachidonate 12-lipoxygenase	protein-coding	13.0	20.5	12.5	139.0	20.5	3.5	20.5	7.5
Merged-chr13-51736561-4	chr13	51736504	51736704	+	916.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281880, intron 2 of 16)	intron (NM_001281880, intron 2 of 16)	57143.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	20.0	7.0	30.0	305.5	25.0	9.5	21.0	31.0
Merged-chr2-144217441-4	chr2	144217342	144217542	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28152.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	14.0	24.5	14.5	176.5	46.0	14.0	12.5	20.0
Merged-chr7-98953830-4	chr7	98953720	98953920	+	910.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 12 of 14)	intron (NM_178635, intron 12 of 14)	114975.0	NM_001285795	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	13.5	30.5	21.0	563.0	25.5	9.0	17.0	23.0
Merged-chr12-95738312-4	chr12	95738193	95738393	+	865.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	46067.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	9.0	8.5	11.0	147.5	34.0	2.5	12.5	6.0
Merged-chr6-47979145-4	chr6	47979050	47979250	+	969.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25760.0	NM_178898	101197.0	Mm.241063	NM_178898	ENSMUSG00000045466	Zfp956	AI894139	zinc finger protein 956	protein-coding	39.0	37.5	26.5	445.0	39.0	14.5	17.5	12.0
Merged-chr12-12295136-7	chr12	12295056	12295256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	33017.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	15.0	27.5	19.0	156.0	29.5	19.0	19.0	25.0
Merged-chr19-32906997-4	chr19	32906876	32907076	+	831.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	149399.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	17.0	11.0	14.5	295.5	25.0	11.0	14.0	11.5
Merged-chr18-53149769-4	chr18	53149681	53149881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26511.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	20.0	29.0	21.0	330.0	67.5	26.0	43.5	23.5
Merged-chr15-58758398-4	chr15	58758303	58758503	+	941.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65024.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	25.0	33.5	16.0	400.5	43.0	10.5	26.5	26.5
Merged-chr9-78533472-4	chr9	78533388	78533588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51764.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	73.5	108.5	64.0	1377.0	208.5	80.0	84.0	105.5
Merged-chr7-43660156-4	chr7	43660059	43660259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031181)	promoter-TSS (NM_031181)	2.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	40.5	73.0	54.0	622.5	129.5	61.0	54.0	50.0
Merged-chr2-59427420-4	chr2	59427318	59427518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40736.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	48.5	117.5	40.0	693.0	88.0	34.5	35.0	24.0
Merged-chr18-36194036-4	chr18	36193934	36194134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167891, intron 1 of 9)	intron (NM_001167891, intron 1 of 9)	3126.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	54.5	49.0	58.5	814.5	120.0	28.0	44.5	52.0
Merged-chr7-88244656-3	chr7	88244540	88244740	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33445.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	7.5	16.5	16.5	262.5	29.5	4.0	6.0	6.0
Merged-chr5-125384666-4	chr5	125384572	125384772	+	859.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5345.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	17.0	56.5	8.5	86.0	44.5	30.5	10.0	15.0
Merged-chr11-70803883-4	chr11	70803786	70803986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 1 of 4)	intron (NM_001045526, intron 1 of 4)	8675.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	55.0	96.0	53.0	907.0	127.0	30.0	43.0	43.5
Merged-chr1-33908027-4	chr1	33907932	33908132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276764)	promoter-TSS (NM_001276764)	-193.0	NM_001276764	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	63.5	67.0	42.5	880.5	108.5	45.0	59.0	39.5
Merged-chr19-4147328-4	chr19	4147235	4147435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1328.0	NM_011778	23789.0	Mm.276859	NM_011778	ENSMUSG00000024835	Coro1b	-	coronin, actin binding protein 1B	protein-coding	36.5	89.0	55.0	509.5	131.5	38.0	37.5	43.0
Merged-chr19-31764447-3	chr19	31764360	31764560	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013833, intron 1 of 17)	CpG	573.0	NM_001013833	19091.0	Mm.381170	NM_011160	ENSMUSG00000052920	Prkg1	AW125416|CGKI|Gm19690|Prkg1b|Prkgr1b	protein kinase, cGMP-dependent, type I	protein-coding	23.0	23.0	11.0	313.5	22.5	9.0	6.0	12.5
Merged-chr6-89595521-4	chr6	89595345	89595545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 1 of 6)	CpG	207.0	NM_025351	66098.0	Mm.20313	NM_025351	ENSMUSG00000030086	Chchd6	0710001P09Rik|1700021B03Rik	coiled-coil-helix-coiled-coil-helix domain containing 6	protein-coding	31.0	42.0	68.0	521.5	68.5	28.0	29.5	52.5
Merged-chr16-64770919-4	chr16	64770774	64770974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026273)	promoter-TSS (NM_026273)	65.0	NM_026273	67609.0	Mm.212157	NM_026273	ENSMUSG00000059920	4930453N24Rik	AI649104|din	RIKEN cDNA 4930453N24 gene	protein-coding	25.0	55.0	54.0	338.5	69.0	38.5	38.5	32.0
Merged-chr14-31406303-4	chr14	31406184	31406384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	11393.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	36.0	33.0	22.5	483.0	55.0	16.0	27.0	21.0
Merged-chr10-13276540-3	chr10	13276463	13276663	+	990.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359294, intron 2 of 11)	intron (NM_001359294, intron 2 of 11)	47726.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	16.0	5.5	14.5	217.0	39.0	8.0	6.5	9.0
Merged-chr10-22731420-4	chr10	22731290	22731490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011603)	promoter-TSS (NM_011603)	57.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	118.0	192.5	126.5	1638.5	396.5	123.0	169.5	127.0
Merged-chr13-20151760-4	chr13	20151657	20151857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	61250.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	41.0	46.5	56.0	623.0	61.5	24.0	27.0	41.5
Merged-chr2-78869799-3	chr2	78869691	78869891	+	973.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151458, exon 1 of 7)	non-coding (NR_151458, exon 1 of 7)	113.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	5.5	16.0	12.5	112.5	21.0	15.0	7.5	13.5
Merged-chr3-107864144-4	chr3	107864061	107864261	+	894.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13069.0	NM_133867	99662.0	Mm.108491	NM_133867	ENSMUSG00000040600	Eps8l3	AI504489|Eps8r3	EPS8-like 3	protein-coding	14.5	21.5	9.0	199.5	48.5	23.0	17.5	14.0
Merged-chr9-32695330-2	chr9	32695230	32695430	+	876.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011808)	promoter-TSS (NM_011808)	-712.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	5.5	15.0	6.0	51.5	10.5	8.0	4.0	8.0
Merged-chr18-32311972-4	chr18	32311886	32312086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65231.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	18.0	49.5	20.0	347.0	83.5	40.0	34.0	23.0
Merged-chr12-69503833-4	chr12	69503725	69503925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-28275.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	23.5	60.5	23.5	212.0	62.5	26.5	23.5	21.0
Merged-chr5-34761692-4	chr5	34761603	34761803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010414)	promoter-TSS (NM_010414)	-37.0	NM_010414	15194.0	Mm.209071	NM_010414	ENSMUSG00000029104	Htt	AI256365|C430023I11Rik|Hd|Hdh|IT15	huntingtin	protein-coding	166.5	282.0	200.5	2606.5	290.0	103.5	162.0	100.5
Merged-chr5-113054513-2	chr5	113054418	113054618	+	716.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15599.0	NM_007773	12961.0	Mm.1215	NM_007773	ENSMUSG00000042240	Crybb2	Cryb-2	crystallin, beta B2	protein-coding	5.5	2.0	3.0	79.0	22.5	6.5	11.5	8.5
Merged-chr16-21205240-1	chr16	21205140	21205340	+	884.3333130000001	f0_balb.idr	exon (NM_010143, exon 1 of 16)	exon (NM_010143, exon 1 of 16)	445.0	NM_010143	13845.0	Mm.6972	NM_010143	ENSMUSG00000005958	Ephb3	AW456895|Cek10|Etk2|HEK2|MDK5|Sek4|Tyro6	Eph receptor B3	protein-coding	3.0	15.0	14.0	147.0	17.5	13.5	8.5	10.5
Merged-chr7-141048028-1	chr7	141047928	141048128	+	715.5	f0_balb.idr	Intergenic	Intergenic	-13246.0	NM_177897	330671.0	Mm.133741	NM_177897	ENSMUSG00000055629	B4galnt4	BC038881|Gm1095|beta4GalNAcT4	beta-1,4-N-acetyl-galactosaminyl transferase 4	protein-coding	8.5	8.0	5.5	98.0	22.0	12.0	5.0	10.0
Merged-chr1-131085436-4	chr1	131085336	131085536	+	804.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	L2a|LINE|L2	12407.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	3.0	13.5	11.0	9.5	13.0	6.0	8.0	15.0
Merged-chr16-77251646-4	chr16	77251548	77251748	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77680.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	22.0	49.0	23.5	532.0	72.0	22.5	20.0	18.0
Merged-chr15-86169884-4	chr15	86169800	86170000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-15828.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	156.0	202.0	167.5	2567.0	371.5	139.0	137.5	153.0
Merged-chr16-33684456-4	chr16	33684344	33684544	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175256)	promoter-TSS (NM_175256)	-22.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	26.0	33.5	20.5	505.0	74.5	32.5	35.5	21.0
Merged-chr11-80174340-6	chr11	80174218	80174418	+	758.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 8 of 10)	intron (NM_172133, intron 8 of 10)	-9554.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	9.5	10.0	8.0	105.0	13.5	8.0	4.5	9.0
Merged-chr3-129725255-4	chr3	129725166	129725366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310737)	promoter-TSS (NM_001310737)	-180.0	NM_001329594	13645.0	Mm.252481	NM_010113	ENSMUSG00000028017	Egf	AI790464	epidermal growth factor	protein-coding	152.0	183.5	208.5	1973.0	234.0	124.0	117.0	135.5
Merged-chr6-125449866-4	chr6	125449751	125449951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44909.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	20.5	29.0	17.5	480.0	58.0	18.5	33.5	38.5
Merged-chr7-118448762-4	chr7	118448648	118448848	+	927.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362179)	promoter-TSS (NM_001362179)	-526.0	NM_001362179	110058.0	Mm.156558	NM_138649	ENSMUSG00000058420	Syt17	Bk|sytXVII	synaptotagmin XVII	protein-coding	10.0	23.5	17.0	163.5	17.0	15.0	12.5	25.0
Merged-chr15-27613007-4	chr15	27612913	27613113	+	856.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013792, intron 4 of 6)	intron (NM_001013792, intron 4 of 6)	17680.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	11.5	23.5	6.5	233.0	20.5	13.5	5.5	10.5
Merged-chr9-44567827-4	chr9	44567710	44567910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37082.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	87.0	141.0	74.5	1155.0	256.5	124.5	150.0	104.5
Merged-chr3-38423575-4	chr3	38423488	38423688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61228.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	26.5	62.5	53.5	614.0	96.0	27.5	45.0	36.5
Merged-chr1-170371502-4	chr1	170371365	170371565	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 4 of 9)	intron (NM_001109985, intron 4 of 9)	62604.0	NM_001039593	76925.0	Mm.33631	NM_001039593	ENSMUSG00000042800	Spata46	1700015E13Rik	spermatogenesis associated 46	protein-coding	15.0	20.5	23.0	288.5	54.0	18.0	21.5	18.0
Merged-chr6-26297568-4	chr6	26297467	26297667	+	836.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	366141.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	12.0	22.0	15.0	105.0	29.0	11.5	12.0	10.0
Merged-chr5-148489110-4	chr5	148489014	148489214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	62559.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	26.0	26.0	24.5	376.5	51.5	22.0	38.0	20.5
Merged-chr5-30869602-4	chr5	30869504	30869704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144525)	promoter-TSS (NM_144525)	25.0	NM_144525	68796.0	Mm.205169	NM_144525	ENSMUSG00000038828	Tmem214	1110039B18Rik|4921530J21Rik|AI841294|AU018742|C76280	transmembrane protein 214	protein-coding	56.0	59.0	27.0	618.5	118.0	26.0	52.0	52.5
Merged-chr1-38129226-2	chr1	38129152	38129352	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001359288, intron 1 of 25)	CpG	414.0	NM_001359287	56210.0	Mm.389103	NM_019570	ENSMUSG00000026082	Rev1	1110027I23Rik|AU022044|Rev1l	REV1, DNA directed polymerase	protein-coding	23.0	27.5	27.5	273.5	51.5	20.5	19.5	14.5
Merged-chr2-156850678-4	chr2	156850579	156850779	+	915.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291124, intron 2 of 3)	intron (NM_001291124, intron 2 of 3)	10672.0	NM_173396	228839.0	Mm.315625	NM_173396	ENSMUSG00000062175	Tgif2	4921501K24|5730599O09Rik|C80753|C81206	TGFB-induced factor homeobox 2	protein-coding	14.5	22.0	8.0	244.5	26.0	10.5	20.5	11.5
Merged-chr4-62764240-3	chr4	62764152	62764352	+	774.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90278.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	8.5	10.5	4.5	102.5	14.5	5.0	12.0	12.0
Merged-chr7-25077093-4	chr7	25077006	25077206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168506, exon 2 of 3)	5' UTR (NM_001168506, exon 2 of 3)	299.0	NM_175477	232976.0	Mm.41568	NM_175477	ENSMUSG00000045252	Zfp574	A630056B21Rik|Znf574	zinc finger protein 574	protein-coding	348.5	527.0	430.5	5124.5	732.0	284.5	315.0	270.5
Merged-chr2-45099234-4	chr2	45099163	45099363	+	834.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	11014.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	19.5	45.5	10.0	85.5	29.0	15.5	3.0	1.5
Merged-chr12-99464490-4	chr12	99464389	99464589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14415.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	21.0	41.5	24.0	394.0	117.0	30.5	31.5	43.5
Merged-chr7-16491918-3	chr7	16491812	16492012	+	887.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15132.0	NM_008718	18142.0	Mm.145821	NM_008718	ENSMUSG00000001988	Npas1	MOP5|bHLHe11	neuronal PAS domain protein 1	protein-coding	3.0	3.5	5.5	85.0	34.0	13.5	9.0	11.5
Merged-chr14-22845642-3	chr14	22845531	22845731	+	912.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 6 of 6)	intron (NM_028275, intron 6 of 6)	248940.0	NR_033550	791307.0	Mm.364384	NR_033550	ENSMUSG00000068680	Gm10248	-	predicted gene 10248	ncRNA	7.5	25.5	17.0	415.5	13.0	3.0	10.0	18.5
Merged-chr5-124616664-4	chr5	124616566	124616766	+	795.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026486, intron 11 of 18)	intron (NM_026486, intron 11 of 18)	-12386.0	NM_011596	21871.0	Mm.1158	NM_011596	ENSMUSG00000038023	Atp6v0a2	8430408C20Rik|AI385560|ATP6a2|AW489264|Atp6n1d|Atp6n2|C76904|ISF|J6B7|SHIF|Stv1|TJ6M|TJ6s|Tj6|V-ATPase 116 kDa|V-ATPase a2	ATPase, H+ transporting, lysosomal V0 subunit A2	protein-coding	10.0	9.0	6.0	93.0	21.0	11.0	10.0	22.5
Merged-chr15-102625820-2	chr15	102625712	102625912	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001310070)	promoter-TSS (NM_001310070)	-348.0	NM_001310066	223922.0	Mm.208714	NM_146065	ENSMUSG00000099083	Atf7	1110012F10Rik|9430065F09Rik|AI549878|C130020M04Rik	activating transcription factor 7	protein-coding	77.0	83.0	42.5	1105.5	166.5	47.0	55.0	78.5
Merged-chr10-7923645-4	chr10	7923552	7923752	+	948.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359534, intron 2 of 6)	intron (NM_001359534, intron 2 of 6)	29413.0	NM_001359534	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	22.0	30.5	15.0	378.5	55.0	12.0	10.0	12.0
Merged-chr6-42350895-6	chr6	42350784	42350984	+	990.8148189999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289618, intron 2 of 9)	intron (NM_001289618, intron 2 of 9)	1056.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	11.5	11.0	11.5	144.5	30.5	12.5	15.0	16.5
Merged-chr7-16175351-4	chr7	16175266	16175466	+	987.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302472)	promoter-TSS (NM_001302472)	-29.0	NM_001277988	17537.0	Mm.360516	NM_008627	ENSMUSG00000041420	Meis3	AI573393|Mrg2	Meis homeobox 3	protein-coding	28.5	32.0	14.0	298.0	46.0	17.0	18.5	23.5
Merged-chr10-18197411-4	chr10	18197278	18197478	+	975.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195036, intron 3 of 20)	intron (NM_001195036, intron 3 of 20)	13512.0	NM_001195036	100045792.0	Mm.380617	NM_001195036	ENSMUSG00000071392	Ect2l	C330021H03Rik|Gm10331	epithelial cell transforming sequence 2 oncogene-like	protein-coding	13.0	30.5	22.0	275.5	85.5	13.0	20.0	28.0
Merged-chr13-30625335-4	chr13	30625221	30625421	+	852.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10278.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	13.5	18.5	13.0	183.5	31.0	14.5	19.5	7.5
Merged-chr9-46120108-4	chr9	46120038	46120238	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	107318.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	19.5	49.5	30.0	549.5	44.5	12.5	32.0	16.5
Merged-chr2-152343541-4	chr2	152343463	152343663	+	934.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175093, intron 1 of 3)	PB1D10|SINE|Alu	497.0	NM_175093	228775.0	Mm.276018	NM_144554	ENSMUSG00000032715	Trib3	Ifld2|Nipk|SINK|SKIP3|TRB-3|Trb3	tribbles pseudokinase 3	protein-coding	18.0	30.0	18.5	185.0	51.5	9.5	19.0	11.0
Merged-chr13-32866633-3	chr13	32866500	32866700	+	608.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15415.0	NM_025429	66222.0	Mm.20144	NM_025429	ENSMUSG00000044734	Serpinb1a	1190005M04Rik|AI325983|EI|EIA|ELANH2|LEI|M/NEI|MNEI|PI2	serine (or cysteine) peptidase inhibitor, clade B, member 1a	protein-coding	5.0	9.5	9.0	128.0	13.0	8.0	4.0	10.5
Merged-chr4-130802958-4	chr4	130802806	130803006	+	786.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	10369.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	3.5	5.0	3.0	80.0	20.5	4.5	9.0	8.5
Merged-chr2-174477331-3	chr2	174477251	174477451	+	891.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4410.0	NM_025531	66390.0	Mm.182294	NM_025531	ENSMUSG00000016257	Prelid3b	2310042G06Rik|AA407013|Slmo2	PRELI domain containing 3B	protein-coding	3.0	10.0	4.5	90.0	20.5	5.5	7.0	9.0
Merged-chr2-152736226-4	chr2	152736107	152736307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010495)	promoter-TSS (NM_010495)	-44.0	NM_010495	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	137.5	200.5	112.0	1449.5	310.0	126.5	155.5	117.5
Merged-chr13-80883338-4	chr13	80883224	80883424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153410)	promoter-TSS (NR_153410)	-60.0	NR_153410	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	120.5	129.5	91.0	1265.0	331.5	94.0	122.5	116.0
Merged-chr12-4188388-4	chr12	4188296	4188496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 3 of 21)	intron (NM_001159537, intron 3 of 21)	45569.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	24.5	23.0	23.5	321.0	50.5	16.5	29.5	26.5
Merged-chr11-16988037-4	chr11	16987941	16988141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 5 of 9)	intron (NM_019549, intron 5 of 9)	20677.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	42.5	133.5	71.5	462.5	123.0	37.5	58.5	30.0
Merged-chr12-36032641-3	chr12	36032567	36032767	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	9811.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	25.5	20.5	24.0	565.0	8.0	4.5	3.0	2.0
Merged-chr17-42887631-4	chr17	42887525	42887725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11201.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	40.0	61.0	36.0	585.0	123.0	36.5	37.5	36.0
Merged-chr18-37969835-4	chr18	37969710	37969910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175684)	promoter-TSS (NM_175684)	-79.0	NM_175684	319262.0	Mm.285060	NM_175684	ENSMUSG00000038524	Fchsd1	A030002D08Rik	FCH and double SH3 domains 1	protein-coding	160.0	148.5	56.5	1258.5	273.5	78.0	131.0	95.0
Merged-chr3-9786808-4	chr3	9786698	9786898	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 1 of 7)	intron (NM_053182, intron 1 of 7)	46881.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	27.5	13.5	36.0	630.5	23.5	3.5	17.5	6.5
Merged-chr8-35540696-2	chr8	35540586	35540786	+	1000.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45153.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	0.0	1.0	0.0	18.5	69.0	27.5	20.5	32.0
Merged-chr2-150668051-5	chr2	150667925	150668125	+	858.1866460000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080575, exon 1 of 14)	exon (NM_080575, exon 1 of 14)	215.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	6.0	7.0	14.0	143.0	29.5	9.0	13.5	16.5
Merged-chr8-72217743-3	chr8	72217640	72217840	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-1990.0	NM_026455	67922.0	Mm.28327	NM_026455	ENSMUSG00000003039	Fam32a	2510049I19Rik|AW822030|OTAG-12|Otag12	family with sequence similarity 32, member A	protein-coding	11.0	24.0	7.5	76.5	5.0	0.0	1.0	6.0
Merged-chr5-89852962-4	chr5	89852888	89853088	+	941.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081401, intron 3 of 21)	intron (NM_001081401, intron 3 of 21)	30346.0	NM_177872	330119.0	Mm.133062	NM_177872	ENSMUSG00000043635	Adamts3	1100001H14Rik|6330442E02Rik	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 3	protein-coding	17.0	31.0	25.0	597.5	20.5	9.5	29.5	20.5
Merged-chr15-63888760-2	chr15	63888660	63888860	+	993.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_108053, intron 6 of 6)	intron (NR_108053, intron 6 of 6)	8053.0	NR_108053	665769.0	Mm.290602	NR_108053	ENSMUSG00000093867	Gsdmcl2	4921501E01Rik|4930453O09Rik|Gm7779	gasdermin C-like 2	pseudo	4.5	7.5	4.5	9.0	13.0	8.0	8.0	3.0
Merged-chr17-87796523-4	chr17	87796415	87796615	+	752.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199251, intron 1 of 1)	intron (NM_199251, intron 1 of 1)	1479.0	NM_199251	210741.0	Mm.312046	NM_199251	ENSMUSG00000050138	Kcnk12	mntk1	potassium channel, subfamily K, member 12	protein-coding	15.0	22.5	16.0	182.0	6.0	10.5	4.5	14.5
Merged-chr1-40790680-4	chr1	40790581	40790781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172499)	promoter-TSS (NM_172499)	-24.0	NM_172499	211798.0	Mm.235443	NM_172499	ENSMUSG00000041945	Mfsd9	4931419K03Rik	major facilitator superfamily domain containing 9	protein-coding	108.0	109.5	57.5	1660.5	178.0	70.5	87.5	75.5
Merged-chr2-128753618-4	chr2	128753496	128753696	+	867.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 6 of 18)	ID_B1|SINE|B4	54681.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	13.5	10.5	16.0	202.5	18.5	2.5	9.5	14.5
Merged-chr19-46606978-2	chr19	46606881	46607081	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177812, intron 2 of 4)	intron (NM_001177812, intron 2 of 4)	7875.0	NM_146099	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	1.5	2.5	4.5	24.0	35.5	6.5	6.5	10.0
Merged-chr2-166270218-3	chr2	166270094	166270294	+	768.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-3714.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	6.0	1.0	6.0	101.5	11.0	5.0	4.5	9.5
Merged-chr17-56462414-6	chr17	56462325	56462525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252456)	promoter-TSS (NM_001252456)	-204.0	NM_001252456	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	61.5	74.5	52.0	843.0	131.0	41.0	46.0	71.5
Merged-chr12-110485309-4	chr12	110485190	110485390	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012023)	promoter-TSS (NM_012023)	-449.0	NM_001081457	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	15.0	10.0	9.0	100.5	22.5	9.5	5.5	8.0
Merged-chr1-45861781-4	chr1	45861695	45861895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63799.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	33.5	23.0	46.5	676.0	50.0	8.5	31.0	30.0
Merged-chr4-89294767-4	chr4	89294690	89294890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009877)	promoter-TSS (NM_009877)	-171.0	NM_009877	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	40.0	53.0	33.5	609.5	43.0	20.0	33.0	30.0
Merged-chr8-126590236-4	chr8	126590125	126590325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164598, exon 2 of 2)	3' UTR (NM_001164598, exon 2 of 2)	3211.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	54.0	62.5	85.0	1011.0	131.0	38.0	62.5	56.5
Merged-chr10-94919521-5	chr10	94919479	94919679	+	907.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 2 of 30)	intron (NM_018797, intron 2 of 30)	24999.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	9.5	13.0	22.0	208.5	39.0	17.0	18.5	22.5
Merged-chr9-114390353-6	chr9	114390131	114390331	+	864.0793460000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019922, exon 1 of 7)	exon (NM_019922, exon 1 of 7)	481.0	NM_019922	56693.0	Mm.20904	NM_019922	ENSMUSG00000032431	Crtap	5730529N23Rik|CASP|Leprel3|P3h5	cartilage associated protein	protein-coding	8.5	6.0	6.0	91.0	15.5	4.5	12.0	18.5
Merged-chr10-61143505-4	chr10	61143430	61143630	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 2 of 14)	intron (NM_009163, intron 2 of 14)	4154.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	26.0	23.0	12.5	561.0	44.5	21.5	17.0	21.0
Merged-chr10-21809708-4	chr10	21809561	21809761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72523.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	33.0	53.5	41.0	523.0	122.5	28.0	55.0	36.0
Merged-chr2-164360447-4	chr2	164360347	164360547	+	796.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3940.0	NM_011414	20568.0	Mm.371583	NM_011414	ENSMUSG00000017002	Slpi	ALP	secretory leukocyte peptidase inhibitor	protein-coding	11.0	14.0	5.0	95.5	38.5	8.5	5.5	1.5
Merged-chr13-104285111-4	chr13	104285003	104285203	+	912.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2732.0	NR_136938	108154.0	Mm.208125	NM_175496	ENSMUSG00000046169	Adamts6	A930019D11Rik|ADAM-TS6|b2b1879.1Clo|b2b2029Clo|b2b2182Clo|b2b2187.1Clo|b2b2228Clo	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	protein-coding	9.5	17.0	14.5	182.0	34.5	13.5	16.0	16.0
Merged-chr2-173229737-4	chr2	173229654	173229854	+	902.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022995, intron 2 of 3)	intron (NM_022995, intron 2 of 3)	-10832.0	NM_001139519	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	8.0	10.5	7.5	155.5	18.5	5.0	13.5	15.0
Merged-chr6-90606798-4	chr6	90606708	90606908	+	867.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027868, intron 1 of 10)	intron (NM_027868, intron 1 of 10)	1928.0	NM_027868	71699.0	Mm.272633	NM_027868	ENSMUSG00000030089	Slc41a3	1010001P06Rik|AI480742|SLC41A1-L2	solute carrier family 41, member 3	protein-coding	13.0	5.5	6.5	124.0	12.5	13.0	17.0	12.0
Merged-chr3-95818817-4	chr3	95818657	95818857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081293, exon 1 of 11)	5' UTR (NM_001081293, exon 1 of 11)	196.0	NM_001081293	75137.0	Mm.196275	NM_028328	ENSMUSG00000028106	Rprd2	2810036A19Rik|4930535B03Rik|6720469I21Rik|AL022841|AL022940|AU021304|BB077382|mKIAA0460	regulation of nuclear pre-mRNA domain containing 2	protein-coding	17.5	23.0	7.0	150.0	44.5	17.0	20.5	18.5
Merged-chr8-122551491-6	chr8	122551419	122551619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357349)	promoter-TSS (NM_001357349)	-190.0	NM_001357349	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	60.5	108.0	109.0	835.0	127.5	57.5	40.5	57.5
Merged-chr13-37825974-4	chr13	37825869	37826069	+	951.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033615)	promoter-TSS (NR_033615)	-69.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	15.0	23.5	21.0	192.5	16.0	17.5	10.0	17.0
Merged-chr8-26698746-4	chr8	26698681	26698881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125642.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	199.5	256.0	239.5	2966.0	544.0	192.5	221.0	168.5
Merged-chr1-65227882-4	chr1	65227778	65227978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310624, intron 12 of 41)	intron (NM_001310624, intron 12 of 41)	41193.0	NM_011086	18711.0	Mm.38370	NM_011086	ENSMUSG00000025949	Pikfyve	5230400C17Rik|Pip5k|Pip5k3|Pipk5k3|PipkIII|p235	phosphoinositide kinase, FYVE type zinc finger containing	protein-coding	62.5	66.0	109.0	2097.0	100.0	30.0	50.5	62.5
Merged-chr6-92067349-4	chr6	92067213	92067413	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172731, intron 14 of 20)	intron (NM_172731, intron 14 of 20)	-24105.0	NM_011630	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	4.5	15.0	7.0	127.0	26.0	8.0	12.0	10.0
Merged-chr5-138171996-4	chr5	138171899	138172099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021392)	promoter-TSS (NM_021392)	-22.0	NM_021392	11781.0	Mm.113205	NM_021392	ENSMUSG00000019518	Ap4m1	4930443L05Rik|Ap4m4	adaptor-related protein complex AP-4, mu 1	protein-coding	154.0	258.5	147.0	2023.5	411.5	153.0	158.5	157.5
Merged-chr5-100557215-4	chr5	100557120	100557320	+	952.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 3 of 4)	intron (NM_139198, intron 3 of 4)	14985.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	8.5	12.5	16.5	265.0	164.0	59.0	78.5	61.5
Merged-chr11-11547219-3	chr11	11547083	11547283	+	922.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57917.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	0.0	0.0	1.0	6.0	53.5	8.5	17.5	12.0
Merged-chr12-102456237-1	chr12	102456137	102456337	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-12897.0	NM_001199004	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	7.0	21.0	20.5	207.0	25.5	12.5	19.0	19.5
Merged-chr5-120167940-4	chr5	120167812	120168012	+	904.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028762, intron 21 of 23)	intron (NM_028762, intron 21 of 23)	-28649.0	NR_045793	100503427.0	Mm.446834	NR_045793	ENSMUSG00000097368	Gm10390	-	predicted gene 10390	ncRNA	16.0	34.0	14.5	103.0	24.0	13.5	12.0	10.5
Merged-chr8-85119706-2	chr8	85119595	85119795	+	828.375	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_001357366)	promoter-TSS (NM_001357366)	-4.0	NM_001357366	244556.0	Mm.334682	NM_001037745	ENSMUSG00000074194	Zfp791	EG244556	zinc finger protein 791	protein-coding	7.5	14.5	10.0	92.5	14.0	3.5	13.5	7.5
Merged-chr1-156036501-4	chr1	156036397	156036597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160018)	promoter-TSS (NM_001160018)	-17.0	NM_001160018	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	118.5	178.0	113.0	1610.0	373.0	157.0	193.5	173.5
Merged-chr3-104092957-4	chr3	104092855	104093055	+	916.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133853, intron 3 of 21)	intron (NM_133853, intron 3 of 21)	-124639.0	NR_030676	100125931.0	Mm.400392	NR_030676	ENSMUSG00000089998	Phtf1os	A130049A11Rik	putative homeodomain transcription factor 1, opposite strand	ncRNA	30.5	60.5	51.5	503.5	30.0	12.5	12.5	4.5
Merged-chr2-157036509-3	chr2	157036435	157036635	+	829.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 6 of 14)	MIR3|SINE|MIR	-29460.0	NM_025853	66934.0	Mm.25410	NM_025853	ENSMUSG00000027635	Dsn1	1700022L09Rik|AW552447	DSN1 homolog, MIS12 kinetochore complex component	protein-coding	9.5	18.0	6.0	97.5	14.0	6.0	3.0	2.5
Merged-chr5-137705457-2	chr5	137705357	137705557	+	879.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-20704.0	NM_001303266	231801.0	Mm.260869	NM_145566	ENSMUSG00000029722	Agfg2	A630095P14Rik|Hrbl|RAB-R|RABR	ArfGAP with FG repeats 2	protein-coding	9.5	10.5	12.0	57.0	5.0	2.5	3.0	0.0
Merged-chr12-57243826-3	chr12	57243728	57243928	+	777.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	ORR1B1|LTR|ERVL-MaLR	13403.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	11.0	9.0	10.5	98.0	15.0	9.5	6.5	7.0
Merged-chr12-103493030-4	chr12	103492926	103493126	+	847.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35803.0	NM_145449	217845.0	Mm.298416	NM_145449	ENSMUSG00000021208	Ifi27l2b	1810023F06Rik|ISG12(b2)	interferon, alpha-inducible protein 27 like 2B	protein-coding	13.0	12.5	1.5	111.5	31.5	14.0	11.0	18.5
Merged-chr2-128065752-4	chr2	128065651	128065851	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 14 of 17)	RLTR16|LTR|ERVK	-60287.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	17.5	31.5	14.5	293.5	77.0	19.5	22.5	19.0
Merged-chr19-45783661-4	chr19	45783571	45783771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151594)	promoter-TSS (NR_151594)	-118.0	NM_023799	76055.0	Mm.122725	NM_023799	ENSMUSG00000025220	Mgea5	Hy5|Ncoat|OGA	meningioma expressed antigen 5 (hyaluronidase)	protein-coding	188.5	352.5	181.0	2608.0	499.5	236.0	236.0	217.5
Merged-chr11-20068577-2	chr11	20068494	20068694	+	700.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_146243, intron 8 of 8)	intron (NM_146243, intron 8 of 8)	44357.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	9.0	5.5	4.5	149.0	14.5	1.0	5.0	4.0
Merged-chr17-70992936-4	chr17	70992828	70993028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357820)	TTS (NM_001357820)	-2412.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	24.0	34.5	10.5	274.0	74.5	19.5	25.0	25.5
Merged-chr5-121564595-4	chr5	121564500	121564700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18708.0	NM_010765	17165.0	Mm.272206	NM_010765	ENSMUSG00000029454	Mapkapk5	MK5|PRAK	MAP kinase-activated protein kinase 5	protein-coding	28.0	54.5	20.5	361.5	72.5	29.0	39.0	21.5
Merged-chr7-99407773-4	chr7	99407667	99407867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362166, intron 3 of 18)	intron (NM_001362166, intron 3 of 18)	26249.0	NM_001362166	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	47.0	53.0	36.5	744.5	69.5	34.5	47.0	30.5
Merged-chr6-140817030-4	chr6	140816927	140817127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_A_Mam|LINE|RTE-X	190142.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	75.0	78.5	58.0	984.0	249.5	83.5	91.5	71.5
Merged-chr9-108263914-4	chr9	108263827	108264027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276481)	promoter-TSS (NM_001276481)	31.0	NM_001276486	13138.0	Mm.7524	NM_010017	ENSMUSG00000039952	Dag1	D9Wsu13e|DG|Dp427|Dp71	dystroglycan 1	protein-coding	231.5	270.5	218.5	2805.5	538.0	202.0	243.5	162.0
Merged-chr3-27275399-4	chr3	27275288	27275488	+	907.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-41689.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	10.0	28.0	10.5	264.0	48.0	11.5	14.0	26.0
Merged-chr4-43960501-4	chr4	43960413	43960613	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 1 of 4)	B4A|SINE|B4	2811.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	16.5	28.5	11.0	144.5	44.0	20.0	28.5	27.0
Merged-chr2-164075239-4	chr2	164075143	164075343	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021420, intron 1 of 10)	intron (NM_021420, intron 1 of 10)	1065.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	20.0	35.0	23.5	310.5	48.5	16.5	25.5	16.0
Merged-chr19-16139876-4	chr19	16139759	16139959	+	931.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	intron (NM_008139, intron 1 of 6)	7028.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	11.5	25.5	13.5	147.5	35.5	11.5	12.5	5.5
Merged-chr1-166171403-4	chr1	166171319	166171519	+	851.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41198.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	14.0	32.5	10.0	210.5	28.0	8.0	13.5	11.5
Merged-chr11-114983315-3	chr11	114983187	114983387	+	601.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145437, exon 4 of 4)	3' UTR (NM_145437, exon 4 of 4)	6599.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	6.0	20.0	6.5	72.5	0.5	0.0	0.5	2.5
Merged-chr1-86389435-4	chr1	86389329	86389529	+	809.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001319227)	promoter-TSS (NM_001319227)	-68.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	7.5	12.5	1.0	48.0	21.5	7.0	4.5	12.5
Merged-chr6-85433676-2	chr6	85433544	85433744	+	629.0	f0_balb.idr|f0_c57.idr	intron (NM_144918, intron 1 of 12)	intron (NM_144918, intron 1 of 12)	1668.0	NM_144918	232187.0	Mm.219946	NM_144918	ENSMUSG00000033706	Smyd5	AW536703|NN8-4AG|Rai15|Rrg1	SET and MYND domain containing 5	protein-coding	3.0	7.0	2.5	65.5	21.0	6.5	8.5	13.0
Merged-chr11-84828385-4	chr11	84828306	84828506	+	932.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046281)	promoter-TSS (NR_046281)	597.0	NM_177564	192970.0	Mm.192213	NM_177564	ENSMUSG00000034449	Dhrs11	-	dehydrogenase/reductase (SDR family) member 11	protein-coding	7.0	13.5	8.5	104.5	27.0	3.5	6.0	12.5
Merged-chr3-135211968-4	chr3	135211796	135211996	+	887.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173762)	promoter-TSS (NM_173762)	-667.0	NM_173762	229841.0	Mm.161470	NM_173762	ENSMUSG00000045328	Cenpe	312kDa|AU019344|BC049989|C530022J18|CENP-E|Kif10	centromere protein E	protein-coding	11.5	11.0	14.0	142.5	13.5	9.5	10.5	20.5
Merged-chr2-173659702-4	chr2	173659604	173659804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027957)	promoter-TSS (NR_027957)	-141.0	NM_024436	19334.0	Mm.275304	NM_024436	ENSMUSG00000027519	Rab22a	3732413A17Rik|AI662177|AW319644|AW550514|E130120E14Rik|Rab22	RAB22A, member RAS oncogene family	protein-coding	286.5	469.5	270.0	3114.5	823.0	387.5	345.0	279.0
Merged-chr4-143288631-3	chr4	143288549	143288749	+	969.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010329, intron 1 of 5)	intron (NM_010329, intron 1 of 5)	10915.0	NM_010329	14726.0	Mm.2976	NM_010329	ENSMUSG00000028583	Pdpn	E11|Gp38|OTS-8|RANDAM-2|T1-alpha|T1a|T1alpha	podoplanin	protein-coding	10.5	17.5	16.5	150.5	3.0	5.5	4.5	5.0
Merged-chr7-63908863-4	chr7	63908750	63908950	+	907.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-8007.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	11.0	16.5	13.0	102.5	33.0	9.0	10.0	2.5
Merged-chr1-119504823-4	chr1	119504716	119504916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022327)	promoter-TSS (NM_022327)	-34.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	279.5	341.0	291.5	4314.0	587.5	244.5	313.5	268.5
Merged-chr7-101366560-4	chr7	101366447	101366647	+	876.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	-11575.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	11.0	31.0	15.0	100.5	36.5	15.0	8.0	10.5
Merged-chr18-14813192-3	chr18	14813117	14813317	+	674.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001100449, exon 7 of 15)	exon (NM_001100449, exon 7 of 15)	29972.0	NM_001100449	72504.0	Mm.312233	NM_001100449	ENSMUSG00000054321	Taf4b	105kDa|2610524B04Rik|4932409F03Rik|AW987595|TAFII-105|TAFII105|Taf2c2	TATA-box binding protein associated factor 4b	protein-coding	6.5	5.0	5.5	152.5	7.0	4.0	4.5	1.0
Merged-chr4-155068165-4	chr4	155068070	155068270	+	985.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042407, intron 2 of 5)	intron (NM_001042407, intron 2 of 5)	1140.0	NM_001042407	668173.0	Mm.133114	NM_001042407	ENSMUSG00000029047	Pex10	AV128229|Gm142	peroxisomal biogenesis factor 10	protein-coding	37.0	33.0	12.0	321.5	77.5	32.5	32.5	31.0
Merged-chr15-83096116-3	chr15	83096013	83096213	+	655.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4092.0	NM_023475	68607.0	Mm.30056	NM_023475	ENSMUSG00000058586	Serhl	0610008B10Rik|1110019M09Rik|AU019786	serine hydrolase-like	protein-coding	9.5	9.0	5.0	74.5	17.0	5.5	7.0	6.5
Merged-chr15-79357713-4	chr15	79357606	79357806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001304830, exon 3 of 3)	exon (NM_001304830, exon 3 of 3)	9304.0	NM_001304832	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	44.5	96.5	30.0	550.0	329.5	156.0	131.5	156.0
Merged-chr6-8617548-2	chr6	8617448	8617648	+	756.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97490.0	NM_001286729	170772.0	Mm.210787	NM_133236	ENSMUSG00000029638	Glcci1	2310047L21Rik|A130036A18Rik|Fam117c|Gig18|Tssn1	glucocorticoid induced transcript 1	protein-coding	3.0	0.0	2.5	47.0	6.5	6.5	10.5	7.5
Merged-chr5-139398562-4	chr5	139398456	139398656	+	905.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	-7831.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	11.5	32.0	6.0	160.5	51.5	17.0	16.0	16.5
Merged-chr1-86417142-4	chr1	86417052	86417252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-9177.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	80.5	110.5	84.0	1392.5	188.0	58.0	108.5	79.5
Merged-chr2-38509200-3	chr2	38509104	38509304	+	811.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2493.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	7.0	5.5	4.5	90.5	11.5	2.5	0.5	7.0
Merged-chr11-69558849-4	chr11	69558756	69558956	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007911, intron 1 of 4)	intron (NM_007911, intron 1 of 4)	1381.0	NM_007911	13643.0	Mm.249637	NM_007911	ENSMUSG00000003934	Efnb3	EFL-6|ELF-3|Elk-L3|Epl8|LERK-8|NLERK-2	ephrin B3	protein-coding	5.5	11.0	28.0	144.0	23.5	8.0	5.0	20.0
Merged-chr9-60478159-3	chr9	60478062	60478262	+	701.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040426, intron 3 of 17)	intron (NM_001040426, intron 3 of 17)	32873.0	NM_001040426	207596.0	Mm.28791	NM_172444	ENSMUSG00000032289	Thsd4	ADAMTSL-6|ADAMTSL6|AI585901|Adamtsl4|B230114P05Rik	thrombospondin, type I, domain containing 4	protein-coding	4.5	8.0	10.0	130.5	12.5	5.0	14.0	10.0
Merged-chr7-142396760-4	chr7	142396681	142396881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8911.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	23.0	43.0	36.5	280.0	84.0	32.5	24.0	41.0
Merged-chr11-101952931-4	chr11	101952819	101953019	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045806, intron 1 of 3)	intron (NR_045806, intron 1 of 3)	498.0	NR_045806	73887.0	Mm.159084	NR_045806	ENSMUSG00000071818	4930417O22Rik	-	RIKEN cDNA 4930417O22 gene	ncRNA	32.5	43.5	13.5	622.0	66.0	16.0	40.0	23.5
Merged-chr2-26237448-4	chr2	26237280	26237480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302956)	promoter-TSS (NM_001302956)	19.0	NM_153559	227638.0	Mm.116769	NM_153559	ENSMUSG00000036327	Qsox2	BC030934|Qscn6l1|Soxn	quiescin Q6 sulfhydryl oxidase 2	protein-coding	68.0	78.0	44.5	563.0	136.5	57.0	52.0	51.5
Merged-chr6-40435246-3	chr6	40435229	40435429	+	986.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356375, intron 1 of 8)	CpG	806.0	NM_001356375	243780.0	Mm.333006	NM_175528	ENSMUSG00000037172	E330009J07Rik	AI841796|Lchn|mKIAA1147	RIKEN cDNA E330009J07 gene	protein-coding	3.5	14.0	24.0	110.0	13.5	5.0	6.0	4.5
Merged-chr2-103982421-2	chr2	103982312	103982512	+	610.0	f0_balb.idr|f0_c57.idr	TTS (NM_001142337)	TTS (NM_001142337)	12125.0	NM_001142335	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	13.0	20.0	4.0	96.5	30.0	9.5	18.0	11.0
Merged-chr7-3825756-1	chr7	3825656	3825856	+	662.333313	f0_c57.idr	intron (NM_001289428, intron 11 of 12)	intron (NM_001289428, intron 11 of 12)	19295.0	NM_011089	18725.0	Mm.482470	NM_011089	ENSMUSG00000089942	Pira2	6M23	paired-Ig-like receptor A2	protein-coding	0.5	0.0	0.0	0.0	24.0	9.0	13.0	11.0
Merged-chr16-84735309-4	chr16	84735181	84735381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017404)	promoter-TSS (NM_017404)	21.0	NM_017404	27393.0	Mm.103655	NM_017404	ENSMUSG00000022889	Mrpl39	C21orf8|MRP-L5|ORF22|Rpml5	mitochondrial ribosomal protein L39	protein-coding	123.0	136.5	105.0	1945.5	348.5	154.0	217.0	186.5
Merged-chr1-173447336-2	chr1	173447234	173447434	+	959.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	L1MC1|LINE|L1	26730.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	4.5	5.0	5.5	190.0	21.5	4.0	5.5	1.5
Merged-chr10-128094813-4	chr10	128094714	128094914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 1 of 29)	intron (NM_054078, intron 1 of 29)	2031.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	55.5	95.5	29.5	940.0	163.0	79.5	76.5	61.5
Merged-chr1-133033977-7	chr1	133033788	133033988	+	944.7698359999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3301.0	NM_001302802	17248.0	Mm.426531	NM_008575	ENSMUSG00000054387	Mdm4	4933417N07Rik|AA414968|AL023055|AU018793|AU021806|C85810|Mdmx	transformed mouse 3T3 cell double minute 4	protein-coding	14.0	28.5	12.5	178.0	61.5	15.5	20.0	20.5
Merged-chr11-69033885-5	chr11	69033804	69034004	+	836.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281465, intron 17 of 22)	intron (NM_001281465, intron 17 of 22)	-11733.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	10.5	5.0	11.5	188.5	17.0	6.0	3.5	3.5
Merged-chr5-12206171-4	chr5	12206069	12206269	+	920.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-176997.0	NM_028882	108151.0	Mm.89313	NM_028882	ENSMUSG00000040254	Sema3d	4631426B19Rik	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	protein-coding	7.5	14.0	21.5	479.5	23.5	12.0	14.5	20.0
Merged-chr15-74528273-3	chr15	74528198	74528398	+	682.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359759, intron 1 of 30)	MIR|SINE|MIR	12102.0	NM_001359759	107831.0	Mm.43133	NM_174991	ENSMUSG00000034730	Adgrb1	B830018M07Rik|Bai1|R75078|mKIAA4089	adhesion G protein-coupled receptor B1	protein-coding	4.5	8.0	8.5	102.0	4.5	3.0	5.5	7.5
Merged-chr7-34920003-2	chr7	34919903	34920103	+	863.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 1 of 14)	intron (NM_008820, intron 1 of 14)	7596.0	NM_008820	18624.0	Mm.69751	NM_008820	ENSMUSG00000063931	Pepd	Pep-4|Pep4|dal	peptidase D	protein-coding	2.5	6.0	2.5	51.0	12.0	6.0	7.5	11.0
Merged-chr6-127258872-4	chr6	127258765	127258965	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49102.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	24.0	27.0	32.0	567.0	43.0	27.5	23.0	19.5
Merged-chr19-47050802-2	chr19	47050702	47050902	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_027654, exon 1 of 10)	exon (NM_027654, exon 1 of 10)	104.0	NM_001360632	71041.0	Mm.35413	NM_027654	ENSMUSG00000025050	Pcgf6	4933407A11Rik|AI604840|MBLR|Rnf134	polycomb group ring finger 6	protein-coding	5.5	5.5	6.0	39.0	13.5	4.0	2.0	5.0
Merged-chr7-100853519-4	chr7	100853388	100853588	+	860.4464109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	9925.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	15.0	8.0	7.5	178.5	19.5	6.0	5.0	9.0
Merged-chr7-30535164-4	chr7	30535072	30535272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178252)	promoter-TSS (NM_178252)	-112.0	NM_001289682	233071.0	Mm.190704	NM_178252	ENSMUSG00000036882	Arhgap33	AW324378|NOMA-GAP|Snx26|TCGAP	Rho GTPase activating protein 33	protein-coding	87.5	169.5	96.5	1430.5	225.5	124.0	125.0	82.5
Merged-chr16-46497313-5	chr16	46497217	46497417	+	782.549988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021497)	promoter-TSS (NM_021497)	-350.0	NM_021497	58998.0	Mm.40477	NM_021495	ENSMUSG00000022656	Nectin3	2610301B19Rik|3000002N23Rik|4921513D19Rik|AA407785|AU016832|AW538082|CD113|Pvrl3	nectin cell adhesion molecule 3	protein-coding	5.0	14.0	12.5	117.0	10.5	2.0	1.0	5.0
Merged-chr2-71660828-4	chr2	71660736	71660936	+	837.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	Arthur1|DNA|hAT-Tip100	-58581.0	NR_037979	381371.0	Mm.330284	NM_201366	ENSMUSG00000064263	Platr26	Gm1631	pluripotency associated transcript 26	ncRNA	9.0	8.5	10.5	106.5	25.5	4.5	11.0	5.5
Merged-chr2-118549799-4	chr2	118549704	118549904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138313)	promoter-TSS (NM_138313)	-118.0	NM_138313	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	150.5	284.0	135.0	1811.5	299.0	129.0	143.0	110.5
Merged-chr13-117311699-4	chr13	117311582	117311782	+	868.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91109.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	9.0	13.0	4.5	137.0	26.5	10.5	13.5	1.5
Merged-chr2-30474277-4	chr2	30474179	30474379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030244)	promoter-TSS (NM_030244)	-80.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	48.5	69.0	41.0	473.0	135.5	40.5	44.0	32.0
Merged-chr6-39680810-4	chr6	39680702	39680902	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139294, intron 2 of 21)	Lx7|LINE|L1	44661.0	NM_139294	109880.0	Mm.245513	NM_139294	ENSMUSG00000002413	Braf	9930012E13Rik|AA120551|AA387315|AA473386|B-raf|Braf-2|Braf2|C230098H17|C87398|D6Ertd631e	Braf transforming gene	protein-coding	15.5	29.5	22.0	320.0	74.0	14.0	17.5	23.0
Merged-chr17-32350671-4	chr17	32350569	32350769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017476)	promoter-TSS (NM_017476)	-92.0	NM_017476	54194.0	Mm.281005	NM_017476	ENSMUSG00000002625	Akap8l	HAP95|Nakap95	A kinase (PRKA) anchor protein 8-like	protein-coding	212.0	296.0	175.0	3053.0	476.5	160.5	198.0	162.0
Merged-chr5-96206902-4	chr5	96206805	96207005	+	819.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3210.0	NM_001039084	94061.0	Mm.295499	NM_053158	ENSMUSG00000029486	Mrpl1	2410002L03Rik|5830418D04Rik|AI462572|L1mt	mitochondrial ribosomal protein L1	protein-coding	14.5	9.0	11.5	199.5	24.0	8.5	2.0	14.5
Merged-chr5-92353757-4	chr5	92353673	92353873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-4884.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	62.0	152.0	68.5	749.5	248.0	89.0	95.5	47.0
Merged-chr6-43266610-4	chr6	43266500	43266700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133674, intron 1 of 14)	intron (NM_133674, intron 1 of 14)	956.0	NM_133674	54324.0	Mm.320978	NM_133674	ENSMUSG00000033542	Arhgef5	2210412D05Rik|AA717842|AW495314|Tim1	Rho guanine nucleotide exchange factor (GEF) 5	protein-coding	22.0	45.0	29.0	584.0	80.0	21.0	29.5	30.5
Merged-chr9-107280402-3	chr9	107280268	107280468	+	998.5238039999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316691, intron 1 of 7)	intron (NM_001316691, intron 1 of 7)	9028.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	7.0	5.5	16.5	54.0	51.5	19.0	16.0	21.0
Merged-chr15-87074576-8	chr15	87074496	87074696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-469703.0	NM_001252310	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	26.5	27.5	28.5	279.5	52.5	27.0	18.5	24.0
Merged-chr18-30444850-4	chr18	30444725	30444925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	171960.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	76.5	54.5	60.0	998.0	127.5	42.0	64.0	50.5
Merged-chr7-110999640-4	chr7	110999557	110999757	+	945.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17196.0	NM_194464	17540.0	Mm.250023	NM_010826	ENSMUSG00000005611	Mrvi1	BB115629|Irag|Ris1	MRV integration site 1	protein-coding	16.0	33.0	14.0	162.5	21.0	13.5	14.5	7.0
Merged-chr4-140902570-3	chr4	140902455	140902655	+	677.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3805.0	NM_008812	18600.0	Mm.2296	NM_008812	ENSMUSG00000028927	Padi2	Pdi|Pdi2|mKIAA0994	peptidyl arginine deiminase, type II	protein-coding	5.5	4.0	4.0	76.5	14.5	7.5	6.0	11.5
Merged-chr16-75869497-4	chr16	75869399	75869599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 7 of 7)	intron (NM_023380, intron 7 of 7)	39767.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	31.0	42.0	17.5	334.5	93.0	21.5	40.0	11.0
Merged-chr5-105730733-3	chr5	105730617	105730817	+	852.322205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	MIRb|SINE|MIR	29907.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	12.5	17.5	12.5	183.0	10.0	4.0	10.0	12.0
Merged-chr19-5837696-4	chr19	5837594	5837794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131212, exon 1 of 1)	non-coding (NR_131212, exon 1 of 1)	7784.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	60.5	65.0	45.0	795.5	75.0	22.5	38.5	32.5
Merged-chr4-137048762-4	chr4	137048635	137048835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198248)	promoter-TSS (NM_198248)	-40.0	NM_198248	230848.0	Mm.31068	NM_198248	ENSMUSG00000060862	Zbtb40	BC059177|C230087D24|Gm571|mKIAA0478	zinc finger and BTB domain containing 40	protein-coding	16.0	47.0	22.0	253.0	78.0	35.5	21.5	26.5
Merged-chr19-37508174-4	chr19	37508073	37508273	+	919.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42245.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	6.0	16.0	14.0	182.0	33.5	15.5	20.0	11.0
Merged-chr7-97906091-3	chr7	97906000	97906200	+	859.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357362, intron 14 of 15)	ORR1D2|LTR|ERVL-MaLR	-13858.0	NM_177696	233537.0	Mm.375772	NM_177696	ENSMUSG00000035582	Gdpd4	4921513O04	glycerophosphodiester phosphodiesterase domain containing 4	protein-coding	6.5	0.0	0.0	0.0	51.0	15.5	27.5	25.0
Merged-chr19-53449368-4	chr19	53449290	53449490	+	854.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028427, exon 5 of 10)	non-coding (NR_028427, exon 5 of 10)	15406.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	29.5	33.0	12.5	353.5	5.0	1.0	3.0	1.5
Merged-chr19-33391991-8	chr19	33391897	33392097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001167818, exon 1 of 7)	5' UTR (NM_001167818, exon 1 of 7)	298.0	NM_001167818	67795.0	Mm.204591	NM_001146342	ENSMUSG00000071573	Rnls	6530404N21Rik|AI452315|AW060440|C10orf59	renalase, FAD-dependent amine oxidase	protein-coding	44.0	66.5	54.5	689.5	87.0	43.0	37.5	63.0
Merged-chr3-65397397-4	chr3	65397292	65397492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4839.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	57.0	44.0	32.5	869.0	81.0	34.5	34.5	24.0
Merged-chr3-103212379-4	chr3	103212304	103212504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D2_MM|LTR|ERV1	40749.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	27.5	50.0	32.0	267.5	125.0	41.0	57.0	26.5
Merged-chr10-13837875-4	chr10	13837782	13837982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 1 of 5)	intron (NM_025446, intron 1 of 5)	31075.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	146.5	193.5	219.0	3213.0	138.5	46.0	66.0	66.5
Merged-chr4-138943914-4	chr4	138943826	138944026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-23186.0	NM_025786	66825.0	Mm.252312	NM_025786	ENSMUSG00000070661	Rnf186	9130020G10Rik	ring finger protein 186	protein-coding	39.0	55.0	25.0	669.5	149.5	46.5	61.0	71.0
Merged-chr7-45019103-6	chr7	45019003	45019203	+	855.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360132)	promoter-TSS (NM_001360132)	-367.0	NM_001360132	20130.0	Mm.389894	NM_009101	ENSMUSG00000038387	Rras	AI573426	related RAS viral (r-ras) oncogene	protein-coding	10.0	2.5	5.0	64.5	18.0	5.0	4.5	13.0
Merged-chr13-55622972-4	chr13	55622883	55623083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007596)	promoter-TSS (NM_007596)	-22.0	NM_007596	12328.0	Mm.2313	NM_007596	ENSMUSG00000021501	Caml	AI385748|Camlg	calcium modulating ligand	protein-coding	40.0	41.0	11.0	433.0	125.5	48.0	41.5	44.5
Merged-chr6-120091106-4	chr6	120090994	120091194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2286.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	64.0	74.5	52.0	1222.0	133.5	38.5	56.0	55.5
Merged-chr1-165697723-4	chr1	165697638	165697838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	10356.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	55.0	68.0	60.0	1034.0	103.5	47.5	74.5	49.5
Merged-chr18-3891059-4	chr18	3890954	3891154	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-274778.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	32.0	22.0	21.5	357.0	81.5	33.5	42.0	25.5
Merged-chr2-30829603-4	chr2	30829511	30829711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1311.0	NM_133346	72323.0	Mm.27656	NM_133346	ENSMUSG00000039483	Asb6	2510004M11Rik|AA409356	ankyrin repeat and SOCS box-containing 6	protein-coding	19.5	48.5	33.0	216.0	64.0	26.5	34.5	26.5
Merged-chr11-5949765-4	chr11	5949693	5949893	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010292, exon 1 of 10)	5' UTR (NM_010292, exon 1 of 10)	288.0	NM_010292	103988.0	Mm.220358	NM_010292	ENSMUSG00000041798	Gck	GLK|Gk|Gls006|HK4|HKIV|HXKP|Hlb62|MODY2	glucokinase	protein-coding	28.5	31.5	30.5	292.0	56.5	16.0	19.5	31.5
Merged-chr13-44923062-3	chr13	44922957	44923157	+	769.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 9 of 9)	intron (NM_025772, intron 9 of 9)	79039.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	9.5	11.0	5.5	119.0	10.0	3.5	9.0	2.0
Merged-chr7-80084700-3	chr7	80084568	80084768	+	933.177795	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 2 of 4)	intron (NM_175433, intron 2 of 4)	-9411.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	13.0	12.0	8.5	147.5	20.0	8.0	7.5	11.0
Merged-chr7-101840125-4	chr7	101840028	101840228	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001303239, exon 6 of 6)	3' UTR (NM_001303239, exon 6 of 6)	-1902.0	NM_010567	16332.0	Mm.476000	NM_010567	ENSMUSG00000032737	Inppl1	51C|SHIP2	inositol polyphosphate phosphatase-like 1	protein-coding	25.0	27.0	25.5	402.5	61.5	12.0	31.0	34.0
Merged-chr1-60657244-4	chr1	60657143	60657343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89145.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	47.0	68.0	59.0	912.0	113.5	29.0	54.5	56.5
Merged-chr12-80939360-4	chr12	80939303	80939503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	5996.0	NR_045057	100504661.0	Mm.442322	NR_045057	ENSMUSG00000112880	Gm20337	-	predicted gene, 20337	ncRNA	45.5	57.5	38.0	598.0	114.0	44.5	48.5	45.0
Merged-chr9-106428854-4	chr9	106428791	106428991	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324534)	promoter-TSS (NM_001324534)	-520.0	NM_001324533	19944.0	Mm.288696	NM_009082	ENSMUSG00000048758	Rpl29	Rpl43	ribosomal protein L29	protein-coding	2.5	22.5	5.5	173.0	100.5	33.5	23.5	31.5
Merged-chr9-120140809-4	chr9	120140692	120140892	+	918.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8950.0	NR_153960	17433.0	Mm.432562	NM_008614	ENSMUSG00000032517	Mobp	AI835053|AI839848|MOBP155|MOBP170|MOBP69|MOBP73|MOBP81|R74645	myelin-associated oligodendrocytic basic protein	protein-coding	12.0	21.5	4.5	63.0	28.0	14.0	15.5	17.5
Merged-chr16-84985586-1	chr16	84985486	84985686	+	747.0	f0_balb.idr	intron (NM_001198825, intron 12 of 15)	ORR1E|LTR|ERVL-MaLR	13375.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	4.5	6.5	10.0	124.0	1.5	2.0	6.5	3.5
Merged-chr3-130709716-4	chr3	130709605	130709805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025509)	promoter-TSS (NM_025509)	-261.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	57.5	88.0	42.5	660.5	149.5	49.0	81.5	80.0
Merged-chr18-4353005-4	chr18	4352898	4353098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040328)	promoter-TSS (NR_040328)	-45.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	211.5	322.0	192.5	2656.0	556.0	220.0	274.0	175.5
Merged-chr4-102515165-4	chr4	102515050	102515250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-54910.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	0.0	38.0	0.0	630.0	130.0	54.5	77.0	50.0
Merged-chr1-127270647-5	chr1	127270535	127270735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 2 of 17)	C-rich|Low_complexity|Low_complexity	65649.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	83.5	71.0	86.0	2174.5	123.5	33.5	52.0	51.5
Merged-chr12-85393689-3	chr12	85393585	85393785	+	896.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18968.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	6.0	11.0	5.0	143.5	15.5	3.0	1.0	8.5
Merged-chr1-59762830-3	chr1	59762708	59762908	+	874.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1471.0	NM_007561	12168.0	Mm.7106	NM_007561	ENSMUSG00000067336	Bmpr2	2610024H22Rik|AL117858|AW546137|BB189135|BMP-2|BMPR-2|BMPR-II|BMPRII|BRK-3|Gm20272	bone morphogenetic protein receptor, type II (serine/threonine kinase)	protein-coding	8.5	13.0	5.5	86.5	15.0	6.5	7.5	11.0
Merged-chr4-156228887-4	chr4	156228778	156228978	+	847.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008233)	promoter-TSS (NM_001008233)	-336.0	NM_001008233	231002.0	Mm.423124	NM_001008233	ENSMUSG00000078485	Plekhn1	BC025458	pleckstrin homology domain containing, family N member 1	protein-coding	7.5	7.0	14.5	107.5	75.5	17.0	14.5	12.5
Merged-chr1-193138909-4	chr1	193138753	193138953	+	804.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8583.0	NR_151719	215193.0	Mm.173758	NM_145415	ENSMUSG00000016181	Diexf	AA408296|AW045375|Def	digestive organ expansion factor homolog (zebrafish)	protein-coding	14.0	9.5	14.5	130.5	23.5	3.0	16.5	14.0
Merged-chr7-3704200-7	chr7	3704165	3704365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029767, intron 1 of 4)	CpG	224.0	NM_029767	76846.0	Mm.13944	NM_029767	ENSMUSG00000006333	Rps9	3010033P07Rik|AL022771|AL022885	ribosomal protein S9	protein-coding	23.5	63.5	39.0	246.5	98.0	30.5	27.0	31.5
Merged-chr9-20997650-2	chr9	20997550	20997750	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-5087.0	NM_023167	66163.0	Mm.427576	NM_023167	ENSMUSG00000003299	Mrpl4	1110017G11Rik	mitochondrial ribosomal protein L4	protein-coding	8.0	10.5	9.0	208.5	17.0	9.5	5.5	15.5
Merged-chr10-75932427-4	chr10	75932304	75932504	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175329)	promoter-TSS (NM_175329)	98.0	NM_001306184	17385.0	Mm.4561	NM_008606	ENSMUSG00000000901	Mmp11	MMP-11|SL-3|ST3|Stmy3	matrix metallopeptidase 11	protein-coding	10.0	27.5	21.5	198.5	11.0	9.0	5.5	22.0
Merged-chr10-59974278-3	chr10	59974172	59974372	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22502.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	14.5	5.5	20.5	269.0	20.5	2.0	16.0	10.0
Merged-chr4-32657443-1	chr4	32657343	32657543	+	1000.0	f0_balb.idr	intron (NM_001081392, intron 1 of 101)	CpG	324.0	NM_001081392	100019.0	Mm.24627	NM_133874	ENSMUSG00000058006	Mdn1	4833432B22Rik|A130070M06|AA958993|D4Abb1e|Gm135	midasin AAA ATPase 1	protein-coding	22.5	34.5	22.5	266.5	32.0	19.0	20.5	21.5
Merged-chr7-118485089-4	chr7	118484939	118485139	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033380)	TTS (NM_001033380)	6936.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	15.0	14.0	3.5	111.0	29.0	8.5	8.0	6.0
Merged-chr18-67700542-4	chr18	67700443	67700643	+	928.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008977, intron 2 of 9)	intron (NM_008977, intron 2 of 9)	24078.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	11.5	18.5	15.5	318.0	62.0	12.0	24.5	24.0
Merged-chr8-115537078-3	chr8	115536949	115537149	+	834.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	169845.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	16.0	33.5	11.5	109.0	21.5	18.5	8.0	6.5
Merged-chr11-69420364-4	chr11	69420272	69420472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081330)	TTS (NM_001081330)	-6697.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	40.0	42.5	31.5	301.5	79.0	32.0	42.0	38.0
Merged-chr13-112427627-4	chr13	112427528	112427728	+	986.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-36442.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	22.0	47.0	14.5	294.5	73.5	25.5	30.5	26.0
Merged-chr12-79807882-4	chr12	79807794	79807994	+	901.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 10 of 10)	intron (NM_009014, intron 10 of 10)	116839.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	17.0	25.0	7.5	85.5	42.5	8.0	9.0	14.5
Merged-chr8-70302551-4	chr8	70302475	70302675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021538)	promoter-TSS (NM_021538)	-123.0	NM_001024922	234374.0	Mm.388127	NM_001024922	ENSMUSG00000057788	Ddx49	R27090_2	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	protein-coding	39.0	58.0	29.0	370.5	91.5	28.0	20.0	33.5
Merged-chr2-52895117-4	chr2	52895020	52895220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	37252.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	60.0	115.0	77.0	1215.5	195.0	72.0	98.5	82.0
Merged-chr9-25309906-2	chr9	25309806	25310006	+	959.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57014.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	5.0	7.0	3.5	87.0	12.0	6.5	8.0	4.5
Merged-chr18-58531461-4	chr18	58531372	58531572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24768.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	78.0	76.5	94.5	1609.5	181.5	69.0	101.5	105.5
Merged-chr7-121332875-1	chr7	121332775	121332975	+	978.0	f0_c57.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-59421.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	19.0	17.0	8.5	149.5	59.0	14.5	18.5	25.5
Merged-chr2-43748607-7	chr2	43748499	43748699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153820)	promoter-TSS (NM_153820)	-225.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	9.5	11.5	24.0	184.0	29.5	13.0	18.5	18.5
Merged-chr5-140767898-4	chr5	140767811	140768011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 2 of 3)	intron (NM_010302, intron 2 of 3)	43784.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	40.0	42.0	45.5	709.0	72.0	26.0	29.0	30.0
Merged-chr13-85289366-6	chr13	85289295	85289495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145452)	promoter-TSS (NM_145452)	91.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	258.5	347.0	331.5	3328.5	845.0	335.5	401.0	313.5
Merged-chr11-120581131-4	chr11	120581026	120581226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133796, intron 1 of 5)	CpG	494.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	26.5	49.5	25.5	351.0	41.0	31.5	21.5	24.0
Merged-chr19-4066493-7	chr19	4066430	4066630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-7083.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	30.0	48.5	25.0	376.5	44.5	24.0	27.5	22.0
Merged-chr1-86179021-4	chr1	86178925	86179125	+	971.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 9 of 20)	intron (NM_027456, intron 9 of 20)	24245.0	NM_001310702	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	15.0	31.5	14.5	239.5	66.0	26.5	26.5	53.5
Merged-chr6-52213407-3	chr6	52213268	52213468	+	790.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010452)	promoter-TSS (NM_010452)	-301.0	NM_010452	15400.0	Mm.71533	NM_010452	ENSMUSG00000079560	Hoxa3	Hox-1.5|Mo-10	homeobox A3	protein-coding	6.5	5.5	7.5	39.5	14.0	4.0	2.0	6.5
Merged-chr11-49210722-1	chr11	49210622	49210822	+	632.5	f0_balb.idr	intron (NM_001024846, intron 1 of 4)	intron (NM_001024846, intron 1 of 4)	7222.0	NM_009562	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	7.5	10.0	4.5	68.5	17.0	9.0	4.0	4.5
Merged-chr10-51414746-4	chr10	51414655	51414855	+	969.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65857.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	11.0	15.0	14.0	188.5	81.0	24.0	38.5	24.5
Merged-chr11-67966441-4	chr11	67966348	67966548	+	981.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361351)	promoter-TSS (NM_001361351)	-10.0	NM_001361352	55943.0	Mm.3973	NM_018768	ENSMUSG00000020903	Stx8	0610007H08Rik|1110002H11Rik|4930571E13Rik|CARB	syntaxin 8	protein-coding	16.5	24.5	21.0	345.0	89.0	25.5	18.5	29.5
Merged-chr1-170292597-2	chr1	170292497	170292697	+	875.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13735.0	NM_001198955	665574.0	Mm.65316	NM_001198955	ENSMUSG00000102752	Gm7694	EG665574	predicted gene 7694	protein-coding	5.5	8.5	1.0	92.0	13.0	6.0	7.0	7.5
Merged-chr3-126630266-4	chr3	126630188	126630388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	L1ME2|LINE|L1	33337.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	47.0	79.0	58.0	866.0	110.0	26.0	50.5	38.0
Merged-chr4-148656176-4	chr4	148656079	148656279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085505, intron 3 of 10)	intron (NM_001085505, intron 3 of 10)	12862.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	35.5	70.5	52.5	322.0	147.5	73.5	87.5	68.0
Merged-chr3-123481470-4	chr3	123481354	123481554	+	987.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008939, intron 4 of 10)	intron (NM_008939, intron 4 of 10)	26612.0	NR_028573	100306957.0	Mm.260791	NR_028573	ENSMUSG00000092730	Snora24	ACA24	small nucleolar RNA, H/ACA box 24	snoRNA	34.5	17.5	18.5	343.0	43.0	23.0	29.0	21.0
Merged-chr14-74944845-3	chr14	74944745	74944945	+	923.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	3032.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	13.0	14.5	7.5	135.0	22.0	9.5	5.0	26.0
Merged-chr9-124312282-3	chr9	124312195	124312395	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243117, intron 1 of 4)	intron (NM_001243117, intron 1 of 4)	399.0	NM_001243118	630836.0	Mm.458553	NM_001243117	ENSMUSG00000074829	2010315B03Rik	BC029716	RIKEN cDNA 2010315B03 gene	protein-coding	50.0	57.5	50.5	521.0	82.0	37.5	34.0	40.0
Merged-chr1-58722470-6	chr1	58722359	58722559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	-8093.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	38.5	100.5	34.5	419.5	113.5	42.0	28.5	19.0
Merged-chr13-100453332-3	chr13	100453221	100453421	+	969.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008670)	promoter-TSS (NM_008670)	-457.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	6.0	5.0	4.5	82.0	48.0	9.0	12.5	24.0
Merged-chr13-37954490-4	chr13	37954396	37954596	+	878.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39712.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	11.5	26.5	26.5	196.0	29.5	11.0	21.0	11.5
Merged-chr13-21531024-4	chr13	21530825	21531025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001251834, intron 1 of 1)	CpG	189.0	NM_139141	93681.0	Mm.290601	NM_139141	ENSMUSG00000063894	Zkscan8	2510038J07Rik|D430019P06Rik|LD5-1|Zfp192	zinc finger with KRAB and SCAN domains 8	protein-coding	35.5	43.0	95.0	571.5	63.5	30.0	35.0	44.5
Merged-chr12-117476772-4	chr12	117476664	117476864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MARNA|DNA|TcMar-Mariner	-39715.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	35.5	34.0	27.0	281.5	118.5	42.5	40.0	26.0
Merged-chr15-90963506-4	chr15	90963382	90963582	+	939.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016705, intron 22 of 32)	GA-rich|Low_complexity|Low_complexity	-65006.0	NR_033583	20738.0	Mm.431547	NR_033583	ENSMUSG00000116210	Spn-ps	Cd43-ps	sialophorin, pseudogene	pseudo	31.0	20.0	11.5	302.0	33.0	14.5	14.5	13.0
Merged-chr16-10523022-3	chr16	10522928	10523128	+	768.688904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007575, intron 15 of 18)	B3|SINE|B2	20026.0	NM_021428	58239.0	Mm.353006	NM_021428	ENSMUSG00000038055	Dexi	1810029J14Rik|AI836170|AW413143|D16Bwg0586e|Myle	dexamethasone-induced transcript	protein-coding	7.0	9.0	7.0	115.5	16.5	12.5	3.5	5.5
Merged-chr19-10023836-4	chr19	10023728	10023928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153790, intron 1 of 10)	intron (NR_153790, intron 1 of 10)	5634.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	46.5	43.5	30.5	582.5	73.5	27.0	37.0	30.0
Merged-chr9-60181053-4	chr9	60180945	60181145	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040426, intron 7 of 17)	intron (NM_001040426, intron 7 of 17)	-39825.0	NM_172444	207596.0	Mm.28791	NM_172444	ENSMUSG00000032289	Thsd4	ADAMTSL-6|ADAMTSL6|AI585901|Adamtsl4|B230114P05Rik	thrombospondin, type I, domain containing 4	protein-coding	25.0	17.5	36.5	419.5	18.5	9.0	17.5	10.0
Merged-chr12-73914830-1	chr12	73914730	73914930	+	572.5	f0_balb.idr	intron (NM_010431, intron 1 of 14)	intron (NM_010431, intron 1 of 14)	6963.0	NM_001313919	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	11.0	11.0	7.0	68.5	11.0	4.5	3.5	5.5
Merged-chr1-161894298-3	chr1	161894203	161894403	+	943.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17621.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	8.5	4.5	9.0	126.5	10.5	4.5	14.0	7.0
Merged-chr1-72104237-4	chr1	72104143	72104343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99048.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	41.0	78.5	76.5	833.0	109.0	30.0	69.0	31.0
Merged-chr8-35495569-4	chr8	35495460	35495660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026067)	promoter-TSS (NM_026067)	-27.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	128.5	193.0	83.0	2089.0	286.0	112.0	158.5	119.0
Merged-chr10-42018404-4	chr10	42018298	42018498	+	981.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034858)	promoter-TSS (NM_001034858)	-16.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	27.0	23.0	11.0	289.5	44.0	6.5	25.5	9.5
Merged-chr13-112387523-1	chr13	112387423	112387623	+	563.0	f0_c57.idr	Intergenic	Intergenic	-76547.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	0.0	1.0	2.0	5.0	21.5	10.5	7.5	9.0
Merged-chr14-120835284-4	chr14	120835099	120835299	+	965.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-75995.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	12.5	12.5	6.5	83.0	48.0	11.5	17.0	20.0
Merged-chr7-123211086-3	chr7	123210987	123211187	+	872.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3779.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	9.0	6.0	5.0	95.5	20.5	6.5	8.0	6.0
Merged-chr7-126739623-4	chr7	126739481	126739681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-20045.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	36.0	41.0	24.5	310.5	81.0	30.5	25.0	28.0
Merged-chr2-160336589-3	chr2	160336523	160336723	+	825.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9129.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	7.0	7.5	3.5	84.5	10.0	8.0	6.5	7.5
Merged-chr1-78485474-4	chr1	78485388	78485588	+	885.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278075, intron 1 of 17)	MLT1F2-int|LTR|ERVL-MaLR	3409.0	NR_102758	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	10.5	10.0	9.0	260.0	29.0	11.5	14.5	11.0
Merged-chr5-96914793-3	chr5	96914695	96914895	+	933.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6477.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	49.0	66.0	35.5	322.5	7.5	1.5	4.0	7.0
Merged-chr4-145283595-1	chr4	145283495	145283695	+	556.0	f0_balb.idr	intron (NM_009401, intron 10 of 12)	intron (NM_009401, intron 10 of 12)	31552.0	NM_009401	21941.0	Mm.12810	NM_009401	ENSMUSG00000028602	Tnfrsf8	Cd30|D1S166E|Ki|Ki-1	tumor necrosis factor receptor superfamily, member 8	protein-coding	5.5	10.0	7.0	79.5	2.0	0.0	3.5	2.0
Merged-chr7-16049676-4	chr7	16049528	16049728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22217.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	48.0	103.0	84.5	680.5	36.0	16.0	15.5	20.0
Merged-chr11-53783900-4	chr11	53783830	53784030	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13457.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	21.0	42.0	15.0	199.5	75.5	25.0	26.0	19.0
Merged-chr14-27405765-4	chr14	27405665	27405865	+	945.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23069.0	NM_028945	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	12.5	6.5	10.5	206.5	52.5	13.5	17.5	11.0
Merged-chr6-38952663-4	chr6	38952565	38952765	+	897.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	intron (NM_011539, intron 3 of 12)	33679.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	12.5	38.5	11.5	166.0	31.5	11.0	10.5	6.0
Merged-chr14-31456772-2	chr14	31456672	31456872	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20672.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	8.0	2.5	5.5	69.5	5.5	7.0	6.5	6.5
Merged-chr3-90669101-4	chr3	90669018	90669218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013650)	promoter-TSS (NM_013650)	47.0	NM_013650	20201.0	Mm.21567	NM_013650	ENSMUSG00000056054	S100a8	60B8Ag|AI323541|B8Ag|CFAg|CP-10|Caga|MRP8|p8	S100 calcium binding protein A8 (calgranulin A)	protein-coding	60.0	58.5	68.5	855.0	46.5	18.5	30.0	40.0
Merged-chr1-138822466-4	chr1	138822371	138822571	+	905.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	19973.0	NM_001042577	16876.0	Mm.250732	NM_010714	ENSMUSG00000019230	Lhx9	3110009O07Rik|BB104635|LH2B	LIM homeobox protein 9	protein-coding	13.0	10.5	15.0	232.0	31.5	12.5	14.0	9.5
Merged-chr18-34886656-2	chr18	34886556	34886756	+	726.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	25449.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	1.0	1.0	0.0	47.0	15.5	4.5	5.5	11.5
Merged-chr7-67380863-4	chr7	67380762	67380962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8004.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	40.0	63.5	25.0	495.0	82.0	26.5	32.0	29.0
Merged-chr13-51316471-3	chr13	51316369	51316569	+	956.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-92149.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	15.5	3.0	2.5	136.5	15.0	7.0	9.0	7.0
Merged-chr2-118896433-4	chr2	118896380	118896580	+	873.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5135.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	7.5	6.5	4.0	137.0	7.5	7.5	10.5	11.0
Merged-chr11-53850112-4	chr11	53850013	53850213	+	905.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 1 of 3)	intron (NR_033332, intron 1 of 3)	9143.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	14.0	25.0	7.5	191.0	30.5	11.5	20.0	22.0
Merged-chr13-81053770-3	chr13	81053666	81053866	+	691.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	intron (NR_015587, intron 1 of 1)	89692.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	7.0	2.5	6.5	185.0	34.0	9.0	8.0	7.5
Merged-chr7-75638942-4	chr7	75638843	75639043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	183409.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	71.5	112.0	63.5	1260.0	54.5	21.0	25.5	24.0
Merged-chr3-31095007-4	chr3	31094932	31095132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011386)	promoter-TSS (NM_011386)	-26.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	140.5	270.5	170.0	1858.0	435.0	234.5	203.0	123.0
Merged-chr8-110594330-4	chr8	110594233	110594433	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172916, intron 79 of 86)	intron (NM_172916, intron 79 of 86)	-24234.0	NR_151674	234729.0	Mm.274894	NM_146216	ENSMUSG00000010936	Vac14	AA959718|BC032215|D8Wsu151e|Tax1bp2|Trx|ingls	Vac14 homolog (S. cerevisiae)	protein-coding	9.0	41.0	16.0	258.5	101.0	23.5	43.0	24.5
Merged-chr15-59759833-4	chr15	59759724	59759924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35135.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	79.0	87.0	64.5	823.5	84.0	56.0	67.0	58.0
Merged-chr11-62551089-4	chr11	62550990	62551190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002875)	promoter-TSS (NR_002875)	-81.0	NM_011664	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	137.5	254.5	136.5	1897.5	378.0	146.0	178.0	136.0
Merged-chr7-46795818-4	chr7	46795782	46795982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291075)	promoter-TSS (NM_001291075)	-1.0	NM_001005247	246694.0	Mm.379442	NM_178742	ENSMUSG00000014418	Hps5	AI646796|AL022647|C85120|haze|hz|maroon|mr|ru-2|ru2	HPS5, biogenesis of lysosomal organelles complex 2 subunit 2	protein-coding	77.5	98.5	79.5	895.5	158.5	86.5	58.5	71.0
Merged-chr2-166980335-4	chr2	166980262	166980462	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	URR1B|DNA|hAT-Charlie	-15645.0	NR_111895	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	34.0	23.0	22.0	412.0	61.0	21.0	15.5	19.0
Merged-chr1-155412910-4	chr1	155412817	155413017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 1 of 14)	intron (NM_011273, intron 1 of 14)	4527.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	35.5	40.0	33.0	842.0	84.5	15.5	39.5	17.0
Merged-chr9-20740631-4	chr9	20740521	20740721	+	930.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357639, intron 1 of 5)	intron (NM_001357639, intron 1 of 5)	5675.0	NM_001357639	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	23.0	21.0	17.0	206.5	62.5	20.5	21.0	24.5
Merged-chr2-45105852-4	chr2	45105749	45105949	+	903.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	4428.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	11.0	20.5	7.5	23.0	20.5	4.0	9.0	3.0
Merged-chr1-171102675-10	chr1	171102570	171102770	+	976.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18991.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	18.5	31.5	17.5	273.0	26.5	6.5	13.5	16.0
Merged-chr13-97192859-3	chr13	97192757	97192957	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010422, intron 2 of 13)	intron (NM_010422, intron 2 of 13)	5500.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	6.5	5.0	14.0	287.5	12.0	7.5	6.5	7.0
Merged-chr10-41910890-3	chr10	41910788	41910988	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	23449.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	9.0	8.0	2.0	131.0	9.5	4.5	9.5	8.0
Merged-chr10-7832225-5	chr10	7832129	7832329	+	757.483337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172785)	promoter-TSS (NM_172785)	-241.0	NM_172785	237256.0	Mm.140055	NM_172785	ENSMUSG00000039981	Zc3h12d	D730019B10Rik|TFL	zinc finger CCCH type containing 12D	protein-coding	10.5	12.0	8.0	105.5	10.0	8.5	5.5	12.5
Merged-chr4-98367580-4	chr4	98367497	98367697	+	822.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053157, intron 4 of 6)	Lx|LINE|L1	15668.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	13.5	12.5	13.0	82.0	40.5	15.0	10.5	12.0
Merged-chr2-152653314-1	chr2	152653214	152653414	+	820.0	f0_balb.idr	Intergenic	Intergenic	-16147.0	NM_010376	14950.0	Mm.277327	NM_010376	ENSMUSG00000019188	H13	1200006O09Rik|4930443L17Rik|5031424B04Rik|AV020344|H-13|Hm13|PSL3|Spp	histocompatibility 13	protein-coding	6.0	12.0	14.0	247.5	5.0	0.0	2.0	8.0
Merged-chr4-99186997-4	chr4	99186902	99187102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-6932.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	249.0	423.0	288.0	3474.5	758.5	303.0	331.5	329.5
Merged-chr2-43806585-3	chr2	43806475	43806675	+	875.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 2 of 14)	intron (NM_001301831, intron 2 of 14)	57751.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	12.5	8.5	9.0	81.0	25.5	4.0	10.5	9.0
Merged-chr7-121158560-3	chr7	121158465	121158665	+	731.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139310, intron 27 of 28)	intron (NM_139310, intron 27 of 28)	75127.0	NM_139310	246190.0	Mm.221073	NM_139310	ENSMUSG00000034990	Otoa	-	otoancorin	protein-coding	11.5	12.0	12.0	129.5	11.5	7.0	6.0	15.5
Merged-chr1-39735900-5	chr1	39735682	39735882	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14793.0	NM_001145660	619289.0	Mm.334107	NM_001145660	ENSMUSG00000057173	Rfx8	4933400N17Rik	regulatory factor X 8	protein-coding	7.0	5.0	4.5	65.5	9.5	7.0	4.5	4.5
Merged-chr7-41633030-4	chr7	41632918	41633118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360680)	promoter-TSS (NM_001360680)	-513.0	NM_001360675	67607.0	Mm.384626	NM_023363	ENSMUSG00000074165	Zfp788	2810426N06Rik|AI256342|AI605193	zinc finger protein 788	protein-coding	181.5	236.0	172.5	3353.5	460.5	158.5	251.0	190.0
Merged-chr1-172000844-4	chr1	172000754	172000954	+	785.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033509)	TTS (NM_033509)	26441.0	NM_033509	93840.0	Mm.36148	NM_033509	ENSMUSG00000026556	Vangl2	C530001F03Rik|Lootl|Lp|Lpp1|Ltap|Vang1l2|loop-tail|ska17|ska<m17Jus>|stbm|strabismus	VANGL planar cell polarity 2	protein-coding	10.0	9.5	2.0	109.0	24.5	11.5	9.0	15.0
Merged-chr16-56729277-4	chr16	56729173	56729373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172825, intron 15 of 15)	MTB|LTR|ERVL-MaLR	-11823.0	NM_001357126	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	18.5	19.5	38.0	470.5	77.0	17.0	40.5	42.5
Merged-chr14-75231276-3	chr14	75231170	75231370	+	793.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001247984)	TTS (NM_001247984)	-11017.0	NM_019775	56373.0	Mm.24242	NM_019775	ENSMUSG00000021999	Cpb2	1110032P04Rik|4930405E17Rik|AI255929|CPR|Cpu|TAFI	carboxypeptidase B2 (plasma)	protein-coding	6.5	7.0	17.0	138.5	16.5	9.5	6.5	21.0
Merged-chr2-84467619-3	chr2	84467511	84467711	+	988.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355271, intron 2 of 8)	MLT1B|LTR|ERVL-MaLR	6563.0	NM_011576	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	18.0	22.0	11.5	335.0	21.0	10.5	19.5	9.0
Merged-chr10-69247518-4	chr10	69247427	69247627	+	895.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252638, intron 2 of 11)	intron (NM_001252638, intron 2 of 11)	34333.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	17.0	20.5	15.0	301.5	40.5	13.5	16.5	27.0
Merged-chr1-75467760-4	chr1	75467671	75467871	+	688.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183022, intron 1 of 9)	intron (NM_183022, intron 1 of 9)	11700.0	NM_001001566	74241.0	Mm.260577	NM_001001565	ENSMUSG00000032997	Chpf	1700028N03Rik|AI414328|D1Bwg1363e	chondroitin polymerizing factor	protein-coding	9.0	13.5	6.5	111.5	25.0	9.0	5.5	13.5
Merged-chr16-20718601-3	chr16	20718504	20718704	+	629.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356423, exon 1 of 5)	5' UTR (NM_001356423, exon 1 of 5)	427.0	NM_001356423	245841.0	Mm.288730	NM_145632	ENSMUSG00000021018	Polr2h	-	polymerase (RNA) II (DNA directed) polypeptide H	protein-coding	8.5	7.5	9.0	94.5	15.0	6.0	7.0	7.0
Merged-chr11-3164650-3	chr11	3164628	3164828	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 8 of 32)	intron (NM_030207, intron 8 of 32)	28735.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	41.0	41.0	40.0	431.5	0.0	0.0	0.0	0.0
Merged-chr3-97768102-4	chr3	97768012	97768212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110360)	promoter-TSS (NR_110360)	-98.0	NR_110360	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	60.5	92.0	120.0	769.5	137.0	68.5	67.5	90.0
Merged-chr1-170845899-4	chr1	170845793	170845993	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 4 of 15)	RMER4B|LTR|ERVK	21878.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	21.5	28.0	11.5	285.5	47.0	16.5	18.5	19.0
Merged-chr16-4880604-4	chr16	4880500	4880700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145359)	promoter-TSS (NM_145359)	-749.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	213.0	352.0	133.0	2179.0	601.5	238.0	237.5	188.5
Merged-chr13-113756003-3	chr13	113755894	113756094	+	959.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-38514.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	7.0	8.0	7.0	317.0	56.5	13.0	16.0	27.5
Merged-chr5-115500590-4	chr5	115500481	115500681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E1|LTR|ERVL-MaLR	-6095.0	NM_011223	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	179.0	264.0	173.0	1944.5	294.0	115.0	142.5	109.0
Merged-chr5-31054155-4	chr5	31054095	31054295	+	854.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023525)	promoter-TSS (NM_023525)	-585.0	NM_023525	69719.0	Mm.305535	NM_023525	ENSMUSG00000013629	Cad	2410008J01Rik|AU018859|Cpad	carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase	protein-coding	10.5	6.0	7.0	79.5	26.0	10.5	7.5	5.5
Merged-chr5-3420627-4	chr5	3420529	3420729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 3 of 7)	intron (NM_009873, intron 3 of 7)	76736.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	34.5	33.5	23.5	224.0	56.5	23.5	28.0	27.0
Merged-chr6-5052584-4	chr6	5052471	5052671	+	916.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 3 of 15)	ORR1F|LTR|ERVL-MaLR	141375.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	17.5	11.0	18.5	260.5	25.0	6.5	19.0	17.5
Merged-chr1-36437423-3	chr1	36437312	36437512	+	886.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310517, intron 4 of 8)	intron (NM_001310517, intron 4 of 8)	7859.0	NM_001013374	214895.0	Mm.287854	NM_001013374	ENSMUSG00000001143	Lman2l	A630028F14Rik|VIP36-like|VIPL	lectin, mannose-binding 2-like	protein-coding	8.5	9.5	9.0	219.5	17.5	5.5	16.5	12.0
Merged-chr6-86371483-4	chr6	86371380	86371580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026506)	promoter-TSS (NM_026506)	-60.0	NM_026506	68011.0	Mm.276802	NM_026506	ENSMUSG00000057278	Snrpg	2810024K17Rik|AL022803|SMG|sm-G|snRNP-G	small nuclear ribonucleoprotein polypeptide G	protein-coding	97.5	164.5	68.5	910.5	210.0	100.5	103.0	90.5
Merged-chr7-127993751-4	chr7	127993637	127993837	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023258, exon 1 of 3)	5' UTR (NM_023258, exon 1 of 3)	130.0	NM_023258	66824.0	Mm.24163	NM_023258	ENSMUSG00000030793	Pycard	9130417A21Rik|Asc|CARD5|TMS-1|TNS1|masc	PYD and CARD domain containing	protein-coding	12.5	38.5	13.5	116.5	53.5	21.0	17.5	22.5
Merged-chr5-44049532-4	chr5	44049436	44049636	+	992.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163578, intron 3 of 22)	intron (NM_001163578, intron 3 of 22)	45232.0	NM_001163581	19126.0	Mm.6250	NM_008935	ENSMUSG00000029086	Prom1	4932416E19Rik|AC133|CD133|Prom|Prom-1|Proml1	prominin 1	protein-coding	15.0	23.5	17.5	295.5	74.5	28.0	26.0	31.5
Merged-chr9-20975837-4	chr9	20975727	20975927	+	829.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010333, intron 1 of 1)	intron (NM_010333, intron 1 of 1)	966.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	5.0	27.0	10.5	77.0	37.0	14.5	12.5	17.5
Merged-chr15-99972781-4	chr15	99972645	99972845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284523)	promoter-TSS (NM_001284523)	-35.0	NM_001024526	207214.0	Mm.28811	NM_001024526	ENSMUSG00000023025	Larp4	DXErtd793|DXErtd793e	La ribonucleoprotein domain family, member 4	protein-coding	66.0	85.5	58.0	735.0	168.0	65.5	55.5	76.5
Merged-chr4-156109877-4	chr4	156109776	156109976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145557)	promoter-TSS (NM_145557)	-122.0	NM_145557	230996.0	Mm.318925	NM_145557	ENSMUSG00000059939	9430015G10Rik	-	RIKEN cDNA 9430015G10 gene	protein-coding	250.0	315.5	229.5	3818.0	532.5	215.5	276.0	260.0
Merged-chr13-101914892-4	chr13	101914810	101915010	+	903.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146693.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	11.5	6.5	13.0	228.0	20.0	4.5	11.5	9.0
Merged-chr11-44401959-4	chr11	44401870	44402070	+	879.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303244, intron 1 of 7)	intron (NM_001303244, intron 1 of 7)	1907.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	10.5	21.0	14.5	131.5	28.5	5.0	16.5	7.5
Merged-chr17-56251650-4	chr17	56251556	56251756	+	890.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5137.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	21.5	47.5	6.5	146.0	42.0	14.5	11.0	14.5
Merged-chr7-31156484-4	chr7	31156396	31156596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-5325.0	NR_153431	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	103.0	156.0	77.5	803.5	203.0	75.5	82.5	49.5
Merged-chr18-79294976-1	chr18	79294876	79295076	+	565.0	f0_balb.idr	Intergenic	Intergenic	-185585.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	8.5	10.0	6.5	104.5	11.0	1.5	4.0	1.5
Merged-chr5-149454439-2	chr5	149454339	149454539	+	933.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029464, intron 3 of 6)	intron (NM_029464, intron 3 of 6)	14779.0	NM_001310765	75860.0	Mm.159605	NM_029464	ENSMUSG00000029660	Tex26	4930588N13Rik	testis expressed 26	protein-coding	3.5	2.5	0.0	23.0	7.0	6.0	4.5	6.0
Merged-chr11-70372659-4	chr11	70372566	70372766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63A|DNA|hAT-Blackjack	-20635.0	NM_009660	11687.0	Mm.4584	NM_009660	ENSMUSG00000018924	Alox15	12-LO|12/15-LO|15-LOX|Alox12l|L-12LO	arachidonate 15-lipoxygenase	protein-coding	57.5	60.0	31.5	660.0	65.0	38.0	35.0	33.0
Merged-chr11-100629694-4	chr11	100629616	100629816	+	827.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177790, intron 6 of 7)	intron (NM_177790, intron 6 of 7)	6761.0	NM_028024	71966.0	Mm.274734	NM_028024	ENSMUSG00000017837	Nkiras2	2410003M04Rik|4930527H08Rik|D630018G21Rik|KBRAS2	NFKB inhibitor interacting Ras-like protein 2	protein-coding	7.0	8.0	11.0	76.0	39.5	14.0	10.0	13.5
Merged-chr7-101539968-3	chr7	101539844	101540044	+	917.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	15858.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	8.5	11.0	8.0	149.0	3.5	3.0	1.5	3.0
Merged-chr5-125348628-4	chr5	125348533	125348733	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-7539.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	28.5	49.5	16.5	396.0	63.5	13.5	21.5	30.5
Merged-chr4-117134039-4	chr4	117133937	117134137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013807)	promoter-TSS (NM_013807)	-74.0	NM_001313916	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	174.5	261.0	181.0	2237.0	375.0	136.0	147.5	97.5
Merged-chr1-136430352-4	chr1	136430259	136430459	+	939.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026500, intron 4 of 7)	intron (NM_026500, intron 4 of 7)	-14840.0	NR_024328	320054.0	Mm.208000	NR_024328	ENSMUSG00000097403	9230116N13Rik	-	RIKEN cDNA 9230116N13 gene	ncRNA	20.0	9.5	10.5	438.0	33.0	7.0	26.0	15.5
Merged-chr9-108343577-4	chr9	108343509	108343709	+	812.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4222.0	NM_001311157	22258.0	Mm.3974	NM_011678	ENSMUSG00000032612	Usp4	F730026I20Rik|Unp|mKIAA4155	ubiquitin specific peptidase 4 (proto-oncogene)	protein-coding	13.5	10.5	2.5	72.5	17.5	13.5	8.5	8.5
Merged-chr5-96968761-4	chr5	96968659	96968859	+	880.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28930.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	16.0	18.5	13.0	237.0	39.0	10.0	13.5	14.0
Merged-chr15-76818706-4	chr15	76818642	76818842	+	826.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168288)	promoter-TSS (NM_001168288)	-572.0	NM_198420	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	14.0	8.0	5.0	113.5	20.5	2.5	9.0	11.0
Merged-chr11-29801958-4	chr11	29801845	29802045	+	893.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 21 of 41)	MLT1E1A|LTR|ERVL-MaLR	23723.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	29.5	18.5	36.5	373.5	44.5	9.5	14.0	8.5
Merged-chr18-61767910-4	chr18	61767807	61768007	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178928, intron 1 of 18)	intron (NM_178928, intron 1 of 18)	18755.0	NM_178928	106877.0	Mm.26632	NM_178928	ENSMUSG00000033032	Afap1l1	AI173486	actin filament associated protein 1-like 1	protein-coding	41.5	84.0	46.5	404.0	69.0	33.5	37.5	21.5
Merged-chr7-120982380-4	chr7	120982283	120982483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007672)	promoter-TSS (NM_007672)	-71.0	NM_001354986	12585.0	Mm.1640	NM_007672	ENSMUSG00000030878	Cdr2	AA617262	cerebellar degeneration-related 2	protein-coding	169.5	226.5	152.5	2082.5	407.5	158.0	146.5	177.0
Merged-chr12-70912059-4	chr12	70911954	70912154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25803.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	28.0	40.0	40.5	454.0	65.0	29.0	33.0	46.0
Merged-chr15-101133192-4	chr15	101133088	101133288	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277259, intron 3 of 11)	intron (NM_001277259, intron 3 of 11)	4666.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	16.0	13.5	18.5	113.0	24.0	8.5	19.5	20.5
Merged-chr9-104574764-4	chr9	104574658	104574858	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	5275.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	42.0	31.5	67.0	795.0	20.0	9.5	14.5	21.0
Merged-chr9-44767328-1	chr9	44767228	44767428	+	1000.0	f0_balb.idr	intron (NM_145985, intron 1 of 9)	CpG	480.0	NM_145985	213827.0	Mm.371682	NM_145985	ENSMUSG00000032096	Arcn1	4632432M07Rik|nur17	archain 1	protein-coding	22.5	20.0	20.5	349.0	36.0	23.5	22.5	34.0
Merged-chr1-97630739-3	chr1	97630638	97630838	+	846.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30938.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	7.5	18.5	15.0	264.0	16.0	3.0	12.0	12.0
Merged-chr16-90810506-4	chr16	90810395	90810595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029497)	promoter-TSS (NM_029497)	-82.0	NM_029497	207932.0	Mm.328688	NM_029497	ENSMUSG00000039929	Urb1	4921511H13Rik|5730405K23Rik|AA670781|AI645590|mKIAA0539	URB1 ribosome biogenesis 1 homolog (S. cerevisiae)	protein-coding	175.0	294.5	125.0	1576.5	473.0	148.5	154.0	154.0
Merged-chr2-6251321-4	chr2	6251222	6251422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 2 of 6)	intron (NR_040333, intron 2 of 6)	-38328.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	41.0	41.5	40.0	588.0	88.5	27.0	19.5	34.5
Merged-chr10-118866051-4	chr10	118865938	118866138	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014390, intron 2 of 2)	intron (NM_001014390, intron 2 of 2)	2865.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	34.0	62.0	16.0	124.5	91.5	37.0	23.5	24.0
Merged-chr4-41589944-3	chr4	41589846	41590046	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175138, intron 1 of 19)	intron (NM_175138, intron 1 of 19)	20152.0	NM_175138	68922.0	Mm.79127	NM_175138	ENSMUSG00000061322	Dnaic1	1110066F04Rik|BB124644|Dnai1|b2b1526Clo	dynein, axonemal, intermediate chain 1	protein-coding	2.0	7.5	4.5	95.5	47.5	5.5	28.5	20.5
Merged-chr4-148060478-3	chr4	148060361	148060561	+	775.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010840)	TTS (NM_010840)	19272.0	NM_001161798	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	5.0	6.0	6.0	62.0	11.0	2.0	19.5	11.5
Merged-chr7-31168584-3	chr7	31168480	31168680	+	908.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046062, intron 3 of 3)	intron (NR_046062, intron 3 of 3)	6222.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	10.0	11.5	18.5	213.0	13.5	8.5	6.5	5.0
Merged-chr1-77514719-3	chr1	77514585	77514785	+	906.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007936, intron 1 of 17)	CpG	403.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	8.5	18.0	15.0	166.0	13.5	7.0	12.5	3.5
Merged-chr3-86224246-4	chr3	86224135	86224335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030695)	promoter-TSS (NM_030695)	-455.0	NM_030695	80877.0	Mm.439825	NM_030695	ENSMUSG00000028080	Lrba	C80285|D3Ertd775e|Lab300|Lba	LPS-responsive beige-like anchor	protein-coding	37.0	65.0	44.0	628.5	75.0	32.0	38.5	25.0
Merged-chr5-109557340-6	chr5	109557160	109557360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310694, intron 2 of 7)	intron (NM_001310694, intron 2 of 7)	1733.0	NM_016715	57914.0	Mm.35771	NM_016715	ENSMUSG00000033467	Crlf2	CRLM2|Ly114|Tpte2|Tslpr	cytokine receptor-like factor 2	protein-coding	110.0	172.5	106.0	1401.0	412.5	171.0	170.0	156.5
Merged-chr16-21778682-3	chr16	21778583	21778783	+	870.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023737, intron 1 of 6)	MLT1J|LTR|ERVL-MaLR	9151.0	NM_023737	74147.0	Mm.28100	NM_023737	ENSMUSG00000022853	Ehhadh	1300002P22Rik|HD|L-PBE|LBFP|LBP|MFP|MFP1|PBFE	enoyl-Coenzyme A, hydratase/3-hydroxyacyl Coenzyme A dehydrogenase	protein-coding	8.5	4.5	13.5	112.0	6.0	10.0	4.0	9.0
Merged-chr6-5165155-4	chr6	5165105	5165305	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_181595, exon 16 of 16)	3' UTR (NM_181595, exon 16 of 16)	28741.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	15.0	20.0	15.0	189.0	25.0	6.0	13.0	10.0
Merged-chr3-61393743-3	chr3	61393649	61393849	+	633.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29242.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	8.5	7.0	7.5	111.0	18.5	4.5	6.5	8.5
Merged-chr10-81297295-4	chr10	81297182	81297382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	intron (NM_001293647, intron 1 of 17)	4319.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	101.5	164.5	73.5	801.5	165.0	60.5	49.0	28.5
Merged-chr8-46890466-4	chr8	46890365	46890565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96422.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	84.0	95.0	42.5	899.5	148.0	40.0	68.5	80.0
Merged-chr6-85374808-4	chr6	85374720	85374920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177466)	promoter-TSS (NM_177466)	-186.0	NM_001003955	52055.0	Mm.220334	NM_177466	ENSMUSG00000051343	Rab11fip5	9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11	RAB11 family interacting protein 5 (class I)	protein-coding	130.0	171.5	120.0	1487.5	312.0	144.0	195.5	131.0
Merged-chr18-50128234-4	chr18	50128118	50128318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008292)	promoter-TSS (NM_008292)	17.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	38.5	42.5	25.5	594.0	77.0	29.0	42.5	58.5
Merged-chr15-59828617-4	chr15	59828535	59828735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33676.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	65.5	131.5	98.0	1036.0	210.5	82.0	75.5	91.0
Merged-chr7-46847021-4	chr7	46846942	46847142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136069)	promoter-TSS (NM_001136069)	-40.0	NM_001136069	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	27.0	50.5	35.0	575.5	87.5	18.5	39.5	37.0
Merged-chr14-54426331-4	chr14	54426197	54426397	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026851)	promoter-TSS (NM_026851)	-612.0	NM_026851	68836.0	Mm.248163	NM_026851	ENSMUSG00000010406	Mrpl52	1110047B07Rik	mitochondrial ribosomal protein L52	protein-coding	21.5	35.5	12.0	192.5	90.5	25.5	26.5	25.5
Merged-chr10-127313025-4	chr10	127312928	127313128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1242.0	NM_001171582	216443.0	Mm.28173	NM_001003913	ENSMUSG00000040354	Mars	Metrs|Mtrns	methionine-tRNA synthetase	protein-coding	44.5	46.5	40.5	677.0	137.5	30.0	34.0	51.5
Merged-chr7-91716905-4	chr7	91716813	91717013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011807, intron 2 of 22)	intron (NM_011807, intron 2 of 22)	-345481.0	NM_001243046	23859.0	Mm.147213	NM_011807	ENSMUSG00000052572	Dlg2	A330103J02Rik|B230218P12Rik|B330007M19Rik|Dlgh2|Gm1197|Gm21505|PSD93	discs large MAGUK scaffold protein 2	protein-coding	74.0	81.5	75.5	1467.5	77.5	11.5	50.5	28.5
Merged-chr6-94507298-4	chr6	94507193	94507393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026255, intron 1 of 9)	intron (NM_026255, intron 1 of 9)	6979.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	56.0	117.5	48.5	700.5	87.5	24.5	23.5	37.0
Merged-chr10-70201045-4	chr10	70200963	70201163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3601.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	33.0	46.5	30.0	435.0	99.5	48.5	56.0	53.0
Merged-chr8-123253099-4	chr8	123252989	123253189	+	883.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028200, intron 1 of 14)	intron (NM_028200, intron 1 of 14)	-1106.0	NM_020497	57247.0	Mm.379084	NM_020497	ENSMUSG00000001065	Zfp276	AW048709|D8Ertd370e|D8Ertd377e|Znf276	zinc finger protein (C2H2 type) 276	protein-coding	8.5	21.0	14.0	264.0	22.0	13.0	13.5	22.0
Merged-chr12-73358806-4	chr12	73358688	73358888	+	853.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50775.0	NR_046013	380765.0	Mm.490476	NR_046013	ENSMUSG00000056359	D830013O20Rik	Gm891	RIKEN cDNA D830013O20 gene	ncRNA	8.0	6.0	17.0	234.5	46.0	9.5	8.0	14.5
Merged-chr16-32868363-4	chr16	32868271	32868471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001200038)	promoter-TSS (NM_001200038)	-5.0	NM_172615	100502698.0	Mm.327319	NM_172615	ENSMUSG00000035629	Rubcn	1700021K19Rik|5330403K09|Rubicon|mKIAA0226	RUN domain and cysteine-rich domain containing, Beclin 1-interacting protein	protein-coding	98.0	132.5	43.5	1206.5	204.0	87.5	87.0	68.0
Merged-chr19-60144548-4	chr19	60144503	60144703	+	843.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_026942)	promoter-TSS (NR_026942)	-72.0	NR_026942	107376.0	Mm.245813	NR_026942	ENSMUSG00000053117	E330013P04Rik	9930018I18Rik|AW492152	RIKEN cDNA E330013P04 gene	ncRNA	4.5	8.5	10.0	150.5	36.5	6.5	9.5	8.5
Merged-chr7-90040659-4	chr7	90040566	90040766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 3 of 5)	intron (NR_110365, intron 3 of 5)	11507.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	46.5	77.5	94.5	1441.5	127.0	29.5	56.0	50.5
Merged-chr1-85894917-2	chr1	85894817	85895017	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_022417, intron 1 of 5)	intron (NM_022417, intron 1 of 5)	407.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	15.5	28.0	22.0	271.5	66.0	30.0	25.5	29.5
Merged-chr14-93650243-4	chr14	93650162	93650362	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081377, intron 2 of 4)	intron (NM_001081377, intron 2 of 4)	240407.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	12.5	14.0	7.0	224.5	52.0	13.0	28.0	20.0
Merged-chr2-152756696-4	chr2	152756590	152756790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053091, intron 2 of 4)	intron (NM_053091, intron 2 of 4)	2517.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	41.5	37.5	39.0	902.5	79.5	31.0	48.5	31.5
Merged-chr17-46891256-3	chr17	46891105	46891305	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178385, exon 1 of 1)	exon (NM_178385, exon 1 of 1)	584.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	7.5	8.0	11.0	59.0	23.0	4.5	11.0	16.5
Merged-chr14-79516454-4	chr14	79516367	79516567	+	797.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	793.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	10.0	16.0	2.5	184.0	35.5	7.0	6.0	7.5
Merged-chr6-99242340-4	chr6	99242255	99242455	+	901.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	24160.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	11.0	12.5	10.0	243.0	16.5	11.0	13.5	10.0
Merged-chr4-133967315-4	chr4	133967232	133967432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016957, intron 1 of 5)	CpG	659.0	NM_016957	15331.0	Mm.319660	NM_016957	ENSMUSG00000003038	Hmgn2	HMG-17|Hmg17	high mobility group nucleosomal binding domain 2	protein-coding	86.0	181.0	66.5	901.0	272.0	126.5	83.0	109.0
Merged-chr18-74911075-3	chr18	74910974	74911174	+	572.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	50189.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	3.0	9.0	8.0	39.0	17.5	6.5	12.5	6.0
Merged-chr9-66594315-3	chr9	66594225	66594425	+	635.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1210.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	13.5	12.5	8.0	73.0	22.0	4.5	11.0	2.5
Merged-chr16-90215397-4	chr16	90215301	90215501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5341.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	120.0	207.0	115.0	1867.5	257.0	92.0	137.0	111.5
Merged-chr6-118137319-4	chr6	118137226	118137426	+	812.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030165, intron 1 of 7)	intron (NM_030165, intron 1 of 7)	1504.0	NM_001362149	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	10.0	26.0	4.5	195.0	29.0	8.5	9.0	9.5
Merged-chr17-34291771-4	chr17	34291659	34291859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3988.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	55.5	91.0	28.0	595.0	226.5	70.0	120.0	95.0
Merged-chr1-93654171-1	chr1	93654071	93654271	+	620.0	f0_balb.idr	Intergenic	MT2B1|LTR|ERVL	-18444.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	13.0	14.0	7.0	79.0	9.0	4.5	5.0	6.0
Merged-chr15-93336401-4	chr15	93336314	93336514	+	932.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028315, exon 2 of 5)	non-coding (NR_028315, exon 2 of 5)	521.0	NR_028315	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	14.5	31.0	23.5	248.0	34.0	15.5	18.5	12.5
Merged-chr7-101363624-4	chr7	101363529	101363729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	-14493.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	88.0	109.5	91.0	1220.5	160.0	42.0	92.0	53.0
Merged-chr11-58965274-4	chr11	58965216	58965416	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031172, exon 2 of 7)	exon (NM_031172, exon 2 of 7)	1535.0	NM_031172	56631.0	Mm.179733	NM_031172	ENSMUSG00000036964	Trim17	Rnf16|terf	tripartite motif-containing 17	protein-coding	17.0	5.5	11.0	173.0	51.5	8.5	18.5	18.5
Merged-chr1-16111014-3	chr1	16110953	16111153	+	792.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133832, intron 2 of 5)	intron (NM_133832, intron 2 of 5)	5171.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	7.5	6.0	6.0	115.0	7.5	5.0	1.5	6.0
Merged-chr4-59878230-3	chr4	59878139	59878339	+	825.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 3 of 8)	intron (NM_172468, intron 3 of 8)	36817.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	13.0	1.0	10.5	155.5	10.0	5.0	5.0	5.0
Merged-chr10-59324589-4	chr10	59324527	59324727	+	811.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316370, intron 1 of 13)	intron (NM_001316370, intron 1 of 13)	1331.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	2.5	9.5	5.0	96.5	12.5	5.0	10.0	12.5
Merged-chr18-38253124-4	chr18	38253035	38253235	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024179, intron 4 of 12)	intron (NM_024179, intron 4 of 12)	-2570.0	NR_027904	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	8.5	14.0	27.0	322.0	18.5	2.0	12.0	12.5
Merged-chr3-89688911-2	chr3	89688811	89689011	+	665.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26111.0	NM_001038587	56417.0	Mm.316628	NM_019655	ENSMUSG00000027951	Adar	AV242451|Adar1|Adar1p110|Adar1p150|DRADA|mZaADAR	adenosine deaminase, RNA-specific	protein-coding	7.0	4.0	2.0	36.5	13.5	5.0	4.5	7.5
Merged-chr1-179518019-4	chr1	179517922	179518122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027188)	promoter-TSS (NM_027188)	19.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	50.5	73.0	53.5	776.5	126.0	51.5	47.0	69.0
Merged-chr2-148048551-6	chr2	148048518	148048718	+	943.0595089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1649.0	NM_010446	15376.0	Mm.938	NM_010446	ENSMUSG00000037025	Foxa2	HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b	forkhead box A2	protein-coding	8.5	8.5	7.5	124.0	35.5	16.0	25.0	21.5
Merged-chr11-53926495-4	chr11	53926392	53926592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34789.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	38.0	71.0	36.0	520.0	80.0	33.5	37.0	32.0
Merged-chr7-4657720-3	chr7	4657652	4657852	+	685.366699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172894, intron 1 of 23)	L2c|LINE|L2	1198.0	NM_172894	243819.0	Mm.258670	NM_172894	ENSMUSG00000052296	Ppp6r1	2010309P17Rik|AI836219|B430201G11Rik|D030074N20Rik|Pp6r1|Saps1|mKIAA1115	protein phosphatase 6, regulatory subunit 1	protein-coding	7.0	10.0	5.0	71.0	11.5	3.5	5.0	10.0
Merged-chr17-59033656-4	chr17	59033566	59033766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20344.0	NM_026497	67993.0	Mm.36507	NM_026497	ENSMUSG00000024228	Nudt12	0610016O18Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 12	protein-coding	20.0	29.5	30.0	604.0	79.0	24.0	42.5	28.0
Merged-chr12-85348524-4	chr12	85348427	85348627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-9165.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	121.0	151.5	109.5	1694.5	231.5	83.0	72.5	61.5
Merged-chr18-70420452-4	chr18	70420276	70420476	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52078.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	18.0	14.0	21.0	258.5	27.0	8.5	9.0	10.0
Merged-chr19-36375459-6	chr19	36375340	36375540	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3627.0	NM_029508	76073.0	Mm.259180	NM_029508	ENSMUSG00000024805	Pcgf5	0610009F02Rik|1110054A01Rik|5830406C17Rik|5830443C21Rik|9530023M17Rik|AI324127	polycomb group ring finger 5	protein-coding	10.0	43.5	20.0	126.0	36.0	30.5	16.0	2.5
Merged-chr4-9631826-4	chr4	9631718	9631918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177856, intron 4 of 4)	intron (NM_001177856, intron 4 of 4)	11899.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	98.0	181.0	95.0	1957.5	349.5	112.5	127.5	109.0
Merged-chr10-96338792-4	chr10	96338684	96338884	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112577.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	33.0	23.5	32.0	337.5	49.5	18.5	16.0	31.0
Merged-chr14-50875877-4	chr14	50875764	50875964	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5310.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	12.0	22.5	19.0	240.0	75.5	20.5	18.0	17.5
Merged-chr8-107150620-4	chr8	107150554	107150754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025558)	promoter-TSS (NM_025558)	-7.0	NM_025558	66427.0	Mm.20242	NM_025558	ENSMUSG00000031924	Cyb5b	1810044O22Rik|AU015618|Cyb5m	cytochrome b5 type B	protein-coding	44.0	57.5	42.0	597.5	155.5	79.0	65.5	65.5
Merged-chr8-11006100-6	chr8	11006100	11006300	+	860.2999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081212, exon 1 of 2)	exon (NM_001081212, exon 1 of 2)	-1650.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	9.5	13.0	5.0	194.5	1.0	0.5	1.0	6.5
Merged-chr5-144964102-4	chr5	144963997	144964197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038627, intron 1 of 17)	intron (NM_001038627, intron 1 of 17)	1733.0	NM_001038627	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	34.0	62.0	43.0	557.0	78.5	33.0	47.0	39.0
Merged-chr13-59843001-4	chr13	59842896	59843096	+	759.075012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-19849.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	7.5	15.5	7.0	125.5	28.5	11.0	15.0	9.5
Merged-chr9-108340085-4	chr9	108339988	108340188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001329528, exon 3 of 3)	exon (NM_001329528, exon 3 of 3)	1008.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	33.5	80.5	37.5	227.0	84.0	24.0	29.0	34.0
Merged-chr7-28826067-3	chr7	28825914	28826114	+	809.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016772, exon 2 of 10)	exon (NM_016772, exon 2 of 10)	676.0	NM_016772	51798.0	Mm.291776	NM_016772	ENSMUSG00000053898	Ech1	AA617331	enoyl coenzyme A hydratase 1, peroxisomal	protein-coding	13.0	18.0	5.0	105.0	15.0	1.5	5.0	8.0
Merged-chr10-120857809-4	chr10	120857712	120857912	+	870.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038023, intron 1 of 2)	intron (NR_038023, intron 1 of 2)	183.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	7.5	34.0	49.0	433.5	20.5	12.0	11.0	22.0
Merged-chr2-27768008-4	chr2	27767913	27768113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	57430.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	54.5	101.5	36.0	563.0	99.0	60.0	69.0	52.5
Merged-chr10-23180225-4	chr10	23180123	23180323	+	882.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010167, intron 3 of 18)	intron (NM_010167, intron 3 of 18)	169667.0	NM_001347372	14051.0	Mm.332128	NM_010167	ENSMUSG00000010461	Eya4	B130023L16Rik	EYA transcriptional coactivator and phosphatase 4	protein-coding	14.0	18.0	16.0	211.0	28.0	6.0	11.0	14.5
Merged-chr2-155956456-4	chr2	155956386	155956586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001129999)	promoter-TSS (NM_001129999)	-72.0	NM_001129999	16328.0	Mm.288729	NM_008383	ENSMUSG00000038241	Cep250	AW490617|B230210E21Rik|Cep2|Inmp	centrosomal protein 250	protein-coding	43.5	41.5	17.0	385.0	88.0	21.5	41.0	45.0
Merged-chr13-99263471-4	chr13	99263361	99263561	+	807.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78638.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	3.0	4.5	8.0	81.5	16.0	13.5	11.5	14.5
Merged-chr16-48994107-4	chr16	48993998	48994198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356425)	promoter-TSS (NM_001356425)	14.0	NM_027341	224170.0	Mm.275138	NM_027341	ENSMUSG00000064061	Dzip3	2310047C04Rik|2A-HUB|6430549P11Rik|A230104G20	DAZ interacting protein 3, zinc finger	protein-coding	86.5	101.5	113.5	1260.5	171.0	68.0	80.0	60.5
Merged-chr14-100211287-4	chr14	100211207	100211407	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61511.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	14.5	30.0	19.5	593.5	55.0	6.0	29.5	17.0
Merged-chr19-32183286-4	chr19	32183193	32183393	+	930.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	L1MC4a|LINE|L1	27720.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	26.5	19.0	32.0	275.0	21.0	3.5	3.0	17.0
Merged-chr10-77279045-4	chr10	77278931	77279131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19731.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	28.0	38.5	27.0	356.0	75.0	18.0	26.5	25.0
Merged-chr8-91377016-4	chr8	91376918	91377118	+	913.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 1 of 8)	intron (NM_011936, intron 1 of 8)	63493.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	5.5	9.0	16.5	185.5	34.0	3.0	11.0	15.5
Merged-chr9-88523034-4	chr9	88522918	88523118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040721)	promoter-TSS (NR_040721)	-121.0	NR_040721	72655.0	Mm.21798	NR_040721	ENSMUSG00000097195	Snhg5	2810026P18Rik|4933428I09Rik|mU50HG-b	small nucleolar RNA host gene 5	ncRNA	259.5	343.5	227.0	3272.5	601.5	223.5	210.0	202.5
Merged-chr5-43206889-3	chr5	43206753	43206953	+	761.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 1 of 7)	intron (NR_028417, intron 1 of 7)	-26610.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	6.0	8.0	13.0	194.5	14.5	3.0	6.0	1.5
Merged-chr8-4166320-4	chr8	4166172	4166372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039578)	promoter-TSS (NM_001039578)	-295.0	NM_001039578	213027.0	Mm.437106	NM_153536	ENSMUSG00000011832	Evi5l	1700084G18Rik|2310039H16Rik|3110007G05Rik|B130050I23Rik	ecotropic viral integration site 5 like	protein-coding	472.0	706.0	595.5	8278.5	1333.0	549.0	619.0	476.5
Merged-chr16-43841512-3	chr16	43841414	43841614	+	859.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48162.0	NM_029128	106248.0	Mm.275354	NM_029128	ENSMUSG00000022704	Qtrt2	3110012M05Rik|4930470H18Rik|AI648807|Qrtr2|Qtrtd1	queuine tRNA-ribosyltransferase accessory subunit 2	protein-coding	7.0	14.0	9.0	175.5	24.5	4.5	7.5	5.5
Merged-chr6-108825152-4	chr6	108825018	108825218	+	952.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3523.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	23.0	18.0	20.0	211.0	34.5	13.0	9.0	12.0
Merged-chr18-34963641-4	chr18	34963537	34963737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9286.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	37.5	39.0	31.0	204.0	148.0	46.5	61.5	53.0
Merged-chr1-16619351-4	chr1	16619250	16619450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025773)	promoter-TSS (NM_025773)	-12.0	NM_001271017	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	145.5	181.5	96.5	1772.5	396.5	133.0	191.0	134.5
Merged-chr19-10905488-4	chr19	10905387	10905587	+	939.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001253844, exon 14 of 14)	3' UTR (NM_001253844, exon 14 of 14)	6842.0	NM_001253844	28000.0	Mm.491104	NM_134129	ENSMUSG00000024735	Prpf19	AA617263|AL024362|D19Wsu55e|NMP200|PSO4|Prp19|Snev	pre-mRNA processing factor 19	protein-coding	15.5	12.0	19.5	209.5	34.5	2.5	14.0	16.0
Merged-chr6-116131937-4	chr6	116131831	116132031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	MIR|SINE|MIR	61443.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	92.0	137.0	88.0	1080.5	190.5	79.5	57.5	82.5
Merged-chr7-142340262-4	chr7	142340167	142340367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	intron (NM_177265, intron 3 of 3)	31992.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	40.0	88.0	61.5	612.0	119.5	37.5	42.5	37.0
Merged-chr6-114362576-4	chr6	114362475	114362675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-35361.0	NM_001317125	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	36.0	44.0	56.0	747.0	57.0	23.0	44.5	24.0
Merged-chr10-8858879-4	chr10	8858758	8858958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	27212.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	57.5	93.5	69.5	1149.5	151.5	55.0	57.5	38.5
Merged-chr4-132946153-2	chr4	132946049	132946249	+	915.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-23598.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	7.5	17.0	14.5	252.0	40.0	17.0	15.0	18.5
Merged-chr17-35837686-4	chr17	35837579	35837779	+	910.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011655, intron 1 of 3)	intron (NM_011655, intron 1 of 3)	622.0	NM_011655	22154.0	Mm.273538	NM_011655	ENSMUSG00000001525	Tubb5	AA408537|AI596182|B130022C14Rik|M(beta)5	tubulin, beta 5 class I	protein-coding	10.0	41.5	16.5	103.0	60.5	11.5	22.5	16.5
Merged-chr7-68145010-3	chr7	68144911	68145111	+	890.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	119222.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	7.0	12.0	9.0	161.0	16.0	4.0	10.5	11.0
Merged-chr8-128358743-12	chr8	128358687	128358887	+	853.272217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008737)	promoter-TSS (NM_008737)	-286.0	NM_001358959	18186.0	Mm.271745	NM_008737	ENSMUSG00000025810	Nrp1	C530029I03|NP-1|NPN-1|Npn1|Nrp	neuropilin 1	protein-coding	8.5	14.0	18.5	147.5	22.5	8.0	8.5	21.0
Merged-chr15-53140466-4	chr15	53140352	53140552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	205731.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	81.0	177.0	169.5	1911.0	214.0	63.0	80.0	77.5
Merged-chr12-85533810-4	chr12	85533697	85533897	+	969.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	59907.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	23.5	44.5	16.0	218.0	47.0	13.5	22.0	25.0
Merged-chr15-85331825-4	chr15	85331730	85331930	+	750.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4551.0	NM_016843	54138.0	Mm.248906	NM_016843	ENSMUSG00000016541	Atxn10	AI325283|C77170|E46|Sca10|TEG-169|Tex169	ataxin 10	protein-coding	6.0	10.5	8.0	89.5	30.5	7.5	10.0	5.0
Merged-chr8-11478601-4	chr8	11478490	11478690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011227)	promoter-TSS (NM_011227)	-91.0	NM_011227	19332.0	Mm.37632	NM_011227	ENSMUSG00000031504	Rab20	AA536966|D8Ertd350e	RAB20, member RAS oncogene family	protein-coding	151.0	311.0	217.5	2020.0	444.5	207.5	265.5	171.0
Merged-chr18-53903803-4	chr18	53903648	53903848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 3 of 12)	intron (NM_152809, intron 3 of 12)	41635.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	104.0	217.0	98.5	1667.5	268.5	116.5	142.5	91.0
Merged-chr19-4231818-4	chr19	4231705	4231905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027196)	promoter-TSS (NM_027196)	-88.0	NM_027196	69745.0	Mm.32518	NM_027196	ENSMUSG00000024854	Pold4	2410012M21Rik|AI463381|AW060307|Polds|p12	polymerase (DNA-directed), delta 4	protein-coding	192.5	333.5	146.5	2118.5	373.5	147.5	166.5	155.5
Merged-chr4-129811090-4	chr4	129810977	129811177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9402.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	57.0	128.0	59.5	884.0	184.0	64.5	69.0	60.0
Merged-chr6-92183979-4	chr6	92183850	92184050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025578)	promoter-TSS (NM_025578)	73.0	NM_025578	64658.0	Mm.87062	NM_025578	ENSMUSG00000014551	Mrps25	2810429N01Rik|Rpms25	mitochondrial ribosomal protein S25	protein-coding	28.5	43.5	37.5	435.0	50.5	19.5	24.0	20.0
Merged-chr6-29848962-4	chr6	29848821	29849021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	RSINE1|SINE|B4	-4820.0	NM_001347084	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	24.5	29.0	24.0	268.5	38.0	23.0	13.0	21.0
Merged-chr18-4797956-4	chr18	4797853	4798053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14533.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	50.5	43.0	29.5	715.5	68.5	21.0	42.5	31.5
Merged-chr18-65507034-3	chr18	65506923	65507123	+	999.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	-73207.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	6.5	6.5	11.5	204.5	21.0	5.5	6.5	7.0
Merged-chr6-122600933-4	chr6	122600811	122601011	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 1 of 7)	intron (NM_001134391, intron 1 of 7)	1533.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	16.0	11.5	7.5	143.0	37.0	16.0	19.0	30.5
Merged-chr19-53420011-3	chr19	53419909	53420109	+	957.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58A|DNA|hAT-Charlie	-29375.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	15.5	24.0	21.0	173.0	21.0	6.0	8.0	7.0
Merged-chr19-12002374-4	chr19	12002298	12002498	+	954.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34342.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	18.5	29.0	24.0	270.0	33.0	9.5	20.0	15.5
Merged-chr2-35433645-4	chr2	35433565	35433765	+	884.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	27784.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	8.5	15.0	9.0	162.5	26.5	3.0	13.0	15.5
Merged-chr4-133498612-4	chr4	133498508	133498708	+	819.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081156)	promoter-TSS (NM_001081156)	-58.0	NM_001081156	69539.0	Mm.151594	NM_001081156	ENSMUSG00000056596	Trnp1	2300002D11Rik|Trnp	TMF1-regulated nuclear protein 1	protein-coding	4.0	8.5	2.5	101.5	34.0	15.5	12.0	10.5
Merged-chr2-5529020-3	chr2	5528913	5529113	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290375, intron 2 of 10)	intron (NM_001290375, intron 2 of 10)	147033.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	5.0	8.0	11.5	131.5	10.0	13.5	7.5	11.5
Merged-chr2-167661719-4	chr2	167661596	167661796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145538)	promoter-TSS (NM_145538)	-152.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	158.0	218.5	156.0	1995.0	353.5	136.5	184.5	98.0
Merged-chr11-34026905-4	chr11	34026803	34027003	+	895.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	MTB|LTR|ERVL-MaLR	-20025.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	11.0	17.0	13.5	202.0	36.0	11.0	13.5	10.0
Merged-chr9-100606201-3	chr9	100606098	100606298	+	822.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35113.0	NM_001101483	245020.0	Mm.236289	NM_001101483	ENSMUSG00000070287	Slc35g2	Gm519|Tmem22	solute carrier family 35, member G2	protein-coding	10.0	12.5	9.0	163.0	9.5	7.0	8.0	12.5
Merged-chr11-113738102-4	chr11	113738001	113738201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163346, intron 1 of 1)	intron (NM_001163346, intron 1 of 1)	13059.0	NM_020006	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	38.5	38.5	32.0	488.5	85.5	33.5	50.5	36.0
Merged-chr4-121215110-4	chr4	121215019	121215219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346660)	promoter-TSS (NM_001346660)	-35.0	NM_001346660	109263.0	Mm.215745	NM_001081013	ENSMUSG00000049878	Rlf	9230110M18Rik|AI195322|MommeD8	rearranged L-myc fusion sequence	protein-coding	99.0	142.5	62.5	905.5	356.5	104.5	106.0	138.5
Merged-chr13-67269781-3	chr13	67269656	67269856	+	926.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155551)	promoter-TSS (NR_155551)	-688.0	NM_001001152	238690.0	Mm.306358	NM_001001152	ENSMUSG00000055480	Zfp458	BC062958|Gm33446|Rslcan-7|Znf728|mszf59-2	zinc finger protein 458	protein-coding	1.0	0.5	1.0	7.5	51.0	24.5	14.0	35.5
Merged-chr8-94779313-4	chr8	94779209	94779409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009142, intron 2 of 2)	intron (NM_009142, intron 2 of 2)	7129.0	NM_009142	20312.0	Mm.103711	NM_009142	ENSMUSG00000031778	Cx3cl1	AB030188|ABCD-3|AI848747|CX3C|Cxc3|D8Bwg0439e|Scyd1	chemokine (C-X3-C motif) ligand 1	protein-coding	54.5	87.5	83.0	557.0	129.0	62.5	53.0	67.5
Merged-chr12-79168097-3	chr12	79167995	79168195	+	892.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016800, intron 1 of 5)	intron (NM_016800, intron 1 of 5)	4363.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	12.0	17.0	4.5	370.5	4.0	1.0	0.5	4.0
Merged-chr16-87585772-4	chr16	87585664	87585864	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144854, intron 4 of 4)	L1MB8|LINE|L1	32434.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	42.0	40.5	52.0	427.0	53.5	14.5	14.0	28.0
Merged-chr12-35833475-4	chr12	35833384	35833584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92137.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	93.5	125.5	103.5	1498.0	136.5	39.0	53.0	39.5
Merged-chr12-99796111-4	chr12	99796029	99796229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030172, intron 5 of 5)	intron (NM_030172, intron 5 of 5)	87313.0	NM_030172	78767.0	Mm.235920	NM_030172	ENSMUSG00000021176	Efcab11	2610021K21Rik|2610110A13Rik	EF-hand calcium binding domain 11	protein-coding	89.5	130.5	67.0	1381.0	229.0	93.5	87.5	83.0
Merged-chr11-105474545-3	chr11	105474459	105474659	+	873.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17824.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	8.0	8.0	7.0	148.5	22.5	4.5	5.5	18.5
Merged-chr7-55852575-4	chr7	55852483	55852683	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	MTD|LTR|ERVL-MaLR	10512.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	19.0	37.0	25.0	155.0	40.5	15.5	29.5	14.5
Merged-chr17-34591581-4	chr17	34591440	34591640	+	832.037476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017463)	promoter-TSS (NM_017463)	-931.0	NM_017463	18515.0	Mm.390957	NM_017463	ENSMUSG00000034673	Pbx2	AU043397|G17	pre B cell leukemia homeobox 2	protein-coding	6.5	6.5	17.5	111.0	19.0	6.5	8.5	2.5
Merged-chr5-105520087-3	chr5	105519947	105520147	+	962.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 1 of 3)	intron (NM_133897, intron 1 of 3)	576.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	7.0	14.0	4.5	51.5	22.0	15.0	5.0	8.0
Merged-chr3-129984953-3	chr3	129984833	129985033	+	923.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207209, intron 22 of 23)	intron (NM_207209, intron 22 of 23)	-14727.0	NM_001293644	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	5.5	7.0	9.0	152.0	1.0	0.5	2.5	1.5
Merged-chr5-64887236-4	chr5	64887135	64887335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45464.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	51.5	126.5	96.0	686.5	120.5	45.0	37.0	30.0
Merged-chr9-75541704-3	chr9	75541583	75541783	+	833.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	17974.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	5.0	6.5	9.5	70.5	12.0	16.5	9.0	17.0
Merged-chr5-112951695-2	chr5	112951617	112951817	+	824.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 9 of 20)	MER67A|LTR|ERV1	-55355.0	NM_028901	74376.0	Mm.441903	NM_028901	ENSMUSG00000072720	Myo18b	4932408L24Rik|4933411E19Rik|Gm448	myosin XVIIIb	protein-coding	6.5	11.5	6.5	65.5	3.5	2.5	2.0	3.0
Merged-chr19-8819432-4	chr19	8819352	8819552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081196)	promoter-TSS (NM_001081196)	51.0	NM_001081196	68693.0	Mm.476519	NM_001081196	ENSMUSG00000071659	Hnrnpul2	1110031M08Rik|AI465155|Hnrpul2	heterogeneous nuclear ribonucleoprotein U-like 2	protein-coding	135.0	207.0	147.5	1328.5	371.0	146.5	141.0	130.5
Merged-chr15-6238399-4	chr15	6238289	6238489	+	829.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61400.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	8.5	7.5	13.0	102.0	35.0	6.5	11.0	7.0
Merged-chr7-126704755-4	chr7	126704658	126704858	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009898)	promoter-TSS (NM_009898)	58.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	22.0	30.0	17.5	217.0	47.5	17.5	20.0	21.0
Merged-chr7-25688061-6	chr7	25687879	25688079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011577, exon 1 of 7)	exon (NM_011577, exon 1 of 7)	977.0	NM_011577	21803.0	Mm.248380	NM_011577	ENSMUSG00000002603	Tgfb1	TGF-beta1|TGFbeta1|Tgfb|Tgfb-1	transforming growth factor, beta 1	protein-coding	14.0	37.5	12.0	174.5	45.0	24.0	16.5	13.0
Merged-chr17-35879751-4	chr17	35879660	35879860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026987)	promoter-TSS (NM_026987)	-18.0	NM_026987	69192.0	Mm.390986	NM_026987	ENSMUSG00000024422	Dhx16	2410006N22Rik|DBP2|Ddx16|mKIAA0577	DEAH (Asp-Glu-Ala-His) box polypeptide 16	protein-coding	129.5	180.5	121.0	1566.5	332.0	132.0	117.5	107.5
Merged-chr18-15214474-4	chr18	15214383	15214583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63037.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	85.0	56.0	52.5	1036.5	170.0	46.5	93.0	57.5
Merged-chr6-108782030-4	chr6	108781894	108782094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-1065.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	112.5	121.5	97.0	1777.0	217.0	57.5	78.0	79.5
Merged-chr8-64947326-6	chr8	64947250	64947450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163747, intron 1 of 4)	CpG	165.0	NM_028427	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	134.0	206.0	261.0	2328.0	330.5	156.0	180.0	143.5
Merged-chr8-119834046-3	chr8	119833913	119834113	+	722.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	(TG)n|Simple_repeat|Simple_repeat	6566.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	6.5	10.0	1.0	24.0	11.5	6.5	4.5	6.0
Merged-chr10-69306393-4	chr10	69306276	69306476	+	704.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46536.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	6.5	11.0	8.5	172.5	35.5	18.0	11.5	20.5
Merged-chr18-74962298-4	chr18	74962117	74962317	+	809.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010720)	promoter-TSS (NM_010720)	-954.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	8.5	6.5	4.5	113.5	18.5	8.5	9.5	15.0
Merged-chr3-52011504-3	chr3	52011394	52011594	+	871.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	93512.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	6.5	15.5	4.0	84.5	21.0	14.0	7.0	6.5
Merged-chr14-19416170-4	chr14	19416066	19416266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	186421.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	67.5	59.5	112.0	948.5	137.5	64.0	64.5	118.5
Merged-chr12-16830054-1	chr12	16829954	16830154	+	695.75	f0_balb.idr	Intergenic	Intergenic	19089.0	NM_033270	50496.0	Mm.23296	NM_033270	ENSMUSG00000057469	E2f6	AI462434|E2F6a|E2F6b|EMA	E2F transcription factor 6	protein-coding	9.0	19.5	14.5	89.0	5.0	1.0	3.0	2.5
Merged-chr11-109410751-4	chr11	109410593	109410793	+	949.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15253.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	13.5	13.5	22.0	195.5	53.5	10.5	16.0	5.0
Merged-chr16-57167319-4	chr16	57167165	57167365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023175)	promoter-TSS (NM_023175)	67.0	NM_023175	52633.0	Mm.383203	NM_023175	ENSMUSG00000022751	Nit2	1190017B19Rik|D16Ertd502e	nitrilase family, member 2	protein-coding	63.5	74.5	103.0	1037.5	139.5	59.5	68.0	65.0
Merged-chr19-46444448-3	chr19	46444344	46444544	+	906.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 3 of 11)	intron (NM_001025391, intron 3 of 11)	47548.0	NM_015752	24069.0	Mm.41210	NM_015752	ENSMUSG00000025231	Sufu	Su(fu)	SUFU negative regulator of hedgehog signaling	protein-coding	8.5	11.0	6.0	149.5	22.5	8.0	13.0	5.5
Merged-chr8-108759920-4	chr8	108759836	108760036	+	917.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	45292.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	10.5	10.5	11.5	127.0	35.0	22.5	11.5	4.0
Merged-chr4-137995553-4	chr4	137995462	137995662	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 2 of 34)	intron (NM_001256195, intron 2 of 34)	2106.0	NM_172703	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	80.5	177.5	115.0	1255.5	57.0	24.0	30.0	16.5
Merged-chr5-125392370-3	chr5	125392274	125392474	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2357.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	16.5	13.0	16.0	65.5	15.0	13.0	12.0	15.5
Merged-chr13-8709277-4	chr13	8709181	8709381	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 6 of 10)	intron (NR_110345, intron 6 of 10)	161763.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	19.5	26.0	41.5	580.0	23.5	8.5	12.5	18.0
Merged-chr19-43512251-4	chr19	43512147	43512347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010324, intron 2 of 8)	B3|SINE|B2	12358.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	151.5	206.5	186.0	2357.0	684.0	271.0	282.5	229.5
Merged-chr15-50449768-4	chr15	50449681	50449881	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	439268.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	12.5	13.0	11.0	204.5	37.5	10.0	23.0	22.5
Merged-chr19-12440461-4	chr19	12440335	12440535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12530.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	78.5	112.0	86.5	975.0	167.5	68.0	75.5	60.5
Merged-chr3-127487438-3	chr3	127487349	127487549	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	11666.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	1.5	0.0	76.5	18.5	33.0	44.5
Merged-chr5-123288283-2	chr5	123288183	123288383	+	774.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56165.0	NM_029850	77045.0	Mm.151960	NM_029850	ENSMUSG00000029438	Bcl7a	4432415N06Rik|AI448316	B cell CLL/lymphoma 7A	protein-coding	4.5	9.5	5.5	39.0	0.0	1.0	0.0	4.0
Merged-chr18-46357102-4	chr18	46356998	46357198	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45170.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	14.0	24.0	20.5	244.0	56.5	20.5	15.0	26.5
Merged-chr18-69667429-4	chr18	69667322	69667522	+	855.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	intron (NM_001361128, intron 15 of 19)	-258137.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	8.5	16.0	23.0	329.5	47.0	11.0	13.0	15.5
Merged-chr18-46213320-3	chr18	46213207	46213407	+	678.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178872)	promoter-TSS (NM_178872)	-700.0	NM_178872	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	8.0	6.0	5.0	42.0	25.0	14.0	11.0	6.5
Merged-chr1-75124924-5	chr1	75124885	75125085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_194333)	TTS (NM_194333)	8905.0	NM_194333	22626.0	Mm.68157	NM_194333	ENSMUSG00000026205	Slc23a3	SVCT3|Yspl1	solute carrier family 23 (nucleobase transporters), member 3	protein-coding	75.5	106.0	51.0	1012.0	234.5	95.5	130.5	91.5
Merged-chr1-136640122-3	chr1	136640020	136640220	+	880.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15219.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	10.0	10.5	7.0	204.5	20.0	10.0	8.0	22.0
Merged-chr6-21949998-4	chr6	21949916	21950116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 1 of 11)	CpG	401.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	196.0	297.0	145.0	2911.0	451.0	199.0	285.5	207.5
Merged-chr12-41300481-3	chr12	41300377	41300577	+	941.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	185580.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	11.0	20.0	24.5	426.0	33.0	8.0	5.0	8.0
Merged-chr3-51341846-2	chr3	51341756	51341956	+	901.666626	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-1212.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	7.5	17.5	17.0	160.0	44.0	6.5	8.5	40.0
Merged-chr14-54409419-4	chr14	54409316	54409516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253680)	promoter-TSS (NM_001253680)	56.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	56.0	83.0	91.5	1117.0	110.0	37.5	39.5	30.0
Merged-chr10-121591243-4	chr10	121591141	121591341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359618, intron 24 of 24)	MTD|LTR|ERVL-MaLR	-4447.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	35.0	53.0	48.5	755.5	225.0	104.5	112.0	112.5
Merged-chr6-121230073-4	chr6	121229971	121230171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD|LINE|L1	-15835.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	35.5	31.0	41.5	492.0	70.5	32.0	30.5	46.5
Merged-chr3-48080830-4	chr3	48080708	48080908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54049.0	NR_040408	666202.0	Mm.465057	NR_040408	ENSMUSG00000103257	Gm7977	EG666202	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide pseudogene	pseudo	68.0	64.0	51.0	691.5	189.0	69.0	71.5	56.5
Merged-chr9-78521099-4	chr9	78521040	78521240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39416.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	31.0	32.5	18.0	464.5	72.5	15.5	24.0	23.5
Merged-chr11-44526861-4	chr11	44526758	44526958	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 2 of 5)	intron (NM_001166553, intron 2 of 5)	7481.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	15.5	42.0	14.5	82.5	131.0	42.0	29.5	16.0
Merged-chr19-10946864-4	chr19	10946756	10946956	+	958.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023731, intron 1 of 3)	intron (NM_023731, intron 1 of 3)	2410.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	16.0	21.5	19.5	156.0	29.5	11.5	10.0	21.5
Merged-chr9-116084207-4	chr9	116084109	116084309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	91154.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	78.0	101.5	55.0	1153.0	189.0	54.0	70.5	71.0
Merged-chr7-28809618-4	chr7	28809539	28809739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-1251.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	22.0	61.5	22.0	395.0	123.0	28.0	60.5	60.5
Merged-chr11-5503552-2	chr11	5503473	5503673	+	878.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-17068.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	2.0	0.5	1.5	42.0	17.0	4.5	8.5	5.5
Merged-chr2-92024546-4	chr2	92024459	92024659	+	948.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011957)	promoter-TSS (NM_011957)	-389.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	19.5	36.5	15.5	432.5	49.0	9.5	23.0	18.5
Merged-chr4-53521714-4	chr4	53521592	53521792	+	977.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133891, intron 4 of 15)	L1MB3|LINE|L1	81279.0	NM_133891	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	17.0	55.5	32.0	176.0	31.0	17.0	19.5	4.0
Merged-chr2-153276356-3	chr2	153276258	153276458	+	927.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-15058.0	NM_008444	16569.0	Mm.315560	NM_008444	ENSMUSG00000027475	Kif3b	AI854312|AW549267|mKIAA0359	kinesin family member 3B	protein-coding	8.5	12.0	10.5	142.0	13.5	9.0	6.5	4.0
Merged-chr6-115491445-4	chr6	115491346	115491546	+	806.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-53258.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	11.5	6.0	8.0	53.0	16.5	14.5	7.0	21.0
Merged-chr15-77905399-4	chr15	77905260	77905460	+	778.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23634.0	NM_019913	56551.0	Mm.291917	NM_019913	ENSMUSG00000005354	Txn2	2510006J11Rik|AI788873|Trx2	thioredoxin 2	protein-coding	7.5	11.0	4.0	93.5	13.5	9.5	9.0	6.0
Merged-chr9-54578552-3	chr9	54578448	54578648	+	843.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25B|LTR|ERVK	-7963.0	NM_029573	67834.0	Mm.279195	NM_029573	ENSMUSG00000032279	Idh3a	1110003P10Rik|1500012E04Rik|AA407078|AI316514	isocitrate dehydrogenase 3 (NAD+) alpha	protein-coding	24.0	24.5	16.0	353.5	16.0	8.0	8.0	21.5
Merged-chr9-114731154-4	chr9	114731080	114731280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026036)	promoter-TSS (NM_026036)	-23.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	116.0	197.5	107.5	1740.0	327.5	146.5	170.0	188.0
Merged-chr17-87379096-4	chr17	87378992	87379192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 19 of 19)	intron (NM_028639, intron 19 of 19)	48649.0	NM_029298	75467.0	Mm.50108	NM_029298	ENSMUSG00000036557	Stpg4	1700011E24Rik|GSE	sperm tail PG rich repeat containing 4	protein-coding	80.0	75.0	68.5	1387.0	110.5	26.5	73.0	62.0
Merged-chr5-17876858-4	chr5	17876767	17876967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	L2|LINE|L2	12092.0	NM_001159558	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	116.5	187.5	190.0	2468.0	152.0	82.0	54.0	59.0
Merged-chr2-155613562-4	chr2	155613459	155613659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085378, exon 4 of 42)	exon (NM_001085378, exon 4 of 42)	2316.0	NM_001085378	668940.0	Mm.469980	NM_001085378	ENSMUSG00000074652	Myh7b	Myh14	myosin, heavy chain 7B, cardiac muscle, beta	protein-coding	62.0	52.0	42.0	688.0	104.5	17.0	46.5	40.0
Merged-chr2-51284865-4	chr2	51284795	51284995	+	693.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040636, intron 1 of 2)	intron (NR_040636, intron 1 of 2)	43064.0	NR_040636	329404.0	Mm.417725	NR_040636	ENSMUSG00000086349	Gm13497	A730015I17	predicted gene 13497	ncRNA	15.5	9.5	13.5	217.5	23.5	3.5	8.5	3.0
Merged-chr2-77342142-4	chr2	77342043	77342243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61551.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	53.5	54.0	47.0	814.0	99.0	53.5	71.0	35.5
Merged-chr9-119261951-4	chr9	119261845	119262045	+	906.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359582, intron 9 of 18)	intron (NM_001359582, intron 9 of 18)	-30253.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	12.0	15.0	15.5	318.0	34.0	7.0	10.5	15.0
Merged-chr12-24595516-3	chr12	24595417	24595617	+	715.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145890, intron 6 of 13)	MTC|LTR|ERVL-MaLR	14798.0	NM_145890	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	5.0	18.5	4.5	103.5	9.0	10.0	5.5	3.5
Merged-chr13-34651568-4	chr13	34651461	34651661	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025831, intron 1 of 4)	intron (NM_025831, intron 1 of 4)	1120.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	34.0	23.0	40.5	536.0	36.0	14.5	30.5	33.5
Merged-chr3-122964525-4	chr3	122964436	122964636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133857, intron 2 of 15)	intron (NM_133857, intron 2 of 15)	19911.0	NM_133857	99526.0	Mm.491248	NM_133857	ENSMUSG00000039701	Usp53	AA939927|Phxr3|Sp6|mKIAA1350|mbo	ubiquitin specific peptidase 53	protein-coding	24.0	39.0	23.5	512.5	83.5	22.0	31.5	26.5
Merged-chr4-20033094-4	chr4	20032991	20033191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-8961.0	NM_010281	14590.0	Mm.20461	NM_010281	ENSMUSG00000073987	Ggh	gamma-GH	gamma-glutamyl hydrolase	protein-coding	37.0	90.0	39.0	684.0	129.5	40.5	73.5	53.5
Merged-chr13-66933743-3	chr13	66933663	66933863	+	967.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025547)	promoter-TSS (NM_025547)	-691.0	NM_025547	66410.0	Mm.347939	NM_025547	ENSMUSG00000021519	Mterf3	2410017I18Rik|Mterfd1	mitochondrial transcription termination factor 3	protein-coding	9.5	8.5	19.0	149.0	28.5	8.5	8.5	24.5
Merged-chr11-97771611-4	chr11	97771516	97771716	+	853.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028156, exon 3 of 3)	exon (NM_028156, exon 3 of 3)	4302.0	NM_028156	72215.0	Mm.269049	NM_028156	ENSMUSG00000018543	1700001P01Rik	-	RIKEN cDNA 1700001P01 gene	protein-coding	13.0	21.0	8.0	116.5	31.0	5.5	12.0	15.0
Merged-chr5-139284824-3	chr5	139284723	139284923	+	777.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	31326.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	7.0	13.5	10.0	89.5	33.0	11.5	8.0	4.5
Merged-chr11-115628253-4	chr11	115628166	115628366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026071)	promoter-TSS (NM_026071)	29.0	NM_001252394	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	225.0	287.5	230.5	2322.5	506.5	201.5	221.5	181.5
Merged-chr14-60636332-4	chr14	60636237	60636437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033272, intron 1 of 12)	intron (NM_001033272, intron 1 of 12)	1632.0	NM_001033272	219140.0	Mm.149776	NM_001033272	ENSMUSG00000021990	Spata13	C79050|ESTM11|X83327|mFLJ00298	spermatogenesis associated 13	protein-coding	44.0	41.0	54.5	857.0	102.0	50.5	49.5	63.5
Merged-chr7-15967467-4	chr7	15967357	15967557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153068)	promoter-TSS (NM_153068)	78.0	NM_153068	259300.0	Mm.138215	NM_153068	ENSMUSG00000074364	Ehd2	BC027084|C130052H20Rik	EH-domain containing 2	protein-coding	16.0	30.5	29.0	146.0	38.5	20.5	19.0	22.0
Merged-chr1-153749812-2	chr1	153749699	153749899	+	963.125	f0_balb.idr|f0_c57.idr	intron (NM_011882, intron 1 of 8)	intron (NM_011882, intron 1 of 8)	373.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	17.5	26.5	22.0	368.5	63.5	23.5	14.5	31.5
Merged-chr12-84762677-4	chr12	84762585	84762785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023409, intron 2 of 3)	intron (NM_023409, intron 2 of 3)	10427.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	114.0	149.0	67.5	1934.0	264.5	52.0	82.5	81.5
Merged-chr7-143830157-4	chr7	143830073	143830273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007856, exon 2 of 9)	5' UTR (NM_007856, exon 2 of 9)	7006.0	NM_007856	13360.0	Mm.249342	NM_007856	ENSMUSG00000058454	Dhcr7	AA409147	7-dehydrocholesterol reductase	protein-coding	151.0	265.5	128.5	2626.0	448.0	154.5	225.5	174.0
Merged-chr1-152428473-4	chr1	152428355	152428555	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177756, intron 1 of 11)	intron (NM_177756, intron 1 of 11)	28588.0	NM_177756	269132.0	Mm.23782	NM_177756	ENSMUSG00000032649	Colgalt2	AI427652|D730024P12|Glt25d2	collagen beta(1-O)galactosyltransferase 2	protein-coding	11.0	16.5	15.5	281.0	40.0	15.5	21.0	36.0
Merged-chr17-35394047-3	chr17	35393938	35394138	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_051981)	promoter-TSS (NR_051981)	-61.0	NR_051981	15016.0	Mm.439648	NR_051981	ENSMUSG00000055413	H2-Q5	H-2Q5|Qa-5|Qa5|Qat-5	histocompatibility 2, Q region locus 5	pseudo	0.5	0.5	0.0	0.0	121.5	44.5	30.0	30.0
Merged-chr6-57703298-4	chr6	57703205	57703405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	CpG	850.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	125.5	128.0	135.0	2056.0	220.5	128.0	186.5	120.0
Merged-chr8-94186831-4	chr8	94186729	94186929	+	838.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7740.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	10.5	12.5	12.0	101.0	22.0	5.5	5.5	8.0
Merged-chr14-31573129-4	chr14	31573036	31573236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009937, intron 1 of 16)	intron (NM_009937, intron 1 of 16)	4247.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	41.5	71.0	45.0	754.0	83.5	47.5	36.5	55.5
Merged-chr1-92973075-4	chr1	92972954	92973154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001104529)	promoter-TSS (NM_001104529)	-65.0	NM_001104529	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	114.0	140.0	118.0	2070.0	306.5	95.0	158.5	109.0
Merged-chr9-63133388-3	chr9	63133270	63133470	+	871.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	U6|snRNA|snRNA	13610.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	2.0	11.0	3.5	27.0	23.5	7.0	12.0	10.0
Merged-chr2-146517076-4	chr2	146516968	146517168	+	925.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5064.0	NM_001033348	241694.0	Mm.222310	NM_001033348	ENSMUSG00000037110	Ralgapa2	A230067G21Rik|AS250|BC053994|RGC2|pp250	Ral GTPase activating protein, alpha subunit 2 (catalytic)	protein-coding	9.5	17.5	15.0	177.5	62.0	14.0	25.0	17.0
Merged-chr9-111145720-4	chr9	111145596	111145796	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027742, intron 3 of 13)	intron (NM_027742, intron 3 of 13)	27585.0	NM_001164838	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	24.0	25.5	22.0	476.0	53.5	12.5	20.0	24.0
Merged-chr18-64886673-4	chr18	64886579	64886779	+	962.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1077.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	13.0	28.0	21.0	418.0	77.0	21.5	40.0	25.0
Merged-chr1-24469699-4	chr1	24469559	24469759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 11 of 50)	intron (NM_007733, intron 11 of 50)	117778.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	64.5	115.0	79.0	1321.5	145.5	58.5	47.0	38.5
Merged-chr13-90089623-4	chr13	90089520	90089720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025335)	promoter-TSS (NM_025335)	-12.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	367.5	461.5	440.5	7331.0	858.5	286.0	501.5	343.5
Merged-chr3-8957861-4	chr3	8957766	8957966	+	835.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	6280.0	NM_001025262	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	12.0	12.5	13.5	170.5	25.0	15.5	11.0	9.0
Merged-chr17-35242775-4	chr17	35242695	35242895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252457)	promoter-TSS (NM_001252457)	-22.0	NM_001252457	53817.0	Mm.439827	NM_019693	ENSMUSG00000019432	Ddx39b	0610030D10Rik|AI428441|Bat-1|Bat1|Bat1a|D17H6S81E|D17H6S81E-1|D6S81Eh	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B	protein-coding	80.5	125.0	89.0	1171.5	224.5	62.5	75.5	90.5
Merged-chr13-58452419-4	chr13	58452332	58452532	+	940.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49089.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	11.0	23.0	17.0	353.5	56.0	11.5	45.0	19.0
Merged-chr4-125962898-4	chr4	125962789	125962989	+	763.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40579.0	NR_015560	72395.0	Mm.112888	NR_015560	ENSMUSG00000085562	2610028E06Rik	BB043107	RIKEN cDNA 2610028E06 gene	ncRNA	18.0	20.5	11.0	108.0	24.5	22.0	7.0	7.0
Merged-chr14-60988715-2	chr14	60988615	60988815	+	736.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013869, intron 5 of 9)	intron (NM_013869, intron 5 of 9)	49272.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	1.0	2.0	4.5	16.0	15.5	8.0	15.0	4.5
Merged-chr4-132977009-4	chr4	132976915	132977115	+	983.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010208, intron 1 of 12)	intron (NM_010208, intron 1 of 12)	2920.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	45.5	97.5	31.0	367.5	96.0	39.5	23.5	21.0
Merged-chr2-150672933-4	chr2	150672817	150673017	+	955.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4677.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	24.0	49.0	65.5	859.5	50.5	10.0	35.5	29.0
Merged-chr9-38815727-3	chr9	38815594	38815794	+	583.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146781, exon 1 of 1)	exon (NM_146781, exon 1 of 1)	286.0	NM_146781	258777.0	Mm.223208	NM_146781	ENSMUSG00000043911	Olfr922	MOR161-3	olfactory receptor 922	protein-coding	9.0	5.5	6.0	90.0	17.0	2.0	5.0	7.5
Merged-chr12-52304122-4	chr12	52304009	52304209	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 9 of 10)	intron (NM_029760, intron 9 of 10)	176500.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	18.0	12.5	15.0	261.0	64.5	24.0	27.5	24.5
Merged-chr9-120936519-4	chr9	120936420	120936620	+	929.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007614, intron 1 of 14)	intron (NM_007614, intron 1 of 14)	2942.0	NM_001165902	12387.0	Mm.291928	NM_007614	ENSMUSG00000006932	Ctnnb1	Bfc|Catnb|Mesc	catenin (cadherin associated protein), beta 1	protein-coding	12.0	10.5	5.0	92.0	40.0	13.5	14.5	8.0
Merged-chr16-91010106-3	chr16	91009975	91010175	+	793.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164483, exon 2 of 32)	exon (NM_001164483, exon 2 of 32)	1020.0	NM_001045515	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	4.5	1.0	13.0	59.0	28.5	6.5	6.0	11.5
Merged-chr10-93453371-4	chr10	93453252	93453452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313897)	promoter-TSS (NM_001313897)	-44.0	NM_001313897	16993.0	Mm.271071	NM_008517	ENSMUSG00000015889	Lta4h	-	leukotriene A4 hydrolase	protein-coding	143.0	172.5	113.0	1650.0	358.0	89.5	180.0	128.5
Merged-chr7-31172452-4	chr7	31172343	31172543	+	774.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	10085.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	16.0	17.5	11.5	115.5	21.0	13.5	12.5	11.0
Merged-chr1-74390110-3	chr1	74389991	74390191	+	852.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1518.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	9.5	6.5	8.5	86.0	16.0	2.5	11.5	3.5
Merged-chr6-88906941-4	chr6	88906851	88907051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011906, intron 2 of 11)	intron (NM_011906, intron 2 of 11)	4700.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	27.0	43.5	21.5	351.5	95.5	31.0	25.5	36.5
Merged-chr8-57577505-2	chr8	57577405	57577605	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 2 of 11)	intron (NM_001167981, intron 2 of 11)	65662.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	5.5	19.5	4.5	31.5	26.0	8.0	8.0	6.5
Merged-chr14-103059155-4	chr14	103059053	103059253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11063.0	NM_001033242	211286.0	Mm.295289	NM_001033242	ENSMUSG00000022125	Cln5	A730075N08Rik	ceroid-lipofuscinosis, neuronal 5	protein-coding	194.5	424.0	294.0	3706.5	512.0	198.0	244.5	171.0
Merged-chr6-128805332-4	chr6	128805260	128805460	+	875.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-16719.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	7.5	27.5	10.5	99.0	27.5	10.5	22.0	17.5
Merged-chr7-126396873-4	chr7	126396764	126396964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010900)	promoter-TSS (NM_010900)	-127.0	NM_010900	18020.0	Mm.1389	NM_010900	ENSMUSG00000030722	Nfatc2ip	D7Ertd304e|NIP45	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 interacting protein	protein-coding	273.5	458.0	201.5	3438.5	567.0	247.5	217.5	222.0
Merged-chr14-49172094-4	chr14	49171968	49172168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027492)	promoter-TSS (NM_027492)	-178.0	NM_027492	70646.0	Mm.275688	NM_027492	ENSMUSG00000036282	Naa30	4930487N19Rik|5730533P17Rik|AI447922|AW322455|Nat12	N(alpha)-acetyltransferase 30, NatC catalytic subunit	protein-coding	158.5	227.0	128.0	2461.5	360.0	115.5	192.0	149.0
Merged-chr16-32396402-4	chr16	32396299	32396499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4107.0	NM_001160402	277203.0	Mm.484240	NM_001160402	ENSMUSG00000079625	Tm4sf19	EG277203	transmembrane 4 L six family member 19	protein-coding	63.5	82.5	46.5	777.5	137.5	55.5	49.5	50.5
Merged-chr2-49764731-2	chr2	49764631	49764831	+	927.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 25 of 25)	intron (NM_008449, intron 25 of 25)	-22955.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	6.0	5.0	7.0	48.5	12.5	4.0	5.0	6.0
Merged-chr1-88699869-2	chr1	88699769	88699969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177305, exon 1 of 1)	3' UTR (NM_177305, exon 1 of 1)	2322.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	6.5	29.5	9.0	113.5	26.5	25.0	9.0	18.5
Merged-chr7-44005089-4	chr7	44004972	44005172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7606.0	NM_010644	16618.0	Mm.439663	NM_010644	ENSMUSG00000053719	Klk1b26	Egfbp2|Klk26|PRECE-2|mGK-26|mGK26	kallikrein 1-related petidase b26	protein-coding	58.0	122.5	78.5	1301.0	81.5	23.0	42.0	44.5
Merged-chr7-49246073-4	chr7	49245999	49246199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175272)	promoter-TSS (NM_175272)	-90.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	194.0	191.5	170.5	2993.5	366.5	134.0	205.5	157.0
Merged-chr19-46328442-4	chr19	46328341	46328541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133694, exon 1 of 4)	5' UTR (NM_133694, exon 1 of 4)	257.0	NM_133694	68431.0	Mm.19973	NM_133694	ENSMUSG00000025226	Fbxl15	0710008C12Rik|Fbxo37	F-box and leucine-rich repeat protein 15	protein-coding	35.0	77.5	21.5	557.5	116.5	49.0	60.0	65.5
Merged-chr5-147992746-4	chr5	147992656	147992856	+	992.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029920, intron 1 of 14)	ORR1D2|LTR|ERVL-MaLR	35436.0	NM_029920	77521.0	Mm.244177	NM_029920	ENSMUSG00000029651	Mtus2	5730592G18Rik|A730013O20Rik|AU067634|C130038G02Rik|Cazip|Gm763|mKIAA0774	microtubule associated tumor suppressor candidate 2	protein-coding	20.5	37.0	24.5	353.0	46.0	29.5	14.0	16.0
Merged-chr2-124790271-4	chr2	124790177	124790377	+	984.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136696.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	14.5	25.5	13.0	414.0	78.5	26.0	27.0	43.0
Merged-chr11-119091571-4	chr11	119091517	119091717	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5380.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	14.0	34.0	24.5	207.0	53.0	17.5	17.0	21.0
Merged-chr14-73474956-4	chr14	73474859	73475059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35090.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	26.5	26.5	23.5	326.5	69.5	31.0	22.0	35.0
Merged-chr1-37997295-4	chr1	37997169	37997369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198303)	promoter-TSS (NM_198303)	-61.0	NM_172054	98258.0	Mm.28438	NM_172054	ENSMUSG00000058407	Txndc9	AI098020|APACD	thioredoxin domain containing 9	protein-coding	198.5	322.5	144.5	2237.0	520.5	212.0	225.0	201.5
Merged-chr19-4121186-4	chr19	4121080	4121280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016666, intron 2 of 6)	intron (NM_016666, intron 2 of 6)	395.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	31.5	59.0	22.0	534.5	158.0	69.0	43.0	54.0
Merged-chr3-52196317-6	chr3	52196136	52196336	+	991.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72101.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	14.5	17.0	7.5	81.5	28.0	4.5	6.5	16.0
Merged-chr19-47579599-7	chr19	47579526	47579726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009289)	promoter-TSS (NM_009289)	-393.0	NM_009289	20874.0	Mm.281011	NM_009289	ENSMUSG00000025060	Slk	9A2|AV021402|AW411554|Etk4|SMAK|Stk2|mKIAA0204|mSLK	STE20-like kinase	protein-coding	35.5	53.0	23.5	383.5	85.0	39.0	43.5	42.0
Merged-chr17-12119227-4	chr17	12119121	12119321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026644)	promoter-TSS (NM_026644)	-63.0	NM_026644	68262.0	Mm.258300	NM_026644	ENSMUSG00000023827	Agpat4	1500003P24Rik	1-acylglycerol-3-phosphate O-acyltransferase 4 (lysophosphatidic acid acyltransferase, delta)	protein-coding	112.0	198.0	134.5	2268.5	267.0	101.0	156.0	130.0
Merged-chr2-167253704-4	chr2	167253604	167253804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13167.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	96.5	83.5	107.0	1851.5	265.0	66.5	105.5	132.0
Merged-chr5-150593233-3	chr5	150593122	150593322	+	898.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133898, intron 1 of 4)	intron (NM_133898, intron 1 of 4)	1303.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	5.0	11.0	10.0	104.5	19.5	13.0	7.5	7.5
Merged-chr5-130255544-4	chr5	130255440	130255640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023248)	promoter-TSS (NM_023248)	-10.0	NM_023248	66711.0	Mm.280484	NM_023248	ENSMUSG00000025337	Sbds	4733401P19Rik|AI836084|CGI-97|SDS	SBDS ribosome maturation factor	protein-coding	134.5	260.0	107.5	1532.0	418.5	156.0	180.5	123.5
Merged-chr17-29032056-3	chr17	29031976	29032176	+	964.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013663)	promoter-TSS (NM_013663)	-584.0	NM_013663	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	10.5	13.5	12.0	163.5	35.0	13.5	14.5	24.0
Merged-chr16-87495918-4	chr16	87495843	87496043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009840)	promoter-TSS (NM_009840)	-74.0	NM_009840	12469.0	Mm.328673	NM_009840	ENSMUSG00000025613	Cct8	AI132397|Cctq|Tcpq	chaperonin containing Tcp1, subunit 8 (theta)	protein-coding	139.0	239.5	155.0	1535.5	399.0	186.0	164.0	185.0
Merged-chr16-92700226-4	chr16	92700126	92700326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	-2897.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	39.0	25.5	32.0	618.0	88.5	20.5	37.0	51.0
Merged-chr3-103100922-2	chr3	103100822	103101022	+	642.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26634.0	NM_177857	329727.0	Mm.293641	NM_177857	ENSMUSG00000007379	Dennd2c	A930010I20Rik	DENN/MADD domain containing 2C	protein-coding	5.5	14.0	5.0	72.5	2.5	6.0	1.5	0.0
Merged-chr16-55907249-4	chr16	55907132	55907332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028815, intron 10 of 10)	intron (NM_028815, intron 10 of 10)	-11953.0	NM_001134457	385658.0	Mm.310635	NM_001134457	ENSMUSG00000075033	Nxpe3	Fam55c|Gm1752|Gm611	neurexophilin and PC-esterase domain family, member 3	protein-coding	22.5	91.5	17.5	519.0	125.0	40.5	39.0	34.0
Merged-chr13-20292523-4	chr13	20292441	20292641	+	954.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 13 of 21)	intron (NM_080288, intron 13 of 21)	-180449.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	18.5	31.0	25.5	330.5	46.0	18.5	13.5	15.5
Merged-chr7-99053047-4	chr7	99052950	99053150	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	RLTR25B|LTR|ERVK	88094.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	35.5	24.5	13.0	310.0	45.0	12.5	11.0	9.5
Merged-chr2-181274913-4	chr2	181274831	181275031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 2 of 9)	MTEb|LTR|ERVL-MaLR	13035.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	112.5	140.0	168.5	1902.0	254.5	103.5	186.0	108.0
Merged-chr2-128711017-4	chr2	128710910	128711110	+	877.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	12095.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	23.5	17.5	45.5	1173.0	43.0	10.0	11.5	15.5
Merged-chr10-11492153-3	chr10	11492051	11492251	+	694.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-117073.0	NM_013898	30058.0	Mm.214504	NM_013898	ENSMUSG00000048007	Timm8a1	DXHXS1274E|Ddp1|Fci-12|Tim8a|Timm8a	translocase of inner mitochondrial membrane 8A1	protein-coding	17.5	15.0	7.0	371.5	35.5	16.0	24.5	29.5
Merged-chr16-70414917-4	chr16	70414821	70415021	+	623.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 3 of 15)	MER34A|LTR|ERV1	100972.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	4.5	8.5	8.0	87.0	23.5	5.0	5.0	18.0
Merged-chr17-40824721-3	chr17	40824600	40824800	+	759.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011269, intron 1 of 9)	Lx8|LINE|L1	13551.0	NM_011269	19743.0	Mm.12961	NM_011269	ENSMUSG00000023926	Rhag	CD241|Rh50|Rh50A	Rhesus blood group-associated A glycoprotein	protein-coding	3.0	9.0	9.0	67.5	16.5	8.5	6.5	5.5
Merged-chr8-11049081-5	chr8	11048982	11049182	+	859.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 2 of 4)	intron (NR_046017, intron 2 of 4)	-40652.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	9.5	5.5	11.0	143.0	3.0	2.5	5.0	5.0
Merged-chr9-113739130-4	chr9	113739014	113739214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2359.0	NM_001286599	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	39.5	81.5	58.0	903.0	153.5	46.5	80.5	72.0
Merged-chr2-160210725-4	chr2	160210636	160210836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116758.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	66.0	100.0	67.5	1177.0	167.0	50.5	81.0	64.0
Merged-chr19-12439322-4	chr19	12439210	12439410	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11405.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	11.0	5.0	17.0	230.5	29.0	7.5	11.0	14.0
Merged-chr7-97136624-4	chr7	97136533	97136733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	54882.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	38.5	37.0	41.0	1123.5	167.5	63.5	104.0	71.5
Merged-chr7-25251660-6	chr7	25251605	25251805	+	838.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010155)	promoter-TSS (NM_010155)	-947.0	NM_010155	13875.0	Mm.8068	NM_010155	ENSMUSG00000040857	Erf	-	Ets2 repressor factor	protein-coding	7.0	3.0	3.0	113.0	16.5	7.0	6.0	14.5
Merged-chr18-84087734-3	chr18	84087621	84087821	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146090)	promoter-TSS (NM_146090)	-437.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	36.5	50.5	35.0	616.0	86.0	30.0	45.5	56.0
Merged-chr8-72723894-3	chr8	72723800	72724000	+	907.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113248, intron 1 of 6)	CpG	630.0	NM_009188	20467.0	Mm.2137	NM_009188	ENSMUSG00000031622	Sin3b	2810430C10Rik	transcriptional regulator, SIN3B (yeast)	protein-coding	6.5	10.0	11.5	108.5	7.0	5.0	4.5	4.0
Merged-chr13-91093363-3	chr13	91093268	91093468	+	753.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 3 of 7)	intron (NM_025770, intron 3 of 7)	130619.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	20.0	6.0	12.0	120.5	17.5	3.5	11.0	9.5
Merged-chr15-25891755-4	chr15	25891666	25891866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 2 of 8)	ID_B1|SINE|B4	-41786.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	63.5	77.5	83.0	1457.5	127.5	37.0	87.0	66.0
Merged-chr1-45947968-3	chr1	45947864	45948064	+	711.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22370.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	3.0	5.5	3.5	163.5	9.5	5.0	12.5	12.0
Merged-chr3-54755562-3	chr3	54755493	54755693	+	882.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019483)	promoter-TSS (NM_019483)	11.0	NM_019483	55994.0	Mm.244353	NM_019483	ENSMUSG00000027796	Smad9	MADH6|Madh8|Madh9|Smad8	SMAD family member 9	protein-coding	6.5	6.0	8.0	138.0	7.0	4.5	8.5	10.0
Merged-chr4-47320090-4	chr4	47319973	47320173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-33149.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	49.5	56.0	51.5	686.0	97.5	42.0	34.0	36.5
Merged-chr3-69202532-4	chr3	69202427	69202627	+	944.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-19892.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	10.5	44.5	14.5	191.0	43.5	19.5	16.5	14.0
Merged-chr12-71040598-4	chr12	71040494	71040694	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081195, intron 8 of 23)	PB1|SINE|Alu	24627.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	18.0	11.0	11.0	320.5	50.0	19.0	17.5	10.0
Merged-chr15-58870143-4	chr15	58870082	58870282	+	954.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2467.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	12.5	19.0	11.5	135.5	33.5	14.5	9.0	11.0
Merged-chr17-71598773-4	chr17	71598701	71598901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015549)	promoter-TSS (NR_015549)	-40.0	NR_027952	68789.0	Mm.75202	NR_015549	ENSMUSG00000085492	Trmt61b	1110039F03Rik|623451|Gm6431	tRNA methyltransferase 61B	ncRNA	110.5	148.0	105.0	1768.5	358.0	114.0	139.5	140.5
Merged-chr10-59692666-4	chr10	59692556	59692756	+	892.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9907.0	NM_001359267	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	18.0	16.0	15.0	120.5	33.5	14.0	19.0	17.5
Merged-chr1-44101643-3	chr1	44101551	44101751	+	903.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029368, intron 2 of 7)	intron (NM_029368, intron 2 of 7)	790.0	NM_029368	75623.0	Mm.348017	NM_029368	ENSMUSG00000026049	Tex30	1700029F09Rik|3110030D08Rik	testis expressed 30	protein-coding	7.5	16.5	15.0	190.5	22.0	8.5	13.0	11.0
Merged-chr7-128379023-4	chr7	128378922	128379122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 4 of 4)	MLT1C|LTR|ERVL-MaLR	39150.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	34.5	68.0	46.0	781.0	97.0	37.5	57.0	53.0
Merged-chr16-57593928-3	chr16	57593816	57594016	+	938.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025599, intron 1 of 9)	intron (NM_025599, intron 1 of 9)	12951.0	NM_025599	66497.0	Mm.425976	NM_025599	ENSMUSG00000022748	Cmss1	1110001A06Rik|2610528E23Rik|4930572F24Rik|AV099812|AV122629	cms small ribosomal subunit 1	protein-coding	6.5	8.0	10.0	44.0	41.0	11.0	4.0	10.0
Merged-chr10-90970059-2	chr10	90969959	90970159	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001128086, exon 25 of 25)	3' UTR (NM_001128086, exon 25 of 25)	112684.0	NM_001042558	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	6.0	1.0	1.5	35.5	6.5	9.5	8.5	10.5
Merged-chr15-3202449-3	chr15	3202350	3202550	+	783.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68317.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	12.0	12.5	2.5	79.5	15.0	5.0	7.5	4.5
Merged-chr8-70903274-4	chr8	70903180	70903380	+	848.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2694.0	NM_173013	270058.0	Mm.248559	NM_173013	ENSMUSG00000019261	Map1s	6430517J16Rik|Bpy2ip1|Map8|Mtap1s|VCY2IP1	microtubule-associated protein 1S	protein-coding	7.5	7.5	6.0	99.5	46.0	12.0	11.0	14.5
Merged-chr4-53109003-2	chr4	53108903	53109103	+	938.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 6 of 49)	intron (NM_013454, intron 6 of 49)	50892.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	7.0	6.5	7.0	179.5	20.5	2.5	8.5	4.0
Merged-chr9-120591664-4	chr9	120591568	120591768	+	730.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	14337.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	10.5	13.0	8.0	84.5	27.5	5.5	15.5	7.0
Merged-chr5-64243129-2	chr5	64243029	64243229	+	617.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	intron (NM_001289514, intron 1 of 18)	12772.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	4.5	9.0	6.5	59.0	10.0	5.0	7.5	1.5
Merged-chr15-67146874-4	chr15	67146756	67146956	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 2 of 8)	intron (NM_009177, intron 2 of 8)	30026.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	7.5	35.0	19.0	313.0	20.0	6.0	16.5	24.5
Merged-chr6-135175718-2	chr6	135175677	135175877	+	803.0	f0_balb.idr|f1_balb.idr	Intergenic	B1_Mus2|SINE|Alu	-7562.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	7.0	8.5	9.0	49.0	1.5	2.0	0.5	0.0
Merged-chr1-80452274-4	chr1	80452113	80452313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040460, intron 2 of 2)	L2|LINE|L2	6281.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	24.5	21.5	51.5	666.0	56.0	24.0	36.0	35.5
Merged-chr3-121637966-4	chr3	121637863	121638063	+	782.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036458, intron 2 of 2)	intron (NR_036458, intron 2 of 2)	5522.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	12.5	11.5	18.5	167.5	27.0	14.5	10.5	9.5
Merged-chr7-121985656-2	chr7	121985556	121985756	+	864.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3963.0	NM_001033318	233824.0	Mm.442015	NM_001033318	ENSMUSG00000034951	Cog7	5630400E24Rik|Gm167	component of oligomeric golgi complex 7	protein-coding	3.5	7.0	3.0	60.5	7.5	9.5	7.5	8.5
Merged-chr13-104817075-4	chr13	104816967	104817167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026072)	promoter-TSS (NM_026072)	-103.0	NM_026075	67288.0	Mm.125465	NM_026075	ENSMUSG00000021716	Srek1ip1	3110031B13Rik|AI462702|AV348305|AW121048|Sfrs12ip1|Srsf12ip1	splicing regulatory glutamine/lysine-rich protein 1interacting protein 1	protein-coding	50.0	70.0	103.5	801.5	108.5	43.5	37.5	52.5
Merged-chr16-91380455-3	chr16	91380384	91380584	+	986.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 1 of 7)	intron (NM_001347258, intron 1 of 7)	7701.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	14.0	36.0	14.0	19.5	10.0	17.5	1.0	1.0
Merged-chr18-38348759-4	chr18	38348657	38348857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9764.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	32.0	22.5	30.0	352.5	41.0	20.0	21.5	25.0
Merged-chr15-25984303-4	chr15	25984193	25984393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144523)	promoter-TSS (NM_144523)	-73.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	352.5	559.5	385.0	5049.5	905.0	316.5	450.5	289.0
Merged-chr8-11336699-4	chr8	11336606	11336806	+	917.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 3 of 47)	intron (NM_009932, intron 3 of 47)	-23880.0	NM_009931	12826.0	Mm.738	NM_009931	ENSMUSG00000031502	Col4a1	Bru|Col4a-1|Raw|Svc	collagen, type IV, alpha 1	protein-coding	32.5	29.0	24.5	578.5	24.0	14.5	15.5	14.5
Merged-chr2-46149987-4	chr2	46149877	46150077	+	856.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	453372.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	11.5	11.5	13.5	170.0	9.5	13.5	10.0	9.0
Merged-chr2-59425831-4	chr2	59425781	59425981	+	848.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39199.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	5.5	7.5	11.0	144.5	15.5	6.0	11.0	12.0
Merged-chr3-83839622-4	chr3	83839530	83839730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011905, intron 2 of 2)	RSINE1|SINE|B4	1978.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	163.5	230.0	205.5	3044.5	308.5	112.5	141.5	155.0
Merged-chr4-141078377-4	chr4	141078293	141078493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025383)	promoter-TSS (NM_025383)	-36.0	NM_025383	66147.0	Mm.21187	NM_025383	ENSMUSG00000028923	Necap2	1110005F07Rik|AA409105|C78898|NECAP-2	NECAP endocytosis associated 2	protein-coding	94.5	128.0	52.5	1041.5	239.0	86.0	86.0	97.0
Merged-chr12-40273502-4	chr12	40273411	40273611	+	971.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50147.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	29.0	40.5	9.5	446.5	73.0	15.5	18.0	24.0
Merged-chr11-17170135-3	chr11	17170058	17170258	+	931.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 1 of 5)	intron (NM_024459, intron 1 of 5)	10860.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	10.0	5.5	7.0	207.0	8.0	3.0	9.0	9.5
Merged-chr6-57582577-4	chr6	57582473	57582673	+	887.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025992, intron 1 of 22)	MER57E1|LTR|ERV1	1581.0	NM_025992	67138.0	Mm.297393	NM_025992	ENSMUSG00000029798	Herc6	1700121D12Rik|2510038N07Rik|4930427L17Rik|AI451296|CEB1|Herc5	hect domain and RLD 6	protein-coding	10.5	9.0	4.5	195.5	38.0	24.0	16.0	11.5
Merged-chr2-132689410-4	chr2	132689314	132689514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358261)	promoter-TSS (NM_001358261)	-743.0	NM_001358261	73747.0	Mm.284114	NM_028637	ENSMUSG00000044991	1110034G24Rik	-	RIKEN cDNA 1110034G24 gene	protein-coding	59.5	50.5	40.5	821.0	118.5	43.0	55.0	54.5
Merged-chr16-44793875-3	chr16	44793770	44793970	+	721.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 6 of 6)	intron (NM_021325, intron 6 of 6)	-26858.0	NM_207244	239849.0	Mm.445045	NM_207244	ENSMUSG00000062082	Cd200r4	F630107N04Rik|MCD200RLa	CD200 receptor 4	protein-coding	8.0	12.5	10.5	264.5	10.5	2.0	2.0	5.0
Merged-chr5-95918648-3	chr5	95918548	95918748	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38291.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	35.5	28.5	32.5	296.5	11.0	6.5	9.5	11.0
Merged-chr7-7300707-4	chr7	7300611	7300811	+	957.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126157, exon 1 of 3)	non-coding (NR_126157, exon 1 of 3)	140.0	NR_126157	12727.0	Mm.297883	NM_011334	ENSMUSG00000000605	Clcn4	Clc4-2|Clcn4-2|clC-4	chloride channel, voltage-sensitive 4	protein-coding	8.0	10.0	21.0	187.5	73.5	17.5	28.0	35.5
Merged-chr5-100616907-4	chr5	100616803	100617003	+	880.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44698.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	14.5	24.0	4.0	114.0	34.5	11.0	12.5	17.5
Merged-chr11-97994764-5	chr11	97994611	97994811	+	948.9381099999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207231, intron 2 of 5)	intron (NM_207231, intron 2 of 5)	1462.0	NM_207231	217151.0	Mm.277896	NM_207231	ENSMUSG00000038352	Arl5c	Arl12|BC065791	ADP-ribosylation factor-like 5C	protein-coding	15.5	22.0	10.5	151.0	63.5	10.0	22.5	16.0
Merged-chr4-47050410-4	chr4	47050288	47050488	+	663.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024136, intron 1 of 14)	intron (NM_001024136, intron 1 of 14)	6918.0	NR_151464	75691.0	Mm.86866	NM_001024136	ENSMUSG00000066191	Anks6	2210417J20Rik|Ankrd14|Gm635|SamCystin|Samd6|b2b1801.1Clo	ankyrin repeat and sterile alpha motif domain containing 6	protein-coding	5.5	5.0	8.0	89.0	27.5	6.5	4.5	11.0
Merged-chr13-67269123-4	chr13	67269040	67269240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155551)	promoter-TSS (NR_155551)	-72.0	NM_001001152	238690.0	Mm.306358	NM_001001152	ENSMUSG00000055480	Zfp458	BC062958|Gm33446|Rslcan-7|Znf728|mszf59-2	zinc finger protein 458	protein-coding	68.5	87.0	56.5	937.5	230.5	75.5	87.0	83.5
Merged-chr6-123262096-4	chr6	123262005	123262205	+	810.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010819)	promoter-TSS (NM_010819)	-2.0	NM_001163161	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	15.0	19.0	20.0	173.5	27.5	10.5	17.5	5.0
Merged-chr8-105225164-4	chr8	105225070	105225270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145604)	promoter-TSS (NM_145604)	-18.0	NM_145604	234678.0	Mm.27186	NM_145604	ENSMUSG00000031889	D230025D16Rik	BC006874|Lin10	RIKEN cDNA D230025D16 gene	protein-coding	91.0	167.0	89.5	1393.5	262.0	84.5	108.0	108.0
Merged-chr1-74788090-4	chr1	74788041	74788241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3878.0	NM_009518	22409.0	Mm.5130	NM_009518	ENSMUSG00000026167	Wnt10a	-	wingless-type MMTV integration site family, member 10A	protein-coding	9.5	20.0	11.0	95.5	39.0	13.5	12.0	22.0
Merged-chr2-127831525-2	chr2	127831425	127831625	+	560.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009772, intron 1 of 24)	CpG	334.0	NM_001113179	12235.0	Mm.2185	NM_009772	ENSMUSG00000027379	Bub1	AL022991|Bub1a|C80208|D2Xrf87	BUB1, mitotic checkpoint serine/threonine kinase	protein-coding	7.0	9.0	4.5	64.5	12.0	10.0	7.5	5.5
Merged-chr5-90654607-2	chr5	90654512	90654712	+	945.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14085.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	4.0	11.5	11.5	161.0	20.5	6.0	13.0	4.5
Merged-chr7-4238136-3	chr7	4238038	4238238	+	954.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081239, exon 3 of 6)	exon (NM_001081239, exon 3 of 6)	384.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	14.5	37.5	17.5	144.5	12.0	6.5	3.0	10.5
Merged-chr2-117087717-4	chr2	117087634	117087834	+	965.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33337.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	22.0	48.0	25.0	391.5	56.5	16.0	18.5	17.0
Merged-chr13-58117841-4	chr13	58117749	58117949	+	903.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4202.0	NM_001362415	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	7.5	17.0	9.0	214.0	47.5	13.0	13.0	17.0
Merged-chr9-100531326-2	chr9	100531226	100531426	+	719.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 1 of 3)	HAL1|LINE|L1	14808.0	NM_010878	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	1.0	5.5	10.0	83.0	15.0	5.0	5.5	7.0
Merged-chr17-24163780-4	chr17	24163679	24163879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172935)	promoter-TSS (NM_172935)	-46.0	NM_172935	245847.0	Mm.87319	NM_172935	ENSMUSG00000036820	Amdhd2	5730457F11Rik	amidohydrolase domain containing 2	protein-coding	128.0	202.5	112.0	1355.5	401.5	174.0	133.5	189.5
Merged-chr4-44065864-4	chr4	44065762	44065962	+	890.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190414, intron 2 of 11)	intron (NM_001190414, intron 2 of 11)	6855.0	NM_001357539	50798.0	Mm.256718	NM_015828	ENSMUSG00000028479	Gne	2310066H07Rik|DMRV|GLCNE|IBM2|NM|Uae1	glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase	protein-coding	20.5	18.0	12.5	195.0	52.5	13.0	15.0	19.0
Merged-chr7-63999844-4	chr7	63999730	63999930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60915.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	59.5	66.5	57.5	1045.0	207.5	75.5	84.0	58.0
Merged-chr5-64505453-4	chr5	64505348	64505548	+	745.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28440.0	NR_045413	77382.0	Mm.366742	NR_045411	ENSMUSG00000105352	C030018K13Rik	-	RIKEN cDNA C030018K13 gene	ncRNA	6.0	21.0	4.0	157.5	22.0	11.0	10.0	5.5
Merged-chr15-84923236-4	chr15	84923146	84923346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016714)	promoter-TSS (NM_016714)	-182.0	NM_016714	18141.0	Mm.28379	NM_016714	ENSMUSG00000016619	Nup50	1700030K07Rik|AI413123|Npap60	nucleoporin 50	protein-coding	195.5	270.5	156.0	1794.0	439.5	206.0	159.0	166.0
Merged-chr1-154103775-4	chr1	154103672	154103872	+	906.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	-97415.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	16.0	51.0	17.0	199.0	33.5	10.0	8.0	4.0
Merged-chr2-68826430-1	chr2	68826330	68826530	+	564.0	f0_balb.idr	Intergenic	Lx5c|LINE|L1	-35011.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	7.5	8.0	8.0	53.5	11.5	7.5	8.5	6.0
Merged-chr8-35430745-4	chr8	35430668	35430868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55027.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	36.5	68.5	51.0	1026.0	32.5	14.5	24.0	31.0
Merged-chr3-35754562-4	chr3	35754463	35754663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151627, intron 1 of 31)	CpG	500.0	NM_029570	76295.0	Mm.239416	NM_029570	ENSMUSG00000037400	Atp11b	1110019I14Rik|ATPIF|ATPIR|mKIAA0956	ATPase, class VI, type 11B	protein-coding	50.5	56.0	46.0	574.0	85.0	46.5	35.0	30.5
Merged-chr3-109169302-4	chr3	109169186	109169386	+	794.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172685)	TTS (NM_172685)	46137.0	NM_172685	229731.0	Mm.33574	NM_172685	ENSMUSG00000040322	Slc25a24	2610016M12Rik	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 24	protein-coding	5.5	9.5	7.0	137.5	15.0	7.0	4.5	7.5
Merged-chr11-120824456-8	chr11	120824339	120824539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007988, exon 1 of 43)	5' UTR (NM_007988, exon 1 of 43)	108.0	NM_007988	14104.0	Mm.236443	NM_007988	ENSMUSG00000025153	Fasn	A630082H08Rik|FAS	fatty acid synthase	protein-coding	47.0	57.5	44.5	537.0	110.0	31.5	41.5	45.5
Merged-chr8-120101410-4	chr8	120101304	120101504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133967)	promoter-TSS (NM_133967)	68.0	NM_133967	102193.0	Mm.240076	NM_133967	ENSMUSG00000031823	Zdhhc7	AL024087|Gramp2	zinc finger, DHHC domain containing 7	protein-coding	61.0	77.0	64.5	1142.0	170.0	51.0	95.0	76.0
Merged-chr11-17211559-4	chr11	17211463	17211663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178909)	promoter-TSS (NM_178909)	26.0	NM_025443	66249.0	Mm.27831	NM_025443	ENSMUSG00000020116	Pno1	1810003N24Rik|AA407421|AU015468|AU019495|AU042323|Emi3|Imi3	partner of NOB1 homolog	protein-coding	110.5	173.0	89.5	1544.5	439.5	172.5	175.5	181.5
Merged-chr4-134124235-7	chr4	134124113	134124313	+	864.914307	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045571, intron 10 of 13)	intron (NR_045571, intron 10 of 13)	4540.0	NM_080559	73723.0	Mm.22240	NM_080559	ENSMUSG00000028843	Sh3bgrl3	1110004L05Rik|AU022188	SH3 domain binding glutamic acid-rich protein-like 3	protein-coding	7.5	10.5	4.5	82.5	15.0	5.5	5.5	15.0
Merged-chr1-37002266-4	chr1	37002175	37002375	+	801.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-62748.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	6.5	14.0	5.5	81.5	24.5	3.5	6.0	7.5
Merged-chr14-87215303-4	chr14	87215219	87215419	+	883.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74095.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	20.5	21.5	8.5	298.5	40.0	9.5	15.5	17.0
Merged-chr8-24424434-4	chr8	24424333	24424533	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	14513.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	14.0	23.5	26.5	466.0	62.0	29.5	35.0	42.0
Merged-chr18-6241454-4	chr18	6241354	6241554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008448)	promoter-TSS (NM_008448)	70.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	78.0	102.0	114.0	1126.0	97.5	38.0	75.5	56.0
Merged-chr9-107968260-4	chr9	107968186	107968386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011634, intron 10 of 14)	intron (NM_011634, intron 10 of 14)	-7281.0	NM_023738	74153.0	Mm.277125	NM_023738	ENSMUSG00000032596	Uba7	1300004C08Rik|Ube1l	ubiquitin-like modifier activating enzyme 7	protein-coding	31.5	50.0	32.5	548.0	52.0	23.0	35.0	47.0
Merged-chr1-180265076-4	chr1	180264974	180265174	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8774.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	17.5	18.0	20.0	363.0	35.0	17.0	28.0	22.0
Merged-chr15-101231208-3	chr15	101231108	101231308	+	691.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019518, intron 7 of 7)	intron (NM_019518, intron 7 of 7)	-6022.0	NR_045328	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	11.0	9.0	2.0	86.0	30.5	13.0	9.0	14.0
Merged-chr4-43924894-3	chr4	43924790	43924990	+	611.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016678, intron 11 of 20)	intron (NM_016678, intron 11 of 20)	-32812.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	6.5	9.0	1.5	66.0	20.5	5.0	6.5	5.0
Merged-chr17-5522171-3	chr17	5522069	5522269	+	878.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	GA-rich|Low_complexity|Low_complexity	29569.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	11.0	8.0	12.0	79.0	13.0	10.5	5.5	3.0
Merged-chr15-63500575-4	chr15	63500470	63500670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20962.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	84.0	67.5	150.5	2121.0	131.0	37.0	75.5	67.0
Merged-chr10-87812851-3	chr10	87812744	87812944	+	904.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45421.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	5.5	14.5	11.5	109.5	9.0	2.5	6.5	10.5
Merged-chr4-47258759-3	chr4	47258656	47258856	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009928, exon 8 of 40)	exon (NM_009928, exon 8 of 40)	50744.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	7.5	11.0	8.0	198.0	17.0	3.0	7.0	11.5
Merged-chr15-35155839-4	chr15	35155726	35155926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019635)	promoter-TSS (NM_019635)	-20.0	NM_019635	56274.0	Mm.262330	NM_019635	ENSMUSG00000022329	Stk3	0610042I06Rik|MST|Mst2|Mst3|Ste20|mess1	serine/threonine kinase 3	protein-coding	294.5	383.0	300.0	4848.0	585.0	191.5	361.0	227.5
Merged-chr2-181548419-4	chr2	181548300	181548500	+	867.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271584, intron 4 of 5)	intron (NM_001271584, intron 4 of 5)	27915.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	6.5	19.0	12.5	232.5	22.5	1.5	4.0	9.5
Merged-chr10-83301851-3	chr10	83301757	83301957	+	821.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177388, intron 4 of 10)	intron (NM_177388, intron 4 of 10)	35960.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	11.0	10.0	8.0	123.0	4.0	3.5	9.0	4.0
Merged-chr4-107179352-1	chr4	107179252	107179452	+	681.0	f0_balb.idr	promoter-TSS (NM_025617)	promoter-TSS (NM_025617)	722.0	NM_029565	56374.0	Mm.291192	NM_029565	ENSMUSG00000028618	Tmem59	1110001M20Rik|3110046P06Rik|AI256529|D4Ertd20e|MTDCF1|ORF18	transmembrane protein 59	protein-coding	19.0	10.5	5.5	119.0	15.0	9.5	7.5	13.5
Merged-chr10-15321739-1	chr10	15321639	15321839	+	865.75	f0_balb.idr	Intergenic	Intergenic	-470038.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	21.0	13.5	16.0	406.5	12.0	5.0	5.0	6.0
Merged-chr17-34165296-4	chr17	34165241	34165441	+	822.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	12150.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	2.5	9.5	12.5	32.5	18.5	10.0	11.5	7.0
Merged-chr5-139484571-4	chr5	139484467	139484667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159908)	promoter-TSS (NM_001159908)	-76.0	NM_001159908	100494.0	Mm.24521	NM_133349	ENSMUSG00000053581	Zfand2a	AA407930|AU016206|Airap	zinc finger, AN1-type domain 2A	protein-coding	188.0	291.5	160.0	2301.5	386.0	157.0	140.0	152.5
Merged-chr3-138118929-3	chr3	138118825	138119025	+	900.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001355052, intron 7 of 21)	intron (NM_001355052, intron 7 of 21)	12728.0	NM_008642	17777.0	Mm.2941	NM_008642	ENSMUSG00000028158	Mttp	1810043K16Rik|MTP	microsomal triglyceride transfer protein	protein-coding	11.5	25.5	16.5	299.5	49.0	19.0	16.5	7.5
Merged-chr7-97809525-4	chr7	97809430	97809630	+	891.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357364, intron 1 of 14)	MIRb|SINE|MIR	20989.0	NM_001357364	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	12.5	9.0	12.0	240.5	53.0	9.0	22.0	47.5
Merged-chr9-66511844-4	chr9	66511743	66511943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175206, exon 2 of 2)	exon (NM_175206, exon 2 of 2)	2750.0	NM_175206	74165.0	Mm.297998	NM_175206	ENSMUSG00000050503	Fbxl22	1110004B15Rik	F-box and leucine-rich repeat protein 22	protein-coding	164.5	227.0	153.5	2372.0	426.0	140.0	167.0	173.5
Merged-chr2-31769641-8	chr2	31769580	31769780	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283045, intron 1 of 10)	intron (NM_001283045, intron 1 of 10)	9507.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	17.0	20.5	8.0	257.0	50.0	16.5	20.5	41.5
Merged-chr11-115164592-4	chr11	115164513	115164713	+	962.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 1 of 5)	intron (NM_012030, intron 1 of 5)	1272.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	17.5	13.0	25.0	222.0	48.5	9.0	23.0	15.5
Merged-chr15-64047804-4	chr15	64047701	64047901	+	816.979126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	MTEa|LTR|ERVL-MaLR	11963.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	18.5	17.5	7.0	194.0	24.5	6.0	12.0	9.0
Merged-chr15-101210291-2	chr15	101210191	101210391	+	991.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_007395, intron 8 of 8)	intron (NM_007395, intron 8 of 8)	-10956.0	NR_045996	105968.0	Mm.120798	NR_045996	ENSMUSG00000115944	AU021063	-	expressed sequence AU021063	ncRNA	1.0	0.5	3.5	10.5	5.5	5.0	5.5	5.5
Merged-chr10-22070352-3	chr10	22070279	22070479	+	967.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2300.0	NM_053264	114671.0	Mm.288194	NM_053264	ENSMUSG00000069712	4930444G20Rik	-	RIKEN cDNA 4930444G20 gene	protein-coding	1.5	1.5	2.0	35.0	43.5	9.5	32.0	17.0
Merged-chr5-16047535-4	chr5	16047417	16047617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110843, intron 3 of 38)	intron (NM_001110843, intron 3 of 38)	112826.0	NM_001110844	12293.0	Mm.159842	NM_009784	ENSMUSG00000040118	Cacna2d1	Ca(v)alpha2delta1|Cacna2|Cchl2a	calcium channel, voltage-dependent, alpha2/delta subunit 1	protein-coding	50.0	47.5	51.5	852.5	72.5	40.5	63.0	22.0
Merged-chr11-4710235-4	chr11	4710062	4710262	+	861.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026015, intron 1 of 5)	intron (NM_026015, intron 1 of 5)	5506.0	NM_001356390	67178.0	Mm.271056	NM_026015	ENSMUSG00000009076	Zmat5	2610510L01Rik|D11Bwg0572e|D11Bwg1548e	zinc finger, matrin type 5	protein-coding	5.5	6.0	2.0	50.0	10.0	8.5	11.5	14.5
Merged-chr11-31949580-4	chr11	31949497	31949697	+	769.012512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16036.0	NM_026262	67592.0	Mm.78654	NM_026262	ENSMUSG00000020299	4930524B15Rik	-	RIKEN cDNA 4930524B15 gene	protein-coding	4.5	2.0	5.5	80.0	37.0	9.0	6.0	11.0
Merged-chr1-156474275-4	chr1	156474167	156474367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009230)	promoter-TSS (NM_009230)	61.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	61.0	106.5	68.5	1140.0	215.5	69.0	63.5	100.5
Merged-chr9-49427629-3	chr9	49427493	49427693	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172922)	promoter-TSS (NM_172922)	-572.0	NM_172922	244859.0	Mm.119994	NM_172922	ENSMUSG00000032257	Ankk1	9930020N01Rik	ankyrin repeat and kinase domain containing 1	protein-coding	38.5	46.5	48.5	853.5	3.0	1.0	0.0	1.5
Merged-chr13-54686004-2	chr13	54685904	54686104	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_027396, intron 1 of 10)	MIRb|SINE|MIR	1804.0	NM_001146025	105239.0	Mm.25366	NM_134064	ENSMUSG00000034928	Rnf44	AI854545|mKIAA1100	ring finger protein 44	protein-coding	5.5	4.0	4.5	59.5	14.0	5.0	5.5	5.5
Merged-chr5-39831389-4	chr5	39831278	39831478	+	758.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186747.0	NM_010474	15476.0	Mm.12559	NM_010474	ENSMUSG00000051022	Hs3st1	3-Ost|D5Wsu110e|Hsg3ost	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	protein-coding	10.0	14.0	6.5	184.5	28.0	7.0	8.0	12.0
Merged-chr8-25226636-4	chr8	25226532	25226732	+	837.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25090.0	NM_177089	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	8.5	12.0	12.5	167.5	28.0	17.0	18.0	13.0
Merged-chr8-120596155-3	chr8	120596057	120596257	+	793.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7082.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	6.5	17.0	2.0	71.0	15.5	10.5	6.5	10.5
Merged-chr13-90089125-4	chr13	90089025	90089225	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025335)	promoter-TSS (NM_025335)	483.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	19.0	15.5	22.5	229.0	28.0	16.5	28.0	21.5
Merged-chr16-17276302-4	chr16	17276208	17276408	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177473)	promoter-TSS (NM_177473)	8.0	NM_177473	224019.0	Mm.246388	NM_177473	ENSMUSG00000055692	Tmem191c	4933405M22Rik|D16Bwg1494e|MNCb-4137	transmembrane protein 191C	protein-coding	37.0	52.0	30.0	491.0	88.0	15.0	40.5	30.5
Merged-chr19-23759727-4	chr19	23759668	23759868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177034, intron 1 of 12)	intron (NM_177034, intron 1 of 12)	892.0	NM_177034	319924.0	Mm.22879	NM_177034	ENSMUSG00000024897	Apba1	6430513E09Rik|Lin-10|Mint|Mint1|Urop11|X11|X11alpha	amyloid beta (A4) precursor protein binding, family A, member 1	protein-coding	48.5	45.0	52.0	1124.5	84.5	23.5	57.0	53.0
Merged-chr11-58211125-4	chr11	58211020	58211220	+	972.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3857.0	NM_019440	54396.0	Mm.458517	NM_019440	ENSMUSG00000069874	Irgm2	AI481100|GTPI|Ifggd2|Iigp2	immunity-related GTPase family M member 2	protein-coding	30.0	55.0	34.0	304.5	90.5	17.0	37.5	15.0
Merged-chr7-6174635-4	chr7	6174537	6174737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146024, intron 2 of 4)	B2_Mm2|SINE|B2	2124.0	NM_001146024	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	31.5	59.5	35.0	234.5	81.0	34.5	23.5	38.5
Merged-chr9-37605842-3	chr9	37605762	37605962	+	710.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001324545, exon 4 of 5)	exon (NM_001324545, exon 4 of 5)	7858.0	NM_011449	20686.0	Mm.8637	NM_011449	ENSMUSG00000001948	Spa17	Sp17	sperm autoantigenic protein 17	protein-coding	8.0	9.5	7.0	165.5	11.5	4.0	16.5	8.5
Merged-chr17-34398298-4	chr17	34398158	34398358	+	958.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001177)	promoter-TSS (NM_001001177)	-562.0	NM_001001177	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	24.0	31.0	9.0	138.0	96.5	25.5	24.5	23.0
Merged-chr4-139587535-4	chr4	139587437	139587637	+	935.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 1 of 8)	intron (NM_001205173, intron 1 of 8)	12817.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	6.0	2.5	10.0	121.5	56.0	14.5	32.5	43.5
Merged-chr6-53951141-3	chr6	53951029	53951229	+	851.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027749, intron 6 of 12)	intron (NM_027749, intron 6 of 12)	27544.0	NM_027749	71287.0	Mm.158654	NM_027749	ENSMUSG00000052955	Cpvl	4933436L16Rik|HVLP	carboxypeptidase, vitellogenic-like	protein-coding	3.5	14.0	7.0	145.0	10.0	4.5	14.0	6.0
Merged-chr15-57988045-4	chr15	57987941	57988141	+	852.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173862, intron 1 of 3)	intron (NM_173862, intron 1 of 3)	2138.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	26.0	46.0	8.0	142.0	40.0	22.5	18.0	13.5
Merged-chr11-29148725-3	chr11	29148614	29148814	+	579.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027869, intron 18 of 27)	intron (NM_027869, intron 18 of 27)	17963.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	6.5	11.0	10.0	73.0	20.0	4.0	2.0	4.5
Merged-chr13-37620078-7	chr13	37619967	37620167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205971.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	64.5	143.0	109.0	943.0	174.5	58.5	76.5	69.0
Merged-chr10-127618593-7	chr10	127618471	127618671	+	928.535706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 1 of 88)	intron (NM_008512, intron 1 of 88)	2577.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	3.5	7.0	10.5	82.0	20.0	6.5	16.0	15.0
Merged-chr10-25360711-4	chr10	25360566	25360766	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	intron (NM_001358754, intron 1 of 16)	868.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	12.5	27.0	10.5	277.0	67.5	17.0	22.0	25.5
Merged-chr5-34233107-4	chr5	34233012	34233212	+	719.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 5 of 12)	intron (NM_001015039, intron 5 of 12)	-45402.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	13.5	7.0	9.5	121.5	23.5	3.0	8.5	6.5
Merged-chr1-70856098-4	chr1	70856002	70856202	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177164, intron 3 of 3)	intron (NM_177164, intron 3 of 3)	130387.0	NM_177164	320460.0	Mm.360649	NM_177164	ENSMUSG00000045648	Vwc2l	A830006F12Rik|Brl	von Willebrand factor C domain-containing protein 2-like	protein-coding	39.0	29.5	41.5	719.0	48.5	12.5	36.5	24.0
Merged-chr8-4238007-3	chr8	4237871	4238071	+	903.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164172)	promoter-TSS (NM_001164172)	-769.0	NM_011944	26400.0	Mm.3906	NM_011944	ENSMUSG00000002948	Map2k7	5930412N11Rik|JNKK 2|Jnkk2|MAPKK 7|MEK 7|Mapkk7|Mek7|Mkk7|Prkmk7|sek2	mitogen-activated protein kinase kinase 7	protein-coding	7.5	8.5	14.5	75.5	14.0	2.0	5.0	9.5
Merged-chr13-5845836-4	chr13	5845731	5845931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12261.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	84.0	102.5	47.5	1368.5	163.5	56.0	77.0	53.5
Merged-chr3-88503463-7	chr3	88503376	88503576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111102)	promoter-TSS (NM_001111102)	-124.0	NM_001002011	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	35.5	29.5	27.5	244.5	36.0	37.0	16.0	27.0
Merged-chr9-86513579-3	chr9	86513501	86513701	+	852.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 16 of 38)	intron (NM_177208, intron 16 of 38)	46447.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	4.0	5.5	13.5	131.0	11.0	6.0	7.0	7.5
Merged-chr6-28480175-4	chr6	28480080	28480280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019776)	promoter-TSS (NM_019776)	-168.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	499.0	709.5	483.5	7461.0	1100.5	495.0	576.5	470.5
Merged-chr11-21424514-4	chr11	21424399	21424599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53232.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	58.5	65.5	40.0	751.5	119.0	33.5	31.5	39.5
Merged-chr5-72291681-3	chr5	72291588	72291788	+	899.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 21 of 22)	intron (NR_003966, intron 21 of 22)	88345.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	7.0	13.5	6.5	176.5	11.0	2.0	4.5	8.5
Merged-chr15-96743436-4	chr15	96743333	96743533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43705.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	37.0	27.5	36.0	524.5	55.0	21.5	22.0	23.0
Merged-chr16-17233576-4	chr16	17233467	17233667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178922)	promoter-TSS (NM_178922)	-20.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	125.0	138.0	90.0	1405.0	262.5	121.5	128.5	87.0
Merged-chr13-118420611-2	chr13	118420513	118420713	+	1000.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-33361.0	NM_021556	59054.0	Mm.143810	NM_021556	ENSMUSG00000021731	Mrps30	2610020A16Rik|AA968347|PAP|Pdcd9	mitochondrial ribosomal protein S30	protein-coding	3.0	6.0	1.0	61.0	110.5	21.5	63.0	29.5
Merged-chr9-22071431-4	chr9	22071357	22071557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310759)	promoter-TSS (NM_001310759)	-81.0	NM_001310759	319601.0	Mm.347707	NM_177318	ENSMUSG00000038895	Zfp653	E430039K05Rik|Znf653	zinc finger protein 653	protein-coding	56.5	124.5	50.5	837.0	239.0	79.5	81.0	75.5
Merged-chr11-50321484-4	chr11	50321387	50321587	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110500, intron 1 of 14)	intron (NM_001110500, intron 1 of 14)	4186.0	NM_001110499	12330.0	Mm.248827	NM_007597	ENSMUSG00000020368	Canx	1110069N15Rik|AI988026|Cnx|D11Ertd153e	calnexin	protein-coding	26.5	28.5	8.0	250.5	42.5	18.5	23.5	25.5
Merged-chr10-20507276-4	chr10	20507172	20507372	+	931.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	intron (NM_013875, intron 2 of 12)	41056.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	24.5	17.0	16.0	322.0	32.0	11.0	18.0	9.0
Merged-chr6-17643524-1	chr6	17643424	17643624	+	710.0	f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	intron (NM_007604, intron 1 of 9)	6514.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	1.0	5.0	4.5	45.0	18.5	6.5	11.5	8.0
Merged-chr15-58415466-4	chr15	58415354	58415554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145959)	promoter-TSS (NM_145959)	-14.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	74.0	103.0	61.0	1056.5	188.0	71.0	62.5	77.0
Merged-chr18-9865874-4	chr18	9865768	9865968	+	912.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 7 of 9)	intron (NM_130449, intron 7 of 9)	-92312.0	NM_153552	225160.0	Mm.219648	NM_153552	ENSMUSG00000024287	Thoc1	3110002N20Rik|AW107452|NMP-84	THO complex 1	protein-coding	15.5	23.0	8.5	305.0	25.0	18.0	13.5	15.5
Merged-chr15-36902028-4	chr15	36901932	36902132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105103.0	NM_001253806	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	36.0	39.5	24.0	651.0	85.5	22.0	54.0	45.5
Merged-chr15-51729077-4	chr15	51728962	51729162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136399.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	122.0	226.0	121.5	1765.0	461.5	145.0	167.5	156.5
Merged-chr2-164497465-4	chr2	164497386	164497586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133779)	promoter-TSS (NM_133779)	-39.0	NM_133779	78928.0	Mm.28228	NM_133779	ENSMUSG00000017721	Pigt	2510012P17Rik|4930534E15Rik|CGI-06|NDAP|Ndap7	phosphatidylinositol glycan anchor biosynthesis, class T	protein-coding	33.0	60.5	22.0	440.0	71.0	34.0	47.0	30.5
Merged-chr8-68362418-1	chr8	68362318	68362518	+	545.0	f0_balb.idr	intron (NM_172753, intron 8 of 9)	intron (NM_172753, intron 8 of 9)	-6041.0	NR_038189	73609.0	Mm.443247	NR_038181	ENSMUSG00000085197	1700125H03Rik	4930510D22Rik	RIKEN cDNA 1700125H03 gene	ncRNA	6.0	6.0	6.5	101.0	0.0	0.0	1.5	1.0
Merged-chr15-38660247-4	chr15	38660130	38660330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-1674.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	70.0	50.0	80.0	1288.5	120.5	34.5	71.0	46.0
Merged-chr4-149697922-4	chr4	149697798	149697998	+	992.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008840, intron 1 of 24)	intron (NM_008840, intron 1 of 24)	810.0	NM_001164050	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	21.0	23.5	18.5	264.0	44.0	13.5	21.0	26.5
Merged-chr12-4572054-4	chr12	4571937	4572137	+	911.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20971.0	NM_001198969	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	17.0	13.5	15.0	306.0	34.0	2.5	17.5	15.0
Merged-chr17-10566660-3	chr17	10566582	10566782	+	753.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 4 of 4)	intron (NM_027032, intron 4 of 4)	110466.0	NR_077238	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	13.0	8.0	13.0	232.5	18.0	3.0	7.0	4.5
Merged-chr7-114281854-4	chr7	114281732	114281932	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5716.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	9.0	16.5	10.0	233.5	66.0	9.0	39.5	28.0
Merged-chr19-53311203-6	chr19	53311124	53311324	+	990.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360348)	promoter-TSS (NM_001360348)	-221.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	29.0	18.0	22.0	222.5	45.5	19.0	22.5	22.0
Merged-chr2-129065964-4	chr2	129065854	129066054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027192)	promoter-TSS (NM_027192)	7.0	NM_027192	69737.0	Mm.33909	NM_027192	ENSMUSG00000027394	Ttl	2410003M22Rik|2700049H19Rik|AI848570	tubulin tyrosine ligase	protein-coding	54.5	41.0	29.0	585.5	99.0	28.5	36.5	36.0
Merged-chr18-34409431-4	chr18	34409334	34409534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163004)	promoter-TSS (NM_001163004)	11.0	NM_016927	53871.0	Mm.445792	NM_016927	ENSMUSG00000014503	Pkd2l2	TRPP5	polycystic kidney disease 2-like 2	protein-coding	82.0	89.0	49.0	922.0	100.0	37.5	46.5	43.5
Merged-chr11-120071247-4	chr11	120071132	120071332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009734, intron 13 of 25)	intron (NM_009734, intron 13 of 25)	15595.0	NM_009734	12009.0	Mm.2556	NM_009734	ENSMUSG00000039781	Cep131	AZ1|Azi|Azi1	centrosomal protein 131	protein-coding	54.5	47.5	31.5	696.5	57.5	23.0	40.0	45.0
Merged-chr13-20232282-4	chr13	20232158	20232358	+	967.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 4 of 21)	intron (NM_080288, intron 4 of 21)	141751.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	27.0	12.5	16.5	438.0	73.5	12.0	29.0	32.0
Merged-chr11-77371359-4	chr11	77371252	77371452	+	909.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 1 of 13)	intron (NM_001291190, intron 1 of 13)	23072.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	18.0	24.0	32.0	519.5	23.0	1.5	24.0	10.5
Merged-chr11-23971191-4	chr11	23971090	23971290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75920.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	49.5	53.0	60.5	858.5	125.0	41.5	37.5	43.5
Merged-chr12-112517161-4	chr12	112517048	112517248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-5988.0	NM_178915	104885.0	Mm.37751	NM_178915	ENSMUSG00000054013	Tmem179	AI839735	transmembrane protein 179	protein-coding	43.0	66.0	44.0	646.0	96.5	30.0	26.5	34.0
Merged-chr10-42762334-4	chr10	42762225	42762425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359285, intron 1 of 19)	intron (NM_001359285, intron 1 of 19)	829.0	NM_153055	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	30.0	95.5	45.0	273.0	62.5	28.0	32.5	24.5
Merged-chr11-70225781-2	chr11	70225681	70225881	+	755.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007528, exon 9 of 9)	3' UTR (NM_007528, exon 9 of 9)	4017.0	NM_007528	12029.0	Mm.12930	NM_007528	ENSMUSG00000000317	Bcl6b	Bazf	B cell CLL/lymphoma 6, member B	protein-coding	6.5	7.0	5.0	18.0	7.0	1.5	3.5	4.5
Merged-chr13-45265002-4	chr13	45264901	45265101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124741.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	54.5	33.0	58.5	911.5	38.5	20.0	31.5	41.0
Merged-chr10-108157977-4	chr10	108157860	108158060	+	954.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1a|LTR|Gypsy	-4440.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	12.5	21.0	8.0	269.0	56.0	27.0	10.5	16.0
Merged-chr5-139075333-3	chr5	139075226	139075426	+	614.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359099, intron 4 of 10)	intron (NM_001359099, intron 4 of 10)	54426.0	NM_008923	19085.0	Mm.306163	NM_008923	ENSMUSG00000025855	Prkar1b	AI385716|RIbeta	protein kinase, cAMP dependent regulatory, type I beta	protein-coding	3.5	11.5	3.0	92.5	40.5	7.5	9.5	7.0
Merged-chr1-36511793-4	chr1	36511714	36511914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053186)	promoter-TSS (NM_053186)	-53.0	NM_001331209	94218.0	Mm.256323	NM_053186	ENSMUSG00000001138	Cnnm3	Acdp3|Clp3|mACDP3	cyclin M3	protein-coding	181.5	255.0	146.5	2654.5	472.0	163.0	214.5	132.5
Merged-chr7-120842808-4	chr7	120842706	120842906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007908)	promoter-TSS (NM_007908)	-25.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	67.0	65.0	39.5	912.0	153.0	39.0	59.0	59.5
Merged-chr12-34683612-4	chr12	34683516	34683716	+	952.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-154727.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	7.0	18.0	7.0	176.5	44.0	28.5	22.0	25.5
Merged-chr17-12990926-4	chr17	12990820	12991020	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175394, intron 1 of 5)	B3|SINE|B2	1339.0	NM_001113533	60532.0	Mm.275521	NM_175394	ENSMUSG00000060475	Wtap	2810408K05Rik|9430038B09Rik	Wilms tumour 1-associating protein	protein-coding	19.0	39.5	27.0	174.0	64.0	12.5	22.0	16.5
Merged-chr6-83690443-4	chr6	83690352	83690552	+	771.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-12595.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	10.0	12.5	5.0	77.0	20.0	3.5	6.5	13.0
Merged-chr10-13983045-4	chr10	13982946	13983146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	16667.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	172.5	302.0	229.5	3991.5	642.5	205.5	340.5	248.5
Merged-chr3-116008245-4	chr3	116008148	116008348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023214)	promoter-TSS (NM_023214)	-49.0	NM_001163514	58193.0	Mm.41739	NM_021388	ENSMUSG00000027963	Extl2	3000001D04Rik|AW146439	exostoses (multiple)-like 2	protein-coding	109.0	294.5	98.0	861.5	275.5	129.0	77.0	46.0
Merged-chr10-80995385-4	chr10	80995255	80995455	+	931.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	6010.0	NM_001038655	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	11.0	15.0	16.0	160.0	25.5	11.5	5.5	11.5
Merged-chr14-75149473-3	chr14	75149369	75149569	+	736.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	13044.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	4.5	12.0	6.0	154.5	16.5	10.0	13.5	3.5
Merged-chr11-90240863-1	chr11	90240763	90240963	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-8613.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	39.0	74.5	46.0	401.0	83.5	39.5	35.5	14.5
Merged-chr11-119946922-3	chr11	119946823	119947023	+	912.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037754, intron 1 of 13)	intron (NM_001037754, intron 1 of 13)	3831.0	NM_130862	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	4.5	5.0	7.0	92.5	15.0	7.0	2.5	6.0
Merged-chr2-11192947-4	chr2	11192837	11193037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	20555.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	27.5	35.5	20.5	381.0	93.5	28.5	23.5	23.5
Merged-chr9-7554541-4	chr9	7554444	7554644	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-3885.0	NM_008611	17394.0	Mm.16415	NM_008611	ENSMUSG00000005800	Mmp8	BB138268	matrix metallopeptidase 8	protein-coding	5.0	11.5	14.5	142.5	18.5	3.5	15.0	8.5
Merged-chr11-82567541-4	chr11	82567424	82567624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65829.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	38.5	53.5	49.5	708.5	114.0	37.5	60.5	58.5
Merged-chr11-102437772-4	chr11	102437654	102437854	+	952.4750369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008175)	TTS (NM_008175)	7432.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	22.0	18.5	12.5	197.0	49.0	19.0	18.0	18.5
Merged-chr1-124077742-3	chr1	124077640	124077840	+	838.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32181.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	3.0	5.5	6.5	113.5	36.5	15.5	8.5	8.5
Merged-chr2-164868652-4	chr2	164868564	164868764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-10704.0	NM_146129	228866.0	Mm.241134	NM_146129	ENSMUSG00000039849	Pcif1	2310022K11Rik|C20orf67|F730014I05Rik	PDX1 C-terminal inhibiting factor 1	protein-coding	95.0	168.5	91.0	1578.0	174.0	70.5	103.5	86.5
Merged-chr1-89069655-4	chr1	89069575	89069775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133816)	promoter-TSS (NM_133816)	-740.0	NM_133816	98402.0	Mm.170983	NM_133816	ENSMUSG00000036206	Sh3bp4	AI594717|AW227605|BOG25	SH3-domain binding protein 4	protein-coding	120.0	204.0	140.5	2326.5	298.5	99.5	151.5	119.0
Merged-chr13-44939516-3	chr13	44939408	44939608	+	806.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 7 of 9)	RLTR24|LTR|ERV1	62588.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	16.5	54.5	3.0	35.5	30.0	17.5	6.0	16.0
Merged-chr3-37729342-4	chr3	37729263	37729463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5003.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	71.0	42.0	83.5	1694.5	111.5	42.0	85.5	58.5
Merged-chr17-27935251-4	chr17	27935147	27935347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	MTC|LTR|ERVL-MaLR	25941.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	70.5	111.0	89.0	1027.0	115.5	33.5	75.5	58.0
Merged-chr18-74268148-4	chr18	74268054	74268254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013594)	promoter-TSS (NM_013594)	-21.0	NM_001357423	17190.0	Mm.22522	NM_013594	ENSMUSG00000024561	Mbd1	Cxxc3|PCM1	methyl-CpG binding domain protein 1	protein-coding	205.5	272.0	193.0	3439.5	522.0	170.0	245.5	241.5
Merged-chr17-86967881-3	chr17	86967790	86967990	+	945.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	4779.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	9.5	11.0	13.5	97.5	11.5	9.5	10.0	4.0
Merged-chr4-59879608-1	chr4	59879508	59879708	+	715.5	f0_balb.idr	intron (NM_172468, intron 4 of 8)	intron (NM_172468, intron 4 of 8)	35448.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	10.0	5.5	9.5	258.0	12.5	5.0	6.5	5.5
Merged-chr11-72694145-2	chr11	72694062	72694262	+	654.75	f0_balb.idr|f0_c57.idr	intron (NM_009671, intron 1 of 24)	ORR1C2|LTR|ERVL-MaLR	4160.0	NM_009671	11736.0	Mm.10313	NM_009671	ENSMUSG00000020790	Ankfy1	Ankhzn|ZFYVE14|mKIAA1255	ankyrin repeat and FYVE domain containing 1	protein-coding	9.5	8.0	6.5	119.5	24.5	6.5	14.0	9.0
Merged-chr5-24053523-2	chr5	24053421	24053621	+	630.666626	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22831.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	5.5	7.5	5.5	92.5	8.5	4.0	5.5	16.0
Merged-chr4-139616847-4	chr4	139616727	139616927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_183148, exon 12 of 12)	3' UTR (NM_183148, exon 12 of 12)	-6067.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	35.5	32.5	24.5	408.5	51.0	30.0	31.0	29.5
Merged-chr16-37440717-3	chr16	37440626	37440826	+	750.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55768.0	NM_172440	207227.0	Mm.80170	NM_172440	ENSMUSG00000022829	Stxbp5l	9430094L02|A830015P08Rik|LLGL4|T2dm1|t2md1|tomosyn-2	syntaxin binding protein 5-like	protein-coding	6.5	6.0	6.5	121.5	20.0	6.5	4.0	6.5
Merged-chr1-72583222-4	chr1	72583124	72583324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018817)	promoter-TSS (NM_018817)	-27.0	NM_018817	54380.0	Mm.274232	NM_018817	ENSMUSG00000039354	Smarcal1	6030401P21Rik|AI851716|Mharp	SWI/SNF related matrix associated, actin dependent regulator of chromatin, subfamily a-like 1	protein-coding	246.5	346.0	203.5	4130.5	451.0	218.0	238.0	182.5
Merged-chr8-83699816-3	chr8	83699713	83699913	+	818.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177262)	promoter-TSS (NM_177262)	-634.0	NM_177262	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	11.5	7.0	5.5	56.0	19.0	3.5	8.0	4.0
Merged-chr14-14120969-4	chr14	14120886	14121086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025550)	promoter-TSS (NM_025550)	-82.0	NM_025550	66413.0	Mm.27591	NM_025550	ENSMUSG00000021737	Psmd6	2400006A19Rik	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	protein-coding	99.5	150.0	92.5	1778.5	323.5	104.0	161.0	120.0
Merged-chr17-83732330-4	chr17	83732219	83732419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 3 of 16)	intron (NM_054082, intron 3 of 16)	26156.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	161.5	178.5	151.0	2650.5	320.0	107.5	180.5	114.0
Merged-chr10-80509742-4	chr10	80509649	80509849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139226, intron 1 of 1)	intron (NM_139226, intron 1 of 1)	14843.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	19.0	31.0	34.5	269.0	60.5	25.5	22.0	26.5
Merged-chr8-33654153-1	chr8	33654053	33654253	+	573.0	f0_balb.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	915.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	8.5	10.5	10.0	60.0	18.5	9.5	7.0	9.0
Merged-chr8-69328809-3	chr8	69328710	69328910	+	818.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	57730.0	NM_172491	211135.0	Mm.294970	NM_172491	ENSMUSG00000079038	D130040H23Rik	-	RIKEN cDNA D130040H23 gene	protein-coding	7.0	13.5	9.0	78.5	15.0	4.5	5.0	10.5
Merged-chr10-67043364-4	chr10	67043232	67043432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	38257.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	44.0	45.5	16.5	535.5	92.0	31.0	33.5	32.0
Merged-chr7-110891699-4	chr7	110891650	110891850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194464, intron 15 of 20)	L1MEd|LINE|L1	-13235.0	NR_045267	100504184.0	Mm.441327	NR_045267	ENSMUSG00000087160	Gm16336	-	predicted gene 16336	ncRNA	26.0	28.0	51.0	345.5	77.5	38.0	45.5	38.5
Merged-chr1-172588683-4	chr1	172588588	172588788	+	926.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029084, intron 1 of 4)	G-rich|Low_complexity|Low_complexity	1880.0	NM_029084	74748.0	Mm.179812	NM_029084	ENSMUSG00000053318	Slamf8	5830408F06Rik|Blame|SBBI42	SLAM family member 8	protein-coding	20.5	29.0	13.5	397.5	33.5	8.5	13.0	11.5
Merged-chr5-17816358-3	chr5	17816257	17816457	+	928.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159557, intron 5 of 15)	intron (NM_001159557, intron 5 of 15)	19539.0	NM_001159555	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	12.0	9.5	18.0	182.5	50.0	10.0	9.5	9.5
Merged-chr11-80089438-4	chr11	80089383	80089583	+	924.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029856)	promoter-TSS (NM_001029856)	83.0	NM_001029856	237877.0	Mm.89551	NM_001029856	ENSMUSG00000017550	Atad5	C130052G03Rik|FRAG1|Gm17	ATPase family, AAA domain containing 5	protein-coding	15.0	28.5	7.5	126.0	51.5	30.5	8.5	16.0
Merged-chr14-105198653-3	chr14	105198545	105198745	+	774.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21318.0	NM_134077	74213.0	Mm.474531	NM_134077	ENSMUSG00000022119	Rbm26	1700009P03Rik|AI447318|C230097K14Rik|C86225|MLZ-393|Pro1777|Se70-2	RNA binding motif protein 26	protein-coding	8.0	11.5	7.0	60.0	14.5	5.0	3.5	10.0
Merged-chr5-138116966-4	chr5	138116868	138117068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011757)	promoter-TSS (NM_011757)	63.0	NM_001044705	22697.0	Mm.2760	NM_011757	ENSMUSG00000037017	Zscan21	AI326272|CTfin51|RU49|Zfp-38|Zfp38|Zipro1	zinc finger and SCAN domain containing 21	protein-coding	67.0	91.0	34.0	669.0	93.5	53.0	43.5	47.5
Merged-chr1-58873156-4	chr1	58873061	58873261	+	798.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1B-I_MM-int|LTR|ERVK	70659.0	NM_001277926	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	5.5	15.0	17.0	92.0	24.0	10.0	8.5	16.0
Merged-chr13-67306373-6	chr13	67306242	67306442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003666)	promoter-TSS (NM_001003666)	70.0	NM_001003666	431706.0	Mm.439456	NM_001003666	ENSMUSG00000055341	Zfp457	Rslcan-6	zinc finger protein 457	protein-coding	27.0	17.0	24.5	325.0	45.0	18.0	26.5	36.5
Merged-chr10-127114539-4	chr10	127114446	127114646	+	943.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177614, intron 5 of 13)	intron (NM_177614, intron 5 of 13)	6614.0	NM_177614	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	18.5	23.0	29.5	255.0	34.5	18.0	14.0	17.0
Merged-chr8-35380130-4	chr8	35380026	35380226	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177741, intron 1 of 1)	intron (NM_177741, intron 1 of 1)	4385.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	17.5	32.5	27.0	730.5	32.0	16.0	21.5	19.0
Merged-chr7-4657003-2	chr7	4656903	4657103	+	786.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172894, intron 1 of 23)	intron (NM_172894, intron 1 of 23)	1947.0	NM_172894	243819.0	Mm.258670	NM_172894	ENSMUSG00000052296	Ppp6r1	2010309P17Rik|AI836219|B430201G11Rik|D030074N20Rik|Pp6r1|Saps1|mKIAA1115	protein phosphatase 6, regulatory subunit 1	protein-coding	3.5	11.0	8.5	50.5	15.0	8.0	5.5	5.5
Merged-chr6-51743570-3	chr6	51743488	51743688	+	859.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	198295.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	9.5	10.5	9.0	149.5	48.5	7.5	9.0	7.0
Merged-chr13-96435908-4	chr13	96435808	96436008	+	907.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001042714, exon 8 of 14)	exon (NM_001042714, exon 8 of 14)	35252.0	NM_001042714	271144.0	Mm.470057	NM_001042714	ENSMUSG00000047117	Ankdd1b	9330128J19Rik	ankyrin repeat and death domain containing 1B	protein-coding	14.0	11.0	23.0	287.5	28.5	11.5	11.5	10.5
Merged-chr14-64867051-3	chr14	64866945	64867145	+	918.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 4 of 9)	intron (NM_177338, intron 4 of 9)	82812.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	10.0	5.0	9.0	125.0	19.5	5.5	7.0	7.5
Merged-chr10-16997003-4	chr10	16996900	16997100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038020, intron 1 of 8)	intron (NR_038020, intron 1 of 8)	98782.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	108.0	169.0	130.5	2270.5	350.0	135.0	137.0	122.0
Merged-chr11-32666618-3	chr11	32666498	32666698	+	699.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	24043.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	5.0	15.0	5.0	28.0	21.0	6.5	12.5	4.5
Merged-chr7-28175530-4	chr7	28175411	28175611	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007991, intron 4 of 8)	intron (NM_007991, intron 4 of 8)	-3972.0	NM_001037957	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	21.0	11.5	16.5	454.5	32.5	4.0	19.5	22.5
Merged-chr7-104353980-1	chr7	104353880	104354080	+	650.666687	f0_balb.idr	promoter-TSS (NM_175677)	promoter-TSS (NM_175677)	-622.0	NM_001146007	319236.0	Mm.425502	NM_175677	ENSMUSG00000057143	Trim12c	9230105E10Rik|Trim12-2	tripartite motif-containing 12C	protein-coding	7.0	5.0	12.5	87.5	9.0	3.0	2.5	3.5
Merged-chr2-71924244-3	chr2	71924134	71924334	+	896.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	49330.0	NM_001360002	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	1.0	0.0	5.0	6.5	91.5	20.5	50.5	45.0
Merged-chr19-3562899-4	chr19	3562790	3562990	+	925.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360430, intron 1 of 22)	L1M5|LINE|L1	12859.0	NM_001360430	52036.0	Mm.284686	NM_028999	ENSMUSG00000024908	Ppp6r3	4930528G08Rik|9130026N02Rik|D19Bwg1430e|D19Ertd703e|Pp6r3|Ppcs3|Pptcs3|Sapl|Saps3|mKIAA1558	protein phosphatase 6, regulatory subunit 3	protein-coding	20.0	26.0	23.0	374.0	30.5	13.5	15.0	10.5
Merged-chr8-104371300-3	chr8	104371193	104371393	+	865.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	B1_Mur4|SINE|Alu	24514.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	4.5	14.5	4.5	62.5	22.0	8.5	10.5	5.5
Merged-chr8-115392554-4	chr8	115392466	115392666	+	643.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	314328.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	2.0	7.0	8.0	98.5	21.5	8.0	9.5	8.0
Merged-chr6-145211057-4	chr6	145210949	145211149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133688)	promoter-TSS (NM_133688)	-79.0	NM_177222	320662.0	Mm.207779	NM_177222	ENSMUSG00000043541	Casc1	A230084G12Rik|Las1	cancer susceptibility candidate 1	protein-coding	387.0	665.0	288.0	5799.5	1193.0	506.0	514.5	452.5
Merged-chr2-58921261-4	chr2	58921195	58921395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	L1MA6|LINE|L1	166111.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	49.0	67.5	69.5	1144.5	134.0	36.5	65.5	58.5
Merged-chr10-21995792-10	chr10	21995721	21995921	+	896.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001161850, exon 4 of 12)	exon (NM_001161850, exon 4 of 12)	1155.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	9.5	12.0	15.0	177.0	18.0	5.0	11.0	8.5
Merged-chr4-150495712-4	chr4	150495628	150495828	+	872.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 7 of 22)	intron (NM_001085492, intron 7 of 22)	156446.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	16.5	16.5	8.0	279.5	10.5	8.0	10.5	14.0
Merged-chr1-86303108-2	chr1	86303008	86303208	+	728.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145222)	promoter-TSS (NM_145222)	-113.0	NM_145222	227327.0	Mm.86467	NM_145222	ENSMUSG00000079445	B3gnt7	C330001H22Rik|beta-3GnT7	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 7	protein-coding	8.0	4.5	7.5	47.5	9.5	1.5	3.5	3.5
Merged-chr13-67754845-1	chr13	67754745	67754945	+	1000.0	f1_balb.idr	non-coding (NR_027969, exon 3 of 3)	non-coding (NR_027969, exon 3 of 3)	289.0	NM_001001130	22746.0	Mm.288396	NM_001001130	ENSMUSG00000058331	Zfp85	KRAB19|Rslcan2|Zfp71|Zfp85-rs1	zinc finger protein 85	protein-coding	12.5	20.0	14.5	105.5	23.0	10.0	12.0	9.0
Merged-chr15-100677947-4	chr15	100677824	100678024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 6 of 7)	intron (NM_033612, intron 6 of 7)	-8424.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	35.0	48.0	36.5	597.0	106.0	34.0	50.5	46.5
Merged-chr11-88012817-2	chr11	88012712	88012912	+	833.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F2|SINE|Alu	-14514.0	NM_001168471	68097.0	Mm.246436	NM_026556	ENSMUSG00000020483	Dynll2	1700064A15Rik|6720463E02Rik|C87222|DLC8|DLC8b|Dlc2	dynein light chain LC8-type 2	protein-coding	8.0	5.0	4.5	94.0	35.0	6.5	3.0	7.0
Merged-chr12-55437289-4	chr12	55437199	55437399	+	888.6166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38474.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	7.0	26.0	16.5	69.0	27.0	13.5	12.5	15.5
Merged-chr10-44669084-3	chr10	44668963	44669163	+	806.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-210315.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	11.5	7.0	16.0	23.5	5.0	1.5	7.0	3.5
Merged-chr11-94031450-4	chr11	94031353	94031553	+	969.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027569, intron 2 of 28)	intron (NM_027569, intron 2 of 28)	-12752.0	NM_001025430	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	14.5	34.5	9.0	230.5	44.0	9.0	6.5	22.5
Merged-chr5-21372674-4	chr5	21372576	21372776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008013)	promoter-TSS (NM_008013)	3.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	54.5	51.5	36.0	906.5	130.5	63.5	61.0	40.5
Merged-chr19-29948390-4	chr19	29948286	29948486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164724, intron 1 of 7)	intron (NM_001164724, intron 1 of 7)	2596.0	NM_001164724	77125.0	Mm.182359	NM_133775	ENSMUSG00000024810	Il33	9230117N10Rik|Il-33|Il1f11|NF-HEV	interleukin 33	protein-coding	23.0	45.0	22.0	307.5	61.0	24.0	42.0	37.5
Merged-chr12-72085668-4	chr12	72085565	72085765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205067)	promoter-TSS (NM_001205067)	-174.0	NM_001205067	104771.0	Mm.258935	NM_024205	ENSMUSG00000005078	Jkamp	1200003C05Rik|2310047L11Rik|Jamp	JNK1/MAPK8-associated membrane protein	protein-coding	456.0	695.5	518.0	6576.5	1017.5	438.0	549.0	441.0
Merged-chr11-113565802-4	chr11	113565695	113565895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166503)	promoter-TSS (NM_001166503)	20.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	63.0	63.5	37.5	651.0	142.0	69.5	51.0	37.5
Merged-chr9-45486779-4	chr9	45486667	45486867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	intron (NM_001081270, intron 3 of 32)	-55535.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	6.5	9.5	14.0	246.0	245.0	88.5	128.0	108.0
Merged-chr7-89216856-4	chr7	89216752	89216952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 5 of 14)	intron (NM_001360746, intron 5 of 14)	121935.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	63.0	52.0	25.0	591.0	95.0	40.0	32.0	37.0
Merged-chr19-4060551-2	chr19	4060451	4060651	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1104.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	24.5	37.0	26.5	193.5	57.0	23.0	12.0	20.0
Merged-chr17-45433096-1	chr17	45432996	45433196	+	1000.0	f1_balb.idr	promoter-TSS (NR_130960)	promoter-TSS (NR_130960)	611.0	NM_152810	71702.0	Mm.28270	NM_152810	ENSMUSG00000023932	Cdc5l	1200002I02Rik|AA408004|PCDC5RP	cell division cycle 5-like (S. pombe)	protein-coding	13.5	12.0	8.0	63.0	32.0	7.5	17.5	10.0
Merged-chr1-171247210-4	chr1	171247114	171247314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153064)	promoter-TSS (NM_153064)	-92.0	NM_153064	226646.0	Mm.21669	NM_153064	ENSMUSG00000013593	Ndufs2	CI-49kD	NADH dehydrogenase (ubiquinone) Fe-S protein 2	protein-coding	106.5	161.0	84.5	1163.5	351.0	127.5	138.0	127.0
Merged-chr16-32159177-4	chr16	32159067	32159267	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347181, intron 1 of 2)	intron (NM_001347181, intron 1 of 2)	6427.0	NM_146069	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	16.0	22.5	11.0	132.5	33.0	13.0	14.0	15.0
Merged-chr14-13995666-5	chr14	13995623	13995823	+	927.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16768.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	8.5	5.0	4.0	102.0	19.0	13.0	5.0	9.0
Merged-chr16-23375082-4	chr16	23374984	23375184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-54049.0	NM_001004151	239766.0	Mm.208751	NM_001004151	ENSMUSG00000033383	Rtp1	Gm1766|Gm604	receptor transporter protein 1	protein-coding	98.0	72.5	154.5	1696.5	157.5	51.0	101.5	106.5
Merged-chr12-16805626-2	chr12	16805526	16805726	+	962.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-4740.0	NM_015764	268527.0	Mm.428062	NM_015764	ENSMUSG00000036523	Greb1	5730583K22Rik|9130004E13|AF180470|AU023194|mKIAA0575	gene regulated by estrogen in breast cancer protein	protein-coding	4.5	10.0	6.0	38.5	7.5	5.5	4.5	4.0
Merged-chr7-100534393-4	chr7	100534307	100534507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2693.0	NM_183270	68185.0	Mm.228995	NM_183270	ENSMUSG00000044881	Coa4	5330414O08Rik|AI115477|AW047259|Chchd8|E2ig2	cytochrome c oxidase assembly factor 4	protein-coding	29.5	40.5	23.5	404.5	86.0	26.0	44.0	32.5
Merged-chr7-27591518-4	chr7	27591395	27591595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110208)	promoter-TSS (NM_001110208)	-57.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	104.5	189.5	109.5	1220.0	347.5	158.5	113.0	109.0
Merged-chr2-130488787-4	chr2	130488675	130488875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	38497.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	101.0	145.0	104.5	1361.0	134.5	43.5	53.5	97.5
Merged-chr14-79441648-4	chr14	79441545	79441745	+	988.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10190.0	NM_001034882	432879.0	Mm.308666	NM_001034882	ENSMUSG00000075502	Kbtbd6	EG432879|Gm5465|Zbtbd6	kelch repeat and BTB (POZ) domain containing 6	protein-coding	40.0	84.0	52.5	751.0	92.0	43.5	50.5	20.0
Merged-chr1-134304852-4	chr1	134304749	134304949	+	948.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144855, intron 23 of 28)	intron (NM_001144855, intron 23 of 28)	14845.0	NM_031189	17928.0	Mm.16528	NM_031189	ENSMUSG00000026459	Myog	MYF4|bHLHc3|myo	myogenin	protein-coding	24.0	19.5	13.0	451.0	31.0	12.0	21.5	19.0
Merged-chr9-105131807-4	chr9	105131717	105131917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029385)	promoter-TSS (NM_029385)	-12.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	90.0	134.5	75.0	1342.0	322.5	128.5	188.0	120.0
Merged-chr3-69976362-1	chr3	69976262	69976462	+	696.25	f0_c57.idr	Intergenic	L1MEc|LINE|L1	-31251.0	NM_001018031	229389.0	Mm.331071	NM_001018031	ENSMUSG00000027788	Otol1	Gm414	otolin 1	protein-coding	3.0	7.0	5.0	29.5	29.5	13.5	22.5	13.0
Merged-chr14-54750749-3	chr14	54750648	54750848	+	908.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	31138.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	15.5	11.0	12.0	225.5	15.5	6.5	4.0	10.0
Merged-chr14-77841670-2	chr14	77841571	77841771	+	668.875	f0_c57.idr|f1_c57bl6.idr	intron (NM_025384, intron 4 of 5)	intron (NM_025384, intron 4 of 5)	33246.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	0.0	0.0	0.0	0.0	35.5	14.0	8.5	13.0
Merged-chr2-145807443-2	chr2	145807343	145807543	+	841.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	21327.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	6.0	7.5	7.0	41.0	2.5	5.0	7.5	6.5
Merged-chr2-30801703-3	chr2	30801586	30801786	+	898.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198000)	promoter-TSS (NM_198000)	51.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	13.5	6.0	7.0	104.0	11.0	5.0	6.0	4.5
Merged-chr10-13837187-4	chr10	13837116	13837316	+	876.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 1 of 5)	intron (NM_025446, intron 1 of 5)	31741.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	25.5	28.5	15.5	270.5	16.0	5.5	8.5	8.0
Merged-chr6-145747316-4	chr6	145747172	145747372	+	935.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-61111.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	20.5	9.5	17.5	248.0	25.5	11.0	17.0	25.0
Merged-chr7-30421713-4	chr7	30421655	30421855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360906)	promoter-TSS (NM_001360906)	24.0	NM_001360906	243910.0	Mm.386878	NM_172142	ENSMUSG00000036931	Nfkbid	I-kappa-B-delta|IkappaBNS|ikB-delta	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, delta	protein-coding	79.0	186.5	38.0	437.5	184.5	95.0	77.0	50.0
Merged-chr17-50345338-4	chr17	50345225	50345425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-51705.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	25.0	27.5	48.5	555.0	37.0	6.5	23.5	37.0
Merged-chr11-69410854-4	chr11	69410728	69410928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 1 of 22)	CpG	2847.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	79.5	200.0	68.5	823.5	279.5	91.5	126.0	97.5
Merged-chr5-72580584-3	chr5	72580500	72580700	+	974.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_174877, exon 1 of 4)	exon (NM_174877, exon 1 of 4)	484.0	NM_174877	317755.0	Mm.11934	NM_174877	ENSMUSG00000063935	Zar1	-	zygote arrest 1	protein-coding	16.0	18.5	20.5	168.0	11.5	10.0	4.0	8.5
Merged-chr10-67296974-1	chr10	67296874	67297074	+	562.0	f0_balb.idr	Intergenic	Intergenic	-11693.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	9.0	8.0	5.0	64.0	9.0	2.0	2.5	9.5
Merged-chr3-61441573-4	chr3	61441465	61441665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77058.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	100.5	81.5	96.0	1201.0	172.5	63.0	78.5	71.0
Merged-chr16-31898496-3	chr16	31898396	31898596	+	922.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013900, exon 16 of 16)	3' UTR (NM_013900, exon 16 of 16)	19686.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	12.5	17.5	8.0	155.5	11.0	4.0	5.0	6.0
Merged-chr6-108829096-3	chr6	108828994	108829194	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_138677, exon 1 of 12)	exon (NM_138677, exon 1 of 12)	453.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	18.5	33.0	35.5	242.5	59.0	17.5	30.0	35.0
Merged-chr13-85288008-3	chr13	85287921	85288121	+	915.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145452, intron 1 of 24)	intron (NM_145452, intron 1 of 24)	1465.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	4.0	6.0	9.5	84.5	12.0	5.5	9.0	10.5
Merged-chr1-13336042-4	chr1	13335955	13336155	+	937.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	36374.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	7.5	10.0	21.5	219.5	32.0	6.0	14.5	17.5
Merged-chr5-135667007-4	chr5	135666897	135667097	+	967.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-22148.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	22.0	29.5	30.0	242.0	28.5	11.5	16.5	16.0
Merged-chr15-6707682-4	chr15	6707580	6707780	+	821.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030168)	promoter-TSS (NM_030168)	-701.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	18.5	15.0	23.0	232.5	25.5	11.0	12.5	12.0
Merged-chr17-26437510-5	chr17	26437370	26437570	+	951.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081656, intron 2 of 4)	intron (NM_001081656, intron 2 of 4)	22505.0	NM_001081656	240055.0	Mm.133211	NM_001081656	ENSMUSG00000034413	Neurl1b	C230078M08Rik|EG240055	neuralized E3 ubiquitin protein ligase 1B	protein-coding	1.0	8.0	11.5	34.0	20.0	5.5	7.0	14.5
Merged-chr5-144768649-4	chr5	144768496	144768696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081362)	promoter-TSS (NM_001081362)	-196.0	NM_001081362	100683.0	Mm.273570	NM_001081362	ENSMUSG00000045482	Trrap	AI481500	transformation/transcription domain-associated protein	protein-coding	34.0	36.5	32.0	219.0	52.5	25.0	25.0	42.0
Merged-chr18-80005118-4	chr18	80005017	80005217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41778.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	28.0	38.5	20.5	435.0	76.0	24.0	57.0	20.0
Merged-chr14-120434359-1	chr14	120434259	120434459	+	629.0	f0_balb.idr	Intergenic	Intergenic	-44102.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	5.0	15.5	19.0	87.0	14.0	8.0	4.5	3.5
Merged-chr6-119471007-4	chr6	119470889	119471089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 1 of 4)	MTE2a|LTR|ERVL-MaLR	-3778.0	NM_001271758	22419.0	Mm.321818	NM_009525	ENSMUSG00000030170	Wnt5b	AW545702|Wnt-5b	wingless-type MMTV integration site family, member 5B	protein-coding	26.0	25.5	33.0	462.0	80.0	24.5	32.0	29.5
Merged-chr9-65361160-4	chr9	65361035	65361235	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111145)	promoter-TSS (NM_001111145)	75.0	NM_001111145	208080.0	Mm.291862	NM_001111145	ENSMUSG00000086228	Ubap1l	Gm514	ubiquitin-associated protein 1-like	protein-coding	29.5	25.5	42.5	858.5	35.5	16.5	34.5	30.0
Merged-chr2-104732295-4	chr2	104732184	104732384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144804, intron 1 of 8)	intron (NM_144804, intron 1 of 8)	10517.0	NM_144804	211896.0	Mm.288805	NM_144804	ENSMUSG00000027173	Depdc7	AV216087	DEP domain containing 7	protein-coding	54.0	83.0	85.0	1251.5	134.0	62.0	66.0	79.5
Merged-chr18-77773618-4	chr18	77773520	77773720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007505)	promoter-TSS (NM_007505)	1.0	NM_001357533	225745.0	Mm.39293	NM_146089	ENSMUSG00000041840	Haus1	BC024400|Ccdc5|HEI-C	HAUS augmin-like complex, subunit 1	protein-coding	26.5	50.5	34.5	353.5	42.0	26.0	27.0	38.0
Merged-chr3-133544340-4	chr3	133544223	133544423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346736)	promoter-TSS (NM_001346736)	67.0	NM_001040400	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	76.0	68.0	53.0	1261.0	210.5	55.5	92.5	59.5
Merged-chr10-128273079-3	chr10	128272985	128273185	+	640.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019963, intron 1 of 23)	B2_Mm1a|SINE|B2	2587.0	NM_019963	20847.0	Mm.293120	NM_019963	ENSMUSG00000040033	Stat2	1600010G07Rik|AW496480	signal transducer and activator of transcription 2	protein-coding	12.0	6.0	2.0	37.5	28.5	13.0	6.5	12.0
Merged-chr5-123831994-4	chr5	123831914	123832114	+	830.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33502.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	7.5	5.5	4.0	77.5	35.5	14.0	10.5	16.0
Merged-chr18-65512916-9	chr18	65512983	65513183	+	885.4074099999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	-67147.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	18.5	10.0	12.5	220.0	16.5	2.5	7.0	9.0
Merged-chr10-96374384-4	chr10	96374285	96374485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	148178.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	65.0	82.5	84.0	1171.0	107.5	31.5	62.0	36.0
Merged-chr2-103967060-4	chr2	103966990	103967190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142337, intron 1 of 3)	intron (NM_001142337, intron 1 of 3)	-2467.0	NM_001142336	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	55.5	100.0	66.0	1188.5	106.0	37.0	56.5	47.0
Merged-chr7-141194071-4	chr7	141193980	141194180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130443)	promoter-TSS (NM_001130443)	-50.0	NM_001172065	70552.0	Mm.45104	NM_153777	ENSMUSG00000038637	Lrrc56	5730427C23Rik|BB110509|mFLJ00101	leucine rich repeat containing 56	protein-coding	126.0	229.5	147.0	1971.5	425.0	116.0	220.0	116.0
Merged-chr18-25241822-4	chr18	25241711	25241911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033532, intron 5 of 10)	intron (NM_001033532, intron 5 of 10)	72791.0	NM_001033532	225289.0	Mm.391081	NM_001033532	ENSMUSG00000033632	AW554918	4921538P22|AI461742|Kiaa1328|mKIAA1328	expressed sequence AW554918	protein-coding	34.5	44.0	45.5	851.0	65.5	29.5	44.0	35.0
Merged-chr17-31853854-4	chr17	31853753	31853953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010831, intron 3 of 13)	intron (NM_010831, intron 3 of 13)	1951.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	57.5	35.0	31.0	583.0	102.5	26.0	44.5	36.5
Merged-chr9-21125729-5	chr9	21125659	21125859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205312, intron 3 of 24)	ID_B1|SINE|B4	5516.0	NM_018793	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	35.5	56.0	31.0	526.0	57.5	19.0	23.0	29.5
Merged-chr7-44124046-1	chr7	44123946	44124146	+	565.0	f0_balb.idr	Intergenic	RLTR45|LTR|ERVK	11373.0	NM_010114	13646.0	Mm.5193	NM_010114	ENSMUSG00000060177	Klk1b22	EGF-BP A|Egfbp-1|Egfbp1|Klk22|mGk-22	kallikrein 1-related peptidase b22	protein-coding	8.5	6.5	13.5	99.0	8.0	5.0	2.0	3.5
Merged-chr16-38197450-3	chr16	38197338	38197538	+	666.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347232, intron 7 of 11)	intron (NM_001347232, intron 7 of 11)	97386.0	NM_010936	18171.0	Mm.8509	NM_010936	ENSMUSG00000022809	Nr1i2	PXR|PXR.1|PXR.2|PXR1|SXR|mPXR	nuclear receptor subfamily 1, group I, member 2	protein-coding	4.0	13.0	0.0	68.5	10.0	7.0	5.5	8.5
Merged-chr15-98892365-4	chr15	98892257	98892457	+	992.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007857, exon 3 of 3)	3' UTR (NM_007857, exon 3 of 3)	6183.0	NM_007857	13363.0	Mm.324688	NM_007857	ENSMUSG00000023000	Dhh	C78960	desert hedgehog	protein-coding	16.5	28.5	10.0	217.0	52.5	31.0	22.0	27.0
Merged-chr1-173737178-4	chr1	173737070	173737270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204910, intron 1 of 7)	ORR1E|LTR|ERVL-MaLR	4639.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	125.0	158.5	93.0	1821.0	307.5	140.0	106.5	102.0
Merged-chr5-64861135-3	chr5	64861051	64861251	+	845.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57628.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	4.0	8.0	5.5	92.0	16.0	8.0	5.5	5.0
Merged-chr1-58720941-4	chr1	58720828	58721028	+	860.1166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	7642.0	NM_001355056	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	21.0	19.0	12.0	155.0	31.5	13.5	12.5	9.0
Merged-chr13-32965354-4	chr13	32965272	32965472	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011454)	promoter-TSS (NM_011454)	-141.0	NM_011454	20708.0	Mm.36526	NM_011454	ENSMUSG00000042842	Serpinb6b	NK13|Spi12|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 6b	protein-coding	20.5	18.0	23.0	277.0	33.5	8.5	14.5	10.5
Merged-chr17-8856628-4	chr17	8856526	8856726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 1 of 21)	intron (NM_001347321, intron 1 of 21)	6641.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	20.5	26.5	35.5	486.0	125.0	48.5	55.5	27.5
Merged-chr17-88065390-2	chr17	88065289	88065489	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001081034)	promoter-TSS (NM_001081034)	-98.0	NM_001081034	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	23.5	47.5	36.0	399.5	78.5	38.5	28.0	36.5
Merged-chr6-6955929-4	chr6	6955826	6956026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077713)	promoter-TSS (NM_001077713)	-92.0	NM_001077713	71238.0	Mm.389086	NM_001077713	ENSMUSG00000042505	Sdhaf3	0610005M07Rik|4933430A16Rik|Acn9	succinate dehydrogenase complex assembly factor 3	protein-coding	153.5	183.5	136.0	2375.0	403.0	105.5	175.5	123.0
Merged-chr7-111014379-3	chr7	111014284	111014484	+	810.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14567.0	NM_009431	22083.0	Mm.255858	NM_009431	ENSMUSG00000005609	Ctr9	AA409336|Sh2bp1|Tsbp|Tsp|mKIAA0155	CTR9 homolog, Paf1/RNA polymerase II complex component	protein-coding	10.5	9.0	7.0	90.5	20.5	4.5	6.0	9.5
Merged-chr5-110810184-4	chr5	110810105	110810305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009469)	promoter-TSS (NM_009469)	-124.0	NM_001347394	22241.0	Mm.271898	NM_009469	ENSMUSG00000029512	Ulk1	AU041434|Unc51.1|mKIAA0722	unc-51 like kinase 1	protein-coding	274.5	420.0	230.0	3224.5	754.0	297.0	360.5	268.0
Merged-chr4-72201051-4	chr4	72200964	72201164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285529)	promoter-TSS (NM_001285529)	-171.0	NM_001285530	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	483.0	739.0	653.0	8330.0	1261.5	506.5	770.0	525.0
Merged-chr15-34530218-4	chr15	34530110	34530310	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026340, exon 16 of 16)	exon (NM_026340, exon 16 of 16)	34899.0	NM_152894	67724.0	Mm.248779	NM_026340	ENSMUSG00000022325	Pop1	4932434G09Rik	processing of precursor 1, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	33.5	51.0	63.5	685.5	23.5	10.0	22.5	6.0
Merged-chr15-59041219-4	chr15	59041109	59041309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	40817.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	40.5	55.5	21.5	523.0	103.0	29.5	43.5	29.0
Merged-chr1-152594880-4	chr1	152594774	152594974	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	30343.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	11.0	33.5	21.0	193.5	37.5	14.5	11.0	10.5
Merged-chr8-74994034-4	chr8	74993943	74994143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178017, intron 1 of 10)	CpG	393.0	NM_178017	70823.0	Mm.261739	NM_178017	ENSMUSG00000034518	Hmgxb4	4733401K04Rik|AI316803|Hmgb2l1	HMG box domain containing 4	protein-coding	57.0	70.0	41.0	581.5	100.0	29.0	54.0	36.5
Merged-chr1-64633268-3	chr1	64633204	64633404	+	907.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16136.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	10.0	6.0	8.5	175.0	10.0	2.5	8.0	10.0
Merged-chr15-83496102-3	chr15	83495997	83496197	+	784.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357953, intron 9 of 11)	intron (NM_001357953, intron 9 of 11)	14810.0	NM_178869	319953.0	Mm.235007	NM_178869	ENSMUSG00000022442	Ttll1	6330444E16Rik|AV014541	tubulin tyrosine ligase-like 1	protein-coding	8.0	14.0	6.0	120.0	7.0	2.5	10.5	7.0
Merged-chr12-33380247-4	chr12	33380128	33380328	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131031, intron 2 of 3)	B3|SINE|B2	14532.0	NR_131031	75836.0	Mm.410807	NR_131031	ENSMUSG00000085664	Atxn7l1os2	4930556N08Rik	ataxin 7-like 1, opposite strand 2	ncRNA	29.0	51.0	36.0	255.0	28.0	23.0	13.5	32.0
Merged-chr10-19504099-3	chr10	19504015	19504215	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152785, intron 1 of 2)	intron (NR_152785, intron 1 of 2)	9472.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	5.5	7.5	12.5	57.5	20.0	3.0	6.0	4.5
Merged-chr3-8993665-6	chr3	8993561	8993761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	10543.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	49.0	56.5	30.0	513.5	55.0	34.0	31.0	51.0
Merged-chr3-131552791-3	chr3	131552646	131552846	+	860.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12022.0	NM_001289479	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	10.5	10.0	13.0	131.5	36.5	4.5	6.0	14.0
Merged-chr7-144553794-4	chr7	144553700	144553900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033319)	promoter-TSS (NM_001033319)	-71.0	NM_001195086	233977.0	Mm.490347	NM_001033319	ENSMUSG00000037519	Ppfia1	C030014K08Rik|C87158|LIP.1|LIP1	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1	protein-coding	166.0	200.5	105.0	1987.5	377.0	145.5	178.5	155.0
Merged-chr16-92787165-4	chr16	92787032	92787232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	38942.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	48.5	53.5	66.5	1259.5	84.5	26.5	19.0	26.0
Merged-chr2-132022861-2	chr2	132022761	132022961	+	773.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 1 of 10)	B1_Mur4|SINE|Alu	7127.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	9.0	7.5	6.5	63.0	27.0	4.0	3.0	5.0
Merged-chr9-60837550-4	chr9	60837451	60837651	+	905.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357408, intron 1 of 19)	intron (NM_001357408, intron 1 of 19)	43109.0	NM_001357407	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	23.5	35.5	19.5	542.0	13.0	5.5	12.5	12.0
Merged-chr6-5382720-4	chr6	5382621	5382821	+	795.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023048)	promoter-TSS (NM_023048)	-665.0	NM_023048	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	7.5	3.0	6.0	118.0	42.0	14.0	17.5	20.0
Merged-chr17-87972210-4	chr17	87972098	87972298	+	995.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-2852.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	35.0	45.5	31.0	38.5	90.0	24.0	17.5	31.5
Merged-chr7-100372068-4	chr7	100371968	100372168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028292)	promoter-TSS (NM_028292)	-165.0	NM_001017985	277939.0	Mm.276374	NM_001017985	ENSMUSG00000047248	C2cd3	AU020772	C2 calcium-dependent domain containing 3	protein-coding	269.0	433.5	221.0	3146.5	609.0	250.5	228.5	263.5
Merged-chr8-84706915-4	chr8	84706834	84707034	+	969.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081981, exon 11 of 11)	3' UTR (NM_001081981, exon 11 of 11)	5477.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	19.5	24.5	17.5	202.0	34.0	15.0	14.5	12.0
Merged-chr10-111516314-5	chr10	111516131	111516331	+	913.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9945.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	21.0	15.0	35.5	405.0	37.5	12.0	22.0	28.5
Merged-chr15-67321626-2	chr15	67321520	67321720	+	605.0	f0_balb.idr|f0_c57.idr	intron (NR_045140, intron 5 of 8)	RLTR24B_MM|LTR|ERV1	94851.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	9.5	18.5	10.0	56.5	16.0	5.5	13.5	14.0
Merged-chr17-68176964-2	chr17	68176864	68177064	+	836.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96833.0	NM_177278	320858.0	Mm.137356	NM_177278	ENSMUSG00000041565	L3mbtl4	A730037L19Rik|D930040M24Rik	L3MBTL4 histone methyl-lysine binding protein	protein-coding	4.5	8.0	0.5	54.0	16.0	5.0	9.0	12.0
Merged-chr8-94778678-4	chr8	94778540	94778740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009142, intron 2 of 2)	intron (NM_009142, intron 2 of 2)	6460.0	NM_009142	20312.0	Mm.103711	NM_009142	ENSMUSG00000031778	Cx3cl1	AB030188|ABCD-3|AI848747|CX3C|Cxc3|D8Bwg0439e|Scyd1	chemokine (C-X3-C motif) ligand 1	protein-coding	49.0	71.5	67.5	719.5	77.0	20.5	45.0	25.0
Merged-chr4-41390338-3	chr4	41390258	41390458	+	821.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001290454)	TTS (NM_001290454)	38395.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	4.5	12.0	7.5	155.5	21.0	10.5	4.5	5.5
Merged-chr7-30418585-1	chr7	30418485	30418685	+	547.0	f1_c57bl6.idr	intron (NM_011827, intron 2 of 3)	intron (NM_011827, intron 2 of 3)	1269.0	NM_011827	23900.0	Mm.379050	NM_011827	ENSMUSG00000064109	Hcst	DAP10|KAP10	hematopoietic cell signal transducer	protein-coding	3.5	4.0	3.0	27.0	10.0	6.0	5.5	11.0
Merged-chr5-124439790-4	chr5	124439681	124439881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030241)	promoter-TSS (NM_030241)	-149.0	NM_030241	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	194.0	369.5	248.5	3299.5	524.0	241.5	225.5	209.5
Merged-chr13-55212236-4	chr13	55212166	55212366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008739, intron 1 of 22)	CpG	2484.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	26.0	22.0	17.5	319.0	71.5	40.5	24.0	24.0
Merged-chr3-37584783-3	chr3	37584706	37584906	+	930.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25085.0	NR_130162	75947.0	Mm.109620	NR_130161	ENSMUSG00000085677	4930594O21Rik	-	RIKEN cDNA 4930594O21 gene	ncRNA	9.5	10.0	4.0	214.5	15.0	8.0	5.5	5.5
Merged-chr16-57536789-4	chr16	57536706	57536906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-12436.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	121.0	238.0	118.5	1969.5	265.0	126.0	117.0	101.5
Merged-chr4-117289344-7	chr4	117289250	117289450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310731, exon 1 of 11)	5' UTR (NM_001310731, exon 1 of 11)	105.0	NM_001310730	66743.0	Mm.318331	NM_025739	ENSMUSG00000028677	Rnf220	4732477A13|4931406I20Rik|5730503K05Rik|AV302541	ring finger protein 220	protein-coding	18.5	46.0	26.5	333.5	79.5	43.0	34.5	46.0
Merged-chr4-89276395-1	chr4	89276295	89276495	+	561.0	f1_balb.idr	intron (NM_001040654, intron 2 of 2)	intron (NM_001040654, intron 2 of 2)	5797.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	11.5	8.5	11.0	65.0	8.0	4.0	4.5	7.5
Merged-chr3-41408559-4	chr3	41408468	41408668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84631.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	154.5	224.0	154.5	3153.5	389.5	114.0	150.5	125.0
Merged-chr11-83385674-4	chr11	83385563	83385763	+	856.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027915, intron 17 of 20)	intron (NM_027915, intron 17 of 20)	-23474.0	NM_001361566	276952.0	Mm.66275	NM_001013386	ENSMUSG00000020684	Rasl10b	B230331P10Rik|Gm729|VTS58635	RAS-like, family 10, member B	protein-coding	9.0	15.0	14.0	393.0	15.0	8.5	13.0	12.5
Merged-chr10-80264846-4	chr10	80264750	80264950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122605)	promoter-TSS (NM_001122605)	-141.0	NM_001122604	70248.0	Mm.148693	NM_133188	ENSMUSG00000069565	Dazap1	2410042M16Rik|mPrrp	DAZ associated protein 1	protein-coding	120.5	240.0	74.5	1619.0	391.5	140.5	108.5	112.5
Merged-chr12-71015362-1	chr12	71015262	71015462	+	1000.0	f0_c57.idr	promoter-TSS (NM_001081195)	promoter-TSS (NM_001081195)	461.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	42.0	47.0	38.5	582.0	115.5	51.0	47.0	49.5
Merged-chr8-111393827-4	chr8	111393707	111393907	+	829.8690190000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178086)	promoter-TSS (NM_178086)	14.0	NM_178086	338521.0	Mm.41083	NM_178086	ENSMUSG00000033579	Fa2h	FAAH|Faxdc1|G630055L08Rik	fatty acid 2-hydroxylase	protein-coding	16.0	5.5	16.5	253.5	34.0	9.0	9.5	14.0
Merged-chr11-113437584-1	chr11	113437484	113437684	+	638.5	f0_balb.idr	intron (NM_027216, intron 5 of 9)	intron (NM_027216, intron 5 of 9)	128231.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	7.0	8.0	8.5	140.5	0.5	5.0	0.0	1.0
Merged-chr2-93624877-4	chr2	93624769	93624969	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17565.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	8.0	21.0	8.5	315.5	34.5	8.5	19.0	15.5
Merged-chr2-181581874-4	chr2	181581737	181581937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001164597)	TTS (NM_001164597)	136.0	NM_026765	68556.0	Mm.232400	NM_026765	ENSMUSG00000089917	Uckl1	1110007H10Rik|Urkl1	uridine-cytidine kinase 1-like 1	protein-coding	20.5	26.0	48.0	322.5	50.0	22.5	13.0	34.0
Merged-chr16-38452743-4	chr16	38452628	38452828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007414)	promoter-TSS (NM_007414)	-39.0	NM_007414	11544.0	Mm.20047	NM_007414	ENSMUSG00000002844	Adprh	Arh1	ADP-ribosylarginine hydrolase	protein-coding	160.5	193.5	141.0	2364.0	319.5	128.5	231.5	112.5
Merged-chr2-140395338-4	chr2	140395226	140395426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013802)	promoter-TSS (NM_001013802)	-104.0	NM_001013802	72899.0	Mm.229466	NM_028387	ENSMUSG00000068205	Macrod2	1110033L15Rik|2610107G07Rik|2900006F19Rik	MACRO domain containing 2	protein-coding	183.0	281.5	138.5	3641.5	120.5	54.5	83.0	71.0
Merged-chr13-88823757-3	chr13	88823632	88823832	+	903.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037987, intron 1 of 10)	(CA)n|Simple_repeat|Simple_repeat	2260.0	NM_001037987	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	1.5	2.0	19.0	42.5	27.0	7.5	16.5	11.0
Merged-chr11-23699902-4	chr11	23699799	23699999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 4 of 17)	intron (NM_001033654, intron 4 of 17)	33923.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	27.0	50.0	30.0	567.0	87.0	13.0	39.5	39.0
Merged-chr12-51679942-1	chr12	51679842	51680042	+	807.0	f0_balb.idr	intron (NM_001172098, intron 1 of 15)	L1M4|LINE|L1	-11024.0	NM_001329699	11782.0	Mm.386749	NM_021710	ENSMUSG00000020955	Ap4s1	AI314282	adaptor-related protein complex AP-4, sigma 1	protein-coding	12.0	19.0	5.5	48.0	20.5	11.0	5.5	7.0
Merged-chr16-44779600-2	chr16	44779500	44779700	+	776.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	13864.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	2.0	11.0	7.5	66.5	14.0	7.0	4.5	5.0
Merged-chr9-108578713-4	chr9	108578615	108578815	+	999.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031392)	promoter-TSS (NM_031392)	-45.0	NM_031392	83669.0	Mm.335454	NM_031392	ENSMUSG00000066357	Wdr6	mWDR6	WD repeat domain 6	protein-coding	34.0	40.0	26.5	512.0	64.0	20.5	30.0	16.0
Merged-chr10-52419565-4	chr10	52419470	52419670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030250, intron 1 of 4)	intron (NM_030250, intron 1 of 4)	2023.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	112.5	81.5	157.5	2053.0	164.0	80.0	92.0	77.5
Merged-chr11-20914123-4	chr11	20914007	20914207	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82999.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	21.5	21.0	13.0	226.5	69.5	20.5	11.5	23.0
Merged-chr13-104794635-4	chr13	104794542	104794742	+	972.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360094, intron 9 of 13)	intron (NM_001360094, intron 9 of 13)	22311.0	NM_026072	67285.0	Mm.235398	NM_026072	ENSMUSG00000021715	Cwc27	3110009E13Rik|NY-CO-10|Sdccag10	CWC27 spliceosome-associated protein	protein-coding	11.5	20.5	13.0	399.5	29.0	5.0	23.5	19.0
Merged-chr2-84882790-2	chr2	84882690	84882890	+	884.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_199223, intron 1 of 2)	intron (NM_199223, intron 1 of 2)	3902.0	NM_199223	269295.0	Mm.86447	NM_199223	ENSMUSG00000050896	Rtn4rl2	Ngr2|Ngrh1|Ngrl3	reticulon 4 receptor-like 2	protein-coding	2.5	6.5	2.0	60.5	8.0	5.0	5.5	8.0
Merged-chr15-33340793-3	chr15	33340696	33340896	+	678.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 4 of 7)	MLT1B|LTR|ERVL-MaLR	65143.0	NR_033608	73486.0	Mm.483393	NM_028551	ENSMUSG00000058101	1700084J12Rik	-	ribosomal protein L7-like 1 pseudogene	pseudo	3.0	3.5	4.0	122.0	13.0	9.0	7.5	6.5
Merged-chr10-3740384-4	chr10	3740289	3740489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159942)	promoter-TSS (NM_001159942)	12.0	NM_001159942	213783.0	Mm.150831	NM_001033253	ENSMUSG00000040624	Plekhg1	D10Ertd733e|Gm521|mKIAA1209	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	protein-coding	28.0	36.0	35.0	774.5	126.5	29.5	62.0	42.5
Merged-chr8-35159454-2	chr8	35159373	35159573	+	852.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-193783.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	3.0	6.0	4.0	97.0	19.0	7.5	7.0	6.5
Merged-chr1-185208500-4	chr1	185208419	185208619	+	858.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 1 of 34)	intron (NM_001163754, intron 1 of 34)	4351.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	9.5	6.5	12.5	327.0	24.5	5.0	9.0	18.5
Merged-chr13-59667947-4	chr13	59667852	59668052	+	660.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035122, intron 1 of 9)	MTD|LTR|ERVL-MaLR	7832.0	NM_001035122	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	11.5	9.5	3.0	89.0	24.0	8.0	9.5	11.0
Merged-chr2-177956923-2	chr2	177956823	177957023	+	599.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001190302, intron 1 of 4)	RMER17B|LTR|ERVK	365.0	NM_001282028	665211.0	Mm.441314	NM_001190302	ENSMUSG00000078862	Gm14326	-	predicted gene 14326	protein-coding	19.0	14.5	16.0	62.5	19.0	8.0	12.5	15.5
Merged-chr9-116059290-4	chr9	116059188	116059388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028638, intron 14 of 14)	B3A|SINE|B2	116075.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	90.5	114.0	85.0	1133.0	271.5	73.0	100.5	93.0
Merged-chr2-30469902-3	chr2	30469814	30470014	+	829.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4285.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	6.5	9.5	6.0	69.0	12.0	11.0	6.0	5.0
Merged-chr17-26466921-4	chr17	26466807	26467007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41565.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	28.0	38.0	21.5	326.5	48.5	14.5	22.5	22.0
Merged-chr3-8964990-4	chr3	8964907	8965107	+	952.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025261)	promoter-TSS (NM_001025261)	-861.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	19.5	30.0	10.5	369.5	33.5	14.5	27.5	19.0
Merged-chr12-111441813-4	chr12	111441697	111441897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009396)	promoter-TSS (NM_009396)	-864.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	119.0	251.0	99.0	1019.0	312.5	106.0	112.5	76.5
Merged-chr17-5935035-4	chr17	5934929	5935129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6251.0	NM_001113353	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	118.0	93.0	79.5	1489.0	170.0	56.5	80.0	37.0
Merged-chr18-77767814-4	chr18	77767692	77767892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146089)	promoter-TSS (NM_146089)	7.0	NM_146089	225745.0	Mm.39293	NM_146089	ENSMUSG00000041840	Haus1	BC024400|Ccdc5|HEI-C	HAUS augmin-like complex, subunit 1	protein-coding	87.0	139.0	70.5	1596.0	181.0	70.0	106.0	79.0
Merged-chr10-57727858-4	chr10	57727759	57727959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	intron (NM_008863, intron 4 of 5)	-57064.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	178.5	238.5	156.0	3307.0	356.5	119.0	209.0	157.5
Merged-chr16-93914042-4	chr16	93913932	93914132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15535.0	NM_001165925	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	21.0	25.0	21.0	209.0	295.5	107.0	113.5	108.5
Merged-chr12-102367311-4	chr12	102367264	102367464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 5 of 9)	intron (NM_177620, intron 5 of 9)	72449.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	93.0	91.0	174.0	2541.5	173.5	65.0	88.5	68.5
Merged-chr15-62055326-5	chr15	62055291	62055491	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	16134.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	17.0	11.0	8.0	244.5	14.5	4.5	10.5	15.5
Merged-chr3-90509903-1	chr3	90509803	90510003	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_001293781)	promoter-TSS (NM_001293781)	-405.0	NM_001293778	66511.0	Mm.154136	NM_023215	ENSMUSG00000001017	Chtop	2500003M10Rik|Fop|Srag	chromatin target of PRMT1	protein-coding	11.5	12.0	4.0	64.0	21.0	8.5	5.0	16.0
Merged-chr17-34197674-4	chr17	34197580	34197780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010724)	promoter-TSS (NM_010724)	-515.0	NM_010724	16913.0	Mm.180191	NM_010724	ENSMUSG00000024338	Psmb8	Lmp-7|Lmp7	proteasome (prosome, macropain) subunit, beta type 8 (large multifunctional peptidase 7)	protein-coding	65.0	114.5	37.5	818.5	190.0	100.0	76.5	52.5
Merged-chr8-117480695-4	chr8	117480558	117480758	+	941.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17617.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	9.0	11.5	8.5	180.0	39.5	18.5	24.5	25.5
Merged-chr10-51456638-4	chr10	51456537	51456737	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23975.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	28.5	29.0	22.5	480.5	60.5	8.5	17.5	13.5
Merged-chr12-24492728-4	chr12	24492630	24492830	+	953.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5851.0	NM_020614	21340.0	Mm.39082	NM_020614	ENSMUSG00000059669	Taf1b	4930408G01Rik|A230108M10Rik|TAFI68|Tafi86|p63	TATA-box binding protein associated factor, RNA polymerase I, B	protein-coding	19.0	22.0	30.5	244.5	24.0	14.0	31.0	25.5
Merged-chr18-77705002-3	chr18	77704870	77705070	+	702.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178670, intron 1 of 4)	intron (NM_178670, intron 1 of 4)	9040.0	NM_178670	212163.0	Mm.23293	NM_178670	ENSMUSG00000047466	8030462N17Rik	Akd2|Ark2N	RIKEN cDNA 8030462N17 gene	protein-coding	10.0	7.5	10.5	69.5	10.5	6.0	4.0	9.5
Merged-chr17-35089278-4	chr17	35089179	35089379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178592)	promoter-TSS (NM_178592)	-12.0	NM_178592	193742.0	Mm.43745	NM_178592	ENSMUSG00000007036	Abhd16a	AI326074|Bat-5|Bat5|D17H6S82E|NG26	abhydrolase domain containing 16A	protein-coding	106.5	133.5	90.0	1234.0	190.5	88.5	96.5	126.0
Merged-chr17-74017353-4	chr17	74017235	74017435	+	791.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053188)	TTS (NM_053188)	30581.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	7.0	14.0	9.5	156.0	15.5	10.5	8.5	13.5
Merged-chr1-39782095-4	chr1	39781986	39782186	+	675.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	23246.0	NM_001177348	100042065.0	Mm.209678	NM_001177348	ENSMUSG00000091937	Gm3646	-	predicted gene 3646	protein-coding	16.5	11.0	17.0	60.0	35.0	10.0	4.5	1.5
Merged-chr2-84267014-3	chr2	84266934	84267134	+	839.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	158232.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	5.0	4.0	1.0	44.5	55.0	12.5	36.0	30.0
Merged-chr13-30764517-4	chr13	30764405	30764605	+	766.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013674, exon 9 of 9)	3' UTR (NM_013674, exon 9 of 9)	15272.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	9.0	15.0	7.0	106.5	21.0	6.0	13.0	22.0
Merged-chr18-34927715-4	chr18	34927622	34927822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144866, intron 2 of 10)	PB1D7|SINE|Alu	4281.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	64.5	84.0	23.5	758.5	104.0	41.0	53.5	44.5
Merged-chr9-42123707-3	chr9	42123597	42123797	+	695.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011436, intron 1 of 47)	intron (NM_011436, intron 1 of 47)	600.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	2.5	2.0	0.5	22.5	31.0	7.5	13.0	8.0
Merged-chr17-12755289-4	chr17	12755192	12755392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	13981.0	NR_027784	104103.0	Mm.26553	NR_002853	ENSMUSG00000078247	Airn	2810051F02Rik|2810434M15Rik|AI256653|AI597500|AW049873|Air|B930018I07Rik|D17Ertd663e|IGF2RAS	antisense Igf2r RNA	ncRNA	214.5	310.5	203.0	3482.0	455.0	183.5	199.0	203.0
Merged-chr8-40910961-4	chr8	40910868	40911068	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007514, intron 7 of 11)	intron (NM_007514, intron 7 of 11)	-15265.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	9.5	7.0	11.5	227.5	69.0	30.0	44.0	33.5
Merged-chr2-105399237-11	chr2	105399267	105399467	+	925.8485109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009037)	promoter-TSS (NM_009037)	-48.0	NM_009037	19672.0	Mm.4876	NM_009037	ENSMUSG00000005973	Rcn1	Rcn	reticulocalbin 1	protein-coding	12.5	18.0	29.0	308.5	27.5	14.5	15.0	18.0
Merged-chr16-91485833-2	chr16	91485733	91485933	+	831.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_010508, intron 1 of 10)	intron (NM_010508, intron 1 of 10)	618.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	1.0	7.0	5.5	65.0	20.0	5.0	4.5	12.5
Merged-chr7-90048919-4	chr7	90048827	90049027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_110364, exon 6 of 6)	non-coding (NR_110364, exon 6 of 6)	19768.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	53.5	71.0	131.0	1396.5	109.0	53.0	61.0	41.5
Merged-chr5-30950039-4	chr5	30949974	30950174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003522)	promoter-TSS (NR_003522)	8.0	NR_003522	57742.0	Mm.389615	NM_021304	ENSMUSG00000006638	Abhd1	LABH-1|LABH1	abhydrolase domain containing 1	protein-coding	103.0	160.5	95.5	1108.5	234.0	99.0	94.0	78.5
Merged-chr17-29603447-3	chr17	29603351	29603551	+	763.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198647, intron 12 of 12)	intron (NM_198647, intron 12 of 12)	-7146.0	NR_045447	74092.0	Mm.396264	NR_045447	ENSMUSG00000089900	Tbc1d22bos	0610038L08Rik	TBC1 domain family, member 22B, opposite strand	ncRNA	4.5	7.0	10.5	22.0	24.0	4.0	11.0	11.5
Merged-chr5-100917562-3	chr5	100917473	100917673	+	818.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71344.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	8.0	12.5	4.5	69.0	14.0	5.0	11.0	4.5
Merged-chr12-110498746-4	chr12	110498643	110498843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081457, intron 1 of 12)	intron (NM_001081457, intron 1 of 12)	13004.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	37.0	58.0	20.0	636.5	54.0	23.0	44.0	34.0
Merged-chr10-5787170-1	chr10	5787070	5787270	+	597.0	f1_c57bl6.idr	Intergenic	Intergenic	18295.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	7.5	5.5	6.5	13.5	0.5	0.0	9.5	9.5
Merged-chr11-117960192-4	chr11	117960085	117960285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9181.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	159.5	255.5	109.0	1410.0	358.5	133.5	128.0	125.5
Merged-chr15-36794215-3	chr15	36794147	36794347	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011740, exon 1 of 7)	5' UTR (NM_011740, exon 1 of 7)	291.0	NM_011740	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	56.0	67.5	49.0	775.5	149.5	62.5	78.5	44.5
Merged-chr2-150667190-5	chr2	150667101	150667301	+	628.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040331)	promoter-TSS (NR_040331)	-293.0	NR_040331	109344.0	Mm.440012	NR_040331	ENSMUSG00000087406	E130215H24Rik	-	RIKEN cDNA E130215H24 gene	ncRNA	5.5	5.0	10.0	116.5	14.5	4.0	4.5	2.5
Merged-chr15-59802556-4	chr15	59802457	59802657	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7598.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	22.5	20.0	20.5	288.0	44.5	17.0	22.0	25.5
Merged-chr3-69060269-4	chr3	69060174	69060374	+	908.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15532.0	NM_025863	66949.0	Mm.176695	NM_025863	ENSMUSG00000034317	Trim59	2310035M22Rik|2700022F13Rik|Mrf1|TSBF1	tripartite motif-containing 59	protein-coding	21.0	45.5	19.5	268.5	28.0	6.5	11.5	13.0
Merged-chr4-106804429-4	chr4	106804323	106804523	+	940.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347159, intron 1 of 15)	intron (NM_001347159, intron 1 of 15)	584.0	NM_001347159	329910.0	Mm.222956	NM_025590	ENSMUSG00000034853	Acot11	1110020M10Rik|2010309H15Rik|AW060409|BFIT|BFIT1|Thea|Them1|mKIAA0707	acyl-CoA thioesterase 11	protein-coding	13.0	25.5	10.5	235.0	34.0	3.5	5.5	17.0
Merged-chr1-58761552-4	chr1	58761446	58761646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30994.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	94.5	195.0	84.0	1363.0	224.0	102.5	69.0	41.5
Merged-chr12-102720959-3	chr12	102720839	102721039	+	950.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16070.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	14.0	20.0	12.0	131.0	24.0	2.0	6.0	7.0
Merged-chr14-99763538-3	chr14	99763437	99763637	+	984.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	386259.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	8.0	18.0	6.5	193.0	9.5	0.0	4.5	6.0
Merged-chr11-118247560-6	chr11	118247502	118247702	+	982.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	990.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	10.5	13.0	10.0	184.0	33.0	9.5	15.5	22.5
Merged-chr13-74597181-3	chr13	74597070	74597270	+	804.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42683.0	NM_030711	80898.0	Mm.83526	NM_030711	ENSMUSG00000021583	Erap1	A-LAP|ARTS-1|Arts1|ERAAP|PILSA|PILSAP	endoplasmic reticulum aminopeptidase 1	protein-coding	4.0	3.5	5.5	82.5	21.5	6.5	13.0	13.0
Merged-chr9-44094913-4	chr9	44094808	44095008	+	895.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016808, exon 13 of 13)	3' UTR (NM_016808, exon 13 of 13)	-6862.0	NM_001190314	259172.0	Mm.227110	NM_147126	ENSMUSG00000034739	Mfrp	rd6	membrane frizzled-related protein	protein-coding	20.5	24.5	14.0	320.0	45.0	3.0	11.5	12.0
Merged-chr8-47947762-3	chr8	47947656	47947856	+	908.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133791, intron 1 of 22)	intron (NM_133791, intron 1 of 22)	42795.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	5.5	8.5	14.5	107.0	20.5	3.5	6.5	2.0
Merged-chr3-88951019-4	chr3	88950902	88951102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022994)	promoter-TSS (NM_022994)	-720.0	NM_001164533	65111.0	Mm.29028	NM_022994	ENSMUSG00000068921	Dap3	4921514D13Rik|DAP-3|MRP-S29|S29mt	death associated protein 3	protein-coding	35.5	61.0	39.5	295.5	73.0	42.0	36.5	31.5
Merged-chr17-27571450-4	chr17	27571324	27571524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A2|LTR|ERVK	-5697.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	66.5	84.5	75.5	552.5	109.5	27.5	42.5	25.0
Merged-chr3-54692713-4	chr3	54692610	54692810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019995)	promoter-TSS (NM_019995)	-105.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	202.5	261.0	188.5	3376.0	469.0	169.5	238.0	139.5
Merged-chr3-122090762-3	chr3	122090657	122090857	+	691.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007378, intron 11 of 49)	intron (NM_007378, intron 11 of 49)	46297.0	NM_007378	11304.0	Mm.3918	NM_007378	ENSMUSG00000028125	Abca4	AW050280|Abc10|Abcr|D430003I15Rik|RmP	ATP-binding cassette, sub-family A (ABC1), member 4	protein-coding	4.0	11.5	10.0	141.0	10.0	6.5	8.5	11.0
Merged-chr11-106160205-7	chr11	106160273	106160473	+	944.3618769999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356459)	promoter-TSS (NM_001356459)	-197.0	NM_172397	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	15.5	21.5	16.0	169.5	29.5	22.5	9.5	9.5
Merged-chr6-97280699-4	chr6	97280616	97280816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27936.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	32.0	75.5	40.5	465.5	139.5	54.0	38.5	40.0
Merged-chr7-126799816-2	chr7	126799698	126799898	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_007438)	promoter-TSS (NM_007438)	-544.0	NM_007438	11674.0	Mm.275831	NM_007438	ENSMUSG00000030695	Aldoa	Aldo-1|Aldo1	aldolase A, fructose-bisphosphate	protein-coding	60.0	85.5	37.0	648.0	154.0	51.5	52.5	62.0
Merged-chr10-122544408-4	chr10	122544212	122544412	+	861.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25579.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	5.5	10.0	5.5	183.5	6.0	9.0	9.0	19.0
Merged-chr12-111930932-2	chr12	111930832	111931032	+	993.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13550.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	11.0	5.5	5.5	54.5	12.5	1.0	5.5	4.5
Merged-chr4-55366216-4	chr4	55366123	55366323	+	909.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	MTC|LTR|ERVL-MaLR	16181.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	9.5	13.5	18.5	361.5	42.0	8.0	5.5	25.5
Merged-chr15-96460240-4	chr15	96460170	96460370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028148, intron 1 of 14)	CpG	573.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	42.5	51.0	57.5	658.0	95.5	22.0	44.0	32.0
Merged-chr8-119784449-4	chr8	119784350	119784550	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6034.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	29.0	38.5	13.0	369.0	73.0	12.5	29.5	34.5
Merged-chr16-55754594-4	chr16	55754491	55754691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67547.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	98.0	208.0	105.0	1886.5	297.5	127.0	118.0	89.0
Merged-chr10-93688470-4	chr10	93688390	93688590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021320, intron 3 of 9)	intron (NM_021320, intron 3 of 9)	-5168.0	NR_038017	100504069.0	Mm.391412	NR_038017	ENSMUSG00000085723	Gm15915	-	predicted gene 15915	ncRNA	55.5	90.5	46.0	715.5	108.5	41.0	43.0	52.0
Merged-chr9-56160601-2	chr9	56160501	56160701	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019793, intron 1 of 6)	CpG	469.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	8.0	14.0	10.0	148.5	16.5	7.0	12.5	10.0
Merged-chr16-36068568-4	chr16	36068481	36068681	+	970.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027342, intron 1 of 4)	intron (NM_027342, intron 1 of 4)	2934.0	NM_027342	70186.0	Mm.212991	NM_027342	ENSMUSG00000003955	Fam162a	2310056P07Rik|HGTD-P	family with sequence similarity 162, member A	protein-coding	15.0	46.5	40.0	393.5	66.5	15.5	16.5	28.5
Merged-chr7-144942363-5	chr7	144942219	144942419	+	830.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2394.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	15.0	9.5	17.5	170.0	28.0	11.0	9.5	17.5
Merged-chr2-44504489-4	chr2	44504393	44504593	+	872.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	357129.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	14.0	11.0	10.0	184.0	23.5	8.0	16.5	22.5
Merged-chr15-79433136-4	chr15	79433051	79433251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359863, intron 2 of 10)	intron (NM_001359863, intron 2 of 10)	8667.0	NM_001289899	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	36.5	33.0	32.5	707.5	40.5	31.5	23.5	38.5
Merged-chr2-34784276-4	chr2	34784169	34784369	+	901.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145522, intron 6 of 7)	B3|SINE|B2	12179.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	19.0	77.5	5.0	98.5	61.0	26.0	17.0	16.5
Merged-chr18-10030034-4	chr18	10029943	10030143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360884)	promoter-TSS (NM_001360884)	106.0	NM_001038589	59025.0	Mm.329277	NM_021522	ENSMUSG00000047879	Usp14	2610005K12Rik|2610037B11Rik|AW107924|C78769|ax|nmf375	ubiquitin specific peptidase 14	protein-coding	68.5	122.0	78.5	1062.0	204.5	80.0	106.5	74.0
Merged-chr5-34533213-4	chr5	34533110	34533310	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	7426.0	NM_011893	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	10.5	13.5	10.5	83.5	25.0	5.5	14.0	8.5
Merged-chr16-91729901-3	chr16	91729803	91730003	+	931.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	CpG	532.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	3.5	12.0	6.0	197.0	23.0	6.5	7.0	10.0
Merged-chr4-108456141-4	chr4	108456036	108456236	+	801.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3290.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	4.5	14.0	6.5	256.5	42.5	12.5	10.0	9.5
Merged-chr11-110941734-4	chr11	110941639	110941839	+	724.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26294.0	NM_010604	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	8.5	14.0	4.5	158.5	41.0	9.0	8.0	2.0
Merged-chr11-29497256-4	chr11	29497154	29497354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176841, intron 25 of 31)	intron (NM_176841, intron 25 of 31)	17779.0	NM_026465	67939.0	Mm.251087	NM_026465	ENSMUSG00000032673	Prorsd1	2010316F05Rik|Ncrna00117|Prdxdd1	prolyl-tRNA synthetase domain containing 1	protein-coding	45.0	43.0	62.0	648.5	90.0	28.5	27.0	36.5
Merged-chr9-48495339-4	chr9	48495235	48495435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326356)	promoter-TSS (NM_001326356)	-5.0	NR_136937	67010.0	Mm.76911	NM_144948	ENSMUSG00000042396	Rbm7	1200007M24Rik|1500011D06Rik|AU041934|AW554393	RNA binding motif protein 7	protein-coding	134.0	187.0	96.5	1527.0	322.5	132.5	162.5	106.5
Merged-chr13-45326159-4	chr13	45326059	45326259	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63583.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	31.0	22.5	38.0	565.5	45.0	7.0	25.0	19.0
Merged-chr3-89391975-4	chr3	89391893	89392093	+	984.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355211)	promoter-TSS (NM_001355211)	76.0	NM_001355211	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	26.5	16.5	9.0	275.5	50.0	27.5	15.0	25.0
Merged-chr7-90481036-3	chr7	90480890	90481090	+	907.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	-4995.0	NM_026734	68472.0	Mm.289791	NM_026734	ENSMUSG00000030614	Tmem126b	1110001A23Rik	transmembrane protein 126B	protein-coding	15.5	19.5	4.5	165.5	0.0	0.0	0.0	3.0
Merged-chr3-108997939-4	chr3	108997831	108998031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 2 of 10)	intron (NM_001163567, intron 2 of 10)	29676.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	21.5	37.5	27.0	344.5	95.0	31.0	34.5	30.5
Merged-chr9-61971287-3	chr9	61971195	61971395	+	956.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 4 of 7)	intron (NM_028748, intron 4 of 7)	-24496.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	11.0	15.5	7.5	240.5	12.5	8.5	4.0	8.5
Merged-chr11-4135227-4	chr11	4135153	4135353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027859)	promoter-TSS (NM_027859)	93.0	NM_027859	71673.0	Mm.240586	NM_027859	ENSMUSG00000003581	Rnf215	0610009J22Rik|AW557025|C77903	ring finger protein 215	protein-coding	64.5	108.0	96.5	870.5	152.0	71.0	74.5	79.0
Merged-chr11-110716558-2	chr11	110716458	110716658	+	760.916687	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	237218.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	6.0	8.0	18.0	90.0	12.5	4.5	5.5	5.0
Merged-chr16-23135978-4	chr16	23135870	23136070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-8240.0	NM_145480	106344.0	Mm.386835	NM_145480	ENSMUSG00000022881	Rfc4	A1|AI894123|AU040575|RFC37	replication factor C (activator 1) 4	protein-coding	19.5	31.5	22.0	199.0	70.0	21.5	33.5	23.5
Merged-chr10-117304561-3	chr10	117304455	117304655	+	777.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11687.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	14.0	16.5	11.5	183.5	7.0	4.0	6.0	12.0
Merged-chr11-62541744-4	chr11	62541639	62541839	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-2478.0	NM_028448	73139.0	Mm.390409	NM_028448	ENSMUSG00000018509	Cenpv	3110013H01Rik|AA671303|Prr6	centromere protein V	protein-coding	25.0	36.0	33.0	550.5	65.0	13.0	23.0	35.5
Merged-chr10-80932869-4	chr10	80932792	80932992	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008655)	TTS (NM_008655)	2801.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	31.5	62.0	42.0	172.5	110.0	50.5	28.5	20.5
Merged-chr16-17409238-4	chr16	17409137	17409337	+	883.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023348, intron 1 of 4)	intron (NM_023348, intron 1 of 4)	-2923.0	NM_001001983	224020.0	Mm.5718	NM_001001983	ENSMUSG00000041720	Pi4ka	Pik4ca	phosphatidylinositol 4-kinase alpha	protein-coding	13.5	35.0	21.0	164.5	28.0	2.5	11.5	4.0
Merged-chr3-28236874-4	chr3	28236793	28236993	+	718.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26321.0	NM_001163007	665113.0	Mm.126193	NM_026910	ENSMUSG00000027692	Tnik	1500031A17Rik|4831440I19Rik|AI451411|C530008O15Rik|C630040K21Rik	TRAF2 and NCK interacting kinase	protein-coding	5.0	8.0	6.0	106.5	40.5	6.0	12.5	23.0
Merged-chr6-120915434-4	chr6	120915350	120915550	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007544, intron 1 of 5)	intron (NM_007544, intron 1 of 5)	1374.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	9.0	15.5	5.0	78.0	33.5	6.5	21.5	26.5
Merged-chr4-130795116-4	chr4	130795014	130795214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	MIR|SINE|MIR	2577.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	81.5	69.5	113.0	1456.0	187.0	62.5	99.5	118.5
Merged-chr4-135018230-4	chr4	135018121	135018321	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87241.0	NM_026780	68592.0	Mm.29989	NM_026780	ENSMUSG00000028821	Syf2	1110018L13Rik|Cbpin|D4Bwg1551e|Gcipip|Ntc31|mp29|p29	SYF2 homolog, RNA splicing factor (S. cerevisiae)	protein-coding	15.0	26.0	24.0	189.0	33.0	16.0	11.5	19.5
Merged-chr18-38576188-4	chr18	38576078	38576278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25090.0	NM_011898	24066.0	Mm.42038	NM_011898	ENSMUSG00000024427	Spry4	A030006O18Rik|sprouty4	sprouty RTK signaling antagonist 4	protein-coding	23.0	23.5	29.0	352.0	56.5	26.0	33.0	19.5
Merged-chr16-30188204-4	chr16	30188095	30188295	+	975.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79337.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	21.0	31.5	32.0	586.0	40.5	10.5	25.0	22.0
Merged-chr17-35001020-4	chr17	35000944	35001144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033075)	promoter-TSS (NM_033075)	137.0	NM_011690	22321.0	Mm.28420	NM_011690	ENSMUSG00000007029	Vars	Bat6|D17H6S56E|G7a|Vars2	valyl-tRNA synthetase	protein-coding	39.5	65.0	56.5	420.0	99.0	56.5	56.0	59.5
Merged-chr2-163736117-4	chr2	163736014	163736214	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001272052, intron 2 of 11)	intron (NM_001272052, intron 2 of 11)	14125.0	NM_007398	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	27.0	43.5	31.5	647.0	33.0	16.5	16.0	36.5
Merged-chr2-27349128-3	chr2	27349026	27349226	+	837.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 1 of 29)	intron (NR_133905, intron 1 of 29)	78482.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	10.5	11.0	8.0	103.0	7.5	2.0	4.5	3.5
Merged-chr17-70119004-3	chr17	70118904	70119104	+	877.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 2 of 14)	intron (NM_001347411, intron 2 of 14)	149931.0	NM_001347411	224997.0	Mm.311840	NM_027712	ENSMUSG00000003279	Dlgap1	4933422O14Rik|9630002F18|AI845682|AI848168|BB075781|D17Bwg0511e|GKAP/SAPAP|GKPA/SAPAP|Gkap|Sapap1|mKIAA4162	DLG associated protein 1	protein-coding	6.0	29.0	15.5	324.5	9.0	2.5	0.5	3.5
Merged-chr3-14886491-8	chr3	14886379	14886579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009801, exon 1 of 7)	5' UTR (NM_009801, exon 1 of 7)	191.0	NM_009801	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	32.0	10.5	25.5	303.5	34.0	20.5	15.5	26.0
Merged-chr15-83016209-3	chr15	83016108	83016308	+	957.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028728, intron 2 of 5)	intron (NM_028728, intron 2 of 5)	6930.0	NM_028728	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	2.5	5.5	8.0	28.5	61.5	27.0	15.5	16.0
Merged-chr4-9841335-2	chr4	9841235	9841435	+	874.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3037.0	NM_013526	242316.0	Mm.302555	NM_013526	ENSMUSG00000051279	Gdf6	BMP-13|BMP13|GDF16	growth differentiation factor 6	protein-coding	4.0	2.5	3.0	20.0	34.5	5.5	6.0	7.5
Merged-chr3-96251332-4	chr3	96251251	96251451	+	950.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4651.0	NM_054045	97114.0	Mm.358797	NM_054045	ENSMUSG00000081058	Hist2h3c2	H3-614|H3.2-614|Hist2h3c2-ps|Hist2h3ca1|M32461	histone cluster 2, H3c2	protein-coding	23.5	17.0	26.0	588.0	34.5	14.0	21.0	27.0
Merged-chr3-142295054-4	chr3	142294951	142295151	+	933.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190852, intron 7 of 15)	intron (NM_001190852, intron 7 of 15)	96799.0	NM_022554	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	13.5	26.5	9.0	313.0	44.0	13.5	21.5	12.5
Merged-chr16-36041140-4	chr16	36041024	36041224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027113)	promoter-TSS (NM_027113)	-66.0	NM_027113	69544.0	Mm.37802	NM_027113	ENSMUSG00000034379	Wdr5b	2310009C03Rik|AI606931	WD repeat domain 5B	protein-coding	150.5	229.0	104.5	2202.0	349.0	129.0	138.5	112.5
Merged-chr7-133115154-3	chr7	133115059	133115259	+	726.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 1 of 10)	intron (NM_009980, intron 1 of 10)	8324.0	NM_009980	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	1.5	15.5	5.5	89.5	20.5	6.0	8.0	10.0
Merged-chr19-10605455-4	chr19	10605349	10605549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015735)	promoter-TSS (NM_015735)	-176.0	NM_015735	13194.0	Mm.289915	NM_015735	ENSMUSG00000024740	Ddb1	127kDa|AA408517|p127-Ddb1	damage specific DNA binding protein 1	protein-coding	114.5	209.5	113.0	1748.5	255.5	117.5	109.0	113.0
Merged-chr15-63665718-4	chr15	63665609	63665809	+	904.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143030.0	NM_031378	83492.0	Mm.335619	NM_031378	ENSMUSG00000079025	Gsdmc	Gsdmc1|Mlze	gasdermin C	protein-coding	11.0	45.5	17.0	438.5	45.5	10.0	12.5	17.5
Merged-chr10-60752838-4	chr10	60752727	60752927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023596)	promoter-TSS (NM_023596)	-45.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	119.5	186.5	100.5	1484.5	329.5	101.0	125.0	125.5
Merged-chr13-51843990-4	chr13	51843886	51844086	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2689.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	35.0	45.5	28.5	381.0	84.5	14.5	22.5	36.0
Merged-chr4-43267135-4	chr4	43267015	43267215	+	826.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177195)	promoter-TSS (NM_177195)	-44.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	9.0	28.0	6.5	165.5	21.5	3.0	9.5	12.0
Merged-chr7-80192499-4	chr7	80192392	80192592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013659, intron 1 of 14)	intron (NM_013659, intron 1 of 14)	5651.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	44.0	87.5	65.5	513.0	79.0	32.5	32.5	41.0
Merged-chr2-174330845-4	chr2	174330718	174330918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201616, intron 1 of 11)	CpG-8943	729.0	NM_001077510	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	36.0	85.0	43.0	504.0	133.5	35.5	70.0	75.0
Merged-chr11-97150633-4	chr11	97150574	97150774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198100)	promoter-TSS (NM_198100)	-962.0	NM_198100	73174.0	Mm.27882	NM_198100	ENSMUSG00000038517	Tbkbp1	3110043L15Rik|ProSAPiP2|SINTBAD	TBK1 binding protein 1	protein-coding	27.5	50.5	21.5	353.5	91.5	40.0	20.5	29.0
Merged-chr4-53157445-4	chr4	53157342	53157542	+	943.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	2453.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	10.5	28.5	17.5	161.5	33.0	22.0	9.0	16.0
Merged-chr3-89831369-5	chr3	89831230	89831430	+	773.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172530)	promoter-TSS (NM_172530)	-40.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	5.5	10.0	10.5	32.0	20.0	2.0	3.0	9.5
Merged-chr14-86847549-1	chr14	86847449	86847649	+	796.75	f0_balb.idr	intron (NM_019670, intron 22 of 27)	MLT1B|LTR|ERVL-MaLR	293675.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	7.5	16.5	14.0	180.5	1.0	0.0	0.5	1.0
Merged-chr9-96196951-3	chr9	96196870	96197070	+	856.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178667, intron 1 of 13)	intron (NM_178667, intron 1 of 13)	695.0	NM_001184708	211586.0	Mm.17977	NM_178667	ENSMUSG00000032411	Tfdp2	1110029I05Rik|A330080J22Rik|DP-3|DP3	transcription factor Dp 2	protein-coding	4.0	7.0	7.5	60.0	8.5	5.0	5.5	12.0
Merged-chr17-10312195-3	chr17	10312085	10312285	+	660.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021881, intron 1 of 6)	intron (NM_021881, intron 1 of 6)	7176.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	2.0	7.5	8.0	89.5	19.5	5.0	6.0	10.5
Merged-chr4-44300943-4	chr4	44300844	44301044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010790)	promoter-TSS (NM_010790)	27.0	NM_010790	17279.0	Mm.268668	NM_010790	ENSMUSG00000035683	Melk	AI327312|MPK38|mKIAA0175	maternal embryonic leucine zipper kinase	protein-coding	48.0	63.0	53.0	439.0	103.0	37.0	35.5	34.0
Merged-chr9-102615309-3	chr9	102615213	102615413	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001301689, exon 6 of 15)	exon (NM_001301689, exon 6 of 15)	10811.0	NM_001301689	28135.0	Mm.38910	NM_001081122	ENSMUSG00000032534	Cep63	4921501M07|AL450317.13gm1|AW107703|CD20R|D9Mgc41|D9Mgc48e|ET2	centrosomal protein 63	protein-coding	6.0	9.0	9.0	54.5	66.0	19.0	24.0	40.0
Merged-chr13-9113952-4	chr13	9113842	9114042	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	20061.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	23.0	15.0	24.0	442.5	56.0	20.5	38.5	16.0
Merged-chr6-136518707-4	chr6	136518604	136518804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019426)	promoter-TSS (NM_019426)	-147.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	141.5	206.5	138.5	1891.5	421.0	155.0	164.5	141.5
Merged-chr10-10556040-4	chr10	10555954	10556154	+	969.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	intron (NM_026405, intron 1 of 2)	2153.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	29.0	33.0	16.5	460.5	66.5	12.5	31.5	33.5
Merged-chr3-69208831-4	chr3	69208718	69208918	+	920.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-13601.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	7.5	20.5	15.0	197.0	31.0	7.0	15.0	15.0
Merged-chr2-21146755-4	chr2	21146662	21146862	+	857.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58603.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	19.0	2.0	4.5	154.5	16.5	6.5	18.0	7.0
Merged-chr17-55957351-3	chr17	55957249	55957449	+	775.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_015766)	TTS (NM_015766)	-1838.0	NM_028381	72886.0	Mm.22796	NM_028381	ENSMUSG00000003208	Ccdc94	2900016D05Rik|AI413813	coiled-coil domain containing 94	protein-coding	7.5	13.0	12.0	61.0	18.0	10.5	8.5	9.0
Merged-chr17-29489183-4	chr17	29489083	29489283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1862.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	58.5	149.5	63.5	839.5	281.5	91.5	81.5	84.0
Merged-chr2-93167233-4	chr2	93167131	93167331	+	981.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20317.0	NM_001356536	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	10.0	19.5	20.5	400.5	60.0	16.5	38.5	57.0
Merged-chr2-84734014-4	chr2	84733919	84734119	+	965.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005342)	promoter-TSS (NM_001005342)	-185.0	NM_001005342	241525.0	Mm.486398	NM_001005342	ENSMUSG00000034059	Ypel4	-	yippee like 4	protein-coding	6.0	14.0	8.0	128.0	38.5	24.0	20.5	20.5
Merged-chr2-32912604-4	chr2	32912497	32912697	+	974.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146119, intron 5 of 13)	intron (NM_146119, intron 5 of 13)	36463.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	21.0	44.5	15.5	371.5	68.5	43.0	15.5	32.5
Merged-chr10-100160000-4	chr10	100159889	100160089	+	814.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144168.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	14.5	8.0	21.0	334.0	28.5	9.5	18.5	10.5
Merged-chr7-122101881-4	chr7	122101769	122101969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028177)	promoter-TSS (NM_028177)	-21.0	NM_028177	70316.0	Mm.3014	NM_028177	ENSMUSG00000030869	Ndufab1	2210401F17Rik|2310039H15Rik|2610003B19Rik|8kDa|9130423F15Rik|ACP|CI-SDAP|SDAP	NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1	protein-coding	139.0	247.5	98.0	1882.5	337.0	131.5	171.0	143.5
Merged-chr3-51197317-4	chr3	51197203	51197403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27144.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	131.5	160.0	157.5	1527.5	201.0	102.0	117.0	80.5
Merged-chr10-17948139-4	chr10	17948032	17948232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033432)	promoter-TSS (NM_001033432)	-65.0	NM_001033432	380629.0	Mm.276430	NM_001033432	ENSMUSG00000039879	Heca	Gm869|HDC|HDCL	hdc homolog, cell cycle regulator	protein-coding	151.0	237.5	165.5	2026.0	417.0	158.0	139.0	140.5
Merged-chr10-117144328-3	chr10	117144207	117144407	+	784.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 1 of 9)	RSINE1|SINE|B4	4167.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	7.5	9.5	5.0	126.5	19.0	12.0	2.5	1.5
Merged-chr11-90002882-4	chr11	90002776	90002976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008796)	promoter-TSS (NM_008796)	18.0	NM_008796	18559.0	Mm.5062	NM_008796	ENSMUSG00000020553	Pctp	PC-TP|StarD2	phosphatidylcholine transfer protein	protein-coding	112.5	177.0	92.0	1907.5	223.0	81.5	157.0	76.5
Merged-chr16-76356129-4	chr16	76356012	76356212	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	16937.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	9.5	40.0	33.0	464.5	68.0	30.0	26.0	29.0
Merged-chr6-72379643-4	chr6	72379590	72379790	+	935.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016872, intron 1 of 2)	intron (NM_016872, intron 1 of 2)	778.0	NM_001080742	53620.0	Mm.440321	NM_016872	ENSMUSG00000073002	Vamp5	AF119384|Camp	vesicle-associated membrane protein 5	protein-coding	6.0	13.5	7.5	80.0	28.0	10.0	3.0	5.5
Merged-chr2-133497979-4	chr2	133497871	133498071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54188.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	38.5	51.5	48.0	843.5	109.0	37.0	51.5	39.5
Merged-chr17-51179401-4	chr17	51179306	51179506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285991)	promoter-TSS (NM_001285991)	-54.0	NM_001285991	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	182.0	275.0	213.5	2931.0	396.0	129.5	221.0	141.5
Merged-chr14-70894169-6	chr14	70894095	70894295	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302095, intron 1 of 6)	intron (NM_001302095, intron 1 of 6)	4088.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	11.0	16.5	24.0	169.5	48.0	17.5	16.0	11.5
Merged-chr10-21556557-3	chr10	21556459	21556659	+	835.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36586.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	3.0	12.0	5.0	67.0	13.0	5.5	9.5	11.0
Merged-chr7-30909037-4	chr7	30908943	30909143	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346085, exon 5 of 11)	exon (NM_001346085, exon 5 of 11)	5278.0	NM_001346089	17136.0	Mm.241355	NM_010758	ENSMUSG00000036634	Mag	Gma|siglec-4a	myelin-associated glycoprotein	protein-coding	41.5	46.0	40.5	385.5	38.0	12.0	20.0	26.5
Merged-chr13-45006055-4	chr13	45005933	45006133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3937.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	107.5	145.5	100.0	1839.0	146.5	56.5	79.5	86.5
Merged-chr4-63556923-4	chr4	63556827	63557027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1836.0	NM_001356355	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	40.0	44.5	23.5	717.0	75.5	31.5	30.0	25.5
Merged-chr4-140971811-4	chr4	140971703	140971903	+	829.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355515, intron 3 of 7)	intron (NM_001355515, intron 3 of 7)	10532.0	NM_023374	67680.0	Mm.246965	NM_023374	ENSMUSG00000009863	Sdhb	0710008N11Rik	succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	protein-coding	9.5	11.0	5.0	55.0	37.5	7.0	13.0	13.0
Merged-chr12-12270692-4	chr12	12270572	12270772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	8533.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	104.0	235.0	105.0	1330.5	356.0	139.0	105.0	97.5
Merged-chr10-125387794-4	chr10	125387713	125387913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58850.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	21.0	27.5	37.5	493.5	37.5	15.5	19.5	20.0
Merged-chr3-58516884-4	chr3	58516787	58516987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8934.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	51.5	75.5	47.0	994.5	113.0	27.5	47.0	36.0
Merged-chr17-23592753-4	chr17	23592653	23592853	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011747, intron 1 of 5)	CpG	-6501.0	NM_001356268	22654.0	Mm.40326	NM_011747	ENSMUSG00000062012	Zfp13	AI835008|Krox-8|Zfp-13	zinc finger protein 13	protein-coding	26.5	33.0	14.5	364.5	71.5	19.0	35.0	23.5
Merged-chr16-8768728-3	chr16	8768595	8768795	+	996.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30353.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	16.5	13.0	15.5	159.0	25.0	1.5	9.0	5.5
Merged-chr8-82997066-4	chr8	82996969	82997169	+	949.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 2 of 6)	intron (NM_177378, intron 2 of 6)	133713.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	36.5	49.5	42.0	595.5	35.0	6.5	15.5	12.5
Merged-chr14-16380325-4	chr14	16380232	16380432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009409, intron 1 of 35)	intron (NM_009409, intron 1 of 35)	15126.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	28.0	48.0	47.5	535.0	65.0	34.0	33.5	26.5
Merged-chr11-83063351-4	chr11	83063250	83063450	+	893.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1762.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	18.5	12.0	12.0	161.0	31.5	9.0	7.5	17.5
Merged-chr11-70472968-3	chr11	70472865	70473065	+	950.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12981.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	7.5	12.0	19.0	191.0	18.5	3.0	8.5	8.5
Merged-chr17-80731272-4	chr17	80731178	80731378	+	987.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3253.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	47.0	24.0	35.0	627.5	85.5	22.5	36.5	28.5
Merged-chr11-101735167-4	chr11	101735113	101735313	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144831, intron 2 of 22)	URR1B|DNA|hAT-Charlie	2257.0	NM_144831	217207.0	Mm.28186	NM_144831	ENSMUSG00000034931	Dhx8	Ddx8|mDEAH6|mKIAA4096	DEAH (Asp-Glu-Ala-His) box polypeptide 8	protein-coding	12.5	23.0	5.5	247.5	26.0	6.0	15.5	14.0
Merged-chr10-118797514-3	chr10	118797402	118797602	+	842.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71401.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	17.0	12.0	13.0	114.5	26.0	13.5	7.5	2.0
Merged-chr9-41130768-4	chr9	41130673	41130873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	27289.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	44.0	66.0	59.0	746.5	120.5	40.5	36.5	36.5
Merged-chr14-51140553-3	chr14	51140461	51140661	+	821.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6206.0	NM_011271	19752.0	Mm.235538	NM_011271	ENSMUSG00000035896	Rnase1	AI574248|Rib-1|Rib1	ribonuclease, RNase A family, 1 (pancreatic)	protein-coding	16.0	14.0	14.0	229.0	12.0	6.5	8.0	9.0
Merged-chr13-20181540-3	chr13	20181437	20181637	+	628.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	91030.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	16.0	22.0	5.0	130.5	10.5	14.5	8.0	10.0
Merged-chr18-38025123-4	chr18	38025042	38025242	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26173.0	NM_001205336	106952.0	Mm.247642	NM_139206	ENSMUSG00000024451	Arap3	Centd3|Drag1|E030006K04Rik|cnt-d3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	protein-coding	4.5	9.0	9.5	131.5	9.5	10.5	13.5	15.0
Merged-chr19-41895737-4	chr19	41895649	41895849	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199447, intron 1 of 33)	intron (NM_199447, intron 1 of 33)	404.0	NM_199447	107094.0	Mm.276044	NM_199447	ENSMUSG00000035049	Rrp12	AA408556|AA536972|mKIAA0690	ribosomal RNA processing 12 homolog (S. cerevisiae)	protein-coding	21.5	33.5	8.5	197.0	40.0	19.5	18.0	15.5
Merged-chr11-106659340-3	chr11	106659280	106659480	+	827.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001032378, intron 13 of 13)	intron (NM_001032378, intron 13 of 13)	-46450.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	6.5	8.5	3.0	99.5	12.0	8.5	6.0	6.0
Merged-chr11-8579519-4	chr11	8579422	8579622	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	intron (NM_001083587, intron 3 of 30)	85013.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	29.0	47.0	26.0	288.0	77.5	29.0	19.0	14.0
Merged-chr11-106562959-4	chr11	106562847	106563047	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198292, intron 2 of 11)	MTEb|LTR|ERVL-MaLR	49983.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	36.5	65.0	44.0	689.0	76.5	14.0	22.5	20.0
Merged-chr6-108327822-4	chr6	108327720	108327920	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	114724.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	17.5	36.0	21.0	380.5	40.5	21.5	20.0	20.0
Merged-chr14-60910342-4	chr14	60910226	60910426	+	715.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	125760.0	NR_040642	70478.0	Mm.274650	NM_027436	ENSMUSG00000021993	Mipep	5730405E07Rik|MIP	mitochondrial intermediate peptidase	protein-coding	6.5	4.0	10.0	82.0	12.5	6.5	12.0	14.0
Merged-chr3-152913240-5	chr3	152913106	152913306	+	933.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	69001.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	8.0	6.0	7.5	170.0	28.5	10.0	9.0	19.0
Merged-chr19-46395234-4	chr19	46395130	46395330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016860, intron 1 of 10)	CpG	505.0	NM_016860	54130.0	Mm.3118	NM_016860	ENSMUSG00000025228	Actr1a	Arp1|alpha-Arp1	ARP1 actin-related protein 1A, centractin alpha	protein-coding	174.0	233.5	117.5	2240.0	396.5	132.0	192.0	135.0
Merged-chr16-11322917-4	chr16	11322831	11323031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028964)	promoter-TSS (NM_028964)	27.0	NM_028964	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	74.5	137.0	74.0	1432.5	166.5	80.5	106.0	58.0
Merged-chr12-84675178-4	chr12	84675132	84675332	+	910.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23575.0	NM_001033334	627191.0	Mm.152484	NM_001033334	ENSMUSG00000071234	Syndig1l	DSPC1|Gm261|SynDIG2|Tmem90a	synapse differentiation inducing 1 like	protein-coding	7.5	11.5	1.5	58.0	27.5	5.0	9.5	15.0
Merged-chr3-75861853-3	chr3	75861745	75861945	+	712.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	95104.0	NM_175193	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	4.0	7.0	11.5	139.0	34.0	6.5	5.5	9.0
Merged-chr4-95230646-4	chr4	95230559	95230759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-178437.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	62.0	68.5	95.0	1156.5	186.0	56.0	86.5	91.0
Merged-chr12-102425523-4	chr12	102425399	102425599	+	812.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	B3A|SINE|B2	14314.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	5.0	14.0	8.0	188.0	27.0	6.0	6.5	15.0
Merged-chr11-69060452-6	chr11	69060352	69060552	+	919.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028005, exon 1 of 1)	exon (NM_028005, exon 1 of 1)	677.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	8.0	14.0	11.0	67.5	13.5	11.0	4.5	19.5
Merged-chr6-131387734-4	chr6	131387644	131387844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011733, intron 1 of 8)	intron (NM_011733, intron 1 of 8)	706.0	NM_139117	56449.0	Mm.458000	NM_011733	ENSMUSG00000030189	Ybx3	Csda|Dpba|MSY3|MSY4|Yb2|dbpA|oxyR	Y box protein 3	protein-coding	33.5	48.0	25.0	612.0	50.5	20.0	34.0	29.5
Merged-chr1-64222814-6	chr1	64222727	64222927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101438.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	19.5	26.5	25.0	344.5	89.0	22.5	23.0	28.0
Merged-chr6-54867546-3	chr6	54867436	54867636	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199143, intron 2 of 4)	intron (NM_199143, intron 2 of 4)	50620.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	27.0	23.5	23.5	321.0	18.0	5.0	6.0	2.0
Merged-chr19-55642108-4	chr19	55642027	55642227	+	917.757141	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045318, exon 4 of 4)	non-coding (NR_045318, exon 4 of 4)	60077.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	11.5	19.5	9.5	141.0	29.0	10.0	7.5	7.5
Merged-chr7-90023669-3	chr7	90023543	90023743	+	968.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5516.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	18.0	23.0	11.5	201.5	41.0	10.0	14.0	22.5
Merged-chr12-55488897-4	chr12	55488791	55488991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010907)	TTS (NM_010907)	3756.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	177.0	198.0	254.5	3443.0	326.0	130.0	181.5	144.0
Merged-chr1-182489929-4	chr1	182489818	182490018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009794, intron 6 of 20)	intron (NM_009794, intron 6 of 20)	27692.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	99.0	117.5	55.0	1679.5	209.0	92.0	117.5	72.5
Merged-chr7-84605932-4	chr7	84605853	84606053	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010176)	promoter-TSS (NM_010176)	-11.0	NM_010176	14085.0	Mm.3798	NM_010176	ENSMUSG00000030630	Fah	swst	fumarylacetoacetate hydrolase	protein-coding	25.5	27.5	45.0	597.5	29.0	8.5	21.5	16.0
Merged-chr9-119088616-1	chr9	119088516	119088716	+	1000.0	f0_c57.idr	promoter-TSS (NM_001293648)	promoter-TSS (NM_001293648)	-355.0	NM_001293648	18799.0	Mm.23963	NM_019676	ENSMUSG00000010660	Plcd1	AW212592|C79986	phospholipase C, delta 1	protein-coding	60.5	73.5	70.0	533.0	127.0	57.5	84.0	66.5
Merged-chr2-27289206-4	chr2	27289100	27289300	+	969.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 11 of 29)	intron (NR_133905, intron 11 of 29)	-41897.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	16.5	38.0	13.0	173.5	35.5	26.0	21.5	16.5
Merged-chr5-138262270-4	chr5	138262159	138262359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153161, exon 6 of 11)	exon (NM_153161, exon 6 of 11)	-1786.0	NR_045821	69004.0	Mm.439868	NR_045821	ENSMUSG00000085227	6330418K02Rik	-	RIKEN cDNA 6330418K02 gene	ncRNA	49.5	38.5	41.5	595.5	57.0	41.0	32.5	34.5
Merged-chr16-24964519-4	chr16	24964417	24964617	+	872.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-95122.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	16.0	15.5	10.0	283.5	36.5	3.5	11.0	19.5
Merged-chr2-127182994-4	chr2	127182892	127183092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25288.0	NM_198630	329509.0	Mm.120738	NM_198630	ENSMUSG00000044145	1810024B03Rik	-	RIKEN cDNA 1810024B03 gene	protein-coding	61.5	102.0	72.5	1032.5	171.5	56.0	98.0	87.0
Merged-chr4-75317346-4	chr4	75317245	75317445	+	886.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-39053.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	11.5	5.5	22.5	134.0	28.0	5.5	15.0	9.5
Merged-chr1-37428097-2	chr1	37427993	37428193	+	597.5	f0_balb.idr|f0_c57.idr	intron (NM_198006, intron 2 of 2)	intron (NM_198006, intron 2 of 2)	2010.0	NM_198006	76178.0	Mm.28085	NM_198006	ENSMUSG00000026112	Coa5	1700001A24Rik|6330578E17Rik|Pet191	cytochrome C oxidase assembly factor 5	protein-coding	4.5	8.0	7.0	100.0	24.5	2.0	11.5	8.0
Merged-chr12-72336225-4	chr12	72336124	72336324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153457, intron 1 of 8)	intron (NM_153457, intron 1 of 8)	72830.0	NM_001286448	104001.0	Mm.221275	NM_153457	ENSMUSG00000021087	Rtn1	Nsp	reticulon 1	protein-coding	21.0	32.0	30.0	558.0	131.5	47.5	55.5	63.0
Merged-chr12-111036393-4	chr12	111036294	111036494	+	969.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3404.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	20.0	32.0	6.5	144.5	31.0	13.0	4.5	17.5
Merged-chr10-122116792-4	chr10	122116702	122116902	+	913.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-2895.0	NR_027637	100043513.0	Mm.429141	NR_027637	ENSMUSG00000111952	Gm4489	Gm241	predicted gene 4489	ncRNA	6.0	10.5	21.5	197.5	45.5	14.5	22.5	11.5
Merged-chr11-5741195-4	chr11	5741102	5741302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361590)	promoter-TSS (NM_001361590)	-26.0	NM_178623	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	52.5	44.0	35.5	590.0	118.0	30.5	52.0	45.0
Merged-chr1-55238000-5	chr1	55237896	55238096	+	854.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175439, exon 1 of 1)	exon (NM_175439, exon 1 of 1)	819.0	NM_175439	212679.0	Mm.19223	NM_175439	ENSMUSG00000046994	Mars2	C730026E21Rik|MetRS	methionine-tRNA synthetase 2 (mitochondrial)	protein-coding	8.0	18.5	4.5	85.0	6.0	3.5	6.0	7.5
Merged-chr4-26346847-4	chr4	26346736	26346936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172865)	promoter-TSS (NM_172865)	-184.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	133.0	226.0	289.5	2854.0	336.0	151.0	158.0	164.0
Merged-chr1-180768590-4	chr1	180768495	180768695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42552.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	45.0	45.0	48.5	641.5	87.0	44.0	31.5	40.0
Merged-chr15-96699057-4	chr15	96698935	96699135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355633, intron 1 of 14)	CpG	693.0	NM_001355633	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	69.5	123.0	50.0	775.0	126.5	69.5	47.0	87.0
Merged-chr8-120103053-4	chr8	120102927	120103127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1555.0	NM_133967	102193.0	Mm.240076	NM_133967	ENSMUSG00000031823	Zdhhc7	AL024087|Gramp2	zinc finger, DHHC domain containing 7	protein-coding	53.5	92.0	86.5	1391.5	163.5	57.0	58.5	48.0
Merged-chr4-128667345-4	chr4	128667267	128667467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	12665.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	48.5	56.0	40.5	350.5	114.5	38.0	43.5	52.0
Merged-chr16-87432609-4	chr16	87432498	87432698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081068)	promoter-TSS (NM_001081068)	8.0	NM_001081068	78913.0	Mm.249005	NM_001081068	ENSMUSG00000052299	Ltn1	4930528H02Rik|AV266914|C87237|Listerin|Rnf160|Zfp294	listerin E3 ubiquitin protein ligase 1	protein-coding	257.0	362.0	223.0	4435.0	726.0	204.0	297.5	230.0
Merged-chr5-105684151-4	chr5	105684041	105684241	+	955.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-15828.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	51.0	31.0	74.5	821.5	50.0	10.0	31.0	20.0
Merged-chr9-77754703-6	chr9	77754643	77754843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151778, exon 1 of 17)	non-coding (NR_151778, exon 1 of 17)	208.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	98.0	142.5	126.5	1178.0	290.0	128.5	104.0	68.0
Merged-chr8-39298669-3	chr8	39298563	39298763	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044988, intron 1 of 3)	intron (NR_044988, intron 1 of 3)	683.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	50.5	54.0	43.5	1060.0	6.0	1.0	0.5	0.0
Merged-chr17-8857162-2	chr17	8857072	8857272	+	654.5	f0_balb.idr|f0_c57.idr	intron (NM_001347321, intron 1 of 21)	intron (NM_001347321, intron 1 of 21)	7187.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	8.0	6.5	5.5	173.0	21.0	4.5	10.0	8.5
Merged-chr9-90269108-4	chr9	90269028	90269228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	1641.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	26.5	60.0	46.0	528.5	92.0	37.5	29.5	25.0
Merged-chr10-17721172-4	chr10	17721122	17721322	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2006.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	18.0	13.5	20.5	297.0	55.5	13.0	19.5	23.0
Merged-chr7-19933693-4	chr7	19933574	19933774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12531.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	49.0	52.5	72.0	842.0	102.0	39.0	61.5	59.0
Merged-chr2-83622005-4	chr2	83621868	83622068	+	738.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-22610.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	9.0	8.5	7.5	72.0	19.0	9.5	1.0	2.0
Merged-chr4-44016320-4	chr4	44016221	44016421	+	932.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080384, intron 2 of 5)	intron (NM_001080384, intron 2 of 5)	3671.0	NM_001290470	12757.0	Mm.298875	NM_016760	ENSMUSG00000028478	Clta	AV026556|Lca	clathrin, light polypeptide (Lca)	protein-coding	8.0	21.5	5.5	217.5	33.5	10.5	12.0	16.0
Merged-chr16-37654466-4	chr16	37654358	37654558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026610)	promoter-TSS (NM_026610)	-90.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	200.0	247.0	130.0	1897.0	381.0	147.5	199.0	147.5
Merged-chr11-43569869-4	chr11	43569763	43569963	+	938.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045530, intron 3 of 5)	intron (NM_001045530, intron 3 of 5)	31699.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	30.5	46.5	27.0	455.5	16.5	2.0	25.0	15.0
Merged-chr17-26095438-4	chr17	26095346	26095546	+	850.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019731)	promoter-TSS (NM_019731)	24.0	NM_019731	56520.0	Mm.41787	NM_019731	ENSMUSG00000024177	Nme4	2610027N22Rik|2810024O08Rik|5730493H09Rik|NM23-M4|Nm23M4	NME/NM23 nucleoside diphosphate kinase 4	protein-coding	8.0	24.0	6.0	231.0	26.0	9.0	8.0	8.5
Merged-chr3-69669745-4	chr3	69669637	69669837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-52318.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	48.5	70.5	30.5	596.5	119.0	39.5	52.0	52.5
Merged-chr11-78697978-4	chr11	78697862	78698062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008702)	promoter-TSS (NM_008702)	-537.0	NM_008702	18099.0	Mm.9001	NM_008702	ENSMUSG00000017376	Nlk	AI194375	nemo like kinase	protein-coding	132.0	229.0	68.5	1168.0	231.5	77.5	77.5	106.5
Merged-chr17-70746928-4	chr17	70746841	70747041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	Charlie9|DNA|hAT-Charlie	99836.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	67.0	70.0	39.0	651.0	63.0	50.5	26.0	25.0
Merged-chr14-66250349-3	chr14	66250261	66250461	+	908.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	30691.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	9.0	6.5	6.5	165.5	23.5	7.5	6.0	9.5
Merged-chr7-28765361-4	chr7	28765276	28765476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306222, intron 1 of 5)	L2a|LINE|L2	1268.0	NM_001306222	18036.0	Mm.220333	NM_010908	ENSMUSG00000030595	Nfkbib	I(Kappa)B(beta)|I-kappa-B-beta|IKB-beta|IKappaBbeta|IkB|IkBb|NF-kappa-BIB|ikB-B	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, beta	protein-coding	112.0	209.5	83.0	1046.5	317.5	143.0	102.5	88.5
Merged-chr13-54611125-7	chr13	54611065	54611265	+	994.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347512, exon 1 of 6)	exon (NM_001347512, exon 1 of 6)	208.0	NM_028870	74325.0	Mm.290026	NM_028870	ENSMUSG00000047547	Cltb	2310046E19Rik|lcb	clathrin, light polypeptide (Lcb)	protein-coding	29.0	26.5	33.0	230.0	52.5	15.0	16.5	16.0
Merged-chr10-12612630-3	chr10	12612543	12612743	+	930.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 50 of 73)	intron (NM_011682, intron 50 of 73)	249092.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	9.0	17.0	7.0	275.5	27.5	8.5	23.0	10.0
Merged-chr6-137541400-3	chr6	137541294	137541494	+	733.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271588, intron 1 of 20)	intron (NM_001271588, intron 1 of 20)	-21499.0	NM_001271589	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	9.0	10.5	11.0	185.0	18.5	9.5	5.0	2.0
Merged-chr1-152525120-4	chr1	152525020	152525220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 15 of 17)	intron (NM_016846, intron 15 of 17)	100097.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	58.5	115.5	65.0	804.5	148.0	62.5	56.5	60.0
Merged-chr1-154118119-4	chr1	154118040	154118240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-83047.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	56.5	70.5	59.5	773.5	146.0	64.0	59.5	52.0
Merged-chr8-84066649-4	chr8	84066575	84066775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009055)	promoter-TSS (NM_009055)	-161.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	334.5	666.5	418.5	5168.0	870.5	397.5	421.5	355.0
Merged-chr16-21570379-3	chr16	21570257	21570457	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 41 of 46)	intron (NM_001081366, intron 41 of 46)	124308.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	8.0	4.0	5.5	115.0	6.0	4.5	5.5	13.0
Merged-chr11-69834294-3	chr11	69834166	69834366	+	749.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198862, exon 1 of 7)	exon (NM_198862, exon 1 of 7)	583.0	NM_198862	216856.0	Mm.151293	NM_198862	ENSMUSG00000051790	Nlgn2	NL2|NLG2	neuroligin 2	protein-coding	15.5	5.5	7.0	92.5	13.5	7.0	7.5	7.5
Merged-chr11-117769147-3	chr11	117769044	117769244	+	765.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_154387, exon 15 of 19)	non-coding (NR_154387, exon 15 of 19)	10504.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	6.5	8.0	4.5	98.0	14.0	4.5	4.5	14.5
Merged-chr7-35586186-4	chr7	35586085	35586285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145840)	promoter-TSS (NM_145840)	-62.0	NM_145633	245886.0	Mm.272620	NM_145633	ENSMUSG00000034867	Ankrd27	AA408090|BC016493|D330003H11Rik|Varp	ankyrin repeat domain 27 (VPS9 domain)	protein-coding	172.0	219.0	127.5	2722.0	396.0	109.0	225.0	164.5
Merged-chr9-16214198-2	chr9	16214098	16214298	+	744.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	MTA_Mm|LTR|ERVL-MaLR	164033.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	9.5	11.0	4.5	61.5	8.5	4.0	0.5	10.5
Merged-chr17-26537762-4	chr17	26537650	26537850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23762.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	24.0	47.5	20.5	265.0	42.0	17.5	19.5	15.0
Merged-chr3-30904812-4	chr3	30904704	30904904	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001165955, exon 14 of 14)	3' UTR (NM_001165955, exon 14 of 14)	48854.0	NM_001286994	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	5.5	12.5	19.0	272.0	33.0	6.0	9.5	14.0
Merged-chr19-53312012-5	chr19	53311933	53312133	+	914.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	intron (NM_001360348, intron 1 of 5)	588.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	8.5	14.5	11.5	142.5	19.0	10.5	15.0	18.0
Merged-chr2-148586846-4	chr2	148586749	148586949	+	810.516663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85766.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	11.0	17.5	23.0	177.5	37.0	13.5	10.5	9.5
Merged-chr14-104522268-3	chr14	104522164	104522364	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026047, intron 1 of 5)	CpG	402.0	NM_026047	72486.0	Mm.291811	NM_026047	ENSMUSG00000022120	Rnf219	2610206B13Rik|2810449K13Rik|AI451544	ring finger protein 219	protein-coding	29.5	25.5	38.5	254.0	39.5	15.0	19.0	28.5
Merged-chr5-143499886-3	chr5	143499788	143499988	+	846.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 11 of 14)	intron (NM_144915, intron 11 of 14)	28105.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	13.0	22.0	3.5	126.5	10.0	7.5	6.5	10.0
Merged-chr2-102977400-4	chr2	102977306	102977506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-75741.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	31.0	32.0	17.5	291.0	74.0	40.0	35.5	40.5
Merged-chr3-103280476-3	chr3	103280376	103280576	+	915.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079830, intron 1 of 18)	CpG	1183.0	NM_053170	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	12.0	18.5	22.0	206.0	15.0	10.0	10.0	9.0
Merged-chr4-134764018-4	chr4	134763932	134764132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	3972.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	25.0	18.0	27.5	422.0	56.5	25.0	25.0	24.5
Merged-chr11-79125886-3	chr11	79125767	79125967	+	807.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	20606.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	6.5	5.0	12.0	104.0	6.0	5.5	2.5	0.0
Merged-chr6-54088350-4	chr6	54088251	54088451	+	758.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	48419.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	6.0	16.0	4.5	97.0	41.5	10.5	8.0	7.0
Merged-chr6-116724670-4	chr6	116724565	116724765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7907.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	27.0	44.5	27.5	527.0	119.0	64.5	54.0	47.0
Merged-chr2-5064056-4	chr2	5063974	5064174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181848)	promoter-TSS (NM_181848)	43.0	NM_181848	71648.0	Mm.116942	NM_181848	ENSMUSG00000026672	Optn	4930441O07Rik|FIP2|HYPL|NRP	optineurin	protein-coding	62.5	124.5	68.0	1013.0	298.0	115.0	105.5	82.0
Merged-chr15-90618149-3	chr15	90618050	90618250	+	638.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357979, intron 4 of 18)	intron (NM_001357979, intron 4 of 18)	61238.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	6.0	6.0	14.0	122.5	9.0	3.5	2.0	4.0
Merged-chr7-4064071-7	chr7	4063993	4064193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113474)	promoter-TSS (NM_001113474)	-889.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	46.5	54.5	34.5	260.5	83.0	49.0	36.5	55.5
Merged-chr14-72710598-3	chr14	72710493	72710693	+	916.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207636)	promoter-TSS (NM_207636)	-590.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	9.0	20.0	4.5	93.0	15.0	9.5	7.5	18.0
Merged-chr8-94333577-2	chr8	94333477	94333677	+	984.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_001205311, exon 5 of 25)	exon (NM_001205311, exon 5 of 25)	4369.0	NM_001205311	20497.0	Mm.25804	NM_019415	ENSMUSG00000031766	Slc12a3	AI035291|NCC|NCCT|TSC	solute carrier family 12, member 3	protein-coding	9.0	7.5	4.0	62.0	13.5	6.0	8.0	8.5
Merged-chr18-34080195-4	chr18	34080092	34080292	+	898.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72986.0	NM_013512	13824.0	Mm.3465	NM_013512	ENSMUSG00000024376	Epb41l4a	Epb4.1l4|Epb4.1l4a|NBL4	erythrocyte membrane protein band 4.1 like 4a	protein-coding	12.0	13.0	7.0	203.5	44.0	17.5	9.0	13.5
Merged-chr11-50377625-4	chr11	50377515	50377715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021510)	promoter-TSS (NM_021510)	-104.0	NM_021510	59013.0	Mm.21740	NM_021510	ENSMUSG00000007850	Hnrnph1	AI642080|E430005G16Rik|Hnrnph|Hnrph1	heterogeneous nuclear ribonucleoprotein H1	protein-coding	178.0	295.5	184.5	1804.0	395.0	173.0	127.0	167.5
Merged-chr18-60624498-3	chr18	60624407	60624607	+	885.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177340)	promoter-TSS (NM_177340)	-202.0	NM_177340	104027.0	Mm.252321	NM_177340	ENSMUSG00000043079	Synpo	9030217H17Rik|9130229N11|9330140I15Rik|AW046661	synaptopodin	protein-coding	5.5	5.0	8.5	116.5	13.5	2.0	2.0	7.0
Merged-chr2-165367204-3	chr2	165367114	165367314	+	728.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5095.0	NM_001005425	381405.0	Mm.296323	NM_001005425	ENSMUSG00000056824	Zfp663	Gm1008	zinc finger protein 663	protein-coding	8.5	6.0	2.0	91.5	18.0	9.0	6.0	6.5
Merged-chr4-46390670-4	chr4	46390560	46390760	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1223.0	NM_001347095	74753.0	Mm.45973	NM_029086	ENSMUSG00000028331	Trmo	5830415F09Rik|AV014846|Nap1	tRNA methyltransferase O	protein-coding	20.0	47.5	19.5	451.0	75.5	25.5	35.0	29.5
Merged-chr10-30655860-4	chr10	30655759	30655959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111267)	promoter-TSS (NM_001111267)	8.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	81.5	98.0	120.5	1589.0	248.5	65.0	158.5	130.0
Merged-chr4-155821209-3	chr4	155821096	155821296	+	711.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207678, intron 8 of 10)	B2_Mm1a|SINE|B2	8707.0	NM_207678	56036.0	Mm.23492	NM_018856	ENSMUSG00000029068	Ccnl2	1700010A01Rik|1810019L15Rik|2010319M22Rik|AA409936|AW261738|Ania-6b|HCLA-150|Pcee|SB138	cyclin L2	protein-coding	4.5	10.0	2.5	17.5	28.0	7.0	10.5	6.5
Merged-chr1-55513057-4	chr1	55512934	55513134	+	858.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	107088.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	14.0	16.0	14.0	163.0	58.5	16.5	14.5	12.5
Merged-chr17-51814606-3	chr17	51814466	51814666	+	756.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163632, intron 1 of 10)	intron (NM_001163632, intron 1 of 10)	-2382.0	NM_001357636	20230.0	Mm.311655	NM_009122	ENSMUSG00000023927	Satb1	2610306G12Rik|AW413156	special AT-rich sequence binding protein 1	protein-coding	8.0	6.5	7.5	194.5	25.0	2.0	5.0	10.5
Merged-chr1-58742614-4	chr1	58742510	58742710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 7 of 8)	intron (NM_001355056, intron 7 of 8)	12058.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	92.5	108.0	79.5	1033.5	151.5	86.0	49.5	61.5
Merged-chr15-42984150-3	chr15	42984150	42984350	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	186568.0	NM_001357957	239405.0	Mm.193274	NM_172815	ENSMUSG00000051920	Rspo2	2610028F08Rik|AA673245|D430027K22|ftls	R-spondin 2	protein-coding	20.0	26.5	35.0	338.0	8.5	3.5	3.0	2.0
Merged-chr19-5952567-2	chr19	5952467	5952667	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 7 of 17)	intron (NM_001164057, intron 7 of 17)	11639.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	5.5	21.5	16.0	108.5	28.0	6.5	5.0	7.5
Merged-chr19-44069778-4	chr19	44069660	44069860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164359)	promoter-TSS (NM_001164359)	15.0	NM_001164359	226144.0	Mm.279865	NM_145502	ENSMUSG00000025198	Erlin1	2810439N09Rik|C80197|Keo4|Spfh1	ER lipid raft associated 1	protein-coding	27.0	55.0	25.0	420.5	69.0	27.0	32.5	43.5
Merged-chr9-110038079-4	chr9	110037994	110038194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205332, intron 8 of 17)	intron (NM_001205332, intron 8 of 17)	-13927.0	NM_001311163	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	31.0	29.5	40.5	795.0	48.0	17.0	42.5	34.0
Merged-chr11-48833863-4	chr11	48833707	48833907	+	942.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053166, intron 1 of 6)	intron (NM_053166, intron 1 of 6)	-3664.0	NM_001347446	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	11.5	20.5	10.0	144.0	35.0	9.0	14.0	23.0
Merged-chr2-160176314-4	chr2	160176271	160176471	+	823.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	151123.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	16.5	14.5	4.5	120.0	21.0	13.5	3.5	12.5
Merged-chr2-128203303-4	chr2	128203194	128203394	+	798.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75719.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	9.0	27.5	8.5	134.0	18.5	4.5	2.5	11.0
Merged-chr7-102234160-3	chr7	102234054	102234254	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111937, intron 2 of 5)	intron (NR_111937, intron 2 of 5)	11126.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	17.0	17.5	8.5	64.0	71.0	25.0	7.5	10.0
Merged-chr19-47224954-4	chr19	47224876	47225076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021360, intron 1 of 5)	ORR1E|LTR|ERVL-MaLR	-3867.0	NM_001163480	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	67.5	120.5	59.0	1041.0	178.5	86.5	93.5	95.0
Merged-chr6-135377982-3	chr6	135377878	135378078	+	882.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288627, intron 2 of 4)	intron (NM_001288627, intron 2 of 4)	10485.0	NM_001288627	13730.0	Mm.182785	NM_010128	ENSMUSG00000030208	Emp1	I-8-09|TMP	epithelial membrane protein 1	protein-coding	6.0	12.5	11.0	107.5	15.5	8.0	7.5	6.0
Merged-chr7-4777394-3	chr7	4777307	4777507	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290423, intron 1 of 4)	intron (NM_001290423, intron 1 of 4)	734.0	NM_008350	16156.0	Mm.35814	NM_008350	ENSMUSG00000004371	Il11	IL-11	interleukin 11	protein-coding	7.0	8.0	7.0	75.5	8.5	5.0	2.5	5.5
Merged-chr14-78733585-3	chr14	78733445	78733645	+	865.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081336)	promoter-TSS (NM_001081336)	-816.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	6.5	4.0	6.5	95.5	15.5	6.0	7.0	4.5
Merged-chr2-160250105-3	chr2	160250010	160250210	+	901.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77384.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	6.5	11.5	29.5	403.5	31.5	10.5	17.0	15.0
Merged-chr17-73301479-3	chr17	73301372	73301572	+	604.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	97824.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	7.5	6.5	5.5	83.5	13.5	7.5	5.5	6.0
Merged-chr1-167392905-3	chr1	167392808	167393008	+	780.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025569, intron 1 of 5)	intron (NM_025569, intron 1 of 5)	889.0	NM_025569	66447.0	Mm.218286	NM_025569	ENSMUSG00000026688	Mgst3	2010012L10Rik|2010306B17Rik|2700004G04Rik|AA516734|GST-III	microsomal glutathione S-transferase 3	protein-coding	9.5	7.0	1.0	83.5	9.5	6.0	8.0	9.5
Merged-chr2-152766649-4	chr2	152766539	152766739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289739, intron 3 of 4)	intron (NM_001289739, intron 3 of 4)	12466.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	47.0	55.5	17.0	305.0	79.0	33.5	35.5	27.0
Merged-chr4-150132851-3	chr4	150132750	150132950	+	908.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019741, intron 6 of 13)	intron (NM_019741, intron 6 of 13)	13506.0	NM_019741	56485.0	Mm.260220	NM_019741	ENSMUSG00000028976	Slc2a5	AI526984|Glut5|Slc5a	solute carrier family 2 (facilitated glucose transporter), member 5	protein-coding	8.0	11.0	7.5	56.0	32.5	8.0	8.0	13.0
Merged-chr2-60217813-3	chr2	60217707	60217907	+	954.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020575, intron 1 of 9)	intron (NM_020575, intron 1 of 9)	7871.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	13.0	15.5	13.5	276.5	15.0	11.5	10.0	8.0
Merged-chr14-63467805-3	chr14	63467701	63467901	+	662.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31407.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	12.0	7.0	10.0	99.5	26.5	5.0	16.5	3.5
Merged-chr2-150919479-3	chr2	150919369	150919569	+	634.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 4 of 6)	L1Md_F2|LINE|L1	9875.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	12.5	6.5	10.5	0.0	16.5	6.5	8.5	17.0
Merged-chr7-107597775-4	chr7	107597686	107597886	+	954.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008905, intron 1 of 24)	intron (NM_008905, intron 1 of 24)	2735.0	NM_008905	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	15.5	26.0	16.0	329.0	46.0	10.5	17.0	9.0
Merged-chr18-74876713-4	chr18	74876613	74876813	+	816.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84550.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	7.5	12.0	13.0	213.5	32.5	7.5	8.0	10.5
Merged-chr2-34898036-3	chr2	34897948	34898148	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028716, intron 13 of 14)	intron (NM_028716, intron 13 of 14)	15928.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	9.5	8.0	7.0	94.0	16.0	8.5	4.5	0.0
Merged-chr1-182282753-4	chr1	182282647	182282847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360783)	promoter-TSS (NM_001360783)	54.0	NM_007853	13244.0	Mm.29648	NM_007853	ENSMUSG00000038633	Degs1	AA536663|Degs|Des1|Mdes	delta(4)-desaturase, sphingolipid 1	protein-coding	67.0	127.0	60.0	904.0	207.5	79.0	73.0	79.5
Merged-chr17-81669392-6	chr17	81669247	81669447	+	986.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	69040.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	15.5	21.0	31.0	404.5	36.0	9.5	18.5	23.0
Merged-chr4-148045002-4	chr4	148044880	148045080	+	953.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027809, intron 4 of 12)	intron (NR_027809, intron 4 of 12)	3791.0	NM_001161798	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	10.0	12.0	11.5	192.5	36.5	11.5	18.5	17.0
Merged-chr4-128796589-4	chr4	128796507	128796707	+	831.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081098, intron 1 of 8)	intron (NM_001081098, intron 1 of 8)	9505.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	7.5	10.5	5.5	110.5	21.0	5.0	8.0	8.5
Merged-chr16-24640476-4	chr16	24640371	24640571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-81384.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	25.0	53.5	18.5	437.0	71.5	34.0	26.0	26.5
Merged-chr2-157153429-4	chr2	157153343	157153543	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011249, intron 19 of 21)	intron (NM_011249, intron 19 of 21)	-18221.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	29.0	49.0	31.5	255.0	51.5	18.5	21.0	19.5
Merged-chr3-127923378-3	chr3	127923297	127923497	+	795.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040552, intron 1 of 4)	intron (NR_040552, intron 1 of 4)	7226.0	NR_040552	329753.0	Mm.119720	NR_040552	ENSMUSG00000104763	9830132P13Rik	9830132P13	RIKEN cDNA 9830132P13 gene	ncRNA	10.5	7.0	11.0	118.5	5.5	3.0	2.5	15.0
Merged-chr1-128632788-4	chr1	128632745	128632945	+	956.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40546.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	22.0	7.0	37.0	216.5	31.5	15.0	9.5	15.0
Merged-chr9-123475769-4	chr9	123475658	123475858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-2943.0	NM_013860	29806.0	Mm.10987	NM_013860	ENSMUSG00000025239	Limd1	AW822033|D9Ertd192e	LIM domains containing 1	protein-coding	46.5	32.0	48.5	528.5	77.5	36.5	44.0	51.5
Merged-chr5-74961318-2	chr5	74961215	74961415	+	640.0	f0_balb.idr|f0_c57.idr	intron (NR_045866, intron 2 of 4)	intron (NR_045866, intron 2 of 4)	12121.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	5.0	10.5	7.0	105.0	18.5	5.5	10.0	6.5
Merged-chr5-117116130-4	chr5	117115993	117116193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178622)	promoter-TSS (NM_178622)	-100.0	NM_178622	71954.0	Mm.34456	NM_178622	ENSMUSG00000066900	Suds3	2400003N08Rik|2410008L21Rik|AU067672|mSds3	suppressor of defective silencing 3 homolog (S. cerevisiae)	protein-coding	41.0	88.0	57.0	571.0	133.0	67.0	41.0	67.0
Merged-chr11-83550536-4	chr11	83550447	83550647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEa|LINE|L1	-20029.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	52.5	84.5	42.5	547.5	121.0	53.5	62.5	47.5
Merged-chr8-71273234-4	chr8	71273151	71273351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163042)	promoter-TSS (NM_001163042)	537.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	30.0	44.5	53.5	602.5	88.5	29.0	23.0	39.0
Merged-chr10-81356509-4	chr10	81356411	81356611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028657)	promoter-TSS (NM_028657)	-980.0	NM_028657	73822.0	Mm.182281	NM_028657	ENSMUSG00000034854	Mfsd12	C19orf28|F630110N24Rik|Wdt1|gr	major facilitator superfamily domain containing 12	protein-coding	79.5	127.5	54.0	858.5	193.5	75.0	76.0	70.0
Merged-chr13-100408465-4	chr13	100408366	100408566	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008670, exon 16 of 16)	3' UTR (NM_008670, exon 16 of 16)	44398.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	59.0	118.5	74.0	1247.0	55.5	15.0	40.5	29.5
Merged-chr9-99496019-1	chr9	99495919	99496119	+	581.0	f0_balb.idr	intron (NM_028768, intron 18 of 21)	intron (NM_028768, intron 18 of 21)	25598.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	10.0	11.0	12.5	73.0	22.5	4.0	3.5	4.0
Merged-chr17-70835290-4	chr17	70835210	70835410	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11467.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	24.5	44.0	18.5	219.0	73.0	31.5	24.5	23.5
Merged-chr8-22423490-3	chr8	22423402	22423602	+	642.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020560, intron 4 of 6)	ORR1D2|LTR|ERVL-MaLR	12162.0	NM_020560	57312.0	Mm.289402	NM_020560	ENSMUSG00000031533	Mrps31	1500002D03Rik|AA960481|Imogen38|Imogen44	mitochondrial ribosomal protein S31	protein-coding	5.0	7.5	3.5	160.0	21.5	8.0	8.0	5.5
Merged-chr5-31451481-4	chr5	31451380	31451580	+	988.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172993)	promoter-TSS (NM_172993)	-956.0	NM_172993	269639.0	Mm.259127	NM_172993	ENSMUSG00000062761	Zfp512	2500002M11Rik|AI450173|D230008H22|Znf512	zinc finger protein 512	protein-coding	28.5	18.5	20.5	340.0	58.0	25.0	24.5	19.0
Merged-chr14-45583839-4	chr14	45583730	45583930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34A|LTR|ERV1	40120.0	NR_045809	67651.0	Mm.55930	NR_045809	ENSMUSG00000115324	4930527F14Rik	-	RIKEN cDNA 4930527F14 gene	ncRNA	45.0	71.5	37.0	684.0	96.5	34.5	40.0	42.5
Merged-chr18-74190233-3	chr18	74190138	74190338	+	560.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17580.0	NM_001164355	66468.0	Mm.283406	NM_025581	ENSMUSG00000036223	Ska1	2810433K01Rik|AV117428	spindle and kinetochore associated complex subunit 1	protein-coding	5.5	13.0	6.0	68.0	15.0	1.0	1.5	5.0
Merged-chr10-6417871-3	chr10	6417764	6417964	+	946.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB7_1-LTR_MM|LTR|ERVK	-340729.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	47.5	39.5	56.5	344.0	0.0	0.0	2.5	1.0
Merged-chr2-119208601-1	chr2	119208501	119208701	+	1000.0	f0_c57.idr	promoter-TSS (NM_001164827)	promoter-TSS (NM_001164827)	-119.0	NM_001164827	72008.0	Mm.386807	NM_028054	ENSMUSG00000068580	Zfyve19	1500041L05Rik|ANCHR	zinc finger, FYVE domain containing 19	protein-coding	51.5	81.5	58.5	787.0	98.5	41.0	53.0	44.0
Merged-chr1-171276540-3	chr1	171276437	171276637	+	961.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008911)	TTS (NM_008911)	4649.0	NM_008911	19044.0	Mm.266888	NM_008911	ENSMUSG00000062729	Ppox	Ppo	protoporphyrinogen oxidase	protein-coding	17.5	26.5	12.5	282.0	2.0	3.0	3.0	5.5
Merged-chr5-34637183-4	chr5	34637090	34637290	+	959.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356979)	promoter-TSS (NM_001356979)	22.0	NM_001356978	68294.0	Mm.34564	NM_026660	ENSMUSG00000001082	Mfsd10	0610009O03Rik|Tetran	major facilitator superfamily domain containing 10	protein-coding	21.0	25.0	10.5	263.0	55.0	18.0	25.5	17.5
Merged-chr4-45448481-2	chr4	45448368	45448568	+	1000.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001033306, intron 3 of 5)	URR1B|DNA|hAT-Charlie	-39702.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	0.0	0.5	1.0	4.5	63.0	20.5	27.0	23.5
Merged-chr9-110667442-4	chr9	110667376	110667576	+	851.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	10973.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	10.0	10.0	4.0	77.0	12.0	10.5	11.0	14.0
Merged-chr7-44351458-4	chr7	44351346	44351546	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034115, intron 23 of 24)	intron (NM_001034115, intron 23 of 24)	23584.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	16.0	46.5	18.0	299.5	84.0	24.0	30.5	18.5
Merged-chr17-24007648-4	chr17	24007577	24007777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9577.0	NM_133731	70835.0	Mm.157351	NM_133731	ENSMUSG00000045027	Prss22	4733401N09Rik|BSSP-4|SP001LA	protease, serine 22	protein-coding	157.0	240.5	178.0	2279.0	368.5	157.5	195.0	144.5
Merged-chr11-95714091-4	chr11	95713990	95714190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1336.0	NR_045780	432396.0	Mm.426849	NR_045780	ENSMUSG00000086191	Zfp652os	1110035M17Rik	zinc finger protein 652, opposite strand	ncRNA	51.5	58.5	19.0	508.5	104.0	36.5	37.0	50.5
Merged-chr1-80340132-6	chr1	80340026	80340226	+	987.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016716, intron 1 of 15)	intron (NM_016716, intron 1 of 15)	564.0	NM_001313728	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	9.5	35.5	27.0	228.0	46.5	18.5	27.0	32.5
Merged-chr4-150156389-4	chr4	150156291	150156491	+	966.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085529, intron 4 of 11)	intron (NM_001085529, intron 4 of 11)	7419.0	NM_001085529	435818.0	Mm.359648	NM_001085529	ENSMUSG00000062064	Slc2a7	-	solute carrier family 2 (facilitated glucose transporter), member 7	protein-coding	12.0	10.5	20.0	287.0	42.0	5.5	25.0	30.0
Merged-chr19-21373517-4	chr19	21373394	21373594	+	837.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99167.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	20.5	27.0	28.0	314.0	24.0	11.0	30.0	20.0
Merged-chr13-97548729-4	chr13	97548649	97548849	+	978.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11251.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	43.0	29.0	45.0	703.5	49.0	11.0	19.5	28.0
Merged-chr19-46979661-6	chr19	46979507	46979707	+	963.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	intron (NM_001164363, intron 1 of 17)	-10040.0	NM_001164365	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	16.0	11.0	12.5	283.0	26.5	9.5	11.5	16.5
Merged-chr12-111447211-3	chr12	111447111	111447311	+	857.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009396, intron 3 of 11)	intron (NM_009396, intron 3 of 11)	4550.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	7.0	11.0	6.5	120.5	16.5	11.0	10.5	6.0
Merged-chr2-126397658-2	chr2	126397558	126397758	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001080944, exon 13 of 28)	exon (NM_001080944, exon 13 of 28)	93895.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	6.5	5.0	3.0	146.0	15.5	4.5	6.0	5.5
Merged-chr18-20784888-4	chr18	20784788	20784988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38484.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	96.0	164.5	84.5	983.5	258.5	73.0	109.5	51.0
Merged-chr7-120677506-4	chr7	120677382	120677582	+	982.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164580)	promoter-TSS (NM_001164580)	-138.0	NM_001164580	233812.0	Mm.276479	NM_001164580	ENSMUSG00000046096	Mosmo	Atthog	modulator of smoothened	protein-coding	31.0	29.0	41.0	419.0	53.5	16.0	41.0	18.5
Merged-chr3-154572544-4	chr3	154572384	154572584	+	774.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24227.0	NM_009968	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	5.0	4.5	7.0	145.0	33.0	2.5	12.0	3.5
Merged-chr11-53735783-4	chr11	53735690	53735890	+	937.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14996.0	NM_010558	16191.0	Mm.4461	NM_010558	ENSMUSG00000036117	Il5	Il-5	interleukin 5	protein-coding	12.5	26.5	12.0	164.5	47.0	15.0	18.0	22.5
Merged-chr17-36024297-3	chr17	36024219	36024419	+	836.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015618, intron 1 of 1)	intron (NR_015618, intron 1 of 1)	-3759.0	NM_008207	15042.0	Mm.439654	NM_008207	ENSMUSG00000053835	H2-T24	H-2T24	histocompatibility 2, T region locus 24	protein-coding	7.0	10.0	5.0	78.0	20.5	5.5	6.0	1.5
Merged-chr15-93485504-3	chr15	93485412	93485612	+	828.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358750, intron 6 of 6)	intron (NM_001358750, intron 6 of 6)	87048.0	NM_001285863	223828.0	Mm.74208	NM_146062	ENSMUSG00000036167	Pphln1	CR|HSPC206|HSPC232	periphilin 1	protein-coding	7.5	8.0	7.5	130.5	3.0	4.0	6.0	15.0
Merged-chr3-116508160-4	chr3	116508049	116508249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025517)	promoter-TSS (NM_025517)	26.0	NM_025517	66368.0	Mm.251228	NM_025517	ENSMUSG00000000339	Rtca	2310009A18Rik|AI450277|RPC|Rtcd1	RNA 3'-terminal phosphate cyclase	protein-coding	142.5	171.5	144.0	1791.0	278.0	114.0	145.5	152.5
Merged-chr11-87987146-3	chr11	87987078	87987278	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168472)	promoter-TSS (NM_001168472)	355.0	NM_026556	68097.0	Mm.246436	NM_026556	ENSMUSG00000020483	Dynll2	1700064A15Rik|6720463E02Rik|C87222|DLC8|DLC8b|Dlc2	dynein light chain LC8-type 2	protein-coding	24.0	17.5	39.5	161.5	38.0	13.5	23.5	22.5
Merged-chr9-83728675-3	chr9	83728577	83728777	+	715.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37202.0	NR_046066	100039222.0	Mm.405596	NR_046066	ENSMUSG00000100155	Gm2109	-	predicted gene 2109	ncRNA	6.0	13.0	5.5	226.5	18.5	5.0	8.5	18.0
Merged-chr18-37720501-3	chr18	37720389	37720589	+	615.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033576)	promoter-TSS (NM_033576)	-65.0	NM_033576	93701.0	Mm.247203	NM_033576	ENSMUSG00000103585	Pcdhgb4	-	protocadherin gamma subfamily B, 4	protein-coding	9.5	6.0	9.5	28.5	11.5	1.5	6.0	12.0
Merged-chr4-154163498-3	chr4	154163385	154163585	+	766.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2801.0	NM_026388	67808.0	Mm.288737	NM_026388	ENSMUSG00000029030	Tprgl	1200015A19Rik|Svap30|Tprg1l|mover	transformation related protein 63 regulated like	protein-coding	3.0	11.0	9.5	95.0	17.0	6.5	9.5	4.5
Merged-chr17-46856831-4	chr17	46856740	46856940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-25427.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	15.0	39.5	14.0	278.5	85.0	31.5	26.0	32.0
Merged-chr8-78509330-4	chr8	78509214	78509414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009033)	promoter-TSS (NM_009033)	-14.0	NM_001282109	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	13.5	28.0	19.5	340.5	52.5	29.5	29.0	24.5
Merged-chr9-105053962-4	chr9	105053851	105054051	+	827.445801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053159, intron 1 of 9)	intron (NM_053159, intron 1 of 9)	683.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	10.0	16.0	30.0	438.5	21.5	1.5	9.0	7.0
Merged-chr15-8665423-4	chr15	8665303	8665503	+	872.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 3 of 9)	intron (NM_148938, intron 3 of 9)	45404.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	15.5	9.0	9.5	116.5	38.0	11.0	7.5	18.0
Merged-chr12-106016829-3	chr12	106016725	106016925	+	969.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	intron (NM_001029843, intron 1 of 13)	6562.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	16.5	13.0	15.5	198.0	31.0	7.0	8.5	8.5
Merged-chr10-31609555-3	chr10	31609502	31609702	+	954.6587519999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001146349, exon 1 of 6)	5' UTR (NM_001146349, exon 1 of 6)	123.0	NM_001146349	268291.0	Mm.295212	NM_001146349	ENSMUSG00000063760	Rnf217	AU016819|Ibrdc1	ring finger protein 217	protein-coding	13.5	13.5	17.0	273.0	8.5	4.0	2.5	5.0
Merged-chr11-85186974-3	chr11	85186873	85187073	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	15877.0	NM_028589	73634.0	Mm.48850	NM_028589	ENSMUSG00000018479	1700125H20Rik	-	RIKEN cDNA 1700125H20 gene	protein-coding	8.5	8.0	5.5	90.0	22.5	3.0	3.5	11.0
Merged-chr8-111234637-4	chr8	111234523	111234723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009149, intron 1 of 25)	intron (NM_009149, intron 1 of 25)	24579.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	31.5	30.0	18.0	496.0	119.0	28.0	30.0	27.5
Merged-chr14-122644401-4	chr14	122644304	122644504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 8 of 24)	ORR1B2|LTR|ERVL-MaLR	110076.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	37.0	40.0	60.0	1123.0	74.5	17.0	48.0	27.5
Merged-chr3-65418355-4	chr3	65418263	65418463	+	947.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25810.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	15.0	27.5	26.5	541.5	42.5	9.0	18.0	11.5
Merged-chr15-27670295-4	chr15	27670202	27670402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	11240.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	116.0	195.5	103.5	1218.0	285.5	96.5	97.0	76.0
Merged-chr1-184048862-4	chr1	184048761	184048961	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022019, intron 2 of 3)	intron (NM_022019, intron 2 of 3)	14480.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	11.0	20.5	14.0	268.5	62.5	15.0	16.5	28.0
Merged-chr7-19271812-4	chr7	19271672	19271872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282021)	promoter-TSS (NM_001282021)	82.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	95.5	307.0	114.5	947.5	296.0	139.5	133.0	112.0
Merged-chr1-77516394-4	chr1	77516297	77516497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1309.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	30.0	41.0	33.0	642.5	41.5	15.5	31.0	31.5
Merged-chr11-49088233-5	chr11	49088177	49088377	+	811.880005	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008330, intron 1 of 1)	intron (NM_008330, intron 1 of 1)	1260.0	NM_008330	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	4.5	9.5	4.5	68.0	15.5	11.5	2.5	14.0
Merged-chr10-99459460-2	chr10	99459360	99459560	+	808.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149711.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	6.0	17.0	8.5	99.5	14.0	3.0	0.5	7.0
Merged-chr6-7967622-3	chr6	7967498	7967698	+	940.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122374.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	2.5	10.0	9.5	157.0	20.5	6.0	5.5	6.5
Merged-chr12-102453718-4	chr12	102453613	102453813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13900.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	158.5	205.0	131.5	2269.5	410.5	138.0	161.5	192.0
Merged-chr11-69684493-4	chr11	69684390	69684590	+	895.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001034097, exon 10 of 13)	exon (NM_001034097, exon 10 of 13)	1064.0	NM_001159505	69583.0	Mm.8983	NM_023517	ENSMUSG00000089669	Tnfsf13	2310026N09Rik|April|Tall2|Tnlg7b|Trdl1	tumor necrosis factor (ligand) superfamily, member 13	protein-coding	15.0	11.0	12.5	280.5	24.5	10.5	8.0	16.5
Merged-chr9-100731970-4	chr9	100731834	100732034	+	740.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 3 of 33)	MTC|LTR|ERVL-MaLR	88486.0	NM_001357265	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	12.5	9.0	5.5	145.0	17.0	7.0	5.5	16.5
Merged-chr2-157201108-4	chr2	157200994	157201194	+	881.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011249, intron 1 of 21)	Lx9|LINE|L1	3440.0	NM_011249	19650.0	Mm.244671	NM_011249	ENSMUSG00000027641	Rbl1	AW547426|PRB1|p107	RB transcriptional corepressor like 1	protein-coding	6.0	13.0	8.5	59.5	25.0	3.0	6.5	14.0
Merged-chr2-170128866-2	chr2	170128766	170128966	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159683, intron 2 of 6)	intron (NM_001159683, intron 2 of 6)	2354.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	2.5	2.0	0.0	38.0	8.5	4.5	5.0	10.5
Merged-chr13-54071892-6	chr13	54071823	54072023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027324)	promoter-TSS (NM_027324)	78.0	NM_027324	14057.0	Mm.134191	NM_027324	ENSMUSG00000021474	Sfxn1	2810002O05Rik|A930015P12Rik|f	sideroflexin 1	protein-coding	24.0	24.5	24.0	406.5	135.0	33.5	44.0	38.5
Merged-chr10-79925476-4	chr10	79925384	79925584	+	989.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	-1559.0	NM_001288626	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	48.5	70.5	20.5	536.5	102.5	30.5	41.5	46.5
Merged-chr5-137510694-3	chr5	137510591	137510791	+	868.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8189.0	NM_031408	57330.0	Mm.268344	NM_031408	ENSMUSG00000029714	Gigyf1	Perq1|mKIAA4110	GRB10 interacting GYF protein 1	protein-coding	5.0	19.0	13.0	49.5	12.0	4.5	12.0	7.5
Merged-chr13-111968762-4	chr13	111968666	111968866	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100830.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	38.5	23.0	22.0	604.5	59.0	16.5	25.0	22.5
Merged-chr3-115661251-4	chr3	115661150	115661350	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53805.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	16.5	18.0	17.0	157.0	56.0	20.5	26.5	20.5
Merged-chr18-38962518-1	chr18	38962418	38962618	+	877.5	f0_balb.idr	intron (NM_001033789, intron 4 of 4)	intron (NM_001033789, intron 4 of 4)	-30627.0	NM_001361073	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	7.5	15.0	22.5	190.5	6.5	7.5	4.5	10.0
Merged-chr15-25909975-2	chr15	25909875	25910075	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 3 of 8)	intron (NM_001034851, intron 3 of 8)	-23577.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	8.5	35.0	18.0	40.5	27.0	17.5	13.0	4.0
Merged-chr15-8714121-3	chr15	8714023	8714223	+	794.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3316.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	2.5	3.0	1.0	35.0	39.5	12.0	17.0	4.5
Merged-chr9-108567465-4	chr9	108567356	108567556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023247)	promoter-TSS (NM_023247)	-114.0	NM_023247	66706.0	Mm.29471	NM_023247	ENSMUSG00000070283	Ndufaf3	4733401H18Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3	protein-coding	149.5	313.0	124.0	1180.5	426.0	191.0	134.0	110.0
Merged-chr9-57077027-4	chr9	57076928	57077128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152107)	promoter-TSS (NR_152107)	652.0	NM_011378	20466.0	Mm.15755	NM_011378	ENSMUSG00000042557	Sin3a	AW553200|Sin3|mKIAA4126|mSin3A	transcriptional regulator, SIN3A (yeast)	protein-coding	104.5	186.0	115.0	1137.5	215.5	111.5	91.0	78.5
Merged-chr11-94226206-4	chr11	94226118	94226318	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14764.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	37.0	86.5	28.0	599.5	57.5	24.5	27.0	19.0
Merged-chr1-151932369-4	chr1	151932261	151932461	+	863.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	intron (NM_197990, intron 3 of 5)	157959.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	14.0	16.0	10.0	195.0	24.0	9.5	13.5	22.0
Merged-chr19-12461888-4	chr19	12461868	12462068	+	922.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010821, exon 2 of 2)	exon (NM_010821, exon 2 of 2)	1189.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	10.5	24.0	13.0	203.0	22.5	18.5	10.0	6.5
Merged-chr19-3423174-4	chr19	3423077	3423277	+	916.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8633.0	NM_010253	14419.0	Mm.4655	NM_010253	ENSMUSG00000024907	Gal	Galn	galanin	protein-coding	6.0	13.0	9.5	170.5	36.0	7.0	14.0	16.5
Merged-chr7-34176462-3	chr7	34176363	34176563	+	867.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-7934.0	NM_016682	50995.0	Mm.27560	NM_016682	ENSMUSG00000052997	Uba2	AA986091|Arx|Sae2|UBA1|Ubl1a2|Uble1b	ubiquitin-like modifier activating enzyme 2	protein-coding	19.5	37.5	24.0	85.0	21.0	7.0	4.0	7.5
Merged-chr5-118614807-3	chr5	118614735	118614935	+	666.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	54116.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	13.5	12.0	5.0	82.5	7.0	2.5	5.0	5.5
Merged-chr6-52211746-4	chr6	52211645	52211845	+	812.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015611, intron 1 of 2)	CpG	1322.0	NM_010452	15400.0	Mm.71533	NM_010452	ENSMUSG00000079560	Hoxa3	Hox-1.5|Mo-10	homeobox A3	protein-coding	3.0	10.5	7.5	88.5	18.0	16.0	18.5	11.0
Merged-chr8-11003331-1	chr8	11003231	11003431	+	593.0	f0_balb.idr	intron (NM_001081212, intron 1 of 1)	intron (NM_001081212, intron 1 of 1)	-4519.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	6.5	13.5	7.0	74.5	6.5	0.0	3.0	0.5
Merged-chr8-22496929-3	chr8	22496842	22497042	+	800.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011394, intron 1 of 10)	ORR1C2|LTR|ERVL-MaLR	-20063.0	NM_001146117	102032.0	Mm.378231	NM_001012667	ENSMUSG00000031534	Smim19	AI316807|BG694986|EST-c39	small integral membrane protein 19	protein-coding	0.0	0.0	0.0	7.0	30.5	6.0	6.0	11.0
Merged-chr9-63738220-4	chr9	63738111	63738311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	MTEa|LTR|ERVL-MaLR	19783.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	89.0	114.0	54.0	1026.5	174.0	71.5	83.5	65.0
Merged-chr11-54921103-4	chr11	54921049	54921249	+	710.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271456, intron 12 of 18)	intron (NM_001271456, intron 12 of 18)	18295.0	NM_008161	14778.0	Mm.200916	NM_008161	ENSMUSG00000018339	Gpx3	AA960521|EGPx|GPx|GSHPx-3|GSHPx-P	glutathione peroxidase 3	protein-coding	8.0	10.0	15.5	105.0	13.5	5.5	4.0	12.0
Merged-chr17-35866560-4	chr17	35866453	35866653	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175242)	promoter-TSS (NM_175242)	-62.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	53.0	137.5	26.5	142.5	193.5	57.5	43.0	25.5
Merged-chr7-45238995-4	chr7	45238912	45239112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007645)	promoter-TSS (NM_007645)	103.0	NM_001290802	12493.0	Mm.3689	NM_007645	ENSMUSG00000030798	Cd37	Tspan26	CD37 antigen	protein-coding	27.5	56.0	27.0	314.0	65.5	21.5	26.5	53.0
Merged-chr3-54246633-4	chr3	54246538	54246738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 3 of 11)	intron (NM_001253682, intron 3 of 11)	90581.0	NM_001253682	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	46.5	55.0	75.5	874.0	82.5	29.5	41.0	34.5
Merged-chr7-16071068-4	chr7	16070968	16071168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347559)	promoter-TSS (NM_001347559)	-777.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	92.5	100.0	97.5	1507.5	149.0	46.5	89.0	89.0
Merged-chr11-121680971-4	chr11	121680837	121681037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7786.0	NM_178664	210004.0	Mm.386847	NM_178664	ENSMUSG00000046605	B3gntl1	6030413G23Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1	protein-coding	139.0	158.0	79.0	972.5	172.0	76.0	92.0	88.5
Merged-chr1-87651623-4	chr1	87651518	87651718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	MTC|LTR|ERVL-MaLR	31306.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	62.0	49.0	48.5	553.0	122.0	44.0	52.0	55.0
Merged-chr2-135474362-4	chr2	135474269	135474469	+	965.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019677, exon 33 of 33)	3' UTR (NM_019677, exon 33 of 33)	108851.0	NR_015544	320684.0	Mm.421433	NR_015544	ENSMUSG00000085631	9630028H03Rik	-	RIKEN cDNA 9630028H03 gene	ncRNA	13.0	27.5	28.5	461.0	54.0	20.5	39.5	33.0
Merged-chr1-155159213-3	chr1	155159130	155159330	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021433, intron 1 of 7)	CpG	527.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	13.5	25.0	8.0	130.0	52.0	15.0	22.5	19.5
Merged-chr14-32801868-3	chr14	32801780	32801980	+	828.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163616, intron 1 of 4)	intron (NM_001163616, intron 1 of 4)	15917.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	12.0	6.0	10.0	137.5	10.5	7.0	10.5	4.5
Merged-chr10-128781233-4	chr10	128781134	128781334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9676.0	NM_001164197	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	33.0	44.5	51.0	685.0	82.0	37.0	61.5	64.0
Merged-chr12-17692153-4	chr12	17691979	17692179	+	942.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	1270.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	10.5	17.5	21.5	179.0	23.0	9.0	8.5	23.5
Merged-chr10-98948229-4	chr10	98948117	98948317	+	892.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	33065.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	26.5	21.5	36.5	368.0	20.5	9.5	10.5	12.0
Merged-chr10-30749697-4	chr10	30749577	30749777	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	intron (NM_001358842, intron 2 of 14)	53649.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	19.5	72.5	18.5	175.5	52.0	22.0	25.0	13.5
Merged-chr6-17284059-4	chr6	17283978	17284178	+	786.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016900, intron 2 of 2)	intron (NM_016900, intron 2 of 2)	2893.0	NM_016900	12390.0	Mm.396075	NM_016900	ENSMUSG00000000058	Cav2	AI447843	caveolin 2	protein-coding	12.0	14.5	13.0	105.0	24.0	6.0	10.5	2.5
Merged-chr9-20493580-4	chr9	20493506	20493706	+	818.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110309)	promoter-TSS (NM_001110309)	-860.0	NM_001110309	235028.0	Mm.297660	NM_146221	ENSMUSG00000059475	Zfp426	2900057C04Rik|KRAB1|Zfo61|Zfp68-rs1|Znf426|mKIAA4237	zinc finger protein 426	protein-coding	7.5	12.5	15.0	192.0	25.5	15.0	12.0	9.0
Merged-chr13-78163206-4	chr13	78163088	78163288	+	946.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163420, intron 8 of 8)	intron (NM_001163420, intron 8 of 8)	33261.0	NM_001347538	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	5.5	22.5	22.0	249.0	28.5	10.5	23.0	13.0
Merged-chr13-9022808-4	chr13	9022707	9022907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26795.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	64.5	94.0	39.0	1032.5	193.0	55.5	69.5	75.5
Merged-chr11-74896600-4	chr11	74896516	74896716	+	980.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197943, intron 1 of 22)	CpG	464.0	NM_197943	97761.0	Mm.245894	NM_197943	ENSMUSG00000038351	Sgsm2	D630003G22Rik|R74628|Rutbc1|mKIAA0397	small G protein signaling modulator 2	protein-coding	25.5	18.5	16.5	235.0	36.5	24.5	17.5	11.5
Merged-chr14-16219249-1	chr14	16219149	16219349	+	582.0	f0_balb.idr	Intergenic	L1MA5|LINE|L1	24082.0	NM_001359883	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	4.5	9.5	6.0	86.0	20.0	6.0	6.5	2.5
Merged-chr6-83685800-5	chr6	83685635	83685835	+	827.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7878.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	16.5	12.0	27.0	356.5	13.0	2.0	4.5	13.0
Merged-chr16-91611426-4	chr16	91611323	91611523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7576.0	NM_001099738	246738.0	Mm.101927	NM_138664	ENSMUSG00000039763	Dnajc28	BC020175|ORF28	DnaJ heat shock protein family (Hsp40) member C28	protein-coding	102.0	222.0	87.0	1693.5	319.5	134.0	122.0	115.0
Merged-chr13-102700986-4	chr13	102700887	102701087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360519, intron 1 of 2)	intron (NM_001360519, intron 1 of 2)	7429.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	28.0	63.5	48.5	534.0	91.5	27.5	29.0	42.5
Merged-chr15-89123163-4	chr15	89123064	89123264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163319)	promoter-TSS (NM_001163319)	-14.0	NM_001163319	328580.0	Mm.380934	NM_001163319	ENSMUSG00000051786	Tubgcp6	AI843275|D430023H11|GCP-6|mKIAA1669	tubulin, gamma complex associated protein 6	protein-coding	41.5	85.5	22.5	650.5	197.0	84.0	65.5	58.0
Merged-chr3-109123233-5	chr3	109123125	109123325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172685)	promoter-TSS (NM_172685)	76.0	NM_172685	229731.0	Mm.33574	NM_172685	ENSMUSG00000040322	Slc25a24	2610016M12Rik	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 24	protein-coding	14.5	21.0	20.5	297.0	46.0	18.5	15.5	26.0
Merged-chr10-67202282-3	chr10	67202176	67202376	+	693.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 3 of 25)	MLT2D|LTR|ERVL	16526.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	7.0	12.5	8.5	74.0	18.0	10.0	4.0	7.5
Merged-chr10-94844945-3	chr10	94844847	94845047	+	568.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 12 of 30)	intron (NM_018797, intron 12 of 30)	99631.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	7.5	10.5	5.0	81.0	16.0	2.0	11.0	15.5
Merged-chr2-117342279-4	chr2	117342156	117342356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 1 of 16)	intron (NM_011246, intron 1 of 16)	621.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	41.0	99.0	37.5	589.5	185.0	65.0	72.5	41.5
Merged-chr7-98328524-4	chr7	98328421	98328621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger9a|DNA|TcMar-Tigger	-7313.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	58.5	93.0	71.5	1067.5	113.5	37.5	55.5	56.5
Merged-chr1-85989213-4	chr1	85989061	85989261	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28106.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	11.5	5.0	6.5	5.0	28.0	12.5	16.5	6.5
Merged-chr7-84212255-3	chr7	84212126	84212326	+	656.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60333.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	0.0	0.0	0.0	16.5	25.0	11.0	4.5	5.0
Merged-chr17-71310953-4	chr17	71310853	71311053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145158)	promoter-TSS (NM_145158)	58.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	71.5	82.5	86.0	1111.0	70.0	25.5	49.0	53.5
Merged-chr11-94128083-4	chr11	94127941	94128141	+	958.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83413.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	9.0	11.5	7.0	107.5	22.0	9.0	11.0	13.5
Merged-chr12-65111671-3	chr12	65111597	65111797	+	800.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178912, intron 14 of 22)	RLTR18|LTR|ERVK	36091.0	NM_178912	104806.0	Mm.374847	NM_178912	ENSMUSG00000055884	Fancm	AI427100|C730036B14Rik|D12Ertd364e	Fanconi anemia, complementation group M	protein-coding	5.5	8.5	6.0	94.0	11.5	0.0	1.0	5.5
Merged-chr2-127247825-4	chr2	127247716	127247916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025296)	promoter-TSS (NM_025296)	0.0	NM_025296	26371.0	Mm.45179	NM_025296	ENSMUSG00000003662	Ciao1	AW210570|Wdr39	cytosolic iron-sulfur protein assembly 1	protein-coding	275.5	335.0	179.0	2919.5	521.0	212.5	233.0	165.5
Merged-chr2-142758252-4	chr2	142758132	142758332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 13 of 26)	intron (NM_001355123, intron 13 of 26)	143232.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	28.0	19.0	55.0	793.0	55.0	18.0	40.0	41.0
Merged-chr7-97788615-8	chr7	97788513	97788713	+	921.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357364)	promoter-TSS (NM_001357364)	72.0	NM_001357364	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	15.0	19.5	16.0	135.0	20.5	19.0	8.5	8.5
Merged-chr4-148676393-4	chr4	148676299	148676499	+	939.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33082.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	13.5	19.0	9.0	113.5	99.5	41.5	66.5	20.0
Merged-chr17-40708962-4	chr17	40708877	40709077	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur1|LINE|L1	-18143.0	NM_001038500	619517.0	Mm.391018	NM_001038500	ENSMUSG00000073396	Esp1	EG619517|Gm6084	exocrine gland secreted peptide 1	protein-coding	34.5	56.5	30.5	178.5	117.0	26.5	28.5	36.5
Merged-chr4-133614595-4	chr4	133614469	133614669	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 3 of 7)	intron (NM_001017968, intron 3 of 7)	-12401.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	90.5	125.0	92.0	1235.0	26.5	12.5	9.5	8.0
Merged-chr5-16506864-4	chr5	16506779	16506979	+	899.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46616.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	29.5	20.5	25.5	618.0	22.0	16.0	22.5	12.0
Merged-chr2-126499906-4	chr2	126499821	126500021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359975)	promoter-TSS (NM_001359975)	-74.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	50.5	65.5	43.5	644.0	105.5	40.5	47.0	60.0
Merged-chr7-58859141-4	chr7	58859028	58859228	+	900.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	200926.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	6.0	17.0	18.5	376.0	19.5	6.5	16.0	16.5
Merged-chr9-20868741-4	chr9	20868650	20868850	+	958.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175687, exon 1 of 8)	5' UTR (NM_175687, exon 1 of 8)	108.0	NM_175687	319278.0	Mm.249932	NM_175687	ENSMUSG00000038884	A230050P20Rik	RyDEN	RIKEN cDNA A230050P20 gene	protein-coding	28.5	17.5	15.0	383.0	53.5	19.0	24.0	32.5
Merged-chr3-65941241-4	chr3	65941134	65941334	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	17015.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	30.0	62.0	33.5	516.5	99.0	42.5	46.0	13.0
Merged-chr7-88430329-4	chr7	88430246	88430446	+	908.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028238)	promoter-TSS (NM_028238)	73.0	NM_028238	72433.0	Mm.276669	NM_028238	ENSMUSG00000030559	Rab38	2310011F14Rik|AU043391|cht	RAB38, member RAS oncogene family	protein-coding	22.5	17.0	21.5	188.5	26.0	4.0	7.5	14.5
Merged-chr4-124708701-4	chr4	124708606	124708806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010213)	TTS (NM_010213)	-6155.0	NM_029157	75062.0	Mm.25779	NM_029157	ENSMUSG00000028902	Sf3a3	4930512K19Rik|60kDa	splicing factor 3a, subunit 3	protein-coding	83.0	128.0	65.0	831.0	188.5	79.0	53.0	45.0
Merged-chr11-97830684-4	chr11	97830592	97830792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 4 of 6)	intron (NM_010688, intron 4 of 6)	-10088.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	24.0	34.0	39.0	357.0	63.5	16.0	20.0	18.5
Merged-chr17-35262986-4	chr17	35262883	35263083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010380)	promoter-TSS (NM_010380)	-111.0	NM_010380	14964.0	Mm.439675	NM_010380	ENSMUSG00000073411	H2-D1	H-2D|H2-D	histocompatibility 2, D region locus 1	protein-coding	638.5	1277.5	593.0	6625.5	567.0	235.0	214.0	203.5
Merged-chr11-70700799-4	chr11	70700718	70700918	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252485)	promoter-TSS (NM_001252485)	270.0	NM_153103	16562.0	Mm.99996	NM_153103	ENSMUSG00000020821	Kif1c	B430105J22Rik|D11Bwg1349e|Ltxs1|Orch3	kinesin family member 1C	protein-coding	18.0	25.5	17.0	137.5	39.0	14.5	21.0	13.0
Merged-chr4-117288141-4	chr4	117288054	117288254	+	807.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310730, intron 2 of 10)	MIRb|SINE|MIR	1301.0	NM_001310730	66743.0	Mm.318331	NM_025739	ENSMUSG00000028677	Rnf220	4732477A13|4931406I20Rik|5730503K05Rik|AV302541	ring finger protein 220	protein-coding	12.0	10.5	8.0	190.5	32.5	13.5	13.0	16.5
Merged-chr17-31071073-4	chr17	31070987	31071187	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	13393.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	32.0	26.0	28.0	307.5	57.5	7.5	17.5	18.0
Merged-chr13-59004705-4	chr13	59004610	59004810	+	857.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	197013.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	9.0	10.5	5.5	156.5	34.5	10.5	9.0	4.0
Merged-chr11-120458054-4	chr11	120457947	120458147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025560)	promoter-TSS (NM_025560)	23.0	NM_001356385	66431.0	Mm.45063	NM_025560	ENSMUSG00000039670	Oxld1	1810049H13Rik	oxidoreductase like domain containing 1	protein-coding	40.5	57.5	38.0	379.5	73.5	35.0	32.0	53.5
Merged-chr9-78532233-4	chr9	78532108	78532308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50484.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	37.5	59.5	41.5	630.0	131.0	54.0	36.5	28.0
Merged-chr3-27153932-4	chr3	27153825	27154025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177626)	promoter-TSS (NM_001177626)	-47.0	NM_001177626	13605.0	Mm.261453	NM_007900	ENSMUSG00000027699	Ect2	AI528536	ect2 oncogene	protein-coding	276.5	469.0	249.5	4473.0	701.5	297.5	347.0	234.5
Merged-chr4-132971750-4	chr4	132971648	132971848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2347.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	21.0	43.0	18.0	509.5	94.0	26.0	30.0	38.0
Merged-chr19-60580243-4	chr19	60580164	60580364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172097, intron 1 of 6)	intron (NM_001172097, intron 1 of 6)	759.0	NM_001172097	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	34.0	38.0	41.5	453.5	113.5	33.5	29.5	31.0
Merged-chr13-64366537-1	chr13	64366437	64366637	+	567.0	f1_c57bl6.idr	exon (NM_009984, exon 6 of 8)	exon (NM_009984, exon 6 of 8)	3983.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	6.5	10.0	6.5	26.0	5.0	0.5	2.0	7.0
Merged-chr2-181496266-8	chr2	181496168	181496368	+	949.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291201)	promoter-TSS (NM_001291201)	-874.0	NM_001291203	66314.0	Mm.136648	NM_025482	ENSMUSG00000000827	Tpd52l2	2810411G23Rik|AU016537|C86069|D54	tumor protein D52-like 2	protein-coding	6.0	4.0	1.5	32.0	60.5	24.5	18.0	27.5
Merged-chr15-101373662-1	chr15	101373562	101373762	+	875.0	f0_balb.idr	Intergenic	Intergenic	-3537.0	NM_028770	74127.0	Mm.440055	NM_028770	ENSMUSG00000037185	Krt80	1200016G03Rik|2310041I20Rik|Kb20	keratin 80	protein-coding	28.5	11.0	11.0	175.5	8.5	7.0	5.0	4.0
Merged-chr17-23664716-3	chr17	23664634	23664834	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153784, intron 2 of 9)	MIRb|SINE|MIR	4228.0	NM_153784	212733.0	Mm.59997	NM_153784	ENSMUSG00000043782	Bicdl2	BICDR-2|Ccdc64b	BICD family like cargo adaptor 2	protein-coding	4.0	8.5	5.5	71.0	22.5	7.5	4.5	5.5
Merged-chr1-190911772-4	chr1	190911668	190911868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178775)	promoter-TSS (NM_178775)	2.0	NM_178775	320119.0	Mm.220912	NM_178775	ENSMUSG00000089872	Rps6kc1	AA682037|B130003F20Rik|C80612|Rpk118	ribosomal protein S6 kinase polypeptide 1	protein-coding	63.5	94.5	57.0	936.5	108.5	36.0	33.0	52.5
Merged-chr11-105181977-3	chr11	105181849	105182049	+	949.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027956)	promoter-TSS (NR_027956)	422.0	NM_001294329	24086.0	Mm.126976	NM_011903	ENSMUSG00000020694	Tlk2	4933403M19Rik|PKU-alpha|PKUalpha|Tlk	tousled-like kinase 2 (Arabidopsis)	protein-coding	5.5	19.0	14.5	111.0	50.5	27.0	16.0	9.5
Merged-chr19-5490428-4	chr19	5490330	5490530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007687)	promoter-TSS (NM_007687)	-25.0	NM_007687	12631.0	Mm.329655	NM_007687	ENSMUSG00000056201	Cfl1	AA959946|Cof	cofilin 1, non-muscle	protein-coding	132.5	212.5	89.0	1429.0	438.0	144.0	143.5	138.5
Merged-chr18-67396718-4	chr18	67396607	67396807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026473, intron 3 of 3)	intron (NM_026473, intron 3 of 3)	5976.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	189.5	215.0	141.0	2212.5	177.0	93.0	81.5	83.0
Merged-chr13-20220593-4	chr13	20220489	20220689	+	644.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 4 of 21)	intron (NM_080288, intron 4 of 21)	130082.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	6.0	7.0	11.0	121.5	43.0	13.0	17.0	11.0
Merged-chr14-76505062-1	chr14	76504962	76505162	+	549.0	f0_balb.idr	intron (NM_009366, intron 1 of 2)	intron (NM_009366, intron 1 of 2)	552.0	NM_009366	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	5.5	8.5	8.5	100.5	17.5	5.5	7.5	3.0
Merged-chr10-41475458-2	chr10	41475358	41475558	+	981.625	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164433)	promoter-TSS (NM_001164433)	-856.0	NM_001164433	171580.0	Mm.290431	NM_138315	ENSMUSG00000019823	Mical1	MICAL|MICAL-1|Nical	microtubule associated monooxygenase, calponin and LIM domain containing 1	protein-coding	5.0	7.5	3.5	88.5	9.5	4.5	14.0	5.5
Merged-chr11-77785882-4	chr11	77785767	77785967	+	986.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011586, intron 1 of 39)	intron (NM_011586, intron 1 of 39)	8632.0	NM_001291212	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	43.5	34.5	30.0	562.0	55.0	18.0	26.0	16.0
Merged-chr18-75695920-2	chr18	75695820	75696020	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 1 of 11)	intron (NM_201354, intron 1 of 11)	1776.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	5.5	6.5	6.5	90.5	15.0	9.5	4.0	10.0
Merged-chr12-3890950-2	chr12	3890850	3891050	+	899.900024	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153743)	promoter-TSS (NM_153743)	-794.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	8.0	12.0	6.5	124.0	25.5	9.0	5.5	6.0
Merged-chr11-103247747-4	chr11	103247646	103247846	+	846.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	19655.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	11.0	13.5	9.0	195.5	35.0	9.0	9.0	18.0
Merged-chr2-4567807-4	chr2	4567711	4567911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 2 of 11)	intron (NM_001177844, intron 2 of 11)	8057.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	22.0	40.5	31.5	226.0	74.5	34.0	35.5	14.5
Merged-chr13-40953001-4	chr13	40952906	40953106	+	905.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	intron (NM_133219, intron 1 of 2)	35372.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	9.0	29.5	16.0	87.5	81.0	15.0	17.0	11.5
Merged-chr10-54052625-4	chr10	54052549	54052749	+	955.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	MTD|LTR|ERVL-MaLR	23147.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	27.0	77.5	24.5	351.5	116.0	37.5	35.0	15.5
Merged-chr1-35971610-4	chr1	35971517	35971717	+	952.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-96783.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	24.5	11.0	33.0	473.0	34.0	10.5	21.0	26.5
Merged-chr6-124932143-4	chr6	124932085	124932285	+	843.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145385, intron 2 of 8)	intron (NM_145385, intron 2 of 8)	797.0	NM_001170341	30853.0	Mm.29737	NM_145385	ENSMUSG00000030120	Mlf2	AI256856|AU018944|C77284	myeloid leukemia factor 2	protein-coding	7.0	9.5	9.5	101.0	18.5	4.0	5.0	11.0
Merged-chr2-152692086-4	chr2	152691981	152692181	+	868.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010376, intron 8 of 11)	intron (NM_010376, intron 8 of 11)	4933.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	15.5	8.0	8.0	253.5	22.0	4.5	14.5	16.0
Merged-chr17-73935448-4	chr17	73935346	73935546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 5 of 35)	URR1A|DNA|hAT-Charlie	14750.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	71.5	88.5	146.5	1969.5	167.0	60.0	67.0	72.5
Merged-chr7-121981023-4	chr7	121980930	121981130	+	838.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033318, intron 1 of 16)	intron (NM_001033318, intron 1 of 16)	663.0	NM_001033318	233824.0	Mm.442015	NM_001033318	ENSMUSG00000034951	Cog7	5630400E24Rik|Gm167	component of oligomeric golgi complex 7	protein-coding	11.5	5.5	6.5	84.0	23.0	8.5	16.0	13.0
Merged-chr5-140505967-2	chr5	140505867	140506067	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021528, intron 1 of 1)	intron (NM_021528, intron 1 of 1)	358.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	5.5	7.5	11.0	41.0	29.5	8.0	5.0	3.0
Merged-chr18-23415358-3	chr18	23415244	23415444	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010087)	promoter-TSS (NM_010087)	-65.0	NM_010087	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	6.5	35.0	21.0	313.0	8.5	6.0	6.5	8.0
Merged-chr17-6270483-3	chr17	6270385	6270585	+	854.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033178)	promoter-TSS (NM_001033178)	15.0	NM_001033178	77106.0	Mm.381893	NM_001033178	ENSMUSG00000038141	Tmem181a	5930418K15Rik|C76977|Gpr178|Tmem181|mKIAA1423	transmembrane protein 181A	protein-coding	0.0	0.0	0.0	0.0	13.0	7.5	11.5	26.0
Merged-chr18-69290131-3	chr18	69290034	69290234	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-54358.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	38.0	55.5	37.5	663.5	6.5	2.0	5.5	6.0
Merged-chr19-16872747-3	chr19	16872644	16872844	+	827.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008023, exon 1 of 1)	exon (NM_008023, exon 1 of 1)	1086.0	NM_008023	14240.0	Mm.7971	NM_008023	ENSMUSG00000056829	Foxb2	Fkh4	forkhead box B2	protein-coding	4.5	4.5	10.5	76.5	10.0	3.5	2.5	2.5
Merged-chr15-99415970-4	chr15	99415863	99416063	+	850.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	22744.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	8.5	22.5	3.0	95.0	36.0	13.5	7.0	10.0
Merged-chr4-139043798-4	chr4	139043688	139043888	+	905.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029857, intron 14 of 16)	L1MEd|LINE|L1	31001.0	NM_021358	15565.0	Mm.291096	NM_021358	ENSMUSG00000028747	Htr6	5-HT6	5-hydroxytryptamine (serotonin) receptor 6	protein-coding	24.0	23.5	24.0	218.0	20.5	12.5	16.5	10.5
Merged-chr5-74704569-4	chr5	74704455	74704655	+	972.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1652.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	54.5	101.0	55.0	1040.5	35.0	12.5	27.5	13.0
Merged-chr2-132266333-4	chr2	132266243	132266443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	3195.0	NM_138651	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	95.0	119.0	108.5	1689.5	195.0	64.5	104.0	96.5
Merged-chr12-100926405-4	chr12	100926288	100926488	+	876.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026681, intron 25 of 29)	intron (NM_026681, intron 25 of 29)	-18190.0	NM_001177673	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	8.5	18.0	8.5	156.0	34.5	16.0	11.0	20.5
Merged-chr16-38088924-4	chr16	38088862	38089062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019827)	promoter-TSS (NM_019827)	-39.0	NM_001347232	56637.0	Mm.394930	NM_019827	ENSMUSG00000022812	Gsk3b	7330414F15Rik|8430431H08Rik|C86142|GSK-3|GSK-3beta|GSK3	glycogen synthase kinase 3 beta	protein-coding	338.0	498.5	384.5	4606.0	951.5	398.0	474.0	361.0
Merged-chr15-25556412-4	chr15	25556317	25556517	+	932.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66133.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	17.5	17.5	17.0	220.5	50.5	16.0	22.5	17.5
Merged-chr15-31342176-4	chr15	31342061	31342261	+	986.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	intron (NM_027496, intron 1 of 3)	25598.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	42.0	43.0	32.5	698.0	42.0	23.0	22.5	16.5
Merged-chr10-17767102-3	chr10	17767003	17767203	+	960.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29116.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	12.5	29.5	23.5	295.5	9.0	7.5	0.0	3.5
Merged-chr5-123125826-3	chr5	123125713	123125913	+	863.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175092, intron 2 of 4)	intron (NM_175092, intron 2 of 4)	6816.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	10.0	14.0	8.5	141.0	18.5	15.0	6.5	13.5
Merged-chr5-143424074-4	chr5	143423978	143424178	+	977.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20258.0	NM_025841	66913.0	Mm.181880	NM_025841	ENSMUSG00000079111	Kdelr2	1110007A14Rik	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2	protein-coding	35.0	60.5	15.0	298.5	74.0	38.5	22.5	34.5
Merged-chr12-104835028-2	chr12	104834928	104835128	+	981.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040682, intron 1 of 12)	intron (NM_001040682, intron 1 of 12)	30048.0	NR_104436	94040.0	Mm.244078	NM_053155	ENSMUSG00000021097	Clmn	9330188N17Rik|AI428889|AI788815|mKIAA1188	calmin	protein-coding	10.0	7.0	13.5	57.0	15.5	8.0	6.5	21.5
Merged-chr14-52141851-4	chr14	52141763	52141963	+	912.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023879, intron 14 of 24)	intron (NM_023879, intron 14 of 24)	30960.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	12.0	23.5	13.5	302.5	32.0	8.0	17.0	32.5
Merged-chr2-180589390-4	chr2	180589395	180589595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031373)	promoter-TSS (NM_031373)	88.0	NM_031373	72075.0	Mm.250418	NM_031373	ENSMUSG00000049401	Ogfr	2010013E17Rik	opioid growth factor receptor	protein-coding	50.5	64.5	57.5	747.5	114.0	49.0	62.5	41.5
Merged-chr13-107782828-3	chr13	107782719	107782919	+	803.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 3 of 14)	intron (NM_145456, intron 3 of 14)	95422.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	6.5	5.0	8.5	93.5	6.5	2.0	6.0	6.5
Merged-chr17-28987886-2	chr17	28987780	28987980	+	867.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357173, intron 5 of 13)	B2_Mm2|SINE|B2	20115.0	NM_134115	106504.0	Mm.439986	NM_134115	ENSMUSG00000024006	Stk38	5830476G13Rik|9530097A09Rik|AA617404|Ndr1	serine/threonine kinase 38	protein-coding	8.5	10.0	4.5	42.0	19.0	6.0	3.5	4.0
Merged-chr8-83699206-4	chr8	83699087	83699287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177262)	promoter-TSS (NM_177262)	-8.0	NM_177262	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	32.5	31.0	30.5	341.0	106.5	36.5	45.5	38.5
Merged-chr17-26069511-4	chr17	26069395	26069595	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162868)	promoter-TSS (NM_001162868)	-318.0	NM_001162869	215445.0	Mm.41191	NM_153140	ENSMUSG00000037098	Rab11fip3	Cart1|D030060O14Rik|Rab11-FIP3|mKIAA0665	RAB11 family interacting protein 3 (class II)	protein-coding	12.5	27.5	24.5	253.5	25.0	11.0	10.5	8.5
Merged-chr19-6062138-4	chr19	6062006	6062206	+	946.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028454)	TTS (NM_028454)	899.0	NM_013859	29805.0	Mm.2310	NM_013859	ENSMUSG00000075227	Znhit2	C11orf5|Fon|ORF6|Znhit2-ps	zinc finger, HIT domain containing 2	protein-coding	13.5	7.5	8.0	136.5	28.5	6.0	4.0	27.5
Merged-chr10-100032232-2	chr10	100032132	100032332	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347156, intron 1 of 8)	PB1D9|SINE|Alu	16411.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	2.5	3.5	6.5	31.0	9.5	4.5	6.0	8.0
Merged-chr8-110618615-4	chr8	110618555	110618755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146216)	promoter-TSS (NM_146216)	88.0	NR_151675	234729.0	Mm.274894	NM_146216	ENSMUSG00000010936	Vac14	AA959718|BC032215|D8Wsu151e|Tax1bp2|Trx|ingls	Vac14 homolog (S. cerevisiae)	protein-coding	65.0	115.5	75.5	886.0	124.5	67.5	77.5	64.5
Merged-chr4-63557470-4	chr4	63557357	63557557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1306.0	NM_001356355	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	43.5	43.5	41.5	641.5	49.5	17.0	25.0	21.0
Merged-chr1-43139787-4	chr1	43139683	43139883	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010212, intron 3 of 5)	intron (NM_010212, intron 3 of 5)	24178.0	NM_010212	14200.0	Mm.6799	NM_010212	ENSMUSG00000008136	Fhl2	FHL-2|SLIM-3|SLIM3	four and a half LIM domains 2	protein-coding	21.0	36.5	18.5	369.5	60.5	16.5	40.0	35.0
Merged-chr12-81781291-4	chr12	81781170	81781370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177395)	promoter-TSS (NM_177395)	-100.0	NM_001174107	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	141.0	228.0	117.5	2068.0	454.5	140.0	196.5	137.0
Merged-chr14-75791224-4	chr14	75791132	75791332	+	840.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-4195.0	NM_026232	67554.0	Mm.46067	NM_026232	ENSMUSG00000022003	Slc25a30	4933433D23Rik|AV025504|AV221431|AW319655|KMCP1	solute carrier family 25, member 30	protein-coding	8.5	10.5	9.0	95.5	17.5	13.0	7.5	14.5
Merged-chr6-87842885-4	chr6	87842793	87842993	+	861.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013493, exon 5 of 5)	3' UTR (NM_013493, exon 5 of 5)	-4134.0	NM_133934	57905.0	Mm.241546	NM_133934	ENSMUSG00000030056	Isy1	5830446M03Rik|AI181014|AU020769	ISY1 splicing factor homolog	protein-coding	18.0	22.0	5.0	260.0	33.5	11.5	8.0	15.5
Merged-chr2-157142173-4	chr2	157142072	157142272	+	884.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-6950.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	9.5	21.5	9.0	137.0	27.0	13.5	8.0	17.5
Merged-chr8-123332888-4	chr8	123332779	123332979	+	760.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172287, exon 1 of 15)	exon (NM_172287, exon 1 of 15)	166.0	NM_172287	234857.0	Mm.150200	NM_172287	ENSMUSG00000010154	Spire2	BC026502|Spir-2|Spir2	spire type actin nucleation factor 2	protein-coding	12.5	15.5	4.5	138.5	17.0	14.5	12.5	8.0
Merged-chr12-112941976-4	chr12	112941829	112942029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316724, intron 1 of 4)	CpG	213.0	NM_025399	66174.0	Mm.7070	NM_025399	ENSMUSG00000002804	Nudt14	1110030M18Rik|UGPPase	nudix (nucleoside diphosphate linked moiety X)-type motif 14	protein-coding	66.5	75.5	53.5	537.5	106.0	57.0	69.5	73.5
Merged-chr6-108571372-4	chr6	108571267	108571467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51800.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	80.5	147.0	106.0	1612.5	152.0	50.5	63.5	68.5
Merged-chr9-7871871-4	chr9	7871771	7871971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 1 of 8)	intron (NM_007464, intron 1 of 8)	1299.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	68.5	98.5	88.5	844.0	280.5	70.0	90.5	54.0
Merged-chr4-129082910-4	chr4	129082816	129083016	+	900.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 8 of 8)	intron (NM_029219, intron 8 of 8)	-22614.0	NM_025452	66260.0	Mm.25295	NM_025452	ENSMUSG00000028786	Tmem54	1810017F10Rik|AI507302	transmembrane protein 54	protein-coding	7.5	22.0	8.5	163.0	50.5	12.5	27.5	10.5
Merged-chr19-18646608-2	chr19	18646509	18646709	+	888.166626	f0_balb.idr|f1_c57bl6.idr	intron (NM_145497, intron 8 of 8)	B3A|SINE|B2	14593.0	NM_145497	225994.0	Mm.211595	NM_145497	ENSMUSG00000037847	Nmrk1	AA408380|D630020N23Rik|Nrk1	nicotinamide riboside kinase 1	protein-coding	4.0	10.5	8.5	167.0	17.0	4.5	7.5	6.0
Merged-chr5-105706822-3	chr5	105706741	105706941	+	933.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	6031.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	6.0	19.0	7.5	102.0	11.0	5.5	3.5	6.5
Merged-chr6-39779406-4	chr6	39779336	39779536	+	894.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31500.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	10.5	9.0	17.5	357.0	37.0	13.5	12.5	8.5
Merged-chr1-131439238-1	chr1	131439138	131439338	+	571.0	f0_balb.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	88123.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	8.5	10.5	6.5	77.5	8.5	2.0	4.5	9.0
Merged-chr2-165285802-4	chr2	165285716	165285916	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252575, intron 1 of 9)	intron (NM_001252575, intron 1 of 9)	1971.0	NM_001252574	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	36.5	53.5	16.5	409.5	79.0	20.5	16.0	33.5
Merged-chr7-135680512-4	chr7	135680396	135680596	+	862.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316681, intron 16 of 17)	intron (NM_001316681, intron 16 of 17)	-28182.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	8.5	17.0	12.5	140.0	25.5	8.0	28.5	13.5
Merged-chr2-58163582-3	chr2	58163461	58163661	+	832.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045895)	promoter-TSS (NR_045895)	-413.0	NR_045896	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	5.0	7.5	13.5	111.0	9.5	4.0	10.0	3.0
Merged-chr19-47461630-3	chr19	47461536	47461736	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	2775.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	66.5	89.5	81.0	1138.5	15.5	5.0	6.0	6.0
Merged-chr5-75156313-4	chr5	75156252	75156452	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083316, intron 1 of 22)	CpG	186.0	NM_001083316	18595.0	Mm.221403	NM_011058	ENSMUSG00000029231	Pdgfra	AI115593|CD140a|Pdgfr-2	platelet derived growth factor receptor, alpha polypeptide	protein-coding	12.0	8.0	7.0	272.5	48.0	15.5	23.0	18.0
Merged-chr4-63408897-4	chr4	63408786	63408986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5441.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	21.0	64.5	26.0	298.5	94.5	36.0	50.5	33.5
Merged-chr8-88637791-4	chr8	88637690	88637890	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1662.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	15.5	33.0	14.5	230.0	58.5	35.5	20.5	24.5
Merged-chr7-90410138-2	chr7	90410038	90410238	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001289584, exon 20 of 20)	3' UTR (NM_001289584, exon 20 of 20)	-16174.0	NM_027298	70054.0	Mm.307198	NM_027298	ENSMUSG00000044362	Ccdc89	1700019B01Rik|AU022100|BOIP	coiled-coil domain containing 89	protein-coding	4.5	4.5	6.5	48.0	16.0	5.5	7.0	1.0
Merged-chr5-123155622-4	chr5	123155533	123155733	+	872.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 7 of 16)	B3|SINE|B2	13440.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	11.0	5.5	8.0	176.0	21.0	17.5	13.0	21.0
Merged-chr2-98666498-7	chr2	98666374	98666574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SYNREP_MM|Satellite|Satellite	1198817.0	NM_178725	241568.0	Mm.241682	NM_178725	ENSMUSG00000050587	Lrrc4c	6430556C10Rik|NGL-1	leucine rich repeat containing 4C	protein-coding	1061.5	719.0	1991.5	18728.5	3201.5	1373.5	1095.0	3455.0
Merged-chr15-11765106-4	chr15	11765024	11765224	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	140550.0	NM_008728	18162.0	Mm.25259	NM_008728	ENSMUSG00000022206	Npr3	ANP-C|ANPR-C|EF-2|NPR-C|lgj|stri	natriuretic peptide receptor 3	protein-coding	11.0	33.0	58.0	404.0	56.5	19.0	50.0	36.0
Merged-chr13-55020310-4	chr13	55020220	55020420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033245, intron 1 of 18)	intron (NM_001033245, intron 1 of 18)	499.0	NM_001206390	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	96.0	76.0	87.0	1413.5	198.5	77.0	74.0	90.0
Merged-chr11-117166638-3	chr11	117166543	117166743	+	864.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33018.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	14.5	12.5	3.5	104.5	27.5	5.5	6.5	8.0
Merged-chr17-5770798-2	chr17	5770698	5770898	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27859.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	24.0	23.0	15.0	393.5	40.0	11.5	27.5	23.0
Merged-chr11-63948593-4	chr11	63948495	63948695	+	940.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-15631.0	NR_131111	78883.0	Mm.410764	NR_131111	ENSMUSG00000086359	9630013K17Rik	-	RIKEN cDNA 9630013K17 gene	ncRNA	13.0	19.0	11.5	249.5	120.5	25.0	49.0	58.5
Merged-chr15-81393172-4	chr15	81393076	81393276	+	892.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133726, intron 1 of 11)	intron (NM_133726, intron 1 of 11)	6518.0	NM_133726	70356.0	Mm.180337	NM_133726	ENSMUSG00000022403	St13	1110007I03Rik|3110002K08Rik|AW555194|HIP|HOP|HSPABP|HSPABP1|PRO0786|SNC6|p48	suppression of tumorigenicity 13	protein-coding	10.5	13.5	12.5	182.0	29.0	8.5	13.5	15.0
Merged-chr6-38641426-4	chr6	38641355	38641555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4216.0	NM_001033171	74253.0	Mm.121859	NM_001033171	ENSMUSG00000071537	Klrg2	2310020F24Rik	killer cell lectin-like receptor subfamily G, member 2	protein-coding	25.0	40.5	37.0	525.5	62.0	17.0	34.0	38.5
Merged-chr9-120582770-4	chr9	120582684	120582884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5453.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	38.5	58.0	19.0	494.0	115.0	59.5	39.5	43.0
Merged-chr18-46516040-7	chr18	46515945	46516145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173423, intron 2 of 2)	L1MB8|LINE|L1	9926.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	6.5	44.0	20.0	146.5	56.5	29.5	26.5	22.5
Merged-chr1-139467918-4	chr1	139467820	139468020	+	945.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009791, exon 8 of 28)	exon (NM_009791, exon 8 of 28)	13147.0	NM_009791	12316.0	Mm.168523	NM_009791	ENSMUSG00000033952	Aspm	Calmbp1|D330028K02Rik|MCPH5|Sha1	abnormal spindle microtubule assembly	protein-coding	20.0	18.0	43.0	688.0	38.0	25.0	27.5	12.5
Merged-chr14-51941933-3	chr14	51941855	51942055	+	756.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-19182.0	NM_001011687	497071.0	Mm.378602	NM_001011687	ENSMUSG00000068392	Rnase13	-	ribonuclease, RNase A family, 13 (non-active)	protein-coding	11.5	15.0	18.0	110.5	3.5	3.5	2.5	3.0
Merged-chr9-63589471-4	chr9	63589383	63589583	+	946.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030068, intron 3 of 21)	RMER16_Mm|LTR|ERVK	13010.0	NM_030068	78250.0	Mm.444612	NM_030068	ENSMUSG00000037801	Iqch	4921504K03Rik	IQ motif containing H	protein-coding	23.5	14.0	9.5	200.5	35.5	1.5	8.0	14.0
Merged-chr11-115185132-3	chr11	115185019	115185219	+	989.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025400, intron 2 of 6)	intron (NM_025400, intron 2 of 6)	2197.0	NM_025400	66176.0	Mm.86823	NM_025400	ENSMUSG00000015542	Nat9	1110028N05Rik	N-acetyltransferase 9 (GCN5-related, putative)	protein-coding	3.5	5.0	2.5	24.5	42.5	13.5	34.5	32.0
Merged-chr17-45592961-4	chr17	45592840	45593040	+	802.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022880)	promoter-TSS (NM_022880)	-547.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	5.5	6.5	7.0	128.0	36.0	11.5	13.5	10.5
Merged-chr1-74362078-4	chr1	74361989	74362189	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033345)	promoter-TSS (NM_001033345)	-19.0	NM_001033345	241112.0	Mm.310460	NM_001033345	ENSMUSG00000073650	Catip	Gm216	ciliogenesis associated TTC17 interacting protein	protein-coding	17.5	33.0	11.0	260.5	61.0	35.5	34.0	26.0
Merged-chr4-83306928-4	chr4	83306836	83307036	+	944.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	RSINE1|SINE|B4	17253.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	18.0	13.5	29.5	454.0	75.5	11.0	24.5	30.0
Merged-chr19-34772971-4	chr19	34772865	34773065	+	868.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25854.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	16.5	19.0	7.0	230.5	21.0	17.0	14.5	16.5
Merged-chr19-53369939-2	chr19	53369839	53370039	+	923.3000490000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001008543, intron 4 of 5)	intron (NM_001008543, intron 4 of 5)	20102.0	NM_001356986	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	9.0	10.0	1.5	48.0	29.0	9.0	9.0	4.5
Merged-chr8-123202450-4	chr8	123202345	123202545	+	769.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007876)	TTS (NM_007876)	10343.0	NM_145606	234852.0	Mm.41596	NM_145606	ENSMUSG00000000743	Chmp1a	2900018H07Rik|Pcoln3	charged multivesicular body protein 1A	protein-coding	7.5	14.0	6.5	85.5	30.0	6.0	7.5	8.5
Merged-chr16-27413486-3	chr16	27413395	27413595	+	619.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025615, intron 4 of 9)	intron (NM_001025615, intron 4 of 9)	24539.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	9.0	7.0	6.5	178.5	14.0	0.0	8.0	15.0
Merged-chr8-84979914-4	chr8	84979842	84980042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1194.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	297.5	473.5	418.5	4576.5	782.5	299.0	405.5	319.0
Merged-chr3-98084023-7	chr3	98083908	98084108	+	967.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 5 of 33)	intron (NM_010928, intron 5 of 33)	70470.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	20.0	22.5	48.0	773.5	22.5	9.5	20.0	20.0
Merged-chr7-104296921-3	chr7	104296798	104296998	+	804.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8792.0	NM_001310602	667823.0	Mm.482375	NM_001310602	ENSMUSG00000060441	Trim5	EG667823|Gm8833	tripartite motif-containing 5	protein-coding	1.0	3.5	0.0	13.0	41.5	10.5	19.0	16.0
Merged-chr9-66939041-4	chr9	66938941	66939141	+	933.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7045.0	NM_001311101	67941.0	Mm.30120	NM_026467	ENSMUSG00000036781	Rps27l	1810034D23Rik	ribosomal protein S27-like	protein-coding	13.0	30.0	13.0	200.0	51.0	11.0	20.5	25.5
Merged-chr1-84946210-4	chr1	84946090	84946290	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11107.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	32.0	26.5	21.0	431.0	50.5	17.5	20.5	35.5
Merged-chr6-37419305-4	chr6	37419208	37419408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	22840.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	41.0	46.5	58.5	597.0	67.0	33.5	43.0	44.5
Merged-chr5-88631082-4	chr5	88630963	88631163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359208, intron 9 of 13)	intron (NM_001359208, intron 9 of 13)	44517.0	NM_001098476	231413.0	Mm.332474	NM_178700	ENSMUSG00000044221	Grsf1	BB232551|C80280|D5Wsu31e	G-rich RNA sequence binding factor 1	protein-coding	315.5	440.0	367.5	4800.5	741.5	284.5	379.0	273.5
Merged-chr13-56613711-4	chr13	56613625	56613825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 1 of 16)	intron (NR_155548, intron 1 of 16)	4139.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	44.0	55.5	41.5	675.5	87.0	27.0	64.0	35.0
Merged-chr6-87742277-4	chr6	87742164	87742364	+	866.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 2 of 7)	MTD|LTR|ERVL-MaLR	11395.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	6.5	10.0	6.0	161.0	25.5	2.0	4.5	13.0
Merged-chr6-97214098-3	chr6	97213977	97214177	+	724.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022992, intron 1 of 2)	B1F|SINE|Alu	3285.0	NM_022992	65106.0	Mm.291014	NM_022992	ENSMUSG00000035199	Arl6ip5	5930404D22Rik|AV001879|Aip-5|Gtrap3-18|addiscin	ADP-ribosylation factor-like 6 interacting protein 5	protein-coding	11.0	7.5	5.5	122.5	23.0	6.5	5.0	6.5
Merged-chr18-4910048-1	chr18	4909948	4910148	+	804.0	f0_balb.idr	Intergenic	LTR40b|LTR|ERVL	97562.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	5.0	4.5	8.5	113.0	6.0	2.0	2.5	6.0
Merged-chr2-52073366-2	chr2	52073266	52073466	+	927.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355414, intron 2 of 35)	CpG-8094	529.0	NM_175238	51869.0	Mm.254530	NM_175238	ENSMUSG00000036202	Rif1	5730435J01Rik|6530403D07Rik|AU016181|AW549474|D2Ertd145e	replication timing regulatory factor 1	protein-coding	13.5	11.0	8.5	57.5	34.0	11.0	7.0	15.5
Merged-chr17-45746968-4	chr17	45746864	45747064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 1 of 4)	intron (NR_152153, intron 1 of 4)	12458.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	65.0	56.0	112.5	709.5	175.5	48.5	86.0	66.0
Merged-chr7-101108456-4	chr7	101108358	101108558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146010)	promoter-TSS (NM_001146010)	-317.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	156.5	181.5	96.0	1637.5	328.5	132.0	142.0	147.5
Merged-chr18-68058530-4	chr18	68058436	68058636	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	125363.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	40.5	103.0	39.5	219.0	88.5	26.5	19.5	13.5
Merged-chr11-106613980-4	chr11	106613872	106614072	+	980.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1042.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	22.5	27.0	12.5	159.5	37.0	13.0	17.5	18.0
Merged-chr14-70096528-4	chr14	70096368	70096568	+	844.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3625.0	NM_021328	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	4.5	7.0	12.0	88.0	19.0	9.0	16.0	11.0
Merged-chr3-36000682-4	chr3	36000585	36000785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023644)	promoter-TSS (NM_023644)	-7.0	NM_023644	72039.0	Mm.249016	NM_023644	ENSMUSG00000027709	Mccc1	1810045E08Rik|2310058B18Rik|MCCalpha|Mcca|R75106	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	protein-coding	146.5	205.0	154.5	2365.5	414.0	163.0	210.0	170.0
Merged-chr2-11599636-4	chr2	11599536	11599736	+	803.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 2 of 11)	intron (NM_152824, intron 2 of 11)	3563.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	7.0	8.5	6.5	163.0	35.5	4.0	5.5	15.0
Merged-chr15-80034480-2	chr15	80034420	80034620	+	823.333374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19712.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	5.0	1.0	9.0	46.5	22.5	10.5	13.5	14.0
Merged-chr11-85667729-4	chr11	85667635	85667835	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	52009.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	33.0	84.5	42.0	443.0	63.5	17.5	14.5	25.5
Merged-chr8-22843821-4	chr8	22843727	22843927	+	765.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-15712.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	5.0	14.0	7.0	217.0	45.5	5.5	7.0	13.5
Merged-chr13-30630185-4	chr13	30630081	30630281	+	765.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15138.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	8.5	17.0	9.0	262.5	45.0	8.0	8.5	13.0
Merged-chr8-83090663-2	chr8	83090590	83090790	+	893.083374	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177378, exon 7 of 7)	3' UTR (NM_177378, exon 7 of 7)	-74662.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	7.0	14.5	6.0	52.5	23.0	4.5	5.5	1.0
Merged-chr3-52103032-4	chr3	52102924	52103124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	CpG	1982.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	39.0	95.5	63.0	700.0	162.0	72.0	58.5	59.0
Merged-chr2-84528943-4	chr2	84528857	84529057	+	700.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22084.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	7.5	10.0	9.0	148.5	25.0	3.5	9.5	5.0
Merged-chr7-98307470-3	chr7	98307353	98307553	+	930.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360615, intron 1 of 10)	intron (NM_001360615, intron 1 of 10)	2089.0	NM_001360616	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	9.0	9.0	10.5	194.5	17.0	2.5	3.0	6.0
Merged-chr2-153161303-4	chr2	153161203	153161403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133847)	promoter-TSS (NM_133847)	2.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	56.5	119.5	22.0	596.5	164.5	72.0	55.0	56.0
Merged-chr7-104647287-4	chr7	104647179	104647379	+	909.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147049)	promoter-TSS (NM_147049)	26.0	NM_147049	259051.0	Mm.223432	NM_147049	ENSMUSG00000070421	Olfr658	MOR34-5	olfactory receptor 658	protein-coding	25.0	33.5	24.5	312.5	31.0	14.5	22.5	20.5
Merged-chr5-73564663-3	chr5	73564536	73564736	+	852.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	67785.0	NM_153568	231296.0	Mm.168948	NM_153568	ENSMUSG00000067206	Lrrc66	-	leucine rich repeat containing 66	protein-coding	10.5	12.0	6.0	122.0	21.0	5.5	5.5	10.0
Merged-chr9-61511532-3	chr9	61511424	61511624	+	764.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139158.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	7.5	5.0	6.0	113.5	11.0	4.0	7.5	7.5
Merged-chr8-106063266-4	chr8	106063169	106063369	+	819.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010901, intron 1 of 9)	B4A|SINE|B4	3666.0	NM_010901	18021.0	Mm.383185	NM_010901	ENSMUSG00000031902	Nfatc3	C80703|D8Ertd281e|NFAT4|NFATx	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3	protein-coding	11.0	27.0	11.5	136.0	38.0	10.5	10.5	18.0
Merged-chr12-41288761-4	chr12	41288653	41288853	+	732.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	197304.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	10.0	19.5	7.5	195.0	39.0	7.0	11.5	6.0
Merged-chr3-89913207-4	chr3	89913109	89913309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310676)	promoter-TSS (NM_001310676)	-13.0	NM_010559	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	111.5	169.5	109.5	1457.5	250.5	125.5	128.5	107.0
Merged-chr7-123205528-3	chr7	123205428	123205628	+	853.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9338.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	12.5	6.0	5.5	67.0	20.0	5.5	4.5	13.5
Merged-chr2-6695612-4	chr2	6695508	6695708	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	26054.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	16.5	23.0	26.0	450.0	52.5	14.0	27.0	22.5
Merged-chr5-62821739-4	chr5	62821627	62821827	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 2 of 8)	intron (NM_001170705, intron 2 of 8)	7904.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	18.0	29.0	37.0	165.5	39.0	12.5	10.0	8.0
Merged-chr10-79928273-4	chr10	79928175	79928375	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288625, intron 1 of 8)	intron (NM_001288625, intron 1 of 8)	934.0	NM_001288625	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	32.5	24.5	11.5	211.5	69.5	36.5	23.0	28.0
Merged-chr13-9457202-4	chr13	9457101	9457301	+	938.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	ORR1F|LTR|ERVL-MaLR	180676.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	24.0	20.5	26.0	407.0	36.0	12.5	14.5	30.5
Merged-chr2-181890204-3	chr2	181890082	181890282	+	890.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	25822.0	NM_025901	67005.0	Mm.271986	NM_025901	ENSMUSG00000038628	Polr3k	12.3kDa|1500004O14Rik|AI196849|AU014893|C11|RPC10|RPC11	polymerase (RNA) III (DNA directed) polypeptide K	protein-coding	7.5	10.5	6.5	171.0	3.0	0.0	4.5	5.5
Merged-chr3-95014854-4	chr3	95014762	95014962	+	932.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357863, intron 1 of 8)	CpG	376.0	NM_030074	78266.0	Mm.389478	NM_030074	ENSMUSG00000019338	Zfp687	4931408L03Rik|Znf687|mKIAA1441	zinc finger protein 687	protein-coding	12.5	22.5	36.5	104.0	29.0	11.0	10.5	14.5
Merged-chr4-14863619-1	chr4	14863519	14863719	+	989.0	f0_balb.idr	promoter-TSS (NM_028264)	promoter-TSS (NM_028264)	-600.0	NM_028264	72519.0	Mm.279158	NM_028264	ENSMUSG00000028221	Tmem55a	2610319K07Rik|AI315591|AV001360|Pip4p2	transmembrane protein 55A	protein-coding	7.0	13.0	12.0	202.0	23.5	4.5	9.0	10.0
Merged-chr2-166732396-4	chr2	166732303	166732503	+	844.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18571.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	9.5	11.5	6.0	51.0	36.0	12.0	7.5	8.0
Merged-chr10-117717754-4	chr10	117717658	117717858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7000.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	83.5	130.0	103.5	1165.0	238.5	102.0	142.0	103.0
Merged-chr18-75370591-2	chr18	75370491	75370691	+	990.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001042660, intron 1 of 3)	intron (NM_001042660, intron 1 of 3)	3226.0	NM_001042660	17131.0	Mm.34407	NM_008543	ENSMUSG00000025880	Smad7	Madh7	SMAD family member 7	protein-coding	14.0	7.5	13.0	66.5	16.0	14.0	5.0	4.0
Merged-chr10-40316680-3	chr10	40316590	40316790	+	884.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-14502.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	8.5	18.5	9.0	78.5	22.5	10.5	1.0	11.5
Merged-chr5-23225175-3	chr5	23225087	23225287	+	693.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081231, intron 3 of 3)	intron (NM_001081231, intron 3 of 3)	209166.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	8.5	5.0	11.5	80.5	10.0	4.5	4.0	4.0
Merged-chr10-8898483-3	chr10	8898383	8898583	+	925.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12413.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	6.5	15.0	11.5	173.0	12.0	1.5	2.0	3.0
Merged-chr6-88065300-4	chr6	88065181	88065381	+	890.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19192.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	14.5	18.0	19.5	300.0	26.5	11.0	22.0	11.5
Merged-chr2-11391101-4	chr2	11391011	11391211	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040615, intron 1 of 2)	intron (NR_040615, intron 1 of 2)	7389.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	31.0	23.5	32.0	629.0	60.5	32.0	13.5	20.5
Merged-chr17-65540849-8	chr17	65540725	65540925	+	865.8978880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289486)	promoter-TSS (NM_001289486)	-43.0	NM_001289486	381107.0	Mm.141275	NM_001008973	ENSMUSG00000045036	Tmem232	E130009J12Rik|Gm940|Tes13-L|Tes13-S	transmembrane protein 232	protein-coding	5.5	11.0	12.5	137.0	11.5	5.5	14.0	9.0
Merged-chr9-65583242-4	chr9	65583155	65583355	+	994.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3168.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	22.0	41.5	15.5	221.5	55.5	17.5	31.5	29.5
Merged-chr15-38259446-4	chr15	38259347	38259547	+	989.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	40244.0	NM_008757	18285.0	Mm.252830	NM_008757	ENSMUSG00000061923	Odf1	-	outer dense fiber of sperm tails 1	protein-coding	13.5	31.5	41.5	490.0	134.0	36.5	80.5	68.5
Merged-chr17-23564256-4	chr17	23564138	23564338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033496)	promoter-TSS (NM_001033496)	-12.0	NM_001033496	449521.0	Mm.268582	NM_001033496	ENSMUSG00000071256	Zfp213	BC038178|D17Ertd197e	zinc finger protein 213	protein-coding	175.0	239.5	163.5	2855.5	520.5	219.0	271.0	233.5
Merged-chr4-8910530-4	chr4	8910422	8910622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	159198.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	36.0	59.5	32.0	489.5	120.0	43.0	67.5	61.5
Merged-chr3-21820339-1	chr3	21820239	21820439	+	771.5	f0_balb.idr	Intergenic	Intergenic	-256313.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	10.0	4.5	7.5	162.0	23.0	4.5	5.5	5.5
Merged-chr17-48818054-3	chr17	48817929	48818129	+	685.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B2|LTR|ERVL	-114553.0	NM_027452	70530.0	Mm.133607	NM_027452	ENSMUSG00000040490	Lrfn2	5730420O05Rik|SALM1|mKIAA1246	leucine rich repeat and fibronectin type III domain containing 2	protein-coding	7.5	8.0	6.5	100.5	5.5	0.0	5.5	7.5
Merged-chr14-30125164-4	chr14	30125029	30125229	+	862.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 11 of 46)	intron (NM_001083616, intron 11 of 46)	102496.0	NM_175343	218865.0	Mm.259916	NM_172264	ENSMUSG00000015970	Chdh	AU041472|D630034H06Rik	choline dehydrogenase	protein-coding	14.0	10.5	12.5	309.0	23.5	9.0	7.0	15.0
Merged-chr4-32010993-1	chr4	32010893	32011093	+	831.0	f0_balb.idr	intron (NM_009316, intron 14 of 16)	intron (NM_009316, intron 14 of 16)	46886.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	7.5	10.0	11.5	164.0	19.0	5.5	7.5	6.0
Merged-chr17-46705081-4	chr17	46704993	46705193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009358)	promoter-TSS (NM_009358)	-67.0	NM_001357684	21770.0	Mm.295009	NM_009358	ENSMUSG00000059409	Ppp2r5d	B'delta|TEG-271|Tex271	protein phosphatase 2, regulatory subunit B', delta	protein-coding	241.0	325.5	210.5	3027.0	412.5	154.0	186.0	175.5
Merged-chr6-13871540-4	chr6	13871455	13871655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001352887)	promoter-TSS (NM_001352887)	-14.0	NR_045995	76311.0	Mm.367129	NR_045995	ENSMUSG00000097616	1110019D14Rik	-	RIKEN cDNA 1110019D14 gene	ncRNA	63.0	91.5	74.5	932.0	189.0	68.0	83.5	59.5
Merged-chr8-34101207-4	chr8	34101141	34101341	+	788.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293759, intron 2 of 7)	intron (NM_001293759, intron 2 of 7)	6573.0	NM_001293758	22428.0	Mm.150373	NM_011722	ENSMUSG00000031516	Dctn6	AU044699|WS-3|p27	dynactin 6	protein-coding	6.0	11.0	7.0	149.5	26.5	6.0	10.0	8.0
Merged-chr17-83527415-4	chr17	83527316	83527516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13083.0	NM_001159529	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	30.0	37.0	33.5	379.5	43.0	18.0	33.5	31.5
Merged-chr12-113119684-4	chr12	113119578	113119778	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054081, intron 3 of 19)	intron (NM_054081, intron 3 of 19)	-20558.0	NM_024223	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	15.0	18.0	14.5	437.0	82.0	20.0	32.5	40.0
Merged-chr16-21279022-2	chr16	21278922	21279122	+	697.333374	f1_balb.idr|f1_c57bl6.idr	intron (NR_046162, intron 3 of 4)	intron (NR_046162, intron 3 of 4)	17850.0	NR_046162	328646.0	Mm.404748	NR_046162	ENSMUSG00000096918	Gm16863	A830060N17	predicted gene, 16863	ncRNA	2.5	6.0	0.0	69.0	6.0	5.5	6.0	7.0
Merged-chr14-103469633-4	chr14	103469555	103469755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43686.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	138.5	195.0	95.5	1631.5	256.5	101.0	103.5	99.5
Merged-chr5-32135808-4	chr5	32135706	32135906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008037)	promoter-TSS (NM_008037)	-666.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	188.5	274.0	195.5	2713.0	606.5	291.0	297.5	306.5
Merged-chr3-89515659-4	chr3	89515576	89515776	+	906.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4488.0	NM_080466	140493.0	Mm.120250	NM_080466	ENSMUSG00000000794	Kcnn3	KCa2.3|SK3|SKCA3	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	protein-coding	26.5	56.5	21.5	335.0	16.0	11.5	11.5	23.0
Merged-chr12-108204076-4	chr12	108203974	108204174	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009832)	TTS (NM_009832)	24336.0	NM_009832	12454.0	Mm.474441	NM_009832	ENSMUSG00000021258	Ccnk	AW123198|AW413594|CPR4|CycK	cyclin K	protein-coding	19.5	46.5	62.0	664.5	92.0	18.0	34.0	42.5
Merged-chr7-127876878-4	chr7	127876721	127876921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172749)	promoter-TSS (NM_172749)	15.0	NM_146259	244219.0	Mm.207872	NM_146259	ENSMUSG00000049728	Zfp668	BC030314|E130018B19Rik|Znf668	zinc finger protein 668	protein-coding	31.0	65.0	32.5	265.5	76.5	22.5	26.5	31.5
Merged-chr4-3647223-4	chr4	3647133	3647333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9273.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	82.0	103.5	82.0	1185.0	144.5	57.0	82.5	74.5
Merged-chr14-45552382-4	chr14	45552270	45552470	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045809, intron 3 of 6)	intron (NR_045809, intron 3 of 6)	8660.0	NR_045809	67651.0	Mm.55930	NR_045809	ENSMUSG00000115324	4930527F14Rik	-	RIKEN cDNA 4930527F14 gene	ncRNA	14.0	41.0	37.0	353.0	70.5	18.0	22.0	18.0
Merged-chr1-120170486-4	chr1	120170388	120170588	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172074, intron 4 of 4)	intron (NM_001172074, intron 4 of 4)	49301.0	NM_001172074	73103.0	Mm.271602	NM_028439	ENSMUSG00000026388	3110009E18Rik	-	RIKEN cDNA 3110009E18 gene	protein-coding	7.5	7.0	24.5	359.0	29.5	2.5	11.5	15.5
Merged-chr15-97964135-4	chr15	97964019	97964219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252153)	promoter-TSS (NM_001252153)	-110.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	67.0	127.5	41.5	741.5	203.0	79.0	67.5	85.5
Merged-chr12-13269236-5	chr12	13269147	13269347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027706, exon 1 of 52)	exon (NM_027706, exon 1 of 52)	120.0	NM_027706	71169.0	Mm.177520	NM_027706	ENSMUSG00000020576	Nbas	4933425L03Rik|Nag	neuroblastoma amplified sequence	protein-coding	38.5	59.5	82.0	734.5	50.0	18.0	30.5	35.5
Merged-chr1-87652866-4	chr1	87652738	87652938	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	32526.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	14.5	41.5	32.5	365.0	52.0	19.5	24.5	26.5
Merged-chr17-25984767-4	chr17	25984674	25984874	+	871.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347334, intron 1 of 11)	intron (NM_001347334, intron 1 of 11)	1022.0	NR_151779	50817.0	Mm.216072	NM_015830	ENSMUSG00000037326	Capn15	Solh	calpain 15	protein-coding	17.0	27.0	8.0	90.0	59.5	10.0	16.5	22.5
Merged-chr3-97736444-2	chr3	97736344	97736544	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 24 of 46)	intron (NM_001039376, intron 24 of 46)	31570.0	NM_178080	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	6.5	5.0	6.0	35.0	6.0	6.0	4.0	3.5
Merged-chr12-116283117-4	chr12	116283023	116283223	+	738.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028731, intron 1 of 21)	intron (NM_028731, intron 1 of 21)	1901.0	NM_028731	52635.0	Mm.273755	NM_028731	ENSMUSG00000021171	Esyt2	2410017M09Rik|4921504I16Rik|CHR2SYT|D12Ertd551e|Fam62b	extended synaptotagmin-like protein 2	protein-coding	8.0	9.5	1.5	99.5	29.5	5.5	11.5	8.5
Merged-chr14-8985612-4	chr14	8985499	8985699	+	896.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	319209.0	NR_045968	74859.0	Mm.84041	NR_045968	ENSMUSG00000097898	4930455B14Rik	1700027C12Rik	RIKEN cDNA 4930455B14 gene	ncRNA	25.0	15.5	16.0	386.0	56.0	13.5	12.5	14.0
Merged-chr5-35795508-2	chr5	35795444	35795644	+	657.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177678, intron 1 of 19)	intron (NM_177678, intron 1 of 19)	37664.0	NM_001177698	231148.0	Mm.254446	NM_177678	ENSMUSG00000029095	Ablim2	AI606905|C230091L11	actin-binding LIM protein 2	protein-coding	2.5	3.0	7.0	51.0	9.0	6.5	5.5	7.0
Merged-chr19-17218370-4	chr19	17218266	17218466	+	944.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 19 of 19)	intron (NM_181348, intron 19 of 19)	121139.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	7.0	29.0	8.0	151.0	88.0	35.5	40.5	18.0
Merged-chr1-120504859-4	chr1	120504769	120504969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010766, exon 1 of 17)	5' UTR (NM_010766, exon 1 of 17)	155.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	20.5	23.0	26.5	488.0	89.5	32.5	35.5	34.0
Merged-chr7-142068758-3	chr7	142068667	142068867	+	921.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7733.0	NM_028308	101513.0	Mm.53259	NM_028308	ENSMUSG00000025147	Mob2	1110017M21Rik|2700078K21Rik|AI256456|Mmh	MOB kinase activator 2	protein-coding	4.5	5.0	11.0	176.5	8.5	4.0	4.0	12.0
Merged-chr9-97020448-5	chr9	97020366	97020566	+	735.200012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-2111.0	NM_145134	211949.0	Mm.491271	NM_145134	ENSMUSG00000046997	Spsb4	D030068E18Rik|SSB-4|Ssb4	splA/ryanodine receptor domain and SOCS box containing 4	protein-coding	1.0	3.0	2.0	21.5	9.5	6.5	5.0	5.0
Merged-chr12-82261770-4	chr12	82261678	82261878	+	954.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	intron (NM_001167983, intron 2 of 23)	-49571.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	13.5	16.0	15.0	359.0	39.5	13.5	18.0	22.5
Merged-chr2-83722061-4	chr2	83721953	83722153	+	893.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2344.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	13.0	17.0	30.5	397.0	41.0	8.0	7.5	13.5
Merged-chr3-40951519-2	chr3	40951419	40951619	+	731.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040399, intron 1 of 9)	intron (NM_001040399, intron 1 of 9)	888.0	NM_001040399	214048.0	Mm.46782	NM_027663	ENSMUSG00000025762	Larp1b	1700108L22Rik|4933421B21Rik|AA690246|Larp2	La ribonucleoprotein domain family, member 1B	protein-coding	6.5	8.5	7.0	40.5	6.0	10.0	5.0	5.5
Merged-chr9-95612388-4	chr9	95612305	95612505	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-25223.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	8.5	18.0	14.5	256.0	37.5	10.5	14.5	17.5
Merged-chr11-100702679-4	chr11	100702516	100702716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030150, intron 4 of 12)	B2_Mm2|SINE|B2	1655.0	NM_030150	80861.0	Mm.271830	NM_030150	ENSMUSG00000017830	Dhx58	B430001I08Rik|D11Lgp2e|LPG2|Lgp2|RLR-3	DEXH (Asp-Glu-X-His) box polypeptide 58	protein-coding	66.0	123.0	51.0	485.5	190.0	72.0	36.5	80.5
Merged-chr16-33837483-3	chr16	33837403	33837603	+	959.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	intron (NM_001145884, intron 1 of 14)	7838.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	10.0	4.5	11.0	154.5	19.0	15.0	3.0	5.5
Merged-chr1-170165101-4	chr1	170165011	170165211	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133806, intron 2 of 10)	MTEa|LTR|ERVL-MaLR	9853.0	NM_133806	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	29.5	32.0	26.5	392.0	40.0	16.0	21.5	16.5
Merged-chr7-29170227-8	chr7	29170205	29170405	+	944.0104369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182696)	promoter-TSS (NM_182696)	95.0	NM_182694	243897.0	Mm.389886	NM_182694	ENSMUSG00000031493	Ggn	AI593290	gametogenetin	protein-coding	12.0	8.0	10.5	139.0	58.0	33.5	17.0	17.0
Merged-chr7-130657959-4	chr7	130657841	130658041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004468, intron 3 of 21)	intron (NM_001004468, intron 3 of 21)	-34615.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	56.0	67.5	32.5	627.0	92.5	25.0	45.0	29.5
Merged-chr15-75842017-4	chr15	75841925	75842125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172121)	promoter-TSS (NM_172121)	-117.0	NM_172121	223642.0	Mm.209800	NM_172121	ENSMUSG00000075600	Zc3h3	BC049953|Kiaa0150|Smicl|Zc3hdc3	zinc finger CCCH type containing 3	protein-coding	92.5	166.5	84.0	1562.5	313.5	96.5	83.0	94.0
Merged-chr12-33110964-4	chr12	33110843	33111043	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015602)	TTS (NR_015602)	-18068.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	26.0	32.0	25.5	310.5	31.5	8.5	14.5	7.5
Merged-chr17-34391657-4	chr17	34391556	34391756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7164.0	NM_001001177	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	17.5	42.5	21.5	164.0	103.0	23.5	24.5	33.0
Merged-chr2-13543794-4	chr2	13543694	13543894	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010067, intron 1 of 10)	intron (NM_010067, intron 1 of 10)	870.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	37.5	18.0	18.0	343.5	123.5	15.0	16.0	26.5
Merged-chr17-36231615-4	chr17	36231544	36231744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	26202.0	NM_026308	67676.0	Mm.27131	NM_026308	ENSMUSG00000024446	Rpp21	0610037N01Rik	ribonuclease P 21 subunit	protein-coding	44.0	58.0	42.0	471.0	128.0	62.0	65.0	89.0
Merged-chr11-95835481-4	chr11	95835371	95835571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025659, intron 3 of 7)	intron (NM_025659, intron 3 of 7)	-6824.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	78.0	115.0	88.5	1069.0	159.5	75.0	90.5	98.0
Merged-chr15-76745275-4	chr15	76745175	76745375	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 3 of 10)	intron (NM_198420, intron 3 of 10)	-21430.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	28.0	35.5	27.0	409.5	50.0	20.0	18.5	25.0
Merged-chr19-34231751-3	chr19	34231626	34231826	+	727.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360720)	promoter-TSS (NM_001360720)	-899.0	NM_001360720	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	9.5	5.0	3.5	218.5	27.0	7.0	7.5	4.5
Merged-chr9-98614197-3	chr9	98614097	98614297	+	701.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12518.0	NM_025485	64655.0	Mm.17949	NM_025485	ENSMUSG00000032459	Mrps22	3100002P07Rik|Rpms22	mitochondrial ribosomal protein S22	protein-coding	2.0	12.5	5.0	84.0	6.5	7.0	11.5	12.5
Merged-chr7-31111231-4	chr7	31111122	31111322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276269)	promoter-TSS (NM_001276269)	-225.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	134.0	215.0	141.5	1446.5	326.5	135.0	138.5	117.5
Merged-chr19-8534807-4	chr19	8534713	8534913	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56441.0	NM_001164634	19879.0	Mm.285294	NM_031194	ENSMUSG00000063796	Slc22a8	Oat3|Roct	solute carrier family 22 (organic anion transporter), member 8	protein-coding	12.0	10.0	5.0	113.0	41.0	14.5	16.0	8.5
Merged-chr2-16135622-4	chr2	16135541	16135741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 33 of 38)	intron (NM_001310455, intron 33 of 38)	-220663.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	31.0	48.5	29.5	987.5	86.0	27.0	44.5	42.0
Merged-chr1-135136664-3	chr1	135136561	135136761	+	745.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177081, intron 5 of 9)	intron (NM_177081, intron 5 of 9)	3352.0	NM_001356382	320139.0	Mm.258388	NM_177081	ENSMUSG00000031506	Ptpn7	BPTP-4|C920001D21Rik|HEPTP|LC-PTP|LPTP	protein tyrosine phosphatase, non-receptor type 7	protein-coding	11.5	1.0	4.0	56.5	30.5	10.5	10.5	4.5
Merged-chr17-27520729-2	chr17	27520629	27520829	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-17196.0	NM_001291045	268934.0	Mm.358940	NM_001013385	ENSMUSG00000063239	Grm4	Gprc1d|mGluR4	glutamate receptor, metabotropic 4	protein-coding	7.5	6.5	5.5	20.0	13.0	7.0	4.5	2.5
Merged-chr2-116817841-4	chr2	116817736	116817936	+	901.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60855.0	NM_001355572	67356.0	Mm.131623	NM_026104	ENSMUSG00000027355	Tmco5	1700095F04Rik|Tmco5a	transmembrane and coiled-coil domains 5	protein-coding	6.5	16.5	23.0	235.5	28.5	6.5	15.0	12.0
Merged-chr2-25333159-4	chr2	25333008	25333208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027448)	promoter-TSS (NR_027448)	365.0	NM_001029983	227619.0	Mm.270798	NM_001029983	ENSMUSG00000036646	Man1b1	E430019H13Rik|ERMan1|Gm108|MANA-ER	mannosidase, alpha, class 1B, member 1	protein-coding	27.5	40.0	13.5	109.5	41.0	18.0	13.5	22.5
Merged-chr12-91665731-3	chr12	91665659	91665859	+	941.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	-75272.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	7.0	5.5	13.0	91.5	6.0	3.0	4.5	3.5
Merged-chr19-3325116-4	chr19	3325019	3325219	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 1 of 18)	intron (NM_013495, intron 1 of 18)	1818.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	16.5	18.0	10.0	211.0	25.5	9.5	6.0	16.0
Merged-chr6-134558923-4	chr6	134558788	134558988	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	8025.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	2.0	6.0	4.5	68.0	57.5	11.5	15.0	29.0
Merged-chr13-9393644-3	chr13	9393544	9393744	+	847.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	117119.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	16.5	7.5	16.5	150.0	10.0	7.5	7.0	4.0
Merged-chr7-141294039-3	chr7	141293946	141294146	+	800.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007878, exon 3 of 4)	exon (NM_007878, exon 3 of 4)	2040.0	NM_007878	13491.0	Mm.41075	NM_007878	ENSMUSG00000025496	Drd4	AW125663|D4R|Drd-4	dopamine receptor D4	protein-coding	8.5	13.0	4.5	136.0	20.5	4.5	14.5	6.5
Merged-chr17-27825707-3	chr17	27825611	27825811	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-5169.0	NM_001271511	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	4.0	5.5	8.5	124.5	25.0	7.0	8.0	4.5
Merged-chr7-30626153-4	chr7	30626044	30626244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025628)	promoter-TSS (NM_025628)	7.0	NM_025628	110323.0	Mm.400	NM_025628	ENSMUSG00000036751	Cox6b1	2010000G05Rik|Cox6b	cytochrome c oxidase, subunit VIb polypeptide 1	protein-coding	68.5	81.5	39.5	772.0	119.5	36.0	76.5	52.5
Merged-chr7-79729392-4	chr7	79729301	79729501	+	809.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175640, intron 3 of 8)	intron (NM_175640, intron 3 of 8)	3375.0	NM_175640	103968.0	Mm.254917	NM_175640	ENSMUSG00000030546	Plin1	6030432J05Rik|Peri|Plin	perilipin 1	protein-coding	11.5	8.5	6.5	94.5	23.0	12.0	9.0	11.5
Merged-chr2-118602045-4	chr2	118601942	118602142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009773, intron 2 of 22)	intron (NM_009773, intron 2 of 22)	3831.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	26.5	61.0	23.0	298.0	104.0	27.5	39.5	43.0
Merged-chr12-99097083-2	chr12	99096983	99097183	+	691.125	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65725.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	6.0	1.0	2.5	76.5	15.5	6.5	6.0	10.0
Merged-chr3-116290318-4	chr3	116290209	116290409	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173553, intron 13 of 13)	intron (NM_001173553, intron 13 of 13)	-36825.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	20.5	21.0	36.5	539.5	53.5	8.0	21.0	31.5
Merged-chr1-87621567-4	chr1	87621400	87621600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	1188.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	23.5	51.5	58.0	454.0	73.0	31.5	54.5	70.5
Merged-chr13-105294298-4	chr13	105294113	105294313	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 1 of 7)	CpG	272.0	NM_001360890	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	8.5	22.5	30.5	254.5	23.0	14.0	19.5	17.5
Merged-chr8-70376586-6	chr8	70376515	70376715	+	839.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016685, intron 8 of 18)	CpG-14088	3067.0	NM_016685	12845.0	Mm.45071	NM_016685	ENSMUSG00000031849	Comp	TSP5	cartilage oligomeric matrix protein	protein-coding	12.0	15.0	21.5	119.5	12.5	7.0	3.0	12.0
Merged-chr16-55733982-4	chr16	55733854	55734054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88184.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	41.5	61.5	71.5	1086.0	119.5	43.0	39.5	33.0
Merged-chr5-149274779-8	chr5	149274687	149274887	+	965.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308462, intron 2 of 3)	MT2B|LTR|ERVL	9783.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	13.5	12.5	30.0	207.0	60.5	14.5	18.5	20.5
Merged-chr18-53264296-4	chr18	53264182	53264382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	18620.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	114.0	122.0	110.5	1610.0	255.0	80.5	133.0	110.5
Merged-chr15-7931791-1	chr15	7931691	7931891	+	1000.0	f0_balb.idr	intron (NM_001081402, intron 10 of 17)	intron (NM_001081402, intron 10 of 17)	116241.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	6.0	7.0	16.5	145.5	19.5	2.0	3.5	7.0
Merged-chr15-8280167-2	chr15	8280067	8280267	+	601.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111061.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	5.0	7.5	7.0	32.5	9.5	3.0	1.5	10.5
Merged-chr18-75819181-2	chr18	75819082	75819282	+	814.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145356)	promoter-TSS (NM_145356)	-996.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	1.0	3.5	2.0	36.0	14.5	5.5	13.0	6.5
Merged-chr14-109485044-4	chr14	109484989	109485189	+	860.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-570850.0	NM_199065	76965.0	Mm.257268	NM_199065	ENSMUSG00000075478	Slitrk1	3200001I04Rik	SLIT and NTRK-like family, member 1	protein-coding	10.5	22.0	10.0	270.5	17.0	1.5	4.0	1.0
Merged-chr11-5491223-4	chr11	5491114	5491314	+	888.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29427.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	11.0	15.0	12.0	405.5	14.0	2.0	12.0	13.5
Merged-chr15-86167288-3	chr15	86167216	86167416	+	812.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-18412.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	8.0	9.0	5.5	110.0	16.5	4.5	4.5	8.0
Merged-chr4-102518017-3	chr4	102517936	102518136	+	942.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-52024.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	0.0	6.0	0.0	110.5	36.0	15.5	8.0	20.0
Merged-chr4-19892360-4	chr4	19892254	19892454	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	30212.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	35.5	18.0	13.0	413.0	29.0	13.0	23.5	17.5
Merged-chr3-126628123-3	chr3	126628028	126628228	+	743.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	31177.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	4.0	9.0	8.5	93.0	7.0	5.5	5.0	7.5
Merged-chr6-126940682-4	chr6	126940581	126940781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138594, intron 1 of 13)	Lx8|LINE|L1	715.0	NM_138594	28040.0	Mm.44228	NM_138594	ENSMUSG00000030347	D6Wsu163e	C12orf4	DNA segment, Chr 6, Wayne State University 163, expressed	protein-coding	151.0	243.5	184.0	2935.5	382.5	143.0	167.5	157.5
Merged-chr17-26605784-4	chr17	26605679	26605879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	intron (NM_026170, intron 1 of 9)	44267.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	113.5	156.5	114.5	1810.5	242.0	83.5	80.5	105.5
Merged-chr10-67290785-4	chr10	67290679	67290879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5498.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	30.5	63.5	38.0	551.0	96.5	46.5	42.5	38.0
Merged-chr2-129622095-4	chr2	129621998	129622198	+	825.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355158, intron 7 of 8)	intron (NM_001355158, intron 7 of 8)	26636.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	7.5	2.5	6.5	123.0	30.0	6.0	13.5	10.5
Merged-chr1-59186523-3	chr1	59186432	59186632	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159948, intron 15 of 33)	intron (NM_001159948, intron 15 of 33)	-23143.0	NM_001164682	227157.0	Mm.474049	NM_145143	ENSMUSG00000079550	Mpp4	Dlg6	membrane protein, palmitoylated 4 (MAGUK p55 subfamily member 4)	protein-coding	37.0	37.5	32.0	829.0	0.0	0.0	2.5	1.0
Merged-chr16-91061764-4	chr16	91061670	91061870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028905, intron 1 of 2)	intron (NM_028905, intron 1 of 2)	7375.0	NM_001163695	74387.0	Mm.236220	NM_028905	ENSMUSG00000039851	4932438H23Rik	4931406G06Rik|AI550392	RIKEN cDNA 4932438H23 gene	protein-coding	99.0	135.0	93.5	1794.5	224.0	76.5	98.5	110.0
Merged-chr6-59208869-4	chr6	59208784	59208984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081145)	promoter-TSS (NM_001081145)	14.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	234.5	360.0	348.5	4260.0	628.5	246.5	269.5	254.5
Merged-chr19-8992993-4	chr19	8992905	8993105	+	900.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039959, intron 1 of 5)	intron (NM_001039959, intron 1 of 5)	3721.0	NM_001286518	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	22.0	49.0	8.5	185.0	20.5	17.5	18.5	9.0
Merged-chr3-55115017-4	chr3	55114908	55115108	+	876.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144987, intron 1 of 8)	intron (NM_001144987, intron 1 of 8)	2842.0	NM_001144987	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	10.5	11.5	19.5	290.0	34.0	18.5	14.5	14.5
Merged-chr18-11695619-1	chr18	11695519	11695719	+	683.0	f0_balb.idr	intron (NM_001081223, intron 5 of 18)	Lx7|LINE|L1	38270.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	8.0	7.5	6.5	131.0	21.5	6.0	7.5	5.5
Merged-chr5-136971016-3	chr5	136970929	136971129	+	600.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021719, intron 1 of 4)	intron (NM_021719, intron 1 of 4)	3160.0	NM_021719	60363.0	Mm.87202	NM_021719	ENSMUSG00000001739	Cldn15	2210009B08Rik|BB107105	claudin 15	protein-coding	10.5	11.0	3.0	67.0	21.5	6.5	6.0	9.5
Merged-chr7-6410262-4	chr7	6410168	6410368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4907.0	NM_001134752	100042450.0	Mm.416919	NM_001134752	ENSMUSG00000093536	Smim17	Gm16532	small integral membrane protein 17	protein-coding	34.5	55.0	44.0	674.5	97.0	36.0	40.5	36.0
Merged-chr2-168473083-3	chr2	168473029	168473229	+	963.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117236.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	15.0	15.0	13.0	150.5	19.5	5.5	4.5	11.0
Merged-chr14-61707200-1	chr14	61707100	61707300	+	665.0	f1_balb.idr	Intergenic	Intergenic	-24827.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	2.5	3.0	3.5	96.5	16.0	5.5	10.5	11.0
Merged-chr11-85792630-3	chr11	85792527	85792727	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_077059, exon 5 of 5)	non-coding (NR_077059, exon 5 of 5)	-16947.0	NR_046194	78420.0	Mm.488197	NR_046194	ENSMUSG00000085514	Bcas3os2	9530048J24Rik	breast carcinoma amplified sequence 3 opposite strand 2	ncRNA	14.5	7.5	20.0	481.5	8.0	2.5	10.5	4.0
Merged-chr12-21543417-4	chr12	21543317	21543517	+	900.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-125981.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	49.0	52.0	74.0	715.0	26.5	6.0	14.5	15.5
Merged-chr5-8863726-5	chr5	8863573	8863773	+	926.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011075, intron 26 of 27)	intron (NM_011075, intron 26 of 27)	-30048.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	8.5	8.5	9.0	186.0	25.0	6.5	8.5	6.0
Merged-chr7-19824333-4	chr7	19824230	19824430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1575.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	152.0	207.0	150.0	1619.0	361.5	116.0	153.5	88.0
Merged-chr15-12236891-2	chr15	12236791	12236991	+	661.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172958, intron 5 of 15)	MTA_Mm|LTR|ERVL-MaLR	31863.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	10.0	9.5	2.5	59.5	7.5	8.0	9.0	4.5
Merged-chr4-144899333-2	chr4	144899233	144899433	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	6196.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	4.5	7.0	5.0	64.0	14.0	1.0	6.0	1.0
Merged-chr11-61407977-4	chr11	61407907	61408107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-29932.0	NM_026183	67473.0	Mm.100741	NM_026183	ENSMUSG00000010122	Slc47a1	1300013J15Rik|AI036982|MATE1|mMATE1	solute carrier family 47, member 1	protein-coding	37.5	63.0	26.5	438.0	91.5	38.5	32.0	42.5
Merged-chr12-65074009-4	chr12	65073803	65074003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013902)	promoter-TSS (NM_013902)	35.0	NM_013902	30795.0	Mm.28480	NM_013902	ENSMUSG00000020949	Fkbp3	25kDa|FKBP-3|FKBP25	FK506 binding protein 3	protein-coding	157.5	271.5	250.0	2805.0	356.5	169.0	188.5	178.0
Merged-chr8-115650417-4	chr8	115650330	115650530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56464.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	99.0	123.5	159.0	2237.5	161.0	61.0	107.0	72.5
Merged-chr8-46928882-4	chr8	46928791	46928991	+	991.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57996.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	13.5	37.5	30.0	347.0	52.5	17.5	30.0	36.5
Merged-chr2-118520122-4	chr2	118519999	118520199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24488.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	24.0	58.0	28.5	462.0	76.5	24.5	28.5	22.0
Merged-chr13-34792176-4	chr13	34792048	34792248	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52506.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	24.0	37.5	28.5	422.5	42.5	19.5	18.5	13.0
Merged-chr19-23520787-1	chr19	23520687	23520887	+	593.0	f0_c57.idr	Intergenic	L3|LINE|CR1	-72465.0	NM_174857	71738.0	Mm.50841	NM_174857	ENSMUSG00000033207	Mamdc2	1200015L10Rik|AI591564|mamcan	MAM domain containing 2	protein-coding	0.0	6.0	0.0	38.5	26.5	8.5	18.0	11.5
Merged-chr2-102401111-4	chr2	102401019	102401219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020267)	promoter-TSS (NM_020267)	-219.0	NM_020267	80985.0	Mm.315002	NM_020267	ENSMUSG00000027189	Trim44	Dipb|Mc7	tripartite motif-containing 44	protein-coding	50.0	62.5	39.0	726.5	91.0	34.0	48.5	39.0
Merged-chr17-26231572-2	chr17	26231497	26231697	+	688.0	f0_balb.idr|f1_balb.idr	intron (NM_001206335, intron 1 of 12)	B4A|SINE|B4	12645.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	9.5	6.0	8.0	141.5	14.0	4.0	8.5	9.5
Merged-chr17-71196839-3	chr17	71196725	71196925	+	851.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	-7829.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	17.0	14.5	4.5	154.5	14.0	2.5	5.5	9.0
Merged-chr10-77522138-4	chr10	77522033	77522233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6320.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	55.0	67.5	52.5	930.5	104.5	47.0	59.5	31.0
Merged-chr7-3292959-4	chr7	3292880	3293080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001093766)	promoter-TSS (NM_001093766)	-48.0	NM_001093766	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	47.0	71.5	35.0	611.0	205.0	98.5	103.0	56.5
Merged-chr12-85759016-3	chr12	85758925	85759125	+	803.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145447, intron 1 of 9)	intron (NM_145447, intron 1 of 9)	12486.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	6.5	9.0	10.5	103.0	11.5	4.5	2.5	8.0
Merged-chr5-36811708-4	chr5	36811671	36811871	+	744.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008550, intron 15 of 18)	PB1D7|SINE|Alu	-15017.0	NM_026242	67568.0	Mm.332336	NM_026242	ENSMUSG00000055302	Mrfap1	9130413I22Rik|AL022827|Pam14	Morf4 family associated protein 1	protein-coding	5.5	5.0	6.5	64.5	6.0	2.5	3.5	1.0
Merged-chr1-33814528-4	chr1	33814485	33814685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359275)	promoter-TSS (NM_001359275)	10.0	NM_133817	98403.0	Mm.289103	NM_133817	ENSMUSG00000042197	Zfp451	4930515K21Rik|4933435G09Rik|AI596398|COASTER|Kiaa0576-hp|Znf451|mKIAA1702	zinc finger protein 451	protein-coding	68.0	91.0	62.5	1292.5	192.5	82.0	107.5	82.5
Merged-chr16-10476102-4	chr16	10475975	10476175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3997.0	NM_001302619	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	22.0	52.0	24.0	499.5	75.5	26.0	36.5	24.0
Merged-chr13-113611797-2	chr13	113611697	113611897	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	6767.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	12.0	18.5	13.0	52.5	30.5	15.5	6.5	12.0
Merged-chr18-49500970-4	chr18	49500869	49501069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22320.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	34.5	37.0	34.0	556.5	56.5	23.0	44.0	35.0
Merged-chr8-75152837-4	chr8	75152713	75152913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43304.0	NM_008566	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	33.0	58.5	63.0	556.0	132.5	51.0	53.0	33.5
Merged-chr14-119007542-4	chr14	119007417	119007617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081252, intron 33 of 38)	ORR1D2|LTR|ERVL-MaLR	69585.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	262.5	343.0	232.5	4152.5	608.0	223.0	371.0	253.0
Merged-chr1-120527726-4	chr1	120527612	120527812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-22688.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	32.0	59.0	63.0	296.0	197.5	71.0	109.5	54.0
Merged-chr16-34700392-4	chr16	34700298	34700498	+	949.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172824, intron 5 of 12)	intron (NM_172824, intron 5 of 12)	9782.0	NM_172824	239839.0	Mm.272045	NM_172824	ENSMUSG00000022833	Ccdc14	G630039H03Rik	coiled-coil domain containing 14	protein-coding	11.5	19.5	16.0	229.5	21.0	7.0	17.0	17.0
Merged-chr2-25534389-2	chr2	25534289	25534489	+	834.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009422, intron 4 of 10)	intron (NM_009422, intron 4 of 10)	12551.0	NM_001290413	22030.0	Mm.3399	NM_009422	ENSMUSG00000026942	Traf2	AI325259	TNF receptor-associated factor 2	protein-coding	11.5	11.5	8.0	28.0	31.5	7.0	5.5	10.0
Merged-chr1-37998548-3	chr1	37998449	37998649	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	CpG	539.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	3.5	7.0	6.5	91.5	17.5	7.0	11.0	14.0
Merged-chr6-38866045-4	chr6	38865939	38866139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 1 of 14)	intron (NM_010433, intron 1 of 14)	10151.0	NM_010433	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	39.5	55.0	31.5	931.5	109.0	25.0	24.5	20.0
Merged-chr5-117138740-4	chr5	117138622	117138822	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	5134.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	15.0	10.5	12.0	490.0	33.0	6.0	22.5	20.0
Merged-chr16-18052845-4	chr16	18052730	18052930	+	818.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010047)	promoter-TSS (NM_010047)	-30.0	NM_010047	13353.0	Mm.27155	NM_010047	ENSMUSG00000003531	Dgcr6	-	DiGeorge syndrome critical region gene 6	protein-coding	10.5	16.5	10.0	133.5	26.0	10.5	17.5	7.0
Merged-chr3-59235601-4	chr3	59235501	59235701	+	649.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 19 of 43)	intron (NM_177855, intron 19 of 43)	-24719.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	6.5	11.5	8.5	194.0	27.5	7.0	7.5	12.5
Merged-chr12-69333697-4	chr12	69333579	69333779	+	897.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025441, intron 16 of 32)	B3|SINE|B2	23497.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	11.0	14.5	8.5	98.5	52.0	14.5	16.5	19.5
Merged-chr1-171270918-3	chr1	171270836	171271036	+	850.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020579, intron 1 of 7)	intron (NM_020579, intron 1 of 7)	608.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	6.5	5.0	4.5	74.5	14.5	3.0	1.5	3.0
Merged-chr7-99982449-3	chr7	99982349	99982549	+	978.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1991.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	12.0	19.5	28.5	255.0	23.5	8.0	8.0	9.0
Merged-chr4-59043191-3	chr4	59043070	59043270	+	703.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8014.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	9.5	8.0	7.0	102.0	13.0	2.0	3.5	1.0
Merged-chr3-88607597-4	chr3	88607504	88607704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8603.0	NM_001198911	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	49.5	98.5	57.0	771.5	156.0	75.5	74.0	38.0
Merged-chr3-27067348-2	chr3	27067248	27067448	+	947.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4a|LINE|L1	86506.0	NM_007900	13605.0	Mm.261453	NM_007900	ENSMUSG00000027699	Ect2	AI528536	ect2 oncogene	protein-coding	4.0	1.5	0.0	58.5	14.5	5.5	5.0	11.5
Merged-chr7-27220213-4	chr7	27220101	27220301	+	924.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181593, intron 1 of 6)	intron (NM_181593, intron 1 of 6)	8396.0	NM_181593	233011.0	Mm.30963	NM_181593	ENSMUSG00000003752	Itpkc	9130023N17Rik	inositol 1,4,5-trisphosphate 3-kinase C	protein-coding	9.0	17.0	18.5	147.0	62.5	15.0	21.0	15.5
Merged-chr6-83441709-4	chr6	83441619	83441819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183138)	promoter-TSS (NM_183138)	-36.0	NR_028382	320775.0	Mm.434334	NR_028382	ENSMUSG00000051844	B230319C09Rik	-	RIKEN cDNA B230319C09 gene	ncRNA	49.0	72.5	45.5	963.5	95.5	31.5	34.0	32.5
Merged-chr11-6200198-4	chr11	6200084	6200284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173748, exon 1 of 6)	5' UTR (NM_173748, exon 1 of 6)	267.0	NM_173748	209586.0	Mm.25321	NM_173748	ENSMUSG00000053838	Nudcd3	AI427847|BC024322|mKIAA1068	NudC domain containing 3	protein-coding	39.5	64.0	29.5	576.0	120.5	46.5	44.0	77.0
Merged-chr16-10976273-4	chr16	10976134	10976334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	16887.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	210.0	289.5	253.5	3057.0	451.0	178.0	239.0	172.0
Merged-chr2-180578922-4	chr2	180578839	180579039	+	805.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2283.0	NM_028479	73247.0	Mm.426558	NM_028479	ENSMUSG00000027569	Mrgbp	1600027N09Rik|AW060503|C80444	MRG/MORF4L binding protein	protein-coding	5.5	8.0	12.5	148.5	27.0	11.5	21.0	9.5
Merged-chr1-57970096-4	chr1	57970016	57970216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027630)	promoter-TSS (NR_027630)	-32.0	NM_001159865	51960.0	Mm.339711	NM_030211	ENSMUSG00000054770	Kctd18	4932411A20Rik|6530404F10Rik	potassium channel tetramerisation domain containing 18	protein-coding	126.5	169.0	128.0	1840.0	281.0	111.0	147.5	108.0
Merged-chr10-81221582-4	chr10	81221480	81221680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178662, intron 2 of 12)	intron (NM_178662, intron 2 of 12)	9199.0	NM_178662	16467.0	Mm.127681	NM_178662	ENSMUSG00000034958	Atcay	3322401A10Rik|BB077577|BNIP-H|CLAC|hes|ji	ataxia, cerebellar, Cayman type	protein-coding	47.0	49.0	17.0	596.5	97.0	26.0	56.0	29.5
Merged-chr12-57282181-3	chr12	57282067	57282267	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	intron (NM_001164370, intron 1 of 9)	51742.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	9.0	16.0	13.0	245.5	13.0	9.0	7.5	9.5
Merged-chr10-31313472-4	chr10	31313368	31313568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027168)	promoter-TSS (NM_027168)	63.0	NM_027168	69692.0	Mm.245537	NM_027168	ENSMUSG00000000295	Hddc2	2310057G13Rik	HD domain containing 2	protein-coding	128.5	174.5	227.0	1994.5	233.0	112.0	137.0	123.5
Merged-chr17-36271819-4	chr17	36271721	36271921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178281)	promoter-TSS (NM_178281)	183.0	NM_024468	79263.0	Mm.40624	NM_024468	ENSMUSG00000045409	Trim39	1100001D15Rik|E130103K13Rik|RBCC-B30.2|Rnf23|mKIAA4179|tfp	tripartite motif-containing 39	protein-coding	37.0	124.0	107.5	958.0	126.0	46.5	41.0	54.5
Merged-chr7-121034977-1	chr7	121034877	121035077	+	1000.0	f0_balb.idr	intron (NM_021554, intron 1 of 4)	CpG	532.0	NM_021554	59052.0	Mm.29122	NM_021554	ENSMUSG00000030876	Mettl9	0610012D09Rik|AA517660|Drev|MNCb-5680	methyltransferase like 9	protein-coding	16.0	19.0	25.0	232.5	46.0	27.0	12.0	30.5
Merged-chr6-94284792-3	chr6	94284693	94284893	+	850.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286784)	promoter-TSS (NM_001286784)	-876.0	NM_001286785	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	7.5	13.0	13.0	276.0	0.0	3.0	0.0	1.5
Merged-chr15-35150475-4	chr15	35150360	35150560	+	823.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357821, intron 1 of 11)	Lx7|LINE|L1	5346.0	NM_001357821	56274.0	Mm.262330	NM_019635	ENSMUSG00000022329	Stk3	0610042I06Rik|MST|Mst2|Mst3|Ste20|mess1	serine/threonine kinase 3	protein-coding	14.0	8.0	5.0	103.5	25.0	9.0	8.5	1.5
Merged-chr7-101060708-4	chr7	101060628	101060828	+	943.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-48047.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	15.5	21.5	29.5	298.0	34.5	8.5	17.0	15.5
Merged-chr16-21389286-4	chr16	21389180	21389380	+	935.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-33838.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	19.5	14.0	11.5	350.5	60.5	10.0	17.0	17.0
Merged-chr4-140700472-4	chr4	140700395	140700595	+	840.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173867)	promoter-TSS (NM_173867)	-978.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	9.5	8.0	10.0	142.5	36.5	10.5	12.5	10.0
Merged-chr15-34443358-4	chr15	34443267	34443467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028101)	promoter-TSS (NR_028101)	-91.0	NM_001163485	19946.0	Mm.358632	NM_009083	ENSMUSG00000058600	Rpl30	-	ribosomal protein L30	protein-coding	154.0	181.5	155.0	2287.5	325.0	98.5	194.5	140.0
Merged-chr10-62582422-4	chr10	62582320	62582520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019553, exon 15 of 15)	exon (NM_019553, exon 15 of 15)	-3963.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	43.5	90.0	46.5	456.0	91.0	44.0	62.5	52.0
Merged-chr14-22801542-4	chr14	22801445	22801645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-258747.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	90.0	177.0	121.0	2262.0	219.5	76.5	118.5	86.5
Merged-chr15-81564078-3	chr15	81563967	81564167	+	893.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22147.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	7.0	10.5	11.5	81.5	24.0	5.0	4.0	6.0
Merged-chr6-120112067-1	chr6	120111967	120112167	+	944.0	f0_c57.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	18687.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	12.5	26.0	17.0	119.5	33.0	12.0	6.5	1.0
Merged-chr8-69920462-4	chr8	69920382	69920582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 3 of 12)	intron (NM_001286450, intron 3 of 12)	-17924.0	NM_023312	67184.0	Mm.21162	NM_023312	ENSMUSG00000036199	Ndufa13	2700054G14Rik|AU022060|CDA016|CGI-39|GRIM-19|Grim19	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13	protein-coding	99.0	177.0	47.5	894.5	292.5	141.5	66.5	127.5
Merged-chr6-99096244-4	chr6	99096157	99096357	+	862.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053202, intron 4 of 18)	intron (NM_053202, intron 4 of 18)	-67959.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	24.5	15.0	16.5	309.5	21.5	5.5	18.0	12.0
Merged-chr2-30078153-4	chr2	30078036	30078236	+	851.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153805)	promoter-TSS (NM_153805)	-562.0	NM_153805	263803.0	Mm.233843	NM_153805	ENSMUSG00000026785	Pkn3	AW209115|BC034126	protein kinase N3	protein-coding	4.5	13.0	4.5	125.5	16.5	4.5	10.0	8.5
Merged-chr18-36454498-4	chr18	36454378	36454578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026027)	promoter-TSS (NM_026027)	17.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	26.5	47.0	25.0	438.5	68.0	35.0	21.0	26.5
Merged-chr16-36709014-3	chr16	36708914	36709114	+	981.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 2 of 7)	intron (NM_001285788, intron 2 of 7)	15036.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	10.0	20.0	4.5	177.0	26.5	9.5	5.5	8.5
Merged-chr18-74283065-4	chr18	74282933	74283133	+	839.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029424)	promoter-TSS (NR_029424)	-67.0	NM_028948	74453.0	Mm.182293	NM_028948	ENSMUSG00000035394	Cfap53	4933415I03Rik|Ccdc11	cilia and flagella associated protein 53	protein-coding	5.5	8.5	7.5	92.5	27.0	19.0	22.5	14.0
Merged-chr10-118815003-4	chr10	118814893	118815093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	53910.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	26.0	34.0	50.0	284.0	80.5	29.0	33.0	18.0
Merged-chr9-65569647-4	chr9	65569563	65569763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 2 of 5)	intron (NM_153119, intron 2 of 5)	10424.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	91.5	152.0	127.0	1762.0	250.0	98.5	118.5	112.0
Merged-chr7-81904361-4	chr7	81904277	81904477	+	944.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013886, intron 2 of 5)	MLT1J|LTR|ERVL-MaLR	30082.0	NM_013886	29877.0	Mm.392934	NM_013886	ENSMUSG00000025104	Hdgfl3	2700022B06Rik|HRP-3|Hdgfrp3	HDGF like 3	protein-coding	15.5	11.0	11.0	257.0	43.5	15.5	22.0	22.5
Merged-chr10-63031916-2	chr10	63031816	63032016	+	774.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026085, intron 1 of 9)	Lx6|LINE|L1	7404.0	NM_026085	67307.0	Mm.368563	NM_026085	ENSMUSG00000020072	Pbld2	3110049J23Rik|Mawbp	phenazine biosynthesis-like protein domain containing 2	protein-coding	7.0	9.0	3.0	23.0	17.5	4.5	5.0	6.5
Merged-chr1-6476666-2	chr1	6476566	6476766	+	773.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10565.0	NM_001244693	240690.0	Mm.234612	NM_173868	ENSMUSG00000033740	St18	AV348974|Myt3|NZF-3|Nzf3|mKIAA0535	suppression of tumorigenicity 18	protein-coding	3.5	7.5	0.5	12.0	37.5	7.5	6.5	6.0
Merged-chr1-87650715-4	chr1	87650661	87650861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	30449.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	77.5	83.0	65.5	1049.0	132.5	48.0	60.0	68.0
Merged-chr15-101772889-3	chr15	101772790	101772990	+	781.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9386.0	NR_033444	406222.0	Mm.359153	NM_001003669	ENSMUSG00000067596	Krt74	K74|Kb37	keratin 74	pseudo	7.0	10.0	7.5	123.0	15.5	7.0	7.0	6.5
Merged-chr7-24905136-4	chr7	24905057	24905257	+	856.854126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130152, intron 1 of 28)	intron (NM_001130152, intron 1 of 28)	811.0	NM_001130152	16801.0	Mm.3181	NM_008488	ENSMUSG00000040940	Arhgef1	Lbcl2|Lsc	Rho guanine nucleotide exchange factor (GEF) 1	protein-coding	13.0	8.5	17.0	128.5	29.0	12.0	19.0	5.5
Merged-chr13-8643529-3	chr13	8643403	8643603	+	988.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 3 of 10)	intron (NR_110345, intron 3 of 10)	227541.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	20.5	18.5	24.5	366.0	25.0	7.0	5.5	5.0
Merged-chr19-55850820-3	chr19	55850746	55850946	+	787.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-44475.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	5.5	4.5	8.5	61.5	11.0	2.0	3.5	8.5
Merged-chr2-38481963-4	chr2	38481860	38482060	+	851.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1C|DNA|hAT-Tip100	-29737.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	7.5	4.0	10.0	186.0	12.5	7.0	5.5	21.5
Merged-chr10-127602751-4	chr10	127602653	127602853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	18395.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	30.0	25.0	33.0	619.5	41.0	17.5	25.5	19.0
Merged-chr12-73304873-4	chr12	73304784	73304984	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037717, intron 3 of 15)	intron (NM_001037717, intron 3 of 15)	18036.0	NM_001037717	625098.0	Mm.32075	NM_001037717	ENSMUSG00000044712	Slc38a6	AW322671|EG625098	solute carrier family 38, member 6	protein-coding	15.0	42.0	31.0	415.5	68.5	18.0	32.5	18.0
Merged-chr7-88278990-4	chr7	88278880	88279080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 1 of 6)	intron (NM_009982, intron 1 of 6)	895.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	19.0	44.0	13.0	208.5	39.0	25.0	27.0	21.0
Merged-chr11-104467053-1	chr11	104466953	104467153	+	574.0	f0_balb.idr	intron (NM_001359634, intron 2 of 14)	intron (NM_001359634, intron 2 of 14)	1808.0	NM_001359634	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	6.0	9.0	5.5	68.5	1.0	0.0	0.0	0.5
Merged-chr19-12442734-4	chr19	12442637	12442837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	14832.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	127.5	171.5	102.5	1664.5	218.0	111.5	110.5	109.5
Merged-chr1-105663857-4	chr1	105663773	105663973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029349)	promoter-TSS (NM_029349)	12.0	NM_029349	227446.0	Mm.337339	NM_029349	ENSMUSG00000026319	2310035C23Rik	6430401N10|Kiaa1468|Relch|mKIAA1468	RIKEN cDNA 2310035C23 gene	protein-coding	130.5	202.0	107.5	1503.0	352.0	158.0	146.0	143.5
Merged-chr8-27023763-4	chr8	27023674	27023874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153592)	promoter-TSS (NM_153592)	-25.0	NM_153592	244373.0	Mm.277699	NM_153592	ENSMUSG00000031483	Erlin2	BC036333|C87251|Spfh2	ER lipid raft associated 2	protein-coding	154.0	298.0	130.0	2192.0	580.5	210.0	182.5	183.0
Merged-chr8-40294490-4	chr8	40294380	40294580	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7527.0	NM_030610	80857.0	Mm.425526	NM_030610	ENSMUSG00000031603	Fgf20	-	fibroblast growth factor 20	protein-coding	40.5	55.0	74.5	1124.5	23.5	8.0	14.0	25.5
Merged-chr7-45204590-4	chr7	45204496	45204696	+	973.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_201374, exon 1 of 20)	exon (NM_201374, exon 1 of 20)	296.0	NM_201374	384619.0	Mm.214931	NM_201374	ENSMUSG00000038292	Ccdc155	Gm1434|KASH5	coiled-coil domain containing 155	protein-coding	22.5	25.0	10.0	228.0	52.5	29.5	21.5	7.5
Merged-chr17-53569909-4	chr17	53569799	53569999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151733, intron 1 of 16)	intron (NR_151733, intron 1 of 16)	2928.0	NR_151733	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	35.0	52.5	23.5	466.0	84.0	20.0	41.0	55.0
Merged-chr19-6489226-3	chr19	6489135	6489335	+	862.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 12 of 22)	intron (NM_001205234, intron 12 of 22)	53835.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	6.0	10.0	2.5	86.5	8.0	9.5	7.0	5.5
Merged-chr11-69581532-4	chr11	69581450	69581650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127233, intron 1 of 10)	CpG	1191.0	NM_001127233	22059.0	Mm.222	NM_011640	ENSMUSG00000059552	Trp53	Tp53|bbl|bfy|bhy|p44|p53	transformation related protein 53	protein-coding	68.0	102.5	56.5	774.0	158.0	64.5	57.0	69.5
Merged-chr5-17821623-4	chr5	17821520	17821720	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159557, intron 4 of 15)	intron (NM_001159557, intron 4 of 15)	14276.0	NM_001159555	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	25.5	15.0	16.0	426.5	63.5	18.0	28.5	29.5
Merged-chr11-59778720-4	chr11	59778622	59778822	+	736.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_012027, exon 24 of 24)	3' UTR (NM_012027, exon 24 of 24)	8500.0	NR_110894	194908.0	Mm.344651	NM_183139	ENSMUSG00000043648	Pld6	4933433K01Rik|Gm10|Zuc|mZuc|mitoPLD	phospholipase D family, member 6	protein-coding	13.0	16.5	9.0	114.0	32.5	10.5	12.5	11.5
Merged-chr6-116632325-4	chr6	116632243	116632443	+	821.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178045)	TTS (NM_178045)	-3344.0	NM_026057	67255.0	Mm.18810	NM_026057	ENSMUSG00000059878	Zfp422	2900028O21Rik|AU041373|KOX15|Krox-25-2|Krox-26|Krox25|Krox26|Znf22	zinc finger protein 422	protein-coding	5.0	4.0	6.5	60.0	26.5	9.0	12.5	16.0
Merged-chr17-67246087-4	chr17	67246041	67246241	+	845.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	MER2|DNA|TcMar-Tigger	108318.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	5.0	3.0	7.5	99.0	41.0	9.0	4.5	9.0
Merged-chr8-84104973-4	chr8	84104879	84105079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357322)	promoter-TSS (NM_001357322)	-182.0	NM_172502	212123.0	Mm.260557	NM_172502	ENSMUSG00000037103	Dcaf15	6720484B16	DDB1 and CUL4 associated factor 15	protein-coding	241.5	425.5	202.0	3289.0	581.5	225.5	200.0	232.5
Merged-chr11-71159654-4	chr11	71159558	71159758	+	956.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040696, intron 12 of 14)	CT-rich|Low_complexity|Low_complexity	-14954.0	NM_001004142	195046.0	Mm.240227	NM_001004142	ENSMUSG00000069830	Nlrp1a	CARD7|DEFCAP|Gm14|Gm15|NAC|Nalp1|Nalp1a|Nlrp1|PP1044	NLR family, pyrin domain containing 1A	protein-coding	38.0	36.0	18.5	273.0	65.0	20.0	13.0	26.0
Merged-chr15-85091449-4	chr15	85091417	85091617	+	876.4226070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080470, intron 16 of 24)	intron (NM_080470, intron 16 of 24)	40440.0	NM_080470	140557.0	Mm.182737	NM_080470	ENSMUSG00000022432	Smc1b	SMC-1B|SMC1beta|Smc1l2	structural maintenance of chromosomes 1B	protein-coding	5.0	6.0	9.0	78.0	14.5	4.5	6.5	8.5
Merged-chr3-103020463-4	chr3	103020356	103020556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144901)	promoter-TSS (NM_144901)	-90.0	NM_001310693	229663.0	Mm.277713	NM_144901	ENSMUSG00000068823	Csde1	AA960392|BC016898|D3Jfr1|mKIAA0885|unr	cold shock domain containing E1, RNA binding	protein-coding	264.0	474.0	301.5	3765.5	736.0	299.5	320.5	258.0
Merged-chr12-119484144-4	chr12	119484030	119484230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40720.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	87.5	154.0	91.0	1696.5	372.0	154.5	111.0	123.0
Merged-chr19-6084986-4	chr19	6084868	6085068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026410)	promoter-TSS (NM_026410)	7.0	NM_001356994	81909.0	Mm.289471	NM_024231	ENSMUSG00000024792	Zfpl1	-	zinc finger like protein 1	protein-coding	59.5	113.0	47.5	747.5	192.0	93.5	65.5	78.5
Merged-chr8-23035456-4	chr8	23035371	23035571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277284, intron 1 of 42)	intron (NM_001277284, intron 1 of 42)	372.0	NM_001277284	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	4.0	7.0	14.0	226.5	46.0	30.5	21.5	29.5
Merged-chr17-73951154-4	chr17	73951036	73951236	+	920.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011723)	promoter-TSS (NM_011723)	-940.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	13.0	15.5	2.0	190.5	20.0	14.5	12.5	5.0
Merged-chr16-36602857-3	chr16	36602759	36602959	+	742.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40725.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	1.5	3.0	3.0	71.0	52.0	7.5	14.5	12.0
Merged-chr10-117829907-4	chr10	117829764	117829964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	16110.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	31.5	61.0	62.0	556.0	58.5	25.5	33.0	28.0
Merged-chr7-30205590-3	chr7	30205486	30205686	+	705.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ETnERV-int|LTR|ERVK	-10433.0	NM_009795	12336.0	Mm.439782	NM_009795	ENSMUSG00000001794	Capns1	Capa-4|Capa4|Capn4|Cdps|Css1|D7Ertd146e	calpain, small subunit 1	protein-coding	7.0	9.0	1.5	63.0	21.5	8.0	11.0	6.0
Merged-chr4-8598596-2	chr4	8598507	8598707	+	561.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_021518, intron 6 of 7)	intron (NM_021518, intron 6 of 7)	62963.0	NM_021518	59021.0	Mm.397471	NM_021518	ENSMUSG00000047187	Rab2a	9330148M11Rik|C80220|Rab2	RAB2A, member RAS oncogene family	protein-coding	12.0	4.5	4.0	103.5	14.5	5.0	5.0	6.0
Merged-chr1-39900771-4	chr1	39900671	39900871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252201)	promoter-TSS (NM_001252201)	-142.0	NM_001252202	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	38.5	86.5	59.0	944.5	154.0	62.0	73.0	63.5
Merged-chr16-16527411-4	chr16	16527306	16527506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301818)	promoter-TSS (NM_001301818)	5.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	49.0	89.5	59.0	904.5	145.5	21.0	80.0	42.5
Merged-chr11-46806994-4	chr11	46806882	46807082	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3817.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	19.0	43.0	24.5	330.0	41.5	19.5	20.5	15.5
Merged-chr12-84218427-4	chr12	84218306	84218506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	CpG	475.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	26.5	25.5	10.0	172.5	36.0	7.5	19.5	15.0
Merged-chr14-59341408-4	chr14	59341306	59341506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164327)	promoter-TSS (NM_001164327)	-76.0	NM_001164327	236451.0	Mm.247736	NM_001164327	ENSMUSG00000091649	Phf11b	EG236451|Gm4902	PHD finger protein 11B	protein-coding	58.5	90.0	60.0	751.5	192.0	40.0	73.0	79.0
Merged-chr10-120366391-6	chr10	120366442	120366642	+	821.930542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010441, intron 4 of 4)	intron (NM_010441, intron 4 of 4)	-22981.0	NR_040626	320626.0	Mm.446091	NR_040626	ENSMUSG00000090191	9230105E05Rik	-	RIKEN cDNA 9230105E05 gene	ncRNA	10.5	8.5	11.0	175.0	5.0	6.0	6.5	8.5
Merged-chr9-51076594-3	chr9	51076471	51076671	+	899.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033534, intron 1 of 7)	intron (NM_001033534, intron 1 of 7)	523.0	NM_001033534	244864.0	Mm.335152	NM_001033534	ENSMUSG00000060594	Layn	E030012M19Rik|Gm511	layilin	protein-coding	8.0	6.5	5.5	137.5	13.5	6.0	7.5	3.0
Merged-chr2-52539432-3	chr2	52539340	52539540	+	698.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	19171.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	5.0	7.5	15.0	188.5	18.0	0.5	3.5	1.0
Merged-chr6-97150424-4	chr6	97150311	97150511	+	794.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1528.0	NM_175313	101351.0	Mm.116802	NM_175313	ENSMUSG00000035245	Eogt	A130022J15Rik|AI447490|AW214473|AW259391|Aer61	EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase	protein-coding	2.0	11.5	3.0	87.0	16.0	12.0	6.5	12.5
Merged-chr2-18767209-4	chr2	18767123	18767323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6361.0	NR_126079	100041479.0	Mm.393659	NR_126079	ENSMUSG00000092353	Gm3363	-	predicted gene 3363	ncRNA	28.5	59.0	41.0	540.5	95.0	40.5	32.5	46.0
Merged-chr14-36868917-1	chr14	36868817	36869017	+	548.0	f1_balb.idr	Intergenic	Intergenic	50618.0	NM_001347503	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	7.0	5.0	4.5	112.0	17.0	5.5	3.5	2.0
Merged-chr11-69801097-3	chr11	69801019	69801219	+	854.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010198, intron 1 of 5)	CpG	597.0	NM_001291104	14166.0	Mm.269011	NM_010198	ENSMUSG00000042826	Fgf11	Fgf-11|Fhf-3|Fhf3	fibroblast growth factor 11	protein-coding	16.5	4.0	5.0	49.0	28.0	11.5	9.0	11.0
Merged-chr19-37370614-4	chr19	37370516	37370716	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-5787.0	NM_010615	16551.0	Mm.42203	NM_010615	ENSMUSG00000012443	Kif11	Eg5|Kif8|Kifl1|Knsl1	kinesin family member 11	protein-coding	18.0	33.5	19.5	265.5	84.5	15.0	15.5	22.0
Merged-chr4-62629680-4	chr4	62629563	62629763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 14 of 19)	intron (NM_019492, intron 14 of 19)	9991.0	NM_134257	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	60.5	73.0	57.0	1059.0	133.0	49.0	61.5	58.0
Merged-chr3-126693570-3	chr3	126693468	126693668	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 3 of 18)	intron (NM_001025438, intron 3 of 18)	96617.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	9.0	7.5	8.5	144.5	30.0	6.0	7.0	4.0
Merged-chr10-120227787-3	chr10	120227672	120227872	+	880.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025431, intron 1 of 2)	intron (NM_025431, intron 1 of 2)	712.0	NM_025431	66225.0	Mm.291755	NM_025431	ENSMUSG00000020224	Llph	1190005P17Rik	LLP homolog, long-term synaptic facilitation (Aplysia)	protein-coding	2.5	17.0	4.5	137.5	21.0	5.0	6.5	11.5
Merged-chr8-85025203-3	chr8	85025104	85025304	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357202)	promoter-TSS (NM_001357202)	83.0	NM_001357203	56495.0	Mm.41475	NM_019652	ENSMUSG00000052456	Asna1	1810048H22Rik|ArsA	arsA arsenite transporter, ATP-binding, homolog 1 (bacterial)	protein-coding	43.0	44.0	13.5	153.5	37.5	13.5	14.5	21.0
Merged-chr6-39430914-4	chr6	39430816	39431016	+	918.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	10538.0	NR_152168	621427.0	Mm.389742	NR_152168	ENSMUSG00000068601	Gm10244	Anmkrn1	predicted gene 10244	ncRNA	38.0	34.5	31.5	202.5	47.0	19.5	28.5	11.5
Merged-chr2-4620314-1	chr2	4620214	4620414	+	671.0	f0_c57.idr	Intergenic	Intergenic	31821.0	NM_026045	67229.0	Mm.38529	NM_026045	ENSMUSG00000039449	Prpf18	2810441A10Rik	pre-mRNA processing factor 18	protein-coding	6.0	7.0	0.0	32.5	28.5	9.0	11.0	5.0
Merged-chr14-40956677-4	chr14	40956585	40956785	+	988.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	-8476.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	41.0	26.5	50.5	749.5	39.5	20.5	20.5	20.0
Merged-chr5-99488810-4	chr5	99488744	99488944	+	883.074402	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	ORR1D2|LTR|ERVL-MaLR	-235917.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	12.0	15.5	6.0	210.0	28.5	10.0	4.0	13.5
Merged-chr9-70263459-2	chr9	70263359	70263559	+	655.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	56109.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	6.0	11.0	9.0	65.5	13.0	4.0	3.5	9.0
Merged-chr4-126556941-4	chr4	126556836	126557036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175554)	promoter-TSS (NM_175554)	-44.0	NM_175554	269582.0	Mm.243962	NM_175554	ENSMUSG00000042489	Clspn	B130025E01|C85083|E130314M08Rik	claspin	protein-coding	36.0	62.0	37.0	588.0	96.5	40.5	52.5	42.5
Merged-chr10-22286504-2	chr10	22286404	22286604	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177775, intron 4 of 5)	intron (NM_001177775, intron 4 of 5)	13030.0	NM_001177775	667281.0	Mm.484254	NM_001177775	ENSMUSG00000075297	H60b	EG667281	histocompatibility 60b	protein-coding	3.5	19.0	5.0	78.0	5.5	11.5	4.5	5.0
Merged-chr7-118468301-3	chr7	118468186	118468386	+	814.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20064.0	NM_001362179	110058.0	Mm.156558	NM_138649	ENSMUSG00000058420	Syt17	Bk|sytXVII	synaptotagmin XVII	protein-coding	2.0	0.0	2.0	9.0	46.0	22.0	12.0	17.0
Merged-chr12-85280392-4	chr12	85280301	85280501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025421)	promoter-TSS (NM_025421)	34.0	NM_025421	66204.0	Mm.311985	NM_025421	ENSMUSG00000008822	Acyp1	1110039O14Rik|AI325944	acylphosphatase 1, erythrocyte (common) type	protein-coding	239.5	456.0	173.0	2340.5	557.0	221.5	191.0	149.5
Merged-chr7-140112397-7	chr7	140112329	140112529	+	970.108826	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053119, exon 3 of 8)	exon (NM_053119, exon 3 of 8)	3994.0	NM_053119	93747.0	Mm.24452	NM_053119	ENSMUSG00000025465	Echs1	C80529	enoyl Coenzyme A hydratase, short chain, 1, mitochondrial	protein-coding	9.5	8.0	7.0	156.0	28.5	9.0	8.0	19.0
Merged-chr7-145090249-4	chr7	145090152	145090352	+	820.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117867.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	9.0	13.5	10.0	89.0	27.0	9.0	14.0	13.5
Merged-chr12-100609981-4	chr12	100609886	100610086	+	973.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 5 of 17)	intron (NM_153587, intron 5 of 17)	-89164.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	17.0	18.5	8.5	307.5	41.5	16.0	16.5	25.0
Merged-chr16-91538205-4	chr16	91538119	91538319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8875.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	32.0	40.0	52.0	749.5	175.0	56.0	79.5	94.5
Merged-chr13-67484225-4	chr13	67484140	67484340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001076791)	promoter-TSS (NM_001076791)	13.0	NM_001076791	408067.0	Mm.315879	NM_001076791	ENSMUSG00000059839	Zfp874b	9630025I21Rik|Rslcan16	zinc finger protein 874b	protein-coding	44.5	57.5	59.0	861.5	114.5	54.0	65.5	59.0
Merged-chr1-52766004-4	chr1	52765885	52766085	+	861.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38627.0	NM_001357464	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	18.0	20.0	18.5	112.5	32.5	11.5	8.0	9.5
Merged-chr7-141309363-4	chr7	141309289	141309489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016874, intron 10 of 11)	PB1D10|SINE|Alu	17383.0	NM_007878	13491.0	Mm.41075	NM_007878	ENSMUSG00000025496	Drd4	AW125663|D4R|Drd-4	dopamine receptor D4	protein-coding	29.5	63.5	53.5	702.5	103.0	50.0	47.5	51.0
Merged-chr19-55332834-3	chr19	55332725	55332925	+	800.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 3 of 8)	intron (NM_001360431, intron 3 of 8)	16768.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	11.5	18.0	8.0	204.5	41.0	8.5	6.5	2.0
Merged-chr6-89256179-3	chr6	89256063	89256263	+	918.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29562.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	10.5	15.5	10.0	161.0	25.0	3.5	8.0	9.0
Merged-chr9-113781075-4	chr9	113780997	113781197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 6 of 39)	Lx9|LINE|L1	-12233.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	39.0	50.0	30.0	659.0	121.0	27.5	29.0	29.5
Merged-chr7-19270235-2	chr7	19270135	19270335	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009499, intron 1 of 12)	intron (NM_009499, intron 1 of 12)	1619.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	23.0	46.5	14.0	138.0	99.0	30.5	35.0	28.5
Merged-chr5-105496837-3	chr5	105496740	105496940	+	940.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-22631.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	11.0	35.0	13.0	270.5	19.5	2.0	7.0	5.5
Merged-chr9-53390395-3	chr9	53390298	53390498	+	787.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212445, intron 2 of 7)	intron (NM_212445, intron 2 of 7)	6375.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	14.0	20.5	7.5	62.5	12.5	10.0	2.5	1.0
Merged-chr4-57957587-6	chr4	57957542	57957742	+	915.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1231.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	9.5	13.0	12.5	134.5	19.5	6.5	14.0	6.0
Merged-chr2-120425028-4	chr2	120424939	120425139	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172672, intron 6 of 23)	intron (NM_172672, intron 6 of 23)	-20923.0	NM_001110496	211499.0	Mm.260712	NM_173734	ENSMUSG00000033808	Tmem87a	A930025J12Rik	transmembrane protein 87A	protein-coding	24.0	41.5	23.5	328.0	58.0	14.0	25.0	32.5
Merged-chr14-66242472-1	chr14	66242372	66242572	+	781.0	f0_balb.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-28648.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	14.0	15.0	3.0	84.0	38.5	10.5	5.0	10.5
Merged-chr3-50382953-3	chr3	50382867	50383067	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 7 of 11)	intron (NM_011990, intron 7 of 11)	60646.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	38.5	43.0	29.5	495.0	8.5	1.0	8.5	10.0
Merged-chr6-115227694-3	chr6	115227576	115227776	+	764.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111015, intron 1 of 12)	intron (NM_001111015, intron 1 of 12)	-11318.0	NM_001326560	20965.0	Mm.441431	NM_013681	ENSMUSG00000009394	Syn2	2900074L19Rik|AI836018|AI841723	synapsin II	protein-coding	7.5	9.0	3.0	65.5	24.5	5.5	14.0	11.0
Merged-chr4-133130047-3	chr4	133129894	133130094	+	891.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153423)	promoter-TSS (NM_153423)	-639.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	9.0	15.0	11.0	44.0	13.5	7.0	1.5	10.5
Merged-chr12-39200101-3	chr12	39199989	39200189	+	725.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	416378.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	7.0	10.0	4.5	110.5	12.0	1.5	0.0	0.5
Merged-chr13-35783174-4	chr13	35783081	35783281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123386, intron 1 of 6)	intron (NM_001123386, intron 1 of 6)	41779.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	36.0	26.5	41.0	431.5	65.0	24.5	26.5	30.0
Merged-chr7-110266025-4	chr7	110265925	110266125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 5 of 11)	intron (NM_009302, intron 5 of 11)	44322.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	25.5	33.0	5.5	205.0	72.5	18.5	9.5	32.5
Merged-chr7-43614440-4	chr7	43614306	43614506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355131, intron 3 of 3)	intron (NM_001355131, intron 3 of 3)	7237.0	NM_028913	74400.0	Mm.159188	NM_028913	ENSMUSG00000055102	Zfp819	4930427I11Rik|4933405K07Rik	zinc finger protein 819	protein-coding	30.5	35.0	63.5	702.0	73.5	25.5	20.0	29.5
Merged-chr2-30124551-4	chr2	30124427	30124627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290503)	promoter-TSS (NM_001290503)	84.0	NM_178694	227693.0	Mm.44526	NM_178694	ENSMUSG00000039686	Zer1	C230075L19Rik|Zyg11bl	zyg-11 related, cell cycle regulator	protein-coding	64.0	64.0	53.5	821.5	168.0	60.0	70.5	66.5
Merged-chr7-127708849-4	chr7	127708738	127708938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009746)	promoter-TSS (NM_009746)	-72.0	NM_001347652	12055.0	Mm.89667	NM_009746	ENSMUSG00000030814	Bcl7c	C230096E12Rik	B cell CLL/lymphoma 7C	protein-coding	98.5	158.5	88.0	1149.0	237.5	112.5	115.5	54.5
Merged-chr14-46999870-4	chr14	46999766	46999966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	-1474.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	47.0	59.0	41.5	886.0	102.5	20.5	26.5	31.5
Merged-chr16-57424367-4	chr16	57424271	57424471	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	71094.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	18.0	20.5	33.5	448.0	81.5	18.0	32.0	30.5
Merged-chr3-97297955-4	chr3	97297855	97298055	+	846.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70591.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	6.5	9.0	1.5	150.5	21.5	7.5	7.5	13.0
Merged-chr1-5019415-4	chr1	5019310	5019510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290372)	promoter-TSS (NM_001290372)	129.0	NM_021374	58175.0	Mm.103771	NM_021374	ENSMUSG00000002459	Rgs20	2900073E09Rik|Rgsz1	regulator of G-protein signaling 20	protein-coding	42.5	51.5	41.0	943.0	104.5	30.5	61.5	40.5
Merged-chr17-43069055-3	chr17	43068959	43069159	+	891.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 4 of 5)	intron (NM_178589, intron 4 of 5)	52504.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	17.0	17.5	22.5	242.5	2.0	2.0	2.0	1.0
Merged-chr13-113591516-4	chr13	113591422	113591622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_130796)	TTS (NM_130796)	27042.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	157.5	184.5	241.0	2664.0	310.0	114.0	211.0	144.5
Merged-chr10-98881708-4	chr10	98881618	98881818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-32924.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	137.0	146.5	79.5	1774.0	205.5	70.0	73.0	97.0
Merged-chr2-78988408-3	chr2	78988315	78988515	+	666.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	118737.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	8.0	6.5	5.0	62.5	18.0	3.5	7.0	4.5
Merged-chr18-20651264-4	chr18	20651192	20651392	+	841.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155534, intron 1 of 2)	MTD|LTR|ERVL-MaLR	-13958.0	NM_013697	22139.0	Mm.2108	NM_013697	ENSMUSG00000061808	Ttr	AA408768|AI787086|D17860|prealbumin	transthyretin	protein-coding	2.5	24.5	11.0	140.0	21.0	5.5	8.0	13.0
Merged-chr17-79347436-4	chr17	79347350	79347550	+	672.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026514, intron 1 of 1)	intron (NM_026514, intron 1 of 1)	7641.0	NM_026514	260409.0	Mm.140601	NM_026514	ENSMUSG00000036533	Cdc42ep3	3200001F04Rik|AA986861|Borg2|Cep3|UB1	CDC42 effector protein (Rho GTPase binding) 3	protein-coding	2.0	11.5	7.0	262.0	31.5	9.5	9.5	13.5
Merged-chr2-148440051-4	chr2	148439954	148440154	+	909.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010740, exon 2 of 2)	3' UTR (NM_010740, exon 2 of 2)	3481.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	28.0	12.5	26.0	357.0	40.0	11.0	14.5	19.0
Merged-chr1-131038310-4	chr1	131038193	131038393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18448.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	53.0	71.5	36.5	376.0	139.5	70.0	54.0	44.5
Merged-chr18-50038539-4	chr18	50038447	50038647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360935, intron 1 of 1)	intron (NM_001360935, intron 1 of 1)	7563.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	30.5	40.0	35.5	601.5	81.0	22.0	40.5	26.5
Merged-chr5-115510020-10	chr5	115509835	115510035	+	905.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	3259.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	5.5	11.5	7.0	88.0	17.5	7.5	6.5	9.5
Merged-chr2-25557785-4	chr2	25557680	25557880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021519)	promoter-TSS (NM_021519)	-120.0	NM_021519	59022.0	Mm.29945	NM_021519	ENSMUSG00000015092	Edf1	0610008L11Rik|AA409425	endothelial differentiation-related factor 1	protein-coding	163.5	244.5	111.5	2429.0	369.0	168.0	180.0	148.0
Merged-chr17-16951475-4	chr17	16951384	16951584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112619.0	NM_001005358	449000.0	Mm.483718	NM_001005358	ENSMUSG00000096696	Zfp960	-	zinc finger protein 960	protein-coding	111.5	161.0	152.5	2040.5	301.0	143.0	200.5	161.5
Merged-chr7-143649599-4	chr7	143649449	143649649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023680, exon 1 of 7)	exon (NM_023680, exon 1 of 7)	115.0	NM_001311145	79202.0	Mm.261384	NM_023680	ENSMUSG00000010751	Tnfrsf22	2810028K06Rik|C130035G06Rik|SOBa|Tnfrh2|Tnfrsf1al2|mDcTrailr2	tumor necrosis factor receptor superfamily, member 22	protein-coding	26.0	34.5	23.0	390.5	59.5	18.0	22.0	21.0
Merged-chr8-85432440-2	chr8	85432340	85432540	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025722, intron 1 of 3)	CpG	401.0	NR_033144	66714.0	Mm.272748	NM_025722	ENSMUSG00000036934	4921524J17Rik	-	RIKEN cDNA 4921524J17 gene	protein-coding	11.0	7.5	7.0	51.5	8.0	4.0	5.0	6.5
Merged-chr2-164862614-4	chr2	164862505	164862705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4897.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	94.5	163.0	141.0	1617.5	263.0	87.0	112.0	110.0
Merged-chr16-46010472-4	chr16	46010358	46010558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134480)	promoter-TSS (NM_001134480)	-45.0	NM_001134480	433022.0	Mm.380993	NM_001134480	ENSMUSG00000087141	Plcxd2	AW494639|EG433022	phosphatidylinositol-specific phospholipase C, X domain containing 2	protein-coding	275.5	396.0	307.0	4632.0	623.5	247.0	353.5	268.0
Merged-chr4-86748517-4	chr4	86748410	86748610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_184088)	promoter-TSS (NM_184088)	-45.0	NM_184088	329877.0	Mm.273718	NM_184088	ENSMUSG00000038024	Dennd4c	1700065A05Rik|AA420392	DENN/MADD domain containing 4C	protein-coding	172.0	224.0	196.5	2517.5	395.5	161.5	209.5	155.5
Merged-chr19-8840618-4	chr19	8840555	8840755	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290823, intron 1 of 10)	intron (NM_001290823, intron 1 of 10)	152.0	NM_001290823	14705.0	Mm.345134	NM_008144	ENSMUSG00000071657	Bscl2	2900097C17Rik|AI046355|Gng3lg	Berardinelli-Seip congenital lipodystrophy 2 (seipin)	protein-coding	19.5	19.0	23.0	181.5	26.5	18.0	12.5	20.5
Merged-chr16-4586790-4	chr16	4586685	4586885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7928.0	NM_031184	83396.0	Mm.134072	NM_031184	ENSMUSG00000014303	Glis2	Gli5|Klf16|Nkl	GLIS family zinc finger 2	protein-coding	470.0	675.5	395.5	5581.5	892.5	371.0	475.0	314.5
Merged-chr11-74577224-3	chr11	74577122	74577322	+	889.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 1 of 24)	intron (NM_001015046, intron 1 of 24)	12936.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	17.0	18.5	28.0	184.5	16.0	14.0	1.5	2.0
Merged-chr9-99143109-4	chr9	99142986	99143186	+	907.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-2875.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	14.0	9.0	18.0	278.5	29.0	13.0	10.5	18.0
Merged-chr11-70667512-4	chr11	70667403	70667603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167669, intron 1 of 6)	intron (NM_001167669, intron 1 of 6)	1913.0	NM_172561	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	77.5	121.5	84.0	911.0	174.0	86.0	73.0	104.5
Merged-chr4-95051636-4	chr4	95051521	95051721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010591, exon 1 of 1)	5' UTR (NM_010591, exon 1 of 1)	601.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	85.0	141.0	107.0	1045.0	186.0	103.5	109.0	87.5
Merged-chr8-27264356-4	chr8	27264284	27264484	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007918, intron 1 of 2)	intron (NM_007918, intron 1 of 2)	4057.0	NM_007918	13685.0	Mm.6700	NM_007918	ENSMUSG00000031490	Eif4ebp1	4e-bp1|AA959816|PHAS-I	eukaryotic translation initiation factor 4E binding protein 1	protein-coding	10.0	19.0	21.0	171.5	49.0	27.0	20.0	16.0
Merged-chr4-138007173-4	chr4	138007126	138007326	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	B2_Mm2|SINE|B2	9401.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	9.5	13.0	6.5	155.0	22.0	7.0	13.5	12.5
Merged-chr7-118821424-4	chr7	118821331	118821531	+	849.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 26 of 30)	intron (NM_027815, intron 26 of 30)	34182.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	5.5	6.5	18.0	204.0	14.5	4.5	4.5	10.5
Merged-chr13-56421400-1	chr13	56421300	56421500	+	662.0	f0_balb.idr	Intergenic	L1MD1|LINE|L1	-16955.0	NM_177809	328258.0	Mm.482177	NM_177809	ENSMUSG00000021509	Slc25a48	AU042651|E230025K15	solute carrier family 25, member 48	protein-coding	10.0	13.0	6.0	145.5	5.0	0.0	0.0	2.5
Merged-chr2-127397919-4	chr2	127397827	127398027	+	939.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27272.0	NM_001081089	215456.0	Mm.440454	NM_001081089	ENSMUSG00000046338	Gpat2	A530057A03Rik|Gm116|xGPAT1	glycerol-3-phosphate acyltransferase 2, mitochondrial	protein-coding	13.5	17.0	10.0	254.5	32.5	10.5	22.5	25.5
Merged-chr5-90902728-1	chr5	90902628	90902828	+	602.0	f1_balb.idr	Intergenic	Intergenic	-1171.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	5.5	13.0	5.5	28.5	21.5	3.0	8.0	5.5
Merged-chr11-51689092-1	chr11	51688992	51689192	+	1000.0	f0_c57.idr	promoter-TSS (NM_025319)	promoter-TSS (NM_025319)	-458.0	NM_025319	66050.0	Mm.35693	NM_025319	ENSMUSG00000007777	0610009B22Rik	-	RIKEN cDNA 0610009B22 gene	protein-coding	49.0	76.0	39.5	743.5	144.5	67.0	55.5	54.0
Merged-chr16-95605519-3	chr16	95605430	95605630	+	819.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18937.0	NM_001302152	13876.0	Mm.164531	NM_133659	ENSMUSG00000040732	Erg	D030036I24Rik	ETS transcription factor	protein-coding	5.5	12.5	3.0	111.0	19.5	6.0	10.5	4.5
Merged-chr14-25780805-4	chr14	25780710	25780910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-11954.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	31.5	71.0	52.0	979.0	63.5	31.5	34.0	43.0
Merged-chr1-64929243-4	chr1	64929142	64929342	+	962.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	RMER1B|Other|Other	27582.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	18.5	19.5	16.0	191.5	39.0	9.0	26.5	19.0
Merged-chr13-52619695-4	chr13	52619636	52619836	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 3 of 13)	intron (NM_011518, intron 3 of 13)	22854.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	18.0	29.5	17.0	363.5	52.0	16.5	36.0	14.5
Merged-chr1-51477772-6	chr1	51477628	51477828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310549, intron 1 of 5)	intron (NM_001310549, intron 1 of 5)	671.0	NM_001310548	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	11.5	23.5	12.0	231.5	40.5	21.0	22.0	26.5
Merged-chr3-121548268-4	chr3	121548153	121548353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15909.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	62.0	149.0	76.5	1045.5	224.5	85.0	112.0	99.0
Merged-chr13-45002194-4	chr13	45002082	45002282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025772)	promoter-TSS (NM_025772)	-86.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	25.5	40.0	17.5	291.5	66.5	30.0	33.0	32.0
Merged-chr11-51289799-5	chr11	51289721	51289921	+	984.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153393)	promoter-TSS (NM_153393)	-99.0	NM_153393	237759.0	Mm.154093	NM_153393	ENSMUSG00000063564	Col23a1	2810458L13Rik|AI429655	collagen, type XXIII, alpha 1	protein-coding	16.0	30.0	27.5	235.0	14.5	12.0	9.5	16.0
Merged-chr17-36266066-4	chr17	36265953	36266153	+	918.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357889, intron 3 of 4)	ORR1E|LTR|ERVL-MaLR	5378.0	NM_001357889	79263.0	Mm.40624	NM_024468	ENSMUSG00000045409	Trim39	1100001D15Rik|E130103K13Rik|RBCC-B30.2|Rnf23|mKIAA4179|tfp	tripartite motif-containing 39	protein-coding	11.0	8.5	8.0	143.0	51.0	30.5	17.5	10.5
Merged-chr6-135198049-4	chr6	135197949	135198149	+	972.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028982)	promoter-TSS (NM_028982)	-51.0	NM_001362111	74525.0	Mm.34182	NM_028982	ENSMUSG00000030207	Fam234b	8430419L09Rik|mKIAA1467	family with sequence similarity 234, member B	protein-coding	23.5	24.5	7.0	373.0	49.0	23.0	32.0	29.5
Merged-chr6-137756522-4	chr6	137756420	137756620	+	752.637512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172733, intron 1 of 8)	B3|SINE|B2	1943.0	NM_172733	232449.0	Mm.29181	NM_172733	ENSMUSG00000030225	Dera	2010002D22Rik|2500002K03Rik|DEOC	deoxyribose-phosphate aldolase (putative)	protein-coding	17.0	14.0	11.5	177.5	39.5	11.5	14.5	27.5
Merged-chr16-91849083-4	chr16	91848994	91849194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 20 of 28)	intron (NM_001110275, intron 20 of 28)	82536.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	133.5	263.0	181.5	2178.0	329.0	152.5	203.0	178.5
Merged-chr14-103907983-2	chr14	103907883	103908083	+	662.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63507.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	6.5	7.0	10.0	64.0	17.5	4.5	1.5	2.0
Merged-chr5-92444980-2	chr5	92444880	92445080	+	792.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 11 of 11)	intron (NM_007644, intron 11 of 11)	-9781.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	0.5	1.0	5.5	32.0	10.5	4.5	5.5	8.0
Merged-chr4-95850411-6	chr4	95850286	95850486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	intron (NM_001113412, intron 14 of 15)	116649.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	32.5	24.5	41.0	383.5	73.0	34.0	40.5	34.5
Merged-chr13-23718075-4	chr13	23717975	23718175	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7221.0	NM_010424	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	11.0	4.5	7.5	211.5	19.5	7.0	25.0	16.5
Merged-chr1-121431087-4	chr1	121430986	121431186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025156)	promoter-TSS (NM_001025156)	19.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	165.5	240.5	107.5	2488.0	343.5	150.0	157.0	138.5
Merged-chr10-86827164-4	chr10	86827056	86827256	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175331, intron 12 of 13)	MIRb|SINE|MIR	48151.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	14.5	9.0	22.0	264.0	19.5	8.5	6.5	14.0
Merged-chr8-75083995-4	chr8	75083900	75084100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9618.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	201.5	325.5	236.0	2896.5	515.5	180.5	182.5	172.0
Merged-chr15-96936964-4	chr15	96936879	96937079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83380.0	NM_001358060	69354.0	Mm.250980	NM_027052	ENSMUSG00000022464	Slc38a4	1110012E16Rik|1700012A18Rik|Ata3|mATA3|mNAT3	solute carrier family 38, member 4	protein-coding	33.5	42.5	20.0	445.0	112.5	17.5	23.5	40.5
Merged-chr2-52998110-4	chr2	52998021	52998221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	140253.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	148.5	244.5	148.5	1415.5	267.0	133.0	124.0	80.0
Merged-chr15-57706272-4	chr15	57706141	57706341	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	intron (NM_199449, intron 1 of 3)	11574.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	28.5	27.5	17.5	411.5	44.0	21.5	20.0	14.5
Merged-chr5-16554540-3	chr5	16554428	16554628	+	866.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289458, intron 2 of 18)	intron (NM_001289458, intron 2 of 18)	627.0	NM_001289461	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	8.0	6.5	8.5	134.0	10.5	9.0	9.0	8.5
Merged-chr12-69159722-4	chr12	69159634	69159834	+	982.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009093)	promoter-TSS (NM_009093)	-548.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	28.0	32.0	25.0	340.0	84.5	35.0	18.0	45.5
Merged-chr4-53441324-4	chr4	53441221	53441421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133891, intron 1 of 15)	intron (NM_133891, intron 1 of 15)	908.0	NM_133891	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	17.0	41.0	30.5	226.0	38.0	22.0	20.0	26.0
Merged-chr1-166002817-4	chr1	166002701	166002901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011137)	promoter-TSS (NM_011137)	-167.0	NM_198932	18986.0	Mm.245261	NM_011137	ENSMUSG00000026565	Pou2f1	2810482H01Rik|NF-A1|Oct-1|Oct1|Otf-1|Otf1	POU domain, class 2, transcription factor 1	protein-coding	244.0	391.5	288.5	3411.5	886.5	344.5	407.0	288.5
Merged-chr17-15829650-3	chr17	15829566	15829766	+	711.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3080.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	7.0	5.5	13.5	71.0	11.0	5.5	3.0	7.5
Merged-chr5-53588619-4	chr5	53588513	53588713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080928, intron 1 of 10)	intron (NM_001080928, intron 1 of 10)	-1733.0	NM_009035	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	56.0	84.5	46.0	704.5	109.0	53.0	45.0	46.0
Merged-chr2-69898303-9	chr2	69898104	69898304	+	999.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177783, intron 1 of 38)	intron (NM_177783, intron 1 of 38)	958.0	NM_177783	68795.0	Mm.314576	NM_177783	ENSMUSG00000044308	Ubr3	1110059H15Rik|4833421P10Rik|A130030D10Rik|AA409735|AA414972|AA422631|AI646861|AU016126|Zfp650|Znf650	ubiquitin protein ligase E3 component n-recognin 3	protein-coding	14.5	7.5	18.0	160.0	19.5	10.5	15.5	11.5
Merged-chr4-55817251-4	chr4	55817161	55817361	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-284786.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	13.5	24.0	20.0	396.5	42.0	21.0	22.5	18.0
Merged-chr6-48699126-4	chr6	48699050	48699250	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9094.0	NM_153175	231931.0	Mm.321047	NM_153175	ENSMUSG00000047867	Gimap6	4833419H03Rik|Ian6|mFLJ00102	GTPase, IMAP family member 6	protein-coding	12.0	34.5	43.5	380.0	44.5	17.0	20.5	24.5
Merged-chr3-83798015-4	chr3	83797916	83798116	+	951.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31695.0	NM_009144	20319.0	Mm.19155	NM_009144	ENSMUSG00000027996	Sfrp2	AI851596|Sdf5	secreted frizzled-related protein 2	protein-coding	24.0	25.0	19.0	339.0	24.5	23.5	25.5	18.5
Merged-chr7-12834986-10	chr7	12834910	12835110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360576, exon 1 of 8)	5' UTR (NM_001360576, exon 1 of 8)	249.0	NM_001360576	65020.0	Mm.292297	NM_022981	ENSMUSG00000058638	Zfp110	2900024E01Rik|N28112|NRIF|Nrif1	zinc finger protein 110	protein-coding	56.5	52.5	50.5	556.0	145.5	59.0	105.5	59.5
Merged-chr1-185224383-3	chr1	185224286	185224486	+	817.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 2 of 34)	L1M4|LINE|L1	-18540.0	NR_034044	100217449.0	Mm.429560	NR_034044	ENSMUSG00000077571	Snora36b	MBI-87	small nucleolar RNA, H/ACA box 36B	snoRNA	12.5	12.5	5.0	150.0	17.0	3.5	8.0	5.5
Merged-chr3-100685685-8	chr3	100685560	100685760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010763)	promoter-TSS (NM_010763)	-187.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	54.5	65.5	67.0	579.0	82.0	37.5	39.5	38.0
Merged-chr2-160619463-4	chr2	160619366	160619566	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-26431.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	7.0	19.5	12.5	111.0	17.0	0.5	12.0	19.0
Merged-chr11-103982438-4	chr11	103982315	103982515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007477, intron 4 of 4)	intron (NM_007477, intron 4 of 4)	15544.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	25.0	24.5	34.0	673.0	87.5	24.0	23.5	30.5
Merged-chr3-51328667-4	chr3	51328565	51328765	+	908.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	intron (NM_023502, intron 1 of 9)	11979.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	8.0	5.0	13.5	192.0	27.0	6.5	18.0	14.0
Merged-chr3-145576235-4	chr3	145576128	145576328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346521)	promoter-TSS (NM_001346521)	12.0	NM_001346521	229937.0	Mm.24586	NM_001081094	ENSMUSG00000074182	Znhit6	2410019A14Rik	zinc finger, HIT type 6	protein-coding	76.0	86.5	63.5	725.0	124.0	47.0	68.5	56.5
Merged-chr7-126200481-4	chr7	126200399	126200599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311143)	promoter-TSS (NM_001311143)	2.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	104.5	139.5	59.5	1275.0	342.0	121.0	124.0	86.0
Merged-chr3-96500489-4	chr3	96500374	96500574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24711.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	35.5	79.5	23.5	574.5	181.5	59.0	47.5	90.5
Merged-chr14-62243424-4	chr14	62243342	62243542	+	874.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49537.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	15.0	23.5	22.0	236.5	25.5	4.0	18.0	12.5
Merged-chr15-103274827-6	chr15	103274763	103274963	+	889.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019817, intron 1 of 8)	intron (NM_019817, intron 1 of 8)	1975.0	NM_001357748	56447.0	Mm.29473	NM_019817	ENSMUSG00000060992	Copz1	5930435A22Rik|AA407760|D4Ertd360e	coatomer protein complex, subunit zeta 1	protein-coding	6.5	11.5	9.5	134.5	16.0	9.0	12.0	13.5
Merged-chr2-79370826-4	chr2	79370724	79370924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048176, intron 2 of 12)	intron (NM_001048176, intron 2 of 12)	58164.0	NM_001048176	228094.0	Mm.440704	NM_001033295	ENSMUSG00000075256	Cerkl	Gm1958|Rp26	ceramide kinase-like	protein-coding	37.0	40.5	50.5	828.0	98.5	35.0	42.5	45.5
Merged-chr16-4743420-4	chr16	4743313	4743513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010443, intron 1 of 5)	IAPLTR1a_Mm|LTR|ERVK	1800.0	NM_010443	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	42.5	31.5	28.5	454.5	87.5	22.5	26.5	33.5
Merged-chr5-139252613-4	chr5	139252523	139252723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163316)	promoter-TSS (NM_001163316)	299.0	NM_026269	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	74.5	101.5	89.0	974.0	143.0	76.0	76.0	51.5
Merged-chr17-65765161-4	chr17	65765054	65765254	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	Lx5|LINE|L1	7598.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	31.5	21.0	20.5	302.5	73.5	15.0	31.0	27.5
Merged-chr12-105962827-4	chr12	105962732	105962932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-47431.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	34.0	32.0	23.5	418.0	116.0	29.0	52.0	65.5
Merged-chr11-114931264-4	chr11	114931172	114931372	+	982.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199221, intron 1 of 3)	intron (NM_199221, intron 1 of 3)	3114.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	56.5	52.0	29.0	469.5	68.0	18.0	40.5	35.5
Merged-chr4-134511013-4	chr4	134510916	134511116	+	978.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081099)	promoter-TSS (NM_001081099)	17.0	NM_001081099	69885.0	Mm.141592	NM_001081099	ENSMUSG00000078521	Aunip	2610002D18Rik|Clhc1	aurora kinase A and ninein interacting protein	protein-coding	31.5	29.0	9.5	289.5	99.0	31.0	40.0	51.5
Merged-chr3-142263900-3	chr3	142263793	142263993	+	597.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 8 of 12)	MTB_Mm|LTR|ERVL-MaLR	-94468.0	NM_001277216	12167.0	Mm.39089	NM_007560	ENSMUSG00000052430	Bmpr1b	AI385617|ALK-6|AV355320|Acvrlk6|Alk6|BMPR-1B|BMPR-IB|CFK-43a|SKR6	bone morphogenetic protein receptor, type 1B	protein-coding	0.0	0.0	9.5	16.0	15.0	9.5	13.0	11.0
Merged-chr17-27954797-3	chr17	27954711	27954911	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	45505.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	16.5	20.0	32.5	292.0	13.5	8.0	9.5	3.0
Merged-chr6-38712028-2	chr6	38711928	38712128	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 12 of 14)	intron (NM_010433, intron 12 of 14)	48959.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	15.0	59.5	8.5	204.0	60.0	32.5	12.0	9.5
Merged-chr10-53379877-4	chr10	53379776	53379976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204983)	promoter-TSS (NM_001204983)	-25.0	NM_001204983	100038725.0	Mm.441403	NM_001204983	ENSMUSG00000038594	Cep85l	Gm9766	centrosomal protein 85-like	protein-coding	111.5	143.0	126.5	2009.5	285.5	85.5	162.0	95.0
Merged-chr4-102944518-3	chr4	102944408	102944608	+	969.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285859, intron 17 of 23)	intron (NM_001285859, intron 17 of 23)	-41871.0	NM_001163767	67344.0	Mm.111346	NM_026100	ENSMUSG00000028523	Tctex1d1	1700055O19Rik	Tctex1 domain containing 1	protein-coding	7.5	13.0	17.5	310.5	21.5	3.5	5.5	8.0
Merged-chr19-61265084-1	chr19	61264984	61265184	+	850.0	f1_balb.idr	Intergenic	B1_Mur3|SINE|Alu	-36666.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	7.0	5.0	4.5	85.5	9.5	2.5	4.0	2.0
Merged-chr13-43864655-4	chr13	43864563	43864763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	79551.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	187.5	353.0	197.5	3180.5	478.0	207.5	211.0	165.0
Merged-chr9-65075335-4	chr9	65075233	65075433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028906, intron 17 of 20)	intron (NM_028906, intron 17 of 20)	-26153.0	NM_020043	56741.0	Mm.209041	NM_020043	ENSMUSG00000032816	Igdcc4	DDM36|Nope	immunoglobulin superfamily, DCC subclass, member 4	protein-coding	31.5	56.0	44.0	707.5	143.0	23.0	31.0	45.0
Merged-chr17-35094933-3	chr17	35094832	35095032	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178592, intron 5 of 19)	MIR|SINE|MIR	5641.0	NM_178592	193742.0	Mm.43745	NM_178592	ENSMUSG00000007036	Abhd16a	AI326074|Bat-5|Bat5|D17H6S82E|NG26	abhydrolase domain containing 16A	protein-coding	8.0	7.5	2.0	134.0	42.5	8.5	6.5	4.5
Merged-chr3-94841629-1	chr3	94841529	94841729	+	542.0	f0_balb.idr	intron (NM_001165948, intron 1 of 18)	intron (NM_001165948, intron 1 of 18)	4062.0	NM_172683	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	5.0	5.0	7.0	72.0	13.5	0.5	2.0	12.0
Merged-chr16-49791172-4	chr16	49791070	49791270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64484.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	97.5	170.0	97.5	591.5	193.0	58.0	65.0	27.0
Merged-chr3-53491903-2	chr3	53491803	53492003	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153156, intron 1 of 6)	B3|SINE|B2	3110.0	NM_153156	229277.0	Mm.222810	NM_153156	ENSMUSG00000027744	Stoml3	Epb7.2l|SLP3|sro	stomatin (Epb7.2)-like 3	protein-coding	6.5	4.0	3.5	73.0	11.5	7.0	7.0	12.0
Merged-chr13-21717612-4	chr13	21717542	21717742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178206)	promoter-TSS (NM_178206)	14.0	NM_178206	319152.0	Mm.377874	NM_178206	ENSMUSG00000101355	Hist1h3h	H3-291	histone cluster 1, H3h	protein-coding	47.5	53.0	48.5	427.5	53.0	35.0	18.0	45.5
Merged-chr2-158794735-4	chr2	158794633	158794833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291144)	promoter-TSS (NM_001291144)	-74.0	NM_145742	71715.0	Mm.315652	NM_145742	ENSMUSG00000027655	Dhx35	1200009D07Rik|Ddx35	DEAH (Asp-Glu-Ala-His) box polypeptide 35	protein-coding	149.0	213.0	167.5	2254.5	374.0	164.5	177.5	152.5
Merged-chr12-24780795-1	chr12	24780695	24780895	+	959.0	f0_balb.idr	Intergenic	Intergenic	-50804.0	NM_026037	67216.0	Mm.167671	NM_026037	ENSMUSG00000020646	Mboat2	2810049G06Rik|AU022889|AW547221|LPCAT4|Moact2|Oact2	membrane bound O-acyltransferase domain containing 2	protein-coding	7.5	6.0	10.0	187.5	1.0	1.0	2.0	6.0
Merged-chr4-45472250-4	chr4	45472159	45472359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 2 of 5)	intron (NM_001033306, intron 2 of 5)	58569.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	90.0	85.0	170.5	2472.0	126.0	36.0	53.5	84.0
Merged-chr3-152928802-3	chr3	152928692	152928892	+	937.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	53415.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	0.0	0.5	0.0	16.5	21.0	19.0	21.5	17.0
Merged-chr4-72199145-4	chr4	72199065	72199265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285530, intron 2 of 17)	intron (NM_001285530, intron 2 of 17)	1728.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	106.5	153.5	105.5	1866.5	284.5	127.0	168.0	117.0
Merged-chr19-53653923-4	chr19	53653816	53654016	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23390.0	NM_001170847	73713.0	Mm.313695	NM_001170847	ENSMUSG00000043639	Rbm20	1110018J23Rik|2010003H22Rik|AI646761	RNA binding motif protein 20	protein-coding	32.0	38.0	15.5	277.0	52.5	26.5	26.5	32.0
Merged-chr18-14812402-3	chr18	14812300	14812500	+	614.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100449, intron 6 of 14)	CT-rich|Low_complexity|Low_complexity	29155.0	NM_001100449	72504.0	Mm.312233	NM_001100449	ENSMUSG00000054321	Taf4b	105kDa|2610524B04Rik|4932409F03Rik|AW987595|TAFII-105|TAFII105|Taf2c2	TATA-box binding protein associated factor 4b	protein-coding	10.0	9.0	5.5	107.0	23.0	4.5	8.0	3.0
Merged-chr5-135575667-3	chr5	135575564	135575764	+	966.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2615.0	NM_001356630	56221.0	Mm.31505	NM_019577	ENSMUSG00000004814	Ccl24	CKb-6|MPIF-2|Scya24	chemokine (C-C motif) ligand 24	protein-coding	15.5	17.5	17.0	150.0	23.0	13.5	6.5	3.0
Merged-chr14-103826131-4	chr14	103826035	103826235	+	886.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276296, intron 1 of 7)	intron (NM_001276296, intron 1 of 7)	17566.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	13.0	11.5	15.0	206.5	33.5	6.0	23.5	10.0
Merged-chr6-129436237-4	chr6	129436150	129436350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175526, intron 2 of 5)	intron (NM_175526, intron 2 of 5)	15750.0	NM_001347475	243653.0	Mm.131289	NM_175526	ENSMUSG00000033082	Clec1a	5930406N14Rik	C-type lectin domain family 1, member a	protein-coding	97.0	133.0	100.0	1060.5	168.0	86.0	104.5	92.0
Merged-chr2-113433984-4	chr2	113433885	113434085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010230, intron 3 of 19)	MTD|LTR|ERVL-MaLR	-7079.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	40.0	50.5	37.5	978.5	82.0	27.5	40.0	41.0
Merged-chr3-116662656-4	chr3	116662556	116662756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008246)	promoter-TSS (NM_008246)	21.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	208.0	266.5	153.0	2848.0	462.5	185.0	249.0	162.5
Merged-chr3-116642121-4	chr3	116641992	116642192	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008246, intron 5 of 11)	intron (NM_008246, intron 5 of 11)	20585.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	26.5	23.5	25.5	531.0	36.0	11.0	24.0	29.0
Merged-chr15-78332917-2	chr15	78332817	78333017	+	829.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358854, intron 2 of 14)	(TTTTTG)n|Simple_repeat|Simple_repeat	6927.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	4.5	5.5	10.5	42.5	18.5	2.5	4.5	5.0
Merged-chr2-93046225-4	chr2	93046163	93046363	+	828.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177536)	promoter-TSS (NM_001177536)	-119.0	NM_001177536	100042784.0	Mm.102816	NM_001177536	ENSMUSG00000075028	Prdm11	8030443D09Rik|AA163972|Gm707	PR domain containing 11	protein-coding	15.5	17.5	9.5	221.5	32.5	11.0	8.5	19.0
Merged-chr14-44091724-4	chr14	44091610	44091810	+	987.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-10944.0	NM_007895	13587.0	Mm.327386	NM_007895	ENSMUSG00000072596	Ear2	EAR-13|EAR-2|ECP|ECP 2|Raf3|Rnase2	eosinophil-associated, ribonuclease A family, member 2	protein-coding	50.5	71.5	90.0	314.5	82.5	40.5	58.0	45.0
Merged-chr13-74390894-4	chr13	74390794	74390994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14328.0	NM_001081680	238722.0	Mm.461254	NM_001081680	ENSMUSG00000069184	Zfp72	Zfp74	zinc finger protein 72	protein-coding	41.5	58.5	57.0	888.0	141.5	62.0	59.0	71.5
Merged-chr12-119398417-4	chr12	119398314	119398514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44996.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	81.0	166.5	128.0	1209.0	255.5	113.5	100.5	86.5
Merged-chr7-129575954-4	chr7	129575826	129576026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15937.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	29.5	62.5	58.5	946.5	149.0	35.5	39.5	57.0
Merged-chr1-177623626-4	chr1	177623517	177623717	+	797.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19326.0	NR_037994	75589.0	Mm.86666	NR_037994	ENSMUSG00000101746	2310043L19Rik	-	RIKEN cDNA 2310043L19 gene	ncRNA	12.0	7.0	18.5	85.5	27.0	3.5	10.0	12.5
Merged-chr2-30416128-4	chr2	30416035	30416235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007760)	promoter-TSS (NM_007760)	85.0	NM_138748	110854.0	Mm.275393	NM_138748	ENSMUSG00000039515	Ptpa	2610042B21Rik|C77440|N28142|PR53|Ppp2r4	protein phosphatase 2 protein activator	protein-coding	40.0	73.0	20.0	411.5	83.0	32.0	33.0	38.5
Merged-chr17-69143227-4	chr17	69143137	69143337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	-13507.0	NM_013813	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	60.5	57.5	119.5	1686.0	171.5	44.0	82.0	101.5
Merged-chr1-130715885-5	chr1	130715800	130716000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027859)	promoter-TSS (NR_027859)	-79.0	NR_027859	18640.0	Mm.249861	NM_008825	ENSMUSG00000026409	Pfkfb2	4930568D07Rik	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2	protein-coding	52.5	81.0	52.5	696.0	111.5	49.5	55.0	77.0
Merged-chr12-31917517-4	chr12	31917428	31917628	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163126, intron 19 of 22)	intron (NM_001163126, intron 19 of 22)	32717.0	NM_177993	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	11.0	10.5	25.5	201.0	23.5	18.5	17.0	29.0
Merged-chr7-107047771-4	chr7	107047704	107047904	+	873.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11668.0	NM_147034	259036.0	Mm.377801	NM_147034	ENSMUSG00000073898	Olfr713	MOR263-1|P3	olfactory receptor 713	protein-coding	7.0	3.0	22.0	233.0	17.5	11.5	8.5	14.5
Merged-chr19-9924763-4	chr19	9924651	9924851	+	789.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25218.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	10.5	13.0	13.0	203.0	20.5	7.0	11.0	15.5
Merged-chr1-131294177-4	chr1	131294096	131294296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 21 of 22)	intron (NM_001081011, intron 21 of 22)	-14633.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	31.5	43.0	56.0	641.5	59.5	27.0	44.5	33.5
Merged-chr17-25785416-4	chr17	25785323	25785523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026897)	promoter-TSS (NM_026897)	-85.0	NM_026897	68977.0	Mm.29230	NM_026897	ENSMUSG00000061046	Haghl	1500017E18Rik|2810014I23Rik|C330022E15Rik	hydroxyacylglutathione hydrolase-like	protein-coding	46.5	58.0	55.5	527.0	89.0	55.5	33.5	47.0
Merged-chr10-86920807-4	chr10	86920705	86920905	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 30 of 68)	intron (NM_138673, intron 30 of 68)	87137.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	21.0	51.5	38.5	474.0	36.0	18.0	22.0	18.5
Merged-chr18-80468125-4	chr18	80468019	80468219	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 1 of 12)	intron (NM_026295, intron 1 of 12)	1548.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	25.5	19.0	20.0	418.5	48.0	16.5	19.0	26.0
Merged-chr8-84662393-4	chr8	84662283	84662483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010499, exon 1 of 1)	exon (NM_010499, exon 1 of 1)	469.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	55.5	151.0	49.5	402.5	210.0	106.5	90.5	84.0
Merged-chr5-62843028-4	chr5	62842964	62843164	+	900.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001170705, exon 6 of 9)	exon (NM_001170705, exon 6 of 9)	29241.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	14.0	5.0	21.5	137.5	37.0	5.0	5.5	8.0
Merged-chr10-78135244-4	chr10	78135125	78135325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34543.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	61.5	184.0	75.5	432.5	259.5	88.5	60.0	46.0
Merged-chr11-53430433-4	chr11	53430354	53430554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025352, intron 1 of 1)	intron (NM_025352, intron 1 of 1)	377.0	NM_025352	22272.0	Mm.251621	NM_025352	ENSMUSG00000044894	Uqcrq	1100001F06Rik|1500040F11Rik|5830407L17Rik|9.5kDa|AA959903|QP-C|Qpc|Uqcrb|c1502	ubiquinol-cytochrome c reductase, complex III subunit VII	protein-coding	24.0	55.0	34.5	380.0	102.5	30.0	36.0	41.0
Merged-chr14-72532803-3	chr14	72532677	72532877	+	707.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	177226.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	7.5	9.5	7.5	28.5	9.0	4.0	2.5	4.5
Merged-chr3-59235029-3	chr3	59234938	59235138	+	765.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 18 of 43)	intron (NM_177855, intron 18 of 43)	-24156.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	8.0	11.5	6.0	176.0	19.0	2.0	3.5	4.0
Merged-chr13-23369241-4	chr13	23369100	23369300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172586)	promoter-TSS (NM_172586)	8.0	NM_001286156	218100.0	Mm.286454	NM_172586	ENSMUSG00000046351	Zfp322a	Znf322|Znf322a	zinc finger protein 322A	protein-coding	119.0	161.0	156.0	1963.5	268.5	94.0	160.0	114.5
Merged-chr10-44449965-6	chr10	44449898	44450098	+	898.8472289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007548, intron 3 of 6)	intron (NM_007548, intron 3 of 6)	8750.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	9.0	4.0	7.0	75.5	20.5	5.5	5.5	10.0
Merged-chr9-65575992-4	chr9	65575892	65576092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 1 of 5)	intron (NM_153119, intron 1 of 5)	4095.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	63.5	81.0	51.5	986.5	139.5	42.0	65.0	89.5
Merged-chr13-52981077-6	chr13	52980926	52981126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017373)	promoter-TSS (NM_017373)	13.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	34.5	29.5	30.0	313.5	94.0	23.5	34.0	21.5
Merged-chr12-102302425-4	chr12	102302288	102302488	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	18747.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	14.5	31.5	23.5	274.0	49.0	15.0	21.5	14.5
Merged-chr5-121712422-4	chr5	121712318	121712518	+	860.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	CpG	809.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	11.5	13.5	20.5	97.0	35.0	13.0	10.0	11.0
Merged-chr6-81965854-4	chr6	81965750	81965950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026490)	promoter-TSS (NM_026490)	99.0	NM_026490	56284.0	Mm.276293	NM_026490	ENSMUSG00000030045	Mrpl19	9030416F12Rik|9130412E02Rik|D6Ertd157e|MRP-L15|RLX1|Rpml15	mitochondrial ribosomal protein L19	protein-coding	40.0	61.0	69.5	692.0	60.5	29.5	56.0	46.5
Merged-chr11-88973937-4	chr11	88973830	88974030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016706)	promoter-TSS (NM_016706)	-5.0	NM_016706	12812.0	Mm.268004	NM_016706	ENSMUSG00000033983	Coil	C79982|Cln80|p80|p80-coilin	coilin	protein-coding	47.5	62.0	48.0	632.0	116.0	42.5	53.5	47.5
Merged-chr6-120172798-2	chr6	120172698	120172898	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	L1MD3|LINE|L1	-21025.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	13.5	13.0	16.0	320.5	21.0	7.0	4.5	16.5
Merged-chr3-41444540-3	chr3	41444444	41444644	+	867.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48655.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	7.0	7.0	17.5	461.5	5.0	1.5	5.0	2.5
Merged-chr9-75038148-4	chr9	75038097	75038297	+	860.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152135, intron 2 of 4)	intron (NR_152135, intron 2 of 4)	465.0	NM_021548	59046.0	Mm.247837	NM_021548	ENSMUSG00000007656	Arpp19	19kDa|2700024H10Rik|ARPP-19|AW559096|Arpp12	cAMP-regulated phosphoprotein 19	protein-coding	13.5	9.5	16.5	181.0	18.5	8.0	6.5	12.5
Merged-chr3-105899953-4	chr3	105899847	105900047	+	937.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-4474.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	15.5	22.5	14.0	229.0	45.0	16.0	16.0	31.0
Merged-chr15-97237152-2	chr15	97237052	97237252	+	802.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-9955.0	NM_172293	239647.0	Mm.130036	NM_172293	ENSMUSG00000044250	Pced1b	Fam113b	PC-esterase domain containing 1B	protein-coding	5.5	6.0	2.0	93.5	10.5	9.5	7.0	8.5
Merged-chr17-47600151-4	chr17	47600040	47600240	+	810.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081636)	TTS (NM_001081636)	6673.0	NM_007632	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	10.0	4.5	9.5	140.0	16.5	3.0	9.0	12.5
Merged-chr11-70696981-2	chr11	70696881	70697081	+	666.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252485, intron 1 of 7)	intron (NM_001252485, intron 1 of 7)	3174.0	NM_001252482	103844.0	Mm.101581	NM_213729	ENSMUSG00000057054	Inca1	AI842396	inhibitor of CDK, cyclin A1 interacting protein 1	protein-coding	0.0	3.5	7.0	46.5	12.0	7.5	9.5	11.0
Merged-chr13-92320994-3	chr13	92320893	92321093	+	793.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311120, intron 8 of 23)	L1MA9|LINE|L1	-33790.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	7.0	16.5	11.5	128.0	13.0	0.5	0.0	4.0
Merged-chr9-95180665-4	chr9	95180571	95180771	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 14 of 15)	intron (NM_177909, intron 14 of 15)	226599.0	NM_018763	54371.0	Mm.212446	NM_018763	ENSMUSG00000033350	Chst2	AI428561|AW121776|C130041E03Rik|Chts2|GST-2|GlcNAc6ST|Gn6st	carbohydrate sulfotransferase 2	protein-coding	13.0	24.0	7.5	244.5	23.0	2.0	4.0	10.0
Merged-chr9-4309690-4	chr9	4309600	4309800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026276)	promoter-TSS (NM_026276)	-43.0	NM_001164574	69149.0	Mm.25946	NM_026962	ENSMUSG00000025893	Kbtbd3	2200003A07Rik|Bklhd3	kelch repeat and BTB (POZ) domain containing 3	protein-coding	460.5	723.0	510.0	7898.0	1310.0	531.0	607.5	501.0
Merged-chr10-13028412-3	chr10	13028321	13028521	+	789.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19971.0	NM_175102	66125.0	Mm.29743	NM_175102	ENSMUSG00000078348	Sf3b5	10kDa|1110005L13Rik|AU043053|Sf3b10	splicing factor 3b, subunit 5	protein-coding	9.0	15.5	9.5	379.5	12.5	7.5	6.0	11.0
Merged-chr1-34510813-4	chr1	34510713	34510913	+	903.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12401.0	NM_001360855	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	15.0	20.0	16.0	202.0	23.0	3.5	8.0	17.5
Merged-chr1-36309787-4	chr1	36309722	36309922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290727, intron 1 of 5)	intron (NM_001290727, intron 1 of 5)	2089.0	NM_001172205	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	51.0	32.5	45.5	829.0	111.5	6.5	41.5	21.5
Merged-chr14-120387527-3	chr14	120387426	120387626	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 4 of 8)	intron (NM_001360376, intron 4 of 8)	81074.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	4.5	13.0	22.0	508.5	3.5	2.0	6.5	6.0
Merged-chr12-85518408-4	chr12	85518311	85518511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44521.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	36.5	37.0	18.5	247.5	56.0	23.0	31.0	31.5
Merged-chr4-128661337-4	chr4	128661240	128661440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	6638.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	34.0	53.5	43.0	753.0	85.5	38.5	47.5	28.0
Merged-chr11-86908473-4	chr11	86908386	86908586	+	846.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur2|LINE|L1	85276.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	11.0	33.5	9.0	38.0	40.5	14.0	18.0	12.0
Merged-chr8-119424991-4	chr8	119424899	119425099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12163.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	111.0	105.0	77.0	1324.5	168.5	49.5	72.0	88.0
Merged-chr7-75612188-2	chr7	75612088	75612288	+	851.25	f0_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 7 of 36)	intron (NM_029332, intron 7 of 36)	156654.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	7.0	7.0	5.0	201.0	3.5	2.0	1.0	5.0
Merged-chr7-128690312-4	chr7	128690196	128690396	+	805.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346517, intron 1 of 5)	intron (NM_001346517, intron 1 of 5)	1426.0	NM_001346517	101490.0	Mm.490344	NM_178641	ENSMUSG00000042105	Inpp5f	5830435P03Rik|AI115354|AW561896|SAC2|cI-27|hSAC2|mKIAA0966	inositol polyphosphate-5-phosphatase F	protein-coding	15.0	24.5	7.5	142.0	22.0	11.0	6.0	9.0
Merged-chr7-28339514-4	chr7	28339412	28339612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013676)	promoter-TSS (NM_013676)	-793.0	NM_013676	20924.0	Mm.285906	NM_013676	ENSMUSG00000003435	Supt5	AL033283|AL033321|AU019549|Spt5|Supt5h	suppressor of Ty 5	protein-coding	25.0	35.0	30.5	413.0	120.0	51.0	50.0	52.5
Merged-chr4-141301224-4	chr4	141301118	141301318	+	937.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010139)	promoter-TSS (NM_010139)	-3.0	NM_010139	13836.0	Mm.2581	NM_010139	ENSMUSG00000006445	Epha2	AW545284|Eck|Myk2|Sek-2|Sek2	Eph receptor A2	protein-coding	17.0	28.0	12.5	247.0	45.0	12.5	15.0	21.0
Merged-chr7-105739226-4	chr7	105739111	105739311	+	909.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161724, intron 2 of 12)	intron (NM_001161724, intron 2 of 12)	-1826.0	NM_133951	101867.0	Mm.231400	NM_025897	ENSMUSG00000030888	Rrp8	1500003O22Rik|2900001K19Rik|AW538116	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	protein-coding	13.0	50.5	19.5	241.5	58.0	20.0	30.5	19.0
Merged-chr9-32540240-4	chr9	32540139	32540339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	1213.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	105.0	177.0	91.5	1585.0	229.5	103.0	104.5	77.5
Merged-chr8-46888751-4	chr8	46888608	46888808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98179.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	23.0	24.0	66.0	893.0	34.0	9.0	29.5	33.0
Merged-chr1-58393672-4	chr1	58393545	58393745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025824, intron 1 of 11)	CpG	509.0	NM_025824	66882.0	Mm.21848	NM_025824	ENSMUSG00000051223	Bzw1	1200015E15Rik|mKIAA0005	basic leucine zipper and W2 domains 1	protein-coding	12.0	25.5	18.0	270.5	50.5	11.5	16.0	24.5
Merged-chr6-119502126-3	chr6	119501991	119502191	+	806.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 1 of 4)	intron (NM_009525, intron 1 of 4)	22423.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	9.0	14.5	6.5	167.0	11.5	3.0	2.5	6.5
Merged-chr2-161512126-1	chr2	161512026	161512226	+	761.400024	f0_c57.idr	Intergenic	Intergenic	-403040.0	NR_126509	71389.0	Mm.122738	NM_173368	ENSMUSG00000057133	Chd6	5430439G14Rik|6330406J24Rik|CHD-6	chromodomain helicase DNA binding protein 6	protein-coding	1.0	0.0	0.0	9.5	25.0	10.0	11.0	18.5
Merged-chr11-73018925-4	chr11	73018821	73019021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018883)	promoter-TSS (NM_018883)	-80.0	NR_152202	100043309.0	Mm.340872	NR_152202	ENSMUSG00000086943	4732414G09Rik	-	RIKEN cDNA 4732414G09 gene	ncRNA	138.5	159.5	125.0	2089.5	335.5	97.0	148.0	84.5
Merged-chr16-38769790-4	chr16	38769689	38769889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001285793)	TTS (NM_001285793)	27530.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	46.5	54.5	40.5	1022.0	116.0	23.0	38.0	42.0
Merged-chr10-60705382-4	chr10	60705306	60705506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8916.0	NM_023370	22295.0	Mm.440327	NM_023370	ENSMUSG00000012819	Cdh23	4930542A03Rik|USH1D|ahl|ahl1|bob|bus|mdfw|nmf112|nmf181|nmf252|sals|v	cadherin 23 (otocadherin)	protein-coding	33.5	65.0	42.0	489.0	80.0	27.5	30.0	32.0
Merged-chr5-121450096-4	chr5	121450011	121450211	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026129, intron 1 of 2)	intron (NM_026129, intron 1 of 2)	2363.0	NM_026129	67397.0	Mm.154570	NM_026129	ENSMUSG00000029616	Erp29	1200015M03Rik|2810446M09Rik|AW209030|Erp28|Erp31|PDI-Db	endoplasmic reticulum protein 29	protein-coding	17.5	44.5	16.0	170.5	65.0	20.0	21.0	43.5
Merged-chr3-116109527-1	chr3	116109427	116109627	+	860.5	f0_balb.idr	TTS (NM_011693)	TTS (NM_011693)	20161.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	10.0	10.0	13.5	165.5	17.0	2.5	0.0	3.0
Merged-chr2-59183698-2	chr2	59183598	59183798	+	856.125	f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	22848.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	5.0	4.5	6.0	22.5	9.0	5.0	7.5	3.5
Merged-chr11-22002079-3	chr11	22001963	22002163	+	808.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011023)	promoter-TSS (NM_011023)	-412.0	NM_011023	18423.0	Mm.129663	NM_011023	ENSMUSG00000005917	Otx1	A730044F23Rik|jv	orthodenticle homeobox 1	protein-coding	11.5	9.5	15.0	173.5	7.0	12.5	9.5	4.0
Merged-chr11-102414100-2	chr11	102414000	102414200	+	960.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-6583.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	3.5	12.5	1.0	29.0	22.0	8.0	7.0	8.5
Merged-chr19-5604064-4	chr19	5603959	5604159	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362372, intron 10 of 12)	intron (NM_001362372, intron 10 of 12)	2186.0	NM_026616	68209.0	Mm.246200	NM_026616	ENSMUSG00000024925	Rnaseh2c	1500026D16Rik|AYP1	ribonuclease H2, subunit C	protein-coding	1.0	8.0	3.0	69.5	61.5	21.0	34.0	28.0
Merged-chr14-74733566-2	chr14	74733466	74733666	+	765.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001285423, intron 1 of 8)	intron (NM_001285423, intron 1 of 8)	1269.0	NM_016903	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	0.0	1.0	0.0	21.0	4.5	6.5	5.0	14.0
Merged-chr8-84069919-4	chr8	84069806	84070006	+	625.366638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	intron (NM_009055, intron 1 of 20)	3070.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	14.5	13.0	8.0	123.5	12.0	6.0	11.0	8.0
Merged-chr14-22101741-2	chr14	22101641	22101841	+	974.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 2 of 6)	intron (NM_028275, intron 2 of 6)	82029.0	NM_028275	76633.0	Mm.489898	NM_028275	ENSMUSG00000063458	Lrmda	1700112E06Rik|2700009F18Rik	leucine rich melanocyte differentiation associated	protein-coding	3.0	10.5	3.0	38.5	18.5	6.5	12.0	10.5
Merged-chr12-85473540-4	chr12	85473437	85473637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010234)	promoter-TSS (NM_010234)	-353.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	124.5	137.0	81.0	1442.5	261.5	125.5	170.0	107.0
Merged-chr3-9853268-3	chr3	9853164	9853364	+	800.472229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19585.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	4.0	0.0	5.0	89.0	22.0	5.5	5.0	10.0
Merged-chr6-70709500-3	chr6	70709446	70709646	+	940.322205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82629.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	13.0	16.0	6.0	132.0	3.0	3.0	7.5	11.5
Merged-chr9-14381019-4	chr9	14380920	14381120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028013, exon 1 of 2)	5' UTR (NM_028013, exon 1 of 2)	222.0	NM_028013	71946.0	Mm.41423	NM_028013	ENSMUSG00000037419	Endod1	2210414F18Rik|2310067E08Rik|C85344	endonuclease domain containing 1	protein-coding	66.5	75.5	70.5	1471.0	134.5	76.5	83.5	98.5
Merged-chr18-62183850-4	chr18	62183742	62183942	+	758.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013754, intron 1 of 1)	intron (NM_001013754, intron 1 of 1)	3742.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	13.0	20.0	4.5	73.5	29.5	3.5	17.0	11.5
Merged-chr12-79017480-4	chr12	79017390	79017590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10213.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	159.5	263.0	180.0	2032.5	115.5	36.0	45.5	24.5
Merged-chr10-13193001-7	chr10	13192887	13193087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181470, intron 1 of 10)	CpG	150.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	67.0	137.5	96.0	571.0	185.0	86.0	70.0	63.0
Merged-chr13-35947544-4	chr13	35947523	35947723	+	751.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20283.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	8.0	7.5	7.0	62.0	6.5	3.5	5.5	6.5
Merged-chr7-44986694-4	chr7	44986599	44986799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019830)	promoter-TSS (NM_019830)	-201.0	NR_045266	100502630.0	Mm.490013	NR_045266	ENSMUSG00000087138	Gm15545	-	predicted gene 15545	ncRNA	396.5	750.0	377.0	5048.5	904.0	401.0	460.5	340.0
Merged-chr13-64248992-4	chr13	64248900	64249100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122989)	promoter-TSS (NM_001122989)	300.0	NR_045798	66503.0	Mm.443331	NR_045798	ENSMUSG00000097101	1810034E14Rik	-	RIKEN cDNA 1810034E14 gene	ncRNA	44.5	42.5	23.5	516.5	97.0	45.0	28.0	29.0
Merged-chr13-13589591-4	chr13	13589494	13589694	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010748)	promoter-TSS (NM_010748)	-815.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	10.5	17.0	13.0	69.5	43.0	6.0	16.0	6.5
Merged-chr3-121844795-3	chr3	121844687	121844887	+	793.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29485.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	7.0	4.0	6.5	92.5	14.0	7.0	9.0	11.5
Merged-chr12-85381819-4	chr12	85381715	85381915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-7098.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	96.5	130.5	86.0	1328.0	146.5	67.5	94.5	71.5
Merged-chr4-16071510-4	chr4	16071416	16071616	+	932.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	-57628.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	18.5	13.0	7.5	244.5	59.0	16.5	16.0	19.5
Merged-chr13-92637015-4	chr13	92636936	92637136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 1 of 11)	intron (NM_172588, intron 1 of 11)	25898.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	58.0	66.5	74.5	1276.0	126.0	37.5	71.5	49.5
Merged-chr5-139388726-2	chr5	139388626	139388826	+	918.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	-1178.0	NM_001038703	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	6.0	9.5	10.5	55.0	6.0	4.0	4.0	9.0
Merged-chr16-21400116-4	chr16	21400026	21400226	+	933.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22992.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	30.0	33.5	14.5	339.5	56.5	22.0	21.0	22.0
Merged-chr3-130691546-4	chr3	130691445	130691645	+	896.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G3|LTR|ERVL-MaLR	17899.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	4.0	11.5	10.5	169.5	29.0	11.5	18.5	14.0
Merged-chr17-56585338-4	chr17	56585220	56585420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355463)	promoter-TSS (NM_001355463)	338.0	NM_001163300	224903.0	Mm.255066	NM_001163300	ENSMUSG00000071054	Safb	3110021E02Rik|5330423C17Rik|AU018122|D18386|E130307D12|HAP|HET|SAF-B1|SAFB1	scaffold attachment factor B	protein-coding	59.0	57.0	36.0	371.0	136.5	40.0	49.0	57.0
Merged-chr4-139598637-3	chr4	139598530	139598730	+	779.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 1 of 8)	MLTR14|LTR|ERV1	23910.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	4.5	8.5	2.0	51.0	22.5	8.0	7.0	6.5
Merged-chr5-125305407-3	chr5	125305302	125305502	+	991.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	35692.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	20.0	5.0	13.0	209.5	18.5	4.5	5.0	20.5
Merged-chr13-92939262-3	chr13	92939165	92939365	+	985.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94478.0	NM_001162945	382793.0	Mm.296770	NM_001162945	ENSMUSG00000021704	Mtx3	4930470O13Rik|AA409304|AI853833|AU067765|EG624619|Gm1194|Gm6514	metaxin 3	protein-coding	0.5	3.0	3.0	13.0	67.5	30.5	18.0	23.0
Merged-chr1-43466139-4	chr1	43466040	43466240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	20389.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	32.0	28.5	14.5	482.5	69.5	22.0	24.5	36.5
Merged-chr3-9573804-4	chr3	9573718	9573918	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 1 of 8)	intron (NM_133218, intron 1 of 8)	36267.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	19.5	24.5	28.0	461.0	41.5	6.5	16.0	18.5
Merged-chr8-47713465-4	chr8	47713362	47713562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359133, intron 1 of 2)	CpG	469.0	NM_001359133	70925.0	Mm.393807	NM_172407	ENSMUSG00000038069	Cdkn2aip	4921511I16Rik|AW208986|CARF	CDKN2A interacting protein	protein-coding	15.0	31.0	33.5	264.5	35.0	21.5	22.5	19.0
Merged-chr8-115638406-3	chr8	115638310	115638510	+	938.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68484.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	16.5	7.5	7.5	240.5	10.5	6.5	3.5	14.0
Merged-chr3-60542579-3	chr3	60542453	60542653	+	860.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	41374.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	10.5	9.5	15.0	174.0	12.5	6.0	10.0	7.0
Merged-chr2-150878897-3	chr2	150878772	150878972	+	776.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	intron (NR_151505, intron 1 of 12)	25859.0	NM_024465	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	13.0	6.5	16.5	234.5	12.5	10.0	3.5	10.0
Merged-chr16-49766520-4	chr16	49766423	49766623	+	732.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4|LINE|L1	67229.0	NM_028680	73916.0	Mm.241276	NM_028680	ENSMUSG00000032965	Ift57	4833420A15Rik|Esrrbl1|Hippi|MHS4R2	intraflagellar transport 57	protein-coding	9.5	12.0	6.5	101.0	19.5	10.0	13.0	8.5
Merged-chr18-82475126-4	chr18	82475078	82475278	+	945.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010777)	promoter-TSS (NM_010777)	55.0	NM_010777	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	16.0	11.0	9.0	274.5	19.5	13.0	26.0	17.5
Merged-chr5-121251966-4	chr5	121251771	121251971	+	984.28125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181421, intron 1 of 75)	intron (NM_181421, intron 1 of 75)	31652.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	13.5	4.5	11.5	218.5	15.0	6.5	8.0	14.0
Merged-chr11-107044503-3	chr11	107044408	107044608	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359590, intron 24 of 27)	intron (NM_001359590, intron 24 of 27)	16285.0	NM_001163473	69066.0	Mm.40679	NM_001163473	ENSMUSG00000078607	1810010H24Rik	-	RIKEN cDNA 1810010H24 gene	protein-coding	5.0	9.0	2.0	151.0	12.0	14.0	5.5	8.5
Merged-chr16-3122998-3	chr16	3122888	3123088	+	796.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-469410.0	NM_146860	258859.0	Mm.377723	NM_146860	ENSMUSG00000051003	Olfr161	MOR131-1|OR912-47M6	olfactory receptor 161	protein-coding	5.0	9.0	3.0	50.0	17.0	9.0	17.5	12.0
Merged-chr5-137683914-3	chr5	137683858	137684058	+	806.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303271, intron 1 of 12)	ID_B1|SINE|B4	795.0	NM_001303271	231801.0	Mm.260869	NM_145566	ENSMUSG00000029722	Agfg2	A630095P14Rik|Hrbl|RAB-R|RABR	ArfGAP with FG repeats 2	protein-coding	9.5	15.0	5.5	64.0	12.0	5.5	6.0	8.5
Merged-chr12-30922599-3	chr12	30922500	30922700	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289480, intron 2 of 8)	intron (NM_001289480, intron 2 of 8)	10931.0	NM_013709	24057.0	Mm.218624	NM_013709	ENSMUSG00000020669	Sh3yl1	AI314953|Ray|YSC84	Sh3 domain YSC-like 1	protein-coding	5.5	16.0	6.5	98.5	12.5	8.0	13.0	9.0
Merged-chr17-33955721-4	chr17	33955604	33955804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011296)	promoter-TSS (NM_011296)	-63.0	NM_011296	20084.0	Mm.298745	NM_011296	ENSMUSG00000008668	Rps18	H-2Ke3|H2-Ke3|Ke-3|ke3	ribosomal protein S18	protein-coding	98.5	220.0	70.5	1213.5	319.5	117.0	107.0	127.5
Merged-chr9-32466613-3	chr9	32466551	32466751	+	943.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 2 of 8)	intron (NM_008026, intron 2 of 8)	72666.0	NM_001168354	56379.0	Mm.390168	NM_019659	ENSMUSG00000041248	Kcnj1	Kir1.1|ROMK|Romk2	potassium inwardly-rectifying channel, subfamily J, member 1	protein-coding	6.5	7.5	9.0	107.5	9.0	1.5	0.5	7.5
Merged-chr2-170240281-4	chr2	170240185	170240385	+	925.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97610.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	11.5	28.0	5.5	317.0	63.5	12.5	14.5	14.0
Merged-chr4-48591064-4	chr4	48590971	48591171	+	919.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021436, intron 1 of 9)	Tigger13a|DNA|TcMar-Tigger	5897.0	NM_021436	230157.0	Mm.422686	NM_021436	ENSMUSG00000028347	Tmeff1	A830033E11|M7365|TR-1|Tr1	transmembrane protein with EGF-like and two follistatin-like domains 1	protein-coding	9.5	22.5	5.5	268.5	56.5	12.5	14.0	22.5
Merged-chr4-132816183-3	chr4	132816081	132816281	+	566.5	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-19817.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	9.0	13.5	7.0	71.5	20.5	9.5	7.5	11.5
Merged-chr9-70833793-3	chr9	70833691	70833891	+	723.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	101017.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	7.0	15.0	13.0	144.0	11.5	9.5	3.0	7.5
Merged-chr4-102608272-4	chr4	102608160	102608360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177980)	TTS (NM_001177980)	18417.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	43.0	47.0	45.5	621.0	52.5	4.0	19.0	10.0
Merged-chr1-93401746-4	chr1	93401639	93401839	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207031, intron 20 of 23)	intron (NM_207031, intron 20 of 23)	27843.0	NM_001271884	404545.0	Mm.297411	NM_207031	ENSMUSG00000034107	Ano7	Ngep|Ngep-L|Pcanap5|Tmem16g	anoctamin 7	protein-coding	14.5	25.5	24.0	275.0	27.5	14.5	32.5	24.0
Merged-chr14-56875937-6	chr14	56875816	56876016	+	913.0277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6C|LTR|ERVK	-10687.0	NM_177627	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	18.0	20.5	14.0	78.5	20.5	4.5	6.5	10.5
Merged-chr14-73239521-2	chr14	73239421	73239621	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_175116, exon 1 of 1)	exon (NM_175116, exon 1 of 1)	1630.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	7.5	6.5	5.5	76.5	13.0	3.5	4.5	10.5
Merged-chr13-30749225-4	chr13	30749133	30749333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013674)	promoter-TSS (NM_013674)	0.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	150.5	168.0	137.5	2457.0	298.0	145.0	158.0	126.5
Merged-chr10-111412159-3	chr10	111412056	111412256	+	841.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61071.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	1.5	5.0	6.5	159.0	17.0	6.5	7.5	6.0
Merged-chr2-145122315-1	chr2	145122215	145122415	+	745.0	f0_balb.idr	Intergenic	IAPEz-int|LTR|ERVK	-45460.0	NM_001356497	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	8.5	48.5	15.0	41.0	4.0	0.0	0.5	1.0
Merged-chr19-41912467-3	chr19	41912378	41912578	+	870.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023418, intron 1 of 3)	CpG	607.0	NM_023418	18648.0	Mm.16783	NM_023418	ENSMUSG00000011752	Pgam1	2310050F24Rik|Pgam-1	phosphoglycerate mutase 1	protein-coding	11.5	4.5	8.5	128.0	17.0	7.0	11.5	17.0
Merged-chr11-77497736-4	chr11	77497653	77497853	+	877.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004144, intron 1 of 19)	intron (NM_001004144, intron 1 of 19)	4341.0	NM_001004144	216963.0	Mm.290182	NM_001004144	ENSMUSG00000011877	Git1	Cat-1|p95Cat	G protein-coupled receptor kinase-interactor 1	protein-coding	14.5	14.5	3.5	150.0	35.0	8.5	4.5	12.5
Merged-chr3-65922642-4	chr3	65922528	65922728	+	744.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35621.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	5.5	21.5	11.0	105.0	29.0	14.5	19.5	13.5
Merged-chr17-21536927-4	chr17	21536832	21537032	+	645.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144515, intron 1 of 4)	RLTR19|LTR|ERVK	-1054.0	NR_131123	319870.0	Mm.488274	NR_131123	ENSMUSG00000097781	9330136K24Rik	-	RIKEN cDNA 9330136K24 gene	ncRNA	8.5	10.0	0.0	82.0	29.0	9.0	13.5	9.5
Merged-chr4-132010624-4	chr4	132010531	132010731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	38447.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	32.5	45.0	23.5	461.0	43.0	17.5	29.0	26.0
Merged-chr10-60286761-4	chr10	60286639	60286839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146124, intron 1 of 13)	intron (NM_001146124, intron 1 of 13)	2278.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	42.0	40.0	71.5	1339.0	81.5	16.5	60.0	38.5
Merged-chr8-117362141-4	chr8	117362026	117362226	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	intron (NM_028941, intron 1 of 20)	12956.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	22.0	20.5	12.5	202.5	38.0	6.0	19.0	13.5
Merged-chr14-45329706-4	chr14	45329607	45329807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025959)	promoter-TSS (NM_025959)	-117.0	NM_025959	67089.0	Mm.18472	NM_025959	ENSMUSG00000021832	Psmc6	2300001E01Rik|AI451058	proteasome (prosome, macropain) 26S subunit, ATPase, 6	protein-coding	227.0	373.5	236.0	3572.0	449.5	208.5	229.0	167.0
Merged-chr6-8687374-4	chr6	8687261	8687461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 5 of 11)	intron (NM_001252266, intron 5 of 11)	71097.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	127.5	179.0	153.0	2576.0	337.5	136.5	145.5	98.0
Merged-chr1-172590608-4	chr1	172590505	172590705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029084)	promoter-TSS (NM_029084)	-37.0	NM_029084	74748.0	Mm.179812	NM_029084	ENSMUSG00000053318	Slamf8	5830408F06Rik|Blame|SBBI42	SLAM family member 8	protein-coding	77.5	150.0	102.0	1279.5	334.0	109.5	88.0	103.0
Merged-chr7-143548319-4	chr7	143548207	143548407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285489, intron 1 of 14)	intron (NM_001285489, intron 1 of 14)	521.0	NM_001285490	17955.0	Mm.294625	NM_008672	ENSMUSG00000059119	Nap1l4	2810410H14Rik|AI316776|D7Wsu30e|Nap2	nucleosome assembly protein 1-like 4	protein-coding	51.0	73.5	32.5	440.0	74.0	32.5	33.0	21.5
Merged-chr15-81400099-4	chr15	81399980	81400180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347075)	promoter-TSS (NM_001347075)	-58.0	NM_177310	321003.0	Mm.390833	NM_177310	ENSMUSG00000022401	Xpnpep3	APP3|E430012M05Rik	X-prolyl aminopeptidase 3, mitochondrial	protein-coding	62.5	86.0	39.5	736.5	172.0	76.0	46.5	69.5
Merged-chr7-118494623-4	chr7	118494519	118494719	+	908.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2644.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	18.0	20.5	31.0	390.5	33.0	6.0	8.5	12.0
Merged-chr13-98264293-4	chr13	98264191	98264391	+	851.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271391, intron 1 of 7)	intron (NM_001271391, intron 1 of 7)	1215.0	NM_001271388	68558.0	Mm.209642	NM_023472	ENSMUSG00000021661	Ankra2	1110004M18Rik|Ankra	ankyrin repeat, family A (RFXANK-like), 2	protein-coding	3.5	32.0	13.0	114.5	29.5	11.0	9.5	8.5
Merged-chr15-57818919-2	chr15	57818819	57819019	+	678.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 2 of 3)	intron (NM_199449, intron 2 of 3)	73499.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	6.5	6.5	4.5	64.5	19.5	8.0	4.5	9.5
Merged-chr11-54088461-4	chr11	54088350	54088550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-12474.0	NM_001136076	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	36.0	58.5	20.0	652.0	107.0	26.5	45.5	42.0
Merged-chr6-30035274-4	chr6	30035181	30035381	+	956.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-12707.0	NM_001164228	18181.0	Mm.259258	NM_010938	ENSMUSG00000058440	Nrf1	C87038|D6Ertd415e	nuclear respiratory factor 1	protein-coding	17.0	25.5	20.0	323.5	36.0	15.5	28.5	20.5
Merged-chr4-142078205-4	chr4	142078102	142078302	+	937.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-6096.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	22.5	22.5	9.5	192.0	34.0	15.5	11.0	9.5
Merged-chr2-91971019-4	chr2	91970891	91971091	+	821.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7428.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	13.0	4.5	1.0	56.0	10.5	8.5	9.5	14.0
Merged-chr14-55560007-4	chr14	55559915	55560115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133734)	promoter-TSS (NM_133734)	-14.0	NR_037572	28199.0	Mm.11535	NM_133734	ENSMUSG00000022214	Dcaf11	0710008A13Rik|C76035|D14Ucla1|Dacf11|GLO14|Wdr23	DDB1 and CUL4 associated factor 11	protein-coding	52.0	63.0	24.5	665.0	120.5	57.0	74.0	71.5
Merged-chr10-24950427-4	chr10	24950307	24950507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22937.0	NM_007482	11846.0	Mm.154144	NM_007482	ENSMUSG00000019987	Arg1	AI|AI256583|Arg-1|PGIF	arginase, liver	protein-coding	44.0	38.5	69.5	815.5	68.5	34.5	50.5	47.0
Merged-chr15-8663928-4	chr15	8663823	8664023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 3 of 9)	L3|LINE|CR1	46884.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	30.0	24.0	19.0	383.5	86.0	20.0	26.0	25.0
Merged-chr10-67049466-4	chr10	67049366	67049566	+	909.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	44391.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	12.0	28.0	12.5	172.0	53.5	11.5	8.5	29.0
Merged-chr7-83809886-4	chr7	83809774	83809974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15035.0	NM_029335	75556.0	Mm.17649	NM_029335	ENSMUSG00000011154	Cfap161	1700026D08Rik|AW047638|AW551802	cilia and flagella associated protein 161	protein-coding	48.5	71.5	69.0	870.5	120.0	52.0	66.0	38.5
Merged-chr4-138435228-1	chr4	138435128	138435328	+	553.0	f0_balb.idr	intron (NM_026689, intron 1 of 3)	intron (NM_026689, intron 1 of 3)	556.0	NM_026689	68350.0	Mm.103413	NM_026689	ENSMUSG00000041241	Mul1	0610009K11Rik|AV000801|Gide	mitochondrial ubiquitin ligase activator of NFKB 1	protein-coding	9.0	2.0	2.0	73.5	26.0	7.0	8.0	8.0
Merged-chr19-53140552-3	chr19	53140441	53140641	+	812.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164099)	promoter-TSS (NM_001164099)	98.0	NM_001164101	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	6.0	8.5	8.5	67.0	5.5	3.0	6.0	14.5
Merged-chr14-54864175-4	chr14	54864060	54864260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177705)	promoter-TSS (NM_001177705)	-2.0	NM_001177705	239099.0	Mm.280994	NM_183174	ENSMUSG00000057156	Homez	mKIAA1443	homeodomain leucine zipper-encoding gene	protein-coding	120.5	174.0	116.0	2012.0	268.5	123.5	180.5	136.5
Merged-chr19-55658761-4	chr19	55658651	55658851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	43453.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	145.0	235.0	145.0	2435.0	226.0	66.5	100.0	74.0
Merged-chr10-68737518-4	chr10	68737420	68737620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	13774.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	31.5	30.5	93.0	1154.0	201.5	40.0	125.0	93.0
Merged-chr10-81365859-4	chr10	81365753	81365953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014836)	promoter-TSS (NM_001014836)	-33.0	NM_001014836	432479.0	Mm.440450	NM_001014836	ENSMUSG00000020234	4930404N11Rik	2210409H10Rik|5730551K18Rik|AI854616	RIKEN cDNA 4930404N11 gene	protein-coding	59.0	65.5	32.5	714.5	100.5	33.0	61.0	45.0
Merged-chr18-46859680-3	chr18	46859578	46859778	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029008, intron 1 of 19)	intron (NM_029008, intron 1 of 19)	9639.0	NM_029008	74574.0	Mm.26379	NM_029008	ENSMUSG00000024481	Lvrn	4833403I15Rik|APQ|Aqpep	laeverin	protein-coding	51.0	63.5	23.5	361.0	6.0	1.0	0.5	2.0
Merged-chr1-157014279-4	chr1	157014297	157014497	+	897.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74771.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	8.5	23.5	17.0	209.5	19.0	2.5	6.0	3.5
Merged-chr6-93122877-3	chr6	93122780	93122980	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	182298.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	39.0	36.5	32.5	510.5	7.0	7.0	7.5	2.5
Merged-chr10-27366223-3	chr10	27366128	27366328	+	943.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008481, intron 5 of 63)	intron (NM_008481, intron 5 of 63)	-23638.0	NR_131034	75855.0	Mm.402080	NR_131034	ENSMUSG00000101636	4930579H20Rik	-	RIKEN cDNA 4930579H20 gene	ncRNA	10.0	17.5	24.5	446.0	1.0	0.0	1.0	0.5
Merged-chr2-130930153-2	chr2	130930047	130930247	+	888.416626	f0_balb.idr|f1_balb.idr	intron (NM_009730, intron 1 of 28)	intron (NM_009730, intron 1 of 28)	23652.0	NM_009730	11990.0	Mm.119936	NM_009730	ENSMUSG00000027312	Atrn	AW558010|Mgca|mg	attractin	protein-coding	22.5	16.5	23.5	397.5	0.5	0.5	1.5	3.0
Merged-chr11-53769043-4	chr11	53769008	53769208	+	921.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008390)	promoter-TSS (NM_008390)	-906.0	NM_001159393	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	22.0	8.0	7.5	80.5	33.5	5.5	9.5	28.0
Merged-chr16-23988056-4	chr16	23987991	23988191	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	CpG	761.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	16.0	21.5	15.0	118.0	38.0	21.0	7.0	19.5
Merged-chr10-43849717-4	chr10	43849622	43849822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23815.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	25.5	39.5	24.0	333.5	74.5	19.5	24.5	40.0
Merged-chr14-31583279-4	chr14	31583168	31583368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5885.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	49.0	48.5	42.5	751.5	107.5	25.0	53.0	28.5
Merged-chr15-103311364-2	chr15	103311266	103311466	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030720)	promoter-TSS (NM_030720)	-928.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	8.0	8.5	3.0	13.0	16.0	7.0	6.5	20.0
Merged-chr3-126829940-3	chr3	126829842	126830042	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 14 of 18)	intron (NM_001025438, intron 14 of 18)	113444.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	70.5	73.0	66.0	1185.5	13.5	5.0	3.5	5.0
Merged-chr7-99468656-8	chr7	99468502	99468702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028145, exon 2 of 7)	exon (NM_028145, exon 2 of 7)	2598.0	NM_028145	72184.0	Mm.153585	NM_028145	ENSMUSG00000035298	Klhl35	2810406K13Rik	kelch-like 35	protein-coding	27.0	35.5	20.0	360.5	75.5	39.0	33.5	38.5
Merged-chr3-109051922-4	chr3	109051832	109052032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24325.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	28.0	62.5	56.5	520.0	70.5	22.5	27.5	32.0
Merged-chr5-34169505-4	chr5	34169364	34169564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289804)	promoter-TSS (NM_001289804)	-40.0	NM_146159	231123.0	Mm.319286	NM_146159	ENSMUSG00000079555	Haus3	D4S43h|D5H4S43|D5H4S43E	HAUS augmin-like complex, subunit 3	protein-coding	121.5	231.5	128.5	1827.5	387.5	166.5	188.5	165.5
Merged-chr3-103860254-4	chr3	103860156	103860356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008979)	promoter-TSS (NM_008979)	-21.0	NM_008979	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	39.0	45.5	62.0	771.0	76.5	33.5	26.0	38.0
Merged-chr16-85285607-3	chr16	85285502	85285702	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111895.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	2.0	7.0	4.0	55.0	132.0	32.5	104.0	84.5
Merged-chr14-31569376-4	chr14	31569301	31569501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009937, intron 1 of 16)	intron (NM_009937, intron 1 of 16)	7982.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	55.0	121.5	72.0	567.0	141.0	54.0	50.5	48.0
Merged-chr9-96326618-4	chr9	96326491	96326691	+	919.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37124.0	NM_001357213	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	4.5	11.0	10.5	170.5	16.0	6.5	16.0	27.5
Merged-chr15-25135709-3	chr15	25135611	25135811	+	904.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	278053.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	4.5	15.0	13.5	170.0	13.5	5.0	14.0	11.0
Merged-chr17-47737737-4	chr17	47737650	47737850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161723)	promoter-TSS (NM_001161723)	-181.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	59.0	80.0	92.5	799.5	135.0	58.0	59.0	54.5
Merged-chr4-49627188-4	chr4	49627088	49627288	+	902.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4872.0	NM_001163263	109331.0	Mm.24765	NM_182999	ENSMUSG00000028309	Rnf20	4833430L21Rik|AW540162|C79397|mKIAA4116	ring finger protein 20	protein-coding	21.0	8.0	6.5	128.0	30.5	18.5	14.5	7.0
Merged-chr2-6330848-4	chr2	6330765	6330965	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080548, intron 1 of 14)	intron (NM_001080548, intron 1 of 14)	8108.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	25.5	24.5	23.5	677.0	50.5	12.5	25.0	16.5
Merged-chr10-111455097-4	chr10	111455000	111455200	+	926.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-18127.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	12.0	13.0	8.0	211.0	36.5	10.5	31.0	17.5
Merged-chr12-84174041-2	chr12	84173941	84174141	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001163502, exon 2 of 13)	exon (NM_001163502, exon 2 of 13)	19974.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	12.0	25.5	7.5	129.0	24.5	8.5	10.5	14.5
Merged-chr11-102317772-10	chr11	102317707	102317907	+	941.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001044383)	promoter-TSS (NM_001044383)	-520.0	NM_001044383	21429.0	Mm.2845	NM_011551	ENSMUSG00000020923	Ubtf	A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1	upstream binding transcription factor, RNA polymerase I	protein-coding	8.0	9.0	13.5	173.0	21.0	9.5	15.0	20.5
Merged-chr19-36554796-3	chr19	36554713	36554913	+	937.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172637, exon 1 of 21)	exon (NM_172637, exon 1 of 21)	174.0	NM_172637	226098.0	Mm.61107	NM_172637	ENSMUSG00000041180	Hectd2	4921524L07|A630025O09Rik|AW212605	HECT domain E3 ubiquitin protein ligase 2	protein-coding	7.0	22.5	14.5	122.0	18.0	6.5	13.5	7.5
Merged-chr11-77317928-3	chr11	77317835	77318035	+	744.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 1 of 14)	MLT2B3|LTR|ERVL	-30345.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	5.5	5.0	6.5	67.0	13.0	6.5	1.0	4.0
Merged-chr9-41044773-2	chr9	41044677	41044877	+	744.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 4 of 13)	intron (NM_176860, intron 4 of 13)	34729.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	12.0	5.0	11.5	37.5	29.5	7.0	5.5	2.0
Merged-chr4-138091979-3	chr4	138091880	138092080	+	696.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172703, intron 5 of 34)	intron (NM_172703, intron 5 of 34)	46538.0	NR_126429	73563.0	Mm.444294	NR_126429	ENSMUSG00000084804	1700095J12Rik	-	RIKEN cDNA 1700095J12 gene	ncRNA	4.0	8.0	0.0	44.0	31.0	11.5	10.0	10.5
Merged-chr3-108856123-4	chr3	108856033	108856233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177091, exon 13 of 13)	3' UTR (NM_177091, exon 13 of 13)	-15631.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	67.0	116.5	65.5	654.0	256.0	84.0	81.0	57.0
Merged-chr13-102669089-3	chr13	102668980	102669180	+	846.166626	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24467.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	9.0	4.0	6.0	171.5	32.5	10.5	19.0	18.0
Merged-chr2-140846969-4	chr2	140846878	140847078	+	943.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 4 of 18)	intron (NM_001013802, intron 4 of 18)	-175502.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	10.0	47.0	24.5	104.0	75.0	14.0	28.0	7.5
Merged-chr11-118454013-4	chr11	118453924	118454124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045902, intron 1 of 2)	L1MB8|LINE|L1	971.0	NR_045902	100126224.0	Mm.441989	NR_045902	ENSMUSG00000086514	Gm11747	-	predicted gene 11747	ncRNA	77.0	144.0	75.5	958.0	234.0	79.0	79.5	72.0
Merged-chr3-61344262-4	chr3	61344154	61344354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20253.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	57.0	90.0	59.5	448.5	139.5	79.0	40.0	26.5
Merged-chr13-34710477-4	chr13	34710381	34710581	+	903.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-29161.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	22.0	18.0	21.5	309.5	32.0	12.5	16.0	8.0
Merged-chr7-89346237-4	chr7	89346125	89346325	+	973.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	MLT1J|LTR|ERVL-MaLR	-7438.0	NM_001360745	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	15.0	30.0	15.5	442.0	37.0	24.5	22.5	9.5
Merged-chr12-81658243-4	chr12	81658145	81658345	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033149, intron 1 of 2)	intron (NM_001033149, intron 1 of 2)	26996.0	NM_001033149	69480.0	Mm.130002	NM_001033149	ENSMUSG00000042734	Ttc9	-	tetratricopeptide repeat domain 9	protein-coding	7.5	22.5	11.0	130.5	18.0	9.0	7.5	12.0
Merged-chr18-35495573-4	chr18	35495493	35495693	+	905.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030749, intron 1 of 9)	intron (NM_030749, intron 1 of 9)	3332.0	NM_030749	81500.0	Mm.291482	NM_030749	ENSMUSG00000024357	Sil1	1810057E01Rik|AI042831|wz	endoplasmic reticulum chaperone SIL1 homolog (S. cerevisiae)	protein-coding	5.5	10.5	10.5	90.5	33.0	12.5	8.0	19.5
Merged-chr9-116102068-4	chr9	116101971	116102171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	73292.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	162.5	193.0	157.0	2712.5	271.5	82.0	167.5	134.0
Merged-chr10-10474436-4	chr10	10474349	10474549	+	858.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-2135.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	12.0	15.0	12.5	177.5	66.0	14.0	10.5	15.0
Merged-chr4-132898429-3	chr4	132898310	132898510	+	717.450012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163792)	TTS (NM_001163792)	-13952.0	NM_133887	100226.0	Mm.28237	NM_133887	ENSMUSG00000028879	Stx12	AI850350|AU041521|Stx13	syntaxin 12	protein-coding	1.0	0.0	0.0	0.0	33.0	20.0	14.5	11.5
Merged-chr10-20054089-4	chr10	20053994	20054194	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 8 of 29)	intron (NM_008580, intron 8 of 29)	-94826.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	8.0	27.5	64.0	690.0	37.5	10.5	9.0	10.5
Merged-chr7-127206510-2	chr7	127206410	127206610	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144522, intron 1 of 8)	intron (NM_144522, intron 1 of 8)	1958.0	NM_144522	68449.0	Mm.41420	NM_144522	ENSMUSG00000042492	Tbc1d10b	1110003P22Rik|C87963	TBC1 domain family, member 10b	protein-coding	4.5	3.0	4.0	18.0	4.5	6.0	4.5	4.5
Merged-chr9-32540891-4	chr9	32540781	32540981	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	CpG	571.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	18.0	32.0	25.5	224.0	25.5	18.0	16.5	29.0
Merged-chr8-72135211-4	chr8	72135157	72135357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001491)	promoter-TSS (NM_001001491)	-35.0	NM_001001491	326618.0	Mm.295124	NM_001001491	ENSMUSG00000031799	Tpm4	2610528G24Rik|Tpm4.2|Tpm4.2cy	tropomyosin 4	protein-coding	56.5	65.0	63.0	777.0	39.0	24.5	32.0	19.5
Merged-chr15-67345679-4	chr15	67345565	67345765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045140, intron 7 of 8)	RMER19A|LTR|ERVK	118896.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	50.0	47.0	67.0	866.5	104.0	40.0	70.0	45.0
Merged-chr1-172241092-4	chr1	172240986	172241186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013734, intron 11 of 22)	intron (NM_013734, intron 11 of 22)	17338.0	NM_013734	27222.0	Mm.482392	NM_013734	ENSMUSG00000007107	Atp1a4	-	ATPase, Na+/K+ transporting, alpha 4 polypeptide	protein-coding	31.0	54.0	49.5	727.5	75.0	26.0	35.0	39.0
Merged-chr9-66360455-4	chr9	66360360	66360560	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145617, intron 1 of 77)	intron (NM_145617, intron 1 of 77)	10010.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	23.0	41.5	15.0	370.5	48.5	13.0	7.5	7.0
Merged-chr8-111570643-3	chr8	111570542	111570742	+	901.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	L1MEd|LINE|L1	32299.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	15.5	25.5	8.0	43.5	26.5	17.0	7.0	5.5
Merged-chr19-14650934-3	chr19	14650835	14651035	+	836.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie1b|DNA|hAT-Charlie	-52752.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	9.0	6.0	10.0	127.0	3.5	3.0	17.5	4.5
Merged-chr1-78488100-4	chr1	78487988	78488188	+	624.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278075, intron 1 of 17)	intron (NM_001278075, intron 1 of 17)	809.0	NR_102758	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	4.0	2.0	8.5	111.5	19.0	5.0	6.5	7.5
Merged-chr1-55436785-1	chr1	55436685	55436885	+	561.5	f0_balb.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	30839.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	6.0	11.0	6.5	162.0	7.5	2.5	1.5	6.5
Merged-chr2-80617165-4	chr2	80617035	80617235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024438)	promoter-TSS (NM_024438)	-79.0	NM_024438	68082.0	Mm.306818	NM_024438	ENSMUSG00000027001	Dusp19	5930436K22Rik|C79103|SKRP1|TS-DSP1	dual specificity phosphatase 19	protein-coding	30.0	42.0	25.5	457.0	39.5	19.5	38.0	22.5
Merged-chr1-87638394-4	chr1	87638296	87638496	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	18084.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	22.5	35.5	30.5	509.5	32.0	22.5	22.5	30.5
Merged-chr6-124874531-4	chr6	124874389	124874589	+	977.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013488, intron 3 of 9)	MTE2b|LTR|ERVL-MaLR	-10506.0	NM_001355257	14788.0	Mm.2514	NM_013533	ENSMUSG00000038390	Gpr162	A-2|BC031437|Grca	G protein-coupled receptor 162	protein-coding	18.5	31.5	19.0	348.5	41.5	18.0	16.0	12.5
Merged-chr7-25706500-4	chr7	25706416	25706616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12537.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	22.0	41.5	18.5	292.0	73.0	20.0	22.0	21.5
Merged-chr3-129879351-4	chr3	129879259	129879459	+	972.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104611, intron 1 of 4)	intron (NR_104611, intron 1 of 4)	753.0	NM_023196	66350.0	Mm.151951	NM_023196	ENSMUSG00000027999	Pla2g12a	2310004B05Rik|GXII|GXII-1|GXII-1-PLA2|Pla2g12|Rossy|mGXII-1	phospholipase A2, group XIIA	protein-coding	21.0	27.0	25.5	492.0	79.5	13.5	27.0	24.0
Merged-chr5-124432606-4	chr5	124432515	124432715	+	895.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-6658.0	NM_001081203	243272.0	Mm.23879	NM_145631	ENSMUSG00000038095	Sbno1	9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno	strawberry notch 1	protein-coding	19.0	29.5	11.5	203.5	36.0	11.5	12.0	16.5
Merged-chr1-23433801-4	chr1	23433704	23433904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	-50629.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	143.5	217.0	155.5	2505.5	402.0	143.0	187.0	152.0
Merged-chr2-25427088-4	chr2	25426985	25427185	+	973.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013524)	TTS (NM_013524)	-1589.0	NM_007379	11305.0	Mm.2210	NM_007379	ENSMUSG00000026944	Abca2	AI413825|Abc2|D2H0S1474E|mKIAA1062	ATP-binding cassette, sub-family A (ABC1), member 2	protein-coding	8.5	33.0	17.5	294.0	55.5	22.5	17.5	25.5
Merged-chr17-65950753-3	chr17	65950653	65950853	+	962.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023053, intron 1 of 4)	CpG	434.0	NM_023053	65960.0	Mm.10153	NM_023053	ENSMUSG00000024098	Twsg1	1810013J15Rik|9030422N06Rik|AW552143|D17Ertd403e|Tsg|Twg	twisted gastrulation BMP signaling modulator 1	protein-coding	15.5	22.5	8.0	159.5	36.5	7.5	5.5	12.0
Merged-chr12-84038835-2	chr12	84038735	84038935	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_134247, exon 1 of 3)	exon (NM_134247, exon 1 of 3)	456.0	NM_134247	171282.0	Mm.482217	NM_134247	ENSMUSG00000052392	Acot4	B430212I04Rik|PTE-Ib|Pte1b|Pte2b	acyl-CoA thioesterase 4	protein-coding	3.5	4.5	4.5	52.0	8.5	5.0	4.5	6.5
Merged-chr6-71543896-4	chr6	71543775	71543975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025783)	promoter-TSS (NM_025783)	23.0	NM_025783	66700.0	Mm.181278	NM_025783	ENSMUSG00000053119	Chmp3	25.1|4921505F14Rik|9130011K15Rik|CGI-49|D6Ertd286e|NEDF|Vps24	charged multivesicular body protein 3	protein-coding	109.0	189.0	90.0	1022.5	309.0	92.5	130.0	116.0
Merged-chr19-34725551-3	chr19	34725448	34725648	+	972.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172838, intron 1 of 6)	intron (NM_172838, intron 1 of 6)	21563.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	26.5	16.0	27.5	356.0	19.0	8.5	21.0	7.0
Merged-chr2-13272548-3	chr2	13272427	13272627	+	905.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1112.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	5.0	5.5	12.5	41.5	10.0	7.0	7.5	7.5
Merged-chr10-116727440-4	chr10	116727370	116727570	+	930.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045345, intron 1 of 2)	L1MDa|LINE|L1	1707.0	NR_045345	72286.0	Mm.396207	NR_045345	ENSMUSG00000100198	1700030O20Rik	-	RIKEN cDNA 1700030O20 gene	ncRNA	2.5	10.0	6.5	167.0	47.0	8.0	15.0	17.0
Merged-chr1-154008787-4	chr1	154008694	154008894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108865.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	50.0	79.5	76.5	1013.5	88.0	23.5	44.0	36.5
Merged-chr8-122934145-4	chr8	122934049	122934249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	MT2B|LTR|ERVL	85775.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	95.5	151.0	79.0	916.0	107.5	60.5	54.0	64.5
Merged-chr7-56019650-4	chr7	56019542	56019742	+	900.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153578)	promoter-TSS (NM_153578)	-69.0	NM_153578	233280.0	Mm.389901	NM_153578	ENSMUSG00000047037	Nipa1	1110027G09Rik|A830014A18Rik|FSP3|Spg6	non imprinted in Prader-Willi/Angelman syndrome 1 homolog (human)	protein-coding	19.0	26.5	27.0	243.5	32.5	9.5	9.0	10.0
Merged-chr16-92705864-4	chr16	92705720	92705920	+	885.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	-8491.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	22.5	15.0	16.5	277.5	11.5	2.0	10.0	11.5
Merged-chr6-108784321-6	chr6	108784220	108784420	+	981.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026011, intron 1 of 6)	intron (NM_026011, intron 1 of 6)	1261.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	13.5	23.0	16.0	235.5	24.5	26.0	22.0	22.0
Merged-chr6-108611871-4	chr6	108611765	108611965	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040757, intron 4 of 4)	ORR1E|LTR|ERVL-MaLR	11302.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	9.0	16.5	16.0	293.5	32.5	6.0	26.0	21.5
Merged-chr10-121506808-4	chr10	121506687	121506887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30537.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	36.5	30.5	56.0	1233.0	74.5	15.5	39.5	32.5
Merged-chr5-124075736-3	chr5	124075642	124075842	+	758.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019875, intron 9 of 11)	intron (NM_019875, intron 9 of 11)	20056.0	NM_019875	56325.0	Mm.254839	NM_019875	ENSMUSG00000029408	Abcb9	TAPL|mKIAA1520	ATP-binding cassette, sub-family B (MDR/TAP), member 9	protein-coding	13.5	17.5	8.5	106.0	7.0	1.0	2.0	5.5
Merged-chr11-60222969-4	chr11	60222868	60223068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358315)	promoter-TSS (NM_001358315)	-387.0	NM_001358315	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	99.0	143.5	71.5	1482.0	146.0	55.0	66.5	58.5
Merged-chr14-100934770-4	chr14	100934655	100934855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	265314.0	NM_029680	76627.0	Mm.31415	NM_029680	ENSMUSG00000042888	Prr30	1700110M21Rik	proline rich 30	protein-coding	70.5	74.0	65.5	1233.5	174.0	37.5	71.5	38.0
Merged-chr7-80388790-4	chr7	80388715	80388915	+	864.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010194)	promoter-TSS (NM_010194)	-869.0	NM_010194	14159.0	Mm.48757	NM_010194	ENSMUSG00000053158	Fes	AI586313|BB137047|FPS|c-fes	feline sarcoma oncogene	protein-coding	22.0	10.5	10.5	225.5	22.5	7.0	11.0	19.0
Merged-chr13-73505870-3	chr13	73505773	73505973	+	902.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 9 of 13)	intron (NM_145376, intron 9 of 13)	-30874.0	NM_010020	13162.0	Mm.41993	NM_010020	ENSMUSG00000021609	Slc6a3	DAT|Dat1	solute carrier family 6 (neurotransmitter transporter, dopamine), member 3	protein-coding	15.0	4.5	3.5	103.0	17.5	6.0	5.5	16.5
Merged-chr18-61090852-4	chr18	61090766	61090966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14706.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	30.0	31.0	23.0	491.5	89.0	24.0	34.5	24.5
Merged-chr10-94360890-4	chr10	94360788	94360988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	L1M4|LINE|L1	48939.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	24.5	65.5	30.0	339.5	78.5	20.5	25.5	11.0
Merged-chr6-54039925-4	chr6	54039831	54040031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163640)	promoter-TSS (NM_001163640)	-1.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	30.0	40.5	23.5	349.5	79.0	27.5	28.0	24.0
Merged-chr11-50224616-4	chr11	50224505	50224705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145926)	promoter-TSS (NM_145926)	-730.0	NM_145926	103534.0	Mm.86759	NM_145926	ENSMUSG00000036620	Mgat4b	AA407995|GnTIVb	mannoside acetylglucosaminyltransferase 4, isoenzyme B	protein-coding	111.0	108.0	86.0	1657.5	198.5	74.5	91.5	79.0
Merged-chr2-157737347-4	chr2	157737225	157737425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025680)	promoter-TSS (NM_025680)	-76.0	NM_025680	66642.0	Mm.45193	NM_025680	ENSMUSG00000027649	Ctnnbl1	5730471K09Rik|NAP|NYD-SP19|P14L	catenin, beta like 1	protein-coding	72.5	140.0	72.0	1193.0	207.0	100.0	76.0	97.0
Merged-chr2-131186862-4	chr2	131186779	131186979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023117)	promoter-TSS (NM_023117)	-69.0	NM_023117	12531.0	Mm.38444	NM_023117	ENSMUSG00000027330	Cdc25b	AI604853	cell division cycle 25B	protein-coding	58.5	94.5	48.5	767.5	176.5	64.0	80.0	47.5
Merged-chr8-107588482-4	chr8	107588367	107588567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010817)	promoter-TSS (NM_010817)	15.0	NM_010817	17463.0	Mm.18347	NM_010817	ENSMUSG00000039067	Psmd7	AW107203|Mov-34|Mov34	proteasome (prosome, macropain) 26S subunit, non-ATPase, 7	protein-coding	123.0	209.5	98.5	1956.5	293.0	130.5	147.5	106.0
Merged-chr3-121968008-6	chr3	121967921	121968121	+	993.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356524, intron 1 of 22)	intron (NM_001356524, intron 1 of 22)	215.0	NM_001356524	214137.0	Mm.229287	NM_172525	ENSMUSG00000039831	Arhgap29	6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1	Rho GTPase activating protein 29	protein-coding	15.0	10.0	23.0	141.5	17.0	12.0	10.0	11.5
Merged-chr1-33916662-6	chr1	33916491	33916691	+	785.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 2 of 102)	ORR1D1|LTR|ERVL-MaLR	8366.0	NM_001276764	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	6.0	7.5	7.0	57.5	9.0	3.5	2.5	8.0
Merged-chr8-104436242-4	chr8	104436143	104436343	+	895.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013380, intron 4 of 12)	intron (NM_001013380, intron 4 of 12)	6804.0	NM_001013380	234663.0	Mm.289583	NM_001013380	ENSMUSG00000035770	Dync1li2	AA409702|C920003I06|Dncli2|Dnclic2|LIC2	dynein, cytoplasmic 1 light intermediate chain 2	protein-coding	20.0	36.0	24.0	352.5	26.0	10.5	12.5	9.5
Merged-chr11-118107217-4	chr11	118107137	118107337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167746, intron 18 of 80)	intron (NM_001167746, intron 18 of 80)	21982.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	35.0	48.0	53.0	492.0	107.0	30.5	25.0	39.0
Merged-chr16-18425410-2	chr16	18425310	18425510	+	924.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111062, intron 1 of 5)	MER67A|LTR|ERV1	-1007.0	NM_001353143	26462.0	Mm.390906	NM_013711	ENSMUSG00000075704	Txnrd2	AA118373|ESTM573010|TGR|Tr3|Trxr2|Trxrd2	thioredoxin reductase 2	protein-coding	4.5	12.0	5.0	12.5	2.5	0.5	2.0	1.5
Merged-chr7-29238261-4	chr7	29238177	29238377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110201)	promoter-TSS (NM_001110201)	-46.0	NM_001110201	77254.0	Mm.36699	NM_029887	ENSMUSG00000030588	Yif1b	9430029K10Rik|Yip1b	Yip1 interacting factor homolog B (S. cerevisiae)	protein-coding	249.5	433.0	178.0	3154.0	426.5	170.0	169.5	155.0
Merged-chr4-138250214-3	chr4	138250151	138250351	+	875.81665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099631)	promoter-TSS (NM_001099631)	-160.0	NM_001099631	230863.0	Mm.482408	NM_001099631	ENSMUSG00000045349	Sh2d5	BC036961	SH2 domain containing 5	protein-coding	15.5	8.5	6.0	121.5	16.5	5.0	5.0	5.5
Merged-chr16-18066375-4	chr16	18066278	18066478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289813)	promoter-TSS (NM_001289813)	-25.0	NR_110380	13353.0	Mm.27155	NM_010047	ENSMUSG00000003531	Dgcr6	-	DiGeorge syndrome critical region gene 6	protein-coding	81.0	85.0	66.5	1142.5	181.5	72.0	88.0	63.5
Merged-chr19-46394562-3	chr19	46394474	46394674	+	874.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016860, intron 1 of 10)	intron (NM_016860, intron 1 of 10)	1161.0	NM_016860	54130.0	Mm.3118	NM_016860	ENSMUSG00000025228	Actr1a	Arp1|alpha-Arp1	ARP1 actin-related protein 1A, centractin alpha	protein-coding	10.5	7.0	7.0	87.0	19.0	7.0	12.5	7.5
Merged-chr18-75716338-4	chr18	75716248	75716448	+	823.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18652.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	6.0	15.0	10.5	160.0	21.5	9.0	14.0	11.0
Merged-chr18-84683754-4	chr18	84683665	84683865	+	800.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023149, intron 1 of 11)	B2_Mm2|SINE|B2	-1706.0	NM_001289531	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	3.5	14.0	9.5	67.0	26.5	8.5	19.0	19.0
Merged-chr13-59669025-4	chr13	59668925	59669125	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035122, intron 1 of 9)	intron (NM_001035122, intron 1 of 9)	6759.0	NM_001035122	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	33.0	42.0	31.5	591.5	66.0	13.5	37.0	30.5
Merged-chr13-41268017-4	chr13	41267913	41268113	+	995.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135577, intron 1 of 1)	intron (NM_001135577, intron 1 of 1)	18169.0	NM_001135577	108934.0	Mm.38578	NM_001135577	ENSMUSG00000091264	Smim13	2900036K02Rik	small integral membrane protein 13	protein-coding	29.5	36.0	42.0	825.5	49.5	15.5	24.0	47.0
Merged-chr9-50591027-4	chr9	50590921	50591121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12828.0	NM_025848	66925.0	Mm.10406	NM_025848	ENSMUSG00000000171	Sdhd	3110001M13Rik|AVLL5809|C78570|PRO19626	succinate dehydrogenase complex, subunit D, integral membrane protein	protein-coding	153.5	185.5	114.0	2168.0	272.0	111.5	106.0	109.5
Merged-chr6-117841174-4	chr6	117841071	117841271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346652)	promoter-TSS (NM_001346652)	-10.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	65.5	52.0	37.5	921.5	114.5	36.5	57.0	51.5
Merged-chr6-47830557-4	chr6	47830456	47830656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177882)	promoter-TSS (NM_177882)	-51.0	NM_177882	330301.0	Mm.128149	NM_177882	ENSMUSG00000051499	Zfp786	A730012O14Rik|Znf786	zinc finger protein 786	protein-coding	62.5	53.0	38.0	898.5	131.5	38.0	67.5	44.5
Merged-chr10-77606135-4	chr10	77606033	77606233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125904)	promoter-TSS (NR_125904)	36.0	NM_019929	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	61.0	112.0	35.0	532.0	184.5	84.0	73.5	55.0
Merged-chr18-56622462-4	chr18	56622379	56622579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34131.0	NM_026099	67343.0	Mm.87057	NM_026099	ENSMUSG00000032900	Tex43	1700065I17Rik|Tseg7	testis expressed 43	protein-coding	20.5	22.5	22.0	466.5	92.5	34.0	48.0	22.0
Merged-chr1-180874222-4	chr1	180874122	180874322	+	914.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18886.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	16.5	24.0	18.0	111.5	52.5	19.5	14.0	25.0
Merged-chr12-69372025-4	chr12	69371896	69372096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007481)	promoter-TSS (NM_007481)	-154.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	104.5	140.5	86.0	1317.5	301.5	146.0	153.0	127.5
Merged-chr11-106276622-4	chr11	106276509	106276709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029467)	promoter-TSS (NM_029467)	-63.0	NM_029467	75870.0	Mm.159608	NM_029467	ENSMUSG00000020712	Tcam1	4930570F09Rik|AI429105	testicular cell adhesion molecule 1	protein-coding	132.5	123.5	52.5	851.5	249.5	123.5	102.5	79.5
Merged-chr1-191327666-4	chr1	191327579	191327779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 1 of 7)	intron (NM_025864, intron 1 of 7)	1714.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	44.0	29.5	37.5	631.5	125.0	21.5	60.0	37.0
Merged-chr10-75589281-4	chr10	75589156	75589356	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011820)	promoter-TSS (NM_011820)	-125.0	NM_011820	23887.0	Mm.257927	NM_011820	ENSMUSG00000006344	Ggt5	AI551243|GGL|GGT-REL|Ggtla1	gamma-glutamyltransferase 5	protein-coding	7.0	7.5	24.0	127.5	22.5	6.5	9.0	8.5
Merged-chr6-128803243-4	chr6	128803117	128803317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14576.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	281.5	380.0	384.5	4098.0	657.0	261.0	323.5	267.0
Merged-chr18-46153247-4	chr18	46153175	46153375	+	873.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45543.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	16.0	8.5	13.5	190.5	40.5	11.5	7.0	12.0
Merged-chr4-86672017-4	chr4	86671937	86672137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1978.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	113.5	133.0	129.0	1356.0	286.5	132.5	121.5	104.0
Merged-chr9-41153075-4	chr9	41152970	41153170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	4992.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	48.0	73.0	76.0	1118.5	117.5	30.0	62.0	40.0
Merged-chr17-34235139-4	chr17	34235029	34235229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3776.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	21.0	27.0	20.5	215.0	103.0	38.5	36.0	33.5
Merged-chr18-61176682-4	chr18	61176605	61176805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178277, exon 1 of 20)	5' UTR (NM_178277, exon 1 of 20)	344.0	NM_178277	106894.0	Mm.22574	NM_134134	ENSMUSG00000024622	Hmgxb3	2510002C16Rik|A630042L21Rik|AI413166|mKIAA0194	HMG box domain containing 3	protein-coding	31.0	38.0	41.5	371.0	53.5	24.5	29.5	24.5
Merged-chr2-167335299-4	chr2	167335207	167335407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	13871.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	102.5	153.0	153.5	1983.5	212.0	65.5	102.5	147.0
Merged-chr2-35732215-4	chr2	35732120	35732320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35488.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	105.0	117.0	111.5	1536.5	235.5	86.0	110.5	120.5
Merged-chr3-67587629-4	chr3	67587530	67587730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025813, intron 4 of 15)	MTE2a|LTR|ERVL-MaLR	4862.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	57.5	52.5	28.5	902.0	131.5	30.0	51.0	30.5
Merged-chr12-34433135-4	chr12	34433015	34433215	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024124, exon 4 of 12)	exon (NM_024124, exon 4 of 12)	95774.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	15.0	29.5	12.5	319.5	49.0	15.0	21.5	17.0
Merged-chr19-32775017-1	chr19	32774917	32775117	+	563.0	f0_balb.idr	intron (NM_008960, intron 1 of 8)	B3A|SINE|B2	17440.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	5.5	8.5	4.5	72.0	5.5	0.5	0.0	1.5
Merged-chr5-24360937-3	chr5	24360837	24361037	+	907.8444210000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3882.0	NM_008713	18127.0	Mm.258415	NM_008713	ENSMUSG00000028978	Nos3	2310065A03Rik|Nos-3|eNOS|ecNOS	nitric oxide synthase 3, endothelial cell	protein-coding	6.0	9.5	10.0	87.0	20.5	7.5	5.5	4.5
Merged-chr12-69130100-2	chr12	69130000	69130200	+	701.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29086.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	4.0	6.0	3.0	80.0	24.0	4.5	6.5	8.5
Merged-chr13-98946746-4	chr13	98946663	98946863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-20379.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	22.5	36.5	33.5	430.5	43.5	19.5	23.5	26.0
Merged-chr13-91636198-4	chr13	91636094	91636294	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 4 of 15)	T-rich|Low_complexity|Low_complexity	-105327.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	30.5	30.0	27.0	410.5	57.0	16.0	35.0	34.0
Merged-chr2-130473197-3	chr2	130473098	130473298	+	719.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	22920.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	9.5	13.5	8.5	98.0	6.0	0.0	3.5	2.0
Merged-chr17-62516341-4	chr17	62516239	62516439	+	944.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	364978.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	15.0	46.0	30.5	291.0	36.5	17.5	11.5	18.0
Merged-chr11-105125800-2	chr11	105125700	105125900	+	860.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172567)	promoter-TSS (NM_172567)	-625.0	NM_172567	52686.0	Mm.270091	NM_172567	ENSMUSG00000020691	Mettl2	2810438F06Rik|AW493404|C130031G21Rik|D11Ertd768e|METL|PSENIP1	methyltransferase like 2	protein-coding	4.0	16.5	2.0	68.0	25.0	5.5	5.5	4.5
Merged-chr17-80172901-4	chr17	80172800	80173000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 4 of 6)	intron (NM_176963, intron 4 of 6)	34405.0	NM_001195486	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	75.0	84.5	43.0	1037.0	168.5	60.0	83.5	61.5
Merged-chr1-79848872-4	chr1	79848765	79848965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009255, intron 1 of 8)	intron (NM_009255, intron 1 of 8)	9800.0	NM_009255	20720.0	Mm.3093	NM_009255	ENSMUSG00000026249	Serpine2	B230326M24Rik|PAI-1|PI-7|PI7|PN-1|Spi4	serine (or cysteine) peptidase inhibitor, clade E, member 2	protein-coding	78.0	108.0	113.0	1612.5	202.0	61.0	118.0	89.5
Merged-chr4_GL456216_random-38951-1	chr4_GL456216_random	38851	39051	+	579.0	f0_c57.idr	Intergenic	Intergenic	23070.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	25.0	10.0	7.5	19.5
Merged-chr2-58920335-3	chr2	58920208	58920408	+	936.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	L2a|LINE|L2	165124.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	7.0	5.0	14.0	184.0	26.0	5.5	9.5	19.0
Merged-chr11-98148930-4	chr11	98148837	98149037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028149, intron 1 of 14)	intron (NM_028149, intron 1 of 14)	679.0	NM_028149	72194.0	Mm.218350	NM_028149	ENSMUSG00000020883	Fbxl20	2610511F20Rik|4632423N09Rik|AI849362|AL117906|C86145|Fbl2|Scr|mKIAA4147	F-box and leucine-rich repeat protein 20	protein-coding	48.0	54.5	39.0	501.5	102.5	28.5	43.5	46.0
Merged-chr12-54203862-4	chr12	54203768	54203968	+	855.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028133)	promoter-TSS (NM_028133)	6.0	NM_028133	112407.0	Mm.133037	NM_028133	ENSMUSG00000035105	Egln3	2610021G09Rik|AI505553|AI648162|Hif-p4h-3|Phd3|SM-20	egl-9 family hypoxia-inducible factor 3	protein-coding	12.0	26.5	15.0	220.5	48.0	8.5	22.5	24.0
Merged-chr14-45677415-4	chr14	45677290	45677490	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19247.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	95.5	157.5	165.5	1663.0	76.5	27.5	32.5	21.0
Merged-chr12-69516710-4	chr12	69516614	69516814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41164.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	106.5	134.0	91.5	1672.5	272.0	100.5	118.5	104.5
Merged-chr12-85492287-4	chr12	85492205	85492405	+	990.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18415.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	25.0	21.0	10.5	207.0	38.5	30.0	27.5	27.0
Merged-chr17-7925413-4	chr17	7925298	7925498	+	982.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145968)	promoter-TSS (NM_145968)	-602.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	30.5	74.0	19.0	164.0	72.0	16.5	19.0	19.5
Merged-chr1-131659728-4	chr1	131659624	131659824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007799, intron 1 of 9)	intron (NM_007799, intron 1 of 9)	21410.0	NM_007799	13034.0	Mm.230249	NM_007799	ENSMUSG00000004552	Ctse	A430072O03Rik|C920004C08Rik|CE|CatE	cathepsin E	protein-coding	85.0	137.0	89.5	1630.0	299.5	96.5	120.5	156.5
Merged-chr12-103343659-4	chr12	103343559	103343759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 2 of 9)	intron (NM_023049, intron 2 of 9)	12342.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	157.5	203.0	164.5	3111.0	417.0	117.0	229.0	149.0
Merged-chr1-85598315-1	chr1	85598215	85598415	+	643.666687	f1_balb.idr	intron (NM_030194, intron 1 of 11)	intron (NM_030194, intron 1 of 11)	495.0	NM_030194	109032.0	Mm.335802	NM_030194	ENSMUSG00000070034	Sp110	5031415C07Rik|52kDa|5830484A20Rik|Ifi75|Ipr1	Sp110 nuclear body protein	protein-coding	5.0	6.0	6.5	43.0	1.5	1.0	2.5	2.0
Merged-chr1-36071782-2	chr1	36071682	36071882	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	3382.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	4.5	16.0	11.0	130.0	16.5	7.0	5.0	7.5
Merged-chr12-76319087-4	chr12	76318970	76319170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138745, intron 27 of 27)	HAL1|LINE|L1	-5821.0	NM_001101471	238276.0	Mm.311452	NM_001101471	ENSMUSG00000021057	Akap5	3526401B18Rik|AKAP 150|AKAP-5|AKAP150|BB098886|Gm258|P150	A kinase (PRKA) anchor protein 5	protein-coding	111.0	192.5	142.0	2803.0	380.5	133.0	166.5	158.0
Merged-chr12-59032287-3	chr12	59032170	59032370	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	18879.0	NM_025656	66603.0	Mm.35353	NM_025656	ENSMUSG00000060121	Gemin2	Sip1|gemin-2	gem nuclear organelle associated protein 2	protein-coding	16.5	37.0	9.5	202.0	12.5	8.5	17.5	8.0
Merged-chr5-29893972-3	chr5	29893861	29894061	+	627.966675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119153.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	3.0	1.0	1.0	31.0	18.5	6.0	8.0	6.0
Merged-chr9-71179495-4	chr9	71179399	71179599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110517, intron 5 of 5)	MIR|SINE|MIR	10723.0	NR_110517	102635087.0	Mm.444536	NR_110517	ENSMUSG00000111429	Gm32511	-	predicted gene, 32511	ncRNA	20.5	38.5	28.5	360.5	94.5	29.5	27.0	43.0
Merged-chr17-21650602-4	chr17	21650501	21650701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166497)	promoter-TSS (NM_001166497)	-10.0	NM_001166497	73229.0	Mm.296733	NM_001166497	ENSMUSG00000035868	Zfp983	3110052M02Rik|mszf57|mszf71	zinc finger protein 983	protein-coding	135.0	222.0	109.5	1499.0	429.0	162.5	232.0	172.5
Merged-chr1-88228514-6	chr1	88228515	88228715	+	902.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281466, intron 3 of 41)	intron (NM_001281466, intron 3 of 41)	1595.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	3.0	3.5	5.0	38.0	13.0	5.0	6.0	8.5
Merged-chr1-172475316-4	chr1	172475209	172475409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029612)	promoter-TSS (NM_029612)	-51.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	73.0	87.0	82.0	1359.0	164.5	83.0	83.5	88.5
Merged-chr11-103389916-4	chr11	103389838	103390038	+	973.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 4 of 11)	L1M2|LINE|L1	22726.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	17.5	32.5	18.0	387.0	52.0	11.0	17.5	29.5
Merged-chr11-115694198-4	chr11	115694108	115694308	+	896.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	5326.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	15.5	12.0	3.5	248.5	26.5	8.0	7.0	16.5
Merged-chr1-14505094-3	chr1	14504966	14505166	+	669.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-194867.0	NM_010164	14048.0	Mm.250185	NM_010164	ENSMUSG00000025932	Eya1	bor	EYA transcriptional coactivator and phosphatase 1	protein-coding	10.0	5.0	7.0	107.0	6.0	8.0	6.0	3.0
Merged-chr12-76614544-4	chr12	76614428	76614628	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 15 of 35)	intron (NM_013675, intron 15 of 35)	-66603.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	14.5	15.5	12.0	141.5	55.5	13.0	7.5	16.0
Merged-chr11-55113680-4	chr11	55113578	55113778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010299)	TTS (NM_010299)	15693.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	160.5	207.5	196.0	3027.0	329.5	130.5	181.5	149.0
Merged-chr11-120597790-7	chr11	120597671	120597871	+	832.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025389)	promoter-TSS (NM_025389)	594.0	NM_011568	21681.0	Mm.1886	NM_011568	ENSMUSG00000025134	Alyref	Aly|Ref1|Ref1-I|Refbp1|Tho4|Thoc4	Aly/REF export factor	protein-coding	6.0	14.0	13.5	115.0	32.0	8.5	11.5	15.0
Merged-chr7-16910142-4	chr7	16910042	16910242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008967, exon 2 of 2)	3' UTR (NM_008967, exon 2 of 2)	3652.0	NM_008967	19222.0	Mm.287572	NM_008967	ENSMUSG00000043017	Ptgir	IP|PGI2	prostaglandin I receptor (IP)	protein-coding	51.0	112.5	70.5	1257.5	73.0	42.0	97.0	52.5
Merged-chr16-32179670-4	chr16	32179548	32179748	+	647.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033539)	promoter-TSS (NM_001033539)	-152.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	12.5	9.0	8.5	98.5	29.5	6.5	10.5	14.0
Merged-chr7-49397930-3	chr7	49397837	49398037	+	732.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 3 of 37)	intron (NM_175272, intron 3 of 37)	151748.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	5.5	4.5	10.0	239.0	3.0	1.5	1.0	4.0
Merged-chr11-80178510-3	chr11	80178438	80178638	+	831.023804	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172133, exon 11 of 11)	3' UTR (NM_172133, exon 11 of 11)	-5334.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	7.0	4.5	14.0	68.0	2.5	3.0	3.0	5.5
Merged-chr14-8132966-4	chr14	8132842	8133042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 4 of 19)	intron (NM_001360314, intron 4 of 19)	34731.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	94.5	175.5	141.5	2014.0	258.5	87.5	117.5	108.0
Merged-chr14-48590125-3	chr14	48590030	48590230	+	900.6333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72604.0	NM_001360226	18424.0	Mm.134516	NM_144841	ENSMUSG00000021848	Otx2	E130306E05Rik	orthodenticle homeobox 2	protein-coding	32.0	40.5	19.0	527.0	1.0	1.5	3.0	1.0
Merged-chr8-111539978-4	chr8	111539861	111540061	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	MIRc|SINE|MIR	1618.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	17.0	14.0	30.5	287.5	32.0	7.5	12.5	8.0
Merged-chr2-145998238-3	chr2	145998125	145998325	+	938.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63441.0	NM_175280	78774.0	Mm.136347	NM_175280	ENSMUSG00000037143	Cfap61	4930529M08Rik|BB178539|BC024760	cilia and flagella associated protein 61	protein-coding	7.0	12.0	7.0	191.0	20.0	6.0	11.5	12.0
Merged-chr18-75599237-4	chr18	75599200	75599400	+	660.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 6 of 11)	intron (NM_201354, intron 6 of 11)	84655.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	4.0	5.0	5.0	41.0	25.0	5.0	7.0	6.5
Merged-chr11-70795700-4	chr11	70795601	70795801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 3 of 4)	MTB|LTR|ERVL-MaLR	16860.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	45.5	96.0	48.0	330.5	94.0	41.0	43.0	40.0
Merged-chr7-96483064-4	chr7	96482960	96483160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 3 of 32)	intron (NM_011858, intron 3 of 32)	-141096.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	65.5	32.5	105.5	1442.0	87.5	30.0	37.5	36.0
Merged-chr9-50567626-4	chr9	50567520	50567720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008360, intron 3 of 7)	intron (NM_008360, intron 3 of 7)	-6352.0	NM_025687	66654.0	Mm.442255	NM_025687	ENSMUSG00000032065	Tex12	5730518K06Rik	testis expressed gene 12	protein-coding	46.0	69.5	66.5	731.5	142.0	47.5	37.0	47.0
Merged-chr12-32191152-4	chr12	32191055	32191255	+	952.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020272, intron 10 of 10)	intron (NM_020272, intron 10 of 10)	17183.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	11.5	10.0	13.5	151.5	65.5	30.0	28.5	28.0
Merged-chr6-54116447-4	chr6	54116340	54116540	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	L3|LINE|CR1	76508.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	38.0	47.5	43.0	550.5	26.5	12.5	16.5	4.5
Merged-chr1-45837876-2	chr1	45837776	45837976	+	762.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42710.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	7.0	5.0	6.5	126.5	7.0	6.0	4.0	4.0
Merged-chr11-114929292-3	chr11	114929213	114929413	+	712.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199221, intron 1 of 3)	MTEa|LTR|ERVL-MaLR	5073.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	10.0	6.0	4.5	79.5	9.0	3.0	3.5	1.0
Merged-chr9-22649777-3	chr9	22649679	22649879	+	714.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360259, intron 15 of 22)	intron (NM_001360259, intron 15 of 22)	174064.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	8.0	13.5	6.0	140.0	13.0	8.5	8.0	11.0
Merged-chr7-45643739-4	chr7	45643643	45643843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172418, intron 7 of 9)	intron (NM_172418, intron 7 of 9)	3766.0	NM_172418	74490.0	Mm.107442	NM_172418	ENSMUSG00000042918	Mamstr	2810022D01Rik|5430432N15Rik|AW743872|Mastr	MEF2 activating motif and SAP domain containing transcriptional regulator	protein-coding	77.0	122.5	95.0	722.0	198.5	81.5	76.0	75.0
Merged-chr1-91053405-1	chr1	91053305	91053505	+	1000.0	f0_balb.idr	promoter-TSS (NM_001310732)	promoter-TSS (NM_001310732)	-39.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	41.0	50.5	35.0	532.0	135.5	39.0	89.0	60.5
Merged-chr2-83728567-4	chr2	83728487	83728687	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 1 of 29)	intron (NM_008402, intron 1 of 29)	4190.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	23.0	19.5	25.0	511.5	93.0	24.0	38.5	42.0
Merged-chr15-25896964-4	chr15	25896870	25897070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 3 of 8)	intron (NM_001034851, intron 3 of 8)	-36582.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	52.0	72.0	44.5	1094.0	135.5	40.5	59.0	57.5
Merged-chr4-88763585-4	chr4	88763496	88763696	+	922.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	2822.0	NM_001085531	545645.0	Mm.489553	NM_001085531	ENSMUSG00000100505	Gm13283	EG545645	predicted gene 13283	protein-coding	13.0	9.5	6.5	172.5	92.5	33.0	41.0	42.5
Merged-chr18-4924200-3	chr18	4924103	4924303	+	905.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111717.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	7.0	9.0	16.0	213.5	9.0	0.0	6.5	8.0
Merged-chr14-65113973-5	chr14	65113804	65114004	+	814.213318	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-15798.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	9.0	5.5	12.5	94.0	15.0	7.0	6.5	14.0
Merged-chr15-73724700-4	chr15	73724602	73724802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166388)	promoter-TSS (NM_001166388)	-95.0	NM_001357591	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	65.0	98.0	51.5	949.5	178.5	63.5	117.0	56.0
Merged-chr10-20774055-4	chr10	20773918	20774118	+	913.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-48940.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	24.0	19.5	19.5	225.0	41.0	11.5	19.0	19.5
Merged-chr14-21848388-4	chr14	21848325	21848525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_176925, exon 1 of 3)	5' UTR (NM_176925, exon 1 of 3)	485.0	NM_026965	69156.0	Mm.11827	NM_026965	ENSMUSG00000021773	Comtd1	1810030M08Rik|MT773	catechol-O-methyltransferase domain containing 1	protein-coding	23.5	43.0	22.0	283.5	47.0	24.5	26.0	10.0
Merged-chr9-111039168-4	chr9	111039084	111039284	+	902.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008522, intron 15 of 16)	intron (NM_008522, intron 15 of 16)	18060.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	9.0	11.0	9.5	101.0	48.0	14.0	27.0	14.0
Merged-chr15-25987216-4	chr15	25987100	25987300	+	892.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144523, exon 3 of 6)	exon (NM_144523, exon 3 of 6)	2834.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	13.0	37.5	11.0	416.0	56.0	9.5	22.5	17.0
Merged-chr7-27689387-4	chr7	27689264	27689464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001112731)	promoter-TSS (NM_001112731)	24.0	NM_001112731	112415.0	Mm.145362	NM_198417	ENSMUSG00000057093	Zfp607b	C030039L03Rik	zinc finger protein 607B	protein-coding	258.5	395.5	284.5	4504.5	474.0	218.0	272.5	237.5
Merged-chr4-137913550-5	chr4	137913477	137913677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 2 of 19)	CpG	51340.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	53.5	77.5	65.5	775.5	94.0	26.0	21.5	21.0
Merged-chr4-54669272-2	chr4	54669171	54669371	+	684.5	f0_balb.idr|f1_balb.idr	Intergenic	L2c|LINE|L2	-278674.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	8.0	13.0	7.0	237.5	2.5	0.5	0.0	0.0
Merged-chr5-43818894-4	chr5	43818830	43819030	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009763)	promoter-TSS (NM_009763)	37.0	NM_009763	12182.0	Mm.246332	NM_009763	ENSMUSG00000029082	Bst1	114/A10|A530073F09|BP-3|Bp3|Bsta1|CD157|Ly65	bone marrow stromal cell antigen 1	protein-coding	19.5	22.5	27.5	335.5	21.5	13.0	16.0	16.0
Merged-chr4-118107460-3	chr4	118107393	118107593	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285520, intron 2 of 11)	intron (NM_001285520, intron 2 of 11)	27453.0	NM_001285520	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	27.5	32.5	28.5	331.0	9.0	8.0	2.5	1.5
Merged-chr13-101905889-4	chr13	101905785	101905985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137668.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	50.5	54.0	93.5	861.5	82.5	28.5	49.0	47.5
Merged-chr7-3707223-4	chr7	3707077	3707277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029767)	TTS (NM_029767)	3136.0	NM_029767	76846.0	Mm.13944	NM_029767	ENSMUSG00000006333	Rps9	3010033P07Rik|AL022771|AL022885	ribosomal protein S9	protein-coding	122.0	228.0	152.5	1721.0	220.5	77.0	128.5	79.5
Merged-chr7-99159326-1	chr7	99159226	99159426	+	1000.0	f1_balb.idr	intron (NM_026384, intron 4 of 7)	intron (NM_026384, intron 4 of 7)	-18182.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	17.0	14.5	7.0	115.0	43.0	11.0	23.5	12.5
Merged-chr5-112298827-3	chr5	112298719	112298919	+	953.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	22128.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	12.0	12.0	9.5	268.5	14.5	7.0	7.5	15.5
Merged-chr8-70562932-4	chr8	70562832	70563032	+	918.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	23257.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	14.5	28.5	27.5	421.5	11.5	11.0	18.0	15.5
Merged-chr6-87189968-4	chr6	87189862	87190062	+	910.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054041, intron 14 of 17)	intron (NM_054041, intron 14 of 17)	85216.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	11.5	5.5	17.0	298.5	33.0	12.5	12.0	9.0
Merged-chr4-9610207-4	chr4	9610114	9610314	+	829.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 4 of 22)	intron (NM_001290367, intron 4 of 22)	33503.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	9.0	24.0	3.0	157.0	47.5	16.5	17.0	18.0
Merged-chr5-145231767-4	chr5	145231670	145231870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083958)	promoter-TSS (NM_001083958)	11.0	NM_028298	72611.0	Mm.206555	NM_028298	ENSMUSG00000007812	Zfp655	2700038I16Rik|9030409O18Rik|mKIAA4222	zinc finger protein 655	protein-coding	152.5	295.0	117.5	1910.5	387.0	144.5	160.5	137.5
Merged-chr5-90661620-4	chr5	90661519	90661719	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21092.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	18.5	17.5	19.0	244.5	41.5	9.5	23.5	14.0
Merged-chr5-3494598-4	chr5	3494568	3494768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-49165.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	51.0	81.5	44.0	405.5	79.5	23.5	42.5	34.5
Merged-chr6-136656443-4	chr6	136656345	136656545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	5448.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	37.5	70.0	43.0	975.0	54.0	28.0	27.0	15.0
Merged-chr8-108743379-4	chr8	108743267	108743467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	28723.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	45.5	46.5	50.5	840.0	84.0	24.5	32.5	55.5
Merged-chr12-55836775-4	chr12	55836677	55836877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155205, intron 1 of 10)	CpG	411.0	NR_155205	52592.0	Mm.24761	NM_027867	ENSMUSG00000012076	Brms1l	0710008O11Rik|AI159718|BRMS1|D12Ertd407e	breast cancer metastasis-suppressor 1-like	protein-coding	35.5	30.5	56.0	547.0	58.0	18.5	22.5	27.5
Merged-chr11-54619102-4	chr11	54618990	54619190	+	958.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 7 of 28)	intron (NM_001252494, intron 7 of 28)	22944.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	32.5	28.0	29.0	223.0	42.5	13.0	18.5	19.0
Merged-chr17-24344858-3	chr17	24344708	24344908	+	910.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031621, intron 2 of 29)	intron (NM_001031621, intron 2 of 29)	2444.0	NM_001031621	381072.0	Mm.328842	NM_001031621	ENSMUSG00000035435	Abca17	-	ATP-binding cassette, sub-family A (ABC1), member 17	protein-coding	3.5	8.0	7.5	49.5	43.0	23.5	22.5	17.0
Merged-chr16-19768248-3	chr16	19768144	19768344	+	992.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159408, intron 4 of 4)	intron (NM_001159408, intron 4 of 4)	8010.0	NM_001159407	108105.0	Mm.33935	NM_054052	ENSMUSG00000022686	B3gnt5	beta3GnT5	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 5	protein-coding	7.0	6.5	12.0	204.0	8.5	9.0	8.0	6.0
Merged-chr10-60706454-4	chr10	60706351	60706551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9961.0	NM_023370	22295.0	Mm.440327	NM_023370	ENSMUSG00000012819	Cdh23	4930542A03Rik|USH1D|ahl|ahl1|bob|bus|mdfw|nmf112|nmf181|nmf252|sals|v	cadherin 23 (otocadherin)	protein-coding	145.5	236.0	129.5	2093.0	289.0	98.5	154.0	118.5
Merged-chr16-65629389-4	chr16	65629282	65629482	+	973.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66685.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	22.0	14.5	19.5	357.5	40.0	5.0	17.0	14.0
Merged-chr8-120743752-4	chr8	120743645	120743845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008320, exon 3 of 9)	exon (NM_008320, exon 3 of 9)	5106.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	79.5	81.0	133.0	1641.5	162.5	44.0	77.0	94.0
Merged-chr16-13256492-7	chr16	13256408	13256608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122667)	promoter-TSS (NM_001122667)	27.0	NM_001122667	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	40.5	52.0	33.5	601.5	130.5	57.0	52.5	61.5
Merged-chr8-69974416-4	chr8	69974301	69974501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113346)	promoter-TSS (NM_001113346)	-18.0	NM_001113346	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	113.5	160.5	103.5	1350.0	300.5	101.0	97.0	79.5
Merged-chr8-108820760-3	chr8	108820652	108820852	+	990.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 3 of 9)	intron (NM_007496, intron 3 of 9)	106108.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	14.5	28.0	9.0	206.0	19.5	6.0	14.0	1.5
Merged-chr15-76795018-4	chr15	76794929	76795129	+	909.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	23141.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	22.0	18.5	22.0	296.5	27.5	7.5	7.5	10.5
Merged-chr14-74977148-3	chr14	74977053	74977253	+	856.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046078, intron 2 of 2)	intron (NR_046078, intron 2 of 2)	2067.0	NR_046078	100043169.0	Mm.145900	NR_046078	ENSMUSG00000115019	Gm4278	-	predicted gene 4278	ncRNA	14.5	10.0	9.0	178.0	14.0	5.5	9.0	10.0
Merged-chr3-89459165-4	chr3	89459053	89459253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026784)	promoter-TSS (NM_026784)	35.0	NM_026784	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	81.5	68.5	33.0	651.5	143.0	44.0	35.5	40.5
Merged-chr4-116704013-4	chr4	116703913	116704113	+	778.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025962, intron 3 of 3)	B3|SINE|B2	4372.0	NM_025962	67096.0	Mm.252785	NM_025962	ENSMUSG00000028690	Mmachc	1810037K07Rik|CblC	methylmalonic aciduria cblC type, with homocystinuria	protein-coding	7.5	11.0	11.0	81.5	27.5	15.0	12.0	13.0
Merged-chr4-150341392-2	chr4	150341299	150341499	+	817.25	f0_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	MTA_Mm|LTR|ERVL-MaLR	59483.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	30.5	30.5	14.5	141.0	21.0	7.5	5.0	12.5
Merged-chr15-79229246-4	chr15	79229152	79229352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008837)	promoter-TSS (NM_008837)	79.0	NM_008837	18693.0	Mm.259464	NM_008837	ENSMUSG00000068206	Pick1	Prkcabp	protein interacting with C kinase 1	protein-coding	41.5	70.5	53.0	413.0	89.0	31.5	39.0	60.0
Merged-chr17-87734880-4	chr17	87734792	87734992	+	903.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	62335.0	NM_008628	17685.0	Mm.4619	NM_008628	ENSMUSG00000024151	Msh2	AI788990	mutS homolog 2	protein-coding	7.5	14.5	8.0	149.0	32.5	8.5	12.0	17.5
Merged-chr15-76331210-4	chr15	76331102	76331302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010331)	promoter-TSS (NM_010331)	-92.0	NM_010331	14731.0	Mm.5903	NM_010331	ENSMUSG00000022561	Gpaa1	C80044|mGAA1	GPI anchor attachment protein 1	protein-coding	86.0	125.0	64.5	1315.5	191.0	104.0	93.5	70.0
Merged-chr17-71552011-4	chr17	71551894	71552094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142631)	promoter-TSS (NM_001142631)	-67.0	NM_001142631	70891.0	Mm.477599	NM_029254	ENSMUSG00000052525	Spdya	4921517J08Rik|4930548B21Rik|GS4|MLZ-465|Spdy1	speedy/RINGO cell cycle regulator family, member A	protein-coding	80.5	132.5	77.0	1332.0	238.0	89.0	104.5	100.5
Merged-chr11-77444997-4	chr11	77444763	77444963	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 13 of 14)	intron (NM_177710, intron 13 of 14)	-19050.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	14.5	9.5	11.0	186.0	17.5	13.0	6.5	7.5
Merged-chr2-158136455-4	chr2	158136368	158136568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 3 of 12)	intron (NM_009373, intron 3 of 12)	9924.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	92.0	189.5	259.0	2030.5	238.0	82.5	139.5	106.0
Merged-chr1-173456532-4	chr1	173456447	173456647	+	868.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 5 of 8)	intron (NM_001013779, intron 5 of 8)	35943.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	11.5	24.0	6.0	187.0	56.5	8.0	17.0	17.0
Merged-chr16-52145016-4	chr16	52144900	52145100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 9 of 17)	intron (NM_001033238, intron 9 of 17)	113451.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	50.0	39.5	50.5	881.0	69.5	31.5	32.5	42.0
Merged-chr11-103362948-14	chr11	103362839	103363039	+	936.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205236, intron 1 of 17)	intron (NM_001205236, intron 1 of 17)	753.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	7.5	8.0	9.0	90.5	16.0	7.5	3.5	15.0
Merged-chr9-45281073-4	chr9	45280962	45281162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11913.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	31.0	46.0	28.0	473.0	91.5	24.0	23.0	22.0
Merged-chr8-120763424-4	chr8	120763309	120763509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	24770.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	26.0	25.5	25.0	330.0	61.0	16.5	34.5	34.5
Merged-chr1-62679157-3	chr1	62679053	62679253	+	972.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24164.0	NM_001077406	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	5.5	14.0	7.0	160.5	10.0	0.5	10.0	3.0
Merged-chr2-131091066-4	chr2	131090989	131091189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4324.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	96.5	136.5	109.5	1551.5	126.5	63.5	103.0	89.0
Merged-chr13-60683493-4	chr13	60683340	60683540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	81229.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	44.5	31.0	107.0	1083.0	176.0	42.0	99.0	82.5
Merged-chr6-85451401-4	chr6	85451306	85451506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163427)	promoter-TSS (NM_001163427)	-99.0	NM_007638	12468.0	Mm.289900	NM_007638	ENSMUSG00000030007	Cct7	AA408524|AL022769|Ccth|Cctz	chaperonin containing Tcp1, subunit 7 (eta)	protein-coding	328.0	435.5	348.5	4669.0	746.5	257.5	297.0	237.0
Merged-chr5-123135888-6	chr5	123135843	123136043	+	988.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3314.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	16.5	24.0	12.0	151.5	24.5	13.0	14.0	23.0
Merged-chr9-21969416-4	chr9	21969265	21969465	+	914.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-5789.0	NM_010149	13857.0	Mm.2653	NM_010149	ENSMUSG00000006235	Epor	-	erythropoietin receptor	protein-coding	8.0	18.0	19.5	104.5	22.0	10.0	6.5	12.5
Merged-chr9-31029870-3	chr9	31029708	31029908	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172765)	promoter-TSS (NM_172765)	-836.0	NM_001115130	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	13.5	7.5	13.5	212.0	42.0	13.5	15.0	7.0
Merged-chr11-3266403-4	chr11	3266281	3266481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007879)	promoter-TSS (NM_007879)	82.0	NM_007879	13494.0	Mm.3250	NM_007879	ENSMUSG00000020457	Drg1	AA408859|AI132520|DRG-1|NEDD-3|Nedd3	developmentally regulated GTP binding protein 1	protein-coding	185.5	244.0	203.0	2393.0	413.5	130.5	180.0	138.0
Merged-chr10-60262581-4	chr10	60262464	60262664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15064.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	77.5	74.0	86.0	1226.5	206.0	80.5	77.5	115.0
Merged-chr7-28430715-4	chr7	28430621	28430821	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175021, intron 1 of 12)	intron (NM_175021, intron 1 of 12)	5470.0	NM_175021	233033.0	Mm.54120	NM_175021	ENSMUSG00000109336	Samd4b	BC042901	sterile alpha motif domain containing 4B	protein-coding	19.0	16.5	21.5	288.0	45.0	26.0	19.0	26.0
Merged-chr1-140204043-1	chr1	140203943	140204143	+	574.0	f0_balb.idr	Intergenic	Intergenic	-20632.0	NM_009888	12628.0	Mm.8655	NM_009888	ENSMUSG00000026365	Cfh	Mud-1|NOM|Sas-1|Sas1	complement component factor h	protein-coding	5.5	8.0	10.0	81.0	3.0	1.5	5.5	4.5
Merged-chr6-72428219-4	chr6	72428106	72428306	+	863.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019802, intron 10 of 14)	intron (NM_019802, intron 10 of 14)	-10477.0	NR_046011	78108.0	Mm.440743	NR_046011	ENSMUSG00000108591	Particl	4930414L22Rik|AI449819	promoter of Mat2a antisense radiation induced circulating long non-coding RNA	ncRNA	8.0	19.5	8.0	104.5	38.0	8.5	5.0	8.0
Merged-chr13-52036532-4	chr13	52036449	52036649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60192.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	37.0	37.0	17.0	356.0	77.5	35.5	27.5	35.0
Merged-chr7-104244430-4	chr7	104244330	104244530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357679)	promoter-TSS (NM_001357679)	-27.0	NM_001357679	94094.0	Mm.326945	NM_030684	ENSMUSG00000056144	Trim34a	Trim34|Trim34-1	tripartite motif-containing 34A	protein-coding	92.0	119.0	91.0	1139.0	234.5	76.5	95.5	75.0
Merged-chr2-5811168-1	chr2	5811068	5811268	+	608.0	f0_balb.idr	intron (NM_133837, intron 6 of 12)	intron (NM_133837, intron 6 of 12)	-33866.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	8.5	4.5	8.0	81.0	4.5	5.0	2.0	9.5
Merged-chr2-122569300-2	chr2	122569200	122569400	+	627.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	41977.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	0.0	0.0	0.0	0.0	22.0	5.5	10.0	30.5
Merged-chr9-62811830-6	chr9	62811731	62811931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010193)	promoter-TSS (NM_010193)	-183.0	NM_010193	14155.0	Mm.24069	NM_010193	ENSMUSG00000032244	Fem1b	mKIAA0396	feminization 1 homolog b (C. elegans)	protein-coding	48.0	84.0	62.0	760.5	104.5	43.0	48.5	51.5
Merged-chr2-173218981-4	chr2	173218895	173219095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021394)	promoter-TSS (NM_021394)	-73.0	NM_001139519	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	60.0	99.5	74.5	1313.5	221.0	81.0	89.0	75.5
Merged-chr5-118245122-4	chr5	118245009	118245209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172998)	promoter-TSS (NM_172998)	-84.0	NM_001109902	269695.0	Mm.320042	NM_172998	ENSMUSG00000032850	Rnft2	AW049082|B830028P19Rik|Tmem118	ring finger protein, transmembrane 2	protein-coding	325.5	428.0	277.0	3898.0	741.0	297.5	375.0	305.5
Merged-chr16-17796514-4	chr16	17796411	17796611	+	924.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153790)	promoter-TSS (NM_153790)	-771.0	NM_153790	224024.0	Mm.194950	NM_153790	ENSMUSG00000012017	Scarf2	NSR1|SREC-II|SRECRP-1|Scatf1|Srec2|SrecII	scavenger receptor class F, member 2	protein-coding	8.0	17.0	11.5	145.5	21.5	13.0	11.0	14.0
Merged-chr4-43470496-4	chr4	43470382	43470582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	13227.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	71.0	69.5	62.5	1057.5	102.5	28.5	46.0	42.0
Merged-chr3-103874517-3	chr3	103874413	103874613	+	828.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104070, intron 6 of 22)	intron (NR_104070, intron 6 of 22)	14236.0	NM_008979	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	7.0	12.5	5.0	189.5	21.0	17.0	8.5	9.0
Merged-chr2-73910686-4	chr2	73910667	73910867	+	863.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301721, intron 2 of 4)	CpG	559.0	NM_175015	228033.0	Mm.2966	NM_175015	ENSMUSG00000018770	Atp5g3	6030447M23	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9)	protein-coding	17.0	11.5	31.5	142.0	22.0	10.5	8.5	12.0
Merged-chr18-74268883-2	chr18	74268783	74268983	+	645.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357422, intron 1 of 14)	intron (NM_001357422, intron 1 of 14)	708.0	NM_001357422	17190.0	Mm.22522	NM_013594	ENSMUSG00000024561	Mbd1	Cxxc3|PCM1	methyl-CpG binding domain protein 1	protein-coding	6.0	4.5	9.5	74.0	13.5	3.5	4.0	2.5
Merged-chr9-65539160-2	chr9	65539060	65539260	+	984.8333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40927.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	5.5	10.0	6.5	72.5	20.0	5.0	3.5	3.5
Merged-chr7-4813551-4	chr7	4813484	4813684	+	905.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-1244.0	NM_133777	77891.0	Mm.389787	NM_133777	ENSMUSG00000060860	Ube2s	0910001J09Rik|6720465F12Rik|AA409170|E2-EPF	ubiquitin-conjugating enzyme E2S	protein-coding	18.0	23.0	6.0	122.0	37.0	14.0	11.5	17.0
Merged-chr8-35597256-4	chr8	35597184	35597384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-8264.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	34.5	42.5	42.5	899.0	101.5	33.0	50.5	34.0
Merged-chr15-77832789-4	chr15	77832694	77832894	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	9381.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	25.5	45.5	16.0	210.5	33.5	15.0	10.5	23.5
Merged-chr10-60081250-4	chr10	60081173	60081373	+	786.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026937, intron 9 of 10)	intron (NM_026937, intron 9 of 10)	-24984.0	NM_052994	94214.0	Mm.153429	NM_052994	ENSMUSG00000058297	Spock2	AA407235|Gcap26|mKIAA0275	sparc/osteonectin, cwcv and kazal-like domains proteoglycan 2	protein-coding	7.5	11.5	6.5	135.0	19.5	5.0	12.0	8.5
Merged-chr9-59353415-4	chr9	59353300	59353500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153195, intron 1 of 15)	CpG	108.0	NM_001359558	102774.0	Mm.200714	NM_175325	ENSMUSG00000025235	Bbs4	AW537059|AW742241|D9Ertd464e	Bardet-Biedl syndrome 4 (human)	protein-coding	99.0	153.0	80.5	1121.5	233.5	73.0	86.0	61.0
Merged-chr8-121643594-5	chr8	121643434	121643634	+	958.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080855, intron 1 of 12)	intron (NM_080855, intron 1 of 12)	8399.0	NM_080855	142682.0	Mm.103202	NM_080855	ENSMUSG00000061410	Zcchc14	AA792890|BDG29	zinc finger, CCHC domain containing 14	protein-coding	10.0	22.0	52.0	878.0	38.0	4.0	24.5	11.5
Merged-chr3-96697080-4	chr3	96696977	96697177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018812)	promoter-TSS (NM_018812)	1.0	NM_018812	229615.0	Mm.1635	NM_018812	ENSMUSG00000028101	Pias3	Pias3l	protein inhibitor of activated STAT 3	protein-coding	84.0	123.0	51.0	1038.0	147.5	73.5	94.0	52.5
Merged-chr10-51454593-4	chr10	51454508	51454708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-26004.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	71.5	117.0	42.0	853.0	158.5	56.5	63.5	69.0
Merged-chr9-14244600-4	chr9	14244486	14244686	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31715.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	55.0	49.0	47.5	1187.0	90.5	13.0	32.0	41.5
Merged-chr2-91476364-4	chr2	91476272	91476472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001145857, exon 9 of 12)	exon (NM_001145857, exon 9 of 12)	18841.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	34.5	59.5	39.5	643.0	72.0	38.5	59.0	44.0
Merged-chr12-119238605-5	chr12	119238534	119238734	+	942.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177290)	promoter-TSS (NM_177290)	-358.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	7.5	10.0	14.5	136.5	34.0	12.5	12.0	10.5
Merged-chr17-50130539-4	chr17	50130445	50130645	+	980.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	59952.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	19.5	20.5	24.0	379.5	38.5	17.0	20.5	10.5
Merged-chr16-20693679-3	chr16	20693582	20693782	+	912.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001304432)	TTS (NM_001304432)	-1375.0	NM_133778	78408.0	Mm.196512	NM_133778	ENSMUSG00000050821	Fam131a	2900046G09Rik	family with sequence similarity 131, member A	protein-coding	24.0	27.0	14.5	108.5	43.5	22.0	16.5	26.5
Merged-chr11-79520904-4	chr11	79520773	79520973	+	981.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077496, intron 1 of 1)	intron (NM_001077496, intron 1 of 1)	2889.0	NM_001077496	216984.0	Mm.439665	NM_001077496	ENSMUSG00000093938	Evi2b	Evi-2|Evi2	ecotropic viral integration site 2b	protein-coding	19.5	23.0	9.0	128.0	43.0	23.5	14.5	21.5
Merged-chr9-57259934-4	chr9	57259823	57260023	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028820, intron 1 of 2)	intron (NM_028820, intron 1 of 2)	2676.0	NM_028820	74211.0	Mm.428905	NM_028820	ENSMUSG00000032300	1700017B05Rik	AA682102|D9Ertd278e	RIKEN cDNA 1700017B05 gene	protein-coding	37.5	58.0	13.5	368.5	55.0	34.5	32.5	24.0
Merged-chr4-132573540-4	chr4	132573462	132573662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081211, intron 1 of 1)	intron (NM_001081211, intron 1 of 1)	9495.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	47.5	83.0	32.0	520.5	146.0	37.5	33.5	64.0
Merged-chr19-37147359-4	chr19	37147265	37147465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 2 of 10)	PB1D9|SINE|Alu	-26478.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	93.5	96.0	95.5	1566.5	145.0	37.0	91.5	54.5
Merged-chr1-105990414-4	chr1	105990312	105990512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122676)	promoter-TSS (NM_001122676)	6.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	389.5	671.0	608.5	6695.5	1146.5	482.0	584.0	456.5
Merged-chr10-127320300-4	chr10	127320241	127320441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1623.0	NM_001285785	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	19.0	48.0	36.5	671.5	45.5	24.0	31.5	43.5
Merged-chr3-89764406-4	chr3	89764267	89764467	+	917.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009602, exon 1 of 6)	exon (NM_009602, exon 1 of 6)	265.0	NM_009602	11444.0	Mm.35088	NM_009602	ENSMUSG00000027950	Chrnb2	Acrb-2|Acrb2|C030030P04Rik|[b]2-nAchR	cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal)	protein-coding	6.5	22.0	6.5	131.5	18.5	7.0	13.0	9.0
Merged-chr1-143985263-4	chr1	143985178	143985378	+	863.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18871.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	11.5	6.5	16.5	274.0	19.5	6.0	15.5	8.0
Merged-chr6-66946118-3	chr6	66945989	66946189	+	723.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177560, intron 3 of 4)	intron (NM_001177560, intron 3 of 4)	49198.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	8.5	7.0	11.0	121.0	5.5	7.5	13.0	11.5
Merged-chr11-97988177-4	chr11	97988083	97988283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1737.0	NM_001163608	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	30.0	46.0	24.5	267.0	85.5	36.5	23.5	28.5
Merged-chr19-11581423-2	chr19	11581346	11581546	+	671.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23358.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	10.5	10.0	1.0	59.0	5.0	5.0	5.5	7.0
Merged-chr1-177489997-4	chr1	177489926	177490126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44205.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	64.5	88.0	89.5	1372.0	155.5	38.5	57.0	93.5
Merged-chr3-145924123-4	chr3	145924034	145924234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009740)	promoter-TSS (NM_009740)	-128.0	NM_009740	12042.0	Mm.239141	NM_009740	ENSMUSG00000028191	Bcl10	AI132454|BCL-10|C81403|CARMEN|CIPER|CLAP|ME10|cE10	B cell leukemia/lymphoma 10	protein-coding	613.0	919.5	776.5	9762.0	1485.5	597.0	841.5	566.0
Merged-chr15-58144740-3	chr15	58144642	58144842	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029734, intron 1 of 5)	intron (NM_029734, intron 1 of 5)	3376.0	NM_001326599	76773.0	Mm.26771	NM_029734	ENSMUSG00000022359	Wdyhv1	2410187C16Rik|AU014961|AW550036|Ntaq1	WDYHV motif containing 1	protein-coding	47.0	44.0	22.5	905.0	8.5	3.0	4.5	4.0
Merged-chr10-67187327-4	chr10	67187225	67187425	+	923.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242396, intron 1 of 24)	intron (NM_001242396, intron 1 of 24)	1575.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	11.5	15.0	12.0	172.5	42.0	12.5	15.5	11.0
Merged-chr5-137510295-4	chr5	137510187	137510387	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGG)n|Simple_repeat|Simple_repeat	-7858.0	NM_028753	74097.0	Mm.290242	NM_028753	ENSMUSG00000029715	Pop7	0610037N12Rik|AI852017|Rpp20	processing of precursor 7, ribonuclease P family, (S. cerevisiae)	protein-coding	23.0	43.5	30.5	223.0	69.5	23.0	18.5	19.0
Merged-chr4-126438061-4	chr4	126437983	126438183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001317173, exon 19 of 19)	3' UTR (NM_001317173, exon 19 of 19)	-8541.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	61.0	110.0	34.5	527.0	149.5	51.0	41.0	30.5
Merged-chr11-103019073-4	chr11	103018953	103019153	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1906.0	NM_026551	68087.0	Mm.277449	NM_026551	ENSMUSG00000020935	Dcakd	3010024O21Rik|6720485C15Rik|AI849483	dephospho-CoA kinase domain containing	protein-coding	22.5	46.0	52.5	665.0	56.5	15.5	40.0	41.5
Merged-chr10-10558239-4	chr10	10558148	10558348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026405)	promoter-TSS (NM_026405)	-41.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	261.5	394.5	269.0	5487.0	641.0	181.5	300.0	229.5
Merged-chr18-52600701-4	chr18	52600608	52600808	+	794.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15207.0	NM_025749	66758.0	Mm.251599	NM_025749	ENSMUSG00000046886	Zfp474	4933409D10Rik|Znf474	zinc finger protein 474	protein-coding	1.5	10.5	5.0	68.5	11.5	7.5	10.0	10.5
Merged-chr5-136246596-4	chr5	136246481	136246681	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1641.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	30.5	55.5	19.5	366.5	84.5	46.0	36.0	20.5
Merged-chr3-57696440-4	chr3	57696335	57696535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3898.0	NM_001033349	242037.0	Mm.291091	NM_001033349	ENSMUSG00000074591	Ankub1	Gm410	ankrin repeat and ubiquitin domain containing 1	protein-coding	28.5	36.0	18.5	449.5	77.5	16.5	26.0	31.5
Merged-chr2-28699872-6	chr2	28699761	28699961	+	868.5347289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027283)	promoter-TSS (NM_027283)	-210.0	NM_027283	69987.0	Mm.239376	NM_027283	ENSMUSG00000026809	Spaca9	1700026L06Rik|MAST	sperm acrosome associated 9	protein-coding	12.0	10.0	4.0	44.5	31.5	9.0	4.5	10.0
Merged-chr10-16751721-4	chr10	16751623	16751823	+	827.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	344059.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	17.0	17.0	21.5	337.0	27.0	6.5	12.0	11.5
Merged-chr4-122860210-4	chr4	122860121	122860321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007598, intron 12 of 12)	intron (NM_007598, intron 12 of 12)	23994.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	19.5	40.5	30.0	581.5	94.0	18.0	36.0	28.0
Merged-chr12-85602468-2	chr12	85602368	85602568	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	intron (NM_001205053, intron 1 of 3)	2450.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	11.0	10.0	12.0	113.0	7.5	9.5	7.5	10.0
Merged-chr17-83846474-3	chr17	83846386	83846586	+	696.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025325, intron 1 of 9)	intron (NM_025325, intron 1 of 9)	304.0	NM_025325	107766.0	Mm.30100	NM_025325	ENSMUSG00000000673	Haao	0610007K21Rik|0610012J07Rik|3-HAO|3-HAOxase|3HAO	3-hydroxyanthranilate 3,4-dioxygenase	protein-coding	4.0	12.0	3.0	62.0	27.0	7.5	9.0	9.0
Merged-chr15-77610454-3	chr15	77610360	77610560	+	934.8444210000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB1|LINE|L1	-14335.0	NM_177820	328561.0	Mm.379486	NM_177820	ENSMUSG00000050014	Apol10b	9130218O11Rik	apolipoprotein L 10B	protein-coding	1.0	9.0	4.5	39.0	37.5	15.5	17.5	14.5
Merged-chr2-84064613-4	chr2	84064527	84064727	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-123401.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	11.5	21.5	7.5	89.5	15.0	2.5	10.5	3.0
Merged-chr6-83506967-4	chr6	83506847	83507047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162521)	promoter-TSS (NM_001162521)	22.0	NM_013764	27369.0	Mm.42234	NM_013764	ENSMUSG00000014554	Dguok	dGK|dGK1|dGK2|dGK3	deoxyguanosine kinase	protein-coding	246.5	395.5	192.0	3350.5	589.0	253.0	262.5	203.5
Merged-chr3-90446600-4	chr3	90446527	90446727	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12991.0	NM_178876	229543.0	Mm.268564	NM_145540	ENSMUSG00000027933	Ints3	C77668	integrator complex subunit 3	protein-coding	31.5	25.0	16.5	215.5	36.0	14.0	26.5	11.0
Merged-chr2-151994398-3	chr2	151994297	151994497	+	790.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-2114.0	NM_027172	69698.0	Mm.258262	NM_027172	ENSMUSG00000027463	Slc52a3	2310046K01Rik|RFT2	solute carrier protein family 52, member 3	protein-coding	10.5	7.5	10.0	164.5	8.5	5.5	7.0	10.0
Merged-chr5-135898283-2	chr5	135898183	135898383	+	635.6999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10364.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	1.5	9.0	8.0	23.5	8.5	6.0	5.5	5.0
Merged-chr6-108569628-4	chr6	108569530	108569730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53537.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	34.0	90.0	39.0	543.0	124.5	19.0	22.0	32.5
Merged-chr5-99235133-4	chr5	99235026	99235226	+	940.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145839, intron 4 of 13)	intron (NM_145839, intron 4 of 13)	17801.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	16.0	18.5	7.0	178.5	57.0	24.0	16.0	18.0
Merged-chr12-81735940-2	chr12	81735840	81736040	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001174107, intron 3 of 10)	intron (NM_001174107, intron 3 of 10)	45230.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	3.0	9.5	1.5	66.0	11.5	10.5	17.0	7.5
Merged-chr7-45405235-4	chr7	45405158	45405358	+	925.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010596)	promoter-TSS (NM_010596)	-702.0	NM_010596	16495.0	Mm.12955	NM_010596	ENSMUSG00000038201	Kcna7	Kv1.7	potassium voltage-gated channel, shaker-related subfamily, member 7	protein-coding	12.0	12.0	3.0	168.5	32.5	14.5	8.0	15.5
Merged-chr1-60180430-4	chr1	60180322	60180522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173444)	promoter-TSS (NM_173444)	-177.0	NM_173444	269198.0	Mm.205224	NM_173444	ENSMUSG00000073664	Nbeal1	2310076G13Rik|A530050O19Rik|A530083I02Rik|AI662228|ALS2CR17	neurobeachin like 1	protein-coding	310.0	439.0	282.5	4408.0	781.5	289.5	341.5	300.5
Merged-chr12-70232112-4	chr12	70232013	70232213	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045174, exon 2 of 5)	non-coding (NR_045174, exon 2 of 5)	4272.0	NR_045174	414124.0	Mm.416164	NR_045174	ENSMUSG00000085298	F730035M05Rik	-	RIKEN cDNA F730035M05 gene	ncRNA	20.5	10.0	7.5	228.5	18.0	4.5	18.5	20.5
Merged-chr1-131184527-4	chr1	131184416	131184616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 2 of 5)	intron (NM_018750, intron 2 of 5)	15669.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	54.0	67.5	42.5	741.5	102.0	48.0	37.5	49.0
Merged-chr2-44923327-2	chr2	44923227	44923427	+	781.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61705.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	6.5	4.5	9.0	42.0	8.5	7.0	8.0	3.5
Merged-chr9-89253597-4	chr9	89253497	89253697	+	996.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	42213.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	18.0	23.5	30.5	429.0	53.0	7.5	17.0	18.5
Merged-chr13-117020727-4	chr13	117020625	117020825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	intron (NM_001081009, intron 3 of 26)	4791.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	55.0	88.5	35.0	333.0	169.0	49.5	38.0	36.0
Merged-chr2-103146297-1	chr2	103146197	103146397	+	666.5	f0_balb.idr	Intergenic	MTEb|LTR|ERVL-MaLR	72622.0	NM_019735	56369.0	Mm.24772	NM_019735	ENSMUSG00000010911	Apip	APIP2|CGI-29|Mmrp19	APAF1 interacting protein	protein-coding	9.0	8.5	5.0	136.5	10.0	1.5	3.5	2.0
Merged-chr14-60284051-4	chr14	60283967	60284167	+	906.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144843, intron 4 of 13)	L1_Mur3|LINE|L1	18862.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	6.0	15.0	12.5	158.5	42.5	16.5	16.5	9.5
Merged-chr5-151368120-2	chr5	151368020	151368220	+	858.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045699)	promoter-TSS (NR_045699)	-555.0	NR_045700	625175.0	Mm.443286	NR_045699	ENSMUSG00000097321	1700028E10Rik	A630054D14|Gm6561	RIKEN cDNA 1700028E10 gene	ncRNA	9.5	8.0	5.5	68.0	18.0	6.5	8.5	11.5
Merged-chr3-95951233-4	chr3	95951139	95951339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	21982.0	NM_023210	66471.0	Mm.218657	NM_023210	ENSMUSG00000015749	Anp32e	2810018A15Rik|AI047746|AI326868|CPD1|LANP-L|LANPL|mLANP-L	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	protein-coding	71.5	130.5	80.5	787.0	160.5	53.0	67.0	88.0
Merged-chr5-25705796-4	chr5	25705683	25705883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020570)	promoter-TSS (NM_020570)	14.0	NM_020570	57434.0	Mm.143767	NM_020570	ENSMUSG00000028933	Xrcc2	4921524O04Rik|8030409M04Rik|RAD51|RecA	X-ray repair complementing defective repair in Chinese hamster cells 2	protein-coding	65.0	91.5	65.5	923.5	156.0	56.0	66.0	63.0
Merged-chr9-35107351-4	chr9	35107263	35107463	+	897.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-9365.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	7.5	21.0	18.0	198.5	36.0	7.5	14.0	9.5
Merged-chr12-76345949-3	chr12	76345856	76346056	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21065.0	NM_001101471	238276.0	Mm.311452	NM_001101471	ENSMUSG00000021057	Akap5	3526401B18Rik|AKAP 150|AKAP-5|AKAP150|BB098886|Gm258|P150	A kinase (PRKA) anchor protein 5	protein-coding	7.0	7.0	5.5	97.5	21.5	6.5	8.0	4.5
Merged-chr15-12211680-4	chr15	12211574	12211774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 1 of 15)	intron (NM_001356498, intron 1 of 15)	6646.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	109.5	206.5	135.0	1531.0	259.5	123.5	119.5	67.0
Merged-chr2-148875594-4	chr2	148875488	148875688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009976)	promoter-TSS (NM_009976)	-76.0	NM_009976	13010.0	Mm.4263	NM_009976	ENSMUSG00000027447	Cst3	CysC	cystatin C	protein-coding	357.5	425.0	418.5	5391.0	748.0	266.5	373.5	281.0
Merged-chr3-62497279-1	chr3	62497179	62497379	+	614.0	f0_c57.idr	intron (NM_028136, intron 4 of 24)	MER2|DNA|TcMar-Tigger	9709.0	NM_028136	72162.0	Mm.224233	NM_028136	ENSMUSG00000027770	Dhx36	2810407E23Rik|AI452301|AU022184|Ddx36|mKIAA1488	DEAH (Asp-Glu-Ala-His) box polypeptide 36	protein-coding	1.0	5.5	6.5	55.5	32.0	6.0	11.0	8.5
Merged-chr11-46312186-8	chr11	46312016	46312216	+	936.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001252460, exon 1 of 31)	5' UTR (NM_001252460, exon 1 of 31)	242.0	NM_001252460	76884.0	Mm.154358	NM_133769	ENSMUSG00000020340	Cyfip2	1500004I01Rik|6430511D02Rik|AA930218|AU022376|Pir121|mKIAA1168	cytoplasmic FMR1 interacting protein 2	protein-coding	8.5	13.5	13.5	92.5	14.0	7.5	6.5	8.0
Merged-chr10-67004283-4	chr10	67004185	67004385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110511)	promoter-TSS (NR_110511)	-790.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	57.0	73.5	76.5	1152.5	164.5	47.0	80.5	55.5
Merged-chr9-7734538-4	chr9	7734472	7734672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29505.0	NM_133739	71929.0	Mm.283293	NM_133739	ENSMUSG00000050912	Tmem123	2310075C12Rik	transmembrane protein 123	protein-coding	56.0	186.5	68.0	401.5	222.5	91.0	67.0	42.0
Merged-chr7-24467105-3	chr7	24467016	24467216	+	844.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011113, intron 3 of 6)	ZP3AR|Satellite|Satellite	4633.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	9.0	8.5	5.0	122.0	5.0	3.5	7.5	1.5
Merged-chr8-117519145-4	chr8	117519066	117519266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 2 of 32)	intron (NM_172285, intron 2 of 32)	20891.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	41.0	36.5	33.5	494.5	62.0	24.0	25.0	26.0
Merged-chr8-67956770-1	chr8	67956670	67956870	+	631.0	f0_balb.idr	intron (NM_177698, intron 3 of 14)	intron (NM_177698, intron 3 of 14)	17804.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	7.0	10.5	6.0	84.5	7.0	8.0	3.0	2.5
Merged-chr1-33877953-2	chr1	33877853	33878053	+	940.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 3 of 6)	intron (NM_177235, intron 3 of 6)	29668.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	6.5	6.5	2.0	75.5	15.0	4.5	6.5	5.5
Merged-chr7-81843921-2	chr7	81843808	81844008	+	821.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-14477.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	6.0	1.0	2.0	42.0	8.0	5.5	6.0	7.5
Merged-chr11-75325451-4	chr11	75325255	75325455	+	726.214294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026653, intron 5 of 16)	intron (NM_026653, intron 5 of 16)	23028.0	NM_001164223	68275.0	Mm.102574	NM_026653	ENSMUSG00000000751	Rpa1	5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa	replication protein A1	protein-coding	1.5	3.0	4.0	21.0	17.0	8.5	7.0	9.5
Merged-chr10-69308095-3	chr10	69307998	69308198	+	646.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER30|DNA|hAT-Charlie	44814.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	5.0	8.0	6.0	74.5	9.0	2.0	6.5	9.5
Merged-chr1-43241417-2	chr1	43241317	43241517	+	953.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44656.0	NM_001289533	14200.0	Mm.6799	NM_010212	ENSMUSG00000008136	Fhl2	FHL-2|SLIM-3|SLIM3	four and a half LIM domains 2	protein-coding	7.5	11.5	9.0	59.5	13.5	2.5	3.5	9.0
Merged-chr12-69486229-4	chr12	69486147	69486347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-10697.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	37.5	64.0	60.5	588.5	192.5	80.5	54.0	103.5
Merged-chr9-44286608-4	chr9	44286510	44286710	+	930.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138955, intron 2 of 14)	MIRc|SINE|MIR	1634.0	NM_138955	192663.0	Mm.101876	NM_138955	ENSMUSG00000032131	Abcg4	6430517O04Rik	ATP binding cassette subfamily G member 4	protein-coding	14.5	50.0	6.0	142.0	42.0	19.5	19.0	9.5
Merged-chr12-55398710-4	chr12	55398609	55398809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011968)	promoter-TSS (NM_011968)	-116.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	209.5	355.0	285.5	4072.0	548.5	219.5	305.0	189.5
Merged-chr17-17587566-4	chr17	17587487	17587687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	36902.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	57.5	138.5	66.0	1822.5	170.0	77.5	81.0	67.0
Merged-chr1-166349948-3	chr1	166349868	166350068	+	960.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-29199.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	6.5	5.5	11.5	168.0	17.0	15.5	10.0	8.0
Merged-chr7-29768024-2	chr7	29767924	29768124	+	905.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023750)	promoter-TSS (NM_023750)	-528.0	NM_023750	74352.0	Mm.251083	NM_023750	ENSMUSG00000046185	Zfp84	2210410P13Rik|4633401C23Rik|AI415447|BB081605|C86188|KRAB18|Zfp69	zinc finger protein 84	protein-coding	4.5	4.5	2.5	49.5	16.5	8.0	4.5	7.0
Merged-chr16-12589102-4	chr16	12588995	12589195	+	836.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-222295.0	NR_040507	75493.0	Mm.396146	NR_040507	ENSMUSG00000101565	1700003L19Rik	-	RIKEN cDNA 1700003L19 gene	ncRNA	10.0	8.5	3.5	336.0	13.5	7.0	18.5	17.5
Merged-chr4-47261321-4	chr4	47261205	47261405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 9 of 39)	intron (NM_009928, intron 9 of 39)	53293.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	183.5	297.0	209.5	2808.5	395.0	198.5	194.0	167.5
Merged-chr13-117198526-4	chr13	117198435	117198635	+	922.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-22038.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	9.0	14.0	17.5	213.5	39.5	18.0	18.5	8.5
Merged-chr7-92893716-4	chr7	92893625	92893825	+	729.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	B2_Mm2|SINE|B2	18472.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	7.0	28.0	5.0	95.0	40.5	12.0	12.5	11.0
Merged-chr8-33654731-4	chr8	33654765	33654965	+	804.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	1627.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	2.5	4.0	1.5	23.5	17.0	4.5	9.5	14.0
Merged-chr7-81318960-4	chr7	81318842	81319042	+	729.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 14 of 21)	intron (NM_008803, intron 14 of 21)	26292.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	7.0	4.0	5.5	99.5	15.0	7.5	8.0	12.0
Merged-chr15-78898978-4	chr15	78898782	78898982	+	902.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316686)	promoter-TSS (NM_001316686)	-886.0	NR_133564	20401.0	Mm.4462	NM_009164	ENSMUSG00000022436	Sh3bp1	3BP-1	SH3-domain binding protein 1	protein-coding	12.5	20.0	6.5	55.0	14.5	6.5	5.0	11.0
Merged-chr19-34753458-3	chr19	34753351	34753551	+	725.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6340.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	7.0	22.0	17.0	156.0	19.0	5.5	11.0	5.5
Merged-chr2-132598295-4	chr2	132598203	132598403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033469, exon 1 of 4)	non-coding (NR_033469, exon 1 of 4)	107.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	51.5	77.5	54.0	1112.0	158.5	27.5	77.0	54.0
Merged-chr13-90062077-2	chr13	90061977	90062177	+	871.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_028012, exon 3 of 8)	exon (NM_028012, exon 3 of 8)	27531.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	13.0	8.0	1.5	90.5	14.0	12.0	6.0	7.0
Merged-chr11-75454649-4	chr11	75454551	75454751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138950)	promoter-TSS (NM_138950)	66.0	NM_138950	192652.0	Mm.340378	NM_138950	ENSMUSG00000045374	Wdr81	BC054822|Gm883|mFLJ00182|nur5	WD repeat domain 81	protein-coding	57.0	122.5	93.0	889.0	134.0	80.5	58.0	76.5
Merged-chr3-132035403-4	chr3	132035370	132035570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49822.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	38.0	35.0	39.5	590.5	62.5	15.0	42.0	12.0
Merged-chr8-105566083-4	chr8	105566001	105566201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013477)	promoter-TSS (NM_013477)	-37.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	254.5	331.0	187.5	2695.0	556.0	245.5	258.5	185.0
Merged-chr8-70282916-4	chr8	70282810	70283010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011984)	promoter-TSS (NM_011984)	-89.0	NM_011984	26558.0	Mm.388127	NM_011984	ENSMUSG00000003573	Homer3	AW146114	homer scaffolding protein 3	protein-coding	75.5	131.0	84.0	1450.5	245.0	96.5	113.5	95.5
Merged-chr17-66221409-4	chr17	66221308	66221508	+	869.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	97888.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	17.5	15.0	13.0	213.0	25.5	11.0	12.5	9.5
Merged-chr8-82351508-4	chr8	82351412	82351612	+	881.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	B3A|SINE|B2	51074.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	20.5	27.0	11.0	148.0	61.0	8.5	12.5	10.0
Merged-chr14-105435426-4	chr14	105435316	105435516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045859, intron 2 of 2)	intron (NR_045859, intron 2 of 2)	7857.0	NR_045859	71362.0	Mm.410781	NR_045859	ENSMUSG00000115548	5430440P10Rik	-	RIKEN cDNA 5430440P10 gene	ncRNA	31.0	72.0	56.0	1186.5	221.0	83.5	133.5	107.0
Merged-chr6-17629249-4	chr6	17629144	17629344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7766.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	97.5	134.5	62.5	962.5	192.0	58.0	92.5	72.0
Merged-chr4-141618677-4	chr4	141618562	141618762	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145987)	promoter-TSS (NM_145987)	-29.0	NR_151462	213989.0	Mm.34891	NM_145987	ENSMUSG00000043085	Tmem82	-	transmembrane protein 82	protein-coding	18.5	37.5	20.0	229.0	40.5	24.0	16.5	27.0
Merged-chr11-70803047-4	chr11	70802939	70803139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 1 of 4)	MLT1D|LTR|ERVL-MaLR	9522.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	57.5	58.0	34.0	590.5	112.5	46.0	63.5	51.0
Merged-chr15-80037372-4	chr15	80037250	80037450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4a|LINE|L1	-22542.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	26.5	39.5	42.5	526.0	75.5	34.0	24.5	36.0
Merged-chr11-72520074-3	chr11	72519978	72520178	+	655.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029932, intron 8 of 11)	intron (NM_029932, intron 8 of 11)	-30158.0	NM_153060	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	7.0	14.5	5.5	48.0	3.5	3.5	7.5	3.0
Merged-chr8-35136797-3	chr8	35136690	35136890	+	999.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-171100.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	4.0	4.0	0.0	58.0	78.5	20.0	39.5	40.5
Merged-chr5-97126182-1	chr5	97126082	97126282	+	652.0	f0_balb.idr	Intergenic	Intergenic	-14586.0	NM_001359913	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	5.0	11.0	2.0	118.5	9.0	4.5	9.0	7.5
Merged-chr9-90262754-4	chr9	90262633	90262833	+	855.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	L1MA4|LINE|L1	8036.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	18.5	8.5	16.5	207.5	30.5	9.0	5.0	10.5
Merged-chr11-113430318-4	chr11	113430218	113430418	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 5 of 9)	MLT1C|LTR|ERVL-MaLR	135497.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	51.5	71.0	44.0	930.0	42.5	11.5	29.0	16.0
Merged-chr5-130144747-4	chr5	130144619	130144819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172509)	promoter-TSS (NM_172509)	-169.0	NM_172509	212919.0	Mm.55812	NM_172509	ENSMUSG00000034110	Kctd7	4932409E18|9430010P06Rik	potassium channel tetramerisation domain containing 7	protein-coding	226.5	322.0	306.0	3529.5	634.0	229.0	363.5	265.0
Merged-chr13-58484874-4	chr13	58484774	58484974	+	811.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81531.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	10.0	12.5	8.0	133.0	14.0	10.0	10.5	20.0
Merged-chr14-31494147-4	chr14	31494058	31494258	+	876.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028932)	promoter-TSS (NM_028932)	600.0	NM_001359850	67011.0	Mm.291731	NM_025907	ENSMUSG00000021891	Mettl6	1600013P15Rik|AI467521|AU020711	methyltransferase like 6	protein-coding	28.0	15.5	14.5	92.0	69.5	15.0	13.5	12.0
Merged-chr4-34386558-4	chr4	34386451	34386651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164064.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	113.0	140.0	87.0	1503.0	230.5	83.0	88.5	49.5
Merged-chr4-142103485-2	chr4	142103385	142103585	+	843.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_144531, exon 14 of 14)	3' UTR (NM_144531, exon 14 of 14)	-19181.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	7.0	10.0	5.0	58.5	10.5	4.0	5.5	10.5
Merged-chr6-38876338-4	chr6	38876250	38876450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001294144)	promoter-TSS (NM_001294144)	-160.0	NM_001294143	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	44.5	86.0	44.0	641.0	166.0	54.5	71.5	50.0
Merged-chr11-110584435-1	chr11	110584335	110584535	+	716.0	f0_balb.idr	Intergenic	B1_Mur1|SINE|Alu	105095.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.5	8.0	9.0	247.5	0.0	0.0	0.0	0.0
Merged-chr10-117885546-4	chr10	117885453	117885653	+	853.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39579.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	12.0	11.0	14.0	180.5	25.0	12.0	12.5	6.5
Merged-chr11-78349833-4	chr11	78349796	78349996	+	839.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011676)	TTS (NM_011676)	3186.0	NM_001313987	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	10.0	8.0	3.5	131.5	8.0	6.0	10.5	7.0
Merged-chr2-170343331-4	chr2	170343243	170343443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13018.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	74.0	74.0	37.5	783.5	133.0	70.0	64.0	53.0
Merged-chr17-35208426-4	chr17	35208318	35208518	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3067.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	14.5	24.0	22.0	320.5	72.5	29.5	29.5	59.5
Merged-chr4-53151169-3	chr4	53151080	53151280	+	954.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	8715.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	7.5	17.5	10.0	117.5	23.5	5.0	12.0	3.0
Merged-chr8-116732954-10	chr8	116732764	116732964	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029441, exon 1 of 7)	5' UTR (NM_029441, exon 1 of 7)	127.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	26.5	17.5	35.5	222.0	84.5	38.0	41.0	33.0
Merged-chr8-20297008-4	chr8	20296933	20297133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030708, intron 1 of 4)	CpG	399.0	NR_030708	547150.0	Mm.359054	NR_030708	ENSMUSG00000071796	6820431F20Rik	-	cadherin 11 pseudogene	pseudo	30.0	51.0	82.0	397.0	40.5	13.0	13.0	41.5
Merged-chr10-85185330-4	chr10	85185140	85185340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007771)	promoter-TSS (NM_007771)	-186.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	162.5	229.0	175.0	1630.5	360.0	181.5	146.5	204.5
Merged-chr10-41523415-4	chr10	41523298	41523498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016898, intron 3 of 5)	intron (NM_016898, intron 3 of 5)	3898.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	18.5	47.0	27.5	566.5	75.5	36.0	22.0	30.5
Merged-chr12-70233744-4	chr12	70233622	70233822	+	827.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045174, intron 4 of 4)	intron (NR_045174, intron 4 of 4)	5881.0	NR_045174	414124.0	Mm.416164	NR_045174	ENSMUSG00000085298	F730035M05Rik	-	RIKEN cDNA F730035M05 gene	ncRNA	13.0	8.0	4.5	63.5	20.5	6.0	6.5	18.0
Merged-chr1-118320883-1	chr1	118320783	118320983	+	600.0	f0_c57.idr	promoter-TSS (NM_026472)	promoter-TSS (NM_026472)	-960.0	NM_026472	67949.0	Mm.280311	NM_026472	ENSMUSG00000026377	Nifk	AI852665|C130020J04Rik|Mki67ip	nucleolar protein interacting with the FHA domain of MKI67	protein-coding	7.0	12.5	5.0	52.5	14.0	9.5	13.0	5.0
Merged-chr13-112116217-4	chr13	112116107	112116307	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172244.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	13.5	16.0	20.5	327.0	28.0	15.5	11.5	18.0
Merged-chr7-16924619-2	chr7	16924522	16924722	+	1000.0	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_007590)	promoter-TSS (NM_007590)	-590.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	60.5	102.0	54.5	987.5	206.5	93.5	149.0	90.0
Merged-chr8-83998456-4	chr8	83998357	83998557	+	985.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081415, exon 1 of 5)	exon (NM_001081415, exon 1 of 5)	785.0	NM_001081415	666704.0	Mm.298091	NM_001081415	ENSMUSG00000079003	Samd1	AA589507	sterile alpha motif domain containing 1	protein-coding	23.5	42.0	11.5	372.5	72.0	29.0	32.5	27.0
Merged-chr15-76640023-4	chr15	76639923	76640123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183091)	promoter-TSS (NM_183091)	-94.0	NM_183091	72749.0	Mm.358749	NM_183091	ENSMUSG00000059323	Tonsl	2810439M11Rik|Nfkbil2	tonsoku-like, DNA repair protein	protein-coding	76.5	110.0	53.5	980.0	256.5	84.0	72.0	57.5
Merged-chr6-29525320-2	chr6	29525220	29525420	+	975.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1305.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	2.5	8.5	8.0	38.0	12.0	4.5	5.5	9.0
Merged-chr10-78352445-4	chr10	78352373	78352573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053014)	promoter-TSS (NM_053014)	-773.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	46.0	46.0	28.0	542.0	57.0	27.5	44.5	26.0
Merged-chr9-64824882-4	chr9	64824780	64824980	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162917, intron 2 of 34)	intron (NM_001162917, intron 2 of 34)	13869.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	12.5	35.5	16.0	328.5	27.0	9.0	24.5	21.0
Merged-chr2-91054045-4	chr2	91053987	91054187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008948)	promoter-TSS (NM_008948)	71.0	NM_008948	19182.0	Mm.289832	NM_008948	ENSMUSG00000002102	Psmc3	TBP-1	proteasome (prosome, macropain) 26S subunit, ATPase 3	protein-coding	78.5	110.5	80.5	812.0	140.0	47.5	64.5	58.0
Merged-chr11-119268466-4	chr11	119268345	119268545	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008064, intron 1 of 19)	intron (NM_008064, intron 1 of 19)	482.0	NM_008064	14387.0	Mm.4793	NM_008064	ENSMUSG00000025579	Gaa	E430018M07Rik	glucosidase, alpha, acid	protein-coding	18.0	22.0	17.0	401.0	64.0	15.0	19.0	22.5
Merged-chr10-41476424-4	chr10	41476315	41476515	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164433, exon 1 of 23)	5' UTR (NM_001164433, exon 1 of 23)	101.0	NM_138315	171580.0	Mm.290431	NM_138315	ENSMUSG00000019823	Mical1	MICAL|MICAL-1|Nical	microtubule associated monooxygenase, calponin and LIM domain containing 1	protein-coding	23.5	27.5	29.0	301.0	34.5	9.0	17.5	23.0
Merged-chr3-108850773-4	chr3	108850676	108850876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10274.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	55.5	74.0	53.0	656.0	144.5	59.5	40.5	69.0
Merged-chr2-103945090-4	chr2	103945001	103945201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12894.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	63.5	59.5	51.5	1408.5	154.0	57.0	97.0	71.5
Merged-chr11-102185293-4	chr11	102185167	102185367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172947)	promoter-TSS (NM_172947)	-11.0	NM_172947	268490.0	Mm.259079	NM_172947	ENSMUSG00000020922	Lsm12	1110032E16Rik|1110059P07|2600001B17Rik	LSM12 homolog	protein-coding	44.5	98.5	42.0	583.5	159.0	81.0	72.5	77.0
Merged-chr2-93823729-4	chr2	93823655	93823855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1187.0	NM_001355076	14043.0	Mm.4336	NM_010163	ENSMUSG00000027198	Ext2	AI893565	exostoses (multiple) 2	protein-coding	81.0	105.5	59.0	1023.0	176.5	69.5	66.0	75.0
Merged-chr10-57761506-4	chr10	57761406	57761606	+	928.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23417.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	21.5	19.0	17.5	327.5	33.5	14.5	11.0	9.0
Merged-chr1-23382764-4	chr1	23382668	23382868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081079, intron 1 of 6)	CpG	407.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	27.5	31.5	25.0	272.5	29.5	16.0	22.0	30.5
Merged-chr7-143465117-4	chr7	143465018	143465218	+	960.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4068.0	NM_001161624	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	20.0	13.5	17.0	228.5	30.0	5.5	13.0	26.0
Merged-chr5-77460487-4	chr5	77460373	77460573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5015.0	NR_131050	69370.0	Mm.426881	NR_131050	ENSMUSG00000107232	1700017L05Rik	-	RIKEN cDNA 1700017L05 gene	ncRNA	28.5	46.5	41.0	670.5	39.0	15.5	24.5	23.0
Merged-chr16-38476418-4	chr16	38476330	38476530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359898, intron 2 of 5)	intron (NM_001359898, intron 2 of 5)	17497.0	NM_009855	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	40.0	37.0	33.5	641.5	67.0	27.5	34.0	31.0
Merged-chr9-32694415-4	chr9	32694310	32694510	+	939.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1632.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	18.0	62.5	30.5	502.5	47.5	7.0	15.0	6.5
Merged-chr19-34206700-1	chr19	34206600	34206800	+	868.0	f0_balb.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	-10808.0	NM_001360719	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	7.0	6.0	13.0	164.5	27.0	4.0	5.0	4.5
Merged-chr2-129381271-3	chr2	129381162	129381362	+	970.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-10123.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	9.5	10.5	8.5	155.5	61.0	17.0	16.0	18.0
Merged-chr6-145779545-3	chr6	145779441	145779641	+	796.25	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28842.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	3.0	4.5	10.0	186.5	29.5	5.5	18.5	8.0
Merged-chr13-39923323-4	chr13	39923224	39923424	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	364687.0	NM_172143	218165.0	Mm.364096	NM_172143	ENSMUSG00000047094	Ofcc1	opo	orofacial cleft 1 candidate 1	protein-coding	25.5	19.0	16.0	536.5	78.5	29.0	40.0	30.0
Merged-chr2-165889012-4	chr2	165888928	165889128	+	915.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	-4190.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	14.5	14.0	9.0	105.5	40.0	11.5	10.0	22.0
Merged-chr14-55161489-4	chr14	55161377	55161577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44542.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	23.0	66.5	29.5	300.0	103.0	22.5	38.5	21.5
Merged-chr8-109455323-4	chr8	109455227	109455427	+	956.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38700.0	NM_019938	56523.0	Mm.42166	NM_019938	ENSMUSG00000031727	Pmfbp1	1700016D22Rik|F77|Stap	polyamine modulated factor 1 binding protein 1	protein-coding	17.5	20.5	25.5	447.0	31.0	4.5	22.5	20.0
Merged-chr1-152808406-4	chr1	152808344	152808544	+	935.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 2 of 15)	intron (NM_010877, intron 2 of 15)	8291.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	9.5	23.0	11.5	77.5	40.5	5.5	17.0	22.5
Merged-chr7-100530899-4	chr7	100530782	100530982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6218.0	NM_183270	68185.0	Mm.228995	NM_183270	ENSMUSG00000044881	Coa4	5330414O08Rik|AI115477|AW047259|Chchd8|E2ig2	cytochrome c oxidase assembly factor 4	protein-coding	56.0	76.5	66.5	696.0	120.5	51.0	41.0	83.5
Merged-chr1-172143775-4	chr1	172143674	172143874	+	897.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4241.0	NR_151641	98193.0	Mm.159915	NM_153555	ENSMUSG00000026554	Dcaf8	AA408877|AA433120|AA792214|AU018973|C76055|D1Dau35e|D1Ucla4|H326|Wdr42a	DDB1 and CUL4 associated factor 8	protein-coding	17.0	10.0	9.5	139.5	47.5	14.5	19.5	19.5
Merged-chr6-83632982-4	chr6	83632854	83633054	+	949.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	23162.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	26.5	6.5	37.0	485.0	18.0	10.0	12.0	17.0
Merged-chr8-115160125-3	chr8	115159997	115160197	+	940.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 8 of 8)	intron (NM_019573, intron 8 of 8)	546797.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	10.5	12.0	9.5	135.0	18.5	1.5	5.5	11.0
Merged-chr2-27373646-4	chr2	27373558	27373758	+	964.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 1 of 29)	MTC|LTR|ERVL-MaLR	53950.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	37.5	43.0	59.0	1168.0	36.5	9.5	30.0	27.5
Merged-chr5-143817716-4	chr5	143817618	143817818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-54144.0	NM_013557	15467.0	Mm.389709	NM_013557	ENSMUSG00000029613	Eif2ak1	HCR|Hri	eukaryotic translation initiation factor 2 alpha kinase 1	protein-coding	148.5	172.0	92.0	1660.5	266.5	101.5	124.5	118.5
Merged-chr5-113635293-4	chr5	113635195	113635395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	8308.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	46.0	49.5	48.0	927.0	82.5	34.5	66.0	59.0
Merged-chr2-38481348-4	chr2	38481280	38481480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30317.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	41.5	31.0	39.5	479.5	83.5	18.0	34.5	37.0
Merged-chr4-67478712-1	chr4	67478612	67478812	+	947.5	f0_balb.idr	Intergenic	MIR3|SINE|MIR	651161.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	9.5	10.5	24.5	310.5	0.0	1.5	2.5	1.0
Merged-chr1-144300843-4	chr1	144300734	144300934	+	938.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-51730.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	19.5	19.0	5.5	286.0	38.5	15.5	5.0	12.0
Merged-chr4-43383057-1	chr4	43382957	43383157	+	1000.0	f1_c57bl6.idr	intron (NM_001037709, intron 1 of 11)	intron (NM_001037709, intron 1 of 11)	1075.0	NM_001037709	100213.0	Mm.235730	NM_199057	ENSMUSG00000035969	Rusc2	AI840675|mKIAA0375	RUN and SH3 domain containing 2	protein-coding	1.0	3.0	2.5	68.5	42.0	8.0	12.5	9.5
Merged-chr3-126628719-4	chr3	126628633	126628833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	31782.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	40.0	58.5	58.0	750.0	96.5	28.0	33.5	33.5
Merged-chr8-82918149-3	chr8	82918049	82918249	+	957.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	intron (NM_177378, intron 1 of 6)	54793.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	50.5	83.5	73.0	874.0	8.0	1.0	3.0	1.0
Merged-chr5-5749349-4	chr5	5749236	5749436	+	984.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027399)	promoter-TSS (NM_027399)	-19.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	35.0	50.0	48.0	582.5	50.5	15.5	26.5	15.5
Merged-chr10-61695486-4	chr10	61695408	61695608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272090)	promoter-TSS (NM_001272090)	-6.0	NM_001272090	71767.0	Mm.71514	NM_027912	ENSMUSG00000020087	Tysnd1	1300019N10Rik	trypsin domain containing 1	protein-coding	160.0	232.0	96.5	2216.0	395.0	160.0	172.0	143.0
Merged-chr9-57558743-3	chr9	57558606	57558806	+	635.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2238.0	NM_022813	24044.0	Mm.286069	NM_022813	ENSMUSG00000040188	Scamp2	AI875466|Sc2	secretory carrier membrane protein 2	protein-coding	0.5	7.0	5.5	72.5	7.0	5.5	5.0	8.0
Merged-chr19-40647693-4	chr19	40647571	40647771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	T-rich|Low_complexity|Low_complexity	-12099.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	43.5	64.5	45.0	739.5	110.5	39.5	45.0	35.5
Merged-chr13-102846683-4	chr13	102846566	102846766	+	979.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 5 of 28)	intron (NM_175171, intron 5 of 28)	86411.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	20.5	18.5	39.5	524.5	64.0	23.5	23.5	21.0
Merged-chr17-35425803-2	chr17	35425701	35425901	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_023124, exon 3 of 5)	exon (NM_023124, exon 3 of 5)	924.0	NM_207648	110557.0	Mm.439827	NM_207648	ENSMUSG00000073409	H2-Q6	0610037M15Rik|H-2Q6|Qa-6|Qa6	histocompatibility 2, Q region locus 6	protein-coding	5.5	6.0	6.5	18.0	15.0	8.0	6.0	15.0
Merged-chr5-137600758-4	chr5	137600651	137600851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254762)	promoter-TSS (NM_001254762)	-43.0	NM_001254762	68929.0	Mm.41355	NM_030037	ENSMUSG00000037221	Mospd3	1190005J19Rik|5133401H10Rik|Gtig2|R124	motile sperm domain containing 3	protein-coding	74.5	86.5	37.5	663.5	245.5	75.5	85.5	93.0
Merged-chr17-10370708-7	chr17	10370592	10370792	+	996.517883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46090.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	13.5	19.0	24.5	192.5	18.5	11.5	10.0	13.5
Merged-chr7-67425852-4	chr7	67425761	67425961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53003.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	106.5	168.0	114.0	2082.0	211.0	87.5	126.0	86.0
Merged-chr14-30655652-4	chr14	30655522	30655722	+	837.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177815, intron 1 of 12)	PB1D10|SINE|Alu	1247.0	NM_177815	328370.0	Mm.259657	NM_177815	ENSMUSG00000052395	Rft1	D930025H04	RFT1 homolog	protein-coding	8.0	9.5	13.0	210.5	15.5	5.0	5.5	14.5
Merged-chr4-63562394-4	chr4	63562294	63562494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144905, intron 2 of 9)	intron (NM_144905, intron 2 of 9)	2167.0	NM_144905	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	44.5	51.5	32.5	955.0	86.0	26.0	42.0	34.0
Merged-chr1-144330517-4	chr1	144330412	144330612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81408.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	126.0	128.5	141.0	1785.5	161.0	68.5	94.5	67.0
Merged-chr19-47127236-3	chr19	47127137	47127337	+	942.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011053, intron 29 of 35)	intron (NM_011053, intron 29 of 35)	11057.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	10.0	7.5	21.5	269.5	35.0	5.5	21.0	5.5
Merged-chr9-89200495-4	chr9	89200406	89200606	+	926.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007534, intron 1 of 1)	intron (NM_007534, intron 1 of 1)	1233.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	14.5	26.5	25.5	56.0	33.0	19.5	13.5	10.0
Merged-chr13-74209164-2	chr13	74209064	74209264	+	594.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177333)	promoter-TSS (NM_177333)	-464.0	NM_177333	211446.0	Mm.261859	NM_177333	ENSMUSG00000034152	Exoc3	2810050O03Rik|E430013E20Rik|Sec6|Sec6l1	exocyst complex component 3	protein-coding	9.5	5.0	14.0	80.5	8.5	2.5	3.0	3.5
Merged-chr10-87840199-3	chr10	87840108	87840308	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18057.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	3.5	8.0	7.5	130.0	11.0	11.0	5.0	8.5
Merged-chr2-112197060-4	chr2	112196964	112197164	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	41166.0	NM_001011802	258022.0	Mm.377330	NM_001011802	ENSMUSG00000049758	Olfr1318	MOR245-16	olfactory receptor 1318	protein-coding	15.5	25.0	11.5	326.5	59.5	29.0	23.0	8.0
Merged-chr15-83038249-3	chr15	83038141	83038341	+	583.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4844.0	NM_001271411	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	5.0	9.5	2.5	71.5	32.0	5.0	9.5	14.5
Merged-chr18-36739991-4	chr18	36739889	36740089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028036, intron 9 of 11)	intron (NM_028036, intron 9 of 11)	4598.0	NM_010885	17991.0	Mm.29867	NM_010885	ENSMUSG00000014294	Ndufa2	AV000592|B8|C1-B8|CI-B8	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 2	protein-coding	65.0	104.5	58.0	932.0	167.5	66.0	62.0	74.0
Merged-chr15-81872397-4	chr15	81872324	81872524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080633)	promoter-TSS (NM_080633)	-39.0	NM_080633	11429.0	Mm.154581	NM_080633	ENSMUSG00000022477	Aco2	Aco-2|Aco3|D10Wsu183e	aconitase 2, mitochondrial	protein-coding	84.5	102.0	32.5	727.5	168.5	73.5	61.5	88.5
Merged-chr1-89070922-4	chr1	89070793	89070993	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133816, intron 1 of 5)	CpG	478.0	NM_133816	98402.0	Mm.170983	NM_133816	ENSMUSG00000036206	Sh3bp4	AI594717|AW227605|BOG25	SH3-domain binding protein 4	protein-coding	10.5	12.0	11.0	167.5	28.0	9.0	7.0	17.5
Merged-chr8-121927509-4	chr8	121927413	121927613	+	847.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007608, intron 2 of 6)	intron (NM_007608, intron 2 of 6)	17399.0	NM_007608	12352.0	Mm.116761	NM_007608	ENSMUSG00000025317	Car5a	CAV|Ca5a|Car5	carbonic anhydrase 5a, mitochondrial	protein-coding	9.0	13.5	10.5	126.0	28.5	6.0	10.0	12.0
Merged-chr19-10388842-4	chr19	10388818	10389018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173068)	promoter-TSS (NM_173068)	-172.0	NM_018801	54525.0	Mm.182654	NM_018801	ENSMUSG00000024743	Syt7	AI851541|B230112P13Rik	synaptotagmin VII	protein-coding	26.0	57.5	22.0	295.5	46.5	23.0	27.0	25.5
Merged-chr17-23985205-4	chr17	23985102	23985302	+	957.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-9972.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	15.0	10.5	15.0	190.0	53.0	29.5	21.5	14.5
Merged-chr2-84296554-4	chr2	84296458	84296658	+	936.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	128708.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	22.5	35.0	12.0	285.5	58.5	20.5	15.5	11.0
Merged-chr9-121277736-4	chr9	121277634	121277834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177589)	promoter-TSS (NM_177589)	-562.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	41.0	88.0	36.0	849.0	207.0	86.5	112.0	75.5
Merged-chr14-24490656-4	chr14	24490551	24490751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207635)	promoter-TSS (NM_207635)	-27.0	NM_207635	20088.0	Mm.16775	NM_011297	ENSMUSG00000025290	Rps24	-	ribosomal protein S24	protein-coding	80.5	123.0	72.0	1334.0	267.0	103.0	129.5	121.5
Merged-chr12-31949502-4	chr12	31949402	31949602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177993, intron 1 of 8)	CpG	743.0	NM_177993	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	173.5	207.0	206.0	2244.5	551.0	201.0	212.0	202.5
Merged-chr4-149820730-3	chr4	149820638	149820838	+	947.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46471.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	14.0	11.5	13.5	167.0	11.0	2.0	2.5	2.5
Merged-chr4-19867764-4	chr4	19867675	19867875	+	855.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49048.0	NM_028746	74087.0	Mm.173833	NM_028746	ENSMUSG00000041052	Slc7a13	0610009O04Rik|AGT-1|AGT1|XAT2	solute carrier family 7, (cationic amino acid transporter, y+ system) member 13	protein-coding	4.5	5.5	19.0	309.5	40.5	9.5	13.5	13.0
Merged-chr7-35234899-4	chr7	35234805	35235005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19560.0	NM_001024707	435965.0	Mm.333783	NM_001024707	ENSMUSG00000001802	Lrp3	-	low density lipoprotein receptor-related protein 3	protein-coding	64.0	93.0	97.5	1005.5	202.5	70.0	107.5	99.5
Merged-chr2-48537106-3	chr2	48536996	48537196	+	942.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-277013.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	14.5	26.5	15.5	166.0	8.5	4.5	17.5	3.5
Merged-chr16-30365693-2	chr16	30365601	30365801	+	729.0	f0_balb.idr|f0_c57.idr	intron (NM_001128096, intron 3 of 33)	(TG)n|Simple_repeat|Simple_repeat	22829.0	NM_001128094	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	9.5	13.0	4.5	176.0	20.0	0.0	4.0	12.0
Merged-chr3-117979336-3	chr3	117979236	117979436	+	763.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110400.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	5.5	12.0	10.5	204.5	9.5	9.0	7.0	2.0
Merged-chr19-21946667-4	chr19	21946575	21946775	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168335.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	19.5	22.5	13.5	278.5	234.5	83.0	56.5	46.0
Merged-chr11-106159461-4	chr11	106159321	106159521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356459, exon 2 of 5)	5' UTR (NM_001356459, exon 2 of 5)	506.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	35.0	40.5	36.0	236.0	77.0	48.5	32.0	40.0
Merged-chr1-58724284-4	chr1	58724206	58724406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	-6246.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	68.5	178.0	81.5	818.0	197.0	98.5	44.0	40.5
Merged-chr12-100106497-4	chr12	100106410	100106610	+	925.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5821.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	17.0	17.0	3.5	191.5	30.5	8.0	12.5	22.5
Merged-chr15-64312818-4	chr15	64312715	64312915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276462)	promoter-TSS (NM_001276462)	-142.0	NM_001276463	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	142.0	247.5	124.5	1961.5	457.5	189.5	185.0	160.5
Merged-chr13-112998554-4	chr13	112998443	112998643	+	844.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001037914, exon 6 of 7)	exon (NM_001037914, exon 6 of 7)	4675.0	NM_001037914	622408.0	Mm.360976	NM_001037914	ENSMUSG00000074651	Mcidas	EG622408|Gm6320|Idas|Mci|Mcin	multiciliate differentiation and DNA synthesis associated cell cycle protein	protein-coding	4.0	4.5	5.0	99.5	29.5	5.5	11.0	8.0
Merged-chr3-96055640-3	chr3	96055523	96055723	+	853.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013841, intron 2 of 14)	intron (NM_013841, intron 2 of 14)	2832.0	NM_013841	22365.0	Mm.263185	NM_013841	ENSMUSG00000015747	Vps45	AI462172|AW554165|mVps45	vacuolar protein sorting 45	protein-coding	6.5	11.0	9.5	77.5	20.5	7.5	7.0	3.5
Merged-chr2-119029469-4	chr2	119029427	119029627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199310)	promoter-TSS (NM_199310)	-134.0	NM_199310	269336.0	Mm.292465	NM_199310	ENSMUSG00000039983	Ccdc32	Gm631	coiled-coil domain containing 32	protein-coding	87.5	139.0	68.0	1245.0	217.0	63.0	79.0	64.5
Merged-chr8-72323260-4	chr8	72323168	72323368	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4206.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	15.5	12.5	10.5	207.0	44.5	16.0	22.0	19.5
Merged-chr8-34965761-4	chr8	34965658	34965858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175091)	promoter-TSS (NM_175091)	-68.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	241.0	380.5	228.0	3792.5	649.5	244.5	258.5	248.0
Merged-chr17-35214814-4	chr17	35214736	35214936	+	859.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9485.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	16.0	20.0	11.0	67.5	42.5	12.5	9.5	13.5
Merged-chr1-159334410-3	chr1	159334319	159334519	+	667.333313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_011931, intron 18 of 19)	RMER1B|Other|Other	-5888.0	NR_028518	100217414.0	Mm.450690	NR_028518	ENSMUSG00000089536	Scarna3a	MBI-114	small Cajal body-specific RNA 3A	ncRNA	4.0	10.0	2.0	128.0	26.5	7.0	6.0	9.5
Merged-chr4-151057554-4	chr4	151057460	151057660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009498, intron 1 of 4)	CpG	393.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	38.0	53.5	45.0	569.5	104.0	32.5	61.5	50.5
Merged-chr1-144246657-4	chr1	144246576	144246776	+	921.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015811, intron 3 of 4)	intron (NM_015811, intron 3 of 4)	2428.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	21.5	9.0	28.5	356.0	22.0	12.5	11.0	13.0
Merged-chr6-125040457-3	chr6	125040355	125040555	+	864.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133345, intron 1 of 7)	intron (NM_133345, intron 1 of 7)	607.0	NM_133345	28019.0	Mm.262547	NM_133345	ENSMUSG00000030330	Ing4	D6Wsu147e|D6Xrf92|p29ING4	inhibitor of growth family, member 4	protein-coding	7.0	7.5	3.5	79.5	33.0	7.0	9.0	6.5
Merged-chr14-32159846-4	chr14	32159716	32159916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033988)	promoter-TSS (NM_001033988)	-71.0	NM_001033988	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	48.5	56.0	67.5	708.0	116.0	57.5	50.5	62.5
Merged-chr13-59556775-2	chr13	59556675	59556875	+	866.833374	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001284219, exon 1 of 25)	5' UTR (NM_001284219, exon 1 of 25)	147.0	NM_001284219	67269.0	Mm.153008	NM_023328	ENSMUSG00000021557	Agtpbp1	1700020N17Rik|2310001G17Rik|2900054O13Rik|4930445M19Rik|5730402G09Rik|CCP1|Nna1|nmf243|pcd	ATP/GTP binding protein 1	protein-coding	7.0	4.0	7.0	128.5	20.0	9.0	7.0	7.0
Merged-chr8-128694689-4	chr8	128694601	128694801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010578, intron 1 of 15)	MTC|LTR|ERVL-MaLR	9047.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	25.5	36.0	38.5	520.0	100.0	25.5	42.0	35.5
Merged-chr2-57181922-4	chr2	57181816	57182016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040356)	promoter-TSS (NR_040356)	85.0	NR_040633	75279.0	Mm.401987	NR_040633	ENSMUSG00000086396	4930555B11Rik	-	RIKEN cDNA 4930555B11 gene	ncRNA	61.5	93.0	136.5	1084.5	173.5	91.0	84.5	81.0
Merged-chr6-86524173-4	chr6	86524106	86524306	+	878.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011865)	TTS (NM_011865)	1983.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	5.0	15.5	20.0	154.0	21.5	7.0	6.5	7.5
Merged-chr13-42074614-4	chr13	42074556	42074756	+	769.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	22635.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	5.5	7.0	10.5	113.0	24.5	13.5	21.5	22.0
Merged-chr14-57740869-4	chr14	57740763	57740963	+	882.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015771, intron 1 of 7)	intron (NM_015771, intron 1 of 7)	5260.0	NM_015771	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	16.0	14.5	19.5	312.0	21.0	4.0	12.0	11.0
Merged-chr8-105546663-3	chr8	105546552	105546752	+	665.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013477, intron 1 of 7)	intron (NM_013477, intron 1 of 7)	19412.0	NM_013477	11972.0	Mm.17708	NM_013477	ENSMUSG00000013160	Atp6v0d1	AI267038|Ac39|Atp6d|P39|VATX|Vma6	ATPase, H+ transporting, lysosomal V0 subunit D1	protein-coding	5.5	5.0	5.0	92.5	8.0	5.0	3.0	5.0
Merged-chr17-87098037-2	chr17	87097927	87098127	+	797.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-9652.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	9.0	17.0	10.5	176.5	8.5	2.0	7.5	3.5
Merged-chr2-32451510-4	chr2	32451382	32451582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164357)	promoter-TSS (NM_001164357)	-12.0	NM_146118	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	108.5	145.5	57.0	1234.5	283.5	88.5	115.5	98.5
Merged-chr19-53453389-3	chr19	53453296	53453496	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028427, intron 2 of 9)	intron (NR_028427, intron 2 of 9)	11400.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	44.5	54.5	26.5	427.0	23.0	9.5	4.5	2.0
Merged-chr18-62464673-3	chr18	62464583	62464783	+	636.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008313, exon 7 of 7)	3' UTR (NM_008313, exon 7 of 7)	79169.0	NM_001361091	107035.0	Mm.21295	NM_134136	ENSMUSG00000042211	Fbxo38	6030410I24Rik|AU044865|AW214031|Moka|SP329	F-box protein 38	protein-coding	5.0	7.0	4.5	12.0	23.0	10.0	10.0	5.0
Merged-chr5-149185030-4	chr5	149184909	149185109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001115151, intron 1 of 8)	CpG	449.0	NM_001359957	231915.0	Mm.29402	NM_001013378	ENSMUSG00000041264	Uspl1	E430026A01Rik	ubiquitin specific peptidase like 1	protein-coding	17.5	24.0	23.5	385.5	47.0	16.0	17.0	20.0
Merged-chr3-98055976-4	chr3	98055850	98056050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	42412.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	46.5	49.0	63.5	919.5	102.5	24.0	33.5	23.5
Merged-chr3-52000230-4	chr3	52000092	52000292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	104814.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	33.0	85.0	41.5	595.0	97.0	42.5	53.0	34.5
Merged-chr13-43565613-4	chr13	43565502	43565702	+	924.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5411.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	31.0	84.0	19.0	199.0	54.5	21.5	13.0	8.0
Merged-chr16-76371336-4	chr16	76371208	76371408	+	884.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	1741.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	4.5	34.5	12.0	144.0	22.5	4.0	8.0	5.0
Merged-chr5-115235495-4	chr5	115235403	115235603	+	880.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026398)	promoter-TSS (NM_026398)	-348.0	NM_026398	117109.0	Mm.24636	NM_026398	ENSMUSG00000060152	Pop5	1500019J17Rik|2700077E03Rik|AW049989|Rnasep3	processing of precursor 5, ribonuclease P/MRP family (S. cerevisiae)	protein-coding	11.0	20.5	11.5	144.0	28.0	6.5	13.0	19.5
Merged-chr18-56469434-4	chr18	56469273	56469473	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	37241.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	13.5	6.5	11.5	151.0	21.5	3.5	5.5	14.5
Merged-chr6-145860549-3	chr6	145860450	145860650	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_024469, exon 5 of 5)	3' UTR (NM_024469, exon 5 of 5)	4870.0	NM_024469	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	8.5	11.0	12.0	309.0	3.0	3.0	3.0	5.0
Merged-chr1-4770003-4	chr1	4769888	4770088	+	647.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15738.0	NM_001177658	27395.0	Mm.182927	NM_025300	ENSMUSG00000033845	Mrpl15	HSPC145|MRP-L7|Rpml7	mitochondrial ribosomal protein L15	protein-coding	10.5	10.5	10.5	131.0	22.5	8.0	9.0	2.5
Merged-chr7-27488089-4	chr7	27488003	27488203	+	879.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018820, intron 1 of 1)	intron (NM_018820, intron 1 of 1)	1150.0	NM_018820	55942.0	Mm.153684	NM_018820	ENSMUSG00000008384	Sertad1	1110032C13Rik|AV000455|AW456625|Sei-1|Sei1|TRIP-Br1	SERTA domain containing 1	protein-coding	10.0	15.0	10.0	83.0	32.0	10.0	20.5	16.5
Merged-chr14-61549790-4	chr14	61549767	61549967	+	847.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310603, intron 1 of 3)	intron (NM_001310603, intron 1 of 3)	7019.0	NM_025697	66674.0	Mm.282706	NM_025697	ENSMUSG00000021930	Spryd7	6330409N04Rik|Clld6	SPRY domain containing 7	protein-coding	4.0	8.0	11.0	56.0	25.5	8.5	13.5	11.5
Merged-chr4-55824207-4	chr4	55824110	55824310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-291735.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	59.0	69.0	62.0	1088.5	99.5	32.0	74.0	55.0
Merged-chr14-103487162-4	chr14	103487062	103487262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26179.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	89.0	111.0	145.0	1794.5	266.5	87.5	104.0	82.5
Merged-chr11-97659191-4	chr11	97659085	97659285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4227.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	173.5	337.5	158.0	1578.5	460.5	186.5	175.0	129.0
Merged-chr14-63131333-2	chr14	63131233	63131433	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	8871.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	2.5	13.0	2.0	84.5	15.5	14.5	6.5	5.0
Merged-chr6-117921495-4	chr6	117921386	117921586	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166429, intron 3 of 3)	MER20|DNA|hAT-Charlie	4192.0	NM_001166427	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	7.5	10.5	2.0	136.5	39.0	15.5	9.0	13.0
Merged-chr8-34929747-4	chr8	34929638	34929838	+	734.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 2 of 26)	MTD|LTR|ERVL-MaLR	35952.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	16.0	14.0	16.0	186.0	18.5	9.0	9.0	5.5
Merged-chr16-33177849-4	chr16	33177744	33177944	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-7227.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	8.0	20.5	5.5	101.0	62.5	10.0	16.5	22.5
Merged-chr17-45708414-4	chr17	45708307	45708507	+	738.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22058.0	NM_026732	68463.0	Mm.379158	NM_026732	ENSMUSG00000023939	Mrpl14	1110006I11Rik|AI846816|MRP-L32|Rpml32	mitochondrial ribosomal protein L14	protein-coding	3.5	10.0	3.5	126.0	25.5	10.0	8.5	9.0
Merged-chr7-101540892-4	chr7	101540791	101540991	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14911.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	28.0	33.5	15.5	450.5	39.5	18.5	17.5	29.0
Merged-chr6-73808397-3	chr6	73808287	73808487	+	823.483337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-337366.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	11.5	13.0	16.5	404.5	5.0	2.0	2.5	7.0
Merged-chr2-91081098-7	chr2	91080989	91081189	+	951.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10774.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	7.5	6.0	4.0	176.0	34.5	12.5	10.5	8.0
Merged-chr15-31342701-4	chr15	31342595	31342795	+	990.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	intron (NM_027496, intron 1 of 3)	25064.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	42.5	26.0	92.0	1061.0	35.0	20.5	20.0	24.0
Merged-chr9-121705048-5	chr9	121704979	121705179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178677)	promoter-TSS (NM_178677)	-50.0	NM_001164562	215474.0	Mm.31421	NM_178677	ENSMUSG00000061536	Sec22c	4932412K21|5930407I15Rik|C530046H07|Sec22l3	SEC22 homolog C, vesicle trafficking protein	protein-coding	67.0	112.0	47.5	1006.0	243.5	115.5	124.5	143.0
Merged-chr15-102470433-4	chr15	102470314	102470514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001174073)	promoter-TSS (NM_001174073)	-218.0	NM_011042	18521.0	Mm.236513	NM_011042	ENSMUSG00000056851	Pcbp2	AW412548|Hnrpx|alphaCP-2	poly(rC) binding protein 2	protein-coding	231.5	370.5	194.0	2865.0	595.5	234.5	265.5	228.0
Merged-chr8-35393637-4	chr8	35393547	35393747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	17906.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	37.0	43.0	34.5	507.0	73.5	28.0	49.5	36.5
Merged-chr8-56277348-4	chr8	56277250	56277450	+	896.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17202.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	13.0	9.5	19.5	269.5	59.0	10.5	15.0	12.0
Merged-chr13-32900821-2	chr13	32900721	32900921	+	783.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER70-int|LTR|ERVL	-2681.0	NM_173051	380839.0	Mm.250802	NM_173051	ENSMUSG00000079049	Serpinb1c	EIC|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1c	protein-coding	8.5	18.5	2.0	91.0	16.0	7.0	15.5	4.5
Merged-chr10-40247033-4	chr10	40246931	40247131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023323)	promoter-TSS (NM_023323)	8.0	NM_023323	67239.0	Mm.11480	NM_023323	ENSMUSG00000038510	Rpf2	2810470K21Rik|AU040229|AU043242|Bxdc1	ribosome production factor 2 homolog	protein-coding	97.5	100.0	52.5	760.5	216.0	75.5	84.5	53.5
Merged-chr5-142910354-4	chr5	142910225	142910425	+	898.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3571.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	8.0	8.5	18.0	217.0	21.0	8.5	6.5	13.5
Merged-chr18-44608177-3	chr18	44608082	44608282	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 3 of 18)	intron (NM_001085373, intron 3 of 18)	-53483.0	NR_026853	626275.0	Mm.427116	NR_026853	ENSMUSG00000097610	A930012L18Rik	-	RIKEN cDNA A930012L18 gene	ncRNA	23.5	45.0	40.0	648.5	6.0	6.0	9.5	0.0
Merged-chr8-79679204-2	chr8	79679094	79679294	+	707.083374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	32546.0	NM_015751	24015.0	Mm.5831	NM_015751	ENSMUSG00000058355	Abce1	C79080|Oabp|RLI|RNS41|RNS4I|Rnaseli	ATP-binding cassette, sub-family E (OABP), member 1	protein-coding	8.5	10.0	11.0	158.5	20.5	12.0	13.5	17.5
Merged-chr2-79228190-4	chr2	79228100	79228300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27226.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	94.5	121.0	103.0	1469.0	133.5	50.5	73.5	62.5
Merged-chr3-121595495-2	chr3	121595395	121595595	+	927.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47990.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	4.0	2.5	8.0	67.5	8.0	6.0	12.5	11.5
Merged-chr15-98533966-4	chr15	98533863	98534063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153345, exon 1 of 11)	non-coding (NR_153345, exon 1 of 11)	306.0	NM_001359827	69612.0	Mm.229107	NM_133714	ENSMUSG00000022992	Kansl2	2310037I24Rik|B930009D17	KAT8 regulatory NSL complex subunit 2	protein-coding	81.0	132.0	65.0	1139.5	226.0	72.0	125.5	77.5
Merged-chr3-88534326-2	chr3	88534226	88534426	+	986.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001029890, intron 1 of 1)	intron (NM_001029890, intron 1 of 1)	1931.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	7.0	7.0	8.5	69.5	13.0	5.0	10.0	6.5
Merged-chr2-165791884-2	chr2	165791790	165791990	+	730.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_027230, intron 22 of 23)	intron (NM_027230, intron 22 of 23)	66283.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	3.5	3.5	0.5	32.5	13.5	6.0	8.0	8.5
Merged-chr15-79446408-4	chr15	79446290	79446490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4247.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	36.5	37.0	30.5	465.5	81.0	37.0	41.0	39.5
Merged-chr12-84996286-4	chr12	84996201	84996401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178363)	promoter-TSS (NM_178363)	-20.0	NM_001347421	56531.0	Mm.153183	NM_178363	ENSMUSG00000021244	Ylpm1	A930013E17Rik|ZAP|Zap3	YLP motif containing 1	protein-coding	63.5	95.0	34.5	776.0	141.0	45.0	68.0	52.5
Merged-chr8-128685704-4	chr8	128685695	128685895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010578, exon 1 of 16)	5' UTR (NM_010578, exon 1 of 16)	141.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	56.5	78.5	79.0	908.0	205.0	82.5	96.0	86.5
Merged-chr10-100137561-4	chr10	100137456	100137656	+	921.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORSL|DNA|hAT-Tip100	121735.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	18.0	11.5	18.5	367.0	29.5	11.0	10.5	17.0
Merged-chr17-66216120-4	chr17	66216035	66216235	+	903.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92615.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	8.5	10.0	13.5	444.5	22.5	4.0	13.0	17.5
Merged-chr1-155417474-4	chr1	155417357	155417557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011273)	promoter-TSS (NM_011273)	-13.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	173.0	244.5	197.0	2328.0	491.0	183.0	176.0	165.0
Merged-chr9-23669426-4	chr9	23669334	23669534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-428584.0	NM_175678	319239.0	Mm.130824	NM_175678	ENSMUSG00000043659	Npsr1	9330128H10Rik|GPRA|Gpr154|MVTR|PGR14|VRR1	neuropeptide S receptor 1	protein-coding	50.0	65.0	62.5	850.5	85.5	39.0	36.5	36.0
Merged-chr11-83125119-4	chr11	83125027	83125227	+	881.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8307.0	NM_011407	20555.0	Mm.10948	NM_011407	ENSMUSG00000078763	Slfn1	AV316259	schlafen 1	protein-coding	22.0	28.0	23.5	195.0	18.0	9.5	9.0	5.5
Merged-chr10-121033469-3	chr10	121033328	121033528	+	779.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011915)	promoter-TSS (NM_011915)	-576.0	NM_011915	24117.0	Mm.32831	NM_011915	ENSMUSG00000020218	Wif1	AW107799|WIF-1	Wnt inhibitory factor 1	protein-coding	7.0	9.0	8.5	127.5	9.0	5.0	3.5	9.5
Merged-chr7-27553906-2	chr7	27553806	27554006	+	746.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011116)	promoter-TSS (NM_011116)	616.0	NM_175107	66367.0	Mm.29831	NM_175107	ENSMUSG00000049643	2310022A10Rik	-	RIKEN cDNA 2310022A10 gene	protein-coding	4.5	10.5	6.5	65.0	14.5	8.0	3.5	10.5
Merged-chr12-80060508-3	chr12	80060393	80060593	+	898.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	52520.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	5.0	15.0	20.0	206.5	20.0	3.0	3.5	1.0
Merged-chr5-32863616-4	chr5	32863493	32863693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170567)	promoter-TSS (NM_001170567)	-128.0	NM_177786	277854.0	Mm.101524	NM_177786	ENSMUSG00000037426	Depdc5	AV016528	DEP domain containing 5	protein-coding	118.5	158.5	71.5	1253.5	239.5	95.5	98.0	104.0
Merged-chr11-76631287-4	chr11	76631203	76631403	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-41167.0	NM_177182	320522.0	Mm.131585	NM_177182	ENSMUSG00000044243	Bhlha9	A830053O21Rik|Fingerin	basic helix-loop-helix family, member a9	protein-coding	29.0	37.0	39.0	603.0	55.0	13.5	25.5	31.5
Merged-chr7-101836777-4	chr7	101836685	101836885	+	875.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001122739, exon 2 of 29)	5' UTR (NM_001122739, exon 2 of 29)	1039.0	NM_001122739	16332.0	Mm.476000	NM_010567	ENSMUSG00000032737	Inppl1	51C|SHIP2	inositol polyphosphate phosphatase-like 1	protein-coding	5.0	6.0	13.5	57.5	15.5	11.0	11.0	11.5
Merged-chr4-41311326-4	chr4	41311223	41311423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026893, intron 2 of 8)	intron (NM_026893, intron 2 of 8)	3578.0	NM_026893	68970.0	Mm.28891	NM_026893	ENSMUSG00000028436	Dcaf12	1500001L20Rik|5830424K06Rik|AA420338|AI851081|Wdr40a	DDB1 and CUL4 associated factor 12	protein-coding	78.5	95.0	73.0	1117.0	166.0	51.5	41.5	73.5
Merged-chr8-85038024-5	chr8	85037851	85038051	+	830.5644530000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122843, intron 1 of 24)	CpG	783.0	NM_001122843	212999.0	Mm.220357	NM_145390	ENSMUSG00000031691	Tnpo2	1110034O24Rik|AA414969|AI464345|AI852433|IPO3|Knpb2b|Kpnb2b|TRN2	transportin 2 (importin 3, karyopherin beta 2b)	protein-coding	5.0	7.5	6.0	78.5	11.5	9.0	8.5	6.5
Merged-chr5-73490901-4	chr5	73490808	73491008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190733)	promoter-TSS (NM_001190733)	-118.0	NM_001190733	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	410.0	604.0	462.0	7416.5	969.0	396.5	517.5	330.0
Merged-chr16-30390066-7	chr16	30389960	30390160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1530.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	41.0	82.0	82.5	601.0	117.5	64.0	75.0	77.0
Merged-chr9-118856832-4	chr9	118856736	118856936	+	904.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 9 of 13)	intron (NM_001113514, intron 9 of 13)	-69700.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	9.0	25.0	33.0	453.0	45.5	7.0	10.5	13.0
Merged-chr7-145029274-4	chr7	145029152	145029352	+	929.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89327.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	10.5	15.0	12.0	142.5	54.0	10.0	13.5	10.0
Merged-chr13-94387063-1	chr13	94386963	94387163	+	750.0	f0_balb.idr	intron (NM_009680, intron 1 of 26)	L1MD2|LINE|L1	28103.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	3.0	7.0	10.0	132.0	4.5	6.0	5.0	5.5
Merged-chr2-68879287-4	chr2	68879171	68879371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	MTEa|LTR|ERVL-MaLR	17830.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	41.0	100.0	67.5	583.0	181.0	78.0	63.0	55.5
Merged-chr4-83309082-4	chr4	83308985	83309185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	MTC|LTR|ERVL-MaLR	15104.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	129.0	211.5	198.5	2100.5	319.5	119.5	155.0	142.0
Merged-chr2-60892379-4	chr2	60892274	60892474	+	995.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-10936.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	14.0	38.5	23.0	323.0	51.5	22.0	44.5	16.5
Merged-chr1-55739259-3	chr1	55739125	55739325	+	662.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 5 of 5)	intron (NM_001114663, intron 5 of 5)	-192016.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	11.0	4.5	17.0	114.5	9.5	4.5	3.0	4.0
Merged-chr8-70352709-3	chr8	70352645	70352845	+	775.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030680, intron 1 of 23)	CpG	534.0	NM_030680	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	5.0	11.5	4.0	7.5	13.0	9.5	9.0	5.5
Merged-chr8-35549274-3	chr8	35549169	35549369	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-38529.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	26.0	37.5	32.0	368.0	0.5	0.0	0.0	0.5
Merged-chr1-153748522-4	chr1	153748418	153748618	+	990.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011882)	promoter-TSS (NM_011882)	-908.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	22.0	6.0	13.5	153.0	15.0	9.0	7.5	11.5
Merged-chr9-106474559-5	chr9	106474388	106474588	+	792.313354	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001311150, exon 5 of 11)	exon (NM_001311150, exon 5 of 11)	2461.0	NM_001311150	235587.0	Mm.273659	NM_145619	ENSMUSG00000023249	Parp3	A930002C11Rik|AW990611|Adprt3|Adprtl3|PARP-3|pADPRT-3	poly (ADP-ribose) polymerase family, member 3	protein-coding	7.5	4.5	5.0	29.0	5.5	1.0	1.0	8.5
Merged-chr11-97718545-4	chr11	97718438	97718638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_054051, exon 10 of 10)	3' UTR (NM_054051, exon 10 of 10)	15104.0	NM_011971	26446.0	Mm.21874	NM_011971	ENSMUSG00000069744	Psmb3	AL033320|C10-II	proteasome (prosome, macropain) subunit, beta type 3	protein-coding	31.5	96.0	65.5	705.0	83.5	32.5	40.5	38.5
Merged-chr4-55531471-5	chr4	55531379	55531579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010637, intron 2 of 4)	CpG	996.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	28.0	43.0	28.5	340.0	80.5	28.5	30.5	52.0
Merged-chr18-36727706-4	chr18	36727595	36727795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009841)	promoter-TSS (NM_009841)	-880.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	38.5	43.5	50.5	555.5	86.0	53.0	56.0	55.0
Merged-chr18-38365088-4	chr18	38364989	38365189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-26096.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	83.0	80.0	43.0	774.0	130.5	41.0	88.0	50.0
Merged-chr16-91547027-4	chr16	91546935	91547135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008338)	promoter-TSS (NM_008338)	-59.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	55.5	117.0	46.0	788.0	210.5	70.5	104.5	95.0
Merged-chr17-65771199-4	chr17	65771070	65771270	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	1582.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	25.5	34.0	24.5	270.0	45.5	10.5	14.5	25.5
Merged-chr5-4583258-1	chr5	4583158	4583358	+	869.0	f0_balb.idr	Intergenic	Intergenic	174958.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	5.5	7.0	13.5	165.0	21.0	7.0	8.0	12.0
Merged-chr18-39481725-3	chr18	39481636	39481836	+	694.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	5509.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	6.0	5.0	6.0	98.0	7.0	4.0	5.0	7.0
Merged-chr14-45307949-6	chr14	45307879	45308079	+	875.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015774, intron 1 of 15)	B1_Mur3|SINE|Alu	10593.0	NM_015774	50527.0	Mm.387108	NM_015774	ENSMUSG00000021831	Ero1l	ERO1-L|Ero1a	ERO1-like (S. cerevisiae)	protein-coding	4.5	9.5	6.5	108.5	11.0	2.0	7.0	17.5
Merged-chr8-103632665-4	chr8	103632565	103632765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045730, intron 1 of 4)	intron (NR_045730, intron 1 of 4)	28866.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	21.0	28.0	30.0	527.5	42.0	5.5	24.0	21.0
Merged-chr11-100805674-3	chr11	100805583	100805783	+	716.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 2 of 18)	intron (NM_001113563, intron 2 of 18)	16887.0	NM_011489	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	5.5	13.5	5.5	134.0	8.5	7.5	4.5	4.5
Merged-chr5-64794152-4	chr5	64794073	64794273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9350.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	59.5	76.5	31.5	966.5	131.0	45.0	52.0	43.5
Merged-chr15-7129481-4	chr15	7129398	7129598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113386)	promoter-TSS (NM_001113386)	-74.0	NM_001113386	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	24.0	48.0	8.0	370.0	87.0	36.5	48.0	27.0
Merged-chr3-37956805-4	chr3	37956703	37956903	+	886.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040559, intron 2 of 3)	intron (NR_040559, intron 2 of 3)	57990.0	NR_040559	626410.0	Mm.389417	NR_040559	ENSMUSG00000106461	Gm20755	-	predicted gene, 20755	ncRNA	7.0	4.0	19.5	289.5	31.5	8.0	20.0	12.5
Merged-chr11-97684826-4	chr11	97684713	97684913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_139311, exon 20 of 20)	3' UTR (NM_139311, exon 20 of 20)	-1139.0	NM_001085500	217149.0	Mm.29659	NM_001085500	ENSMUSG00000078695	Cisd3	Mel-13|Mel13	CDGSH iron sulfur domain 3	protein-coding	32.5	65.5	23.0	557.0	95.5	38.5	35.0	28.5
Merged-chr16-4723009-4	chr16	4722907	4723107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-3354.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	36.5	47.5	64.5	754.0	93.0	55.0	56.0	57.5
Merged-chr4-95711487-4	chr4	95711382	95711582	+	795.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 6 of 10)	intron (NM_029347, intron 6 of 10)	132061.0	NM_029347	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	8.0	2.5	4.5	197.0	18.0	4.5	8.5	10.0
Merged-chr2-116932454-4	chr2	116932364	116932564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32312.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	114.5	153.5	148.0	1662.5	265.0	101.5	130.5	103.5
Merged-chr17-62627721-4	chr17	62627604	62627804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010109, intron 2 of 3)	intron (NM_010109, intron 2 of 3)	253613.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	112.5	90.5	66.0	1368.5	147.0	63.5	65.0	53.5
Merged-chr6-136808205-4	chr6	136808102	136808302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177688)	promoter-TSS (NM_177688)	-46.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	136.5	195.0	118.0	1833.5	483.5	183.0	207.5	150.0
Merged-chr11-69682950-4	chr11	69682850	69683050	+	990.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163571)	promoter-TSS (NM_001163571)	-866.0	NM_001163571	80886.0	Mm.284592	NM_030702	ENSMUSG00000005204	Senp3	AA408656|Smt3ip|Smt3ip1	SUMO/sentrin specific peptidase 3	protein-coding	24.0	27.0	5.0	68.0	42.5	27.5	12.0	19.0
Merged-chr12-85943041-4	chr12	85942946	85943146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 28 of 32)	intron (NM_001347395, intron 28 of 32)	118096.0	NM_001081423	320244.0	Mm.132172	NM_177114	ENSMUSG00000012609	Ttll5	1700048H13Rik|2310009M18Rik|4930556H18Rik|AI428864|D630041K24Rik|R75373|Stamp|mKIAA0998	tubulin tyrosine ligase-like family, member 5	protein-coding	51.5	88.5	47.5	1001.5	103.5	55.5	45.5	62.5
Merged-chr11-62559116-4	chr11	62559011	62559211	+	963.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7380.0	NM_001313984	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	47.5	20.5	56.0	825.5	50.5	12.5	10.0	23.5
Merged-chr12-35831484-2	chr12	35831384	35831584	+	870.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94137.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	7.5	10.0	5.0	59.0	17.0	7.5	6.5	2.0
Merged-chr10-128895633-4	chr10	128895527	128895727	+	790.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3909.0	NM_010272	14561.0	Mm.299218	NM_010272	ENSMUSG00000025352	Gdf11	BMP-11|Bmp11	growth differentiation factor 11	protein-coding	14.0	22.5	11.0	121.5	24.5	9.5	15.0	8.0
Merged-chr4-86580232-4	chr4	86580120	86580320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173400, exon 17 of 17)	3' UTR (NM_173400, exon 17 of 17)	4547.0	NM_178376	68441.0	Mm.31178	NM_178376	ENSMUSG00000070934	Rraga	1300010C19Rik|AI255374|FIP-1|RAGA	Ras-related GTP binding A	protein-coding	93.5	152.5	68.5	1541.0	188.5	82.5	76.5	91.5
Merged-chr13-34711637-4	chr13	34711546	34711746	+	946.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27996.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	11.5	34.5	8.0	223.0	34.5	5.5	18.5	19.0
Merged-chr3-84504504-4	chr3	84504391	84504591	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293801, intron 7 of 7)	intron (NM_001293801, intron 7 of 7)	-24052.0	NM_001033301	229474.0	Mm.331107	NM_001033301	ENSMUSG00000041842	Fhdc1	6330505N24Rik|Gm126	FH2 domain containing 1	protein-coding	36.0	56.0	70.0	947.5	39.0	7.5	21.0	22.0
Merged-chr15-78928269-4	chr15	78928184	78928384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008495, intron 2 of 3)	intron (NM_008495, intron 2 of 3)	1559.0	NM_008495	16852.0	Mm.43831	NM_008495	ENSMUSG00000068220	Lgals1	AA410090|Gal-1|Galbp|L-14.5|L14|Lect14|galectin-1	lectin, galactose binding, soluble 1	protein-coding	75.5	94.0	66.0	989.0	103.0	48.0	30.0	34.0
Merged-chr2-84888850-1	chr2	84888750	84888950	+	617.0	f0_balb.idr	Intergenic	Intergenic	-2158.0	NM_199223	269295.0	Mm.86447	NM_199223	ENSMUSG00000050896	Rtn4rl2	Ngr2|Ngrh1|Ngrl3	reticulon 4 receptor-like 2	protein-coding	3.0	8.0	10.0	87.5	7.0	5.0	14.0	10.5
Merged-chr6-65151948-4	chr6	65151848	65152048	+	924.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-7218.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	18.0	20.5	14.0	236.5	33.5	9.5	15.5	23.5
Merged-chr7-120940513-3	chr7	120940399	120940599	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025298, exon 18 of 21)	exon (NM_025298, exon 18 of 21)	22755.0	NM_001164096	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	7.0	23.0	23.5	323.5	5.5	0.5	4.5	3.0
Merged-chr19-56535221-3	chr19	56535116	56535316	+	899.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153440, intron 8 of 9)	L1MB7|LINE|L1	12906.0	NM_001360437	55947.0	Mm.2805	NM_018831	ENSMUSG00000025077	Dclre1a	2810043H12Rik|AU022226|Pso2|Smn1a|Snm1|mKIAA0086	DNA cross-link repair 1A	protein-coding	20.5	10.0	31.5	197.0	16.0	10.5	8.5	10.0
Merged-chr5-142911701-4	chr5	142911637	142911837	+	881.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4983.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	10.5	36.5	6.0	113.5	41.0	19.0	16.0	9.5
Merged-chr2-22774379-4	chr2	22774300	22774500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019456)	promoter-TSS (NM_019456)	73.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	30.5	62.0	35.5	646.5	90.0	32.0	47.0	35.5
Merged-chr6-52191994-4	chr6	52191941	52192141	+	962.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008265)	promoter-TSS (NM_008265)	-338.0	NM_008265	15401.0	Mm.439647	NM_008265	ENSMUSG00000000942	Hoxa4	AV206827|Hox-1.4	homeobox A4	protein-coding	11.0	24.5	14.0	215.5	33.5	26.0	12.0	5.5
Merged-chr10-75514455-4	chr10	75514355	75514555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347201, intron 1 of 5)	MTE2a|LTR|ERVL-MaLR	2926.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	24.5	42.5	44.5	676.0	139.0	49.5	59.0	68.5
Merged-chr9-64806485-4	chr9	64806427	64806627	+	743.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4484.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	9.0	7.5	6.0	27.0	13.0	4.0	2.0	8.5
Merged-chr2-18672335-4	chr2	18672223	18672423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_147778)	promoter-TSS (NM_147778)	-139.0	NM_147778	12238.0	Mm.249586	NM_147778	ENSMUSG00000051154	Commd3	AW550818|Bup|D2Ertd542e	COMM domain containing 3	protein-coding	131.0	168.0	105.0	1027.0	384.0	112.5	117.0	118.5
Merged-chr14-40958809-4	chr14	40958725	40958925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	8071.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	30.5	49.5	53.5	904.0	48.5	17.5	20.0	34.5
Merged-chr4-56114097-4	chr4	56114011	56114211	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-581636.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	27.5	25.0	31.0	461.5	20.0	16.0	24.5	16.5
Merged-chr7-30167241-3	chr7	30167126	30167326	+	847.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011980, intron 1 of 1)	intron (NM_011980, intron 1 of 1)	2515.0	NM_011980	26465.0	Mm.446516	NM_011980	ENSMUSG00000037029	Zfp146	OZF|Znf146	zinc finger protein 146	protein-coding	0.5	0.0	2.0	0.0	51.0	19.5	25.0	40.0
Merged-chr4-33282545-4	chr4	33282451	33282651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27760.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	108.5	194.0	166.5	1187.5	340.5	130.5	116.0	117.5
Merged-chr3-130818878-4	chr3	130818773	130818973	+	987.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88475.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	15.0	26.5	14.0	331.5	52.0	7.5	33.5	13.0
Merged-chr1-136683370-4	chr1	136683288	136683488	+	969.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045324)	promoter-TSS (NR_045324)	-8.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	16.0	24.0	14.0	182.0	32.5	21.0	21.0	19.0
Merged-chr3-122924318-4	chr3	122924229	122924429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046036)	promoter-TSS (NR_046036)	-68.0	NM_024461	67704.0	Mm.24219	NM_024461	ENSMUSG00000054091	1810037I17Rik	5730414I01Rik|Aln	RIKEN cDNA 1810037I17 gene	protein-coding	89.5	102.5	120.5	1202.0	170.5	69.5	98.0	74.5
Merged-chr2-58533518-4	chr2	58533386	58533586	+	941.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110204, intron 2 of 12)	intron (NM_001110204, intron 2 of 12)	27924.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	12.5	10.0	15.5	133.0	28.5	3.5	6.5	8.0
Merged-chr4-34886710-4	chr4	34886594	34886794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3746.0	NM_013889	30046.0	Mm.38193	NM_013889	ENSMUSG00000039967	Zfp292	5730450D02Rik|5830493J20Rik|9430062L07Rik|AI449016|Krox-10|Zfp-15|Zfp15|Zn-15|Zn-16|mKIAA0530	zinc finger protein 292	protein-coding	50.5	43.5	88.0	912.5	96.0	33.5	55.5	40.0
Merged-chr19-17278579-4	chr19	17278497	17278697	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60908.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	24.5	24.0	16.5	307.5	75.5	23.5	24.0	26.0
Merged-chr4-120501896-2	chr4	120501786	120501986	+	637.666626	f0_balb.idr|f1_balb.idr	intron (NM_001355424, intron 7 of 14)	intron (NM_001355424, intron 7 of 14)	-30345.0	NM_177570	194219.0	Mm.29788	NM_177570	ENSMUSG00000047518	Slfnl1	4933406A14Rik	schlafen like 1	protein-coding	9.0	8.5	8.0	156.0	0.0	0.0	0.0	0.5
Merged-chr3-144203416-3	chr3	144203315	144203515	+	676.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010723, intron 1 of 4)	intron (NM_010723, intron 1 of 4)	-1019.0	NM_001161769	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	6.5	5.5	8.0	61.5	36.5	4.5	9.5	9.5
Merged-chr16-57555125-4	chr16	57555030	57555230	+	956.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	5888.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	31.5	41.0	35.5	354.5	40.0	17.0	16.5	12.0
Merged-chr2-121008403-4	chr2	121008296	121008496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010761)	promoter-TSS (NM_010761)	-12.0	NM_010761	17151.0	Mm.7838	NM_010761	ENSMUSG00000023572	Ccndbp1	AU022347|DIP1|GCIP|Maid|SECC-8|SSEC-8	cyclin D-type binding-protein 1	protein-coding	57.5	83.5	29.0	680.0	135.5	53.0	54.0	65.5
Merged-chr2-113397889-4	chr2	113397800	113398000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285458, intron 2 of 16)	intron (NM_001285458, intron 2 of 16)	-43164.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	71.0	93.5	60.0	1006.0	184.0	62.5	45.0	91.5
Merged-chr5-121592631-3	chr5	121592540	121592740	+	841.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009656, intron 1 of 12)	PB1D10|SINE|Alu	1184.0	NM_009656	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	11.5	2.5	8.0	82.0	11.0	5.0	5.5	4.5
Merged-chr10-80684408-4	chr10	80684313	80684513	+	868.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172457)	TTS (NM_172457)	-8120.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	19.5	13.0	1.0	135.5	28.5	11.0	11.5	17.0
Merged-chr18-80715504-4	chr18	80715398	80715598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2427.0	NM_001164110	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	30.5	22.5	22.0	412.0	39.5	6.5	16.5	7.5
Merged-chr17-32320819-4	chr17	32320698	32320898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_017476)	TTS (NM_017476)	440.0	NM_001357760	56399.0	Mm.328945	NM_019774	ENSMUSG00000024045	Akap8	1200016A02Rik|AA673585|AKAP-8|AKAP95|AU015639	A kinase (PRKA) anchor protein 8	protein-coding	29.5	42.0	53.0	343.0	61.0	21.5	28.5	27.0
Merged-chr14-31597658-4	chr14	31597560	31597760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20277.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	24.5	76.0	37.0	335.0	179.5	76.0	72.5	66.5
Merged-chr5-21034678-4	chr5	21034584	21034784	+	975.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356590, exon 1 of 19)	5' UTR (NM_001356590, exon 1 of 19)	563.0	NM_001356592	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	22.0	23.5	20.5	262.5	36.0	25.0	22.0	22.5
Merged-chr5-76974731-5	chr5	76974723	76974923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025691, exon 1 of 19)	exon (NM_025691, exon 1 of 19)	122.0	NM_025691	66661.0	Mm.296976	NM_025691	ENSMUSG00000036323	Srp72	5730576P14Rik|72kDa|AI132477|BC019196|C77589	signal recognition particle 72	protein-coding	28.5	53.5	68.5	461.5	86.0	40.0	42.0	50.0
Merged-chr2-180276081-4	chr2	180275974	180276174	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2609.0	NM_145851	252966.0	Mm.386884	NM_145851	ENSMUSG00000038990	Cables2	ik3-2	CDK5 and Abl enzyme substrate 2	protein-coding	47.0	43.0	24.5	479.5	46.0	19.0	30.5	22.0
Merged-chr7-133123382-4	chr7	133123229	133123429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009980, exon 1 of 11)	5' UTR (NM_009980, exon 1 of 11)	154.0	NM_009980	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	27.0	31.0	15.5	233.0	42.5	26.0	22.5	30.5
Merged-chr4-32055365-4	chr4	32055317	32055517	+	962.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91310.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	19.5	33.0	26.5	472.5	69.0	21.5	21.0	14.5
Merged-chr11-77802282-1	chr11	77802182	77802382	+	558.333313	f0_balb.idr	intron (NM_001291214, intron 1 of 38)	intron (NM_001291214, intron 1 of 38)	984.0	NM_001291215	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	7.5	7.5	7.5	91.0	13.5	3.0	5.5	2.0
Merged-chr12-35066748-4	chr12	35066641	35066841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	Lx8|LINE|L1	19552.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	51.5	59.0	49.0	944.0	55.5	38.5	41.0	35.5
Merged-chr5-64224917-3	chr5	64224812	64225012	+	771.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-5445.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	7.0	8.5	10.0	89.0	14.5	4.5	13.0	7.0
Merged-chr1-154040375-3	chr1	154040256	154040456	+	873.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	140427.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	12.5	10.0	6.5	92.0	17.0	9.5	9.0	17.5
Merged-chr12-105705975-3	chr12	105705873	105706073	+	757.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030187)	promoter-TSS (NM_030187)	-9.0	NM_030187	78801.0	Mm.36006	NM_030187	ENSMUSG00000041323	Ak7	4930502N02Rik|AK 7	adenylate kinase 7	protein-coding	6.0	10.0	9.5	92.5	18.5	10.0	13.0	4.5
Merged-chr2-62638828-4	chr2	62638716	62638916	+	726.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027835, intron 2 of 15)	Lx9|LINE|L1	7439.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	4.5	8.0	6.0	112.0	33.0	12.0	10.0	10.0
Merged-chr4-155803598-4	chr4	155803516	155803716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025570, exon 2 of 5)	5' UTR (NM_025570, exon 2 of 5)	738.0	NM_025570	66448.0	Mm.23825	NM_025570	ENSMUSG00000029066	Mrpl20	2610008D01Rik|4930425I20Rik	mitochondrial ribosomal protein L20	protein-coding	98.5	137.5	79.5	1026.0	229.5	116.5	98.5	99.5
Merged-chr2-118263983-4	chr2	118263887	118264087	+	816.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7021.0	NM_027759	71313.0	Mm.85046	NM_027759	ENSMUSG00000027344	Fsip1	1700012M13Rik|4933432K11Rik	fibrous sheath-interacting protein 1	protein-coding	12.0	17.5	10.5	116.0	45.5	9.5	13.5	14.5
Merged-chr7-122127962-3	chr7	122127829	122128029	+	970.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289842, exon 4 of 12)	exon (NM_001289842, exon 4 of 12)	5017.0	NM_001289844	233826.0	Mm.38348	NM_172744	ENSMUSG00000044702	Palb2	BC066140	partner and localizer of BRCA2	protein-coding	9.5	5.0	2.0	235.0	32.5	10.0	21.5	5.5
Merged-chr7-127588234-4	chr7	127588113	127588313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172281)	promoter-TSS (NM_172281)	382.0	NM_001033040	233899.0	Mm.25220	NM_001033040	ENSMUSG00000057176	Ccdc189	Gm166	coiled-coil domain containing 189	protein-coding	78.0	114.0	57.0	837.5	212.5	80.0	85.5	74.0
Merged-chr11-3178115-2	chr11	3178008	3178208	+	984.916626	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 5 of 32)	intron (NM_030207, intron 5 of 32)	15355.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	23.0	21.5	37.5	425.0	0.0	0.0	0.0	0.0
Merged-chr17-73052094-1	chr17	73051994	73052194	+	655.0	f1_c57bl6.idr	Intergenic	Intergenic	-55891.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	2.5	0.0	0.5	20.0	10.5	7.0	10.5	10.0
Merged-chr9-59727621-4	chr9	59727526	59727726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	19862.0	NM_001033498	546134.0	Mm.297580	NM_001033498	ENSMUSG00000074259	Gramd2	BC064463|Gramd2a	GRAM domain containing 2	protein-coding	62.5	57.5	37.0	905.0	116.0	41.0	67.0	68.5
Merged-chr17-87447030-7	chr17	87446939	87447139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007589)	promoter-TSS (NM_007589)	-104.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	16.5	67.5	41.5	263.0	95.5	45.0	30.0	44.5
Merged-chr19-29461438-4	chr19	29461324	29461524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	MTC|LTR|ERVL-MaLR	50505.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	97.5	177.0	134.0	1157.5	215.0	77.0	67.5	56.0
Merged-chr12-78861026-4	chr12	78860946	78861146	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023721, intron 1 of 8)	intron (NM_023721, intron 1 of 8)	592.0	NM_023721	73834.0	Mm.311549	NM_023721	ENSMUSG00000021114	Atp6v1d	1110004P10Rik|Atp6m|VATD|Vma8	ATPase, H+ transporting, lysosomal V1 subunit D	protein-coding	11.5	22.0	9.5	149.5	49.5	10.0	19.0	13.0
Merged-chr1-57850042-3	chr1	57849938	57850138	+	981.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164566, intron 1 of 11)	intron (NM_001164566, intron 1 of 11)	4467.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	21.0	34.0	10.0	368.5	11.5	2.5	3.5	1.0
Merged-chr13-34278322-4	chr13	34278222	34278422	+	984.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	66860.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	49.0	28.5	19.5	509.5	38.0	14.5	19.5	20.5
Merged-chr13-54057129-3	chr13	54057036	54057236	+	647.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1478.0	NM_010076	13488.0	Mm.54161	NM_010076	ENSMUSG00000021478	Drd1	C030036C15Rik|Drd-1|Drd1a|Gpcr15	dopamine receptor D1	protein-coding	0.0	0.0	3.0	6.5	44.0	12.0	11.5	7.0
Merged-chr1-152090339-4	chr1	152090230	152090430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197990)	promoter-TSS (NM_197990)	-10.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	38.5	52.5	40.5	428.0	40.0	13.0	19.0	18.5
Merged-chr17-24583858-3	chr17	24583770	24583970	+	811.894409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013630, intron 26 of 45)	Lx5c|LINE|L1	33920.0	NM_013630	18763.0	Mm.30435	NM_013630	ENSMUSG00000032855	Pkd1	PC1|mFLJ00285	polycystin 1, transient receptor poteintial channel interacting	protein-coding	11.0	11.5	9.5	102.5	10.5	3.5	6.0	5.5
Merged-chr18-35598608-4	chr18	35598491	35598691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357472)	promoter-TSS (NM_001357472)	-26.0	NM_001357470	67869.0	Mm.126534	NM_026420	ENSMUSG00000037058	Paip2	2310050K10Rik|AU045972	polyadenylate-binding protein-interacting protein 2	protein-coding	53.5	85.0	26.5	750.5	162.0	58.0	64.5	75.5
Merged-chr5-99487134-4	chr5	99487055	99487255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	LTR33A|LTR|ERVL	-234228.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	36.0	47.0	37.5	666.5	75.0	22.0	40.0	28.0
Merged-chr17-26544573-3	chr17	26544490	26544690	+	984.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16922.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	5.5	9.0	7.5	53.0	26.5	11.5	5.5	10.0
Merged-chr9-64784966-4	chr9	64784845	64785045	+	872.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26066.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	20.5	16.5	7.5	78.5	32.0	11.5	11.0	11.5
Merged-chr7-35546063-1	chr7	35545963	35546163	+	576.0	f0_balb.idr	Intergenic	MER20|DNA|hAT-Charlie	-8319.0	NM_028034	71981.0	Mm.47904	NM_028034	ENSMUSG00000030491	Tdrd12	2410004F06Rik|2410070K17Rik|ECAT8|EG434165|G1-476-14|repro23	tudor domain containing 12	protein-coding	5.0	10.5	6.5	72.5	17.0	7.0	10.0	6.0
Merged-chr14-45036785-4	chr14	45036698	45036898	+	946.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	48687.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	13.5	19.5	11.0	304.0	56.5	10.0	27.5	16.0
Merged-chr2-152686982-4	chr2	152686889	152687089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025543)	promoter-TSS (NM_025543)	-159.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	94.5	187.0	95.0	880.0	257.5	127.5	91.0	103.0
Merged-chr11-8676825-3	chr11	8676736	8676936	+	913.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa-int|LTR|ERVL-MaLR	-12301.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	3.5	10.0	4.0	71.0	34.0	4.5	12.0	15.0
Merged-chr13-45455786-3	chr13	45455695	45455895	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-51649.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	23.5	26.5	33.0	543.5	15.5	6.0	21.0	5.5
Merged-chr16-93938651-4	chr16	93938545	93938745	+	805.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019500, intron 2 of 2)	intron (NM_019500, intron 2 of 2)	-8828.0	NM_001165926	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	6.5	17.5	14.0	94.5	21.5	5.0	10.0	8.5
Merged-chr7-127480594-4	chr7	127480491	127480691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-4630.0	NM_010183	14123.0	Mm.323505	NM_010183	ENSMUSG00000042423	Fbrs	Fbs|Fbs1	fibrosin	protein-coding	52.5	97.5	39.5	627.0	123.0	44.0	59.5	55.0
Merged-chr12-17808741-4	chr12	17808617	17808817	+	802.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117908.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	5.5	15.0	6.0	71.0	19.0	7.0	4.5	11.0
Merged-chr6-70792875-4	chr6	70792774	70792974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009075)	promoter-TSS (NM_009075)	-699.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	44.5	36.0	36.5	618.5	76.0	16.0	31.0	37.0
Merged-chr8-22838900-4	chr8	22838791	22838991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-20648.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	117.5	181.5	119.5	2471.0	300.0	104.0	111.0	135.0
Merged-chr1-136559012-4	chr1	136558923	136559123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65878.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	56.5	61.5	56.5	703.0	117.5	39.0	38.0	35.0
Merged-chr3-127625479-4	chr3	127625383	127625583	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7653.0	NM_009718	11924.0	Mm.42017	NM_009718	ENSMUSG00000027967	Neurog2	Atoh4|Math4A|bHLHa8|ngn-2|ngn2	neurogenin 2	protein-coding	19.5	20.5	18.0	266.5	30.0	13.5	20.0	10.0
Merged-chr12-77238804-4	chr12	77238731	77238931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045554)	promoter-TSS (NR_045554)	92.0	NR_045554	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	86.0	93.5	81.5	1423.5	161.0	61.0	91.5	89.5
Merged-chr12-87406579-1	chr12	87406479	87406679	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-18224.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	6.5	20.5	11.0	77.0	37.5	19.5	12.5	11.0
Merged-chr5-121711063-4	chr5	121710962	121711162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009125)	promoter-TSS (NM_009125)	-547.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	31.0	37.5	25.0	399.0	70.0	19.0	24.0	34.0
Merged-chr10-123057301-2	chr10	123057201	123057401	+	649.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163024, intron 2 of 34)	B2_Mm2|SINE|B2	19204.0	NM_001163024	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	2.0	2.0	0.0	43.0	23.0	4.5	7.5	4.5
Merged-chr16-96082531-4	chr16	96082443	96082643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176928)	promoter-TSS (NM_176928)	-115.0	NM_145125	93871.0	Mm.240871	NM_145125	ENSMUSG00000022914	Brwd1	5330419I02Rik|D530019K20Rik|G1-403-16|Wdr9|repro5	bromodomain and WD repeat domain containing 1	protein-coding	81.5	143.5	85.5	1877.5	240.5	108.5	135.5	102.5
Merged-chr14-68598163-4	chr14	68598070	68598270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16098.0	NM_021475	58860.0	Mm.36742	NM_021475	ENSMUSG00000022057	Adamdec1	2210414L24Rik|AI574231|Dcsn	ADAM-like, decysin 1	protein-coding	48.5	64.0	64.0	374.5	102.0	37.5	34.0	39.5
Merged-chr4-16160625-3	chr4	16160523	16160723	+	710.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138102, intron 1 of 11)	intron (NR_138102, intron 1 of 11)	3020.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	11.5	11.0	3.0	10.5	32.0	19.5	13.0	11.0
Merged-chr1-77832384-4	chr1	77832288	77832488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-317300.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	176.5	172.5	178.5	2891.0	400.5	122.0	208.5	154.0
Merged-chr14-120303126-3	chr14	120303015	120303215	+	981.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	-3337.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	10.0	4.5	11.5	186.5	15.5	7.0	10.0	9.5
Merged-chr6-65142855-3	chr6	65142744	65142944	+	859.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 1 of 5)	intron (NM_019455, intron 1 of 5)	1886.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	2.5	5.0	9.0	198.0	12.0	7.5	4.5	9.0
Merged-chr4-34495486-2	chr4	34495392	34495592	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	ID_B1|SINE|B4	-55123.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	41.0	59.0	44.0	475.5	76.5	30.5	61.0	37.5
Merged-chr12-105009881-4	chr12	105009777	105009977	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172500)	promoter-TSS (NM_172500)	-68.0	NM_172500	212073.0	Mm.212688	NM_172500	ENSMUSG00000054150	Syne3	KASH3|nesprin-3	spectrin repeat containing, nuclear envelope family member 3	protein-coding	18.0	27.0	24.5	263.0	16.5	8.0	7.0	25.5
Merged-chr5-110094512-4	chr5	110094396	110094596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5473.0	NM_207279	403178.0	Mm.297057	NM_207279	ENSMUSG00000064247	Plcxd1	A330045H12Rik|Gm576	phosphatidylinositol-specific phospholipase C, X domain containing 1	protein-coding	140.0	181.5	96.0	2502.5	347.0	156.0	233.5	194.5
Merged-chr1-87755930-4	chr1	87755837	87756037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205391)	promoter-TSS (NM_001205391)	-74.0	NM_029846	77040.0	Mm.272972	NM_029846	ENSMUSG00000026289	Atg16l1	1500009K01Rik|Apg16l|Atg16l|WDR30	autophagy related 16-like 1 (S. cerevisiae)	protein-coding	131.5	187.0	99.0	1477.0	289.0	137.5	98.0	103.0
Merged-chr9-65745626-4	chr9	65745520	65745720	+	940.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 2 of 9)	RSINE1|SINE|B4	69072.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	22.5	41.0	34.5	462.5	35.0	10.5	12.5	17.0
Merged-chr1-60173311-4	chr1	60173211	60173411	+	947.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7288.0	NM_173444	269198.0	Mm.205224	NM_173444	ENSMUSG00000073664	Nbeal1	2310076G13Rik|A530050O19Rik|A530083I02Rik|AI662228|ALS2CR17	neurobeachin like 1	protein-coding	12.5	25.0	13.5	247.5	49.5	21.5	12.5	20.5
Merged-chr13-9189293-3	chr13	9189185	9189385	+	871.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-87240.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	12.0	14.0	7.0	170.5	16.5	1.5	5.5	8.0
Merged-chr7-97400064-4	chr7	97399959	97400159	+	937.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024220)	promoter-TSS (NM_024220)	56.0	NM_024220	68197.0	Mm.334031	NM_024220	ENSMUSG00000030647	Ndufc2	1810004I06Rik|2010300P09Rik|G1|R75094	NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2	protein-coding	16.0	20.5	10.0	130.5	37.0	25.5	12.5	21.0
Merged-chr5-140736594-2	chr5	140736494	140736694	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	12467.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	5.5	5.0	5.0	54.5	8.0	3.0	4.0	3.5
Merged-chr2-153147888-4	chr2	153147806	153148006	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 11 of 12)	intron (NM_001172117, intron 11 of 12)	-13395.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	17.0	39.5	18.0	281.0	68.5	25.5	32.0	25.5
Merged-chr18-80224496-4	chr18	80224400	80224600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025299, exon 4 of 4)	3' UTR (NM_025299, exon 4 of 4)	17633.0	NM_001042408	27366.0	Mm.172411	NM_025299	ENSMUSG00000057130	Txnl4a	D18Wsu98e|Dim1|Txnl4|U5-15kD|U5-15kDa	thioredoxin-like 4A	protein-coding	172.0	220.0	164.5	3416.5	94.5	38.0	56.5	38.5
Merged-chr15-101224653-2	chr15	101224553	101224753	+	805.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045326)	promoter-TSS (NR_045326)	124.0	NR_045327	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	4.0	2.5	9.0	54.5	13.5	9.0	6.5	8.0
Merged-chr8-77419990-4	chr8	77419919	77420119	+	868.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 7 of 22)	intron (NM_030113, intron 7 of 22)	-97037.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	9.5	11.0	10.0	153.5	15.5	7.5	12.0	9.5
Merged-chr15-36179711-4	chr15	36179579	36179779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_012031, exon 1 of 19)	5' UTR (NM_012031, exon 1 of 19)	149.0	NM_012031	26942.0	Mm.295539	NM_012031	ENSMUSG00000037617	Spag1	tpis	sperm associated antigen 1	protein-coding	40.5	63.5	27.5	773.5	91.0	30.0	50.0	45.0
Merged-chr10-81597386-3	chr10	81597300	81597500	+	822.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359135)	promoter-TSS (NM_001359135)	-33.0	NM_001359135	114606.0	Mm.206764	NM_053254	ENSMUSG00000034758	Tle6	1810057E06Rik|Grg6	transducin-like enhancer of split 6	protein-coding	7.0	10.5	10.0	115.0	16.0	4.5	5.5	12.5
Merged-chr2-166703133-3	chr2	166703027	166703227	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	10705.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	23.5	34.0	33.5	261.0	69.0	10.5	6.5	10.5
Merged-chr1-21166461-3	chr1	21166360	21166560	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52115.0	NM_001290679	75712.0	Mm.304763	NM_029398	ENSMUSG00000025933	Tmem14a	5730496E24Rik|C85783|PTD011	transmembrane protein 14A	protein-coding	39.0	53.0	53.0	686.5	8.5	1.0	6.0	9.5
Merged-chr12-76615463-4	chr12	76615372	76615572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 15 of 35)	ORR1D2-int|LTR|ERVL-MaLR	-67547.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	36.0	44.0	35.5	555.5	77.5	34.5	48.5	34.5
Merged-chr11-59449961-4	chr11	59449834	59450034	+	968.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037992)	promoter-TSS (NR_037992)	100.0	NM_001356454	67826.0	Mm.26680	NM_144521	ENSMUSG00000009894	Snap47	1110031B06Rik|SNAP-47	synaptosomal-associated protein, 47	protein-coding	16.0	34.5	23.5	273.5	40.0	12.5	14.0	16.0
Merged-chr14-54408473-4	chr14	54408284	54408484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	1088.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	12.5	17.0	55.5	453.5	39.5	15.0	19.5	15.0
Merged-chr5-121836433-4	chr5	121836338	121836538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306126)	promoter-TSS (NM_001306126)	-334.0	NM_001306126	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	86.5	146.5	153.5	1758.5	283.0	105.5	164.0	96.0
Merged-chr14-57366978-4	chr14	57366903	57367103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 2 of 7)	intron (NM_030004, intron 2 of 7)	31480.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	45.0	53.5	47.0	1086.5	98.5	24.5	37.5	65.0
Merged-chr13-20092536-4	chr13	20092442	20092642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	2035.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	113.0	118.0	96.0	1566.5	235.0	91.5	117.0	81.0
Merged-chr2-148532232-4	chr2	148532140	148532340	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88705.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	21.5	16.5	18.5	314.0	43.5	18.0	29.5	13.5
Merged-chr8-39308771-1	chr8	39308671	39308871	+	1000.0	f0_balb.idr	intron (NR_044988, intron 2 of 3)	intron (NR_044988, intron 2 of 3)	10791.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	6.0	17.0	8.0	265.5	3.0	0.0	0.0	0.0
Merged-chr6-50566606-4	chr6	50566488	50566688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015581)	promoter-TSS (NR_015581)	-55.0	NR_027892	73183.0	Mm.430720	NR_015581	ENSMUSG00000085776	5430402O13Rik	3110047M22Rik	RIKEN cDNA 5430402O13 gene	ncRNA	214.0	349.0	213.5	2849.0	523.5	246.5	278.0	216.0
Merged-chr13-119801125-4	chr13	119801019	119801219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9997.0	NM_001302550	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	22.0	38.5	26.0	507.5	81.5	29.5	34.0	28.5
Merged-chr4-117886947-4	chr4	117886850	117887050	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033617, intron 1 of 7)	CpG	379.0	NM_033617	114143.0	Mm.207052	NM_033617	ENSMUSG00000033379	Atp6v0b	2310024H13Rik|Atp6f|VMA16	ATPase, H+ transporting, lysosomal V0 subunit B	protein-coding	14.5	22.5	25.0	410.0	84.0	30.5	36.0	33.0
Merged-chr5-120527698-4	chr5	120527598	120527798	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 11 of 13)	intron (NM_001177595, intron 11 of 13)	16506.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	24.5	41.5	47.5	520.5	59.0	18.0	21.0	14.0
Merged-chr4-41737744-4	chr4	41737644	41737844	+	918.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001286551)	TTS (NM_001286551)	3615.0	NM_001286540	18391.0	Mm.425181	NM_011014	ENSMUSG00000036078	Sigmar1	Oprs1|Sig1R|sigma1R	sigma non-opioid intracellular receptor 1	protein-coding	27.0	28.0	13.0	262.5	51.0	9.5	15.5	17.0
Merged-chr2-91097260-3	chr2	91097181	91097381	+	819.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 1 of 4)	intron (NM_011355, intron 1 of 4)	603.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	12.5	20.5	7.5	80.0	16.5	6.5	15.0	10.5
Merged-chr11-69118895-4	chr11	69118810	69119010	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1543.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	13.5	21.5	4.0	133.0	36.5	11.5	5.5	17.0
Merged-chr14-26640683-6	chr14	26640603	26640803	+	780.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	intron (NM_007479, intron 1 of 5)	2569.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	6.5	2.0	7.0	67.5	9.5	13.0	10.0	11.5
Merged-chr3-13866508-1	chr3	13866408	13866608	+	560.0	f0_balb.idr	intron (NM_001357034, intron 2 of 7)	intron (NM_001357034, intron 2 of 7)	-79797.0	NM_001163329	76897.0	Mm.422625	NM_178631	ENSMUSG00000039717	Ralyl	0710005M24Rik	RALY RNA binding protein-like	protein-coding	4.0	7.0	3.0	94.0	9.5	9.0	5.5	8.5
Merged-chr1-131394680-3	chr1	131394570	131394770	+	949.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	intron (NM_001081011, intron 4 of 22)	-115107.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	6.5	5.5	5.0	126.5	13.5	8.0	14.5	6.5
Merged-chr15-76710589-4	chr15	76710509	76710709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145471)	promoter-TSS (NM_145471)	-32.0	NM_145471	223664.0	Mm.277582	NM_145471	ENSMUSG00000033728	Lrrc14	E130306I01Rik|mKIAA0014	leucine rich repeat containing 14	protein-coding	75.5	134.0	56.5	1177.5	192.5	96.0	82.5	67.5
Merged-chr4-9621382-3	chr4	9621328	9621528	+	898.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133723, exon 5 of 5)	3' UTR (NM_133723, exon 5 of 5)	22289.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	16.0	5.0	10.0	190.0	5.5	0.0	3.5	3.5
Merged-chr17-30137314-4	chr17	30137209	30137409	+	908.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151442, intron 2 of 3)	L1M3|LINE|L1	132270.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	15.5	24.5	8.5	326.0	44.0	4.0	17.0	11.5
Merged-chr10-68723278-4	chr10	68723196	68723396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177794)	promoter-TSS (NM_177794)	-450.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	67.0	89.5	94.5	934.5	241.0	69.5	99.0	88.0
Merged-chr12-32245489-4	chr12	32245394	32245594	+	944.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-36845.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	18.0	14.0	17.5	284.5	41.5	6.0	11.5	14.0
Merged-chr2-39065572-4	chr2	39065476	39065676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029793)	promoter-TSS (NM_029793)	-35.0	NM_029793	76899.0	Mm.131098	NM_029793	ENSMUSG00000026754	Golga1	0710001G09Rik|2210418B03Rik|AW107649|Golgi97|awag|golgin-97	golgi autoantigen, golgin subfamily a, 1	protein-coding	107.0	147.0	95.5	1751.0	245.5	119.0	185.5	116.0
Merged-chr16-96208588-4	chr16	96208492	96208692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015825, intron 2 of 7)	intron (NM_015825, intron 2 of 7)	8122.0	NM_015825	50795.0	Mm.28638	NM_015825	ENSMUSG00000040666	Sh3bgr	5430437A18Rik	SH3-binding domain glutamic acid-rich protein	protein-coding	50.5	83.0	61.5	1912.0	88.5	33.5	96.0	43.5
Merged-chr17-17374179-4	chr17	17374061	17374261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025934)	promoter-TSS (NM_025934)	-171.0	NM_025934	67045.0	Mm.35117	NM_025934	ENSMUSG00000023852	Riok2	2010110K24Rik|2410085M17Rik	RIO kinase 2	protein-coding	224.0	278.0	180.0	2761.0	495.0	181.0	230.0	158.0
Merged-chr2-6363391-4	chr2	6363285	6363485	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 1 of 13)	intron (NM_181399, intron 1 of 13)	10649.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	28.0	32.0	26.5	574.0	56.0	16.5	17.5	19.0
Merged-chr1-191110638-3	chr1	191110562	191110762	+	885.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12248.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	7.5	9.0	9.0	140.5	23.0	1.5	2.5	5.0
Merged-chr4-149415978-3	chr4	149415875	149416075	+	795.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022022, intron 1 of 26)	intron (NM_022022, intron 1 of 26)	10656.0	NM_022022	63958.0	Mm.415260	NM_022022	ENSMUSG00000028960	Ube4b	4930551I19Rik|4933406G05Rik|AU014668|D4Bwg0973e|UFD2|UFD2a|Ufd2p|mKIAA0684	ubiquitination factor E4B	protein-coding	9.5	5.5	14.0	217.5	4.5	6.0	4.0	5.0
Merged-chr10-57690364-4	chr10	57690259	57690459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039050, intron 2 of 4)	intron (NM_001039050, intron 2 of 4)	39378.0	NM_001190402	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	38.5	25.0	31.5	832.0	91.5	26.5	50.5	36.5
Merged-chr2-50687525-4	chr2	50687435	50687635	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-222149.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	39.5	45.5	23.5	365.5	36.5	14.0	28.5	15.0
Merged-chr19-7267306-3	chr19	7267223	7267423	+	820.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054048)	promoter-TSS (NM_054048)	-71.0	NM_054048	104383.0	Mm.283859	NM_054048	ENSMUSG00000024968	Rcor2	1A13|AW122124|CoREST|Rcor|Rcor1	REST corepressor 2	protein-coding	8.5	4.0	7.0	61.5	14.0	5.0	5.0	7.5
Merged-chr12-4918274-4	chr12	4918191	4918391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362349, intron 1 of 27)	intron (NM_001362349, intron 1 of 27)	938.0	NM_001362349	320817.0	Mm.210966	NM_001099628	ENSMUSG00000052812	Atad2b	1110014E10Rik|BC032887|C79189|D530031C13Rik	ATPase family, AAA domain containing 2B	protein-coding	33.0	53.5	46.0	686.0	95.5	28.5	39.5	36.5
Merged-chr5-76905023-4	chr5	76904930	76905130	+	943.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173765, intron 1 of 15)	RSINE1|SINE|B4	484.0	NM_173765	231326.0	Mm.39271	NM_173765	ENSMUSG00000055923	Aasdh	A230062G08Rik|A830035E16|Acsf4|U26	aminoadipate-semialdehyde dehydrogenase	protein-coding	13.5	13.5	6.5	186.0	37.0	11.5	5.0	8.0
Merged-chr5-96898366-4	chr5	96898260	96898460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22912.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	61.0	104.0	122.5	1530.5	124.0	40.5	63.5	60.5
Merged-chr1-165706387-4	chr1	165706330	165706530	+	758.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	1664.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	7.5	6.5	8.5	59.5	25.5	5.0	4.0	2.5
Merged-chr19-54115002-3	chr19	54114881	54115081	+	801.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69799.0	NM_007417	11551.0	Mm.235195	NM_007417	ENSMUSG00000033717	Adra2a	AW122659|Adra-2|Adra-2a|alpha(2A)AR|alpha2-C10|alpha2A|alpha2A-AR	adrenergic receptor, alpha 2a	protein-coding	3.0	5.0	2.5	61.5	6.5	4.5	6.5	7.0
Merged-chr14-40919696-4	chr14	40919598	40919798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	intron (NM_145928, intron 2 of 8)	-26733.0	NM_177816	328381.0	Mm.235694	NM_177816	ENSMUSG00000037833	Sh2d4b	A430109M18Rik|D030001E08	SH2 domain containing 4B	protein-coding	114.0	154.0	120.5	2276.0	191.5	95.5	110.5	82.0
Merged-chr8-8704995-4	chr8	8704902	8705102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-14465.0	NM_176849	234023.0	Mm.251655	NM_176849	ENSMUSG00000040459	Arglu1	9430010O03Rik|C130008N12	arginine and glutamate rich 1	protein-coding	21.5	29.0	41.0	547.5	91.5	27.5	37.0	30.5
Merged-chr4-11085018-5	chr4	11084953	11085153	+	788.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8848.0	NM_001085493	76947.0	Mm.275265	NM_001085493	ENSMUSG00000050323	Ndufaf6	2310030N02Rik	NADH dehydrogenase (ubiquinone) complex I, assembly factor 6	protein-coding	7.5	4.5	14.5	94.5	11.0	5.0	1.5	8.5
Merged-chr4-63385977-4	chr4	63385868	63386068	+	969.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 6 of 21)	intron (NM_001045514, intron 6 of 21)	12272.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	21.0	24.5	12.5	216.0	65.5	17.5	17.5	16.0
Merged-chr6-83450856-4	chr6	83450748	83450948	+	892.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 2 of 11)	intron (NM_001347313, intron 2 of 11)	5544.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	15.5	14.5	16.0	178.5	47.5	8.5	13.5	9.5
Merged-chr17-56810443-4	chr17	56810362	56810562	+	965.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009056, intron 1 of 16)	intron (NM_009056, intron 1 of 16)	20546.0	NM_009056	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	7.0	19.0	11.0	242.0	63.0	11.0	28.5	36.5
Merged-chr10-128459914-2	chr10	128459814	128460014	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001114097, intron 1 of 27)	intron (NM_001114097, intron 1 of 27)	678.0	NM_001114097	68094.0	Mm.417338	NM_198160	ENSMUSG00000025369	Smarcc2	5930405J04Rik	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	protein-coding	9.0	6.0	10.0	64.5	13.0	6.5	7.0	4.5
Merged-chr18-62186214-3	chr18	62186123	62186323	+	905.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6123.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	18.0	17.5	13.5	149.0	14.5	5.5	9.5	15.5
Merged-chr2-15056049-4	chr2	15055969	15056169	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029466, intron 1 of 5)	intron (NM_029466, intron 1 of 5)	707.0	NM_029466	75869.0	Mm.174068	NM_029466	ENSMUSG00000017418	Arl5b	4930587A11Rik|AW146430|Arl8	ADP-ribosylation factor-like 5B	protein-coding	11.5	7.0	12.0	117.0	25.0	6.5	7.0	16.0
Merged-chr7-44589333-2	chr7	44589231	44589431	+	670.833374	f0_balb.idr|f0_c57.idr	Intergenic	CpG	-1555.0	NM_008422	16504.0	Mm.40312	NM_008422	ENSMUSG00000062785	Kcnc3	KShIIID|Kcr2-3|Kv3.3	potassium voltage gated channel, Shaw-related subfamily, member 3	protein-coding	8.5	13.0	7.5	136.5	24.0	12.0	5.0	9.5
Merged-chr13-113580486-4	chr13	113580398	113580598	+	944.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38066.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	15.0	16.5	13.5	237.0	28.0	2.5	19.0	21.5
Merged-chr7-19666975-2	chr7	19666875	19667075	+	607.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1945.0	NM_019649	56457.0	Mm.290960	NM_019649	ENSMUSG00000002981	Clptm1	HS9|N14	cleft lip and palate associated transmembrane protein 1	protein-coding	2.5	5.0	5.0	32.5	16.5	5.0	5.0	4.5
Merged-chr3-79287919-2	chr3	79287819	79288019	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57457.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	10.0	9.0	6.5	69.5	7.5	3.5	6.0	8.5
Merged-chr15-80255134-4	chr15	80255043	80255243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287180)	promoter-TSS (NM_001287180)	-41.0	NM_001287180	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	128.0	194.5	95.5	1919.0	392.0	147.5	179.0	155.0
Merged-chr14-51165506-4	chr14	51165455	51165655	+	775.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3295.0	NM_019398	54159.0	Mm.377125	NM_019398	ENSMUSG00000059606	Rnase2b	Ear5|Raf4|mR5	ribonuclease, RNase A family, 2B (liver, eosinophil-derived neurotoxin)	protein-coding	5.0	5.5	4.5	92.5	33.0	4.5	11.0	7.5
Merged-chr1-74392205-4	chr1	74392127	74392327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153088, intron 1 of 6)	CpG	618.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	44.0	51.0	52.5	561.5	85.5	36.5	69.5	56.0
Merged-chr16-97961542-4	chr16	97961420	97961620	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175428, intron 1 of 2)	intron (NM_175428, intron 1 of 2)	1102.0	NM_001081685	114565.0	Mm.474489	NM_175428	ENSMUSG00000046962	Zbtb21	5430437K12Rik|B430213I24Rik|Zfp295|Znf295|mKIAA1227	zinc finger and BTB domain containing 21	protein-coding	12.0	18.5	15.0	253.0	54.0	26.0	15.5	20.5
Merged-chr6-125410670-4	chr6	125410583	125410783	+	930.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30179.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	20.5	8.5	9.0	175.0	34.0	12.5	9.0	12.5
Merged-chr16-78577354-4	chr16	78577258	78577458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252440)	promoter-TSS (NM_001252440)	-670.0	NM_025967	67102.0	Mm.37332	NM_025967	ENSMUSG00000022864	D16Ertd472e	1700010I10Rik|2310009O17Rik|E330003K22Rik|Eurl	DNA segment, Chr 16, ERATO Doi 472, expressed	protein-coding	152.0	281.5	152.0	3100.0	531.0	214.0	221.0	163.0
Merged-chr2-103606017-4	chr2	103605915	103606115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	MIRb|SINE|MIR	39705.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	115.5	213.0	142.5	2037.0	358.5	167.5	127.5	121.5
Merged-chr7-99091404-4	chr7	99091314	99091514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 4 of 14)	intron (NM_178635, intron 4 of 14)	49730.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	47.0	72.5	88.0	759.0	91.0	35.5	49.5	42.5
Merged-chr5-99906353-4	chr5	99906250	99906450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	72588.0	NM_001077266	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	43.0	82.0	63.0	752.5	243.5	98.0	146.0	103.0
Merged-chr14-73444888-2	chr14	73444788	73444988	+	982.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-59599.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	4.5	10.0	7.0	81.5	13.5	5.0	7.0	9.0
Merged-chr18-69400805-4	chr18	69400717	69400917	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	54657.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	32.0	67.0	17.0	495.0	86.0	30.5	39.0	32.5
Merged-chr1-136142528-3	chr1	136142435	136142635	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	11145.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	33.5	59.5	42.5	524.0	106.5	39.5	60.5	50.5
Merged-chr15-78608990-4	chr15	78608885	78609085	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028195, intron 6 of 12)	MIRb|SINE|MIR	11938.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	14.0	13.5	19.5	163.0	67.0	3.5	17.0	27.0
Merged-chr4-133012484-2	chr4	133012384	133012584	+	988.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_146155, intron 2 of 6)	CpG-10425	978.0	NM_146155	230793.0	Mm.31816	NM_146155	ENSMUSG00000037692	Ahdc1	D030015G18Rik	AT hook, DNA binding motif, containing 1	protein-coding	5.0	5.0	4.5	41.0	9.0	6.5	5.5	13.0
Merged-chr6-72096379-4	chr6	72096258	72096458	+	955.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1250.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	22.5	9.5	17.0	261.5	43.0	16.5	11.0	15.0
Merged-chr2-76673126-4	chr2	76673035	76673235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010222)	promoter-TSS (NM_010222)	-37.0	NM_001355080	14231.0	Mm.24720	NM_010222	ENSMUSG00000002732	Fkbp7	23kDa|FKBP-7|FKBP23	FK506 binding protein 7	protein-coding	101.5	167.0	101.0	2024.0	339.5	125.0	142.0	131.5
Merged-chr6-3463176-4	chr6	3463068	3463268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178899, intron 9 of 9)	intron (NM_178899, intron 9 of 9)	31330.0	NM_178899	101202.0	Mm.206911	NM_178899	ENSMUSG00000044156	Hepacam2	AI987662	HEPACAM family member 2	protein-coding	58.5	68.5	75.5	919.5	157.5	56.0	67.5	64.0
Merged-chr8-119827335-8	chr8	119827239	119827439	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	13240.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	9.0	6.5	5.5	61.5	19.0	9.0	4.5	8.5
Merged-chr9-40575234-4	chr9	40575137	40575337	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43854.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	11.0	13.5	6.5	43.0	120.0	39.0	48.0	45.0
Merged-chr17-71137210-4	chr17	71137148	71137348	+	954.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46284.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	14.0	30.5	19.0	342.0	38.5	9.0	22.5	21.5
Merged-chr6-120037578-2	chr6	120037478	120037678	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001199083, exon 1 of 28)	exon (NM_001199083, exon 1 of 28)	1077.0	NM_001185020	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	7.0	8.0	12.0	25.0	16.0	2.0	4.0	7.0
Merged-chr9-98333384-4	chr9	98333275	98333475	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	MTD|LTR|ERVL-MaLR	36805.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	31.0	34.0	48.5	704.0	56.0	15.0	19.5	32.5
Merged-chr14-61360378-4	chr14	61360271	61360471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026598)	promoter-TSS (NM_026598)	74.0	NM_026598	68177.0	Mm.22758	NM_026598	ENSMUSG00000021928	Ebpl	5730442K12Rik|EBRP	emopamil binding protein-like	protein-coding	93.5	94.0	94.5	1554.0	170.5	62.5	100.5	109.5
Merged-chr13-64307546-4	chr13	64307381	64307581	+	916.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025370, intron 4 of 5)	MTE-int|LTR|ERVL-MaLR	5229.0	NM_025370	66129.0	Mm.491110	NM_025370	ENSMUSG00000021482	Aaed1	1110018J18Rik|AI849003	AhpC/TSA antioxidant enzyme domain containing 1	protein-coding	21.5	29.5	37.5	459.5	17.5	6.5	9.5	5.0
Merged-chr17-46496766-4	chr17	46496653	46496853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207161)	promoter-TSS (NM_207161)	-36.0	NM_207161	381101.0	Mm.35801	NM_207161	ENSMUSG00000040658	Dnph1	C76683|Rcl	2'-deoxynucleoside 5'-phosphate N-hydrolase 1	protein-coding	39.0	57.0	37.5	599.5	59.5	35.0	33.5	30.0
Merged-chr10-14130367-4	chr10	14130281	14130481	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010437, exon 4 of 9)	exon (NM_010437, exon 4 of 9)	164002.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	37.0	64.0	61.5	805.5	95.5	41.5	31.0	25.5
Merged-chr8-111237478-4	chr8	111237382	111237582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009149, intron 1 of 25)	intron (NM_009149, intron 1 of 25)	21720.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	26.5	39.5	45.0	610.5	65.0	24.0	33.0	26.0
Merged-chr2-58181007-4	chr2	58180896	58181096	+	787.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17022.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	7.5	4.5	7.5	96.0	13.5	6.5	8.0	10.0
Merged-chr15-25358740-4	chr15	25358641	25358841	+	914.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55023.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	11.5	8.5	9.5	179.5	63.0	12.5	21.5	14.5
Merged-chr11-50108242-3	chr11	50108140	50108340	+	881.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 7 of 7)	intron (NM_001290750, intron 7 of 7)	-23120.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	7.0	6.0	6.0	113.0	20.0	4.5	11.0	9.0
Merged-chr10-13540089-4	chr10	13539983	13540183	+	917.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019961, intron 3 of 11)	intron (NM_019961, intron 3 of 11)	-12824.0	NM_025748	66757.0	Mm.331841	NM_025748	ENSMUSG00000019808	Adat2	4933426M09Rik|Deadc1	adenosine deaminase, tRNA-specific 2	protein-coding	8.5	10.5	9.5	207.5	59.0	17.0	24.5	32.5
Merged-chr5-135478294-4	chr5	135478280	135478480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	B3|SINE|B2	66742.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	19.5	13.0	18.0	387.5	32.5	14.0	7.5	19.0
Merged-chr12-112956040-4	chr12	112955947	112956147	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13905.0	NM_001316724	66174.0	Mm.7070	NM_025399	ENSMUSG00000002804	Nudt14	1110030M18Rik|UGPPase	nudix (nucleoside diphosphate linked moiety X)-type motif 14	protein-coding	15.5	22.0	7.5	187.0	36.5	5.5	24.0	21.5
Merged-chr12-98249893-4	chr12	98249811	98250011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008079, intron 5 of 16)	intron (NM_008079, intron 5 of 16)	9548.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	69.5	44.5	48.0	870.0	140.0	48.5	47.0	54.5
Merged-chr19-10290570-7	chr19	10290445	10290645	+	994.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	14332.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	26.0	49.0	23.5	373.5	62.0	34.5	19.5	23.0
Merged-chr2-59207348-3	chr2	59207287	59207487	+	912.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	46537.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	7.5	8.5	9.5	189.5	12.0	2.0	5.5	3.5
Merged-chr6-83008799-4	chr6	83008693	83008893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 7 of 9)	intron (NM_033079, intron 7 of 9)	24678.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	81.5	130.0	86.5	1518.0	238.0	75.5	110.0	114.5
Merged-chr10-127642510-3	chr10	127642414	127642614	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009284)	promoter-TSS (NM_009284)	-472.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	9.0	20.0	11.5	179.5	42.0	27.0	21.5	21.5
Merged-chr16-36940405-4	chr16	36940319	36940519	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008225, intron 3 of 13)	intron (NM_008225, intron 3 of 13)	5436.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	28.5	93.0	19.5	120.0	124.0	34.5	40.0	15.0
Merged-chr17-33746294-4	chr17	33746189	33746389	+	953.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008997, exon 5 of 5)	3' UTR (NM_008997, exon 5 of 5)	14197.0	NM_008997	19326.0	Mm.387587	NM_008997	ENSMUSG00000077450	Rab11b	A730055L17Rik	RAB11B, member RAS oncogene family	protein-coding	9.5	20.5	25.0	266.0	44.5	14.0	13.5	12.5
Merged-chr8-115612327-4	chr8	115612219	115612419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_B_Mam|LINE|RTE-X	94575.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	104.0	138.0	97.5	1469.5	254.5	114.5	147.5	106.0
Merged-chr6-81987147-4	chr6	81987062	81987262	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR3|LTR|Gypsy	-21213.0	NM_026490	56284.0	Mm.276293	NM_026490	ENSMUSG00000030045	Mrpl19	9030416F12Rik|9130412E02Rik|D6Ertd157e|MRP-L15|RLX1|Rpml15	mitochondrial ribosomal protein L19	protein-coding	12.0	20.0	15.5	214.0	67.5	28.5	29.0	24.5
Merged-chr9-86016126-3	chr9	86016039	86016239	+	894.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173287.0	NM_001164792	21983.0	Mm.20864	NM_011627	ENSMUSG00000035274	Tpbg	5T4|AW495680|WAIF1	trophoblast glycoprotein	protein-coding	18.0	15.5	13.5	373.0	11.5	0.0	5.0	4.0
Merged-chr5-65724594-4	chr5	65724563	65724763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-B4-int|LTR|ERVL	-26807.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	55.5	105.0	70.0	869.5	182.0	76.5	69.0	58.5
Merged-chr5-105723583-3	chr5	105723485	105723685	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	22775.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	46.5	72.0	21.5	513.5	1.5	0.5	1.5	0.0
Merged-chr16-18248877-4	chr16	18248773	18248973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011239)	promoter-TSS (NM_011239)	-10.0	NM_001357146	15547.0	Mm.271798	NM_008307	ENSMUSG00000022721	Trmt2a	Htf9c	TRM2 tRNA methyltransferase 2A	protein-coding	227.0	418.0	255.5	3208.5	598.0	241.0	294.0	205.0
Merged-chr14-7858573-3	chr14	7858466	7858666	+	937.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081427, intron 1 of 45)	intron (NM_001081427, intron 1 of 45)	40609.0	NM_134080	286940.0	Mm.489652	NM_134080	ENSMUSG00000025278	Flnb	AL024016|Fln-b	filamin, beta	protein-coding	5.0	19.0	9.0	128.5	11.0	5.0	9.5	10.0
Merged-chr18-75696642-2	chr18	75696543	75696743	+	876.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 1 of 11)	CpG	1053.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	9.0	6.5	11.5	47.5	15.5	6.0	7.0	9.0
Merged-chr8-61591178-4	chr8	61591066	61591266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293774)	promoter-TSS (NM_001293774)	3.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	65.5	97.0	112.5	1242.5	118.5	52.0	33.5	54.0
Merged-chr17-84146053-4	chr17	84145934	84146134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41913.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	80.0	83.5	30.0	647.5	126.5	37.0	44.0	58.5
Merged-chr10-15300877-3	chr10	15300781	15300981	+	827.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-490896.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	18.0	6.5	8.5	169.0	9.5	5.0	9.0	14.0
Merged-chr11-9347869-4	chr11	9347828	9348028	+	765.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 28 of 61)	MIRb|SINE|MIR	155986.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	4.5	4.0	14.0	94.5	14.5	9.5	12.0	8.0
Merged-chr10-78063341-4	chr10	78063233	78063433	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001284199, exon 6 of 6)	exon (NM_001284199, exon 6 of 6)	-6035.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	24.5	18.0	15.5	302.0	71.5	17.5	22.5	20.0
Merged-chr9-61310233-4	chr9	61310202	61310402	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16493.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	8.0	12.0	5.5	78.5	16.5	8.0	6.5	9.5
Merged-chr10-8886141-4	chr10	8886083	8886283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175155)	promoter-TSS (NM_175155)	-113.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	106.0	204.5	130.5	1004.5	241.0	134.5	90.0	110.0
Merged-chr5-38505533-4	chr5	38505424	38505624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3372.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	60.0	32.5	62.5	815.5	107.0	44.0	76.5	96.0
Merged-chr18-73754448-4	chr18	73754370	73754570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053255)	promoter-TSS (NM_053255)	9.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	55.0	95.0	90.0	1068.0	140.5	54.0	74.5	50.5
Merged-chr4-58912743-4	chr4	58912627	58912827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172381)	promoter-TSS (NM_172381)	22.0	NM_172381	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	40.5	43.0	43.0	590.0	59.5	22.5	39.5	43.0
Merged-chr16-3714910-4	chr16	3714824	3715024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019453, intron 2 of 9)	intron (NM_019453, intron 2 of 9)	3200.0	NM_001161790	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	69.5	123.5	123.0	1186.0	175.5	74.0	87.0	60.5
Merged-chr4-47262809-4	chr4	47262743	47262943	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 10 of 39)	intron (NM_009928, intron 10 of 39)	54831.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	8.0	8.0	5.0	73.5	14.5	2.5	4.0	7.5
Merged-chr19-3083602-2	chr19	3083502	3083702	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	114101.0	NR_045304	70011.0	Mm.393871	NR_045304	ENSMUSG00000100969	1700030N03Rik	1700087C08Rik	RIKEN cDNA 1700030N03 gene	ncRNA	13.0	30.0	1.5	59.5	12.0	6.0	7.0	6.0
Merged-chr2-79265834-4	chr2	79265747	79265947	+	741.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010576, intron 2 of 27)	intron (NM_010576, intron 2 of 27)	10421.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	12.5	13.0	2.0	84.5	30.5	4.5	10.0	14.0
Merged-chr5-141064997-3	chr5	141064908	141065108	+	723.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-64412.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	3.5	7.0	5.0	55.5	12.5	5.0	5.0	8.5
Merged-chr8-11451635-4	chr8	11451569	11451769	+	871.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26260.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	9.5	11.0	11.5	190.5	40.5	6.0	12.0	4.5
Merged-chr3-97628735-4	chr3	97628643	97628843	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161765)	promoter-TSS (NM_001161765)	-61.0	NM_010232	14263.0	Mm.385180	NM_010232	ENSMUSG00000028088	Fmo5	5033418D19Rik|AI195026	flavin containing monooxygenase 5	protein-coding	22.0	20.0	22.5	327.0	43.0	25.5	13.0	19.0
Merged-chr10-94190346-1	chr10	94190246	94190446	+	684.5	f0_balb.idr	intron (NM_011629, intron 11 of 13)	(TTTTTG)n|Simple_repeat|Simple_repeat	-8663.0	NM_025551	66414.0	Mm.27886	NM_025551	ENSMUSG00000020022	Ndufa12	2410011G03Rik|AW112974	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12	protein-coding	8.0	11.0	7.5	105.5	5.0	0.0	0.5	6.0
Merged-chr11-115412859-4	chr11	115412777	115412977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347645)	TTS (NM_001347645)	7042.0	NM_027862	71679.0	Mm.371641	NM_027862	ENSMUSG00000034566	Atp5h	0610009D10Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit D	protein-coding	43.5	42.0	22.0	406.5	67.0	22.0	29.0	32.0
Merged-chr8-119827971-4	chr8	119827876	119828076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	12603.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	44.0	70.0	53.0	985.5	93.5	24.0	50.5	70.0
Merged-chr5-135078301-4	chr5	135078218	135078418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199677)	promoter-TSS (NM_001199677)	-52.0	NM_001199677	194309.0	Mm.44356	NM_177574	ENSMUSG00000043614	Vps37d	Wbscr24	vacuolar protein sorting 37D	protein-coding	37.5	59.0	26.5	534.0	121.5	53.5	44.5	29.5
Merged-chr14-104867740-4	chr14	104867638	104867838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015593, intron 2 of 5)	intron (NR_015593, intron 2 of 5)	228591.0	NR_015593	320249.0	Mm.320725	NR_015593	ENSMUSG00000115432	D130009I18Rik	-	RIKEN cDNA D130009I18 gene	ncRNA	47.5	71.5	87.5	1002.5	175.5	32.5	46.5	37.5
Merged-chr12-40459108-4	chr12	40459015	40459215	+	906.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	13062.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	20.5	23.0	15.0	205.0	32.5	17.0	19.5	15.5
Merged-chr2-30464164-4	chr2	30464072	30464272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	10027.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	54.5	34.5	21.0	585.0	102.0	33.5	40.5	43.0
Merged-chr4-139252607-4	chr4	139252512	139252712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 2 of 9)	intron (NM_001037761, intron 2 of 9)	58096.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	37.0	38.5	38.5	580.0	108.0	32.5	57.0	63.0
Merged-chr16-35734242-4	chr16	35734140	35734340	+	834.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 3 of 8)	intron (NM_153550, intron 3 of 8)	35116.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	10.0	9.0	6.5	237.0	43.0	7.5	17.0	4.5
Merged-chr3-159840996-3	chr3	159840871	159841071	+	691.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356350, intron 1 of 12)	intron (NM_001356350, intron 1 of 12)	1321.0	NM_001356350	68151.0	Mm.6766	NM_026582	ENSMUSG00000028173	Wls	5031439A09Rik|AI173978|AI987742|EVI|Gpr177	wntless WNT ligand secretion mediator	protein-coding	7.0	7.0	7.5	82.5	7.0	5.5	6.5	11.5
Merged-chr1-180312488-4	chr1	180312294	180312494	+	880.1726070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18082.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	11.5	4.0	20.0	91.5	30.5	7.5	17.0	7.0
Merged-chr16-36982574-4	chr16	36982476	36982676	+	852.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358217, intron 1 of 3)	intron (NM_001358217, intron 1 of 3)	-3440.0	NM_001037321	207215.0	Mm.211899	NM_001037321	ENSMUSG00000047746	Fbxo40	9830003A13Rik|mKIAA1195	F-box protein 40	protein-coding	17.5	18.0	13.0	125.5	23.0	6.5	11.5	12.5
Merged-chr11-116368305-3	chr11	116368211	116368411	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 2 of 18)	intron (NM_027258, intron 2 of 18)	-32957.0	NM_008240	15223.0	Mm.378938	NM_008240	ENSMUSG00000034227	Foxj1	FKHL-13|HFH-4|Hfh4	forkhead box J1	protein-coding	10.0	11.0	1.0	63.5	23.5	4.5	10.5	12.5
Merged-chr10-118737264-4	chr10	118737158	118737358	+	733.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131645.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	10.5	10.0	3.0	157.5	37.5	12.5	9.5	13.0
Merged-chr7-35121083-11	chr7	35120935	35121135	+	899.420227	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001287523, exon 1 of 1)	3' UTR (NM_001287523, exon 1 of 1)	1742.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	15.5	18.5	11.0	146.5	18.5	4.5	18.5	20.0
Merged-chr17-80479845-4	chr17	80479734	80479934	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009231, intron 1 of 21)	CpG	619.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	2.5	20.0	32.0	301.5	39.0	11.0	17.5	20.0
Merged-chr3-144700151-4	chr3	144700052	144700252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 6 of 10)	intron (NM_001282037, intron 6 of 10)	20183.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	44.5	78.5	51.0	763.0	118.5	38.0	66.0	53.0
Merged-chr5-102060475-4	chr5	102060380	102060580	+	972.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	9441.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	10.0	22.5	17.5	420.5	45.5	18.0	17.0	52.5
Merged-chr2-122029022-4	chr2	122028985	122029185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256055, intron 2 of 7)	CpG-8471	502.0	NM_001256055	100042807.0	Mm.329403	NM_001256055	ENSMUSG00000043424	Eif3j2	Eif3j-2|Gm9781|eIF3 p35|eIF3j-B	eukaryotic translation initiation factor 3, subunit J2	protein-coding	22.0	42.5	38.5	393.5	54.0	26.0	49.0	52.5
Merged-chr3-84815469-8	chr3	84815282	84815482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177773)	promoter-TSS (NM_001177773)	-195.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	21.5	13.0	22.0	233.5	48.0	18.0	23.0	27.5
Merged-chr4-41761026-2	chr4	41760926	41761126	+	548.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163401, intron 1 of 12)	intron (NM_001163401, intron 1 of 12)	583.0	NM_001172054	16157.0	Mm.193451	NM_010549	ENSMUSG00000073889	Il11ra1	AI314697|GP130|Il-11ra|Il11ra|Il11ra2|NR1	interleukin 11 receptor, alpha chain 1	protein-coding	6.0	3.5	13.5	62.5	17.5	5.5	7.5	11.5
Merged-chr16-92466326-4	chr16	92466230	92466430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081549)	promoter-TSS (NM_001081549)	-161.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	268.0	415.0	299.0	3696.5	667.0	267.0	286.5	240.5
Merged-chr2-23041596-4	chr2	23041518	23041718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-1377.0	NM_145994	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	77.5	70.5	44.0	739.0	139.0	61.5	82.0	77.5
Merged-chr11-98121893-6	chr11	98121729	98121929	+	972.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028149, intron 2 of 14)	intron (NM_028149, intron 2 of 14)	27787.0	NM_028149	72194.0	Mm.218350	NM_028149	ENSMUSG00000020883	Fbxl20	2610511F20Rik|4632423N09Rik|AI849362|AL117906|C86145|Fbl2|Scr|mKIAA4147	F-box and leucine-rich repeat protein 20	protein-coding	17.5	19.5	7.0	210.0	53.5	10.5	11.0	16.5
Merged-chr18-57591777-4	chr18	57591684	57591884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029290, intron 3 of 6)	intron (NM_029290, intron 3 of 6)	-39387.0	NR_015494	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	19.5	21.0	32.0	586.0	56.0	26.0	19.5	25.5
Merged-chr8-70598506-4	chr8	70598410	70598610	+	883.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133772, intron 14 of 16)	CpG	4029.0	NM_023627	71780.0	Mm.29357	NM_023627	ENSMUSG00000019139	Isyna1	1300017C10Rik|AU018670	myo-inositol 1-phosphate synthase A1	protein-coding	9.5	13.0	10.5	107.5	33.0	10.0	18.0	17.5
Merged-chr10-8768870-4	chr10	8768775	8768975	+	980.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	117195.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	62.5	119.0	68.5	300.0	50.5	33.0	35.5	18.0
Merged-chr11-113733753-4	chr11	113733658	113733858	+	815.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163346, intron 1 of 1)	intron (NM_001163346, intron 1 of 1)	17402.0	NM_020006	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	19.0	16.5	5.5	130.5	14.5	7.0	11.0	12.0
Merged-chr16-22124470-3	chr16	22124394	22124594	+	992.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	intron (NM_183029, intron 2 of 15)	38805.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	9.5	36.0	2.5	55.5	109.0	26.0	31.5	18.5
Merged-chr19-6402179-4	chr19	6402099	6402299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011242, intron 2 of 16)	intron (NM_011242, intron 2 of 16)	1616.0	NM_011242	19395.0	Mm.77017	NM_011242	ENSMUSG00000032946	Rasgrp2	CDC25L|Caldaggef1	RAS, guanyl releasing protein 2	protein-coding	34.0	30.5	23.5	418.5	72.5	30.0	43.0	35.5
Merged-chr13-58540256-2	chr13	58540156	58540356	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70621.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	4.5	7.0	5.0	160.5	16.0	4.0	4.0	15.0
Merged-chr13-52016707-2	chr13	52016607	52016807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-80034.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	6.0	10.5	9.0	47.5	15.0	6.5	6.0	8.5
Merged-chr13-81222049-4	chr13	81221962	81222162	+	963.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	L1_Mur3|LINE|L1	257988.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	31.0	20.5	18.5	357.5	39.5	11.5	19.5	9.0
Merged-chr2-124709496-4	chr2	124709340	124709540	+	735.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55859.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	2.5	3.0	13.0	44.5	11.5	7.0	7.0	9.0
Merged-chr10-75484883-3	chr10	75484784	75484984	+	976.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32497.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	13.0	20.5	3.0	183.5	9.0	8.5	16.5	10.0
Merged-chr10-128059816-4	chr10	128059706	128059906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019766, intron 1 of 7)	CpG	824.0	NM_019766	56351.0	Mm.305816	NM_019766	ENSMUSG00000071072	Ptges3	5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177	prostaglandin E synthase 3	protein-coding	53.5	62.5	38.5	727.5	132.5	46.5	45.0	44.0
Merged-chr8-126551140-4	chr8	126551019	126551219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42317.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	136.0	211.0	158.0	2203.0	317.0	152.5	110.5	153.5
Merged-chr8-69774949-4	chr8	69774747	69774947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177899)	promoter-TSS (NM_177899)	64.0	NM_177899	330788.0	Mm.41364	NM_177899	ENSMUSG00000043090	Zfp866	9830167H18Rik|AI875089|C85843|D330038O06Rik	zinc finger protein 866	protein-coding	83.5	116.0	91.0	1345.0	162.5	97.0	89.0	100.5
Merged-chr1-157017685-4	chr1	157017577	157017777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78051.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	26.5	55.5	19.5	666.5	54.5	17.5	22.5	24.5
Merged-chr9-102835322-4	chr9	102835231	102835431	+	857.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284258, intron 1 of 13)	CpG	411.0	NM_001284258	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	11.5	16.0	16.0	157.5	43.5	8.5	20.0	22.0
Merged-chr11-114883430-2	chr11	114883330	114883530	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6611.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	11.5	8.5	2.0	40.5	9.5	7.5	6.0	5.5
Merged-chr5-151108703-3	chr5	151108626	151108826	+	876.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153382, intron 1 of 13)	intron (NR_153382, intron 1 of 13)	81467.0	NM_001163493	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	8.0	9.0	8.5	98.0	11.5	2.5	7.5	10.5
Merged-chr2-60019314-4	chr2	60019211	60019411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 2 of 35)	intron (NM_001001182, intron 2 of 35)	106429.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	42.5	42.5	43.5	822.0	80.5	29.5	42.0	33.0
Merged-chr5-121386535-5	chr5	121386447	121386647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163470)	promoter-TSS (NM_001163470)	-932.0	NM_172275	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	21.5	26.5	23.5	399.5	55.0	28.5	29.0	24.5
Merged-chr5-139505298-4	chr5	139505224	139505424	+	846.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18427.0	NR_040701	74973.0	Mm.141282	NR_040701	ENSMUSG00000106056	4930500L23Rik	-	RIKEN cDNA 4930500L23 gene	ncRNA	7.5	17.0	1.0	98.5	30.0	14.0	11.5	11.0
Merged-chr7-141480995-4	chr7	141480891	141481091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252588, intron 1 of 7)	intron (NM_001252588, intron 1 of 7)	4611.0	NM_001252588	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	44.5	42.5	57.5	601.0	68.0	17.5	42.0	34.0
Merged-chr3-51413551-3	chr3	51413476	51413676	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2440.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	11.5	7.0	16.5	151.5	2.5	7.0	13.5	11.0
Merged-chr14-57887290-4	chr14	57887160	57887360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029492, intron 1 of 12)	intron (NM_029492, intron 1 of 12)	3076.0	NM_029492	75965.0	Mm.29044	NM_029492	ENSMUSG00000021969	Zdhhc20	4930542A17Rik|5033406L14Rik|AI448102|B230110O18Rik|HK11	zinc finger, DHHC domain containing 20	protein-coding	15.5	26.5	24.5	299.0	43.5	15.5	25.0	22.0
Merged-chr5-140536808-3	chr5	140536734	140536934	+	858.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28233.0	NM_030022	77998.0	Mm.160040	NM_030022	ENSMUSG00000036586	Grifin	E130101O17Rik	galectin-related inter-fiber protein	protein-coding	4.5	9.0	1.5	65.5	17.5	10.0	9.0	13.5
Merged-chr1-43361641-2	chr1	43361541	43361741	+	663.299988	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84110.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	6.0	5.0	6.5	70.5	12.0	1.5	5.5	7.5
Merged-chr19-57571948-3	chr19	57571853	57572053	+	695.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-39081.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	7.0	3.0	10.0	37.0	18.5	8.5	6.5	6.0
Merged-chr17-23706430-4	chr17	23706330	23706530	+	880.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19906.0	NM_023058	268930.0	Mm.182193	NM_023058	ENSMUSG00000023908	Pkmyt1	6230424P17|AW209059|Myt1	protein kinase, membrane associated tyrosine/threonine 1	protein-coding	9.0	25.5	6.0	139.0	35.0	13.0	11.5	9.5
Merged-chr10-96738177-4	chr10	96738070	96738270	+	915.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121169.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	14.0	28.0	8.0	328.0	32.5	9.0	16.5	14.0
Merged-chr8-95140988-6	chr8	95140914	95141114	+	987.3110960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010631, intron 1 of 19)	intron (NM_010631, intron 1 of 19)	1526.0	NM_010631	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	5.0	5.0	5.5	50.5	4.0	4.5	3.0	4.0
Merged-chr11-78343522-4	chr11	78343401	78343601	+	868.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011676)	promoter-TSS (NM_011676)	6.0	NM_011676	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	14.5	11.0	13.5	114.5	24.0	11.5	8.5	17.0
Merged-chr18-12949307-4	chr18	12949202	12949402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7461.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	69.5	91.5	98.5	1020.5	171.5	49.0	80.5	96.5
Merged-chr15-62104800-4	chr15	62104697	62104897	+	976.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	65540.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	44.5	36.0	56.5	827.5	54.0	12.0	16.5	19.5
Merged-chr10-69213662-4	chr10	69213533	69213733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331193)	promoter-TSS (NM_001331193)	439.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	18.0	13.0	16.5	159.0	29.0	13.0	16.5	18.0
Merged-chr3-31097070-6	chr3	31096974	31097174	+	936.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011386, exon 2 of 7)	5' UTR (NM_011386, exon 2 of 7)	2016.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	7.0	4.0	7.0	99.5	21.0	6.0	7.5	22.5
Merged-chr6-86593627-4	chr6	86593523	86593723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-34551.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	29.5	65.5	24.0	491.5	122.0	47.0	33.0	61.5
Merged-chr3-84868231-4	chr3	84868131	84868331	+	750.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 3 of 13)	intron (NM_001177773, intron 3 of 13)	4086.0	NM_001177774	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	11.0	7.5	20.5	180.0	23.0	5.0	13.0	6.0
Merged-chr2-101905912-4	chr2	101905825	101906025	+	649.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19663.0	NM_029635	76501.0	Mm.330424	NM_029635	ENSMUSG00000027163	Commd9	1810029F08Rik|AA409293	COMM domain containing 9	protein-coding	12.5	6.5	1.0	109.0	22.0	5.5	12.5	9.0
Merged-chr9-56465496-4	chr9	56465386	56465586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025812, intron 1 of 9)	intron (NM_025812, intron 1 of 9)	46867.0	NM_025812	66867.0	Mm.150856	NM_025812	ENSMUSG00000032329	Hmg20a	1200004E06Rik|5730490E10Rik|Hmgxb1|Ibraf	high mobility group 20A	protein-coding	102.0	133.0	91.5	1376.5	177.0	93.5	88.5	97.5
Merged-chr13-45964036-9	chr13	45963977	45964177	+	997.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 1 of 6)	CpG	914.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	17.0	41.0	25.0	222.5	73.5	26.5	28.5	36.0
Merged-chr19-12469001-4	chr19	12468895	12469095	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172442, exon 9 of 9)	3' UTR (NM_172442, exon 9 of 9)	8216.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	22.0	40.5	40.0	368.0	32.0	4.0	12.0	9.5
Merged-chr4-95326092-3	chr4	95325984	95326184	+	634.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-231423.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	2.0	6.5	8.0	177.0	16.5	6.0	9.0	9.0
Merged-chr13-56522407-4	chr13	56522297	56522497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346732)	promoter-TSS (NM_001346732)	-75.0	NM_178674	213311.0	Mm.233904	NM_178674	ENSMUSG00000035509	Fbxl21	D630045D17Rik|FBL3B|FBXL3B|Psttm	F-box and leucine-rich repeat protein 21	protein-coding	44.0	48.5	25.5	345.0	88.5	20.0	38.5	29.0
Merged-chr3-68976230-4	chr3	68976148	68976348	+	954.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026641, intron 5 of 19)	intron (NM_026641, intron 5 of 19)	28322.0	NM_026641	68259.0	Mm.389451	NM_026641	ENSMUSG00000027778	Ift80	4921524P20Rik|Wdr56|mKIAA1374	intraflagellar transport 80	protein-coding	18.5	24.5	21.0	464.0	35.5	17.5	16.0	11.0
Merged-chr9-75547367-4	chr9	75547271	75547471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	12286.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	29.5	46.5	14.5	517.5	168.5	45.0	53.0	53.0
Merged-chr7-4900312-4	chr7	4900204	4900404	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-14913.0	NM_170759	232816.0	Mm.27442	NM_170759	ENSMUSG00000074406	Zfp628	Zec|Znf628	zinc finger protein 628	protein-coding	0.0	3.5	0.0	13.5	40.5	12.5	15.5	35.5
Merged-chr4-136123219-4	chr4	136123141	136123341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20581.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	66.5	125.5	67.5	1208.5	169.0	81.0	80.0	88.0
Merged-chr10-79874482-3	chr10	79874399	79874599	+	807.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033210, exon 1 of 6)	non-coding (NR_033210, exon 1 of 6)	135.0	NM_181681	216152.0	Mm.29678	NM_181681	ENSMUSG00000035835	Plppr3	Lppr3|Prg2	phospholipid phosphatase related 3	protein-coding	12.5	15.0	13.5	151.0	20.0	10.0	5.0	15.5
Merged-chr10-24493875-4	chr10	24493766	24493966	+	940.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101576.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	3.5	8.0	9.0	157.5	28.0	11.0	15.0	18.5
Merged-chr8-125776995-4	chr8	125776927	125777127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175561, intron 25 of 33)	intron (NM_175561, intron 25 of 33)	42824.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	82.0	104.0	119.0	1585.0	189.5	49.0	119.5	90.5
Merged-chr11-49086982-4	chr11	49086816	49087016	+	826.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271676)	promoter-TSS (NM_001271676)	-101.0	NM_001271676	15953.0	Mm.24769	NM_008330	ENSMUSG00000078920	Ifi47	47kDa|IRG-47|Ifggc1|Igrd|Iigp4|Iipg4|Irgd	interferon gamma inducible protein 47	protein-coding	10.5	9.0	3.5	68.5	28.5	4.5	6.0	10.0
Merged-chr16-10482529-4	chr16	10482416	10482616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243760, intron 1 of 18)	intron (NM_001243760, intron 1 of 18)	2444.0	NM_001302618	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	62.5	92.0	78.0	891.0	131.0	41.0	51.0	34.5
Merged-chr15-59389439-4	chr15	59389335	59389535	+	909.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	15237.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	14.0	21.5	7.5	160.0	29.0	11.0	18.0	18.0
Merged-chr11-97310144-4	chr11	97310050	97310250	+	989.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-5566.0	NM_025927	67036.0	Mm.5381	NM_025927	ENSMUSG00000018882	Mrpl45	2600005P05Rik|AU043542|R75241	mitochondrial ribosomal protein L45	protein-coding	49.0	63.5	34.0	315.5	39.0	15.5	7.5	16.5
Merged-chr2-154597616-4	chr2	154597519	154597719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021534, intron 1 of 3)	MTC|LTR|ERVL-MaLR	6054.0	NM_021534	59038.0	Mm.24673	NM_021534	ENSMUSG00000000876	Pxmp4	3010018P03Rik|Pmp24	peroxisomal membrane protein 4	protein-coding	35.0	82.5	66.0	705.5	105.5	25.0	43.0	54.0
Merged-chr9-119568874-3	chr9	119568779	119568979	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021544, intron 1 of 27)	intron (NM_021544, intron 1 of 27)	-6201.0	NM_001253860	20271.0	Mm.103584	NM_021544	ENSMUSG00000032511	Scn5a	Nav1.5|Nav1.5c|SkM1|SkM2|mH1	sodium channel, voltage-gated, type V, alpha	protein-coding	40.0	28.5	61.0	398.5	7.0	3.5	12.5	8.0
Merged-chr6-72355284-6	chr6	72355227	72355427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144916)	promoter-TSS (NM_144916)	-156.0	NM_144916	232086.0	Mm.491165	NM_144916	ENSMUSG00000055912	Tmem150a	BC014685|Tmem150	transmembrane protein 150A	protein-coding	24.5	32.5	35.0	394.5	58.0	18.0	23.0	28.5
Merged-chr13-91656815-4	chr13	91656705	91656905	+	782.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360775, intron 5 of 16)	intron (NM_001360775, intron 5 of 16)	-84716.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	26.5	13.5	20.5	301.5	12.5	7.0	11.0	9.0
Merged-chr17-34631019-4	chr17	34630905	34631105	+	682.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030890, exon 2 of 4)	exon (NM_030890, exon 2 of 4)	1319.0	NM_030890	260297.0	Mm.390965	NM_030890	ENSMUSG00000015476	Prrt1	Bat-4|Bat4|D17H6S54E|DSPD1|G5b|NG5|ORF31|SynDIG4	proline-rich transmembrane protein 1	protein-coding	5.5	6.5	13.5	62.5	21.5	7.0	8.5	23.0
Merged-chr6-129626119-4	chr6	129626092	129626292	+	888.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2328.0	NM_001286018	27007.0	Mm.8217	NM_033078	ENSMUSG00000030149	Klrk1	D6H12S2489E|NKG2-D|Nkg2d	killer cell lectin-like receptor subfamily K, member 1	protein-coding	0.5	3.0	7.5	98.5	15.0	5.0	9.5	8.5
Merged-chr1-74712214-4	chr1	74712128	74712328	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-1307.0	NM_024264	104086.0	Mm.85083	NM_024264	ENSMUSG00000026170	Cyp27a1	1300013A03Rik|Cyp27	cytochrome P450, family 27, subfamily a, polypeptide 1	protein-coding	8.5	5.5	8.0	84.5	33.0	14.0	15.5	9.0
Merged-chr4-149076159-4	chr4	149076112	149076312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019781, intron 1 of 8)	intron (NM_019781, intron 1 of 8)	23600.0	NM_019781	56273.0	Mm.184172	NM_019781	ENSMUSG00000028975	Pex14	Pex14p|R75137	peroxisomal biogenesis factor 14	protein-coding	7.5	16.5	14.0	194.5	30.0	13.0	12.5	18.0
Merged-chr6-140491111-3	chr6	140491025	140491225	+	848.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144920, intron 3 of 30)	intron (NM_144920, intron 3 of 30)	67026.0	NM_144920	109135.0	Mm.247670	NM_144920	ENSMUSG00000030231	Plekha5	2810431N21Rik|AI428202|AK129423|AMH-Cre|Ayu21-9|Gt(pU21)9Imeg|Pepp2|Tg(AMH-cre)1Flor	pleckstrin homology domain containing, family A member 5	protein-coding	15.5	9.5	9.0	222.0	18.5	5.0	8.5	7.0
Merged-chr19-56726521-8	chr19	56726462	56726662	+	878.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4190.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	19.5	18.5	10.5	238.0	15.0	6.5	9.0	16.0
Merged-chr11-79161301-4	chr11	79161300	79161500	+	889.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-14927.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	11.0	15.0	13.5	53.5	6.0	8.5	11.5	7.5
Merged-chr1-38049853-3	chr1	38049769	38049969	+	677.477783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 21 of 23)	intron (NM_198303, intron 21 of 23)	51859.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	5.0	6.0	4.5	106.0	11.5	4.5	7.0	8.5
Merged-chr15-64163393-3	chr15	64163296	64163496	+	753.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001276461, intron 9 of 28)	L1MB5|LINE|L1	-102948.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	10.0	5.0	2.5	298.0	30.5	6.0	8.5	9.5
Merged-chr11-97148887-2	chr11	97148787	97148987	+	944.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_198100, intron 2 of 8)	intron (NM_198100, intron 2 of 8)	825.0	NM_198100	73174.0	Mm.27882	NM_198100	ENSMUSG00000038517	Tbkbp1	3110043L15Rik|ProSAPiP2|SINTBAD	TBK1 binding protein 1	protein-coding	13.5	7.0	4.5	80.5	14.0	6.0	3.5	11.5
Merged-chr7-4915401-4	chr7	4915289	4915489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_170759, exon 1 of 3)	5' UTR (NM_170759, exon 1 of 3)	172.0	NM_170759	232816.0	Mm.27442	NM_170759	ENSMUSG00000074406	Zfp628	Zec|Znf628	zinc finger protein 628	protein-coding	51.0	68.0	104.5	773.5	127.0	66.0	47.0	76.5
Merged-chr1-170903562-4	chr1	170903472	170903672	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	9369.0	NM_001029984	435653.0	Mm.337931	NM_001029984	ENSMUSG00000070524	Fcrlb	FREB-2|FREB2|FcRL2|Fcrlm2|Fcry|mFCRL2	Fc receptor-like B	protein-coding	29.5	21.5	34.5	689.0	62.5	14.0	24.5	27.5
Merged-chr17-34627484-4	chr17	34627324	34627524	+	843.8988039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019441)	promoter-TSS (NM_019441)	11.0	NM_001302396	54397.0	Mm.373627	NM_019441	ENSMUSG00000015474	Ppt2	0610007M19Rik|AA672937	palmitoyl-protein thioesterase 2	protein-coding	13.0	16.0	10.0	156.0	13.0	7.0	4.5	9.0
Merged-chr16-30063309-4	chr16	30063212	30063412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2045.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	24.5	33.5	29.5	329.0	74.5	24.0	13.0	29.0
Merged-chr4-63683273-4	chr4	63683177	63683377	+	921.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48856.0	NR_151544	102632940.0	Mm.399154	NR_151544	ENSMUSG00000086817	Gm11482	-	predicted gene 11482	ncRNA	23.0	23.0	24.0	363.0	21.5	4.0	17.5	14.0
Merged-chr8-108723363-4	chr8	108723274	108723474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	8730.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	65.0	83.5	52.0	1154.5	86.0	36.5	42.0	35.0
Merged-chr19-4510270-4	chr19	4510177	4510377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162946)	promoter-TSS (NM_001162946)	-195.0	NM_001162946	18563.0	Mm.1845	NM_008797	ENSMUSG00000024892	Pcx	Pc|Pcb	pyruvate carboxylase	protein-coding	281.5	510.0	292.5	3110.5	729.0	285.5	270.5	273.5
Merged-chr11-17004323-4	chr11	17004209	17004409	+	880.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	4409.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	13.0	24.5	7.0	164.0	27.0	8.5	15.0	8.0
Merged-chr2-71044308-3	chr2	71044212	71044412	+	680.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	intron (NM_145524, intron 1 of 9)	11294.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	6.0	4.5	6.0	70.5	4.5	0.5	1.0	8.5
Merged-chr7-120835905-2	chr7	120835806	120836006	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-6925.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	28.0	63.5	22.0	337.5	154.0	46.5	54.5	77.0
Merged-chr4-136224926-3	chr4	136224839	136225039	+	776.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008232, intron 1 of 24)	intron (NM_001008232, intron 1 of 24)	18574.0	NM_001355698	230837.0	Mm.77788	NM_001008232	ENSMUSG00000036995	Asap3	9430088F20Rik|Ddefl1|Gm140|UPLC1	ArfGAP with SH3 domain, ankyrin repeat and PH domain 3	protein-coding	11.5	15.0	7.5	133.5	25.5	10.0	1.5	4.5
Merged-chr15-82346069-6	chr15	82346037	82346237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026914)	promoter-TSS (NM_026914)	91.0	NM_026914	69029.0	Mm.260042	NM_026914	ENSMUSG00000022452	Smdt1	1500032L24Rik|Emre	single-pass membrane protein with aspartate rich tail 1	protein-coding	62.0	110.0	107.0	769.0	181.0	107.0	73.5	95.5
Merged-chr5-85915199-4	chr5	85915074	85915274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150409.0	NM_001345902	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	137.5	137.5	99.0	1979.0	199.0	60.0	84.0	73.5
Merged-chr6-29868073-2	chr6	29867973	29868173	+	845.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347084, intron 3 of 17)	intron (NM_001347084, intron 3 of 17)	8477.0	NM_001171001	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	5.0	7.5	4.5	50.5	7.5	3.0	7.5	3.0
Merged-chr14-66296972-4	chr14	66296897	66297097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029979)	promoter-TSS (NM_029979)	-28.0	NM_029979	66854.0	Mm.43871	NM_029979	ENSMUSG00000022043	Trim35	0710005M05Rik|A430106H13Rik|AW046487|HLS5|Mair|NC8|mKIAA1098	tripartite motif-containing 35	protein-coding	72.5	89.0	56.5	790.5	143.0	49.5	48.5	55.0
Merged-chr9-121320670-4	chr9	121320565	121320765	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	23163.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	21.5	20.0	3.5	384.5	33.5	5.5	21.0	17.5
Merged-chr8-126515405-1	chr8	126515305	126515505	+	615.0	f0_balb.idr	Intergenic	Intergenic	-40340.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	5.5	19.0	5.0	81.5	17.0	5.5	9.0	16.5
Merged-chr7-27674622-4	chr7	27674562	27674762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290528)	promoter-TSS (NM_001290528)	1.0	NM_198417	112415.0	Mm.145362	NM_198417	ENSMUSG00000057093	Zfp607b	C030039L03Rik	zinc finger protein 607B	protein-coding	73.0	93.5	67.0	1088.0	164.0	75.0	92.5	78.5
Merged-chr9-64749507-4	chr9	64749399	64749599	+	793.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-11743.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	11.5	10.0	3.0	94.0	20.0	5.0	9.5	6.0
Merged-chr5-115507383-3	chr5	115507244	115507444	+	944.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	668.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	14.0	13.5	30.0	136.5	19.0	10.0	9.5	19.0
Merged-chr19-45658849-3	chr19	45658762	45658962	+	931.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 1 of 8)	intron (NM_013907, intron 1 of 8)	1331.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	5.0	10.5	4.5	96.0	8.5	8.5	3.0	6.0
Merged-chr7-80883203-6	chr7	80883096	80883296	+	887.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18073.0	NR_152101	71968.0	Mm.274226	NM_028026	ENSMUSG00000025722	Wdr73	1200011I23Rik|2410008B13Rik|AI848574|C85352	WD repeat domain 73	protein-coding	5.0	19.0	11.0	114.0	17.5	10.0	13.5	12.0
Merged-chr19-17136975-5	chr19	17136848	17137048	+	758.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	intron (NM_181348, intron 9 of 19)	180830.0	NM_181348	353211.0	Mm.257354	NM_181348	ENSMUSG00000039126	Prune2	6330414G02Rik|A230083H22Rik|A330102H22Rik|Bmcc1|mKIAA0367	prune homolog 2	protein-coding	13.0	6.0	13.5	109.0	9.5	1.0	3.0	6.0
Merged-chr1-144245065-4	chr1	144244960	144245160	+	932.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_015811, exon 5 of 5)	3' UTR (NM_015811, exon 5 of 5)	4044.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	38.0	26.0	15.5	347.5	25.0	10.5	12.5	20.0
Merged-chr2-135503802-4	chr2	135503704	135503904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79416.0	NR_015544	320684.0	Mm.421433	NR_015544	ENSMUSG00000085631	9630028H03Rik	-	RIKEN cDNA 9630028H03 gene	ncRNA	29.0	33.5	22.0	596.0	63.0	40.0	34.5	33.0
Merged-chr19-6922653-2	chr19	6922553	6922753	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007953)	promoter-TSS (NM_007953)	-845.0	NM_007953	26379.0	Mm.386776	NM_007953	ENSMUSG00000024955	Esrra	ERRalpha|Err1|Estrra|Nr3b1	estrogen related receptor, alpha	protein-coding	11.5	18.0	3.5	99.0	23.5	16.0	8.0	11.0
Merged-chr3-89228315-4	chr3	89228212	89228412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013605)	promoter-TSS (NM_013605)	-744.0	NM_013605	17829.0	Mm.16193	NM_013605	ENSMUSG00000042784	Muc1	CD227|EMA|Muc-1	mucin 1, transmembrane	protein-coding	32.0	46.5	24.0	502.0	181.5	42.0	48.0	36.5
Merged-chr11-117724715-4	chr11	117724607	117724807	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 5 of 21)	intron (NM_198022, intron 5 of 21)	54941.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	30.5	37.5	29.0	515.0	46.5	19.0	26.5	16.5
Merged-chr14-17954235-4	chr14	17954126	17954326	+	845.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 3 of 9)	intron (NM_001113417, intron 3 of 9)	-27418.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	11.5	12.0	18.0	296.0	14.0	3.5	16.5	14.0
Merged-chr17-69382840-4	chr17	69382752	69382952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356283)	promoter-TSS (NM_001356283)	-323.0	NM_001356283	22666.0	Mm.29434	NM_009547	ENSMUSG00000049672	Zbtb14	ZF5|Zfp161|b2b1982Clo	zinc finger and BTB domain containing 14	protein-coding	170.0	250.5	233.5	2374.5	506.5	172.0	255.0	158.5
Merged-chr15-50920107-4	chr15	50920020	50920220	+	872.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-30079.0	NM_032000	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	5.5	12.0	26.5	230.5	27.5	5.0	15.5	8.5
Merged-chr18-6491114-1	chr18	6491014	6491214	+	1000.0	f0_balb.idr	promoter-TSS (NM_001276350)	promoter-TSS (NM_001276350)	-257.0	NM_001276350	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	43.0	84.5	37.0	563.5	84.5	20.0	52.0	16.5
Merged-chr9-32507713-4	chr9	32507600	32507800	+	963.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	33752.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	42.0	49.0	58.5	1043.0	64.5	14.5	21.5	31.0
Merged-chr14-55878606-2	chr14	55878506	55878706	+	728.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_019820)	TTS (NM_019820)	5650.0	NM_019820	56410.0	Mm.97163	NM_019820	ENSMUSG00000040380	Cbln3	-	cerebellin 3 precursor protein	protein-coding	5.0	10.5	9.5	42.5	14.0	3.0	1.0	4.5
Merged-chr7-127477983-4	chr7	127477858	127478058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6344.0	NM_145589	233895.0	Mm.44183	NM_145589	ENSMUSG00000030822	Prr14	BC006909	proline rich 14	protein-coding	273.0	443.5	300.5	3855.5	767.0	258.0	378.5	297.5
Merged-chr16-33668467-4	chr16	33668401	33668601	+	866.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15965.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	10.5	16.0	10.5	133.0	18.0	12.0	10.5	7.5
Merged-chr10-79916977-4	chr10	79916870	79917070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177994)	promoter-TSS (NM_177994)	-1.0	NM_001359010	114229.0	Mm.191035	NM_053244	ENSMUSG00000035773	Kiss1r	Gpr54|KiSS-1|kiSS-1R	KISS1 receptor	protein-coding	41.5	56.0	37.0	393.5	101.0	31.5	48.5	31.0
Merged-chr8-119811903-5	chr8	119811725	119811925	+	913.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 3 of 3)	intron (NM_028071, intron 3 of 3)	28754.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	13.0	9.0	13.5	124.5	38.0	11.5	11.0	27.0
Merged-chr2-45109558-7	chr2	45109558	45109758	+	987.31427	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	CpG	619.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	10.0	59.0	15.0	57.5	46.0	27.0	16.0	12.0
Merged-chr5-22855258-3	chr5	22855138	22855338	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	intron (NM_001359998, intron 1 of 3)	-108354.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	2.0	1.0	1.0	7.0	121.0	38.5	33.0	42.5
Merged-chr2-102827974-4	chr2	102827865	102828065	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 11 of 13)	MTC|LTR|ERVL-MaLR	73700.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	5.5	6.0	11.5	98.5	41.5	19.0	9.5	7.5
Merged-chr11-95841531-4	chr11	95841474	95841674	+	878.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284393)	promoter-TSS (NM_001284393)	-721.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	9.0	20.0	5.0	60.0	12.5	12.5	12.5	15.5
Merged-chr12-31351438-4	chr12	31351311	31351511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007861)	promoter-TSS (NM_007861)	60.0	NM_007861	13382.0	Mm.3131	NM_007861	ENSMUSG00000020664	Dld	-	dihydrolipoamide dehydrogenase	protein-coding	119.0	140.0	128.0	1312.5	325.5	123.0	138.5	113.5
Merged-chr2-68430841-4	chr2	68430722	68430922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	intron (NM_016866, intron 1 of 17)	41159.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	24.5	76.0	45.5	406.5	127.5	49.5	33.5	29.5
Merged-chr10-98915035-4	chr10	98914945	98915145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026482)	promoter-TSS (NM_026482)	-107.0	NM_001359507	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	167.0	198.5	114.5	1921.0	355.5	146.5	207.0	116.5
Merged-chr10-80389363-4	chr10	80389200	80389400	+	829.391663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-1649.0	NM_198615	237400.0	Mm.268389	NM_198615	ENSMUSG00000048696	Mex3d	BC059858|Rkhd1	mex3 RNA binding family member D	protein-coding	13.0	16.0	6.0	172.5	15.5	4.5	6.5	6.0
Merged-chr10-59741707-4	chr10	59741571	59741771	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359267, intron 4 of 11)	intron (NM_001359267, intron 4 of 11)	39108.0	NM_001291443	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	13.5	29.5	37.0	283.0	29.5	9.0	11.0	11.5
Merged-chr2-127391569-4	chr2	127391485	127391685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	28299.0	NM_009633	11552.0	Mm.347390	NM_009633	ENSMUSG00000058620	Adra2b	Adra-2b|[a]2B|a2b-AR|alpha2-C2|alpha2B	adrenergic receptor, alpha 2b	protein-coding	25.0	44.5	24.0	425.0	72.0	34.0	33.5	33.5
Merged-chr16-34095921-3	chr16	34095811	34096011	+	759.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 34 of 59)	intron (NM_177357, intron 34 of 59)	-128873.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	4.0	6.5	3.5	68.0	20.5	11.0	4.5	8.5
Merged-chr9-55208980-4	chr9	55208860	55209060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028049)	promoter-TSS (NM_028049)	25.0	NM_028049	71999.0	Mm.276429	NM_028049	ENSMUSG00000032309	Fbxo22	0610033L19Rik|1600016C16Rik	F-box protein 22	protein-coding	53.0	71.0	24.5	509.5	86.0	39.5	64.0	51.0
Merged-chr4-45499418-4	chr4	45499334	45499534	+	883.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	31394.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	10.0	36.5	2.0	259.0	66.5	9.5	16.5	11.5
Merged-chr3-9341059-3	chr3	9340957	9341157	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62021.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	15.0	25.0	18.5	160.0	23.0	5.0	11.0	7.5
Merged-chr10-6717348-4	chr10	6717250	6717450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAAG)n|Simple_repeat|Simple_repeat	-41243.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	146.0	246.5	102.0	2576.5	440.5	169.0	183.0	153.0
Merged-chr9-37146582-3	chr9	37146452	37146652	+	934.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	CpG	770.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	6.5	11.0	7.0	168.5	11.5	6.5	8.0	7.0
Merged-chr9-121284674-3	chr9	121284580	121284780	+	769.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7508.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	12.0	11.0	0.5	51.5	19.0	14.5	12.5	5.5
Merged-chr11-69061117-4	chr11	69061025	69061225	+	932.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028005, exon 1 of 1)	3' UTR (NM_028005, exon 1 of 1)	1350.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	11.0	25.5	7.0	164.0	28.0	15.5	14.5	20.0
Merged-chr10-93263661-3	chr10	93263523	93263723	+	992.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282967, intron 2 of 3)	intron (NM_001282967, intron 2 of 3)	47536.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	22.0	34.5	27.0	623.5	7.5	5.5	4.5	3.5
Merged-chr2-16155386-3	chr2	16155246	16155446	+	672.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 35 of 38)	L1MC4|LINE|L1	-200958.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	6.0	4.5	1.0	48.5	8.0	11.0	7.5	12.0
Merged-chr13-95489123-1	chr13	95489023	95489223	+	623.0	f0_c57.idr	Intergenic	L4_B_Mam|LINE|RTE-X	-10468.0	NM_001081159	268686.0	Mm.291249	NM_001081159	ENSMUSG00000021679	S100z	Gm625	S100 calcium binding protein, zeta	protein-coding	0.0	0.0	1.0	0.0	23.0	7.5	6.5	7.5
Merged-chr14-67933269-4	chr14	67933151	67933351	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177780, intron 1 of 51)	CpG	321.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	17.0	28.5	17.0	208.5	34.5	9.5	15.0	12.0
Merged-chr5-69592184-4	chr5	69592079	69592279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359239, intron 1 of 6)	CpG	125.0	NM_001347363	67980.0	Mm.33830	NM_027681	ENSMUSG00000029209	Gnpda2	4921523I18Rik|4933412A11Rik|BB189630|GNPDA|Gnp2|Sb52|mKIAA4008	glucosamine-6-phosphate deaminase 2	protein-coding	29.5	36.5	68.0	701.0	39.0	18.0	33.0	49.0
Merged-chr11-32542287-3	chr11	32542198	32542398	+	870.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	9032.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	16.0	14.5	10.5	97.0	16.0	11.0	7.5	12.0
Merged-chr16-3231829-3	chr16	3231764	3231964	+	822.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CTGTG)n|Simple_repeat|Simple_repeat	-360534.0	NM_146860	258859.0	Mm.377723	NM_146860	ENSMUSG00000051003	Olfr161	MOR131-1|OR912-47M6	olfactory receptor 161	protein-coding	4.0	3.0	6.5	96.5	21.0	5.0	6.5	12.0
Merged-chr6-85587525-4	chr6	85587373	85587573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145223)	promoter-TSS (NM_145223)	-58.0	NM_145223	236266.0	Mm.246967	NM_145223	ENSMUSG00000063810	Alms1	bbb	ALMS1, centrosome and basal body associated	protein-coding	47.5	109.0	50.5	928.0	192.0	66.0	83.5	64.5
Merged-chr9-31559675-3	chr9	31559582	31559782	+	989.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95444.0	NM_144936	235135.0	Mm.390134	NM_144936	ENSMUSG00000041737	Tmem45b	BC018222	transmembrane protein 45b	protein-coding	12.5	25.5	15.5	414.5	20.5	6.5	6.5	7.5
Merged-chr19-37523882-3	chr19	37523776	37523976	+	912.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26542.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	15.5	20.5	18.0	363.5	31.0	5.5	5.5	6.0
Merged-chr9-21616065-4	chr9	21615963	21616163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011417)	promoter-TSS (NM_011417)	-106.0	NM_011417	20586.0	Mm.286593	NM_011417	ENSMUSG00000032187	Smarca4	BAF190A|Brg1|HP1-BP72|SNF2beta|SW1/SNF|b2b508.1Clo|b2b692Clo	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	protein-coding	186.0	301.0	138.5	2600.0	475.0	191.5	183.5	147.5
Merged-chr15-73017829-4	chr15	73017731	73017931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029640, intron 6 of 21)	intron (NM_029640, intron 6 of 21)	37981.0	NM_029640	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	54.5	102.5	44.5	509.0	163.5	80.5	40.0	27.0
Merged-chr12-112673093-4	chr12	112673002	112673202	+	989.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331107, intron 1 of 13)	intron (NM_001331107, intron 1 of 13)	1174.0	NM_001165894	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	18.0	22.0	20.0	406.0	39.0	7.5	17.5	21.5
Merged-chr4-117915144-4	chr4	117915043	117915243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146152)	promoter-TSS (NM_146152)	-144.0	NM_146152	230673.0	Mm.287810	NM_146152	ENSMUSG00000033365	Ipo13	Imp13|Kap13|Ranbp13	importin 13	protein-coding	90.0	114.5	112.5	913.5	135.0	73.5	62.0	89.5
Merged-chr4-53203818-4	chr4	53203708	53203908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42388.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	21.5	29.5	39.5	468.0	67.5	15.5	20.0	28.5
Merged-chr7-88264896-4	chr7	88264802	88265002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14_RN|LTR|ERV1	-13183.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	29.0	48.0	54.0	765.5	50.5	33.5	40.0	41.0
Merged-chr12-112840863-4	chr12	112840762	112840962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A2|LTR|ERVK	-11341.0	NM_001359234	71963.0	Mm.313185	NM_028023	ENSMUSG00000047832	Cdca4	2410018C03Rik|HEPP|SEI-3	cell division cycle associated 4	protein-coding	29.5	41.0	25.0	297.5	44.5	18.5	29.5	32.0
Merged-chr4-53122455-3	chr4	53122346	53122546	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	37449.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	13.0	19.5	23.5	171.5	53.5	18.0	24.0	21.5
Merged-chr16-33932292-4	chr16	33932146	33932346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	34792.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	53.0	45.5	48.5	765.5	53.5	17.0	30.5	24.0
Merged-chr3-105721991-4	chr3	105721909	105722109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16551.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	92.5	169.5	115.5	2103.0	234.5	99.0	152.5	138.5
Merged-chr7-128393077-4	chr7	128392976	128393176	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	intron (NM_026418, intron 3 of 4)	25096.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	17.5	28.0	15.5	223.0	62.0	13.5	12.0	12.5
Merged-chr2-18772570-4	chr2	18772485	18772685	+	883.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11723.0	NR_126079	100041479.0	Mm.393659	NR_126079	ENSMUSG00000092353	Gm3363	-	predicted gene 3363	ncRNA	9.5	27.0	8.5	273.0	21.0	13.5	12.5	24.5
Merged-chr4-63396914-3	chr4	63396828	63397028	+	915.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 2 of 21)	intron (NM_001045514, intron 2 of 21)	1312.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	11.0	8.0	6.0	117.0	8.0	3.0	2.5	6.0
Merged-chr4-105275353-4	chr4	105275254	105275454	+	875.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	118007.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	21.0	16.5	4.5	299.0	31.5	13.0	31.5	15.0
Merged-chr3-121819988-4	chr3	121819879	121820079	+	830.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4677.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	7.0	7.0	10.0	203.5	50.5	18.0	14.5	20.0
Merged-chr14-70402600-4	chr14	70402486	70402686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021308, intron 10 of 22)	B3A|SINE|B2	26508.0	NM_021308	57746.0	Mm.85253	NM_021308	ENSMUSG00000033644	Piwil2	Piwil1l|mili	piwi-like RNA-mediated gene silencing 2	protein-coding	62.0	74.0	49.0	881.5	193.5	53.0	90.5	66.5
Merged-chr3-75277650-4	chr3	75277562	75277762	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-7584.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	21.5	16.0	7.0	300.0	49.5	14.0	26.0	36.0
Merged-chr8-68999506-4	chr8	68999421	68999621	+	847.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-89215.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	14.0	33.5	5.0	84.0	54.0	12.0	12.0	15.0
Merged-chr3-96489239-3	chr3	96489124	96489324	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35961.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	0.0	0.0	0.0	0.0	102.0	27.5	31.5	40.0
Merged-chr9-45274854-4	chr9	45274774	45274974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5725.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	25.0	40.5	52.0	858.0	79.5	19.0	35.0	34.5
Merged-chr2-165852683-4	chr2	165852611	165852811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252584, intron 2 of 22)	ORR1E|LTR|ERVL-MaLR	5462.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	52.5	64.5	39.0	730.0	94.5	42.0	60.0	77.0
Merged-chr10-52273202-4	chr10	52273088	52273288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025705, intron 2 of 10)	intron (NM_025705, intron 2 of 10)	39569.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	54.5	59.0	44.0	818.0	41.0	23.5	29.5	31.5
Merged-chr2-6454902-4	chr2	6454808	6455008	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102172.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	22.0	22.0	21.5	454.5	72.0	10.5	46.5	37.0
Merged-chr9-90208877-4	chr9	90208776	90208976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 11 of 12)	L1ME4b|LINE|L1	45898.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	28.0	37.0	35.0	240.0	100.5	34.0	34.0	16.0
Merged-chr4-116177141-4	chr4	116177076	116177276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3804.0	NM_001099295	67323.0	Mm.45442	NM_001099295	ENSMUSG00000078593	1700042G07Rik	-	RIKEN cDNA 1700042G07 gene	protein-coding	32.0	91.0	50.0	294.0	58.5	22.5	22.0	18.5
Merged-chr9-72660334-4	chr9	72660234	72660434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1997.0	NM_010890	17999.0	Mm.279923	NM_010890	ENSMUSG00000032216	Nedd4	AA959633|AL023035|AU019897|E430025J12Rik|EG639396|Gm7265|KIAA0093|Nedd4-1|Nedd4a	neural precursor cell expressed, developmentally down-regulated 4	protein-coding	58.5	87.0	64.0	831.5	207.0	42.5	47.0	51.5
Merged-chr1-16689572-4	chr1	16689432	16689632	+	878.104126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159711, intron 1 of 4)	B1F|SINE|Alu	1076.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	12.5	16.5	14.5	120.0	17.0	12.5	13.5	10.5
Merged-chr6-56485292-3	chr6	56485187	56485387	+	758.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115653.0	NM_001159955	18575.0	Mm.5145	NM_011054	ENSMUSG00000004347	Pde1c	-	phosphodiesterase 1C	protein-coding	3.5	10.0	9.5	128.5	10.0	7.0	13.5	6.5
Merged-chr2-102638269-4	chr2	102638152	102638352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173749, intron 8 of 10)	intron (NM_173749, intron 8 of 10)	-20437.0	NM_001077514	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	44.5	59.5	61.5	713.0	96.0	22.5	44.5	58.0
Merged-chr3-100189688-2	chr3	100189588	100189788	+	713.25	f1_balb.idr|f1_c57bl6.idr	intron (NR_104341, intron 8 of 13)	intron (NR_104341, intron 8 of 13)	27225.0	NR_104341	14547.0	Mm.279228	NM_010269	ENSMUSG00000027865	Gdap2	C77050|D3Ertd801e	ganglioside-induced differentiation-associated-protein 2	protein-coding	3.0	1.5	4.5	37.0	12.5	9.0	4.5	5.5
Merged-chr15-89180840-4	chr15	89180742	89180942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138749)	promoter-TSS (NM_138749)	-54.0	NM_138749	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	88.5	122.0	86.5	1101.0	196.0	75.0	95.5	86.0
Merged-chr3-26866787-4	chr3	26866714	26866914	+	981.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029150, intron 5 of 10)	RMER19B|LTR|ERVK	229183.0	NM_027583	70862.0	Mm.330943	NM_027583	ENSMUSG00000039335	Spata16	4921511F01Rik|4930503K02Rik|Nyd-sp12	spermatogenesis associated 16	protein-coding	21.5	17.5	54.0	408.5	39.0	11.0	27.5	33.0
Merged-chr13-33089773-2	chr13	33089673	33089873	+	949.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_173052, intron 4 of 6)	intron (NM_173052, intron 4 of 6)	5670.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	4.5	9.0	16.0	82.0	17.5	5.0	3.0	8.0
Merged-chr11-115132035-3	chr11	115131931	115132131	+	923.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169153, intron 1 of 6)	L2|LINE|L2	1961.0	NM_001347648	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	18.0	19.0	10.5	77.5	27.0	4.5	7.0	8.5
Merged-chr7-97480922-4	chr7	97480812	97481012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027256)	promoter-TSS (NM_027256)	-44.0	NM_027256	101861.0	Mm.27383	NM_027256	ENSMUSG00000025133	Ints4	2610034N24Rik|AA692684|AW493223	integrator complex subunit 4	protein-coding	93.5	101.5	86.0	1280.0	147.5	59.0	73.0	76.0
Merged-chr4-135898571-4	chr4	135898466	135898666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009924, intron 1 of 1)	MIRb|SINE|MIR	3377.0	NM_009924	12802.0	Mm.297251	NM_009924	ENSMUSG00000062585	Cnr2	CB-2|CB2|CB2-R	cannabinoid receptor 2 (macrophage)	protein-coding	41.0	66.0	26.0	435.5	62.0	24.0	20.0	27.0
Merged-chr7-16739708-3	chr7	16739606	16739806	+	869.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198613, intron 1 of 4)	intron (NM_198613, intron 1 of 4)	1262.0	NM_198613	232910.0	Mm.333597	NM_198613	ENSMUSG00000008036	Ap2s1	AI043088	adaptor-related protein complex 2, sigma 1 subunit	protein-coding	11.0	7.0	8.0	79.5	10.5	6.5	14.0	7.5
Merged-chr16-36661785-5	chr16	36661647	36661847	+	850.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	MLT1C|LTR|ERVL-MaLR	4330.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	10.0	17.0	2.5	37.0	11.0	6.0	5.5	6.5
Merged-chr1-92906959-4	chr1	92906879	92907079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175118)	promoter-TSS (NM_175118)	-10.0	NM_175118	67446.0	Mm.46179	NM_175118	ENSMUSG00000047067	Dusp28	0710001B24Rik|AV005521	dual specificity phosphatase 28	protein-coding	81.5	133.0	87.0	1538.0	287.0	109.5	137.0	113.5
Merged-chr8-33641890-4	chr8	33641759	33641959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178648, exon 1 of 8)	exon (NM_178648, exon 1 of 8)	117.0	NM_178648	108159.0	Mm.29301	NM_178648	ENSMUSG00000052906	Ubxn8	D0H8S2298E|Rep-8|Rep8h|Ubxd6	UBX domain protein 8	protein-coding	46.0	76.5	74.0	725.0	83.0	60.5	44.5	40.0
Merged-chr7-30412867-4	chr7	30412748	30412948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011662)	promoter-TSS (NM_011662)	-940.0	NM_011662	22177.0	Mm.46301	NM_011662	ENSMUSG00000030579	Tyrobp	DAP12|KARAP|Ly83	TYRO protein tyrosine kinase binding protein	protein-coding	169.5	208.5	187.0	2147.5	339.0	105.5	166.0	140.0
Merged-chr9-88547411-4	chr9	88547318	88547518	+	822.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142943)	promoter-TSS (NM_001142943)	-602.0	NM_001163061	71640.0	Mm.259988	NM_001142943	ENSMUSG00000032425	Zfp949	4930422I07Rik|Nczf	zinc finger protein 949	protein-coding	11.5	12.0	8.5	127.0	25.5	5.0	9.0	16.0
Merged-chr12-34665000-3	chr12	34664908	34665108	+	715.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-136119.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	7.5	7.0	2.0	70.5	18.0	11.0	9.0	8.5
Merged-chr12-108765962-4	chr12	108765864	108766064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27347.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	46.5	63.5	41.5	670.5	82.5	37.0	53.5	40.0
Merged-chr11-50430977-4	chr11	50430878	50431078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172557, exon 1 of 18)	exon (NM_172557, exon 1 of 18)	133.0	NM_172557	216724.0	Mm.390400	NM_172557	ENSMUSG00000020375	Rufy1	3000002E04Rik|Rabip4|ZFYVE12	RUN and FYVE domain containing 1	protein-coding	36.0	40.5	35.5	302.5	80.0	20.0	30.0	43.0
Merged-chr9-7828922-4	chr9	7828797	7828997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007465, intron 2 of 7)	RLTR24B_MM|LTR|ERV1	7909.0	NM_001291503	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	22.5	57.5	15.5	86.0	79.5	34.5	26.0	5.5
Merged-chr15-82236751-3	chr15	82236656	82236856	+	813.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178269, intron 4 of 4)	intron (NM_178269, intron 4 of 4)	7580.0	NM_001080158	66570.0	Mm.23596	NM_025639	ENSMUSG00000068101	Cenpm	2610019I03Rik|AI853711|Pane1	centromere protein M	protein-coding	16.0	12.5	9.0	122.5	18.5	7.5	7.5	3.5
Merged-chr12-40017178-4	chr12	40017067	40017267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20209.0	NM_007487	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	52.0	46.5	30.5	800.5	69.0	24.5	32.0	43.0
Merged-chr6-127155079-4	chr6	127154981	127155181	+	779.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040275, intron 1 of 1)	CpG	-4033.0	NM_009829	12444.0	Mm.333406	NM_009829	ENSMUSG00000000184	Ccnd2	2600016F06Rik|AI256817|BF642806|C86853|Vin-1|Vin1|cD2	cyclin D2	protein-coding	10.5	13.0	10.5	163.0	17.5	8.5	15.0	12.5
Merged-chr12-85110819-4	chr12	85110683	85110883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030225)	promoter-TSS (NM_030225)	-50.0	NM_030225	78920.0	Mm.296221	NM_030225	ENSMUSG00000004789	Dlst	1600017E01Rik|4632413C10Rik|4930529O08Rik|DLTS	dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)	protein-coding	48.5	76.0	39.0	658.0	158.5	50.0	72.5	60.5
Merged-chr11-100719436-4	chr11	100719338	100719538	+	978.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 2 of 5)	intron (NM_001305003, intron 2 of 5)	5588.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	25.5	32.5	34.5	469.0	55.0	25.5	12.5	35.5
Merged-chr6-113662093-4	chr6	113662035	113662235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	23668.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	23.0	22.0	25.0	362.5	71.5	13.5	12.0	17.0
Merged-chr2-60813199-1	chr2	60813099	60813299	+	557.0	f0_balb.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	68239.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	7.0	6.5	5.5	79.5	1.5	2.0	1.0	1.0
Merged-chr13-91170084-4	chr13	91169983	91170183	+	872.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 2 of 7)	intron (NM_025770, intron 2 of 7)	53904.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	16.5	10.5	11.5	413.0	24.5	4.5	16.5	13.5
Merged-chr18-9821413-3	chr18	9821313	9821513	+	809.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	113765.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	16.0	22.5	14.0	217.5	2.5	0.5	1.5	0.0
Merged-chr19-34637066-4	chr19	34636972	34637172	+	873.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053217, intron 1 of 2)	Lx5|LINE|L1	3671.0	NM_053217	112419.0	Mm.440727	NM_053217	ENSMUSG00000067297	Ifit1bl2	2010002M12Rik|AW412491|Ifit1b	interferon induced protein with tetratricopeptide repeats 1B like 2	protein-coding	10.5	17.0	8.5	117.0	23.5	8.5	10.0	8.5
Merged-chr10-37397638-8	chr10	37397536	37397736	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-258710.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	12.5	10.5	23.0	212.0	26.5	18.0	11.5	14.5
Merged-chr14-34311248-4	chr14	34311141	34311341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029389)	promoter-TSS (NM_029389)	514.0	NM_008133	14661.0	Mm.10600	NM_008133	ENSMUSG00000021794	Glud1	AI118167|Gdh-X|Glud|Gludl	glutamate dehydrogenase 1	protein-coding	36.5	48.0	34.0	506.0	83.0	35.0	41.5	42.0
Merged-chr3-100703417-4	chr3	100703294	100703494	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17921.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	17.5	11.5	25.5	394.0	91.0	25.5	21.5	35.0
Merged-chr5-21188148-2	chr5	21188048	21188248	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 1 of 26)	intron (NR_153365, intron 1 of 26)	1881.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	5.0	16.0	0.0	46.0	16.5	11.5	4.5	7.0
Merged-chr2-59397704-4	chr2	59397614	59397814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-11032.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	31.5	42.5	25.5	460.5	93.5	21.5	26.0	33.5
Merged-chr9-106341481-4	chr9	106341383	106341583	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 10 of 10)	intron (NM_027354, intron 10 of 10)	-27149.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	28.0	26.0	18.5	483.5	24.0	7.0	10.5	9.5
Merged-chr6-24684715-1	chr6	24684615	24684815	+	719.0	f0_balb.idr	Intergenic	Intergenic	-19720.0	NM_028459	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	6.0	4.5	10.0	102.5	9.0	1.0	2.0	1.5
Merged-chr6-92091431-4	chr6	92091334	92091534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011630)	promoter-TSS (NM_011630)	16.0	NM_011630	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	61.0	85.0	59.0	1175.5	136.0	62.5	60.0	38.5
Merged-chr10-13500687-4	chr10	13500618	13500818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330198)	promoter-TSS (NM_001330198)	-310.0	NM_001330198	66848.0	Mm.26625	NM_025799	ENSMUSG00000019810	Fuca2	0610025O11Rik|5530401P20Rik	fucosidase, alpha-L- 2, plasma	protein-coding	21.5	24.0	22.0	332.0	46.0	21.5	36.0	14.5
Merged-chr4-106529942-4	chr4	106529841	106530041	+	973.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31097.0	NM_053272	74754.0	Mm.133370	NM_053272	ENSMUSG00000034926	Dhcr24	2310076D10Rik|5830417J06Rik|mKIAA0018	24-dehydrocholesterol reductase	protein-coding	18.0	24.0	17.0	243.0	35.0	12.5	13.0	17.0
Merged-chr18-62092757-4	chr18	62092673	62092873	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87208.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	37.5	38.0	30.5	382.0	70.0	30.5	20.0	16.0
Merged-chr12-34041155-4	chr12	34041064	34041264	+	988.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	83493.0	NM_011658	22160.0	Mm.3280	NM_011658	ENSMUSG00000035799	Twist1	M-Twist|Pde|Ska10|Ska<m10Jus>|Twist|bHLHa38|pdt	twist basic helix-loop-helix transcription factor 1	protein-coding	46.0	19.5	90.0	762.0	49.5	25.0	26.5	23.0
Merged-chr1-170742608-4	chr1	170742518	170742718	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 15 of 15)	Lx8|LINE|L1	98086.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	22.0	19.5	20.0	179.5	54.5	15.5	22.0	10.5
Merged-chr18-90602029-4	chr18	90601880	90602080	+	945.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22155.0	NM_001362365	108168395.0	Mm.391131	NM_001362365	ENSMUSG00000110277	Gm45871	-	predicted gene 45871	protein-coding	8.0	17.5	6.5	66.5	67.5	14.0	4.5	16.0
Merged-chr15-100216315-4	chr15	100216199	100216399	+	828.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159361, exon 38 of 38)	3' UTR (NM_001159361, exon 38 of 38)	-11560.0	NM_007497	11908.0	Mm.676	NM_007497	ENSMUSG00000023027	Atf1	-	activating transcription factor 1	protein-coding	19.0	9.0	17.0	163.0	33.5	6.5	11.5	16.5
Merged-chr1-86394482-4	chr1	86394388	86394588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5127.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	62.0	69.5	63.5	923.5	112.5	27.0	47.0	47.0
Merged-chr15-78879321-4	chr15	78879219	78879419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145929, intron 1 of 16)	intron (NM_145929, intron 1 of 16)	2129.0	NM_145929	106039.0	Mm.251331	NM_145929	ENSMUSG00000033128	Gga1	4930406E12Rik|AU016030|AW209092	golgi associated, gamma adaptin ear containing, ARF binding protein 1	protein-coding	69.5	87.0	57.0	776.5	194.0	66.0	60.0	78.5
Merged-chr17-27910359-4	chr17	27910247	27910447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	1041.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	68.0	121.5	94.0	1074.0	165.5	43.0	62.5	58.0
Merged-chr10-82697551-4	chr10	82697440	82697640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1467.0	NM_001081218	67933.0	Mm.127405	NM_026462	ENSMUSG00000020246	Hcfc2	1700129L13Rik|AU019838|fkls	host cell factor C2	protein-coding	134.5	182.5	185.5	2586.0	287.5	111.0	170.0	154.0
Merged-chr18-80151775-4	chr18	80151620	80151820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175028)	promoter-TSS (NM_175028)	-238.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	96.5	192.5	111.0	1315.0	336.5	150.0	112.5	112.5
Merged-chr7-126707877-4	chr7	126707790	126707990	+	924.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3074.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	14.0	15.5	4.5	216.0	30.5	12.5	8.5	20.5
Merged-chr9-44965613-4	chr9	44965498	44965698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346698)	promoter-TSS (NM_001346698)	2.0	NM_001346698	140630.0	Mm.215069	NM_145400	ENSMUSG00000059890	Ube4a	4732444G18Rik|9930123J21Rik|UFD2b	ubiquitination factor E4A	protein-coding	88.5	144.0	40.5	1046.5	243.0	87.5	87.5	93.0
Merged-chr16-17721344-4	chr16	17721230	17721430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285886, intron 1 of 16)	(CACCC)n|Simple_repeat|Simple_repeat	1570.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	105.5	141.0	139.5	1758.5	229.5	80.5	97.0	80.5
Merged-chr2-93199713-4	chr2	93199604	93199804	+	759.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025246, intron 7 of 7)	intron (NM_001025246, intron 7 of 7)	12156.0	NM_001025246	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	6.0	3.0	7.5	84.0	11.0	4.5	9.5	10.0
Merged-chr6-134997083-4	chr6	134996964	134997164	+	833.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14548.0	NM_026360	67755.0	Mm.166524	NM_026360	ENSMUSG00000030204	Ddx47	4930588A18Rik|C77285	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	protein-coding	15.0	15.5	5.0	108.0	34.5	18.5	14.5	13.5
Merged-chr1-39761563-3	chr1	39761455	39761655	+	897.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40566.0	NM_001145660	619289.0	Mm.334107	NM_001145660	ENSMUSG00000057173	Rfx8	4933400N17Rik	regulatory factor X 8	protein-coding	13.5	9.0	8.0	111.5	9.5	11.5	6.5	10.0
Merged-chr16-90924852-4	chr16	90924763	90924963	+	794.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026502)	TTS (NM_026502)	9986.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	21.0	26.0	11.5	412.5	17.5	7.0	25.5	12.0
Merged-chr4-152477620-4	chr4	152477558	152477758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355173)	promoter-TSS (NM_001355173)	-80.0	NM_001355739	260305.0	Mm.302496	NM_153424	ENSMUSG00000039577	Nphp4	4930564O18Rik|nmf192	nephronophthisis 4 (juvenile) homolog (human)	protein-coding	211.5	239.5	159.0	3131.0	538.0	211.5	293.0	231.5
Merged-chr15-74641761-3	chr15	74641665	74641865	+	800.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5447.0	NM_001177437	69439.0	Mm.263708	NM_001177437	ENSMUSG00000022603	Mroh4	1700016M24Rik	maestro heat-like repeat family member 4	protein-coding	8.0	13.0	18.0	93.0	5.0	2.5	5.0	3.5
Merged-chr13-9766239-3	chr13	9766141	9766341	+	646.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199141)	promoter-TSS (NM_001199141)	-920.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	6.0	6.0	9.5	93.5	17.5	6.5	16.0	8.5
Merged-chr12-9006318-4	chr12	9006210	9006410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172470, intron 14 of 27)	intron (NM_172470, intron 14 of 27)	-23687.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	45.0	78.0	44.0	659.0	54.0	16.0	29.0	24.0
Merged-chr12-88360588-4	chr12	88360539	88360739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028105)	promoter-TSS (NM_028105)	125.0	NM_001361599	72113.0	Mm.181387	NM_028105	ENSMUSG00000021044	Adck1	2610005A10Rik	aarF domain containing kinase 1	protein-coding	90.0	161.5	188.0	1819.5	212.0	99.5	124.0	78.5
Merged-chr6-136687642-3	chr6	136687537	136687737	+	911.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25744.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	22.5	30.0	18.0	295.5	0.0	1.0	1.0	0.5
Merged-chr12-24831099-2	chr12	24830907	24831107	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083341)	promoter-TSS (NM_001083341)	-592.0	NM_026037	67216.0	Mm.167671	NM_026037	ENSMUSG00000020646	Mboat2	2810049G06Rik|AU022889|AW547221|LPCAT4|Moact2|Oact2	membrane bound O-acyltransferase domain containing 2	protein-coding	11.0	5.5	14.5	76.5	5.0	1.0	3.5	4.5
Merged-chr11-35833429-4	chr11	35833365	35833565	+	900.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025936, intron 1 of 14)	intron (NM_025936, intron 1 of 14)	1063.0	NM_025936	104458.0	Mm.284906	NM_025936	ENSMUSG00000018848	Rars	2610011N19Rik|2610037E21Rik|AL033339|AW985894	arginyl-tRNA synthetase	protein-coding	12.0	10.0	7.5	159.0	29.5	13.0	9.5	7.5
Merged-chr10-84147531-4	chr10	84147443	84147643	+	949.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46846.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	19.0	19.5	7.5	320.5	33.0	25.5	19.5	23.0
Merged-chr5-121388129-4	chr5	121387986	121388186	+	779.803589	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2471.0	NM_172275	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	7.5	5.5	7.0	49.5	13.0	8.0	2.5	9.5
Merged-chr2-160887500-4	chr2	160887412	160887612	+	845.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199118)	promoter-TSS (NM_001199118)	-656.0	NM_001199118	64899.0	Mm.292111	NM_022883	ENSMUSG00000027412	Lpin3	9130206L11Rik|AA438110|AV236139|mKIAA4023	lipin 3	protein-coding	13.5	24.0	7.0	166.5	23.5	8.0	5.5	13.5
Merged-chr7-78913901-4	chr7	78913774	78913974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113527)	promoter-TSS (NM_001113527)	109.0	NM_020583	57444.0	Mm.322843	NM_020583	ENSMUSG00000039236	Isg20	1600023I01Rik|2010107M23Rik|20kDa|DnaQL|HEM45	interferon-stimulated protein	protein-coding	51.0	119.5	79.0	911.5	141.0	55.5	71.0	55.0
Merged-chr6-108836387-4	chr6	108836279	108836479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138677, intron 1 of 11)	intron (NM_138677, intron 1 of 11)	7738.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	89.0	154.0	107.0	1042.5	169.5	82.0	78.5	81.5
Merged-chr8-46242122-3	chr8	46242030	46242230	+	702.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31068.0	NM_007450	11739.0	Mm.16228	NM_007450	ENSMUSG00000031633	Slc25a4	AU019225|Ant1|mANC1	solute carrier family 25 (mitochondrial carrier, adenine nucleotide translocator), member 4	protein-coding	7.5	11.5	15.5	96.0	23.5	6.0	5.5	4.5
Merged-chr2-84382206-4	chr2	84382099	84382299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018782, intron 2 of 15)	intron (NM_018782, intron 2 of 15)	43067.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	68.5	103.0	45.0	1507.0	56.5	37.5	27.5	28.5
Merged-chr16-8831667-2	chr16	8831567	8831767	+	838.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081400, intron 2 of 3)	intron (NM_001081400, intron 2 of 3)	1567.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	5.5	7.5	3.0	74.0	9.5	6.5	4.5	9.5
Merged-chr18-60714885-4	chr18	60714769	60714969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	12697.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	55.0	73.5	52.0	896.0	84.0	26.0	33.5	37.5
Merged-chr7-99401604-4	chr7	99401503	99401703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201352, intron 2 of 17)	MIR|SINE|MIR	20085.0	NM_001362166	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	47.0	31.5	46.0	871.5	79.5	21.5	38.5	26.5
Merged-chr1-92956812-4	chr1	92956706	92956906	+	960.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-6216.0	NR_015525	100037260.0	Mm.442236	NR_015525	ENSMUSG00000100632	9430060I03Rik	-	RIKEN cDNA 9430060I03 gene	ncRNA	19.0	29.5	16.5	16.5	58.0	16.0	19.5	27.0
Merged-chr11-76581429-4	chr11	76581381	76581581	+	953.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-3742.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	21.5	18.0	21.0	82.0	54.0	13.5	16.5	4.5
Merged-chr6-8691426-4	chr6	8691341	8691541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 5 of 11)	intron (NM_001252266, intron 5 of 11)	67017.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	81.0	108.5	53.0	1697.0	255.5	70.0	127.5	94.5
Merged-chr19-9062896-2	chr19	9062796	9062996	+	906.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286518, intron 6 of 6)	intron (NM_001286518, intron 6 of 6)	25060.0	NM_011681	22287.0	Mm.2258	NM_011681	ENSMUSG00000024653	Scgb1a1	CC10|CC16|CCSP|PCB-BP|UG|UGB|Utg	secretoglobin, family 1A, member 1 (uteroglobin)	protein-coding	15.5	6.5	7.5	29.0	13.0	1.0	2.5	6.0
Merged-chr14-54701521-4	chr14	54701418	54701618	+	700.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10656.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	5.0	5.5	6.5	72.5	46.5	9.0	11.0	4.5
Merged-chr1-128014141-4	chr1	128014030	128014230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 8 of 20)	B4|SINE|B4	88341.0	NM_027678	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	46.0	31.5	61.5	935.5	62.5	21.0	62.0	51.5
Merged-chr6-72955049-4	chr6	72954943	72955143	+	938.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3189.0	NM_001039392	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	23.5	13.5	14.0	443.5	20.5	8.5	18.5	23.5
Merged-chr14-19707513-3	chr14	19707400	19707600	+	789.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43757.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	5.0	25.0	7.0	104.0	20.0	2.5	7.0	1.5
Merged-chr16-4268106-4	chr16	4267992	4268192	+	849.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	38863.0	NR_003628	436332.0	Mm.478141	NM_001013830	ENSMUSG00000089645	Gm5766	EG436332	ribosomal protein L7a pseudogene	pseudo	2.5	10.5	14.5	35.5	14.0	6.0	11.5	6.5
Merged-chr12-4189248-4	chr12	4189150	4189350	+	773.012512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 3 of 21)	intron (NM_001159537, intron 3 of 21)	44715.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	18.0	15.5	8.5	175.5	18.0	11.0	13.5	7.5
Merged-chr17-33702378-4	chr17	33702256	33702456	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252480, intron 3 of 4)	B1F2|SINE|Alu	16321.0	NM_145486	224703.0	Mm.311439	NM_145486	ENSMUSG00000079557	March2	9530046H09Rik|MARCH-II	membrane-associated ring finger (C3HC4) 2	protein-coding	19.0	29.5	28.5	191.0	70.5	11.0	16.0	24.5
Merged-chr8-75101061-2	chr8	75100961	75101161	+	726.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_010442)	TTS (NM_010442)	7443.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	3.0	13.5	5.0	23.0	27.5	9.0	5.5	6.5
Merged-chr4-149049051-1	chr4	149048951	149049151	+	679.0	f0_balb.idr	intron (NM_019781, intron 2 of 8)	intron (NM_019781, intron 2 of 8)	50761.0	NM_019781	56273.0	Mm.184172	NM_019781	ENSMUSG00000028975	Pex14	Pex14p|R75137	peroxisomal biogenesis factor 14	protein-coding	9.0	6.5	6.5	113.0	15.5	2.0	4.0	4.0
Merged-chr10-51521677-4	chr10	51521590	51521790	+	803.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SSU-rRNA_Hsa|rRNA|rRNA	30792.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	2.5	13.5	15.5	95.5	20.0	7.0	7.5	6.5
Merged-chr8-122501055-4	chr8	122500985	122501185	+	759.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037298, intron 10 of 50)	intron (NM_001037298, intron 10 of 50)	24942.0	NR_152823	66965.0	Mm.482288	NM_153775	ENSMUSG00000049482	Ctu2	2310061F22Rik|C16orf84|Ncs2	cytosolic thiouridylase subunit 2	protein-coding	13.0	15.5	6.5	66.0	25.0	15.0	5.5	11.0
Merged-chr2-35214952-4	chr2	35214843	35215043	+	924.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13823.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	12.5	27.5	9.0	154.0	45.0	26.0	24.0	17.5
Merged-chr5-113649846-4	chr5	113649723	113649923	+	978.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	567.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	28.0	33.5	16.0	166.0	21.5	8.5	18.0	23.5
Merged-chr4-131861229-5	chr4	131861085	131861285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025297, intron 5 of 9)	MIRc|SINE|MIR	-12454.0	NM_020587	57317.0	Mm.2478	NM_020587	ENSMUSG00000028911	Srsf4	5730499P16Rik|AW550192|MNCb-2616|SRp75|Sfrs4	serine/arginine-rich splicing factor 4	protein-coding	17.0	31.5	14.0	221.5	54.0	21.5	28.0	38.5
Merged-chr18-38296726-4	chr18	38296696	38296896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164621)	promoter-TSS (NM_001164621)	-9.0	NM_001361268	56736.0	Mm.228903	NM_020012	ENSMUSG00000060450	Rnf14	2310075C09Rik|2610005D23Rik|AA986456|AU041447|D18Ertd188e|D7Bwg0165e|Triad2	ring finger protein 14	protein-coding	97.0	125.5	126.0	1403.5	229.5	71.5	106.0	88.0
Merged-chr16-20610724-4	chr16	20610625	20610825	+	954.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177940)	promoter-TSS (NM_177940)	36.0	NM_001357404	208624.0	Mm.24950	NM_145939	ENSMUSG00000033809	Alg3	D16Ertd36e|not	asparagine-linked glycosylation 3 (alpha-1,3-mannosyltransferase)	protein-coding	13.0	19.0	12.5	191.5	46.0	17.5	15.5	25.5
Merged-chr13-110561194-4	chr13	110561139	110561339	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	166195.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	8.0	15.0	14.5	255.0	26.0	10.0	15.5	15.5
Merged-chr2-12294279-4	chr2	12294202	12294402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 2 of 29)	intron (NM_001001309, intron 2 of 29)	-6944.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	51.5	52.0	41.0	902.0	88.5	37.5	58.0	62.5
Merged-chr5-147527977-4	chr5	147527870	147528070	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 11 of 18)	intron (NM_028291, intron 11 of 18)	97814.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	24.0	19.5	22.0	415.0	62.0	31.5	20.0	26.0
Merged-chr9-44420324-4	chr9	44420222	44420422	+	741.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5|DNA|TcMar-Tigger	-2253.0	NM_201372	382073.0	Mm.259573	NM_201372	ENSMUSG00000043923	Ccdc84	D630044F24Rik|Gm1114	coiled-coil domain containing 84	protein-coding	6.5	11.0	9.5	79.5	10.5	7.5	4.5	3.5
Merged-chr7-29134910-4	chr7	29134804	29135004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145149)	promoter-TSS (NM_145149)	-29.0	NM_001174155	233046.0	Mm.465324	NM_145149	ENSMUSG00000030589	Rasgrp4	-	RAS guanyl releasing protein 4	protein-coding	43.5	50.0	37.0	293.5	117.5	21.5	37.0	24.5
Merged-chr15-85076506-4	chr15	85076401	85076601	+	827.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080470, intron 19 of 24)	RLTR42-int|LTR|ERVK	33759.0	NM_001356616	73225.0	Mm.247535	NM_133750	ENSMUSG00000022434	Fam118a	-	family with sequence similarity 118, member A	protein-coding	8.5	13.0	7.5	133.0	25.5	10.5	9.5	15.0
Merged-chr3-153408074-4	chr3	153407972	153408172	+	886.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	-109423.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	15.0	10.0	16.5	278.5	31.5	7.0	17.0	22.0
Merged-chr7-16255601-4	chr7	16255510	16255710	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	B3A|SINE|B2	3728.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	21.5	26.5	34.0	338.5	47.0	11.5	19.0	20.5
Merged-chr18-83740694-3	chr18	83740603	83740803	+	943.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	345859.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	6.5	11.0	22.5	379.5	11.5	7.0	8.0	10.5
Merged-chr7-101450584-4	chr7	101450477	101450677	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001143849)	promoter-TSS (NM_001143849)	57.0	NM_001243758	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	13.5	33.5	23.5	212.5	62.0	17.5	10.0	23.0
Merged-chr6-7845785-4	chr6	7845681	7845881	+	928.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_052993, intron 1 of 3)	intron (NM_052993, intron 1 of 3)	557.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	21.0	13.0	12.5	231.0	42.5	14.0	12.0	14.0
Merged-chr12-4840247-4	chr12	4840141	4840341	+	850.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016863, intron 1 of 3)	intron (NM_016863, intron 1 of 3)	1354.0	NM_016863	14226.0	Mm.20453	NM_016863	ENSMUSG00000020635	Fkbp1b	12.6kDa|AW494148|FKBP12.6|calstabin2	FK506 binding protein 1b	protein-coding	16.5	20.0	13.5	291.0	33.5	14.0	8.5	18.0
Merged-chr12-87408085-4	chr12	87407975	87408175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19720.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	47.5	41.0	50.5	710.0	84.5	27.5	70.5	27.0
Merged-chr6-97441648-4	chr6	97441534	97441734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	17652.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	211.5	263.0	167.5	2517.0	338.5	119.5	139.0	159.0
Merged-chr14-65884982-1	chr14	65884882	65885082	+	763.666687	f0_c57.idr	Intergenic	Intergenic	47680.0	NM_145944	67179.0	Mm.214576	NM_145944	ENSMUSG00000022035	Ccdc25	2610528H13Rik|NSrp70	coiled-coil domain containing 25	protein-coding	1.0	3.5	0.0	40.0	35.5	10.5	15.0	8.0
Merged-chr2-83729540-4	chr2	83729444	83729644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 1 of 29)	intron (NM_008402, intron 1 of 29)	5147.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	17.5	53.0	41.5	571.5	192.5	68.0	76.0	63.0
Merged-chr17-87974941-4	chr17	87974830	87975030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010830)	promoter-TSS (NM_010830)	-120.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	206.0	360.0	206.0	3336.5	545.5	188.5	235.5	190.0
Merged-chr17-47766165-4	chr17	47766056	47766256	+	794.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-19588.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	3.5	9.5	2.5	207.0	25.5	6.5	15.5	7.0
Merged-chr8-13105593-4	chr8	13105485	13105685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146207)	promoter-TSS (NM_146207)	-136.0	NM_146207	99375.0	Mm.212861	NM_146207	ENSMUSG00000031446	Cul4a	2810470J21Rik|AW495282	cullin 4A	protein-coding	369.5	602.5	393.5	5196.0	894.5	342.0	396.5	319.0
Merged-chr15-100304848-4	chr15	100304817	100305017	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027334)	promoter-TSS (NM_027334)	100.0	NM_027334	70152.0	Mm.488086	NM_027334	ENSMUSG00000054619	Mettl7a1	2210414H16Rik|3300001H21Rik|Aam-B|Mettl7a|UbiE1	methyltransferase like 7A1	protein-coding	19.0	15.5	10.0	217.5	47.0	8.0	15.0	15.5
Merged-chr1-140175673-4	chr1	140175585	140175785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009888, intron 1 of 21)	intron (NM_009888, intron 1 of 21)	7726.0	NM_009888	12628.0	Mm.8655	NM_009888	ENSMUSG00000026365	Cfh	Mud-1|NOM|Sas-1|Sas1	complement component factor h	protein-coding	45.5	36.5	42.0	818.5	87.5	44.0	68.5	39.5
Merged-chr15-95773664-4	chr15	95773565	95773765	+	967.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-17178.0	NM_175344	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	5.5	21.0	3.5	161.0	61.5	17.5	17.0	19.0
Merged-chr17-56183955-4	chr17	56183830	56184030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080837)	promoter-TSS (NM_080837)	-10.0	NM_080837	28106.0	Mm.294870	NM_080837	ENSMUSG00000019579	Mydgf	D17Wsu104e|Il25|Ly6elg	myeloid derived growth factor	protein-coding	102.0	160.5	52.5	1106.0	261.0	87.0	114.0	96.0
Merged-chr10-128093328-4	chr10	128093233	128093433	+	966.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 1 of 29)	CpG	550.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	11.5	44.0	41.0	236.5	55.0	24.5	10.0	32.0
Merged-chr6-38861084-3	chr6	38861005	38861205	+	906.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 1 of 14)	B4A|SINE|B4	15085.0	NM_010433	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	7.0	3.0	4.0	170.5	16.5	6.0	7.0	7.0
Merged-chr1-171619213-4	chr1	171619117	171619317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-11807.0	NM_001277968	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	107.5	194.0	122.0	1961.0	289.5	91.5	158.0	141.0
Merged-chr12-111557740-4	chr12	111557651	111557851	+	969.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16651.0	NR_045295	100504687.0	Mm.26072	NR_045295	ENSMUSG00000096995	2810029C07Rik	AU017849	RIKEN cDNA 2810029C07 gene	ncRNA	17.0	25.5	13.5	345.5	52.0	29.0	26.5	18.5
Merged-chr1-180432050-4	chr1	180431958	180432158	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081227)	TTS (NM_001081227)	51446.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	12.5	26.5	24.5	265.0	66.5	31.0	32.0	24.0
Merged-chr4-43965166-4	chr4	43965064	43965264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 1 of 4)	intron (NM_027450, intron 1 of 4)	7462.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	49.5	99.0	24.0	346.5	161.0	52.5	44.0	29.0
Merged-chr3-61393185-4	chr3	61393060	61393260	+	970.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	28653.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	20.0	39.0	27.0	299.0	56.5	33.0	13.0	17.5
Merged-chr4-62480615-5	chr4	62480510	62480710	+	958.2999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138653, intron 1 of 6)	intron (NM_138653, intron 1 of 6)	543.0	NM_138653	192120.0	Mm.29808	NM_138653	ENSMUSG00000028392	Bspry	-	B-box and SPRY domain containing	protein-coding	8.0	5.5	10.5	128.5	20.5	1.5	6.0	5.0
Merged-chr13-12121937-4	chr13	12121831	12122031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-14986.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	28.5	51.0	53.5	947.5	105.5	34.5	71.0	63.5
Merged-chr11-103953980-4	chr11	103953873	103954073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008740)	promoter-TSS (NM_008740)	83.0	NM_008740	18195.0	Mm.260117	NM_008740	ENSMUSG00000034187	Nsf	AI316878|AU020090|AU067812|SKD2	N-ethylmaleimide sensitive fusion protein	protein-coding	26.0	33.5	29.5	242.5	44.0	20.5	26.5	24.5
Merged-chr1-54923501-4	chr1	54923356	54923556	+	942.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	MER81|DNA|hAT-Blackjack	2931.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	19.0	16.0	10.5	236.5	25.5	7.0	14.0	8.0
Merged-chr18-83713918-4	chr18	83713763	83713963	+	902.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	372699.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	17.5	18.0	38.0	368.0	12.5	10.0	4.5	11.0
Merged-chr2-60948396-4	chr2	60948281	60948481	+	865.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	14823.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	9.5	19.0	7.5	196.0	27.5	7.0	12.0	11.0
Merged-chr5-64634972-4	chr5	64634885	64635085	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-24286.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	4.0	7.0	21.0	178.5	18.5	10.0	14.5	13.0
Merged-chr17-87636829-3	chr17	87636694	87636894	+	800.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008532, exon 2 of 10)	5' UTR (NM_008532, exon 2 of 10)	815.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	7.0	8.0	6.0	68.5	15.0	1.0	7.0	8.5
Merged-chr6-87552065-3	chr6	87551964	87552164	+	752.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18805.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	2.0	11.0	4.5	53.5	16.0	7.0	12.5	8.0
Merged-chr16-52082061-4	chr16	52081990	52082190	+	933.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	50541.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	16.5	10.0	14.5	275.5	48.0	12.0	18.0	16.5
Merged-chr18-5820440-3	chr18	5820339	5820539	+	976.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227792.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	8.0	13.0	6.0	65.5	38.0	14.0	14.5	11.5
Merged-chr11-109420225-4	chr11	109420120	109420320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5726.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	49.0	80.0	76.5	522.5	81.5	31.0	33.0	50.5
Merged-chr2-28242318-3	chr2	28242214	28242414	+	733.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36625.0	NM_019498	56177.0	Mm.43278	NM_019498	ENSMUSG00000026833	Olfm1	AMY|AW742568|Noe1|OlfA|Pancortin|Pancortin3	olfactomedin 1	protein-coding	9.5	10.0	13.0	79.0	12.0	6.5	11.0	4.0
Merged-chr7-100227421-4	chr7	100227377	100227577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027629)	promoter-TSS (NM_027629)	-130.0	NM_027629	70974.0	Mm.440524	NM_027629	ENSMUSG00000030729	Pgm2l1	4931406N15Rik|AI553438|BM32A	phosphoglucomutase 2-like 1	protein-coding	40.5	97.5	81.5	542.5	82.0	51.0	31.5	56.0
Merged-chr5-100624964-4	chr5	100624844	100625044	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49312.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	17.0	19.5	18.5	240.5	63.0	14.0	17.5	19.0
Merged-chr4-134946170-3	chr4	134946069	134946269	+	869.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	15189.0	NM_026780	68592.0	Mm.29989	NM_026780	ENSMUSG00000028821	Syf2	1110018L13Rik|Cbpin|D4Bwg1551e|Gcipip|Ntc31|mp29|p29	SYF2 homolog, RNA splicing factor (S. cerevisiae)	protein-coding	2.5	13.5	3.5	41.0	20.0	12.5	10.5	9.0
Merged-chr4-3607415-4	chr4	3607309	3607509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054089, intron 12 of 12)	intron (NM_054089, intron 12 of 12)	32530.0	NM_054089	116940.0	Mm.171323	NM_054089	ENSMUSG00000028233	Tgs1	D4Ertd800e|Ncoa6ip|Pimt	trimethylguanosine synthase 1	protein-coding	34.5	61.5	19.0	523.0	139.5	40.5	42.5	62.0
Merged-chr13-101768794-2	chr13	101768694	101768894	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077495)	promoter-TSS (NM_001077495)	-577.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	17.5	28.0	21.5	430.5	72.0	16.0	33.5	24.0
Merged-chr5-25011289-4	chr5	25011210	25011410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 3 of 15)	intron (NM_145401, intron 3 of 15)	-15557.0	NM_001310480	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	30.0	45.0	19.0	493.5	107.0	35.5	34.5	38.0
Merged-chr12-52424805-4	chr12	52424691	52424891	+	977.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55818.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	36.0	18.5	19.0	690.5	46.5	13.5	17.0	18.0
Merged-chr5-5275506-4	chr5	5275397	5275597	+	817.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	-9429.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	9.5	15.0	7.5	101.0	28.5	25.0	8.0	7.0
Merged-chr19-36349148-7	chr19	36348941	36349141	+	990.693848	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-30026.0	NM_029508	76073.0	Mm.259180	NM_029508	ENSMUSG00000024805	Pcgf5	0610009F02Rik|1110054A01Rik|5830406C17Rik|5830443C21Rik|9530023M17Rik|AI324127	polycomb group ring finger 5	protein-coding	14.0	15.0	21.0	174.5	29.5	9.5	12.5	20.0
Merged-chr11-51916235-4	chr11	51916152	51916352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51379.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	134.0	115.0	106.0	1626.5	222.5	75.0	104.5	85.0
Merged-chr11-22858684-2	chr11	22858584	22858784	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	1051.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	10.0	17.5	17.5	149.0	17.0	8.5	9.5	3.0
Merged-chr7-67372858-4	chr7	67372768	67372968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291191)	promoter-TSS (NM_001291191)	-10.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	76.5	109.5	56.5	942.5	263.0	101.5	106.5	87.5
Merged-chr5-123076760-2	chr5	123076660	123076860	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039723, intron 1 of 11)	CpG	485.0	NM_001039723	330189.0	Mm.391872	NM_001039723	ENSMUSG00000054434	Tmem120b	-	transmembrane protein 120B	protein-coding	3.0	4.0	1.5	57.5	11.5	8.5	5.0	8.5
Merged-chr12-16589787-4	chr12	16589695	16589895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172950)	promoter-TSS (NM_172950)	-25.0	NM_172950	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	65.5	66.5	40.5	637.5	96.0	36.0	45.0	31.5
Merged-chr13-105198219-2	chr13	105198123	105198323	+	889.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 5 of 7)	Lx2|LINE|L1	94791.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	0.0	0.5	0.5	0.0	15.0	7.0	20.5	10.0
Merged-chr8-111546455-3	chr8	111546364	111546564	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	intron (NM_001168623, intron 1 of 4)	8121.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	15.5	28.0	19.0	156.0	3.0	3.0	4.0	3.5
Merged-chr6-56923920-4	chr6	56923844	56924044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026004)	promoter-TSS (NM_026004)	-12.0	NM_001360963	107569.0	Mm.158936	NM_026004	ENSMUSG00000029780	Nt5c3	1600024P05Rik|2610206B05Rik|3110004A18Rik|AI842776|Nt5c3a|Nt5y|P5'N-1|P5N-1|PN-1|PN-I|PSN1|UMPH|Umph-1|Umph1|cN-III|lupin|p36	5'-nucleotidase, cytosolic III	protein-coding	272.5	361.0	248.0	3776.5	635.0	203.5	300.5	251.5
Merged-chr1-107564841-4	chr1	107564751	107564951	+	952.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B|LTR|ERVK	-25155.0	NM_011459	20725.0	Mm.83909	NM_011459	ENSMUSG00000026315	Serpinb8	CAP-2|CAP2|NK10|Spi8|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 8	protein-coding	15.5	26.0	12.5	334.5	44.0	6.5	25.5	12.0
Merged-chr17-47688998-4	chr17	47688947	47689147	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025365)	promoter-TSS (NM_025365)	-661.0	NM_001164729	66119.0	Mm.89912	NM_025365	ENSMUSG00000033475	Tomm6	1110002E23Rik|AI663970	translocase of outer mitochondrial membrane 6	protein-coding	14.0	37.5	9.5	220.5	34.0	14.5	14.5	14.5
Merged-chr12-24592535-4	chr12	24592427	24592627	+	850.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145890, intron 6 of 13)	intron (NM_145890, intron 6 of 13)	11808.0	NM_145890	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	5.0	32.5	10.0	139.5	30.5	10.0	11.5	9.5
Merged-chr4-43478353-4	chr4	43478245	43478445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5364.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	45.0	69.5	26.0	651.0	177.0	42.0	79.5	74.5
Merged-chr16-97851592-11	chr16	97851498	97851698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144789)	promoter-TSS (NM_144789)	252.0	NM_001359078	114604.0	Mm.328741	NM_144789	ENSMUSG00000014039	Prdm15	C21orf83|E130018M06Rik|ORF62|Zfp298	PR domain containing 15	protein-coding	53.5	64.0	33.5	644.5	179.5	62.5	95.5	56.5
Merged-chr7-122219529-4	chr7	122219377	122219577	+	904.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027363)	promoter-TSS (NM_027363)	-19.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	10.5	14.5	19.0	269.5	18.0	10.5	5.0	8.5
Merged-chr14-25858147-3	chr14	25858058	25858258	+	801.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013469, intron 1 of 14)	intron (NM_013469, intron 1 of 14)	16003.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	12.0	4.5	12.0	119.0	32.5	6.5	2.5	3.0
Merged-chr2-165873918-4	chr2	165873783	165873983	+	760.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 2 of 11)	intron (NM_001252587, intron 2 of 11)	4554.0	NM_001291158	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	8.5	13.5	7.0	33.5	20.5	12.5	7.0	6.0
Merged-chr16-95701951-4	chr16	95701860	95702060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011809)	promoter-TSS (NM_011809)	-447.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	93.0	153.5	85.0	1355.0	217.5	82.5	131.5	85.0
Merged-chr14-72783396-4	chr14	72783290	72783490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73387.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	38.5	52.5	54.0	565.0	70.0	22.0	49.5	44.0
Merged-chr10-77517195-4	chr10	77517092	77517292	+	983.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1379.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	24.0	26.5	13.0	295.0	55.0	20.0	20.0	26.5
Merged-chr9-37347250-4	chr9	37347144	37347344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081429, intron 2 of 15)	intron (NM_001081429, intron 2 of 15)	1148.0	NM_001081429	245902.0	Mm.390150	NM_001081429	ENSMUSG00000034303	Ccdc15	A630039F14Rik|D030074L19	coiled-coil domain containing 15	protein-coding	20.0	26.0	18.0	292.0	55.0	24.5	21.0	26.0
Merged-chr13-43786464-4	chr13	43786361	43786561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	1349.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	81.5	151.5	88.5	1204.5	220.0	92.5	89.5	86.0
Merged-chr2-154314063-4	chr2	154313974	154314174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001025574, exon 7 of 15)	exon (NM_001025574, exon 7 of 15)	6830.0	NM_001025574	433492.0	Mm.330682	NM_001025574	ENSMUSG00000067996	Bpifb9b	5430413K10Rik|AI413838	BPI fold containing family B, member 9B	protein-coding	108.0	114.0	95.5	623.0	93.0	50.5	46.0	63.5
Merged-chr5-32133184-4	chr5	32133094	32133294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3278.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	39.0	31.0	33.5	328.0	64.0	36.0	32.5	37.5
Merged-chr8-41019454-4	chr8	41019332	41019532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015457, intron 1 of 2)	intron (NR_015457, intron 1 of 2)	1964.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	41.5	36.5	36.5	294.0	96.5	32.0	26.0	36.5
Merged-chr3-93520325-1	chr3	93520225	93520425	+	808.333313	f0_balb.idr	promoter-TSS (NM_016740)	promoter-TSS (NM_016740)	-171.0	NM_016740	20195.0	Mm.280038	NM_016740	ENSMUSG00000027907	S100a11	EMAPI|Emap1|S100a14|S100c|cal	S100 calcium binding protein A11	protein-coding	8.5	12.0	12.0	176.0	4.5	5.0	1.5	5.5
Merged-chr10-7057747-3	chr10	7057651	7057851	+	648.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34566.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	20.0	14.0	7.0	131.5	6.5	3.5	7.0	3.5
Merged-chr1-171554116-1	chr1	171554016	171554216	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-5077.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	22.5	35.0	24.0	275.5	5.0	2.0	1.0	0.5
Merged-chr4-15269730-4	chr4	15269581	15269781	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181401, intron 1 of 2)	intron (NM_181401, intron 1 of 2)	3861.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	9.5	10.0	26.0	310.5	22.0	12.0	8.5	11.0
Merged-chr4-134929429-1	chr4	134929329	134929529	+	581.0	f0_c57.idr	Intergenic	Intergenic	-1551.0	NM_026780	68592.0	Mm.29989	NM_026780	ENSMUSG00000028821	Syf2	1110018L13Rik|Cbpin|D4Bwg1551e|Gcipip|Ntc31|mp29|p29	SYF2 homolog, RNA splicing factor (S. cerevisiae)	protein-coding	8.0	5.5	4.5	71.5	16.5	10.5	3.5	15.0
Merged-chr5-32134579-2	chr5	32134479	32134679	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-1893.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	9.0	7.0	8.0	76.5	13.0	3.5	9.0	19.5
Merged-chr12-3892123-4	chr12	3892000	3892200	+	910.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 1 of 17)	intron (NM_153743, intron 1 of 17)	356.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	8.0	14.5	13.0	184.5	35.0	8.0	6.5	15.0
Merged-chr12-32820262-4	chr12	32820167	32820367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021524)	promoter-TSS (NM_021524)	-68.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	356.0	575.0	347.5	4344.5	933.5	435.5	407.0	355.0
Merged-chr9-58275318-4	chr9	58275219	58275419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22155.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	246.0	398.0	211.5	2746.5	567.0	217.0	222.0	215.5
Merged-chr7-141057206-4	chr7	141057101	141057301	+	958.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4073.0	NM_177897	330671.0	Mm.133741	NM_177897	ENSMUSG00000055629	B4galnt4	BC038881|Gm1095|beta4GalNAcT4	beta-1,4-N-acetyl-galactosaminyl transferase 4	protein-coding	8.0	23.5	9.5	397.5	87.0	18.0	50.5	44.0
Merged-chr10-95298027-4	chr10	95297916	95298116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	25693.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	73.0	74.5	70.5	1021.5	165.5	59.0	68.0	63.5
Merged-chr17-43581358-5	chr17	43581305	43581505	+	818.34668	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	10104.0	NR_045445	73504.0	Mm.9277	NR_045444	ENSMUSG00000090307	1700071M16Rik	-	RIKEN cDNA 1700071M16 gene	ncRNA	7.0	8.0	9.5	106.5	22.5	3.0	7.0	7.5
Merged-chr10-96875903-4	chr10	96875804	96876004	+	943.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-159864.0	NR_045358	75301.0	Mm.108650	NR_045358	ENSMUSG00000111924	4930556N09Rik	-	RIKEN cDNA 4930556N09 gene	ncRNA	37.5	37.5	39.0	396.5	29.0	12.0	20.5	13.0
Merged-chr19-55299556-4	chr19	55299455	55299655	+	855.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360595, intron 9 of 9)	intron (NM_001360595, intron 9 of 9)	16481.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	3.5	15.5	11.0	105.0	29.5	8.5	9.5	5.0
Merged-chr13-102717208-4	chr13	102717093	102717293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23635.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	28.5	38.5	36.5	640.0	91.0	21.0	33.0	31.5
Merged-chr9-96478678-4	chr9	96478572	96478772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011279)	promoter-TSS (NM_011279)	3.0	NM_011279	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	135.0	164.5	95.0	1413.0	316.0	148.5	157.0	123.0
Merged-chr10-75859633-3	chr10	75859527	75859727	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010798, intron 2 of 2)	intron (NM_010798, intron 2 of 2)	623.0	NM_010798	17319.0	Mm.2326	NM_010798	ENSMUSG00000033307	Mif	GIF|Glif	macrophage migration inhibitory factor (glycosylation-inhibiting factor)	protein-coding	13.0	34.0	30.5	211.5	43.0	10.0	23.5	24.0
Merged-chr1-171699207-3	chr1	171699117	171699317	+	800.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360767, intron 2 of 2)	intron (NM_001360767, intron 2 of 2)	17225.0	NM_001360767	12506.0	Mm.1738	NM_007649	ENSMUSG00000015355	Cd48	AI449234|AW610730|BCM1|BLAST|BLAST-1|BLAST1|Bcm-1|MEM-102|SLAMF2|Sgp-60	CD48 antigen	protein-coding	5.5	9.0	1.5	48.5	22.5	12.5	7.0	9.0
Merged-chr10-80696121-4	chr10	80696015	80696215	+	963.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	5705.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	22.0	32.0	5.0	211.5	48.0	20.0	24.0	10.0
Merged-chr4-41353485-4	chr4	41353376	41353576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355508, exon 1 of 7)	5' UTR (NM_001355508, exon 1 of 7)	1513.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	37.0	45.0	26.5	387.5	121.5	49.5	36.5	42.5
Merged-chr13-4942701-1	chr13	4942601	4942801	+	1000.0	f0_c57.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	-333537.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	0.0	0.0	0.0	4.5	67.5	30.5	29.5	29.5
Merged-chr2-17740457-4	chr2	17740350	17740550	+	820.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9382.0	NM_028757	74103.0	Mm.120298	NM_028757	ENSMUSG00000053702	Nebl	1200007O21Rik|A630080F05Rik|BB140644|D830029A09Rik|Lnebl	nebulette	protein-coding	5.0	4.5	8.5	86.5	18.5	6.0	11.5	15.5
Merged-chr4-149773688-3	chr4	149773602	149773802	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027460, intron 1 of 6)	CpG	565.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	14.5	43.0	26.5	326.0	77.0	28.5	23.0	30.0
Merged-chr4-62286503-4	chr4	62286407	62286607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025286)	promoter-TSS (NM_025286)	78.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	76.0	119.5	97.5	927.5	189.5	83.5	72.0	76.0
Merged-chr14-64440735-4	chr14	64440661	64440861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026322, exon 6 of 11)	exon (NM_026322, exon 6 of 11)	265.0	NM_001253715	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	64.5	97.0	89.5	855.0	108.0	53.0	64.0	68.0
Merged-chr14-65102226-4	chr14	65102113	65102313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4107.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	23.5	47.0	23.0	612.0	112.0	46.0	44.0	35.5
Merged-chr8-33271946-3	chr8	33271854	33272054	+	863.861145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011721, intron 23 of 33)	intron (NM_011721, intron 23 of 33)	113573.0	NM_001122822	22427.0	Mm.228805	NM_011721	ENSMUSG00000031583	Wrn	AI846146	Werner syndrome RecQ like helicase	protein-coding	7.5	13.0	7.0	202.0	17.5	10.0	9.5	12.0
Merged-chr8-46130580-2	chr8	46130480	46130680	+	830.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6434.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	8.5	8.0	4.5	60.5	12.5	2.0	5.0	7.5
Merged-chr2-70877537-4	chr2	70877410	70877610	+	992.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52030.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	16.0	12.5	22.5	290.0	19.0	19.5	20.0	21.5
Merged-chr10-78471124-4	chr10	78471003	78471203	+	967.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6155.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	25.5	37.5	30.5	413.5	32.0	15.0	12.5	38.0
Merged-chr5-112343141-4	chr5	112342997	112343197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027323)	promoter-TSS (NM_027323)	2.0	NM_138646	192232.0	Mm.238043	NM_138646	ENSMUSG00000042328	Hps4	2010205O06Rik|AU040608|BLOC-3|C130020P05Rik|le|mKIAA1667	HPS4, biogenesis of lysosomal organelles complex 3 subunit 2	protein-coding	56.0	75.0	15.5	675.5	128.5	51.5	51.0	65.5
Merged-chr18-78014925-4	chr18	78014870	78015070	+	890.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 32 of 43)	intron (NM_001195633, intron 32 of 43)	42298.0	NM_001101038	620235.0	Mm.35607	NM_001101038	ENSMUSG00000091055	Siglec15	Cd33l3|EG620235|SIGLEC-I	sialic acid binding Ig-like lectin 15	protein-coding	7.0	21.0	11.5	134.0	7.5	9.0	9.0	12.5
Merged-chr10-43846384-4	chr10	43846276	43846476	+	741.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20469.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	7.5	8.0	8.5	104.5	39.0	5.5	8.5	10.5
Merged-chr4-137730294-4	chr4	137730203	137730403	+	885.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001331215)	TTS (NM_001331215)	5842.0	NR_138592	110351.0	Mm.180763	NM_029563	ENSMUSG00000041351	Rap1gap	1300019I11Rik|2310004O14Rik|AI427470|ARPP-90|Gap|Rap1GAP1|Rap1ga1	Rap1 GTPase-activating protein	protein-coding	8.5	15.5	5.0	214.0	37.0	17.0	12.0	32.5
Merged-chr3-152261502-4	chr3	152261414	152261614	+	886.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199465, intron 1 of 12)	intron (NM_199465, intron 1 of 12)	4281.0	NM_001357206	68810.0	Mm.200188	NM_199465	ENSMUSG00000039103	Nexn	1110046H09Rik|AA553326|NELIN	nexilin	protein-coding	9.5	11.0	8.0	216.0	17.5	4.5	3.5	7.0
Merged-chr2-57115395-4	chr2	57115290	57115490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013613)	promoter-TSS (NM_013613)	-352.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	21.0	40.0	17.5	213.0	84.0	17.5	31.5	35.0
Merged-chr11-76677227-4	chr11	76677121	76677321	+	870.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2652.0	NM_177709	237858.0	Mm.127006	NM_177709	ENSMUSG00000046275	Tusc5	C130069F04Rik|DSPB1|Lost1	tumor suppressor candidate 5	protein-coding	7.0	16.5	5.5	142.0	29.0	12.5	9.5	14.5
Merged-chr6-131247424-4	chr6	131247337	131247537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170851)	promoter-TSS (NM_001170851)	-75.0	NM_008462	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	113.0	155.0	94.5	1922.5	232.5	87.5	92.5	75.0
Merged-chr11-98775422-4	chr11	98775324	98775524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145434)	promoter-TSS (NM_145434)	-47.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	137.0	228.0	93.5	1313.5	270.5	130.0	85.5	88.0
Merged-chr2-91265743-2	chr2	91265698	91265898	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023854, intron 2 of 15)	intron (NM_023854, intron 2 of 15)	683.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	3.0	2.0	1.5	44.5	9.5	10.0	5.0	8.0
Merged-chr3-142499243-4	chr3	142499153	142499353	+	848.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153564, intron 1 of 10)	intron (NM_153564, intron 1 of 10)	2319.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	9.0	15.5	1.0	39.0	34.0	12.0	5.5	7.5
Merged-chr19-61059191-2	chr19	61059092	61059292	+	629.333374	f0_c57.idr|f1_c57bl6.idr	intron (NR_131953, intron 3 of 6)	RLTR12B|LTR|ERVK	81648.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	4.0	6.0	3.0	47.0	28.5	7.5	10.5	6.5
Merged-chr15-53128766-3	chr15	53128667	53128867	+	607.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	217416.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	6.0	6.0	8.5	83.5	20.0	2.5	6.5	12.5
Merged-chr4-134490197-3	chr4	134490095	134490295	+	945.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	-6566.0	NM_001285845	71904.0	Mm.142343	NM_027995	ENSMUSG00000037348	Paqr7	2310021M12Rik|AV001994|BB007237|Mpra|PGLP|mPR	progestin and adipoQ receptor family member VII	protein-coding	12.0	14.5	22.0	151.0	13.0	3.5	6.0	9.0
Merged-chr4-155847812-2	chr4	155847712	155847912	+	995.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_010091, exon 1 of 15)	exon (NM_010091, exon 1 of 15)	410.0	NM_001356381	13542.0	Mm.3400	NM_010091	ENSMUSG00000029071	Dvl1	Dvl|mKIAA4029	dishevelled segment polarity protein 1	protein-coding	4.5	8.0	8.0	115.5	25.0	7.0	6.5	10.5
Merged-chr7-120098057-4	chr7	120097903	120098103	+	712.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4423.0	NM_145586	233806.0	Mm.257952	NM_145586	ENSMUSG00000030917	Tmem159	8430420C20Rik	transmembrane protein 159	protein-coding	3.0	7.5	9.0	86.0	12.5	8.5	10.5	4.5
Merged-chr9-41068081-4	chr9	41067983	41068183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	MLT1E3|LTR|ERVL-MaLR	11423.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	48.5	58.0	50.0	1001.0	68.5	25.0	22.0	28.0
Merged-chr5-35584438-4	chr5	35584331	35584531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030721, intron 2 of 18)	intron (NM_030721, intron 2 of 18)	1397.0	NM_030721	80911.0	Mm.291503	NM_030721	ENSMUSG00000029098	Acox3	BI685180|EST-s59|PCOX	acyl-Coenzyme A oxidase 3, pristanoyl	protein-coding	50.5	99.5	42.5	479.5	122.5	55.5	44.0	72.5
Merged-chr13-78210999-3	chr13	78210845	78211045	+	837.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045195, intron 1 of 2)	intron (NR_045195, intron 1 of 2)	-12072.0	NM_010151	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	7.0	6.0	8.0	80.5	12.0	2.5	2.0	10.0
Merged-chr8-35826048-2	chr8	35825948	35826148	+	802.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_027998, exon 1 of 1)	exon (NM_027998, exon 1 of 1)	511.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	6.5	8.5	8.5	49.0	8.5	4.5	3.0	6.0
Merged-chr4-86667796-3	chr4	86667679	86667879	+	686.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007408, intron 3 of 7)	intron (NM_007408, intron 3 of 7)	2280.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	6.0	16.0	12.5	36.5	11.0	5.0	1.0	1.0
Merged-chr4-150316751-3	chr4	150316646	150316846	+	779.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	MIRb|SINE|MIR	34830.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	9.0	12.0	6.0	97.5	10.0	5.0	11.0	4.0
Merged-chr11-107470285-2	chr11	107470185	107470385	+	1000.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153311, exon 1 of 10)	non-coding (NR_153311, exon 1 of 10)	435.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	13.0	17.0	16.5	125.5	29.5	13.0	13.5	20.5
Merged-chr14-47377145-4	chr14	47377019	47377219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145953, intron 1 of 5)	MIRc|SINE|MIR	3259.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	26.0	45.0	78.5	1020.5	75.5	20.5	48.0	44.5
Merged-chr2-60089340-4	chr2	60089238	60089438	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	36402.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	33.5	56.5	24.0	388.5	91.0	31.0	41.0	15.5
Merged-chr10-82909493-4	chr10	82909385	82909585	+	809.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42859.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	16.5	8.5	5.5	98.5	35.5	12.0	9.0	6.0
Merged-chr1-132390871-3	chr1	132390763	132390963	+	762.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311107)	promoter-TSS (NM_001311107)	523.0	NM_178874	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	13.5	12.0	14.0	160.0	9.5	5.5	3.0	11.0
Merged-chr7-27577134-4	chr7	27577019	27577219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175107, intron 8 of 9)	Lx8|LINE|L1	-14433.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	28.0	31.5	15.0	330.5	159.0	49.0	75.5	70.0
Merged-chr2-90474986-4	chr2	90474884	90475084	+	989.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001135657, exon 2 of 26)	exon (NM_001135657, exon 2 of 26)	4190.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	12.5	20.5	4.0	204.5	39.5	29.0	22.0	9.5
Merged-chr15-36608515-4	chr15	36608422	36608622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008774, exon 1 of 15)	5' UTR (NM_008774, exon 1 of 15)	451.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	13.5	29.5	40.0	301.0	54.5	37.0	29.0	36.5
Merged-chr15-89591900-4	chr15	89591776	89591976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026817)	promoter-TSS (NM_026817)	47.0	NM_026817	68708.0	Mm.23258	NM_026817	ENSMUSG00000022621	Rabl2	1110031N17Rik|AW549303|Rabl2a	RAB, member RAS oncogene family-like 2	protein-coding	30.5	26.0	51.5	370.5	73.0	24.0	48.5	51.5
Merged-chr14-26466128-4	chr14	26466028	26466228	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 5 of 22)	intron (NM_001310445, intron 5 of 22)	68496.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	19.0	27.5	18.0	239.0	34.5	16.0	7.5	7.5
Merged-chr7-141901831-2	chr7	141901731	141901931	+	800.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347562, intron 1 of 6)	intron (NM_001347562, intron 1 of 6)	630.0	NM_023764	54473.0	Mm.103551	NM_023764	ENSMUSG00000025139	Tollip	4930403G24Rik|4931428G15Rik	toll interacting protein	protein-coding	7.0	3.5	2.0	69.5	7.0	5.5	5.5	5.0
Merged-chr15-6591623-1	chr15	6591523	6591723	+	693.0	f0_balb.idr	intron (NM_011815, intron 1 of 17)	intron (NM_011815, intron 1 of 17)	11776.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	8.0	11.5	6.0	102.0	11.0	5.0	5.0	9.0
Merged-chr6-122562683-3	chr6	122562588	122562788	+	800.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009645, exon 5 of 5)	3' UTR (NM_009645, exon 5 of 5)	8879.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	6.5	8.5	2.5	110.5	24.5	14.0	6.5	10.5
Merged-chr2-11739755-4	chr2	11739644	11739844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34032.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	153.5	216.0	224.0	2743.5	333.5	127.0	175.5	163.0
Merged-chr10-80598197-4	chr10	80598112	80598312	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-4668.0	NM_001100606	100113398.0	Mm.273170	NM_001100606	ENSMUSG00000113640	Adat3	A430024H01Rik	adenosine deaminase, tRNA-specific 3	protein-coding	14.0	29.5	11.0	189.0	66.0	29.5	18.0	31.5
Merged-chr11-116658009-4	chr11	116657906	116658106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163318, intron 2 of 4)	intron (NM_001163318, intron 2 of 4)	898.0	NM_001163318	100038570.0	Mm.390349	NM_001163318	ENSMUSG00000075410	Prcd	Gm11744	photoreceptor disc component	protein-coding	69.5	83.0	47.5	757.5	154.5	53.5	55.0	46.5
Merged-chr17-87275541-4	chr17	87275425	87275625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015506, intron 4 of 4)	intron (NR_015506, intron 4 of 4)	7289.0	NR_015506	74597.0	Mm.63783	NR_015506	ENSMUSG00000085287	4833418N02Rik	-	RIKEN cDNA 4833418N02 gene	ncRNA	89.0	162.0	65.0	1098.5	189.0	73.5	65.0	77.0
Merged-chr2-69713546-4	chr2	69713428	69713628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177244)	promoter-TSS (NM_177244)	-922.0	NM_177244	320720.0	Mm.289566	NM_177244	ENSMUSG00000027086	Fastkd1	5330408N05Rik|mKIAA1800	FAST kinase domains 1	protein-coding	83.0	94.0	78.5	1366.0	158.5	57.0	146.0	90.0
Merged-chr8-70608403-4	chr8	70608316	70608516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133772)	promoter-TSS (NM_133772)	-102.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	32.5	32.5	18.0	343.0	77.0	47.5	36.5	41.5
Merged-chr13-34089258-4	chr13	34089216	34089416	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046184, intron 3 of 4)	intron (NR_046184, intron 3 of 4)	-11308.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	10.5	13.0	24.5	175.5	34.0	11.0	30.0	16.5
Merged-chr6-120090663-4	chr6	120090562	120090762	+	847.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2718.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	16.5	20.0	8.0	177.5	31.5	13.0	6.0	6.5
Merged-chr19-58983765-2	chr19	58983665	58983865	+	624.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175172, intron 14 of 14)	B4A|SINE|B4	-40093.0	NM_001327998	73442.0	Mm.39739	NM_175199	ENSMUSG00000025092	Hspa12a	1700063D12Rik|AI118035|AI840429|AW048913|AW556406|D5Mgi40|Gm19925|mKIAA0417	heat shock protein 12A	protein-coding	9.0	6.0	5.5	16.5	27.5	4.0	4.5	4.5
Merged-chr11-109860263-1	chr11	109860163	109860363	+	589.0	f0_c57.idr	Intergenic	Intergenic	14385.0	NR_045909	73257.0	Mm.250442	NR_045909	ENSMUSG00000087393	1700023C21Rik	-	RIKEN cDNA 1700023C21 gene	ncRNA	3.0	2.5	3.5	38.5	19.5	10.0	7.5	11.5
Merged-chr13-55205255-4	chr13	55205155	55205355	+	951.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-4527.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	8.5	30.5	8.5	281.0	48.0	15.0	16.0	33.0
Merged-chr6-127447791-4	chr6	127447684	127447884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346513, intron 1 of 5)	intron (NM_001346513, intron 1 of 5)	944.0	NM_001346513	101187.0	Mm.110818	NM_181402	ENSMUSG00000037997	Parp11	5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11	poly (ADP-ribose) polymerase family, member 11	protein-coding	23.0	42.5	15.5	296.5	83.0	31.0	26.5	20.5
Merged-chr5-136088024-4	chr5	136087931	136088131	+	989.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	intron (NM_001039103, intron 1 of 19)	4115.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	33.5	68.0	14.5	220.5	62.0	24.5	19.5	8.5
Merged-chr12-34449546-4	chr12	34449432	34449632	+	943.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 4 of 27)	intron (NM_001271386, intron 4 of 27)	79357.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	22.5	22.5	29.0	476.5	50.0	6.0	16.5	12.0
Merged-chr19-42080163-4	chr19	42080080	42080280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198108, intron 1 of 4)	MLT1H|LTR|ERVL-MaLR	6190.0	NM_198108	226123.0	Mm.259441	NM_198108	ENSMUSG00000049670	Morn4	-	MORN repeat containing 4	protein-coding	48.0	58.0	63.5	662.0	51.0	25.0	19.0	40.5
Merged-chr5-122344484-2	chr5	122344384	122344584	+	892.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_144912, intron 4 of 10)	intron (NM_144912, intron 4 of 10)	9711.0	NM_144912	231724.0	Mm.255587	NM_144912	ENSMUSG00000038569	Rad9b	A630082N15Rik|BC021784	RAD9 checkpoint clamp component B	protein-coding	20.0	10.0	5.5	75.5	26.5	7.0	6.0	7.5
Merged-chr19-32276454-2	chr19	32276354	32276554	+	886.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001168525, intron 2 of 9)	intron (NM_001168525, intron 2 of 9)	-65441.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	5.0	5.0	4.5	95.5	5.0	3.0	3.0	5.5
Merged-chr7-45370246-2	chr7	45370146	45370346	+	705.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011698, intron 1 of 5)	CpG-13114	318.0	NM_011698	22342.0	Mm.20472	NM_011698	ENSMUSG00000003872	Lin7b	LIN-7B|MALS-2|Veli2	lin-7 homolog B (C. elegans)	protein-coding	6.0	13.0	12.0	68.0	14.5	10.5	4.5	13.5
Merged-chr1-166153579-4	chr1	166153451	166153651	+	738.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021610, intron 3 of 6)	intron (NM_021610, intron 3 of 6)	23330.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	8.0	3.5	8.5	137.5	20.5	8.0	14.0	14.0
Merged-chr13-21402652-4	chr13	21402552	21402752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145778, intron 1 of 5)	CpG	103.0	NM_001145778	72739.0	Mm.296071	NM_023685	ENSMUSG00000021327	Zkscan3	2810435N07Rik|AA408594|AI132359|Skz1|Zf47|Zfp-47|Zfp306|Zfp307|mszf35	zinc finger with KRAB and SCAN domains 3	protein-coding	47.0	94.0	118.0	908.5	100.5	57.0	48.5	52.5
Merged-chr3-75556915-4	chr3	75556774	75556974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019745)	promoter-TSS (NM_019745)	-22.0	NM_019745	56426.0	Mm.316473	NM_019745	ENSMUSG00000027835	Pdcd10	2410003B13Rik|Ccm3|Tfa15|Tfar15	programmed cell death 10	protein-coding	247.5	359.0	246.5	4387.5	707.5	310.0	321.5	264.5
Merged-chr7-125555212-2	chr7	125555099	125555299	+	987.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	MIRc|SINE|MIR	2917.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	8.5	9.0	3.5	45.5	12.5	6.0	5.0	7.0
Merged-chr1-74375553-1	chr1	74375453	74375653	+	1000.0	f0_balb.idr	intron (NM_013612, intron 1 of 14)	intron (NM_013612, intron 1 of 14)	350.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	56.0	96.5	38.5	795.5	177.0	57.0	86.0	82.5
Merged-chr15-79446011-4	chr15	79445910	79446110	+	842.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3867.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	14.5	11.0	10.5	130.5	29.5	15.0	13.5	7.5
Merged-chr2-120660668-4	chr2	120660561	120660761	+	759.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51066.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	7.5	7.5	7.5	137.5	20.0	8.5	10.5	20.5
Merged-chr10-121516432-4	chr10	121516323	121516523	+	995.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40173.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	33.0	27.0	15.0	343.0	62.0	18.5	31.0	28.0
Merged-chr7-19748092-2	chr7	19747992	19748192	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008990, intron 1 of 8)	intron (NM_008990, intron 1 of 8)	1481.0	NM_008990	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	11.5	5.5	7.0	41.0	3.5	5.0	4.5	9.5
Merged-chr18-55146887-4	chr18	55146782	55146982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-154291.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	38.5	29.0	54.5	913.5	100.0	36.5	65.0	52.5
Merged-chr15-50869673-4	chr15	50869574	50869774	+	976.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	CpG	19375.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	18.0	26.0	27.0	240.0	32.0	14.5	18.0	8.0
Merged-chr10-58382155-4	chr10	58382066	58382266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201242, intron 1 of 9)	intron (NM_201242, intron 1 of 9)	10712.0	NM_201242	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	21.0	65.5	51.0	743.5	97.5	12.5	26.0	29.0
Merged-chr10-62507872-4	chr10	62507781	62507981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011157)	promoter-TSS (NM_011157)	-124.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	130.5	210.0	124.0	1773.0	405.0	156.0	138.5	117.5
Merged-chr2-77282342-4	chr2	77282264	77282464	+	852.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1772.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	16.0	14.0	10.0	300.0	65.0	8.5	11.5	11.5
Merged-chr10-119050493-4	chr10	119050387	119050587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152787)	promoter-TSS (NR_152787)	12.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	29.0	26.5	22.0	543.5	73.0	20.0	8.5	21.0
Merged-chr5-45669815-4	chr5	45669699	45669899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019438)	promoter-TSS (NM_019438)	-91.0	NR_073433	69788.0	Mm.381492	NR_073433	ENSMUSG00000104986	1600023N17Rik	AV119442	RIKEN cDNA 1600023N17 gene	ncRNA	294.5	364.0	208.0	4324.0	603.5	185.5	289.0	156.5
Merged-chr2-164455049-4	chr2	164454944	164455144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5927.0	NM_025575	66460.0	Mm.44218	NM_025575	ENSMUSG00000045503	Sys1	2610042O14Rik|AI266964|C87389	SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae)	protein-coding	158.5	272.5	125.5	1614.0	319.0	148.5	127.0	120.0
Merged-chr6-100357163-4	chr6	100357043	100357243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-69785.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	74.0	110.5	52.5	1148.0	155.0	61.5	70.0	77.0
Merged-chr7-114874180-3	chr7	114874045	114874245	+	884.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74505.0	NR_040317	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	1.0	2.0	4.5	96.0	10.0	5.5	9.5	7.5
Merged-chr18-64618937-4	chr18	64618881	64619081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001488, intron 1 of 27)	intron (NM_001001488, intron 1 of 27)	42019.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	50.5	107.5	83.5	835.0	60.0	26.5	21.0	30.0
Merged-chr7-19306018-2	chr7	19305918	19306118	+	928.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347586, intron 3 of 4)	intron (NM_001347586, intron 3 of 4)	4027.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	5.5	8.0	2.5	67.0	21.0	13.0	5.5	5.0
Merged-chr8-120509391-4	chr8	120509382	120509582	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	intron (NM_198671, intron 1 of 15)	20616.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	19.5	38.0	11.5	275.0	47.5	21.0	14.0	14.5
Merged-chr11-110244885-3	chr11	110244803	110245003	+	895.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166557, intron 5 of 6)	MLT1A1|LTR|ERVL-MaLR	6873.0	NM_147218	76184.0	Mm.159704	NM_147218	ENSMUSG00000044749	Abca6	6330565N06Rik	ATP-binding cassette, sub-family A (ABC1), member 6	protein-coding	29.5	17.5	32.0	224.0	16.0	13.5	10.5	11.5
Merged-chr6-146141425-4	chr6	146141320	146141520	+	780.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 55 of 56)	intron (NM_019923, intron 55 of 56)	207298.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	8.0	10.5	19.5	341.0	15.0	23.0	16.5	14.0
Merged-chr2-75773692-4	chr2	75773589	75773789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58488.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	38.0	43.0	30.5	382.0	65.0	25.5	25.0	29.0
Merged-chr7-140953358-4	chr7	140953266	140953466	+	898.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2595.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	9.0	10.5	6.0	168.0	31.0	15.0	10.5	16.5
Merged-chr1-39936703-4	chr1	39936598	39936798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	35785.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	50.0	90.5	60.5	1054.5	170.5	56.0	81.0	70.0
Merged-chr1-74369150-2	chr1	74369036	74369236	+	1000.0	f0_balb.idr|f0_c57.idr	3' UTR (NM_001033345, exon 10 of 10)	3' UTR (NM_001033345, exon 10 of 10)	-6067.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	30.0	39.0	42.0	494.5	96.5	26.5	63.0	53.0
Merged-chr19-47537114-4	chr19	47537036	47537236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175360)	promoter-TSS (NM_175360)	-17.0	NM_175360	108689.0	Mm.218048	NM_175360	ENSMUSG00000042694	Stn1	0610009H20Rik|2310057J23Rik|AAF-44|AAF44|AI413458|Obfc1|RPA-32	STN1, CST complex subunit	protein-coding	88.5	164.0	72.5	1125.0	219.5	92.5	96.0	38.0
Merged-chr6-82913528-3	chr6	82913440	82913640	+	998.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011350, exon 14 of 14)	exon (NM_011350, exon 14 of 14)	26229.0	NM_001308374	20355.0	Mm.270543	NM_011350	ENSMUSG00000000627	Sema4f	Sema W	sema domain, immunoglobulin domain (Ig), TM domain, and short cytoplasmic domain	protein-coding	28.0	28.0	15.5	303.0	16.5	3.5	8.5	20.5
Merged-chr14-8002803-3	chr14	8002688	8002888	+	879.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331065)	promoter-TSS (NM_001331065)	-100.0	NM_025341	66082.0	Mm.181473	NM_025341	ENSMUSG00000025277	Abhd6	0610041D24Rik|AA673485|AV065425	abhydrolase domain containing 6	protein-coding	14.5	5.5	15.5	84.5	8.5	7.0	9.0	8.0
Merged-chr12-111426687-3	chr12	111426588	111426788	+	868.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 9 of 13)	MIR|SINE|MIR	9243.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	11.0	12.5	5.5	39.0	21.0	5.5	3.5	7.0
Merged-chr9-65201671-4	chr9	65201580	65201780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13010.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	27.0	90.5	48.5	526.0	85.0	28.0	33.5	24.0
Merged-chr15-84192192-4	chr15	84192095	84192295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178614)	promoter-TSS (NM_178614)	-38.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	168.0	189.5	131.0	1788.5	382.5	110.5	157.5	146.0
Merged-chr11-51594959-4	chr11	51594863	51595063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028398, intron 8 of 12)	intron (NM_028398, intron 8 of 12)	10206.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	59.5	117.0	40.5	830.0	119.0	50.0	61.5	61.0
Merged-chr10-56369353-4	chr10	56369188	56369388	+	845.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8012.0	NM_010288	14609.0	Mm.378921	NM_010288	ENSMUSG00000050953	Gja1	AU042049|AW546267|Cnx43|Cx43|Cx43alpha1|Gja-1|Npm1|connexin43	gap junction protein, alpha 1	protein-coding	10.5	4.0	11.0	104.5	28.0	12.5	6.0	10.0
Merged-chr4-46360061-4	chr4	46359961	46360161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD2|LINE|L1	15867.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	44.5	80.5	34.0	517.5	101.5	55.5	58.0	72.5
Merged-chr19-45650148-4	chr19	45650003	45650203	+	906.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 1 of 8)	B2_Mm2|SINE|B2	10090.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	33.5	27.5	38.5	467.5	30.0	4.5	13.5	29.0
Merged-chr6-116818915-3	chr6	116818814	116819014	+	807.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102156.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	7.0	11.5	4.5	129.5	16.5	4.0	8.0	16.5
Merged-chr2-32727577-4	chr2	32727499	32727699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252547)	promoter-TSS (NM_001252547)	-90.0	NM_001252547	27387.0	Mm.9593	NM_013781	ENSMUSG00000059013	Sh2d3c	Chat|Nsp3|Shep1	SH2 domain containing 3C	protein-coding	128.5	205.5	105.0	1720.5	291.5	100.0	134.5	79.0
Merged-chr5-113810243-4	chr5	113810153	113810353	+	950.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17B|LTR|ERVK	-9901.0	NM_146162	231633.0	Mm.41681	NM_146162	ENSMUSG00000054675	Tmem119	AW208946|BC025600|obif	transmembrane protein 119	protein-coding	39.0	53.0	18.0	148.0	81.0	33.0	31.5	43.0
Merged-chr11-107432320-4	chr11	107432232	107432432	+	860.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	38388.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	14.5	7.5	13.0	169.5	38.5	10.0	2.5	5.5
Merged-chr4-138214061-3	chr4	138213958	138214158	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2554.0	NM_001122896	15441.0	Mm.348429	NM_010470	ENSMUSG00000028759	Hp1bp3	Hp1bp74	heterochromatin protein 1, binding protein 3	protein-coding	36.5	28.5	29.5	425.5	12.0	5.5	4.0	12.5
Merged-chr11-106789946-3	chr11	106789859	106790059	+	918.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355677)	promoter-TSS (NM_001355677)	707.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	7.5	8.5	18.0	125.5	26.0	6.0	7.5	10.0
Merged-chr12-111738989-4	chr12	111738896	111739096	+	790.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163388, intron 4 of 5)	B3|SINE|B2	-19853.0	NM_001361612	16593.0	Mm.278357	NM_008450	ENSMUSG00000021288	Klc1	AI874768|Kns2	kinesin light chain 1	protein-coding	8.5	18.0	11.5	113.0	15.5	11.0	12.5	6.5
Merged-chr9-121477462-4	chr9	121477296	121477496	+	636.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18298.0	NM_001284508	12424.0	Mm.2619	NM_031161	ENSMUSG00000032532	Cck	-	cholecystokinin	protein-coding	2.5	7.5	6.5	63.0	11.0	5.5	6.0	10.0
Merged-chr6-40576007-4	chr6	40575919	40576119	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021364, exon 6 of 6)	3' UTR (NM_021364, exon 6 of 6)	4631.0	NM_146383	258381.0	Mm.377469	NM_146383	ENSMUSG00000045514	Olfr460	MOR120-2	olfactory receptor 460	protein-coding	11.0	21.5	38.5	367.5	32.0	11.5	16.0	9.5
Merged-chr15-63965562-4	chr15	63965470	63965670	+	895.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360038, intron 2 of 11)	intron (NM_001360038, intron 2 of 11)	32496.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	16.0	11.5	9.0	219.0	49.0	14.0	16.5	22.5
Merged-chr5-113776379-4	chr5	113776257	113776457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025526, intron 3 of 4)	intron (NM_025526, intron 3 of 4)	3545.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	43.0	74.5	18.5	562.5	81.5	38.5	44.5	53.0
Merged-chr19-34254595-4	chr19	34254486	34254686	+	741.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007392, intron 1 of 8)	intron (NM_007392, intron 1 of 8)	787.0	NM_007392	11475.0	Mm.213025	NM_007392	ENSMUSG00000035783	Acta2	0610041G09Rik|Actvs|SMAalpha|SMalphaA|a-SMA|alphaSMA	actin, alpha 2, smooth muscle, aorta	protein-coding	17.5	11.5	22.0	104.0	21.0	7.5	20.0	10.0
Merged-chr12-119157249-4	chr12	119157151	119157351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81025.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	70.0	63.5	60.5	1147.0	148.0	55.5	78.0	73.0
Merged-chr4-124705284-4	chr4	124705124	124705324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010213, intron 1 of 5)	intron (NM_010213, intron 1 of 5)	4525.0	NM_010213	14201.0	Mm.331856	NM_010213	ENSMUSG00000032643	Fhl3	SLIM2	four and a half LIM domains 3	protein-coding	49.5	59.0	36.5	330.0	121.0	40.5	45.0	33.0
Merged-chr17-87405745-4	chr17	87405603	87405803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029298, intron 5 of 6)	intron (NM_029298, intron 5 of 6)	22038.0	NM_029298	75467.0	Mm.50108	NM_029298	ENSMUSG00000036557	Stpg4	1700011E24Rik|GSE	sperm tail PG rich repeat containing 4	protein-coding	157.5	224.0	157.5	2333.0	420.5	189.0	196.0	175.0
Merged-chr7-90042625-4	chr7	90042536	90042736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110364, intron 5 of 5)	intron (NR_110364, intron 5 of 5)	13477.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	48.5	52.5	32.0	763.5	73.5	30.5	28.0	36.0
Merged-chr19-44295962-4	chr19	44295858	44296058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009128, intron 2 of 5)	intron (NM_009128, intron 2 of 5)	2282.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	57.5	59.0	31.0	567.5	100.0	32.5	39.0	40.0
Merged-chr12-108906985-3	chr12	108906878	108907078	+	938.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	12706.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	10.5	28.0	10.5	274.0	15.0	6.5	14.0	11.5
Merged-chr17-32283506-4	chr17	32283398	32283598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286630, intron 1 of 19)	intron (NM_001286630, intron 1 of 19)	625.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	25.0	61.0	20.5	161.0	97.0	29.5	22.5	13.0
Merged-chr13-44732727-4	chr13	44732638	44732838	+	919.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	intron (NM_001205043, intron 1 of 17)	1467.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	17.5	37.5	11.0	183.5	79.5	11.5	26.0	35.0
Merged-chr1-64753885-4	chr1	64753774	64753974	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16124.0	NM_022721	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	13.0	10.0	6.5	283.0	27.0	8.5	16.0	13.5
Merged-chr9-122865938-4	chr9	122865831	122866031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173364)	promoter-TSS (NM_173364)	75.0	NM_001359935	235682.0	Mm.326477	NM_173364	ENSMUSG00000047036	Zfp445	AW610627|ZNF168|Znf445|mszf29|mszf50	zinc finger protein 445	protein-coding	53.0	68.5	69.5	600.0	150.0	56.0	62.0	55.0
Merged-chr11-5707701-4	chr11	5707600	5707800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026080)	promoter-TSS (NM_026080)	-1.0	NM_026080	64660.0	Mm.7328	NM_026080	ENSMUSG00000020477	Mrps24	3110030K20Rik|AI414579|Rpms24	mitochondrial ribosomal protein S24	protein-coding	68.0	105.5	38.5	896.5	162.5	75.0	102.0	82.5
Merged-chr11-77763286-4	chr11	77763223	77763423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-13912.0	NM_001291213	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	52.0	76.0	34.5	537.0	99.5	33.0	24.0	36.5
Merged-chr16-96128021-4	chr16	96127880	96128080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008251)	promoter-TSS (NM_008251)	-255.0	NM_008251	15312.0	Mm.2756	NM_008251	ENSMUSG00000040681	Hmgn1	HMG-14|Hmg14	high mobility group nucleosomal binding domain 1	protein-coding	77.5	112.5	150.0	1253.5	194.0	87.5	93.5	72.0
Merged-chr1-72106805-4	chr1	72106698	72106898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101603.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	131.0	194.5	177.0	2393.5	257.5	120.5	212.5	131.0
Merged-chr11-48994204-4	chr11	48994102	48994302	+	849.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1956.0	NM_011579	21822.0	Mm.15793	NM_011579	ENSMUSG00000078922	Tgtp1	Gtp2|Irgb6|Mg21|Tgtp	T cell specific GTPase 1	protein-coding	9.0	6.0	10.0	126.0	21.0	5.0	17.5	15.0
Merged-chr6-34016076-4	chr6	34015940	34016140	+	836.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13408.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	16.0	11.5	12.0	147.5	26.0	7.5	20.0	13.5
Merged-chr9-45296316-2	chr9	45296216	45296416	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-22784.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	5.0	6.0	7.5	77.0	19.0	5.0	6.5	6.5
Merged-chr10-115372363-1	chr10	115372263	115372463	+	668.0	f0_c57.idr	3' UTR (NM_025780, exon 3 of 3)	3' UTR (NM_025780, exon 3 of 3)	-9862.0	NM_001359472	67226.0	Mm.29647	NM_133683	ENSMUSG00000069520	Tmem19	2810428F02Rik|AW125171	transmembrane protein 19	protein-coding	2.0	2.0	1.0	53.0	8.5	11.0	16.0	5.0
Merged-chr13-67724322-4	chr13	67724232	67724432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145622, intron 1 of 3)	intron (NM_145622, intron 1 of 3)	4841.0	NM_145622	235907.0	Mm.440123	NM_145622	ENSMUSG00000071281	Zfp65	KRAB5|Zfp71-rs1|pz114	zinc finger protein 65	protein-coding	33.5	42.5	33.0	360.0	150.0	53.0	56.5	35.0
Merged-chr4-8854188-4	chr4	8854094	8854294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001277149, exon 29 of 38)	exon (NM_001277149, exon 29 of 38)	102870.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	224.5	301.0	254.5	4618.0	603.5	255.5	347.0	292.5
Merged-chr11-49994645-4	chr11	49994528	49994728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30703.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	19.0	43.0	18.0	446.0	75.5	29.5	36.5	27.0
Merged-chr11-75486696-4	chr11	75486613	75486813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138659)	promoter-TSS (NM_138659)	-64.0	NM_138659	192159.0	Mm.3757	NM_138659	ENSMUSG00000020850	Prpf8	AU019467|D11Bwg0410e|DBF3/PRP8|Prp8|Sfprp8l	pre-mRNA processing factor 8	protein-coding	227.5	295.5	141.5	2106.0	487.5	147.5	184.5	157.0
Merged-chr11-80209592-4	chr11	80209490	80209690	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163355, intron 1 of 19)	intron (NM_001163355, intron 1 of 19)	535.0	NM_021536	59040.0	Mm.489674	NM_021536	ENSMUSG00000017686	Rhot1	2210403N23Rik|AA415293|AF244542|AI834919|Arht1|C430039G08Rik|Miro1	ras homolog family member T1	protein-coding	14.5	21.0	11.5	167.5	40.0	13.0	15.5	18.0
Merged-chr13-54818968-4	chr13	54818847	54819047	+	905.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29542.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	12.0	21.5	13.5	160.0	24.5	21.0	15.0	11.0
Merged-chr2-84562368-3	chr2	84562272	84562472	+	883.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-55499.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	13.0	9.0	23.0	187.0	14.5	3.0	6.0	8.5
Merged-chr17-34915532-4	chr17	34915422	34915622	+	808.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023557, intron 1 of 20)	intron (NM_023557, intron 1 of 20)	1056.0	NM_023557	70129.0	Mm.183126	NM_023557	ENSMUSG00000007034	Slc44a4	2210409B01Rik|NG22|mTPPT1	solute carrier family 44, member 4	protein-coding	11.5	12.5	2.0	70.0	21.5	6.0	13.0	11.0
Merged-chr16-92430912-4	chr16	92430807	92431007	+	984.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-30829.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	21.0	33.0	20.0	510.5	51.5	12.5	35.0	26.5
Merged-chr1-71723162-3	chr1	71723069	71723269	+	621.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69834.0	NR_040308	100042814.0	Mm.405775	NR_040308	ENSMUSG00000073652	Apol7d	Gm15456	apolipoprotein L 7d	ncRNA	7.5	8.0	11.0	119.5	11.0	2.5	12.5	6.5
Merged-chr11-20436344-3	chr11	20436231	20436431	+	736.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17D2|LTR|ERVK	-103618.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	3.5	5.0	9.0	68.5	20.5	5.5	8.0	5.0
Merged-chr10-39435052-4	chr10	39434940	39435140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	65241.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	16.0	22.5	68.5	474.5	53.0	31.5	23.5	46.5
Merged-chr9-57130639-4	chr9	57130440	57130640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028636)	promoter-TSS (NM_028636)	-237.0	NM_028636	73744.0	Mm.30110	NM_028636	ENSMUSG00000032295	Man2c1	1110025H24Rik	mannosidase, alpha, class 2C, member 1	protein-coding	8.5	22.0	9.0	156.0	32.0	14.5	15.5	17.0
Merged-chr15-10921101-3	chr15	10920990	10921190	+	927.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31242.0	NM_030888	81799.0	Mm.280158	NM_030888	ENSMUSG00000058914	C1qtnf3	2310005P21Rik|CORS-26|CORS26|CTRP3|Corcs|Cors	C1q and tumor necrosis factor related protein 3	protein-coding	9.0	11.0	7.0	154.0	14.0	3.5	12.0	9.0
Merged-chr13-23524818-4	chr13	23524708	23524908	+	866.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6236.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	10.0	10.0	5.0	137.0	29.5	11.5	8.0	7.5
Merged-chr6-87625572-2	chr6	87625472	87625672	+	570.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-34829.0	NM_021381	58182.0	Mm.333226	NM_021381	ENSMUSG00000049409	Prokr1	EG-VEGFR1|Gpr73|Pk-r1|Pkr1	prokineticin receptor 1	protein-coding	5.0	10.0	10.0	62.5	11.5	6.5	6.5	7.5
Merged-chr2-121414436-4	chr2	121414341	121414541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153075)	promoter-TSS (NM_153075)	539.0	NM_007952	14827.0	Mm.263177	NM_007952	ENSMUSG00000027248	Pdia3	58kDa|ERp57|ERp60|ERp61|Erp|Grp58|PDI|PDI-Q2|PI-PLC|PLC[a]|Plca	protein disulfide isomerase associated 3	protein-coding	19.5	36.0	28.0	326.0	75.5	21.5	23.0	28.5
Merged-chr8-81010528-2	chr8	81010422	81010622	+	610.375	f0_c57.idr|f1_c57bl6.idr	intron (NM_027554, intron 2 of 9)	Tigger5|DNA|TcMar-Tigger	4384.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	6.0	3.0	4.0	43.5	28.5	19.5	12.5	10.0
Merged-chr4-3779886-4	chr4	3779788	3779988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 10 of 12)	MLT1A0|LTR|ERVL-MaLR	55767.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	23.5	34.0	32.5	339.0	32.5	20.0	32.0	33.5
Merged-chr4-54527863-3	chr4	54527748	54527948	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-420097.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	139.5	216.0	217.5	3181.5	7.5	9.0	3.5	9.0
Merged-chr10-14174352-4	chr10	14174253	14174453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	207974.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	123.0	188.5	176.5	1532.5	285.0	125.0	133.0	106.0
Merged-chr1-51498676-4	chr1	51498551	51498751	+	865.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-20252.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	4.5	12.0	8.0	136.5	25.0	4.0	6.5	11.5
Merged-chr4-105245847-4	chr4	105245787	105245987	+	795.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88540.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	6.0	11.0	5.5	80.0	37.0	12.0	14.5	15.0
Merged-chr9-99009751-4	chr9	99009644	99009844	+	846.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080776, intron 6 of 7)	intron (NM_001080776, intron 6 of 7)	23371.0	NM_001122851	23873.0	Mm.74605	NM_011810	ENSMUSG00000032463	Faim	-	Fas apoptotic inhibitory molecule	protein-coding	7.0	6.5	7.0	73.0	36.0	6.0	7.0	13.0
Merged-chr11-87031046-4	chr11	87030962	87031162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37300.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	127.5	128.0	73.0	1546.5	221.5	60.5	76.0	79.5
Merged-chr13-67061087-4	chr13	67061003	67061203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166218)	promoter-TSS (NM_001166218)	67.0	NM_001166218	78251.0	Mm.297247	NM_001166218	ENSMUSG00000090641	Zfp712	4921504N20Rik|mszf31|mszf89	zinc finger protein 712	protein-coding	104.5	139.5	145.5	1974.0	254.0	96.0	123.5	120.0
Merged-chr19-56397271-4	chr19	56397138	56397338	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007611, exon 1 of 7)	5' UTR (NM_007611, exon 1 of 7)	109.0	NM_007611	12369.0	Mm.35687	NM_007611	ENSMUSG00000025076	Casp7	AI314680|CMH-1|ICE-IAP3|Mch3|caspase-7|mCASP-7	caspase 7	protein-coding	27.5	21.5	30.5	273.0	65.0	14.5	28.0	28.0
Merged-chr1-133046100-3	chr1	133045998	133046198	+	880.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099276)	promoter-TSS (NM_001099276)	86.0	NM_001099276	240752.0	Mm.387308	NM_001099276	ENSMUSG00000026447	Pik3c2b	C330011J12Rik|Gm199|PI3K-C2beta|PI3KC2beta	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta	protein-coding	19.0	16.0	13.0	143.5	27.5	1.5	7.0	11.0
Merged-chr7-29125194-1	chr7	29125094	29125294	+	560.5	f0_c57.idr	promoter-TSS (NM_009109)	promoter-TSS (NM_009109)	-43.0	NM_009109	20190.0	Mm.439745	NM_009109	ENSMUSG00000030592	Ryr1	AI528790|RYR-1|Ryr|skrr	ryanodine receptor 1, skeletal muscle	protein-coding	6.0	7.0	12.0	71.0	20.0	9.0	12.5	3.5
Merged-chr10-67226165-4	chr10	67226066	67226266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001242396, exon 9 of 25)	exon (NM_001242396, exon 9 of 25)	40416.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	53.5	92.0	68.0	1299.0	157.5	47.5	86.5	64.5
Merged-chr15-55252598-4	chr15	55252500	55252700	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145470, exon 9 of 9)	3' UTR (NM_145470, exon 9 of 9)	-55150.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	25.0	22.0	23.5	283.5	79.0	27.5	26.5	28.0
Merged-chr5-134727292-4	chr5	134727165	134727365	+	947.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007925, intron 10 of 36)	intron (NM_007925, intron 10 of 36)	20058.0	NM_007925	13717.0	Mm.275320	NM_007925	ENSMUSG00000029675	Eln	AI385707|AI480567|E030024M20Rik	elastin	protein-coding	14.0	23.5	15.5	141.5	20.0	25.5	11.0	16.5
Merged-chr16-23308458-2	chr16	23308358	23308558	+	868.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	intron (NM_001252506, intron 1 of 6)	17988.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	4.5	14.0	4.5	66.5	3.5	6.0	1.0	3.5
Merged-chr6-48582163-2	chr6	48582061	48582261	+	675.0	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-7284.0	NM_183309	330305.0	Mm.123868	NM_183309	ENSMUSG00000052730	Gm5111	A630038D02|EG330305	predicted gene 5111	protein-coding	4.0	2.0	2.5	74.5	22.0	6.5	10.0	4.5
Merged-chr9-14699186-4	chr9	14699087	14699287	+	893.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36165.0	NR_152172	665374.0	Mm.387249	NR_152172	ENSMUSG00000111085	Gm7607	EG665374	predicted gene 7607	ncRNA	10.5	6.0	4.0	120.5	27.5	8.0	16.0	6.0
Merged-chr1-93125445-4	chr1	93125352	93125552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9788.0	NM_001276710	11611.0	Mm.7457	NM_016702	ENSMUSG00000026272	Agxt	AGT|Agt1|Agxt1|SPT	alanine-glyoxylate aminotransferase	protein-coding	50.0	50.5	37.0	779.0	89.0	26.5	50.5	45.0
Merged-chr14-57745561-4	chr14	57745473	57745673	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015771, intron 1 of 7)	CpG	550.0	NM_015771	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	14.0	36.0	21.0	396.0	69.0	22.5	39.0	25.5
Merged-chr9-105459138-4	chr9	105459011	105459211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359823, intron 7 of 26)	MER47B|DNA|TcMar-Tigger	36022.0	NM_175025	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	98.0	134.5	93.0	1596.0	355.0	117.5	219.0	195.0
Merged-chr7-89395568-1	chr7	89395468	89395668	+	714.0	f0_balb.idr	intron (NM_001360746, intron 1 of 14)	L1MA9|LINE|L1	8654.0	NM_001360746	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	9.5	6.5	10.0	91.5	8.5	0.5	6.5	3.0
Merged-chr5-99278454-1	chr5	99278354	99278554	+	726.0	f0_balb.idr	Intergenic	Intergenic	-25527.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	16.0	8.0	5.0	89.5	9.0	5.0	0.5	5.0
Merged-chr7-45366209-2	chr7	45366109	45366309	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015480)	promoter-TSS (NR_015480)	48.0	NR_015480	50994.0	Mm.389897	NM_016664	ENSMUSG00000091510	Mtag2	MAG	metastasis associated gene 2	ncRNA	8.0	8.0	6.0	64.5	20.0	6.0	2.5	15.5
Merged-chr8-106577379-4	chr8	106577283	106577483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9760.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	18.5	35.0	29.0	407.5	40.5	16.0	28.0	24.0
Merged-chr15-63595766-4	chr15	63595594	63595794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-116086.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	40.0	49.5	63.0	979.0	68.0	14.5	24.0	25.5
Merged-chr2-168579266-4	chr2	168579163	168579363	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291169, intron 1 of 10)	intron (NM_001291169, intron 1 of 10)	11102.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	39.5	41.0	29.5	556.5	98.0	22.0	26.0	16.5
Merged-chr19-29391445-4	chr19	29391350	29391550	+	976.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19469.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	16.0	24.5	14.0	172.5	61.0	17.5	19.5	10.0
Merged-chr5-118354320-4	chr5	118354222	118354422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109095.0	NM_001081236	76792.0	Mm.103428	NM_001081236	ENSMUSG00000032840	2410131K14Rik	-	RIKEN cDNA 2410131K14 gene	protein-coding	63.0	107.0	61.5	858.0	123.5	44.0	38.0	40.5
Merged-chr17-7877560-4	chr17	7877470	7877670	+	945.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48430.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	33.5	12.5	16.0	215.0	54.5	17.0	23.0	15.0
Merged-chr14-93674950-4	chr14	93674854	93675054	+	939.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081377, intron 2 of 4)	intron (NM_001081377, intron 2 of 4)	215715.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	22.5	35.0	27.0	474.5	37.0	5.5	15.0	6.5
Merged-chr13-45968350-4	chr13	45968271	45968471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3380.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	49.0	82.0	67.0	629.0	104.0	41.5	39.0	35.5
Merged-chr2-165874996-4	chr2	165874885	165875085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 2 of 11)	intron (NM_001252587, intron 2 of 11)	3452.0	NM_001291158	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	39.5	60.5	20.5	553.0	74.0	29.0	31.0	23.5
Merged-chr11-17185311-4	chr11	17185202	17185402	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 2 of 5)	L1_Mur3|LINE|L1	26004.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	27.5	51.5	32.5	573.5	35.5	10.5	9.5	8.0
Merged-chr13-100697646-3	chr13	100697529	100697729	+	870.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_183115)	TTS (NM_183115)	28148.0	NM_001168386	76041.0	Mm.23977	NM_183115	ENSMUSG00000048924	Ccdc125	5830436D01Rik|AL023012	coiled-coil domain containing 125	protein-coding	4.0	6.0	10.0	146.5	27.5	7.0	28.0	15.5
Merged-chr15-67172869-4	chr15	67172772	67172972	+	916.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 1 of 8)	intron (NM_009177, intron 1 of 8)	4010.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	15.0	24.0	15.5	194.5	29.5	8.0	18.0	11.0
Merged-chr17-29398370-5	chr17	29398371	29398571	+	946.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37557.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	31.0	26.5	16.0	245.0	87.5	26.5	24.5	27.5
Merged-chr8-71388456-3	chr8	71388341	71388541	+	873.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181418, intron 9 of 12)	MTE2b|LTR|ERVL-MaLR	-6489.0	NM_010150	13864.0	Mm.28989	NM_010150	ENSMUSG00000002393	Nr2f6	AV090102|COUP-TF3|EAR2|Erbal2	nuclear receptor subfamily 2, group F, member 6	protein-coding	7.0	9.0	11.0	163.5	19.0	4.5	11.0	8.0
Merged-chr1-177487974-3	chr1	177487877	177488077	+	737.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42156.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	4.5	12.0	10.5	86.0	11.5	3.5	9.5	3.0
Merged-chr9-58955728-3	chr9	58955621	58955821	+	806.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008684, intron 7 of 28)	B3|SINE|B2	80720.0	NM_001042752	18007.0	Mm.42249	NM_008684	ENSMUSG00000032340	Neo1	2610028H22Rik|AI327052|D930014N22Rik|Igdcc2	neogenin	protein-coding	9.5	4.5	7.5	24.0	23.5	2.5	4.5	8.0
Merged-chr1-4867751-4	chr1	4867643	4867843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159750, intron 2 of 9)	RMER6B|LTR|ERVK	9415.0	NM_001159751	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	62.0	90.0	50.5	479.5	198.0	48.0	68.0	46.5
Merged-chr16-14367037-4	chr16	14366875	14367075	+	800.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 1 of 30)	L2|LINE|L2	5417.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	7.5	13.0	12.0	66.0	4.0	9.0	2.5	10.0
Merged-chr4-35166031-4	chr4	35165940	35166140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-8556.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	68.0	62.5	39.0	920.0	118.5	39.5	49.0	36.5
Merged-chr14-65345239-4	chr14	65345144	65345344	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13432.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	17.5	20.0	5.0	250.0	65.5	14.0	20.5	31.5
Merged-chr18-70645026-4	chr18	70644894	70645094	+	970.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	76702.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	37.5	20.0	11.5	375.0	47.0	23.5	24.5	21.5
Merged-chr12-85345712-4	chr12	85345609	85345809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-6347.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	72.0	104.0	71.5	989.5	105.5	39.0	55.5	54.5
Merged-chr9-100643442-4	chr9	100643338	100643538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357264)	promoter-TSS (NM_001357264)	-10.0	NM_009282	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	346.5	538.5	384.0	5157.5	1018.0	451.5	586.5	449.5
Merged-chr5-123015594-2	chr5	123015494	123015694	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175423, intron 1 of 1)	CpG	520.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	18.0	29.5	5.5	177.5	41.5	12.0	12.5	15.0
Merged-chr1-62722500-6	chr1	62722425	62722625	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	19208.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	7.0	9.5	8.0	107.5	25.5	8.5	9.0	3.5
Merged-chr8-13531170-4	chr8	13531063	13531263	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31298.0	NM_025601	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	63.0	33.0	51.0	868.0	39.5	15.5	13.5	24.5
Merged-chr4-155235865-2	chr4	155235765	155235965	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13330.0	NM_001357191	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	16.0	17.5	4.0	77.0	18.5	9.5	6.5	10.5
Merged-chr12-85913305-4	chr12	85913213	85913413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 19 of 32)	RSINE1|SINE|B4	88363.0	NM_001081423	320244.0	Mm.132172	NM_177114	ENSMUSG00000012609	Ttll5	1700048H13Rik|2310009M18Rik|4930556H18Rik|AI428864|D630041K24Rik|R75373|Stamp|mKIAA0998	tubulin tyrosine ligase-like family, member 5	protein-coding	69.0	63.5	39.0	1188.5	172.0	38.0	80.5	58.0
Merged-chr2-11501458-4	chr2	11501343	11501543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	CpG	647.0	NM_001177754	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	154.0	244.0	205.0	2823.5	354.0	134.0	215.0	137.5
Merged-chr1-33768210-4	chr1	33768097	33768297	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359274, intron 12 of 13)	intron (NM_001359274, intron 12 of 13)	-10447.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	12.0	22.5	17.0	309.0	46.5	17.0	39.5	32.5
Merged-chr19-4338395-4	chr19	4338289	4338489	+	843.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001984, intron 12 of 20)	B3A|SINE|B2	-32167.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	19.0	14.5	8.0	134.5	29.5	9.0	6.5	7.5
Merged-chr5-76675550-4	chr5	76675453	76675653	+	982.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83839.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	11.5	44.0	24.5	197.5	65.5	16.0	29.5	16.5
Merged-chr6-145303091-4	chr6	145302988	145303188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52536.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	96.5	141.0	133.5	1868.0	318.5	80.5	128.0	98.0
Merged-chr5-62753007-4	chr5	62752920	62753120	+	909.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	13157.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	16.5	21.0	21.0	542.0	46.0	7.0	11.5	15.5
Merged-chr2-132151143-4	chr2	132151040	132151240	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5820.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	8.5	34.0	9.0	176.5	52.0	11.0	15.0	26.5
Merged-chr17-6314213-3	chr17	6314110	6314310	+	745.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166629, intron 2 of 4)	B2_Mm1t|SINE|B2	3264.0	NM_001166629	100310872.0	Mm.381893	NM_001166629	ENSMUSG00000092074	Dynlt1a	-	dynein light chain Tctex-type 1A	protein-coding	0.0	4.0	1.0	10.5	31.5	15.0	10.5	11.0
Merged-chr1-58795511-4	chr1	58795465	58795665	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009812, exon 1 of 9)	5' UTR (NM_009812, exon 1 of 9)	191.0	NM_009812	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	25.0	31.0	37.0	355.0	39.0	10.0	14.0	23.5
Merged-chr2-11596834-4	chr2	11596711	11596911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 3 of 11)	intron (NM_152824, intron 3 of 11)	6388.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	81.5	166.5	119.5	1345.0	287.5	68.0	93.5	89.5
Merged-chr1-133856398-3	chr1	133856322	133856522	+	771.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50751.0	NM_054076	269120.0	Mm.59985	NM_054076	ENSMUSG00000010311	Optc	-	opticin	protein-coding	5.0	6.0	13.0	138.5	5.5	2.0	5.5	4.5
Merged-chr18-54902020-1	chr18	54901920	54902120	+	574.333313	f0_balb.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	88160.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	7.0	8.0	88.0	9.0	8.0	8.0	11.5
Merged-chr8-95255033-4	chr8	95254926	95255126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195413, intron 25 of 32)	intron (NM_001195413, intron 25 of 32)	51559.0	NM_145601	333329.0	Mm.484049	NM_145601	ENSMUSG00000031789	Cngb1	Cngb1b|Garp2|Gm1959	cyclic nucleotide gated channel beta 1	protein-coding	53.0	63.5	44.0	780.5	120.0	59.0	70.5	74.0
Merged-chr3-21808330-3	chr3	21808228	21808428	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-268324.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	29.0	27.0	17.5	392.5	29.0	2.5	6.0	10.0
Merged-chr5-117147707-1	chr5	117147607	117147807	+	860.0	f1_balb.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	14119.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	4.5	11.0	7.0	134.5	2.0	0.0	0.0	1.5
Merged-chr8-79370771-4	chr8	79370644	79370844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 2 of 6)	intron (NM_008539, intron 2 of 6)	28724.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	22.5	38.5	27.0	480.0	45.0	16.5	26.0	23.0
Merged-chr11-9334999-4	chr11	9334894	9335094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 26 of 61)	intron (NM_178259, intron 26 of 61)	143052.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	31.0	45.0	35.5	765.0	212.5	71.0	104.5	70.5
Merged-chr17-72836501-4	chr17	72836374	72836574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027166)	promoter-TSS (NM_027166)	-154.0	NM_027166	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	433.0	721.0	548.5	6734.5	1084.5	475.0	543.5	460.5
Merged-chr2-130423870-2	chr2	130423778	130423978	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030559)	promoter-TSS (NM_030559)	410.0	NM_178762	319513.0	Mm.482539	NM_178762	ENSMUSG00000037773	Pced1a	A930025D01Rik|AI480484|Fam113a	PC-esterase domain containing 1A	protein-coding	22.0	40.5	16.0	286.0	27.0	11.5	8.0	26.0
Merged-chr10-89747668-4	chr10	89747507	89747707	+	962.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029166, intron 1 of 20)	intron (NM_029166, intron 1 of 20)	2616.0	NM_029166	75089.0	Mm.268922	NM_029166	ENSMUSG00000019951	Uhrf1bp1l	2010319N22Rik|4930506D01Rik|AA589495|C80672|E030041M21Rik|mKIAA0701	UHRF1 (ICBP90) binding protein 1-like	protein-coding	13.5	16.5	11.0	245.5	34.0	8.0	10.5	18.0
Merged-chr1-121136993-4	chr1	121136893	121137093	+	832.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49588.0	NR_110450	98452.0	Mm.131017	NR_038008	ENSMUSG00000097881	Celrr	AI848258|B230209K01Rik|Celr|Gm818	cerebellum expressed regulatory RNA	ncRNA	2.5	2.0	5.0	130.0	45.5	9.0	12.5	13.5
Merged-chr5-38494026-3	chr5	38493934	38494134	+	804.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145559, intron 1 of 10)	ORR1C1|LTR|ERVL-MaLR	8118.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	7.0	1.0	2.5	11.5	68.5	32.0	54.0	42.0
Merged-chr7-5014356-4	chr7	5014289	5014489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011813)	promoter-TSS (NM_011813)	-136.0	NM_001360242	23877.0	Mm.38911	NM_011813	ENSMUSG00000061374	Fiz1	AI790204|mFLJ00416	Flt3 interacting zinc finger protein 1	protein-coding	45.5	53.5	29.0	496.5	151.0	55.0	82.5	50.0
Merged-chr8-120739602-4	chr8	120739471	120739671	+	855.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 1 of 8)	intron (NM_001301811, intron 1 of 8)	932.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	7.5	6.5	4.5	157.5	10.0	4.5	6.0	13.0
Merged-chr11-101463105-4	chr11	101463018	101463218	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012037, intron 1 of 5)	intron (NM_012037, intron 1 of 5)	3081.0	NM_012037	26949.0	Mm.29210	NM_012037	ENSMUSG00000034993	Vat1	VAT-1	vesicle amine transport 1	protein-coding	43.5	96.5	13.0	633.5	136.0	47.5	27.5	55.5
Merged-chr18-44724569-3	chr18	44724461	44724661	+	942.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085373, exon 3 of 19)	exon (NM_001085373, exon 3 of 19)	-62295.0	NM_001085374	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	10.5	18.0	9.5	146.5	8.0	8.0	2.5	8.0
Merged-chr13-24638647-3	chr13	24638527	24638727	+	754.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029679)	promoter-TSS (NM_029679)	-21.0	NM_001080381	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	8.5	5.5	5.5	144.0	13.5	4.0	6.0	6.5
Merged-chr7-117481633-3	chr7	117481526	117481726	+	855.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 2 of 11)	intron (NM_175645, intron 2 of 11)	100647.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	12.0	10.0	12.5	230.0	8.5	2.5	7.0	7.0
Merged-chr7-90476085-4	chr7	90475989	90476189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026734)	promoter-TSS (NM_026734)	-94.0	NM_026734	68472.0	Mm.289791	NM_026734	ENSMUSG00000030614	Tmem126b	1110001A23Rik	transmembrane protein 126B	protein-coding	282.0	398.5	307.5	4883.5	738.0	248.0	331.5	218.0
Merged-chr11-26604443-4	chr11	26604334	26604534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-10514.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	66.5	69.0	32.0	952.5	182.0	67.5	90.0	60.0
Merged-chr1-125474327-4	chr1	125474221	125474421	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-38594.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	25.0	23.5	28.0	332.5	57.0	22.0	29.5	13.0
Merged-chr10-118093950-3	chr10	118093835	118094035	+	759.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47852.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	1.5	0.5	1.0	14.5	23.5	7.0	4.5	7.5
Merged-chr3-79202372-4	chr3	79202267	79202467	+	763.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10552.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	5.0	8.0	0.0	178.0	12.0	5.0	11.0	9.0
Merged-chr6-134921057-2	chr6	134920954	134921154	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_009875, exon 1 of 3)	exon (NM_009875, exon 1 of 3)	653.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	7.0	8.0	7.0	59.0	24.0	11.0	8.0	25.0
Merged-chr5-63938829-4	chr5	63938701	63938901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	intron (NM_145923, intron 1 of 6)	30096.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	50.0	52.5	46.0	1029.5	90.0	25.5	49.5	37.0
Merged-chr14-101516763-4	chr14	101516649	101516849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	RMER19B|LTR|ERVK	92442.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	34.5	27.0	25.0	471.0	60.5	6.5	30.5	21.0
Merged-chr7-45920703-4	chr7	45920635	45920835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001146346, exon 1 of 5)	5' UTR (NM_001146346, exon 1 of 5)	114.0	NM_001146346	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	18.0	47.0	27.5	157.0	58.5	25.5	26.0	26.5
Merged-chr1-185193721-4	chr1	185193609	185193809	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10459.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	22.5	38.0	28.0	300.0	32.0	21.0	23.5	20.5
Merged-chr9-32118079-3	chr9	32117981	32118181	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 1 of 21)	intron (NM_001195632, intron 1 of 21)	1945.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	6.0	9.0	15.0	295.5	23.0	13.0	11.0	7.0
Merged-chr5-30907816-4	chr5	30907692	30907892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024460)	promoter-TSS (NM_024460)	-4.0	NM_024460	67695.0	Mm.21450	NM_024460	ENSMUSG00000038803	Ost4	2310016E02Rik	oligosaccharyltransferase complex subunit 4 (non-catalytic)	protein-coding	164.0	266.0	114.5	2009.0	317.0	136.0	183.0	124.5
Merged-chr12-4536699-4	chr12	4536607	4536807	+	937.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12594.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	25.5	23.5	12.5	214.0	30.5	13.0	19.5	14.5
Merged-chr12-17681984-2	chr12	17681884	17682084	+	848.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-8825.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	1.5	7.5	7.0	142.0	17.5	6.0	7.5	7.0
Merged-chr1-164218327-3	chr1	164218197	164218397	+	957.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007976, intron 24 of 24)	intron (NM_007976, intron 24 of 24)	-30749.0	NM_001276455	116914.0	Mm.35444	NM_054087	ENSMUSG00000040918	Slc19a2	AV276020|AW322295|DDA1|THTR1|TRMA|ThTr-1	solute carrier family 19 (thiamine transporter), member 2	protein-coding	13.0	18.0	19.5	156.5	3.5	4.0	1.0	9.0
Merged-chr15-38292188-4	chr15	38292063	38292263	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001289471, exon 5 of 5)	3' UTR (NM_001289471, exon 5 of 5)	7737.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	31.5	52.5	39.0	497.0	45.0	23.0	18.0	31.5
Merged-chr10-8879499-2	chr10	8879375	8879575	+	870.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	6595.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.5	20.5	7.0	41.5	23.0	4.5	1.5	7.0
Merged-chr18-3510711-2	chr18	3510611	3510811	+	595.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026505, intron 1 of 2)	intron (NM_026505, intron 1 of 2)	2754.0	NM_026505	68010.0	Mm.284863	NM_026505	ENSMUSG00000024232	Bambi	2610003H06Rik	BMP and activin membrane-bound inhibitor	protein-coding	6.0	5.0	3.0	43.5	12.0	5.5	6.5	4.5
Merged-chr8-112927037-4	chr8	112926935	112927135	+	921.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140227.0	NR_033584	791378.0	Mm.350576	NR_033584	ENSMUSG00000110541	Gm10280	-	predicted gene 10280	ncRNA	9.0	17.0	12.5	421.5	61.0	14.0	20.5	42.0
Merged-chr14-120363443-4	chr14	120363356	120363556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	57004.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	42.5	67.0	94.0	1634.5	85.0	27.0	41.5	51.0
Merged-chr13-42527120-4	chr13	42526998	42527198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-153701.0	NM_001302635	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	98.5	121.0	133.5	1866.5	271.0	73.0	189.0	133.0
Merged-chr5-24876756-4	chr5	24876678	24876878	+	938.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 9 of 15)	intron (NM_145401, intron 9 of 15)	-25791.0	NR_040684	71161.0	Mm.443533	NR_040684	ENSMUSG00000086446	Prkag2os1	4933426D04Rik	protein kinase, AMP-activated, gamma 2 non-catalytic subunit, opposite strand 1	ncRNA	7.0	24.0	30.5	296.5	31.0	17.0	17.5	11.5
Merged-chr11-70445645-4	chr11	70445540	70445740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6291.0	NM_025397	66172.0	Mm.46424	NM_025397	ENSMUSG00000018923	Med11	1110030J09Rik|AI465144|AW545069	mediator complex subunit 11	protein-coding	28.5	41.0	18.0	211.0	56.0	28.5	30.5	27.0
Merged-chr12-4208924-4	chr12	4208809	4209009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 16 of 21)	intron (NM_001159537, intron 16 of 21)	25056.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	80.0	119.0	55.5	898.0	157.0	76.0	50.0	42.0
Merged-chr10-127289956-4	chr10	127289840	127290040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033072)	promoter-TSS (NM_033072)	-853.0	NM_007837	13198.0	Mm.110220	NM_007837	ENSMUSG00000025408	Ddit3	CHOP-10|CHOP10|chop|gadd153	DNA-damage inducible transcript 3	protein-coding	48.0	62.5	44.5	1023.0	175.5	36.5	82.0	74.0
Merged-chr7-19871403-4	chr7	19871308	19871508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10109.0	NM_001033419	330483.0	Mm.260192	NM_001033419	ENSMUSG00000014686	Ceacam16	Gm769	carcinoembryonic antigen-related cell adhesion molecule 16	protein-coding	90.0	137.0	87.0	1840.0	252.0	77.5	71.5	90.5
Merged-chr15-81067272-3	chr15	81067181	81067381	+	918.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	37766.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	7.0	7.5	9.0	151.0	19.5	3.5	7.0	8.5
Merged-chr7-31116778-4	chr7	31116658	31116858	+	890.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011322, exon 6 of 6)	3' UTR (NM_011322, exon 6 of 6)	-1432.0	NM_001110252	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	9.5	16.0	35.5	253.0	24.0	10.0	13.0	6.5
Merged-chr6-38782892-4	chr6	38782798	38782998	+	724.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 2 of 14)	intron (NM_010433, intron 2 of 14)	54413.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	3.5	11.5	9.5	139.0	30.0	5.5	9.5	8.5
Merged-chr6-124202352-4	chr6	124202267	124202467	+	982.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001104642, intron 3 of 5)	intron (NM_001104642, intron 3 of 5)	29417.0	NM_001104642	232367.0	Mm.469872	NM_001104642	ENSMUSG00000072778	Vmn2r27	EG232367	vomeronasal 2, receptor27	protein-coding	26.0	22.5	12.0	410.5	38.5	16.5	21.0	19.5
Merged-chr13-41359561-4	chr13	41359464	41359664	+	903.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017464)	promoter-TSS (NM_017464)	-563.0	NM_017464	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	8.0	18.5	17.5	256.0	24.0	3.5	12.0	18.5
Merged-chr18-60757092-6	chr18	60756907	60757107	+	771.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8342.0	NM_008306	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	4.0	3.5	6.0	101.0	14.5	4.5	4.5	8.0
Merged-chr11-101732894-4	chr11	101732794	101732994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144831)	promoter-TSS (NM_144831)	-62.0	NM_144831	217207.0	Mm.28186	NM_144831	ENSMUSG00000034931	Dhx8	Ddx8|mDEAH6|mKIAA4096	DEAH (Asp-Glu-Ala-His) box polypeptide 8	protein-coding	118.5	192.0	132.5	1381.5	309.5	123.5	92.5	116.5
Merged-chr9-65533573-4	chr9	65533470	65533670	+	951.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	46517.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	27.0	26.0	12.0	173.5	40.0	14.0	13.0	16.5
Merged-chr18-60843945-4	chr18	60843843	60844043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011552, intron 2 of 24)	intron (NM_011552, intron 2 of 24)	5021.0	NM_011552	21453.0	Mm.486251	NM_011552	ENSMUSG00000024613	Tcof1	AA408847|AW209012|treacle	treacle ribosome biogenesis factor 1	protein-coding	66.0	88.5	57.0	764.5	193.5	55.0	93.5	60.5
Merged-chr2-3349136-4	chr2	3349037	3349237	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145921, intron 3 of 7)	intron (NM_145921, intron 3 of 7)	12969.0	NM_030063	78245.0	Mm.99733	NM_030063	ENSMUSG00000026644	Acbd7	9230116B18Rik	acyl-Coenzyme A binding domain containing 7	protein-coding	8.5	11.0	8.0	98.0	33.5	5.5	15.0	9.5
Merged-chr11-53470063-3	chr11	53469965	53470165	+	909.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10130.0	NM_183173	237761.0	Mm.145208	NM_183173	ENSMUSG00000044352	Sowaha	A830006N08Rik|Ankrd43	sosondowah ankyrin repeat domain family member A	protein-coding	8.5	12.0	2.0	101.0	35.0	5.5	7.0	7.5
Merged-chr2-145808528-4	chr2	145808429	145808629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	22413.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	65.0	118.0	155.5	1570.0	138.5	63.0	64.5	68.5
Merged-chr1-24700626-4	chr1	24700518	24700718	+	960.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 3 of 15)	intron (NM_026719, intron 3 of 15)	21700.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	25.5	20.0	9.5	374.0	41.0	14.0	23.0	19.0
Merged-chr8-95081023-4	chr8	95080907	95081107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028805)	promoter-TSS (NM_028805)	-194.0	NM_028805	74187.0	Mm.28382	NM_028805	ENSMUSG00000031787	Katnb1	2410003J24Rik|KAT	katanin p80 (WD40-containing) subunit B 1	protein-coding	320.5	487.0	338.5	4394.5	671.0	316.0	293.0	286.0
Merged-chr11-80175549-4	chr11	80175462	80175662	+	792.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 8 of 10)	intron (NM_172133, intron 8 of 10)	-8310.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	14.5	16.0	7.0	77.5	28.0	4.5	20.5	12.0
Merged-chr16-90219827-3	chr16	90219736	90219936	+	778.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011434)	promoter-TSS (NM_011434)	-906.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	11.0	12.5	6.0	14.5	22.5	5.5	7.5	9.5
Merged-chr10-15171309-3	chr10	15171187	15171387	+	750.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	410998.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	21.5	9.0	15.0	358.5	3.5	0.0	4.0	0.0
Merged-chr2-77304743-4	chr2	77304638	77304838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24146.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	61.0	52.0	42.5	622.0	121.5	45.0	49.5	37.5
Merged-chr14-63128562-2	chr14	63128462	63128662	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	6100.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	24.0	67.0	43.5	573.0	91.0	34.0	29.5	49.5
Merged-chr2-52966426-4	chr2	52966300	52966500	+	929.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	108532.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	19.0	33.5	12.5	272.0	37.0	9.5	12.5	16.5
Merged-chr5-34238682-3	chr5	34238587	34238787	+	883.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 2 of 12)	L1M4|LINE|L1	49637.0	NM_001015039	231125.0	Mm.113388	NM_001015039	ENSMUSG00000037224	Zfyve28	9630058O20Rik|Gm146|mKIAA1643	zinc finger, FYVE domain containing 28	protein-coding	9.5	8.5	13.5	174.5	10.0	0.0	3.0	4.0
Merged-chr9-64222296-4	chr9	64222188	64222388	+	881.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008927, intron 1 of 10)	intron (NM_008927, intron 1 of 10)	-12913.0	NM_033607	93841.0	Mm.390180	NM_033607	ENSMUSG00000035337	Uchl4	-	ubiquitin carboxyl-terminal esterase L4	protein-coding	16.0	25.5	13.5	271.0	23.5	17.5	13.5	15.0
Merged-chr18-80705354-1	chr18	80705254	80705454	+	632.0	f0_balb.idr	intron (NM_198429, intron 1 of 9)	intron (NM_198429, intron 1 of 9)	2819.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	7.0	6.5	5.5	106.5	15.5	3.5	6.5	12.5
Merged-chr19-47730777-4	chr19	47730670	47730870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026377)	promoter-TSS (NM_026377)	-986.0	NM_026377	67788.0	Mm.181610	NM_026377	ENSMUSG00000025066	Sfr1	6330577E15Rik|Meir5	SWI5 dependent recombination repair 1	protein-coding	65.5	82.5	44.5	584.5	126.5	83.0	77.5	51.5
Merged-chr5-5243778-3	chr5	5243683	5243883	+	733.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 3 of 14)	intron (NM_011074, intron 3 of 14)	22285.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	10.0	20.0	11.0	150.5	16.5	4.0	15.5	12.0
Merged-chr7-127895667-4	chr7	127895565	127895765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178600)	promoter-TSS (NM_178600)	-48.0	NM_178600	27973.0	Mm.29703	NM_178600	ENSMUSG00000096145	Vkorc1	D7Wsu86e	vitamin K epoxide reductase complex, subunit 1	protein-coding	135.5	205.0	126.5	1987.0	365.0	102.0	161.0	141.0
Merged-chr4-145242937-4	chr4	145242861	145243061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	3909.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	20.0	23.5	18.0	197.5	40.0	12.0	21.0	29.5
Merged-chr10-14705556-4	chr10	14705475	14705675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045824)	promoter-TSS (NR_045824)	-34.0	NR_045824	69412.0	Mm.259735	NR_045824	ENSMUSG00000019865	1700016L04Rik	-	RIKEN cDNA 1700016L04 gene	ncRNA	148.5	267.0	194.5	3584.0	550.0	170.5	199.0	209.0
Merged-chr16-36067950-4	chr16	36067850	36068050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027342, intron 1 of 4)	intron (NM_027342, intron 1 of 4)	3565.0	NM_027342	70186.0	Mm.212991	NM_027342	ENSMUSG00000003955	Fam162a	2310056P07Rik|HGTD-P	family with sequence similarity 162, member A	protein-coding	33.5	34.5	15.5	274.0	66.5	26.0	24.5	35.0
Merged-chr5-24445238-4	chr5	24445116	24445316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023229)	promoter-TSS (NM_023229)	19.0	NM_023229	66587.0	Mm.28123	NM_023229	ENSMUSG00000028959	Fastk	0610011K02Rik|610011K02Rik	Fas-activated serine/threonine kinase	protein-coding	103.0	127.5	142.5	1776.5	196.5	96.5	116.5	88.0
Merged-chr3-19310232-4	chr3	19310151	19310351	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122759, intron 1 of 12)	intron (NM_001122759, intron 1 of 12)	1071.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	12.5	17.5	13.5	321.5	31.0	7.5	18.0	2.0
Merged-chr7-46846418-4	chr7	46846324	46846524	+	970.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136069)	promoter-TSS (NM_001136069)	620.0	NR_102727	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	16.5	24.0	14.5	287.5	31.5	17.5	18.5	25.5
Merged-chr7-24385047-4	chr7	24384947	24385147	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008433, exon 9 of 9)	3' UTR (NM_008433, exon 9 of 9)	-14581.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	6.5	8.0	7.5	113.0	25.5	4.5	11.5	7.5
Merged-chr8-46336512-4	chr8	46336409	46336609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41838.0	NM_173789	234219.0	Mm.145631	NM_173789	ENSMUSG00000047171	Helt	A830086M02|Hesl|Heslike|Mgn|megane	helt bHLH transcription factor	protein-coding	53.5	93.0	76.5	1071.5	220.0	49.5	89.0	90.5
Merged-chr7-104200013-4	chr7	104199919	104200119	+	806.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9814.0	NM_147055	259057.0	Mm.223438	NM_147055	ENSMUSG00000044899	Olfr649	MOR31-7	olfactory receptor 649	protein-coding	14.0	13.0	6.0	109.0	18.0	14.0	14.5	5.5
Merged-chr9-74952916-4	chr9	74952831	74953031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113283)	promoter-TSS (NM_001113283)	51.0	NR_153342	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	104.0	151.0	115.5	1224.0	325.0	112.5	171.5	115.0
Merged-chr10-117709501-3	chr10	117709423	117709623	+	673.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288586, intron 2 of 10)	intron (NM_001288586, intron 2 of 10)	1235.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	7.5	11.0	10.0	41.0	11.0	4.5	4.5	3.5
Merged-chr2-174328621-2	chr2	174328521	174328721	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310083, exon 2 of 13)	5' UTR (NM_001310083, exon 2 of 13)	707.0	NR_003258	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	7.5	2.5	14.0	63.5	14.0	9.0	11.0	30.0
Merged-chr12-100319929-3	chr12	100319799	100319999	+	806.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 19 of 19)	intron (NM_001033213, intron 19 of 19)	43290.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	9.0	9.5	8.5	162.5	6.0	5.5	3.0	6.5
Merged-chr5-139775735-4	chr5	139775644	139775844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026748)	promoter-TSS (NM_026748)	-66.0	NM_026748	68510.0	Mm.292942	NM_026748	ENSMUSG00000029547	Ints1	1110015K06Rik	integrator complex subunit 1	protein-coding	70.5	72.5	43.5	825.5	129.5	35.0	46.0	50.0
Merged-chr9-7763952-4	chr9	7763826	7764026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133739)	promoter-TSS (NM_133739)	-151.0	NM_133739	71929.0	Mm.283293	NM_133739	ENSMUSG00000050912	Tmem123	2310075C12Rik	transmembrane protein 123	protein-coding	293.5	577.5	452.0	5627.5	947.0	346.0	484.5	347.0
Merged-chr9-103365906-4	chr9	103365778	103365978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134427)	promoter-TSS (NM_001134427)	-98.0	NM_175565	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	335.5	590.5	356.0	4731.0	918.5	418.0	445.5	388.5
Merged-chr19-46483788-4	chr19	46483670	46483870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 11 of 11)	intron (NM_001025391, intron 11 of 11)	-17878.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	37.5	47.0	54.5	743.5	67.0	30.5	53.5	41.0
Merged-chr5-112298358-4	chr5	112298271	112298471	+	976.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	21680.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	19.0	12.0	22.0	370.0	45.5	8.5	18.0	34.0
Merged-chr10-45486288-3	chr10	45486225	45486425	+	912.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16124.0	NM_001031772	380669.0	Mm.440328	NM_001031772	ENSMUSG00000063804	Lin28b	2810403D23Rik|D030047M17Rik|Lin-28.2	lin-28 homolog B (C. elegans)	protein-coding	6.0	14.0	5.0	67.5	12.0	4.5	7.5	18.5
Merged-chr19-46338713-4	chr19	46338589	46338789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164295)	promoter-TSS (NM_001164295)	-29.0	NM_001164292	67116.0	Mm.218848	NM_024192	ENSMUSG00000036748	Cuedc2	3010002G01Rik	CUE domain containing 2	protein-coding	62.5	108.5	40.5	680.5	176.5	54.0	31.0	63.5
Merged-chr2-28517418-4	chr2	28517323	28517523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009058, intron 1 of 17)	intron (NM_009058, intron 1 of 17)	4256.0	NM_001145834	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	53.0	68.0	28.5	428.5	138.5	39.0	45.5	27.5
Merged-chr16-24859952-4	chr16	24859831	24860031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 9 of 12)	intron (NM_178665, intron 9 of 12)	138076.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	55.0	72.5	38.5	716.5	133.0	49.0	61.0	46.0
Merged-chr5-115279803-4	chr5	115279781	115279981	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026504, exon 1 of 7)	exon (NM_026504, exon 1 of 7)	179.0	NM_026504	52064.0	Mm.290142	NM_026504	ENSMUSG00000041733	Coq5	1810014G04Rik|D5Ertd33e	coenzyme Q5 methyltransferase	protein-coding	14.5	23.5	9.5	119.5	27.5	13.0	7.0	17.0
Merged-chr1-136675567-3	chr1	136675460	136675660	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-7836.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	14.5	21.5	14.0	142.0	30.0	20.5	10.0	12.5
Merged-chr1-183936453-2	chr1	183936342	183936542	+	742.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97556.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	4.5	4.5	10.0	46.0	20.0	3.0	7.0	3.5
Merged-chr2-145804118-4	chr2	145804032	145804232	+	809.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	18016.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	10.5	9.0	10.0	118.5	12.5	12.5	12.5	12.0
Merged-chr13-99334221-4	chr13	99334138	99334338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 4 of 9)	RMER16_Mm|LTR|ERVK	10440.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	28.0	50.0	49.5	338.5	107.0	36.5	25.0	47.0
Merged-chr5-66259899-3	chr5	66259822	66260022	+	838.25	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_027602)	promoter-TSS (NM_027602)	24.0	NM_001302834	70918.0	Mm.23166	NM_027602	ENSMUSG00000029206	Nsun7	4921525L17Rik	NOL1/NOP2/Sun domain family, member 7	protein-coding	6.5	10.5	12.5	141.0	43.0	10.0	18.5	13.5
Merged-chr10-80806067-3	chr10	80805973	80806173	+	908.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007445, exon 2 of 5)	exon (NM_007445, exon 2 of 5)	825.0	NM_007445	11705.0	Mm.376094	NM_007445	ENSMUSG00000035262	Amh	MIS	anti-Mullerian hormone	protein-coding	7.0	24.0	3.5	51.5	44.0	8.5	14.0	15.5
Merged-chr15-59457377-4	chr15	59457272	59457472	+	973.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	83174.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	22.0	50.0	25.5	437.0	81.5	22.5	25.0	14.0
Merged-chr5-121871203-6	chr5	121871077	121871277	+	913.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 17 of 22)	intron (NM_007804, intron 17 of 22)	22180.0	NM_001359949	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	6.0	4.5	6.5	28.5	9.0	6.0	9.5	9.0
Merged-chr14-14632735-3	chr14	14632602	14632802	+	841.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70323.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	6.5	12.5	16.0	125.5	13.0	5.0	7.0	6.0
Merged-chr9-21031501-4	chr9	21031389	21031589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008319)	promoter-TSS (NM_008319)	-549.0	NM_008319	15898.0	Mm.4629	NM_008319	ENSMUSG00000032174	Icam5	CD50|ICAM-3|Icam3|TLN|Tlcn	intercellular adhesion molecule 5, telencephalin	protein-coding	19.5	57.0	15.0	443.5	81.5	34.5	29.5	37.5
Merged-chr5-120528495-4	chr5	120528401	120528601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 12 of 13)	PB1D7|SINE|Alu	17309.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	14.0	22.5	21.0	533.0	44.0	9.0	19.0	31.0
Merged-chr7-25781633-4	chr7	25781559	25781759	+	889.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 4 of 19)	intron (NM_009465, intron 4 of 19)	7074.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	15.5	20.5	7.5	148.0	29.5	8.5	5.0	10.5
Merged-chr4-33303223-1	chr4	33303123	33303323	+	663.5	f0_balb.idr	Intergenic	RMER1B|Other|Other	-7088.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	4.0	11.0	7.5	95.0	16.5	8.0	10.5	8.0
Merged-chr4-143389368-4	chr4	143389219	143389419	+	740.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5122.0	NM_031377	83491.0	Mm.190607	NM_031377	ENSMUSG00000041805	Pramel1	-	preferentially expressed antigen in melanoma-like 1	protein-coding	11.5	6.5	8.0	53.0	13.0	7.0	7.0	10.0
Merged-chr11-23597501-3	chr11	23597405	23597605	+	905.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027860, intron 12 of 21)	intron (NM_027860, intron 12 of 21)	36126.0	NM_001347242	71675.0	Mm.48031	NM_027860	ENSMUSG00000042208	0610010F05Rik	Kiaa1841|mKIAA1841	RIKEN cDNA 0610010F05 gene	protein-coding	8.5	10.5	9.5	173.5	13.0	2.0	7.0	11.0
Merged-chr17-50735598-4	chr17	50735505	50735705	+	888.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001285991, exon 23 of 23)	3' UTR (NM_001285991, exon 23 of 23)	36924.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	1.5	11.5	1.0	78.0	78.0	16.5	30.0	21.0
Merged-chr19-23141616-3	chr19	23141521	23141721	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010638, exon 1 of 2)	5' UTR (NM_010638, exon 1 of 2)	395.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	33.0	34.0	39.0	403.5	70.0	17.0	16.5	29.0
Merged-chr10-93161698-8	chr10	93161549	93161749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146239, intron 1 of 16)	CpG	773.0	NM_146239	237459.0	Mm.217404	NM_146239	ENSMUSG00000020015	Cdk17	6430598J10Rik|Pctk2	cyclin-dependent kinase 17	protein-coding	35.0	65.0	27.5	312.5	90.0	41.0	47.0	29.5
Merged-chr3-96226915-4	chr3	96226833	96227033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11D|LTR|ERVK	5861.0	NM_178214	319190.0	Mm.439791	NM_178214	ENSMUSG00000068854	Hist2h2be	AV127319|H2b-613|T25626	histone cluster 2, H2be	protein-coding	92.5	122.5	82.5	1328.5	274.5	94.0	133.5	106.5
Merged-chr11-87212507-4	chr11	87212403	87212603	+	853.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197987, intron 22 of 23)	intron (NM_197987, intron 22 of 23)	85428.0	NM_197987	68729.0	Mm.17436	NM_197987	ENSMUSG00000018548	Trim37	1110032A10Rik|2810004E07Rik|AI848587|AU043018|MUL|TEF3|mKIAA0898	tripartite motif-containing 37	protein-coding	18.5	22.0	6.0	111.5	20.0	6.5	10.0	7.5
Merged-chr2-18681112-4	chr2	18680990	18681190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007552, intron 1 of 9)	CpG	4072.0	NM_007552	12151.0	Mm.289584	NM_007552	ENSMUSG00000026739	Bmi1	AW546694|Bmi-1|Pcgf4	Bmi1 polycomb ring finger oncogene	protein-coding	41.5	91.0	32.5	800.5	206.0	66.5	64.0	88.5
Merged-chr4-126967919-2	chr4	126967819	126968019	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357201)	promoter-TSS (NM_001357201)	4.0	NM_001357201	67785.0	Mm.165401	NM_001114399	ENSMUSG00000042446	Zmym4	6330503C17Rik|AI480785|AW493829|CDIR|D630001M21|MYM|Zfp262|Znf262|mKIAA0425	zinc finger, MYM-type 4	protein-coding	11.5	16.5	11.0	107.5	34.0	12.5	12.5	13.0
Merged-chr10-116950426-4	chr10	116950275	116950475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038025)	promoter-TSS (NR_038025)	78.0	NM_001359645	216363.0	Mm.336394	NM_001003950	ENSMUSG00000064181	Rab3ip	B230311A06|Gtpat12|Rabin3	RAB3A interacting protein	protein-coding	90.0	134.0	91.0	1961.0	251.0	81.5	97.0	87.0
Merged-chr2-153214868-4	chr2	153214755	153214955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10586.0	NM_198617	241732.0	Mm.277243	NM_198617	ENSMUSG00000074671	Tspyl3	AW212607|Gm36	TSPY-like 3	protein-coding	199.5	280.0	244.0	2744.5	398.0	147.0	186.0	155.5
Merged-chr9-14500540-4	chr9	14500452	14500652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023153)	promoter-TSS (NM_023153)	-67.0	NM_023153	66070.0	Mm.245938	NM_023153	ENSMUSG00000004096	Cwc15	0610040D20Rik|2900052N06Rik|Ed1|c11orf5|mED1	CWC15 spliceosome-associated protein	protein-coding	232.5	303.0	214.0	3823.0	653.5	222.0	279.5	248.0
Merged-chr17-65630278-4	chr17	65630170	65630370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9486.0	NM_153519	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	97.0	127.0	107.5	1178.0	196.5	71.5	87.5	48.0
Merged-chr12-24710331-4	chr12	24710235	24710435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009104, intron 4 of 9)	intron (NM_009104, intron 4 of 9)	2081.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	51.5	57.0	28.5	348.0	129.5	54.0	50.0	57.0
Merged-chr3-54680238-3	chr3	54680153	54680353	+	631.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12562.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	7.0	10.5	14.5	85.5	13.0	7.0	6.0	9.0
Merged-chr5-122637963-3	chr5	122637841	122638041	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5970.0	NM_001038839	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	37.5	66.0	25.0	382.5	19.0	7.5	7.0	6.5
Merged-chr4-154928200-4	chr4	154928147	154928347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178931)	promoter-TSS (NM_178931)	-170.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	35.5	39.0	26.0	330.5	64.0	18.0	28.0	20.0
Merged-chr15-103313584-4	chr15	103313499	103313699	+	923.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013866)	TTS (NM_013866)	-3161.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	21.5	48.5	24.5	189.5	41.0	30.0	10.5	13.0
Merged-chr2-172370621-4	chr2	172370628	172370828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291185)	promoter-TSS (NM_001291185)	-158.0	NM_011497	20878.0	Mm.249363	NM_011497	ENSMUSG00000027496	Aurka	AIRK1|ARK-1|AU019385|AW539821|Ark1|Aurora-A|Ayk1|IAK|IAK1|Stk6	aurora kinase A	protein-coding	82.5	136.0	100.5	910.0	180.0	85.5	84.0	72.0
Merged-chr8-106893623-4	chr8	106893535	106893735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011574)	promoter-TSS (NM_011574)	-5.0	NM_011574	21771.0	Mm.10665	NM_011574	ENSMUSG00000041438	Utp4	Cirh1a|Cirhin|Naic|Teg-292|Tex292	UTP4 small subunit processome component	protein-coding	50.0	83.0	40.0	586.0	137.0	68.0	69.5	51.5
Merged-chr2-145903283-4	chr2	145903194	145903394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141965)	promoter-TSS (NM_001141965)	53.0	NM_001141965	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	74.0	116.5	110.0	1057.0	153.5	72.5	80.0	92.0
Merged-chr9-61707905-3	chr9	61707808	61708008	+	915.0476070000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206602.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	4.0	8.5	10.0	118.0	11.0	5.5	6.0	8.5
Merged-chr5-122285209-1	chr5	122285109	122285309	+	593.0	f0_c57.idr	intron (NM_177242, intron 1 of 5)	CpG	811.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	5.0	4.0	5.0	42.5	12.5	4.5	11.5	13.5
Merged-chr14-75015995-4	chr14	75015893	75016093	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198642)	promoter-TSS (NM_198642)	-34.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	14.0	31.0	20.0	221.5	59.5	25.5	21.5	32.0
Merged-chr15-95768942-4	chr15	95768844	95769044	+	880.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17353.0	NR_131148	629300.0	Mm.247258	NR_131148	ENSMUSG00000115699	Gm6961	EG629300	predicted gene 6961	ncRNA	18.0	14.0	16.5	198.5	18.5	4.5	12.5	10.0
Merged-chr10-121376616-4	chr10	121376515	121376715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 4 of 13)	intron (NM_029364, intron 4 of 13)	11525.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	27.0	39.0	40.5	643.0	62.5	33.0	25.5	38.5
Merged-chr16-30023573-4	chr16	30023478	30023678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045878, intron 3 of 3)	intron (NR_045878, intron 3 of 3)	14911.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	17.0	37.0	38.5	660.0	157.5	41.0	71.5	42.5
Merged-chr12-109530125-3	chr12	109530023	109530223	+	876.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10873.0	NR_027652	17263.0	Mm.289645	NM_144513	ENSMUSG00000021268	Meg3	2900016C05Rik|3110050O07Rik|6330408G06Rik|AI425946|AW108224|D12Bwg1266e|Gtl2|R74756|R75394	maternally expressed 3	ncRNA	8.0	5.5	6.5	57.0	27.5	9.0	7.0	3.5
Merged-chr4-59596795-4	chr4	59596685	59596885	+	913.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301367, intron 5 of 11)	intron (NM_001301367, intron 5 of 11)	15222.0	NM_024255	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	14.5	10.0	15.0	320.5	30.5	12.0	12.0	20.5
Merged-chr9-66305399-4	chr9	66305302	66305502	+	801.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45048.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	4.0	11.0	5.0	154.0	23.0	5.0	5.5	9.5
Merged-chr19-37547026-4	chr19	37546968	37547168	+	838.287476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3350.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	6.0	9.5	15.0	129.0	25.5	8.5	11.5	10.5
Merged-chr15-88863221-4	chr15	88863141	88863341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145478, exon 4 of 6)	exon (NM_145478, exon 4 of 6)	1047.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	22.5	37.0	32.5	306.0	77.0	27.0	18.0	41.0
Merged-chr2-165055621-4	chr2	165055526	165055726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170704)	promoter-TSS (NM_170704)	-10.0	NM_170704	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	41.5	118.0	36.5	425.5	130.0	64.5	74.5	33.5
Merged-chr1-57472398-4	chr1	57472312	57472512	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-65738.0	NM_001302963	68736.0	Mm.288490	NM_001037742	ENSMUSG00000048495	Tyw5	1110034B05Rik	tRNA-yW synthesizing protein 5	protein-coding	24.5	34.5	18.5	495.5	64.0	29.0	26.5	22.0
Merged-chr15-73426163-4	chr15	73426062	73426262	+	726.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2971.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	16.5	13.0	7.5	200.5	18.5	8.5	12.0	17.5
Merged-chr11-115297606-4	chr11	115297498	115297698	+	952.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178035)	promoter-TSS (NM_178035)	-52.0	NM_178035	328035.0	Mm.21995	NM_178035	ENSMUSG00000044788	Fads6	BC044804	fatty acid desaturase domain family, member 6	protein-coding	20.5	17.0	15.0	181.5	30.5	10.0	13.0	15.0
Merged-chr2-102978002-4	chr2	102977895	102978095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76330.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	57.0	96.5	85.5	746.0	142.0	64.5	44.5	57.5
Merged-chr1-93446182-4	chr1	93446042	93446242	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301364)	promoter-TSS (NM_001301364)	-441.0	NM_001301364	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	14.0	26.5	33.5	425.0	55.5	12.0	21.0	21.0
Merged-chr1-106172821-7	chr1	106172749	106172949	+	971.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133821, exon 1 of 17)	exon (NM_133821, exon 1 of 17)	980.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	15.5	19.5	24.0	288.5	37.0	21.5	28.0	19.5
Merged-chr10-67966357-4	chr10	67966250	67966450	+	921.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152797, intron 2 of 2)	intron (NR_152797, intron 2 of 2)	7358.0	NR_152797	75067.0	Mm.416933	NR_152797	ENSMUSG00000112899	4930521O17Rik	-	RIKEN cDNA 4930521O17 gene	ncRNA	14.5	17.0	15.0	212.0	62.0	15.5	25.5	22.0
Merged-chr7-116409670-4	chr7	116409587	116409787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011083, intron 2 of 32)	intron (NM_011083, intron 2 of 32)	33771.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	53.0	101.5	71.5	1016.0	100.0	44.0	31.5	31.0
Merged-chr9-107587591-4	chr9	107587485	107587685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025903)	promoter-TSS (NM_025903)	-133.0	NM_025903	15983.0	Mm.215335	NM_025903	ENSMUSG00000010048	Ifrd2	1810034A24Rik|AA470234|AI838527|SKMc15	interferon-related developmental regulator 2	protein-coding	198.0	314.0	187.5	2792.5	423.5	179.0	252.0	156.5
Merged-chr4-129782044-4	chr4	129781954	129782154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38425.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	25.0	27.0	22.0	357.0	115.5	30.5	35.5	49.5
Merged-chr4-86668342-3	chr4	86668239	86668439	+	843.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007408, intron 3 of 7)	intron (NM_007408, intron 3 of 7)	1720.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	4.5	11.5	7.0	69.5	9.0	7.5	4.5	6.0
Merged-chr16-11317557-4	chr16	11317461	11317661	+	847.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011608, intron 2 of 2)	L1MA9|LINE|L1	3752.0	NM_011608	21935.0	Mm.12935	NM_011608	ENSMUSG00000022496	Tnfrsf17	BCM|BCMA|Tnfrsf13|Tnfrsf13a	tumor necrosis factor receptor superfamily, member 17	protein-coding	16.0	14.0	9.0	144.5	14.5	7.0	5.5	13.5
Merged-chr11-46120332-4	chr11	46120248	46120448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291891, intron 8 of 22)	intron (NM_001291891, intron 8 of 22)	-7556.0	NM_001311209	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	25.5	56.0	37.0	510.0	124.5	30.5	66.5	33.0
Merged-chr4-147922365-4	chr4	147922273	147922473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011122, intron 10 of 18)	MER58B|DNA|hAT-Charlie	14403.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	31.0	28.0	18.5	436.0	77.0	28.0	31.0	24.0
Merged-chr10-127569670-4	chr10	127569601	127569801	+	804.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 34 of 88)	intron (NM_008512, intron 34 of 88)	-35142.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	13.5	17.5	5.5	120.5	16.5	8.0	11.0	8.5
Merged-chr12-86146421-3	chr12	86146325	86146525	+	615.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029601, intron 4 of 7)	L1MA6|LINE|L1	-22916.0	NR_046081	328136.0	Mm.312050	NR_046081	ENSMUSG00000097543	Gm805	-	predicted gene 805	ncRNA	5.0	14.5	8.5	68.0	18.0	13.5	2.0	14.0
Merged-chr5-74618690-4	chr5	74618585	74618785	+	962.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359074, intron 5 of 10)	intron (NM_001359074, intron 5 of 10)	59187.0	NM_001159580	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	25.5	67.0	28.0	143.0	73.0	30.5	12.5	8.0
Merged-chr5-113643677-4	chr5	113643566	113643766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359060)	promoter-TSS (NM_001359060)	-63.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	44.0	98.5	44.5	598.5	155.0	59.5	41.5	33.0
Merged-chr10-62582824-3	chr10	62582744	62582944	+	906.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019553, intron 14 of 14)	intron (NM_019553, intron 14 of 14)	-4387.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	12.5	18.0	8.0	123.5	7.5	7.0	13.0	9.0
Merged-chr11-95503819-3	chr11	95503803	95504003	+	881.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10662.0	NM_130858	104079.0	Mm.22970	NM_130858	ENSMUSG00000046719	Nxph3	-	neurexophilin 3	protein-coding	8.0	12.0	12.5	94.0	15.5	4.0	3.5	7.0
Merged-chr9-31211191-3	chr9	31211091	31211291	+	977.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357698, intron 1 of 17)	CpG	657.0	NM_001357698	11804.0	Mm.19133	NM_009691	ENSMUSG00000031996	Aplp2	AI790698|APLP-2|CDEBP	amyloid beta (A4) precursor-like protein 2	protein-coding	5.5	5.5	20.5	85.5	27.0	9.5	6.5	15.0
Merged-chr5-64239514-2	chr5	64239414	64239614	+	872.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	intron (NM_001289514, intron 1 of 18)	9157.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	0.0	3.0	2.0	121.0	20.0	4.5	4.5	6.0
Merged-chr9-96637367-4	chr9	96637275	96637475	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5872.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	17.0	25.5	49.5	543.0	61.5	17.0	27.5	24.5
Merged-chr1-152902872-4	chr1	152902764	152902964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359257)	promoter-TSS (NM_001359257)	-218.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	110.5	202.5	95.5	1245.0	290.0	125.0	124.0	139.0
Merged-chr10-71353903-3	chr10	71353809	71354009	+	972.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	intron (NM_027184, intron 1 of 5)	6146.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	13.5	5.5	43.0	569.5	25.5	2.5	6.5	4.0
Merged-chr12-100885773-3	chr12	100885669	100885869	+	756.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177674, intron 2 of 2)	intron (NM_001177674, intron 2 of 2)	13755.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	6.5	13.0	7.0	138.0	16.5	3.0	11.5	3.5
Merged-chr7-101900503-1	chr7	101900403	101900603	+	1000.0	f0_balb.idr	TTS (NM_027532)	TTS (NM_027532)	3282.0	NM_001282088	791260.0	Mm.475469	NM_001081679	ENSMUSG00000078630	Tomt	Comt2|F930017I19Rik	transmembrane O-methyltransferase	protein-coding	18.5	15.5	21.5	289.0	29.0	13.5	6.5	22.0
Merged-chr11-51922548-3	chr11	51922477	51922677	+	786.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45054.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	10.0	7.5	5.0	79.0	15.5	4.5	5.0	3.0
Merged-chr15-26359034-4	chr15	26358928	26359128	+	916.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310774, intron 2 of 2)	intron (NM_001310774, intron 2 of 2)	49980.0	NM_001310774	211147.0	Mm.54257	NM_177597	ENSMUSG00000022269	March11	9630025C22	membrane-associated ring finger (C3HC4) 11	protein-coding	12.5	9.5	7.0	163.0	29.0	11.5	16.0	4.0
Merged-chr3-21988304-4	chr3	21988117	21988317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88435.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	31.5	15.0	46.5	680.5	34.5	19.0	24.0	21.0
Merged-chr1-135734325-4	chr1	135734225	135734425	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007791, intron 1 of 5)	intron (NM_007791, intron 1 of 5)	5158.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	7.0	18.5	12.5	311.0	44.0	10.5	22.0	17.5
Merged-chr2-118700345-4	chr2	118700253	118700453	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081971, exon 1 of 1)	3' UTR (NM_001081971, exon 1 of 1)	3610.0	NM_001081971	383787.0	Mm.35758	NM_001081971	ENSMUSG00000078137	Ankrd63	Gm1337	ankyrin repeat domain 63	protein-coding	21.0	16.5	10.5	195.0	56.5	14.5	18.0	12.5
Merged-chr16-10433528-4	chr16	10433437	10433637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013778, intron 1 of 6)	intron (NM_001013778, intron 1 of 6)	13825.0	NM_001359069	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	99.0	178.5	95.5	957.5	219.5	78.5	68.5	66.0
Merged-chr18-53229341-4	chr18	53229239	53229439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16323.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	46.0	50.5	66.0	1113.0	48.5	31.5	44.5	48.5
Merged-chr2-60948015-3	chr2	60947912	60948112	+	921.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	15192.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	11.0	7.5	8.0	156.0	16.0	3.0	7.0	12.0
Merged-chr16-92028283-4	chr16	92028199	92028399	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30023.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	19.0	22.0	25.5	457.5	33.0	10.5	1.5	24.5
Merged-chr10-81412382-3	chr10	81412291	81412491	+	587.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152732)	TTS (NR_152732)	2816.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	2.5	9.5	7.0	53.0	11.5	4.5	6.0	5.0
Merged-chr3-89087635-4	chr3	89087564	89087764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028188, intron 9 of 10)	intron (NM_028188, intron 9 of 10)	2367.0	NM_001083808	72296.0	Mm.27687	NM_028188	ENSMUSG00000041263	Rusc1	2210403N08Rik|AA408288|NESCA	RUN and SH3 domain containing 1	protein-coding	22.0	32.0	30.0	476.0	61.5	24.0	19.0	41.0
Merged-chr19-42129740-2	chr19	42129640	42129840	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027106)	promoter-TSS (NM_027106)	-747.0	NM_027106	69534.0	Mm.30060	NM_027106	ENSMUSG00000018821	Avpi1	2310008N12Rik|AA410041|VIT32|esu|mVIT32	arginine vasopressin-induced 1	protein-coding	27.5	17.5	9.0	165.5	19.0	13.0	7.5	10.5
Merged-chr5-31767003-4	chr5	31766899	31767099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 3 of 11)	intron (NM_144541, intron 3 of 11)	68949.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	40.5	43.5	41.0	636.5	83.5	21.0	30.5	38.0
Merged-chr4-54494981-1	chr4	54494881	54495081	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-452964.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	6.0	5.0	21.5	124.5	2.5	0.5	0.0	1.0
Merged-chr5-148489494-4	chr5	148489400	148489600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	62173.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	47.5	65.0	34.5	600.0	90.5	26.5	67.0	34.0
Merged-chr15-98634892-4	chr15	98634804	98635004	+	805.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001286226, exon 1 of 12)	5' UTR (NM_001286226, exon 1 of 12)	137.0	NM_001286226	12297.0	Mm.3544	NM_007581	ENSMUSG00000003352	Cacnb3	Beta3|CAB3|Ca(v)beta3|Cchb3	calcium channel, voltage-dependent, beta 3 subunit	protein-coding	2.5	8.5	11.0	102.5	23.0	6.0	8.5	8.5
Merged-chr13-107021866-5	chr13	107021684	107021884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015471)	promoter-TSS (NR_015471)	330.0	NM_001145779	16563.0	Mm.355686	NM_008442	ENSMUSG00000021693	Kif2a	C530030B14Rik|Kif2|Kns2|M-kinesin	kinesin family member 2A	protein-coding	9.5	27.5	18.0	250.0	36.5	20.0	24.0	22.0
Merged-chr9-41122520-4	chr9	41122425	41122625	+	971.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	ID4|SINE|ID	35537.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	11.5	31.0	26.0	476.5	52.0	19.0	25.5	14.0
Merged-chr17-65749986-2	chr17	65749877	65750077	+	828.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	22775.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	3.0	2.0	3.5	44.5	48.5	11.0	18.5	16.0
Merged-chr6-143168516-4	chr6	143168416	143168616	+	940.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029250, intron 1 of 7)	intron (NM_029250, intron 1 of 7)	1286.0	NM_029250	75320.0	Mm.272548	NM_029250	ENSMUSG00000030275	Etnk1	1110061E11Rik|4930555L11Rik|AI195356|AI841245|C80956|D6Ertd3e|EKI1	ethanolamine kinase 1	protein-coding	18.0	10.5	17.5	201.5	72.5	13.5	16.0	11.5
Merged-chr13-113421674-4	chr13	113421571	113421771	+	944.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81173.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	17.0	18.0	3.0	167.5	63.5	9.0	15.5	23.5
Merged-chr12-86800949-4	chr12	86800846	86801046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66577.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	65.5	85.5	45.5	720.0	121.5	44.0	46.0	48.5
Merged-chr19-29812966-4	chr19	29812852	29813052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177721)	promoter-TSS (NM_177721)	22.0	NM_177721	240614.0	Mm.125503	NM_177721	ENSMUSG00000074909	Ranbp6	C630001B19	RAN binding protein 6	protein-coding	31.0	55.5	50.5	468.0	82.5	29.5	40.0	25.5
Merged-chr2-27327192-4	chr2	27327075	27327275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 2 of 29)	intron (NR_133905, intron 2 of 29)	-79872.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	67.5	59.0	52.0	1016.5	80.0	19.5	50.0	35.0
Merged-chr8-46781290-3	chr8	46781194	46781394	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	41549.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	9.0	6.0	3.5	110.0	22.0	4.5	4.5	5.0
Merged-chr8-27128705-4	chr8	27128611	27128811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025686)	promoter-TSS (NM_025686)	-79.0	NM_025686	66653.0	Mm.334467	NM_025686	ENSMUSG00000031487	Brf2	2700059M06Rik|5730512K07Rik|AU018504|AU022602|BRFU|TFIIIB50	BRF2, RNA polymerase III transcription initiation factor 50kDa subunit	protein-coding	42.0	103.5	59.0	812.0	116.0	49.0	63.5	47.0
Merged-chr16-58512523-6	chr16	58512616	58512816	+	978.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	intron (NM_001357433, intron 1 of 10)	10710.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	6.5	9.5	12.0	106.5	17.5	4.0	6.0	11.5
Merged-chr7-129574691-4	chr7	129574595	129574795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17168.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	82.5	100.5	127.0	1917.0	206.5	70.5	112.5	99.5
Merged-chr10-41810068-4	chr10	41809986	41810186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243075)	promoter-TSS (NM_001243075)	-218.0	NM_026643	103268.0	Mm.338605	NM_026643	ENSMUSG00000019813	Cep57l1	2410017P07Rik|4930484D11Rik|AI607327|cep57R	centrosomal protein 57-like 1	protein-coding	90.5	148.5	122.0	1815.0	211.0	91.0	135.5	97.5
Merged-chr3-37705033-4	chr3	37704914	37705114	+	910.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	19346.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	14.0	26.0	14.0	205.5	32.5	9.5	30.5	6.5
Merged-chr18-36197385-4	chr18	36197266	36197466	+	847.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167891)	promoter-TSS (NM_001167891)	-206.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	9.0	13.0	4.0	208.0	20.5	5.5	16.0	16.0
Merged-chr5-135772714-4	chr5	135772605	135772805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029659, intron 1 of 8)	intron (NM_029659, intron 1 of 8)	5596.0	NM_001289554	76571.0	Mm.247666	NM_029659	ENSMUSG00000019178	Styxl1	1700011C14Rik|Dusp24|Mkstyx	serine/threonine/tyrosine interacting-like 1	protein-coding	40.5	42.0	55.5	629.5	102.0	31.0	32.0	52.0
Merged-chr1-40240658-4	chr1	40240560	40240760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008362, intron 1 of 10)	intron (NM_008362, intron 1 of 10)	15580.0	NM_008362	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	39.0	68.0	61.0	690.0	69.5	41.5	45.0	36.5
Merged-chr9-35282588-4	chr9	35282505	35282705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040715, intron 2 of 4)	intron (NR_040715, intron 2 of 4)	1500.0	NR_040715	71133.0	Mm.158577	NR_040715	ENSMUSG00000111746	4933422A05Rik	-	RIKEN cDNA 4933422A05 gene	ncRNA	43.5	52.0	30.5	594.5	96.0	37.0	39.0	37.0
Merged-chr6-47595111-4	chr6	47595013	47595213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146689)	promoter-TSS (NM_001146689)	-83.0	NM_007971	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	226.0	314.5	191.5	3177.5	508.0	176.5	231.5	225.5
Merged-chr9-120934139-4	chr9	120933996	120934196	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007614, intron 1 of 14)	CpG	518.0	NM_001165902	12387.0	Mm.291928	NM_007614	ENSMUSG00000006932	Ctnnb1	Bfc|Catnb|Mesc	catenin (cadherin associated protein), beta 1	protein-coding	13.5	39.5	10.0	180.5	49.5	20.0	8.5	15.5
Merged-chr8-11549862-4	chr8	11549782	11549982	+	883.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359137, intron 2 of 14)	intron (NM_001359137, intron 2 of 14)	889.0	NM_024248	71941.0	Mm.196576	NM_024248	ENSMUSG00000056228	Cars2	2310051N18Rik|2410044A07Rik|D530030H10Rik|cysRS	cysteinyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	13.0	17.5	5.0	114.0	29.0	12.0	19.5	16.0
Merged-chr3-80958818-3	chr3	80958713	80958913	+	818.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45153.0	NM_001345955	14658.0	Mm.275639	NM_010298	ENSMUSG00000028020	Glrb	AI853901|Glyrb|spa|spastic	glycine receptor, beta subunit	protein-coding	10.5	6.0	11.0	159.0	33.5	4.0	8.0	8.5
Merged-chr1-180884488-4	chr1	180884420	180884620	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-8588.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	9.5	19.0	23.5	168.5	41.0	14.5	14.5	14.5
Merged-chr1-39944532-3	chr1	39944435	39944635	+	820.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	43622.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	11.0	10.5	12.5	240.5	12.0	4.0	11.5	11.5
Merged-chr15-67991692-2	chr15	67991592	67991792	+	684.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	267164.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	5.5	6.0	5.5	64.5	7.0	0.5	0.5	0.5
Merged-chr8-95037185-4	chr8	95037095	95037295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173036, intron 8 of 11)	intron (NM_173036, intron 8 of 11)	-17908.0	NM_001042715	330830.0	Mm.277112	NM_001042715	ENSMUSG00000031786	Drc7	Ccdc135|Gm770|SRG-L|SRG-S	dynein regulatory complex subunit 7	protein-coding	69.5	106.0	57.5	1008.5	195.5	36.0	79.5	64.0
Merged-chr10-7667476-4	chr10	7667370	7667570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145706)	promoter-TSS (NM_145706)	-34.0	NM_145706	69912.0	Mm.299887	NM_145706	ENSMUSG00000040034	Nup43	2610016K01Rik|2610529I12Rik|AA409950|p42	nucleoporin 43	protein-coding	53.0	81.5	27.5	831.0	126.5	66.5	74.5	52.0
Merged-chr6-65672857-2	chr6	65672757	65672957	+	730.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172399, intron 1 of 3)	CpG	1246.0	NM_172399	68169.0	Mm.52392	NM_172399	ENSMUSG00000049001	Ndnf	A930038C07Rik|epidermacan	neuron-derived neurotrophic factor	protein-coding	4.0	6.0	3.0	29.0	12.0	5.5	5.5	7.5
Merged-chr5-24686861-4	chr5	24686706	24686906	+	911.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305264, intron 1 of 14)	B1_Mur2|SINE|Alu	991.0	NM_001305264	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	7.5	17.5	6.0	38.0	44.0	9.0	12.5	10.5
Merged-chr11-50018962-4	chr11	50018869	50019069	+	799.512512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6362.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	14.5	21.0	13.0	161.5	25.5	4.0	8.5	16.5
Merged-chr6-50681920-3	chr6	50681815	50682015	+	612.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27522.0	NM_021892	60531.0	Mm.157158	NM_021892	ENSMUSG00000029831	Npvf	Rfrp	neuropeptide VF precursor	protein-coding	6.0	4.5	8.5	116.0	9.0	2.5	2.5	2.0
Merged-chr7-141467392-4	chr7	141467282	141467482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009842)	promoter-TSS (NM_009842)	20.0	NM_001111049	12476.0	Mm.30246	NM_009842	ENSMUSG00000025510	Cd151	PETA-3|SFA-1|Tspan24	CD151 antigen	protein-coding	38.0	39.5	33.5	269.0	67.5	37.5	42.0	30.0
Merged-chr10-110920109-4	chr10	110920042	110920242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007792)	promoter-TSS (NM_007792)	-34.0	NM_007792	13008.0	Mm.2020	NM_007792	ENSMUSG00000020186	Csrp2	AW551867|Crp2|SmLim	cysteine and glycine-rich protein 2	protein-coding	177.5	259.0	160.5	2734.5	366.0	135.0	165.0	180.0
Merged-chr15-102461277-4	chr15	102461260	102461460	+	848.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025385, intron 4 of 4)	intron (NM_025385, intron 4 of 4)	2190.0	NM_025385	66151.0	Mm.393955	NM_025385	ENSMUSG00000023048	Prr13	1110020C13Rik|2010324E22Rik	proline rich 13	protein-coding	3.0	16.0	12.5	76.0	19.5	13.5	8.0	8.5
Merged-chr9-21871040-1	chr9	21870940	21871140	+	547.0	f1_c57bl6.idr	Intergenic	Intergenic	-18405.0	NM_177030	319899.0	Mm.128153	NM_177030	ENSMUSG00000032198	Dock6	2410095B20Rik|4931431C02Rik|C330023D02Rik|mKIAA1395	dedicator of cytokinesis 6	protein-coding	7.0	10.5	5.5	49.5	4.5	1.0	2.0	4.0
Merged-chr3-51327738-5	chr3	51327667	51327867	+	883.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	L1M4c|LINE|L1	12877.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	10.0	13.0	4.5	110.0	16.5	8.5	5.5	16.5
Merged-chr13-23464650-3	chr13	23464466	23464666	+	733.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013483, exon 3 of 8)	exon (NM_013483, exon 3 of 8)	1335.0	NM_013483	12231.0	Mm.1420	NM_013483	ENSMUSG00000000706	Btn1a1	Btn	butyrophilin, subfamily 1, member A1	protein-coding	7.5	8.0	8.0	58.0	10.0	2.0	3.0	5.5
Merged-chr5-31201208-4	chr5	31201110	31201310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177901, intron 1 of 2)	intron (NM_001177901, intron 1 of 2)	832.0	NM_001177901	101023.0	Mm.45033	NM_175311	ENSMUSG00000043059	Zfp513	AW990386|D430028M17Rik|Znf513	zinc finger protein 513	protein-coding	24.5	37.0	24.0	326.5	101.0	10.0	22.5	20.0
Merged-chr18-38246167-3	chr18	38246064	38246264	+	775.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015475, intron 1 of 3)	intron (NR_015475, intron 1 of 3)	4034.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	10.0	12.5	10.5	207.0	3.5	2.5	6.5	5.5
Merged-chr1-153952153-1	chr1	153952053	153952253	+	955.0	f0_balb.idr	Intergenic	MLTR14|LTR|ERV1	52224.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	12.0	4.5	5.0	172.0	6.0	4.0	5.5	6.5
Merged-chr18-36514220-4	chr18	36514183	36514383	+	945.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010415, intron 2 of 5)	intron (NM_010415, intron 2 of 5)	1522.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	12.0	20.0	22.0	136.0	23.5	11.0	20.0	18.5
Merged-chr9-40807039-4	chr9	40806943	40807143	+	902.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5770.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	14.5	16.0	11.5	182.0	29.5	8.5	5.5	12.5
Merged-chr1-36272690-4	chr1	36272586	36272786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153408, intron 1 of 3)	intron (NM_153408, intron 1 of 3)	739.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	51.0	69.5	23.5	591.5	97.5	20.5	44.5	40.5
Merged-chr1-54832882-3	chr1	54832721	54832921	+	728.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	(GGGA)n|Simple_repeat|Simple_repeat	93566.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	8.5	6.0	5.5	88.5	17.5	6.0	3.0	3.0
Merged-chr16-9133007-4	chr16	9132945	9133145	+	753.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR41C|LTR|ERV1	302945.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	3.5	10.0	8.0	85.5	20.0	10.0	8.5	9.5
Merged-chr7-118522243-4	chr7	118522129	118522329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304758, intron 5 of 6)	ORR1E|LTR|ERVL-MaLR	11127.0	NM_001304758	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	44.0	94.0	56.5	1040.0	99.0	42.0	68.0	54.0
Merged-chr1-60960719-4	chr1	60960631	60960831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17183.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	29.5	38.5	26.0	629.0	91.5	23.5	30.5	26.5
Merged-chr7-114316595-4	chr7	114316506	114316706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029437, intron 3 of 3)	intron (NR_029437, intron 3 of 3)	-40490.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	38.0	33.0	48.0	925.0	52.0	21.0	60.5	63.0
Merged-chr15-79927839-4	chr15	79927746	79927946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144811, intron 2 of 6)	CpG	4800.0	NM_144811	52609.0	Mm.323442	NM_144811	ENSMUSG00000053411	Cbx7	1600014J01Rik|AI851678|D15Ertd417e	chromobox 7	protein-coding	37.5	63.0	42.0	594.5	70.0	29.5	29.0	34.0
Merged-chr9-72449608-3	chr9	72449502	72449702	+	991.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008613, intron 7 of 9)	intron (NM_008613, intron 7 of 9)	11073.0	NM_008613	17427.0	Mm.387671	NM_008613	ENSMUSG00000032221	Mns1	AW546487	meiosis-specific nuclear structural protein 1	protein-coding	3.5	3.5	5.5	81.0	96.5	19.0	47.0	33.5
Merged-chr11-70897919-4	chr11	70897814	70898014	+	853.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019400, intron 5 of 17)	intron (NM_019400, intron 5 of 17)	53153.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	16.0	26.5	8.5	200.5	16.5	8.0	8.5	8.5
Merged-chr19-46934259-1	chr19	46934159	46934359	+	889.1666869999999	f0_balb.idr	intron (NM_029810, intron 2 of 17)	L1ME1|LINE|L1	28092.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	15.5	14.0	19.5	216.0	10.0	2.0	5.5	8.0
Merged-chr13-55571120-4	chr13	55571013	55571213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145382)	promoter-TSS (NM_145382)	7.0	NM_145382	212483.0	Mm.35661	NM_145382	ENSMUSG00000021495	Fam193b	IRIZIO|Kiaa1931	family with sequence similarity 193, member B	protein-coding	58.5	91.0	43.5	656.5	172.5	45.5	51.5	42.0
Merged-chr5-80855225-4	chr5	80855110	80855310	+	954.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-165361.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	5.5	7.5	16.5	180.5	50.0	14.5	13.0	9.0
Merged-chr8-57652593-8	chr8	57652440	57652640	+	989.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040698, intron 1 of 3)	CpG	515.0	NM_001167981	108150.0	Mm.62886	NM_144731	ENSMUSG00000031608	Galnt7	AI225872	polypeptide N-acetylgalactosaminyltransferase 7	protein-coding	18.5	26.5	20.0	410.0	63.5	19.0	35.5	25.0
Merged-chr18-23495909-1	chr18	23495809	23496009	+	711.5	f0_balb.idr	intron (NM_001361217, intron 2 of 20)	intron (NM_001361217, intron 2 of 20)	-1573.0	NM_001361215	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	9.5	6.0	10.0	118.0	2.0	0.0	0.0	1.0
Merged-chr19-16132556-4	chr19	16132459	16132659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008139)	promoter-TSS (NM_008139)	-272.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	135.5	189.0	131.0	2055.0	298.5	105.5	166.0	90.0
Merged-chr10-95840126-4	chr10	95840021	95840221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-100542.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	40.5	29.5	69.5	1041.5	46.5	28.0	29.5	33.5
Merged-chr11-102434603-4	chr11	102434503	102434703	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008175, intron 7 of 12)	intron (NM_008175, intron 7 of 12)	4281.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	14.0	37.5	16.0	181.0	70.0	20.5	30.0	39.0
Merged-chr9-57820668-4	chr9	57820570	57820770	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019689, intron 1 of 7)	intron (NM_019689, intron 1 of 7)	13564.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	11.0	22.0	21.0	167.0	22.5	8.5	4.5	12.5
Merged-chr17-33563932-4	chr17	33563850	33564050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053214, intron 1 of 27)	L3b|LINE|CR1	8243.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	53.5	97.5	70.0	1022.5	123.5	58.0	60.5	65.0
Merged-chr10-128493902-4	chr10	128493811	128494011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010860)	promoter-TSS (NM_010860)	-25.0	NM_010860	17904.0	Mm.337074	NM_010860	ENSMUSG00000090841	Myl6	ESMLC|LC17|LC17-GI|MLC-3|MLC1SM|Myln	myosin, light polypeptide 6, alkali, smooth muscle and non-muscle	protein-coding	70.0	117.5	47.5	948.5	216.5	87.0	117.5	83.0
Merged-chr13-56774419-4	chr13	56774287	56774487	+	864.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302372, intron 11 of 11)	intron (NM_001302372, intron 11 of 11)	70719.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	9.0	10.5	5.5	131.5	16.0	8.0	6.0	11.0
Merged-chr7-80033543-4	chr7	80033437	80033637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	ID4|SINE|ID	7309.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	41.0	60.0	28.0	411.5	154.5	40.5	33.0	64.5
Merged-chr12-4476571-4	chr12	4476428	4476628	+	767.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010881, intron 1 of 22)	intron (NM_010881, intron 1 of 22)	654.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	21.5	13.0	16.5	130.5	33.0	8.5	9.5	6.5
Merged-chr10-94966927-4	chr10	94966822	94967022	+	881.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22344.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	13.0	12.0	10.0	128.0	27.5	5.0	9.5	11.5
Merged-chr11-59534537-4	chr11	59534452	59534652	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-7017.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	18.5	10.5	10.0	119.5	30.5	14.5	18.0	17.5
Merged-chr5-65696935-4	chr5	65696839	65697039	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081321, intron 1 of 31)	CpG-11111	917.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	30.0	25.0	18.5	277.5	68.5	23.0	17.0	25.0
Merged-chr11-31877786-3	chr11	31877662	31877862	+	850.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026252, intron 1 of 9)	intron (NM_026252, intron 1 of 9)	6822.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	2.0	14.0	2.0	10.0	37.5	10.5	9.0	4.5
Merged-chr6-35134722-3	chr6	35134590	35134790	+	863.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164411)	promoter-TSS (NM_001164411)	-953.0	NM_001164414	53621.0	Mm.214525	NM_016877	ENSMUSG00000038784	Cnot4	Not4|Not4h|Not4hp	CCR4-NOT transcription complex, subunit 4	protein-coding	8.0	8.0	10.5	88.0	20.0	2.0	5.0	7.0
Merged-chr13-4663042-4	chr13	4662960	4663160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53896.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	125.0	170.5	74.0	2035.5	360.0	162.0	190.0	150.0
Merged-chr17-70999356-4	chr17	70999243	70999443	+	892.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026064, intron 1 of 3)	intron (NM_026064, intron 1 of 3)	-1331.0	NM_001357820	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	14.5	15.0	11.0	190.0	40.5	8.5	12.5	12.0
Merged-chr6-30300576-4	chr6	30300499	30300699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009459, intron 1 of 6)	intron (NM_009459, intron 1 of 6)	3940.0	NM_009459	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	31.0	34.5	39.5	507.5	58.5	12.0	32.0	31.0
Merged-chr6-127374975-2	chr6	127374875	127375075	+	644.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67008.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	8.0	4.5	5.5	42.5	8.0	3.5	0.0	3.5
Merged-chr15-59807951-4	chr15	59807853	59808053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12994.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	155.5	249.0	216.5	2493.5	413.0	175.0	224.0	169.5
Merged-chr16-36670015-1	chr16	36669915	36670115	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-3938.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	19.5	30.5	21.5	232.5	32.0	10.0	22.5	20.0
Merged-chr19-45058466-4	chr19	45058354	45058554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10878.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	96.5	144.5	80.5	1184.5	244.5	97.0	73.5	115.5
Merged-chr15-99265846-3	chr15	99265741	99265941	+	871.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13880.0	NM_016766	51812.0	Mm.383472	NM_016766	ENSMUSG00000037570	Mcrs1	C78274|ICP22BP|MSP58|P78	microspherule protein 1	protein-coding	4.5	6.5	12.0	101.5	15.5	9.5	4.5	16.5
Merged-chr13-9276571-4	chr13	9276468	9276668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081426)	promoter-TSS (NM_001081426)	43.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	100.5	162.5	85.5	1450.0	273.5	116.0	123.0	73.0
Merged-chr3-144705296-4	chr3	144705180	144705380	+	775.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 5 of 10)	intron (NM_001282037, intron 5 of 10)	15055.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	13.0	10.0	10.5	61.5	26.0	11.5	10.5	9.5
Merged-chr7-4789116-10	chr7	4789071	4789271	+	897.6166380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029384, exon 1 of 2)	exon (NM_029384, exon 1 of 2)	389.0	NM_029384	664968.0	Mm.292837	NM_029384	ENSMUSG00000030431	Tmem238	2210411K11Rik	transmembrane protein 238	protein-coding	8.5	4.0	24.5	146.0	23.5	7.0	6.5	18.5
Merged-chr10-95850723-4	chr10	95850625	95850825	+	973.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89938.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	18.5	20.5	23.0	380.0	47.5	10.0	19.5	26.5
Merged-chr18-67612428-3	chr18	67612347	67612547	+	640.166687	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	28908.0	NM_001357523	225659.0	Mm.111928	NM_001081073	ENSMUSG00000073542	Cep76	6230425F05Rik|9630013E05	centrosomal protein 76	protein-coding	3.5	10.5	6.5	126.5	26.5	5.5	14.0	5.5
Merged-chr6-54736288-4	chr6	54736178	54736378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Zaphod|DNA|hAT-Tip100	54654.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	45.0	79.5	59.0	1140.5	138.0	50.5	64.5	61.5
Merged-chr11-74638597-4	chr11	74638484	74638684	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001013784, exon 4 of 4)	3' UTR (NM_001013784, exon 4 of 4)	-10911.0	NM_001081158	74148.0	Mm.214574	NM_001081158	ENSMUSG00000020741	Cluh	1300001I01Rik|Kiaa0664|mKIAA0664	clustered mitochondria (cluA/CLU1) homolog	protein-coding	32.0	41.5	32.5	573.5	61.5	14.5	37.0	29.5
Merged-chr19-31972186-4	chr19	31972069	31972269	+	819.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103408.0	NM_001081074	69865.0	Mm.87538	NM_001081074	ENSMUSG00000052595	A1cf	1810073H04Rik|ACF64|ACF65|ASP|Acf|MCM|MerCreMer|Tg(Myh6-cre/Esr1*)1Jmk|mer	APOBEC1 complementation factor	protein-coding	9.0	20.0	10.0	198.0	13.0	8.5	11.0	17.5
Merged-chr16-52093096-4	chr16	52093011	52093211	+	724.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	61562.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	7.5	4.5	7.5	111.0	26.0	8.5	10.5	6.5
Merged-chr6-50303721-4	chr6	50303618	50303818	+	952.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 18 of 21)	L1MA8|LINE|L1	-41949.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	13.0	19.0	12.5	227.0	42.5	14.5	15.5	10.5
Merged-chr6-73240315-3	chr6	73240212	73240412	+	914.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-8193.0	NM_019879	56451.0	Mm.29845	NM_019879	ENSMUSG00000052738	Suclg1	1500000I01Rik|Sucla1	succinate-CoA ligase, GDP-forming, alpha subunit	protein-coding	4.0	1.0	1.0	47.0	76.5	15.5	14.5	16.0
Merged-chr1-172148072-4	chr1	172147996	172148196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153555)	promoter-TSS (NM_153555)	81.0	NM_001357204	98193.0	Mm.159915	NM_153555	ENSMUSG00000026554	Dcaf8	AA408877|AA433120|AA792214|AU018973|C76055|D1Dau35e|D1Ucla4|H326|Wdr42a	DDB1 and CUL4 associated factor 8	protein-coding	164.0	281.5	131.5	2390.5	408.5	179.0	238.0	142.0
Merged-chr2-165043189-4	chr2	165043101	165043301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8422.0	NM_144892	228869.0	Mm.233080	NM_144892	ENSMUSG00000039804	Ncoa5	CIA	nuclear receptor coactivator 5	protein-coding	17.5	49.0	21.0	364.5	162.0	41.5	46.0	47.5
Merged-chr3-27691649-4	chr3	27691558	27691758	+	972.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 1 of 26)	intron (NM_001356953, intron 1 of 26)	18794.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	21.0	28.0	12.0	181.5	27.5	17.0	27.0	20.0
Merged-chr5-125389305-4	chr5	125389224	125389424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019639, intron 1 of 1)	CpG	693.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	256.5	511.5	322.5	2964.5	758.5	372.5	400.0	330.5
Merged-chr15-36578703-4	chr15	36578613	36578813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23140.0	NM_025712	66696.0	Mm.253627	NM_025712	ENSMUSG00000013611	Snx31	4631426E05Rik	sorting nexin 31	protein-coding	72.5	117.5	61.0	1443.5	147.5	71.5	93.0	80.5
Merged-chr8-10899881-4	chr8	10899797	10899997	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102285)	promoter-TSS (NR_102285)	-25.0	NR_102285	71624.0	Mm.139075	NR_102285	ENSMUSG00000109089	4833411C07Rik	-	RIKEN cDNA 4833411C07 gene	ncRNA	29.0	25.0	19.0	333.0	56.5	23.0	13.5	19.5
Merged-chr3-148316370-3	chr3	148316270	148316470	+	927.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	638265.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	10.0	9.0	13.0	162.5	22.5	4.0	7.5	8.5
Merged-chr1-24702554-3	chr1	24702519	24702719	+	925.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 3 of 15)	intron (NM_026719, intron 3 of 15)	23701.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	3.5	5.0	14.5	164.0	15.5	5.5	5.0	5.5
Merged-chr9-35117542-4	chr9	35117421	35117621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009178)	promoter-TSS (NM_009178)	-657.0	NM_009178	20443.0	Mm.275973	NM_009178	ENSMUSG00000032038	St3gal4	SIAT4-C|ST3Gal IV|ST3GalIV|Siat4c	ST3 beta-galactoside alpha-2,3-sialyltransferase 4	protein-coding	92.0	205.5	193.5	2254.5	276.0	100.5	172.5	106.0
Merged-chr1-118391137-2	chr1	118391037	118391237	+	939.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 1 of 39)	MTD|LTR|ERVL-MaLR	2079.0	NM_001359334	76707.0	Mm.138740	NM_029709	ENSMUSG00000064302	Clasp1	1700030C23Rik|5730583A19Rik|B130045P17Rik|CLASP1alpha	CLIP associating protein 1	protein-coding	7.0	15.0	6.5	90.0	15.5	3.0	3.5	2.0
Merged-chr1-136673526-4	chr1	136673442	136673642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9854.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	56.5	63.5	59.0	827.5	135.5	29.0	72.0	42.0
Merged-chr9-32676739-4	chr9	32676638	32676838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19304.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	48.5	78.5	37.5	1277.0	80.5	27.0	44.0	46.5
Merged-chr4-95156956-3	chr4	95156855	95157055	+	890.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104733.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	7.0	15.5	9.5	199.0	14.5	5.5	12.0	8.0
Merged-chr14-79548461-3	chr14	79548365	79548565	+	950.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 2 of 8)	Lx5|LINE|L1	32791.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	10.5	5.0	3.0	135.5	10.0	8.0	9.0	8.5
Merged-chr3-51277448-4	chr3	51277377	51277577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291063)	promoter-TSS (NM_001291063)	37.0	NM_001291063	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	79.5	73.0	78.0	793.0	118.0	47.5	64.5	50.5
Merged-chr11-75733455-4	chr11	75733362	75733562	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009536, intron 1 of 5)	CpG	575.0	NM_009536	22627.0	Mm.234700	NM_009536	ENSMUSG00000020849	Ywhae	AU019196	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide	protein-coding	14.5	35.5	27.0	316.5	51.5	23.0	11.5	17.0
Merged-chr3-127293062-4	chr3	127292969	127293169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	115989.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	21.5	31.0	24.0	411.5	74.5	26.5	35.5	36.5
Merged-chr5-130089931-6	chr5	130089855	130090055	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130476, intron 1 of 5)	intron (NM_001130476, intron 1 of 5)	10585.0	NM_001130476	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	4.5	13.5	11.0	178.0	20.5	8.0	9.5	18.0
Merged-chr11-100725640-4	chr11	100725507	100725707	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	MIR3|SINE|MIR	11757.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	21.5	26.5	11.0	211.0	59.5	15.5	17.5	24.0
Merged-chr9-16216463-4	chr9	16216355	16216555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	161776.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	80.5	99.5	90.5	1357.0	178.0	78.5	69.5	58.0
Merged-chr10-77266425-4	chr10	77266324	77266524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030262, intron 6 of 8)	intron (NM_030262, intron 6 of 8)	7124.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	288.5	445.0	291.5	3902.5	624.0	210.5	355.0	243.5
Merged-chr8-126936146-3	chr8	126936028	126936228	+	883.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024214, intron 4 of 4)	B2_Mm2|SINE|B2	9793.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	4.0	16.5	6.0	51.0	43.5	12.5	11.5	12.0
Merged-chr18-73844519-4	chr18	73844389	73844589	+	695.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14896.0	NM_027741	71263.0	Mm.126220	NM_027741	ENSMUSG00000064036	Mro	4930507C04Rik|4933435E20Rik	maestro	protein-coding	9.5	8.0	5.5	86.0	20.0	9.0	5.5	6.0
Merged-chr10-111298621-4	chr10	111298544	111298744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027914)	promoter-TSS (NM_027914)	-35.0	NM_027914	71769.0	Mm.45256	NM_027914	ENSMUSG00000035759	Bbs10	1300007O09Rik|AI452285	Bardet-Biedl syndrome 10 (human)	protein-coding	170.0	193.0	138.0	3060.0	466.0	145.5	249.5	199.5
Merged-chr4-130796135-4	chr4	130796036	130796236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	MIR|SINE|MIR	3599.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	44.0	56.5	73.0	872.0	91.0	38.5	39.5	78.5
Merged-chr2-164067284-3	chr2	164067207	164067407	+	930.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291155, intron 1 of 6)	intron (NM_001291155, intron 1 of 6)	3795.0	NM_025996	67145.0	Mm.23173	NM_025996	ENSMUSG00000018322	Tomm34	2610100K07Rik|TOM34	translocase of outer mitochondrial membrane 34	protein-coding	12.0	7.5	7.0	248.0	17.0	5.0	2.0	9.0
Merged-chr6-134144908-3	chr6	134144815	134145015	+	803.722229	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001303102, intron 3 of 8)	ORR1F|LTR|ERVL-MaLR	109215.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	21.5	24.0	7.5	194.5	21.0	7.0	9.0	13.5
Merged-chr19-3906352-2	chr19	3906252	3906452	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136091, intron 1 of 19)	intron (NM_001136091, intron 1 of 19)	631.0	NM_001167784	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	7.5	7.5	4.5	69.5	18.5	8.5	2.5	9.0
Merged-chr2-142699074-3	chr2	142698978	142699178	+	833.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 23 of 26)	intron (NM_001355123, intron 23 of 26)	202386.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	7.0	8.5	6.0	109.5	23.5	6.0	13.0	5.0
Merged-chr17-47368837-4	chr17	47368729	47368929	+	929.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146212)	promoter-TSS (NM_001146212)	-58.0	NM_001146212	64657.0	Mm.216250	NM_183086	ENSMUSG00000034729	Mrps10	1110038B19Rik|AW743084|Rpms10	mitochondrial ribosomal protein S10	protein-coding	11.5	14.0	4.0	174.5	33.0	10.0	24.0	7.5
Merged-chr5-72802739-2	chr5	72802639	72802839	+	701.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	-49962.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	5.5	4.5	6.5	163.0	8.0	2.5	0.0	7.0
Merged-chr7-126503536-4	chr7	126503422	126503622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183020)	promoter-TSS (NM_183020)	-85.0	NM_183020	233871.0	Mm.231450	NM_183020	ENSMUSG00000032637	Atxn2l	A2D|A2LG|A2RP|A2lp|Atxnl2	ataxin 2-like	protein-coding	250.5	443.0	210.5	2783.5	547.0	313.5	264.5	242.0
Merged-chr9-85327820-4	chr9	85327721	85327921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160378)	promoter-TSS (NM_001160378)	-671.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	82.0	161.5	118.0	1297.0	310.0	119.5	148.5	126.0
Merged-chr4-101182802-4	chr4	101182685	101182885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 5 of 24)	(A)n|Simple_repeat|Simple_repeat	82497.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	51.5	49.0	68.5	818.0	83.0	24.5	42.5	47.5
Merged-chr6-97867362-4	chr6	97867266	97867466	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	60308.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	29.0	79.0	21.0	175.0	97.5	39.5	40.0	20.0
Merged-chr8-126901292-4	chr8	126901187	126901387	+	958.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44634.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	26.0	33.0	22.5	218.0	34.5	23.5	9.0	35.0
Merged-chr5-53509727-4	chr5	53509624	53509824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46055.0	NM_001080928	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	100.0	269.0	153.0	1670.5	424.0	168.5	186.5	129.0
Merged-chr14-20737443-4	chr14	20737345	20737545	+	881.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039138, exon 19 of 20)	exon (NM_001039138, exon 19 of 20)	-2883.0	NM_010811	17423.0	Mm.4084	NM_010811	ENSMUSG00000039308	Ndst2	Mndns|NDST-2	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 2	protein-coding	25.0	19.0	14.0	155.0	33.5	13.0	11.5	11.5
Merged-chr8-41003208-4	chr8	41003098	41003298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 7 of 13)	L1MB2|LINE|L1	-14270.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	56.5	76.5	67.5	1507.0	271.5	83.5	127.5	68.0
Merged-chr8-26917765-4	chr8	26917670	26917870	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-59566.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	14.5	15.5	8.0	234.0	44.5	8.5	7.5	16.5
Merged-chr13-56704171-3	chr13	56704084	56704284	+	806.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164042, intron 1 of 6)	intron (NM_001164042, intron 1 of 6)	516.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	6.0	3.0	1.0	42.5	25.5	7.0	9.5	6.5
Merged-chr12-79172163-4	chr12	79172087	79172287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016800, intron 1 of 5)	CpG	271.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	53.0	106.0	60.0	821.0	79.0	34.0	51.5	32.0
Merged-chr13-59001404-3	chr13	59001299	59001499	+	956.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	193702.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	0.0	4.5	6.5	80.0	33.5	6.0	32.0	20.5
Merged-chr19-56721998-4	chr19	56721912	56722112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007419)	promoter-TSS (NM_007419)	-360.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	92.0	166.0	91.5	1346.5	258.0	112.0	136.0	81.5
Merged-chr8-22227289-4	chr8	22227199	22227399	+	794.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019576)	promoter-TSS (NM_019576)	-4.0	NM_001205253	56229.0	Mm.32067	NM_019576	ENSMUSG00000031480	Thsd1	4833423O18Rik|Tmtsp	thrombospondin, type I, domain 1	protein-coding	9.0	10.5	5.5	140.5	23.5	1.0	9.0	10.0
Merged-chr13-23887534-4	chr13	23887433	23887633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121611, intron 10 of 12)	intron (NR_121611, intron 10 of 12)	17260.0	NM_001170638	20504.0	Mm.2656	NM_009198	ENSMUSG00000021335	Slc17a1	NAPI-1|Napi1|Npt1	solute carrier family 17 (sodium phosphate), member 1	protein-coding	38.5	27.0	24.0	280.5	88.5	31.5	32.5	32.5
Merged-chr14-67097127-1	chr14	67097027	67097227	+	770.5	f0_balb.idr	Intergenic	Intergenic	-24656.0	NM_001205188	71978.0	Mm.273997	NM_028032	ENSMUSG00000022052	Ppp2r2a	2410004D02Rik|mKIAA1541	protein phosphatase 2, regulatory subunit B, alpha	protein-coding	13.0	3.0	9.5	123.0	9.5	8.0	5.5	6.5
Merged-chr7-135715832-4	chr7	135715728	135715928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081117, intron 1 of 13)	intron (NM_001081117, intron 1 of 13)	551.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	58.5	170.0	57.0	525.0	286.0	91.5	85.0	46.5
Merged-chr15-93335968-4	chr15	93335885	93336085	+	739.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028315, intron 2 of 4)	intron (NR_028315, intron 2 of 4)	950.0	NR_028315	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	8.0	18.5	7.5	67.5	24.0	11.5	3.5	17.5
Merged-chr15-76722777-4	chr15	76722672	76722872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198119)	promoter-TSS (NM_198119)	-599.0	NM_198119	378937.0	Mm.289666	NM_198119	ENSMUSG00000033707	Lrrc24	6430402H13Rik	leucine rich repeat containing 24	protein-coding	65.0	93.5	27.5	596.5	111.5	55.5	66.0	42.5
Merged-chr5-139338050-4	chr5	139337933	139338133	+	925.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_197980, exon 3 of 3)	3' UTR (NM_197980, exon 3 of 3)	7133.0	NM_197980	68033.0	Mm.261064	NM_197980	ENSMUSG00000045438	Cox19	1810074D02Rik|2810437L13Rik	cytochrome c oxidase assembly protein 19	protein-coding	18.5	24.5	11.0	188.0	22.0	12.0	11.5	9.5
Merged-chr5-140514117-4	chr5	140514015	140514215	+	981.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021528, intron 1 of 1)	B4A|SINE|B4	8506.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	19.5	24.5	11.5	321.5	37.5	16.5	24.5	33.5
Merged-chr1-140180895-1	chr1	140180795	140180995	+	540.0	f0_balb.idr	intron (NM_009888, intron 1 of 21)	intron (NM_009888, intron 1 of 21)	2516.0	NM_009888	12628.0	Mm.8655	NM_009888	ENSMUSG00000026365	Cfh	Mud-1|NOM|Sas-1|Sas1	complement component factor h	protein-coding	5.0	7.0	5.0	74.0	1.5	2.0	2.0	4.0
Merged-chr16-20372277-4	chr16	20372176	20372376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 16 of 29)	intron (NM_013790, intron 16 of 29)	-46872.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	85.0	123.5	80.0	1488.5	209.0	46.5	58.5	62.5
Merged-chr11-51762201-4	chr11	51762098	51762298	+	805.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1465.0	NM_025535	66397.0	Mm.196592	NM_025535	ENSMUSG00000020386	Sar1b	2310075M17Rik|2900019I22Rik|CMRD|Sara1b|Sara2|Sarb	secretion associated Ras related GTPase 1B	protein-coding	5.0	7.0	4.5	71.0	45.0	11.5	8.0	10.0
Merged-chr15-53415994-4	chr15	53415893	53416093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69810.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	29.0	75.5	42.5	676.5	130.0	36.0	81.5	63.5
Merged-chr7-78783018-4	chr7	78782904	78783104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026498)	promoter-TSS (NM_026498)	85.0	NM_023331	67308.0	Mm.193181	NM_023331	ENSMUSG00000030612	Mrpl46	3110052F15Rik|C15orf4|C80107|LIECG2|P2ECSL	mitochondrial ribosomal protein L46	protein-coding	47.0	54.0	81.5	663.5	105.5	30.0	56.0	44.0
Merged-chr7-100446492-4	chr7	100446385	100446585	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 28 of 32)	intron (NM_001017985, intron 28 of 32)	-26506.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	19.5	42.5	19.5	217.5	45.5	24.0	21.5	17.0
Merged-chr6-55203783-4	chr6	55203678	55203878	+	947.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142781, intron 1 of 17)	intron (NM_001142781, intron 1 of 17)	395.0	NM_001142781	330323.0	Mm.268997	NM_177883	ENSMUSG00000038022	Mindy4	C330043M08Rik|Fam188b|Gm1406	MINDY lysine 48 deubiquitinase 4	protein-coding	8.5	17.5	20.0	212.0	51.0	13.5	33.5	8.5
Merged-chr12-85345113-4	chr12	85344988	85345188	+	947.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-5726.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	14.0	21.0	17.0	237.5	24.0	11.5	9.0	12.5
Merged-chr10-99929399-4	chr10	99929312	99929512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-86409.0	NM_001347156	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	74.0	126.5	53.5	1146.5	198.5	65.0	76.0	61.0
Merged-chr5-135012231-4	chr5	135012107	135012307	+	913.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190437)	TTS (NM_001190437)	950.0	NR_026688	69812.0	Mm.18422	NR_026688	ENSMUSG00000085042	Abhd11os	2010001M06Rik|AI462243|Wbscr26|Wnscr26	abhydrolase domain containing 11, opposite strand	ncRNA	8.5	20.0	13.0	192.5	35.5	16.5	10.0	16.5
Merged-chr15-9131722-4	chr15	9131636	9131836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 2 of 9)	intron (NM_013787, intron 2 of 9)	8718.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	149.0	249.5	170.0	2975.0	364.0	153.0	167.0	127.0
Merged-chr16-23999607-4	chr16	23999489	23999689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10737.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	15.0	73.5	16.5	150.0	56.0	24.0	14.5	12.5
Merged-chr12-55642546-4	chr12	55642449	55642649	+	995.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003719, intron 36 of 39)	intron (NM_001003719, intron 36 of 39)	43632.0	NM_020287	56856.0	Mm.114886	NM_020287	ENSMUSG00000045440	Insm2	Mlt1	insulinoma-associated 2	protein-coding	16.5	30.5	22.0	357.0	72.0	14.0	25.5	13.0
Merged-chr9-44482711-4	chr9	44482605	44482805	+	953.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357490)	promoter-TSS (NM_001357490)	-120.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	22.0	39.5	16.5	222.5	26.5	23.0	25.0	13.0
Merged-chr1-36471485-4	chr1	36471378	36471578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033570)	promoter-TSS (NM_033570)	-119.0	NM_033570	94220.0	Mm.422638	NM_033570	ENSMUSG00000037408	Cnnm4	5430430O18Rik|Acdp4	cyclin M4	protein-coding	125.5	186.5	158.5	1641.5	310.0	159.0	165.0	110.0
Merged-chr7-139281307-3	chr7	139281252	139281452	+	791.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32870.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	8.0	3.5	4.5	79.5	26.0	5.0	6.0	8.5
Merged-chr13-112251633-4	chr13	112251513	112251713	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36838.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	24.0	20.5	27.5	361.0	39.0	14.0	18.0	23.5
Merged-chr6-128651345-2	chr6	128651245	128651445	+	858.3333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_2-LTR_MM|LTR|ERVK	-11040.0	NM_053165	94071.0	Mm.197689	NM_053165	ENSMUSG00000030364	Clec2h	Clrf|clr-f	C-type lectin domain family 2, member h	protein-coding	5.5	12.5	6.5	37.0	8.5	5.0	4.5	3.5
Merged-chr16-58556279-4	chr16	58556191	58556391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32038.0	NM_001357434	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	41.0	68.5	59.5	769.0	61.5	25.0	44.5	26.5
Merged-chr4-59036836-7	chr4	59036757	59036957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025277, intron 1 of 2)	intron (NM_025277, intron 1 of 2)	1701.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	19.0	21.5	21.5	260.5	41.5	21.5	19.0	20.5
Merged-chr10-127164783-4	chr10	127164689	127164889	+	971.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008080)	promoter-TSS (NM_008080)	-367.0	NR_045166	14421.0	Mm.386762	NM_008080	ENSMUSG00000006731	B4galnt1	4933429D13Rik|Gal-NAc-T|GalNAc-T|GalNAcT|Galgt1|Ggm-2|Ggm2	beta-1,4-N-acetyl-galactosaminyl transferase 1	protein-coding	18.0	31.5	18.0	372.5	33.5	13.5	18.5	25.0
Merged-chr11-50245435-4	chr11	50245332	50245532	+	945.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6900.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	21.5	45.0	18.0	460.5	27.5	11.5	20.5	15.5
Merged-chr19-46521480-4	chr19	46521366	46521566	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19818.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	14.5	18.5	7.0	172.5	27.0	9.5	10.5	15.0
Merged-chr6-136805085-4	chr6	136804994	136805194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175652)	promoter-TSS (NM_175652)	-663.0	NM_175652	320332.0	Mm.246720	NM_175652	ENSMUSG00000096010	Hist4h4	B130044J01Rik	histone cluster 4, H4	protein-coding	71.5	66.0	66.0	1044.5	113.0	44.5	51.5	60.0
Merged-chr14-60916849-3	chr14	60916769	60916969	+	856.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	121118.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	7.5	6.5	12.0	236.5	6.5	8.5	12.5	8.5
Merged-chr2-170147850-4	chr2	170147687	170147887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5112.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	19.0	19.5	32.0	456.0	65.5	23.0	30.5	35.5
Merged-chr3-51652440-4	chr3	51652335	51652535	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8744.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	4.5	23.5	6.5	122.5	30.5	5.0	12.0	12.0
Merged-chr17-64617999-4	chr17	64617895	64618095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	16346.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	42.5	31.5	43.0	891.5	72.0	19.0	22.0	24.5
Merged-chr16-43966018-4	chr16	43965938	43966138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13012.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	111.5	115.0	138.5	2427.5	161.5	58.5	107.0	99.5
Merged-chr15-80813050-4	chr15	80812955	80813155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177124, intron 1 of 21)	intron (NM_177124, intron 1 of 21)	14445.0	NM_177124	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	43.5	60.5	25.5	366.5	60.0	40.5	26.5	56.5
Merged-chr5-113908188-4	chr5	113908139	113908339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 1 of 10)	CpG	467.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	42.5	66.0	42.0	1027.0	114.0	53.5	58.5	50.0
Merged-chr12-105823664-4	chr12	105823565	105823765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347440, exon 16 of 21)	exon (NM_001347440, exon 16 of 21)	38968.0	NM_001347440	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	40.5	33.5	23.5	675.0	75.5	19.0	18.5	35.0
Merged-chr1-16105810-4	chr1	16105730	16105930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133832)	promoter-TSS (NM_133832)	-52.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	59.5	86.5	63.0	1258.5	103.5	44.5	68.0	57.0
Merged-chr15-51696909-4	chr15	51696802	51697002	+	970.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168559.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	16.5	20.5	8.0	192.5	43.5	19.5	20.5	18.0
Merged-chr13-23555094-4	chr13	23555004	23555204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145713)	promoter-TSS (NM_145713)	72.0	NM_145713	14957.0	Mm.247046	NM_145713	ENSMUSG00000052565	Hist1h1d	H1.3|H1D|H1f3|H1s-4	histone cluster 1, H1d	protein-coding	26.0	34.5	34.5	215.0	34.0	28.0	57.0	49.5
Merged-chr7-41633549-4	chr7	41633457	41633657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360680)	promoter-TSS (NM_001360680)	26.0	NM_001360674	67607.0	Mm.384626	NM_023363	ENSMUSG00000074165	Zfp788	2810426N06Rik|AI256342|AI605193	zinc finger protein 788	protein-coding	91.0	148.0	113.5	1787.5	248.0	102.0	137.0	116.0
Merged-chr2-91921402-4	chr2	91921283	91921483	+	813.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007699)	promoter-TSS (NM_007699)	-806.0	NM_007699	12672.0	Mm.330405	NM_007699	ENSMUSG00000040495	Chrm4	Chrm-4|M4	cholinergic receptor, muscarinic 4	protein-coding	21.5	10.0	7.5	135.0	16.0	12.0	9.5	10.0
Merged-chr7-5083975-3	chr7	5083867	5084067	+	920.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252454, exon 2 of 11)	exon (NM_001252454, exon 2 of 11)	3732.0	NM_001252454	13854.0	Mm.3091	NM_010147	ENSMUSG00000035203	Epn1	AA269831|Ibp1	epsin 1	protein-coding	8.0	3.5	16.5	282.0	9.5	7.5	10.0	18.5
Merged-chr5-77464989-3	chr5	77464888	77465088	+	819.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131050)	promoter-TSS (NR_131050)	-500.0	NR_131050	69370.0	Mm.426881	NR_131050	ENSMUSG00000107232	1700017L05Rik	-	RIKEN cDNA 1700017L05 gene	ncRNA	9.5	9.0	22.5	114.5	9.0	4.0	13.0	7.0
Merged-chr16-3744868-4	chr16	3744759	3744959	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148924, intron 1 of 5)	intron (NM_148924, intron 1 of 5)	760.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	11.5	19.0	11.0	172.5	64.0	13.0	10.0	10.0
Merged-chr8-36265419-4	chr8	36265320	36265520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15904.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	23.5	30.0	26.5	573.5	46.5	16.5	31.0	21.5
Merged-chr15-31614927-2	chr15	31614827	31615027	+	656.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356313, intron 5 of 5)	L1MC4|LINE|L1	12811.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	4.5	5.5	9.0	104.5	8.5	2.5	4.5	5.5
Merged-chr6-41605329-4	chr6	41605278	41605478	+	619.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146351)	promoter-TSS (NM_001146351)	-104.0	NM_001146351	13848.0	Mm.271976	NM_007680	ENSMUSG00000029869	Ephb6	Cekl|Mep	Eph receptor B6	protein-coding	4.5	7.5	9.5	164.5	14.0	8.5	18.0	12.0
Merged-chr4-95248258-1	chr4	95248158	95248358	+	756.0	f0_balb.idr	Intergenic	Intergenic	-196036.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	7.0	7.5	14.0	99.0	10.5	2.0	5.0	3.0
Merged-chr5-113787152-2	chr5	113787052	113787252	+	954.8000490000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13200.0	NM_146162	231633.0	Mm.41681	NM_146162	ENSMUSG00000054675	Tmem119	AW208946|BC025600|obif	transmembrane protein 119	protein-coding	3.5	11.5	9.0	51.0	16.5	5.5	5.5	5.0
Merged-chr5-64488176-4	chr5	64488079	64488279	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11171.0	NR_045413	77382.0	Mm.366742	NR_045411	ENSMUSG00000105352	C030018K13Rik	-	RIKEN cDNA C030018K13 gene	ncRNA	20.0	55.5	31.5	383.0	80.5	19.0	22.0	21.5
Merged-chr15-37787611-4	chr15	37787481	37787681	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359844, intron 1 of 7)	ORR1E|LTR|ERVL-MaLR	4419.0	NM_001170866	52589.0	Mm.283370	NM_134094	ENSMUSG00000051359	Ncald	AI848120|D030020D09Rik|D15Ertd412e	neurocalcin delta	protein-coding	20.0	8.0	10.0	164.0	18.5	3.0	5.0	10.5
Merged-chr1-36940538-4	chr1	36940438	36940638	+	867.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1011.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	11.0	16.5	13.5	125.0	20.0	15.5	14.5	13.0
Merged-chr1-51938579-4	chr1	51938487	51938687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22609.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	73.0	74.0	73.5	966.5	173.0	51.0	93.0	83.5
Merged-chr8-25012951-4	chr8	25012858	25013058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270996, intron 1 of 21)	PB1D9|SINE|Alu	3964.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	34.0	42.0	23.5	470.0	97.0	25.0	43.0	43.5
Merged-chr10-62651337-4	chr10	62651231	62651431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053183)	promoter-TSS (NM_053183)	-113.0	NM_053183	94213.0	Mm.114116	NM_053183	ENSMUSG00000020076	Ddx50	4933429B04Rik|8430408E17Rik|GU2|RH-II	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	protein-coding	242.0	393.0	268.5	3586.5	602.5	301.0	330.0	193.0
Merged-chr3-144716060-4	chr3	144715944	144716144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 1 of 10)	intron (NM_001282037, intron 1 of 10)	4291.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	15.5	20.0	17.5	394.5	82.0	22.0	24.5	24.5
Merged-chr10-67205113-4	chr10	67205002	67205202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 3 of 25)	intron (NM_207221, intron 3 of 25)	19352.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	54.5	78.0	73.0	912.0	129.0	38.5	72.5	65.5
Merged-chr7-55794141-4	chr7	55794026	55794226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360874)	promoter-TSS (NM_001360874)	1.0	NM_001360873	233276.0	Mm.284306	NM_146190	ENSMUSG00000033790	Tubgcp5	B130010C12Rik|GCP5|mKIAA1899	tubulin, gamma complex associated protein 5	protein-coding	137.0	149.5	81.0	1997.0	207.5	77.5	96.5	84.5
Merged-chr9-21547179-4	chr9	21547072	21547272	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021531, exon 1 of 16)	exon (NM_021531, exon 1 of 16)	278.0	NM_153141	59035.0	Mm.178115	NM_021531	ENSMUSG00000032185	Carm1	Prmt4	coactivator-associated arginine methyltransferase 1	protein-coding	24.0	38.0	24.5	320.0	57.5	29.5	21.5	32.0
Merged-chr5-3462224-4	chr5	3462129	3462329	+	878.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 4 of 7)	intron (NM_009873, intron 4 of 7)	-81604.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	14.5	19.0	14.0	116.0	29.0	16.5	11.0	8.5
Merged-chr1-182369647-4	chr1	182369573	182369773	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28067.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	23.0	25.0	20.5	431.5	36.0	11.0	28.0	28.0
Merged-chr3-148959511-4	chr3	148959419	148959619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4884.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	86.5	124.0	84.5	1414.0	127.0	44.0	68.0	31.0
Merged-chr10-75860938-4	chr10	75860860	75861060	+	751.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010798)	promoter-TSS (NM_010798)	-710.0	NM_010798	17319.0	Mm.2326	NM_010798	ENSMUSG00000033307	Mif	GIF|Glif	macrophage migration inhibitory factor (glycosylation-inhibiting factor)	protein-coding	7.5	12.0	6.5	106.0	33.5	7.5	6.0	14.5
Merged-chr11-44377556-2	chr11	44377442	44377642	+	583.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22521.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	5.0	22.5	4.5	51.5	15.5	5.5	4.0	3.0
Merged-chr4-63119052-3	chr4	63118959	63119159	+	843.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028326, intron 12 of 14)	intron (NM_028326, intron 12 of 14)	35113.0	NM_007443	11699.0	Mm.2197	NM_007443	ENSMUSG00000028356	Ambp	AI194774|ASPI|HI-30|Intin4|Itil|UTI	alpha 1 microglobulin/bikunin	protein-coding	3.5	22.5	11.5	125.5	17.0	9.5	11.5	19.0
Merged-chr6-52698169-4	chr6	52698084	52698284	+	938.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15545.0	NM_025816	52440.0	Mm.389757	NM_025816	ENSMUSG00000004535	Tax1bp1	1200003J11Rik|1700069J21Rik|AA930106|D6Ertd404e|D6Ertd772e|T6bp|TXBP151	Tax1 (human T cell leukemia virus type I) binding protein 1	protein-coding	6.5	31.5	10.5	124.0	51.5	21.5	19.5	21.5
Merged-chr3-65927915-4	chr3	65927813	65928013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30336.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	57.5	53.0	48.5	556.5	99.5	41.5	28.5	32.0
Merged-chr11-21082908-4	chr11	21082794	21082994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8430.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	85.5	149.5	40.5	902.0	194.5	92.0	94.5	65.5
Merged-chr4-123914794-4	chr4	123914704	123914904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2629.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	52.0	37.5	26.5	537.5	108.5	32.0	31.0	46.0
Merged-chr17-56997233-4	chr17	56997140	56997340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025538)	promoter-TSS (NM_025538)	-99.0	NM_025538	66400.0	Mm.196150	NM_025538	ENSMUSG00000002661	Alkbh7	2310045B01Rik|2510008E23Rik|Abh7|Spata11	alkB homolog 7	protein-coding	222.5	326.0	216.5	2807.0	504.5	195.5	246.0	167.5
Merged-chr11-8860026-2	chr11	8859926	8860126	+	782.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	151165.0	NM_001303610	15574.0	Mm.42201	NM_008316	ENSMUSG00000020413	Hus1	-	HUS1 checkpoint clamp component	protein-coding	4.0	2.0	8.5	59.5	16.0	4.5	7.5	5.0
Merged-chr15-76380409-4	chr15	76380309	76380509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175457)	promoter-TSS (NM_175457)	-104.0	NM_175457	223658.0	Mm.123240	NM_175457	ENSMUSG00000022558	Mroh1	D330001F17Rik|Heatr7a	maestro heat-like repeat family member 1	protein-coding	287.5	462.5	284.0	3822.5	615.0	252.5	312.5	241.5
Merged-chr16-10967138-4	chr16	10967030	10967230	+	940.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	25991.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	23.0	18.0	20.5	144.0	34.0	11.0	15.5	27.5
Merged-chr15-50708412-4	chr15	50708315	50708515	+	909.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	180634.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	27.0	26.0	19.5	352.5	21.5	10.5	12.5	9.0
Merged-chr2-146948679-3	chr2	146948591	146948791	+	877.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033298, intron 9 of 13)	intron (NM_001033298, intron 9 of 13)	-64308.0	NM_001356403	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	9.0	15.0	13.5	322.0	5.5	1.5	3.0	7.0
Merged-chr17-65931174-4	chr17	65931079	65931279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023053, intron 3 of 4)	intron (NM_023053, intron 3 of 4)	20008.0	NM_023053	65960.0	Mm.10153	NM_023053	ENSMUSG00000024098	Twsg1	1810013J15Rik|9030422N06Rik|AW552143|D17Ertd403e|Tsg|Twg	twisted gastrulation BMP signaling modulator 1	protein-coding	30.0	36.5	29.5	464.5	74.5	30.0	39.5	49.0
Merged-chr16-8666657-4	chr16	8666524	8666724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025821, intron 1 of 3)	intron (NM_025821, intron 1 of 3)	5529.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	52.5	100.5	45.0	775.5	130.5	34.5	46.0	51.0
Merged-chr13-52981706-3	chr13	52981615	52981815	+	918.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017373)	promoter-TSS (NM_017373)	-676.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	7.5	16.5	13.0	40.0	26.0	8.0	7.0	13.0
Merged-chr12-8301997-3	chr12	8301901	8302101	+	934.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013527)	promoter-TSS (NM_013527)	-47.0	NM_013527	238057.0	Mm.271308	NM_013527	ENSMUSG00000037660	Gdf7	BMP12	growth differentiation factor 7	protein-coding	4.0	9.5	12.5	70.5	37.0	6.0	14.5	14.5
Merged-chr6-34944659-4	chr6	34944552	34944752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001025573)	TTS (NM_001025573)	23704.0	NM_009292	20899.0	Mm.5171	NM_009292	ENSMUSG00000029848	Stra8	-	stimulated by retinoic acid gene 8	protein-coding	20.5	60.5	28.5	459.0	96.5	36.5	33.5	48.0
Merged-chr6-87130853-4	chr6	87130771	87130971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	26125.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	22.0	27.0	14.5	355.0	53.0	15.0	39.0	36.0
Merged-chr13-103921033-4	chr13	103920928	103921128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289474)	promoter-TSS (NM_001289474)	-442.0	NM_001005868	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	37.0	38.0	51.0	573.0	76.0	24.0	32.5	21.5
Merged-chr12-80063982-4	chr12	80063890	80064090	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49023.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	35.5	48.5	48.0	460.0	44.5	20.5	23.0	17.5
Merged-chr3-56183703-1	chr3	56183603	56183803	+	860.7999880000001	f0_balb.idr	promoter-TSS (NM_030595)	promoter-TSS (NM_030595)	-2.0	NM_030595	26422.0	Mm.384353	NM_030595	ENSMUSG00000027799	Nbea	Lyst2|mKIAA1544	neurobeachin	protein-coding	12.5	17.5	5.5	245.0	3.0	4.0	8.0	7.0
Merged-chr13-55418259-4	chr13	55418158	55418358	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021489, exon 14 of 14)	exon (NM_021489, exon 14 of 14)	-3026.0	NM_029303	75477.0	Mm.432537	NM_029303	ENSMUSG00000044444	Pfn3	1700012P12Rik	profilin 3	protein-coding	37.0	52.5	22.5	269.0	73.5	17.0	33.5	22.0
Merged-chr18-9213569-3	chr18	9213497	9213697	+	917.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008058, exon 1 of 1)	exon (NM_008058, exon 1 of 1)	741.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	16.5	22.0	17.0	215.5	4.0	8.5	6.0	6.0
Merged-chr5-100628154-4	chr5	100628026	100628226	+	861.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46130.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	7.5	20.0	9.0	101.5	35.5	17.5	10.5	14.5
Merged-chr2-93822539-4	chr2	93822431	93822631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010163)	promoter-TSS (NM_010163)	37.0	NM_010163	14043.0	Mm.4336	NM_010163	ENSMUSG00000027198	Ext2	AI893565	exostoses (multiple) 2	protein-coding	90.0	101.5	77.5	1369.5	183.5	83.5	87.0	42.5
Merged-chr8-123280768-5	chr8	123280676	123280876	+	954.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016925, intron 30 of 42)	L1MB7|LINE|L1	-26554.0	NM_028200	72325.0	Mm.276193	NM_028200	ENSMUSG00000001062	Vps9d1	1300018I17Rik|2410004N05Rik|5DOS1|Vsp9d1	VPS9 domain containing 1	protein-coding	2.5	2.5	2.5	7.0	28.5	13.0	8.0	11.0
Merged-chr10-80149536-4	chr10	80149419	80149619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305799)	promoter-TSS (NM_001305799)	-163.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	174.5	271.5	200.0	2650.0	557.0	209.5	282.5	247.0
Merged-chr1-184034349-4	chr1	184034225	184034425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028516)	promoter-TSS (NM_028516)	-56.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	386.0	563.5	403.0	5640.5	903.0	368.0	527.0	383.5
Merged-chr1-191068600-4	chr1	191068483	191068683	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 2 of 5)	intron (NM_198654, intron 2 of 5)	5562.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	5.5	13.5	7.5	95.0	53.0	11.0	33.5	20.5
Merged-chr18-75018725-4	chr18	75018623	75018823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027727)	promoter-TSS (NM_027727)	-49.0	NM_027727	69190.0	Mm.173826	NM_027727	ENSMUSG00000035765	Dym	1810041M12Rik|4933427L07Rik|C030019K18Rik	dymeclin	protein-coding	153.0	201.0	124.5	2401.5	358.5	116.5	177.5	133.0
Merged-chr15-79687919-4	chr15	79687831	79688031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028792)	promoter-TSS (NM_028792)	-59.0	NM_028792	74158.0	Mm.323393	NM_028792	ENSMUSG00000022426	Josd1	1300006C06Rik|mKIAA0063	Josephin domain containing 1	protein-coding	101.0	124.0	59.0	1154.5	308.0	97.5	90.0	107.5
Merged-chr12-91736423-4	chr12	91736330	91736530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 3 of 6)	intron (NM_175367, intron 3 of 6)	50006.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	91.5	141.5	101.5	2057.0	229.0	53.5	107.5	62.0
Merged-chr17-80222425-2	chr17	80222325	80222525	+	825.116699	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2026.0	NM_026053	67242.0	Mm.279985	NM_026053	ENSMUSG00000055760	Gemin6	2610019B15Rik|2810470M17Rik	gem nuclear organelle associated protein 6	protein-coding	9.0	26.5	6.0	82.5	22.5	11.5	9.0	11.0
Merged-chr12-110770089-2	chr12	110769989	110770189	+	710.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	intron (NM_001347428, intron 1 of 2)	32157.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	4.0	5.0	6.0	118.5	10.0	7.5	9.0	5.5
Merged-chr14-121995003-4	chr14	121994916	121995116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 7 of 8)	intron (NM_026861, intron 7 of 8)	-29823.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	128.5	170.5	202.5	2235.5	348.0	123.5	167.0	139.5
Merged-chr19-29251365-4	chr19	29251270	29251470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008413)	promoter-TSS (NM_008413)	-433.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	148.0	311.5	158.0	1793.0	327.5	180.5	124.5	76.0
Merged-chr1-152571559-4	chr1	152571443	152571643	+	899.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 4 of 17)	intron (NM_016846, intron 4 of 17)	53674.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	15.0	10.0	11.5	184.5	30.5	12.5	6.5	19.5
Merged-chr9-62341256-4	chr9	62341109	62341309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009672)	promoter-TSS (NM_009672)	-134.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	70.5	97.0	77.0	1077.0	164.5	38.0	60.5	65.5
Merged-chr7-24237588-3	chr7	24237468	24237668	+	772.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020262)	promoter-TSS (NM_020262)	30.0	NM_020262	56869.0	Mm.103751	NM_020262	ENSMUSG00000074283	Zfp109	-	zinc finger protein 109	protein-coding	11.5	7.5	15.0	119.5	16.0	4.0	8.0	11.0
Merged-chr7-35423296-3	chr7	35423199	35423399	+	830.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153799, intron 11 of 19)	intron (NR_153799, intron 11 of 19)	-25793.0	NM_001199015	30962.0	Mm.45874	NM_021291	ENSMUSG00000030492	Slc7a9	CSNU3	solute carrier family 7 (cationic amino acid transporter, y+ system), member 9	protein-coding	1.5	0.0	0.5	58.0	40.0	5.5	13.0	31.5
Merged-chr4-126148443-4	chr4	126148366	126148566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172145, exon 1 of 3)	5' UTR (NM_172145, exon 1 of 3)	463.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	41.5	41.0	40.0	451.0	79.0	25.0	40.0	37.0
Merged-chr4-132945617-6	chr4	132945490	132945690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23039.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	19.0	37.5	29.0	248.0	81.5	44.5	20.0	32.0
Merged-chr13-84222298-4	chr13	84222191	84222391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_138587)	promoter-TSS (NR_138587)	-5.0	NR_029418	72745.0	Mm.295063	NM_175187	ENSMUSG00000035762	Tmem161b	2810446P07Rik|AI843389	transmembrane protein 161B	protein-coding	145.5	300.5	218.0	3383.5	433.0	188.0	230.5	174.0
Merged-chr19-46309188-4	chr19	46309075	46309275	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177369, exon 14 of 23)	exon (NM_001177369, exon 14 of 23)	3245.0	NM_001177370	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	26.5	32.5	14.0	239.5	36.0	18.0	20.0	16.5
Merged-chr4-115980864-4	chr4	115980787	115980987	+	904.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37037.0	NM_010173	14073.0	Mm.256025	NM_010173	ENSMUSG00000034171	Faah	AW412498	fatty acid amide hydrolase	protein-coding	9.5	9.5	11.5	105.5	50.0	7.0	25.0	15.0
Merged-chr10-24625179-4	chr10	24625057	24625257	+	880.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29715.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	8.0	12.0	23.0	175.5	18.5	9.5	5.0	7.5
Merged-chr10-84577402-4	chr10	84577285	84577485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146008, intron 1 of 9)	CpG	438.0	NM_146008	216198.0	Mm.296142	NM_146008	ENSMUSG00000020034	Tcp11l2	E430026E19Rik	t-complex 11 (mouse) like 2	protein-coding	26.5	57.0	45.0	609.0	95.0	37.5	55.5	47.0
Merged-chr13-51351013-4	chr13	51350929	51351129	+	838.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57589.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	18.0	12.5	23.5	255.5	24.0	15.5	13.0	12.0
Merged-chr1-183297002-5	chr1	183296896	183297096	+	974.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181732)	promoter-TSS (NM_181732)	-64.0	NM_181732	108909.0	Mm.290502	NM_145626	ENSMUSG00000042901	Aida	2610208M17Rik|BC004835	axin interactor, dorsalization associated	protein-coding	30.0	46.5	31.0	299.5	94.0	44.5	55.5	66.5
Merged-chr7-45481541-3	chr7	45481439	45481639	+	741.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027903, intron 4 of 6)	intron (NM_027903, intron 4 of 6)	-4723.0	NM_001290996	56734.0	Mm.439742	NM_008807	ENSMUSG00000023467	Tulp2	Pdet	tubby-like protein 2	protein-coding	6.5	12.5	4.5	76.0	33.0	8.0	16.0	6.0
Merged-chr12-69447426-4	chr12	69447343	69447543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28107.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	104.5	165.5	88.0	1379.0	245.0	83.0	82.5	125.5
Merged-chr18-80704018-2	chr18	80703920	80704120	+	793.1999509999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	intron (NM_198429, intron 1 of 9)	4153.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	7.0	4.5	4.5	58.5	5.5	8.5	2.0	6.5
Merged-chr17-71136813-4	chr17	71136717	71136917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-46715.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	37.0	43.0	30.5	502.0	50.5	28.0	37.0	24.5
Merged-chr2-119741761-2	chr2	119741618	119741818	+	718.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146125)	promoter-TSS (NM_146125)	-619.0	NM_146125	228550.0	Mm.65337	NM_146125	ENSMUSG00000027296	Itpka	-	inositol 1,4,5-trisphosphate 3-kinase A	protein-coding	9.5	6.5	3.0	32.5	9.0	12.0	4.5	7.0
Merged-chr7-41499881-2	chr7	41499781	41499981	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033530)	promoter-TSS (NM_001033530)	9.0	NM_001033530	101835.0	Mm.370336	NM_001033530	ENSMUSG00000074166	AW146154	AI451288	expressed sequence AW146154	protein-coding	17.0	18.0	37.0	333.5	30.5	17.5	16.5	9.5
Merged-chr12-3833928-3	chr12	3833796	3833996	+	854.633301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	26736.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	10.0	10.0	10.5	117.5	12.0	5.0	7.0	12.5
Merged-chr1-134075800-4	chr1	134075706	134075906	+	798.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007570, exon 2 of 2)	3' UTR (NM_007570, exon 2 of 2)	3349.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	10.0	10.0	7.5	253.0	22.5	5.5	9.0	16.0
Merged-chr16-13373167-4	chr16	13373063	13373263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153588, intron 1 of 14)	intron (NM_153588, intron 1 of 14)	14742.0	NM_153588	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	23.0	23.5	22.5	372.0	53.0	17.5	33.5	34.0
Merged-chr6-87042753-4	chr6	87042662	87042862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013528)	promoter-TSS (NM_013528)	-84.0	NM_013528	14583.0	Mm.19893	NM_013528	ENSMUSG00000029992	Gfpt1	2810423A18Rik|AI324119|AI449986|GFA|GFAT|GFAT1|GFAT1m|Gfpt	glutamine fructose-6-phosphate transaminase 1	protein-coding	184.0	296.5	205.0	2679.0	380.5	153.5	232.0	197.0
Merged-chr15-78771928-4	chr15	78771834	78772034	+	899.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008595, intron 1 of 7)	intron (NM_008595, intron 1 of 7)	1511.0	NM_008595	17305.0	Mm.149235	NM_008595	ENSMUSG00000018169	Mfng	AW546563	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	14.0	20.5	14.5	175.0	16.0	15.0	10.5	13.0
Merged-chr5-121837790-4	chr5	121837708	121837908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008507)	promoter-TSS (NM_008507)	-949.0	NM_008507	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	33.5	72.5	73.5	493.5	76.5	27.0	21.0	27.0
Merged-chr6-66395353-2	chr6	66395253	66395453	+	842.0	f0_balb.idr|f0_c57.idr	Intergenic	MLT2F|LTR|ERVL	122848.0	NR_136927	102633773.0	Mm.272086	NR_136927	ENSMUSG00000107653	Gm31520	-	sterol-C5-desaturase pseudogene	pseudo	1.0	6.0	9.0	103.0	91.0	14.5	32.5	32.0
Merged-chr11-22969686-4	chr11	22969599	22969799	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144514, intron 1 of 2)	intron (NM_144514, intron 1 of 2)	-2306.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	19.0	36.5	20.0	173.5	60.5	12.5	23.5	21.0
Merged-chr11-83733255-4	chr11	83733162	83733362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19A|LTR|ERVK	-13678.0	NM_183249	66107.0	Mm.902	NM_183249	ENSMUSG00000051748	Wfdc21	1100001G20Rik|Wdnm1-like	WAP four-disulfide core domain 21	protein-coding	54.5	113.5	39.5	561.5	116.0	46.0	50.0	44.0
Merged-chr2-29890404-4	chr2	29890285	29890485	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013615, intron 1 of 16)	CpG	322.0	NM_013615	18286.0	Mm.330116	NM_013615	ENSMUSG00000026790	Odf2	AI848335|MMTEST29	outer dense fiber of sperm tails 2	protein-coding	15.0	24.0	7.5	220.0	38.5	17.5	19.0	29.0
Merged-chr15-59156481-3	chr15	59156368	59156568	+	976.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	-74442.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	21.0	15.0	32.0	302.5	12.5	7.0	9.5	28.5
Merged-chr2-70968508-4	chr2	70968409	70968609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 7 of 9)	intron (NM_145524, intron 7 of 9)	49865.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	53.5	100.0	81.0	1439.5	144.0	49.5	87.5	78.0
Merged-chr12-5181789-3	chr12	5181689	5181889	+	850.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 3 of 13)	intron (NM_001164493, intron 3 of 13)	193893.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	4.5	2.0	6.5	93.5	17.5	12.0	11.5	7.0
Merged-chr18-23803882-4	chr18	23803788	23803988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153058)	promoter-TSS (NM_153058)	-82.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	346.5	528.5	488.0	5522.5	774.5	343.5	400.5	314.0
Merged-chr9-58954614-3	chr9	58954533	58954733	+	948.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008684, intron 7 of 28)	LTR41|LTR|ERVL	81808.0	NM_001042752	18007.0	Mm.42249	NM_008684	ENSMUSG00000032340	Neo1	2610028H22Rik|AI327052|D930014N22Rik|Igdcc2	neogenin	protein-coding	12.0	14.0	13.5	264.5	10.5	0.5	5.0	17.5
Merged-chr11-115277128-4	chr11	115277054	115277254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007997)	promoter-TSS (NM_007997)	-185.0	NM_007997	14149.0	Mm.4719	NM_007997	ENSMUSG00000018861	Fdxr	AR	ferredoxin reductase	protein-coding	208.5	337.0	162.5	1975.0	563.0	236.0	204.0	195.5
Merged-chr11-98962915-2	chr11	98962815	98963015	+	855.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001176528, intron 1 of 7)	intron (NM_001176528, intron 1 of 7)	-1957.0	NM_001361954	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	3.5	5.0	11.0	74.5	18.0	5.0	7.5	9.0
Merged-chr17-32924865-4	chr17	32924750	32924950	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_130882, exon 13 of 13)	exon (NM_130882, exon 13 of 13)	-7494.0	NM_001357788	64385.0	Mm.486449	NM_022434	ENSMUSG00000024292	Cyp4f14	1300014O15Rik|cyp4f-14	cytochrome P450, family 4, subfamily f, polypeptide 14	protein-coding	38.0	42.5	31.5	206.0	69.0	41.0	58.5	38.5
Merged-chr2-170158194-8	chr2	170158121	170158321	+	896.089294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15546.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	5.5	25.0	22.5	126.0	35.0	16.5	16.5	16.0
Merged-chr2-167793842-3	chr2	167793773	167793973	+	690.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	102696.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	9.0	5.5	6.0	81.0	14.5	5.0	4.0	13.5
Merged-chr18-36734467-3	chr18	36734366	36734566	+	727.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028036)	promoter-TSS (NM_028036)	-604.0	NM_028036	71983.0	Mm.135188	NM_028036	ENSMUSG00000006850	Tmco6	2410015B03Rik	transmembrane and coiled-coil domains 6	protein-coding	4.0	13.5	10.5	74.0	20.5	8.0	8.5	9.5
Merged-chr9-106247894-4	chr9	106247774	106247974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291835)	promoter-TSS (NM_001291835)	80.0	NM_020559	11655.0	Mm.290578	NM_020559	ENSMUSG00000032786	Alas1	ALAS|ALAS-N|Alas-1|Alas-h	aminolevulinic acid synthase 1	protein-coding	55.5	64.5	60.5	596.5	95.5	46.0	42.5	40.5
Merged-chr13-37660270-4	chr13	37660163	37660363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-165775.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	37.5	108.5	41.5	589.5	116.0	40.0	34.0	25.0
Merged-chr2-165056000-2	chr2	165055900	165056100	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_027852, intron 1 of 7)	intron (NR_027852, intron 1 of 7)	364.0	NM_011611	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	5.0	16.0	4.5	10.5	42.0	7.5	10.5	8.0
Merged-chr6-38676882-4	chr6	38676778	38676978	+	937.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101507, exon 3 of 5)	exon (NM_001101507, exon 3 of 5)	13809.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	28.5	46.5	26.5	561.0	28.0	8.0	15.0	18.0
Merged-chr14-31435324-5	chr14	31435251	31435451	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 1 of 8)	CpG	749.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	17.0	24.5	23.5	303.0	18.5	11.5	11.5	21.5
Merged-chr3-109478462-4	chr3	109478355	109478555	+	937.037476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-95552.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	12.5	22.5	15.0	165.0	51.0	22.5	15.0	17.5
Merged-chr2-181678973-4	chr2	181678882	181679082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1315.0	NM_001356343	21400.0	Mm.24245	NM_009326	ENSMUSG00000059540	Tcea2	AI326274|S-II-T1|SII-T1|Tceat	transcription elongation factor A (SII), 2	protein-coding	48.0	56.0	44.0	532.0	81.5	22.5	43.5	42.0
Merged-chr14-75164051-4	chr14	75163971	75164171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	27646.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	39.0	49.0	39.0	730.5	100.5	38.5	71.0	54.0
Merged-chr13-58388096-4	chr13	58387974	58388174	+	869.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2849.0	NM_027335	70153.0	Mm.296610	NM_027335	ENSMUSG00000021550	2210016F16Rik	-	RIKEN cDNA 2210016F16 gene	protein-coding	8.5	17.5	8.0	120.0	37.0	12.5	8.5	8.5
Merged-chr15-82165502-3	chr15	82165398	82165598	+	742.93335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033218, intron 1 of 18)	B3|SINE|B2	18229.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	7.0	26.0	10.5	68.5	48.5	9.0	10.5	15.0
Merged-chr6-82045343-3	chr6	82045244	82045444	+	973.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145570, intron 1 of 2)	intron (NM_145570, intron 1 of 2)	3716.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	26.5	54.5	49.0	577.0	12.5	2.0	1.5	2.5
Merged-chr13-47225524-4	chr13	47225414	47225614	+	922.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	intron (NM_146042, intron 3 of 7)	31511.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	9.5	19.0	10.0	169.5	32.5	3.5	4.5	17.0
Merged-chr7-127208236-3	chr7	127208104	127208304	+	975.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347655)	promoter-TSS (NM_001347655)	264.0	NM_144522	68449.0	Mm.41420	NM_144522	ENSMUSG00000042492	Tbc1d10b	1110003P22Rik|C87963	TBC1 domain family, member 10b	protein-coding	8.5	16.0	9.0	120.0	31.5	27.0	13.0	22.0
Merged-chr8-120536326-6	chr8	120536269	120536469	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_151732)	TTS (NR_151732)	512.0	NM_001145897	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	13.5	8.5	6.5	179.5	17.0	11.0	8.5	19.0
Merged-chr14-47358159-2	chr14	47358076	47358276	+	788.666626	f0_balb.idr|f1_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-15684.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	8.5	8.5	21.5	392.5	6.5	0.0	0.5	2.5
Merged-chr15-97487623-4	chr15	97487534	97487734	+	796.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	218188.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	6.0	19.0	4.0	151.5	18.5	4.5	8.0	8.5
Merged-chr15-99702098-4	chr15	99701995	99702195	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031842)	promoter-TSS (NM_031842)	-192.0	NM_031842	83797.0	Mm.273756	NM_031842	ENSMUSG00000023018	Smarcd1	AA407987|Baf60a|D15Kz1	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1	protein-coding	35.0	54.0	16.0	486.0	58.0	23.5	42.5	37.0
Merged-chr12-75765975-4	chr12	75765884	75766084	+	755.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30255.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	3.5	2.0	5.0	94.0	21.5	10.0	5.0	4.5
Merged-chr16-95821162-4	chr16	95821065	95821265	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77548.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	20.5	20.0	14.0	397.5	58.5	9.5	19.0	21.5
Merged-chr7-67985216-4	chr7	67985118	67985318	+	979.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 1 of 20)	L1MB3|LINE|L1	32961.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	49.5	49.0	29.0	635.5	37.5	9.5	22.5	24.0
Merged-chr8-67986704-3	chr8	67986606	67986806	+	889.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12132.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	1.5	14.5	4.5	79.5	25.0	10.0	11.0	7.5
Merged-chr12-86892446-6	chr12	86892259	86892459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7545.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	9.5	11.5	9.0	63.5	42.0	7.0	18.0	17.0
Merged-chr5-24165865-2	chr5	24165765	24165965	+	946.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153092, intron 1 of 6)	intron (NM_153092, intron 1 of 6)	902.0	NM_001346582	231042.0	Mm.45513	NM_153092	ENSMUSG00000048439	Nupl2	AV116043|CG1|NLP-1|Nlp1	nucleoporin like 2	protein-coding	0.0	8.5	2.0	66.5	7.5	6.0	11.0	5.5
Merged-chr4-55351233-3	chr4	55351067	55351267	+	983.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	intron (NM_009011, intron 1 of 9)	1125.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	1.0	9.0	3.5	42.5	25.5	6.0	4.5	11.0
Merged-chr5-72891678-4	chr5	72891591	72891791	+	965.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22671.0	NM_001113423	75991.0	Mm.121285	NM_153567	ENSMUSG00000036087	Slain2	5033405K12Rik|8030444K12Rik|AI596370	SLAIN motif family, member 2	protein-coding	26.0	23.5	10.5	247.0	45.5	22.0	27.0	11.0
Merged-chr5-3491989-3	chr5	3491897	3492097	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-51836.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	7.0	12.0	7.0	146.5	22.0	6.5	2.5	3.5
Merged-chr17-43580741-4	chr17	43580639	43580839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	10770.0	NR_045445	73504.0	Mm.9277	NR_045444	ENSMUSG00000090307	1700071M16Rik	-	RIKEN cDNA 1700071M16 gene	ncRNA	61.0	71.0	59.0	535.5	94.0	43.5	46.0	35.5
Merged-chr3-135431305-2	chr3	135431205	135431405	+	827.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6927.0	NM_001356594	66105.0	Mm.49884	NM_025356	ENSMUSG00000078578	Ube2d3	1100001F19Rik|9430029A22Rik|AA414951	ubiquitin-conjugating enzyme E2D 3	protein-coding	1.0	6.0	7.0	98.0	7.0	7.0	5.5	6.5
Merged-chr9-63712828-4	chr9	63712722	63712922	+	975.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	45172.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	10.5	18.5	20.0	233.0	40.0	15.5	18.0	29.5
Merged-chr5-88509242-4	chr5	88509133	88509333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18664.0	NM_152839	16069.0	Mm.1192	NM_152839	ENSMUSG00000067149	Jchain	9530090F24Rik|AI323815|Igj|Jch	immunoglobulin joining chain	protein-coding	90.5	56.0	68.0	1009.5	234.5	63.5	86.5	80.0
Merged-chr14-47735516-4	chr14	47735424	47735624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347525, intron 39 of 39)	intron (NM_001347525, intron 39 of 39)	71768.0	NM_001347522	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	30.5	37.0	40.0	637.0	46.0	16.5	21.5	34.5
Merged-chr10-67535557-4	chr10	67535440	67535640	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2329.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	10.5	8.0	12.0	135.0	23.0	2.5	2.5	13.0
Merged-chr7-83586253-4	chr7	83586169	83586369	+	766.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177695, intron 1 of 22)	intron (NM_177695, intron 1 of 22)	1338.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	4.5	6.0	18.0	112.5	14.0	14.5	13.5	15.5
Merged-chr19-4149536-4	chr19	4149437	4149637	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011778, exon 2 of 11)	exon (NM_011778, exon 2 of 11)	874.0	NM_011778	23789.0	Mm.276859	NM_011778	ENSMUSG00000024835	Coro1b	-	coronin, actin binding protein 1B	protein-coding	22.0	11.5	3.5	141.5	36.0	6.0	11.5	9.5
Merged-chr5-103715189-4	chr5	103715110	103715310	+	860.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-38952.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	9.0	9.0	2.0	90.5	49.0	14.5	14.5	17.0
Merged-chr13-9130047-4	chr13	9129954	9130154	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 3 of 17)	intron (NM_172585, intron 3 of 17)	36173.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	13.0	18.5	18.0	316.5	25.0	12.5	9.5	9.5
Merged-chr8-121949001-2	chr8	121948901	121949101	+	728.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1491.0	NM_016812	53325.0	Mm.287163	NM_016812	ENSMUSG00000025316	Banp	AA408158|SMAR1	BTG3 associated nuclear protein	protein-coding	7.0	6.0	6.5	64.0	5.5	4.5	7.0	4.5
Merged-chr15-33115011-4	chr15	33114900	33115100	+	740.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 1 of 7)	intron (NM_176073, intron 1 of 7)	31871.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	3.5	5.5	8.5	90.5	16.5	6.5	11.0	5.0
Merged-chr6-100381291-4	chr6	100381183	100381383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93925.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	49.0	55.0	47.5	1035.0	156.5	52.5	49.0	41.0
Merged-chr7-6362768-4	chr7	6362630	6362830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025163)	promoter-TSS (NM_001025163)	-578.0	NM_001025163	330463.0	Mm.136456	NM_177888	ENSMUSG00000055150	Zfp78	A330079D15|KRAB12|Zfp77	zinc finger protein 78	protein-coding	420.5	534.5	338.5	4628.0	1093.5	414.0	495.0	352.5
Merged-chr17-15499838-4	chr17	15499725	15499925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013684)	promoter-TSS (NM_013684)	-63.0	NM_013684	21374.0	Mm.244820	NM_013684	ENSMUSG00000014767	Tbp	GTF2D1|Gtf2d|SCA17|TFIID	TATA box binding protein	protein-coding	127.5	196.5	122.0	2140.5	345.0	125.0	144.0	99.0
Merged-chr16-92847959-4	chr16	92847865	92848065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21891.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	34.0	57.0	26.5	480.0	92.0	33.0	41.0	38.5
Merged-chr19-55740844-6	chr19	55740759	55740959	+	842.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331147)	promoter-TSS (NM_001331147)	-951.0	NM_001331147	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	4.5	14.5	5.0	32.0	17.5	12.0	6.0	11.0
Merged-chr8-81767199-4	chr8	81767097	81767297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001297593, intron 4 of 23)	intron (NM_001297593, intron 4 of 23)	424635.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	26.0	28.0	29.5	273.5	78.0	8.0	23.5	24.0
Merged-chr15-80564366-4	chr15	80564261	80564461	+	918.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3891.0	NM_001163189	383075.0	Mm.297626	NM_001163189	ENSMUSG00000050439	Enthd1	Gm1242|Gm86	ENTH domain containing 1	protein-coding	13.5	15.0	23.0	243.5	38.5	15.0	14.0	13.5
Merged-chr10-127635252-4	chr10	127635149	127635349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-7737.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	75.0	187.0	107.5	1153.5	166.5	62.5	81.5	66.5
Merged-chr4-40244951-2	chr4	40244851	40245051	+	917.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5126.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	10.0	8.0	6.0	63.0	42.5	3.5	2.0	4.0
Merged-chr4-120914041-4	chr4	120913938	120914138	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	10967.0	NM_028457	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	18.0	43.5	19.0	309.0	48.5	26.5	28.0	32.5
Merged-chr6-97759533-3	chr6	97759441	97759641	+	715.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47517.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	4.5	5.5	9.0	110.5	16.5	5.5	5.0	3.0
Merged-chr15-59906705-3	chr15	59906625	59906825	+	912.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109893.0	NM_027668	71088.0	Mm.425950	NM_027668	ENSMUSG00000071749	4933412E24Rik	-	RIKEN cDNA 4933412E24 gene	protein-coding	5.5	12.5	7.0	103.0	16.0	9.0	9.0	5.0
Merged-chr6-148246710-3	chr6	148246615	148246815	+	747.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198967, intron 16 of 19)	intron (NM_198967, intron 16 of 19)	-34341.0	NM_001286560	67456.0	Mm.59812	NM_026168	ENSMUSG00000030304	Ergic2	1200009B18Rik|4930572C01Rik|AA408438|Ptx1	ERGIC and golgi 2	protein-coding	9.0	7.5	10.5	120.0	20.5	6.0	5.5	3.5
Merged-chr1-195131114-4	chr1	195131032	195131232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355061, exon 1 of 9)	5' UTR (NM_001355061, exon 1 of 9)	438.0	NM_001355060	12946.0	Mm.301652	NM_013499	ENSMUSG00000016481	Cr1l	Crry|Mcp|mCRY	complement component (3b/4b) receptor 1-like	protein-coding	47.0	57.5	56.5	803.5	114.0	34.5	48.5	45.0
Merged-chr1-131022762-2	chr1	131022662	131022862	+	643.083313	f1_balb.idr|f1_c57bl6.idr	intron (NM_010548, intron 4 of 4)	intron (NM_010548, intron 4 of 4)	2917.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	5.5	5.0	0.0	60.0	15.5	8.5	6.5	8.5
Merged-chr5-122732178-3	chr5	122732102	122732302	+	906.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145358, exon 16 of 16)	3' UTR (NM_145358, exon 16 of 16)	24658.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	14.5	10.0	20.0	120.0	10.5	4.0	4.5	2.0
Merged-chr13-6241654-4	chr13	6241567	6241767	+	883.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-306490.0	NM_145131	69617.0	Mm.41933	NM_145131	ENSMUSG00000021193	Pitrm1	2310012C15Rik|AA410010|MP-1|MP1|Ntup1|PreP|mKIAA1104	pitrilysin metallepetidase 1	protein-coding	22.0	15.0	16.5	413.5	26.0	8.5	15.5	13.0
Merged-chr8-22805713-4	chr8	22805595	22805795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122820)	promoter-TSS (NM_001122820)	-41.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	238.5	358.5	242.0	4693.0	610.0	225.0	293.0	197.0
Merged-chr4-108327184-4	chr4	108327149	108327349	+	986.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027250)	promoter-TSS (NM_027250)	-903.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	12.0	22.0	11.5	212.0	48.0	11.5	13.5	8.5
Merged-chr9-73001734-4	chr9	73001614	73001814	+	948.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001114328, exon 5 of 8)	exon (NM_001114328, exon 5 of 8)	16210.0	NM_001286544	72278.0	Mm.268475	NM_028181	ENSMUSG00000034563	Ccpg1	1700030B06Rik|1810073J13Rik|9430028F23Rik|AI426686|AI875170|CPR8|D9Ertd392e	cell cycle progression 1	protein-coding	16.0	29.0	18.0	259.5	36.5	8.5	8.0	9.5
Merged-chr9-20966950-4	chr9	20966855	20967055	+	908.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010333, exon 2 of 2)	3' UTR (NM_010333, exon 2 of 2)	-7067.0	NM_001199432	13433.0	Mm.128580	NM_010066	ENSMUSG00000004099	Dnmt1	Cxxc9|Dnmt|Dnmt1o|MCMT|MTase|Met-1|Met1|MommeD2|m.MmuI	DNA methyltransferase (cytosine-5) 1	protein-coding	13.0	17.0	5.5	185.0	29.0	20.0	19.5	15.0
Merged-chr8-72365970-3	chr8	72365846	72366046	+	781.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007944, intron 21 of 23)	X3_LINE|LINE|RTE-BovB	46884.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	8.0	7.5	5.0	74.0	12.0	1.5	12.5	7.0
Merged-chr10-44752317-3	chr10	44752214	44752414	+	841.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-293566.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	5.0	10.0	0.0	121.0	21.5	5.0	5.5	15.0
Merged-chr8-71725709-3	chr8	71725577	71725777	+	741.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028715)	promoter-TSS (NM_028715)	4.0	NR_131256	74015.0	Mm.22025	NM_028715	ENSMUSG00000070000	Fcho1	3322402E17Rik|N28152	FCH domain only 1	protein-coding	7.5	5.0	1.5	90.0	17.0	5.0	6.0	9.0
Merged-chr13-52505873-4	chr13	52505785	52505985	+	907.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001024474, exon 2 of 2)	3' UTR (NM_001024474, exon 2 of 2)	24951.0	NM_001024474	68203.0	Mm.29362	NM_001024474	ENSMUSG00000047842	Diras2	2900052J15Rik|AI414999	DIRAS family, GTP-binding RAS-like 2	protein-coding	40.0	37.5	55.5	533.0	17.5	7.0	14.0	13.0
Merged-chr3-9886822-4	chr3	9886718	9886918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-53139.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	89.0	164.0	75.0	889.0	279.5	131.5	154.0	73.5
Merged-chr19-46008359-2	chr19	46008259	46008459	+	903.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_152221, intron 1 of 1)	intron (NR_152221, intron 1 of 1)	4881.0	NM_176785	20170.0	Mm.101110	NM_176785	ENSMUSG00000074811	Hps6	5330434M19Rik|BLOC2|ru	HPS6, biogenesis of lysosomal organelles complex 2 subunit 3	protein-coding	6.0	9.0	5.0	29.5	7.0	2.5	1.5	4.0
Merged-chr2-68465695-3	chr2	68465616	68465816	+	821.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	intron (NM_016866, intron 1 of 17)	6265.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	5.0	5.5	10.0	102.5	13.5	3.5	5.5	8.0
Merged-chr13-111821935-3	chr13	111821830	111822030	+	935.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-12937.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	12.5	12.5	17.5	169.0	20.5	6.0	27.5	9.0
Merged-chr13-9874175-4	chr13	9874074	9874274	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108853.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	12.0	22.0	4.5	161.0	26.0	13.0	11.0	22.5
Merged-chr13-37963589-4	chr13	37963480	37963680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30628.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	65.0	79.0	38.0	521.5	130.5	53.0	47.0	48.5
Merged-chr6-129472171-4	chr6	129471996	129472196	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020008, intron 1 of 5)	intron (NM_020008, intron 1 of 5)	683.0	NM_001309637	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	8.5	6.0	4.5	124.0	34.5	10.0	10.5	19.0
Merged-chr4-148165094-4	chr4	148165012	148165212	+	830.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176848, exon 4 of 6)	exon (NM_176848, exon 4 of 6)	4444.0	NM_176848	230904.0	Mm.262287	NM_176848	ENSMUSG00000041556	Fbxo2	FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4	F-box protein 2	protein-coding	5.0	10.0	13.0	97.0	33.0	12.5	7.0	10.0
Merged-chr6-54082718-4	chr6	54082616	54082816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	42784.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	114.0	168.5	152.0	1677.5	273.0	116.5	119.0	111.5
Merged-chr14-76703640-4	chr14	76703591	76703791	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26123.0	NR_015485	73272.0	Mm.116804	NR_015485	ENSMUSG00000101009	1700108F19Rik	1700020I02Rik|BB065030	RIKEN cDNA 1700108F19 gene	ncRNA	5.5	15.0	14.5	150.0	59.0	13.5	19.5	14.5
Merged-chr11-115164051-6	chr11	115163925	115164125	+	929.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 1 of 5)	CpG	684.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	14.0	12.0	12.0	120.5	41.0	7.5	14.5	19.0
Merged-chr14-64752987-4	chr14	64752852	64753052	+	836.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 21 of 39)	intron (NM_001081177, intron 21 of 39)	100421.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	5.5	5.5	6.5	106.0	24.5	6.5	4.0	6.5
Merged-chr4-45587401-3	chr4	45587281	45587481	+	602.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52555.0	NR_151513	100040557.0	Mm.383510	NR_151513	ENSMUSG00000085980	Gm12408	-	predicted gene 12408	ncRNA	7.0	6.0	5.5	148.5	20.5	5.0	6.0	17.5
Merged-chr19-47220420-1	chr19	47220320	47220520	+	1000.0	f0_c57.idr	intron (NM_021360, intron 1 of 5)	(CACAT)n|Simple_repeat|Simple_repeat	-8423.0	NM_001163480	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	1.0	1.5	5.0	0.0	39.5	11.0	16.0	6.0
Merged-chr2-29869892-2	chr2	29869792	29869992	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207298, intron 1 of 11)	intron (NM_207298, intron 1 of 11)	398.0	NM_207298	99151.0	Mm.296336	NM_207298	ENSMUSG00000039787	Cercam	2600006K01Rik|AL024097|Ceecam1	cerebral endothelial cell adhesion molecule	protein-coding	4.0	7.0	5.5	116.0	5.0	4.5	6.5	4.5
Merged-chr2-160157291-4	chr2	160157167	160157367	+	962.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140614.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	45.5	57.0	60.0	540.0	61.5	20.0	12.5	23.0
Merged-chr11-59248291-3	chr11	59248187	59248387	+	682.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009522, exon 4 of 4)	3' UTR (NM_009522, exon 4 of 4)	-20020.0	NM_007476	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	8.5	13.5	10.0	184.0	2.0	1.5	9.5	9.0
Merged-chr15-25279954-2	chr15	25279854	25280054	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	133810.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	2.0	10.0	4.0	34.5	12.5	6.5	8.5	4.5
Merged-chr19-11823165-1	chr19	11823065	11823265	+	643.0	f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-3762.0	NR_153434	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	0.5	0.0	1.0	39.0	22.5	16.0	7.0	4.5
Merged-chr12-32132075-4	chr12	32131986	32132186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70807.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	48.0	50.0	32.5	722.5	85.5	28.0	49.5	56.5
Merged-chr2-27515152-4	chr2	27515007	27515207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080848)	promoter-TSS (NM_080848)	-40.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	57.0	76.0	16.0	668.0	151.5	49.5	58.5	61.0
Merged-chr11-50291612-4	chr11	50291488	50291688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	intron (NM_175334, intron 1 of 4)	748.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	8.5	17.0	12.5	179.0	37.0	22.0	12.0	18.5
Merged-chr11-93995261-4	chr11	93995166	93995366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199203)	promoter-TSS (NM_001199203)	-825.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	199.5	363.5	151.0	2923.5	557.5	187.5	214.5	183.5
Merged-chr12-85670296-4	chr12	85670197	85670397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16423.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	25.0	52.5	41.5	361.5	114.0	29.0	38.0	25.5
Merged-chr11-95821637-8	chr11	95821532	95821732	+	791.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-2868.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	6.5	11.5	4.5	105.0	19.0	9.0	6.0	11.5
Merged-chr9-118612393-4	chr9	118612336	118612536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	5727.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	52.5	59.0	69.5	775.0	155.0	58.5	58.5	73.0
Merged-chr16-20412788-4	chr16	20412683	20412883	+	947.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 2 of 6)	intron (NM_176839, intron 2 of 6)	13611.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	11.5	30.5	10.5	228.0	48.0	26.5	14.5	21.0
Merged-chr9-108560399-4	chr9	108560312	108560512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011830)	promoter-TSS (NM_011830)	-89.0	NM_011830	23918.0	Mm.6065	NM_011830	ENSMUSG00000062867	Impdh2	IMPD	inosine monophosphate dehydrogenase 2	protein-coding	140.0	257.5	118.0	1396.0	461.5	178.0	152.5	119.5
Merged-chr11-53770388-4	chr11	53770276	53770476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159396)	promoter-TSS (NM_001159396)	-97.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	87.0	222.0	108.5	848.0	303.5	107.0	91.5	64.5
Merged-chr12-85914554-3	chr12	85914464	85914664	+	934.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 19 of 32)	intron (NM_001347395, intron 19 of 32)	89614.0	NM_001081423	320244.0	Mm.132172	NM_177114	ENSMUSG00000012609	Ttll5	1700048H13Rik|2310009M18Rik|4930556H18Rik|AI428864|D630041K24Rik|R75373|Stamp|mKIAA0998	tubulin tyrosine ligase-like family, member 5	protein-coding	12.5	7.5	11.5	191.0	19.5	3.0	6.5	7.5
Merged-chr10-4456616-3	chr10	4456523	4456723	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	24018.0	NM_024261	73419.0	Mm.346733	NM_024261	ENSMUSG00000061759	Armt1	1700052N19Rik|AW320013|AW536799	acidic residue methyltransferase 1	protein-coding	5.0	17.5	3.0	235.5	18.5	8.0	7.5	8.5
Merged-chr15-95808074-4	chr15	95807967	95808167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	17224.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	58.5	85.5	90.5	1021.0	170.0	52.5	54.5	65.5
Merged-chr6-91582471-1	chr6	91582371	91582571	+	944.3333130000001	f0_balb.idr	Intergenic	L1MC4a|LINE|L1	66436.0	NM_026309	67678.0	Mm.246693	NM_026309	ENSMUSG00000034192	Lsm3	1010001J12Rik|2610005D18Rik|6030401D18Rik|SMX4|USS2	LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	11.5	9.0	17.0	254.5	2.0	2.5	2.5	3.0
Merged-chr13-97208280-4	chr13	97208160	97208360	+	876.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9903.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	19.5	13.5	10.5	160.5	51.0	10.5	8.0	12.0
Merged-chr18-58583279-2	chr18	58583176	58583376	+	567.5	f0_balb.idr|f1_balb.idr	intron (NM_001081072, intron 4 of 9)	intron (NM_001081072, intron 4 of 9)	27036.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	7.0	8.0	15.5	43.5	12.0	1.0	3.5	3.5
Merged-chr9-94708468-4	chr9	94708368	94708568	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 2 of 15)	intron (NM_177909, intron 2 of 15)	38576.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	25.5	26.5	29.5	351.0	40.0	32.5	25.5	22.0
Merged-chr2-167419378-4	chr2	167419276	167419476	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2334.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	9.5	19.0	5.5	95.0	62.5	18.5	19.5	9.5
Merged-chr15-53324473-4	chr15	53324379	53324579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	21704.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	27.5	40.5	34.5	537.0	108.0	21.0	35.5	29.0
Merged-chr11-89000805-6	chr11	89000692	89000892	+	856.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	1389.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	9.5	16.5	12.5	121.0	29.0	14.0	17.0	16.0
Merged-chr5-38309110-4	chr5	38309017	38309217	+	741.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10392.0	NM_013503	13492.0	Mm.167154	NM_013503	ENSMUSG00000039358	Drd5	D5R|Drd-5|Drd1b|Gpcr1	dopamine receptor D5	protein-coding	4.0	13.5	6.5	130.0	26.5	5.0	13.0	12.5
Merged-chr2-31062391-4	chr2	31062268	31062468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	34132.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	36.0	54.5	38.0	681.5	101.0	24.5	29.5	41.5
Merged-chr18-66459781-3	chr18	66459683	66459883	+	709.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021451, intron 1 of 2)	PB1D10|SINE|Alu	1179.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	6.0	15.0	6.0	146.5	14.0	1.5	5.5	16.0
Merged-chr19-47147955-4	chr19	47147857	47148057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3783.0	NM_001081271	546729.0	Mm.439624	NM_001081271	ENSMUSG00000079258	Calhm1	EG546729	calcium homeostasis modulator 1	protein-coding	24.5	48.5	18.0	354.0	67.5	23.5	19.5	21.0
Merged-chr4-117167445-4	chr4	117167343	117167543	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290662, intron 10 of 19)	intron (NM_001290662, intron 10 of 19)	-11311.0	NM_009098	20116.0	Mm.260904	NM_009098	ENSMUSG00000047675	Rps8	-	ribosomal protein S8	protein-coding	28.0	30.0	19.0	209.5	71.5	22.5	29.5	12.5
Merged-chr18-39737437-4	chr18	39737335	39737535	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36062.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	18.0	44.5	14.5	211.5	47.0	27.0	12.0	13.5
Merged-chr5-123930706-4	chr5	123930672	123930872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134767)	promoter-TSS (NM_001134767)	83.0	NM_001134767	208908.0	Mm.243679	NM_001134767	ENSMUSG00000061882	Ccdc62	AI661708|G1-485-3|Gm150|repro29	coiled-coil domain containing 62	protein-coding	70.0	115.0	58.0	828.0	148.5	73.5	69.0	75.0
Merged-chr9-13662110-10	chr9	13661968	13662168	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173776)	promoter-TSS (NM_173776)	-392.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	13.0	34.0	13.5	211.0	31.0	19.0	8.0	24.5
Merged-chr2-128871867-4	chr2	128871725	128871925	+	962.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024237, intron 1 of 7)	intron (NM_024237, intron 1 of 7)	7893.0	NM_024237	70370.0	Mm.5107	NM_024237	ENSMUSG00000027386	Fbln7	1600015H20Rik|AI464334|TM14	fibulin 7	protein-coding	13.0	30.0	25.5	573.5	55.0	15.5	16.5	24.0
Merged-chr15-102243605-4	chr15	102243494	102243694	+	943.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011244, intron 3 of 9)	intron (NM_011244, intron 3 of 9)	2906.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	18.0	32.5	11.0	263.5	46.5	23.0	13.5	19.0
Merged-chr1-125426522-3	chr1	125426414	125426614	+	878.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205386, intron 2 of 12)	URR1A|DNA|hAT-Charlie	9213.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	7.0	13.0	5.5	186.0	14.0	6.5	6.5	8.0
Merged-chr17-36992464-4	chr17	36992358	36992558	+	967.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34-int|LTR|ERV1	-2954.0	NM_001115075	240095.0	Mm.246609	NM_001115075	ENSMUSG00000024459	H2-M5	CRW2|D130003B22Rik|H-2M5	histocompatibility 2, M region locus 5	protein-coding	18.5	21.0	32.5	546.0	30.5	10.5	16.5	19.0
Merged-chr15-40023374-1	chr15	40023274	40023474	+	917.0	f0_balb.idr	Intergenic	Intergenic	-21814.0	NR_155348	102636079.0	Mm.421381	NR_155348	ENSMUSG00000115142	Gm33251	-	predicted gene, 33251	ncRNA	5.5	15.0	15.5	209.0	12.0	4.0	2.5	4.5
Merged-chr9-53356964-3	chr9	53356866	53357066	+	863.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176846, intron 4 of 5)	intron (NM_176846, intron 4 of 5)	-27057.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	10.5	6.0	5.0	111.5	12.0	3.5	6.0	14.5
Merged-chr8-34744377-3	chr8	34744283	34744483	+	955.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63227.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	1.0	0.5	0.5	56.0	75.5	27.0	20.5	16.0
Merged-chr8-56293450-4	chr8	56293350	56293550	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1102.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	20.5	16.5	38.5	784.5	44.0	20.0	27.5	33.0
Merged-chr6-136965309-4	chr6	136965212	136965412	+	992.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10789.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	23.5	48.0	23.5	372.5	94.0	29.5	26.5	16.0
Merged-chr18-5085201-3	chr18	5085087	5085287	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347449, intron 11 of 30)	intron (NM_001347449, intron 11 of 30)	38598.0	NM_001347449	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	8.0	9.0	9.0	87.0	11.5	7.5	2.0	8.0
Merged-chr6-120666845-2	chr6	120666745	120666945	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001128151, intron 1 of 18)	CpG-12437	424.0	NM_001128151	330409.0	Mm.333357	NM_001128151	ENSMUSG00000071226	Cecr2	2610101O16Rik|2810409N01Rik|Gtl4|mKIAA1740	CECR2, histone acetyl-lysine reader	protein-coding	5.5	11.5	3.5	48.0	5.0	5.0	5.5	12.0
Merged-chr2-155757074-3	chr2	155756967	155757167	+	883.805542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	5850.0	NM_011171	19124.0	Mm.3243	NM_011171	ENSMUSG00000027611	Procr	AI325044|Ccca|Ccd41|Epcr	protein C receptor, endothelial	protein-coding	1.5	4.0	0.5	16.0	47.0	20.0	16.0	16.5
Merged-chr6-16896643-4	chr6	16896552	16896752	+	965.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 1 of 6)	Lx3C|LINE|L1	1789.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	27.5	25.5	15.5	189.0	45.5	20.5	20.0	9.0
Merged-chr18-60806704-4	chr18	60806603	60806803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042605, intron 1 of 8)	intron (NM_001042605, intron 1 of 8)	2854.0	NM_010545	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	85.5	149.0	54.0	1039.5	265.5	120.5	103.5	77.5
Merged-chr3-79528145-4	chr3	79528042	79528242	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	39537.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	10.0	7.5	15.0	273.0	37.5	4.0	7.5	12.0
Merged-chr19-61052162-3	chr19	61052047	61052247	+	909.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 4 of 15)	intron (NM_018869, intron 4 of 15)	88693.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	3.5	10.5	10.0	148.0	5.5	6.0	9.0	5.5
Merged-chr8-13888019-4	chr8	13887905	13888105	+	873.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359059, intron 1 of 2)	intron (NM_001359059, intron 1 of 2)	2266.0	NM_001359059	66423.0	Mm.29063	NM_025556	ENSMUSG00000031458	Coprs	1700029I03Rik|2410022L05Rik|AA409325|AI256813|C85432|Copr5	coordinator of PRMT5, differentiation stimulator	protein-coding	9.0	24.0	9.5	98.5	34.5	13.0	21.0	11.0
Merged-chr7-132243070-4	chr7	132242963	132243163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029935, intron 6 of 7)	intron (NM_029935, intron 6 of 7)	-72601.0	NR_028578	100043682.0	Mm.482794	NR_028578	ENSMUSG00000109270	Gm10584	-	predicted gene 10584	ncRNA	197.0	223.0	173.5	2367.5	438.5	163.0	200.5	155.5
Merged-chr6-116693751-4	chr6	116693646	116693846	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178768, exon 5 of 5)	3' UTR (NM_178768, exon 5 of 5)	-19910.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	24.5	27.0	12.5	228.5	99.5	32.5	29.5	30.5
Merged-chr11-69920925-2	chr11	69920825	69921025	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166594)	promoter-TSS (NM_001166594)	22.0	NM_001166594	276770.0	Mm.18026	NM_181582	ENSMUSG00000078812	Eif5a	AA410058|D19Wsu54e|Eif4d|Eif5a1|eIF-4D|eIF-5A|eIF-5A-1|eIF-5A1	eukaryotic translation initiation factor 5A	protein-coding	15.0	71.5	45.5	470.0	120.5	38.0	35.0	54.0
Merged-chr2-36231164-4	chr2	36231046	36231246	+	901.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 2 of 10)	intron (NM_008969, intron 2 of 10)	720.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	13.0	11.0	13.5	239.0	45.0	10.0	20.5	16.0
Merged-chr4-119142396-4	chr4	119142294	119142494	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	31462.0	NM_001145935	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	21.0	28.0	14.5	242.5	66.5	24.5	46.0	28.0
Merged-chr7-25737062-2	chr7	25736962	25737162	+	791.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_178089, intron 7 of 7)	B3|SINE|B2	17697.0	NM_144922	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	10.0	9.5	5.0	69.0	11.5	4.0	2.0	4.0
Merged-chr16-37580103-4	chr16	37579991	37580191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013547)	promoter-TSS (NM_013547)	-62.0	NR_027778	15233.0	Mm.157442	NM_013547	ENSMUSG00000022821	Hgd	Hgo|aku	homogentisate 1, 2-dioxygenase	protein-coding	26.5	35.5	27.5	386.5	77.0	20.5	26.5	21.5
Merged-chr5-110176475-4	chr5	110176400	110176600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008146)	promoter-TSS (NM_008146)	4.0	NR_040431	100504007.0	Mm.441495	NR_040430	ENSMUSG00000086247	Gm15787	-	predicted gene 15787	ncRNA	121.5	149.5	90.5	1353.5	364.5	136.5	147.5	120.5
Merged-chr19-14585476-4	chr19	14585381	14585581	+	984.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302951, intron 4 of 19)	intron (NM_001302951, intron 4 of 19)	11732.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	11.5	26.0	20.0	314.0	61.5	18.5	32.5	23.0
Merged-chr2-126713153-4	chr2	126713062	126713262	+	823.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019729, intron 1 of 18)	intron (NM_019729, intron 1 of 18)	5834.0	NM_019729	84092.0	Mm.272629	NM_019729	ENSMUSG00000027363	Usp8	AI574262|AW557536|Ubpy|mKIAA0055	ubiquitin specific peptidase 8	protein-coding	15.0	17.0	11.5	162.5	25.5	6.0	15.0	8.5
Merged-chr9-88953357-4	chr9	88953258	88953458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3562.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	152.0	330.5	233.0	2260.5	185.0	78.0	71.5	50.0
Merged-chr6-110041629-3	chr6	110041537	110041737	+	947.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-603875.0	NM_001346640	108073.0	Mm.240881	NM_177328	ENSMUSG00000056755	Grm7	6330570A01Rik|BB176677|C030018L03|E130018M02Rik|Gpr1g|Gprc1g|SMN2|Tg(SMN2)89Ahmb|mGluR7	glutamate receptor, metabotropic 7	protein-coding	9.0	16.0	15.5	229.5	23.0	7.5	14.5	5.5
Merged-chr5-24447785-4	chr5	24447677	24447877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022418)	promoter-TSS (NM_022418)	69.0	NM_022418	64295.0	Mm.150098	NM_022418	ENSMUSG00000028958	Tmub1	2010004O20Rik|AB030183|Hops	transmembrane and ubiquitin-like domain containing 1	protein-coding	69.5	93.5	110.0	1169.5	133.5	49.5	69.5	72.5
Merged-chr5-148496176-4	chr5	148496062	148496262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55511.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	23.0	61.5	41.0	449.5	90.5	35.5	60.5	33.5
Merged-chr11-59941632-4	chr11	59941529	59941729	+	733.858337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6518.0	NR_045273	100504121.0	Mm.383770	NR_045273	ENSMUSG00000085260	Med9os	1700013G23Rik	mediator complex subunit 9, opposite strand	ncRNA	17.5	16.5	5.5	215.5	20.0	6.0	9.0	12.0
Merged-chr6-4748256-4	chr6	4748164	4748364	+	671.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040611, intron 1 of 1)	CpG	958.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	6.5	6.5	5.5	154.5	18.0	7.0	11.0	15.5
Merged-chr15-12321438-4	chr15	12321328	12321528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025673)	promoter-TSS (NM_025673)	-68.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	107.5	194.5	99.5	2039.5	348.5	121.0	176.0	150.5
Merged-chr5-64683535-3	chr5	64683439	64683639	+	640.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72840.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	5.0	5.5	10.0	76.5	13.0	2.0	4.0	1.0
Merged-chr8-4516367-4	chr8	4516293	4516493	+	877.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026058, intron 2 of 10)	intron (NM_026058, intron 2 of 10)	22988.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	16.0	8.5	8.0	162.5	35.0	6.5	12.5	10.5
Merged-chr4-155481982-2	chr4	155481889	155482089	+	596.833374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-9372.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	10.5	7.0	7.0	115.0	21.5	8.5	12.0	12.5
Merged-chr8-124150145-3	chr8	124150032	124150232	+	888.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81262.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	0.0	3.0	0.5	0.5	25.0	12.5	14.5	19.0
Merged-chr17-47009655-2	chr17	47009555	47009755	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146078, intron 1 of 46)	intron (NM_146078, intron 1 of 46)	877.0	NM_146078	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	5.5	14.0	4.5	18.0	15.0	14.5	7.5	8.5
Merged-chr7-133079065-4	chr7	133078921	133079121	+	855.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	2839.0	NM_001347623	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	11.5	9.5	7.0	158.5	18.5	12.0	9.5	9.5
Merged-chr3-75499148-4	chr3	75499076	75499276	+	944.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57676.0	NM_019745	56426.0	Mm.316473	NM_019745	ENSMUSG00000027835	Pdcd10	2410003B13Rik|Ccm3|Tfa15|Tfar15	programmed cell death 10	protein-coding	19.5	12.5	13.0	335.5	39.5	10.0	35.5	23.5
Merged-chr9-86573076-4	chr9	86572933	86573133	+	992.1785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001145969, exon 2 of 3)	exon (NM_001145969, exon 2 of 3)	980.0	NM_027100	69519.0	Mm.272517	NM_027100	ENSMUSG00000032417	Rwdd2a	1700030C20Rik|AI848608|Rwdd2	RWD domain containing 2A	protein-coding	16.0	7.5	18.0	186.5	38.0	20.0	11.0	10.5
Merged-chr16-30689506-3	chr16	30689415	30689615	+	953.244446	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	89792.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	5.0	0.5	1.5	45.5	59.0	24.0	25.5	12.5
Merged-chr2-31075363-4	chr2	31075277	31075477	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	21123.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	33.0	41.5	33.5	415.5	49.0	15.5	13.5	17.5
Merged-chr19-40391737-2	chr19	40391637	40391837	+	890.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034962, intron 5 of 22)	intron (NM_001034962, intron 5 of 22)	10573.0	NM_001034964	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	6.0	5.5	4.5	133.0	15.5	5.5	6.0	3.5
Merged-chr19-32689991-2	chr19	32689891	32690091	+	846.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026487, intron 6 of 9)	intron (NM_026487, intron 6 of 9)	22307.0	NM_026487	67979.0	Mm.27123	NM_026487	ENSMUSG00000013662	Atad1	4921525H23Rik|AW107648|Thorase	ATPase family, AAA domain containing 1	protein-coding	9.5	12.5	5.5	62.0	13.5	10.0	8.0	7.0
Merged-chr2-151576235-4	chr2	151576091	151576291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145535, intron 1 of 8)	CpG	3568.0	NM_145535	228765.0	Mm.32068	NM_145535	ENSMUSG00000027456	Sdcbp2	-	syndecan binding protein (syntenin) 2	protein-coding	53.0	52.5	49.5	796.0	103.5	38.0	52.0	37.5
Merged-chr2-46662061-3	chr2	46661963	46662163	+	813.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	965458.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	19.0	4.0	3.5	163.0	11.0	15.5	7.0	10.5
Merged-chr13-41331815-4	chr13	41331731	41331931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 3 of 7)	intron (NM_001111324, intron 3 of 7)	27170.0	NM_017464	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	45.5	54.0	35.0	851.0	75.5	29.5	40.0	40.5
Merged-chr15-74922466-4	chr15	74922370	74922570	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32581.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	8.5	33.0	21.5	342.5	59.0	21.5	17.0	24.0
Merged-chr18-38385141-5	chr18	38385042	38385242	+	860.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33765.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	12.5	20.0	15.0	85.5	24.5	12.0	13.0	21.5
Merged-chr2-127524583-4	chr2	127524457	127524657	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2463.0	NR_110989	56461.0	Mm.315292	NM_019789	ENSMUSG00000079056	Kcnip3	4933407H12Rik|AI413860|Csen|DREAM|KChIP3|R74849	Kv channel interacting protein 3, calsenilin	protein-coding	13.0	21.0	14.5	93.0	68.5	23.0	48.0	40.5
Merged-chr2-164458539-4	chr2	164458439	164458639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-2432.0	NM_025575	66460.0	Mm.44218	NM_025575	ENSMUSG00000045503	Sys1	2610042O14Rik|AI266964|C87389	SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae)	protein-coding	74.0	150.0	82.5	452.0	148.0	62.5	51.0	67.0
Merged-chr2-153090750-4	chr2	153090640	153090840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17728.0	NM_001172117	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	126.0	183.5	125.5	1585.5	265.5	112.5	153.0	143.0
Merged-chr5-53540023-4	chr5	53539904	53540104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15775.0	NM_001080928	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	24.0	18.0	35.5	777.0	63.5	21.5	43.5	38.0
Merged-chr4-129190671-4	chr4	129190578	129190778	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347203)	promoter-TSS (NM_001347203)	883.0	NM_134151	107271.0	Mm.145488	NM_134151	ENSMUSG00000028811	Yars	AL024047|AU018965	tyrosyl-tRNA synthetase	protein-coding	10.5	21.5	4.0	158.5	28.0	11.0	8.0	15.5
Merged-chr17-27976510-1	chr17	27976410	27976610	+	1000.0	f0_balb.idr	intron (NM_181413, intron 2 of 24)	intron (NM_181413, intron 2 of 24)	67204.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	17.0	29.0	19.5	203.5	2.5	1.0	1.0	2.5
Merged-chr11-87591982-4	chr11	87591861	87592061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357901)	promoter-TSS (NM_001357901)	-205.0	NM_001357901	170749.0	Mm.399376	NM_133215	ENSMUSG00000018401	Mtmr4	AA596759|ESTM44|FYVE-DSP2|ZFYVE11|mKIAA0647	myotubularin related protein 4	protein-coding	419.0	593.5	444.5	5710.5	1110.0	442.5	533.0	470.0
Merged-chr4-119806736-2	chr4	119806638	119806838	+	699.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-7940.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	1.5	7.5	5.5	114.0	19.5	5.5	8.5	5.5
Merged-chr7-122010620-4	chr7	122010528	122010728	+	946.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028758, intron 3 of 16)	intron (NM_028758, intron 3 of 16)	10570.0	NM_028758	74105.0	Mm.29619	NM_028758	ENSMUSG00000030872	Gga2	1200007E24Rik|mKIAA1080	golgi associated, gamma adaptin ear containing, ARF binding protein 2	protein-coding	14.5	18.0	3.5	48.0	73.5	38.5	37.5	36.0
Merged-chr8-109750866-4	chr8	109750774	109750974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13135.0	NM_001080930	52335.0	Mm.276770	NM_001080930	ENSMUSG00000069895	Atxn1l	AW558552|Boat|C330011L24Rik|D6Mgi37|D8Ertd587e	ataxin 1-like	protein-coding	151.0	259.0	114.0	1992.0	373.5	134.0	126.0	160.5
Merged-chr2-150840320-4	chr2	150840218	150840418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 6 of 12)	intron (NR_151505, intron 6 of 12)	2252.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	200.5	266.0	262.5	3193.0	385.0	116.5	202.5	206.5
Merged-chr7-127912468-4	chr7	127912370	127912570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026370)	promoter-TSS (NM_026370)	-47.0	NM_026370	67773.0	Mm.425492	NM_026370	ENSMUSG00000030801	Kat8	2010203C02Rik|5830450F21Rik|D7Ertd629e|MOF|MYST-1|Myst1	K(lysine) acetyltransferase 8	protein-coding	39.0	50.0	28.5	484.0	126.5	36.0	56.5	57.5
Merged-chr3-69004944-4	chr3	69004834	69005034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026641)	promoter-TSS (NM_026641)	196.0	NM_133786	70099.0	Mm.206841	NM_133786	ENSMUSG00000034349	Smc4	2500002A22Rik|C79747|SMC-4|Smc4l1	structural maintenance of chromosomes 4	protein-coding	44.5	45.0	47.5	492.5	110.0	79.0	62.5	63.0
Merged-chr10-10396284-4	chr10	10396178	10396378	+	947.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 21 of 36)	intron (NM_001127353, intron 21 of 36)	76036.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	16.0	20.5	16.0	300.5	32.5	21.5	24.0	13.5
Merged-chr2-120623153-3	chr2	120623049	120623249	+	889.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13554.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	19.0	12.0	9.0	195.0	39.5	3.0	7.0	11.0
Merged-chr9-106394870-3	chr9	106394771	106394971	+	990.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26239.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	0.0	3.0	0.5	3.5	47.0	5.5	16.5	19.5
Merged-chr6-34994836-1	chr6	34994736	34994936	+	541.0	f0_balb.idr	Intergenic	Intergenic	-16837.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	4.5	5.0	7.0	58.5	2.5	2.0	5.0	4.0
Merged-chr9-24503009-1	chr9	24502909	24503109	+	1000.0	f0_balb.idr	exon (NM_172920, exon 1 of 22)	exon (NM_172920, exon 1 of 22)	131.0	NM_001359948	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	39.5	50.5	62.0	607.5	64.5	35.0	22.0	30.0
Merged-chr5-122284758-2	chr5	122284658	122284858	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_177242, exon 1 of 6)	exon (NM_177242, exon 1 of 6)	360.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	13.5	14.0	16.5	107.0	35.0	10.0	11.5	18.0
Merged-chr1-191288938-4	chr1	191288830	191289030	+	984.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29188.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	40.5	56.5	22.0	508.5	77.5	21.0	41.5	11.5
Merged-chr9-106308374-4	chr9	106308282	106308482	+	972.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	27321.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	22.0	31.5	19.0	184.5	71.0	25.5	15.0	18.0
Merged-chr13-55021319-4	chr13	55021186	55021386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001206390)	promoter-TSS (NM_001206390)	99.0	NM_001206392	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	54.0	87.0	85.5	1045.5	218.0	92.0	76.5	99.5
Merged-chr15-36793687-4	chr15	36793573	36793773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011740, exon 2 of 7)	5' UTR (NM_011740, exon 2 of 7)	865.0	NM_011740	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	196.0	338.0	173.0	2751.5	567.5	265.0	311.5	252.5
Merged-chr12-51593552-2	chr12	51593452	51593652	+	972.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007728, exon 1 of 11)	5' UTR (NM_007728, exon 1 of 11)	211.0	NM_001198835	12810.0	Mm.21325	NM_007728	ENSMUSG00000020953	Coch	AW122937|Coch-5B2|D12H14S564E	cochlin	protein-coding	4.5	7.0	9.0	83.0	7.5	2.5	8.0	3.0
Merged-chr17-45766705-4	chr17	45766606	45766806	+	946.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	intron (NR_152153, intron 2 of 4)	32200.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	10.0	6.0	20.0	296.0	49.5	14.0	14.0	23.5
Merged-chr6-83583102-4	chr6	83582995	83583195	+	847.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_078345, intron 6 of 7)	Lx8|LINE|L1	-10591.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	7.0	9.5	9.0	94.0	29.0	6.0	16.0	12.5
Merged-chr2-30801206-3	chr2	30801104	30801304	+	851.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198000, exon 1 of 7)	exon (NM_198000, exon 1 of 7)	533.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	5.5	9.5	7.0	66.5	7.5	7.0	4.0	16.0
Merged-chr6-57742980-2	chr6	57742880	57743080	+	827.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	40525.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	5.0	4.0	8.0	50.5	10.5	7.0	8.0	5.0
Merged-chr11-109347782-4	chr11	109347654	109347854	+	917.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027883, intron 1 of 1)	intron (NR_027883, intron 1 of 1)	887.0	NR_027883	67927.0	Mm.394490	NR_027883	ENSMUSG00000099630	1700096J18Rik	-	RIKEN cDNA 1700096J18 gene	ncRNA	15.0	26.0	19.0	242.5	33.5	9.5	8.5	10.0
Merged-chr2-92459329-4	chr2	92459211	92459411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_211358, exon 1 of 2)	5' UTR (NM_211358, exon 1 of 2)	483.0	NM_211358	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	35.5	37.0	34.0	427.5	77.0	30.0	33.0	25.5
Merged-chr13-92053235-4	chr13	92053094	92053294	+	902.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65152.0	NM_009027	19418.0	Mm.248630	NM_009027	ENSMUSG00000021708	Rasgrf2	6330417G04Rik|AW048350|Grf2|Ras-GRF2	RAS protein-specific guanine nucleotide-releasing factor 2	protein-coding	14.5	29.0	14.5	246.0	7.0	11.0	8.0	8.5
Merged-chr11-79623754-4	chr11	79623665	79623865	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003283)	promoter-TSS (NR_003283)	-602.0	NR_003283	790912.0	Mm.447313	NR_003283	ENSMUSG00000087434	Rab11fip4os1	Gm11202	RAB11 family interacting protein 4 (class II), opposite strand 1	ncRNA	14.5	10.5	9.5	223.5	29.0	5.0	5.5	14.0
Merged-chr19-24990152-4	chr19	24990054	24990254	+	796.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4|LINE|L1	-9375.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	7.0	8.0	12.0	89.0	26.5	12.0	13.5	13.5
Merged-chr5-121397943-4	chr5	121397892	121398092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172722)	promoter-TSS (NM_172722)	10.0	NM_172722	231713.0	Mm.33919	NM_172722	ENSMUSG00000042719	Naa25	4833422K13Rik|A630046C11|AI450868|C330023M02Rik|Mdm20	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	protein-coding	47.5	90.5	34.5	481.0	155.0	45.5	53.5	57.0
Merged-chr12-78206283-5	chr12	78206139	78206339	+	930.542847	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20416.0	NM_172952	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	20.0	19.0	20.0	285.5	43.0	18.0	20.0	15.0
Merged-chr5-120579479-3	chr5	120579364	120579564	+	823.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145853, intron 2 of 27)	intron (NM_145853, intron 2 of 27)	9149.0	NM_145853	252972.0	Mm.114054	NM_145853	ENSMUSG00000032741	Tpcn1	5730403B01Rik|Tpc1|mKIAA1169	two pore channel 1	protein-coding	10.0	9.5	10.5	117.5	20.5	2.0	2.0	7.5
Merged-chr6-47454560-5	chr6	47454493	47454693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355550)	promoter-TSS (NM_001355550)	-164.0	NM_001355550	26965.0	Mm.87611	NM_012042	ENSMUSG00000029686	Cul1	Cul-1	cullin 1	protein-coding	52.0	84.5	70.0	511.0	94.5	48.0	62.5	45.5
Merged-chr11-90418158-3	chr11	90418057	90418257	+	714.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-27240.0	NM_172563	217082.0	Mm.158903	NM_172563	ENSMUSG00000003949	Hlf	E230015K02Rik	hepatic leukemia factor	protein-coding	6.5	4.5	8.0	110.0	17.0	3.5	3.5	2.5
Merged-chr17-42860575-3	chr17	42860478	42860678	+	720.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009847, intron 1 of 17)	ORR1E|LTR|ERVL-MaLR	15846.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	6.0	13.5	5.5	161.5	15.5	3.0	6.5	10.5
Merged-chr12-82326660-4	chr12	82326563	82326763	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 4 of 23)	intron (NM_001167983, intron 4 of 23)	15314.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	23.0	43.0	9.0	373.5	51.0	17.5	16.0	28.0
Merged-chr10-79877902-4	chr10	79877791	79877991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	-1776.0	NM_011178	19152.0	Mm.2364	NM_011178	ENSMUSG00000057729	Prtn3	PR3|mPR3	proteinase 3	protein-coding	62.0	75.5	48.0	680.5	135.0	42.5	60.5	50.5
Merged-chr1-92933713-4	chr1	92933600	92933800	+	809.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011796)	promoter-TSS (NM_011796)	-708.0	NM_011796	23830.0	Mm.294315	NM_011796	ENSMUSG00000026270	Capn10	AW049679|Capn8|mKIAA1845	calpain 10	protein-coding	9.5	6.0	6.5	116.5	13.0	2.5	7.0	11.5
Merged-chr10-39451290-4	chr10	39451191	39451391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	81492.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	128.0	158.0	164.0	3590.5	319.0	77.5	136.0	157.0
Merged-chr5-64370471-4	chr5	64370388	64370588	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	97454.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	18.5	28.5	17.5	355.5	50.5	16.5	21.5	26.0
Merged-chr10-17951040-4	chr10	17950912	17951112	+	838.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2945.0	NM_001033432	380629.0	Mm.276430	NM_001033432	ENSMUSG00000039879	Heca	Gm869|HDC|HDCL	hdc homolog, cell cycle regulator	protein-coding	9.0	9.0	8.5	78.5	41.0	9.5	15.0	6.5
Merged-chr12-85497499-4	chr12	85497405	85497605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23615.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	44.5	94.0	51.5	791.0	135.5	38.5	49.5	47.5
Merged-chr14-115092238-4	chr14	115092128	115092328	+	939.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175500)	promoter-TSS (NM_175500)	13.0	NM_175500	103978.0	Mm.320791	NM_175500	ENSMUSG00000022112	Gpc5	A230034F01Rik	glypican 5	protein-coding	26.5	44.5	55.0	661.5	40.5	9.0	14.5	23.5
Merged-chr2-124620024-4	chr2	124619927	124620127	+	884.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	9731.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	9.5	22.0	4.5	273.0	13.5	13.0	6.5	15.0
Merged-chr17-23983592-4	chr17	23983481	23983681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8351.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	40.0	72.0	37.5	1024.0	109.0	23.5	47.0	58.5
Merged-chr10-99428526-4	chr10	99428402	99428602	+	758.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	165271.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	10.0	17.0	6.5	51.0	19.0	5.0	6.5	8.5
Merged-chr16-21794347-4	chr16	21794225	21794425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037957)	promoter-TSS (NR_037957)	-22.0	NR_037958	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	119.0	199.5	92.5	1848.5	323.0	134.5	131.5	95.0
Merged-chr4-87683045-4	chr4	87682932	87683132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	123291.0	NM_001286158	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	79.0	93.5	122.5	1565.0	180.0	55.5	60.5	71.0
Merged-chr18-35498968-4	chr18	35498845	35499045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030749)	promoter-TSS (NM_030749)	-20.0	NM_030749	81500.0	Mm.291482	NM_030749	ENSMUSG00000024357	Sil1	1810057E01Rik|AI042831|wz	endoplasmic reticulum chaperone SIL1 homolog (S. cerevisiae)	protein-coding	110.0	170.0	70.0	1498.5	327.0	128.5	90.0	126.5
Merged-chr3-148958895-3	chr3	148958804	148959004	+	854.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4269.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	4.5	10.5	7.5	158.0	4.0	8.5	3.5	4.5
Merged-chr10-25395553-3	chr10	25395451	25395651	+	863.8999630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	intron (NM_001358754, intron 1 of 16)	-12817.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	7.5	24.0	19.0	137.0	12.5	2.5	4.5	3.5
Merged-chr7-19465994-4	chr7	19465915	19466115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7521.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	27.5	45.5	38.0	758.5	112.5	33.5	47.0	60.5
Merged-chr5-149690043-3	chr5	149689934	149690134	+	963.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081204, intron 1 of 14)	intron (NM_001081204, intron 1 of 14)	11777.0	NM_001081204	381694.0	Mm.45060	NM_001081204	ENSMUSG00000051950	B3glct	B3galtl|Gm1057	beta-3-glucosyltransferase	protein-coding	39.5	38.0	43.5	768.0	9.5	8.0	8.5	8.5
Merged-chr9-60795028-2	chr9	60794928	60795128	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357408, intron 1 of 19)	intron (NM_001357408, intron 1 of 19)	586.0	NM_001357407	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	4.0	6.5	2.0	51.0	9.0	9.0	7.5	10.0
Merged-chr2-166289433-4	chr2	166289331	166289531	+	840.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033467, intron 2 of 2)	intron (NR_033467, intron 2 of 2)	15523.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	7.5	26.0	23.5	264.5	22.0	5.0	12.0	16.5
Merged-chr7-116603936-4	chr7	116603818	116604018	+	872.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	99549.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	9.0	16.5	10.5	140.0	36.0	16.0	7.5	14.5
Merged-chr2-167641589-4	chr2	167641494	167641694	+	725.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9589.0	NM_023230	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	8.5	14.0	9.0	138.5	7.5	9.0	7.5	11.0
Merged-chr11-83473949-3	chr11	83473851	83474051	+	694.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027427, intron 1 of 15)	intron (NM_027427, intron 1 of 15)	843.0	NM_027427	70439.0	Mm.181050	NM_027427	ENSMUSG00000020680	Taf15	2610111C21Rik|68kDa|TAFII68|Taf2n	TATA-box binding protein associated factor 15	protein-coding	17.5	11.5	6.5	119.5	15.5	2.5	7.0	11.0
Merged-chr10-94576484-2	chr10	94576384	94576584	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177026, intron 1 of 3)	intron (NM_177026, intron 1 of 3)	221.0	NM_177026	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	4.0	14.0	6.5	195.0	23.0	4.5	6.5	11.0
Merged-chr5-113954604-4	chr5	113954491	113954691	+	818.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 10 of 14)	intron (NM_198109, intron 10 of 14)	39166.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	8.5	19.0	1.0	102.0	21.0	6.0	12.5	9.5
Merged-chr10-127538481-3	chr10	127538380	127538580	+	908.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008512, exon 89 of 89)	3' UTR (NM_008512, exon 89 of 89)	-3921.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	9.5	13.5	19.5	97.5	13.5	7.0	9.0	19.0
Merged-chr16-55812016-4	chr16	55811909	55812109	+	892.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159394, exon 12 of 12)	3' UTR (NM_001159394, exon 12 of 12)	10129.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	15.0	45.5	9.5	213.5	40.5	10.0	14.0	12.5
Merged-chr3-9878977-4	chr3	9878885	9879085	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45306.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	14.0	25.0	11.0	249.0	64.5	17.5	34.0	16.5
Merged-chr4-128769677-5	chr4	128769616	128769816	+	833.328552	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001009819)	TTS (NM_001009819)	10458.0	NM_001009819	215493.0	Mm.300900	NM_001009819	ENSMUSG00000028794	A3galt2	Gm433|iGb3|iGb3S	alpha 1,3-galactosyltransferase 2 (isoglobotriaosylceramide synthase)	protein-coding	7.0	17.5	11.0	117.0	33.5	12.0	8.0	3.0
Merged-chr1-184675931-4	chr1	184675814	184676014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36583.0	NR_040627	74971.0	Mm.410816	NR_040627	ENSMUSG00000092578	4930488B22Rik	-	RIKEN cDNA 4930488B22 gene	ncRNA	29.5	48.0	26.0	659.0	51.0	27.5	19.5	33.5
Merged-chr3-81120870-4	chr3	81120724	81120924	+	781.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	84408.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	9.0	9.0	10.5	149.5	19.5	2.5	5.0	13.5
Merged-chr13-99327586-4	chr13	99327443	99327643	+	992.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 7 of 9)	intron (NM_026873, intron 7 of 9)	17135.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	19.5	26.5	19.5	265.0	39.0	1.5	13.0	16.0
Merged-chr10-17684031-4	chr10	17683935	17684135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39193.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	36.5	48.0	29.5	525.0	152.0	49.5	37.5	30.5
Merged-chr19-40737305-4	chr19	40737205	40737405	+	934.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 9 of 9)	intron (NM_001304721, intron 9 of 9)	77535.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	17.0	21.0	10.0	256.5	52.0	19.5	13.0	23.5
Merged-chr4-59783941-4	chr4	59783857	59784057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013577)	promoter-TSS (NM_001013577)	-102.0	NM_001013577	66209.0	Mm.51988	NM_001013577	ENSMUSG00000038544	Inip	1110054O05Rik|2610312O17Rik|AA399876|Ssbip1	INTS3 and NABP interacting protein	protein-coding	163.5	233.5	110.0	1985.5	375.5	154.5	171.5	165.5
Merged-chr17-32364506-4	chr17	32364405	32364605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033525, intron 4 of 10)	intron (NR_033525, intron 4 of 10)	-13928.0	NM_017476	54194.0	Mm.281005	NM_017476	ENSMUSG00000002625	Akap8l	HAP95|Nakap95	A kinase (PRKA) anchor protein 8-like	protein-coding	60.0	96.5	43.0	640.5	194.0	67.0	63.0	50.0
Merged-chr17-43265995-4	chr17	43265889	43266089	+	904.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-4358.0	NM_133776	77596.0	Mm.159950	NM_133776	ENSMUSG00000041293	Adgrf1	5031409J19Rik|Gpr110|KPG_009	adhesion G protein-coupled receptor F1	protein-coding	10.5	18.5	11.0	149.5	38.5	10.5	15.5	3.0
Merged-chr11-60931961-4	chr11	60931845	60932045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027800)	promoter-TSS (NR_027800)	-78.0	NR_027800	24082.0	Mm.46270	NM_025293	ENSMUSG00000042549	Map2k3os	F3-1|Gm16516|Gtlf3a	mitogen-activated protein kinase kinase 3, opposite strand	ncRNA	142.0	194.5	123.5	1795.0	351.5	120.0	163.0	134.5
Merged-chr12-45011613-4	chr12	45011531	45011731	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	intron (NM_144552, intron 2 of 5)	62852.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	16.0	15.5	24.0	463.5	64.0	22.5	53.0	37.0
Merged-chr9-106281110-5	chr9	106281042	106281242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027354)	promoter-TSS (NM_027354)	81.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	30.5	46.0	41.5	304.0	135.0	58.0	45.0	51.5
Merged-chr8-53511780-4	chr8	53511696	53511896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205054)	promoter-TSS (NM_001205054)	94.0	NM_001005847	11593.0	Mm.334535	NM_001005847	ENSMUSG00000031521	Aga	AW060726	aspartylglucosaminidase	protein-coding	200.0	277.5	215.5	2793.5	553.5	204.0	271.5	173.0
Merged-chr1-138967548-4	chr1	138967386	138967586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181347)	promoter-TSS (NM_181347)	-235.0	NM_181347	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	15.5	11.5	19.5	188.0	50.5	14.5	13.5	19.0
Merged-chr9-107872300-2	chr9	107872200	107872400	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029169, intron 1 of 20)	intron (NM_029169, intron 1 of 20)	519.0	NM_011251	19654.0	Mm.139926	NM_011251	ENSMUSG00000032582	Rbm6	4930506F14Rik|Def-3|NY-LU-12|g16|mKIAA4015	RNA binding motif protein 6	protein-coding	13.5	10.0	7.5	136.0	36.5	18.0	8.5	12.5
Merged-chr15-57693199-4	chr15	57693112	57693312	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1455.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	18.5	28.0	8.5	212.5	49.5	15.0	21.5	12.5
Merged-chr17-56831208-4	chr17	56831110	56831310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027787)	promoter-TSS (NM_027787)	-202.0	NM_027787	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	341.5	490.5	301.0	4411.0	686.5	255.5	349.0	235.0
Merged-chr3-69062978-4	chr3	69062876	69063076	+	913.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18234.0	NM_025863	66949.0	Mm.176695	NM_025863	ENSMUSG00000034317	Trim59	2310035M22Rik|2700022F13Rik|Mrf1|TSBF1	tripartite motif-containing 59	protein-coding	20.0	9.5	11.0	352.0	54.0	14.5	22.0	15.0
Merged-chr3-95635769-4	chr3	95635668	95635868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10788.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	106.5	146.5	158.5	2286.5	259.5	88.0	121.0	79.0
Merged-chr17-34005644-4	chr17	34005530	34005730	+	790.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV-int|LTR|ERVK	-5283.0	NM_001347346	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	8.5	14.5	11.5	32.0	32.5	7.5	9.5	16.0
Merged-chr1-191085104-4	chr1	191084919	191085119	+	971.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_198654)	TTS (NM_198654)	-13395.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	6.0	11.5	10.0	31.0	18.5	16.5	6.0	16.5
Merged-chr1-144307206-4	chr1	144307109	144307309	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58105.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	31.5	42.5	26.5	667.5	75.0	15.5	32.0	23.0
Merged-chr2-164455989-3	chr2	164455895	164456095	+	870.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4976.0	NM_025575	66460.0	Mm.44218	NM_025575	ENSMUSG00000045503	Sys1	2610042O14Rik|AI266964|C87389	SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae)	protein-coding	17.0	6.0	5.0	47.5	23.0	6.5	4.5	10.5
Merged-chr11-43681861-4	chr11	43681751	43681951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164231)	promoter-TSS (NM_001164231)	-147.0	NM_027557	70802.0	Mm.397449	NM_027557	ENSMUSG00000044950	Pwwp2a	4631424J17Rik|AI891583|AU024105|D930040F23Rik	PWWP domain containing 2A	protein-coding	358.5	493.5	353.0	5563.0	872.0	346.5	453.5	324.5
Merged-chr2-166793761-4	chr2	166793666	166793866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023815)	promoter-TSS (NM_023815)	-1.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	55.5	45.0	38.5	490.5	94.0	40.5	48.5	41.5
Merged-chr14-50924868-4	chr14	50924774	50924974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133676)	promoter-TSS (NM_133676)	19.0	NM_133676	66246.0	Mm.274791	NM_133676	ENSMUSG00000006289	Osgep	1500019L24Rik|GCPL-1|PRSMG1	O-sialoglycoprotein endopeptidase	protein-coding	153.0	204.5	114.0	1354.5	287.5	145.5	105.0	104.0
Merged-chr17-81599348-3	chr17	81599246	81599446	+	906.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	139041.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	16.5	8.0	6.0	263.5	15.5	5.5	1.0	11.5
Merged-chr2-34644809-4	chr2	34644691	34644891	+	843.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110441.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	6.5	3.5	1.0	129.0	21.5	5.5	15.5	8.5
Merged-chr15-80582754-4	chr15	80582654	80582854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289442, intron 1 of 7)	L3|LINE|CR1	10157.0	NM_001289442	17444.0	Mm.12947	NM_010815	ENSMUSG00000042351	Grap2	GRAP-2|GRB2L|GRBLG|GRID|Gads|GrbX|Grf40|GrpL|Mona|P38	GRB2-related adaptor protein 2	protein-coding	21.5	53.5	23.5	476.5	79.0	34.5	28.5	61.5
Merged-chr15-27960635-3	chr15	27960555	27960755	+	963.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	ORR1D2|LTR|ERVL-MaLR	65193.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	11.5	7.5	13.0	206.5	26.0	6.5	16.5	3.5
Merged-chr11-97766571-4	chr11	97766465	97766665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026186)	promoter-TSS (NM_026186)	48.0	NM_026186	67480.0	Mm.33206	NM_026186	ENSMUSG00000018541	Cwc25	1300013D05Rik|AA473636|Ccdc49|R75228	CWC25 spliceosome-associated protein	protein-coding	49.0	94.0	37.5	611.5	125.5	40.0	35.5	60.0
Merged-chr1-45817089-3	chr1	45816991	45817191	+	779.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028599, intron 13 of 20)	intron (NM_028599, intron 13 of 20)	21925.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	13.0	8.5	5.5	107.0	22.5	14.0	4.0	9.5
Merged-chr19-10698136-3	chr19	10697997	10698197	+	916.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	intron (NM_001361958, intron 1 of 4)	-2671.0	NM_001361964	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	13.5	6.5	6.5	7.5	9.5	8.0	4.0	2.5
Merged-chr9-65547922-4	chr9	65547820	65548020	+	840.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32167.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	12.0	11.5	12.5	72.5	16.5	7.5	11.5	5.0
Merged-chr8-95137932-3	chr8	95137845	95138045	+	936.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010631, exon 2 of 20)	exon (NM_010631, exon 2 of 20)	4595.0	NM_010631	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	7.0	7.0	10.5	271.0	16.5	3.0	4.0	9.0
Merged-chr1-157433604-1	chr1	157433504	157433704	+	839.0	f0_balb.idr	Intergenic	Intergenic	-21009.0	NM_177644	226525.0	Mm.235028	NM_177644	ENSMUSG00000070565	Rasal2	6530401P13|A330066M24Rik	RAS protein activator like 2	protein-coding	9.0	14.0	10.5	171.5	6.0	0.0	1.0	3.5
Merged-chr4-99163729-4	chr4	99163627	99163827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30207.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	101.0	188.5	92.0	1186.0	241.0	98.0	119.0	84.5
Merged-chr10-82866094-1	chr10	82865994	82866194	+	688.0	f0_c57.idr	promoter-TSS (NM_025499)	promoter-TSS (NM_025499)	-532.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	4.5	1.0	4.5	112.5	31.5	5.0	10.0	10.5
Merged-chr1-64482300-4	chr1	64482240	64482440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger15a|DNA|TcMar-Tigger	-50464.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	40.0	48.0	49.5	550.5	113.5	32.5	47.5	38.0
Merged-chr5-3382483-3	chr5	3382363	3382563	+	866.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	38570.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	6.0	16.5	6.5	108.5	19.0	9.5	3.5	9.0
Merged-chr4-123026342-4	chr4	123026258	123026458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151450, intron 1 of 9)	intron (NR_151450, intron 1 of 9)	9765.0	NR_151450	66966.0	Mm.235030	NM_025873	ENSMUSG00000028653	Trit1	2310075G14Rik|AI314189|AI314635|AV099619|IPPT|IPT|MOD5	tRNA isopentenyltransferase 1	protein-coding	23.0	44.0	29.5	488.5	78.5	19.5	41.0	26.5
Merged-chr5-132437114-1	chr5	132437014	132437214	+	607.333313	f0_balb.idr	intron (NM_177047, intron 1 of 19)	intron (NM_177047, intron 1 of 19)	105229.0	NM_177047	319974.0	Mm.409595	NM_177047	ENSMUSG00000029673	Auts2	2700063G02Rik|A730011F23Rik|D830032G16Rik	autism susceptibility candidate 2	protein-coding	12.5	9.0	11.5	99.0	1.0	4.0	0.0	0.0
Merged-chr9-49055568-4	chr9	49055477	49055677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012039)	promoter-TSS (NM_012039)	-4.0	NM_012039	26951.0	Mm.24791	NM_012039	ENSMUSG00000032264	Zw10	6330566F14Rik|MmZw10	zw10 kinetochore protein	protein-coding	139.0	172.0	83.5	1816.0	292.5	94.0	164.0	113.0
Merged-chr3-21468202-4	chr3	21468082	21468282	+	821.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	-608470.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	4.5	7.0	9.5	157.5	13.0	5.0	13.0	17.0
Merged-chr15-6579857-4	chr15	6579762	6579962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278269)	promoter-TSS (NM_001278269)	15.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	49.5	110.0	42.5	823.0	135.5	27.5	47.0	46.5
Merged-chr7-68129239-4	chr7	68129147	68129347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	134986.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	83.0	176.0	111.0	1414.0	246.0	115.0	123.5	77.5
Merged-chr1-151653651-4	chr1	151653548	151653748	+	859.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 5 of 13)	intron (NM_022018, intron 5 of 13)	82275.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	15.0	22.0	7.5	50.0	35.0	11.0	2.5	9.0
Merged-chr9-120073310-4	chr9	120073187	120073387	+	948.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4991.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	17.5	18.0	14.5	180.0	24.5	11.5	17.0	16.5
Merged-chr8-125518514-4	chr8	125518422	125518622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 2 of 21)	intron (NM_001357372, intron 2 of 21)	-25689.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	23.0	31.0	17.5	390.5	68.5	16.0	29.5	27.5
Merged-chr16-4908108-4	chr16	4908014	4908214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 2 of 17)	intron (NM_001357062, intron 2 of 17)	22014.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	74.0	125.5	60.5	1176.5	174.5	69.0	108.0	82.0
Merged-chr2-27418693-4	chr2	27418587	27418787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009500, intron 1 of 27)	intron (NM_009500, intron 1 of 27)	8921.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	62.0	90.0	64.0	936.0	140.5	49.5	66.0	39.5
Merged-chr17-73029803-2	chr17	73029702	73029902	+	919.0	f0_balb.idr|f1_balb.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-78183.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	13.0	19.5	25.5	249.5	13.5	2.0	1.0	3.5
Merged-chr8-72136894-4	chr8	72136816	72137016	+	897.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001491, intron 1 of 7)	(TG)n|Simple_repeat|Simple_repeat	1624.0	NM_001001491	326618.0	Mm.295124	NM_001001491	ENSMUSG00000031799	Tpm4	2610528G24Rik|Tpm4.2|Tpm4.2cy	tropomyosin 4	protein-coding	10.5	36.5	8.5	59.0	26.0	11.5	11.0	14.0
Merged-chr14-66869739-4	chr14	66869631	66869831	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001034881, exon 1 of 1)	3' UTR (NM_001034881, exon 1 of 1)	881.0	NM_001034881	432870.0	Mm.425890	NM_001034881	ENSMUSG00000075553	Gm5464	EG432870	predicted gene 5464	protein-coding	9.0	6.5	3.5	120.0	29.0	13.5	6.0	7.5
Merged-chr17-33916017-4	chr17	33915895	33916095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020625)	promoter-TSS (NM_020625)	-181.0	NM_020625	81630.0	Mm.482096	NM_020625	ENSMUSG00000051390	Zbtb22	1110008J20Rik|AI265210|AI415166|Bing1|Zfp297	zinc finger and BTB domain containing 22	protein-coding	294.0	459.5	264.0	3100.0	579.0	282.5	260.0	211.5
Merged-chr1-131092449-4	chr1	131092361	131092561	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	5382.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	28.0	71.5	14.0	171.0	92.5	29.5	26.0	26.0
Merged-chr13-110545617-4	chr13	110545523	110545723	+	988.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150579.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	21.5	63.0	31.0	273.5	92.5	46.5	15.5	19.0
Merged-chr15-86140569-3	chr15	86140433	86140633	+	848.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145475, exon 13 of 13)	3' UTR (NM_145475, exon 13 of 13)	-45195.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	17.0	9.5	14.0	101.0	15.0	5.5	7.5	12.0
Merged-chr12-105971414-2	chr12	105971285	105971485	+	643.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38878.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	1.0	2.0	1.5	43.5	18.5	6.5	6.5	15.5
Merged-chr10-68136101-3	chr10	68135975	68136175	+	725.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 4 of 9)	intron (NM_023598, intron 4 of 9)	142651.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	5.0	8.5	6.5	87.0	13.5	5.0	2.0	11.0
Merged-chr1-136675932-4	chr1	136675827	136676027	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7469.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	15.5	20.0	15.5	216.0	28.0	16.5	25.0	22.0
Merged-chr16-23452699-2	chr16	23452599	23452799	+	638.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008555, intron 15 of 15)	intron (NM_008555, intron 15 of 15)	23566.0	NM_001004151	239766.0	Mm.208751	NM_001004151	ENSMUSG00000033383	Rtp1	Gm1766|Gm604	receptor transporter protein 1	protein-coding	6.5	4.5	6.5	67.0	14.0	0.5	3.5	3.0
Merged-chr2-28641118-7	chr2	28641025	28641225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022887)	promoter-TSS (NM_022887)	-108.0	NM_001289575	64930.0	Mm.224354	NM_022887	ENSMUSG00000026812	Tsc1	-	tuberous sclerosis 1	protein-coding	18.5	28.5	24.0	187.5	55.0	27.5	13.5	26.0
Merged-chr12-100116169-4	chr12	100116058	100116258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008947, intron 5 of 9)	intron (NM_008947, intron 5 of 9)	3827.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	182.0	210.5	210.0	3098.0	442.5	124.5	196.5	224.5
Merged-chr11-116389353-3	chr11	116389233	116389433	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 2 of 18)	intron (NM_027258, intron 2 of 18)	23699.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	0.0	0.0	2.0	0.0	100.5	48.0	38.5	30.5
Merged-chr3-121293037-2	chr3	121292937	121293137	+	884.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 1 of 2)	intron (NR_155539, intron 1 of 2)	1297.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	3.0	5.0	4.0	15.0	14.0	7.5	4.5	7.0
Merged-chr9-100474175-3	chr9	100474060	100474260	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033543, intron 2 of 6)	intron (NM_001033543, intron 2 of 6)	12313.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	6.0	23.5	13.0	15.0	23.5	6.5	7.5	5.0
Merged-chr3-37312492-4	chr3	37312328	37312528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001255992)	promoter-TSS (NM_001255992)	18.0	NM_145825	207175.0	Mm.344708	NM_145825	ENSMUSG00000045031	Cetn4	-	centrin 4	protein-coding	113.5	108.5	76.5	1687.0	219.0	78.5	112.0	84.5
Merged-chr3-95652463-10	chr3	95652486	95652686	+	961.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-6135.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	16.5	28.5	26.5	190.5	54.5	25.5	29.0	30.0
Merged-chr11-24076257-3	chr11	24076168	24076368	+	823.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1788.0	NM_016707	14025.0	Mm.53687	NM_016707	ENSMUSG00000000861	Bcl11a	2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809	B cell CLL/lymphoma 11A (zinc finger protein)	protein-coding	14.5	19.5	20.5	179.0	15.0	3.0	6.0	8.0
Merged-chr7-30090889-2	chr7	30090789	30090989	+	895.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152814)	promoter-TSS (NM_152814)	-379.0	NM_152814	72556.0	Mm.441512	NM_152814	ENSMUSG00000078768	Zfp566	2700043M03Rik|mszf4	zinc finger protein 566	protein-coding	14.0	2.0	12.0	127.5	16.0	5.5	19.0	17.0
Merged-chr10-128747818-4	chr10	128747723	128747923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253704)	promoter-TSS (NM_001253704)	-56.0	NM_030100	78428.0	Mm.27358	NM_030100	ENSMUSG00000064030	Pym1	A030010B05Rik|Pym|Wibg	PYM homolog 1, exon junction complex associated factor	protein-coding	61.0	57.5	43.5	1085.5	129.0	62.5	38.0	59.5
Merged-chr13-20112747-3	chr13	20112654	20112854	+	877.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	22247.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	1.0	0.0	0.0	0.0	34.0	12.0	25.0	8.5
Merged-chr12-79006820-4	chr12	79006722	79006922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178745, intron 1 of 2)	CpG	455.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	26.5	30.5	15.0	285.0	106.0	34.5	39.5	25.0
Merged-chr12-85476182-10	chr12	85476023	85476223	+	989.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010234, exon 4 of 4)	exon (NM_010234, exon 4 of 4)	2233.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	31.5	68.5	23.0	234.0	101.5	78.5	40.5	18.0
Merged-chr12-85304912-4	chr12	85304810	85305010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145138, intron 20 of 21)	intron (NM_145138, intron 20 of 21)	16319.0	NM_172414	72350.0	Mm.158810	NM_172414	ENSMUSG00000045064	Zc2hc1c	2810002I04Rik|AV046379|Fam164c	zinc finger, C2HC-type containing 1C	protein-coding	35.0	52.5	36.5	551.5	103.0	27.5	35.0	37.5
Merged-chr12-75738643-3	chr12	75738553	75738753	+	943.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2924.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	14.5	8.0	6.5	183.5	17.0	7.5	3.0	6.5
Merged-chr5-139387993-4	chr5	139387877	139388077	+	935.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	-1927.0	NM_001038703	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	23.5	19.5	16.0	407.0	44.5	7.5	9.0	20.5
Merged-chr5-113956690-4	chr5	113956581	113956781	+	731.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 9 of 14)	B3|SINE|B2	37076.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	19.0	10.5	2.0	204.5	38.5	17.5	8.0	12.0
Merged-chr1-138939882-4	chr1	138939764	138939964	+	980.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-23845.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	16.0	60.0	13.5	370.5	136.5	22.0	27.0	29.5
Merged-chr6-29248053-3	chr6	29247967	29248167	+	944.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-24421.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	8.5	12.5	13.0	113.0	9.0	5.5	9.0	16.5
Merged-chr5-102502600-4	chr5	102502521	102502721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146161, intron 1 of 8)	intron (NM_146161, intron 1 of 8)	21230.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	46.5	41.5	56.0	1087.0	90.0	25.5	50.5	38.5
Merged-chr13-21180129-7	chr13	21180021	21180221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009054, exon 1 of 8)	5' UTR (NM_009054, exon 1 of 8)	190.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	30.0	56.0	57.5	541.0	115.0	38.0	59.5	55.0
Merged-chr18-4068841-3	chr18	4068760	4068960	+	682.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96972.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	7.0	8.5	4.5	115.5	19.0	7.0	11.0	12.0
Merged-chr3-96692778-4	chr3	96692734	96692934	+	876.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3541.0	NM_146135	229615.0	Mm.1635	NM_018812	ENSMUSG00000028101	Pias3	Pias3l	protein inhibitor of activated STAT 3	protein-coding	11.0	10.5	3.0	116.5	15.5	6.0	7.5	9.0
Merged-chr8-92772409-3	chr8	92772382	92772582	+	880.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-54815.0	NM_008610	17390.0	Mm.29564	NM_008610	ENSMUSG00000031740	Mmp2	Clg4a|GelA|MMP-2	matrix metallopeptidase 2	protein-coding	9.0	8.5	9.5	117.0	10.0	2.5	1.5	8.0
Merged-chr5-115137723-3	chr5	115137641	115137841	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-2766.0	NM_175352	106840.0	Mm.29241	NM_175352	ENSMUSG00000046562	Unc119b	AA407659|AI414892	unc-119 lipid binding chaperone B	protein-coding	7.0	25.5	7.0	180.0	15.5	1.5	4.5	7.5
Merged-chr15-102451099-4	chr15	102450995	102451195	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356575, intron 7 of 11)	intron (NM_001356575, intron 7 of 11)	5728.0	NM_144547	110542.0	Mm.60331	NM_144547	ENSMUSG00000023047	Amhr2	Misiir|Misrii|Mrii	anti-Mullerian hormone type 2 receptor	protein-coding	30.5	43.5	22.0	408.0	45.5	21.0	16.5	12.0
Merged-chr9-120028037-4	chr9	120027954	120028154	+	935.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4456.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	18.5	44.5	17.5	355.5	49.5	18.0	15.5	16.5
Merged-chr1-95366426-4	chr1	95366329	95366529	+	865.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	52801.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	4.0	3.0	11.0	255.5	29.0	8.0	8.0	9.5
Merged-chr19-46523793-5	chr19	46523729	46523929	+	965.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22181.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	9.5	18.5	13.0	56.5	21.5	11.5	15.5	10.0
Merged-chr19-22304526-3	chr19	22304415	22304615	+	877.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035239, intron 1 of 24)	intron (NM_001035239, intron 1 of 24)	-143693.0	NM_177341	226025.0	Mm.131943	NM_177341	ENSMUSG00000052387	Trpm3	6330504P12Rik|9330180E14|AU018608|B930001P07Rik|LTRPC3|MLSN2	transient receptor potential cation channel, subfamily M, member 3	protein-coding	8.5	13.0	7.5	197.5	16.0	7.5	3.5	4.5
Merged-chr2-30828358-4	chr2	30828258	30828458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133346)	promoter-TSS (NM_133346)	-58.0	NM_133346	72323.0	Mm.27656	NM_133346	ENSMUSG00000039483	Asb6	2510004M11Rik|AA409356	ankyrin repeat and SOCS box-containing 6	protein-coding	104.5	146.5	33.5	1043.5	245.0	92.5	87.0	96.0
Merged-chr1-85766233-3	chr1	85766134	85766334	+	714.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9037.0	NR_108086	77762.0	Mm.434298	NR_108086	ENSMUSG00000100217	9930111H07Rik	-	RIKEN cDNA 9930111H07 gene	ncRNA	10.5	14.0	14.0	124.5	5.0	5.0	4.0	4.0
Merged-chr12-17717383-2	chr12	17717246	17717446	+	638.75	f0_c57.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	26537.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	3.5	1.5	4.0	47.5	8.5	5.0	5.5	7.5
Merged-chr6-112947351-4	chr6	112947237	112947437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080448)	promoter-TSS (NM_080448)	-71.0	NM_080448	259302.0	Mm.236401	NM_080448	ENSMUSG00000030257	Srgap3	AI452337|Arhgap14|D130026O08Rik|Gbi|MEGAP|WRP|mKIAA0411	SLIT-ROBO Rho GTPase activating protein 3	protein-coding	90.0	123.5	49.0	1619.0	179.0	55.5	78.5	60.5
Merged-chr7-99782162-4	chr7	99782076	99782276	+	984.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15012.0	NM_146356	258353.0	Mm.377450	NM_146356	ENSMUSG00000073997	Olfr521	MOR101-2	olfactory receptor 521	protein-coding	28.5	30.0	16.5	227.0	54.5	12.5	21.0	19.5
Merged-chr12-99640352-4	chr12	99640198	99640398	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12324.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	13.0	6.0	10.0	141.0	23.5	10.5	10.5	16.5
Merged-chr2-165883140-4	chr2	165883038	165883238	+	978.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281926)	promoter-TSS (NM_001281926)	-860.0	NM_001281926	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	22.0	21.5	26.0	385.0	33.5	8.5	22.0	33.5
Merged-chr14-54913101-1	chr14	54913001	54913201	+	812.0	f0_balb.idr	promoter-TSS (NM_001360406)	promoter-TSS (NM_001360406)	31.0	NM_001360406	59049.0	Mm.27435	NM_021551	ENSMUSG00000022199	Slc22a17	1700094C23Rik|24p3R|AU041908|AW555662|BOIT|Boct	solute carrier family 22 (organic cation transporter), member 17	protein-coding	14.5	15.5	10.0	15.0	13.5	4.0	10.5	5.0
Merged-chr7-127840904-2	chr7	127840804	127841004	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009294)	promoter-TSS (NM_009294)	-904.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	6.0	13.5	17.0	69.0	46.5	11.5	14.0	16.0
Merged-chr6-65126290-3	chr6	65126198	65126398	+	646.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 4 of 5)	intron (NM_019455, intron 4 of 5)	18432.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	5.0	8.0	6.0	115.5	23.5	6.5	5.5	5.5
Merged-chr1-181138889-3	chr1	181138778	181138978	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026171, intron 4 of 22)	intron (NM_026171, intron 4 of 22)	5326.0	NM_026171	67459.0	Mm.263464	NM_026171	ENSMUSG00000026516	Nvl	1200009I24Rik	nuclear VCP-like	protein-coding	2.0	1.0	1.0	63.5	71.0	7.0	17.5	21.5
Merged-chr13-13955116-2	chr13	13955016	13955216	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001362405, intron 1 of 12)	CpG	442.0	NM_178640	97884.0	Mm.21686	NM_178640	ENSMUSG00000039242	B3galnt2	A930105D20Rik|C80633|D230016N13Rik	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2	protein-coding	8.5	18.5	22.5	148.0	49.0	14.5	13.0	23.0
Merged-chr16-31926785-4	chr16	31926699	31926899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_LTR|LTR|ERV1	-7052.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	130.0	368.5	168.0	1083.0	418.0	169.5	145.0	122.5
Merged-chr15-82898913-4	chr15	82898816	82899016	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027799)	promoter-TSS (NR_027799)	-164.0	NR_045068	100504637.0	Mm.440928	NR_045068	ENSMUSG00000100199	Gm20324	-	predicted gene, 20324	ncRNA	22.0	17.5	17.5	380.0	53.0	16.0	17.5	20.5
Merged-chr14-65332117-4	chr14	65332021	65332221	+	874.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26555.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	11.5	22.5	7.5	277.5	17.5	11.5	20.5	6.5
Merged-chr5-142764489-3	chr5	142764395	142764595	+	762.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122730, intron 12 of 27)	intron (NM_001122730, intron 12 of 27)	52892.0	NM_178242	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	9.0	12.0	8.5	108.0	16.0	5.5	7.0	8.0
Merged-chr14-19985335-4	chr14	19985272	19985472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8123.0	NM_001285909	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	106.5	77.0	65.0	1870.0	144.5	50.5	86.5	78.5
Merged-chr7-64049885-4	chr7	64049768	64049968	+	939.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103967.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	32.5	19.5	20.5	257.5	28.0	12.5	13.0	11.0
Merged-chr10-58523065-4	chr10	58522949	58523149	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162956, intron 6 of 15)	L1Md_F2|LINE|L1	25112.0	NM_001162956	76138.0	Mm.211744	NM_001162956	ENSMUSG00000038010	Ccdc138	6230424H07Rik|BC042726	coiled-coil domain containing 138	protein-coding	14.5	57.5	16.5	249.0	111.5	31.0	33.5	41.5
Merged-chr1-91398812-4	chr1	91398695	91398895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355152)	promoter-TSS (NM_001355152)	28.0	NM_023343	67444.0	Mm.337240	NM_023343	ENSMUSG00000026309	Ilkap	0710007A14Rik|1600009O09Rik|PP2C-DELTA	integrin-linked kinase-associated serine/threonine phosphatase 2C	protein-coding	102.5	136.5	70.5	1211.5	215.5	98.5	87.0	81.5
Merged-chr6-136858444-1	chr6	136858344	136858544	+	580.5	f0_balb.idr	promoter-TSS (NM_026639)	promoter-TSS (NM_026639)	-844.0	NM_026639	109978.0	Mm.31840	NM_026639	ENSMUSG00000030217	Art4	4432404K01Rik|ARTC4|DO|DOK1	ADP-ribosyltransferase 4	protein-coding	9.5	4.5	5.0	66.0	1.5	0.0	0.0	3.0
Merged-chr2-164444600-4	chr2	164444476	164444676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1388.0	NM_011521	20971.0	Mm.3815	NM_011521	ENSMUSG00000017009	Sdc4	AA959608|AW108331|S4|Synd4|ryudocan|syndecan-4	syndecan 4	protein-coding	45.0	71.0	29.0	352.0	101.5	49.5	34.5	29.5
Merged-chr15-81106398-4	chr15	81106291	81106491	+	892.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	-1344.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	17.0	13.5	28.0	385.5	40.0	5.0	5.5	6.5
Merged-chr11-8700960-2	chr11	8700855	8701055	+	690.900024	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36420.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	1.0	4.0	5.5	70.0	28.5	9.5	20.0	20.0
Merged-chr6-83010202-4	chr6	83010100	83010300	+	929.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 7 of 9)	RMER6B|LTR|ERVK	23271.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	11.5	18.0	5.5	180.0	35.0	3.0	11.0	5.0
Merged-chr14-17569467-4	chr14	17569374	17569574	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91486.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	24.5	24.5	41.0	602.0	55.0	13.0	28.0	21.5
Merged-chr4-45410338-4	chr4	45410199	45410399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1533.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	29.0	51.5	37.0	298.0	54.5	26.0	25.0	32.5
Merged-chr8-11758351-4	chr8	11758233	11758433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113518)	promoter-TSS (NM_001113518)	3.0	NM_001113518	54126.0	Mm.244068	NM_017402	ENSMUSG00000031511	Arhgef7	Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR	Rho guanine nucleotide exchange factor (GEF7)	protein-coding	70.5	83.0	56.5	1232.0	205.0	82.0	81.0	70.0
Merged-chr5-150176797-3	chr5	150176696	150176896	+	969.4166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83134.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	3.0	2.0	19.0	43.5	46.5	9.5	22.5	20.0
Merged-chr3-133335313-4	chr3	133335210	133335410	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293641, intron 5 of 11)	intron (NM_001293641, intron 5 of 11)	25200.0	NM_001293641	74776.0	Mm.210305	NM_146141	ENSMUSG00000028013	Ppa2	1110013G13Rik|Sid6306	pyrophosphatase (inorganic) 2	protein-coding	6.5	20.5	28.0	331.5	50.5	20.0	26.0	44.5
Merged-chr16-37651783-1	chr16	37651683	37651883	+	612.5	f0_balb.idr	intron (NM_026610, intron 1 of 2)	intron (NM_026610, intron 1 of 2)	2585.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	9.5	9.0	5.5	95.0	10.0	2.5	5.0	7.0
Merged-chr13-59562697-4	chr13	59562569	59562769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5322.0	NM_023328	67269.0	Mm.153008	NM_023328	ENSMUSG00000021557	Agtpbp1	1700020N17Rik|2310001G17Rik|2900054O13Rik|4930445M19Rik|5730402G09Rik|CCP1|Nna1|nmf243|pcd	ATP/GTP binding protein 1	protein-coding	47.5	49.5	58.5	714.0	69.5	38.0	57.0	42.5
Merged-chr17-81705407-4	chr17	81705274	81705474	+	890.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	33013.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	6.5	7.0	13.0	220.0	24.0	2.5	11.5	11.0
Merged-chr11-120491839-4	chr11	120491700	120491900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013770)	promoter-TSS (NM_013770)	-37.0	NM_013770	27376.0	Mm.3991	NM_013770	ENSMUSG00000025792	Slc25a10	Dic	solute carrier family 25 (mitochondrial carrier, dicarboxylate transporter), member 10	protein-coding	38.0	57.0	34.5	409.5	116.5	49.5	45.0	30.5
Merged-chr16-91869806-4	chr16	91869720	91869920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010587, intron 28 of 38)	intron (NM_010587, intron 28 of 38)	61810.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	168.5	309.0	215.0	2549.0	396.5	175.0	205.5	192.5
Merged-chr6-86524972-2	chr6	86524872	86525072	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_011865, exon 1 of 1)	exon (NM_011865, exon 1 of 1)	1217.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	6.0	2.0	13.5	40.0	16.0	8.0	5.5	8.0
Merged-chr8-104602903-4	chr8	104602829	104603029	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252628, intron 17 of 17)	intron (NM_001252628, intron 17 of 17)	11461.0	NM_001024606	382051.0	Mm.290750	NM_001024606	ENSMUSG00000048371	Pdp2	4833426J09Rik|Gm1705|mKIAA1348	pyruvate dehyrogenase phosphatase catalytic subunit 2	protein-coding	51.5	50.5	29.0	583.0	61.0	26.0	39.5	16.5
Merged-chr4-70420695-4	chr4	70420610	70420810	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10275.0	NM_145990	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	18.5	18.5	20.0	582.0	56.5	17.5	30.0	36.5
Merged-chr17-34883533-4	chr17	34883432	34883632	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1432.0	NM_013484	12263.0	Mm.283217	NM_013484	ENSMUSG00000024371	C2	-	complement component 2 (within H-2S)	protein-coding	16.0	41.0	13.0	202.5	68.5	29.0	27.5	25.0
Merged-chr2-121450248-4	chr2	121450180	121450380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001025371)	TTS (NM_001025371)	1082.0	NR_110986	378702.0	Mm.262252	NM_011354	ENSMUSG00000074884	Serf2	C80083|Msmac1l|m4F5rel	small EDRK-rich factor 2	protein-coding	20.5	39.0	24.5	351.5	57.5	30.0	22.5	38.5
Merged-chr19-60467367-4	chr19	60467283	60467483	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_201615, exon 1 of 1)	exon (NM_201615, exon 1 of 1)	921.0	NM_201615	226278.0	Mm.377241	NM_201615	ENSMUSG00000045052	Prlhr	Gm339|Gpr10|Gr3|Prrpr	prolactin releasing hormone receptor	protein-coding	18.5	24.0	18.0	304.0	51.0	19.0	26.0	34.5
Merged-chr15-67101513-4	chr15	67101403	67101603	+	863.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75379.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	11.5	13.5	8.0	230.5	20.0	8.0	7.0	9.0
Merged-chr3-40846823-4	chr3	40846718	40846918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038067)	promoter-TSS (NR_038067)	36.0	NM_028140	72175.0	Mm.130610	NM_028140	ENSMUSG00000025759	Mfsd8	2810423E13Rik|AI836898|AV142426|Cln7	major facilitator superfamily domain containing 8	protein-coding	346.5	484.5	344.5	3374.5	758.0	312.0	369.5	276.5
Merged-chr11-35290418-3	chr11	35290305	35290505	+	934.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011412, intron 4 of 35)	intron (NM_011412, intron 4 of 35)	168949.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	2.0	4.0	1.0	36.5	100.0	25.0	31.5	15.5
Merged-chr19-47406700-4	chr19	47406581	47406781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 2 of 14)	ID_B1|SINE|B4	57730.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	28.5	38.0	41.5	516.5	40.5	32.0	28.0	11.0
Merged-chr7-74668385-4	chr7	74668295	74668495	+	894.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113615.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	9.0	10.5	6.0	124.5	32.0	20.5	12.5	23.5
Merged-chr10-22148895-5	chr10	22148855	22149055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001254744, exon 1 of 2)	exon (NM_001254744, exon 1 of 2)	315.0	NM_001254744	319887.0	Mm.177746	NM_001254744	ENSMUSG00000097327	E030030I06Rik	-	RIKEN cDNA E030030I06 gene	protein-coding	24.0	26.0	18.0	169.5	37.0	10.5	17.0	21.5
Merged-chr1-131084065-1	chr1	131083965	131084165	+	1000.0	f1_balb.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	13778.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	26.5	70.5	13.0	214.0	90.5	45.5	28.5	17.5
Merged-chr7-15974896-4	chr7	15974802	15975002	+	827.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081418, intron 13 of 13)	intron (NM_001081418, intron 13 of 13)	-7367.0	NM_153068	259300.0	Mm.138215	NM_153068	ENSMUSG00000074364	Ehd2	BC027084|C130052H20Rik	EH-domain containing 2	protein-coding	2.5	26.5	6.0	114.5	29.0	10.0	9.5	7.5
Merged-chr2-113453679-4	chr2	113453536	113453736	+	917.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	ORR1E|LTR|ERVL-MaLR	12572.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	12.5	17.0	18.5	128.5	27.5	13.5	10.0	5.5
Merged-chr17-47328976-4	chr17	47328863	47329063	+	890.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001097623, intron 13 of 19)	intron (NM_001097623, intron 13 of 19)	-39924.0	NM_001146212	64657.0	Mm.216250	NM_183086	ENSMUSG00000034729	Mrps10	1110038B19Rik|AW743084|Rpms10	mitochondrial ribosomal protein S10	protein-coding	13.0	30.5	11.5	89.0	40.0	5.0	13.0	7.0
Merged-chr2-167931601-3	chr2	167931488	167931688	+	938.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011201)	promoter-TSS (NM_011201)	-739.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	11.5	18.5	8.5	64.5	27.5	7.5	4.5	6.5
Merged-chr4-89351282-4	chr4	89351156	89351356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-40224.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	32.0	115.5	60.0	387.5	119.0	54.5	26.0	18.0
Merged-chr5-21358818-4	chr5	21358712	21358912	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	-13861.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	10.0	21.5	8.0	151.0	36.5	7.0	14.0	12.5
Merged-chr6-88008865-3	chr6	88008745	88008945	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009005, intron 3 of 5)	intron (NM_009005, intron 3 of 5)	10950.0	NM_001293655	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	16.0	5.5	11.0	160.0	11.0	3.0	5.5	2.5
Merged-chr16-17452428-2	chr16	17452328	17452528	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001277231, exon 1 of 2)	5' UTR (NM_001277231, exon 1 of 2)	443.0	NM_007764	12929.0	Mm.21048	NM_007764	ENSMUSG00000006134	Crkl	1110025F07Rik|AA589403|AI325100|Crkol	v-crk avian sarcoma virus CT10 oncogene homolog-like	protein-coding	10.0	12.0	12.5	102.0	24.5	9.0	8.5	8.0
Merged-chr8-120564035-4	chr8	120563946	120564146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145896, intron 3 of 15)	intron (NM_001145896, intron 3 of 15)	25029.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	253.5	409.0	267.5	3497.0	638.0	232.0	324.5	259.0
Merged-chr11-85249578-4	chr11	85249481	85249681	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	14415.0	NR_028329	654810.0	Mm.209580	NR_028329	ENSMUSG00000085628	Appbp2os	D630032N06Rik	amyloid beta precursor protein (cytoplasmic tail) binding protein 2, opposite strand	ncRNA	39.5	50.5	47.0	312.5	49.0	26.5	30.5	22.5
Merged-chr1-186575884-4	chr1	186575793	186575993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17212.0	NR_131158	320449.0	Mm.404477	NR_131124	ENSMUSG00000103690	A730004F24Rik	-	RIKEN cDNA A730004F24 gene	ncRNA	124.5	149.5	177.5	2876.0	281.0	78.5	148.0	141.5
Merged-chr9-45955244-4	chr9	45955169	45955369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172257)	promoter-TSS (NM_172257)	-20.0	NM_172257	214597.0	Mm.379345	NM_172257	ENSMUSG00000034908	Sidt2	B930096O19|BC023957|CGI-40	SID1 transmembrane family, member 2	protein-coding	61.5	87.5	54.0	824.0	169.5	51.0	63.0	56.5
Merged-chr9-72438481-4	chr9	72438369	72438569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008613)	promoter-TSS (NM_008613)	-60.0	NM_008613	17427.0	Mm.387671	NM_008613	ENSMUSG00000032221	Mns1	AW546487	meiosis-specific nuclear structural protein 1	protein-coding	76.0	97.0	70.0	1152.0	175.5	49.0	99.5	94.5
Merged-chr4-141651501-4	chr4	141651406	141651606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	12609.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	43.5	29.5	25.5	658.5	55.5	24.0	17.5	34.5
Merged-chr7-24902091-4	chr7	24901984	24902184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008488)	promoter-TSS (NM_008488)	-902.0	NM_001130150	16801.0	Mm.3181	NM_008488	ENSMUSG00000040940	Arhgef1	Lbcl2|Lsc	Rho guanine nucleotide exchange factor (GEF) 1	protein-coding	50.5	84.5	31.5	411.0	76.5	31.5	37.5	39.0
Merged-chr2-129598151-2	chr2	129598051	129598251	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	2689.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	6.0	5.5	6.5	10.0	5.5	7.5	3.0	2.0
Merged-chr7-17060191-4	chr7	17060109	17060309	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162950, intron 1 of 14)	intron (NM_001162950, intron 1 of 14)	2218.0	NM_001162950	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	9.5	7.0	11.5	206.5	54.0	8.5	12.5	17.5
Merged-chr15-30608248-4	chr15	30608130	30608330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-430896.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	57.0	64.0	93.0	1315.0	243.5	108.5	126.0	112.0
Merged-chr13-112016197-2	chr13	112016097	112016297	+	969.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3|LINE|L1	148261.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	6.0	2.0	6.5	98.5	11.0	7.0	10.5	10.0
Merged-chr3-88380241-3	chr3	88380144	88380344	+	801.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1543.0	NM_001032298	12097.0	Mm.425160	NM_001032298	ENSMUSG00000074486	Bglap2	BGP2|Bglap1|Bgp|Og2|mOC-B	bone gamma-carboxyglutamate protein 2	protein-coding	13.5	21.5	21.5	33.0	14.0	9.5	10.0	17.0
Merged-chr19-53453889-3	chr19	53453808	53454008	+	939.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028427, intron 2 of 9)	intron (NR_028427, intron 2 of 9)	10888.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	13.5	14.5	16.0	142.5	1.0	0.0	0.0	2.5
Merged-chr6-22124722-4	chr6	22124614	22124814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081351, intron 10 of 21)	intron (NM_001081351, intron 10 of 21)	138804.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	24.5	89.5	48.5	957.0	93.5	31.5	36.5	36.0
Merged-chr13-43549497-4	chr13	43549313	43549513	+	926.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081059, intron 5 of 8)	intron (NM_001081059, intron 5 of 8)	10778.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	18.5	24.0	7.0	198.0	44.0	14.0	3.0	10.5
Merged-chr5-64241136-3	chr5	64241022	64241222	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	intron (NM_001289514, intron 1 of 18)	10765.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	59.5	75.5	65.0	1277.0	101.5	33.5	49.0	44.5
Merged-chr9-109100840-4	chr9	109100738	109100938	+	900.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172775, exon 3 of 38)	exon (NM_172775, exon 3 of 38)	5402.0	NM_172775	235611.0	Mm.53862	NM_172775	ENSMUSG00000053646	Plxnb1	2900002G15Rik|AU042020|mKIAA0407	plexin B1	protein-coding	19.5	22.0	20.5	170.0	27.5	7.0	8.0	11.0
Merged-chr10-88681153-4	chr10	88681036	88681236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011461, intron 1 of 5)	B4A|SINE|B4	1887.0	NM_011461	20728.0	Mm.21642	NM_011461	ENSMUSG00000004359	Spic	AU019198|C76795|Prf|Spi-C	Spi-C transcription factor (Spi-1/PU.1 related)	protein-coding	65.5	89.5	61.5	1319.0	243.5	50.5	143.5	80.5
Merged-chr19-47068486-4	chr19	47068371	47068571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177342, intron 1 of 10)	CpG	723.0	NM_177342	226182.0	Mm.301522	NM_177342	ENSMUSG00000025049	Taf5	6330528C20Rik|AV117817	TATA-box binding protein associated factor 5	protein-coding	91.5	102.5	46.0	913.5	170.5	55.5	68.5	53.5
Merged-chr13-105055640-4	chr13	105055542	105055742	+	986.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029879)	promoter-TSS (NM_029879)	-712.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	59.5	66.5	38.0	993.5	47.0	15.0	46.0	35.5
Merged-chr8-66393084-4	chr8	66392958	66393158	+	943.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 5 of 7)	intron (NM_175188, intron 5 of 7)	6757.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	12.0	17.5	34.5	369.0	28.5	6.5	10.0	7.0
Merged-chr14-8135341-1	chr14	8135241	8135441	+	572.0	f0_balb.idr	intron (NM_001360314, intron 4 of 19)	intron (NM_001360314, intron 4 of 19)	37130.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	9.5	5.5	6.0	88.5	2.0	1.0	2.0	1.5
Merged-chr3-84391014-3	chr3	84390925	84391125	+	620.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-11104.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	8.5	14.5	8.5	120.0	10.5	1.0	7.0	7.5
Merged-chr7-141017522-2	chr7	141017422	141017622	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033632)	promoter-TSS (NM_001033632)	-630.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	10.5	11.0	8.0	53.5	15.5	9.5	19.0	13.0
Merged-chr13-43164360-1	chr13	43164260	43164460	+	847.0	f0_balb.idr	intron (NM_001252639, intron 4 of 7)	intron (NM_001252639, intron 4 of 7)	7141.0	NM_001252639	67046.0	Mm.269213	NM_025935	ENSMUSG00000021368	Tbc1d7	2610009C09Rik	TBC1 domain family, member 7	protein-coding	10.0	16.0	10.0	150.5	3.0	1.0	0.0	1.5
Merged-chr11-115574668-2	chr11	115574557	115574757	+	911.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001002929, intron 7 of 18)	MTC|LTR|ERVL-MaLR	10213.0	NM_001002929	445007.0	Mm.4379	NM_001002929	ENSMUSG00000020739	Nup85	Pcnt1|frount	nucleoporin 85	protein-coding	6.0	10.0	2.5	38.5	18.5	9.0	8.0	7.0
Merged-chr15-102405980-7	chr15	102405869	102406069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013672)	promoter-TSS (NM_013672)	-347.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	306.5	507.5	306.5	4430.0	917.5	404.0	467.0	410.0
Merged-chr5-104459571-4	chr5	104459474	104459674	+	936.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008861, exon 1 of 15)	5' UTR (NM_008861, exon 1 of 15)	117.0	NM_008861	18764.0	Mm.6442	NM_008861	ENSMUSG00000034462	Pkd2	C030034P18Rik|PC2|TRPP2	polycystic kidney disease 2	protein-coding	11.0	20.0	27.0	414.5	39.5	9.0	17.0	29.5
Merged-chr5-92375944-3	chr5	92375838	92376038	+	837.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-12196.0	NM_181728	109979.0	Mm.263514	NM_181728	ENSMUSG00000034842	Art3	4930569O04Rik|ARTC3	ADP-ribosyltransferase 3	protein-coding	3.0	11.0	14.5	76.5	18.5	8.0	8.0	14.0
Merged-chr13-113917758-4	chr13	113917654	113917854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	123246.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	43.5	77.5	73.0	1642.0	191.5	34.5	86.0	80.5
Merged-chr2-57114971-4	chr2	57114879	57115079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013613)	promoter-TSS (NM_013613)	59.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	25.0	58.5	42.0	767.5	104.5	31.5	83.0	48.0
Merged-chr9-66213777-4	chr9	66213667	66213867	+	970.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010019, intron 2 of 11)	intron (NM_010019, intron 2 of 11)	55541.0	NM_010019	13143.0	Mm.304472	NM_010019	ENSMUSG00000032380	Dapk2	-	death-associated protein kinase 2	protein-coding	19.5	84.0	26.5	172.0	87.5	27.0	31.5	15.0
Merged-chr14-52098575-4	chr14	52098465	52098665	+	854.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360183, intron 1 of 8)	intron (NM_001360183, intron 1 of 8)	5456.0	NM_001360178	15381.0	Mm.427321	NM_016884	ENSMUSG00000060373	Hnrnpc	AL022939|D14Wsu171e|Hnrpc|Hnrpc1|Hnrpc2|hnRNPC1|hnRNPC2|hnrnp-C	heterogeneous nuclear ribonucleoprotein C	protein-coding	8.0	10.5	12.0	124.0	18.0	12.0	15.5	16.0
Merged-chr4-150202898-4	chr4	150202796	150202996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1761.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	61.5	69.0	57.0	953.5	154.0	56.0	91.5	58.5
Merged-chr18-46742443-4	chr18	46742364	46742564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026217)	promoter-TSS (NM_026217)	588.0	NM_009681	11777.0	Mm.312536	NM_009681	ENSMUSG00000024480	Ap3s1	-	adaptor-related protein complex 3, sigma 1 subunit	protein-coding	15.5	28.0	32.5	314.0	32.5	19.0	18.5	17.0
Merged-chr18-4891999-1	chr18	4891899	4892099	+	560.0	f0_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	79513.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	2.5	8.0	12.0	71.0	14.0	5.5	9.0	8.5
Merged-chr11-75137277-4	chr11	75137175	75137375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 13 of 18)	intron (NM_001002764, intron 13 of 18)	30877.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	126.5	268.0	155.0	1900.0	392.5	133.0	157.0	114.5
Merged-chr6-58831614-5	chr6	58831492	58831692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001361967, exon 1 of 23)	5' UTR (NM_001361967, exon 1 of 23)	127.0	NM_001361966	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	50.0	62.0	79.5	958.5	101.0	53.5	52.5	51.5
Merged-chr17-29395530-4	chr17	29395442	29395642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34628.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	172.5	357.0	200.5	2483.0	419.0	189.5	193.0	145.0
Merged-chr2-51972966-4	chr2	51972870	51973070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001141948, exon 1 of 8)	5' UTR (NM_001141948, exon 1 of 8)	238.0	NM_001141949	64685.0	Mm.7491	NM_019401	ENSMUSG00000026946	Nmi	-	N-myc (and STAT) interactor	protein-coding	59.0	63.5	35.0	759.5	107.5	46.0	51.0	40.5
Merged-chr2-39190832-4	chr2	39190719	39190919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178778)	promoter-TSS (NM_178778)	-89.0	NM_178778	320271.0	Mm.204836	NM_178778	ENSMUSG00000035236	Scai	9330112M16|A930041I02Rik|AI662729	suppressor of cancer cell invasion	protein-coding	299.0	406.0	284.0	5240.0	738.0	264.5	360.5	252.5
Merged-chr5-122093211-1	chr5	122093111	122093311	+	843.5	f0_balb.idr	Intergenic	Intergenic	-7740.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	7.0	9.0	24.0	251.0	1.5	0.0	0.5	2.5
Merged-chr2-31068978-4	chr2	31068886	31069086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	27514.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	27.5	40.0	23.5	323.5	44.5	28.0	25.5	19.0
Merged-chr9-107975434-4	chr9	107975315	107975515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023738)	promoter-TSS (NM_023738)	-152.0	NM_023738	74153.0	Mm.277125	NM_023738	ENSMUSG00000032596	Uba7	1300004C08Rik|Ube1l	ubiquitin-like modifier activating enzyme 7	protein-coding	49.0	85.5	72.5	905.0	159.0	49.5	84.5	60.5
Merged-chr15-94589888-4	chr15	94589770	94589970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008971)	promoter-TSS (NM_008971)	-46.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	141.5	213.0	97.5	1944.5	483.5	168.5	221.5	182.0
Merged-chr5-141058159-1	chr5	141058059	141058259	+	619.0	f0_balb.idr	Intergenic	Intergenic	-57563.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	8.0	5.0	7.5	81.0	14.5	3.5	4.5	5.0
Merged-chr1-131021685-4	chr1	131021588	131021788	+	869.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010548, intron 3 of 4)	intron (NM_010548, intron 3 of 4)	1843.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	16.5	13.0	6.0	91.0	57.0	13.0	26.5	14.5
Merged-chr5-96172029-3	chr5	96171931	96172131	+	809.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10041.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	1.0	7.5	6.0	134.0	19.5	6.0	9.0	11.0
Merged-chr19-45998402-6	chr19	45998297	45998497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198296)	promoter-TSS (NM_198296)	91.0	NM_198296	71617.0	Mm.210949	NM_198296	ENSMUSG00000039901	9130011E15Rik	AI431055|AW050122	RIKEN cDNA 9130011E15 gene	protein-coding	53.5	78.5	78.0	543.0	105.5	53.5	43.5	53.0
Merged-chr17-17585996-1	chr17	17585896	17586096	+	607.0	f0_balb.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	38493.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	8.5	12.0	7.0	95.5	10.0	7.5	1.5	5.0
Merged-chr17-34280814-1	chr17	34280714	34280914	+	849.0	f0_c57.idr	Intergenic	Intergenic	6957.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	0.0	0.0	0.0	8.0	29.0	6.5	6.5	19.5
Merged-chr14-103342062-4	chr14	103341927	103342127	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 1 of 84)	intron (NM_207215, intron 1 of 84)	4773.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	8.5	20.5	21.0	263.0	28.5	17.0	13.0	17.5
Merged-chr14-21853569-4	chr14	21853462	21853662	+	965.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176925, intron 2 of 2)	intron (NM_176925, intron 2 of 2)	-4652.0	NM_026965	69156.0	Mm.11827	NM_026965	ENSMUSG00000021773	Comtd1	1810030M08Rik|MT773	catechol-O-methyltransferase domain containing 1	protein-coding	20.0	43.5	24.0	438.5	43.5	33.5	19.0	14.0
Merged-chr1-173767040-4	chr1	173766943	173767143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008329)	promoter-TSS (NM_008329)	-124.0	NM_008329	15951.0	Mm.261270	NM_008329	ENSMUSG00000073489	Ifi204	Ifi16|p204	interferon activated gene 204	protein-coding	250.5	334.5	260.0	3620.5	411.5	137.0	184.0	140.5
Merged-chr13-23446209-4	chr13	23446132	23446332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15215.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	31.5	18.0	16.0	219.5	54.5	16.5	18.5	17.5
Merged-chr9-21022033-4	chr9	21021919	21022119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010493, intron 2 of 6)	intron (NM_010493, intron 2 of 6)	6079.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	25.0	34.5	7.5	73.5	58.0	22.0	24.0	6.5
Merged-chr1-189922352-4	chr1	189922260	189922460	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026796)	promoter-TSS (NM_026796)	-69.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	72.0	95.5	47.5	1416.5	57.0	21.0	39.5	18.0
Merged-chr4-53264004-4	chr4	53263905	53264105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033139, intron 1 of 1)	intron (NR_033139, intron 1 of 1)	1487.0	NR_033140	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	57.5	71.0	67.0	1323.5	101.5	24.5	71.5	53.0
Merged-chr10-95256344-4	chr10	95256262	95256462	+	713.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	67347.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	13.0	10.5	8.0	130.5	18.0	9.5	11.5	11.0
Merged-chr1-39580961-4	chr1	39580887	39581087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-3640.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	16.0	26.0	21.0	435.5	64.5	5.5	14.5	35.5
Merged-chr1-134455537-4	chr1	134455402	134455602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153128)	promoter-TSS (NM_153128)	-29.0	NM_153128	240756.0	Mm.87398	NM_153128	ENSMUSG00000026455	Klhl12	C3ip1	kelch-like 12	protein-coding	41.0	40.0	19.0	305.0	82.0	35.0	43.5	37.5
Merged-chr15-27215920-4	chr15	27215808	27216008	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-250769.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	17.0	24.0	17.0	457.5	62.0	20.0	24.5	19.0
Merged-chr1-92752019-4	chr1	92751938	92752138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79607.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	39.5	51.0	67.5	785.5	56.5	29.0	30.0	29.0
Merged-chr8-83145621-3	chr8	83145521	83145721	+	911.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-19731.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	9.0	17.0	14.0	190.5	11.5	1.0	1.0	6.0
Merged-chr2-71367733-4	chr2	71367627	71367827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172436)	promoter-TSS (NM_172436)	-173.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	90.0	122.0	147.0	1147.0	171.0	79.5	89.0	96.0
Merged-chr12-86242364-3	chr12	86242242	86242442	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027405, intron 1 of 9)	intron (NM_027405, intron 1 of 9)	484.0	NM_001324488	70373.0	Mm.252967	NM_027405	ENSMUSG00000021254	Gpatch2l	1700020O03Rik|4732487G21Rik|A630090I05Rik|Kiaa1152	G patch domain containing 2 like	protein-coding	12.5	34.5	8.5	192.0	49.5	27.5	30.5	28.5
Merged-chr17-56808729-4	chr17	56808622	56808822	+	935.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009056, intron 1 of 16)	intron (NM_009056, intron 1 of 16)	22286.0	NM_009056	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	10.5	15.5	7.0	120.0	51.5	22.0	26.0	19.5
Merged-chr16-91543307-2	chr16	91543207	91543407	+	568.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	-3787.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	1.5	3.5	1.0	44.5	24.0	4.5	4.5	9.0
Merged-chr2-143975452-4	chr2	143975378	143975578	+	964.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024281, intron 2 of 23)	intron (NM_024281, intron 2 of 23)	35785.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	20.5	12.0	44.0	529.0	36.0	9.0	17.5	26.0
Merged-chr10-121351332-4	chr10	121351197	121351397	+	961.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361015, exon 1 of 13)	exon (NM_001361015, exon 1 of 13)	347.0	NM_001361015	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	12.0	22.0	20.5	196.5	42.0	15.0	11.0	20.0
Merged-chr7-115020225-4	chr7	115020091	115020291	+	931.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	68917.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	10.5	19.0	15.5	212.0	45.5	13.0	21.0	12.5
Merged-chr10-83198574-4	chr10	83198462	83198662	+	827.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139255.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	18.5	8.5	10.0	147.5	40.0	10.5	10.5	12.5
Merged-chr4-128729443-2	chr4	128729343	128729543	+	823.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	intron (NM_001195083, intron 1 of 6)	1872.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	6.5	7.0	6.0	31.0	12.5	7.0	4.0	5.5
Merged-chr3-95588827-4	chr3	95588725	95588925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177669)	promoter-TSS (NM_001177669)	-109.0	NM_146133	229593.0	Mm.245830	NM_146133	ENSMUSG00000046519	Golph3l	2010204I15Rik|AU015439|AW549227|C77637|Gpp34r	golgi phosphoprotein 3-like	protein-coding	207.0	326.5	198.5	3350.5	398.5	135.0	160.0	183.0
Merged-chr8-126582733-4	chr8	126582622	126582822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10714.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	23.0	39.5	30.5	371.5	67.5	40.5	33.5	28.5
Merged-chr2-153649678-4	chr2	153649659	153649859	+	967.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271744, intron 1 of 22)	CpG	310.0	NM_001271747	13436.0	Mm.89772	NM_010068	ENSMUSG00000027478	Dnmt3b	MmuIIIB	DNA methyltransferase 3B	protein-coding	20.5	34.0	35.0	275.0	26.5	10.0	12.0	19.0
Merged-chr5-88765003-4	chr5	88764917	88765117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007832)	promoter-TSS (NM_007832)	4.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	321.5	450.5	416.0	5382.5	910.0	297.0	527.5	371.5
Merged-chr10-98893734-4	chr10	98893684	98893884	+	886.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-20858.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	7.5	14.0	17.0	163.0	37.0	9.5	8.0	16.0
Merged-chr1-191098793-1	chr1	191098693	191098893	+	681.0	f0_c57.idr	intron (NM_030060, intron 1 of 2)	intron (NM_030060, intron 1 of 2)	379.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	8.5	22.5	13.0	199.0	27.5	5.0	6.5	18.0
Merged-chr13-89739642-4	chr13	89739528	89739728	+	994.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081249, intron 1 of 14)	CpG	2884.0	NM_001081249	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	25.0	30.5	37.0	339.0	56.0	19.0	16.0	27.0
Merged-chr19-4207169-4	chr19	4207083	4207283	+	849.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5580.0	NM_011237	19367.0	Mm.277629	NM_011237	ENSMUSG00000024824	Rad9a	Rad9	RAD9 checkpoint clamp component A	protein-coding	4.0	13.5	7.0	106.0	19.0	10.5	15.5	17.0
Merged-chr5-121122670-3	chr5	121122526	121122726	+	774.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	68771.0	NM_001109992	19247.0	Mm.8681	NM_011202	ENSMUSG00000043733	Ptpn11	2700084A17Rik|AW536184|PTP1D|PTP2C|SAP-2|SH-PTP2|SH-PTP3|SHP-2|Shp2|Syp	protein tyrosine phosphatase, non-receptor type 11	protein-coding	0.0	5.0	0.0	52.0	15.5	8.0	8.0	9.5
Merged-chr15-100469025-4	chr15	100468929	100469129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357982)	promoter-TSS (NM_001357982)	18.0	NM_134093	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	84.0	136.5	72.0	1011.0	165.5	63.5	83.0	61.0
Merged-chr16-48833840-4	chr16	48833745	48833945	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8707.0	NM_020509	57262.0	Mm.441868	NM_020509	ENSMUSG00000061100	Retnla	1810019L16Rik|Fizz-1|Fizz1|HIMF|RELM-alpha|RELMa|RELMalpha|Xcp2	resistin like alpha	protein-coding	42.0	20.0	41.5	765.0	75.5	24.0	38.0	37.5
Merged-chr12-17773899-4	chr12	17773821	17774021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361645, intron 2 of 4)	intron (NM_001361645, intron 2 of 4)	83112.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	83.5	131.0	100.5	922.0	222.0	102.0	96.0	71.5
Merged-chr2-165332818-4	chr2	165332710	165332910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6331.0	NM_207706	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	40.0	73.5	62.5	834.5	84.5	31.0	43.5	49.0
Merged-chr16-52091079-4	chr16	52090998	52091198	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	59549.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	14.0	23.0	30.5	342.0	66.0	18.5	24.5	30.0
Merged-chr6-134432906-3	chr6	134432790	134432990	+	693.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355686, intron 5 of 5)	intron (NM_001355686, intron 5 of 5)	18462.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	8.0	4.5	12.5	54.0	8.0	4.0	2.0	0.5
Merged-chr5-125349947-3	chr5	125349876	125350076	+	735.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8882.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	0.5	1.0	3.5	18.0	19.0	12.0	9.0	7.5
Merged-chr1-105356582-4	chr1	105356487	105356687	+	791.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151538, exon 1 of 2)	non-coding (NR_151538, exon 1 of 2)	123.0	NM_178779	320311.0	Mm.389162	NM_178779	ENSMUSG00000047496	Rnf152	A930029B02Rik	ring finger protein 152	protein-coding	4.5	4.5	9.5	148.5	13.5	2.0	6.0	16.0
Merged-chr2-17946295-4	chr2	17946183	17946383	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50675.0	NM_026627	68231.0	Mm.23887	NM_026627	ENSMUSG00000062651	H2al2a	1700113O17Rik|H2A.Bbd|H2A.L.2|H2afb1|H2al2|TSEG-1|Tseg1	H2A histone family member L2A	protein-coding	26.0	32.0	42.5	583.5	92.0	16.0	33.0	18.5
Merged-chr1-135411164-4	chr1	135411075	135411275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357578, intron 5 of 24)	intron (NM_001357578, intron 5 of 24)	19316.0	NM_153774	226432.0	Mm.271642	NM_153774	ENSMUSG00000041879	Ipo9	0710008K06Rik|AI845704|C78347|Imp9|Ranbp9	importin 9	protein-coding	64.5	82.0	57.0	1187.0	196.5	48.5	92.0	69.0
Merged-chr16-21392840-4	chr16	21392696	21392896	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30322.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	5.5	10.0	5.5	85.5	17.0	7.0	4.0	10.0
Merged-chr2-26130193-4	chr2	26130115	26130315	+	793.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AmnSINE1|SINE|Deu	-7404.0	NM_026495	67991.0	Mm.131074	NM_026495	ENSMUSG00000026932	Nacc2	0610020I02Rik|AI448087|Btbd14a|C030048H19Rik	nucleus accumbens associated 2, BEN and BTB (POZ) domain containing	protein-coding	9.0	16.5	5.0	79.0	28.5	8.5	3.0	29.0
Merged-chr11-113766489-4	chr11	113766394	113766594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie8|DNA|hAT-Charlie	-14679.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	51.0	127.5	56.0	427.5	163.0	89.5	62.5	69.0
Merged-chr8-26723318-3	chr8	26723218	26723418	+	745.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101105.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	5.0	9.5	6.0	56.5	32.0	14.5	6.0	5.5
Merged-chr18-55624336-3	chr18	55624260	55624460	+	989.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-631769.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	14.5	18.5	24.0	298.0	16.5	8.0	10.0	9.0
Merged-chr10-30751830-4	chr10	30751747	30751947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	L2|LINE|L2	51479.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	80.5	89.0	82.5	1155.5	95.0	51.0	72.0	57.0
Merged-chr10-117840739-4	chr10	117840650	117840850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	5224.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	24.5	44.5	41.5	530.0	75.5	28.5	31.5	22.0
Merged-chr6-130337630-3	chr6	130337505	130337705	+	990.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289605)	promoter-TSS (NM_001289605)	21.0	NM_001289605	16634.0	Mm.425338	NM_010648	ENSMUSG00000067591	Klra3	5E6|Ly49c|NK-2.1|Nk-2|Nk2|Nk2.1	killer cell lectin-like receptor, subfamily A, member 3	protein-coding	15.0	29.0	15.5	251.0	4.5	0.0	0.0	0.5
Merged-chr4-138447632-4	chr4	138447540	138447740	+	897.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7508.0	NM_025451	66259.0	Mm.41603	NM_025451	ENSMUSG00000046447	Camk2n1	1810006K23Rik|AI848599|AI891706	calcium/calmodulin-dependent protein kinase II inhibitor 1	protein-coding	12.0	12.5	6.5	124.5	40.5	15.0	14.0	13.0
Merged-chr4-43524353-4	chr4	43524260	43524460	+	852.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009416)	promoter-TSS (NM_009416)	-806.0	NM_001277875	22004.0	Mm.646	NM_009416	ENSMUSG00000028464	Tpm2	Tpm-2|Trop-2	tropomyosin 2, beta	protein-coding	22.0	9.0	10.5	109.5	38.0	23.0	10.5	20.0
Merged-chr4-122859257-4	chr4	122859162	122859362	+	834.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008917)	TTS (NM_008917)	23035.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	9.0	5.0	12.0	142.5	28.0	9.0	4.5	9.0
Merged-chr9-10566008-4	chr9	10565924	10566124	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033359, intron 2 of 20)	intron (NM_001033359, intron 2 of 20)	338702.0	NM_001033359	244682.0	Mm.187021	NM_001033359	ENSMUSG00000039488	Cntn5	6720426O10Rik|A830025P08Rik|Gm507|NB-2	contactin 5	protein-coding	30.0	29.5	22.5	565.0	73.0	15.0	16.5	32.0
Merged-chr9-118658852-4	chr9	118658739	118658939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 6 of 27)	intron (NM_133721, intron 6 of 27)	52130.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	120.0	218.5	184.5	1725.0	398.5	144.5	123.0	104.5
Merged-chr2-120609393-4	chr2	120609313	120609513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025475)	promoter-TSS (NM_025475)	31.0	NM_025475	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	70.5	91.5	42.5	943.5	169.5	42.0	57.5	45.0
Merged-chr6-145857647-3	chr6	145857539	145857739	+	944.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_024469)	TTS (NM_024469)	7781.0	NM_024469	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	9.0	13.5	4.0	210.0	13.5	7.0	8.0	7.0
Merged-chr2-103965714-4	chr2	103965617	103965817	+	961.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142337, intron 1 of 3)	intron (NM_001142337, intron 1 of 3)	-3840.0	NM_001142336	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	21.0	22.5	20.5	375.5	33.0	6.0	14.5	20.0
Merged-chr2-14055794-3	chr2	14055692	14055892	+	979.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013935, exon 1 of 7)	exon (NM_013935, exon 1 of 7)	243.0	NM_001012396	30963.0	Mm.241205	NM_013935	ENSMUSG00000063275	Hacd1	Ptpla	3-hydroxyacyl-CoA dehydratase 1	protein-coding	19.0	15.0	25.0	98.5	13.0	6.0	11.0	15.5
Merged-chr4-119294639-4	chr4	119294571	119294771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011732)	promoter-TSS (NM_011732)	-158.0	NM_011732	22608.0	Mm.258204	NM_011732	ENSMUSG00000028639	Ybx1	1700102N10Rik|C79409|EF1A|MSY1|Nsep1|YB-1|dbpB|mYB-1a	Y box protein 1	protein-coding	249.5	323.0	206.5	3340.5	612.0	247.5	289.0	255.5
Merged-chr15-27784079-7	chr15	27783945	27784145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 34 of 56)	intron (NM_001081302, intron 34 of 56)	-102503.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	14.5	22.0	4.5	194.5	37.5	17.5	16.5	25.5
Merged-chr14-52120354-4	chr14	52120250	52120450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168515, intron 4 of 24)	intron (NM_001168515, intron 4 of 24)	9447.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	29.0	53.5	50.5	792.0	73.5	25.5	32.0	31.5
Merged-chr15-51738796-4	chr15	51738690	51738890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	126671.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	44.0	55.0	66.0	583.0	67.5	21.5	32.0	36.5
Merged-chr6-89422165-4	chr6	89422079	89422279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	intron (NM_001167736, intron 4 of 6)	-59566.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	105.0	168.0	116.5	1413.5	323.5	135.5	127.0	115.5
Merged-chr14-63178047-4	chr14	63177958	63178158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360211)	promoter-TSS (NM_001360211)	-171.0	NM_001360211	14137.0	Mm.474432	NM_010191	ENSMUSG00000021273	Fdft1	SQS|SS	farnesyl diphosphate farnesyl transferase 1	protein-coding	279.0	474.0	265.0	3920.5	569.0	285.0	287.5	271.5
Merged-chr10-80329949-4	chr10	80329854	80330054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008793)	promoter-TSS (NM_008793)	-191.0	NM_001204931	70335.0	Mm.28147	NM_139292	ENSMUSG00000035504	Reep6	0610011M24Rik|Dp1l1	receptor accessory protein 6	protein-coding	197.0	282.0	166.0	1880.5	481.0	209.0	211.5	161.5
Merged-chr1-177470317-4	chr1	177470189	177470389	+	980.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24468.0	NM_013915	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	7.5	34.5	16.5	183.5	66.0	21.0	31.0	24.0
Merged-chr10-56174015-4	chr10	56173916	56174116	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033385, intron 13 of 32)	intron (NM_001033385, intron 13 of 32)	54673.0	NM_001033385	544696.0	Mm.411188	NM_001033385	ENSMUSG00000038122	Tbc1d32	Bromi|C6orf170|D630037F22Rik|b2b2284Clo	TBC1 domain family, member 32	protein-coding	7.0	6.5	18.0	341.5	18.5	8.5	16.0	15.0
Merged-chr1-122357234-3	chr1	122357144	122357344	+	815.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	152099.0	NR_151524	102638832.0	Mm.112794	NR_151524	ENSMUSG00000099960	Gm28590	-	predicted gene 28590	ncRNA	11.5	19.0	13.5	135.5	49.0	14.0	24.5	33.5
Merged-chr3-19474253-3	chr3	19474150	19474350	+	966.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34345.0	NM_001163536	66326.0	Mm.45615	NM_025489	ENSMUSG00000027606	Dnajc5b	1700008A05Rik	DnaJ heat shock protein family (Hsp40) member C5 beta	protein-coding	22.0	11.0	42.5	754.0	7.0	8.0	5.5	7.0
Merged-chr19-6663585-3	chr19	6663489	6663689	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120519.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	11.0	11.0	2.0	85.0	23.0	9.0	10.0	5.5
Merged-chr11-109414887-1	chr11	109414787	109414987	+	565.0	f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11059.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	4.0	14.5	4.5	14.0	8.0	5.0	4.5	4.5
Merged-chr12-99967278-4	chr12	99967164	99967364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	2765.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	34.0	26.0	31.5	644.5	48.0	17.5	26.5	33.5
Merged-chr17-80997384-4	chr17	80997294	80997494	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026516, intron 3 of 3)	intron (NM_026516, intron 3 of 3)	52762.0	NM_026516	68027.0	Mm.357108	NM_026516	ENSMUSG00000024245	Tmem178	2810417M05Rik|Tmem178a	transmembrane protein 178	protein-coding	19.0	5.5	18.0	260.0	30.0	9.0	12.5	15.0
Merged-chr12-85596091-4	chr12	85595999	85596199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3006.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	70.5	79.0	43.0	784.0	186.0	67.0	67.0	75.5
Merged-chr10-28074805-3	chr10	28074682	28074882	+	756.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008983)	promoter-TSS (NM_008983)	-38.0	NM_001359355	19272.0	Mm.332303	NM_008983	ENSMUSG00000019889	Ptprk	AI853699|PTPk|RPTPkappa	protein tyrosine phosphatase, receptor type, K	protein-coding	16.5	26.0	19.5	463.5	8.0	4.5	1.0	4.0
Merged-chr2-121289556-4	chr2	121289424	121289624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032393)	promoter-TSS (NM_032393)	-78.0	NM_032393	17754.0	Mm.36501	NM_032393	ENSMUSG00000027254	Map1a	6330416M19Rik|AI853608|Mtap-1|Mtap1|Mtap1a|moth1	microtubule-associated protein 1 A	protein-coding	25.5	44.0	30.5	365.5	126.0	39.5	69.0	60.5
Merged-chr9-72987863-3	chr9	72987759	72987959	+	912.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359295, intron 1 of 9)	intron (NM_001359295, intron 1 of 9)	2355.0	NM_001286544	72278.0	Mm.268475	NM_028181	ENSMUSG00000034563	Ccpg1	1700030B06Rik|1810073J13Rik|9430028F23Rik|AI426686|AI875170|CPR8|D9Ertd392e	cell cycle progression 1	protein-coding	23.5	14.0	7.5	243.5	40.0	7.0	15.5	7.5
Merged-chr6-116010768-4	chr6	116010666	116010866	+	899.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15761.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	14.5	23.0	7.5	171.5	40.5	14.5	16.0	12.0
Merged-chr5-93268989-4	chr5	93268897	93269097	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007635, intron 2 of 7)	intron (NM_007635, intron 2 of 7)	1424.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	41.5	116.5	49.0	330.0	103.5	50.0	42.5	23.5
Merged-chr13-51645127-4	chr13	51645003	51645203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025415)	promoter-TSS (NM_025415)	-129.0	NM_025415	66197.0	Mm.222228	NM_025415	ENSMUSG00000062248	Cks2	1110038L14Rik|CKSHS2	CDC28 protein kinase regulatory subunit 2	protein-coding	326.0	555.0	285.0	3499.5	675.0	372.0	295.0	225.5
Merged-chr9-90108499-4	chr9	90108393	90108593	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 2 of 12)	PB1|SINE|Alu	6327.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	30.0	23.0	35.5	592.0	55.0	16.5	57.5	41.5
Merged-chr10-62111061-4	chr10	62110964	62111164	+	988.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027251)	promoter-TSS (NM_027251)	-14.0	NM_001358252	69894.0	Mm.294126	NM_027251	ENSMUSG00000020083	Fam241b	2010107G23Rik|AA545165	family with sequence similarity 241, member B	protein-coding	20.0	16.5	17.0	178.5	32.0	11.5	23.0	27.5
Merged-chr10-9575827-3	chr10	9575731	9575931	+	760.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99377.0	NM_177271	320825.0	Mm.101115	NM_177271	ENSMUSG00000060487	Samd5	E130306M17Rik	sterile alpha motif domain containing 5	protein-coding	9.5	12.0	14.5	120.5	17.5	3.5	7.0	7.0
Merged-chr5-65991385-4	chr5	65991274	65991474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027961, intron 4 of 6)	ORR1B1|LTR|ERVL-MaLR	12911.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	82.0	259.0	88.5	993.0	241.0	108.5	109.0	68.0
Merged-chr6-128851310-3	chr6	128851208	128851408	+	803.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254946, intron 2 of 2)	RMER12B|LTR|ERVK	-24993.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	9.0	10.5	4.5	70.0	15.0	11.0	7.0	3.5
Merged-chr7-58731030-3	chr7	58730925	58731125	+	906.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009728, intron 1 of 20)	intron (NM_009728, intron 1 of 20)	72823.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	3.0	6.5	3.0	82.0	20.5	11.0	14.5	7.0
Merged-chr2-144294463-3	chr2	144294351	144294551	+	922.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	23547.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	10.0	7.0	10.5	41.5	30.0	24.5	28.0	15.0
Merged-chr15-93294682-4	chr15	93294582	93294782	+	880.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024189, intron 2 of 3)	Lx7|LINE|L1	-19503.0	NM_001346785	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	12.0	17.0	16.0	323.0	26.5	12.0	21.5	10.0
Merged-chr7-19927006-4	chr7	19926923	19927123	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5880.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	14.0	15.5	29.0	351.0	36.5	7.0	24.0	16.5
Merged-chr1-85896906-4	chr1	85896815	85897015	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022417, intron 1 of 5)	intron (NM_022417, intron 1 of 5)	2405.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	16.5	22.5	16.5	261.5	80.0	17.0	28.0	22.0
Merged-chr15-53107741-4	chr15	53107656	53107856	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	238427.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	8.5	10.5	12.0	176.0	27.5	6.0	20.5	19.0
Merged-chr17-87055062-3	chr17	87054984	87055184	+	965.644409	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29523.0	NM_019936	56724.0	Mm.109329	NM_019936	ENSMUSG00000024146	Cript	1200020A08Rik|AA589469	cysteine-rich PDZ-binding protein	protein-coding	4.5	2.5	3.5	39.0	32.5	13.5	34.5	19.0
Merged-chr12-119370048-4	chr12	119369960	119370160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73350.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	50.5	77.5	55.0	984.5	149.0	51.5	41.0	33.0
Merged-chr13-97523967-4	chr13	97523841	97524041	+	716.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36059.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	5.0	10.0	12.5	97.5	17.5	15.0	10.5	11.0
Merged-chr10-77371977-3	chr10	77371896	77372096	+	842.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024838, intron 1 of 11)	intron (NM_001024838, intron 1 of 11)	46277.0	NM_130895	110532.0	Mm.276815	NM_130895	ENSMUSG00000020262	Adarb1	1700057H01Rik|AW124433|AW558573|Adar2|BB220382|D10Bwg0447e|Red1	adenosine deaminase, RNA-specific, B1	protein-coding	11.5	9.5	4.5	89.0	4.5	3.0	6.5	8.0
Merged-chr8-106581662-4	chr8	106581562	106581762	+	916.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-5481.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	10.0	17.5	17.0	284.0	38.0	8.5	12.0	24.5
Merged-chr2-127087454-3	chr2	127087346	127087546	+	886.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 5 of 7)	RMER6B|LTR|ERVK	16789.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	7.0	12.0	7.0	80.5	19.0	4.5	13.5	6.5
Merged-chr16-4551169-4	chr16	4551019	4551219	+	608.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031182, intron 4 of 6)	B3|SINE|B2	8601.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	3.5	10.5	5.0	28.0	8.5	8.5	4.5	10.5
Merged-chr8-39619010-4	chr8	39618872	39619072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 5 of 9)	intron (NM_001113326, intron 5 of 9)	23706.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	35.5	33.5	28.0	627.5	61.5	12.5	26.0	14.0
Merged-chr17-34150238-3	chr17	34150137	34150337	+	845.8110960000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010388, intron 3 of 5)	intron (NM_010388, intron 3 of 5)	-2954.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	22.5	24.0	16.5	162.5	5.0	0.0	1.0	4.0
Merged-chr5-105405158-3	chr5	105405060	105405260	+	691.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10615.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	7.5	0.0	1.0	54.0	22.5	12.5	17.5	5.0
Merged-chr11-88234210-4	chr11	88234113	88234313	+	795.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29825.0	NM_001291271	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	6.0	8.0	13.5	99.0	32.5	13.0	14.0	14.5
Merged-chr17-31680590-4	chr17	31680513	31680713	+	825.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001278570, intron 2 of 2)	intron (NM_001278570, intron 2 of 2)	2682.0	NM_001278570	12954.0	Mm.1228	NM_013501	ENSMUSG00000024041	Cryaa	Acry-1|Crya-1|Crya1|DAcry-1|lop18	crystallin, alpha A	protein-coding	11.5	26.0	26.5	197.0	17.0	6.0	14.0	14.5
Merged-chr5-65137945-4	chr5	65137838	65138038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359401, intron 1 of 5)	intron (NM_001359401, intron 1 of 5)	6707.0	NM_175174	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	29.5	47.5	33.0	692.0	71.0	34.0	29.0	46.5
Merged-chr1-43092497-7	chr1	43092395	43092595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357299)	promoter-TSS (NM_001357299)	-9.0	NM_001357299	73122.0	Mm.246069	NM_001013025	ENSMUSG00000070939	Tgfbrap1	3110018K12Rik|AU024090|AU042859|AW742551|Trap1	transforming growth factor, beta receptor associated protein 1	protein-coding	37.5	47.0	23.0	400.0	92.0	46.0	49.5	52.5
Merged-chr6-39205452-4	chr6	39205311	39205511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033430, intron 1 of 19)	intron (NM_001033430, intron 1 of 19)	1362.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	41.0	71.0	43.5	694.0	116.5	37.5	29.0	51.5
Merged-chr10-85354535-3	chr10	85354442	85354642	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32272.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	2.0	3.0	3.0	6.5	183.0	66.0	79.5	74.0
Merged-chr4-136450004-4	chr4	136449910	136450110	+	980.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-19751.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	34.5	98.0	75.5	814.5	82.5	12.5	26.5	43.0
Merged-chr8-79491515-4	chr8	79491425	79491625	+	883.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92057.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	8.0	27.0	21.0	252.0	23.5	11.0	16.5	16.0
Merged-chr12-81833262-3	chr12	81833153	81833353	+	767.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-26777.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	8.0	10.0	10.0	95.0	23.0	8.5	5.5	2.5
Merged-chr14-118925130-4	chr14	118925015	118925215	+	842.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360412)	promoter-TSS (NM_001360412)	355.0	NM_025943	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	6.5	10.5	18.5	242.0	25.0	6.0	9.5	13.5
Merged-chr5-74964427-3	chr5	74964340	74964540	+	922.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045866, intron 4 of 4)	intron (NR_045866, intron 4 of 4)	15246.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	7.0	9.0	13.0	203.5	25.0	2.5	8.5	5.5
Merged-chr12-64966800-3	chr12	64966726	64966926	+	956.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177805, exon 1 of 20)	exon (NM_177805, exon 1 of 20)	1084.0	NM_177805	328108.0	Mm.138465	NM_177805	ENSMUSG00000035614	Togaram1	A430041B07Rik|BC062107|C130034K06|Fam179b|mKIAA0423	TOG array regulator of axonemal microtubules 1	protein-coding	8.0	8.5	13.0	134.0	22.0	7.5	8.5	13.5
Merged-chr7-73557905-3	chr7	73557817	73558017	+	993.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037569, intron 1 of 4)	CpG	478.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	11.5	12.5	29.0	150.0	41.5	16.0	10.5	34.0
Merged-chr3-97775936-4	chr3	97775785	97775985	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 8 of 46)	intron (NM_001039376, intron 8 of 46)	-7871.0	NR_110360	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	12.0	24.0	9.0	221.0	59.5	20.0	10.5	21.5
Merged-chr19-55934980-3	chr19	55934776	55934976	+	793.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39555.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	5.5	8.5	19.0	56.5	9.0	4.0	2.0	5.5
Merged-chr10-25365343-2	chr10	25365243	25365443	+	785.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	intron (NM_001358754, intron 1 of 16)	5545.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	5.5	6.0	2.0	54.0	12.5	5.0	6.0	11.0
Merged-chr11-70563880-3	chr11	70563768	70563968	+	983.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 1 of 30)	intron (NM_016713, intron 1 of 30)	987.0	NM_016713	50932.0	Mm.42967	NM_016713	ENSMUSG00000020827	Mink1	B55|MINK|Map4k6|Ysk2	misshapen-like kinase 1 (zebrafish)	protein-coding	21.0	17.5	21.0	233.0	13.5	6.5	14.5	11.0
Merged-chr14-20928269-4	chr14	20928162	20928362	+	946.357178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1136.0	NM_009502	22330.0	Mm.279361	NM_009502	ENSMUSG00000021823	Vcl	9430097D22|AA571387|AI462105|AW545629	vinculin	protein-coding	16.5	22.0	16.0	518.5	36.5	9.5	13.5	20.5
Merged-chr8-122463961-4	chr8	122463796	122463996	+	956.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3204.0	NM_013914	30927.0	Mm.103673	NM_013914	ENSMUSG00000006587	Snai3	AI643946|Smuc|Zfp293	snail family zinc finger 3	protein-coding	18.0	22.0	9.0	93.0	23.5	8.5	5.5	14.5
Merged-chr16-91688827-4	chr16	91688724	91688924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021720)	promoter-TSS (NM_021720)	-74.0	NR_040389	100038392.0	Mm.440384	NR_040389	ENSMUSG00000085169	Gm10785	-	predicted gene 10785	ncRNA	165.5	231.0	113.5	1369.5	434.5	160.0	165.0	107.0
Merged-chr19-6164349-4	chr19	6164232	6164432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028967)	promoter-TSS (NM_028967)	-107.0	NM_001356604	74481.0	Mm.159219	NM_028967	ENSMUSG00000039699	Batf2	B-ATF-2	basic leucine zipper transcription factor, ATF-like 2	protein-coding	32.5	103.5	28.5	403.0	122.5	61.0	37.0	30.0
Merged-chr18-49609445-3	chr18	49609346	49609546	+	930.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86157.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	14.5	13.5	10.0	492.0	27.5	2.5	8.0	9.0
Merged-chr16-13160468-4	chr16	13160378	13160578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50742.0	NM_015769	50505.0	Mm.287837	NM_015769	ENSMUSG00000022545	Ercc4	AI606920|Xpf	excision repair cross-complementing rodent repair deficiency, complementation group 4	protein-coding	122.0	123.0	136.5	1657.0	228.5	97.5	70.5	73.0
Merged-chr4-123718276-4	chr4	123718194	123718394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002445).2	promoter-TSS (NR_002445).2	-108.0	NM_001030274	595136.0	Mm.42805	NM_001030274	ENSMUSG00000028648	Ndufs5	AI256693	NADH dehydrogenase (ubiquinone) Fe-S protein 5	protein-coding	103.0	153.5	50.0	1117.5	245.5	82.0	73.5	61.0
Merged-chr17-17393490-4	chr17	17393374	17393574	+	953.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025934, exon 10 of 10)	exon (NM_025934, exon 10 of 10)	-9212.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	19.5	32.5	5.0	315.5	80.0	11.0	19.0	20.5
Merged-chr11-120518281-4	chr11	120518194	120518394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12433.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	112.0	185.0	82.5	1040.0	267.0	104.5	102.5	53.5
Merged-chr13-56152036-3	chr13	56151936	56152136	+	858.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16486.0	NM_001159513	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	5.5	11.0	8.5	97.5	19.5	2.0	6.5	6.5
Merged-chr7-4524436-4	chr7	4524333	4524533	+	837.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033548, intron 9 of 11)	B3A|SINE|B2	-1905.0	NM_009406	21954.0	Mm.27674	NM_009406	ENSMUSG00000035458	Tnni3	Tn1|cTnI	troponin I, cardiac 3	protein-coding	7.5	19.5	7.0	81.0	35.5	11.0	11.0	22.5
Merged-chr18-12741793-3	chr18	12741702	12741902	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042419, intron 1 of 5)	intron (NM_001042419, intron 1 of 5)	447.0	NM_027687	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	15.5	22.0	9.5	276.5	75.5	13.5	40.5	26.0
Merged-chr1-93343606-4	chr1	93343518	93343718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023200)	promoter-TSS (NM_023200)	-27.0	NM_023200	66385.0	Mm.88704	NM_023200	ENSMUSG00000026275	Ppp1r7	2310014J01Rik|SDS22	protein phosphatase 1, regulatory (inhibitor) subunit 7	protein-coding	126.5	221.5	112.5	2387.5	379.0	90.5	159.0	126.0
Merged-chr11-111064823-3	chr11	111064724	111064924	+	834.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1340.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	7.5	10.5	2.0	96.0	18.5	9.5	11.5	8.0
Merged-chr19-11102119-4	chr19	11102034	11102234	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 5 of 6)	intron (NM_027058, intron 5 of 6)	-21031.0	NM_022430	64381.0	Mm.34460	NM_022430	ENSMUSG00000024730	Ms4a8a	2010004L09Rik|AI481240|CD20L5|Ms4a8	membrane-spanning 4-domains, subfamily A, member 8A	protein-coding	40.0	33.5	27.0	462.5	39.5	21.5	10.0	23.5
Merged-chr16-21695500-4	chr16	21695468	21695668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001881)	promoter-TSS (NM_001001881)	-903.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	22.0	40.0	36.5	293.5	60.0	23.0	14.5	12.5
Merged-chr14-70883006-4	chr14	70882891	70883091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7116.0	NM_001302095	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	62.0	120.5	70.0	574.0	282.5	110.0	117.0	72.0
Merged-chr8-45410284-4	chr8	45410182	45410382	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357316)	promoter-TSS (NM_001357316)	98.0	NM_001357316	142980.0	Mm.33874	NM_126166	ENSMUSG00000031639	Tlr3	AI957183	toll-like receptor 3	protein-coding	30.0	29.5	24.0	355.5	61.0	13.0	12.5	22.0
Merged-chr14-20798946-4	chr14	20798852	20799052	+	902.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4713.0	NR_153779	102631887.0	Mm.122292	NR_153779	ENSMUSG00000114241	Gm30108	-	predicted gene, 30108	ncRNA	10.0	23.5	13.5	307.5	47.0	13.5	19.5	19.0
Merged-chr9-53384503-4	chr9	53384383	53384583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212445, intron 1 of 7)	CpG	460.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	52.5	47.5	85.5	863.0	101.0	33.5	51.5	40.0
Merged-chr1-131017357-4	chr1	131017258	131017458	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2487.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	18.5	37.5	22.0	145.5	55.5	24.0	22.0	16.5
Merged-chr11-103374112-4	chr11	103374005	103374205	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 7 of 11)	intron (NM_183034, intron 7 of 11)	-10413.0	NM_001205236	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	13.0	9.5	12.5	393.5	16.5	6.0	20.5	19.0
Merged-chr19-40650286-4	chr19	40650194	40650394	+	983.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	L1MC3|LINE|L1	-9476.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	31.0	28.0	33.0	480.5	48.5	12.0	25.0	16.0
Merged-chr12-36190570-4	chr12	36190467	36190667	+	928.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146033, intron 7 of 9)	intron (NM_146033, intron 7 of 9)	27651.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	18.0	33.0	28.0	510.0	25.5	11.5	22.5	15.0
Merged-chr1-89455647-4	chr1	89455554	89455754	+	860.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	CpG	843.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	5.5	16.5	10.0	107.0	26.0	6.5	7.5	10.5
Merged-chr9-107626883-3	chr9	107626751	107626951	+	876.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008138, intron 1 of 8)	intron (NM_008138, intron 1 of 8)	8491.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	2.5	8.5	5.5	29.5	17.5	9.0	10.5	10.5
Merged-chr12-85533227-4	chr12	85533116	85533316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59326.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	148.5	226.0	135.5	1465.5	283.0	111.0	134.0	89.5
Merged-chr2-13597188-3	chr2	13597085	13597285	+	838.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22874.0	NM_011701	22352.0	Mm.268000	NM_011701	ENSMUSG00000026728	Vim	-	vimentin	protein-coding	4.5	14.5	7.5	75.0	7.5	1.0	9.5	2.0
Merged-chr11-68851233-2	chr11	68851133	68851333	+	641.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023668, intron 1 of 8)	intron (NM_023668, intron 1 of 8)	1898.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	5.5	6.0	4.5	38.5	14.0	4.5	2.0	6.5
Merged-chr15-86277559-4	chr15	86277445	86277645	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358062)	promoter-TSS (NM_001358062)	-130.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	21.5	34.0	17.5	459.5	47.5	15.0	29.0	23.5
Merged-chr11-50161738-3	chr11	50161612	50161812	+	856.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029745, intron 16 of 20)	intron (NM_029745, intron 16 of 20)	-13139.0	NM_026543	68067.0	Mm.40828	NM_026543	ENSMUSG00000020381	Mrnip	2900016G09Rik|3010026O09Rik|AI851514|AW475975	MRN complex interacting protein	protein-coding	9.0	9.5	5.5	52.0	32.5	9.5	5.0	9.5
Merged-chr16-31803882-4	chr16	31803796	31803996	+	968.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357281, intron 8 of 22)	intron (NM_001357281, intron 8 of 22)	49546.0	NM_001252436	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	15.5	24.5	9.0	241.5	51.0	7.0	6.5	17.0
Merged-chr6-66357240-3	chr6	66357146	66357346	+	835.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84741.0	NR_136927	102633773.0	Mm.272086	NR_136927	ENSMUSG00000107653	Gm31520	-	sterol-C5-desaturase pseudogene	pseudo	2.0	8.5	3.0	129.0	18.0	7.0	13.5	18.0
Merged-chr2-62630653-4	chr2	62630544	62630744	+	887.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164477, intron 2 of 14)	intron (NM_001164477, intron 2 of 14)	15611.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	12.5	15.0	8.0	126.0	35.0	13.0	18.5	8.0
Merged-chr2-60883119-4	chr2	60883007	60883207	+	725.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-1669.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	9.0	4.0	8.0	43.5	19.0	6.0	6.0	10.5
Merged-chr17-67263056-4	chr17	67262959	67263159	+	976.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	91400.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	13.0	21.0	15.0	246.5	70.5	19.0	23.5	37.5
Merged-chr5-21355048-5	chr5	21354930	21355130	+	782.4571530000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	-17643.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	11.5	5.0	7.0	104.0	16.0	4.5	4.5	9.5
Merged-chr15-12010538-4	chr15	12010474	12010674	+	988.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14567.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	19.5	18.5	27.0	261.5	40.0	17.5	13.5	20.5
Merged-chr18-74961333-4	chr18	74961238	74961438	+	923.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010720)	promoter-TSS (NM_010720)	-75.0	NM_010720	16891.0	Mm.299647	NM_010720	ENSMUSG00000053846	Lipg	3110013K01Rik|EL|lipase|mEDL	lipase, endothelial	protein-coding	15.0	19.5	13.5	203.5	43.0	6.5	13.0	8.0
Merged-chr10-128213111-6	chr10	128213034	128213234	+	820.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1340.0	NM_025716	66701.0	Mm.29694	NM_025716	ENSMUSG00000051346	Spryd4	4633402N23Rik|AA114801	SPRY domain containing 4	protein-coding	4.0	14.5	7.0	90.0	18.5	11.5	6.0	12.0
Merged-chr19-56681419-4	chr19	56681219	56681419	+	917.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41053.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	13.0	8.0	1.0	12.5	12.0	10.5	11.5	13.5
Merged-chr11-17183407-3	chr11	17183300	17183500	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 2 of 5)	ORR1C1|LTR|ERVL-MaLR	24102.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	8.0	13.5	6.0	105.0	8.0	8.0	2.0	1.0
Merged-chr9-99109343-4	chr9	99109247	99109447	+	794.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 2 of 23)	intron (NM_029094, intron 2 of 23)	30864.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	8.0	7.5	10.0	180.0	27.5	9.5	13.5	15.5
Merged-chr2-27306911-3	chr2	27306812	27307012	+	943.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 3 of 29)	L1MD|LINE|L1	-59609.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	11.0	7.0	8.5	162.0	21.5	2.5	5.5	8.5
Merged-chr13-6836936-4	chr13	6836861	6837061	+	840.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-188190.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	6.0	4.5	7.5	124.0	28.5	5.0	8.0	8.5
Merged-chr8-75213094-4	chr8	75213032	75213232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029182)	promoter-TSS (NM_029182)	-812.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	109.0	92.0	90.5	1533.0	190.5	57.5	95.0	68.0
Merged-chr3-152763554-6	chr3	152763415	152763615	+	939.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025662, intron 9 of 10)	Lx8|LINE|L1	49415.0	NM_025662	329777.0	Mm.331447	NM_025662	ENSMUSG00000039047	Pigk	3000001O05Rik|Gm38470|PIG-K	phosphatidylinositol glycan anchor biosynthesis, class K	protein-coding	5.5	10.5	4.0	138.5	12.0	6.5	6.0	16.0
Merged-chr5-31054774-4	chr5	31054584	31054784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023525)	promoter-TSS (NM_023525)	-96.0	NM_023525	69719.0	Mm.305535	NM_023525	ENSMUSG00000013629	Cad	2410008J01Rik|AU018859|Cpad	carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase	protein-coding	45.5	56.5	29.0	630.0	90.5	50.5	55.0	36.5
Merged-chr1-93014629-4	chr1	93014536	93014736	+	878.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001110315)	TTS (NM_001110315)	8302.0	NM_177587	208760.0	Mm.235537	NM_177587	ENSMUSG00000045091	Aqp12	AB084104|mAQP12	aquaporin 12	protein-coding	9.0	11.5	15.0	153.5	42.5	15.0	25.5	14.0
Merged-chr7-99101212-3	chr7	99101138	99101338	+	883.2333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 3 of 14)	intron (NM_178635, intron 3 of 14)	39906.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	10.0	4.0	11.0	119.0	17.5	6.0	13.0	11.0
Merged-chr12-110419019-4	chr12	110418972	110419172	+	831.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-28107.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	4.0	10.5	6.5	33.5	11.0	5.0	6.0	12.5
Merged-chr2-102682355-1	chr2	102682255	102682455	+	846.0	f0_c57.idr	intron (NM_001077514, intron 1 of 10)	intron (NM_001077514, intron 1 of 10)	23666.0	NM_001361018	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	11.5	2.0	1.0	38.5	31.5	9.0	18.0	16.5
Merged-chr12-3235386-4	chr12	3235299	3235499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015551)	promoter-TSS (NR_015551)	-392.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	137.5	213.0	107.5	1594.0	341.0	123.0	141.0	108.0
Merged-chr3-69005935-4	chr3	69005830	69006030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356976, intron 1 of 23)	CpG	1192.0	NM_133786	70099.0	Mm.206841	NM_133786	ENSMUSG00000034349	Smc4	2500002A22Rik|C79747|SMC-4|Smc4l1	structural maintenance of chromosomes 4	protein-coding	51.5	99.5	56.0	610.0	179.5	68.0	67.0	51.5
Merged-chr5-43185006-4	chr5	43184913	43185113	+	965.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	ORR1E|LTR|ERVL-MaLR	-48450.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	8.5	20.5	14.0	304.5	40.5	9.0	22.0	18.5
Merged-chr6-125302313-1	chr6	125302213	125302413	+	589.0	f0_balb.idr	Intergenic	Intergenic	11572.0	NM_010736	17000.0	Mm.3122	NM_010736	ENSMUSG00000030339	Ltbr	AI256028|LTbetaR|Ltar|TNF-R-III|TNFCR|TNFR-RP|TNFR2-RP|TNFRrp|Tnfbr|Tnfrsf3	lymphotoxin B receptor	protein-coding	8.5	7.5	2.0	110.0	10.5	7.0	10.0	8.0
Merged-chr14-64809951-4	chr14	64809860	64810060	+	830.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139897.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	10.5	16.0	9.5	117.5	29.5	4.5	26.5	14.5
Merged-chr2-117120721-6	chr2	117120597	117120797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033524)	promoter-TSS (NM_033524)	-374.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	55.5	86.0	55.5	618.5	127.0	61.5	51.5	62.0
Merged-chr3-78919674-4	chr3	78919581	78919781	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	225206.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	28.0	22.5	15.5	348.5	68.0	17.0	26.0	19.0
Merged-chr4-55630447-3	chr4	55630342	55630542	+	922.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97967.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	21.5	15.5	20.0	295.5	15.5	9.0	11.5	10.5
Merged-chr2-6178617-3	chr2	6178524	6178724	+	831.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14627.0	NR_040333	320132.0	Mm.445891	NR_040333	ENSMUSG00000087125	A230108P19Rik	-	RIKEN cDNA A230108P19 gene	ncRNA	8.0	25.0	15.0	119.5	16.5	3.0	2.5	7.0
Merged-chr13-45089259-1	chr13	45089159	45089359	+	564.0	f0_c57.idr	Intergenic	Intergenic	-87163.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	7.0	13.0	6.5	66.0	19.5	14.5	9.5	13.0
Merged-chr13-98890484-4	chr13	98890360	98890560	+	835.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 2 of 23)	intron (NM_178716, intron 2 of 23)	582.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	12.5	29.0	17.5	336.5	23.5	13.5	12.5	8.5
Merged-chr6-116193097-4	chr6	116193038	116193238	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	CpG	236.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	25.5	20.5	17.5	221.5	43.0	18.5	13.5	14.0
Merged-chr3-41366991-1	chr3	41366891	41367091	+	993.1666869999999	f0_balb.idr	Intergenic	Intergenic	126208.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	17.5	19.0	21.0	481.0	3.0	0.0	1.5	6.5
Merged-chr5-91308101-3	chr5	91307995	91308195	+	798.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25019.0	NR_040428	100503265.0	Mm.125059	NR_040428	ENSMUSG00000107198	Gm19619	-	predicted gene, 19619	ncRNA	11.5	13.5	8.5	159.0	23.0	12.0	6.0	6.5
Merged-chr11-44504333-4	chr11	44504282	44504482	+	981.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14582.0	NM_028862	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	28.5	38.5	12.5	72.0	73.0	28.5	10.0	19.0
Merged-chr18-53862885-4	chr18	53862784	53862984	+	921.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 1 of 12)	CpG	771.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	10.5	17.0	18.5	173.5	31.5	13.5	25.0	19.5
Merged-chr12-98274048-4	chr12	98273935	98274135	+	864.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008152, intron 1 of 1)	intron (NM_008152, intron 1 of 1)	5400.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	14.0	9.0	13.5	143.0	17.0	0.5	6.5	17.5
Merged-chr5-122207913-3	chr5	122207812	122208012	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1817.0	NM_001042489	74096.0	Mm.28804	NM_028752	ENSMUSG00000064267	Hvcn1	0610039P13Rik|AI450555|BTS|HV1|Vsop.|mVSOP	hydrogen voltage-gated channel 1	protein-coding	5.5	22.0	13.0	23.5	8.5	6.0	8.5	3.0
Merged-chr12-73905198-3	chr12	73905106	73905306	+	909.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313920, intron 1 of 14)	intron (NM_001313920, intron 1 of 14)	-2661.0	NM_010431	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	9.5	7.5	14.0	149.0	16.0	8.0	6.5	7.0
Merged-chr11-103359859-4	chr11	103359759	103359959	+	909.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_183288, exon 3 of 3)	3' UTR (NM_183288, exon 3 of 3)	3833.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	15.0	11.0	11.0	289.0	36.0	10.0	15.0	15.0
Merged-chr9-116079346-4	chr9	116079256	116079456	+	843.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96007.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	25.5	21.0	20.0	272.0	29.5	11.0	9.5	22.0
Merged-chr7-29214557-3	chr7	29214464	29214664	+	706.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164658)	promoter-TSS (NM_001164658)	-531.0	NM_001164658	320225.0	Mm.349382	NM_001039721	ENSMUSG00000049676	Catsperg1	A230107C01Rik|Catsperg	cation channel sperm associated auxiliary subunit gamma 1	protein-coding	7.0	21.5	3.0	45.0	30.5	7.5	13.5	4.5
Merged-chr2-91924229-4	chr2	91924117	91924317	+	862.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007699, intron 1 of 1)	intron (NM_007699, intron 1 of 1)	2028.0	NM_007699	12672.0	Mm.330405	NM_007699	ENSMUSG00000040495	Chrm4	Chrm-4|M4	cholinergic receptor, muscarinic 4	protein-coding	16.5	12.5	1.5	78.0	31.0	4.5	14.0	19.5
Merged-chr2-52955280-4	chr2	52955170	52955370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	97402.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	355.5	582.5	344.5	5074.0	712.0	279.0	405.0	263.0
Merged-chr16-49856422-2	chr16	49856322	49856522	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 1 of 9)	intron (NM_010581, intron 1 of 9)	768.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	22.5	35.0	26.5	329.0	47.0	17.0	17.0	19.5
Merged-chr18-57845285-4	chr18	57845167	57845367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33411.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	43.5	44.0	34.0	790.0	120.5	42.0	28.5	39.0
Merged-chr16-55757336-4	chr16	55757232	55757432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64806.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	81.0	90.0	79.5	1018.0	201.0	67.0	63.0	55.0
Merged-chr17-66096920-4	chr17	66096834	66097034	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028388, intron 1 of 7)	intron (NM_028388, intron 1 of 7)	4625.0	NM_001278415	72900.0	Mm.2206	NM_028388	ENSMUSG00000024099	Ndufv2	2900010C23Rik	NADH dehydrogenase (ubiquinone) flavoprotein 2	protein-coding	10.5	10.5	6.5	113.5	23.0	6.0	8.5	14.0
Merged-chr8-125199448-4	chr8	125199363	125199563	+	934.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 9 of 12)	intron (NM_174854, intron 9 of 12)	145268.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	29.5	51.5	13.0	260.0	40.5	9.5	15.0	7.5
Merged-chr18-80738364-4	chr18	80738255	80738455	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001201569, intron 28 of 29)	intron (NM_001201569, intron 28 of 29)	-25284.0	NM_001164110	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	48.5	63.5	56.5	1227.5	42.5	14.0	36.0	25.5
Merged-chr10-127662256-4	chr10	127662173	127662373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122895, intron 5 of 5)	intron (NM_001122895, intron 5 of 5)	4430.0	NM_001122895	17937.0	Mm.336898	NM_008668	ENSMUSG00000025402	Nab2	AI451907	Ngfi-A binding protein 2	protein-coding	60.0	72.0	45.0	748.0	126.0	60.0	72.5	69.0
Merged-chr13-43769108-4	chr13	43769005	43769205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-16007.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	97.5	137.0	131.5	1512.5	241.0	75.0	142.5	68.5
Merged-chr16-10873864-4	chr16	10873782	10873982	+	889.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38823.0	NM_001162932	223970.0	Mm.325777	NM_001033278	ENSMUSG00000037991	Rmi2	A630055G03Rik|Gm537|Gm929	RecQ mediated genome instability 2	protein-coding	12.5	21.0	15.0	166.5	19.5	7.0	8.0	14.5
Merged-chr11-63045992-4	chr11	63045900	63046100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15659.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	45.0	74.5	55.0	790.0	129.5	43.5	63.5	61.0
Merged-chr2-155019908-2	chr2	155019808	155020008	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_015770, intron 1 of 3)	ERVB4_1-I_MM-int|LTR|ERVK	6338.0	NM_015770	50518.0	Mm.315593	NM_015770	ENSMUSG00000027596	a	A<y>|ASIP|ASP|As	nonagouti	protein-coding	6.5	6.0	6.5	74.0	11.0	7.5	3.5	6.0
Merged-chr6-119472398-3	chr6	119472294	119472494	+	611.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 1 of 4)	ERVL-int|LTR|ERVL	-5183.0	NM_001271758	22419.0	Mm.321818	NM_009525	ENSMUSG00000030170	Wnt5b	AW545702|Wnt-5b	wingless-type MMTV integration site family, member 5B	protein-coding	10.0	12.5	3.5	38.5	28.0	6.5	9.5	5.5
Merged-chr6-83795081-4	chr6	83794971	83795171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019542)	promoter-TSS (NM_019542)	14.0	NM_019542	56174.0	Mm.190650	NM_019542	ENSMUSG00000034744	Nagk	Gnk	N-acetylglucosamine kinase	protein-coding	123.5	266.5	126.5	2084.5	374.0	151.0	160.5	180.0
Merged-chr10-17691852-3	chr10	17691738	17691938	+	993.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-31390.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	15.5	5.0	7.0	157.0	9.5	5.0	4.0	3.0
Merged-chr13-67173173-4	chr13	67173080	67173280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013769)	promoter-TSS (NM_001013769)	-2.0	NM_001013769	380855.0	Mm.284988	NM_001013769	ENSMUSG00000058900	Rsl1	rslcan-9	regulator of sex limited protein 1	protein-coding	68.5	89.0	70.0	657.0	298.5	89.0	151.0	88.5
Merged-chr9-25486464-4	chr9	25486364	25486564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	4867.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	106.0	158.5	129.0	2483.5	245.0	80.0	128.5	70.0
Merged-chr10-118012146-4	chr10	118012065	118012265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86706.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	56.5	69.5	58.0	951.5	145.5	49.5	53.5	87.5
Merged-chr1-186749402-4	chr1	186749330	186749530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026041)	promoter-TSS (NM_026041)	-72.0	NM_026041	67223.0	Mm.289841	NM_026041	ENSMUSG00000001305	Rrp15	2810430M08Rik|5430437H21Rik	ribosomal RNA processing 15 homolog (S. cerevisiae)	protein-coding	79.0	117.5	69.0	1566.5	165.0	58.5	89.5	45.0
Merged-chr1-65177163-4	chr1	65177061	65177261	+	954.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111320, intron 1 of 8)	intron (NM_001111320, intron 1 of 8)	1981.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	14.5	20.0	13.0	206.0	41.5	20.5	14.5	10.5
Merged-chr2-131171588-3	chr2	131171485	131171685	+	983.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027641, exon 7 of 7)	3' UTR (NM_027641, exon 7 of 7)	3225.0	NM_027641	70997.0	Mm.252722	NM_027641	ENSMUSG00000027329	Spef1	4931426K16Rik|Clamp	sperm flagellar 1	protein-coding	38.0	34.5	16.5	506.5	1.0	0.0	0.0	2.0
Merged-chr4-132505475-4	chr4	132505381	132505581	+	963.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144907, intron 1 of 9)	intron (NM_144907, intron 1 of 9)	4975.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	18.0	19.5	38.5	296.0	55.5	15.0	18.0	22.5
Merged-chr8-108714568-8	chr8	108714474	108714674	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007496)	promoter-TSS (NM_007496)	-70.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	7.5	17.0	19.0	257.5	34.0	10.0	10.0	19.0
Merged-chr4-135241873-4	chr4	135241774	135241974	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 1 of 5)	intron (NM_013885, intron 1 of 5)	30886.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	20.0	10.5	4.5	167.5	45.0	9.0	7.5	4.5
Merged-chr14-104868318-4	chr14	104868213	104868413	+	873.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015593, intron 2 of 5)	intron (NR_015593, intron 2 of 5)	229166.0	NR_015593	320249.0	Mm.320725	NR_015593	ENSMUSG00000115432	D130009I18Rik	-	RIKEN cDNA D130009I18 gene	ncRNA	11.0	16.5	21.0	226.0	71.5	12.0	13.0	9.5
Merged-chr11-116096583-4	chr11	116096462	116096662	+	896.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-9567.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	20.0	12.0	13.0	210.0	46.5	10.5	10.5	35.5
Merged-chr9-72968572-4	chr9	72968403	72968603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163725, intron 4 of 6)	intron (NM_001163725, intron 4 of 6)	9718.0	NM_001163725	67685.0	Mm.31817	NM_026314	ENSMUSG00000092192	Dyx1c1	1700010I24Rik|Dnaaf4|EKN1|b2b811.1Clo|b2b811Clo	dyslexia susceptibility 1 candidate 1	protein-coding	61.0	99.5	43.5	933.5	139.5	58.5	62.5	53.5
Merged-chr5-129008590-4	chr5	129008488	129008688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007941)	promoter-TSS (NM_007941)	-16.0	NM_007941	13852.0	Mm.260716	NM_007941	ENSMUSG00000029428	Stx2	AW538950|Epim|G1-536-1|Syn-2|repro34	syntaxin 2	protein-coding	86.5	102.5	100.0	1265.0	190.5	65.0	95.5	76.5
Merged-chr17-10703564-2	chr17	10703445	10703645	+	719.0	f0_balb.idr|f1_balb.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	136646.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	13.0	5.5	13.0	147.5	0.0	0.5	1.5	1.5
Merged-chr4-41756162-4	chr4	41756015	41756215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302511)	promoter-TSS (NM_001302511)	-95.0	NM_001302511	14430.0	Mm.439669	NM_016658	ENSMUSG00000036073	Galt	AW553376	galactose-1-phosphate uridyl transferase	protein-coding	21.5	38.5	22.5	284.0	56.0	22.5	28.0	32.5
Merged-chr4-47347230-4	chr4	47347122	47347322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6000.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	54.5	68.5	68.0	894.5	107.5	38.0	53.0	48.0
Merged-chr16-90744715-3	chr16	90744562	90744762	+	574.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029844, intron 1 of 2)	intron (NM_029844, intron 1 of 2)	6338.0	NM_029844	77037.0	Mm.22455	NM_029844	ENSMUSG00000039956	Mrap	1110025G12Rik|C21ORF61|Falp|ORF61	melanocortin 2 receptor accessory protein	protein-coding	6.0	5.0	6.5	87.5	8.5	4.0	3.5	5.0
Merged-chr9-89211443-3	chr9	89211321	89211521	+	731.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359993)	promoter-TSS (NM_001359993)	37.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	4.5	12.0	4.0	53.5	10.5	6.0	8.5	8.0
Merged-chr19-46392300-4	chr19	46392182	46392382	+	689.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016860, intron 1 of 10)	B3|SINE|B2	3453.0	NM_016860	54130.0	Mm.3118	NM_016860	ENSMUSG00000025228	Actr1a	Arp1|alpha-Arp1	ARP1 actin-related protein 1A, centractin alpha	protein-coding	8.0	6.0	12.0	88.0	29.5	9.0	14.0	8.5
Merged-chr4-115828031-4	chr4	115827937	115828137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175308)	promoter-TSS (NM_175308)	-55.0	NM_175308	100465.0	Mm.35571	NM_175308	ENSMUSG00000028709	Mob3c	AW822253|D130076I06Rik|Mobkl2c	MOB kinase activator 3C	protein-coding	52.5	69.0	45.0	671.5	160.5	39.0	72.5	66.0
Merged-chr10-86685505-4	chr10	86685407	86685607	+	971.65625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015572)	promoter-TSS (NR_015572)	-20.0	NR_015572	66263.0	Mm.392261	NR_015572	ENSMUSG00000097412	1810014B01Rik	-	RIKEN cDNA 1810014B01 gene	pseudo	13.0	25.5	9.5	197.5	43.5	24.5	14.0	24.0
Merged-chr11-118483500-4	chr11	118483390	118483590	+	964.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153103, intron 7 of 13)	intron (NR_153103, intron 7 of 13)	6658.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	28.5	51.0	21.0	493.5	47.0	11.5	18.5	37.5
Merged-chr7-116231405-3	chr7	116231305	116231505	+	950.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305185, intron 3 of 26)	intron (NM_001305185, intron 3 of 26)	6371.0	NM_001305186	233765.0	Mm.3741	NM_172743	ENSMUSG00000045659	Plekha7	A430081P20Rik|AI414265	pleckstrin homology domain containing, family A member 7	protein-coding	22.0	22.5	15.5	178.5	8.5	7.0	7.0	7.5
Merged-chr1-152540717-4	chr1	152540636	152540836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 9 of 17)	intron (NM_016846, intron 9 of 17)	84481.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	78.0	187.0	91.5	1454.5	271.5	101.0	70.0	98.0
Merged-chr12-118930741-4	chr12	118930648	118930848	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029961, intron 11 of 27)	intron (NM_029961, intron 11 of 27)	35673.0	NM_029961	77706.0	Mm.261496	NM_029961	ENSMUSG00000072791	Abcb5	9230106F14Rik	ATP-binding cassette, sub-family B (MDR/TAP), member 5	protein-coding	9.0	27.0	13.0	334.5	65.5	15.0	25.5	18.5
Merged-chr9-16038750-3	chr9	16038655	16038855	+	937.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 3 of 24)	intron (NM_001080814, intron 3 of 24)	-164199.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	26.0	46.5	31.0	726.5	10.0	4.5	11.5	5.0
Merged-chr6-88861166-4	chr6	88861068	88861268	+	990.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347327, intron 2 of 7)	ORR1E|LTR|ERVL-MaLR	12876.0	NM_176973	319655.0	Mm.302613	NM_176973	ENSMUSG00000033152	Podxl2	D130074J02Rik|PODLX2	podocalyxin-like 2	protein-coding	19.5	32.0	17.5	195.5	57.0	20.5	17.5	22.5
Merged-chr10-81135256-6	chr10	81135142	81135342	+	918.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAAA)n|Simple_repeat|Simple_repeat	-1029.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	8.5	8.5	6.5	81.0	31.0	10.5	15.0	14.5
Merged-chr4-43975069-4	chr4	43974970	43975170	+	913.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 4 of 4)	intron (NM_027450, intron 4 of 4)	-8434.0	NM_001002787	442829.0	Mm.348215	NM_001002787	ENSMUSG00000070999	Ccin	4933417A14Rik	calicin	protein-coding	21.0	18.5	6.0	182.0	16.5	14.0	11.0	10.5
Merged-chr2-28585376-4	chr2	28585276	28585476	+	897.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2097.0	NM_001290484	70239.0	Mm.274120	NM_148928	ENSMUSG00000026816	Gtf3c5	2700084A09Rik|TFIIIC63|TFiiiC2-63	general transcription factor IIIC, polypeptide 5	protein-coding	13.0	25.5	6.5	150.0	44.5	11.0	17.0	17.5
Merged-chr4-133625019-3	chr4	133624890	133625090	+	860.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 2 of 7)	intron (NM_001017968, intron 2 of 7)	8439.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	27.5	40.0	21.0	399.0	0.0	1.0	0.5	0.0
Merged-chr6-43637397-4	chr6	43637285	43637485	+	848.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	intron (NM_013861, intron 2 of 8)	28893.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	12.5	12.0	7.5	37.5	21.0	6.5	8.5	5.0
Merged-chr11-115692181-4	chr11	115692061	115692261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	7373.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	59.5	100.0	47.0	1016.5	144.0	41.5	68.5	62.0
Merged-chr8-119838535-4	chr8	119838444	119838644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	ID_B1|SINE|B4	2035.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	62.5	98.5	62.0	808.5	192.0	61.0	84.0	59.0
Merged-chr13-74208654-4	chr13	74208561	74208761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177333)	promoter-TSS (NM_177333)	39.0	NM_177333	211446.0	Mm.261859	NM_177333	ENSMUSG00000034152	Exoc3	2810050O03Rik|E430013E20Rik|Sec6|Sec6l1	exocyst complex component 3	protein-coding	119.5	140.0	105.0	2115.0	220.0	114.5	148.5	116.5
Merged-chr10-41960037-4	chr10	41959927	41960127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 10 of 17)	intron (NM_001034858, intron 10 of 17)	58355.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	33.5	32.5	19.5	461.5	65.5	28.0	20.0	22.5
Merged-chr6-30460084-4	chr6	30459978	30460178	+	872.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131049)	promoter-TSS (NR_131049)	-907.0	NR_131049	69337.0	Mm.396168	NR_131049	ENSMUSG00000085470	1700012C14Rik	-	RIKEN cDNA 1700012C14 gene	ncRNA	22.0	30.0	18.0	204.5	56.5	10.0	28.5	13.5
Merged-chr13-34572621-2	chr13	34572521	34572721	+	627.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80060.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	0.0	11.0	1.5	8.0	16.0	9.0	6.5	5.5
Merged-chr18-75503553-4	chr18	75503474	75503674	+	991.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 9 of 11)	intron (NM_201354, intron 9 of 11)	-11071.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	44.5	45.5	60.0	730.0	48.5	17.5	31.5	36.5
Merged-chr12-52783164-3	chr12	52783082	52783282	+	836.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198111, intron 1 of 13)	intron (NM_198111, intron 1 of 13)	83799.0	NM_198111	238161.0	Mm.310822	NM_198111	ENSMUSG00000061603	Akap6	AI482140|Akapalpha|Akapbeta|PRKA	A kinase (PRKA) anchor protein 6	protein-coding	9.5	12.0	15.5	134.0	4.0	5.5	1.5	5.0
Merged-chr12-24630415-4	chr12	24630304	24630504	+	858.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20967.0	NM_178357	194655.0	Mm.9616	NM_178357	ENSMUSG00000020653	Klf11	9830142A17|D12Ertd427e|Tieg2|Tieg2b|Tieg3	Kruppel-like factor 11	protein-coding	11.5	12.0	15.0	181.5	39.5	17.5	18.5	4.5
Merged-chr3-88513726-8	chr3	88513603	88513803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10351.0	NM_001002011	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	25.0	26.5	19.0	192.5	37.5	16.0	20.5	15.0
Merged-chr6-149315083-4	chr6	149314974	149315174	+	819.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026054, intron 2 of 4)	intron (NM_026054, intron 2 of 4)	5660.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	2.0	5.5	2.0	109.0	38.5	12.5	9.5	6.0
Merged-chr10-53374369-4	chr10	53374271	53374471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204983, intron 1 of 12)	L2a|LINE|L2	5480.0	NM_001204983	100038725.0	Mm.441403	NM_001204983	ENSMUSG00000038594	Cep85l	Gm9766	centrosomal protein 85-like	protein-coding	22.5	18.5	23.0	565.5	46.0	15.0	31.5	17.5
Merged-chr5-115490089-6	chr5	115490050	115490250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5666.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	49.0	121.5	72.0	591.0	130.5	59.0	39.0	69.5
Merged-chr1-85987427-4	chr1	85987324	85987524	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-26369.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	19.0	24.0	14.0	242.0	127.0	32.0	44.5	36.5
Merged-chr17-78417777-4	chr17	78417688	78417888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 1 of 9)	CpG	364.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	80.5	114.0	94.0	1268.0	237.0	103.0	150.0	88.0
Merged-chr8-4162838-2	chr8	4162721	4162921	+	905.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3746.0	NM_001039578	213027.0	Mm.437106	NM_153536	ENSMUSG00000011832	Evi5l	1700084G18Rik|2310039H16Rik|3110007G05Rik|B130050I23Rik	ecotropic viral integration site 5 like	protein-coding	3.5	2.5	0.0	46.0	20.0	5.5	7.0	4.5
Merged-chr2-75720138-2	chr2	75720038	75720238	+	906.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-15475.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	3.5	3.5	9.0	20.0	13.0	4.5	8.0	5.5
Merged-chr8-105455463-4	chr8	105455336	105455536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033371, intron 7 of 10)	intron (NM_001033371, intron 7 of 10)	15986.0	NM_026481	67971.0	Mm.29358	NM_026481	ENSMUSG00000014846	Tppp3	2700055K07Rik|CGI-38|Ceacam9|mmCGM8	tubulin polymerization-promoting protein family member 3	protein-coding	49.0	75.0	53.0	925.5	103.0	28.5	46.0	35.5
Merged-chr3-108018583-1	chr3	108018483	108018683	+	710.666687	f0_balb.idr	promoter-TSS (NM_010358)	promoter-TSS (NM_010358)	-610.0	NM_010358	14862.0	Mm.37199	NM_010358	ENSMUSG00000058135	Gstm1	Gstb-1|Gstb1	glutathione S-transferase, mu 1	protein-coding	10.0	17.0	7.5	87.5	9.5	9.0	3.5	11.0
Merged-chr7-45447640-6	chr7	45447485	45447685	+	770.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030678, intron 10 of 15)	intron (NM_030678, intron 10 of 15)	12301.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	10.0	7.0	0.5	62.0	16.5	8.0	6.5	9.0
Merged-chr13-47215592-4	chr13	47215499	47215699	+	867.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 2 of 7)	intron (NM_146042, intron 2 of 7)	21596.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	19.0	18.5	12.0	240.0	27.5	5.5	11.0	11.0
Merged-chr13-111418216-4	chr13	111418098	111418298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	71929.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	18.5	25.0	28.0	483.5	48.0	22.5	27.0	56.0
Merged-chr11-106920815-4	chr11	106920602	106920802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025481)	promoter-TSS (NM_025481)	13.0	NM_025481	66313.0	Mm.340955	NM_025481	ENSMUSG00000018363	Smurf2	2810411E22Rik|AI558114|AI649275	SMAD specific E3 ubiquitin protein ligase 2	protein-coding	50.0	76.0	62.5	406.5	114.5	48.5	38.0	37.0
Merged-chr13-113508501-4	chr13	113508420	113508620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-5676.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	55.5	54.0	64.0	1065.5	111.5	37.0	51.5	50.5
Merged-chr4-149586364-2	chr4	149586264	149586464	+	997.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290989)	promoter-TSS (NM_001290989)	-104.0	NM_001290989	65945.0	Mm.38993	NM_023051	ENSMUSG00000039953	Clstn1	1810034E21Rik|Cst-1|Cstn1	calsyntenin 1	protein-coding	6.5	12.5	7.0	62.0	17.0	6.0	5.5	5.0
Merged-chr7-33982473-3	chr7	33982385	33982585	+	849.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	31457.0	NM_001276475	233099.0	Mm.110829	NM_001100464	ENSMUSG00000066584	Scgb2b27	Abpbg27|Abpbg5|Scgb2b5	secretoglobin, family 2B, member 27	protein-coding	10.0	15.5	7.5	55.0	13.5	6.0	9.0	1.0
Merged-chr7-132929939-4	chr7	132929831	132930031	+	842.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1211.0	NM_207302	360216.0	Mm.389984	NM_207302	ENSMUSG00000030967	Zranb1	9330160G10Rik|D7Wsu87e|Gm1956|Trabid	zinc finger, RAN-binding domain containing 1	protein-coding	21.0	6.5	14.5	160.5	49.5	15.5	16.0	17.5
Merged-chr11-61533852-4	chr11	61533763	61533963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252188, intron 5 of 10)	intron (NM_001252188, intron 5 of 10)	28719.0	NM_001330781	27078.0	Mm.261226	NM_013717	ENSMUSG00000001039	B9d1	AW045994|B9|Eppb9	B9 protein domain 1	protein-coding	40.5	56.0	83.0	980.0	86.0	31.0	42.0	34.5
Merged-chr3-27198786-4	chr3	27198690	27198890	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	15786.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	23.5	18.5	7.5	178.5	44.0	7.5	12.0	33.5
Merged-chr1-131555320-4	chr1	131555223	131555423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27420.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	36.5	38.0	21.0	429.0	70.0	28.5	43.5	30.0
Merged-chr10-20060789-3	chr10	20060691	20060891	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 10 of 29)	intron (NM_008580, intron 10 of 29)	-88129.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	19.5	26.0	17.5	153.5	30.5	5.0	6.0	8.5
Merged-chr17-30112683-3	chr17	30112588	30112788	+	850.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356265, intron 2 of 5)	B4|SINE|B4	107649.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	5.0	5.0	8.0	162.5	33.0	2.0	5.0	11.0
Merged-chr15-80254407-4	chr15	80254324	80254524	+	799.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287180)	promoter-TSS (NM_001287180)	-760.0	NM_001287180	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	2.5	6.0	4.0	120.0	26.0	5.5	10.5	13.0
Merged-chr11-105590127-4	chr11	105590080	105590280	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_181071, exon 1 of 26)	5' UTR (NM_181071, exon 1 of 26)	194.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	11.5	12.0	14.0	61.5	28.0	3.0	12.0	18.5
Merged-chr6-122340594-4	chr6	122340479	122340679	+	947.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073364)	promoter-TSS (NR_073364)	-352.0	NM_001271579	13619.0	Mm.6822	NM_007905	ENSMUSG00000040669	Phc1	AW557034|Edr|Edr1|Mph1|Rae-28|rae28	polyhomeotic 1	protein-coding	23.5	16.5	11.0	377.0	62.5	17.0	18.0	39.5
Merged-chr2-124928097-4	chr2	124928008	124928208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140019.0	NM_175034	317750.0	Mm.330538	NM_175034	ENSMUSG00000035183	Slc24a5	F630045L20Rik|JSX|NCKX5|NCX5|Oca6	solute carrier family 24, member 5	protein-coding	71.0	108.0	57.5	1296.5	161.0	64.5	74.5	67.0
Merged-chr8-94955292-4	chr8	94955213	94955413	+	990.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-21796.0	NM_001198894	14766.0	Mm.290834	NM_018882	ENSMUSG00000031785	Adgrg1	Cyt28|Gpr56|TM7LN4|TM7XN1	adhesion G protein-coupled receptor G1	protein-coding	17.0	16.5	26.5	234.0	81.5	18.0	32.0	20.5
Merged-chr14-61774901-4	chr14	61774802	61775002	+	915.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-92529.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	23.0	9.0	16.5	245.5	30.5	5.0	18.5	17.5
Merged-chr4-95924465-4	chr4	95924357	95924557	+	906.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 15 of 15)	intron (NM_001113412, intron 15 of 15)	42578.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	8.5	7.0	9.5	200.0	47.0	11.0	30.0	39.5
Merged-chr7-51987076-4	chr7	51986994	51987194	+	899.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330607, intron 7 of 7)	intron (NM_001330607, intron 7 of 7)	18620.0	NR_027704	75744.0	Mm.386823	NM_001160345	ENSMUSG00000074093	Svip	1700006C13Rik|6620401M08Rik	small VCP/p97-interacting protein	protein-coding	12.5	21.0	20.5	291.5	21.0	10.0	14.0	10.5
Merged-chr8-15043027-4	chr8	15042944	15043144	+	774.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_037972, exon 2 of 2)	non-coding (NR_037972, exon 2 of 2)	3034.0	NR_037972	434285.0	Mm.334425	NM_001007591	ENSMUSG00000049008	BB014433	-	expressed sequence BB014433	ncRNA	13.0	5.0	10.0	112.5	19.5	3.5	11.0	7.0
Merged-chr15-27883058-4	chr15	27882966	27883166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 9 of 56)	intron (NM_001081302, intron 9 of 56)	142782.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	67.0	86.5	64.5	1078.5	169.5	56.0	78.5	74.5
Merged-chr14-120285301-4	chr14	120285197	120285397	+	901.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	9628.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	15.5	19.5	10.0	190.0	42.5	10.0	9.0	13.0
Merged-chr5-43094583-4	chr5	43094471	43094671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138892.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	36.5	57.5	41.5	1178.5	114.0	49.0	53.5	62.0
Merged-chr3-89233624-4	chr3	89233515	89233715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_183037)	TTS (NM_183037)	4559.0	NM_013605	17829.0	Mm.16193	NM_013605	ENSMUSG00000042784	Muc1	CD227|EMA|Muc-1	mucin 1, transmembrane	protein-coding	40.0	59.0	20.0	557.0	77.5	24.5	31.0	33.5
Merged-chr5-139282414-4	chr5	139282309	139282509	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	28912.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	23.5	36.0	12.5	209.5	83.0	18.5	24.0	37.0
Merged-chr8-10596463-4	chr8	10596330	10596530	+	954.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001319151, intron 33 of 34)	intron (NM_001319151, intron 33 of 34)	286024.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	9.0	22.5	22.0	398.0	44.5	8.5	18.0	18.5
Merged-chr11-89051956-2	chr11	89051866	89052066	+	811.099976	f0_c57.idr|f1_c57bl6.idr	intron (NM_019505, intron 3 of 10)	L1MB8|LINE|L1	8782.0	NM_019505	56077.0	Mm.153695	NM_019505	ENSMUSG00000000276	Dgke	C87606|DAGK6|DGK	diacylglycerol kinase, epsilon	protein-coding	1.0	10.0	9.0	87.0	41.5	10.0	18.5	15.5
Merged-chr1-93124227-3	chr1	93124123	93124323	+	819.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11017.0	NM_001276710	11611.0	Mm.7457	NM_016702	ENSMUSG00000026272	Agxt	AGT|Agt1|Agxt1|SPT	alanine-glyoxylate aminotransferase	protein-coding	11.5	11.5	22.0	390.5	12.0	2.0	7.5	5.5
Merged-chr9-7764789-4	chr9	7764698	7764898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152989, intron 1 of 5)	intron (NR_152989, intron 1 of 5)	633.0	NR_152989	71929.0	Mm.283293	NM_133739	ENSMUSG00000050912	Tmem123	2310075C12Rik	transmembrane protein 123	protein-coding	49.0	82.0	91.0	661.5	233.0	66.0	105.0	67.0
Merged-chr12-79646795-4	chr12	79646704	79646904	+	978.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	277929.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	29.5	54.5	52.5	209.5	58.0	33.0	11.5	28.0
Merged-chr17-33524110-4	chr17	33524002	33524202	+	967.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172619)	promoter-TSS (NM_172619)	17.0	NM_001329147	224697.0	Mm.29304	NM_172619	ENSMUSG00000024299	Adamts10	9430006O18|AW045948|Adam-ts10|Adamts-10|Znmp	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 10	protein-coding	23.0	37.0	13.5	298.0	56.0	24.0	20.5	18.0
Merged-chr1-191333585-2	chr1	191333470	191333670	+	661.25	f0_balb.idr|f0_c57.idr	intron (NM_025864, intron 2 of 7)	intron (NM_025864, intron 2 of 7)	7605.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	3.0	3.5	10.0	70.0	24.0	5.0	8.5	11.0
Merged-chr8-121585575-4	chr8	121585471	121585671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4897.0	NM_026160	67443.0	Mm.28357	NM_026160	ENSMUSG00000031812	Map1lc3b	1010001C15Rik|Atg8|LC3b|Map1lc3	microtubule-associated protein 1 light chain 3 beta	protein-coding	226.5	340.0	227.5	2820.0	532.0	233.0	227.5	207.5
Merged-chr14-33057739-4	chr14	33057654	33057854	+	960.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 36 of 58)	intron (NM_001146022, intron 36 of 58)	66372.0	NM_026253	67580.0	Mm.46115	NM_026253	ENSMUSG00000041673	Lrrc18	4930442L21Rik|MTLR1	leucine rich repeat containing 18	protein-coding	18.0	26.5	38.5	419.5	35.5	8.0	23.0	16.0
Merged-chr3-20295123-4	chr3	20295026	20295226	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19393.0	NM_029706	76703.0	Mm.34692	NM_029706	ENSMUSG00000011463	Cpb1	0910001A18Rik|1810063F02Rik|2210008M23Rik|AI504870	carboxypeptidase B1 (tissue)	protein-coding	45.0	14.0	38.0	740.0	61.5	23.5	26.5	30.0
Merged-chr3-105824405-4	chr3	105824279	105824479	+	818.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8812.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	9.0	10.0	11.5	125.5	26.0	6.0	6.0	8.5
Merged-chr12-112605959-2	chr12	112605859	112606059	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 10 of 22)	intron (NM_198411, intron 10 of 22)	-14088.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	4.5	12.5	8.0	58.5	19.5	1.5	15.0	4.5
Merged-chr8-106338082-4	chr8	106337996	106338196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021491)	promoter-TSS (NM_021491)	-108.0	NM_021491	58994.0	Mm.23298	NM_021491	ENSMUSG00000031906	Smpd3	4631433G07Rik|AI427456|AW537966|fro|nSMase2	sphingomyelin phosphodiesterase 3, neutral	protein-coding	207.5	310.0	211.0	3153.5	575.0	244.5	302.0	220.0
Merged-chr17-66101579-4	chr17	66101460	66101660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278415)	promoter-TSS (NM_001278415)	-1.0	NM_028388	72900.0	Mm.2206	NM_028388	ENSMUSG00000024099	Ndufv2	2900010C23Rik	NADH dehydrogenase (ubiquinone) flavoprotein 2	protein-coding	209.5	316.5	213.0	3416.5	467.0	179.0	288.5	179.5
Merged-chr9-57565810-4	chr9	57565708	57565908	+	955.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022813, intron 1 of 8)	intron (NM_022813, intron 1 of 8)	4864.0	NM_022813	24044.0	Mm.286069	NM_022813	ENSMUSG00000040188	Scamp2	AI875466|Sc2	secretory carrier membrane protein 2	protein-coding	28.0	29.5	18.0	337.5	25.5	16.5	21.5	23.5
Merged-chr14-30763142-4	chr14	30763037	30763237	+	924.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166531, intron 2 of 21)	MTD|LTR|ERVL-MaLR	47522.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	21.0	22.5	35.5	459.0	30.5	7.5	11.0	19.5
Merged-chr13-101685104-1	chr13	101685004	101685204	+	618.0	f0_balb.idr	intron (NM_001024955, intron 9 of 9)	intron (NM_001024955, intron 9 of 9)	7526.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	2.0	4.5	6.0	77.5	5.0	9.0	5.5	16.5
Merged-chr11-95852410-5	chr11	95852288	95852488	+	908.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6429.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	11.0	21.0	13.5	154.0	32.0	12.0	10.0	8.5
Merged-chr14-32812622-4	chr14	32812525	32812725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163616, intron 4 of 4)	intron (NM_001163616, intron 4 of 4)	-21337.0	NM_001164485	105511.0	Mm.32231	NM_001164485	ENSMUSG00000078127	Fam170b	4922501K12Rik|AI449756	family with sequence similarity 170, member B	protein-coding	31.5	50.0	15.0	501.0	50.0	18.0	23.5	7.5
Merged-chr5-99214667-4	chr5	99214570	99214770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38257.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	175.5	334.0	214.0	3411.5	461.0	194.5	181.0	164.0
Merged-chr2-45692973-4	chr2	45692887	45693087	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3618.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	25.0	13.0	25.0	452.0	21.0	11.5	14.5	14.0
Merged-chr9-24298413-4	chr9	24298323	24298523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175678, intron 6 of 9)	ORR1E|LTR|ERVL-MaLR	200405.0	NM_175678	319239.0	Mm.130824	NM_175678	ENSMUSG00000043659	Npsr1	9330128H10Rik|GPRA|Gpr154|MVTR|PGR14|VRR1	neuropeptide S receptor 1	protein-coding	47.0	61.5	76.0	1264.0	135.5	36.5	98.0	52.0
Merged-chr3-61442364-6	chr3	61442250	61442450	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77843.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	13.5	25.5	21.5	252.5	31.5	9.0	12.0	12.5
Merged-chr12-98746908-4	chr12	98746821	98747021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160107)	promoter-TSS (NM_001160107)	-47.0	NM_001160107	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	108.0	156.0	76.5	1359.0	310.0	135.5	140.0	90.0
Merged-chr16-20371914-4	chr16	20371796	20371996	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 17 of 29)	intron (NM_013790, intron 17 of 29)	-46492.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	22.0	14.0	31.0	300.0	43.5	23.0	21.0	13.0
Merged-chr1-78674848-4	chr1	78674749	78674949	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028817, intron 2 of 15)	intron (NM_028817, intron 2 of 15)	16409.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	6.0	20.0	21.5	317.5	27.5	7.0	11.5	13.0
Merged-chr2-45754401-1	chr2	45754301	45754501	+	581.0	f0_balb.idr	Intergenic	Intergenic	57796.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	7.0	13.5	12.0	62.5	2.0	0.5	0.0	0.0
Merged-chr5-121385666-4	chr5	121385591	121385791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163470)	promoter-TSS (NM_001163470)	-76.0	NM_172275	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	128.5	180.5	89.0	1153.0	263.0	128.0	114.0	101.0
Merged-chr11-21048187-4	chr11	21048102	21048302	+	696.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43122.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	9.5	21.0	10.0	87.5	36.5	21.5	8.5	4.0
Merged-chr11-3184306-2	chr11	3184209	3184409	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	9154.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	21.0	10.5	28.5	280.0	54.5	33.0	16.0	36.0
Merged-chr18-37933694-4	chr18	37933627	37933827	+	801.612488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	intron (NM_001305981, intron 1 of 28)	1749.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	7.5	13.5	2.0	89.0	33.0	9.5	11.5	15.5
Merged-chr8-60883665-4	chr8	60883565	60883765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	-6728.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	47.0	43.5	62.0	1041.5	53.0	31.5	34.5	43.0
Merged-chr3-31376625-2	chr3	31376525	31376725	+	689.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66306.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	5.0	4.5	6.5	122.5	6.0	7.0	4.0	6.5
Merged-chr11-34034107-4	chr11	34033994	34034194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	MTE2a|LTR|ERVL-MaLR	-12834.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	110.0	132.0	139.0	1182.0	176.0	51.0	100.0	74.5
Merged-chr15-96287615-4	chr15	96287660	96287860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175251, exon 1 of 21)	exon (NM_175251, exon 1 of 21)	238.0	NM_175251	77044.0	Mm.17166	NM_175251	ENSMUSG00000033237	Arid2	1700124K17Rik|4432409D24Rik|BAF200|zipzap/p200	AT rich interactive domain 2 (ARID, RFX-like)	protein-coding	18.0	25.0	15.5	214.5	36.0	17.5	17.5	25.0
Merged-chr3-10430096-4	chr3	10429984	10430184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127191, intron 4 of 6)	intron (NM_001127191, intron 4 of 6)	10046.0	NM_029068	74718.0	Mm.440548	NM_029068	ENSMUSG00000027534	Snx16	4930522N22Rik|AI117577|AI747675	sorting nexin 16	protein-coding	30.5	23.5	24.5	534.0	76.5	17.5	22.5	34.5
Merged-chr7-112217370-3	chr7	112217247	112217447	+	970.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-8489.0	NM_177282	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	17.0	28.0	17.0	254.0	12.5	6.5	10.5	7.5
Merged-chr1-91346991-3	chr1	91346944	91347144	+	691.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033292, exon 9 of 9)	3' UTR (NM_001033292, exon 9 of 9)	-4029.0	NM_027551	70788.0	Mm.68617	NM_027551	ENSMUSG00000026308	Klhl30	4631423F02Rik	kelch-like 30	protein-coding	5.5	9.5	4.5	68.0	10.0	4.5	3.0	7.5
Merged-chr17-25867916-4	chr17	25867813	25868013	+	907.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026633, intron 2 of 4)	intron (NM_026633, intron 2 of 4)	825.0	NM_026633	68241.0	Mm.328870	NM_026633	ENSMUSG00000025732	Mcrip2	9530058B02Rik|Fam195a	MAPK regulated corepressor interacting protein 2	protein-coding	14.5	11.5	10.5	143.5	31.5	9.5	14.5	18.5
Merged-chr13-62470137-3	chr13	62470030	62470230	+	879.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3318.0	NM_001136496	71508.0	Mm.442497	NM_178875	ENSMUSG00000113450	Zfp935	8430426H19Rik|Es113	zinc finger protein 935	protein-coding	4.0	5.0	1.5	68.5	27.0	14.5	7.0	14.5
Merged-chr5-75871323-4	chr5	75871232	75871432	+	888.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	107096.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	28.0	23.0	13.5	386.0	22.5	7.0	7.5	12.0
Merged-chr8-13551215-4	chr8	13551101	13551301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025601, intron 8 of 8)	intron (NM_025601, intron 8 of 8)	11260.0	NM_025601	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	35.0	26.5	21.5	465.0	50.0	32.0	22.5	31.0
Merged-chr5-124024987-1	chr5	124024887	124025087	+	1000.0	f0_balb.idr	intron (NM_177876, intron 1 of 3)	L2b|LINE|L2	7273.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	29.0	28.5	19.5	433.0	27.5	11.5	9.0	12.0
Merged-chr10-79985067-4	chr10	79984954	79985154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003949)	promoter-TSS (NM_001003949)	-794.0	NM_001003949	216157.0	Mm.29442	NM_001003949	ENSMUSG00000013858	Tmem259	AC087114.7gm2|ORF61|R32184_3|mFLJ00277	transmembrane protein 259	protein-coding	160.5	206.0	111.5	1859.0	358.0	159.5	207.0	152.0
Merged-chr10-20058278-4	chr10	20058173	20058373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 9 of 29)	intron (NM_008580, intron 9 of 29)	-90647.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	39.5	44.0	29.5	701.5	68.0	38.5	32.0	22.5
Merged-chr2-29935437-4	chr2	29935350	29935550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028923)	promoter-TSS (NM_028923)	41.0	NM_028923	74412.0	Mm.275121	NM_028923	ENSMUSG00000019715	Gle1	4933405K21Rik|AA553313|Gle1l	GLE1 RNA export mediator (yeast)	protein-coding	82.5	148.0	61.5	1045.5	220.5	71.0	50.0	69.5
Merged-chr7-25731528-3	chr7	25731428	25731628	+	830.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144922, intron 10 of 14)	intron (NM_144922, intron 10 of 14)	-12475.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	16.0	24.5	20.0	387.0	23.0	4.5	8.5	9.0
Merged-chr6-33969414-4	chr6	33969319	33969519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 17 of 17)	intron (NM_009148, intron 17 of 17)	-60029.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	33.5	58.0	73.5	966.0	129.0	37.0	83.5	58.5
Merged-chr5-136979913-3	chr5	136979813	136980013	+	717.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6991.0	NM_001310747	70103.0	Mm.273147	NM_027318	ENSMUSG00000059518	Znhit1	2700001K05Rik|ZNFN4A1	zinc finger, HIT domain containing 1	protein-coding	7.0	5.0	5.5	61.5	7.0	4.5	4.0	3.0
Merged-chr11-29728114-4	chr11	29728006	29728206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024226, intron 1 of 6)	intron (NM_024226, intron 1 of 6)	9543.0	NM_024226	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	69.5	74.0	69.5	987.5	142.5	25.0	44.0	29.0
Merged-chr10-19008813-3	chr10	19008733	19008933	+	981.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166402, intron 1 of 7)	intron (NM_001166402, intron 1 of 7)	3130.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	11.0	24.0	6.5	50.0	35.0	9.5	5.5	12.0
Merged-chr2-181288127-4	chr2	181288044	181288244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198169)	promoter-TSS (NM_198169)	-178.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	137.5	195.0	84.0	1650.0	409.0	157.0	155.5	156.5
Merged-chr8-86870931-3	chr8	86870834	86871034	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	MTE2a|LTR|ERVL-MaLR	14324.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	12.0	10.0	5.0	103.5	24.5	6.0	9.0	6.5
Merged-chr9-66124880-4	chr9	66124779	66124979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019727)	promoter-TSS (NM_019727)	7.0	NM_019727	56440.0	Mm.271891	NM_019727	ENSMUSG00000032382	Snx1	-	sorting nexin 1	protein-coding	146.5	261.5	140.5	1807.0	342.0	132.5	175.0	125.0
Merged-chr1-118459112-4	chr1	118459017	118459217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027901, exon 1 of 1)	non-coding (NR_027901, exon 1 of 1)	148.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	64.5	116.0	57.0	1076.5	150.0	77.5	67.0	54.0
Merged-chr10-96605393-4	chr10	96605278	96605478	+	692.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11623.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	9.0	6.5	3.0	227.0	22.5	7.5	5.0	6.5
Merged-chr6-34874642-4	chr6	34874516	34874716	+	995.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347101, exon 4 of 4)	exon (NM_001347101, exon 4 of 4)	3449.0	NM_199145	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	20.5	31.0	13.5	248.5	44.5	11.5	14.0	12.0
Merged-chr15-99330232-3	chr15	99330135	99330335	+	727.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310622, intron 5 of 25)	intron (NM_001310622, intron 5 of 25)	26951.0	NM_001348256	54614.0	Mm.358668	NM_018786	ENSMUSG00000023007	Prpf40b	2610317D23Rik|Hypc	pre-mRNA processing factor 40B	protein-coding	12.5	11.0	3.0	100.0	18.5	7.5	15.5	9.0
Merged-chr4-53429982-3	chr4	53429885	53430085	+	772.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10428.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	23.5	13.5	12.0	83.5	17.0	5.5	1.0	3.5
Merged-chr18-82812531-4	chr18	82812428	82812628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43369.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	76.5	93.5	79.5	950.0	157.0	60.0	68.0	60.5
Merged-chr2-35109524-4	chr2	35109423	35109623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012018)	promoter-TSS (NM_012018)	31.0	NM_012018	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	62.0	112.5	84.0	988.0	251.5	107.5	103.5	114.0
Merged-chr11-113811394-3	chr11	113811291	113811491	+	906.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172800, intron 36 of 44)	intron (NM_172800, intron 36 of 44)	-59576.0	NM_001163346	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	3.5	3.0	1.5	27.0	30.5	7.5	11.0	9.5
Merged-chr2-45185439-4	chr2	45185325	45185525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67983.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	19.5	40.0	23.0	520.5	50.5	25.5	24.5	26.5
Merged-chr7-63858687-4	chr7	63858578	63858778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58179.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	34.5	75.0	38.0	991.5	129.5	36.0	57.5	46.0
Merged-chr10-19548218-4	chr10	19548119	19548319	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-43730.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	28.5	34.5	29.0	367.5	60.0	14.5	18.0	21.5
Merged-chr7-92875180-4	chr7	92875077	92875277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028243)	promoter-TSS (NM_028243)	-76.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	225.5	322.5	249.0	3758.5	642.0	259.5	352.0	238.0
Merged-chr2-79206419-4	chr2	79206308	79206508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49018.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	55.5	43.5	77.0	938.0	114.5	23.5	39.5	42.5
Merged-chr5-31220171-2	chr5	31220071	31220271	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008014, intron 1 of 9)	CpG	374.0	NM_008014	14208.0	Mm.14501	NM_008014	ENSMUSG00000029147	Ppm1g	AI385652|Fin13	protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform	protein-coding	9.0	18.0	11.0	99.0	29.5	6.0	15.0	9.0
Merged-chr9-5833628-2	chr9	5833528	5833728	+	711.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-334858.0	NM_001357398	71785.0	Mm.390122	NM_027924	ENSMUSG00000032006	Pdgfd	1110003I09Rik	platelet-derived growth factor, D polypeptide	protein-coding	0.5	1.0	6.5	77.0	12.5	5.5	5.5	9.0
Merged-chr2-19145569-4	chr2	19145451	19145651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53567.0	NM_001271563	70882.0	Mm.276696	NM_001081083	ENSMUSG00000037683	Armc3	4921513G22Rik	armadillo repeat containing 3	protein-coding	21.0	51.5	24.5	441.0	82.5	22.0	48.0	33.5
Merged-chr12-80814042-4	chr12	80813948	80814148	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	23516.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	31.5	57.5	35.0	318.0	86.0	31.5	36.5	24.5
Merged-chr18-69300701-4	chr18	69300616	69300816	+	745.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43776.0	NM_013685	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	9.5	6.0	6.5	168.5	26.5	7.0	10.0	6.0
Merged-chr3-107106208-4	chr3	107106099	107106299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008417, exon 3 of 3)	3' UTR (NM_008417, exon 3 of 3)	4632.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	31.5	25.0	52.0	793.0	82.0	13.5	24.5	19.5
Merged-chr2-49425794-4	chr2	49425684	49425884	+	813.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-25702.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	9.0	5.0	13.0	219.5	41.0	6.0	13.0	9.5
Merged-chr7-58686805-4	chr7	58686697	58686897	+	969.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009728, intron 1 of 20)	MTD|LTR|ERVL-MaLR	28595.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	10.0	20.0	17.0	180.5	131.5	33.0	85.5	68.0
Merged-chr1-171223411-3	chr1	171223296	171223496	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037170)	promoter-TSS (NM_001037170)	-882.0	NM_001037170	641376.0	Mm.288374	NM_001037170	ENSMUSG00000005674	Tomm40l	-	translocase of outer mitochondrial membrane 40-like	protein-coding	1.0	4.5	6.5	58.0	78.5	22.0	19.5	20.5
Merged-chr14-50357806-4	chr14	50357714	50357914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_205819)	promoter-TSS (NM_205819)	-100.0	NM_205819	239081.0	Mm.291512	NM_205819	ENSMUSG00000051969	Tlr11	Gm287	toll-like receptor 11	protein-coding	31.0	31.5	17.5	875.5	150.0	54.5	49.0	69.5
Merged-chr16-94566232-4	chr16	94566123	94566323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-3983.0	NM_007890	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	42.5	126.0	42.5	382.5	87.0	55.5	46.0	32.0
Merged-chr13-67609238-3	chr13	67609163	67609363	+	810.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163246, intron 1 of 3)	intron (NM_001163246, intron 1 of 3)	444.0	NM_001163246	100416706.0	Mm.478045	NM_001163246	ENSMUSG00000058093	Zfp729b	AA987127	zinc finger protein 729b	protein-coding	4.0	4.5	4.0	98.0	53.0	13.0	19.5	18.0
Merged-chr14-8108359-3	chr14	8108287	8108487	+	915.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	10176.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	8.5	6.0	10.5	70.0	16.0	11.5	7.5	6.0
Merged-chr11-97416056-3	chr11	97415955	97416155	+	871.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34105.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	8.5	11.0	6.0	77.0	17.0	12.0	4.5	17.0
Merged-chr1-127213701-3	chr1	127213642	127213842	+	950.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	8756.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	5.0	6.0	6.5	63.5	27.0	11.5	15.5	9.5
Merged-chr11-102297129-4	chr11	102297026	102297226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098837)	promoter-TSS (NM_001098837)	-497.0	NM_001098837	217218.0	Mm.390381	NM_001098836	ENSMUSG00000059995	Atxn7l3	E030022H21Rik	ataxin 7-like 3	protein-coding	206.0	314.5	186.0	2008.0	471.5	201.5	202.5	171.5
Merged-chr6-129375295-4	chr6	129375193	129375393	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001204223)	TTS (NM_001204223)	10210.0	NM_027709	71183.0	Mm.79402	NM_027709	ENSMUSG00000030158	Clec12b	4933425B16Rik	C-type lectin domain family 12, member B	protein-coding	21.5	32.0	16.5	355.5	74.0	21.5	20.0	17.5
Merged-chr2-60124841-4	chr2	60124741	60124941	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	899.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	12.5	46.0	28.5	347.0	93.0	41.0	27.5	47.5
Merged-chr4-24617511-4	chr4	24617411	24617611	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033531, exon 10 of 10)	exon (NM_001033531, exon 10 of 10)	121060.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	25.0	48.5	40.0	699.5	48.5	27.5	15.0	18.5
Merged-chr19-47395633-4	chr19	47395515	47395715	+	958.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 3 of 14)	intron (NM_008018, intron 3 of 14)	68796.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	25.0	28.5	15.5	291.5	43.5	12.0	14.0	9.5
Merged-chr14-25841950-6	chr14	25841837	25842037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013469)	promoter-TSS (NM_013469)	-218.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	19.0	51.5	35.0	385.5	53.0	15.0	13.5	19.0
Merged-chr19-6292242-4	chr19	6292122	6292322	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 2 of 4)	intron (NM_010119, intron 2 of 4)	-14235.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	27.0	61.5	30.5	191.0	87.0	29.0	32.0	15.0
Merged-chr6-113531625-4	chr6	113531523	113531723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175101)	promoter-TSS (NM_175101)	15.0	NM_175101	66087.0	Mm.275989	NM_175101	ENSMUSG00000030286	Emc3	0610039A15Rik|AI225901|AW260416|Pob|Tmem111	ER membrane protein complex subunit 3	protein-coding	33.5	59.0	20.0	448.0	109.5	34.5	21.0	31.5
Merged-chr7-45700910-4	chr7	45700778	45700978	+	967.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009800, intron 2 of 8)	intron (NM_009800, intron 2 of 8)	911.0	NM_009800	12348.0	Mm.27736	NM_009800	ENSMUSG00000003273	Car11	Ca11	carbonic anhydrase 11	protein-coding	16.0	19.5	12.0	195.5	40.5	7.0	21.0	19.0
Merged-chr3-146030391-4	chr3	146030283	146030483	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42513.0	NM_001166064	214804.0	Mm.268854	NM_001166064	ENSMUSG00000036863	Syde2	C430017H16Rik	synapse defective 1, Rho GTPase, homolog 2 (C. elegans)	protein-coding	7.0	34.0	21.5	213.0	21.0	12.0	12.5	12.5
Merged-chr5-21221087-3	chr5	21220985	21221185	+	923.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 6 of 26)	intron (NR_153365, intron 6 of 26)	34818.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	5.0	14.5	4.5	186.5	15.0	5.5	4.5	3.5
Merged-chr16-87755098-4	chr16	87754996	87755196	+	899.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56142.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	9.5	11.0	6.0	176.0	49.0	19.5	11.0	15.5
Merged-chr2-146386408-1	chr2	146386308	146386508	+	749.0	f0_balb.idr	intron (NM_001033348, intron 24 of 40)	intron (NM_001033348, intron 24 of 40)	125596.0	NM_001033348	241694.0	Mm.222310	NM_001033348	ENSMUSG00000037110	Ralgapa2	A230067G21Rik|AS250|BC053994|RGC2|pp250	Ral GTPase activating protein, alpha subunit 2 (catalytic)	protein-coding	6.5	10.5	11.5	122.5	2.0	1.0	0.0	0.0
Merged-chr7-63931343-3	chr7	63931250	63931450	+	713.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	7565.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	10.0	18.0	5.0	50.5	23.0	4.5	10.0	13.5
Merged-chr2-180274132-3	chr2	180274012	180274212	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145851)	promoter-TSS (NM_145851)	-647.0	NM_145851	252966.0	Mm.386884	NM_145851	ENSMUSG00000038990	Cables2	ik3-2	CDK5 and Abl enzyme substrate 2	protein-coding	27.5	33.5	18.5	452.5	51.0	11.0	17.5	20.5
Merged-chr19-15518036-4	chr19	15517939	15518139	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	406583.0	NM_001205339	107272.0	Mm.289936	NM_177420	ENSMUSG00000024640	Psat1	D8Ertd814e|EPIP|PSA|Psat	phosphoserine aminotransferase 1	protein-coding	16.0	20.0	13.5	411.5	29.0	8.0	17.5	23.5
Merged-chr13-78043430-4	chr13	78043323	78043523	+	808.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163420, intron 8 of 8)	intron (NM_001163420, intron 8 of 8)	18521.0	NM_029315	75507.0	Mm.443255	NM_029315	ENSMUSG00000093668	Pou5f2	1700013G10Rik|SPRM-1|Sprm1	POU domain class 5, transcription factor 2	protein-coding	10.0	7.5	14.5	180.5	27.0	7.5	16.5	7.5
Merged-chr2-36230497-4	chr2	36230403	36230603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008969)	promoter-TSS (NM_008969)	77.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	47.5	71.0	59.5	908.5	84.0	33.0	48.0	43.0
Merged-chr7-99980217-6	chr7	99980004	99980204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175388, exon 1 of 6)	exon (NM_175388, exon 1 of 6)	354.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	4.5	2.5	4.5	73.0	16.5	7.5	10.0	6.0
Merged-chr18-46613395-4	chr18	46613298	46613498	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15694.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	31.5	27.0	22.5	686.5	67.0	17.0	23.0	15.0
Merged-chr4-132780467-4	chr4	132780369	132780569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12109.0	NM_011284	19891.0	Mm.2870	NM_011284	ENSMUSG00000028884	Rpa2	AA409079|AI325195|AU020965|RPA34|Rf-A2	replication protein A2	protein-coding	99.5	115.5	52.5	937.0	163.5	49.5	51.0	73.0
Merged-chr11-106957572-4	chr11	106957462	106957662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36847.0	NM_025481	66313.0	Mm.340955	NM_025481	ENSMUSG00000018363	Smurf2	2810411E22Rik|AI558114|AI649275	SMAD specific E3 ubiquitin protein ligase 2	protein-coding	75.5	114.0	77.5	955.0	163.5	76.0	57.5	53.0
Merged-chr10-21621791-4	chr10	21621685	21621885	+	856.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027968, exon 3 of 3)	non-coding (NR_027968, exon 3 of 3)	28640.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	11.0	11.0	13.0	206.0	50.5	14.5	11.0	5.0
Merged-chr17-17881491-4	chr17	17881418	17881618	+	730.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013521, intron 1 of 1)	intron (NM_013521, intron 1 of 1)	2421.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	5.0	4.5	4.0	80.5	15.0	9.0	12.0	14.0
Merged-chr5-45384391-3	chr5	45384368	45384568	+	682.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131933, intron 1 of 5)	RMER6B|LTR|ERVK	39932.0	NR_131933	52401.0	Mm.33854	NR_131933	ENSMUSG00000029092	D5Ertd615e	4930435H24Rik	DNA segment, Chr 5, ERATO Doi 615, expressed	ncRNA	6.5	21.5	5.5	77.0	0.0	0.5	1.0	2.0
Merged-chr13-65019009-4	chr13	65018902	65019102	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14056.0	NM_001083890	238683.0	Mm.295543	NM_001083890	ENSMUSG00000074849	Spata31d1c	4932441B19Rik|Fam75d1c	spermatogenesis associated 31 subfamily D, member 1C	protein-coding	15.5	16.5	19.0	364.0	42.0	6.0	16.5	7.5
Merged-chr8-104395693-5	chr8	104395513	104395713	+	931.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153582, exon 1 of 4)	exon (NM_153582, exon 1 of 4)	194.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	11.0	14.0	19.5	151.0	33.0	14.5	15.0	10.5
Merged-chr8-46109750-1	chr8	46109650	46109850	+	544.0	f1_balb.idr	intron (NM_207213, intron 2 of 17)	intron (NM_207213, intron 2 of 17)	14396.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	7.0	6.0	15.0	46.0	3.0	1.0	1.0	6.0
Merged-chr12-44167173-2	chr12	44167073	44167273	+	863.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42895.0	NM_013760	27362.0	Mm.27432	NM_013760	ENSMUSG00000014905	Dnajb9	AA408011|AA673251|AA673481|AW556981|ERdj4|Mdg1|mDj7	DnaJ heat shock protein family (Hsp40) member B9	protein-coding	1.5	4.5	1.0	74.0	9.5	15.0	13.0	10.5
Merged-chr8-22124424-3	chr8	22124337	22124537	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177898, intron 1 of 19)	intron (NM_177898, intron 1 of 19)	630.0	NM_177898	330721.0	Mm.113940	NM_177898	ENSMUSG00000037738	Nek5	6530411J22|BB049667	NIMA (never in mitosis gene a)-related expressed kinase 5	protein-coding	19.5	23.5	13.0	200.5	11.5	13.0	5.5	6.0
Merged-chr12-3345254-3	chr12	3345174	3345374	+	971.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-19858.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	10.0	17.5	12.5	59.0	22.5	5.5	7.0	6.0
Merged-chr7-130812589-4	chr7	130812522	130812722	+	920.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081038, intron 10 of 15)	intron (NM_001081038, intron 10 of 15)	38553.0	NM_001081038	330660.0	Mm.271550	NM_001081038	ENSMUSG00000040298	Btbd16	E330040A16Rik	BTB (POZ) domain containing 16	protein-coding	10.5	26.5	12.0	162.5	77.0	21.0	12.0	14.5
Merged-chr2-73037885-4	chr2	73037782	73037982	+	982.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57436.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	15.0	21.5	25.0	344.0	33.5	5.5	16.5	27.0
Merged-chr2-33870522-4	chr2	33870405	33870605	+	860.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 2 of 9)	intron (NM_175184, intron 2 of 9)	17441.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	18.5	9.0	15.5	372.5	15.5	4.0	18.0	18.0
Merged-chr9-58979253-3	chr9	58979155	58979355	+	851.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008684, intron 4 of 28)	intron (NM_008684, intron 4 of 28)	57186.0	NM_001042752	18007.0	Mm.42249	NM_008684	ENSMUSG00000032340	Neo1	2610028H22Rik|AI327052|D930014N22Rik|Igdcc2	neogenin	protein-coding	8.0	6.0	2.0	80.0	10.5	9.0	6.5	5.0
Merged-chr10-10461698-4	chr10	10461607	10461807	+	715.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	10607.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	6.5	2.0	4.5	54.0	30.0	19.0	19.5	9.5
Merged-chr13-90057859-4	chr13	90057721	90057921	+	978.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 3 of 7)	Charlie24|DNA|hAT-Charlie	31787.0	NM_028012	108138.0	Mm.37531	NM_028012	ENSMUSG00000021615	Xrcc4	2310057B22Rik|AW413319|AW545101	X-ray repair complementing defective repair in Chinese hamster cells 4	protein-coding	14.0	17.5	36.0	467.5	42.0	5.0	20.5	25.5
Merged-chr16-17559147-3	chr16	17558991	17559191	+	815.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145435, intron 3 of 7)	intron (NM_001145435, intron 3 of 7)	2156.0	NM_029053	74685.0	Mm.38634	NM_029053	ENSMUSG00000022759	Lrrc74b	4930451C15Rik|mCG12354|mCP17390	leucine rich repeat containing 74B	protein-coding	9.5	5.0	9.0	109.5	5.0	1.5	8.5	2.5
Merged-chr13-59879392-4	chr13	59879305	59879505	+	938.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56258.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	13.5	12.5	13.0	113.5	53.5	7.0	24.5	25.5
Merged-chr10-42003782-3	chr10	42003657	42003857	+	940.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 3 of 17)	CT-rich|Low_complexity|Low_complexity	14625.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	10.0	16.0	18.0	238.5	15.0	1.5	5.5	8.0
Merged-chr16-45145340-4	chr16	45145259	45145459	+	913.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028756, intron 5 of 6)	intron (NM_028756, intron 5 of 6)	13314.0	NM_001356453	74102.0	Mm.264984	NM_028756	ENSMUSG00000022664	Slc35a5	1010001J06Rik|AU021179|BB097433|D16Ertd450e|D730043G07Rik	solute carrier family 35, member A5	protein-coding	23.0	20.5	17.0	467.5	32.5	7.0	16.0	15.0
Merged-chr14-74906164-4	chr14	74906077	74906277	+	839.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	41700.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	18.5	33.0	11.5	366.0	24.0	10.5	6.0	18.5
Merged-chr1-167306636-4	chr1	167306524	167306724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2046.0	NM_001039483	68944.0	Mm.330045	NM_026881	ENSMUSG00000052428	Tmco1	1190006A08Rik|4930403O06Rik|AA109065|AU022572|ESTM39	transmembrane and coiled-coil domains 1	protein-coding	18.0	43.0	23.0	338.5	88.0	18.0	35.5	27.0
Merged-chr7-27332806-4	chr7	27332707	27332907	+	963.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175641, intron 4 of 32)	intron (NM_175641, intron 4 of 32)	841.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	16.5	22.0	9.5	136.0	49.5	17.0	22.0	16.0
Merged-chr11-106354281-3	chr11	106354174	106354374	+	818.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4884.0	NM_133199	110880.0	Mm.432528	NM_133199	ENSMUSG00000001027	Scn4a	Nav1.4|SkM1|mH2	sodium channel, voltage-gated, type IV, alpha	protein-coding	7.5	12.0	12.5	160.0	8.5	8.5	13.0	11.5
Merged-chr2-32590404-4	chr2	32590303	32590503	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011373, intron 2 of 4)	intron (NM_011373, intron 2 of 4)	3325.0	NM_011373	20448.0	Mm.27446	NM_011373	ENSMUSG00000079442	St6galnac4	SIAT7-D|ST6GalNAcIV|Siat7d	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4	protein-coding	31.0	27.5	27.5	410.0	47.0	14.0	40.0	30.5
Merged-chr2-72318641-1	chr2	72318541	72318741	+	687.0	f0_balb.idr	intron (NM_023057, intron 2 of 19)	ERVL-int|LTR|ERVL	32940.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	7.0	10.0	13.5	126.5	0.0	1.0	1.5	3.5
Merged-chr3-96197210-4	chr3	96197126	96197326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026975, exon 2 of 2)	exon (NM_026975, exon 2 of 2)	360.0	NM_026975	69168.0	Mm.104531	NM_026975	ENSMUSG00000015943	Bola1	1810037G04Rik	bolA-like 1 (E. coli)	protein-coding	39.0	57.5	31.0	406.0	106.5	38.0	39.0	45.5
Merged-chr9-70503826-4	chr9	70503719	70503919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033604)	promoter-TSS (NM_033604)	-44.0	NM_033604	93836.0	Mm.29783	NM_033604	ENSMUSG00000032217	Rnf111	ARK|Arkadia	ring finger 111	protein-coding	76.5	110.0	110.5	1109.5	285.5	84.0	122.5	108.0
Merged-chr9-18293277-5	chr9	18293035	18293235	+	854.0150150000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025844, intron 1 of 10)	intron (NM_025844, intron 1 of 10)	868.0	NM_025844	66917.0	Mm.103534	NM_025844	ENSMUSG00000001774	Chordc1	1110001O09Rik|AA409036|Chp-1|morgana	cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1	protein-coding	13.5	17.5	11.5	103.5	28.5	10.5	10.0	12.5
Merged-chr2-130667736-4	chr2	130667641	130667841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025922)	promoter-TSS (NM_025922)	-100.0	NM_025922	16434.0	Mm.21399	NM_025922	ENSMUSG00000074797	Itpa	2010016I08Rik|AU020102|ITPase|Itp|NTPase	inosine triphosphatase (nucleoside triphosphate pyrophosphatase)	protein-coding	38.5	46.5	29.0	531.5	95.0	24.0	31.5	25.0
Merged-chr10-98954755-4	chr10	98954532	98954732	+	976.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	39480.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	15.0	13.5	11.0	238.0	42.5	11.0	10.5	19.0
Merged-chr9-13835463-4	chr9	13835372	13835572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176836, intron 5 of 9)	intron (NM_176836, intron 5 of 9)	7756.0	NM_176836	72826.0	Mm.246174	NM_176836	ENSMUSG00000037808	Fam76b	2810485I05Rik|C78303	family with sequence similarity 76, member B	protein-coding	87.0	101.5	92.5	2196.0	199.5	47.0	83.5	78.0
Merged-chr16-20014269-3	chr16	20014169	20014369	+	940.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-31220.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	14.0	10.5	19.5	51.5	12.5	3.5	9.0	8.0
Merged-chr13-56647708-3	chr13	56647603	56647803	+	796.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38117.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	7.5	15.0	10.0	132.0	12.5	5.0	8.5	1.5
Merged-chr15-83149759-4	chr15	83149678	83149878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178627)	promoter-TSS (NM_178627)	133.0	NR_004432	104307.0	Mm.471434	NR_004432	ENSMUSG00000065176	Rnu12	-	RNA U12, small nuclear	snRNA	40.5	131.5	72.0	501.0	120.0	59.5	55.0	51.0
Merged-chr12-44269142-4	chr12	44269042	44269242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026164)	promoter-TSS (NM_026164)	-12.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	262.0	453.5	241.5	4514.5	750.5	346.5	383.0	293.5
Merged-chr6-125367886-4	chr6	125367793	125367993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198604, intron 14 of 16)	intron (NM_198604, intron 14 of 16)	12611.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	183.0	240.5	206.5	2887.5	389.0	159.0	219.5	160.5
Merged-chr8-109777808-4	chr8	109777704	109777904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009677)	promoter-TSS (NM_009677)	-779.0	NM_009677	11765.0	Mm.37210	NM_009677	ENSMUSG00000031731	Ap1g1	AA409002|AU041323|AW551707|Adtg|D8Ertd374e	adaptor protein complex AP-1, gamma 1 subunit	protein-coding	23.0	30.5	37.0	472.0	81.0	16.5	28.5	41.5
Merged-chr8-94594425-3	chr8	94594351	94594551	+	620.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028221, intron 1 of 7)	intron (NM_028221, intron 1 of 7)	7275.0	NM_028221	102122.0	Mm.250425	NM_028221	ENSMUSG00000031774	Fam192a	1700001O11Rik|2310065K24Rik|AI596259|Nip30	family with sequence similarity 192, member A	protein-coding	9.0	10.5	6.0	119.5	11.0	5.5	3.5	2.0
Merged-chr5-36792090-4	chr5	36791987	36792187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4667.0	NM_026242	67568.0	Mm.332336	NM_026242	ENSMUSG00000055302	Mrfap1	9130413I22Rik|AL022827|Pam14	Morf4 family associated protein 1	protein-coding	34.0	32.0	21.0	424.5	59.0	28.0	36.5	30.0
Merged-chr12-35038790-4	chr12	35038692	35038892	+	977.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8397.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	41.5	28.5	27.0	619.0	35.5	15.5	18.5	19.0
Merged-chr5-93093278-4	chr5	93093164	93093364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347377)	promoter-TSS (NM_001347377)	-152.0	NM_001009818	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	103.0	143.5	143.0	1357.0	155.0	80.5	75.5	92.5
Merged-chr6-50312802-4	chr6	50312703	50312903	+	763.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 15 of 21)	intron (NM_027881, intron 15 of 21)	-51034.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	10.5	15.5	9.0	217.5	50.5	12.0	15.0	18.0
Merged-chr3-28107658-3	chr3	28107557	28107757	+	925.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 20 of 25)	intron (NM_008875, intron 20 of 25)	123486.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	5.0	9.0	12.0	272.5	20.5	5.5	5.5	10.5
Merged-chr2-19388905-4	chr2	19388805	19389005	+	920.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029619, intron 3 of 4)	intron (NM_029619, intron 3 of 4)	17269.0	NM_029619	76467.0	Mm.27166	NM_029619	ENSMUSG00000023094	Msrb2	2310050L06Rik|Mrsb|Msrb|Pilb	methionine sulfoxide reductase B2	protein-coding	23.0	37.0	16.5	531.5	38.0	9.5	40.5	12.5
Merged-chr19-41911799-4	chr19	41911701	41911901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023418)	promoter-TSS (NM_023418)	-70.0	NM_023418	18648.0	Mm.16783	NM_023418	ENSMUSG00000011752	Pgam1	2310050F24Rik|Pgam-1	phosphoglycerate mutase 1	protein-coding	177.5	316.0	156.0	2262.5	472.0	194.0	172.5	194.5
Merged-chr18-38232377-4	chr18	38232278	38232478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17820.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	49.0	78.0	48.0	775.0	90.0	37.5	48.5	35.5
Merged-chr15-6267121-4	chr15	6267040	6267240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-32649.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	40.0	47.0	23.5	709.0	85.5	34.5	25.0	23.5
Merged-chr11-76457074-3	chr11	76456978	76457178	+	870.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 9 of 21)	intron (NM_001346670, intron 9 of 21)	11387.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	12.5	19.0	9.0	83.0	31.0	4.5	3.5	4.0
Merged-chr4-125030003-4	chr4	125029903	125030103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145552)	promoter-TSS (NM_145552)	-11.0	NM_145552	230737.0	Mm.90760	NM_145552	ENSMUSG00000028869	Gnl2	BC003262|HUMAUANTIG|Ngp-1	guanine nucleotide binding protein-like 2 (nucleolar)	protein-coding	128.0	172.0	78.5	1282.5	297.5	126.5	166.5	108.5
Merged-chr12-85648177-4	chr12	85648093	85648293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-38527.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	103.0	127.0	77.5	1058.0	154.5	65.5	94.0	85.5
Merged-chr5-65987003-4	chr5	65986898	65987098	+	897.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_027961)	TTS (NR_027961)	17287.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	12.5	20.5	19.5	219.5	30.0	15.5	17.0	16.5
Merged-chr15-6402946-4	chr15	6402844	6403044	+	984.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	16196.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	18.5	30.0	18.0	392.0	69.0	22.0	16.5	28.5
Merged-chr2-145863300-4	chr2	145863170	145863370	+	859.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 9 of 12)	intron (NM_028724, intron 9 of 12)	-39971.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	9.0	18.5	30.5	526.5	20.5	6.0	19.5	7.5
Merged-chr1-140257908-4	chr1	140257802	140258002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081027, intron 1 of 27)	intron (NM_001081027, intron 1 of 27)	11645.0	NM_001081027	240776.0	Mm.483845	NM_001081027	ENSMUSG00000052726	Kcnt2	E330038N15Rik|Slick	potassium channel, subfamily T, member 2	protein-coding	76.5	75.0	60.0	1570.5	89.0	40.5	50.5	63.0
Merged-chr16-78215981-3	chr16	78215888	78216088	+	906.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	39466.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	7.0	13.5	14.0	105.5	43.0	10.5	3.0	8.0
Merged-chr15-90667050-4	chr15	90666950	90667150	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033851, intron 1 of 3)	intron (NM_001033851, intron 1 of 3)	12338.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	30.5	59.5	54.5	923.0	50.0	10.0	39.0	29.5
Merged-chr1-127261279-3	chr1	127261170	127261370	+	823.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 2 of 17)	RLTR28|LTR|ERVL	56284.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	6.5	7.5	5.5	140.0	26.5	5.5	5.0	9.0
Merged-chr2-122611288-4	chr2	122611142	122611342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025961)	promoter-TSS (NM_025961)	35.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	91.5	139.0	95.5	1463.5	185.0	74.5	103.0	93.0
Merged-chr17-78265377-4	chr17	78265291	78265491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	intron (NM_015800, intron 2 of 16)	65143.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	69.5	98.5	45.5	1168.5	140.5	51.5	71.5	70.5
Merged-chr2-131204699-4	chr2	131204606	131204806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5654.0	NM_001291032	69596.0	Mm.2937	NM_027129	ENSMUSG00000068264	Ap5s1	0610038L13Rik|2310035K24Rik|AW060727|sigma5	adaptor-related protein 5 complex, sigma 1 subunit	protein-coding	106.0	114.0	104.0	965.0	183.5	65.0	76.5	83.0
Merged-chr5-98319929-3	chr5	98319797	98319997	+	963.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9407.0	NM_001024614	75784.0	Mm.443240	NM_001024614	ENSMUSG00000057816	1700007G11Rik	4930428O21Rik	RIKEN cDNA 1700007G11 gene	protein-coding	6.5	7.0	21.5	563.5	10.0	0.0	6.0	10.0
Merged-chr8-91411858-3	chr8	91411756	91411956	+	994.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 3 of 8)	intron (NM_011936, intron 3 of 8)	98331.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	16.0	19.5	29.5	418.0	1.0	0.0	0.0	0.0
Merged-chr3-27689597-4	chr3	27689496	27689696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 1 of 26)	G-rich|Low_complexity|Low_complexity	20856.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	114.0	154.5	103.5	1826.0	308.0	99.5	122.5	96.0
Merged-chr2-9879693-4	chr2	9879556	9879756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1056.0	NM_001355112	14462.0	Mm.313866	NM_008091	ENSMUSG00000015619	Gata3	Gata-3|jal	GATA binding protein 3	protein-coding	66.5	131.5	67.0	1295.0	156.0	46.5	76.0	71.0
Merged-chr12-86832373-4	chr12	86832280	86832480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52434.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	36.5	40.5	22.0	396.5	51.5	30.5	25.0	31.0
Merged-chr15-72837954-3	chr15	72837858	72838058	+	855.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	intron (NM_001164641, intron 17 of 17)	-27634.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	13.5	14.0	5.5	125.0	20.0	8.0	8.0	12.5
Merged-chr4-31963955-4	chr4	31963867	31964067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172688)	promoter-TSS (NM_172688)	-140.0	NM_009316	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	171.0	302.0	196.5	1575.5	402.5	168.5	199.0	155.0
Merged-chr11-32349814-4	chr11	32349719	32349919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177364, intron 1 of 12)	intron (NM_177364, intron 1 of 12)	2008.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	61.5	88.0	57.5	1020.0	211.0	87.0	120.0	78.5
Merged-chr3-93547346-4	chr3	93547255	93547455	+	942.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7762.0	NM_009112	20194.0	Mm.1	NM_009112	ENSMUSG00000041959	S100a10	42C|AA409961|AL024248|CAL12|CLP11|Cal1l|p10|p11	S100 calcium binding protein A10 (calpactin)	protein-coding	23.5	18.0	32.0	307.5	21.5	17.5	23.5	14.0
Merged-chr7-139377593-4	chr7	139377481	139377681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11528.0	NM_183144	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	86.0	90.5	58.5	1099.0	186.0	90.5	98.0	74.5
Merged-chr7-139208199-4	chr7	139208108	139208308	+	961.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162540, intron 1 of 11)	intron (NM_001162540, intron 1 of 11)	-4780.0	NM_027164	76612.0	Mm.17757	NM_027164	ENSMUSG00000015980	Lrrc27	1700071K18Rik|2310044E02Rik	leucine rich repeat containing 27	protein-coding	16.0	20.5	12.0	248.5	51.5	18.0	17.5	23.0
Merged-chr6-15793727-4	chr6	15793593	15793793	+	943.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 4 of 4)	intron (NM_175088, intron 4 of 4)	73032.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	12.0	15.5	12.0	315.0	57.0	16.5	12.5	17.0
Merged-chr2-181365415-4	chr2	181365323	181365523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165991)	promoter-TSS (NM_001165991)	0.0	NM_001048148	229007.0	Mm.87720	NM_144894	ENSMUSG00000027582	Zgpat	1500006I01Rik|BC021513	zinc finger, CCCH-type with G patch domain	protein-coding	159.5	191.5	114.0	2475.5	282.0	95.0	127.5	121.5
Merged-chr2-120571402-3	chr2	120571338	120571538	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009222, intron 1 of 7)	ORR1D1|LTR|ERVL-MaLR	3767.0	NM_009222	20619.0	Mm.245715	NM_009222	ENSMUSG00000027287	Snap23	23kDa|AA408749|SNAP-23|Sndt|Syndet	synaptosomal-associated protein 23	protein-coding	17.0	49.5	18.0	110.5	6.0	4.5	2.5	8.5
Merged-chr13-28959681-3	chr13	28959578	28959778	+	974.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5979.0	NM_009238	20677.0	Mm.240627	NM_009238	ENSMUSG00000076431	Sox4	AA682046|Sox-4	SRY (sex determining region Y)-box 4	protein-coding	24.0	12.0	19.5	175.0	35.0	3.0	3.5	8.0
Merged-chr3-133525659-5	chr3	133525515	133525715	+	964.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040400, intron 1 of 10)	B1_Mus1|SINE|Alu	18775.0	NM_001040400	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	16.0	10.5	17.0	147.5	55.0	19.0	19.5	37.5
Merged-chr12-112629548-4	chr12	112629441	112629641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 2 of 12)	intron (NM_007421, intron 2 of 12)	9494.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	262.0	426.5	309.5	4314.5	598.5	243.0	261.5	266.0
Merged-chr8-56896145-3	chr8	56896048	56896248	+	759.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	345014.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	17.0	9.0	11.0	108.0	8.0	7.5	1.0	4.0
Merged-chr12-41275021-3	chr12	41274916	41275116	+	814.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	211041.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	4.5	7.5	16.0	264.5	7.5	2.0	6.5	7.0
Merged-chr10-40229547-4	chr10	40229463	40229663	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042556, intron 7 of 9)	intron (NM_001042556, intron 7 of 9)	17416.0	NM_001042556	67239.0	Mm.11480	NM_023323	ENSMUSG00000038510	Rpf2	2810470K21Rik|AU040229|AU043242|Bxdc1	ribosome production factor 2 homolog	protein-coding	20.5	29.5	40.0	463.5	44.5	15.5	26.0	17.5
Merged-chr2-35732713-3	chr2	35732597	35732797	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35965.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	14.0	17.5	6.0	153.5	21.0	13.5	11.5	17.5
Merged-chr2-59613104-4	chr2	59612997	59613197	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	1055.0	NM_198294	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	6.5	21.0	6.5	141.0	28.0	6.0	11.5	10.5
Merged-chr6-136827497-5	chr6	136827436	136827636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021714, intron 1 of 11)	intron (NM_021714, intron 1 of 11)	680.0	NM_021714	60321.0	Mm.141197	NM_021714	ENSMUSG00000030216	Wbp11	2510026P17Rik|D6Wsu113e|Npwbp|SIPP1	WW domain binding protein 11	protein-coding	11.5	21.0	21.5	323.0	53.5	27.0	24.5	35.5
Merged-chr6-82773526-4	chr6	82773440	82773640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	CpG	914.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	39.5	91.0	80.5	916.0	211.0	51.0	56.5	40.0
Merged-chr1-135375216-4	chr1	135375158	135375358	+	835.6357419999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175259)	promoter-TSS (NM_175259)	-195.0	NM_175259	77552.0	Mm.41407	NM_175259	ENSMUSG00000041889	Shisa4	9330132O05Rik|Tmem58|mShisa4	shisa family member 4	protein-coding	12.5	15.5	20.0	137.0	22.0	5.5	8.0	11.0
Merged-chr12-116282108-4	chr12	116282011	116282211	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028731, intron 1 of 21)	intron (NM_028731, intron 1 of 21)	889.0	NM_028731	52635.0	Mm.273755	NM_028731	ENSMUSG00000021171	Esyt2	2410017M09Rik|4921504I16Rik|CHR2SYT|D12Ertd551e|Fam62b	extended synaptotagmin-like protein 2	protein-coding	10.0	5.5	6.5	159.0	25.0	13.5	5.0	16.5
Merged-chr8-70505074-4	chr8	70504968	70505168	+	825.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_018827)	TTS (NM_018827)	1358.0	NR_151646	66462.0	Mm.28242	NM_025577	ENSMUSG00000058833	Rex1bd	2810428I15Rik	required for excision 1-B domain containing	protein-coding	9.0	9.0	3.5	85.5	48.0	12.5	5.5	23.5
Merged-chr4-150001474-1	chr4	150001374	150001574	+	733.0	f0_balb.idr	intron (NM_173371, intron 1 of 4)	intron (NM_173371, intron 1 of 4)	1762.0	NM_001291004	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	16.5	11.0	7.0	130.5	11.5	6.0	9.5	9.5
Merged-chr18-65679470-4	chr18	65679281	65679481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361052, intron 6 of 8)	Tigger7|DNA|TcMar-Tigger	-18887.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	25.5	42.5	41.0	413.5	60.5	11.5	21.0	41.0
Merged-chr17-28079881-4	chr17	28079759	28079959	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357681, intron 2 of 9)	CpG	725.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	13.5	14.0	14.0	77.0	28.5	10.0	10.0	3.5
Merged-chr8-72317812-4	chr8	72317702	72317902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1260.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	74.0	78.0	119.5	1523.5	181.5	52.5	75.5	65.0
Merged-chr14-45661515-4	chr14	45661477	45661677	+	917.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3434.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	13.5	10.0	12.0	158.5	20.5	15.5	10.5	9.5
Merged-chr5-127607726-4	chr5	127607613	127607813	+	912.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 2 of 7)	intron (NM_133895, intron 2 of 7)	9679.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	19.5	12.5	22.5	515.5	25.0	6.5	10.5	8.0
Merged-chr1-123905940-1	chr1	123905840	123906040	+	646.0	f0_balb.idr	intron (NM_199021, intron 1 of 25)	intron (NM_199021, intron 1 of 25)	139619.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	5.0	9.5	11.5	106.5	8.0	2.0	6.0	8.0
Merged-chr8-35654438-4	chr8	35654354	35654554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-65434.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	62.0	29.5	61.0	1217.0	145.0	30.5	80.5	41.5
Merged-chr11-51915724-4	chr11	51915616	51915816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51915.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	92.5	152.0	86.5	1356.5	211.0	77.5	94.5	57.0
Merged-chr7-143008741-3	chr7	143008650	143008850	+	913.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020286, intron 2 of 7)	intron (NM_020286, intron 2 of 7)	3091.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	6.0	13.0	4.5	102.0	12.0	6.0	2.5	4.0
Merged-chr1-34460259-4	chr1	34460141	34460341	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 1 of 14)	intron (NM_011206, intron 1 of 14)	495.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	25.0	33.5	12.5	334.5	40.5	14.0	19.5	19.5
Merged-chr19-41264071-4	chr19	41263944	41264144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133352)	promoter-TSS (NM_133352)	-40.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	93.0	110.5	75.0	1243.5	204.0	113.5	92.0	79.5
Merged-chr14-32084954-4	chr14	32084853	32085053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145460)	promoter-TSS (NM_145460)	333.0	NR_104305	105638.0	Mm.2519	NM_172254	ENSMUSG00000021905	Dph3	DELGIP1|DelgipP1|Desr1|KTI11|Zcsl2	diphthamine biosynthesis 3	protein-coding	56.5	94.0	61.0	1115.0	125.0	51.0	70.5	44.0
Merged-chr15-85001556-4	chr15	85001454	85001654	+	891.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13583.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	13.0	16.5	11.5	196.5	49.5	19.5	18.0	17.0
Merged-chr9-64016697-4	chr9	64016599	64016799	+	929.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 1 of 3)	intron (NM_008542, intron 1 of 3)	5360.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	14.0	26.0	15.5	305.5	29.0	11.0	10.0	18.0
Merged-chr17-4995533-9	chr17	4995412	4995612	+	942.2037349999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085355, exon 1 of 20)	exon (NM_001085355, exon 1 of 20)	438.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	15.0	19.5	24.0	143.0	28.0	13.0	13.0	16.5
Merged-chr4-11481296-4	chr4	11481201	11481401	+	893.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4657.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	8.0	5.5	12.5	133.0	31.0	17.0	16.0	16.0
Merged-chr6-120531332-4	chr6	120531226	120531426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144815)	promoter-TSS (NM_144815)	-27.0	NM_144815	214932.0	Mm.255322	NM_144815	ENSMUSG00000058979	Hdhd5	A930002G03Rik|Cecr5	haloacid dehalogenase like hydrolase domain containing 5	protein-coding	60.5	81.0	64.0	713.5	122.0	57.0	105.0	90.0
Merged-chr6-6310395-3	chr6	6310297	6310497	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136905, intron 1 of 3)	Tigger1|DNA|TcMar-Tigger	61738.0	NR_136905	101056138.0	Mm.389085	NR_136904	ENSMUSG00000093482	Gm20619	-	predicted gene 20619	ncRNA	27.5	45.0	24.5	184.5	15.5	7.5	10.5	8.5
Merged-chr18-47330392-3	chr18	47330295	47330495	+	957.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311097, intron 1 of 17)	intron (NM_001311097, intron 1 of 17)	38473.0	NM_018744	20358.0	Mm.40909	NM_018744	ENSMUSG00000019647	Sema6a	A730020P05Rik|AI851735|Sema6A-1|Semaq|VIa	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	protein-coding	7.0	7.0	14.5	96.0	11.0	7.5	2.5	2.5
Merged-chr14-73041777-3	chr14	73041694	73041894	+	818.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162412, intron 2 of 4)	intron (NM_001162412, intron 2 of 4)	7320.0	NM_133720	70086.0	Mm.158324	NM_133720	ENSMUSG00000033470	Cysltr2	2300001H05Rik|CYSLT2R|Cltr2|Cyslt2	cysteinyl leukotriene receptor 2	protein-coding	5.5	6.0	8.0	102.0	7.5	4.0	13.5	4.0
Merged-chr2-130730943-4	chr2	130730872	130731072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 27 of 36)	intron (NM_029432, intron 27 of 36)	-33453.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	194.0	297.5	201.5	2901.5	420.0	144.0	200.0	163.0
Merged-chr3-95893352-3	chr3	95893240	95893440	+	825.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146134)	promoter-TSS (NM_146134)	-581.0	NM_146104	226548.0	Mm.306954	NM_146104	ENSMUSG00000015750	Aph1a	6530402N02Rik|APH-1a	aph1 homolog A, gamma secretase subunit	protein-coding	5.5	8.0	4.5	77.5	17.5	8.5	5.0	13.0
Merged-chr2-105904588-4	chr2	105904499	105904699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028260)	promoter-TSS (NM_028260)	-35.0	NM_023876	77766.0	Mm.3608	NM_023876	ENSMUSG00000027167	Elp4	A330107A17Rik|Paxneb	elongator acetyltransferase complex subunit 4	protein-coding	194.5	271.0	224.5	4705.0	524.0	187.5	248.5	194.5
Merged-chr10-25219376-2	chr10	25219276	25219476	+	949.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 7 of 7)	intron (NM_018747, intron 7 of 7)	-19206.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	6.0	6.0	6.5	75.5	12.5	5.5	7.0	9.5
Merged-chr17-57183075-3	chr17	57182991	57183191	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11090.0	NM_019418	50930.0	Mm.483369	NM_019418	ENSMUSG00000005824	Tnfsf14	HVEM-L|HVEML|LIGHT|LTg|Ly113|Tnlg1d	tumor necrosis factor (ligand) superfamily, member 14	protein-coding	5.5	10.0	2.0	81.0	12.0	5.0	6.0	8.0
Merged-chr9-64738121-3	chr9	64738013	64738213	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017382)	promoter-TSS (NM_017382)	-357.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	23.5	36.0	15.0	156.0	55.5	15.5	20.5	21.5
Merged-chr7-114817713-4	chr7	114817613	114817813	+	756.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173767, intron 7 of 12)	intron (NM_173767, intron 7 of 12)	71947.0	NM_173767	233752.0	Mm.83037	NM_173767	ENSMUSG00000048782	Insc	3830422K02Rik|C730020D23	INSC spindle orientation adaptor protein	protein-coding	10.5	10.0	8.5	89.0	37.0	8.5	13.5	18.0
Merged-chr15-86213363-6	chr15	86213216	86213416	+	964.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1143.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	6.5	8.5	11.0	122.0	9.0	12.5	10.5	11.0
Merged-chr17-22081226-3	chr17	22081129	22081329	+	977.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	84748.0	NM_177596	210853.0	Mm.441622	NM_177596	ENSMUSG00000063383	Zfp947	6720451E15|EG210853|Gm4769	zinc finger protein 947	protein-coding	3.0	1.5	5.0	66.5	94.0	39.0	37.0	29.0
Merged-chr4-119126905-2	chr4	119126763	119126963	+	993.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 2 of 9)	intron (NM_011400, intron 2 of 9)	18118.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	7.0	8.5	3.0	89.5	9.5	8.5	7.0	14.0
Merged-chr11-114887566-4	chr11	114887450	114887650	+	720.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-2491.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	9.5	7.0	13.0	100.5	28.5	5.0	5.5	12.5
Merged-chr13-75825118-1	chr13	75825018	75825218	+	749.5	f0_balb.idr	Intergenic	Intergenic	-14767.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	13.5	12.0	11.5	113.5	7.0	11.0	7.0	4.0
Merged-chr16-58502091-4	chr16	58502003	58502203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 2 of 10)	intron (NM_001357433, intron 2 of 10)	21323.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	235.5	240.0	318.5	3937.0	381.0	132.0	232.5	163.0
Merged-chr1-87901138-3	chr1	87901029	87901229	+	959.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177646, intron 3 of 29)	intron (NM_177646, intron 3 of 29)	-46830.0	NR_136921	100503175.0	Mm.426422	NR_136921	ENSMUSG00000101942	Gm19582	-	predicted gene, 19582	ncRNA	20.5	15.5	13.0	369.0	8.0	8.5	6.0	11.5
Merged-chr6-125350208-3	chr6	125350067	125350267	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	444.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	1.5	6.5	13.5	82.0	29.5	5.5	11.0	17.5
Merged-chr13-28420027-4	chr13	28419932	28420132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	277548.0	NM_023746	28078.0	Mm.155058	NM_023746	ENSMUSG00000017064	Prl5a1	1600013P04Rik|D13Wsu14e|Ghd24|PLP-L|Prlpl	prolactin family 5, subfamily a, member 1	protein-coding	102.0	93.5	81.5	1821.0	138.5	42.5	60.0	45.5
Merged-chr4-122836252-4	chr4	122836152	122836352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008917)	promoter-TSS (NM_008917)	25.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	34.5	56.5	16.0	444.5	58.5	38.5	36.5	21.0
Merged-chr13-37998306-3	chr13	37998210	37998410	+	763.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4102.0	NM_001360842	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	4.5	6.0	6.0	208.0	19.0	4.0	9.0	16.0
Merged-chr3-38187678-4	chr3	38187576	38187776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20443.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	26.5	45.0	70.5	983.0	137.5	66.0	69.0	73.5
Merged-chr6-31373218-4	chr6	31373125	31373325	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040300, intron 2 of 2)	intron (NR_040300, intron 2 of 2)	25548.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	17.0	21.5	23.5	427.5	50.5	10.5	13.0	21.0
Merged-chr18-34504071-1	chr18	34503971	34504171	+	747.0	f1_c57bl6.idr	intron (NM_146084, intron 1 of 20)	MTD|LTR|ERVL-MaLR	2752.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	0.0	7.0	5.0	64.5	19.5	5.0	5.5	6.0
Merged-chr5-135705528-4	chr5	135705445	135705645	+	962.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	B4A|SINE|B4	16400.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	8.0	9.5	28.0	542.5	32.5	12.0	18.5	29.5
Merged-chr4-133584368-4	chr4	133584266	133584466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133884)	promoter-TSS (NM_133884)	-7.0	NM_001290742	100210.0	Mm.274001	NM_133884	ENSMUSG00000028848	Gpn2	AI838661|Atpbd1b|R74630	GPN-loop GTPase 2	protein-coding	41.5	64.5	30.5	450.0	70.0	39.0	39.5	29.0
Merged-chr4-129823456-4	chr4	129823371	129823571	+	970.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164745, intron 1 of 5)	intron (NM_001164745, intron 1 of 5)	2763.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	23.5	10.0	13.0	313.0	36.0	17.0	2.0	4.5
Merged-chr17-73360467-1	chr17	73360367	73360567	+	555.0	f0_balb.idr	exon (NM_001033444, exon 5 of 23)	exon (NM_001033444, exon 5 of 23)	38829.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	5.0	8.0	11.5	90.5	5.5	4.0	6.0	8.5
Merged-chr18-9806713-3	chr18	9806616	9806816	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	URR1B|DNA|hAT-Charlie	99068.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	45.0	56.0	41.0	674.0	4.5	2.5	9.0	7.0
Merged-chr11-98589009-2	chr11	98588909	98589109	+	995.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Plat_L3|LINE|CR1	-1764.0	NM_025661	66612.0	Mm.180546	NM_025661	ENSMUSG00000038150	Ormdl3	2810011N17Rik|AI315223	ORM1-like 3 (S. cerevisiae)	protein-coding	5.0	11.0	4.5	51.0	19.0	4.0	2.5	6.5
Merged-chr8-70609620-4	chr8	70609536	70609736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1322.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	162.0	222.0	161.0	1981.0	396.0	129.5	176.5	157.0
Merged-chr9-111063037-4	chr9	111062943	111063143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5525.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	129.0	220.5	142.5	1763.0	191.5	58.5	58.0	46.5
Merged-chr5-103756425-4	chr5	103756361	103756561	+	932.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	1888.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	18.5	17.0	12.0	207.0	23.5	4.5	9.5	15.5
Merged-chr19-57404323-4	chr19	57404233	57404433	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43324.0	NM_145505	226252.0	Mm.358870	NM_145505	ENSMUSG00000033478	Fam160b1	AI450540|mKIAA1600	family with sequence similarity 160, member B1	protein-coding	13.0	23.0	23.5	323.5	38.0	13.0	16.5	15.0
Merged-chr12-41096256-3	chr12	41096151	41096351	+	908.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 3 of 6)	ORR1D2|LTR|ERVL-MaLR	72161.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	5.0	12.5	8.5	370.5	22.5	4.5	18.0	8.5
Merged-chr9-22366757-3	chr9	22366660	22366860	+	853.366699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028390, intron 8 of 23)	intron (NM_028390, intron 8 of 23)	22446.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	4.5	9.5	23.5	194.0	25.0	9.0	5.0	7.5
Merged-chr3-137946674-2	chr3	137946574	137946774	+	999.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	28119.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	31.5	30.0	17.0	235.5	52.5	11.0	20.5	19.5
Merged-chr12-40557899-4	chr12	40557795	40557995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	111842.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	38.5	72.0	24.0	205.0	87.5	43.0	41.5	31.5
Merged-chr5-21363481-4	chr5	21363395	21363595	+	821.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	L1MA5|LINE|L1	-9178.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	9.5	10.0	9.0	116.0	31.5	1.5	14.5	14.0
Merged-chr2-119167785-4	chr2	119167722	119167922	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177157)	promoter-TSS (NM_177157)	34.0	NM_177157	320415.0	Mm.86373	NM_177157	ENSMUSG00000046814	Gchfr	2010323F13Rik|GFRP|P35	GTP cyclohydrolase I feedback regulator	protein-coding	26.5	53.5	37.5	375.5	42.0	14.0	13.5	14.5
Merged-chr4-105158316-4	chr4	105158226	105158426	+	789.462524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 1 of 5)	CpG	979.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.5	13.5	10.5	200.5	21.0	8.5	15.0	10.0
Merged-chr2-165907296-3	chr2	165907220	165907420	+	661.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-22482.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	2.0	3.0	3.5	42.0	24.5	4.5	13.0	6.5
Merged-chr15-81960947-4	chr15	81960861	81961061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282040)	promoter-TSS (NM_001282040)	-31.0	NM_001282041	29858.0	Mm.18939	NM_013872	ENSMUSG00000022474	Pmm1	C77612	phosphomannomutase 1	protein-coding	153.5	282.5	155.5	2223.0	353.0	127.5	162.5	122.5
Merged-chr11-115613473-4	chr11	115613425	115613625	+	947.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243584)	promoter-TSS (NM_001243584)	-556.0	NM_001243587	69674.0	Mm.390387	NM_027162	ENSMUSG00000020743	Mif4gd	1110014L05Rik|2310075G12Rik	MIF4G domain containing	protein-coding	13.5	14.5	14.5	117.0	29.5	7.5	8.0	9.0
Merged-chr17-48323308-4	chr17	48323194	48323394	+	767.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177083, intron 5 of 5)	PB1D11|SINE|Alu	7132.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	7.0	10.0	8.0	80.0	23.0	11.0	4.0	7.0
Merged-chr7-118740709-4	chr7	118740633	118740833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027815, exon 1 of 31)	exon (NM_027815, exon 1 of 31)	462.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	74.5	139.5	84.5	911.0	255.0	86.5	102.5	78.5
Merged-chr8-123044170-4	chr8	123044056	123044256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045268, exon 1 of 1)	non-coding (NR_045268, exon 1 of 1)	1581.0	NR_045268	100503178.0	Mm.294938	NR_045268	ENSMUSG00000099881	2810013P06Rik	-	RIKEN cDNA 2810013P06 gene	ncRNA	195.5	288.5	110.5	2204.5	397.0	149.5	129.5	130.5
Merged-chr2-14159950-2	chr2	14159850	14160050	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14574.0	NM_001081310	625286.0	Mm.158781	NM_001081310	ENSMUSG00000061531	Tmem236	2010003H20Rik|Fam23a|Gm613	transmembrane protein 236	protein-coding	3.0	14.0	1.5	89.5	15.0	9.5	6.0	6.0
Merged-chr11-23846616-4	chr11	23846530	23846730	+	961.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48640.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	13.0	10.5	4.0	154.0	41.5	12.0	8.5	24.5
Merged-chr5-64341863-3	chr5	64341756	64341956	+	820.222229	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001289514, intron 17 of 18)	L1ME4c|LINE|L1	111499.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	10.5	6.5	10.0	127.0	19.0	8.0	14.0	5.5
Merged-chr12-81845213-4	chr12	81845079	81845279	+	918.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14851.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	15.5	27.5	21.0	187.0	22.0	11.0	11.5	11.5
Merged-chr6-115838491-4	chr6	115838390	115838590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110506)	promoter-TSS (NM_001110506)	-78.0	NM_001110506	212516.0	Mm.333333	NM_198603	ENSMUSG00000030321	Efcab12	BB124106	EF-hand calcium binding domain 12	protein-coding	24.5	47.0	23.5	272.5	88.5	41.0	27.0	30.5
Merged-chr9-75437177-4	chr9	75437118	75437318	+	761.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4306.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	6.0	8.0	6.0	65.0	19.5	7.5	6.5	14.0
Merged-chr14-40975308-4	chr14	40975160	40975360	+	945.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8364.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	3.0	14.5	5.5	132.0	29.5	13.5	17.5	14.0
Merged-chr15-99031512-4	chr15	99031382	99031582	+	857.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	PB1D9|SINE|Alu	1591.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	10.0	2.5	6.0	55.0	33.0	7.5	5.5	8.5
Merged-chr7-101620575-2	chr7	101620475	101620675	+	828.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39414.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	5.5	6.5	6.0	75.5	17.5	3.0	3.5	2.5
Merged-chr11-74469195-3	chr11	74469084	74469284	+	822.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 3 of 24)	ID_B1|SINE|B4	104513.0	NM_001011851	258153.0	Mm.376124	NM_001011851	ENSMUSG00000058275	Olfr412	MOR127-5P	olfactory receptor 412	protein-coding	7.0	9.5	15.5	64.5	12.5	7.5	4.5	9.5
Merged-chr2-165075107-3	chr2	165075011	165075211	+	704.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15639.0	NR_033448	72211.0	Mm.482899	NR_033448	ENSMUSG00000078935	1700025C18Rik	-	RIKEN cDNA 1700025C18 gene	ncRNA	2.0	14.5	0.5	68.5	25.0	6.5	14.5	8.5
Merged-chr17-65870340-4	chr17	65870258	65870458	+	892.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009067, intron 1 of 9)	B3A|SINE|B2	14565.0	NM_001198949	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	12.0	16.0	1.5	130.5	37.0	14.5	16.5	20.5
Merged-chr14-76152265-3	chr14	76152168	76152368	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41377.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	21.0	32.0	47.0	397.5	40.5	24.5	24.0	32.5
Merged-chr3-98087738-4	chr3	98087649	98087849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 5 of 33)	intron (NM_010928, intron 5 of 33)	-72885.0	NM_027665	71078.0	Mm.50711	NM_027665	ENSMUSG00000043468	Adam30	4933424D07Rik|svph4	a disintegrin and metallopeptidase domain 30	protein-coding	30.0	25.0	18.0	524.5	66.0	24.0	29.5	22.5
Merged-chr15-99393378-4	chr15	99393292	99393492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171035, intron 1 of 9)	CpG	173.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	33.0	40.0	29.5	510.5	94.5	32.0	33.5	38.0
Merged-chr18-88932319-1	chr18	88932219	88932419	+	786.666687	f0_balb.idr	Intergenic	Intergenic	-38112.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	6.5	15.0	13.5	726.5	1.0	0.0	4.5	2.5
Merged-chr2-48975210-4	chr2	48975099	48975299	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029924, intron 1 of 16)	intron (NM_029924, intron 1 of 16)	-24965.0	NM_001355296	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	23.5	37.5	33.0	550.0	39.0	18.0	17.5	16.5
Merged-chr18-57355350-1	chr18	57355250	57355450	+	814.0	f0_c57.idr	intron (NM_028447, intron 1 of 8)	intron (NM_028447, intron 1 of 8)	617.0	NM_028447	73137.0	Mm.29889	NM_028447	ENSMUSG00000024594	Prrc1	1190002C06Rik|2310058D16Rik|3110038B19Rik|9430085A19Rik	proline-rich coiled-coil 1	protein-coding	26.0	26.0	26.5	339.0	35.5	15.5	12.0	16.5
Merged-chr18-55341740-1	chr18	55341640	55341840	+	607.0	f0_balb.idr	Intergenic	Intergenic	-349149.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	6.5	5.5	134.5	0.0	1.5	6.0	1.5
Merged-chr16-30977423-4	chr16	30977337	30977537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	intron (NM_198626, intron 3 of 3)	103995.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	37.5	70.0	27.5	564.0	103.5	33.0	55.5	35.5
Merged-chr16-5203944-4	chr16	5203842	5204042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013796)	promoter-TSS (NM_013796)	70.0	NM_013796	27426.0	Mm.215641	NM_013796	ENSMUSG00000023143	Nagpa	AI596180|UCE	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase	protein-coding	50.5	40.0	42.0	542.5	71.0	36.5	34.0	33.0
Merged-chr14-120480715-3	chr14	120480669	120480869	+	874.6889039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029519, intron 1 of 1)	intron (NM_029519, intron 1 of 1)	2308.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	12.5	19.0	6.5	138.5	8.5	6.5	8.0	8.0
Merged-chr5-121451887-4	chr5	121451804	121452004	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029912)	promoter-TSS (NM_029912)	570.0	NM_026129	67397.0	Mm.154570	NM_026129	ENSMUSG00000029616	Erp29	1200015M03Rik|2810446M09Rik|AW209030|Erp28|Erp31|PDI-Db	endoplasmic reticulum protein 29	protein-coding	13.5	18.0	16.5	110.0	25.0	6.5	6.0	22.0
Merged-chr1-52703318-4	chr1	52703232	52703432	+	799.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357464, intron 2 of 7)	intron (NM_001357464, intron 2 of 7)	23986.0	NM_178081	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	16.5	24.5	15.5	375.0	10.5	2.0	12.5	9.5
Merged-chr1-167331326-4	chr1	167331232	167331432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001039483, exon 7 of 7)	3' UTR (NM_001039483, exon 7 of 7)	-18659.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	71.0	121.0	69.0	1278.5	233.5	78.0	89.0	94.0
Merged-chr3-9619729-3	chr3	9619623	9619823	+	886.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9638.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	5.5	21.0	11.5	302.5	18.0	1.5	11.5	4.0
Merged-chr7-89412390-4	chr7	89412301	89412501	+	708.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8035.0	NM_008055	14366.0	Mm.86755	NM_008055	ENSMUSG00000049791	Fzd4	Fz4	frizzled class receptor 4	protein-coding	16.5	8.5	17.5	301.0	1.0	1.5	0.5	3.0
Merged-chr1-37308816-4	chr1	37308703	37308903	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	8965.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	24.0	22.5	15.5	283.0	56.0	15.5	16.5	28.0
Merged-chr1-171826286-7	chr1	171826179	171826379	+	859.4523929999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEg2|LINE|L1	-13418.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	10.0	6.5	8.5	84.0	12.0	15.5	6.0	3.5
Merged-chr17-35813878-1	chr17	35813778	35813978	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-7835.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	21.5	26.5	35.5	274.0	41.0	13.0	14.5	13.5
Merged-chr13-98925664-4	chr13	98925559	98925759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 1 of 23)	intron (NM_178716, intron 1 of 23)	725.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	35.5	76.0	47.5	625.5	124.0	56.5	43.5	54.0
Merged-chr14-30616944-4	chr14	30616845	30617045	+	774.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	-6635.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	13.5	9.5	27.0	155.5	29.5	7.5	11.5	5.0
Merged-chr1-121509345-4	chr1	121509313	121509513	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010483)	TTS (NM_010483)	19052.0	NM_010483	15564.0	Mm.4833	NM_010483	ENSMUSG00000050534	Htr5b	5-Ht5b	5-hydroxytryptamine (serotonin) receptor 5B	protein-coding	13.5	40.0	13.0	116.5	54.5	13.0	21.0	20.0
Merged-chr3-115704442-4	chr3	115704342	115704542	+	725.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10613.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	8.0	9.5	15.5	163.5	28.0	9.5	15.5	17.5
Merged-chr17-34313102-3	chr17	34312958	34313158	+	881.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 2 of 5)	MTC|LTR|ERVL-MaLR	7191.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	5.0	3.5	1.0	17.5	28.0	6.0	5.0	7.5
Merged-chr3-137879497-4	chr3	137879388	137879588	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033155, intron 1 of 7)	RSINE1|SINE|B4	11813.0	NM_001033155	70604.0	Mm.256488	NM_001033155	ENSMUSG00000074212	Dnajb14	5730496F10Rik	DnaJ heat shock protein family (Hsp40) member B14	protein-coding	16.0	36.0	19.0	271.0	28.5	8.5	15.0	18.0
Merged-chr13-99299486-4	chr13	99299457	99299657	+	634.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45121.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	8.0	3.5	10.0	70.5	20.0	8.0	6.0	15.0
Merged-chr19-53554621-3	chr19	53554503	53554703	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25285.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	23.5	20.5	23.5	318.0	8.5	5.0	1.5	2.0
Merged-chr8-84978629-6	chr8	84978489	84978689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008416, exon 1 of 1)	5' UTR (NM_008416, exon 1 of 1)	159.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	169.0	243.0	115.5	1525.0	409.5	185.0	223.0	187.5
Merged-chr13-10109865-4	chr13	10109783	10109983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 3 of 4)	intron (NM_033269, intron 3 of 4)	250920.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	50.5	35.5	68.5	1273.0	66.0	34.0	63.5	41.0
Merged-chr5-67892388-4	chr5	67892274	67892474	+	895.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44943.0	NM_001038999	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	12.0	9.5	14.5	304.5	39.5	10.5	12.5	4.5
Merged-chr2-157566250-4	chr2	157566142	157566342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355426, exon 1 of 2)	5' UTR (NM_001355426, exon 1 of 2)	119.0	NM_001355426	53619.0	Mm.480461	NM_016916	ENSMUSG00000067787	Blcap	AI462828|Bc10	bladder cancer associated protein	protein-coding	48.5	92.5	57.5	403.5	76.0	35.5	27.5	29.0
Merged-chr17-13817953-4	chr17	13817844	13818044	+	904.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 5 of 33)	intron (NR_151731, intron 5 of 33)	-56550.0	NM_022311	21646.0	Mm.486358	NM_022311	ENSMUSG00000038347	Tcte2	AI429268|Tcte-2	t-complex-associated testis expressed 2	protein-coding	6.5	10.5	17.5	200.0	46.0	8.0	19.5	14.0
Merged-chr2-52591083-4	chr2	52590979	52591179	+	886.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	-32468.0	NM_001285427	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	19.0	14.0	18.0	163.0	46.0	11.0	17.0	11.0
Merged-chr8-104247215-4	chr8	104247111	104247311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045642, intron 2 of 8)	intron (NR_045642, intron 2 of 8)	1347.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	160.5	227.5	208.5	3382.5	367.5	89.5	205.0	138.0
Merged-chr2-84794139-4	chr2	84794050	84794250	+	883.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS4|LTR|ERV1	-4678.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	15.0	53.0	12.5	71.5	89.0	24.5	20.5	13.5
Merged-chr2-16220764-3	chr2	16220658	16220858	+	702.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 37 of 38)	intron (NM_001310455, intron 37 of 38)	-135546.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	6.0	6.5	10.0	168.5	17.5	9.0	6.0	0.5
Merged-chr14-86781788-1	chr14	86781688	86781888	+	601.0	f0_balb.idr	intron (NM_019670, intron 25 of 27)	intron (NM_019670, intron 25 of 27)	359436.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	5.0	4.5	5.0	112.5	5.5	0.0	1.5	1.5
Merged-chr1-9772939-4	chr1	9772844	9773044	+	924.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24562.0	NM_173443	70675.0	Mm.274493	NM_173443	ENSMUSG00000045210	Vcpip1	4932442A08|5730421J18Rik|5730538E15Rik|VCIP135|mKIAA1850	valosin containing protein (p97)/p47 complex interacting protein 1	protein-coding	13.5	14.0	3.0	250.0	50.5	11.0	17.0	15.5
Merged-chr9-75312182-4	chr9	75312074	75312274	+	742.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010313, intron 2 of 12)	intron (NM_010313, intron 2 of 12)	-1894.0	NR_073186	14697.0	Mm.17604	NM_010313	ENSMUSG00000032192	Gnb5	GBS|Gbeta5|flr	guanine nucleotide binding protein (G protein), beta 5	protein-coding	5.0	10.0	4.0	129.5	15.0	5.0	9.5	5.5
Merged-chr11-118242854-4	chr11	118242737	118242937	+	817.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	5755.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	12.0	5.5	7.0	132.0	33.0	7.5	6.0	16.5
Merged-chr13-49178072-4	chr13	49177980	49178180	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-9467.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	31.5	69.0	15.0	183.0	97.5	55.5	34.5	23.5
Merged-chr16-10846657-4	chr16	10846542	10846742	+	696.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11583.0	NM_001162932	223970.0	Mm.325777	NM_001033278	ENSMUSG00000037991	Rmi2	A630055G03Rik|Gm537|Gm929	RecQ mediated genome instability 2	protein-coding	5.5	13.0	3.0	146.0	14.0	10.0	11.5	12.5
Merged-chr14-52019701-6	chr14	52019682	52019882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253694)	promoter-TSS (NM_001253694)	-69.0	NM_001253694	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	105.5	169.5	96.0	1706.0	362.5	192.5	228.5	152.5
Merged-chr19-8921209-3	chr19	8921131	8921331	+	877.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024256, intron 1 of 4)	intron (NM_024256, intron 1 of 4)	838.0	NM_024256	72727.0	Mm.259	NM_024256	ENSMUSG00000071649	B3gat3	2810405M13Rik	beta-1,3-glucuronyltransferase 3 (glucuronosyltransferase I)	protein-coding	3.5	10.0	3.0	81.0	23.5	4.5	9.0	7.5
Merged-chr6-65585595-4	chr6	65585493	65585693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4805.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	35.0	60.0	75.0	1002.0	125.5	46.5	62.5	36.5
Merged-chr4-134729005-4	chr4	134728906	134729106	+	955.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-24716.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	15.5	26.0	18.0	351.5	41.5	8.5	15.5	28.5
Merged-chr2-52858660-7	chr2	52858448	52858648	+	945.642883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	CpG	680.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	7.5	16.0	9.0	162.5	20.5	5.5	7.0	8.0
Merged-chr3-121294403-3	chr3	121294306	121294506	+	804.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 1 of 2)	B2_Mm2|SINE|B2	2666.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	4.5	8.5	6.0	24.0	24.0	7.0	13.5	8.0
Merged-chr9-97018943-3	chr9	97018826	97019026	+	683.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145134)	promoter-TSS (NM_145134)	-571.0	NM_145134	211949.0	Mm.491271	NM_145134	ENSMUSG00000046997	Spsb4	D030068E18Rik|SSB-4|Ssb4	splA/ryanodine receptor domain and SOCS box containing 4	protein-coding	5.0	6.5	5.5	92.5	15.5	6.0	15.5	13.0
Merged-chr4-126083990-3	chr4	126083843	126084043	+	929.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172701, intron 6 of 9)	ID_B1|SINE|B4	-12710.0	NM_001163266	116748.0	Mm.41865	NM_138721	ENSMUSG00000050188	Lsm10	-	U7 snRNP-specific Sm-like protein LSM10	protein-coding	3.0	4.0	1.5	43.0	29.0	11.0	16.0	9.5
Merged-chr12-41407822-3	chr12	41407725	41407925	+	864.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	ORR1C1-int|LTR|ERVL-MaLR	78232.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	15.5	18.0	12.0	162.0	22.0	2.0	5.0	4.0
Merged-chr11-116021473-5	chr11	116021367	116021567	+	865.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008211)	TTS (NM_008211)	3037.0	NM_008211	15081.0	Mm.18516	NM_008211	ENSMUSG00000016559	H3f3b	9430068D06Rik|H3.3B	H3 histone, family 3B	protein-coding	10.5	24.5	11.0	108.0	15.0	14.0	13.0	18.5
Merged-chr8-125198607-3	chr8	125198589	125198789	+	748.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 9 of 12)	intron (NM_174854, intron 9 of 12)	144494.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	11.5	52.5	28.5	312.5	2.0	1.5	0.0	2.5
Merged-chr15-25412690-10	chr15	25412578	25412778	+	980.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	CpG	1086.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	19.0	11.0	21.0	228.0	29.0	9.0	13.0	21.0
Merged-chr2-150841334-4	chr2	150841228	150841428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 6 of 12)	B2_Mm2|SINE|B2	1242.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	29.5	34.5	23.5	387.0	74.5	28.5	27.5	29.5
Merged-chr9-65551636-2	chr9	65551536	65551736	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_153119)	TTS (NM_153119)	28451.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	7.5	5.0	9.0	47.5	14.5	1.0	0.5	4.0
Merged-chr9-108201320-4	chr9	108201216	108201416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10933.0	NM_007567	12217.0	Mm.20425	NM_007567	ENSMUSG00000032589	Bsn	-	bassoon	protein-coding	162.0	307.5	119.5	2022.0	391.5	169.0	188.0	172.5
Merged-chr8-11756047-4	chr8	11755959	11756159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113517, intron 1 of 18)	Tigger17|DNA|TcMar-Tigger	-2271.0	NM_017402	54126.0	Mm.244068	NM_017402	ENSMUSG00000031511	Arhgef7	Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR	Rho guanine nucleotide exchange factor (GEF7)	protein-coding	42.5	84.0	44.0	704.0	142.0	53.0	26.5	41.5
Merged-chr2-51981890-4	chr2	51981803	51982003	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8695.0	NM_001141948	64685.0	Mm.7491	NM_019401	ENSMUSG00000026946	Nmi	-	N-myc (and STAT) interactor	protein-coding	15.0	19.5	20.0	169.0	19.5	7.5	15.0	12.5
Merged-chr1-57430918-1	chr1	57430818	57431018	+	690.0	f0_balb.idr	Intergenic	Intergenic	-24244.0	NM_001302963	68736.0	Mm.288490	NM_001037742	ENSMUSG00000048495	Tyw5	1110034B05Rik	tRNA-yW synthesizing protein 5	protein-coding	5.0	14.5	5.5	109.0	10.0	3.0	5.5	4.0
Merged-chr3-146404595-4	chr3	146404515	146404715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253768)	promoter-TSS (NM_001253768)	-27.0	NM_001253769	99167.0	Mm.200783	NM_138744	ENSMUSG00000036825	Ssx2ip	AU014939|AU042321|Adip	synovial sarcoma, X 2 interacting protein	protein-coding	106.5	142.0	94.5	1518.5	290.0	83.5	175.0	92.5
Merged-chr9-110676814-4	chr9	110676707	110676907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	20304.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	188.5	289.5	231.0	3019.0	347.5	153.5	175.5	178.0
Merged-chr3-137953359-4	chr3	137953260	137953460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	28189.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	44.0	75.0	52.5	1087.5	139.0	52.0	72.0	48.0
Merged-chr14-56812904-4	chr14	56812805	56813005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152252, exon 1 of 1)	non-coding (NR_152252, exon 1 of 1)	916.0	NR_152252	100503842.0	Mm.297636	NR_152252	ENSMUSG00000100017	2410022M11Rik	-	RIKEN cDNA 2410022M11 gene	ncRNA	49.0	60.0	22.5	417.5	122.0	61.0	51.0	57.5
Merged-chr7-114194483-4	chr7	114194374	114194574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	60206.0	NM_033370	70349.0	Mm.277024	NM_033370	ENSMUSG00000030754	Copb1	2610019B04Rik	coatomer protein complex, subunit beta 1	protein-coding	23.5	28.5	25.5	519.5	83.0	25.5	36.5	37.5
Merged-chr16-45375987-3	chr16	45375875	45376075	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33078.0	NM_001358443	17470.0	Mm.245851	NM_010818	ENSMUSG00000022661	Cd200	Mox2|OX2	CD200 antigen	protein-coding	32.0	32.5	33.5	461.5	7.0	3.0	3.5	3.5
Merged-chr11-59208730-1	chr11	59208630	59208830	+	1000.0	f0_c57.idr	intron (NM_024210, intron 1 of 6)	intron (NM_024210, intron 1 of 6)	369.0	NM_024210	67862.0	Mm.358708	NM_024210	ENSMUSG00000020441	2310033P09Rik	Mmtag2	RIKEN cDNA 2310033P09 gene	protein-coding	22.5	26.5	19.5	241.5	76.5	17.5	22.5	16.5
Merged-chr4-71252440-4	chr4	71252323	71252523	+	798.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-717495.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	6.5	3.0	13.0	416.5	20.5	4.5	24.0	13.5
Merged-chr1-20454862-1	chr1	20454762	20454962	+	812.666687	f0_balb.idr	intron (NM_153179, intron 35 of 66)	intron (NM_153179, intron 35 of 66)	98408.0	NR_045734	75028.0	Mm.417820	NR_045734	ENSMUSG00000089914	4930486I03Rik	-	RIKEN cDNA 4930486I03 gene	ncRNA	10.5	12.5	7.0	255.0	2.5	8.0	6.5	4.0
Merged-chr13-58521194-3	chr13	58521122	58521322	+	779.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	89655.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	12.0	8.0	13.0	104.0	12.0	2.5	5.0	12.5
Merged-chr3-122274297-4	chr3	122274195	122274395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153806)	promoter-TSS (NM_153806)	-119.0	NM_153806	99480.0	Mm.398647	NM_153806	ENSMUSG00000039756	Dnttip2	4930588M11Rik|AA408582|AU014960|HSU15552	deoxynucleotidyltransferase, terminal, interacting protein 2	protein-coding	242.0	421.0	275.5	4947.5	627.0	219.5	318.5	227.5
Merged-chr2-90486521-4	chr2	90486377	90486577	+	854.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-7303.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	9.5	8.0	9.0	178.0	18.0	8.5	11.0	15.0
Merged-chr11-120938128-3	chr11	120938046	120938246	+	864.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5274.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	5.0	19.0	1.0	39.5	30.5	6.0	7.5	16.5
Merged-chr3-88950086-4	chr3	88950003	88950203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_022994, exon 1 of 13)	5' UTR (NM_022994, exon 1 of 13)	179.0	NM_022994	65111.0	Mm.29028	NM_022994	ENSMUSG00000068921	Dap3	4921514D13Rik|DAP-3|MRP-S29|S29mt	death associated protein 3	protein-coding	45.5	62.0	117.5	649.0	86.0	52.0	46.0	56.5
Merged-chr4-16169047-4	chr4	16168953	16169153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 1 of 6)	intron (NR_045765, intron 1 of 6)	4943.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	26.0	21.0	40.0	543.5	109.5	18.5	40.0	25.5
Merged-chr8-86921107-4	chr8	86920979	86921179	+	994.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35821.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	13.5	18.5	17.0	211.5	35.5	13.0	20.0	16.0
Merged-chr16-17646446-4	chr16	17646338	17646538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166164)	promoter-TSS (NM_001166164)	-32.0	NM_001166164	72315.0	Mm.297777	NM_001166164	ENSMUSG00000041617	Ccdc74a	2310015A05Rik	coiled-coil domain containing 74A	protein-coding	123.0	167.0	105.0	2416.0	216.5	63.5	109.5	89.0
Merged-chr9-118608718-5	chr9	118608506	118608706	+	989.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	1897.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	15.0	31.0	22.5	479.0	32.5	21.5	32.0	47.5
Merged-chr17-48039676-3	chr17	48039560	48039760	+	844.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1367.0	NM_029689	76651.0	Mm.76918	NM_029689	ENSMUSG00000094928	1700122O11Rik	-	RIKEN cDNA 1700122O11 gene	protein-coding	10.0	16.0	16.0	93.0	26.5	3.0	7.0	8.0
Merged-chr11-97151113-2	chr11	97151013	97151213	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1401.0	NM_198100	73174.0	Mm.27882	NM_198100	ENSMUSG00000038517	Tbkbp1	3110043L15Rik|ProSAPiP2|SINTBAD	TBK1 binding protein 1	protein-coding	8.0	7.5	0.5	59.5	14.0	5.0	6.5	6.5
Merged-chr19-57393576-4	chr19	57393474	57393674	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	32565.0	NM_145505	226252.0	Mm.358870	NM_145505	ENSMUSG00000033478	Fam160b1	AI450540|mKIAA1600	family with sequence similarity 160, member B1	protein-coding	14.5	12.0	21.0	295.0	22.5	2.0	11.5	17.0
Merged-chr2-91412510-4	chr2	91412389	91412589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 2 of 8)	intron (NM_175123, intron 2 of 8)	32225.0	NM_001311144	228356.0	Mm.386861	NM_175123	ENSMUSG00000040591	1110051M20Rik	AI586322	RIKEN cDNA 1110051M20 gene	protein-coding	139.0	232.0	125.5	2151.5	338.5	96.5	131.0	127.5
Merged-chr5-101995633-4	chr5	101995543	101995743	+	923.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	74278.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	15.5	24.5	11.5	149.0	54.5	16.0	17.0	17.0
Merged-chr10-21502549-3	chr10	21502414	21502614	+	910.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90631.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	10.5	12.5	12.5	285.0	28.0	6.0	5.5	6.5
Merged-chr2-72373802-4	chr2	72373693	72373893	+	911.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 7 of 19)	intron (NM_023057, intron 7 of 19)	88092.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	11.5	32.5	12.5	99.5	77.5	20.0	13.0	15.0
Merged-chr11-121769009-4	chr11	121768909	121769109	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61209.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	23.0	35.5	14.0	245.0	41.5	16.5	23.5	30.0
Merged-chr2-31731088-3	chr2	31730989	31731189	+	737.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283047, intron 2 of 11)	intron (NM_001283047, intron 2 of 11)	-28850.0	NM_009594	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	10.5	10.5	5.0	98.0	35.0	1.5	4.5	7.5
Merged-chr1-178329220-4	chr1	178329110	178329310	+	820.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016805, exon 14 of 14)	3' UTR (NM_016805, exon 14 of 14)	8605.0	NM_016805	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	12.5	5.5	14.0	125.0	25.5	10.5	4.5	11.5
Merged-chr1-144004943-4	chr1	144004841	144005041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009061)	promoter-TSS (NM_009061)	-792.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	49.0	70.0	35.0	750.0	100.5	30.5	46.0	49.5
Merged-chr7-35742339-4	chr7	35742211	35742411	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 3 of 18)	intron (NM_178704, intron 3 of 18)	12143.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	21.5	65.5	47.5	724.5	1.0	2.5	0.5	1.5
Merged-chr13-22041365-4	chr13	22041273	22041473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175656)	promoter-TSS (NM_175656)	-11.0	NM_175656	319158.0	Mm.14775	NM_175656	ENSMUSG00000060639	Hist1h4i	-	histone cluster 1, H4i	protein-coding	102.5	121.5	73.5	1385.0	216.0	112.0	142.0	99.5
Merged-chr11-60537311-1	chr11	60537211	60537411	+	1000.0	f0_c57.idr	promoter-TSS (NM_172943)	promoter-TSS (NM_172943)	-372.0	NM_172943	268420.0	Mm.262056	NM_172943	ENSMUSG00000042650	Alkbh5	AW050020|AW215868|Abh5|E130207K11|Ofoxd	alkB homolog 5, RNA demethylase	protein-coding	31.0	75.0	27.0	293.5	79.5	48.0	29.5	39.0
Merged-chr6-22398237-3	chr6	22398146	22398346	+	857.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42165.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	5.5	8.5	5.5	93.0	23.0	4.5	8.0	13.5
Merged-chr11-69546533-4	chr11	69546398	69546598	+	750.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 1 of 85)	intron (NM_001081330, intron 1 of 85)	2610.0	NM_001081330	327954.0	Mm.247478	NM_177617	ENSMUSG00000005237	Dnah2	2900022L05Rik|4930564A01|D130094J20|D330014H01Rik|Dnahc2|Dnhd3	dynein, axonemal, heavy chain 2	protein-coding	8.5	4.0	1.5	122.0	14.0	10.0	5.5	8.5
Merged-chr4-16101580-4	chr4	16101522	16101722	+	846.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62021.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	8.0	6.5	32.0	430.0	11.0	8.5	7.0	10.0
Merged-chr5-99246354-3	chr5	99246340	99246540	+	886.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	RLTR20C2_MM|LTR|ERVK	6487.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	3.5	17.0	6.5	44.0	19.5	5.0	8.5	8.5
Merged-chr11-94070567-4	chr11	94070467	94070667	+	824.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025428, intron 4 of 26)	MLTR14|LTR|ERV1	26362.0	NM_001025429	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	12.0	44.0	10.5	324.5	29.5	21.5	14.0	11.5
Merged-chr4-122808317-3	chr4	122808217	122808417	+	885.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-27910.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	9.5	15.0	5.5	125.5	32.0	4.5	9.0	7.0
Merged-chr15-59822328-3	chr15	59822235	59822435	+	833.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27376.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	5.0	5.5	5.0	152.5	26.5	2.0	6.5	10.5
Merged-chr18-34181381-3	chr18	34181254	34181454	+	901.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39630.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	2.5	1.0	4.0	40.5	47.0	12.5	22.5	14.0
Merged-chr2-4508142-4	chr2	4508031	4508231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	intron (NM_001177843, intron 5 of 23)	-51623.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	143.0	245.0	162.5	2372.0	313.0	142.0	165.5	141.5
Merged-chr10-89732340-4	chr10	89732225	89732425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359468)	promoter-TSS (NM_001359468)	-30.0	NM_025914	67019.0	Mm.335292	NM_025914	ENSMUSG00000019948	Actr6	2010200J04Rik|AU044443|Arp6|ArpX|CDA12	ARP6 actin-related protein 6	protein-coding	64.5	104.5	52.0	1337.0	221.0	74.5	115.5	83.0
Merged-chr4-138345130-4	chr4	138345058	138345258	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028176, intron 2 of 3)	intron (NM_028176, intron 2 of 3)	-18862.0	NM_026880	68943.0	Mm.18539	NM_026880	ENSMUSG00000028756	Pink1	1190006F07Rik|AU042772|AW557854|BRPK|mFLJ00387	PTEN induced putative kinase 1	protein-coding	27.0	52.5	31.0	320.0	22.5	16.5	17.0	32.0
Merged-chr16-10489762-4	chr16	10489635	10489835	+	819.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243761)	promoter-TSS (NM_001243761)	-46.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	11.5	6.5	7.5	114.5	23.0	5.5	10.0	7.5
Merged-chr9-95681507-4	chr9	95681444	95681644	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029620, exon 5 of 9)	exon (NM_029620, exon 5 of 9)	43916.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	15.5	21.0	14.0	198.0	63.0	21.0	50.0	26.0
Merged-chr4-141976301-3	chr4	141976206	141976406	+	848.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 5 of 31)	intron (NM_177868, intron 5 of 31)	-6686.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	2.0	7.5	5.5	46.0	28.5	6.0	11.5	16.0
Merged-chr8-30840286-1	chr8	30840186	30840386	+	568.0	f0_c57.idr	Intergenic	Intergenic	-249241.0	NM_025869	66959.0	Mm.23916	NM_025869	ENSMUSG00000039661	Dusp26	2310043K02Rik|Skrp3	dual specificity phosphatase 26 (putative)	protein-coding	0.5	3.0	2.0	19.0	32.5	8.5	7.5	11.0
Merged-chr15-31532206-4	chr15	31532109	31532309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-1172.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	36.0	23.5	22.0	467.0	67.0	19.0	34.5	26.5
Merged-chr1-172312353-4	chr1	172312256	172312456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080419)	promoter-TSS (NM_080419)	-11.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	98.0	208.5	121.5	1449.5	220.5	70.0	94.5	69.5
Merged-chr2-46360507-4	chr2	46360394	46360594	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	663889.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	16.5	25.0	32.5	416.5	61.5	18.5	39.5	32.0
Merged-chr10-7207590-4	chr10	7207483	7207683	+	961.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 1 of 12)	intron (NM_172546, intron 1 of 12)	4654.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	11.0	17.5	7.5	324.5	74.5	23.0	44.0	38.0
Merged-chr5-30344083-3	chr5	30343985	30344185	+	853.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033460, intron 2 of 15)	intron (NM_001033460, intron 2 of 15)	2422.0	NM_001033460	381738.0	Mm.389604	NM_001033460	ENSMUSG00000073102	Drc1	Ccdc164|Gm1060|b2b1654Clo	dynein regulatory complex subunit 1	protein-coding	12.0	24.0	4.5	155.0	10.5	13.5	11.0	8.0
Merged-chr2-30135451-4	chr2	30135367	30135567	+	882.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146252, intron 2 of 11)	intron (NM_146252, intron 2 of 11)	1721.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	8.5	14.5	5.0	174.0	37.0	9.0	14.5	10.0
Merged-chr5-35215765-3	chr5	35215665	35215865	+	678.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62801.0	NM_007418	11553.0	Mm.57205	NM_007418	ENSMUSG00000045318	Adra2c	Adra-2c|[a]2C|alpha2-C4|alpha2C	adrenergic receptor, alpha 2c	protein-coding	7.0	14.0	4.0	59.0	26.0	8.5	11.5	14.0
Merged-chr11-22657167-2	chr11	22657067	22657267	+	647.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144884.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	0.0	11.5	3.0	45.5	7.0	9.0	7.0	9.5
Merged-chr15-102224687-4	chr15	102224622	102224822	+	880.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013566, exon 3 of 15)	exon (NM_013566, exon 3 of 15)	7213.0	NM_013566	16421.0	Mm.58	NM_013566	ENSMUSG00000001281	Itgb7	Ly69	integrin beta 7	protein-coding	13.5	29.5	13.0	140.0	30.5	7.5	18.0	12.0
Merged-chr18-54983285-4	chr18	54983189	54983389	+	867.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	6891.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	23.5	20.5	12.0	259.0	57.5	11.5	15.5	24.0
Merged-chr18-31766922-4	chr18	31766813	31767013	+	605.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153515, intron 2 of 7)	intron (NM_153515, intron 2 of 7)	6297.0	NM_001242430	225339.0	Mm.290804	NM_153515	ENSMUSG00000041915	Ammecr1l	5430429D03Rik|AU022236|AU040755|AW111353|E230022H04Rik	AMME chromosomal region gene 1-like	protein-coding	5.0	11.0	7.5	56.0	19.5	10.5	20.0	15.5
Merged-chr2-101871368-4	chr2	101871245	101871445	+	882.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	11682.0	NM_001355625	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	13.0	12.0	22.0	168.0	45.0	11.0	12.5	3.5
Merged-chr17-8506251-3	chr17	8506151	8506351	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20550.0	NM_001290707	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	54.0	27.5	29.5	395.0	7.0	4.0	2.5	0.5
Merged-chr5-140731246-4	chr5	140731130	140731330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	7103.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	53.0	51.5	35.5	714.5	106.0	32.5	35.5	80.5
Merged-chr1-152581305-4	chr1	152581215	152581415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	43902.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	165.5	265.0	129.5	1651.0	370.5	156.5	139.5	129.0
Merged-chr4-139242638-4	chr4	139242545	139242745	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 2 of 9)	intron (NM_001037761, intron 2 of 9)	48534.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	42.5	53.5	42.0	936.0	38.5	14.5	31.5	36.5
Merged-chr2-25263221-3	chr2	25263135	25263335	+	848.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175286, exon 1 of 4)	exon (NM_175286, exon 1 of 4)	637.0	NM_175286	97031.0	Mm.308539	NM_175286	ENSMUSG00000048707	Tprn	C430004E15Rik|C87750	taperin	protein-coding	5.5	13.5	11.0	77.0	20.5	6.5	4.0	9.5
Merged-chr17-80206825-4	chr17	80206716	80206916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360435, intron 1 of 6)	CpG	489.0	NM_001195486	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	78.0	122.5	110.5	1615.0	312.5	120.5	133.5	128.0
Merged-chr15-99225555-2	chr15	99225455	99225655	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010601, intron 1 of 14)	intron (NM_010601, intron 1 of 14)	579.0	NM_010601	16512.0	Mm.374793	NM_010601	ENSMUSG00000037579	Kcnh3	AU019351|C030044P22Rik|Elk2|Kv12.2|Melk2	potassium voltage-gated channel, subfamily H (eag-related), member 3	protein-coding	5.5	9.0	10.0	51.5	9.5	3.5	9.0	1.5
Merged-chr8-90909411-5	chr8	90909239	90909439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	CpG	-22910.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	19.5	36.5	34.5	336.5	54.0	23.0	20.5	34.0
Merged-chr2-160210032-4	chr2	160209955	160210155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117439.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	67.0	94.0	72.5	940.5	168.5	63.5	85.5	71.0
Merged-chr2-18952243-3	chr2	18952143	18952343	+	864.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	45878.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	15.5	14.0	12.0	198.0	17.0	5.0	12.0	2.0
Merged-chr16-35768545-4	chr16	35768418	35768618	+	981.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	intron (NM_153550, intron 1 of 8)	838.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	34.5	61.5	13.5	209.0	48.5	38.5	18.0	12.0
Merged-chr7-83597058-4	chr7	83596953	83597153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177695, intron 4 of 22)	intron (NM_177695, intron 4 of 22)	12122.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	24.0	50.0	31.0	269.0	121.0	36.0	56.5	23.0
Merged-chr14-30190580-4	chr14	30190487	30190687	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 4 of 46)	L1VL4|LINE|L1	162899.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	18.5	19.5	21.5	133.5	36.5	13.5	20.5	17.5
Merged-chr6-53968608-4	chr6	53968506	53968706	+	954.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027749, intron 2 of 12)	intron (NM_027749, intron 2 of 12)	10067.0	NM_027749	71287.0	Mm.158654	NM_027749	ENSMUSG00000052955	Cpvl	4933436L16Rik|HVLP	carboxypeptidase, vitellogenic-like	protein-coding	23.5	16.0	10.5	326.0	38.0	12.0	28.0	16.5
Merged-chr16-38475693-7	chr16	38475576	38475776	+	907.642883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359898, intron 2 of 5)	intron (NM_001359898, intron 2 of 5)	16743.0	NM_009855	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	5.5	15.5	6.0	45.0	14.5	4.5	7.5	9.5
Merged-chr8-22708060-4	chr8	22707977	22708177	+	881.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1494.0	NM_001159774	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	9.5	25.0	11.0	267.5	28.5	10.5	9.5	8.0
Merged-chr19-5592056-4	chr19	5591955	5592155	+	856.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9818.0	NM_026616	68209.0	Mm.246200	NM_026616	ENSMUSG00000024925	Rnaseh2c	1500026D16Rik|AYP1	ribonuclease H2, subunit C	protein-coding	15.0	17.0	11.0	207.5	29.5	11.0	12.5	9.5
Merged-chr4-43520132-4	chr4	43520035	43520235	+	930.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277875, intron 2 of 8)	intron (NM_001277875, intron 2 of 8)	3419.0	NM_009416	22004.0	Mm.646	NM_009416	ENSMUSG00000028464	Tpm2	Tpm-2|Trop-2	tropomyosin 2, beta	protein-coding	23.5	23.5	14.0	392.0	44.0	21.5	15.5	17.0
Merged-chr7-84152158-4	chr7	84152047	84152247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133722)	promoter-TSS (NM_133722)	-254.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	136.0	215.0	116.0	2098.5	304.5	120.5	189.5	82.5
Merged-chr12-79725864-3	chr12	79725794	79725994	+	764.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 8 of 10)	intron (NM_009014, intron 8 of 10)	198839.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	9.0	8.0	8.0	95.0	10.5	1.0	6.0	8.0
Merged-chr17-44734708-3	chr17	44734587	44734787	+	660.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073392, intron 2 of 7)	CpG	1489.0	NR_073425	12393.0	Mm.391013	NM_009820	ENSMUSG00000039153	Runx2	AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a	runt related transcription factor 2	protein-coding	4.5	14.0	17.0	169.5	4.5	3.5	7.5	5.5
Merged-chr14-26970607-4	chr14	26970511	26970711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145221)	promoter-TSS (NM_145221)	-60.0	NM_145221	72993.0	Mm.202322	NM_145221	ENSMUSG00000040760	Appl1	2900057D21Rik|7330406P05Rik|AI585782|AW209077|BB022931|C88264|DIP13	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 1	protein-coding	259.0	372.5	250.0	3796.5	565.0	201.5	311.5	231.0
Merged-chr10-80174964-3	chr10	80174898	80175098	+	871.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027207, exon 3 of 3)	3' UTR (NM_027207, exon 3 of 3)	2054.0	NM_027207	69770.0	Mm.302754	NM_027207	ENSMUSG00000035595	1600002K03Rik	-	RIKEN cDNA 1600002K03 gene	protein-coding	7.5	9.0	9.0	52.0	23.0	6.5	5.5	8.5
Merged-chr1-178144925-1	chr1	178144825	178145025	+	616.0	f0_balb.idr	intron (NR_155538, intron 17 of 21)	intron (NR_155538, intron 17 of 21)	-42492.0	NM_024282	78825.0	Mm.440132	NM_024282	ENSMUSG00000026502	Desi2	5830417C01Rik|DeSI-2|Fam152a|Pppde1	desumoylating isopeptidase 2	protein-coding	8.5	11.5	9.5	84.5	5.0	5.5	3.5	8.0
Merged-chr12-83860908-4	chr12	83860791	83860991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073564, intron 2 of 12)	MTEa|LTR|ERVL-MaLR	15921.0	NM_001272056	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	43.0	66.0	28.0	505.5	104.5	29.0	49.0	51.0
Merged-chr18-69575487-4	chr18	69575365	69575565	+	950.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	229305.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	16.0	10.0	14.0	223.0	23.0	2.0	14.0	10.5
Merged-chr5-99297333-4	chr5	99297229	99297429	+	927.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_030692)	TTS (NR_030692)	-44402.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	14.0	23.5	16.0	377.0	31.5	12.0	9.5	12.0
Merged-chr7-120150419-4	chr7	120150319	120150519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5128.0	NM_011775	22787.0	Mm.6510	NM_011775	ENSMUSG00000030911	Zp2	Zp-2	zona pellucida glycoprotein 2	protein-coding	120.5	210.0	160.0	2952.0	378.5	139.5	192.5	169.0
Merged-chr2-120564671-4	chr2	120564562	120564762	+	920.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011743)	promoter-TSS (NM_011743)	-803.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	11.0	33.0	6.0	138.5	47.5	16.5	17.5	15.0
Merged-chr11-75644921-4	chr11	75644829	75645029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008916, intron 7 of 11)	MIRc|SINE|MIR	-6580.0	NM_008659	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	35.5	53.0	27.5	572.5	86.0	23.0	45.0	35.0
Merged-chr13-81793982-4	chr13	81793872	81794072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007684, intron 4 of 4)	intron (NM_007684, intron 4 of 4)	10725.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	37.0	41.0	33.0	562.0	84.0	38.0	50.0	20.5
Merged-chr6-97394692-4	chr6	97394594	97394794	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 6 of 23)	L1MEc|LINE|L1	64592.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	37.0	48.5	30.0	385.0	56.0	23.0	40.0	16.5
Merged-chr19-28963978-4	chr19	28963886	28964086	+	976.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028922)	promoter-TSS (NM_028922)	66.0	NM_028922	74411.0	Mm.441887	NM_028922	ENSMUSG00000040105	Plpp6	4932443D16Rik|Ppapdc2	phospholipid phosphatase 6	protein-coding	22.5	29.5	17.0	453.0	51.0	10.0	22.0	23.5
Merged-chr17-43012905-4	chr17	43012801	43013001	+	760.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3654.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	8.5	13.0	9.0	110.5	38.0	17.0	7.5	6.5
Merged-chr10-78185164-4	chr10	78185054	78185254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029546)	promoter-TSS (NM_029546)	-5.0	NM_029546	110816.0	Mm.103522	NM_029546	ENSMUSG00000032834	Pwp2	6530411D08Rik|Pwp2h|wdp103	PWP2 periodic tryptophan protein homolog (yeast)	protein-coding	138.5	234.5	95.5	1707.5	306.0	120.0	125.5	127.0
Merged-chr15-85735427-3	chr15	85735340	85735540	+	867.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113418)	promoter-TSS (NM_001113418)	-124.0	NM_001113418	19013.0	Mm.212789	NM_011144	ENSMUSG00000022383	Ppara	4933429D07Rik|AW742785|Nr1c1|PPAR-alpha|PPARalpha|Ppar	peroxisome proliferator activated receptor alpha	protein-coding	11.5	13.0	5.5	79.5	14.0	5.5	2.5	7.0
Merged-chr6-115468167-3	chr6	115468063	115468263	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 6 of 7)	intron (NM_001308354, intron 6 of 7)	46097.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	17.0	4.0	9.5	189.0	11.5	5.5	5.0	8.0
Merged-chr16-4558728-4	chr16	4558632	4558832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031182, intron 1 of 6)	CpG	988.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	65.5	79.5	60.5	693.5	109.0	40.0	84.5	48.0
Merged-chr17-23998550-4	chr17	23998444	23998644	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133731)	promoter-TSS (NM_133731)	-444.0	NM_133731	70835.0	Mm.157351	NM_133731	ENSMUSG00000045027	Prss22	4733401N09Rik|BSSP-4|SP001LA	protease, serine 22	protein-coding	24.0	37.0	20.5	353.5	97.5	33.5	18.0	35.5
Merged-chr16-36061368-3	chr16	36061276	36061476	+	886.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027342, intron 1 of 4)	intron (NM_027342, intron 1 of 4)	10139.0	NM_027342	70186.0	Mm.212991	NM_027342	ENSMUSG00000003955	Fam162a	2310056P07Rik|HGTD-P	family with sequence similarity 162, member A	protein-coding	8.0	11.0	10.5	107.0	12.5	2.5	7.5	10.0
Merged-chr7-83665251-4	chr7	83665145	83665345	+	760.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 10 of 18)	intron (NM_001360088, intron 10 of 18)	-9750.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	10.0	9.0	5.0	112.0	22.5	8.5	10.0	7.0
Merged-chr3-99253981-4	chr3	99253874	99254074	+	734.137512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009323, exon 1 of 8)	exon (NM_009323, exon 1 of 8)	214.0	NM_009323	21384.0	Mm.88761	NM_009323	ENSMUSG00000027868	Tbx15	Tbx14|Tbx8|de	T-box 15	protein-coding	5.5	8.5	13.5	180.0	20.0	7.5	9.0	20.5
Merged-chr13-111805358-4	chr13	111805254	111805454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	(TC)n|Simple_repeat|Simple_repeat	3639.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	84.5	123.0	75.5	1114.0	121.0	37.5	54.5	60.0
Merged-chr6-129351330-4	chr6	129351225	129351425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177686, intron 1 of 5)	RSINE1|SINE|B4	1081.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	124.5	272.5	119.5	1288.5	392.0	135.5	118.0	103.0
Merged-chr3-65442459-3	chr3	65442339	65442539	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49886.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	5.5	6.5	10.0	107.5	20.5	7.5	16.0	9.0
Merged-chr6-35178034-1	chr6	35177934	35178134	+	959.0	f0_c57.idr	intron (NM_027513, intron 1 of 42)	CpG	418.0	NM_027513	70699.0	Mm.261208	NM_027513	ENSMUSG00000038759	Nup205	3830404O05Rik|AV248391|mKIAA0225	nucleoporin 205	protein-coding	10.5	15.0	17.5	144.0	36.5	14.0	17.0	18.0
Merged-chr4-156235992-4	chr4	156235848	156236048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021303)	promoter-TSS (NM_021303)	-62.0	NM_021303	57741.0	Mm.423051	NM_021303	ENSMUSG00000095567	Noc2l	AA410003|AF155546|NIR	NOC2 like nucleolar associated transcriptional repressor	protein-coding	64.5	82.0	60.5	949.0	162.5	64.5	90.0	75.5
Merged-chr1-153498290-2	chr1	153498190	153498390	+	703.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-10630.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	2.0	6.0	1.5	40.0	28.5	10.0	6.0	5.0
Merged-chr15-50762878-4	chr15	50762788	50762988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	126161.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	26.5	32.0	21.0	411.0	52.0	36.5	43.0	28.0
Merged-chr15-25533241-3	chr15	25533098	25533298	+	942.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89352.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	4.5	9.5	12.5	104.0	14.5	2.0	8.0	5.0
Merged-chr9-62857427-3	chr9	62857344	62857544	+	924.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102468)	promoter-TSS (NM_001102468)	-660.0	NM_001102468	75600.0	Mm.440576	NM_138304	ENSMUSG00000032246	Calml4	2010002G05Rik	calmodulin-like 4	protein-coding	8.0	17.0	13.5	181.0	17.5	7.5	16.5	8.5
Merged-chr18-60525439-2	chr18	60525393	60525593	+	894.916626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357462)	promoter-TSS (NM_001357462)	-661.0	NM_026302	67665.0	Mm.272801	NM_026302	ENSMUSG00000024603	Dctn4	1110001K06Rik|4930547K17Rik|C130039E17Rik|p62	dynactin 4	protein-coding	10.0	8.0	7.0	50.5	15.0	8.0	1.0	3.5
Merged-chr7-79273056-4	chr7	79272952	79273152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018811)	promoter-TSS (NM_018811)	-214.0	NM_018811	54608.0	Mm.365490	NM_018811	ENSMUSG00000039202	Abhd2	2210009N18Rik|LABH2|Labh-2	abhydrolase domain containing 2	protein-coding	349.0	554.0	408.5	6129.5	873.0	330.0	457.0	412.5
Merged-chr13-37826991-8	chr13	37826819	37827019	+	878.745544	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033615)	promoter-TSS (NR_033615)	7.0	NR_033615	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	17.5	10.5	14.5	89.5	21.0	4.0	8.5	10.5
Merged-chr2-144280178-1	chr2	144280078	144280278	+	669.5	f0_balb.idr	3' UTR (NM_001289630, exon 5 of 5)	3' UTR (NM_001289630, exon 5 of 5)	9274.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	5.0	6.5	5.5	179.0	10.5	6.5	5.5	9.0
Merged-chr2-60901669-4	chr2	60901615	60901815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-20277.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	90.0	141.5	157.5	1188.5	239.0	86.5	91.0	84.5
Merged-chr11-80383876-4	chr11	80383712	80383912	+	968.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045038, intron 1 of 16)	intron (NR_045038, intron 1 of 16)	533.0	NM_001130171	22680.0	Mm.401332	NM_011751	ENSMUSG00000017421	Zfp207	8430401D15Rik|BuGZ|Zep|Znf207	zinc finger protein 207	protein-coding	11.5	17.0	17.5	92.0	48.0	15.0	14.0	13.5
Merged-chr11-71289620-3	chr11	71289488	71289688	+	808.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-4356.0	NR_027858	627984.0	Mm.390378	NM_001039234	ENSMUSG00000092528	Nlrp1c-ps	Nalp1c|Nlrp1c	NLR family, pyrin domain containing 1C, pseudogene	pseudo	0.0	0.0	0.0	0.0	47.0	9.0	13.5	13.5
Merged-chr2-145832800-7	chr2	145832715	145832915	+	986.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	46699.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	35.5	37.0	27.5	275.5	71.5	26.5	34.5	35.0
Merged-chr15-41613151-3	chr15	41613049	41613249	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	intron (NR_152565, intron 2 of 17)	164046.0	NM_001358977	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	7.0	5.5	14.0	87.0	9.5	1.5	5.5	20.0
Merged-chr7-28693673-4	chr7	28693598	28693798	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207238, intron 2 of 5)	intron (NM_207238, intron 2 of 5)	554.0	NM_001163702	233040.0	Mm.116116	NM_207238	ENSMUSG00000037463	Fbxo27	E130008B10Rik|FBG5|Gm161	F-box protein 27	protein-coding	18.5	31.5	20.5	277.5	39.5	18.5	9.5	12.5
Merged-chr14-78678080-1	chr14	78677980	78678180	+	711.0	f0_balb.idr	intron (NM_001081336, intron 2 of 29)	HAL1|LINE|L1	-33629.0	NR_104044	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	7.5	10.5	5.5	221.0	3.5	0.0	6.0	2.0
Merged-chr2-22864864-4	chr2	22864763	22864963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 10 of 13)	intron (NM_019456, intron 10 of 13)	-30659.0	NM_019501	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	46.5	91.5	39.5	959.5	157.0	62.0	58.0	59.5
Merged-chr15-36499592-2	chr15	36499492	36499692	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2801.0	NM_175134	68839.0	Mm.396537	NM_175134	ENSMUSG00000048307	Ankrd46	1110054N06Rik|AI314978|AI987733	ankyrin repeat domain 46	protein-coding	6.5	5.0	14.5	131.5	12.0	6.5	2.5	4.0
Merged-chr7-28347947-4	chr7	28347841	28348041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-2748.0	NM_013647	20055.0	Mm.702	NM_013647	ENSMUSG00000037563	Rps16	AA420385|AI317031	ribosomal protein S16	protein-coding	36.5	61.5	34.5	687.5	101.0	32.5	46.0	41.5
Merged-chr10-99577466-4	chr10	99577389	99577589	+	788.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31682.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	10.0	9.5	6.0	95.0	27.5	7.0	11.5	8.0
Merged-chr4-88432617-4	chr4	88432501	88432701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025760, intron 3 of 6)	intron (NM_025760, intron 3 of 6)	6325.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	29.0	62.0	32.0	857.0	123.0	56.0	61.0	46.0
Merged-chr15-85089668-4	chr15	85089587	85089787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080470, exon 18 of 25)	exon (NM_080470, exon 18 of 25)	42270.0	NM_080470	140557.0	Mm.182737	NM_080470	ENSMUSG00000022432	Smc1b	SMC-1B|SMC1beta|Smc1l2	structural maintenance of chromosomes 1B	protein-coding	48.0	42.5	26.0	522.5	60.0	30.0	31.5	38.5
Merged-chr10-39490434-1	chr10	39490334	39490534	+	855.0	f0_balb.idr	intron (NM_001122893, intron 3 of 13)	intron (NM_001122893, intron 3 of 13)	120635.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	11.5	6.5	7.0	184.0	12.5	1.0	2.5	5.0
Merged-chr3-53017128-4	chr3	53017036	53017236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026225)	promoter-TSS (NM_026225)	87.0	NM_026225	67542.0	Mm.249548	NM_026225	ENSMUSG00000027742	Cog6	4933405E16Rik|AU018618|mKIAA1134	component of oligomeric golgi complex 6	protein-coding	57.5	106.0	152.5	1319.5	141.5	61.5	64.5	58.0
Merged-chr19-18622081-3	chr19	18622008	18622208	+	696.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	Lx3A|LINE|L1	9705.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	10.0	7.0	14.5	83.5	12.0	4.0	4.5	11.0
Merged-chr9-18473650-4	chr9	18473579	18473779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028935)	promoter-TSS (NM_028935)	-34.0	NM_028160	72230.0	Mm.289689	NM_028160	ENSMUSG00000074500	Zfp558	1700007A21Rik|4932704I17Rik|Zfp558-ps	zinc finger protein 558	protein-coding	95.5	101.0	68.5	1624.5	192.5	56.0	105.5	86.5
Merged-chr4-43382050-4	chr4	43382104	43382304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 1 of 11)	CpG	222.0	NM_001037709	100213.0	Mm.235730	NM_199057	ENSMUSG00000035969	Rusc2	AI840675|mKIAA0375	RUN and SH3 domain containing 2	protein-coding	17.0	25.5	42.5	260.0	55.0	22.5	25.5	42.5
Merged-chr17-51220100-4	chr17	51219987	51220187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-40735.0	NM_001285991	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	81.5	133.5	120.0	1428.0	194.5	62.0	103.0	105.5
Merged-chr3-75517867-3	chr3	75517774	75517974	+	790.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019745, intron 7 of 7)	intron (NM_019745, intron 7 of 7)	38978.0	NM_019745	56426.0	Mm.316473	NM_019745	ENSMUSG00000027835	Pdcd10	2410003B13Rik|Ccm3|Tfa15|Tfar15	programmed cell death 10	protein-coding	6.5	11.0	16.0	108.5	8.5	2.5	7.0	10.0
Merged-chr3-15428103-4	chr3	15427982	15428182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1655.0	NM_001002898	320832.0	Mm.330924	NM_178792	ENSMUSG00000095788	Sirpb1a	9930027N05Rik|SIRP-beta|Sirpb|Sirpb1	signal-regulatory protein beta 1A	protein-coding	40.5	78.5	46.5	750.0	112.0	44.5	49.0	45.0
Merged-chr2-32607425-4	chr2	32607327	32607527	+	837.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025310, intron 1 of 5)	intron (NM_001025310, intron 1 of 5)	442.0	NR_110347	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	13.0	15.0	10.5	84.0	29.5	24.5	16.5	10.5
Merged-chr6-53986398-3	chr6	53986225	53986425	+	940.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110484, intron 1 of 3)	intron (NR_110484, intron 1 of 3)	7634.0	NR_110484	320178.0	Mm.320413	NR_110484	ENSMUSG00000108060	4921529L05Rik	4930590G02Rik	RIKEN cDNA 4921529L05 gene	ncRNA	1.0	0.0	0.0	8.5	20.5	10.5	7.5	25.5
Merged-chr16-3723184-2	chr16	3723084	3723284	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5060.0	NM_001161791	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	21.0	57.5	32.5	305.5	95.0	29.5	36.0	31.5
Merged-chr17-56958051-4	chr17	56957971	56958171	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175731, intron 4 of 5)	intron (NM_175731, intron 4 of 5)	-22683.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	16.5	15.0	7.5	153.5	28.5	8.5	7.5	6.0
Merged-chr10-60744744-3	chr10	60744649	60744849	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	intron (NM_023596, intron 2 of 5)	8033.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	18.5	15.0	8.0	185.5	20.0	5.5	18.5	6.0
Merged-chr15-8589852-3	chr15	8589752	8589952	+	968.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	120955.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	9.0	14.0	5.5	165.0	17.0	8.0	7.0	12.0
Merged-chr1-154032834-4	chr1	154032723	154032923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	132894.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	141.5	233.5	109.0	1416.0	358.0	122.0	160.5	97.5
Merged-chr8-13648584-4	chr8	13648485	13648685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	(TTCCC)n|Simple_repeat|Simple_repeat	29002.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	44.5	25.0	31.5	647.0	57.0	23.5	21.5	38.5
Merged-chr19-10860327-3	chr19	10860225	10860425	+	914.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133804, exon 9 of 11)	exon (NM_133804, exon 9 of 11)	9454.0	NM_133804	98170.0	Mm.490254	NM_133804	ENSMUSG00000024736	Tmem132a	6720481D13Rik|Hspa5bp1|Orai1|R74613	transmembrane protein 132A	protein-coding	11.5	14.0	10.5	91.5	16.0	6.0	5.5	23.0
Merged-chr6-72162779-3	chr6	72162670	72162870	+	899.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39573.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	20.0	12.5	12.0	199.0	21.5	11.0	18.0	12.5
Merged-chr2-170251786-2	chr2	170251704	170251904	+	608.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4_19-int|LTR|ERVK	-104557.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	8.0	17.5	7.5	42.0	22.5	8.0	8.0	8.0
Merged-chr8-71542215-3	chr8	71542109	71542309	+	929.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028617)	promoter-TSS (NM_028617)	-721.0	NM_028617	73711.0	Mm.307770	NM_028617	ENSMUSG00000031813	Mvb12a	1110012M11Rik|Fam125a	multivesicular body subunit 12A	protein-coding	12.0	24.0	18.0	124.5	19.5	8.0	2.5	10.0
Merged-chr1-149891270-4	chr1	149891168	149891368	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 5 of 17)	intron (NM_008869, intron 5 of 17)	31171.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	18.0	27.5	32.0	532.5	52.0	22.5	22.0	16.5
Merged-chr4-155250490-1	chr4	155250390	155250590	+	786.0	f1_c57bl6.idr	non-coding (NR_033802, exon 1 of 3)	non-coding (NR_033802, exon 1 of 3)	524.0	NR_033802	67513.0	Mm.10374	NM_001190445	ENSMUSG00000073684	Faap20	2610002J02Rik	Fanconi anemia core complex associated protein 20	protein-coding	4.0	2.5	1.5	48.5	21.5	8.5	5.5	11.0
Merged-chr19-46648123-4	chr19	46648035	46648235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177813, intron 2 of 3)	intron (NM_001177813, intron 2 of 3)	24734.0	NM_001177813	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	38.0	43.5	44.5	586.0	51.0	25.5	18.5	28.0
Merged-chr5-97087424-6	chr5	97087314	97087514	+	963.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080708, exon 16 of 16)	exon (NM_080708, exon 16 of 16)	24182.0	NM_001359910	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	10.0	12.5	6.0	121.0	27.0	5.5	11.5	10.5
Merged-chr17-83397879-4	chr17	83397786	83397986	+	826.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357886, intron 1 of 21)	intron (NM_001357886, intron 1 of 21)	46955.0	NM_001357886	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	6.5	16.5	22.5	125.5	37.5	8.5	7.5	5.0
Merged-chr1-192932040-4	chr1	192931940	192932140	+	986.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301370, intron 5 of 8)	intron (NM_001301370, intron 5 of 8)	-76288.0	NM_198247	214791.0	Mm.22806	NM_198247	ENSMUSG00000016262	Sertad4	4833404A09|C130018M11Rik	SERTA domain containing 4	protein-coding	20.0	20.5	11.5	441.0	92.0	31.0	32.5	32.5
Merged-chr4-129068283-4	chr4	129068191	129068391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	10020.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	95.5	149.5	64.5	486.0	268.5	112.0	77.0	65.0
Merged-chr15-75857266-7	chr15	75857224	75857424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5015.0	NM_026960	69146.0	Mm.27385	NM_026960	ENSMUSG00000022575	Gsdmd	1810036L03Rik|AW558049|DF5L|Dfna5l|Gsdmdc1|M2-4	gasdermin D	protein-coding	45.5	69.5	56.5	577.5	88.5	44.0	39.5	64.0
Merged-chr7-122317662-3	chr7	122317565	122317765	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	ORR1E|LTR|ERVL-MaLR	28540.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	8.0	18.5	13.5	75.5	22.5	5.5	12.0	8.0
Merged-chr4-89146478-3	chr4	89146372	89146572	+	797.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024433, intron 1 of 7)	intron (NM_024433, intron 1 of 7)	9102.0	NM_024433	66902.0	Mm.28500	NM_024433	ENSMUSG00000062937	Mtap	1300019I21Rik|MSAP	methylthioadenosine phosphorylase	protein-coding	11.0	14.0	8.0	114.5	10.5	7.5	10.0	5.0
Merged-chr5-123399130-4	chr5	123399029	123399229	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133917, intron 1 of 16)	B2_Mm2|SINE|B2	4331.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	24.5	28.5	23.0	160.5	67.5	25.5	28.0	25.5
Merged-chr1-58716800-2	chr1	58716700	58716900	+	566.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	3514.0	NM_001355056	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	8.0	8.5	5.0	14.0	24.5	2.5	3.0	7.5
Merged-chr19-11803220-4	chr19	11803109	11803309	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286543, intron 2 of 11)	B3|SINE|B2	16194.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	27.0	12.5	11.0	203.0	22.5	19.0	13.0	12.5
Merged-chr4-102495682-4	chr4	102495561	102495761	+	798.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177983, intron 2 of 5)	intron (NM_001177983, intron 2 of 5)	-74399.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	8.5	7.0	15.0	140.0	36.0	7.0	16.0	10.5
Merged-chr8-64945937-3	chr8	64945860	64946060	+	739.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1225.0	NM_001163747	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	5.0	4.5	2.0	99.5	12.0	6.5	6.5	7.5
Merged-chr18-73749613-3	chr18	73749519	73749719	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053255, intron 1 of 3)	intron (NM_053255, intron 1 of 3)	4860.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	7.0	21.5	23.5	238.0	18.0	6.0	17.0	7.0
Merged-chr5-44227125-4	chr5	44227021	44227221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173764)	promoter-TSS (NM_173764)	-515.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	17.5	25.0	29.5	229.0	31.5	16.0	13.0	18.0
Merged-chr3-7501875-3	chr3	7501770	7501970	+	984.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1556.0	NM_173181	67306.0	Mm.332366	NM_173181	ENSMUSG00000043542	Zc2hc1a	3110050N22Rik|AI790358|AU023959|Fam164a	zinc finger, C2HC-type containing 1A	protein-coding	8.5	11.0	9.5	160.0	16.0	7.5	10.5	6.5
Merged-chr7-120934810-3	chr7	120934706	120934906	+	810.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025298, exon 13 of 21)	exon (NM_025298, exon 13 of 21)	17062.0	NM_001164096	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	3.5	12.5	9.0	189.5	24.0	6.5	7.5	7.0
Merged-chr16-94599547-4	chr16	94599461	94599661	+	721.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	-11858.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	5.0	13.0	2.0	92.5	23.0	8.5	5.5	13.5
Merged-chr10-81520227-4	chr10	81520136	81520336	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010304, intron 1 of 6)	intron (NM_010304, intron 1 of 6)	3989.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	17.0	14.0	17.0	219.0	46.0	19.5	16.5	26.5
Merged-chr18-80371378-3	chr18	80371281	80371481	+	889.377808	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7127.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	7.5	10.5	7.5	182.5	16.5	8.0	16.0	10.5
Merged-chr1-78537718-4	chr1	78537612	78537812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026713, intron 6 of 6)	intron (NM_026713, intron 6 of 6)	26652.0	NM_026713	68393.0	Mm.41325	NM_026713	ENSMUSG00000012187	Mogat1	0610030A14Rik|1110064N14Rik|Dgat2l|Dgat2l1|MGAT1|WI1-2612I11.1|mDC2	monoacylglycerol O-acyltransferase 1	protein-coding	152.0	207.5	184.0	2953.0	176.5	64.0	102.0	70.5
Merged-chr4-154207440-2	chr4	154207340	154207540	+	936.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162977, intron 3 of 36)	intron (NM_001162977, intron 3 of 36)	36727.0	NM_001162977	230971.0	Mm.275216	NM_172273	ENSMUSG00000057751	Megf6	2600001P17Rik|Egfl3	multiple EGF-like-domains 6	protein-coding	8.0	6.5	5.0	37.0	23.5	1.5	7.0	2.5
Merged-chr4-109431083-3	chr4	109430995	109431195	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145948, intron 9 of 17)	intron (NM_001145948, intron 9 of 17)	15448.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	3.0	12.5	8.5	115.5	12.0	7.0	5.0	12.0
Merged-chr17-35090167-3	chr17	35090062	35090262	+	987.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178592, intron 1 of 19)	intron (NM_178592, intron 1 of 19)	871.0	NM_178592	193742.0	Mm.43745	NM_178592	ENSMUSG00000007036	Abhd16a	AI326074|Bat-5|Bat5|D17H6S82E|NG26	abhydrolase domain containing 16A	protein-coding	4.0	4.0	7.0	42.0	41.0	9.0	11.0	17.5
Merged-chr10-91139233-2	chr10	91139133	91139333	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15270.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	3.5	5.5	6.5	79.0	10.5	5.0	5.5	5.0
Merged-chr17-37197371-3	chr17	37197257	37197457	+	805.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001011518, exon 1 of 1)	exon (NM_001011518, exon 1 of 1)	609.0	NM_001011518	258219.0	Mm.377382	NM_001011518	ENSMUSG00000043827	Olfr94	MOR256-32P	olfactory receptor 94	protein-coding	12.0	16.0	14.5	208.0	7.0	2.0	8.5	6.0
Merged-chr10-117148529-4	chr10	117148410	117148610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177798)	promoter-TSS (NM_177798)	-36.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	97.5	111.0	111.5	1370.0	254.5	75.5	107.5	99.0
Merged-chr13-99190801-2	chr13	99190701	99190901	+	890.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	5978.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	10.0	6.5	4.0	102.5	17.0	5.5	7.0	8.5
Merged-chr2-70662369-5	chr2	70662303	70662503	+	829.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027352, intron 1 of 9)	intron (NM_027352, intron 1 of 9)	894.0	NM_027352	70231.0	Mm.271950	NM_027352	ENSMUSG00000014959	Gorasp2	0610011A07Rik|2410043M02Rik|5730520M13Rik|9430094F20Rik|AW552058|GOLPH2|GRASP55|GRS2|p59	golgi reassembly stacking protein 2	protein-coding	6.5	7.0	3.5	59.0	7.0	9.0	4.5	10.5
Merged-chr1-171281259-4	chr1	171281174	171281374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008911)	promoter-TSS (NM_008911)	-88.0	NM_008911	19044.0	Mm.266888	NM_008911	ENSMUSG00000062729	Ppox	Ppo	protoporphyrinogen oxidase	protein-coding	199.0	295.0	99.5	1989.5	325.5	137.5	215.5	145.0
Merged-chr3-61365647-6	chr3	61365506	61365706	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028712, exon 1 of 1)	exon (NM_028712, exon 1 of 1)	1099.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	17.0	23.0	17.0	155.5	27.5	20.5	22.0	24.5
Merged-chr19-56398511-4	chr19	56398418	56398618	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007611, intron 1 of 6)	MTD|LTR|ERVL-MaLR	1389.0	NM_007611	12369.0	Mm.35687	NM_007611	ENSMUSG00000025076	Casp7	AI314680|CMH-1|ICE-IAP3|Mch3|caspase-7|mCASP-7	caspase 7	protein-coding	16.0	31.5	17.0	278.0	49.0	14.5	13.0	15.5
Merged-chr4-95770721-4	chr4	95770623	95770823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 8 of 10)	intron (NM_029347, intron 8 of 10)	191302.0	NM_029347	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	47.0	63.0	52.5	677.0	140.0	52.5	53.5	32.5
Merged-chr10-77271067-4	chr10	77270971	77271171	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11771.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	20.0	16.0	19.0	277.0	46.0	11.5	31.0	24.0
Merged-chr10-95671303-3	chr10	95671205	95671405	+	931.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107159.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	19.5	16.0	7.5	120.0	17.5	5.0	4.0	7.0
Merged-chr7-98117352-2	chr7	98117252	98117452	+	700.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 2 of 48)	intron (NM_008663, intron 2 of 48)	2141.0	NM_001256081	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	2.0	3.0	0.5	13.5	6.0	8.5	6.0	6.0
Merged-chr4-142098525-4	chr4	142098438	142098638	+	990.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14234.0	NM_145402	214359.0	Mm.27587	NM_145402	ENSMUSG00000040616	Tmem51	BC003277	transmembrane protein 51	protein-coding	23.0	27.0	12.0	312.5	72.0	24.5	20.0	21.0
Merged-chr3-126613746-4	chr3	126613650	126613850	+	955.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	16799.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	10.5	18.0	31.0	269.0	49.5	12.0	16.0	22.0
Merged-chr4-153958063-4	chr4	153957966	153958166	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163019, intron 1 of 2)	intron (NM_001163019, intron 1 of 2)	829.0	NM_001163019	97159.0	Mm.7066	NM_175287	ENSMUSG00000047613	A430005L14Rik	C79672	RIKEN cDNA A430005L14 gene	protein-coding	16.5	16.0	9.5	233.0	42.0	20.0	17.0	23.5
Merged-chr18-88892568-4	chr18	88892458	88892658	+	910.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018821, intron 1 of 2)	intron (NM_018821, intron 1 of 2)	1649.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	20.5	15.0	23.5	301.0	31.0	4.0	15.0	10.5
Merged-chr2-163713399-4	chr2	163713287	163713487	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 3 of 4)	intron (NM_001039390, intron 3 of 4)	19350.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	24.0	35.0	43.0	552.5	67.5	14.0	14.5	20.5
Merged-chr8-94076959-4	chr8	94076821	94077021	+	837.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026116, intron 13 of 16)	intron (NM_026116, intron 13 of 16)	21890.0	NM_026116	67378.0	Mm.292107	NM_026116	ENSMUSG00000031755	Bbs2	2410125H22Rik|AI447581	Bardet-Biedl syndrome 2 (human)	protein-coding	10.0	9.0	11.5	97.0	22.0	5.5	4.0	9.5
Merged-chr4-103119364-4	chr4	103119268	103119468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039081)	promoter-TSS (NM_001039081)	-22.0	NM_001039081	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	43.0	74.0	53.0	566.0	154.5	65.5	83.5	46.0
Merged-chr17-86187987-4	chr17	86187881	86188081	+	928.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	ORR1C2|LTR|ERVL-MaLR	20196.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	14.5	2.5	10.5	175.0	47.0	13.0	25.5	14.5
Merged-chr2-60282079-3	chr2	60281967	60282167	+	882.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025422, intron 1 of 4)	B4A|SINE|B4	2417.0	NM_025422	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	8.0	9.5	10.0	61.5	11.0	4.5	4.5	7.5
Merged-chr13-95494997-3	chr13	95494893	95495093	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16338.0	NM_001081159	268686.0	Mm.291249	NM_001081159	ENSMUSG00000021679	S100z	Gm625	S100 calcium binding protein, zeta	protein-coding	0.0	0.0	0.0	0.0	103.0	34.5	44.5	35.5
Merged-chr18-38997264-4	chr18	38997135	38997335	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 1 of 21)	intron (NM_001361073, intron 1 of 21)	4090.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	13.0	37.0	25.5	328.0	60.0	16.5	17.0	15.0
Merged-chr18-54832011-5	chr18	54831879	54832079	+	717.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158201.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	5.0	18.0	6.0	113.0	17.0	7.0	7.5	14.0
Merged-chr2-152767776-4	chr2	152767666	152767866	+	892.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289739, intron 2 of 4)	L2b|LINE|L2	13593.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	11.0	19.5	15.5	200.0	54.5	12.0	9.5	11.0
Merged-chr1-162574761-4	chr1	162574644	162574844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356527, intron 2 of 7)	intron (NM_001356527, intron 2 of 7)	3916.0	NM_016796	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	43.5	60.5	23.5	742.0	80.0	19.0	33.0	38.5
Merged-chr7-118470634-4	chr7	118470524	118470724	+	698.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21351.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	11.5	7.5	6.5	175.0	30.5	11.5	19.5	10.0
Merged-chr13-49200822-4	chr13	49200730	49200930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13283.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	240.0	447.5	304.0	3620.0	543.0	260.0	251.5	264.0
Merged-chr6-135299198-3	chr6	135299081	135299281	+	903.4111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11203.0	NM_029595	76400.0	Mm.293018	NM_029595	ENSMUSG00000047104	Pbp2	1700023A18Rik|AI326308|Pebp-2|Pebp2	phosphatidylethanolamine binding protein 2	protein-coding	15.0	11.0	34.5	616.5	6.5	5.0	2.5	8.5
Merged-chr11-4848828-7	chr11	4848758	4848958	+	970.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010898, intron 1 of 15)	CpG	686.0	NM_001252250	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	15.5	24.5	9.5	203.5	46.5	26.0	19.0	20.5
Merged-chr13-34994744-3	chr13	34994612	34994812	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073427)	promoter-TSS (NR_073427)	-568.0	NM_001110331	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	11.5	10.0	7.5	125.0	21.0	5.0	18.0	6.0
Merged-chr7-97075194-4	chr7	97075105	97075305	+	849.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6546.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	11.0	9.5	8.0	130.5	24.0	6.5	9.5	12.0
Merged-chr13-112871761-4	chr13	112871647	112871847	+	934.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028151, intron 25 of 26)	intron (NM_028151, intron 25 of 26)	55633.0	NM_028151	72198.0	Mm.291029	NM_028151	ENSMUSG00000016018	Skiv2l2	2610528A15Rik|Mtrex|mKIAA0052	superkiller viralicidic activity 2-like 2 (S. cerevisiae)	protein-coding	23.0	12.5	18.5	424.0	60.0	28.5	30.0	14.0
Merged-chr5-123395591-5	chr5	123395529	123395729	+	724.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133917, intron 1 of 16)	intron (NM_133917, intron 1 of 16)	831.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	10.0	8.0	6.0	83.0	21.5	5.5	11.5	13.0
Merged-chr7-80641591-4	chr7	80641337	80641537	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040343, intron 4 of 4)	intron (NR_040343, intron 4 of 4)	5420.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	9.5	4.0	8.0	74.5	39.5	6.0	8.0	14.5
Merged-chr2-73371719-4	chr2	73371623	73371823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276444, intron 4 of 15)	intron (NM_001276444, intron 4 of 15)	14757.0	NM_001276443	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	31.0	37.0	29.0	703.5	98.5	18.5	44.5	43.5
Merged-chr11-75487767-2	chr11	75487667	75487867	+	978.6666869999999	f1_balb.idr|f1_c57bl6.idr	exon (NM_138659, exon 2 of 42)	exon (NM_138659, exon 2 of 42)	990.0	NM_138659	192159.0	Mm.3757	NM_138659	ENSMUSG00000020850	Prpf8	AU019467|D11Bwg0410e|DBF3/PRP8|Prp8|Sfprp8l	pre-mRNA processing factor 8	protein-coding	9.0	5.0	4.0	36.5	7.0	5.5	9.0	10.5
Merged-chr2-116894062-4	chr2	116893938	116894138	+	958.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR3|LTR|Gypsy	-6114.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	4.0	24.0	15.0	172.0	57.0	11.5	16.0	7.5
Merged-chr2-128770775-2	chr2	128770690	128770890	+	936.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 8 of 18)	intron (NM_008587, intron 8 of 18)	-47513.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	2.0	4.0	7.5	88.0	9.0	4.5	5.5	9.5
Merged-chr3-79161310-4	chr3	79161203	79161403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15428.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	46.5	101.0	52.0	611.0	64.5	31.0	36.5	20.0
Merged-chr15-35917523-4	chr15	35917390	35917590	+	912.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177151, intron 58 of 61)	intron (NM_177151, intron 58 of 61)	20756.0	NM_053071	12864.0	Mm.548	NM_053071	ENSMUSG00000014313	Cox6c	-	cytochrome c oxidase subunit VIc	protein-coding	11.0	10.0	13.0	239.5	7.0	2.5	8.5	14.5
Merged-chr11-54534053-4	chr11	54533951	54534151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 1 of 28)	RLTR14|LTR|ERV1	11206.0	NM_001252496	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	27.5	46.0	29.5	504.0	79.0	18.0	23.0	23.0
Merged-chr9-83691707-4	chr9	83691569	83691769	+	807.416626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046066, intron 1 of 2)	intron (NR_046066, intron 1 of 2)	194.0	NR_046066	100039222.0	Mm.405596	NR_046066	ENSMUSG00000100155	Gm2109	-	predicted gene 2109	ncRNA	7.0	9.0	9.5	29.0	14.5	6.0	4.0	11.5
Merged-chr16-33744862-3	chr16	33744759	33744959	+	947.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 10 of 14)	intron (NM_175256, intron 10 of 14)	-49178.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	3.5	12.0	4.5	152.0	17.5	5.0	11.5	10.0
Merged-chr11-78095109-1	chr11	78095009	78095209	+	544.0	f0_balb.idr	intron (NM_145430, intron 1 of 2)	intron (NM_145430, intron 1 of 2)	436.0	NM_145430	216971.0	Mm.119387	NM_145430	ENSMUSG00000037750	Fam222b	9630020I17Rik	family with sequence similarity 222, member B	protein-coding	5.5	5.5	2.0	58.5	18.0	9.0	10.0	6.0
Merged-chr11-103374758-4	chr11	103374648	103374848	+	917.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 7 of 11)	intron (NM_183034, intron 7 of 11)	-11056.0	NM_001205236	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	36.0	22.0	21.5	628.5	25.0	13.5	13.5	17.5
Merged-chr6-71537469-4	chr6	71537356	71537556	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-6396.0	NM_001361405	66700.0	Mm.181278	NM_025783	ENSMUSG00000053119	Chmp3	25.1|4921505F14Rik|9130011K15Rik|CGI-49|D6Ertd286e|NEDF|Vps24	charged multivesicular body protein 3	protein-coding	34.0	22.5	18.0	238.0	46.0	17.0	24.0	21.0
Merged-chr13-113870556-4	chr13	113870452	113870652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	76044.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	75.0	118.5	91.5	2143.5	334.5	81.0	159.5	108.5
Merged-chr17-23706902-4	chr17	23706820	23707020	+	974.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19416.0	NM_023058	268930.0	Mm.182193	NM_023058	ENSMUSG00000023908	Pkmyt1	6230424P17|AW209059|Myt1	protein kinase, membrane associated tyrosine/threonine 1	protein-coding	16.0	38.5	44.5	279.5	56.0	11.5	15.0	31.0
Merged-chr11-121057006-4	chr11	121056847	121057047	+	887.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026907, intron 2 of 4)	MT2A|LTR|ERVL	6622.0	NM_026907	58210.0	Mm.116986	NM_026907	ENSMUSG00000039364	Sectm1b	1810003C24Rik|K12|Sectm1	secreted and transmembrane 1B	protein-coding	13.5	15.0	11.0	133.5	13.5	5.0	7.5	8.0
Merged-chr1-191180617-4	chr1	191180536	191180736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 1 of 3)	intron (NM_007498, intron 1 of 3)	2697.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	33.5	38.5	34.5	588.5	81.0	28.5	41.5	34.5
Merged-chr16-18687580-4	chr16	18687469	18687669	+	968.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57631.0	NM_213614	18951.0	Mm.20365	NM_213614	ENSMUSG00000072214	Sept5	Cdcrel-1|Cdcrel1|Pnutl1	septin 5	protein-coding	26.5	68.5	22.5	462.0	36.5	14.0	17.0	14.0
Merged-chr1-165764250-4	chr1	165764142	165764342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011804, intron 1 of 3)	intron (NM_011804, intron 1 of 3)	484.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	28.5	68.0	33.0	332.5	84.0	22.0	36.5	21.0
Merged-chr19-3986532-4	chr19	3986437	3986637	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302482)	promoter-TSS (NM_001302482)	-33.0	NM_001302479	71670.0	Mm.29735	NM_027857	ENSMUSG00000024866	Acy3	0610006H10Rik|AA3|AAIII|AW107362|Acy-3|HCBP1	aspartoacylase (aminoacylase) 3	protein-coding	14.5	24.5	17.0	205.5	33.5	16.0	22.0	21.5
Merged-chr3-52767495-4	chr3	52767379	52767579	+	951.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038079, intron 1 of 3)	intron (NR_038079, intron 1 of 3)	27755.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	10.0	16.5	13.0	459.0	60.0	16.0	27.5	24.0
Merged-chr18-80693198-2	chr18	80693098	80693298	+	684.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 2 of 9)	intron (NM_198429, intron 2 of 9)	14975.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	5.0	9.5	7.0	48.5	20.5	2.0	5.5	5.5
Merged-chr11-87026709-4	chr11	87026623	87026823	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32961.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	37.5	44.0	32.5	338.0	79.0	18.5	35.0	15.5
Merged-chr17-87108078-2	chr17	87107978	87108178	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019654, intron 1 of 2)	CpG	399.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	4.5	10.0	3.0	57.0	22.0	8.0	11.5	11.5
Merged-chr18-60803075-4	chr18	60802957	60803157	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010545)	promoter-TSS (NM_010545)	-792.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	20.0	9.5	12.0	196.5	79.5	25.0	29.5	49.0
Merged-chr7-31115753-4	chr7	31115673	31115873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008281)	promoter-TSS (NM_008281)	-447.0	NM_001110252	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	118.5	245.0	162.0	1620.0	300.0	127.5	196.0	83.0
Merged-chr5-114854884-1	chr5	114854784	114854984	+	545.0	f1_balb.idr	intron (NM_026263, intron 1 of 11)	intron (NM_026263, intron 1 of 11)	1170.0	NM_026263	67593.0	Mm.251409	NM_026263	ENSMUSG00000029564	4930519G04Rik	1700014B12Rik	RIKEN cDNA 4930519G04 gene	protein-coding	5.5	1.0	8.0	104.0	10.0	7.5	8.5	4.5
Merged-chr13-100552206-2	chr13	100552106	100552306	+	803.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360536, intron 1 of 8)	CpG	292.0	NM_008756	18260.0	Mm.4807	NM_008756	ENSMUSG00000021638	Ocln	AI503564|Ocl	occludin	protein-coding	8.0	5.0	6.0	62.5	11.5	5.5	6.0	5.0
Merged-chr1-79760254-4	chr1	79760128	79760328	+	931.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027057, intron 1 of 4)	intron (NM_027057, intron 1 of 4)	1541.0	NM_001111279	69368.0	Mm.293273	NM_027057	ENSMUSG00000073643	Wdfy1	1700013B03Rik|1700120F24Rik|FENS-1|Jr1|WDF1|ZFYVE17|mKIAA1435	WD repeat and FYVE domain containing 1	protein-coding	11.5	27.5	9.0	325.0	41.5	7.0	21.5	9.5
Merged-chr18-65671160-3	chr18	65671063	65671263	+	926.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361052, intron 6 of 8)	intron (NM_001361052, intron 6 of 8)	-27105.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	10.5	14.0	20.0	216.0	2.0	5.5	3.0	1.5
Merged-chr19-24984615-3	chr19	24984482	24984682	+	923.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14947.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	9.0	8.5	13.0	133.5	3.0	3.0	6.0	11.5
Merged-chr14-103007950-4	chr14	103007835	103008035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	Lx10|LINE|L1	-25298.0	NM_177715	239217.0	Mm.246466	NM_177715	ENSMUSG00000098557	Kctd12	AU046135|AW538430|Pfet1|Pfetin	potassium channel tetramerisation domain containing 12	protein-coding	185.0	305.5	250.0	2411.5	495.5	208.0	241.5	200.0
Merged-chr6-134120418-4	chr6	134120320	134120520	+	996.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	84720.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	12.5	35.0	19.0	168.5	85.5	41.5	26.5	7.0
Merged-chr10-80261072-4	chr10	80260958	80261158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347119)	promoter-TSS (NM_001347119)	-46.0	NM_010255	14431.0	Mm.7329	NM_010255	ENSMUSG00000020150	Gamt	AA571402|Spintz1	guanidinoacetate methyltransferase	protein-coding	145.5	182.0	131.5	2100.0	388.0	142.0	159.0	138.0
Merged-chr17-83654736-4	chr17	83654605	83654805	+	887.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22810.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	11.5	16.5	7.5	125.5	24.0	12.0	12.0	13.0
Merged-chr10-80147987-4	chr10	80147891	80148091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021565)	promoter-TSS (NM_021565)	-281.0	NM_001305798	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	94.5	127.5	38.0	919.5	195.0	92.0	82.0	87.0
Merged-chr12-118301373-4	chr12	118301288	118301488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009239)	promoter-TSS (NM_009239)	52.0	NM_009239	20688.0	Mm.34699	NM_009239	ENSMUSG00000025323	Sp4	5730497N03Rik|HF-1b|HF1-b	trans-acting transcription factor 4	protein-coding	196.5	288.0	247.5	3133.5	385.5	166.0	287.0	154.5
Merged-chr13-23556591-2	chr13	23556491	23556691	+	720.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_145713)	TTS (NM_145713)	1559.0	NM_145713	14957.0	Mm.247046	NM_145713	ENSMUSG00000052565	Hist1h1d	H1.3|H1D|H1f3|H1s-4	histone cluster 1, H1d	protein-coding	14.0	9.0	7.0	111.5	35.0	10.0	17.5	14.0
Merged-chr10-94515040-5	chr10	94514954	94515154	+	941.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172051, exon 1 of 4)	exon (NM_172051, exon 1 of 4)	197.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	30.0	15.0	34.5	427.5	27.0	9.0	12.5	24.0
Merged-chr5-123377452-8	chr5	123377390	123377590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17308.0	NM_133917	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	9.5	13.0	12.5	186.5	47.5	17.5	15.5	24.5
Merged-chr15-93270468-4	chr15	93270376	93270576	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346785, intron 1 of 7)	intron (NM_001346785, intron 1 of 7)	4703.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	15.5	35.5	20.5	301.0	53.5	14.5	18.0	17.5
Merged-chr8-68993409-4	chr8	68993346	68993546	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95290.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	14.0	19.5	17.5	298.0	16.5	12.0	10.0	8.0
Merged-chr1-136137262-4	chr1	136137200	136137400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	5910.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	135.0	163.5	142.0	2040.0	262.0	86.5	138.5	94.5
Merged-chr13-63108803-3	chr13	63108711	63108911	+	992.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 5 of 15)	intron (NM_001289926, intron 5 of 15)	-131218.0	NR_110520	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	12.0	9.0	23.5	608.0	3.0	1.5	4.0	3.5
Merged-chr13-21453645-4	chr13	21453556	21453756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013786)	promoter-TSS (NM_001013786)	71.0	NM_001013786	432731.0	Mm.390557	NM_001013786	ENSMUSG00000022228	Zscan26	BC068174|Zfp187|Znf187	zinc finger and SCAN domain containing 26	protein-coding	35.0	66.0	120.0	784.5	80.0	45.0	42.5	56.5
Merged-chr15-66801727-4	chr15	66801628	66801828	+	985.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029841, intron 1 of 7)	intron (NM_001029841, intron 1 of 7)	30101.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	29.0	20.5	29.5	769.5	42.0	17.0	18.5	14.5
Merged-chr4-150257392-4	chr4	150257282	150257482	+	891.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20058.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	7.0	16.0	5.5	236.0	50.0	14.5	15.5	17.0
Merged-chr15-79347467-4	chr15	79347329	79347529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304831)	promoter-TSS (NM_001304831)	-91.0	NM_010755	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	59.0	169.5	57.5	738.0	231.5	88.0	60.0	75.5
Merged-chr1-181151340-4	chr1	181151263	181151463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030131, intron 1 of 4)	intron (NM_030131, intron 1 of 4)	432.0	NM_030131	98417.0	Mm.38229	NM_030131	ENSMUSG00000062169	Cnih4	AI647760|AW050376|CNIH-4|D530030D03Rik|E430023H19Rik|HSPC163	cornichon family AMPA receptor auxiliary protein 4	protein-coding	26.5	38.5	35.5	206.5	47.5	28.5	16.5	12.5
Merged-chr6-82772142-4	chr6	82772043	82772243	+	852.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	intron (NM_013820, intron 1 of 17)	2311.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	10.5	20.0	10.0	188.5	16.0	6.5	10.5	4.0
Merged-chr5-65698392-6	chr5	65698347	65698547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081321)	promoter-TSS (NM_001081321)	-591.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	29.0	62.0	34.5	367.5	78.0	33.0	22.0	30.5
Merged-chr10-19669104-4	chr10	19668998	19669198	+	915.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43489.0	NM_172786	237313.0	Mm.234667	NM_172786	ENSMUSG00000020007	Il20ra	E230031K19	interleukin 20 receptor, alpha	protein-coding	11.5	30.0	20.0	233.0	25.5	11.0	23.5	13.5
Merged-chr3-18245378-4	chr3	18245258	18245458	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-2020.0	NM_007825	13123.0	Mm.316000	NM_007825	ENSMUSG00000039519	Cyp7b1	AW261589|D3Ertd552e|hct-1	cytochrome P450, family 7, subfamily b, polypeptide 1	protein-coding	20.0	22.0	7.0	164.0	40.5	20.0	21.0	16.5
Merged-chr7-125551273-4	chr7	125551178	125551378	+	965.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1004.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	24.5	22.5	10.0	308.5	37.0	18.0	18.0	27.5
Merged-chr19-42170574-4	chr19	42170503	42170703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177319)	promoter-TSS (NM_177319)	36.0	NM_001164531	319740.0	Mm.287359	NM_177319	ENSMUSG00000018820	Zfyve27	2210011N02Rik|9530077C24Rik|AI426636|AI593546|AI835681	zinc finger, FYVE domain containing 27	protein-coding	75.0	99.0	49.0	910.5	159.0	57.0	66.0	47.5
Merged-chr9-15493453-4	chr9	15493347	15493547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359604)	promoter-TSS (NM_001359604)	15.0	NM_001359604	170748.0	Mm.86572	NM_133214	ENSMUSG00000058173	Smco4	Fn5	single-pass membrane protein with coiled-coil domains 4	protein-coding	21.5	32.0	27.0	443.5	41.0	5.0	21.0	18.0
Merged-chr7-101321075-1	chr7	101320975	101321175	+	549.0	f0_balb.idr	promoter-TSS (NM_019990)	promoter-TSS (NM_019990)	-38.0	NM_019990	56018.0	Mm.28896	NM_019990	ENSMUSG00000030688	Stard10	AV048538|CGI-52|NY-C0-28|PC-TP2|PCTP2|Pctpl|Sdccag28|SdccagG28|TISP-81	START domain containing 10	protein-coding	5.5	3.5	6.5	66.0	12.5	6.0	5.5	7.0
Merged-chr10-63428826-3	chr10	63428752	63428952	+	844.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1246.0	NM_177612	216033.0	Mm.444692	NM_177612	ENSMUSG00000060843	Ctnna3	4930429L08Rik|4933408A16|Catna3|Vr22	catenin (cadherin associated protein), alpha 3	protein-coding	4.5	9.5	2.0	58.5	26.0	8.5	6.0	13.0
Merged-chr1-131942991-4	chr1	131942860	131943060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19955.0	NM_001177628	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	40.0	44.0	56.0	920.0	85.5	18.5	41.0	42.5
Merged-chr2-48930492-4	chr2	48930390	48930590	+	655.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149356, intron 6 of 13)	intron (NR_149356, intron 6 of 13)	18777.0	NM_001177313	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	9.0	5.5	10.5	122.5	20.0	4.0	10.5	3.0
Merged-chr11-19019776-5	chr11	19019726	19019926	+	903.5599980000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001193271)	promoter-TSS (NM_001193271)	-857.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	12.5	12.0	24.0	286.0	32.5	15.0	19.5	11.5
Merged-chr4-132035922-3	chr4	132035869	132036069	+	732.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	MTB_Mm|LTR|ERVL-MaLR	13109.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	15.0	8.0	6.5	58.0	11.0	12.0	7.5	12.0
Merged-chr10-95525141-4	chr10	95525027	95525227	+	952.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	intron (NM_080560, intron 1 of 3)	9965.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	3.0	21.0	7.0	155.5	59.5	22.5	10.5	12.5
Merged-chr5-129846971-4	chr5	129846869	129847069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026445)	promoter-TSS (NM_026445)	-21.0	NM_026445	67902.0	Mm.103546	NM_026445	ENSMUSG00000025538	Sumf2	2610040F05Rik	sulfatase modifying factor 2	protein-coding	44.0	50.5	47.0	838.0	294.0	76.0	114.0	102.5
Merged-chr17-43569990-1	chr17	43569890	43570090	+	1000.0	f0_balb.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	1539.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	7.5	16.5	16.5	158.5	22.5	7.0	5.5	6.5
Merged-chr10-77627712-4	chr10	77627615	77627815	+	928.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019803, intron 1 of 5)	intron (NM_019803, intron 1 of 5)	5394.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	14.5	31.0	11.0	276.5	27.0	22.0	17.0	15.0
Merged-chr7-30998235-4	chr7	30998155	30998355	+	847.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR22_Mus|LTR|ERVK	16334.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	13.5	12.5	11.5	149.0	30.0	3.0	16.0	13.0
Merged-chr16-44989267-4	chr16	44989159	44989359	+	751.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45581.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	13.5	12.5	16.0	247.5	7.5	9.0	11.5	14.5
Merged-chr10-40128688-4	chr10	40128591	40128791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	13563.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	174.0	310.5	185.0	2799.0	444.0	159.0	202.0	165.0
Merged-chr5-113649003-4	chr5	113648908	113649108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	1382.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	138.0	174.5	180.5	2730.5	280.0	121.5	145.0	147.5
Merged-chr1-132335156-4	chr1	132335059	132335259	+	974.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19034.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	19.0	55.0	27.5	112.0	37.0	16.0	4.5	8.5
Merged-chr14-79587465-7	chr14	79587391	79587591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026474)	promoter-TSS (NM_026474)	-169.0	NM_026474	67955.0	Mm.18972	NM_026474	ENSMUSG00000022024	Sugt1	2410174K12Rik|SGT1	SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae)	protein-coding	74.5	106.5	99.5	631.5	186.5	83.0	64.5	78.5
Merged-chr16-44768140-4	chr16	44768034	44768234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	2398.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	39.5	47.0	17.0	427.0	80.0	30.5	24.0	32.5
Merged-chr12-111672342-4	chr12	111672243	111672443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021273)	promoter-TSS (NM_021273)	-5.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	43.5	55.0	27.0	355.5	90.5	53.0	48.5	57.5
Merged-chr5-24426767-4	chr5	24426670	24426870	+	982.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253892)	promoter-TSS (NM_001253892)	-751.0	NM_001253892	20535.0	Mm.4580	NM_009207	ENSMUSG00000028962	Slc4a2	Ae2|B3RP	solute carrier family 4 (anion exchanger), member 2	protein-coding	18.5	23.0	12.5	349.0	33.0	25.0	20.5	19.5
Merged-chr3-116513088-4	chr3	116512983	116513183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357344)	promoter-TSS (NM_001357344)	13.0	NM_010022	13171.0	Mm.3636	NM_010022	ENSMUSG00000000340	Dbt	BCKAD-E2|D3Wsu60e	dihydrolipoamide branched chain transacylase E2	protein-coding	68.0	98.0	63.0	1123.0	114.5	48.0	132.5	57.5
Merged-chr5-66106140-4	chr5	66106024	66106224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-7945.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	73.5	87.0	58.5	621.5	193.5	77.5	61.0	63.5
Merged-chr5-124026585-4	chr5	124026484	124026684	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	5676.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	22.0	50.0	23.5	174.5	113.0	29.5	17.0	26.5
Merged-chr3-109456523-3	chr3	109456417	109456617	+	772.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	115834.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	17.0	14.5	11.0	297.5	6.5	1.0	7.0	4.0
Merged-chr8-120716213-4	chr8	120716113	120716313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20145.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	147.0	172.5	147.0	2313.5	320.5	133.0	182.5	128.0
Merged-chr11-115051366-4	chr11	115051255	115051455	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172050)	TTS (NM_172050)	-3060.0	NM_199201	382551.0	Mm.424732	NM_199201	ENSMUSG00000069607	Cd300ld3	AY457049|Cd300lh|Clm3|Lmir7|clm-3	CD300 molecule like family member D3	protein-coding	7.5	14.0	8.5	204.5	52.0	3.0	9.0	15.5
Merged-chr6-108702018-3	chr6	108701914	108702114	+	760.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-41080.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	9.5	9.0	12.5	124.0	5.5	3.0	6.0	9.0
Merged-chr15-59831224-4	chr15	59831118	59831318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-36259.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	89.5	188.0	126.5	1614.0	301.0	158.0	111.5	98.0
Merged-chr15-57970354-4	chr15	57970255	57970455	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081396)	TTS (NM_001081396)	-15548.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	19.0	44.0	16.5	311.0	70.5	13.5	41.5	24.5
Merged-chr16-58502732-1	chr16	58502632	58502832	+	572.5	f0_c57.idr	intron (NM_001357433, intron 2 of 10)	B1F|SINE|Alu	20694.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	2.5	4.0	8.5	59.0	18.0	7.5	12.5	16.0
Merged-chr8-61451071-4	chr8	61450987	61451187	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36647.0	NM_145595	234309.0	Mm.29059	NM_145595	ENSMUSG00000031641	Cbr4	A730083J17Rik|BC009118	carbonyl reductase 4	protein-coding	51.5	57.0	27.0	567.0	120.5	31.5	39.5	19.5
Merged-chr16-31938596-4	chr16	31938465	31938665	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172822, intron 1 of 2)	MT2B|LTR|ERVL	4714.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	13.0	32.0	16.5	226.5	42.0	18.0	29.0	15.0
Merged-chr5-97061688-4	chr5	97061589	97061789	+	977.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 11 of 15)	intron (NM_080708, intron 11 of 15)	49907.0	NM_001359910	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	26.0	25.0	20.0	301.0	51.0	21.0	16.5	20.5
Merged-chr2-128243878-3	chr2	128243784	128243984	+	845.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	116309.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	13.0	24.0	10.5	183.5	19.0	1.5	2.0	7.5
Merged-chr16-4840463-4	chr16	4840389	4840589	+	751.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030192, intron 1 of 15)	L1MB7|LINE|L1	5073.0	NM_030192	78809.0	Mm.325551	NM_030192	ENSMUSG00000022518	4930562C15Rik	-	RIKEN cDNA 4930562C15 gene	protein-coding	11.5	6.0	18.0	126.0	22.5	7.5	8.5	12.5
Merged-chr10-7727293-3	chr10	7727207	7727407	+	870.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011835, intron 1 of 10)	PB1D10|SINE|Alu	1307.0	NM_011835	23924.0	Mm.28127	NM_011835	ENSMUSG00000019794	Katna1	-	katanin p60 (ATPase-containing) subunit A1	protein-coding	6.5	7.0	7.0	101.0	16.5	3.0	7.0	13.0
Merged-chr5-65091698-4	chr5	65091613	65091813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15855.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	63.0	120.5	72.5	1166.0	187.5	69.5	77.5	103.0
Merged-chr5-139479248-4	chr5	139479176	139479376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133349, intron 3 of 6)	intron (NM_133349, intron 3 of 6)	5215.0	NM_133349	100494.0	Mm.24521	NM_133349	ENSMUSG00000053581	Zfand2a	AA407930|AU016206|Airap	zinc finger, AN1-type domain 2A	protein-coding	44.5	97.0	43.5	808.0	65.5	23.0	11.5	37.5
Merged-chr8-69792838-4	chr8	69792768	69792968	+	770.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133224, intron 1 of 25)	intron (NM_133224, intron 1 of 25)	1705.0	NM_133224	170759.0	Mm.186066	NM_133224	ENSMUSG00000031862	Atp13a1	Atp13a|Cgi152|catp	ATPase type 13A1	protein-coding	6.0	11.0	9.0	149.5	11.0	10.0	11.5	12.5
Merged-chr3-36532167-4	chr3	36532082	36532282	+	885.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10737.0	NR_040411	100503068.0	Mm.389423	NR_040411	ENSMUSG00000085007	Gm11549	-	predicted gene 11549	ncRNA	8.0	18.0	10.0	221.5	26.0	13.5	12.5	13.0
Merged-chr15-100605142-2	chr15	100605082	100605282	+	731.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-5198.0	NM_001304965	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	10.0	15.5	13.5	68.5	20.5	2.0	10.0	8.5
Merged-chr8-77549449-4	chr8	77549370	77549570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081240)	promoter-TSS (NM_001081240)	73.0	NM_001081240	102182.0	Mm.197630	NM_178903	ENSMUSG00000037134	Prmt9	AI931714|Prmt10	protein arginine methyltransferase 9	protein-coding	99.5	186.5	132.5	1319.0	206.5	89.5	85.0	82.5
Merged-chr7-144943499-4	chr7	144943410	144943610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3585.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	37.5	70.0	27.5	486.0	131.5	29.0	50.5	37.5
Merged-chr16-31935425-4	chr16	31935330	31935530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172822, intron 1 of 2)	intron (NM_172822, intron 1 of 2)	1579.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	66.5	104.0	72.0	1088.5	144.0	58.5	91.5	79.0
Merged-chr18-60740578-4	chr18	60740489	60740689	+	880.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	6157.0	NM_001348101	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	14.0	28.5	19.5	67.0	33.5	10.5	17.5	12.0
Merged-chr8-46597518-3	chr8	46597415	46597615	+	877.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001184, intron 6 of 14)	RLTR25A|LTR|ERVK	19712.0	NM_001001184	408022.0	Mm.217385	NM_001001184	ENSMUSG00000038225	Primpol	BC065112|Ccdc111	primase and polymerase (DNA-directed)	protein-coding	10.0	9.0	8.0	164.5	33.0	0.5	1.5	4.0
Merged-chr5-112326776-3	chr5	112326667	112326867	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018783, intron 1 of 13)	intron (NM_018783, intron 1 of 13)	398.0	NM_018783	54723.0	Mm.172947	NM_018783	ENSMUSG00000029345	Tfip11	2810002G02Rik|AF097181|AW046167|Srr1|TIP33|Tip39	tuftelin interacting protein 11	protein-coding	14.0	12.0	9.5	159.5	56.5	18.0	13.0	22.0
Merged-chr2-112492596-2	chr2	112492497	112492697	+	800.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_028844)	promoter-TSS (NM_028844)	-367.0	NM_028844	74268.0	Mm.315125	NM_028844	ENSMUSG00000003604	Aven	1700013A01Rik|1700056A21Rik|mAven-L|mAven-S	apoptosis, caspase activation inhibitor	protein-coding	4.5	16.5	6.5	129.0	7.5	12.5	5.5	18.5
Merged-chr10-21998909-6	chr10	21998820	21999020	+	798.972229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001161850, exon 12 of 12)	3' UTR (NM_001161850, exon 12 of 12)	4254.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	6.5	12.0	6.0	42.0	19.5	7.5	5.5	7.0
Merged-chr8-126591269-1	chr8	126591169	126591369	+	1000.0	f0_balb.idr	exon (NM_001164598, exon 2 of 2)	exon (NM_001164598, exon 2 of 2)	2167.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	21.0	33.5	38.5	313.5	47.0	21.0	24.0	27.0
Merged-chr2-59132455-3	chr2	59132359	59132559	+	857.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	RLTR13B4|LTR|ERVK	28224.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	8.0	24.5	3.0	67.0	14.0	13.5	12.5	12.5
Merged-chr17-78682428-1	chr17	78682328	78682528	+	847.6666869999999	f0_balb.idr	intron (NM_011500, intron 6 of 17)	intron (NM_011500, intron 6 of 17)	54132.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	9.0	8.0	18.0	197.0	6.0	4.5	10.0	3.5
Merged-chr7-98322646-4	chr7	98322528	98322728	+	939.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1420.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	27.5	38.5	18.5	258.5	29.5	20.5	10.0	13.0
Merged-chr18-56569308-2	chr18	56569208	56569408	+	764.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162989, intron 1 of 4)	B4A|SINE|B4	-3563.0	NM_019996	56698.0	Mm.214569	NM_019996	ENSMUSG00000008301	Phax	2810055C14Rik|4933427L19Rik|AU018701|AU018854|D18Ertd65e|Rnuxa|p55	phosphorylated adaptor for RNA export	protein-coding	3.0	4.5	1.5	69.5	38.0	9.0	7.5	8.0
Merged-chr7-17051158-3	chr7	17051055	17051255	+	681.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162950, exon 5 of 15)	exon (NM_001162950, exon 5 of 15)	5524.0	NM_016868	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	14.0	11.5	5.0	62.5	18.5	8.0	1.5	5.5
Merged-chr6-116037434-3	chr6	116037343	116037543	+	822.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 4 of 5)	intron (NM_177412, intron 4 of 5)	-42438.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	11.0	8.5	4.5	195.5	3.5	4.0	3.0	5.0
Merged-chr4-120589998-2	chr4	120589887	120590087	+	707.25	f0_c57.idr|f1_c57bl6.idr	intron (NM_001101603, intron 1 of 2)	intron (NM_001101603, intron 1 of 2)	1242.0	NM_001101603	667063.0	Mm.90231	NM_001101603	ENSMUSG00000091297	Gm8439	EG667063|Gm1664	predicted gene 8439	protein-coding	2.0	4.5	2.0	21.0	30.0	6.5	15.5	11.5
Merged-chr8-119862201-4	chr8	119862127	119862327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146219)	promoter-TSS (NM_146219)	-78.0	NM_146219	234796.0	Mm.86446	NM_146219	ENSMUSG00000031828	Klhl36	-	kelch-like 36	protein-coding	237.0	317.0	183.5	3026.5	453.0	181.5	249.5	189.0
Merged-chr4-136364163-3	chr4	136364066	136364266	+	601.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52568.0	NM_001355182	74326.0	Mm.31051	NM_028871	ENSMUSG00000066037	Hnrnpr	2610003J05Rik|2610528B01Rik|Hnrpr	heterogeneous nuclear ribonucleoprotein R	protein-coding	9.0	14.5	14.0	20.5	6.5	5.0	0.0	3.0
Merged-chr5-143470964-4	chr5	143470847	143471047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 2 of 14)	intron (NM_144915, intron 2 of 14)	6454.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	66.5	69.5	56.5	1032.5	150.0	61.5	58.5	68.5
Merged-chr13-59666604-3	chr13	59666511	59666711	+	711.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035122, intron 1 of 9)	intron (NM_001035122, intron 1 of 9)	9173.0	NM_001035122	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	5.0	6.0	7.5	92.5	13.5	1.0	5.5	5.0
Merged-chr4-32571660-4	chr4	32571553	32571753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_026843)	promoter-TSS (NR_026843)	9.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	69.5	70.0	112.5	1734.0	93.0	26.5	38.5	65.0
Merged-chr15-66578535-3	chr15	66578467	66578667	+	665.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081409, intron 1 of 20)	intron (NM_001081409, intron 1 of 20)	995.0	NM_001081409	239510.0	Mm.267473	NM_178718	ENSMUSG00000072501	Phf20l1	CGI-72|E130113K22Rik	PHD finger protein 20-like 1	protein-coding	5.0	9.0	6.0	52.5	10.0	3.5	5.0	5.0
Merged-chr6-125166599-4	chr6	125166492	125166692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008084)	promoter-TSS (NM_008084)	-125.0	NM_001289726	14433.0	Mm.304088	NM_008084	ENSMUSG00000057666	Gapdh	Gapd	glyceraldehyde-3-phosphate dehydrogenase	protein-coding	72.0	86.0	33.5	661.5	256.0	85.5	152.0	95.0
Merged-chr18-53746828-3	chr18	53746728	53746928	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2281.0	NM_178686	225523.0	Mm.193678	NM_178686	ENSMUSG00000048799	Cep120	A230075C01|AU016693|Ccdc100	centrosomal protein 120	protein-coding	79.0	101.5	72.0	1216.0	3.0	0.0	0.5	2.5
Merged-chr11-117196897-3	chr11	117196777	117196977	+	876.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2784.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	8.0	21.5	8.5	247.0	23.0	3.0	7.0	6.0
Merged-chr7-75910163-3	chr7	75910074	75910274	+	798.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61836.0	NM_029652	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	4.0	2.5	5.0	78.0	29.5	9.5	12.5	10.5
Merged-chr2-38483522-4	chr2	38483417	38483617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28180.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	95.0	121.5	83.5	1514.0	244.5	93.0	96.5	107.5
Merged-chr6-146888449-4	chr6	146888357	146888557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170433)	promoter-TSS (NM_001170433)	-37.0	NM_001355728	67533.0	Mm.103382	NM_026221	ENSMUSG00000016487	Ppfibp1	4632409B19Rik|AW214454|AW261454	PTPRF interacting protein, binding protein 1 (liprin beta 1)	protein-coding	147.0	158.5	138.5	2413.5	291.5	92.5	210.5	126.0
Merged-chr17-33998799-5	chr17	33998667	33998867	+	903.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001892, intron 3 of 7)	intron (NM_001001892, intron 3 of 7)	1566.0	NM_001001892	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	5.0	2.5	5.5	34.5	27.5	13.0	6.5	19.5
Merged-chr17-27203607-5	chr17	27203434	27203634	+	897.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146075, intron 1 of 8)	intron (NM_146075, intron 1 of 8)	904.0	NM_146075	224640.0	Mm.29689	NM_146075	ENSMUSG00000044857	Lemd2	BC026588|Lem2|NET25	LEM domain containing 2	protein-coding	5.0	7.5	9.5	23.0	10.5	2.5	0.0	4.5
Merged-chr3-96558407-3	chr3	96558310	96558510	+	897.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023719, exon 1 of 8)	exon (NM_023719, exon 1 of 8)	453.0	NM_001009935	56338.0	Mm.410189	NM_023719	ENSMUSG00000038393	Txnip	1200008J08Rik|AA682105|Hyplip1|THIF|Tbp-2|VDUP1	thioredoxin interacting protein	protein-coding	7.0	9.0	7.0	97.5	22.0	4.5	7.0	20.5
Merged-chr17-46555518-3	chr17	46555428	46555628	+	897.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020493, exon 1 of 7)	exon (NM_020493, exon 1 of 7)	634.0	NM_020493	20807.0	Mm.45044	NM_020493	ENSMUSG00000015605	Srf	AW049942|AW240594	serum response factor	protein-coding	7.0	7.5	13.0	130.5	20.0	13.0	10.5	21.0
Merged-chr15-91180067-4	chr15	91179964	91180164	+	866.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 3 of 9)	intron (NM_011994, intron 3 of 9)	11943.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	13.0	10.0	19.5	294.5	9.5	5.5	14.0	14.5
Merged-chr12-98292484-4	chr12	98292382	98292582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23847.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	32.0	34.5	60.0	751.5	81.0	22.5	56.0	37.0
Merged-chr9-107769703-4	chr9	107769598	107769798	+	850.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153191, intron 1 of 23)	intron (NR_153191, intron 1 of 23)	1304.0	NM_148930	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	12.5	20.5	7.0	172.0	30.5	16.5	9.5	9.5
Merged-chr3-88143258-4	chr3	88143167	88143367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310593, intron 1 of 10)	intron (NM_001310593, intron 1 of 10)	895.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	54.5	77.5	89.5	777.0	155.5	51.5	74.5	70.5
Merged-chr18-84584439-4	chr18	84584329	84584529	+	762.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 1 of 8)	intron (NM_001033341, intron 1 of 8)	5075.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	10.0	13.5	5.0	90.5	26.5	9.5	14.0	14.0
Merged-chr8-82398721-4	chr8	82398629	82398829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	3857.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	64.5	76.5	53.0	704.5	202.0	50.0	76.5	40.0
Merged-chr11-67608375-3	chr11	67608341	67608541	+	692.761108	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109657, intron 2 of 13)	intron (NM_001109657, intron 2 of 13)	11886.0	NM_001277079	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	0.5	0.5	4.0	66.5	30.5	8.0	9.5	17.5
Merged-chr1-63668984-4	chr1	63668900	63669100	+	833.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081658, intron 6 of 14)	MTD|LTR|ERVL-MaLR	17927.0	NM_001081658	241073.0	Mm.297680	NM_001081658	ENSMUSG00000069085	Dytn	Gm215	dystrotelin	protein-coding	14.0	9.0	7.5	215.0	23.0	9.0	15.5	9.5
Merged-chr8-8653668-3	chr8	8653587	8653787	+	894.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010111, intron 1 of 4)	intron (NM_010111, intron 1 of 4)	7086.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	12.5	5.0	9.0	191.0	16.5	3.0	3.5	3.0
Merged-chr2-21215469-4	chr2	21215356	21215556	+	939.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177588)	TTS (NM_177588)	9732.0	NM_177588	208967.0	Mm.268841	NM_177588	ENSMUSG00000048550	Thnsl1	AW413632	threonine synthase-like 1 (bacterial)	protein-coding	10.0	23.5	11.5	175.5	36.5	5.5	20.5	12.5
Merged-chr14-74949086-4	chr14	74949000	74949200	+	952.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1223.0	NM_001033439	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	17.0	18.5	16.0	276.5	44.0	12.0	26.5	25.5
Merged-chr3-95658141-4	chr3	95658039	95658239	+	972.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008562)	promoter-TSS (NM_008562)	-582.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	27.0	47.0	13.0	127.0	68.0	33.0	26.0	26.5
Merged-chr1-36069355-4	chr1	36069266	36069466	+	866.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	966.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	12.0	3.0	6.5	122.0	20.5	7.0	14.0	13.0
Merged-chr7-3712545-4	chr7	3712468	3712668	+	922.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011095)	TTS (NM_011095)	7814.0	NM_001357394	18733.0	Mm.326531	NM_011095	ENSMUSG00000058818	Pirb	Gp91|LIR-3|Lilrb3|PIR-B	paired Ig-like receptor B	protein-coding	11.5	26.0	11.5	71.0	44.0	20.5	16.5	15.5
Merged-chr19-55744162-3	chr19	55744061	55744261	+	891.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 3 of 15)	intron (NR_138565, intron 3 of 15)	2351.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	9.5	6.5	11.5	69.0	9.0	9.0	4.0	8.0
Merged-chr2-85037179-4	chr2	85037076	85037276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136081)	promoter-TSS (NM_001136081)	56.0	NM_182990	20833.0	Mm.219793	NM_182990	ENSMUSG00000027067	Ssrp1	C81323|Hmg1-rs1|Hmgi-rs3|Hmgox|T160	structure specific recognition protein 1	protein-coding	89.0	151.0	97.0	1418.0	266.5	84.5	143.0	86.5
Merged-chr6-52479394-4	chr6	52479314	52479514	+	892.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13037.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	13.5	12.0	15.0	178.5	32.5	23.5	14.0	15.5
Merged-chr1-36262302-4	chr1	36262213	36262413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	11112.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	137.5	169.5	109.5	2362.0	214.0	79.0	128.0	109.5
Merged-chr3-108146159-4	chr3	108146107	108146307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010306)	promoter-TSS (NM_010306)	-55.0	NM_010306	14679.0	Mm.271703	NM_010306	ENSMUSG00000000001	Gnai3	AI158965|AW537698|Galphai3|Gnai-3	guanine nucleotide binding protein (G protein), alpha inhibiting 3	protein-coding	74.5	91.0	68.5	856.0	160.5	55.0	73.0	62.5
Merged-chr1-181210696-4	chr1	181210617	181210817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145514, intron 1 of 13)	intron (NM_145514, intron 1 of 13)	1261.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	26.0	27.5	22.0	278.0	56.5	18.0	29.0	29.0
Merged-chr11-48838603-4	chr11	48838481	48838681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347446, intron 1 of 6)	intron (NM_001347446, intron 1 of 6)	1110.0	NM_001347446	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	29.5	34.0	14.0	263.5	33.5	25.0	20.0	17.5
Merged-chr4-40113345-3	chr4	40113279	40113479	+	645.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29886.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	7.5	9.0	7.0	94.5	7.5	1.5	12.5	11.0
Merged-chr3-16183126-4	chr3	16183012	16183212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145919)	promoter-TSS (NM_001145919)	-53.0	NM_001358043	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	210.5	319.0	245.5	3594.0	570.5	294.0	292.0	240.0
Merged-chr6-33837033-4	chr6	33836915	33837115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 12 of 17)	intron (NM_009148, intron 12 of 17)	-192433.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	59.0	76.0	71.0	532.5	152.0	56.0	58.0	61.5
Merged-chr9-116137009-4	chr9	116136912	116137112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	38351.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	79.5	82.0	66.0	894.5	100.5	33.5	61.5	70.5
Merged-chr8-34846214-4	chr8	34846129	34846329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 20 of 26)	intron (NM_175091, intron 20 of 26)	38619.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	67.0	105.0	66.5	1586.0	263.5	76.0	104.0	111.0
Merged-chr6-83107775-4	chr6	83107675	83107875	+	835.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081266, exon 8 of 9)	exon (NM_001081266, exon 8 of 9)	-1333.0	NM_026744	68499.0	Mm.333183	NM_026744	ENSMUSG00000030037	Mrpl53	1110007K17Rik	mitochondrial ribosomal protein L53	protein-coding	7.5	13.0	6.5	146.0	19.5	16.0	12.0	13.5
Merged-chr4-33290304-4	chr4	33290196	33290396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20015.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	57.0	96.5	69.5	777.0	195.5	66.5	72.0	50.0
Merged-chr13-40860084-3	chr13	40859978	40860178	+	802.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023887, exon 1 of 3)	5' UTR (NM_023887, exon 1 of 3)	310.0	NM_023887	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	5.5	11.0	11.0	86.0	12.0	5.0	7.0	2.5
Merged-chr4-140906285-4	chr4	140906207	140906407	+	914.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008812)	promoter-TSS (NM_008812)	-53.0	NM_008812	18600.0	Mm.2296	NM_008812	ENSMUSG00000028927	Padi2	Pdi|Pdi2|mKIAA0994	peptidyl arginine deiminase, type II	protein-coding	10.0	22.0	16.0	104.0	49.0	12.5	13.5	20.5
Merged-chr15-76307410-4	chr15	76307309	76307509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153122)	promoter-TSS (NM_153122)	-164.0	NM_153122	75475.0	Mm.322738	NM_153122	ENSMUSG00000022562	Oplah	1700010G02Rik	5-oxoprolinase (ATP-hydrolysing)	protein-coding	34.5	38.0	38.5	578.0	92.5	24.5	39.5	28.5
Merged-chr11-79460941-2	chr11	79460840	79461040	+	718.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_010897, intron 30 of 57)	intron (NM_010897, intron 30 of 57)	23091.0	NR_045305	104522.0	Mm.436987	NR_045305	ENSMUSG00000091523	AU040972	AU040954	expressed sequence AU040972	ncRNA	10.5	8.0	7.0	117.0	9.0	5.5	4.0	7.0
Merged-chr2-32530630-2	chr2	32530523	32530723	+	648.0	f0_balb.idr|f0_c57.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4736.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	8.0	7.5	4.5	206.5	19.5	1.0	5.5	11.0
Merged-chr2-118545425-4	chr2	118545387	118545587	+	791.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_138603)	promoter-TSS (NR_138603)	-900.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	15.0	10.0	7.5	162.5	16.0	5.5	4.0	10.0
Merged-chr9-110654157-4	chr9	110654064	110654264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183276)	promoter-TSS (NM_183276)	-3.0	NM_183276	235627.0	Mm.335481	NM_183276	ENSMUSG00000056724	Nbeal2	1110014F23Rik|BC042396|mKIAA0540	neurobeachin-like 2	protein-coding	286.0	521.0	305.0	4245.5	660.0	290.0	384.5	235.5
Merged-chr13-95324386-3	chr13	95324285	95324485	+	885.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028106)	promoter-TSS (NM_028106)	-440.0	NM_028106	72114.0	Mm.3774	NM_028106	ENSMUSG00000041995	Zbed3	0610037K01Rik|2610005H11Rik|AU018975|AU024588	zinc finger, BED type containing 3	protein-coding	5.5	12.5	8.5	156.5	30.5	20.5	7.5	6.5
Merged-chr6-71823746-4	chr6	71823653	71823853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025430)	promoter-TSS (NM_025430)	31.0	NM_025430	66223.0	Mm.28579	NM_025430	ENSMUSG00000052962	Mrpl35	1110066C01Rik	mitochondrial ribosomal protein L35	protein-coding	38.5	39.5	36.0	467.0	102.5	32.5	21.0	28.5
Merged-chr7-100503536-5	chr7	100503427	100503627	+	802.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153527, intron 7 of 7)	intron (NM_153527, intron 7 of 7)	10169.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	5.0	16.5	6.0	80.0	22.0	5.5	4.5	14.0
Merged-chr5-66069238-4	chr5	66069159	66069359	+	684.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	28920.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	9.0	10.0	3.0	80.5	11.0	13.0	12.0	18.5
Merged-chr5-122731483-3	chr5	122731387	122731587	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145358, exon 16 of 16)	3' UTR (NM_145358, exon 16 of 16)	23943.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	9.0	12.5	8.0	66.0	19.5	7.5	7.5	13.0
Merged-chr7-100511831-4	chr7	100511727	100511927	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153527, exon 2 of 8)	exon (NM_153527, exon 2 of 8)	2988.0	NM_153527	69387.0	Mm.278554	NM_153527	ENSMUSG00000030708	Dnajb13	1700014P03Rik|Tsarg	DnaJ heat shock protein family (Hsp40) member B13	protein-coding	25.5	29.5	14.5	310.0	119.0	58.5	89.5	65.0
Merged-chr2-84482040-4	chr2	84481936	84482136	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR18B_MM|LTR|ERVK	-5261.0	NM_001177320	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	15.0	31.0	17.5	163.5	117.0	37.0	40.5	44.0
Merged-chr6-146222195-4	chr6	146222094	146222294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 45 of 56)	intron (NM_019923, intron 45 of 56)	280029.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	65.0	128.0	116.5	2014.5	175.0	38.5	73.0	68.5
Merged-chr13-25854651-4	chr13	25854560	25854760	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31A|LTR|ERV1	111656.0	NR_045062	100503530.0	Mm.86763	NR_045062	ENSMUSG00000086531	Gm11351	-	predicted gene 11351	ncRNA	17.5	12.0	20.5	293.0	45.0	13.5	21.0	13.0
Merged-chr11-20934902-4	chr11	20934813	20935013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-103805.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	35.0	38.5	44.5	627.5	63.5	22.5	29.0	26.5
Merged-chr15-59680275-2	chr15	59680175	59680375	+	782.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31621.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	11.0	13.5	5.5	112.0	28.5	4.5	6.5	2.0
Merged-chr2-94437075-4	chr2	94436973	94437173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007466, intron 1 of 13)	intron (NM_007466, intron 1 of 13)	1113.0	NM_007466	11800.0	Mm.181824	NM_007466	ENSMUSG00000027193	Api5	AAC-11|AI196452|API-5	apoptosis inhibitor 5	protein-coding	24.0	56.0	35.0	792.0	65.5	37.5	36.0	39.0
Merged-chr2-117852122-4	chr2	117852028	117852228	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040631, intron 2 of 5)	intron (NR_040631, intron 2 of 5)	30200.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	17.0	19.0	5.5	262.5	60.0	14.0	18.0	12.5
Merged-chr4-129051412-4	chr4	129051316	129051516	+	948.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6855.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	12.0	25.0	10.5	180.5	49.0	28.0	11.0	26.0
Merged-chr11-5485432-4	chr11	5485334	5485534	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35207.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	23.0	45.0	17.5	271.5	107.0	37.0	62.0	39.5
Merged-chr4-145252774-4	chr4	145252677	145252877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5907.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	49.0	119.5	72.0	543.5	141.0	47.0	48.5	31.0
Merged-chr12-91852943-4	chr12	91852860	91853060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3803.0	NM_011344	20338.0	Mm.250605	NM_011344	ENSMUSG00000020964	Sel1l	AW493766|Sel1h|mKIAA4137	sel-1 suppressor of lin-12-like (C. elegans)	protein-coding	28.0	53.0	44.0	457.0	107.0	46.0	23.0	26.5
Merged-chr7-82867843-4	chr7	82867799	82867999	+	866.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175366, exon 1 of 2)	exon (NM_175366, exon 1 of 2)	566.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	13.5	9.5	8.0	120.0	22.0	7.5	14.0	9.0
Merged-chr2-158076915-4	chr2	158076827	158077027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291136, exon 6 of 6)	3' UTR (NM_001291136, exon 6 of 6)	14870.0	NR_040609	72340.0	Mm.443395	NR_040609	ENSMUSG00000100860	2010009K17Rik	-	RIKEN cDNA 2010009K17 gene	ncRNA	40.5	60.5	45.5	807.0	90.0	35.5	73.0	53.5
Merged-chr16-33934915-4	chr16	33934808	33935008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	32130.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	31.5	35.0	23.5	721.5	64.5	24.0	28.5	37.0
Merged-chr5-90906667-4	chr5	90906540	90906740	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009140)	TTS (NM_009140)	2741.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	4.0	30.5	10.5	51.0	42.5	11.5	7.0	4.5
Merged-chr10-8878989-4	chr10	8878897	8879097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	B1F|SINE|Alu	7073.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	17.5	30.0	21.0	292.5	78.0	22.5	45.5	21.5
Merged-chr14-50930109-1	chr14	50930009	50930209	+	1000.0	f1_balb.idr	intron (NM_001033271, intron 2 of 6)	intron (NM_001033271, intron 2 of 6)	740.0	NM_001310506	219024.0	Mm.239117	NM_001033271	ENSMUSG00000035953	Tmem55b	BC039161|Pip4p1	transmembrane protein 55b	protein-coding	16.0	26.0	44.0	501.5	35.5	14.0	14.0	25.5
Merged-chr10-112138775-4	chr10	112138668	112138868	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR46A2|LTR|ERVK	-24853.0	NM_001310675	353025.0	Mm.194428	NM_178278	ENSMUSG00000035694	Caps2	D630005B03Rik	calcyphosphine 2	protein-coding	25.0	40.0	34.5	351.0	62.5	30.0	22.5	19.0
Merged-chr9-40809733-7	chr9	40809566	40809766	+	923.095215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8393.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	10.0	16.5	6.0	67.5	26.0	16.5	4.5	9.5
Merged-chr15-25288049-4	chr15	25287940	25288140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125724.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	211.5	313.5	264.0	4584.5	577.5	191.0	256.5	226.5
Merged-chr12-35026573-2	chr12	35026473	35026673	+	705.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-20616.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	7.5	5.0	5.0	65.0	14.5	6.0	8.5	19.0
Merged-chr7-27861064-4	chr7	27860939	27861139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024726, intron 1 of 4)	intron (NM_001024726, intron 1 of 4)	454.0	NM_001024726	545938.0	Mm.458180	NM_001024726	ENSMUSG00000020420	Zfp607a	4732475C15Rik|Zfp607	zinc finger protein 607A	protein-coding	25.5	49.5	21.0	185.5	61.0	32.0	24.0	9.0
Merged-chr1-37505391-1	chr1	37505291	37505491	+	580.0	f0_balb.idr	intron (NM_173870, intron 2 of 15)	intron (NM_173870, intron 2 of 15)	-16786.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	6.0	5.0	9.5	77.5	4.0	1.5	8.0	5.5
Merged-chr13-49197020-4	chr13	49196910	49197110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013610)	TTS (NM_013610)	9463.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	148.5	171.5	120.5	2413.5	301.0	117.0	143.0	146.5
Merged-chr17-28013424-4	chr17	28013319	28013519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 12 of 24)	intron (NM_181413, intron 12 of 24)	67165.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	46.5	78.0	31.5	516.5	79.0	27.5	47.0	35.5
Merged-chr4-137796397-2	chr4	137796297	137796497	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007431)	promoter-TSS (NM_007431)	-13.0	NM_007431	11647.0	Mm.288186	NM_007431	ENSMUSG00000028766	Alpl	ALP|APTNAP|Akp-2|Akp2|TNAP|TNSALP	alkaline phosphatase, liver/bone/kidney	protein-coding	4.0	2.5	6.0	65.5	14.5	6.5	7.5	6.0
Merged-chr2-163645132-4	chr2	163645042	163645242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012032)	promoter-TSS (NM_012032)	1.0	NM_012032	26943.0	Mm.218473	NM_012032	ENSMUSG00000017707	Serinc3	AA959945|AA960047|AIGP1|DIFF33|TMS-1|Tde1	serine incorporator 3	protein-coding	230.0	357.0	247.5	2708.0	675.5	273.5	269.0	247.0
Merged-chr4-88864758-4	chr4	88864639	88864839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14652.0	NM_010502	15962.0	Mm.57127	NM_010502	ENSMUSG00000095498	Ifna1	Ifa1	interferon alpha 1	protein-coding	42.5	56.5	39.0	545.0	90.0	24.0	36.0	32.5
Merged-chr3-10009589-4	chr3	10009493	10009693	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2992.0	NM_001272097	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	24.5	27.0	17.0	313.0	69.0	19.5	20.5	21.5
Merged-chr12-80112103-2	chr12	80112008	80112208	+	973.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_007564, intron 1 of 1)	intron (NM_007564, intron 1 of 1)	905.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	6.5	11.5	5.0	32.5	12.0	8.0	2.0	4.0
Merged-chr15-6411553-4	chr15	6411453	6411653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	24805.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	132.5	193.0	108.5	1750.5	272.0	101.0	93.0	85.5
Merged-chr3-39268980-3	chr3	39268868	39269068	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	382028.0	NM_183221	329628.0	Mm.316210	NM_183221	ENSMUSG00000046743	Fat4	6030410K14Rik|9430004M15	FAT atypical cadherin 4	protein-coding	0.0	2.0	1.5	5.0	170.5	65.5	53.5	57.0
Merged-chr4-53149071-4	chr4	53148967	53149167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	10828.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	45.5	63.0	75.0	683.0	129.5	36.5	56.5	76.5
Merged-chr9-40805467-4	chr9	40805374	40805574	+	908.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_031165)	TTS (NM_031165)	4201.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	14.0	11.0	12.0	120.0	40.5	17.0	16.0	12.5
Merged-chr19-53763163-4	chr19	53763041	53763241	+	873.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	intron (NM_001170847, intron 1 of 13)	85835.0	NM_001170847	73713.0	Mm.313695	NM_001170847	ENSMUSG00000043639	Rbm20	1110018J23Rik|2010003H22Rik|AI646761	RNA binding motif protein 20	protein-coding	3.5	16.0	10.5	109.0	13.0	13.5	18.0	7.5
Merged-chr12-100725260-4	chr12	100725164	100725364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330702)	promoter-TSS (NM_001330702)	-144.0	NM_153587	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	532.0	748.5	559.5	7283.0	1067.0	458.5	526.0	448.5
Merged-chr11-32300739-4	chr11	32300635	32300835	+	725.108337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175000, exon 3 of 3)	exon (NM_175000, exon 3 of 3)	666.0	NM_175000	216635.0	Mm.338482	NM_175000	ENSMUSG00000020295	Hbq1a	A230090E05Rik|Gm876|Hbq1|Hbqt2	hemoglobin, theta 1A	protein-coding	3.0	10.5	16.5	83.0	28.5	14.5	16.0	19.5
Merged-chr18-3005651-7	chr18	3005515	3005715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117797.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	21.0	21.0	40.0	304.0	32.0	14.5	22.0	56.0
Merged-chr11-29705409-4	chr11	29705316	29705516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194051, intron 1 of 8)	intron (NM_194051, intron 1 of 8)	11642.0	NM_194051	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	65.0	94.5	87.5	1428.0	150.0	73.5	49.5	39.5
Merged-chr2-115581658-4	chr2	115581550	115581750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145898)	promoter-TSS (NM_001145898)	-66.0	NM_207264	399568.0	Mm.134929	NM_207264	ENSMUSG00000040282	BC052040	-	cDNA sequence BC052040	protein-coding	57.5	48.5	31.5	912.5	140.0	49.0	85.5	55.0
Merged-chr11-72607190-4	chr11	72607065	72607265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025985)	promoter-TSS (NM_025985)	-96.0	NM_025985	67128.0	Mm.458052	NM_025985	ENSMUSG00000020794	Ube2g1	2700059C12Rik|AI256795|AU014992|AW552068|D130023C12Rik	ubiquitin-conjugating enzyme E2G 1	protein-coding	208.5	342.0	178.5	2389.5	471.5	162.0	224.5	173.0
Merged-chr7-139683905-3	chr7	139683822	139684022	+	847.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302546)	promoter-TSS (NM_001302546)	-107.0	NM_001302546	212124.0	Mm.425507	NM_177212	ENSMUSG00000049571	Cfap46	9330101J02Rik|E030019B06Rik|Gm170|Ttc40	cilia and flagella associated protein 46	protein-coding	11.0	18.5	10.0	145.0	13.0	1.5	4.5	6.0
Merged-chr7-96970580-2	chr7	96970480	96970680	+	851.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 4 of 13)	intron (NM_153591, intron 4 of 13)	19053.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	11.5	2.5	0.5	82.5	28.5	6.0	4.5	10.0
Merged-chr18-34954392-4	chr18	34954312	34954512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010481)	promoter-TSS (NM_010481)	-61.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	51.0	76.0	65.5	457.0	111.5	60.0	38.5	74.5
Merged-chr12-16877133-8	chr12	16877014	16877214	+	911.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17864.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	30.5	34.5	17.5	334.5	48.0	30.5	29.5	20.5
Merged-chr13-45963075-3	chr13	45962975	45963175	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 1 of 6)	intron (NM_001199304, intron 1 of 6)	1916.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	6.0	15.5	5.5	102.0	36.0	7.5	4.5	5.5
Merged-chr5-86069581-4	chr5	86069382	86069582	+	880.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2264.0	NM_019992	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	4.5	7.5	14.5	150.5	26.0	14.5	3.5	10.5
Merged-chr4-9647464-4	chr4	9647375	9647575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	-3758.0	NM_001177852	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	21.0	29.0	24.5	326.5	90.5	36.0	30.5	44.0
Merged-chr8-14605674-1	chr8	14605574	14605774	+	694.166687	f0_balb.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-282862.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	16.5	21.0	12.0	122.5	2.0	0.0	2.5	0.5
Merged-chr2-120296316-4	chr2	120296171	120296371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7202.0	NM_001024137	78390.0	Mm.330507	NM_001024137	ENSMUSG00000070719	Pla2g4d	2610311B01Rik|Pla2delta|cPLA2delta	phospholipase A2, group IVD	protein-coding	40.0	41.5	41.5	919.0	98.5	30.0	71.5	54.5
Merged-chr14-100224386-4	chr14	100224285	100224485	+	978.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74589.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	19.5	53.5	23.5	589.5	47.5	24.5	22.0	16.5
Merged-chr2-52941787-4	chr2	52941668	52941868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	83900.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	89.5	188.5	82.0	948.0	212.5	87.0	75.0	47.5
Merged-chr17-84188054-4	chr17	84187959	84188159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001806)	promoter-TSS (NM_001001806)	-112.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	212.5	255.5	147.0	2170.5	456.0	178.0	190.0	154.0
Merged-chr9-65346669-4	chr9	65346563	65346763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016688, exon 1 of 5)	exon (NM_016688, exon 1 of 5)	595.0	NM_016688	50996.0	Mm.29193	NM_016688	ENSMUSG00000041837	Pdcd7	C80112|ES18	programmed cell death 7	protein-coding	40.0	74.5	36.0	465.0	125.5	43.0	48.0	54.5
Merged-chr4-12906848-4	chr4	12906758	12906958	+	982.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173746)	promoter-TSS (NM_173746)	21.0	NM_001171801	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	32.0	27.5	41.5	700.0	51.0	15.5	50.0	22.0
Merged-chr10-105271422-4	chr10	105271322	105271522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177368, intron 9 of 11)	intron (NM_177368, intron 9 of 11)	303057.0	NM_177368	278279.0	Mm.25225	NM_177368	ENSMUSG00000036019	Tmtc2	8430438D04Rik|D330034A10Rik	transmembrane and tetratricopeptide repeat containing 2	protein-coding	29.5	85.5	91.0	1535.5	170.0	54.0	111.5	79.5
Merged-chr18-6145088-4	chr18	6144969	6145169	+	984.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8971.0	NM_001039692	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	15.5	25.0	14.0	257.5	49.0	23.0	18.0	16.5
Merged-chr9-85449689-4	chr9	85449586	85449786	+	888.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122536.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	15.0	7.5	19.0	261.0	9.0	16.5	14.0	19.0
Merged-chr4-115828492-4	chr4	115828398	115828598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175308, intron 1 of 3)	intron (NM_175308, intron 1 of 3)	406.0	NM_175308	100465.0	Mm.35571	NM_175308	ENSMUSG00000028709	Mob3c	AW822253|D130076I06Rik|Mobkl2c	MOB kinase activator 3C	protein-coding	66.0	114.5	75.0	920.5	201.0	55.0	89.5	56.0
Merged-chr2-152398914-4	chr2	152398816	152399016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011438)	promoter-TSS (NM_011438)	-870.0	NM_011438	20667.0	Mm.28424	NM_011438	ENSMUSG00000051817	Sox12	2010205A02Rik	SRY (sex determining region Y)-box 12	protein-coding	105.0	167.0	102.5	1596.0	265.0	88.5	131.0	121.5
Merged-chr7-7121039-4	chr7	7120930	7121130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172738, intron 1 of 4)	intron (NM_172738, intron 1 of 4)	446.0	NM_172738	232853.0	Mm.23838	NM_172738	ENSMUSG00000062116	Zfp954	5730403M16Rik|8030437F07|AA123315	zinc finger protein 954	protein-coding	55.0	77.5	51.0	1100.0	151.5	57.5	65.0	53.5
Merged-chr14-70175861-1	chr14	70175761	70175961	+	1000.0	f0_balb.idr	intron (NM_145978, intron 1 of 9)	intron (NM_145978, intron 1 of 9)	954.0	NM_001253736	213019.0	Mm.283968	NM_145978	ENSMUSG00000022090	Pdlim2	4732462F18Rik|Slim	PDZ and LIM domain 2	protein-coding	24.5	24.5	17.5	321.0	40.0	18.0	21.5	20.0
Merged-chr3-54360298-4	chr3	54360157	54360357	+	781.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198766)	promoter-TSS (NM_001198766)	-850.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	2.0	1.0	5.5	54.5	5.5	7.0	9.0	7.5
Merged-chr17-84204297-3	chr17	84204202	84204402	+	757.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 36 of 37)	ORR1D2|LTR|ERVL-MaLR	-16355.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	10.5	21.5	7.0	43.0	14.0	3.0	7.5	14.5
Merged-chr10-44598882-4	chr10	44598801	44599001	+	975.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140153.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	18.5	16.5	25.0	455.0	40.5	12.0	14.0	16.0
Merged-chr6-120172421-4	chr6	120172333	120172533	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	MLT1F|LTR|ERVL-MaLR	-21390.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	97.0	87.0	93.5	1141.5	50.5	26.0	17.0	17.5
Merged-chr9-21616585-1	chr9	21616485	21616685	+	1000.0	f0_c57.idr	intron (NM_001357764, intron 1 of 34)	CpG	416.0	NM_001174078	20586.0	Mm.286593	NM_011417	ENSMUSG00000032187	Smarca4	BAF190A|Brg1|HP1-BP72|SNF2beta|SW1/SNF|b2b508.1Clo|b2b692Clo	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	protein-coding	33.0	56.5	28.0	461.0	78.5	34.5	27.5	29.0
Merged-chr7-145026925-4	chr7	145026832	145027032	+	877.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87007.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	14.0	30.0	12.5	92.5	45.5	12.0	13.5	15.5
Merged-chr6-29474052-4	chr6	29473950	29474150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001145360)	TTS (NM_001145360)	2613.0	NM_001145360	668210.0	Mm.420607	NM_001145360	ENSMUSG00000090685	Gm9047	EG668210	predicted gene 9047	protein-coding	94.5	130.5	61.5	1335.5	207.5	63.0	119.0	71.5
Merged-chr10-75784051-4	chr10	75783938	75784138	+	914.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001358778, exon 5 of 5)	3' UTR (NM_001358778, exon 5 of 5)	-2616.0	NM_001346523	103140.0	Mm.5731	NM_133994	ENSMUSG00000001665	Gstt3	AI118089	glutathione S-transferase, theta 3	protein-coding	11.5	15.5	24.5	310.0	32.0	4.5	19.0	13.5
Merged-chr7-144471264-4	chr7	144471164	144471364	+	924.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007803)	promoter-TSS (NM_007803)	-329.0	NM_001252572	13043.0	Mm.205601	NM_007803	ENSMUSG00000031078	Cttn	1110020L01Rik|Ems1	cortactin	protein-coding	19.0	13.0	17.5	301.5	39.0	16.0	23.5	15.0
Merged-chr13-45391721-4	chr13	45391644	45391844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153789, intron 2 of 6)	intron (NM_153789, intron 2 of 6)	2002.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	70.0	125.0	80.0	1225.5	183.5	62.0	107.0	79.5
Merged-chr2-35196430-4	chr2	35196316	35196516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026697, intron 1 of 7)	intron (NM_026697, intron 1 of 7)	4704.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	60.0	78.0	43.0	951.5	138.0	44.5	49.0	66.5
Merged-chr18-49705603-4	chr18	49705542	49705742	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170960, intron 2 of 3)	Lx9|LINE|L1	49959.0	NM_001170960	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	13.0	7.5	5.5	224.5	32.0	7.5	10.0	12.0
Merged-chr6-149261039-4	chr6	149260908	149261108	+	836.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48406.0	NM_001289661	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	10.0	32.0	14.5	115.5	31.0	37.0	10.0	13.5
Merged-chr2-90545466-4	chr2	90545361	90545561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	35186.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	91.5	253.0	104.5	928.0	301.5	154.5	89.0	63.5
Merged-chr6-124782699-4	chr6	124782605	124782805	+	960.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21A|LTR|ERV1	-2978.0	NM_001302555	16977.0	Mm.3207	NM_013588	ENSMUSG00000030125	Lrrc23	4921537K05Rik|B7|Lrpb7	leucine rich repeat containing 23	protein-coding	9.5	29.5	19.5	155.5	48.5	11.5	15.0	10.5
Merged-chr5-117363273-4	chr5	117363155	117363355	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 1 of 8)	intron (NM_021539, intron 1 of 8)	5950.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	23.0	21.5	15.0	484.5	45.5	10.0	17.0	17.5
Merged-chr19-34284584-2	chr19	34284488	34284688	+	687.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-6071.0	NM_007987	14102.0	Mm.1626	NM_007987	ENSMUSG00000024778	Fas	AI196731|APO1|APT1|CD95|TNFR6|Tnfrsf6|lpr	Fas (TNF receptor superfamily member 6)	protein-coding	8.5	1.5	6.0	76.0	29.0	6.5	13.5	10.5
Merged-chr1-106759034-3	chr1	106758928	106759128	+	993.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027534, intron 1 of 9)	intron (NM_027534, intron 1 of 9)	714.0	NM_027534	70750.0	Mm.458911	NM_027534	ENSMUSG00000009905	Kdsr	6330410P18Rik|9430079B08Rik|Fvt1	3-ketodihydrosphingosine reductase	protein-coding	19.0	12.5	21.5	201.0	12.0	4.5	9.5	17.5
Merged-chr10-69320944-4	chr10	69320842	69321042	+	970.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31970.0	NM_007659	12534.0	Mm.281367	NM_007659	ENSMUSG00000019942	Cdk1	Cdc2|Cdc2a|p34<CDC2>	cyclin-dependent kinase 1	protein-coding	29.0	26.0	30.5	456.0	74.0	14.5	35.0	34.0
Merged-chr14-121973294-4	chr14	121973249	121973449	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-8156.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	15.0	12.0	15.5	275.5	27.5	8.5	14.5	20.5
Merged-chr15-97821561-4	chr15	97821488	97821688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	-6725.0	NM_001204281	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	65.0	49.0	40.5	566.5	65.5	26.0	19.0	23.5
Merged-chr5-113993902-4	chr5	113993821	113994021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198109)	promoter-TSS (NM_198109)	-164.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	43.0	66.5	35.5	507.0	161.0	56.5	69.5	49.0
Merged-chr2-68873280-4	chr2	68873191	68873391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	11850.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	45.0	93.5	57.5	863.5	114.0	42.0	42.5	55.0
Merged-chr12-83520414-4	chr12	83520329	83520529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030246)	promoter-TSS (NM_030246)	-37.0	NM_030246	73828.0	Mm.38238	NM_030246	ENSMUSG00000021222	Dcaf4	1110018E21Rik|Wdr21	DDB1 and CUL4 associated factor 4	protein-coding	98.0	174.0	88.5	1762.0	238.5	87.5	130.0	95.0
Merged-chr14-79394736-4	chr14	79394642	79394842	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3030.0	NM_145960	211253.0	Mm.35306	NM_145960	ENSMUSG00000022022	Mtrf1	A830062K05Rik|MtRF-1	mitochondrial translational release factor 1	protein-coding	11.0	37.0	19.5	395.0	78.0	23.5	11.5	25.5
Merged-chr4-94979669-3	chr4	94979585	94979785	+	883.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177239)	promoter-TSS (NM_177239)	-585.0	NM_177239	320713.0	Mm.208868	NM_177239	ENSMUSG00000062627	Mysm1	C130067A03Rik|C530050H10Rik	myb-like, SWIRM and MPN domains 1	protein-coding	7.5	11.5	8.0	92.5	21.0	12.0	5.0	11.0
Merged-chr4-108546247-1	chr4	108546147	108546347	+	822.0	f0_c57.idr	intron (NM_175472, intron 25 of 30)	intron (NM_175472, intron 25 of 30)	33089.0	NM_172697	230596.0	Mm.157534	NM_172697	ENSMUSG00000063800	Prpf38a	2410002M20Rik	PRP38 pre-mRNA processing factor 38 (yeast) domain containing A	protein-coding	5.5	1.0	0.0	33.5	32.5	13.5	6.0	9.0
Merged-chr4-97839681-4	chr4	97839631	97839831	+	996.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	62105.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	8.5	20.5	24.0	259.5	29.0	6.5	19.0	15.5
Merged-chr1-9876994-4	chr1	9876899	9877099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133220, intron 6 of 17)	intron (NM_133220, intron 6 of 17)	28718.0	NM_001037759	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	130.0	200.5	149.0	2800.0	297.5	115.0	126.5	104.0
Merged-chr11-120800239-4	chr11	120800134	120800334	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3839.0	NM_026824	68730.0	Mm.180622	NM_026824	ENSMUSG00000025155	Dus1l	1110032N12Rik	dihydrouridine synthase 1-like (S. cerevisiae)	protein-coding	33.5	51.5	24.0	342.0	55.5	14.5	28.0	19.0
Merged-chr10-84515636-4	chr10	84515557	84515757	+	868.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18231.0	NM_175451	216197.0	Mm.334999	NM_175451	ENSMUSG00000046841	Ckap4	5630400A09Rik|CLIMP-63|P63	cytoskeleton-associated protein 4	protein-coding	13.5	10.5	6.0	152.0	39.0	7.5	10.5	12.5
Merged-chr12-3238016-5	chr12	3237941	3238141	+	806.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015551, exon 4 of 7)	non-coding (NR_015551, exon 4 of 7)	2250.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	11.0	6.0	5.0	62.5	24.5	7.5	5.0	9.0
Merged-chr1-88562575-4	chr1	88562464	88562664	+	981.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_037971)	TTS (NR_037971)	11047.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	27.0	26.5	16.0	251.5	54.5	15.5	22.0	17.0
Merged-chr15-12197002-4	chr15	12196912	12197112	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8016.0	NM_001356498	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	14.5	28.0	17.0	203.0	46.5	4.0	10.0	5.5
Merged-chr3-105050058-4	chr3	105049934	105050134	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 1 of 5)	MTD|LTR|ERVL-MaLR	2919.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	11.5	20.5	27.0	268.0	33.0	4.0	30.0	16.0
Merged-chr16-31022458-4	chr16	31022355	31022555	+	926.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 2 of 3)	intron (NM_198626, intron 2 of 3)	58977.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	7.5	18.0	10.0	185.0	27.0	2.5	13.0	6.5
Merged-chr17-31437150-3	chr17	31437033	31437233	+	929.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008804, intron 4 of 18)	intron (NM_008804, intron 4 of 18)	50899.0	NM_001163748	18585.0	Mm.10812	NM_008804	ENSMUSG00000041119	Pde9a	PDE9A1	phosphodiesterase 9A	protein-coding	6.5	7.5	21.5	112.0	6.5	4.0	6.0	5.5
Merged-chr8-82372991-3	chr8	82372912	82373112	+	789.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	intron (NM_008357, intron 2 of 7)	29574.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	10.0	36.5	8.5	39.5	24.5	8.5	6.0	1.0
Merged-chr12-17680441-4	chr12	17680327	17680527	+	886.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10382.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	20.5	10.5	13.0	232.5	24.0	13.5	13.0	13.0
Merged-chr19-5474709-5	chr19	5474658	5474858	+	709.780945	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164352)	promoter-TSS (NM_001164352)	23.0	NM_001164352	58859.0	Mm.276367	NM_021474	ENSMUSG00000024909	Efemp2	0610011K11Rik|Fbln4|MBP1	epidermal growth factor-containing fibulin-like extracellular matrix protein 2	protein-coding	14.5	9.5	7.0	111.0	20.0	3.0	3.0	9.0
Merged-chr15-66084083-3	chr15	66083980	66084180	+	745.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	-107276.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	7.5	5.0	4.5	82.5	4.5	2.5	9.5	2.5
Merged-chr15-81860990-4	chr15	81860880	81861080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2654.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	22.0	26.5	12.0	275.5	50.5	21.5	22.5	33.5
Merged-chr12-103443720-4	chr12	103443559	103443759	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281830)	promoter-TSS (NM_001281830)	21.0	NM_029803	76933.0	Mm.271275	NM_029803	ENSMUSG00000079017	Ifi27l2a	2310061N23Rik|Ifi27|Isg12|Isg12(b1)	interferon, alpha-inducible protein 27 like 2A	protein-coding	31.5	33.5	24.5	481.5	41.0	13.0	23.0	13.5
Merged-chr9-106421961-4	chr9	106421858	106422058	+	959.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7453.0	NM_001324533	19944.0	Mm.288696	NM_009082	ENSMUSG00000048758	Rpl29	Rpl43	ribosomal protein L29	protein-coding	17.0	25.0	20.5	228.0	40.0	16.0	13.0	12.5
Merged-chr10-125350526-3	chr10	125350448	125350648	+	708.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-21585.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	8.0	5.0	5.5	108.5	7.0	6.5	8.0	8.0
Merged-chr2-52959243-4	chr2	52959139	52959339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	101371.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	46.0	76.0	77.5	1170.0	94.0	39.0	49.0	35.0
Merged-chr2-75778323-4	chr2	75778259	75778459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-53818.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	30.5	41.5	52.5	580.0	80.0	17.5	31.0	34.5
Merged-chr7-28807058-4	chr7	28806944	28807144	+	957.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3846.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	16.0	25.5	11.5	138.0	50.5	14.0	10.0	18.0
Merged-chr1-142467361-5	chr1	142467251	142467451	+	951.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-1173346.0	NM_020025	26878.0	Mm.285580	NM_020025	ENSMUSG00000033849	B3galt2	-	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 2	protein-coding	8.5	9.5	18.0	70.0	11.0	4.5	5.5	5.5
Merged-chr17-5605582-4	chr17	5605494	5605694	+	989.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	112994.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	21.5	23.5	18.0	340.0	34.5	23.0	22.0	22.0
Merged-chr6-50037700-2	chr6	50037600	50037800	+	694.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72541.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	7.0	3.0	2.0	42.0	9.5	4.5	5.0	9.5
Merged-chr1-85935719-2	chr1	85935619	85935819	+	708.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	7236.0	NR_037692	71141.0	Mm.314965	NR_037692	ENSMUSG00000026224	4933407L21Rik	-	RIKEN cDNA 4933407L21 gene	ncRNA	2.5	9.5	5.5	63.0	13.5	5.0	7.5	5.5
Merged-chr12-36317242-2	chr12	36317172	36317372	+	804.5	f0_balb.idr|f1_balb.idr	exon (NM_025312, exon 2 of 2)	exon (NM_025312, exon 2 of 2)	3103.0	NM_025312	66042.0	Mm.43375	NM_025312	ENSMUSG00000036169	Sostdc1	0610006G05Rik|Sostl|USAG-1|Wise|ectodin	sclerostin domain containing 1	protein-coding	10.0	8.5	5.0	190.0	14.5	4.0	8.0	7.0
Merged-chr2-11766702-4	chr2	11766601	11766801	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348235, intron 3 of 20)	intron (NM_001348235, intron 3 of 20)	10884.0	NM_001348234	50755.0	Mm.24088	NM_015792	ENSMUSG00000058594	Fbxo18	AU015756|Fbh1|Fbx18	F-box protein 18	protein-coding	31.0	25.5	34.0	833.0	59.5	17.5	34.0	25.0
Merged-chr3-135211065-4	chr3	135210973	135211173	+	877.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-1490.0	NM_173762	229841.0	Mm.161470	NM_173762	ENSMUSG00000045328	Cenpe	312kDa|AU019344|BC049989|C530022J18|CENP-E|Kif10	centromere protein E	protein-coding	13.5	15.0	16.5	180.5	28.5	16.5	10.0	7.5
Merged-chr18-42275282-4	chr18	42275190	42275390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033452)	promoter-TSS (NR_033452)	-63.0	NM_172626	225432.0	Mm.329400	NM_172626	ENSMUSG00000024491	Rbm27	A730010I06|AI043120|Psc1|mKIAA1311	RNA binding motif protein 27	protein-coding	261.5	320.0	169.0	3526.5	519.0	186.0	273.5	190.5
Merged-chr5-99251533-4	chr5	99251422	99251622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	1405.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	136.0	225.0	150.5	2109.5	278.5	121.5	155.5	126.0
Merged-chr19-44293974-4	chr19	44293877	44294077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009128, exon 1 of 6)	5' UTR (NM_009128, exon 1 of 6)	301.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	40.0	55.5	45.0	739.0	109.0	39.5	58.0	48.5
Merged-chr8-128357253-4	chr8	128357161	128357361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1812.0	NM_001358959	18186.0	Mm.271745	NM_008737	ENSMUSG00000025810	Nrp1	C530029I03|NP-1|NPN-1|Npn1|Nrp	neuropilin 1	protein-coding	32.5	38.0	55.0	629.0	99.5	36.5	48.5	39.0
Merged-chr6-128843238-4	chr6	128843149	128843349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16934.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	120.0	203.5	128.5	1286.5	374.0	139.5	145.0	165.0
Merged-chr5-105294120-4	chr5	105294018	105294218	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194336)	promoter-TSS (NM_194336)	-419.0	NM_194336	100702.0	Mm.491210	NM_194336	ENSMUSG00000104713	Gbp6	AI595338|Mpa2l	guanylate binding protein 6	protein-coding	17.0	30.0	11.5	84.5	63.5	20.0	15.5	14.5
Merged-chr4-147404698-3	chr4	147404609	147404809	+	844.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039209, intron 1 of 2)	RLTR11B|LTR|ERVK	-148568.0	NM_001014397	433804.0	Mm.332047	NM_001014397	ENSMUSG00000065999	Zfp985	Gm13154	zinc finger protein 985	protein-coding	7.0	6.0	14.0	74.0	9.5	2.0	0.5	11.0
Merged-chr3-8983944-4	chr3	8983839	8984039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-19793.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	254.0	306.5	330.0	3450.0	544.5	181.0	284.5	230.0
Merged-chr17-84203340-3	chr17	84203274	84203474	+	783.31665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 36 of 37)	intron (NM_183021, intron 36 of 37)	-15427.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	4.5	19.0	11.0	100.5	9.5	4.5	2.0	0.0
Merged-chr16-24936051-4	chr16	24935938	24936138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-123601.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	41.0	55.0	28.5	797.0	80.5	22.5	42.0	46.5
Merged-chr8-24547457-4	chr8	24547353	24547553	+	987.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145949, intron 5 of 9)	Lx5c|LINE|L1	28880.0	NM_145949	209176.0	Mm.219580	NM_145949	ENSMUSG00000031549	Ido2	AI265623|C230043N17Rik|Ido-2|Indol1	indoleamine 2,3-dioxygenase 2	protein-coding	14.5	32.5	17.5	366.5	42.0	14.0	22.0	15.5
Merged-chr14-78549004-3	chr14	78548908	78549108	+	966.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12148.0	NM_001164503	219181.0	Mm.89413	NM_001164503	ENSMUSG00000022016	Akap11	6330501D17Rik|AKAP220|Gm80|PRKA11|mKIAA0629	A kinase (PRKA) anchor protein 11	protein-coding	12.5	9.0	15.0	192.5	8.0	6.0	3.5	8.0
Merged-chr2-13432199-4	chr2	13432099	13432299	+	753.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 22 of 66)	intron (NM_001081084, intron 22 of 66)	59677.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	19.0	16.5	14.0	236.5	19.5	7.5	9.5	13.0
Merged-chr11-101759731-3	chr11	101759609	101759809	+	950.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144831, intron 18 of 22)	intron (NM_144831, intron 18 of 22)	25601.0	NM_008815	18612.0	Mm.5025	NM_008815	ENSMUSG00000017724	Etv4	AW414408|Pea-3|Pea3	ets variant 4	protein-coding	9.5	17.0	15.5	207.0	11.0	6.0	9.0	8.0
Merged-chr12-105001114-1	chr12	105001014	105001214	+	636.666687	f0_balb.idr	intron (NM_172500, intron 1 of 16)	intron (NM_172500, intron 1 of 16)	-2437.0	NM_001042699	212073.0	Mm.212688	NM_172500	ENSMUSG00000054150	Syne3	KASH3|nesprin-3	spectrin repeat containing, nuclear envelope family member 3	protein-coding	9.5	9.5	9.0	106.0	6.5	1.0	2.0	1.0
Merged-chr6-86490118-4	chr6	86490013	86490213	+	934.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1886.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	22.5	34.5	9.5	209.0	50.0	18.0	15.5	13.5
Merged-chr1-187586780-1	chr1	187586680	187586880	+	660.0	f0_c57.idr	Intergenic	Intergenic	-22226.0	NM_001243792	26381.0	Mm.89989	NM_011935	ENSMUSG00000026610	Esrrg	ERR3|Errg|NR3B3|mKIAA0832	estrogen-related receptor gamma	protein-coding	0.0	1.0	0.0	7.5	8.0	10.0	14.5	6.5
Merged-chr4-95303517-4	chr4	95303410	95303610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-251288.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	46.0	35.0	29.5	599.0	138.5	33.0	49.0	39.0
Merged-chr6-92988740-3	chr6	92988643	92988843	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	48161.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	57.5	57.5	104.0	1016.0	5.5	3.0	2.5	2.5
Merged-chr19-32389210-4	chr19	32389120	32389320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033198)	promoter-TSS (NR_033198)	4.0	NR_033198	67188.0	Mm.391160	NR_033198	ENSMUSG00000097787	2700046G09Rik	-	RIKEN cDNA 2700046G09 gene	ncRNA	60.0	79.5	63.0	787.5	148.0	55.0	63.5	69.5
Merged-chr12-69448070-4	chr12	69447975	69448175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27475.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	80.0	155.0	138.5	2369.0	240.5	108.5	93.5	76.0
Merged-chr2-153259789-2	chr2	153259689	153259889	+	828.333313	f1_balb.idr|f1_c57bl6.idr	exon (NM_080463, exon 5 of 7)	exon (NM_080463, exon 5 of 7)	18257.0	NM_080463	140484.0	Mm.293761	NM_080463	ENSMUSG00000046020	Pofut1	O-FucT-1|mKIAA0180	protein O-fucosyltransferase 1	protein-coding	5.0	4.5	6.0	20.5	14.5	4.0	3.5	2.5
Merged-chr14-30620947-2	chr14	30620847	30621047	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	5261.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	4.5	6.5	5.5	51.5	12.0	7.5	4.5	5.5
Merged-chr10-110745420-4	chr10	110745309	110745509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178609)	promoter-TSS (NM_178609)	-30.0	NM_001358560	52679.0	Mm.11747	NM_178609	ENSMUSG00000020185	E2f7	A630014C11Rik|D10Ertd739e|E2F-7	E2F transcription factor 7	protein-coding	69.5	76.5	80.0	1516.0	205.0	94.0	104.0	116.0
Merged-chr3-16086739-4	chr3	16086635	16086835	+	906.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80403.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	5.5	11.0	10.0	184.0	47.5	10.0	19.5	10.5
Merged-chr13-113485704-4	chr13	113485626	113485826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 2 of 6)	intron (NR_045501, intron 2 of 6)	17118.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	209.5	339.5	267.0	3298.0	468.5	165.0	244.0	164.0
Merged-chr7-140947172-4	chr7	140947062	140947262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153832, exon 12 of 12)	non-coding (NR_153832, exon 12 of 12)	3077.0	NM_053088	73835.0	Mm.389989	NM_053088	ENSMUSG00000025489	Ifitm5	1110003J06Rik|AW213665|Bril|DSPA1|Hrmp1|Hrtm1	interferon induced transmembrane protein 5	protein-coding	114.0	172.0	87.5	1352.5	263.5	102.0	112.0	77.5
Merged-chr4-48047268-4	chr4	48047173	48047373	+	949.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015743, intron 1 of 7)	CpG	1968.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	28.5	26.5	14.0	269.5	83.5	16.5	19.0	15.5
Merged-chr6-89282783-4	chr6	89282686	89282886	+	766.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131021, intron 1 of 3)	L1M4|LINE|L1	2939.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	11.5	22.0	16.0	166.5	24.0	5.5	12.0	16.5
Merged-chr16-37539792-4	chr16	37539691	37539891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028812)	promoter-TSS (NM_028812)	-2.0	NM_001355727	74197.0	Mm.287795	NM_028812	ENSMUSG00000022828	Gtf2e1	2610024P03Rik|56kDa|AI303800|FE|TFIIE-A	general transcription factor II E, polypeptide 1 (alpha subunit)	protein-coding	221.0	335.0	199.0	3691.0	612.0	192.0	234.5	201.5
Merged-chr7-122196868-3	chr7	122196746	122196946	+	760.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-10615.0	NM_001316689	26918.0	Mm.20452	NM_012016	ENSMUSG00000030866	Ern2	Ern1|Ire1|Ire1b|ire1-beta|mIre1	endoplasmic reticulum (ER) to nucleus signalling 2	protein-coding	9.5	11.0	8.5	73.0	13.0	2.0	11.5	4.5
Merged-chr8-41376184-4	chr8	41376104	41376304	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1507.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	27.5	25.0	16.5	292.5	92.5	13.0	32.5	32.5
Merged-chr9-31130480-2	chr9	31130380	31130580	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011176, intron 1 of 18)	intron (NM_011176, intron 1 of 18)	1319.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	4.0	5.0	8.0	108.5	15.0	6.5	8.5	11.5
Merged-chr8-41299597-3	chr8	41299494	41299694	+	801.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 22 of 37)	intron (NM_023662, intron 22 of 37)	59835.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	2.5	8.0	6.5	76.5	31.0	6.5	6.5	4.5
Merged-chr3-121545661-4	chr3	121545572	121545772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13328.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	27.5	39.0	22.0	618.5	75.0	22.5	35.5	31.0
Merged-chr19-4741795-3	chr19	4741663	4741863	+	815.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021287, intron 19 of 36)	LTR16C|LTR|ERVL	-14762.0	NM_025717	66704.0	Mm.396734	NM_025717	ENSMUSG00000033760	Rbm4b	4921506I22Rik|AI504630|AI506404|Lark2|Neosin	RNA binding motif protein 4B	protein-coding	5.5	9.0	9.0	102.5	15.5	4.0	4.5	8.5
Merged-chr7-113378507-4	chr7	113378398	113378598	+	936.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9159.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	21.0	37.5	21.0	441.5	43.5	16.5	27.5	15.0
Merged-chr12-108629748-4	chr12	108629654	108629854	+	985.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163395, intron 1 of 12)	RLTR14|LTR|ERV1	-5999.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	31.5	69.5	32.5	383.0	77.5	40.5	43.5	16.5
Merged-chr11-102893170-2	chr11	102893070	102893270	+	627.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_010277, exon 6 of 9)	exon (NM_010277, exon 6 of 9)	4030.0	NM_001131020	14580.0	Mm.1239	NM_010277	ENSMUSG00000020932	Gfap	AI836096	glial fibrillary acidic protein	protein-coding	1.5	6.5	0.5	69.5	15.0	7.0	5.0	9.0
Merged-chr17-29114095-3	chr17	29113979	29114179	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20310.0	NM_007669	12575.0	Mm.195663	NM_007669	ENSMUSG00000023067	Cdkn1a	CAP20|CDKI|CIP1|Cdkn1|P21|SDI1|Waf1|mda6|p21Cip1|p21WAF	cyclin-dependent kinase inhibitor 1A (P21)	protein-coding	43.0	82.0	27.0	441.0	9.0	5.5	3.5	2.0
Merged-chr6-87552585-4	chr6	87552496	87552696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19337.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	98.0	194.5	108.0	1041.0	349.5	84.5	108.5	90.5
Merged-chr19-5771297-6	chr19	5771149	5771349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361921, exon 1 of 17)	exon (NM_001361921, exon 1 of 17)	170.0	NM_023912	78891.0	Mm.276063	NM_023912	ENSMUSG00000024941	Scyl1	2810011O19Rik|C85140|Ntkl|mdf|mfd|p105	SCY1-like 1 (S. cerevisiae)	protein-coding	33.0	43.0	31.5	262.0	58.0	33.0	23.0	35.0
Merged-chr11-87086805-4	chr11	87086692	87086892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024262)	promoter-TSS (NM_024262)	-15.0	NM_024262	74133.0	Mm.23257	NM_024262	ENSMUSG00000020495	Smg8	1200011M11Rik	smg-8 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	78.0	88.5	47.0	857.0	146.5	37.0	55.5	51.0
Merged-chr11-9048541-4	chr11	9048422	9048622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037928)	promoter-TSS (NM_001037928)	-70.0	NM_001037928	626870.0	Mm.369429	NM_001037928	ENSMUSG00000040978	Gm11992	-	predicted gene 11992	protein-coding	34.0	27.5	31.5	356.5	71.5	21.5	46.0	42.0
Merged-chr7-97781013-4	chr7	97780887	97781087	+	931.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-7554.0	NM_001357365	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	20.5	23.5	5.0	144.0	55.5	22.0	29.0	12.0
Merged-chr8-35208572-4	chr8	35208505	35208705	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167136.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	14.0	9.5	14.5	425.0	85.0	34.5	69.5	46.5
Merged-chr2-14244839-4	chr2	14244732	14244932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 3 of 29)	intron (NM_008625, intron 3 of 29)	15418.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	44.0	32.0	54.5	552.5	56.5	19.0	19.5	24.0
Merged-chr12-34663926-2	chr12	34663832	34664032	+	833.583374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	-135043.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	2.5	0.0	0.0	2.5	34.5	18.0	17.0	17.5
Merged-chr4-11192330-4	chr4	11192231	11192431	+	821.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282943, intron 1 of 11)	intron (NM_001282943, intron 1 of 11)	622.0	NM_001282943	12448.0	Mm.35867	NM_009830	ENSMUSG00000028212	Ccne2	-	cyclin E2	protein-coding	6.0	10.5	7.5	99.0	27.5	6.0	18.0	15.5
Merged-chr2-153163706-4	chr2	153163617	153163817	+	979.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	intron (NM_133847, intron 1 of 17)	2416.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	27.0	41.0	11.5	227.0	48.5	24.5	14.0	6.5
Merged-chr3-106782173-4	chr3	106782085	106782285	+	783.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007651, intron 1 of 7)	Lx6|LINE|L1	7964.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	11.5	7.5	6.5	141.0	32.0	7.5	8.5	10.0
Merged-chr14-17660910-4	chr14	17660813	17661013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113417)	promoter-TSS (NM_001113417)	-47.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	116.5	145.0	157.5	2687.0	236.5	90.0	152.5	119.5
Merged-chr11-97799607-4	chr11	97799500	97799700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010688)	promoter-TSS (NM_010688)	35.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	54.0	82.5	72.5	927.5	102.0	32.5	50.5	59.0
Merged-chr13-52636360-4	chr13	52636267	52636467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 9 of 13)	intron (NM_011518, intron 9 of 13)	39485.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	188.0	178.0	109.0	1587.5	334.0	158.0	142.5	114.5
Merged-chr6-126836880-4	chr6	126836826	126837026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025358, intron 5 of 10)	RMER6BA|LTR|ERVK	12218.0	NM_025358	66108.0	Mm.29939	NM_025358	ENSMUSG00000000399	Ndufa9	1010001N11Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9	protein-coding	43.5	36.0	27.5	514.5	45.0	16.0	36.5	25.0
Merged-chr12-108792866-4	chr12	108792769	108792969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009537)	promoter-TSS (NM_009537)	-442.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	211.0	340.0	204.0	2661.5	584.0	188.5	279.0	204.5
Merged-chr2-118746254-5	chr2	118746194	118746394	+	748.659973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001301269, exon 1 of 1)	exon (NM_001301269, exon 1 of 1)	536.0	NM_001301269	100043272.0	Mm.398072	NM_001301269	ENSMUSG00000074918	Inafm2	5430417L22Rik	InaF motif containing 2	protein-coding	3.5	2.0	2.0	73.5	9.5	8.0	6.0	11.0
Merged-chr14-14801011-4	chr14	14800907	14801107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19808.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	54.0	58.0	35.0	997.0	106.5	19.5	40.5	37.5
Merged-chr11-95870117-4	chr11	95869977	95870177	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008081, intron 7 of 10)	B4A|SINE|B4	11260.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	3.0	26.0	11.0	104.0	27.5	11.0	12.0	14.0
Merged-chr14-51884873-5	chr14	51884842	51885042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029990)	promoter-TSS (NM_001029990)	100.0	NM_001029990	52535.0	Mm.5750	NM_001029990	ENSMUSG00000004561	Mettl17	2310032K15Rik|D14Ertd209e|Mett11d1	methyltransferase like 17	protein-coding	131.0	195.5	98.5	2065.0	264.0	85.0	115.0	94.0
Merged-chr3-133755129-3	chr3	133755019	133755219	+	964.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-210729.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	6.5	11.0	6.0	174.5	30.0	3.0	8.0	8.5
Merged-chr3-152346840-2	chr3	152346740	152346940	+	943.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355666, intron 1 of 21)	CpG	362.0	NM_001076676	170822.0	Mm.258320	NM_133247	ENSMUSG00000025437	Usp33	9830169D19Rik|AA409780|Vdu1	ubiquitin specific peptidase 33	protein-coding	12.5	13.0	16.5	190.5	27.5	16.0	8.0	15.0
Merged-chr9-35060091-4	chr9	35060019	35060219	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	MTEa|LTR|ERVL-MaLR	-56609.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	21.0	29.0	7.5	268.0	62.0	13.0	17.5	11.0
Merged-chr2-75846446-4	chr2	75846347	75846547	+	657.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172666, intron 1 of 19)	B1_Mus1|SINE|Alu	14270.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	7.0	14.0	7.0	46.5	26.0	7.5	10.0	2.5
Merged-chr4-128720244-4	chr4	128720167	128720367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 7 of 14)	intron (NM_018774, intron 7 of 14)	-7304.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	85.5	145.5	120.0	1514.0	172.5	84.5	97.5	92.0
Merged-chr17-70991994-3	chr17	70991835	70992035	+	876.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-1419.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	7.5	12.0	14.0	61.0	12.0	2.0	2.5	4.5
Merged-chr7-83568297-4	chr7	83568211	83568411	+	854.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16620.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	1.5	13.0	5.5	136.0	27.5	10.0	12.5	21.5
Merged-chr11-120353841-4	chr11	120353731	120353931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5153.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	157.0	193.5	115.5	1762.0	324.0	162.0	205.5	114.5
Merged-chr2-125322791-2	chr2	125322691	125322891	+	795.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007993, intron 50 of 65)	intron (NM_007993, intron 50 of 65)	75276.0	NM_023595	110074.0	Mm.282499	NM_023595	ENSMUSG00000027203	Dut	5031412I06Rik|5133400F09Rik|D2Bwg0749e|Dutp|dUTPase	deoxyuridine triphosphatase	protein-coding	5.0	7.0	5.0	72.0	16.5	3.0	7.0	7.5
Merged-chr14-122983358-4	chr14	122983250	122983450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360598)	promoter-TSS (NM_001360598)	-67.0	NR_153663	70551.0	Mm.271988	NM_028651	ENSMUSG00000041594	Tmtc4	4930403J22Rik|5730419O14Rik	transmembrane and tetratricopeptide repeat containing 4	protein-coding	176.5	228.5	166.0	3303.0	375.5	144.0	210.5	153.5
Merged-chr1-133118357-3	chr1	133118259	133118459	+	667.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-12807.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	8.0	10.0	10.5	41.5	28.5	11.0	30.0	15.5
Merged-chr16-97472685-4	chr16	97472588	97472788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020622, intron 7 of 7)	L1MB7|LINE|L1	-9782.0	NR_003520	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	48.0	107.5	90.0	1132.0	150.5	65.5	71.5	43.0
Merged-chr14-103978985-4	chr14	103978853	103979053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045953, exon 3 of 3)	non-coding (NR_045953, exon 3 of 3)	48189.0	NR_045953	73877.0	Mm.399172	NR_045953	ENSMUSG00000115727	4930432J09Rik	-	RIKEN cDNA 4930432J09 gene	ncRNA	34.0	42.5	49.0	817.0	83.0	21.5	47.0	49.5
Merged-chr11-62103642-4	chr11	62103548	62103748	+	911.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029936, intron 1 of 12)	MLT1G3|LTR|ERVL-MaLR	26624.0	NM_001029936	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	22.5	24.0	22.0	366.5	27.5	6.0	16.0	26.5
Merged-chr7-139068296-2	chr7	139068196	139068396	+	558.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028708, intron 19 of 19)	intron (NM_028708, intron 19 of 19)	-17705.0	NM_011993	26757.0	Mm.250414	NM_011993	ENSMUSG00000025478	Dpysl4	AI173505|CRMP-3|Crmp3|DPY4|Drp-4|Ulip4	dihydropyrimidinase-like 4	protein-coding	6.5	7.5	1.5	39.5	9.5	7.5	5.5	5.5
Merged-chr6-72141396-4	chr6	72141294	72141494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 3 of 6)	intron (NM_001035228, intron 3 of 6)	-18197.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	56.0	73.5	120.5	2168.5	126.0	41.5	88.5	104.5
Merged-chr8-106528210-4	chr8	106528101	106528301	+	833.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007665, intron 2 of 15)	B4|SINE|B4	17349.0	NM_001037809	12560.0	Mm.4658	NM_007665	ENSMUSG00000061048	Cdh3	AI385538|Cadp|Cdhp|P-cadherin|Pcad	cadherin 3	protein-coding	3.5	23.0	4.5	105.0	20.5	8.0	12.0	11.5
Merged-chr1-151584873-7	chr1	151584768	151584968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	MTD|LTR|ERVL-MaLR	13495.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	18.0	24.0	26.0	331.5	36.0	12.5	21.0	20.5
Merged-chr3-95142000-3	chr3	95141896	95142096	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027206, intron 1 of 1)	intron (NM_027206, intron 1 of 1)	364.0	NM_027206	69769.0	Mm.34368	NM_027206	ENSMUSG00000013707	Tnfaip8l2	1810019A08Rik|AW610835|TIPE2	tumor necrosis factor, alpha-induced protein 8-like 2	protein-coding	11.0	9.0	4.0	112.5	17.0	5.5	14.0	9.0
Merged-chr19-29253030-4	chr19	29252950	29253150	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008413, intron 2 of 24)	intron (NM_008413, intron 2 of 24)	1247.0	NM_008413	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	27.0	51.0	19.0	298.5	102.0	49.5	21.0	14.5
Merged-chr3-103967993-4	chr3	103967885	103968085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163467)	promoter-TSS (NM_001163467)	-125.0	NM_001163467	18685.0	Mm.385178	NM_013629	ENSMUSG00000058388	Phtf1	AU041898|AW049785|Phft|Phtf	putative homeodomain transcription factor 1	protein-coding	23.5	61.0	32.5	400.5	82.5	11.5	36.0	20.0
Merged-chr2-103785952-4	chr2	103785856	103786056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111292, intron 1 of 16)	intron (NM_001111292, intron 1 of 16)	11122.0	NM_001111290	53872.0	Mm.427589	NM_016739	ENSMUSG00000027184	Caprin1	AL022980|Caprin-1|Gpiap|Gpiap1|Mmgpip137|P137|rng105	cell cycle associated protein 1	protein-coding	22.0	40.0	27.5	396.0	65.0	33.5	30.5	39.0
Merged-chr13-95849945-3	chr13	95849847	95850047	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	41975.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	1.5	5.0	0.0	0.5	70.0	31.0	39.0	36.5
Merged-chr2-93475203-4	chr2	93475110	93475310	+	975.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12260.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	25.0	30.0	7.5	355.5	98.0	25.0	24.0	26.0
Merged-chr5-141094421-4	chr5	141094311	141094511	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93815.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	9.0	6.5	3.5	103.5	26.5	9.5	13.5	6.0
Merged-chr3-94443301-4	chr3	94443163	94443363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030116)	promoter-TSS (NM_030116)	-73.0	NM_030116	78523.0	Mm.218515	NM_030116	ENSMUSG00000028140	Mrpl9	8030480E20Rik|AA409733|C330013D18Rik|L9mt	mitochondrial ribosomal protein L9	protein-coding	71.5	77.5	35.0	942.0	129.0	51.5	86.0	48.0
Merged-chr2-125866256-4	chr2	125866167	125866367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291002)	promoter-TSS (NM_001291002)	44.0	NM_001291002	69976.0	Mm.20216	NM_175154	ENSMUSG00000027207	Galk2	2810017M24Rik|AI327030|Gk2	galactokinase 2	protein-coding	66.5	70.0	26.5	726.0	112.0	22.0	26.0	44.5
Merged-chr18-36749256-4	chr18	36749156	36749356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011879, exon 7 of 20)	exon (NM_011879, exon 7 of 20)	4600.0	NM_011879	24010.0	Mm.30234	NM_011879	ENSMUSG00000024474	Ik	MuRED	IK cytokine	protein-coding	131.5	177.0	99.0	1806.0	301.5	113.0	123.0	120.5
Merged-chr18-62046513-4	chr18	62046408	62046608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	93433.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	40.5	58.0	46.5	603.5	92.5	34.5	58.5	50.0
Merged-chr10-78160155-4	chr10	78160055	78160255	+	974.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9613.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	12.0	24.5	9.0	193.5	65.0	13.0	27.5	28.0
Merged-chr3-104675500-3	chr3	104675383	104675583	+	940.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36819.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	7.5	23.0	9.5	136.0	10.5	8.5	7.0	1.5
Merged-chr8-83594596-4	chr8	83594479	83594679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027179)	promoter-TSS (NM_027179)	-88.0	NM_134118	106529.0	Mm.352239	NM_027179	ENSMUSG00000031708	Tecr	2410016D23Rik|A230102P12Rik|AI173355|D17Ertd178e|Gpsn2|SC2	trans-2,3-enoyl-CoA reductase	protein-coding	203.0	332.0	226.0	2643.5	607.0	257.0	285.0	254.0
Merged-chr6-85141225-3	chr6	85141126	85141326	+	761.422241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3462.0	NM_011467	20751.0	Mm.28393	NM_011467	ENSMUSG00000033735	Spr	AA409688|Gm10328	sepiapterin reductase	protein-coding	11.5	20.5	8.0	144.5	14.0	7.5	8.5	16.5
Merged-chr1-43474725-4	chr1	43474622	43474822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	28971.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	94.5	95.0	80.5	1048.5	224.5	89.5	86.0	54.0
Merged-chr1-171849678-4	chr1	171849567	171849767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	intron (NM_001289470, intron 2 of 8)	9970.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	150.0	174.0	186.0	2585.0	427.0	196.0	264.0	195.0
Merged-chr14-75017517-4	chr14	75017386	75017586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 1 of 13)	intron (NM_198642, intron 1 of 13)	1459.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	37.0	63.0	35.5	952.5	83.5	29.5	52.5	31.0
Merged-chr3-95994010-4	chr3	95993909	95994109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023320, intron 2 of 5)	intron (NM_023320, intron 2 of 5)	1830.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	39.5	57.5	39.0	620.5	95.0	47.0	32.0	34.0
Merged-chr2-32151452-3	chr2	32151350	32151550	+	955.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172661, intron 1 of 29)	CpG	302.0	NM_001159634	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	2.5	15.0	4.5	162.5	18.0	6.0	7.0	5.5
Merged-chr1-135147539-4	chr1	135147430	135147630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026823, intron 1 of 6)	CpG	696.0	NM_026823	68724.0	Mm.174998	NM_026823	ENSMUSG00000026426	Arl8a	1110033P22Rik|Arl10b|gie2	ADP-ribosylation factor-like 8A	protein-coding	137.0	249.0	139.5	2436.5	381.0	120.5	166.0	146.5
Merged-chr11-20741838-7	chr11	20741693	20741893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290545)	promoter-TSS (NM_001290545)	-237.0	NM_181411	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	59.5	142.0	77.0	662.0	244.0	96.5	91.0	89.5
Merged-chr10-77974920-4	chr10	77974823	77975023	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3727.0	NM_026431	67884.0	Mm.297512	NM_026431	ENSMUSG00000020284	1810043G02Rik	AV026620|D10Jhu13e	RIKEN cDNA 1810043G02 gene	protein-coding	30.0	39.5	21.0	234.5	75.0	29.5	23.5	18.5
Merged-chr12-82276032-4	chr12	82275931	82276131	+	933.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 3 of 23)	intron (NM_001167983, intron 3 of 23)	-35318.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	8.5	28.0	17.5	257.0	29.0	14.0	22.5	17.0
Merged-chr5-129020085-4	chr5	129019980	129020180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009391)	promoter-TSS (NM_009391)	-76.0	NM_009391	19384.0	Mm.297440	NM_009391	ENSMUSG00000029430	Ran	-	RAN, member RAS oncogene family	protein-coding	125.0	162.0	137.5	1597.0	343.0	121.5	193.5	94.0
Merged-chr11-101665524-4	chr11	101665420	101665620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025404)	promoter-TSS (NM_025404)	-21.0	NM_025404	80981.0	Mm.266840	NM_025404	ENSMUSG00000034936	Arl4d	1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5	ADP-ribosylation factor-like 4D	protein-coding	52.0	93.0	38.5	784.0	156.5	60.5	55.5	83.0
Merged-chr2-29125562-1	chr2	29125462	29125662	+	1000.0	f0_balb.idr	intron (NM_198033, intron 1 of 25)	CpG	570.0	NM_198033	269254.0	Mm.41867	NM_198033	ENSMUSG00000043535	Setx	A130090N03|A930037J23Rik|AOA2|AW060766|Als4|SCAR1|Sen1|mKIAA0625	senataxin	protein-coding	19.5	35.5	26.5	235.0	45.0	13.0	20.0	24.5
Merged-chr9-73085926-4	chr9	73085789	73085989	+	907.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301230, intron 5 of 6)	intron (NM_001301230, intron 5 of 6)	-16509.0	NM_025890	66991.0	Mm.471745	NM_025890	ENSMUSG00000092622	Khdc3	2410004A20Rik|AI467128|FILIA|OEEP48	KH domain containing 3, subcortical maternal complex member	protein-coding	9.5	8.5	8.5	119.0	15.0	9.5	5.0	9.5
Merged-chr16-11352140-3	chr16	11352018	11352218	+	861.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 3 of 20)	intron (NM_028964, intron 3 of 20)	29214.0	NM_028964	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	10.5	5.0	11.5	211.0	9.0	5.0	4.0	4.0
Merged-chr11-54072797-4	chr11	54072711	54072911	+	806.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3794.0	NM_019417	30794.0	Mm.21830	NM_019417	ENSMUSG00000020388	Pdlim4	Ril	PDZ and LIM domain 4	protein-coding	9.0	16.0	0.5	67.0	19.0	12.0	8.5	12.0
Merged-chr8-119911062-4	chr8	119910894	119911094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009462, intron 1 of 13)	CpG	634.0	NM_001310630	22224.0	Mm.256910	NM_009462	ENSMUSG00000031826	Usp10	2610014N07Rik|UBPO|Uchrp|mKIAA0190	ubiquitin specific peptidase 10	protein-coding	50.0	97.5	99.5	627.0	146.5	51.5	67.5	78.5
Merged-chr14-36867151-4	chr14	36867056	36867256	+	894.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52379.0	NM_001347503	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	15.5	28.0	15.0	295.5	31.0	21.5	15.5	12.0
Merged-chr3-69316738-4	chr3	69316619	69316819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178726)	promoter-TSS (NM_178726)	-199.0	NM_178726	242083.0	Mm.40577	NM_178726	ENSMUSG00000027784	Ppm1l	3222401G13|5930404J21Rik|AI481720|AW045850|PP2C|PP2Cepsilon|Pp2ce|Ppp2ce|mKIAA4175	protein phosphatase 1 (formerly 2C)-like	protein-coding	111.5	186.5	155.5	1516.5	396.5	158.5	208.5	150.5
Merged-chr4-32373356-4	chr4	32373219	32373419	+	990.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44116.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	21.5	13.5	24.0	409.5	99.0	23.0	47.5	50.0
Merged-chr17-50237532-4	chr17	50237433	50237633	+	830.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1675.0	NR_131975	446210.0	Mm.378184	NM_001004437	ENSMUSG00000067103	AY702103	STDP2	cDNA sequence AY702103	ncRNA	9.0	15.0	8.5	171.0	46.5	4.0	14.0	9.0
Merged-chr17-72890282-4	chr17	72890183	72890383	+	901.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28022.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	8.0	14.0	7.5	59.0	38.5	6.5	16.0	5.5
Merged-chr2-153557041-2	chr2	153556941	153557141	+	793.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27070.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	3.5	4.5	6.0	11.0	11.0	7.0	9.0	8.5
Merged-chr9-64179320-4	chr9	64179213	64179413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183316)	promoter-TSS (NM_183316)	16.0	NM_183316	330959.0	Mm.24082	NM_183316	ENSMUSG00000032398	Snapc5	2010103A03Rik	small nuclear RNA activating complex, polypeptide 5	protein-coding	59.0	104.0	42.0	672.5	190.5	66.5	51.5	63.5
Merged-chr3-79221885-2	chr3	79221807	79222007	+	634.5	f0_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	8988.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	5.0	9.5	5.5	67.0	20.5	6.0	6.5	6.5
Merged-chr14-51132596-1	chr14	51132496	51132696	+	709.799988	f0_c57.idr	TTS (NM_001360117)	TTS (NM_001360117)	3532.0	NR_153407	78416.0	Mm.103835	NM_030098	ENSMUSG00000021880	Rnase6	9530043P15Rik|BB119466	ribonuclease, RNase A family, 6	protein-coding	1.0	6.0	3.0	8.5	26.5	9.0	12.5	15.0
Merged-chr2-75703965-4	chr2	75703916	75704116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132727, intron 1 of 1)	CpG	647.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	136.5	266.5	147.0	1490.5	540.0	229.5	184.5	164.0
Merged-chr9-108049183-4	chr9	108049084	108049284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357682)	promoter-TSS (NM_001357682)	-80.0	NM_177910	331026.0	Mm.22554	NM_177910	ENSMUSG00000070284	Gmppb	AI317178|E430010H19	GDP-mannose pyrophosphorylase B	protein-coding	247.0	386.0	199.5	3634.0	600.5	197.5	265.5	232.5
Merged-chr9-54501241-2	chr9	54501141	54501341	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172771, intron 1 of 43)	CpG	385.0	NM_172771	235380.0	Mm.93636	NM_172771	ENSMUSG00000041268	Dmxl2	6330586A12|6430411K14Rik|E130119P06Rik|mKIAA0856	Dmx-like 2	protein-coding	12.5	17.5	9.5	174.0	52.0	5.5	13.5	14.5
Merged-chr3-109747792-4	chr3	109747694	109747894	+	833.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	173787.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	2.0	14.0	7.5	81.5	29.5	4.5	9.5	9.5
Merged-chr11-119503874-3	chr11	119503763	119503963	+	849.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164636, intron 7 of 8)	intron (NM_001164636, intron 7 of 8)	12243.0	NM_177394	338371.0	Mm.271946	NM_177394	ENSMUSG00000039850	Endov	A730011L01Rik	endonuclease V	protein-coding	5.5	6.5	3.0	45.0	23.5	9.0	6.0	10.5
Merged-chr2-6256984-4	chr2	6256881	6257081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	intron (NR_040333, intron 3 of 6)	-43987.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	8.0	27.5	13.0	492.5	95.5	19.5	30.5	22.5
Merged-chr18-80408783-4	chr18	80408688	80408888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 12 of 12)	intron (NM_026295, intron 12 of 12)	-44534.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	97.0	129.5	108.5	1804.5	101.5	26.5	50.0	53.0
Merged-chr4-102801697-4	chr4	102801586	102801786	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144906, intron 1 of 23)	L1MB8|LINE|L1	41551.0	NM_001285859	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	26.0	15.5	13.0	240.0	43.0	13.0	26.0	14.0
Merged-chr19-41442623-6	chr19	41442528	41442728	+	998.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57558.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	21.5	26.5	17.5	411.5	48.0	19.0	16.0	15.5
Merged-chr2-132253311-4	chr2	132253187	132253387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011045)	promoter-TSS (NM_011045)	-107.0	NM_011045	18538.0	Mm.7141	NM_011045	ENSMUSG00000027342	Pcna	-	proliferating cell nuclear antigen	protein-coding	258.0	443.5	205.0	3315.0	597.5	262.0	291.0	237.5
Merged-chr2-58159302-4	chr2	58159210	58159410	+	891.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139200, intron 1 of 7)	intron (NM_139200, intron 1 of 7)	812.0	NM_139200	227929.0	Mm.273905	NM_139200	ENSMUSG00000026832	Cytip	A130053M09Rik|AI462064|C80816|Cbp|Cybr|Pscdbp	cytohesin 1 interacting protein	protein-coding	9.0	9.5	11.0	186.5	20.5	10.0	14.5	13.5
Merged-chr6-32158463-3	chr6	32158366	32158566	+	715.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 29 of 31)	intron (NM_175750, intron 29 of 31)	108178.0	NM_029587	76382.0	Mm.23510	NM_029587	ENSMUSG00000029766	1700012A03Rik	AI429084	RIKEN cDNA 1700012A03 gene	protein-coding	5.0	4.5	7.0	145.0	11.5	3.0	3.5	10.0
Merged-chr7-90133471-4	chr7	90133376	90133576	+	921.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	3263.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	7.0	10.0	16.5	212.5	29.5	19.0	13.0	15.0
Merged-chr13-93498995-4	chr13	93498871	93499071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021310, exon 1 of 11)	exon (NM_021310, exon 1 of 11)	837.0	NM_021310	57748.0	Mm.100273	NM_021310	ENSMUSG00000021690	Jmy	-	junction-mediating and regulatory protein	protein-coding	17.0	26.0	29.0	230.5	58.5	20.0	29.0	29.0
Merged-chr2-35506833-4	chr2	35506730	35506930	+	964.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45381.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	21.0	15.0	20.5	600.5	41.5	12.5	21.0	20.5
Merged-chr2-117303581-4	chr2	117303445	117303645	+	841.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 3 of 16)	intron (NM_011246, intron 3 of 16)	39332.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	10.0	6.5	4.5	88.5	38.5	7.5	12.5	6.0
Merged-chr12-91763984-3	chr12	91763889	91764089	+	969.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	B1_Mur3|SINE|Alu	22447.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	14.0	13.0	26.0	291.0	14.5	5.0	11.5	9.0
Merged-chr1-131979846-4	chr1	131979744	131979944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177628, intron 4 of 4)	intron (NM_001177628, intron 4 of 4)	9235.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	25.5	24.5	18.5	452.0	49.5	5.0	16.5	19.5
Merged-chr6-129234118-4	chr6	129234033	129234233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040268, intron 2 of 3)	intron (NR_040268, intron 2 of 3)	3912.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	55.5	125.0	75.0	968.0	198.0	56.5	63.5	68.0
Merged-chr6-24109336-1	chr6	24109236	24109436	+	615.0	f0_balb.idr	intron (NM_019481, intron 7 of 14)	intron (NM_019481, intron 7 of 14)	58756.0	NM_019481	55961.0	Mm.19299	NM_019481	ENSMUSG00000029700	Slc13a1	AI314066|AI987826|NaSi-1|Nas1	solute carrier family 13 (sodium/sulfate symporters), member 1	protein-coding	8.5	10.0	9.0	107.5	5.0	0.5	0.0	0.0
Merged-chr15-97663857-4	chr15	97663750	97663950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	41972.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	32.0	38.5	11.5	389.0	72.5	30.0	26.0	23.5
Merged-chr4-118620835-4	chr4	118620699	118620899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026789)	promoter-TSS (NM_026789)	0.0	NM_026932	69072.0	Mm.29906	NM_026932	ENSMUSG00000028729	Ebna1bp2	1810014B19Rik|AA537058|B830003A16Rik|C81321|Ebp2|Nobp|p40	EBNA1 binding protein 2	protein-coding	66.0	76.0	40.5	542.0	199.5	62.0	73.5	57.0
Merged-chr4-141724867-4	chr4	141724758	141724958	+	889.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1439.0	NM_001017966	68817.0	Mm.393721	NM_001017966	ENSMUSG00000078515	Ddi2	1110056G13Rik|1700027M01Rik|9130022E05Rik|AI604911|AU040698	DNA-damage inducible protein 2	protein-coding	10.5	8.0	9.5	177.5	48.0	10.5	13.5	16.5
Merged-chr3-144897404-4	chr3	144897312	144897512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1401.0	NR_126537	622139.0	Mm.447150	NM_001039222	ENSMUSG00000074196	Clca4c-ps	Clca4c|EG622139|Gm18718|Gm6289	chloride channel accessory 4C, pseudogene	pseudo	62.0	45.0	156.0	1479.0	43.5	36.5	72.0	47.5
Merged-chr16-50396380-4	chr16	50396260	50396460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	intron (NM_027444, intron 2 of 16)	36029.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	57.0	101.5	67.5	1258.0	218.5	59.0	81.0	63.0
Merged-chr2-166116157-3	chr2	166116058	166116258	+	732.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252579, intron 3 of 20)	intron (NM_001252579, intron 3 of 20)	39127.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	2.5	2.0	2.5	41.5	33.0	8.5	10.0	9.0
Merged-chr13-107700431-4	chr13	107700318	107700518	+	893.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13021.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	20.5	15.5	10.0	289.0	28.0	16.0	21.5	15.5
Merged-chr15-35515705-4	chr15	35515599	35515799	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177151, intron 17 of 61)	intron (NM_177151, intron 17 of 61)	144153.0	NM_177151	666173.0	Mm.309250	NM_177151	ENSMUSG00000037646	Vps13b	1810042B05Rik|2310042E16Rik|4732488H20|C330002D13Rik|C87206|Coh1|D230005K13|mKIAA0532|mKIAA5032	vacuolar protein sorting 13B	protein-coding	33.5	42.5	54.0	588.0	43.0	6.5	23.0	18.0
Merged-chr12-24713911-2	chr12	24713811	24714011	+	942.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009104, exon 10 of 10)	3' UTR (NM_009104, exon 10 of 10)	5657.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	7.0	14.0	3.0	47.5	18.5	4.5	7.0	7.5
Merged-chr7-130858163-4	chr7	130858065	130858265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7559.0	NM_133942	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	112.0	153.0	163.0	1811.5	371.5	95.0	172.0	99.0
Merged-chr7-128208350-3	chr7	128208208	128208408	+	741.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1942.0	NM_009943	12862.0	Mm.43824	NM_009943	ENSMUSG00000030785	Cox6a2	CoxVIaH|VIaH	cytochrome c oxidase subunit VIa polypeptide 2	protein-coding	3.5	5.0	7.5	23.5	14.5	6.5	6.5	8.0
Merged-chr15-101977534-4	chr15	101977429	101977629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-23242.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	151.5	272.0	174.0	2225.0	458.5	141.0	175.5	170.0
Merged-chr1-78658416-1	chr1	78658316	78658516	+	1000.0	f1_balb.idr	promoter-TSS (NM_001136226)	promoter-TSS (NM_001136226)	-24.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	17.0	26.0	16.0	280.0	45.5	8.5	17.5	15.5
Merged-chr11-50213185-4	chr11	50213083	50213283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2363.0	NM_011018	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	127.0	229.0	106.0	1212.0	312.5	150.0	100.0	85.5
Merged-chr7-82869948-3	chr7	82869842	82870042	+	795.422241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175366, exon 2 of 2)	exon (NM_175366, exon 2 of 2)	2609.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	15.0	12.0	18.5	269.5	31.5	4.0	4.0	5.0
Merged-chr10-93521550-1	chr10	93521450	93521650	+	769.0	f0_balb.idr	Intergenic	(CAAA)n|Simple_repeat|Simple_repeat	18483.0	NM_027908	71761.0	Mm.244518	NM_027908	ENSMUSG00000015890	Amdhd1	1300019J08Rik	amidohydrolase domain containing 1	protein-coding	9.0	8.5	10.5	145.0	0.0	0.5	0.0	0.5
Merged-chr15-34336416-4	chr15	34336319	34336519	+	890.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358780, intron 2 of 18)	intron (NM_001358780, intron 2 of 18)	21453.0	NM_001256161	77358.0	Mm.402759	NM_001256161	ENSMUSG00000094447	9430069I07Rik	-	RIKEN cDNA 9430069I07 gene	protein-coding	22.0	65.5	36.0	634.0	13.5	9.0	13.0	15.0
Merged-chr9-108339207-4	chr9	108339116	108339316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001329528, exon 1 of 3)	5' UTR (NM_001329528, exon 1 of 3)	136.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	187.0	331.5	159.0	2236.0	465.5	214.5	205.0	166.5
Merged-chr3-94482982-4	chr3	94482887	94483087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110353, intron 1 of 11)	intron (NR_110353, intron 1 of 11)	265.0	NR_110353	78784.0	Mm.44292	NM_172434	ENSMUSG00000028137	Celf3	4930415M08Rik|BRUNOL1|CAGH4|ERDA4|ETR-1|Tnrc4	CUGBP, Elav-like family member 3	protein-coding	67.0	65.5	51.0	906.0	62.0	25.5	31.0	38.0
Merged-chr15-63498691-4	chr15	63498567	63498767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19059.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	33.5	36.0	88.0	1048.0	69.5	19.5	28.0	37.5
Merged-chr3-95624342-1	chr3	95624242	95624442	+	651.333313	f0_c57.idr	promoter-TSS (NM_019561)	promoter-TSS (NM_019561)	-638.0	NM_019561	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	11.5	7.5	6.5	11.0	25.0	5.5	13.5	16.0
Merged-chr1-87620385-4	chr1	87620296	87620496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010566)	promoter-TSS (NM_010566)	84.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	65.5	78.0	45.0	947.0	139.5	38.0	70.0	74.5
Merged-chr6-72601934-4	chr6	72601826	72602026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026159, intron 3 of 10)	intron (NM_026159, intron 3 of 10)	3298.0	NM_026159	67442.0	Mm.305108	NM_026159	ENSMUSG00000056666	Retsat	0610039N19Rik|C80029|MMT-7|Ppsig	retinol saturase (all trans retinol 13,14 reductase)	protein-coding	29.5	49.5	26.0	514.5	88.5	27.0	43.5	37.5
Merged-chr7-101027840-4	chr7	101027719	101027919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15766.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	44.5	95.0	44.5	828.0	109.0	37.5	36.5	40.5
Merged-chr2-92478479-4	chr2	92478376	92478576	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	-17958.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	27.5	55.0	28.5	429.5	73.0	29.5	28.0	19.0
Merged-chr17-83646570-4	chr17	83646494	83646694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14699.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	27.5	32.5	28.5	448.0	48.0	17.5	30.5	32.5
Merged-chr11-54028712-4	chr11	54028625	54028825	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330304)	promoter-TSS (NM_001330304)	-621.0	NM_001330304	30805.0	Mm.274590	NM_019687	ENSMUSG00000020334	Slc22a4	Octn1	solute carrier family 22 (organic cation transporter), member 4	protein-coding	12.5	25.0	23.5	269.5	29.0	13.0	14.5	15.0
Merged-chr17-79971456-4	chr17	79971358	79971558	+	787.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3E|LINE|L1	-75335.0	NM_001286647	56298.0	Mm.175403	NM_019717	ENSMUSG00000059811	Atl2	2010110I21Rik|AA407293|AV334690|Aip-2|Arl6ip2	atlastin GTPase 2	protein-coding	2.5	5.0	13.0	107.5	16.5	8.5	27.0	18.0
Merged-chr15-57926144-4	chr15	57926020	57926220	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356310, intron 3 of 19)	RSINE1|SINE|B4	13921.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	16.0	30.0	19.5	223.5	53.0	16.0	23.5	21.5
Merged-chr7-90146510-4	chr7	90146408	90146608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	16295.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	37.5	94.5	63.5	650.5	99.0	48.0	52.5	63.0
Merged-chr1-64530096-3	chr1	64529960	64530160	+	833.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2744.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	6.0	4.5	9.5	107.0	10.0	5.0	3.0	13.5
Merged-chr18-32378348-4	chr18	32378257	32378457	+	863.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045403)	promoter-TSS (NR_045403)	-73.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	11.5	31.0	14.0	208.0	49.0	10.0	10.0	12.0
Merged-chr10-96751092-1	chr10	96750992	96751192	+	748.0	f0_balb.idr	Intergenic	Intergenic	134091.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	14.0	9.5	9.5	160.0	12.5	7.5	5.5	2.0
Merged-chr8-125568503-4	chr8	125568407	125568607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	1356.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	82.5	104.0	86.0	1389.5	180.5	68.5	117.5	129.0
Merged-chr4-15266147-3	chr4	15266048	15266248	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181401, exon 1 of 3)	exon (NM_181401, exon 1 of 3)	328.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	56.5	55.0	49.5	759.0	116.5	39.5	69.0	34.5
Merged-chr7-142342374-4	chr7	142342270	142342470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	L1MB3|LINE|L1	29889.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	35.0	52.5	36.0	429.0	134.5	61.5	75.5	53.0
Merged-chr18-54900486-4	chr18	54900375	54900575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	89705.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	30.0	20.0	23.0	465.0	47.0	17.5	19.5	30.0
Merged-chr19-32176103-3	chr19	32175984	32176184	+	855.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	MLT1C|LTR|ERVL-MaLR	34929.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	2.5	31.0	7.0	98.5	4.5	6.5	5.0	7.5
Merged-chr1-90603415-4	chr1	90603329	90603529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133805)	promoter-TSS (NM_133805)	4.0	NM_133805	108679.0	Mm.119177	NM_133805	ENSMUSG00000034432	Cops8	9430009J09Rik|AA408242|Csn8|Sgn8	COP9 signalosome subunit 8	protein-coding	185.5	243.5	152.0	2761.5	457.0	197.0	209.5	190.5
Merged-chr18-24467858-4	chr18	24467762	24467962	+	979.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3009.0	NM_026529	68046.0	Mm.276574	NM_026529	ENSMUSG00000024273	2700062C07Rik	AI195775|C87515	RIKEN cDNA 2700062C07 gene	protein-coding	9.0	33.0	16.5	381.5	68.0	18.0	19.0	18.5
Merged-chr8-117367582-4	chr8	117367451	117367651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	L2b|LINE|L2	18381.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	62.0	50.0	81.0	1185.5	87.0	25.0	67.0	52.5
Merged-chr19-59345199-4	chr19	59345026	59345226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033222, exon 1 of 5)	exon (NM_001033222, exon 1 of 5)	654.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	8.5	12.5	13.5	175.0	15.5	7.0	13.0	13.0
Merged-chr7-128065784-4	chr7	128065675	128065875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 2 of 29)	Lx8b|LINE|L1	3135.0	NM_008401	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	45.5	44.5	21.0	760.0	83.5	37.5	59.5	43.0
Merged-chr12-103325689-4	chr12	103325566	103325766	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 7 of 9)	CpG	10707.0	NM_001195726	100504156.0	Mm.425749	NM_001195726	ENSMUSG00000096753	Fam181a	EG544888	family with sequence similarity 181, member A	protein-coding	15.5	28.0	7.0	181.5	58.5	12.0	16.5	13.0
Merged-chr6-15841724-4	chr6	15841626	15841826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121065.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	81.0	75.0	69.5	1363.5	186.5	58.5	83.5	60.0
Merged-chr5-73257315-4	chr5	73257251	73257451	+	919.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028194)	promoter-TSS (NM_028194)	-733.0	NM_028194	72313.0	Mm.260594	NM_028194	ENSMUSG00000070733	Fryl	2010313D22Rik|2310004H21Rik|2510002A14Rik|9030227G01Rik|mKIAA0826	FRY like transcription coactivator	protein-coding	11.0	17.5	6.5	143.0	28.5	7.0	23.5	5.0
Merged-chr1-180943947-2	chr1	180943847	180944047	+	892.4166869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 1 of 22)	intron (NM_144794, intron 1 of 22)	1429.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	5.0	8.0	10.5	22.5	14.5	5.0	4.5	6.5
Merged-chr4-53250525-4	chr4	53250414	53250614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040665, intron 2 of 2)	MTEa|LTR|ERVL-MaLR	4318.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	96.0	196.0	85.5	637.5	219.0	102.0	110.5	85.0
Merged-chr11-6586833-4	chr11	6586730	6586930	+	882.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146014, intron 4 of 9)	ORR1G|LTR|ERVL-MaLR	19224.0	NM_001081652	192950.0	Mm.337771	NM_001081652	ENSMUSG00000041073	Nacad	D230024G13Rik|mKIAA0363	NAC alpha domain containing	protein-coding	21.5	19.0	11.5	311.5	28.5	9.5	13.5	12.5
Merged-chr12-9002209-4	chr12	9002104	9002304	+	957.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172470, intron 12 of 27)	intron (NM_172470, intron 12 of 27)	-27793.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	18.5	33.0	12.5	248.0	65.5	12.5	23.0	14.5
Merged-chr13-116957833-4	chr13	116957735	116957935	+	836.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	intron (NM_001081009, intron 3 of 26)	67681.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	12.0	8.0	10.5	268.5	44.5	7.0	11.0	6.5
Merged-chr18-46184909-4	chr18	46184858	46185058	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178872, intron 4 of 9)	MTD|LTR|ERVL-MaLR	13860.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	48.0	36.0	18.5	489.0	39.0	14.5	34.5	25.5
Merged-chr10-51526332-4	chr10	51526237	51526437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS2|LTR|ERV1	35439.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	139.5	292.0	141.0	1750.5	381.0	129.5	152.0	139.5
Merged-chr7-31151047-4	chr7	31150948	31151148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153431, exon 1 of 19)	non-coding (NR_153431, exon 1 of 19)	123.0	NM_027898	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	46.0	95.0	70.0	651.5	183.0	69.0	94.5	64.5
Merged-chr11-76593855-4	chr11	76593774	76593974	+	894.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16135.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	7.0	7.0	11.0	167.0	31.0	11.5	15.5	24.5
Merged-chr1-143738897-4	chr1	143738765	143738965	+	845.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023505)	promoter-TSS (NM_023505)	-484.0	NM_001038593	69367.0	Mm.272727	NM_023505	ENSMUSG00000018196	Glrx2	1700010P22Rik|AI645710|Grx2	glutaredoxin 2 (thioltransferase)	protein-coding	7.0	14.5	12.5	79.5	20.0	5.5	5.0	9.0
Merged-chr15-57037925-3	chr15	57037804	57038004	+	655.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227257.0	NM_001357930	210463.0	Mm.26555	NM_172378	ENSMUSG00000022366	Slc22a22	oat-pg	solute carrier family 22 (organic cation transporter), member 22	protein-coding	12.5	12.5	8.0	88.5	6.5	5.5	2.5	5.0
Merged-chr14-54517539-4	chr14	54517447	54517647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013768)	promoter-TSS (NM_013768)	-77.0	NM_001313907	27374.0	Mm.196585	NM_013768	ENSMUSG00000023110	Prmt5	Jbp1|Skb1	protein arginine N-methyltransferase 5	protein-coding	304.0	472.0	330.0	4672.5	812.0	321.5	385.5	338.0
Merged-chr11-55158994-4	chr11	55158904	55159104	+	858.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153170, exon 10 of 10)	3' UTR (NM_153170, exon 10 of 10)	-7298.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	13.0	19.5	10.5	132.0	21.5	16.5	9.0	17.0
Merged-chr7-127080271-4	chr7	127080188	127080388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-11148.0	NM_178901	101602.0	Mm.490357	NM_178901	ENSMUSG00000045165	AI467606	-	expressed sequence AI467606	protein-coding	32.5	43.5	48.5	627.5	184.5	61.0	126.0	78.5
Merged-chr1-43478038-3	chr1	43477922	43478122	+	796.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	32271.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	6.0	3.0	14.5	65.5	5.0	6.5	7.0	8.0
Merged-chr9-114723546-4	chr9	114723434	114723634	+	736.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146229, exon 13 of 13)	3' UTR (NM_146229, exon 13 of 13)	-7669.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	13.0	10.0	9.0	102.0	15.0	12.0	5.0	12.0
Merged-chr5-130248075-4	chr5	130247970	130248170	+	960.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023248, intron 4 of 4)	intron (NM_023248, intron 4 of 4)	7460.0	NM_023248	66711.0	Mm.280484	NM_023248	ENSMUSG00000025337	Sbds	4733401P19Rik|AI836084|CGI-97|SDS	SBDS ribosome maturation factor	protein-coding	30.5	46.0	35.0	626.0	41.5	11.0	26.0	27.0
Merged-chr7-110718742-3	chr7	110718632	110718832	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49474.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	7.5	8.5	6.0	161.5	15.5	7.5	9.0	6.0
Merged-chr13-23712188-4	chr13	23712077	23712277	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1323.0	NM_010424	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	15.0	19.5	15.0	351.5	66.0	12.5	27.5	11.0
Merged-chr7-99159033-4	chr7	99158903	99159103	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026384, exon 5 of 8)	exon (NM_026384, exon 5 of 8)	-17859.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	28.0	35.5	17.5	386.5	93.0	43.5	44.5	52.0
Merged-chr9-120502225-4	chr9	120502128	120502328	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9622.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	4.0	25.5	5.0	91.0	40.5	11.0	18.5	9.0
Merged-chr3-21941732-3	chr3	21941613	21941813	+	826.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134939.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	2.0	9.5	14.0	191.0	15.0	15.5	8.0	9.0
Merged-chr17-35516921-4	chr17	35516809	35517009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146248)	promoter-TSS (NM_146248)	-85.0	NM_025674	106795.0	Mm.11434	NM_025674	ENSMUSG00000050410	Tcf19	5730403J10Rik|AW495861	transcription factor 19	protein-coding	47.5	133.0	46.0	886.5	155.0	70.5	54.0	58.5
Merged-chr17-79663626-3	chr17	79663531	79663731	+	950.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201361, intron 5 of 10)	(TG)n|Simple_repeat|Simple_repeat	48731.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	19.5	18.0	16.0	311.5	19.0	2.5	9.0	8.5
Merged-chr19-47855626-4	chr19	47855526	47855726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010362, intron 2 of 5)	intron (NM_010362, intron 2 of 5)	653.0	NM_010362	14873.0	Mm.378931	NM_010362	ENSMUSG00000025068	Gsto1	AA407097|AI194287|AU018802|Gsto-1|Gstx|Spg-r|p28	glutathione S-transferase omega 1	protein-coding	69.5	117.0	70.0	1365.5	138.5	53.5	63.5	53.5
Merged-chr15-58755292-4	chr15	58755188	58755388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68139.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	44.0	44.5	51.5	804.0	120.0	30.0	41.5	41.0
Merged-chr4-134187180-4	chr4	134187082	134187282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144527)	promoter-TSS (NM_144527)	-97.0	NM_144527	70012.0	Mm.26542	NM_144527	ENSMUSG00000037443	Cep85	2410030J07Rik|AI173272|AI173504|Ccdc21	centrosomal protein 85	protein-coding	271.0	432.0	223.0	3327.0	670.0	333.0	268.0	263.0
Merged-chr7-19118400-3	chr7	19118310	19118510	+	971.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1449.0	NM_175530	243867.0	Mm.230830	NM_175530	ENSMUSG00000050428	Fbxo46	20D7-FC4|4932704E22Rik|Fbxo34l	F-box protein 46	protein-coding	16.5	2.5	7.0	61.0	55.5	26.5	15.5	27.0
Merged-chr14-118178537-4	chr14	118178467	118178667	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	41440.0	NM_021434	58245.0	Mm.275411	NM_021434	ENSMUSG00000022131	Gpr180	AB041545|E130016I23Rik|Itr	G protein-coupled receptor 180	protein-coding	24.5	29.0	19.5	341.0	40.5	19.0	26.0	14.0
Merged-chr2-22746962-4	chr2	22746843	22747043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27384.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	76.0	130.0	91.0	1090.0	209.0	78.0	64.5	58.5
Merged-chr5-146818952-4	chr5	146818866	146819066	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-13924.0	NM_019647	19933.0	Mm.316592	NM_019647	ENSMUSG00000041453	Rpl21	8430440E03Rik|L21	ribosomal protein L21	protein-coding	13.0	17.5	40.0	340.0	36.0	15.0	21.5	17.5
Merged-chr1-172207386-4	chr1	172207268	172207468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329869)	promoter-TSS (NM_001329869)	-564.0	NM_011063	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	123.5	215.0	108.0	1610.0	346.5	112.0	128.0	125.0
Merged-chr2-32452113-4	chr2	32452006	32452206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164357)	promoter-TSS (NM_001164357)	-636.0	NM_146118	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	214.0	365.0	195.0	3008.0	468.5	201.5	212.5	189.0
Merged-chr1-153501992-8	chr1	153501885	153502085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14325.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	48.0	61.0	51.5	819.5	77.5	49.0	42.0	48.0
Merged-chr1-179803813-4	chr1	179803733	179803933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026375, exon 1 of 36)	5' UTR (NM_026375, exon 1 of 36)	182.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	260.5	407.0	233.0	3433.0	482.0	188.0	247.0	169.5
Merged-chr16-50760137-4	chr16	50760026	50760226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23283.0	NR_131006	78639.0	Mm.160109	NR_131005	ENSMUSG00000092276	1700116B05Rik	-	RIKEN cDNA 1700116B05 gene	ncRNA	50.0	65.0	88.0	1231.0	119.0	24.5	68.5	44.5
Merged-chr19-41989960-4	chr19	41989877	41990077	+	968.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	ID_B1|SINE|B4	8214.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	19.5	23.5	14.0	341.5	37.5	19.0	30.0	18.5
Merged-chr13-64306296-4	chr13	64306186	64306386	+	958.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025370, intron 4 of 5)	intron (NM_025370, intron 4 of 5)	6424.0	NM_025370	66129.0	Mm.491110	NM_025370	ENSMUSG00000021482	Aaed1	1110018J18Rik|AI849003	AhpC/TSA antioxidant enzyme domain containing 1	protein-coding	22.0	11.0	27.5	242.0	35.5	23.0	18.0	9.0
Merged-chr4-40876931-4	chr4	40876906	40877106	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22469.0	NM_022305	14595.0	Mm.15622	NM_022305	ENSMUSG00000028413	B4galt1	B-1,4-GalT|B-1,4-GalT1|GalT|Ggtb|Ggtb2|b4Gal-T1|beta-1,4-GalT|beta-1,4-GalT1|beta4Gal-T1	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1	protein-coding	7.0	24.5	12.0	259.5	35.5	11.5	12.5	11.0
Merged-chr12-85480801-4	chr12	85480684	85480884	+	820.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6894.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	14.5	30.0	10.0	76.0	30.5	8.5	3.0	19.0
Merged-chr11-61653220-4	chr11	61653119	61653319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027817)	promoter-TSS (NM_027817)	-102.0	NM_027817	71520.0	Mm.202760	NM_027817	ENSMUSG00000004837	Grap	8430435N19Rik|BB233594	GRB2-related adaptor protein	protein-coding	54.5	117.5	41.0	627.0	202.5	100.5	58.0	61.0
Merged-chr14-31019112-4	chr14	31019014	31019214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153547)	promoter-TSS (NM_153547)	17.0	NM_153547	30877.0	Mm.88512	NM_153547	ENSMUSG00000042354	Gnl3	Ns	guanine nucleotide binding protein-like 3 (nucleolar)	protein-coding	84.0	139.0	42.0	881.0	233.0	95.0	68.0	67.5
Merged-chr8-78889863-3	chr8	78889765	78889965	+	931.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68713.0	NM_030145	78651.0	Mm.28694	NM_030145	ENSMUSG00000031683	Lsm6	1500031N17Rik|2410088K19Rik|AI747288	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	8.5	24.5	10.5	254.0	15.5	0.0	6.5	13.5
Merged-chr4-59821713-4	chr4	59821610	59821810	+	909.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	L1MA9|LINE|L1	16060.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	10.5	8.0	7.5	174.0	55.5	12.5	13.0	28.0
Merged-chr18-53158816-4	chr18	53158720	53158920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17472.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	32.5	41.0	27.0	576.5	95.0	24.0	63.5	36.5
Merged-chr9-104281916-4	chr9	104281811	104282011	+	917.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18981.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	19.5	18.0	17.0	182.0	32.5	10.5	13.5	16.0
Merged-chr7-19004116-4	chr7	19004041	19004241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178757)	promoter-TSS (NM_178757)	76.0	NM_178757	272359.0	Mm.274237	NM_178757	ENSMUSG00000044030	Irf2bp1	6330414O09Rik|C530033F24	interferon regulatory factor 2 binding protein 1	protein-coding	34.5	67.0	66.5	455.5	100.0	41.0	37.0	38.5
Merged-chr17-35867710-4	chr17	35867618	35867818	+	809.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175242, exon 1 of 3)	exon (NM_175242, exon 1 of 3)	1103.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	12.5	22.5	9.0	109.5	29.0	21.0	18.0	10.5
Merged-chr19-7019461-4	chr19	7019368	7019568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153795)	promoter-TSS (NM_153795)	1.0	NM_153795	108101.0	Mm.157591	NM_153795	ENSMUSG00000024965	Fermt3	C79673|Kindlin3	fermitin family member 3	protein-coding	124.5	135.5	89.5	1511.0	218.5	69.0	87.0	70.0
Merged-chr4-124843654-3	chr4	124843536	124843736	+	617.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008636, intron 10 of 10)	intron (NM_008636, intron 10 of 10)	6928.0	NM_001347196	68920.0	Mm.272397	NM_001142727	ENSMUSG00000078570	1110065P20Rik	C530005M16Rik	RIKEN cDNA 1110065P20 gene	protein-coding	7.5	8.5	10.0	92.0	11.0	5.5	9.0	5.0
Merged-chr10-21992560-4	chr10	21992482	21992682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161849, intron 1 of 11)	intron (NM_001161849, intron 1 of 11)	359.0	NM_001161849	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	53.5	75.5	40.5	554.5	112.0	45.5	55.5	36.0
Merged-chr7-88202169-4	chr7	88202071	88202271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75914.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	48.0	70.0	74.0	1090.0	104.0	34.0	78.0	45.5
Merged-chr7-102250230-3	chr7	102250145	102250345	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019566)	promoter-TSS (NM_019566)	-127.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	56.5	91.0	50.0	753.0	136.0	91.5	79.5	73.0
Merged-chr17-17860293-4	chr17	17860210	17860410	+	995.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-5122.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	27.0	21.5	14.5	268.5	57.0	35.0	28.5	29.0
Merged-chr17-84958562-4	chr17	84958438	84958638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027930)	promoter-TSS (NR_027930)	537.0	NM_001159496	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	13.0	22.0	42.5	481.0	97.5	43.5	41.0	47.0
Merged-chr4-16120861-4	chr4	16120760	16120960	+	972.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42783.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	15.0	24.0	17.5	367.0	48.5	16.0	5.0	8.0
Merged-chr13-41084674-4	chr13	41084585	41084785	+	825.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4979.0	NM_001145802	17152.0	Mm.8149	NM_008547	ENSMUSG00000021363	Mak	A930010O05Rik	male germ cell-associated kinase	protein-coding	6.5	21.0	7.5	165.0	14.0	11.0	15.0	8.0
Merged-chr5-100570224-4	chr5	100570126	100570326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 1 of 4)	intron (NM_139198, intron 1 of 4)	1979.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	54.0	67.5	42.0	503.5	220.5	56.0	91.5	90.0
Merged-chr10-68446535-2	chr10	68446435	68446635	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 5 of 7)	intron (NM_028491, intron 5 of 7)	95340.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	3.0	11.5	6.0	61.5	7.5	10.5	10.0	4.5
Merged-chr6-97489025-4	chr6	97488927	97489127	+	958.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-1207.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	8.5	19.0	9.5	204.5	42.0	24.5	34.0	29.5
Merged-chr14-20078621-4	chr14	20078515	20078715	+	794.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026209, intron 1 of 1)	intron (NM_026209, intron 1 of 1)	4557.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	5.5	7.5	6.5	135.0	23.5	8.0	10.5	8.5
Merged-chr15-53255956-4	chr15	53255850	53256050	+	742.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	90233.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	6.5	14.5	10.0	121.0	20.0	4.5	10.5	7.0
Merged-chr6-37213093-4	chr6	37212985	37213185	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	86891.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	33.5	22.0	30.5	824.0	75.0	14.0	27.5	43.0
Merged-chr3-102715425-4	chr3	102715276	102715476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19394.0	NM_027533	70747.0	Mm.27469	NM_027533	ENSMUSG00000027858	Tspan2	6330415F13Rik|B230119D02Rik|tspan-2	tetraspanin 2	protein-coding	33.5	42.5	20.5	448.5	49.0	22.0	25.5	20.0
Merged-chr3-133544774-2	chr3	133544674	133544874	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346736)	promoter-TSS (NM_001346736)	-384.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	18.0	18.0	48.0	290.5	57.0	20.0	29.0	20.0
Merged-chr3-9902554-4	chr3	9902447	9902647	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68868.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	28.0	20.0	24.0	368.0	68.5	17.5	25.0	22.5
Merged-chr8-91070072-4	chr8	91069970	91070170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282000)	promoter-TSS (NM_001282000)	13.0	NM_001282000	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	73.5	134.0	61.0	1285.5	281.5	103.5	117.0	83.5
Merged-chr6-116050786-1	chr6	116050686	116050886	+	859.5	f0_balb.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	-55781.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	13.0	10.5	7.5	146.0	7.5	1.0	5.0	5.0
Merged-chr1-125560476-4	chr1	125560371	125560571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356294)	promoter-TSS (NM_001356294)	-124.0	NM_001356294	74150.0	Mm.28654	NM_028787	ENSMUSG00000026342	Slc35f5	1300003P13Rik|AI646727	solute carrier family 35, member F5	protein-coding	306.0	538.0	356.5	5002.0	706.5	307.5	367.5	308.0
Merged-chr3-89394884-6	chr3	89394779	89394979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040404, intron 1 of 1)	intron (NR_040404, intron 1 of 1)	589.0	NR_040404	545539.0	Mm.393389	NR_040403	ENSMUSG00000074466	Gm15417	-	predicted gene 15417	ncRNA	22.0	19.5	27.0	148.0	53.5	25.5	18.0	25.5
Merged-chr2-28496879-4	chr2	28496781	28496981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139197)	promoter-TSS (NM_139197)	-10.0	NM_139197	227671.0	Mm.484270	NM_139197	ENSMUSG00000026829	Gbgt1	Fgs|Fs	globoside alpha-1,3-N-acetylgalactosaminyltransferase 1	protein-coding	39.5	28.5	30.5	326.0	76.0	18.5	24.0	31.5
Merged-chr2-45231016-4	chr2	45230917	45231117	+	940.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113575.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	16.0	19.0	10.0	202.0	36.5	15.0	12.5	9.5
Merged-chr15-97925019-4	chr15	97924940	97925140	+	969.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16744.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	12.5	19.0	10.0	217.5	59.0	7.0	21.5	22.0
Merged-chr5-65537159-4	chr5	65537056	65537256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310618)	promoter-TSS (NM_001310618)	-89.0	NM_016786	53323.0	Mm.319512	NM_016786	ENSMUSG00000029203	Ube2k	AW492011|D5Ertd601e|E2-25k|HIP-2|Hip2|Hypg|Lig	ubiquitin-conjugating enzyme E2K	protein-coding	111.0	162.5	97.0	1674.0	353.0	128.0	146.5	132.0
Merged-chr2-118926490-4	chr2	118926366	118926566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028117)	promoter-TSS (NM_028117)	-31.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	27.5	21.5	19.0	465.0	64.5	16.0	30.0	33.5
Merged-chr1-156036099-4	chr1	156036022	156036222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160182)	promoter-TSS (NM_001160182)	86.0	NM_001160182	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	178.0	279.0	155.0	2031.5	502.5	227.0	264.0	199.5
Merged-chr8-85028829-4	chr8	85028710	85028910	+	841.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026760, intron 1 of 2)	intron (NM_026760, intron 1 of 2)	1977.0	NM_026760	68544.0	Mm.196005	NM_026760	ENSMUSG00000041203	Trir	1110002H14Rik|2310036O22Rik|AI854688	telomerase RNA component interacting RNase	protein-coding	9.0	18.5	7.5	88.0	19.0	3.0	14.0	12.0
Merged-chr4-139156664-4	chr4	139156588	139156788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23967.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	70.5	64.5	55.5	761.0	89.5	29.0	33.0	25.5
Merged-chr11-6523852-4	chr11	6523769	6523969	+	822.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-2911.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	8.0	13.0	14.0	29.0	39.0	12.0	14.0	6.0
Merged-chr4-45529392-2	chr4	45529341	45529541	+	649.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	1387.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	5.5	3.5	6.0	73.5	19.5	6.5	12.0	7.5
Merged-chr17-27057116-4	chr17	27057034	27057234	+	952.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080553)	promoter-TSS (NM_080553)	-170.0	NM_080553	16440.0	Mm.458106	NM_080553	ENSMUSG00000042644	Itpr3	IP3R 3|Ip3r3|Itpr-3|tf	inositol 1,4,5-triphosphate receptor 3	protein-coding	28.5	42.5	33.5	303.5	27.5	22.0	21.0	9.0
Merged-chr1-191183475-4	chr1	191183351	191183551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007498)	promoter-TSS (NM_007498)	-118.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	277.0	465.0	235.5	3658.0	711.0	284.5	332.5	297.5
Merged-chr9-32198921-4	chr9	32198835	32199035	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 9 of 21)	(CAAAA)n|Simple_repeat|Simple_repeat	-25314.0	NM_177379	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	15.5	26.0	20.5	283.0	64.5	31.0	12.0	17.5
Merged-chr15-6334987-4	chr15	6334871	6335071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	35182.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	42.5	24.0	88.0	1395.0	76.0	21.0	41.0	48.0
Merged-chr5-64970085-4	chr5	64969987	64970187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026667)	promoter-TSS (NM_026667)	12.0	NM_026667	68303.0	Mm.258545	NM_026667	ENSMUSG00000029185	Fam114a1	1190001N04Rik|9130005N14Rik|Noxp20	family with sequence similarity 114, member A1	protein-coding	38.5	75.5	41.0	569.5	116.5	35.5	54.5	54.5
Merged-chr3-32396301-3	chr3	32396191	32396391	+	973.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30626.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	7.5	5.0	12.0	155.5	15.0	8.5	10.5	6.0
Merged-chr11-77515039-4	chr11	77514942	77515142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026185)	promoter-TSS (NM_026185)	-75.0	NM_026185	67477.0	Mm.432526	NM_026185	ENSMUSG00000000686	Abhd15	1300007F04Rik	abhydrolase domain containing 15	protein-coding	69.0	77.0	54.5	973.0	137.5	36.0	61.5	37.0
Merged-chr2-73554601-4	chr2	73554498	73554698	+	877.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-25111.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	8.0	15.5	7.5	252.0	41.5	9.0	13.0	13.5
Merged-chr14-51166290-4	chr14	51166192	51166392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4032.0	NM_019398	54159.0	Mm.377125	NM_019398	ENSMUSG00000059606	Rnase2b	Ear5|Raf4|mR5	ribonuclease, RNase A family, 2B (liver, eosinophil-derived neurotoxin)	protein-coding	27.0	60.5	33.0	576.0	112.0	33.5	36.0	31.0
Merged-chr3-9901795-4	chr3	9901623	9901823	+	901.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68044.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	7.5	10.5	15.5	103.0	23.0	5.0	10.0	2.5
Merged-chr6-5200093-3	chr6	5200018	5200218	+	936.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6172.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	9.5	16.0	7.0	215.0	7.0	3.5	5.0	7.5
Merged-chr6-116725454-4	chr6	116725357	116725557	+	876.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8699.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	22.0	15.5	8.5	136.5	41.0	10.0	17.0	12.0
Merged-chr17-86963762-2	chr17	86963662	86963862	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 1 of 4)	intron (NM_145491, intron 1 of 4)	651.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	13.5	17.5	7.5	97.5	24.0	10.5	19.0	16.0
Merged-chr7-45097684-4	chr7	45097603	45097803	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357117, intron 4 of 6)	intron (NM_001357117, intron 4 of 6)	-5490.0	NM_001355045	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	50.5	29.0	80.0	1416.5	26.0	2.5	20.0	17.5
Merged-chr2-180695401-4	chr2	180695250	180695450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291432, intron 1 of 5)	Charlie1|DNA|hAT-Charlie	-3302.0	NR_111965	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	57.5	88.5	66.5	1334.5	70.0	20.5	36.0	36.0
Merged-chr7-100176504-4	chr7	100176397	100176597	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190869)	promoter-TSS (NM_001190869)	-173.0	NM_001190869	57442.0	Mm.282386	NM_020574	ENSMUSG00000035165	Kcne3	2210017H05Rik|MiRP2	potassium voltage-gated channel, Isk-related subfamily, gene 3	protein-coding	25.0	27.5	18.0	462.5	49.5	8.0	18.5	18.0
Merged-chr17-47595707-4	chr17	47595610	47595810	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 4 of 6)	intron (NM_001081635, intron 4 of 6)	2243.0	NM_007632	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	20.0	25.0	18.5	334.5	31.0	3.5	14.0	18.5
Merged-chr11-8762398-4	chr11	8762299	8762499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97864.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	30.0	23.5	21.5	472.0	76.0	26.0	22.0	25.0
Merged-chr11-5115130-4	chr11	5115011	5115211	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080595, intron 13 of 14)	intron (NM_080595, intron 13 of 14)	14946.0	NM_001290493	279766.0	Mm.260866	NM_177370	ENSMUSG00000034175	Rhbdd3	Ptag	rhomboid domain containing 3	protein-coding	29.0	29.0	11.5	328.0	102.0	34.0	44.5	23.0
Merged-chr13-29983164-3	chr13	29983081	29983281	+	596.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010093, intron 1 of 6)	intron (NM_010093, intron 1 of 6)	1210.0	NM_001289920	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	4.5	10.0	7.5	87.0	13.0	8.0	8.0	8.0
Merged-chr11-99179105-4	chr11	99178995	99179195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-24018.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	48.0	91.0	70.5	786.0	132.0	34.5	53.0	42.5
Merged-chr4-149890150-3	chr4	149890000	149890200	+	916.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64906.0	NM_029035	74646.0	Mm.30	NM_029035	ENSMUSG00000039911	Spsb1	1110014L01Rik|4930422J18Rik|AI596360|AI854583|SSB-1|SSB1	splA/ryanodine receptor domain and SOCS box containing 1	protein-coding	4.5	8.5	8.0	115.5	16.5	12.5	6.5	5.0
Merged-chr2-73047190-4	chr2	73047075	73047275	+	935.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66729.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	13.0	30.5	14.0	286.0	42.5	11.5	15.5	11.5
Merged-chr16-45029664-3	chr16	45029569	45029769	+	859.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64342.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	7.5	10.0	16.0	238.0	10.0	20.5	4.0	8.0
Merged-chr17-63499902-5	chr17	63499705	63499905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015794, exon 1 of 9)	exon (NM_015794, exon 1 of 9)	775.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	32.5	33.0	34.5	520.0	60.5	23.5	46.0	43.5
Merged-chr13-5862354-8	chr13	5862245	5862445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 1 of 3)	intron (NM_011803, intron 1 of 3)	856.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	25.5	42.0	24.5	174.5	40.0	38.5	17.5	24.5
Merged-chr13-30582731-4	chr13	30582622	30582822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32321.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	82.0	58.0	47.0	985.5	62.5	25.5	52.0	45.0
Merged-chr3-83947673-4	chr3	83947579	83947779	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172681, intron 7 of 34)	intron (NM_172681, intron 7 of 34)	92482.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	19.0	22.0	31.5	379.5	44.0	9.5	25.5	17.5
Merged-chr2-36217737-3	chr2	36217613	36217813	+	828.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12713.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	4.0	4.0	10.5	125.0	17.0	4.5	6.0	15.0
Merged-chr10-94098289-3	chr10	94098169	94098369	+	827.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 5 of 20)	intron (NM_053072, intron 5 of 20)	-49662.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	5.0	8.0	3.5	12.5	33.0	8.5	14.5	19.0
Merged-chr12-79813973-4	chr12	79813868	79814068	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009014, exon 11 of 11)	3' UTR (NM_009014, exon 11 of 11)	110765.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	12.0	18.0	20.0	233.5	49.0	19.0	21.5	20.0
Merged-chr3-20132951-3	chr3	20132872	20133072	+	967.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355261, intron 5 of 7)	intron (NM_001355261, intron 5 of 7)	22144.0	NM_001355261	27357.0	Mm.6375	NM_013755	ENSMUSG00000019528	Gyg	AU017667|GN1|Gyg1	glycogenin	protein-coding	10.0	8.0	17.0	426.5	17.0	2.5	8.0	15.5
Merged-chr3-135212480-4	chr3	135212350	135212550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173762)	promoter-TSS (NM_173762)	-113.0	NM_173762	229841.0	Mm.161470	NM_173762	ENSMUSG00000045328	Cenpe	312kDa|AU019344|BC049989|C530022J18|CENP-E|Kif10	centromere protein E	protein-coding	116.0	134.0	108.5	1548.0	222.0	89.0	108.0	84.5
Merged-chr5-113634049-4	chr5	113633962	113634162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	9541.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	118.0	171.0	150.5	2068.0	224.5	86.0	126.0	111.0
Merged-chr17-26497652-6	chr17	26497548	26497748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10824.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	168.5	216.0	136.0	1480.0	235.5	125.0	94.0	87.5
Merged-chr10-88417851-4	chr10	88417747	88417947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 5 of 20)	intron (NM_001004164, intron 5 of 20)	38435.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	61.0	51.5	68.5	997.0	117.0	45.0	73.5	52.5
Merged-chr6-97291528-3	chr6	97291454	97291654	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 23 of 23)	intron (NM_145148, intron 23 of 23)	-38774.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	10.0	7.5	14.0	138.5	14.5	7.5	6.0	1.5
Merged-chr8-111643963-4	chr8	111643887	111644087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358993, intron 1 of 3)	intron (NM_001358993, intron 1 of 3)	544.0	NM_011742	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	114.0	151.5	74.0	1304.0	253.5	113.0	114.5	81.0
Merged-chr12-8864665-4	chr12	8864566	8864766	+	979.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56641.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	17.0	34.5	25.0	160.5	39.0	19.0	12.0	9.5
Merged-chr10-39732846-5	chr10	39732750	39732950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038037)	promoter-TSS (NR_038037)	690.0	NM_011264	19714.0	Mm.439723	NM_011264	ENSMUSG00000019841	Rev3l	Rev|Rev3|Sez4	REV3 like, DNA directed polymerase zeta catalytic subunit	protein-coding	36.5	67.0	30.5	522.0	67.5	26.5	39.0	37.5
Merged-chr12-76537620-4	chr12	76537516	76537716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	4056.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	219.0	360.5	285.5	4583.5	522.0	197.5	293.5	237.0
Merged-chr13-34255414-4	chr13	34255317	34255517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	89765.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	48.0	46.5	45.5	596.5	96.5	31.0	47.5	25.0
Merged-chr6-84640823-3	chr6	84640730	84640930	+	863.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 20 of 21)	intron (NM_177077, intron 20 of 21)	-46922.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	8.0	6.0	17.5	163.0	15.0	1.0	0.5	7.0
Merged-chr6-125131862-4	chr6	125131765	125131965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138747)	promoter-TSS (NM_138747)	-18.0	NM_138747	110109.0	Mm.29203	NM_138747	ENSMUSG00000038279	Nop2	120kDa|A530002O17|Nol1	NOP2 nucleolar protein	protein-coding	131.0	204.0	106.0	1582.0	338.0	159.0	118.5	132.0
Merged-chr6-108331420-3	chr6	108331326	108331526	+	773.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	118330.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	9.0	17.5	13.0	106.5	15.0	7.5	5.0	0.0
Merged-chr15-8109191-4	chr15	8109073	8109273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133227)	promoter-TSS (NM_133227)	-140.0	NM_133227	170762.0	Mm.295168	NM_133227	ENSMUSG00000022142	Nup155	D930027M19Rik|mKIAA0791	nucleoporin 155	protein-coding	130.0	207.0	140.5	2388.5	337.0	100.0	165.0	107.0
Merged-chr6-70812079-4	chr6	70811982	70812182	+	801.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19907.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	11.0	19.0	11.0	164.5	33.0	12.5	14.0	6.0
Merged-chr14-26640043-4	chr14	26639918	26640118	+	744.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	intron (NM_007479, intron 1 of 5)	1884.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	9.5	2.0	1.0	68.0	15.0	9.5	15.0	9.5
Merged-chr6-88500229-4	chr6	88500068	88500268	+	805.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	18632.0	NM_016906	53421.0	Mm.28375	NM_016906	ENSMUSG00000030082	Sec61a1	AA408394|AA410007|Sec61a	Sec61 alpha 1 subunit (S. cerevisiae)	protein-coding	10.0	12.0	6.0	114.5	26.5	4.0	9.5	7.0
Merged-chr16-35363903-4	chr16	35363798	35363998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133704)	promoter-TSS (NM_133704)	20.0	NM_133704	317717.0	Mm.259164	NM_133704	ENSMUSG00000034473	Sec22a	1810005C06Rik|Sec22l2	SEC22 homolog A, vesicle trafficking protein	protein-coding	173.5	217.0	111.5	1907.5	432.5	149.0	153.5	121.0
Merged-chr17-71486766-3	chr17	71486662	71486862	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11419.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	3.0	6.0	10.0	115.0	66.5	21.0	58.5	20.5
Merged-chr1-193173552-4	chr1	193173451	193173651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181048)	promoter-TSS (NM_181048)	-26.0	NM_001160359	319266.0	Mm.482460	NM_181048	ENSMUSG00000079144	A130010J15Rik	-	RIKEN cDNA A130010J15 gene	protein-coding	333.0	498.0	302.5	5058.5	826.5	313.0	362.5	345.5
Merged-chr8-108718304-3	chr8	108718207	108718407	+	818.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	3663.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	14.0	17.0	15.5	238.5	10.5	2.0	7.0	6.0
Merged-chr16-38619220-4	chr16	38619107	38619307	+	780.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 7 of 11)	intron (NM_020260, intron 7 of 11)	56393.0	NM_026407	67846.0	Mm.310476	NM_026407	ENSMUSG00000002845	Tmem39a	2610033C09Rik	transmembrane protein 39a	protein-coding	5.0	5.5	6.0	81.5	28.5	18.5	9.5	18.5
Merged-chr8-25627418-4	chr8	25627315	25627515	+	663.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001735, intron 1 of 9)	B3|SINE|B2	-13162.0	NM_001081269	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	7.5	5.0	5.0	84.0	25.0	7.5	8.0	12.0
Merged-chr11-22987459-2	chr11	22987359	22987559	+	799.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3134.0	NM_009837	12464.0	Mm.296985	NM_009837	ENSMUSG00000007739	Cct4	2610204B21Rik|A45|C78323|Cctd	chaperonin containing Tcp1, subunit 4 (delta)	protein-coding	6.5	11.0	6.5	48.5	17.5	2.0	2.5	11.5
Merged-chr12-81595106-4	chr12	81595008	81595208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347386)	promoter-TSS (NM_001347386)	-100.0	NM_001347384	69792.0	Mm.279993	NM_027213	ENSMUSG00000002679	Med6	1500012F11Rik|AU019660|AV213303	mediator complex subunit 6	protein-coding	146.0	254.5	109.5	1554.5	357.5	104.0	124.5	148.0
Merged-chr4-59547649-3	chr4	59547588	59547788	+	819.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144904, intron 1 of 14)	intron (NM_144904, intron 1 of 14)	1676.0	NM_178164	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	12.0	6.0	1.5	83.0	21.0	8.5	9.5	11.5
Merged-chr9-70656229-4	chr9	70656129	70656329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172772, intron 1 of 8)	intron (NM_172772, intron 1 of 8)	945.0	NM_172772	235461.0	Mm.170855	NM_172772	ENSMUSG00000042444	Mindy2	AI465301|B230380D07Rik|Fam63b|mKIAA1164	MINDY lysine 48 deubiquitinase 2	protein-coding	45.5	51.5	28.0	494.0	107.5	30.5	28.5	35.5
Merged-chr7-80554920-3	chr7	80554796	80554996	+	791.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19777.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	6.5	7.5	9.0	78.0	11.5	2.0	6.0	14.0
Merged-chr2-58814665-4	chr2	58814571	58814771	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M8|LINE|L1	59487.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	19.0	10.5	19.5	384.0	35.0	16.0	21.5	21.0
Merged-chr16-26035192-3	chr16	26035096	26035296	+	725.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173379, intron 1 of 14)	intron (NM_173379, intron 1 of 14)	70588.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	10.0	4.5	12.0	136.5	23.5	6.5	11.5	9.0
Merged-chr7-24270409-4	chr7	24270294	24270494	+	929.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009567)	promoter-TSS (NM_009567)	-24.0	NM_009567	22755.0	Mm.383535	NM_009567	ENSMUSG00000055305	Zfp93	Znf235	zinc finger protein 93	protein-coding	20.5	9.5	27.5	303.5	29.5	10.5	21.0	12.0
Merged-chr11-117962301-4	chr11	117962202	117962402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7064.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	42.5	51.0	29.5	382.0	100.0	36.5	40.5	30.5
Merged-chr8-105607960-4	chr8	105607861	105608061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081241, intron 1 of 21)	intron (NM_001081241, intron 1 of 21)	2732.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	24.0	34.0	18.5	240.5	41.0	15.5	23.0	31.5
Merged-chr17-86671408-1	chr17	86671308	86671508	+	930.0	f0_balb.idr	Intergenic	Intergenic	-82456.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	5.5	6.0	8.5	131.5	2.5	2.0	4.0	6.0
Merged-chr5-124111216-3	chr5	124111123	124111323	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1098.0	NM_001361482	66627.0	Mm.7050	NM_025671	ENSMUSG00000023707	Ogfod2	1300006G11Rik|5730405M13Rik|AU041636|AW552395	2-oxoglutarate and iron-dependent oxygenase domain containing 2	protein-coding	15.0	16.5	5.0	96.5	29.0	6.0	7.0	7.5
Merged-chr7-46825182-3	chr7	46825066	46825266	+	714.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-20638.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	6.0	7.0	6.0	68.0	31.0	10.5	6.5	16.0
Merged-chr10-121626511-4	chr10	121626395	121626595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081056)	promoter-TSS (NM_001081056)	-163.0	NM_001359618	73192.0	Mm.25042	NM_001081056	ENSMUSG00000034667	Xpot	1110004L07Rik|3110065H13Rik|AI452076|C79645|EXPORTIN-T	exportin, tRNA (nuclear export receptor for tRNAs)	protein-coding	225.0	256.5	160.0	3617.0	557.5	222.0	221.0	219.0
Merged-chr13-30769424-4	chr13	30769316	30769516	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	20183.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	33.0	41.5	18.5	194.0	54.5	25.0	37.5	31.0
Merged-chr5-21141437-4	chr5	21141347	21141547	+	967.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34832.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	25.5	19.5	24.0	370.5	38.0	18.0	16.5	20.0
Merged-chr5-28004603-4	chr5	28004510	28004710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66802.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	21.0	45.0	23.0	688.0	117.0	44.0	45.5	32.5
Merged-chr17-74442153-6	chr17	74442062	74442262	+	992.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 4 of 8)	MTA_Mm|LTR|ERVL-MaLR	16946.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	11.0	20.5	19.5	47.5	40.5	15.5	19.5	10.0
Merged-chr5-144277447-3	chr5	144277338	144277538	+	739.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040432, intron 1 of 2)	intron (NR_040432, intron 1 of 2)	377.0	NR_040432	100504231.0	Mm.441035	NR_040432	ENSMUSG00000086894	Gm15708	-	predicted gene 15708	ncRNA	8.0	10.0	6.0	118.5	7.0	0.0	6.0	5.5
Merged-chr10-127522400-4	chr10	127522265	127522465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252316)	promoter-TSS (NM_001252316)	79.0	NM_001252316	108037.0	Mm.29890	NM_028230	ENSMUSG00000025403	Shmt2	2700043D08Rik|AA408223|AA986903|SHMT	serine hydroxymethyltransferase 2 (mitochondrial)	protein-coding	12.5	24.0	12.0	196.0	61.0	11.5	8.0	5.5
Merged-chr3-108257036-4	chr3	108256918	108257118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011967)	promoter-TSS (NM_011967)	92.0	NM_011967	26442.0	Mm.208883	NM_011967	ENSMUSG00000068749	Psma5	ZETA	proteasome (prosome, macropain) subunit, alpha type 5	protein-coding	162.5	336.5	195.0	2436.0	485.5	215.5	238.0	164.5
Merged-chr17-3102542-4	chr17	3102452	3102652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12420.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	26.5	27.0	37.0	281.0	45.0	21.5	24.5	30.0
Merged-chr19-55218609-4	chr19	55218552	55218752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 12 of 20)	intron (NM_001081076, intron 12 of 20)	22584.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	54.5	88.5	66.0	811.5	188.5	69.0	52.0	39.5
Merged-chr12-79321096-4	chr12	79320997	79321197	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 5 of 10)	B4A|SINE|B4	23746.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	15.5	34.0	15.0	271.0	48.0	13.0	22.0	24.5
Merged-chr5-100509443-4	chr5	100509340	100509540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8801.0	NM_001359914	231506.0	Mm.212568	NM_172714	ENSMUSG00000035310	Lin54	AI461788	lin-54 homolog (C. elegans)	protein-coding	113.5	163.5	84.0	1141.5	281.5	110.0	130.0	103.0
Merged-chr8-70544280-4	chr8	70544180	70544380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	4605.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	212.0	288.0	179.5	2725.0	334.0	129.5	160.5	133.5
Merged-chr3-108018011-4	chr3	108017915	108018115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010358)	promoter-TSS (NM_010358)	-42.0	NM_010358	14862.0	Mm.37199	NM_010358	ENSMUSG00000058135	Gstm1	Gstb-1|Gstb1	glutathione S-transferase, mu 1	protein-coding	182.5	244.0	184.5	2686.5	328.0	95.5	171.0	115.0
Merged-chr7-141550588-4	chr7	141550474	141550674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10717.0	NM_001142681	68038.0	Mm.245355	NM_026522	ENSMUSG00000025512	Chid1	3110023E09Rik|AI841869	chitinase domain containing 1	protein-coding	49.0	90.5	75.0	631.0	68.0	28.5	31.0	16.5
Merged-chr1-37472481-4	chr1	37472373	37472573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 5 of 15)	L1M3b|LINE|L1	16132.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	42.5	69.0	41.0	685.0	73.5	27.5	35.0	40.5
Merged-chr5-21054735-4	chr5	21054641	21054841	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	intron (NM_011203, intron 1 of 17)	1170.0	NM_001356591	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	12.0	19.0	31.0	302.5	34.5	24.5	13.5	26.0
Merged-chr9-56463994-4	chr9	56463898	56464098	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025812, intron 1 of 9)	intron (NM_025812, intron 1 of 9)	45379.0	NM_025812	66867.0	Mm.150856	NM_025812	ENSMUSG00000032329	Hmg20a	1200004E06Rik|5730490E10Rik|Hmgxb1|Ibraf	high mobility group 20A	protein-coding	12.0	9.0	5.5	93.0	22.5	11.0	9.5	13.5
Merged-chr13-33079667-4	chr13	33079568	33079768	+	809.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4435.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	14.5	10.0	9.5	123.5	34.0	12.0	13.5	14.0
Merged-chr12-25054751-3	chr12	25054629	25054829	+	929.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081378, intron 31 of 31)	intron (NM_001081378, intron 31 of 31)	41363.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	0.0	0.0	2.0	15.0	87.5	15.5	37.5	14.5
Merged-chr4-155492100-2	chr4	155492000	155492200	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001160017, intron 1 of 10)	CpG	739.0	NM_001160016	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	15.0	17.0	9.0	80.0	26.0	8.5	8.5	21.5
Merged-chr2-174673750-2	chr2	174673650	174673850	+	565.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001099328, intron 3 of 4)	intron (NM_001099328, intron 3 of 4)	30216.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	4.5	1.5	11.0	22.5	13.5	6.0	11.0	7.0
Merged-chr8-120570452-4	chr8	120570312	120570512	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145896, intron 8 of 15)	intron (NM_001145896, intron 8 of 15)	18663.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	8.5	16.0	8.0	126.0	16.5	10.5	10.0	8.0
Merged-chr13-98832610-4	chr13	98832512	98832712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17163.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	147.0	216.5	164.5	2131.0	345.0	129.0	168.0	182.5
Merged-chr13-45600708-3	chr13	45600606	45600806	+	959.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 5 of 6)	ORR1F|LTR|ERVL-MaLR	93262.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	14.5	38.5	11.5	234.5	17.5	6.5	7.0	2.0
Merged-chr11-121796223-4	chr11	121796111	121796311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34007.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	81.0	119.5	84.0	1221.5	150.5	74.5	91.0	69.5
Merged-chr1-83747638-4	chr1	83747542	83747742	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEd|LINE|L1	-339442.0	NM_001356547	77629.0	Mm.154303	NM_172430	ENSMUSG00000026163	Sphkap	4930544G21Rik|A930009L15Rik|AI852220|SKIP|mKIAA1678	SPHK1 interactor, AKAP domain containing	protein-coding	6.5	5.5	13.0	190.0	32.5	7.5	11.0	19.5
Merged-chr5-36742635-4	chr5	36742501	36742701	+	850.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6078.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	13.0	17.5	6.0	216.5	29.5	1.5	8.5	12.5
Merged-chr9-59617221-4	chr9	59617121	59617321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038075)	promoter-TSS (NR_038075)	-63.0	NR_038075	67287.0	Mm.439943	NM_029922	ENSMUSG00000025237	Parp6	1700119G14Rik|2310028P13Rik|3110038K10Rik|ARTD17|C030013N01Rik|PARP-6	poly (ADP-ribose) polymerase family, member 6	protein-coding	254.5	394.0	223.5	2948.0	478.5	212.5	211.0	151.0
Merged-chr13-41552096-4	chr13	41552021	41552221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54095.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	34.5	50.5	19.5	572.5	86.0	32.5	27.5	39.0
Merged-chr19-55254680-4	chr19	55254573	55254773	+	855.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027976, intron 1 of 21)	intron (NM_027976, intron 1 of 21)	1304.0	NM_027976	433256.0	Mm.292056	NM_027976	ENSMUSG00000024981	Acsl5	1700030F05Rik|ACS2|ACS5|Facl5	acyl-CoA synthetase long-chain family member 5	protein-coding	9.5	12.5	11.0	82.5	33.5	13.5	15.5	12.5
Merged-chr6-115803626-3	chr6	115803534	115803734	+	811.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025958, intron 14 of 14)	intron (NM_025958, intron 14 of 14)	4469.0	NR_028546	100217451.0	Mm.484708	NR_028546	ENSMUSG00000064563	Snora7a	MBI-141	small nucleolar RNA, H/ACA box 7A	snoRNA	8.5	8.5	6.5	61.0	15.5	1.0	11.0	10.5
Merged-chr6-91510447-4	chr6	91510324	91510524	+	802.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009531, intron 2 of 15)	intron (NM_009531, intron 2 of 15)	5464.0	NM_009531	22591.0	Mm.2806	NM_009531	ENSMUSG00000030094	Xpc	-	xeroderma pigmentosum, complementation group C	protein-coding	7.0	5.0	8.5	105.5	16.5	4.0	12.0	15.5
Merged-chr13-59970758-1	chr13	59970658	59970858	+	580.0	f0_balb.idr	Intergenic	Intergenic	-58953.0	NR_046142	328263.0	Mm.123405	NR_046142	ENSMUSG00000114531	A530065N20Rik	A530065N20	RIKEN cDNA A530046M15 gene	ncRNA	4.5	9.5	8.0	90.0	1.0	4.5	1.0	3.0
Merged-chr12-71831734-5	chr12	71831637	71831837	+	907.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 1 of 25)	CpG	669.0	NM_172464	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	10.5	14.0	14.5	150.0	28.0	9.0	16.0	24.5
Merged-chr17-35210809-2	chr17	35210709	35210909	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5458.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	3.0	6.0	4.5	28.5	13.5	6.5	13.0	6.5
Merged-chr7-44344842-4	chr7	44344757	44344957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034115, intron 21 of 24)	intron (NM_001034115, intron 21 of 24)	30173.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	21.5	44.5	45.5	680.5	72.5	43.0	45.0	42.0
Merged-chr7-90213648-1	chr7	90213548	90213748	+	742.0	f0_c57.idr	Intergenic	Intergenic	51784.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	4.0	2.5	4.5	161.0	14.0	11.0	7.0	12.5
Merged-chr19-9952528-4	chr19	9952421	9952621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-28079.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	73.0	95.0	57.0	858.0	158.5	63.0	75.0	80.5
Merged-chr16-20716485-8	chr16	20716388	20716588	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009900, exon 1 of 24)	5' UTR (NM_009900, exon 1 of 24)	148.0	NM_009900	12724.0	Mm.177761	NM_009900	ENSMUSG00000022843	Clcn2	AL118368|ClC-2|Clc2|nmf240	chloride channel, voltage-sensitive 2	protein-coding	1.0	1.0	1.5	113.0	16.0	10.5	5.0	21.0
Merged-chr2-166018950-4	chr2	166018831	166019031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	26294.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	19.0	28.0	25.5	305.5	63.0	7.0	32.0	16.0
Merged-chr6-113677571-4	chr6	113677469	113677669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 7 of 11)	intron (NM_001113553, intron 7 of 11)	-19481.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	139.5	197.0	120.0	2417.5	196.5	95.5	116.0	118.5
Merged-chr2-160047864-4	chr2	160047773	160047973	+	869.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	31220.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	16.5	23.0	9.0	123.5	28.0	18.0	14.5	10.0
Merged-chr7-128298047-4	chr7	128297923	128298123	+	876.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145590, exon 1 of 13)	exon (NM_145590, exon 1 of 13)	108.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	15.5	11.0	17.0	172.5	21.0	21.5	15.5	12.5
Merged-chr10-87732200-4	chr10	87732102	87732302	+	952.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126063.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	13.0	14.5	18.0	357.5	43.5	11.5	27.0	22.0
Merged-chr10-71239750-4	chr10	71239628	71239828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1684.0	NM_009360	21780.0	Mm.229292	NM_009360	ENSMUSG00000003923	Tfam	AI661103|Hmgts|mtTFA|tsHMG	transcription factor A, mitochondrial	protein-coding	24.0	37.5	25.0	294.0	69.5	7.5	20.5	10.0
Merged-chr8-68092881-4	chr8	68092780	68092980	+	754.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118306.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	9.5	6.5	2.5	226.0	27.0	10.5	17.5	10.0
Merged-chr16-4782683-4	chr16	4782592	4782792	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358082, intron 1 of 5)	intron (NM_001358082, intron 1 of 5)	6770.0	NM_001358078	66626.0	Mm.157648	NM_025670	ENSMUSG00000004071	Cdip1	2700048O17Rik|5730403B10Rik|AU018521|AW742692|CDIP	cell death inducing Trp53 target 1	protein-coding	33.0	38.0	30.0	401.0	103.5	24.5	24.0	21.0
Merged-chr6-115697923-4	chr6	115697807	115698007	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21272.0	NM_029780	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	30.0	35.5	15.5	271.5	65.5	18.0	14.0	23.0
Merged-chr14-61310567-4	chr14	61310467	61310667	+	950.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177337, intron 1 of 1)	intron (NM_177337, intron 1 of 1)	814.0	NM_177337	219144.0	Mm.206566	NM_177337	ENSMUSG00000043157	Arl11	ARLTS1|C730007L20Rik	ADP-ribosylation factor-like 11	protein-coding	35.0	45.5	27.0	555.5	75.5	13.0	14.0	29.5
Merged-chr1-152560977-4	chr1	152560878	152561078	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 4 of 17)	intron (NM_016846, intron 4 of 17)	64239.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	8.0	30.5	6.5	85.0	42.5	19.5	9.5	7.5
Merged-chr5-113636034-4	chr5	113635933	113636133	+	989.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	7570.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	33.0	85.0	48.5	495.0	85.0	37.5	36.5	12.5
Merged-chr16-92697930-3	chr16	92697961	92698161	+	925.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009821)	promoter-TSS (NM_009821)	-732.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	3.5	12.5	2.0	84.5	17.5	8.0	6.5	12.0
Merged-chr18-46149707-4	chr18	46149606	46149806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49112.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	44.5	94.0	32.0	259.0	186.5	68.0	43.0	51.0
Merged-chr8-77442630-4	chr8	77442512	77442712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 3 of 22)	intron (NM_030113, intron 3 of 22)	-74444.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	89.0	158.0	110.5	1444.5	253.0	81.5	91.5	90.0
Merged-chr15-98708162-4	chr15	98708073	98708273	+	941.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153518)	promoter-TSS (NM_153518)	-54.0	NM_153518	105833.0	Mm.26205	NM_153518	ENSMUSG00000003354	Ccdc65	4933417K04Rik|AI428139|AU020178|NYD-SP28	coiled-coil domain containing 65	protein-coding	14.0	35.5	4.5	150.0	60.5	16.5	18.5	13.5
Merged-chr7-68795807-3	chr7	68795710	68795910	+	852.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46572.0	NM_025549	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	14.5	8.0	25.5	225.0	3.0	3.0	5.0	9.0
Merged-chr10-85829436-1	chr10	85829336	85829536	+	583.0	f0_balb.idr	Intergenic	CpG	-42395.0	NM_133993	103136.0	Mm.18834	NM_133993	ENSMUSG00000001785	Pwp1	2310058A11Rik|2610205J09Rik|AI098170|AL022879|AV083409|AW550690	PWP1 homolog, endonuclein	protein-coding	6.5	11.0	6.0	168.5	4.5	1.0	1.5	0.5
Merged-chr7-75501001-4	chr7	75500912	75501112	+	952.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 1 of 36)	MTE2a|LTR|ERVL-MaLR	45478.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	22.0	39.0	16.5	352.0	55.5	14.0	12.0	13.5
Merged-chr18-55389827-4	chr18	55389722	55389922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-397231.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	72.0	127.0	61.0	979.5	169.0	93.5	99.0	91.5
Merged-chr17-56609846-4	chr17	56609771	56609971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153152)	promoter-TSS (NM_153152)	-100.0	NM_153152	224904.0	Mm.34002	NM_153152	ENSMUSG00000049760	2410015M20Rik	Mic13|QIL1|sr104	RIKEN cDNA 2410015M20 gene	protein-coding	98.5	145.0	102.5	1375.5	251.5	91.0	139.0	103.0
Merged-chr7-35333985-4	chr7	35333882	35334082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027897)	promoter-TSS (NM_027897)	-255.0	NM_027897	52428.0	Mm.286600	NM_027897	ENSMUSG00000030494	Rhpn2	1300002E07Rik|AA536890|C85860|D7Ertd784e	rhophilin, Rho GTPase binding protein 2	protein-coding	99.5	155.5	78.0	1713.5	168.5	47.0	74.5	63.5
Merged-chr5-74195196-4	chr5	74195103	74195303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026878)	promoter-TSS (NM_026878)	-123.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	103.0	106.0	95.5	1659.0	91.5	32.5	70.0	43.5
Merged-chr7-101947341-4	chr7	101947231	101947431	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-13474.0	NM_001162974	69358.0	Mm.214841	NM_027053	ENSMUSG00000064307	Lrrc51	1700008D07Rik|Lrtomt	leucine rich repeat containing 51	protein-coding	11.0	4.0	5.5	136.5	43.0	5.5	12.5	8.5
Merged-chr8-111313053-3	chr8	111312964	111313164	+	676.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029005, intron 10 of 10)	intron (NM_029005, intron 10 of 10)	-12842.0	NM_146218	234736.0	Mm.334816	NM_146218	ENSMUSG00000033596	Rfwd3	BC027246	ring finger and WD repeat domain 3	protein-coding	7.5	10.5	8.0	80.5	8.0	1.5	6.0	5.5
Merged-chr7-30957511-4	chr7	30957384	30957584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011680)	promoter-TSS (NM_011680)	-681.0	NM_011680	22282.0	Mm.322453	NM_011680	ENSMUSG00000058239	Usf2	Usf-2|bHLHb12	upstream transcription factor 2	protein-coding	51.0	101.0	95.0	723.0	133.5	62.0	56.5	57.0
Merged-chr9-65542399-4	chr9	65542278	65542478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	37709.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	163.5	308.5	172.0	2313.5	434.0	171.0	177.0	187.5
Merged-chr11-69070796-4	chr11	69070668	69070868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025838)	promoter-TSS (NM_025838)	-41.0	NM_025838	66910.0	Mm.33964	NM_025838	ENSMUSG00000020895	Tmem107	1110004B13Rik|2810049P21Rik	transmembrane protein 107	protein-coding	44.0	65.5	35.0	408.0	143.0	68.5	47.5	73.0
Merged-chr4-53109458-1	chr4	53109358	53109558	+	772.0	f0_balb.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	50437.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	11.5	8.5	7.5	172.0	23.0	4.5	3.5	4.0
Merged-chr3-100440169-4	chr3	100440079	100440279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13774.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	64.5	46.5	66.0	1687.0	244.0	64.0	110.5	99.5
Merged-chr13-5920573-3	chr13	5920464	5920664	+	863.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	59075.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	4.5	8.0	4.5	196.5	42.0	3.5	9.0	6.5
Merged-chr3-101604713-4	chr3	101604602	101604802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144900)	promoter-TSS (NM_144900)	5.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	177.5	331.0	253.0	3362.5	521.0	187.0	273.0	202.5
Merged-chr17-50079031-4	chr17	50078945	50079145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 4 of 9)	intron (NM_181397, intron 4 of 9)	111452.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	25.5	36.0	19.5	594.0	65.5	36.5	31.0	26.0
Merged-chr18-52465643-4	chr18	52465561	52465761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026040)	promoter-TSS (NM_026040)	-32.0	NM_026040	67222.0	Mm.100617	NM_026040	ENSMUSG00000024528	Srfbp1	2810036K01Rik|p49/STRAP	serum response factor binding protein 1	protein-coding	215.0	408.5	241.5	3254.5	677.0	248.0	258.5	190.0
Merged-chr9-106367843-4	chr9	106367741	106367941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153459)	promoter-TSS (NM_153459)	-791.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	201.5	342.5	182.5	2972.5	622.5	233.0	297.0	213.0
Merged-chr1-183294812-4	chr1	183294696	183294896	+	929.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151660, exon 2 of 13)	non-coding (NR_151660, exon 2 of 13)	-2264.0	NM_181732	108909.0	Mm.290502	NM_145626	ENSMUSG00000042901	Aida	2610208M17Rik|BC004835	axin interactor, dorsalization associated	protein-coding	14.5	38.0	22.5	411.0	26.0	14.5	33.0	26.0
Merged-chr3-89089990-4	chr3	89089897	89090097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083808)	promoter-TSS (NM_001083808)	34.0	NM_001083808	72296.0	Mm.27687	NM_028188	ENSMUSG00000041263	Rusc1	2210403N08Rik|AA408288|NESCA	RUN and SH3 domain containing 1	protein-coding	76.0	83.0	74.0	978.5	150.0	82.0	72.0	67.0
Merged-chr19-45673194-4	chr19	45673134	45673334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13041.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	25.5	52.5	36.0	668.0	77.5	24.0	22.5	22.5
Merged-chr10-46012127-4	chr10	46012046	46012246	+	889.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	204442.0	NR_040624	320363.0	Mm.123343	NR_040624	ENSMUSG00000110874	D030045P18Rik	-	RIKEN cDNA D030045P18 gene	ncRNA	5.5	6.0	7.5	136.0	26.5	9.0	10.5	8.5
Merged-chr3-96501995-2	chr3	96501895	96502095	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23190.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	3.0	10.0	10.0	79.0	20.0	10.5	9.5	10.0
Merged-chr5-68033586-4	chr5	68033460	68033660	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001018019, intron 1 of 3)	intron (NM_001018019, intron 1 of 3)	1725.0	NM_001018019	433899.0	Mm.332422	NM_001018019	ENSMUSG00000068082	Grxcr1	Tg(Eno2-Gabrb3)0370Brll|pi|tde	glutaredoxin, cysteine rich 1	protein-coding	5.0	11.5	26.5	330.5	57.5	6.0	32.5	46.0
Merged-chr4-132806384-4	chr4	132806286	132806486	+	840.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR24|LTR|ERV1	-10022.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	15.0	23.5	1.0	100.5	61.5	14.0	14.5	14.0
Merged-chr4-3685393-4	chr4	3685268	3685468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	ORR1F|LTR|ERVL-MaLR	7247.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	119.5	240.0	117.5	1709.5	371.0	142.0	139.0	103.5
Merged-chr15-101134533-4	chr15	101134433	101134633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277255, intron 3 of 11)	intron (NM_001277255, intron 3 of 11)	6011.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	79.5	104.5	53.5	1065.5	166.5	62.5	77.0	92.0
Merged-chr18-46741682-7	chr18	46741612	46741812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303015)	promoter-TSS (NM_001303015)	-133.0	NM_026217	67526.0	Mm.9852	NM_026217	ENSMUSG00000032905	Atg12	4931423H11Rik|A330058M13Rik|Apg12l|Atg12l	autophagy related 12	protein-coding	55.0	95.5	77.5	728.5	105.0	96.5	57.5	68.5
Merged-chr10-61452331-3	chr10	61452255	61452455	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010124, intron 1 of 2)	CpG	314.0	NM_010124	13688.0	Mm.259516	NM_010124	ENSMUSG00000020091	Eif4ebp2	2810011I19Rik|4E-BP2|AA792569|BC010348|PHAS-II	eukaryotic translation initiation factor 4E binding protein 2	protein-coding	21.5	19.5	14.0	257.0	32.0	22.0	18.0	20.5
Merged-chr19-8713026-4	chr19	8712940	8713140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161413, intron 2 of 9)	intron (NM_001161413, intron 2 of 9)	857.0	NM_008577	17254.0	Mm.4114	NM_008577	ENSMUSG00000010095	Slc3a2	4F2|4F2HC|AI314110|Cd98|Ly-10|Ly-m10|Ly10|Mdu1|Mgp-2hc|NACAE	solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2	protein-coding	91.5	141.0	71.5	1122.0	303.5	94.5	97.5	77.5
Merged-chr2-4446786-4	chr2	4446672	4446872	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	45796.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	17.0	28.5	25.0	416.5	61.5	20.0	33.0	17.0
Merged-chr2-62648808-4	chr2	62648706	62648906	+	928.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2551.0	NM_001164477	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	10.0	16.5	10.5	167.5	41.0	12.5	14.0	14.0
Merged-chr14-79487469-5	chr14	79487395	79487595	+	799.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	intron (NM_007920, intron 1 of 8)	-6227.0	NM_018765	22380.0	Mm.476813	NM_018765	ENSMUSG00000022023	Wbp4	AW545037|BB101031|FBP21	WW domain binding protein 4	protein-coding	6.0	12.0	5.5	137.5	18.5	3.0	3.0	6.0
Merged-chr17-24173602-4	chr17	24173505	24173705	+	830.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3927.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	8.0	23.0	8.0	31.5	37.5	9.5	13.0	17.5
Merged-chr2-104740532-6	chr2	104740443	104740643	+	757.922241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144804, intron 1 of 8)	B3|SINE|B2	2258.0	NM_144804	211896.0	Mm.288805	NM_144804	ENSMUSG00000027173	Depdc7	AV216087	DEP domain containing 7	protein-coding	7.5	16.0	10.5	115.5	13.0	2.5	4.0	7.0
Merged-chr18-63681348-2	chr18	63681248	63681448	+	816.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016792, intron 2 of 7)	intron (NM_016792, intron 2 of 7)	11011.0	NM_016792	53382.0	Mm.19169	NM_016792	ENSMUSG00000024583	Txnl1	32kDa|TRP32|Txnl	thioredoxin-like 1	protein-coding	5.5	16.5	0.0	44.5	27.0	4.5	7.5	7.0
Merged-chr6-91576106-3	chr6	91575997	91576197	+	840.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60062.0	NM_026309	67678.0	Mm.246693	NM_026309	ENSMUSG00000034192	Lsm3	1010001J12Rik|2610005D18Rik|6030401D18Rik|SMX4|USS2	LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	9.5	9.0	4.5	81.0	23.0	7.5	8.0	8.0
Merged-chr16-44120309-4	chr16	44120203	44120403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	18956.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	28.5	32.5	33.0	419.5	37.0	20.0	17.5	22.0
Merged-chr9-65579101-4	chr9	65578982	65579182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 1 of 5)	MIR3|SINE|MIR	1005.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	143.0	193.0	165.5	2279.0	275.5	85.5	186.0	117.5
Merged-chr8-91344862-4	chr8	91344763	91344963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 1 of 8)	intron (NM_011936, intron 1 of 8)	31338.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	40.0	60.0	27.0	554.5	64.5	32.0	38.0	34.0
Merged-chr11-3166779-4	chr11	3166681	3166881	+	988.5	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 7 of 32)	B3|SINE|B2	26682.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	29.5	18.5	28.0	416.0	0.0	0.0	0.0	0.0
Merged-chr15-102517195-4	chr15	102517072	102517272	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009582)	promoter-TSS (NM_009582)	-168.0	NM_009582	26404.0	Mm.172897	NM_009582	ENSMUSG00000023050	Map3k12	DLK|MUK|Zpk	mitogen-activated protein kinase kinase kinase 12	protein-coding	9.5	18.0	11.5	285.0	33.0	18.5	14.0	27.0
Merged-chr10-99302264-4	chr10	99302138	99302338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39007.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	96.5	151.0	141.0	2216.5	272.0	104.5	123.0	78.0
Merged-chr11-3179733-4	chr11	3179662	3179862	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	13701.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	26.5	11.0	21.5	286.0	3.5	1.0	0.0	2.5
Merged-chr5-103817963-4	chr5	103817853	103818053	+	873.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133919, intron 6 of 19)	intron (NM_133919, intron 6 of 19)	63380.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	14.5	27.0	7.0	100.0	44.0	20.0	13.0	16.5
Merged-chr10-22747156-4	chr10	22747052	22747252	+	913.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15705.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	18.0	39.5	27.0	600.0	18.5	9.0	15.0	20.0
Merged-chr4-132422553-4	chr4	132422440	132422640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175306)	promoter-TSS (NM_175306)	-94.0	NM_175306	100169.0	Mm.158361	NM_175306	ENSMUSG00000066043	Phactr4	3110001B12Rik|AI527228|AW495572|C330013F19Rik|N28169|mKIAA4120	phosphatase and actin regulator 4	protein-coding	145.0	218.0	118.5	1669.5	366.5	134.5	146.0	114.0
Merged-chr15-76871373-3	chr15	76871251	76871451	+	971.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007568)	promoter-TSS (NM_001007568)	84.0	NM_001007568	71591.0	Mm.38195	NM_001007568	ENSMUSG00000022526	Zfp251	9130001M19Rik|AV339307	zinc finger protein 251	protein-coding	10.5	18.5	6.0	124.0	5.5	7.5	4.5	11.5
Merged-chr17-33920400-4	chr17	33920286	33920486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009318, exon 3 of 8)	exon (NM_009318, exon 3 of 8)	908.0	NM_009318	21356.0	Mm.154457	NM_009318	ENSMUSG00000024308	Tapbp	D17Wsu91e|TPN	TAP binding protein	protein-coding	46.0	53.0	39.0	264.5	92.0	56.5	48.5	35.0
Merged-chr13-110395867-4	chr13	110395771	110395971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152804, intron 1 of 13)	intron (NM_152804, intron 1 of 13)	827.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	28.0	34.0	45.0	714.0	69.0	16.0	44.0	49.0
Merged-chr9-89202361-4	chr9	89202294	89202494	+	931.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007534, intron 1 of 1)	intron (NM_007534, intron 1 of 1)	3121.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	12.5	21.0	16.5	52.5	33.0	16.5	13.5	15.5
Merged-chr3-41587149-2	chr3	41587053	41587253	+	801.974976	f0_balb.idr|f0_c57.idr	intron (NM_001130184, intron 2 of 10)	intron (NM_001130184, intron 2 of 10)	22273.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	7.5	7.5	9.5	136.5	29.0	10.0	12.5	11.5
Merged-chr12-36217115-4	chr12	36216989	36217189	+	762.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361098, intron 5 of 8)	intron (NM_001361098, intron 5 of 8)	1129.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	7.0	12.0	7.0	158.5	19.5	9.0	7.5	10.5
Merged-chr12-111433186-4	chr12	111433111	111433311	+	910.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9450.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	14.5	17.0	6.5	162.5	29.0	21.5	18.5	11.0
Merged-chr9-118589468-4	chr9	118589341	118589541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17268.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	22.0	20.5	17.5	251.5	44.5	18.5	21.5	25.0
Merged-chr13-35209775-4	chr13	35209661	35209861	+	932.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_126478)	TTS (NR_126478)	2287.0	NR_126478	75543.0	Mm.489052	NR_126478	ENSMUSG00000113770	1700019C18Rik	-	RIKEN cDNA 1700019C18 gene	ncRNA	25.0	25.5	23.5	316.0	35.5	12.0	13.5	15.5
Merged-chr10-39240039-3	chr10	39239932	39240132	+	775.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76238.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	9.5	14.0	2.0	120.5	14.5	7.0	6.5	7.5
Merged-chr2-71390122-4	chr2	71390005	71390205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026115, intron 2 of 10)	intron (NM_026115, intron 2 of 10)	845.0	NM_026115	107435.0	Mm.272472	NM_026115	ENSMUSG00000027018	Hat1	2410071B14Rik|AA536933|Hat-1|KAT1	histone aminotransferase 1	protein-coding	89.0	138.5	62.0	1217.5	215.5	80.5	79.0	98.0
Merged-chr11-114226775-4	chr11	114226676	114226876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28518.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	33.0	37.5	37.5	432.0	213.0	43.5	80.5	119.5
Merged-chr12-84190307-3	chr12	84190230	84190430	+	895.1333619999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	3685.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	8.5	10.0	3.0	54.0	22.0	7.0	7.0	15.0
Merged-chr15-99126479-7	chr15	99126362	99126562	+	979.761902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139140)	promoter-TSS (NM_139140)	-383.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	15.5	19.5	9.5	113.0	42.0	27.0	11.0	24.0
Merged-chr7-45458383-7	chr7	45458333	45458533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010240, intron 3 of 3)	intron (NM_010240, intron 3 of 3)	1453.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	20.0	36.5	13.5	232.5	60.0	25.0	33.5	35.5
Merged-chr12-99965172-4	chr12	99965072	99965272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164427, intron 1 of 2)	intron (NM_001164427, intron 1 of 2)	673.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	28.0	25.0	38.5	526.5	59.0	10.0	38.0	28.0
Merged-chr10-122047347-3	chr10	122047149	122047349	+	937.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242411)	promoter-TSS (NM_001242411)	66.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	5.0	14.5	12.0	123.5	15.5	12.0	7.0	12.5
Merged-chr13-23446801-4	chr13	23446686	23446886	+	860.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15769.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	12.5	19.5	14.0	208.0	19.5	11.0	5.5	12.0
Merged-chr15-66297630-3	chr15	66297525	66297725	+	707.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11401.0	NM_152923	110862.0	Mm.255585	NM_152923	ENSMUSG00000056258	Kcnq3	-	potassium voltage-gated channel, subfamily Q, member 3	protein-coding	11.0	3.0	6.5	159.5	9.0	6.5	8.0	12.5
Merged-chr6-119377782-4	chr6	119377674	119377874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197985, intron 1 of 7)	ORR1E|LTR|ERVL-MaLR	10960.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	40.0	37.0	39.0	584.0	136.5	38.0	42.5	35.0
Merged-chr16-17125161-4	chr16	17125007	17125207	+	939.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358255)	promoter-TSS (NM_001358255)	95.0	NM_183287	70458.0	Mm.234165	NM_183287	ENSMUSG00000049916	2610318N02Rik	AL033325	RIKEN cDNA 2610318N02 gene	protein-coding	24.5	24.0	20.0	309.5	29.0	6.0	12.0	13.0
Merged-chr19-10304989-4	chr19	10304896	10305096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198114)	promoter-TSS (NM_198114)	-119.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	65.5	101.5	50.5	739.0	130.0	70.0	54.0	68.5
Merged-chr10-8505028-4	chr10	8505016	8505216	+	916.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 1 of 7)	intron (NM_177387, intron 1 of 7)	13709.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	9.0	5.5	6.5	166.0	9.0	3.0	7.5	5.0
Merged-chr12-76553189-4	chr12	76553081	76553281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	-5256.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	81.5	89.5	102.5	1271.0	111.5	52.5	59.5	62.5
Merged-chr2-155517922-4	chr2	155517826	155518026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019811)	promoter-TSS (NM_019811)	-117.0	NM_019811	60525.0	Mm.255026	NM_019811	ENSMUSG00000027605	Acss2	1110017C11Rik|ACAS|Acas1|Acas2|AceCS1|Acs1	acyl-CoA synthetase short-chain family member 2	protein-coding	260.5	464.0	238.0	3100.0	622.5	273.5	300.0	234.0
Merged-chr18-10706807-4	chr18	10706706	10706906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045379)	promoter-TSS (NR_045379)	-54.0	NR_045379	75370.0	Mm.159511	NR_045379	ENSMUSG00000097387	4930563E18Rik	-	RIKEN cDNA 4930563E18 gene	ncRNA	39.0	38.0	37.0	688.0	59.5	22.0	36.0	22.0
Merged-chr19-55781862-4	chr19	55781772	55781972	+	815.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	40062.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	4.5	7.5	10.5	153.0	25.5	6.0	12.0	7.0
Merged-chr19-6298883-2	chr19	6298783	6298983	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010119, exon 5 of 5)	3' UTR (NM_010119, exon 5 of 5)	-7574.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	4.0	14.5	1.5	16.5	9.5	5.5	5.5	14.0
Merged-chr16-31290965-4	chr16	31290901	31291101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15724.0	NM_025800	66849.0	Mm.291593	NM_025800	ENSMUSG00000047714	Ppp1r2	0610025N14Rik|2310007G06Rik|4930440J04Rik|5430408E15Rik|D16Ertd248e|I-2|IPP-2	protein phosphatase 1, regulatory (inhibitor) subunit 2	protein-coding	42.0	74.0	40.5	640.5	98.0	43.5	28.5	36.0
Merged-chr7-27454918-4	chr7	27454778	27454978	+	947.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290525, intron 1 of 4)	L1MB8|LINE|L1	2460.0	NM_001290525	233016.0	Mm.24021	NM_144923	ENSMUSG00000040466	Blvrb	-	biliverdin reductase B (flavin reductase (NADPH))	protein-coding	17.5	7.5	3.0	154.5	22.0	9.5	13.0	19.0
Merged-chr2-121442646-4	chr2	121442651	121442851	+	855.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145973)	promoter-TSS (NM_145973)	-150.0	NM_145973	269344.0	Mm.330522	NM_145973	ENSMUSG00000027246	Ell3	A930015D22Rik	elongation factor RNA polymerase II-like 3	protein-coding	3.0	6.5	2.0	74.5	16.0	12.0	4.5	9.0
Merged-chr8-106443786-3	chr8	106443685	106443885	+	667.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28446.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	13.0	15.5	7.5	114.0	7.5	4.5	6.5	4.5
Merged-chr16-77284416-3	chr16	77284314	77284514	+	865.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44914.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	6.0	12.5	7.0	248.5	10.0	2.0	12.5	3.0
Merged-chr7-102229869-4	chr7	102229759	102229959	+	978.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111937, intron 2 of 5)	intron (NR_111937, intron 2 of 5)	6831.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	17.5	48.0	33.0	283.5	62.5	19.0	16.5	22.5
Merged-chr5-142629478-4	chr5	142629396	142629596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178398)	promoter-TSS (NM_178398)	-88.0	NM_178398	74781.0	Mm.29432	NM_178398	ENSMUSG00000029578	Wipi2	1110018O08Rik|2510001I10Rik	WD repeat domain, phosphoinositide interacting 2	protein-coding	112.5	137.0	78.5	1134.0	300.0	98.5	106.0	90.5
Merged-chr9-106891318-3	chr9	106891162	106891362	+	874.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_029103, intron 1 of 3)	intron (NM_029103, intron 1 of 3)	676.0	NM_029103	74840.0	Mm.29778	NM_029103	ENSMUSG00000032575	Manf	3230402M22Rik|AA407711|AA408789|AA673178|Armet|D17914|D18Mgi17	mesencephalic astrocyte-derived neurotrophic factor	protein-coding	4.5	3.0	11.0	75.0	25.5	7.5	8.0	17.5
Merged-chr10-59230472-2	chr10	59230372	59230572	+	836.083313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8550.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	3.0	25.5	1.5	32.0	23.0	18.0	5.5	7.0
Merged-chr15-98928742-4	chr15	98928654	98928854	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GCTTG)n|Simple_repeat|Simple_repeat	5636.0	NM_011654	22143.0	Mm.392113	NM_011654	ENSMUSG00000023004	Tuba1b	Tuba2	tubulin, alpha 1B	protein-coding	25.0	28.5	8.0	225.0	64.0	12.5	20.0	25.0
Merged-chr3-144561755-4	chr3	144561665	144561865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355234, intron 1 of 6)	MTE2b|LTR|ERVL-MaLR	8451.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	18.5	27.5	30.5	722.0	81.0	15.5	41.0	40.0
Merged-chr1-156471825-4	chr1	156471762	156471962	+	892.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	intron (NM_009230, intron 1 of 15)	2466.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	14.0	11.0	14.0	115.0	23.5	9.5	16.0	18.5
Merged-chr2-118256801-5	chr2	118256702	118256902	+	999.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027759, exon 1 of 11)	5' UTR (NM_027759, exon 1 of 11)	164.0	NM_027759	71313.0	Mm.85046	NM_027759	ENSMUSG00000027344	Fsip1	1700012M13Rik|4933432K11Rik	fibrous sheath-interacting protein 1	protein-coding	16.0	25.5	19.0	189.5	63.5	24.5	30.0	16.5
Merged-chr18-69586213-4	chr18	69586113	69586313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	240053.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	45.5	29.5	24.0	723.5	90.5	35.5	54.0	39.5
Merged-chr4-155601605-7	chr4	155601509	155601709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177186, exon 1 of 9)	5' UTR (NM_177186, exon 1 of 9)	193.0	NM_177186	320541.0	Mm.306018	NM_177186	ENSMUSG00000042202	Slc35e2	A530082C11Rik|AI957035	solute carrier family 35, member E2	protein-coding	44.5	96.0	57.0	775.5	173.5	99.5	73.5	88.0
Merged-chr13-91224662-4	chr13	91224589	91224789	+	986.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025770)	promoter-TSS (NM_025770)	-702.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	45.0	68.0	26.5	404.0	107.5	31.5	32.0	20.5
Merged-chr1-154105006-4	chr1	154104914	154105114	+	931.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-96173.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	31.0	42.0	18.0	347.5	40.0	4.5	10.5	20.5
Merged-chr12-87393575-4	chr12	87393479	87393679	+	883.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5224.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	6.0	26.0	11.0	147.0	31.5	8.0	13.0	8.0
Merged-chr15-90322876-4	chr15	90322745	90322945	+	873.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30865.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	21.5	17.0	8.5	220.0	18.5	5.0	11.5	1.5
Merged-chr1-120100715-3	chr1	120100619	120100819	+	659.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20200.0	NM_001037999	13167.0	Mm.2785	NM_007830	ENSMUSG00000026385	Dbi	ACBD1|Acbp|EP|endozepine	diazepam binding inhibitor	protein-coding	3.5	11.0	4.5	156.0	8.5	9.0	4.5	6.5
Merged-chr6-83632061-4	chr6	83631965	83632165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24051.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	144.5	125.0	232.5	3280.5	240.5	62.5	139.0	154.0
Merged-chr15-98830130-2	chr15	98830030	98830230	+	764.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_016781, intron 1 of 11)	intron (NM_016781, intron 1 of 11)	1378.0	NM_016781	19082.0	Mm.6670	NM_016781	ENSMUSG00000067713	Prkag1	AA571379|BB036179|Prkaac	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	protein-coding	5.0	6.0	5.5	17.5	8.0	0.0	0.5	2.0
Merged-chr4-99200889-2	chr4	99200783	99200983	+	920.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 1 of 10)	MTD|LTR|ERVL-MaLR	6736.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	3.0	3.0	2.5	57.5	45.5	8.5	8.0	8.0
Merged-chr4-141765215-3	chr4	141765127	141765327	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172338, intron 13 of 14)	intron (NM_172338, intron 13 of 14)	18552.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	53.0	54.0	21.5	661.5	4.5	0.5	0.0	4.5
Merged-chr17-88440593-4	chr17	88440514	88440714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355743)	promoter-TSS (NM_001355743)	-90.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	136.0	167.5	94.0	1676.0	354.0	122.5	181.5	130.0
Merged-chr1-65111151-4	chr1	65111013	65111213	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175293, intron 5 of 7)	RLTR33|LTR|ERVK	-7750.0	NM_007774	12964.0	Mm.26904	NM_007774	ENSMUSG00000044429	Cryga	Cryg-4|DGcry-4	crystallin, gamma A	protein-coding	8.0	11.5	6.0	103.0	30.5	11.0	7.5	8.5
Merged-chr17-26237187-4	chr17	26237105	26237305	+	971.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	7037.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	24.0	28.0	12.0	507.5	59.5	18.0	17.0	30.0
Merged-chr12-86740229-4	chr12	86740137	86740337	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195767, intron 3 of 14)	B3A|SINE|B2	5868.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	15.5	22.5	10.5	321.5	63.0	11.0	18.5	24.0
Merged-chr8-95349206-4	chr8	95349100	95349300	+	893.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3096.0	NM_008609	17388.0	Mm.217116	NM_008609	ENSMUSG00000031790	Mmp15	AI503551|MT-MMP 2|MT2-MMP	matrix metallopeptidase 15	protein-coding	20.5	13.5	30.5	438.0	24.5	6.0	9.5	16.0
Merged-chr11-60769622-4	chr11	60769530	60769730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009410, intron 1 of 18)	MTA_Mm|LTR|ERVL-MaLR	7735.0	NM_009410	21975.0	Mm.10708	NM_009410	ENSMUSG00000002814	Top3a	-	topoisomerase (DNA) III alpha	protein-coding	112.5	143.5	121.0	633.5	230.0	65.5	93.0	65.5
Merged-chr8-46305890-2	chr8	46305790	46305990	+	894.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11219.0	NM_173789	234219.0	Mm.145631	NM_173789	ENSMUSG00000047171	Helt	A830086M02|Hesl|Heslike|Mgn|megane	helt bHLH transcription factor	protein-coding	7.5	8.0	1.0	78.0	13.5	5.5	7.0	11.5
Merged-chr16-8869978-2	chr16	8869878	8870078	+	669.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39878.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	8.0	5.0	6.5	61.5	10.0	3.5	9.5	3.5
Merged-chr9-58537978-4	chr9	58537870	58538070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133983, intron 1 of 6)	(A)n|Simple_repeat|Simple_repeat	2970.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	22.5	33.0	28.0	268.5	74.0	26.5	28.0	28.0
Merged-chr8-70805075-4	chr8	70804979	70805179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3370.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	56.5	92.0	42.0	741.5	190.5	71.0	94.0	46.5
Merged-chr1-95667677-4	chr1	95667577	95667777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009183)	promoter-TSS (NM_009183)	-83.0	NM_001159745	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	128.0	146.5	113.0	2455.0	375.5	111.5	203.0	116.5
Merged-chr2-68907840-4	chr2	68907759	68907959	+	947.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	L1MB3|LINE|L1	46418.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	20.5	26.5	14.0	389.5	37.0	14.5	9.0	14.5
Merged-chr12-26425272-3	chr12	26425223	26425423	+	927.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-10061.0	NM_080563	108089.0	Mm.214932	NM_080563	ENSMUSG00000020642	Rnf144a	Rnf144|UIP4|Ubce7ip4	ring finger protein 144A	protein-coding	14.5	29.0	8.0	136.5	9.0	3.0	3.0	5.0
Merged-chr9-7345680-4	chr9	7345584	7345784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001320077, intron 1 of 10)	intron (NM_001320077, intron 1 of 10)	1287.0	NM_001320077	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	65.5	63.5	56.5	1158.0	121.0	34.0	56.5	54.0
Merged-chr1-39368384-2	chr1	39368284	39368484	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252219, intron 2 of 4)	CpG	533.0	NM_001252218	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	16.5	15.0	15.0	136.5	39.0	17.0	6.5	15.0
Merged-chr4-148082491-3	chr4	148082342	148082542	+	891.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009642, intron 2 of 4)	intron (NM_009642, intron 2 of 4)	5622.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	14.5	5.5	4.5	162.0	16.0	5.0	7.0	7.0
Merged-chr2-73038586-4	chr2	73038498	73038698	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58152.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	24.5	23.0	31.5	349.5	54.0	12.5	49.0	42.5
Merged-chr11-97740374-4	chr11	97740301	97740501	+	892.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054051, intron 1 of 9)	intron (NM_054051, intron 1 of 9)	4303.0	NM_054051	108083.0	Mm.39700	NM_054051	ENSMUSG00000018547	Pip4k2b	AI848124|PI5P4Kbeta|Pip5k2b|c11	phosphatidylinositol-5-phosphate 4-kinase, type II, beta	protein-coding	9.0	57.5	16.5	106.0	29.5	17.5	10.0	10.0
Merged-chr6-135198527-1	chr6	135198427	135198627	+	893.0	f1_balb.idr	intron (NM_001362111, intron 1 of 12)	intron (NM_001362111, intron 1 of 12)	427.0	NM_001362111	74525.0	Mm.34182	NM_028982	ENSMUSG00000030207	Fam234b	8430419L09Rik|mKIAA1467	family with sequence similarity 234, member B	protein-coding	5.5	6.0	2.5	41.0	9.0	6.5	9.0	5.0
Merged-chr6-129421448-4	chr6	129421363	129421563	+	979.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205363, intron 6 of 6)	MTC|LTR|ERVL-MaLR	12601.0	NM_001205364	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	30.0	22.5	14.0	451.0	67.0	16.5	21.5	21.0
Merged-chr17-46640124-4	chr17	46640014	46640214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357130, intron 4 of 15)	intron (NM_001357130, intron 4 of 15)	5966.0	NM_001357130	74764.0	Mm.279599	NM_029091	ENSMUSG00000003546	Klc4	1200014P03Rik|AA408085|AW146303|Knsl8	kinesin light chain 4	protein-coding	31.5	64.0	24.5	694.0	100.5	40.0	33.0	37.5
Merged-chr11-119085627-6	chr11	119085552	119085752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007625, intron 2 of 4)	C-rich|Low_complexity|Low_complexity	585.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	20.5	64.0	17.0	305.5	89.5	47.5	30.0	46.0
Merged-chr7-27481753-4	chr7	27481660	27481860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5193.0	NM_018820	55942.0	Mm.153684	NM_018820	ENSMUSG00000008384	Sertad1	1110032C13Rik|AV000455|AW456625|Sei-1|Sei1|TRIP-Br1	SERTA domain containing 1	protein-coding	59.5	72.5	54.5	1013.0	100.5	37.5	50.5	58.5
Merged-chr10-51459780-4	chr10	51459645	51459845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20867.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	53.5	93.0	53.0	696.0	121.0	50.5	45.0	48.0
Merged-chr18-77047375-4	chr18	77047259	77047459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027721)	promoter-TSS (NM_027721)	-63.0	NM_027721	71206.0	Mm.35803	NM_027721	ENSMUSG00000025420	Katnal2	3110023G01Rik|4933439B08Rik	katanin p60 subunit A-like 2	protein-coding	107.0	146.0	100.0	2010.0	363.5	109.5	158.5	139.5
Merged-chr1-151041180-4	chr1	151041075	151041275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47740.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	85.0	99.0	94.5	1498.5	140.0	61.5	108.5	56.0
Merged-chr15-73149796-4	chr15	73149699	73149899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	35148.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	39.0	45.5	35.0	617.0	109.0	36.5	56.5	47.5
Merged-chr3-8982547-4	chr3	8982486	8982686	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-18440.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	34.0	24.0	23.5	551.5	32.5	10.5	25.0	26.0
Merged-chr9-25549377-3	chr9	25549272	25549472	+	696.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 3 of 7)	intron (NM_026189, intron 3 of 7)	67775.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	6.0	8.0	5.0	162.0	19.5	7.0	6.5	16.5
Merged-chr15-12214605-4	chr15	12214530	12214730	+	860.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 1 of 15)	intron (NM_001356498, intron 1 of 15)	9602.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	9.0	16.5	11.0	258.5	29.0	9.5	5.0	8.5
Merged-chr17-31073978-3	chr17	31073856	31074056	+	930.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	16262.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	4.5	18.5	11.5	172.5	11.0	2.5	2.0	7.5
Merged-chr7-7171293-4	chr7	7171195	7171395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146179)	promoter-TSS (NM_146179)	-58.0	NM_146179	232854.0	Mm.184857	NM_146179	ENSMUSG00000034538	Zfp418	A230102I05Rik	zinc finger protein 418	protein-coding	39.5	27.5	35.5	581.0	85.0	17.5	48.5	27.5
Merged-chr11-90249339-4	chr11	90249246	90249446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026178)	promoter-TSS (NM_026178)	-130.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	424.0	588.0	415.5	5399.0	847.0	344.5	463.0	323.0
Merged-chr5-64211497-4	chr5	64211386	64211586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	RCHARR1|DNA|hAT-Charlie	-18871.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	72.5	84.0	131.0	1249.5	123.0	46.5	66.0	43.5
Merged-chr14-55458513-2	chr14	55458413	55458613	+	633.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20245.0	NM_001037938	28200.0	Mm.27427	NM_030686	ENSMUSG00000022210	Dhrs4	AI043103|AI790593|CR|D14Ucla2|NDRD|PHCR|PSCD|RRD|mouNRDR	dehydrogenase/reductase (SDR family) member 4	protein-coding	8.0	9.0	8.0	73.5	8.0	2.0	6.5	2.5
Merged-chr14-70578517-3	chr14	70578419	70578619	+	988.3333130000001	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001360474, intron 1 of 2)	intron (NM_001360474, intron 1 of 2)	420.0	NM_001360474	213484.0	Mm.34191	NM_153136	ENSMUSG00000045211	Nudt18	BC036718	nudix (nucleoside diphosphate linked moiety X)-type motif 18	protein-coding	16.5	16.5	5.5	313.0	37.0	9.5	8.0	13.0
Merged-chr5-140818806-3	chr5	140818701	140818901	+	708.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	intron (NM_010302, intron 1 of 3)	11630.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	10.5	13.5	12.5	152.5	13.0	6.0	6.0	8.0
Merged-chr11-46035289-3	chr11	46035195	46035395	+	959.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER119|DNA|hAT-Charlie	-19207.0	NM_001291890	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	0.0	1.5	0.0	16.5	35.5	14.5	9.5	20.0
Merged-chr10-61383604-5	chr10	61383502	61383702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013753)	promoter-TSS (NM_013753)	-79.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	42.0	64.5	64.5	602.5	79.5	51.5	41.5	38.0
Merged-chr10-62945339-4	chr10	62945230	62945430	+	975.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175194, exon 9 of 9)	3' UTR (NM_175194, exon 9 of 9)	-1699.0	NR_152862	327762.0	Mm.21492	NM_177372	ENSMUSG00000036875	Dna2	Dna2l|E130315B21Rik	DNA replication helicase/nuclease 2	protein-coding	21.5	37.0	21.5	557.0	49.5	9.0	26.0	34.5
Merged-chr8-79496523-4	chr8	79496427	79496627	+	812.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97059.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	13.5	14.5	24.0	325.0	28.5	9.0	17.5	13.5
Merged-chr10-15300325-4	chr10	15300215	15300415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-491462.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	32.0	35.5	45.5	592.0	57.5	22.5	43.5	37.5
Merged-chr13-101909196-4	chr13	101909111	101909311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140994.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	220.0	315.0	215.5	2854.5	413.5	157.5	172.0	152.5
Merged-chr4-136310914-4	chr4	136310789	136310989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028871)	promoter-TSS (NM_028871)	-53.0	NM_001277122	74326.0	Mm.31051	NM_028871	ENSMUSG00000066037	Hnrnpr	2610003J05Rik|2610528B01Rik|Hnrpr	heterogeneous nuclear ribonucleoprotein R	protein-coding	119.0	163.5	70.0	1202.5	278.5	118.0	111.0	133.5
Merged-chr9-123936823-4	chr9	123936729	123936929	+	995.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31863.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	33.5	57.0	29.0	358.5	79.5	38.5	15.0	23.0
Merged-chr13-95685921-3	chr13	95685830	95686030	+	975.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 14 of 35)	intron (NM_027711, intron 14 of 35)	-10990.0	NM_010170	14064.0	Mm.440952	NM_010170	ENSMUSG00000021675	F2rl2	F730031A08|PAR3	coagulation factor II (thrombin) receptor-like 2	protein-coding	29.0	35.0	25.5	348.5	10.0	5.0	7.5	6.0
Merged-chr8-106929670-3	chr8	106929577	106929777	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6073.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	19.0	23.5	39.5	315.5	8.5	3.5	2.5	5.5
Merged-chr7-27160034-4	chr7	27159916	27160116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357767, intron 2 of 4)	intron (NM_001357767, intron 2 of 4)	5712.0	NM_001357767	112406.0	Mm.29978	NM_053208	ENSMUSG00000058709	Egln2	0610011A13Rik|C85656|Hif-p4h-1|Ier4|Phd1|SM-20	egl-9 family hypoxia-inducible factor 2	protein-coding	40.5	75.0	45.0	762.5	108.5	22.5	56.0	27.5
Merged-chr2-178414477-4	chr2	178414464	178414664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085501)	promoter-TSS (NM_001085501)	30.0	NM_001081289	71532.0	Mm.40216	NM_001081289	ENSMUSG00000070476	Fam217b	9030418K01Rik|AI851938	family with sequence similarity 217, member B	protein-coding	44.0	81.5	73.0	1016.0	86.0	40.0	51.5	43.0
Merged-chr1-106220574-3	chr1	106220448	106220648	+	616.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	RSINE1|SINE|B4	48679.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	7.5	8.5	11.5	52.5	16.5	4.5	6.0	2.0
Merged-chr9-7595405-4	chr9	7595305	7595505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24009.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	100.5	147.5	144.0	2223.5	284.5	62.0	117.5	97.0
Merged-chr11-89021079-4	chr11	89020974	89021174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009546)	TTS (NM_009546)	21671.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	243.0	297.0	243.5	2904.0	596.5	253.5	286.5	232.0
Merged-chr4-40251134-4	chr4	40251017	40251217	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11292.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	24.0	20.0	34.5	401.5	60.5	15.5	21.5	21.0
Merged-chr8-126665932-4	chr8	126665797	126665997	+	960.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72461.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	20.5	23.0	25.0	300.0	19.5	13.5	13.0	25.0
Merged-chr5-34695716-4	chr5	34695614	34695814	+	956.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019497, intron 5 of 15)	intron (NM_019497, intron 5 of 15)	35335.0	NM_019497	14772.0	Mm.117076	NM_019497	ENSMUSG00000052783	Grk4	A830025H08Rik|GRK|Gprk2l|Gprk4	G protein-coupled receptor kinase 4	protein-coding	34.5	29.0	36.0	605.0	24.5	9.5	19.0	19.0
Merged-chr15-28026134-4	chr15	28026045	28026245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081302)	promoter-TSS (NM_001081302)	-297.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	240.5	393.5	236.5	4546.5	591.0	200.5	314.5	207.5
Merged-chr17-70738384-4	chr17	70738291	70738491	+	971.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	108386.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	16.0	32.0	17.5	263.0	37.5	14.0	17.5	29.0
Merged-chr7-105808537-4	chr7	105808438	105808638	+	812.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025301, exon 3 of 3)	3' UTR (NM_025301, exon 3 of 3)	2549.0	NM_025301	27397.0	Mm.44225	NM_025301	ENSMUSG00000030879	Mrpl17	MRP-L26|Rpml26	mitochondrial ribosomal protein L17	protein-coding	16.0	51.0	27.5	74.5	17.5	12.0	12.0	4.0
Merged-chr6-122952596-4	chr6	122952488	122952688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204241)	promoter-TSS (NM_001204241)	-56.0	NM_153197	73149.0	Mm.25684	NM_153197	ENSMUSG00000043832	Clec4a3	3110037K17Rik|Dcir3	C-type lectin domain family 4, member a3	protein-coding	109.5	149.5	151.0	2207.5	189.0	83.5	75.0	97.0
Merged-chr15-54780897-2	chr15	54780797	54780997	+	824.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34969.0	NM_010930	18133.0	Mm.5167	NM_010930	ENSMUSG00000037362	Nov	C130088N23Rik|CCN3	nephroblastoma overexpressed gene	protein-coding	2.0	8.0	4.0	131.5	13.0	7.0	7.5	14.5
Merged-chr9-108831780-4	chr9	108831663	108831863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359573, exon 2 of 36)	exon (NM_001359573, exon 2 of 36)	5718.0	NM_001359572	107934.0	Mm.39945	NM_080437	ENSMUSG00000023473	Celsr3	Adgrc3|Fmi1|flamingo|mKIAA0812	cadherin, EGF LAG seven-pass G-type receptor 3	protein-coding	20.0	62.5	32.0	496.5	85.0	33.0	43.0	25.5
Merged-chr13-60840377-4	chr13	60840304	60840504	+	950.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24012.0	NM_178098	214639.0	Mm.19839	NM_178098	ENSMUSG00000050345	4930486L24Rik	AW545031	RIKEN cDNA 4930486L24 gene	protein-coding	20.0	8.0	17.0	224.0	25.0	4.5	16.0	13.5
Merged-chr11-22872485-2	chr11	22872382	22872582	+	552.0	f0_balb.idr|f1_balb.idr	Intergenic	RMER15|LTR|ERVL	-12146.0	NM_001169114	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	14.0	11.0	17.0	74.0	10.5	4.5	7.5	10.0
Merged-chr2-144237522-4	chr2	144237459	144237659	+	878.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	28643.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	10.0	3.0	8.0	29.0	13.5	15.0	7.0	13.0
Merged-chr3-68717498-1	chr3	68717398	68717598	+	664.666687	f0_balb.idr	Intergenic	Intergenic	26074.0	NM_008351	16159.0	Mm.103783	NM_008351	ENSMUSG00000027776	Il12a	IL-12p35|Il-12a|Ll12a|p35	interleukin 12a	protein-coding	3.5	11.5	17.0	138.0	17.0	8.0	7.5	10.0
Merged-chr10-13008388-4	chr10	13008295	13008495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175102)	promoter-TSS (NM_175102)	-55.0	NM_175102	66125.0	Mm.29743	NM_175102	ENSMUSG00000078348	Sf3b5	10kDa|1110005L13Rik|AU043053|Sf3b10	splicing factor 3b, subunit 5	protein-coding	181.0	295.0	142.0	3130.0	562.0	161.0	264.0	175.5
Merged-chr19-43525254-1	chr19	43525154	43525354	+	811.166687	f0_balb.idr	promoter-TSS (NM_010324)	promoter-TSS (NM_010324)	-649.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	9.0	17.5	14.0	233.0	52.0	13.5	31.0	26.5
Merged-chr12-72694102-3	chr12	72694007	72694207	+	929.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29279.0	NM_025522	66375.0	Mm.289653	NM_025522	ENSMUSG00000021094	Dhrs7	2310016E22Rik|5730564L20Rik|AW061210|Retdsr4|Retsdr4	dehydrogenase/reductase (SDR family) member 7	protein-coding	17.5	23.5	19.0	126.0	13.0	4.5	8.0	4.5
Merged-chr17-57059568-3	chr17	57059486	57059686	+	924.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025877, exon 1 of 10)	exon (NM_025877, exon 1 of 10)	277.0	NM_025877	66972.0	Mm.23720	NM_025877	ENSMUSG00000046329	Slc25a23	2310067G05Rik|SCaMC-3	solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 23	protein-coding	3.5	7.0	5.5	128.0	8.0	10.0	7.0	8.0
Merged-chr10-99332814-4	chr10	99332726	99332926	+	950.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69595.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	22.0	26.0	44.0	346.5	56.5	17.0	15.0	11.5
Merged-chr9-65581139-4	chr9	65581031	65581231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1044.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	70.5	88.0	54.5	953.5	203.5	84.0	84.5	89.5
Merged-chr4-154910803-4	chr4	154910699	154910899	+	860.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER12|LTR|ERVK	-11756.0	NM_025582	66469.0	Mm.41868	NM_025582	ENSMUSG00000029059	Fam213b	2810405K02Rik|AI836168|PM/PGFS	family with sequence similarity 213, member B	protein-coding	10.5	19.5	6.0	117.0	20.5	4.0	19.5	10.0
Merged-chr10-130229813-3	chr10	130229711	130229911	+	714.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-18683.0	NM_146300	258297.0	Mm.377419	NM_146300	ENSMUSG00000045559	Olfr827	MOR210-5	olfactory receptor 827	protein-coding	6.0	5.0	6.5	101.5	16.5	6.0	5.5	5.5
Merged-chr1-72123814-4	chr1	72123713	72123913	+	791.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88494.0	NM_001005423	381269.0	Mm.422636	NM_001005423	ENSMUSG00000039395	Mreg	Gm974|Wdt2|dsu	melanoregulin	protein-coding	12.5	13.5	19.5	141.5	24.0	14.5	16.5	12.0
Merged-chr1-132298818-4	chr1	132298683	132298883	+	803.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144810, exon 1 of 5)	5' UTR (NM_144810, exon 1 of 5)	157.0	NM_144810	213417.0	Mm.39723	NM_144810	ENSMUSG00000042115	Klhdc8a	A630065K24Rik	kelch domain containing 8A	protein-coding	5.0	21.5	10.5	91.5	26.0	12.0	8.0	9.0
Merged-chr15-76312497-3	chr15	76312398	76312598	+	918.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14_RN|LTR|ERV1	-5253.0	NM_153122	75475.0	Mm.322738	NM_153122	ENSMUSG00000022562	Oplah	1700010G02Rik	5-oxoprolinase (ATP-hydrolysing)	protein-coding	8.5	16.5	12.5	138.5	27.5	5.5	6.5	8.5
Merged-chr7-99151564-4	chr7	99151434	99151634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10390.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	46.0	73.0	34.0	607.5	122.0	37.5	44.5	24.5
Merged-chr2-27714375-4	chr2	27714289	27714489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	3806.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	76.0	113.0	84.5	1005.0	153.0	52.0	70.5	76.5
Merged-chr2-102942743-2	chr2	102942643	102942843	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41078.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	11.0	14.0	8.5	100.5	28.5	7.0	16.0	8.0
Merged-chr7-109616547-4	chr7	109616469	109616669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037617)	promoter-TSS (NR_037617)	-1.0	NR_037617	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	28.5	43.0	29.0	414.0	37.0	29.5	23.5	27.5
Merged-chr18-65687158-5	chr18	65686957	65687157	+	797.899048	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207255, exon 6 of 6)	exon (NM_207255, exon 6 of 6)	-11211.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	8.5	4.5	6.0	117.0	18.0	5.5	6.0	7.0
Merged-chr16-30587687-4	chr16	30587614	30587814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178069)	promoter-TSS (NM_178069)	-125.0	NM_178069	224092.0	Mm.567	NM_178069	ENSMUSG00000022538	Lsg1	5830465I20|AA409273|D16Bwg1547e	large 60S subunit nuclear export GTPase 1	protein-coding	25.5	44.0	34.0	288.0	87.5	41.0	15.5	24.5
Merged-chr5-139702396-4	chr5	139702318	139702518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33915.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	78.5	91.5	116.5	1475.0	162.0	47.5	72.0	89.5
Merged-chr6-122946951-4	chr6	122946793	122946993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-5622.0	NM_001204241	73149.0	Mm.25684	NM_153197	ENSMUSG00000043832	Clec4a3	3110037K17Rik|Dcir3	C-type lectin domain family 4, member a3	protein-coding	72.5	68.0	61.0	781.5	116.0	40.5	48.0	44.5
Merged-chr9-78110325-4	chr9	78110234	78110434	+	962.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163780, intron 1 of 13)	intron (NM_001163780, intron 1 of 13)	1142.0	NM_001163780	56542.0	Mm.288719	NM_019987	ENSMUSG00000009828	Ick	2210420N10Rik|AI848300|Mrk	intestinal cell kinase	protein-coding	8.0	34.5	18.5	226.5	49.0	22.0	21.0	20.5
Merged-chr4-144930494-3	chr4	144930379	144930579	+	860.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37342.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	8.5	13.5	13.5	250.0	11.0	6.5	6.5	6.0
Merged-chr8-79038333-3	chr8	79038248	79038448	+	829.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	intron (NM_001294279, intron 1 of 14)	9911.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	7.0	6.0	13.0	173.0	9.5	3.5	5.5	7.0
Merged-chr4-130861845-4	chr4	130861759	130861959	+	894.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-51475.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	10.0	20.0	6.5	94.5	25.5	12.0	12.5	10.0
Merged-chr13-44731816-2	chr13	44731716	44731916	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001205044, exon 2 of 19)	5' UTR (NM_001205044, exon 2 of 19)	545.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	6.5	7.0	4.5	44.0	7.5	4.5	2.0	4.0
Merged-chr19-53568023-4	chr19	53567941	53568141	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-32355.0	NM_007790	13006.0	Mm.14910	NM_007790	ENSMUSG00000024974	Smc3	Bamacan|Cspg6|HCAP|Mmip1|SMC-3|SmcD	structural maintenance of chromosomes 3	protein-coding	60.0	39.0	60.5	724.5	45.0	12.0	11.0	8.5
Merged-chr8-92853745-4	chr8	92853655	92853855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008610)	TTS (NM_008610)	-1578.0	NM_173014	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	17.5	23.5	26.5	235.5	80.0	36.0	23.5	10.5
Merged-chr2-34871023-4	chr2	34870904	34871104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080554)	promoter-TSS (NM_080554)	-42.0	NM_080554	66998.0	Mm.270632	NM_080554	ENSMUSG00000026869	Psmd5	1500032A03Rik|AW475925|S5b|W91691|mKIAA0072	proteasome (prosome, macropain) 26S subunit, non-ATPase, 5	protein-coding	131.0	197.5	99.5	1037.0	320.5	129.0	131.0	149.5
Merged-chr7-71872507-3	chr7	71872411	71872611	+	923.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37184.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	19.0	41.0	45.0	509.0	13.0	2.0	2.0	4.5
Merged-chr2-91948255-1	chr2	91948155	91948355	+	1000.0	f0_c57.idr	intron (NM_001166597, intron 1 of 31)	intron (NM_001166597, intron 1 of 31)	2093.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	27.5	22.0	23.0	621.5	100.0	22.5	39.5	33.0
Merged-chr10-83543977-4	chr10	83543894	83544094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033375)	promoter-TSS (NM_001033375)	53.0	NM_001033375	319277.0	Mm.491194	NM_001033375	ENSMUSG00000034560	Washc4	A230046K03Rik|AA589518|Kiaa1033|mKIAA1033	WASH complex subunit 4	protein-coding	110.5	210.0	147.0	1750.5	256.0	90.5	190.5	119.0
Merged-chr10-42093356-1	chr10	42093256	42093456	+	554.0	f0_balb.idr	Intergenic	Intergenic	-74974.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	5.0	7.0	9.0	80.0	5.5	1.0	8.0	5.5
Merged-chr4-129335953-4	chr4	129335848	129336048	+	985.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025970)	promoter-TSS (NM_025970)	-78.0	NM_025970	67106.0	Mm.36575	NM_025970	ENSMUSG00000057572	Zbtb8os	2010001H09Rik|2310028N13Rik|AI851226|Arch|Archm	zinc finger and BTB domain containing 8 opposite strand	protein-coding	12.0	36.5	26.5	233.5	99.0	30.5	22.0	29.0
Merged-chr17-46890582-4	chr17	46890456	46890656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178385)	promoter-TSS (NM_178385)	-65.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	143.5	294.0	138.0	2112.5	402.0	181.0	165.0	175.0
Merged-chr4-45531238-4	chr4	45531138	45531338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033306)	promoter-TSS (NM_001033306)	-410.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	62.5	73.0	59.0	1045.0	193.0	72.0	87.5	86.0
Merged-chr13-62466804-4	chr13	62466722	62466922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136496)	promoter-TSS (NM_001136496)	-10.0	NM_001136496	71508.0	Mm.442497	NM_178875	ENSMUSG00000113450	Zfp935	8430426H19Rik|Es113	zinc finger protein 935	protein-coding	81.5	96.0	115.0	1593.5	264.5	90.0	133.0	97.5
Merged-chr2-79255958-4	chr2	79255829	79256029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010576, intron 1 of 27)	intron (NM_010576, intron 1 of 27)	503.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	22.0	27.0	41.5	563.5	44.0	28.0	19.5	18.0
Merged-chr9-99179882-4	chr9	99179778	99179978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39667.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	44.5	45.5	55.5	766.5	126.0	36.5	57.0	45.5
Merged-chr19-46618525-4	chr19	46618437	46618637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177812, intron 2 of 4)	intron (NM_001177812, intron 2 of 4)	-4864.0	NM_001177813	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	184.5	232.0	150.0	1872.5	331.0	120.5	142.5	132.0
Merged-chr1-89931230-2	chr1	89931130	89931330	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010262)	promoter-TSS (NM_010262)	-54.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	5.5	7.0	5.0	57.5	8.0	3.5	5.5	2.5
Merged-chr11-46314904-4	chr11	46314830	46315030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-2071.0	NM_001252459	76884.0	Mm.154358	NM_133769	ENSMUSG00000020340	Cyfip2	1500004I01Rik|6430511D02Rik|AA930218|AU022376|Pir121|mKIAA1168	cytoplasmic FMR1 interacting protein 2	protein-coding	81.0	116.0	91.5	950.5	194.5	51.0	55.5	50.5
Merged-chr4-136144878-4	chr4	136144760	136144960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008321, intron 2 of 2)	CpG-10505	1038.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	64.5	159.0	92.0	896.5	220.5	118.0	94.0	96.0
Merged-chr16-55973764-4	chr16	55973673	55973873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173026)	promoter-TSS (NM_173026)	-31.0	NM_173026	271377.0	Mm.282814	NM_173026	ENSMUSG00000022601	Zbtb11	9230110G02Rik|ZNF-U69274	zinc finger and BTB domain containing 11	protein-coding	272.0	499.0	284.5	4787.0	798.5	343.5	368.5	320.0
Merged-chr11-23679377-4	chr11	23679237	23679437	+	978.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 4 of 17)	intron (NM_001033654, intron 4 of 17)	13361.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	28.0	41.0	16.0	298.5	38.5	10.5	17.0	29.0
Merged-chr2-167776270-6	chr2	167776162	167776362	+	929.711121	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85085.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	5.0	8.0	7.0	98.5	41.5	7.5	7.5	9.5
Merged-chr1-92106887-4	chr1	92106758	92106958	+	884.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 2 of 26)	intron (NM_207225, intron 2 of 26)	73483.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	8.5	13.0	17.0	281.5	22.0	14.5	12.0	5.5
Merged-chr17-12758158-4	chr17	12758075	12758275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	11531.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	124.0	180.5	124.5	1670.0	319.5	120.5	131.0	126.0
Merged-chr11-23305418-4	chr11	23305310	23305510	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-1485.0	NM_001190401	17847.0	Mm.119155	NM_001190401	ENSMUSG00000056342	Usp34	A530081C03Rik|Murr2	ubiquitin specific peptidase 34	protein-coding	39.5	46.5	40.5	173.0	111.5	38.5	26.5	44.0
Merged-chr8-82403218-4	chr8	82403096	82403296	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254747)	promoter-TSS (NM_001254747)	-610.0	NM_008357	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	13.0	30.0	22.5	424.0	51.0	26.5	26.0	17.0
Merged-chr13-5824384-4	chr13	5824283	5824483	+	871.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33709.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	14.5	10.5	11.0	316.0	19.0	16.5	13.0	9.0
Merged-chr13-37339235-2	chr13	37339133	37339333	+	799.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6112.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	2.5	1.0	2.0	85.5	6.5	6.0	4.5	7.0
Merged-chr13-35740780-4	chr13	35740693	35740893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123386)	promoter-TSS (NM_001123386)	-609.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	31.5	50.0	34.0	458.5	59.5	19.5	25.5	23.5
Merged-chr4-63151343-4	chr4	63151235	63151435	+	864.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007443, intron 3 of 9)	intron (NM_007443, intron 3 of 9)	2837.0	NM_007443	11699.0	Mm.2197	NM_007443	ENSMUSG00000028356	Ambp	AI194774|ASPI|HI-30|Intin4|Itil|UTI	alpha 1 microglobulin/bikunin	protein-coding	13.0	35.5	47.5	472.5	12.5	9.0	10.5	11.0
Merged-chr18-67607569-4	chr18	67607504	67607704	+	990.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33751.0	NM_001357523	225659.0	Mm.111928	NM_001081073	ENSMUSG00000073542	Cep76	6230425F05Rik|9630013E05	centrosomal protein 76	protein-coding	24.0	24.0	22.0	286.0	31.5	16.5	16.0	21.0
Merged-chr1-89043136-4	chr1	89043038	89043238	+	814.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	27025.0	NR_040471	73475.0	Mm.491040	NR_040471	ENSMUSG00000099378	1700067G17Rik	-	RIKEN cDNA 1700067G17 gene	ncRNA	7.5	14.0	6.0	92.0	21.5	8.0	13.0	16.0
Merged-chr16-32177033-4	chr16	32176929	32177129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2771.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	67.5	145.0	56.0	499.0	224.0	95.0	71.0	36.0
Merged-chr11-70647107-4	chr11	70646968	70647168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027445)	promoter-TSS (NM_027445)	-29.0	NM_024211	67863.0	Mm.296082	NM_024211	ENSMUSG00000014606	Slc25a11	2310022P18Rik|2oxoc	solute carrier family 25 (mitochondrial carrier oxoglutarate carrier), member 11	protein-coding	135.0	226.0	95.5	1030.0	284.5	120.5	74.5	93.5
Merged-chr2-162932423-4	chr2	162932316	162932516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026499, intron 2 of 5)	intron (NM_026499, intron 2 of 5)	908.0	NM_026499	67996.0	Mm.24042	NM_026499	ENSMUSG00000016921	Srsf6	1210001E11Rik|AI314910|AW146126|Sfrs6	serine/arginine-rich splicing factor 6	protein-coding	33.0	34.5	59.0	521.5	72.5	20.5	28.0	34.0
Merged-chr3-135731474-4	chr3	135731355	135731555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39908.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	40.5	64.5	30.0	826.5	179.0	56.5	62.0	46.0
Merged-chr10-93689028-4	chr10	93688913	93689113	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021320, intron 3 of 9)	intron (NM_021320, intron 3 of 9)	-5691.0	NR_038017	100504069.0	Mm.391412	NR_038017	ENSMUSG00000085723	Gm15915	-	predicted gene 15915	ncRNA	44.0	43.5	41.0	401.5	67.0	13.0	26.0	23.5
Merged-chr13-38204869-4	chr13	38204770	38204970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026382)	promoter-TSS (NM_026382)	-69.0	NM_026382	67797.0	Mm.250783	NM_026382	ENSMUSG00000021431	Snrnp48	1110050F08Rik|6530403A03Rik|C6orf151	small nuclear ribonucleoprotein 48 (U11/U12)	protein-coding	82.5	128.5	51.5	1281.5	185.5	63.0	105.0	78.0
Merged-chr4-32213662-2	chr4	32213562	32213762	+	623.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	-203773.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	5.5	8.5	9.0	57.0	10.5	9.5	8.5	7.0
Merged-chr18-64518763-4	chr18	64518649	64518849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2192.0	NM_001142950	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	47.0	54.0	39.0	632.5	93.5	35.0	49.0	74.0
Merged-chr11-29549587-4	chr11	29549498	29549698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163521, intron 1 of 11)	intron (NM_001163521, intron 1 of 11)	-1558.0	NM_001033865	78294.0	Mm.180003	NM_024277	ENSMUSG00000020460	Rps27a	0610006J14Rik|Uba52|Ubb|Ubc	ribosomal protein S27A	protein-coding	63.0	124.5	68.0	1008.5	209.5	81.5	83.0	50.5
Merged-chr13-76393303-3	chr13	76393207	76393407	+	965.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	8346.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	9.0	10.5	13.0	367.5	15.5	6.0	10.5	5.5
Merged-chr12-77833626-3	chr12	77833525	77833725	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-393030.0	NM_172952	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	15.5	26.0	6.0	219.5	16.5	24.5	6.5	12.5
Merged-chr10-118042845-3	chr10	118042744	118042944	+	943.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-98943.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	23.0	22.0	32.0	515.5	5.5	2.0	3.0	3.0
Merged-chr17-5316735-4	chr17	5316627	5316827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 11 of 19)	intron (NM_001085355, intron 11 of 19)	102040.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	23.0	90.0	69.0	938.5	49.0	9.0	29.5	31.5
Merged-chr12-52603284-7	chr12	52603193	52603393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045910)	promoter-TSS (NR_045910)	-971.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	8.5	25.5	19.0	222.5	31.5	21.0	11.5	25.0
Merged-chr3-127289067-3	chr3	127288964	127289164	+	965.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	RMER5|LTR|ERV1	119994.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.5	4.0	3.0	28.0	34.0	13.5	21.0	22.5
Merged-chr1-120443439-4	chr1	120443318	120443518	+	954.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	61606.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	11.0	13.0	28.5	336.0	37.5	12.0	10.0	21.0
Merged-chr5-35701212-2	chr5	35701112	35701312	+	879.2000119999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359895, intron 14 of 17)	intron (NM_001359895, intron 14 of 17)	-21432.0	NM_030127	78558.0	Mm.274255	NM_030127	ENSMUSG00000029096	Htra3	2210021K23Rik|9530081K03Rik|Prsp|Tasp	HtrA serine peptidase 3	protein-coding	3.5	5.0	6.0	35.5	18.5	6.0	8.0	6.5
Merged-chr4-86943491-3	chr4	86943398	86943598	+	992.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31A_Mm|LTR|ERVK	69084.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	20.5	21.5	13.0	209.5	0.0	0.0	0.0	4.0
Merged-chr2-144215468-4	chr2	144215365	144215565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26175.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	81.5	141.5	62.0	1094.5	161.5	68.5	79.5	78.0
Merged-chr10-6462371-1	chr10	6462271	6462471	+	556.0	f0_balb.idr	Intergenic	L1MCa|LINE|L1	-296222.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	5.0	5.5	7.0	130.0	0.0	0.0	0.0	0.5
Merged-chr9-120034526-4	chr9	120034413	120034613	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10915.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	14.5	12.5	27.5	477.5	43.0	10.0	29.0	21.5
Merged-chr5-45580559-3	chr5	45580475	45580675	+	900.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021416, exon 5 of 16)	exon (NM_021416, exon 5 of 16)	-58700.0	NR_102378	319251.0	Mm.402857	NR_102378	ENSMUSG00000097825	9630001P10Rik	-	RIKEN cDNA 9630001P10 gene	ncRNA	7.5	8.5	10.5	102.0	4.5	2.0	5.5	3.5
Merged-chr13-20494235-4	chr13	20494141	20494341	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198093, intron 1 of 6)	intron (NM_198093, intron 1 of 6)	21251.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	27.5	22.0	24.0	454.0	68.5	19.5	36.5	31.5
Merged-chr4-122892351-4	chr4	122892220	122892420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6244.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	55.5	61.0	55.5	527.0	122.5	39.5	60.5	34.5
Merged-chr13-106691956-4	chr13	106691849	106692049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2c|LINE|L1	245009.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	63.5	107.0	50.5	969.0	184.5	61.0	64.0	50.0
Merged-chr12-69423016-4	chr12	69422875	69423075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50825.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	47.5	67.5	62.0	890.5	109.5	23.0	31.0	28.0
Merged-chr8-37010222-4	chr8	37010138	37010338	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126063, intron 2 of 2)	intron (NR_126063, intron 2 of 2)	14000.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	15.5	29.5	13.0	206.0	70.0	12.5	42.5	21.5
Merged-chr5-124444791-4	chr5	124444683	124444883	+	862.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310723)	promoter-TSS (NM_001310723)	-716.0	NM_001310723	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	22.5	15.5	6.5	151.0	18.5	13.5	9.5	14.5
Merged-chr6-88034569-3	chr6	88034469	88034669	+	908.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293652, intron 1 of 7)	intron (NM_001293652, intron 1 of 7)	10448.0	NM_001293653	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	11.0	11.0	5.0	155.5	7.5	5.0	3.0	4.5
Merged-chr2-35232162-4	chr2	35232067	35232267	+	810.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24192.0	NM_001206367	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	13.5	5.0	13.0	152.5	24.0	4.0	9.0	8.5
Merged-chr12-79627549-4	chr12	79627464	79627664	+	914.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	297169.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	16.5	26.0	9.0	235.5	38.0	11.5	18.5	18.5
Merged-chr11-20176228-3	chr11	20176118	20176318	+	859.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25194.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	9.0	11.5	6.0	146.0	16.0	7.5	13.0	6.0
Merged-chr19-32712270-4	chr19	32712134	32712334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026487)	promoter-TSS (NM_026487)	64.0	NM_026487	67979.0	Mm.27123	NM_026487	ENSMUSG00000013662	Atad1	4921525H23Rik|AW107648|Thorase	ATPase family, AAA domain containing 1	protein-coding	62.0	90.5	86.5	732.5	122.0	39.5	52.5	58.0
Merged-chr5-102052369-4	chr5	102052258	102052458	+	896.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	17563.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	39.0	29.5	46.5	525.0	29.0	10.0	13.0	15.0
Merged-chr4-134469071-4	chr4	134468962	134469162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019641, intron 1 of 4)	CpG	742.0	NM_019641	16765.0	Mm.378957	NM_019641	ENSMUSG00000028832	Stmn1	19k|Lag|Lap18|Op18|P18|P19|Pig|Pp17|Pp18|Pp19|Pr22|Smn	stathmin 1	protein-coding	78.5	93.5	50.0	673.0	186.0	79.0	78.5	80.5
Merged-chr7-138845746-4	chr7	138845611	138845811	+	951.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026391)	promoter-TSS (NM_026391)	556.0	NM_001045483	69546.0	Mm.31598	NM_027115	ENSMUSG00000041775	Mapk1ip1	2310009E07Rik|AU043776|MISS	mitogen-activated protein kinase 1 interacting protein 1	protein-coding	18.0	20.0	10.5	159.0	43.0	12.0	20.0	18.5
Merged-chr5-99979093-4	chr5	99979005	99979205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077267)	promoter-TSS (NM_001077267)	-167.0	NM_001077267	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	173.5	306.5	151.5	2165.0	489.0	209.5	236.5	176.0
Merged-chr7-132852578-4	chr7	132852464	132852664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347629)	promoter-TSS (NM_001347629)	83.0	NM_028095	72096.0	Mm.28631	NM_028095	ENSMUSG00000030960	Eef1akmt2	2010208K18Rik|Mettl10	EEF1A lysine methyltransferase 2	protein-coding	23.5	45.0	46.5	485.0	66.5	29.0	46.0	59.5
Merged-chr6-86397118-4	chr6	86397017	86397217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025823)	promoter-TSS (NM_025823)	33.0	NM_001355687	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	41.5	81.0	55.5	660.0	94.5	34.0	53.0	35.5
Merged-chr14-12284197-4	chr14	12284088	12284288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146051)	promoter-TSS (NM_146051)	-15.0	NM_001284384	218734.0	Mm.44068	NM_146051	ENSMUSG00000033111	3830406C13Rik	-	RIKEN cDNA 3830406C13 gene	protein-coding	24.5	25.0	27.0	312.5	60.5	24.5	43.5	42.5
Merged-chr15-38651666-4	chr15	38651568	38651768	+	939.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-10236.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	18.0	13.5	8.0	242.5	43.5	14.0	22.5	21.5
Merged-chr6-59022834-4	chr6	59022738	59022938	+	889.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153574, intron 1 of 17)	intron (NM_153574, intron 1 of 17)	1664.0	NM_153574	58909.0	Mm.28813	NM_153574	ENSMUSG00000037709	Fam13a	AI462012|D430015B01Rik|FAM13A1|Precm1	family with sequence similarity 13, member A	protein-coding	12.5	8.5	14.5	331.5	23.0	12.5	11.0	13.5
Merged-chr4-10977191-4	chr4	10977110	10977310	+	884.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30409.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	11.5	6.5	12.0	176.5	31.0	13.5	21.0	20.0
Merged-chr3-121657091-3	chr3	121656991	121657191	+	847.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10638.0	NR_036458	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	7.0	8.0	12.0	142.0	34.0	3.0	9.0	9.0
Merged-chr9-56636397-5	chr9	56636292	56636492	+	842.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311076)	promoter-TSS (NM_001311076)	-744.0	NM_001311076	235402.0	Mm.246605	NM_181074	ENSMUSG00000049556	Lingo1	4930471K13Rik|AV148400|LERN1|LINGO-1|Lrrn6a|UNQ201	leucine rich repeat and Ig domain containing 1	protein-coding	7.0	10.5	7.5	99.5	11.0	7.0	4.0	7.0
Merged-chr6-54659134-3	chr6	54659033	54659233	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-22491.0	NM_001289741	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	12.5	11.0	20.5	13.5	5.0	5.0	10.5	10.5
Merged-chr3-81141032-1	chr3	81140932	81141132	+	636.0	f0_balb.idr	intron (NM_001357746, intron 2 of 6)	URR1A|DNA|hAT-Charlie	104616.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	4.5	9.5	5.0	106.0	12.0	1.5	2.0	3.0
Merged-chr11-23261603-2	chr11	23261503	23261703	+	731.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001035226, intron 2 of 25)	B2_Mm1a|SINE|B2	5562.0	NM_134014	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	3.0	12.0	5.0	15.0	12.0	5.5	12.0	6.0
Merged-chr2-157367006-4	chr2	157366918	157367118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026968)	promoter-TSS (NM_026968)	-576.0	NM_026968	69161.0	Mm.228619	NM_026968	ENSMUSG00000063019	Manbal	1810024K12Rik|AI836500	mannosidase, beta A, lysosomal-like	protein-coding	129.0	237.5	133.0	1585.5	298.0	170.0	110.5	141.5
Merged-chr15-75981949-4	chr15	75981848	75982048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163518, exon 1 of 1)	exon (NM_001163518, exon 1 of 1)	337.0	NM_001163518	223648.0	Mm.17610	NM_146059	ENSMUSG00000098176	Ccdc166	2410075B13Rik	coiled-coil domain containing 166	protein-coding	83.5	111.5	119.5	1701.0	164.0	60.0	97.5	54.5
Merged-chr19-23038609-3	chr19	23038508	23038708	+	761.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102618.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	0.0	0.5	0.0	6.0	17.5	6.5	8.5	16.0
Merged-chr8-13159137-4	chr8	13158996	13159196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317353)	promoter-TSS (NM_001317353)	-65.0	NM_001317353	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	40.5	73.0	46.0	590.0	223.0	80.0	68.5	61.5
Merged-chr6-81923698-4	chr6	81923610	81923810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177884)	promoter-TSS (NM_177884)	41.0	NM_177884	330361.0	Mm.474487	NM_177884	ENSMUSG00000035125	Gcfc2	A130099G21|AW146020|GCF2|Tcf9	GC-rich sequence DNA binding factor 2	protein-coding	37.5	79.0	56.0	821.0	94.0	44.5	27.5	42.5
Merged-chr3-94583135-4	chr3	94583051	94583251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029721)	promoter-TSS (NM_029721)	-435.0	NM_029721	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	67.0	118.5	65.5	1335.0	224.0	87.0	80.5	94.0
Merged-chr6-87541142-4	chr6	87541045	87541245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7886.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	137.5	178.0	198.0	2695.5	208.5	102.0	105.0	124.5
Merged-chr2-132285016-4	chr2	132284825	132285025	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	-1014.0	NM_001291039	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	4.5	7.5	15.5	230.0	17.5	6.0	9.0	9.0
Merged-chr6-30896646-7	chr6	30896464	30896664	+	997.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_054073)	TTS (NM_054073)	230.0	NR_149738	54160.0	Mm.39896	NM_017478	ENSMUSG00000025607	Copg2	AW227625|gamma-2-COP	coatomer protein complex, subunit gamma 2	protein-coding	13.5	23.0	13.0	224.0	50.0	16.0	31.0	26.5
Merged-chr8-25225034-4	chr8	25224941	25225141	+	820.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23499.0	NM_177089	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	10.5	12.0	15.0	245.0	30.5	8.0	11.5	25.5
Merged-chr17-65607705-4	chr17	65607576	65607776	+	903.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355402, intron 1 of 6)	intron (NM_001355402, intron 1 of 6)	5879.0	NM_001355402	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	14.5	15.5	24.0	220.5	24.0	10.0	10.5	4.5
Merged-chr9-90114708-4	chr9	90114617	90114817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357780, exon 1 of 13)	5' UTR (NM_001357780, exon 1 of 13)	103.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	225.0	312.0	174.0	1935.0	692.0	246.0	331.0	182.5
Merged-chr19-41313922-4	chr19	41313820	41314020	+	957.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 8 of 16)	intron (NM_031376, intron 8 of 16)	-49916.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	23.0	26.0	13.0	346.0	49.5	8.5	32.0	13.0
Merged-chr1-172016224-2	chr1	172016124	172016324	+	893.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033509, intron 1 of 7)	intron (NM_033509, intron 1 of 7)	11071.0	NM_033509	93840.0	Mm.36148	NM_033509	ENSMUSG00000026556	Vangl2	C530001F03Rik|Lootl|Lp|Lpp1|Ltap|Vang1l2|loop-tail|ska17|ska<m17Jus>|stbm|strabismus	VANGL planar cell polarity 2	protein-coding	1.0	7.5	8.0	70.5	19.0	6.5	9.0	7.5
Merged-chr10-8881958-4	chr10	8881898	8882098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	4072.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	152.0	251.0	227.0	1979.0	396.0	132.0	135.0	134.5
Merged-chr13-114964384-4	chr13	114964244	114964444	+	970.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033228, intron 28 of 28)	intron (NM_001033228, intron 28 of 28)	-32244.0	NM_008396	16398.0	Mm.5007	NM_008396	ENSMUSG00000015533	Itga2	CD49B|DX5|GPIa	integrin alpha 2	protein-coding	6.5	9.0	14.0	175.5	34.5	8.5	9.0	15.5
Merged-chr13-24037717-3	chr13	24037603	24037803	+	944.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026825, intron 33 of 37)	intron (NM_026825, intron 33 of 37)	-46489.0	NM_145399	214189.0	Mm.255667	NM_145399	ENSMUSG00000021337	Scgn	-	secretagogin, EF-hand calcium binding protein	protein-coding	6.0	11.0	14.5	247.0	8.5	6.0	6.0	7.0
Merged-chr6-116664255-4	chr6	116664157	116664357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	intron (NM_178045, intron 1 of 10)	9579.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	272.0	386.0	236.5	3531.0	494.0	202.5	277.5	168.0
Merged-chr4-115830727-4	chr4	115830635	115830835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175308, intron 1 of 3)	intron (NM_175308, intron 1 of 3)	2643.0	NM_175308	100465.0	Mm.35571	NM_175308	ENSMUSG00000028709	Mob3c	AW822253|D130076I06Rik|Mobkl2c	MOB kinase activator 3C	protein-coding	58.0	165.0	101.0	418.5	162.5	87.5	43.0	53.5
Merged-chr12-31654886-4	chr12	31654789	31654989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028002)	promoter-TSS (NM_028002)	20.0	NM_001163126	238123.0	Mm.173068	NM_001163126	ENSMUSG00000035933	Cog5	5430405C01Rik|C87247|D18362|GOLTC1|GTC90	component of oligomeric golgi complex 5	protein-coding	64.0	101.0	64.5	996.5	143.0	69.5	80.5	69.5
Merged-chr7-69985370-4	chr7	69985274	69985474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	352448.0	NR_131145	624549.0	Mm.116344	NR_131144	ENSMUSG00000109097	Gm29683	Gm44536	predicted gene, 29683	ncRNA	48.0	51.5	35.5	800.0	125.5	30.5	25.5	39.0
Merged-chr2-165060093-4	chr2	165059987	165060187	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027852, intron 1 of 7)	RSINE1|SINE|B4	4451.0	NM_011611	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	6.0	31.0	10.0	119.0	45.5	22.0	21.5	11.0
Merged-chr17-74601375-4	chr17	74601294	74601494	+	909.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007566, intron 19 of 72)	intron (NM_007566, intron 19 of 72)	73099.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	8.0	8.5	12.0	320.0	35.5	8.5	17.5	19.0
Merged-chr19-19111363-3	chr19	19111275	19111475	+	832.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001043354)	promoter-TSS (NM_001043354)	-179.0	NM_001043354	225998.0	Mm.234641	NM_146095	ENSMUSG00000036192	Rorb	Nr1f2|RZR-beta|RZRB|Rorbeta|hstp	RAR-related orphan receptor beta	protein-coding	3.5	13.5	14.5	206.5	29.5	8.0	7.5	9.0
Merged-chr15-25606732-4	chr15	25606635	25606835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15815.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	49.0	67.5	55.0	832.0	111.0	43.5	64.0	40.5
Merged-chr2-130578347-3	chr2	130578254	130578454	+	766.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	2185.0	NM_011025	18429.0	Mm.16745	NM_011025	ENSMUSG00000027301	Oxt	OT|Oxy	oxytocin	protein-coding	3.0	1.0	1.0	33.5	25.0	7.5	10.5	4.5
Merged-chr12-113144725-3	chr12	113144672	113144872	+	904.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024223, intron 5 of 6)	intron (NM_024223, intron 5 of 6)	4167.0	NM_001347443	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	5.5	6.0	5.0	89.5	12.5	1.0	5.5	5.0
Merged-chr18-46365142-4	chr18	46365050	46365250	+	853.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-53222.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	8.5	8.0	11.5	214.0	26.5	7.5	26.5	13.5
Merged-chr8-122559235-4	chr8	122559141	122559341	+	989.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7912.0	NM_001357349	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	26.0	28.0	17.5	453.5	37.5	18.5	20.0	17.5
Merged-chr2-103009445-3	chr2	103009341	103009541	+	964.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63C|DNA|hAT-Blackjack	64072.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	16.0	8.5	19.0	223.0	18.0	3.0	5.0	5.0
Merged-chr14-103785323-4	chr14	103785264	103785464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58337.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	55.0	68.0	68.0	1047.5	71.0	26.5	39.0	43.5
Merged-chr14-78924824-3	chr14	78924708	78924908	+	878.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027906, intron 4 of 44)	intron (NM_027906, intron 4 of 44)	75630.0	NM_173758	219189.0	Mm.159651	NM_027906	ENSMUSG00000058997	Vwa8	1300010F03Rik|4932416F07Rik|AI957255|Kiaa0564|mKIAA0564	von Willebrand factor A domain containing 8	protein-coding	30.0	24.5	32.0	720.0	4.5	2.0	0.5	0.5
Merged-chr13-38960460-4	chr13	38960328	38960528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131019)	promoter-TSS (NR_131019)	109.0	NM_001170430	108652.0	Mm.255506	NM_134060	ENSMUSG00000021432	Slc35b3	4921526O06Rik|AI428480|CGI-19|PABST2|PAPST2	solute carrier family 35, member B3	protein-coding	39.5	26.0	43.5	674.5	104.0	38.0	41.5	42.5
Merged-chr7-144991974-4	chr7	144991866	144992066	+	934.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-52041.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	9.0	24.5	8.0	195.5	61.5	22.5	18.0	16.0
Merged-chr13-41605324-1	chr13	41605224	41605424	+	1000.0	f0_c57.idr	promoter-TSS (NM_001163572)	promoter-TSS (NM_001163572)	-892.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	23.5	36.0	37.0	527.0	122.5	30.5	56.0	35.5
Merged-chr19-36926857-3	chr19	36926770	36926970	+	877.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080706, intron 1 of 37)	intron (NM_001080706, intron 1 of 37)	791.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	5.5	3.0	2.0	76.5	21.5	4.5	22.5	7.0
Merged-chr6-5006772-4	chr6	5006654	5006854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	103434.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	46.5	61.5	50.0	827.5	80.5	29.0	54.0	35.0
Merged-chr1-34511206-4	chr1	34511105	34511305	+	929.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12793.0	NM_001360855	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	11.5	14.0	18.5	226.0	33.0	10.5	20.0	19.5
Merged-chr11-32455158-5	chr11	32455103	32455303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361561)	promoter-TSS (NM_001361561)	-167.0	NM_001361561	327900.0	Mm.260956	NM_173784	ENSMUSG00000044949	Ubtd2	4930571L24|9630054F20Rik|AI645720	ubiquitin domain containing 2	protein-coding	76.5	145.0	117.5	1069.5	153.0	80.5	74.5	55.0
Merged-chr13-101918378-4	chr13	101918284	101918484	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-150167.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	29.5	28.5	31.5	680.5	64.5	21.0	23.0	22.5
Merged-chr7-110061550-4	chr7	110061425	110061625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009281)	promoter-TSS (NM_009281)	-177.0	NM_009281	20841.0	Mm.10815	NM_009281	ENSMUSG00000061079	Zfp143	AA959806|AU015869|D7Ertd805e|KRAB14|SBF|Staf|Zfp79|Zfp80-rs1|Znf143|pHZ-1	zinc finger protein 143	protein-coding	319.0	481.5	241.5	4219.5	853.0	364.0	324.5	286.0
Merged-chr5-146248904-4	chr5	146248812	146249012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153599, intron 1 of 12)	MMAR1|DNA|TcMar-Mariner	17662.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	55.5	40.5	35.0	648.5	78.0	32.0	40.0	42.5
Merged-chr7-83658840-4	chr7	83658738	83658938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 12 of 18)	intron (NM_001360088, intron 12 of 18)	-3343.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	29.5	40.0	38.0	482.5	96.0	29.5	31.5	33.5
Merged-chr12-102387443-4	chr12	102387334	102387534	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 8 of 9)	intron (NM_177620, intron 8 of 9)	52379.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	18.5	23.0	10.0	241.5	59.0	32.0	28.5	18.0
Merged-chr9-25532335-4	chr9	25532211	25532411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	50714.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	37.5	43.5	51.0	847.5	60.0	33.0	35.5	33.0
Merged-chr1-82761776-6	chr1	82761690	82761890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025453, intron 2 of 3)	intron (NM_025453, intron 2 of 3)	6666.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	20.5	26.0	16.5	245.0	42.5	22.5	18.0	23.0
Merged-chr17-45619120-4	chr17	45619011	45619211	+	938.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17009.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	14.0	22.0	10.5	175.5	74.5	22.0	20.5	13.5
Merged-chr13-10220714-3	chr13	10220615	10220815	+	901.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 2 of 4)	intron (NM_033269, intron 2 of 4)	140088.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	6.5	4.0	9.0	170.5	29.5	6.0	7.5	7.5
Merged-chr17-24073514-4	chr17	24073404	24073604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027008)	promoter-TSS (NM_027008)	-19.0	NM_027008	69259.0	Mm.28171	NM_027008	ENSMUSG00000016946	Kctd5	2610030N08Rik|mKIAA0176	potassium channel tetramerisation domain containing 5	protein-coding	94.0	173.5	78.5	932.0	251.0	104.0	73.5	93.5
Merged-chr4-119174294-4	chr4	119174195	119174395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183140)	promoter-TSS (NM_183140)	-100.0	NM_001145936	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	201.0	301.0	192.0	3554.0	459.5	176.0	261.0	177.0
Merged-chr5-135582574-4	chr5	135582480	135582680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-9531.0	NM_001356630	56221.0	Mm.31505	NM_019577	ENSMUSG00000004814	Ccl24	CKb-6|MPIF-2|Scya24	chemokine (C-C motif) ligand 24	protein-coding	48.5	97.5	51.5	834.0	136.5	51.0	43.5	39.5
Merged-chr13-98896919-4	chr13	98896803	98897003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 1 of 23)	intron (NM_178716, intron 1 of 23)	-5861.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	24.0	32.0	20.5	471.5	89.0	27.5	31.0	34.5
Merged-chr18-64594535-2	chr18	64594435	64594635	+	856.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001488, intron 2 of 27)	intron (NM_001001488, intron 2 of 27)	66465.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	7.5	9.5	11.0	54.5	6.0	0.0	0.5	0.0
Merged-chr4-149504925-4	chr4	149504815	149505015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13326.0	NM_023465	67087.0	Mm.299735	NM_023465	ENSMUSG00000028988	Ctnnbip1	1110008O09Rik|2310001I19Rik|AW457332|Catnbip1|Icat	catenin beta interacting protein 1	protein-coding	22.5	24.5	21.0	481.0	44.0	17.0	31.0	29.0
Merged-chr13-60892982-4	chr13	60892885	60893085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	4462.0	NM_007797	13025.0	Mm.30144	NM_007797	ENSMUSG00000074874	Ctla2b	AW545568|Ctla-2b	cytotoxic T lymphocyte-associated protein 2 beta	protein-coding	50.0	34.0	33.5	718.0	131.0	20.5	47.5	31.5
Merged-chr9-123478575-8	chr9	123478484	123478684	+	945.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013860)	promoter-TSS (NM_013860)	-117.0	NM_013860	29806.0	Mm.10987	NM_013860	ENSMUSG00000025239	Limd1	AW822033|D9Ertd192e	LIM domains containing 1	protein-coding	17.0	24.0	10.5	307.0	54.0	16.5	24.0	23.0
Merged-chr4-145239900-4	chr4	145239776	145239976	+	790.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	6994.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	14.0	9.0	12.5	254.0	24.0	4.5	7.0	14.5
Merged-chr7-3816650-1	chr7	3816550	3816750	+	837.0	f0_c57.idr	intron (NM_001289428, intron 11 of 12)	intron (NM_001289428, intron 11 of 12)	28401.0	NM_011089	18725.0	Mm.482470	NM_011089	ENSMUSG00000089942	Pira2	6M23	paired-Ig-like receptor A2	protein-coding	0.5	2.0	0.0	49.0	8.5	4.5	13.0	20.5
Merged-chr15-100635405-3	chr15	100635298	100635498	+	855.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001285414, exon 1 of 3)	5' UTR (NM_001285414, exon 1 of 3)	161.0	NM_001285414	207818.0	Mm.26282	NM_174992	ENSMUSG00000053559	Smagp	-	small cell adhesion glycoprotein	protein-coding	4.5	8.5	8.0	145.0	13.0	3.0	12.0	3.0
Merged-chr19-29383578-4	chr19	29383476	29383676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 5 of 6)	intron (NM_021893, intron 5 of 6)	16138.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	109.5	203.5	95.0	967.5	260.5	106.5	96.5	70.5
Merged-chr6-52011782-4	chr6	52011668	52011868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018773, intron 1 of 12)	intron (NM_018773, intron 1 of 12)	781.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	44.5	45.0	37.0	600.0	122.0	53.0	38.0	47.5
Merged-chr8-104442943-4	chr8	104442829	104443029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013380, exon 1 of 13)	5' UTR (NM_001013380, exon 1 of 13)	118.0	NM_001013380	234663.0	Mm.289583	NM_001013380	ENSMUSG00000035770	Dync1li2	AA409702|C920003I06|Dncli2|Dnclic2|LIC2	dynein, cytoplasmic 1 light intermediate chain 2	protein-coding	55.5	69.5	95.0	758.0	100.5	44.0	63.5	83.0
Merged-chr8-82843889-4	chr8	82843785	82843985	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19471.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	44.5	21.5	38.5	483.5	41.5	21.0	28.0	24.5
Merged-chr9-21446407-4	chr9	21446289	21446489	+	924.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357721, intron 1 of 19)	intron (NM_001357721, intron 1 of 19)	21481.0	NM_001357719	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	11.0	10.5	6.5	144.0	18.5	4.5	15.0	19.5
Merged-chr3-97998522-2	chr3	97998422	97998622	+	905.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15016.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	10.0	8.0	6.0	65.5	11.5	1.5	3.0	6.0
Merged-chr15-58623642-3	chr15	58623531	58623731	+	741.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	199796.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	7.5	12.0	7.0	167.0	20.0	4.0	2.5	1.5
Merged-chr6-134538940-3	chr6	134538836	134539036	+	870.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 2 of 22)	intron (NM_008514, intron 2 of 22)	27977.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	4.0	6.5	6.0	99.0	36.0	5.5	7.5	12.0
Merged-chr4-53799494-3	chr4	53799384	53799584	+	962.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19779.0	NM_009317	21350.0	Mm.56955	NM_009317	ENSMUSG00000028417	Tal2	bHLHa19	T cell acute lymphocytic leukemia 2	protein-coding	10.0	18.0	17.5	384.5	11.0	8.5	9.0	1.5
Merged-chr2-29624929-4	chr2	29624844	29625044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	5224.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	57.0	93.0	45.5	490.0	97.0	58.0	62.5	38.5
Merged-chr15-86204128-4	chr15	86204061	86204261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10298.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	70.0	83.0	111.5	1450.0	140.5	68.5	98.0	102.0
Merged-chr2-6322727-4	chr2	6322634	6322834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080548)	promoter-TSS (NM_001080548)	-23.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	77.0	103.0	63.5	1121.5	168.0	79.0	91.5	69.0
Merged-chr14-26441620-4	chr14	26441535	26441735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 14 of 22)	intron (NM_001310445, intron 14 of 22)	84088.0	NR_038005	71106.0	Mm.158564	NR_038005	ENSMUSG00000021874	4933413J09Rik	GCSE	RIKEN cDNA 4933413J09 gene	ncRNA	48.5	105.0	33.0	510.0	96.5	35.5	50.0	55.5
Merged-chr7-135699450-4	chr7	135699362	135699562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081117, exon 12 of 14)	exon (NM_001081117, exon 12 of 14)	16917.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	47.5	101.0	63.0	210.0	195.0	60.0	56.5	23.5
Merged-chr15-55381851-4	chr15	55381757	55381957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 11 of 47)	intron (NM_181277, intron 11 of 47)	74107.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	141.5	153.0	155.5	2161.5	275.5	110.0	149.5	114.5
Merged-chr5-105627295-4	chr5	105627207	105627407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72662.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	25.5	30.0	18.5	420.0	67.5	31.5	51.0	26.0
Merged-chr1-179645888-4	chr1	179645780	179645980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-22351.0	NM_178653	109232.0	Mm.136458	NM_178653	ENSMUSG00000038936	Sccpdh	AW214504|C330023F11Rik	saccharopine dehydrogenase (putative)	protein-coding	32.0	50.5	33.0	699.0	52.5	28.0	40.0	38.0
Merged-chr9-61373691-3	chr9	61373639	61373839	+	989.866699	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083928, intron 1 of 19)	CpG	1373.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	4.5	6.0	13.0	62.0	23.0	4.0	8.0	6.5
Merged-chr11-87853254-4	chr11	87853181	87853381	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039684)	promoter-TSS (NM_001039684)	56.0	NM_001039684	380718.0	Mm.24404	NM_001039684	ENSMUSG00000034121	Mks1	AK190930|B8d3|avc6	Meckel syndrome, type 1	protein-coding	22.5	37.5	16.0	316.5	38.0	15.0	19.5	16.0
Merged-chr4-46126641-4	chr4	46126522	46126722	+	825.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355375, intron 4 of 9)	intron (NM_001355375, intron 4 of 9)	11853.0	NM_173033	272027.0	Mm.249594	NM_173033	ENSMUSG00000035495	Tstd2	3010020C06	thiosulfate sulfurtransferase (rhodanese)-like domain containing 2	protein-coding	12.5	10.5	6.5	222.0	10.0	9.0	7.0	7.0
Merged-chr1-74332487-4	chr1	74332392	74332592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019999)	promoter-TSS (NM_019999)	-118.0	NM_019999	56695.0	Mm.384726	NM_019999	ENSMUSG00000026179	Pnkd	2210013N15Rik|2810403H05Rik|AI854243|Brp17|MNCb-5687|MR-1|Tahccp2	paroxysmal nonkinesiogenic dyskinesia	protein-coding	112.0	152.5	100.0	1446.5	203.5	76.0	109.0	94.0
Merged-chr9-63974850-3	chr9	63974739	63974939	+	952.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	47220.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	15.5	12.0	18.5	300.0	15.5	2.5	1.0	5.0
Merged-chr7-130517154-3	chr7	130517075	130517275	+	892.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271343, intron 1 of 11)	MTD|LTR|ERVL-MaLR	2405.0	NM_001136054	11907.0	Mm.216321	NM_013799	ENSMUSG00000030850	Ate1	AI225793|AW547406	arginyltransferase 1	protein-coding	2.5	6.5	5.0	148.5	31.0	6.5	12.0	13.5
Merged-chr3-60080782-4	chr3	60080667	60080867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1102.0	NM_032400	84112.0	Mm.125110	NM_032400	ENSMUSG00000027762	Sucnr1	Gpr91	succinate receptor 1	protein-coding	78.0	100.5	71.5	1053.5	167.0	82.0	50.0	55.0
Merged-chr8-72548950-4	chr8	72548864	72549064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027485)	promoter-TSS (NM_027485)	-654.0	NM_027485	70625.0	Mm.235885	NM_027485	ENSMUSG00000045248	Med26	5730493L18Rik|AI414941|AW495270|Crsp7	mediator complex subunit 26	protein-coding	35.0	58.5	37.0	482.5	79.0	34.5	53.0	41.0
Merged-chr4-16214152-4	chr4	16214042	16214242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 3 of 6)	MTD|LTR|ERVL-MaLR	50032.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	32.5	29.5	36.5	443.0	108.0	24.0	37.5	25.5
Merged-chr11-3382801-4	chr11	3382687	3382887	+	991.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010718, intron 2 of 15)	intron (NM_010718, intron 2 of 15)	-11383.0	NM_173053	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	30.5	93.0	29.0	185.0	109.0	54.5	28.5	21.0
Merged-chr10-37194312-5	chr10	37194259	37194459	+	954.507141	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55433.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	13.0	20.0	16.0	269.0	42.5	11.0	13.5	9.5
Merged-chr4-66861902-3	chr4	66861808	66862008	+	947.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34357.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	16.0	10.0	13.5	276.5	11.0	1.5	3.5	6.0
Merged-chr9-44089456-4	chr9	44089352	44089552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198092, intron 3 of 12)	intron (NM_198092, intron 3 of 12)	4532.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	151.5	181.5	115.5	2215.5	198.5	56.5	109.0	85.5
Merged-chr19-57611321-4	chr19	57611208	57611408	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_181415, exon 1 of 29)	5' UTR (NM_181415, exon 1 of 29)	274.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	15.5	14.5	24.0	211.0	34.0	17.0	12.0	14.0
Merged-chr16-24685197-3	chr16	24685100	24685300	+	870.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 7 of 12)	(A)n|Simple_repeat|Simple_repeat	-36655.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	12.5	7.5	8.0	96.0	19.0	2.5	6.0	4.5
Merged-chr13-117237346-4	chr13	117237240	117237440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010330, intron 2 of 8)	intron (NM_010330, intron 2 of 8)	16767.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	52.5	93.5	79.0	1251.0	90.5	32.0	60.0	40.5
Merged-chr4-40157930-1	chr4	40157830	40158030	+	572.0	f0_c57.idr	intron (NM_007386, intron 1 of 20)	intron (NM_007386, intron 1 of 20)	14665.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	6.5	26.0	7.0	23.5	31.5	8.5	4.0	6.5
Merged-chr5-65086712-4	chr5	65086593	65086793	+	889.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-20875.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	14.5	9.5	25.5	303.5	52.0	11.5	23.5	23.5
Merged-chr2-148731839-3	chr2	148731727	148731927	+	802.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019632, intron 1 of 10)	intron (NM_019632, intron 1 of 10)	593.0	NM_019632	17957.0	Mm.274308	NM_019632	ENSMUSG00000027438	Napb	Brp14|E161|I47|SNARE|b-SNAP	N-ethylmaleimide sensitive fusion protein attachment protein beta	protein-coding	12.5	8.5	7.0	125.5	0.0	5.0	5.0	8.0
Merged-chr14-30825630-4	chr14	30825512	30825712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028839)	promoter-TSS (NM_028839)	18.0	NM_028839	69179.0	Mm.143025	NM_028839	ENSMUSG00000006526	Tmem110	1810038N08Rik|2310014H19Rik|AW554125|STIMATE	transmembrane protein 110	protein-coding	29.0	61.0	36.0	450.5	82.0	45.0	46.0	44.0
Merged-chr17-34837683-4	chr17	34837562	34837762	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019442)	promoter-TSS (NM_019442)	643.0	NM_001163770	112403.0	Mm.275309	NM_033613	ENSMUSG00000040482	Dxo	Dom3z|NG6	decapping exoribonuclease	protein-coding	9.5	20.5	3.0	120.5	62.5	16.5	17.0	20.0
Merged-chr13-93990474-3	chr13	93990383	93990583	+	868.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67313.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	8.5	7.0	5.5	101.0	27.0	4.5	2.0	2.5
Merged-chr4-107922155-3	chr4	107922058	107922258	+	804.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009949, intron 1 of 4)	intron (NM_009949, intron 1 of 4)	1431.0	NM_009949	12896.0	Mm.307620	NM_009949	ENSMUSG00000028607	Cpt2	AI323697|CPTII	carnitine palmitoyltransferase 2	protein-coding	9.5	10.5	4.0	176.0	14.5	5.5	4.5	4.5
Merged-chr11-57934494-4	chr11	57934414	57934614	+	952.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74550.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	13.0	20.0	8.0	198.0	36.5	13.5	16.0	15.0
Merged-chr10-78413016-4	chr10	78412914	78413114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010925)	promoter-TSS (NM_010925)	29.0	NM_010925	18114.0	Mm.38344	NM_010925	ENSMUSG00000061032	Rrp1	AL033305|AL033306|AU018604|NNP-1|Nnp1	ribosomal RNA processing 1 homolog (S. cerevisiae)	protein-coding	109.5	185.0	92.5	1483.0	301.5	100.0	83.0	91.5
Merged-chr5-19724162-3	chr5	19724040	19724240	+	863.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	intron (NM_001170746, intron 2 of 22)	-183378.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	1.0	7.0	7.5	47.0	22.0	13.0	9.5	11.0
Merged-chr3-105802015-6	chr3	105801918	105802118	+	994.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145541)	promoter-TSS (NM_145541)	-637.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	21.0	25.5	16.5	237.5	39.5	6.0	7.5	12.0
Merged-chr9-13298999-4	chr9	13298906	13299106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52050.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	40.5	60.0	48.5	940.5	79.5	24.5	33.0	31.0
Merged-chr3-142494086-4	chr3	142493977	142494177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2857.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	35.0	66.5	31.5	198.5	97.5	39.5	26.5	29.5
Merged-chr2-73453923-4	chr2	73453825	73454025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289722)	promoter-TSS (NM_001289722)	-36.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	27.0	29.5	22.5	381.5	76.0	30.0	29.0	41.0
Merged-chr4-155959489-4	chr4	155959411	155959611	+	861.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001039157)	TTS (NM_001039157)	-2801.0	NM_026125	67389.0	Mm.29140	NM_026125	ENSMUSG00000023571	C1qtnf12	1110035L05Rik|C1qdc2|CTRP12|Fam132a|alipolin	C1q and tumor necrosis factor related 12	protein-coding	18.5	21.5	14.0	221.0	16.5	6.5	6.5	14.5
Merged-chr2-144247513-4	chr2	144247417	144247617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18685.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	68.5	89.0	62.5	1452.5	92.0	38.0	67.0	57.0
Merged-chr17-80728632-4	chr17	80728507	80728707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290345)	promoter-TSS (NM_001290345)	-582.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	33.0	36.5	13.5	434.0	72.5	22.5	32.5	29.0
Merged-chr11-117842238-3	chr11	117842132	117842332	+	853.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5|DNA|TcMar-Tigger	-7005.0	NM_001012273	11799.0	Mm.8552	NM_009689	ENSMUSG00000017716	Birc5	AAC-11|Api4|TIAP|survivin40	baculoviral IAP repeat-containing 5	protein-coding	14.0	14.0	13.5	112.5	20.5	7.5	3.0	7.5
Merged-chr5-9162422-3	chr5	9162335	9162535	+	863.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011806)	promoter-TSS (NM_011806)	-659.0	NR_152861	23857.0	Mm.22480	NM_011806	ENSMUSG00000042508	Dmtf1	Dimp|Dmp1	cyclin D binding myb-like transcription factor 1	protein-coding	9.5	11.5	9.5	122.5	15.5	8.5	13.5	4.5
Merged-chr1-9906013-3	chr1	9905909	9906109	+	722.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2629.0	NM_177722	240697.0	Mm.259800	NM_177722	ENSMUSG00000046101	Mcmdc2	6030422M02Rik	minichromosome maintenance domain containing 2	protein-coding	11.5	9.5	13.5	122.0	26.5	10.5	3.5	13.5
Merged-chr8-71308765-4	chr8	71308604	71308804	+	785.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	intron (NM_001142322, intron 2 of 39)	35990.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	1.5	7.5	2.5	102.5	22.5	7.0	7.5	9.5
Merged-chr1-86359521-4	chr1	86359442	86359642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015507)	promoter-TSS (NR_015507)	-32.0	NR_015507	319336.0	Mm.389155	NR_015507	ENSMUSG00000073627	C130036L24Rik	-	RIKEN cDNA C130036L24 gene	ncRNA	246.0	366.5	218.5	3322.0	678.0	272.5	322.5	222.5
Merged-chr12-85781853-4	chr12	85781755	85781955	+	823.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145447, intron 1 of 9)	intron (NM_145447, intron 1 of 9)	35316.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	22.5	33.0	33.5	307.5	22.0	0.5	13.5	14.0
Merged-chr19-10101850-4	chr19	10101744	10101944	+	800.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019699)	promoter-TSS (NM_019699)	-341.0	NM_019699	56473.0	Mm.38901	NM_019699	ENSMUSG00000024665	Fads2	2900042M13Rik|Fadsd2	fatty acid desaturase 2	protein-coding	5.5	8.0	4.5	89.5	21.0	3.0	12.5	8.5
Merged-chr2-128769203-3	chr2	128769105	128769305	+	863.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 8 of 18)	RLTR11B|LTR|ERVK	-49098.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	13.0	3.5	6.0	92.5	18.5	7.5	5.5	8.0
Merged-chr5-149053087-4	chr5	149052973	149053173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010439)	promoter-TSS (NM_010439)	-16.0	NM_010439	15289.0	Mm.207047	NM_010439	ENSMUSG00000066551	Hmgb1	HMG-1|Hmg1|SBP-1|p30	high mobility group box 1	protein-coding	141.0	177.5	135.0	1736.5	349.5	151.0	193.5	106.0
Merged-chr6-52160243-4	chr6	52160146	52160346	+	984.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131181, intron 1 of 1)	intron (NR_131181, intron 1 of 1)	1722.0	NR_131181	105242658.0	Mm.372521	NR_131181	ENSMUSG00000087658	Hotairm1	Gm15051|Hoxaas1	Hoxa transcript antisense RNA, myeloid-specific 1	ncRNA	15.0	16.5	29.0	383.0	62.5	17.5	45.0	45.5
Merged-chr7-46607463-3	chr7	46607354	46607554	+	858.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013789, intron 8 of 10)	intron (NM_013789, intron 8 of 10)	32353.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	7.0	9.0	5.5	91.0	13.5	9.5	9.0	8.5
Merged-chr7-30956074-4	chr7	30955992	30956192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011680, intron 3 of 9)	CpG-12986	711.0	NM_011680	22282.0	Mm.322453	NM_011680	ENSMUSG00000058239	Usf2	Usf-2|bHLHb12	upstream transcription factor 2	protein-coding	59.0	76.5	64.0	790.5	124.5	43.5	40.0	56.0
Merged-chr6-48539562-4	chr6	48539462	48539662	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347164, intron 2 of 2)	intron (NM_001347164, intron 2 of 2)	1993.0	NM_133764	76252.0	Mm.30214	NM_133764	ENSMUSG00000039347	Atp6v0e2	0610006O14Rik|NM9.2	ATPase, H+ transporting, lysosomal V0 subunit E2	protein-coding	6.0	12.0	6.0	65.5	67.0	24.5	31.0	26.5
Merged-chr3-95315758-1	chr3	95315658	95315858	+	1000.0	f0_balb.idr	intron (NM_029789, intron 1 of 10)	intron (NM_029789, intron 1 of 10)	568.0	NM_029789	76893.0	Mm.181009	NM_029789	ENSMUSG00000015714	Cers2	0610013I17Rik|AI225939|Lass2|TRH3	ceramide synthase 2	protein-coding	14.0	44.5	18.0	206.0	45.0	18.0	24.5	23.0
Merged-chr16-95945606-4	chr16	95945510	95945710	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16533.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	24.5	24.5	18.0	428.5	66.0	20.0	24.0	36.5
Merged-chr13-108057068-2	chr13	108056999	108057199	+	695.75	f0_balb.idr|f1_balb.idr	intron (NM_001127346, intron 3 of 3)	ORR1E|LTR|ERVL-MaLR	12625.0	NM_001048250	75616.0	Mm.491164	NM_001048250	ENSMUSG00000071180	Smim15	2810008M24Rik	small integral membrane protein 15	protein-coding	9.0	5.5	9.5	133.0	10.0	1.0	4.5	5.0
Merged-chr15-73620875-4	chr15	73620769	73620969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033219, intron 1 of 7)	intron (NM_001033219, intron 1 of 7)	-3545.0	NM_001357747	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	67.0	121.0	86.0	1177.0	162.0	67.5	74.0	79.5
Merged-chr6-38950520-4	chr6	38950408	38950608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 2 of 12)	intron (NM_011539, intron 2 of 12)	31522.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	20.0	45.0	23.0	711.0	105.0	28.0	44.0	36.5
Merged-chr14-73138744-4	chr14	73138624	73138824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3786.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	106.0	131.5	79.0	1416.5	237.5	99.5	101.5	89.0
Merged-chr7-55711087-3	chr7	55711010	55711210	+	963.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57074.0	NM_001310740	233274.0	Mm.44425	NM_178706	ENSMUSG00000051504	Siglech	6430529G09Rik|Siglec-H	sialic acid binding Ig-like lectin H	protein-coding	7.5	21.0	11.0	229.0	10.5	11.0	8.5	11.5
Merged-chr15-59201411-3	chr15	59201303	59201503	+	845.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-105545.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	7.0	9.0	4.5	152.0	9.5	9.0	2.5	9.5
Merged-chr11-83631294-4	chr11	83631174	83631374	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18104.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	34.0	35.5	50.5	782.0	53.5	12.5	33.0	31.5
Merged-chr19-29355050-4	chr19	29354930	29355130	+	924.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026362, intron 3 of 5)	intron (NM_026362, intron 3 of 5)	6841.0	NM_026362	67759.0	Mm.275511	NM_026362	ENSMUSG00000016495	Plgrkt	1110007H22Rik|5033414D02Rik|AI852040|Plg-R(KT)|Plg-RKT	plasminogen receptor, C-terminal lysine transmembrane protein	protein-coding	12.0	15.0	14.5	133.5	44.5	15.0	14.5	13.5
Merged-chr2-60817492-4	chr2	60817394	60817594	+	905.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	63944.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	18.5	14.5	24.5	466.5	42.0	11.5	26.0	14.5
Merged-chr16-95732414-6	chr16	95732336	95732536	+	758.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30029.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	8.0	5.0	13.0	124.5	22.0	8.5	7.0	15.0
Merged-chr11-94521467-4	chr11	94521365	94521565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170671)	promoter-TSS (NM_170671)	37.0	NM_170671	104601.0	Mm.84725	NM_170671	ENSMUSG00000039110	Mycbpap	4932408B01Rik|AMAP-1|AW125474	MYCBP associated protein	protein-coding	19.5	47.5	28.5	312.0	65.0	19.5	28.0	32.0
Merged-chr13-119790046-3	chr13	119789957	119790157	+	663.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302550, intron 2 of 6)	intron (NM_001302550, intron 2 of 6)	401.0	NM_001302547	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	8.5	5.0	6.5	89.5	8.0	8.0	5.5	11.5
Merged-chr11-86996560-4	chr11	86996441	86996641	+	774.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2779.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	15.5	9.5	5.0	160.5	19.0	12.0	13.0	14.5
Merged-chr3-54601734-2	chr3	54601635	54601835	+	656.666626	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91080.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	0.0	0.5	0.0	9.0	23.0	9.5	9.5	12.5
Merged-chr14-30951368-4	chr14	30951254	30951454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011849)	promoter-TSS (NM_011849)	-23.0	NM_001308328	23955.0	Mm.251494	NM_011849	ENSMUSG00000021918	Nek4	Stk2	NIMA (never in mitosis gene a)-related expressed kinase 4	protein-coding	86.5	142.0	76.0	1298.0	222.5	95.5	130.5	78.5
Merged-chr15-59800436-3	chr15	59800327	59800527	+	881.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-5468.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	5.5	17.0	6.5	182.0	0.5	1.0	2.5	0.5
Merged-chr15-36540941-3	chr15	36540851	36541051	+	591.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025712, intron 4 of 13)	intron (NM_025712, intron 4 of 13)	14622.0	NM_001347022	66696.0	Mm.253627	NM_025712	ENSMUSG00000013611	Snx31	4631426E05Rik	sorting nexin 31	protein-coding	7.5	8.5	5.5	150.5	7.5	0.5	7.5	4.0
Merged-chr17-23790599-3	chr17	23790495	23790695	+	796.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4379.0	NM_001357140	76917.0	Mm.269613	NM_029798	ENSMUSG00000023911	Flywch2	2810417J12Rik|3010014L17Rik|AW548203	FLYWCH family member 2	protein-coding	5.5	13.5	7.0	51.0	18.5	7.0	10.0	15.0
Merged-chr2-26502490-3	chr2	26502410	26502610	+	792.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008714, intron 1 of 33)	CpG	1312.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	6.0	8.0	4.5	109.5	15.0	2.5	10.0	6.0
Merged-chr1-62697124-3	chr1	62697008	62697208	+	678.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6209.0	NM_001077406	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	6.0	7.0	3.0	136.5	20.5	7.5	5.0	5.0
Merged-chr14-19418182-4	chr14	19418088	19418288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	184399.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	131.0	112.5	263.0	3466.5	210.5	147.5	122.0	280.0
Merged-chr5-146808727-5	chr5	146808495	146808695	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13639.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	11.0	10.5	25.5	267.0	12.0	5.0	6.5	8.5
Merged-chr13-37345336-4	chr13	37345269	37345469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010745)	promoter-TSS (NM_010745)	24.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	42.0	72.0	38.5	433.5	107.0	45.0	45.0	41.0
Merged-chr7-66060534-4	chr7	66060446	66060646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152094, exon 1 of 8)	non-coding (NR_152094, exon 1 of 8)	210.0	NM_021336	68981.0	Mm.22362	NM_021336	ENSMUSG00000030512	Snrpa1	1500015N06Rik	small nuclear ribonucleoprotein polypeptide A'	protein-coding	49.0	65.0	41.0	775.0	81.0	35.5	42.0	45.0
Merged-chr10-62275448-2	chr10	62275348	62275548	+	822.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 19 of 21)	intron (NM_010438, intron 19 of 21)	23010.0	NM_009314	21337.0	Mm.8054	NM_009314	ENSMUSG00000020081	Tacr2	Nk2r|Skr|Tac2r	tachykinin receptor 2	protein-coding	4.0	5.5	1.5	25.0	19.0	7.0	5.0	5.0
Merged-chr11-76454701-2	chr11	76454601	76454801	+	766.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 12 of 21)	intron (NM_001346670, intron 12 of 21)	13764.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	6.0	3.5	3.0	73.5	13.5	6.0	5.0	5.5
Merged-chr9-108626615-3	chr9	108626515	108626715	+	885.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151664, intron 3 of 15)	intron (NR_151664, intron 3 of 15)	22793.0	NM_011790	23807.0	Mm.290447	NM_011790	ENSMUSG00000064145	Arih2	AI843547|ARI2|TRIAD1|UIP48	ariadne RBR E3 ubiquitin protein ligase 2	protein-coding	6.0	13.0	10.0	175.0	12.5	10.0	8.5	3.5
Merged-chr11-120903464-4	chr11	120903375	120903575	+	980.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 5 of 18)	intron (NM_027745, intron 5 of 18)	29397.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	35.0	22.0	17.0	116.5	23.0	12.5	10.5	4.5
Merged-chr14-55635760-4	chr14	55635669	55635869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024267)	promoter-TSS (NM_024267)	-85.0	NM_024267	75751.0	Mm.27546	NM_024267	ENSMUSG00000002319	Ipo4	8430408O15Rik|AA409693|Imp4a|RanBP4	importin 4	protein-coding	126.0	179.5	73.0	1841.0	267.5	107.0	118.5	118.0
Merged-chr17-50504678-4	chr17	50504574	50504774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4873.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	87.5	100.0	54.5	1081.0	150.0	74.5	59.5	77.0
Merged-chr11-50244044-4	chr11	50243964	50244164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5532.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	40.5	87.5	49.5	717.5	114.5	27.0	57.0	45.5
Merged-chr10-34195061-4	chr10	34194955	34195155	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	12496.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	16.0	17.0	16.5	297.0	55.5	11.5	18.5	6.5
Merged-chr9-61965728-4	chr9	61965653	61965853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 5 of 7)	intron (NM_028748, intron 5 of 7)	-18954.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	54.5	64.0	69.5	775.5	123.5	55.0	55.0	35.5
Merged-chr5-132426073-3	chr5	132425970	132426170	+	944.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177047, intron 1 of 19)	ORR1E|LTR|ERVL-MaLR	116273.0	NM_177047	319974.0	Mm.409595	NM_177047	ENSMUSG00000029673	Auts2	2700063G02Rik|A730011F23Rik|D830032G16Rik	autism susceptibility candidate 2	protein-coding	28.5	27.5	20.0	416.5	1.0	1.0	1.0	0.5
Merged-chr1-171815958-4	chr1	171815851	171816051	+	919.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-23746.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	23.5	35.0	16.0	295.5	46.0	23.0	27.0	14.0
Merged-chr2-126708625-2	chr2	126708525	126708725	+	615.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019729, intron 1 of 18)	intron (NM_019729, intron 1 of 18)	1297.0	NM_019729	84092.0	Mm.272629	NM_019729	ENSMUSG00000027363	Usp8	AI574262|AW557536|Ubpy|mKIAA0055	ubiquitin specific peptidase 8	protein-coding	6.5	2.0	1.5	59.0	23.5	5.0	5.0	7.0
Merged-chr14-8214090-4	chr14	8214000	8214200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027782)	promoter-TSS (NM_027782)	19.0	NM_027782	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	253.5	361.5	220.5	3763.0	614.0	225.5	328.0	286.0
Merged-chr11-108353139-3	chr11	108353017	108353217	+	757.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9229.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	10.5	11.0	15.0	258.5	5.0	0.0	0.0	2.5
Merged-chr17-34685865-4	chr17	34685769	34685969	+	833.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031176, exon 8 of 33)	exon (NM_031176, exon 8 of 33)	15334.0	NM_031176	81877.0	Mm.290527	NM_031176	ENSMUSG00000033327	Tnxb	Tn-mhc|Tnx	tenascin XB	protein-coding	13.5	8.0	20.0	111.5	26.5	10.5	14.5	12.0
Merged-chr3-142470212-4	chr3	142470096	142470296	+	971.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26738.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	22.0	76.5	24.0	222.0	59.0	25.0	22.0	13.5
Merged-chr2-131517745-4	chr2	131517646	131517846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 3 of 3)	intron (NM_001177840, intron 3 of 3)	25884.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	34.5	48.5	30.5	459.0	111.0	23.0	37.0	23.5
Merged-chr5-138622840-4	chr5	138622741	138622941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183025)	promoter-TSS (NM_183025)	-18.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	106.5	146.5	53.0	1341.0	229.5	113.5	110.5	101.0
Merged-chr12-108919035-4	chr12	108918945	108919145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	24773.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	68.0	148.0	105.0	970.5	86.0	35.5	51.0	40.5
Merged-chr6-65146543-4	chr6	65146436	65146636	+	849.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1806.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	16.0	14.5	10.0	283.5	36.5	4.0	9.5	8.5
Merged-chr3-97993753-4	chr3	97993634	97993834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19804.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	38.5	46.0	28.0	647.5	64.0	27.5	28.5	19.5
Merged-chr2-166684237-4	chr2	166684101	166684301	+	984.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	29631.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	16.5	28.0	15.0	229.0	38.5	15.0	11.0	9.5
Merged-chr4-141782959-4	chr4	141782882	141783082	+	918.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172338, exon 4 of 15)	exon (NM_172338, exon 4 of 15)	7662.0	NM_172338	214063.0	Mm.39102	NM_172338	ENSMUSG00000040697	Dnajc16	2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962	DnaJ heat shock protein family (Hsp40) member C16	protein-coding	8.0	22.0	11.0	249.5	39.0	14.5	13.5	16.0
Merged-chr15-101221822-4	chr15	101221729	101221929	+	869.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045326, exon 3 of 3)	non-coding (NR_045326, exon 3 of 3)	582.0	NR_045996	105968.0	Mm.120798	NR_045996	ENSMUSG00000115944	AU021063	-	expressed sequence AU021063	ncRNA	19.0	23.5	9.5	73.0	21.0	5.5	11.0	11.5
Merged-chr6-136551117-3	chr6	136551017	136551217	+	905.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	32266.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	19.0	27.5	6.5	146.0	28.0	4.5	4.0	7.5
Merged-chr5-21760122-2	chr5	21760022	21760222	+	881.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009584, intron 15 of 16)	intron (NM_009584, intron 15 of 16)	22962.0	NM_028431	73078.0	Mm.301655	NM_028431	ENSMUSG00000029017	Pmpcb	3110004O18Rik|MPP11|MPPB|MPPP52	peptidase (mitochondrial processing) beta	protein-coding	10.0	6.0	4.0	59.5	12.5	4.5	14.5	9.5
Merged-chr17-29432836-3	chr17	29432748	29432948	+	827.4111330000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-58197.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	7.0	6.0	0.0	68.5	32.0	7.0	6.5	13.5
Merged-chr14-70075589-4	chr14	70075531	70075731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1814.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	17.0	19.5	12.0	208.5	62.0	29.5	35.5	32.0
Merged-chr2-164523557-2	chr2	164523403	164523603	+	788.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	25978.0	NM_133779	78928.0	Mm.28228	NM_133779	ENSMUSG00000017721	Pigt	2510012P17Rik|4930534E15Rik|CGI-06|NDAP|Ndap7	phosphatidylinositol glycan anchor biosynthesis, class T	protein-coding	6.0	28.5	6.0	73.0	4.5	2.0	0.5	1.0
Merged-chr4-58304747-1	chr4	58304647	58304847	+	794.0	f0_balb.idr	intron (NM_001037130, intron 5 of 12)	intron (NM_001037130, intron 5 of 12)	18785.0	NM_010944	18198.0	Mm.16148	NM_010944	ENSMUSG00000057280	Musk	Mdk4|Mlk|Nsk1|Nsk2|Nsk3	muscle, skeletal, receptor tyrosine kinase	protein-coding	13.5	12.5	5.5	161.5	0.0	0.0	0.5	1.5
Merged-chr7-30308675-4	chr7	30308580	30308780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198027)	promoter-TSS (NM_198027)	-73.0	NM_198027	233065.0	Mm.276277	NM_198027	ENSMUSG00000042831	Alkbh6	AI839550|Abh6|C130099A02	alkB homolog 6	protein-coding	204.0	313.5	182.0	3647.5	442.5	177.5	277.5	154.5
Merged-chr10-4155741-3	chr10	4155640	4155840	+	719.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172308, exon 28 of 28)	3' UTR (NM_172308, exon 28 of 28)	57380.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	4.5	9.0	14.5	207.0	5.5	0.5	0.0	3.5
Merged-chr4-109120926-4	chr4	109120827	109121027	+	960.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355190, intron 2 of 21)	L1MC1|LINE|L1	-2891.0	NM_001134791	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	10.0	17.5	18.0	261.0	46.5	15.5	17.5	30.5
Merged-chr11-115199352-2	chr11	115199266	115199466	+	1000.0	f0_c57.idr|f1_balb.idr	intron (NM_001033393, intron 3 of 9)	intron (NM_001033393, intron 3 of 9)	11879.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	7.0	19.5	11.5	130.0	106.0	32.5	59.5	37.5
Merged-chr19-46499967-4	chr19	46499875	46500075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1673.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	140.0	197.5	95.5	1255.5	461.0	145.0	140.5	143.5
Merged-chr16-15863397-4	chr16	15863310	15863510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029354)	promoter-TSS (NM_029354)	-41.0	NM_001359003	72083.0	Mm.22351	NM_029354	ENSMUSG00000022671	Mzt2	2410018G20Rik|2610001E06Rik|Fam128|Fam128b	mitotic spindle organizing protein 2	protein-coding	89.0	150.0	58.0	1195.0	310.0	91.5	129.0	95.0
Merged-chr7-100430142-4	chr7	100430031	100430231	+	889.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001017985, exon 21 of 33)	exon (NM_001017985, exon 21 of 33)	-42860.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	15.5	21.0	33.0	422.5	23.5	14.5	20.5	15.0
Merged-chr13-113479441-4	chr13	113479323	113479523	+	935.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 3 of 6)	intron (NR_045501, intron 3 of 6)	23421.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	9.5	25.5	26.0	230.5	41.5	9.0	19.5	8.0
Merged-chr12-84188442-4	chr12	84188321	84188521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	5594.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	43.0	56.5	39.0	376.0	88.5	38.0	28.0	30.5
Merged-chr12-80083366-4	chr12	80083260	80083460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29653.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	26.0	36.5	31.0	565.5	50.0	18.0	31.0	29.5
Merged-chr19-55774999-4	chr19	55774911	55775111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	33201.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	48.5	60.0	48.5	881.0	106.0	45.0	40.0	38.0
Merged-chr2-91090431-3	chr2	91090324	91090524	+	837.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6254.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	12.0	13.0	10.5	106.5	35.5	5.0	11.0	6.5
Merged-chr3-117868977-4	chr3	117868903	117869103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029655)	promoter-TSS (NM_029655)	-67.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	132.0	158.0	149.0	2565.5	358.0	96.0	224.5	138.0
Merged-chr10-111031644-4	chr10	111031547	111031747	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21581.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	19.5	19.0	23.5	329.5	29.5	21.0	14.5	21.5
Merged-chr10-99451394-4	chr10	99451277	99451477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157794.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	55.0	55.5	22.5	519.0	124.0	32.0	40.5	35.0
Merged-chr6-146272488-3	chr6	146272391	146272591	+	880.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 37 of 56)	intron (NM_019923, intron 37 of 56)	229732.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	10.0	7.5	11.5	101.5	17.5	3.0	8.0	3.0
Merged-chr10-44470548-4	chr10	44470429	44470629	+	804.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11781.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	11.0	7.0	11.0	81.0	20.0	3.0	6.5	10.5
Merged-chr13-12027810-2	chr13	12027710	12027910	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023868, intron 1 of 104)	intron (NM_023868, intron 1 of 104)	79135.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	6.5	7.5	6.0	224.5	25.5	7.0	5.5	6.5
Merged-chr11-116095760-4	chr11	116095641	116095841	+	849.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8746.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	6.0	8.0	14.5	111.0	24.5	18.5	10.0	17.0
Merged-chr2-28592658-2	chr2	28592558	28592758	+	769.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9379.0	NM_001290484	70239.0	Mm.274120	NM_148928	ENSMUSG00000026816	Gtf3c5	2700084A09Rik|TFIIIC63|TFiiiC2-63	general transcription factor IIIC, polypeptide 5	protein-coding	6.5	4.0	2.0	42.5	9.5	11.5	4.5	9.0
Merged-chr13-17960807-4	chr13	17960710	17960910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16593.0	NM_019491	56044.0	Mm.27348	NM_019491	ENSMUSG00000008859	Rala	3010001O15Rik|AW322615|Ral|Rasl1	v-ral simian leukemia viral oncogene A (ras related)	protein-coding	32.0	21.5	34.0	561.5	63.0	20.0	29.0	27.5
Merged-chr14-20803708-4	chr14	20803550	20803750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9411.0	NR_153779	102631887.0	Mm.122292	NR_153779	ENSMUSG00000114241	Gm30108	-	predicted gene, 30108	ncRNA	19.0	36.5	9.5	333.5	59.0	34.0	30.0	45.5
Merged-chr12-112976957-2	chr12	112976857	112977057	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001145900, exon 2 of 5)	exon (NM_001145900, exon 2 of 5)	394.0	NM_201646	399566.0	Mm.440140	NM_201646	ENSMUSG00000002803	Btbd6	-	BTB (POZ) domain containing 6	protein-coding	5.5	7.5	16.5	71.0	6.0	5.0	5.5	8.0
Merged-chr19-41367372-4	chr19	41367286	41367486	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	17684.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	27.5	52.5	22.5	288.0	39.5	14.0	18.0	8.5
Merged-chr4-95688341-4	chr4	95688229	95688429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 5 of 10)	intron (NM_029347, intron 5 of 10)	108908.0	NM_029347	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	66.5	72.0	57.5	1122.5	157.5	36.0	65.5	63.0
Merged-chr1-86007984-4	chr1	86007879	86008079	+	919.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13963.0	NM_001122732	70060.0	Mm.196313	NM_027029	ENSMUSG00000026226	Spata3	1700011N12Rik|1700029H01Rik|4930424D10Rik|Mtsarg1|Tsarg1	spermatogenesis associated 3	protein-coding	13.0	30.0	12.0	114.5	63.0	24.0	23.0	10.5
Merged-chr16-36067604-1	chr16	36067504	36067704	+	596.0	f0_balb.idr	intron (NM_027342, intron 1 of 4)	B3A|SINE|B2	3911.0	NM_027342	70186.0	Mm.212991	NM_027342	ENSMUSG00000003955	Fam162a	2310056P07Rik|HGTD-P	family with sequence similarity 162, member A	protein-coding	6.0	8.0	10.0	84.5	24.0	9.5	9.5	6.5
Merged-chr10-20349670-4	chr10	20349562	20349762	+	889.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027930, intron 2 of 6)	MTC|LTR|ERVL-MaLR	1843.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	16.0	17.5	12.0	161.5	42.0	13.5	5.0	16.5
Merged-chr4-120381180-4	chr4	120381083	120381283	+	839.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24098.0	NM_001159630	29871.0	Mm.427014	NM_013883	ENSMUSG00000000085	Scmh1	AI315320|AI851618|Scml1|Scml3	sex comb on midleg homolog 1	protein-coding	6.5	26.5	6.0	134.5	29.0	11.5	15.0	12.0
Merged-chr5-62761453-4	chr5	62761343	62761543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	4734.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	25.5	43.0	37.5	433.5	57.5	21.5	27.0	29.5
Merged-chr4-55530343-4	chr4	55530242	55530442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010637, exon 3 of 5)	exon (NM_010637, exon 3 of 5)	2133.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	98.0	114.0	84.0	1743.0	212.0	62.5	109.5	103.5
Merged-chr11-32347801-4	chr11	32347692	32347892	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177364)	promoter-TSS (NM_177364)	-19.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	18.0	14.0	14.5	363.5	48.0	19.5	22.0	23.0
Merged-chr5-74820556-1	chr5	74820456	74820656	+	779.0	f0_balb.idr	Intergenic	Intergenic	-117653.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	8.5	6.5	14.0	291.0	1.0	0.0	0.0	1.5
Merged-chr3-122191199-2	chr3	122191099	122191299	+	657.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54358.0	NM_008129	14630.0	Mm.292676	NM_008129	ENSMUSG00000028124	Gclm	AI649393|Gcmc|Glclr	glutamate-cysteine ligase, modifier subunit	protein-coding	8.5	6.5	6.0	47.0	9.5	3.0	7.5	4.0
Merged-chr18-31914644-3	chr18	31914538	31914738	+	820.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2735.0	NM_026006	67158.0	Mm.31537	NM_026006	ENSMUSG00000044982	Sft2d3	2610206C24Rik|AI847965|AW046173	SFT2 domain containing 3	protein-coding	3.0	9.5	5.0	148.5	16.0	14.0	4.5	6.5
Merged-chr4-46565817-4	chr4	46565704	46565904	+	901.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178893, intron 1 of 12)	intron (NM_178893, intron 1 of 12)	636.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	21.0	4.0	33.5	383.5	32.0	6.5	6.5	11.5
Merged-chr6-67376237-4	chr6	67376142	67376342	+	949.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008354)	promoter-TSS (NM_008354)	-54.0	NM_008354	16162.0	Mm.188337	NM_008354	ENSMUSG00000018341	Il12rb2	A930027I18Rik|IL-12RB2|Ifnm	interleukin 12 receptor, beta 2	protein-coding	41.5	55.5	64.0	993.5	43.5	9.5	17.5	20.5
Merged-chr3-27938587-4	chr3	27938512	27938712	+	777.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164056)	promoter-TSS (NM_001164056)	-68.0	NM_001164056	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	10.5	11.5	8.0	181.5	10.5	9.0	15.0	13.5
Merged-chr11-50916209-4	chr11	50916096	50916296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178447)	promoter-TSS (NM_178447)	-20.0	NM_001294323	22678.0	Mm.259230	NM_009550	ENSMUSG00000049321	Zfp2	9930007F06Rik|Fnp-2|Zfp-2|mKR2|mkr-2|mszf87	zinc finger protein 2	protein-coding	74.5	65.0	38.0	899.0	110.0	32.0	68.0	54.5
Merged-chr13-23574892-4	chr13	23574791	23574991	+	889.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178204)	promoter-TSS (NM_178204)	510.0	NM_178188	319165.0	Mm.390553	NM_178188	ENSMUSG00000071478	Hist1h2ad	-	histone cluster 1, H2ad	protein-coding	17.0	20.5	10.0	164.0	59.0	9.5	17.5	33.0
Merged-chr17-33781293-4	chr17	33781199	33781399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020581, exon 1 of 7)	exon (NM_020581, exon 1 of 7)	276.0	NM_020581	57875.0	Mm.196189	NM_020581	ENSMUSG00000002289	Angptl4	Arp4|Bk89|Fiaf|Hfarp|Ng27|Pgar|Pgarg|Pp1158	angiopoietin-like 4	protein-coding	62.5	75.0	52.0	724.0	79.0	45.0	37.5	43.0
Merged-chr13-24616771-4	chr13	24616656	24616856	+	689.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178658, intron 1 of 13)	intron (NM_178658, intron 1 of 13)	2150.0	NM_178658	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	12.5	9.0	8.0	144.5	20.5	2.0	9.5	16.0
Merged-chr1-156559906-2	chr1	156559806	156560006	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	1119.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	10.5	3.0	2.5	19.5	11.0	8.5	5.0	10.5
Merged-chr6-125231761-4	chr6	125231657	125231857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001286753)	TTS (NM_001286753)	103.0	NM_145391	213233.0	Mm.296902	NM_145391	ENSMUSG00000038213	Tapbpl	BC017613|TAPBPL-R|Tapbplr	TAP binding protein-like	protein-coding	43.5	95.0	16.5	459.0	170.0	47.0	52.5	34.5
Merged-chr19-46186727-3	chr19	46186629	46186829	+	967.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178930, intron 3 of 39)	intron (NM_178930, intron 3 of 39)	34171.0	NM_178930	107338.0	Mm.271620	NM_178930	ENSMUSG00000025224	Gbf1	1700083E03Rik|AI035702|AW049900|mKIAA0248	golgi-specific brefeldin A-resistance factor 1	protein-coding	5.0	21.0	6.5	133.5	16.5	1.5	4.0	5.5
Merged-chr11-46875837-4	chr11	46875751	46875951	+	948.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65052.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	6.0	31.0	19.5	123.5	64.0	13.5	31.5	12.0
Merged-chr1-91043595-4	chr1	91043521	91043721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-9823.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	23.0	27.5	25.0	492.0	38.5	17.5	17.5	31.0
Merged-chr5-135149501-4	chr5	135149406	135149606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013763)	promoter-TSS (NM_013763)	-205.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	394.0	655.5	387.0	5289.0	802.0	377.0	480.0	316.0
Merged-chr17-84466257-4	chr17	84466182	84466382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183021)	promoter-TSS (NM_183021)	-74.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	156.5	219.0	100.0	2029.0	387.5	183.5	175.5	149.0
Merged-chr10-94090249-3	chr10	94090138	94090338	+	997.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 5 of 20)	intron (NM_053072, intron 5 of 20)	54237.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	5.0	0.5	4.5	41.0	36.0	22.0	24.0	24.5
Merged-chr2-152707740-4	chr2	152707587	152707787	+	933.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159551, exon 13 of 13)	3' UTR (NM_001159551, exon 13 of 13)	20539.0	NM_025543	66405.0	Mm.440291	NM_025543	ENSMUSG00000042814	Mcts2	2400002F11Rik|MCT-2	malignant T cell amplified sequence 2	protein-coding	15.0	28.5	8.0	161.5	36.0	10.0	13.5	23.0
Merged-chr3-95357221-4	chr3	95357094	95357294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018877)	promoter-TSS (NM_018877)	8.0	NM_001163641	84505.0	Mm.490259	NM_018877	ENSMUSG00000015697	Setdb1	AU022152|ESET|KMT1E|mKIAA0067	SET domain, bifurcated 1	protein-coding	39.5	60.0	27.0	474.5	110.0	41.5	28.5	44.5
Merged-chr8-94377221-4	chr8	94377113	94377313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9216.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	79.0	139.0	76.5	1380.5	228.0	83.5	104.0	84.0
Merged-chr6-48832663-4	chr6	48832583	48832783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8305.0	NM_023056	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	64.0	103.0	105.5	953.0	159.0	49.0	58.5	47.0
Merged-chr8-18936896-4	chr8	18936792	18936992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176951, intron 6 of 6)	(CAAAA)n|Simple_repeat|Simple_repeat	13979.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	56.5	45.0	31.5	458.0	119.5	59.0	58.0	52.0
Merged-chr16-75887010-1	chr16	75886910	75887110	+	1000.0	f0_c57.idr	intron (NM_023380, intron 2 of 7)	intron (NM_023380, intron 2 of 7)	22256.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	12.0	30.0	7.5	262.0	51.0	18.5	12.5	7.5
Merged-chr4-45795292-4	chr4	45795188	45795388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3734.0	NM_028270	72535.0	Mm.331583	NM_028270	ENSMUSG00000035561	Aldh1b1	2700007F14Rik	aldehyde dehydrogenase 1 family, member B1	protein-coding	31.5	40.5	33.5	547.5	118.0	21.5	46.5	46.5
Merged-chr3-89242650-4	chr3	89242560	89242760	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121683, intron 3 of 10)	intron (NR_121683, intron 3 of 10)	2353.0	NR_121683	360213.0	Mm.331156	NM_183037	ENSMUSG00000042766	Trim46	TRIFIC	tripartite motif-containing 46	protein-coding	24.5	32.0	18.0	365.0	61.5	36.0	22.0	23.0
Merged-chr11-32556621-4	chr11	32556593	32556793	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	23427.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	18.0	28.5	29.5	281.0	27.5	11.0	10.0	15.0
Merged-chr12-91799167-2	chr12	91799067	91799267	+	716.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12731.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	5.5	5.0	4.5	41.0	6.0	5.5	5.0	7.5
Merged-chr18-53088456-3	chr18	53088362	53088562	+	878.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87830.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	1.0	5.0	1.5	54.5	32.0	10.5	10.5	10.0
Merged-chr13-69810384-4	chr13	69810275	69810475	+	899.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138596, intron 1 of 3)	intron (NM_138596, intron 1 of 3)	493.0	NM_138596	28077.0	Mm.52583	NM_138596	ENSMUSG00000021598	Med10	AA959813|AI385605|C78613|D13Wsu50e	mediator complex subunit 10	protein-coding	17.0	14.5	20.5	242.0	23.0	12.0	13.0	16.0
Merged-chr4-43031428-4	chr4	43031319	43031519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023231)	promoter-TSS (NM_023231)	-35.0	NM_023231	66592.0	Mm.331565	NM_023231	ENSMUSG00000028455	Stoml2	0610038F01Rik|MSLP2|SLP-2	stomatin (Epb7.2)-like 2	protein-coding	57.0	55.5	49.0	736.5	118.5	43.0	64.5	73.0
Merged-chr5-102011064-6	chr5	102010956	102011156	+	921.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	58865.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	8.0	5.5	13.0	92.5	22.0	6.5	4.5	7.5
Merged-chr18-88824731-4	chr18	88824630	88824830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	69477.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	55.0	108.5	78.5	1661.5	168.5	58.5	86.5	58.5
Merged-chr11-29429002-4	chr11	29428902	29429102	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176841, intron 5 of 31)	MIRb|SINE|MIR	54830.0	NM_176841	108686.0	Mm.338284	NM_176841	ENSMUSG00000032740	Ccdc88a	A430106J12Rik|AI848406|Ape|C130096N06Rik|C330012F17Rik|D130005J21Rik|Girdin|Giv|Grdn|Hkrp1	coiled coil domain containing 88A	protein-coding	25.0	19.5	31.0	714.0	71.5	29.5	30.5	23.5
Merged-chr7-80032975-4	chr7	80032869	80033069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	6741.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	54.0	81.0	78.5	966.5	67.0	36.5	51.0	59.0
Merged-chr11-106657093-4	chr11	106656994	106657194	+	960.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001032378, intron 13 of 13)	intron (NM_001032378, intron 13 of 13)	-44164.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	29.0	26.0	13.5	303.5	39.5	10.0	16.0	19.0
Merged-chr9-118554697-3	chr9	118554628	118554828	+	932.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018748, intron 14 of 23)	intron (NM_018748, intron 14 of 23)	48410.0	NM_018748	54214.0	Mm.10409	NM_018748	ENSMUSG00000038708	Golga4	AI225887|AU019508|Olp-1	golgi autoantigen, golgin subfamily a, 4	protein-coding	14.0	4.5	5.5	107.5	3.5	2.0	0.5	1.0
Merged-chr9-100570784-3	chr9	100570699	100570899	+	912.276184	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101483, intron 1 of 1)	CpG	286.0	NM_001101483	245020.0	Mm.236289	NM_001101483	ENSMUSG00000070287	Slc35g2	Gm519|Tmem22	solute carrier family 35, member G2	protein-coding	6.5	16.5	14.5	244.0	12.0	4.0	9.0	15.0
Merged-chr19-56637334-4	chr19	56637247	56637447	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85025.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	7.5	11.5	24.5	479.5	18.5	5.0	22.0	13.5
Merged-chr10-96459377-4	chr10	96459282	96459482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157619.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	115.5	192.0	135.5	1818.0	260.5	78.5	104.0	80.5
Merged-chr15-97517988-4	chr15	97517880	97518080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187842.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	47.5	81.0	115.0	1140.5	109.5	24.0	50.0	24.0
Merged-chr16-35932377-4	chr16	35932294	35932494	+	960.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013371, exon 3 of 5)	exon (NM_001013371, exon 3 of 5)	-6076.0	NM_030253	80285.0	Mm.49074	NM_030253	ENSMUSG00000022906	Parp9	ARTD9|AW214463|BC003281|Bagl|Bal|PARP-9	poly (ADP-ribose) polymerase family, member 9	protein-coding	7.0	17.5	14.0	290.0	50.0	8.0	15.0	19.0
Merged-chr15-59003863-4	chr15	59003771	59003971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	70061.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	12.5	26.0	19.0	470.0	42.5	16.5	9.5	10.5
Merged-chr7-101361275-4	chr7	101361191	101361391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	13222.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	48.0	71.0	52.5	741.0	108.0	41.0	47.0	42.5
Merged-chr11-22815417-4	chr11	22815318	22815518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	44317.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	36.0	46.5	26.0	480.0	80.0	21.0	28.5	29.5
Merged-chr10-118882740-4	chr10	118882639	118882839	+	872.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13836.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	15.5	21.0	19.5	101.5	31.5	16.0	7.5	4.0
Merged-chr10-75591719-4	chr10	75591620	75591820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359425, intron 1 of 7)	intron (NM_001359425, intron 1 of 7)	2339.0	NR_153110	23887.0	Mm.257927	NM_011820	ENSMUSG00000006344	Ggt5	AI551243|GGL|GGT-REL|Ggtla1	gamma-glutamyltransferase 5	protein-coding	99.5	122.5	75.0	1722.5	196.0	45.5	99.0	96.0
Merged-chr16-49853839-1	chr16	49853739	49853939	+	694.0	f0_balb.idr	Intergenic	Intergenic	-1815.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	5.5	9.5	9.5	100.5	13.5	5.5	1.5	1.0
Merged-chr2-174672690-4	chr2	174672629	174672829	+	865.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099328, intron 3 of 4)	intron (NM_001099328, intron 3 of 4)	29195.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	8.0	17.5	6.5	86.5	30.5	10.5	6.5	10.0
Merged-chr11-50269419-2	chr11	50269319	50269519	+	702.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	B2_Mm2|SINE|B2	22917.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	2.5	9.0	9.5	54.5	18.5	5.5	7.0	6.0
Merged-chr19-4497765-2	chr19	4497665	4497865	+	859.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_027237, intron 1 of 1)	intron (NM_027237, intron 1 of 1)	818.0	NM_027237	69861.0	Mm.282978	NM_027237	ENSMUSG00000042041	2010003K11Rik	-	RIKEN cDNA 2010003K11 gene	protein-coding	10.5	6.5	6.0	23.5	13.5	4.5	7.5	5.5
Merged-chr3-79982564-4	chr3	79982456	79982656	+	940.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	96626.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	15.0	32.5	35.0	275.5	26.5	7.0	20.0	20.0
Merged-chr10-44071293-4	chr10	44071195	44071395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66449.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	33.5	30.5	28.5	457.0	69.5	24.0	30.5	27.0
Merged-chr19-24997367-4	chr19	24997293	24997493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2136.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	21.5	35.5	26.5	622.5	71.0	33.0	21.0	30.5
Merged-chr4-63424248-4	chr4	63424143	63424343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008792, intron 7 of 11)	intron (NM_001008792, intron 7 of 11)	-20798.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	18.0	52.0	31.0	404.5	117.0	37.0	54.5	29.0
Merged-chr3-51276727-4	chr3	51276627	51276827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073429)	promoter-TSS (NR_073429)	-34.0	NR_073429	67746.0	Mm.441177	NR_073429	ENSMUSG00000087440	4930577N17Rik	-	RIKEN cDNA 4930577N17 gene	ncRNA	39.0	64.0	43.5	633.0	119.0	41.5	49.5	52.0
Merged-chr10-19937114-4	chr10	19937011	19937211	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	2585.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	68.5	123.0	67.5	569.0	63.5	42.0	20.5	20.5
Merged-chr12-35711782-6	chr12	35711651	35711851	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16633.0	NR_045050	71581.0	Mm.100110	NR_045050	ENSMUSG00000113985	9130015A21Rik	100043575|Gm4527	RIKEN cDNA 9130015A21 gene	ncRNA	31.0	29.5	39.0	557.5	33.5	9.0	14.0	18.5
Merged-chr6-148436607-4	chr6	148436524	148436724	+	962.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198967, intron 1 of 19)	intron (NM_198967, intron 1 of 19)	7728.0	NM_198967	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	16.5	17.5	17.0	318.0	40.0	13.0	17.5	12.0
Merged-chr1-162665705-4	chr1	162665597	162665797	+	952.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7478.0	NM_001177581	100038657.0	Mm.416999	NM_001177581	ENSMUSG00000091060	Myocos	7420461P10Rik	myocilin opposite strand	protein-coding	19.0	37.0	44.0	519.0	19.0	15.0	23.0	13.0
Merged-chr15-78826765-4	chr15	78826666	78826866	+	910.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15881.0	NM_027219	104445.0	Mm.307488	NM_027219	ENSMUSG00000049521	Cdc42ep1	1810058K22Rik|AA980734|Borg5|CEP1|MSE55	CDC42 effector protein (Rho GTPase binding) 1	protein-coding	16.0	17.0	7.0	99.0	47.0	13.0	12.5	9.0
Merged-chr5-140105944-4	chr5	140105854	140106054	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359025, intron 14 of 17)	intron (NM_001359025, intron 14 of 17)	68964.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	31.0	17.5	41.5	455.5	45.5	9.0	42.5	15.5
Merged-chr13-99218640-3	chr13	99218536	99218736	+	976.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	33813.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	16.5	6.5	16.5	261.0	32.0	4.5	7.0	6.0
Merged-chr1-64197852-4	chr1	64197740	64197940	+	937.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76451.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	6.0	22.0	9.5	177.5	78.0	21.5	15.5	22.0
Merged-chr8-105637253-1	chr8	105637153	105637353	+	872.5	f0_balb.idr	promoter-TSS (NR_151743)	promoter-TSS (NR_151743)	97.0	NR_151743	546100.0	Mm.471801	NR_151742	ENSMUSG00000098120	Gm5914	-	predicted gene 5914	ncRNA	16.0	13.5	16.0	90.5	26.5	6.0	15.0	24.5
Merged-chr10-127599619-4	chr10	127599503	127599703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	21545.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	88.5	199.0	108.5	1348.5	194.5	75.0	79.5	87.0
Merged-chr8-10841285-4	chr8	10841175	10841375	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41179.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	36.5	43.0	63.0	767.0	43.5	13.5	21.5	18.0
Merged-chr11-32534132-4	chr11	32534038	32534238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	872.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	49.0	76.5	68.0	985.5	105.0	25.0	40.0	41.0
Merged-chr5-130219642-4	chr5	130219541	130219741	+	896.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081394)	promoter-TSS (NM_001081394)	-103.0	NM_001081394	71667.0	Mm.258508	NM_027854	ENSMUSG00000053094	Tmem248	0610007L01Rik|A930023A16Rik|AW557951|G430067H08Rik	transmembrane protein 248	protein-coding	10.5	20.5	14.0	138.5	35.0	10.5	7.5	18.5
Merged-chr7-141009154-4	chr7	141009055	141009255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025378)	TTS (NM_025378)	1589.0	NM_025378	66141.0	Mm.141021	NM_025378	ENSMUSG00000025492	Ifitm3	1110004C05Rik|Cd225|Cdw217|DSPA2b|Fgls|IP15|mil-1	interferon induced transmembrane protein 3	protein-coding	57.5	78.0	30.5	588.0	126.5	50.0	48.5	61.0
Merged-chr5-8672075-4	chr5	8671995	8672195	+	883.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011076, intron 5 of 29)	intron (NM_011076, intron 5 of 29)	-49143.0	NM_198620	242819.0	Mm.332192	NM_198620	ENSMUSG00000040570	Rundc3b	Gm440	RUN domain containing 3B	protein-coding	18.0	16.0	11.5	347.5	43.0	9.5	10.0	12.5
Merged-chr7-19029481-3	chr7	19029375	19029575	+	868.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360713, intron 3 of 22)	intron (NM_001360713, intron 3 of 22)	5098.0	NM_026605	68188.0	Mm.130902	NM_026605	ENSMUSG00000023118	Sympk	1500016F02Rik|4632415H16Rik|AA125406|AI449890|SPK|SYM	symplekin	protein-coding	11.5	10.0	6.0	59.5	24.5	4.5	10.0	15.0
Merged-chr8-91082153-4	chr8	91082088	91082288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282000, intron 4 of 20)	intron (NM_001282000, intron 4 of 20)	12131.0	NM_001282000	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	101.5	190.0	89.5	765.5	166.0	82.5	72.5	43.5
Merged-chr7-12478312-4	chr7	12478232	12478432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039951)	promoter-TSS (NM_001039951)	27.0	NM_026112	67370.0	Mm.98929	NM_026112	ENSMUSG00000030386	Zfp606	2410022M24Rik|AW494727	zinc finger protein 606	protein-coding	93.0	105.0	57.5	1467.5	175.5	46.0	109.5	68.0
Merged-chr11-116626937-1	chr11	116626837	116627037	+	555.0	f0_c57.idr	promoter-TSS (NM_172572)	promoter-TSS (NM_172572)	82.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	4.0	15.5	9.0	74.0	16.5	5.0	10.0	11.0
Merged-chr1-33670431-4	chr1	33670334	33670534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008922)	promoter-TSS (NM_008922)	610.0	NR_033199	67503.0	Mm.87069	NM_026204	ENSMUSG00000103746	1700001G17Rik	-	RIKEN cDNA 1700001G17 gene	ncRNA	51.0	50.5	40.5	852.0	85.0	18.5	57.5	57.0
Merged-chr4-116336470-3	chr4	116336365	116336565	+	686.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042743, intron 6 of 29)	RLTR12B|LTR|ERVK	113718.0	NM_001355586	18710.0	Mm.253819	NM_181585	ENSMUSG00000028698	Pik3r3	AA414954|p55|p55pik	phosphoinositide-3-kinase regulatory subunit 3	protein-coding	8.5	10.5	3.0	23.0	19.0	5.5	10.0	4.5
Merged-chr7-79846758-4	chr7	79846664	79846864	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008486, intron 1 of 20)	intron (NM_008486, intron 1 of 20)	1446.0	NM_008486	16790.0	Mm.4487	NM_008486	ENSMUSG00000039062	Anpep	AP-M|AP-N|Apn|Cd13|P150	alanyl (membrane) aminopeptidase	protein-coding	13.0	16.0	22.0	193.0	48.0	9.5	19.0	21.0
Merged-chr16-32607766-3	chr16	32607667	32607867	+	902.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-1129.0	NM_011638	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	8.5	12.0	10.0	114.0	15.0	6.0	8.0	15.0
Merged-chr7-67369816-4	chr7	67369720	67369920	+	805.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 1 of 11)	intron (NM_001357324, intron 1 of 11)	3038.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	5.0	34.5	9.5	73.5	42.0	17.0	21.5	5.5
Merged-chr3-126403009-2	chr3	126402908	126403108	+	703.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173451, intron 1 of 1)	intron (NM_173451, intron 1 of 1)	39156.0	NM_173451	271970.0	Mm.317021	NM_173451	ENSMUSG00000046561	Arsj	9330196J05Rik|D830047F08	arylsulfatase J	protein-coding	5.0	8.0	10.5	63.5	13.0	3.5	8.5	8.5
Merged-chr5-117891766-4	chr5	117891691	117891891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	intron (NM_008712, intron 2 of 27)	24952.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	70.0	89.0	100.5	1035.0	125.0	39.0	34.0	42.0
Merged-chr13-64315779-4	chr13	64315714	64315914	+	929.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3104.0	NM_025370	66129.0	Mm.491110	NM_025370	ENSMUSG00000021482	Aaed1	1110018J18Rik|AI849003	AhpC/TSA antioxidant enzyme domain containing 1	protein-coding	11.5	20.0	4.0	118.5	50.0	14.0	11.5	12.0
Merged-chr1-88456874-3	chr1	88456761	88456961	+	858.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E1A|LTR|ERVL-MaLR	49851.0	NM_029269	75396.0	Mm.173058	NM_029269	ENSMUSG00000026295	Spp2	0610038O04Rik|pp-24|spp24	secreted phosphoprotein 2	protein-coding	15.5	8.0	2.0	138.0	17.0	5.5	9.5	10.5
Merged-chr11-21006899-4	chr11	21006794	21006994	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84430.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	16.0	32.5	35.5	412.0	61.0	18.0	13.5	23.5
Merged-chr5-25314164-3	chr5	25314080	25314280	+	799.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081383, exon 36 of 59)	exon (NM_001081383, exon 36 of 59)	67807.0	NM_001359890	231050.0	Mm.246718	NM_144908	ENSMUSG00000038072	Galnt11	A430075I06Rik|AI648252|E430002F06Rik	polypeptide N-acetylgalactosaminyltransferase 11	protein-coding	7.0	3.0	9.5	141.0	8.0	7.0	8.5	6.5
Merged-chr12-85108828-4	chr12	85108735	85108935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1998.0	NM_030225	78920.0	Mm.296221	NM_030225	ENSMUSG00000004789	Dlst	1600017E01Rik|4632413C10Rik|4930529O08Rik|DLTS	dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)	protein-coding	43.0	65.5	38.0	803.5	64.5	21.0	31.5	36.0
Merged-chr4-141958357-2	chr4	141958257	141958457	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 9 of 31)	intron (NM_177868, intron 9 of 31)	-24635.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	13.5	6.5	4.5	119.0	48.5	9.5	13.5	19.5
Merged-chr1-152766550-4	chr1	152766437	152766637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346119)	promoter-TSS (NM_001346119)	-5.0	NM_026369	67771.0	Mm.288974	NM_026369	ENSMUSG00000008475	Arpc5	5830443F10Rik|p16-Arc	actin related protein 2/3 complex, subunit 5	protein-coding	181.5	287.5	120.0	2136.0	355.0	166.0	194.0	136.0
Merged-chr15-73061138-4	chr15	73061034	73061234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_180662)	promoter-TSS (NM_180662)	70.0	NM_001164641	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	293.0	398.0	276.0	3465.0	588.5	234.5	236.5	250.0
Merged-chr12-80229136-4	chr12	80229003	80229203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	intron (NM_134156, intron 1 of 20)	31268.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	33.0	43.0	32.5	456.5	66.0	22.0	27.0	26.0
Merged-chr2-154791874-4	chr2	154791796	154791996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139513, intron 1 of 8)	CpG	786.0	NM_001139511	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	30.0	62.0	25.5	311.0	105.0	36.0	35.0	22.5
Merged-chr9-95682815-4	chr9	95682725	95682925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 5 of 8)	intron (NM_029620, intron 5 of 8)	45197.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	96.0	155.0	102.0	1802.0	325.5	114.5	174.0	144.5
Merged-chr14-7972148-4	chr14	7972091	7972291	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007870, intron 6 of 7)	intron (NM_007870, intron 6 of 7)	21991.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	19.0	34.0	14.0	163.5	61.5	10.0	16.0	16.5
Merged-chr7-80103673-3	chr7	80103596	80103796	+	694.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173011, intron 1 of 10)	intron (NM_173011, intron 1 of 10)	11654.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	5.5	9.5	5.5	85.5	8.5	2.0	2.0	5.5
Merged-chr9-120564655-6	chr9	120564553	120564753	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178676, intron 10 of 10)	B4|SINE|B4	-6864.0	NM_025974	67115.0	Mm.289810	NM_025974	ENSMUSG00000025794	Rpl14	3100001N19Rik|AA407502|AL022816|CAG-ISL-7|CTG-B33|L14	ribosomal protein L14	protein-coding	4.0	16.0	22.0	157.5	31.0	9.0	15.5	22.0
Merged-chr7-80370812-4	chr7	80370736	80370936	+	946.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172903, exon 2 of 24)	5' UTR (NM_172903, exon 2 of 24)	539.0	NM_172903	140481.0	Mm.269245	NM_172903	ENSMUSG00000038886	Man2a2	1700052O22Rik|4931438M07Rik|AI480988|MX|Man IIx	mannosidase 2, alpha 2	protein-coding	19.0	11.0	16.0	162.5	30.0	13.0	16.0	19.5
Merged-chr4-135236878-4	chr4	135236774	135236974	+	972.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 2 of 5)	intron (NM_013885, intron 2 of 5)	35886.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	22.5	30.0	41.0	436.0	31.5	23.0	28.5	29.0
Merged-chr4-137871622-4	chr4	137871512	137871712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	9375.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	144.0	232.5	170.0	2388.5	185.0	62.5	87.0	74.0
Merged-chr14-66124489-4	chr14	66124396	66124596	+	900.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271402)	promoter-TSS (NM_001271402)	26.0	NM_001271402	13850.0	Mm.15295	NM_007940	ENSMUSG00000022040	Ephx2	CEH|Eph2|SEH|sEP	epoxide hydrolase 2, cytoplasmic	protein-coding	14.5	42.5	18.0	295.5	31.5	9.5	16.5	8.5
Merged-chr17-29049253-4	chr17	29049158	29049358	+	790.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16598.0	NR_036613	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	5.0	14.5	5.5	77.5	19.0	9.5	7.5	5.0
Merged-chr7-49471522-3	chr7	49471419	49471619	+	653.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 10 of 37)	intron (NM_175272, intron 10 of 37)	165316.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	10.0	9.0	9.0	77.0	10.5	4.5	5.0	3.0
Merged-chr2-158624894-4	chr2	158624793	158624993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175419)	promoter-TSS (NM_175419)	-20.0	NM_175419	109275.0	Mm.27747	NM_175419	ENSMUSG00000037761	Actr5	AA545173|B430109J19Rik	ARP5 actin-related protein 5	protein-coding	74.5	101.5	36.0	1069.0	140.5	57.0	102.5	79.0
Merged-chr3-136852666-2	chr3	136852566	136852766	+	997.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 2 of 13)	MLT1B|LTR|ERVL-MaLR	182600.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	0.0	2.0	1.5	145.0	15.5	6.0	5.0	15.5
Merged-chr1-132343831-4	chr1	132343734	132343934	+	880.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24114.0	NM_001311108	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	7.0	21.0	11.5	121.5	38.0	3.0	10.0	15.5
Merged-chr13-23445861-4	chr13	23445772	23445972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-14855.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	33.0	46.0	33.0	337.0	51.0	22.0	32.0	31.0
Merged-chr14-70181302-4	chr14	70181211	70181411	+	901.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271407, intron 20 of 20)	intron (NM_001271407, intron 20 of 20)	-3639.0	NM_145978	213019.0	Mm.283968	NM_145978	ENSMUSG00000022090	Pdlim2	4732462F18Rik|Slim	PDZ and LIM domain 2	protein-coding	12.5	19.5	4.0	90.5	62.0	24.5	16.5	26.0
Merged-chr2-84798779-4	chr2	84798628	84798828	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019949)	promoter-TSS (NM_019949)	-100.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	10.5	35.0	14.0	159.5	31.5	12.5	15.0	9.0
Merged-chr11-5742290-2	chr11	5742190	5742390	+	782.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	B2_Mm2|SINE|B2	-1114.0	NM_178623	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	6.5	9.5	8.5	16.5	23.0	1.5	4.0	11.0
Merged-chr7-125420355-2	chr7	125420253	125420453	+	753.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24267.0	NM_029842	77035.0	Mm.307239	NM_029842	ENSMUSG00000030752	Kdm8	3110005O21Rik|Jmjd5	lysine (K)-specific demethylase 8	protein-coding	5.5	8.0	3.0	38.0	17.0	6.5	5.5	7.5
Merged-chr9-75369426-2	chr9	75369327	75369527	+	774.416687	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	21669.0	NM_013479	12049.0	Mm.25988	NM_013479	ENSMUSG00000032191	Bcl2l10	AA420380|AU023065|Boo|C85687|Diva	Bcl2-like 10	protein-coding	8.5	15.5	7.5	67.0	16.0	2.5	9.0	5.0
Merged-chr4-135273533-2	chr4	135273433	135273633	+	765.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013885)	promoter-TSS (NM_013885)	-773.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	4.5	6.0	7.5	34.5	10.5	2.5	3.5	13.5
Merged-chr11-69580839-3	chr11	69580797	69580997	+	952.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127233, intron 1 of 10)	intron (NM_001127233, intron 1 of 10)	538.0	NM_001127233	22059.0	Mm.222	NM_011640	ENSMUSG00000059552	Trp53	Tp53|bbl|bfy|bhy|p44|p53	transformation related protein 53	protein-coding	3.0	9.0	4.0	49.0	10.5	12.5	7.0	20.0
Merged-chr2-14218347-2	chr2	14218247	14218447	+	636.700012	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 3 of 3)	B3A|SINE|B2	-11067.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	5.5	1.0	3.0	56.5	10.0	9.0	5.5	5.0
Merged-chr15-58260779-3	chr15	58260688	58260888	+	944.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45896.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	23.0	18.0	10.5	217.5	41.0	8.5	11.0	14.0
Merged-chr19-4164726-4	chr19	4164627	4164827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_134148, exon 10 of 10)	3' UTR (NM_134148, exon 10 of 10)	-1344.0	NR_153659	58988.0	Mm.271937	NM_021485	ENSMUSG00000024830	Rps6kb2	S6K-beta-2|S6K2	ribosomal protein S6 kinase, polypeptide 2	protein-coding	21.0	23.0	19.5	344.0	43.5	21.0	18.5	23.5
Merged-chr12-76194738-4	chr12	76194664	76194864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-17505.0	NR_104386	13983.0	Mm.2561	NM_010157	ENSMUSG00000021055	Esr2	ER[b]|ERbeta|Estrb	estrogen receptor 2 (beta)	protein-coding	30.0	78.5	36.5	631.0	58.0	25.5	21.5	39.5
Merged-chr4-129461477-4	chr4	129461371	129461571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133889)	promoter-TSS (NM_133889)	-208.0	NM_133889	100383.0	Mm.17918	NM_133889	ENSMUSG00000040859	Bsdc1	1110063F24Rik|AW011758	BSD domain containing 1	protein-coding	312.5	390.0	236.5	3626.5	615.5	256.0	220.0	201.5
Merged-chr11-32537336-4	chr11	32537251	32537451	+	831.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	4085.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	8.0	25.5	20.5	139.5	23.0	7.0	6.0	9.5
Merged-chr5-36698311-4	chr5	36698192	36698392	+	699.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2271.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	10.5	15.5	4.5	96.5	22.5	7.0	10.0	5.5
Merged-chr9-40322478-4	chr9	40322379	40322579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	-1156.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	71.0	100.5	126.0	1353.5	191.0	71.5	99.0	50.5
Merged-chr15-67977657-4	chr15	67977568	67977768	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	281188.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	32.5	35.0	36.0	494.0	53.5	18.5	26.0	20.0
Merged-chr1-178405682-4	chr1	178405583	178405783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026626)	promoter-TSS (NM_026626)	-335.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	70.5	72.5	63.0	1001.5	124.5	48.5	96.5	72.0
Merged-chr7-44962849-4	chr7	44962731	44962931	+	831.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252470, exon 13 of 19)	exon (NM_001252470, exon 13 of 19)	12020.0	NM_001357670	78070.0	Mm.231465	NM_153679	ENSMUSG00000007783	Cpt1c	6530437J22Rik|9630004I06Rik|CPT I-C|CPT IC|CPT1-B|CPTI-B	carnitine palmitoyltransferase 1c	protein-coding	11.0	13.5	3.0	56.5	19.5	14.0	16.5	17.5
Merged-chr2-167368623-4	chr2	167368508	167368708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19430.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	121.0	128.5	123.5	1580.0	229.0	69.5	78.5	89.5
Merged-chr7-17063111-4	chr7	17062997	17063197	+	957.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162950)	promoter-TSS (NM_001162950)	-670.0	NM_001162950	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	13.0	16.0	7.0	204.5	30.0	8.0	14.5	10.0
Merged-chr18-11046263-3	chr18	11046165	11046365	+	830.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105023, intron 4 of 5)	MIR|SINE|MIR	-6245.0	NM_010258	14465.0	Mm.329287	NM_010258	ENSMUSG00000005836	Gata6	AA410133|GATA-6	GATA binding protein 6	protein-coding	7.0	10.5	9.0	265.5	7.5	2.0	1.5	3.0
Merged-chr16-15986766-1	chr16	15986666	15986866	+	682.0	f0_balb.idr	intron (NM_001355731, intron 7 of 18)	intron (NM_001355731, intron 7 of 18)	99480.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	7.5	5.5	10.5	97.5	29.5	4.0	3.0	11.5
Merged-chr7-134670759-4	chr7	134670656	134670856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033420)	promoter-TSS (NM_001033420)	69.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	37.5	48.5	49.0	560.0	62.5	38.0	34.0	26.5
Merged-chr5-149376056-4	chr5	149375993	149376193	+	644.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35656.0	NM_027519	70717.0	Mm.252139	NM_027519	ENSMUSG00000029659	Medag	6330406I15Rik|Awms3|MEDA-4|Meda4|mAWMS3	mesenteric estrogen dependent adipogenesis	protein-coding	8.0	8.5	8.0	64.5	16.0	3.0	10.5	15.0
Merged-chr16-17891792-4	chr16	17891713	17891913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010048)	promoter-TSS (NM_010048)	-85.0	NM_001109750	13356.0	Mm.254515	NM_010048	ENSMUSG00000003166	Dgcr2	9930034O06Rik|DGS-C|Dgsc|Idd|Lan|Sez12|mKIAA0163	DiGeorge syndrome critical region gene 2	protein-coding	168.0	209.5	125.5	2456.5	395.5	143.5	214.0	158.0
Merged-chr4-56070885-4	chr4	56070782	56070982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-538407.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	49.5	36.5	70.0	1093.0	69.5	29.0	79.0	52.5
Merged-chr4-41628260-5	chr4	41628142	41628342	+	972.0285640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175138, intron 13 of 19)	(CA)n|Simple_repeat|Simple_repeat	12060.0	NM_027147	69638.0	Mm.372459	NM_027147	ENSMUSG00000028445	Enho	1110065P19Rik|2310040A07Rik	energy homeostasis associated	protein-coding	33.0	13.0	26.5	279.5	28.0	19.5	13.5	12.0
Merged-chr12-119483463-4	chr12	119483355	119483555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	40045.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	25.5	23.0	32.0	336.5	122.0	30.5	28.5	39.5
Merged-chr2-122150083-3	chr2	122149980	122150180	+	810.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_009735, intron 1 of 3)	intron (NM_009735, intron 1 of 3)	2393.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	3.5	5.0	8.5	63.0	23.5	11.5	7.0	9.0
Merged-chr7-31149970-4	chr7	31149871	31150071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153431, intron 1 of 18)	intron (NR_153431, intron 1 of 18)	1200.0	NM_027898	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	35.0	65.5	23.5	478.5	66.0	30.0	26.5	25.5
Merged-chr1-55044859-4	chr1	55044766	55044966	+	799.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7904.0	NM_026424	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	9.5	10.0	20.0	129.5	23.0	5.5	20.5	6.5
Merged-chr7-113505260-4	chr7	113505153	113505353	+	840.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8581.0	NM_001285831	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	12.0	19.0	16.5	190.0	25.5	5.5	5.0	17.5
Merged-chr1-138291606-1	chr1	138291506	138291706	+	760.0	f0_balb.idr	Intergenic	Intergenic	17868.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	8.5	11.5	7.0	96.0	13.5	12.5	10.0	5.5
Merged-chr5-122398026-4	chr5	122397943	122398143	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 2 of 6)	intron (NM_019824, intron 2 of 6)	6165.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	25.5	28.0	16.0	333.5	79.5	14.5	17.0	10.5
Merged-chr13-36531687-4	chr13	36531611	36531811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 5 of 5)	MIRc|SINE|MIR	202766.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	27.0	34.5	42.0	622.5	77.5	25.5	38.5	35.5
Merged-chr1-21078642-4	chr1	21078587	21078787	+	965.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177409, intron 1 of 10)	intron (NM_177409, intron 1 of 10)	538.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	16.5	39.5	27.0	175.0	35.0	14.0	9.0	12.5
Merged-chr8-123254192-4	chr8	123254098	123254298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020497)	promoter-TSS (NM_020497)	3.0	NM_020497	57247.0	Mm.379084	NM_020497	ENSMUSG00000001065	Zfp276	AW048709|D8Ertd370e|D8Ertd377e|Znf276	zinc finger protein (C2H2 type) 276	protein-coding	52.0	61.0	26.5	566.0	163.5	52.5	72.5	56.5
Merged-chr14-55735307-4	chr14	55735199	55735399	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	10385.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	21.5	29.0	20.5	230.0	77.0	9.5	24.5	23.5
Merged-chr19-46045207-4	chr19	46045079	46045279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001113408, exon 1 of 11)	5' UTR (NM_001113408, exon 1 of 11)	132.0	NM_001113408	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	50.0	77.0	67.0	820.5	140.0	52.0	64.0	55.5
Merged-chr9-40709407-3	chr9	40709215	40709415	+	944.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	23351.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	17.5	24.0	23.0	303.5	1.5	0.0	1.5	0.5
Merged-chr8-86878735-4	chr8	86878633	86878833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	6525.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	58.0	89.5	59.5	418.0	120.5	58.0	60.0	31.0
Merged-chr6-125385816-4	chr6	125385721	125385921	+	978.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	-5317.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	34.0	78.5	22.0	156.5	107.0	50.5	43.0	43.5
Merged-chr6-17652327-4	chr6	17652199	17652399	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 3 of 9)	ORR1E|LTR|ERVL-MaLR	15289.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	33.5	22.5	33.5	854.5	35.5	12.5	14.0	28.0
Merged-chr11-102425670-7	chr11	102425576	102425776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4646.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	41.0	77.0	65.0	538.5	84.0	48.5	45.5	61.0
Merged-chr8-40424224-3	chr8	40424110	40424310	+	938.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178395, intron 1 of 12)	CpG	395.0	NM_001357249	70546.0	Mm.34326	NM_178395	ENSMUSG00000039470	Zdhhc2	5730415P04Rik|6430583A19Rik|DHHC-2	zinc finger, DHHC domain containing 2	protein-coding	9.5	28.5	22.5	224.0	7.5	3.0	3.5	5.0
Merged-chr4-89353355-1	chr4	89353255	89353455	+	921.0	f0_balb.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-42323.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	7.5	12.5	18.5	188.5	13.5	5.5	7.0	1.0
Merged-chr9-106566619-3	chr9	106566513	106566713	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	4354.0	NM_026090	67320.0	Mm.335431	NM_026090	ENSMUSG00000041009	Iqcf4	1700042N06Rik|mtIQ1	IQ motif containing F4	protein-coding	5.0	10.0	9.5	75.0	8.5	3.0	2.0	8.5
Merged-chr5-114923125-4	chr5	114923048	114923248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145209)	promoter-TSS (NM_145209)	-92.0	NM_001359946	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	76.5	232.0	83.5	1052.5	261.0	99.5	44.5	48.0
Merged-chr19-21271365-4	chr19	21271261	21271461	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009551)	promoter-TSS (NM_009551)	-917.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	13.5	9.0	9.5	195.5	20.5	7.5	13.5	24.5
Merged-chr1-173877357-4	chr1	173877252	173877452	+	810.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170853, intron 2 of 9)	intron (NM_001170853, intron 2 of 9)	2835.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	10.5	6.5	9.5	155.5	37.0	13.0	15.5	14.5
Merged-chr11-79870604-4	chr11	79870469	79870669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91818.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	42.5	82.5	75.0	816.5	112.0	42.5	34.0	52.0
Merged-chr10-30771780-1	chr10	30771680	30771880	+	571.0	f0_balb.idr	5' UTR (NM_001358841, exon 2 of 16)	5' UTR (NM_001358841, exon 2 of 16)	31546.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	8.5	6.0	8.0	90.5	7.5	4.5	0.5	4.0
Merged-chr14-50825568-2	chr14	50825466	50825666	+	891.5	f0_balb.idr|f1_balb.idr	intron (NM_009351, intron 51 of 54)	intron (NM_009351, intron 51 of 54)	17650.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	23.5	30.0	20.5	232.0	2.5	2.0	0.0	8.0
Merged-chr12-98370960-4	chr12	98370865	98371065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102330.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	41.5	30.0	33.0	549.0	65.0	23.0	22.0	19.5
Merged-chr2-50687943-4	chr2	50687826	50688026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-221758.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	61.5	78.5	51.0	624.5	122.0	49.0	48.0	54.0
Merged-chr12-36308888-3	chr12	36308814	36309014	+	940.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5255.0	NM_025312	66042.0	Mm.43375	NM_025312	ENSMUSG00000036169	Sostdc1	0610006G05Rik|Sostl|USAG-1|Wise|ectodin	sclerostin domain containing 1	protein-coding	8.0	2.5	7.0	232.5	26.0	5.5	18.5	16.0
Merged-chr10-111100272-4	chr10	111100172	111100372	+	887.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64530.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	6.5	17.0	11.0	234.0	42.5	11.5	12.5	17.5
Merged-chr4-139191719-4	chr4	139191645	139191845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1154.0	NM_009798	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	51.0	82.5	40.5	566.5	96.0	39.5	45.0	31.0
Merged-chr10-22730580-2	chr10	22730480	22730680	+	747.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011603, intron 1 of 6)	intron (NM_011603, intron 1 of 6)	867.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	9.0	7.0	11.0	60.5	7.0	6.0	9.0	3.5
Merged-chr19-29648419-4	chr19	29648311	29648511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081213)	promoter-TSS (NM_001081213)	4.0	NM_001081213	226090.0	Mm.267131	NM_001081213	ENSMUSG00000046324	Ermp1	D19Ertd410e|D19Wsu12e|Fxna|b2b2633Clo|mKIAA1815	endoplasmic reticulum metallopeptidase 1	protein-coding	98.0	151.5	56.0	1561.0	205.0	90.0	98.0	68.0
Merged-chr12-102743734-4	chr12	102743630	102743830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324515)	promoter-TSS (NM_001324515)	11.0	NM_001324515	320351.0	Mm.86546	NM_177140	ENSMUSG00000046675	Tmem251	D230037D09Rik	transmembrane protein 251	protein-coding	127.0	226.5	148.5	1905.5	410.0	131.5	175.0	181.5
Merged-chr10-34034113-3	chr10	34034015	34034215	+	835.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3482.0	NM_001162937	692132.0	Mm.383415	NM_001162937	ENSMUSG00000071340	Trappc3l	Bet3l	trafficking protein particle complex 3 like	protein-coding	7.0	7.5	14.5	130.5	16.5	8.0	7.5	5.0
Merged-chr5-149267692-4	chr5	149267616	149267816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009663, intron 1 of 4)	intron (NM_009663, intron 1 of 4)	2712.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	42.5	40.0	54.5	570.5	67.0	39.0	35.5	26.0
Merged-chr10-127261917-4	chr10	127261819	127262019	+	824.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039000, intron 1 of 28)	MIRb|SINE|MIR	1444.0	NM_008447	16572.0	Mm.30355	NM_008447	ENSMUSG00000074657	Kif5a	D10Bwg0738e|Khc|Kif5|Kns|mKIAA4086	kinesin family member 5A	protein-coding	8.5	10.5	9.5	217.0	34.5	5.0	4.5	11.5
Merged-chr8-71286488-4	chr8	71286390	71286590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 1 of 39)	intron (NM_001142322, intron 1 of 39)	13776.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	126.5	151.5	128.5	935.5	163.0	74.5	67.5	79.5
Merged-chr3-89411977-4	chr3	89411881	89412081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362375)	promoter-TSS (NM_001362375)	-100.0	NR_155545	319945.0	Mm.258142	NM_177041	ENSMUSG00000042642	Flad1	A930017E24Rik|Pp591	flavin adenine dinucleotide synthetase 1	protein-coding	193.5	292.5	115.0	2030.5	419.0	187.5	175.5	145.5
Merged-chr15-34060887-1	chr15	34060787	34060987	+	742.0	f0_balb.idr	Intergenic	Intergenic	-21832.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	8.5	7.0	9.0	129.0	8.0	5.5	8.5	3.0
Merged-chr2-3714197-3	chr2	3714011	3714211	+	786.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	653.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	5.5	8.5	8.5	115.0	24.5	9.0	5.5	8.5
Merged-chr15-75086839-4	chr15	75086765	75086965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25072.0	NM_001357693	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	211.0	219.0	343.5	922.0	296.5	172.0	141.0	385.0
Merged-chr11-118145935-4	chr11	118145829	118146029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16710.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	236.0	404.5	249.0	3101.5	556.0	201.0	245.0	198.5
Merged-chr4-58586154-4	chr4	58586053	58586253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32662.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	71.5	105.0	71.0	1579.0	160.0	54.0	89.5	64.0
Merged-chr18-38978052-3	chr18	38977946	38978146	+	831.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15099.0	NM_001361073	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	12.0	21.5	9.5	36.0	3.0	1.0	4.5	8.0
Merged-chr4-35240077-4	chr4	35239964	35240164	+	930.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14184.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	15.5	26.0	20.0	394.0	39.5	9.5	21.5	12.5
Merged-chr11-8497288-4	chr11	8497194	8497394	+	865.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 16 of 30)	intron (NM_001083587, intron 16 of 30)	167241.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	10.5	14.0	19.5	381.5	21.5	10.0	12.5	8.0
Merged-chr1-38989317-3	chr1	38989216	38989416	+	633.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026850, intron 1 of 5)	MTC|LTR|ERVL-MaLR	1502.0	NM_026850	68833.0	Mm.28121	NM_026850	ENSMUSG00000026078	Pdcl3	1110061A19Rik|C80025|Viaf1	phosducin-like 3	protein-coding	8.5	9.0	7.0	126.0	2.0	5.0	2.5	4.5
Merged-chr12-73291885-3	chr12	73291785	73291985	+	874.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037717, intron 2 of 15)	intron (NM_001037717, intron 2 of 15)	5037.0	NM_001037717	625098.0	Mm.32075	NM_001037717	ENSMUSG00000044712	Slc38a6	AW322671|EG625098	solute carrier family 38, member 6	protein-coding	15.5	33.0	15.5	358.0	0.5	0.5	1.0	0.0
Merged-chr5-99242616-4	chr5	99242537	99242737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 2 of 13)	intron (NM_181318, intron 2 of 13)	10290.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	23.5	86.0	54.5	563.5	102.0	36.0	23.5	25.5
Merged-chr5-16356048-4	chr5	16355955	16356155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110843, intron 29 of 38)	intron (NM_001110843, intron 29 of 38)	-197440.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	71.5	52.0	58.0	1127.5	107.5	58.5	66.0	70.0
Merged-chr13-105218786-1	chr13	105218686	105218886	+	803.0	f0_balb.idr	intron (NM_001360891, intron 5 of 7)	intron (NM_001360891, intron 5 of 7)	74228.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	10.0	6.0	1.0	147.5	7.5	6.0	4.5	4.5
Merged-chr5-146768956-4	chr5	146768858	146769058	+	643.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011669, exon 2 of 9)	exon (NM_011669, exon 2 of 9)	25998.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	3.5	10.0	3.5	74.5	20.0	12.5	9.5	10.5
Merged-chr1-85933369-4	chr1	85933288	85933488	+	583.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR48B|LTR|ERV1	4905.0	NR_037692	71141.0	Mm.314965	NR_037692	ENSMUSG00000026224	4933407L21Rik	-	RIKEN cDNA 4933407L21 gene	ncRNA	8.0	11.0	7.0	63.5	23.5	7.0	13.0	5.0
Merged-chr11-74547320-5	chr11	74547247	74547447	+	866.093323	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	42811.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	7.5	9.5	13.5	115.0	31.5	10.0	12.0	5.5
Merged-chr5-147435537-1	chr5	147435437	147435637	+	639.5	f0_balb.idr	intron (NM_028291, intron 1 of 18)	intron (NM_028291, intron 1 of 18)	5381.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	5.0	14.5	8.5	92.5	5.0	3.5	5.0	1.0
Merged-chr4-134914990-4	chr4	134914887	134915087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027935)	promoter-TSS (NM_027935)	-71.0	NM_027935	71817.0	Mm.88349	NM_027935	ENSMUSG00000028822	Tmem50a	3200001F09Rik|CAM|Smp1	transmembrane protein 50A	protein-coding	27.5	44.0	36.0	368.0	93.5	31.5	42.0	46.0
Merged-chr4-70410478-4	chr4	70410370	70410570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145990)	promoter-TSS (NM_145990)	-35.0	NM_145990	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	270.5	403.0	311.5	4546.0	719.5	300.5	279.5	217.5
Merged-chr4-108790688-4	chr4	108790587	108790787	+	956.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9599.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	14.0	30.0	17.0	338.5	47.0	7.5	13.5	14.5
Merged-chr12-85963881-4	chr12	85963770	85963970	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	115171.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	22.0	29.5	23.0	424.5	20.0	13.0	5.0	21.0
Merged-chr8-57487953-4	chr8	57487855	57488055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021788)	promoter-TSS (NM_021788)	-8.0	NR_126553	78353.0	Mm.426240	NR_126553	ENSMUSG00000096917	2500002B13Rik	-	RIKEN cDNA 2500002B13 gene	ncRNA	254.5	407.0	246.0	4942.0	577.5	220.0	334.0	242.0
Merged-chr3-138742229-4	chr3	138742102	138742302	+	858.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019571)	promoter-TSS (NM_019571)	-6.0	NR_121195	56224.0	Mm.31927	NM_019571	ENSMUSG00000028152	Tspan5	2810455A09Rik|4930505M03Rik|NET-4|Tm4sf9	tetraspanin 5	protein-coding	12.5	10.0	11.5	142.0	23.0	8.0	13.5	8.0
Merged-chr2-45200786-3	chr2	45200684	45200884	+	855.511108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83342.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	13.0	23.5	3.0	132.0	25.0	11.0	7.0	11.5
Merged-chr17-34034271-4	chr17	34034118	34034318	+	922.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205214, intron 4 of 9)	intron (NM_001205214, intron 4 of 9)	1868.0	NM_001205215	20182.0	Mm.1243	NM_011306	ENSMUSG00000039656	Rxrb	AL023085|H-2RIIBP|Nr2b2|RCoR-1|Rub	retinoid X receptor beta	protein-coding	6.0	13.0	4.0	63.5	21.5	14.5	10.0	15.0
Merged-chr2-164074080-4	chr2	164073979	164074179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021420)	promoter-TSS (NM_021420)	-99.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	106.0	196.0	109.0	1550.5	252.5	98.5	110.0	115.5
Merged-chr14-61789213-4	chr14	61789097	61789297	+	905.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106824.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	0.0	19.5	8.0	96.5	118.0	41.5	39.0	37.5
Merged-chr12-54823090-4	chr12	54822985	54823185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27423.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	33.5	29.0	35.0	1163.5	54.5	17.5	26.5	35.5
Merged-chr18-20750073-4	chr18	20749979	20750179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3675.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	65.0	71.0	82.0	1292.0	127.5	33.5	91.0	42.5
Merged-chr12-80790453-4	chr12	80790344	80790544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178682)	promoter-TSS (NM_178682)	-88.0	NM_178682	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	193.0	335.0	160.0	2348.0	516.5	208.0	221.5	190.5
Merged-chr1-57378155-1	chr1	57378055	57378255	+	784.0	f0_c57.idr	promoter-TSS (NR_037999)	promoter-TSS (NR_037999)	535.0	NM_028546	73467.0	Mm.263673	NM_028546	ENSMUSG00000038323	1700066M21Rik	AI428479	RIKEN cDNA 1700066M21 gene	protein-coding	11.0	9.5	17.5	146.5	25.5	6.5	9.5	16.0
Merged-chr2-165329955-4	chr2	165329878	165330078	+	927.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3499.0	NM_207706	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	17.0	18.0	27.5	492.0	33.5	9.0	16.0	17.5
Merged-chr5-141081555-2	chr5	141081455	141081655	+	706.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-80959.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	5.5	8.5	4.5	43.0	12.5	1.0	3.0	5.0
Merged-chr10-77522603-3	chr10	77522536	77522736	+	893.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6823.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	9.0	14.0	12.5	225.0	32.0	10.5	11.0	9.5
Merged-chr17-35979679-4	chr17	35979647	35979847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165892)	promoter-TSS (NM_001165892)	78.0	NM_001282013	75210.0	Mm.40036	NM_145487	ENSMUSG00000038500	Prr3	4930540G07Rik|Cat56	proline-rich polypeptide 3	protein-coding	95.5	123.5	51.0	938.0	144.5	71.0	52.5	69.0
Merged-chr9-110532362-4	chr9	110532256	110532456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081340)	promoter-TSS (NM_001081340)	-241.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	90.0	134.0	114.0	1406.0	226.5	90.5	121.0	105.5
Merged-chr14-65098147-4	chr14	65098032	65098232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018788)	promoter-TSS (NM_018788)	-26.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	76.0	118.5	59.5	888.0	186.0	86.5	59.5	84.0
Merged-chr3-75280603-3	chr3	75280511	75280711	+	881.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10533.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	15.0	12.0	5.0	128.0	15.0	2.0	4.5	3.5
Merged-chr17-33817742-4	chr17	33817643	33817843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030697, exon 3 of 11)	exon (NM_030697, exon 3 of 11)	6819.0	NM_016844	54127.0	Mm.352374	NM_016844	ENSMUSG00000067288	Rps28	-	ribosomal protein S28	protein-coding	219.0	318.0	185.0	2561.0	458.5	175.5	211.5	176.0
Merged-chr11-105424485-4	chr11	105424411	105424611	+	977.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039242, intron 4 of 5)	intron (NM_001039242, intron 4 of 5)	32224.0	NM_172568	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	29.0	28.0	8.0	160.0	60.0	33.5	23.0	10.5
Merged-chr14-27249394-2	chr14	27249294	27249494	+	923.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 1 of 10)	intron (NM_027871, intron 1 of 10)	11384.0	NM_027871	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	5.0	9.5	7.0	140.5	12.0	6.0	2.0	7.5
Merged-chr12-86833936-4	chr12	86833850	86834050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50864.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	175.5	275.0	161.5	2400.5	387.5	170.5	187.0	153.5
Merged-chr10-25381324-4	chr10	25381221	25381421	+	904.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	L1MC4|LINE|L1	21523.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	17.0	25.0	15.0	299.5	34.5	21.5	15.0	12.5
Merged-chr5-150168942-4	chr5	150168837	150169037	+	900.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90993.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	15.5	23.0	10.0	311.5	34.5	14.0	17.5	26.5
Merged-chr17-29986819-4	chr17	29986755	29986955	+	767.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18184.0	NM_148926	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	2.0	2.0	6.5	52.5	22.5	4.5	4.5	13.5
Merged-chr3-136322788-4	chr3	136322676	136322876	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 1 of 16)	intron (NM_001033350, intron 1 of 16)	3290.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	19.5	23.0	6.0	141.5	22.5	18.5	11.5	8.0
Merged-chr7-63930280-4	chr7	63930182	63930382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	ORR1D2|LTR|ERVL-MaLR	8633.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	39.5	51.0	27.5	469.0	76.0	32.5	56.5	27.5
Merged-chr6-32588488-3	chr6	32588391	32588591	+	985.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175750)	promoter-TSS (NM_175750)	-299.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	13.5	31.0	6.0	224.5	25.0	9.5	5.0	10.5
Merged-chr7-110004659-3	chr7	110004556	110004756	+	803.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037959, intron 1 of 2)	MIR|SINE|MIR	1990.0	NR_037959	69781.0	Mm.440728	NR_037959	ENSMUSG00000101585	1600010M07Rik	-	RIKEN cDNA 1600010M07 gene	ncRNA	9.5	8.5	6.0	185.5	19.0	7.0	3.0	3.5
Merged-chr17-23993702-4	chr17	23993598	23993798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133731, exon 6 of 6)	3' UTR (NM_133731, exon 6 of 6)	4402.0	NM_133731	70835.0	Mm.157351	NM_133731	ENSMUSG00000045027	Prss22	4733401N09Rik|BSSP-4|SP001LA	protease, serine 22	protein-coding	61.0	106.5	37.0	737.5	100.0	47.5	45.0	56.0
Merged-chr3-98015989-4	chr3	98015885	98016085	+	862.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	2447.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	11.5	17.5	13.0	259.5	29.0	8.0	12.0	11.5
Merged-chr2-132631022-4	chr2	132630931	132631131	+	845.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033468, intron 4 of 5)	intron (NR_033468, intron 4 of 5)	32835.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	9.0	10.0	10.0	203.5	24.0	5.5	4.0	23.5
Merged-chr11-55023233-4	chr11	55023136	55023336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 1 of 24)	intron (NR_138556, intron 1 of 24)	10235.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	61.0	119.5	70.0	635.5	147.0	44.5	59.0	54.5
Merged-chr2-144550813-3	chr2	144550711	144550911	+	961.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015754)	promoter-TSS (NM_015754)	48.0	NM_015754	26450.0	Mm.440564	NM_015754	ENSMUSG00000027428	Rbbp9	Bog	retinoblastoma binding protein 9, serine hydrolase	protein-coding	4.5	17.5	19.5	231.5	20.0	8.0	15.0	7.5
Merged-chr13-24380805-1	chr13	24380705	24380905	+	580.0	f0_c57.idr	intron (NM_001284519, intron 2 of 17)	intron (NM_001284519, intron 2 of 17)	-34317.0	NM_007717	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	0.5	2.0	3.5	26.0	12.0	6.0	6.5	8.5
Merged-chr4-129113216-2	chr4	129113116	129113316	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286081, intron 2 of 3)	intron (NM_001286081, intron 2 of 3)	6956.0	NM_001286083	15444.0	Mm.384452	NM_010471	ENSMUSG00000028785	Hpca	-	hippocalcin	protein-coding	3.5	17.5	4.5	57.0	13.5	7.0	8.5	9.0
Merged-chr7-127763793-3	chr7	127763696	127763896	+	873.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172748, intron 9 of 10)	intron (NM_172748, intron 9 of 10)	-6019.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	3.0	10.0	4.0	153.0	19.5	5.0	12.5	11.0
Merged-chr17-5276084-4	chr17	5275984	5276184	+	898.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 6 of 19)	intron (NM_001085355, intron 6 of 19)	142683.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	17.0	15.5	25.0	330.0	38.5	9.5	13.0	12.5
Merged-chr4-147904858-4	chr4	147904715	147904915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285922)	promoter-TSS (NM_001285922)	94.0	NM_001285922	170731.0	Mm.154312	NM_133201	ENSMUSG00000029020	Mfn2	D630023P19Rik|Fzo	mitofusin 2	protein-coding	39.5	70.0	44.5	398.5	87.0	44.0	28.0	53.0
Merged-chr14-20733673-4	chr14	20733572	20733772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010811, intron 1 of 14)	intron (NM_010811, intron 1 of 14)	890.0	NM_010811	17423.0	Mm.4084	NM_010811	ENSMUSG00000039308	Ndst2	Mndns|NDST-2	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 2	protein-coding	48.0	55.5	71.5	1095.0	172.5	48.0	73.0	48.5
Merged-chr18-61707667-4	chr18	61707557	61707757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172832)	promoter-TSS (NM_172832)	-22.0	NM_172832	240334.0	Mm.234457	NM_172832	ENSMUSG00000024579	Pcyox1l	BC060677|C630049M13	prenylcysteine oxidase 1 like	protein-coding	39.5	84.5	39.0	1026.0	94.5	33.0	55.5	35.0
Merged-chr8-126684175-4	chr8	126684073	126684273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90737.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	91.0	80.5	59.5	796.0	150.0	61.5	57.0	54.0
Merged-chr19-46501464-6	chr19	46501369	46501569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053100)	promoter-TSS (NM_053100)	-179.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	56.5	79.0	85.0	574.0	106.5	71.5	47.5	65.0
Merged-chr5-66088454-4	chr5	66088354	66088554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	9725.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	78.5	150.5	58.0	1475.0	268.0	91.0	79.5	71.0
Merged-chr1-191071126-5	chr1	191071045	191071245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 3 of 5)	intron (NM_198654, intron 3 of 5)	8124.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	13.5	41.5	11.0	213.5	30.5	13.5	10.0	17.0
Merged-chr3-116006875-4	chr3	116006776	116006976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163515)	promoter-TSS (NM_001163515)	530.0	NM_023214	66500.0	Mm.34550	NM_023214	ENSMUSG00000054414	Slc30a7	1810059J10Rik|2610034N15Rik|4833428C12Rik|AI467242|ZnT-7|ZnT7|Zntl2	solute carrier family 30 (zinc transporter), member 7	protein-coding	35.5	50.5	46.5	397.0	103.5	24.5	46.0	27.5
Merged-chr1-165675296-4	chr1	165675203	165675403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	32791.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	176.5	406.0	196.5	3086.5	444.0	197.0	201.5	174.5
Merged-chr10-62590367-4	chr10	62590255	62590455	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019553, intron 7 of 14)	intron (NM_019553, intron 7 of 14)	-11898.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	14.0	50.0	15.0	323.0	65.0	26.5	24.5	25.0
Merged-chr17-29841901-4	chr17	29841804	29842004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081160, intron 9 of 15)	intron (NM_001081160, intron 9 of 15)	45978.0	NM_001081160	74762.0	Mm.40901	NM_001081160	ENSMUSG00000043557	Mdga1	1200011I03Rik|GPIM|Mamdc3	MAM domain containing glycosylphosphatidylinositol anchor 1	protein-coding	56.5	79.5	39.0	938.5	111.0	40.0	66.0	38.0
Merged-chr17-45598031-4	chr17	45597948	45598148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199115, intron 1 of 12)	intron (NM_001199115, intron 1 of 12)	1555.0	NM_001199115	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	60.5	86.0	45.0	602.5	149.0	63.5	58.5	47.0
Merged-chr3-89270537-4	chr3	89270437	89270637	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009057)	promoter-TSS (NM_009057)	33.0	NM_009057	19729.0	Mm.17958	NM_009057	ENSMUSG00000027953	Slc50a1	MmSWEET1|Rag1ap1|Rga	solute carrier family 50 (sugar transporter), member 1	protein-coding	28.0	26.0	15.5	273.5	41.0	15.5	25.5	7.0
Merged-chr15-89356573-4	chr15	89356470	89356670	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178919)	promoter-TSS (NM_178919)	851.0	NM_001271601	52683.0	Mm.143167	NM_001115132	ENSMUSG00000008690	Ncaph2	-	non-SMC condensin II complex, subunit H2	protein-coding	14.0	24.0	13.5	245.5	87.5	23.0	22.0	23.5
Merged-chr16-29561035-3	chr16	29560949	29561149	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16185.0	NM_001164613	224079.0	Mm.54954	NM_172613	ENSMUSG00000038094	Atp13a4	4631413J11Rik|4832416L12|9330174J19Rik	ATPase type 13A4	protein-coding	6.0	10.5	1.5	79.5	20.5	5.0	6.5	11.0
Merged-chr4-144904170-4	chr4	144904050	144904250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	11013.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	115.5	137.5	133.0	2246.0	208.0	73.5	110.0	92.5
Merged-chr1-170868682-4	chr1	170868560	170868760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081304)	promoter-TSS (NM_001081304)	-889.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	36.0	50.0	24.5	261.0	71.5	32.0	32.0	31.0
Merged-chr5-25081744-4	chr5	25081652	25081852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	intron (NM_145401, intron 1 of 15)	18890.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	90.5	117.0	74.0	1605.0	140.5	34.5	63.5	65.5
Merged-chr1-154074267-4	chr1	154074177	154074377	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126910.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	22.5	31.5	27.0	316.0	40.0	24.5	26.0	25.0
Merged-chr6-128788694-2	chr6	128788594	128788794	+	718.916626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008527)	promoter-TSS (NM_008527)	-53.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	0.0	0.0	0.0	0.0	13.5	7.0	5.5	18.0
Merged-chr5-143403839-4	chr5	143403759	143403959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025841)	promoter-TSS (NM_025841)	39.0	NM_025841	66913.0	Mm.181880	NM_025841	ENSMUSG00000079111	Kdelr2	1110007A14Rik	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2	protein-coding	57.5	117.0	38.5	674.5	122.0	51.5	51.5	56.0
Merged-chr3-9609151-3	chr3	9609060	9609260	+	764.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 1 of 8)	CpG	925.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	8.0	13.5	4.5	128.5	27.5	3.5	4.5	4.0
Merged-chr5-4962167-4	chr5	4962079	4962279	+	968.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 10 of 14)	intron (NM_011074, intron 10 of 14)	-203963.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	18.0	24.0	26.0	429.5	43.5	12.0	31.0	20.0
Merged-chr18-25546041-3	chr18	25545960	25546160	+	833.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 2 of 12)	intron (NM_001362322, intron 2 of 12)	133688.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	6.0	6.5	10.0	182.0	23.5	6.5	5.5	6.5
Merged-chr10-62553693-4	chr10	62553554	62553754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24803.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	107.5	151.0	88.5	1457.5	211.0	77.5	104.0	92.5
Merged-chr2-143956967-2	chr2	143956867	143957067	+	710.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_024281, intron 11 of 23)	intron (NM_024281, intron 11 of 23)	41636.0	NM_019771	56431.0	Mm.28919	NM_019771	ENSMUSG00000015932	Dstn	2610043P17Rik|ADF|AU042046|Dsn|corn1|sid23p	destrin	protein-coding	0.5	2.0	3.5	41.5	13.0	7.0	9.5	12.0
Merged-chr15-103388722-4	chr15	103388604	103388804	+	743.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21913.0	NM_001314041	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	7.0	11.0	4.5	100.5	24.0	6.5	10.0	6.5
Merged-chr6-5256239-4	chr6	5256115	5256315	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173006)	promoter-TSS (NM_173006)	18.0	NM_173006	269823.0	Mm.9122	NM_173006	ENSMUSG00000029759	Pon3	2810004E20|AI786302	paraoxonase 3	protein-coding	48.0	33.0	25.5	656.5	30.0	18.5	34.0	11.0
Merged-chr4-83512409-4	chr4	83512280	83512480	+	879.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	-13165.0	NM_001355549	320226.0	Mm.180032	NM_029117	ENSMUSG00000052407	Ccdc171	4930418J05Rik|4930473A06Rik|A330015D16Rik	coiled-coil domain containing 171	protein-coding	11.0	18.5	6.0	101.5	48.0	8.5	7.0	18.5
Merged-chr11-103133079-4	chr11	103132974	103133174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027658)	promoter-TSS (NM_027658)	-265.0	NM_001130516	71059.0	Mm.273871	NM_027658	ENSMUSG00000043372	Hexim2	4933402L21Rik	hexamethylene bis-acetamide inducible 2	protein-coding	184.0	312.0	127.5	1808.0	428.5	172.5	137.0	152.5
Merged-chr10-69888633-4	chr10	69888526	69888726	+	966.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170729, intron 16 of 40)	intron (NM_170729, intron 16 of 40)	-36906.0	NM_170687	11735.0	Mm.235960	NM_009670	ENSMUSG00000069601	Ank3	2900054D09Rik|AI314020|Ank-3|AnkG|Ankyrin-3|Ankyrin-G	ankyrin 3, epithelial	protein-coding	33.0	31.5	26.5	634.5	45.5	12.0	41.5	19.5
Merged-chr13-3545114-4	chr13	3545003	3545203	+	843.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	intron (NM_008112, intron 1 of 10)	7028.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	3.0	8.5	7.5	140.0	40.0	12.5	16.5	9.0
Merged-chr2-52859238-4	chr2	52859137	52859337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	1369.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	20.5	25.5	34.5	375.5	54.0	19.0	9.0	18.5
Merged-chr10-30804080-4	chr10	30803971	30804171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358841)	promoter-TSS (NM_001358841)	-745.0	NM_001358842	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	32.0	35.5	43.0	712.0	83.5	22.0	43.5	44.5
Merged-chr7-123330754-4	chr7	123330631	123330831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 2 of 19)	intron (NM_001316713, intron 2 of 19)	39184.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	45.0	57.0	52.5	942.0	109.5	31.5	42.0	49.0
Merged-chr6-134070084-4	chr6	134069982	134070182	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	34382.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	16.0	20.5	8.0	307.5	25.5	1.5	16.0	21.5
Merged-chr8-87472663-3	chr8	87472568	87472768	+	861.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019626)	promoter-TSS (NM_019626)	-76.0	NM_019626	12404.0	Mm.4880	NM_019626	ENSMUSG00000031654	Cbln1	AI323299	cerebellin 1 precursor protein	protein-coding	12.5	11.0	13.5	193.5	11.5	2.0	7.0	6.5
Merged-chr7-16312440-4	chr7	16312325	16312525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 2 of 3)	CpG-12701	2842.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	16.5	46.5	30.5	263.0	73.5	21.0	30.0	33.5
Merged-chr10-19506155-4	chr10	19506062	19506262	+	936.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152784, exon 3 of 4)	non-coding (NR_152784, exon 3 of 4)	11519.0	NR_152785	102635880.0	Mm.331974	NR_152784	ENSMUSG00000110902	Gm33104	-	predicted gene, 33104	ncRNA	23.0	8.5	9.5	284.5	32.0	7.0	14.5	9.5
Merged-chr1-64324194-4	chr1	64324104	64324304	+	950.787476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-202815.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	16.0	10.5	19.5	257.5	45.5	11.5	31.5	20.0
Merged-chr13-34656586-2	chr13	34656486	34656686	+	696.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_105041, intron 2 of 3)	intron (NR_105041, intron 2 of 3)	3663.0	NR_105041	101056149.0	Mm.421309	NR_105041	ENSMUSG00000086786	Gm15908	-	predicted gene 15908	ncRNA	6.0	4.5	5.5	56.5	7.0	3.5	2.5	5.5
Merged-chr4-132019144-4	chr4	132019050	132019250	+	824.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	29928.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	8.5	9.0	5.0	185.5	34.0	3.0	1.0	12.5
Merged-chr19-11469452-4	chr19	11469347	11469547	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028595)	promoter-TSS (NM_028595)	79.0	NM_028595	73656.0	Mm.440719	NM_028595	ENSMUSG00000079419	Ms4a6c	2200009H22Rik|2210417N07Rik	membrane-spanning 4-domains, subfamily A, member 6C	protein-coding	17.0	18.5	27.0	146.5	51.5	13.0	19.0	19.5
Merged-chr9-50565342-4	chr9	50565248	50565448	+	898.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008360, intron 2 of 7)	intron (NM_008360, intron 2 of 7)	-4080.0	NM_025687	66654.0	Mm.442255	NM_025687	ENSMUSG00000032065	Tex12	5730518K06Rik	testis expressed gene 12	protein-coding	15.5	17.0	13.5	215.5	46.5	10.5	16.0	12.5
Merged-chr6-115847210-4	chr6	115847111	115847311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010774, intron 3 of 7)	B3A|SINE|B2	6130.0	NM_010774	17193.0	Mm.259308	NM_010774	ENSMUSG00000030322	Mbd4	Med1	methyl-CpG binding domain protein 4	protein-coding	49.5	83.5	48.0	376.5	149.5	43.0	45.0	43.0
Merged-chr5-36562975-1	chr5	36562875	36563075	+	1000.0	f0_balb.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	19422.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	45.0	51.5	28.0	384.5	38.5	32.5	25.5	31.5
Merged-chr10-95330879-3	chr10	95330777	95330977	+	733.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5399.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	7.5	9.0	11.5	35.5	32.0	7.0	13.5	12.5
Merged-chr8-92875955-4	chr8	92875852	92876052	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357375, intron 6 of 12)	intron (NM_001357375, intron 6 of 12)	20619.0	NM_001357374	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	16.5	20.5	42.5	832.0	207.0	41.0	92.0	86.0
Merged-chr9-120133630-4	chr9	120133502	120133702	+	825.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3168.0	NR_002902	104433.0	Mm.453530	NR_002902	ENSMUSG00000064925	Snora62	E2|MBI-13|MBI-136|Rnu108	small nucleolar RNA, H/ACA box 62	snoRNA	3.5	24.0	4.0	87.5	27.5	13.5	8.5	12.5
Merged-chr3-135628993-2	chr3	135628903	135629103	+	575.0	f0_balb.idr|f1_balb.idr	intron (NM_008689, intron 6 of 24)	intron (NM_008689, intron 6 of 24)	62544.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	6.0	13.0	7.5	94.5	14.5	15.0	6.0	3.0
Merged-chr9-123931915-4	chr9	123931807	123932007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36785.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	151.0	137.0	198.0	2120.5	226.0	81.0	122.5	91.5
Merged-chr16-25059798-2	chr16	25059698	25059898	+	1000.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040374, exon 1 of 3)	non-coding (NR_040374, exon 1 of 3)	159.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	3.5	9.0	12.5	214.0	23.5	6.0	7.5	6.5
Merged-chr7-44983292-4	chr7	44983193	44983393	+	935.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252476, intron 2 of 9)	intron (NM_001252476, intron 2 of 9)	3127.0	NM_001252476	15469.0	Mm.27545	NM_019830	ENSMUSG00000109324	Prmt1	6720434D09Rik|AW214366|Hrmt1l2|Mrmt1	protein arginine N-methyltransferase 1	protein-coding	14.5	20.0	18.0	118.5	48.0	13.5	18.0	11.0
Merged-chr2-48270512-4	chr2	48270413	48270613	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-543596.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	4.5	16.0	14.0	277.0	34.0	7.0	22.0	24.0
Merged-chr13-49213777-4	chr13	49213614	49213814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026738, intron 1 of 5)	intron (NM_026738, intron 1 of 5)	2312.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	26.0	22.5	40.5	490.5	47.5	12.5	14.0	16.5
Merged-chr6-42245877-4	chr6	42245783	42245983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029555)	promoter-TSS (NM_029555)	-52.0	NM_029555	76263.0	Mm.267014	NM_029555	ENSMUSG00000029864	Gstk1	0610025I19Rik|AW260476|DsbA-L	glutathione S-transferase kappa 1	protein-coding	111.0	184.0	95.5	2126.5	215.0	85.5	161.0	111.5
Merged-chr7-43563494-4	chr7	43563370	43563570	+	933.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008549, intron 1 of 4)	intron (NM_001008549, intron 1 of 4)	1100.0	NM_001008549	210104.0	Mm.333821	NM_001008549	ENSMUSG00000056592	Zfp658	-	zinc finger protein 658	protein-coding	21.5	25.5	13.0	297.5	42.0	10.0	11.0	9.0
Merged-chr4-46088055-3	chr4	46087967	46088167	+	985.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021883, intron 4 of 9)	intron (NM_021883, intron 4 of 9)	48845.0	NM_021883	21916.0	Mm.249594	NM_021883	ENSMUSG00000028328	Tmod1	E-Tmod|Tmod	tropomodulin 1	protein-coding	20.0	21.5	30.0	270.0	5.5	6.5	8.0	5.0
Merged-chr1-131275348-4	chr1	131275272	131275472	+	901.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019777, intron 4 of 21)	intron (NM_019777, intron 4 of 21)	4191.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	21.5	27.5	8.0	138.0	42.5	11.5	15.0	18.5
Merged-chr13-64448192-1	chr13	64448092	64448292	+	570.25	f0_balb.idr	Intergenic	Intergenic	15639.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	9.0	10.5	15.0	104.0	3.0	5.0	1.0	5.0
Merged-chr16-44139775-4	chr16	44139692	44139892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028108)	promoter-TSS (NM_028108)	1.0	NM_001347239	72117.0	Mm.278726	NM_028108	ENSMUSG00000022698	Naa50	2600005K24Rik|2810441M03Rik|AW112078|Mak3|Mak3p|Nat13|Nat5|San	N(alpha)-acetyltransferase 50, NatE catalytic subunit	protein-coding	180.5	321.0	232.5	2494.5	644.5	242.5	234.5	221.5
Merged-chr19-6074103-4	chr19	6073992	6074192	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081041, intron 2 of 9)	intron (NM_001081041, intron 2 of 9)	3095.0	NM_001081041	68505.0	Mm.227361	NM_001081041	ENSMUSG00000024799	Vps51	1110014N23Rik|3110057M17Rik|AI837850|Ffr	VPS51 GARP complex subunit	protein-coding	33.0	17.5	20.0	207.0	43.0	14.5	21.0	16.5
Merged-chr7-97425017-4	chr7	97424933	97425133	+	787.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7483.0	NM_009381	21835.0	Mm.28585	NM_009381	ENSMUSG00000035686	Thrsp	S14|SPOT14	thyroid hormone responsive	protein-coding	8.0	5.0	1.0	83.0	22.0	15.0	22.0	16.5
Merged-chr8-41041879-3	chr8	41041774	41041974	+	900.8110960000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005865)	promoter-TSS (NM_001005865)	57.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	5.5	9.5	5.5	194.5	45.5	15.0	11.0	12.5
Merged-chr2-152805547-2	chr2	152805447	152805647	+	682.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	URR1A|DNA|hAT-Charlie	22942.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	1.5	7.5	5.0	39.5	6.0	6.0	6.0	10.5
Merged-chr18-56821298-3	chr18	56821192	56821392	+	593.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177115, intron 1 of 4)	intron (NM_177115, intron 1 of 4)	104256.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	7.5	6.0	5.0	140.5	10.0	3.0	2.0	4.0
Merged-chr13-58471892-2	chr13	58471792	58471992	+	790.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68549.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	4.5	6.0	7.5	9.5	17.0	9.5	8.5	6.0
Merged-chr9-40727773-3	chr9	40727666	40727866	+	989.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	MTC|LTR|ERVL-MaLR	41802.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	24.0	17.0	35.0	443.5	8.0	0.5	5.5	3.0
Merged-chr5-72558210-2	chr5	72558110	72558310	+	678.833374	f1_balb.idr|f1_c57bl6.idr	intron (NR_153351, intron 2 of 21)	intron (NR_153351, intron 2 of 21)	1435.0	NM_001359837	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	3.5	17.0	1.5	80.0	19.0	7.5	6.0	6.5
Merged-chr2-85246745-2	chr2	85246621	85246821	+	938.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50022.0	NM_001033346	241528.0	Mm.291095	NM_001033346	ENSMUSG00000075224	Lrrc55	A330097E02Rik|Gm351	leucine rich repeat containing 55	protein-coding	5.5	8.0	4.5	63.0	15.0	4.0	2.5	11.0
Merged-chr10-12875065-4	chr10	12874943	12875143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13308.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	128.0	146.5	111.0	1737.5	335.5	99.0	145.5	96.5
Merged-chr10-83168618-6	chr10	83168492	83168692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021439, intron 2 of 2)	intron (NM_021439, intron 2 of 2)	169225.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	18.5	32.0	35.0	345.0	33.0	4.5	16.5	12.5
Merged-chr6-47889026-4	chr6	47888931	47889131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146175, intron 2 of 7)	intron (NM_146175, intron 2 of 7)	11476.0	NM_146175	101095.0	Mm.440186	NM_146175	ENSMUSG00000025821	Zfp282	AI449432|C81429|E430019K09Rik|HUB1	zinc finger protein 282	protein-coding	18.5	23.5	22.5	675.0	67.0	6.5	19.5	27.5
Merged-chr9-102626305-4	chr9	102626230	102626430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181394)	promoter-TSS (NM_181394)	34.0	NM_181394	69010.0	Mm.2000	NM_181394	ENSMUSG00000035048	Anapc13	1810004D07Rik|APC13|SWM1	anaphase promoting complex subunit 13	protein-coding	69.0	119.5	112.0	767.0	254.5	77.5	124.5	135.0
Merged-chr18-37999581-4	chr18	37999475	37999675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205336)	promoter-TSS (NM_001205336)	-606.0	NM_001205336	106952.0	Mm.247642	NM_139206	ENSMUSG00000024451	Arap3	Centd3|Drag1|E030006K04Rik|cnt-d3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	protein-coding	93.0	160.0	99.0	1400.5	194.0	72.0	85.0	65.0
Merged-chr8-116892846-4	chr8	116892745	116892945	+	900.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026844, intron 3 of 3)	intron (NM_026844, intron 3 of 3)	28591.0	NM_026844	66531.0	Mm.4011	NM_026844	ENSMUSG00000014633	Cmc2	1110046L09Rik|2310061C15Rik|DC13	COX assembly mitochondrial protein 2	protein-coding	10.0	10.5	3.0	70.0	60.5	21.0	20.0	9.0
Merged-chr15-53134398-4	chr15	53134305	53134505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	211778.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	52.0	77.0	36.5	1142.5	94.5	26.5	38.5	34.5
Merged-chr3-83885338-4	chr3	83885222	83885422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43714.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	198.0	274.5	335.0	2969.0	342.5	141.5	237.5	176.5
Merged-chr1-165769262-4	chr1	165769147	165769347	+	920.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 2 of 4)	intron (NR_149310, intron 2 of 4)	5489.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	4.5	32.5	8.0	101.0	24.5	10.0	6.5	9.0
Merged-chr4-149779130-4	chr4	149778953	149779153	+	870.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-4786.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	2.5	7.5	6.5	26.0	23.5	9.5	10.5	16.5
Merged-chr2-34781592-4	chr2	34781516	34781716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145522, intron 6 of 7)	intron (NM_145522, intron 6 of 7)	9526.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	30.5	89.0	8.0	65.0	104.5	46.0	5.0	6.0
Merged-chr18-37655729-4	chr18	37655629	37655829	+	970.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301259, intron 1 of 3)	intron (NM_001301259, intron 1 of 3)	-6216.0	NM_033584	93709.0	Mm.247203	NM_033584	ENSMUSG00000103144	Pcdhga1	-	protocadherin gamma subfamily A, 1	protein-coding	24.0	15.0	31.0	274.5	20.0	8.0	13.5	21.0
Merged-chr17-8164126-3	chr17	8164035	8164235	+	812.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1383.0	NM_001197046	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	9.0	10.0	8.0	70.5	5.5	5.0	1.5	6.5
Merged-chr8-106936174-1	chr8	106936074	106936274	+	982.0	f0_balb.idr	exon (NM_009229, exon 1 of 7)	exon (NM_009229, exon 1 of 7)	424.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	20.0	23.5	19.5	234.0	37.5	16.0	12.0	15.5
Merged-chr17-22431855-3	chr17	22431747	22431947	+	910.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198003, intron 2 of 6)	intron (NM_198003, intron 2 of 6)	7645.0	NM_001331198	74149.0	Mm.30767	NM_198003	ENSMUSG00000071266	Zfp946	1300003B13Rik	zinc finger protein 946	protein-coding	8.0	9.5	4.5	103.5	11.5	8.0	10.0	18.0
Merged-chr4-46202382-3	chr4	46202260	46202460	+	882.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAC)n|Simple_repeat|Simple_repeat	-6049.0	NM_011728	22590.0	Mm.247036	NM_011728	ENSMUSG00000028329	Xpa	AI573865|Xpac	xeroderma pigmentosum, complementation group A	protein-coding	10.0	6.5	6.0	118.5	26.5	7.5	15.0	2.0
Merged-chr4-41358842-4	chr4	41358751	41358951	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355508, intron 1 of 6)	intron (NM_001355508, intron 1 of 6)	6888.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	24.5	35.0	23.5	298.5	58.0	26.5	17.0	16.5
Merged-chr3-141492167-3	chr3	141492059	141492259	+	828.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293561, intron 1 of 16)	intron (NM_001293561, intron 1 of 16)	26595.0	NM_009472	22253.0	Mm.24430	NM_009472	ENSMUSG00000059921	Unc5c	B130051O18Rik|Unc5h3|rcm	unc-5 netrin receptor C	protein-coding	8.0	6.0	6.0	104.0	23.0	1.5	7.5	6.5
Merged-chr11-84462967-2	chr11	84462867	84463067	+	660.525024	f1_balb.idr|f1_c57bl6.idr	intron (NM_019816, intron 9 of 12)	ORR1D2|LTR|ERVL-MaLR	50534.0	NM_019816	56321.0	Mm.257482	NM_019816	ENSMUSG00000018697	Aatf	4933415H02Rik|5830465M17Rik|Che-1|Trb	apoptosis antagonizing transcription factor	protein-coding	5.5	7.5	11.0	209.5	6.5	6.0	2.0	12.0
Merged-chr17-31664922-4	chr17	31664823	31665023	+	769.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6159.0	NM_001357907	108121.0	Mm.379289	NM_024187	ENSMUSG00000061613	U2af1	2010107D16Rik	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 1	protein-coding	17.5	17.5	3.5	98.5	26.5	7.0	9.0	5.0
Merged-chr9-45984827-4	chr9	45984748	45984948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357246)	promoter-TSS (NM_001357246)	23.0	NM_001357246	18475.0	Mm.200859	NM_008775	ENSMUSG00000003131	Pafah1b2	2610005M20Rik|AI747451|AU021353|Pafahb|mus[b]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 2	protein-coding	27.0	28.5	12.5	329.5	68.0	25.0	26.5	23.5
Merged-chr4-147938341-4	chr4	147938259	147938459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1583.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	29.0	29.5	39.5	947.0	69.0	23.0	28.5	42.0
Merged-chr18-67504158-4	chr18	67504057	67504257	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194355, intron 8 of 14)	intron (NM_194355, intron 8 of 14)	39308.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	23.5	29.0	19.0	452.5	21.0	2.5	12.0	8.0
Merged-chr6-50109535-3	chr6	50109426	50109626	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164734)	promoter-TSS (NM_001164734)	-715.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	5.0	8.0	5.5	72.5	9.0	2.0	4.0	14.0
Merged-chr17-5807993-4	chr17	5807888	5808088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8498.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	30.0	38.0	30.5	582.0	72.0	24.0	46.0	21.5
Merged-chr2-129515178-4	chr2	129515087	129515287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	intron (NM_177653, intron 1 of 6)	21415.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	106.0	162.5	99.0	1724.5	275.5	96.5	109.5	97.0
Merged-chr4-137465344-4	chr4	137465218	137465418	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3485.0	NM_008305	15530.0	Mm.273662	NM_008305	ENSMUSG00000028763	Hspg2	AI852380|Pcn|Plc|per	perlecan (heparan sulfate proteoglycan 2)	protein-coding	17.5	38.5	18.5	384.5	73.5	17.0	26.0	25.5
Merged-chr12-46710224-3	chr12	46710135	46710335	+	948.788879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021361, intron 4 of 4)	L2a|LINE|L2	108540.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	7.5	28.5	18.0	309.5	5.0	3.5	3.0	5.5
Merged-chr7-80754230-4	chr7	80754115	80754315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 11 of 37)	intron (NM_016721, intron 11 of 37)	49116.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	80.5	59.0	68.5	1323.0	79.5	25.5	46.0	53.5
Merged-chr5-141084929-4	chr5	141084810	141085010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84314.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	52.5	55.5	18.5	636.0	127.5	62.0	47.5	50.5
Merged-chr6-72884934-4	chr6	72884850	72885050	+	909.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019715, intron 1 of 6)	MIRc|SINE|MIR	14342.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	18.0	13.5	7.0	315.0	27.5	8.5	12.5	14.5
Merged-chr7-112238013-3	chr7	112237899	112238099	+	893.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001193305, intron 2 of 25)	intron (NM_001193305, intron 2 of 25)	12163.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	28.0	22.5	12.5	216.0	5.5	3.5	0.0	4.0
Merged-chr8-122585547-1	chr8	122585447	122585647	+	892.6666869999999	f0_balb.idr	intron (NM_001193645, intron 9 of 11)	intron (NM_001193645, intron 9 of 11)	-8640.0	NM_009698	11821.0	Mm.1786	NM_009698	ENSMUSG00000006589	Aprt	C85684	adenine phosphoribosyl transferase	protein-coding	13.5	19.5	16.5	193.0	13.0	4.5	2.5	15.0
Merged-chr1-180971904-3	chr1	180971809	180972009	+	848.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 19 of 22)	B2_Mm2|SINE|B2	29391.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	6.5	14.0	5.5	163.0	16.0	6.0	7.5	8.0
Merged-chr19-42778092-3	chr19	42777988	42778188	+	843.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362410, intron 2 of 16)	intron (NM_001362410, intron 2 of 16)	558.0	NM_001362410	192236.0	Mm.218381	NM_019424	ENSMUSG00000025188	Hps1	6030422N11Rik|BB405864|Gm21361|Hps|ep	HPS1, biogenesis of lysosomal organelles complex 3 subunit 1	protein-coding	8.5	9.0	10.0	90.0	17.0	2.0	2.5	4.5
Merged-chr2-128179931-3	chr2	128179815	128180015	+	883.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	52340.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	8.0	29.0	5.0	76.5	7.5	2.5	3.0	6.0
Merged-chr6-113377856-6	chr6	113377771	113377971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133932)	promoter-TSS (NM_133932)	-242.0	NM_026552	68089.0	Mm.289306	NM_026552	ENSMUSG00000079426	Arpc4	20kDa|5330419I20Rik|AI327076|p20-Arc	actin related protein 2/3 complex, subunit 4	protein-coding	75.5	116.0	67.0	897.0	240.5	124.5	104.5	100.0
Merged-chr6-31502897-3	chr6	31502801	31503001	+	819.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 17 of 17)	intron (NM_013791, intron 17 of 17)	61036.0	NM_013723	27205.0	Mm.89918	NM_013723	ENSMUSG00000025608	Podxl	AW121214|Ly102|PC|PCLP-1|Pclp1|Podxl1	podocalyxin-like	protein-coding	9.0	10.5	12.0	310.5	3.0	2.0	7.0	17.5
Merged-chr6-18848550-4	chr6	18848430	18848630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133939)	promoter-TSS (NM_133939)	-105.0	NM_133939	76522.0	Mm.275158	NM_133939	ENSMUSG00000044155	Lsm8	2010003I05Rik|AW214405|Naa38	LSM8 homolog, U6 small nuclear RNA associated	protein-coding	220.0	352.5	270.5	3969.5	723.5	277.5	375.0	233.0
Merged-chr5-100505991-3	chr5	100505884	100506084	+	782.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-5345.0	NM_001359914	231506.0	Mm.212568	NM_172714	ENSMUSG00000035310	Lin54	AI461788	lin-54 homolog (C. elegans)	protein-coding	3.0	9.0	7.0	2.5	23.5	8.5	17.5	15.5
Merged-chr5-137285236-2	chr5	137285136	137285336	+	914.3333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3018.0	NM_009599	11423.0	Mm.255464	NM_009599	ENSMUSG00000023328	Ache	-	acetylcholinesterase	protein-coding	1.0	7.5	0.0	29.5	4.5	14.0	4.5	11.5
Merged-chr19-56731700-4	chr19	56731617	56731817	+	790.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9345.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	15.5	23.0	15.0	149.0	27.0	13.5	2.5	6.0
Merged-chr19-34724812-4	chr19	34724721	34724921	+	633.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172838, intron 1 of 6)	intron (NM_172838, intron 1 of 6)	22290.0	NM_172838	240638.0	Mm.74636	NM_172838	ENSMUSG00000009378	Slc16a12	3230401A21|AW210596	solute carrier family 16 (monocarboxylic acid transporters), member 12	protein-coding	8.5	7.5	5.0	195.5	23.0	9.5	14.5	6.5
Merged-chr14-75068908-4	chr14	75068830	75069030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	MLT1D|LTR|ERVL-MaLR	52903.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	17.5	35.5	19.5	284.5	38.0	21.0	16.0	15.0
Merged-chr9-114870268-3	chr9	114870114	114870314	+	895.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-26062.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	15.5	13.5	14.5	169.5	12.0	0.5	2.0	5.0
Merged-chr9-90272161-2	chr9	90272061	90272261	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1392.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	1.0	4.0	2.0	37.0	14.5	8.0	5.0	7.0
Merged-chr5-98018330-4	chr5	98018220	98018420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133738, intron 3 of 16)	intron (NM_133738, intron 3 of 16)	12642.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	108.0	148.0	104.0	2111.5	228.0	91.5	97.0	122.5
Merged-chr2-58534571-4	chr2	58534490	58534690	+	968.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110204, intron 2 of 12)	intron (NM_001110204, intron 2 of 12)	26820.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	36.0	35.0	38.5	495.5	36.5	10.5	18.5	18.0
Merged-chr18-64989653-4	chr18	64989566	64989766	+	956.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-33861.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	23.5	46.0	15.5	103.0	80.0	28.5	27.0	22.5
Merged-chr9-111608911-4	chr9	111608797	111608997	+	817.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324546, intron 1 of 9)	intron (NM_001324546, intron 1 of 9)	81451.0	NM_016853	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	7.0	7.0	6.5	83.0	22.5	17.5	17.0	16.0
Merged-chr3-9725569-8	chr3	9725429	9725629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	108150.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	40.0	64.5	43.0	470.5	84.0	23.5	41.0	23.0
Merged-chr7-80246353-4	chr7	80246244	80246444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177765)	promoter-TSS (NM_177765)	-32.0	NM_177765	269954.0	Mm.276780	NM_177765	ENSMUSG00000045467	Ttll13	1700111A04Rik|4921538O11|BC024578	tubulin tyrosine ligase-like family, member 13	protein-coding	149.5	209.5	91.5	1612.0	330.0	120.0	153.5	112.5
Merged-chr11-80067781-4	chr11	80067683	80067883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018776, intron 1 of 7)	intron (NM_018776, intron 1 of 7)	13208.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	76.5	90.0	83.5	822.0	109.5	40.5	47.5	54.0
Merged-chr11-101465165-4	chr11	101465064	101465264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012037, intron 1 of 5)	intron (NM_012037, intron 1 of 5)	1035.0	NM_012037	26949.0	Mm.29210	NM_012037	ENSMUSG00000034993	Vat1	VAT-1	vesicle amine transport 1	protein-coding	53.5	95.5	89.5	955.5	128.5	43.5	41.0	52.5
Merged-chr2-75830535-4	chr2	75830430	75830630	+	835.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1647.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	5.5	20.5	5.0	198.0	22.0	14.5	2.5	10.0
Merged-chr9-90067593-4	chr9	90067552	90067752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 7 of 10)	intron (NM_001312649, intron 7 of 10)	13385.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	19.5	38.5	24.0	851.0	118.0	40.0	60.5	50.5
Merged-chr1-165731700-4	chr1	165731582	165731782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23588.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	26.5	35.0	48.5	750.0	70.5	22.0	40.0	29.5
Merged-chr11-43634225-3	chr11	43634151	43634351	+	680.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32689.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	7.0	16.5	10.0	91.5	19.0	8.0	11.5	7.0
Merged-chr13-120300232-3	chr13	120300130	120300330	+	942.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037925)	promoter-TSS (NM_001037925)	-162.0	NM_001037925	625360.0	Mm.327506	NM_001037925	ENSMUSG00000094796	BC147527	-	cDNA sequence BC147527	protein-coding	9.0	0.5	15.5	236.5	11.5	5.5	4.5	5.5
Merged-chr7-25788347-2	chr7	25788247	25788447	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 1 of 19)	intron (NM_009465, intron 1 of 19)	386.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	8.5	15.5	8.0	155.5	30.0	8.5	9.5	11.0
Merged-chr15-61935704-1	chr15	61935604	61935804	+	825.0	f0_balb.idr	Intergenic	Lx8|LINE|L1	-49637.0	NM_001177354	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	5.5	5.5	13.5	152.0	1.5	1.5	5.5	7.5
Merged-chr3-144137686-3	chr3	144137612	144137812	+	992.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64620.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	1.0	6.5	7.5	6.5	38.0	10.0	12.5	16.0
Merged-chr6-100416207-4	chr6	100416110	100416310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111190.0	NR_040525	73395.0	Mm.69413	NR_040525	ENSMUSG00000101553	1700049E22Rik	-	RIKEN cDNA 1700049E22 gene	ncRNA	25.5	35.5	46.5	730.0	78.0	15.5	33.5	36.0
Merged-chr12-71981446-4	chr12	71981351	71981551	+	888.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 22 of 25)	intron (NM_026102, intron 22 of 25)	89540.0	NM_181752	238252.0	Mm.390508	NM_181752	ENSMUSG00000043398	Gpr135	PAFR	G protein-coupled receptor 135	protein-coding	10.0	24.0	7.5	132.0	85.5	20.5	16.0	14.5
Merged-chr1-177338871-3	chr1	177338781	177338981	+	933.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90114.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	6.0	11.0	10.0	176.5	21.5	7.0	6.5	5.5
Merged-chr9-13540990-4	chr9	13540875	13541075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79014.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	27.0	53.0	23.0	487.5	60.5	29.0	27.0	20.5
Merged-chr2-174106773-3	chr2	174106682	174106882	+	859.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3569.0	NM_213733	228961.0	Mm.295629	NM_213733	ENSMUSG00000039263	Npepl1	BC023239|C85514|mKIAA1974	aminopeptidase-like 1	protein-coding	4.5	1.0	4.0	78.0	24.0	5.0	16.0	13.5
Merged-chr3-105710207-3	chr3	105710087	105710287	+	860.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163356, intron 1 of 1)	intron (NM_001163356, intron 1 of 1)	4729.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	14.5	20.0	12.5	299.0	10.5	6.5	6.0	13.5
Merged-chr8-10840743-1	chr8	10840643	10840843	+	1000.0	f0_balb.idr	Intergenic	Intergenic	41711.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	2.0	6.0	9.0	177.0	11.0	4.5	6.5	6.5
Merged-chr7-25133250-4	chr7	25133161	25133361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163555)	promoter-TSS (NM_001163555)	-801.0	NM_001163554	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	27.0	48.5	25.0	557.5	95.5	35.0	31.0	36.5
Merged-chr9-110672661-3	chr9	110672555	110672755	+	878.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	16152.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	11.0	11.5	10.5	62.5	21.0	8.5	15.5	10.0
Merged-chr2-160431024-2	chr2	160430924	160431124	+	550.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-63959.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	1.5	0.0	10.0	58.5	21.0	4.5	6.5	7.0
Merged-chr9-122357233-4	chr9	122357094	122357294	+	879.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359207, intron 1 of 4)	intron (NM_001359207, intron 1 of 4)	5578.0	NM_026179	67469.0	Mm.280254	NM_026179	ENSMUSG00000032540	Abhd5	1300003D03Rik|2010002J10Rik|CDS|CGI-58|IECN5|NCIE2	abhydrolase domain containing 5	protein-coding	8.0	18.0	12.0	188.0	17.0	7.5	7.0	6.0
Merged-chr11-94629721-4	chr11	94629634	94629834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133807)	promoter-TSS (NM_133807)	-90.0	NM_133807	98238.0	Mm.172720	NM_133807	ENSMUSG00000020869	Lrrc59	AA959742|C78668	leucine rich repeat containing 59	protein-coding	55.5	92.0	45.5	663.5	137.0	42.0	63.5	73.0
Merged-chr12-8522946-5	chr12	8522871	8523071	+	809.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	16595.0	NM_001038660	328059.0	Mm.46326	NM_177802	ENSMUSG00000020600	Slc7a15	Arpat	solute carrier family 7 (cationic amino acid transporter, y+ system), member 15	protein-coding	8.5	8.5	13.0	98.0	12.5	7.5	14.5	9.5
Merged-chr19-16038033-3	chr19	16037944	16038144	+	826.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52969.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	14.0	8.0	4.5	185.5	12.5	3.0	3.5	8.5
Merged-chr2-72367394-3	chr2	72367294	72367494	+	628.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 4 of 19)	intron (NM_023057, intron 4 of 19)	81693.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	2.0	13.0	2.0	114.5	7.5	5.0	4.5	8.0
Merged-chr9-27109672-4	chr9	27109565	27109765	+	977.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023277, intron 1 of 8)	intron (NM_023277, intron 1 of 8)	45756.0	NM_023277	83964.0	Mm.28770	NM_023277	ENSMUSG00000031990	Jam3	1110002N23Rik|JAM-3|JAM-C|Jcam3	junction adhesion molecule 3	protein-coding	28.0	34.0	30.5	611.5	92.0	16.0	34.5	31.5
Merged-chr10-51491381-12	chr10	51491345	51491545	+	989.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013532, exon 3 of 9)	exon (NM_013532, exon 3 of 9)	547.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	15.0	46.5	21.0	118.0	54.5	18.0	23.0	28.0
Merged-chr18-34850288-4	chr18	34850207	34850407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9718.0	NM_144865	225362.0	Mm.293588	NM_144865	ENSMUSG00000038555	Reep2	-	receptor accessory protein 2	protein-coding	25.5	29.5	21.0	443.0	75.0	34.5	43.0	36.5
Merged-chr11-73176583-4	chr11	73176527	73176727	+	979.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029564)	promoter-TSS (NM_029564)	381.0	NM_001168470	66048.0	Mm.73608	NM_025318	ENSMUSG00000047260	Emc6	0610009E20Rik|0610025L18Rik|Tmem93	ER membrane protein complex subunit 6	protein-coding	11.5	18.0	15.5	104.5	38.5	15.5	21.0	14.5
Merged-chr8-123283144-3	chr8	123283041	123283241	+	964.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016925, intron 28 of 42)	B1F1|SINE|Alu	-28919.0	NM_028200	72325.0	Mm.276193	NM_028200	ENSMUSG00000001062	Vps9d1	1300018I17Rik|2410004N05Rik|5DOS1|Vsp9d1	VPS9 domain containing 1	protein-coding	11.0	11.5	17.5	318.5	8.0	2.0	10.5	6.5
Merged-chr13-100490632-4	chr13	100490519	100490719	+	814.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360706, intron 1 of 16)	intron (NM_001360706, intron 1 of 16)	1775.0	NR_153794	23894.0	Mm.272533	NM_022011	ENSMUSG00000021639	Gtf2h2	44kDa|BTF2 p44|BTF2-p44|Btf2p44|p44	general transcription factor II H, polypeptide 2	protein-coding	9.0	10.0	9.5	108.5	15.0	6.5	10.0	6.5
Merged-chr17-47009112-3	chr17	47008985	47009185	+	769.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146078, intron 1 of 46)	intron (NM_146078, intron 1 of 46)	1447.0	NM_146078	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	12.5	10.0	3.5	35.0	17.0	10.0	4.5	5.5
Merged-chr3-96302816-4	chr3	96302716	96302916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8847.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	51.0	51.5	48.0	939.5	100.5	66.5	50.5	59.5
Merged-chr13-63250256-3	chr13	63250158	63250358	+	751.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	10229.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	7.0	8.0	11.0	273.0	6.5	2.0	7.0	4.5
Merged-chr11-3895232-4	chr11	3895144	3895344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026150)	promoter-TSS (NM_026150)	4.0	NM_173745	75219.0	Mm.32588	NM_173745	ENSMUSG00000047205	Dusp18	4930527G07Rik|AI430870|BB028064|DSP18|DUSP20|LMWDSP20	dual specificity phosphatase 18	protein-coding	73.0	102.0	35.5	844.0	155.0	52.5	113.0	63.0
Merged-chr5-100569521-4	chr5	100569419	100569619	+	817.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 1 of 4)	intron (NM_139198, intron 1 of 4)	2686.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	16.0	11.5	10.0	70.0	33.5	9.5	9.0	11.5
Merged-chr7-19803128-3	chr7	19803041	19803241	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6332.0	NM_023224	80794.0	Mm.81698	NM_023224	ENSMUSG00000040525	Cblc	2310076I21Rik|2310079L19Rik|Cbl3	Casitas B-lineage lymphoma c	protein-coding	14.0	17.5	12.5	122.0	39.0	5.5	3.0	6.0
Merged-chr16-91376839-3	chr16	91376740	91376940	+	994.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 1 of 7)	intron (NM_001347258, intron 1 of 7)	4057.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	21.0	16.0	24.0	243.0	9.5	4.0	14.5	12.0
Merged-chr9-40345321-3	chr9	40345215	40345415	+	710.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001357617, intron 2 of 20)	intron (NM_001357617, intron 2 of 20)	930.0	NM_001357623	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	13.0	19.0	9.0	269.5	22.0	3.5	8.0	13.5
Merged-chr2-116953548-4	chr2	116953459	116953659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53407.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	51.0	121.0	73.0	488.5	146.5	53.0	60.5	40.0
Merged-chr1-172247703-4	chr1	172247595	172247795	+	945.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013734, intron 7 of 22)	MER21C|LTR|ERVL	10729.0	NM_013734	27222.0	Mm.482392	NM_013734	ENSMUSG00000007107	Atp1a4	-	ATPase, Na+/K+ transporting, alpha 4 polypeptide	protein-coding	15.0	54.0	15.5	169.5	45.0	23.0	29.5	15.0
Merged-chr6-70864471-4	chr6	70864374	70864574	+	959.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 2 of 16)	intron (NM_010121, intron 2 of 16)	19959.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	18.5	27.0	29.0	503.0	55.0	11.5	20.5	33.0
Merged-chr6-32460586-4	chr6	32460482	32460682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-50559.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	38.5	90.0	40.0	663.0	68.5	33.5	42.0	29.0
Merged-chr6-30076357-1	chr6	30076257	30076457	+	1000.0	f0_balb.idr	promoter-TSS (NM_001164229)	promoter-TSS (NM_001164229)	36.0	NM_001164229	18181.0	Mm.259258	NM_010938	ENSMUSG00000058440	Nrf1	C87038|D6Ertd415e	nuclear respiratory factor 1	protein-coding	8.0	8.5	13.5	348.0	2.5	0.5	0.0	0.0
Merged-chr1-125435683-7	chr1	125435589	125435789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205385)	promoter-TSS (NM_001205385)	38.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	238.5	333.0	281.5	3600.5	558.5	243.0	323.5	283.0
Merged-chr16-94370310-3	chr16	94370226	94370426	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159620)	promoter-TSS (NM_001159620)	4.0	NM_001159619	56176.0	Mm.474449	NM_019543	ENSMUSG00000022940	Pigp	Dcrc|Dscr5	phosphatidylinositol glycan anchor biosynthesis, class P	protein-coding	20.5	41.5	27.0	240.5	51.5	26.0	29.0	28.0
Merged-chr11-53805966-4	chr11	53805872	53806072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	35499.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	117.0	263.0	137.5	1779.5	421.5	99.0	194.5	118.0
Merged-chr18-61105785-4	chr18	61105703	61105903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001037859, exon 2 of 22)	5' UTR (NM_001037859, exon 2 of 22)	231.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	100.0	177.0	95.5	864.5	227.5	69.5	81.5	79.0
Merged-chr3-101006443-3	chr3	101006320	101006520	+	622.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 7 of 8)	MTEa|LTR|ERVL-MaLR	23075.0	NM_001167906	630146.0	Mm.190915	NM_001099332	ENSMUSG00000086564	Cd101	EWI-101|Gm1016|Gm734|Igsf2	CD101 antigen	protein-coding	10.0	2.0	9.5	31.0	5.5	6.0	8.0	8.0
Merged-chr9-66592287-4	chr9	66592168	66592368	+	902.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144937, intron 1 of 14)	CpG	847.0	NM_001302122	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	5.5	11.5	8.0	80.0	18.0	4.5	12.5	6.5
Merged-chr7-34193032-4	chr7	34192938	34193138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360710, exon 4 of 6)	exon (NM_001360710, exon 4 of 6)	3632.0	NM_026549	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	84.0	85.0	76.5	1763.5	114.5	51.5	104.0	96.0
Merged-chr2-151001863-3	chr2	151001764	151001964	+	818.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207204, intron 1 of 23)	intron (NM_207204, intron 1 of 23)	7534.0	NM_207204	78177.0	Mm.120911	NM_207204	ENSMUSG00000068115	Ninl	4930519N13Rik|Gm1004|Gm1634|mKIAA0980	ninein-like	protein-coding	10.5	18.0	11.0	143.5	13.0	5.5	11.5	9.5
Merged-chr1-154058035-4	chr1	154057914	154058114	+	766.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143173.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	11.0	11.5	6.5	68.0	33.5	11.0	3.5	5.5
Merged-chr6-52477644-4	chr6	52477561	52477761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14790.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	89.5	127.5	104.5	1644.5	164.5	97.5	112.5	106.5
Merged-chr15-53130920-4	chr15	53130814	53131014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	215269.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	61.5	76.0	80.5	1261.5	183.5	38.5	63.0	39.0
Merged-chr10-120977993-4	chr10	120977896	120978096	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081193, exon 1 of 13)	exon (NM_001081193, exon 1 of 13)	1334.0	NM_001081193	380664.0	Mm.339371	NM_001081193	ENSMUSG00000048661	Lemd3	AI316861|Man1	LEM domain containing 3	protein-coding	23.0	18.0	18.5	225.5	39.0	11.5	7.5	6.0
Merged-chr7-107607961-4	chr7	107607878	107608078	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163557, intron 1 of 25)	intron (NM_001163557, intron 1 of 25)	1134.0	NM_001163557	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	19.5	33.0	16.5	308.0	78.0	23.0	17.0	26.5
Merged-chr19-55774589-3	chr19	55774498	55774698	+	818.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	32788.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	7.5	2.0	6.0	62.0	18.5	8.5	6.5	4.5
Merged-chr6-116264201-4	chr6	116264095	116264295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309446)	promoter-TSS (NM_001309446)	-24.0	NM_001309446	67492.0	Mm.272772	NM_001081317	ENSMUSG00000042213	Zfand4	Anubl1	zinc finger, AN1-type domain 4	protein-coding	61.5	91.5	52.5	829.0	145.5	53.0	87.5	60.0
Merged-chr11-44417616-4	chr11	44417526	44417726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17563.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	40.5	35.0	28.5	542.0	91.0	50.0	44.5	55.5
Merged-chr13-24103341-4	chr13	24103239	24103439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026825, intron 17 of 37)	intron (NM_026825, intron 17 of 37)	-112125.0	NM_145399	214189.0	Mm.255667	NM_145399	ENSMUSG00000021337	Scgn	-	secretagogin, EF-hand calcium binding protein	protein-coding	48.5	99.5	60.5	405.5	110.5	53.5	39.5	27.5
Merged-chr16-36999762-4	chr16	36999637	36999837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9270.0	NM_001358217	207215.0	Mm.211899	NM_001037321	ENSMUSG00000047746	Fbxo40	9830003A13Rik|mKIAA1195	F-box protein 40	protein-coding	18.0	21.0	28.0	349.0	55.5	21.5	21.0	20.5
Merged-chr9-41084510-6	chr9	41084465	41084665	+	824.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	-5059.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	9.5	9.0	3.5	76.5	28.5	18.5	17.0	15.5
Merged-chr9-37247623-4	chr9	37247509	37247709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145960, intron 1 of 18)	intron (NM_001145960, intron 1 of 18)	8129.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	105.5	128.5	126.0	1468.0	262.5	77.0	87.0	83.5
Merged-chr9-100644234-4	chr9	100644131	100644331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 1 of 33)	CpG	783.0	NM_001357265	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	33.0	71.0	65.0	559.5	99.0	42.5	47.0	32.0
Merged-chr3-41245096-4	chr3	41244980	41245180	+	937.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162034.0	NM_027558	70804.0	Mm.40321	NM_027558	ENSMUSG00000049940	Pgrmc2	4631434O19Rik|5730409G06Rik|DG6|PMBP	progesterone receptor membrane component 2	protein-coding	78.5	91.0	106.0	1510.0	27.5	11.0	27.0	27.5
Merged-chr2-130491801-4	chr2	130491679	130491879	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	41501.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	74.0	153.5	69.0	1019.5	26.0	8.0	6.5	13.5
Merged-chr2-43545875-4	chr2	43545784	43545984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR25C|LTR|ERVK	-9441.0	NM_001289593	70789.0	Mm.105278	NM_027552	ENSMUSG00000026866	Kynu	4432411A05Rik	kynureninase (L-kynurenine hydrolase)	protein-coding	43.5	24.5	30.5	812.0	64.0	22.5	25.5	55.0
Merged-chr9-108002543-4	chr9	108002430	108002630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013785)	promoter-TSS (NM_013785)	-118.0	NM_013785	27399.0	Mm.276155	NM_013785	ENSMUSG00000032594	Ip6k1	1200016D08Rik|AU022776|Ihpk1|InsP6|InsP6k1|Itpk6	inositol hexaphosphate kinase 1	protein-coding	170.5	271.0	155.0	2018.0	470.0	183.5	157.0	161.0
Merged-chr14-56777625-4	chr14	56777528	56777728	+	897.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025682, intron 1 of 8)	CpG	690.0	NM_001360420	66645.0	Mm.20129	NM_025682	ENSMUSG00000021938	Pspc1	5730470C09Rik|AI327109|AI449052|PSP1	paraspeckle protein 1	protein-coding	12.0	11.0	14.0	156.0	32.0	10.5	14.5	10.5
Merged-chr4-139158498-1	chr4	139158398	139158598	+	553.0	f0_balb.idr	Intergenic	Intergenic	22157.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	6.0	8.5	5.5	162.5	7.0	0.5	2.0	5.0
Merged-chr19-9137308-2	chr19	9137208	9137408	+	774.299988	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	-1742.0	NM_025610	66514.0	Mm.272847	NM_025610	ENSMUSG00000024654	Asrgl1	2410004D18Rik|ALP|ALP1|AU040643|AW060375	asparaginase like 1	protein-coding	14.5	6.0	2.0	82.5	8.0	10.5	9.5	4.5
Merged-chr5-92318789-4	chr5	92318681	92318881	+	947.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33C|LTR|ERVL	-8757.0	NM_172713	231452.0	Mm.86564	NM_172713	ENSMUSG00000029415	Sdad1	4931421J16|AA591032|AW538460	SDA1 domain containing 1	protein-coding	14.5	21.5	10.5	246.0	50.5	19.5	14.0	9.0
Merged-chr8-11602186-3	chr8	11602098	11602298	+	772.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32838.0	NR_030781	102334.0	Mm.12459	NM_133971	ENSMUSG00000031508	Ankrd10	4833425P12Rik|AW549277	ankyrin repeat domain 10	protein-coding	9.0	8.0	5.0	135.5	15.0	10.0	6.5	11.0
Merged-chr7-79935183-3	chr7	79935081	79935281	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027420)	promoter-TSS (NM_027420)	83.0	NM_027420	70420.0	Mm.34266	NM_027420	ENSMUSG00000039043	Arpin	2610034B18Rik	actin-related protein 2/3 complex inhibitor	protein-coding	12.5	17.5	9.0	102.5	22.5	11.0	5.0	10.5
Merged-chr10-67069163-4	chr10	67069056	67069256	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 1 of 7)	intron (NM_178606, intron 1 of 7)	27832.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	15.5	23.5	13.5	320.0	30.5	16.0	16.5	22.5
Merged-chr17-36836297-4	chr17	36836283	36836483	+	932.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286727)	promoter-TSS (NM_001286727)	-763.0	NM_001025599	22670.0	Mm.34587	NM_030698	ENSMUSG00000024457	Trim26	AI462198|Zfp173|Zfp1736	tripartite motif-containing 26	protein-coding	6.0	3.0	2.0	34.0	72.5	27.5	21.0	19.5
Merged-chr11-118163863-4	chr11	118163772	118163972	+	929.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001112699)	TTS (NM_001112699)	-34653.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	31.5	11.5	17.5	241.5	24.5	14.5	21.0	19.5
Merged-chr5-21424807-4	chr5	21424711	21424911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029195)	promoter-TSS (NM_029195)	-92.0	NM_177869	330050.0	Mm.40655	NM_177869	ENSMUSG00000047221	Fam185a	4631428I10|AI847670	family with sequence similarity 185, member A	protein-coding	166.5	179.5	123.5	2630.5	371.5	126.0	207.0	115.0
Merged-chr7-135652956-4	chr7	135652851	135653051	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015548)	promoter-TSS (NR_015548)	-637.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	30.0	31.0	20.5	299.0	53.0	19.5	18.5	29.0
Merged-chr16-89707673-4	chr16	89707579	89707779	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110673.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	13.0	20.5	13.5	359.0	34.5	13.0	23.0	17.5
Merged-chr4-46374605-3	chr4	46374483	46374683	+	712.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	14840.0	NM_029086	74753.0	Mm.45973	NM_029086	ENSMUSG00000028331	Trmo	5830415F09Rik|AV014846|Nap1	tRNA methyltransferase O	protein-coding	10.0	20.0	12.5	49.5	9.5	3.5	5.0	7.5
Merged-chr11-68865969-4	chr11	68865873	68866073	+	898.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12842.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	19.0	21.5	19.5	191.0	56.0	10.0	15.0	15.0
Merged-chr11-69031865-3	chr11	69031750	69031950	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281465, intron 15 of 22)	intron (NM_001281465, intron 15 of 22)	-13787.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	14.0	7.0	14.0	110.0	11.0	7.5	7.5	8.5
Merged-chr4-132946698-6	chr4	132946652	132946852	+	918.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24201.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	13.0	9.5	18.0	99.0	29.0	20.0	8.5	18.5
Merged-chr7-127410733-3	chr7	127410626	127410826	+	896.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3904.0	NM_001167832	233893.0	Mm.297097	NM_146203	ENSMUSG00000045757	Zfp764	8030466O12Rik	zinc finger protein 764	protein-coding	5.5	11.0	4.0	93.5	19.5	9.0	7.0	10.0
Merged-chr10-86110334-2	chr10	86110234	86110434	+	655.666626	f1_balb.idr|f1_c57bl6.idr	intron (NR_038024, intron 2 of 2)	intron (NR_038024, intron 2 of 2)	14480.0	NR_038024	78170.0	Mm.444790	NR_038024	ENSMUSG00000112493	4930486F22Rik	-	RIKEN cDNA 4930486F22 gene	ncRNA	2.0	1.5	0.0	22.5	14.0	8.5	5.5	9.0
Merged-chr2-167773122-4	chr2	167773016	167773216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81939.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	173.0	246.0	237.0	2865.5	412.5	159.5	230.0	226.5
Merged-chr1-138253116-1	chr1	138253016	138253216	+	545.0	f0_balb.idr	Intergenic	Lx5|LINE|L1	-20622.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	8.0	5.0	6.5	76.0	7.5	3.0	5.0	4.0
Merged-chr19-5568381-4	chr19	5568289	5568489	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033448, exon 1 of 2)	5' UTR (NM_001033448, exon 1 of 2)	365.0	NM_001033448	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	22.5	21.0	13.5	178.5	64.5	10.5	16.0	25.5
Merged-chr8-126695065-4	chr8	126694986	126695186	+	814.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101650.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	13.0	6.5	3.0	95.5	29.5	9.0	5.5	15.0
Merged-chr18-9731168-3	chr18	9731070	9731270	+	856.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	23522.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	8.0	9.0	7.5	82.0	4.0	2.0	3.0	2.5
Merged-chr2-104817001-4	chr2	104816905	104817105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123327)	promoter-TSS (NM_001123327)	-309.0	NM_001123327	99003.0	Mm.274314	NM_001123327	ENSMUSG00000074994	Qser1	4732486I23Rik|AI502974	glutamine and serine rich 1	protein-coding	103.5	120.0	114.5	1531.5	247.0	106.5	135.0	111.0
Merged-chr9-74990152-4	chr9	74989993	74990193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153584, intron 1 of 11)	intron (NM_153584, intron 1 of 11)	13982.0	NM_153584	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	17.5	20.0	27.5	355.5	34.5	14.0	17.5	27.5
Merged-chr7-139402946-4	chr7	139402848	139403048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355162, intron 1 of 15)	L1MB5|LINE|L1	2454.0	NM_001355162	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	58.0	112.5	52.5	480.0	113.5	43.0	63.5	38.5
Merged-chr12-76957350-4	chr12	76957213	76957413	+	961.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146176, intron 1 of 3)	intron (NM_001146176, intron 1 of 3)	4935.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	27.5	17.5	11.5	392.5	50.5	11.5	24.0	25.5
Merged-chr15-95826999-2	chr15	95826899	95827099	+	965.166626	f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	intron (NR_155276, intron 1 of 1)	3073.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	2.0	15.0	7.5	61.5	17.5	4.5	6.0	7.0
Merged-chr8-95633475-4	chr8	95633384	95633584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030198)	promoter-TSS (NM_030198)	-75.0	NM_030198	78833.0	Mm.35546	NM_030198	ENSMUSG00000031669	Gins3	2700085M18Rik|AI616142	GINS complex subunit 3 (Psf3 homolog)	protein-coding	43.0	72.0	60.0	828.0	147.5	53.5	68.5	53.0
Merged-chr3-57749054-4	chr3	57748898	57749098	+	973.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357080, intron 2 of 10)	intron (NM_001357080, intron 2 of 10)	12941.0	NR_130743	24017.0	Mm.274360	NM_011883	ENSMUSG00000036503	Rnf13	2010001H16Rik|Rzf	ring finger protein 13	protein-coding	9.0	20.5	17.0	215.0	39.5	14.0	15.5	10.5
Merged-chr7-98120462-4	chr7	98120359	98120559	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256081)	promoter-TSS (NM_001256081)	-966.0	NM_008663	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	16.5	30.5	6.5	257.5	61.5	20.5	24.5	13.5
Merged-chr18-35022013-4	chr18	35021928	35022128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67677.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	55.0	76.0	42.0	808.0	125.5	46.5	51.0	54.5
Merged-chr18-14783151-4	chr18	14783044	14783244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001100449)	promoter-TSS (NM_001100449)	-101.0	NM_001100449	72504.0	Mm.312233	NM_001100449	ENSMUSG00000054321	Taf4b	105kDa|2610524B04Rik|4932409F03Rik|AW987595|TAFII-105|TAFII105|Taf2c2	TATA-box binding protein associated factor 4b	protein-coding	300.5	405.0	288.5	4273.0	756.0	306.5	290.5	227.0
Merged-chr15-25637937-4	chr15	25637816	25638016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	intron (NM_019472, intron 1 of 40)	15366.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	166.5	294.5	160.0	2600.0	392.5	146.0	172.5	119.5
Merged-chr9-44966990-4	chr9	44966909	44967109	+	932.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1409.0	NM_145400	140630.0	Mm.215069	NM_145400	ENSMUSG00000059890	Ube4a	4732444G18Rik|9930123J21Rik|UFD2b	ubiquitination factor E4A	protein-coding	13.5	17.5	6.0	124.5	36.0	11.5	17.5	24.5
Merged-chr5-76517718-2	chr5	76517618	76517818	+	829.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-11589.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	1.5	5.0	1.5	75.0	14.0	7.5	5.0	8.5
Merged-chr3-106722186-4	chr3	106722085	106722285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028081, intron 1 of 2)	CpG	503.0	NM_001286685	321000.0	Mm.259638	NM_028081	ENSMUSG00000056260	Lrif1	2010012G17Rik|4933421E11Rik|AI450568	ligand dependent nuclear receptor interacting factor 1	protein-coding	91.5	178.5	93.0	1167.5	271.5	119.0	125.0	117.0
Merged-chr19-7495522-4	chr19	7495421	7495621	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146091, intron 1 of 12)	intron (NM_146091, intron 1 of 12)	1083.0	NM_146091	109168.0	Mm.264016	NM_146091	ENSMUSG00000024759	Atl3	4633402C03Rik|5730596K20Rik|AI465397|AW228836	atlastin GTPase 3	protein-coding	16.5	23.0	9.0	96.5	35.5	15.0	18.5	10.5
Merged-chr2-79966906-4	chr2	79966824	79967024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	-58525.0	NM_001009978	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	131.0	121.0	213.5	2990.5	294.0	96.5	181.0	164.5
Merged-chr11-69629009-4	chr11	69628893	69629093	+	933.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3978.0	NM_011814	23879.0	Mm.41930	NM_011814	ENSMUSG00000018765	Fxr2	Fxr2h	fragile X mental retardation, autosomal homolog 2	protein-coding	12.0	15.0	9.0	189.5	42.5	18.5	13.0	9.0
Merged-chr3-82375452-4	chr3	82375369	82375569	+	895.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356457, intron 6 of 13)	intron (NM_001356457, intron 6 of 13)	17282.0	NM_001356457	213582.0	Mm.271269	NM_001081230	ENSMUSG00000033900	Map9	5033421J10Rik|5330427D05Rik|ASAP|Mtap9	microtubule-associated protein 9	protein-coding	15.0	11.0	19.0	398.0	35.0	13.0	10.0	16.0
Merged-chr6-98531730-1	chr6	98531630	98531830	+	760.0	f0_balb.idr	Intergenic	Intergenic	-188976.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	9.0	9.0	4.5	119.0	8.5	3.0	8.0	9.5
Merged-chr3-27233854-4	chr3	27233723	27233923	+	878.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	intron (NM_178772, intron 3 of 4)	50819.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	12.5	21.0	17.0	202.0	47.0	16.5	8.5	11.5
Merged-chr11-55099014-6	chr11	55098912	55099112	+	778.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010299, intron 1 of 3)	B1_Mm|SINE|Alu	1027.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	9.0	5.5	0.0	61.0	10.0	7.5	7.0	10.0
Merged-chr6-149207279-4	chr6	149207181	149207381	+	621.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18569.0	NM_001113424	232566.0	Mm.209147	NM_001113424	ENSMUSG00000068250	Amn1	5830467E07Rik|A230083D09|C730024G19Rik	antagonist of mitotic exit network 1	protein-coding	6.5	6.5	13.0	138.5	24.0	11.0	11.5	9.5
Merged-chr9-25151343-1	chr9	25151243	25151443	+	1000.0	f0_c57.idr	5' UTR (NM_020586, exon 1 of 8)	5' UTR (NM_020586, exon 1 of 8)	438.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	29.0	71.0	73.5	526.0	90.5	42.5	37.5	61.5
Merged-chr11-4336041-1	chr11	4335941	4336141	+	647.0	f0_balb.idr	Intergenic	Intergenic	69245.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	7.5	8.0	5.0	109.5	1.5	0.0	0.0	0.5
Merged-chr5-88766268-4	chr5	88766176	88766376	+	741.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007832, intron 1 of 6)	intron (NM_007832, intron 1 of 6)	1263.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	2.0	9.0	1.0	89.0	23.0	4.5	5.5	15.5
Merged-chr10-24173391-4	chr10	24173275	24173475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	24058.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	19.5	23.5	25.0	265.5	52.0	10.5	25.0	7.0
Merged-chr11-70466405-4	chr11	70466311	70466511	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001348337)	TTS (NM_001348337)	-6427.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	26.5	41.5	15.5	216.0	80.0	29.0	32.5	23.0
Merged-chr11-105978795-3	chr11	105978671	105978871	+	925.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281819, intron 15 of 23)	intron (NM_001281819, intron 15 of 23)	3563.0	NM_009598	11421.0	Mm.754	NM_009598	ENSMUSG00000020681	Ace	AW208573|CD143	angiotensin I converting enzyme (peptidyl-dipeptidase A) 1	protein-coding	8.5	13.0	8.0	132.5	9.0	6.5	9.5	6.5
Merged-chr19-47135859-6	chr19	47135749	47135949	+	919.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133746, exon 2 of 3)	exon (NM_133746, exon 2 of 3)	2445.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	12.5	14.0	6.5	109.5	26.0	6.0	15.0	15.5
Merged-chr1-92974313-4	chr1	92974184	92974384	+	883.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001104529, intron 1 of 1)	intron (NM_001104529, intron 1 of 1)	-1063.0	NM_001271766	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	5.0	12.5	12.5	112.5	28.0	12.5	11.0	11.0
Merged-chr12-110850425-6	chr12	110850328	110850528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001199785, exon 1 of 7)	exon (NM_001199785, exon 1 of 7)	149.0	NM_028365	72805.0	Mm.443524	NM_028365	ENSMUSG00000021271	Zfp839	2810455K09Rik	zinc finger protein 839	protein-coding	28.5	22.5	23.0	383.5	42.0	25.0	18.0	30.5
Merged-chr13-23761501-4	chr13	23761360	23761560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178192)	promoter-TSS (NM_178192)	-211.0	NM_178192	326619.0	Mm.228709	NM_178192	ENSMUSG00000060093	Hist1h4a	-	histone cluster 1, H4a	protein-coding	234.0	418.0	184.0	2878.5	711.5	314.5	287.5	295.5
Merged-chr3-96305151-4	chr3	96305037	96305237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	-11168.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	20.0	34.5	48.5	554.0	46.5	8.0	38.0	22.5
Merged-chr10-117432638-4	chr10	117432528	117432728	+	981.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14807.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	26.5	25.0	23.0	208.5	43.0	14.0	13.5	20.5
Merged-chr13-63255829-4	chr13	63255673	63255873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	15744.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	38.5	38.5	25.0	675.0	55.5	21.0	40.5	38.5
Merged-chr8-36016542-1	chr8	36016442	36016642	+	775.666687	f0_balb.idr	Intergenic	Intergenic	-78286.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	7.5	12.5	10.5	168.5	5.0	0.0	1.0	3.5
Merged-chr2-156180367-4	chr2	156180254	156180454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291114)	promoter-TSS (NM_001291114)	-116.0	NM_133242	170791.0	Mm.392436	NM_133242	ENSMUSG00000027620	Rbm39	1500012C14Rik|2310040E03Rik|B330012G18Rik|C79248|R75070|Rnpc2|caper	RNA binding motif protein 39	protein-coding	199.5	306.5	143.5	1922.0	445.0	204.0	144.5	159.5
Merged-chr16-24860496-4	chr16	24860405	24860605	+	937.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 9 of 12)	intron (NM_178665, intron 9 of 12)	138650.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	12.5	16.5	12.5	211.0	27.5	13.5	14.5	26.0
Merged-chr12-108639400-4	chr12	108639354	108639554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	3701.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	122.5	217.0	170.0	1925.5	271.0	107.0	123.0	111.5
Merged-chr15-102698366-2	chr15	102698266	102698466	+	597.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23812.0	NM_026192	67488.0	Mm.71682	NM_026192	ENSMUSG00000023055	Calcoco1	1810009B06Rik|Cocoa|Gcap11|mKIAA1536	calcium binding and coiled coil domain 1	protein-coding	6.0	9.0	3.5	61.0	14.5	4.5	5.5	5.0
Merged-chr13-44469852-4	chr13	44469663	44469863	+	885.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30036.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	8.0	16.0	7.0	116.0	31.0	5.5	8.0	4.5
Merged-chr5-146807906-3	chr5	146807791	146807991	+	876.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-12935.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	6.0	3.0	5.0	66.0	55.5	22.5	20.0	12.5
Merged-chr4-43454254-4	chr4	43454157	43454357	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007654, exon 2 of 9)	exon (NM_007654, exon 2 of 9)	369.0	NM_001110320	12517.0	Mm.188157	NM_007654	ENSMUSG00000028459	Cd72	CD72c|Ly-19|Ly-32|Ly-m19|Lyb-2	CD72 antigen	protein-coding	12.0	13.0	5.0	73.0	16.5	14.0	8.5	18.0
Merged-chr10-7037419-3	chr10	7037319	7037519	+	874.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001302795, exon 6 of 6)	3' UTR (NM_001302795, exon 6 of 6)	-14234.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	21.5	11.0	18.0	280.5	20.5	3.0	11.0	14.0
Merged-chr3-136700834-4	chr3	136700743	136700943	+	911.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	30777.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	22.0	21.0	22.5	275.5	21.5	10.5	18.5	14.0
Merged-chr2-29649417-4	chr2	29649300	29649500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	29680.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	48.0	77.0	44.0	710.5	113.0	25.5	36.0	28.5
Merged-chr4-126202832-4	chr4	126202736	126202936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146153)	promoter-TSS (NM_146153)	-126.0	NM_146153	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	234.0	459.0	269.5	2796.0	700.0	308.0	261.0	257.5
Merged-chr11-23979527-4	chr11	23979424	23979624	+	680.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84254.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	9.0	11.0	6.5	107.0	16.5	7.5	11.0	7.0
Merged-chr17-71093301-4	chr17	71093187	71093387	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 21 of 36)	intron (NM_001083934, intron 21 of 36)	73730.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	3.0	20.0	23.0	152.5	29.5	11.5	7.0	10.5
Merged-chr6-22356206-4	chr6	22356106	22356306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138587)	promoter-TSS (NM_138587)	-125.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	243.0	344.5	288.0	4973.5	588.0	232.5	340.0	239.5
Merged-chr7-110382497-4	chr7	110382394	110382594	+	854.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	RMER10B|LTR|ERVL	160791.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	5.0	8.0	11.0	124.5	20.5	5.5	7.5	10.5
Merged-chr10-25284632-4	chr10	25284537	25284737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 2 of 7)	intron (NM_018747, intron 2 of 7)	14526.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	68.0	83.0	70.5	1411.0	156.5	46.5	66.0	74.0
Merged-chr13-67516199-1	chr13	67516099	67516299	+	738.200012	f0_c57.idr	3' UTR (NM_133228, exon 4 of 4)	3' UTR (NM_133228, exon 4 of 4)	10032.0	NM_133228	170763.0	Mm.491205	NM_133228	ENSMUSG00000097333	Zfp87	2210039O17Rik|4631412O18Rik|KRAB4|Mzf22|Zfp72	zinc finger protein 87	protein-coding	0.0	1.0	0.5	0.0	27.0	13.5	34.0	24.5
Merged-chr7-127118011-4	chr7	127117890	127118090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133686, intron 1 of 3)	intron (NM_133686, intron 1 of 3)	4039.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	14.5	31.0	16.0	283.0	74.0	37.5	35.0	34.5
Merged-chr14-9411971-4	chr14	9411877	9412077	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-472118.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	19.0	20.5	28.0	890.5	46.0	22.0	16.0	16.5
Merged-chr6-125349523-6	chr6	125349328	125349528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011609)	promoter-TSS (NM_011609)	-295.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	13.0	15.0	7.0	112.5	29.5	13.0	10.5	16.0
Merged-chr10-57743835-4	chr10	57743729	57743929	+	945.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41094.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	17.0	36.0	14.5	243.5	38.0	9.0	13.5	7.0
Merged-chr4-95157859-4	chr4	95157745	95157945	+	939.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105623.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	18.0	19.5	15.0	339.0	47.5	11.5	32.5	14.5
Merged-chr4-117042703-4	chr4	117042608	117042808	+	929.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111277, intron 3 of 11)	intron (NM_001111277, intron 3 of 11)	23306.0	NM_001111277	108067.0	Mm.34612	NM_175135	ENSMUSG00000028683	Eif2b3	1190002P15Rik	eukaryotic translation initiation factor 2B, subunit 3	protein-coding	8.5	7.5	26.5	116.0	18.5	5.5	16.5	21.0
Merged-chr13-99191199-4	chr13	99191102	99191302	+	867.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	6379.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	17.0	10.5	27.5	253.5	29.5	2.5	9.0	5.0
Merged-chr5-90589111-3	chr5	90589027	90589227	+	729.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252661, intron 12 of 13)	intron (NM_001252661, intron 12 of 13)	27918.0	NM_001252661	622307.0	Mm.389654	NM_001252661	ENSMUSG00000070690	5830473C10Rik	Arg|Gm17754	RIKEN cDNA 5830473C10 gene	protein-coding	14.5	14.5	7.0	116.0	12.5	14.0	9.0	13.0
Merged-chr6-29825464-4	chr6	29825351	29825551	+	878.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	ORR1F|LTR|ERVL-MaLR	-28290.0	NM_001347084	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	24.0	29.0	14.5	286.5	19.5	12.0	15.5	16.5
Merged-chr2-157070483-4	chr2	157070279	157070479	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	8886.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	8.0	6.0	7.5	109.0	5.0	6.0	5.5	4.5
Merged-chr2-163787893-4	chr2	163787797	163787997	+	862.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32937.0	NM_016873	22403.0	Mm.13828	NM_016873	ENSMUSG00000027656	Wisp2	Ccn5|Crgr4|Ctgfl|Rcop1	WNT1 inducible signaling pathway protein 2	protein-coding	6.0	19.0	5.5	153.0	26.0	9.0	9.0	12.0
Merged-chr9-110663051-4	chr9	110662956	110663156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	L1MB4|LINE|L1	6553.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	36.0	42.0	18.0	279.5	68.5	25.0	32.0	30.5
Merged-chr6-146662862-4	chr6	146662758	146662958	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046277, intron 1 of 2)	B3A|SINE|B2	5640.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	6.0	12.5	8.5	182.5	27.5	10.0	18.5	13.5
Merged-chr5-143518355-4	chr5	143518258	143518458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347530, intron 1 of 6)	intron (NM_001347530, intron 1 of 6)	9635.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	60.5	120.0	77.0	845.0	112.5	64.0	40.5	37.5
Merged-chr6-87038033-3	chr6	87037918	87038118	+	880.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4828.0	NM_013528	14583.0	Mm.19893	NM_013528	ENSMUSG00000029992	Gfpt1	2810423A18Rik|AI324119|AI449986|GFA|GFAT|GFAT1|GFAT1m|Gfpt	glutamine fructose-6-phosphate transaminase 1	protein-coding	10.5	5.5	7.0	102.0	19.0	1.0	10.0	12.5
Merged-chr11-72752211-4	chr11	72752108	72752308	+	981.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009671, exon 15 of 25)	exon (NM_009671, exon 15 of 25)	43631.0	NM_001024926	192986.0	Mm.194755	NM_001024926	ENSMUSG00000057778	Cyb5d2	9330151E16Rik|Gm2	cytochrome b5 domain containing 2	protein-coding	18.0	23.0	31.5	555.0	53.0	17.0	29.5	47.0
Merged-chr17-27826422-4	chr17	27826330	27826530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5888.0	NM_001271511	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	110.5	218.0	89.0	1546.5	278.5	85.0	97.0	77.5
Merged-chr11-98773923-4	chr11	98773826	98774026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145434, intron 1 of 7)	CpG	1451.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	246.0	488.0	306.5	3021.0	732.0	337.0	277.0	289.0
Merged-chr11-78600230-4	chr11	78600125	78600325	+	850.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008702, intron 3 of 10)	intron (NM_008702, intron 3 of 10)	-49490.0	NM_133706	69071.0	Mm.29431	NM_133706	ENSMUSG00000037278	Tmem97	1810014L12Rik|AI115531|AL022956|D11Bhm182e	transmembrane protein 97	protein-coding	8.0	16.5	23.0	189.0	38.5	8.0	11.0	8.0
Merged-chr15-34495314-4	chr15	34495209	34495409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008287)	promoter-TSS (NM_008287)	-2.0	NM_026340	67724.0	Mm.248779	NM_026340	ENSMUSG00000022325	Pop1	4932434G09Rik	processing of precursor 1, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	81.5	129.0	74.0	1719.0	222.5	83.0	108.5	80.5
Merged-chr8-68203572-4	chr8	68203464	68203664	+	665.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72964.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	10.0	14.0	10.5	123.5	23.5	8.0	7.0	0.5
Merged-chr17-33033299-4	chr17	33033175	33033375	+	964.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028543, intron 1 of 3)	intron (NM_028543, intron 1 of 3)	106.0	NM_028543	73451.0	Mm.129453	NM_028543	ENSMUSG00000067430	Zfp763	1700065O13Rik|AI839635	zinc finger protein 763	protein-coding	20.0	17.0	16.0	322.0	27.0	17.0	11.5	26.0
Merged-chr11-3159532-2	chr11	3159433	3159633	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 10 of 32)	MTD|LTR|ERVL-MaLR	33930.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	97.5	103.5	70.0	865.5	0.0	0.0	0.0	0.0
Merged-chr1-106321610-4	chr1	106321511	106321711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 4 of 16)	intron (NM_133821, intron 4 of 16)	149742.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	48.0	68.5	69.5	1221.5	165.5	44.0	50.5	62.5
Merged-chr9-62876270-6	chr9	62876093	62876293	+	862.922241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001102468)	TTS (NM_001102468)	-14169.0	NR_003965	677044.0	Mm.422004	NR_003965	ENSMUSG00000074250	Gm10653	-	ribsomal protein S2 pseudogene	pseudo	5.0	13.5	6.0	123.0	9.5	4.0	9.0	8.5
Merged-chr13-58113341-4	chr13	58113261	58113461	+	827.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001362415, exon 1 of 15)	5' UTR (NM_001362415, exon 1 of 15)	286.0	NM_001362415	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	10.5	6.5	9.0	146.5	22.0	6.5	14.0	7.5
Merged-chr18-12643669-5	chr18	12643453	12643653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028341)	promoter-TSS (NM_028341)	20.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	17.5	29.5	20.0	227.5	42.5	24.5	20.5	36.0
Merged-chr9-53386923-4	chr9	53386820	53387020	+	968.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212445, intron 1 of 7)	intron (NM_212445, intron 1 of 7)	2897.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	15.5	15.0	15.5	397.0	45.5	20.0	21.5	23.0
Merged-chr10-21192579-3	chr10	21192468	21192668	+	735.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	5624.0	NR_152786	102636600.0	Mm.227606	NR_152786	ENSMUSG00000111005	Gm33619	-	predicted gene, 33619	ncRNA	7.5	14.5	10.0	112.0	6.0	9.0	6.0	5.5
Merged-chr17-53684148-4	chr17	53684014	53684214	+	830.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028232, intron 4 of 8)	intron (NM_028232, intron 4 of 8)	5201.0	NM_028232	72415.0	Mm.153202	NM_028232	ENSMUSG00000023940	Sgo1	3300001M08Rik|C81037|Sgol1	shugoshin 1	protein-coding	1.0	10.0	10.5	156.0	33.0	5.5	21.5	30.0
Merged-chr14-77854108-4	chr14	77854020	77854220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 2 of 5)	intron (NM_025384, intron 2 of 5)	20797.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	24.0	28.0	62.5	757.5	77.0	26.0	31.0	40.0
Merged-chr2-150823190-4	chr2	150823088	150823288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153781, intron 14 of 19)	ORR1F|LTR|ERVL-MaLR	19382.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	53.0	82.5	39.0	719.5	99.0	42.5	33.0	39.0
Merged-chr6-100675120-4	chr6	100674901	100675101	+	928.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-3844.0	NM_181590	72171.0	Mm.256022	NM_181590	ENSMUSG00000035378	Shq1	2810403P18Rik|Grim-1	SHQ1 homolog (S. cerevisiae)	protein-coding	8.5	11.5	7.5	49.5	7.0	4.5	5.5	5.0
Merged-chr14-70078725-7	chr14	70078626	70078826	+	847.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289925, intron 2 of 2)	CpG-4626	931.0	NM_001289927	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	14.0	15.0	2.0	131.0	23.0	8.0	7.5	10.5
Merged-chr17-55879036-4	chr17	55878956	55879156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144546)	promoter-TSS (NM_144546)	-103.0	NM_144546	104349.0	Mm.460659	NM_144546	ENSMUSG00000057835	Zfp119a	AL024077|Mzf13|Zfp119	zinc finger protein 119a	protein-coding	88.5	104.0	79.0	824.0	177.5	77.5	114.0	105.0
Merged-chr10-79834980-4	chr10	79834887	79835087	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	13966.0	NM_030218	78906.0	Mm.33087	NM_030218	ENSMUSG00000035852	Misp	9130017N09Rik	mitotic spindle positioning	protein-coding	2.5	15.5	5.0	154.5	29.5	7.0	11.5	9.5
Merged-chr10-16652591-4	chr10	16652491	16652691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	443191.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	37.0	71.0	40.0	736.0	197.0	69.5	60.5	51.0
Merged-chr5-142929311-4	chr5	142929239	142929439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-22585.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	43.5	57.0	45.0	563.0	108.5	37.0	40.0	51.0
Merged-chr1-150375529-1	chr1	150375429	150375629	+	675.0	f0_balb.idr	exon (NM_145511, exon 10 of 14)	exon (NM_145511, exon 10 of 14)	-17309.0	NM_133780	108989.0	Mm.174256	NM_133780	ENSMUSG00000006005	Tpr	2610029M07Rik|C77892	translocated promoter region, nuclear basket protein	protein-coding	4.5	5.5	9.5	116.0	0.0	1.5	0.0	0.0
Merged-chr8-41057440-5	chr8	41057307	41057507	+	875.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 3 of 13)	intron (NM_001005863, intron 3 of 13)	-2611.0	NM_001005864	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	3.0	5.5	6.0	122.0	46.5	19.5	23.0	28.0
Merged-chr15-89373600-4	chr15	89373443	89373643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001271601)	TTS (NM_001271601)	275.0	NM_001111288	100126824.0	Mm.287977	NM_001111288	ENSMUSG00000091780	Sco2	-	SCO2 cytochrome c oxidase assembly protein	protein-coding	34.0	37.5	14.5	474.5	68.0	34.5	49.0	43.5
Merged-chr13-23706193-4	chr13	23706077	23706277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347493, intron 2 of 4)	intron (NM_001347493, intron 2 of 4)	4677.0	NM_001347493	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	69.0	79.0	60.0	823.0	177.5	52.5	67.5	59.5
Merged-chr13-9099496-4	chr13	9099404	9099604	+	974.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	5623.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	11.0	32.0	15.0	262.0	62.0	25.0	17.5	43.0
Merged-chr3-75293467-4	chr3	75293375	75293575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23397.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	164.0	225.0	206.5	2337.5	395.5	141.0	146.5	124.0
Merged-chr2-73572610-4	chr2	73572511	73572711	+	882.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007389, intron 4 of 8)	intron (NM_007389, intron 4 of 8)	7727.0	NM_007389	11435.0	Mm.4583	NM_007389	ENSMUSG00000027107	Chrna1	AI385656|AI608266|Achr-1|Acra	cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle)	protein-coding	4.5	12.0	13.0	150.5	20.0	7.0	15.0	15.5
Merged-chr9-120708340-1	chr9	120708240	120708440	+	580.0	f0_balb.idr	Intergenic	Intergenic	131009.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	5.5	9.0	5.0	189.0	0.5	0.0	1.0	0.0
Merged-chr9-71896595-4	chr9	71896494	71896694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253864)	promoter-TSS (NM_001253864)	-498.0	NM_001253863	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	63.0	68.5	37.5	882.0	200.0	62.0	81.0	85.0
Merged-chr9-46014509-4	chr9	46014398	46014598	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	1678.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	28.0	24.5	27.0	394.0	43.5	18.5	13.0	34.0
Merged-chr1-23843973-3	chr1	23843887	23844087	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110972)	TTS (NR_110972)	65749.0	NR_110972	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	1.0	0.0	3.0	9.5	81.0	29.5	52.0	48.0
Merged-chr7-24463319-2	chr7	24463219	24463419	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011113, intron 1 of 6)	MIR|SINE|MIR	836.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	12.0	10.5	10.5	69.0	17.5	6.0	5.5	6.5
Merged-chr18-70613581-3	chr18	70613484	70613684	+	678.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010773, intron 3 of 6)	intron (NM_010773, intron 3 of 6)	45292.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	7.5	4.0	10.0	77.0	21.5	6.0	17.5	7.5
Merged-chr4-156234850-4	chr4	156234792	156234992	+	894.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198305)	promoter-TSS (NM_198305)	-35.0	NM_198305	231003.0	Mm.423038	NM_198305	ENSMUSG00000078485	Klhl17	AL022703|BC058738	kelch-like 17	protein-coding	13.5	16.5	17.5	97.0	38.0	12.0	17.5	21.0
Merged-chr4-19681705-4	chr4	19681592	19681792	+	806.491089	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_074090, intron 2 of 24)	intron (NR_074090, intron 2 of 24)	27312.0	NM_177327	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	4.5	11.5	16.5	181.5	19.5	4.0	2.5	8.5
Merged-chr6-88826256-4	chr6	88826141	88826341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011844, exon 8 of 8)	3' UTR (NM_011844, exon 8 of 8)	15694.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	56.0	104.0	62.0	1071.0	223.0	66.0	94.0	59.0
Merged-chr5-33219348-4	chr5	33219229	33219429	+	989.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1091.0	NM_133903	100689.0	Mm.34694	NM_133903	ENSMUSG00000037379	Spon2	2310045I24Rik|AI504350|M-spondin|Mindin|Mspondin	spondin 2, extracellular matrix protein	protein-coding	20.5	36.5	29.0	403.0	42.5	14.5	30.0	19.5
Merged-chr8-105499341-3	chr8	105499247	105499447	+	876.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2445.0	NM_175160	70796.0	Mm.100917	NM_175160	ENSMUSG00000039199	Zdhhc1	4432412D04Rik|DHHC-1	zinc finger, DHHC domain containing 1	protein-coding	7.5	13.0	4.0	112.5	18.0	10.0	12.5	10.5
Merged-chr9-57759501-3	chr9	57759385	57759585	+	916.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007713, intron 3 of 12)	intron (NM_007713, intron 3 of 12)	6375.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	14.5	16.0	3.0	89.5	14.5	4.5	11.0	5.0
Merged-chr13-55249431-4	chr13	55249325	55249525	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008739, intron 5 of 22)	intron (NM_008739, intron 5 of 22)	39643.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	7.0	5.0	6.0	150.0	28.5	5.0	8.5	17.0
Merged-chr13-60719948-3	chr13	60719842	60720042	+	752.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 8 of 26)	intron (NM_134062, intron 8 of 26)	66422.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	9.5	6.5	4.5	218.0	8.0	4.0	3.0	5.0
Merged-chr10-96618395-4	chr10	96618313	96618513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007569, exon 2 of 2)	exon (NM_007569, exon 2 of 2)	1412.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	54.0	61.0	69.5	523.0	127.0	34.5	80.0	51.0
Merged-chr5-62844662-1	chr5	62844562	62844762	+	821.666687	f0_balb.idr	intron (NM_001170705, intron 6 of 8)	intron (NM_001170705, intron 6 of 8)	30839.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	17.0	43.0	12.0	68.0	26.5	5.0	6.0	1.0
Merged-chr7-83631926-4	chr7	83631825	83632025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023377)	promoter-TSS (NM_023377)	-92.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	201.5	247.0	194.0	3589.5	535.0	155.0	246.0	181.0
Merged-chr13-60479957-4	chr13	60479866	60480066	+	945.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121981.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	14.5	13.0	8.0	184.5	58.0	15.0	18.0	27.0
Merged-chr14-55122146-4	chr14	55122043	55122243	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5208.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	14.5	32.5	13.5	251.0	50.0	8.5	19.5	21.0
Merged-chr12-4505527-4	chr12	4505425	4505625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18588.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	103.0	71.0	95.5	1607.0	118.5	48.0	83.0	54.0
Merged-chr6-140811203-4	chr6	140811116	140811316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	184331.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	22.0	20.5	28.5	530.0	35.0	13.5	30.5	35.5
Merged-chr2-156146786-2	chr2	156146686	156146886	+	956.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001164216)	TTS (NM_001164216)	2553.0	NM_025946	67067.0	Mm.371623	NM_025946	ENSMUSG00000067847	Romo1	2010100O12Rik|AI853864	reactive oxygen species modulator 1	protein-coding	7.5	6.5	6.0	78.0	5.0	4.0	2.5	4.5
Merged-chr19-53600860-3	chr19	53600780	53600980	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007790, intron 1 of 28)	CpG	484.0	NM_007790	13006.0	Mm.14910	NM_007790	ENSMUSG00000024974	Smc3	Bamacan|Cspg6|HCAP|Mmip1|SMC-3|SmcD	structural maintenance of chromosomes 3	protein-coding	15.0	14.5	17.0	191.5	45.0	13.0	24.0	20.0
Merged-chr7-27354226-3	chr7	27354122	27354322	+	878.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138676, intron 6 of 17)	intron (NM_138676, intron 6 of 17)	1786.0	NM_138676	192192.0	Mm.21297	NM_138676	ENSMUSG00000089832	Shkbp1	B930062H15Rik|Sb1	Sh3kbp1 binding protein 1	protein-coding	2.0	5.0	3.0	57.0	26.0	9.0	23.0	29.0
Merged-chr13-42331314-4	chr13	42331225	42331425	+	892.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29849.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	10.5	11.0	5.5	110.5	36.5	14.5	23.5	13.0
Merged-chr1-52119391-4	chr1	52119286	52119486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357627)	promoter-TSS (NM_001357627)	-52.0	NM_001357627	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	172.5	310.0	247.5	3500.5	487.5	184.5	207.5	177.0
Merged-chr5-64202476-3	chr5	64202376	64202576	+	924.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	intron (NM_019636, intron 2 of 19)	-27881.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	7.5	20.5	7.0	120.0	34.0	15.0	12.5	14.5
Merged-chr11-28202324-3	chr11	28202214	28202414	+	724.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	382010.0	NM_001166661	216613.0	Mm.93759	NM_181577	ENSMUSG00000032878	Ccdc85a	-	coiled-coil domain containing 85A	protein-coding	6.5	5.5	5.0	107.5	5.5	6.0	10.5	11.0
Merged-chr7-135758968-4	chr7	135758851	135759051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42572.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	88.5	107.5	61.5	1221.0	161.0	41.0	72.0	75.0
Merged-chr2-168955545-4	chr2	168955425	168955625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009564)	promoter-TSS (NM_009564)	62.0	NM_009564	22722.0	Mm.2095	NM_009564	ENSMUSG00000027551	Zfp64	-	zinc finger protein 64	protein-coding	61.5	58.5	94.5	762.0	94.0	31.5	54.0	66.0
Merged-chr3-145653461-4	chr3	145653371	145653571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3486.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	75.5	81.0	64.0	1226.5	137.0	72.5	99.5	78.0
Merged-chr14-48446302-4	chr14	48446157	48446357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172600)	promoter-TSS (NM_172600)	-95.0	NM_172600	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	95.0	137.5	165.5	1240.0	217.5	103.0	109.5	117.0
Merged-chr12-79172686-4	chr12	79172594	79172794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016800)	promoter-TSS (NM_016800)	-236.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	177.5	256.5	176.5	2335.0	325.0	101.0	160.0	143.5
Merged-chr10-98619336-4	chr10	98619232	98619432	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-267465.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	17.0	17.0	28.0	389.5	47.5	5.0	19.5	21.0
Merged-chr19-12595692-4	chr19	12595596	12595796	+	914.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015503, intron 1 of 1)	intron (NR_015503, intron 1 of 1)	870.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	25.0	20.5	16.5	463.5	38.5	6.5	11.5	13.5
Merged-chr3-100422628-3	chr3	100422523	100422723	+	905.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3782.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	8.0	8.5	10.0	121.0	10.0	11.5	8.5	6.0
Merged-chr18-33807044-3	chr18	33806944	33807144	+	837.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013512, intron 19 of 23)	intron (NM_013512, intron 19 of 23)	12152.0	NR_038151	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	9.5	12.0	4.0	123.5	25.0	8.5	26.5	7.5
Merged-chr15-76243465-4	chr15	76243357	76243557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163575)	promoter-TSS (NM_001163575)	-17.0	NM_001163575	671535.0	Mm.373750	NM_001163575	ENSMUSG00000063268	Parp10	-	poly (ADP-ribose) polymerase family, member 10	protein-coding	70.5	81.5	41.5	1019.0	220.0	74.5	66.0	64.0
Merged-chr17-45758120-4	chr17	45758024	45758224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	URR1A|DNA|hAT-Charlie	23618.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	201.5	288.0	254.5	2518.5	381.5	158.5	206.5	170.0
Merged-chr16-64899239-1	chr16	64899139	64899339	+	564.0	f0_balb.idr	Intergenic	Intergenic	47238.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	8.5	5.5	5.5	89.5	14.0	6.0	6.5	10.5
Merged-chr18-37924420-4	chr18	37924301	37924501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	intron (NM_001305981, intron 1 of 28)	11075.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	51.0	73.0	54.0	663.0	79.0	56.0	35.0	57.0
Merged-chr13-43802952-4	chr13	43802851	43803051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001289915, exon 5 of 5)	3' UTR (NM_001289915, exon 5 of 5)	17839.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	95.0	137.0	67.5	1221.5	142.5	86.0	49.0	76.0
Merged-chr6-119480183-11	chr6	119480175	119480375	+	914.636353	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133940, exon 1 of 1)	exon (NM_133940, exon 1 of 1)	607.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	12.0	13.0	6.0	138.5	16.0	10.0	5.0	14.5
Merged-chr7-4410089-4	chr7	4410001	4410201	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR15|LTR|ERVK	-12357.0	NM_001163014	243816.0	Mm.248662	NM_001163014	ENSMUSG00000078810	Gp6	9830166G18Rik|Gm469|Gpvi	glycoprotein 6 (platelet)	protein-coding	15.5	17.0	11.0	189.0	42.5	8.5	15.0	10.0
Merged-chr7-16100664-4	chr7	16100561	16100761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025898, intron 1 of 10)	intron (NM_025898, intron 1 of 10)	2081.0	NM_025898	108124.0	Mm.104540	NM_025898	ENSMUSG00000006024	Napa	1500039N14Rik|AW209189|RA81|SNAP-alpha|SNAPA|SNARE|a-SNAP|hyh	N-ethylmaleimide sensitive fusion protein attachment protein alpha	protein-coding	59.5	93.0	44.5	1030.0	153.5	47.5	65.5	64.0
Merged-chr2-65342274-3	chr2	65342154	65342354	+	825.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177074, intron 7 of 11)	intron (NM_177074, intron 7 of 11)	21772.0	NM_177074	320106.0	Mm.227703	NM_177074	ENSMUSG00000061171	Slc38a11	9330158F14Rik	solute carrier family 38, member 11	protein-coding	11.5	10.5	8.5	179.0	13.0	0.5	13.5	3.5
Merged-chr3-88620885-8	chr3	88620770	88620970	+	856.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008487)	promoter-TSS (NM_008487)	-236.0	NM_008487	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	5.0	9.5	8.0	74.0	20.5	14.0	6.0	14.0
Merged-chr6-87730829-4	chr6	87730763	87730963	+	888.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159697)	promoter-TSS (NM_001159697)	-6.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	18.5	16.5	23.0	232.0	25.5	6.5	6.5	7.0
Merged-chr5-31198653-4	chr5	31198474	31198674	+	888.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175311)	TTS (NM_175311)	3468.0	NM_001177901	101023.0	Mm.45033	NM_175311	ENSMUSG00000043059	Zfp513	AW990386|D430028M17Rik|Znf513	zinc finger protein 513	protein-coding	15.5	11.0	9.0	114.5	24.5	9.0	11.0	10.0
Merged-chr11-76605838-4	chr11	76605754	76605954	+	938.462524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-28115.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	12.0	36.0	29.5	213.5	61.0	14.5	12.0	32.5
Merged-chr7-30842270-4	chr7	30842178	30842378	+	832.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13900.0	NM_001033316	233080.0	Mm.291167	NM_001033316	ENSMUSG00000019429	Ffar3	Gm478|Gpr41	free fatty acid receptor 3	protein-coding	3.0	9.0	2.5	75.0	40.5	14.0	6.5	30.0
Merged-chr3-108210554-4	chr3	108210444	108210644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289545)	promoter-TSS (NM_001289545)	-17.0	NM_175183	72522.0	Mm.187326	NM_175183	ENSMUSG00000048997	Atxn7l2	2610528J18Rik	ataxin 7-like 2	protein-coding	104.0	178.5	126.5	1272.0	280.0	123.5	124.5	91.0
Merged-chr16-33912165-4	chr16	33912084	33912284	+	928.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 9 of 14)	intron (NM_001145884, intron 9 of 14)	54854.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	8.5	29.0	11.5	248.5	51.0	7.5	10.5	19.0
Merged-chr13-119602075-3	chr13	119601943	119602143	+	897.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	intron (NM_001177666, intron 2 of 3)	-21776.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	8.0	8.5	16.0	127.5	16.5	9.5	3.0	14.0
Merged-chr1-120607076-2	chr1	120606976	120607176	+	862.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_010133, exon 2 of 2)	exon (NM_010133, exon 2 of 2)	4589.0	NM_010133	13798.0	Mm.2657	NM_010133	ENSMUSG00000058665	En1	En-1|Mo-en.1|engrailed-1	engrailed 1	protein-coding	5.0	5.0	8.0	7.5	7.0	3.0	1.0	7.5
Merged-chr7-80079022-4	chr7	80078917	80079117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	-3760.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	178.5	234.0	143.5	2088.0	337.0	141.0	151.5	123.0
Merged-chr7-19202694-3	chr7	19202568	19202768	+	797.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347582, intron 19 of 21)	intron (NM_001347582, intron 19 of 21)	-9870.0	NM_175668	319197.0	Mm.135984	NM_175668	ENSMUSG00000044317	Gpr4	-	G protein-coupled receptor 4	protein-coding	2.0	12.5	3.0	42.0	37.0	19.5	9.5	6.0
Merged-chr17-35049767-4	chr17	35049674	35049874	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033444)	promoter-TSS (NM_033444)	-469.0	NM_033444	114584.0	Mm.29524	NM_033444	ENSMUSG00000007041	Clic1	Clcp|G6	chloride intracellular channel 1	protein-coding	33.5	21.5	33.5	342.5	57.0	16.0	25.0	17.0
Merged-chr5-120526447-4	chr5	120526346	120526546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 11 of 13)	intron (NM_001177595, intron 11 of 13)	15254.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	15.0	46.0	28.5	506.0	117.0	21.0	21.0	25.5
Merged-chr10-128411620-4	chr10	128411504	128411704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104288)	promoter-TSS (NR_104288)	-12.0	NR_104288	67588.0	Mm.294120	NM_026259	ENSMUSG00000025373	Rnf41	2210404G21Rik|4930511A05Rik|4933415P08Rik|D10Ertd722e|FLRF|Nrdp1	ring finger protein 41	protein-coding	228.5	316.5	170.5	2864.5	522.0	201.0	243.0	258.0
Merged-chr11-68468174-4	chr11	68468059	68468259	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	-34860.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	43.0	93.5	51.0	354.5	81.5	37.0	31.0	18.0
Merged-chr2-167680891-4	chr2	167680822	167681022	+	795.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7993.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	9.0	6.5	7.0	27.5	20.0	11.5	3.0	11.5
Merged-chr2-59188811-4	chr2	59188704	59188904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	Lx7|LINE|L1	27954.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	30.5	56.0	26.0	708.0	99.5	31.5	48.5	41.5
Merged-chr4-130917805-4	chr4	130917716	130917916	+	975.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	4482.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	20.0	29.0	19.5	263.0	53.5	13.5	13.5	20.5
Merged-chr2-5824868-4	chr2	5824763	5824963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356504, intron 3 of 6)	intron (NM_001356504, intron 3 of 6)	-20171.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	33.5	61.0	33.0	743.5	96.0	39.0	40.0	58.0
Merged-chr11-77687384-6	chr11	77687267	77687467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024205, intron 1 of 3)	CpG	1228.0	NM_001024205	68564.0	Mm.428996	NM_001024205	ENSMUSG00000037857	Nufip2	1110001M19Rik|9530056D24Rik|AI256692|AI461731|PIG1|mKIAA1321	nuclear fragile X mental retardation protein interacting protein 2	protein-coding	18.5	45.0	32.0	251.5	83.5	27.0	23.0	35.5
Merged-chr1-127976254-2	chr1	127976154	127976354	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_027678, exon 13 of 21)	exon (NM_027678, exon 13 of 21)	107481.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	11.5	6.0	9.0	48.0	10.5	13.5	6.0	6.0
Merged-chr16-57538219-3	chr16	57538122	57538322	+	768.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-11020.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	6.0	16.0	6.0	110.5	19.0	5.5	4.0	4.5
Merged-chr6-51466338-3	chr6	51466241	51466441	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_182650, exon 5 of 10)	exon (NM_182650, exon 5 of 10)	3553.0	NR_104468	53379.0	Mm.155896	NM_016806	ENSMUSG00000004980	Hnrnpa2b1	9130414A06Rik|Hnrpa2|Hnrpa2b1|hnrnp-A	heterogeneous nuclear ribonucleoprotein A2/B1	protein-coding	8.0	7.0	7.0	77.5	23.5	4.0	0.5	5.5
Merged-chr6-54963074-1	chr6	54962974	54963174	+	622.0	f0_c57.idr	intron (NM_172729, intron 1 of 11)	ORR1A4|LTR|ERVL-MaLR	8587.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	3.5	7.5	5.5	16.0	20.0	8.5	11.0	7.5
Merged-chr13-43765437-4	chr13	43765335	43765535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19677.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	245.0	321.0	219.5	2842.0	470.0	187.5	216.0	184.0
Merged-chr14-15061374-4	chr14	15061277	15061477	+	927.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	240562.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	9.0	11.5	10.5	220.5	34.5	3.5	16.0	19.0
Merged-chr4-57950161-4	chr4	57950070	57950270	+	975.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 3 of 4)	intron (NM_011660, intron 3 of 4)	6241.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	17.5	24.0	45.5	446.0	42.5	21.0	13.5	15.5
Merged-chr11-78032230-4	chr11	78032133	78032333	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183286)	promoter-TSS (NM_183286)	-80.0	NM_183286	70451.0	Mm.390342	NM_183286	ENSMUSG00000020834	Dhrs13	2610209N15Rik	dehydrogenase/reductase (SDR family) member 13	protein-coding	33.5	40.5	16.0	406.5	59.5	20.0	29.0	11.0
Merged-chr4-88034554-1	chr4	88034454	88034654	+	728.0	f0_balb.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-1147.0	NM_027326	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	19.0	5.5	7.0	92.5	14.5	4.0	9.5	8.0
Merged-chr7-129995704-4	chr7	129995601	129995801	+	974.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	33536.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	16.0	31.5	25.0	412.5	68.5	14.0	32.5	27.0
Merged-chr7-109631373-4	chr7	109631288	109631488	+	862.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14241.0	NM_029811	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	6.5	14.5	6.0	116.0	26.0	1.5	10.0	13.0
Merged-chr13-37121749-3	chr13	37121666	37121866	+	877.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71522.0	NM_001166391	74145.0	Mm.235105	NM_028784	ENSMUSG00000039109	F13a1	1200014I03Rik|AI462306|F13a	coagulation factor XIII, A1 subunit	protein-coding	14.0	14.5	10.0	172.5	7.0	6.0	6.0	3.5
Merged-chr4-135891696-4	chr4	135891592	135891792	+	915.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-3497.0	NM_009924	12802.0	Mm.297251	NM_009924	ENSMUSG00000062585	Cnr2	CB-2|CB2|CB2-R	cannabinoid receptor 2 (macrophage)	protein-coding	18.5	15.0	2.0	176.0	50.0	14.5	5.0	16.5
Merged-chr11-79287699-4	chr11	79287592	79287792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32997.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	64.0	114.5	47.0	944.0	159.5	61.5	70.5	74.0
Merged-chr7-112183394-3	chr7	112183315	112183515	+	944.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23933.0	NM_001360257	50781.0	Mm.55143	NM_015814	ENSMUSG00000030772	Dkk3	AW061014|C87148|dkk-3|mDkk-3	dickkopf WNT signaling pathway inhibitor 3	protein-coding	13.0	9.5	2.5	172.5	31.0	6.0	8.0	9.5
Merged-chr5-124497017-4	chr5	124496919	124497119	+	909.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021430, intron 6 of 6)	intron (NM_021430, intron 6 of 6)	13864.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	20.0	50.0	15.0	252.0	24.5	8.5	16.0	22.5
Merged-chr15-76351718-4	chr15	76351623	76351823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025340)	promoter-TSS (NM_025340)	429.0	NM_026859	68877.0	Mm.289680	NM_026859	ENSMUSG00000022553	Maf1	1110068E11Rik|AU042856	MAF1 homolog, negative regulator of RNA polymerase III	protein-coding	38.0	57.0	37.0	461.0	119.0	34.5	48.0	48.0
Merged-chr11-107189348-4	chr11	107189240	107189440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161329)	promoter-TSS (NM_001161329)	41.0	NM_133702	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	100.5	148.0	44.0	872.5	287.0	120.5	83.0	123.5
Merged-chr14-50997292-4	chr14	50997146	50997346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10505.0	NM_001162863	75019.0	Mm.318775	NM_029145	ENSMUSG00000021872	Rnase10	4930474F22Rik|Rah1	ribonuclease, RNase A family, 10 (non-active)	protein-coding	49.5	57.5	27.5	514.0	80.0	21.5	35.5	19.0
Merged-chr16-23314934-4	chr16	23314848	23315048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	intron (NM_001252506, intron 1 of 6)	24478.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	151.5	214.0	149.0	1981.0	321.5	131.5	147.0	155.5
Merged-chr10-20753076-3	chr10	20752976	20753176	+	938.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27998.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	2.0	18.0	3.0	136.0	21.0	7.5	7.5	8.0
Merged-chr16-91839623-4	chr16	91839521	91839721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010587, exon 18 of 39)	exon (NM_010587, exon 18 of 39)	92009.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	54.0	116.5	92.0	1302.5	212.5	88.0	93.5	61.5
Merged-chr7-4078447-4	chr7	4078317	4078517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033568, intron 6 of 8)	intron (NR_033568, intron 6 of 8)	-15213.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	15.0	31.0	4.5	87.0	47.0	11.0	9.5	6.5
Merged-chr11-120355179-4	chr11	120355082	120355282	+	943.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-6352.0	NM_172802	238021.0	Mm.481403	NM_172802	ENSMUSG00000025380	Fscn2	A930022G03|Ahl8|C630046B20Rik	fascin actin-bundling protein 2	protein-coding	17.5	23.0	12.5	168.5	30.0	11.0	7.0	11.0
Merged-chr17-71486168-8	chr17	71486041	71486241	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10798.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	17.5	25.5	21.5	286.5	57.0	30.5	30.5	22.0
Merged-chr17-56469017-4	chr17	56468929	56469129	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 1 of 27)	intron (NM_001252455, intron 1 of 27)	-6808.0	NM_001252456	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	8.5	26.5	4.5	158.5	19.5	8.5	15.5	30.5
Merged-chr2-76070549-4	chr2	76070438	76070638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 12 of 19)	intron (NM_001081033, intron 12 of 19)	-88571.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	32.5	36.0	23.0	543.0	71.0	18.0	49.0	33.5
Merged-chr10-44776334-3	chr10	44776195	44776395	+	698.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-290919.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	4.5	4.5	6.5	143.5	12.0	2.0	4.5	5.5
Merged-chr1-164316884-3	chr1	164316782	164316982	+	753.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178071, intron 3 of 9)	intron (NM_178071, intron 3 of 9)	9210.0	NM_138314	171567.0	Mm.219428	NM_138314	ENSMUSG00000026575	Nme7	D530024H21Rik|Nm23-M7|Nm23-r7	NME/NM23 family member 7	protein-coding	8.0	9.0	2.5	64.5	37.0	6.0	10.0	8.0
Merged-chr10-10476734-4	chr10	10476644	10476844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4430.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	47.5	50.0	62.5	889.0	123.0	43.0	53.0	31.5
Merged-chr16-14163225-4	chr16	14163136	14163336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023317)	promoter-TSS (NM_023317)	-39.0	NM_023317	67203.0	Mm.24105	NM_023317	ENSMUSG00000022678	Nde1	2810027M15Rik|AU042936|AW822251|Nude|mNudE	nudE neurodevelopment protein 1	protein-coding	133.0	228.5	168.5	2753.0	408.0	148.0	203.0	193.0
Merged-chr9-109082454-4	chr9	109082342	109082542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025689)	promoter-TSS (NM_025689)	-54.0	NM_025689	66658.0	Mm.128227	NM_025689	ENSMUSG00000025645	Ccdc51	5730568A12Rik|AI551049	coiled-coil domain containing 51	protein-coding	64.0	63.5	38.5	743.0	147.0	48.0	57.0	54.0
Merged-chr19-4169542-4	chr19	4169443	4169643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134148, exon 9 of 10)	exon (NM_134148, exon 9 of 10)	5936.0	NM_134148	107239.0	Mm.482310	NM_134148	ENSMUSG00000075289	Carns1	AI790298|Atpgd1|mKIAA1394	carnosine synthase 1	protein-coding	201.5	317.5	150.5	2160.5	404.5	162.0	159.5	142.0
Merged-chr3-122419978-4	chr3	122419899	122420099	+	904.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013867, exon 1 of 12)	5' UTR (NM_013867, exon 1 of 12)	242.0	NM_013867	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	26.0	18.0	20.0	222.5	28.0	6.0	11.0	12.5
Merged-chr15-13391552-4	chr15	13391437	13391637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-217862.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	40.5	43.0	20.0	482.0	83.5	19.5	27.0	27.0
Merged-chr7-19360088-4	chr7	19359984	19360184	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145822)	promoter-TSS (NM_145822)	-601.0	NM_145822	70333.0	Mm.171370	NM_145822	ENSMUSG00000047649	Cd3eap	1190028F09|2610103M17Rik|ASE-1|Ase1|CAST|PAF49	CD3E antigen, epsilon polypeptide associated protein	protein-coding	18.0	26.0	19.0	270.0	60.0	15.0	16.5	30.0
Merged-chr12-52605481-4	chr12	52605353	52605553	+	738.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3131.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	7.0	12.0	6.0	81.5	18.0	3.5	11.0	8.0
Merged-chr6-145866739-4	chr6	145866632	145866832	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1312.0	NM_001271768	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	66.5	60.0	51.0	1240.0	34.0	16.0	17.5	27.5
Merged-chr13-44646062-4	chr13	44645969	44646169	+	915.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-84705.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	19.0	17.0	26.5	484.5	20.5	3.5	29.0	17.0
Merged-chr2-170155644-4	chr2	170155536	170155736	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12961.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	18.5	34.5	9.5	171.0	68.5	24.0	22.0	23.0
Merged-chr7-3915593-4	chr7	3915485	3915685	+	978.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011087)	promoter-TSS (NM_011087)	-84.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	41.0	42.5	24.5	181.0	95.0	27.5	42.0	24.5
Merged-chr9-44087935-6	chr9	44087829	44088029	+	917.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198091, intron 1 of 11)	intron (NM_198091, intron 1 of 11)	3009.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	13.0	36.0	26.0	386.0	24.0	8.0	17.5	7.5
Merged-chr16-62826580-6	chr16	62826474	62826674	+	891.1527710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026577, intron 3 of 9)	intron (NM_026577, intron 3 of 9)	11898.0	NM_026588	68159.0	Mm.386793	NM_026588	ENSMUSG00000047854	Stx19	A030009B12Rik	syntaxin 19	protein-coding	5.0	4.0	6.0	59.0	16.5	8.0	9.5	5.5
Merged-chr2-72286560-3	chr2	72286457	72286657	+	980.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 1 of 19)	intron (NM_023057, intron 1 of 19)	856.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	19.5	19.0	18.5	248.5	24.5	5.5	7.5	8.0
Merged-chr2-71882684-2	chr2	71882601	71882801	+	596.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001360002, intron 3 of 10)	T-rich|Low_complexity|Low_complexity	7797.0	NM_001360002	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	2.0	0.0	0.0	0.0	20.0	8.5	5.5	12.0
Merged-chr7-125581423-4	chr7	125581357	125581557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-21972.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	59.5	122.5	94.0	1335.5	78.5	26.0	33.5	31.0
Merged-chr9-102988717-4	chr9	102988577	102988777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19812.0	NM_033314	24059.0	Mm.207106	NM_033314	ENSMUSG00000032548	Slco2a1	2310021C19Rik|Pgt|Slc21a2|mPgt	solute carrier organic anion transporter family, member 2a1	protein-coding	18.5	18.0	19.5	388.0	54.0	19.0	21.5	16.0
Merged-chr18-80470045-4	chr18	80469950	80470150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026295)	promoter-TSS (NM_026295)	-383.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	221.0	357.0	190.0	2938.0	524.5	222.5	250.0	176.0
Merged-chr8-95055118-4	chr8	95055036	95055236	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042715)	promoter-TSS (NM_001042715)	33.0	NM_001042715	330830.0	Mm.277112	NM_001042715	ENSMUSG00000031786	Drc7	Ccdc135|Gm770|SRG-L|SRG-S	dynein regulatory complex subunit 7	protein-coding	15.0	34.5	17.5	207.5	54.5	21.5	39.0	31.0
Merged-chr12-64966324-4	chr12	64966249	64966449	+	980.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025707)	promoter-TSS (NM_025707)	607.0	NM_177805	328108.0	Mm.138465	NM_177805	ENSMUSG00000035614	Togaram1	A430041B07Rik|BC062107|C130034K06|Fam179b|mKIAA0423	TOG array regulator of axonemal microtubules 1	protein-coding	13.0	19.0	28.5	211.0	36.0	14.0	18.5	23.5
Merged-chr2-166682671-4	chr2	166682578	166682778	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	31154.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	14.0	17.5	14.0	259.5	35.5	7.0	11.0	10.5
Merged-chr5-134102846-4	chr5	134102759	134102959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030719, intron 1 of 8)	intron (NM_030719, intron 1 of 8)	3111.0	NM_030719	80909.0	Mm.45218	NM_030719	ENSMUSG00000015944	Gatsl2	7530428J21Rik|AW742413|Castor2|Gats|Gatsl1	GATS protein-like 2	protein-coding	37.0	80.0	27.5	382.0	113.5	35.0	43.5	33.5
Merged-chr18-63692439-4	chr18	63692349	63692549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016792)	promoter-TSS (NM_016792)	-90.0	NM_016792	53382.0	Mm.19169	NM_016792	ENSMUSG00000024583	Txnl1	32kDa|TRP32|Txnl	thioredoxin-like 1	protein-coding	158.0	226.5	121.5	1966.0	437.0	175.0	212.0	195.0
Merged-chr3-137854083-4	chr3	137853960	137854160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-10427.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	33.0	27.0	29.0	312.0	115.5	20.0	50.5	35.5
Merged-chr13-113544825-3	chr13	113544728	113544928	+	738.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR52|LTR|ERVL	-41984.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	9.0	13.0	17.5	77.5	21.0	4.0	3.0	3.0
Merged-chr14-55763247-4	chr14	55763149	55763349	+	957.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020490)	TTS (NM_020490)	1821.0	NM_020490	57260.0	Mm.159670	NM_020490	ENSMUSG00000040432	Ltb4r2	5830462O07Rik|BLT2|LTB4-R 2|LTB4-R-2|LTB4-R2	leukotriene B4 receptor 2	protein-coding	30.5	16.0	17.0	330.0	31.0	14.0	21.0	27.5
Merged-chr7-81162567-4	chr7	81162470	81162670	+	851.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004184, intron 12 of 17)	intron (NM_001004184, intron 12 of 17)	47771.0	NM_001004184	434203.0	Mm.389909	NM_001004184	ENSMUSG00000025726	Slc28a1	Cnt1	solute carrier family 28 (sodium-coupled nucleoside transporter), member 1	protein-coding	12.0	10.0	1.5	95.0	36.0	13.5	16.0	9.5
Merged-chr8-33661284-3	chr8	33661207	33661407	+	823.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	RLTR21|LTR|ERVK	8069.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	1.0	4.0	1.0	6.0	35.0	15.5	12.0	12.0
Merged-chr1-66701658-2	chr1	66701529	66701729	+	639.0	f0_balb.idr|f0_c57.idr	exon (NM_001310642, exon 2 of 7)	exon (NM_001310642, exon 2 of 7)	798.0	NM_001310644	66646.0	Mm.240912	NM_025683	ENSMUSG00000026005	Rpe	2810429B02Rik|5730518J08Rik	ribulose-5-phosphate-3-epimerase	protein-coding	1.0	7.5	3.0	76.0	15.0	9.5	12.5	8.5
Merged-chr7-128412169-3	chr7	128412056	128412256	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 1 of 4)	intron (NM_026418, intron 1 of 4)	6016.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	4.5	13.5	4.5	48.5	8.5	6.0	3.5	3.5
Merged-chr10-37319278-4	chr10	37319176	37319376	+	945.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-180350.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	29.0	52.0	10.5	267.0	74.5	33.5	15.0	15.0
Merged-chr1-187215441-4	chr1	187215350	187215550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028848)	promoter-TSS (NM_028848)	-4.0	NM_029067	74717.0	Mm.250430	NM_028848	ENSMUSG00000026611	Spata17	1700065F16Rik|4930504I07Rik|4930513F16Rik|MSRG-11	spermatogenesis associated 17	protein-coding	53.0	61.5	89.5	953.5	99.5	35.0	63.0	54.0
Merged-chr9-40760554-4	chr9	40760490	40760690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-40683.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	109.5	128.0	96.0	1325.0	62.0	17.0	36.5	39.5
Merged-chr7-113378104-4	chr7	113378005	113378205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-8766.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	72.5	138.0	87.5	999.5	184.0	88.5	82.5	75.0
Merged-chr15-94557635-4	chr15	94557553	94557753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029926, intron 6 of 11)	intron (NM_029926, intron 6 of 11)	13993.0	NM_029926	266632.0	Mm.422858	NM_029926	ENSMUSG00000059883	Irak4	8430405M07Rik|9330209D03Rik|IRAK-4|NY-REN-64	interleukin-1 receptor-associated kinase 4	protein-coding	23.5	37.5	20.5	404.0	70.5	31.0	40.5	31.0
Merged-chr11-119524654-4	chr11	119524547	119524747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	23173.0	NM_008730	18164.0	Mm.5142	NM_008730	ENSMUSG00000025582	Nptx1	D11Bwg1004e|Np1	neuronal pentraxin 1	protein-coding	53.5	71.0	22.0	439.5	75.0	35.0	41.0	29.0
Merged-chr18-4352403-4	chr18	4352322	4352522	+	909.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 1 of 7)	intron (NM_007746, intron 1 of 7)	531.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	12.0	15.0	11.5	158.0	51.0	17.0	14.5	14.0
Merged-chr9-78395786-4	chr9	78395692	78395892	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001191044)	promoter-TSS (NM_001191044)	15.0	NM_001191044	100048658.0	Mm.158166	NM_001191044	ENSMUSG00000070291	Ddx43	-	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	protein-coding	34.5	45.0	30.5	505.0	64.5	25.0	32.0	21.5
Merged-chr5-135460331-4	chr5	135460229	135460429	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 2 of 30)	intron (NM_146001, intron 2 of 30)	-65783.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	27.5	15.5	23.5	514.5	28.0	14.0	11.0	18.5
Merged-chr6-87590736-4	chr6	87590626	87590826	+	985.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021381)	promoter-TSS (NM_021381)	17.0	NM_001355655	58182.0	Mm.333226	NM_021381	ENSMUSG00000049409	Prokr1	EG-VEGFR1|Gpr73|Pk-r1|Pkr1	prokineticin receptor 1	protein-coding	12.0	25.0	20.5	205.5	37.0	15.0	16.0	15.5
Merged-chr8-94857989-4	chr8	94857896	94858096	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009090, intron 2 of 8)	CpG-14378	546.0	NM_009090	20021.0	Mm.292492	NM_009090	ENSMUSG00000031783	Polr2c	33kDa|RPB3|Rpo2-3|mRBP31	polymerase (RNA) II (DNA directed) polypeptide C	protein-coding	7.0	13.0	23.5	154.5	37.5	5.0	7.5	8.0
Merged-chr15-86202065-4	chr15	86201903	86202103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12456.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	28.0	49.5	42.5	442.0	73.0	21.5	29.0	29.0
Merged-chr1-51500393-4	chr1	51500299	51500499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22000.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	43.0	63.5	37.5	655.0	78.0	19.0	31.0	28.0
Merged-chr2-121509773-4	chr2	121509672	121509872	+	911.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290987, intron 1 of 11)	intron (NM_001290987, intron 1 of 11)	3049.0	NM_001290986	241627.0	Mm.293284	NM_030234	ENSMUSG00000027242	Wdr76	5830411K18Rik|6030457D09|AA517836	WD repeat domain 76	protein-coding	25.0	28.0	18.0	344.5	26.0	14.0	13.0	11.5
Merged-chr16-27296740-3	chr16	27296645	27296845	+	919.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10896.0	NM_198112	239790.0	Mm.390880	NM_198112	ENSMUSG00000052276	Ostn	Ostc	osteocrin	protein-coding	6.0	10.5	11.5	158.5	24.5	6.0	10.0	12.5
Merged-chr4-101356266-4	chr4	101356165	101356365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040708)	promoter-TSS (NR_040708)	-17.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	56.5	75.0	79.0	759.0	133.0	49.5	68.5	61.5
Merged-chr15-102203510-4	chr15	102203389	102203589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289694)	promoter-TSS (NM_001289694)	-156.0	NM_001289694	68744.0	Mm.352945	NM_153194	ENSMUSG00000046897	Zfp740	1110034O07Rik|AW548228|Znf740	zinc finger protein 740	protein-coding	82.0	139.0	76.0	1072.0	276.5	121.5	136.5	104.5
Merged-chr7-30423033-7	chr7	30422897	30423097	+	977.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172142)	promoter-TSS (NM_172142)	-278.0	NM_172142	243910.0	Mm.386878	NM_172142	ENSMUSG00000036931	Nfkbid	I-kappa-B-delta|IkappaBNS|ikB-delta	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, delta	protein-coding	21.5	36.5	10.5	146.0	59.5	29.5	14.5	21.0
Merged-chr1-156437980-3	chr1	156437882	156438082	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 10 of 15)	intron (NM_009230, intron 10 of 15)	-17067.0	NM_001346967	77352.0	Mm.428709	NM_001033180	ENSMUSG00000026601	Axdnd1	9430070O13Rik|Gm979	axonemal dynein light chain domain containing 1	protein-coding	19.0	26.0	26.0	340.0	30.0	3.5	8.0	10.0
Merged-chr4-126257290-4	chr4	126257153	126257353	+	765.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144941)	promoter-TSS (NM_144941)	-934.0	NM_001145970	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	12.5	8.5	7.0	99.5	30.5	6.0	13.5	15.0
Merged-chr8-124704622-3	chr8	124704525	124704725	+	828.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357357, intron 4 of 19)	intron (NM_001357357, intron 4 of 19)	17369.0	NM_001357357	234875.0	Mm.38436	NM_145607	ENSMUSG00000037300	Ttc13	BC017545	tetratricopeptide repeat domain 13	protein-coding	0.0	1.0	0.0	8.0	12.5	5.5	13.5	11.5
Merged-chr2-144459164-4	chr2	144459070	144459270	+	933.915466	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033459)	promoter-TSS (NR_033459)	-110.0	NR_033459	668917.0	Mm.152805	NR_033459	ENSMUSG00000083674	Zfp133-ps	Zfp133	zinc finger protein 133, pseudogene	pseudo	7.0	7.5	10.5	141.0	25.5	8.5	14.0	19.0
Merged-chr6-48708260-4	chr6	48708178	48708378	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153175)	promoter-TSS (NM_153175)	-34.0	NM_153175	231931.0	Mm.321047	NM_153175	ENSMUSG00000047867	Gimap6	4833419H03Rik|Ian6|mFLJ00102	GTPase, IMAP family member 6	protein-coding	23.0	26.0	23.5	372.5	97.0	20.5	26.5	37.0
Merged-chr4-35219719-4	chr4	35219610	35219810	+	919.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	intron (NM_001081343, intron 1 of 10)	6170.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	15.5	13.5	11.0	187.0	32.0	16.0	13.5	9.0
Merged-chr19-6980058-4	chr19	6979981	6980181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360288)	promoter-TSS (NM_001360288)	5.0	NM_001360286	14227.0	Mm.4234	NM_008020	ENSMUSG00000056629	Fkbp2	mFKBP13|mFKBP2	FK506 binding protein 2	protein-coding	307.0	568.0	322.5	3843.0	783.5	349.5	341.5	280.5
Merged-chr7-19458213-4	chr7	19458159	19458359	+	960.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172279, intron 1 of 16)	CpG	235.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	16.0	18.0	13.0	160.0	25.5	17.5	8.5	16.5
Merged-chr4-116668440-4	chr4	116668355	116668555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16781.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	102.0	89.5	86.0	1078.5	200.0	104.5	103.5	105.5
Merged-chr12-85824741-4	chr12	85824680	85824880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081423)	promoter-TSS (NM_001081423)	113.0	NM_001360451	58520.0	Mm.143795	NM_021446	ENSMUSG00000021252	Erg28	0610007P14Rik|1190004E09Rik|AU019315|C77855|ORF11	ergosterol biosynthesis 28	protein-coding	85.0	143.5	110.0	978.5	160.0	67.0	76.5	96.0
Merged-chr5-110386247-6	chr5	110386060	110386260	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 5 of 18)	intron (NM_001142642, intron 5 of 18)	967.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	9.5	19.0	14.0	52.5	53.5	21.0	23.0	7.5
Merged-chr7-30729538-4	chr7	30729453	30729653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027215)	promoter-TSS (NM_027215)	-19.0	NM_027215	69804.0	Mm.27499	NM_027215	ENSMUSG00000006315	Tmem147	2010004E11Rik|5033425B17Rik|Nifie14	transmembrane protein 147	protein-coding	65.5	95.0	42.5	703.5	217.5	84.0	41.0	67.0
Merged-chr17-83527871-4	chr17	83527774	83527974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-13541.0	NM_001159529	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	44.5	42.0	40.5	673.0	131.0	29.5	47.0	48.5
Merged-chr5-31814241-4	chr5	31814157	31814357	+	889.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 4 of 11)	intron (NM_144541, intron 4 of 11)	116207.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	12.5	12.0	11.5	181.5	46.0	9.5	13.0	14.0
Merged-chr15-57890640-4	chr15	57890586	57890786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024207, intron 1 of 7)	L2a|LINE|L2	1732.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	27.5	22.0	18.5	276.0	53.5	19.0	23.0	26.5
Merged-chr10-85386728-3	chr10	85386609	85386809	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028709)	promoter-TSS (NM_028709)	-105.0	NM_028709	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	4.0	2.0	2.5	77.5	461.5	170.0	196.0	187.0
Merged-chr11-120150526-4	chr11	120150427	120150627	+	973.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361699, intron 1 of 16)	intron (NM_001361699, intron 1 of 16)	824.0	NM_001361698	72055.0	Mm.253403	NM_024249	ENSMUSG00000061306	Slc38a10	1810073N04Rik	solute carrier family 38, member 10	protein-coding	11.5	39.5	14.0	200.0	73.0	19.0	20.5	20.5
Merged-chr15-78304029-3	chr15	78303929	78304129	+	944.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287389, intron 1 of 11)	intron (NM_001287389, intron 1 of 11)	1692.0	NM_007781	12984.0	Mm.1940	NM_007781	ENSMUSG00000071714	Csf2rb2	AIC2A|BetaIl3|Bil3|Csfgmrb|Il3r|Il3rb|Il3rb2	colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage)	protein-coding	16.0	11.0	23.0	122.5	24.0	2.5	4.5	4.5
Merged-chr2-58189118-3	chr2	58189012	58189212	+	778.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	25138.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	10.0	8.5	8.0	62.0	15.5	4.5	10.0	7.0
Merged-chr10-127508447-3	chr10	127508345	127508545	+	797.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177707, exon 12 of 12)	exon (NM_177707, exon 12 of 12)	-6494.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	15.0	20.5	3.0	126.5	24.0	12.5	5.5	8.0
Merged-chr7-34912330-4	chr7	34912233	34912433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008820)	promoter-TSS (NM_008820)	-74.0	NM_008820	18624.0	Mm.69751	NM_008820	ENSMUSG00000063931	Pepd	Pep-4|Pep4|dal	peptidase D	protein-coding	110.5	137.5	98.0	1447.5	213.0	96.0	123.5	81.0
Merged-chr6-43645352-3	chr6	43645248	43645448	+	969.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	intron (NM_013861, intron 2 of 8)	20930.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	17.5	17.0	13.0	258.5	8.0	11.5	5.0	6.0
Merged-chr7-141525467-4	chr7	141525361	141525561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026522, intron 7 of 10)	intron (NM_026522, intron 7 of 10)	14396.0	NM_026522	68038.0	Mm.245355	NM_026522	ENSMUSG00000025512	Chid1	3110023E09Rik|AI841869	chitinase domain containing 1	protein-coding	30.5	41.5	26.5	638.5	123.5	24.5	50.0	45.0
Merged-chr17-87280117-4	chr17	87280021	87280221	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015506, intron 2 of 4)	MER110-int|LTR|ERV1	2693.0	NR_015506	74597.0	Mm.63783	NR_015506	ENSMUSG00000085287	4833418N02Rik	-	RIKEN cDNA 4833418N02 gene	ncRNA	28.5	33.0	25.5	500.5	42.5	25.0	15.5	19.0
Merged-chr8-105348042-4	chr8	105347947	105348147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081332)	promoter-TSS (NM_001081332)	-77.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	175.0	351.5	198.5	2792.0	550.5	158.5	227.5	117.5
Merged-chr14-71011135-4	chr14	71011056	71011256	+	944.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121049.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	24.5	23.5	14.5	272.0	31.0	13.5	21.0	5.5
Merged-chr9-70009062-4	chr9	70008961	70009161	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016787, exon 11 of 11)	3' UTR (NM_016787, exon 11 of 11)	-3487.0	NM_001282084	235459.0	Mm.293117	NM_199151	ENSMUSG00000033543	Gtf2a2	TFIIA-gamma|TfIIg|Tfiia2	general transcription factor II A, 2	protein-coding	8.5	22.5	12.0	248.5	39.0	8.5	14.5	5.5
Merged-chr5-141013575-4	chr5	141013448	141013648	+	975.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12952.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	18.0	19.0	27.0	367.0	56.0	11.0	33.5	39.5
Merged-chr6-83456627-4	chr6	83456561	83456761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347313)	promoter-TSS (NM_001347313)	-269.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	98.0	176.5	80.0	846.0	288.5	124.0	85.0	78.0
Merged-chr2-60046215-4	chr2	60046114	60046314	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 2 of 35)	intron (NM_001001182, intron 2 of 35)	79526.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	20.0	39.5	38.0	675.0	74.5	18.0	21.0	31.0
Merged-chr1-59670799-4	chr1	59670702	59670902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009460)	promoter-TSS (NM_009460)	32.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	53.5	85.0	38.0	602.0	160.0	63.5	60.5	61.0
Merged-chr6-87546933-4	chr6	87546858	87547058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13699.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	19.5	31.0	26.5	406.5	75.0	31.5	31.5	31.0
Merged-chr6-71908976-5	chr6	71908826	71909026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009088)	promoter-TSS (NM_009088)	-127.0	NM_009088	20019.0	Mm.135581	NM_009088	ENSMUSG00000049553	Polr1a	194kDa|2900087K15Rik|3010014K16Rik|RPA194|Rpo1-4|mRPA1	polymerase (RNA) I polypeptide A	protein-coding	19.5	28.0	27.0	213.0	61.0	18.5	11.0	22.5
Merged-chr13-55635009-4	chr13	55634990	55635190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282055)	promoter-TSS (NM_001282055)	91.0	NM_001282055	212880.0	Mm.202725	NM_145975	ENSMUSG00000021500	Ddx46	2200005K02Rik|8430438J23Rik|AI325430|AI957095|mKIAA0801	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	protein-coding	18.0	35.0	27.5	197.0	54.5	16.0	22.5	26.5
Merged-chr12-24697798-1	chr12	24697698	24697898	+	824.5	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-10456.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	7.0	21.0	11.5	156.0	8.5	2.5	3.5	5.0
Merged-chr13-101844611-3	chr13	101844505	101844705	+	620.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76388.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	6.0	8.0	13.5	139.0	17.5	6.5	17.0	7.5
Merged-chr2-75704629-4	chr2	75704541	75704741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010902)	promoter-TSS (NM_010902)	22.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	288.0	446.5	344.0	4768.5	952.0	367.0	490.0	401.5
Merged-chr10-6983884-1	chr10	6983784	6983984	+	542.0	f0_balb.idr	intron (NM_001039652, intron 4 of 5)	MTE2a|LTR|ERVL-MaLR	-3419.0	NM_001170801	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	6.5	9.0	16.5	88.5	3.0	1.0	3.0	6.5
Merged-chr10-85190173-3	chr10	85190061	85190261	+	842.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5107.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	11.5	27.0	5.5	19.5	45.0	7.5	13.0	16.5
Merged-chr17-67207254-4	chr17	67207159	67207359	+	815.5500490000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	147200.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	2.5	3.0	4.0	35.5	26.0	12.5	8.0	14.5
Merged-chr13-12461506-4	chr13	12461425	12461625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_018886, exon 1 of 10)	5' UTR (NM_018886, exon 1 of 10)	213.0	NM_001291060	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	143.0	225.0	122.0	2300.5	461.0	144.0	218.0	166.5
Merged-chr16-93884403-3	chr16	93884309	93884509	+	866.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028083, intron 1 of 13)	CpG	508.0	NM_028083	110749.0	Mm.274222	NM_028083	ENSMUSG00000022945	Chaf1b	2600017H24Rik|C76145|CAF-I p60|CAF-Ip60|CAF1|CAF1A|CAF1P60|MPHOSPH7	chromatin assembly factor 1, subunit B (p60)	protein-coding	4.0	13.5	7.0	26.5	24.5	8.0	6.5	11.0
Merged-chr11-11707047-3	chr11	11706947	11707147	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025597, intron 2 of 7)	intron (NM_001025597, intron 2 of 7)	16870.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	9.5	11.0	18.5	263.0	30.5	2.0	6.0	8.0
Merged-chr12-103532301-4	chr12	103532198	103532398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028980)	promoter-TSS (NM_028980)	-267.0	NM_028980	74521.0	Mm.248619	NM_028980	ENSMUSG00000021209	Ppp4r4	8430415E04Rik|mKIAA1622	protein phosphatase 4, regulatory subunit 4	protein-coding	81.0	122.0	104.0	1462.0	207.0	80.5	103.0	66.5
Merged-chr14-30557208-1	chr14	30557108	30557308	+	606.0	f1_c57bl6.idr	intron (NM_009388, intron 1 of 13)	intron (NM_009388, intron 1 of 13)	8077.0	NM_009388	21881.0	Mm.290692	NM_009388	ENSMUSG00000021957	Tkt	p68	transketolase	protein-coding	2.5	0.0	2.0	40.5	5.5	5.0	5.5	6.5
Merged-chr6-113245763-4	chr6	113245664	113245864	+	699.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155434, intron 2 of 17)	intron (NR_155434, intron 2 of 17)	7921.0	NR_155433	97287.0	Mm.197816	NM_026849	ENSMUSG00000030269	Mtmr14	1110061O04Rik|AW553738|C76151	myotubularin related protein 14	protein-coding	2.0	10.0	3.5	144.5	42.0	6.5	12.0	6.5
Merged-chr1-149831287-4	chr1	149831191	149831391	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 17 of 17)	intron (NM_008869, intron 17 of 17)	91148.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	11.0	30.0	8.5	268.0	132.0	43.5	40.5	32.0
Merged-chr13-6922456-1	chr13	6922356	6922556	+	679.0	f0_balb.idr	Intergenic	Intergenic	-273685.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	10.0	8.0	6.5	119.0	8.0	7.0	6.0	1.0
Merged-chr13-44952511-3	chr13	44952415	44952615	+	791.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 7 of 9)	ORR1D2|LTR|ERVL-MaLR	49581.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	6.0	7.5	4.0	81.5	13.0	5.5	6.0	4.5
Merged-chr2-80081493-7	chr2	80081358	80081558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	MER31A|LTR|ERV1	-42556.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	28.0	22.0	26.0	267.5	37.0	23.0	21.0	14.0
Merged-chr17-25570841-4	chr17	25570748	25570948	+	877.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045176)	promoter-TSS (NR_045176)	37.0	NR_045176	72834.0	Mm.33042	NR_045176	ENSMUSG00000091475	2810468N07Rik	-	RIKEN cDNA 2810468N07 gene	ncRNA	16.0	9.5	6.5	219.5	26.5	9.0	7.0	8.5
Merged-chr11-97243153-3	chr11	97243061	97243261	+	864.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008942, intron 5 of 22)	intron (NM_008942, intron 5 of 22)	37415.0	NM_008942	19155.0	Mm.29824	NM_008942	ENSMUSG00000001441	Npepps	AAP-S|MP100|Psa|R74825|goku	aminopeptidase puromycin sensitive	protein-coding	10.5	13.0	2.0	79.0	23.5	6.0	7.5	14.0
Merged-chr13-46168926-4	chr13	46168826	46169026	+	870.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104795.0	NM_001005422	380842.0	Mm.188108	NM_001005422	ENSMUSG00000063529	Stmnd1	Gm1574	stathmin domain containing 1	protein-coding	13.0	34.0	12.0	125.5	38.5	15.0	13.5	25.5
Merged-chr11-110372001-4	chr11	110371898	110372098	+	733.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27104.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	6.0	9.0	2.0	92.5	35.5	18.0	9.0	5.0
Merged-chr9-122950399-4	chr9	122950307	122950507	+	822.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010620)	promoter-TSS (NM_010620)	593.0	NM_025419	66202.0	Mm.268307	NM_025419	ENSMUSG00000032551	1110059G10Rik	-	RIKEN cDNA 1110059G10 gene	protein-coding	5.0	16.5	1.0	82.5	30.0	5.5	8.0	9.5
Merged-chr2-142813191-3	chr2	142813086	142813286	+	810.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 12 of 26)	intron (NM_001355123, intron 12 of 26)	88278.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	3.0	10.5	14.5	141.5	18.5	7.5	7.0	5.0
Merged-chr13-54468855-4	chr13	54468768	54468968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028597)	promoter-TSS (NM_028597)	-28.0	NM_028597	73666.0	Mm.292487	NM_028597	ENSMUSG00000025872	Thoc3	2410044K02Rik|AL033344	THO complex 3	protein-coding	71.0	84.0	29.5	1018.0	210.5	80.5	79.0	100.5
Merged-chr8-24715356-3	chr8	24715258	24715458	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324489, intron 5 of 21)	intron (NM_001324489, intron 5 of 21)	10494.0	NM_009619	11497.0	Mm.5168	NM_009619	ENSMUSG00000031553	Adam3	Cyrn1|Taz83|tMDC	a disintegrin and metallopeptidase domain 3 (cyritestin)	protein-coding	20.0	13.0	13.0	207.0	8.0	6.5	9.0	11.0
Merged-chr15-12008289-4	chr15	12008160	12008360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-12253.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	23.5	30.0	20.0	357.0	72.5	14.5	41.5	30.5
Merged-chr6-51611840-4	chr6	51611725	51611925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66532.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	35.0	45.5	31.0	717.5	93.5	42.0	56.0	37.5
Merged-chr10-70201744-4	chr10	70201614	70201814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2950.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	19.5	28.5	24.5	215.5	47.5	14.0	19.0	35.5
Merged-chr1-135726129-4	chr1	135726037	135726237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360782, intron 1 of 5)	intron (NM_001360782, intron 1 of 5)	-3030.0	NR_153810	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	92.5	116.5	54.5	976.5	214.5	54.5	104.0	89.5
Merged-chr7-100907495-4	chr7	100907392	100907592	+	994.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081116, intron 1 of 20)	intron (NM_001081116, intron 1 of 20)	24669.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	35.0	55.0	20.0	206.5	81.0	21.5	20.5	16.0
Merged-chr1-152556844-4	chr1	152556739	152556939	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 5 of 17)	intron (NM_016846, intron 5 of 17)	68378.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	29.0	24.0	15.5	598.0	20.0	17.0	22.5	17.5
Merged-chr5-142909603-2	chr5	142909514	142909714	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-2860.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	49.5	54.5	31.5	454.5	100.0	40.5	49.0	55.5
Merged-chr11-61142465-4	chr11	61142362	61142562	+	861.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021349, intron 2 of 3)	intron (NM_021349, intron 2 of 3)	1627.0	NM_021349	57916.0	Mm.265915	NM_021349	ENSMUSG00000010142	Tnfrsf13b	1200009E08Rik|Taci	tumor necrosis factor receptor superfamily, member 13b	protein-coding	11.0	22.5	6.0	196.5	18.0	2.0	11.0	5.0
Merged-chr13-59836219-4	chr13	59836130	59836330	+	912.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13083.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	26.5	29.0	20.0	432.5	21.0	14.5	6.0	12.5
Merged-chr10-24090518-3	chr10	24090433	24090633	+	960.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001010837)	TTS (NM_001010837)	1761.0	NM_001010837	382348.0	Mm.377897	NM_001010837	ENSMUSG00000100186	Taar8b	Gm1149|taR-8b	trace amine-associated receptor 8B	protein-coding	15.0	13.0	8.5	258.5	21.5	5.5	7.5	9.0
Merged-chr11-55209888-3	chr11	55209760	55209960	+	620.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153139, intron 1 of 10)	intron (NM_153139, intron 1 of 10)	5520.0	NM_153139	215335.0	Mm.35732	NM_153139	ENSMUSG00000020261	Slc36a1	5830411H19Rik|AI839897|Pat1	solute carrier family 36 (proton/amino acid symporter), member 1	protein-coding	8.5	11.0	5.0	147.0	7.0	12.0	9.0	7.5
Merged-chr17-47010548-4	chr17	47010465	47010665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177374)	promoter-TSS (NM_001177374)	-33.0	NM_001177374	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	98.5	152.5	57.0	1291.0	312.5	95.0	136.0	90.5
Merged-chr11-106461356-4	chr11	106461246	106461446	+	999.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 1 of 21)	(CA)n|Simple_repeat|Simple_repeat	26450.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	18.0	46.5	8.5	357.0	70.0	24.5	23.5	43.5
Merged-chr10-67287995-3	chr10	67287907	67288107	+	800.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2726.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	5.5	5.5	10.0	107.5	12.5	2.5	3.0	7.5
Merged-chr11-54866522-5	chr11	54866452	54866652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008248, exon 1 of 3)	exon (NM_008248, exon 1 of 3)	169.0	NM_008248	15254.0	Mm.425	NM_008248	ENSMUSG00000020267	Hint1	AA673479|Hint|Ipk1|PKCI-1|PRKCNH1	histidine triad nucleotide binding protein 1	protein-coding	50.0	77.0	75.0	565.0	82.5	37.0	33.5	51.5
Merged-chr3-27226978-4	chr3	27226868	27227068	+	885.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	intron (NM_178772, intron 3 of 4)	43964.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	9.0	7.0	4.0	148.0	68.0	11.0	16.5	10.0
Merged-chr8-123983013-4	chr8	123982909	123983109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019552, exon 1 of 13)	5' UTR (NM_019552, exon 1 of 13)	113.0	NM_019552	56199.0	Mm.274243	NM_019552	ENSMUSG00000031974	Abcb10	Abc-me|Abcb12	ATP-binding cassette, sub-family B (MDR/TAP), member 10	protein-coding	126.0	209.0	117.5	2265.0	219.0	87.5	98.0	53.0
Merged-chr10-59220923-3	chr10	59220779	59220979	+	802.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024910, intron 1 of 9)	intron (NM_001024910, intron 1 of 9)	968.0	NM_001024911	103080.0	Mm.346842	NM_001024910	ENSMUSG00000019917	Sept10	4921515A04Rik|9430099J10Rik|AA408298|AI874685	septin 10	protein-coding	1.5	3.0	2.5	53.0	15.5	13.0	6.0	8.5
Merged-chr7-88230938-4	chr7	88230859	88231059	+	971.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCc|LINE|L1	-47126.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	21.5	30.5	19.0	426.5	75.5	13.0	21.0	14.5
Merged-chr12-111377765-4	chr12	111377679	111377879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183016)	promoter-TSS (NM_183016)	-61.0	NM_183016	217866.0	Mm.27397	NM_183016	ENSMUSG00000021279	Cdc42bpb	MRCKb	CDC42 binding protein kinase beta	protein-coding	158.0	248.5	183.0	1715.5	413.5	163.0	179.0	143.5
Merged-chr8-80943977-4	chr8	80943874	80944074	+	980.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	-63455.0	NM_001301298	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	32.5	20.5	32.5	285.5	18.0	18.5	23.0	12.0
Merged-chr10-61176024-3	chr10	61175924	61176124	+	925.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017407, intron 2 of 3)	intron (NM_001017407, intron 2 of 3)	762.0	NM_023064	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	4.0	13.0	5.0	83.0	24.5	6.0	15.5	13.5
Merged-chr9-56209044-4	chr9	56208964	56209164	+	759.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 6 of 6)	L1MA5|LINE|L1	-47994.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	4.5	14.0	9.0	128.0	31.0	3.5	8.5	15.0
Merged-chr1-16688823-4	chr1	16688711	16688911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159711, intron 1 of 4)	intron (NM_001159711, intron 1 of 4)	355.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	28.0	32.0	24.0	420.0	122.0	47.0	45.5	46.5
Merged-chr1-170864911-2	chr1	170864811	170865011	+	794.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 1 of 15)	MTD|LTR|ERVL-MaLR	2860.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	4.0	3.5	4.0	51.5	17.0	11.0	6.0	5.5
Merged-chr14-57571586-4	chr14	57571498	57571698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026526)	promoter-TSS (NM_026526)	-16.0	NR_152103	67518.0	Mm.376343	NR_152103	ENSMUSG00000097933	1700039M10Rik	-	RIKEN cDNA 1700039M10 gene	ncRNA	64.0	109.5	55.0	1083.0	197.0	80.0	95.5	74.0
Merged-chr15-89179081-4	chr15	89178974	89179174	+	984.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	1714.0	NM_001284506	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	29.0	31.5	6.5	224.0	81.5	18.5	26.5	25.5
Merged-chr8-70635672-4	chr8	70635564	70635764	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3208.0	NM_001330687	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	6.0	12.0	18.0	150.5	55.5	6.5	9.5	11.5
Merged-chr14-73325953-6	chr14	73325842	73326042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009029)	promoter-TSS (NM_009029)	-120.0	NM_009029	19645.0	Mm.273862	NM_009029	ENSMUSG00000022105	Rb1	Rb|Rb-1|pRb|pp105	RB transcriptional corepressor 1	protein-coding	49.5	79.0	31.5	664.5	113.0	56.5	67.5	36.5
Merged-chr14-40936604-4	chr14	40936505	40936705	+	903.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	11604.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	24.5	13.5	9.5	314.0	43.0	8.5	12.5	16.5
Merged-chr11-72216657-4	chr11	72216563	72216763	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163728, exon 1 of 1)	3' UTR (NM_001163728, exon 1 of 1)	-1071.0	NM_026068	67279.0	Mm.159496	NM_026068	ENSMUSG00000020801	Med31	3110004H13Rik|CGI-125|l11Jus15	mediator complex subunit 31	protein-coding	12.0	10.0	9.0	95.5	43.5	19.5	13.0	12.0
Merged-chr2-68793747-4	chr2	68793656	68793856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67685.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	39.0	105.5	26.5	444.5	81.0	48.5	30.0	26.5
Merged-chr14-60444367-4	chr14	60444276	60444476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	66090.0	NM_001164705	72125.0	Mm.275499	NM_028113	ENSMUSG00000021986	Amer2	2600011E07Rik|Fam123a	APC membrane recruitment 2	protein-coding	55.0	89.0	46.5	640.5	124.0	53.0	32.0	64.0
Merged-chr14-118663149-4	chr14	118663043	118663243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033336, intron 3 of 30)	intron (NM_001033336, intron 3 of 30)	13788.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	38.0	67.5	65.5	1167.5	96.5	30.5	49.5	24.0
Merged-chr13-5867364-3	chr13	5867264	5867464	+	900.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011803, exon 4 of 4)	3' UTR (NM_011803, exon 4 of 4)	5875.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	4.0	21.5	5.0	36.5	15.0	13.0	9.0	9.0
Merged-chr2-143915425-4	chr2	143915313	143915513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019771)	promoter-TSS (NM_019771)	82.0	NM_019771	56431.0	Mm.28919	NM_019771	ENSMUSG00000015932	Dstn	2610043P17Rik|ADF|AU042046|Dsn|corn1|sid23p	destrin	protein-coding	129.5	135.0	115.0	1769.0	258.5	91.5	112.5	90.0
Merged-chr18-53261442-4	chr18	53261329	53261529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	15767.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	24.5	27.0	26.5	454.0	64.5	18.0	18.5	19.5
Merged-chr3-86920704-7	chr3	86920610	86920810	+	906.380981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001195499, exon 1 of 18)	5' UTR (NM_001195499, exon 1 of 18)	174.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	24.0	37.0	33.0	573.0	20.0	5.5	8.5	14.0
Merged-chr1-138172327-2	chr1	138172227	138172427	+	733.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	2799.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	4.5	13.0	5.0	44.5	15.0	3.0	8.0	13.0
Merged-chr13-81767226-3	chr13	81767103	81767303	+	865.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie8|DNA|hAT-Charlie	-16044.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	10.0	16.0	8.0	108.5	7.5	4.0	11.0	4.5
Merged-chr14-103717690-3	chr14	103717588	103717788	+	713.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18256.0	NR_045148	70898.0	Mm.27548	NR_045148	ENSMUSG00000089707	Slain1os	4921525B02Rik	SLAIN motif family, member 1, opposite strand	ncRNA	8.0	7.0	2.0	171.0	15.0	4.5	13.0	7.5
Merged-chr4-139131089-4	chr4	139130986	139131186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033745)	promoter-TSS (NR_033745)	27.0	NM_001163006	433771.0	Mm.305990	NM_001163006	ENSMUSG00000050608	Minos1	2310028O11Rik	mitochondrial inner membrane organizing system 1	protein-coding	124.5	152.0	75.5	1322.0	286.5	148.0	104.0	83.5
Merged-chr5-45492420-4	chr5	45492336	45492536	+	918.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024434)	promoter-TSS (NM_024434)	-938.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	11.5	14.5	17.5	595.5	39.5	10.0	29.5	23.5
Merged-chr2-104750769-3	chr2	104750668	104750868	+	885.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-7967.0	NM_144804	211896.0	Mm.288805	NM_144804	ENSMUSG00000027173	Depdc7	AV216087	DEP domain containing 7	protein-coding	5.5	10.0	1.0	110.5	21.5	9.5	14.5	9.0
Merged-chr11-4160314-4	chr11	4160243	4160443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164620)	promoter-TSS (NM_001164620)	-11.0	NM_026175	67465.0	Mm.156914	NM_026175	ENSMUSG00000002129	Sf3a1	1200014H24Rik|5930416L09Rik|AI159724	splicing factor 3a, subunit 1	protein-coding	117.5	132.0	60.5	1211.0	258.0	105.0	124.5	104.0
Merged-chr12-3365215-4	chr12	3365116	3365316	+	963.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008445)	promoter-TSS (NM_008445)	84.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	39.0	29.5	49.5	372.0	59.5	26.0	30.5	23.5
Merged-chr8-125513635-4	chr8	125513599	125513799	+	899.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 2 of 21)	intron (NM_001357372, intron 2 of 21)	-20866.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	3.5	11.0	18.5	224.5	19.0	11.5	5.0	12.5
Merged-chr9-22143318-4	chr9	22143219	22143419	+	848.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7573.0	NM_001102405	11433.0	Mm.46354	NM_007388	ENSMUSG00000001348	Acp5	TRACP|TRAP	acid phosphatase 5, tartrate resistant	protein-coding	4.5	10.5	6.5	100.0	30.0	8.5	17.5	12.0
Merged-chr12-8498781-4	chr12	8498611	8498811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007483, exon 1 of 1)	3' UTR (NM_007483, exon 1 of 1)	1298.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	62.5	129.0	52.5	673.0	258.0	88.0	105.0	109.0
Merged-chr11-44470043-2	chr11	44469953	44470153	+	1000.0	f0_c57.idr|f1_balb.idr	intron (NM_024475, intron 1 of 10)	intron (NM_024475, intron 1 of 10)	495.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	18.5	18.0	19.5	152.0	38.0	24.5	16.5	25.5
Merged-chr11-80087026-4	chr11	80086950	80087150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2350.0	NM_001029856	237877.0	Mm.89551	NM_001029856	ENSMUSG00000017550	Atad5	C130052G03Rik|FRAG1|Gm17	ATPase family, AAA domain containing 5	protein-coding	47.5	84.0	39.0	554.0	147.0	49.0	53.5	54.0
Merged-chr10-40317008-4	chr10	40316918	40317118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-14830.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	29.0	45.0	39.0	501.0	108.5	53.0	31.0	30.5
Merged-chr1-43554522-3	chr1	43554430	43554630	+	971.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010879, exon 4 of 5)	exon (NM_010879, exon 4 of 5)	108779.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	17.0	18.5	14.5	254.0	25.0	2.5	7.5	13.5
Merged-chr18-32359308-7	chr18	32359191	32359391	+	998.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045403, exon 3 of 3)	non-coding (NR_045403, exon 3 of 3)	-17926.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	30.0	38.0	22.0	280.5	34.5	22.5	11.0	31.0
Merged-chr1-134513830-6	chr1	134513700	134513900	+	947.14447	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19140.0	NM_145510	98710.0	Mm.198119	NM_145510	ENSMUSG00000042229	Rabif	AI842864|AW549708|E130318E12Rik|MSS4|RASGFR3	RAB interacting factor	protein-coding	4.5	6.0	12.0	71.5	11.0	3.5	7.0	9.5
Merged-chr12-105436176-2	chr12	105436076	105436276	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17680.0	NM_001252508	268595.0	Mm.2388	NM_001252508	ENSMUSG00000094910	D430019H16Rik	AI852661	RIKEN cDNA D430019H16 gene	protein-coding	5.0	6.0	12.0	32.5	9.0	5.0	9.0	26.0
Merged-chr1-157412676-4	chr1	157412596	157412796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177644)	promoter-TSS (NM_177644)	-101.0	NM_177644	226525.0	Mm.235028	NM_177644	ENSMUSG00000070565	Rasal2	6530401P13|A330066M24Rik	RAS protein activator like 2	protein-coding	145.5	210.5	148.0	2038.0	439.0	135.0	165.0	162.5
Merged-chr4-43656542-4	chr4	43656440	43656640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026871)	promoter-TSS (NM_026871)	-95.0	NM_026871	68917.0	Mm.25285	NM_026871	ENSMUSG00000028470	Hint2	1190005L05Rik	histidine triad nucleotide binding protein 2	protein-coding	145.5	198.5	140.0	1951.0	270.0	133.0	158.0	114.5
Merged-chr5-136087038-4	chr5	136086887	136087087	+	842.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039103, intron 1 of 19)	PB1D7|SINE|Alu	3071.0	NM_001039103	54153.0	Mm.290655	NM_133914	ENSMUSG00000004952	Rasa4	AA793972|AW112107|BB079060|CAPRI|GAPL	RAS p21 protein activator 4	protein-coding	6.5	18.0	5.0	89.0	23.0	13.0	5.0	9.5
Merged-chr6-43642458-4	chr6	43642289	43642489	+	828.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	L2|LINE|L2	23889.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	6.0	5.0	12.0	70.0	7.0	7.5	5.5	8.5
Merged-chr16-23107403-4	chr16	23107298	23107498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123037)	promoter-TSS (NM_001123037)	-70.0	NR_152586	13682.0	Mm.260084	NM_013506	ENSMUSG00000022884	Eif4a2	4833432N07Rik|BM-010|Ddx2b|Eif4|eIF-4A-II|eIF4A-II	eukaryotic translation initiation factor 4A2	protein-coding	31.0	41.0	37.0	556.0	75.0	39.5	51.5	37.0
Merged-chr8-36549231-3	chr8	36549147	36549347	+	634.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	60056.0	NM_176952	319582.0	Mm.180924	NM_176952	ENSMUSG00000039620	6430573F11Rik	Kiaa1456|TRM9L|Trmt9b	RIKEN cDNA 6430573F11 gene	protein-coding	6.5	13.5	10.0	128.5	5.0	2.0	2.0	9.5
Merged-chr10-44735944-4	chr10	44735827	44736027	+	772.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-277179.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	13.5	14.5	16.0	104.5	27.5	9.0	4.5	7.0
Merged-chr10-111570800-1	chr10	111570700	111570900	+	759.333313	f0_balb.idr	Intergenic	Intergenic	23473.0	NR_045344	71321.0	Mm.410785	NR_045344	ENSMUSG00000097082	4933440J02Rik	-	RIKEN cDNA 4933440J02 gene	ncRNA	8.5	11.5	10.5	113.0	7.5	5.0	5.0	11.0
Merged-chr9-119102445-4	chr9	119102365	119102565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177117)	promoter-TSS (NM_177117)	-13.0	NM_177117	320256.0	Mm.110648	NM_177117	ENSMUSG00000038060	Dlec1	D630005C06Rik	deleted in lung and esophageal cancer 1	protein-coding	59.0	103.0	39.0	823.5	190.0	84.5	93.0	79.5
Merged-chr2-16183280-4	chr2	16183177	16183377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 35 of 38)	MER44D|DNA|TcMar-Tigger	-173027.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	91.0	110.0	112.0	1217.0	160.5	56.5	53.5	70.0
Merged-chr2-145832087-4	chr2	145831988	145832188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	45972.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	36.5	24.5	55.5	689.0	61.5	23.0	42.0	31.5
Merged-chr19-16142668-4	chr19	16142575	16142775	+	970.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	intron (NM_008139, intron 1 of 6)	9844.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	16.0	21.5	9.0	278.0	41.0	13.5	16.5	16.0
Merged-chr13-100837330-3	chr13	100837237	100837437	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3910.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	4.0	16.5	9.0	199.5	21.5	9.5	8.0	18.0
Merged-chr2-80025830-4	chr2	80025746	80025946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	13056.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	103.5	165.5	110.0	1468.5	278.0	108.0	92.0	78.0
Merged-chr14-70775035-4	chr14	70774894	70775094	+	636.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010071, intron 1 of 4)	intron (NM_010071, intron 1 of 4)	613.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	4.5	5.5	9.0	82.0	19.0	3.0	8.0	8.0
Merged-chr16-12032679-4	chr16	12032588	12032788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028277, intron 2 of 4)	intron (NM_028277, intron 2 of 4)	48575.0	NM_001174086	72555.0	Mm.310139	NM_028277	ENSMUSG00000022494	Shisa9	2700045P11Rik|Ckamp44	shisa family member 9	protein-coding	60.0	48.0	83.0	1464.5	195.0	76.0	81.0	62.0
Merged-chr2-178416665-4	chr2	178416568	178416768	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081289, exon 2 of 4)	5' UTR (NM_001081289, exon 2 of 4)	2134.0	NM_001081289	71532.0	Mm.40216	NM_001081289	ENSMUSG00000070476	Fam217b	9030418K01Rik|AI851938	family with sequence similarity 217, member B	protein-coding	29.0	53.0	55.0	959.5	68.0	17.5	39.0	23.5
Merged-chr2-118537445-4	chr2	118537342	118537542	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 3 of 3)	intron (NM_001331221, intron 3 of 3)	7145.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	11.5	15.0	10.0	126.0	32.0	12.5	13.5	10.5
Merged-chr7-45403740-4	chr7	45403656	45403856	+	843.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2204.0	NM_010596	16495.0	Mm.12955	NM_010596	ENSMUSG00000038201	Kcna7	Kv1.7	potassium voltage-gated channel, shaker-related subfamily, member 7	protein-coding	6.0	21.5	11.0	126.0	55.0	13.0	12.5	17.5
Merged-chr3-100439292-4	chr3	100439203	100439403	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12898.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	9.5	26.0	14.0	293.0	87.0	17.5	22.5	32.5
Merged-chr11-58330681-4	chr11	58330571	58330771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161338)	promoter-TSS (NM_001161338)	-36.0	NM_001161338	79566.0	Mm.290534	NM_024480	ENSMUSG00000013646	Sh3bp5l	2310074E09Rik|BC003251|mKIAA1720	SH3 binding domain protein 5 like	protein-coding	99.0	126.5	77.5	1189.0	287.0	69.0	108.0	128.0
Merged-chr10-67536837-4	chr10	67536715	67536915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1054.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	21.0	22.5	20.0	236.5	50.5	23.5	18.5	29.5
Merged-chr10-99263929-3	chr10	99263884	99264084	+	995.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026268, exon 1 of 3)	exon (NM_026268, exon 1 of 3)	753.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	19.5	17.0	8.0	290.0	37.5	12.5	13.0	14.0
Merged-chr11-117727326-4	chr11	117727221	117727421	+	948.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 5 of 21)	intron (NM_198022, intron 5 of 21)	52327.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	8.5	17.5	15.5	351.0	55.5	7.5	17.5	26.5
Merged-chr10-94464977-4	chr10	94464906	94465106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	ID_B1|SINE|B4	-49851.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	22.5	27.5	31.0	621.0	53.0	23.0	31.5	33.0
Merged-chr4-116991589-4	chr4	116991513	116991713	+	820.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009478, intron 7 of 9)	intron (NM_009478, intron 7 of 9)	2800.0	NM_009478	22275.0	Mm.46484	NM_009478	ENSMUSG00000028684	Urod	AI323803|UPD|Uro-d	uroporphyrinogen decarboxylase	protein-coding	6.0	14.5	6.5	91.5	18.0	2.5	5.5	11.0
Merged-chr7-90442286-4	chr7	90442130	90442330	+	831.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145151)	promoter-TSS (NM_145151)	-551.0	NR_073436	233490.0	Mm.29496	NM_145151	ENSMUSG00000051451	Crebzf	1110034C16Rik|6330417B10Rik|LAZip|LAZipII|SMILE|Zf	CREB/ATF bZIP transcription factor	protein-coding	3.0	13.0	7.0	151.5	13.0	8.0	10.5	12.0
Merged-chr7-119720720-4	chr7	119720585	119720785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145585, exon 2 of 5)	exon (NM_145585, exon 2 of 5)	2934.0	NM_145585	233802.0	Mm.26392	NM_145585	ENSMUSG00000030942	Thumpd1	6330575P11Rik	THUMP domain containing 1	protein-coding	40.0	71.0	48.5	597.5	132.5	45.0	55.0	46.0
Merged-chr1-63658253-2	chr1	63658153	63658353	+	730.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081658, intron 10 of 14)	intron (NM_001081658, intron 10 of 14)	28674.0	NM_001081658	241073.0	Mm.297680	NM_001081658	ENSMUSG00000069085	Dytn	Gm215	dystrotelin	protein-coding	6.5	4.5	6.0	51.0	17.5	3.0	3.5	5.5
Merged-chr8-105851962-4	chr8	105851810	105852010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177150)	promoter-TSS (NM_177150)	98.0	NM_177150	320394.0	Mm.334775	NM_177150	ENSMUSG00000036672	Cenpt	G630055P03Rik	centromere protein T	protein-coding	14.5	27.0	13.0	234.0	65.5	24.0	25.0	21.0
Merged-chr13-67778665-3	chr13	67778571	67778771	+	966.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-1022.0	NM_028402	72958.0	Mm.53849	NM_028402	ENSMUSG00000090659	Zfp493	2900054J07Rik|Rslcan12	zinc finger protein 493	protein-coding	0.0	5.0	0.0	20.0	114.0	27.0	50.0	35.0
Merged-chr2-119034850-4	chr2	119034736	119034936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173450)	promoter-TSS (NM_173450)	46.0	NM_173450	271842.0	Mm.33617	NM_173450	ENSMUSG00000027324	Rpusd2	4921503C21Rik|9630001E10|BB231107	RNA pseudouridylate synthase domain containing 2	protein-coding	78.5	109.0	48.5	974.5	205.5	63.0	55.0	70.0
Merged-chr3-84946619-2	chr3	84946519	84946719	+	672.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177774, intron 3 of 12)	intron (NM_001177774, intron 3 of 12)	-5592.0	NM_080428	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	3.5	6.0	2.0	68.5	11.0	8.5	6.0	21.5
Merged-chr2-128128072-4	chr2	128127974	128128174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284410, intron 1 of 3)	CpG-8520	499.0	NM_001284410	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	82.0	117.5	112.0	1420.0	193.5	51.5	66.0	58.5
Merged-chr4-133756868-4	chr4	133756760	133756960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3249.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	59.5	92.5	65.0	556.5	126.5	50.0	50.5	50.5
Merged-chr7-19816464-4	chr7	19816385	19816585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033601, intron 2 of 8)	intron (NM_033601, intron 2 of 8)	6270.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	198.0	307.5	214.0	2417.0	448.5	168.5	199.5	178.0
Merged-chr4-89137631-7	chr4	89137472	89137672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024433, intron 1 of 7)	CpG	202.0	NM_024433	66902.0	Mm.28500	NM_024433	ENSMUSG00000062937	Mtap	1300019I21Rik|MSAP	methylthioadenosine phosphorylase	protein-coding	27.5	34.5	82.0	436.5	52.5	23.0	21.0	31.0
Merged-chr9-41154199-4	chr9	41154094	41154294	+	934.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	3868.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	15.0	28.5	20.5	169.5	52.0	10.0	16.5	13.5
Merged-chr18-62059243-4	chr18	62059156	62059356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106181.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	55.0	108.5	44.5	455.5	87.5	31.5	41.5	32.0
Merged-chr2-66180040-4	chr2	66179935	66180135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55242.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	45.5	51.0	33.0	751.0	86.0	25.5	65.5	51.0
Merged-chr1-87281817-3	chr1	87281703	87281903	+	860.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028889, intron 1 of 3)	intron (NM_028889, intron 1 of 3)	17450.0	NR_151447	98363.0	Mm.247951	NM_028889	ENSMUSG00000026255	Efhd1	4931430I01Rik|AI452351|PP3051|mitocalcin	EF hand domain containing 1	protein-coding	9.0	16.5	15.0	140.5	21.5	8.0	6.5	12.5
Merged-chr17-71182459-4	chr17	71182373	71182573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1059.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	69.0	86.5	58.5	1196.0	168.5	46.0	48.0	56.0
Merged-chr14-70604666-4	chr14	70604585	70604785	+	840.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001252663, exon 14 of 14)	3' UTR (NM_001252663, exon 14 of 14)	-4850.0	NM_194345	239170.0	Mm.247582	NM_194345	ENSMUSG00000022095	Fam160b2	G430067P06Rik|Rai16	family with sequence similarity 160, member B2	protein-coding	6.5	9.0	24.0	142.5	14.0	7.0	9.5	19.0
Merged-chr7-44356563-4	chr7	44356507	44356707	+	880.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034115, intron 24 of 24)	intron (NM_001034115, intron 24 of 24)	18423.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	2.5	16.0	7.5	91.0	22.5	8.5	15.5	12.0
Merged-chr5-96160683-4	chr5	96160568	96160768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144910, intron 1 of 11)	intron (NM_144910, intron 1 of 11)	879.0	NM_001285511	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	29.0	29.5	18.5	577.5	65.0	32.0	36.0	22.5
Merged-chr15-67481906-4	chr15	67481793	67481993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	255124.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	186.0	328.0	149.5	3103.5	436.5	147.5	142.5	165.5
Merged-chr8-73352780-5	chr8	73352726	73352926	+	881.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010687, exon 1 of 15)	5' UTR (NM_010687, exon 1 of 15)	714.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	11.0	20.0	14.5	238.0	21.5	16.5	10.0	13.0
Merged-chr4-63560268-4	chr4	63560214	63560414	+	970.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144905)	promoter-TSS (NM_144905)	87.0	NM_144905	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	20.5	20.0	18.5	355.0	35.5	12.5	14.5	18.0
Merged-chr15-78574442-4	chr15	78574330	78574530	+	926.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_155437)	TTS (NR_155437)	-1647.0	NM_009008	19354.0	Mm.1972	NM_009008	ENSMUSG00000033220	Rac2	AI323801|AI452260	Rac family small GTPase 2	protein-coding	7.0	13.0	8.5	183.0	30.0	7.0	15.5	12.5
Merged-chr2-128058055-4	chr2	128057964	128058164	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 14 of 17)	intron (NM_028765, intron 14 of 17)	-67974.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	22.5	30.0	17.5	219.5	66.5	23.5	29.5	19.0
Merged-chr16-50397103-3	chr16	50396998	50397198	+	765.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	MER5A|DNA|hAT-Charlie	35291.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	6.0	9.0	9.0	97.0	15.5	5.0	2.5	8.0
Merged-chr1-128614676-2	chr1	128614546	128614746	+	909.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22347.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	11.5	9.0	15.0	228.5	15.0	3.5	8.0	16.5
Merged-chr1-95666367-4	chr1	95666276	95666476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 1 of 3)	intron (NM_001159745, intron 1 of 3)	1218.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	42.5	51.5	26.0	636.0	56.0	17.0	35.0	42.0
Merged-chr1-91041795-4	chr1	91041696	91041896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-11648.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	176.0	239.5	210.5	3088.5	360.0	164.0	230.5	181.5
Merged-chr14-32077223-4	chr14	32077168	32077368	+	919.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8018.0	NR_104305	105638.0	Mm.2519	NM_172254	ENSMUSG00000021905	Dph3	DELGIP1|DelgipP1|Desr1|KTI11|Zcsl2	diphthamine biosynthesis 3	protein-coding	9.0	22.0	14.0	86.0	13.0	4.5	6.0	13.5
Merged-chr6-146501598-4	chr6	146501445	146501645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 1 of 56)	intron (NM_019923, intron 1 of 56)	678.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	27.5	27.0	37.0	543.0	81.5	32.5	43.5	40.0
Merged-chr1-74784564-4	chr1	74784468	74784668	+	827.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009526, exon 4 of 4)	exon (NM_009526, exon 4 of 4)	-7451.0	NM_009518	22409.0	Mm.5130	NM_009518	ENSMUSG00000026167	Wnt10a	-	wingless-type MMTV integration site family, member 10A	protein-coding	9.0	16.5	22.0	194.0	34.0	10.5	14.5	21.5
Merged-chr19-5953541-4	chr19	5953454	5953654	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 6 of 17)	intron (NM_001164057, intron 6 of 17)	10652.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	17.5	81.5	26.5	154.5	70.0	35.5	34.5	20.5
Merged-chr3-101924455-4	chr3	101924352	101924552	+	986.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039371)	promoter-TSS (NM_001039371)	1.0	NM_001039371	242126.0	Mm.90204	NM_001039371	ENSMUSG00000033147	Slc22a15	2610034P21Rik|4930477M19|A530052I06Rik|BB219042	solute carrier family 22 (organic anion/cation transporter), member 15	protein-coding	24.5	33.0	19.5	336.0	54.0	15.5	27.5	22.0
Merged-chr6-134087842-3	chr6	134087751	134087951	+	833.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	52151.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	14.0	11.5	29.0	290.5	8.0	0.0	2.0	7.0
Merged-chr8-80325412-4	chr8	80325344	80325544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168601.0	NM_010369	14934.0	Mm.13123	NM_010369	ENSMUSG00000051839	Gypa	AI853584|CD235a|GPA	glycophorin A	protein-coding	97.5	64.5	99.0	1201.0	87.0	52.5	60.0	59.5
Merged-chr6-13069799-4	chr6	13069719	13069919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027992)	promoter-TSS (NM_027992)	60.0	NM_027992	71900.0	Mm.27742	NM_027992	ENSMUSG00000029571	Tmem106b	2310036D22Rik|5830455K21Rik|6430519M21Rik|AI428776|AI661344	transmembrane protein 106B	protein-coding	188.5	220.5	225.5	2983.5	542.0	184.0	232.5	179.0
Merged-chr1-151245407-3	chr1	151245314	151245514	+	690.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99072.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	8.0	13.5	6.5	185.0	15.5	3.0	6.5	13.0
Merged-chr3-8746844-4	chr3	8746757	8746957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79819.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	81.5	102.0	53.0	1150.5	118.0	45.0	59.0	69.0
Merged-chr2-152763565-4	chr2	152763542	152763742	+	845.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053091, intron 4 of 4)	B1_Mm|SINE|Alu	9469.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	9.5	5.0	6.0	91.5	16.0	7.0	3.0	12.0
Merged-chr15-81084045-4	chr15	81083966	81084166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	20981.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	49.5	88.0	88.5	1209.0	75.5	25.0	52.0	53.0
Merged-chr10-81605192-4	chr10	81605105	81605305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1103.0	NR_030677	268319.0	Mm.131825	NM_001033363	ENSMUSG00000074862	BC025920	-	zinc finger protein pseudogene	pseudo	50.0	47.5	33.0	553.5	103.5	38.0	51.0	38.5
Merged-chr9-96119295-4	chr9	96119210	96119410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177352)	promoter-TSS (NM_177352)	-119.0	NM_177352	235533.0	Mm.213651	NM_177352	ENSMUSG00000041440	Gk5	AV095337|C330018K18Rik|G630067D24Rik	glycerol kinase 5 (putative)	protein-coding	200.5	303.5	152.0	2561.0	514.5	179.0	208.5	149.0
Merged-chr6-117917052-4	chr6	117916970	117917170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166427)	promoter-TSS (NM_001166427)	-224.0	NM_001166427	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	68.5	117.0	100.0	1088.5	187.5	73.0	76.0	89.0
Merged-chr7-67222539-4	chr7	67222440	67222640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175215)	promoter-TSS (NM_175215)	-4.0	NR_131043	76628.0	Mm.384589	NR_131043	ENSMUSG00000097527	1700112J16Rik	-	RIKEN cDNA 1700112J16 gene	ncRNA	126.5	191.0	87.5	1579.5	295.0	135.0	174.5	123.0
Merged-chr3-58372615-3	chr3	58372492	58372692	+	892.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42128.0	NM_001081229	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	6.0	19.5	12.5	173.0	8.0	4.0	3.0	3.0
Merged-chr7-123200977-4	chr7	123200859	123201059	+	800.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13907.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	17.5	9.0	10.0	79.0	18.0	9.5	10.5	4.0
Merged-chr12-102469089-4	chr12	102468977	102469177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199004)	promoter-TSS (NM_001199004)	-57.0	NM_001199004	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	269.5	347.0	219.0	3643.0	698.5	322.5	336.5	278.5
Merged-chr2-174473066-4	chr2	174472974	174473174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025531)	promoter-TSS (NM_025531)	-133.0	NM_025531	66390.0	Mm.182294	NM_025531	ENSMUSG00000016257	Prelid3b	2310042G06Rik|AA407013|Slmo2	PRELI domain containing 3B	protein-coding	272.0	417.5	280.5	2889.0	568.0	312.0	348.0	241.0
Merged-chr10-9893719-4	chr10	9893620	9893820	+	793.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	intron (NM_001081344, intron 2 of 25)	7320.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	13.0	19.5	14.0	131.0	29.5	5.5	8.5	2.5
Merged-chr1-91250222-4	chr1	91250113	91250313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355761)	promoter-TSS (NM_001355761)	-91.0	NM_001355763	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	264.5	357.0	248.0	3548.5	641.5	277.5	279.5	206.0
Merged-chr15-55547324-4	chr15	55547230	55547430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026759, intron 3 of 6)	B3|SINE|B2	9982.0	NM_026759	68537.0	Mm.236795	NM_026759	ENSMUSG00000022370	Mrpl13	1110002D09Rik	mitochondrial ribosomal protein L13	protein-coding	37.5	45.5	21.0	565.5	64.0	34.5	31.0	25.0
Merged-chr10-11369977-1	chr10	11369877	11370077	+	650.5	f0_balb.idr	intron (NM_010146, intron 1 of 3)	ORR1G|LTR|ERVL-MaLR	26532.0	NM_010146	13853.0	Mm.89946	NM_010146	ENSMUSG00000055493	Epm2a	TG-B|Tg(TcraK,TcrbK)TG-BFlv	epilepsy, progressive myoclonic epilepsy, type 2 gene alpha	protein-coding	8.5	5.0	9.0	78.0	5.5	7.5	3.0	3.0
Merged-chr17-86937977-4	chr17	86937872	86938072	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9915.0	NM_029121	74915.0	Mm.159369	NM_029121	ENSMUSG00000053375	Atp6v1e2	4930500C14Rik|Atp6e1|E1	ATPase, H+ transporting, lysosomal V1 subunit E2	protein-coding	25.5	44.5	29.5	653.5	64.5	20.5	25.0	19.5
Merged-chr3-109342228-3	chr3	109342109	109342309	+	850.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	intron (NM_020505, intron 1 of 26)	1526.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	5.0	17.5	9.0	217.0	25.5	6.5	5.5	9.0
Merged-chr12-12316912-4	chr12	12316838	12317038	+	971.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 2 of 11)	MLTR14|LTR|ERV1	54799.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	22.0	28.5	24.5	547.0	48.0	12.5	11.0	34.5
Merged-chr6-7857042-3	chr6	7856946	7857146	+	659.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_052993, intron 1 of 3)	RMER20C_Mm|LTR|ERVK	11822.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	9.0	11.5	7.0	143.5	17.0	5.0	8.5	5.5
Merged-chr5-5559553-4	chr5	5559445	5559645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357031)	promoter-TSS (NM_001357031)	-4.0	NM_001357031	207704.0	Mm.323984	NM_153116	ENSMUSG00000040464	Gtpbp10	4930545J22Rik|BC034507	GTP-binding protein 10 (putative)	protein-coding	180.0	209.5	119.5	1720.5	404.5	141.5	187.0	149.0
Merged-chr5-103389605-4	chr5	103389496	103389696	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35596.0	NM_011204	19249.0	Mm.3414	NM_011204	ENSMUSG00000034573	Ptpn13	AI324989|PTP-BL|PTPL1|Ptpri|RIP	protein tyrosine phosphatase, non-receptor type 13	protein-coding	31.5	28.0	32.0	395.0	39.5	16.5	18.0	12.5
Merged-chr12-8674134-4	chr12	8674004	8674204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160219)	promoter-TSS (NM_001160219)	-30.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	124.0	230.0	108.5	2179.0	358.0	135.0	178.5	141.5
Merged-chr5-99293977-4	chr5	99293869	99294069	+	818.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41042.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	8.0	14.5	12.5	144.5	31.0	9.5	18.5	10.0
Merged-chr1-143988924-4	chr1	143988801	143989001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	15248.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	42.5	39.0	55.0	1139.5	72.0	23.5	33.5	40.5
Merged-chr2-125280839-3	chr2	125280739	125280939	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33324.0	NM_023595	110074.0	Mm.282499	NM_023595	ENSMUSG00000027203	Dut	5031412I06Rik|5133400F09Rik|D2Bwg0749e|Dutp|dUTPase	deoxyuridine triphosphatase	protein-coding	8.0	7.5	13.0	138.5	13.0	0.0	3.5	4.0
Merged-chr17-5445588-4	chr17	5445498	5445698	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5338.0	NM_027457	70544.0	Mm.46654	NM_027457	ENSMUSG00000004945	Tmem242	1110008A10Rik|2310046K16Rik|5730437N04Rik	transmembrane protein 242	protein-coding	18.0	27.5	18.5	470.0	43.0	18.5	14.5	16.5
Merged-chr12-8889452-4	chr12	8889358	8889558	+	955.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31849.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	14.5	17.5	11.0	225.5	42.5	12.5	24.0	13.0
Merged-chr6-128446279-4	chr6	128446178	128446378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028593, intron 2 of 4)	intron (NR_028593, intron 2 of 4)	7521.0	NR_028593	791299.0	Mm.297516	NR_028592	ENSMUSG00000059659	Gm10069	-	predicted gene 10069	ncRNA	24.5	20.5	28.5	259.5	63.0	20.0	35.5	22.5
Merged-chr11-78261576-4	chr11	78261454	78261654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002004)	promoter-TSS (NM_001002004)	-200.0	NM_001002004	72503.0	Mm.237103	NM_001002004	ENSMUSG00000010277	2610507B11Rik	AU022687|D11Bhm178e|D11Bhm179e|E1|Kiaa0100|mKIAA0100	RIKEN cDNA 2610507B11 gene	protein-coding	135.0	171.0	91.5	1277.0	277.5	122.5	120.0	132.0
Merged-chr14-36953362-3	chr14	36953287	36953487	+	885.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027045, intron 1 of 10)	Lx9|LINE|L1	-12123.0	NM_001347502	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	9.5	16.5	4.0	117.0	36.0	4.5	5.5	8.0
Merged-chr2-145888166-4	chr2	145888067	145888267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028724)	TTS (NM_028724)	-15074.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	41.0	39.5	49.0	1012.5	76.0	40.5	53.5	47.5
Merged-chr9-85328547-4	chr9	85328455	85328655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1405.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	44.0	76.5	37.0	864.0	158.0	62.0	60.0	61.0
Merged-chr15-25563896-4	chr15	25563792	25563992	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58658.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	14.0	40.5	12.0	68.0	55.5	27.5	11.0	11.5
Merged-chr4-45011728-4	chr4	45011622	45011822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001163284, exon 1 of 2)	5' UTR (NM_001163284, exon 1 of 2)	690.0	NM_001163284	230119.0	Mm.44222	NM_173399	ENSMUSG00000049657	Zbtb5	5930421I10|9430083K24Rik|AI646847|mKIAA0354	zinc finger and BTB domain containing 5	protein-coding	54.0	92.0	31.5	729.0	207.0	56.0	79.0	48.5
Merged-chr19-7583372-4	chr19	7583260	7583460	+	913.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362425, intron 4 of 4)	intron (NM_001362425, intron 4 of 4)	23833.0	NM_001356574	56072.0	Mm.298242	NM_019516	ENSMUSG00000024972	Lgals12	Grip1|gal-12	lectin, galactose binding, soluble 12	protein-coding	33.0	19.0	22.0	395.0	30.0	6.5	21.0	13.0
Merged-chr19-59345881-4	chr19	59345790	59345990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033222)	promoter-TSS (NM_001033222)	-110.0	NM_001033222	107368.0	Mm.27250	NM_001033222	ENSMUSG00000074746	Pdzd8	A630041P07Rik|AV329468|AW228944|Pdzk8	PDZ domain containing 8	protein-coding	76.0	98.0	65.5	1049.0	171.5	67.0	86.5	58.0
Merged-chr9-78428369-4	chr9	78428265	78428465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14872.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	57.0	70.5	54.5	1007.0	122.5	44.5	58.0	59.0
Merged-chr5-101999240-4	chr5	101999170	101999370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	70651.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	97.0	121.5	109.5	1791.5	109.5	49.5	45.0	50.0
Merged-chr17-25116056-4	chr17	25115926	25116126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163661)	promoter-TSS (NM_001163661)	-59.0	NM_001163661	71718.0	Mm.288702	NM_027880	ENSMUSG00000024170	Telo2	1200003M09Rik|AI415602|Tel2|mKIAA0683	telomere maintenance 2	protein-coding	160.5	296.0	115.0	1563.0	93.5	60.5	44.0	50.0
Merged-chr4-15958248-7	chr4	15958104	15958304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013752, intron 1 of 15)	CpG	237.0	NM_013752	27354.0	Mm.20866	NM_013752	ENSMUSG00000028224	Nbn	Nbs1	nibrin	protein-coding	125.5	179.5	138.5	1985.0	383.5	162.0	201.0	168.0
Merged-chr9-13518164-4	chr9	13518066	13518266	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86805.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	38.5	43.0	46.5	732.5	58.0	17.5	25.5	22.0
Merged-chr5-53194621-4	chr5	53194527	53194727	+	917.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172710, intron 2 of 23)	intron (NM_172710, intron 2 of 23)	18825.0	NM_172710	231238.0	Mm.235020	NM_172710	ENSMUSG00000029189	Sel1l3	2310045A20Rik|AI429585|mKIAA0746	sel-1 suppressor of lin-12-like 3 (C. elegans)	protein-coding	21.5	13.0	21.5	348.5	29.5	11.5	9.5	17.5
Merged-chr4-127126048-4	chr4	127125949	127126149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099319)	promoter-TSS (NM_001099319)	6.0	NM_001099319	100039968.0	Mm.392655	NM_001099319	ENSMUSG00000070737	Tmem35b	Gm12942|Zmym6nb	transmembrane protein 35B	protein-coding	59.0	48.5	29.0	547.5	108.5	53.5	37.5	44.0
Merged-chr9-65741139-3	chr9	65741037	65741237	+	937.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172536, intron 2 of 9)	intron (NM_172536, intron 2 of 9)	64589.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	13.0	20.0	10.5	254.5	1.0	1.5	1.5	0.0
Merged-chr13-60358901-4	chr13	60358799	60358999	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153428.0	NR_036449	100503759.0	Mm.38101	NM_177810	ENSMUSG00000050765	Gm5084	A030007L22|EG328264	predicted gene 5084	ncRNA	28.5	63.0	32.5	465.0	64.0	19.5	15.0	17.0
Merged-chr10-79850138-3	chr10	79850030	79850230	+	860.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	L1MB8|LINE|L1	-4302.0	NM_001077363	19205.0	Mm.265610	NM_008956	ENSMUSG00000006498	Ptbp1	AA407203|AL033359|HNRPI|PTB-1|PTB2|PTB3|PTB4|Ptb|pPTB	polypyrimidine tract binding protein 1	protein-coding	15.0	12.0	12.5	57.0	17.5	6.0	6.5	11.0
Merged-chr7-4073426-4	chr7	4073317	4073517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033568)	TTS (NR_033568)	-10213.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	40.5	36.5	27.0	623.0	72.5	25.0	30.0	36.0
Merged-chr7-13054405-4	chr7	13054282	13054482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145819, intron 1 of 5)	CpG	382.0	NM_001290452	109889.0	Mm.10103	NM_145819	ENSMUSG00000030380	Mzf1	Mzf-2|Mzf2|Zfp121|Zfp98|Znf42	myeloid zinc finger 1	protein-coding	50.0	76.0	48.5	771.0	176.0	54.0	67.0	59.5
Merged-chr5-3491392-4	chr5	3491254	3491454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-52479.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	53.5	76.0	58.0	622.0	104.0	40.5	51.0	26.0
Merged-chr5-144254961-7	chr5	144254811	144255011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018772)	promoter-TSS (NM_018772)	-314.0	NM_018772	55950.0	Mm.38011	NM_018772	ENSMUSG00000047843	Bri3	I3	brain protein I3	protein-coding	12.5	19.0	6.5	104.0	32.5	17.0	14.5	21.0
Merged-chr5-139294318-4	chr5	139294212	139294412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 3 of 10)	intron (NM_172723, intron 3 of 10)	31152.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	23.5	80.5	18.5	203.0	116.0	33.0	32.0	20.5
Merged-chr10-81350570-4	chr10	81350466	81350666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010440)	promoter-TSS (NM_010440)	-109.0	NM_001163166	15353.0	Mm.38474	NM_010440	ENSMUSG00000020232	Hmg20b	AW610687|BRAF35|Hmgx2|Hmgxb2|Smarce1r	high mobility group 20B	protein-coding	250.5	357.0	244.5	3409.0	554.5	237.5	258.0	163.0
Merged-chr1-170998419-4	chr1	170998304	170998504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20522.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	187.0	218.5	197.0	3515.0	462.5	148.5	227.0	182.0
Merged-chr5-102030064-4	chr5	102029970	102030170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	39851.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	27.5	29.5	29.5	537.5	65.5	19.5	31.0	37.0
Merged-chr7-43423228-4	chr7	43423129	43423329	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6872.0	NM_177693	233187.0	Mm.267027	NM_177693	ENSMUSG00000093639	Lim2	19kDa|4833403J20|MP19|To3	lens intrinsic membrane protein 2	protein-coding	40.0	39.0	36.0	391.0	57.5	16.5	24.0	19.5
Merged-chr12-3420684-4	chr12	3420578	3420778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030694, intron 1 of 2)	intron (NR_030694, intron 1 of 2)	6069.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	20.0	25.5	24.0	330.5	65.0	7.0	23.0	28.0
Merged-chr2-164822941-4	chr2	164822838	164823038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178375)	TTS (NM_178375)	252.0	NM_028028	71971.0	Mm.161149	NM_028028	ENSMUSG00000017764	Zswim1	2410003H12Rik|AI850991|BB046916	zinc finger SWIM-type containing 1	protein-coding	184.0	261.0	138.0	2114.5	534.5	160.5	199.5	163.0
Merged-chr1-7395713-4	chr1	7395599	7395799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	306779.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	110.0	174.5	106.5	1304.0	250.0	108.0	104.0	134.0
Merged-chr2-34418559-2	chr2	34418459	34418659	+	914.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290626, intron 1 of 10)	L1MB7|LINE|L1	11708.0	NM_001290626	227743.0	Mm.270866	NM_177345	ENSMUSG00000038696	Mapkap1	AI591529|D230039K05Rik|Sin1	mitogen-activated protein kinase associated protein 1	protein-coding	3.5	4.5	6.0	54.0	6.5	4.5	8.0	18.0
Merged-chr1-128044419-4	chr1	128044366	128044566	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 3 of 20)	intron (NM_001285945, intron 3 of 20)	58005.0	NM_027678	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	9.5	21.5	10.5	196.0	15.0	14.0	19.0	13.0
Merged-chr7-80154920-4	chr7	80154790	80154990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-31951.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	33.5	47.5	24.5	371.5	65.0	25.0	11.0	21.5
Merged-chr5-29993793-4	chr5	29993692	29993892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19322.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	19.5	47.0	27.0	306.5	95.5	39.5	38.5	22.5
Merged-chr11-80154031-4	chr11	80153941	80154141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172133)	promoter-TSS (NM_172133)	-121.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	140.0	173.0	94.5	1571.0	318.0	106.5	117.0	98.0
Merged-chr12-85284425-4	chr12	85284327	85284527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3992.0	NM_025421	66204.0	Mm.311985	NM_025421	ENSMUSG00000008822	Acyp1	1110039O14Rik|AI325944	acylphosphatase 1, erythrocyte (common) type	protein-coding	41.0	72.0	67.5	913.5	102.5	44.0	59.5	36.5
Merged-chr19-32779338-4	chr19	32779222	32779422	+	917.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 2 of 8)	intron (NM_008960, intron 2 of 8)	21745.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	23.0	20.0	26.0	371.5	54.5	18.0	19.0	20.5
Merged-chr5-33782351-1	chr5	33782251	33782451	+	1000.0	f0_balb.idr	intron (NM_019694, intron 1 of 13)	CpG	353.0	NM_019694	56384.0	Mm.260538	NM_019694	ENSMUSG00000005299	Letm1	-	leucine zipper-EF-hand containing transmembrane protein 1	protein-coding	18.0	24.5	7.5	216.0	36.0	18.0	15.5	21.0
Merged-chr1-84422018-2	chr1	84421918	84422118	+	732.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 8 of 12)	MTC|LTR|ERVL-MaLR	-137373.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	4.5	5.0	5.5	88.0	10.5	7.0	13.0	4.5
Merged-chr4-134005131-4	chr4	134005030	134005230	+	862.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145833, exon 4 of 4)	3' UTR (NM_145833, exon 4 of 4)	-4266.0	NM_026144	67422.0	Mm.100290	NM_026144	ENSMUSG00000012117	Dhdds	3222401G21Rik|CIT|DS|HDS|W91638	dehydrodolichyl diphosphate synthase	protein-coding	17.0	24.0	20.0	26.0	25.0	9.5	10.0	10.0
Merged-chr13-119805856-4	chr13	119805748	119805948	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-14726.0	NM_001302550	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	29.5	25.5	38.5	309.5	31.5	14.0	28.5	11.0
Merged-chr11-80355008-4	chr11	80354893	80355093	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_139228, exon 9 of 9)	3' UTR (NM_139228, exon 9 of 9)	23022.0	NM_027472	70591.0	Mm.86860	NM_027472	ENSMUSG00000057181	5730455P16Rik	-	RIKEN cDNA 5730455P16 gene	protein-coding	18.0	22.0	7.0	168.5	74.0	20.5	15.5	9.0
Merged-chr7-4527340-2	chr7	4527240	4527440	+	673.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033548, intron 6 of 11)	intron (NM_001033548, intron 6 of 11)	-4812.0	NM_009406	21954.0	Mm.27674	NM_009406	ENSMUSG00000035458	Tnni3	Tn1|cTnI	troponin I, cardiac 3	protein-coding	5.0	5.5	7.0	9.0	5.5	2.0	3.0	8.0
Merged-chr4-129928656-3	chr4	129928565	129928765	+	955.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22439.0	NR_045190	319894.0	Mm.59196	NR_045190	ENSMUSG00000086369	E330017L17Rik	-	RIKEN cDNA E330017L17 gene	ncRNA	7.5	12.0	6.5	81.0	45.0	11.5	5.5	8.5
Merged-chr10-6717749-4	chr10	6717675	6717875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-40818.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	61.5	115.0	90.0	1580.0	213.0	63.5	90.5	78.0
Merged-chr6-91473974-1	chr6	91473874	91474074	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_133928)	promoter-TSS (NM_133928)	223.0	NM_028766	74122.0	Mm.38801	NM_028766	ENSMUSG00000030095	Tmem43	1200015A22Rik|LUMA	transmembrane protein 43	protein-coding	14.0	22.5	29.5	194.0	39.5	23.5	20.5	32.5
Merged-chr12-111172932-2	chr12	111172832	111173032	+	968.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286122, intron 1 of 9)	intron (NM_001286122, intron 1 of 9)	6562.0	NM_011632	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	9.0	21.0	4.5	76.0	34.5	6.5	6.5	4.0
Merged-chr11-77372518-6	chr11	77372449	77372649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 1 of 13)	intron (NM_001291190, intron 1 of 13)	24269.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	15.0	18.5	14.0	393.5	56.5	23.5	21.0	33.0
Merged-chr10-69222173-4	chr10	69222077	69222277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252638, intron 2 of 11)	MTC|LTR|ERVL-MaLR	8983.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	43.0	31.0	20.0	641.5	78.5	28.0	34.5	29.0
Merged-chr16-36795079-1	chr16	36794979	36795179	+	784.5	f0_balb.idr	intron (NM_134111, intron 5 of 5)	intron (NM_134111, intron 5 of 5)	-10117.0	NM_021301	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	10.5	11.0	5.0	109.0	14.5	2.5	1.5	4.0
Merged-chr6-124512570-2	chr6	124512470	124512670	+	667.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023143)	promoter-TSS (NM_023143)	-51.0	NM_023143	50909.0	Mm.333375	NM_023143	ENSMUSG00000055172	C1ra	AI132558|C1r|mC1rA	complement component 1, r subcomponent A	protein-coding	4.5	13.0	7.0	37.0	11.0	5.0	2.5	8.0
Merged-chr4-135920659-4	chr4	135920573	135920773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024243)	promoter-TSS (NM_024243)	-53.0	NM_024243	71665.0	Mm.439940	NM_024243	ENSMUSG00000028673	Fuca1	0610006A03Rik|9530055J05Rik|Afuc|Fuca	fucosidase, alpha-L- 1, tissue	protein-coding	58.0	37.5	28.5	491.0	113.5	36.0	51.5	55.0
Merged-chr1-85109457-2	chr1	85109326	85109526	+	676.416626	f0_balb.idr|f1_balb.idr	5' UTR (NM_213615, exon 1 of 7)	5' UTR (NM_213615, exon 1 of 7)	427.0	NM_213615	381287.0	Mm.487565	NM_213615	ENSMUSG00000089844	A530032D15Rik	Gm1888	RIKEN cDNA A530032D15Rik gene	protein-coding	8.5	14.0	4.5	58.5	4.0	2.0	2.0	0.5
Merged-chr1-181881772-4	chr1	181881695	181881895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39394.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	42.0	43.5	33.0	717.5	96.0	35.5	29.0	32.0
Merged-chr10-78149291-4	chr10	78149194	78149394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	UCON26|Unknown|Unknown	20474.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	94.0	146.0	66.0	1094.5	215.0	87.5	80.0	82.0
Merged-chr7-122260296-4	chr7	122260197	122260397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-28828.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	61.5	102.5	66.5	936.0	159.0	35.0	50.0	46.5
Merged-chr2-157156343-4	chr2	157156236	157156436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011249, intron 19 of 21)	CT-rich|Low_complexity|Low_complexity	-21114.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	23.5	37.5	27.5	349.0	52.0	19.5	28.0	27.5
Merged-chr17-33815589-3	chr17	33815476	33815676	+	984.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030697, intron 1 of 10)	B2_Mm1a|SINE|B2	5053.0	NM_030697	80880.0	Mm.196330	NM_030697	ENSMUSG00000042099	Kank3	0610013D04Rik|Ankrd47|D17Ertd288e|NG28	KN motif and ankyrin repeat domains 3	protein-coding	36.5	33.0	15.0	254.0	5.5	3.5	0.5	0.5
Merged-chr1-60565559-2	chr1	60565459	60565659	+	705.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001045513, intron 1 of 13)	intron (NM_001045513, intron 1 of 13)	1206.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	5.0	7.0	6.0	14.5	10.5	3.0	2.0	2.0
Merged-chr10-117825067-4	chr10	117824955	117825155	+	814.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	20919.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	23.5	22.5	13.0	194.0	32.5	11.5	12.5	14.5
Merged-chr1-62720359-4	chr1	62720205	62720405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	16988.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	26.5	57.5	40.5	501.0	84.5	43.0	40.5	36.5
Merged-chr19-53944667-4	chr19	53944568	53944768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195338)	promoter-TSS (NM_001195338)	-41.0	NM_001195338	100503572.0	Mm.375091	NM_001195338	ENSMUSG00000084957	Bbip1	2310002J21Rik|2610002B11Rik|4930560M04Rik|Ncrna00081	BBSome interacting protein 1	protein-coding	396.5	527.0	371.5	5178.5	813.5	421.5	430.5	358.5
Merged-chr1-74387034-4	chr1	74386931	74387131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013612)	TTS (NM_013612)	-4578.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	138.5	231.5	147.5	1948.0	385.5	165.5	183.0	147.0
Merged-chr2-165286581-4	chr2	165286471	165286671	+	965.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252575, intron 1 of 9)	intron (NM_001252575, intron 1 of 9)	1216.0	NM_001252574	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	42.0	34.0	18.0	391.0	43.0	14.0	18.0	20.0
Merged-chr2-167219562-4	chr2	167219490	167219690	+	649.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008968, intron 5 of 9)	intron (NM_008968, intron 5 of 9)	20947.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	8.5	11.0	1.5	68.0	23.5	7.0	7.0	11.0
Merged-chr9-124275208-4	chr9	124275098	124275298	+	878.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37496.0	NM_001243118	630836.0	Mm.458553	NM_001243117	ENSMUSG00000074829	2010315B03Rik	BC029716	RIKEN cDNA 2010315B03 gene	protein-coding	21.5	32.5	4.5	180.0	79.5	36.5	19.0	40.5
Merged-chr11-94994441-3	chr11	94994338	94994538	+	632.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172261, intron 1 of 9)	intron (NM_172261, intron 1 of 9)	3226.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	8.5	8.0	21.0	105.5	15.0	2.0	10.5	11.5
Merged-chr16-43454696-2	chr16	43454596	43454796	+	880.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	-34500.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	10.0	11.5	8.0	32.0	7.0	5.5	1.0	3.5
Merged-chr7-142390387-4	chr7	142390255	142390455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-2485.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	130.0	197.0	134.0	1610.0	218.5	77.0	72.0	79.5
Merged-chr11-103264683-3	chr11	103264605	103264805	+	956.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	2696.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	4.0	11.0	14.5	142.0	16.0	6.5	6.0	9.5
Merged-chr11-106200957-2	chr11	106200857	106201057	+	753.333313	f1_balb.idr|f1_c57bl6.idr	exon (NM_026009, exon 13 of 13)	exon (NM_026009, exon 13 of 13)	-7354.0	NM_001252449	72149.0	Mm.403722	NM_028126	ENSMUSG00000069631	Strada	2610019A05Rik|6030402H20Rik|AI480680|E130112C09Rik	STE20-related kinase adaptor alpha	protein-coding	9.0	1.5	4.0	63.0	15.5	7.5	5.0	4.5
Merged-chr4-11454527-3	chr4	11454422	11454622	+	880.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31436.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	7.0	7.5	7.5	118.5	20.0	6.5	2.5	3.0
Merged-chr10-75288774-4	chr10	75288665	75288865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 13 of 15)	intron (NM_153406, intron 13 of 15)	-28112.0	NM_009630	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	48.0	49.5	39.0	616.5	69.0	31.5	53.5	37.0
Merged-chr11-16977737-3	chr11	16977635	16977835	+	831.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 9 of 9)	ORR1G|LTR|ERVL-MaLR	26325.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	6.0	22.5	10.0	232.0	9.5	1.5	0.5	2.5
Merged-chr9-32211277-1	chr9	32211177	32211377	+	588.0	f0_balb.idr	intron (NM_001195632, intron 10 of 21)	MTC|LTR|ERVL-MaLR	-12972.0	NM_177379	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	9.5	1.5	0.5	90.5	9.0	4.5	8.5	17.5
Merged-chr13-9173597-4	chr13	9173500	9173700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311117, exon 17 of 17)	3' UTR (NM_001311117, exon 17 of 17)	79719.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	59.0	106.0	72.0	1213.0	156.0	51.5	50.5	60.5
Merged-chr7-102153859-3	chr7	102153768	102153968	+	813.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022979, exon 16 of 23)	exon (NM_022979, exon 16 of 23)	-37155.0	NM_001081424	504186.0	Mm.334074	NM_001081424	ENSMUSG00000066279	Chrna10	-	cholinergic receptor, nicotinic, alpha polypeptide 10	protein-coding	14.0	8.5	7.0	166.5	17.0	7.0	6.5	12.0
Merged-chr9-41162608-4	chr9	41162493	41162693	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-4531.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	12.0	35.0	11.5	156.0	87.0	19.0	31.5	14.5
Merged-chr17-56264224-4	chr17	56264137	56264337	+	929.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010192)	TTS (NM_010192)	7444.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	16.5	34.0	6.0	152.5	63.5	20.0	12.5	12.0
Merged-chr2-155082538-6	chr2	155082468	155082668	+	784.972229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8071.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	5.5	8.5	6.0	116.5	29.0	4.5	15.0	20.0
Merged-chr10-40847400-4	chr10	40847296	40847496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027879, intron 7 of 14)	intron (NM_027879, intron 7 of 14)	35747.0	NM_027879	71713.0	Mm.46063	NM_027879	ENSMUSG00000038446	Cdc40	1200003H23Rik|EHB3|PRP17	cell division cycle 40	protein-coding	43.0	40.5	77.0	1103.0	79.0	25.0	57.5	46.0
Merged-chr12-99562502-4	chr12	99562393	99562593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1348.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	35.0	32.5	30.5	396.0	45.0	24.0	29.5	15.5
Merged-chr15-73727579-1	chr15	73727479	73727679	+	801.0	f0_balb.idr	intron (NM_001166388, intron 1 of 5)	intron (NM_001166388, intron 1 of 5)	2649.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	3.0	14.5	5.0	137.0	8.0	6.0	7.0	5.0
Merged-chr1-75398894-4	chr1	75398795	75398995	+	972.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085370, intron 4 of 38)	intron (NM_001085370, intron 4 of 38)	-1190.0	NM_001173477	11790.0	Mm.275397	NM_007463	ENSMUSG00000026207	Speg	AW125581|Apeg1|BPEG|D1Bwg1450e|SPEGalpha|SPEGbeta|mKIAA1297	SPEG complex locus	protein-coding	25.5	39.5	18.0	403.5	41.0	22.5	18.0	30.0
Merged-chr4-89282327-4	chr4	89282280	89282480	+	903.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040654)	promoter-TSS (NM_001040654)	-188.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	10.5	7.5	14.0	135.5	15.5	5.5	9.0	11.5
Merged-chr6-129049287-4	chr6	129049197	129049397	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_024263, intron 1 of 4)	intron (NR_024263, intron 1 of 4)	3396.0	NM_153094	232408.0	Mm.259262	NM_153094	ENSMUSG00000030154	Klrb1f	A630024B12Rik|Nkr-p1f|Nkrp1-f|Nkrp1f	killer cell lectin-like receptor subfamily B member 1F	protein-coding	22.5	50.0	26.5	530.5	44.0	17.5	18.0	22.5
Merged-chr1-43322263-4	chr1	43322146	43322346	+	927.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-123505.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	15.0	20.5	21.5	135.0	58.0	24.5	15.5	12.0
Merged-chr10-40435569-4	chr10	40435462	40435662	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198164, intron 3 of 11)	intron (NM_198164, intron 3 of 11)	86254.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	22.5	57.5	13.5	333.5	54.0	21.5	8.5	14.5
Merged-chr2-45840598-3	chr2	45840497	45840697	+	876.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143992.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	7.5	8.0	9.0	132.5	15.5	8.5	14.0	9.0
Merged-chr18-60915932-4	chr18	60915828	60916028	+	794.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038499, intron 1 of 1)	MIR|SINE|MIR	3688.0	NM_001038499	545260.0	Mm.20147	NM_001038499	ENSMUSG00000036412	Arsi	BC020108	arylsulfatase i	protein-coding	8.5	10.0	15.0	179.5	24.5	4.5	6.5	15.0
Merged-chr17-81581396-3	chr17	81581271	81581471	+	725.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	L2|LINE|L2	157016.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	6.5	4.5	5.0	86.5	27.0	2.5	2.5	8.0
Merged-chr10-17406588-3	chr10	17406526	17406726	+	697.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTG)n|Simple_repeat|Simple_repeat	-310844.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	8.5	12.0	5.0	38.5	6.5	1.0	2.0	3.0
Merged-chr6-148530467-1	chr6	148530367	148530567	+	591.0	f1_balb.idr	Intergenic	Intergenic	83842.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	4.5	8.0	5.0	59.5	9.5	4.0	6.5	2.0
Merged-chr9-53254542-2	chr9	53254442	53254642	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6430.0	NM_029936	77591.0	Mm.133560	NM_029936	ENSMUSG00000053289	Ddx10	4632415A01Rik|AI646054	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	protein-coding	7.0	8.0	2.0	116.0	15.5	6.0	8.0	4.5
Merged-chr15-73634935-2	chr15	73634835	73635035	+	862.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10191.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	4.5	7.5	5.0	73.5	20.5	2.0	4.0	7.5
Merged-chr10-125317570-4	chr10	125317467	125317667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 1 of 5)	intron (NM_001358496, intron 1 of 5)	-8751.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	98.0	112.0	148.0	2935.0	215.5	72.5	166.0	118.0
Merged-chr5-97962037-3	chr5	97961939	97962139	+	981.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133738, intron 11 of 16)	intron (NM_133738, intron 11 of 16)	68923.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	9.5	19.0	20.5	251.5	5.0	2.0	8.0	7.0
Merged-chr17-87561128-4	chr17	87561030	87561230	+	801.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74849.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	13.0	6.5	7.0	114.5	35.0	4.5	9.5	6.5
Merged-chr6-86570965-4	chr6	86570879	86571079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43578.0	NR_037961	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	39.0	77.5	39.5	312.5	38.5	28.0	21.0	18.0
Merged-chr6-33249050-4	chr6	33248951	33249151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009148)	promoter-TSS (NM_009148)	-77.0	NM_009148	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	228.5	228.5	200.5	3831.0	557.0	155.0	254.0	210.0
Merged-chr11-73084523-3	chr11	73084420	73084620	+	957.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025818)	TTS (NM_025818)	-6063.0	NM_001361245	16407.0	Mm.96	NM_008399	ENSMUSG00000005947	Itgae	A530055J10|CD103|aM290|alpha-E1|alpha-M290	integrin alpha E, epithelial-associated	protein-coding	17.0	17.0	11.0	209.0	17.0	2.5	0.5	5.5
Merged-chr9-77924002-4	chr9	77923903	77924103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 1 of 7)	intron (NM_134255, intron 1 of 7)	6638.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	110.0	119.0	53.5	1203.5	225.5	64.0	99.0	88.5
Merged-chr5-123076281-4	chr5	123076166	123076366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039723)	promoter-TSS (NM_001039723)	-9.0	NM_001039723	330189.0	Mm.391872	NM_001039723	ENSMUSG00000054434	Tmem120b	-	transmembrane protein 120B	protein-coding	77.5	123.5	77.5	1095.0	275.0	86.0	117.5	83.0
Merged-chr6-71980658-3	chr6	71980546	71980746	+	916.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61882.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	9.0	10.0	8.0	346.5	12.5	6.0	12.5	7.5
Merged-chr4-34882399-1	chr4	34882299	34882499	+	1000.0	f0_balb.idr	intron (NM_013889, intron 1 of 7)	CpG	549.0	NM_013889	30046.0	Mm.38193	NM_013889	ENSMUSG00000039967	Zfp292	5730450D02Rik|5830493J20Rik|9430062L07Rik|AI449016|Krox-10|Zfp-15|Zfp15|Zn-15|Zn-16|mKIAA0530	zinc finger protein 292	protein-coding	13.5	13.5	15.5	161.5	26.5	5.5	7.0	11.0
Merged-chr10-81298068-4	chr10	81297978	81298178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	intron (NM_001293647, intron 1 of 17)	5115.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	117.5	167.5	92.5	1835.0	291.5	98.0	136.0	105.0
Merged-chr6-85937039-4	chr6	85936920	85937120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	21049.0	NM_001362065	69786.0	Mm.218434	NM_176842	ENSMUSG00000054226	Tprkb	0610033G21Rik|1810034M08Rik|Cgi-121|DRWMS1|mDRWMS1	Tp53rk binding protein	protein-coding	44.5	80.5	69.0	577.5	122.0	48.0	49.0	57.5
Merged-chr2-71529708-4	chr2	71529593	71529793	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_002854)	TTS (NR_002854)	248.0	NM_010053	13390.0	Mm.475101	NM_010053	ENSMUSG00000041911	Dlx1	Dlx|Dlx-1	distal-less homeobox 1	protein-coding	21.0	42.0	20.0	397.5	41.5	15.5	31.0	15.5
Merged-chr16-32079305-4	chr16	32079190	32079390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177326)	promoter-TSS (NM_177326)	52.0	NM_177326	224105.0	Mm.234204	NM_177326	ENSMUSG00000022781	Pak2	5330420P17Rik|A130002K10Rik|AI836325|D16Ertd269e|PAK-2|mKIAA4182	p21 (RAC1) activated kinase 2	protein-coding	122.0	195.0	146.0	1454.0	276.5	102.0	116.5	126.0
Merged-chr8-46934388-4	chr8	46934284	46934484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52503.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	52.0	61.5	38.5	583.5	100.5	49.0	42.5	45.0
Merged-chr11-85234607-3	chr11	85234502	85234702	+	978.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028329)	promoter-TSS (NR_028329)	518.0	NM_025825	66884.0	Mm.271997	NM_025825	ENSMUSG00000018481	Appbp2	1300003O07Rik|AI465480|PAT1	amyloid beta precursor protein (cytoplasmic tail) binding protein 2	protein-coding	28.0	24.0	27.0	118.5	32.0	19.0	16.0	27.5
Merged-chr5-151344952-4	chr5	151344872	151345072	+	832.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23703.0	NR_045700	625175.0	Mm.443286	NR_045699	ENSMUSG00000097321	1700028E10Rik	A630054D14|Gm6561	RIKEN cDNA 1700028E10 gene	ncRNA	4.5	10.0	2.5	162.5	22.0	11.0	8.5	15.0
Merged-chr9-7857325-2	chr9	7857225	7857425	+	715.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_007464, intron 5 of 8)	intron (NM_007464, intron 5 of 8)	15845.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	4.5	1.0	3.5	84.5	14.0	6.5	14.0	6.0
Merged-chr2-127086387-4	chr2	127086267	127086467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 4 of 7)	B2_Mm2|SINE|B2	15710.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	48.5	88.0	69.0	875.5	150.5	55.5	72.5	72.0
Merged-chr11-74832949-4	chr11	74832869	74833069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010813, intron 1 of 5)	intron (NM_010813, intron 1 of 5)	2045.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	103.5	152.0	95.5	1325.5	211.0	87.5	86.5	82.0
Merged-chr15-90323443-4	chr15	90323391	90323591	+	965.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-30219.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	24.5	13.5	13.5	342.0	16.5	5.0	7.0	15.5
Merged-chr7-139220501-4	chr7	139220399	139220599	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143755, intron 4 of 8)	intron (NM_001143755, intron 4 of 8)	-7192.0	NM_001162540	57740.0	Mm.65336	NM_021302	ENSMUSG00000015981	Stk32c	PKE|Pkek|YANK3	serine/threonine kinase 32C	protein-coding	7.0	16.5	8.0	182.0	54.5	16.0	45.0	38.0
Merged-chr9-21453189-4	chr9	21453098	21453298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357721, intron 1 of 19)	intron (NM_001357721, intron 1 of 19)	28290.0	NM_001357719	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	74.0	83.5	65.5	889.5	165.5	64.0	45.0	85.5
Merged-chr5-86118797-4	chr5	86118687	86118887	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172712, intron 31 of 32)	URR1B|DNA|hAT-Charlie	47041.0	NM_001310639	56792.0	Mm.131237	NM_019992	ENSMUSG00000029254	Stap1	AI586015|Brdg1|STAP-1	signal transducing adaptor family member 1	protein-coding	21.0	21.5	21.5	254.0	48.0	26.5	13.5	21.0
Merged-chr15-90679423-4	chr15	90679346	90679546	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025815)	promoter-TSS (NM_025815)	-58.0	NM_001357979	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	34.0	55.0	36.0	620.5	49.0	21.0	24.5	17.5
Merged-chr14-14345713-4	chr14	14345602	14345802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008369)	promoter-TSS (NM_008369)	-793.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	186.5	317.0	203.5	2858.5	595.5	233.0	265.0	315.5
Merged-chr10-61199765-4	chr10	61199651	61199851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081127, intron 21 of 21)	intron (NM_001081127, intron 21 of 21)	24489.0	NM_023064	65971.0	Mm.30227	NM_023064	ENSMUSG00000020096	Tbata	1700021K02Rik|AI428928|Spatial|Titest	thymus, brain and testes associated	protein-coding	39.5	88.5	63.0	833.5	155.0	62.5	72.5	44.5
Merged-chr7-25785027-4	chr7	25784928	25785128	+	953.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 4 of 19)	intron (NM_009465, intron 4 of 19)	3705.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	16.0	12.0	10.0	199.5	34.5	14.0	18.5	8.5
Merged-chr13-35512154-2	chr13	35512054	35512254	+	793.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_C_Mam|LINE|RTE-X	-147708.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	3.0	0.5	2.5	36.0	12.0	4.5	6.5	6.0
Merged-chr9-108832577-4	chr9	108832457	108832657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359572, intron 2 of 35)	CpG	6512.0	NM_001359572	107934.0	Mm.39945	NM_080437	ENSMUSG00000023473	Celsr3	Adgrc3|Fmi1|flamingo|mKIAA0812	cadherin, EGF LAG seven-pass G-type receptor 3	protein-coding	89.0	200.5	129.0	1513.5	304.0	117.0	172.0	98.0
Merged-chr6-82652978-4	chr6	82652879	82653079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025882)	promoter-TSS (NM_025882)	-114.0	NM_025882	66979.0	Mm.195753	NM_025882	ENSMUSG00000030042	Pole4	2400007P05Rik|5830430F06Rik	polymerase (DNA-directed), epsilon 4 (p12 subunit)	protein-coding	161.0	272.0	118.5	2258.5	383.5	144.0	209.0	133.5
Merged-chr15-73060278-4	chr15	73060184	73060384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 1 of 17)	intron (NM_001164641, intron 1 of 17)	920.0	NM_001164641	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	46.5	27.0	30.5	439.5	70.5	24.5	32.5	56.0
Merged-chr18-23604075-1	chr18	23603975	23604175	+	779.0	f0_balb.idr	3' UTR (NM_010087, exon 12 of 12)	3' UTR (NM_010087, exon 12 of 12)	106593.0	NM_001285810	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	4.5	5.0	10.0	131.5	7.5	2.0	3.0	6.0
Merged-chr7-99865401-4	chr7	99865304	99865504	+	779.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164258, intron 2 of 18)	intron (NM_001164258, intron 2 of 18)	6186.0	NM_001164258	446101.0	Mm.440757	NM_001164258	ENSMUSG00000035211	Xrra1	AI449753	X-ray radiation resistance associated 1	protein-coding	9.5	7.0	2.0	130.5	17.0	6.5	9.5	7.0
Merged-chr11-87434756-2	chr11	87434656	87434856	+	579.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	RMER17C|LTR|ERVK	7165.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	11.5	4.0	3.5	32.0	10.0	5.5	11.5	8.0
Merged-chr18-53245564-4	chr18	53245468	53245668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029394)	promoter-TSS (NM_029394)	-94.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	86.5	112.5	107.0	1769.0	268.0	73.5	145.5	100.0
Merged-chr6-134566060-1	chr6	134565960	134566160	+	657.0	f0_balb.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	853.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	4.5	8.0	8.5	82.5	9.5	3.0	11.0	6.5
Merged-chr17-50508892-4	chr17	50508777	50508977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013880)	promoter-TSS (NM_013880)	-670.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	40.0	52.0	29.5	558.0	73.5	33.0	44.5	55.0
Merged-chr11-74638110-4	chr11	74638017	74638217	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013784, exon 4 of 4)	exon (NM_001013784, exon 4 of 4)	-11378.0	NM_001081158	74148.0	Mm.214574	NM_001081158	ENSMUSG00000020741	Cluh	1300001I01Rik|Kiaa0664|mKIAA0664	clustered mitochondria (cluA/CLU1) homolog	protein-coding	29.0	30.0	22.0	313.0	50.0	18.5	16.0	18.5
Merged-chr6-122945035-3	chr6	122944936	122945136	+	875.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-7479.0	NM_001204241	73149.0	Mm.25684	NM_153197	ENSMUSG00000043832	Clec4a3	3110037K17Rik|Dcir3	C-type lectin domain family 4, member a3	protein-coding	8.5	6.5	13.5	145.5	11.5	6.0	3.5	5.0
Merged-chr4-136123599-4	chr4	136123480	136123680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20242.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	73.5	127.0	40.0	931.0	156.5	84.5	71.5	70.0
Merged-chr17-17634256-4	chr17	17634149	17634349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9760.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	83.5	129.0	60.0	1436.0	342.0	89.0	126.0	133.0
Merged-chr10-75835556-4	chr10	75835468	75835668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010361)	promoter-TSS (NM_010361)	-687.0	NM_010361	14872.0	Mm.24118	NM_010361	ENSMUSG00000033318	Gstt2	AI266894|Yrs|mGSTT2	glutathione S-transferase, theta 2	protein-coding	139.5	213.0	147.0	2256.0	328.0	104.0	117.0	147.0
Merged-chr12-36035809-3	chr12	36035690	36035890	+	851.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	6688.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	8.0	10.5	16.5	247.5	1.5	2.0	3.0	3.5
Merged-chr15-62120976-3	chr15	62120869	62121069	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 2 of 6)	intron (NR_132746, intron 2 of 6)	81712.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	6.0	6.5	15.5	144.5	20.0	2.0	5.5	8.0
Merged-chr12-24710824-3	chr12	24710660	24710860	+	855.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_009104, intron 5 of 9)	B3|SINE|B2	2506.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	9.5	9.0	11.5	92.0	13.5	8.0	13.0	11.5
Merged-chr14-44078012-4	chr14	44077893	44078093	+	777.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-24661.0	NM_007895	13587.0	Mm.327386	NM_007895	ENSMUSG00000072596	Ear2	EAR-13|EAR-2|ECP|ECP 2|Raf3|Rnase2	eosinophil-associated, ribonuclease A family, member 2	protein-coding	14.5	8.0	15.5	299.0	6.5	13.0	11.0	14.0
Merged-chr6-124662936-4	chr6	124662813	124663013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145130)	promoter-TSS (NM_145130)	-191.0	NR_149320	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	306.5	486.0	338.5	3999.5	765.5	291.5	382.0	328.0
Merged-chr11-100704335-4	chr11	100704208	100704408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030150)	promoter-TSS (NM_030150)	-37.0	NM_030150	80861.0	Mm.271830	NM_030150	ENSMUSG00000017830	Dhx58	B430001I08Rik|D11Lgp2e|LPG2|Lgp2|RLR-3	DEXH (Asp-Glu-X-His) box polypeptide 58	protein-coding	74.0	115.0	70.5	828.5	162.5	69.0	60.5	95.5
Merged-chr6-115698918-2	chr6	115698818	115699018	+	781.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-22283.0	NM_029780	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	13.0	8.0	4.0	59.5	18.0	8.0	11.0	10.5
Merged-chr2-14239748-4	chr2	14239723	14239923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 2 of 29)	ID_B1|SINE|B4	10409.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	8.5	8.0	8.0	115.0	14.0	11.0	7.5	11.5
Merged-chr2-68382596-4	chr2	68382514	68382714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 5 of 17)	intron (NM_016866, intron 5 of 17)	89367.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	60.5	64.5	87.5	1115.5	91.5	34.5	54.5	53.0
Merged-chr1-67398202-4	chr1	67398111	67398311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1a|LTR|Gypsy	275184.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	82.0	71.0	78.5	1235.5	131.0	60.0	64.0	49.0
Merged-chr12-40471601-4	chr12	40471507	40471707	+	822.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	25554.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	11.0	4.5	8.0	86.0	25.0	4.5	9.0	13.0
Merged-chr3-108123471-3	chr3	108123369	108123569	+	959.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010306, intron 3 of 8)	intron (NM_010306, intron 3 of 8)	22683.0	NM_010306	14679.0	Mm.271703	NM_010306	ENSMUSG00000000001	Gnai3	AI158965|AW537698|Galphai3|Gnai-3	guanine nucleotide binding protein (G protein), alpha inhibiting 3	protein-coding	7.0	23.0	1.0	131.5	6.5	6.0	5.0	14.0
Merged-chr8-34816322-4	chr8	34816226	34816426	+	986.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176933, intron 1 of 3)	intron (NM_176933, intron 1 of 3)	8716.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	25.5	46.5	15.0	459.5	94.0	29.0	33.0	31.5
Merged-chr2-170131220-4	chr2	170131162	170131362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033299)	promoter-TSS (NM_001033299)	-42.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	44.5	68.0	29.5	396.0	156.5	96.5	75.0	46.0
Merged-chr15-83555684-4	chr15	83555588	83555788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001030014)	promoter-TSS (NM_001030014)	23.0	NM_001030014	223722.0	Mm.37560	NM_001030014	ENSMUSG00000048755	Mcat	AI225907|BC025519	malonyl CoA:ACP acyltransferase (mitochondrial)	protein-coding	28.5	31.5	50.0	387.5	49.0	24.5	23.5	33.5
Merged-chr15-97573230-3	chr15	97573128	97573328	+	816.8444820000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	132594.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	17.0	22.5	10.5	171.0	14.0	5.5	6.0	5.0
Merged-chr5-117357023-8	chr5	117356919	117357119	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021539)	promoter-TSS (NM_021539)	-286.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	7.5	18.0	22.0	77.0	30.0	10.5	11.0	10.5
Merged-chr16-36753251-3	chr16	36753155	36753355	+	953.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021301, intron 19 of 21)	intron (NM_021301, intron 19 of 21)	31707.0	NM_001145899	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	8.0	4.0	12.5	133.5	9.5	6.0	11.5	8.0
Merged-chr19-23687417-4	chr19	23687339	23687539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028208)	promoter-TSS (NM_028208)	39.0	NM_028208	72351.0	Mm.474795	NM_028208	ENSMUSG00000074925	Ptar1	1700084D09Rik|2010013L17Rik|4930428J16Rik|AI449677	protein prenyltransferase alpha subunit repeat containing 1	protein-coding	111.0	117.5	86.5	1566.0	161.5	63.5	71.0	82.5
Merged-chr9-104629980-3	chr9	104629878	104630078	+	938.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	60495.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	7.0	17.5	15.5	168.5	10.5	3.0	4.0	6.5
Merged-chr15-78254975-3	chr15	78254875	78255075	+	886.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 5 of 9)	intron (NM_008677, intron 5 of 9)	10164.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	10.0	14.0	16.0	121.0	12.0	7.5	5.5	4.5
Merged-chr15-101372169-4	chr15	101372060	101372260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2035.0	NM_028770	74127.0	Mm.440055	NM_028770	ENSMUSG00000037185	Krt80	1200016G03Rik|2310041I20Rik|Kb20	keratin 80	protein-coding	37.5	87.0	30.0	519.5	136.0	21.5	35.0	34.0
Merged-chr6-97511845-4	chr6	97511750	97511950	+	836.696411	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-24030.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	7.0	13.5	9.0	109.0	40.0	13.5	8.0	9.5
Merged-chr6-134927284-5	chr6	134927226	134927426	+	945.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1766.0	NR_037956	381822.0	Mm.5935	NR_037955	ENSMUSG00000098318	Lockd	1190002F15Rik|AI120476|Droc	lncRNA downstream of Cdkn1b	ncRNA	8.5	17.0	17.5	235.0	34.5	19.5	18.0	22.5
Merged-chr5-29895120-4	chr5	29895027	29895227	+	796.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117987.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	12.0	15.0	7.5	49.5	30.0	3.5	13.0	3.0
Merged-chr13-24104208-4	chr13	24104125	24104325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026825, intron 17 of 37)	intron (NM_026825, intron 17 of 37)	-113011.0	NM_145399	214189.0	Mm.255667	NM_145399	ENSMUSG00000021337	Scgn	-	secretagogin, EF-hand calcium binding protein	protein-coding	111.0	171.5	125.0	1374.5	244.0	83.5	121.0	75.0
Merged-chr12-102290865-4	chr12	102290757	102290957	+	906.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	7216.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	20.0	31.5	16.0	253.5	33.5	8.5	9.5	9.5
Merged-chr4-115000005-4	chr4	114999902	115000102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009185)	promoter-TSS (NM_009185)	-116.0	NM_001304559	20460.0	Mm.3988	NM_009185	ENSMUSG00000028718	Stil	Sil	Scl/Tal1 interrupting locus	protein-coding	226.5	365.5	216.5	3659.5	800.0	333.0	422.5	275.0
Merged-chr4-129515182-2	chr4	129515114	129515314	+	932.166626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_008228)	TTS (NM_008228)	1633.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	2.0	15.5	5.0	21.0	10.5	7.0	8.0	7.5
Merged-chr10-42697232-4	chr10	42697119	42697319	+	828.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172416, intron 4 of 5)	intron (NM_172416, intron 4 of 5)	18303.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	7.5	16.0	8.0	100.0	23.5	8.5	15.0	13.5
Merged-chr3-100922218-4	chr3	100922129	100922329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165953)	promoter-TSS (NM_001165953)	-264.0	NM_001165952	229644.0	Mm.189351	NM_194343	ENSMUSG00000033233	Trim45	4921530N01Rik	tripartite motif-containing 45	protein-coding	490.5	764.0	550.5	8611.5	1111.5	492.5	655.5	476.5
Merged-chr10-17344036-4	chr10	17343935	17344135	+	817.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-248253.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	17.0	13.0	8.5	119.5	35.0	11.0	13.5	5.5
Merged-chr1-184033629-4	chr1	184033525	184033725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022019)	promoter-TSS (NM_022019)	373.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	32.5	66.0	48.5	713.5	106.0	36.5	39.5	61.5
Merged-chr15-76313443-4	chr15	76313336	76313536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-6191.0	NM_153122	75475.0	Mm.322738	NM_153122	ENSMUSG00000022562	Oplah	1700010G02Rik	5-oxoprolinase (ATP-hydrolysing)	protein-coding	37.0	51.5	23.0	560.0	86.5	42.0	29.0	47.5
Merged-chr16-38679065-4	chr16	38678973	38679173	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	RCHARR1|DNA|hAT-Charlie	33962.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	14.0	46.5	8.5	142.0	43.0	22.5	21.0	5.0
Merged-chr12-21266711-3	chr12	21266638	21266838	+	870.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004364, intron 26 of 26)	intron (NM_001004364, intron 26 of 26)	19546.0	NM_008403	16413.0	Mm.273333	NM_008403	ENSMUSG00000062352	Itgb1bp1	AI449260|AU019480|Icap1	integrin beta 1 binding protein 1	protein-coding	5.0	18.0	9.0	92.5	8.5	2.5	0.0	2.5
Merged-chr2-60963085-3	chr2	60962984	60963184	+	835.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020296, exon 1 of 14)	5' UTR (NM_020296, exon 1 of 14)	120.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	8.0	7.0	8.0	100.5	13.5	4.5	3.0	6.5
Merged-chr12-51844693-1	chr12	51844593	51844793	+	729.0	f0_c57.idr	Intergenic	Intergenic	-15157.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	12.5	12.0	9.5	215.0	30.5	8.0	13.0	9.5
Merged-chr5-114859502-2	chr5	114859402	114859602	+	649.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_026263, intron 2 of 11)	intron (NM_026263, intron 2 of 11)	5788.0	NM_026263	67593.0	Mm.251409	NM_026263	ENSMUSG00000029564	4930519G04Rik	1700014B12Rik	RIKEN cDNA 4930519G04 gene	protein-coding	10.5	12.0	2.5	70.0	22.0	8.5	8.0	10.5
Merged-chr6-92199629-4	chr6	92199521	92199721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030081, intron 7 of 11)	intron (NM_030081, intron 7 of 11)	15190.0	NM_030081	78287.0	Mm.290734	NM_030081	ENSMUSG00000014550	Rbsn	5330426D11Rik|Zfyve20	rabenosyn, RAB effector	protein-coding	42.0	36.0	22.0	472.0	78.5	43.0	28.0	39.5
Merged-chr8-104641726-4	chr8	104641641	104641841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026753)	promoter-TSS (NM_026753)	-13.0	NM_026753	68523.0	Mm.279	NM_026753	ENSMUSG00000031879	Fam96b	1110019N10Rik	family with sequence similarity 96, member B	protein-coding	59.5	94.5	47.0	848.0	121.5	64.0	83.0	58.5
Merged-chr5-17842259-4	chr5	17842154	17842354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	-6358.0	NM_007643	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	55.0	72.0	57.0	1123.0	93.0	33.0	47.0	43.0
Merged-chr2-29406135-4	chr2	29406039	29406239	+	799.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290490, intron 3 of 5)	RMER4A|LTR|ERVK	27625.0	NM_001290490	68975.0	Mm.330109	NM_026896	ENSMUSG00000026799	Med27	1500015J03Rik|2310042P07Rik|AA682045|Crsp8|D2Ertd434e	mediator complex subunit 27	protein-coding	5.0	13.0	7.5	128.0	23.0	6.5	5.0	11.5
Merged-chr2-34785955-2	chr2	34785855	34786055	+	742.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_145522, intron 4 of 7)	(CACAG)n|Simple_repeat|Simple_repeat	13865.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	9.0	27.0	5.0	48.0	16.0	7.0	1.0	7.0
Merged-chr2-169087442-3	chr2	169087329	169087529	+	871.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109160.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	7.0	8.5	11.0	308.0	11.0	7.5	2.0	4.0
Merged-chr13-54824883-4	chr13	54824784	54824984	+	875.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35479.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	18.0	30.0	13.5	349.0	21.5	2.0	8.0	11.5
Merged-chr1-92666866-4	chr1	92666752	92666952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-18011.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	70.5	115.0	155.5	2470.5	208.5	67.0	107.5	90.5
Merged-chr5-122821380-4	chr5	122821267	122821467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021505)	promoter-TSS (NM_021505)	-25.0	NM_001289519	59008.0	Mm.332667	NM_021505	ENSMUSG00000029472	Anapc5	2510006G12Rik|AA408751|AA536819|AA986414|APC5|Anpc5	anaphase-promoting complex subunit 5	protein-coding	63.5	99.0	59.0	789.0	214.5	67.0	92.5	87.5
Merged-chr8-10645913-3	chr8	10645792	10645992	+	920.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	236562.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	6.5	9.0	10.5	167.0	22.0	4.5	3.0	6.5
Merged-chr3-89772791-4	chr3	89772702	89772902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027315)	promoter-TSS (NM_027315)	598.0	NR_130957	74034.0	Mm.386816	NR_130957	ENSMUSG00000042579	4632404H12Rik	-	RIKEN cDNA 4632404H12 gene	ncRNA	17.5	42.5	22.0	300.0	54.5	26.0	20.0	20.5
Merged-chr15-73617783-4	chr15	73617663	73617863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357747)	promoter-TSS (NM_001357747)	-439.0	NM_001357747	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	136.0	233.5	134.0	1930.5	293.0	97.0	107.0	87.0
Merged-chr7-73628278-4	chr7	73628169	73628369	+	869.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	58294.0	NR_033604	244061.0	Mm.484605	NR_033604	ENSMUSG00000108337	Gm4971	EG244061	Smad nuclear interacting protein 1 pseudogene	pseudo	21.0	15.0	10.0	174.0	23.5	11.5	16.5	7.0
Merged-chr6-92988375-3	chr6	92988226	92988426	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	47744.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	87.5	122.5	103.0	1714.0	10.0	4.5	4.0	5.0
Merged-chr17-32275541-3	chr17	32275453	32275653	+	833.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286630, intron 1 of 19)	intron (NM_001286630, intron 1 of 19)	8570.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	5.5	17.5	9.0	134.0	29.5	4.5	7.0	9.0
Merged-chr7-45705670-2	chr7	45705559	45705759	+	829.0	f0_balb.idr|f0_c57.idr	TTS (NM_009800)	TTS (NM_009800)	412.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	11.0	13.0	6.5	165.0	29.0	10.0	14.5	9.5
Merged-chr9-70943209-2	chr9	70943109	70943309	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001324472, intron 1 of 9)	MTEa|LTR|ERVL-MaLR	-8401.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	22.0	17.0	15.5	227.5	40.0	17.0	19.5	18.5
Merged-chr9-44522132-4	chr9	44522050	44522250	+	976.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007551, intron 1 of 1)	intron (NM_007551, intron 1 of 1)	4271.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	23.0	34.0	15.5	276.5	60.0	42.5	22.5	32.5
Merged-chr19-4396544-4	chr19	4396461	4396661	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001001984, exon 1 of 21)	5' UTR (NM_001001984, exon 1 of 21)	516.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	19.0	29.0	24.5	294.5	54.5	23.5	21.5	26.5
Merged-chr9-106448709-3	chr9	106448638	106448838	+	967.6333619999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029631)	promoter-TSS (NM_029631)	98.0	NM_029631	76491.0	Mm.335427	NM_029631	ENSMUSG00000042073	Abhd14b	1810013B01Rik	abhydrolase domain containing 14b	protein-coding	6.5	5.5	1.0	32.5	28.0	21.0	9.0	18.0
Merged-chr7-16310200-4	chr7	16310105	16310305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 1 of 3)	CpG	622.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	78.5	154.5	101.5	1176.0	203.0	89.5	117.0	78.5
Merged-chr5-116024535-4	chr5	116024479	116024679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031869)	promoter-TSS (NM_031869)	-151.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	66.5	93.5	73.0	959.5	153.5	66.0	96.5	66.0
Merged-chr6-129234696-3	chr6	129234628	129234828	+	797.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040268, intron 2 of 3)	intron (NR_040268, intron 2 of 3)	3317.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	5.5	6.5	9.0	104.0	17.0	7.0	4.0	4.5
Merged-chr7-28214342-4	chr7	28214247	28214447	+	833.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34031.0	NM_001271370	13549.0	Mm.57249	NM_010092	ENSMUSG00000002409	Dyrk1b	Mirk	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1b	protein-coding	14.0	5.0	5.0	185.0	27.0	12.0	24.0	13.5
Merged-chr7-27591011-2	chr7	27590911	27591111	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110208)	promoter-TSS (NM_001110208)	-541.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	8.5	13.0	5.5	21.5	22.5	9.5	7.0	5.5
Merged-chr4-149706201-4	chr4	149706152	149706352	+	801.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-4623.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	4.5	8.0	7.5	58.5	31.0	15.5	15.0	11.5
Merged-chr18-46152606-4	chr18	46152485	46152685	+	963.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46233.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	18.0	14.5	5.5	177.0	41.0	14.5	20.0	16.5
Merged-chr6-149343953-4	chr6	149343831	149344031	+	979.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34517.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	24.0	23.5	10.0	281.0	71.5	25.5	42.5	41.5
Merged-chr9-105122521-2	chr9	105122428	105122628	+	751.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	9277.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	9.5	19.0	5.5	168.0	5.0	4.5	6.0	9.5
Merged-chr3-103809474-4	chr3	103809365	103809565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163552)	promoter-TSS (NM_001163552)	-52.0	NM_001163552	67489.0	Mm.197568	NM_026193	ENSMUSG00000032952	Ap4b1	1810038H16Rik|AV004952|Ap4b4	adaptor-related protein complex AP-4, beta 1	protein-coding	126.5	141.0	120.5	1546.5	298.5	110.5	98.5	144.5
Merged-chr4-45489849-4	chr4	45489747	45489947	+	965.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	40981.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	9.0	9.0	15.0	245.5	44.0	25.5	20.5	27.5
Merged-chr6-87916147-4	chr6	87916053	87916253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173737, intron 2 of 6)	intron (NM_173737, intron 2 of 6)	2177.0	NM_173737	232210.0	Mm.246241	NM_173737	ENSMUSG00000030060	Hmces	8430410A17Rik|C85376	5-hydroxymethylcytosine (hmC) binding, ES cell specific	protein-coding	79.0	111.5	51.0	1468.5	143.5	49.0	61.5	81.5
Merged-chr5-144013910-3	chr5	144013807	144014007	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177682, intron 1 of 14)	intron (NM_177682, intron 1 of 14)	946.0	NM_177682	231874.0	Mm.320432	NM_177682	ENSMUSG00000029617	Ccz1	AU022870	CCZ1 vacuolar protein trafficking and biogenesis associated	protein-coding	4.0	14.0	2.0	114.5	24.0	12.0	9.5	6.5
Merged-chr3-38130297-1	chr3	38130197	38130397	+	700.5	f0_balb.idr	Intergenic	Intergenic	77822.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	4.0	10.5	10.0	172.0	14.0	5.0	13.0	8.0
Merged-chr5-64269689-4	chr5	64269597	64269797	+	984.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 5 of 18)	intron (NM_001289514, intron 5 of 18)	39340.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	35.0	25.0	44.0	882.5	52.0	11.5	35.0	30.5
Merged-chr4-43474208-5	chr4	43474099	43474299	+	863.863342	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9510.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	7.5	15.0	12.0	151.5	28.0	18.0	17.5	7.5
Merged-chr3-152210386-4	chr3	152210288	152210488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355372)	promoter-TSS (NM_001355372)	-34.0	NM_001355369	51886.0	Mm.278922	NM_057172	ENSMUSG00000028034	Fubp1	9530027K12Rik|D3Ertd330e|FBP|Fubp|Fubp4	far upstream element (FUSE) binding protein 1	protein-coding	226.5	389.5	201.5	2637.0	603.5	251.0	236.5	218.0
Merged-chr17-65630759-4	chr17	65630643	65630843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	9013.0	NM_153519	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	40.5	37.0	26.5	590.5	126.0	38.0	58.5	31.5
Merged-chr19-16110791-4	chr19	16110641	16110841	+	802.674988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22090.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	3.5	22.0	7.0	62.5	48.0	30.0	8.0	16.5
Merged-chr2-155044721-4	chr2	155044617	155044817	+	728.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015770, intron 1 of 3)	MTD|LTR|ERVL-MaLR	29780.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	5.5	24.5	8.5	128.5	31.5	3.5	9.5	10.0
Merged-chr2-154406794-4	chr2	154406666	154406866	+	936.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009228, intron 1 of 7)	MIR3|SINE|MIR	1318.0	NM_009228	20648.0	Mm.1541	NM_009228	ENSMUSG00000027488	Snta1	AW228934|Snt1	syntrophin, acidic 1	protein-coding	21.0	17.0	14.0	312.0	47.5	11.5	14.5	14.5
Merged-chr16-49859679-4	chr16	49859590	49859790	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 1 of 9)	intron (NM_010581, intron 1 of 9)	4036.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	6.0	13.5	4.5	140.5	18.5	7.5	15.0	9.0
Merged-chr7-64404152-3	chr7	64404053	64404253	+	798.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028626, intron 2 of 2)	intron (NM_028626, intron 2 of 2)	11531.0	NM_001355124	73724.0	Mm.10093	NM_028626	ENSMUSG00000033429	Mcee	1110007A04Rik	methylmalonyl CoA epimerase	protein-coding	8.5	11.0	13.0	235.5	7.0	6.0	5.0	16.0
Merged-chr17-42876626-4	chr17	42876519	42876719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009847)	promoter-TSS (NM_009847)	-195.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	57.5	126.0	110.5	809.5	167.0	66.5	91.5	82.5
Merged-chr14-77448213-2	chr14	77448114	77448314	+	937.25	f0_c57.idr|f1_c57bl6.idr	intron (NM_001253759, intron 5 of 19)	intron (NM_001253759, intron 5 of 19)	58654.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	0.0	0.5	0.0	1.0	36.5	21.0	39.5	19.5
Merged-chr18-62189464-4	chr18	62189367	62189567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9367.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	118.5	154.5	96.0	1334.5	194.0	99.5	96.0	98.5
Merged-chr11-69998250-4	chr11	69998128	69998328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291125, intron 3 of 4)	intron (NM_001291125, intron 3 of 4)	766.0	NM_001291127	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	63.5	101.5	61.5	1113.0	196.5	71.5	73.0	64.0
Merged-chr19-7206257-5	chr19	7206084	7206284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134150)	promoter-TSS (NM_134150)	100.0	NM_134150	107260.0	Mm.203921	NM_134150	ENSMUSG00000024767	Otub1	AI850305	OTU domain, ubiquitin aldehyde binding 1	protein-coding	37.0	100.0	41.0	408.0	115.0	55.0	46.5	63.5
Merged-chr3-126436351-4	chr3	126436259	126436459	+	956.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173451, intron 1 of 1)	intron (NM_173451, intron 1 of 1)	72507.0	NM_173451	271970.0	Mm.317021	NM_173451	ENSMUSG00000046561	Arsj	9330196J05Rik|D830047F08	arylsulfatase J	protein-coding	13.5	4.0	9.0	229.0	60.5	8.5	28.0	19.5
Merged-chr1-87756332-3	chr1	87756269	87756469	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029846, intron 1 of 17)	CpG	358.0	NM_001205392	77040.0	Mm.272972	NM_029846	ENSMUSG00000026289	Atg16l1	1500009K01Rik|Apg16l|Atg16l|WDR30	autophagy related 16-like 1 (S. cerevisiae)	protein-coding	32.0	35.5	17.5	333.0	41.5	27.5	16.5	26.0
Merged-chr10-68277016-4	chr10	68276920	68277120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	CpG	1706.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	39.0	77.0	31.5	328.0	74.0	40.5	46.0	39.0
Merged-chr13-52283630-4	chr13	52283494	52283694	+	822.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	186853.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	3.5	12.0	2.5	95.5	19.0	6.0	13.5	11.5
Merged-chr2-23069222-6	chr2	23069119	23069319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001102438, exon 1 of 13)	5' UTR (NM_001102438, exon 1 of 13)	147.0	NM_001355638	74159.0	Mm.181973	NM_028793	ENSMUSG00000026781	Acbd5	1300014E15Rik	acyl-Coenzyme A binding domain containing 5	protein-coding	45.0	40.0	62.0	686.0	103.0	29.5	36.0	62.0
Merged-chr3-7496750-4	chr3	7496647	7496847	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6679.0	NM_173181	67306.0	Mm.332366	NM_173181	ENSMUSG00000043542	Zc2hc1a	3110050N22Rik|AI790358|AU023959|Fam164a	zinc finger, C2HC-type containing 1A	protein-coding	15.0	29.0	10.0	439.5	71.5	20.0	24.0	28.0
Merged-chr8-120744633-2	chr8	120744533	120744733	+	897.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 3 of 8)	intron (NM_001301811, intron 3 of 8)	5994.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	6.5	8.0	7.5	48.5	13.5	3.5	4.0	5.0
Merged-chr7-134697685-4	chr7	134697573	134697773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	intron (NM_001033420, intron 1 of 51)	26986.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	72.5	84.5	106.0	1164.0	132.0	29.0	50.0	37.5
Merged-chr13-37642568-4	chr13	37642497	37642697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-183441.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	89.0	136.0	120.5	1702.0	132.5	62.5	74.5	74.0
Merged-chr11-116024406-7	chr11	116024310	116024510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008211)	promoter-TSS (NM_008211)	94.0	NM_008211	15081.0	Mm.18516	NM_008211	ENSMUSG00000016559	H3f3b	9430068D06Rik|H3.3B	H3 histone, family 3B	protein-coding	156.0	382.0	149.5	1118.5	481.5	204.0	182.0	142.5
Merged-chr11-114813001-4	chr11	114813004	114813204	+	963.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14180.0	NM_181749	217302.0	Mm.269127	NM_181749	ENSMUSG00000034677	Gpr142	PGR2	G protein-coupled receptor 142	protein-coding	9.5	7.5	7.5	112.5	12.0	11.5	5.5	4.0
Merged-chr6-50874076-4	chr6	50873983	50874183	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97968.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	8.5	6.0	4.5	118.0	42.0	8.0	9.5	13.0
Merged-chr11-49847490-4	chr11	49847370	49847570	+	644.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016961, intron 1 of 11)	intron (NM_016961, intron 1 of 11)	719.0	NM_016961	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	8.5	16.0	6.5	117.5	19.0	10.0	11.5	25.5
Merged-chr2-174438961-4	chr2	174438849	174439049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022325)	promoter-TSS (NM_022325)	90.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	148.5	202.0	127.5	1919.5	455.5	160.0	196.5	144.0
Merged-chr5-36720915-4	chr5	36720807	36721007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-24886.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	48.0	115.5	58.0	719.5	96.0	46.5	46.5	33.5
Merged-chr18-9712319-3	chr18	9712233	9712433	+	696.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 1 of 9)	intron (NM_130449, intron 1 of 9)	4685.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	6.0	4.5	7.0	114.0	9.0	1.5	0.0	3.5
Merged-chr17-69439358-4	chr17	69439265	69439465	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145192)	promoter-TSS (NM_001145192)	39.0	NM_001145192	320722.0	Mm.400254	NM_001145192	ENSMUSG00000091636	Akain1	A330050F15Rik	A kinase (PRKA) anchor inhibitor 1	protein-coding	26.0	32.0	23.5	492.5	53.0	20.5	25.5	19.5
Merged-chr10-43757289-4	chr10	43757152	43757352	+	947.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040581, intron 1 of 3)	intron (NR_040581, intron 1 of 3)	11094.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	5.5	16.0	5.0	205.0	24.0	4.5	11.5	12.0
Merged-chr4-149863715-2	chr4	149863617	149863817	+	932.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89450.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	16.5	10.0	10.5	227.0	11.5	3.5	4.0	8.0
Merged-chr11-3167564-4	chr11	3167502	3167702	+	950.05835	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 7 of 32)	RLTR21|LTR|ERVK	25861.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	37.5	54.0	53.0	431.5	10.0	4.0	7.0	4.5
Merged-chr9-15046788-3	chr9	15046701	15046901	+	781.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-1323.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	3.5	8.5	12.0	200.0	4.5	5.0	6.0	9.0
Merged-chr7-92965299-4	chr7	92965199	92965399	+	858.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90046.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	8.5	17.0	1.0	143.5	38.5	7.0	11.5	12.0
Merged-chr15-97140222-4	chr15	97140120	97140320	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	27024.0	NR_155278	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	18.0	4.0	6.5	139.5	20.5	7.5	5.5	10.5
Merged-chr9-107888089-4	chr9	107888003	107888203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028369)	promoter-TSS (NM_028369)	-26.0	NM_028369	72825.0	Mm.38037	NM_028369	ENSMUSG00000032583	Mon1a	2810468K17Rik	MON1 homolog A, secretory traffciking associated	protein-coding	85.0	89.5	84.0	1417.5	146.5	53.5	65.5	76.0
Merged-chr4-148151205-3	chr4	148151101	148151301	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_015797, exon 1 of 6)	5' UTR (NM_015797, exon 1 of 6)	724.0	NM_001163705	50762.0	Mm.27445	NM_015797	ENSMUSG00000055401	Fbxo6	AA408845|FBG2|Fbs2|Fbx6b|Fbxo6b	F-box protein 6	protein-coding	16.5	14.0	8.5	178.5	69.5	15.5	15.5	18.0
Merged-chr11-53494676-5	chr11	53494579	53494779	+	992.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14484.0	NM_183173	237761.0	Mm.145208	NM_183173	ENSMUSG00000044352	Sowaha	A830006N08Rik|Ankrd43	sosondowah ankyrin repeat domain family member A	protein-coding	12.0	14.0	10.5	134.0	8.0	6.0	6.0	6.5
Merged-chr12-116262982-4	chr12	116262887	116263087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146039)	promoter-TSS (NM_146039)	38.0	NM_146039	217935.0	Mm.31382	NM_146039	ENSMUSG00000042050	Wdr60	D430033N04Rik	WD repeat domain 60	protein-coding	47.0	49.5	67.0	963.5	95.5	31.0	49.0	45.5
Merged-chr13-37749263-4	chr13	37749174	37749374	+	825.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76764.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	9.5	18.5	9.0	161.0	23.5	9.5	10.5	11.5
Merged-chr11-85140172-4	chr11	85140068	85140268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029934)	promoter-TSS (NM_001029934)	-213.0	NM_001029934	237898.0	Mm.178524	NM_001029934	ENSMUSG00000000804	Usp32	2900074J03Rik|6430526O11Rik|AW045245	ubiquitin specific peptidase 32	protein-coding	257.0	425.5	167.5	2803.0	611.0	243.5	239.0	245.0
Merged-chr7-58399270-4	chr7	58399160	58399360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-258942.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	219.0	280.5	289.5	2865.5	528.0	188.5	292.5	226.0
Merged-chr5-29947037-4	chr5	29946906	29947106	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66108.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	17.5	13.5	18.0	253.5	30.0	13.0	9.0	10.0
Merged-chr12-117534511-2	chr12	117534411	117534611	+	940.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 3 of 27)	intron (NM_175930, intron 3 of 27)	18032.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	4.0	4.0	16.5	133.5	17.5	8.0	11.5	10.5
Merged-chr15-88862022-4	chr15	88861926	88862126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145478)	promoter-TSS (NM_145478)	-168.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	326.0	532.5	377.0	4705.5	778.5	314.0	369.0	324.0
Merged-chr1-171159798-2	chr1	171159698	171159898	+	818.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_008623, exon 7 of 8)	exon (NM_008623, exon 7 of 8)	4280.0	NM_001315500	17528.0	Mm.9986	NM_008623	ENSMUSG00000056569	Mpz	Mpp|P-zero|P0	myelin protein zero	protein-coding	4.0	1.0	8.5	69.0	11.0	4.5	6.5	7.0
Merged-chr10-59310853-4	chr10	59310740	59310940	+	881.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12456.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	10.5	13.0	20.5	187.0	25.0	11.0	13.5	25.0
Merged-chr9-110888022-4	chr9	110887923	110888123	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153354, intron 8 of 25)	intron (NR_153354, intron 8 of 25)	7701.0	NM_001146060	235633.0	Mm.86338	NM_146228	ENSMUSG00000044037	Als2cl	79H19D|79H19E|BC022645|D930044G19Rik|mRn.49018	ALS2 C-terminal like	protein-coding	32.5	63.0	35.5	408.0	47.0	13.5	16.5	12.5
Merged-chr19-9954657-4	chr19	9954538	9954738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25962.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	63.0	110.0	83.5	1442.5	191.0	68.0	61.5	59.5
Merged-chr13-37844072-4	chr13	37843987	37844187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	16694.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	38.5	69.5	36.0	570.5	123.5	35.5	36.0	42.5
Merged-chr9-120110348-4	chr9	120110238	120110438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144793)	promoter-TSS (NM_144793)	-61.0	NM_144793	208638.0	Mm.236656	NM_144793	ENSMUSG00000032519	Slc25a38	AV019094|BC010801|appoptosin	solute carrier family 25, member 38	protein-coding	34.5	47.5	16.5	445.0	106.5	39.0	49.5	47.0
Merged-chr11-77185185-3	chr11	77185081	77185281	+	967.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176965, intron 1 of 17)	intron (NM_176965, intron 1 of 17)	3787.0	NM_176965	319634.0	Mm.108786	NM_176965	ENSMUSG00000050944	Efcab5	4930563A03Rik	EF-hand calcium binding domain 5	protein-coding	10.5	32.5	17.5	225.5	3.0	5.5	6.5	10.5
Merged-chr17-5521749-4	chr17	5521658	5521858	+	936.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	29158.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	22.5	38.0	30.0	355.0	33.5	10.5	19.5	28.0
Merged-chr7-27273927-4	chr7	27273807	27274007	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010950, intron 6 of 9)	intron (NM_010950, intron 6 of 9)	15146.0	NM_010950	18223.0	Mm.458153	NM_010950	ENSMUSG00000063160	Numbl	nbl	numb-like	protein-coding	19.5	25.5	16.5	263.5	18.5	7.5	13.5	16.0
Merged-chr12-3791971-4	chr12	3791896	3792096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14984.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	145.5	221.5	127.0	1566.5	217.5	126.0	109.0	108.0
Merged-chr18-4032545-4	chr18	4032448	4032648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-133284.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	56.5	36.0	35.5	487.0	110.0	47.5	39.0	45.5
Merged-chr17-67223942-1	chr17	67223842	67224042	+	641.0	f0_c57.idr	intron (NM_001357625, intron 1 of 32)	L1MB5|LINE|L1	130517.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	0.5	1.0	0.0	6.5	7.5	6.0	5.0	7.0
Merged-chr15-79456624-4	chr15	79456492	79456692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14449.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	19.5	16.5	32.5	260.0	59.0	17.0	16.5	14.5
Merged-chr8-9157652-2	chr8	9157552	9157752	+	841.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12983.0	NR_073360	74688.0	Mm.159298	NR_073360	ENSMUSG00000109215	4930453L07Rik	-	RIKEN cDNA 4930453L07 gene	ncRNA	3.5	4.0	4.5	88.0	15.0	4.5	6.0	5.5
Merged-chr12-111889415-4	chr12	111889317	111889517	+	907.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011625, intron 1 of 16)	MIRb|SINE|MIR	18638.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	12.5	11.0	15.5	392.5	52.0	19.0	13.5	24.5
Merged-chr2-126934238-4	chr2	126934122	126934322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023220)	promoter-TSS (NM_023220)	-987.0	NM_023220	66552.0	Mm.269928	NM_023220	ENSMUSG00000027366	Sppl2a	2010106G01Rik|C130089K23Rik	signal peptide peptidase like 2A	protein-coding	68.0	140.0	70.5	768.0	178.5	58.5	48.5	46.0
Merged-chr11-115139044-4	chr11	115138960	115139160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	MLT1H|LTR|ERVL-MaLR	-5068.0	NM_145634	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	139.0	227.0	135.0	1763.5	294.0	107.5	142.5	135.5
Merged-chr11-115814105-4	chr11	115813998	115814198	+	973.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080643)	promoter-TSS (NM_080643)	-506.0	NM_080643	140721.0	Mm.383737	NM_080643	ENSMUSG00000034471	Caskin2	1600028L06Rik|mKIAA1139	CASK-interacting protein 2	protein-coding	22.0	39.5	12.0	216.5	73.5	17.0	16.5	27.0
Merged-chr6-29524306-4	chr6	29524208	29524408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2317.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	149.5	237.0	262.5	2735.0	420.0	135.5	201.0	148.5
Merged-chr3-144698157-4	chr3	144698060	144698260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019464, intron 5 of 8)	intron (NM_019464, intron 5 of 8)	22175.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	73.0	133.0	100.5	1446.5	286.0	79.5	125.5	98.0
Merged-chr9-35055796-4	chr9	35055675	35055875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-60953.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	41.5	53.0	52.5	885.0	92.5	37.5	58.0	33.5
Merged-chr9-119266192-1	chr9	119266092	119266292	+	671.0	f0_balb.idr	intron (NM_001359582, intron 8 of 18)	intron (NM_001359582, intron 8 of 18)	-34500.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	9.0	12.5	12.0	158.0	4.5	1.0	0.5	3.0
Merged-chr17-31834857-3	chr17	31834766	31834966	+	941.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	20938.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	2.5	1.0	0.5	20.0	51.0	18.0	23.0	16.5
Merged-chr19-42147316-4	chr19	42147212	42147412	+	844.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183195)	promoter-TSS (NM_183195)	-77.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	10.0	10.0	28.0	180.5	19.0	4.0	9.0	3.5
Merged-chr1-95653726-3	chr1	95653596	95653796	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009183, exon 3 of 5)	exon (NM_009183, exon 3 of 5)	13898.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	8.5	25.5	14.5	197.5	10.0	1.0	3.5	5.5
Merged-chr9-107713613-4	chr9	107713517	107713717	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3142.0	NM_011349	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	31.5	59.0	29.0	223.0	65.0	22.0	41.0	18.0
Merged-chr14-14974811-3	chr14	14974735	14974935	+	763.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 29 of 34)	L1_Mus3|LINE|L1	154020.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	10.5	33.0	16.0	127.0	8.5	0.5	1.5	0.5
Merged-chr7-73452421-3	chr7	73452318	73452518	+	571.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 32 of 38)	intron (NM_001081345, intron 32 of 38)	-76644.0	NR_040324	319783.0	Mm.349813	NR_040324	ENSMUSG00000097756	A730056A06Rik	C76391	RIKEN cDNA A730056A06 gene	ncRNA	6.5	10.5	6.0	96.0	6.0	1.5	7.0	7.0
Merged-chr11-119925410-4	chr11	119925316	119925516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 2)	intron (NR_039557, intron 2 of 2)	11606.0	NM_001085498	208092.0	Mm.306673	NM_001085498	ENSMUSG00000025371	Chmp6	2400004G01Rik	charged multivesicular body protein 6	protein-coding	113.5	169.0	122.0	1791.0	144.5	37.0	96.5	88.5
Merged-chr16-30938844-4	chr16	30938744	30938944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142588.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	41.0	33.0	31.5	420.0	74.0	28.0	28.0	32.0
Merged-chr6-134274169-3	chr6	134274035	134274235	+	826.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122194.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	7.0	21.0	16.0	151.5	0.5	0.5	0.0	1.5
Merged-chr11-58636761-4	chr11	58636652	58636852	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3713.0	NM_001039047	216781.0	Mm.339507	NM_001039047	ENSMUSG00000037124	Trim58	Gm16|Gm1783	tripartite motif-containing 58	protein-coding	28.5	24.5	12.5	217.5	53.5	16.5	16.5	12.0
Merged-chr5-120102949-4	chr5	120102849	120103049	+	825.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13564.0	NM_028762	74111.0	Mm.41022	NM_028762	ENSMUSG00000029594	Rbm19	1200009A02Rik|AV302714|NPO	RNA binding motif protein 19	protein-coding	17.0	23.5	8.0	124.5	28.0	12.0	8.5	9.5
Merged-chr3-136725582-5	chr3	136725434	136725634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	55468.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	14.0	7.5	24.5	296.5	38.0	18.5	16.0	35.5
Merged-chr1-107402295-4	chr1	107402190	107402390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20399.0	NM_027548	116872.0	Mm.66015	NM_027548	ENSMUSG00000067001	Serpinb7	4631416M05Rik|megsin|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 7	protein-coding	32.0	26.5	20.0	669.0	79.0	35.0	40.5	28.0
Merged-chr17-50182650-4	chr17	50182541	50182741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 1 of 9)	intron (NM_181397, intron 1 of 9)	7856.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	36.0	83.5	73.0	1073.5	115.0	28.0	29.0	40.5
Merged-chr12-85490146-4	chr12	85490047	85490247	+	912.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16257.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	16.5	23.5	23.5	319.5	56.5	7.5	8.0	15.5
Merged-chr1-127219357-4	chr1	127219244	127219444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	MIRc|SINE|MIR	14358.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	17.0	23.5	27.0	561.0	157.0	67.5	57.0	66.0
Merged-chr5-5319975-4	chr5	5319879	5320079	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	-53911.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	10.5	12.0	13.0	239.0	35.0	12.5	31.0	22.5
Merged-chr17-26649701-3	chr17	26649592	26649792	+	772.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 9 of 9)	intron (NM_026170, intron 9 of 9)	-26704.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	5.5	7.0	8.0	93.0	12.5	4.0	6.5	8.5
Merged-chr4-128616020-4	chr4	128615891	128616091	+	876.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_205823, exon 1 of 1)	exon (NM_205823, exon 1 of 1)	2628.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	13.5	15.0	30.0	134.0	35.0	13.5	7.5	24.5
Merged-chr6-30326235-3	chr6	30326135	30326335	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21696.0	NM_001169576	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	9.0	5.0	14.5	83.0	18.0	1.5	3.5	12.5
Merged-chr8-84270469-4	chr8	84270353	84270553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001294281)	promoter-TSS (NM_001294281)	-51.0	NM_026350	67736.0	Mm.30095	NM_026350	ENSMUSG00000004994	Ccdc130	4930527D15Rik|C77430	coiled-coil domain containing 130	protein-coding	312.5	495.5	245.5	4808.0	713.0	308.0	316.0	284.0
Merged-chr10-59879857-1	chr10	59879757	59879957	+	1000.0	f0_c57.idr	intron (NM_019965, intron 1 of 8)	CpG	266.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	50.5	70.0	59.0	524.5	126.5	55.5	61.0	59.5
Merged-chr8-11459230-4	chr8	11459125	11459325	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-18704.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	25.0	39.5	105.0	1144.0	38.0	15.5	37.5	25.0
Merged-chr1-48595868-3	chr1	48595759	48595959	+	908.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-648757.0	NR_151585	442837.0	Mm.337149	NM_001002792	ENSMUSG00000051616	C230029F24Rik	-	RIKEN cDNA C230029F24 gene	ncRNA	14.0	12.0	9.0	249.5	18.0	7.0	11.0	3.5
Merged-chr15-83140680-2	chr15	83140580	83140780	+	693.1999509999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 1 of 7)	intron (NM_001347082, intron 1 of 7)	8698.0	NM_178627	73826.0	Mm.23758	NM_178627	ENSMUSG00000041815	Poldip3	1110008P04Rik|AA408269|AL022852|C77954|PDIP46|SKAR|mKIAA1649	polymerase (DNA-directed), delta interacting protein 3	protein-coding	5.5	7.5	5.0	37.0	12.5	4.0	9.0	10.0
Merged-chr9-40756598-4	chr9	40756515	40756715	+	862.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-44658.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	12.5	15.0	1.5	96.0	28.0	11.0	10.0	12.0
Merged-chr2-21909698-3	chr2	21909620	21909820	+	745.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-317783.0	NM_148413	667663.0	Mm.330033	NM_148413	ENSMUSG00000025716	Myo3a	9030416P08Rik	myosin IIIA	protein-coding	8.5	7.5	7.0	109.0	12.0	2.5	3.0	7.0
Merged-chr17-70832760-4	chr17	70832680	70832880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13997.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	269.0	386.0	334.0	4009.0	573.5	193.5	324.5	231.5
Merged-chr1-167394287-5	chr1	167394174	167394374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025569)	promoter-TSS (NM_025569)	-477.0	NM_025569	66447.0	Mm.218286	NM_025569	ENSMUSG00000026688	Mgst3	2010012L10Rik|2010306B17Rik|2700004G04Rik|AA516734|GST-III	microsomal glutathione S-transferase 3	protein-coding	28.0	42.5	52.5	495.5	59.0	28.5	17.5	38.5
Merged-chr3-152402510-4	chr3	152402398	152402598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287139, intron 1 of 13)	intron (NM_001287139, intron 1 of 13)	5814.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	123.5	134.0	157.0	2021.5	264.0	100.0	94.0	115.0
Merged-chr18-79327756-4	chr18	79327599	79327799	+	964.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-218308.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	10.0	14.5	9.0	269.5	23.0	6.5	16.0	16.0
Merged-chr8-127439944-4	chr8	127439888	127440088	+	969.125	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033620, intron 20 of 24)	intron (NM_033620, intron 20 of 24)	140336.0	NM_001013580	93742.0	Mm.299254	NM_033620	ENSMUSG00000025812	Pard3	AA960621|AI256638|Asip|D8Ertd580e|Par-3|Par3|Pard-3|Pard3a|Phip	par-3 family cell polarity regulator	protein-coding	3.0	0.5	1.0	26.5	18.0	11.0	5.0	9.5
Merged-chr17-46858025-2	chr17	46857925	46858125	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26612.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	13.5	9.5	11.5	209.5	45.0	13.5	10.0	14.5
Merged-chr5-74348548-5	chr5	74348461	74348661	+	913.2666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	intron (NM_001114660, intron 5 of 8)	153235.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	0.0	0.0	0.0	26.0	38.5	24.5	19.0	19.5
Merged-chr11-73199256-7	chr11	73199254	73199454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031251)	promoter-TSS (NM_031251)	-128.0	NM_029031	74637.0	Mm.200905	NM_029031	ENSMUSG00000005951	Shpk	4930431K22Rik|AI194947|AW260459|Carkl	sedoheptulokinase	protein-coding	109.0	153.0	90.5	1322.0	284.5	100.0	109.0	94.5
Merged-chr5-123755411-4	chr5	123755298	123755498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042421, intron 2 of 63)	intron (NM_001042421, intron 2 of 63)	5672.0	NM_001042421	208628.0	Mm.441089	NM_001042421	ENSMUSG00000029414	Kntc1	D330012D13|jgl	kinetochore associated 1	protein-coding	34.5	39.5	26.0	313.0	91.0	35.5	27.0	47.5
Merged-chr18-38233538-4	chr18	38233436	38233636	+	926.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16662.0	NR_015475	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	21.0	27.0	12.0	256.5	34.5	13.0	18.5	23.0
Merged-chr4-13152376-3	chr4	13152279	13152479	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	245542.0	NM_001171801	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	40.5	26.0	49.5	1075.0	12.0	7.0	9.0	5.0
Merged-chr10-98542771-3	chr10	98542664	98542864	+	791.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-190897.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	7.5	8.0	7.0	182.5	27.0	2.0	5.5	10.5
Merged-chr13-93231227-4	chr13	93231126	93231326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38809.0	NM_001361537	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	71.5	115.5	110.5	1572.5	151.5	87.5	105.5	83.5
Merged-chr2-4889705-3	chr2	4889611	4889811	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175400, intron 3 of 8)	intron (NM_175400, intron 3 of 8)	8147.0	NM_175400	109079.0	Mm.34329	NM_175400	ENSMUSG00000026662	Sephs1	1110046B24Rik|AA589574|AI505014|AW111620|SELD|SPS|SPS1	selenophosphate synthetase 1	protein-coding	18.0	10.0	13.5	147.5	24.5	4.0	20.0	13.0
Merged-chr12-17679757-4	chr12	17679660	17679860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11049.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	112.5	156.0	105.5	1919.0	283.0	86.0	127.0	106.0
Merged-chr1-72711922-4	chr1	72711843	72712043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009084, intron 2 of 3)	intron (NM_009084, intron 2 of 3)	683.0	NM_009084	19981.0	Mm.21529	NM_009084	ENSMUSG00000046330	Rpl37a	-	ribosomal protein L37a	protein-coding	18.0	41.0	27.5	123.5	69.5	27.5	19.5	20.5
Merged-chr19-55383427-3	chr19	55383326	55383526	+	917.6555179999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360432, intron 4 of 7)	intron (NM_001360432, intron 4 of 7)	67369.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	11.0	13.0	16.0	235.5	8.5	9.0	1.0	1.0
Merged-chr10-30718313-4	chr10	30718225	30718425	+	902.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 3 of 14)	intron (NM_001358842, intron 3 of 14)	-62458.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	10.5	10.0	19.0	242.5	27.0	7.0	12.0	21.0
Merged-chr3-103171711-4	chr3	103171651	103171851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026602)	promoter-TSS (NM_026602)	96.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	115.5	187.5	113.0	1597.5	283.5	131.5	128.0	111.0
Merged-chr7-80201223-3	chr7	80201125	80201325	+	865.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	2784.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	10.5	3.5	9.0	161.5	8.0	8.0	4.5	5.5
Merged-chr9-64744057-4	chr9	64743948	64744148	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-6292.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	23.0	21.5	13.5	85.5	11.5	18.5	12.5	7.0
Merged-chr3-88396033-4	chr3	88395924	88396124	+	950.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025928, exon 4 of 5)	exon (NM_025928, exon 4 of 5)	-11558.0	NM_007541	12096.0	Mm.389459	NM_007541	ENSMUSG00000074483	Bglap	BGP|Bglap1|OC|OG1|mOC-A	bone gamma carboxyglutamate protein	protein-coding	11.5	18.5	12.0	189.5	81.5	24.0	25.5	17.0
Merged-chr18-10136594-4	chr18	10136522	10136722	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009071, intron 4 of 32)	intron (NM_009071, intron 4 of 32)	45170.0	NM_009071	19877.0	Mm.6710	NM_009071	ENSMUSG00000024290	Rock1	1110055K06Rik|Rock-I	Rho-associated coiled-coil containing protein kinase 1	protein-coding	5.0	6.0	11.0	257.5	27.5	5.5	5.5	13.0
Merged-chr13-8677394-1	chr13	8677294	8677494	+	1000.0	f0_balb.idr	intron (NR_110345, intron 4 of 10)	intron (NR_110345, intron 4 of 10)	193650.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	5.0	6.0	18.5	126.0	4.0	3.5	3.5	4.5
Merged-chr4-137818547-4	chr4	137818445	137818645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-22161.0	NM_007431	11647.0	Mm.288186	NM_007431	ENSMUSG00000028766	Alpl	ALP|APTNAP|Akp-2|Akp2|TNAP|TNSALP	alkaline phosphatase, liver/bone/kidney	protein-coding	42.0	49.5	38.5	635.5	111.0	34.5	42.0	46.0
Merged-chr9-66512558-4	chr9	66512479	66512679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175206, intron 1 of 1)	intron (NM_175206, intron 1 of 1)	2014.0	NM_175206	74165.0	Mm.297998	NM_175206	ENSMUSG00000050503	Fbxl22	1110004B15Rik	F-box and leucine-rich repeat protein 22	protein-coding	54.5	65.0	22.0	746.0	88.0	39.0	36.0	55.5
Merged-chr3-95134011-4	chr3	95133918	95134118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153121)	promoter-TSS (NM_153121)	-6.0	NM_001163573	69269.0	Mm.182944	NM_027013	ENSMUSG00000092607	Scnm1	3110001I17Rik|Scnm1-ps	sodium channel modifier 1	protein-coding	59.5	87.5	39.5	700.0	131.5	61.0	79.0	52.0
Merged-chr3-8691249-3	chr3	8691142	8691342	+	845.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24204.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	9.0	9.0	7.0	81.5	12.0	10.0	6.5	15.5
Merged-chr8-26979204-4	chr8	26979116	26979316	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101502, exon 2 of 2)	exon (NM_001101502, exon 2 of 2)	1880.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	10.5	19.0	15.0	259.5	39.0	21.5	24.0	20.0
Merged-chr8-14815843-3	chr8	14815732	14815932	+	941.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 9 of 15)	intron (NM_172910, intron 9 of 15)	-72704.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	14.0	17.0	15.0	206.0	15.5	5.5	7.5	18.5
Merged-chr10-87842304-4	chr10	87842214	87842414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15951.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	25.0	46.0	35.0	528.0	94.0	20.0	29.0	19.5
Merged-chr5-123891183-4	chr5	123891052	123891252	+	967.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11132.0	NM_175520	243270.0	Mm.33362	NM_175520	ENSMUSG00000049241	Hcar1	Gpr81	hydrocarboxylic acid receptor 1	protein-coding	22.0	39.5	19.0	262.0	63.5	14.0	14.0	17.0
Merged-chr11-98952061-3	chr11	98951977	98952177	+	849.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 2 of 8)	B2_Mm2|SINE|B2	-8394.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	9.5	6.0	7.0	76.0	18.5	8.5	7.5	14.5
Merged-chr11-6629915-2	chr11	6629815	6630015	+	851.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3848.0	NM_134011	21379.0	Mm.247761	NM_134011	ENSMUSG00000000384	Tbrg4	2310042P22Rik|AA120735|AA408001|AI527316|Cpr2|R74877|Tb-12|mKIAA0948	transforming growth factor beta regulated gene 4	protein-coding	5.0	2.5	1.0	30.5	20.0	5.0	5.5	7.5
Merged-chr18-34223697-6	chr18	34223606	34223806	+	976.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007462, intron 1 of 15)	intron (NM_007462, intron 1 of 15)	-1934.0	NR_040534	633395.0	Mm.414290	NR_040534	ENSMUSG00000073607	Gm10548	-	ribosomal protein L29 pseudogene	pseudo	25.5	29.0	9.0	313.5	64.0	11.5	20.5	17.0
Merged-chr11-46039547-4	chr11	46039458	46039658	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14944.0	NM_001291890	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	16.0	20.0	22.0	239.0	89.5	30.0	47.5	26.0
Merged-chr1-52858393-3	chr1	52858294	52858494	+	740.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146108, intron 2 of 13)	RLTR13C2|LTR|ERVK	13356.0	NM_146108	227095.0	Mm.222063	NM_146108	ENSMUSG00000041426	Hibch	2610509I15Rik|HIBYL-COA-H	3-hydroxyisobutyryl-Coenzyme A hydrolase	protein-coding	9.5	15.0	6.0	64.0	22.0	15.0	8.0	11.0
Merged-chr8-66346140-4	chr8	66346039	66346239	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 4 of 7)	Lx5|LINE|L1	-40162.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	21.0	22.5	13.5	380.0	34.5	17.0	18.5	26.5
Merged-chr10-80016584-4	chr10	80016464	80016664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142701)	promoter-TSS (NM_001142701)	-108.0	NM_001142701	70719.0	Mm.243954	NM_027521	ENSMUSG00000035697	Arhgap45	6330406L22Rik|AW539505|Ha-1|Hmha1	Rho GTPase activating protein 45	protein-coding	89.0	86.5	57.0	1207.5	134.0	54.5	85.5	45.5
Merged-chr5-65697324-3	chr5	65697233	65697433	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081321, intron 1 of 31)	CpG-11111	523.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	7.5	11.0	8.5	65.5	9.0	12.0	5.5	3.0
Merged-chr4-129578728-4	chr4	129578647	129578847	+	968.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182783)	promoter-TSS (NM_182783)	-167.0	NM_182783	230766.0	Mm.20377	NM_182783	ENSMUSG00000050493	Fam167b	SEC	family with sequence similarity 167, member B	protein-coding	26.0	22.5	25.5	481.5	32.0	16.0	16.0	17.5
Merged-chr17-63324272-4	chr17	63324177	63324377	+	795.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 6 of 8)	intron (NM_015794, intron 6 of 8)	-11304.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	13.0	18.5	8.5	181.0	18.5	9.5	11.5	3.5
Merged-chr10-17186399-4	chr10	17186346	17186546	+	770.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90664.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	15.5	10.0	12.5	288.0	14.0	5.0	6.5	13.5
Merged-chr10-53344887-4	chr10	53344756	53344956	+	837.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001141927, exon 3 of 3)	3' UTR (NM_001141927, exon 3 of 3)	7170.0	NM_001141927	18821.0	Mm.34145	NM_023129	ENSMUSG00000038583	Pln	Plb	phospholamban	protein-coding	4.5	6.0	7.0	94.5	23.0	4.5	9.0	12.5
Merged-chr11-83964371-4	chr11	83964267	83964467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194341)	promoter-TSS (NM_194341)	-64.0	NM_194341	217030.0	Mm.82680	NM_194341	ENSMUSG00000034940	Synrg	Ap1gbp1|SYNG	synergin, gamma	protein-coding	47.5	43.0	20.5	476.5	94.5	24.0	32.5	30.5
Merged-chr3-40694651-4	chr3	40694543	40694743	+	887.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175515, intron 13 of 15)	LTR16A|LTR|ERVL	-14228.0	NM_178386	73333.0	Mm.78691	NM_178386	ENSMUSG00000069041	Slc25a31	1700034J06Rik|Ant4|Sfec	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 31	protein-coding	19.0	10.5	13.0	350.5	29.0	13.0	16.5	12.0
Merged-chr1-9813105-3	chr1	9813002	9813202	+	894.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177547, intron 1 of 16)	RSINE1|SINE|B4	14972.0	NM_177547	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	10.0	6.5	12.0	165.5	12.0	9.0	12.5	9.5
Merged-chr3-127640055-4	chr3	127640002	127640202	+	757.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6966.0	NM_009718	11924.0	Mm.42017	NM_009718	ENSMUSG00000027967	Neurog2	Atoh4|Math4A|bHLHa8|ngn-2|ngn2	neurogenin 2	protein-coding	8.0	9.5	3.0	149.5	33.5	5.5	12.0	6.5
Merged-chr14-55392612-3	chr14	55392510	55392710	+	844.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86148.0	NM_001037938	28200.0	Mm.27427	NM_030686	ENSMUSG00000022210	Dhrs4	AI043103|AI790593|CR|D14Ucla2|NDRD|PHCR|PSCD|RRD|mouNRDR	dehydrogenase/reductase (SDR family) member 4	protein-coding	7.5	25.0	11.5	180.5	7.5	1.0	1.5	2.5
Merged-chr14-101609247-4	chr14	101609142	101609342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081278)	promoter-TSS (NM_001081278)	-51.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	38.0	54.0	44.5	608.0	71.0	27.0	46.5	20.0
Merged-chr6-57743530-4	chr6	57743427	57743627	+	933.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	41072.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	9.5	14.5	13.5	204.0	31.0	19.5	30.5	23.5
Merged-chr19-6340738-3	chr19	6340642	6340842	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291787)	promoter-TSS (NM_001291787)	-418.0	NM_009006	26412.0	Mm.25860	NM_009006	ENSMUSG00000024948	Map4k2	AI385662|BL44|GCK|Rab8ip	mitogen-activated protein kinase kinase kinase kinase 2	protein-coding	21.0	21.5	9.5	105.5	60.0	17.5	23.0	29.5
Merged-chr8-14891472-4	chr8	14891378	14891578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	2942.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	143.0	197.0	229.5	3008.0	276.5	116.0	177.5	155.5
Merged-chr3-127780492-4	chr3	127780392	127780592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027808)	promoter-TSS (NM_027808)	35.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	208.0	403.0	244.5	2278.5	386.0	186.0	201.0	138.0
Merged-chr13-81351666-4	chr13	81351546	81351746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	intron (NM_054053, intron 83 of 89)	281498.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	49.5	56.5	58.5	1175.5	137.5	38.5	62.5	38.5
Merged-chr11-88044471-3	chr11	88044383	88044583	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2890.0	NM_001078167	110809.0	Mm.391719	NM_173374	ENSMUSG00000018379	Srsf1	1110054N12Rik|5730507C05Rik|6330415C05Rik|AI482334|AW491331|Asf|Sf2|Sfrs1	serine/arginine-rich splicing factor 1	protein-coding	1.0	1.5	6.0	76.0	57.5	24.5	25.0	18.5
Merged-chr3-135630144-4	chr3	135630053	135630253	+	963.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 6 of 24)	intron (NM_008689, intron 6 of 24)	61394.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	19.5	29.0	27.0	344.5	38.0	13.0	45.0	22.5
Merged-chr14-54365467-3	chr14	54365372	54365572	+	856.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026936, intron 3 of 9)	intron (NM_026936, intron 3 of 9)	4631.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	14.0	14.0	5.0	171.0	12.5	7.0	6.0	5.0
Merged-chr2-3355965-4	chr2	3355790	3355990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145921, intron 3 of 7)	intron (NM_145921, intron 3 of 7)	10679.0	NM_145921	99035.0	Mm.13808	NM_145921	ENSMUSG00000026645	Olah	AI607300|E230009B14Rik|Thedc1	oleoyl-ACP hydrolase	protein-coding	40.5	98.5	56.5	594.0	90.5	36.0	39.0	35.0
Merged-chr8-115423910-4	chr8	115423820	115424020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	282974.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	46.0	70.5	60.0	722.5	98.5	29.5	43.0	48.0
Merged-chr14-72532278-2	chr14	72532178	72532378	+	886.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	177725.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	5.5	9.5	8.5	57.0	6.0	4.0	3.5	5.0
Merged-chr8-40497876-1	chr8	40497776	40497976	+	728.0	f0_balb.idr	intron (NR_155265, intron 5 of 6)	intron (NR_155265, intron 5 of 6)	12603.0	NM_001361938	18983.0	Mm.272551	NM_011135	ENSMUSG00000031601	Cnot7	AU022737|CAF-1|Caf1|Pop2	CCR4-NOT transcription complex, subunit 7	protein-coding	10.5	7.0	11.5	91.0	19.5	4.0	11.0	6.0
Merged-chr11-105927210-3	chr11	105927120	105927320	+	784.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_181071, exon 26 of 26)	3' UTR (NM_181071, exon 26 of 26)	17267.0	NM_007805	13056.0	Mm.149403	NM_007805	ENSMUSG00000019590	Cyb561	-	cytochrome b-561	protein-coding	7.0	9.0	7.5	20.5	23.5	4.5	11.5	1.0
Merged-chr5-149242646-1	chr5	149242546	149242746	+	698.0	f0_balb.idr	Intergenic	Intergenic	-22358.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	7.0	6.5	9.5	107.0	11.0	5.0	7.5	3.5
Merged-chr4-155736161-3	chr4	155736041	155736241	+	882.3777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101506, intron 2 of 3)	intron (NM_001101506, intron 2 of 3)	1337.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	4.5	4.5	7.0	61.5	4.0	3.5	3.5	4.0
Merged-chr15-98664423-3	chr15	98664326	98664526	+	871.5833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1537.0	NM_001080981	74351.0	Mm.45725	NM_001080981	ENSMUSG00000003360	Ddx23	3110082M05Rik|4921506D17Rik	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	protein-coding	4.0	6.5	4.0	66.0	23.5	9.5	10.0	15.0
Merged-chr4-126440789-4	chr4	126440683	126440883	+	933.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153403, intron 16 of 18)	MIRb|SINE|MIR	-11241.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	11.0	12.5	11.5	236.5	45.0	9.5	14.0	10.0
Merged-chr7-30795132-4	chr7	30795025	30795225	+	830.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7220.0	NM_001033131	64661.0	Mm.268157	NM_001033131	ENSMUSG00000074199	Krtdap	Kdap|sk221	keratinocyte differentiation associated protein	protein-coding	4.5	13.0	3.5	97.5	29.5	8.5	10.0	17.5
Merged-chr9-109914436-4	chr9	109914292	109914492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	-17382.0	NM_001205331	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	146.0	193.5	124.0	1698.5	396.0	177.0	191.5	146.0
Merged-chr5-65537796-4	chr5	65537687	65537887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310618, intron 1 of 4)	CpG	542.0	NM_001310619	53323.0	Mm.319512	NM_016786	ENSMUSG00000029203	Ube2k	AW492011|D5Ertd601e|E2-25k|HIP-2|Hip2|Hypg|Lig	ubiquitin-conjugating enzyme E2K	protein-coding	57.5	84.0	46.5	660.5	180.5	42.0	59.5	66.5
Merged-chr18-9449507-3	chr18	9449408	9449608	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026484, intron 1 of 9)	CpG	646.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	14.5	25.0	31.5	408.0	41.0	16.5	26.5	33.0
Merged-chr12-79625920-4	chr12	79625816	79626016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	298817.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	48.0	50.0	37.5	588.0	65.5	25.5	42.0	43.5
Merged-chr14-33101829-3	chr14	33101724	33101924	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 20 of 58)	intron (NM_001146022, intron 20 of 58)	83242.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	5.5	5.0	9.0	298.0	10.5	4.5	10.0	4.0
Merged-chr2-45191956-4	chr2	45191852	45192052	+	793.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74510.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	2.5	11.5	4.5	95.0	40.5	8.0	25.5	26.5
Merged-chr18-7703695-3	chr18	7703578	7703778	+	870.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76815.0	NM_001161620	75739.0	Mm.133293	NM_001081287	ENSMUSG00000057440	Mpp7	1110068J02Rik|2810038M04Rik|5430426E14Rik|AI415104|Gm955	membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7)	protein-coding	2.0	1.0	3.0	19.5	26.0	5.0	10.5	9.5
Merged-chr15-78298829-4	chr15	78298728	78298928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287389, intron 1 of 11)	intron (NM_001287389, intron 1 of 11)	6893.0	NM_007781	12984.0	Mm.1940	NM_007781	ENSMUSG00000071714	Csf2rb2	AIC2A|BetaIl3|Bil3|Csfgmrb|Il3r|Il3rb|Il3rb2	colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage)	protein-coding	44.5	95.0	39.0	180.5	103.0	38.0	39.5	14.5
Merged-chr14-73382936-4	chr14	73382814	73383014	+	988.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	2375.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	20.0	14.0	26.0	439.0	53.0	13.0	19.0	16.0
Merged-chr12-85111482-4	chr12	85111397	85111597	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030225, intron 1 of 14)	intron (NM_030225, intron 1 of 14)	664.0	NM_030225	78920.0	Mm.296221	NM_030225	ENSMUSG00000004789	Dlst	1600017E01Rik|4632413C10Rik|4930529O08Rik|DLTS	dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)	protein-coding	23.5	31.5	15.5	220.5	67.0	18.5	27.0	16.0
Merged-chr7-127122019-3	chr7	127121883	127122083	+	930.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133686)	promoter-TSS (NM_133686)	46.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	8.5	7.0	9.5	118.5	15.0	5.0	6.0	5.5
Merged-chr6-33540221-3	chr6	33540140	33540340	+	882.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 9 of 17)	intron (NM_009148, intron 9 of 17)	291112.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	6.0	6.0	9.5	87.0	22.0	5.0	5.5	5.5
Merged-chr12-69986474-4	chr12	69986400	69986600	+	884.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022028, intron 1 of 4)	CpG	502.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	4.5	26.5	10.5	146.0	26.5	7.5	14.5	8.5
Merged-chr19-12430630-3	chr19	12430528	12430728	+	740.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019540, exon 2 of 2)	3' UTR (NM_019540, exon 2 of 2)	2723.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	5.5	12.0	9.0	104.0	25.0	2.0	5.5	6.5
Merged-chr13-56703672-4	chr13	56703578	56703778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164042)	promoter-TSS (NM_001164042)	10.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	41.5	65.0	34.5	351.5	96.5	38.0	35.5	22.0
Merged-chr8-126548020-4	chr8	126547903	126548103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45433.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	70.5	104.0	84.0	1136.5	124.0	45.5	98.0	66.5
Merged-chr2-102867944-4	chr2	102867856	102868056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	33709.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	55.5	40.5	58.0	1030.0	84.0	31.5	64.5	61.0
Merged-chr8-26961910-4	chr8	26961791	26961991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15445.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	30.5	60.0	34.5	593.5	70.0	40.0	24.0	25.0
Merged-chr1-170582537-4	chr1	170582437	170582637	+	933.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 1 of 9)	MTE2b|LTR|ERVL-MaLR	7312.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	16.5	27.0	12.0	468.0	61.5	14.5	26.0	25.5
Merged-chr10-8848748-1	chr10	8848648	8848848	+	600.0	f1_balb.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	37322.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	6.5	11.5	6.5	69.0	12.5	5.0	5.5	3.0
Merged-chr5-122396999-2	chr5	122396899	122397099	+	895.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 2 of 6)	intron (NM_019824, intron 2 of 6)	5121.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	4.0	5.5	4.5	35.5	13.0	7.0	6.0	5.5
Merged-chr11-114907792-4	chr11	114907687	114907887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17746.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	165.5	209.0	141.0	2142.5	360.0	125.5	150.5	149.5
Merged-chr7-99135486-3	chr7	99135375	99135575	+	669.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	intron (NM_178635, intron 1 of 14)	5669.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	5.0	9.0	2.5	86.5	23.0	5.5	5.0	7.5
Merged-chr12-51866492-4	chr12	51866394	51866594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36958.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	99.0	178.5	103.5	1916.5	184.0	97.5	90.0	107.5
Merged-chr8-120487986-5	chr8	120487937	120488137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198671)	promoter-TSS (NM_198671)	-829.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	22.0	24.0	19.0	138.0	46.0	19.5	20.5	12.5
Merged-chr5-53355262-3	chr5	53355161	53355361	+	771.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88155.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	8.5	13.5	14.5	90.5	22.0	6.5	9.5	9.0
Merged-chr7-29155637-4	chr7	29155527	29155727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146023, intron 3 of 7)	CpG	583.0	NM_001146023	73833.0	Mm.260890	NM_028661	ENSMUSG00000030590	Fam98c	1110006G06Rik|AI836081|AV026483|B230110F21Rik	family with sequence similarity 98, member C	protein-coding	46.5	75.0	40.5	521.5	106.0	39.0	37.5	50.5
Merged-chr17-50415475-4	chr17	50415393	50415593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16E1|LTR|ERVL	-94054.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	52.5	56.5	53.5	941.0	97.5	38.0	35.5	49.5
Merged-chr15-82046412-2	chr15	82046312	82046512	+	813.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_011482, intron 1 of 2)	ID_B1|SINE|B4	1186.0	NM_011482	20826.0	Mm.299312	NM_011482	ENSMUSG00000063480	Snu13	FA-1|Fta1|Nhp2l1|Ssfa1	SNU13 homolog, small nuclear ribonucleoprotein (U4/U6.U5)	protein-coding	3.0	5.5	1.5	38.5	15.5	7.0	6.0	6.0
Merged-chr18-62169528-4	chr18	62169440	62169640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10441.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	30.0	53.5	43.5	890.5	67.0	27.5	30.0	37.0
Merged-chr6-82714418-4	chr6	82714313	82714513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60041.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	23.5	59.5	22.0	361.0	85.0	46.0	39.0	32.0
Merged-chr19-40305604-3	chr19	40305508	40305708	+	980.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034962, intron 20 of 22)	MIR3|SINE|MIR	-33992.0	NM_016861	54132.0	Mm.5567	NM_016861	ENSMUSG00000055044	Pdlim1	CLP36|Clim1|mClim1	PDZ and LIM domain 1 (elfin)	protein-coding	32.5	13.5	35.0	480.0	19.5	8.0	5.0	5.5
Merged-chr3-89905612-4	chr3	89905502	89905702	+	968.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	7594.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	10.0	24.0	13.0	265.5	37.0	9.0	7.5	15.5
Merged-chr11-69110945-4	chr11	69110929	69111129	+	881.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9424.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	7.5	14.5	14.5	48.5	19.5	11.5	2.5	6.5
Merged-chr1-135284047-4	chr1	135283947	135284147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145417)	promoter-TSS (NM_145417)	37.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	45.5	38.5	25.0	289.0	56.5	26.5	35.5	26.5
Merged-chr9-118646011-4	chr9	118645916	118646116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 4 of 27)	intron (NM_133721, intron 4 of 27)	39307.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	97.5	125.5	186.5	1748.5	145.5	53.5	72.0	82.5
Merged-chr9-22530890-4	chr9	22530807	22531007	+	924.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360259, intron 5 of 22)	intron (NM_001360259, intron 5 of 22)	55192.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	3.0	23.0	17.5	337.0	25.5	5.0	13.5	18.5
Merged-chr19-32494831-4	chr19	32494738	32494938	+	940.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010799, intron 3 of 4)	intron (NM_010799, intron 3 of 4)	9069.0	NM_010799	17330.0	Mm.255116	NM_010799	ENSMUSG00000024896	Minpp1	AA408516	multiple inositol polyphosphate histidine phosphatase 1	protein-coding	12.0	11.0	9.5	176.5	81.5	22.5	29.0	33.5
Merged-chr1-39714178-4	chr1	39714069	39714269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145660, intron 2 of 14)	intron (NM_001145660, intron 2 of 14)	6820.0	NM_001145660	619289.0	Mm.334107	NM_001145660	ENSMUSG00000057173	Rfx8	4933400N17Rik	regulatory factor X 8	protein-coding	32.0	45.0	53.5	472.5	58.0	19.0	42.0	20.0
Merged-chr3-94595957-4	chr3	94595861	94596061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44A|LTR|ERVK	-13245.0	NM_029721	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	66.5	120.5	56.0	470.0	98.5	25.5	30.5	26.5
Merged-chr7-90132580-4	chr7	90132477	90132677	+	984.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	2364.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	17.0	21.5	12.0	201.0	56.5	16.5	20.0	20.0
Merged-chr15-58075480-4	chr15	58075392	58075592	+	822.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009572, intron 1 of 3)	intron (NM_009572, intron 1 of 3)	1016.0	NM_001042438	22770.0	Mm.244931	NM_009572	ENSMUSG00000022361	Zhx1	-	zinc fingers and homeoboxes 1	protein-coding	1.5	10.5	5.5	123.5	21.5	5.0	9.5	8.0
Merged-chr2-38451209-4	chr2	38451109	38451309	+	835.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60488.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	14.0	13.5	5.0	167.0	19.5	6.5	11.5	10.0
Merged-chr11-72538341-4	chr11	72538270	72538470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029932, exon 5 of 12)	exon (NM_029932, exon 5 of 12)	11876.0	NM_029932	77577.0	Mm.46185	NM_029932	ENSMUSG00000020798	Spns3	9830002I17Rik	spinster homolog 3	protein-coding	76.5	149.0	85.5	1064.0	170.0	64.5	66.0	49.0
Merged-chr8-57653525-5	chr8	57653381	57653581	+	890.8033449999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144731)	promoter-TSS (NM_144731)	-426.0	NM_144731	108150.0	Mm.62886	NM_144731	ENSMUSG00000031608	Galnt7	AI225872	polypeptide N-acetylgalactosaminyltransferase 7	protein-coding	10.0	10.5	14.0	220.5	23.5	9.0	7.0	12.0
Merged-chr14-106193336-3	chr14	106193236	106193436	+	890.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	87138.0	NR_073203	212085.0	Mm.78128	NM_198601	ENSMUSG00000022113	Trim52	4921513B05Rik	tripartite motif-containing 52	protein-coding	6.5	12.5	7.0	70.0	8.0	4.0	8.0	1.5
Merged-chr9-116096903-3	chr9	116096801	116097001	+	815.1777950000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 5 of 6)	intron (NM_029575, intron 5 of 6)	78462.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	12.0	10.5	13.0	179.0	8.5	7.0	12.5	8.0
Merged-chr8-46742799-3	chr8	46742722	46742922	+	832.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	3077.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	5.5	7.5	6.5	46.5	32.5	11.0	8.0	8.0
Merged-chr15-36609142-4	chr15	36609057	36609257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008774)	promoter-TSS (NM_008774)	-184.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	344.5	558.5	365.5	4531.5	1031.5	390.0	478.0	394.0
Merged-chr12-75818794-3	chr12	75818700	75818900	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 1 of 115)	CpG	482.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	13.5	21.0	17.0	352.5	42.0	19.0	24.0	17.5
Merged-chr12-34486172-4	chr12	34486051	34486251	+	854.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 4 of 27)	intron (NM_001271386, intron 4 of 27)	42738.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	7.5	11.5	6.5	144.5	31.0	7.5	19.0	14.0
Merged-chr1-33684700-4	chr1	33684595	33684795	+	678.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14871.0	NR_033199	67503.0	Mm.87069	NM_026204	ENSMUSG00000103746	1700001G17Rik	-	RIKEN cDNA 1700001G17 gene	ncRNA	12.0	12.5	12.0	51.0	39.5	7.5	9.0	7.0
Merged-chr14-31593680-4	chr14	31593567	31593767	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-16284.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	5.0	24.5	11.0	141.0	41.0	17.5	15.0	8.5
Merged-chr5-76905522-4	chr5	76905413	76905613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173765)	promoter-TSS (NM_173765)	1.0	NM_173765	231326.0	Mm.39271	NM_173765	ENSMUSG00000055923	Aasdh	A230062G08Rik|A830035E16|Acsf4|U26	aminoadipate-semialdehyde dehydrogenase	protein-coding	256.0	406.5	226.5	4015.0	775.5	361.5	350.0	294.5
Merged-chr16-87638285-4	chr16	87638204	87638404	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_Mur|LTR|ERVK	-60650.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	26.0	46.5	38.5	590.5	53.5	19.5	33.5	24.0
Merged-chr13-35741305-4	chr13	35741210	35741410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001123386)	promoter-TSS (NM_001123386)	-92.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	110.5	168.5	95.0	1522.5	320.0	100.0	142.5	110.0
Merged-chr5-23751391-4	chr5	23751260	23751460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178403, intron 9 of 15)	intron (NM_178403, intron 9 of 15)	28303.0	NM_001289781	78697.0	Mm.58660	NM_178403	ENSMUSG00000057541	Pus7	C330017I15Rik	pseudouridylate synthase 7	protein-coding	42.5	77.0	51.0	576.5	49.5	23.5	27.5	19.0
Merged-chr7-83853250-3	chr7	83853153	83853353	+	921.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31088.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	15.5	13.0	37.5	524.0	14.5	9.5	9.0	23.5
Merged-chr9-124112757-4	chr9	124112674	124112874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8769.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	36.0	45.5	32.5	581.0	79.5	38.0	35.0	44.0
Merged-chr16-27374278-4	chr16	27374165	27374365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4026.0	NM_198166	224065.0	Mm.326918	NM_198166	ENSMUSG00000056423	Uts2b	Gm538|U2B|Urp|Uts2d	urotensin 2B	protein-coding	143.0	184.0	109.0	1921.5	353.5	144.0	136.0	114.5
Merged-chr9-44232687-4	chr9	44232520	44232720	+	870.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	MIRb|SINE|MIR	1426.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	4.5	10.5	7.0	106.5	25.5	5.5	9.0	14.5
Merged-chr7-97210178-4	chr7	97210078	97210278	+	788.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	115786.0	NM_001177412	244144.0	Mm.297541	NM_001177412	ENSMUSG00000035713	Usp35	Gm1088|Gm493	ubiquitin specific peptidase 35	protein-coding	16.0	15.5	8.0	192.5	23.0	10.0	13.5	4.5
Merged-chr3-37348541-4	chr3	37348468	37348668	+	758.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008006)	promoter-TSS (NM_008006)	-85.0	NM_008006	14173.0	Mm.473689	NM_008006	ENSMUSG00000037225	Fgf2	Fgf-2|Fgfb|bFGF	fibroblast growth factor 2	protein-coding	10.5	10.5	9.5	167.0	12.0	11.0	4.5	11.0
Merged-chr19-28010884-6	chr19	28010765	28010965	+	930.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166414, intron 1 of 18)	L1M4b|LINE|L1	301.0	NM_011265	19726.0	Mm.313321	NM_011265	ENSMUSG00000040929	Rfx3	C230093O12Rik|MRFX3	regulatory factor X, 3 (influences HLA class II expression)	protein-coding	9.0	5.0	21.0	161.0	24.5	4.5	5.0	7.5
Merged-chr7-12818804-4	chr7	12818686	12818886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026046)	promoter-TSS (NM_026046)	74.0	NM_026046	67230.0	Mm.333574	NM_026046	ENSMUSG00000057894	Zfp329	2810439M05Rik|4632409L22Rik|ZNF329	zinc finger protein 329	protein-coding	78.0	83.0	85.0	1212.0	134.5	33.5	50.5	59.5
Merged-chr12-85219352-4	chr12	85219226	85219426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145445)	promoter-TSS (NM_145445)	-155.0	NM_145445	217715.0	Mm.29041	NM_145445	ENSMUSG00000004788	Eif2b2	EIF-2Bbeta|EIF2B	eukaryotic translation initiation factor 2B, subunit 2 beta	protein-coding	210.5	308.0	158.5	2800.5	511.5	219.5	259.5	153.0
Merged-chr6-134607526-4	chr6	134607434	134607634	+	800.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	24954.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	7.5	10.5	10.0	168.0	24.5	10.0	13.0	11.5
Merged-chr12-73286811-4	chr12	73286721	73286921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029580)	promoter-TSS (NM_029580)	-27.0	NM_001037717	625098.0	Mm.32075	NM_001037717	ENSMUSG00000044712	Slc38a6	AW322671|EG625098	solute carrier family 38, member 6	protein-coding	154.0	272.0	140.5	2216.0	370.0	140.0	146.0	142.5
Merged-chr2-160268099-4	chr2	160267997	160268197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59397.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	56.0	73.0	94.5	1718.5	96.5	41.0	50.5	67.0
Merged-chr5-120777707-4	chr5	120777616	120777816	+	982.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145226)	promoter-TSS (NM_145226)	-57.0	NM_145226	246727.0	Mm.204887	NM_145226	ENSMUSG00000032661	Oas3	Oasl10	2'-5' oligoadenylate synthetase 3	protein-coding	36.5	32.5	14.5	482.5	66.0	21.5	33.0	29.5
Merged-chr12-100432092-3	chr12	100432002	100432202	+	843.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	MTD|LTR|ERVL-MaLR	88720.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	19.5	37.5	8.5	178.5	2.0	3.5	5.0	1.0
Merged-chr19-9955057-4	chr19	9954962	9955162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25538.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	40.0	82.5	39.0	222.5	94.0	32.0	33.5	13.5
Merged-chr2-76115905-2	chr2	76115805	76116005	+	924.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 9 of 19)	intron (NM_001081033, intron 9 of 19)	-133938.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	5.0	7.5	5.0	85.0	29.5	4.0	8.0	1.5
Merged-chr2-50943362-4	chr2	50943263	50943463	+	696.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33679.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	14.0	21.0	6.5	147.5	22.0	8.5	12.5	9.5
Merged-chr1-184908741-3	chr1	184908697	184908897	+	852.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145515, intron 13 of 17)	intron (NM_145515, intron 13 of 17)	-25761.0	NM_178692	226777.0	Mm.169542	NM_178692	ENSMUSG00000039349	C130074G19Rik	-	RIKEN cDNA C130074G19 gene	protein-coding	4.5	5.0	12.0	94.5	8.5	4.0	3.5	3.5
Merged-chr13-55329916-4	chr13	55329803	55330003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016662)	promoter-TSS (NM_016662)	-173.0	NM_016662	17121.0	Mm.20350	NM_016662	ENSMUSG00000021485	Mxd3	4631412E13Rik|Mad3|bHLHc13	Max dimerization protein 3	protein-coding	106.5	182.5	96.5	1251.5	182.5	80.0	91.5	75.0
Merged-chr14-20697167-4	chr14	20697061	20697261	+	929.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028428, intron 2 of 2)	intron (NM_028428, intron 2 of 2)	2193.0	NM_028428	73068.0	Mm.277552	NM_028428	ENSMUSG00000039357	Fut11	3110009G03Rik|AI317183	fucosyltransferase 11	protein-coding	17.5	22.5	11.0	317.5	37.5	10.0	13.5	15.0
Merged-chr13-55465976-4	chr13	55465827	55466027	+	811.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001030296, intron 1 of 2)	intron (NM_001030296, intron 1 of 2)	1660.0	NM_001030296	432763.0	Mm.315457	NM_001030296	ENSMUSG00000034686	Prr7	XM_484263	proline rich 7 (synaptic)	protein-coding	14.5	4.0	9.5	44.5	25.5	13.0	6.5	9.5
Merged-chr12-111430621-4	chr12	111430526	111430726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 13 of 13)	intron (NM_001289487, intron 13 of 13)	-12035.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	125.5	187.5	137.5	1588.5	290.5	111.5	130.5	90.5
Merged-chr5-122091287-2	chr5	122091187	122091387	+	822.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9664.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	9.5	4.5	2.5	31.0	7.0	8.0	6.5	8.0
Merged-chr10-128673984-4	chr10	128673874	128674074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173733)	promoter-TSS (NM_173733)	-56.0	NM_173733	211389.0	Mm.23352	NM_173733	ENSMUSG00000049858	Suox	SO	sulfite oxidase	protein-coding	66.5	78.0	77.5	1537.5	203.0	54.0	86.0	55.5
Merged-chr6-146120343-4	chr6	146120254	146120454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 55 of 56)	intron (NM_019923, intron 55 of 56)	186232.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	92.5	142.5	130.0	1737.5	262.0	63.0	97.5	98.0
Merged-chr4-132753139-2	chr4	132753036	132753236	+	932.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_133888, intron 1 of 7)	intron (NM_133888, intron 1 of 7)	4035.0	NM_133888	100340.0	Mm.287187	NM_133888	ENSMUSG00000028885	Smpdl3b	1110054A24Rik|AU045240|Asml3b	sphingomyelin phosphodiesterase, acid-like 3B	protein-coding	5.0	12.5	6.0	16.0	17.0	2.5	3.0	3.5
Merged-chr4-62282675-2	chr4	62282586	62282786	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-3743.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	22.0	39.5	40.5	301.5	98.5	48.5	44.5	32.0
Merged-chr4-134287327-4	chr4	134287223	134287423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163794)	promoter-TSS (NM_001163794)	-70.0	NM_001163794	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	110.5	160.0	112.5	1516.5	245.0	116.5	131.5	116.5
Merged-chr13-104178774-4	chr13	104178676	104178876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361539)	promoter-TSS (NM_001361539)	-63.0	NM_001361538	81003.0	Mm.244190	NM_030731	ENSMUSG00000021712	Trim23	6330516O20Rik|AI450195|Arfd1	tripartite motif-containing 23	protein-coding	149.5	188.0	115.5	1916.5	407.0	98.0	204.5	160.0
Merged-chr13-102666956-4	chr13	102666852	102667052	+	927.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-26595.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	16.0	16.0	8.5	208.0	46.0	7.0	11.5	24.5
Merged-chr12-24572170-4	chr12	24572055	24572255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161406)	promoter-TSS (NM_001161406)	-132.0	NM_001161406	195733.0	Mm.263068	NM_145890	ENSMUSG00000020656	Grhl1	LBP-32|MGR|Tcfcp2l2	grainyhead like transcription factor 1	protein-coding	285.5	403.0	308.5	5425.0	773.5	256.0	433.5	285.0
Merged-chr12-104742452-4	chr12	104742357	104742557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148948, intron 1 of 26)	intron (NM_148948, intron 1 of 26)	9495.0	NM_148948	192119.0	Mm.21135	NM_148948	ENSMUSG00000041415	Dicer1	1110006F08Rik|D12Ertd7e|mKIAA0928	dicer 1, ribonuclease type III	protein-coding	48.0	74.5	39.5	990.0	146.5	61.0	64.5	60.0
Merged-chr2-30783532-4	chr2	30783427	30783627	+	982.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	18210.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	18.5	21.5	11.5	226.5	50.5	23.0	20.5	18.0
Merged-chr11-70687196-4	chr11	70687097	70687297	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190379, intron 1 of 20)	intron (NM_001190379, intron 1 of 20)	908.0	NM_001190376	216874.0	Mm.473726	NM_178116	ENSMUSG00000040712	Camta2	Kiaa0909-hp|mKIAA0909	calmodulin binding transcription activator 2	protein-coding	13.0	31.5	15.0	249.5	42.5	12.5	8.5	11.0
Merged-chr4-107889963-5	chr4	107889818	107890018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347160)	promoter-TSS (NM_001347160)	19.0	NM_028754	74098.0	Mm.274853	NM_028754	ENSMUSG00000028608	0610037L13Rik	1110008H16Rik	RIKEN cDNA 0610037L13 gene	protein-coding	58.5	107.5	68.0	936.0	119.5	58.5	66.5	81.0
Merged-chr1-43506885-4	chr1	43506771	43506971	+	867.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	61120.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	13.0	14.5	13.5	402.0	25.5	16.0	15.0	14.0
Merged-chr18-67290502-4	chr18	67290418	67290618	+	864.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053261, intron 1 of 7)	intron (NM_053261, intron 1 of 7)	1295.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	15.0	14.0	15.0	219.5	18.5	14.0	10.5	8.0
Merged-chr2-73526885-4	chr2	73526778	73526978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	2609.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	54.5	66.0	48.5	911.5	103.5	39.0	40.5	38.5
Merged-chr3-81107050-4	chr3	81106928	81107128	+	974.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	70612.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	14.5	22.0	18.5	549.0	37.0	16.5	30.0	10.0
Merged-chr3-152340197-4	chr3	152340098	152340298	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162375, intron 1 of 13)	CpG	209.0	NM_174868	215708.0	Mm.135018	NM_174868	ENSMUSG00000054942	Miga1	A930038D06|AI852168|C030011O14Rik|Fam73a|Mita1	mitoguardin 1	protein-coding	24.5	24.0	18.5	193.0	46.0	10.5	8.0	27.5
Merged-chr10-41620974-4	chr10	41620879	41621079	+	882.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 23 of 47)	intron (NM_001358562, intron 23 of 47)	52963.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	6.0	12.0	5.0	104.5	42.5	7.0	15.5	9.0
Merged-chr9-118763029-4	chr9	118762984	118763184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 1 of 13)	intron (NM_001113514, intron 1 of 13)	51392.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	33.5	47.5	48.5	517.5	59.5	13.5	25.0	27.0
Merged-chr4-108406575-4	chr4	108406475	108406675	+	974.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024198, exon 1 of 3)	exon (NM_024198, exon 1 of 3)	138.0	NM_024198	67305.0	Mm.20164	NM_024198	ENSMUSG00000028597	Gpx7	3110050F08Rik|AI327032|GPX6	glutathione peroxidase 7	protein-coding	12.5	20.0	24.5	232.5	52.5	15.5	17.0	19.0
Merged-chr13-24515496-3	chr13	24515368	24515568	+	862.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66721.0	NM_001286100	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	6.5	4.5	4.5	107.5	12.0	4.5	3.0	6.0
Merged-chr5-90652962-3	chr5	90652874	90653074	+	712.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12447.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	17.0	14.0	4.0	134.5	10.0	5.5	8.0	5.0
Merged-chr15-73487764-3	chr15	73487665	73487865	+	862.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24795.0	NR_152151	105841.0	Mm.322557	NM_001081066	ENSMUSG00000036661	Dennd3	AI447457|E030003N15Rik	DENN/MADD domain containing 3	protein-coding	6.0	15.5	10.0	125.0	19.5	1.0	6.5	7.5
Merged-chr7-88260488-3	chr7	88260386	88260586	+	741.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17599.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	10.0	35.5	12.0	52.0	32.0	5.5	9.5	5.5
Merged-chr10-17522341-4	chr10	17522226	17522426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200902.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	64.0	95.0	71.5	990.0	155.0	68.0	52.5	47.0
Merged-chr11-98217138-4	chr11	98217023	98217223	+	967.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026952, intron 2 of 12)	intron (NM_026952, intron 2 of 12)	13818.0	NM_001109626	69131.0	Mm.260516	NM_026952	ENSMUSG00000003119	Cdk12	1810022J16Rik|AI646528|Crk7|Crkrs|D11Ertd752e|Pksc	cyclin-dependent kinase 12	protein-coding	10.5	35.5	5.5	168.5	65.0	14.0	13.0	20.0
Merged-chr5-90703063-3	chr5	90702961	90703161	+	741.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56237.0	NM_009141	20311.0	Mm.4660	NM_009141	ENSMUSG00000029371	Cxcl5	AMCF-II|Cxcl6|ENA-78|GCP-2|LIX|Scyb5|Scyb6	chemokine (C-X-C motif) ligand 5	protein-coding	7.5	14.5	14.0	19.0	25.0	8.0	9.0	3.5
Merged-chr5-43841691-9	chr5	43841644	43841844	+	950.796326	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009763, intron 8 of 8)	intron (NM_009763, intron 8 of 8)	22851.0	NM_009763	12182.0	Mm.246332	NM_009763	ENSMUSG00000029082	Bst1	114/A10|A530073F09|BP-3|Bp3|Bsta1|CD157|Ly65	bone marrow stromal cell antigen 1	protein-coding	11.0	9.0	27.5	258.5	49.0	11.5	24.5	24.0
Merged-chr12-73880661-4	chr12	73880576	73880776	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20648.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	31.0	48.0	43.0	565.5	90.5	44.5	18.0	30.5
Merged-chr3-15999692-3	chr3	15999581	15999781	+	609.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081687, intron 1 of 3)	RLTR45|LTR|ERVK	6651.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	9.0	9.5	7.5	118.5	8.0	3.5	6.0	9.5
Merged-chr11-108425139-4	chr11	108425034	108425234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029606)	promoter-TSS (NM_029606)	-132.0	NM_029606	76380.0	Mm.344071	NM_029586	ENSMUSG00000020728	Cep112	1700001M19Rik|1700029K01Rik|8430407H02Rik|AV043680|AV207351|Ccdc46|Macoco	centrosomal protein 112	protein-coding	146.0	274.5	144.5	1736.5	437.0	157.0	173.0	133.0
Merged-chr6-91706262-4	chr6	91706164	91706364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	22197.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	63.0	136.0	45.0	854.5	199.5	89.0	89.5	54.5
Merged-chr18-54961478-4	chr18	54961362	54961562	+	937.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	28718.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	16.5	32.5	12.0	427.5	33.0	22.0	25.0	22.5
Merged-chr5-114639542-4	chr5	114639456	114639656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022017, intron 3 of 15)	intron (NM_022017, intron 3 of 15)	18865.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	25.5	57.5	27.5	402.0	72.5	30.0	31.5	25.0
Merged-chr8-105835521-4	chr8	105835421	105835621	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024445, intron 2 of 15)	intron (NM_024445, intron 2 of 15)	7777.0	NM_024445	72236.0	Mm.386810	NM_024445	ENSMUSG00000031893	Tsnaxip1	1700016K08Rik|TXI1	translin-associated factor X (Tsnax) interacting protein 1	protein-coding	46.0	67.0	22.5	514.0	85.0	41.5	21.5	31.0
Merged-chr4-43218162-4	chr4	43218054	43218254	+	932.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 11 of 39)	intron (NM_001081413, intron 11 of 39)	-49005.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	12.5	24.5	16.5	405.5	43.5	10.0	15.5	15.0
Merged-chr1-51334077-3	chr1	51333965	51334165	+	900.638855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045151)	promoter-TSS (NR_045151)	-286.0	NR_045151	442821.0	Mm.118030	NR_045151	ENSMUSG00000101799	9330175M20Rik	-	RIKEN cDNA 9330175M20 gene	ncRNA	14.0	16.0	7.0	204.5	14.0	9.0	9.0	3.5
Merged-chr8-88199254-6	chr8	88199150	88199350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164497)	promoter-TSS (NM_001164497)	37.0	NM_001164498	214627.0	Mm.491211	NM_001164497	ENSMUSG00000036779	Papd5	5730445M16Rik|5830428A09	PAP associated domain containing 5	protein-coding	60.5	122.0	104.0	1151.0	181.5	91.0	77.5	93.0
Merged-chr4-136885499-5	chr4	136885373	136885573	+	938.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009777, intron 1 of 2)	intron (NM_009777, intron 1 of 2)	704.0	NM_009777	12260.0	Mm.2570	NM_009777	ENSMUSG00000036905	C1qb	-	complement component 1, q subcomponent, beta polypeptide	protein-coding	7.5	11.5	8.5	79.5	11.5	12.0	7.0	15.0
Merged-chr1-152798310-4	chr1	152798200	152798400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1853.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	160.0	254.0	139.5	2187.5	335.5	134.5	167.5	159.5
Merged-chr2-125123638-4	chr2	125123546	125123746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162417)	promoter-TSS (NM_001162417)	14.0	NM_001162417	17876.0	Mm.18535	NM_010852	ENSMUSG00000027201	Myef2	9430071B01|mKIAA1341	myelin basic protein expression factor 2, repressor	protein-coding	38.5	52.0	37.5	300.0	143.5	33.0	40.0	41.0
Merged-chr6-117817193-4	chr6	117817093	117817293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23988.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	26.0	37.5	19.0	512.0	43.5	26.0	22.5	36.0
Merged-chr14-13549044-2	chr14	13548944	13549144	+	733.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163032, intron 2 of 4)	intron (NM_001163032, intron 2 of 4)	95086.0	NM_001163032	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	5.0	5.5	5.0	53.0	17.5	2.5	3.5	9.5
Merged-chr7-47122240-3	chr7	47122137	47122337	+	945.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013643, intron 1 of 13)	intron (NM_013643, intron 1 of 13)	10361.0	NM_001163565	19259.0	Mm.4654	NM_013643	ENSMUSG00000030854	Ptpn5	Step	protein tyrosine phosphatase, non-receptor type 5	protein-coding	11.5	9.5	14.0	136.5	45.5	6.0	9.0	12.5
Merged-chr3-95662511-4	chr3	95662407	95662607	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008562, exon 3 of 3)	3' UTR (NM_008562, exon 3 of 3)	3786.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	12.5	10.5	9.5	267.5	36.0	20.5	9.0	18.0
Merged-chr7-35081182-4	chr7	35081075	35081275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24609.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	72.5	57.5	63.5	790.0	131.5	58.5	58.0	49.5
Merged-chr10-121290177-3	chr10	121290079	121290279	+	967.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 8 of 12)	intron (NM_001361015, intron 8 of 12)	21217.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	17.5	40.0	52.5	369.0	8.5	7.5	6.0	5.0
Merged-chr2-13272978-4	chr2	13272873	13273073	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1558.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	22.5	14.5	24.5	241.5	42.0	5.5	22.5	20.5
Merged-chr4-32561902-4	chr4	32561799	32561999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_026843, exon 4 of 5)	non-coding (NR_026843, exon 4 of 5)	9763.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	85.5	92.5	133.5	1867.5	128.5	69.5	97.5	52.0
Merged-chr10-24931681-3	chr10	24931583	24931783	+	643.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4213.0	NM_007482	11846.0	Mm.154144	NM_007482	ENSMUSG00000019987	Arg1	AI|AI256583|Arg-1|PGIF	arginase, liver	protein-coding	7.0	8.5	10.0	65.0	24.5	14.5	7.0	6.5
Merged-chr9-13245728-4	chr9	13245620	13245820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033181)	promoter-TSS (NM_001033181)	21.0	NM_001033181	77532.0	Mm.459434	NM_001033181	ENSMUSG00000079083	Jrkl	C030035D04Rik|HHMJG	Jrk-like	protein-coding	27.0	30.5	17.0	289.5	49.0	27.0	23.5	35.0
Merged-chr2-103504932-2	chr2	103504832	103505032	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19779.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	11.0	8.0	12.0	158.5	9.0	4.0	4.5	16.0
Merged-chr13-9098423-4	chr13	9098311	9098511	+	874.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	4530.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	10.5	24.0	7.5	100.0	29.0	16.5	15.0	11.5
Merged-chr3-88403663-4	chr3	88403541	88403741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025928, intron 1 of 4)	(A)n|Simple_repeat|Simple_repeat	6756.0	NM_001310605	67037.0	Mm.36715	NM_025928	ENSMUSG00000028066	Pmf1	2600009M07Rik|AL033286|AW060657	polyamine-modulated factor 1	protein-coding	107.5	125.0	60.5	1182.0	206.0	63.5	88.5	101.5
Merged-chr10-79856073-4	chr10	79855959	79856159	+	884.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077363, intron 1 of 13)	intron (NM_001077363, intron 1 of 13)	-1088.0	NR_029447	414101.0	Mm.401339	NR_029447	ENSMUSG00000091994	E130317F20Rik	-	RIKEN cDNA E130317F20 gene	ncRNA	16.0	17.0	8.5	84.5	37.0	17.0	11.0	11.0
Merged-chr3-69658390-4	chr3	69658286	69658486	+	736.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-59426.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	12.0	10.0	11.5	92.0	17.5	6.5	13.5	14.5
Merged-chr19-45560665-4	chr19	45560583	45560783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020032)	promoter-TSS (NM_020032)	98.0	NM_172639	226162.0	Mm.21978	NM_172639	ENSMUSG00000041035	Dpcd	Ndac	deleted in primary ciliary dyskinesia	protein-coding	46.5	67.5	76.0	619.5	93.5	40.5	37.5	41.0
Merged-chr11-84818207-4	chr11	84818112	84818312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145433, intron 2 of 4)	intron (NM_145433, intron 2 of 4)	1303.0	NM_145433	217038.0	Mm.280825	NM_145433	ENSMUSG00000018405	Mrm1	A530065E19Rik	mitochondrial rRNA methyltransferase 1	protein-coding	24.5	36.5	18.0	265.0	79.0	22.5	28.5	29.5
Merged-chr16-49853153-4	chr16	49853058	49853258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2496.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	43.5	64.5	46.0	751.5	100.0	42.0	41.5	32.5
Merged-chr2-167634598-4	chr2	167634501	167634701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2596.0	NM_023230	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	111.0	246.5	86.0	1356.0	365.0	143.5	119.5	132.5
Merged-chr11-83424893-2	chr11	83424793	83424993	+	843.1999509999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013759, intron 4 of 5)	intron (NM_001013759, intron 4 of 5)	4628.0	NM_001013759	237891.0	Mm.340523	NM_001013759	ENSMUSG00000020686	Gas2l2	-	growth arrest-specific 2 like 2	protein-coding	7.5	11.5	1.0	65.5	19.5	5.0	5.0	7.0
Merged-chr14-47648407-4	chr14	47648309	47648509	+	949.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347524)	promoter-TSS (NM_001347524)	-902.0	NM_001347527	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	29.0	50.0	29.0	400.5	31.5	12.5	15.0	11.0
Merged-chr12-110686995-4	chr12	110686892	110687092	+	875.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-4373.0	NM_025488	66323.0	Mm.273316	NM_025488	ENSMUSG00000056508	1700001K19Rik	-	RIKEN cDNA 1700001K19 gene	protein-coding	13.5	13.0	13.0	211.0	15.5	8.0	25.0	14.0
Merged-chr2-155541261-4	chr2	155541139	155541339	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019811, intron 2 of 17)	MIRc|SINE|MIR	15691.0	NR_040613	74945.0	Mm.401956	NR_040613	ENSMUSG00000086529	Acss2os	4930471I20Rik	acyl-CoA synthetase short-chain family member 2, opposite strand	ncRNA	13.5	23.0	26.0	453.0	41.5	5.5	10.5	14.0
Merged-chr4-109280247-4	chr4	109280156	109280356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007943)	promoter-TSS (NM_007943)	-19.0	NM_007943	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	134.0	224.0	80.5	1525.0	289.0	128.5	150.0	117.0
Merged-chr5-118459273-3	chr5	118459208	118459408	+	964.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C2|LTR|ERVK	-101411.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	5.5	13.5	7.5	82.5	15.5	4.5	6.0	4.5
Merged-chr2-71376673-6	chr2	71376636	71376836	+	959.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-9182.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	16.5	17.5	9.5	140.5	55.0	22.5	17.5	23.0
Merged-chr10-20398407-4	chr10	20398294	20398494	+	943.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013875, exon 13 of 13)	3' UTR (NM_013875, exon 13 of 13)	50575.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	8.5	25.0	15.0	333.5	23.5	3.5	22.0	25.0
Merged-chr12-102498693-8	chr12	102498531	102498731	+	814.866638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199004)	TTS (NM_001199004)	28721.0	NM_013747	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	7.5	9.0	9.5	108.5	15.0	10.0	7.0	7.0
Merged-chr7-64287593-4	chr7	64287491	64287691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172742)	promoter-TSS (NM_172742)	-79.0	NM_172742	233315.0	Mm.214959	NM_172742	ENSMUSG00000030522	Mtmr10	BB128963|C79734	myotubularin related protein 10	protein-coding	267.5	396.5	225.5	4087.5	724.0	277.5	345.0	267.5
Merged-chr4-145215525-4	chr4	145215427	145215627	+	954.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011610, exon 10 of 10)	3' UTR (NM_011610, exon 10 of 10)	-20522.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	9.5	14.5	46.5	555.5	47.0	23.5	34.5	32.5
Merged-chr4-149772655-4	chr4	149772642	149772842	+	883.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027460, intron 1 of 6)	intron (NM_027460, intron 1 of 6)	1525.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	5.0	1.0	9.0	76.5	21.0	7.5	10.5	14.5
Merged-chr9-114742896-4	chr9	114742739	114742939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026036, intron 3 of 3)	intron (NM_026036, intron 3 of 3)	11636.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	94.0	155.0	73.5	1298.5	248.0	93.0	123.0	103.5
Merged-chr7-25848195-4	chr7	25848089	25848289	+	949.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31659.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	23.5	17.0	6.5	218.0	61.0	20.0	11.5	15.5
Merged-chr9-48707641-3	chr9	48707539	48707739	+	940.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 4 of 6)	intron (NM_001033324, intron 4 of 6)	-102516.0	NM_001311062	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	13.5	16.0	5.0	154.5	5.0	3.5	3.5	1.0
Merged-chr12-109509153-4	chr12	109509075	109509275	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31821.0	NR_027652	17263.0	Mm.289645	NM_144513	ENSMUSG00000021268	Meg3	2900016C05Rik|3110050O07Rik|6330408G06Rik|AI425946|AW108224|D12Bwg1266e|Gtl2|R74756|R75394	maternally expressed 3	ncRNA	11.5	10.0	8.0	135.0	26.5	9.5	10.5	12.5
Merged-chr15-99698839-4	chr15	99698757	99698957	+	858.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289791, exon 9 of 10)	exon (NM_001289791, exon 9 of 10)	-3430.0	NM_031842	83797.0	Mm.273756	NM_031842	ENSMUSG00000023018	Smarcd1	AA407987|Baf60a|D15Kz1	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1	protein-coding	16.5	15.0	4.5	192.0	37.5	5.5	9.5	5.0
Merged-chr12-85486139-4	chr12	85486050	85486250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	12260.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	191.0	347.5	205.0	2784.5	568.0	221.5	301.5	216.5
Merged-chr15-81101491-4	chr15	81101371	81101571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	3576.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	80.0	106.5	71.0	946.5	138.5	63.0	42.5	44.5
Merged-chr18-50029975-4	chr18	50029892	50030092	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360935)	promoter-TSS (NM_001360935)	-992.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	7.0	10.5	10.0	216.0	43.0	21.0	24.0	10.0
Merged-chr9-32040223-4	chr9	32040102	32040302	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-75934.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	13.0	10.5	11.0	473.5	45.0	7.0	29.0	20.0
Merged-chr4-97910602-4	chr4	97910502	97910702	+	911.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	132976.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	7.0	29.5	14.0	281.0	42.5	7.5	11.5	11.5
Merged-chr2-156841962-3	chr2	156841876	156842076	+	888.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291124, intron 1 of 3)	intron (NM_001291124, intron 1 of 3)	1969.0	NM_173396	228839.0	Mm.315625	NM_173396	ENSMUSG00000062175	Tgif2	4921501K24|5730599O09Rik|C80753|C81206	TGFB-induced factor homeobox 2	protein-coding	6.5	13.0	8.5	83.5	10.0	3.0	4.5	10.5
Merged-chr11-118248686-4	chr11	118248585	118248785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001112699)	promoter-TSS (NM_001112699)	-93.0	NM_011180	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	323.0	468.0	291.5	2857.5	725.0	297.0	285.5	268.0
Merged-chr2-27676927-4	chr2	27676823	27677023	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011305)	promoter-TSS (NM_011305)	-278.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	31.5	20.0	14.5	328.0	47.0	14.0	16.0	15.0
Merged-chr11-69415141-4	chr11	69415129	69415329	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1554.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	7.0	7.5	9.0	55.5	15.5	7.5	6.5	13.5
Merged-chr1-59623499-4	chr1	59623403	59623603	+	834.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 13 of 19)	intron (NM_001013771, intron 13 of 19)	47331.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	7.0	16.5	8.5	178.0	36.0	6.0	17.5	8.0
Merged-chr1-52501512-3	chr1	52501420	52501620	+	866.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1072.0	NM_008667	17936.0	Mm.25903	NM_008667	ENSMUSG00000002881	Nab1	-	Ngfi-A binding protein 1	protein-coding	4.5	8.0	6.5	100.5	12.0	1.5	4.0	3.5
Merged-chr14-103777582-3	chr14	103777481	103777681	+	986.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66120.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	19.5	19.5	14.5	379.5	12.5	5.5	13.5	8.0
Merged-chr3-8667978-4	chr3	8667855	8668055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010423)	promoter-TSS (NM_010423)	-917.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	20.0	24.5	47.5	503.5	42.0	13.0	30.5	31.5
Merged-chr2-174614131-4	chr2	174614034	174614234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29400.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	60.0	63.5	74.0	1333.5	138.0	33.5	47.5	52.0
Merged-chr13-99323850-4	chr13	99323763	99323963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 8 of 9)	intron (NM_026873, intron 8 of 9)	20815.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	128.5	217.0	147.5	1604.0	254.0	102.0	134.0	80.0
Merged-chr14-7991557-7	chr14	7991462	7991662	+	898.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007870, intron 1 of 7)	ID_B1|SINE|B4	2620.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	14.5	12.5	15.5	386.0	23.5	15.5	18.5	20.5
Merged-chr4-137883914-4	chr4	137883788	137883988	+	933.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	21651.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	8.5	16.5	16.0	206.0	45.0	8.0	15.5	16.5
Merged-chr2-36272633-6	chr2	36272520	36272720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42194.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	28.0	13.5	19.0	283.0	40.5	23.5	15.0	23.0
Merged-chr13-37855542-3	chr13	37855450	37855650	+	758.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	28157.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	6.5	8.0	8.0	57.5	15.0	5.5	5.0	3.5
Merged-chr11-75460591-4	chr11	75460471	75460671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030711)	promoter-TSS (NR_030711)	-968.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	76.5	175.0	77.0	1319.0	239.0	107.5	113.0	105.0
Merged-chr14-55764578-5	chr14	55764424	55764624	+	980.7299800000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1438.0	NM_008519	16995.0	Mm.20853	NM_008519	ENSMUSG00000046908	Ltb4r1	BLT1|BLTR|Ltb4r|mBLTR	leukotriene B4 receptor 1	protein-coding	6.5	16.0	16.5	173.0	18.0	11.5	18.5	29.5
Merged-chr1-71557105-4	chr1	71557003	71557203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026195)	promoter-TSS (NM_026195)	-53.0	NM_026195	108147.0	Mm.38010	NM_026195	ENSMUSG00000026192	Atic	2610509C24Rik|AA536954|AW212393	5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase/IMP cyclohydrolase	protein-coding	225.5	338.5	290.0	4617.5	510.5	208.0	306.5	231.0
Merged-chr2-45270229-4	chr2	45270129	45270329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-152787.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	48.0	62.0	58.5	1073.0	136.5	44.5	76.5	59.0
Merged-chr7-19028277-3	chr7	19028189	19028389	+	997.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360713, intron 1 of 22)	intron (NM_001360713, intron 1 of 22)	3912.0	NM_026605	68188.0	Mm.130902	NM_026605	ENSMUSG00000023118	Sympk	1500016F02Rik|4632415H16Rik|AA125406|AI449890|SPK|SYM	symplekin	protein-coding	26.5	48.0	21.5	379.0	15.5	4.0	6.0	13.5
Merged-chr7-28907420-4	chr7	28907310	28907510	+	962.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021895, intron 8 of 20)	intron (NM_021895, intron 8 of 20)	25754.0	NM_001110807	60594.0	Mm.476990	NM_021894	ENSMUSG00000054083	Capn12	CANP 12	calpain 12	protein-coding	33.5	38.0	13.0	489.0	46.5	20.5	11.0	15.0
Merged-chr15-89453516-4	chr15	89453426	89453626	+	837.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021921)	promoter-TSS (NM_021921)	-385.0	NM_021921	60597.0	Mm.173337	NM_021921	ENSMUSG00000022619	Mapk8ip2	3230402N03Rik|AI847694|AW049958|IB2|Jip2|R75148	mitogen-activated protein kinase 8 interacting protein 2	protein-coding	8.5	8.5	13.5	162.5	39.0	7.0	9.5	12.5
Merged-chr5-5415619-4	chr5	5415533	5415733	+	823.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35382.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	4.0	6.0	7.5	93.5	28.5	7.5	16.5	6.0
Merged-chr3-135485585-4	chr3	135485462	135485662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027288)	promoter-TSS (NM_027288)	-49.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	61.5	84.0	53.5	1080.0	123.5	52.0	84.0	50.0
Merged-chr4-11322194-4	chr4	11322092	11322292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081201)	promoter-TSS (NM_001081201)	-61.0	NM_001081201	381510.0	Mm.331486	NM_001081201	ENSMUSG00000045205	Dpy19l4	Gm1023|Narg3	dpy-19-like 4 (C. elegans)	protein-coding	135.0	154.0	108.0	1629.5	293.0	128.0	133.0	117.0
Merged-chr10-67185695-4	chr10	67185589	67185789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242396)	promoter-TSS (NM_001242396)	-61.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	123.0	194.0	61.5	1506.5	238.5	113.5	120.0	111.5
Merged-chr14-31160137-2	chr14	31160037	31160237	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_138672, intron 13 of 68)	intron (NM_138672, intron 13 of 68)	8504.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	5.0	3.0	10.0	60.5	11.0	6.5	5.0	12.0
Merged-chr11-30771702-4	chr11	30771581	30771781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134013)	promoter-TSS (NM_134013)	-94.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	129.5	207.5	127.0	1891.5	243.5	87.5	105.0	88.0
Merged-chr2-157425911-3	chr2	157425809	157426009	+	939.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 1 of 13)	intron (NM_001025395, intron 1 of 13)	1616.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	4.5	8.0	10.0	116.0	6.5	2.0	5.5	0.0
Merged-chr4-74305406-4	chr4	74305277	74305477	+	822.62915	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 4 of 20)	B1_Mus1|SINE|Alu	53498.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	24.0	13.5	11.5	102.5	28.5	12.5	13.0	9.5
Merged-chr2-93941877-4	chr2	93941787	93941987	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15213.0	NM_001145034	620695.0	Mm.482106	NM_001145034	ENSMUSG00000087006	Gm13889	Ag2	predicted gene 13889	protein-coding	26.5	38.0	32.5	694.0	63.0	14.5	36.5	35.5
Merged-chr16-17891179-1	chr16	17891079	17891279	+	734.0	f0_balb.idr	intron (NM_001109750, intron 1 of 9)	CpG	549.0	NM_010048	13356.0	Mm.254515	NM_010048	ENSMUSG00000003166	Dgcr2	9930034O06Rik|DGS-C|Dgsc|Idd|Lan|Sez12|mKIAA0163	DiGeorge syndrome critical region gene 2	protein-coding	13.0	10.5	20.0	133.5	20.0	8.5	21.0	20.5
Merged-chr18-80713011-4	chr18	80712939	80713139	+	983.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164109)	promoter-TSS (NM_001164109)	32.0	NM_001164109	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	14.5	10.0	20.5	181.5	36.0	17.5	12.5	7.5
Merged-chr18-46921770-2	chr18	46921676	46921876	+	704.666626	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_001033446)	promoter-TSS (NM_001033446)	-39.0	NM_001033446	381142.0	Mm.329423	NM_001033446	ENSMUSG00000073568	Arl14epl	Gm949	ADP-ribosylation factor-like 14 effector protein-like	protein-coding	8.0	12.5	8.5	85.0	1.0	2.0	1.0	0.0
Merged-chr9-123853045-4	chr9	123852943	123853143	+	996.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011798, exon 2 of 2)	3' UTR (NM_011798, exon 2 of 2)	-1144.0	NM_001110253	17281.0	Mm.252941	NM_148925	ENSMUSG00000025241	Fyco1	2810409M01Rik|Mem2|RUFY3|ZFYVE7	FYVE and coiled-coil domain containing 1	protein-coding	5.5	25.0	34.0	144.0	71.0	18.5	21.0	37.5
Merged-chr5-125441952-12	chr5	125441789	125441989	+	847.8472289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029752, exon 1 of 3)	exon (NM_029752, exon 1 of 3)	321.0	NM_029752	76809.0	Mm.290720	NM_029752	ENSMUSG00000037905	Bri3bp	2410150I18Rik|AI841257|AW742481	Bri3 binding protein	protein-coding	13.5	10.5	4.0	139.0	17.5	7.5	7.5	14.5
Merged-chr4-86943793-1	chr4	86943693	86943893	+	684.0	f1_balb.idr	Intergenic	Intergenic	69379.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	16.5	21.0	11.0	146.5	0.0	0.0	0.0	0.0
Merged-chr17-23960562-4	chr17	23960445	23960645	+	958.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5272.0	NM_001077421	638345.0	Mm.46428	NM_001077421	ENSMUSG00000024125	Sbpl	2310068J22Rik	spermine binding protein-like	protein-coding	17.5	29.0	9.5	319.5	47.5	25.0	25.5	20.5
Merged-chr7-16399218-4	chr7	16399147	16399347	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1949.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	5.5	10.0	7.0	108.5	28.0	10.0	8.0	21.0
Merged-chr11-77459576-3	chr11	77459503	77459703	+	822.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291190, exon 14 of 14)	3' UTR (NM_001291190, exon 14 of 14)	-4310.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	8.5	9.0	7.0	68.5	8.5	5.0	10.0	8.5
Merged-chr1-16637648-3	chr1	16637561	16637761	+	813.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-18323.0	NM_001271017	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	8.0	6.5	7.5	114.5	13.5	7.5	9.5	8.5
Merged-chr9-64023049-4	chr9	64022948	64023148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008542)	promoter-TSS (NM_008542)	-989.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	127.0	181.5	121.5	1552.5	298.5	138.0	151.0	149.5
Merged-chr8-39594936-4	chr8	39594845	39595045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 8 of 9)	intron (NM_001113326, intron 8 of 9)	47733.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	83.5	51.0	82.5	1419.5	149.5	66.5	58.5	79.5
Merged-chr2-24409409-4	chr2	24409287	24409487	+	934.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177611)	TTS (NM_177611)	22771.0	NM_001355232	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	5.5	17.0	9.0	197.5	30.5	9.5	15.5	9.0
Merged-chr7-27436924-2	chr7	27436825	27437025	+	729.5	f0_balb.idr|f1_balb.idr	intron (NM_032610, intron 2 of 35)	intron (NM_032610, intron 2 of 35)	9664.0	NM_032610	80297.0	Mm.459123	NM_032610	ENSMUSG00000011751	Sptbn4	1700022P15Rik|5830426A08Rik|ROSA62|SpbIV|Spnb4|dyn|lnd|nmf261|nmf379|qv	spectrin beta, non-erythrocytic 4	protein-coding	12.5	15.0	5.0	76.0	0.5	1.0	1.5	4.5
Merged-chr15-12322582-2	chr15	12322482	12322682	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025673, intron 1 of 3)	intron (NM_025673, intron 1 of 3)	1086.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	4.0	7.5	7.0	62.0	20.0	5.0	5.5	7.0
Merged-chr7-73568007-2	chr7	73567907	73568107	+	960.9166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9612.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	7.0	8.5	3.0	20.0	25.0	4.5	4.5	5.0
Merged-chr18-35119746-4	chr18	35119639	35119839	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009818, intron 1 of 17)	intron (NM_009818, intron 1 of 17)	827.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	6.5	18.5	8.0	295.5	38.0	11.0	20.0	22.5
Merged-chr10-7474431-4	chr10	7474334	7474534	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029975)	promoter-TSS (NM_029975)	-957.0	NM_029975	77777.0	Mm.442442	NM_029975	ENSMUSG00000079685	Ulbp1	A430108B07Rik|MULT1	UL16 binding protein 1	protein-coding	18.0	29.0	16.0	113.0	79.5	30.5	20.0	18.5
Merged-chr7-28392824-4	chr7	28392716	28392916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026042)	promoter-TSS (NM_026042)	-126.0	NM_026042	67224.0	Mm.41647	NM_026042	ENSMUSG00000003444	Med29	2810405O22Rik|AU020902|Ixl	mediator complex subunit 29	protein-coding	274.0	417.5	271.5	3144.5	662.0	282.5	290.0	243.0
Merged-chr8-27042764-7	chr8	27042672	27042872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039077, intron 1 of 4)	CpG	217.0	NM_054057	114863.0	Mm.277501	NM_054057	ENSMUSG00000031485	Plpbp	1700024N20Rik|2200002F22Rik|Prosc	pyridoxal phosphate binding protein	protein-coding	73.0	116.0	89.5	1078.5	217.0	99.5	105.5	96.5
Merged-chr12-108894231-4	chr12	108894143	108894343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177602)	promoter-TSS (NM_177602)	-29.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	189.5	252.0	169.5	3051.5	490.0	162.0	231.5	163.5
Merged-chr15-84557776-4	chr15	84557664	84557864	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177630)	promoter-TSS (NM_177630)	59.0	NM_177630	223732.0	Mm.6471	NM_177630	ENSMUSG00000055745	Rtl6	BC058638|Ldoc1l|Mar6|Mart6	retrotransposon Gag like 6	protein-coding	27.0	40.5	15.5	241.0	45.5	23.0	27.5	22.0
Merged-chr4-156216312-4	chr4	156216199	156216399	+	929.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172417, intron 1 of 3)	intron (NM_172417, intron 1 of 3)	372.0	NM_172417	74183.0	Mm.431343	NM_172417	ENSMUSG00000078486	Perm1	2310042D19Rik	PPARGC1 and ESRR induced regulator, muscle 1	protein-coding	9.0	11.0	6.0	173.0	15.5	4.5	16.5	15.0
Merged-chr6-70875408-4	chr6	70875320	70875520	+	945.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 2 of 16)	intron (NM_010121, intron 2 of 16)	30905.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	21.0	24.0	25.0	371.5	34.0	7.5	14.0	16.5
Merged-chr6-34780677-7	chr6	34780512	34780712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001289657, exon 1 of 19)	5' UTR (NM_001289657, exon 1 of 19)	180.0	NM_001289656	76223.0	Mm.150047	NM_178630	ENSMUSG00000038836	Agbl3	2900053G10Rik|4930431N21Rik|6530406M24Rik|CCP3	ATP/GTP binding protein-like 3	protein-coding	24.5	56.0	69.0	518.0	82.0	43.5	35.5	54.0
Merged-chr10-39415776-4	chr10	39415674	39415874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	MIR3|SINE|MIR	45975.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	44.5	111.5	40.0	858.5	183.0	49.0	62.5	44.5
Merged-chr4-137610475-4	chr4	137610366	137610566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355588, intron 6 of 26)	intron (NM_001355588, intron 6 of 26)	16294.0	NM_130879	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	57.0	76.0	54.0	843.5	126.5	41.5	29.5	33.5
Merged-chr10-85184480-4	chr10	85184399	85184599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007771, exon 1 of 13)	5' UTR (NM_007771, exon 1 of 13)	555.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	22.5	37.0	25.0	351.5	58.0	22.5	34.0	28.5
Merged-chr5-43861304-4	chr5	43861184	43861384	+	735.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7525.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	14.5	15.5	19.0	203.0	17.5	17.0	6.5	8.0
Merged-chr19-44284283-4	chr19	44284178	44284378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9398.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	159.5	265.0	174.0	2025.5	300.5	98.0	147.0	114.5
Merged-chr15-67405695-4	chr15	67405593	67405793	+	891.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	178924.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	13.0	10.0	13.5	324.5	30.5	18.0	15.0	19.0
Merged-chr3-146150028-8	chr3	146149925	146150125	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005846)	promoter-TSS (NM_001005846)	-149.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	14.5	22.5	30.5	205.5	50.0	21.5	13.0	29.5
Merged-chr14-105501095-4	chr14	105500997	105501197	+	984.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045921, intron 1 of 2)	intron (NR_045921, intron 1 of 2)	2309.0	NR_045921	74864.0	Mm.159344	NR_045921	ENSMUSG00000022116	4930449E01Rik	-	RIKEN cDNA 4930449E01 gene	ncRNA	12.0	37.0	19.5	254.0	58.5	20.5	31.5	18.0
Merged-chr19-6872804-4	chr19	6872739	6872939	+	924.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-14628.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	11.5	30.5	8.5	178.0	42.5	10.0	23.5	17.5
Merged-chr1-189873481-1	chr1	189873381	189873581	+	800.0	f0_balb.idr	3' UTR (NM_008976, exon 19 of 19)	3' UTR (NM_008976, exon 19 of 19)	48810.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	6.0	9.0	13.5	169.0	3.0	1.5	0.0	6.0
Merged-chr9-58559782-3	chr9	58559668	58559868	+	908.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18828.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	16.5	23.0	7.0	139.0	13.0	8.0	0.5	2.0
Merged-chr6-127240297-4	chr6	127240182	127240382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67685.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	59.0	88.0	49.5	600.0	195.0	59.5	63.5	53.5
Merged-chr1-155293625-4	chr1	155293531	155293731	+	884.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 11 of 14)	intron (NM_011273, intron 11 of 14)	123813.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	8.5	4.5	14.0	151.5	37.5	7.0	13.0	7.0
Merged-chr4-130829451-3	chr4	130829375	130829575	+	935.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36938.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	13.5	13.5	10.0	202.0	15.0	7.5	4.5	14.5
Merged-chr10-44495607-3	chr10	44495511	44495711	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36863.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	6.5	13.0	8.5	200.5	23.5	6.0	6.5	11.5
Merged-chr4-149781212-4	chr4	149781092	149781292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6925.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	35.0	24.0	16.5	292.0	73.5	33.5	23.0	33.0
Merged-chr2-174076271-4	chr2	174076205	174076405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172675)	promoter-TSS (NM_172675)	-746.0	NM_172675	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	88.5	132.0	69.5	1410.5	211.5	98.5	128.0	101.5
Merged-chr15-34054946-3	chr15	34054852	34055052	+	725.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-27767.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	10.0	4.5	7.0	199.5	11.0	2.5	3.0	9.0
Merged-chr10-91142907-3	chr10	91142824	91143024	+	721.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18961.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	4.5	7.5	6.0	106.5	6.5	1.5	5.0	4.0
Merged-chr1-171825659-3	chr1	171825589	171825789	+	829.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14008.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	14.5	6.5	13.0	172.5	9.0	4.0	7.0	3.0
Merged-chr9-75434284-4	chr9	75434203	75434403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7221.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	81.5	147.0	66.5	1056.0	232.0	121.5	84.5	97.5
Merged-chr4-138980996-1	chr4	138980896	138981096	+	646.0	f0_c57.idr	intron (NM_029857, intron 2 of 16)	ORR1F|LTR|ERVL-MaLR	8091.0	NM_029857	77056.0	Mm.122336	NM_029857	ENSMUSG00000041143	Tmco4	4632413C14Rik|AI430825	transmembrane and coiled-coil domains 4	protein-coding	0.0	0.0	0.0	0.5	23.0	4.5	5.0	8.0
Merged-chr4-3648444-4	chr4	3648335	3648535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8071.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	26.0	41.5	37.5	586.5	78.0	37.0	66.5	53.5
Merged-chr10-94829583-4	chr10	94829491	94829691	+	824.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 20 of 30)	intron (NM_018797, intron 20 of 30)	114987.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	14.5	11.0	14.0	151.5	27.5	4.5	11.5	16.5
Merged-chr13-81783195-4	chr13	81783119	81783319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007684)	promoter-TSS (NM_007684)	-28.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	204.5	265.5	197.0	3307.0	626.5	247.0	284.0	238.5
Merged-chr8-90955391-1	chr8	90955291	90955491	+	674.0	f0_c57.idr	intron (NM_177224, intron 3 of 39)	intron (NM_177224, intron 3 of 39)	23142.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	5.0	11.0	2.5	66.5	17.5	12.5	13.0	9.0
Merged-chr10-26760599-4	chr10	26760505	26760705	+	680.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11907.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	7.5	10.0	9.0	73.5	22.5	2.0	5.0	5.0
Merged-chr3-36330829-4	chr3	36330726	36330926	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-108551.0	NM_198192	229214.0	Mm.330975	NM_198192	ENSMUSG00000058400	Qrfpr	AQ27|Gpr103|SP9155	pyroglutamylated RFamide peptide receptor	protein-coding	18.0	36.0	8.0	290.5	50.0	16.0	19.5	26.0
Merged-chr4-138434702-4	chr4	138434614	138434814	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026689)	promoter-TSS (NM_026689)	42.0	NM_026689	68350.0	Mm.103413	NM_026689	ENSMUSG00000041241	Mul1	0610009K11Rik|AV000801|Gide	mitochondrial ubiquitin ligase activator of NFKB 1	protein-coding	34.5	56.5	18.0	285.5	62.0	34.0	26.5	41.5
Merged-chr3-107781479-4	chr3	107781356	107781556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20987.0	NM_001113529	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	41.0	58.0	42.0	689.0	86.0	30.5	61.0	49.0
Merged-chr7-142460743-4	chr7	142460748	142460948	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271509)	promoter-TSS (NM_001271509)	36.0	NM_001136071	16985.0	Mm.234003	NM_019391	ENSMUSG00000018819	Lsp1	Lsp-1|WP34|p50|pp52	lymphocyte specific 1	protein-coding	10.0	11.5	10.5	149.0	53.0	22.5	18.5	18.0
Merged-chr7-128209903-4	chr7	128209806	128210006	+	940.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3540.0	NM_009943	12862.0	Mm.43824	NM_009943	ENSMUSG00000030785	Cox6a2	CoxVIaH|VIaH	cytochrome c oxidase subunit VIa polypeptide 2	protein-coding	35.0	62.0	12.5	119.0	63.0	26.0	18.5	22.5
Merged-chr1-161250787-2	chr1	161250693	161250893	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001303408, intron 1 of 5)	intron (NM_001303408, intron 1 of 5)	417.0	NM_007453	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	8.5	14.0	11.5	121.5	24.0	7.0	9.0	10.5
Merged-chr3-137864443-4	chr3	137864343	137864543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316995)	promoter-TSS (NM_001316995)	-44.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	295.5	405.5	239.5	3537.5	719.0	257.5	361.0	222.5
Merged-chr13-111924651-4	chr13	111924551	111924751	+	868.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56715.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	10.5	22.0	23.0	138.5	18.0	7.5	9.0	9.5
Merged-chr5-103754815-4	chr5	103754710	103754910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	237.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	33.0	76.5	61.0	580.5	163.0	63.0	57.5	81.5
Merged-chr5-150155656-4	chr5	150155560	150155760	+	859.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104270.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	9.5	13.5	5.5	100.0	38.5	13.5	23.0	13.0
Merged-chr8-47702516-4	chr8	47702423	47702623	+	908.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11408.0	NM_001359133	70925.0	Mm.393807	NM_172407	ENSMUSG00000038069	Cdkn2aip	4921511I16Rik|AW208986|CARF	CDKN2A interacting protein	protein-coding	7.5	24.5	18.5	352.5	21.5	20.5	14.0	6.5
Merged-chr11-26587285-2	chr11	26587185	26587385	+	860.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_027260, intron 2 of 12)	intron (NM_027260, intron 2 of 12)	6635.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	4.5	9.0	7.0	57.0	11.0	2.0	0.5	4.0
Merged-chr19-43786443-3	chr19	43786343	43786543	+	806.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013806, intron 2 of 31)	intron (NM_013806, intron 2 of 31)	4135.0	NM_013806	12780.0	Mm.39054	NM_013806	ENSMUSG00000025194	Abcc2	AI173996|Abc30|Cmoat|Mrp2|cMRP	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	protein-coding	2.0	5.0	11.5	35.0	22.0	8.5	14.0	7.5
Merged-chr5-99336056-1	chr5	99335956	99336156	+	675.0	f0_c57.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-83129.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	7.0	18.5	8.5	84.5	25.5	6.0	5.0	17.5
Merged-chr11-86819416-4	chr11	86819345	86819545	+	957.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11785.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	13.0	27.0	18.0	285.5	31.5	11.5	7.5	13.5
Merged-chr5-38220469-4	chr5	38220375	38220575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025281)	promoter-TSS (NM_025281)	-7.0	NM_025281	17089.0	Mm.28560	NM_025281	ENSMUSG00000067367	Lyar	MLZ-264	Ly1 antibody reactive clone	protein-coding	161.5	201.0	108.0	2567.0	377.5	196.0	183.0	204.5
Merged-chr6-114854309-3	chr6	114854193	114854393	+	854.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 19 of 19)	intron (NM_001253718, intron 19 of 19)	67528.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	6.0	9.0	9.5	109.5	15.5	2.5	8.0	6.0
Merged-chr4-125099755-3	chr4	125099629	125099829	+	868.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151472, intron 4 of 7)	intron (NR_151472, intron 4 of 7)	14595.0	NR_151472	70088.0	Mm.291214	NM_027310	ENSMUSG00000028863	Meaf6	2310005N01Rik|2810036M01Rik	MYST/Esa1-associated factor 6	protein-coding	13.0	14.0	3.0	96.0	20.5	13.0	6.0	6.0
Merged-chr11-68657122-4	chr11	68657010	68657210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34805.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	46.0	51.0	44.5	687.0	95.5	28.0	49.0	55.0
Merged-chr2-34799826-4	chr2	34799698	34799898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145522, exon 1 of 8)	5' UTR (NM_145522, exon 1 of 8)	114.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	59.0	73.5	47.0	471.0	90.5	52.0	60.0	38.5
Merged-chr18-88735852-3	chr18	88735746	88735946	+	808.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158361.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	6.0	8.5	2.0	180.5	22.5	5.0	6.0	12.0
Merged-chr14-63123831-4	chr14	63123713	63123913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	1351.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	96.5	153.5	143.5	1469.0	305.5	105.5	118.0	134.0
Merged-chr8-11174039-3	chr8	11173938	11174138	+	931.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138767.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	12.5	16.5	12.0	210.5	18.5	6.0	8.5	7.0
Merged-chr11-32221802-11	chr11	32221617	32221817	+	934.7727050000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010117, intron 1 of 17)	CpG	576.0	NM_010117	13650.0	Mm.11545	NM_010117	ENSMUSG00000020282	Rhbdf1	C16ORF8|Dist|Dist1|Egfr-rs|mKIAA4242	rhomboid 5 homolog 1	protein-coding	4.5	19.5	12.0	97.5	24.5	11.5	8.0	14.5
Merged-chr3-27939058-4	chr3	27938967	27939167	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164056, intron 1 of 26)	CpG	387.0	NM_001164056	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	17.0	21.5	28.0	214.5	14.5	11.5	14.0	24.0
Merged-chr2-71315521-4	chr2	71315432	71315632	+	979.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 5 of 17)	intron (NM_172436, intron 5 of 17)	52022.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	27.0	19.0	34.5	468.0	46.0	20.5	23.0	28.5
Merged-chr15-59845383-5	chr15	59845287	59845487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50428.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	14.5	21.0	34.0	274.0	22.0	5.0	11.0	18.5
Merged-chr19-53327950-2	chr19	53327850	53328050	+	939.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	intron (NM_001360348, intron 1 of 5)	-1463.0	NM_010847	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	5.0	6.0	5.0	62.5	5.5	4.0	1.5	2.5
Merged-chr14-34502032-2	chr14	34501932	34502132	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009758, intron 1 of 12)	CpG	514.0	NM_009758	12166.0	Mm.237825	NM_009758	ENSMUSG00000021796	Bmpr1a	1110037I22Rik|ALK-3|ALK3|AU045487|BMPR-1A|BMPR-IA|Bmpr|SKR5	bone morphogenetic protein receptor, type 1A	protein-coding	10.0	10.0	8.5	104.5	15.0	6.5	5.5	11.5
Merged-chr2-165914493-4	chr2	165914412	165914612	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29674.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	27.0	33.5	17.0	284.5	54.5	15.0	20.0	16.0
Merged-chr13-102690245-4	chr13	102690139	102690339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-3308.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	29.5	76.5	49.5	420.0	100.0	34.0	64.0	53.0
Merged-chr14-32932372-4	chr14	32932276	32932476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178791, intron 7 of 7)	intron (NM_178791, intron 7 of 7)	-59006.0	NM_001146021	67580.0	Mm.46115	NM_026253	ENSMUSG00000041673	Lrrc18	4930442L21Rik|MTLR1	leucine rich repeat containing 18	protein-coding	41.5	72.5	52.5	415.0	90.5	41.0	46.0	12.0
Merged-chr8-92818348-4	chr8	92818237	92818437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8960.0	NM_008610	17390.0	Mm.29564	NM_008610	ENSMUSG00000031740	Mmp2	Clg4a|GelA|MMP-2	matrix metallopeptidase 2	protein-coding	73.5	106.5	69.0	1341.0	179.5	52.0	78.5	62.5
Merged-chr6-17646282-4	chr6	17646246	17646446	+	615.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	intron (NM_007604, intron 1 of 9)	9336.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	7.5	3.5	8.0	82.0	19.5	10.0	8.5	6.5
Merged-chr2-169926721-2	chr2	169926621	169926821	+	637.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36466.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	6.0	6.0	10.5	77.5	23.5	4.5	6.5	14.0
Merged-chr16-57518840-2	chr16	57518740	57518940	+	880.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-30402.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	2.5	6.0	5.0	139.0	14.0	9.0	9.0	8.5
Merged-chr12-21417719-4	chr12	21417603	21417803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011739)	promoter-TSS (NM_011739)	-267.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	204.5	307.0	203.5	3613.0	485.5	171.0	236.5	169.5
Merged-chr7-132304649-3	chr7	132304603	132304803	+	861.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029935, intron 1 of 7)	intron (NM_029935, intron 1 of 7)	-10961.0	NR_028578	100043682.0	Mm.482794	NR_028578	ENSMUSG00000109270	Gm10584	-	predicted gene 10584	ncRNA	1.0	10.5	8.0	22.0	9.5	4.5	7.0	12.5
Merged-chr13-60701975-4	chr13	60701784	60701984	+	968.15625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 3 of 26)	intron (NM_134062, intron 3 of 26)	84480.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	51.5	74.0	73.5	1172.5	52.5	23.5	48.5	46.5
Merged-chr19-57436664-3	chr19	57436574	57436774	+	772.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16232.0	NM_029839	72133.0	Mm.258404	NM_028115	ENSMUSG00000025086	Trub1	2610009I02Rik|9030425C13Rik|AI448235|BB118943|C76870	TruB pseudouridine (psi) synthase family member 1	protein-coding	4.5	4.5	10.0	124.5	3.0	0.0	1.5	1.5
Merged-chr17-35222452-4	chr17	35222360	35222560	+	820.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010909, intron 2 of 3)	intron (NM_010909, intron 2 of 3)	-12550.0	NM_001347351	66237.0	Mm.396107	NM_023179	ENSMUSG00000024403	Atp6v1g2	1500002D01Rik|Atp6g2|NG38|VAG2	ATPase, H+ transporting, lysosomal V1 subunit G2	protein-coding	12.0	16.0	10.5	92.0	33.5	11.5	13.5	3.5
Merged-chr1-13424718-4	chr1	13424619	13424819	+	975.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-50636.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	14.5	25.5	9.0	299.0	64.0	18.5	23.5	22.5
Merged-chr19-10458307-4	chr19	10458199	10458399	+	868.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111140)	promoter-TSS (NM_001111140)	-852.0	NM_001111140	278795.0	Mm.490638	NM_001111140	ENSMUSG00000090291	Lrrc10b	Gm705|SerdinR	leucine rich repeat containing 10B	protein-coding	15.0	14.0	15.5	221.5	33.5	3.5	10.0	11.5
Merged-chr14-54771183-4	chr14	54771066	54771266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	10720.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	19.0	25.0	2.5	257.0	71.5	40.5	31.0	21.0
Merged-chr10-24133387-4	chr10	24133302	24133502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15887.0	NM_001358563	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	32.5	58.5	28.0	573.0	72.5	30.0	31.5	32.5
Merged-chr11-100441118-4	chr11	100441019	100441219	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026561)	promoter-TSS (NM_026561)	-30.0	NM_001102650	68106.0	Mm.28738	NM_026561	ENSMUSG00000017176	Nt5c3b	2610037D24Rik|AI841843|C330027I04Rik|Nt5c3l	5'-nucleotidase, cytosolic IIIB	protein-coding	35.0	26.0	29.5	339.0	73.0	21.5	39.0	18.5
Merged-chr11-100737354-4	chr11	100737267	100737467	+	887.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	intron (NM_001305003, intron 1 of 5)	848.0	NM_024456	19345.0	Mm.29829	NM_024456	ENSMUSG00000019173	Rab5c	AI326010|Rabl	RAB5C, member RAS oncogene family	protein-coding	7.5	18.0	8.5	139.5	23.5	1.5	6.5	19.5
Merged-chr11-61410357-2	chr11	61410257	61410457	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-32282.0	NM_026183	67473.0	Mm.100741	NM_026183	ENSMUSG00000010122	Slc47a1	1300013J15Rik|AI036982|MATE1|mMATE1	solute carrier family 47, member 1	protein-coding	7.0	4.5	3.5	69.0	22.0	5.5	6.5	9.0
Merged-chr10-7064310-4	chr10	7064215	7064415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41130.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	91.5	130.0	118.0	2236.0	188.5	54.0	107.0	124.0
Merged-chr9-57131253-4	chr9	57131151	57131351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102289)	promoter-TSS (NR_102289)	39.0	NR_102289	76794.0	Mm.472839	NR_102289	ENSMUSG00000086728	Man2c1os	2410133F24Rik|AI851351	mannosidase, alpha, class 2C, member 1, opposite strand	ncRNA	52.0	82.0	47.0	767.5	181.0	51.0	64.5	40.5
Merged-chr1-88655321-4	chr1	88655228	88655428	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46863.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	19.5	16.0	26.5	301.5	23.5	19.5	17.0	14.5
Merged-chr2-91487540-2	chr2	91487440	91487640	+	875.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 19 of 37)	B2_Mm2|SINE|B2	30009.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	4.0	5.5	0.0	21.5	22.0	7.5	6.0	7.0
Merged-chr11-83562440-3	chr11	83562318	83562518	+	879.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16218.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	8.5	12.0	6.0	79.0	24.5	3.0	5.5	8.0
Merged-chr4-35950138-3	chr4	35950033	35950233	+	941.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	MLT1G1|LTR|ERVL-MaLR	-104929.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	16.5	11.5	12.0	313.0	15.5	6.0	5.0	11.0
Merged-chr8-46861284-3	chr8	46861150	46861350	+	753.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	121505.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	1.0	7.5	9.5	41.5	7.5	7.0	5.5	5.0
Merged-chr2-79636192-4	chr2	79636097	79636297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080558, intron 2 of 17)	CpG-8223	772.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	62.5	82.5	84.0	1327.5	266.0	79.5	139.5	94.0
Merged-chr18-63484923-4	chr18	63484818	63485018	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97735.0	NM_001039485	667742.0	Mm.158720	NM_172629	ENSMUSG00000041482	Piezo2	5930434P17|9030411M15Rik|9430028L06Rik|Fam38b|Fam38b2	piezo-type mechanosensitive ion channel component 2	protein-coding	13.0	7.5	8.0	243.0	10.5	7.0	11.0	13.0
Merged-chr5-130254458-4	chr5	130254363	130254563	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023248, intron 1 of 4)	intron (NM_023248, intron 1 of 4)	1067.0	NM_023248	66711.0	Mm.280484	NM_023248	ENSMUSG00000025337	Sbds	4733401P19Rik|AI836084|CGI-97|SDS	SBDS ribosome maturation factor	protein-coding	10.0	23.0	9.0	106.5	41.0	19.5	23.5	9.5
Merged-chr16-13903118-4	chr16	13903043	13903243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053181)	promoter-TSS (NM_053181)	2.0	NM_001039533	94184.0	Mm.171484	NM_053181	ENSMUSG00000022680	Pdxdc1	2210010A19Rik|AA415817|Kiaa0251-hp	pyridoxal-dependent decarboxylase domain containing 1	protein-coding	164.5	196.5	123.5	2585.0	502.5	191.0	226.5	157.5
Merged-chr1-36572930-4	chr1	36572806	36573006	+	843.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-14525.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	13.5	14.0	12.5	101.5	23.5	16.5	11.5	14.0
Merged-chr4-63897391-3	chr4	63897279	63897479	+	623.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36095.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	5.0	6.5	8.5	166.5	4.5	6.0	5.0	6.5
Merged-chr10-84060755-3	chr10	84060656	84060856	+	950.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152790, intron 2 of 4)	intron (NR_152790, intron 2 of 4)	39941.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	9.5	5.5	9.0	158.5	9.0	2.5	4.5	3.0
Merged-chr10-78028253-4	chr10	78028118	78028318	+	869.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14069.0	NM_001081695	54427.0	Mm.13433	NM_019448	ENSMUSG00000000730	Dnmt3l	D6Ertd14e|ecat7	DNA (cytosine-5-)-methyltransferase 3-like	protein-coding	12.5	6.5	5.0	128.0	20.0	6.5	6.0	11.0
Merged-chr18-34751642-4	chr18	34751541	34751741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009860)	promoter-TSS (NM_009860)	-108.0	NM_009860	12532.0	Mm.286602	NM_009860	ENSMUSG00000044201	Cdc25c	Cdc25	cell division cycle 25C	protein-coding	219.0	353.0	143.5	3050.5	545.0	201.0	234.0	207.0
Merged-chr19-61244897-4	chr19	61244794	61244994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16476.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	83.0	111.5	108.5	1404.5	199.0	75.0	92.0	71.5
Merged-chr2-154285552-4	chr2	154285440	154285640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21704.0	NM_001025574	433492.0	Mm.330682	NM_001025574	ENSMUSG00000067996	Bpifb9b	5430413K10Rik|AI413838	BPI fold containing family B, member 9B	protein-coding	28.0	26.5	23.5	209.5	48.0	19.0	30.0	11.0
Merged-chr17-57338202-4	chr17	57338092	57338292	+	923.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20494.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	16.0	18.0	10.5	249.0	47.5	19.5	12.5	13.0
Merged-chr5-21295849-4	chr5	21295741	21295941	+	921.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 17 of 18)	intron (NM_029195, intron 17 of 18)	-76832.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	15.5	32.5	25.5	273.5	24.5	17.5	15.5	7.0
Merged-chr10-59265329-4	chr10	59265240	59265440	+	915.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43418.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	16.0	21.5	13.0	273.0	49.5	12.5	15.0	11.0
Merged-chr10-44691745-4	chr10	44691630	44691830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-232982.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	149.5	185.0	132.0	1704.5	199.5	77.5	101.5	80.5
Merged-chr9-41161649-4	chr9	41161629	41161829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3667.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	53.5	137.5	67.0	718.0	296.5	103.0	102.5	50.0
Merged-chr6-72735375-4	chr6	72735256	72735456	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	intron (NM_001079822, intron 3 of 12)	53689.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	33.5	34.0	30.5	715.5	93.5	17.5	54.5	55.5
Merged-chr1-152608987-4	chr1	152608889	152609089	+	944.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	16228.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	11.5	19.5	15.5	168.0	30.5	15.0	19.0	6.5
Merged-chr11-95688618-4	chr11	95688509	95688709	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21652.0	NM_008831	18673.0	Mm.263862	NM_008831	ENSMUSG00000038845	Phb	Bap32	prohibitin	protein-coding	30.0	39.0	24.5	419.5	51.5	26.0	11.5	37.5
Merged-chr11-85838110-3	chr11	85837989	85838189	+	832.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009324, exon 6 of 7)	exon (NM_009324, exon 6 of 7)	5474.0	NM_009324	21385.0	Mm.287052	NM_009324	ENSMUSG00000000093	Tbx2	-	T-box 2	protein-coding	5.5	4.5	7.0	37.0	5.0	1.5	4.0	7.0
Merged-chr5-32139693-5	chr5	32139616	32139816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008037, intron 1 of 3)	intron (NM_008037, intron 1 of 3)	3244.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	14.5	37.0	19.0	218.0	70.0	28.0	23.5	18.0
Merged-chr5-138265176-4	chr5	138265081	138265281	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347507, exon 4 of 4)	3' UTR (NM_001347507, exon 4 of 4)	-1129.0	NM_153161	231807.0	Mm.164493	NM_153161	ENSMUSG00000036948	BC037034	-	cDNA sequence BC037034	protein-coding	8.0	18.5	12.5	233.0	32.0	18.0	9.5	7.0
Merged-chr10-93242344-4	chr10	93242242	93242442	+	942.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_146239)	TTS (NM_146239)	68817.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	5.0	19.5	30.5	409.5	28.5	8.0	26.0	19.0
Merged-chr7-66079620-4	chr7	66079520	66079720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024439)	promoter-TSS (NM_024439)	-29.0	NM_001348246	109815.0	Mm.482127	NM_024439	ENSMUSG00000075701	Selenos	1500011E07Rik|C78786|H-4|H-47|H4|H47|Sels|Vimp	selenoprotein S	protein-coding	277.5	472.5	270.0	4526.0	643.0	255.5	316.0	251.5
Merged-chr11-29151747-4	chr11	29151665	29151865	+	979.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027869, intron 18 of 27)	ORR1D2|LTR|ERVL-MaLR	21014.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	49.5	80.5	28.0	397.5	95.5	29.5	36.0	17.5
Merged-chr11-95337445-3	chr11	95337340	95337540	+	915.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172543, intron 1 of 7)	CpG	422.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	12.0	12.5	10.5	138.5	14.5	8.0	3.5	18.0
Merged-chr6-29348042-4	chr6	29347942	29348142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_184053)	promoter-TSS (NM_184053)	-64.0	NM_001285412	12321.0	Mm.392075	NM_007594	ENSMUSG00000029767	Calu	9530075H20Rik	calumenin	protein-coding	273.0	429.5	191.5	3892.0	569.5	200.0	251.0	195.5
Merged-chr1-85650021-3	chr1	85649923	85650123	+	735.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313712)	promoter-TSS (NM_001313712)	35.0	NM_001313714	20684.0	Mm.290906	NM_013673	ENSMUSG00000026222	Sp100	A430075G10Rik	nuclear antigen Sp100	protein-coding	10.5	15.5	20.0	83.5	23.0	6.0	3.5	10.5
Merged-chr14-16454833-4	chr14	16454743	16454943	+	944.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289760, intron 5 of 9)	GA-rich|Low_complexity|Low_complexity	89637.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	24.5	18.0	21.0	295.5	42.5	15.0	2.5	11.5
Merged-chr7-25719044-4	chr7	25718929	25719129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028771)	promoter-TSS (NM_028771)	24.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	38.0	34.0	20.0	352.0	64.5	26.0	16.0	45.0
Merged-chr17-57341757-4	chr17	57341662	57341862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16924.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	66.5	55.5	80.0	1243.0	162.0	34.0	73.0	76.5
Merged-chr17-44831390-3	chr17	44831289	44831489	+	731.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178652, intron 2 of 11)	RMER17C|LTR|ERVK	-16592.0	NR_073392	12393.0	Mm.391013	NM_009820	ENSMUSG00000039153	Runx2	AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a	runt related transcription factor 2	protein-coding	13.0	14.0	10.5	96.5	9.0	0.5	8.0	10.5
Merged-chr2-73397122-4	chr2	73397028	73397228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10648.0	NM_001276444	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	42.0	66.0	61.5	870.5	60.5	29.0	45.0	54.0
Merged-chr14-31495093-4	chr14	31494967	31495167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359850)	promoter-TSS (NM_001359850)	-12.0	NM_028932	74427.0	Mm.491208	NM_028932	ENSMUSG00000021890	Eaf1	4933403C17Rik|AI666536	ELL associated factor 1	protein-coding	62.5	92.5	49.0	1017.0	179.0	58.0	76.0	75.5
Merged-chr4-109214190-3	chr4	109214086	109214286	+	988.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4227.0	NM_001285895	108802.0	Mm.318248	NM_001033226	ENSMUSG00000028558	Calr4	4933403L16Rik|AU017583	calreticulin 4	protein-coding	23.0	24.5	19.0	353.0	28.0	9.5	20.0	1.0
Merged-chr2-58035860-3	chr2	58035781	58035981	+	699.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172855, intron 9 of 9)	intron (NM_172855, intron 9 of 9)	16871.0	NM_029972	77767.0	Mm.91712	NM_029972	ENSMUSG00000026830	Ermn	A330104H05Rik|AI854460|ermin|mKIAA1189	ermin, ERM-like protein	protein-coding	6.5	8.5	5.0	76.0	6.0	4.0	5.5	3.0
Merged-chr12-69132191-3	chr12	69132110	69132310	+	688.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	26976.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	11.5	15.0	6.0	54.5	15.5	3.0	11.0	4.5
Merged-chr1-87653279-1	chr1	87653179	87653379	+	542.0	f0_balb.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	32967.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	8.5	5.0	14.5	33.5	18.5	2.5	7.5	7.0
Merged-chr4-97936559-4	chr4	97936469	97936669	+	889.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	158943.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	12.0	5.5	15.5	330.5	32.5	3.0	15.0	13.5
Merged-chr19-55217785-4	chr19	55217675	55217875	+	958.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 12 of 20)	intron (NM_001081076, intron 12 of 20)	23461.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	18.5	57.5	20.0	123.5	49.5	19.0	5.5	13.5
Merged-chr18-39140732-4	chr18	39140634	39140834	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 10 of 21)	intron (NM_001361073, intron 10 of 21)	147589.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	23.0	23.5	17.5	498.0	36.0	22.0	23.5	21.5
Merged-chr11-29515035-4	chr11	29514902	29515102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026465)	promoter-TSS (NM_026465)	31.0	NM_026465	67939.0	Mm.251087	NM_026465	ENSMUSG00000032673	Prorsd1	2010316F05Rik|Ncrna00117|Prdxdd1	prolyl-tRNA synthetase domain containing 1	protein-coding	55.5	78.5	63.0	889.0	177.0	56.5	77.0	64.5
Merged-chr13-65241041-4	chr13	65240976	65241176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35360.0	NM_175290	97895.0	Mm.315815	NM_175290	ENSMUSG00000032999	Nlrp4f	C330026N02Rik|C86045|Nalp-kappa|Nalp4f	NLR family, pyrin domain containing 4F	protein-coding	56.0	111.0	98.5	805.0	199.0	100.0	79.5	74.5
Merged-chr14-45659763-4	chr14	45659670	45659870	+	831.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1627.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	22.5	16.5	7.5	142.0	23.0	7.5	9.5	9.5
Merged-chr5-23783659-4	chr5	23783560	23783760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289780)	promoter-TSS (NM_001289780)	51.0	NM_001289780	78697.0	Mm.58660	NM_178403	ENSMUSG00000057541	Pus7	C330017I15Rik	pseudouridylate synthase 7	protein-coding	85.0	99.5	62.0	1300.5	176.0	51.0	104.0	65.0
Merged-chr19-55315928-4	chr19	55315832	55316032	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293685)	promoter-TSS (NM_001293685)	104.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	15.5	36.5	24.0	238.0	43.5	29.5	11.0	19.0
Merged-chr6-53460136-4	chr6	53460024	53460224	+	963.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-113250.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	4.0	26.0	23.0	217.5	30.5	4.5	15.0	16.0
Merged-chr9-72530437-4	chr9	72530324	72530524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045735, intron 1 of 2)	intron (NR_045735, intron 1 of 2)	1434.0	NR_045735	75115.0	Mm.280755	NR_045735	ENSMUSG00000096986	4930509E16Rik	-	RIKEN cDNA 4930509E16 gene	ncRNA	27.5	78.0	36.0	523.5	127.5	55.5	56.0	52.0
Merged-chr2-152737441-5	chr2	152737311	152737511	+	921.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010495)	TTS (NM_010495)	1160.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	8.0	12.5	2.0	62.0	20.5	9.0	12.5	6.0
Merged-chr7-118479992-3	chr7	118479902	118480102	+	797.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	11973.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	5.0	20.5	2.5	45.5	15.5	7.0	5.5	10.0
Merged-chr10-59879573-4	chr10	59879492	59879692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019965)	promoter-TSS (NM_019965)	1.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	107.0	170.5	121.5	1502.0	274.0	153.0	160.0	133.0
Merged-chr1-86492919-4	chr1	86492817	86493017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33640.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	35.5	67.0	46.5	984.5	96.0	31.5	52.0	54.0
Merged-chr6-94536509-4	chr6	94536414	94536614	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026255, intron 5 of 9)	intron (NM_026255, intron 5 of 9)	36200.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	7.0	11.5	16.5	307.5	18.0	3.0	27.0	20.0
Merged-chr18-4368431-4	chr18	4368334	4368534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040328, intron 3 of 3)	ORR1E|LTR|ERVL-MaLR	-7158.0	NM_001361008	67440.0	Mm.49826	NM_026157	ENSMUSG00000024234	Mtpap	0610027A18Rik|AW551379|Papd1	mitochondrial poly(A) polymerase	protein-coding	32.0	56.5	18.0	261.0	95.0	27.0	26.0	26.5
Merged-chr3-89213974-4	chr3	89213873	89214073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013604, exon 1 of 8)	exon (NM_013604, exon 1 of 8)	362.0	NM_013604	17827.0	Mm.280943	NM_013604	ENSMUSG00000064068	Mtx1	Gcap6|Mtx	metaxin 1	protein-coding	53.5	70.5	38.0	616.0	114.0	39.5	40.0	36.5
Merged-chr1-195092319-4	chr1	195092205	195092405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132621)	promoter-TSS (NR_132621)	-57.0	NM_010778	17221.0	Mm.12884	NM_010778	ENSMUSG00000016493	Cd46	Mcp	CD46 antigen, complement regulatory protein	protein-coding	29.5	47.5	48.5	872.5	71.0	26.0	43.0	27.5
Merged-chr16-36633780-4	chr16	36633683	36633883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	32294.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	20.0	44.0	29.5	354.0	97.0	42.0	50.0	37.0
Merged-chr5-104032613-4	chr5	104032528	104032728	+	761.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10832.0	NM_053262	114664.0	Mm.46019	NM_053262	ENSMUSG00000029311	Hsd17b11	Dhrs8|Pan1b|SDR2|retSDR2	hydroxysteroid (17-beta) dehydrogenase 11	protein-coding	14.0	21.0	11.0	127.5	24.0	16.5	15.0	12.5
Merged-chr19-37370060-2	chr19	37369960	37370160	+	675.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-6343.0	NM_010615	16551.0	Mm.42203	NM_010615	ENSMUSG00000012443	Kif11	Eg5|Kif8|Kifl1|Knsl1	kinesin family member 11	protein-coding	6.0	11.0	12.5	36.0	16.5	3.0	5.5	3.5
Merged-chr13-100678047-2	chr13	100677947	100678147	+	974.083374	f1_balb.idr|f1_c57bl6.idr	exon (NM_183115, exon 2 of 12)	exon (NM_183115, exon 2 of 12)	8566.0	NM_001168386	76041.0	Mm.23977	NM_183115	ENSMUSG00000048924	Ccdc125	5830436D01Rik|AL023012	coiled-coil domain containing 125	protein-coding	6.0	2.5	3.0	64.5	9.5	5.5	8.5	15.5
Merged-chr5-103774882-2	chr5	103774782	103774982	+	714.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	20309.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	7.5	9.0	2.5	39.0	11.5	10.0	6.5	5.5
Merged-chr5-103754085-4	chr5	103753993	103754193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080798)	promoter-TSS (NM_001080798)	-69.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	58.0	132.0	102.0	979.0	194.0	104.5	122.5	80.0
Merged-chr19-25137732-3	chr19	25137652	25137852	+	737.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 23 of 47)	intron (NM_028785, intron 23 of 47)	-99223.0	NM_181404	107351.0	Mm.260722	NM_181404	ENSMUSG00000032702	Kank1	A930031B09Rik|AU015049|AW121052|Ankrd15|D330024H06Rik|mKIAA0172	KN motif and ankyrin repeat domains 1	protein-coding	3.5	7.5	4.0	63.5	32.5	7.0	10.0	11.0
Merged-chr9-89256743-4	chr9	89256640	89256840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	45356.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	134.5	152.0	118.0	1601.0	249.5	88.5	89.5	76.5
Merged-chr11-53772724-4	chr11	53772629	53772829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159393, intron 2 of 9)	intron (NM_001159393, intron 2 of 9)	2256.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	47.5	90.0	50.0	921.5	171.5	63.0	73.5	50.5
Merged-chr10-127167453-4	chr10	127167348	127167548	+	964.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027739, intron 3 of 9)	intron (NM_027739, intron 3 of 9)	1617.0	NM_001358578	14421.0	Mm.386762	NM_008080	ENSMUSG00000006731	B4galnt1	4933429D13Rik|Gal-NAc-T|GalNAc-T|GalNAcT|Galgt1|Ggm-2|Ggm2	beta-1,4-N-acetyl-galactosaminyl transferase 1	protein-coding	13.5	22.5	9.0	236.5	17.5	9.0	25.5	20.0
Merged-chr7-88318751-4	chr7	88318685	88318885	+	899.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	40700.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	14.0	14.0	13.5	146.0	22.0	12.5	10.5	6.5
Merged-chr2-90453606-2	chr2	90453506	90453706	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 11 of 23)	intron (NM_008982, intron 11 of 23)	25568.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	0.0	3.5	3.0	61.5	6.0	4.5	5.0	6.0
Merged-chr2-104685597-4	chr2	104685513	104685713	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177190, intron 7 of 9)	intron (NM_177190, intron 7 of 9)	26549.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	8.0	18.5	3.5	146.5	38.0	8.0	16.5	10.0
Merged-chr17-25184518-4	chr17	25184425	25184625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183150)	promoter-TSS (NM_183150)	-36.0	NM_183150	214489.0	Mm.274433	NM_183150	ENSMUSG00000067722	BC003965	Ccsmst1	cDNA sequence BC003965	protein-coding	72.0	96.0	55.5	826.5	223.5	74.5	73.0	98.0
Merged-chr15-59646921-4	chr15	59646823	59647023	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1731.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	41.5	55.0	36.5	640.0	73.5	17.5	30.0	57.5
Merged-chr1-144335870-4	chr1	144335762	144335962	+	920.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86758.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	13.5	13.5	13.0	358.5	63.0	5.0	20.0	14.0
Merged-chr13-56633896-3	chr13	56633774	56633974	+	708.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 12 of 16)	intron (NR_155548, intron 12 of 16)	24288.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	13.0	8.5	10.5	105.0	6.5	3.5	6.5	7.5
Merged-chr14-64639763-4	chr14	64639658	64639858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12773.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	48.5	68.0	60.0	1239.0	114.5	42.5	59.0	50.0
Merged-chr11-67563362-4	chr11	67563251	67563451	+	991.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	-23149.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	11.0	72.0	16.5	238.5	132.0	58.5	53.5	42.5
Merged-chr5-125340049-6	chr5	125339833	125340033	+	816.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	1161.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	1.0	3.5	5.5	26.0	17.5	5.0	9.5	7.0
Merged-chr15-79516399-4	chr15	79516381	79516581	+	930.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134090)	promoter-TSS (NM_134090)	73.0	NM_134090	105785.0	Mm.298199	NM_134090	ENSMUSG00000010830	Kdelr3	AI173274	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	protein-coding	16.0	27.5	16.0	173.5	28.5	9.5	6.0	11.5
Merged-chr4-132510548-4	chr4	132510440	132510640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144907)	promoter-TSS (NM_144907)	-84.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	154.0	220.5	127.5	1627.5	450.0	156.5	160.5	156.0
Merged-chr18-20961611-4	chr18	20961534	20961734	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026301, intron 1 of 5)	CpG	17009.0	NM_026301	67664.0	Mm.45980	NM_026301	ENSMUSG00000033107	Rnf125	4930553F04Rik	ring finger protein 125	protein-coding	14.0	15.0	21.5	250.0	19.5	14.0	14.5	20.0
Merged-chr5-101968105-4	chr5	101968010	101968210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 5 of 66)	MTD|LTR|ERVL-MaLR	101811.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	80.5	152.5	79.0	1301.5	198.5	67.5	90.5	101.5
Merged-chr4-119178490-4	chr4	119178368	119178568	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013848, exon 13 of 13)	exon (NM_013848, exon 13 of 13)	-4273.0	NM_001145936	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	1.0	8.0	8.0	82.5	270.0	60.0	111.5	74.0
Merged-chr12-85288638-4	chr12	85288532	85288732	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172414)	promoter-TSS (NM_172414)	41.0	NM_172414	72350.0	Mm.158810	NM_172414	ENSMUSG00000045064	Zc2hc1c	2810002I04Rik|AV046379|Fam164c	zinc finger, C2HC-type containing 1C	protein-coding	66.0	57.5	15.0	475.0	140.5	63.0	36.0	19.5
Merged-chr17-78249817-3	chr17	78249685	78249885	+	775.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	intron (NM_015800, intron 2 of 16)	49537.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	10.0	9.0	6.5	106.0	17.0	2.5	8.0	8.5
Merged-chr4-8913326-4	chr4	8913207	8913407	+	965.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161983.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	20.5	15.0	22.5	256.0	77.5	17.5	33.5	26.0
Merged-chr3-101600426-4	chr3	101600321	101600521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	4286.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	60.5	69.0	51.0	1013.0	124.5	40.5	55.5	72.5
Merged-chr17-29437409-4	chr17	29437306	29437506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-53639.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	183.0	240.5	191.5	1730.5	565.5	197.0	321.0	196.0
Merged-chr10-84340327-4	chr10	84340213	84340413	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100158.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	32.0	27.0	59.0	811.5	51.5	17.5	35.0	18.0
Merged-chr4-33242691-4	chr4	33242603	33242803	+	823.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	6084.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	16.0	50.5	23.0	133.5	40.5	10.5	7.0	13.5
Merged-chr12-32793918-3	chr12	32793835	32794035	+	810.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26400.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	8.0	41.5	7.0	174.5	5.0	2.0	2.0	2.0
Merged-chr1-176074791-3	chr1	176074665	176074865	+	907.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357846, intron 2 of 8)	intron (NM_001357846, intron 2 of 8)	139177.0	NM_001357845	319455.0	Mm.338001	NM_176916	ENSMUSG00000055214	Pld5	B230365F16Rik	phospholipase D family, member 5	protein-coding	8.0	13.5	8.5	183.5	5.0	1.5	2.0	6.0
Merged-chr17-80295401-2	chr17	80295301	80295501	+	714.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360440, intron 2 of 3)	intron (NM_001360440, intron 2 of 3)	-4925.0	NM_001163759	106794.0	Mm.12412	NM_198942	ENSMUSG00000035051	Dhx57	AW494914	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	protein-coding	4.5	6.5	6.0	181.0	18.0	2.5	17.0	8.0
Merged-chr11-70845233-2	chr11	70845133	70845333	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291141, intron 1 of 16)	G-rich|Low_complexity|Low_complexity	472.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	11.0	25.0	9.0	242.5	29.0	24.5	9.0	16.5
Merged-chr7-141168016-4	chr7	141167955	141168155	+	934.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172100, intron 1 of 9)	intron (NM_001172100, intron 1 of 9)	631.0	NM_001172101	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	12.5	18.0	8.5	127.5	28.0	8.0	11.5	10.5
Merged-chr17-35030303-1	chr17	35030203	35030403	+	885.0	f1_balb.idr	intron (NM_013600, intron 19 of 23)	intron (NM_013600, intron 19 of 23)	-2287.0	NM_023893	78376.0	Mm.390966	NM_023893	ENSMUSG00000036185	Sapcd1	2810436B06Rik|G7d|Ng23	suppressor APC domain containing 1	protein-coding	0.0	1.5	0.5	5.0	19.5	7.0	5.5	9.0
Merged-chr1-156010220-3	chr1	156010121	156010321	+	878.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144791, intron 6 of 6)	MTB|LTR|ERVL-MaLR	24596.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	4.0	4.0	3.0	7.0	29.5	9.0	10.5	20.0
Merged-chr2-84660470-4	chr2	84660381	84660581	+	921.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145100, intron 2 of 4)	intron (NM_001145100, intron 2 of 4)	1402.0	NM_001145100	100270744.0	Mm.393636	NM_001145100	ENSMUSG00000086598	Btbd18	Btbd18-ps|Gm13718	BTB (POZ) domain containing 18	protein-coding	12.0	20.5	3.0	224.5	30.5	10.0	14.0	7.5
Merged-chr13-119428891-4	chr13	119428794	119428994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145457)	promoter-TSS (NM_145457)	-8.0	NM_145457	218693.0	Mm.490243	NM_145457	ENSMUSG00000025451	Paip1	PAIP-1	polyadenylate binding protein-interacting protein 1	protein-coding	70.0	79.0	78.5	1272.5	202.5	71.5	100.5	59.0
Merged-chr1-171232029-4	chr1	171231936	171232136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010185, intron 1 of 4)	intron (NM_010185, intron 1 of 4)	2313.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	29.0	79.0	58.5	523.5	64.5	20.5	25.5	33.5
Merged-chr4-135899280-4	chr4	135899170	135899370	+	815.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009924, intron 1 of 1)	intron (NM_009924, intron 1 of 1)	4081.0	NM_009924	12802.0	Mm.297251	NM_009924	ENSMUSG00000062585	Cnr2	CB-2|CB2|CB2-R	cannabinoid receptor 2 (macrophage)	protein-coding	16.5	19.5	9.0	331.5	21.0	12.0	10.5	15.5
Merged-chr3-58376939-4	chr3	58376841	58377041	+	884.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37779.0	NM_001081229	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	12.0	13.5	13.5	181.5	18.5	11.0	13.0	20.5
Merged-chr5-137825271-4	chr5	137825157	137825357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153510, intron 4 of 6)	intron (NM_153510, intron 4 of 6)	11021.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	53.0	83.0	40.5	836.0	127.5	50.0	38.5	44.5
Merged-chr5-24729859-2	chr5	24729759	24729959	+	808.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081441, intron 1 of 5)	intron (NM_001081441, intron 1 of 5)	821.0	NM_001081441	269633.0	Mm.392539	NM_026621	ENSMUSG00000055235	Wdr86	2810046M22Rik|BC059069	WD repeat domain 86	protein-coding	5.0	10.5	7.5	62.5	14.0	3.0	6.0	13.5
Merged-chr8-3515430-4	chr8	3515320	3515520	+	971.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015801)	promoter-TSS (NM_015801)	36.0	NM_015801	50767.0	Mm.23085	NM_015801	ENSMUSG00000004565	Pnpla6	AI661849|MSws|Nte	patatin-like phospholipase domain containing 6	protein-coding	17.0	21.0	20.0	331.0	45.5	10.5	26.5	23.0
Merged-chr10-19957985-4	chr10	19957889	19958089	+	925.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	MLT1A0|LTR|ERVL-MaLR	23463.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	12.5	74.5	14.5	144.0	34.5	12.0	6.0	8.0
Merged-chr5-125363495-1	chr5	125363395	125363595	+	744.5	f0_balb.idr	Intergenic	Intergenic	-22401.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	13.5	6.0	10.5	104.0	8.0	3.0	4.5	8.5
Merged-chr9-50856486-3	chr9	50856417	50856617	+	733.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034085)	promoter-TSS (NM_001034085)	-407.0	NM_001034085	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	12.5	0.0	3.0	8.0	55.0	15.0	24.5	17.0
Merged-chr11-114679239-2	chr11	114679139	114679339	+	830.125	f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	PB1|SINE|Alu	3771.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	2.5	11.5	2.0	20.0	14.0	6.0	5.5	7.0
Merged-chr10-44607472-4	chr10	44607372	44607572	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148724.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	30.0	41.5	11.0	412.5	57.5	29.0	20.0	24.5
Merged-chr13-37751719-4	chr13	37751608	37751808	+	960.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74330.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	25.0	33.5	26.5	441.0	44.0	14.0	13.0	20.0
Merged-chr2-19038365-4	chr2	19038273	19038473	+	942.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40054.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	22.5	19.5	9.0	324.0	69.0	12.0	11.5	31.0
Merged-chr3-51882116-4	chr3	51882029	51882229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	220950.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	42.0	29.0	38.5	463.5	47.5	19.0	32.5	22.5
Merged-chr8-94602635-3	chr8	94602611	94602811	+	994.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028221)	promoter-TSS (NM_028221)	770.0	NM_026274	67610.0	Mm.109074	NM_026274	ENSMUSG00000050079	Rspry1	4930470D19Rik|AI608258	ring finger and SPRY domain containing 1	protein-coding	4.5	8.0	5.5	45.0	20.0	7.0	8.5	8.5
Merged-chr19-3912889-4	chr19	3912793	3912993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144870)	promoter-TSS (NM_144870)	-119.0	NM_001271444	225887.0	Mm.44227	NM_144870	ENSMUSG00000059734	Ndufs8	BC021616|CI-23kD|TYKY	NADH dehydrogenase (ubiquinone) Fe-S protein 8	protein-coding	230.0	418.0	249.0	3046.0	518.0	177.0	234.5	172.0
Merged-chr13-26792036-4	chr13	26791942	26792142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-21877.0	NM_008232	15192.0	Mm.7411	NM_008232	ENSMUSG00000045835	Hdgfl1	4921520N01Rik|HRP-1|Hdgfrp1|Pwwp1	hepatoma derived growth factor-like 1	protein-coding	7.0	18.0	7.0	295.5	53.0	24.0	37.5	23.0
Merged-chr16-57504892-4	chr16	57504796	57504996	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-44346.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	36.5	49.0	45.5	680.5	57.0	21.5	18.5	22.0
Merged-chr15-73645771-4	chr15	73645677	73645877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-21033.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	118.5	193.5	93.0	1451.5	286.5	95.0	161.0	109.5
Merged-chr4-129827935-4	chr4	129827827	129828027	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164745, intron 1 of 5)	intron (NM_001164745, intron 1 of 5)	7219.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	16.0	41.0	9.0	159.5	52.0	26.5	21.0	32.5
Merged-chr5-124531065-7	chr5	124530909	124531109	+	970.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021430, exon 1 of 7)	5' UTR (NM_021430, exon 1 of 7)	382.0	NM_021430	75695.0	Mm.41180	NM_021430	ENSMUSG00000029392	Rilpl1	2900002H16Rik|6330559I19Rik|GOSPEL	Rab interacting lysosomal protein-like 1	protein-coding	8.0	19.0	6.0	95.5	34.5	16.5	4.5	18.5
Merged-chr1-130979658-2	chr1	130979558	130979758	+	931.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39543.0	NM_001009940	329244.0	Mm.131480	NM_001009940	ENSMUSG00000016524	Il19	-	interleukin 19	protein-coding	5.5	9.0	4.0	66.5	33.0	4.5	10.5	8.0
Merged-chr9-61368560-4	chr9	61368470	61368670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3796.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	32.0	75.0	41.0	220.0	96.0	38.0	17.0	25.5
Merged-chr13-76579598-4	chr13	76579494	76579694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	194633.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	27.0	36.0	30.5	786.5	107.0	24.5	52.0	37.5
Merged-chr9-47644454-4	chr9	47644345	47644545	+	864.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	L1MC4a|LINE|L1	114093.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	12.5	21.0	10.5	294.5	20.5	5.5	12.0	19.5
Merged-chr8-94012184-4	chr8	94012103	94012303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011787, intron 1 of 13)	CpG	437.0	NM_011787	23802.0	Mm.34641	NM_011787	ENSMUSG00000031751	Amfr	gp78	autocrine motility factor receptor	protein-coding	26.0	36.0	47.5	494.0	85.5	35.0	51.0	44.5
Merged-chr19-42520036-4	chr19	42519933	42520133	+	842.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177464, intron 1 of 6)	B4|SINE|B4	1228.0	NM_177464	52013.0	Mm.254169	NM_177464	ENSMUSG00000025184	R3hcc1l	1700036B12Rik|AI450607|C10orf28|D19Ertd386e|GIDRP86|Gidrp88	R3H domain and coiled-coil containing 1 like	protein-coding	16.0	9.0	7.5	207.0	32.0	14.0	16.0	22.5
Merged-chr15-73090793-4	chr15	73090697	73090897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053068, intron 1 of 2)	CpG	385.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	299.5	449.0	309.5	4540.5	672.0	283.0	366.5	274.0
Merged-chr11-115162463-2	chr11	115162363	115162563	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012030)	promoter-TSS (NM_012030)	-878.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	5.0	9.0	5.0	53.5	16.5	6.0	9.0	1.0
Merged-chr7-142458136-4	chr7	142458029	142458229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-2683.0	NM_001271510	16985.0	Mm.234003	NM_019391	ENSMUSG00000018819	Lsp1	Lsp-1|WP34|p50|pp52	lymphocyte specific 1	protein-coding	20.0	19.5	28.0	246.0	106.0	52.0	54.5	55.5
Merged-chr10-68378346-4	chr10	68378250	68378450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-57208.0	NR_045357	75148.0	Mm.23505	NR_045357	ENSMUSG00000112157	4930545H06Rik	-	RIKEN cDNA 4930545H06 gene	ncRNA	105.0	168.5	117.5	1957.0	279.5	83.0	163.0	90.0
Merged-chr12-79297294-4	chr12	79297214	79297414	+	993.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252562)	promoter-TSS (NM_001252562)	32.0	NM_009014	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	56.5	76.0	8.5	498.5	119.0	51.0	50.5	43.5
Merged-chr7-45128943-4	chr7	45128868	45129068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009438)	promoter-TSS (NM_009438)	-223.0	NM_009438	22121.0	Mm.180458	NM_009438	ENSMUSG00000074129	Rpl13a	1810026N22Rik|Tstap198-7|tum-antigen	ribosomal protein L13A	protein-coding	240.0	405.0	277.0	3350.5	676.5	331.5	293.0	230.5
Merged-chr7-135598639-4	chr7	135598533	135598733	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316680, intron 1 of 20)	intron (NM_001316680, intron 1 of 20)	5152.0	NM_001316680	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	27.0	15.0	17.0	302.5	41.5	18.5	12.5	18.0
Merged-chr10-120189430-3	chr10	120189313	120189513	+	683.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001359184, intron 1 of 11)	intron (NM_001359184, intron 1 of 11)	12184.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	2.5	7.0	4.0	49.0	29.5	7.0	12.5	13.0
Merged-chr6-88828190-4	chr6	88828106	88828306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011844, exon 8 of 8)	3' UTR (NM_011844, exon 8 of 8)	13729.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	146.5	217.0	136.0	2625.0	318.0	158.0	186.0	157.0
Merged-chr8-72268519-4	chr8	72268417	72268617	+	957.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28499.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	65.0	63.5	80.0	1275.0	36.0	8.5	17.5	15.0
Merged-chr9-100520761-4	chr9	100520653	100520853	+	753.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 1 of 3)	intron (NM_010878, intron 1 of 3)	-13897.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	6.0	3.0	3.5	93.5	43.5	12.5	10.0	9.0
Merged-chr4-12546679-3	chr4	12546587	12546787	+	936.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F-int|LTR|ERVL-MaLR	-360150.0	NM_173746	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	13.0	19.0	13.0	164.5	9.0	7.0	10.5	4.0
Merged-chr11-102408024-4	chr11	102407928	102408128	+	974.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026542)	promoter-TSS (NM_026542)	-511.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	12.0	28.5	12.5	174.5	45.5	13.5	17.0	26.5
Merged-chr2-60211906-4	chr2	60211805	60212005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020575, intron 1 of 9)	intron (NM_020575, intron 1 of 9)	1969.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	26.0	36.0	23.0	373.5	57.0	27.0	21.5	26.5
Merged-chr9-65575525-4	chr9	65575442	65575642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 1 of 5)	MIR|SINE|MIR	4545.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	42.0	55.5	68.5	1086.0	179.5	42.5	56.5	61.0
Merged-chr4-102987085-4	chr4	102986978	102987178	+	904.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163767, intron 1 of 4)	intron (NM_001163767, intron 1 of 4)	699.0	NM_026100	67344.0	Mm.111346	NM_026100	ENSMUSG00000028523	Tctex1d1	1700055O19Rik	Tctex1 domain containing 1	protein-coding	13.5	11.5	8.5	170.5	51.0	9.0	12.5	17.5
Merged-chr7-114294131-3	chr7	114294032	114294232	+	814.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18016.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	14.0	10.0	14.5	170.0	0.0	1.5	1.0	1.0
Merged-chr16-32651195-4	chr16	32651116	32651316	+	917.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110147, intron 1 of 13)	intron (NM_001110147, intron 1 of 13)	6573.0	NM_016788	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	3.0	24.5	16.5	261.0	35.0	11.0	10.0	12.5
Merged-chr16-33950331-4	chr16	33950223	33950423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010580)	TTS (NM_010580)	16715.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	32.5	43.0	38.0	602.0	69.0	31.0	32.5	44.5
Merged-chr7-108930192-4	chr7	108930071	108930271	+	847.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175532)	promoter-TSS (NM_175532)	-13.0	NM_175532	244202.0	Mm.37991	NM_175532	ENSMUSG00000049709	Nlrp10	6430548I20Rik|Nalp10|Napl10|PAN5|Pynod	NLR family, pyrin domain containing 10	protein-coding	4.0	7.0	6.5	126.0	41.0	13.5	31.0	22.0
Merged-chr15-8634979-4	chr15	8634879	8635079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_148938, exon 10 of 10)	3' UTR (NM_148938, exon 10 of 10)	75828.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	32.0	46.5	13.5	621.0	112.0	41.0	59.5	62.0
Merged-chr10-7232983-4	chr10	7232889	7233089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20752.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	52.0	69.5	74.5	1249.0	107.0	41.5	87.0	58.0
Merged-chr17-83692042-2	chr17	83691942	83692142	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14121.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	3.0	6.5	3.5	37.5	22.0	7.5	4.5	16.0
Merged-chr2-68436371-4	chr2	68436242	68436442	+	875.1354369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	intron (NM_016866, intron 1 of 17)	35639.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	15.5	28.0	6.5	131.0	39.5	24.5	11.0	16.0
Merged-chr9-49483569-3	chr9	49483426	49483626	+	803.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172770, intron 2 of 21)	intron (NM_172770, intron 2 of 21)	2699.0	NM_172770	235330.0	Mm.177413	NM_172770	ENSMUSG00000040219	Ttc12	E330017O07Rik	tetratricopeptide repeat domain 12	protein-coding	19.0	16.0	7.0	270.5	1.5	1.0	3.5	2.0
Merged-chr4-42987582-4	chr4	42987491	42987691	+	952.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009503, intron 7 of 16)	RLTR12B|LTR|ERVK	12916.0	NM_009503	269523.0	Mm.245976	NM_009503	ENSMUSG00000028452	Vcp	3110001E05|CDC48|p97|p97/VCP	valosin containing protein	protein-coding	9.0	25.5	15.0	226.0	45.5	4.0	18.5	15.5
Merged-chr5-137823413-4	chr5	137823326	137823526	+	824.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001005426)	TTS (NM_001005426)	12852.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	10.0	14.5	8.0	92.0	31.0	10.0	12.5	10.0
Merged-chr1-79760868-3	chr1	79760770	79760970	+	851.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027057, intron 1 of 4)	intron (NM_027057, intron 1 of 4)	899.0	NM_001111279	69368.0	Mm.293273	NM_027057	ENSMUSG00000073643	Wdfy1	1700013B03Rik|1700120F24Rik|FENS-1|Jr1|WDF1|ZFYVE17|mKIAA1435	WD repeat and FYVE domain containing 1	protein-coding	1.5	7.5	6.0	54.0	11.0	5.5	5.0	12.5
Merged-chr2-126164799-4	chr2	126164697	126164897	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026981, exon 5 of 5)	exon (NM_026981, exon 5 of 5)	12656.0	NM_026981	69185.0	Mm.29019	NM_026981	ENSMUSG00000023330	Dtwd1	1810033A06Rik	DTW domain containing 1	protein-coding	25.0	16.5	23.0	570.0	82.5	21.5	31.5	24.0
Merged-chr7-80830616-4	chr7	80830487	80830687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27256.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	268.0	479.5	267.0	3641.5	610.0	221.5	260.0	237.5
Merged-chr3-69264373-2	chr3	69264278	69264478	+	946.8333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	41959.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	13.0	8.0	9.0	34.0	13.0	3.0	1.0	9.0
Merged-chr16-97593243-4	chr16	97593148	97593348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015775, intron 3 of 13)	B3|SINE|B2	17947.0	NM_015775	50528.0	Mm.276145	NM_015775	ENSMUSG00000000385	Tmprss2	D16Ertd61e	transmembrane protease, serine 2	protein-coding	38.5	68.0	34.5	612.0	106.0	32.0	56.0	48.5
Merged-chr14-58321511-4	chr14	58321403	58321603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	248817.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	145.0	165.0	166.0	2244.5	260.5	105.0	120.0	96.5
Merged-chr16-49840226-4	chr16	49840119	49840319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15435.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	144.0	201.5	201.0	2542.5	328.5	110.0	158.5	130.5
Merged-chr17-37276092-4	chr17	37275987	37276187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	4331.0	NM_146515	258508.0	Mm.377544	NM_146515	ENSMUSG00000061972	Olfr99	MOR156-1	olfactory receptor 99	protein-coding	78.5	71.5	95.0	1200.5	227.0	57.0	83.5	81.0
Merged-chr6-71440188-4	chr6	71440133	71440333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024288, exon 1 of 9)	5' UTR (NM_024288, exon 1 of 9)	404.0	NM_001355745	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	29.0	31.5	18.0	277.0	34.0	11.0	21.0	18.5
Merged-chr6-100287375-7	chr6	100287251	100287451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019743)	promoter-TSS (NM_019743)	7.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	40.0	66.0	26.0	278.0	149.5	52.5	51.5	48.0
Merged-chr11-43410480-4	chr11	43410387	43410587	+	977.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15494.0	NM_013917	30939.0	Mm.6856	NM_013917	ENSMUSG00000020415	Pttg1	AW555095|C87862|Pttg|Pttg3	pituitary tumor-transforming gene 1	protein-coding	15.0	22.0	11.5	184.0	89.5	23.0	27.5	26.0
Merged-chr13-3573956-4	chr13	3573857	3574057	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134063, exon 14 of 20)	exon (NM_134063, exon 14 of 20)	35882.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	18.5	13.0	10.0	313.0	35.0	10.5	17.0	8.5
Merged-chr9-45275509-4	chr9	45275355	45275555	+	868.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B2|LTR|ERVK	-6306.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	8.0	4.5	14.5	25.0	2.5	2.0	2.0	2.5
Merged-chr12-26456563-4	chr12	26456481	26456681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021384)	promoter-TSS (NM_021384)	-129.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	126.0	210.5	96.5	1896.0	301.5	104.0	106.5	107.5
Merged-chr5-72195635-4	chr5	72195538	72195738	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-7691.0	NR_003966	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	18.5	31.0	23.0	389.5	61.0	15.5	19.0	25.0
Merged-chr1-74304076-4	chr1	74303979	74304179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027154, intron 1 of 11)	CpG	257.0	NM_027154	69660.0	Mm.261182	NM_027154	ENSMUSG00000006301	Tmbim1	2310061B02Rik|AA960455|AU024746|C78899|RECS1|Tmbib1|mKIAA4161	transmembrane BAX inhibitor motif containing 1	protein-coding	53.5	96.0	82.5	632.5	109.5	41.0	47.5	50.5
Merged-chr5-32139042-4	chr5	32138926	32139126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008037, intron 1 of 3)	intron (NM_008037, intron 1 of 3)	2554.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	12.0	37.5	20.0	246.5	57.0	21.0	26.0	34.5
Merged-chr16-65378471-4	chr16	65378339	65378539	+	980.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-142190.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	18.5	29.5	16.0	343.0	43.5	16.0	38.0	16.5
Merged-chr15-64222817-4	chr15	64222714	64222914	+	885.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	89859.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	5.5	10.5	12.5	201.0	37.0	9.0	13.5	11.0
Merged-chr7-89216426-4	chr7	89216349	89216549	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 5 of 14)	L1_Rod|LINE|L1	122338.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	9.5	27.5	19.5	180.5	26.5	8.0	19.0	8.0
Merged-chr11-50109011-4	chr11	50108917	50109117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 7 of 7)	intron (NM_001290750, intron 7 of 7)	-22343.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	97.0	99.5	95.0	1182.5	168.0	69.5	130.5	92.0
Merged-chr13-21780440-5	chr13	21780298	21780498	+	878.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020034, exon 1 of 1)	exon (NM_020034, exon 1 of 1)	227.0	NM_020034	56702.0	Mm.221314	NM_020034	ENSMUSG00000058773	Hist1h1b	H1.5|H1B|H1f5|H1s-3	histone cluster 1, H1b	protein-coding	7.0	13.5	6.5	171.0	18.5	10.0	13.0	20.5
Merged-chr10-17660961-4	chr10	17660850	17661050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62278.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	29.0	43.5	40.5	835.5	84.5	19.0	54.0	40.5
Merged-chr15-8169045-4	chr15	8168933	8169133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162906)	promoter-TSS (NM_001162906)	-73.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	110.5	147.0	111.0	2220.0	279.5	127.5	176.0	137.5
Merged-chr17-70963760-4	chr17	70963681	70963881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	26735.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	90.0	130.0	98.5	96.5	201.0	51.5	81.0	211.5
Merged-chr13-33047651-4	chr13	33047539	33047739	+	912.345825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	20225.0	NM_011452	20706.0	Mm.45371	NM_011452	ENSMUSG00000021403	Serpinb9b	1600019A21Rik|R86|SPI-CI|Spi10|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9b	protein-coding	10.0	8.5	13.5	304.5	41.5	10.5	31.5	30.5
Merged-chr14-79397969-4	chr14	79397865	79398065	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145960, exon 1 of 11)	5' UTR (NM_145960, exon 1 of 11)	193.0	NM_145960	211253.0	Mm.35306	NM_145960	ENSMUSG00000022022	Mtrf1	A830062K05Rik|MtRF-1	mitochondrial translational release factor 1	protein-coding	17.5	21.0	19.5	219.5	32.5	14.5	12.5	21.0
Merged-chr5-135689023-4	chr5	135688919	135689119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008898)	promoter-TSS (NM_008898)	-126.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	291.0	514.0	309.5	3703.0	812.5	390.0	374.0	333.0
Merged-chr2-145884794-7	chr2	145884585	145884785	+	885.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 12 of 12)	intron (NM_028724, intron 12 of 12)	-18556.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	13.5	8.0	7.0	135.0	10.5	1.0	4.5	6.5
Merged-chr8-34908738-3	chr8	34908682	34908882	+	924.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 3 of 26)	intron (NM_175091, intron 3 of 26)	56908.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	6.0	7.0	9.0	172.0	8.5	5.5	4.5	7.0
Merged-chr7-144941665-4	chr7	144941562	144941762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1737.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	48.0	99.0	39.5	715.5	165.0	61.5	82.5	64.5
Merged-chr19-3322398-4	chr19	3322317	3322517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013495)	promoter-TSS (NM_013495)	-884.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	39.5	67.5	44.0	337.0	84.0	26.5	46.0	37.0
Merged-chr13-37994208-4	chr13	37994137	37994337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025965)	promoter-TSS (NM_025965)	-29.0	NM_001360842	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	115.0	139.0	83.5	939.0	408.0	157.5	179.0	138.5
Merged-chr3-60472903-6	chr3	60472720	60472920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253713)	promoter-TSS (NM_001253713)	-10.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	14.5	15.5	13.0	204.0	48.5	8.5	14.5	15.5
Merged-chr2-158767910-4	chr2	158767795	158767995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027975)	promoter-TSS (NM_027975)	-204.0	NM_027975	71878.0	Mm.85162	NM_027975	ENSMUSG00000027654	Fam83d	2310007D09Rik|BB104611	family with sequence similarity 83, member D	protein-coding	180.5	243.0	158.0	2832.5	398.0	119.0	183.0	152.0
Merged-chr1-173940529-3	chr1	173940426	173940626	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302649, intron 2 of 9)	Lx8b|LINE|L1	1966.0	NM_001302649	15950.0	Mm.463437	NM_008328	ENSMUSG00000039997	Ifi203	Ifi203a|Ifi203b|Mndal	interferon activated gene 203	protein-coding	33.0	48.5	44.0	988.5	9.0	4.0	2.0	3.5
Merged-chr10-126901324-4	chr10	126901216	126901416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026858)	promoter-TSS (NM_026858)	55.0	NM_026858	68876.0	Mm.276769	NM_026858	ENSMUSG00000025436	Atp23	1110068E08Rik|2410012H02Rik|Xrcc6bp1	ATP23 metallopeptidase and ATP synthase assembly factor homolog	protein-coding	70.0	92.5	77.0	906.5	104.0	45.5	67.0	51.0
Merged-chr16-56075954-4	chr16	56075816	56076016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360073, intron 3 of 24)	CpG	436.0	NM_001304503	66315.0	Mm.255784	NM_025483	ENSMUSG00000052917	Senp7	2410152H17Rik|2810413I22Rik|2900036C23Rik|6030449K19Rik|AI790676	SUMO1/sentrin specific peptidase 7	protein-coding	39.5	53.5	47.0	730.5	86.0	28.5	52.0	51.0
Merged-chr11-101965770-4	chr11	101965666	101965866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024449, intron 1 of 1)	intron (NM_024449, intron 1 of 1)	1249.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	96.5	151.5	89.5	1012.0	266.5	102.5	102.0	81.0
Merged-chr1-52800513-4	chr1	52800408	52800608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008384, intron 1 of 5)	intron (NM_008384, intron 1 of 5)	17180.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	90.5	190.5	131.5	2179.5	377.5	136.5	145.5	156.0
Merged-chr2-76691004-4	chr2	76690907	76691107	+	969.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031256, intron 6 of 7)	intron (NM_031256, intron 6 of 7)	15692.0	NM_031256	83435.0	Mm.41636	NM_031256	ENSMUSG00000002733	Plekha3	FAPP1	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 3	protein-coding	20.0	27.0	41.0	726.5	61.0	13.5	59.5	43.0
Merged-chr17-73948941-4	chr17	73948916	73949116	+	868.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 1 of 35)	intron (NM_011723, intron 1 of 35)	1180.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	6.5	9.5	8.0	124.5	17.0	4.5	7.5	9.5
Merged-chr3-129823490-4	chr3	129823399	129823599	+	762.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009102)	promoter-TSS (NM_009102)	-994.0	NM_009102	20132.0	Mm.278758	NM_009102	ENSMUSG00000028012	Rrh	-	retinal pigment epithelium derived rhodopsin homolog	protein-coding	19.0	15.5	7.0	219.0	29.5	5.0	9.5	12.5
Merged-chr2-59616112-4	chr2	59616031	59616231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	4089.0	NM_198294	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	26.5	44.0	28.5	568.5	62.0	17.5	25.5	32.5
Merged-chr9-63916093-3	chr9	63916026	63916226	+	937.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105933.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	15.0	17.5	4.5	187.0	19.0	5.0	9.5	6.5
Merged-chr19-60659116-4	chr19	60659024	60659224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-78101.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	27.5	24.0	42.0	513.0	32.5	8.0	27.5	19.0
Merged-chr11-44399891-4	chr11	44399786	44399986	+	877.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303244)	promoter-TSS (NM_001303244)	-177.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	16.5	53.0	20.0	158.0	33.5	19.5	14.0	3.0
Merged-chr9-111059264-4	chr9	111059213	111059413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-1795.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	278.0	408.0	330.0	3554.5	657.0	237.0	269.5	228.5
Merged-chr3-104030945-3	chr3	104030860	104031060	+	856.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133853, intron 15 of 21)	intron (NM_133853, intron 15 of 21)	-62644.0	NR_030676	100125931.0	Mm.400392	NR_030676	ENSMUSG00000089998	Phtf1os	A130049A11Rik	putative homeodomain transcription factor 1, opposite strand	ncRNA	5.0	6.5	6.0	212.5	16.5	2.0	4.5	10.0
Merged-chr9-120766478-3	chr9	120766384	120766584	+	633.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148766.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	13.0	19.5	21.0	74.5	3.5	0.5	2.0	10.0
Merged-chr16-32113748-4	chr16	32113666	32113866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13964.0	NM_025892	66994.0	Mm.22990	NM_025892	ENSMUSG00000035790	Cep19	1500031L02Rik|AI428934|AL022620	centrosomal protein 19	protein-coding	119.5	144.5	99.5	1318.0	233.0	90.5	80.0	98.0
Merged-chr4-149698571-5	chr4	149698489	149698689	+	979.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164050, exon 1 of 24)	5' UTR (NM_001164050, exon 1 of 24)	119.0	NM_001164050	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	13.0	43.5	22.0	246.0	48.5	15.5	18.0	34.0
Merged-chr6-99666161-4	chr6	99666083	99666283	+	907.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025829, intron 1 of 6)	L2a|LINE|L2	588.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	4.5	6.5	6.0	192.5	24.5	3.5	2.5	13.5
Merged-chr1-155145792-4	chr1	155145695	155145895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008209, intron 1 of 5)	intron (NM_008209, intron 1 of 5)	1019.0	NM_001355063	15064.0	Mm.7580	NM_008209	ENSMUSG00000026471	Mr1	H2ls	major histocompatibility complex, class I-related	protein-coding	80.5	126.5	94.5	1251.5	215.5	58.0	83.0	90.0
Merged-chr4-41568569-4	chr4	41568487	41568687	+	931.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	intron (NM_027993, intron 1 of 5)	940.0	NM_001159583	71901.0	Mm.39215	NM_027993	ENSMUSG00000028439	Fam219a	2310028H24Rik	family with sequence similarity 219, member A	protein-coding	10.0	28.5	11.5	60.0	154.0	30.5	40.5	40.5
Merged-chr17-45433703-4	chr17	45433615	45433815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152810)	promoter-TSS (NM_152810)	-8.0	NM_152810	71702.0	Mm.28270	NM_152810	ENSMUSG00000023932	Cdc5l	1200002I02Rik|AA408004|PCDC5RP	cell division cycle 5-like (S. pombe)	protein-coding	68.5	110.5	55.5	598.0	225.0	78.5	97.5	69.0
Merged-chr10-96239082-1	chr10	96238982	96239182	+	745.5	f0_balb.idr	intron (NR_110448, intron 1 of 2)	intron (NR_110448, intron 1 of 2)	12875.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	5.5	9.0	11.0	144.5	12.0	5.5	3.5	5.0
Merged-chr16-91373590-1	chr16	91373490	91373690	+	741.333313	f0_balb.idr	intron (NM_001347258, intron 1 of 7)	intron (NM_001347258, intron 1 of 7)	807.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	7.5	14.5	15.5	110.0	13.0	1.5	8.5	11.0
Merged-chr4-141676670-4	chr4	141676519	141676719	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	9097.0	NM_023544	69994.0	Mm.441022	NM_023544	ENSMUSG00000040715	Rsc1a1	1700027M01Rik|Rs1	regulatory solute carrier protein, family 1, member 1	protein-coding	14.5	18.5	12.5	160.0	47.0	16.5	19.0	17.5
Merged-chr12-110508106-4	chr12	110508011	110508211	+	840.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081457, intron 1 of 12)	MIRb|SINE|MIR	22372.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	10.0	13.0	13.0	152.5	13.5	4.0	16.5	12.0
Merged-chr7-12979232-2	chr7	12979132	12979332	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001168561, exon 2 of 5)	exon (NM_001168561, exon 2 of 5)	1384.0	NM_001168561	269870.0	Mm.62083	NM_175558	ENSMUSG00000033961	Zfp446	A630035I11Rik|A930031C22|AA120513|AV306632	zinc finger protein 446	protein-coding	7.0	5.0	1.0	46.5	22.0	5.0	14.0	14.0
Merged-chr2-142699490-4	chr2	142699384	142699584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 23 of 26)	intron (NM_001355123, intron 23 of 26)	201980.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	19.0	29.5	21.0	270.5	63.0	25.5	18.0	31.0
Merged-chr14-51883751-4	chr14	51883653	51883853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1089.0	NM_001029990	52535.0	Mm.5750	NM_001029990	ENSMUSG00000004561	Mettl17	2310032K15Rik|D14Ertd209e|Mett11d1	methyltransferase like 17	protein-coding	85.0	101.0	43.0	621.5	177.0	74.0	86.5	99.5
Merged-chr13-95888383-4	chr13	95888254	95888454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	B1F|SINE|Alu	3568.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	154.5	248.5	139.5	2562.5	303.0	143.0	126.0	126.0
Merged-chr2-156196761-4	chr2	156196686	156196886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172674, exon 1 of 18)	5' UTR (NM_172674, exon 1 of 18)	139.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	208.0	318.0	165.0	2152.0	356.0	184.5	166.0	202.5
Merged-chr4-42879800-3	chr4	42879697	42879897	+	998.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-5563.0	NM_177785	277773.0	Mm.212727	NM_177785	ENSMUSG00000050141	Fam205c	4931430D02|FAM205CP	family with sequence similarity 205, member C	protein-coding	25.0	43.0	7.5	33.0	25.5	4.5	2.5	0.5
Merged-chr17-36145257-4	chr17	36145170	36145370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033517, intron 1 of 3)	CpG	252.0	NR_033517	675325.0	Mm.75890	NR_033517	ENSMUSG00000038311	2410017I17Rik	-	RIKEN cDNA 2410017I17 gene	ncRNA	24.0	38.5	18.0	551.0	90.5	31.0	23.0	30.0
Merged-chr7-102426496-4	chr7	102426427	102426627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 8 of 11)	intron (NM_009287, intron 8 of 11)	-15168.0	NM_009103	20133.0	Mm.197486	NM_009103	ENSMUSG00000030978	Rrm1	RnrM1	ribonucleotide reductase M1	protein-coding	28.0	15.0	28.5	486.5	44.0	17.0	37.5	26.5
Merged-chr3-27656942-4	chr3	27656841	27657041	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173182, intron 1 of 25)	intron (NM_173182, intron 1 of 25)	53511.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	24.0	39.5	12.5	537.0	48.5	14.5	31.0	13.5
Merged-chr18-50014739-4	chr18	50014635	50014835	+	961.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	-16249.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	14.5	28.5	15.0	215.0	58.5	12.0	22.0	10.5
Merged-chr12-102721399-4	chr12	102721306	102721506	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16537.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	20.0	25.0	30.5	193.5	51.0	15.5	16.5	20.0
Merged-chr2-130284416-4	chr2	130284310	130284510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130884)	promoter-TSS (NM_130884)	41.0	NM_130884	170718.0	Mm.29590	NM_130884	ENSMUSG00000027406	Idh3b	C78231	isocitrate dehydrogenase 3 (NAD+) beta	protein-coding	24.5	62.0	19.0	530.0	95.0	23.0	42.0	25.0
Merged-chr19-30033331-4	chr19	30033223	30033423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144873, intron 1 of 15)	intron (NM_144873, intron 1 of 15)	2810.0	NM_144873	109113.0	Mm.313364	NM_144873	ENSMUSG00000024817	Uhrf2	2310065A22Rik|AI426270|AW214556|D130071B19Rik|Nirf	ubiquitin-like, containing PHD and RING finger domains 2	protein-coding	39.0	51.5	44.0	926.0	86.5	32.5	43.0	32.0
Merged-chr8-13666116-3	chr8	13666019	13666219	+	969.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	11468.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	28.5	15.5	22.0	547.5	18.5	4.5	17.5	7.5
Merged-chr17-83277603-7	chr17	83277445	83277645	+	972.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62262.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	22.0	47.5	11.5	152.5	61.5	28.5	12.0	24.5
Merged-chr2-61594129-1	chr2	61594029	61594229	+	1000.0	f0_c57.idr	non-coding (NR_149323, exon 2 of 10)	non-coding (NR_149323, exon 2 of 10)	1032.0	NR_149323	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	16.0	19.5	20.5	157.5	63.0	23.0	30.0	34.5
Merged-chr15-57976542-4	chr15	57976444	57976644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9359.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	40.5	109.0	43.0	422.5	76.0	48.5	43.5	37.5
Merged-chr19-11989517-4	chr19	11989419	11989619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033174, intron 11 of 13)	intron (NM_001033174, intron 11 of 13)	23675.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	49.5	49.0	34.5	594.0	84.0	32.0	33.5	42.0
Merged-chr4-119181624-4	chr4	119181502	119181702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013848, intron 8 of 12)	intron (NM_013848, intron 8 of 12)	-7407.0	NM_001145936	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	72.5	102.0	70.5	1123.5	239.5	75.5	94.5	101.0
Merged-chr6-113061356-4	chr6	113061244	113061444	+	858.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008188, intron 5 of 9)	intron (NM_008188, intron 5 of 9)	15042.0	NM_008188	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	9.0	14.5	7.5	274.0	27.5	13.0	19.5	12.0
Merged-chr15-74925102-5	chr15	74925092	74925292	+	820.3905030000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29859.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	5.5	6.0	4.5	20.5	15.5	4.0	4.5	12.0
Merged-chr11-6520938-4	chr11	6520809	6521009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178440)	promoter-TSS (NM_178440)	49.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	48.5	48.5	44.0	534.0	53.5	21.5	44.0	34.5
Merged-chr12-80115473-8	chr12	80115428	80115628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2515.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	36.5	47.0	16.0	207.5	145.5	82.5	49.5	66.0
Merged-chr2-52938477-4	chr2	52938362	52938562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	80594.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	175.0	218.0	115.0	1987.5	283.0	130.5	102.5	112.5
Merged-chr18-34624574-3	chr18	34624452	34624652	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166406)	promoter-TSS (NM_001166406)	-72.0	NM_001166407	19348.0	Mm.258846	NM_009004	ENSMUSG00000003779	Kif20a	AA415432|Rab6kifl	kinesin family member 20A	protein-coding	24.5	36.5	18.0	313.5	91.0	29.0	37.0	38.5
Merged-chr2-66144963-4	chr2	66144881	66145081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20188.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	46.5	72.0	48.0	1114.0	119.5	24.0	57.0	46.5
Merged-chr2-12419486-4	chr2	12419388	12419588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_149732)	promoter-TSS (NR_149732)	-28.0	NR_149731	66960.0	Mm.34059	NM_024185	ENSMUSG00000026767	Mindy3	1810041E18Rik|2310047O13Rik|5830410F13Rik|AI447827|AW111958|Fam188a	MINDY lysine 48 deubiquitinase 3	protein-coding	96.0	115.5	71.5	1310.0	238.5	88.0	95.5	95.0
Merged-chr10-17560159-4	chr10	17560095	17560295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163033.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	24.0	17.0	22.5	449.5	48.0	7.0	15.5	20.0
Merged-chr15-72809201-4	chr15	72809112	72809312	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_002864, exon 1 of 1)	non-coding (NR_002864, exon 1 of 1)	1112.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	20.0	16.0	9.5	272.0	61.0	18.5	21.0	37.5
Merged-chr7-127387222-4	chr7	127387120	127387320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030226)	promoter-TSS (NM_030226)	-54.0	NM_030226	78921.0	Mm.200950	NM_030226	ENSMUSG00000030823	9130019O22Rik	-	RIKEN cDNA 9130019O22 gene	protein-coding	26.5	49.0	16.0	350.0	50.5	31.0	31.0	23.0
Merged-chr11-34056681-4	chr11	34056563	34056763	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	intron (NM_010696, intron 3 of 20)	9735.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	15.5	25.5	25.5	152.5	40.0	13.5	26.0	30.0
Merged-chr4-10874557-4	chr4	10874453	10874653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026005)	promoter-TSS (NM_026005)	55.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	76.0	57.5	56.0	902.5	195.0	70.0	87.0	79.0
Merged-chr10-45048835-4	chr10	45048738	45048938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18376.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	68.5	80.5	61.5	1199.5	94.0	39.0	67.0	47.5
Merged-chr6-115995691-3	chr6	115995592	115995792	+	929.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026376)	promoter-TSS (NM_026376)	-687.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	23.0	8.5	7.5	195.5	17.0	5.0	9.0	7.5
Merged-chr19-17250174-8	chr19	17250066	17250266	+	840.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89339.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	15.5	21.0	6.5	104.0	13.5	11.0	10.0	12.0
Merged-chr2-21111630-1	chr2	21111530	21111730	+	576.0	f0_balb.idr	Intergenic	Intergenic	93735.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	7.0	5.5	4.5	90.0	8.0	2.0	4.5	6.0
Merged-chr17-29432120-4	chr17	29432034	29432234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-58911.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	177.0	292.0	230.5	2305.5	563.5	229.0	241.0	207.5
Merged-chr10-127538051-4	chr10	127537963	127538163	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008512)	TTS (NM_008512)	-3504.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	11.0	26.0	22.0	241.0	48.5	29.0	18.0	22.0
Merged-chr14-34296547-4	chr14	34296449	34296649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153399, intron 2 of 11)	intron (NR_153399, intron 2 of 11)	13968.0	NR_153399	75698.0	Mm.45406	NM_029389	ENSMUSG00000041471	Fam35a	3110001K24Rik	family with sequence similarity 35, member A	protein-coding	31.0	23.5	24.0	467.0	58.5	9.0	19.5	20.0
Merged-chr2-181244117-4	chr2	181244017	181244217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2090.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	290.5	554.5	451.0	4197.0	828.5	354.5	381.5	330.0
Merged-chr4-58613242-4	chr4	58613144	58613344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59753.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	34.5	51.5	29.0	832.0	129.0	35.5	49.0	46.5
Merged-chr11-106302823-4	chr11	106302710	106302910	+	866.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008117)	promoter-TSS (NM_008117)	-914.0	NM_008117	14599.0	Mm.343934	NM_008117	ENSMUSG00000020713	Gh	Gh1|Ghb1	growth hormone	protein-coding	26.0	23.0	3.0	171.0	42.0	24.0	18.0	14.0
Merged-chr1-106345439-4	chr1	106345325	106345525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 8 of 16)	intron (NM_133821, intron 8 of 16)	173556.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	51.5	110.0	67.5	1717.0	233.5	77.0	86.0	112.5
Merged-chr11-114988110-6	chr11	114987947	114988147	+	871.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145437, intron 1 of 3)	intron (NM_145437, intron 1 of 3)	1839.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	11.5	7.0	8.5	142.5	10.0	5.0	8.5	7.0
Merged-chr9-15301581-4	chr9	15301483	15301683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133732)	promoter-TSS (NM_133732)	24.0	NM_133732	70984.0	Mm.261842	NM_133732	ENSMUSG00000031938	4931406C07Rik	-	RIKEN cDNA 4931406C07 gene	protein-coding	58.5	122.5	105.0	2191.5	192.0	56.5	83.5	102.5
Merged-chr1-177258537-4	chr1	177258436	177258636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9769.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	59.5	92.0	92.0	859.5	105.5	61.5	42.0	48.5
Merged-chr13-3478161-4	chr13	3478071	3478271	+	963.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015522)	promoter-TSS (NR_015522)	-132.0	NR_015522	76937.0	Mm.487240	NR_015522	ENSMUSG00000097709	2810429I04Rik	AI256682	RIKEN cDNA 2810429I04 gene	ncRNA	16.0	22.5	25.0	255.0	44.5	14.5	30.0	29.5
Merged-chr3-144123648-4	chr3	144123584	144123784	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78648.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	17.0	24.0	19.5	318.0	67.0	8.5	19.5	32.5
Merged-chr2-167713301-7	chr2	167713209	167713409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	22132.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	31.0	31.0	40.0	402.0	102.5	47.0	41.0	46.0
Merged-chr18-60481182-3	chr18	60481077	60481277	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134133, intron 1 of 1)	intron (NM_134133, intron 1 of 1)	20806.0	NM_134133	106878.0	Mm.273197	NM_134133	ENSMUSG00000038059	Smim3	2010002N04Rik|AI195350|AW561905|Nid67|cI-41	small integral membrane protein 3	protein-coding	19.0	38.0	22.5	618.5	19.5	4.5	4.0	2.5
Merged-chr5-117977264-2	chr5	117977164	117977364	+	789.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346588, intron 1 of 11)	CpG	494.0	NM_001346588	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	7.0	4.5	7.0	94.0	18.0	4.0	2.5	9.5
Merged-chr18-82825706-4	chr18	82825607	82825807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30190.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	78.0	75.5	126.0	1194.0	225.5	62.0	153.5	94.0
Merged-chr4-133586761-3	chr4	133586639	133586839	+	881.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290742, intron 2 of 4)	intron (NM_001290742, intron 2 of 4)	2366.0	NM_133884	100210.0	Mm.274001	NM_133884	ENSMUSG00000028848	Gpn2	AI838661|Atpbd1b|R74630	GPN-loop GTPase 2	protein-coding	14.0	18.0	16.5	174.5	10.0	1.0	1.5	2.5
Merged-chr10-78096801-3	chr10	78096700	78096900	+	743.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27432.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	5.0	16.5	5.5	72.5	16.5	7.5	19.5	6.5
Merged-chr15-89089570-2	chr15	89089470	89089670	+	952.25	f1_balb.idr|f1_c57bl6.idr	exon (NM_027905, exon 1 of 9)	exon (NM_027905, exon 1 of 9)	532.0	NM_027905	223776.0	Mm.44763	NM_027905	ENSMUSG00000035757	Selenoo	1300018J18Rik|Selo	selenoprotein O	protein-coding	6.5	9.0	5.0	86.0	11.0	4.0	4.5	6.5
Merged-chr16-17111128-4	chr16	17111033	17111233	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252445, intron 1 of 19)	CpG	119.0	NM_001252445	66053.0	Mm.253614	NM_144954	ENSMUSG00000022771	Ppil2	0610009L05Rik|1700016N17Rik|4921520K19Rik|4930511F14Rik|AA589416|C130078A06Rik|CYC4	peptidylprolyl isomerase (cyclophilin)-like 2	protein-coding	21.0	19.5	24.5	255.5	26.0	17.5	15.5	21.5
Merged-chr13-115958568-4	chr13	115958453	115958653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	351135.0	NM_021459	16392.0	Mm.42242	NM_021459	ENSMUSG00000042258	Isl1	-	ISL1 transcription factor, LIM/homeodomain	protein-coding	60.0	79.5	83.0	1568.5	123.5	32.0	46.5	41.0
Merged-chr14-61037820-2	chr14	61037733	61037933	+	703.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_013869, intron 1 of 9)	CpG	154.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	1.5	2.0	4.0	25.0	15.5	8.5	8.5	11.5
Merged-chr12-84004032-4	chr12	84003930	84004130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-5472.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	96.0	113.0	83.0	1046.5	223.0	68.5	55.0	68.5
Merged-chr5-43872050-4	chr5	43871954	43872154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	ORR1B2|LTR|ERVL-MaLR	3245.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	50.5	57.0	42.5	418.5	175.0	61.5	73.5	46.0
Merged-chr10-128803821-4	chr10	128803811	128804011	+	917.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358267)	promoter-TSS (NM_001358267)	56.0	NM_001358267	73827.0	Mm.24630	NM_178066	ENSMUSG00000047090	Tmem198b	1110012D08Rik	transmembrane protein 198b	protein-coding	10.0	10.5	12.5	77.5	21.0	11.5	3.5	8.0
Merged-chr11-94210291-4	chr11	94210190	94210390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1164.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	129.5	176.0	84.5	1593.0	177.0	66.5	77.5	67.5
Merged-chr7-81856405-4	chr7	81856306	81856506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-2595.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	45.5	64.5	44.5	773.0	83.0	26.5	62.0	36.0
Merged-chr10-18235185-4	chr10	18235066	18235266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144820)	promoter-TSS (NM_144820)	-185.0	NM_144820	215814.0	Mm.296565	NM_144820	ENSMUSG00000059554	Ccdc28a	1700009P13Rik|AI480677	coiled-coil domain containing 28A	protein-coding	114.0	149.0	181.0	1818.0	188.5	94.5	128.0	112.5
Merged-chr16-65582898-4	chr16	65582793	65582993	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	-20196.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	24.0	20.5	24.5	478.5	71.5	22.0	57.0	43.5
Merged-chr2-73007591-4	chr2	73007492	73007692	+	909.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-27146.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	15.5	11.0	16.0	316.5	29.0	12.0	16.0	20.5
Merged-chr11-69245878-4	chr11	69245803	69246003	+	960.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8881.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	21.0	29.5	9.0	268.5	39.0	13.0	23.0	15.0
Merged-chr10-117307241-4	chr10	117307128	117307328	+	795.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14360.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	11.5	42.5	19.0	131.0	27.5	12.5	20.0	9.5
Merged-chr7-114894276-3	chr7	114894160	114894360	+	785.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54390.0	NR_040317	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	2.0	4.0	5.0	86.5	29.5	10.0	9.5	18.5
Merged-chr17-67193920-4	chr17	67193833	67194033	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	160526.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	25.5	50.0	37.0	431.5	41.0	14.0	24.0	26.5
Merged-chr15-67355510-2	chr15	67355396	67355596	+	687.5	f0_balb.idr|f1_balb.idr	intron (NR_045140, intron 7 of 8)	MIR|SINE|MIR	128727.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	8.0	9.5	9.0	181.5	2.5	4.5	5.0	4.0
Merged-chr11-90225439-4	chr11	90225347	90225547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24029.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	145.0	217.5	160.5	1525.0	313.5	115.0	125.0	98.0
Merged-chr2-167961236-4	chr2	167961158	167961358	+	854.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	28931.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	10.0	10.0	14.0	203.5	22.0	3.5	4.0	10.0
Merged-chr12-35576343-4	chr12	35576248	35576448	+	847.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41359.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	14.0	12.5	14.0	297.0	35.0	6.5	6.0	11.0
Merged-chr18-75218980-1	chr18	75218880	75219080	+	643.5	f0_balb.idr	intron (NM_027727, intron 14 of 16)	L1MC5a|LINE|L1	78337.0	NR_045394	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	6.5	9.0	8.0	101.5	1.0	5.5	2.0	8.5
Merged-chr3-79128953-3	chr3	79128868	79129068	+	920.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 1 of 23)	intron (NM_001099624, intron 1 of 23)	15919.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	8.5	7.0	9.5	40.0	25.5	11.5	6.5	3.0
Merged-chr5-122051673-4	chr5	122051588	122051788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1837.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	35.0	46.5	54.5	637.0	98.0	28.5	33.0	43.5
Merged-chr7-126862450-4	chr7	126862376	126862576	+	913.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172746, exon 1 of 7)	exon (NM_172746, exon 1 of 7)	504.0	NM_172746	233876.0	Mm.363427	NM_172746	ENSMUSG00000042606	Hirip3	B130036O03|C86302	HIRA interacting protein 3	protein-coding	11.0	15.0	17.5	143.5	47.0	11.5	13.0	13.0
Merged-chr18-24246067-4	chr18	24245967	24246167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013814, exon 4 of 13)	exon (NM_013814, exon 4 of 13)	40073.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	167.0	224.0	196.5	3136.0	291.0	98.5	114.5	129.0
Merged-chr1-171233130-4	chr1	171233023	171233223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010185, intron 1 of 4)	MIR|SINE|MIR	1226.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	41.0	76.0	43.5	337.5	118.5	41.5	36.5	30.5
Merged-chr5-125390761-2	chr5	125390661	125390861	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019639)	promoter-TSS (NM_019639)	-744.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	10.5	12.5	6.0	64.0	13.0	4.0	4.5	13.5
Merged-chr12-56344927-2	chr12	56344827	56345027	+	869.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145442, intron 1 of 8)	intron (NM_145442, intron 1 of 8)	967.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	5.5	5.5	10.0	77.0	7.5	2.0	10.0	10.0
Merged-chr7-35151869-2	chr7	35151769	35151969	+	845.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32576.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	9.5	10.5	9.5	61.0	15.0	3.5	3.5	6.5
Merged-chr16-13197461-4	chr16	13197378	13197578	+	821.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59003.0	NM_001122667	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	11.5	10.5	7.5	161.0	14.0	12.0	5.0	19.5
Merged-chr17-5560308-1	chr17	5560208	5560408	+	570.0	f0_balb.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	67708.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	6.0	7.0	4.5	67.5	4.5	6.0	5.5	1.0
Merged-chr6-39004097-4	chr6	39004002	39004202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 5 of 12)	CR1_Mam|LINE|CR1	63484.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	71.5	86.0	99.0	1549.0	111.0	61.0	59.5	60.5
Merged-chr19-56387955-4	chr19	56387867	56388067	+	946.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198059, intron 3 of 40)	intron (NM_198059, intron 3 of 40)	2071.0	NM_198059	18175.0	Mm.386769	NM_008733	ENSMUSG00000049134	Nrap	-	nebulin-related anchoring protein	protein-coding	31.5	32.0	36.0	462.0	21.0	12.5	17.0	15.0
Merged-chr7-105745038-4	chr7	105744924	105745124	+	896.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020024)	promoter-TSS (NM_020024)	-686.0	NM_020024	24075.0	Mm.274846	NM_020024	ENSMUSG00000043866	Taf10	30kDa|AU041226|TAFII30|Taf2h	TATA-box binding protein associated factor 10	protein-coding	11.5	14.0	8.0	133.5	36.0	13.0	22.5	14.0
Merged-chr2-90841355-2	chr2	90841298	90841498	+	645.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-5757.0	NM_001317241	56428.0	Mm.28023	NM_019758	ENSMUSG00000027282	Mtch2	2310034D24Rik|4930539J07Rik|HSPC032	mitochondrial carrier 2	protein-coding	7.5	11.0	6.5	16.5	8.5	7.5	2.0	10.5
Merged-chr12-21287479-4	chr12	21287377	21287577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018813, intron 1 of 17)	intron (NM_018813, intron 1 of 17)	1180.0	NM_018813	54451.0	Mm.356778	NM_018813	ENSMUSG00000054309	Cpsf3	-	cleavage and polyadenylation specificity factor 3	protein-coding	58.5	98.0	66.0	1455.5	206.0	55.0	74.5	90.5
Merged-chr13-113669865-3	chr13	113669768	113669968	+	864.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6192.0	NM_019960	56534.0	Mm.41410	NM_019960	ENSMUSG00000051456	Hspb3	2310035K17Rik|AI844863|Hsbp3|spb3	heat shock protein 3	protein-coding	10.5	12.5	14.0	180.5	21.0	4.0	4.0	8.5
Merged-chr11-63897966-4	chr11	63897890	63898090	+	837.946411	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018805, intron 1 of 1)	intron (NM_018805, intron 1 of 1)	24294.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	7.0	10.0	3.5	42.0	21.5	4.5	13.0	9.5
Merged-chr11-83271192-4	chr11	83271119	83271319	+	851.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15507.0	NM_001166028	237890.0	Mm.297670	NM_001166028	ENSMUSG00000082101	Slfn14	Gm20|Slfn14-ps	schlafen 14	protein-coding	8.0	15.0	9.0	72.5	18.5	5.0	10.5	18.5
Merged-chr17-26009678-4	chr17	26009565	26009765	+	896.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162868, intron 5 of 13)	intron (NM_001162868, intron 5 of 13)	12195.0	NM_153140	215445.0	Mm.41191	NM_153140	ENSMUSG00000037098	Rab11fip3	Cart1|D030060O14Rik|Rab11-FIP3|mKIAA0665	RAB11 family interacting protein 3 (class II)	protein-coding	6.5	17.0	15.0	87.0	44.0	13.0	9.5	14.5
Merged-chr11-72779521-4	chr11	72779393	72779593	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024926, intron 3 of 3)	intron (NM_001024926, intron 3 of 3)	16346.0	NM_001024926	192986.0	Mm.194755	NM_001024926	ENSMUSG00000057778	Cyb5d2	9330151E16Rik|Gm2	cytochrome b5 domain containing 2	protein-coding	21.5	31.0	18.5	295.0	20.5	9.0	33.5	10.0
Merged-chr4-47278515-6	chr4	47278353	47278553	+	750.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 14 of 39)	intron (NM_009928, intron 14 of 39)	70441.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	3.0	5.0	12.5	84.0	28.5	6.5	6.0	7.5
Merged-chr4-141477814-4	chr4	141477702	141477902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019763, exon 12 of 16)	exon (NM_019763, exon 12 of 16)	33129.0	NM_009541	22642.0	Mm.389590	NM_009541	ENSMUSG00000006215	Zbtb17	AA589413|Lp-1|Miz1|Zfp100|mZ13	zinc finger and BTB domain containing 17	protein-coding	92.5	130.0	74.0	1552.5	300.5	113.0	125.0	106.0
Merged-chr1-46905893-4	chr1	46905793	46905993	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356417, intron 1 of 10)	intron (NM_001356417, intron 1 of 10)	19883.0	NM_001356417	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	16.5	30.5	14.0	664.5	72.5	24.5	25.0	19.5
Merged-chr7-16781275-4	chr7	16781190	16781390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009201)	promoter-TSS (NM_009201)	-56.0	NM_009201	20514.0	Mm.1056	NM_009201	ENSMUSG00000001918	Slc1a5	AAAT|ASCT2|ATBO|M7V1|M7VS1|R16|RDRC|Slc1a7	solute carrier family 1 (neutral amino acid transporter), member 5	protein-coding	53.5	67.5	38.5	721.0	105.0	45.0	42.0	38.0
Merged-chr14-75181236-2	chr14	75181136	75181336	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	44811.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	7.0	4.5	5.5	61.5	26.0	3.0	7.0	4.0
Merged-chr14-57372574-4	chr14	57372469	57372669	+	789.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 2 of 7)	intron (NM_030004, intron 2 of 7)	25914.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	18.0	13.0	5.5	164.0	33.5	13.5	10.0	16.5
Merged-chr19-44474324-4	chr19	44474219	44474419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19153.0	NM_011720	22423.0	Mm.88365	NM_011720	ENSMUSG00000036961	Wnt8b	-	wingless-type MMTV integration site family, member 8B	protein-coding	41.0	66.0	20.5	439.5	90.5	36.5	54.5	42.5
Merged-chr13-103924286-4	chr13	103924178	103924378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3692.0	NM_001005868	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	32.0	54.5	28.0	799.0	96.5	32.0	40.0	37.5
Merged-chr9-83834572-4	chr9	83834450	83834650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009445)	promoter-TSS (NM_009445)	-139.0	NM_009445	22137.0	Mm.1904	NM_009445	ENSMUSG00000038379	Ttk	AL022661|Esk1|Mps1|PYT|esk	Ttk protein kinase	protein-coding	128.5	224.5	160.5	1833.5	335.5	128.5	183.0	103.5
Merged-chr4-47319664-4	chr4	47319543	47319743	+	986.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33579.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	27.5	31.0	12.5	269.0	41.5	14.5	30.0	14.0
Merged-chr1-154258780-4	chr1	154258674	154258874	+	932.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_108050, intron 1 of 2)	intron (NR_108050, intron 1 of 2)	-1868.0	NR_040629	78112.0	Mm.401935	NR_040629	ENSMUSG00000099933	4930452N14Rik	-	RIKEN cDNA 4930452N14 gene	ncRNA	16.5	37.0	31.0	309.5	25.5	13.0	13.5	17.0
Merged-chr6-5379296-4	chr6	5379207	5379407	+	857.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4079.0	NM_023048	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	7.5	9.0	7.5	133.0	38.5	10.5	10.0	10.5
Merged-chr12-84589911-4	chr12	84589821	84590021	+	808.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301427, intron 3 of 4)	CpG	20093.0	NM_001301427	12677.0	Mm.4405	NM_007701	ENSMUSG00000021239	Vsx2	Chx10|Hox-10|Hox10|or	visual system homeobox 2	protein-coding	15.0	17.5	8.5	112.5	37.0	12.0	15.5	16.5
Merged-chr2-167477228-4	chr2	167477109	167477309	+	932.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_148929)	TTS (NM_148929)	-15436.0	NM_030743	81018.0	Mm.22225	NM_030743	ENSMUSG00000006418	Rnf114	1110008J21Rik|AI225886|AW549494|Zfp228|Zfp313|Znf228	ring finger protein 114	protein-coding	13.5	12.5	16.0	215.5	31.0	9.5	13.5	17.0
Merged-chr3-9647205-4	chr3	9647111	9647311	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-37126.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	14.0	24.0	16.5	288.0	19.5	9.0	17.5	10.0
Merged-chr1-171294813-4	chr1	171294693	171294893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360931, exon 2 of 7)	5' UTR (NM_001360931, exon 2 of 7)	209.0	NM_001360932	66155.0	Mm.2815	NM_025388	ENSMUSG00000062963	Ufc1	1110021H02Rik|AA062310|ESTM29	ubiquitin-fold modifier conjugating enzyme 1	protein-coding	16.0	31.0	20.5	261.0	59.0	19.0	21.0	33.0
Merged-chr4-149056042-4	chr4	149055949	149056149	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019781, intron 2 of 8)	intron (NM_019781, intron 2 of 8)	43763.0	NM_019781	56273.0	Mm.184172	NM_019781	ENSMUSG00000028975	Pex14	Pex14p|R75137	peroxisomal biogenesis factor 14	protein-coding	55.0	55.0	55.0	1223.0	20.0	7.0	10.5	10.5
Merged-chr18-62985455-4	chr18	62985377	62985577	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028017, intron 5 of 11)	intron (NM_028017, intron 5 of 11)	7561.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	30.5	38.0	23.0	293.0	63.5	13.5	23.0	24.0
Merged-chr1-91046412-4	chr1	91046277	91046477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-7067.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	85.5	103.5	59.0	998.5	186.5	81.0	89.5	84.0
Merged-chr6-134640970-4	chr6	134640856	134641056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026371)	promoter-TSS (NM_026371)	16.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	173.5	206.5	128.5	2514.0	385.0	123.5	221.5	147.5
Merged-chr17-25579121-4	chr17	25579039	25579239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029624)	promoter-TSS (NM_029624)	-35.0	NM_029624	76483.0	Mm.12787	NM_029624	ENSMUSG00000002279	Lmf1	2400010G15Rik|AW822050|Tmem112|cld	lipase maturation factor 1	protein-coding	163.0	190.5	111.5	1565.0	331.5	155.0	122.5	101.0
Merged-chr13-4767076-4	chr13	4766983	4767183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-157919.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	50.5	33.0	32.5	461.5	72.5	28.0	32.5	39.0
Merged-chr4-134534502-4	chr4	134534426	134534626	+	974.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029759, intron 1 of 6)	CpG	570.0	NM_001355188	76824.0	Mm.30153	NM_029759	ENSMUSG00000046671	Mtfr1l	2410166I05Rik|AI480750|Fam54b	mitochondrial fission regulator 1-like	protein-coding	31.0	14.5	22.0	327.5	53.5	18.5	21.5	34.0
Merged-chr9-101034602-4	chr9	101034521	101034721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311149, intron 1 of 13)	CpG	263.0	NM_001311149	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	121.0	189.0	125.0	1887.0	310.0	120.0	164.5	115.5
Merged-chr13-98761948-4	chr13	98761845	98762045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 11 of 25)	intron (NM_172591, intron 11 of 25)	53504.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	19.5	18.0	17.5	278.0	58.5	27.0	24.5	25.5
Merged-chr12-70140742-4	chr12	70140645	70140845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-13426.0	NM_001195033	100504285.0	Mm.291105	NM_001195033	ENSMUSG00000090121	Abhd12b	Gm804	abhydrolase domain containing 12B	protein-coding	56.0	67.5	50.5	932.0	92.5	31.5	82.0	60.0
Merged-chr5-118644438-2	chr5	118644336	118644536	+	782.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	83717.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	10.0	5.5	3.0	68.5	25.5	5.5	6.0	4.5
Merged-chr9-40268060-3	chr9	40267970	40268170	+	691.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1146.0	NM_001083917	235281.0	Mm.290083	NM_153522	ENSMUSG00000049281	Scn3b	1110001K16Rik|4833414B02Rik|Scnb3	sodium channel, voltage-gated, type III, beta	protein-coding	1.0	6.5	5.0	61.5	24.0	8.0	7.0	13.5
Merged-chr3-39175080-1	chr3	39174980	39175180	+	606.25	f0_c57.idr	Intergenic	Intergenic	288140.0	NM_183221	329628.0	Mm.316210	NM_183221	ENSMUSG00000046743	Fat4	6030410K14Rik|9430004M15	FAT atypical cadherin 4	protein-coding	0.0	2.0	2.0	23.0	28.5	10.0	8.5	13.0
Merged-chr4-123921949-6	chr4	123921896	123922096	+	956.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017475, intron 3 of 6)	intron (NM_017475, intron 3 of 6)	4563.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	6.5	9.0	15.5	96.5	20.0	11.5	8.5	10.0
Merged-chr14-54382819-4	chr14	54382704	54382904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	21963.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	106.5	176.0	196.0	2784.0	131.5	53.5	76.0	66.5
Merged-chr14-25736799-4	chr14	25736701	25736901	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 2 of 3)	intron (NM_001101433, intron 2 of 3)	32055.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	21.5	27.5	41.5	712.0	39.0	16.5	40.5	28.0
Merged-chr2-128709621-4	chr2	128709518	128709718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	10703.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	65.0	72.0	121.5	976.0	79.5	41.0	39.0	42.0
Merged-chr13-103897800-4	chr13	103897696	103897896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	intron (NM_001005868, intron 1 of 26)	22790.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	31.5	53.0	31.0	484.0	109.5	39.0	36.5	35.0
Merged-chr13-13666347-4	chr13	13666223	13666423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010748, intron 18 of 52)	intron (NM_010748, intron 18 of 52)	75914.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	40.5	56.5	61.0	448.0	88.0	20.0	29.0	28.0
Merged-chr9-108640012-4	chr9	108639911	108640111	+	859.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357286, intron 3 of 16)	intron (NM_001357286, intron 3 of 16)	9397.0	NM_011790	23807.0	Mm.290447	NM_011790	ENSMUSG00000064145	Arih2	AI843547|ARI2|TRIAD1|UIP48	ariadne RBR E3 ubiquitin protein ligase 2	protein-coding	12.0	9.0	13.5	226.0	19.5	9.0	15.0	5.0
Merged-chr2-58797086-4	chr2	58796987	58797187	+	835.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41903.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	10.5	15.0	8.0	145.0	31.0	3.0	12.0	14.5
Merged-chr18-80322683-7	chr18	80322521	80322721	+	990.2976070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001190373, exon 3 of 4)	exon (NM_001190373, exon 3 of 4)	41633.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	15.5	29.5	15.0	430.0	55.5	8.0	27.5	22.5
Merged-chr10-41615631-4	chr10	41615532	41615732	+	975.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 24 of 47)	intron (NM_001358562, intron 24 of 47)	47616.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	18.5	13.5	11.5	341.0	62.5	23.5	22.0	41.0
Merged-chr12-84202800-4	chr12	84202700	84202900	+	879.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	Tigger16a|DNA|TcMar-Tigger	-8785.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	14.0	19.5	8.0	236.0	21.5	9.5	9.5	14.0
Merged-chr12-108180348-4	chr12	108180265	108180465	+	928.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009832, intron 1 of 11)	intron (NM_009832, intron 1 of 11)	627.0	NM_009832	12454.0	Mm.474441	NM_009832	ENSMUSG00000021258	Ccnk	AW123198|AW413594|CPR4|CycK	cyclin K	protein-coding	11.0	20.0	13.5	176.5	27.5	13.5	13.0	20.5
Merged-chr2-118901862-2	chr2	118901762	118901962	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001045523, intron 1 of 6)	CpG	247.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	3.5	4.5	3.0	53.5	19.0	15.0	9.5	12.0
Merged-chr13-54306245-4	chr13	54306155	54306355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65094.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	51.5	68.0	45.5	356.0	151.0	78.0	91.5	68.0
Merged-chr13-81171483-4	chr13	81171379	81171579	+	927.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 86 of 89)	intron (NM_054053, intron 86 of 89)	207405.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	21.5	8.5	16.0	145.5	21.5	4.0	13.5	15.0
Merged-chr7-44561207-4	chr7	44561098	44561298	+	878.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7233.0	NM_001285517	22260.0	Mm.968	NM_009473	ENSMUSG00000060601	Nr1h2	AI194859|LXR|LXRB|LXRBSV|LXRbeta|NER1|OR-1|RIP15|UR|Unr|Unr2	nuclear receptor subfamily 1, group H, member 2	protein-coding	10.0	23.5	8.0	201.5	21.0	15.0	11.0	10.0
Merged-chr2-104494597-4	chr2	104494496	104494696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145824)	promoter-TSS (NM_001145824)	-107.0	NM_001145824	15259.0	Mm.257925	NM_010434	ENSMUSG00000027177	Hipk3	DYRK6|FIST3|PKY|mir-1902	homeodomain interacting protein kinase 3	protein-coding	67.5	89.5	71.0	1224.0	221.5	69.0	126.5	57.5
Merged-chr3-38421960-3	chr3	38421855	38422055	+	936.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62861.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	7.0	18.0	14.5	191.0	13.5	6.0	10.5	7.0
Merged-chr10-39450513-4	chr10	39450406	39450606	+	863.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	L2a|LINE|L2	80707.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	9.0	16.0	19.0	194.5	25.5	10.0	17.5	9.0
Merged-chr2-72203810-3	chr2	72203757	72203957	+	819.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 11 of 26)	intron (NM_001355478, intron 11 of 26)	-81780.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	3.5	3.0	2.0	35.5	31.0	10.0	10.5	10.5
Merged-chr4-136894897-4	chr4	136894825	136895025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007572)	TTS (NM_007572)	-2011.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	91.0	71.0	39.0	797.5	32.5	16.0	19.0	24.5
Merged-chr6-82753193-4	chr6	82753041	82753241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 2 of 17)	intron (NM_013820, intron 2 of 17)	21313.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	61.0	133.5	90.5	575.0	227.5	51.5	64.5	46.5
Merged-chr1-39918944-4	chr1	39918848	39919048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	18035.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	17.5	26.5	30.0	730.5	50.0	7.5	22.5	27.5
Merged-chr2-163764568-3	chr2	163764482	163764682	+	999.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14343.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	37.5	34.5	37.0	588.5	2.0	0.0	0.5	0.5
Merged-chr12-38779197-1	chr12	38779097	38779297	+	1000.0	f0_c57.idr	promoter-TSS (NM_007960)	promoter-TSS (NM_007960)	-885.0	NM_001347379	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	22.5	47.5	23.0	420.5	75.5	19.5	33.5	37.5
Merged-chr7-10495442-4	chr7	10495324	10495524	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009577)	promoter-TSS (NM_009577)	-43.0	NM_009577	22775.0	Mm.49441	NM_009577	ENSMUSG00000030393	Zik1	-	zinc finger protein interacting with K protein 1	protein-coding	12.0	14.0	19.5	329.5	42.0	20.0	32.0	20.0
Merged-chr16-45005496-3	chr16	45005383	45005583	+	941.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61805.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	10.0	10.5	11.5	305.0	18.0	2.0	2.0	3.0
Merged-chr2-5012816-4	chr2	5012709	5012909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305259)	promoter-TSS (NM_001305259)	-18.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	101.5	167.5	75.5	1239.5	253.5	90.0	141.5	78.0
Merged-chr2-102877695-4	chr2	102877589	102877789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	23976.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	46.0	81.5	41.0	845.0	80.0	36.5	37.0	41.5
Merged-chr7-6194295-3	chr7	6194185	6194385	+	948.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2805.0	NM_178028	232836.0	Mm.246599	NM_178028	ENSMUSG00000034660	Galp	-	galanin-like peptide	protein-coding	9.0	6.5	10.5	123.0	15.5	3.5	14.0	10.0
Merged-chr6-32249267-3	chr6	32249156	32249356	+	904.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 5 of 31)	intron (NM_175750, intron 5 of 31)	198968.0	NM_029587	76382.0	Mm.23510	NM_029587	ENSMUSG00000029766	1700012A03Rik	AI429084	RIKEN cDNA 1700012A03 gene	protein-coding	5.5	10.0	10.5	110.5	9.0	5.5	4.5	4.5
Merged-chr6-8770597-3	chr6	8770524	8770724	+	973.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010492, intron 1 of 13)	intron (NM_010492, intron 1 of 13)	7860.0	NM_010492	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	17.5	16.0	22.5	294.0	17.5	4.0	18.5	8.5
Merged-chr8-46311370-4	chr8	46311223	46311423	+	880.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-16652.0	NM_173789	234219.0	Mm.145631	NM_173789	ENSMUSG00000047171	Helt	A830086M02|Hesl|Heslike|Mgn|megane	helt bHLH transcription factor	protein-coding	21.5	6.0	5.5	210.0	27.0	6.5	11.0	14.0
Merged-chr5-96917958-6	chr5	96917866	96918066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3306.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	25.0	42.0	45.0	500.5	56.0	26.5	45.5	41.5
Merged-chr9-104263067-4	chr9	104262975	104263175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163026)	promoter-TSS (NM_001163026)	-145.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	279.0	503.0	256.0	3072.0	944.5	389.5	384.5	312.0
Merged-chr11-116028504-4	chr11	116028368	116028568	+	945.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1848.0	NM_001286006	217331.0	Mm.297706	NM_172569	ENSMUSG00000020770	Unk	B230379M23Rik|Unkh|Zc3h5|Zc3hdc5|mKIAA1753	unkempt family zinc finger	protein-coding	15.5	34.0	8.5	112.5	42.5	17.0	19.5	16.0
Merged-chr7-24971453-4	chr7	24971364	24971564	+	916.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010261, intron 3 of 4)	intron (NM_010261, intron 3 of 4)	1264.0	NM_010261	14470.0	Mm.22473	NM_010261	ENSMUSG00000003380	Rabac1	2310040I06Rik|Gbpap1|PRA1|prenylin	Rab acceptor 1 (prenylated)	protein-coding	9.5	21.0	10.0	149.0	29.0	11.5	11.0	15.0
Merged-chr4-49518636-3	chr4	49518550	49518750	+	832.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178603, intron 1 of 1)	MTD|LTR|ERVL-MaLR	2433.0	NM_178603	28028.0	Mm.30052	NM_178603	ENSMUSG00000044018	Mrpl50	AA408971|AI317351|D4Wsu125e	mitochondrial ribosomal protein L50	protein-coding	6.0	4.0	7.0	45.0	8.0	4.5	6.5	13.0
Merged-chr2-172406339-4	chr2	172406236	172406436	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 1 of 6)	intron (NM_001080820, intron 1 of 6)	12542.0	NM_001276423	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	20.5	25.0	24.5	305.0	43.5	18.0	28.0	23.0
Merged-chr1-182368956-3	chr1	182368860	182369060	+	973.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27354.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	21.0	12.5	10.5	162.0	39.0	5.0	8.5	13.0
Merged-chr1-92834301-3	chr1	92834255	92834455	+	835.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016696, intron 1 of 8)	intron (NM_016696, intron 1 of 8)	2710.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	11.5	9.0	5.0	74.0	12.0	1.0	5.5	8.0
Merged-chr14-76097425-4	chr14	76097334	76097534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026177, intron 6 of 7)	intron (NM_026177, intron 6 of 7)	13381.0	NM_026177	67467.0	Mm.260767	NM_026177	ENSMUSG00000022008	Gpalpp1	1200011I18Rik|Kiaa1704	GPALPP motifs containing 1	protein-coding	80.0	75.0	118.0	1409.0	113.5	45.0	58.5	55.0
Merged-chr10-41517990-4	chr10	41517884	41518084	+	897.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie7|DNA|hAT-Charlie	-1516.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	18.0	15.5	12.0	150.5	27.5	6.0	10.5	7.5
Merged-chr5-135134706-4	chr5	135134617	135134817	+	870.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152882, intron 15 of 16)	intron (NR_152882, intron 15 of 16)	-14994.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	4.0	19.0	8.0	107.0	23.5	15.5	15.5	11.5
Merged-chr19-6840857-6	chr19	6840861	6841061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019924)	promoter-TSS (NM_019924)	-334.0	NM_019924	56613.0	Mm.20914	NM_019924	ENSMUSG00000024952	Rps6ka4	1110069D02Rik|90kDa|AI848992|Msk2|mMSK2	ribosomal protein S6 kinase, polypeptide 4	protein-coding	12.0	31.0	28.0	172.5	25.0	19.5	5.5	12.5
Merged-chr1-136675108-4	chr1	136675003	136675203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-8293.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	44.5	47.0	59.5	611.5	86.5	58.5	40.0	70.5
Merged-chr3-108563402-5	chr3	108563239	108563439	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026198)	promoter-TSS (NM_026198)	-873.0	NM_026198	67495.0	Mm.32615	NM_026198	ENSMUSG00000068732	Tmem167b	2010200O16Rik	transmembrane protein 167B	protein-coding	15.0	12.5	6.0	147.5	33.0	9.5	16.5	13.5
Merged-chr9-120116233-4	chr9	120116137	120116337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144793, intron 1 of 6)	intron (NM_144793, intron 1 of 6)	5838.0	NM_144793	208638.0	Mm.236656	NM_144793	ENSMUSG00000032519	Slc25a38	AV019094|BC010801|appoptosin	solute carrier family 25, member 38	protein-coding	60.0	109.5	40.0	782.5	216.0	70.0	97.5	70.0
Merged-chr10-13189755-4	chr10	13189650	13189850	+	920.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181470, intron 3 of 10)	intron (NM_181470, intron 3 of 10)	3387.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	19.5	25.0	11.5	241.5	62.0	10.0	21.5	10.5
Merged-chr3-154540349-3	chr3	154540223	154540423	+	923.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56388.0	NM_009968	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	1.0	3.5	5.0	21.0	38.0	7.0	12.5	16.0
Merged-chr5-142932478-4	chr5	142932363	142932563	+	975.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25709.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	13.5	35.5	11.5	361.5	95.0	28.0	31.5	43.5
Merged-chr14-54578387-4	chr14	54578296	54578496	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010590)	promoter-TSS (NM_010590)	-735.0	NM_010590	16475.0	Mm.100253	NM_010590	ENSMUSG00000022178	Ajuba	Jub	ajuba LIM protein	protein-coding	12.5	29.0	11.0	215.5	55.5	16.5	23.0	21.0
Merged-chr8-94184521-4	chr8	94184422	94184622	+	949.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5433.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	13.5	25.5	13.5	277.0	36.0	19.0	13.0	24.5
Merged-chr8-104077197-4	chr8	104077113	104077313	+	919.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24412.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	14.5	18.0	26.0	186.0	23.0	20.5	12.5	6.5
Merged-chr10-119152705-4	chr10	119152618	119152818	+	743.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59813.0	NR_045348	73400.0	Mm.416864	NR_045348	ENSMUSG00000100681	1700064J06Rik	-	RIKEN cDNA 1700064J06 gene	ncRNA	11.5	15.5	10.5	179.0	13.5	2.5	10.0	9.0
Merged-chr17-31564507-4	chr17	31564401	31564601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016670)	promoter-TSS (NM_016670)	-272.0	NR_027493	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	175.5	390.5	200.0	1945.0	684.0	264.5	262.0	159.5
Merged-chr10-84886549-3	chr10	84886455	84886655	+	849.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024918, intron 15 of 17)	intron (NM_001024918, intron 15 of 17)	-31058.0	NM_001013441	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	10.5	4.5	13.5	106.0	8.5	2.5	2.5	5.0
Merged-chr2-45219993-4	chr2	45219886	45220086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102544.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	29.0	47.5	39.5	807.5	94.0	23.5	34.5	39.0
Merged-chr1-182282314-4	chr1	182282222	182282422	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360783)	promoter-TSS (NM_001360783)	-127.0	NM_001360783	13244.0	Mm.29648	NM_007853	ENSMUSG00000038633	Degs1	AA536663|Degs|Des1|Mdes	delta(4)-desaturase, sphingolipid 1	protein-coding	40.0	62.5	57.5	487.0	68.0	23.5	14.0	40.5
Merged-chr8-116581474-4	chr8	116581375	116581575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 5 of 6)	intron (NM_029441, intron 5 of 6)	76460.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	93.5	122.5	108.0	1166.0	288.0	95.0	123.5	88.0
Merged-chr7-75576393-4	chr7	75576291	75576491	+	991.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 3 of 36)	intron (NM_029332, intron 3 of 36)	120857.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	48.5	42.5	38.0	385.5	70.5	17.5	27.0	24.0
Merged-chr13-55445139-4	chr13	55445034	55445234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286063)	promoter-TSS (NM_001286063)	62.0	NM_001286063	26385.0	Mm.10193	NM_011938	ENSMUSG00000074886	Grk6	Gprk6	G protein-coupled receptor kinase 6	protein-coding	307.5	595.5	305.5	4242.5	706.0	350.5	355.5	291.5
Merged-chr13-110373035-2	chr13	110372924	110373124	+	818.25	f0_balb.idr|f0_c57.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-15852.0	NM_177713	238875.0	Mm.30533	NM_177713	ENSMUSG00000046006	Gapt	9830130M13Rik	Grb2-binding adaptor, transmembrane	protein-coding	14.0	7.0	6.0	161.5	30.5	16.5	18.5	22.5
Merged-chr10-30811098-4	chr10	30810999	30811199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7773.0	NM_001358842	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	91.5	86.5	47.0	759.5	186.0	60.0	51.0	55.5
Merged-chr14-34769174-4	chr14	34769082	34769282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50954.0	NM_008166	14803.0	Mm.121569	NM_008166	ENSMUSG00000041078	Grid1	GluD1|GluRdelta1	glutamate receptor, ionotropic, delta 1	protein-coding	24.0	40.5	33.5	401.0	57.5	21.0	25.5	27.0
Merged-chr11-17159970-4	chr11	17159857	17160057	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 1 of 5)	CpG	659.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	16.0	27.5	13.5	234.5	29.5	13.0	11.5	19.0
Merged-chr18-75378778-2	chr18	75378678	75378878	+	684.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001042660, intron 3 of 3)	intron (NM_001042660, intron 3 of 3)	11413.0	NM_001042660	17131.0	Mm.34407	NM_008543	ENSMUSG00000025880	Smad7	Madh7	SMAD family member 7	protein-coding	5.5	10.0	6.5	36.5	3.0	5.5	4.5	7.0
Merged-chr11-62846041-4	chr11	62845954	62846154	+	855.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1069.0	NM_001033669	213980.0	Mm.482259	NM_001033669	ENSMUSG00000090173	Fbxw10	Fbw10|HREP|SM25H2|SM2SH2	F-box and WD-40 domain protein 10	protein-coding	11.5	5.5	5.0	129.0	29.0	11.0	9.5	16.5
Merged-chr4-149793371-4	chr4	149793263	149793463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19096.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	26.5	45.5	24.0	363.0	61.5	22.5	29.0	24.5
Merged-chr6-86480549-6	chr6	86480469	86480669	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131125, intron 1 of 4)	intron (NR_131125, intron 1 of 4)	261.0	NR_131125	320486.0	Mm.391625	NR_131125	ENSMUSG00000085589	A430078I02Rik	T25621	RIKEN cDNA A430078I02 gene	ncRNA	7.5	22.0	23.5	182.5	41.5	15.5	9.0	14.0
Merged-chr4-59096592-4	chr4	59096496	59096696	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61440.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	28.5	18.5	14.5	255.5	25.0	19.0	20.0	22.5
Merged-chr16-11054603-3	chr16	11054496	11054696	+	747.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11702.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	8.0	8.0	6.5	119.0	27.5	2.0	9.0	9.5
Merged-chr5-149006885-4	chr5	149006794	149006994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040429)	promoter-TSS (NR_040429)	-68.0	NR_040429	100503307.0	Mm.188008	NR_040429	ENSMUSG00000086610	Gm15408	-	predicted gene 15408	ncRNA	77.0	79.0	62.5	972.0	215.0	81.0	84.5	56.0
Merged-chr17-46782609-4	chr17	46782476	46782676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025433)	promoter-TSS (NM_025433)	80.0	NM_025433	66229.0	Mm.218533	NM_025433	ENSMUSG00000063888	Rpl7l1	1500016H10Rik	ribosomal protein L7-like 1	protein-coding	34.5	60.5	28.0	276.0	53.5	20.0	24.5	32.0
Merged-chr1-127225275-4	chr1	127225165	127225365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	20279.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	39.0	44.0	45.5	761.5	104.5	29.0	39.5	42.5
Merged-chr17-47873657-4	chr17	47873512	47873712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028767, intron 13 of 16)	intron (NM_028767, intron 13 of 16)	-38921.0	NM_001109973	17240.0	Mm.329100	NM_010783	ENSMUSG00000032717	Mdfi	I-mf|I-mfa	MyoD family inhibitor	protein-coding	58.0	102.5	41.5	682.0	131.0	55.0	49.5	55.5
Merged-chr18-38350169-4	chr18	38350078	38350278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11185.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	288.5	422.0	279.0	4235.5	618.0	277.0	305.0	229.0
Merged-chr18-6244745-3	chr18	6244640	6244840	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1b|LTR|Gypsy	-3216.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	17.5	23.5	4.5	102.0	24.0	6.5	6.0	10.5
Merged-chr4-136147807-4	chr4	136147712	136147912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	3990.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	145.0	251.0	202.5	2384.0	418.5	157.0	187.0	179.0
Merged-chr9-115805488-4	chr9	115805379	115805579	+	911.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103976.0	NM_028638	73748.0	Mm.485018	NM_028638	ENSMUSG00000056880	Gadl1	1110027M19Rik|ADC|CSADC	glutamate decarboxylase-like 1	protein-coding	14.0	8.5	18.0	290.5	33.0	11.5	16.0	21.5
Merged-chr16-18406085-3	chr16	18405981	18406181	+	779.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007744)	TTS (NM_007744)	7413.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	4.5	5.5	6.5	134.5	5.5	6.0	6.5	5.5
Merged-chr11-32341353-4	chr11	32341299	32341499	+	830.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-6412.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	6.5	9.5	8.0	109.5	14.0	4.5	11.0	7.5
Merged-chr9-45296731-3	chr9	45296628	45296828	+	880.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22372.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	9.5	9.5	12.0	133.5	15.5	4.0	3.0	8.0
Merged-chr18-65565843-3	chr18	65565732	65565932	+	988.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 1 of 6)	intron (NR_105742, intron 1 of 6)	-14398.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	17.5	21.0	8.5	225.5	18.0	11.5	8.5	9.5
Merged-chr17-24169078-4	chr17	24168984	24169184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361535)	promoter-TSS (NM_001361535)	-275.0	NM_001361535	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	70.5	132.5	39.0	761.0	170.0	85.0	81.0	78.0
Merged-chr7-29162995-3	chr7	29162892	29163092	+	831.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_182927, exon 5 of 6)	exon (NM_182927, exon 5 of 6)	5655.0	NM_182927	101809.0	Mm.377262	NM_182927	ENSMUSG00000037239	Spred3	AW047143|D130060H24Rik|Spred-3	sprouty-related, EVH1 domain containing 3	protein-coding	14.5	16.5	11.5	67.5	6.0	4.0	1.0	4.0
Merged-chr3-41587789-4	chr3	41587679	41587879	+	962.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130184, intron 2 of 10)	intron (NM_001130184, intron 2 of 10)	22899.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	40.0	29.0	47.0	1151.5	32.0	13.0	20.5	14.0
Merged-chr1-162207413-4	chr1	162207339	162207539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038619, intron 14 of 20)	intron (NM_001038619, intron 14 of 20)	-10184.0	NR_002870	474332.0	Mm.479755	NR_002870	ENSMUSG00000078190	Dnm3os	6030416H16Rik|Hag2|Npn1|P/L01	dynamin 3, opposite strand	ncRNA	34.0	54.0	36.5	747.0	47.0	31.5	24.0	32.5
Merged-chr5-20681285-4	chr5	20681162	20681362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 22 of 22)	intron (NM_001170746, intron 22 of 22)	200862.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	56.0	42.5	43.5	842.0	74.0	21.5	29.0	25.5
Merged-chr2-29619615-4	chr2	29619472	29619672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039087)	promoter-TSS (NM_001039087)	-148.0	NM_054050	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	42.0	80.5	21.5	437.5	147.5	56.0	58.5	50.5
Merged-chr6-48433612-2	chr6	48433525	48433725	+	584.333374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001085417, intron 4 of 4)	intron (NM_001085417, intron 4 of 4)	11465.0	NM_001085415	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	0.0	0.0	0.0	0.0	19.5	7.0	10.5	13.0
Merged-chr2-22895434-4	chr2	22895328	22895528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019501)	promoter-TSS (NM_019501)	-94.0	NM_019501	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	130.5	145.5	127.0	1233.0	319.5	107.0	161.5	160.5
Merged-chr11-32348314-3	chr11	32348216	32348416	+	912.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177364, intron 1 of 12)	intron (NM_177364, intron 1 of 12)	505.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	5.5	3.0	2.0	16.5	30.5	10.0	8.0	9.0
Merged-chr9-85569053-4	chr9	85568974	85569174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	180260.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	59.0	70.5	56.5	1110.0	113.0	47.5	72.0	71.0
Merged-chr5-90504902-4	chr5	90504800	90505000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007423, intron 10 of 14)	intron (NM_007423, intron 10 of 14)	-14049.0	NM_145146	280662.0	Mm.348786	NM_145146	ENSMUSG00000029369	Afm	Alf|alpha-Alb	afamin	protein-coding	56.0	73.5	60.5	725.0	85.0	42.0	26.0	18.0
Merged-chr2-26604417-4	chr2	26604330	26604530	+	976.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026212)	promoter-TSS (NM_026212)	-13.0	NM_026212	67512.0	Mm.24244	NM_026212	ENSMUSG00000026922	Agpat2	2510002J07Rik|AV000834|BSCL|BSCL1|LPAAB|LPAAT-beta	1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta)	protein-coding	28.5	38.5	26.5	347.0	34.5	19.5	17.5	20.0
Merged-chr11-115536342-4	chr11	115536252	115536452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133354)	promoter-TSS (NM_133354)	-122.0	NM_133354	170930.0	Mm.29923	NM_133354	ENSMUSG00000020738	Sumo2	SUMO-2|Smt3A|Smt3b|Smt3h2	small ubiquitin-like modifier 2	protein-coding	124.0	197.0	99.5	1110.0	219.5	89.0	75.5	77.0
Merged-chr12-33316008-4	chr12	33315914	33316114	+	891.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	13499.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	12.5	26.5	11.0	285.5	33.5	11.5	26.0	12.5
Merged-chr17-24170532-2	chr17	24170443	24170643	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361532)	promoter-TSS (NM_001361532)	-865.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	7.5	5.5	5.0	73.0	10.5	8.0	8.0	12.5
Merged-chr19-44578243-1	chr19	44578143	44578343	+	722.0	f0_balb.idr	Intergenic	MIR|SINE|MIR	15389.0	NM_176958	319594.0	Mm.145278	NM_176958	ENSMUSG00000036450	Hif1an	2310046M24Rik|A830014H24Rik|FIH|FIH1	hypoxia-inducible factor 1, alpha subunit inhibitor	protein-coding	4.5	10.5	7.0	75.0	7.0	0.0	4.5	3.5
Merged-chr6-29526631-4	chr6	29526518	29526718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012057)	promoter-TSS (NM_012057)	-7.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	57.5	96.0	43.5	495.5	175.0	62.5	78.5	49.0
Merged-chr15-59726018-4	chr15	59725914	59726114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68945.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	47.0	71.5	57.0	1001.0	99.0	53.5	50.5	70.0
Merged-chr9-25151887-4	chr9	25151774	25151974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020586)	promoter-TSS (NM_020586)	-93.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	308.0	526.5	460.5	5759.5	986.5	355.5	546.0	391.0
Merged-chr9-123462000-4	chr9	123461909	123462109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001348167, exon 21 of 21)	3' UTR (NM_001348167, exon 21 of 21)	-16692.0	NM_013860	29806.0	Mm.10987	NM_013860	ENSMUSG00000025239	Limd1	AW822033|D9Ertd192e	LIM domains containing 1	protein-coding	159.5	239.5	243.5	368.5	288.5	108.0	117.5	359.0
Merged-chr17-17895592-4	chr17	17895493	17895693	+	942.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7769.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	21.0	24.5	16.5	315.5	62.5	13.0	18.0	14.0
Merged-chr7-62420150-1	chr7	62420050	62420250	+	782.0	f0_balb.idr	promoter-TSS (NM_011746)	promoter-TSS (NM_011746)	-11.0	NM_011746	22652.0	Mm.146	NM_011746	ENSMUSG00000070527	Mkrn3	D7H15S9-1|Zfp127	makorin, ring finger protein, 3	protein-coding	5.0	6.0	9.0	169.0	4.0	0.5	1.5	1.5
Merged-chr6-83040809-4	chr6	83040656	83040856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013586, intron 4 of 13)	intron (NM_013586, intron 4 of 13)	6532.0	NM_013586	16950.0	Mm.380433	NM_013586	ENSMUSG00000000693	Loxl3	Lor2|Loxl2	lysyl oxidase-like 3	protein-coding	24.0	26.5	46.5	496.0	83.0	25.0	42.5	45.0
Merged-chr15-73596073-4	chr15	73595984	73596184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357747, intron 2 of 7)	intron (NM_001357747, intron 2 of 7)	442.0	NM_001168255	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	67.5	76.5	93.5	1291.0	103.5	29.0	74.5	55.0
Merged-chr6-97829330-5	chr6	97829271	97829471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	22313.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	31.0	73.0	21.5	254.0	95.5	57.0	29.0	32.5
Merged-chr14-67359269-4	chr14	67359167	67359367	+	955.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045961, intron 3 of 5)	intron (NR_045961, intron 3 of 5)	38475.0	NR_045961	73977.0	Mm.414915	NR_045961	ENSMUSG00000093472	4930438E09Rik	-	RIKEN cDNA 4930438E09 gene	ncRNA	12.5	18.5	10.5	217.0	42.5	11.0	14.5	21.0
Merged-chr12-102501230-4	chr12	102501136	102501336	+	860.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	31326.0	NM_013747	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	25.5	32.0	14.0	383.5	19.5	6.0	10.0	3.0
Merged-chr5-88961537-3	chr5	88961458	88961658	+	828.283325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359211, intron 3 of 26)	intron (NM_001359211, intron 3 of 26)	-66408.0	NM_001359212	54403.0	Mm.41044	NM_018760	ENSMUSG00000060961	Slc4a4	AI835705|NBC|NBC1	solute carrier family 4 (anion exchanger), member 4	protein-coding	6.5	13.0	25.5	287.0	8.5	2.5	4.5	1.0
Merged-chr4-53437511-4	chr4	53437402	53437602	+	965.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2911.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	74.0	144.0	55.5	747.5	86.5	38.5	18.5	12.5
Merged-chr11-53308260-2	chr11	53308160	53308360	+	762.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7781.0	NM_008300	15525.0	Mm.239865	NM_008300	ENSMUSG00000020361	Hspa4	70kDa|AI317151|APG-2|Hsp110|Hsp70RY|mKIAA4025	heat shock protein 4	protein-coding	5.0	5.5	2.0	77.0	5.0	7.0	5.5	4.5
Merged-chr17-73035341-6	chr17	73035207	73035407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72678.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	18.0	21.0	25.0	432.5	72.5	24.5	37.0	30.0
Merged-chr19-37509928-4	chr19	37509839	37510039	+	973.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40479.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	14.0	23.5	6.0	189.5	34.5	18.5	18.0	13.5
Merged-chr5-76522176-4	chr5	76522057	76522257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7150.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	29.0	26.5	21.0	389.5	53.0	21.5	28.5	42.5
Merged-chr3-60526407-4	chr3	60526316	60526516	+	932.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	25237.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	14.5	37.0	8.0	167.5	46.5	12.5	12.5	25.0
Merged-chr11-19823687-3	chr11	19823549	19823749	+	836.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100793.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	8.5	8.0	2.5	80.0	19.0	9.5	5.5	13.5
Merged-chr11-54807914-4	chr11	54807803	54808003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12016.0	NR_040284	432562.0	Mm.406948	NR_040284	ENSMUSG00000086789	Lyrm7os	Gm12228	LYR motif containing 7, opposite strand	ncRNA	49.5	121.5	70.5	950.0	184.0	65.5	45.5	55.0
Merged-chr3-116859148-4	chr3	116859050	116859250	+	853.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113478)	promoter-TSS (NM_001113478)	-417.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	8.5	16.0	6.0	119.0	20.0	6.5	16.5	21.5
Merged-chr3-116227088-2	chr3	116226988	116227188	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	26396.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	7.5	4.5	12.5	96.5	16.0	8.5	5.0	7.5
Merged-chr2-66141131-2	chr2	66141046	66141246	+	573.25	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16353.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	3.0	10.0	1.0	69.0	29.5	11.5	8.0	7.5
Merged-chr14-25800347-4	chr14	25800231	25800431	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31475.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	6.0	17.5	9.0	202.0	24.5	12.5	12.0	4.5
Merged-chr1-97580418-4	chr1	97580302	97580502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	81274.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	40.0	94.0	24.5	631.5	142.0	45.0	35.5	40.0
Merged-chr3-108164919-4	chr3	108164815	108165015	+	894.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9983.0	NM_001305461	229714.0	Mm.73666	NM_175470	ENSMUSG00000046793	Gpr61	-	G protein-coupled receptor 61	protein-coding	13.0	11.5	4.0	146.0	35.5	14.5	15.5	23.5
Merged-chr8-45332453-2	chr8	45332353	45332553	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133969, intron 1 of 10)	intron (NM_133969, intron 1 of 10)	743.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	5.5	3.0	7.5	50.5	5.0	4.5	6.0	10.5
Merged-chr14-21032317-4	chr14	21032200	21032400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009502, exon 21 of 21)	3' UTR (NM_009502, exon 21 of 21)	20142.0	NM_018829	55946.0	Mm.376269	NM_018829	ENSMUSG00000021824	Ap3m1	1200013D09Rik|C78982|R75378	adaptor-related protein complex 3, mu 1 subunit	protein-coding	216.0	340.5	207.5	3034.0	453.0	181.0	183.0	143.5
Merged-chr2-32737266-4	chr2	32737153	32737353	+	965.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027529, intron 2 of 2)	intron (NM_027529, intron 2 of 2)	3763.0	NM_027529	70730.0	Mm.401360	NM_027529	ENSMUSG00000009551	6330409D20Rik	AA517851	RIKEN cDNA 6330409D20 gene	protein-coding	20.0	41.5	19.5	301.0	34.0	8.5	22.0	22.0
Merged-chr14-55822670-4	chr14	55822581	55822781	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2114.0	NM_001168346	73181.0	Mm.27908	NM_023699	ENSMUSG00000023411	Nfatc4	3110041H08Rik|AW107667|AW546455|Nfat3	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 4	protein-coding	16.5	38.5	15.0	326.5	50.0	12.0	16.0	25.5
Merged-chr1-171129492-4	chr1	171129388	171129588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025321, exon 6 of 6)	3' UTR (NM_025321, exon 6 of 6)	7827.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	159.0	164.0	193.0	2881.0	224.0	64.5	144.5	123.5
Merged-chr9-75195842-4	chr9	75195734	75195934	+	900.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010864, intron 31 of 40)	intron (NM_010864, intron 31 of 40)	-36180.0	NM_001081322	208943.0	Mm.41339	NM_001081322	ENSMUSG00000033590	Myo5c	9130003O20Rik|BB085560|C330029I24	myosin VC	protein-coding	14.0	15.0	18.5	242.0	35.0	20.0	12.5	6.5
Merged-chr8-66444384-4	chr8	66444298	66444498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 6 of 7)	intron (NM_175188, intron 6 of 7)	42132.0	NM_025465	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	59.0	36.5	42.5	783.5	54.0	21.5	39.0	29.0
Merged-chr4-102558068-4	chr4	102557964	102558164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-11996.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	37.0	45.5	24.0	584.0	67.0	22.5	69.0	48.5
Merged-chr2-68860623-3	chr2	68860540	68860740	+	779.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172856)	promoter-TSS (NM_172856)	-801.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	10.5	11.5	11.5	114.0	17.0	4.5	10.5	9.0
Merged-chr4-43630336-3	chr4	43630244	43630444	+	917.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1591.0	NM_001355466	230103.0	Mm.103477	NM_173788	ENSMUSG00000028469	Npr2	GC-B|GC-B2|GC-B3|cn|mNPR-B|pwe	natriuretic peptide receptor 2	protein-coding	15.0	15.0	4.5	123.0	5.5	9.0	22.0	12.0
Merged-chr11-20220544-3	chr11	20220446	20220646	+	901.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 3 of 5)	intron (NM_008996, intron 3 of 5)	19134.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	12.5	4.5	8.5	132.0	81.5	9.5	9.0	15.0
Merged-chr7-19295996-4	chr7	19295900	19296100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013648, exon 10 of 10)	3' UTR (NM_013648, exon 10 of 10)	4931.0	NM_001025364	20167.0	Mm.24142	NM_013648	ENSMUSG00000030401	Rtn2	MMS10-P|Ms10p|NSPLI|Nspl1	reticulon 2 (Z-band associated protein)	protein-coding	39.0	40.0	16.5	353.5	76.5	35.0	32.0	34.0
Merged-chr2-167257354-4	chr2	167257260	167257460	+	832.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-16823.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	6.0	8.5	8.0	58.5	39.0	11.5	10.5	8.5
Merged-chr13-34994203-4	chr13	34994104	34994304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073427)	promoter-TSS (NR_073427)	-60.0	NM_001110331	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	108.5	96.0	61.5	878.5	165.5	78.0	86.5	84.0
Merged-chr3-121262960-3	chr3	121262770	121262970	+	947.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355678, exon 1 of 8)	5' UTR (NM_001355678, exon 1 of 8)	289.0	NM_001355678	99887.0	Mm.26088	NM_178936	ENSMUSG00000028132	Tmem56	4930577M16Rik|AU018104|AW109744|C730036B01Rik	transmembrane protein 56	protein-coding	8.0	17.5	17.5	145.0	18.5	2.0	5.5	17.0
Merged-chr6-115344258-2	chr6	115344158	115344358	+	720.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16693.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	4.5	7.0	0.0	106.0	7.0	6.0	5.5	7.0
Merged-chr6-135168182-4	chr6	135168083	135168283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013546)	promoter-TSS (NM_013546)	32.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	78.0	99.0	62.5	989.5	196.0	78.0	113.5	73.5
Merged-chr7-28053659-3	chr7	28053572	28053772	+	930.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3580.0	NM_011874	23996.0	Mm.29582	NM_011874	ENSMUSG00000030603	Psmc4	CIP21|MIP224	proteasome (prosome, macropain) 26S subunit, ATPase, 4	protein-coding	4.5	2.5	23.0	207.0	18.0	7.5	4.5	4.5
Merged-chr4-14864750-4	chr4	14864654	14864854	+	972.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028264, intron 1 of 6)	intron (NM_028264, intron 1 of 6)	535.0	NM_028264	72519.0	Mm.279158	NM_028264	ENSMUSG00000028221	Tmem55a	2610319K07Rik|AI315591|AV001360|Pip4p2	transmembrane protein 55A	protein-coding	19.5	14.5	27.5	308.0	53.0	23.0	25.5	30.0
Merged-chr10-42153032-3	chr10	42152931	42153131	+	961.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123711.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	6.5	14.5	9.0	160.0	18.5	5.0	10.5	5.0
Merged-chr1-194995395-4	chr1	194995302	194995502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18443.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	161.5	263.5	166.0	3768.0	431.5	153.5	278.5	151.5
Merged-chr13-48873748-6	chr13	48873624	48873824	+	707.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2839.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	6.0	11.5	8.5	114.5	17.5	5.0	12.0	14.5
Merged-chr5-136243915-2	chr5	136243815	136244015	+	779.5476070000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001302938, intron 1 of 8)	CpG	1025.0	NM_001302939	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	2.0	6.5	2.0	42.0	14.5	5.0	9.5	6.5
Merged-chr3-131965652-3	chr3	131965554	131965754	+	919.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119638.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	5.0	6.0	5.5	169.5	30.5	5.0	18.0	9.5
Merged-chr6-123289911-4	chr6	123289817	123290017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019948)	promoter-TSS (NM_019948)	-46.0	NM_019948	56619.0	Mm.248327	NM_019948	ENSMUSG00000030142	Clec4e	C86253|Clecsf9|Mincle	C-type lectin domain family 4, member e	protein-coding	26.5	63.5	21.0	308.0	62.5	26.5	32.5	18.5
Merged-chr5-125352048-4	chr5	125351966	125352166	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10972.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	16.0	33.0	17.0	224.0	73.0	27.0	31.0	25.0
Merged-chr18-67825458-4	chr18	67825351	67825551	+	807.104187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027556, intron 14 of 45)	MIRb|SINE|MIR	25344.0	NM_027556	70799.0	Mm.30857	NM_027556	ENSMUSG00000024542	Cep192	4631422C13Rik|D430014P18Rik	centrosomal protein 192	protein-coding	8.0	5.0	16.0	139.0	24.0	8.5	10.0	10.0
Merged-chr3-101293948-1	chr3	101293848	101294048	+	801.666687	f0_balb.idr	Intergenic	Intergenic	-6009.0	NM_013486	12481.0	Mm.22842	NM_013486	ENSMUSG00000027863	Cd2	LFA-2|Ly-37|Ly37	CD2 antigen	protein-coding	13.0	10.5	29.5	264.5	9.5	2.5	4.5	5.5
Merged-chr3-27453837-6	chr3	27453780	27453980	+	886.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 22 of 26)	B3|SINE|B2	82529.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	12.0	10.0	12.5	188.0	20.0	13.0	9.5	10.5
Merged-chr4-59548677-4	chr4	59548606	59548806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144904, intron 1 of 14)	CpG	658.0	NM_178164	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	31.5	54.5	65.5	483.0	121.5	57.0	51.5	65.0
Merged-chr7-143822958-4	chr7	143822842	143823042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007856)	promoter-TSS (NM_007856)	-90.0	NM_030221	78914.0	Mm.35104	NM_030221	ENSMUSG00000031090	Nadsyn1	9130012B15Rik	NAD synthetase 1	protein-coding	257.5	433.5	304.5	3296.5	647.0	276.0	279.0	228.5
Merged-chr11-69118079-4	chr11	69118039	69118239	+	950.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2314.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	19.0	25.0	21.5	240.5	32.0	11.5	11.0	12.0
Merged-chr7-31150689-1	chr7	31150589	31150789	+	1000.0	f0_balb.idr	intron (NR_153431, intron 1 of 18)	CpG	482.0	NM_027898	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	29.0	56.5	15.0	232.5	63.0	22.0	15.0	11.0
Merged-chr16-45158770-4	chr16	45158706	45158906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356453)	promoter-TSS (NM_001356453)	-23.0	NM_001356366	67841.0	Mm.41775	NM_026402	ENSMUSG00000022663	Atg3	2610016C12Rik|APG3|Apg3l|Atg3l|PC3-96	autophagy related 3	protein-coding	274.5	397.0	280.5	4191.5	714.5	237.5	304.0	285.5
Merged-chr4-137603946-4	chr4	137603852	137604052	+	898.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355588, intron 1 of 26)	intron (NM_001355588, intron 1 of 26)	9780.0	NM_130879	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	15.5	11.5	7.0	193.5	38.0	5.0	13.5	9.0
Merged-chr4-48473463-4	chr4	48473359	48473559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355741)	promoter-TSS (NM_001355741)	4.0	NM_172304	269536.0	Mm.272025	NM_172304	ENSMUSG00000028345	Tex10	2610206N19Rik|2810462N03Rik|BC006867	testis expressed gene 10	protein-coding	74.0	103.0	70.0	927.5	189.5	60.0	81.5	95.5
Merged-chr15-66814163-4	chr15	66814074	66814274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	17655.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	73.0	102.5	99.5	1003.0	143.0	54.0	77.0	47.0
Merged-chr4-109123353-4	chr4	109123248	109123448	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355190, intron 2 of 21)	RLTR19-int|LTR|ERVK	-5312.0	NM_001134791	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	25.5	19.5	20.5	254.5	70.5	16.5	38.5	24.0
Merged-chr6-127147873-4	chr6	127147753	127147953	+	973.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009829, intron 2 of 4)	intron (NM_009829, intron 2 of 4)	-1536.0	NR_040274	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	14.5	27.0	16.5	154.5	45.0	25.0	22.5	14.5
Merged-chr1-157413199-2	chr1	157413114	157413314	+	653.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_177644)	promoter-TSS (NM_177644)	-619.0	NM_177644	226525.0	Mm.235028	NM_177644	ENSMUSG00000070565	Rasal2	6530401P13|A330066M24Rik	RAS protein activator like 2	protein-coding	8.0	8.0	5.0	119.0	9.0	1.0	7.5	4.0
Merged-chr6-125095344-2	chr6	125095244	125095444	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145979)	promoter-TSS (NM_145979)	-637.0	NM_001346610	107932.0	Mm.333388	NM_145979	ENSMUSG00000063870	Chd4	9530019N15Rik|AA617397|BC005710|D6Ertd380e|Mi-2beta|mKIAA4075	chromodomain helicase DNA binding protein 4	protein-coding	5.0	6.5	4.5	38.5	23.5	6.5	5.0	1.5
Merged-chr12-29698217-4	chr12	29698119	29698319	+	849.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361657, intron 3 of 24)	intron (NM_001361657, intron 3 of 24)	-11774.0	NR_046080	328075.0	Mm.447832	NR_046080	ENSMUSG00000112663	C630031E19Rik	C630031E19	RIKEN cDNA C630031E19 gene	ncRNA	1.5	2.5	10.0	127.5	32.5	6.5	17.5	10.5
Merged-chr1-36308211-4	chr1	36308140	36308340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290727, intron 1 of 5)	intron (NM_001290727, intron 1 of 5)	507.0	NM_001172205	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	133.0	202.5	178.0	2281.0	302.0	121.5	136.5	158.0
Merged-chr8-83131847-4	chr8	83131708	83131908	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33544.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	14.0	12.0	23.0	289.0	29.5	6.0	13.0	12.5
Merged-chr10-87858841-6	chr10	87858770	87858970	+	782.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010512)	promoter-TSS (NM_010512)	-182.0	NM_001111275	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	5.0	12.5	7.5	92.5	9.0	10.5	4.0	11.0
Merged-chr3-144232143-4	chr3	144232037	144232237	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26882.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	32.0	37.5	19.0	372.0	49.0	22.5	36.0	17.5
Merged-chr17-34122644-4	chr17	34122510	34122710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010386)	promoter-TSS (NM_010386)	-3.0	NM_001204973	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	62.5	138.0	41.5	814.0	202.0	108.0	96.5	87.5
Merged-chr19-34527519-4	chr19	34527410	34527610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021460)	promoter-TSS (NM_021460)	-36.0	NM_021460	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	212.0	296.5	223.0	3162.5	468.5	136.5	217.5	174.5
Merged-chr11-72607809-4	chr11	72607716	72607916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025985, intron 1 of 5)	CpG	555.0	NM_025985	67128.0	Mm.458052	NM_025985	ENSMUSG00000020794	Ube2g1	2700059C12Rik|AI256795|AU014992|AW552068|D130023C12Rik	ubiquitin-conjugating enzyme E2G 1	protein-coding	32.0	52.5	47.0	342.5	117.0	37.5	40.5	47.0
Merged-chr12-71048348-4	chr12	71048256	71048456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081195, intron 11 of 23)	intron (NM_001081195, intron 11 of 23)	32389.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	54.5	76.0	43.0	837.0	132.5	35.5	49.5	38.0
Merged-chr10-81175188-4	chr10	81175104	81175304	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1427.0	NM_007907	13629.0	Mm.2903	NM_007907	ENSMUSG00000034994	Eef2	Ef-2	eukaryotic translation elongation factor 2	protein-coding	23.0	15.5	18.0	304.0	72.5	19.0	26.0	25.5
Merged-chr4-59164180-4	chr4	59164075	59164275	+	956.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25375.0	NM_011673	22234.0	Mm.198803	NM_011673	ENSMUSG00000028381	Ugcg	AU043821|C80537|Epcs21|GlcT-1|Ugcgl	UDP-glucose ceramide glucosyltransferase	protein-coding	22.5	45.5	33.5	646.0	90.5	11.5	37.5	29.0
Merged-chr6-149188775-4	chr6	149188667	149188867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113424)	promoter-TSS (NM_001113424)	-55.0	NM_001113424	232566.0	Mm.209147	NM_001113424	ENSMUSG00000068250	Amn1	5830467E07Rik|A230083D09|C730024G19Rik	antagonist of mitotic exit network 1	protein-coding	265.0	379.0	271.5	4802.0	813.5	262.0	333.5	252.0
Merged-chr15-77368335-4	chr15	77368239	77368439	+	924.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30771.0	NM_029419	75761.0	Mm.232636	NM_029419	ENSMUSG00000010601	Apol7a	9130022K13Rik|Apol3	apolipoprotein L 7a	protein-coding	21.5	31.0	8.0	329.0	33.0	5.0	19.0	14.5
Merged-chr16-16302542-2	chr16	16302442	16302642	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038046)	promoter-TSS (NR_038046)	-423.0	NR_038046	70120.0	Mm.37486	NM_198246	ENSMUSG00000022792	Yars2	2210023C10Rik|tyrRS	tyrosyl-tRNA synthetase 2 (mitochondrial)	protein-coding	24.5	36.0	19.0	314.5	70.5	31.0	36.5	20.5
Merged-chr15-97831742-6	chr15	97831746	97831946	+	865.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204276)	promoter-TSS (NM_001204276)	-79.0	NM_001204276	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	12.5	6.0	7.0	71.5	25.5	2.5	9.5	11.5
Merged-chr1-177442067-4	chr1	177441974	177442174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355101)	promoter-TSS (NM_001355101)	-277.0	NM_001355099	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	362.5	454.5	478.5	6085.5	854.0	340.5	503.5	334.0
Merged-chr13-42515132-3	chr13	42515024	42515224	+	923.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-165675.0	NM_001302635	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	7.0	16.5	5.0	234.5	12.5	8.0	14.0	12.0
Merged-chr6-82764320-4	chr6	82764210	82764410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	intron (NM_013820, intron 1 of 17)	10144.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	168.5	255.0	162.0	2152.0	327.5	127.0	176.5	136.0
Merged-chr12-77239687-2	chr12	77239587	77239787	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045554, intron 1 of 11)	intron (NR_045554, intron 1 of 11)	948.0	NR_045554	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	6.0	7.0	12.0	73.5	16.5	9.5	7.5	7.5
Merged-chr1-144140037-4	chr1	144139921	144140121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153171, intron 5 of 5)	intron (NM_153171, intron 5 of 5)	37351.0	NM_153171	246709.0	Mm.38271	NM_153171	ENSMUSG00000051079	Rgs13	-	regulator of G-protein signaling 13	protein-coding	30.0	35.0	51.5	518.0	52.0	17.5	23.0	27.5
Merged-chr3-88493090-4	chr3	88493001	88493201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002011, intron 1 of 11)	intron (NM_001002011, intron 1 of 11)	211.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	211.0	331.5	155.5	3008.0	480.0	197.0	256.5	196.0
Merged-chr5-143975539-4	chr5	143975474	143975674	+	832.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	39279.0	NM_177682	231874.0	Mm.320432	NM_177682	ENSMUSG00000029617	Ccz1	AU022870	CCZ1 vacuolar protein trafficking and biogenesis associated	protein-coding	5.5	13.5	5.0	107.0	19.5	7.0	14.0	8.5
Merged-chr4-139209048-4	chr4	139208953	139209153	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	14942.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	14.5	24.5	31.5	516.0	51.5	9.5	29.0	27.5
Merged-chr9-35115576-2	chr9	35115494	35115694	+	733.75	f0_balb.idr|f0_c57.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-1134.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	2.5	21.0	8.5	109.5	16.5	6.5	15.5	7.0
Merged-chr5-148473209-4	chr5	148473119	148473319	+	877.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1C|Other|Other	-73315.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	11.0	18.5	31.5	451.0	50.5	12.0	16.5	9.5
Merged-chr11-121434952-4	chr11	121434851	121435051	+	985.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022014)	promoter-TSS (NM_022014)	-2.0	NM_001038699	63828.0	Mm.266448	NM_022014	ENSMUSG00000025175	Fn3k	2310074G21Rik	fructosamine 3 kinase	protein-coding	46.5	37.0	10.5	393.0	44.0	19.0	24.5	25.0
Merged-chr6-114364866-4	chr6	114364751	114364951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-33085.0	NM_001317125	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	38.0	42.0	45.5	947.5	88.5	34.5	37.5	44.5
Merged-chr11-116853229-4	chr11	116853150	116853350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011358)	promoter-TSS (NM_011358)	-156.0	NM_011358	20382.0	Mm.21841	NM_011358	ENSMUSG00000034120	Srsf2	D11Wsu175e|MRF-1|Pr264|SC35|Sfrs10|Sfrs2	serine/arginine-rich splicing factor 2	protein-coding	89.0	144.0	75.5	885.0	380.0	157.0	129.5	145.5
Merged-chr5-147848362-3	chr5	147848306	147848506	+	581.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12222.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	2.5	8.5	4.0	75.0	15.0	5.5	6.5	13.0
Merged-chr2-57232559-4	chr2	57232450	57232650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5128.0	NM_001145820	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	94.5	104.0	110.5	1917.5	379.0	105.0	158.0	167.0
Merged-chr13-74009375-4	chr13	74009278	74009478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182839)	promoter-TSS (NM_182839)	-41.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	149.0	166.5	102.5	2840.5	254.5	114.5	167.0	142.0
Merged-chr9-62894303-1	chr9	62894203	62894403	+	636.0	f0_balb.idr	intron (NM_019663, intron 9 of 13)	intron (NM_019663, intron 9 of 13)	-32279.0	NR_003965	677044.0	Mm.422004	NR_003965	ENSMUSG00000074250	Gm10653	-	ribsomal protein S2 pseudogene	pseudo	2.5	5.0	11.0	103.5	15.5	5.0	8.0	11.5
Merged-chr8-56301464-4	chr8	56301342	56301542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 3 of 6)	intron (NM_008278, intron 3 of 6)	6890.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	66.5	81.5	34.5	338.5	158.0	57.5	66.5	51.5
Merged-chr13-20313628-4	chr13	20313590	20313790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 13 of 21)	intron (NM_080288, intron 13 of 21)	-159300.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	41.5	55.0	40.5	453.0	78.5	33.0	34.5	44.0
Merged-chr8-127780287-2	chr8	127780187	127780387	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	480635.0	NM_001013580	93742.0	Mm.299254	NM_033620	ENSMUSG00000025812	Pard3	AA960621|AI256638|Asip|D8Ertd580e|Par-3|Par3|Pard-3|Pard3a|Phip	par-3 family cell polarity regulator	protein-coding	1.0	9.0	5.0	53.5	35.0	4.5	4.5	6.0
Merged-chr7-19698241-4	chr7	19698127	19698327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009696, exon 2 of 4)	exon (NM_009696, exon 2 of 4)	171.0	NM_001305819	11816.0	Mm.305152	NM_009696	ENSMUSG00000002985	Apoe	AI255918|Apo-E	apolipoprotein E	protein-coding	24.5	29.5	37.5	576.0	58.5	23.0	26.5	25.0
Merged-chr3-105880466-3	chr3	105880367	105880567	+	830.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	MTE2b|LTR|ERVL-MaLR	9609.0	NM_001174169	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	9.5	2.5	8.0	99.5	19.0	7.0	15.0	10.5
Merged-chr14-74947837-4	chr14	74947744	74947944	+	945.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252132)	promoter-TSS (NM_001252132)	33.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	14.5	24.5	8.0	211.0	34.5	10.5	20.0	13.5
Merged-chr12-86897380-4	chr12	86897292	86897492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12578.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	103.0	117.5	124.0	950.5	231.0	122.0	76.5	75.0
Merged-chr15-58261784-4	chr15	58261667	58261867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4A|LINE|L1	-46875.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	176.0	178.0	154.5	2047.5	349.0	113.0	119.5	121.0
Merged-chr7-105778607-4	chr7	105778489	105778689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162943, intron 1 of 20)	intron (NM_001162943, intron 1 of 20)	8961.0	NM_001162943	233651.0	Mm.334108	NM_001162943	ENSMUSG00000036862	Dchs1	3110041P15Rik|C130033F22Rik|CDH25|FIB1|Gm165|PCDH16	dachsous cadherin related 1	protein-coding	47.0	39.5	32.0	664.5	71.0	23.5	20.0	31.0
Merged-chr9-70650466-4	chr9	70650354	70650554	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172772, intron 1 of 8)	intron (NM_172772, intron 1 of 8)	6720.0	NM_172772	235461.0	Mm.170855	NM_172772	ENSMUSG00000042444	Mindy2	AI465301|B230380D07Rik|Fam63b|mKIAA1164	MINDY lysine 48 deubiquitinase 2	protein-coding	17.5	22.5	7.0	313.5	66.0	13.0	10.5	25.0
Merged-chr12-55016600-3	chr12	55016494	55016694	+	874.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30258.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	7.0	7.5	4.5	59.5	36.5	4.5	9.5	14.5
Merged-chr13-94143498-4	chr13	94143429	94143629	+	889.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	85733.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	27.0	11.5	16.0	324.0	20.0	10.5	13.0	11.0
Merged-chr14-17402996-3	chr14	17402896	17403096	+	840.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-257964.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	9.0	11.0	7.0	162.0	19.0	19.5	7.0	4.0
Merged-chr16-44772739-4	chr16	44772625	44772825	+	801.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	6989.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	6.0	11.0	7.0	202.0	21.5	6.5	11.5	8.0
Merged-chr8-86623998-4	chr8	86623879	86624079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025827)	promoter-TSS (NM_025827)	-64.0	NM_025827	66887.0	Mm.324550	NM_025827	ENSMUSG00000047866	Lonp2	1300002A08Rik|AU015403|Lonp	lon peptidase 2, peroxisomal	protein-coding	245.0	302.5	249.5	3630.0	579.0	255.5	374.5	261.5
Merged-chr11-85812655-4	chr11	85812560	85812760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077059, intron 1 of 4)	intron (NR_077059, intron 1 of 4)	19728.0	NR_077059	69909.0	Mm.440214	NR_077059	ENSMUSG00000087013	2610027K06Rik	-	RIKEN cDNA 2610027K06 gene	ncRNA	76.5	81.5	57.5	849.5	135.0	48.5	46.0	55.0
Merged-chr13-69493213-4	chr13	69493117	69493317	+	853.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40647.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	21.0	40.0	20.0	262.0	24.0	13.5	11.5	5.0
Merged-chr2-89296655-3	chr2	89296560	89296760	+	716.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146789, exon 1 of 1)	exon (NM_146789, exon 1 of 1)	608.0	NM_146789	258785.0	Mm.377689	NM_146789	ENSMUSG00000075094	Olfr1230	MOR237-1	olfactory receptor 1230	protein-coding	17.0	25.0	17.5	253.5	2.0	0.5	1.0	3.5
Merged-chr11-68589640-2	chr11	68589540	68589740	+	741.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177779, intron 3 of 6)	intron (NM_177779, intron 3 of 6)	2603.0	NM_177779	276920.0	Mm.123046	NM_177779	ENSMUSG00000045915	Ccdc42	A530001H01Rik	coiled-coil domain containing 42	protein-coding	5.5	12.0	2.5	45.5	20.5	9.0	4.5	9.0
Merged-chr7-140856383-4	chr7	140856302	140856502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018742)	promoter-TSS (NM_018742)	-19.0	NM_018742	54399.0	Mm.155696	NM_018742	ENSMUSG00000025484	Bet1l	2610021K23Rik|Gs15	Bet1 golgi vesicular membrane trafficking protein like	protein-coding	98.0	132.5	71.5	1241.5	181.0	75.5	114.0	110.0
Merged-chr16-36828371-4	chr16	36828265	36828465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113401)	promoter-TSS (NM_001113401)	-35.0	NM_177128	320299.0	Mm.222934	NM_177128	ENSMUSG00000022837	Iqcb1	6820449I09Rik|AV128382|NPHP5	IQ calmodulin-binding motif containing 1	protein-coding	84.5	107.0	75.5	1418.0	145.5	56.5	79.0	62.5
Merged-chr10-30719012-6	chr10	30718894	30719094	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 3 of 14)	intron (NM_001358842, intron 3 of 14)	-63127.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	16.5	13.5	28.0	194.0	55.0	18.0	19.5	35.0
Merged-chr13-93248868-3	chr13	93248765	93248965	+	954.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54892.0	NM_147176	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	13.0	11.0	13.0	138.5	10.0	1.0	8.5	9.0
Merged-chr13-58073444-4	chr13	58073341	58073541	+	878.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 5 of 16)	intron (NM_001195075, intron 5 of 16)	28987.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	15.0	21.5	11.5	261.0	22.0	7.0	11.5	7.5
Merged-chr3-54735476-4	chr3	54735372	54735572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025442)	promoter-TSS (NM_025442)	-67.0	NM_025442	66248.0	Mm.144218	NM_025442	ENSMUSG00000036632	Alg5	1500026A19Rik|2600005J22Rik|AV009521|AV170001|AW545564	asparagine-linked glycosylation 5 (dolichyl-phosphate beta-glucosyltransferase)	protein-coding	159.0	228.0	93.5	2037.0	342.5	174.5	181.5	127.5
Merged-chr14-45667369-4	chr14	45667277	45667477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9234.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	164.5	384.0	224.0	3292.0	634.5	215.0	213.5	187.5
Merged-chr6-55416178-3	chr6	55416102	55416302	+	828.688904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	19315.0	NR_046179	330324.0	Mm.113703	NR_046179	ENSMUSG00000108228	6430584L05Rik	6430584L05	RIKEN cDNA 6430584L05 gene	ncRNA	7.0	12.0	11.0	236.0	0.0	1.0	9.0	3.0
Merged-chr1-177261023-4	chr1	177260922	177261122	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12255.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	43.5	65.0	44.5	684.5	84.5	29.0	19.5	25.0
Merged-chr5-21185776-2	chr5	21185676	21185876	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175437)	promoter-TSS (NM_175437)	-491.0	NR_153365	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	18.5	20.5	9.5	183.5	20.0	18.5	15.5	14.5
Merged-chr3-103914398-4	chr3	103914241	103914441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356556, exon 1 of 8)	5' UTR (NM_001356556, exon 1 of 8)	221.0	NM_172684	229675.0	Mm.29366	NM_172684	ENSMUSG00000044098	Rsbn1	C230004D03Rik|E330004N01|KDM9|Rosbin|Rsbn|Rsbp|mKIAA3002	rosbin, round spermatid basic protein 1	protein-coding	225.5	281.0	261.0	3302.5	449.0	207.0	237.0	181.5
Merged-chr10-62219032-3	chr10	62218940	62219140	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197996, intron 1 of 7)	intron (NM_197996, intron 1 of 7)	12178.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	19.5	12.0	5.0	244.5	23.5	4.5	5.5	3.0
Merged-chr15-101173967-4	chr15	101173910	101174110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007395)	promoter-TSS (NM_007395)	-62.0	NM_007395	11479.0	Mm.308467	NM_007395	ENSMUSG00000000532	Acvr1b	6820432J04|ALK-4|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2	activin A receptor, type 1B	protein-coding	50.5	115.5	25.0	659.5	183.5	57.5	83.0	45.0
Merged-chr17-31801025-3	chr17	31800917	31801117	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	54787.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	0.0	0.0	0.0	0.0	55.0	25.0	55.0	22.0
Merged-chr11-106419692-4	chr11	106419617	106419817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 9 of 21)	intron (NM_023913, intron 9 of 21)	-36936.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	58.0	67.0	54.0	677.0	81.0	26.0	21.5	52.5
Merged-chr5-137079990-4	chr5	137079891	137080091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7719.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	104.0	148.5	114.0	1619.0	234.0	96.5	136.0	87.5
Merged-chr18-38419703-2	chr18	38419611	38419811	+	787.0	f0_balb.idr|f0_c57.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	804.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	14.0	13.5	6.0	201.5	17.5	12.5	11.0	10.0
Merged-chr6-8337086-3	chr6	8337004	8337204	+	739.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302354, intron 2 of 3)	intron (NM_001302354, intron 2 of 3)	77816.0	NM_001302353	100036521.0	Mm.446106	NM_001302353	ENSMUSG00000089862	Umad1	Gm16039	UMAP1-MVP12 associated (UMA) domain containing 1	protein-coding	3.0	2.0	4.5	73.5	10.0	5.5	7.0	8.0
Merged-chr17-34188229-2	chr17	34188129	34188329	+	933.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013585)	promoter-TSS (NM_013585)	673.0	NM_013683	21354.0	Mm.482076	NM_013683	ENSMUSG00000037321	Tap1	ABC17|APT1|Abcb2|Ham-1|Ham1|MTP1|PSF1|RING4|TAP|Tap-1|Y3	transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)	protein-coding	7.0	9.5	1.5	49.5	21.0	12.0	7.5	12.0
Merged-chr17-45584246-4	chr17	45584152	45584352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199116)	TTS (NM_001199116)	8141.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	67.5	160.0	81.5	1424.5	194.0	79.0	92.5	101.0
Merged-chr4-83525413-4	chr4	83525300	83525500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355378)	promoter-TSS (NM_001355378)	-145.0	NM_001355549	320226.0	Mm.180032	NM_029117	ENSMUSG00000052407	Ccdc171	4930418J05Rik|4930473A06Rik|A330015D16Rik	coiled-coil domain containing 171	protein-coding	256.5	335.5	289.5	4479.0	705.5	281.5	335.0	283.5
Merged-chr1-165651374-4	chr1	165651273	165651473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 5 of 5)	intron (NM_001038846, intron 5 of 5)	-16832.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	50.0	38.5	55.5	920.0	67.5	24.0	40.5	44.5
Merged-chr17-71165181-4	chr17	71165073	71165273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18359.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	243.5	413.0	269.0	3351.0	665.0	261.5	255.5	245.5
Merged-chr15-79768473-4	chr15	79768372	79768572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017470, intron 1 of 3)	intron (NM_017470, intron 1 of 3)	5995.0	NM_017470	54152.0	Mm.288159	NM_017470	ENSMUSG00000022420	Dnal4	D15Ertd424e|Dnalc4	dynein, axonemal, light chain 4	protein-coding	47.0	42.5	55.0	585.0	67.0	19.5	31.0	38.5
Merged-chr5-65198542-3	chr5	65198440	65198640	+	849.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-1156.0	NM_001359880	213081.0	Mm.127550	NM_153391	ENSMUSG00000037890	Wdr19	C330027H04Rik|D330023L08Rik|DYF2|Ift144|PWDMP|mKIAA1638	WD repeat domain 19	protein-coding	8.0	20.0	9.5	108.0	14.5	5.5	4.5	10.5
Merged-chr5-113918882-4	chr5	113918780	113918980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10174.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	78.5	129.0	67.5	1061.5	188.5	65.0	82.0	73.5
Merged-chr15-79694655-4	chr15	79694568	79694768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013818, intron 2 of 11)	intron (NM_013818, intron 2 of 11)	3772.0	NM_013818	14904.0	Mm.19080	NM_013818	ENSMUSG00000042535	Gtpbp1	AL022987|AW045683|C85212|GP-1|Gtpbp	GTP binding protein 1	protein-coding	18.0	32.5	7.5	59.5	106.5	29.0	42.5	26.0
Merged-chr4-134249824-4	chr4	134249725	134249925	+	794.575012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4234.0	NM_024215	68040.0	Mm.300404	NM_024215	ENSMUSG00000028840	Zfp593	3110024A21Rik|AV062409|E130106C14Rik|ZNF593	zinc finger protein 593	protein-coding	7.5	10.0	1.5	108.5	26.0	17.0	18.0	22.0
Merged-chr18-33214838-3	chr18	33214741	33214941	+	868.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133774)	promoter-TSS (NM_133774)	-979.0	NM_001347624	170459.0	Mm.127058	NM_133774	ENSMUSG00000024378	Stard4	4632419C16Rik|9030213J02Rik	StAR-related lipid transfer (START) domain containing 4	protein-coding	13.5	14.5	13.0	151.0	25.0	4.0	6.0	6.0
Merged-chr1-107489831-4	chr1	107489742	107489942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-21581.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	31.0	31.0	37.5	863.0	123.5	35.0	36.5	29.5
Merged-chr19-46339374-4	chr19	46339264	46339464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164295)	promoter-TSS (NM_001164295)	-704.0	NM_001164292	67116.0	Mm.218848	NM_024192	ENSMUSG00000036748	Cuedc2	3010002G01Rik	CUE domain containing 2	protein-coding	45.0	74.0	36.0	561.5	171.0	40.0	63.5	55.5
Merged-chr13-24464595-4	chr13	24464508	24464708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 14 of 16)	RMER5|LTR|ERV1	49486.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	43.5	58.0	50.5	499.5	159.5	62.0	35.5	24.5
Merged-chr5-33352551-4	chr5	33352448	33352648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021500, intron 1 of 8)	L1MB7|LINE|L1	16976.0	NM_021500	59003.0	Mm.138617	NM_021500	ENSMUSG00000079562	Maea	1110030D19Rik|EMP|Gid9	macrophage erythroblast attacher	protein-coding	22.5	22.0	26.5	277.5	42.0	22.0	16.0	19.5
Merged-chr6-53390604-4	chr6	53390516	53390716	+	957.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 4 of 10)	L4_B_Mam|LINE|RTE-X	103313.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	16.5	32.0	34.0	537.5	30.0	10.5	13.5	21.0
Merged-chr11-55449443-3	chr11	55449386	55449586	+	941.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 3 of 3)	intron (NM_009720, intron 3 of 3)	11722.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	16.0	8.5	14.0	150.0	18.5	5.5	5.5	3.0
Merged-chr4-3954143-3	chr4	3954030	3954230	+	937.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14706.0	NR_104356	66433.0	Mm.27406	NM_181391	ENSMUSG00000042198	Chchd7	1810049H20Rik	coiled-coil-helix-coiled-coil-helix domain containing 7	protein-coding	6.0	10.0	20.0	60.5	18.5	8.0	10.0	7.5
Merged-chr6-124830091-4	chr6	124829987	124830187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326594)	promoter-TSS (NM_001326594)	-89.0	NM_013538	14793.0	Mm.285723	NM_013538	ENSMUSG00000023505	Cdca3	2410005A12Rik|C8|Grcc8|Tome-1	cell division cycle associated 3	protein-coding	102.0	151.0	88.0	1462.5	337.5	132.0	147.0	87.0
Merged-chr14-70800597-3	chr14	70800509	70800709	+	834.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26228.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	15.5	8.5	13.0	385.5	7.0	3.5	10.5	6.5
Merged-chr13-36116866-3	chr13	36116767	36116967	+	651.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024274)	promoter-TSS (NM_024274)	490.0	NM_201358	380840.0	Mm.390576	NM_201358	ENSMUSG00000046573	Lyrm4	BC034664|Gm903	LYR motif containing 4	protein-coding	6.5	4.5	13.0	103.0	12.5	3.0	3.0	4.0
Merged-chr5-52189954-5	chr5	52189856	52190056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015537)	promoter-TSS (NR_015537)	590.0	NR_104311	13204.0	Mm.993	NM_007839	ENSMUSG00000029169	Dhx15	DBP1|DEAH9|Ddx15|HRH2|mDEAH9	DEAH (Asp-Glu-Ala-His) box polypeptide 15	protein-coding	29.5	68.5	45.5	454.0	68.0	25.5	26.5	36.0
Merged-chr15-18821581-4	chr15	18821479	18821679	+	943.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009865, intron 1 of 11)	intron (NM_009865, intron 1 of 11)	1250.0	NM_009865	320873.0	Mm.117794	NM_009865	ENSMUSG00000022321	Cdh10	A830016G23Rik|C030003B10Rik|C030011H18Rik	cadherin 10	protein-coding	12.5	15.5	21.5	340.0	60.5	15.5	25.0	14.5
Merged-chr4-138013924-1	chr4	138013824	138014024	+	629.0	f0_balb.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	16099.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	9.5	6.5	9.0	156.0	2.0	2.0	0.5	2.5
Merged-chr15-5500517-2	chr15	5500417	5500617	+	595.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_045274, intron 1 of 4)	L1Md_A|LINE|L1	4199.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	1.0	8.5	5.0	12.5	26.5	11.0	5.5	5.5
Merged-chr6-122740083-3	chr6	122739989	122740189	+	837.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011401, intron 2 of 9)	intron (NM_011401, intron 2 of 9)	2656.0	NM_011401	20527.0	Mm.395108	NM_011401	ENSMUSG00000003153	Slc2a3	AA408729|AL023014|AL024341|AU040424|C78366|Glut-3|Glut3	solute carrier family 2 (facilitated glucose transporter), member 3	protein-coding	7.0	6.5	4.5	89.5	12.0	20.0	6.5	13.0
Merged-chr1-34028943-4	chr1	34028848	34029048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134448, intron 1 of 97)	L1MEc|LINE|L1	17123.0	NM_134448	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	81.5	135.0	59.5	1206.5	188.0	84.5	92.5	75.0
Merged-chr15-41818953-3	chr15	41818854	41819054	+	757.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 8 of 17)	intron (NR_152565, intron 8 of 17)	-12004.0	NM_001130164	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	12.0	9.0	4.5	71.0	14.0	6.5	6.5	5.5
Merged-chr4-53217747-4	chr4	53217661	53217861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28435.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	57.5	142.0	97.0	1009.5	127.0	51.5	66.0	33.5
Merged-chr17-49436716-3	chr17	49436634	49436834	+	751.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020042, intron 3 of 10)	intron (NM_020042, intron 3 of 10)	8370.0	NM_020042	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	5.0	9.5	7.5	129.0	13.0	1.5	10.5	6.0
Merged-chr2-93459482-4	chr2	93459404	93459604	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040532, intron 2 of 4)	intron (NR_040532, intron 2 of 4)	2347.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	23.5	67.0	34.0	201.5	94.0	13.5	16.0	5.5
Merged-chr19-56797544-4	chr19	56797442	56797642	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_170757, exon 11 of 15)	exon (NM_170757, exon 11 of 15)	16141.0	NM_170757	213993.0	Mm.469677	NM_170757	ENSMUSG00000035173	Ccdc186	1810028B20Rik|A630007B06Rik|AI159700|Otg1	coiled-coil domain containing 186	protein-coding	31.5	46.0	21.5	696.5	59.0	14.5	22.0	28.0
Merged-chr11-4986857-4	chr11	4986765	4986965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007454)	promoter-TSS (NM_007454)	41.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	58.5	95.0	33.5	519.0	160.5	37.5	66.0	46.5
Merged-chr6-28262797-3	chr6	28262692	28262892	+	867.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1191.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	3.0	17.5	10.0	67.5	26.5	18.5	10.0	11.0
Merged-chr3-104994097-4	chr3	104994060	104994260	+	834.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32451.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	1.0	5.5	8.0	141.0	4.5	6.5	6.0	15.0
Merged-chr1-57574716-1	chr1	57574616	57574816	+	552.0	f0_balb.idr	Intergenic	Intergenic	-168042.0	NM_001302963	68736.0	Mm.288490	NM_001037742	ENSMUSG00000048495	Tyw5	1110034B05Rik	tRNA-yW synthesizing protein 5	protein-coding	7.0	8.0	5.0	173.0	11.0	9.0	12.0	5.0
Merged-chr10-80929204-4	chr10	80929126	80929326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008655)	promoter-TSS (NM_008655)	-865.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	28.0	22.0	28.5	194.5	73.0	18.5	19.5	26.0
Merged-chr2-45276913-4	chr2	45276826	45277026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-159484.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	106.5	159.5	104.5	1534.5	198.5	75.5	57.0	85.5
Merged-chr5-137331101-4	chr5	137330987	137331187	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359611, intron 4 of 14)	intron (NM_001359611, intron 4 of 14)	2495.0	NM_031406	83704.0	Mm.235625	NM_031406	ENSMUSG00000037344	Slc12a9	CIP1	solute carrier family 12 (potassium/chloride transporters), member 9	protein-coding	13.0	10.0	2.5	139.0	31.5	14.0	6.0	13.0
Merged-chr8-86825740-1	chr8	86825640	86825840	+	712.0	f0_balb.idr	Intergenic	Intergenic	59518.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	8.0	10.5	10.5	125.0	2.5	0.0	4.0	0.5
Merged-chr2-75775897-4	chr2	75775795	75775995	+	958.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56282.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	24.0	27.0	28.5	170.0	67.5	12.0	16.5	22.5
Merged-chr1-88247993-2	chr1	88247893	88248093	+	836.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001281466, intron 26 of 41)	ORR1F|LTR|ERVL-MaLR	20973.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	6.0	5.0	6.5	57.0	10.0	7.5	4.0	10.5
Merged-chr5-125394369-4	chr5	125394252	125394452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	-4335.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	73.0	89.5	46.5	720.5	249.5	99.5	95.0	90.5
Merged-chr11-104545968-4	chr11	104545875	104546075	+	896.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145436, intron 1 of 18)	B3A|SINE|B2	4645.0	NM_001285990	217232.0	Mm.89845	NM_145436	ENSMUSG00000020687	Cdc27	AI452358|APC3|BC023187	cell division cycle 27	protein-coding	6.0	21.0	6.0	102.5	37.0	6.5	12.5	35.0
Merged-chr10-12698091-3	chr10	12697985	12698185	+	765.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011682, exon 24 of 74)	exon (NM_011682, exon 24 of 74)	163650.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	0.0	7.0	2.0	78.5	35.5	6.5	16.5	15.0
Merged-chr6-52424654-4	chr6	52424567	52424767	+	805.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-67784.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	11.5	17.5	12.5	166.5	25.5	4.0	19.0	9.5
Merged-chr7-92886391-4	chr7	92886275	92886475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	intron (NM_028243, intron 1 of 8)	11122.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	65.0	110.5	105.5	1049.5	187.0	53.0	68.0	63.5
Merged-chr2-90504945-4	chr2	90504848	90505048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-25774.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	220.5	373.0	263.5	3468.0	487.5	210.5	223.5	148.5
Merged-chr1-82724945-4	chr1	82724863	82725063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310699)	promoter-TSS (NM_001310699)	73.0	NM_001310695	75734.0	Mm.396863	NM_029409	ENSMUSG00000026150	Mff	5230400G24Rik|AI314724	mitochondrial fission factor	protein-coding	82.0	129.0	124.5	1045.0	169.0	91.0	78.0	96.0
Merged-chr12-12294545-4	chr12	12294438	12294638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	32399.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	54.0	76.5	43.0	747.0	136.0	48.5	81.0	69.5
Merged-chr17-78382903-5	chr17	78382853	78383053	+	979.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 7 of 9)	intron (NM_001360407, intron 7 of 9)	35199.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	14.5	24.0	39.5	79.0	23.5	14.5	9.5	19.5
Merged-chr14-30549178-4	chr14	30549147	30549347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009388, exon 1 of 14)	5' UTR (NM_009388, exon 1 of 14)	116.0	NM_009388	21881.0	Mm.290692	NM_009388	ENSMUSG00000021957	Tkt	p68	transketolase	protein-coding	57.0	92.5	113.5	873.5	132.5	42.0	70.0	86.0
Merged-chr11-59226427-2	chr11	59226329	59226529	+	764.5	f0_balb.idr|f0_c57.idr	intron (NM_007476, intron 1 of 4)	intron (NM_007476, intron 1 of 4)	1733.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	10.5	18.0	9.5	124.0	29.5	8.0	10.0	6.5
Merged-chr15-72838434-4	chr15	72838324	72838524	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	MTEa|LTR|ERVL-MaLR	-28100.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	15.0	24.0	20.5	243.0	65.5	12.0	26.5	25.0
Merged-chr9-58627395-4	chr9	58627287	58627487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357751, intron 3 of 8)	intron (NM_001357751, intron 3 of 8)	45147.0	NM_001357751	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	20.5	19.5	20.5	481.0	70.0	19.5	21.0	31.0
Merged-chr10-58446821-4	chr10	58446715	58446915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011240)	promoter-TSS (NM_011240)	-37.0	NM_011240	19386.0	Mm.431695	NM_011240	ENSMUSG00000003226	Ranbp2	A430087B05Rik|AI256741|NUP358	RAN binding protein 2	protein-coding	185.0	371.5	177.5	2465.5	533.5	216.0	200.0	190.5
Merged-chr4-108118604-4	chr4	108118516	108118716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011327)	promoter-TSS (NM_011327)	-69.0	NM_011327	20280.0	Mm.379011	NM_011327	ENSMUSG00000028603	Scp2	AA409774|AA409893|C76618|C79031|NSL-TP|SCP-2|SCP-X|SCPX|ns-LTP	sterol carrier protein 2, liver	protein-coding	106.5	154.0	101.0	1929.0	234.0	90.0	116.5	84.5
Merged-chr1-136657697-1	chr1	136657597	136657797	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-25699.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	5.5	6.0	18.5	205.5	10.5	4.0	6.0	3.5
Merged-chr2-18677178-2	chr2	18677058	18677258	+	1000.0	f0_balb.idr|f0_c57.idr	TTS (NM_147778)	TTS (NM_147778)	140.0	NM_007552	12151.0	Mm.289584	NM_007552	ENSMUSG00000026739	Bmi1	AW546694|Bmi-1|Pcgf4	Bmi1 polycomb ring finger oncogene	protein-coding	13.0	35.5	34.5	478.0	72.0	34.5	41.0	31.0
Merged-chr9-97105587-4	chr9	97105489	97105689	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138756, intron 1 of 6)	intron (NM_138756, intron 1 of 6)	5452.0	NM_138756	192287.0	Mm.228067	NM_138756	ENSMUSG00000032449	Slc25a36	C330005L02Rik	solute carrier family 25, member 36	protein-coding	30.5	31.0	27.0	361.5	60.5	19.5	29.5	21.5
Merged-chr13-45358403-3	chr13	45358298	45358498	+	982.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31344.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	13.5	24.5	28.5	233.0	5.0	6.5	1.0	15.0
Merged-chr11-87471614-4	chr11	87471505	87471705	+	977.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	44014.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	13.0	55.0	57.0	295.0	45.0	19.0	15.0	12.5
Merged-chr11-60536581-4	chr11	60536474	60536674	+	950.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-1109.0	NM_172943	268420.0	Mm.262056	NM_172943	ENSMUSG00000042650	Alkbh5	AW050020|AW215868|Abh5|E130207K11|Ofoxd	alkB homolog 5, RNA demethylase	protein-coding	17.0	36.5	21.0	199.5	61.5	9.0	10.0	16.0
Merged-chr6-8509300-4	chr6	8509194	8509394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133236)	promoter-TSS (NM_133236)	-133.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	320.5	433.0	297.0	5808.0	744.0	265.5	430.5	260.5
Merged-chr13-30549022-4	chr13	30548915	30549115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3699.0	NM_025710	66694.0	Mm.181933	NM_025710	ENSMUSG00000038462	Uqcrfs1	4430402G14Rik|AI875505	ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1	protein-coding	32.0	56.0	29.5	579.5	85.5	40.0	45.0	38.0
Merged-chr6-4600946-4	chr6	4600843	4601043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145398)	promoter-TSS (NM_145398)	-123.0	NM_145398	213819.0	Mm.270703	NM_145398	ENSMUSG00000015189	Casd1	Cas1|Cast1|SOAT	CAS1 domain containing 1	protein-coding	28.0	28.5	26.0	465.0	53.0	27.5	33.0	35.0
Merged-chr3-109341748-4	chr3	109341646	109341846	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	intron (NM_020505, intron 1 of 26)	1063.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	17.5	22.0	20.0	381.5	39.5	17.5	22.0	15.0
Merged-chr14-54417782-4	chr14	54417680	54417880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253679)	promoter-TSS (NM_001253679)	-78.0	NM_011405	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	64.0	177.0	70.5	433.0	181.5	79.5	48.5	27.5
Merged-chr14-79331444-2	chr14	79331344	79331544	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29809.0	NM_025427	66214.0	Mm.29811	NM_025427	ENSMUSG00000022018	Rgcc	1190002H23Rik|Rgc-32|Rgc32	regulator of cell cycle	protein-coding	8.5	6.5	5.5	45.0	7.5	0.5	5.0	9.0
Merged-chr5-3341533-8	chr5	3341305	3341505	+	941.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2488.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	13.0	27.0	33.5	129.5	31.0	17.5	11.5	13.5
Merged-chr14-69862678-4	chr14	69862585	69862785	+	897.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 3 of 6)	L2a|LINE|L2	22278.0	NM_028526	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	8.5	14.0	6.0	182.0	41.0	15.5	8.5	13.0
Merged-chr3-89285429-4	chr3	89285349	89285549	+	803.424988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4498.0	NM_001162425	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	20.0	13.5	8.0	216.0	31.0	4.0	6.5	13.5
Merged-chr10-8817408-2	chr10	8817308	8817508	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	(TG)n|Simple_repeat|Simple_repeat	68662.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	4.0	6.0	11.0	94.5	20.5	7.0	5.0	9.5
Merged-chr11-76531201-2	chr11	76531101	76531301	+	737.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_198894, intron 1 of 22)	intron (NM_198894, intron 1 of 22)	-21782.0	NM_198018	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	11.0	5.5	4.5	41.5	8.5	7.0	2.0	13.0
Merged-chr10-78244728-4	chr10	78244629	78244829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081055)	promoter-TSS (NM_001081055)	-87.0	NM_001081055	216131.0	Mm.27539	NM_001081055	ENSMUSG00000000374	Trappc10	B230307C21Rik|Gm870|Tmem1|b2b2416Clo|b2b2613Clo	trafficking protein particle complex 10	protein-coding	98.0	182.5	91.5	1706.0	286.5	112.5	147.5	84.5
Merged-chr6-5174529-4	chr6	5174406	5174606	+	843.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011134, intron 7 of 8)	intron (NM_011134, intron 7 of 8)	19440.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	10.0	33.5	5.5	155.0	14.0	4.0	3.0	9.5
Merged-chr12-98831334-4	chr12	98831227	98831427	+	922.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 21 of 43)	intron (NM_001081191, intron 21 of 43)	60305.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	11.5	14.5	7.5	168.5	40.5	15.5	27.0	12.0
Merged-chr11-70764448-4	chr11	70764319	70764519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177565)	promoter-TSS (NM_177565)	-28.0	NM_177565	193043.0	Mm.40966	NM_177565	ENSMUSG00000043602	Zfp3	AI854635|B230309J24|Fnp-1|Zfp-3	zinc finger protein 3	protein-coding	19.0	37.0	27.0	378.0	60.0	29.5	25.0	26.0
Merged-chr7-28807867-3	chr7	28807742	28807942	+	867.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3048.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	6.5	6.5	10.5	88.5	8.0	2.5	14.5	8.0
Merged-chr12-105010581-3	chr12	105010466	105010666	+	858.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172500)	promoter-TSS (NM_172500)	-757.0	NM_172500	212073.0	Mm.212688	NM_172500	ENSMUSG00000054150	Syne3	KASH3|nesprin-3	spectrin repeat containing, nuclear envelope family member 3	protein-coding	10.0	18.5	10.0	96.0	13.0	3.5	3.5	2.5
Merged-chr17-24960362-1	chr17	24960262	24960462	+	1000.0	f1_c57bl6.idr	TTS (NM_020608)	TTS (NM_020608)	261.0	NM_198937	52009.0	Mm.371601	NM_198937	ENSMUSG00000024165	Jpt2	2810430B18Rik|AL022629|C16orf34|D17Ertd441e|Hn1l	Jupiter microtubule associated homolog 2	protein-coding	8.5	16.5	7.5	189.5	35.0	10.5	9.0	9.0
Merged-chr7-19665484-4	chr7	19665397	19665597	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019649)	promoter-TSS (NM_019649)	-467.0	NM_019649	56457.0	Mm.290960	NM_019649	ENSMUSG00000002981	Clptm1	HS9|N14	cleft lip and palate associated transmembrane protein 1	protein-coding	22.5	13.5	16.5	62.5	58.0	19.5	17.5	12.0
Merged-chr13-51881952-3	chr13	51881855	51882055	+	910.3777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35280.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	13.0	12.5	21.5	128.5	9.0	5.0	4.5	6.5
Merged-chr17-74458500-2	chr17	74458400	74458600	+	855.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 1 of 8)	intron (NM_001033367, intron 1 of 8)	608.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	1.5	10.0	11.5	67.5	12.0	8.5	8.0	5.5
Merged-chr3-88477936-4	chr3	88477838	88478038	+	951.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15374.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	16.5	21.5	11.5	207.0	49.0	23.0	13.5	19.0
Merged-chr19-37963904-2	chr19	37963812	37964012	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 19 of 53)	intron (NM_001302140, intron 19 of 53)	79665.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	18.5	33.0	21.0	430.0	54.0	24.5	18.5	23.0
Merged-chr3-88746026-4	chr3	88745912	88746112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018804, exon 4 of 4)	3' UTR (NM_018804, exon 4 of 4)	26587.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	32.0	42.0	22.0	418.5	90.5	31.0	23.0	34.0
Merged-chr6-38534804-4	chr6	38534694	38534894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025363)	promoter-TSS (NM_025363)	-67.0	NM_025363	66117.0	Mm.158971	NM_025363	ENSMUSG00000019689	Fmc1	1110001J03Rik	formation of mitochondrial complex V assembly factor 1	protein-coding	86.0	142.0	57.0	1098.5	190.0	83.5	73.5	76.5
Merged-chr14-13361838-4	chr14	13361755	13361955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028052, intron 2 of 5)	intron (NM_028052, intron 2 of 5)	77075.0	NM_028052	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	178.5	248.5	211.5	3151.0	412.0	156.5	221.0	174.5
Merged-chr4-141077871-4	chr4	141077777	141077977	+	926.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149724, intron 1 of 8)	CpG	480.0	NR_149724	66147.0	Mm.21187	NM_025383	ENSMUSG00000028923	Necap2	1110005F07Rik|AA409105|C78898|NECAP-2	NECAP endocytosis associated 2	protein-coding	32.0	19.5	21.0	124.0	65.0	17.5	14.0	15.0
Merged-chr14-27142910-4	chr14	27142780	27142980	+	813.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1113.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	8.0	16.0	19.5	181.0	35.5	6.0	17.5	13.0
Merged-chr13-23555609-2	chr13	23555509	23555709	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_145713, exon 1 of 1)	exon (NM_145713, exon 1 of 1)	577.0	NM_145713	14957.0	Mm.247046	NM_145713	ENSMUSG00000052565	Hist1h1d	H1.3|H1D|H1f3|H1s-4	histone cluster 1, H1d	protein-coding	8.5	5.5	2.0	43.5	11.0	8.0	9.5	11.5
Merged-chr8-14889379-3	chr8	14889277	14889477	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	841.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	25.0	45.5	32.0	598.5	85.0	29.5	29.0	32.5
Merged-chr8-33722280-3	chr8	33722197	33722397	+	702.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9617.0	NM_001167921	68153.0	Mm.286104	NM_026584	ENSMUSG00000031585	Gtf2e2	34kDa|AI462509|C330006J08Rik	general transcription factor II E, polypeptide 2 (beta subunit)	protein-coding	7.5	12.5	2.0	139.5	11.5	5.5	6.0	6.0
Merged-chr1-155901511-4	chr1	155901418	155901618	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039184, exon 24 of 38)	exon (NM_001039184, exon 24 of 38)	71737.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	14.5	20.0	11.5	335.5	114.0	30.5	42.5	29.0
Merged-chr3-105020510-4	chr3	105020394	105020594	+	823.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	intron (NM_030249, intron 3 of 5)	32459.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	32.0	10.0	18.5	293.5	27.5	9.5	11.0	8.5
Merged-chr8-33600338-8	chr8	33600269	33600469	+	915.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017374, intron 1 of 6)	intron (NM_017374, intron 1 of 6)	748.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	9.5	13.5	14.5	172.0	16.5	12.5	14.0	16.0
Merged-chr16-36717659-4	chr16	36717588	36717788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285791, intron 5 of 6)	intron (NM_001285791, intron 5 of 6)	23710.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	155.5	227.5	175.5	2887.0	259.5	81.0	115.5	88.5
Merged-chr9-119983202-4	chr9	119983109	119983309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357560)	promoter-TSS (NM_001357560)	-186.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	94.5	206.0	59.5	754.5	287.5	139.0	85.5	95.0
Merged-chr7-25278430-4	chr7	25278300	25278500	+	962.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302811, intron 2 of 20)	CpG	-3779.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	11.0	29.0	19.0	170.5	47.0	21.5	28.5	18.0
Merged-chr7-30323158-4	chr7	30323060	30323260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033140)	promoter-TSS (NM_001033140)	-785.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	166.5	219.5	152.5	1211.5	128.5	51.0	43.0	25.5
Merged-chr9-54734042-3	chr9	54733954	54734154	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025376, intron 1 of 10)	intron (NM_001025376, intron 1 of 10)	495.0	NM_023191	66317.0	Mm.28437	NM_023191	ENSMUSG00000061559	Wdr61	2700038L12Rik|2810418I05Rik|REC14	WD repeat domain 61	protein-coding	23.0	22.0	10.0	227.0	25.0	4.0	20.0	23.5
Merged-chr9-21149957-4	chr9	21149852	21150052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016742)	promoter-TSS (NM_016742)	-46.0	NM_016742	12539.0	Mm.32331	NM_016742	ENSMUSG00000019471	Cdc37	p50|p50Cdc37	cell division cycle 37	protein-coding	106.5	147.5	74.5	1022.5	183.0	86.5	97.5	71.5
Merged-chr15-67767815-4	chr15	67767707	67767907	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	491049.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	19.5	35.5	28.5	428.0	65.5	19.5	34.5	35.0
Merged-chr9-64100666-4	chr9	64100566	64100766	+	886.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16481.0	NM_145835	235435.0	Mm.436581	NM_145835	ENSMUSG00000032401	Lctl	E130104I05Rik|KLPH	lactase-like	protein-coding	15.0	15.5	8.5	136.0	36.5	8.5	16.5	8.5
Merged-chr8-124007713-4	chr8	124007626	124007826	+	863.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357315, intron 3 of 4)	RMER16|LTR|ERVK	13330.0	NM_001357315	102162.0	Mm.291777	NM_133966	ENSMUSG00000038697	Taf5l	1110005N04Rik|AI849020	TATA-box binding protein associated factor 5 like	protein-coding	13.0	11.0	10.5	258.0	32.5	13.5	14.0	11.5
Merged-chr5-121124460-4	chr5	121124376	121124576	+	890.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D2_MM|LTR|ERV1	66921.0	NM_001109992	19247.0	Mm.8681	NM_011202	ENSMUSG00000043733	Ptpn11	2700084A17Rik|AW536184|PTP1D|PTP2C|SAP-2|SH-PTP2|SH-PTP3|SHP-2|Shp2|Syp	protein tyrosine phosphatase, non-receptor type 11	protein-coding	17.5	15.0	12.5	75.0	33.0	20.0	8.5	21.5
Merged-chr17-64375502-4	chr17	64375397	64375597	+	837.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43614.0	NM_001025309	224938.0	Mm.489681	NM_144859	ENSMUSG00000024083	Pja2	AI447901|AL022700|Neurodap1|mKIAA0438	praja ring finger ubiquitin ligase 2	protein-coding	7.0	16.5	8.5	114.5	30.0	8.5	16.5	5.5
Merged-chr15-58734337-4	chr15	58734249	58734449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89078.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	102.5	181.0	108.0	1672.0	226.0	75.0	114.5	90.5
Merged-chr5-53929672-4	chr5	53929553	53929753	+	976.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68870.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	25.0	17.0	21.0	367.0	44.0	20.5	21.0	14.0
Merged-chr18-5764897-4	chr18	5764794	5764994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360982, intron 5 of 7)	intron (NM_001360982, intron 5 of 7)	172247.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	79.0	120.0	82.5	1085.0	252.0	80.5	101.0	64.5
Merged-chr10-37290224-4	chr10	37290120	37290320	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-151294.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	26.0	13.0	25.0	539.0	36.5	11.0	10.5	7.5
Merged-chr14-40924940-3	chr14	40924841	40925041	+	889.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	MER58A|DNA|hAT-Charlie	23268.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	9.5	8.0	5.0	121.5	14.5	4.5	4.5	4.5
Merged-chr1-118507457-4	chr1	118507421	118507621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 16 of 39)	ID4|SINE|ID	-48256.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	18.5	22.0	17.0	335.5	61.5	15.0	24.0	26.0
Merged-chr17-69085676-4	chr17	69085584	69085784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	10007.0	NM_001355732	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	20.5	71.0	29.0	268.5	97.0	43.5	41.5	32.0
Merged-chr8-83333273-1	chr8	83333173	83333373	+	605.5	f0_balb.idr	promoter-TSS (NM_001170691)	promoter-TSS (NM_001170691)	-787.0	NM_178736	244548.0	Mm.38762	NM_178736	ENSMUSG00000035151	Elmod2	9830169G11Rik	ELMO/CED-12 domain containing 2	protein-coding	7.5	8.5	4.5	100.0	10.5	2.5	4.5	7.5
Merged-chr2-158175646-4	chr2	158175539	158175739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16369.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	211.0	367.0	226.5	3715.0	503.5	207.0	286.0	235.5
Merged-chr16-50437926-4	chr16	50437842	50438042	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-5476.0	NM_001347240	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	20.5	42.0	29.0	549.0	85.5	16.0	28.5	36.5
Merged-chr1-181014908-4	chr1	181014828	181015028	+	975.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010145, intron 1 of 8)	intron (NM_010145, intron 1 of 8)	2641.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	16.5	22.0	89.0	1106.5	37.5	10.5	35.0	43.0
Merged-chr2-21141874-4	chr2	21141801	21142001	+	839.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	63464.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	6.5	12.0	9.0	158.5	22.0	10.5	13.5	14.5
Merged-chr13-47277460-3	chr13	47277361	47277561	+	805.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83458.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	17.0	18.5	4.0	108.0	8.0	4.5	10.0	9.5
Merged-chr11-47197484-4	chr11	47197384	47197584	+	945.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 2 of 7)	intron (NM_011891, intron 2 of 7)	181818.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	21.5	16.0	19.0	292.5	35.5	12.0	35.0	26.0
Merged-chr13-85189393-4	chr13	85189282	85189482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347588)	promoter-TSS (NM_001347588)	-3.0	NM_001347587	66671.0	Mm.18474	NM_023243	ENSMUSG00000021548	Ccnh	6330408H09Rik|AI661354|AV102684|AW538719	cyclin H	protein-coding	180.0	375.5	194.0	2368.0	610.0	287.5	234.0	182.5
Merged-chr17-72838370-4	chr17	72838273	72838473	+	976.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357370, intron 1 of 2)	intron (NM_001357370, intron 1 of 2)	325.0	NM_001357371	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	19.0	20.5	23.5	227.5	50.5	20.5	19.5	20.0
Merged-chr19-6293486-4	chr19	6293382	6293582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 2 of 4)	intron (NM_010119, intron 2 of 4)	-12975.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	128.0	287.5	181.0	1918.0	337.0	146.0	178.5	122.0
Merged-chr2-169928149-4	chr2	169928043	169928243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35044.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	100.0	62.5	118.0	1561.5	172.0	49.5	103.5	51.0
Merged-chr11-89004056-2	chr11	89003972	89004172	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	4669.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	20.5	48.0	25.0	271.0	18.5	10.0	7.5	9.0
Merged-chr9-36726680-4	chr9	36726543	36726743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007691)	promoter-TSS (NM_007691)	15.0	NM_007691	12649.0	Mm.16753	NM_007691	ENSMUSG00000032113	Chek1	C85740|Chk1|rad27	checkpoint kinase 1	protein-coding	43.5	44.5	19.0	618.0	119.5	59.0	58.5	70.5
Merged-chr15-58691611-2	chr15	58691511	58691711	+	942.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131816.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	8.5	10.0	7.5	102.5	12.5	3.5	1.0	8.5
Merged-chr17-87672423-4	chr17	87672282	87672482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008628)	promoter-TSS (NM_008628)	-175.0	NM_008628	17685.0	Mm.4619	NM_008628	ENSMUSG00000024151	Msh2	AI788990	mutS homolog 2	protein-coding	107.0	139.5	100.0	1987.5	310.0	97.0	145.0	107.5
Merged-chr1-75188119-4	chr1	75188018	75188218	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003917, intron 5 of 15)	intron (NM_001003917, intron 5 of 15)	3892.0	NM_001003917	245860.0	Mm.238266	NM_001003917	ENSMUSG00000033124	Atg9a	AU019532|Apg9l1|Atg9|Atg9l1	autophagy related 9A	protein-coding	7.5	23.5	17.0	207.5	48.0	23.5	15.5	33.5
Merged-chr14-106760290-3	chr14	106760181	106760381	+	871.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-273761.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	9.5	7.5	13.0	281.0	17.0	1.5	3.0	3.0
Merged-chr5-62677559-4	chr5	62677441	62677641	+	933.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 12 of 32)	intron (NM_178407, intron 12 of 32)	88636.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	22.0	31.0	43.5	631.0	32.0	10.5	15.0	16.0
Merged-chr11-51857307-4	chr11	51857229	51857429	+	909.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357588, exon 1 of 13)	exon (NM_001357588, exon 1 of 13)	152.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	7.0	7.5	16.0	184.5	31.0	13.5	11.5	17.0
Merged-chr3-103172854-4	chr3	103172770	103172970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356330, intron 2 of 5)	RCHARR1|DNA|hAT-Charlie	1215.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	47.5	82.0	57.5	788.5	181.5	48.0	61.0	50.0
Merged-chr2-52378605-4	chr2	52378501	52378701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-39803.0	NM_010889	17996.0	Mm.389247	NM_010889	ENSMUSG00000026950	Neb	AI595938	nebulin	protein-coding	27.5	30.0	17.5	258.0	111.0	32.0	45.5	36.0
Merged-chr8-61911096-4	chr8	61910988	61911188	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8394.0	NM_001293772	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	17.0	14.0	11.5	183.5	22.0	16.5	15.0	22.0
Merged-chr6-145276426-4	chr6	145276308	145276508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25856.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	198.0	209.0	203.5	3339.5	401.0	164.0	204.0	187.0
Merged-chr7-118486124-1	chr7	118486024	118486224	+	553.0	f1_c57bl6.idr	3' UTR (NM_001033380, exon 1 of 1)	3' UTR (NM_001033380, exon 1 of 1)	5851.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	0.5	14.0	2.0	39.5	10.0	7.5	6.5	7.5
Merged-chr11-4271003-3	chr11	4270888	4271088	+	959.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008501, exon 4 of 4)	3' UTR (NM_008501, exon 4 of 4)	4192.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	13.0	10.0	9.5	150.5	26.5	6.0	6.0	3.0
Merged-chr4-89381932-4	chr4	89381846	89382046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-70914.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	38.0	73.5	45.5	933.5	62.0	22.0	25.5	32.0
Merged-chr17-46680340-4	chr17	46680270	46680470	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102392)	promoter-TSS (NR_102392)	-83.0	NM_001277310	17256.0	Mm.329083	NM_010787	ENSMUSG00000002768	Mea1	Mea-1	male enhanced antigen 1	protein-coding	10.0	17.5	22.5	139.0	41.5	14.0	18.0	14.0
Merged-chr7-90150516-4	chr7	90150423	90150623	+	855.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	20310.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	6.0	19.0	3.0	171.0	27.0	11.0	17.5	5.5
Merged-chr13-8871789-3	chr13	8871694	8871894	+	727.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172445)	promoter-TSS (NM_172445)	-58.0	NM_001039388	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	10.5	9.5	12.0	131.5	14.5	9.5	7.0	10.5
Merged-chr17-35059046-4	chr17	35058956	35059156	+	850.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190449)	promoter-TSS (NM_001190449)	21.0	NM_016765	51793.0	Mm.1457	NM_016765	ENSMUSG00000007039	Ddah2	1110003M04Rik|AU019324|AW413173|DDAH-2|DDAHII|Ddah|G6a|NG30	dimethylarginine dimethylaminohydrolase 2	protein-coding	12.5	24.0	5.0	104.5	30.0	11.0	9.0	12.5
Merged-chr18-35939725-4	chr18	35939619	35939819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-25111.0	NM_001289602	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	42.0	54.5	35.5	344.5	87.0	43.5	23.0	31.0
Merged-chr18-4288007-4	chr18	4287892	4288092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64961.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	32.0	33.5	40.5	670.5	48.0	17.5	37.5	37.5
Merged-chr1-166002326-1	chr1	166002226	166002426	+	951.0	f0_balb.idr	intron (NM_198932, intron 1 of 15)	CpG	308.0	NM_011137	18986.0	Mm.245261	NM_011137	ENSMUSG00000026565	Pou2f1	2810482H01Rik|NF-A1|Oct-1|Oct1|Otf-1|Otf1	POU domain, class 2, transcription factor 1	protein-coding	16.0	9.5	21.5	126.0	52.5	13.0	12.5	11.0
Merged-chr15-67300723-4	chr15	67300590	67300790	+	908.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045140, intron 5 of 8)	L1M4|LINE|L1	73921.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	12.5	19.5	14.0	426.5	9.5	9.0	11.0	3.5
Merged-chr8-80263084-4	chr8	80262985	80263185	+	928.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205077.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	18.5	28.5	12.5	378.5	14.0	17.0	26.5	11.0
Merged-chr4-43030885-2	chr4	43030785	43030985	+	904.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_023231, intron 2 of 9)	intron (NM_023231, intron 2 of 9)	499.0	NM_023231	66592.0	Mm.331565	NM_023231	ENSMUSG00000028455	Stoml2	0610038F01Rik|MSLP2|SLP-2	stomatin (Epb7.2)-like 2	protein-coding	12.5	6.0	5.5	60.0	11.5	4.0	4.5	6.5
Merged-chr8-14992968-4	chr8	14992880	14993080	+	870.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037736, intron 26 of 27)	intron (NM_001037736, intron 26 of 27)	-18045.0	NM_029116	74901.0	Mm.46675	NM_029116	ENSMUSG00000055675	Kbtbd11	2900016B01Rik|4930465M17Rik|mKIAA0711	kelch repeat and BTB (POZ) domain containing 11	protein-coding	8.5	10.0	17.5	201.5	20.0	3.0	10.5	18.5
Merged-chr4-101146282-3	chr4	101146190	101146390	+	864.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183024, intron 11 of 11)	intron (NM_183024, intron 11 of 11)	77252.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	1.0	6.0	6.5	77.5	30.5	4.5	13.5	6.0
Merged-chr1-170867814-4	chr1	170867711	170867911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081304)	promoter-TSS (NM_001081304)	-40.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	30.5	45.0	33.5	325.5	139.0	49.5	36.0	40.5
Merged-chr10-96328662-4	chr10	96328549	96328749	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	102442.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	39.5	38.0	43.0	532.5	83.0	17.0	42.0	32.5
Merged-chr1-6214711-4	chr1	6214625	6214825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009826)	promoter-TSS (NM_009826)	63.0	NM_009826	12421.0	Mm.293811	NM_009826	ENSMUSG00000025907	Rb1cc1	2900055E04Rik|5930404L04Rik|Cc1|FIP200|LaXp180	RB1-inducible coiled-coil 1	protein-coding	87.5	99.5	123.5	1457.0	159.0	68.5	85.5	87.5
Merged-chr13-113612614-4	chr13	113612480	113612680	+	881.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	5984.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	23.0	23.0	7.5	65.5	32.0	9.5	13.0	11.0
Merged-chr1-173802943-3	chr1	173802846	173803046	+	744.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36027.0	NM_008329	15951.0	Mm.261270	NM_008329	ENSMUSG00000073489	Ifi204	Ifi16|p204	interferon activated gene 204	protein-coding	5.0	1.5	3.0	0.5	20.5	6.0	8.5	17.5
Merged-chr12-17683478-1	chr12	17683378	17683578	+	658.5	f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-7331.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	2.0	8.0	0.0	54.5	10.0	9.0	6.0	5.0
Merged-chr16-92783818-1	chr16	92783718	92783918	+	886.6666869999999	f0_balb.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	42256.0	NM_001111021	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	8.0	14.0	14.0	305.0	4.5	0.0	1.0	4.5
Merged-chr12-76594257-7	chr12	76594129	76594329	+	880.619019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 32 of 35)	intron (NM_013675, intron 32 of 35)	-46304.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	5.5	9.0	7.0	113.5	8.5	9.5	3.0	8.0
Merged-chr12-52024682-3	chr12	52024582	52024782	+	705.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008159, intron 1 of 1)	intron (NM_008159, intron 1 of 1)	3381.0	NM_008159	14762.0	Mm.12890	NM_008159	ENSMUSG00000035148	Gpr33	-	G protein-coupled receptor 33	protein-coding	9.0	10.0	7.0	128.5	32.0	3.0	1.5	8.0
Merged-chr3-60589602-4	chr3	60589482	60589682	+	976.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	88403.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	35.0	40.0	22.0	310.0	34.0	13.5	14.0	29.5
Merged-chr11-19020548-4	chr11	19020455	19020655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1586.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	81.5	122.0	60.5	1376.0	233.0	85.0	110.5	76.5
Merged-chr14-51896023-3	chr14	51895927	51896127	+	983.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001039676, exon 4 of 4)	3' UTR (NM_001039676, exon 4 of 4)	2417.0	NM_001039676	214922.0	Mm.281343	NM_001039676	ENSMUSG00000072572	Slc39a2	F730005G13Rik|Gm1789|Gm289|Zip2	solute carrier family 39 (zinc transporter), member 2	protein-coding	16.0	23.0	20.0	361.5	7.0	1.0	1.5	4.0
Merged-chr14-77850068-4	chr14	77849986	77850186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 3 of 5)	intron (NM_025384, intron 3 of 5)	24831.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	190.5	253.5	260.0	3729.0	524.5	167.5	253.5	220.0
Merged-chr9-99158316-4	chr9	99158212	99158412	+	905.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18101.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	10.5	17.0	10.0	411.0	43.0	7.5	13.0	17.5
Merged-chr7-118534524-4	chr7	118534419	118534619	+	959.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1163.0	NM_009940	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	24.0	22.5	10.5	166.0	96.5	37.5	17.5	25.0
Merged-chr2-166907126-4	chr2	166907030	166907230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023565, intron 1 of 24)	intron (NM_023565, intron 1 of 24)	1034.0	NM_023565	110750.0	Mm.22417	NM_023565	ENSMUSG00000002718	Cse1l	2610100P18Rik|AA407533|Capts|Cas|Xpo2	chromosome segregation 1-like (S. cerevisiae)	protein-coding	42.5	50.5	26.0	649.5	80.0	29.0	31.0	28.0
Merged-chr7-90041779-4	chr7	90041680	90041880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110364, intron 5 of 5)	intron (NR_110364, intron 5 of 5)	12621.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	212.5	336.5	270.0	2316.0	408.0	202.5	150.0	124.0
Merged-chr8-45415173-4	chr8	45415117	45415317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4598.0	NM_126166	142980.0	Mm.33874	NM_126166	ENSMUSG00000031639	Tlr3	AI957183	toll-like receptor 3	protein-coding	49.0	42.5	49.5	975.5	139.0	45.5	59.0	41.5
Merged-chr7-99052606-4	chr7	99052500	99052700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	L2a|LINE|L2	88544.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	98.5	133.5	80.0	1610.5	245.0	81.0	116.5	108.5
Merged-chr2-166041897-4	chr2	166041808	166042008	+	980.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 2 of 22)	intron (NM_008679, intron 2 of 22)	49271.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	20.5	34.5	15.0	471.5	69.0	27.5	30.0	21.5
Merged-chr14-122013807-4	chr14	122013703	122013903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 8 of 8)	intron (NM_026861, intron 8 of 8)	-20871.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	55.5	85.0	42.5	1008.0	77.0	45.5	52.0	30.0
Merged-chr10-128705078-4	chr10	128704971	128705171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016756)	promoter-TSS (NM_016756)	-20.0	NM_016756	12566.0	Mm.111326	NM_016756	ENSMUSG00000025358	Cdk2	A630093N05Rik	cyclin-dependent kinase 2	protein-coding	99.5	153.5	63.0	1341.5	245.0	83.5	112.0	92.0
Merged-chr19-8898029-4	chr19	8897923	8898123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008060)	promoter-TSS (NM_008060)	-34.0	NM_001293621	14376.0	Mm.3196	NM_008060	ENSMUSG00000071650	Ganab	AU042638|G2an|GluII|mKIAA0088	alpha glucosidase 2 alpha neutral subunit	protein-coding	128.5	184.5	92.0	1736.0	361.5	104.5	155.0	124.5
Merged-chr11-69679317-4	chr11	69679223	69679423	+	953.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030702, intron 2 of 10)	intron (NM_030702, intron 2 of 10)	2647.0	NM_030702	80886.0	Mm.284592	NM_030702	ENSMUSG00000005204	Senp3	AA408656|Smt3ip|Smt3ip1	SUMO/sentrin specific peptidase 3	protein-coding	12.5	24.0	29.0	146.0	49.0	15.5	14.0	21.0
Merged-chr15-59831690-4	chr15	59831580	59831780	+	915.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-36721.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	18.5	36.0	22.0	311.5	49.0	11.0	15.0	14.5
Merged-chr16-4893677-4	chr16	4893556	4893756	+	902.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	7556.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	9.5	12.0	11.0	166.0	27.5	14.5	10.0	13.5
Merged-chr11-88291481-3	chr11	88291351	88291551	+	851.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2592.0	NM_028859	74297.0	Mm.207320	NM_028859	ENSMUSG00000034031	Ccdc182	1700106J16Rik	coiled-coil domain containing 182	protein-coding	13.0	20.5	29.0	266.5	1.0	0.0	2.0	0.0
Merged-chr4-105478455-4	chr4	105478372	105478572	+	957.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	321125.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	13.0	16.0	18.0	351.0	43.5	10.0	18.0	27.5
Merged-chr2-66101186-4	chr2	66101078	66101278	+	884.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015736, intron 3 of 10)	intron (NM_015736, intron 3 of 10)	23615.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	15.5	8.0	10.5	342.0	21.0	6.5	15.0	17.5
Merged-chr9-25510798-4	chr9	25510703	25510903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	29206.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	169.5	240.0	253.0	2802.0	436.5	139.0	225.0	208.5
Merged-chr7-82881566-3	chr7	82881475	82881675	+	778.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14242.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	2.0	0.0	0.0	0.0	43.5	10.0	13.0	20.5
Merged-chr7-55850956-4	chr7	55850875	55851075	+	898.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	intron (NM_011370, intron 1 of 30)	8904.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	11.0	16.5	20.0	262.5	35.5	3.5	18.0	11.0
Merged-chr5-90881122-2	chr5	90881022	90881222	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10123.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	12.5	11.0	8.0	35.0	13.0	11.5	7.5	6.5
Merged-chr5-72851950-4	chr5	72851862	72852062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 1 of 17)	L2|LINE|L2	16486.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	55.0	64.0	35.5	517.5	103.5	30.5	29.5	24.0
Merged-chr7-90130948-2	chr7	90130848	90131048	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	735.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	25.0	83.5	19.0	292.0	51.0	30.0	32.0	34.0
Merged-chr3-19694169-4	chr3	19694080	19694280	+	891.50415	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_205769, exon 2 of 2)	exon (NM_205769, exon 2 of 2)	1216.0	NM_205769	12918.0	Mm.290689	NM_205769	ENSMUSG00000049796	Crh	CRF|Gm1347	corticotropin releasing hormone	protein-coding	8.0	14.5	18.0	130.5	23.0	11.0	11.0	12.0
Merged-chr8-117853662-4	chr8	117853550	117853750	+	671.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-51676.0	NM_001357232	68533.0	Mm.181836	NM_026758	ENSMUSG00000031843	Mphosph6	1110001M01Rik|AA536809|C86426	M phase phosphoprotein 6	protein-coding	11.5	14.0	19.0	216.0	10.5	4.5	13.0	11.5
Merged-chr17-5887029-3	chr17	5886925	5887125	+	950.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025664, exon 2 of 18)	exon (NM_025664, exon 2 of 18)	45645.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	14.5	12.5	26.5	397.5	8.0	2.5	2.5	4.5
Merged-chr17-28511227-4	chr17	28511097	28511297	+	852.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19664.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	12.0	18.5	7.0	33.0	28.0	9.5	10.5	6.0
Merged-chr4-84064821-3	chr4	84064721	84064921	+	852.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19942.0	NR_130998	78238.0	Mm.243903	NR_130998	ENSMUSG00000085217	6030471H07Rik	-	RIKEN cDNA 6030471H07 gene	ncRNA	24.5	21.0	10.5	239.5	3.5	2.0	1.0	2.0
Merged-chr8-53449542-3	chr8	53449457	53449657	+	926.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62145.0	NM_001205054	11593.0	Mm.334535	NM_001005847	ENSMUSG00000031521	Aga	AW060726	aspartylglucosaminidase	protein-coding	12.0	13.0	11.5	251.0	18.5	9.0	6.0	9.0
Merged-chr16-20000419-2	chr16	20000319	20000519	+	593.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-17370.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	10.0	12.5	9.5	51.5	9.0	3.0	4.0	3.0
Merged-chr6-122654568-4	chr6	122654458	122654658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	28134.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	203.0	393.5	247.5	2581.0	520.5	208.0	204.0	214.5
Merged-chr5-16468388-4	chr5	16468295	16468495	+	918.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-85100.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	12.0	5.0	8.5	238.0	17.0	6.5	19.0	16.5
Merged-chr9-78175504-4	chr9	78175410	78175610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040401)	promoter-TSS (NR_040401)	-404.0	NR_040401	320295.0	Mm.131285	NR_040401	ENSMUSG00000097574	C920006O11Rik	-	RIKEN cDNA C920006O11 gene	ncRNA	77.5	107.0	81.5	517.0	108.5	36.5	45.0	40.5
Merged-chr7-68112795-4	chr7	68112722	68112922	+	970.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	151411.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	14.0	18.0	12.5	295.5	28.0	4.0	9.5	10.0
Merged-chr8-103578316-3	chr8	103578216	103578416	+	853.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-25483.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	12.0	9.0	14.0	176.0	14.0	2.5	9.0	13.0
Merged-chr3-116162331-4	chr3	116162242	116162442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32654.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	65.0	54.5	91.5	1717.5	80.0	32.0	46.0	37.5
Merged-chr6-38531476-6	chr6	38531340	38531540	+	773.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3421.0	NM_025363	66117.0	Mm.158971	NM_025363	ENSMUSG00000019689	Fmc1	1110001J03Rik	formation of mitochondrial complex V assembly factor 1	protein-coding	11.5	13.0	14.0	158.0	23.0	11.5	21.5	10.0
Merged-chr2-167762762-2	chr2	167762662	167762862	+	919.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71585.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	2.5	2.5	2.0	18.0	5.5	4.5	4.5	7.0
Merged-chr15-96776844-4	chr15	96776728	96776928	+	807.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77100.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	8.5	7.5	15.0	107.5	15.0	2.0	8.0	3.0
Merged-chr3-83839249-2	chr3	83839149	83839349	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011905, intron 2 of 2)	intron (NM_011905, intron 2 of 2)	2359.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	4.5	8.5	7.0	150.5	19.0	2.5	9.5	12.0
Merged-chr7-29008383-3	chr7	29008300	29008500	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009109, exon 101 of 106)	exon (NM_009109, exon 101 of 106)	25546.0	NM_008279	26411.0	Mm.148278	NM_008279	ENSMUSG00000037337	Map4k1	Hpk1|mHPK1	mitogen-activated protein kinase kinase kinase kinase 1	protein-coding	21.5	39.5	39.0	500.5	13.5	4.0	12.0	4.5
Merged-chr2-29661915-4	chr2	29661830	29662030	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	42210.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	35.5	19.5	16.5	501.5	63.5	30.0	39.0	34.5
Merged-chr9-50905476-3	chr9	50905379	50905579	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 9 of 15)	intron (NM_178710, intron 9 of 15)	48555.0	NM_001286553	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	8.0	11.5	11.5	135.0	17.0	8.0	11.5	15.5
Merged-chr1-180296221-4	chr1	180296109	180296309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-34267.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	54.5	66.0	84.0	999.0	80.5	30.0	64.0	26.0
Merged-chr11-119057020-4	chr11	119056858	119057058	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16045.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	19.0	20.5	7.5	133.0	17.5	9.5	6.0	6.0
Merged-chr7-45154398-4	chr7	45154262	45154462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278207)	promoter-TSS (NM_001278207)	59.0	NM_001278207	68845.0	Mm.181689	NM_029406	ENSMUSG00000003423	Pih1d1	1110061L23Rik|4933413A04Rik|Nop17	PIH1 domain containing 1	protein-coding	85.5	179.0	77.5	1010.5	221.5	120.5	106.5	128.5
Merged-chr15-66536618-4	chr15	66536507	66536707	+	878.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172514, intron 7 of 9)	L1MC3|LINE|L1	24439.0	NM_172514	213068.0	Mm.132299	NM_172514	ENSMUSG00000036944	Tmem71	AI661017|E430024D12	transmembrane protein 71	protein-coding	14.0	20.0	12.0	196.0	18.5	4.0	11.5	9.5
Merged-chr5-122372474-4	chr5	122372370	122372570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026883)	promoter-TSS (NM_026883)	-38.0	NM_024216	68080.0	Mm.266328	NM_024216	ENSMUSG00000029464	Gpn3	A930018B01Rik|Atpbd1c|D5Ertd708e	GPN-loop GTPase 3	protein-coding	72.5	206.5	69.0	1100.5	247.5	78.5	74.0	82.5
Merged-chr2-150842338-4	chr2	150842221	150842421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 5 of 12)	intron (NR_151505, intron 5 of 12)	249.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	43.0	38.5	36.5	977.5	57.5	29.5	38.5	40.5
Merged-chr13-102664236-4	chr13	102664144	102664344	+	967.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29303.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	16.5	8.0	17.0	215.0	59.5	19.5	25.5	17.0
Merged-chr13-23700955-4	chr13	23700860	23701060	+	932.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2502.0	NM_178208	319155.0	Mm.261662	NM_178208	ENSMUSG00000060678	Hist1h4c	-	histone cluster 1, H4c	protein-coding	23.0	30.5	19.5	492.5	61.0	41.0	70.0	34.5
Merged-chr12-95694132-4	chr12	95694013	95694213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	1887.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	30.0	41.0	35.0	475.0	33.0	20.5	21.5	26.5
Merged-chr1-184537039-2	chr1	184536939	184537139	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_040472, intron 2 of 5)	PB1D9|SINE|Alu	20652.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	10.5	8.0	9.0	82.5	12.5	6.5	9.0	14.0
Merged-chr19-14630930-1	chr19	14630830	14631030	+	568.0	f0_c57.idr	Intergenic	RLTR10D|LTR|ERVK	-32747.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	3.0	5.0	0.0	2.5	22.0	6.0	11.5	10.0
Merged-chr5-63943474-3	chr5	63943376	63943576	+	833.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	MER44B|DNA|TcMar-Tigger	25421.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	18.5	24.0	21.5	565.5	4.0	1.0	0.0	2.0
Merged-chr19-16435646-4	chr19	16435530	16435730	+	851.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008137)	promoter-TSS (NM_008137)	-37.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	8.0	21.5	9.5	136.0	26.5	3.0	9.0	12.5
Merged-chr10-58399589-4	chr10	58399491	58399691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359116, intron 2 of 9)	intron (NM_001359116, intron 2 of 9)	5218.0	NM_001346676	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	43.0	61.0	59.5	901.5	94.5	36.5	63.5	41.0
Merged-chr6-82805187-4	chr6	82805064	82805264	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER45B|DNA|hAT-Tip100	-30710.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	17.0	26.5	35.0	495.0	32.0	7.0	14.0	6.0
Merged-chr5-99476849-4	chr5	99476727	99476927	+	906.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-223900.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	23.0	13.0	18.5	288.5	34.0	10.0	16.0	10.0
Merged-chr7-35754489-4	chr7	35754374	35754574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178704)	promoter-TSS (NM_178704)	-20.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	76.5	102.0	108.5	1241.5	156.0	69.5	81.0	60.5
Merged-chr10-61469055-3	chr10	61468952	61469152	+	675.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6781.0	NM_153542	216011.0	Mm.136116	NM_153542	ENSMUSG00000037151	Lrrc20	BC036304	leucine rich repeat containing 20	protein-coding	13.5	14.0	7.5	73.0	12.0	3.0	9.0	2.0
Merged-chr16-10384418-3	chr16	10384321	10384521	+	851.125	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099275, intron 3 of 5)	intron (NM_001099275, intron 3 of 5)	11027.0	NM_001099275	70426.0	Mm.142181	NM_001099275	ENSMUSG00000039179	Tekt5	3300001K11Rik	tektin 5	protein-coding	12.0	8.0	11.5	96.0	12.0	7.0	8.5	6.5
Merged-chr8-33660748-4	chr8	33660635	33660835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	7497.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	35.0	30.5	49.0	876.5	224.5	113.0	155.0	105.5
Merged-chr10-118592821-4	chr10	118592725	118592925	+	798.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36300.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	11.0	5.0	8.0	110.5	33.0	11.5	12.5	11.0
Merged-chr14-13356186-4	chr14	13356084	13356284	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028052, intron 2 of 5)	intron (NM_028052, intron 2 of 5)	71404.0	NM_028052	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	33.0	40.0	23.5	404.0	76.0	15.5	25.5	23.5
Merged-chr8-42194081-3	chr8	42194007	42194207	+	907.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	366840.0	NR_045497	69966.0	Mm.416903	NR_045497	ENSMUSG00000102046	2810404M03Rik	-	RIKEN cDNA 2810404M03 gene	ncRNA	31.0	36.5	26.5	733.0	0.0	0.0	1.0	1.5
Merged-chr2-73214443-4	chr2	73214334	73214534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025942)	promoter-TSS (NM_025942)	13.0	NM_030091	67059.0	Mm.22661	NM_025942	ENSMUSG00000027108	Ola1	2510025G09Rik|2810405J23Rik|2810409H07Rik|Gtpbp9|PTD004	Obg-like ATPase 1	protein-coding	135.5	212.0	132.0	2357.0	299.0	109.0	172.0	139.0
Merged-chr4-46138640-4	chr4	46138574	46138774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173033)	promoter-TSS (NM_173033)	35.0	NM_001355376	272027.0	Mm.249594	NM_173033	ENSMUSG00000035495	Tstd2	3010020C06	thiosulfate sulfurtransferase (rhodanese)-like domain containing 2	protein-coding	62.5	105.5	76.0	863.0	111.5	52.0	63.0	72.0
Merged-chr6-91684706-2	chr6	91684606	91684806	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 1 of 14)	intron (NM_009320, intron 1 of 14)	639.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	16.5	37.5	22.5	139.5	66.5	21.5	20.0	19.5
Merged-chr5-124551543-2	chr5	124551443	124551643	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1321.0	NM_001190795	67848.0	Mm.281601	NM_026409	ENSMUSG00000029389	Ddx55	2810021H22Rik|mKIAA1595	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	protein-coding	3.5	7.5	2.0	3.0	11.5	8.5	6.5	13.5
Merged-chr19-5850369-4	chr19	5850258	5850458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026169)	TTS (NM_026169)	-4878.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	34.5	40.0	24.5	251.5	100.5	41.5	32.0	48.5
Merged-chr4-150240225-4	chr4	150240083	150240283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023119, intron 2 of 11)	intron (NM_023119, intron 2 of 11)	2859.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	17.5	34.0	42.5	251.5	62.0	40.0	35.0	30.0
Merged-chr10-80161888-6	chr10	80161815	80162015	+	905.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-5924.0	NM_007705	12696.0	Mm.17898	NM_007705	ENSMUSG00000045193	Cirbp	Cirp|R74941	cold inducible RNA binding protein	protein-coding	8.5	25.0	15.0	137.5	11.5	5.0	11.5	7.5
Merged-chr3-83055414-4	chr3	83055318	83055518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016784)	promoter-TSS (NM_016784)	-120.0	NM_016784	53317.0	Mm.286349	NM_016784	ENSMUSG00000027998	Plrg1	AA958940|C80566|Tango4	pleiotropic regulator 1	protein-coding	368.5	491.5	326.0	5543.0	711.0	242.5	427.5	257.0
Merged-chr13-113606305-4	chr13	113606209	113606409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	12255.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	20.5	89.0	28.5	432.0	68.0	18.5	24.5	14.5
Merged-chr19-23758971-4	chr19	23758865	23759065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177034)	promoter-TSS (NM_177034)	89.0	NM_177034	319924.0	Mm.22879	NM_177034	ENSMUSG00000024897	Apba1	6430513E09Rik|Lin-10|Mint|Mint1|Urop11|X11|X11alpha	amyloid beta (A4) precursor protein binding, family A, member 1	protein-coding	36.0	54.5	50.0	602.5	50.0	32.0	34.0	30.5
Merged-chr1-120253958-4	chr1	120253872	120254072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085409, intron 2 of 5)	intron (NM_001085409, intron 2 of 5)	11308.0	NM_133186	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	21.0	45.5	30.5	764.5	68.5	22.5	42.0	39.0
Merged-chr18-49945640-4	chr18	49945530	49945730	+	989.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081371, intron 37 of 42)	intron (NM_001081371, intron 37 of 42)	-33797.0	NM_001177760	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	33.5	23.5	63.5	1222.0	73.0	13.5	33.5	38.0
Merged-chr12-91012717-4	chr12	91012613	91012813	+	980.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181815, intron 24 of 25)	intron (NM_181815, intron 24 of 25)	-33135.0	NR_045858	71349.0	Mm.442093	NR_045858	ENSMUSG00000085004	5430427M07Rik	-	RIKEN cDNA 5430427M07 gene	ncRNA	26.5	22.5	24.5	382.5	56.0	11.0	25.5	9.0
Merged-chr4-139198240-4	chr4	139198142	139198342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	4131.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	65.0	74.0	67.5	1522.0	168.0	61.0	80.0	66.5
Merged-chr19-5130691-2	chr19	5130591	5130791	+	744.549988	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12283.0	NM_008451	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	0.5	3.0	5.0	36.0	18.5	7.0	8.0	5.0
Merged-chr12-77092642-4	chr12	77092544	77092744	+	922.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130396.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	23.0	29.0	13.0	403.5	21.5	8.5	15.5	12.5
Merged-chr13-112131334-4	chr13	112131164	112131364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157187.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	25.0	28.5	42.0	723.0	82.5	47.5	38.5	61.5
Merged-chr5-146904608-4	chr5	146904510	146904710	+	781.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44047.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	7.0	3.5	3.0	122.0	18.0	10.5	8.5	9.0
Merged-chr19-38396038-4	chr19	38395938	38396138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175507)	promoter-TSS (NM_175507)	58.0	NM_175507	240660.0	Mm.262085	NM_175507	ENSMUSG00000044026	Slc35g1	AA590464|D330039I19Rik|Tmem20	solute carrier family 35, member G1	protein-coding	31.5	61.5	24.0	576.0	95.5	22.5	32.0	29.5
Merged-chr11-116493976-4	chr11	116493876	116494076	+	943.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3630.0	NM_026364	67763.0	Mm.25125	NM_026364	ENSMUSG00000015869	Prpsap1	5730409F23Rik|PAP39	phosphoribosyl pyrophosphate synthetase-associated protein 1	protein-coding	19.0	26.5	13.0	213.5	96.0	25.0	27.5	23.5
Merged-chr17-5293883-4	chr17	5293786	5293986	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 8 of 19)	intron (NM_001085355, intron 8 of 19)	124881.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	16.0	18.0	18.0	379.0	26.0	11.0	12.5	28.5
Merged-chr1-63115937-2	chr1	63115837	63116037	+	692.599976	f1_balb.idr|f1_c57bl6.idr	intron (NR_045914, intron 1 of 3)	(TTTC)n|Simple_repeat|Simple_repeat	1197.0	NR_045914	100380944.0	Mm.392955	NR_045914	ENSMUSG00000084799	Ino80dos	Gm11602	INO80 complex subunit D, opposite strand	ncRNA	13.0	5.0	6.0	74.0	3.0	6.5	5.0	19.0
Merged-chr17-32164073-4	chr17	32163974	32164174	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008716, intron 2 of 32)	intron (NM_008716, intron 2 of 32)	2778.0	NM_008716	18131.0	Mm.439741	NM_008716	ENSMUSG00000038146	Notch3	AW229011|N3|hpbk	notch 3	protein-coding	9.5	28.5	10.5	232.5	40.0	15.5	36.0	34.5
Merged-chr18-44828923-4	chr18	44828810	44829010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163013, exon 1 of 30)	exon (NM_001163013, exon 1 of 30)	245.0	NM_001163013	240255.0	Mm.244482	NM_001163013	ENSMUSG00000034653	Ythdc2	3010002F02Rik|BC037178	YTH domain containing 2	protein-coding	87.0	122.5	111.0	1340.0	226.0	63.0	114.0	101.0
Merged-chr9-90021626-4	chr9	90021520	90021720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357743, intron 26 of 26)	intron (NM_001357743, intron 26 of 26)	-32647.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	42.0	42.0	19.0	613.5	98.5	28.0	36.0	29.0
Merged-chr6-30391004-4	chr6	30390889	30391089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311086)	promoter-TSS (NM_001311086)	31.0	NM_172735	232679.0	Mm.29780	NM_172735	ENSMUSG00000039130	Zc3hc1	1110054L24Rik|AU018540|AU019789|HSPC216|Nipa	zinc finger, C3HC type 1	protein-coding	41.0	48.0	28.0	365.0	65.0	24.5	24.0	27.0
Merged-chr1-172191690-4	chr1	172191585	172191785	+	955.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151641, intron 11 of 13)	intron (NR_151641, intron 11 of 13)	15119.0	NM_001329871	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	14.5	13.0	27.5	445.0	40.5	6.0	15.5	11.5
Merged-chr2-118730648-4	chr2	118730543	118730743	+	921.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2205.0	NM_001290790	18796.0	Mm.215156	NM_177568	ENSMUSG00000040061	Plcb2	AI550384|B230205M18Rik|B230399N12	phospholipase C, beta 2	protein-coding	26.5	18.5	8.5	249.0	44.5	17.0	23.0	22.5
Merged-chr2-121355390-4	chr2	121355241	121355441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2435.0	NM_001355069	12716.0	Mm.252145	NM_009897	ENSMUSG00000000308	Ckmt1	Mt-CK|ScCKmit|U-MtCK|UbCKmit|mi-CK|mia-CK	creatine kinase, mitochondrial 1, ubiquitous	protein-coding	64.0	108.5	70.5	881.5	190.5	67.5	112.0	74.0
Merged-chr3-69374157-4	chr3	69373995	69374195	+	818.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178726, intron 1 of 3)	MLT1A0|LTR|ERVL-MaLR	57177.0	NM_178726	242083.0	Mm.40577	NM_178726	ENSMUSG00000027784	Ppm1l	3222401G13|5930404J21Rik|AI481720|AW045850|PP2C|PP2Cepsilon|Pp2ce|Ppp2ce|mKIAA4175	protein phosphatase 1 (formerly 2C)-like	protein-coding	7.5	8.5	13.0	130.0	24.0	6.5	6.5	6.0
Merged-chr11-54627157-4	chr11	54627058	54627258	+	872.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 11 of 28)	intron (NM_001252494, intron 11 of 28)	31012.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	9.0	33.5	9.5	112.5	42.5	19.5	11.0	7.5
Merged-chr10-69212647-2	chr10	69212565	69212765	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001081347)	promoter-TSS (NM_001081347)	8.0	NM_001081347	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	25.5	35.5	38.0	464.0	53.5	35.0	26.5	29.0
Merged-chr18-46599069-4	chr18	46598939	46599139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010120, intron 2 of 2)	intron (NM_010120, intron 2 of 2)	1335.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	30.5	42.5	24.0	328.5	145.5	41.0	20.0	41.5
Merged-chr18-65582245-4	chr18	65582137	65582337	+	874.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361053)	promoter-TSS (NM_001361053)	-181.0	NM_001361053	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	13.0	18.5	9.0	314.5	21.0	3.0	12.5	17.5
Merged-chr15-8445495-4	chr15	8445414	8445614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-4777	-1051.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	47.5	68.5	43.0	485.0	113.5	35.0	59.0	51.0
Merged-chr13-98815324-4	chr13	98815231	98815431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172591, exon 1 of 26)	5' UTR (NM_172591, exon 1 of 26)	118.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	192.5	248.5	189.5	2641.5	450.5	168.0	210.0	169.5
Merged-chr2-165926518-3	chr2	165926382	165926582	+	816.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-41644.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	11.0	14.5	4.5	163.5	6.0	1.0	2.0	7.0
Merged-chr12-110499390-1	chr12	110499290	110499490	+	552.0	f0_balb.idr	intron (NM_001081457, intron 1 of 12)	intron (NM_001081457, intron 1 of 12)	13651.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	6.5	7.5	5.5	76.0	24.0	3.0	0.0	2.5
Merged-chr9-55938167-4	chr9	55938069	55938269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081341)	promoter-TSS (NM_001081341)	-50.0	NM_001081341	244891.0	Mm.86588	NM_175536	ENSMUSG00000034007	Scaper	C430017I08|D530014O03Rik|Zfp291	S phase cyclin A-associated protein in the ER	protein-coding	64.0	82.0	65.0	849.0	162.0	73.0	76.0	89.0
Merged-chr1-151625457-4	chr1	151625359	151625559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	L1MD|LINE|L1	54086.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	68.0	71.0	23.5	596.0	97.5	39.0	34.5	35.5
Merged-chr14-21984965-3	chr14	21984848	21985048	+	920.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145459, exon 3 of 3)	exon (NM_145459, exon 3 of 3)	4653.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	6.5	14.0	13.0	170.5	19.0	7.5	5.5	4.0
Merged-chr7-59228658-4	chr7	59228557	59228757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173010)	promoter-TSS (NM_173010)	-93.0	NM_001033962	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	297.0	397.0	319.5	4725.0	591.5	243.0	368.5	243.0
Merged-chr11-85126972-2	chr11	85126872	85127072	+	731.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001029934, intron 1 of 33)	intron (NM_001029934, intron 1 of 33)	12983.0	NM_001029934	237898.0	Mm.178524	NM_001029934	ENSMUSG00000000804	Usp32	2900074J03Rik|6430526O11Rik|AW045245	ubiquitin specific peptidase 32	protein-coding	4.0	7.5	3.0	58.0	36.5	6.0	8.5	8.5
Merged-chr18-12224604-4	chr18	12224519	12224719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008720, intron 1 of 24)	intron (NM_008720, intron 1 of 24)	11767.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	32.0	38.0	31.0	452.5	65.5	35.5	37.0	26.0
Merged-chr12-117479185-4	chr12	117479080	117479280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37299.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	86.0	134.5	89.5	1942.5	246.5	87.5	119.5	86.0
Merged-chr2-4453204-4	chr2	4453117	4453317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	52241.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	61.0	102.5	157.5	1499.5	272.5	100.0	171.0	86.5
Merged-chr7-145243268-4	chr7	145243198	145243398	+	856.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132644, intron 24 of 24)	intron (NR_132644, intron 24 of 24)	-35179.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	15.5	15.0	1.5	126.0	30.5	9.0	9.0	6.5
Merged-chr8-70833217-5	chr8	70833137	70833337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6483.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	57.0	131.0	50.5	520.5	127.0	56.0	44.5	52.0
Merged-chr14-17414721-1	chr14	17414621	17414821	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-246239.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	66.5	48.5	57.5	1068.5	117.0	43.5	65.5	48.0
Merged-chr16-24361934-4	chr16	24361847	24362047	+	887.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31403.0	NM_178665	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	11.0	23.0	13.5	272.0	29.0	8.0	28.0	14.5
Merged-chr2-27028789-4	chr2	27028684	27028884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172659)	promoter-TSS (NM_172659)	-786.0	NM_001177627	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	77.0	162.0	98.5	1128.5	227.0	55.5	75.5	67.0
Merged-chr18-60977990-4	chr18	60977899	60978099	+	990.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009792, exon 4 of 7)	exon (NM_009792, exon 4 of 7)	14445.0	NM_001286809	12322.0	Mm.131530	NM_009792	ENSMUSG00000024617	Camk2a	CaMKII|R74975|mKIAA0968	calcium/calmodulin-dependent protein kinase II alpha	protein-coding	13.0	16.0	15.5	274.0	36.0	6.5	18.0	15.5
Merged-chr11-115690554-4	chr11	115690452	115690652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	8982.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	24.0	42.5	18.5	175.5	76.5	21.0	19.5	22.0
Merged-chr19-3852522-4	chr19	3852364	3852564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271496, intron 1 of 11)	CpG	691.0	NR_073190	12660.0	Mm.225505	NM_013490	ENSMUSG00000024843	Chka	CK|CK/EK-alpha|Chetk-alpha|Chk|ChoK|EK|EtnK-alpha	choline kinase alpha	protein-coding	21.5	40.5	27.0	404.0	73.5	22.0	10.0	27.0
Merged-chr9-123935580-4	chr9	123935473	123935673	+	959.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33119.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	25.5	38.0	45.5	671.5	84.0	11.0	20.5	20.5
Merged-chr5-25662835-3	chr5	25662763	25662963	+	959.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	42934.0	NM_020570	57434.0	Mm.143767	NM_020570	ENSMUSG00000028933	Xrcc2	4921524O04Rik|8030409M04Rik|RAD51|RecA	X-ray repair complementing defective repair in Chinese hamster cells 2	protein-coding	11.5	8.5	11.5	105.5	9.5	9.5	9.5	13.0
Merged-chr1-151926277-4	chr1	151926190	151926390	+	910.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	intron (NM_197990, intron 3 of 5)	164030.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	22.5	23.5	9.5	177.0	23.0	8.0	13.0	14.0
Merged-chr15-6709266-2	chr15	6709166	6709366	+	977.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_030168, intron 2 of 37)	CpG-4767	885.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	6.5	5.0	7.5	54.5	17.0	3.5	6.0	9.0
Merged-chr10-127615806-3	chr10	127615659	127615859	+	834.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 1 of 88)	intron (NM_008512, intron 1 of 88)	5389.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	5.0	10.5	5.0	33.0	7.5	1.5	1.0	2.5
Merged-chr3-96629894-4	chr3	96629792	96629992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025875)	promoter-TSS (NM_025875)	-36.0	NM_025875	60365.0	Mm.261972	NM_025875	ENSMUSG00000038374	Rbm8a	2310057C03Rik|AA673428|Rbm8	RNA binding motif protein 8a	protein-coding	66.0	92.5	45.0	507.0	158.0	57.0	75.5	42.5
Merged-chr17-5615127-4	chr17	5615020	5615220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	122520.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	27.0	39.0	30.0	580.0	72.5	18.5	29.0	27.0
Merged-chr11-46275506-4	chr11	46275408	46275608	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 8 of 30)	intron (NM_001252459, intron 8 of 30)	36850.0	NM_001252460	76884.0	Mm.154358	NM_133769	ENSMUSG00000020340	Cyfip2	1500004I01Rik|6430511D02Rik|AA930218|AU022376|Pir121|mKIAA1168	cytoplasmic FMR1 interacting protein 2	protein-coding	12.5	15.5	10.5	136.0	44.5	6.5	21.0	18.5
Merged-chr6-88832112-4	chr6	88832008	88832208	+	932.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9827.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	12.5	22.0	24.0	372.5	47.5	10.5	14.5	29.5
Merged-chr5-31095515-4	chr5	31095407	31095607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347323, intron 1 of 8)	CpG	-1980.0	NM_011773	22784.0	Mm.1396	NM_011773	ENSMUSG00000029151	Slc30a3	Znt3	solute carrier family 30 (zinc transporter), member 3	protein-coding	230.5	387.5	225.0	2777.5	487.0	169.5	219.0	161.0
Merged-chr13-98768510-3	chr13	98768384	98768584	+	932.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 8 of 25)	intron (NM_172591, intron 8 of 25)	46965.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	6.5	10.5	8.5	275.5	29.5	4.5	7.0	8.5
Merged-chr5-140704521-1	chr5	140704421	140704621	+	1000.0	f0_c57.idr	promoter-TSS (NM_001276287)	promoter-TSS (NM_001276287)	-490.0	NM_181066	231841.0	Mm.271932	NM_172724	ENSMUSG00000000148	Brat1	AA881470|Baat1	BRCA1-associated ATM activator 1	protein-coding	89.0	157.5	91.5	679.5	174.5	89.0	74.5	69.5
Merged-chr12-3820803-4	chr12	3820707	3820907	+	859.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	13647.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	9.0	12.5	10.5	140.0	26.0	3.5	9.5	6.0
Merged-chr17-28435117-4	chr17	28435024	28435224	+	945.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 3 of 10)	intron (NM_010220, intron 3 of 10)	51025.0	NM_010220	14229.0	Mm.276405	NM_010220	ENSMUSG00000024222	Fkbp5	D17Ertd592e|Dit1|FKBP-5|FKBP51	FK506 binding protein 5	protein-coding	36.0	23.0	19.0	584.0	71.0	11.5	25.0	24.5
Merged-chr13-85283994-4	chr13	85283910	85284110	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145452, intron 1 of 24)	(TG)n|Simple_repeat|Simple_repeat	5476.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	28.5	26.0	15.0	462.0	76.5	22.0	14.5	18.5
Merged-chr8-71908703-4	chr8	71908629	71908829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001166645, exon 1 of 3)	5' UTR (NM_001166645, exon 1 of 3)	123.0	NM_001166645	382019.0	Mm.251482	NM_001166645	ENSMUSG00000089857	Zfp882	Gm15468	zinc finger protein 882	protein-coding	25.5	27.5	40.0	266.0	49.5	21.5	23.5	22.5
Merged-chr7-4034455-4	chr7	4034358	4034558	+	854.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302675, intron 2 of 6)	Lx5b|LINE|L1	28746.0	NM_001302677	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	7.0	12.0	6.0	168.0	8.5	9.5	5.5	20.5
Merged-chr11-77816219-4	chr11	77816094	77816294	+	980.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291213, intron 2 of 40)	intron (NM_001291213, intron 2 of 40)	14896.0	NM_001291215	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	20.5	38.0	8.0	301.5	60.0	22.5	21.5	22.5
Merged-chr6-114648774-4	chr6	114648686	114648886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 2 of 19)	intron (NM_001253718, intron 2 of 19)	5689.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	55.5	46.0	52.5	610.5	96.0	22.5	42.0	39.5
Merged-chr4-32358783-4	chr4	32358654	32358854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58681.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	71.0	140.0	121.5	2067.5	150.5	40.5	77.5	77.0
Merged-chr12-70129293-1	chr12	70129193	70129393	+	696.0	f0_balb.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-17258.0	NR_104397	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	5.5	9.5	7.5	78.5	11.5	5.0	6.5	7.5
Merged-chr11-76623477-4	chr11	76623400	76623600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-45761.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	43.0	30.0	39.0	439.5	124.5	45.5	40.0	40.0
Merged-chr16-18343988-4	chr16	18343901	18344101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138583)	promoter-TSS (NM_138583)	-69.0	NM_001359111	27883.0	Mm.265990	NM_138583	ENSMUSG00000013539	Tango2	D16H22S680E|T10	transport and golgi organization 2	protein-coding	166.0	194.5	154.5	2693.5	278.0	128.5	193.0	129.5
Merged-chr7-27979313-4	chr7	27979125	27979325	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081021)	promoter-TSS (NM_001081021)	-68.0	NM_001081021	338354.0	Mm.389873	NM_001081021	ENSMUSG00000063047	Zfp780b	B230208L21Rik	zinc finger protein 780B	protein-coding	14.0	16.0	15.0	159.5	39.0	12.0	9.0	12.0
Merged-chr17-32951635-3	chr17	32951523	32951723	+	859.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033585, exon 3 of 3)	non-coding (NR_033585, exon 3 of 3)	-4262.0	NM_130882	170716.0	Mm.254838	NM_130882	ENSMUSG00000024055	Cyp4f13	0610030I10Rik|Cypf13	cytochrome P450, family 4, subfamily f, polypeptide 13	protein-coding	11.0	11.0	5.0	70.5	14.0	8.5	10.0	7.0
Merged-chr4-53049630-2	chr4	53049530	53049730	+	611.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 36 of 49)	intron (NM_013454, intron 36 of 49)	37750.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	3.0	2.5	1.5	35.0	7.0	4.5	9.5	5.0
Merged-chr3-31093786-4	chr3	31093699	31093899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1259.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	209.0	343.5	166.0	2462.0	540.0	224.0	261.5	175.0
Merged-chr4-126301421-4	chr4	126301313	126301513	+	763.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199473, intron 2 of 3)	CpG	14619.0	NM_199473	329941.0	Mm.296327	NM_199473	ENSMUSG00000056174	Col8a2	AI429819	collagen, type VIII, alpha 2	protein-coding	14.5	17.5	7.5	66.5	35.0	13.0	16.0	9.0
Merged-chr10-115806127-4	chr10	115806015	115806215	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-11169.0	NM_001168680	216350.0	Mm.22270	NM_146010	ENSMUSG00000034127	Tspan8	C76990|E330007O21Rik|Tm4sf3	tetraspanin 8	protein-coding	36.0	30.5	17.5	490.5	35.0	4.5	14.0	12.5
Merged-chr4-41614327-4	chr4	41614236	41614436	+	920.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175138, exon 11 of 20)	exon (NM_175138, exon 11 of 20)	25966.0	NM_027147	69638.0	Mm.372459	NM_027147	ENSMUSG00000028445	Enho	1110065P19Rik|2310040A07Rik	energy homeostasis associated	protein-coding	14.0	28.0	9.0	326.0	44.5	13.5	16.5	24.5
Merged-chr10-93070841-4	chr10	93070749	93070949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347060, intron 1 of 67)	intron (NM_001347060, intron 1 of 67)	10747.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	189.5	279.0	181.0	2373.5	407.0	171.0	198.0	170.0
Merged-chr12-98835649-4	chr12	98835565	98835765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 21 of 43)	intron (NM_001081191, intron 21 of 43)	64643.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	29.0	68.5	28.0	265.0	131.0	40.0	43.5	41.0
Merged-chr9-46013240-4	chr9	46013186	46013386	+	968.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357241)	promoter-TSS (NM_001357241)	466.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	11.5	8.0	17.5	245.0	37.0	18.0	28.5	22.0
Merged-chr11-107012811-4	chr11	107012688	107012888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-13263.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	68.0	118.0	37.5	585.5	145.0	69.5	46.0	68.0
Merged-chr16-10785150-4	chr16	10785074	10785274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271603, intron 1 of 1)	CpG	362.0	NM_009896	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	70.5	123.0	57.0	885.0	230.0	61.5	95.0	99.5
Merged-chr4-19895844-4	chr4	19895740	19895940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	26726.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	67.0	83.5	56.0	1040.5	157.0	70.0	96.5	72.0
Merged-chr18-4009312-4	chr18	4009184	4009384	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-156548.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	30.5	43.5	47.5	769.0	54.5	18.5	24.0	12.5
Merged-chr10-84109888-4	chr10	84109775	84109975	+	949.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-9178.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	12.0	14.0	10.0	153.0	37.0	17.5	20.5	19.0
Merged-chr6-85904986-3	chr6	85904912	85905112	+	577.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029331)	promoter-TSS (NM_029331)	-74.0	NM_029331	75541.0	Mm.24454	NM_029331	ENSMUSG00000068299	Nat8f4	1700019G17Rik	N-acetyltransferase 8 (GCN5-related) family member 4	protein-coding	1.0	5.5	6.0	57.5	22.5	12.5	16.0	9.0
Merged-chr7-101311369-5	chr7	101311342	101311542	+	945.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5644.0	NM_001360460	56018.0	Mm.28896	NM_019990	ENSMUSG00000030688	Stard10	AV048538|CGI-52|NY-C0-28|PC-TP2|PCTP2|Pctpl|Sdccag28|SdccagG28|TISP-81	START domain containing 10	protein-coding	8.0	13.0	6.0	56.5	29.5	4.0	14.0	19.0
Merged-chr1-37559845-4	chr1	37559739	37559939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18823.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	28.5	44.0	43.5	907.0	78.5	25.0	51.5	35.5
Merged-chr11-4053785-2	chr11	4053685	4053885	+	835.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11068.0	NM_001029937	380683.0	Mm.296806	NM_001029937	ENSMUSG00000054986	Sec14l3	1110069O07Rik	SEC14-like lipid binding 3	protein-coding	2.0	9.5	2.0	44.5	17.5	8.0	7.0	4.5
Merged-chr2-30807774-4	chr2	30807667	30807867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356435)	promoter-TSS (NM_001356435)	-201.0	NM_001356435	66617.0	Mm.33167	NM_170592	ENSMUSG00000026857	Ntmt1	2610205E22Rik|AL033331|AL033332|Mettl11a|NTM1A	N-terminal Xaa-Pro-Lys N-methyltransferase 1	protein-coding	368.5	559.0	337.0	4542.5	842.5	376.5	411.0	289.0
Merged-chr10-42842503-3	chr10	42842398	42842598	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18014.0	NM_172938	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	7.0	9.0	5.5	88.5	23.0	5.5	4.0	8.5
Merged-chr11-76589320-4	chr11	76589181	76589381	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11542.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	34.0	79.5	47.0	321.5	102.0	41.0	38.5	16.5
Merged-chr9-89198521-4	chr9	89198435	89198635	+	762.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007534)	promoter-TSS (NM_007534)	-738.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	14.0	30.5	13.5	208.0	32.0	15.5	14.0	15.5
Merged-chr16-38821048-5	chr16	38820887	38821087	+	800.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029042, intron 3 of 3)	intron (NM_029042, intron 3 of 3)	7762.0	NM_029042	74663.0	Mm.50263	NM_029042	ENSMUSG00000022798	4930435E12Rik	TSCPA	RIKEN cDNA 4930435E12 gene	protein-coding	5.5	0.0	7.5	32.0	13.5	5.0	11.0	5.5
Merged-chr11-45884214-4	chr11	45884101	45884301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045520, intron 2 of 11)	intron (NM_001045520, intron 2 of 11)	32237.0	NM_001045520	216705.0	Mm.169673	NM_001045520	ENSMUSG00000006169	Clint1	AI642036|AW537616|C530049I24Rik|Enth|Epn4|F630206G17Rik|mKIAA0171	clathrin interactor 1	protein-coding	33.5	49.0	28.0	409.5	86.0	26.5	25.0	29.5
Merged-chr5-36814725-4	chr5	36814626	36814826	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008550, intron 11 of 18)	intron (NM_008550, intron 11 of 18)	15923.0	NM_008550	17160.0	Mm.761	NM_008550	ENSMUSG00000029119	Man2b2	mKIAA0935	mannosidase 2, alpha B2	protein-coding	24.0	48.5	16.0	376.0	66.0	23.5	16.5	24.5
Merged-chr16-22445065-4	chr16	22444956	22445156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger15a|DNA|TcMar-Tigger	-5486.0	NM_023794	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	48.0	62.5	59.5	992.5	145.5	48.0	68.0	88.0
Merged-chr1-58773498-4	chr1	58773399	58773599	+	644.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-21875.0	NM_009812	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	12.5	18.5	10.5	91.5	19.0	4.0	7.5	14.0
Merged-chr1-136141679-4	chr1	136141575	136141775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	10285.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	184.5	336.5	305.0	4090.0	577.0	189.5	321.5	264.5
Merged-chr9-57439713-4	chr9	57439608	57439808	+	926.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357913)	promoter-TSS (NM_001357913)	28.0	NM_001357913	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	18.5	17.5	15.0	149.0	44.5	10.0	11.0	17.5
Merged-chr8-75109456-4	chr8	75109343	75109543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008566)	promoter-TSS (NM_008566)	-66.0	NM_001302540	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	199.0	315.0	158.0	2754.5	499.5	182.0	196.0	170.0
Merged-chr13-100453860-3	chr13	100453747	100453947	+	779.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008670)	promoter-TSS (NM_008670)	-983.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	1.0	13.5	4.0	67.0	28.0	5.5	9.0	14.5
Merged-chr9-57510910-4	chr9	57510818	57511018	+	800.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	6816.0	NM_133982	102614.0	Mm.274421	NM_133982	ENSMUSG00000062309	Rpp25	AI851155	ribonuclease P/MRP 25 subunit	protein-coding	6.0	8.5	5.0	177.0	18.0	9.5	11.5	11.0
Merged-chr14-60273874-4	chr14	60273786	60273986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144843, intron 1 of 13)	intron (NM_144843, intron 1 of 13)	8681.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	64.0	104.0	31.0	299.5	121.5	63.5	41.0	22.5
Merged-chr17-25773726-4	chr17	25773634	25773834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026238)	promoter-TSS (NM_026238)	-42.0	NM_026238	67563.0	Mm.24201	NM_026238	ENSMUSG00000002280	Narfl	9030612I22Rik|AI504405|PRN	nuclear prelamin A recognition factor-like	protein-coding	52.5	60.0	41.0	609.0	220.5	57.5	49.5	74.0
Merged-chr19-10740900-3	chr19	10740798	10740998	+	944.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027805)	promoter-TSS (NR_027805)	-49.0	NR_027805	403202.0	Mm.34482	NM_207529	ENSMUSG00000067577	A430093F15Rik	Gm674	RIKEN cDNA A430093F15 gene	ncRNA	10.0	32.0	9.5	68.0	61.0	13.5	14.5	23.5
Merged-chr17-35808139-4	chr17	35808050	35808250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13563.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	69.5	83.5	75.5	796.5	191.5	63.5	46.0	96.5
Merged-chr17-70833655-4	chr17	70833592	70833792	+	875.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13085.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	8.5	21.0	13.0	107.0	23.0	12.0	9.0	16.0
Merged-chr6-97820824-4	chr6	97820738	97820938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	13780.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	99.5	223.5	117.5	1699.0	301.0	146.5	132.0	90.5
Merged-chr2-132282215-4	chr2	132282100	132282300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291040, intron 1 of 3)	intron (NM_001291040, intron 1 of 3)	-3739.0	NM_001291039	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	23.0	37.5	30.5	544.0	45.0	19.0	48.0	40.5
Merged-chr7-24972723-4	chr7	24972622	24972822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010261)	promoter-TSS (NM_010261)	6.0	NM_010261	14470.0	Mm.22473	NM_010261	ENSMUSG00000003380	Rabac1	2310040I06Rik|Gbpap1|PRA1|prenylin	Rab acceptor 1 (prenylated)	protein-coding	116.5	171.5	86.0	1563.0	250.0	93.0	102.0	94.5
Merged-chr16-4877367-4	chr16	4877277	4877477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145359, intron 1 of 2)	intron (NM_145359, intron 1 of 2)	2474.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	79.0	87.0	54.0	1176.0	211.0	55.0	102.5	106.0
Merged-chr9-20645345-4	chr9	20645219	20645419	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286530)	promoter-TSS (NM_001286530)	516.0	NR_153859	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	8.0	16.5	8.5	181.5	34.0	8.5	18.0	17.5
Merged-chr4-132353665-4	chr4	132353572	132353772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003270)	promoter-TSS (NR_003270)	14.0	NR_003270	399101.0	Mm.486919	NR_002904	ENSMUSG00000085241	Snhg3	Rnu17d|U17HG	small nucleolar RNA host gene 3	ncRNA	47.0	120.5	49.5	506.0	161.0	67.0	51.0	50.0
Merged-chr7-125555668-4	chr7	125555568	125555768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	intron (NM_001008700, intron 1 of 10)	3386.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	62.5	74.0	66.0	967.0	200.5	96.0	111.5	108.0
Merged-chr10-95515672-3	chr10	95515575	95515775	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	CpG	513.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	29.0	39.5	30.5	539.0	73.0	26.5	35.5	33.0
Merged-chr3-145938522-3	chr3	145938418	145938618	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025555, intron 1 of 2)	CpG	504.0	NR_151446	66421.0	Mm.25137	NM_025555	ENSMUSG00000036873	2410004B18Rik	4930572C24Rik	RIKEN cDNA 2410004B18 gene	protein-coding	17.5	37.0	27.0	341.0	53.0	22.5	32.5	20.0
Merged-chr1-154117606-3	chr1	154117496	154117696	+	963.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83591.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	10.5	29.5	17.0	92.5	19.0	9.0	6.5	7.0
Merged-chr18-21701990-3	chr18	21701892	21702092	+	942.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49624.0	NM_001081403	225266.0	Mm.436836	NM_001081403	ENSMUSG00000042514	Klhl14	6330403N15Rik|AI785250|printor	kelch-like 14	protein-coding	19.0	25.5	12.5	216.5	2.0	1.0	0.5	1.0
Merged-chr6-37441151-4	chr6	37441046	37441246	+	931.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	1002.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	11.0	14.0	5.5	321.5	43.0	11.5	9.5	14.0
Merged-chr7-109960481-4	chr7	109960386	109960586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021494)	promoter-TSS (NM_021494)	-16.0	NM_001311139	19347.0	Mm.21904	NM_021494	ENSMUSG00000035901	Dennd5a	1500012B19Rik|AJ245569|AW496491|ORF37|Rab6ip1|mKIAA1091	DENN/MADD domain containing 5A	protein-coding	63.0	100.5	65.5	804.0	165.5	74.5	75.0	54.0
Merged-chr11-69043924-3	chr11	69043821	69044021	+	765.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1716.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	8.0	6.5	5.0	78.0	10.0	8.0	6.5	6.0
Merged-chr1-74077546-3	chr1	74077456	74077656	+	729.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289895, intron 2 of 32)	intron (NM_001289895, intron 2 of 32)	46891.0	NM_027884	21961.0	Mm.309975	NM_027884	ENSMUSG00000055322	Tns1	1110018I21Rik|1200014E20Rik|AI648117|E030018G17Rik|E030037J05Rik|Tns	tensin 1	protein-coding	2.5	12.5	4.0	123.5	30.5	5.5	5.5	9.5
Merged-chr4-120954545-2	chr4	120954456	120954656	+	927.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-2855.0	NM_001005788	381549.0	Mm.331840	NM_001005788	ENSMUSG00000064141	Zfp69	Gm1029|Krab2|Zfp63	zinc finger protein 69	protein-coding	11.5	23.0	9.0	180.5	3.0	5.0	1.5	2.5
Merged-chr3-79229563-4	chr3	79229471	79229671	+	952.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	16652.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	10.0	13.0	14.0	208.5	42.5	7.0	31.0	23.0
Merged-chr8-39674369-2	chr8	39674254	39674454	+	781.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-31676.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	7.5	5.5	13.0	203.5	0.5	2.5	1.0	1.0
Merged-chr16-33568764-4	chr16	33568638	33568838	+	890.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 4 of 11)	intron (NM_001083902, intron 4 of 11)	50143.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	12.5	33.5	31.5	152.5	21.5	14.5	17.0	16.0
Merged-chr11-106627923-4	chr11	106627843	106628043	+	857.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-15013.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	3.5	15.0	4.5	125.0	30.5	8.5	10.0	14.0
Merged-chr10-8029041-4	chr10	8028952	8029152	+	968.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-72929.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	22.5	14.0	12.0	416.0	16.5	23.0	32.5	28.5
Merged-chr5-25436270-4	chr5	25436175	25436375	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081383, intron 2 of 58)	PB1D9|SINE|Alu	62508.0	NM_001081383	231051.0	Mm.332268	NM_001081383	ENSMUSG00000038056	Kmt2c	E330008K23Rik|HALR|Mll3|mKIAA1506	lysine (K)-specific methyltransferase 2C	protein-coding	36.0	48.5	12.0	310.5	98.0	20.0	19.0	26.5
Merged-chr2-102400673-4	chr2	102400575	102400775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020267, exon 1 of 5)	exon (NM_020267, exon 1 of 5)	225.0	NM_020267	80985.0	Mm.315002	NM_020267	ENSMUSG00000027189	Trim44	Dipb|Mc7	tripartite motif-containing 44	protein-coding	25.5	47.5	42.0	435.5	77.0	34.5	39.5	35.5
Merged-chr11-99150113-3	chr11	99150016	99150216	+	721.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007719, intron 1 of 2)	intron (NM_007719, intron 1 of 2)	4961.0	NM_001301713	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	7.0	15.5	4.5	86.0	27.0	8.5	4.5	2.5
Merged-chr7-49633553-3	chr7	49633460	49633660	+	780.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001005232, exon 3 of 4)	exon (NM_001005232, exon 3 of 4)	3275.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	9.0	19.0	7.0	148.5	30.0	8.0	5.5	4.0
Merged-chr6-71831784-4	chr6	71831664	71831864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362138, intron 1 of 13)	CpG	444.0	NM_001253686	76614.0	Mm.235123	NM_029673	ENSMUSG00000052337	Immt	1700082C19Rik|D830041H16Rik|HMP|P87|P87/89|P89	inner membrane protein, mitochondrial	protein-coding	165.0	230.5	166.0	2696.0	327.0	148.5	174.0	140.5
Merged-chr1-191277850-4	chr1	191277696	191277896	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40322.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	22.0	18.5	14.5	171.5	46.5	15.0	12.5	19.5
Merged-chr1-21068659-3	chr1	21068566	21068766	+	672.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177409, intron 1 of 10)	intron (NM_177409, intron 1 of 10)	10559.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	8.0	5.0	12.0	59.0	23.5	2.5	7.0	11.5
Merged-chr4-133092799-4	chr4	133092637	133092837	+	860.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37896.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	11.5	11.0	23.0	141.0	20.5	9.0	6.5	16.5
Merged-chr6-88384838-3	chr6	88384743	88384943	+	667.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023060, intron 1 of 6)	intron (NM_023060, intron 1 of 6)	61696.0	NM_023060	65967.0	Mm.333237	NM_023060	ENSMUSG00000033216	Eefsec	Selb|mSelB|sec	eukaryotic elongation factor, selenocysteine-tRNA-specific	protein-coding	5.0	5.0	6.5	77.5	6.5	7.0	2.0	6.5
Merged-chr11-116868322-4	chr11	116868247	116868447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178620, intron 9 of 12)	intron (NM_178620, intron 9 of 12)	14347.0	NM_001361586	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	90.0	100.0	65.0	1092.5	135.5	48.0	49.0	60.5
Merged-chr4-141713814-4	chr4	141713710	141713910	+	889.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017966, intron 1 of 9)	RLTR30D2_MM|LTR|ERV1	9609.0	NM_001017966	68817.0	Mm.393721	NM_001017966	ENSMUSG00000078515	Ddi2	1110056G13Rik|1700027M01Rik|9130022E05Rik|AI604911|AU040698	DNA-damage inducible protein 2	protein-coding	22.0	37.0	28.0	295.5	37.0	3.5	10.5	7.5
Merged-chr4-134401607-4	chr4	134401493	134401693	+	762.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285872, intron 1 of 10)	(GGGTG)n|Simple_repeat|Simple_repeat	-1319.0	NM_001285874	100163.0	Mm.22116	NM_133880	ENSMUSG00000037366	Pafah2	2310074E22Rik|AI507170	platelet-activating factor acetylhydrolase 2	protein-coding	5.0	6.5	11.0	85.0	14.5	13.0	11.5	4.5
Merged-chr19-60946163-4	chr19	60946075	60946275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	MLT1A|LTR|ERVL-MaLR	56426.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	136.0	124.5	159.0	2138.0	258.0	89.5	111.5	91.5
Merged-chr5-148708216-4	chr5	148708121	148708321	+	955.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-33619.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	11.0	11.0	17.5	235.5	127.0	50.5	58.0	38.5
Merged-chr2-133511639-4	chr2	133511543	133511743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40516.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	37.0	31.5	27.5	368.5	88.5	18.0	36.0	28.5
Merged-chr4-6514971-4	chr4	6514874	6515074	+	787.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60703.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	15.5	14.5	10.5	162.0	30.5	23.0	13.5	13.0
Merged-chr12-76957859-4	chr12	76957754	76957954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146176, intron 1 of 3)	intron (NM_001146176, intron 1 of 3)	4394.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	68.0	83.5	53.0	1145.0	176.0	54.5	93.0	82.0
Merged-chr11-103027847-4	chr11	103027725	103027925	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008707)	promoter-TSS (NM_008707)	-718.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	27.0	45.5	17.5	355.5	67.0	42.5	26.5	24.0
Merged-chr13-23721002-4	chr13	23720892	23721092	+	885.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_1B-I_MM-int|LTR|ERVK	-10138.0	NM_010424	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	12.0	24.0	20.0	189.0	23.5	5.5	11.0	20.5
Merged-chr15-77929033-4	chr15	77928915	77929115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019913)	promoter-TSS (NM_019913)	-21.0	NM_019913	56551.0	Mm.291917	NM_019913	ENSMUSG00000005354	Txn2	2510006J11Rik|AI788873|Trx2	thioredoxin 2	protein-coding	205.0	267.5	171.0	2281.5	465.5	180.0	200.5	196.0
Merged-chr10-89697740-3	chr10	89697643	89697843	+	897.1555789999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130956, intron 2 of 2)	intron (NR_130956, intron 2 of 2)	11380.0	NR_130956	69002.0	Mm.293947	NR_130956	ENSMUSG00000097383	1500026H17Rik	-	RIKEN cDNA 1500026H17 gene	ncRNA	25.0	17.5	30.0	492.0	9.0	1.5	4.5	1.0
Merged-chr8-79159578-4	chr8	79159459	79159659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	MLT1J|LTR|ERVL-MaLR	89024.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	26.5	35.0	50.0	1017.0	72.5	21.5	41.0	25.5
Merged-chr18-88823989-4	chr18	88823895	88824095	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70212.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	16.5	30.5	35.5	426.5	55.0	18.5	32.0	41.0
Merged-chr14-54900560-4	chr14	54900438	54900638	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6395.0	NM_019402	54196.0	Mm.7723	NM_019402	ENSMUSG00000022194	Pabpn1	PAB2|Pabp3|mPABII	poly(A) binding protein, nuclear 1	protein-coding	21.0	28.5	13.0	352.5	86.0	16.5	16.0	29.0
Merged-chr17-44103961-4	chr17	44103882	44104082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357996, intron 1 of 3)	intron (NM_001357996, intron 1 of 3)	1826.0	NM_199016	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	62.5	65.5	58.0	1050.5	181.0	51.0	53.5	60.0
Merged-chr1-151343200-4	chr1	151343104	151343304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1282.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	30.0	35.0	35.5	405.5	56.0	24.5	30.0	30.5
Merged-chr10-51480567-4	chr10	51480463	51480663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291893)	promoter-TSS (NM_001291893)	-49.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	101.5	176.0	69.5	698.0	215.5	103.0	97.0	80.0
Merged-chr16-37684888-4	chr16	37684795	37684995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30527.0	NM_026610	68194.0	Mm.379154	NM_026610	ENSMUSG00000022820	Ndufb4	0610006N12Rik|1300010H20Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 4	protein-coding	32.0	42.5	15.0	414.5	67.5	25.0	32.0	25.5
Merged-chr11-68623625-4	chr11	68623520	68623720	+	851.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36583.0	NM_177779	276920.0	Mm.123046	NM_177779	ENSMUSG00000045915	Ccdc42	A530001H01Rik	coiled-coil domain containing 42	protein-coding	10.5	13.0	4.0	106.5	19.5	15.5	12.5	25.5
Merged-chr7-47023730-4	chr7	47023612	47023812	+	941.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15298.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	8.5	24.5	3.5	210.5	38.0	11.5	22.5	10.5
Merged-chr7-145106648-3	chr7	145106547	145106747	+	884.922241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101472.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	21.5	24.5	13.5	103.0	19.5	10.5	7.5	9.0
Merged-chr5-5359467-3	chr5	5359371	5359571	+	984.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	B3A|SINE|B2	20780.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	18.5	26.0	20.0	307.5	9.0	12.5	8.5	3.0
Merged-chr9-106226390-4	chr9	106226286	106226486	+	896.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031178, exon 2 of 2)	exon (NM_031178, exon 2 of 2)	3788.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	10.5	21.0	19.0	178.0	51.0	11.5	14.5	10.0
Merged-chr12-3496292-2	chr12	3496192	3496392	+	842.666626	f1_balb.idr|f1_c57bl6.idr	exon (NM_172421, exon 10 of 11)	exon (NM_172421, exon 10 of 11)	69435.0	NM_172421	75302.0	Mm.120475	NM_172421	ENSMUSG00000037486	Asxl2	4930556B16Rik|mKIAA1685	additional sex combs like 2, transcriptional regulator	protein-coding	6.0	10.0	6.0	37.0	14.0	5.5	8.0	8.5
Merged-chr16-36724359-4	chr16	36724257	36724457	+	898.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 7 of 7)	intron (NM_001285788, intron 7 of 7)	30379.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	14.5	17.0	11.5	171.5	23.5	6.0	15.0	4.0
Merged-chr8-123026192-4	chr8	123026140	123026340	+	886.1062619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	B1F|SINE|Alu	16044.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	6.5	5.0	5.0	142.0	22.0	9.5	13.5	14.0
Merged-chr5-74951513-4	chr5	74951416	74951616	+	869.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045866, intron 1 of 4)	intron (NR_045866, intron 1 of 4)	2322.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	8.0	11.0	11.0	357.5	31.5	12.5	26.5	18.0
Merged-chr9-71592332-2	chr9	71592232	71592432	+	655.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033208)	promoter-TSS (NM_001033208)	28.0	NM_001033208	102371.0	Mm.27585	NM_001033208	ENSMUSG00000041361	Myzap	AA407270|AV006038|Gcom1|Gm640|Grinl1a7|Myozap	myocardial zonula adherens protein	protein-coding	4.5	5.0	4.5	23.0	7.5	0.0	0.0	1.0
Merged-chr5-122649495-3	chr5	122649408	122649608	+	896.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284402)	promoter-TSS (NM_001284402)	-916.0	NM_001284402	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	24.5	19.5	19.0	245.5	9.5	5.5	1.0	1.0
Merged-chr10-99261882-5	chr10	99261803	99262003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1328.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	45.0	90.5	40.0	683.0	107.0	43.0	38.0	44.5
Merged-chr1-43934768-3	chr1	43934649	43934849	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009418, intron 1 of 29)	intron (NM_009418, intron 1 of 29)	755.0	NM_009418	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	11.0	18.5	9.0	87.5	30.5	16.0	2.5	8.0
Merged-chr15-36152128-3	chr15	36152037	36152237	+	732.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081253, exon 4 of 5)	exon (NM_001081253, exon 4 of 5)	-11737.0	NM_001195748	626596.0	Mm.321798	NM_001195748	ENSMUSG00000037627	Rgs22	-	regulator of G-protein signalling 22	protein-coding	6.0	11.0	10.5	95.5	8.5	2.0	4.0	14.5
Merged-chr16-32914217-4	chr16	32914082	32914282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310674)	promoter-TSS (NM_001310674)	82.0	NM_001310672	70144.0	Mm.491178	NM_001081255	ENSMUSG00000022801	Lrch3	2210409B11Rik|AW215594|Gm1742	leucine-rich repeats and calponin homology (CH) domain containing 3	protein-coding	65.0	86.5	66.0	745.0	93.0	39.0	23.0	31.0
Merged-chr10-59887560-4	chr10	59887411	59887611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019965, intron 1 of 8)	ID4|SINE|ID	7920.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	32.5	46.0	32.5	367.0	59.0	28.0	23.5	28.0
Merged-chr4-119415570-4	chr4	119415457	119415657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001270435)	promoter-TSS (NM_001270435)	-36.0	NM_029286	73332.0	Mm.425204	NM_028506	ENSMUSG00000028637	Ccdc30	1700001O02Rik|1700041C02Rik|1700111D19Rik|4930445I03Rik	coiled-coil domain containing 30	protein-coding	25.5	72.0	27.0	923.0	134.0	37.5	84.5	72.5
Merged-chr6-71224514-4	chr6	71224423	71224623	+	949.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160127, intron 6 of 9)	intron (NM_001160127, intron 6 of 9)	24644.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	10.0	24.0	40.5	433.0	34.5	12.5	15.0	31.0
Merged-chr1-149911277-4	chr1	149911174	149911374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 3 of 17)	intron (NM_008869, intron 3 of 17)	11165.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	73.5	75.0	54.0	1399.5	147.5	55.5	94.5	73.0
Merged-chr15-55306499-4	chr15	55306399	55306599	+	873.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1251.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	23.5	10.5	11.5	186.0	24.0	14.5	15.5	19.5
Merged-chr4-155216863-4	chr4	155216753	155216953	+	791.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	5682.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	4.5	15.0	10.5	110.0	23.5	5.5	7.5	17.5
Merged-chr11-89303525-2	chr11	89303426	89303626	+	711.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008711)	promoter-TSS (NM_008711)	-967.0	NM_008711	18121.0	Mm.135266	NM_008711	ENSMUSG00000048616	Nog	-	noggin	protein-coding	5.5	4.5	8.5	39.5	16.0	3.5	6.0	5.5
Merged-chr16-52056852-3	chr16	52056717	52056917	+	683.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	25268.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	12.5	9.0	10.5	154.5	17.5	12.0	6.5	4.5
Merged-chr7-16046183-4	chr7	16046074	16046274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25671.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	49.5	53.0	39.5	745.5	106.0	30.5	51.5	31.5
Merged-chr13-34250867-4	chr13	34250768	34250968	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	87904.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	13.5	22.0	22.5	400.5	48.5	12.5	20.0	22.5
Merged-chr8-57488617-4	chr8	57488507	57488707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021788)	promoter-TSS (NM_021788)	644.0	NR_126555	78353.0	Mm.426240	NR_126553	ENSMUSG00000096917	2500002B13Rik	-	RIKEN cDNA 2500002B13 gene	ncRNA	61.5	95.5	47.0	766.0	142.5	47.0	54.5	46.5
Merged-chr11-102407091-1	chr11	102406991	102407191	+	1000.0	f0_balb.idr	intron (NM_026542, intron 1 of 11)	intron (NM_026542, intron 1 of 11)	426.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	7.5	22.0	9.5	198.0	28.0	15.5	12.0	17.0
Merged-chr1-40324513-4	chr1	40324428	40324628	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133193)	promoter-TSS (NM_133193)	-61.0	NM_001356478	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	22.5	20.0	18.0	232.5	38.5	28.5	24.5	22.0
Merged-chr1-170967704-4	chr1	170967602	170967802	+	889.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077189, intron 3 of 7)	intron (NM_001077189, intron 3 of 7)	8369.0	NM_010187	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	9.0	34.0	23.0	275.5	28.0	10.0	9.5	14.0
Merged-chr16-20412146-4	chr16	20412055	20412255	+	870.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 2 of 6)	intron (NM_176839, intron 2 of 6)	14239.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	11.0	7.0	4.5	180.0	54.5	15.0	13.0	15.0
Merged-chr11-29570931-3	chr11	29570834	29571034	+	784.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163521, intron 9 of 11)	RLTR20C2_MM|LTR|ERVK	-22894.0	NM_001033865	78294.0	Mm.180003	NM_024277	ENSMUSG00000020460	Rps27a	0610006J14Rik|Uba52|Ubb|Ubc	ribosomal protein S27A	protein-coding	9.5	7.0	8.0	138.5	21.0	8.0	8.0	5.0
Merged-chr11-3195757-4	chr11	3195644	3195844	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2281.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	21.5	20.5	21.5	240.5	55.0	36.0	19.5	46.5
Merged-chr5-49472774-4	chr5	49472672	49472872	+	646.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-187113.0	NM_001199244	80334.0	Mm.160172	NM_030265	ENSMUSG00000029088	Kcnip4	AV032399|Calp|Calp250|KChIP4|KChIP4a	Kv channel interacting protein 4	protein-coding	24.5	9.5	11.5	81.0	15.5	7.0	15.5	11.5
Merged-chr9-40974233-4	chr9	40974135	40974335	+	964.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019465, intron 9 of 9)	MTEa|LTR|ERVL-MaLR	-9682.0	NM_001357359	70989.0	Mm.335087	NM_001081121	ENSMUSG00000032023	Jhy	4931429I11Rik|BB239335	junctional cadherin complex regulator	protein-coding	16.0	39.0	26.0	471.5	68.0	18.5	39.5	15.0
Merged-chr6-125604360-7	chr6	125604233	125604433	+	822.1904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011708, exon 15 of 52)	exon (NM_011708, exon 15 of 52)	51385.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	0.5	1.0	4.0	26.0	7.5	6.5	8.0	8.0
Merged-chr4-32251183-4	chr4	32251085	32251285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-166250.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	192.5	269.5	318.5	3639.5	330.0	127.0	182.5	119.0
Merged-chr10-96188338-4	chr10	96188278	96188478	+	923.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37829.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	14.5	19.0	6.0	140.5	27.5	15.5	11.0	6.0
Merged-chr6-135170039-3	chr6	135169944	135170144	+	649.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1829.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	7.0	7.0	15.5	121.5	4.5	2.0	2.0	3.0
Merged-chr10-93124352-5	chr10	93124199	93124399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36577.0	NM_146239	237459.0	Mm.217404	NM_146239	ENSMUSG00000020015	Cdk17	6430598J10Rik|Pctk2	cyclin-dependent kinase 17	protein-coding	30.5	61.5	29.0	405.5	114.0	53.0	31.5	60.0
Merged-chr9-95689169-1	chr9	95689069	95689269	+	739.0	f0_balb.idr	intron (NM_029620, intron 6 of 8)	intron (NM_029620, intron 6 of 8)	51541.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	1.5	4.0	8.0	118.5	9.5	5.5	5.0	4.5
Merged-chr1-55029012-4	chr1	55028924	55029124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-1546.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	95.5	113.0	96.5	1669.5	227.0	69.5	110.0	90.5
Merged-chr1-43445888-8	chr1	43445801	43446001	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010879, exon 1 of 5)	5' UTR (NM_010879, exon 1 of 5)	150.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	14.5	10.5	19.5	127.5	43.5	14.0	17.5	14.0
Merged-chr4-145286934-4	chr4	145286840	145287040	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009401, intron 8 of 12)	intron (NM_009401, intron 8 of 12)	28207.0	NM_009401	21941.0	Mm.12810	NM_009401	ENSMUSG00000028602	Tnfrsf8	Cd30|D1S166E|Ki|Ki-1	tumor necrosis factor receptor superfamily, member 8	protein-coding	26.5	20.5	7.5	283.5	70.5	24.0	20.5	41.0
Merged-chr9-100456491-4	chr9	100456382	100456582	+	902.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	29991.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	31.0	47.5	30.5	239.5	28.0	12.0	14.0	4.5
Merged-chr3-84647781-4	chr3	84647672	84647872	+	952.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18420.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	8.0	27.0	14.0	235.0	32.5	8.0	26.5	16.5
Merged-chr1-43447824-4	chr1	43447721	43447921	+	808.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	2070.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	9.0	10.0	8.0	92.5	24.5	8.5	11.0	11.5
Merged-chr12-117845161-3	chr12	117845082	117845282	+	745.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146040, intron 1 of 9)	ID_B1|SINE|B4	1321.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	2.5	4.0	7.5	76.0	7.5	5.0	4.5	7.0
Merged-chr1-183623480-4	chr1	183623412	183623612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-125465.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	27.0	20.5	35.5	913.0	95.0	21.5	35.5	53.0
Merged-chr19-6477189-3	chr19	6477096	6477296	+	721.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 9 of 22)	intron (NM_001205234, intron 9 of 22)	58458.0	NM_001205234	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	7.5	10.5	3.0	156.5	23.5	5.0	8.0	18.0
Merged-chr19-30032448-4	chr19	30032352	30032552	+	830.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144873, intron 1 of 15)	intron (NM_144873, intron 1 of 15)	1939.0	NM_144873	109113.0	Mm.313364	NM_144873	ENSMUSG00000024817	Uhrf2	2310065A22Rik|AI426270|AW214556|D130071B19Rik|Nirf	ubiquitin-like, containing PHD and RING finger domains 2	protein-coding	10.0	16.5	16.5	71.0	28.0	8.5	6.5	10.0
Merged-chr11-69980695-4	chr11	69980604	69980804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026017)	promoter-TSS (NM_026017)	-374.0	NM_001253700	54351.0	Mm.13430	NM_018740	ENSMUSG00000018565	Elp5	Derp6|Rai12	elongator acetyltransferase complex subunit 5	protein-coding	116.0	216.5	92.5	1368.0	332.0	153.5	117.0	148.0
Merged-chr3-52257993-4	chr3	52257899	52258099	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10338.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	19.0	83.0	20.0	298.5	49.0	14.5	15.0	7.5
Merged-chr12-26342363-1	chr12	26342263	26342463	+	641.75	f0_balb.idr	intron (NM_080563, intron 2 of 8)	intron (NM_080563, intron 2 of 8)	-4347.0	NR_130981	75243.0	Mm.444753	NR_130981	ENSMUSG00000114048	4930549C15Rik	-	RIKEN cDNA 4930549C15 gene	ncRNA	7.0	12.5	15.5	75.0	3.0	1.0	0.0	2.0
Merged-chr8-33698316-2	chr8	33698227	33698427	+	679.25	f0_c57.idr|f1_c57bl6.idr	TTS (NM_010344)	TTS (NM_010344)	-33587.0	NM_001167921	68153.0	Mm.286104	NM_026584	ENSMUSG00000031585	Gtf2e2	34kDa|AI462509|C330006J08Rik	general transcription factor II E, polypeptide 2 (beta subunit)	protein-coding	1.0	0.0	0.0	10.0	28.5	5.0	10.5	23.5
Merged-chr3-103851088-4	chr3	103850936	103851136	+	946.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142960, intron 3 of 3)	intron (NM_001142960, intron 3 of 3)	-8759.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	24.0	14.5	15.5	215.0	44.5	11.0	8.5	7.0
Merged-chr10-41826715-4	chr10	41826609	41826809	+	829.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	16135.0	NM_001162908	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	15.0	16.5	17.0	147.0	25.0	4.5	10.5	13.5
Merged-chr16-45142793-4	chr16	45142709	45142909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028756, intron 6 of 6)	intron (NM_028756, intron 6 of 6)	15864.0	NM_001356453	74102.0	Mm.264984	NM_028756	ENSMUSG00000022664	Slc35a5	1010001J06Rik|AU021179|BB097433|D16Ertd450e|D730043G07Rik	solute carrier family 35, member A5	protein-coding	74.5	98.5	56.5	1081.5	122.0	40.0	42.5	26.0
Merged-chr7-35123400-6	chr7	35123218	35123418	+	844.3541869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4025.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	16.5	6.5	5.0	75.5	9.5	3.5	3.0	6.0
Merged-chr15-94680854-4	chr15	94680746	94680946	+	955.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178789, intron 2 of 7)	RMER1A|Other|Other	51661.0	NM_178789	320709.0	Mm.74873	NM_178789	ENSMUSG00000063296	Tmem117	B930062P21Rik	transmembrane protein 117	protein-coding	9.5	11.0	18.5	271.5	63.0	31.0	31.0	31.5
Merged-chr11-3456513-4	chr11	3456402	3456602	+	761.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028317, intron 1 of 3)	B3|SINE|B2	-3546.0	NM_001290473	193670.0	Mm.136973	NM_145355	ENSMUSG00000020448	Rnf185	-	ring finger protein 185	protein-coding	7.5	14.0	4.0	71.0	32.5	5.0	9.5	5.0
Merged-chr3-146118229-4	chr3	146118132	146118332	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3559.0	NM_134160	171166.0	Mm.114683	NM_134160	ENSMUSG00000036853	Mcoln3	6720490O21Rik|TRPML3|Va	mucolipin 3	protein-coding	14.0	18.5	22.5	496.5	80.0	25.5	24.0	33.0
Merged-chr4-128610190-4	chr4	128610092	128610292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177758)	promoter-TSS (NM_177758)	-94.0	NM_177758	269585.0	Mm.153291	NM_177758	ENSMUSG00000061894	Zscan20	C130001F22|Zfp31|Zkscan20	zinc finger and SCAN domains 20	protein-coding	160.0	239.5	126.0	1770.0	359.5	152.0	164.5	136.0
Merged-chr11-72866689-4	chr11	72866581	72866781	+	656.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001045536, exon 24 of 55)	exon (NM_001045536, exon 24 of 55)	70455.0	NM_001045536	195018.0	Mm.272030	NM_001045536	ENSMUSG00000055670	Zzef1	8430405D05Rik|BC051585|C130099L13Rik|C85424|NSPA|mKIAA0399	zinc finger, ZZ-type with EF hand domain 1	protein-coding	5.0	7.0	6.5	127.5	12.0	5.0	15.0	17.0
Merged-chr4-127250138-4	chr4	127250023	127250223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6339.0	NM_030252	80284.0	Mm.139607	NM_030252	ENSMUSG00000042380	Smim12	BC003266	small integral membrane protein 12	protein-coding	23.5	45.0	22.5	302.5	120.5	29.5	40.0	23.0
Merged-chr4-136141166-3	chr4	136141068	136141268	+	934.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2654.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	9.5	12.0	11.5	184.0	8.5	8.0	9.5	9.0
Merged-chr7-101296827-4	chr7	101296757	101296957	+	921.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001111111, exon 5 of 18)	exon (NM_001111111, exon 5 of 18)	5231.0	NM_001111111	73683.0	Mm.275744	NM_001111111	ENSMUSG00000047767	Atg16l2	2410118P20Rik	autophagy related 16-like 2 (S. cerevisiae)	protein-coding	12.5	28.5	10.0	221.5	46.0	15.0	13.0	17.0
Merged-chr15-39817206-4	chr15	39817122	39817322	+	981.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164466, intron 7 of 9)	intron (NM_001164466, intron 7 of 9)	20177.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	22.5	19.5	22.5	231.0	51.0	19.0	29.0	16.0
Merged-chr11-115071126-3	chr11	115071031	115071231	+	929.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-9092.0	NM_172050	217306.0	Mm.222667	NM_172050	ENSMUSG00000048498	Cd300e	BC034097|CLM2|Cd300le|TREM5	CD300E molecule	protein-coding	5.5	11.0	3.5	176.0	25.5	5.5	5.5	5.0
Merged-chr17-26781533-2	chr17	26781433	26781633	+	842.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_172149, intron 1 of 5)	intron (NM_172149, intron 1 of 5)	454.0	NM_172149	224630.0	Mm.21795	NM_172149	ENSMUSG00000024191	Bnip1	2010005M06Rik|5930429G21Rik|Sec20	BCL2/adenovirus E1B interacting protein 1	protein-coding	7.0	15.5	8.5	50.0	13.0	5.0	4.5	4.5
Merged-chr17-71662791-4	chr17	71662712	71662912	+	944.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10449.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	17.5	39.5	11.0	215.0	34.0	14.5	17.5	11.0
Merged-chr18-84293719-4	chr18	84293605	84293805	+	926.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	205547.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	11.5	19.0	16.5	175.0	32.0	14.5	15.5	17.0
Merged-chr6-97155793-3	chr6	97155736	97155936	+	798.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081111, intron 16 of 16)	B1_Mus1|SINE|Alu	-6953.0	NM_175313	101351.0	Mm.116802	NM_175313	ENSMUSG00000035245	Eogt	A130022J15Rik|AI447490|AW214473|AW259391|Aer61	EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase	protein-coding	6.0	6.0	9.0	64.0	11.5	1.5	4.0	4.0
Merged-chr5-3502279-2	chr5	3502179	3502379	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-41554.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	13.0	39.5	13.5	167.5	50.5	23.5	11.0	19.0
Merged-chr12-118994424-4	chr12	118994367	118994567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28046.0	NM_029961	77706.0	Mm.261496	NM_029961	ENSMUSG00000072791	Abcb5	9230106F14Rik	ATP-binding cassette, sub-family B (MDR/TAP), member 5	protein-coding	24.5	32.5	36.0	458.0	105.5	26.0	43.5	25.0
Merged-chr13-103869091-3	chr13	103868981	103869181	+	716.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 4 of 26)	intron (NM_001005868, intron 4 of 26)	51505.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	5.0	7.0	4.5	160.5	30.5	12.0	8.5	5.5
Merged-chr14-76503286-3	chr14	76503195	76503395	+	900.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310647)	promoter-TSS (NM_001310647)	-931.0	NM_001310647	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	11.5	12.0	0.5	145.5	28.0	7.0	6.5	10.5
Merged-chr12-51718807-4	chr12	51718704	51718904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329698, intron 2 of 5)	intron (NM_001329698, intron 2 of 5)	-26890.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	66.0	80.0	76.5	1310.5	93.0	29.5	39.0	62.0
Merged-chr17-35051381-4	chr17	35051261	35051461	+	851.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033444, intron 1 of 5)	intron (NM_033444, intron 1 of 5)	1118.0	NM_033444	114584.0	Mm.29524	NM_033444	ENSMUSG00000007041	Clic1	Clcp|G6	chloride intracellular channel 1	protein-coding	15.0	18.0	12.5	88.5	49.5	13.0	15.0	14.5
Merged-chr13-52658646-3	chr13	52658554	52658754	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61772.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	9.0	23.0	7.0	90.0	19.0	22.0	12.5	5.5
Merged-chr3-142590607-4	chr3	142590457	142590657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-4290.0	NM_010259	14468.0	Mm.457978	NM_010259	ENSMUSG00000040264	Gbp2b	Gbp-1|Gbp1|Mag-1|Mpa-1|Mpa1	guanylate binding protein 2b	protein-coding	86.0	127.5	97.0	1198.5	148.0	48.0	63.5	54.0
Merged-chr3-87961035-4	chr3	87960940	87961140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10053.0	NM_016701	18008.0	Mm.331129	NM_016701	ENSMUSG00000004891	Nes	AA166324|C78523|ESTM46|Ifaprc2|Marc2|RC2	nestin	protein-coding	43.5	66.0	56.0	636.0	83.0	35.5	44.5	31.0
Merged-chr2-117146792-4	chr2	117146661	117146861	+	782.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277256, intron 1 of 4)	intron (NM_001277256, intron 1 of 4)	25690.0	NM_033524	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	8.0	6.0	15.0	185.0	16.0	5.0	7.0	12.0
Merged-chr18-55209204-4	chr18	55209093	55209293	+	966.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	-216602.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	22.5	16.0	15.0	420.5	61.0	23.0	19.5	18.5
Merged-chr3-30599772-3	chr3	30599660	30599860	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029690, exon 1 of 2)	exon (NM_029690, exon 1 of 2)	110.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	11.0	8.0	7.0	121.0	10.5	4.5	4.5	12.0
Merged-chr4-70412263-4	chr4	70412194	70412394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1859.0	NM_145990	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	161.0	161.5	175.0	2539.5	501.5	178.5	231.5	244.5
Merged-chr19-7020299-4	chr19	7020158	7020358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153795)	promoter-TSS (NM_153795)	-789.0	NM_001362399	108101.0	Mm.157591	NM_153795	ENSMUSG00000024965	Fermt3	C79673|Kindlin3	fermitin family member 3	protein-coding	70.0	107.5	81.0	1389.5	160.0	44.5	94.5	90.5
Merged-chr1-157076400-4	chr1	157076277	157076477	+	831.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32273.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	6.0	7.0	5.5	99.5	17.0	9.5	14.0	12.5
Merged-chr5-3348145-4	chr5	3348041	3348241	+	802.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	4248.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	6.5	20.0	13.0	26.5	28.0	13.0	6.5	0.5
Merged-chr4-132747815-4	chr4	132747710	132747910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133888, intron 1 of 7)	intron (NM_133888, intron 1 of 7)	9361.0	NM_133888	100340.0	Mm.287187	NM_133888	ENSMUSG00000028885	Smpdl3b	1110054A24Rik|AU045240|Asml3b	sphingomyelin phosphodiesterase, acid-like 3B	protein-coding	128.0	151.0	92.5	1284.5	263.5	86.5	115.5	74.5
Merged-chr11-89100656-4	chr11	89100557	89100757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26816.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	41.0	61.0	13.5	341.5	85.5	31.5	60.5	27.5
Merged-chr9-120868591-3	chr9	120868488	120868688	+	936.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46662.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	15.5	14.0	11.0	177.5	9.5	3.0	4.5	7.5
Merged-chr11-79251068-4	chr11	79250958	79251158	+	917.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019653, exon 2 of 9)	exon (NM_019653, exon 2 of 9)	3637.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	8.0	23.0	14.5	235.5	27.0	13.5	6.5	12.5
Merged-chr16-57130973-4	chr16	57130879	57131079	+	826.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138599, intron 1 of 11)	intron (NM_138599, intron 1 of 11)	9265.0	NM_138599	28185.0	Mm.196933	NM_138599	ENSMUSG00000022752	Tomm70a	2610044B22Rik|D16Ium22|D16Ium22e|D16Wsu109e|Tom70|Tomm70|mKIAA0719	translocase of outer mitochondrial membrane 70A	protein-coding	6.0	9.0	5.0	160.5	35.0	2.5	11.0	6.0
Merged-chr1-155425978-4	chr1	155425878	155426078	+	836.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8534.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	11.0	6.0	1.0	147.5	25.5	8.5	9.5	5.5
Merged-chr8-123342483-3	chr8	123342387	123342587	+	796.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172287, intron 1 of 14)	intron (NM_172287, intron 1 of 14)	9774.0	NM_172287	234857.0	Mm.150200	NM_172287	ENSMUSG00000010154	Spire2	BC026502|Spir-2|Spir2	spire type actin nucleation factor 2	protein-coding	5.0	7.0	7.0	81.5	16.5	2.0	13.0	7.5
Merged-chr11-63898901-4	chr11	63898772	63898972	+	920.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018805, intron 1 of 1)	intron (NM_018805, intron 1 of 1)	23412.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	8.5	15.0	11.0	152.5	45.5	10.5	19.5	15.5
Merged-chr12-71016613-4	chr12	71016498	71016698	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045055)	promoter-TSS (NR_045055)	631.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	20.5	21.5	21.0	213.5	41.5	19.0	10.5	5.0
Merged-chr11-118449250-4	chr11	118449117	118449317	+	875.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001204129, exon 4 of 4)	3' UTR (NM_001204129, exon 4 of 4)	5683.0	NM_001204130	56745.0	Mm.23845	NM_019959	ENSMUSG00000017446	C1qtnf1	1600017K21Rik|CTRP1|Zsig37	C1q and tumor necrosis factor related protein 1	protein-coding	11.0	12.5	14.0	124.5	29.5	7.5	15.0	7.0
Merged-chr11-3169639-2	chr11	3169550	3169750	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 7 of 32)	MTC|LTR|ERVL-MaLR	23813.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	45.0	24.0	32.0	452.0	4.0	1.0	0.0	1.5
Merged-chr18-52956658-4	chr18	52956559	52956759	+	854.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	188515.0	NM_001199154	67847.0	Mm.292168	NM_026408	ENSMUSG00000024534	Sncaip	2810407O15Rik|4933427B05Rik|BB104594|SYPH1	synuclein, alpha interacting protein (synphilin)	protein-coding	5.5	13.0	5.0	110.0	36.5	14.0	16.0	22.0
Merged-chr7-126475315-8	chr7	126475213	126475413	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289541)	promoter-TSS (NM_001289541)	-183.0	NM_011363	20399.0	Mm.8538	NM_011363	ENSMUSG00000030733	Sh2b1	AI425885|C530001K22Rik|Irip|Psm|SH2-B|SH2-Bb|Sh2bpsm1|mKIAA1299	SH2B adaptor protein 1	protein-coding	13.0	15.0	14.5	95.5	24.0	10.5	14.5	6.5
Merged-chr10-117320761-4	chr10	117320694	117320894	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27926.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	22.0	38.0	19.0	148.5	51.0	20.5	11.5	8.5
Merged-chr12-55652941-3	chr12	55652840	55653040	+	863.8444210000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003719, intron 36 of 39)	intron (NM_001003719, intron 36 of 39)	54023.0	NM_020287	56856.0	Mm.114886	NM_020287	ENSMUSG00000045440	Insm2	Mlt1	insulinoma-associated 2	protein-coding	16.0	22.5	18.5	417.0	25.5	3.0	9.0	18.5
Merged-chr16-23991343-4	chr16	23991232	23991432	+	844.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2480.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	13.5	24.5	2.0	114.5	40.5	13.5	13.5	10.5
Merged-chr5-5320346-4	chr5	5320256	5320456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	-54288.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	28.0	34.0	31.5	457.0	182.5	36.0	61.5	41.0
Merged-chr4-53108447-4	chr4	53108347	53108547	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 6 of 49)	intron (NM_013454, intron 6 of 49)	51448.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	15.0	26.0	42.5	518.5	26.0	13.5	16.5	17.5
Merged-chr10-20531893-3	chr10	20531771	20531971	+	845.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	intron (NM_013875, intron 2 of 12)	16457.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	6.0	5.0	8.0	133.0	13.0	6.5	13.0	6.0
Merged-chr19-9135652-4	chr19	9135550	9135750	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025610)	promoter-TSS (NM_025610)	-84.0	NM_025610	66514.0	Mm.272847	NM_025610	ENSMUSG00000024654	Asrgl1	2410004D18Rik|ALP|ALP1|AU040643|AW060375	asparaginase like 1	protein-coding	43.0	65.0	30.5	711.5	91.0	16.0	30.5	19.0
Merged-chr9-107675905-3	chr9	107675809	107676009	+	786.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008140, exon 8 of 9)	exon (NM_008140, exon 8 of 9)	3683.0	NM_008140	14685.0	Mm.284853	NM_008140	ENSMUSG00000034837	Gnat1	Gnat-1|Ird1|Ird2|Tralpha|irdc|irdr|transducin	guanine nucleotide binding protein, alpha transducing 1	protein-coding	9.5	10.5	7.0	78.0	10.5	2.5	4.5	7.5
Merged-chr10-40136188-4	chr10	40136082	40136282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	6072.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	67.0	117.0	61.0	993.5	125.0	59.5	72.5	73.0
Merged-chr17-31291071-4	chr17	31290962	31291162	+	972.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4421.0	NM_153062	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	34.5	20.5	38.0	324.5	41.5	12.0	22.0	16.0
Merged-chr18-35117062-4	chr18	35116966	35117166	+	950.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1846.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	17.0	19.0	22.5	368.5	40.0	10.0	15.0	17.0
Merged-chr17-15804581-4	chr17	15804417	15804617	+	966.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22069.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	19.5	19.5	22.5	190.0	31.5	8.0	9.5	17.0
Merged-chr11-26602368-2	chr11	26602265	26602465	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-8445.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	12.5	35.0	24.0	284.0	66.0	25.5	26.5	28.0
Merged-chr3-36613419-4	chr3	36613308	36613508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027810)	promoter-TSS (NM_027810)	-19.0	NM_027810	71492.0	Mm.286187	NM_027810	ENSMUSG00000037325	Bbs7	8430406N16Rik	Bardet-Biedl syndrome 7 (human)	protein-coding	155.5	217.0	151.0	2636.5	282.0	102.5	171.0	98.5
Merged-chr10-79681920-4	chr10	79681829	79682029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177613)	promoter-TSS (NM_177613)	-266.0	NM_001359818	216150.0	Mm.21981	NM_177613	ENSMUSG00000020307	Cdc34	AI327276|E2-CDC34|UBE2R1	cell division cycle 34	protein-coding	216.5	423.0	267.0	2822.0	633.0	296.0	276.5	191.5
Merged-chr5-53872152-3	chr5	53872037	53872237	+	805.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144517, intron 13 of 20)	intron (NM_144517, intron 13 of 20)	62510.0	NM_144517	67249.0	Mm.28823	NM_144517	ENSMUSG00000039178	Tbc1d19	2810453K03Rik	TBC1 domain family, member 19	protein-coding	12.5	7.5	11.5	182.0	12.0	4.5	9.5	4.0
Merged-chr5-77252251-4	chr5	77252086	77252286	+	633.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13308.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	0.5	4.0	4.0	35.0	14.5	5.5	6.0	6.0
Merged-chr11-95824335-4	chr11	95824236	95824436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153104)	promoter-TSS (NM_153104)	-164.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	152.0	301.0	173.5	1939.0	311.5	147.0	121.0	169.5
Merged-chr9-107985869-4	chr9	107985789	107985989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026597)	promoter-TSS (NM_026597)	27.0	NM_026597	68176.0	Mm.76166	NM_026597	ENSMUSG00000042106	Fam212a	6230427J02Rik|Inka1	family with sequence similarity 212, member A	protein-coding	31.5	36.0	37.0	406.5	59.5	28.5	28.0	28.5
Merged-chr1-149961656-4	chr1	149961573	149961773	+	986.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008869)	promoter-TSS (NM_008869)	-383.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	29.0	21.5	17.5	148.0	40.0	7.5	25.5	20.5
Merged-chr4-55812946-4	chr4	55812796	55812996	+	929.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-280421.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	6.0	6.5	12.0	258.0	18.5	6.0	7.0	11.5
Merged-chr9-70942802-4	chr9	70942692	70942892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324472, intron 1 of 9)	intron (NM_001324472, intron 1 of 9)	-7984.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	115.5	166.5	74.0	785.0	221.5	79.5	95.5	57.0
Merged-chr3-87332200-4	chr3	87332062	87332262	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B2|LTR|ERVK	-25719.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	10.5	24.5	36.5	264.5	62.0	12.5	17.0	14.5
Merged-chr14-75131088-4	chr14	75130995	75131195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027581)	promoter-TSS (NM_027581)	-28.0	NM_001247984	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	97.5	159.5	66.0	1171.0	297.0	95.0	110.5	73.0
Merged-chr1-153549630-4	chr1	153549487	153549687	+	977.5476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 1 of 11)	CpG	127.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	6.5	8.5	17.0	45.0	15.0	6.0	3.5	3.0
Merged-chr5-150840815-4	chr5	150840709	150840909	+	957.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111798.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	22.5	20.5	33.0	451.0	70.5	9.0	22.0	26.5
Merged-chr14-9556000-4	chr14	9555848	9556048	+	770.924988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 9 of 9)	intron (NM_001360141, intron 9 of 9)	-328147.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	6.5	12.5	19.0	132.0	24.0	9.0	9.5	12.5
Merged-chr19-25006877-4	chr19	25006788	25006988	+	809.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 1 of 47)	intron (NM_028785, intron 1 of 47)	7359.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	6.5	4.0	7.0	217.5	28.5	5.5	8.0	8.5
Merged-chr2-45245686-4	chr2	45245586	45245786	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-128244.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	23.0	61.5	11.5	269.0	48.0	20.0	10.5	15.5
Merged-chr6-108065330-4	chr6	108065223	108065423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178391, intron 1 of 1)	intron (NM_178391, intron 1 of 1)	278.0	NM_178391	74729.0	Mm.56539	NM_178391	ENSMUSG00000034639	Setmar	5830404F24Rik|Etet2	SET domain without mariner transposase fusion	protein-coding	215.5	295.0	208.5	3213.0	564.0	246.5	322.5	291.5
Merged-chr13-94154683-4	chr13	94154555	94154755	+	986.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	96859.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	31.5	33.0	39.0	570.0	39.0	17.0	15.0	20.5
Merged-chr8-125720267-4	chr8	125720185	125720385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-13918.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	40.5	41.5	24.5	349.5	78.5	36.5	40.0	37.0
Merged-chr18-44607721-2	chr18	44607616	44607816	+	665.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 3 of 18)	intron (NM_001085373, intron 3 of 18)	-53949.0	NR_026853	626275.0	Mm.427116	NR_026853	ENSMUSG00000097610	A930012L18Rik	-	RIKEN cDNA A930012L18 gene	ncRNA	5.5	6.5	6.0	106.5	1.0	1.0	4.0	5.5
Merged-chr14-68695972-3	chr14	68695884	68696084	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40142.0	NM_183366	13522.0	Mm.117450	NM_010082	ENSMUSG00000014725	Adam28	C130072N01Rik|D430033C21Rik|Dtgn1|MDC-L|MDCL|TECADAM|eMDCII	a disintegrin and metallopeptidase domain 28	protein-coding	13.5	10.0	24.5	119.0	22.5	10.5	18.5	6.5
Merged-chr2-61645649-3	chr2	61645547	61645747	+	777.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149323, intron 8 of 9)	intron (NR_149323, intron 8 of 9)	52550.0	NR_149323	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	7.0	7.0	18.0	152.0	6.5	9.0	2.0	5.0
Merged-chr4-107364316-4	chr4	107364211	107364411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3473.0	NM_028355	72787.0	Mm.28478	NM_028355	ENSMUSG00000028614	Ndc1	2810475A17Rik|AI450313|Tmem48|sks	NDC1 transmembrane nucleoporin	protein-coding	50.0	49.5	28.5	453.5	58.5	41.0	31.5	27.0
Merged-chr4-131843514-4	chr4	131843427	131843627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025297)	promoter-TSS (NM_025297)	56.0	NM_025297	26922.0	Mm.192706	NM_025297	ENSMUSG00000028910	Mecr	AI195831|NRBF-1|Nrbf1	mitochondrial trans-2-enoyl-CoA reductase	protein-coding	19.0	48.0	33.5	374.0	68.5	31.0	20.5	20.0
Merged-chr7-102241844-4	chr7	102241750	102241950	+	802.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	8268.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	19.5	6.5	12.5	148.0	25.5	8.0	10.5	7.5
Merged-chr10-87696645-3	chr10	87696556	87696756	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-161609.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	4.0	8.0	3.5	38.5	165.0	67.5	101.5	84.0
Merged-chr15-103549657-4	chr15	103549546	103549746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-11654.0	NM_021391	58200.0	Mm.143788	NM_021391	ENSMUSG00000022490	Ppp1r1a	0610038N18Rik|I-1	protein phosphatase 1, regulatory (inhibitor) subunit 1A	protein-coding	29.0	36.5	39.5	465.5	77.0	24.5	39.5	35.0
Merged-chr4-133157392-4	chr4	133157288	133157488	+	939.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	26755.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	14.5	21.0	22.0	152.5	53.5	4.0	13.5	23.0
Merged-chr13-49248152-4	chr13	49248088	49248288	+	765.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360772, exon 1 of 4)	5' UTR (NM_001360772, exon 1 of 4)	106.0	NM_001360772	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	13.0	14.0	14.0	133.0	25.0	5.5	11.0	6.5
Merged-chr5-122264501-4	chr5	122264398	122264598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039153)	promoter-TSS (NM_001039153)	-38.0	NM_001039153	654470.0	Mm.28804	NM_001039153	ENSMUSG00000038593	Tctn1	G730031O11Rik|Tect1	tectonic family member 1	protein-coding	162.0	222.0	91.0	1667.5	321.5	139.5	170.0	101.0
Merged-chr15-58803099-3	chr15	58803005	58803205	+	874.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 1 of 6)	intron (NM_175212, intron 1 of 6)	20322.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	5.0	5.0	7.0	144.0	21.0	6.0	12.5	18.5
Merged-chr1-59237287-4	chr1	59237202	59237402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028717)	promoter-TSS (NM_028717)	-71.0	NM_028717	74018.0	Mm.272078	NM_028717	ENSMUSG00000026024	Als2	3222402C23Rik|9430073A21Rik|Als2cr6|Alsin|mKIAA1563	alsin Rho guanine nucleotide exchange factor	protein-coding	140.5	221.5	96.0	1538.5	420.0	161.5	140.0	151.5
Merged-chr17-24141672-4	chr17	24141573	24141773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011062)	promoter-TSS (NM_011062)	-79.0	NM_001080773	18607.0	Mm.10504	NM_011062	ENSMUSG00000024122	Pdpk1	Pdk1	3-phosphoinositide dependent protein kinase 1	protein-coding	239.0	377.5	212.0	3331.5	545.0	253.5	264.5	170.0
Merged-chr12-40223406-4	chr12	40223309	40223509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_035459)	promoter-TSS (NR_035459)	45.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	535.0	704.5	512.0	7026.5	1224.5	511.5	695.0	401.0
Merged-chr2-167760177-4	chr2	167760083	167760283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69006.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	207.5	282.0	223.5	4149.5	377.0	146.0	245.0	163.0
Merged-chr15-80798539-4	chr15	80798454	80798654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177124)	promoter-TSS (NM_177124)	-56.0	NM_177124	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	76.0	87.5	52.5	710.0	190.5	46.0	73.0	78.0
Merged-chr6-86849374-4	chr6	86849280	86849480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028298)	promoter-TSS (NR_028298)	60.0	NR_028298	67170.0	Mm.119489	NR_028298	ENSMUSG00000100164	2610306M01Rik	-	RIKEN cDNA 2610306M01 gene	ncRNA	43.5	85.5	59.0	538.5	68.5	41.5	48.0	46.0
Merged-chr3-21953077-4	chr3	21952984	21953184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123568.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	154.0	242.5	177.0	2454.5	447.0	189.0	166.0	132.5
Merged-chr9-103305155-4	chr9	103305064	103305264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176979)	promoter-TSS (NM_176979)	-163.0	NM_176979	235559.0	Mm.259893	NM_176979	ENSMUSG00000032555	Topbp1	1110031N14Rik|2810429C13Rik|AI256758|D430026L04Rik|mKIAA0259	topoisomerase (DNA) II binding protein 1	protein-coding	77.5	92.5	57.5	889.0	267.0	85.5	122.0	81.0
Merged-chr14-64624416-3	chr14	64624336	64624536	+	736.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28095.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	5.0	13.0	6.5	77.0	22.5	2.5	1.5	13.5
Merged-chr4-130789938-4	chr4	130789825	130790025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2612.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	55.5	113.0	68.5	916.0	122.0	71.5	76.5	57.0
Merged-chr4-150869943-1	chr4	150869843	150870043	+	668.0	f0_balb.idr	Intergenic	L2|LINE|L2	14873.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	10.0	10.5	10.0	149.0	7.5	4.5	7.0	3.0
Merged-chr19-40587207-4	chr19	40587097	40587297	+	969.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153554, intron 1 of 18)	intron (NM_153554, intron 1 of 18)	1266.0	NM_019698	56454.0	Mm.233117	NM_019698	ENSMUSG00000025007	Aldh18a1	2810433K04Rik|AI429789|Pycs	aldehyde dehydrogenase 18 family, member A1	protein-coding	13.5	29.5	28.0	457.0	67.5	15.5	39.5	43.5
Merged-chr16-33658950-3	chr16	33658832	33659032	+	851.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 11 of 11)	(CA)n|Simple_repeat|Simple_repeat	-25534.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	5.0	9.5	8.0	60.5	7.5	1.5	3.0	7.0
Merged-chr6-120364744-3	chr6	120364614	120364814	+	891.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045558)	promoter-TSS (NR_045558)	-345.0	NR_045558	67200.0	Mm.45767	NM_026028	ENSMUSG00000030177	Ccdc77	2400002C23Rik|2700091N06Rik|AV168274	coiled-coil domain containing 77	protein-coding	4.0	9.0	7.5	98.0	22.5	11.5	9.0	7.5
Merged-chr9-64341114-4	chr9	64341024	64341224	+	953.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177784)	promoter-TSS (NM_001177784)	133.0	NM_001001295	213550.0	Mm.268341	NM_172519	ENSMUSG00000032396	Dis3l	AV340375	DIS3 like exosome 3'-5' exoribonuclease	protein-coding	17.5	28.0	19.0	198.5	29.0	11.0	5.0	24.5
Merged-chr9-55544199-3	chr9	55544093	55544293	+	731.377747	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027397, exon 4 of 6)	exon (NM_027397, exon 4 of 6)	3044.0	NM_027397	104360.0	Mm.273996	NM_027397	ENSMUSG00000032318	Isl2	3110001N10Rik	insulin related protein 2 (islet 2)	protein-coding	10.0	6.5	12.5	86.5	11.5	4.0	3.5	14.5
Merged-chr16-76304869-4	chr16	76304774	76304974	+	837.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358238, intron 3 of 3)	intron (NM_001358238, intron 3 of 3)	68175.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	5.5	16.5	10.0	321.0	24.0	2.5	21.0	8.5
Merged-chr8-41002108-2	chr8	41002011	41002211	+	910.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001005863, intron 8 of 13)	B1F1|SINE|Alu	-15357.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	6.0	5.0	13.5	97.0	38.5	3.0	11.5	19.5
Merged-chr12-55361145-4	chr12	55361033	55361233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025373, intron 4 of 6)	intron (NM_025373, intron 4 of 6)	-23089.0	NM_001310583	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	108.0	128.0	95.0	1234.5	176.0	61.0	60.5	56.0
Merged-chr11-69795416-4	chr11	69795296	69795496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291104)	TTS (NM_001291104)	541.0	NM_009601	11443.0	Mm.86425	NM_009601	ENSMUSG00000041189	Chrnb1	Achr-2|Acrb	cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)	protein-coding	169.0	215.5	115.0	2423.5	308.5	128.0	140.0	128.5
Merged-chr1-105997484-4	chr1	105997387	105997587	+	989.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	7081.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	17.5	39.5	8.0	233.0	59.0	18.5	12.0	12.0
Merged-chr17-24193121-2	chr17	24193025	24193225	+	762.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001163851, intron 1 of 8)	intron (NM_001163851, intron 1 of 8)	6832.0	NM_001163852	224617.0	Mm.301585	NM_173186	ENSMUSG00000036473	Tbc1d24	9630033P11|C530046L02Rik|mKIAA1171	TBC1 domain family, member 24	protein-coding	2.0	1.0	0.0	76.0	40.5	22.5	15.0	17.0
Merged-chr3-97901180-4	chr3	97901092	97901292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011342)	promoter-TSS (NM_011342)	-35.0	NM_011342	20333.0	Mm.2551	NM_011342	ENSMUSG00000027879	Sec22b	4930564D15Rik|AA517334|AI480645|C81333|ERS-24|Sec22l1	SEC22 homolog B, vesicle trafficking protein	protein-coding	58.5	94.0	47.0	689.5	109.0	46.0	56.5	41.5
Merged-chr3-109027300-3	chr3	109027207	109027407	+	986.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163567, exon 1 of 11)	exon (NM_001163567, exon 1 of 11)	300.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	18.5	17.0	13.0	202.5	33.0	9.0	7.5	9.5
Merged-chr5-99342662-4	chr5	99342564	99342764	+	946.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	ORR1B1|LTR|ERVL-MaLR	-89737.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	20.5	35.0	11.5	203.0	44.0	5.5	10.0	13.5
Merged-chr13-52275810-6	chr13	52275687	52275887	+	742.311096	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	179046.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	1.0	8.0	8.5	54.5	15.0	7.5	7.5	11.5
Merged-chr16-32064126-4	chr16	32064047	32064247	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177326, intron 1 of 14)	LTR16E2|LTR|ERVL	15195.0	NM_177326	224105.0	Mm.234204	NM_177326	ENSMUSG00000022781	Pak2	5330420P17Rik|A130002K10Rik|AI836325|D16Ertd269e|PAK-2|mKIAA4182	p21 (RAC1) activated kinase 2	protein-coding	46.5	20.0	20.5	354.5	72.0	13.5	25.0	29.0
Merged-chr2-132607882-4	chr2	132607773	132607973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 2 of 3)	intron (NR_033469, intron 2 of 3)	9677.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	39.0	74.5	19.0	275.0	118.5	38.5	28.5	23.0
Merged-chr4-123750362-4	chr4	123750269	123750469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023423)	promoter-TSS (NM_023423)	-70.0	NM_023423	68050.0	Mm.27903	NM_023423	ENSMUSG00000023075	Akirin1	6330407G11Rik	akirin 1	protein-coding	193.5	265.5	120.5	1966.5	376.5	152.0	160.5	186.0
Merged-chr18-79994462-1	chr18	79994362	79994562	+	747.0	f1_balb.idr	Intergenic	L1_Mus2|LINE|L1	-52433.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	7.5	9.5	8.0	29.0	6.5	1.0	2.0	7.0
Merged-chr1-60916358-4	chr1	60916255	60916455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001281976)	TTS (NM_001281976)	7330.0	NM_001281976	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	33.5	47.0	23.5	566.0	86.0	31.5	32.5	28.5
Merged-chr4-139161243-4	chr4	139161131	139161331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	19424.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	44.5	57.5	22.0	450.5	129.5	28.5	57.5	33.0
Merged-chr2-32586997-4	chr2	32586918	32587118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276425)	promoter-TSS (NM_001276425)	-60.0	NM_001276425	20448.0	Mm.27446	NM_011373	ENSMUSG00000079442	St6galnac4	SIAT7-D|ST6GalNAcIV|Siat7d	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4	protein-coding	217.5	308.0	212.0	2819.0	491.0	201.0	215.5	177.5
Merged-chr2-59160757-4	chr2	59160653	59160853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026361)	promoter-TSS (NM_026361)	-70.0	NM_001362394	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	170.5	235.0	183.0	3155.5	383.0	133.5	233.5	164.5
Merged-chr2-75792577-4	chr2	75792463	75792663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39614.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	88.0	128.0	86.5	1273.0	250.5	94.0	124.5	117.5
Merged-chr4-114652589-4	chr4	114652495	114652695	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-169125.0	NR_033617	433746.0	Mm.388908	NR_033617	ENSMUSG00000055198	Gm12830	-	predicted gene 12830	ncRNA	14.0	19.0	15.0	191.5	42.5	21.5	26.0	15.5
Merged-chr16-20733079-2	chr16	20732979	20733179	+	871.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009893)	promoter-TSS (NM_009893)	-48.0	NM_001354996	12667.0	Mm.20457	NM_009893	ENSMUSG00000006958	Chrd	Chd	chordin	protein-coding	7.0	7.0	5.0	60.5	15.0	4.0	6.5	4.5
Merged-chr15-64057163-4	chr15	64057082	64057282	+	999.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	2582.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	33.5	24.0	27.5	387.5	40.0	10.5	13.0	23.5
Merged-chr1-151285304-4	chr1	151285207	151285407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59179.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	36.5	98.0	47.0	725.0	110.0	34.5	42.0	35.0
Merged-chr4-105225801-4	chr4	105225705	105225905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 5 of 5)	L2c|LINE|L2	68458.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	70.0	165.0	109.0	1522.0	287.0	111.0	141.0	98.5
Merged-chr8-83141043-4	chr8	83140931	83141131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24321.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	54.5	49.5	41.5	909.5	78.0	22.0	30.5	35.0
Merged-chr10-125270417-4	chr10	125270326	125270526	+	878.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	intron (NM_001358496, intron 3 of 5)	38390.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	22.5	19.5	12.5	306.0	25.5	9.0	9.5	22.0
Merged-chr19-3537897-4	chr19	3537798	3537998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164159, intron 1 of 21)	intron (NM_001164159, intron 1 of 21)	37851.0	NM_001360430	52036.0	Mm.284686	NM_028999	ENSMUSG00000024908	Ppp6r3	4930528G08Rik|9130026N02Rik|D19Bwg1430e|D19Ertd703e|Pp6r3|Ppcs3|Pptcs3|Sapl|Saps3|mKIAA1558	protein phosphatase 6, regulatory subunit 3	protein-coding	31.5	32.5	36.5	633.0	55.0	26.5	28.5	26.5
Merged-chr12-54795741-4	chr12	54795656	54795856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026998)	promoter-TSS (NM_026998)	-94.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	39.5	48.0	57.0	778.5	121.0	34.0	42.0	39.0
Merged-chr8-3493152-4	chr8	3493061	3493261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080461)	promoter-TSS (NM_080461)	23.0	NM_080461	140482.0	Mm.299073	NM_080461	ENSMUSG00000047264	Zfp358	Zfend	zinc finger protein 358	protein-coding	38.5	51.5	54.0	740.0	78.0	27.5	57.0	45.0
Merged-chr1-58423567-2	chr1	58423472	58423672	+	997.5	f0_balb.idr|f0_c57.idr	intron (NM_001042634, intron 1 of 12)	CpG	516.0	NR_027854	12747.0	Mm.1761	NM_009905	ENSMUSG00000026034	Clk1	STY	CDC-like kinase 1	protein-coding	17.5	53.0	27.5	182.0	57.5	22.5	14.0	22.0
Merged-chr15-31601003-2	chr15	31600903	31601103	+	991.6999509999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_007637, intron 1 of 10)	intron (NM_007637, intron 1 of 10)	536.0	NM_001348035	12465.0	Mm.282158	NM_007637	ENSMUSG00000022234	Cct5	CCT-epsilon|Ccte|TCP-1-epsilon|TCPE|mKIAA0098	chaperonin containing Tcp1, subunit 5 (epsilon)	protein-coding	5.0	6.0	5.0	40.0	9.0	2.5	3.5	5.5
Merged-chr2-103832120-4	chr2	103832024	103832224	+	915.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-21502.0	NR_040514	78031.0	Mm.243867	NR_040514	ENSMUSG00000086687	4930547E08Rik	-	RIKEN cDNA 4930547E08 gene	ncRNA	14.5	47.0	26.0	72.0	30.5	17.0	12.0	9.5
Merged-chr13-45512680-4	chr13	45512561	45512761	+	813.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025508, intron 1 of 8)	intron (NM_025508, intron 1 of 8)	5217.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	9.5	26.5	22.0	286.0	14.0	3.0	16.0	10.5
Merged-chr2-24311913-4	chr2	24311833	24312033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	X7A_LINE|LINE|CR1	20737.0	NM_153077	215274.0	Mm.218750	NM_153077	ENSMUSG00000046845	Il1f10	-	interleukin 1 family, member 10	protein-coding	46.0	41.5	44.0	715.0	106.0	29.5	53.0	54.5
Merged-chr8-41133635-5	chr8	41133460	41133660	+	877.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001005863, exon 1 of 14)	5' UTR (NM_001005863, exon 1 of 14)	166.0	NM_001005863	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	10.5	3.5	15.5	114.0	16.0	8.5	13.0	22.0
Merged-chr7-28373401-4	chr7	28373301	28373501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083912)	promoter-TSS (NM_001083912)	-739.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	82.5	182.5	90.5	1039.5	271.5	114.5	98.5	92.0
Merged-chr11-82834629-3	chr11	82834524	82834724	+	880.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164570, intron 1 of 7)	B2_Mm1t|SINE|B2	-5581.0	NM_026097	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	8.0	15.5	6.5	39.5	27.0	8.0	5.0	16.5
Merged-chr8-80739671-4	chr8	80739566	80739766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053124)	promoter-TSS (NM_053124)	-207.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	225.0	315.5	255.5	1656.5	450.0	229.0	244.5	185.0
Merged-chr16-37868869-3	chr16	37868745	37868945	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177093, exon 1 of 4)	exon (NM_177093, exon 1 of 4)	445.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	33.0	24.0	33.0	360.0	50.0	20.0	29.0	39.5
Merged-chr6-86400234-4	chr6	86400134	86400334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67A|LTR|ERV1	-3084.0	NM_025823	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	88.5	158.0	116.0	1227.5	219.5	60.0	83.0	60.5
Merged-chr1-132054583-4	chr1	132054484	132054684	+	739.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114662, intron 3 of 9)	B3|SINE|B2	13478.0	NM_172510	213006.0	Mm.208445	NM_172510	ENSMUSG00000059149	Mfsd4a	A230072B04|A930031D07Rik|AI850289|Mfsd4	major facilitator superfamily domain containing 4A	protein-coding	7.0	21.5	7.0	139.0	25.0	3.5	11.0	10.0
Merged-chr18-89597281-3	chr18	89597173	89597373	+	718.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039173, intron 2 of 7)	Lx2|LINE|L1	171863.0	NM_001039173	623279.0	Mm.447164	NM_001039173	ENSMUSG00000073514	Dok6	Dok-6	docking protein 6	protein-coding	5.0	10.5	8.0	34.5	21.0	3.5	16.5	18.5
Merged-chr19-46041915-3	chr19	46041857	46042057	+	867.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113408, intron 1 of 10)	intron (NM_001113408, intron 1 of 10)	-2336.0	NM_010697	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	5.0	7.5	8.0	46.0	9.0	6.5	2.5	6.5
Merged-chr7-101070566-4	chr7	101070460	101070660	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38215.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	15.0	29.5	17.0	273.5	38.5	12.0	16.0	27.5
Merged-chr6-124730361-3	chr6	124730263	124730463	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077705, intron 3 of 15)	intron (NM_001077705, intron 3 of 15)	2791.0	NM_013545	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	50.5	61.5	52.5	707.5	169.0	85.5	104.0	64.0
Merged-chr10-59296464-4	chr10	59296335	59296535	+	921.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26861.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	7.5	33.5	9.5	167.5	26.5	5.0	5.5	19.0
Merged-chr5-135106849-4	chr5	135106750	135106950	+	963.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152880)	promoter-TSS (NR_152880)	-41.0	NR_152881	58805.0	Mm.34213	NM_021455	ENSMUSG00000005373	Mlxipl	ChREBP|Mlx|WS-bHLH|Wbscr14|bHLHd14	MLX interacting protein-like	protein-coding	18.5	29.0	11.5	279.0	78.5	13.0	25.0	30.0
Merged-chr15-79946192-4	chr15	79946134	79946334	+	890.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13588.0	NM_144811	52609.0	Mm.323442	NM_144811	ENSMUSG00000053411	Cbx7	1600014J01Rik|AI851678|D15Ertd417e	chromobox 7	protein-coding	14.5	24.5	9.5	114.5	29.5	18.0	19.0	12.0
Merged-chr13-93007293-4	chr13	93007188	93007388	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-66016.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	9.5	31.0	17.5	279.0	231.5	88.5	91.0	70.0
Merged-chr9-120927414-4	chr9	120927321	120927521	+	972.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040753, intron 2 of 2)	intron (NR_040753, intron 2 of 2)	3381.0	NR_040753	78060.0	Mm.463884	NR_040753	ENSMUSG00000086365	4930593C16Rik	-	RIKEN cDNA 4930593C16 gene	ncRNA	21.5	60.0	22.5	227.5	72.0	24.5	30.0	15.5
Merged-chr8-77543536-3	chr8	77543431	77543631	+	800.216675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5866.0	NM_001081240	102182.0	Mm.197630	NM_178903	ENSMUSG00000037134	Prmt9	AI931714|Prmt10	protein arginine methyltransferase 9	protein-coding	6.5	10.5	10.0	145.5	10.5	7.0	3.5	5.0
Merged-chr13-45390791-4	chr13	45390628	45390828	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153789, intron 1 of 6)	intron (NM_153789, intron 1 of 6)	986.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	25.0	83.0	12.5	297.5	89.5	34.0	30.5	14.0
Merged-chr17-42832468-2	chr17	42832382	42832582	+	980.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_009847, intron 5 of 17)	intron (NM_009847, intron 5 of 17)	43942.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	11.5	5.0	7.0	54.0	24.0	11.5	7.5	4.0
Merged-chr7-43446405-4	chr7	43446299	43446499	+	908.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_075104, intron 1 of 5)	intron (NR_075104, intron 1 of 5)	2327.0	NR_075104	110826.0	Mm.30200	NM_026695	ENSMUSG00000004610	Etfb	0610009I16Rik|2810441H06Rik	electron transferring flavoprotein, beta polypeptide	protein-coding	9.5	21.5	11.0	259.0	36.0	14.0	17.5	15.5
Merged-chr14-75180802-4	chr14	75180647	75180847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	44322.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	34.0	69.0	39.0	370.5	103.5	36.0	40.0	45.0
Merged-chr17-74668105-4	chr17	74667998	74668198	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007566, intron 62 of 72)	intron (NM_007566, intron 62 of 72)	-49652.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	41.0	38.0	13.5	438.5	85.0	21.5	36.0	22.5
Merged-chr13-45950691-4	chr13	45950574	45950774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	14317.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	46.0	69.5	44.5	697.5	176.5	54.5	55.0	56.0
Merged-chr10-99107058-4	chr10	99106972	99107172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027740)	promoter-TSS (NM_027740)	-10.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	52.5	50.0	46.0	534.5	100.5	39.0	46.5	45.5
Merged-chr14-118089477-4	chr14	118089379	118089579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37233.0	NM_010024	13190.0	Mm.19987	NM_010024	ENSMUSG00000022129	Dct	DT|TRP-2|TRP2|Tyrp-2|Tyrp2|slaty|slt	dopachrome tautomerase	protein-coding	14.5	56.0	67.0	399.5	83.5	38.5	36.5	62.0
Merged-chr19-5806563-2	chr19	5806463	5806663	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3891.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	5.0	12.5	9.0	55.0	11.0	5.5	9.0	8.0
Merged-chr17-67351537-4	chr17	67351452	67351652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	2907.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	29.0	59.5	32.5	566.5	77.0	23.5	42.0	29.5
Merged-chr14-119003481-4	chr14	119003397	119003597	+	698.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081252, intron 34 of 38)	B3|SINE|B2	65565.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	6.5	16.0	8.5	109.0	23.5	5.5	15.0	6.0
Merged-chr6-58735286-4	chr6	58735188	58735388	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96177.0	NM_001361967	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	24.5	24.5	27.5	472.5	20.5	18.5	21.0	11.5
Merged-chr5-72556340-4	chr5	72556240	72556440	+	953.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133921, exon 3 of 23)	exon (NM_133921, exon 3 of 23)	3305.0	NM_001359837	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	16.5	25.0	19.5	296.0	31.5	7.0	12.5	8.0
Merged-chr8-122948863-4	chr8	122948734	122948934	+	801.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	93450.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	12.0	8.0	4.5	125.5	27.5	6.5	3.0	10.0
Merged-chr1-150143700-4	chr1	150143599	150143799	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	21249.0	NR_110420	102639566.0	Mm.417208	NR_110420	ENSMUSG00000097754	Ptgs2os2	Gm26687|Linc-cox2|Lincrna-cox2	prostaglandin-endoperoxide synthase 2, opposite strand 2	ncRNA	11.0	18.0	17.0	230.0	42.0	19.5	23.5	7.0
Merged-chr2-160021775-4	chr2	160021697	160021897	+	945.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040499, intron 1 of 3)	intron (NR_040499, intron 1 of 3)	5144.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	28.0	15.0	47.0	535.5	47.5	17.5	12.0	26.5
Merged-chr4-41310769-4	chr4	41310681	41310881	+	921.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026893, intron 2 of 8)	RSINE1|SINE|B4	4120.0	NM_026893	68970.0	Mm.28891	NM_026893	ENSMUSG00000028436	Dcaf12	1500001L20Rik|5830424K06Rik|AA420338|AI851081|Wdr40a	DDB1 and CUL4 associated factor 12	protein-coding	11.5	22.0	7.0	125.0	44.5	14.5	16.0	14.0
Merged-chr8-70612014-4	chr8	70611880	70612080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3666.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	94.0	101.0	125.5	1388.5	232.5	82.5	105.0	88.0
Merged-chr4-151999675-4	chr4	151999587	151999787	+	987.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3508.0	NM_172705	230936.0	Mm.25582	NM_172705	ENSMUSG00000047777	Phf13	BC029632|Phf5|SPOC1	PHD finger protein 13	protein-coding	20.0	16.0	22.5	386.0	59.0	21.0	31.0	19.5
Merged-chr16-16525646-4	chr16	16525548	16525748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	1763.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	82.0	101.5	87.0	1044.5	173.0	47.5	61.5	85.0
Merged-chr17-24692594-4	chr17	24692485	24692685	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023040)	TTS (NM_023040)	-2636.0	NM_011522	20974.0	Mm.26032	NM_011522	ENSMUSG00000007021	Syngr3	-	synaptogyrin 3	protein-coding	28.0	22.5	19.0	299.0	31.0	16.0	19.5	16.5
Merged-chr6-5092931-4	chr6	5092823	5093023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 6 of 15)	intron (NM_181595, intron 6 of 15)	101023.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	75.0	75.0	58.5	459.5	136.0	44.5	59.0	55.5
Merged-chr4-88693634-4	chr4	88693537	88693737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2369.0	NM_008336	15974.0	Mm.377093	NM_008336	ENSMUSG00000100079	Ifnab	-	interferon alpha B	protein-coding	36.0	35.5	46.0	441.5	99.0	18.5	29.0	32.5
Merged-chr17-86114404-4	chr17	86114314	86114514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 10 of 20)	Lx8|LINE|L1	30761.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	30.5	70.0	50.0	1112.5	128.5	39.5	75.0	53.5
Merged-chr5-123153042-4	chr5	123152941	123153141	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 7 of 16)	MER3|DNA|hAT-Charlie	10848.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	14.5	15.0	4.5	149.0	31.5	6.0	11.5	14.0
Merged-chr9-50459701-4	chr9	50459598	50459798	+	995.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34827.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	34.0	21.5	19.0	207.0	69.5	14.5	18.5	23.5
Merged-chr12-16828699-4	chr12	16828598	16828798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17733.0	NM_033270	50496.0	Mm.23296	NM_033270	ENSMUSG00000057469	E2f6	AI462434|E2F6a|E2F6b|EMA	E2F transcription factor 6	protein-coding	25.5	45.0	23.5	470.0	63.0	24.5	39.5	26.5
Merged-chr1-52119898-1	chr1	52119798	52119998	+	766.0	f0_balb.idr	intron (NM_001205313, intron 1 of 24)	intron (NM_001205313, intron 1 of 24)	276.0	NM_001205313	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	12.5	13.0	8.0	121.0	17.5	5.0	7.0	8.5
Merged-chr7-96977888-2	chr7	96977802	96978002	+	648.666626	f0_balb.idr|f0_c57.idr	intron (NM_153591, intron 5 of 13)	intron (NM_153591, intron 5 of 13)	26375.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	9.0	15.5	9.0	110.0	32.0	2.5	6.5	13.0
Merged-chr2-90504206-4	chr2	90504095	90504295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-25021.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	54.0	49.5	36.0	554.5	114.0	24.0	36.0	26.5
Merged-chr9-110657801-4	chr9	110657713	110657913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	1310.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	102.5	128.5	62.0	1494.0	259.0	73.5	117.5	86.5
Merged-chr4-132007364-4	chr4	132007263	132007463	+	949.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001128606, exon 2 of 18)	exon (NM_001128606, exon 2 of 18)	41715.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	24.0	20.0	11.5	255.0	66.5	10.5	17.0	14.0
Merged-chr6-43265492-4	chr6	43265376	43265576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133674)	promoter-TSS (NM_133674)	-168.0	NM_133674	54324.0	Mm.320978	NM_133674	ENSMUSG00000033542	Arhgef5	2210412D05Rik|AA717842|AW495314|Tim1	Rho guanine nucleotide exchange factor (GEF) 5	protein-coding	38.0	33.5	29.5	307.0	58.5	19.5	25.0	28.0
Merged-chr16-65351225-3	chr16	65351121	65351321	+	870.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-169408.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	12.0	6.0	4.0	66.0	8.0	7.0	9.0	8.0
Merged-chr6-59209439-4	chr6	59209357	59209557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081145, exon 2 of 2)	5' UTR (NM_001081145, exon 2 of 2)	587.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	31.0	38.0	25.5	368.5	91.5	27.0	30.5	29.0
Merged-chr7-30051376-4	chr7	30051281	30051481	+	956.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178733)	promoter-TSS (NM_178733)	15.0	NM_011748	243906.0	Mm.347644	NM_011748	ENSMUSG00000053985	Zfp14	4732429I09Rik|Krox-9|Zfp-14|mKIAA1559	zinc finger protein 14	protein-coding	24.0	21.5	11.0	187.5	44.5	24.5	34.0	16.0
Merged-chr5-108727007-1	chr5	108726907	108727107	+	653.0	f1_c57bl6.idr	Intergenic	Intergenic	32778.0	NM_054071	116701.0	Mm.35691	NM_054071	ENSMUSG00000008090	Fgfrl1	FGFR5|FGFR5beta|FGFR5gamma	fibroblast growth factor receptor-like 1	protein-coding	5.5	6.0	9.0	61.0	4.0	3.0	0.5	5.0
Merged-chr8-11477929-4	chr8	11477838	11478038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126558)	promoter-TSS (NR_126558)	9.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	63.0	128.5	86.5	678.0	220.5	91.5	88.5	61.5
Merged-chr2-156725536-3	chr2	156725433	156725633	+	942.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042487, intron 1 of 6)	intron (NM_001042487, intron 1 of 6)	4254.0	NM_001042487	228836.0	Mm.22094	NM_146128	ENSMUSG00000061689	Dlgap4	AI225853|BC024558|DAP-4|DAP4|SAPAP-4|Sapap4|WBP16	DLG associated protein 4	protein-coding	12.0	19.5	7.0	149.0	16.0	13.5	9.0	3.5
Merged-chr9-96652931-2	chr9	96652829	96653029	+	880.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21426.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	5.0	5.0	4.5	71.5	13.0	7.5	2.0	5.5
Merged-chr3-138527168-4	chr3	138527079	138527279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313980)	promoter-TSS (NM_001313980)	-89.0	NM_001313980	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	269.5	417.0	202.5	3155.0	638.0	235.5	232.0	240.5
Merged-chr5-72184649-1	chr5	72184549	72184749	+	969.3333130000001	f0_balb.idr	Intergenic	Intergenic	-16460.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	6.0	17.0	19.5	249.5	35.5	21.0	10.5	17.0
Merged-chr10-78600110-4	chr10	78600014	78600214	+	919.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	-8150.0	NM_027875	71709.0	Mm.86439	NM_027875	ENSMUSG00000032714	Syde1	1200008N06Rik|BB043000|mSYD1A	synapse defective 1, Rho GTPase, homolog 1 (C. elegans)	protein-coding	0.0	17.0	6.0	178.0	43.5	10.0	14.5	14.5
Merged-chr10-79780275-4	chr10	79780153	79780353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031380, intron 3 of 4)	intron (NM_031380, intron 3 of 4)	2979.0	NM_031380	83554.0	Mm.251710	NM_031380	ENSMUSG00000020325	Fstl3	E030038F23Rik|Flrg	follistatin-like 3	protein-coding	170.5	221.5	140.5	1766.5	450.0	218.0	189.5	183.0
Merged-chr1-134094474-4	chr1	134094358	134094558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-15303.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	54.5	62.0	60.0	987.5	114.5	37.0	58.0	52.5
Merged-chr11-78080860-4	chr11	78080765	78080965	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022313)	promoter-TSS (NM_022313)	-482.0	NM_022313	57837.0	Mm.21096	NM_022313	ENSMUSG00000020832	Eral1	2610524P08Rik|9130407C09Rik|AU019798|Era|M-ERA|MERA-S|MERA-W	Era (G-protein)-like 1 (E. coli)	protein-coding	13.5	20.5	4.5	226.0	26.0	12.5	7.5	16.5
Merged-chr6-83125116-4	chr6	83124970	83125170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023547)	promoter-TSS (NM_023547)	-41.0	NM_023547	70020.0	Mm.27814	NM_023547	ENSMUSG00000030034	Ino80b	2510009I23Rik|HMG1YL4|Hmga1l4|Papa1|Znhit4	INO80 complex subunit B	protein-coding	26.0	36.0	18.0	193.5	49.5	21.5	12.5	30.0
Merged-chr12-8902813-4	chr12	8902722	8902922	+	897.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-18485.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	18.5	17.5	20.5	46.5	42.5	20.0	10.5	14.0
Merged-chr16-13671360-4	chr16	13671253	13671453	+	851.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025653)	promoter-TSS (NM_025653)	-505.0	NM_025976	67118.0	Mm.223689	NM_025653	ENSMUSG00000022684	Bfar	3010001A07Rik|3110001I22Rik|AI666707|AW107665|Bar|Rnf47	bifunctional apoptosis regulator	protein-coding	4.0	5.5	10.5	108.5	23.0	7.0	5.5	10.0
Merged-chr16-10488055-3	chr16	10487936	10488136	+	938.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007575)	promoter-TSS (NM_007575)	-142.0	NM_007575	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	12.5	17.5	9.5	126.0	20.0	7.0	8.5	15.0
Merged-chr7-81835618-4	chr7	81835515	81835715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6184.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	57.0	103.0	54.5	625.0	99.0	43.5	60.5	32.0
Merged-chr10-108178589-4	chr10	108178495	108178695	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027892, intron 1 of 25)	RSINE1|SINE|B4	16195.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	21.5	25.5	38.0	713.0	40.0	12.0	36.0	26.0
Merged-chr8-94634250-4	chr8	94634146	94634346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359093, intron 6 of 14)	intron (NM_001359093, intron 6 of 14)	32305.0	NM_026274	67610.0	Mm.109074	NM_026274	ENSMUSG00000050079	Rspry1	4930470D19Rik|AI608258	ring finger and SPRY domain containing 1	protein-coding	25.5	34.5	45.0	962.5	57.0	19.0	49.5	60.0
Merged-chr15-80671611-3	chr15	80671520	80671720	+	939.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145986)	promoter-TSS (NM_145986)	-227.0	NM_145986	213956.0	Mm.132439	NM_145986	ENSMUSG00000022408	Fam83f	AW544981	family with sequence similarity 83, member F	protein-coding	8.0	15.5	11.5	277.0	17.5	9.0	12.0	9.5
Merged-chr10-3832156-4	chr10	3832050	3832250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159942, intron 2 of 16)	intron (NM_001159942, intron 2 of 16)	-40517.0	NM_001033253	213783.0	Mm.150831	NM_001033253	ENSMUSG00000040624	Plekhg1	D10Ertd733e|Gm521|mKIAA1209	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	protein-coding	25.5	25.0	27.5	416.0	114.0	37.0	58.5	46.0
Merged-chr8-8134893-2	chr8	8134793	8134993	+	804.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	525880.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	5.5	1.0	4.0	25.0	10.5	8.0	15.0	12.0
Merged-chr9-96143848-4	chr9	96143735	96143935	+	816.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177352, intron 5 of 16)	intron (NM_177352, intron 5 of 16)	24406.0	NM_177352	235533.0	Mm.213651	NM_177352	ENSMUSG00000041440	Gk5	AV095337|C330018K18Rik|G630067D24Rik	glycerol kinase 5 (putative)	protein-coding	1.0	10.0	4.0	119.5	18.5	9.5	11.0	10.0
Merged-chr5-21189210-4	chr5	21189105	21189305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 1 of 26)	intron (NR_153365, intron 1 of 26)	2938.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	211.0	338.5	217.0	2689.0	327.0	159.5	120.5	97.5
Merged-chr11-63132482-2	chr11	63132382	63132582	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302259)	promoter-TSS (NM_001302259)	-87.0	NM_001302259	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	9.5	15.0	26.5	204.0	24.0	8.5	10.0	19.0
Merged-chr10-43641357-4	chr10	43641273	43641473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47946.0	NR_033558	414125.0	Mm.244305	NR_033558	ENSMUSG00000075184	F830002L21Rik	F930017D23Rik	RIKEN cDNA F830002L21 gene	ncRNA	38.0	39.5	47.0	602.0	65.5	20.5	39.5	55.0
Merged-chr16-20301928-4	chr16	20301828	20302028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005767, intron 1 of 9)	intron (NM_001005767, intron 1 of 9)	434.0	NM_001005767	381038.0	Mm.371737	NM_001005767	ENSMUSG00000033918	Parl	D16Ertd607e|PRO2207|PSARL1|PSENIP2|Psarl	presenilin associated, rhomboid-like	protein-coding	44.0	63.0	32.5	779.5	70.0	33.5	36.5	27.0
Merged-chr13-24800083-4	chr13	24799977	24800177	+	967.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1580.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	11.5	10.5	18.5	167.0	22.0	11.5	15.5	19.0
Merged-chr9-50856964-4	chr9	50856867	50857067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034085)	promoter-TSS (NM_001034085)	43.0	NM_001286553	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	60.0	87.5	55.5	926.0	116.5	57.5	64.0	54.0
Merged-chr16-21423732-2	chr16	21423632	21423832	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001285894, intron 1 of 45)	intron (NM_001285894, intron 1 of 45)	614.0	NM_001285894	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	4.0	12.5	11.5	166.0	15.5	11.5	11.0	7.5
Merged-chr10-8779065-2	chr10	8778965	8779165	+	929.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	B3A|SINE|B2	107005.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	0.0	14.0	4.0	72.5	15.5	12.0	8.0	5.0
Merged-chr10-45019620-4	chr10	45019518	45019718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47596.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	119.0	186.0	129.5	2266.5	319.5	102.0	127.5	107.0
Merged-chr18-46174093-3	chr18	46173988	46174188	+	834.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178872, intron 7 of 9)	intron (NM_178872, intron 7 of 9)	24730.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	8.0	2.0	18.5	180.5	12.5	4.5	9.5	10.5
Merged-chr17-26504538-7	chr17	26504412	26504612	+	998.5476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3960.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	34.0	36.5	9.5	287.0	37.5	12.5	8.0	18.5
Merged-chr4-155488921-4	chr4	155488828	155489028	+	964.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2433.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	18.5	61.5	24.0	351.0	45.0	32.0	17.5	13.0
Merged-chr2-118905930-3	chr2	118905828	118906028	+	804.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045523, intron 1 of 6)	intron (NM_001045523, intron 1 of 6)	4313.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	2.5	9.0	5.0	20.0	23.0	11.0	7.5	13.0
Merged-chr5-38260486-4	chr5	38260350	38260550	+	978.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356960, exon 1 of 5)	exon (NM_001356960, exon 1 of 5)	265.0	NM_025480	66309.0	Mm.256185	NM_025480	ENSMUSG00000067365	Tmem128	2810021O14Rik	transmembrane protein 128	protein-coding	13.0	36.0	42.5	302.0	47.0	24.5	37.0	38.0
Merged-chr15-51848620-4	chr15	51848519	51848719	+	638.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080635, intron 1 of 7)	A-rich|Low_complexity|Low_complexity	16842.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	5.5	4.0	8.5	94.0	33.5	7.5	11.0	7.0
Merged-chr12-80107365-3	chr12	80107275	80107475	+	990.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007564)	TTS (NM_007564)	5638.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	15.5	25.5	5.5	49.5	15.5	9.0	1.5	4.0
Merged-chr17-43558038-4	chr17	43557926	43558126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10425.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	104.5	140.0	127.5	1493.5	182.5	100.5	146.5	57.0
Merged-chr5-137770919-2	chr5	137770819	137771019	+	946.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7985.0	NM_001356989	69871.0	Mm.276058	NM_027242	ENSMUSG00000029725	Ppp1r35	2010007H12Rik|2010011D20Rik|AL024004	protein phosphatase 1, regulatory subunit 35	protein-coding	0.0	4.5	1.5	44.0	14.5	9.0	12.0	9.5
Merged-chr9-21798052-2	chr9	21797952	21798152	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145611, intron 1 of 11)	intron (NM_145611, intron 1 of 11)	494.0	NM_145611	235041.0	Mm.257371	NM_145611	ENSMUSG00000032194	Kank2	AI504612|Ankrd25|BC010245	KN motif and ankyrin repeat domains 2	protein-coding	6.5	11.0	9.5	74.5	19.5	3.0	3.5	8.5
Merged-chr1-155070643-4	chr1	155070528	155070728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 3 of 6)	intron (NR_151545, intron 3 of 6)	12636.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	82.0	84.5	84.0	1236.5	168.5	53.5	85.0	75.5
Merged-chr10-111996069-4	chr10	111995972	111996172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028608, intron 1 of 5)	L1MA7|LINE|L1	1192.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	29.0	28.5	34.5	541.0	148.0	51.5	44.0	45.0
Merged-chr10-17579005-4	chr10	17578905	17579105	+	773.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144223.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	15.5	8.0	13.0	138.5	21.0	4.5	12.5	7.5
Merged-chr2-84642268-1	chr2	84642168	84642368	+	652.0	f0_balb.idr	intron (NM_007615, intron 1 of 19)	PB1D10|SINE|Alu	7212.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	9.5	6.5	7.0	91.0	18.5	2.5	7.5	6.0
Merged-chr19-3708243-4	chr19	3708148	3708348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358258)	promoter-TSS (NM_001358258)	-45.0	NM_001358256	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	232.5	335.0	239.0	2366.5	444.5	205.0	220.0	161.5
Merged-chr8-14988970-4	chr8	14988836	14989036	+	852.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037736, intron 25 of 27)	intron (NM_001037736, intron 25 of 27)	-22089.0	NM_029116	74901.0	Mm.46675	NM_029116	ENSMUSG00000055675	Kbtbd11	2900016B01Rik|4930465M17Rik|mKIAA0711	kelch repeat and BTB (POZ) domain containing 11	protein-coding	7.5	14.5	10.0	259.0	15.5	9.0	12.0	9.0
Merged-chr7-102019510-4	chr7	102019437	102019637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001360748, exon 9 of 9)	3' UTR (NM_001360748, exon 9 of 9)	-1382.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	159.5	336.5	216.0	1618.5	321.0	127.0	125.5	61.5
Merged-chr7-16848745-2	chr7	16848645	16848845	+	980.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001252458, exon 5 of 19)	exon (NM_001252458, exon 5 of 19)	5680.0	NM_178900	101540.0	Mm.1881	NM_178900	ENSMUSG00000041187	Prkd2	AI325941|PKD2	protein kinase D2	protein-coding	5.5	7.0	5.0	37.0	10.5	5.0	0.5	0.0
Merged-chr12-85604534-4	chr12	85604428	85604628	+	970.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	intron (NM_001205053, intron 1 of 3)	4510.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	13.5	11.0	15.5	304.5	39.0	17.0	18.0	20.5
Merged-chr16-59639252-4	chr16	59639164	59639364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019665)	promoter-TSS (NM_019665)	75.0	NM_019665	56297.0	Mm.392505	NM_019665	ENSMUSG00000022722	Arl6	1110018H24Rik|2210411E14Rik|BBS3	ADP-ribosylation factor-like 6	protein-coding	190.0	262.5	207.0	2954.0	415.5	156.5	226.5	171.0
Merged-chr9-82975636-7	chr9	82975510	82975710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081216)	promoter-TSS (NM_001081216)	-121.0	NM_001081216	83946.0	Mm.221688	NM_031879	ENSMUSG00000032253	Phip	2810004D21Rik|4632404O06Rik|Ndrp|Wdr11	pleckstrin homology domain interacting protein	protein-coding	59.5	97.5	86.0	960.0	170.5	75.0	57.0	62.5
Merged-chr15-83122812-4	chr15	83122705	83122905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029101)	promoter-TSS (NM_029101)	-4.0	NM_029101	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	59.5	92.0	36.0	629.5	135.0	66.0	70.0	55.0
Merged-chr15-50870924-4	chr15	50870829	50871029	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	intron (NM_032000, intron 1 of 5)	18120.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	14.0	10.0	10.0	144.0	37.0	12.0	9.0	20.0
Merged-chr1-182124725-4	chr1	182124652	182124852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012058)	promoter-TSS (NM_012058)	15.0	NM_012058	27058.0	Mm.273196	NM_012058	ENSMUSG00000026511	Srp9	9kDa	signal recognition particle 9	protein-coding	153.5	223.5	111.5	1933.5	358.0	141.0	234.0	136.0
Merged-chr3-36771739-4	chr3	36771654	36771854	+	920.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-81587.0	NM_019510	22065.0	Mm.74363	NM_019510	ENSMUSG00000027716	Trpc3	Mwk|Trcp3|Trp3|Trrp3	transient receptor potential cation channel, subfamily C, member 3	protein-coding	23.5	12.5	11.5	237.0	20.5	7.0	19.0	14.0
Merged-chr6-67041998-4	chr6	67041895	67042095	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 1 of 6)	intron (NR_040278, intron 1 of 6)	-4588.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	34.0	88.0	22.0	271.5	35.0	42.0	29.5	8.0
Merged-chr11-80932554-3	chr11	80932455	80932655	+	841.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034013, intron 3 of 9)	intron (NM_001034013, intron 3 of 9)	74166.0	NM_029367	75622.0	Mm.26988	NM_029367	ENSMUSG00000053184	Spaca3	1700025M08Rik|ALLP17|Lyc3|SLLP1|mSLLP1	sperm acrosome associated 3	protein-coding	14.5	7.0	7.0	113.5	14.0	5.5	12.5	8.0
Merged-chr11-84918674-3	chr11	84918565	84918765	+	885.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2299.0	NM_001005223	448850.0	Mm.379733	NM_001005223	ENSMUSG00000020526	Znhit3	Myohd1|TRIP-3|Trip3	zinc finger, HIT type 3	protein-coding	12.5	17.5	6.0	77.5	20.5	10.5	8.0	5.5
Merged-chr18-53176292-4	chr18	53176185	53176385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026386)	promoter-TSS (NM_026386)	-7.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	142.0	177.5	121.5	1652.0	364.5	165.0	174.0	144.0
Merged-chr6-147476172-6	chr6	147476075	147476275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355713)	promoter-TSS (NM_001355713)	-190.0	NM_001355713	67015.0	Mm.209774	NM_025911	ENSMUSG00000030301	Ccdc91	1700086G08Rik|1810060J02Rik|AU045683|AW555238|p56	coiled-coil domain containing 91	protein-coding	45.0	37.5	70.0	438.5	88.0	31.5	38.0	46.0
Merged-chr6-91716420-4	chr6	91716323	91716523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	32356.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	110.0	140.0	73.0	1150.5	213.0	80.5	83.5	91.0
Merged-chr4-134853972-4	chr4	134853864	134854064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355501)	promoter-TSS (NM_001355501)	-619.0	NM_025382	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	137.5	196.5	74.5	1240.0	358.0	130.5	130.0	124.0
Merged-chr8-11635148-4	chr8	11635050	11635250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030781)	promoter-TSS (NR_030781)	-114.0	NR_030781	102334.0	Mm.12459	NM_133971	ENSMUSG00000031508	Ankrd10	4833425P12Rik|AW549277	ankyrin repeat domain 10	protein-coding	51.5	75.0	86.5	752.0	63.0	26.0	51.0	40.0
Merged-chr17-21650079-4	chr17	21649913	21650113	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166497)	promoter-TSS (NM_001166497)	-598.0	NM_001166497	73229.0	Mm.296733	NM_001166497	ENSMUSG00000035868	Zfp983	3110052M02Rik|mszf57|mszf71	zinc finger protein 983	protein-coding	10.5	17.5	9.0	198.0	32.0	13.5	14.0	9.0
Merged-chr19-7485335-4	chr19	7485204	7485404	+	904.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2013.0	NM_001003934	20168.0	Mm.246990	NM_053076	ENSMUSG00000024758	Rtn3	RTN3-A1	reticulon 3	protein-coding	13.5	5.5	4.5	94.5	27.5	3.0	6.0	16.0
Merged-chr18-36286969-4	chr18	36286884	36287084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008989, intron 1 of 1)	intron (NM_008989, intron 1 of 1)	5822.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	105.5	126.5	70.5	1365.0	192.0	65.5	88.0	69.5
Merged-chr2-66124272-7	chr2	66124135	66124335	+	947.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015736, intron 1 of 10)	CpG	558.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	11.5	12.5	29.0	260.0	19.0	13.0	5.0	26.5
Merged-chr5-5719456-3	chr5	5719345	5719545	+	932.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-24877.0	NM_028734	74051.0	Mm.274956	NM_028734	ENSMUSG00000015653	Steap2	4921538B17Rik|AI930049|AW045895|IPCA-1|IPCA1|PCANAP1|STAMP1|STMP	six transmembrane epithelial antigen of prostate 2	protein-coding	6.0	14.0	17.5	459.0	6.0	3.5	1.5	9.5
Merged-chr2-24927171-3	chr2	24927096	24927296	+	811.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178408, intron 2 of 7)	intron (NM_178408, intron 2 of 7)	-7587.0	NM_001109686	77683.0	Mm.24176	NM_172545	ENSMUSG00000036893	Ehmt1	9230102N17Rik|D330003E03|Eu-HMTase1|GLP|GLP1|KMT1D|mKIAA1876	euchromatic histone methyltransferase 1	protein-coding	7.5	11.0	12.0	108.0	22.0	7.5	4.0	4.0
Merged-chr8-69124737-2	chr8	69124637	69124837	+	982.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	16216.0	NM_199364	211134.0	Mm.409446	NM_199364	ENSMUSG00000036306	Lzts1	F37|FEZ1|PSD-Zip70	leucine zipper, putative tumor suppressor 1	protein-coding	7.5	10.5	6.5	71.5	8.5	1.0	7.0	4.5
Merged-chr6-29694149-4	chr6	29694060	29694260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146173)	promoter-TSS (NM_146173)	-54.0	NM_001301407	232670.0	Mm.225289	NM_146173	ENSMUSG00000001763	Tspan33	1300010A20Rik|Pen	tetraspanin 33	protein-coding	61.5	101.0	45.5	1190.5	154.5	41.0	72.0	52.0
Merged-chr11-103310098-4	chr11	103309990	103310190	+	796.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34612.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	10.5	16.5	12.0	179.0	24.5	5.5	7.5	14.5
Merged-chr10-26827669-4	chr10	26827564	26827764	+	951.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	55152.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	13.5	18.5	20.5	247.5	59.0	11.5	22.5	18.5
Merged-chr7-142393922-3	chr7	142393840	142394040	+	828.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6070.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	3.5	6.0	6.5	167.5	23.5	11.5	5.0	13.5
Merged-chr16-23376333-4	chr16	23376228	23376428	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52805.0	NM_001004151	239766.0	Mm.208751	NM_001004151	ENSMUSG00000033383	Rtp1	Gm1766|Gm604	receptor transporter protein 1	protein-coding	11.5	9.5	16.5	197.5	24.0	13.5	15.5	15.5
Merged-chr16-11005637-1	chr16	11005537	11005737	+	623.0	f0_balb.idr	Intergenic	B3|SINE|B2	-3261.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	12.5	5.0	12.5	44.0	18.5	5.5	0.5	7.0
Merged-chr13-92964362-4	chr13	92964254	92964454	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	X7B_LINE|LINE|CR1	-108950.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	7.5	23.5	10.0	304.5	116.5	58.0	65.5	38.0
Merged-chr8-105171575-4	chr8	105171496	105171696	+	954.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161456, intron 2 of 4)	CpG-14413	922.0	NM_001161458	12400.0	Mm.2018	NM_022309	ENSMUSG00000031885	Cbfb	AI893578|PEA2|PEBP2b|Pebp2|Pebpb2	core binding factor beta	protein-coding	23.5	17.0	26.0	279.5	27.5	13.0	24.0	28.0
Merged-chr10-62792370-4	chr10	62792259	62792459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026201)	promoter-TSS (NM_026201)	9.0	NM_026201	67500.0	Mm.196371	NM_026201	ENSMUSG00000020074	Ccar1	2610511G16Rik|9430036H15Rik|Carp1	cell division cycle and apoptosis regulator 1	protein-coding	173.5	307.5	165.5	2464.0	445.0	174.5	171.5	205.5
Merged-chr17-78730086-2	chr17	78729945	78730145	+	654.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011500, intron 1 of 17)	intron (NM_011500, intron 1 of 17)	6515.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	7.0	8.0	5.0	55.0	12.5	2.5	4.5	3.5
Merged-chr11-46269136-4	chr11	46269013	46269213	+	855.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 11 of 30)	intron (NM_001252459, intron 11 of 30)	33556.0	NM_177075	320116.0	Mm.39600	NM_177075	ENSMUSG00000048721	Fndc9	C030019I05Rik	fibronectin type III domain containing 9	protein-coding	7.5	16.5	6.5	150.0	37.5	11.0	11.5	14.0
Merged-chr7-97944153-3	chr7	97944040	97944240	+	787.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177696, intron 1 of 17)	MTA_Mm|LTR|ERVL-MaLR	24182.0	NM_177696	233537.0	Mm.375772	NM_177696	ENSMUSG00000035582	Gdpd4	4921513O04	glycerophosphodiester phosphodiesterase domain containing 4	protein-coding	8.0	5.5	8.0	83.0	11.5	8.0	5.5	10.5
Merged-chr14-61331420-4	chr14	61331300	61331500	+	869.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21647.0	NM_177337	219144.0	Mm.206566	NM_177337	ENSMUSG00000043157	Arl11	ARLTS1|C730007L20Rik	ADP-ribosylation factor-like 11	protein-coding	14.5	13.5	6.5	161.0	22.0	9.5	4.0	8.5
Merged-chr8-14233189-4	chr8	14233085	14233285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 2 of 15)	intron (NM_172910, intron 2 of 15)	137310.0	NM_172910	244310.0	Mm.404697	NM_172910	ENSMUSG00000047495	Dlgap2	6430596N04Rik|Dap-2|Dap2|Sapap2	DLG associated protein 2	protein-coding	16.5	32.5	21.5	429.5	58.0	9.0	32.5	30.0
Merged-chr7-19085296-2	chr7	19085196	19085396	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_032418, intron 1 of 14)	intron (NM_032418, intron 1 of 14)	1447.0	NM_001190491	13400.0	Mm.6529	NM_032418	ENSMUSG00000030409	Dmpk	DM|DMK|Dm15|MDPK|MT-PK	dystrophia myotonica-protein kinase	protein-coding	6.0	13.5	28.0	188.5	50.0	11.5	25.5	29.0
Merged-chr15-79891632-4	chr15	79891542	79891742	+	929.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160415)	promoter-TSS (NM_001160415)	-766.0	NM_001160415	80287.0	Mm.284059	NM_030255	ENSMUSG00000009585	Apobec3	Apobec|Arp3|BC003314|Cem15|Gm20117|Rfv3	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3	protein-coding	27.5	24.5	9.0	171.0	45.5	10.5	11.5	16.5
Merged-chr2-119112742-4	chr2	119112638	119112838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011234)	promoter-TSS (NM_011234)	-79.0	NM_011234	19361.0	Mm.330492	NM_011234	ENSMUSG00000027323	Rad51	AV304093|Rad51a|Reca	RAD51 recombinase	protein-coding	47.5	71.5	42.5	456.5	79.5	40.0	27.0	39.5
Merged-chr5-122698822-4	chr5	122698731	122698931	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8713.0	NM_001310720	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	22.5	36.0	25.5	507.0	31.5	9.0	5.5	17.0
Merged-chr9-50452188-3	chr9	50452089	50452289	+	874.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42336.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	5.5	17.5	12.0	95.5	10.5	8.0	10.5	20.0
Merged-chr10-120847967-3	chr10	120847883	120848083	+	796.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 4 of 6)	intron (NM_177092, intron 4 of 6)	-9646.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	16.0	17.5	13.0	289.0	36.5	4.0	4.5	9.5
Merged-chr16-89718686-4	chr16	89718584	89718784	+	932.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99668.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	25.5	23.0	17.0	342.0	42.0	11.5	14.0	14.0
Merged-chr14-26669732-7	chr14	26669639	26669839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106132)	promoter-TSS (NR_106132)	107.0	NM_178668	211948.0	Mm.290758	NM_178668	ENSMUSG00000043702	Pde12	2'-PDE|E430028B21Rik	phosphodiesterase 12	protein-coding	28.0	22.5	37.0	266.5	37.0	19.0	21.5	35.0
Merged-chr3-96489673-3	chr3	96489574	96489774	+	710.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEz-int|LTR|ERVK	-35511.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	0.0	1.0	0.0	0.0	20.5	14.0	7.0	18.5
Merged-chr7-81155170-4	chr7	81155064	81155264	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004184, intron 11 of 17)	intron (NM_001004184, intron 11 of 17)	40365.0	NM_001004184	434203.0	Mm.389909	NM_001004184	ENSMUSG00000025726	Slc28a1	Cnt1	solute carrier family 28 (sodium-coupled nucleoside transporter), member 1	protein-coding	37.5	74.5	15.0	198.5	99.5	25.5	40.5	36.5
Merged-chr17-23726397-4	chr17	23726312	23726512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023058)	promoter-TSS (NM_023058)	76.0	NM_023058	268930.0	Mm.182193	NM_023058	ENSMUSG00000023908	Pkmyt1	6230424P17|AW209059|Myt1	protein kinase, membrane associated tyrosine/threonine 1	protein-coding	83.5	180.5	73.0	1029.5	292.5	102.0	135.0	76.5
Merged-chr16-4722327-4	chr16	4722245	4722445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2989.0	NM_001290761	67824.0	Mm.28451	NM_026393	ENSMUSG00000063445	Nmral1	1110025F24Rik|AI256624	NmrA-like family domain containing 1	protein-coding	45.0	45.0	44.0	948.0	91.5	34.5	34.5	45.0
Merged-chr13-92030889-4	chr13	92030790	92030990	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42848.0	NM_009027	19418.0	Mm.248630	NM_009027	ENSMUSG00000021708	Rasgrf2	6330417G04Rik|AW048350|Grf2|Ras-GRF2	RAS protein-specific guanine nucleotide-releasing factor 2	protein-coding	46.0	43.5	36.0	871.0	39.5	14.0	25.0	14.5
Merged-chr17-25801228-4	chr17	25801172	25801372	+	992.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4227.0	NM_133719	70083.0	Mm.41925	NM_133719	ENSMUSG00000002274	Metrn	1810034B16Rik|EyeLinc16|Hyrac	meteorin, glial cell differentiation regulator	protein-coding	26.5	34.5	12.5	233.5	52.5	21.5	11.5	23.0
Merged-chr1-106818583-4	chr1	106818492	106818692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21867.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	27.0	41.0	34.5	205.5	76.5	31.5	29.5	31.5
Merged-chr12-79630434-4	chr12	79630338	79630538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	294295.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	133.5	196.0	150.5	1827.5	273.0	114.5	142.0	119.0
Merged-chr18-5042685-1	chr18	5042585	5042785	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-3904.0	NM_153153	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	9.0	10.5	11.5	204.5	3.5	0.0	2.5	6.0
Merged-chr8-123212046-4	chr8	123211930	123212130	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177279)	promoter-TSS (NM_177279)	758.0	NM_145606	234852.0	Mm.41596	NM_145606	ENSMUSG00000000743	Chmp1a	2900018H07Rik|Pcoln3	charged multivesicular body protein 1A	protein-coding	4.5	12.5	5.0	138.5	25.0	11.0	13.5	14.5
Merged-chr12-95747538-3	chr12	95747439	95747639	+	793.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	55313.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	4.5	7.0	9.5	143.0	24.0	8.5	7.5	1.0
Merged-chr11-75732814-4	chr11	75732726	75732926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009536)	promoter-TSS (NM_009536)	-61.0	NM_009536	22627.0	Mm.234700	NM_009536	ENSMUSG00000020849	Ywhae	AU019196	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide	protein-coding	111.5	145.0	72.0	1478.0	268.0	82.5	77.0	88.5
Merged-chr14-79290799-4	chr14	79290715	79290915	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025427, intron 3 of 4)	intron (NM_025427, intron 3 of 4)	10820.0	NM_025427	66214.0	Mm.29811	NM_025427	ENSMUSG00000022018	Rgcc	1190002H23Rik|Rgc-32|Rgc32	regulator of cell cycle	protein-coding	24.0	23.0	18.5	241.5	31.5	19.0	20.5	23.0
Merged-chr4-40868939-4	chr4	40868843	40869043	+	925.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-14406.0	NM_022305	14595.0	Mm.15622	NM_022305	ENSMUSG00000028413	B4galt1	B-1,4-GalT|B-1,4-GalT1|GalT|Ggtb|Ggtb2|b4Gal-T1|beta-1,4-GalT|beta-1,4-GalT1|beta4Gal-T1	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1	protein-coding	7.5	5.0	26.0	337.5	27.5	2.5	11.5	28.5
Merged-chr10-62541711-4	chr10	62541541	62541741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14196.0	NM_001358965	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	56.0	64.5	54.5	595.0	97.0	43.5	42.0	35.0
Merged-chr8-83140202-3	chr8	83140084	83140284	+	809.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-25168.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	6.5	11.0	15.0	147.5	17.0	9.5	6.0	6.5
Merged-chr2-78059934-3	chr2	78059824	78060024	+	725.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_108098, intron 1 of 6)	intron (NR_108098, intron 1 of 6)	8747.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	8.0	15.0	10.0	105.0	17.0	6.5	17.0	5.5
Merged-chr5-92136902-3	chr5	92136790	92136990	+	926.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	835.0	NM_001359197	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	9.0	13.0	13.5	90.5	11.0	9.0	5.0	6.5
Merged-chr5-21267277-1	chr5	21267177	21267377	+	610.0	f0_balb.idr	intron (NR_153365, intron 18 of 26)	Lx8|LINE|L1	81010.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	7.0	6.0	8.5	89.0	8.5	1.0	0.0	3.0
Merged-chr4-46039235-4	chr4	46039129	46039329	+	966.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021883)	promoter-TSS (NM_021883)	7.0	NM_021883	21916.0	Mm.249594	NM_021883	ENSMUSG00000028328	Tmod1	E-Tmod|Tmod	tropomodulin 1	protein-coding	25.0	42.0	24.5	584.0	52.0	15.5	45.5	15.5
Merged-chr8-72006079-4	chr8	72005955	72006155	+	875.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024444, intron 2 of 12)	intron (NM_024444, intron 2 of 12)	3571.0	NM_024444	72054.0	Mm.160020	NM_024444	ENSMUSG00000003484	Cyp4f18	1810054N16Rik|Cyp4f3|Cypf18	cytochrome P450, family 4, subfamily f, polypeptide 18	protein-coding	11.5	9.0	7.5	92.5	30.5	13.0	9.5	16.5
Merged-chr14-36962608-4	chr14	36962496	36962696	+	936.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027045, intron 1 of 10)	intron (NM_027045, intron 1 of 10)	6168.0	NM_027045	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	15.5	12.5	23.5	223.0	38.0	36.0	21.0	11.5
Merged-chr2-58281284-3	chr2	58281183	58281383	+	944.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040365, exon 3 of 4)	non-coding (NR_040365, exon 3 of 4)	4504.0	NR_040365	100502932.0	Mm.417207	NR_040365	ENSMUSG00000086995	Gm13544	-	predicted gene 13544	ncRNA	14.0	11.0	19.0	397.0	11.0	8.0	9.0	12.0
Merged-chr7-110018264-4	chr7	110018144	110018344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362172)	promoter-TSS (NM_001362172)	-7.0	NM_181517	233726.0	Mm.222328	NM_181517	ENSMUSG00000066232	Ipo7	A330055O14Rik|C330016G14|Imp7|Ranbp7	importin 7	protein-coding	81.5	96.5	66.0	1070.5	188.5	94.5	99.5	79.5
Merged-chr13-42244680-4	chr13	42244635	42244835	+	970.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56741.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	24.0	24.5	18.0	368.0	37.0	21.0	16.5	29.5
Merged-chr2-75585145-4	chr2	75585042	75585242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74117.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	88.5	147.0	81.5	1215.5	282.5	106.5	142.5	82.5
Merged-chr10-94967384-4	chr10	94967296	94967496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22818.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	46.0	81.5	51.5	646.5	144.0	29.0	32.5	27.0
Merged-chr18-76228149-4	chr18	76228053	76228253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13548.0	NM_010754	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	21.0	22.0	24.0	509.5	80.5	32.5	36.5	44.5
Merged-chr4-62561451-4	chr4	62561340	62561540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 1 of 19)	intron (NM_019492, intron 1 of 19)	1593.0	NM_019492	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	31.5	42.0	19.5	500.5	62.0	17.0	24.0	21.5
Merged-chr12-12270157-4	chr12	12270045	12270245	+	883.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	MTD|LTR|ERVL-MaLR	8006.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	21.0	17.5	6.5	281.5	38.5	8.5	10.0	14.0
Merged-chr11-75534511-3	chr11	75534372	75534572	+	867.714294	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 2 of 13)	intron (NM_001199284, intron 2 of 13)	2360.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	7.5	4.5	5.0	70.0	10.0	1.0	5.5	5.0
Merged-chr17-83709742-4	chr17	83709671	83709871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 2 of 16)	intron (NM_054082, intron 2 of 16)	3608.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	100.0	125.0	64.5	666.0	188.5	78.0	78.5	124.5
Merged-chr3-136701998-2	chr3	136701898	136702098	+	739.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	31932.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	5.0	11.5	8.0	31.5	4.0	6.0	7.5	5.5
Merged-chr10-18965082-4	chr10	18964987	18965187	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46876.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	16.5	29.0	27.0	270.5	75.5	20.5	33.5	36.0
Merged-chr7-90035252-3	chr7	90035152	90035352	+	855.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 1 of 5)	intron (NR_110365, intron 1 of 5)	6093.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	11.0	9.5	9.0	194.0	23.5	6.0	3.5	6.5
Merged-chr4-122884198-4	chr4	122884108	122884308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007598, intron 1 of 12)	intron (NM_007598, intron 1 of 12)	1868.0	NM_001358035	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	18.5	34.0	21.0	320.0	70.0	30.0	43.0	19.0
Merged-chr3-152569367-4	chr3	152569273	152569473	+	896.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355635, intron 6 of 8)	intron (NM_001355635, intron 6 of 8)	-97540.0	NR_040386	99542.0	Mm.394921	NR_040386	ENSMUSG00000097745	AI115009	-	expressed sequence AI115009	ncRNA	15.0	10.0	14.0	261.0	27.5	7.0	14.5	9.5
Merged-chr9-40241598-4	chr9	40241501	40241701	+	767.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27615.0	NM_001083917	235281.0	Mm.290083	NM_153522	ENSMUSG00000049281	Scn3b	1110001K16Rik|4833414B02Rik|Scnb3	sodium channel, voltage-gated, type III, beta	protein-coding	13.5	8.5	5.0	138.5	21.5	10.0	5.5	12.5
Merged-chr15-67714425-4	chr15	67714332	67714532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13B|LTR|ERVK	487663.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	61.5	106.5	55.0	488.0	82.0	39.0	22.5	10.0
Merged-chr19-12564406-4	chr19	12564324	12564524	+	836.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-9086.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	10.0	19.0	13.0	176.0	49.0	11.0	9.5	7.5
Merged-chr9-20997302-4	chr9	20997219	20997419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-5418.0	NM_023167	66163.0	Mm.427576	NM_023167	ENSMUSG00000003299	Mrpl4	1110017G11Rik	mitochondrial ribosomal protein L4	protein-coding	51.0	87.5	66.0	1110.0	118.0	38.0	50.0	71.5
Merged-chr12-117747576-3	chr12	117747500	117747700	+	734.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 25 of 27)	(TTC)n|Simple_repeat|Simple_repeat	-96261.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	3.0	1.0	1.5	55.5	19.5	6.5	8.5	13.0
Merged-chr16-92676689-4	chr16	92676619	92676819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 4 of 6)	intron (NM_001111022, intron 4 of 6)	20610.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	10.5	30.0	24.5	252.5	60.0	19.0	17.0	18.0
Merged-chr5-64241453-4	chr5	64241347	64241547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	intron (NM_001289514, intron 1 of 18)	11090.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	82.5	126.5	112.5	1733.0	180.0	95.5	101.5	95.0
Merged-chr11-47063957-4	chr11	47063858	47064058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 6 of 7)	intron (NM_011891, intron 6 of 7)	253159.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	68.5	93.0	82.0	1613.0	298.0	114.0	139.0	92.0
Merged-chr7-82648526-4	chr7	82648419	82648619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177894)	promoter-TSS (NM_177894)	9.0	NM_177894	330577.0	Mm.222812	NM_177894	ENSMUSG00000038570	Saxo2	1700129I04Rik|D030069K18|Fam154b	stabilizer of axonemal microtubules 2	protein-coding	194.0	283.5	156.0	2939.0	467.0	180.5	193.5	169.0
Merged-chr1-72415787-4	chr1	72415686	72415886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	108365.0	NM_001357519	22596.0	Mm.246952	NM_009533	ENSMUSG00000026187	Xrcc5	AI314015|CTC85|CTCBF|Ku80|Ku86	X-ray repair complementing defective repair in Chinese hamster cells 5	protein-coding	33.0	32.5	48.5	873.5	88.5	31.0	53.5	32.5
Merged-chr1-13454755-4	chr1	13454664	13454864	+	925.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80681.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	16.0	11.0	13.0	270.5	44.0	20.0	13.5	18.5
Merged-chr2-91954008-3	chr2	91953841	91954041	+	911.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138306, intron 1 of 30)	intron (NM_138306, intron 1 of 30)	-3593.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	10.5	12.0	8.5	121.0	14.0	5.5	3.5	11.0
Merged-chr8-105715195-4	chr8	105715103	105715303	+	857.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027469)	TTS (NM_027469)	6914.0	NM_027655	71046.0	Mm.280888	NM_027655	ENSMUSG00000013158	4933405L10Rik	-	RIKEN cDNA 4933405L10 gene	protein-coding	7.5	10.5	4.5	205.0	30.0	9.5	6.5	13.5
Merged-chr4-3796108-3	chr4	3796015	3796215	+	887.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39540.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	3.0	12.5	6.5	84.0	10.0	6.5	7.0	11.5
Merged-chr7-34196607-4	chr7	34196502	34196702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360710)	promoter-TSS (NM_001360710)	68.0	NM_026549	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	52.0	81.5	68.0	859.5	117.5	35.5	46.0	46.5
Merged-chr5-136170214-4	chr5	136170121	136170321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178751, intron 1 of 2)	intron (NM_178751, intron 1 of 2)	435.0	NM_178751	269717.0	Mm.308396	NM_178751	ENSMUSG00000039747	Orai2	A730041O15Rik|Tmem142b	ORAI calcium release-activated calcium modulator 2	protein-coding	52.5	86.0	63.5	636.5	109.5	39.5	35.0	29.0
Merged-chr17-86484491-4	chr17	86484394	86484594	+	860.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 6 of 14)	intron (NM_011104, intron 6 of 14)	-197316.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	9.0	15.0	1.0	224.0	25.5	8.0	14.0	9.0
Merged-chr11-75631367-2	chr11	75631267	75631467	+	749.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008916, intron 1 of 11)	intron (NM_008916, intron 1 of 11)	347.0	NM_008916	19062.0	Mm.1458	NM_008916	ENSMUSG00000006127	Inpp5k	C62|Pps|SKIP	inositol polyphosphate 5-phosphatase K	protein-coding	8.0	6.5	4.0	80.5	20.5	5.5	5.0	5.5
Merged-chr6-8686861-4	chr6	8686715	8686915	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 5 of 11)	intron (NM_001252266, intron 5 of 11)	71643.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	9.5	26.5	10.0	224.0	43.0	14.0	11.5	6.0
Merged-chr10-80873057-3	chr10	80872960	80873160	+	780.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6756.0	NM_001081688	432478.0	Mm.235302	NM_001081688	ENSMUSG00000059406	Tmprss9	Serase-1B	transmembrane protease, serine 9	protein-coding	5.5	13.5	14.5	102.5	10.0	3.5	6.5	5.0
Merged-chr10-87675214-4	chr10	87675117	87675317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153422.0	NM_008777	18478.0	Mm.263539	NM_008777	ENSMUSG00000020051	Pah	AW106920	phenylalanine hydroxylase	protein-coding	51.5	100.0	60.0	853.0	130.5	54.0	60.0	57.0
Merged-chr14-63543900-4	chr14	63543774	63543974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177594)	promoter-TSS (NM_177594)	79.0	NM_177594	210376.0	Mm.441613	NM_177594	ENSMUSG00000035078	Mtmr9	9430075G12Rik|AA516943|AF073881|LIP-STYX|MTMR8|mMTMH3	myotubularin related protein 9	protein-coding	37.5	71.5	67.5	480.0	47.0	37.5	23.0	47.5
Merged-chr3-107994367-2	chr3	107994258	107994458	+	697.75	f0_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-7938.0	NM_008183	14863.0	Mm.440086	NM_008183	ENSMUSG00000040562	Gstm2	Gstb-2|Gstb2	glutathione S-transferase, mu 2	protein-coding	13.5	29.5	8.5	75.0	24.5	0.5	6.5	7.5
Merged-chr10-81606212-4	chr10	81606115	81606315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030677)	promoter-TSS (NR_030677)	-93.0	NR_030677	268319.0	Mm.131825	NM_001033363	ENSMUSG00000074862	BC025920	-	zinc finger protein pseudogene	pseudo	230.0	365.0	200.5	3167.0	394.5	168.0	224.0	169.5
Merged-chr2-165928033-4	chr2	165927931	165928131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-43193.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	39.5	43.0	60.5	773.0	58.5	21.0	31.0	32.5
Merged-chr17-24672378-4	chr17	24672273	24672473	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348231, intron 1 of 11)	intron (NM_001348231, intron 1 of 11)	2686.0	NM_183149	213753.0	Mm.219581	NM_183149	ENSMUSG00000041130	Zfp598	BC023040|Ntrap|Znf598	zinc finger protein 598	protein-coding	23.5	57.0	11.5	138.5	62.0	25.5	15.0	9.0
Merged-chr5-113644697-4	chr5	113644629	113644829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	-1126.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	146.0	289.0	181.5	2169.5	389.5	159.5	154.0	115.0
Merged-chr5-115134933-4	chr5	115134824	115135024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175352)	promoter-TSS (NM_175352)	51.0	NM_175352	106840.0	Mm.29241	NM_175352	ENSMUSG00000046562	Unc119b	AA407659|AI414892	unc-119 lipid binding chaperone B	protein-coding	61.5	89.5	38.0	496.5	120.0	40.5	71.0	39.5
Merged-chr9-99386825-3	chr9	99386730	99386930	+	925.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008624, exon 6 of 6)	3' UTR (NM_008624, exon 6 of 6)	-28300.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	7.5	4.5	14.0	256.0	28.0	14.5	5.0	12.0
Merged-chr19-57354874-4	chr19	57354790	57354990	+	736.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040316, intron 1 of 2)	intron (NR_040316, intron 1 of 2)	6009.0	NR_040316	320879.0	Mm.375089	NR_040316	ENSMUSG00000097785	B230217O12Rik	-	RIKEN cDNA B230217O12 gene	ncRNA	14.0	32.0	15.0	194.0	22.5	12.5	4.0	12.0
Merged-chr7-99965308-4	chr7	99965205	99965405	+	732.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	intron (NM_175388, intron 1 of 5)	15153.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	11.5	12.5	10.5	142.5	34.0	2.0	9.0	9.5
Merged-chr6-112739213-4	chr6	112739134	112739334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 16 of 21)	intron (NM_080448, intron 16 of 21)	-42564.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	32.5	57.0	36.0	878.5	91.5	29.5	36.5	41.0
Merged-chr5-105624402-4	chr5	105624307	105624507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75562.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	41.0	52.0	33.0	348.5	90.5	34.5	29.0	44.0
Merged-chr13-51101601-4	chr13	51101492	51101692	+	967.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029463)	promoter-TSS (NR_029463)	45.0	NM_001283029	20729.0	Mm.188432	NM_011462	ENSMUSG00000021395	Spin1	Spin	spindlin 1	protein-coding	10.5	26.5	16.5	253.0	76.5	21.0	15.0	16.0
Merged-chr6-124874976-3	chr6	124874876	124875076	+	934.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013488, intron 3 of 9)	intron (NM_013488, intron 3 of 9)	-10993.0	NM_001355257	14788.0	Mm.2514	NM_013533	ENSMUSG00000038390	Gpr162	A-2|BC031437|Grca	G protein-coupled receptor 162	protein-coding	14.5	21.5	6.0	139.0	40.5	11.0	7.0	4.5
Merged-chr3-21983218-3	chr3	21983103	21983303	+	915.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-93449.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	13.0	12.0	10.0	135.0	19.5	8.0	18.5	8.0
Merged-chr8-4613708-3	chr8	4613619	4613819	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145591, intron 1 of 3)	intron (NM_145591, intron 1 of 3)	549.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	19.0	18.0	12.5	158.5	22.0	11.0	13.5	17.0
Merged-chr7-125623316-4	chr7	125623170	125623370	+	963.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021887, intron 2 of 8)	intron (NM_021887, intron 2 of 8)	19841.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	72.0	72.0	135.5	1727.0	20.0	6.5	17.0	4.5
Merged-chr11-85697686-4	chr11	85697597	85697797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	22047.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	88.0	93.0	64.5	1584.5	152.0	55.0	61.0	85.5
Merged-chr2-148491338-4	chr2	148491257	148491457	+	946.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47822.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	28.0	10.0	17.0	251.5	34.5	14.0	11.0	16.5
Merged-chr17-5630412-3	chr17	5630312	5630512	+	878.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	MLT1F2|LTR|ERVL-MaLR	137812.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	12.5	4.5	10.0	148.0	17.0	7.0	12.0	2.5
Merged-chr2-113398357-4	chr2	113398255	113398455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285458, intron 2 of 16)	intron (NM_001285458, intron 2 of 16)	-42709.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	76.0	121.5	116.5	1462.5	254.5	61.0	73.0	104.0
Merged-chr13-29984417-4	chr13	29984301	29984501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289920)	promoter-TSS (NM_001289920)	-10.0	NM_001359994	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	146.5	259.0	150.5	2787.5	451.5	162.5	198.0	162.0
Merged-chr6-124738665-4	chr6	124738565	124738765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077705)	promoter-TSS (NM_001077705)	44.0	NM_001077705	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	124.5	151.0	71.5	1184.5	250.0	85.0	126.0	74.0
Merged-chr11-52346469-3	chr11	52346360	52346560	+	861.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14402.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	13.5	7.5	4.0	46.5	26.0	9.5	7.5	13.5
Merged-chr12-45092585-4	chr12	45092474	45092674	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18091.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	28.0	40.0	41.5	817.0	53.5	25.0	35.5	11.0
Merged-chr3-133659995-4	chr3	133659902	133660102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115612.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	50.5	104.5	74.0	1061.5	104.5	22.5	78.5	49.5
Merged-chr4-53631528-2	chr4	53631454	53631654	+	631.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195284)	promoter-TSS (NM_001195284)	83.0	NM_001195284	319636.0	Mm.103464	NM_176966	ENSMUSG00000054752	Fsd1l	A230072O16Rik|Ccdc10|Csdufd1|Fsd1nl	fibronectin type III and SPRY domain containing 1-like	protein-coding	9.0	6.5	11.5	57.0	11.5	7.0	4.5	6.5
Merged-chr5-121586647-4	chr5	121586524	121586724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009656, intron 1 of 12)	intron (NM_009656, intron 1 of 12)	7200.0	NM_009656	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	28.5	48.0	37.5	484.0	74.5	22.0	30.0	28.5
Merged-chr12-33159521-3	chr12	33159398	33159598	+	756.083313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	intron (NM_028139, intron 2 of 3)	11812.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	6.0	9.5	4.5	66.5	25.0	5.5	7.5	3.5
Merged-chr19-16109001-2	chr19	16108895	16109095	+	577.0	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-23836.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	8.5	13.5	5.0	57.0	23.0	11.5	3.5	4.0
Merged-chr10-25285247-4	chr10	25285136	25285336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 2 of 7)	intron (NM_018747, intron 2 of 7)	13927.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	44.0	34.0	32.5	745.5	100.5	29.0	38.0	47.0
Merged-chr4-129811576-4	chr4	129811473	129811673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-8906.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	32.0	89.5	30.5	532.5	82.0	53.5	26.5	32.0
Merged-chr8-25068287-4	chr8	25068160	25068360	+	838.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 3 of 11)	intron (NM_031257, intron 3 of 11)	-29298.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	12.0	7.5	10.5	121.5	24.0	6.0	4.0	11.0
Merged-chr5-23114402-4	chr5	23114291	23114491	+	935.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029990, intron 2 of 2)	intron (NM_029990, intron 2 of 2)	319962.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	29.0	52.5	39.5	718.5	39.5	11.0	25.0	12.0
Merged-chr16-76372429-6	chr16	76372325	76372525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	CpG	624.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	36.0	85.5	79.0	692.0	94.0	47.5	67.0	37.0
Merged-chr15-50650030-4	chr15	50649906	50650106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	239043.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	37.0	58.5	55.5	610.5	137.0	33.0	44.5	40.0
Merged-chr15-39173049-4	chr15	39172950	39173150	+	875.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR1_Mm|LTR|ERVK	-25236.0	NM_001256382	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	41.0	61.5	53.5	179.5	1.5	11.5	14.5	0.5
Merged-chr10-4388095-4	chr10	4388018	4388218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359811)	promoter-TSS (NM_001359811)	-10.0	NM_001033466	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	33.5	47.0	43.5	544.5	81.5	33.0	32.0	36.0
Merged-chr11-23771200-5	chr11	23771051	23771251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009044)	promoter-TSS (NM_009044)	-181.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	150.5	369.0	268.5	2616.5	486.0	225.5	204.0	211.0
Merged-chr2-160578919-2	chr2	160578819	160579019	+	967.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66978.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	6.0	9.0	1.5	80.5	20.5	5.5	13.0	8.0
Merged-chr8-70477042-4	chr8	70476978	70477178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122830)	promoter-TSS (NM_001122830)	-135.0	NM_178771	234378.0	Mm.187090	NM_172052	ENSMUSG00000055707	Klhl26	C630013N10Rik|Klkl26	kelch-like 26	protein-coding	133.5	150.5	71.0	1281.0	299.5	140.5	136.0	117.5
Merged-chr12-108631241-4	chr12	108631121	108631321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163395, intron 1 of 12)	L1MEc|LINE|L1	-4532.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	82.5	120.0	118.0	1432.5	148.5	46.5	79.5	82.0
Merged-chr7-118534875-2	chr7	118534775	118534975	+	585.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_172476)	TTS (NM_172476)	-1519.0	NM_009940	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	2.5	4.0	2.0	31.0	14.0	5.0	6.5	10.0
Merged-chr13-116949704-4	chr13	116949612	116949812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	intron (NM_001081009, intron 3 of 26)	75804.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	54.0	77.5	50.0	926.0	195.0	56.0	82.0	45.5
Merged-chr11-34220863-4	chr11	34220759	34220959	+	873.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-12770.0	NM_023907	14233.0	Mm.32926	NM_023907	ENSMUSG00000047861	Foxi1	5830401E05Rik|FREAC6|Fkh10|HFH-3|Hfh3	forkhead box I1	protein-coding	14.0	19.5	10.5	40.0	28.5	8.5	19.5	7.5
Merged-chr7-142361003-1	chr7	142360903	142361103	+	551.0	f1_c57bl6.idr	intron (NM_001347541, intron 2 of 2)	MLT1A|LTR|ERVL-MaLR	11256.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	5.0	5.5	6.0	53.5	10.5	2.0	6.0	3.0
Merged-chr18-30583634-4	chr18	30583532	30583732	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	310767.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	5.5	22.5	13.5	233.5	39.5	17.0	21.0	23.0
Merged-chr11-50114552-4	chr11	50114450	50114650	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 7 of 7)	B3|SINE|B2	-16810.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	24.5	28.0	3.5	115.0	37.5	17.0	27.5	22.0
Merged-chr2-25074509-3	chr2	25074417	25074617	+	887.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5806.0	NM_028093	72090.0	Mm.33403	NM_028093	ENSMUSG00000036813	Entpd8	-	ectonucleoside triphosphate diphosphohydrolase 8	protein-coding	6.5	21.0	8.5	164.0	33.0	6.0	7.5	11.0
Merged-chr18-34781305-3	chr18	34781203	34781403	+	849.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081256, intron 1 of 23)	intron (NM_001081256, intron 1 of 23)	4295.0	NM_001081256	277250.0	Mm.277906	NM_029518	ENSMUSG00000038773	Kdm3b	5830462I21Rik|JHDM2B|Jmjd1b|mKIAA1082	KDM3B lysine (K)-specific demethylase 3B	protein-coding	5.5	9.0	4.5	142.0	18.0	3.0	10.0	8.5
Merged-chr15-41831557-3	chr15	41831437	41831637	+	904.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130164, intron 1 of 5)	intron (NM_001130164, intron 1 of 5)	579.0	NM_001130164	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	12.0	8.5	6.0	79.0	10.5	3.5	4.5	9.0
Merged-chr6-145250342-4	chr6	145250239	145250439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021284)	promoter-TSS (NM_021284)	-108.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	140.0	218.0	107.5	2074.5	346.0	125.0	150.5	127.0
Merged-chr12-113014517-8	chr12	113014438	113014638	+	927.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291444)	promoter-TSS (NM_001291444)	30.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	17.5	9.5	8.0	44.0	29.0	14.0	17.5	5.0
Merged-chr15-79339195-3	chr15	79339102	79339302	+	860.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7419.0	NM_001304830	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	8.0	12.5	4.0	34.0	23.5	14.5	7.5	11.5
Merged-chr18-64987010-4	chr18	64986879	64987079	+	976.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-36548.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	9.5	37.5	12.5	215.5	63.0	20.0	20.0	20.5
Merged-chr13-95950897-3	chr13	95950735	95950935	+	735.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58913.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	7.0	14.5	8.0	91.0	8.0	4.5	5.5	9.5
Merged-chr8-117346046-3	chr8	117345940	117346140	+	718.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-3130.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	19.5	10.0	7.0	246.0	13.5	5.5	9.0	9.5
Merged-chr17-49422260-4	chr17	49422167	49422367	+	879.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21B|LTR|ERV1	-6097.0	NM_028464	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	11.5	66.5	11.0	136.0	48.5	13.5	12.5	7.0
Merged-chr9-51028856-4	chr9	51028751	51028951	+	875.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19778.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	12.0	16.5	13.5	233.0	32.5	5.5	10.5	13.5
Merged-chr3-88622372-2	chr3	88622272	88622472	+	828.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	978.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	5.0	8.5	2.5	25.0	7.0	4.5	6.5	5.0
Merged-chr10-95780193-8	chr10	95780046	95780246	+	803.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160517.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	10.0	4.0	14.0	120.0	29.5	10.5	11.5	17.5
Merged-chr14-111676046-4	chr14	111675907	111676107	+	827.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198865, intron 1 of 1)	CpG	892.0	NM_198865	75409.0	Mm.235097	NM_029273	ENSMUSG00000033214	Slitrk5	2610019D03Rik	SLIT and NTRK-like family, member 5	protein-coding	4.5	6.0	15.0	181.5	21.0	5.5	9.5	6.0
Merged-chr17-69349445-1	chr17	69349345	69349545	+	761.0	f0_balb.idr	Intergenic	Intergenic	-33730.0	NM_001356283	22666.0	Mm.29434	NM_009547	ENSMUSG00000049672	Zbtb14	ZF5|Zfp161|b2b1982Clo	zinc finger and BTB domain containing 14	protein-coding	9.5	6.5	6.0	181.5	11.5	1.0	5.5	10.0
Merged-chr7-121120347-4	chr7	121120253	121120453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139310, intron 12 of 28)	intron (NM_139310, intron 12 of 28)	36915.0	NM_139310	246190.0	Mm.221073	NM_139310	ENSMUSG00000034990	Otoa	-	otoancorin	protein-coding	117.5	176.5	109.5	2236.0	297.0	69.5	127.0	94.5
Merged-chr5-122502321-6	chr5	122502254	122502454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009722)	promoter-TSS (NM_009722)	-129.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	37.5	65.0	23.0	454.5	118.0	47.0	55.5	33.5
Merged-chr4-12305418-3	chr4	12305318	12305518	+	908.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133403.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	4.5	12.0	14.5	148.0	10.5	12.5	10.0	11.0
Merged-chr17-69182295-4	chr17	69182204	69182404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	22948.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	69.0	86.5	84.5	771.5	148.5	78.5	47.5	30.5
Merged-chr18-10229776-4	chr18	10229665	10229865	+	955.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47973.0	NM_009071	19877.0	Mm.6710	NM_009071	ENSMUSG00000024290	Rock1	1110055K06Rik|Rock-I	Rho-associated coiled-coil containing protein kinase 1	protein-coding	13.0	14.5	20.0	213.5	43.5	12.5	19.5	23.5
Merged-chr9-95566519-4	chr9	95566415	95566615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6698.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	20.0	25.0	27.0	375.5	52.5	19.5	34.0	22.5
Merged-chr14-64050668-4	chr14	64050583	64050783	+	906.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34727.0	NM_001081063	71037.0	Mm.19977	NM_001081063	ENSMUSG00000034623	Prss55	4933401F05Rik	protease, serine 55	protein-coding	11.5	32.0	21.5	405.5	28.5	8.5	7.0	9.0
Merged-chr9-119979110-3	chr9	119979015	119979215	+	771.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153287, intron 1 of 4)	L2|LINE|L2	3908.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	11.5	11.0	7.0	93.5	22.0	3.0	5.0	5.0
Merged-chr7-28584079-4	chr7	28583982	28584182	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027470, intron 1 of 9)	L2b|LINE|L2	14102.0	NM_027470	70584.0	Mm.21876	NM_027470	ENSMUSG00000030602	Pak4	5730488L07Rik|AW555722|mKIAA1142	p21 (RAC1) activated kinase 4	protein-coding	19.5	23.5	24.0	368.5	37.5	15.0	24.0	23.5
Merged-chr19-23142528-2	chr19	23142423	23142623	+	924.0	f0_balb.idr|f0_c57.idr	intron (NM_010638, intron 1 of 1)	CpG	1297.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	16.0	13.5	18.0	244.0	17.5	9.0	10.5	21.5
Merged-chr2-44920690-4	chr2	44920589	44920789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59067.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	88.5	127.0	100.0	1254.5	195.0	89.0	94.0	81.5
Merged-chr17-31296686-4	chr17	31296603	31296803	+	879.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001242427, exon 1 of 20)	5' UTR (NM_001242427, exon 1 of 20)	479.0	NM_001242427	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	10.0	17.0	4.0	113.5	33.0	4.5	12.0	4.5
Merged-chr11-32568221-3	chr11	32568121	32568321	+	763.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	L1MB1|LINE|L1	34955.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	5.5	13.0	5.5	147.5	4.0	2.0	1.5	2.0
Merged-chr10-121740305-4	chr10	121740155	121740355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359720, intron 1 of 2)	intron (NM_001359720, intron 1 of 2)	325.0	NM_173022	270802.0	Mm.209172	NM_173022	ENSMUSG00000053684	BC048403	E030027L10	cDNA sequence BC048403	protein-coding	14.0	26.5	20.5	325.5	32.0	17.0	22.5	23.5
Merged-chr10-128270409-4	chr10	128270288	128270488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019963)	promoter-TSS (NM_019963)	-110.0	NM_019963	20847.0	Mm.293120	NM_019963	ENSMUSG00000040033	Stat2	1600010G07Rik|AW496480	signal transducer and activator of transcription 2	protein-coding	201.0	316.0	192.0	2546.0	525.0	192.5	205.0	170.0
Merged-chr11-120492752-4	chr11	120492667	120492867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013770, intron 1 of 10)	intron (NM_013770, intron 1 of 10)	930.0	NM_013770	27376.0	Mm.3991	NM_013770	ENSMUSG00000025792	Slc25a10	Dic	solute carrier family 25 (mitochondrial carrier, dicarboxylate transporter), member 10	protein-coding	53.5	114.0	42.0	439.0	125.0	54.0	58.5	43.0
Merged-chr2-27745016-3	chr2	27744918	27745118	+	972.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 4 of 9)	intron (NM_001290481, intron 4 of 9)	34435.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	6.5	12.5	19.5	186.0	9.0	8.0	5.5	8.5
Merged-chr13-73804653-4	chr13	73804569	73804769	+	953.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 17 of 24)	intron (NM_001360694, intron 17 of 24)	40972.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	21.0	29.5	14.0	274.5	35.0	13.0	2.5	20.0
Merged-chr7-49601346-1	chr7	49601246	49601446	+	863.5	f0_balb.idr	intron (NM_175272, intron 36 of 37)	intron (NM_175272, intron 36 of 37)	35489.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	7.0	11.5	11.0	167.5	4.0	1.5	4.5	7.0
Merged-chr7-80099983-4	chr7	80099861	80100061	+	701.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173011, intron 3 of 10)	intron (NM_173011, intron 3 of 10)	15389.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	6.0	8.0	7.5	145.5	26.5	8.0	5.0	7.5
Merged-chr17-24206087-2	chr17	24205973	24206173	+	932.5	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_173186)	promoter-TSS (NM_173186)	-511.0	NM_001163850	224617.0	Mm.301585	NM_173186	ENSMUSG00000036473	Tbc1d24	9630033P11|C530046L02Rik|mKIAA1171	TBC1 domain family, member 24	protein-coding	8.5	9.5	2.0	133.5	33.0	5.0	13.0	12.0
Merged-chr13-44657803-1	chr13	44657703	44657903	+	549.0	f0_c57.idr	Intergenic	Intergenic	-72971.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	0.0	5.0	0.5	24.0	5.5	5.5	4.5	12.5
Merged-chr18-12188823-4	chr18	12188711	12188911	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008720)	TTS (NM_008720)	20081.0	NM_029623	76482.0	Mm.196596	NM_029623	ENSMUSG00000024410	3110002H16Rik	2400010D15Rik|Mic-1|Mic1|Rmc1|Wdr98	RIKEN cDNA 3110002H16 gene	protein-coding	21.0	23.5	19.5	297.5	34.5	14.0	19.5	20.0
Merged-chr11-114883027-4	chr11	114882931	114883131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7010.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	47.5	56.5	35.5	365.0	88.5	37.5	34.5	46.0
Merged-chr5-100566974-4	chr5	100566867	100567067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 1 of 4)	intron (NM_139198, intron 1 of 4)	5238.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	55.5	59.0	52.5	828.0	155.5	59.5	89.5	63.5
Merged-chr4-41555433-4	chr4	41555304	41555504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	intron (NM_027993, intron 1 of 5)	14123.0	NM_001159583	71901.0	Mm.39215	NM_027993	ENSMUSG00000028439	Fam219a	2310028H24Rik	family with sequence similarity 219, member A	protein-coding	18.5	29.0	18.0	379.0	180.0	49.0	86.0	75.0
Merged-chr5-106574711-4	chr5	106574595	106574795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-116529.0	NM_001005477	104382.0	Mm.271593	NM_001005477	ENSMUSG00000034384	Barhl2	E130309B19Rik|MBH1	BarH like homeobox 2	protein-coding	18.0	32.0	20.5	290.0	45.5	7.0	20.0	20.5
Merged-chr8-56294576-4	chr8	56294474	56294674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008278)	promoter-TSS (NM_008278)	22.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	80.5	57.0	79.0	1012.0	125.0	31.0	59.0	45.5
Merged-chr6-124996768-4	chr6	124996677	124996877	+	867.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175696)	promoter-TSS (NM_175696)	57.0	NM_175696	319352.0	Mm.295327	NM_175696	ENSMUSG00000030329	Pianp	AI255183|AU067746|C530028O21Rik|Panp	PILR alpha associated neural protein	protein-coding	4.0	6.0	8.0	69.5	36.5	9.0	7.0	10.0
Merged-chr13-104094990-3	chr13	104094885	104095085	+	798.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029447, intron 1 of 12)	ORR1E|LTR|ERVL-MaLR	14629.0	NM_029447	75805.0	Mm.127692	NM_029447	ENSMUSG00000021710	Nln	4930472G13Rik|C79345	neurolysin (metallopeptidase M3 family)	protein-coding	13.5	16.5	26.5	216.5	14.0	5.5	5.5	4.0
Merged-chr11-21452787-4	chr11	21452693	21452893	+	913.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3B|LINE|L1	58387.0	NR_028259	237694.0	Mm.72926	NM_172792	ENSMUSG00000078962	4932414J04Rik	-	RIKEN cDNA 4932414J04 gene	ncRNA	20.0	18.5	13.5	229.5	46.5	14.5	23.5	21.5
Merged-chr1-149954164-4	chr1	149954059	149954259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	7131.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	47.5	49.5	53.5	884.5	156.0	44.5	55.0	43.5
Merged-chr11-97996007-4	chr11	97995891	97996091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152188, exon 1 of 6)	non-coding (NR_152188, exon 1 of 6)	182.0	NM_207231	217151.0	Mm.277896	NM_207231	ENSMUSG00000038352	Arl5c	Arl12|BC065791	ADP-ribosylation factor-like 5C	protein-coding	48.5	184.0	27.0	319.0	308.5	102.0	77.0	34.5
Merged-chr3-52090339-6	chr3	52090202	52090402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	14704.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	17.0	36.0	18.5	210.0	59.0	28.0	16.5	32.5
Merged-chr2-163765129-3	chr2	163765047	163765247	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-14908.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	68.0	111.0	71.0	1256.0	21.0	2.5	7.0	2.0
Merged-chr7-141476384-4	chr7	141476288	141476488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252588)	promoter-TSS (NM_001252588)	8.0	NM_001252588	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	54.5	71.5	56.0	771.0	141.5	60.0	65.5	55.0
Merged-chr4-141431239-3	chr4	141431140	141431340	+	700.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4865.0	NM_001033374	277744.0	Mm.33952	NM_001033374	ENSMUSG00000070637	Srarp	Gm694	steroid receptor associated and regulated protein	protein-coding	12.5	22.5	5.0	92.0	37.5	4.5	2.5	1.5
Merged-chr2-73041948-4	chr2	73041853	73042053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61507.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	32.5	41.0	24.5	513.0	91.0	32.5	31.0	26.0
Merged-chr11-98941987-4	chr11	98941888	98942088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177303, intron 1 of 8)	intron (NM_001177303, intron 1 of 8)	2277.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	63.0	110.0	51.5	883.5	157.5	58.5	71.5	64.0
Merged-chr11-100570653-4	chr11	100570544	100570744	+	949.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 11 of 11)	intron (NM_028918, intron 11 of 11)	-4295.0	NM_009923	12799.0	Mm.15711	NM_009923	ENSMUSG00000006782	Cnp	CNPase|Cnp-1|Cnp1	2',3'-cyclic nucleotide 3' phosphodiesterase	protein-coding	16.0	24.0	7.0	162.5	34.5	11.0	18.0	26.0
Merged-chr3-121817626-2	chr3	121817526	121817726	+	710.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2324.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	5.5	3.0	7.0	44.0	14.5	5.0	5.0	9.0
Merged-chr16-23290449-4	chr16	23290365	23290565	+	946.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252506)	promoter-TSS (NM_001252506)	-5.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	22.0	31.5	18.0	144.5	34.5	29.0	22.5	8.0
Merged-chr15-88101594-2	chr15	88101504	88101704	+	1000.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-213270.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	34.5	32.5	27.5	570.0	0.0	0.0	0.0	0.0
Merged-chr6-72364284-2	chr6	72364184	72364384	+	952.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001331167, intron 1 of 5)	B2_Mm2|SINE|B2	-1852.0	NM_001331173	66510.0	Mm.170023	NM_025607	ENSMUSG00000055850	Rnf181	1700047F16Rik|2500002L14Rik|6230415N01Rik|C77350	ring finger protein 181	protein-coding	6.5	7.0	8.5	58.5	25.0	11.5	8.0	9.0
Merged-chr7-44405792-4	chr7	44405678	44405878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21652.0	NM_016663	20981.0	Mm.4824	NM_016663	ENSMUSG00000030731	Syt3	AI385753|sytIII	synaptotagmin III	protein-coding	171.5	256.0	177.0	2118.0	325.5	156.0	167.0	148.5
Merged-chr19-44009068-4	chr19	44008987	44009187	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167905, intron 7 of 7)	intron (NM_001167905, intron 7 of 7)	20160.0	NM_001001446	226143.0	Mm.329866	NM_001001446	ENSMUSG00000025197	Cyp2c23	AW107714|BC034834|Cyp2c44|b2b386Clo	cytochrome P450, family 2, subfamily c, polypeptide 23	protein-coding	32.0	33.0	27.0	576.0	38.5	16.5	28.0	27.0
Merged-chr3-55293571-4	chr3	55293475	55293675	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 3 of 16)	intron (NM_001357475, intron 3 of 16)	51211.0	NM_001357466	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	23.0	17.5	17.0	293.0	43.5	23.5	28.0	34.0
Merged-chr4-126541038-4	chr4	126540920	126541120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7562.0	NM_153177	76850.0	Mm.86705	NM_153177	ENSMUSG00000042500	Ago4	5730550L01Rik|AI481660|Eif2c4	argonaute RISC catalytic subunit 4	protein-coding	73.5	70.0	40.5	907.5	128.0	51.5	33.5	50.5
Merged-chr3-97661418-4	chr3	97661329	97661529	+	912.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182997, intron 2 of 7)	MER58A|DNA|hAT-Charlie	3217.0	NM_182997	108097.0	Mm.31175	NM_182997	ENSMUSG00000038205	Prkab2	5730553K21Rik|AW049591|BB124140	protein kinase, AMP-activated, beta 2 non-catalytic subunit	protein-coding	17.0	20.0	9.5	207.5	45.5	8.5	20.5	5.0
Merged-chr8-75067507-4	chr8	75067448	75067648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011622, exon 13 of 15)	exon (NM_011622, exon 13 of 15)	-26070.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	53.0	90.0	103.0	850.5	151.0	51.0	67.5	67.5
Merged-chr16-57181379-4	chr16	57181279	57181479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 14 of 17)	intron (NM_026254, intron 14 of 17)	-14047.0	NM_023175	52633.0	Mm.383203	NM_023175	ENSMUSG00000022751	Nit2	1190017B19Rik|D16Ertd502e	nitrilase family, member 2	protein-coding	179.5	265.0	142.0	2443.5	428.5	142.5	219.5	128.5
Merged-chr7-44358521-4	chr7	44358430	44358630	+	873.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001034115)	TTS (NM_001034115)	16500.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	18.0	19.5	17.0	99.5	36.5	3.0	17.5	26.0
Merged-chr13-37509545-1	chr13	37509445	37509645	+	665.666687	f0_balb.idr	Intergenic	Intergenic	164200.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	7.0	9.0	11.5	68.0	17.5	2.5	4.0	4.5
Merged-chr7-16843870-3	chr7	16843770	16843970	+	680.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_178900, intron 1 of 17)	intron (NM_178900, intron 1 of 17)	805.0	NM_178900	101540.0	Mm.1881	NM_178900	ENSMUSG00000041187	Prkd2	AI325941|PKD2	protein kinase D2	protein-coding	3.5	3.0	3.0	38.0	9.0	4.5	4.5	5.0
Merged-chr5-113812218-4	chr5	113812101	113812301	+	916.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR6B_Mm|LTR|ERV1	-11849.0	NM_146162	231633.0	Mm.41681	NM_146162	ENSMUSG00000054675	Tmem119	AW208946|BC025600|obif	transmembrane protein 119	protein-coding	14.0	42.0	19.5	36.0	42.0	24.5	14.5	8.0
Merged-chr14-72691536-3	chr14	72691444	72691644	+	776.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 1 of 25)	MLT1A|LTR|ERVL-MaLR	18459.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	12.5	17.0	11.0	194.5	28.0	5.5	12.0	4.0
Merged-chr1-131481623-4	chr1	131481537	131481737	+	828.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	45724.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	13.0	24.0	21.0	173.0	31.0	11.5	9.0	9.5
Merged-chr2-22589755-4	chr2	22589663	22589863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32564.0	NM_008078	14417.0	Mm.4784	NM_008078	ENSMUSG00000026787	Gad2	6330404F12Rik|GAD(65)|GAD65|Gad-2	glutamic acid decarboxylase 2	protein-coding	488.0	599.0	725.5	1.5	1243.5	452.0	546.5	389.5
Merged-chr15-95822196-4	chr15	95822074	95822274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	7898.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	173.5	304.0	193.5	2483.5	439.0	150.0	162.5	141.5
Merged-chr5-90682071-4	chr5	90681955	90682155	+	990.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41528.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	38.0	32.0	53.0	808.0	40.5	14.0	35.0	12.0
Merged-chr17-17910315-4	chr17	17910187	17910387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	22463.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	171.0	207.0	155.0	2799.5	654.5	216.5	442.0	246.5
Merged-chr13-67331304-4	chr13	67331201	67331401	+	976.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177622, intron 1 of 4)	ID_B1|SINE|B4	1259.0	NM_177622	218314.0	Mm.289695	NM_177622	ENSMUSG00000057842	Zfp595	A230042K10Rik|Rslcan23	zinc finger protein 595	protein-coding	30.0	36.5	12.0	215.5	72.0	33.0	27.5	18.0
Merged-chr15-97784874-4	chr15	97784766	97784966	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026353, intron 1 of 2)	CpG	501.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	32.5	41.5	22.0	223.5	80.5	27.0	15.5	18.0
Merged-chr18-80294874-4	chr18	80294778	80294978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001190373, exon 4 of 4)	3' UTR (NM_001190373, exon 4 of 4)	38572.0	NM_025861	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	43.5	132.5	38.5	510.0	132.0	57.5	45.5	29.5
Merged-chr9-119093589-4	chr9	119093472	119093672	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_121571)	promoter-TSS (NR_121571)	-70.0	NM_019676	18799.0	Mm.23963	NM_019676	ENSMUSG00000010660	Plcd1	AW212592|C79986	phospholipase C, delta 1	protein-coding	19.0	23.5	17.5	289.5	26.5	11.0	14.0	13.0
Merged-chr7-125601924-4	chr7	125601836	125602036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1493.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	22.0	59.0	35.0	785.0	87.0	39.5	63.5	41.5
Merged-chr5-93129657-4	chr5	93129552	93129752	+	866.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 1 of 9)	intron (NM_001009818, intron 1 of 9)	36236.0	NM_001347377	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	6.5	12.5	9.0	303.5	25.0	11.5	9.5	7.5
Merged-chr5-122354347-4	chr5	122354302	122354502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144912)	promoter-TSS (NM_144912)	74.0	NR_152872	56433.0	Mm.216528	NM_019780	ENSMUSG00000029462	Vps29	2010015D08Rik|AW049835|PEP11	VPS29 retromer complex component	protein-coding	114.5	144.5	62.5	894.0	222.5	100.0	91.5	125.5
Merged-chr2-181187806-4	chr2	181187701	181187901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151465, exon 2 of 4)	non-coding (NR_151465, exon 2 of 4)	554.0	NM_001356427	66496.0	Mm.213943	NM_025598	ENSMUSG00000016344	Ppdpf	0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik	pancreatic progenitor cell differentiation and proliferation factor	protein-coding	112.0	139.0	109.5	1209.0	293.0	97.5	168.5	121.0
Merged-chr15-58423909-4	chr15	58423801	58424001	+	937.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145959, intron 4 of 23)	intron (NM_145959, intron 4 of 23)	8433.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	15.0	22.5	19.5	505.5	22.0	7.0	19.0	33.0
Merged-chr11-116406321-3	chr11	116406207	116406407	+	776.5888669999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 1 of 18)	L1MB7|LINE|L1	6725.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	4.0	5.0	2.0	19.5	27.5	12.0	13.5	14.5
Merged-chr17-10840295-4	chr17	10840224	10840424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016694)	promoter-TSS (NM_016694)	-35.0	NM_001317726	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	260.5	365.5	194.0	3314.5	751.0	308.5	329.5	249.5
Merged-chr2-60851406-4	chr2	60851308	60851508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	30030.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	57.0	112.0	72.0	1115.5	126.0	65.0	76.0	62.0
Merged-chr3-60616333-4	chr3	60616236	60616436	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 6 of 7)	intron (NM_001253711, intron 6 of 7)	115157.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	20.5	53.0	18.5	337.5	66.5	26.5	24.0	32.5
Merged-chr17-28180919-4	chr17	28180779	28180979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172617, intron 2 of 14)	intron (NM_172617, intron 2 of 14)	3461.0	NM_172617	224656.0	Mm.267359	NM_172617	ENSMUSG00000024220	Zfp523	2810027J07|BC025615|Znf76	zinc finger protein 523	protein-coding	50.5	76.5	50.5	747.0	128.0	53.0	75.0	51.0
Merged-chr5-25499114-4	chr5	25499034	25499234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081383)	promoter-TSS (NM_001081383)	-351.0	NM_001081383	231051.0	Mm.332268	NM_001081383	ENSMUSG00000038056	Kmt2c	E330008K23Rik|HALR|Mll3|mKIAA1506	lysine (K)-specific methyltransferase 2C	protein-coding	34.5	43.5	37.0	498.5	107.0	46.5	55.5	46.0
Merged-chr7-134690388-4	chr7	134690299	134690499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	intron (NM_001033420, intron 1 of 51)	19712.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	25.5	47.0	27.0	309.0	81.0	39.0	33.0	28.0
Merged-chr3-88593434-4	chr3	88593336	88593536	+	972.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13828.0	NM_025448	66256.0	Mm.7091	NM_025448	ENSMUSG00000041355	Ssr2	1500032E05Rik|AI315033|AU020133|SSR-beta|TLAP|TRAPB|TRAPbeta	signal sequence receptor, beta	protein-coding	15.5	32.5	12.0	511.5	41.5	19.0	14.5	23.5
Merged-chr2-84602431-3	chr2	84602341	84602541	+	951.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007615, exon 20 of 20)	3' UTR (NM_007615, exon 20 of 20)	47039.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	13.0	8.0	11.5	133.0	15.0	7.5	7.5	13.5
Merged-chr5-3199105-4	chr5	3199021	3199221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144772.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	23.5	35.5	51.0	756.5	55.5	25.0	49.5	42.0
Merged-chr8-80879881-4	chr8	80879781	80879981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001301298, exon 1 of 11)	5' UTR (NM_001301298, exon 1 of 11)	598.0	NM_021356	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	33.0	36.5	21.5	506.0	69.0	19.0	25.0	29.0
Merged-chr16-10990109-4	chr16	10989988	10990188	+	990.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	B3A|SINE|B2	3033.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	28.5	33.0	13.5	247.5	65.0	16.5	27.0	32.0
Merged-chr17-79662045-4	chr17	79661948	79662148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201361, intron 5 of 10)	intron (NM_201361, intron 5 of 10)	47148.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	53.0	59.5	50.0	1013.5	94.5	31.5	46.0	62.0
Merged-chr5-62756018-4	chr5	62755908	62756108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	10169.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	42.0	77.0	32.0	449.5	105.5	33.5	34.5	26.0
Merged-chr19-32255153-3	chr19	32255025	32255225	+	937.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 3 of 9)	intron (NM_144792, intron 3 of 9)	-44112.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	10.5	11.0	17.0	295.5	12.0	3.5	3.5	4.0
Merged-chr4-119004429-3	chr4	119004315	119004515	+	916.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42448.0	NM_133892	100470.0	Mm.26698	NM_133892	ENSMUSG00000024903	Lao1	AW990848	L-amino acid oxidase 1	protein-coding	6.5	33.0	5.5	86.0	36.0	10.0	17.5	4.0
Merged-chr3-145026929-3	chr3	145026824	145027024	+	892.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017474, intron 3 of 13)	intron (NM_017474, intron 3 of 13)	5852.0	NM_017474	23844.0	Mm.33483	NM_017474	ENSMUSG00000028255	Clca1	Clca2|Clca3|gob-5|gob5	chloride channel accessory 1	protein-coding	10.5	12.0	10.5	131.5	13.0	4.0	5.0	6.0
Merged-chr1-181852631-4	chr1	181852516	181852716	+	947.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10215.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	27.5	15.0	31.5	510.0	46.0	10.5	20.5	21.0
Merged-chr17-23187377-4	chr17	23187272	23187472	+	839.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357697, intron 3 of 5)	intron (NM_001357697, intron 3 of 5)	5856.0	NM_009555	22700.0	Mm.437934	NM_009555	ENSMUSG00000002617	Zfp40	CTfin12|NTfin12|Zfp-40	zinc finger protein 40	protein-coding	4.0	12.5	3.5	123.0	36.5	13.5	22.0	10.5
Merged-chr19-10689096-4	chr19	10689010	10689210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361958, intron 1 of 4)	CpG	375.0	NM_001361959	107305.0	Mm.19091	NM_181403	ENSMUSG00000048832	Vps37c	5730409F24Rik|AU042646	vacuolar protein sorting 37C	protein-coding	73.0	153.5	65.5	773.5	144.0	75.5	57.0	72.5
Merged-chr9-40415249-4	chr9	40415136	40415336	+	972.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	-38819.0	NM_001357621	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	14.0	20.5	7.0	173.0	102.5	51.5	50.0	58.0
Merged-chr11-29149066-4	chr11	29148971	29149171	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027869, intron 18 of 27)	intron (NM_027869, intron 18 of 27)	18320.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	7.5	19.0	16.5	249.5	51.0	13.0	17.5	18.5
Merged-chr14-73241495-1	chr14	73241395	73241595	+	564.5	f0_balb.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	3604.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	10.5	10.0	10.0	64.0	10.5	4.0	3.0	5.0
Merged-chr2-131426656-4	chr2	131426564	131426764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65198.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	26.0	45.5	11.0	339.5	67.0	21.5	26.5	21.5
Merged-chr11-110542095-3	chr11	110541991	110542191	+	989.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62751.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	29.5	28.0	11.5	269.0	21.5	3.5	17.5	11.5
Merged-chr4-41124406-4	chr4	41124297	41124497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139236)	promoter-TSS (NM_139236)	-58.0	NM_139236	230082.0	Mm.285797	NM_139236	ENSMUSG00000028430	Nol6	AA410091|Nrap	nucleolar protein family 6 (RNA-associated)	protein-coding	208.0	301.5	175.5	3062.5	530.0	202.0	257.5	206.0
Merged-chr4-62664106-6	chr4	62664042	62664242	+	892.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-9832.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	14.5	18.0	17.5	165.0	15.5	11.0	11.0	13.0
Merged-chr13-12256570-3	chr13	12256452	12256652	+	687.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081128, intron 1 of 32)	intron (NM_001081128, intron 1 of 32)	1561.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	4.0	6.0	16.5	68.0	19.0	5.5	8.5	5.5
Merged-chr13-9249876-4	chr13	9249781	9249981	+	938.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-26644.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	19.5	28.5	48.0	564.5	21.5	15.0	14.5	16.0
Merged-chr17-26514865-4	chr17	26514760	26514960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6388.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	39.0	32.5	22.5	309.0	55.5	25.0	28.5	27.0
Merged-chr13-60488404-3	chr13	60488305	60488505	+	723.600037	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113542.0	NM_001285917	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	0.0	1.0	0.0	22.0	17.5	10.0	10.0	5.0
Merged-chr4-53218263-4	chr4	53218160	53218360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27936.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	63.0	116.5	84.5	1332.5	167.5	63.0	48.0	66.5
Merged-chr8-14911600-4	chr8	14911494	14911694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172751)	promoter-TSS (NM_172751)	-69.0	NM_172751	234094.0	Mm.240298	NM_172751	ENSMUSG00000071176	Arhgef10	6430549H08Rik|mKIAA0294	Rho guanine nucleotide exchange factor (GEF) 10	protein-coding	34.5	60.5	50.0	623.0	102.0	41.5	38.0	32.0
Merged-chr6-140766544-4	chr6	140766429	140766629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	139644.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	30.5	46.0	27.5	565.0	107.5	36.0	40.0	46.0
Merged-chr7-64155971-4	chr7	64155873	64156073	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039104, intron 1 of 26)	intron (NM_001039104, intron 1 of 26)	2138.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	8.5	18.5	16.5	260.0	25.5	10.0	16.5	13.5
Merged-chr14-50944534-4	chr14	50944422	50944622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013632, exon 1 of 6)	5' UTR (NM_013632, exon 1 of 6)	219.0	NM_013632	18950.0	Mm.17932	NM_013632	ENSMUSG00000115338	Pnp	AL024301|AU015798|Np|Np-1|Np-2|Pnp1	purine-nucleoside phosphorylase	protein-coding	110.0	150.5	101.5	1198.0	329.0	130.5	157.5	110.0
Merged-chr16-50841899-4	chr16	50841801	50842001	+	869.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58492.0	NR_131005	78639.0	Mm.160109	NR_131005	ENSMUSG00000092276	1700116B05Rik	-	RIKEN cDNA 1700116B05 gene	ncRNA	6.0	13.5	3.5	180.0	24.0	13.5	11.5	6.0
Merged-chr1-164307570-4	chr1	164307462	164307662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293313)	promoter-TSS (NM_001293313)	-75.0	NM_001357052	66352.0	Mm.33285	NM_025505	ENSMUSG00000026577	Blzf1	1700030G05Rik|Blzf1l|Golgin-45|Jem-1	basic leucine zipper nuclear factor 1	protein-coding	215.5	280.5	185.5	2991.0	570.5	204.0	299.0	193.0
Merged-chr2-91132267-4	chr2	91132164	91132364	+	977.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008653, intron 22 of 31)	intron (NM_008653, intron 22 of 31)	14120.0	NM_008653	17868.0	Mm.10728	NM_008653	ENSMUSG00000002100	Mybpc3	-	myosin binding protein C, cardiac	protein-coding	20.5	38.0	17.0	174.0	42.0	24.5	11.0	10.0
Merged-chr6-66962737-3	chr6	66962642	66962842	+	940.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177560, intron 3 of 4)	intron (NM_001177560, intron 3 of 4)	65851.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	13.0	21.5	24.5	163.5	14.5	10.0	11.5	10.5
Merged-chr1-182341628-4	chr1	182341514	182341714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175127)	promoter-TSS (NM_175127)	-8.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	50.0	57.0	38.0	610.0	114.5	37.5	60.0	35.5
Merged-chr18-38339007-4	chr18	38338940	38339140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011937)	promoter-TSS (NM_011937)	-47.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	95.5	152.5	56.0	1279.5	189.0	85.5	92.5	84.5
Merged-chr8-67506575-4	chr8	67506479	67506679	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER3D-int|LTR|ERVK	11631.0	NM_010874	17961.0	Mm.4695	NM_010874	ENSMUSG00000051147	Nat2	AV377607	N-acetyltransferase 2 (arylamine N-acetyltransferase)	protein-coding	5.5	9.0	17.0	222.5	22.5	7.0	21.0	20.0
Merged-chr13-54209635-4	chr13	54209564	54209764	+	942.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 1 of 3)	intron (NR_153432, intron 1 of 3)	17531.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	23.0	18.0	11.5	140.0	40.0	6.5	12.5	19.5
Merged-chr10-17043172-4	chr10	17043087	17043287	+	835.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038020, intron 1 of 8)	intron (NR_038020, intron 1 of 8)	52595.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	14.5	7.5	11.0	138.0	27.5	7.5	15.0	12.0
Merged-chr3-96562614-4	chr3	96562523	96562723	+	821.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023719)	TTS (NM_023719)	4178.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	7.0	20.0	4.5	61.0	18.5	5.0	10.5	12.5
Merged-chr5-29435204-3	chr5	29435107	29435307	+	898.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033457, exon 1 of 11)	exon (NM_001033457, exon 1 of 11)	540.0	NM_001033457	433864.0	Mm.262815	NM_001033457	ENSMUSG00000001569	Nom1	D5Kng1|Gm1040	nucleolar protein with MIF4G domain 1	protein-coding	13.5	17.5	16.5	222.0	41.5	9.5	11.0	22.5
Merged-chr3-104644139-4	chr3	104644038	104644238	+	801.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009196, intron 1 of 4)	RSINE1|SINE|B4	5474.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	9.5	15.5	10.5	86.0	19.0	3.0	10.0	4.5
Merged-chr18-62250708-4	chr18	62250602	62250802	+	883.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70602.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	26.5	31.0	5.0	159.0	56.0	11.5	13.0	18.0
Merged-chr2-91456057-4	chr2	91455962	91456162	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1469.0	NM_172668	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	20.0	29.0	6.5	143.0	50.0	9.5	4.5	14.0
Merged-chr2-31127396-4	chr2	31127298	31127498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	RMER10A|LTR|ERVL	14610.0	NM_001355106	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	24.5	28.0	18.5	379.5	84.5	18.0	31.0	22.0
Merged-chr3-69699981-4	chr3	69699858	69700058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22097.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	62.5	144.0	56.0	922.0	190.5	59.5	71.5	44.5
Merged-chr5-66083527-4	chr5	66083442	66083642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	B3|SINE|B2	14637.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	36.0	53.5	25.5	351.0	118.0	48.5	39.0	57.5
Merged-chr16-14358727-4	chr16	14358611	14358811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2847.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	39.0	69.5	33.0	574.5	120.0	39.0	55.0	22.0
Merged-chr14-121379945-3	chr14	121379813	121380013	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145465)	promoter-TSS (NM_145465)	-683.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	21.0	13.0	28.0	276.0	47.5	19.5	11.5	44.0
Merged-chr8-11419868-4	chr8	11419788	11419988	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 20 of 47)	intron (NM_009932, intron 20 of 47)	-58041.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	6.5	25.0	9.5	145.0	29.5	6.0	14.5	7.0
Merged-chr3-9796226-2	chr3	9796126	9796326	+	580.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	37453.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	2.0	4.0	10.5	72.5	12.5	5.5	6.5	10.0
Merged-chr6-120042960-4	chr6	120042850	120043050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4295.0	NM_001185021	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	58.5	61.0	59.0	1174.5	72.5	37.0	36.5	39.5
Merged-chr5-62854741-4	chr5	62854653	62854853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 7 of 8)	intron (NM_001170705, intron 7 of 8)	40930.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	27.5	49.0	48.5	492.5	56.5	25.0	23.0	12.5
Merged-chr13-102663633-3	chr13	102663541	102663741	+	723.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29906.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	2.0	3.0	1.0	51.5	29.5	10.5	4.5	13.5
Merged-chr1-86582676-4	chr1	86582602	86582802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172974)	promoter-TSS (NM_172974)	83.0	NM_001360816	18582.0	Mm.12925	NM_008801	ENSMUSG00000026239	Pde6d	AI841218|PrBP/delta	phosphodiesterase 6D, cGMP-specific, rod, delta	protein-coding	89.0	103.5	155.5	1146.0	186.5	76.0	78.0	116.0
Merged-chr3-82799897-3	chr3	82799808	82800008	+	830.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76575.0	NM_001277170	633285.0	Mm.265114	NM_001146328	ENSMUSG00000033882	Rbm46	EG633285|Gm761	RNA binding motif protein 46	protein-coding	11.0	10.5	7.0	199.5	11.0	4.5	7.5	12.0
Merged-chr6-58907131-3	chr6	58907019	58907219	+	884.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021432)	promoter-TSS (NM_021432)	7.0	NM_021432	58243.0	Mm.389747	NM_021432	ENSMUSG00000055430	Nap1l5	1110020M21Rik	nucleosome assembly protein 1-like 5	protein-coding	9.5	7.0	10.5	181.5	8.5	5.5	13.0	6.5
Merged-chr3-41743986-4	chr3	41743909	41744109	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291048, intron 1 of 4)	intron (NM_001291048, intron 1 of 4)	1391.0	NM_027271	73852.0	Mm.29006	NM_027271	ENSMUSG00000025766	D3Ertd751e	2810009O15Rik|4930415G15Rik	DNA segment, Chr 3, ERATO Doi 751, expressed	protein-coding	20.0	22.0	10.0	253.0	87.5	14.5	37.5	28.5
Merged-chr7-80803378-4	chr7	80803252	80803452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016721)	promoter-TSS (NM_016721)	-21.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	220.0	333.0	253.0	3188.5	498.0	213.0	271.0	227.5
Merged-chr9-104002536-4	chr9	104002432	104002632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172460)	promoter-TSS (NM_172460)	-12.0	NM_028721	74025.0	Mm.479273	NM_028721	ENSMUSG00000032558	Nphp3	3632410F03Rik|AI550417|C230078J01|D330020E01Rik|pcy	nephronophthisis 3 (adolescent)	protein-coding	329.5	511.0	283.5	4176.5	875.5	316.5	401.5	292.0
Merged-chr15-86170401-4	chr15	86170308	86170508	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-15320.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	18.0	24.5	29.0	168.0	37.5	19.5	17.0	25.5
Merged-chr2-166357964-2	chr2	166357864	166358064	+	567.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84056.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	2.0	3.5	4.0	47.5	8.5	4.5	11.5	4.5
Merged-chr7-99146252-4	chr7	99146144	99146344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5100.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	92.5	107.5	106.5	1326.5	250.0	85.0	117.0	106.0
Merged-chr6-129498031-4	chr6	129497936	129498136	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138648, intron 3 of 7)	intron (NM_138648, intron 3 of 7)	9129.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	15.5	28.5	19.5	358.5	36.0	8.0	21.5	2.5
Merged-chr7-98655839-4	chr7	98655745	98655945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172280, intron 1 of 19)	CpG	724.0	NM_172280	233545.0	Mm.387819	NM_172280	ENSMUSG00000035401	Emsy	2210018M11Rik|2310016L09Rik|AU019521|AU019557	EMSY, BRCA2-interacting transcriptional repressor	protein-coding	46.5	64.5	43.5	614.5	94.0	41.0	46.0	58.5
Merged-chr10-118795195-4	chr10	118795084	118795284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73719.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	29.0	42.5	39.0	543.5	96.5	19.5	33.0	23.5
Merged-chr15-52712379-4	chr15	52712281	52712481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027212)	promoter-TSS (NM_027212)	-64.0	NM_027212	69790.0	Mm.195562	NM_027212	ENSMUSG00000038622	Med30	1810038N03Rik|2510044J04Rik|TRAP25|Thrap6	mediator complex subunit 30	protein-coding	172.5	240.0	154.0	3389.5	449.5	176.0	248.5	139.0
Merged-chr13-14063572-4	chr13	14063473	14063673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331176)	promoter-TSS (NM_001331176)	-85.0	NM_010282	14593.0	Mm.148039	NM_010282	ENSMUSG00000021302	Ggps1	1810026C22Rik|9530089B04Rik|AI843169|C79210	geranylgeranyl diphosphate synthase 1	protein-coding	467.0	697.0	506.0	7832.5	1077.0	443.5	488.5	390.0
Merged-chr2-90745396-4	chr2	90745259	90745459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018828)	promoter-TSS (NM_018828)	-11.0	NM_018828	55935.0	Mm.489638	NM_018828	ENSMUSG00000008200	Fnbp4	FBP30|Fnbp30|mKIAA1014	formin binding protein 4	protein-coding	297.0	327.0	202.5	2992.0	565.0	280.5	259.5	277.0
Merged-chr2-166714864-3	chr2	166714778	166714978	+	780.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1046.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	4.5	4.5	8.0	88.5	21.5	3.5	3.0	2.5
Merged-chr6-129514412-3	chr6	129514313	129514513	+	807.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081186, intron 2 of 4)	intron (NM_001081186, intron 2 of 4)	1856.0	NM_001081186	330428.0	Mm.44237	NM_001081186	ENSMUSG00000030160	Tmem52b	D630042F21Rik	transmembrane protein 52B	protein-coding	6.0	18.0	8.0	107.0	13.5	10.5	9.5	5.0
Merged-chr11-77515822-3	chr11	77515701	77515901	+	668.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026185, exon 1 of 2)	exon (NM_026185, exon 1 of 2)	684.0	NM_026185	67477.0	Mm.432526	NM_026185	ENSMUSG00000000686	Abhd15	1300007F04Rik	abhydrolase domain containing 15	protein-coding	4.5	6.0	14.0	50.0	17.5	7.0	4.5	11.0
Merged-chr17-88063067-4	chr17	88062972	88063172	+	981.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	intron (NM_001081034, intron 1 of 22)	1860.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	36.5	38.0	20.0	406.5	78.0	18.5	19.0	14.0
Merged-chr6-50559038-2	chr6	50558938	50559138	+	949.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7436.0	NM_007808	13063.0	Mm.35389	NM_007808	ENSMUSG00000063694	Cycs	-	cytochrome c, somatic	protein-coding	3.0	4.0	3.5	66.5	22.0	4.5	7.5	7.0
Merged-chr9-13653195-2	chr9	13653095	13653295	+	752.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013813, intron 1 of 3)	intron (NM_001013813, intron 1 of 3)	-9265.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	5.0	6.5	3.0	56.0	20.0	6.5	4.5	4.5
Merged-chr2-133480667-4	chr2	133480574	133480774	+	959.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71485.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	16.0	12.0	28.5	565.0	46.5	14.5	22.5	9.5
Merged-chr9-21593507-4	chr9	21593360	21593560	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138303)	promoter-TSS (NM_138303)	-629.0	NM_138303	74766.0	Mm.475712	NM_138303	ENSMUSG00000032182	Yipf2	1300010K09Rik	Yip1 domain family, member 2	protein-coding	11.5	24.5	14.0	106.5	36.0	7.5	4.0	7.0
Merged-chr4-102534224-4	chr4	102534126	102534326	+	853.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-35834.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	0.0	12.0	0.0	119.5	49.5	8.5	16.5	23.0
Merged-chr3-83842655-4	chr3	83842548	83842748	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1040.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	28.5	39.0	12.0	391.5	81.0	25.0	19.5	28.5
Merged-chr1-182380834-4	chr1	182380727	182380927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28340.0	NM_173378	209456.0	Mm.287450	NM_173378	ENSMUSG00000026510	Trp53bp2	53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550	transformation related protein 53 binding protein 2	protein-coding	70.5	117.5	105.5	1561.5	208.5	68.5	87.0	89.0
Merged-chr11-6546707-5	chr11	6546554	6546754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190343)	promoter-TSS (NM_001190343)	-233.0	NM_146014	216527.0	Mm.221271	NM_146014	ENSMUSG00000000378	Ccm2	BC029157	cerebral cavernous malformation 2	protein-coding	50.5	67.5	104.5	808.5	158.0	88.5	44.0	99.0
Merged-chr19-4442606-2	chr19	4442506	4442706	+	667.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_045989, intron 1 of 4)	intron (NR_045989, intron 1 of 4)	3047.0	NR_045989	319314.0	Mm.393810	NR_045989	ENSMUSG00000087132	A930001C03Rik	-	RIKEN cDNA A930001C03 gene	ncRNA	5.0	7.5	5.0	35.0	28.0	6.5	9.0	3.0
Merged-chr3-88142327-4	chr3	88142245	88142445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133665)	promoter-TSS (NM_133665)	-27.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	183.5	265.0	214.0	2529.0	479.0	162.0	218.5	213.0
Merged-chr17-29045207-3	chr17	29045122	29045322	+	855.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12562.0	NR_036613	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	12.0	11.0	9.0	43.5	42.5	7.5	6.5	7.5
Merged-chr1-171466226-4	chr1	171466150	171466350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR73|LTR|ERV1	28689.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	34.0	55.0	36.5	373.5	58.5	16.0	38.0	29.5
Merged-chr13-97573271-4	chr13	97573185	97573385	+	890.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046157, intron 2 of 2)	intron (NR_046157, intron 2 of 2)	13285.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	24.5	20.0	20.0	191.0	36.5	15.0	7.0	20.0
Merged-chr11-107510520-4	chr11	107510415	107510615	+	879.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30987.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	6.0	13.0	3.5	111.5	25.5	10.5	14.5	12.0
Merged-chr8-8198638-3	chr8	8198532	8198732	+	836.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	462141.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	6.5	11.0	6.0	196.5	21.0	4.5	12.0	13.5
Merged-chr5-33996510-3	chr5	33996394	33996594	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001001985, exon 1 of 3)	5' UTR (NM_001001985, exon 1 of 3)	510.0	NM_001001985	269642.0	Mm.274610	NM_001001985	ENSMUSG00000048142	Nat8l	1110038O08Rik|Shati	N-acetyltransferase 8-like	protein-coding	24.5	14.5	16.5	240.0	6.0	0.5	3.5	10.0
Merged-chr11-54998453-4	chr11	54998324	54998524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 13 of 24)	intron (NR_138556, intron 13 of 24)	35047.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	14.0	21.5	13.0	223.5	41.5	20.0	21.0	22.5
Merged-chr2-6451410-4	chr2	6451298	6451498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98662.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	20.0	57.5	31.5	580.0	101.0	17.0	43.0	25.0
Merged-chr1-80635893-4	chr1	80635850	80636050	+	923.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	29402.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	5.5	8.5	17.0	179.5	19.0	9.0	7.5	9.5
Merged-chr15-67173287-4	chr15	67173204	67173404	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 1 of 8)	MER44A|DNA|TcMar-Tigger	3578.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	20.5	36.5	17.5	194.5	50.5	6.0	17.5	12.5
Merged-chr11-87426887-4	chr11	87426799	87426999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199293)	promoter-TSS (NM_001199293)	-692.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	66.0	153.0	104.0	884.5	158.5	51.5	80.0	61.5
Merged-chr10-122008901-4	chr10	122008777	122008977	+	900.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	intron (NM_001081037, intron 1 of 21)	38438.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	15.5	42.0	18.0	196.0	16.0	12.5	13.0	5.5
Merged-chr12-54697258-1	chr12	54697158	54697358	+	1000.0	f1_c57bl6.idr	Intergenic	Intergenic	-1364.0	NM_025456	66266.0	Mm.156440	NM_025456	ENSMUSG00000054302	Eapp	1810011O16Rik	E2F-associated phosphoprotein	protein-coding	13.5	31.0	36.5	197.5	28.5	7.0	6.5	4.5
Merged-chr12-99297952-3	chr12	99297849	99298049	+	921.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 3 of 5)	MLT1A|LTR|ERVL-MaLR	-135141.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	14.0	12.0	12.5	163.5	12.0	6.5	7.0	5.0
Merged-chr4-132601491-4	chr4	132601403	132601603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	37436.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	72.0	110.5	72.5	859.0	129.0	52.0	53.5	58.0
Merged-chr4-53225768-2	chr4	53225668	53225868	+	838.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20428.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	5.0	5.5	5.0	63.0	6.0	5.5	5.0	6.0
Merged-chr4-138426884-4	chr4	138426787	138426987	+	938.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7785.0	NM_026689	68350.0	Mm.103413	NM_026689	ENSMUSG00000041241	Mul1	0610009K11Rik|AV000801|Gide	mitochondrial ubiquitin ligase activator of NFKB 1	protein-coding	22.0	42.0	8.5	213.5	59.5	16.0	13.0	22.0
Merged-chr2-83673305-4	chr2	83673207	83673407	+	920.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28729.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	24.0	44.0	19.0	489.0	23.0	14.5	15.5	9.0
Merged-chr4-41073586-4	chr4	41073505	41073705	+	889.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24578.0	NM_016689	11828.0	Mm.34043	NM_016689	ENSMUSG00000028435	Aqp3	AQP-2	aquaporin 3	protein-coding	15.0	15.0	19.5	385.0	41.0	14.5	10.5	11.0
Merged-chr11-20470440-6	chr11	20470134	20470334	+	897.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-73019.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	2.5	4.5	6.5	33.5	11.0	7.5	5.0	7.0
Merged-chr5-23433950-4	chr5	23433830	23434030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026984)	promoter-TSS (NM_026984)	423.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	59.5	100.5	49.5	843.5	195.5	102.5	90.5	75.0
Merged-chr4-55532962-4	chr4	55532851	55533051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010637)	promoter-TSS (NM_010637)	-476.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	149.0	192.5	199.5	2280.0	370.0	172.0	222.5	183.5
Merged-chr5-35631400-4	chr5	35631302	35631502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42639.0	NR_045807	74364.0	Mm.473123	NM_175208	ENSMUSG00000055061	4931431C16Rik	-	RIKEN cDNA 4931431C16 gene	ncRNA	21.5	53.0	45.5	858.0	66.0	28.5	60.0	36.0
Merged-chr1-92921021-4	chr1	92920827	92921027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_181405)	TTS (NM_181405)	10102.0	NM_181405	108657.0	Mm.200971	NM_181405	ENSMUSG00000026269	Rnpepl1	1110014H17Rik|AI894167	arginyl aminopeptidase (aminopeptidase B)-like 1	protein-coding	40.5	46.5	37.5	749.5	67.5	32.0	36.0	37.0
Merged-chr6-89422767-4	chr6	89422676	89422876	+	947.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	intron (NM_001167736, intron 4 of 6)	-60163.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	14.0	19.0	13.0	145.5	47.0	11.5	22.5	16.0
Merged-chr4-3812691-4	chr4	3812578	3812778	+	940.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	22977.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	33.0	49.0	11.0	121.0	55.5	40.5	35.5	33.0
Merged-chr15-101375124-4	chr15	101375027	101375227	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5002.0	NM_028770	74127.0	Mm.440055	NM_028770	ENSMUSG00000037185	Krt80	1200016G03Rik|2310041I20Rik|Kb20	keratin 80	protein-coding	33.5	52.5	45.0	696.5	63.0	18.5	22.0	16.5
Merged-chr5-100636979-4	chr5	100636873	100637073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37283.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	26.0	34.0	30.5	340.0	100.5	12.0	34.5	43.0
Merged-chr5-120518916-2	chr5	120518816	120519016	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	B1_Mus1|SINE|Alu	7724.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	5.0	8.0	6.0	33.5	7.0	3.5	10.5	7.5
Merged-chr12-3823492-2	chr12	3823392	3823592	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	16332.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	28.5	11.5	14.0	286.0	27.0	15.5	9.0	18.0
Merged-chr5-75978410-3	chr5	75978338	75978538	+	953.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010612)	promoter-TSS (NM_010612)	-10.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	9.0	12.0	18.5	175.5	2.5	1.5	3.0	6.0
Merged-chr2-46245944-4	chr2	46245835	46246035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	549330.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	33.5	41.0	34.5	556.0	98.5	28.0	32.0	22.0
Merged-chr7-143139058-2	chr7	143138958	143139158	+	931.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_008434, intron 1 of 15)	intron (NM_008434, intron 1 of 15)	31804.0	NM_008434	16535.0	Mm.439769	NM_008434	ENSMUSG00000009545	Kcnq1	AW559127|KVLQT1|Kcna9	potassium voltage-gated channel, subfamily Q, member 1	protein-coding	5.5	8.5	5.0	43.0	8.0	2.5	1.5	6.5
Merged-chr13-49216122-4	chr13	49216037	49216237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026738)	promoter-TSS (NM_026738)	-111.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	215.5	397.5	195.0	2709.5	491.5	214.5	252.5	232.0
Merged-chr10-75326775-4	chr10	75326660	75326860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009630, intron 2 of 2)	MIR3|SINE|MIR	1902.0	NM_001331096	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	27.0	43.0	30.5	401.5	145.5	50.5	55.5	39.0
Merged-chr7-141458551-4	chr7	141458453	141458653	+	919.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025802, intron 5 of 7)	intron (NM_025802, intron 5 of 7)	-2541.0	NM_001025103	213573.0	Mm.386851	NM_001025103	ENSMUSG00000048200	Cracr2b	6330520A15Rik|BC026645|Cracr2a|Efcab4|Efcab4a	calcium release activated channel regulator 2B	protein-coding	28.5	17.5	9.5	160.0	34.5	16.0	18.5	9.5
Merged-chr11-70452250-4	chr11	70452156	70452356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025397, exon 2 of 3)	exon (NM_025397, exon 2 of 3)	325.0	NM_025397	66172.0	Mm.46424	NM_025397	ENSMUSG00000018923	Med11	1110030J09Rik|AI465144|AW545069	mediator complex subunit 11	protein-coding	150.0	235.0	76.5	1539.5	237.5	95.0	113.0	101.0
Merged-chr15-25413650-4	chr15	25413532	25413732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027376)	promoter-TSS (NR_027376)	132.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	37.0	39.5	55.0	484.0	68.5	37.0	30.5	32.0
Merged-chr8-84989556-4	chr8	84989461	84989661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1034.0	NM_133255	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	34.5	59.5	40.5	780.0	92.5	20.5	64.0	48.5
Merged-chr6-54992972-4	chr6	54992868	54993068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026637)	promoter-TSS (NM_026637)	-101.0	NM_026637	110175.0	Mm.294708	NM_026637	ENSMUSG00000002797	Ggct	A030007L17Rik|AA673177|Gctg|Ggc	gamma-glutamyl cyclotransferase	protein-coding	402.5	498.0	403.5	6028.5	794.5	340.5	406.5	282.5
Merged-chr18-31910710-4	chr18	31910636	31910836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026006, exon 1 of 1)	exon (NM_026006, exon 1 of 1)	1167.0	NM_026006	67158.0	Mm.31537	NM_026006	ENSMUSG00000044982	Sft2d3	2610206C24Rik|AI847965|AW046173	SFT2 domain containing 3	protein-coding	132.5	181.0	140.5	2396.5	358.0	140.0	177.5	162.5
Merged-chr17-35439062-4	chr17	35438958	35439158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201460)	promoter-TSS (NM_001201460)	-97.0	NM_010394	15018.0	Mm.431282	NM_010394	ENSMUSG00000060550	H2-Q7	H-2Q7|Ped|Q9|Qa-2|Qa-7|Qa7	histocompatibility 2, Q region locus 7	protein-coding	234.5	422.5	224.0	2163.5	1028.5	382.5	344.5	303.0
Merged-chr19-53903246-4	chr19	53903138	53903338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168492)	promoter-TSS (NM_001168492)	-113.0	NM_001168492	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	187.5	238.5	179.5	2622.5	604.0	214.5	252.0	196.0
Merged-chr17-42912358-4	chr17	42912260	42912460	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35936.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	21.0	19.5	38.5	861.5	111.0	35.5	36.0	39.0
Merged-chr10-121488292-3	chr10	121488226	121488426	+	858.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-12076.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	8.5	12.5	10.5	86.5	22.0	2.0	6.0	10.5
Merged-chr11-69580340-4	chr11	69580248	69580448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011640)	promoter-TSS (NM_011640)	-11.0	NM_011640	22059.0	Mm.222	NM_011640	ENSMUSG00000059552	Trp53	Tp53|bbl|bfy|bhy|p44|p53	transformation related protein 53	protein-coding	43.0	82.5	32.5	440.0	127.5	61.0	46.5	54.5
Merged-chr18-60710902-3	chr18	60710818	60711018	+	957.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348100, intron 2 of 14)	intron (NM_001348100, intron 2 of 14)	16648.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	15.0	17.5	10.0	116.5	12.0	8.0	9.5	8.5
Merged-chr11-98193124-7	chr11	98192981	98193181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013634)	promoter-TSS (NM_013634)	-175.0	NM_013634	19014.0	Mm.12926	NM_013634	ENSMUSG00000018160	Med1	AI480703|CRSP210|DRIP205|PBP|Pparbp|TRAP220|TRIP-2|l11Jus15	mediator complex subunit 1	protein-coding	26.0	47.0	28.5	330.5	100.5	44.5	35.5	34.5
Merged-chr3-89422806-4	chr3	89422773	89422973	+	783.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011368, intron 2 of 12)	intron (NM_011368, intron 2 of 12)	1252.0	NM_001113331	20416.0	Mm.86595	NM_011368	ENSMUSG00000042626	Shc1	Shc|ShcA|p66|p66shc	src homology 2 domain-containing transforming protein C1	protein-coding	5.0	9.0	6.0	48.5	16.5	7.0	7.0	6.0
Merged-chr5-141014394-4	chr5	141014296	141014496	+	996.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13800.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	23.5	24.5	10.0	266.0	59.0	20.5	28.0	33.5
Merged-chr17-85574778-3	chr17	85574676	85574876	+	888.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43620.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	13.0	23.0	20.5	278.5	9.0	7.0	5.0	5.0
Merged-chr1-184622128-4	chr1	184622077	184622277	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64486.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	13.0	9.0	20.5	97.0	16.0	10.0	9.0	11.0
Merged-chr1-55613112-4	chr1	55613007	55613207	+	871.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	207161.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	8.5	7.5	15.5	251.5	28.0	8.0	9.5	7.5
Merged-chr19-61140856-4	chr19	61140766	61140966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131953)	promoter-TSS (NR_131953)	-26.0	NR_131954	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	142.5	208.0	119.0	2023.0	293.0	131.5	174.0	122.5
Merged-chr12-80046792-4	chr12	80046698	80046898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	66215.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	144.0	234.5	207.0	2230.0	306.5	131.5	130.0	138.0
Merged-chr5-110174553-4	chr5	110174446	110174646	+	861.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040430, intron 1 of 2)	RLTR31D_MM|LTR|ERVK	1958.0	NR_040431	100504007.0	Mm.441495	NR_040430	ENSMUSG00000086247	Gm15787	-	predicted gene 15787	ncRNA	7.0	9.0	8.5	160.5	30.5	9.5	9.0	9.0
Merged-chr19-46709211-3	chr19	46709105	46709305	+	819.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020577, intron 4 of 10)	intron (NM_020577, intron 4 of 10)	1762.0	NM_020577	57344.0	Mm.28566	NM_020577	ENSMUSG00000003559	As3mt	2310045H08Rik|Cyt19	arsenic (+3 oxidation state) methyltransferase	protein-coding	13.0	12.5	11.0	207.5	4.0	0.0	2.0	1.0
Merged-chr15-66454158-4	chr15	66454038	66454238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019457, exon 5 of 12)	exon (NM_019457, exon 5 of 12)	46772.0	NM_019457	54562.0	Mm.244890	NM_019457	ENSMUSG00000022375	Lrrc6	LRTP	leucine rich repeat containing 6 (testis)	protein-coding	34.5	52.5	22.5	902.5	95.0	41.5	45.0	45.0
Merged-chr2-173784563-4	chr2	173784467	173784667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019806)	TTS (NM_019806)	46996.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	96.0	99.5	76.0	1632.5	142.0	46.5	81.0	53.5
Merged-chr15-9572064-4	chr15	9571974	9572174	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42198.0	NM_008372	16197.0	Mm.389	NM_008372	ENSMUSG00000003882	Il7r	CD127|IL-7Ralpha	interleukin 7 receptor	protein-coding	11.0	6.0	11.5	230.0	18.0	6.0	10.0	15.0
Merged-chr5-110269291-3	chr5	110269230	110269430	+	657.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028273, intron 1 of 5)	intron (NM_028273, intron 1 of 5)	569.0	NM_028273	72542.0	Mm.61682	NM_028273	ENSMUSG00000029500	Pgam5	2610528A17Rik	phosphoglycerate mutase family member 5	protein-coding	6.0	9.0	12.5	69.5	16.0	6.0	3.5	3.0
Merged-chr1-37559530-1	chr1	37559430	37559630	+	589.0	f0_balb.idr	Intergenic	Intergenic	-18514.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	12.0	25.5	9.5	60.0	30.0	10.0	6.5	5.5
Merged-chr6-97826878-4	chr6	97826779	97826979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	19821.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	54.0	124.5	59.0	1095.5	146.0	61.0	58.0	36.0
Merged-chr12-85477938-4	chr12	85477846	85478046	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010234)	TTS (NM_010234)	4056.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	44.5	47.5	17.5	238.0	104.5	40.5	20.0	47.0
Merged-chr19-16874635-3	chr19	16874554	16874754	+	741.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008023)	promoter-TSS (NM_008023)	-824.0	NM_008023	14240.0	Mm.7971	NM_008023	ENSMUSG00000056829	Foxb2	Fkh4	forkhead box B2	protein-coding	10.5	12.5	22.0	144.5	15.5	5.0	1.0	11.5
Merged-chr6-126955912-3	chr6	126955811	126956011	+	699.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_138594, exon 9 of 14)	exon (NM_138594, exon 9 of 14)	15945.0	NM_138594	28040.0	Mm.44228	NM_138594	ENSMUSG00000030347	D6Wsu163e	C12orf4	DNA segment, Chr 6, Wayne State University 163, expressed	protein-coding	5.0	8.0	8.5	81.5	35.5	5.0	11.0	7.0
Merged-chr9-107555282-4	chr9	107555188	107555388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019713, intron 1 of 4)	intron (NM_019713, intron 1 of 4)	705.0	NM_019713	56289.0	Mm.12091	NM_019713	ENSMUSG00000010067	Rassf1	123F2|AA536941|AU044980|NORE2A|RDA32|REH3P21|Rassf1A|Rassf1B|Rassf1C	Ras association (RalGDS/AF-6) domain family member 1	protein-coding	66.0	73.5	38.0	515.0	139.0	65.0	65.0	78.5
Merged-chr13-100152852-4	chr13	100152751	100152951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 12 of 15)	intron (NM_001126182, intron 12 of 15)	27996.0	NM_011420	20595.0	Mm.2025	NM_011420	ENSMUSG00000021645	Smn1	AI849087|Gemin1|Smn	survival motor neuron 1	protein-coding	125.5	172.0	86.0	1635.0	256.5	107.0	105.5	84.0
Merged-chr18-44757895-4	chr18	44757803	44758003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 2 of 18)	MTD|LTR|ERVL-MaLR	54279.0	NM_001085373	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	76.5	83.5	62.5	1834.0	157.0	66.5	68.5	75.0
Merged-chr11-21220920-4	chr11	21220821	21221021	+	976.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18111.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	34.0	52.0	12.0	558.5	96.0	22.0	35.0	39.0
Merged-chr5-99582260-4	chr5	99582183	99582383	+	892.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	146777.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	21.0	17.0	13.0	322.0	19.0	7.5	15.5	9.5
Merged-chr12-80643832-4	chr12	80643739	80643939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026244)	promoter-TSS (NM_026244)	272.0	NM_007951	13877.0	Mm.246551	NM_007951	ENSMUSG00000021131	Erh	Mer|Prei1	ERH mRNA splicing and mitosis factor	protein-coding	59.5	61.0	32.0	686.5	156.0	43.5	59.5	51.5
Merged-chr3-79844171-4	chr3	79844027	79844227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1465.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	47.5	46.5	34.5	716.0	69.0	25.0	38.5	31.0
Merged-chr10-81303931-3	chr10	81303853	81304053	+	947.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	intron (NM_001293647, intron 1 of 17)	10990.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	20.5	18.0	8.5	193.5	32.0	8.0	8.0	7.5
Merged-chr2-35135684-4	chr2	35135581	35135781	+	890.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_012018, exon 13 of 44)	exon (NM_012018, exon 13 of 44)	3447.0	NM_001290635	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	13.5	16.5	22.0	348.5	19.5	14.0	25.0	12.5
Merged-chr19-59076334-4	chr19	59076234	59076434	+	762.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175172)	promoter-TSS (NM_175172)	-265.0	NM_001114312	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	2.5	8.0	4.0	154.0	27.5	10.0	5.5	7.5
Merged-chr19-5023767-5	chr19	5023703	5023903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007854)	promoter-TSS (NM_007854)	-203.0	NM_007854	13340.0	Mm.4930	NM_007854	ENSMUSG00000024891	Slc29a2	Der12|Ent2|Hnp36	solute carrier family 29 (nucleoside transporters), member 2	protein-coding	53.5	126.0	53.5	452.0	127.0	32.0	45.0	36.0
Merged-chr7-35064486-4	chr7	35064393	35064593	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-7927.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	27.5	46.0	31.5	372.5	29.0	20.0	18.5	22.5
Merged-chr8-4404415-3	chr8	4404322	4404522	+	960.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	54834.0	NM_009138	20300.0	Mm.7275	NM_009138	ENSMUSG00000023235	Ccl25	A130072A22Rik|AI852536|CKb15|Scya25|TECK	chemokine (C-C motif) ligand 25	protein-coding	11.5	14.5	25.0	265.5	11.0	9.0	15.0	10.0
Merged-chr5-113180384-3	chr5	113180213	113180413	+	910.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17000.0	NM_172884	243219.0	Mm.160131	NM_172884	ENSMUSG00000051339	2900026A02Rik	8430408O14Rik|A530094D01|AW539426|Gm449|Kiaa1671|mKIAA1671	RIKEN cDNA 2900026A02 gene	protein-coding	4.5	12.0	7.0	75.0	13.5	9.5	3.5	4.5
Merged-chr3-137293319-3	chr3	137293206	137293406	+	928.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47772.0	NM_001163522	59308.0	Mm.27343	NM_016885	ENSMUSG00000054690	Emcn	0610012K22Rik|AI315669|Muc14	endomucin	protein-coding	8.0	10.5	14.0	139.5	14.0	8.5	5.5	7.0
Merged-chr3-127398517-3	chr3	127398416	127398616	+	947.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327939, intron 1 of 45)	intron (NM_001327939, intron 1 of 45)	10542.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	1.0	0.0	45.5	35.5	24.0	27.5
Merged-chr2-142610812-4	chr2	142610722	142610922	+	803.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	290642.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	6.5	11.5	7.0	145.5	26.5	12.0	17.0	4.0
Merged-chr3-118070297-4	chr3	118070186	118070386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-201350.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	52.0	53.5	110.0	1635.5	102.0	26.5	43.5	30.5
Merged-chr15-74934284-4	chr15	74934167	74934367	+	895.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20784.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	4.5	12.5	4.0	70.0	46.0	25.5	23.0	10.5
Merged-chr12-78919502-4	chr12	78919405	78919605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12567.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	35.0	53.5	26.5	409.5	86.0	30.0	39.0	44.0
Merged-chr14-14012568-4	chr14	14012491	14012691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139227)	promoter-TSS (NM_139227)	100.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	70.5	56.5	84.0	1211.5	147.0	48.0	75.0	51.0
Merged-chr10-111156610-3	chr10	111156507	111156707	+	996.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8195.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	17.0	26.5	21.0	283.5	10.5	2.5	9.0	13.5
Merged-chr2-30626182-4	chr2	30626077	30626277	+	916.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	31133.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	21.5	26.0	8.5	98.5	32.5	11.5	6.0	13.0
Merged-chr10-37400507-4	chr10	37400417	37400617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-261591.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	30.5	43.5	26.5	804.0	119.5	24.5	44.5	36.0
Merged-chr9-45113171-3	chr9	45113075	45113275	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033547, intron 1 of 2)	intron (NR_033547, intron 1 of 2)	-4701.0	NM_001014761	72821.0	Mm.229373	NM_001014761	ENSMUSG00000070304	Scn2b	2810451E09Rik|AI840361|Gm183	sodium channel, voltage-gated, type II, beta	protein-coding	37.0	62.5	20.5	492.5	13.5	4.5	6.0	5.5
Merged-chr5-113910714-3	chr5	113910623	113910823	+	807.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2017.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	9.5	8.0	11.5	168.0	13.5	2.0	7.5	6.5
Merged-chr10-57463518-4	chr10	57463402	57463602	+	925.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22851.0	NR_045353	74928.0	Mm.416643	NR_045353	ENSMUSG00000097370	4930467K11Rik	-	RIKEN cDNA 4930467K11 gene	ncRNA	16.5	21.5	12.5	264.0	59.0	12.5	24.0	11.0
Merged-chr9-108053063-4	chr9	108052972	108053172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177275)	promoter-TSS (NM_177275)	-87.0	NM_177275	320844.0	Mm.449806	NM_177275	ENSMUSG00000032593	Amigo3	E430002N15Rik|ali3|mKIAA1851	adhesion molecule with Ig like domain 3	protein-coding	92.0	157.0	86.5	1330.5	232.0	91.0	102.0	95.5
Merged-chr3-96593551-3	chr3	96593493	96593693	+	815.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027241, intron 1 of 7)	RSINE1|SINE|B4	588.0	NM_027241	69870.0	Mm.292739	NM_027241	ENSMUSG00000028104	Polr3gl	2010003I19Rik	polymerase (RNA) III (DNA directed) polypeptide G like	protein-coding	5.0	10.0	6.5	73.5	9.0	6.0	1.0	5.5
Merged-chr7-13302989-4	chr7	13302904	13303104	+	921.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083188, intron 19 of 28)	intron (NM_001083188, intron 19 of 28)	-22663.0	NM_001168504	232889.0	Mm.223639	NM_001004762	ENSMUSG00000033847	Pla2g4c	D7Ertd445e	phospholipase A2, group IVC (cytosolic, calcium-independent)	protein-coding	13.0	4.5	17.0	300.0	33.0	5.5	17.0	14.0
Merged-chr1-183668041-3	chr1	183667955	183668155	+	746.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80922.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	12.5	9.0	9.5	154.0	5.5	6.0	4.5	5.5
Merged-chr5-140597342-4	chr5	140597214	140597414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10027.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	66.5	75.0	52.0	714.0	94.5	32.5	40.5	27.0
Merged-chr7-100950683-4	chr7	100950589	100950789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	L2|LINE|L2	13677.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	123.0	172.5	178.5	2137.5	168.5	82.0	130.0	102.5
Merged-chr11-59169998-3	chr11	59169907	59170107	+	940.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6262.0	NM_173785	216792.0	Mm.266175	NM_173785	ENSMUSG00000049287	Iba57	4930543L23Rik|A230051G13Rik|C1orf69	IBA57 homolog, iron-sulfur cluster assembly	protein-coding	21.0	16.5	10.0	170.0	7.5	1.0	1.5	2.0
Merged-chr3-59342669-4	chr3	59342563	59342763	+	833.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162884, intron 1 of 6)	L1_Mm|LINE|L1	1593.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	14.0	12.0	11.0	125.0	26.5	5.0	12.0	4.0
Merged-chr5-134932291-4	chr5	134932199	134932399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024479)	promoter-TSS (NM_024479)	-74.0	NM_001359536	79565.0	Mm.34235	NM_024479	ENSMUSG00000040557	Mettl27	AW492986|BC002286|Wbscr27	methyltransferase like 27	protein-coding	70.5	112.5	39.0	854.0	133.0	44.5	50.0	63.0
Merged-chr11-96978350-2	chr11	96978250	96978450	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080964)	promoter-TSS (NM_001080964)	-662.0	NM_001080964	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	3.5	2.5	1.5	48.0	21.0	13.0	8.0	9.0
Merged-chr13-91037501-3	chr13	91037392	91037592	+	828.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 4 of 7)	PB1D7|SINE|Alu	114370.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	12.0	10.5	12.0	250.5	11.5	7.5	11.0	4.5
Merged-chr17-83397493-3	chr17	83397390	83397590	+	937.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357886, intron 1 of 21)	intron (NM_001357886, intron 1 of 21)	46559.0	NM_001357886	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	10.0	16.5	13.5	266.5	18.5	5.5	7.5	22.5
Merged-chr17-26716345-4	chr17	26716263	26716463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029870, intron 1 of 8)	CpG	713.0	NM_029870	77128.0	Mm.275414	NM_029870	ENSMUSG00000048249	Crebrf	A930001N09Rik|LRF	CREB3 regulatory factor	protein-coding	203.5	215.0	159.5	2837.5	381.5	164.5	221.0	159.5
Merged-chr14-45658213-4	chr14	45658125	45658325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039106)	promoter-TSS (NM_001039106)	-82.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	149.5	241.5	166.5	2487.5	547.0	244.0	232.0	168.0
Merged-chr6-89448996-4	chr6	89448902	89449102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	intron (NM_001167736, intron 4 of 6)	-86389.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	67.0	67.5	76.5	1258.0	118.0	35.0	55.5	42.0
Merged-chr4-59837943-4	chr4	59837810	59838010	+	894.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	intron (NM_172468, intron 1 of 8)	32260.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	16.0	13.0	9.5	229.5	32.5	8.0	12.0	9.0
Merged-chr11-116197696-3	chr11	116197562	116197762	+	692.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271898, intron 2 of 13)	intron (NM_001271898, intron 2 of 13)	-1193.0	NM_027107	69535.0	Mm.390347	NM_027107	ENSMUSG00000020778	Ten1	2310004N24Rik	TEN1 telomerase capping complex subunit	protein-coding	6.5	4.5	10.5	196.5	6.0	2.5	1.5	5.5
Merged-chr10-18055526-4	chr10	18055454	18055654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111065)	promoter-TSS (NM_001111065)	-386.0	NM_009048	19707.0	Mm.4479	NM_009048	ENSMUSG00000019854	Reps1	BB161292	RalBP1 associated Eps domain containing protein	protein-coding	84.5	121.0	108.0	1435.0	227.0	88.0	109.5	92.5
Merged-chr9-14523833-4	chr9	14523741	14523941	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23222.0	NM_023153	66070.0	Mm.245938	NM_023153	ENSMUSG00000004096	Cwc15	0610040D20Rik|2900052N06Rik|Ed1|c11orf5|mED1	CWC15 spliceosome-associated protein	protein-coding	5.5	19.5	7.0	140.0	37.5	8.0	14.5	15.5
Merged-chr19-11121323-5	chr19	11121213	11121413	+	836.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 1 of 6)	intron (NM_027058, intron 1 of 6)	9565.0	NM_027058	69369.0	Mm.391200	NM_027058	ENSMUSG00000024729	1700017D01Rik	-	RIKEN cDNA 1700017D01 gene	protein-coding	9.5	9.5	13.5	40.0	10.5	8.0	2.0	10.0
Merged-chr19-34685053-1	chr19	34684953	34685153	+	812.5	f0_balb.idr	intron (NM_172838, intron 2 of 6)	intron (NM_172838, intron 2 of 6)	44164.0	NM_008331	15957.0	Mm.439751	NM_008331	ENSMUSG00000034459	Ifit1	ISG56|Ifi56|P56	interferon-induced protein with tetratricopeptide repeats 1	protein-coding	11.0	12.5	11.5	268.0	5.5	1.0	3.5	5.5
Merged-chr10-127593668-3	chr10	127593555	127593755	+	886.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 9 of 88)	intron (NM_008512, intron 9 of 88)	27493.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	6.0	6.5	9.0	71.0	16.5	5.5	6.0	8.5
Merged-chr1-192770682-4	chr1	192770601	192770801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 1 of 11)	CpG	518.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	49.0	75.5	43.5	1006.5	163.0	46.0	66.0	65.0
Merged-chr15-98683364-4	chr15	98683272	98683472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5911.0	NM_172612	223881.0	Mm.274010	NM_172612	ENSMUSG00000054855	Rnd1	A830014L09Rik|Arhs	Rho family GTPase 1	protein-coding	25.0	74.5	26.5	241.5	104.0	37.5	25.0	42.0
Merged-chr9-89205595-4	chr9	89205498	89205698	+	880.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007534, intron 1 of 1)	intron (NM_007534, intron 1 of 1)	-5592.0	NM_026829	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	18.5	46.0	9.0	56.0	40.0	13.0	14.5	8.5
Merged-chr14-31436141-4	chr14	31436033	31436233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011894)	promoter-TSS (NM_011894)	-33.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	224.5	380.0	199.0	2939.5	500.0	195.0	265.0	179.0
Merged-chr12-64965648-4	chr12	64965556	64965756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025707)	promoter-TSS (NM_025707)	-86.0	NM_177805	328108.0	Mm.138465	NM_177805	ENSMUSG00000035614	Togaram1	A430041B07Rik|BC062107|C130034K06|Fam179b|mKIAA0423	TOG array regulator of axonemal microtubules 1	protein-coding	363.5	506.0	405.0	6726.5	812.5	325.5	421.5	282.5
Merged-chr19-46515551-3	chr19	46515463	46515663	+	936.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053100, exon 6 of 6)	exon (NM_053100, exon 6 of 6)	13915.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	12.5	8.5	20.0	127.5	28.0	2.0	7.0	3.0
Merged-chr2-83812692-4	chr2	83812592	83812792	+	948.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175514)	promoter-TSS (NM_175514)	-36.0	NM_175514	241520.0	Mm.330351	NM_175514	ENSMUSG00000048388	Fam171b	D430039N05Rik	family with sequence similarity 171, member B	protein-coding	23.5	22.5	36.5	358.0	30.0	26.0	17.5	15.5
Merged-chr14-120832452-2	chr14	120832348	120832548	+	899.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-78746.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	16.0	7.0	14.5	270.5	27.5	13.0	16.0	9.5
Merged-chr7-132931110-4	chr7	132931016	132931216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362198)	promoter-TSS (NM_001362198)	-26.0	NM_207302	360216.0	Mm.389984	NM_207302	ENSMUSG00000030967	Zranb1	9330160G10Rik|D7Wsu87e|Gm1956|Trabid	zinc finger, RAN-binding domain containing 1	protein-coding	186.5	290.5	171.5	2636.5	527.5	222.5	240.5	177.5
Merged-chr9-74952233-4	chr9	74952118	74952318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113283)	promoter-TSS (NM_001113283)	-662.0	NM_001359816	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	42.5	40.5	37.5	706.5	175.5	63.5	90.0	67.5
Merged-chr12-99986963-1	chr12	99986863	99987063	+	811.0	f0_balb.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	22464.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	14.5	11.0	8.5	82.5	10.0	5.0	2.0	6.0
Merged-chr12-83812104-2	chr12	83812004	83812204	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001272055, intron 2 of 8)	B3|SINE|B2	30254.0	NM_001272055	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	5.0	5.0	5.5	22.5	15.5	4.5	2.0	8.5
Merged-chr16-78376087-7	chr16	78375941	78376141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001297747, intron 1 of 4)	CpG	716.0	NR_002700	654432.0	Mm.458574	NR_002700	ENSMUSG00000044645	Gm7334	EG654432	B-cell translocation gene 3 pseudogene	pseudo	26.5	46.0	31.5	377.0	70.5	19.5	33.5	28.0
Merged-chr14-55794063-4	chr14	55793952	55794152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5195.0	NM_001164108	56532.0	Mm.46612	NM_019955	ENSMUSG00000022221	Ripk3	2610528K09Rik|AW107945|Rip3	receptor-interacting serine-threonine kinase 3	protein-coding	25.0	34.5	23.5	275.0	82.5	35.0	27.0	38.5
Merged-chr10-24312348-4	chr10	24312261	24312461	+	910.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88844.0	NM_021509	59012.0	Mm.285934	NM_021509	ENSMUSG00000020000	Moxd1	3230402N08Rik|MNCb-5203	monooxygenase, DBH-like 1	protein-coding	18.5	26.0	24.0	240.0	20.5	13.0	8.5	10.5
Merged-chr8-33730830-4	chr8	33730710	33730910	+	992.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1104.0	NM_001167921	68153.0	Mm.286104	NM_026584	ENSMUSG00000031585	Gtf2e2	34kDa|AI462509|C330006J08Rik	general transcription factor II E, polypeptide 2 (beta subunit)	protein-coding	29.0	18.0	21.0	295.5	56.0	22.0	13.0	25.0
Merged-chr10-128097351-3	chr10	128097275	128097475	+	970.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054078, intron 2 of 29)	CpG	4592.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	10.0	21.5	20.0	161.5	19.0	3.0	7.5	22.0
Merged-chr2-131095040-3	chr2	131094937	131095137	+	901.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8272.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	11.5	10.5	1.0	109.5	20.5	7.5	8.5	8.0
Merged-chr14-60841474-2	chr14	60841374	60841574	+	801.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027436, intron 14 of 18)	intron (NM_027436, intron 14 of 18)	56908.0	NR_040642	70478.0	Mm.274650	NM_027436	ENSMUSG00000021993	Mipep	5730405E07Rik|MIP	mitochondrial intermediate peptidase	protein-coding	2.5	3.5	12.5	75.0	14.0	6.5	6.5	17.5
Merged-chr17-25140469-4	chr17	25140338	25140538	+	978.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317404, intron 1 of 24)	intron (NM_001317404, intron 1 of 24)	3807.0	NM_001317404	26373.0	Mm.270587	NM_011930	ENSMUSG00000036636	Clcn7	ClC-7|D17Wsu51e	chloride channel, voltage-sensitive 7	protein-coding	16.0	51.5	21.5	159.5	85.5	36.5	21.5	28.0
Merged-chr13-58148596-3	chr13	58148485	58148685	+	686.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126543, exon 2 of 2)	non-coding (NR_126543, exon 2 of 2)	1636.0	NR_126543	67339.0	Mm.121929	NR_126543	ENSMUSG00000097717	1700066J03Rik	-	RIKEN cDNA 1700066J03 gene	ncRNA	2.5	15.5	5.5	64.0	10.0	9.0	5.0	7.5
Merged-chr4-119125713-4	chr4	119125624	119125824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 2 of 9)	intron (NM_011400, intron 2 of 9)	16979.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	57.5	108.5	76.5	1312.5	248.0	78.5	145.0	88.5
Merged-chr17-27119379-3	chr17	27119270	27119470	+	765.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_080553, exon 55 of 58)	exon (NM_080553, exon 55 of 58)	14521.0	NM_026063	67267.0	Mm.272389	NM_026063	ENSMUSG00000024208	Uqcc2	2900010M23Rik|Cbp6|M19|Mnf1	ubiquinol-cytochrome c reductase complex assembly factor 2	protein-coding	6.0	4.0	3.5	111.5	24.0	6.5	8.0	7.0
Merged-chr4-43959883-4	chr4	43959788	43959988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 1 of 4)	intron (NM_027450, intron 1 of 4)	2186.0	NM_027450	384009.0	Mm.22213	NM_027450	ENSMUSG00000028480	Glipr2	5730414A08Rik|C77180|GAPR-1	GLI pathogenesis-related 2	protein-coding	116.0	146.5	109.5	1249.5	261.5	70.0	70.5	60.0
Merged-chr6-124806157-4	chr6	124806057	124806257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-2504.0	NM_001306051	14794.0	Mm.261906	NM_013539	ENSMUSG00000038451	Spsb2	AI461677|C9|Grcc9|SSB2	splA/ryanodine receptor domain and SOCS box containing 2	protein-coding	61.5	85.5	40.5	665.0	160.0	67.0	73.0	57.5
Merged-chr15-81481201-4	chr15	81481073	81481273	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14857.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	22.0	42.5	22.0	348.0	42.5	17.5	18.5	19.0
Merged-chr2-26932692-1	chr2	26932592	26932792	+	737.0	f0_balb.idr	intron (NM_011512, intron 1 of 5)	intron (NM_011512, intron 1 of 5)	819.0	NM_011512	20932.0	Mm.300594	NM_011512	ENSMUSG00000014867	Surf4	AL033340|AL033373|Surf-4	surfeit gene 4	protein-coding	9.0	22.5	10.0	114.5	14.0	12.0	11.5	8.0
Merged-chr5-92328173-3	chr5	92328067	92328267	+	946.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008599)	promoter-TSS (NM_008599)	-88.0	NM_008599	17329.0	Mm.766	NM_008599	ENSMUSG00000029417	Cxcl9	BB139920|CMK|Mig|MuMIG|Scyb9|crg-10	chemokine (C-X-C motif) ligand 9	protein-coding	8.0	11.5	1.5	62.0	58.0	17.5	7.0	7.5
Merged-chr10-96132347-4	chr10	96132227	96132427	+	853.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93880.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	7.0	8.0	6.5	171.5	33.5	10.0	14.5	20.0
Merged-chr6-67056298-4	chr6	67056203	67056403	+	782.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 1 of 6)	intron (NR_040278, intron 1 of 6)	-18896.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	11.5	32.5	14.0	296.5	27.5	4.5	14.5	8.0
Merged-chr9-122349333-4	chr9	122349229	122349429	+	910.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2287.0	NR_152865	67469.0	Mm.280254	NM_026179	ENSMUSG00000032540	Abhd5	1300003D03Rik|2010002J10Rik|CDS|CGI-58|IECN5|NCIE2	abhydrolase domain containing 5	protein-coding	26.5	26.5	31.5	455.0	22.0	6.5	10.5	13.0
Merged-chr5-45424374-1	chr5	45424274	45424474	+	745.0	f1_c57bl6.idr	promoter-TSS (NR_131933)	promoter-TSS (NR_131933)	26.0	NR_131933	52401.0	Mm.33854	NR_131933	ENSMUSG00000029092	D5Ertd615e	4930435H24Rik	DNA segment, Chr 5, ERATO Doi 615, expressed	ncRNA	3.0	8.5	19.5	72.5	12.0	7.0	4.5	4.5
Merged-chr6-87750455-4	chr6	87750410	87750610	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 3 of 7)	intron (NM_001159697, intron 3 of 7)	19641.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	14.5	24.5	31.5	607.5	101.5	9.5	22.0	32.5
Merged-chr2-79646471-4	chr2	79646396	79646596	+	783.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080558, intron 8 of 17)	intron (NM_080558, intron 8 of 17)	11071.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	9.0	14.0	8.5	253.0	18.0	7.5	9.5	10.5
Merged-chr17-27555738-4	chr17	27555618	27555818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166536)	promoter-TSS (NM_001166536)	-856.0	NM_001166536	15361.0	Mm.4438	NM_016660	ENSMUSG00000046711	Hmga1	AL023995|Hmga1a|Hmga1b|Hmgi|Hmgiy|Hmgy	high mobility group AT-hook 1	protein-coding	65.5	108.0	45.0	645.5	199.0	88.5	48.5	75.0
Merged-chr13-41825737-3	chr13	41825639	41825839	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145875, intron 2 of 6)	intron (NM_001145875, intron 2 of 6)	21749.0	NM_175417	109254.0	Mm.25195	NM_175417	ENSMUSG00000058022	Adtrp	9530008L14Rik	androgen dependent TFPI regulating protein	protein-coding	10.0	10.5	7.0	174.0	21.5	5.0	6.5	7.5
Merged-chr9-96487639-2	chr9	96487539	96487739	+	800.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	-8964.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	5.0	12.5	9.5	31.0	13.0	7.0	6.0	8.0
Merged-chr12-80945467-4	chr12	80945352	80945552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347416)	promoter-TSS (NM_001347416)	-47.0	NM_001347416	20384.0	Mm.43331	NM_009159	ENSMUSG00000021134	Srsf5	Sfrs5	serine/arginine-rich splicing factor 5	protein-coding	81.0	147.5	59.0	1003.0	309.0	115.5	85.0	97.0
Merged-chr15-67788258-3	chr15	67788147	67788347	+	914.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	470609.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	15.0	34.0	14.0	175.5	2.5	1.0	1.0	0.0
Merged-chr7-27691306-2	chr7	27691206	27691406	+	728.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001112731, intron 2 of 5)	B3|SINE|B2	1966.0	NM_001112731	112415.0	Mm.145362	NM_198417	ENSMUSG00000057093	Zfp607b	C030039L03Rik	zinc finger protein 607B	protein-coding	4.5	4.5	6.0	25.0	21.5	4.5	5.5	3.5
Merged-chr7-134692649-4	chr7	134692542	134692742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	ORR1D1|LTR|ERVL-MaLR	21955.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	20.5	58.5	28.5	254.0	59.5	22.0	27.0	18.5
Merged-chr11-64435222-4	chr11	64435125	64435325	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178870)	promoter-TSS (NM_178870)	-107.0	NM_178870	15478.0	Mm.340214	NM_178870	ENSMUSG00000047759	Hs3st3a1	3Ost3a|Hs3st3a	heparan sulfate (glucosamine) 3-O-sulfotransferase 3A1	protein-coding	2.0	13.0	9.5	110.5	63.5	34.0	30.5	47.0
Merged-chr15-50802320-3	chr15	50802185	50802385	+	879.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	86764.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	6.5	10.5	2.5	103.5	13.5	8.5	5.5	5.0
Merged-chr13-63877298-4	chr13	63877192	63877392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013608, intron 16 of 18)	intron (NM_001013608, intron 16 of 18)	62052.0	NM_023507	76251.0	Mm.186610	NM_023507	ENSMUSG00000021470	Ercc6l2	0610007P08Rik|1700019D06Rik|9330134C04Rik|Rad26l|Sr278	excision repair cross-complementing rodent repair deficiency, complementation group 6 like 2	protein-coding	31.5	72.5	52.0	979.5	228.0	74.0	84.5	112.5
Merged-chr9-59294369-4	chr9	59294276	59294476	+	958.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359282, intron 1 of 6)	intron (NM_001359282, intron 1 of 6)	2804.0	NM_028121	72141.0	Mm.22456	NM_028121	ENSMUSG00000025236	Adpgk	2610017G09Rik|Adp-gk|C77577	ADP-dependent glucokinase	protein-coding	33.5	28.5	12.5	242.0	54.5	21.0	19.0	14.5
Merged-chr10-42502045-4	chr10	42501917	42502117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017472)	promoter-TSS (NM_017472)	-37.0	NM_017472	54198.0	Mm.277870	NM_017472	ENSMUSG00000019804	Snx3	SDP3	sorting nexin 3	protein-coding	346.5	522.5	421.5	4819.5	922.0	371.0	473.0	343.5
Merged-chr2-72978624-4	chr2	72978520	72978720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045269)	promoter-TSS (NR_045269)	661.0	NM_001098425	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	23.0	46.5	32.5	452.0	87.0	31.0	43.0	31.0
Merged-chr5-105415684-4	chr5	105415601	105415801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033550)	promoter-TSS (NM_001033550)	-74.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	180.0	227.5	138.5	2067.0	381.0	162.5	201.5	109.0
Merged-chr2-167804436-4	chr2	167804262	167804462	+	933.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113185.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	9.5	10.5	7.0	63.0	11.0	3.5	6.0	12.0
Merged-chr8-54530086-4	chr8	54529991	54530191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029701)	promoter-TSS (NM_029701)	-93.0	NM_029701	76687.0	Mm.86437	NM_029701	ENSMUSG00000054408	Spcs3	1810011E08Rik|SPC22/23	signal peptidase complex subunit 3 homolog (S. cerevisiae)	protein-coding	391.5	583.5	413.5	6876.5	940.5	335.5	471.5	362.0
Merged-chr1-106713866-1	chr1	106713766	106713966	+	995.0	f0_balb.idr	5' UTR (NM_177410, exon 1 of 1)	5' UTR (NM_177410, exon 1 of 1)	424.0	NM_009741	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	17.5	19.0	40.0	320.5	29.0	15.5	13.5	13.0
Merged-chr3-139062297-4	chr3	139062181	139062381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 1 of 13)	intron (NM_001356388, intron 1 of 13)	12920.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	17.5	33.0	23.5	390.0	110.0	27.5	38.5	39.0
Merged-chr11-54563011-4	chr11	54562921	54563121	+	944.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 5 of 28)	ID_B1|SINE|B4	-33125.0	NM_001252498	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	11.0	15.0	11.5	122.5	33.0	25.5	8.5	7.5
Merged-chr3-108895814-4	chr3	108895722	108895922	+	970.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5814.0	NM_001165965	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	18.0	12.5	8.5	257.5	72.0	16.0	17.5	25.0
Merged-chr7-35036321-3	chr7	35036235	35036435	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 12 of 14)	intron (NM_008820, intron 12 of 14)	20231.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	4.5	8.5	36.5	437.5	4.5	7.5	7.0	6.0
Merged-chr12-4640992-3	chr12	4640910	4641110	+	832.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001198969, exon 17 of 17)	3' UTR (NM_001198969, exon 17 of 17)	48002.0	NM_001198968	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	6.5	15.5	5.5	82.5	15.0	6.5	9.5	7.0
Merged-chr17-31081187-3	chr17	31081078	31081278	+	969.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	23484.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	21.5	16.5	17.0	342.0	20.0	4.0	11.0	26.0
Merged-chr6-38938635-4	chr6	38938552	38938752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	intron (NM_011539, intron 1 of 12)	19666.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	42.0	60.0	66.0	1131.5	115.5	56.0	94.0	65.5
Merged-chr15-5288619-3	chr15	5288542	5288742	+	640.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44455.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	2.0	5.0	9.5	111.5	13.5	5.5	6.5	7.0
Merged-chr7-114302916-4	chr7	114302809	114303009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26793.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	19.0	32.5	23.5	370.0	34.5	19.0	26.0	25.0
Merged-chr13-20562455-4	chr13	20562353	20562553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198093, intron 1 of 6)	MIR3|SINE|MIR	89463.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	76.5	125.0	61.0	991.0	92.0	40.5	35.5	28.0
Merged-chr11-100472801-4	chr11	100472697	100472897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172565)	promoter-TSS (NM_172565)	-15.0	NM_172565	217194.0	Mm.183320	NM_172565	ENSMUSG00000048732	Klhl11	BC011167	kelch-like 11	protein-coding	40.5	92.0	20.5	455.0	121.0	33.0	33.5	23.0
Merged-chr1-153921838-4	chr1	153921742	153921942	+	848.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	21913.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	22.0	13.0	12.0	135.5	30.0	11.5	6.5	11.5
Merged-chr6-119388806-4	chr6	119388727	119388927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355692)	promoter-TSS (NM_001355692)	-93.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	115.5	206.0	110.0	1437.5	383.0	109.5	160.5	83.5
Merged-chr1-136142884-4	chr1	136142772	136142972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	MIR|SINE|MIR	11482.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	64.5	90.0	140.0	1917.0	199.5	51.5	130.5	104.0
Merged-chr15-68053097-3	chr15	68053008	68053208	+	905.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	205748.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	7.5	11.5	11.0	297.5	21.5	11.0	17.5	14.0
Merged-chr6-122595847-4	chr6	122595755	122595955	+	939.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031159, intron 3 of 7)	intron (NM_031159, intron 3 of 7)	6589.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	19.0	29.0	9.0	130.0	66.0	25.0	25.0	27.0
Merged-chr4-97920547-2	chr4	97920447	97920647	+	775.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	142921.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	7.5	5.5	8.5	68.5	6.0	5.5	9.0	11.0
Merged-chr11-103027025-4	chr11	103026917	103027117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1526.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	89.0	152.5	122.0	1295.5	296.0	96.5	106.5	148.0
Merged-chr4-62359551-7	chr4	62359362	62359562	+	814.738098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 1 of 27)	intron (NM_001355385, intron 1 of 27)	1134.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	11.0	13.0	10.0	60.5	20.5	6.5	13.0	15.0
Merged-chr2-11706903-3	chr2	11706811	11707011	+	853.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271499, intron 1 of 6)	intron (NM_001271499, intron 1 of 6)	1199.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	8.0	14.5	3.0	180.5	19.0	13.0	8.0	7.5
Merged-chr13-100124898-4	chr13	100124813	100125013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011420)	promoter-TSS (NM_011420)	58.0	NM_011420	20595.0	Mm.2025	NM_011420	ENSMUSG00000021645	Smn1	AI849087|Gemin1|Smn	survival motor neuron 1	protein-coding	42.5	61.0	46.0	595.0	77.0	27.5	31.0	33.5
Merged-chr8-8661365-4	chr8	8661262	8661462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010111)	promoter-TSS (NM_010111)	-589.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	55.0	94.5	83.0	1174.0	129.5	61.5	74.5	60.5
Merged-chr12-85391277-4	chr12	85391179	85391379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-16562.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	43.5	31.0	31.0	678.5	136.5	23.5	28.0	38.5
Merged-chr9-61056914-4	chr9	61056820	61057020	+	868.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39851.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	10.5	9.5	10.0	122.0	21.5	18.5	14.0	16.5
Merged-chr6-83677854-4	chr6	83677764	83677964	+	881.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144943)	promoter-TSS (NM_144943)	-7.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	10.5	24.0	18.5	240.5	35.5	10.0	11.0	19.5
Merged-chr8-117288124-4	chr8	117288020	117288220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	31101.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	53.5	70.0	70.5	1034.0	83.5	31.0	52.0	46.5
Merged-chr15-95793087-4	chr15	95792986	95793186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	2243.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	36.0	45.0	38.5	326.5	86.5	32.0	36.0	37.5
Merged-chr12-75726531-3	chr12	75726459	75726659	+	954.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030750, intron 1 of 2)	intron (NM_030750, intron 1 of 2)	9170.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	10.5	7.5	13.5	279.0	22.5	4.0	7.0	8.5
Merged-chr9-37208224-4	chr9	37208131	37208331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025464)	promoter-TSS (NM_025464)	8.0	NM_025464	66279.0	Mm.41451	NM_025464	ENSMUSG00000032121	Tmem218	1810021J13Rik|AV004931	transmembrane protein 218	protein-coding	354.0	448.5	364.0	5322.5	824.0	315.5	452.0	309.5
Merged-chr17-73395004-3	chr17	73394905	73395105	+	868.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033444, intron 1 of 22)	intron (NM_001033444, intron 1 of 22)	4291.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	17.0	12.0	15.5	223.0	7.0	2.5	13.0	6.5
Merged-chr8-123041251-4	chr8	123041137	123041337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	1047.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	65.0	123.5	40.0	934.0	214.5	88.0	100.5	77.5
Merged-chr14-70443343-4	chr14	70443234	70443434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164082)	promoter-TSS (NM_001164082)	-107.0	NM_001164082	67065.0	Mm.20420	NM_025945	ENSMUSG00000000776	Polr3d	2810426M17Rik|44kDa|AI326118|AW489084|BN51T|RPC4|TSBN51	polymerase (RNA) III (DNA directed) polypeptide D	protein-coding	57.5	95.5	101.0	867.5	94.0	53.5	45.0	75.5
Merged-chr4-102584833-4	chr4	102584746	102584946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 6 of 14)	intron (NM_019840, intron 6 of 14)	-2712.0	NM_001177982	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	89.5	108.0	110.5	1438.0	181.0	78.5	105.0	78.5
Merged-chr2-73462928-4	chr2	73462856	73463056	+	928.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-9067.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	12.5	10.0	11.5	290.5	29.5	6.5	12.0	32.5
Merged-chr8-109872472-3	chr8	109872349	109872549	+	903.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122594, intron 1 of 18)	intron (NM_001122594, intron 1 of 18)	3846.0	NM_001122594	244650.0	Mm.23494	NM_001122594	ENSMUSG00000031732	Phlpp2	AI481772|C130044A18Rik|Phlppl	PH domain and leucine rich repeat protein phosphatase 2	protein-coding	5.5	8.5	15.0	201.5	17.5	2.5	3.5	3.0
Merged-chr1-36307705-4	chr1	36307586	36307786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033310)	promoter-TSS (NR_033310)	-47.0	NM_001172206	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	86.0	139.5	55.5	1053.5	275.5	108.0	115.5	77.0
Merged-chr2-32846243-5	chr2	32846158	32846358	+	888.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113569, intron 1 of 19)	CpG	974.0	NM_009295	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	6.0	13.5	11.5	109.5	24.5	4.5	11.0	10.0
Merged-chr4-150397475-4	chr4	150397382	150397582	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	intron (NM_001085492, intron 1 of 22)	115566.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	13.5	30.0	12.0	218.0	53.0	11.0	25.0	30.0
Merged-chr9-44361711-4	chr9	44361587	44361787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357393)	promoter-TSS (NM_001357393)	-17.0	NM_027889	71732.0	Mm.295013	NM_027889	ENSMUSG00000032127	Vps11	1200011A11Rik	VPS11, CORVET/HOPS core subunit	protein-coding	32.5	35.0	31.5	427.0	186.5	37.5	39.0	62.5
Merged-chr14-103650153-3	chr14	103650065	103650265	+	848.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361639)	promoter-TSS (NM_001361639)	-63.0	NM_198014	105439.0	Mm.27548	NM_198014	ENSMUSG00000055717	Slain1	9630044O09Rik|AA675320|AW742596	SLAIN motif family, member 1	protein-coding	22.5	5.0	9.0	76.0	15.5	2.0	8.0	10.5
Merged-chr3-22143438-4	chr3	22143301	22143501	+	860.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	66749.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	11.0	14.0	8.0	108.0	30.5	11.0	6.5	14.0
Merged-chr15-86182786-4	chr15	86182682	86182882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-2946.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	28.5	35.5	53.5	773.5	76.5	34.0	29.5	50.0
Merged-chr17-26498443-3	chr17	26498318	26498518	+	996.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	10054.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	14.5	22.0	5.5	53.0	16.5	7.0	2.5	3.5
Merged-chr1-77826368-4	chr1	77826277	77826477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-311289.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	34.5	39.0	56.0	742.5	101.0	31.0	54.0	39.0
Merged-chr8-120124453-4	chr8	120124352	120124552	+	898.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	intron (NM_172286, intron 1 of 12)	10300.0	NM_001163761	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	19.0	19.0	17.0	293.5	25.5	6.5	19.5	16.5
Merged-chr19-47432605-4	chr19	47432504	47432704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	31807.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	190.5	291.5	199.5	3606.5	374.5	141.5	206.0	162.0
Merged-chr12-69361497-4	chr12	69361386	69361586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4310.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	266.5	426.5	334.5	1843.0	617.5	331.5	286.5	314.5
Merged-chr15-8224439-3	chr15	8224340	8224540	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162906, intron 31 of 52)	MTD|LTR|ERVL-MaLR	55334.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	21.5	7.0	27.5	316.5	10.0	4.0	13.0	4.0
Merged-chr10-53888869-4	chr10	53888701	53888901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137892.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	26.5	33.5	31.5	376.5	49.5	19.5	19.5	39.5
Merged-chr10-121476912-3	chr10	121476804	121477004	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138956)	promoter-TSS (NM_138956)	-654.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	24.0	18.0	19.0	339.5	26.5	12.5	12.0	17.0
Merged-chr2-90679282-4	chr2	90679216	90679416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021512, exon 2 of 37)	5' UTR (NM_021512, exon 2 of 37)	2101.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	51.5	80.5	48.0	719.0	134.5	50.0	46.0	60.0
Merged-chr3-127895129-4	chr3	127895025	127895225	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027482, intron 1 of 1)	intron (NM_027482, intron 1 of 1)	1198.0	NM_027482	70617.0	Mm.317049	NM_027482	ENSMUSG00000050549	Fam241a	2700063A17Rik|5730508B09Rik|C80506	family with sequence similarity 241, member A	protein-coding	24.0	41.5	38.0	281.5	67.0	17.5	25.5	20.5
Merged-chr6-97461911-4	chr6	97461811	97462011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	MLT1A|LTR|ERVL-MaLR	-2625.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	137.5	306.5	195.5	1626.5	377.5	157.0	160.5	94.5
Merged-chr4-43493413-4	chr4	43493312	43493512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_001460)	promoter-TSS (NR_001460)	47.0	NM_001037913	622404.0	Mm.289109	NM_001037913	ENSMUSG00000028461	Ccdc107	-	coiled-coil domain containing 107	protein-coding	67.5	70.5	57.5	494.5	95.5	40.5	37.0	51.0
Merged-chr1-178187505-4	chr1	178187420	178187620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024282, exon 1 of 5)	5' UTR (NM_024282, exon 1 of 5)	103.0	NM_024282	78825.0	Mm.440132	NM_024282	ENSMUSG00000026502	Desi2	5830417C01Rik|DeSI-2|Fam152a|Pppde1	desumoylating isopeptidase 2	protein-coding	344.5	572.0	362.5	3779.0	950.0	387.5	504.0	350.5
Merged-chr8-111538370-4	chr8	111538267	111538467	+	981.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168623)	promoter-TSS (NM_001168623)	24.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	21.5	56.0	14.5	212.0	92.5	31.5	34.5	21.0
Merged-chr12-8507536-4	chr12	8507445	8507645	+	949.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7536.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	14.0	33.5	23.0	352.0	42.5	12.5	15.0	35.5
Merged-chr16-93603970-4	chr16	93603840	93604040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145482)	promoter-TSS (NM_145482)	-125.0	NM_145482	224440.0	Mm.10628	NM_145482	ENSMUSG00000022948	Setd4	AY037804|C21orf18|ORF21	SET domain containing 4	protein-coding	23.5	42.5	42.0	406.0	182.0	95.0	102.0	92.5
Merged-chr1-130717513-4	chr1	130717407	130717607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178691, exon 1 of 2)	exon (NM_178691, exon 1 of 2)	180.0	NM_178691	226418.0	Mm.106553	NM_178691	ENSMUSG00000046404	Yod1	6330564D18Rik|9930028C20Rik|Hshin7	YOD1 deubiquitinase	protein-coding	79.5	115.0	59.0	990.0	212.0	102.5	85.5	56.5
Merged-chr15-50695728-4	chr15	50695622	50695822	+	939.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	193327.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	24.0	38.5	22.0	270.0	28.5	15.0	8.0	8.0
Merged-chr15-31611214-3	chr15	31611149	31611349	+	827.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356313, intron 5 of 5)	intron (NM_001356313, intron 5 of 5)	9133.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	14.5	8.0	8.0	133.5	10.5	6.0	12.5	4.5
Merged-chr3-86987079-3	chr3	86986960	86987160	+	792.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007640, exon 2 of 7)	exon (NM_007640, exon 2 of 7)	474.0	NR_038188	12480.0	Mm.389465	NM_007640	ENSMUSG00000041750	Cd1d2	CD1.2|Cd1b|Ly-38	CD1d2 antigen	protein-coding	6.0	6.5	7.0	83.5	7.0	2.0	2.0	2.5
Merged-chr13-95893064-4	chr13	95892964	95893164	+	842.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1142.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	12.5	14.0	10.5	151.0	22.0	10.0	9.0	14.0
Merged-chr1-192759633-3	chr1	192759527	192759727	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 2 of 11)	intron (NM_144881, intron 2 of 11)	11592.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	1.0	0.0	3.5	26.5	56.0	14.5	22.5	26.0
Merged-chr1-86434554-4	chr1	86434472	86434672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	8243.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	204.0	249.0	148.0	2391.0	496.5	207.5	211.0	157.5
Merged-chr7-35076719-4	chr7	35076618	35076818	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20152.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	11.0	12.0	11.0	204.0	52.5	11.5	18.0	22.0
Merged-chr12-116595939-4	chr12	116595839	116596039	+	835.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011215, intron 2 of 22)	MTD-int|LTR|ERVL-MaLR	110219.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	1.0	4.0	5.0	47.0	40.5	14.0	24.5	17.0
Merged-chr5-25420783-4	chr5	25420671	25420871	+	785.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081383, intron 2 of 58)	intron (NM_001081383, intron 2 of 58)	78012.0	NM_001081383	231051.0	Mm.332268	NM_001081383	ENSMUSG00000038056	Kmt2c	E330008K23Rik|HALR|Mll3|mKIAA1506	lysine (K)-specific methyltransferase 2C	protein-coding	5.0	15.5	2.0	113.0	29.0	4.5	12.0	4.5
Merged-chr3-115769001-2	chr3	115768901	115769101	+	890.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53946.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	5.0	6.0	5.5	82.0	19.0	3.5	2.0	5.5
Merged-chr16-44199214-4	chr16	44199108	44199308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029889, intron 3 of 7)	intron (NM_001029889, intron 3 of 7)	25811.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	132.5	128.0	130.5	1715.5	212.0	76.5	103.0	124.0
Merged-chr13-64422242-3	chr13	64422177	64422377	+	985.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-10276.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	6.0	5.0	7.5	141.0	6.0	10.5	4.5	12.5
Merged-chr3-105066621-5	chr3	105066548	105066748	+	930.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029228)	promoter-TSS (NM_029228)	-196.0	NM_029228	75269.0	Mm.307994	NM_029228	ENSMUSG00000051788	4930564D02Rik	-	RIKEN cDNA 4930564D02 gene	protein-coding	6.5	8.0	10.0	85.5	22.5	10.5	10.0	10.0
Merged-chr3-144704147-4	chr3	144704041	144704241	+	977.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 5 of 10)	intron (NM_001282037, intron 5 of 10)	16194.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	26.0	26.0	12.5	335.0	70.0	2.5	27.0	15.5
Merged-chr1-53265156-3	chr1	53265033	53265233	+	878.015869	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153556, intron 4 of 12)	intron (NM_153556, intron 4 of 12)	31895.0	NM_153556	227099.0	Mm.60499	NM_153556	ENSMUSG00000026098	Pms1	-	PMS1 homolog 1, mismatch repair system component	protein-coding	5.5	14.0	9.0	163.5	21.0	12.0	8.5	7.0
Merged-chr12-80320101-4	chr12	80320004	80320204	+	931.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59723.0	NM_001346669	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	9.5	12.5	15.0	278.0	39.5	8.0	15.5	25.0
Merged-chr8-68196200-4	chr8	68196103	68196303	+	910.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80325.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	18.5	26.0	16.5	440.5	32.0	10.0	12.5	22.0
Merged-chr11-72441290-4	chr11	72441207	72441407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016776)	promoter-TSS (NM_016776)	-20.0	NM_016776	18432.0	Mm.147946	NM_016776	ENSMUSG00000040463	Mybbp1a	AL024407|AU019902|P160|p160MBP|p67MBP	MYB binding protein (P160) 1a	protein-coding	70.0	69.5	20.0	643.0	112.5	48.5	70.0	40.0
Merged-chr16-90397057-4	chr16	90396949	90397149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 1 of 10)	MLTR14|LTR|ERV1	10652.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	65.0	63.5	52.5	747.0	89.0	37.5	40.0	33.0
Merged-chr2-147014431-3	chr2	147014321	147014521	+	693.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 1 of 28)	B1_Mur1|SINE|Alu	1422.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	9.0	22.5	9.0	84.0	15.0	7.5	4.0	6.0
Merged-chr14-45047471-5	chr14	45047352	45047552	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	59341.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	7.5	5.5	10.5	69.0	36.5	5.0	10.0	8.5
Merged-chr5-24118467-3	chr5	24118369	24118569	+	867.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161800, intron 1 of 9)	intron (NM_001161800, intron 1 of 9)	17879.0	NM_001161800	52323.0	Mm.273768	NM_026448	ENSMUSG00000028986	Klhl7	2700038B03Rik|D5Ertd363e|SBBI26	kelch-like 7	protein-coding	0.0	0.0	0.0	0.0	25.5	5.5	20.5	12.5
Merged-chr6-24989399-4	chr6	24989282	24989482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33257.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	88.0	67.0	62.5	1415.0	100.0	44.5	58.5	42.5
Merged-chr15-25282113-4	chr15	25282008	25282208	+	930.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	131656.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	15.0	12.0	16.0	235.0	42.0	14.0	19.0	13.5
Merged-chr14-50904065-3	chr14	50903914	50904114	+	597.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10759.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	0.0	0.0	0.5	7.0	12.5	8.0	12.0	8.5
Merged-chr10-8885393-3	chr10	8885288	8885488	+	965.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	682.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	6.0	26.5	10.5	121.5	23.0	18.0	12.0	17.5
Merged-chr15-66817185-4	chr15	66817070	66817270	+	959.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	14659.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	21.0	24.0	27.5	284.0	48.0	20.5	10.0	15.0
Merged-chr11-121702378-4	chr11	121702285	121702485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144797)	promoter-TSS (NM_144797)	-42.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	185.5	290.5	126.0	2283.0	418.0	172.5	203.5	139.5
Merged-chr10-19584309-4	chr10	19584209	19584409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7640.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	37.0	48.0	42.0	623.0	70.0	26.5	46.5	30.5
Merged-chr17-17617568-2	chr17	17617464	17617664	+	792.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	6925.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	7.0	7.0	0.0	61.5	18.0	6.0	5.5	8.0
Merged-chr1-13426456-4	chr1	13426413	13426613	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52430.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	13.5	31.0	30.5	237.5	52.0	20.0	16.0	24.0
Merged-chr17-94834955-4	chr17	94834832	94835032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045963)	promoter-TSS (NR_045963)	-133.0	NR_045963	100038746.0	Mm.456686	NR_045963	ENSMUSG00000066057	Gm1976	100038868	predicted gene 1976	ncRNA	35.0	33.0	49.5	587.0	61.0	40.5	41.5	42.0
Merged-chr3-51719210-4	chr3	51719100	51719300	+	941.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	58021.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	13.0	9.5	4.5	287.0	31.5	4.5	9.0	17.0
Merged-chr17-31118852-3	chr17	31118694	31118894	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009593)	TTS (NM_009593)	10817.0	NM_011575	21786.0	Mm.4641	NM_011575	ENSMUSG00000024029	Tff3	ITF|mITF	trefoil factor 3, intestinal	protein-coding	8.0	7.5	6.0	24.0	4.5	1.0	3.0	10.0
Merged-chr10-93317049-2	chr10	93316949	93317149	+	708.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152777)	promoter-TSS (NR_152777)	-354.0	NR_152777	102635316.0	Mm.404570	NR_152777	ENSMUSG00000111531	Gm32688	-	predicted gene, 32688	ncRNA	5.5	6.5	1.0	67.5	8.5	4.5	5.0	8.0
Merged-chr15-100039117-2	chr15	100039017	100039217	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	CpG	453.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	6.5	13.5	18.0	141.5	37.5	8.0	13.0	17.5
Merged-chr15-36608034-4	chr15	36607949	36608149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008774, intron 1 of 14)	intron (NM_008774, intron 1 of 14)	924.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	78.5	124.0	139.0	1704.5	196.5	79.5	129.5	96.0
Merged-chr2-4446115-4	chr2	4445997	4446197	+	819.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	45121.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	3.5	4.0	10.5	28.5	11.0	5.0	14.0	5.0
Merged-chr15-66899890-4	chr15	66899807	66900007	+	731.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018865, intron 1 of 4)	intron (NM_018865, intron 1 of 4)	8514.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	3.0	6.0	6.0	164.5	28.0	6.0	10.0	9.5
Merged-chr5-115559878-4	chr5	115559728	115559928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007475, exon 2 of 7)	5' UTR (NM_007475, exon 2 of 7)	361.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	97.0	217.0	99.5	654.0	257.0	147.0	106.0	99.5
Merged-chr17-27650332-4	chr17	27650245	27650445	+	847.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5246.0	NM_011861	23969.0	Mm.4926	NM_011861	ENSMUSG00000040276	Pacsin1	A830061D09Rik|H74|mKIAA1379|syndapin	protein kinase C and casein kinase substrate in neurons 1	protein-coding	7.5	13.5	9.0	115.0	22.0	15.0	8.5	14.0
Merged-chr11-48903075-3	chr11	48902992	48903192	+	587.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024230)	promoter-TSS (NM_001024230)	-940.0	NM_001024230	432555.0	Mm.338931	NM_001024230	ENSMUSG00000058163	Gm5431	EG432555|Irgb9b8	predicted gene 5431	protein-coding	7.5	7.5	7.5	108.5	15.5	5.5	13.0	6.5
Merged-chr17-27547427-4	chr17	27547320	27547520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9154.0	NM_001166536	15361.0	Mm.4438	NM_016660	ENSMUSG00000046711	Hmga1	AL023995|Hmga1a|Hmga1b|Hmgi|Hmgiy|Hmgy	high mobility group AT-hook 1	protein-coding	58.0	98.5	48.0	435.0	138.5	46.0	53.5	37.5
Merged-chr5-117134245-4	chr5	117134191	117134391	+	934.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	703.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	10.5	10.0	4.5	188.0	24.0	4.5	5.0	8.5
Merged-chr2-18688974-4	chr2	18688911	18689111	+	887.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10011.0	NM_001001334	381350.0	Mm.330024	NM_001001334	ENSMUSG00000037708	Spag6	Spag6l	sperm associated antigen 6	protein-coding	5.0	14.0	7.5	144.5	38.0	15.5	10.5	10.5
Merged-chr7-123356352-3	chr7	123356273	123356473	+	762.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	intron (NM_001316713, intron 1 of 19)	13542.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	4.5	11.0	7.5	94.0	14.0	3.0	8.0	4.5
Merged-chr13-98867963-4	chr13	98867844	98868044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 7 of 23)	intron (NM_178716, intron 7 of 23)	23098.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	35.5	59.0	42.0	829.0	100.5	19.5	50.5	31.0
Merged-chr7-45525043-4	chr7	45524914	45525114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008654, exon 2 of 3)	exon (NM_008654, exon 2 of 3)	1254.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	40.0	116.0	70.5	665.5	174.5	45.0	77.5	71.0
Merged-chr5-62846455-4	chr5	62846363	62846563	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 6 of 8)	intron (NM_001170705, intron 6 of 8)	32640.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	21.0	28.5	24.0	659.0	35.5	13.5	13.5	12.5
Merged-chr16-17704451-4	chr16	17704319	17704519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285886, intron 2 of 16)	intron (NM_001285886, intron 2 of 16)	18481.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	24.5	23.5	45.5	626.0	65.0	25.0	23.5	32.5
Merged-chr8-60890368-4	chr8	60890254	60890454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357270)	promoter-TSS (NM_001357270)	-39.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	298.5	457.0	306.0	5417.0	639.0	221.5	347.0	256.5
Merged-chr3-84582755-4	chr3	84582638	84582838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081093)	promoter-TSS (NM_001081093)	-113.0	NM_001081093	99889.0	Mm.316536	NM_001081093	ENSMUSG00000074513	Arfip1	2310030I10Rik|Arfaptin|D3Ertd598e	ADP-ribosylation factor interacting protein 1	protein-coding	129.0	157.5	159.5	1727.5	333.0	116.5	175.0	133.0
Merged-chr17-66128846-4	chr17	66128716	66128916	+	883.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003919, intron 2 of 26)	intron (NM_001003919, intron 2 of 26)	5296.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	7.5	12.0	7.5	85.5	28.0	16.0	9.5	4.5
Merged-chr11-74485677-3	chr11	74485549	74485749	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	104509.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	10.0	10.0	0.5	19.5	41.0	8.5	17.0	7.0
Merged-chr2-126675330-9	chr2	126675259	126675459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355109)	promoter-TSS (NM_001355109)	-7.0	NM_001355109	14391.0	Mm.293266	NM_010249	ENSMUSG00000027361	Gabpb1	BABPB2|E4TF1|E4TF1-47|E4TF1-53|E4Tf1B|GABPB|GABPB-1|GABPB-2|GABPB1-1|GABPB1-2|NRF2B1|NRF2B2	GA repeat binding protein, beta 1	protein-coding	37.0	87.0	61.0	466.5	94.5	43.0	35.0	34.0
Merged-chr12-4488565-4	chr12	4488455	4488655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11373.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	119.5	62.0	120.5	1792.0	97.0	34.5	76.0	41.5
Merged-chr6-90728836-4	chr6	90728758	90728958	+	947.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	intron (NM_001356440, intron 1 of 13)	-12329.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	16.5	29.0	7.5	176.5	44.5	20.0	18.5	26.5
Merged-chr4-13756600-3	chr4	13756508	13756708	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111027, intron 1 of 11)	intron (NM_001111027, intron 1 of 11)	5311.0	NM_001111027	12395.0	Mm.4909	NM_009822	ENSMUSG00000006586	Runx1t1	Cbfa2t1h|ETO|MTG8	runt-related transcription factor 1; translocated to, 1 (cyclin D-related)	protein-coding	11.5	15.5	9.0	326.5	4.5	5.0	8.0	4.5
Merged-chr1-144301694-4	chr1	144301584	144301784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-52580.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	26.5	54.0	38.5	307.5	63.5	13.0	9.5	8.5
Merged-chr11-21009704-4	chr11	21009588	21009788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81636.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	38.5	55.0	44.0	524.5	76.5	27.5	47.5	33.5
Merged-chr11-62542814-4	chr11	62542716	62542916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-3555.0	NM_028448	73139.0	Mm.390409	NM_028448	ENSMUSG00000018509	Cenpv	3110013H01Rik|AA671303|Prr6	centromere protein V	protein-coding	36.0	69.5	19.5	433.0	71.0	26.0	26.0	49.5
Merged-chr17-31905955-4	chr17	31905868	31906068	+	983.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50164.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	36.5	49.5	62.0	570.0	31.5	12.0	27.5	26.0
Merged-chr7-83883161-4	chr7	83883090	83883290	+	898.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030705, exon 1 of 1)	exon (NM_030705, exon 1 of 1)	1151.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	12.0	21.5	17.5	71.5	22.5	13.0	7.5	25.0
Merged-chr4-136020819-4	chr4	136020706	136020906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013736, intron 1 of 10)	intron (NM_013736, intron 1 of 10)	843.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	32.5	41.0	35.5	619.0	63.0	25.5	26.0	37.5
Merged-chr19-29486737-4	chr19	29486628	29486828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35259.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	230.5	354.5	292.5	3418.0	532.0	217.5	186.0	164.0
Merged-chr5-73630389-4	chr5	73630297	73630497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153568, intron 1 of 4)	intron (NM_153568, intron 1 of 4)	2024.0	NM_153568	231296.0	Mm.168948	NM_153568	ENSMUSG00000067206	Lrrc66	-	leucine rich repeat containing 66	protein-coding	68.0	40.0	59.5	1298.5	83.0	24.5	62.0	59.0
Merged-chr8-111027770-4	chr8	111027690	111027890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190800)	promoter-TSS (NM_001190800)	-20.0	NM_001190800	234733.0	Mm.482176	NM_172284	ENSMUSG00000033658	Ddx19b	2810457M08Rik|4921519L13Rik|AW260119	DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b	protein-coding	46.0	73.5	55.0	968.5	139.0	52.5	78.5	76.0
Merged-chr9-44579597-4	chr9	44579482	44579682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25310.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	63.5	124.0	67.0	889.5	199.0	103.0	85.0	94.0
Merged-chr10-118081682-4	chr10	118081568	118081768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-60119.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	26.5	42.5	30.0	573.0	94.5	8.0	45.5	30.0
Merged-chr6-98846453-4	chr6	98846342	98846542	+	963.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181856.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	5.0	25.5	8.5	183.0	57.0	13.0	19.0	7.5
Merged-chr11-26387360-4	chr11	26387291	26387491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277273, intron 1 of 13)	CpG	307.0	NR_102382	67030.0	Mm.18875	NM_025923	ENSMUSG00000004018	Fancl	2010322C19Rik|AW554273|B230118H11Rik|Phf9|Pog|gcd	Fanconi anemia, complementation group L	protein-coding	109.0	166.0	168.5	1659.5	244.5	110.5	113.0	123.0
Merged-chr3-20154992-4	chr3	20154899	20155099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013755, exon 1 of 7)	exon (NM_013755, exon 1 of 7)	117.0	NM_001355261	27357.0	Mm.6375	NM_013755	ENSMUSG00000019528	Gyg	AU017667|GN1|Gyg1	glycogenin	protein-coding	31.5	83.5	57.0	625.5	78.5	24.5	26.0	33.5
Merged-chr10-40500058-4	chr10	40499961	40500161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70301.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	61.5	55.5	88.0	1395.5	80.5	32.0	45.5	25.5
Merged-chr9-65435795-4	chr9	65435710	65435910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027134)	promoter-TSS (NM_027134)	28.0	NM_027134	69606.0	Mm.287956	NM_027134	ENSMUSG00000059183	Mtfmt	2310020P08Rik	mitochondrial methionyl-tRNA formyltransferase	protein-coding	39.5	46.5	16.0	286.5	81.0	23.5	29.0	39.0
Merged-chr1-9857764-4	chr1	9857679	9857879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037759, intron 1 of 16)	RMER13B|LTR|ERVK	9498.0	NM_001037759	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	58.5	93.5	82.0	742.5	147.0	31.5	52.0	49.5
Merged-chr7-110122982-4	chr7	110122872	110123072	+	939.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009516, intron 1 of 10)	CpG	913.0	NM_009516	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	22.5	6.0	20.0	165.0	32.0	10.5	10.5	10.5
Merged-chr18-23751740-3	chr18	23751650	23751850	+	952.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162942)	promoter-TSS (NM_001162942)	555.0	NR_126066	100502834.0	Mm.213614	NR_126066	ENSMUSG00000086287	Gm15972	-	predicted gene 15972	ncRNA	12.5	12.0	8.0	164.0	15.0	4.5	6.5	10.5
Merged-chr5-3198578-4	chr5	3198469	3198669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-145324.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	100.0	129.5	156.0	1893.0	253.5	70.0	116.5	87.0
Merged-chr2-167690674-4	chr2	167690566	167690766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110334)	promoter-TSS (NR_110334)	-93.0	NR_110334	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	45.0	58.5	38.5	763.5	81.5	29.0	49.5	56.5
Merged-chr16-34000860-4	chr16	34000762	34000962	+	897.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 51 of 59)	intron (NM_177357, intron 51 of 59)	-33824.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	16.0	33.0	9.5	98.0	41.5	13.0	13.5	10.0
Merged-chr10-21622272-4	chr10	21622172	21622372	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027968, exon 3 of 3)	non-coding (NR_027968, exon 3 of 3)	29127.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	21.0	22.5	17.5	248.0	51.5	19.0	23.5	22.0
Merged-chr1-152043664-3	chr1	152043569	152043769	+	899.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	intron (NM_197990, intron 1 of 5)	46651.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	9.5	10.0	19.0	110.0	14.5	0.0	1.5	3.5
Merged-chr4-62308585-4	chr4	62308492	62308692	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 21 of 27)	B4A|SINE|B4	17045.0	NM_001290518	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	17.5	9.5	25.0	355.0	23.5	8.0	16.5	10.0
Merged-chr4-150606007-4	chr4	150605919	150606119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	46155.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	38.0	44.0	47.0	796.0	91.0	18.5	36.0	43.5
Merged-chr3-37748169-4	chr3	37748046	37748246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23786.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	61.5	72.5	31.5	455.0	70.5	27.0	26.0	24.0
Merged-chr13-3743259-4	chr13	3743132	3743332	+	907.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61086.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	18.5	15.5	15.5	260.0	25.0	7.5	9.5	18.5
Merged-chr2-72464521-4	chr2	72464443	72464643	+	899.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16C|LTR|ERVK	-11676.0	NM_025866	66953.0	Mm.270676	NM_025866	ENSMUSG00000055612	Cdca7	2310021G01Rik|AU044109|JPO1	cell division cycle associated 7	protein-coding	5.5	20.5	10.0	144.5	38.5	15.0	14.0	10.5
Merged-chr18-79246469-3	chr18	79246398	79246598	+	677.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137107.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	6.5	9.0	6.5	79.5	3.5	0.0	2.0	5.0
Merged-chr8-79389506-3	chr8	79389392	79389592	+	706.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	9976.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	11.5	6.0	7.0	107.5	16.5	11.0	4.5	2.5
Merged-chr17-70680062-3	chr17	70679963	70680163	+	962.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360665, intron 9 of 14)	(CA)n|Simple_repeat|Simple_repeat	118316.0	NM_001128181	224997.0	Mm.311840	NM_027712	ENSMUSG00000003279	Dlgap1	4933422O14Rik|9630002F18|AI845682|AI848168|BB075781|D17Bwg0511e|GKAP/SAPAP|GKPA/SAPAP|Gkap|Sapap1|mKIAA4162	DLG associated protein 1	protein-coding	11.0	25.5	13.0	217.5	16.0	5.0	6.0	5.5
Merged-chr4-139203581-4	chr4	139203480	139203680	+	955.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	ID_B1|SINE|B4	9469.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	14.0	23.0	4.0	222.0	53.0	17.5	15.5	18.0
Merged-chr3-68557139-4	chr3	68557053	68557253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113421, intron 2 of 7)	intron (NM_001113421, intron 2 of 7)	-15215.0	NM_013928	30953.0	Mm.331064	NM_013928	ENSMUSG00000027777	Schip1	Nf2ip|Schip-1	schwannomin interacting protein 1	protein-coding	28.0	35.0	45.0	689.5	50.5	20.5	34.5	38.0
Merged-chr6-34374033-4	chr6	34373933	34374133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10214.0	NM_172398	67861.0	Mm.70371	NM_172398	ENSMUSG00000061758	Akr1b10	2310005E10Rik|Akr1b16	aldo-keto reductase family 1, member B10 (aldose reductase)	protein-coding	25.0	32.0	21.5	578.5	96.5	25.5	34.0	31.0
Merged-chr7-89309255-5	chr7	89309135	89309335	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	ORR1F|LTR|ERVL-MaLR	29552.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	17.5	13.0	30.0	386.0	37.0	11.0	19.5	22.5
Merged-chr9-47642883-4	chr9	47642791	47642991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	112539.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	30.5	48.0	35.5	726.5	55.0	10.5	37.0	21.0
Merged-chr7-28528053-5	chr7	28527863	28528063	+	982.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5127.0	NM_177396	338374.0	Mm.246799	NM_177396	ENSMUSG00000060747	Ifnl3	IFL-1|IL-28B|INF-alpha|INF-lambda|Il28|Il28b	interferon lambda 3	protein-coding	12.0	15.0	11.0	145.5	17.0	5.0	2.5	9.0
Merged-chr13-58593363-4	chr13	58593279	58593479	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022317, intron 1 of 17)	MER67A|LTR|ERV1	17498.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	5.5	16.5	9.5	152.5	32.0	16.5	19.5	16.5
Merged-chr11-85505959-3	chr11	85505853	85506053	+	856.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 15 of 25)	intron (NM_138681, intron 15 of 25)	152789.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	4.5	13.0	7.5	93.5	17.5	2.0	4.0	2.5
Merged-chr5-112995738-4	chr5	112995636	112995836	+	854.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	19802.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	24.0	28.0	44.0	697.0	23.0	9.0	18.5	10.5
Merged-chr5-124898922-3	chr5	124898828	124899028	+	678.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME2z|LINE|L1	36223.0	NM_001081750	269704.0	Mm.138617	NM_001081750	ENSMUSG00000079215	Zfp664	AW060232|D930038J03Rik|ZFOC1|Znf664	zinc finger protein 664	protein-coding	13.0	9.5	9.0	99.0	0.5	0.0	0.0	2.5
Merged-chr17-33760481-4	chr17	33760384	33760584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008997)	promoter-TSS (NM_008997)	2.0	NM_008997	19326.0	Mm.387587	NM_008997	ENSMUSG00000077450	Rab11b	A730055L17Rik	RAB11B, member RAS oncogene family	protein-coding	367.0	595.5	350.0	4563.5	766.5	323.5	340.0	276.5
Merged-chr1-179845064-4	chr1	179844955	179845155	+	949.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41040.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	16.5	31.0	12.5	206.0	37.0	14.0	19.0	22.0
Merged-chr1-147054741-3	chr1	147054636	147054836	+	845.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	557049.0	NM_001145807	215378.0	Mm.441817	NM_153539	ENSMUSG00000035131	Brinp3	B830045N13Rik|Fam5c	bone morphogenetic protein/retinoic acid inducible neural specific 3	protein-coding	5.0	4.5	5.0	145.0	4.5	5.0	11.0	5.0
Merged-chr12-110854994-4	chr12	110854887	110855087	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028365, intron 1 of 7)	intron (NM_028365, intron 1 of 7)	4708.0	NM_028365	72805.0	Mm.443524	NM_028365	ENSMUSG00000021271	Zfp839	2810455K09Rik	zinc finger protein 839	protein-coding	14.0	36.5	25.5	294.0	50.0	11.5	21.0	30.0
Merged-chr8-24417404-2	chr8	24417304	24417504	+	576.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21542.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	0.0	1.0	7.5	171.5	16.0	5.5	4.5	6.5
Merged-chr2-152437681-4	chr2	152437575	152437775	+	992.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110368, intron 6 of 10)	intron (NR_110368, intron 6 of 10)	22088.0	NR_110368	228778.0	Mm.70959	NM_177656	ENSMUSG00000032680	6820408C15Rik	-	RIKEN cDNA 6820408C15 gene	protein-coding	17.0	24.0	28.5	164.5	47.0	16.5	18.5	11.0
Merged-chr12-85602922-4	chr12	85602833	85603033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	MIR|SINE|MIR	2915.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	33.5	59.0	82.5	1032.0	111.5	17.5	42.5	41.5
Merged-chr6-86779415-4	chr6	86779326	86779526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013471, intron 1 of 12)	L1M1|LINE|L1	-4312.0	NM_001331120	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	67.5	127.0	92.5	1278.0	214.5	52.0	54.0	58.5
Merged-chr11-51688722-4	chr11	51688615	51688815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025319)	promoter-TSS (NM_025319)	-81.0	NM_025319	66050.0	Mm.35693	NM_025319	ENSMUSG00000007777	0610009B22Rik	-	RIKEN cDNA 0610009B22 gene	protein-coding	140.5	249.5	132.5	1907.0	487.5	162.0	206.0	206.0
Merged-chr8-4521655-4	chr8	4521566	4521766	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026058, intron 9 of 10)	intron (NM_026058, intron 9 of 10)	28261.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	24.0	21.0	14.5	381.0	32.5	13.5	25.0	25.5
Merged-chr10-118622296-4	chr10	118622208	118622408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-65783.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	31.5	32.0	29.0	551.0	81.0	17.0	43.0	39.5
Merged-chr11-87466219-4	chr11	87466121	87466321	+	951.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	ORR1B1|LTR|ERVL-MaLR	38630.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	19.0	25.5	16.5	237.5	41.5	17.5	20.5	14.5
Merged-chr2-91202941-4	chr2	91202825	91203025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007387)	promoter-TSS (NM_007387)	13.0	NM_007387	11432.0	Mm.45570	NM_007387	ENSMUSG00000002103	Acp2	Acp-2|LAP	acid phosphatase 2, lysosomal	protein-coding	55.5	80.0	53.5	829.5	149.5	59.5	74.0	49.5
Merged-chr1-80627014-4	chr1	80626925	80627125	+	814.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 3 of 55)	intron (NM_175291, intron 3 of 55)	38327.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	13.5	15.5	11.0	144.0	19.5	9.5	7.5	5.0
Merged-chr6-72517698-4	chr6	72517590	72517790	+	829.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26701.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	9.0	8.5	6.0	157.0	12.5	10.0	13.5	19.0
Merged-chr14-120910979-4	chr14	120910876	120911076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023579)	promoter-TSS (NM_023579)	-218.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	335.0	506.5	380.0	5233.0	891.0	320.5	436.0	274.5
Merged-chr6-32591547-4	chr6	32591437	32591637	+	955.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3345.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	17.0	16.0	17.0	238.0	37.5	13.5	17.5	23.5
Merged-chr12-112618126-4	chr12	112618037	112618237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1910.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	83.0	199.0	75.0	1058.5	303.0	89.0	99.0	74.0
Merged-chr18-21725494-2	chr18	21725392	21725592	+	995.416626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-73124.0	NM_001081403	225266.0	Mm.436836	NM_001081403	ENSMUSG00000042514	Klhl14	6330403N15Rik|AI785250|printor	kelch-like 14	protein-coding	24.0	29.0	31.0	411.0	0.5	0.0	0.0	0.0
Merged-chr17-5570429-4	chr17	5570346	5570546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	77846.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	78.5	93.0	134.0	2046.5	193.0	65.0	137.0	123.5
Merged-chr7-121078030-4	chr7	121077919	121078119	+	949.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3489.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	19.5	28.0	15.5	251.5	55.0	10.0	18.0	13.5
Merged-chr13-9642108-1	chr13	9642008	9642208	+	846.0	f0_balb.idr	intron (NM_001081426, intron 31 of 36)	intron (NM_001081426, intron 31 of 36)	121702.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	4.0	7.5	9.5	163.0	21.0	8.0	8.5	7.5
Merged-chr18-36687906-1	chr18	36687806	36688006	+	742.0	f0_balb.idr	intron (NM_172831, intron 9 of 12)	URR1B|DNA|hAT-Charlie	8019.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	14.0	28.5	6.5	77.5	3.5	4.5	3.5	4.0
Merged-chr16-93144226-4	chr16	93144106	93144306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	208983.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	49.0	76.0	35.0	647.5	161.0	53.5	44.5	52.5
Merged-chr15-84770326-4	chr15	84770235	84770435	+	851.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205334, intron 12 of 12)	intron (NM_001205334, intron 12 of 12)	-50069.0	NR_040347	328576.0	Mm.400211	NR_040347	ENSMUSG00000116396	Gm20556	A430075N02	predicted gene, 20556	ncRNA	11.0	17.0	12.5	214.5	42.0	10.0	10.0	33.5
Merged-chr11-100939556-4	chr11	100939463	100939663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011486)	promoter-TSS (NM_011486)	-23.0	NM_011486	20848.0	Mm.249934	NM_011486	ENSMUSG00000004040	Stat3	1110034C02Rik|AW109958|Aprf	signal transducer and activator of transcription 3	protein-coding	280.5	462.5	253.5	3318.0	828.5	377.5	359.5	284.0
Merged-chr19-28657292-1	chr19	28657192	28657392	+	817.5	f0_balb.idr	intron (NM_175459, intron 2 of 10)	intron (NM_175459, intron 2 of 10)	-20932.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	8.0	15.0	10.0	185.0	7.0	5.0	5.0	3.0
Merged-chr1-149958081-4	chr1	149958063	149958263	+	977.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	3127.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	6.5	5.0	14.5	133.0	29.0	10.0	13.5	20.5
Merged-chr4-149980108-4	chr4	149980008	149980208	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173371, exon 5 of 5)	3' UTR (NM_173371, exon 5 of 5)	23128.0	NM_001291004	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	13.5	20.0	19.5	81.0	15.5	8.0	4.5	12.0
Merged-chr15-61984480-4	chr15	61984388	61984588	+	929.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010849)	promoter-TSS (NM_010849)	-853.0	NM_001177354	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	19.0	30.0	27.5	170.5	30.0	8.5	9.5	13.0
Merged-chr11-83530658-4	chr11	83530557	83530757	+	946.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013653)	promoter-TSS (NM_013653)	-139.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	25.5	58.5	7.0	86.5	115.0	34.0	26.5	23.0
Merged-chr11-61839524-7	chr11	61839407	61839607	+	973.26532	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013881, intron 5 of 26)	B1_Mur4|SINE|Alu	15585.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	14.0	20.5	12.0	186.5	34.0	17.5	8.5	14.5
Merged-chr6-106283898-4	chr6	106283788	106283988	+	962.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109749, intron 5 of 25)	intron (NM_001109749, intron 5 of 25)	165123.0	NM_001109751	269784.0	Mm.321683	NM_173004	ENSMUSG00000064293	Cntn4	9630050B05|Axcam|BIG-2	contactin 4	protein-coding	13.0	15.0	13.5	423.5	92.5	44.5	65.0	41.0
Merged-chr1-132367820-4	chr1	132367756	132367956	+	927.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311108)	promoter-TSS (NM_001311108)	92.0	NM_001311108	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	11.5	17.0	13.5	214.5	19.5	4.5	13.0	10.5
Merged-chr19-28827916-3	chr19	28827821	28828021	+	827.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5a|LINE|L1	-7245.0	NM_009199	20510.0	Mm.246670	NM_009199	ENSMUSG00000024935	Slc1a1	D130048G10Rik|EAAC1|EAAC2|EAAT3|MEAAC1	solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1	protein-coding	5.0	10.0	18.5	223.5	12.5	5.5	10.5	8.5
Merged-chr4-26438112-3	chr4	26438013	26438213	+	964.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91461.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	14.5	17.0	20.0	617.0	16.5	7.5	9.5	8.5
Merged-chr9-103229339-4	chr9	103229200	103229400	+	900.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133977, intron 1 of 16)	intron (NM_133977, intron 1 of 16)	986.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	2.5	7.0	13.5	175.5	17.0	5.0	11.5	18.5
Merged-chr10-19693052-8	chr10	19692906	19693106	+	964.3312380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19581.0	NM_172786	237313.0	Mm.234667	NM_172786	ENSMUSG00000020007	Il20ra	E230031K19	interleukin 20 receptor, alpha	protein-coding	7.0	15.5	18.0	202.5	21.5	9.0	13.5	17.0
Merged-chr4-124700593-4	chr4	124700497	124700697	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010213)	promoter-TSS (NM_010213)	-102.0	NM_010213	14201.0	Mm.331856	NM_010213	ENSMUSG00000032643	Fhl3	SLIM2	four and a half LIM domains 3	protein-coding	32.0	21.5	35.0	289.5	62.5	20.0	12.5	12.0
Merged-chr3-34034995-3	chr3	34034901	34035101	+	868.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113189, intron 1 of 16)	intron (NM_001113189, intron 1 of 16)	14922.0	NM_001113189	14359.0	Mm.259021	NM_008053	ENSMUSG00000027680	Fxr1	1110050J02Rik|9530073J07Rik|AI851072|Fxr1h|Fxr1p	fragile X mental retardation gene 1, autosomal homolog	protein-coding	8.0	9.5	8.5	101.0	19.5	1.5	9.0	5.5
Merged-chr15-77933970-4	chr15	77933859	77934059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4965.0	NM_019913	56551.0	Mm.291917	NM_019913	ENSMUSG00000005354	Txn2	2510006J11Rik|AI788873|Trx2	thioredoxin 2	protein-coding	28.0	63.5	28.0	486.0	54.5	42.0	29.0	30.0
Merged-chr9-67840361-4	chr9	67840276	67840476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177184)	promoter-TSS (NM_177184)	-20.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	37.0	58.0	37.0	296.5	90.0	35.0	57.0	35.0
Merged-chr2-33755839-4	chr2	33755761	33755961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 7 of 9)	intron (NM_175184, intron 7 of 9)	-49955.0	NR_045729	320482.0	Mm.442057	NR_045729	ENSMUSG00000086484	Nron	A630071L07Rik|Gm24353	non-protein coding RNA, repressor of NFAT	ncRNA	69.0	126.5	93.0	1393.0	133.5	49.5	67.0	78.0
Merged-chr19-11517571-4	chr19	11517466	11517666	+	912.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027209)	promoter-TSS (NM_027209)	-993.0	NM_027209	69774.0	Mm.436639	NM_027209	ENSMUSG00000024677	Ms4a6b	1810027D10Rik	membrane-spanning 4-domains, subfamily A, member 6B	protein-coding	33.5	16.0	40.5	334.5	35.0	16.0	13.5	9.0
Merged-chr6-92989242-2	chr6	92989222	92989422	+	662.75	f0_balb.idr|f1_balb.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	48740.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	8.5	5.5	4.5	170.0	0.0	0.0	0.0	7.5
Merged-chr2-103966550-2	chr2	103966450	103966650	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001142337, intron 1 of 3)	MIRc|SINE|MIR	-3007.0	NM_001142336	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	3.0	1.5	2.0	58.0	11.5	4.5	5.0	8.5
Merged-chr7-140141521-4	chr7	140141431	140141631	+	848.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199301, intron 3 of 10)	intron (NM_199301, intron 3 of 10)	3967.0	NM_199301	212508.0	Mm.296088	NM_199301	ENSMUSG00000039018	Mtg1	Gm169|Gtpbp7	mitochondrial ribosome-associated GTPase 1	protein-coding	13.5	9.0	12.5	240.5	21.5	9.5	6.5	9.5
Merged-chr3-115695270-4	chr3	115695138	115695338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19817.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	37.5	63.5	45.0	594.5	80.5	38.0	34.0	36.0
Merged-chr5-136986913-4	chr5	136986814	136987014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011962)	promoter-TSS (NM_011962)	-10.0	NM_001310748	70103.0	Mm.273147	NM_027318	ENSMUSG00000059518	Znhit1	2700001K05Rik|ZNFN4A1	zinc finger, HIT domain containing 1	protein-coding	83.0	117.0	40.5	829.5	167.0	60.5	89.0	62.5
Merged-chr5-121596772-4	chr5	121596680	121596880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-2956.0	NM_001308450	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	32.5	36.0	22.5	296.5	52.0	17.5	23.0	35.0
Merged-chr8-111525355-4	chr8	111525265	111525465	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-3258.0	NM_176923	319481.0	Mm.247294	NM_176923	ENSMUSG00000031959	Wdr59	5430401O09Rik|Cdw12	WD repeat domain 59	protein-coding	15.0	20.5	13.5	208.5	45.5	22.0	35.5	27.5
Merged-chr9-100415469-3	chr9	100415357	100415557	+	945.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71016.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	8.0	27.5	28.0	604.0	10.5	0.0	3.0	11.5
Merged-chr4-134468357-4	chr4	134468252	134468452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019641)	promoter-TSS (NM_019641)	32.0	NM_019641	16765.0	Mm.378957	NM_019641	ENSMUSG00000028832	Stmn1	19k|Lag|Lap18|Op18|P18|P19|Pig|Pp17|Pp18|Pp19|Pr22|Smn	stathmin 1	protein-coding	39.0	88.5	25.5	550.0	172.0	73.0	85.0	64.5
Merged-chr17-86977388-4	chr17	86977297	86977497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	HAL1ME|LINE|L1	14286.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	66.5	91.5	65.0	822.5	99.5	47.0	31.0	45.0
Merged-chr16-4964364-4	chr16	4964269	4964469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271586)	promoter-TSS (NM_001271586)	81.0	NM_001271586	74684.0	Mm.374835	NM_001271586	ENSMUSG00000022543	4930451G09Rik	-	RIKEN cDNA 4930451G09 gene	protein-coding	336.5	533.0	400.5	5179.5	627.0	304.5	427.5	290.5
Merged-chr17-15938183-4	chr17	15938058	15938258	+	959.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-111572.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	26.5	12.0	17.5	314.5	47.0	14.5	19.0	51.0
Merged-chr18-80161664-4	chr18	80161519	80161719	+	948.767822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-10137.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	4.5	15.0	24.0	70.0	29.0	8.5	11.5	15.5
Merged-chr19-38930925-4	chr19	38930826	38931026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008234)	promoter-TSS (NM_008234)	-64.0	NM_008234	15201.0	Mm.57223	NM_008234	ENSMUSG00000025001	Hells	AI323785|E130115I21Rik|LSH|Lysh|PASG|YFK8	helicase, lymphoid specific	protein-coding	58.5	55.0	44.0	623.5	108.0	30.0	47.0	52.5
Merged-chr11-62675895-4	chr11	62675780	62675980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27216.0	NM_175002	216829.0	Mm.295306	NM_175002	ENSMUSG00000048497	Mmgt2	AI852046	membrane magnesium transporter 2	protein-coding	30.5	36.0	22.5	371.0	62.0	18.5	22.5	23.5
Merged-chr6-72990400-3	chr6	72990292	72990492	+	899.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31644.0	NM_001190327	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	5.0	7.5	13.5	115.5	31.0	11.0	8.5	7.5
Merged-chr13-93989443-4	chr13	93989324	93989524	+	883.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68372.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	8.0	21.0	16.5	60.0	34.5	13.0	22.5	21.5
Merged-chr11-51606912-4	chr11	51606813	51607013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010448)	promoter-TSS (NM_010448)	-32.0	NM_010448	15384.0	Mm.256875	NM_010448	ENSMUSG00000020358	Hnrnpab	3010025C11Rik|CBF-A|Cgbfa|Hnrpab	heterogeneous nuclear ribonucleoprotein A/B	protein-coding	148.0	281.5	140.5	1713.0	421.0	148.0	133.0	126.0
Merged-chr10-120113655-4	chr10	120113564	120113764	+	933.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080446)	promoter-TSS (NM_080446)	-699.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	31.5	14.0	19.5	175.0	34.5	5.0	14.5	21.5
Merged-chr1-23763018-4	chr1	23762900	23763100	+	957.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172124, exon 1 of 4)	exon (NM_172124, exon 1 of 4)	1074.0	NM_172124	280645.0	Mm.471661	NM_172124	ENSMUSG00000026156	B3gat2	GlcAT-S|Glcats	beta-1,3-glucuronyltransferase 2 (glucuronosyltransferase S)	protein-coding	10.5	21.0	7.5	441.0	44.0	19.0	17.5	21.0
Merged-chr2-68985463-4	chr2	68985357	68985557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 3 of 10)	intron (NM_001347161, intron 3 of 10)	124016.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	21.0	32.5	31.0	646.5	73.0	31.0	22.0	33.5
Merged-chr2-167004642-2	chr2	167004541	167004741	+	680.666626	f0_balb.idr|f0_c57.idr	Intergenic	B3|SINE|B2	-8342.0	NM_001109905	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	8.5	9.0	9.0	120.5	23.5	7.5	4.5	9.5
Merged-chr10-111009986-4	chr10	111009901	111010101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172554)	promoter-TSS (NM_172554)	8.0	NM_001359622	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	107.0	125.5	95.5	1297.0	207.5	77.5	110.5	118.5
Merged-chr12-55495276-4	chr12	55495181	55495381	+	977.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2634.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	27.5	27.0	15.0	226.5	47.5	22.0	34.0	15.5
Merged-chr17-88524266-3	chr17	88524164	88524364	+	636.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-5860.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	12.5	18.5	7.0	142.5	1.0	1.0	0.5	1.5
Merged-chr2-167493090-4	chr2	167492942	167493142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170756)	promoter-TSS (NM_170756)	-168.0	NM_001356523	263876.0	Mm.34342	NM_170756	ENSMUSG00000047030	Spata2	AI504642|mKIAA0757	spermatogenesis associated 2	protein-coding	101.0	182.5	78.5	1116.5	313.5	126.0	118.0	111.5
Merged-chr3-35693215-4	chr3	35693109	35693309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-27046.0	NR_040748	625963.0	Mm.251506	NR_040748	ENSMUSG00000105662	Gm6639	-	predicted gene 6639	ncRNA	47.5	61.5	52.0	869.5	98.5	46.0	60.0	59.5
Merged-chr1-171504164-4	chr1	171504071	171504271	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019484, exon 1 of 1)	exon (NM_019484, exon 1 of 1)	693.0	NM_019484	56009.0	Mm.389208	NM_019484	ENSMUSG00000060244	Alyref2	C130042O11Rik|REF2|Refbp2	Aly/REF export factor 2	protein-coding	22.0	22.5	12.5	203.0	39.0	16.5	15.0	22.0
Merged-chr8-83740299-4	chr8	83740198	83740398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	intron (NM_011925, intron 1 of 19)	1013.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	87.5	178.5	41.5	643.5	171.5	90.5	73.0	79.0
Merged-chr4-40853173-4	chr4	40853080	40853280	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022305, intron 1 of 5)	intron (NM_022305, intron 1 of 5)	1357.0	NM_022305	14595.0	Mm.15622	NM_022305	ENSMUSG00000028413	B4galt1	B-1,4-GalT|B-1,4-GalT1|GalT|Ggtb|Ggtb2|b4Gal-T1|beta-1,4-GalT|beta-1,4-GalT1|beta4Gal-T1	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1	protein-coding	18.0	47.0	12.0	204.5	63.5	13.5	20.5	14.0
Merged-chr11-48913803-4	chr11	48913707	48913907	+	860.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045540, intron 2 of 2)	intron (NM_001045540, intron 2 of 2)	-11655.0	NM_001024230	432555.0	Mm.338931	NM_001024230	ENSMUSG00000058163	Gm5431	EG432555|Irgb9b8	predicted gene 5431	protein-coding	16.5	15.0	6.0	128.0	23.0	22.5	10.0	5.0
Merged-chr7-48923822-1	chr7	48923722	48923922	+	710.333313	f0_balb.idr	Intergenic	Intergenic	-35251.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	9.5	8.0	13.5	131.5	11.5	0.5	5.5	10.0
Merged-chr7-30394615-4	chr7	30394596	30394796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19092.0	NM_011662	22177.0	Mm.46301	NM_011662	ENSMUSG00000030579	Tyrobp	DAP12|KARAP|Ly83	TYRO protein tyrosine kinase binding protein	protein-coding	107.5	144.0	83.0	1387.5	165.5	75.5	76.5	88.0
Merged-chr17-13056357-4	chr17	13056258	13056458	+	916.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4078.0	NM_001013832	436440.0	Mm.335670	NM_001013832	ENSMUSG00000071311	Gpr31b	12-HETER|GPR31c(t)|Gpr31|Gpr31c	G protein-coupled receptor 31, D17Leh66b region	protein-coding	26.0	23.0	9.0	111.0	42.5	15.0	16.5	10.5
Merged-chr8-107574948-2	chr8	107574848	107575048	+	543.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	13534.0	NM_010817	17463.0	Mm.18347	NM_010817	ENSMUSG00000039067	Psmd7	AW107203|Mov-34|Mov34	proteasome (prosome, macropain) 26S subunit, non-ATPase, 7	protein-coding	3.0	0.0	1.0	3.0	15.5	6.5	18.0	10.5
Merged-chr9-65580227-4	chr9	65580122	65580322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153119)	promoter-TSS (NM_153119)	-135.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	208.5	335.5	214.0	2649.5	510.0	213.0	257.0	212.5
Merged-chr3-146059601-4	chr3	146059522	146059722	+	929.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172864, intron 16 of 22)	Tigger7|DNA|TcMar-Tigger	48414.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	10.0	14.0	23.5	293.0	54.0	3.0	29.0	15.5
Merged-chr7-114079929-2	chr7	114079829	114080029	+	945.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	37852.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	10.0	9.5	9.0	97.5	20.0	8.5	13.0	19.5
Merged-chr10-130311926-5	chr10	130311876	130312076	+	783.049988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10876.0	NM_183264	67596.0	Mm.131264	NM_183264	ENSMUSG00000034833	Tespa1	5830405N20Rik|A430001F24Rik|AI450549	thymocyte expressed, positive selection associated 1	protein-coding	6.5	7.0	6.0	97.0	3.5	6.5	3.5	5.0
Merged-chr11-80327514-4	chr11	80327412	80327612	+	985.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139228, intron 4 of 8)	intron (NM_139228, intron 4 of 8)	26600.0	NM_139228	246104.0	Mm.194148	NM_139228	ENSMUSG00000017692	Rhbdl3	AI847581|Rhbdl4|Rhomr1|Vrho	rhomboid like 3	protein-coding	18.0	34.0	18.5	327.0	62.0	15.5	18.5	20.0
Merged-chr4-108619406-2	chr4	108619306	108619506	+	713.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177045)	promoter-TSS (NM_177045)	-550.0	NM_177045	319965.0	Mm.151129	NM_177045	ENSMUSG00000028582	Cc2d1b	A830039B04Rik|Freud2	coiled-coil and C2 domain containing 1B	protein-coding	4.5	8.0	6.0	59.5	8.0	3.5	2.5	5.5
Merged-chr1-172501861-4	chr1	172501762	172501962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178598, intron 1 of 4)	intron (NM_178598, intron 1 of 4)	1616.0	NM_178598	21346.0	Mm.271711	NM_178598	ENSMUSG00000026547	Tagln2	2700094C18Rik|SM22beta|Sm22B|Sm22a	transgelin 2	protein-coding	52.5	77.5	40.5	444.5	151.0	74.0	59.0	52.5
Merged-chr2-36217179-4	chr2	36217067	36217267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13259.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	95.5	101.0	82.0	1688.0	237.5	84.0	108.5	107.5
Merged-chr4-136895754-6	chr4	136895596	136895796	+	943.1527710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007572)	TTS (NM_007572)	-2782.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	24.0	26.0	21.5	144.5	15.0	2.0	4.0	8.5
Merged-chr11-118401981-4	chr11	118401882	118402082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011150)	promoter-TSS (NM_011150)	-23.0	NM_011150	19039.0	Mm.3152	NM_011150	ENSMUSG00000033880	Lgals3bp	90K|CyCAP|MAC-2BP|Ppicap|Tango10b	lectin, galactoside-binding, soluble, 3 binding protein	protein-coding	88.0	150.5	73.5	1149.0	148.5	60.5	74.5	78.0
Merged-chr7-89481935-3	chr7	89481837	89482037	+	953.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35649.0	NM_029614	76453.0	Mm.250438	NM_029614	ENSMUSG00000039405	Prss23	2310046G15Rik|4930479H08Rik|AI790574|Spuve	protease, serine 23	protein-coding	28.0	43.0	73.0	335.5	12.5	2.5	3.5	18.5
Merged-chr2-30514982-4	chr2	30514872	30515072	+	981.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40773.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	30.5	22.0	12.0	227.0	54.5	9.0	34.0	25.0
Merged-chr19-34682744-3	chr19	34682672	34682872	+	951.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172838, intron 2 of 6)	Lx7|LINE|L1	41883.0	NM_008331	15957.0	Mm.439751	NM_008331	ENSMUSG00000034459	Ifit1	ISG56|Ifi56|P56	interferon-induced protein with tetratricopeptide repeats 1	protein-coding	9.0	19.0	11.5	350.5	10.0	3.0	9.5	9.0
Merged-chr8-35607893-3	chr8	35607784	35607984	+	708.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-18864.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	6.5	6.0	5.5	178.5	3.5	3.0	15.0	3.5
Merged-chr3-38202444-2	chr3	38202363	38202563	+	1000.0	f0_balb.idr|f0_c57.idr	TTS (NR_040541)	TTS (NR_040541)	5656.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	31.5	31.0	24.0	406.0	87.5	38.0	31.5	21.0
Merged-chr9-62894673-4	chr9	62894586	62894786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 9 of 13)	intron (NM_019663, intron 9 of 13)	-32662.0	NR_003965	677044.0	Mm.422004	NR_003965	ENSMUSG00000074250	Gm10653	-	ribsomal protein S2 pseudogene	pseudo	27.5	31.5	32.0	596.5	82.0	36.5	31.0	43.0
Merged-chr4-119053823-4	chr4	119053733	119053933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_131914)	TTS (NR_131914)	15278.0	NR_131914	433751.0	Mm.224312	NR_131914	ENSMUSG00000066060	Gm12866	-	predicted gene 12866	ncRNA	23.5	22.0	22.5	378.5	67.0	14.0	27.0	29.5
Merged-chr12-88408416-3	chr12	88408310	88408510	+	967.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361601, intron 3 of 8)	BC1_Mm|scRNA|scRNA	-31087.0	NR_045888	71818.0	Mm.490789	NR_045888	ENSMUSG00000113434	3200001D21Rik	-	RIKEN cDNA 3200001D21 gene	ncRNA	12.5	29.0	16.0	307.0	45.0	5.0	5.5	6.5
Merged-chr16-36821688-4	chr16	36821590	36821790	+	898.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134111, intron 2 of 5)	intron (NM_134111, intron 2 of 5)	6569.0	NM_001113401	106389.0	Mm.432078	NM_134111	ENSMUSG00000022838	Eaf2	AW048865|FESTA-L|FESTA-S|Festa|Traits|U19	ELL associated factor 2	protein-coding	5.5	11.5	10.0	144.0	30.0	7.0	9.0	9.0
Merged-chr19-32491229-4	chr19	32491167	32491367	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010799, intron 1 of 4)	intron (NM_010799, intron 1 of 4)	5498.0	NM_010799	17330.0	Mm.255116	NM_010799	ENSMUSG00000024896	Minpp1	AA408516	multiple inositol polyphosphate histidine phosphatase 1	protein-coding	11.5	11.0	26.0	139.0	22.0	4.5	11.0	9.0
Merged-chr7-117486661-4	chr7	117486571	117486771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 2 of 11)	intron (NM_175645, intron 2 of 11)	105692.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	46.0	77.5	50.0	763.0	119.5	23.0	25.5	42.0
Merged-chr2-167688275-4	chr2	167688174	167688374	+	966.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009883)	promoter-TSS (NM_009883)	-641.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	11.5	16.5	17.5	156.5	35.0	13.5	12.0	19.5
Merged-chr2-132695813-4	chr2	132695578	132695778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028637, intron 2 of 2)	intron (NM_028637, intron 2 of 2)	5080.0	NM_028637	73747.0	Mm.284114	NM_028637	ENSMUSG00000044991	1110034G24Rik	-	RIKEN cDNA 1110034G24 gene	protein-coding	11.0	6.5	13.0	74.0	14.0	2.5	6.0	12.5
Merged-chr11-115933594-4	chr11	115933502	115933702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020483)	promoter-TSS (NM_020483)	-57.0	NM_020483	57230.0	Mm.267810	NM_020483	ENSMUSG00000020755	Sap30bp	2700016D05Rik|Hcngp	SAP30 binding protein	protein-coding	94.0	169.5	59.5	1003.5	301.5	100.5	77.5	79.5
Merged-chr18-20886502-4	chr18	20886318	20886518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177038, intron 1 of 28)	MTEa|LTR|ERVL-MaLR	9660.0	NM_029491	75964.0	Mm.273769	NM_029491	ENSMUSG00000033382	Trappc8	5033403J15Rik|AI845423|D030074E01Rik|Trs85|mKIAA1012	trafficking protein particle complex 8	protein-coding	15.0	19.5	18.5	232.0	20.0	6.5	9.0	18.0
Merged-chr8-25720085-4	chr8	25719985	25720185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_121643)	promoter-TSS (NR_121643)	37.0	NR_121643	71910.0	Mm.385055	NM_028000	ENSMUSG00000031570	Plpp5	1810019D05Rik|2310022A04Rik|AW045471|Ppapdc1|Ppapdc1b	phospholipid phosphatase 5	protein-coding	45.5	61.5	57.5	875.0	107.5	36.5	40.0	45.5
Merged-chr10-95685336-4	chr10	95685252	95685452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121206.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	84.0	110.0	49.5	769.0	140.5	46.5	53.5	54.5
Merged-chr10-80694807-4	chr10	80694719	80694919	+	974.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	7001.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	34.0	70.5	11.0	217.5	101.5	31.0	28.0	54.0
Merged-chr10-80329364-3	chr10	80329301	80329501	+	901.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008793)	promoter-TSS (NM_008793)	72.0	NM_008793	18551.0	Mm.299916	NM_008793	ENSMUSG00000020131	Pcsk4	AI647044|L21221|NEC 3|NEC3|PC4|SPC5	proprotein convertase subtilisin/kexin type 4	protein-coding	13.0	6.5	10.0	61.0	19.0	7.0	14.5	15.5
Merged-chr2-25072381-4	chr2	25072281	25072481	+	806.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7942.0	NM_028093	72090.0	Mm.33403	NM_028093	ENSMUSG00000036813	Entpd8	-	ectonucleoside triphosphate diphosphohydrolase 8	protein-coding	10.0	29.0	7.0	100.0	27.0	11.5	10.5	3.0
Merged-chr13-92337094-4	chr13	92337006	92337206	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311120, intron 8 of 23)	(CACCT)n|Simple_repeat|Simple_repeat	-17677.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	48.5	68.0	58.0	623.0	60.0	24.5	15.5	35.5
Merged-chr11-69672502-4	chr11	69672411	69672611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144958)	promoter-TSS (NM_144958)	-88.0	NM_001159375	13681.0	Mm.26680	NM_144958	ENSMUSG00000059796	Eif4a1	BM-010|Ddx2a|Eif4	eukaryotic translation initiation factor 4A1	protein-coding	396.0	632.0	374.5	4967.5	859.5	325.5	388.0	341.0
Merged-chr7-16053363-4	chr7	16053256	16053456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18489.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	35.5	54.0	41.5	512.0	91.0	34.0	39.0	29.0
Merged-chr3-54361115-4	chr3	54361021	54361221	+	839.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198766)	promoter-TSS (NM_001198766)	14.0	NM_015784	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	28.5	37.0	33.0	451.5	11.5	6.0	10.5	13.0
Merged-chr7-25181633-4	chr7	25181538	25181738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26569.0	NR_045848	434147.0	Mm.59171	NM_001033781	ENSMUSG00000074274	D930028M14Rik	EG434147	RIKEN cDNA D930028M14 gene	ncRNA	50.0	47.5	22.0	462.0	106.0	29.0	46.5	29.0
Merged-chr11-118216099-6	chr11	118216018	118216218	+	944.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	MTD|LTR|ERVL-MaLR	-3376.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	14.0	28.0	19.5	223.5	15.5	4.0	10.5	7.0
Merged-chr16-32060041-4	chr16	32059941	32060141	+	938.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177326, intron 1 of 14)	intron (NM_177326, intron 1 of 14)	19301.0	NM_177326	224105.0	Mm.234204	NM_177326	ENSMUSG00000022781	Pak2	5330420P17Rik|A130002K10Rik|AI836325|D16Ertd269e|PAK-2|mKIAA4182	p21 (RAC1) activated kinase 2	protein-coding	25.0	15.5	11.0	315.0	51.0	10.5	18.5	18.5
Merged-chr19-56727357-4	chr19	56727243	56727443	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4971.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	49.5	51.0	31.5	461.5	69.0	25.0	32.5	21.5
Merged-chr17-24159080-4	chr17	24158981	24159181	+	949.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172935, intron 3 of 10)	intron (NM_172935, intron 3 of 10)	4652.0	NM_172935	245847.0	Mm.87319	NM_172935	ENSMUSG00000036820	Amdhd2	5730457F11Rik	amidohydrolase domain containing 2	protein-coding	20.5	20.5	13.0	287.5	54.5	10.5	25.5	24.5
Merged-chr19-45037067-3	chr19	45036973	45037173	+	836.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001195265, exon 7 of 16)	exon (NM_001195265, exon 7 of 16)	8699.0	NM_001195265	100503041.0	Mm.329877	NM_177605	ENSMUSG00000074818	Pdzd7	9130207N01|EG435601|Pdzk7	PDZ domain containing 7	protein-coding	5.0	6.0	9.5	91.0	11.5	4.0	13.0	6.5
Merged-chr1-170934595-4	chr1	170934498	170934698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7015.0	NM_001160215	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	74.0	80.5	69.5	1535.5	150.0	62.5	73.5	96.5
Merged-chr10-128909765-4	chr10	128909659	128909859	+	911.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007653)	promoter-TSS (NM_007653)	-107.0	NM_007653	12512.0	Mm.371552	NM_007653	ENSMUSG00000025351	Cd63	C75951|ME491|Tspan30	CD63 antigen	protein-coding	36.5	35.5	47.5	406.5	24.5	15.0	10.5	11.0
Merged-chr13-107762940-4	chr13	107762850	107763050	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 5 of 14)	intron (NM_145456, intron 5 of 14)	75553.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	9.5	7.0	5.5	143.0	23.0	5.5	11.0	5.5
Merged-chr6-28723197-1	chr6	28723097	28723297	+	755.0	f0_balb.idr	intron (NM_019776, intron 13 of 23)	intron (NM_019776, intron 13 of 23)	108550.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	6.0	5.5	8.5	99.5	11.0	3.0	6.5	6.5
Merged-chr6-125148605-6	chr6	125148536	125148736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039669, intron 1 of 9)	intron (NM_001039669, intron 1 of 9)	3412.0	NM_001302779	320678.0	Mm.129415	NM_178787	ENSMUSG00000038271	Iffo1	4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo	intermediate filament family orphan 1	protein-coding	28.0	40.5	30.0	279.5	41.5	20.0	29.5	30.5
Merged-chr8-120697341-3	chr8	120697231	120697431	+	850.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29011.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	8.5	3.5	26.0	77.5	12.5	6.5	8.0	6.0
Merged-chr19-47408872-4	chr19	47408727	47408927	+	849.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 2 of 14)	intron (NM_008018, intron 2 of 14)	55584.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	13.0	8.0	13.0	135.0	20.5	7.0	11.5	9.0
Merged-chr15-101379368-4	chr15	101379284	101379484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9259.0	NM_028770	74127.0	Mm.440055	NM_028770	ENSMUSG00000037185	Krt80	1200016G03Rik|2310041I20Rik|Kb20	keratin 80	protein-coding	47.0	80.5	55.0	844.0	90.0	24.5	36.0	52.0
Merged-chr19-7018429-5	chr19	7018330	7018530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362399, intron 2 of 14)	intron (NM_001362399, intron 2 of 14)	1039.0	NM_153795	108101.0	Mm.157591	NM_153795	ENSMUSG00000024965	Fermt3	C79673|Kindlin3	fermitin family member 3	protein-coding	24.5	34.5	27.5	311.0	60.0	27.0	29.5	32.0
Merged-chr3-67582753-4	chr3	67582644	67582844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025813)	promoter-TSS (NM_025813)	-24.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	111.5	151.5	81.0	1928.0	291.0	118.0	118.0	116.0
Merged-chr8-26076332-4	chr8	26076246	26076446	+	967.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207659, intron 6 of 21)	intron (NM_207659, intron 6 of 21)	-6263.0	NR_110583	76604.0	Mm.437190	NR_110583	ENSMUSG00000085437	1700047A11Rik	4930554C15Rik	RIKEN cDNA 1700047A11 gene	ncRNA	12.5	34.0	19.0	296.0	69.5	15.0	37.5	29.0
Merged-chr6-128379832-2	chr6	128379732	128379932	+	781.333374	f1_balb.idr|f1_c57bl6.idr	exon (NM_027697, exon 2 of 3)	exon (NM_027697, exon 2 of 3)	4322.0	NM_027697	71149.0	Mm.483176	NM_027697	ENSMUSG00000079304	Tex52	4933413G19Rik	testis expressed 52	protein-coding	5.0	4.5	7.5	165.5	7.0	2.5	4.5	9.5
Merged-chr2-124707037-4	chr2	124706946	124707146	+	716.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53465.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	12.5	12.0	10.5	208.0	18.5	11.5	15.5	20.0
Merged-chr15-36935397-3	chr15	36935284	36935484	+	911.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	72018.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	11.0	5.0	5.5	123.5	13.5	3.0	7.0	4.5
Merged-chr2-52941114-3	chr2	52941031	52941231	+	912.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	83263.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	10.0	15.0	7.0	142.0	20.5	4.5	8.0	4.0
Merged-chr15-58875975-4	chr15	58875866	58876066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026642, exon 1 of 1)	3' UTR (NM_026642, exon 1 of 1)	3317.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	56.5	100.5	72.5	1014.0	168.0	52.0	62.0	65.5
Merged-chr4-154011812-4	chr4	154011728	154011928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201226)	promoter-TSS (NM_201226)	25.0	NM_201226	72946.0	Mm.260690	NM_201226	ENSMUSG00000029028	Lrrc47	2900010D03Rik|AA960559|mKIAA1185	leucine rich repeat containing 47	protein-coding	65.5	66.0	59.0	879.5	122.5	44.5	72.5	43.0
Merged-chr5-129895674-4	chr5	129895576	129895776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183088)	promoter-TSS (NM_183088)	-47.0	NM_001359408	71970.0	Mm.422716	NM_183088	ENSMUSG00000034173	Zbed5	2410018M08Rik|Scand3	zinc finger, BED type containing 5	protein-coding	150.0	203.5	142.5	3113.0	508.0	158.0	185.0	166.5
Merged-chr6-124993539-4	chr6	124993422	124993622	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3198.0	NM_175696	319352.0	Mm.295327	NM_175696	ENSMUSG00000030329	Pianp	AI255183|AU067746|C530028O21Rik|Panp	PILR alpha associated neural protein	protein-coding	58.0	54.0	47.5	765.5	62.0	16.0	6.5	20.0
Merged-chr2-57335601-3	chr2	57335517	57335717	+	765.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 6 of 16)	intron (NM_010274, intron 6 of 16)	97235.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	9.0	5.5	15.5	88.5	18.5	4.0	11.5	3.5
Merged-chr6-145274308-4	chr6	145274207	145274407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23755.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	86.5	126.5	145.0	2080.5	239.0	77.5	108.5	100.0
Merged-chr1-64738908-3	chr1	64738817	64739017	+	794.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1167.0	NM_022721	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	13.5	13.0	23.5	129.5	11.5	4.5	9.5	12.0
Merged-chr10-61696391-2	chr10	61696291	61696491	+	719.666687	f1_balb.idr|f1_c57bl6.idr	exon (NM_001272090, exon 1 of 4)	exon (NM_001272090, exon 1 of 4)	805.0	NR_073587	71767.0	Mm.71514	NM_027912	ENSMUSG00000020087	Tysnd1	1300019N10Rik	trypsin domain containing 1	protein-coding	6.5	6.0	7.5	77.5	16.5	5.5	3.5	16.5
Merged-chr2-122611819-4	chr2	122611701	122611901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025961)	promoter-TSS (NM_025961)	-524.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	69.0	101.0	67.0	1001.0	153.0	47.5	75.5	46.0
Merged-chr6-134211458-3	chr6	134211348	134211548	+	961.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	175748.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	9.0	5.0	12.0	183.5	2.5	0.5	2.5	10.5
Merged-chr1-171370047-4	chr1	171369950	171370150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027893)	promoter-TSS (NM_027893)	-123.0	NM_027893	71740.0	Mm.263414	NM_027893	ENSMUSG00000006411	Nectin4	1200017F15Rik|Prr4|Pvrl4	nectin cell adhesion molecule 4	protein-coding	28.0	37.0	15.5	524.0	61.5	26.5	45.0	49.5
Merged-chr11-5512522-4	chr11	5512377	5512577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31B|LTR|ERV1	-8164.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	34.0	52.0	34.0	587.5	57.0	28.0	18.5	36.5
Merged-chr12-78894321-4	chr12	78894226	78894426	+	939.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013738, intron 5 of 8)	intron (NM_013738, intron 5 of 8)	12612.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	23.5	13.5	21.5	402.5	36.5	13.0	20.5	23.5
Merged-chr14-7850953-3	chr14	7850855	7851055	+	681.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081427, intron 1 of 45)	RMER5|LTR|ERV1	32998.0	NM_134080	286940.0	Mm.489652	NM_134080	ENSMUSG00000025278	Flnb	AL024016|Fln-b	filamin, beta	protein-coding	5.0	4.5	8.0	71.0	3.0	10.0	4.5	8.0
Merged-chr11-53893213-3	chr11	53893123	53893323	+	949.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1520.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	14.0	8.5	12.0	196.0	13.0	9.5	8.0	14.5
Merged-chr5-24425245-4	chr5	24425143	24425343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009207)	promoter-TSS (NM_009207)	11.0	NM_009207	20535.0	Mm.4580	NM_009207	ENSMUSG00000028962	Slc4a2	Ae2|B3RP	solute carrier family 4 (anion exchanger), member 2	protein-coding	77.0	110.5	43.5	931.5	250.0	114.5	107.0	91.5
Merged-chr7-139235035-4	chr7	139234925	139235125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027164, intron 8 of 10)	intron (NM_027164, intron 8 of 10)	-13457.0	NM_001033206	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	40.5	57.5	37.0	575.0	102.0	46.0	62.5	43.0
Merged-chr7-80014037-4	chr7	80013924	80014124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10790.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	60.5	65.5	36.5	627.5	134.5	46.5	39.5	43.0
Merged-chr13-91728076-4	chr13	91727978	91728178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028314, intron 1 of 1)	L1MC4a|LINE|L1	-13443.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	17.5	45.0	30.0	489.0	83.5	24.5	34.0	29.0
Merged-chr4-140699822-4	chr4	140699687	140699887	+	970.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1686.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	16.5	46.5	21.0	420.0	48.5	13.5	10.0	15.5
Merged-chr12-69507574-4	chr12	69507479	69507679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-32029.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	20.0	29.0	33.0	331.0	115.5	29.5	44.5	50.5
Merged-chr7-81762903-4	chr7	81762792	81762992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025997)	promoter-TSS (NM_025997)	-61.0	NM_025997	67148.0	Mm.241472	NM_025997	ENSMUSG00000038646	Fam103a1	2410047I02Rik|2610204K14Rik|RAM	family with sequence similarity 103, member A1	protein-coding	84.5	75.5	43.5	989.5	247.0	54.0	59.0	84.0
Merged-chr7-110773343-4	chr7	110773256	110773456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009667, intron 1 of 14)	intron (NM_009667, intron 1 of 14)	752.0	NM_009667	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	52.0	73.5	57.0	994.5	121.5	42.0	68.0	80.5
Merged-chr12-59133801-3	chr12	59133705	59133905	+	990.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165253, intron 1 of 22)	intron (NM_001165253, intron 1 of 22)	2352.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	25.0	18.5	28.0	237.0	32.5	4.5	10.0	6.5
Merged-chr8-36159168-6	chr8	36159095	36159295	+	907.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151736, intron 2 of 3)	intron (NR_151736, intron 2 of 3)	3185.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	8.0	18.5	14.0	145.5	16.0	11.0	4.0	12.5
Merged-chr17-78315899-4	chr17	78315818	78316018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 7 of 16)	intron (NM_015800, intron 7 of 16)	102234.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	30.5	23.5	45.5	714.0	42.0	7.0	26.5	26.5
Merged-chr5-123661767-4	chr5	123661671	123661871	+	906.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	PB1D7|SINE|Alu	22590.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	19.5	31.5	20.0	151.0	27.0	13.5	6.5	12.0
Merged-chr8-125067613-9	chr8	125067588	125067788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 1 of 12)	intron (NM_174854, intron 1 of 12)	13493.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	17.5	62.5	37.0	336.0	162.5	66.5	52.0	46.5
Merged-chr2-52918343-3	chr2	52918243	52918443	+	889.544434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	60475.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	14.0	30.5	10.0	205.0	17.5	24.0	0.5	9.5
Merged-chr8-125066609-2	chr8	125066510	125066710	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 1 of 12)	intron (NM_174854, intron 1 of 12)	12415.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	8.0	13.5	4.0	82.5	12.5	5.5	14.5	10.5
Merged-chr2-122138014-2	chr2	122137914	122138114	+	697.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	intron (NM_026251, intron 2 of 17)	-9673.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	4.0	8.0	5.5	40.5	15.0	5.5	10.5	5.0
Merged-chr7-29984237-2	chr7	29984137	29984337	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_001033355, intron 1 of 9)	intron (NM_001033355, intron 1 of 9)	282.0	NM_001167872	243905.0	Mm.322432	NM_001033355	ENSMUSG00000074221	Zfp568	C80731|Gm1691|Znf568|chato	zinc finger protein 568	protein-coding	65.5	118.5	36.5	361.5	17.0	12.0	7.5	10.0
Merged-chr4-71291985-4	chr4	71291890	71292090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-757062.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	151.5	241.0	269.0	1940.0	474.0	192.0	251.0	231.0
Merged-chr15-81836640-4	chr15	81836562	81836762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21664.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	75.0	79.0	51.5	949.5	194.5	60.5	73.0	67.0
Merged-chr10-39378175-4	chr10	39378067	39378267	+	940.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 1 of 13)	intron (NM_001122893, intron 1 of 13)	8368.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	15.0	17.0	20.5	454.5	37.0	0.5	7.5	12.5
Merged-chr2-166021244-4	chr2	166021132	166021332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	28595.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	60.5	75.0	52.5	1023.0	120.0	53.5	79.5	49.5
Merged-chr2-119047016-7	chr2	119046888	119047088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029617)	promoter-TSS (NM_029617)	-131.0	NM_029617	76464.0	Mm.202518	NM_029617	ENSMUSG00000027326	Knl1	2310043D08Rik|5730505K17Rik|Casc5	kinetochore scaffold 1	protein-coding	8.0	24.5	19.0	226.0	83.5	35.0	21.0	53.5
Merged-chr15-95828940-4	chr15	95828851	95829051	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	intron (NR_155276, intron 1 of 1)	1121.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	26.5	32.0	26.5	198.0	66.0	19.5	17.0	11.5
Merged-chr5-90931252-4	chr5	90931150	90931350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026788)	promoter-TSS (NM_026788)	54.0	NM_026788	665563.0	Mm.153030	NM_026788	ENSMUSG00000029376	Mthfd2l	1110019K23Rik|C630010D07Rik	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2-like	protein-coding	99.0	164.5	87.5	1664.0	210.0	86.0	103.5	57.5
Merged-chr4-101155254-4	chr4	101155156	101155356	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 22 of 24)	intron (NM_146145, intron 22 of 24)	86218.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	18.5	18.0	21.0	204.0	43.5	11.5	13.5	10.0
Merged-chr13-45955946-4	chr13	45955860	45956060	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	9031.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	21.5	16.5	29.5	167.5	29.5	9.0	10.5	11.0
Merged-chr1-33904363-4	chr1	33904263	33904463	+	827.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	B4|SINE|B4	3258.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	9.5	7.5	8.0	85.0	25.0	8.0	7.5	13.5
Merged-chr11-59526876-4	chr11	59526773	59526973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14696.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	104.0	132.0	62.5	1332.5	159.0	91.0	76.5	80.5
Merged-chr8-79161608-4	chr8	79161494	79161694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	ORR1D2|LTR|ERVL-MaLR	86989.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	41.5	52.0	52.5	1135.5	139.0	26.5	58.0	53.5
Merged-chr15-6522960-4	chr15	6522882	6523082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56865.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	46.5	50.0	79.0	393.5	59.0	33.5	29.5	23.0
Merged-chr4-119124959-4	chr4	119124873	119125073	+	910.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 2 of 9)	MIR3|SINE|MIR	16228.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	3.0	16.0	12.5	80.5	81.0	31.0	64.5	52.0
Merged-chr7-44401878-4	chr7	44401793	44401993	+	900.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	17767.0	NM_016663	20981.0	Mm.4824	NM_016663	ENSMUSG00000030731	Syt3	AI385753|sytIII	synaptotagmin III	protein-coding	13.0	7.0	6.0	139.5	30.0	4.5	14.0	14.0
Merged-chr14-69141062-4	chr14	69140958	69141158	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30744.0	NM_010920	18092.0	Mm.390691	NM_010920	ENSMUSG00000044186	Nkx2-6	AV044928|Nkx-2.6|Nkx2.6|Tix|tinman	NK2 homeobox 6	protein-coding	7.5	11.5	49.5	242.5	51.5	21.0	16.5	18.0
Merged-chr5-151086566-4	chr5	151086455	151086655	+	770.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153382, intron 3 of 13)	intron (NR_153382, intron 3 of 13)	103638.0	NM_001163493	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	4.5	7.0	14.0	111.0	16.5	13.0	7.0	7.5
Merged-chr15-59265787-4	chr15	59265699	59265899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41149.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	28.0	26.5	39.5	533.0	14.5	7.0	21.5	16.5
Merged-chr17-29442246-4	chr17	29442169	29442369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48776.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	38.5	60.0	35.0	491.0	111.5	28.5	35.5	46.0
Merged-chr2-19666030-4	chr2	19665924	19666124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7962.0	NM_027715	71198.0	Mm.83981	NM_027715	ENSMUSG00000043415	Otud1	4933428L19Rik	OTU domain containing 1	protein-coding	27.0	35.0	36.0	487.5	87.0	19.5	36.5	49.0
Merged-chr7-101302022-4	chr7	101301902	101302102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111111)	promoter-TSS (NM_001111111)	86.0	NM_001111111	73683.0	Mm.275744	NM_001111111	ENSMUSG00000047767	Atg16l2	2410118P20Rik	autophagy related 16-like 2 (S. cerevisiae)	protein-coding	62.5	104.5	76.5	674.5	131.5	79.5	77.5	70.5
Merged-chr17-65784820-4	chr17	65784724	65784924	+	998.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152099, intron 2 of 20)	MTC|LTR|ERVL-MaLR	1469.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	35.5	21.0	61.0	788.5	69.5	22.0	24.0	46.5
Merged-chr17-14990258-3	chr17	14990158	14990358	+	982.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123370, intron 11 of 11)	intron (NM_001123370, intron 11 of 11)	11394.0	NM_001123370	100041574.0	Mm.393767	NM_001123370	ENSMUSG00000036552	9030025P20Rik	D17Zt9e	RIKEN cDNA 9030025P20 gene	protein-coding	20.0	25.5	21.5	178.0	13.5	7.0	11.5	7.5
Merged-chr3-98027532-4	chr3	98027386	98027586	+	890.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	13948.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	10.0	5.0	17.5	126.5	10.5	4.0	7.0	5.0
Merged-chr9-64452925-4	chr9	64452820	64453020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 1 of 24)	intron (NM_001134399, intron 1 of 24)	67294.0	NM_001134399	214058.0	Mm.127721	NM_172522	ENSMUSG00000036466	Megf11	2410080H04Rik|D130061K05	multiple EGF-like-domains 11	protein-coding	64.5	98.5	55.5	966.5	142.0	40.0	57.5	64.0
Merged-chr13-33952227-4	chr13	33952114	33952314	+	852.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040707, intron 1 of 4)	intron (NR_040707, intron 1 of 4)	-12445.0	NM_001163239	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	7.5	8.5	15.5	260.0	21.5	6.0	13.0	9.0
Merged-chr9-100505972-3	chr9	100505941	100506141	+	865.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 2 of 3)	intron (NM_010878, intron 2 of 3)	815.0	NM_001324530	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	4.0	15.0	3.0	55.5	20.0	5.0	6.5	7.5
Merged-chr7-90039667-4	chr7	90039578	90039778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110365, intron 3 of 5)	intron (NR_110365, intron 3 of 5)	10519.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	185.5	257.0	202.0	2445.0	416.0	172.5	209.0	178.0
Merged-chr16-23104096-4	chr16	23104004	23104204	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-3364.0	NR_152586	13682.0	Mm.260084	NM_013506	ENSMUSG00000022884	Eif4a2	4833432N07Rik|BM-010|Ddx2b|Eif4|eIF-4A-II|eIF4A-II	eukaryotic translation initiation factor 4A2	protein-coding	18.0	17.0	22.5	230.5	40.5	15.0	27.0	29.0
Merged-chr17-25133415-4	chr17	25133311	25133511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011930)	promoter-TSS (NM_011930)	20.0	NM_011930	26373.0	Mm.270587	NM_011930	ENSMUSG00000036636	Clcn7	ClC-7|D17Wsu51e	chloride channel, voltage-sensitive 7	protein-coding	38.5	58.5	19.5	444.5	118.0	34.0	31.0	48.5
Merged-chr9-55311754-4	chr9	55311664	55311864	+	967.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15149.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	19.5	46.0	10.5	334.0	50.0	22.0	17.5	21.0
Merged-chr2-26941697-4	chr2	26941593	26941793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198628, intron 5 of 18)	intron (NM_198628, intron 5 of 18)	7624.0	NM_198628	279029.0	Mm.330079	NM_198628	ENSMUSG00000049897	Stkld1	Gm711|Sgk071	serine/threonine kinase-like domain containing 1	protein-coding	149.0	218.0	143.5	2148.5	430.0	145.0	182.5	173.5
Merged-chr14-75075428-4	chr14	75075323	75075523	+	967.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	55460.0	NM_027581	70859.0	Mm.320289	NM_027581	ENSMUSG00000021997	Lrrc63	4921509B22Rik	leucine rich repeat containing 63	protein-coding	8.0	36.0	20.5	255.0	49.5	10.5	25.0	22.0
Merged-chr3-10301990-3	chr3	10301886	10302086	+	742.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029310)	promoter-TSS (NM_029310)	-803.0	NM_029310	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	8.5	16.0	4.5	146.0	6.0	2.5	10.5	0.5
Merged-chr6-116123457-4	chr6	116123364	116123564	+	899.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	MERVL_2A-int|LTR|ERVL	69910.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	13.5	17.0	3.0	180.5	27.5	19.0	9.0	10.5
Merged-chr15-38384883-4	chr15	38384769	38384969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84158.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	243.5	321.0	296.0	3914.0	605.5	244.0	299.0	223.0
Merged-chr14-27340862-3	chr14	27340790	27340990	+	785.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	PB1D10|SINE|Alu	4853.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	7.0	9.5	5.5	107.0	24.0	4.0	5.0	8.0
Merged-chr5-121842119-4	chr5	121842018	121842218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5259.0	NM_008507	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	51.0	56.0	62.5	1324.5	127.0	23.0	28.5	68.5
Merged-chr15-27628033-4	chr15	27627942	27628142	+	991.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013792, intron 1 of 6)	intron (NM_001013792, intron 1 of 6)	2651.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	39.0	65.5	35.0	430.5	68.0	16.0	33.5	29.5
Merged-chr10-81408992-4	chr10	81408883	81409083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152732)	promoter-TSS (NR_152732)	-592.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	100.0	162.0	86.5	1530.5	241.5	94.5	123.0	93.0
Merged-chr1-105747374-4	chr1	105747215	105747415	+	965.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173187, intron 26 of 28)	intron (NM_173187, intron 26 of 28)	-33408.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	15.0	29.5	21.5	379.5	54.0	16.5	8.5	8.0
Merged-chr13-24761521-4	chr13	24761428	24761628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020567, intron 1 of 6)	GC_rich|Low_complexity|Low_complexity	409.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	76.5	100.0	80.0	951.5	245.5	85.5	89.0	79.0
Merged-chr14-77795439-4	chr14	77795334	77795534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033440, intron 2 of 2)	intron (NM_001033440, intron 2 of 2)	3534.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	112.5	128.5	108.0	1605.5	329.0	166.5	134.5	114.0
Merged-chr12-91758298-3	chr12	91758230	91758430	+	809.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	28106.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	4.5	5.0	11.5	124.0	8.0	2.0	1.0	11.5
Merged-chr5-30849944-4	chr5	30849849	30850049	+	939.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133350, intron 1 of 6)	intron (NM_133350, intron 1 of 6)	-11858.0	NM_001310516	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	19.5	21.0	20.5	242.5	39.5	9.0	5.5	30.5
Merged-chr9-77732283-3	chr9	77732178	77732378	+	884.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22257.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	4.5	7.5	8.5	286.5	26.5	8.5	13.5	3.5
Merged-chr11-19830817-4	chr11	19830724	19830924	+	786.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93618.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	19.0	16.5	6.0	194.5	30.0	13.5	12.0	8.5
Merged-chr12-79093403-2	chr12	79093303	79093503	+	751.833374	f1_balb.idr|f1_c57bl6.idr	intron (NR_110486, intron 2 of 2)	L2|LINE|L2	-3733.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	5.5	7.5	5.0	109.0	4.0	6.0	5.0	11.0
Merged-chr17-34123663-4	chr17	34123560	34123760	+	990.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010386, intron 1 of 5)	intron (NM_010386, intron 1 of 5)	828.0	NM_010386	14998.0	Mm.16373	NM_010386	ENSMUSG00000037649	H2-DMa	H-2Ma|H2-Ma	histocompatibility 2, class II, locus DMa	protein-coding	30.5	43.0	23.5	388.0	111.0	32.0	32.0	23.0
Merged-chr2-35505641-3	chr2	35505509	35505709	+	762.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44160.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	5.5	6.0	5.0	126.5	5.5	1.5	3.5	5.5
Merged-chr9-101034892-1	chr9	101034792	101034992	+	1000.0	f0_c57.idr	promoter-TSS (NM_025835)	promoter-TSS (NM_025835)	-8.0	NM_025835	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	75.0	81.5	73.5	783.0	189.5	86.0	74.0	90.0
Merged-chr6-140678814-4	chr6	140678696	140678896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009637)	TTS (NM_009637)	51911.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	14.5	38.5	26.0	380.5	89.0	21.0	40.5	26.0
Merged-chr13-112671880-4	chr13	112671784	112671984	+	962.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 2 of 14)	Kanga1|DNA|TcMar-Tc2	11118.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	16.0	14.5	24.0	356.5	91.0	33.0	65.0	44.5
Merged-chr15-88745531-4	chr15	88745412	88745612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2D|LTR|ERVL	-6199.0	NM_181412	223773.0	Mm.396622	NM_181412	ENSMUSG00000034333	Zbed4	1700009F06Rik	zinc finger, BED type containing 4	protein-coding	53.0	77.0	69.0	1193.5	92.5	34.5	45.0	34.0
Merged-chr7-118175712-3	chr7	118175624	118175824	+	941.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031814, intron 29 of 62)	L1ME1|LINE|L1	-46099.0	NM_019419	54208.0	Mm.29924	NM_019419	ENSMUSG00000030654	Arl6ip1	AIP-6|AL022945|ARMER|AU042858|Aip-1|Arl6ip|C85138|mKIAA0069	ADP-ribosylation factor-like 6 interacting protein 1	protein-coding	9.5	10.5	15.0	185.0	7.5	4.0	3.5	12.0
Merged-chr15-27703780-2	chr15	27703680	27703880	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22238.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	5.0	5.5	2.0	76.5	9.0	5.0	4.5	4.5
Merged-chr5-135479389-4	chr5	135479280	135479480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	65742.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	99.0	172.0	109.5	1581.0	160.5	106.0	106.0	137.0
Merged-chr3-8981859-4	chr3	8981766	8981966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-17720.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	69.5	44.5	59.0	1103.0	153.5	67.5	121.5	94.5
Merged-chr17-66076271-6	chr17	66076134	66076334	+	945.486084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025572, intron 1 of 12)	intron (NM_001025572, intron 1 of 12)	812.0	NM_001025572	106585.0	Mm.34706	NM_001025572	ENSMUSG00000034647	Ankrd12	2900001A12Rik|AI447928|ANCO-2|AV347965|GAC-1|mKIAA0874	ankyrin repeat domain 12	protein-coding	7.5	7.5	7.0	116.5	15.5	5.0	6.0	11.5
Merged-chr9-121708980-3	chr9	121708910	121709110	+	836.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1379.0	NM_026794	26901.0	Mm.24848	NM_026794	ENSMUSG00000032526	Ss18l2	1110020I04Rik|AI463209|Deb1	SS18, nBAF chromatin remodeling complex subunit like 2	protein-coding	3.5	5.0	0.0	34.0	23.0	7.5	6.5	9.5
Merged-chr3-36572156-4	chr3	36572051	36572251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027810)	TTS (NM_027810)	887.0	NM_009828	12428.0	Mm.4189	NM_009828	ENSMUSG00000027715	Ccna2	AA408589|Ccn-1|Ccn1|Ccna|CycA2|Cyca	cyclin A2	protein-coding	348.0	519.0	412.5	5665.0	775.5	344.0	529.5	310.0
Merged-chr16-10785631-4	chr16	10785524	10785724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271603)	promoter-TSS (NM_001271603)	-88.0	NM_001271603	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	100.0	144.0	65.0	1314.5	276.0	111.0	87.0	100.5
Merged-chr11-89076422-4	chr11	89076318	89076518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033266, intron 2 of 3)	Lx9|LINE|L1	2577.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	51.0	66.0	34.0	924.5	107.5	49.5	71.5	70.5
Merged-chr4-141514465-4	chr4	141514358	141514558	+	952.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	24139.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	14.0	17.5	6.0	127.0	71.5	24.5	12.0	46.0
Merged-chr5-23493413-4	chr5	23493314	23493514	+	782.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026984, exon 16 of 26)	exon (NM_026984, exon 16 of 26)	58985.0	NM_026984	69188.0	Mm.205190	NM_026984	ENSMUSG00000029004	Kmt2e	1810033J14Rik|9530077A04Rik|D230038D11Rik|Mll5|NKp44L	lysine (K)-specific methyltransferase 2E	protein-coding	3.0	9.5	5.0	284.5	38.5	7.5	6.5	14.0
Merged-chr1-182413011-3	chr1	182412886	182413086	+	642.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173378, intron 1 of 17)	intron (NM_173378, intron 1 of 17)	3819.0	NM_173378	209456.0	Mm.287450	NM_173378	ENSMUSG00000026510	Trp53bp2	53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550	transformation related protein 53 binding protein 2	protein-coding	3.0	7.5	4.0	69.0	9.0	7.0	4.5	13.0
Merged-chr8-39006300-4	chr8	39006203	39006403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357305, intron 1 of 8)	CpG	458.0	NM_001357306	80286.0	Mm.272722	NM_030254	ENSMUSG00000039530	Tusc3	AU022242|BC003311|N33	tumor suppressor candidate 3	protein-coding	52.5	34.5	42.5	684.0	178.5	69.5	93.0	56.0
Merged-chr14-55098197-4	chr14	55098086	55098286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001303502)	TTS (NM_001303502)	3402.0	NM_153083	105663.0	Mm.319204	NM_153083	ENSMUSG00000045691	Thtpa	AW122966	thiamine triphosphatase	protein-coding	28.5	62.0	42.5	591.0	118.5	31.5	53.0	28.0
Merged-chr6-129180530-4	chr6	129180427	129180627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053109)	promoter-TSS (NM_053109)	-88.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	146.0	204.5	120.0	2140.0	375.0	147.5	148.5	144.0
Merged-chr11-118234647-4	chr11	118234527	118234727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	13965.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	45.5	37.0	40.0	696.5	63.5	26.0	33.0	37.5
Merged-chr7-90443710-4	chr7	90443592	90443792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145151, exon 1 of 1)	exon (NM_145151, exon 1 of 1)	911.0	NR_073438	233490.0	Mm.29496	NM_145151	ENSMUSG00000051451	Crebzf	1110034C16Rik|6330417B10Rik|LAZip|LAZipII|SMILE|Zf	CREB/ATF bZIP transcription factor	protein-coding	25.5	24.5	26.0	301.0	60.0	30.0	29.0	21.0
Merged-chr17-55892039-4	chr17	55891920	55892120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145490)	promoter-TSS (NM_145490)	-73.0	NM_001360136	224893.0	Mm.294853	NM_145490	ENSMUSG00000003198	Zfp959	-	zinc finger protein 959	protein-coding	80.0	126.5	76.5	644.5	203.5	95.5	134.5	81.5
Merged-chr2-155107461-4	chr2	155107348	155107548	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-7369.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	31.0	35.0	19.0	134.5	53.0	21.5	21.0	19.5
Merged-chr6-72881418-4	chr6	72881301	72881501	+	962.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019715, intron 1 of 6)	intron (NM_019715, intron 1 of 6)	17891.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	7.0	15.5	27.0	388.5	31.0	8.5	22.5	21.5
Merged-chr8-13646896-4	chr8	13646780	13646980	+	956.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	30707.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	25.0	29.5	18.0	552.0	61.0	14.5	22.5	18.0
Merged-chr12-35534367-4	chr12	35534253	35534453	+	933.88092	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001314027, intron 1 of 9)	intron (NM_001314027, intron 1 of 9)	636.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	11.0	9.5	9.0	90.5	13.5	6.0	6.0	5.5
Merged-chr19-6921330-4	chr19	6921222	6921422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007953, intron 1 of 6)	intron (NM_007953, intron 1 of 6)	486.0	NM_007953	26379.0	Mm.386776	NM_007953	ENSMUSG00000024955	Esrra	ERRalpha|Err1|Estrra|Nr3b1	estrogen related receptor, alpha	protein-coding	23.0	36.0	30.0	243.5	74.5	24.0	26.5	25.5
Merged-chr6-98105462-4	chr6	98105376	98105576	+	853.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113693.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	16.5	19.0	17.5	199.5	26.5	4.5	12.0	10.0
Merged-chr9-31931415-2	chr9	31931315	31931515	+	907.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	-18130.0	NM_013800	12023.0	Mm.261044	NM_013800	ENSMUSG00000032033	Barx2	2310006E12Rik|Barx2b	BarH-like homeobox 2	protein-coding	4.0	19.0	4.0	37.5	14.5	9.5	8.5	7.5
Merged-chr4-130814014-2	chr4	130813914	130814114	+	770.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	C-rich|Low_complexity|Low_complexity	21477.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	4.0	0.0	5.0	19.5	6.0	5.0	5.0	4.5
Merged-chr8-13649348-4	chr8	13649260	13649460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	L1M4|LINE|L1	28227.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	60.5	45.5	62.0	979.0	77.0	17.0	37.5	45.0
Merged-chr2-78995328-4	chr2	78995222	78995422	+	992.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125644.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	33.0	31.5	48.5	549.5	78.5	14.0	32.0	26.0
Merged-chr16-81462864-1	chr16	81462764	81462964	+	698.333313	f0_balb.idr	intron (NM_001113208, intron 7 of 17)	L1Md_F2|LINE|L1	262167.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	11.0	8.0	10.0	131.0	11.5	0.0	7.5	1.5
Merged-chr7-24610722-4	chr7	24610624	24610824	+	860.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102613)	promoter-TSS (NM_001102613)	-604.0	NM_001102613	232970.0	Mm.333663	NM_001102613	ENSMUSG00000074277	Phldb3	EG232970|Gm10102	pleckstrin homology like domain, family B, member 3	protein-coding	6.5	15.0	12.5	169.0	10.5	8.0	3.5	14.0
Merged-chr7-80109580-3	chr7	80109469	80109669	+	898.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173011, intron 1 of 10)	intron (NM_173011, intron 1 of 10)	5781.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	6.0	16.5	16.5	262.5	5.5	1.0	1.5	6.0
Merged-chr2-58907361-4	chr2	58907283	58907483	+	770.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	152199.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	9.5	8.5	12.0	210.0	21.5	7.0	7.5	9.0
Merged-chr16-90377626-1	chr16	90377526	90377726	+	585.0	f0_balb.idr	Intergenic	Intergenic	-8771.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	5.0	5.5	9.0	77.0	12.0	5.5	3.0	11.0
Merged-chr13-119310195-4	chr13	119310102	119310302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98809.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	54.0	40.0	42.5	886.5	170.0	47.0	57.0	40.0
Merged-chr3-118081986-4	chr3	118081912	118082112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-213076.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	73.0	85.5	94.0	1431.0	184.0	48.0	51.5	53.0
Merged-chr7-5062812-1	chr7	5062712	5062912	+	1000.0	f0_c57.idr	intron (NM_001205231, intron 1 of 11)	intron (NM_001205231, intron 1 of 11)	669.0	NM_001205231	22185.0	Mm.360389	NM_133671	ENSMUSG00000030435	U2af2	65kDa	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2	protein-coding	10.5	16.5	10.0	129.5	33.0	13.5	18.0	18.5
Merged-chr11-75458824-4	chr11	75458696	75458896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2743.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	96.0	116.0	96.0	1415.0	210.5	77.0	59.0	71.5
Merged-chr6-122856152-4	chr6	122856051	122856251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009779)	promoter-TSS (NM_009779)	6.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	125.0	215.5	110.0	2162.5	278.0	114.5	157.0	115.0
Merged-chr4-149696889-4	chr4	149696776	149696976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 1 of 23)	intron (NM_001029837, intron 1 of 23)	1832.0	NM_001164050	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	34.0	57.5	35.5	600.5	152.0	17.5	36.5	56.0
Merged-chr16-94546193-8	chr16	94546063	94546263	+	903.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19534.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	5.0	9.5	1.0	76.5	25.5	5.0	6.0	6.0
Merged-chr13-99186433-4	chr13	99186352	99186552	+	749.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	1629.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	7.5	5.5	1.5	73.0	16.0	10.0	5.0	9.0
Merged-chr14-54577569-4	chr14	54577458	54577658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010590, exon 1 of 8)	5' UTR (NM_010590, exon 1 of 8)	103.0	NM_010590	16475.0	Mm.100253	NM_010590	ENSMUSG00000022178	Ajuba	Jub	ajuba LIM protein	protein-coding	44.5	57.0	20.0	354.5	94.0	33.0	52.0	37.0
Merged-chr12-79132339-4	chr12	79132248	79132448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	intron (NM_009705, intron 2 of 7)	1560.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	192.5	374.0	197.0	2687.5	505.0	233.0	174.0	180.5
Merged-chr12-84193983-4	chr12	84193881	84194081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163502)	promoter-TSS (NM_001163502)	34.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	239.5	417.5	178.5	2717.0	610.0	210.5	224.0	201.5
Merged-chr9-90056674-3	chr9	90056601	90056801	+	833.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 1 of 10)	intron (NM_001312649, intron 1 of 10)	2434.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	2.5	9.5	6.5	12.5	37.0	6.0	8.5	12.0
Merged-chr11-59223004-3	chr11	59222913	59223113	+	639.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007476, intron 1 of 4)	intron (NM_007476, intron 1 of 4)	5149.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	1.0	9.5	1.0	111.0	17.5	5.0	9.5	6.0
Merged-chr5-105731757-4	chr5	105731657	105731857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	30947.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	34.5	47.0	32.5	486.0	114.5	41.0	50.5	46.5
Merged-chr7-45922422-4	chr7	45922302	45922502	+	838.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010129)	promoter-TSS (NM_010129)	-976.0	NM_010129	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	9.0	13.0	9.0	99.0	15.5	8.0	10.0	13.5
Merged-chr8-68881435-4	chr8	68881307	68881507	+	693.458374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008509, intron 1 of 9)	CpG	852.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	4.5	5.0	1.0	111.5	14.0	7.5	8.5	7.5
Merged-chr14-52014122-6	chr14	52014064	52014264	+	805.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027248, intron 1 of 4)	intron (NM_027248, intron 1 of 4)	394.0	NM_001253695	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	15.5	7.5	16.5	131.5	19.0	1.5	9.0	5.5
Merged-chr13-119713267-4	chr13	119713170	119713370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175538, intron 3 of 3)	intron (NM_175538, intron 3 of 3)	22919.0	NM_001291439	208715.0	Mm.61526	NM_145942	ENSMUSG00000093930	Hmgcs1	B130032C06Rik	3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1	protein-coding	28.0	34.5	26.0	698.5	59.0	29.5	25.5	34.5
Merged-chr1-180835840-4	chr1	180835713	180835913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A3_MM|LTR|ERVK	-15338.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	31.0	48.5	36.5	487.0	81.5	16.5	24.5	38.0
Merged-chr9-114781674-7	chr9	114781580	114781780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133978, exon 1 of 5)	exon (NM_133978, exon 1 of 5)	313.0	NM_133978	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	37.0	39.5	41.5	655.0	93.0	56.5	67.0	73.5
Merged-chr11-97363519-4	chr11	97363420	97363620	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138657, intron 1 of 9)	intron (NM_138657, intron 1 of 9)	969.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	34.0	42.5	19.5	346.5	54.0	15.5	23.5	23.0
Merged-chr5-16434784-4	chr5	16434691	16434891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	-118704.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	50.0	51.0	71.5	1093.0	132.5	42.5	78.5	54.0
Merged-chr2-181282393-4	chr2	181282293	181282493	+	920.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 1 of 9)	intron (NM_198169, intron 1 of 9)	5573.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	13.0	32.5	27.5	109.5	56.5	35.5	15.0	11.0
Merged-chr18-36359295-4	chr18	36359176	36359376	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081365, intron 1 of 2)	intron (NM_001081365, intron 1 of 2)	10652.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	11.5	25.5	18.5	448.5	44.5	16.5	22.5	20.5
Merged-chr14-67945536-4	chr14	67945416	67945616	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11944.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	20.0	19.5	23.0	213.5	60.0	20.5	22.0	18.0
Merged-chr12-3291185-4	chr12	3291094	3291294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	ORR1B1|LTR|ERVL-MaLR	18775.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	26.0	50.0	26.5	330.5	54.5	36.5	40.5	19.0
Merged-chr3-103587873-4	chr3	103587770	103587970	+	981.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276676, intron 3 of 6)	intron (NM_001276676, intron 3 of 6)	11744.0	NM_001276681	54524.0	Mm.88818	NM_018800	ENSMUSG00000027849	Syt6	3110037A08Rik|AW048930|sytVI	synaptotagmin VI	protein-coding	19.0	33.0	17.5	309.0	45.5	23.0	19.0	14.0
Merged-chr9-109200548-3	chr9	109200459	109200659	+	858.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4584.0	NM_177598	211305.0	Mm.225242	NM_177598	ENSMUSG00000049314	Fbxw13	E330017E16	F-box and WD-40 domain protein 13	protein-coding	6.0	9.5	6.0	69.0	32.5	10.5	16.5	15.0
Merged-chr4-139614683-4	chr4	139614566	139614766	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 7 of 8)	intron (NM_001205173, intron 7 of 8)	-8228.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	16.5	20.0	16.0	218.0	80.0	29.0	25.0	27.0
Merged-chr18-56709876-4	chr18	56709706	56709906	+	977.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010721, intron 1 of 10)	B3|SINE|B2	1993.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	19.0	20.5	10.0	230.5	28.5	7.5	16.0	9.0
Merged-chr17-83430780-4	chr17	83430649	83430849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357886, intron 5 of 21)	intron (NM_001357886, intron 5 of 21)	79818.0	NM_001357886	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	31.0	45.0	44.0	472.0	77.0	18.5	26.5	39.0
Merged-chr13-112532907-3	chr13	112532801	112533001	+	800.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139299, intron 12 of 16)	intron (NM_139299, intron 12 of 16)	47761.0	NM_139299	218624.0	Mm.380801	NM_139299	ENSMUSG00000050377	Il31ra	CRL3|GLM-R|GPL|Glmr|NR10	interleukin 31 receptor A	protein-coding	7.5	1.5	14.0	135.5	16.5	4.5	20.5	10.5
Merged-chr17-27911468-4	chr17	27911381	27911581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	MTC|LTR|ERVL-MaLR	2175.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	19.5	54.0	20.5	318.0	60.0	25.0	39.5	34.0
Merged-chr4-86874295-4	chr4	86874180	86874380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290541)	promoter-TSS (NM_001290541)	-134.0	NM_001290543	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	225.5	393.5	147.0	2787.5	525.0	177.0	218.5	101.0
Merged-chr3-98129033-3	chr3	98128935	98129135	+	893.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 22 of 33)	intron (NM_010928, intron 22 of 33)	-31599.0	NM_027665	71078.0	Mm.50711	NM_027665	ENSMUSG00000043468	Adam30	4933424D07Rik|svph4	a disintegrin and metallopeptidase domain 30	protein-coding	10.0	11.0	12.0	317.5	13.5	3.5	8.5	11.0
Merged-chr12-3359532-4	chr12	3359442	3359642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5590.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	54.0	107.0	28.5	358.5	154.0	47.5	35.5	26.5
Merged-chr1-131761597-4	chr1	131761486	131761686	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177243, intron 12 of 20)	intron (NM_177243, intron 12 of 20)	17564.0	NM_177243	320718.0	Mm.482704	NM_177243	ENSMUSG00000042268	Slc26a9	E030002L01Rik	solute carrier family 26, member 9	protein-coding	20.0	56.0	43.5	278.0	18.5	7.0	12.0	16.0
Merged-chr17-52725358-4	chr17	52725262	52725462	+	952.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031811, intron 1 of 15)	intron (NM_001031811, intron 1 of 15)	122653.0	NM_001031811	211468.0	Mm.399068	NM_001031811	ENSMUSG00000035580	Kcnh8	C130090D05Rik|ELK|ELK1|ELK3|Kv12.1	potassium voltage-gated channel, subfamily H (eag-related), member 8	protein-coding	32.5	20.0	17.0	254.0	43.5	6.0	12.5	8.5
Merged-chr18-80420265-3	chr18	80420171	80420371	+	922.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 12 of 12)	intron (NM_026295, intron 12 of 12)	49396.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	5.0	7.5	3.5	170.0	27.5	8.5	13.0	7.0
Merged-chr10-127650257-4	chr10	127650161	127650361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009284, intron 4 of 21)	MERVL_2A-int|LTR|ERVL	7275.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	28.5	26.0	20.5	380.5	68.0	25.0	46.0	34.5
Merged-chr9-89267285-4	chr9	89267157	89267357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55873.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	105.0	152.5	138.0	1374.0	134.5	42.5	53.5	62.5
Merged-chr4-144980953-4	chr4	144980864	144981064	+	991.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 68 of 69)	intron (NM_001276465, intron 68 of 69)	87827.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	23.0	63.5	20.5	435.5	86.0	42.0	16.5	25.5
Merged-chr8-46470859-4	chr8	46470757	46470957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007981)	promoter-TSS (NM_007981)	-180.0	NM_007981	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	312.5	424.5	323.0	3864.5	677.0	312.5	406.5	254.0
Merged-chr4-43420599-3	chr4	43420518	43420718	+	874.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 2 of 11)	intron (NM_001037709, intron 2 of 11)	8516.0	NM_177377	329831.0	Mm.454466	NM_177377	ENSMUSG00000042788	Fam166b	4833436C18Rik	family with sequence similarity 166, member B	protein-coding	5.5	8.5	2.5	60.5	10.0	12.0	8.0	12.0
Merged-chr1-125561448-3	chr1	125561351	125561551	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028787, intron 1 of 15)	intron (NM_028787, intron 1 of 15)	449.0	NM_028787	74150.0	Mm.28654	NM_028787	ENSMUSG00000026342	Slc35f5	1300003P13Rik|AI646727	solute carrier family 35, member F5	protein-coding	42.5	54.5	23.5	487.0	78.0	21.0	32.0	36.5
Merged-chr1-135766408-3	chr1	135766295	135766495	+	807.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013750, exon 1 of 2)	5' UTR (NM_013750, exon 1 of 2)	310.0	NM_013750	27280.0	Mm.34346	NM_013750	ENSMUSG00000041801	Phlda3	Tih1	pleckstrin homology like domain, family A, member 3	protein-coding	6.5	6.5	10.5	81.5	8.5	7.0	10.0	13.0
Merged-chr10-59702544-4	chr10	59702460	59702660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291443)	promoter-TSS (NM_001291443)	-3.0	NM_001359267	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	214.5	282.5	138.5	2402.0	419.5	160.5	177.0	144.0
Merged-chr2-122739312-3	chr2	122739211	122739411	+	644.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019788, intron 1 of 4)	intron (NM_019788, intron 1 of 4)	806.0	NM_019788	18457.0	Mm.268921	NM_019788	ENSMUSG00000005804	Bloc1s6	BLOC-1|Pldn|Stx13bp1|pa	biogenesis of lysosomal organelles complex-1, subunit 6, pallidin	protein-coding	10.5	21.5	9.0	86.0	20.5	5.0	3.5	6.5
Merged-chr2-11598457-4	chr2	11598344	11598544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 2 of 11)	ID_B1|SINE|B4	4755.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	24.5	42.5	48.5	722.5	110.5	37.0	63.0	49.5
Merged-chr17-79020614-6	chr17	79020484	79020684	+	866.544434	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171004, intron 1 of 18)	CpG	232.0	NM_001171004	75292.0	Mm.252776	NM_029239	ENSMUSG00000024070	Prkd3	4930557O20Rik|5730497N19Rik|PKD3|Pkcnu|Prkcn	protein kinase D3	protein-coding	13.5	12.5	10.0	125.5	33.5	9.0	11.5	17.5
Merged-chr1-91052349-3	chr1	91052262	91052462	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	-1082.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	2.5	15.5	4.0	117.0	15.0	8.0	6.5	6.5
Merged-chr4-144891423-4	chr4	144891322	144891522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-1405.0	NM_001172424	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	54.0	48.0	58.5	976.5	73.5	24.0	35.0	39.5
Merged-chr2-12023572-4	chr2	12023460	12023660	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	245807.0	NM_177268	320816.0	Mm.260201	NM_177268	ENSMUSG00000047909	Ankrd16	2810455F06Rik|AI646698|D430029B21Rik	ankyrin repeat domain 16	protein-coding	30.5	34.0	24.5	289.0	41.5	26.5	18.0	23.5
Merged-chr10-111163902-3	chr10	111163791	111163991	+	923.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175489)	promoter-TSS (NM_175489)	-911.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	8.5	6.5	5.5	102.0	18.0	3.5	5.5	4.0
Merged-chr15-40131220-2	chr15	40131120	40131320	+	706.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3145.0	NM_001256056	328531.0	Mm.60703	NM_001256056	ENSMUSG00000094112	9330182O14Rik	-	RIKEN cDNA 9330182O14 gene	protein-coding	8.5	4.5	12.0	176.5	12.5	6.5	5.0	10.0
Merged-chr13-100002057-3	chr13	100001980	100002180	+	926.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030026, intron 1 of 16)	intron (NM_030026, intron 1 of 16)	13559.0	NM_030026	78038.0	Mm.137327	NM_030026	ENSMUSG00000021646	Mccc2	4930552N12Rik|MCCB	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)	protein-coding	9.0	12.0	6.0	186.5	16.0	5.5	4.0	11.5
Merged-chr10-8766234-4	chr10	8766183	8766383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	119787.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	30.0	50.0	36.0	358.5	36.0	16.5	7.5	9.5
Merged-chr15-41861181-4	chr15	41861092	41861292	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_130885)	TTS (NM_130885)	8528.0	NM_175456	223513.0	Mm.148913	NM_175456	ENSMUSG00000042895	Abra	C130068O12Rik|STARS	actin-binding Rho activating protein	protein-coding	23.5	35.5	30.0	572.5	46.5	11.5	38.0	44.0
Merged-chr17-53584105-4	chr17	53584010	53584210	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190846)	promoter-TSS (NM_001190846)	-16.0	NM_001190846	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	27.0	25.0	23.5	436.5	63.0	12.5	28.0	21.0
Merged-chr1-161974613-3	chr1	161974457	161974657	+	627.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204904, intron 1 of 6)	intron (NM_001204904, intron 1 of 6)	5079.0	NM_001204904	75368.0	Mm.108728	NM_001204904	ENSMUSG00000086277	4930558K02Rik	-	RIKEN cDNA 4930558K02 gene	protein-coding	9.5	6.0	9.0	78.5	4.0	4.0	5.0	3.5
Merged-chr12-108333645-3	chr12	108333539	108333739	+	951.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010010)	promoter-TSS (NM_010010)	-677.0	NM_010010	13116.0	Mm.41911	NM_010010	ENSMUSG00000021259	Cyp46a1	CH24H|Cyp46	cytochrome P450, family 46, subfamily a, polypeptide 1	protein-coding	12.0	23.5	15.0	275.0	15.5	5.0	6.0	9.5
Merged-chr10-80323620-6	chr10	80323579	80323779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008793, exon 10 of 15)	exon (NM_008793, exon 10 of 15)	-3131.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	16.5	25.0	24.5	186.0	42.0	26.5	15.5	17.0
Merged-chr5-23617100-4	chr5	23617004	23617204	+	882.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009274)	promoter-TSS (NM_009274)	-533.0	NM_009274	20817.0	Mm.288728	NM_009274	ENSMUSG00000062604	Srpk2	AW226533|AW492537|AW547358|Wbp6|mSRPK2	serine/arginine-rich protein specific kinase 2	protein-coding	11.5	13.5	10.0	178.5	31.5	3.5	5.5	13.0
Merged-chr14-56811151-4	chr14	56811012	56811212	+	956.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152252)	promoter-TSS (NR_152252)	352.0	NM_001253753	219105.0	Mm.473172	NM_144842	ENSMUSG00000040123	Zmym5	9830124H08Rik	zinc finger, MYM-type 5	protein-coding	11.0	27.5	13.0	181.5	30.0	7.0	8.0	13.0
Merged-chr16-49855015-2	chr16	49854915	49855115	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010581)	promoter-TSS (NM_010581)	-639.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	94.0	85.0	150.5	1818.0	147.0	42.0	101.5	76.0
Merged-chr14-8162003-3	chr14	8161886	8162086	+	717.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360315, intron 18 of 18)	intron (NM_001360315, intron 18 of 18)	11006.0	NM_024221	68263.0	Mm.301527	NM_024221	ENSMUSG00000021748	Pdhb	2610103L06Rik|AL024199|C81408	pyruvate dehydrogenase (lipoamide) beta	protein-coding	4.0	15.0	8.0	123.0	17.5	5.5	9.5	5.5
Merged-chr16-91030963-4	chr16	91030877	91031077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152264, intron 7 of 17)	B1F1|SINE|Alu	13402.0	NM_026110	67367.0	Mm.347	NM_026110	ENSMUSG00000022974	Paxbp1	1810007M14Rik|C21orf66|Gcfc|Gcfc1|Pax3/7bp	PAX3 and PAX7 binding protein 1	protein-coding	24.5	40.5	23.0	432.5	72.5	23.0	21.5	18.0
Merged-chr13-98810383-4	chr13	98810285	98810485	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	intron (NM_172591, intron 1 of 25)	5064.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	16.5	29.0	12.5	348.0	44.0	20.5	15.0	26.0
Merged-chr6-24155086-1	chr6	24154986	24155186	+	680.0	f0_balb.idr	intron (NM_019481, intron 1 of 14)	B4A|SINE|B4	13006.0	NM_019481	55961.0	Mm.19299	NM_019481	ENSMUSG00000029700	Slc13a1	AI314066|AI987826|NaSi-1|Nas1	solute carrier family 13 (sodium/sulfate symporters), member 1	protein-coding	7.0	4.5	6.0	143.0	1.5	0.5	0.0	0.5
Merged-chr17-27586873-3	chr17	27586776	27586976	+	735.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291046, intron 2 of 4)	PB1D9|SINE|Alu	-21149.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	0.0	2.0	0.0	41.0	17.5	5.0	12.5	14.0
Merged-chr7-104219372-4	chr7	104219240	104219440	+	796.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013616, intron 1 of 7)	intron (NM_001013616, intron 1 of 7)	545.0	NM_001013616	94088.0	Mm.274843	NM_001013616	ENSMUSG00000072244	Trim6	C430046K18Rik|D7Ertd684e	tripartite motif-containing 6	protein-coding	6.5	9.0	12.5	201.0	24.5	12.0	11.0	7.5
Merged-chr8-41016367-4	chr8	41016292	41016492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 6 of 13)	intron (NM_001005863, intron 6 of 13)	-1076.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	69.5	92.0	49.5	1106.0	437.0	176.5	209.0	166.5
Merged-chr1-143954649-2	chr1	143954549	143954749	+	666.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	49500.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	5.5	5.0	7.5	21.5	26.5	1.0	6.5	5.5
Merged-chr6-6578578-4	chr6	6578435	6578635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009169, exon 1 of 3)	exon (NM_009169, exon 1 of 3)	123.0	NM_009169	20422.0	Mm.2469	NM_009169	ENSMUSG00000042541	Sem1	DSS1|Shfdg1|Shfg|Shfm1	SEM1, 26S proteasome complex subunit	protein-coding	51.5	81.5	116.5	898.5	137.5	72.0	73.5	79.5
Merged-chr14-66241930-4	chr14	66241828	66242028	+	782.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-28104.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	10.0	11.0	6.5	123.5	49.5	11.5	17.5	17.5
Merged-chr11-23974259-4	chr11	23974162	23974362	+	832.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-78992.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	9.5	13.0	19.0	229.5	21.5	6.5	15.0	11.0
Merged-chr9-53669945-4	chr9	53669801	53670001	+	836.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C1_MM|LTR|ERVK	-2394.0	NM_027807	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	3.0	3.5	11.0	100.0	18.0	5.0	6.5	8.0
Merged-chr14-47445093-3	chr14	47444973	47445173	+	834.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-26666.0	NM_144553	218977.0	Mm.240543	NM_144553	ENSMUSG00000037544	Dlgap5	C77459|C86398|Dap-5|Dlg7|Hurp|mKIAA0008	DLG associated protein 5	protein-coding	3.0	14.0	6.5	90.5	6.5	6.5	9.0	12.0
Merged-chr5-88553341-4	chr5	88553289	88553489	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1073.0	NM_023054	65961.0	Mm.490364	NM_023054	ENSMUSG00000070697	Utp3	2400011K09Rik|AW557551|C87704|Crl-1|Crl1|Crlz1|Sas10	UTP3 small subunit processome component	protein-coding	16.0	10.5	25.0	258.5	39.0	15.5	18.5	20.0
Merged-chr10-87839628-4	chr10	87839525	87839725	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18640.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	18.5	38.5	24.5	404.0	48.0	21.5	13.0	9.0
Merged-chr17-27008495-4	chr17	27008408	27008608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20A|LTR|ERVK	-9527.0	NM_001251881	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	21.0	34.0	22.5	484.5	49.0	19.0	37.0	32.0
Merged-chr9-121983613-2	chr9	121983513	121983713	+	563.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_153540, exon 2 of 2)	exon (NM_153540, exon 2 of 2)	12413.0	NM_001289559	215494.0	Mm.402151	NM_153540	ENSMUSG00000066235	Pomgnt2	Ago61|C85492|Gtdc2	protein O-linked mannose beta 1,4-N-acetylglucosaminyltransferase 2	protein-coding	1.0	1.0	1.0	13.5	6.5	6.5	4.5	6.0
Merged-chr7-71832340-3	chr7	71832240	71832440	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77355.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	87.5	85.5	51.0	1312.0	25.0	3.0	13.0	10.0
Merged-chr2-75829144-4	chr2	75829043	75829243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3034.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	52.0	70.5	100.5	1081.0	88.0	25.5	51.5	48.5
Merged-chr10-10469316-4	chr10	10469230	10469430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	2984.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	122.5	209.0	160.0	2389.0	381.5	134.5	163.5	134.0
Merged-chr6-134539636-4	chr6	134539496	134539696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 2 of 22)	intron (NM_008514, intron 2 of 22)	27317.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	56.0	58.5	46.0	731.5	94.5	23.5	19.5	45.5
Merged-chr17-70992570-3	chr17	70992473	70992673	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2057.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	43.0	60.5	41.0	512.5	18.0	9.5	10.5	10.5
Merged-chr2-60843250-4	chr2	60843163	60843363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	38175.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	106.5	161.5	76.0	1382.0	224.0	52.0	103.0	75.0
Merged-chr15-100405619-4	chr15	100405509	100405709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146161, exon 8 of 16)	exon (NM_001146161, exon 8 of 16)	17446.0	NM_001146161	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	44.0	83.0	40.5	859.0	97.0	44.5	71.0	47.0
Merged-chr7-140953912-4	chr7	140953813	140954013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030694)	TTS (NM_030694)	2048.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	61.5	96.0	75.5	1083.0	206.5	75.0	75.0	83.0
Merged-chr10-19934250-2	chr10	19934150	19934350	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008580)	promoter-TSS (NM_008580)	-276.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	37.0	43.5	22.0	293.5	42.5	14.5	18.0	19.0
Merged-chr11-5509340-4	chr11	5509254	5509454	+	925.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-11287.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	6.5	7.0	8.0	105.0	49.0	2.0	14.5	23.5
Merged-chr10-3840097-4	chr10	3840026	3840226	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159942, intron 2 of 16)	intron (NM_001159942, intron 2 of 16)	-32541.0	NM_001033253	213783.0	Mm.150831	NM_001033253	ENSMUSG00000040624	Plekhg1	D10Ertd733e|Gm521|mKIAA1209	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	protein-coding	3.0	3.0	4.0	185.5	24.0	5.5	15.0	9.5
Merged-chr9-80163525-4	chr9	80163414	80163614	+	988.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1520.0	NM_001039546	17920.0	Mm.4040	NM_008662	ENSMUSG00000033577	Myo6	BC029719|Tlc|sv	myosin VI	protein-coding	19.0	29.0	12.5	385.0	35.5	16.5	19.0	7.5
Merged-chr1-4857698-4	chr1	4857602	4857802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011541)	promoter-TSS (NM_011541)	8.0	NM_011541	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	181.5	306.0	215.0	3678.0	482.0	173.0	212.5	187.5
Merged-chr3-53098337-3	chr3	53098232	53098432	+	947.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175386, intron 2 of 3)	intron (NM_175386, intron 2 of 3)	56785.0	NM_175386	108927.0	Mm.118617	NM_175386	ENSMUSG00000048332	Lhfp	2810489O06Rik|AI194968|Lhfpl6	lipoma HMGIC fusion partner	protein-coding	27.0	17.5	35.0	580.0	10.0	5.0	5.5	7.5
Merged-chr10-128612847-4	chr10	128612773	128612973	+	842.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13633.0	NM_013765	27370.0	Mm.32118	NM_013765	ENSMUSG00000025362	Rps26	-	ribosomal protein S26	protein-coding	7.5	5.0	6.5	98.5	31.5	9.5	12.0	21.0
Merged-chr10-60932073-5	chr10	60932056	60932256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033616, intron 1 of 2)	intron (NR_033616, intron 1 of 2)	5976.0	NR_033616	73616.0	Mm.159038	NR_033616	ENSMUSG00000037247	Pldi	1700125F08Rik|Poldi	polymorphic derived intron containing	ncRNA	35.0	56.5	58.0	514.5	79.5	52.0	34.5	57.0
Merged-chr1-177713825-4	chr1	177713725	177713925	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-15989.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	16.0	10.5	11.5	146.5	22.5	13.0	9.0	9.0
Merged-chr3-152404983-3	chr3	152404888	152405088	+	703.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287139, intron 1 of 13)	intron (NM_001287139, intron 1 of 13)	8304.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	8.0	6.0	10.5	158.0	29.0	8.0	6.5	4.5
Merged-chr12-84222823-4	chr12	84222741	84222941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3960.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	42.5	34.5	18.5	578.5	93.0	22.5	36.0	30.0
Merged-chr5-43894279-4	chr5	43894204	43894404	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	25495.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	6.5	22.0	21.0	222.5	30.0	9.0	15.5	16.5
Merged-chr8-4322648-4	chr8	4322555	4322755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010485, intron 1 of 5)	intron (NM_010485, intron 1 of 5)	2445.0	NM_010485	15568.0	Mm.119162	NM_010485	ENSMUSG00000040028	Elavl1	2410055N02Rik|HUR|Hua|W91709	ELAV (embryonic lethal, abnormal vision)-like 1 (Hu antigen R)	protein-coding	40.5	50.5	31.0	774.5	138.5	47.5	33.0	58.0
Merged-chr12-82225961-4	chr12	82225850	82226050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 1 of 23)	intron (NM_001167983, intron 1 of 23)	55934.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	266.5	393.5	247.0	4236.0	685.0	277.5	342.5	312.0
Merged-chr3-79854639-4	chr3	79854541	79854741	+	938.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11979.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	9.5	24.5	8.0	231.0	39.5	10.0	16.5	11.0
Merged-chr1-178406436-4	chr1	178406300	178406500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026626, intron 1 of 6)	CpG	382.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	135.5	172.5	136.5	2083.5	294.5	124.0	182.0	140.5
Merged-chr15-100463916-4	chr15	100463812	100464012	+	872.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5099.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	12.0	26.0	11.0	78.5	44.0	18.0	8.0	23.0
Merged-chr3-15284147-4	chr3	15284053	15284253	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48149.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	9.0	6.0	23.0	186.0	16.5	7.5	9.0	12.5
Merged-chr1-97661844-8	chr1	97661666	97661866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355072)	promoter-TSS (NM_001355072)	-90.0	NM_001355072	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	28.5	50.5	40.0	548.5	65.5	25.5	20.5	43.5
Merged-chr9-21546232-4	chr9	21546138	21546338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021531)	promoter-TSS (NM_021531)	-656.0	NM_021531	59035.0	Mm.178115	NM_021531	ENSMUSG00000032185	Carm1	Prmt4	coactivator-associated arginine methyltransferase 1	protein-coding	143.0	214.5	124.5	2348.5	286.0	135.0	186.5	126.0
Merged-chr18-39442514-4	chr18	39442452	39442652	+	732.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	44693.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	18.0	45.0	12.5	124.5	34.0	10.0	9.5	13.0
Merged-chr4-48075736-3	chr4	48075652	48075852	+	668.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015743, intron 7 of 7)	intron (NM_015743, intron 7 of 7)	24506.0	NM_001307989	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	7.0	5.5	13.0	97.0	5.0	2.0	7.0	10.0
Merged-chr3-41468080-3	chr3	41468013	41468213	+	958.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	25086.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	5.0	25.0	10.5	52.0	14.5	2.5	7.5	1.0
Merged-chr18-69471885-3	chr18	69471785	69471985	+	668.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 5 of 19)	intron (NM_001361128, intron 5 of 19)	125725.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	7.0	12.0	6.0	220.0	0.0	0.5	1.0	0.0
Merged-chr4-44072675-4	chr4	44072562	44072762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190414)	promoter-TSS (NM_001190414)	55.0	NM_001357539	50798.0	Mm.256718	NM_015828	ENSMUSG00000028479	Gne	2310066H07Rik|DMRV|GLCNE|IBM2|NM|Uae1	glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase	protein-coding	124.5	135.5	84.5	1503.0	261.0	95.0	96.0	82.0
Merged-chr9-61029423-4	chr9	61029317	61029517	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12348.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	13.5	48.0	32.0	377.5	79.5	30.5	57.0	21.0
Merged-chr1-95644278-4	chr1	95644183	95644383	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 3 of 3)	MIR3|SINE|MIR	23311.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	26.5	49.5	14.5	360.5	32.5	15.0	14.5	10.5
Merged-chr16-92410329-4	chr16	92410251	92410451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-10273.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	72.0	92.5	84.0	1322.5	106.0	32.5	59.5	37.5
Merged-chr5-139377658-4	chr5	139377549	139377749	+	890.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033147)	promoter-TSS (NR_033147)	-48.0	NM_001362206	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	11.0	8.5	21.0	309.5	22.0	6.5	7.5	13.0
Merged-chr15-8167787-3	chr15	8167643	8167843	+	660.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV16_I-int|LTR|ERVK	-1363.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	10.5	7.0	6.5	99.5	8.0	6.0	2.5	13.5
Merged-chr1-134494599-4	chr1	134494521	134494721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145510)	promoter-TSS (NM_145510)	-39.0	NM_145510	98710.0	Mm.198119	NM_145510	ENSMUSG00000042229	Rabif	AI842864|AW549708|E130318E12Rik|MSS4|RASGFR3	RAB interacting factor	protein-coding	172.5	232.5	119.0	1914.5	348.5	173.5	189.5	138.0
Merged-chr8-119412807-4	chr8	119412682	119412882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17890.0	NM_019966	56690.0	Mm.423037	NM_019966	ENSMUSG00000074064	Mlycd	AI324784|Mcd	malonyl-CoA decarboxylase	protein-coding	20.5	26.5	18.0	303.5	41.5	15.0	23.0	19.0
Merged-chr6-38823990-4	chr6	38823883	38824083	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 1 of 14)	intron (NM_010433, intron 1 of 14)	13328.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	32.5	17.0	34.5	611.5	50.0	18.5	15.0	24.0
Merged-chr7-133186477-3	chr7	133186386	133186586	+	695.883362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	58235.0	NR_046279	74970.0	Mm.491044	NR_046279	ENSMUSG00000109816	4930483O08Rik	-	RIKEN cDNA 4930483O08 gene	ncRNA	12.5	15.5	15.0	87.5	8.5	7.0	8.0	7.5
Merged-chr7-126645860-3	chr7	126645760	126645960	+	793.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3449.0	NM_029339	75565.0	Mm.45686	NM_029339	ENSMUSG00000030714	Sgf29	1700023O11Rik|9530025I05Rik|Ccdc101	SAGA complex associated factor 29	protein-coding	13.0	13.5	2.5	85.5	22.5	10.5	7.0	4.5
Merged-chr1-191179409-2	chr1	191179309	191179509	+	897.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 1 of 3)	intron (NM_007498, intron 1 of 3)	3924.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	3.0	7.0	2.5	46.5	11.0	8.5	5.5	9.0
Merged-chr2-36214686-4	chr2	36214588	36214788	+	950.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-15738.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	5.5	14.5	5.5	121.5	36.5	3.5	15.0	19.0
Merged-chr2-12389254-3	chr2	12389143	12389343	+	667.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355539, intron 1 of 6)	intron (NM_001355539, intron 1 of 6)	30217.0	NM_001355537	66960.0	Mm.34059	NM_024185	ENSMUSG00000026767	Mindy3	1810041E18Rik|2310047O13Rik|5830410F13Rik|AI447827|AW111958|Fam188a	MINDY lysine 48 deubiquitinase 3	protein-coding	3.5	6.0	12.0	90.0	17.0	4.5	5.5	5.0
Merged-chr19-55866050-4	chr19	55865933	55866133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-29288.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	26.5	44.5	29.0	597.0	69.5	20.5	30.0	38.0
Merged-chr18-69662358-4	chr18	69662255	69662455	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	intron (NM_001361128, intron 15 of 19)	-263204.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	18.5	26.5	12.0	382.5	39.5	15.5	26.5	9.5
Merged-chr11-119352268-4	chr11	119352177	119352377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018822, intron 2 of 7)	L1MB2|LINE|L1	3233.0	NM_018822	27029.0	Mm.103788	NM_018822	ENSMUSG00000005043	Sgsh	4632406A19Rik	N-sulfoglucosamine sulfohydrolase (sulfamidase)	protein-coding	76.0	78.5	35.5	709.0	110.0	33.5	33.5	66.5
Merged-chr9-95328686-2	chr9	95328588	95328788	+	653.875	f0_balb.idr|f1_balb.idr	Intergenic	Lx4A|LINE|L1	78582.0	NM_018763	54371.0	Mm.212446	NM_018763	ENSMUSG00000033350	Chst2	AI428561|AW121776|C130041E03Rik|Chts2|GST-2|GlcNAc6ST|Gn6st	carbohydrate sulfotransferase 2	protein-coding	10.0	9.0	11.5	161.5	6.0	2.5	3.5	8.5
Merged-chr1-12992435-5	chr1	12992388	12992588	+	959.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1353.0	NM_172841	240726.0	Mm.24481	NM_172841	ENSMUSG00000025938	Slco5a1	4732454B15|A630033C23Rik|AA407151	solute carrier organic anion transporter family, member 5A1	protein-coding	12.5	13.0	18.0	185.0	55.0	25.0	6.0	25.0
Merged-chr18-12926626-3	chr18	12926527	12926727	+	900.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 4 of 27)	intron (NM_207530, intron 4 of 27)	15214.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	5.0	13.0	2.5	229.0	10.0	4.5	9.0	8.5
Merged-chr6-89361871-4	chr6	89361845	89362045	+	947.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008881, intron 1 of 31)	CpG	668.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	14.0	22.0	20.0	371.0	31.0	14.0	4.5	21.0
Merged-chr19-44930221-4	chr19	44930132	44930332	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081225)	promoter-TSS (NM_001081225)	-887.0	NM_172638	226151.0	Mm.212609	NM_172638	ENSMUSG00000036097	Slf2	3632432H19|Fam178a	SMC5-SMC6 complex localization factor 2	protein-coding	15.0	25.5	5.0	78.0	70.5	26.0	9.5	7.0
Merged-chr6-17640241-2	chr6	17640141	17640341	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	ID_B1|SINE|B4	3231.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	2.0	3.5	0.0	62.0	5.5	9.5	7.0	4.5
Merged-chr13-43269130-4	chr13	43269003	43269203	+	713.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033399, intron 1 of 1)	intron (NM_001033399, intron 1 of 1)	35069.0	NM_001033399	328232.0	Mm.441399	NM_001033399	ENSMUSG00000051335	Gfod1	9630032O13|AI850995	glucose-fructose oxidoreductase domain containing 1	protein-coding	10.5	12.0	19.5	149.0	16.5	3.0	7.0	4.5
Merged-chr1-127781067-3	chr1	127780966	127781166	+	776.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028399, intron 2 of 8)	MIRb|SINE|MIR	6902.0	NM_028399	72949.0	Mm.268672	NM_028399	ENSMUSG00000026349	Ccnt2	2900041I18Rik|C81304|CycT2|CycT2a|CycT2b	cyclin T2	protein-coding	16.0	12.0	7.5	126.5	20.0	8.0	9.5	11.0
Merged-chr18-4255742-3	chr18	4255638	4255838	+	756.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89906.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	12.0	14.5	10.0	57.0	11.5	6.0	6.5	3.5
Merged-chr12-52319283-4	chr12	52319226	52319426	+	956.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RCHARR1|DNA|hAT-Charlie	161283.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	10.5	4.0	11.0	307.0	66.5	13.5	32.5	12.0
Merged-chr13-100892329-3	chr13	100892231	100892431	+	892.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58904.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	15.5	21.0	12.0	69.5	23.5	12.5	5.0	8.0
Merged-chr9-56108353-4	chr9	56108242	56108442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	18366.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	109.0	180.0	125.5	1717.5	333.0	149.5	168.5	159.5
Merged-chr12-40719133-3	chr12	40719048	40719248	+	652.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 16 of 52)	Lx6|LINE|L1	273095.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	3.0	13.0	6.0	115.5	14.0	5.0	7.0	5.0
Merged-chr7-127557898-4	chr7	127557790	127557990	+	868.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304266, intron 33 of 33)	intron (NM_001304266, intron 33 of 33)	-3333.0	NM_001304267	105180375.0	Mm.428042	NM_001304267	ENSMUSG00000106715	Tmem265	-	transmembrane protein 265	protein-coding	9.5	14.0	10.5	214.0	28.5	3.5	26.0	14.5
Merged-chr7-19956662-4	chr7	19956550	19956750	+	936.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5907.0	NM_027308	70080.0	Mm.98583	NM_027308	ENSMUSG00000040498	Igsf23	2210010C17Rik	immunoglobulin superfamily, member 23	protein-coding	15.0	16.0	5.5	145.5	34.5	8.5	8.0	14.5
Merged-chr7-97082441-4	chr7	97082340	97082540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	689.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	21.5	33.0	27.0	566.0	75.0	30.0	37.0	41.5
Merged-chr9-7880164-4	chr9	7880071	7880271	+	906.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D_MM|LTR|ERV1	-7001.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	14.5	20.0	2.0	17.0	97.5	17.5	25.5	9.5
Merged-chr13-22049876-3	chr13	22049802	22050002	+	810.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	6672.0	NM_178198	319183.0	Mm.371766	NM_178198	ENSMUSG00000069300	Hist1h2bj	-	histone cluster 1, H2bj	protein-coding	1.0	6.0	2.5	121.5	15.0	12.0	14.5	14.0
Merged-chr5-29731133-4	chr5	29731024	29731224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4774.0	NM_001359198	23950.0	Mm.290110	NM_011847	ENSMUSG00000029131	Dnajb6	HSJ-2|Mrj|mDj4	DnaJ heat shock protein family (Hsp40) member B6	protein-coding	63.0	150.0	83.0	550.5	222.5	75.0	84.0	66.5
Merged-chr5-113812865-4	chr5	113812765	113812965	+	950.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-12513.0	NM_146162	231633.0	Mm.41681	NM_146162	ENSMUSG00000054675	Tmem119	AW208946|BC025600|obif	transmembrane protein 119	protein-coding	11.5	30.0	19.5	205.0	44.5	17.0	27.5	21.5
Merged-chr5-105138336-4	chr5	105138245	105138445	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008620, intron 1 of 10)	intron (NM_008620, intron 1 of 10)	1241.0	NM_001256005	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	18.0	19.5	22.5	171.0	56.0	12.0	14.5	12.0
Merged-chr5-64886315-4	chr5	64886209	64886409	+	870.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46390.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	7.0	13.5	11.5	34.0	30.5	18.0	6.0	2.0
Merged-chr1-86513199-2	chr1	86513099	86513299	+	556.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13358.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	4.5	14.0	5.5	20.5	9.0	4.0	7.0	1.5
Merged-chr2-155383346-3	chr2	155383258	155383458	+	938.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178111, intron 1 of 3)	intron (NM_178111, intron 1 of 3)	1502.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	8.5	12.0	8.0	113.0	15.0	3.5	6.5	11.0
Merged-chr15-86184315-4	chr15	86184253	86184453	+	854.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-1375.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	10.0	7.0	5.5	173.0	19.5	8.5	7.0	7.0
Merged-chr11-6188015-3	chr11	6187951	6188151	+	970.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173748, intron 2 of 5)	intron (NM_173748, intron 2 of 5)	12400.0	NM_173748	209586.0	Mm.25321	NM_173748	ENSMUSG00000053838	Nudcd3	AI427847|BC024322|mKIAA1068	NudC domain containing 3	protein-coding	4.0	25.5	5.5	117.0	17.5	5.5	4.5	6.5
Merged-chr17-36903760-3	chr17	36903659	36903859	+	929.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146077, intron 3 of 7)	ID_B1|SINE|B4	5629.0	NM_146077	224762.0	Mm.213417	NM_146077	ENSMUSG00000058063	Trim31	BC026666|HCG1|HCGI|RNF	tripartite motif-containing 31	protein-coding	9.0	21.5	9.0	283.5	17.0	7.0	7.5	7.0
Merged-chr3-97229409-2	chr3	97229309	97229509	+	854.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2045.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	7.0	3.5	1.5	22.0	17.0	7.0	4.5	7.0
Merged-chr17-35766546-4	chr17	35766386	35766586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5964.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	26.5	30.0	35.0	305.0	59.0	18.5	32.0	40.0
Merged-chr8-120369118-4	chr8	120369028	120369228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119738.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	22.0	55.5	33.5	479.0	82.5	35.0	32.0	33.5
Merged-chr19-53329436-4	chr19	53329340	53329540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360345)	promoter-TSS (NM_001360345)	27.0	NM_001360345	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	107.5	155.0	129.5	1548.0	337.5	118.0	138.5	103.5
Merged-chr13-111796670-4	chr13	111796562	111796762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	12331.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	90.5	109.0	56.0	1805.5	220.0	78.0	101.0	97.5
Merged-chr1-165710126-3	chr1	165710000	165710200	+	756.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2006.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	10.0	5.0	6.0	99.0	10.0	1.0	3.0	7.5
Merged-chr2-75659803-4	chr2	75659670	75659870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146130, intron 1 of 10)	CpG	480.0	NR_033513	627828.0	Mm.459502	NR_033513	ENSMUSG00000092086	Gm6793	EG627828	heterogeneous nuclear ribonucleoprotein A3 pseudogene	pseudo	117.0	243.0	180.5	1548.5	387.0	174.0	151.0	154.0
Merged-chr13-20508710-2	chr13	20508601	20508801	+	836.0	f0_balb.idr|f1_balb.idr	intron (NM_198093, intron 1 of 6)	intron (NM_198093, intron 1 of 6)	35711.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	5.0	4.5	7.5	159.0	2.5	0.0	0.0	0.0
Merged-chr16-8831071-4	chr16	8830978	8831178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081400, intron 1 of 3)	CpG	978.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	105.0	170.5	130.0	1891.5	293.5	76.0	162.0	70.0
Merged-chr18-4266207-4	chr18	4266093	4266293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86760.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	97.0	131.0	111.5	1771.5	193.5	47.5	78.0	83.0
Merged-chr1-128359716-4	chr1	128359618	128359818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313695)	promoter-TSS (NM_001313695)	-13.0	NM_008567	17219.0	Mm.4933	NM_008567	ENSMUSG00000026355	Mcm6	ASP-l1|D1Wsu22e|Mcmd6	minichromosome maintenance complex component 6	protein-coding	102.0	154.5	73.5	1531.0	260.5	86.5	137.0	87.0
Merged-chr6-17688931-4	chr6	17688802	17689002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5092.0	NM_001289626	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	79.5	81.0	84.0	1064.0	242.5	81.5	69.0	73.0
Merged-chr6-28319297-4	chr6	28319193	28319393	+	920.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57692.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	14.0	9.0	15.0	149.5	38.5	11.0	19.0	22.0
Merged-chr10-34328584-2	chr10	34328484	34328684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347463, intron 5 of 10)	intron (NM_001347463, intron 5 of 10)	31163.0	NM_030203	72480.0	Mm.21485	NM_030203	ENSMUSG00000039485	Tspyl4	2610102M01Rik|B230210I21Rik|D10Bwg0791e	TSPY-like 4	protein-coding	1.5	0.0	2.5	51.0	7.5	5.5	5.5	7.0
Merged-chr14-54227822-7	chr14	54227737	54227937	+	878.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26092.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	9.0	9.0	3.5	106.0	13.0	8.5	6.0	10.0
Merged-chr7-127296263-4	chr7	127296169	127296369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008400)	promoter-TSS (NM_008400)	9.0	NM_001253874	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	36.5	82.0	49.0	501.0	122.0	51.0	28.5	30.5
Merged-chr5-99345491-4	chr5	99345340	99345540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-92513.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	92.0	111.0	132.0	1546.0	167.0	48.0	90.5	56.5
Merged-chr3-87028953-4	chr3	87028862	87029062	+	949.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-29622.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	18.0	17.5	19.5	270.0	35.5	11.0	18.0	25.0
Merged-chr19-8837484-4	chr19	8837366	8837566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136064)	promoter-TSS (NM_001136064)	-1.0	NM_001136064	14705.0	Mm.345134	NM_008144	ENSMUSG00000071657	Bscl2	2900097C17Rik|AI046355|Gng3lg	Berardinelli-Seip congenital lipodystrophy 2 (seipin)	protein-coding	36.5	50.5	31.0	434.0	92.5	25.5	41.5	34.5
Merged-chr9-45412506-4	chr9	45412405	45412605	+	906.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6428.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	21.0	24.0	4.5	191.5	24.0	10.5	15.0	15.5
Merged-chr17-21488956-4	chr17	21488872	21489072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013843)	promoter-TSS (NM_013843)	-16.0	NM_013843	24132.0	Mm.42140	NM_013843	ENSMUSG00000057409	Zfp53	D030067O06Rik|KRAZ1|Zfp-53|Zfp118|zfas8	zinc finger protein 53	protein-coding	122.0	146.5	94.5	2302.5	308.5	82.5	185.0	139.5
Merged-chr2-153632371-2	chr2	153632264	153632464	+	871.0	f0_balb.idr|f1_balb.idr	intron (NM_001195390, intron 1 of 9)	intron (NM_001195390, intron 1 of 9)	417.0	NM_001195390	99311.0	Mm.294478	NM_133850	ENSMUSG00000056941	Commd7	2310010I22Rik|AW060956|mU3	COMM domain containing 7	protein-coding	10.0	9.0	17.5	125.5	18.5	6.5	16.0	6.5
Merged-chr3-59175441-4	chr3	59175330	59175530	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	19674.0	NM_001302203	84111.0	Mm.60267	NM_032399	ENSMUSG00000051431	Gpr87	-	G protein-coupled receptor 87	protein-coding	11.5	13.5	15.5	271.0	76.0	17.5	31.0	12.5
Merged-chr7-39523920-4	chr7	39523906	39524106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004139, intron 1 of 3)	intron (NM_001004139, intron 1 of 3)	6240.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	23.0	36.0	20.0	449.0	62.0	24.0	18.0	23.5
Merged-chr8-24541004-4	chr8	24540875	24541075	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145949, intron 7 of 9)	intron (NM_145949, intron 7 of 9)	35358.0	NM_145949	209176.0	Mm.219580	NM_145949	ENSMUSG00000031549	Ido2	AI265623|C230043N17Rik|Ido-2|Indol1	indoleamine 2,3-dioxygenase 2	protein-coding	8.5	23.0	10.5	77.5	15.0	15.0	16.5	6.0
Merged-chr17-18558963-4	chr17	18558854	18559054	+	836.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-22773.0	NM_001104547	433070.0	Mm.215962	NM_001104547	ENSMUSG00000091679	Vmn2r96	EG433070	vomeronasal 2, receptor 96	protein-coding	14.0	25.0	27.5	318.0	64.0	3.5	22.0	20.5
Merged-chr9-103208027-4	chr9	103207936	103208136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133977)	TTS (NM_133977)	-5971.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	74.0	149.5	83.5	1545.0	220.5	66.5	105.0	54.0
Merged-chr18-67286231-3	chr18	67286132	67286332	+	728.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2991.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	13.0	5.0	5.5	78.0	20.5	11.0	11.5	14.5
Merged-chr7-68692907-4	chr7	68692816	68693016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56322.0	NM_001042592	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	55.5	87.0	54.5	420.5	171.5	90.0	82.0	52.0
Merged-chr12-69197173-4	chr12	69197056	69197256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033222)	promoter-TSS (NR_033222)	-55.0	NR_033222	414085.0	Mm.256223	NR_033222	ENSMUSG00000097061	9330151L19Rik	-	RIKEN cDNA 9330151L19 gene	ncRNA	56.5	86.0	69.0	1058.5	180.0	63.5	76.0	57.0
Merged-chr1-184535807-4	chr1	184535678	184535878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040472, intron 2 of 5)	intron (NR_040472, intron 2 of 5)	21913.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	68.0	121.5	94.5	988.5	114.5	59.0	67.0	44.5
Merged-chr7-28378556-4	chr7	28378463	28378663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011756, intron 1 of 1)	CpG	665.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	121.5	269.5	109.0	867.0	438.5	206.0	184.5	155.0
Merged-chr4-19872150-4	chr4	19872000	19872200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50466.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	21.0	23.5	19.5	310.0	27.5	7.0	11.5	6.5
Merged-chr1-161195879-7	chr1	161195802	161196002	+	903.669067	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36588.0	NM_001195189	100502590.0	Mm.449990	NM_001195189	ENSMUSG00000049160	Tex50	4930469G21Rik	testis expressed 50	protein-coding	9.0	17.5	20.5	83.0	12.0	12.0	6.5	13.0
Merged-chr5-3359286-4	chr5	3359193	3359393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	15400.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	28.5	60.0	44.0	537.0	114.0	23.5	54.0	36.0
Merged-chr5-140138223-3	chr5	140138120	140138320	+	889.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359027, intron 1 of 6)	intron (NM_001359027, intron 1 of 6)	36698.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	11.5	15.5	12.0	209.0	15.5	8.5	9.5	19.5
Merged-chr19-5529546-4	chr19	5529452	5529652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19035.0	NM_001024560	225861.0	Mm.20071	NM_001024560	ENSMUSG00000056185	Snx32	B930037P14Rik|Snx6b	sorting nexin 32	protein-coding	41.0	48.5	23.5	451.5	88.5	30.5	34.5	40.5
Merged-chr5-135913403-4	chr5	135913292	135913492	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018871, intron 1 of 1)	MTD|LTR|ERVL-MaLR	21249.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	33.5	36.0	20.5	556.0	43.5	7.0	16.5	21.5
Merged-chr3-146630622-1	chr3	146630522	146630722	+	871.5	f0_balb.idr	3' UTR (NM_009474, exon 8 of 8)	3' UTR (NM_009474, exon 8 of 8)	-11310.0	NR_045949	100286843.0	Mm.475299	NR_045949	ENSMUSG00000085810	Gm16325	-	predicted gene 16325	ncRNA	15.5	10.5	11.5	215.0	4.0	5.0	3.5	4.5
Merged-chr7-101541297-4	chr7	101541178	101541378	+	878.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14524.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	10.5	22.5	0.5	180.5	30.5	12.0	8.5	13.5
Merged-chr18-69403655-3	chr18	69403550	69403750	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	57490.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	22.0	41.5	26.5	651.5	12.0	2.0	5.5	7.0
Merged-chr10-98708379-4	chr10	98708283	98708483	+	946.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-206259.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	11.5	14.0	13.5	350.0	56.0	17.5	16.5	9.5
Merged-chr15-102311662-4	chr15	102311558	102311758	+	963.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356312, intron 13 of 30)	PB1D10|SINE|Alu	-14458.0	NM_027044	56612.0	Mm.158264	NM_020031	ENSMUSG00000001289	Pfdn5	1190001O17Rik|1700010A06Rik|D15Ertd697e|Eig1|MM-1	prefoldin 5	protein-coding	12.5	29.5	11.0	277.0	64.5	21.0	21.0	21.0
Merged-chr8-120319638-4	chr8	120319557	120319757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91427.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	42.0	60.5	33.5	445.5	108.0	51.5	49.0	37.5
Merged-chr17-45430605-4	chr17	45430506	45430706	+	824.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152810, intron 1 of 15)	RLTR13B1|LTR|ERVK	3101.0	NM_152810	71702.0	Mm.28270	NM_152810	ENSMUSG00000023932	Cdc5l	1200002I02Rik|AA408004|PCDC5RP	cell division cycle 5-like (S. pombe)	protein-coding	8.0	20.5	3.0	103.0	22.0	5.5	13.0	14.5
Merged-chr1-35995418-4	chr1	35995335	35995535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-72965.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	61.0	76.5	74.0	774.5	145.5	47.5	57.5	48.5
Merged-chr11-115172921-4	chr11	115172827	115173027	+	786.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012030, intron 1 of 5)	intron (NM_012030, intron 1 of 5)	9586.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	6.5	22.0	5.5	93.5	19.5	13.5	10.5	6.5
Merged-chr5-125189754-5	chr5	125189612	125189812	+	977.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-10498.0	NM_001253904	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	12.0	27.0	13.5	147.5	37.5	8.5	8.0	15.5
Merged-chr15-53157465-3	chr15	53157368	53157568	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	188715.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	18.0	35.0	27.0	391.0	35.5	8.0	4.0	2.0
Merged-chr8-114440062-4	chr8	114439945	114440145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 1 of 8)	CpG	393.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	26.5	35.0	33.5	314.5	79.5	25.5	28.5	31.5
Merged-chr15-78178560-4	chr15	78178469	78178669	+	783.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4461.0	NM_025931	67042.0	Mm.30191	NM_025931	ENSMUSG00000016637	Ift27	2600013G09Rik|Rabl4	intraflagellar transport 27	protein-coding	8.0	12.5	2.0	72.5	33.5	9.0	13.0	7.5
Merged-chr10-69260180-4	chr10	69260068	69260268	+	951.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	intron (NM_001252637, intron 4 of 10)	46974.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	20.0	22.5	13.5	176.5	57.5	18.0	26.0	16.5
Merged-chr9-70260462-4	chr9	70260355	70260555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	53105.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	50.5	63.5	41.0	685.5	165.0	59.5	85.5	64.5
Merged-chr10-111336482-1	chr10	111336382	111336582	+	735.0	f0_balb.idr	Intergenic	Intergenic	37803.0	NM_027914	71769.0	Mm.45256	NM_027914	ENSMUSG00000035759	Bbs10	1300007O09Rik|AI452285	Bardet-Biedl syndrome 10 (human)	protein-coding	14.5	11.0	11.5	110.0	7.5	3.5	3.5	4.0
Merged-chr17-46328041-4	chr17	46327928	46328128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170680)	promoter-TSS (NM_170680)	-5.0	NM_170680	224814.0	Mm.76543	NM_145140	ENSMUSG00000032842	Abcc10	Mrp7|mFLJ00002	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	protein-coding	112.5	114.0	91.5	1408.0	232.5	100.5	113.5	105.5
Merged-chr16-85148766-4	chr16	85148684	85148884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	24923.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	63.0	86.5	86.0	1121.0	325.5	123.0	156.5	107.5
Merged-chr13-113913735-6	chr13	113913632	113913832	+	991.511108	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	119224.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	23.0	19.5	49.5	709.0	53.0	12.0	32.5	39.5
Merged-chr10-111721201-4	chr10	111721092	111721292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126919.0	NR_045344	71321.0	Mm.410785	NR_045344	ENSMUSG00000097082	4933440J02Rik	-	RIKEN cDNA 4933440J02 gene	ncRNA	57.5	50.0	72.0	1135.0	87.0	34.0	82.5	79.5
Merged-chr7-114194991-4	chr7	114194903	114195103	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	59677.0	NM_033370	70349.0	Mm.277024	NM_033370	ENSMUSG00000030754	Copb1	2610019B04Rik	coatomer protein complex, subunit beta 1	protein-coding	27.0	36.0	21.0	245.0	72.0	24.0	22.0	11.0
Merged-chr2-35979341-5	chr2	35979292	35979492	+	933.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029774, exon 1 of 10)	exon (NM_029774, exon 1 of 10)	232.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	17.0	22.0	20.5	213.0	38.5	11.0	14.0	23.5
Merged-chr13-110747625-3	chr13	110747529	110747729	+	907.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-155870.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	19.0	17.5	11.0	217.0	11.0	5.5	5.0	5.0
Merged-chr9-80068945-4	chr9	80068825	80069025	+	841.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311110, intron 1 of 23)	intron (NM_001311110, intron 1 of 23)	2022.0	NM_146003	215351.0	Mm.28232	NM_146003	ENSMUSG00000034252	Senp6	2810017C20Rik|E130319N12Rik|Susp1|mKIAA0797	SUMO/sentrin specific peptidase 6	protein-coding	4.0	13.5	10.0	225.5	37.5	13.5	10.5	13.0
Merged-chr1-74339324-4	chr1	74339246	74339446	+	708.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019999, intron 1 of 8)	intron (NM_019999, intron 1 of 8)	6736.0	NM_019999	56695.0	Mm.384726	NM_019999	ENSMUSG00000026179	Pnkd	2210013N15Rik|2810403H05Rik|AI854243|Brp17|MNCb-5687|MR-1|Tahccp2	paroxysmal nonkinesiogenic dyskinesia	protein-coding	3.5	8.5	10.5	92.0	22.0	7.0	12.0	10.0
Merged-chr10-81643738-4	chr10	81643610	81643810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027480, exon 17 of 20)	exon (NM_027480, exon 17 of 20)	-5359.0	NM_001142963	100233208.0	Mm.327168	NM_001142963	ENSMUSG00000096856	Gm10778	-	predicted gene 10778	protein-coding	161.5	184.5	166.0	2020.5	257.5	87.5	112.0	97.0
Merged-chr15-6569319-4	chr15	6569199	6569399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10548.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	191.0	282.5	209.5	1899.0	449.0	177.0	156.5	170.0
Merged-chr10-87025078-4	chr10	87024972	87025172	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17130.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	21.0	38.5	27.5	269.0	68.0	13.5	41.5	27.5
Merged-chr18-82505164-4	chr18	82505046	82505246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 2 of 3)	intron (NM_001025245, intron 2 of 3)	30023.0	NM_010777	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	123.0	190.5	139.5	1588.5	268.5	108.5	170.5	126.5
Merged-chr19-29641675-3	chr19	29641570	29641770	+	878.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362131, intron 2 of 14)	intron (NM_001362131, intron 2 of 14)	6745.0	NM_001081213	226090.0	Mm.267131	NM_001081213	ENSMUSG00000046324	Ermp1	D19Ertd410e|D19Wsu12e|Fxna|b2b2633Clo|mKIAA1815	endoplasmic reticulum metallopeptidase 1	protein-coding	7.5	9.5	7.0	63.5	26.0	9.5	7.0	9.0
Merged-chr5-130089365-4	chr5	130089252	130089452	+	862.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130476, intron 1 of 5)	intron (NM_001130476, intron 1 of 5)	9982.0	NM_001130476	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	18.5	19.5	17.0	197.0	30.0	11.5	13.0	14.0
Merged-chr2-103051349-3	chr2	103051260	103051460	+	834.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175094, intron 2 of 10)	intron (NM_175094, intron 2 of 10)	22153.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	0.5	5.5	14.0	164.5	14.0	6.0	5.5	10.5
Merged-chr18-67391343-4	chr18	67391228	67391428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026473, exon 2 of 4)	exon (NM_026473, exon 2 of 4)	597.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	91.5	97.5	72.0	1042.5	160.0	59.0	86.0	74.0
Merged-chr13-38503691-3	chr13	38503617	38503817	+	922.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289599, intron 8 of 9)	intron (NM_001289599, intron 8 of 9)	24197.0	NM_001289599	105245.0	Mm.28622	NM_145367	ENSMUSG00000038991	Txndc5	AL022641|ERp46|PC-TRP	thioredoxin domain containing 5	protein-coding	11.5	9.0	5.0	235.5	2.5	1.5	6.0	4.0
Merged-chr14-93701696-3	chr14	93701594	93701794	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081377, intron 2 of 4)	intron (NM_001081377, intron 2 of 4)	188975.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	7.5	5.5	9.0	118.0	8.5	7.5	3.5	4.0
Merged-chr13-55727455-4	chr13	55727337	55727537	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028281)	promoter-TSS (NM_028281)	69.0	NM_028281	72562.0	Mm.28145	NM_028281	ENSMUSG00000021496	Pcbd2	2700061N24Rik|Dcoh2|Dcohm	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2	protein-coding	47.0	43.5	30.0	272.0	85.0	36.0	49.5	19.0
Merged-chr2-119325642-2	chr2	119325542	119325742	+	617.375	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019454)	promoter-TSS (NM_019454)	-142.0	NM_019454	54485.0	Mm.143719	NM_019454	ENSMUSG00000027314	Dll4	Delta4	delta like canonical Notch ligand 4	protein-coding	10.0	10.5	6.0	47.0	15.0	5.5	6.5	9.5
Merged-chr10-83448796-1	chr10	83448696	83448896	+	603.0	f0_balb.idr	Intergenic	Intergenic	85344.0	NM_153543	216188.0	Mm.263138	NM_153543	ENSMUSG00000020256	Aldh1l2	D330038I09Rik|mtFDH	aldehyde dehydrogenase 1 family, member L2	protein-coding	5.0	13.0	7.5	105.5	1.0	0.0	0.5	0.5
Merged-chr15-103510442-4	chr15	103510326	103510526	+	859.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357980, intron 1 of 14)	intron (NM_001357980, intron 1 of 14)	3300.0	NM_001357980	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	13.0	13.0	16.5	198.0	46.5	5.5	7.0	13.0
Merged-chr13-24698856-4	chr13	24698732	24698932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080381, intron 13 of 14)	intron (NM_001080381, intron 13 of 14)	60184.0	NM_029679	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	78.0	149.5	110.5	887.0	207.0	70.0	62.0	48.0
Merged-chr10-80075483-4	chr10	80075405	80075605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359636)	promoter-TSS (NM_001359636)	-66.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	256.0	385.0	284.5	3735.5	596.5	233.5	353.0	218.0
Merged-chr13-75791015-4	chr13	75790922	75791122	+	980.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48863.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	22.5	16.0	21.0	253.5	49.5	19.5	25.0	16.0
Merged-chr18-67698668-4	chr18	67698582	67698782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008977, intron 2 of 9)	intron (NM_008977, intron 2 of 9)	25939.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	19.5	41.0	25.0	460.0	72.0	25.0	26.0	38.0
Merged-chr9-7270229-3	chr9	7270109	7270309	+	752.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2305.0	NM_008607	17386.0	Mm.5022	NM_008607	ENSMUSG00000050578	Mmp13	Clg|MMP-13|Mmp1	matrix metallopeptidase 13	protein-coding	5.5	6.0	5.5	197.0	6.0	0.5	7.0	2.0
Merged-chr16-55817153-2	chr16	55817053	55817253	+	925.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159395, intron 6 of 12)	(T)n|Simple_repeat|Simple_repeat	4985.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	6.5	11.0	2.5	1.5	9.5	5.0	4.5	4.5
Merged-chr8-94704143-4	chr8	94704022	94704222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7880.0	NM_026385	67801.0	Mm.279977	NM_026385	ENSMUSG00000031775	Pllp	0610010I06Rik|AV001002|Plapi|Tm4sf11	plasma membrane proteolipid	protein-coding	85.0	134.0	70.0	1207.0	276.5	85.5	106.5	134.0
Merged-chr10-69186071-4	chr10	69185964	69186164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22488.0	NM_001252636	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	83.5	99.0	91.0	1124.5	199.5	68.5	75.5	66.5
Merged-chr10-20725128-4	chr10	20725050	20725250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013875)	promoter-TSS (NM_013875)	-72.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	120.5	168.5	108.5	1603.0	279.5	103.5	117.5	115.5
Merged-chr9-5357047-3	chr9	5356960	5357160	+	880.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009808, intron 8 of 10)	intron (NM_009808, intron 8 of 10)	11584.0	NM_009808	12364.0	Mm.42163	NM_009808	ENSMUSG00000025887	Casp12	-	caspase 12	protein-coding	18.5	1.0	15.0	168.5	20.0	7.0	15.0	5.0
Merged-chr11-78497821-4	chr11	78497735	78497935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172795)	promoter-TSS (NM_172795)	-81.0	NM_172795	237868.0	Mm.210332	NM_172795	ENSMUSG00000050132	Sarm1	A830091I15Rik|C78606|MyD885|Sarm	sterile alpha and HEAT/Armadillo motif containing 1	protein-coding	80.0	103.0	55.0	752.5	99.5	29.5	41.0	36.5
Merged-chr4-152131060-3	chr4	152130952	152131152	+	938.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207691, exon 4 of 10)	exon (NM_207691, exon 4 of 10)	-2127.0	NM_019585	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	6.5	14.5	13.0	119.0	14.5	8.0	9.5	15.0
Merged-chr4-83315525-4	chr4	83315384	83315584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	intron (NM_027238, intron 1 of 19)	8705.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	40.0	63.0	67.0	709.5	105.5	50.5	44.0	39.0
Merged-chr14-26636869-4	chr14	26636779	26636979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1255.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	40.5	37.5	24.0	339.5	72.0	27.0	27.5	20.0
Merged-chr13-112787191-4	chr13	112787093	112787293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-13584.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	25.5	43.0	33.0	491.5	116.0	39.5	34.0	47.0
Merged-chr17-34119911-2	chr17	34119799	34119999	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037970)	promoter-TSS (NR_037970)	1.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	38.5	72.5	45.0	536.0	140.5	50.0	64.5	66.0
Merged-chr5-34501030-4	chr5	34500925	34501125	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139064, intron 2 of 5)	intron (NM_139064, intron 2 of 5)	12954.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	21.0	31.0	27.5	333.0	35.0	4.5	42.0	24.0
Merged-chr1-157019875-4	chr1	157019902	157020102	+	921.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80376.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	17.5	22.0	19.0	331.0	23.5	6.0	8.5	10.0
Merged-chr8-60887112-4	chr8	60887063	60887263	+	855.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3230.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	13.5	11.5	7.5	140.5	26.0	7.5	13.5	10.5
Merged-chr6-115334681-3	chr6	115334580	115334780	+	965.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA7|LINE|L1	-26271.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	14.0	35.0	50.0	491.5	18.0	3.5	16.0	8.0
Merged-chr15-83170206-2	chr15	83170106	83170306	+	988.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_029787, intron 1 of 8)	intron (NM_029787, intron 1 of 8)	2002.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	4.5	2.5	1.0	98.5	5.5	6.0	6.5	5.5
Merged-chr3-35764846-4	chr3	35764750	35764950	+	927.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151627, intron 1 of 31)	intron (NR_151627, intron 1 of 31)	10787.0	NM_029570	76295.0	Mm.239416	NM_029570	ENSMUSG00000037400	Atp11b	1110019I14Rik|ATPIF|ATPIR|mKIAA0956	ATPase, class VI, type 11B	protein-coding	13.0	7.0	5.0	112.0	59.5	28.5	7.5	24.0
Merged-chr6-84032781-4	chr6	84032699	84032899	+	858.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	RLTR19-int|LTR|ERVK	13413.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	10.5	7.5	13.0	147.0	21.5	2.5	17.0	15.0
Merged-chr7-144581758-4	chr7	144581771	144581971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010175, intron 1 of 1)	intron (NM_010175, intron 1 of 1)	565.0	NM_010175	14082.0	Mm.5126	NM_010175	ENSMUSG00000031077	Fadd	Mort1/FADD	Fas (TNFRSF6)-associated via death domain	protein-coding	49.0	62.5	75.5	709.0	107.5	57.5	44.0	64.0
Merged-chr11-67550006-4	chr11	67549917	67550117	+	888.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	MIRb|SINE|MIR	17019.0	NM_008088	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	4.0	10.5	9.5	111.0	33.0	14.0	21.0	27.0
Merged-chr4-47080566-5	chr4	47080486	47080686	+	894.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11367.0	NM_172693	230145.0	Mm.132246	NM_172693	ENSMUSG00000039774	Galnt12	9130206E10|A630062B03Rik	polypeptide N-acetylgalactosaminyltransferase 12	protein-coding	7.5	27.5	9.0	220.5	15.5	13.5	9.5	11.5
Merged-chr5-124532725-3	chr5	124532612	124532812	+	911.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1321.0	NM_021430	75695.0	Mm.41180	NM_021430	ENSMUSG00000029392	Rilpl1	2900002H16Rik|6330559I19Rik|GOSPEL	Rab interacting lysosomal protein-like 1	protein-coding	8.5	6.0	9.5	147.0	14.0	6.0	7.0	9.0
Merged-chr14-27186160-5	chr14	27186115	27186315	+	870.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	intron (NM_001289686, intron 2 of 12)	42222.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	4.0	8.5	10.5	106.5	13.5	7.5	6.0	9.0
Merged-chr1-172482401-2	chr1	172482300	172482500	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033608)	promoter-TSS (NM_033608)	83.0	NM_033608	93842.0	Mm.214530	NM_033608	ENSMUSG00000037995	Igsf9	644ETD8|Dasm1|Kiaa1355-hp|NRT1|Ncaml|mKIAA1355	immunoglobulin superfamily, member 9	protein-coding	24.0	36.5	11.5	123.5	50.5	17.5	13.5	14.0
Merged-chr19-24965549-2	chr19	24965456	24965656	+	604.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-3940.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	9.0	7.5	3.0	109.0	24.5	5.5	9.0	14.5
Merged-chr1-88702229-4	chr1	88702107	88702307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177305)	promoter-TSS (NM_177305)	-16.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	120.5	198.0	112.5	1574.5	216.5	104.0	102.5	114.0
Merged-chr14-19771440-4	chr14	19771364	19771564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008695, intron 4 of 20)	intron (NM_008695, intron 4 of 20)	20207.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	72.0	82.0	81.0	1169.0	138.5	33.0	51.5	22.5
Merged-chr14-25473167-4	chr14	25473120	25473320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	14035.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	98.5	153.5	106.0	1615.5	201.0	57.5	102.0	81.5
Merged-chr4-33285613-4	chr4	33285523	33285723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24688.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	56.0	74.0	47.0	789.0	110.0	36.0	49.0	41.0
Merged-chr15-98481652-4	chr15	98481546	98481746	+	864.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010679, intron 2 of 3)	intron (NM_010679, intron 2 of 3)	1037.0	NM_010679	16770.0	Mm.5074	NM_010679	ENSMUSG00000022991	Lalba	AW208827|Lyzg	lactalbumin, alpha	protein-coding	11.5	16.5	8.0	175.0	19.5	11.0	18.0	13.0
Merged-chr3-95135144-4	chr3	95135035	95135235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153121, intron 1 of 2)	intron (NM_153121, intron 1 of 2)	1047.0	NM_153121	217779.0	Mm.341945	NM_153121	ENSMUSG00000053769	Lysmd1	2610022K04Rik|AI415311	LysM, putative peptidoglycan-binding, domain containing 1	protein-coding	23.5	17.0	18.0	214.5	101.5	23.5	29.5	52.0
Merged-chr2-166728435-4	chr2	166728341	166728541	+	902.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-14609.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	12.5	24.0	14.5	105.5	54.5	19.0	12.5	21.5
Merged-chr2-116900084-4	chr2	116900007	116900207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040335)	promoter-TSS (NR_040335)	-45.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	23.5	39.5	21.5	299.5	54.5	20.5	23.5	26.0
Merged-chr15-79348288-4	chr15	79348180	79348380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304832)	promoter-TSS (NM_001304832)	-122.0	NM_001304832	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	163.0	350.0	140.0	1487.5	465.0	202.5	179.5	125.5
Merged-chr9-13828095-3	chr9	13828005	13828205	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310721)	promoter-TSS (NM_001310721)	389.0	NM_176836	72826.0	Mm.246174	NM_176836	ENSMUSG00000037808	Fam76b	2810485I05Rik|C78303	family with sequence similarity 76, member B	protein-coding	43.0	50.0	75.0	568.5	106.0	35.5	46.0	55.5
Merged-chr10-111770174-3	chr10	111770092	111770292	+	943.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	104184.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	16.0	8.0	10.5	147.5	17.0	5.0	4.5	7.0
Merged-chr9-78481016-4	chr9	78480896	78481096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010106, intron 1 of 7)	CpG	728.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	89.0	148.5	93.5	1542.0	225.5	93.5	111.0	94.5
Merged-chr3-152782225-4	chr3	152782132	152782332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025662, intron 10 of 10)	intron (NM_025662, intron 10 of 10)	68132.0	NM_025662	329777.0	Mm.331447	NM_025662	ENSMUSG00000039047	Pigk	3000001O05Rik|Gm38470|PIG-K	phosphatidylinositol glycan anchor biosynthesis, class K	protein-coding	19.0	31.0	35.5	718.0	50.0	24.5	22.0	30.0
Merged-chr8-47714527-2	chr8	47714427	47714627	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172407)	promoter-TSS (NM_172407)	-596.0	NM_172407	70925.0	Mm.393807	NM_172407	ENSMUSG00000038069	Cdkn2aip	4921511I16Rik|AW208986|CARF	CDKN2A interacting protein	protein-coding	41.0	93.0	70.0	900.0	114.5	57.5	62.5	62.0
Merged-chr14-70599663-4	chr14	70599544	70599744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194345, intron 1 of 16)	CpG	191.0	NM_194345	239170.0	Mm.247582	NM_194345	ENSMUSG00000022095	Fam160b2	G430067P06Rik|Rai16	family with sequence similarity 160, member B2	protein-coding	71.0	107.5	72.0	883.0	134.5	61.5	86.0	70.5
Merged-chr13-5604366-4	chr13	5604242	5604442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	253750.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	103.0	119.0	105.5	1392.0	219.0	91.5	92.5	57.5
Merged-chr19-12467677-4	chr19	12467675	12467875	+	843.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172442, exon 9 of 9)	3' UTR (NM_172442, exon 9 of 9)	6996.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	4.5	17.5	3.5	74.0	17.5	8.5	11.0	8.0
Merged-chr14-37135381-4	chr14	37135296	37135496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199122)	promoter-TSS (NM_001199122)	-74.0	NM_078478	66092.0	Mm.182912	NM_078478	ENSMUSG00000041028	Ghitm	1010001P14Rik|C77840|MICS1|PTD010|Tmbim5	growth hormone inducible transmembrane protein	protein-coding	298.0	473.0	364.5	6052.5	796.5	278.0	373.5	332.5
Merged-chr1-106932164-4	chr1	106932053	106932253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2296.0	NM_027971	71869.0	Mm.321740	NM_027971	ENSMUSG00000059956	Serpinb12	2300003F07Rik|4833409F13Rik	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 12	protein-coding	45.0	42.5	53.5	786.0	88.5	25.0	33.0	30.5
Merged-chr4-132509795-4	chr4	132509653	132509853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144907, intron 1 of 9)	intron (NM_144907, intron 1 of 9)	703.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	16.5	22.0	35.5	407.5	41.5	19.5	31.0	30.0
Merged-chr11-96967761-4	chr11	96967668	96967868	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030220, intron 1 of 6)	intron (NM_030220, intron 1 of 6)	9920.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	23.5	20.0	12.5	297.0	43.5	21.0	26.5	22.0
Merged-chr11-116030355-5	chr11	116030289	116030489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172569)	promoter-TSS (NM_172569)	73.0	NM_172569	217331.0	Mm.297706	NM_172569	ENSMUSG00000020770	Unk	B230379M23Rik|Unkh|Zc3h5|Zc3hdc5|mKIAA1753	unkempt family zinc finger	protein-coding	70.5	177.0	103.0	595.5	242.5	114.0	69.5	126.5
Merged-chr1-60860732-3	chr1	60860607	60860807	+	840.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48318.0	NM_009843	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	6.0	17.0	4.0	57.5	21.0	11.0	10.5	5.5
Merged-chr19-32881657-3	chr19	32881603	32881803	+	735.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124126.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	6.5	10.0	7.5	86.5	15.5	2.5	6.0	3.0
Merged-chr3-144933266-4	chr3	144933138	144933338	+	985.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033199)	promoter-TSS (NM_001033199)	-709.0	NM_001033199	99709.0	Mm.440040	NM_001033199	ENSMUSG00000074195	Clca4b	AI747448|Clca7	chloride channel accessory 4B	protein-coding	36.0	35.5	66.5	948.5	33.0	16.0	31.0	23.0
Merged-chr9-44721423-4	chr9	44721320	44721520	+	975.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153537, intron 4 of 21)	CpG	13778.0	NM_153537	102693.0	Mm.28639	NM_153537	ENSMUSG00000048537	Phldb1	AU041016|D330037A14Rik|Ll5a	pleckstrin homology like domain, family B, member 1	protein-coding	48.5	44.5	37.0	538.0	49.5	23.0	12.5	11.5
Merged-chr6-51545412-4	chr6	51545299	51545499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	intron (NM_001361577, intron 1 of 6)	106.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	102.0	149.5	82.0	1344.0	292.5	100.0	99.5	70.5
Merged-chr14-61676106-4	chr14	61676012	61676212	+	917.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	6261.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	23.5	23.0	6.5	172.5	61.0	12.0	17.0	22.5
Merged-chr5-31295766-4	chr5	31295671	31295871	+	871.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_022424, exon 1 of 7)	5' UTR (NM_022424, exon 1 of 7)	161.0	NM_001356945	64339.0	Mm.292544	NM_022424	ENSMUSG00000038552	Fndc4	2810430J06Rik|6330410H20Rik|AB030187|AI838506|AW487863|FRCP1|Fnmp1	fibronectin type III domain containing 4	protein-coding	5.5	19.0	18.5	153.5	42.5	5.0	9.0	9.5
Merged-chr11-51635857-4	chr11	51635771	51635971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025346)	promoter-TSS (NM_025346)	25.0	NM_025346	66089.0	Mm.288183	NM_025346	ENSMUSG00000001054	Rmnd5b	0610039K22Rik|Gid2	required for meiotic nuclear division 5 homolog B	protein-coding	33.0	63.5	34.5	398.5	96.5	38.0	37.0	30.0
Merged-chr18-5941391-4	chr18	5941299	5941499	+	916.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	194699.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	6.0	25.5	20.5	195.5	19.0	12.5	13.0	20.5
Merged-chr1-191115076-4	chr1	191114985	191115185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16671.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	41.5	45.0	27.5	622.0	74.5	30.5	33.0	47.0
Merged-chr5-151686881-4	chr5	151686770	151686970	+	942.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35662.0	NM_027009	69263.0	Mm.12553	NM_027009	ENSMUSG00000033970	Rfc3	2810416I22Rik|38kDa|AU022547|Recc3	replication factor C (activator 1) 3	protein-coding	9.0	13.5	10.5	164.0	38.0	8.0	9.5	11.0
Merged-chr4-63410210-4	chr4	63410094	63410294	+	997.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6749.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	17.5	62.0	18.5	164.5	34.5	22.5	24.0	18.5
Merged-chr5-122820964-4	chr5	122820862	122821062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042491, intron 1 of 16)	CpG	380.0	NM_021505	59008.0	Mm.332667	NM_021505	ENSMUSG00000029472	Anapc5	2510006G12Rik|AA408751|AA536819|AA986414|APC5|Anpc5	anaphase-promoting complex subunit 5	protein-coding	40.0	70.5	49.5	445.0	77.5	35.0	42.5	42.5
Merged-chr6-34029450-4	chr6	34029392	34029592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028886)	promoter-TSS (NM_028886)	44.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	32.5	51.5	39.0	435.0	70.0	26.0	18.0	40.5
Merged-chr8-11103952-4	chr8	11103838	11104038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95508.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	70.0	143.0	147.5	2466.5	103.5	25.0	62.0	57.5
Merged-chr5-135015677-3	chr5	135015576	135015776	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2519.0	NR_026688	69812.0	Mm.18422	NR_026688	ENSMUSG00000085042	Abhd11os	2010001M06Rik|AI462243|Wbscr26|Wnscr26	abhydrolase domain containing 11, opposite strand	ncRNA	7.0	19.0	2.0	110.5	27.0	4.5	6.0	11.5
Merged-chr18-80706804-4	chr18	80706702	80706902	+	922.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	intron (NM_198429, intron 1 of 9)	1371.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	19.5	13.0	14.5	223.5	25.5	14.5	18.0	13.5
Merged-chr4-70378209-4	chr4	70378098	70378298	+	895.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145990, intron 4 of 36)	GSAT_MM|Satellite|Satellite	32237.0	NM_001313762	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	26.0	18.5	30.0	1232.5	56.0	20.0	17.5	23.0
Merged-chr19-4310041-4	chr19	4309965	4310165	+	873.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3843.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	6.0	5.0	2.0	104.0	47.5	23.5	15.0	25.0
Merged-chr11-47398048-4	chr11	47397942	47398142	+	989.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18740.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	11.0	54.5	38.0	431.5	123.0	33.0	42.5	23.0
Merged-chr8-11471524-4	chr8	11471436	11471636	+	886.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	L1M2|LINE|L1	-6393.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	15.0	11.0	4.0	169.5	36.5	10.0	9.5	17.5
Merged-chr6-122653281-4	chr6	122653171	122653371	+	963.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26847.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	38.0	27.0	30.0	330.0	69.0	18.5	20.5	15.0
Merged-chr4-119105908-4	chr4	119105815	119106015	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2830.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	29.0	23.0	21.0	217.5	52.5	18.0	29.5	21.5
Merged-chr13-54589563-4	chr13	54589437	54589637	+	921.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025933)	promoter-TSS (NM_025933)	537.0	NM_178605	28126.0	Mm.439993	NM_178605	ENSMUSG00000025869	Nop16	AA409471|D13Wsu177e	NOP16 nucleolar protein	protein-coding	17.5	15.5	9.0	243.5	52.5	11.5	11.0	21.0
Merged-chr12-4917313-4	chr12	4917217	4917417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099628)	promoter-TSS (NM_001099628)	-36.0	NM_001099628	320817.0	Mm.210966	NM_001099628	ENSMUSG00000052812	Atad2b	1110014E10Rik|BC032887|C79189|D530031C13Rik	ATPase family, AAA domain containing 2B	protein-coding	148.0	189.0	162.0	1909.5	344.0	119.0	173.5	132.5
Merged-chr11-115633052-4	chr11	115632895	115633095	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4700.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	7.5	15.0	14.0	77.5	21.5	10.0	12.0	12.0
Merged-chr1-93486732-4	chr1	93486635	93486835	+	873.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159719, intron 1 of 12)	B2_Mm1a|SINE|B2	7674.0	NM_001159719	18000.0	Mm.428652	NM_010891	ENSMUSG00000026276	Sept2	AW208991|Nedd-5|Nedd5|mKIAA0158	septin 2	protein-coding	12.5	15.0	17.0	151.5	41.5	11.0	3.0	14.5
Merged-chr4-107139990-2	chr4	107139890	107140090	+	964.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025617, intron 4 of 4)	intron (NM_025617, intron 4 of 4)	38376.0	NM_025617	66526.0	Mm.246956	NM_025617	ENSMUSG00000028619	Tceanc2	2210010B22Rik|2210012G02Rik|6330404A07Rik|AU015593|Tdeanc2	transcription elongation factor A (SII) N-terminal and central domain containing 2	protein-coding	2.0	1.0	4.0	75.0	11.0	5.5	5.5	9.0
Merged-chr10-17669624-4	chr10	17669501	17669701	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53627.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	27.0	34.0	17.0	481.5	49.5	26.5	21.5	13.0
Merged-chr15-8635613-4	chr15	8635529	8635729	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_148938, exon 10 of 10)	3' UTR (NM_148938, exon 10 of 10)	75178.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	17.5	44.0	18.0	142.5	86.0	34.0	41.5	18.5
Merged-chr19-34148680-4	chr19	34148590	34148790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024204, intron 2 of 5)	intron (NM_024204, intron 2 of 5)	17351.0	NM_024204	52024.0	Mm.183030	NM_024204	ENSMUSG00000024774	Ankrd22	5430429D21Rik|D19Ertd675e	ankyrin repeat domain 22	protein-coding	24.5	35.0	35.0	476.0	49.5	8.5	19.0	21.0
Merged-chr18-23809020-4	chr18	23808900	23809100	+	970.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	5030.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	20.0	28.0	16.5	221.5	54.5	9.5	16.5	26.0
Merged-chr7-78865047-4	chr7	78864939	78865139	+	953.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17828.0	NM_029585	76375.0	Mm.250541	NM_029585	ENSMUSG00000030610	Det1	2610034H20Rik	de-etiolated homolog 1 (Arabidopsis)	protein-coding	11.0	9.5	18.0	284.5	33.5	6.0	23.0	23.5
Merged-chr16-30009105-4	chr16	30009015	30009215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033631, intron 1 of 2)	CpG	448.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	22.5	42.0	30.5	645.0	57.5	25.5	33.5	42.0
Merged-chr15-102399751-4	chr15	102399621	102399821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6595.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	54.0	58.0	45.0	558.0	117.0	61.5	78.0	67.0
Merged-chr13-22042512-4	chr13	22042393	22042593	+	791.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178198)	promoter-TSS (NM_178198)	456.0	NM_178186	319167.0	Mm.263165	NM_178186	ENSMUSG00000069301	Hist1h2ag	-	histone cluster 1, H2ag	protein-coding	8.0	10.0	7.5	71.0	27.0	3.0	6.0	21.0
Merged-chr2-43555763-4	chr2	43555649	43555849	+	890.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289593, intron 1 of 12)	intron (NM_001289593, intron 1 of 12)	424.0	NM_027552	70789.0	Mm.105278	NM_027552	ENSMUSG00000026866	Kynu	4432411A05Rik	kynureninase (L-kynurenine hydrolase)	protein-coding	11.5	12.0	6.0	222.0	55.0	14.5	13.0	13.0
Merged-chr17-33718784-4	chr17	33718681	33718881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145486)	promoter-TSS (NM_145486)	-104.0	NR_045522	224703.0	Mm.311439	NM_145486	ENSMUSG00000079557	March2	9530046H09Rik|MARCH-II	membrane-associated ring finger (C3HC4) 2	protein-coding	189.0	301.5	112.0	2668.0	439.0	192.0	190.0	175.5
Merged-chr10-126979589-6	chr10	126979538	126979738	+	922.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113470, intron 1 of 7)	CpG	921.0	NM_001113470	52468.0	Mm.29490	NM_146012	ENSMUSG00000078429	Ctdsp2	AI586070|D10Ertd73e|OS-4|OS4|SCP2	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2	protein-coding	13.0	10.0	19.0	111.0	19.0	13.0	14.5	24.0
Merged-chr5-99516401-1	chr5	99516301	99516501	+	967.0	f0_balb.idr	intron (NR_030692, intron 2 of 3)	MTD|LTR|ERVL-MaLR	212659.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	19.0	9.0	4.5	137.0	9.0	5.0	3.5	6.5
Merged-chr11-83577598-2	chr11	83577498	83577698	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011338, intron 1 of 3)	MER74B|LTR|ERVL	1038.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	8.5	7.5	3.5	243.0	25.5	6.0	5.5	7.5
Merged-chr7-17027021-4	chr7	17026923	17027123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011155, intron 1 of 12)	L2b|LINE|L2	891.0	NM_011155	19060.0	Mm.3294	NM_011155	ENSMUSG00000003099	Ppp5c	AU020526|PP5	protein phosphatase 5, catalytic subunit	protein-coding	31.0	27.5	28.0	510.5	129.0	36.0	46.5	52.5
Merged-chr7-90071649-4	chr7	90071551	90071751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42492.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	48.5	77.0	62.5	807.0	87.5	54.0	49.0	30.0
Merged-chr10-19047581-4	chr10	19047494	19047694	+	937.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32184.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	20.0	46.5	24.5	281.0	71.0	27.0	12.5	13.5
Merged-chr7-89979743-3	chr7	89979641	89979841	+	961.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021876, intron 1 of 11)	intron (NM_021876, intron 1 of 11)	1235.0	NM_021876	13626.0	Mm.380914	NM_021876	ENSMUSG00000030619	Eed	l(7)5Rn|l7Rn5|lusk	embryonic ectoderm development	protein-coding	2.0	19.0	15.0	196.5	26.0	8.0	7.0	9.5
Merged-chr2-39004588-4	chr2	39004517	39004717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025592, intron 2 of 3)	intron (NM_025592, intron 2 of 3)	514.0	NM_025592	66489.0	Mm.345333	NM_025592	ENSMUSG00000062997	Rpl35	2410039E09Rik	ribosomal protein L35	protein-coding	13.0	41.5	25.5	223.0	91.0	21.0	28.5	19.0
Merged-chr9-78175987-4	chr9	78175898	78176098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040401)	promoter-TSS (NR_040401)	84.0	NR_040401	320295.0	Mm.131285	NR_040401	ENSMUSG00000097574	C920006O11Rik	-	RIKEN cDNA C920006O11 gene	ncRNA	60.5	98.5	97.5	834.0	170.5	43.5	61.5	56.5
Merged-chr2-24405813-2	chr2	24405713	24405913	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_177611, exon 16 of 17)	exon (NM_177611, exon 16 of 17)	19197.0	NM_001355232	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	1.0	4.5	10.5	86.0	15.5	4.5	10.0	8.0
Merged-chr12-105869469-3	chr12	105869369	105869569	+	868.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	84772.0	NM_001347440	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	8.0	18.0	11.5	343.0	10.0	3.5	3.5	1.0
Merged-chr1-182378577-4	chr1	182378487	182378687	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30580.0	NM_173378	209456.0	Mm.287450	NM_173378	ENSMUSG00000026510	Trp53bp2	53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550	transformation related protein 53 binding protein 2	protein-coding	17.5	34.5	25.5	254.0	67.0	20.5	17.5	29.5
Merged-chr7-28593592-4	chr7	28593466	28593666	+	926.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027470, intron 1 of 9)	intron (NM_027470, intron 1 of 9)	4618.0	NM_027470	70584.0	Mm.21876	NM_027470	ENSMUSG00000030602	Pak4	5730488L07Rik|AW555722|mKIAA1142	p21 (RAC1) activated kinase 4	protein-coding	8.5	26.5	9.0	135.0	35.5	12.0	10.0	10.5
Merged-chr11-69368942-6	chr11	69368859	69369059	+	972.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146019, intron 1 of 39)	CpG	467.0	NM_146019	216848.0	Mm.178246	NM_146019	ENSMUSG00000018474	Chd3	2600010P09Rik|AF020312|Chd7|Prp7|Prp9-1	chromodomain helicase DNA binding protein 3	protein-coding	16.5	9.0	4.5	112.5	30.5	14.0	11.0	18.0
Merged-chr4-46544523-2	chr4	46544423	46544623	+	934.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 6 of 11)	B3|SINE|B2	-8382.0	NM_029077	74735.0	Mm.240252	NM_029077	ENSMUSG00000039853	Trim14	5830400N10Rik|pub	tripartite motif-containing 14	protein-coding	3.0	10.0	5.0	79.0	20.0	9.5	7.0	15.5
Merged-chr11-69991560-4	chr11	69991473	69991673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026017)	TTS (NM_026017)	203.0	NM_019749	56486.0	Mm.272460	NM_019749	ENSMUSG00000018567	Gabarap	-	gamma-aminobutyric acid receptor associated protein	protein-coding	59.0	101.0	28.5	652.5	147.0	77.0	67.0	75.5
Merged-chr9-49051604-4	chr9	49051484	49051684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3997.0	NM_012039	26951.0	Mm.24791	NM_012039	ENSMUSG00000032264	Zw10	6330566F14Rik|MmZw10	zw10 kinetochore protein	protein-coding	60.5	60.5	25.5	728.5	51.5	23.0	37.5	31.5
Merged-chr17-49432545-4	chr17	49432442	49432642	+	890.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020042, intron 1 of 10)	intron (NM_020042, intron 1 of 10)	4178.0	NM_020042	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	9.5	21.0	35.5	293.5	18.5	9.0	19.5	4.5
Merged-chr1-138136612-4	chr1	138136512	138136712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	38514.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	146.5	238.5	128.5	2404.0	317.5	103.5	98.0	95.0
Merged-chr9-22054504-4	chr9	22054401	22054601	+	941.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310759)	TTS (NM_001310759)	-2478.0	NM_010487	15571.0	Mm.390167	NM_010487	ENSMUSG00000003410	Elavl3	2600009P04Rik|Huc|PLE21|mHuC	ELAV like RNA binding protein 3	protein-coding	20.0	54.5	12.0	492.5	72.0	11.5	32.0	14.0
Merged-chr9-66361931-4	chr9	66361816	66362016	+	810.720825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145617, intron 1 of 77)	RSINE1|SINE|B4	11466.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	14.5	13.0	8.0	159.0	39.5	10.0	13.0	13.0
Merged-chr3-90216022-2	chr3	90215922	90216122	+	902.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293741, intron 1 of 7)	B2_Mm2|SINE|B2	2307.0	NM_001293741	68328.0	Mm.29355	NM_026677	ENSMUSG00000027935	Rab13	0610007N03Rik|B230212B15Rik	RAB13, member RAS oncogene family	protein-coding	10.5	4.5	4.0	42.0	10.5	7.5	5.0	9.0
Merged-chr12-76377954-4	chr12	76377856	76378056	+	965.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	intron (NM_178744, intron 1 of 1)	7690.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	21.5	21.0	19.5	235.0	53.5	11.5	17.5	45.5
Merged-chr2-173352390-4	chr2	173352237	173352437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75804.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	31.5	20.0	25.5	646.5	61.0	14.0	21.0	21.0
Merged-chr9-118040374-4	chr9	118040260	118040460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048146)	promoter-TSS (NM_001048146)	-162.0	NM_001286507	27215.0	Mm.92705	NM_013727	ENSMUSG00000039285	Azi2	AA410145|AZ2	5-azacytidine induced gene 2	protein-coding	291.0	392.5	288.0	3771.5	674.0	290.5	432.5	250.5
Merged-chr12-26469915-2	chr12	26469850	26470050	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_020557, exon 1 of 5)	exon (NM_020557, exon 1 of 5)	735.0	NM_020557	22169.0	Mm.271839	NM_020557	ENSMUSG00000020638	Cmpk2	1200004E04Rik|TDKI|Tyki	cytidine monophosphate (UMP-CMP) kinase 2, mitochondrial	protein-coding	7.0	10.5	5.0	110.5	27.0	11.5	10.5	11.0
Merged-chr3-9004554-4	chr3	9004386	9004586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357072)	promoter-TSS (NM_001357072)	237.0	NM_009412	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	92.5	94.5	71.5	652.0	212.5	94.5	131.0	121.5
Merged-chr1-39686041-3	chr1	39685940	39686140	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145660, intron 7 of 14)	intron (NM_001145660, intron 7 of 14)	-34858.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	6.0	9.0	4.5	150.0	15.0	5.5	3.5	10.0
Merged-chr17-28080671-4	chr17	28080578	28080778	+	847.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013687)	promoter-TSS (NM_013687)	-39.0	NM_001085555	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	6.5	12.5	13.5	112.0	32.5	14.5	9.0	11.0
Merged-chr2-38479736-4	chr2	38479649	38479849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-31948.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	49.0	66.0	55.0	1023.0	104.0	36.0	56.0	47.5
Merged-chr10-51455982-4	chr10	51455877	51456077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24635.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	80.5	126.5	132.0	2118.0	171.0	70.0	93.5	78.0
Merged-chr4-32011360-3	chr4	32011270	32011470	+	972.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009316, intron 14 of 16)	L1MA5A|LINE|L1	47263.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	11.0	6.5	20.5	266.0	18.0	4.0	9.5	9.0
Merged-chr1-152599513-4	chr1	152599436	152599636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	25681.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	114.0	151.5	156.5	1938.0	114.0	53.5	67.0	56.5
Merged-chr10-6718105-2	chr10	6718005	6718205	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40488.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	13.0	9.5	10.0	202.0	13.5	5.0	11.5	16.5
Merged-chr12-70946818-4	chr12	70946701	70946901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019785, intron 4 of 12)	intron (NM_019785, intron 4 of 12)	8944.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	41.0	65.0	50.0	528.5	82.0	27.5	42.5	39.5
Merged-chr7-130943400-4	chr7	130943290	130943490	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019564, intron 1 of 8)	intron (NM_019564, intron 1 of 8)	7187.0	NM_019564	56213.0	Mm.30156	NM_019564	ENSMUSG00000006205	Htra1	AI429470|HTRA|L56|Prss11|RSPP11	HtrA serine peptidase 1	protein-coding	34.0	87.5	20.0	331.5	143.5	45.0	37.5	29.5
Merged-chr9-48821626-4	chr9	48821529	48821729	+	949.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 2 of 6)	intron (NM_001033324, intron 2 of 6)	14316.0	NM_001033324	235320.0	Mm.457803	NM_001033324	ENSMUSG00000066687	Zbtb16	AI467657|PLZF|Zfp145|lu	zinc finger and BTB domain containing 16	protein-coding	9.5	17.5	36.5	357.5	27.5	7.5	19.5	22.0
Merged-chr10-120136332-4	chr10	120136242	120136442	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-23377.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	22.5	11.5	13.0	244.0	17.0	8.0	11.0	11.5
Merged-chr10-61536565-4	chr10	61536464	61536664	+	770.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153542, intron 3 of 4)	intron (NM_153542, intron 3 of 4)	-58920.0	NM_001177511	237362.0	Mm.131297	NM_001177511	ENSMUSG00000020090	Npffr1	Gm236|Gpr147|NPFF1|NPFF1R|OT7T022	neuropeptide FF receptor 1	protein-coding	6.5	11.5	10.0	132.5	26.0	4.0	18.5	11.5
Merged-chr7-25659168-4	chr7	25659083	25659283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138586)	promoter-TSS (NM_138586)	30.0	NR_104358	27998.0	Mm.27853	NM_138586	ENSMUSG00000061286	Exosc5	D7Wsu180e	exosome component 5	protein-coding	100.5	242.5	133.5	1752.0	333.5	160.5	132.0	127.0
Merged-chr14-16244056-4	chr14	16243947	16244147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359883)	promoter-TSS (NM_001359883)	-716.0	NM_001359883	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	67.0	96.5	42.0	699.5	208.5	71.0	73.5	45.0
Merged-chr5-123023350-3	chr5	123023242	123023442	+	942.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175423, intron 1 of 1)	intron (NM_175423, intron 1 of 1)	8268.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	13.5	18.5	8.5	190.0	17.0	6.0	5.0	14.0
Merged-chr1-170613424-4	chr1	170613325	170613525	+	835.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23576.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	16.0	17.5	13.0	128.0	31.5	6.5	9.5	8.0
Merged-chr3-90052658-4	chr3	90052590	90052790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165984)	promoter-TSS (NM_001165984)	-112.0	NM_001287086	99650.0	Mm.300083	NM_025762	ENSMUSG00000027942	4933434E20Rik	5730552F22Rik|AI462154|NICE-3|NS5ATP4	RIKEN cDNA 4933434E20 gene	protein-coding	163.0	247.0	158.0	1583.0	446.5	193.0	181.0	163.5
Merged-chr16-91399120-4	chr16	91399015	91399215	+	974.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 7 of 7)	intron (NM_001347258, intron 7 of 7)	-7120.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	24.0	31.0	11.0	225.5	43.0	16.0	22.5	24.5
Merged-chr8-117055321-4	chr8	117055240	117055440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 13 of 42)	MIR|SINE|MIR	27109.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	158.5	179.0	140.5	2607.0	298.0	140.0	145.5	131.5
Merged-chr1-20817391-3	chr1	20817315	20817515	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008563, exon 3 of 17)	exon (NM_008563, exon 3 of 17)	2897.0	NM_008563	17215.0	Mm.4502	NM_008563	ENSMUSG00000041859	Mcm3	AL033361|C80350|Mcmd|P1|P1-MCM3|p1.m	minichromosome maintenance complex component 3	protein-coding	6.0	28.0	27.5	151.0	14.0	5.5	16.0	13.0
Merged-chr10-75231544-2	chr10	75231444	75231644	+	865.5750119999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 2 of 15)	intron (NM_153406, intron 2 of 15)	19154.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	4.0	6.0	3.0	113.5	18.0	4.5	9.5	7.5
Merged-chr13-21779449-4	chr13	21779338	21779538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020034)	TTS (NM_020034)	1187.0	NM_020034	56702.0	Mm.221314	NM_020034	ENSMUSG00000058773	Hist1h1b	H1.5|H1B|H1f5|H1s-3	histone cluster 1, H1b	protein-coding	122.5	216.0	156.5	2131.0	487.0	155.5	149.5	159.5
Merged-chr12-8347833-4	chr12	8347719	8347919	+	790.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34386.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	3.5	10.0	7.0	178.0	18.5	9.5	7.5	15.5
Merged-chr17-35809654-4	chr17	35809571	35809771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12042.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	32.5	37.0	77.5	623.5	58.0	35.5	30.5	55.5
Merged-chr5-103725907-4	chr5	103725765	103725965	+	971.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28297.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	9.5	16.0	7.5	180.0	28.5	8.0	9.0	15.5
Merged-chr8-108315334-4	chr8	108315238	108315438	+	754.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	269339.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	9.0	16.0	6.0	117.0	37.0	10.0	9.5	14.0
Merged-chr1-138620215-4	chr1	138620124	138620324	+	921.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311148)	promoter-TSS (NM_001311148)	-467.0	NM_001311148	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	11.5	22.0	15.0	161.5	42.5	18.5	13.0	13.0
Merged-chr12-98272707-3	chr12	98272619	98272819	+	807.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008152, intron 1 of 1)	L1ME3A|LINE|L1	4084.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	3.0	12.5	14.0	123.5	17.5	5.5	8.0	7.0
Merged-chr11-20661849-2	chr11	20661749	20661949	+	689.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29872.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	13.0	9.0	5.0	64.0	19.5	3.5	7.5	3.5
Merged-chr12-84243626-1	chr12	84243526	84243726	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-24745.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	20.5	32.5	10.0	266.5	24.0	17.0	22.5	12.5
Merged-chr18-82911723-4	chr18	82911609	82911809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183033, intron 1 of 5)	intron (NM_183033, intron 1 of 5)	830.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	72.5	133.0	60.0	702.5	215.0	82.5	102.0	75.5
Merged-chr17-23969433-4	chr17	23969328	23969528	+	865.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	5802.0	NM_013921	30943.0	Mm.142568	NM_013921	ENSMUSG00000024124	Prss30	2010015P21Rik|Disp|Disp1|Tmprss8	protease, serine 30	protein-coding	5.0	13.0	12.5	130.0	34.5	9.0	13.0	6.0
Merged-chr17-67261158-3	chr17	67261063	67261263	+	790.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	L1MA5|LINE|L1	93296.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	1.5	5.0	7.5	71.5	11.5	9.0	5.0	6.5
Merged-chr7-139249076-4	chr7	139249005	139249205	+	957.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098636, intron 1 of 2)	intron (NM_001098636, intron 1 of 2)	623.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	7.5	21.5	12.5	156.0	40.0	16.0	17.0	17.0
Merged-chr7-139412593-3	chr7	139412483	139412683	+	945.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355162, intron 1 of 15)	intron (NM_001355162, intron 1 of 15)	12089.0	NM_001355162	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	6.5	12.0	6.0	220.5	9.0	3.5	12.0	5.0
Merged-chr2-12745495-3	chr2	12745387	12745587	+	931.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-178554.0	NM_008961	19212.0	Mm.229322	NM_008961	ENSMUSG00000026730	Pter	AI790318|Mpr56-1	phosphotriesterase related	protein-coding	11.0	5.5	6.5	208.5	4.0	5.5	9.5	4.0
Merged-chr13-39003591-4	chr13	39003487	39003687	+	872.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42712.0	NM_001170431	108652.0	Mm.255506	NM_134060	ENSMUSG00000021432	Slc35b3	4921526O06Rik|AI428480|CGI-19|PABST2|PAPST2	solute carrier family 35, member B3	protein-coding	24.0	26.0	7.0	322.5	57.0	11.0	24.0	12.5
Merged-chr3-57736992-3	chr3	57736868	57737068	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130743, intron 1 of 9)	intron (NR_130743, intron 1 of 9)	911.0	NR_130743	24017.0	Mm.274360	NM_011883	ENSMUSG00000036503	Rnf13	2010001H16Rik|Rzf	ring finger protein 13	protein-coding	18.5	6.5	6.5	160.5	29.5	8.0	3.0	13.5
Merged-chr13-30888682-2	chr13	30888582	30888782	+	734.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_025588, intron 11 of 27)	intron (NM_025588, intron 11 of 27)	59079.0	NM_153072	210554.0	Mm.450571	NM_153072	ENSMUSG00000076430	Hus1b	-	HUS1 checkpoint clamp component B	protein-coding	4.5	7.5	4.5	51.5	9.0	1.0	8.5	9.5
Merged-chr13-43774367-4	chr13	43774269	43774469	+	873.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10743.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	13.0	3.0	13.0	62.5	48.0	8.0	17.5	18.5
Merged-chr19-53460559-3	chr19	53460520	53460720	+	772.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028427, intron 2 of 9)	intron (NR_028427, intron 2 of 9)	4176.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	4.5	8.0	11.5	167.5	8.5	2.0	4.5	2.0
Merged-chr13-12475480-4	chr13	12475319	12475519	+	859.535706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133643, exon 6 of 6)	3' UTR (NM_133643, exon 6 of 6)	-13681.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	2.0	5.5	8.0	69.5	20.0	7.5	5.5	14.0
Merged-chr4-19673171-4	chr4	19673054	19673254	+	931.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_074089, intron 4 of 23)	intron (NR_074089, intron 4 of 23)	35850.0	NM_177327	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	21.5	32.5	14.5	389.5	52.5	9.5	21.5	30.0
Merged-chr9-41129446-4	chr9	41129338	41129538	+	663.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	RSINE1|SINE|B4	28624.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	7.0	10.5	6.0	118.5	30.0	7.5	8.0	13.0
Merged-chr13-21975018-4	chr13	21974912	21975112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6169.0	NM_001162928	195236.0	Mm.204664	NM_001162928	ENSMUSG00000016982	Pom121l2	Gm24	POM121 membrane glycoprotein-like 2 (rat)	protein-coding	25.5	25.0	15.0	239.5	42.5	8.5	14.0	25.5
Merged-chr5-63837268-3	chr5	63837169	63837369	+	925.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	MLT1B|LTR|ERVL-MaLR	24774.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	9.5	16.5	10.5	307.5	11.0	8.5	9.5	4.5
Merged-chr17-28951882-4	chr17	28951777	28951977	+	982.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356299)	promoter-TSS (NM_001356299)	-559.0	NM_001356300	66989.0	Mm.435	NM_025888	ENSMUSG00000005936	Kctd20	2410004N11Rik|AI451943|AW541186|D17Ertd562e	potassium channel tetramerisation domain containing 20	protein-coding	26.5	26.5	14.0	244.0	41.0	19.0	7.0	23.0
Merged-chr15-83113048-3	chr15	83112906	83113106	+	886.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023475, intron 9 of 11)	intron (NM_023475, intron 9 of 11)	9795.0	NM_001358061	74778.0	Mm.30056	NM_029101	ENSMUSG00000018040	Rrp7a	1110014J01Rik|AA408146|Kheg1	ribosomal RNA processing 7 homolog A (S. cerevisiae)	protein-coding	8.5	10.0	4.5	17.5	16.5	11.0	5.0	10.5
Merged-chr15-84245976-4	chr15	84245872	84246072	+	729.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	L1MB8|LINE|L1	13929.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	6.0	16.0	5.0	95.5	29.0	8.5	10.0	11.5
Merged-chr5-96922142-1	chr5	96922042	96922242	+	722.0	f1_balb.idr	intron (NR_131152, intron 2 of 2)	intron (NR_131152, intron 2 of 2)	870.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	9.0	9.5	5.5	58.0	8.0	2.0	5.0	13.5
Merged-chr12-52504781-5	chr12	52504579	52504779	+	779.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11398.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	7.0	5.5	12.5	121.5	24.5	9.0	15.5	11.5
Merged-chr17-8276857-3	chr17	8276753	8276953	+	783.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6960.0	NM_018819	55951.0	Mm.288510	NM_018819	ENSMUSG00000023861	Mpc1	0610006G08Rik|3830411I18Rik|Brp44l	mitochondrial pyruvate carrier 1	protein-coding	6.5	15.5	5.0	199.5	11.0	3.5	11.0	4.0
Merged-chr4-44182592-4	chr4	44182482	44182682	+	879.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14299.0	NM_001038993	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	11.0	9.5	9.0	234.0	24.0	2.0	13.5	12.5
Merged-chr14-73385333-4	chr14	73385245	73385445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008410)	promoter-TSS (NM_008410)	-56.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	68.0	91.0	80.5	1024.5	168.0	59.0	72.5	55.0
Merged-chr13-55429478-4	chr13	55429378	55429578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2674.0	NM_021489	58992.0	Mm.42224	NM_021489	ENSMUSG00000021492	F12	FXII|HAF	coagulation factor XII (Hageman factor)	protein-coding	146.5	281.5	165.0	2248.5	416.5	141.5	189.5	186.0
Merged-chr2-101781477-4	chr2	101781383	101781583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	16224.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	121.5	180.0	114.0	1939.0	260.5	115.0	138.5	104.5
Merged-chr17-33947542-4	chr17	33947456	33947656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020603, intron 10 of 14)	intron (NM_020603, intron 10 of 14)	3932.0	NM_019420	54218.0	Mm.11132	NM_019420	ENSMUSG00000067370	B3galt4	Gal-T2|Galt2	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4	protein-coding	28.5	62.5	33.5	319.5	59.0	36.0	24.0	40.5
Merged-chr6-94509895-4	chr6	94509817	94510017	+	956.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026255, intron 2 of 9)	intron (NM_026255, intron 2 of 9)	9603.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	16.0	47.0	27.5	664.0	35.0	7.5	13.5	13.0
Merged-chr8-84661708-4	chr8	84661616	84661816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010499, exon 1 of 1)	3' UTR (NM_010499, exon 1 of 1)	1136.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	131.5	233.0	131.0	2169.0	380.5	150.0	189.0	147.5
Merged-chr3-117995581-4	chr3	117995489	117995689	+	961.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126653.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	8.0	55.5	31.5	206.5	93.5	45.5	19.5	17.0
Merged-chr11-120492246-2	chr11	120492150	120492350	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013770, intron 1 of 10)	CpG	413.0	NM_013770	27376.0	Mm.3991	NM_013770	ENSMUSG00000025792	Slc25a10	Dic	solute carrier family 25 (mitochondrial carrier, dicarboxylate transporter), member 10	protein-coding	6.0	14.0	21.0	56.5	30.0	6.0	10.0	12.5
Merged-chr11-54808361-4	chr11	54808246	54808446	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11573.0	NR_040284	432562.0	Mm.406948	NR_040284	ENSMUSG00000086789	Lyrm7os	Gm12228	LYR motif containing 7, opposite strand	ncRNA	23.5	20.5	14.5	311.0	46.5	11.0	15.5	15.5
Merged-chr18-60804968-4	chr18	60804878	60805078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042605, intron 1 of 8)	intron (NM_001042605, intron 1 of 8)	1129.0	NM_010545	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	81.5	144.0	69.5	691.0	263.0	88.5	92.5	75.5
Merged-chr2-150927287-4	chr2	150927185	150927385	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 5 of 6)	intron (NM_027014, intron 5 of 6)	17691.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	25.5	36.0	33.5	279.0	46.5	20.0	33.0	18.0
Merged-chr10-83343373-4	chr10	83343265	83343465	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-5548.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	12.5	32.5	17.5	239.0	85.5	26.0	18.5	18.5
Merged-chr11-99447285-4	chr11	99447185	99447385	+	941.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-9132.0	NM_023256	66809.0	Mm.28042	NM_023256	ENSMUSG00000035775	Krt20	9030623C06Rik|Ck-20|Ck20|K20|Krt21	keratin 20	protein-coding	19.5	36.5	16.5	357.0	56.0	13.5	30.5	34.5
Merged-chr1-157448738-2	chr1	157448692	157448892	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9776.0	NM_001356418	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	4.5	3.5	2.5	56.0	5.5	9.0	4.5	13.0
Merged-chr6-134630604-4	chr6	134630488	134630688	+	964.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026345, intron 1 of 3)	Charlie4a|DNA|hAT-Charlie	1900.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	25.5	26.5	18.0	289.5	52.0	23.5	14.0	15.5
Merged-chr1-54586379-4	chr1	54586205	54586405	+	946.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28621.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	7.0	8.0	9.5	109.0	18.5	1.0	7.0	12.5
Merged-chr2-30591081-4	chr2	30590977	30591177	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	-3967.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	36.0	25.0	12.5	381.0	75.0	30.0	24.0	28.5
Merged-chr5-28071964-4	chr5	28071872	28072072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153526, intron 1 of 4)	intron (NM_153526, intron 1 of 4)	560.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	186.5	394.5	280.5	3597.0	617.0	252.0	284.0	249.0
Merged-chr10-117755520-7	chr10	117755348	117755548	+	891.1904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134010, intron 26 of 27)	intron (NM_134010, intron 26 of 27)	-9090.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	9.0	9.5	10.0	105.5	21.0	13.5	8.5	20.0
Merged-chr14-66186266-4	chr14	66186163	66186363	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 5 of 30)	intron (NM_001162366, intron 5 of 30)	27561.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	11.0	15.0	12.5	113.0	78.5	21.0	24.5	21.5
Merged-chr16-91933382-4	chr16	91933290	91933490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1760.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	54.5	97.0	50.0	987.0	138.0	50.0	58.0	64.5
Merged-chr10-7956302-4	chr10	7956208	7956408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138667)	promoter-TSS (NM_138667)	-185.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	109.5	191.0	103.0	1498.5	269.0	105.0	126.0	97.0
Merged-chr9-120110783-4	chr9	120110688	120110888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144793, intron 1 of 6)	CpG	389.0	NM_144793	208638.0	Mm.236656	NM_144793	ENSMUSG00000032519	Slc25a38	AV019094|BC010801|appoptosin	solute carrier family 25, member 38	protein-coding	78.0	114.0	38.0	796.5	215.5	82.5	106.5	74.0
Merged-chr12-102694990-4	chr12	102694887	102695087	+	914.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172584, intron 1 of 9)	intron (NM_172584, intron 1 of 9)	9882.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	14.0	19.5	11.5	174.5	29.0	12.0	14.0	22.0
Merged-chr9-118649642-4	chr9	118649537	118649737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 4 of 27)	intron (NM_133721, intron 4 of 27)	42928.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	69.0	74.5	127.5	1929.5	108.0	30.0	83.0	39.5
Merged-chr9-90013473-4	chr9	90013376	90013576	+	822.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357743, intron 23 of 26)	intron (NM_001357743, intron 23 of 26)	-40791.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	8.0	13.0	14.0	280.0	24.0	13.0	15.0	11.0
Merged-chr5-62616109-3	chr5	62616011	62616211	+	936.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 28 of 32)	intron (NM_178407, intron 28 of 32)	150066.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	13.0	18.0	5.0	190.0	4.0	0.5	2.0	3.0
Merged-chr1-58424099-4	chr1	58424016	58424216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027853)	promoter-TSS (NR_027853)	-28.0	NM_001042634	12747.0	Mm.1761	NM_009905	ENSMUSG00000026034	Clk1	STY	CDC-like kinase 1	protein-coding	81.5	103.0	31.0	924.0	223.0	64.5	63.0	86.5
Merged-chr17-34605088-3	chr17	34604985	34605185	+	853.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163379)	promoter-TSS (NM_001163379)	-776.0	NM_001163379	55979.0	Mm.8684	NM_018862	ENSMUSG00000034254	Agpat1	1-AGP|1-AGPAT|AW047140	1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha)	protein-coding	10.5	13.0	11.5	51.0	25.5	7.0	3.0	10.0
Merged-chr5-90903718-4	chr5	90903599	90903799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009140)	promoter-TSS (NM_009140)	-200.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	232.5	368.0	323.0	2624.5	639.5	278.0	283.5	222.5
Merged-chr7-67451573-4	chr7	67451424	67451624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78666.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	41.5	95.5	47.5	572.5	198.0	56.0	96.5	54.5
Merged-chr17-5935856-3	chr17	5935746	5935946	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	-5434.0	NM_001113353	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	12.5	7.0	16.0	103.5	13.5	3.5	2.5	13.5
Merged-chr11-69579377-4	chr11	69579279	69579479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144824)	promoter-TSS (NM_144824)	-55.0	NM_144824	216853.0	Mm.31586	NM_144824	ENSMUSG00000041346	Wrap53	BC021790|Wdr79	WD repeat containing, antisense to Trp53	protein-coding	89.5	150.0	66.0	859.5	189.0	63.0	58.5	51.5
Merged-chr4-138041283-3	chr4	138041156	138041356	+	783.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	B3A|SINE|B2	43431.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	7.5	5.0	13.0	117.0	12.5	5.0	7.5	4.0
Merged-chr5-92603585-3	chr5	92603499	92603699	+	742.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175096, intron 1 of 1)	intron (NM_175096, intron 1 of 1)	548.0	NM_175096	52331.0	Mm.21965	NM_175096	ENSMUSG00000047963	Stbd1	D530019K15Rik|D5Ertd593e	starch binding domain 1	protein-coding	8.0	11.5	10.0	77.0	10.5	9.0	3.5	11.5
Merged-chr2-170217710-4	chr2	170217616	170217816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-75041.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	25.5	50.5	15.5	399.5	73.0	19.0	18.5	20.5
Merged-chr1-144240604-3	chr1	144240501	144240701	+	813.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	8503.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	21.5	25.0	9.0	119.0	24.0	6.0	5.5	4.0
Merged-chr15-98799630-3	chr15	98799532	98799732	+	810.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8293.0	NM_001013741	13199.0	Mm.390810	NM_001013741	ENSMUSG00000059213	Ddn	Gm748	dendrin	protein-coding	4.0	15.5	8.5	54.0	28.0	9.0	8.5	5.0
Merged-chr2-153241458-4	chr2	153241357	153241557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018807)	promoter-TSS (NM_018807)	-75.0	NM_080463	140484.0	Mm.293761	NM_080463	ENSMUSG00000046020	Pofut1	O-FucT-1|mKIAA0180	protein O-fucosyltransferase 1	protein-coding	87.0	171.0	84.5	1611.0	271.5	97.5	145.0	108.5
Merged-chr11-101278988-4	chr11	101278871	101279071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026618)	promoter-TSS (NM_026618)	-23.0	NM_026618	52469.0	Mm.52	NM_026618	ENSMUSG00000017188	Coa3	1810033A19Rik|Ccdc56|D11Ertd99e|HSPC009	cytochrome C oxidase assembly factor 3	protein-coding	66.0	74.5	38.5	629.5	99.5	31.0	48.0	39.5
Merged-chr3-108865321-4	chr3	108865206	108865406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165965, intron 8 of 11)	intron (NM_001165965, intron 8 of 11)	24702.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	49.5	66.0	82.5	874.0	101.0	51.5	64.5	39.5
Merged-chr1-171184513-4	chr1	171184417	171184617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025557, intron 1 of 2)	URR1B|DNA|hAT-Charlie	11751.0	NM_025557	66425.0	Mm.482117	NM_025557	ENSMUSG00000038370	Pcp4l1	1500036F01Rik	Purkinje cell protein 4-like 1	protein-coding	87.0	104.0	44.5	696.5	186.0	79.0	72.5	93.5
Merged-chr4-6222868-1	chr4	6222768	6222968	+	656.0	f1_c57bl6.idr	Intergenic	Intergenic	31763.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	2.0	0.0	0.0	11.0	25.5	5.0	9.0	6.0
Merged-chr2-91481000-2	chr2	91480900	91481100	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 15 of 37)	intron (NM_172668, intron 15 of 37)	23469.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	4.5	13.5	6.5	66.0	16.5	5.0	8.0	15.5
Merged-chr2-71526883-3	chr2	71526770	71526970	+	750.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	intron (NR_039557, intron 2 of 3).2	-2575.0	NM_010053	13390.0	Mm.475101	NM_010053	ENSMUSG00000041911	Dlx1	Dlx|Dlx-1	distal-less homeobox 1	protein-coding	11.0	9.0	1.5	94.0	13.5	12.0	5.0	7.5
Merged-chr9-21131361-4	chr9	21131251	21131451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018793)	promoter-TSS (NM_018793)	-76.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	162.0	268.5	181.5	3062.5	410.5	176.0	176.5	150.5
Merged-chr11-70221087-5	chr11	70220931	70221131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172371)	promoter-TSS (NM_172371)	-37.0	NM_172371	69309.0	Mm.93266	NM_172371	ENSMUSG00000044367	Slc16a13	1700007D07Rik	solute carrier family 16 (monocarboxylic acid transporters), member 13	protein-coding	50.5	74.5	43.5	306.0	91.0	32.5	31.5	45.0
Merged-chr9-89705055-4	chr9	89704977	89705177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025360)	promoter-TSS (NM_025360)	-34.0	NM_025360	66111.0	Mm.27606	NM_025360	ENSMUSG00000032353	Tmed3	1200002G13Rik|AW546672|P24b	transmembrane p24 trafficking protein 3	protein-coding	118.0	186.5	124.5	2664.5	325.0	89.0	149.5	126.5
Merged-chr1-164074835-4	chr1	164074748	164074948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164059, intron 6 of 7)	intron (NM_001164059, intron 6 of 7)	12772.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	20.0	27.0	17.5	335.0	76.0	20.5	35.0	28.5
Merged-chr8-88362162-4	chr8	88362051	88362251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012047)	promoter-TSS (NM_012047)	40.0	NM_012047	26992.0	Mm.5400	NM_012047	ENSMUSG00000031660	Brd7	BP75|CELTIX1|Ptpn13ip	bromodomain containing 7	protein-coding	47.5	80.5	82.0	772.5	182.5	55.5	77.0	75.5
Merged-chr13-37526368-4	chr13	37526253	37526453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181008.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	63.5	103.5	89.0	1574.0	169.0	71.0	96.5	84.5
Merged-chr14-34768579-4	chr14	34768469	34768669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-51567.0	NM_008166	14803.0	Mm.121569	NM_008166	ENSMUSG00000041078	Grid1	GluD1|GluRdelta1	glutamate receptor, ionotropic, delta 1	protein-coding	66.0	114.0	58.0	774.0	85.5	41.5	54.5	33.5
Merged-chr10-86879379-3	chr10	86879278	86879478	+	849.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 44 of 68)	intron (NM_138673, intron 44 of 68)	100373.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	13.0	9.0	9.0	277.5	8.5	6.0	4.5	11.0
Merged-chr1-91063331-4	chr1	91063233	91063433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	9889.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	27.5	24.5	26.5	419.5	80.0	33.5	46.5	34.5
Merged-chr5-107988145-4	chr5	107988068	107988268	+	915.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-1091.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	10.5	9.0	14.0	186.0	55.0	15.5	17.0	13.0
Merged-chr16-13903685-1	chr16	13903585	13903785	+	1000.0	f0_c57.idr	promoter-TSS (NM_053181)	promoter-TSS (NM_053181)	524.0	NM_001289562	93734.0	Mm.76554	NM_033564	ENSMUSG00000022679	Mpv17l	M-LP	Mpv17 transgene, kidney disease mutant-like	protein-coding	17.5	32.0	17.0	246.5	60.5	16.5	26.5	29.0
Merged-chr9-71806667-4	chr9	71806598	71806798	+	738.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-35096.0	NM_001304362	68178.0	Mm.99961	NM_026599	ENSMUSG00000032232	Cgnl1	4933421H10Rik|9930020M10Rik|AI503810|Jacop	cingulin-like 1	protein-coding	2.5	18.5	4.5	79.5	11.5	13.0	6.0	8.5
Merged-chr16-94245590-4	chr16	94245490	94245690	+	859.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	intron (NM_001360045, intron 5 of 10)	44701.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	7.5	23.5	8.0	105.0	14.5	13.5	13.0	16.0
Merged-chr11-22859130-4	chr11	22859097	22859297	+	978.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	CpG	538.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	11.0	21.0	10.0	194.0	36.5	14.5	10.5	15.0
Merged-chr9-14751947-8	chr9	14751850	14752050	+	904.7152710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010242, exon 1 of 1)	exon (NM_010242, exon 1 of 1)	172.0	NM_010242	14345.0	Mm.63450	NM_010242	ENSMUSG00000049307	Fut4	AI451562|CD15|FAL|FucT-IV|LeX|SSEA-1|Ssea1	fucosyltransferase 4	protein-coding	31.5	16.0	20.5	324.5	38.5	12.5	13.0	32.5
Merged-chr1-88287689-4	chr1	88287547	88287747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10068.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	29.0	37.5	24.0	343.0	67.5	25.5	20.0	43.5
Merged-chr3-8991046-4	chr3	8990939	8991139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	13165.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	32.0	71.0	22.0	308.0	129.0	34.0	36.5	31.5
Merged-chr5-5115278-3	chr5	5115171	5115371	+	969.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 6 of 14)	intron (NM_011074, intron 6 of 14)	150797.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	0.5	0.0	0.0	0.0	53.5	23.0	23.5	28.0
Merged-chr13-51964397-6	chr13	51964296	51964496	+	781.486084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117721.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	9.5	11.5	13.5	74.5	11.5	5.5	4.5	5.5
Merged-chr4-62600706-3	chr4	62600611	62600811	+	858.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 3 of 19)	intron (NM_019492, intron 3 of 19)	-18961.0	NM_001081650	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	3.5	5.5	9.0	158.0	16.0	8.5	9.5	6.0
Merged-chr4-155488449-4	chr4	155488346	155488546	+	931.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2915.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	6.5	20.5	8.5	233.0	42.5	8.0	12.5	19.0
Merged-chr19-21646283-4	chr19	21646209	21646409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025423, intron 1 of 3)	MTD|LTR|ERVL-MaLR	6482.0	NM_025423	66206.0	Mm.272430	NM_025423	ENSMUSG00000035171	1110059E24Rik	-	RIKEN cDNA 1110059E24 gene	protein-coding	18.5	28.0	36.5	437.5	58.0	22.0	28.0	18.0
Merged-chr6-135237523-3	chr6	135237445	135237645	+	882.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010352, exon 7 of 7)	exon (NM_010352, exon 7 of 7)	10339.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	13.0	11.0	7.0	137.0	8.0	2.0	4.5	1.0
Merged-chr3-88721193-4	chr3	88721096	88721296	+	848.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028056, intron 3 of 5)	RSINE1|SINE|B4	4342.0	NR_028056	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	9.5	7.5	7.5	100.0	31.5	10.0	19.5	11.0
Merged-chr15-59037824-4	chr15	59037720	59037920	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	44206.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	39.0	12.5	12.5	423.5	49.0	15.5	34.0	25.5
Merged-chr1-118459590-4	chr1	118459470	118459670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027901)	promoter-TSS (NR_027901)	-305.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	124.5	184.5	84.0	1544.5	250.5	69.5	104.0	53.0
Merged-chr19-60889264-3	chr19	60889149	60889349	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018869)	promoter-TSS (NM_018869)	-500.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	18.5	23.5	22.0	402.0	15.5	4.0	16.0	9.5
Merged-chr9-45086398-3	chr9	45086298	45086498	+	994.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 3 of 10)	intron (NM_001005421, intron 3 of 10)	7215.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	44.0	46.5	40.5	641.0	13.5	3.0	6.5	5.5
Merged-chr8-80992137-3	chr8	80992037	80992237	+	774.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027554, intron 6 of 9)	intron (NM_027554, intron 6 of 9)	22769.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	8.0	5.0	4.0	45.0	27.5	9.0	7.0	10.5
Merged-chr12-102445643-4	chr12	102445552	102445752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5839.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	184.5	281.0	176.5	2434.5	386.5	161.5	185.0	178.5
Merged-chr7-101821776-4	chr7	101821661	101821861	+	890.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001122739)	TTS (NM_001122739)	3448.0	NM_008887	11859.0	Mm.5028	NM_008887	ENSMUSG00000007946	Phox2a	Arix|Phox2|Pmx2|Pmx2a|Px2a	paired-like homeobox 2a	protein-coding	12.5	20.5	16.0	163.5	24.5	11.0	4.0	15.0
Merged-chr8-11575745-3	chr8	11575598	11575798	+	775.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17288.0	NM_001302459	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	7.0	7.5	2.0	58.5	13.5	7.5	5.5	5.5
Merged-chr12-69127390-4	chr12	69127284	69127484	+	921.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31802.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	17.5	21.5	14.0	251.0	39.0	12.5	14.5	9.5
Merged-chr12-16900965-4	chr12	16900862	16901062	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009072, intron 1 of 32)	intron (NM_009072, intron 1 of 32)	5984.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	13.0	34.5	20.5	308.5	56.5	17.5	19.5	17.5
Merged-chr11-71144848-4	chr11	71144754	71144954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004142)	promoter-TSS (NM_001004142)	-150.0	NM_001004142	195046.0	Mm.240227	NM_001004142	ENSMUSG00000069830	Nlrp1a	CARD7|DEFCAP|Gm14|Gm15|NAC|Nalp1|Nalp1a|Nlrp1|PP1044	NLR family, pyrin domain containing 1A	protein-coding	45.0	68.0	43.0	384.5	67.5	27.0	37.5	34.0
Merged-chr13-76751239-2	chr13	76751147	76751347	+	829.666626	f0_c57.idr|f1_c57bl6.idr	intron (NM_030174, intron 6 of 20)	intron (NM_030174, intron 6 of 20)	366286.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	1.0	1.0	2.0	35.5	32.0	6.5	19.5	5.5
Merged-chr7-19844758-4	chr7	19844662	19844862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7241.0	NM_001270489	100502736.0	Mm.445354	NM_001270489	ENSMUSG00000092216	Gm19345	-	predicted gene, 19345	protein-coding	107.0	281.0	138.5	1173.5	319.5	111.0	96.5	71.0
Merged-chr16-16584836-4	chr16	16584741	16584941	+	861.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	15137.0	NM_001301817	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	12.5	10.5	4.0	106.5	16.5	12.5	14.5	6.0
Merged-chr3-35931903-3	chr3	35931805	35932005	+	756.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205361, intron 1 of 6)	intron (NM_001205361, intron 1 of 6)	429.0	NM_001205362	114893.0	Mm.374810	NM_033623	ENSMUSG00000027708	Dcun1d1	Rp42|SCCRO|Tes3|pTes3	DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)	protein-coding	7.5	2.5	5.5	148.0	27.5	7.5	6.5	13.0
Merged-chr7-126746275-4	chr7	126746163	126746363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-13363.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	101.5	117.0	66.0	1132.0	170.5	90.0	110.0	91.5
Merged-chr14-26639422-4	chr14	26639335	26639535	+	902.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	intron (NM_007479, intron 1 of 5)	1301.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	12.0	20.0	18.5	108.5	37.5	16.0	12.5	15.5
Merged-chr1-9907256-4	chr1	9907162	9907362	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1376.0	NM_177722	240697.0	Mm.259800	NM_177722	ENSMUSG00000046101	Mcmdc2	6030422M02Rik	minichromosome maintenance domain containing 2	protein-coding	13.0	27.0	6.0	286.0	42.0	14.0	27.0	26.5
Merged-chr5-93198400-4	chr5	93198282	93198482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017367, intron 2 of 6)	intron (NM_017367, intron 2 of 6)	8113.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	43.0	51.5	32.0	796.5	95.0	27.5	31.5	34.0
Merged-chr6-52158830-3	chr6	52158763	52158963	+	852.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311118)	promoter-TSS (NM_001311118)	339.0	NR_131181	105242658.0	Mm.372521	NR_131181	ENSMUSG00000087658	Hotairm1	Gm15051|Hoxaas1	Hoxa transcript antisense RNA, myeloid-specific 1	ncRNA	3.0	8.0	11.0	60.0	26.5	6.5	10.0	22.5
Merged-chr6-134635435-4	chr6	134635348	134635548	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2960.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	20.5	45.5	14.0	511.0	50.0	19.0	41.5	22.0
Merged-chr6-121077357-4	chr6	121077217	121077417	+	823.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270475, intron 1 of 31)	intron (NM_001270475, intron 1 of 31)	4310.0	NM_153396	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	2.5	10.0	9.5	116.0	26.5	12.0	5.5	10.5
Merged-chr15-76626996-4	chr15	76626897	76627097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305668)	promoter-TSS (NM_001305668)	-913.0	NM_001305668	66914.0	Mm.30028	NM_025842	ENSMUSG00000115987	Vps28	1110014J03Rik|CIIA|D730005C08Rik	vacuolar protein sorting 28	protein-coding	26.5	59.5	28.5	448.5	84.0	44.0	37.5	34.5
Merged-chr11-69998955-4	chr11	69998927	69999127	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001291127, exon 3 of 4)	exon (NM_001291127, exon 3 of 4)	1565.0	NM_001291127	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	21.0	6.5	13.0	64.5	29.5	14.0	10.0	18.0
Merged-chr8-126527473-3	chr8	126527369	126527569	+	940.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52404.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	13.5	16.5	18.0	329.0	25.5	2.0	7.0	8.5
Merged-chr15-100543902-4	chr15	100543774	100543974	+	960.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355497, intron 2 of 15)	IAPEY3-int|LTR|ERVK	8134.0	NM_033476	21422.0	Mm.219040	NM_033476	ENSMUSG00000009733	Tfcp2	CP-2|CP2|D230015P20Rik|LBP-1c|LBP-1d|LBP1|LSF|Tcfcp2|UBP-1	transcription factor CP2	protein-coding	25.5	35.0	18.0	145.0	75.5	25.5	19.0	26.5
Merged-chr9-55327422-4	chr9	55327311	55327511	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172923, intron 1 of 10)	intron (NM_172923, intron 1 of 10)	498.0	NM_001357568	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	11.0	68.0	11.0	53.0	31.0	16.0	1.0	3.0
Merged-chr4-56086449-4	chr4	56086353	56086553	+	786.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-553978.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	10.5	5.5	4.0	260.5	28.0	10.5	4.5	13.5
Merged-chr5-3432758-4	chr5	3432655	3432855	+	969.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 4 of 7)	intron (NM_009873, intron 4 of 7)	88862.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	20.0	35.5	17.0	168.5	66.5	14.5	27.5	23.0
Merged-chr15-63270563-3	chr15	63270465	63270665	+	977.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	209043.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	16.5	5.5	12.5	232.0	15.5	4.0	10.5	5.0
Merged-chr15-31336828-4	chr15	31336717	31336917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	(TG)n|Simple_repeat|Simple_repeat	30942.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	167.0	213.0	177.5	2837.0	347.5	142.0	176.0	153.5
Merged-chr12-51666865-3	chr12	51666746	51666946	+	846.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172098, intron 1 of 15)	intron (NM_001172098, intron 1 of 15)	-24120.0	NM_001329699	11782.0	Mm.386749	NM_021710	ENSMUSG00000020955	Ap4s1	AI314282	adaptor-related protein complex AP-4, sigma 1	protein-coding	11.0	9.5	12.5	110.0	16.5	10.0	3.5	5.5
Merged-chr14-54749512-4	chr14	54749427	54749627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	32359.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	28.5	25.5	35.5	638.5	41.5	19.0	33.0	28.5
Merged-chr6-116004199-3	chr6	116004095	116004295	+	887.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9190.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	3.0	8.0	2.5	100.0	18.5	11.5	6.0	15.5
Merged-chr14-54748479-3	chr14	54748376	54748576	+	834.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	33410.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	9.5	11.0	16.5	74.0	16.5	14.5	8.0	10.5
Merged-chr19-3687833-4	chr19	3687769	3687969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1305.0	NM_008513	16973.0	Mm.274581	NM_008513	ENSMUSG00000024913	Lrp5	BMND1|HBM|LR3|LRP7|OPPG|mKIAA4142	low density lipoprotein receptor-related protein 5	protein-coding	206.5	213.5	264.5	2327.0	420.5	189.0	247.5	220.5
Merged-chr11-5273037-4	chr11	5272951	5273151	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21B|LTR|ERV1	-11441.0	NM_032396	84035.0	Mm.209989	NM_032396	ENSMUSG00000020393	Kremen1	AV002070|Kremen|Krm1	kringle containing transmembrane protein 1	protein-coding	5.0	31.5	15.0	211.0	24.5	7.5	11.0	18.0
Merged-chr8-83859762-3	chr8	83859666	83859866	+	824.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-40332.0	NM_181039	330814.0	Mm.260733	NM_181039	ENSMUSG00000013033	Adgrl1	2900070I05Rik|AI182398|CLIBA|Lec2|Lphn1|mKIAA0821	adhesion G protein-coupled receptor L1	protein-coding	0.0	0.0	0.0	22.0	40.0	12.5	15.0	9.5
Merged-chr7-79822278-2	chr7	79822178	79822378	+	765.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_008486, exon 21 of 21)	exon (NM_008486, exon 21 of 21)	11551.0	NM_008589	17293.0	Mm.31472	NM_008589	ENSMUSG00000030543	Mesp2	bHLHc6	mesoderm posterior 2	protein-coding	3.5	7.5	5.5	33.0	20.5	5.5	5.0	8.0
Merged-chr9-14203973-1	chr9	14203873	14204073	+	696.0	f0_balb.idr	Intergenic	Intergenic	-72328.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	6.0	4.5	9.5	122.5	2.0	3.0	1.5	3.0
Merged-chr17-74457818-3	chr17	74457692	74457892	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 1 of 8)	intron (NM_001033367, intron 1 of 8)	1316.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	18.0	15.0	18.5	234.0	50.0	6.0	9.5	8.5
Merged-chr9-96391495-4	chr9	96391372	96391572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27041.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	17.5	21.0	23.0	363.5	64.0	26.5	47.5	41.5
Merged-chr7-29156182-4	chr7	29156093	29156293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146023)	promoter-TSS (NM_001146023)	17.0	NM_001146023	73833.0	Mm.260890	NM_028661	ENSMUSG00000030590	Fam98c	1110006G06Rik|AI836081|AV026483|B230110F21Rik	family with sequence similarity 98, member C	protein-coding	33.5	57.0	25.0	442.5	87.0	37.0	52.0	23.5
Merged-chr5-137836224-4	chr5	137836113	137836313	+	898.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153510)	promoter-TSS (NM_153510)	65.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	11.5	20.0	16.0	70.0	32.5	2.5	14.0	9.5
Merged-chr7-112000322-4	chr7	112000195	112000395	+	956.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-23211.0	NM_133758	74996.0	Mm.16974	NM_133758	ENSMUSG00000059263	Usp47	4930502N04Rik|A630020C16Rik	ubiquitin specific peptidase 47	protein-coding	3.5	11.0	9.0	218.5	53.5	16.0	25.5	26.5
Merged-chr11-116319207-4	chr11	116319083	116319283	+	976.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12433.0	NM_001347636	53413.0	Mm.22530	NM_016857	ENSMUSG00000020792	Exoc7	Exo70|sec70	exocyst complex component 7	protein-coding	25.5	26.0	10.5	332.5	61.0	41.0	19.5	33.0
Merged-chr11-53444069-4	chr11	53443969	53444169	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	10783.0	NM_008110	14566.0	Mm.9714	NM_008110	ENSMUSG00000018238	Gdf9	Gdf-9	growth differentiation factor 9	protein-coding	12.0	40.5	8.0	62.5	48.0	16.0	19.5	16.5
Merged-chr1-138262570-4	chr1	138262463	138262663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-11175.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	27.0	34.0	22.5	527.5	72.5	38.5	29.5	25.0
Merged-chr8-86884747-3	chr8	86884644	86884844	+	951.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	CpG	514.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	13.0	12.5	24.5	133.0	32.5	17.0	16.0	18.0
Merged-chr6-123175539-6	chr6	123175477	123175677	+	878.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004159, intron 2 of 5)	intron (NM_001004159, intron 2 of 5)	2554.0	NM_001004159	381809.0	Mm.333372	NM_001004159	ENSMUSG00000067767	Clec4b2	Aplra1|F830043G12Rik|mDCAR1	C-type lectin domain family 4, member b2	protein-coding	9.0	17.5	15.0	133.5	25.5	6.0	9.5	10.5
Merged-chr16-31070941-4	chr16	31070761	31070961	+	882.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 1 of 3)	intron (NM_198626, intron 1 of 3)	10571.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	5.5	10.0	13.5	93.0	14.5	12.5	9.5	9.5
Merged-chr7-75455518-4	chr7	75455418	75455618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029332)	promoter-TSS (NM_029332)	-16.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	150.5	284.5	162.5	3998.5	471.0	125.0	250.0	220.5
Merged-chr2-157139052-4	chr2	157138955	157139155	+	991.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3833.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	11.5	22.0	19.0	260.0	65.5	22.5	27.0	19.5
Merged-chr13-96011290-4	chr13	96011129	96011329	+	924.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029210, intron 4 of 12)	intron (NM_029210, intron 4 of 12)	-119307.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	3.0	20.0	19.0	219.0	9.5	5.0	17.0	11.5
Merged-chr2-90489116-4	chr2	90489016	90489216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-9942.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	75.0	119.0	79.5	1072.0	204.0	65.0	77.5	82.0
Merged-chr2-164866954-4	chr2	164866867	164867067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9259.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	180.5	226.5	132.5	2143.5	293.0	112.0	115.5	165.0
Merged-chr16-91464993-4	chr16	91464880	91465080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_077219)	promoter-TSS (NR_077219)	-124.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	157.0	254.0	151.5	2494.0	388.5	150.0	191.5	156.5
Merged-chr5-32881368-3	chr5	32881265	32881465	+	891.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360014, intron 7 of 40)	RMER6D|LTR|ERVK	17644.0	NM_001170567	277854.0	Mm.101524	NM_177786	ENSMUSG00000037426	Depdc5	AV016528	DEP domain containing 5	protein-coding	22.5	9.0	34.0	252.5	0.0	0.0	0.0	0.0
Merged-chr8-83332548-4	chr8	83332445	83332645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170691)	promoter-TSS (NM_001170691)	-59.0	NM_178736	244548.0	Mm.38762	NM_178736	ENSMUSG00000035151	Elmod2	9830169G11Rik	ELMO/CED-12 domain containing 2	protein-coding	224.0	354.5	177.5	2297.0	491.5	199.0	223.0	151.5
Merged-chr3-122629744-4	chr3	122629593	122629793	+	812.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9979.0	NM_001114665	214459.0	Mm.209491	NM_153118	ENSMUSG00000039735	Fnbp1l	2610318I01Rik|AW548221|TOCA1|toca-1	formin binding protein 1-like	protein-coding	12.0	1.0	1.0	97.0	28.0	11.5	13.5	17.0
Merged-chr11-94993014-2	chr11	94992918	94993118	+	719.333374	f0_balb.idr|f0_c57.idr	intron (NM_172261, intron 1 of 9)	intron (NM_172261, intron 1 of 9)	1806.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	14.5	24.0	8.0	89.0	27.0	17.0	4.0	9.0
Merged-chr8-60963000-4	chr8	60962905	60963105	+	950.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007711, intron 1 of 11)	intron (NM_007711, intron 1 of 11)	-8206.0	NM_173876	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	17.0	14.0	26.5	298.5	46.5	17.0	17.0	22.0
Merged-chr3-95644980-2	chr3	95644897	95645097	+	900.791626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-13724.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	4.5	6.5	10.0	6.5	20.0	9.0	9.0	7.0
Merged-chr7-99535052-4	chr7	99534975	99535175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177231)	promoter-TSS (NM_177231)	-411.0	NM_178220	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	30.0	31.5	15.5	402.5	52.0	8.0	8.5	26.5
Merged-chr17-64622481-4	chr17	64622360	64622560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	20811.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	145.0	211.0	142.0	2160.0	412.5	132.5	180.5	141.0
Merged-chr15-76477357-4	chr15	76477262	76477462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331154)	promoter-TSS (NM_001331154)	0.0	NM_001331153	15499.0	Mm.347444	NM_008296	ENSMUSG00000022556	Hsf1	AA960185|HSTF|HSTF 1|Hsf1alpha|Hsf1beta	heat shock factor 1	protein-coding	152.0	224.0	133.5	1500.5	378.0	164.5	167.5	107.0
Merged-chr5-117374951-7	chr5	117374824	117375024	+	996.160706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 5 of 8)	intron (NM_021539, intron 5 of 8)	14099.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	13.0	17.0	26.5	288.5	22.0	9.0	12.0	16.0
Merged-chr3-96501001-4	chr3	96500904	96501104	+	920.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24181.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	10.0	11.5	6.5	83.5	42.5	14.5	16.0	24.5
Merged-chr10-81406836-6	chr10	81406664	81406864	+	801.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 6 of 8)	intron (NM_026756, intron 6 of 8)	-2811.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	4.0	5.5	2.0	79.0	15.5	5.0	6.0	14.5
Merged-chr11-49060268-2	chr11	49060168	49060368	+	728.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001145164, intron 1 of 1)	intron (NM_001145164, intron 1 of 1)	3944.0	NM_001145164	100039796.0	Mm.482363	NM_001145164	ENSMUSG00000078921	Tgtp2	TGTP	T cell specific GTPase 2	protein-coding	8.0	9.0	4.0	31.0	11.5	11.5	9.0	5.5
Merged-chr1-179546308-4	chr1	179546166	179546366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146105)	promoter-TSS (NM_146105)	10.0	NM_001331054	15278.0	Mm.293529	NM_008249	ENSMUSG00000026492	Tfb2m	Hkp1	transcription factor B2, mitochondrial	protein-coding	168.0	321.0	210.0	2666.0	559.5	187.0	299.5	247.5
Merged-chr6-50588475-2	chr6	50588375	50588575	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027564, intron 4 of 9)	intron (NM_027564, intron 4 of 9)	8115.0	NM_027564	70821.0	Mm.157323	NM_027564	ENSMUSG00000029828	4921507P07Rik	TISP74	RIKEN cDNA 4921507P07 gene	protein-coding	6.5	8.0	2.0	71.0	13.5	13.5	6.5	12.0
Merged-chr11-61469046-4	chr11	61468939	61469139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15047.0	NM_001291024	22671.0	Mm.89201	NM_009548	ENSMUSG00000010086	Rnf112	ZNF179|Zfp179|bfp|neurolastin	ring finger protein 112	protein-coding	36.0	38.5	42.5	783.5	88.5	35.5	25.5	42.0
Merged-chr12-38860319-3	chr12	38860216	38860416	+	677.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347379, intron 10 of 11)	intron (NM_001347379, intron 10 of 11)	76605.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	5.5	7.5	8.0	85.5	3.0	1.0	7.0	0.0
Merged-chr17-25985774-4	chr17	25985684	25985884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347334)	promoter-TSS (NM_001347334)	12.0	NR_151779	50817.0	Mm.216072	NM_015830	ENSMUSG00000037326	Capn15	Solh	calpain 15	protein-coding	109.0	183.0	92.5	1374.5	254.5	99.5	112.0	94.0
Merged-chr11-40135215-3	chr11	40135106	40135306	+	972.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	557476.0	NM_134017	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	39.5	49.5	35.5	628.5	7.5	2.5	2.5	3.0
Merged-chr13-37581094-4	chr13	37581002	37581202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	235757.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	36.0	81.0	43.5	473.0	98.5	27.5	49.5	23.5
Merged-chr2-13559511-4	chr2	13559403	13559603	+	894.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14808.0	NM_011701	22352.0	Mm.268000	NM_011701	ENSMUSG00000026728	Vim	-	vimentin	protein-coding	13.0	19.5	13.5	215.0	26.0	8.5	16.0	13.5
Merged-chr5-134614542-3	chr5	134614451	134614651	+	723.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020044, intron 1 of 12)	intron (NM_020044, intron 1 of 12)	474.0	NM_022964	56743.0	Mm.391375	NM_020044	ENSMUSG00000040751	Lat2	AW125574|LAB|NTAL|WSCR5|Wbscr15|Wbscr5	linker for activation of T cells family, member 2	protein-coding	7.0	9.0	9.0	142.5	18.5	6.5	12.0	2.5
Merged-chr19-5841066-2	chr19	5840966	5841166	+	1000.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131212, exon 1 of 1)	non-coding (NR_131212, exon 1 of 1)	4412.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	5.5	20.0	9.0	59.5	14.0	9.5	3.0	10.0
Merged-chr12-17271491-4	chr12	17271372	17271572	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027959, intron 2 of 12)	ORR1D2|LTR|ERVL-MaLR	4877.0	NM_027959	71853.0	Mm.222825	NM_027959	ENSMUSG00000020571	Pdia6	1700015E05Rik|AL023058|C77895|CaBP5|P5|Txndc7	protein disulfide isomerase associated 6	protein-coding	19.0	29.0	15.0	321.0	28.5	21.0	10.5	14.5
Merged-chr2-170330006-4	chr2	170329908	170330108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26353.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	60.0	76.5	72.0	957.5	120.0	50.5	72.5	58.5
Merged-chr2-44926437-1	chr2	44926337	44926537	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-64815.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	22.5	43.5	22.0	231.0	55.5	21.5	20.5	12.5
Merged-chr1-173412121-4	chr1	173412039	173412239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-8465.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	94.5	161.0	116.0	1467.0	318.5	99.5	117.0	114.0
Merged-chr14-55734109-3	chr14	55734016	55734216	+	854.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11568.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	2.0	9.5	3.0	61.0	23.0	5.0	11.5	8.0
Merged-chr4-33018551-4	chr4	33018439	33018639	+	736.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027491, intron 6 of 6)	intron (NM_027491, intron 6 of 6)	12784.0	NR_036602	100504166.0	Mm.426309	NR_036602	ENSMUSG00000085037	4933421O10Rik	-	RIKEN cDNA 4933421O10 gene	ncRNA	4.5	7.0	2.0	179.0	22.5	10.0	10.5	7.5
Merged-chr2-6711266-4	chr2	6711164	6711364	+	921.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	L2|LINE|L2	10398.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	14.0	24.5	9.5	251.0	84.5	11.5	17.5	16.5
Merged-chr18-65328841-4	chr18	65328761	65328961	+	926.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037294, intron 4 of 12)	MER5A1|DNA|hAT-Charlie	65027.0	NM_001037294	225638.0	Mm.296528	NM_001037294	ENSMUSG00000032845	Alpk2	Gm549|Hak	alpha-kinase 2	protein-coding	12.0	61.0	30.0	129.5	36.0	11.5	18.0	12.0
Merged-chr16-23296985-4	chr16	23296889	23297089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	intron (NM_001252506, intron 1 of 6)	6519.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	72.5	124.0	98.5	1146.5	178.0	52.5	99.5	97.5
Merged-chr16-94569079-3	chr16	94568977	94569177	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1129.0	NM_007890	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	76.0	108.5	69.5	567.0	135.5	50.5	60.5	57.5
Merged-chr6-127582927-3	chr6	127582827	127583027	+	821.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033464, intron 1 of 6)	intron (NM_001033464, intron 1 of 6)	4952.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	5.0	10.0	15.5	143.5	11.0	6.0	5.0	4.5
Merged-chr10-25119256-4	chr10	25119153	25119353	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80917.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	28.0	56.0	31.0	642.0	62.0	15.0	32.0	28.0
Merged-chr17-72858403-4	chr17	72858304	72858504	+	816.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20356.0	NM_001357371	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	10.0	14.5	10.0	158.5	17.5	3.5	13.5	3.5
Merged-chr1-53816118-1	chr1	53816018	53816218	+	550.0	f0_balb.idr	intron (NM_001001883, intron 28 of 28)	intron (NM_001001883, intron 28 of 28)	-30903.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	6.5	5.0	5.5	77.0	9.5	2.5	5.0	0.0
Merged-chr7-80584227-4	chr7	80584121	80584321	+	855.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49102.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	6.5	17.0	9.5	106.5	31.0	13.0	11.0	10.0
Merged-chr15-59649965-4	chr15	59649898	59650098	+	980.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144549, intron 1 of 2)	intron (NM_144549, intron 1 of 2)	1344.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	11.0	25.0	16.5	193.5	20.5	9.5	16.5	20.5
Merged-chr7-130866419-6	chr7	130866363	130866563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133942, intron 1 of 9)	CpG	739.0	NM_001346515	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	17.0	16.0	23.0	166.5	14.5	9.0	12.0	27.0
Merged-chr16-95861506-3	chr16	95861401	95861601	+	900.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040484, intron 1 of 3)	intron (NR_040484, intron 1 of 3)	37212.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	11.0	13.0	8.0	113.0	17.5	3.5	14.5	8.0
Merged-chr7-126897520-4	chr7	126897406	126897606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026827, intron 1 of 5)	intron (NM_026827, intron 1 of 5)	772.0	NM_026827	68742.0	Mm.248646	NM_026827	ENSMUSG00000060538	Tmem219	1110032O16Rik|2900045G02Rik|IGFBP-3R	transmembrane protein 219	protein-coding	49.5	70.0	31.0	575.5	139.5	54.0	45.5	57.0
Merged-chr6-108773111-4	chr6	108773086	108773286	+	759.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9873.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	6.0	11.5	5.5	66.5	27.5	6.5	9.5	8.0
Merged-chr1-88567369-4	chr1	88567255	88567455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	15838.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	150.0	244.0	110.0	2370.5	393.0	174.5	219.0	158.0
Merged-chr1-125468143-4	chr1	125468015	125468215	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32388.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	14.0	16.5	8.0	271.0	55.0	21.5	11.5	15.5
Merged-chr10-43702605-4	chr10	43702469	43702669	+	840.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43589.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	18.0	29.0	13.5	199.5	33.5	13.5	15.0	14.0
Merged-chr6-15626325-4	chr6	15626235	15626435	+	831.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94326.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	12.0	10.0	11.5	81.0	19.0	4.0	13.5	11.0
Merged-chr5-21717385-4	chr5	21717249	21717449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-15727.0	NM_001359965	242864.0	Mm.153292	NM_178728	ENSMUSG00000044968	Napepld	A530089G06|Mbldc1|NAPE-PLD	N-acyl phosphatidylethanolamine phospholipase D	protein-coding	15.0	42.5	40.0	253.5	49.0	15.5	20.5	27.0
Merged-chr12-69458157-4	chr12	69458039	69458239	+	892.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17411.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	12.5	15.5	7.5	103.0	25.5	7.5	9.0	13.0
Merged-chr4-124672999-2	chr4	124672899	124673099	+	798.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15353.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	2.0	7.0	1.0	47.0	12.0	7.0	5.5	7.5
Merged-chr5-96860149-3	chr5	96860050	96860250	+	724.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-61122.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	12.0	7.0	8.5	153.0	5.0	4.0	5.5	3.0
Merged-chr10-75797844-4	chr10	75797771	75797971	+	792.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358778)	promoter-TSS (NM_001358778)	-140.0	NM_001358778	14871.0	Mm.2746	NM_008185	ENSMUSG00000001663	Gstt1	AI255817|Gstt1-1	glutathione S-transferase, theta 1	protein-coding	9.5	12.0	16.0	272.0	12.5	10.5	15.0	8.0
Merged-chr1-36961032-4	chr1	36960915	36961115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21488.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	72.5	94.0	70.0	976.5	170.0	46.0	71.5	77.5
Merged-chr9-70542744-4	chr9	70542627	70542827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025690)	promoter-TSS (NM_025690)	12.0	NM_025690	66660.0	Mm.22379	NM_025690	ENSMUSG00000032212	Sltm	5730455C01Rik|5730555F13Rik|9130215G10Rik|Met	SAFB-like, transcription modulator	protein-coding	170.0	210.0	142.0	1505.0	401.0	149.0	190.5	134.0
Merged-chr6-22459640-3	chr6	22459539	22459739	+	913.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR48B|LTR|ERV1	-103558.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	7.0	8.0	2.0	263.0	18.5	8.5	24.0	14.5
Merged-chr13-103703600-4	chr13	103703501	103703701	+	800.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136924, intron 1 of 3)	intron (NR_136924, intron 1 of 3)	4032.0	NR_136924	102632492.0	Mm.383874	NR_136924	ENSMUSG00000114206	Gm30551	Gm30710	predicted gene, 30551	ncRNA	6.0	13.5	5.5	182.0	29.5	7.0	16.5	10.5
Merged-chr3-131218478-3	chr3	131218373	131218573	+	888.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276403, intron 11 of 11)	intron (NM_001276403, intron 11 of 11)	53628.0	NM_008212	15107.0	Mm.260164	NM_008212	ENSMUSG00000027984	Hadh	AA409008|AU019341|AW742602|HCDH|Hadhsc|Schad	hydroxyacyl-Coenzyme A dehydrogenase	protein-coding	12.0	11.0	19.0	317.5	21.5	6.0	10.5	7.0
Merged-chr17-17375764-4	chr17	17375663	17375863	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025934, intron 1 of 9)	intron (NM_025934, intron 1 of 9)	1431.0	NM_025934	67045.0	Mm.35117	NM_025934	ENSMUSG00000023852	Riok2	2010110K24Rik|2410085M17Rik	RIO kinase 2	protein-coding	9.0	2.5	10.0	112.5	35.0	22.0	8.0	18.0
Merged-chr8-70856984-4	chr8	70856841	70857041	+	941.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032397)	promoter-TSS (NM_032397)	67.0	NM_032397	84036.0	Mm.32074	NM_032397	ENSMUSG00000002908	Kcnn1	AI854248|KCa2.1|SK1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	protein-coding	18.5	27.5	14.0	94.0	28.5	10.5	13.0	17.5
Merged-chr2-102914338-3	chr2	102914279	102914479	+	862.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12714.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	3.5	5.0	10.0	49.0	25.5	7.0	16.5	13.5
Merged-chr12-25099568-4	chr12	25099464	25099664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3472.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	64.5	96.5	75.0	1230.0	252.0	78.0	118.0	106.5
Merged-chr18-65376246-3	chr18	65376164	65376364	+	955.35553	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037294, intron 2 of 12)	intron (NM_001037294, intron 2 of 12)	17624.0	NM_001037294	225638.0	Mm.296528	NM_001037294	ENSMUSG00000032845	Alpk2	Gm549|Hak	alpha-kinase 2	protein-coding	9.5	50.5	16.5	190.0	17.5	6.0	5.5	5.5
Merged-chr10-67311609-4	chr10	67311496	67311696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26315.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	15.5	45.0	32.5	277.5	29.5	12.5	16.0	17.0
Merged-chr16-17759145-3	chr16	17759057	17759257	+	845.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145479)	promoter-TSS (NM_145479)	-464.0	NM_145479	224023.0	Mm.282807	NM_145479	ENSMUSG00000022750	Klhl22	2610318I18Rik|Kelchl	kelch-like 22	protein-coding	19.5	5.0	6.5	88.0	21.5	3.0	5.5	5.0
Merged-chr6-101555875-4	chr6	101555781	101555981	+	742.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177984.0	NM_018884	55983.0	Mm.321654	NM_018884	ENSMUSG00000035357	Pdzrn3	1110020C07Rik|AI429718|AL023082|LNX3|SEMACAP3|Semcap3	PDZ domain containing RING finger 3	protein-coding	11.0	14.5	4.5	69.5	35.0	12.5	3.0	10.0
Merged-chr3-51208902-4	chr3	51208800	51209000	+	893.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B|LTR|ERVK	-15547.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	38.0	38.5	23.0	242.5	72.5	18.5	17.0	14.0
Merged-chr17-50111245-4	chr17	50111142	50111342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	79255.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	50.5	67.5	46.0	849.5	55.0	21.0	38.0	20.5
Merged-chr9-45954488-5	chr9	45954368	45954568	+	907.3666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152206, exon 1 of 1)	non-coding (NR_152206, exon 1 of 1)	482.0	NR_152206	100101457.0	Mm.397964	NR_152206	ENSMUSG00000111329	A830035O19Rik	-	RIKEN cDNA A830035O19 gene	ncRNA	12.5	11.0	10.5	125.0	23.0	12.5	16.0	8.5
Merged-chr19-4012845-4	chr19	4012772	4012972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133666)	promoter-TSS (NM_133666)	-117.0	NM_133666	17995.0	Mm.29842	NM_133666	ENSMUSG00000037916	Ndufv1	CI-51kD	NADH dehydrogenase (ubiquinone) flavoprotein 1	protein-coding	86.5	130.5	86.5	1037.0	223.5	83.5	102.0	89.5
Merged-chr12-102173886-3	chr12	102173801	102174001	+	927.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172152, intron 2 of 16)	ORR1E|LTR|ERVL-MaLR	45174.0	NM_172152	238384.0	Mm.312448	NM_172152	ENSMUSG00000041771	Slc24a4	A930002M03Rik|AW492432|NCKX4	solute carrier family 24 (sodium/potassium/calcium exchanger), member 4	protein-coding	25.5	35.0	20.0	428.0	5.5	1.0	7.0	10.5
Merged-chr2-131510071-4	chr2	131509979	131510179	+	816.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 1 of 3)	intron (NM_001177840, intron 1 of 3)	18217.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	11.0	11.5	7.0	60.0	18.5	8.0	8.0	10.0
Merged-chr11-29190579-1	chr11	29190479	29190679	+	572.0	f0_balb.idr	intron (NM_134034, intron 4 of 15)	URR1A|DNA|hAT-Charlie	17672.0	NM_134034	104570.0	Mm.276386	NM_134034	ENSMUSG00000020463	Ppp4r3b	AW011752|AW557776|Smek2|mKIAA1387	protein phosphatase 4 regulatory subunit 3B	protein-coding	5.0	4.5	12.5	89.0	5.5	3.0	6.0	7.0
Merged-chr17-70728930-4	chr17	70728855	70729055	+	936.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	(CA)n|Simple_repeat|Simple_repeat	117822.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	10.5	24.5	19.0	234.0	24.5	7.0	4.0	19.0
Merged-chr15-84985943-4	chr15	84985833	84986033	+	967.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	2038.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	17.5	28.5	20.5	361.0	30.0	13.5	22.5	13.5
Merged-chr14-75181741-4	chr14	75181638	75181838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	45313.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	56.5	83.0	32.0	640.0	80.5	21.5	42.5	36.0
Merged-chr11-62221257-4	chr11	62221168	62221368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001281818, exon 15 of 15)	3' UTR (NM_001281818, exon 15 of 15)	-27716.0	NM_007413	11541.0	Mm.40740	NM_007413	ENSMUSG00000018500	Adora2b	A2BAR|A2BR|A2b|AA2BR|AI480866|AI605384	adenosine A2b receptor	protein-coding	21.0	55.0	39.5	461.5	58.0	23.5	50.5	32.0
Merged-chr15-84995713-2	chr15	84995584	84995784	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-7713.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	26.5	18.5	14.0	261.5	58.5	17.0	24.0	20.5
Merged-chr3-84820457-4	chr3	84820366	84820566	+	904.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 1 of 13)	MER58A|DNA|hAT-Charlie	4889.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	11.0	10.5	11.5	252.5	41.0	12.0	17.5	21.0
Merged-chr9-121301151-3	chr9	121301059	121301259	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	ORR1D2|LTR|ERVL-MaLR	3657.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	0.0	0.0	4.5	9.5	45.0	25.0	38.0	26.5
Merged-chr8-46876133-4	chr8	46876036	46876236	+	935.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110751.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	17.5	29.5	15.5	271.5	39.0	11.0	14.5	8.5
Merged-chr4-86576465-3	chr4	86576295	86576495	+	810.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178376, exon 1 of 1)	exon (NM_178376, exon 1 of 1)	722.0	NM_178376	68441.0	Mm.31178	NM_178376	ENSMUSG00000070934	Rraga	1300010C19Rik|AI255374|FIP-1|RAGA	Ras-related GTP binding A	protein-coding	5.0	10.0	4.5	78.5	14.5	1.5	4.0	7.0
Merged-chr15-81917785-2	chr15	81917685	81917885	+	681.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_030229, intron 4 of 5)	intron (NM_030229, intron 4 of 5)	8428.0	NM_030229	78929.0	Mm.215115	NM_030229	ENSMUSG00000022476	Polr3h	5031409G22Rik|RPC8	polymerase (RNA) III (DNA directed) polypeptide H	protein-coding	3.0	7.0	6.0	28.0	12.0	9.5	7.0	11.5
Merged-chr2-146214916-1	chr2	146214816	146215016	+	606.0	f1_balb.idr	Intergenic	Intergenic	-7081.0	NM_016889	53626.0	Mm.379070	NM_016889	ENSMUSG00000068154	Insm1	IA-1	insulinoma-associated 1	protein-coding	1.0	5.0	1.0	30.5	12.5	6.5	5.0	6.0
Merged-chr6-136497985-4	chr6	136497902	136498102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20849.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	48.0	94.0	42.0	784.0	185.5	63.5	65.5	54.5
Merged-chr17-29486035-3	chr17	29485909	29486109	+	805.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-5036.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	4.5	7.5	8.0	61.5	18.0	2.5	11.5	11.5
Merged-chr2-11503286-4	chr2	11503190	11503390	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	CpG	-1200.0	NM_001177757	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	32.5	36.0	42.5	618.5	44.5	11.5	27.0	34.5
Merged-chr19-37955638-4	chr19	37955517	37955717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 22 of 53)	intron (NM_001302140, intron 22 of 53)	87960.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	64.5	109.0	72.5	914.0	166.5	59.5	56.0	62.5
Merged-chr13-52580579-4	chr13	52580489	52580689	+	938.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2848.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	14.0	24.5	14.0	324.5	36.0	16.5	12.0	22.0
Merged-chr2-26911340-1	chr2	26911240	26911440	+	1000.0	f0_balb.idr	promoter-TSS (NM_011513)	promoter-TSS (NM_011513)	533.0	NM_013721	27176.0	Mm.328601	NM_013721	ENSMUSG00000062647	Rpl7a	Surf3	ribosomal protein L7A	protein-coding	6.0	11.5	17.0	136.0	36.0	8.0	12.0	15.0
Merged-chr19-4044348-3	chr19	4044254	4044454	+	890.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-2133.0	NM_181796	14869.0	Mm.441542	NM_181796	ENSMUSG00000038155	Gstp2	GSTpiA|Gst-3|Gst3	glutathione S-transferase, pi 2	protein-coding	12.5	17.5	2.5	49.5	17.0	8.5	6.0	7.5
Merged-chr15-79690609-4	chr15	79690516	79690716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013818)	promoter-TSS (NM_013818)	-280.0	NM_013818	14904.0	Mm.19080	NM_013818	ENSMUSG00000042535	Gtpbp1	AL022987|AW045683|C85212|GP-1|Gtpbp	GTP binding protein 1	protein-coding	332.5	492.5	328.5	4559.5	688.0	259.0	318.5	315.5
Merged-chr17-46153573-4	chr17	46153480	46153680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025649)	promoter-TSS (NM_025649)	-29.0	NM_025649	66591.0	Mm.272024	NM_025649	ENSMUSG00000034509	Mad2l1bp	0610009D16Rik|2510031P20Rik|AU018945|AW550977|C76045|CMT2A|CMT2B|Mad2lbp|mKIAA0110	MAD2L1 binding protein	protein-coding	52.0	64.0	51.5	649.5	130.5	40.0	66.5	32.5
Merged-chr12-10589871-4	chr12	10589771	10589971	+	851.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143483.0	NR_110487	328061.0	Mm.56067	NR_110487	ENSMUSG00000112792	Gm38407	4931412M21	predicted gene, 38407	ncRNA	9.0	16.0	12.0	105.0	22.0	5.0	12.0	9.5
Merged-chr7-72240208-3	chr7	72240109	72240309	+	706.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024703, intron 4 of 22)	intron (NM_001024703, intron 4 of 22)	66386.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	9.0	14.0	5.0	212.0	4.0	3.0	1.5	1.0
Merged-chr2-152226824-4	chr2	152226713	152226913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007788)	promoter-TSS (NM_007788)	-27.0	NM_007788	12995.0	Mm.23692	NM_007788	ENSMUSG00000074698	Csnk2a1	CK2|Csnk2a1-rs4	casein kinase 2, alpha 1 polypeptide	protein-coding	94.5	96.0	64.0	780.0	200.5	65.0	92.0	86.0
Merged-chr2-6238482-2	chr2	6238382	6238582	+	672.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 1 of 6)	intron (NR_040333, intron 1 of 6)	-25488.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	4.5	1.5	6.0	77.0	17.5	7.5	8.0	10.0
Merged-chr9-45953574-4	chr9	45953458	45953658	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152206)	promoter-TSS (NR_152206)	-428.0	NR_152206	100101457.0	Mm.397964	NR_152206	ENSMUSG00000111329	A830035O19Rik	-	RIKEN cDNA A830035O19 gene	ncRNA	46.0	43.5	33.5	533.0	54.5	10.5	20.0	36.5
Merged-chr10-128322456-4	chr10	128322378	128322578	+	996.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019953)	promoter-TSS (NM_019953)	19.0	NM_019953	56530.0	Mm.44220	NM_019953	ENSMUSG00000025381	Cnpy2	5330432A10Rik|AW229003|D10Bwg1546e|Tmem4|Zsig9	canopy FGF signaling regulator 2	protein-coding	27.0	32.0	24.5	230.5	62.0	17.0	19.5	32.0
Merged-chr8-25009817-4	chr8	25009710	25009910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270996, intron 1 of 21)	intron (NM_001270996, intron 1 of 21)	7112.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	29.0	63.5	31.0	686.5	123.5	63.0	49.0	56.5
Merged-chr11-113422660-7	chr11	113422531	113422731	+	981.642883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 5 of 9)	intron (NM_027216, intron 5 of 9)	143184.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	47.0	56.5	72.0	815.0	14.5	18.0	6.0	10.0
Merged-chr10-41937385-4	chr10	41937258	41937458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 12 of 17)	intron (NM_001034858, intron 12 of 17)	49919.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	19.0	35.0	30.5	234.5	58.5	20.5	31.0	20.0
Merged-chr8-23208905-2	chr8	23208818	23209018	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_018743)	promoter-TSS (NM_018743)	-465.0	NM_018743	102247.0	Mm.200898	NM_018743	ENSMUSG00000031545	Gpat4	AU041707|AW545732|Agpat6|Tsarg7	glycerol-3-phosphate acyltransferase 4	protein-coding	21.5	31.0	27.0	293.0	32.5	15.0	20.5	23.0
Merged-chr5-32135090-4	chr5	32134998	32135198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1374.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	82.5	140.0	55.0	1011.0	201.0	99.5	115.0	71.0
Merged-chr14-17410927-4	chr14	17410785	17410985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-250075.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	20.0	39.5	30.0	596.5	48.0	11.0	32.5	28.5
Merged-chr10-60745105-4	chr10	60744983	60745183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	intron (NM_023596, intron 2 of 5)	7699.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	37.0	27.0	28.5	265.5	45.0	27.0	40.5	28.0
Merged-chr3-13473124-4	chr3	13473041	13473241	+	866.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357036, exon 1 of 9)	5' UTR (NM_001357036, exon 1 of 9)	342.0	NM_001357036	76897.0	Mm.422625	NM_178631	ENSMUSG00000039717	Ralyl	0710005M24Rik	RALY RNA binding protein-like	protein-coding	14.0	10.0	30.0	204.0	14.0	4.0	6.5	12.0
Merged-chr5-103659796-2	chr5	103659696	103659896	+	872.025024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4064.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	1.0	16.5	2.5	69.5	44.0	4.5	6.5	6.0
Merged-chr9-75037654-4	chr9	75037561	75037761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021548)	promoter-TSS (NM_021548)	47.0	NR_152135	59046.0	Mm.247837	NM_021548	ENSMUSG00000007656	Arpp19	19kDa|2700024H10Rik|ARPP-19|AW559096|Arpp12	cAMP-regulated phosphoprotein 19	protein-coding	57.0	100.0	52.5	870.5	147.0	62.0	56.5	38.5
Merged-chr5-3152205-4	chr5	3152105	3152305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-191688.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	93.0	122.0	71.5	401.5	154.5	78.0	85.0	55.5
Merged-chr17-48262016-4	chr17	48261888	48262088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2307.0	NM_172623	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	39.0	84.0	48.5	411.0	103.5	33.0	39.5	22.0
Merged-chr3-144872184-3	chr3	144872086	144872286	+	995.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22884.0	NM_139148	229927.0	Mm.290600	NM_139148	ENSMUSG00000037033	Clca3b	Clca4	chloride channel accessory 3B	protein-coding	8.0	5.5	20.5	196.0	1.0	3.5	9.5	4.5
Merged-chr11-89989129-4	chr11	89989080	89989280	+	831.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316372, intron 2 of 4)	intron (NM_001316372, intron 2 of 4)	13714.0	NM_008796	18559.0	Mm.5062	NM_008796	ENSMUSG00000020553	Pctp	PC-TP|StarD2	phosphatidylcholine transfer protein	protein-coding	12.0	13.5	9.5	116.5	17.5	8.0	5.5	6.0
Merged-chr5-20860716-4	chr5	20860596	20860796	+	816.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172992, intron 1 of 17)	intron (NM_172992, intron 1 of 17)	21428.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	10.5	6.5	6.5	235.5	22.5	6.0	12.0	12.0
Merged-chr11-96937729-2	chr11	96937629	96937829	+	661.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_134021)	TTS (NM_134021)	6290.0	NM_134021	103711.0	Mm.254704	NM_134021	ENSMUSG00000018659	Pnpo	AI415282	pyridoxine 5'-phosphate oxidase	protein-coding	3.0	10.0	5.0	50.0	16.5	7.5	9.0	9.0
Merged-chr4-134551828-3	chr4	134551749	134551949	+	797.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029100, intron 1 of 11)	intron (NM_029100, intron 1 of 11)	317.0	NM_029100	74777.0	Mm.29773	NM_029100	ENSMUSG00000050989	Selenon	1110019I12Rik|AI414492|SelN|Sepn1	selenoprotein N	protein-coding	4.5	10.0	8.0	80.5	7.0	6.5	9.5	13.0
Merged-chr10-81430682-10	chr10	81430519	81430719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3446.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	26.5	47.5	36.5	287.5	82.0	27.0	28.5	25.0
Merged-chr10-51595328-4	chr10	51595236	51595436	+	958.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4876.0	NM_029894	77296.0	Mm.30588	NM_029894	ENSMUSG00000019909	Fam162b	9430073N08Rik	family with sequence similarity 162, member B	protein-coding	30.0	20.0	25.5	423.0	42.5	11.5	12.0	15.5
Merged-chr7-27581065-2	chr7	27580998	27581198	+	814.25	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175107, exon 10 of 10)	3' UTR (NM_175107, exon 10 of 10)	-10454.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	4.0	10.0	3.5	67.0	28.5	7.5	6.5	6.5
Merged-chr7-132686664-4	chr7	132686540	132686740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 6 of 6)	intron (NM_029609, intron 6 of 6)	75997.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	55.0	76.5	41.5	884.5	124.0	42.0	41.5	55.5
Merged-chr2-45236358-4	chr2	45236252	45236452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118910.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	159.5	233.0	155.0	1951.5	376.5	145.0	148.5	103.0
Merged-chr8-117158525-4	chr8	117158424	117158624	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081151, intron 1 of 10)	CpG	389.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	34.0	25.5	24.5	223.5	47.0	11.5	15.0	27.0
Merged-chr4-9110538-4	chr4	9110424	9110624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-158769.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	82.5	88.0	58.0	1152.5	206.0	41.5	75.0	64.0
Merged-chr5-149247283-4	chr5	149247190	149247390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17714.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	60.5	71.0	86.0	1275.0	160.5	50.5	67.0	68.0
Merged-chr8-39650172-4	chr8	39650054	39650254	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7476.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	72.5	91.5	52.5	932.0	91.0	32.0	30.5	19.5
Merged-chr1-135313793-4	chr1	135313692	135313892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360858)	promoter-TSS (NM_001360858)	-55.0	NM_001360858	21854.0	Mm.2368	NM_011590	ENSMUSG00000062580	Timm17a	Tim17a|mTim17a	translocase of inner mitochondrial membrane 17a	protein-coding	121.0	199.5	106.0	1867.0	368.5	101.5	167.0	114.5
Merged-chr19-9986073-8	chr19	9986010	9986210	+	865.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010239)	TTS (NM_010239)	3464.0	NM_010239	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	14.0	12.5	10.0	77.5	17.0	15.5	3.0	7.5
Merged-chr1-173753593-2	chr1	173753481	173753681	+	629.25	f0_balb.idr|f0_c57.idr	intron (NM_008329, intron 5 of 8)	intron (NM_008329, intron 5 of 8)	-11772.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	10.5	6.5	11.0	96.5	23.0	10.5	8.0	8.5
Merged-chr5-150598988-4	chr5	150598888	150599088	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001362416)	TTS (NM_001362416)	-4463.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	13.5	31.0	16.5	176.0	46.5	28.0	15.5	18.0
Merged-chr7-35595048-3	chr7	35594951	35595151	+	750.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152519, intron 2 of 28)	intron (NR_152519, intron 2 of 28)	8804.0	NR_152519	245886.0	Mm.272620	NM_145633	ENSMUSG00000034867	Ankrd27	AA408090|BC016493|D330003H11Rik|Varp	ankyrin repeat domain 27 (VPS9 domain)	protein-coding	7.5	13.0	9.0	131.5	1.0	1.0	1.0	2.0
Merged-chr5-113398183-3	chr5	113398069	113398269	+	902.1889039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40875.0	NM_001012726	503692.0	Mm.348794	NM_001012726	ENSMUSG00000053873	Aym1	-	activator of yeast meiotic promoters 1	protein-coding	10.0	15.0	26.5	383.5	11.5	1.0	10.5	1.0
Merged-chr10-117142145-2	chr10	117142045	117142245	+	625.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 1 of 9)	intron (NM_177798, intron 1 of 9)	6329.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	7.5	19.0	3.0	38.5	18.0	4.5	14.5	5.5
Merged-chr3-27283547-4	chr3	27283462	27283662	+	952.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33515.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	10.5	28.0	16.5	321.0	62.0	10.5	22.0	19.5
Merged-chr11-46842448-4	chr11	46842349	46842549	+	958.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 8 of 8)	(A)n|Simple_repeat|Simple_repeat	31650.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	19.5	16.5	55.5	582.0	45.0	10.0	28.5	25.5
Merged-chr10-98880909-4	chr10	98880815	98881015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-33727.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	117.5	159.0	105.5	1811.5	289.5	112.0	110.5	94.5
Merged-chr8-11466283-3	chr8	11466185	11466385	+	947.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-11644.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	4.5	11.5	18.0	126.0	13.5	6.5	3.5	7.0
Merged-chr5-28036992-1	chr5	28036892	28037092	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-34420.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	29.0	26.5	30.0	556.5	84.0	16.5	32.5	39.5
Merged-chr2-84820097-3	chr2	84819997	84820197	+	944.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024230, intron 1 of 7)	intron (NM_024230, intron 1 of 7)	2555.0	NM_024230	68678.0	Mm.33452	NM_024230	ENSMUSG00000027077	Smtnl1	1110030K22Rik|CHASM	smoothelin-like 1	protein-coding	12.0	22.5	24.0	163.0	1.0	2.0	1.0	4.5
Merged-chr16-36665133-6	chr16	36664963	36665163	+	952.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	1014.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	9.0	8.0	7.0	108.0	19.5	15.0	7.5	7.5
Merged-chr1-90975149-4	chr1	90975072	90975272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5552.0	NM_008998	19329.0	Mm.279780	NM_008998	ENSMUSG00000026304	Rab17	AW413472	RAB17, member RAS oncogene family	protein-coding	112.0	182.5	184.0	2106.0	198.5	96.0	104.0	69.0
Merged-chr1-72212273-4	chr1	72212175	72212375	+	968.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357488)	promoter-TSS (NM_001357488)	32.0	NM_001005423	381269.0	Mm.422636	NM_001005423	ENSMUSG00000039395	Mreg	Gm974|Wdt2|dsu	melanoregulin	protein-coding	21.5	25.5	19.5	404.0	42.5	17.0	24.5	14.5
Merged-chr1-53782518-4	chr1	53782403	53782603	+	917.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133810, intron 1 of 7)	intron (NM_133810, intron 1 of 7)	2712.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	10.5	9.0	18.5	183.5	18.0	7.5	18.0	13.0
Merged-chr10-60779864-4	chr10	60779771	60779971	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029770, intron 3 of 16)	intron (NM_029770, intron 3 of 16)	-27089.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	14.5	14.0	5.5	99.5	23.5	9.5	4.0	9.0
Merged-chr16-92410821-2	chr16	92410721	92410921	+	862.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	B1F|SINE|Alu	-10743.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	9.5	13.0	5.0	41.5	20.5	5.5	12.0	11.5
Merged-chr16-35919245-3	chr16	35919126	35919326	+	900.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19244.0	NM_030253	80285.0	Mm.49074	NM_030253	ENSMUSG00000022906	Parp9	ARTD9|AW214463|BC003281|Bagl|Bal|PARP-9	poly (ADP-ribose) polymerase family, member 9	protein-coding	4.0	10.5	6.5	100.0	25.0	12.5	4.5	7.5
Merged-chr2-154890276-3	chr2	154890183	154890383	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026030, intron 1 of 8)	intron (NM_026030, intron 1 of 8)	2623.0	NM_026030	67204.0	Mm.377134	NM_026030	ENSMUSG00000074656	Eif2s2	2810026E11Rik|38kDa|AA408636|AA571381|AA986487|AW822225|D2Ertd303e|EIF2|EIF2B	eukaryotic translation initiation factor 2, subunit 2 (beta)	protein-coding	3.0	14.0	5.0	88.5	17.5	10.0	5.0	6.0
Merged-chr14-104522671-4	chr14	104522557	104522757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026047)	promoter-TSS (NM_026047)	9.0	NM_026047	72486.0	Mm.291811	NM_026047	ENSMUSG00000022120	Rnf219	2610206B13Rik|2810449K13Rik|AI451544	ring finger protein 219	protein-coding	34.0	58.5	62.5	687.0	132.5	51.5	71.0	43.5
Merged-chr6-108733815-3	chr6	108733737	108733937	+	789.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49222.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	8.0	8.5	5.5	73.0	13.5	6.0	3.0	5.5
Merged-chr3-37139368-3	chr3	37139265	37139465	+	905.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13411.0	NM_008366	16183.0	Mm.14190	NM_008366	ENSMUSG00000027720	Il2	Il-2	interleukin 2	protein-coding	12.5	8.0	14.5	364.5	18.0	2.0	11.0	7.0
Merged-chr2-102942243-4	chr2	102942122	102942322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40557.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	170.0	233.5	175.5	2045.5	346.0	141.5	135.0	130.0
Merged-chr1-182909817-4	chr1	182909713	182909913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-44975.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	71.5	71.0	36.0	879.0	139.5	38.0	74.0	60.0
Merged-chr19-5952184-4	chr19	5952085	5952285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 7 of 17)	intron (NM_001164057, intron 7 of 17)	12021.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	76.0	186.5	80.0	1044.0	207.0	72.0	89.0	66.5
Merged-chr8-120572775-4	chr8	120572689	120572889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198671, exon 11 of 16)	exon (NM_198671, exon 11 of 16)	16286.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	48.0	28.0	48.0	658.5	65.0	26.5	25.0	28.0
Merged-chr4-136285504-4	chr4	136285403	136285603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009557)	promoter-TSS (NM_009557)	-564.0	NM_009557	22704.0	Mm.1504	NM_009557	ENSMUSG00000051351	Zfp46	AI426962|Mlz-4|Zfp-46|Znf436	zinc finger protein 46	protein-coding	65.5	75.5	41.0	754.0	213.0	51.5	97.5	69.0
Merged-chr17-78882567-4	chr17	78882465	78882665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011163)	promoter-TSS (NM_011163)	7.0	NM_011163	19106.0	Mm.378990	NM_011163	ENSMUSG00000024079	Eif2ak2	2310047A08Rik|4732414G15Rik|AI467567|AI747578|Pkr|Prkr|Tik	eukaryotic translation initiation factor 2-alpha kinase 2	protein-coding	41.5	49.0	28.5	741.5	117.5	26.5	61.5	34.5
Merged-chr10-117792298-1	chr10	117792198	117792398	+	854.6666869999999	f0_balb.idr	intron (NM_134010, intron 1 of 27)	CpG	407.0	NM_134010	103468.0	Mm.12568	NM_134010	ENSMUSG00000052798	Nup107	AW541137|C76801	nucleoporin 107	protein-coding	12.0	35.0	20.0	137.0	23.0	18.0	14.0	16.0
Merged-chr16-11176401-4	chr16	11176285	11176485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145931)	promoter-TSS (NM_145931)	8.0	NR_027502	106205.0	Mm.226860	NM_145931	ENSMUSG00000037965	Zc3h7a	A430104C18Rik|AI447294|AW556219|HSPC055|Zc3h7|Zc3hdc7	zinc finger CCCH type containing 7 A	protein-coding	174.5	266.5	179.5	2504.5	479.5	199.5	238.5	174.0
Merged-chr2-66158740-4	chr2	66158614	66158814	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33921.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	14.0	34.5	24.5	445.5	34.5	16.5	19.5	21.0
Merged-chr4-3677376-4	chr4	3677310	3677510	+	905.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010747)	promoter-TSS (NM_010747)	-711.0	NM_001111096	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	14.0	8.5	12.5	81.0	39.0	9.5	16.5	28.0
Merged-chr10-16621026-4	chr10	16620922	16621122	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	474760.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	16.5	20.5	20.0	441.0	62.0	18.5	35.5	23.0
Merged-chr2-39005905-2	chr2	39005805	39006005	+	759.666687	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025592)	promoter-TSS (NM_025592)	-774.0	NM_025592	66489.0	Mm.345333	NM_025592	ENSMUSG00000062997	Rpl35	2410039E09Rik	ribosomal protein L35	protein-coding	9.0	6.5	5.5	33.5	7.5	3.0	5.5	1.5
Merged-chr17-80553397-4	chr17	80553296	80553496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360144, intron 3 of 9)	intron (NM_001360144, intron 3 of 9)	10438.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	30.5	48.5	19.0	532.5	105.5	31.5	26.0	30.5
Merged-chr11-63921850-2	chr11	63921750	63921950	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_018805, exon 1 of 2)	exon (NM_018805, exon 1 of 2)	434.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	7.0	2.0	10.5	80.0	15.0	8.0	7.5	17.0
Merged-chr1-152021043-4	chr1	152020942	152021142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	MTD|LTR|ERVL-MaLR	69278.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	27.0	39.5	31.0	374.0	56.0	9.0	30.0	24.5
Merged-chr13-56631524-4	chr13	56631441	56631641	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 10 of 16)	intron (NR_155548, intron 10 of 16)	21955.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	17.0	30.0	9.5	300.0	100.0	19.5	27.5	29.5
Merged-chr5-99250485-2	chr5	99250390	99250590	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	2437.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	14.0	37.0	21.5	170.5	29.0	20.0	22.5	33.0
Merged-chr6-48537571-3	chr6	48537467	48537667	+	929.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347164)	promoter-TSS (NM_001347164)	-2.0	NM_001347164	76252.0	Mm.30214	NM_133764	ENSMUSG00000039347	Atp6v0e2	0610006O14Rik|NM9.2	ATPase, H+ transporting, lysosomal V0 subunit E2	protein-coding	67.5	92.5	45.0	867.0	5.5	2.0	1.0	2.0
Merged-chr15-30740923-4	chr15	30740826	30741026	+	866.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 9 of 21)	intron (NM_001355502, intron 9 of 21)	-298200.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	13.5	4.0	14.0	135.5	19.0	8.5	15.5	14.5
Merged-chr16-89959155-3	chr16	89959043	89959243	+	827.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145886, intron 1 of 27)	intron (NM_001145886, intron 1 of 27)	1684.0	NM_009384	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	7.5	8.0	5.5	127.5	21.5	0.5	5.0	4.0
Merged-chr13-85288567-4	chr13	85288477	85288677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145452, exon 1 of 25)	exon (NM_145452, exon 1 of 25)	909.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	30.0	33.5	55.5	311.5	46.5	22.0	27.0	18.5
Merged-chr1-91065086-4	chr1	91064980	91065180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 1 of 22)	intron (NM_008515, intron 1 of 22)	11636.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	53.5	47.0	43.0	801.5	92.5	27.5	41.5	54.5
Merged-chr11-100699756-2	chr11	100699656	100699856	+	947.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030150, intron 7 of 12)	PB1D10|SINE|Alu	4515.0	NM_030150	80861.0	Mm.271830	NM_030150	ENSMUSG00000017830	Dhx58	B430001I08Rik|D11Lgp2e|LPG2|Lgp2|RLR-3	DEXH (Asp-Glu-X-His) box polypeptide 58	protein-coding	11.5	8.5	3.0	49.5	19.0	4.5	7.5	21.5
Merged-chr9-25539523-4	chr9	25539444	25539644	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	57947.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	13.0	22.5	48.5	481.5	56.0	12.0	28.0	23.0
Merged-chr15-5185609-6	chr15	5185513	5185713	+	856.538879	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026213)	promoter-TSS (NM_026213)	53.0	NM_001355621	67515.0	Mm.254979	NM_026213	ENSMUSG00000022151	Ttc33	2410099M07Rik|2900001O04Rik|AI507072|AW538342|Osrf	tetratricopeptide repeat domain 33	protein-coding	5.0	10.0	17.5	139.5	17.5	7.5	11.0	14.0
Merged-chr17-21384256-1	chr17	21384156	21384356	+	616.0	f1_c57bl6.idr	intron (NM_172486, intron 1 of 3)	(CAA)n|Simple_repeat|Simple_repeat	508.0	NM_172486	210503.0	Mm.33443	NM_172486	ENSMUSG00000062743	Zfp677	A830058L05Rik|Tce8	zinc finger protein 677	protein-coding	12.5	14.0	9.0	136.0	24.0	14.5	13.0	20.5
Merged-chr4-130795673-2	chr4	130795573	130795773	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	3136.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	4.5	15.5	8.5	150.0	21.5	3.0	13.0	21.5
Merged-chr4-41740986-4	chr4	41740881	41741081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286605, intron 1 of 3)	CpG-9828	378.0	NM_001286540	18391.0	Mm.425181	NM_011014	ENSMUSG00000036078	Sigmar1	Oprs1|Sig1R|sigma1R	sigma non-opioid intracellular receptor 1	protein-coding	58.0	88.5	55.0	857.0	115.5	29.0	78.0	40.0
Merged-chr15-76660208-4	chr15	76660112	76660312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358912)	promoter-TSS (NM_001358912)	-4.0	NM_019396	54151.0	Mm.247752	NM_019396	ENSMUSG00000053929	Cyhr1	1110031M01Rik|AU042374|Chrp	cysteine and histidine rich 1	protein-coding	158.5	291.0	118.5	2045.5	390.0	164.5	210.5	141.5
Merged-chr4-109245834-3	chr4	109245715	109245915	+	668.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033226, intron 5 of 7)	intron (NM_001033226, intron 5 of 7)	10183.0	NM_001033226	108802.0	Mm.318248	NM_001033226	ENSMUSG00000028558	Calr4	4933403L16Rik|AU017583	calreticulin 4	protein-coding	9.0	29.0	8.5	116.5	4.0	2.5	3.5	3.5
Merged-chr3-9644436-4	chr3	9644340	9644540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34355.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	66.5	96.5	50.0	1185.5	126.0	42.0	66.5	74.5
Merged-chr2-172440511-4	chr2	172440414	172440614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025542)	promoter-TSS (NM_025542)	-64.0	NM_025542	66404.0	Mm.25157	NM_025542	ENSMUSG00000027502	Rtf2	1700067C04Rik|2410001C21Rik|5730427M17Rik|AA589417|Rtfdc1	replication termination factor 2	protein-coding	343.0	410.0	339.5	4544.5	472.5	138.0	201.0	134.5
Merged-chr16-36747957-4	chr16	36747859	36748059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37003.0	NM_001145899	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	75.0	104.5	81.5	1458.5	95.5	43.0	77.0	55.5
Merged-chr12-79885467-4	chr12	79885350	79885550	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	39283.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	24.5	52.0	39.5	390.5	58.0	18.0	30.5	18.5
Merged-chr15-93917088-4	chr15	93916965	93917165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045737, intron 2 of 3)	intron (NR_045737, intron 2 of 3)	10046.0	NR_045737	77248.0	Mm.410768	NR_045737	ENSMUSG00000116360	9430014N10Rik	-	RIKEN cDNA 9430014N10 gene	ncRNA	22.5	21.0	25.0	591.5	35.5	16.0	29.5	28.0
Merged-chr11-52223120-3	chr11	52223010	52223210	+	887.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8885.0	NM_011543	21402.0	Mm.42944	NM_011543	ENSMUSG00000036309	Skp1a	15kDa|2610043E24Rik|2610206H23Rik|EMC19|OCP-II|OCP2|SKP1|Tceb1l|p19A|p19Skp1	S-phase kinase-associated protein 1A	protein-coding	6.5	12.5	0.5	80.5	23.5	9.0	14.5	13.5
Merged-chr4-102499112-4	chr4	102499012	102499212	+	891.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177983, intron 4 of 5)	intron (NM_001177983, intron 4 of 5)	-70948.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	6.5	16.5	15.5	190.5	54.0	12.5	14.5	22.5
Merged-chr3-87929575-2	chr3	87929475	87929675	+	813.083374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177663)	promoter-TSS (NM_177663)	620.0	NM_153562	229503.0	Mm.296008	NM_153562	ENSMUSG00000004896	Rrnad1	-	ribosomal RNA adenine dimethylase domain containing 1	protein-coding	2.0	16.5	7.0	40.0	8.0	5.0	5.5	5.0
Merged-chr5-125180163-4	chr5	125180040	125180240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253904)	promoter-TSS (NM_001253904)	-926.0	NM_001253904	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	61.0	122.0	101.0	1481.5	92.0	42.0	66.0	45.5
Merged-chr2-34772550-4	chr2	34772429	34772629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163434, intron 2 of 8)	CpG	439.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	131.5	315.0	107.0	793.5	464.5	209.0	120.0	129.5
Merged-chr11-93887215-4	chr11	93887115	93887315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346525, intron 2 of 17)	intron (NM_001346525, intron 2 of 17)	996.0	NM_134012	103537.0	Mm.210334	NM_134012	ENSMUSG00000059474	Mbtd1	AA408199|AI194990|hemp	mbt domain containing 1	protein-coding	52.0	103.0	43.0	758.5	145.5	59.5	61.0	52.0
Merged-chr13-21168087-4	chr13	21167962	21168162	+	868.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11869.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	17.0	13.0	5.5	109.0	32.5	12.5	7.5	6.5
Merged-chr7-45515663-4	chr7	45515549	45515749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045555, intron 4 of 13)	intron (NM_001045555, intron 4 of 13)	1047.0	NM_001290998	56734.0	Mm.439742	NM_008807	ENSMUSG00000023467	Tulp2	Pdet	tubby-like protein 2	protein-coding	52.5	55.0	37.0	706.5	76.5	23.0	40.0	31.5
Merged-chr11-109362737-4	chr11	109362663	109362863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010303)	promoter-TSS (NM_010303)	-31.0	NM_010303	14674.0	Mm.193925	NM_010303	ENSMUSG00000020611	Gna13	AU024132|AU043124|Galpha13	guanine nucleotide binding protein, alpha 13	protein-coding	83.5	142.5	94.0	1116.5	374.0	136.0	132.5	154.5
Merged-chr5-105620673-4	chr5	105620581	105620781	+	961.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79288.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	18.5	51.5	10.5	194.5	81.0	33.0	19.0	14.0
Merged-chr9-83448008-3	chr9	83447895	83448095	+	938.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102437, intron 2 of 2)	intron (NR_102437, intron 2 of 2)	-6868.0	NM_029434	75782.0	Mm.199698	NM_027448	ENSMUSG00000032258	Lca5	4930431B11Rik|5730406O13Rik|AV274874|ORF64	Leber congenital amaurosis 5 (human)	protein-coding	11.5	16.5	16.0	132.0	17.5	3.5	7.0	11.5
Merged-chr6-72748649-4	chr6	72748536	72748736	+	883.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	intron (NM_001079822, intron 3 of 12)	40409.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	18.0	15.5	19.0	215.5	16.5	13.5	9.0	15.0
Merged-chr14-63413758-4	chr14	63413684	63413884	+	818.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 1 of 12)	intron (NM_007549, intron 1 of 12)	3403.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	15.0	8.5	18.5	276.0	19.0	2.5	8.5	12.5
Merged-chr18-77794698-4	chr18	77794611	77794811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152167, exon 3 of 3)	non-coding (NR_152167, exon 3 of 3)	161.0	NM_013831	19201.0	Mm.57174	NM_013831	ENSMUSG00000025429	Pstpip2	MAYP|cmo	proline-serine-threonine phosphatase-interacting protein 2	protein-coding	29.5	79.5	58.5	423.5	125.0	46.0	59.5	37.5
Merged-chr13-43806865-1	chr13	43806765	43806965	+	725.333313	f0_balb.idr	Intergenic	Intergenic	21753.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	6.5	7.0	7.0	107.5	0.5	1.0	0.5	1.5
Merged-chr7-71877349-2	chr7	71877248	71877448	+	628.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32347.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	5.0	9.0	6.0	39.5	3.5	0.5	1.0	1.5
Merged-chr6-58661162-4	chr6	58661071	58661271	+	917.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355477, intron 2 of 15)	intron (NM_001355477, intron 2 of 15)	64499.0	NM_011920	26357.0	Mm.333096	NM_011920	ENSMUSG00000029802	Abcg2	ABC15|ABCP|AI428558|BCRP|Bcrp1|MXR|MXR1	ATP binding cassette subfamily G member 2 (Junior blood group)	protein-coding	24.0	25.5	21.5	362.0	34.5	10.0	23.5	15.0
Merged-chr4-130800269-4	chr4	130800177	130800377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	7740.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	180.5	274.0	226.0	2783.5	389.5	179.5	244.5	192.5
Merged-chr19-3378789-4	chr19	3378681	3378881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 15 of 18)	intron (NM_013495, intron 15 of 18)	-10076.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	63.5	110.0	85.5	1027.5	191.0	74.5	87.0	55.5
Merged-chr15-59041809-4	chr15	59041682	59041882	+	968.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	40244.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	25.5	32.5	27.5	496.5	52.0	12.0	30.0	19.5
Merged-chr10-44686203-4	chr10	44686090	44686290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-227442.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	18.0	46.0	40.5	668.5	86.0	21.0	43.0	23.0
Merged-chr15-3213934-3	chr15	3213835	3214035	+	754.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56832.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	16.0	15.5	9.5	108.0	15.0	7.0	10.5	13.5
Merged-chr19-5810481-4	chr19	5810383	5810583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CTTG)n|Simple_repeat|Simple_repeat	-7811.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	150.0	209.5	169.0	2337.0	336.0	122.0	106.0	121.0
Merged-chr2-66192015-4	chr2	66191915	66192115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001047604, intron 25 of 28)	intron (NM_001047604, intron 25 of 28)	64602.0	NM_001047604	73668.0	Mm.250868	NM_001047604	ENSMUSG00000034848	Ttc21b	2410066K11Rik|Thm1|aln|mKIAA1992	tetratricopeptide repeat domain 21B	protein-coding	27.0	45.0	58.0	751.0	54.0	21.0	18.5	26.0
Merged-chr12-101718196-2	chr12	101718096	101718296	+	960.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001082976, intron 1 of 11)	CpG	327.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	6.0	3.5	8.5	63.0	15.0	6.0	5.5	12.5
Merged-chr18-46577672-4	chr18	46577577	46577777	+	839.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4a2|LINE|L1	-3144.0	NM_173394	225471.0	Mm.149280	NM_173394	ENSMUSG00000056130	Ticam2	B430113A10|TICAM-2|TRAM|Tirp|Trif	toll-like receptor adaptor molecule 2	protein-coding	14.0	51.5	11.5	62.0	36.5	10.5	5.5	6.5
Merged-chr6-125030677-4	chr6	125030526	125030726	+	919.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130997, intron 1 of 3)	intron (NR_130997, intron 1 of 3)	-9222.0	NM_133345	28019.0	Mm.262547	NM_133345	ENSMUSG00000030330	Ing4	D6Wsu147e|D6Xrf92|p29ING4	inhibitor of growth family, member 4	protein-coding	6.5	6.5	3.0	76.0	31.5	9.5	5.0	9.5
Merged-chr14-31181835-4	chr14	31181739	31181939	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022656, intron 13 of 20)	intron (NM_022656, intron 13 of 20)	-13198.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	30.0	36.0	104.0	714.5	29.5	16.5	26.5	27.5
Merged-chr19-11912912-4	chr19	11912812	11913012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172635, intron 1 of 18)	CpG	513.0	NM_172635	225929.0	Mm.42711	NM_172635	ENSMUSG00000046139	Patl1	AV312086|Pat1b	protein associated with topoisomerase II homolog 1 (yeast)	protein-coding	49.5	162.0	56.0	386.0	218.5	82.5	40.0	31.5
Merged-chr1-59634161-1	chr1	59634061	59634261	+	764.5	f0_balb.idr	exon (NM_001357842, exon 18 of 19)	exon (NM_001357842, exon 18 of 19)	36673.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	6.0	5.0	8.5	140.5	13.0	3.5	3.5	4.5
Merged-chr2-32966905-4	chr2	32966784	32966984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	3583.0	NR_002898	104367.0	Mm.250030	NR_002898	ENSMUSG00000065124	Snora65	MBII-351|Rnu65	small nucleolar RNA, H/ACA box 65	snoRNA	76.0	119.0	67.5	1131.5	209.0	81.0	86.0	73.0
Merged-chr16-4726391-4	chr16	4726286	4726486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136066)	promoter-TSS (NM_001136066)	25.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	74.0	78.0	50.0	931.5	125.5	53.0	61.0	76.5
Merged-chr4-137837990-4	chr4	137837868	137838068	+	915.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24269.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	74.0	39.0	60.0	775.5	15.5	6.5	11.5	20.0
Merged-chr11-101170505-3	chr11	101170404	101170604	+	889.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146030, intron 1 of 12)	CpG	798.0	NM_146030	217198.0	Mm.273254	NM_146030	ENSMUSG00000035172	Plekhh3	BC020025	pleckstrin homology domain containing, family H (with MyTH4 domain) member 3	protein-coding	3.5	11.0	4.0	69.5	13.0	5.0	9.0	10.5
Merged-chr11-86756944-4	chr11	86756775	86756975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	intron (NM_001003908, intron 1 of 31)	692.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	13.5	17.0	32.5	264.5	60.0	23.0	24.5	41.0
Merged-chr10-37204575-4	chr10	37204494	37204694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65668.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	53.0	58.5	57.5	642.0	79.5	49.5	30.5	36.0
Merged-chr1-87625469-4	chr1	87625388	87625588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	L1MB7|LINE|L1	5176.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	52.5	44.5	32.5	733.5	120.5	39.5	56.5	71.0
Merged-chr6-72380464-4	chr6	72380349	72380549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080742)	promoter-TSS (NM_001080742)	19.0	NM_001080742	53620.0	Mm.440321	NM_016872	ENSMUSG00000073002	Vamp5	AF119384|Camp	vesicle-associated membrane protein 5	protein-coding	49.5	68.0	73.5	717.5	139.5	54.0	52.5	62.5
Merged-chr11-87427479-2	chr11	87427379	87427579	+	810.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199293)	promoter-TSS (NM_001199293)	-112.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	6.5	7.5	10.5	50.5	1.0	4.0	7.5	11.5
Merged-chr9-65561148-4	chr9	65561031	65561231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 3 of 5)	intron (NM_153119, intron 3 of 5)	18956.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	72.0	85.0	52.0	860.5	146.5	47.0	69.5	42.5
Merged-chr17-5218188-2	chr17	5218088	5218288	+	858.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	200579.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	5.0	5.0	8.0	54.0	1.5	2.5	1.5	5.5
Merged-chr7-110774899-2	chr7	110774799	110774999	+	752.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009667, intron 1 of 14)	intron (NM_009667, intron 1 of 14)	2295.0	NM_009667	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	5.0	6.5	5.5	131.0	8.5	2.5	7.5	4.5
Merged-chr8-120108815-2	chr8	120108715	120108915	+	725.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5337.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	3.0	1.0	9.5	41.5	15.5	5.0	8.5	10.0
Merged-chr2-28468032-4	chr2	28467923	28468123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166031)	promoter-TSS (NM_001166031)	-43.0	NM_080452	118451.0	Mm.294951	NM_080452	ENSMUSG00000035772	Mrps2	1500019M10Rik	mitochondrial ribosomal protein S2	protein-coding	38.0	78.0	29.5	457.0	148.5	38.5	55.5	35.5
Merged-chr15-6574722-4	chr15	6574527	6574727	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5220.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	11.0	15.5	3.5	87.5	15.0	6.0	4.5	7.0
Merged-chr13-94794282-4	chr13	94794163	94794363	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009321, intron 1 of 3)	intron (NM_009321, intron 1 of 3)	5320.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	13.5	13.5	5.0	123.0	22.5	2.0	17.5	14.5
Merged-chr17-36262028-4	chr17	36261914	36262114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357889)	TTS (NM_001357889)	-4168.0	NM_026308	67676.0	Mm.27131	NM_026308	ENSMUSG00000024446	Rpp21	0610037N01Rik	ribonuclease P 21 subunit	protein-coding	30.0	37.0	25.0	505.0	135.5	44.0	58.5	36.0
Merged-chr5-90862120-4	chr5	90862019	90862219	+	878.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29126.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	24.0	12.0	12.0	313.0	21.0	3.0	9.0	16.5
Merged-chr4-134099440-4	chr4	134099341	134099541	+	939.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	-3142.0	NR_045571	67586.0	Mm.282029	NM_026257	ENSMUSG00000012126	Ubxn11	4930506L07Rik|D4Bwg1540e|Soc|Soci|Ubxd5	UBX domain protein 11	protein-coding	17.0	34.5	7.5	123.5	93.0	32.0	43.5	33.5
Merged-chr1-128549699-4	chr1	128549626	128549826	+	851.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	42573.0	NM_009911	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	7.5	12.0	20.0	148.5	24.0	10.0	10.0	8.0
Merged-chr1-92742534-4	chr1	92742401	92742601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89144.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	48.0	62.5	59.0	1036.5	81.0	32.0	39.5	43.0
Merged-chr7-123322611-4	chr7	123322519	123322719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 4 of 19)	intron (NM_001316713, intron 4 of 19)	47296.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	163.0	207.0	181.5	2838.0	422.0	131.5	215.0	184.5
Merged-chr9-95641333-4	chr9	95641233	95641433	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 2 of 8)	intron (NM_029620, intron 2 of 8)	3705.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	19.0	24.5	10.0	315.5	53.5	9.0	16.0	28.0
Merged-chr4-126096635-4	chr4	126096544	126096744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138721)	promoter-TSS (NM_138721)	-9.0	NM_001163266	116748.0	Mm.41865	NM_138721	ENSMUSG00000050188	Lsm10	-	U7 snRNP-specific Sm-like protein LSM10	protein-coding	115.0	211.0	106.0	1511.5	375.0	143.5	194.0	141.0
Merged-chr2-37970163-4	chr2	37970106	37970306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 11 of 21)	intron (NM_146122, intron 11 of 21)	193957.0	NM_001163566	241324.0	Mm.392369	NM_001163566	ENSMUSG00000035403	Crb2	5930402A21|BC043114	crumbs family member 2	protein-coding	32.5	65.0	41.0	497.0	59.0	21.5	23.0	23.5
Merged-chr8-25275247-4	chr8	25275127	25275327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31043.0	NR_040352	74489.0	Mm.256468	NR_040352	ENSMUSG00000110140	5430421F17Rik	-	RIKEN cDNA 5430421F17 gene	ncRNA	35.5	94.0	32.5	372.0	118.5	45.5	32.0	25.5
Merged-chr8-72261246-4	chr8	72261141	72261341	+	859.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21223.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	9.0	8.5	6.5	156.0	29.5	12.0	12.0	15.5
Merged-chr8-107066331-3	chr8	107066258	107066458	+	833.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025458)	promoter-TSS (NM_025458)	-714.0	NM_025458	66269.0	Mm.23032	NM_025458	ENSMUSG00000031919	Tmed6	1810015P03Rik|1810018I24Rik	transmembrane p24 trafficking protein 6	protein-coding	25.0	17.0	21.5	240.5	4.5	2.0	1.5	2.0
Merged-chr14-21751831-1	chr14	21751731	21751931	+	705.0	f1_c57bl6.idr	intron (NM_001359953, intron 1 of 5)	intron (NM_001359953, intron 1 of 5)	279.0	NM_001359953	67630.0	Mm.102765	NM_026283	ENSMUSG00000021770	Samd8	1110053F04Rik|1700010P07Rik|SMSr	sterile alpha motif domain containing 8	protein-coding	6.0	2.5	1.5	34.0	13.0	6.0	4.5	8.5
Merged-chr1-67477318-3	chr1	67477213	67477413	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	354286.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	6.5	7.0	12.0	233.0	23.5	6.5	7.0	15.5
Merged-chr7-45538720-5	chr7	45538510	45538710	+	974.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148927, intron 8 of 19)	intron (NM_148927, intron 8 of 19)	12280.0	NM_148927	69217.0	Mm.274158	NM_148927	ENSMUSG00000040428	Plekha4	2410005C22Rik|C88169|Pepp1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4	protein-coding	18.0	29.0	23.5	149.5	20.0	8.0	6.5	10.0
Merged-chr18-62045690-4	chr18	62045612	62045812	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	92637.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	8.5	5.5	3.0	133.0	74.0	31.0	47.0	44.5
Merged-chr5-101972830-4	chr5	101972732	101972932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 4 of 66)	B2_Mm2|SINE|B2	97089.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	56.0	62.0	33.5	474.5	103.0	55.5	41.0	64.5
Merged-chr14-120278454-4	chr14	120278346	120278546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	2777.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	71.5	79.0	68.0	1236.0	170.5	54.0	63.0	80.5
Merged-chr9-56324780-3	chr9	56324668	56324868	+	714.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 2 of 6)	intron (NM_172924, intron 2 of 6)	93282.0	NM_172924	244895.0	Mm.490331	NM_172924	ENSMUSG00000074305	Peak1	1110049L02Rik|9530046P14|AA690169|BE132841|C230081A13Rik|SGK269|mKIAA2002	pseudopodium-enriched atypical kinase 1	protein-coding	9.5	13.5	11.0	142.5	19.0	10.5	10.0	10.0
Merged-chr13-10100894-2	chr13	10100794	10100994	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 3 of 4)	intron (NM_033269, intron 3 of 4)	259909.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	5.0	5.0	9.0	240.0	19.5	5.0	10.0	6.0
Merged-chr1-189807127-2	chr1	189807040	189807240	+	611.700012	f0_c57.idr|f1_c57bl6.idr	intron (NM_008976, intron 3 of 18)	intron (NM_008976, intron 3 of 18)	78872.0	NM_008976	19250.0	Mm.4498	NM_008976	ENSMUSG00000026604	Ptpn14	C130080N23Rik|PTP36	protein tyrosine phosphatase, non-receptor type 14	protein-coding	0.0	0.0	2.0	0.5	23.5	8.5	15.5	13.5
Merged-chr14-20731428-4	chr14	20731349	20731549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010811, intron 2 of 14)	intron (NM_010811, intron 2 of 14)	3113.0	NM_010811	17423.0	Mm.4084	NM_010811	ENSMUSG00000039308	Ndst2	Mndns|NDST-2	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 2	protein-coding	121.5	205.5	108.5	2514.5	316.5	137.5	164.5	158.0
Merged-chr1-54910970-3	chr1	54910871	54911071	+	697.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	15416.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	11.0	7.5	5.0	100.5	10.0	5.0	2.0	5.0
Merged-chr4-129820710-4	chr4	129820605	129820805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164745)	promoter-TSS (NM_001164745)	-3.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	56.5	81.0	42.0	580.0	122.0	35.0	45.5	51.5
Merged-chr11-6436638-2	chr11	6436538	6436738	+	786.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_029938, intron 2 of 4)	B3A|SINE|B2	7805.0	NM_029938	77605.0	Mm.27624	NM_029938	ENSMUSG00000041126	H2afv	C530002L11Rik|H2a.z-2|H2av|Tg(Wnt1-cre)11Rth|Wnt1-Cre|Wnt1::Cre|Wnt1cre	H2A histone family, member V	protein-coding	5.5	7.5	1.0	36.5	12.0	4.5	4.5	5.0
Merged-chr2-117231444-4	chr2	117231355	117231555	+	963.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18284.0	NM_026620	68215.0	Mm.219389	NM_026620	ENSMUSG00000027349	Fam98b	2610510H03Rik	family with sequence similarity 98, member B	protein-coding	28.5	23.0	15.5	337.0	46.5	13.5	30.0	13.5
Merged-chr7-122813974-4	chr7	122813872	122814072	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	142228.0	NM_019430	54376.0	Mm.444212	NM_019430	ENSMUSG00000066189	Cacng3	-	calcium channel, voltage-dependent, gamma subunit 3	protein-coding	20.5	31.0	12.0	286.5	66.0	9.5	39.5	22.5
Merged-chr15-86167990-4	chr15	86167892	86168092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-17736.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	47.5	60.5	82.0	1257.0	129.0	25.5	53.5	57.5
Merged-chr11-83473070-4	chr11	83473013	83473213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027427)	promoter-TSS (NM_027427)	5.0	NM_027427	70439.0	Mm.181050	NM_027427	ENSMUSG00000020680	Taf15	2610111C21Rik|68kDa|TAFII68|Taf2n	TATA-box binding protein associated factor 15	protein-coding	127.0	238.0	95.0	1783.0	281.5	98.5	112.5	122.5
Merged-chr5-52383899-4	chr5	52383791	52383991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256059, intron 11 of 11)	intron (NM_001256059, intron 11 of 11)	20087.0	NM_011435	20657.0	Mm.2407	NM_011435	ENSMUSG00000072941	Sod3	AI314465|EC-SOD	superoxide dismutase 3, extracellular	protein-coding	70.5	95.5	79.0	1506.0	332.0	104.5	132.0	117.5
Merged-chr19-59239591-4	chr19	59239459	59239659	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19911.0	NM_207261	332396.0	Mm.329947	NM_207261	ENSMUSG00000040901	Kcnk18	Gm781|Tresk|Tresk-2|Trik	potassium channel, subfamily K, member 18	protein-coding	5.0	19.0	10.5	143.0	32.5	9.0	12.0	13.0
Merged-chr10-128335759-3	chr10	128335661	128335861	+	857.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1966.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	6.0	14.0	5.5	70.5	16.5	10.0	8.5	8.5
Merged-chr4-109505072-4	chr4	109504977	109505177	+	884.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199090)	TTS (NM_001199090)	26127.0	NM_001199090	67646.0	Mm.45820	NM_026291	ENSMUSG00000060491	4930522H14Rik	1700007J23Rik	RIKEN cDNA 4930522H14 gene	protein-coding	8.0	20.5	9.5	199.5	43.5	11.0	20.0	23.5
Merged-chr5-151187168-4	chr5	151187075	151187275	+	923.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153382, intron 1 of 13)	intron (NR_153382, intron 1 of 13)	3018.0	NM_001163493	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	10.0	7.5	20.5	292.5	37.5	14.0	18.0	27.0
Merged-chr7-43444036-4	chr7	43443943	43444143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026695)	promoter-TSS (NM_026695)	-29.0	NM_026695	110826.0	Mm.30200	NM_026695	ENSMUSG00000004610	Etfb	0610009I16Rik|2810441H06Rik	electron transferring flavoprotein, beta polypeptide	protein-coding	260.5	338.5	215.5	3573.0	623.5	214.5	315.5	213.5
Merged-chr3-97204072-4	chr3	97203972	97204172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029933, exon 10 of 10)	3' UTR (NM_029933, exon 10 of 10)	23292.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	50.0	53.0	37.5	651.5	85.5	35.0	32.5	33.5
Merged-chr6-88198673-4	chr6	88198559	88198759	+	862.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008090)	promoter-TSS (NM_008090)	-5.0	NM_008090	14461.0	Mm.491156	NM_008090	ENSMUSG00000015053	Gata2	Gata-2	GATA binding protein 2	protein-coding	4.0	14.5	8.0	170.5	31.0	16.0	18.5	15.0
Merged-chr9-95693849-4	chr9	95693732	95693932	+	820.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 7 of 8)	intron (NM_029620, intron 7 of 8)	56204.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	3.5	10.5	8.5	114.0	25.0	4.5	10.5	8.5
Merged-chr2-101767381-4	chr2	101767267	101767467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 3 of 8)	intron (NM_001355625, intron 3 of 8)	30340.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	24.0	28.5	25.5	195.0	33.0	17.0	18.0	23.5
Merged-chr11-115653706-4	chr11	115653609	115653809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 3 of 5)	intron (NM_001313936, intron 3 of 5)	-25414.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	24.5	35.5	30.0	615.0	39.5	5.5	22.5	22.0
Merged-chr14-57398552-4	chr14	57398447	57398647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030004)	promoter-TSS (NM_030004)	-64.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	127.5	190.0	117.0	2445.0	306.5	100.5	181.5	135.0
Merged-chr6-72868957-3	chr6	72868868	72869068	+	809.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019715, intron 1 of 6)	intron (NM_019715, intron 1 of 6)	30324.0	NM_001347231	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	9.0	10.0	11.0	130.0	19.5	5.0	8.5	10.5
Merged-chr6-106458879-1	chr6	106458779	106458979	+	814.666687	f0_balb.idr	intron (NM_001109749, intron 8 of 25)	intron (NM_001109749, intron 8 of 25)	290158.0	NM_008370	16192.0	Mm.3448	NM_008370	ENSMUSG00000005364	Il5ra	CD125|CDw125|Il5r	interleukin 5 receptor, alpha	protein-coding	9.5	10.5	7.5	141.5	5.5	1.0	7.5	1.0
Merged-chr11-86356702-4	chr11	86356602	86356802	+	914.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080931, intron 1 of 29)	intron (NM_001080931, intron 1 of 29)	823.0	NM_001080931	327987.0	Mm.341886	NM_001080931	ENSMUSG00000034297	Med13	1110067M05Rik|D030023K18|Thrap1|Trap240	mediator complex subunit 13	protein-coding	13.5	19.0	2.0	192.5	27.5	10.5	11.0	14.5
Merged-chr11-59219194-4	chr11	59219095	59219295	+	711.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007476, intron 1 of 4)	B3A|SINE|B2	8967.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	14.5	15.5	4.5	112.5	16.0	4.0	8.0	15.0
Merged-chr10-83819833-3	chr10	83819739	83819939	+	687.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96974.0	NM_001145198	69784.0	Mm.271188	NM_001145198	ENSMUSG00000087651	1500009L16Rik	2700050C19Rik|OCC-1	RIKEN cDNA 1500009L16 gene	protein-coding	9.5	6.5	1.0	119.0	18.5	7.5	9.0	10.5
Merged-chr4-33246153-4	chr4	33246062	33246262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033225, exon 2 of 2)	exon (NM_001033225, exon 2 of 2)	2625.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	37.5	54.5	83.0	889.5	159.5	37.5	97.5	46.0
Merged-chr3-65956115-3	chr3	65955988	65956188	+	810.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355433, intron 3 of 11)	intron (NM_001355433, intron 3 of 11)	2161.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	13.5	16.5	7.0	76.0	14.0	1.5	6.0	8.5
Merged-chr7-116094306-3	chr7	116094214	116094414	+	630.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019772, intron 1 of 4)	intron (NM_019772, intron 1 of 4)	934.0	NM_019772	56372.0	Mm.24231	NM_019772	ENSMUSG00000030663	1110004F10Rik	Smacp|Smap|sid2057|sid2057p	RIKEN cDNA 1110004F10 gene	protein-coding	5.0	11.5	6.0	142.0	20.5	4.5	5.0	7.5
Merged-chr13-20184865-4	chr13	20184800	20185000	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	94393.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	10.5	19.5	11.5	57.0	32.5	12.5	9.0	11.0
Merged-chr10-84516604-4	chr10	84516500	84516700	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17288.0	NM_175451	216197.0	Mm.334999	NM_175451	ENSMUSG00000046841	Ckap4	5630400A09Rik|CLIMP-63|P63	cytoskeleton-associated protein 4	protein-coding	21.5	10.5	24.0	492.0	56.5	15.5	20.5	24.5
Merged-chr8-68880552-4	chr8	68880435	68880635	+	949.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008509)	promoter-TSS (NM_008509)	-20.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	10.5	14.0	30.5	465.5	35.0	14.5	28.5	26.0
Merged-chr6-115380993-4	chr6	115380890	115381090	+	851.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 1 of 7)	intron (NM_001308354, intron 1 of 7)	18641.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	9.0	13.0	6.0	97.0	22.0	6.0	13.0	12.0
Merged-chr17-56298637-4	chr17	56298547	56298747	+	834.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029799, intron 1 of 2)	B2_Mm2|SINE|B2	1639.0	NM_029799	76920.0	Mm.329132	NM_029799	ENSMUSG00000073380	Arrdc5	1700013E09Rik	arrestin domain containing 5	protein-coding	6.5	17.5	7.5	143.5	39.0	8.5	9.0	14.0
Merged-chr1-152838252-4	chr1	152838190	152838390	+	875.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001359257, exon 24 of 24)	3' UTR (NM_001359257, exon 24 of 24)	38137.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	15.0	6.0	8.0	127.5	15.5	5.0	11.5	8.0
Merged-chr19-5389774-3	chr19	5389643	5389843	+	681.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033224, exon 1 of 1)	non-coding (NR_033224, exon 1 of 1)	-1040.0	NM_016882	20227.0	Mm.34562	NM_016882	ENSMUSG00000039148	Sart1	U5-110K	squamous cell carcinoma antigen recognized by T cells 1	protein-coding	7.5	5.0	8.0	44.0	14.0	8.5	3.0	5.5
Merged-chr2-137881192-4	chr2	137881103	137881303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-375381.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	42.0	49.5	60.5	820.0	66.5	29.5	53.5	38.5
Merged-chr17-40790037-4	chr17	40789950	40790150	+	961.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204071, intron 4 of 9)	MLT1D|LTR|ERVL-MaLR	4096.0	NM_001204071	22024.0	Mm.1296	NM_009420	ENSMUSG00000023930	Crisp2	CRISP-2|GAPDL5|Tpx-1|Tpx1	cysteine-rich secretory protein 2	protein-coding	34.0	21.5	31.0	766.5	65.5	13.0	37.5	24.0
Merged-chr2-102897607-1	chr2	102897507	102897707	+	625.5	f0_balb.idr	intron (NM_001039150, intron 1 of 13)	Lx5|LINE|L1	4058.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	7.5	8.0	5.5	91.5	19.5	6.5	9.5	5.0
Merged-chr16-44242780-4	chr16	44242601	44242801	+	964.792847	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198034, intron 24 of 24)	intron (NM_198034, intron 24 of 24)	69304.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	6.5	10.5	1.5	157.0	28.0	15.5	13.5	12.0
Merged-chr2-11331718-4	chr2	11331619	11331819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7770.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	23.0	20.5	25.0	350.0	69.0	11.0	21.0	29.0
Merged-chr19-38022898-4	chr19	38022790	38022990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 2 of 53)	intron (NM_001302140, intron 2 of 53)	20687.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	90.5	139.0	153.5	1355.0	130.5	71.5	82.5	58.0
Merged-chr6-32570103-3	chr6	32570009	32570209	+	764.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	18083.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	5.0	20.0	9.0	149.0	18.5	5.5	1.5	4.0
Merged-chr12-81755799-2	chr12	81755699	81755899	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001174107, intron 2 of 10)	intron (NM_001174107, intron 2 of 10)	25371.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	9.5	30.0	8.5	19.0	21.5	12.5	4.5	2.5
Merged-chr2-152789683-4	chr2	152789575	152789775	+	976.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	35502.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	16.5	18.0	11.0	305.5	66.0	17.0	13.5	25.0
Merged-chr1-131957922-3	chr1	131957813	131958013	+	930.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5002.0	NM_001177628	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	17.5	7.5	13.0	308.0	14.5	7.5	10.0	7.5
Merged-chr15-39907267-1	chr15	39907167	39907367	+	868.0	f0_balb.idr	intron (NM_172814, intron 1 of 6)	intron (NM_172814, intron 1 of 6)	36727.0	NM_001347036	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	6.0	18.5	13.5	143.0	12.0	2.5	2.5	7.5
Merged-chr11-97547105-5	chr11	97547007	97547207	+	800.266663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 3 of 19)	CpG	28019.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	5.0	8.5	6.5	42.0	13.5	4.0	9.5	10.5
Merged-chr17-50675418-4	chr17	50675373	50675573	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 5 of 5)	intron (NM_013880, intron 5 of 5)	-23208.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	9.5	17.5	24.0	275.0	32.5	18.5	13.0	15.5
Merged-chr3-122888638-4	chr3	122888505	122888705	+	887.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046036, intron 5 of 5)	intron (NR_046036, intron 5 of 5)	-6467.0	NM_007980	14079.0	Mm.28398	NM_007980	ENSMUSG00000023057	Fabp2	Fabpi|I-FABP	fatty acid binding protein 2, intestinal	protein-coding	4.5	5.5	14.5	201.0	2.5	2.5	3.5	13.0
Merged-chr4-139616276-3	chr4	139616119	139616319	+	700.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 8 of 8)	intron (NM_001205173, intron 8 of 8)	-6675.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	6.0	11.5	7.5	17.5	7.0	3.0	1.0	3.5
Merged-chr1-165613901-2	chr1	165613801	165614001	+	618.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	20640.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	9.5	6.0	5.0	122.0	20.5	1.5	9.0	4.5
Merged-chr18-35540210-4	chr18	35540114	35540314	+	812.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13196.0	NR_038073	100503380.0	Mm.482118	NR_038073	ENSMUSG00000097769	Snhg4	Gm17457	small nucleolar RNA host gene 4	ncRNA	11.5	18.5	9.5	96.0	24.5	15.0	12.5	11.0
Merged-chr1-170997899-4	chr1	170997792	170997992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21034.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	35.0	26.0	37.0	567.0	105.5	40.5	26.5	38.5
Merged-chr10-84549301-4	chr10	84549203	84549403	+	954.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040658, exon 3 of 4)	non-coding (NR_040658, exon 3 of 4)	4035.0	NR_040658	442847.0	Mm.128292	NR_040658	ENSMUSG00000097076	Platr7	C330046G13Rik	pluripotency associated transcript 7	ncRNA	30.0	29.0	34.5	569.5	27.0	6.5	15.5	22.0
Merged-chr18-60932493-4	chr18	60932426	60932626	+	936.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177407, intron 1 of 17)	intron (NM_177407, intron 1 of 17)	6894.0	NM_177407	12322.0	Mm.131530	NM_009792	ENSMUSG00000024617	Camk2a	CaMKII|R74975|mKIAA0968	calcium/calmodulin-dependent protein kinase II alpha	protein-coding	6.5	12.5	12.5	345.0	14.0	2.0	15.0	14.0
Merged-chr17-87975646-3	chr17	87975572	87975772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_010830, intron 1 of 9)	CpG	622.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	19.5	9.5	7.0	218.5	48.5	15.5	28.5	20.0
Merged-chr1-184732225-4	chr1	184732136	184732336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008250, exon 1 of 4)	5' UTR (NM_008250, exon 1 of 4)	257.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	28.0	59.0	28.0	384.0	71.0	26.5	41.0	40.0
Merged-chr8-84937398-3	chr8	84937305	84937505	+	900.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019945)	promoter-TSS (NM_019945)	-52.0	NM_019945	56527.0	Mm.154614	NM_019945	ENSMUSG00000053693	Mast1	9430008B02Rik|SAST|SAST170	microtubule associated serine/threonine kinase 1	protein-coding	8.5	10.5	8.5	99.5	23.0	12.0	19.0	12.0
Merged-chr2-180709470-3	chr2	180709370	180709570	+	890.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289651)	promoter-TSS (NM_001289651)	529.0	NM_177852	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	8.0	11.5	8.5	85.5	15.5	6.0	4.5	5.5
Merged-chr7-67479458-4	chr7	67479424	67479624	+	866.160706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106666.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	7.0	6.0	9.0	129.5	19.0	8.0	9.0	10.0
Merged-chr19-11810602-3	chr19	11810492	11810692	+	742.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	8811.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	8.5	22.5	6.5	102.0	8.0	8.5	2.5	3.5
Merged-chr3-58517423-3	chr3	58517323	58517523	+	730.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8398.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	6.0	12.0	5.0	55.5	24.5	7.5	16.0	14.5
Merged-chr14-120910519-2	chr14	120910427	120910627	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_023579)	promoter-TSS (NM_023579)	-667.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	33.0	72.0	43.5	431.0	104.0	50.0	53.0	34.5
Merged-chr13-73804023-4	chr13	73803928	73804128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 17 of 24)	intron (NM_001360694, intron 17 of 24)	40331.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	286.0	407.0	347.0	5602.5	591.5	195.5	310.0	227.5
Merged-chr1-23921961-4	chr1	23921828	23922028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357395, intron 1 of 10)	CpG	453.0	NM_001357395	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	20.5	33.5	44.0	519.5	65.5	34.0	45.5	25.5
Merged-chr6-17655319-3	chr6	17655198	17655398	+	854.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 4 of 9)	intron (NM_007604, intron 4 of 9)	18288.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	6.0	11.0	9.5	155.0	6.0	0.0	11.5	5.5
Merged-chr12-40544779-4	chr12	40544682	40544882	+	821.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	98729.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	13.5	22.0	6.0	187.5	34.0	13.0	20.0	18.5
Merged-chr11-93984808-4	chr11	93984699	93984899	+	930.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-11292.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	6.0	13.0	3.0	121.5	91.0	26.5	41.0	42.5
Merged-chr11-52000009-4	chr11	51999891	52000091	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009458, intron 1 of 5)	intron (NM_009458, intron 1 of 5)	475.0	NM_009458	22210.0	Mm.384918	NM_009458	ENSMUSG00000020390	Ube2b	E2-14k|HR6B|Rad6b|mHR6B	ubiquitin-conjugating enzyme E2B	protein-coding	12.5	13.5	23.5	238.0	45.5	20.5	22.0	23.0
Merged-chr1-91259987-3	chr1	91259893	91260093	+	981.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355764, intron 3 of 10)	URR1A|DNA|hAT-Charlie	9427.0	NM_001355764	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	3.0	12.0	7.0	176.5	8.5	6.5	9.0	8.5
Merged-chr13-76099143-3	chr13	76099036	76099236	+	821.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029847)	promoter-TSS (NM_029847)	402.0	NM_001081352	218343.0	Mm.277964	NM_001081352	ENSMUSG00000033991	Ttc37	-	tetratricopeptide repeat domain 37	protein-coding	9.5	15.5	7.5	109.0	13.0	3.5	6.0	5.5
Merged-chr8-72161133-4	chr8	72161015	72161215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023126)	promoter-TSS (NM_023126)	-85.0	NM_023126	17274.0	Mm.162811	NM_023126	ENSMUSG00000003037	Rab8a	AA409338|Mel	RAB8A, member RAS oncogene family	protein-coding	496.0	763.0	490.5	7357.5	1065.5	438.0	540.5	450.0
Merged-chr7-38267843-3	chr7	38267675	38267875	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025390, intron 2 of 6)	intron (NM_025390, intron 2 of 6)	3573.0	NM_025390	66161.0	Mm.22284	NM_025390	ENSMUSG00000030423	Pop4	1110023P21Rik|Rpp29	processing of precursor 4, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	28.0	32.0	34.5	366.0	12.5	3.5	5.0	3.0
Merged-chr1-24587478-1	chr1	24587378	24587578	+	621.0	f0_balb.idr	promoter-TSS (NM_007733)	promoter-TSS (NM_007733)	-41.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	8.5	6.0	5.0	66.5	5.0	2.5	4.0	6.5
Merged-chr11-48799648-2	chr11	48799548	48799748	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008143)	promoter-TSS (NM_008143)	-712.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	8.5	7.0	8.5	115.0	11.5	7.0	3.0	8.5
Merged-chr5-96921221-4	chr5	96921129	96921329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131152)	promoter-TSS (NR_131152)	-43.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	56.0	126.0	74.0	1121.0	255.0	50.5	90.5	91.5
Merged-chr7-100178576-3	chr7	100178501	100178701	+	780.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190950)	promoter-TSS (NM_001190950)	-82.0	NM_001360467	57442.0	Mm.282386	NM_020574	ENSMUSG00000035165	Kcne3	2210017H05Rik|MiRP2	potassium voltage-gated channel, Isk-related subfamily, gene 3	protein-coding	12.0	10.0	6.5	127.5	14.0	6.0	3.5	5.0
Merged-chr2-59611960-4	chr2	59611847	59612047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198294)	promoter-TSS (NM_198294)	-95.0	NM_198294	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	43.0	31.5	25.0	512.0	56.5	20.0	20.5	24.0
Merged-chr5-113736469-4	chr5	113736372	113736572	+	803.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001010825, intron 1 of 2)	intron (NM_001010825, intron 1 of 2)	690.0	NM_001010825	231630.0	Mm.21926	NM_001010825	ENSMUSG00000053334	Ficd	D5Ertd40e|Hype	FIC domain containing	protein-coding	12.0	16.0	8.0	113.5	37.5	9.5	6.0	9.5
Merged-chr17-45629292-3	chr17	45629195	45629395	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001013767)	TTS (NM_001013767)	-27193.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	7.5	17.0	7.0	111.0	44.0	5.0	6.5	6.5
Merged-chr2-144214698-4	chr2	144214612	144214812	+	823.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25422.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	17.5	14.5	6.5	82.0	30.5	4.5	11.0	10.5
Merged-chr13-111979577-3	chr13	111979485	111979685	+	968.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111649.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	21.0	13.0	11.5	198.5	17.5	2.5	3.5	9.5
Merged-chr14-32165761-5	chr14	32165694	32165894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019744)	promoter-TSS (NM_019744)	5.0	NM_019744	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	28.5	36.0	39.5	254.0	65.5	17.5	35.0	29.0
Merged-chr9-85597174-2	chr9	85597074	85597274	+	754.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152160.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	11.5	6.0	4.0	76.5	13.0	6.5	11.0	7.0
Merged-chr8-88650258-6	chr8	88650064	88650264	+	885.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 1 of 12)	intron (NM_145857, intron 1 of 12)	2817.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	6.5	41.5	14.0	27.0	87.0	12.0	11.5	14.0
Merged-chr5-7955755-4	chr5	7955639	7955839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4733.0	NM_054098	117167.0	Mm.31403	NM_054098	ENSMUSG00000012428	Steap4	1110021O17Rik|AI481214|Tiarp|Tnfaip9	STEAP family member 4	protein-coding	69.0	60.0	87.0	1286.5	115.0	41.0	57.5	78.0
Merged-chr16-78576745-4	chr16	78576643	78576843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252440)	promoter-TSS (NM_001252440)	-55.0	NM_025967	67102.0	Mm.37332	NM_025967	ENSMUSG00000022864	D16Ertd472e	1700010I10Rik|2310009O17Rik|E330003K22Rik|Eurl	DNA segment, Chr 16, ERATO Doi 472, expressed	protein-coding	200.5	248.0	198.0	3440.0	598.0	221.0	367.5	204.0
Merged-chr3-103805395-4	chr3	103805303	103805503	+	836.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040412, intron 4 of 4)	intron (NR_040412, intron 4 of 4)	2274.0	NR_040412	100503157.0	Mm.445554	NR_040412	ENSMUSG00000084997	Gm15471	-	predicted gene 15471	ncRNA	7.0	14.5	20.0	219.0	27.0	10.0	12.5	8.0
Merged-chr3-142744202-3	chr3	142744098	142744298	+	764.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001293560, exon 14 of 14)	3' UTR (NM_001293560, exon 14 of 14)	-21049.0	NM_145546	229906.0	Mm.271756	NM_145546	ENSMUSG00000028271	Gtf2b	-	general transcription factor IIB	protein-coding	7.5	3.5	3.5	103.5	14.5	9.0	6.0	10.5
Merged-chr15-39735381-4	chr15	39735280	39735480	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10550.0	NM_001289506	75766.0	Mm.159563	NM_029422	ENSMUSG00000022303	Dcstamp	4833414I07Rik|DC-STAMP|FIND|Tm7sf4|mDC-STAMP	dendrocyte expressed seven transmembrane protein	protein-coding	17.5	27.0	19.5	475.0	36.0	11.5	22.0	11.5
Merged-chr1-170959976-4	chr1	170959884	170960084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010187)	TTS (NM_010187)	16087.0	NM_010187	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	37.0	28.5	24.0	556.0	54.5	20.5	25.5	38.5
Merged-chr6-33965775-3	chr6	33965680	33965880	+	783.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 17 of 17)	intron (NM_009148, intron 17 of 17)	-63668.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	4.0	14.0	3.5	105.5	24.5	7.0	4.5	6.0
Merged-chr9-52175490-3	chr9	52175339	52175539	+	851.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	polypurine|Low_complexity|Low_complexity	-7328.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	3.5	12.0	1.5	39.0	5.0	4.5	6.5	4.5
Merged-chr17-69179378-4	chr17	69179276	69179476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	CT-rich|Low_complexity|Low_complexity	20020.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	44.5	44.5	44.5	389.5	116.0	27.5	35.5	28.0
Merged-chr16-38394374-4	chr16	38394279	38394479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32189.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	185.5	264.0	279.5	2592.0	318.0	140.0	178.5	122.5
Merged-chr12-110991750-4	chr12	110991630	110991830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2668.0	NR_036598	77878.0	Mm.293198	NR_036598	ENSMUSG00000113056	6030440G07Rik	-	RIKEN cDNA 6030440G07 gene	ncRNA	30.0	48.0	19.0	280.0	69.0	42.5	37.0	30.5
Merged-chr5-135912013-4	chr5	135911909	135912109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018871, intron 1 of 1)	intron (NM_018871, intron 1 of 1)	22632.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	75.0	94.0	69.5	936.5	151.5	77.5	50.0	68.5
Merged-chr12-59216888-4	chr12	59216796	59216996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033156, intron 1 of 3)	intron (NM_001033156, intron 1 of 3)	2587.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	16.0	23.0	25.5	145.0	53.5	19.0	29.0	28.5
Merged-chr16-17181501-4	chr16	17181367	17181567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009456, intron 1 of 3)	L3|LINE|CR1	20025.0	NM_009456	22195.0	Mm.3074	NM_009456	ENSMUSG00000038965	Ube2l3	C79827|UbcM4|Ubce7	ubiquitin-conjugating enzyme E2L 3	protein-coding	76.5	116.0	100.5	1331.5	199.5	68.5	74.0	108.5
Merged-chr17-24632645-4	chr17	24632559	24632759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286720)	promoter-TSS (NM_001286720)	-23.0	NM_001357615	18207.0	Mm.148315	NM_008743	ENSMUSG00000041429	Nthl1	Nth1|Octs3	nth (endonuclease III)-like 1 (E.coli)	protein-coding	44.0	65.5	30.0	664.5	87.5	24.0	25.5	38.0
Merged-chr3-55817107-4	chr3	55816977	55817177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 39 of 57)	intron (NM_030595, intron 39 of 57)	-30028.0	NR_033592	71182.0	Mm.195603	NR_033592	ENSMUSG00000106572	4933417G07Rik	-	SEC13 homolog pseudogene	pseudo	17.5	29.5	22.5	469.0	61.0	18.5	27.5	27.5
Merged-chr6-31398968-5	chr6	31398952	31399152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040300)	promoter-TSS (NR_040300)	224.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	29.0	56.0	49.5	522.0	103.0	50.0	42.0	58.0
Merged-chr1-55430828-3	chr1	55430736	55430936	+	987.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	24890.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	14.0	15.5	19.5	262.0	5.0	7.5	3.0	8.5
Merged-chr4-147928594-6	chr4	147928475	147928675	+	850.8214109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011122, intron 5 of 18)	intron (NM_011122, intron 5 of 18)	8201.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	6.0	12.0	14.5	124.5	25.5	4.5	13.5	16.0
Merged-chr11-80038303-3	chr11	80038217	80038417	+	730.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42674.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	4.0	3.0	6.0	67.5	18.5	6.0	7.5	6.0
Merged-chr5-24918655-1	chr5	24918555	24918755	+	654.5	f0_balb.idr	intron (NM_145401, intron 4 of 15)	CT-rich|Low_complexity|Low_complexity	-10146.0	NM_001170555	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	9.5	9.5	5.0	86.0	12.0	8.0	0.0	3.5
Merged-chr9-119418234-3	chr9	119418141	119418341	+	967.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007397, intron 1 of 9)	intron (NM_007397, intron 1 of 9)	16063.0	NM_001313757	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	9.0	6.0	4.0	84.0	77.0	37.0	36.5	30.0
Merged-chr13-107101157-4	chr13	107101054	107101254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	78584.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	47.5	42.0	23.5	606.5	113.5	44.5	44.5	36.5
Merged-chr11-22930292-3	chr11	22930160	22930360	+	777.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361661, intron 2 of 2)	ORR1B1|LTR|ERVL-MaLR	-41745.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	10.5	7.5	8.0	167.5	18.0	5.0	6.5	6.5
Merged-chr1-97770452-4	chr1	97770337	97770537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173760)	promoter-TSS (NM_173760)	265.0	NM_001310773	252876.0	Mm.86090	NM_026250	ENSMUSG00000026333	Gin1	4930429M06Rik|8430411H10Rik|Gin-1|Zh2c2	gypsy retrotransposon integrase 1	protein-coding	31.0	38.0	32.0	428.0	75.0	17.5	54.0	33.0
Merged-chr16-33641984-4	chr16	33641891	33642091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 8 of 11)	intron (NM_001083902, intron 8 of 11)	-42475.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	32.0	49.5	27.5	535.0	72.0	29.5	27.0	39.5
Merged-chr16-29451892-4	chr16	29451797	29451997	+	891.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164613, intron 14 of 21)	intron (NM_001164613, intron 14 of 21)	-73165.0	NM_175650	268878.0	Mm.9823	NM_175650	ENSMUSG00000048939	Atp13a5	C630015F21Rik	ATPase type 13A5	protein-coding	16.0	20.0	9.5	201.5	30.0	11.0	19.0	11.5
Merged-chr9-78671652-4	chr9	78671549	78671749	+	864.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153098, intron 15 of 32)	intron (NM_153098, intron 15 of 32)	56103.0	NM_153098	235505.0	Mm.32955	NM_153098	ENSMUSG00000046186	Cd109	9930012E15Rik|AI480638|GARP	CD109 antigen	protein-coding	2.0	13.5	9.5	134.0	24.0	10.5	29.0	8.0
Merged-chr7-30806088-4	chr7	30805975	30806175	+	794.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	14902.0	NM_001168512	233079.0	Mm.97338	NM_146187	ENSMUSG00000051314	Ffar2	GPCR43|Gpr43	free fatty acid receptor 2	protein-coding	5.0	3.5	1.0	93.0	34.5	4.5	13.0	7.0
Merged-chr5-103474446-4	chr5	103474349	103474549	+	925.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011204, intron 2 of 47)	intron (NM_011204, intron 2 of 47)	49257.0	NM_011204	19249.0	Mm.3414	NM_011204	ENSMUSG00000034573	Ptpn13	AI324989|PTP-BL|PTPL1|Ptpri|RIP	protein tyrosine phosphatase, non-receptor type 13	protein-coding	20.5	8.5	6.5	288.0	36.0	14.0	23.5	25.5
Merged-chr17-50880202-4	chr17	50880105	50880305	+	911.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 13 of 21)	(CAAAAA)n|Simple_repeat|Simple_repeat	181524.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	14.5	19.0	22.0	259.0	66.0	13.0	14.0	22.5
Merged-chr5-53999207-4	chr5	53999116	53999316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	693.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	22.0	22.5	17.0	217.5	53.0	18.5	22.0	23.5
Merged-chr1-120197386-4	chr1	120197275	120197475	+	872.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67905.0	NM_133186	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	11.0	21.5	9.5	138.5	36.0	10.0	15.0	16.5
Merged-chr5-90247831-3	chr5	90247739	90247939	+	788.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198010, intron 27 of 32)	ORR1A2-int|LTR|ERVL-MaLR	-23843.0	NM_001163456	231430.0	Mm.319697	NM_001033310	ENSMUSG00000035505	Cox18	BC038311	cytochrome c oxidase assembly protein 18	protein-coding	7.5	6.5	10.5	77.5	22.5	7.0	10.0	9.5
Merged-chr15-81112718-4	chr15	81112626	81112826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	-7679.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	135.5	245.0	174.5	2832.0	363.0	114.0	172.0	166.0
Merged-chr17-88058095-4	chr17	88057999	88058199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	PB1D9|SINE|Alu	6833.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	45.0	64.5	66.0	981.0	93.0	19.0	40.0	34.0
Merged-chr7-29228366-4	chr7	29228265	29228465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033525, intron 1 of 2)	intron (NM_001033525, intron 1 of 2)	4157.0	NM_001033525	52150.0	Mm.24877	NM_001033525	ENSMUSG00000046410	Kcnk6	D7Ertd764e|Toss|Twik2	potassium inwardly-rectifying channel, subfamily K, member 6	protein-coding	100.0	146.5	124.5	1564.5	247.0	124.5	136.0	102.0
Merged-chr1-91168187-3	chr1	91168060	91168260	+	772.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033408, intron 13 of 15)	intron (NM_001033408, intron 13 of 15)	-11662.0	NM_016894	51801.0	Mm.3272	NM_016894	ENSMUSG00000034353	Ramp1	9130218E19Rik	receptor (calcitonin) activity modifying protein 1	protein-coding	10.0	11.0	8.5	228.5	4.0	4.0	4.5	2.5
Merged-chr11-51925776-4	chr11	51925674	51925874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41857.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	85.0	90.5	108.0	1578.5	180.5	45.0	108.5	70.5
Merged-chr11-57518584-4	chr11	57518461	57518661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168668)	promoter-TSS (NM_001168668)	83.0	NM_001168667	67726.0	Mm.25632	NM_026342	ENSMUSG00000020523	Fam114a2	1810073G14Rik|9030624B09Rik	family with sequence similarity 114, member A2	protein-coding	40.0	53.5	22.5	437.0	70.0	21.0	24.5	34.0
Merged-chr9-98296655-4	chr9	98296575	98296775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357446, exon 1 of 4)	5' UTR (NM_001357446, exon 1 of 4)	105.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	104.5	162.5	195.0	1451.5	289.0	122.0	132.5	137.5
Merged-chr15-99295106-4	chr15	99295041	99295241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018786)	promoter-TSS (NM_018786)	-100.0	NM_018786	54614.0	Mm.358668	NM_018786	ENSMUSG00000023007	Prpf40b	2610317D23Rik|Hypc	pre-mRNA processing factor 40B	protein-coding	75.0	115.0	101.0	876.5	212.5	82.0	81.5	69.0
Merged-chr5-134582701-4	chr5	134582616	134582816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020022)	promoter-TSS (NM_020022)	26.0	NM_020022	19718.0	Mm.332739	NM_020022	ENSMUSG00000023104	Rfc2	2610008M13Rik|40kDa|AI326953|Recc2	replication factor C (activator 1) 2	protein-coding	82.5	123.5	57.0	930.5	256.5	65.5	73.5	68.5
Merged-chr11-17538451-3	chr11	17538365	17538565	+	633.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	280777.0	NM_001330649	57316.0	Mm.287982	NM_020558	ENSMUSG00000000581	C1d	1110036E10Rik|AI875855|SUN-CoR	C1D nuclear receptor co-repressor	protein-coding	8.0	5.0	8.5	155.5	5.5	0.5	4.5	2.0
Merged-chr7-140954867-4	chr7	140954760	140954960	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030694)	TTS (NM_030694)	1101.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	31.0	18.0	25.5	153.0	60.5	17.5	45.0	23.5
Merged-chr3-36841069-4	chr3	36840910	36841110	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22096.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	16.0	14.0	27.0	318.0	52.0	13.5	22.5	18.0
Merged-chr10-79927423-4	chr10	79927402	79927602	+	933.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288625, intron 1 of 8)	CpG	161.0	NM_001288625	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	13.0	14.5	8.5	122.0	36.0	13.0	15.5	25.5
Merged-chr18-53770313-4	chr18	53770227	53770427	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25780.0	NM_178686	225523.0	Mm.193678	NM_178686	ENSMUSG00000048799	Cep120	A230075C01|AU016693|Ccdc100	centrosomal protein 120	protein-coding	47.5	41.0	37.5	777.0	64.5	16.0	49.0	45.5
Merged-chr5-134676285-4	chr5	134676251	134676451	+	958.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010717, intron 2 of 15)	intron (NM_010717, intron 2 of 15)	1897.0	NM_001305875	16885.0	Mm.15409	NM_010717	ENSMUSG00000029674	Limk1	KIZ-1|LIMK-1|Limk	LIM-domain containing, protein kinase	protein-coding	25.5	30.5	23.5	319.5	21.5	10.0	12.0	10.0
Merged-chr10-118588246-4	chr10	118588159	118588359	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31734.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	23.5	34.5	17.5	398.5	34.5	18.0	14.0	17.0
Merged-chr4-139169946-4	chr4	139169846	139170046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10709.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	28.5	36.5	7.0	242.5	65.5	27.0	19.0	17.0
Merged-chr16-85084351-4	chr16	85084245	85084445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 3 of 15)	intron (NM_001198825, intron 3 of 15)	89362.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	54.5	57.5	73.5	953.0	121.5	32.5	78.5	62.5
Merged-chr17-34364007-4	chr17	34363954	34364154	+	937.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_079835, intron 6 of 8)	Lx8|LINE|L1	9232.0	NM_079835	547431.0	Mm.441007	NM_079835	ENSMUSG00000024340	Btnl2	BTL-II|BTLN2|Btl2|Gm315|NG9	butyrophilin-like 2	protein-coding	9.5	17.0	8.0	170.5	35.5	13.0	19.0	14.5
Merged-chr5-139750700-4	chr5	139750613	139750813	+	717.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026748)	TTS (NM_026748)	-14380.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	10.0	22.5	5.5	99.5	25.0	8.5	6.0	8.5
Merged-chr3-138958748-4	chr3	138958659	138958859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 7 of 13)	intron (NM_001356388, intron 7 of 13)	116442.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	30.0	54.0	44.5	804.5	78.5	39.0	40.5	34.0
Merged-chr11-102440462-3	chr11	102440348	102440548	+	852.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199200, intron 3 of 7)	intron (NM_199200, intron 3 of 7)	7215.0	NM_199200	217219.0	Mm.259924	NM_199200	ENSMUSG00000034685	Fam171a2	-	family with sequence similarity 171, member A2	protein-coding	1.0	13.0	2.5	29.5	15.5	8.5	6.5	7.5
Merged-chr13-99005993-1	chr13	99005893	99006093	+	557.0	f0_balb.idr	Intergenic	L1ME3Cz|LINE|L1	-21428.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	2.5	4.5	7.5	70.0	14.0	5.5	7.0	9.0
Merged-chr5-125405887-8	chr5	125405768	125405968	+	893.064575	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15851.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	8.5	10.0	6.0	63.0	28.0	9.0	13.0	15.5
Merged-chr1-177681396-4	chr1	177681301	177681501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38458.0	NR_037994	75589.0	Mm.86666	NR_037994	ENSMUSG00000101746	2310043L19Rik	-	RIKEN cDNA 2310043L19 gene	ncRNA	84.0	180.5	76.5	1224.0	209.5	94.5	106.0	81.0
Merged-chr10-14132444-4	chr10	14132336	14132536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010437, exon 4 of 9)	exon (NM_010437, exon 4 of 9)	166057.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	46.0	61.0	79.0	700.5	72.5	14.0	20.0	26.5
Merged-chr15-100732799-4	chr15	100732695	100732895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045781)	promoter-TSS (NR_045781)	-58.0	NR_045782	619313.0	Mm.123436	NR_045781	ENSMUSG00000116504	I730030J21Rik	-	RIKEN cDNA I730030J21 gene	ncRNA	100.5	155.5	90.5	1256.5	189.5	65.0	108.0	71.0
Merged-chr7-100591100-4	chr7	100590995	100591195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003559, intron 1 of 7)	intron (NR_003559, intron 1 of 7)	319.0	NR_153425	52443.0	Mm.473730	NM_198831	ENSMUSG00000030706	Mrpl48	1810030E20Rik|2610028L11Rik|CGI-118|D4Ertd786e|L48mt|MRP-L48	mitochondrial ribosomal protein L48	protein-coding	72.0	105.0	70.5	948.0	119.5	56.0	58.0	62.0
Merged-chr10-4111929-3	chr10	4111845	4112045	+	989.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 26 of 27)	intron (NM_001170785, intron 26 of 27)	101175.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	15.0	40.0	32.0	279.0	3.5	4.0	3.0	2.5
Merged-chr17-6948564-5	chr17	6948429	6948629	+	969.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083945)	promoter-TSS (NM_001083945)	-173.0	NM_001083945	100037282.0	Mm.29830	NM_001083945	ENSMUSG00000023806	Rsph3b	Rshl2b	radial spoke 3B homolog (Chlamydomonas)	protein-coding	12.5	14.0	17.0	150.0	34.5	26.0	20.0	28.0
Merged-chr12-104124269-4	chr12	104124215	104124415	+	953.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3681.0	NM_173024	271047.0	Mm.120265	NM_173024	ENSMUSG00000066364	Serpina3b	6A1|A030003A19Rik	serine (or cysteine) peptidase inhibitor, clade A, member 3B	protein-coding	6.0	8.0	14.5	78.0	4.0	8.5	7.5	4.0
Merged-chr5-121477874-3	chr5	121477778	121477978	+	782.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161626, intron 4 of 9)	intron (NM_001161626, intron 4 of 9)	14697.0	NM_001161627	77462.0	Mm.358781	NM_029912	ENSMUSG00000029452	Tmem116	4930406A18Rik|4930513P12Rik|C030022K24Rik	transmembrane protein 116	protein-coding	9.0	14.0	0.0	105.0	40.5	6.5	9.0	7.5
Merged-chr19-10949305-4	chr19	10949202	10949402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023731)	promoter-TSS (NM_023731)	-36.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	121.0	157.0	57.5	1031.5	282.5	93.5	117.5	111.5
Merged-chr2-116922794-4	chr2	116922688	116922888	+	954.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22636.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	16.0	17.0	29.5	373.0	26.5	8.5	17.5	26.5
Merged-chr11-73324200-4	chr11	73324122	73324322	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023113, intron 1 of 5)	intron (NM_023113, intron 1 of 5)	415.0	NM_023113	11484.0	Mm.293574	NM_023113	ENSMUSG00000020774	Aspa	Acy-2|Acy2|nur7	aspartoacylase	protein-coding	23.5	42.0	32.0	401.5	59.0	14.0	18.5	30.0
Merged-chr4-53118927-4	chr4	53118813	53119013	+	921.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	40982.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	5.5	14.5	43.5	295.5	27.0	7.0	15.0	8.0
Merged-chr2-155757490-2	chr2	155757420	155757620	+	796.083374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	6303.0	NM_011171	19124.0	Mm.3243	NM_011171	ENSMUSG00000027611	Procr	AI325044|Ccca|Ccd41|Epcr	protein C receptor, endothelial	protein-coding	1.0	0.0	0.0	2.5	36.5	14.0	7.0	11.5
Merged-chr19-24301153-4	chr19	24301067	24301267	+	931.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008846, intron 14 of 14)	intron (NM_008846, intron 14 of 14)	-20581.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	18.5	14.5	35.0	305.5	46.5	10.0	27.0	10.5
Merged-chr3-60469490-4	chr3	60469400	60469600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-3330.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	70.5	111.0	84.5	698.5	192.5	81.0	70.0	79.0
Merged-chr14-33392975-3	chr14	33392873	33393073	+	810.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016700, exon 6 of 12)	exon (NM_016700, exon 6 of 12)	18051.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	7.5	8.5	4.5	170.0	15.0	4.0	17.5	9.5
Merged-chr5-43218339-4	chr5	43218242	43218442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 1 of 7)	intron (NR_028417, intron 1 of 7)	-15121.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	43.0	59.5	73.5	929.0	91.5	28.5	54.5	40.0
Merged-chr18-61555185-4	chr18	61555093	61555293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146087)	promoter-TSS (NM_146087)	-80.0	NM_001357499	93687.0	Mm.26908	NM_146087	ENSMUSG00000024576	Csnk1a1	2610208K14Rik|4632404G05Rik|5430427P18Rik|CK1a|Csnk1a	casein kinase 1, alpha 1	protein-coding	186.5	296.5	149.0	2487.5	563.0	208.0	220.0	188.0
Merged-chr10-63223273-4	chr10	63223171	63223371	+	934.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19319.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	8.5	9.5	10.0	221.5	60.5	15.5	24.5	17.5
Merged-chr10-59590044-4	chr10	59589951	59590151	+	912.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033259, intron 1 of 7)	MLT1N2|LTR|ERVL-MaLR	26641.0	NM_001033259	215999.0	Mm.296470	NM_001033259	ENSMUSG00000009647	Mcu	2010012O16Rik|AV064928|C10orf42|Ccdc109a|D130073L02Rik|Gm64	mitochondrial calcium uniporter	protein-coding	20.0	24.5	17.5	198.5	26.5	14.5	12.5	18.0
Merged-chr5-25100851-4	chr5	25100751	25100951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027851)	promoter-TSS (NR_027851)	-124.0	NR_027851	67261.0	Mm.461781	NM_026059	ENSMUSG00000043833	2900005J15Rik	-	RIKEN cDNA 2900005J15 gene	ncRNA	36.5	54.5	56.5	511.5	20.5	20.0	24.0	30.0
Merged-chr2-153741211-4	chr2	153741119	153741319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007896)	promoter-TSS (NM_007896)	-68.0	NM_007896	13589.0	Mm.143877	NM_007896	ENSMUSG00000027479	Mapre1	5530600P05Rik|AI462499|AI504412|AW260097|BIM1p|D2Ertd459e|Eb1	microtubule-associated protein, RP/EB family, member 1	protein-coding	219.0	306.0	155.0	2332.5	480.5	180.5	233.5	188.5
Merged-chr8-22806637-4	chr8	22806539	22806739	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122820)	promoter-TSS (NM_001122820)	-985.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	11.0	9.0	9.5	145.0	46.0	17.0	15.0	19.5
Merged-chr6-127254146-4	chr6	127254043	127254243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53824.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	135.0	184.5	130.5	2287.0	294.0	102.5	151.0	121.5
Merged-chr12-100397247-1	chr12	100397147	100397347	+	659.0	f0_c57.idr	intron (NM_001033213, intron 9 of 19)	L1MB7|LINE|L1	120638.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	8.5	17.5	6.5	54.5	25.5	7.5	5.5	8.0
Merged-chr19-34290454-4	chr19	34290388	34290588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146708)	promoter-TSS (NM_001146708)	-171.0	NM_007987	14102.0	Mm.1626	NM_007987	ENSMUSG00000024778	Fas	AI196731|APO1|APT1|CD95|TNFR6|Tnfrsf6|lpr	Fas (TNF receptor superfamily member 6)	protein-coding	43.5	104.0	56.5	295.0	146.5	53.0	28.5	25.5
Merged-chr6-5363200-4	chr6	5363089	5363289	+	892.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-20197.0	NM_023048	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	14.5	10.5	21.5	297.5	26.0	13.0	13.5	13.0
Merged-chr1-136559953-4	chr1	136559853	136560053	+	815.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64948.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	4.0	14.0	13.0	96.0	56.0	9.5	12.0	15.0
Merged-chr17-27173866-4	chr17	27173757	27173957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6093.0	NM_173027	271424.0	Mm.209679	NM_173027	ENSMUSG00000024210	Ip6k3	D830007E07Rik|Ihpk3	inositol hexaphosphate kinase 3	protein-coding	32.5	56.0	27.5	517.0	89.0	27.0	27.0	25.0
Merged-chr4-22402271-3	chr4	22402208	22402408	+	964.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172988, intron 5 of 8)	ORR1B1|LTR|ERVL-MaLR	44765.0	NR_104380	269514.0	Mm.40708	NM_172988	ENSMUSG00000040410	Fbxl4	AI836810|FBL4|FBL5	F-box and leucine-rich repeat protein 4	protein-coding	5.5	4.5	2.5	135.0	14.5	5.5	13.5	13.0
Merged-chr3-90248869-4	chr3	90248759	90248959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013901, intron 1 of 3)	intron (NM_013901, intron 1 of 3)	667.0	NM_013901	30791.0	Mm.294709	NM_013901	ENSMUSG00000052310	Slc39a1	Zip1|Zirtl	solute carrier family 39 (zinc transporter), member 1	protein-coding	133.0	219.5	110.0	1542.0	313.0	97.0	108.0	103.5
Merged-chr10-19031153-4	chr10	19031054	19031254	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15744.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	58.5	167.0	21.0	159.5	202.5	70.0	37.5	19.5
Merged-chr10-15189447-3	chr10	15189347	15189547	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	429158.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	36.0	24.0	31.0	838.5	15.5	4.5	13.5	5.5
Merged-chr13-49682082-4	chr13	49681961	49682161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172015)	promoter-TSS (NM_172015)	-69.0	NM_172015	105148.0	Mm.21118	NM_172015	ENSMUSG00000037851	Iars	2510016L12Rik|AI327140|AU044614|E430001P04Rik|ILRS	isoleucine-tRNA synthetase	protein-coding	104.0	128.0	90.5	1289.5	282.0	93.5	111.0	98.5
Merged-chr4-137836043-5	chr4	137835868	137836068	+	913.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26269.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	7.0	9.5	6.5	97.5	45.5	18.5	28.0	14.5
Merged-chr13-37365662-3	chr13	37365564	37365764	+	853.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	RMER15|LTR|ERVL	20319.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	10.0	11.5	10.0	148.0	21.0	6.0	7.5	6.0
Merged-chr18-60908254-4	chr18	60908171	60908371	+	783.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3969.0	NM_001038499	545260.0	Mm.20147	NM_001038499	ENSMUSG00000036412	Arsi	BC020108	arylsulfatase i	protein-coding	7.0	10.5	8.0	242.5	17.0	7.5	13.0	11.5
Merged-chr4-133479979-4	chr4	133479886	133480086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175307)	promoter-TSS (NM_175307)	-147.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	150.5	279.5	195.5	1879.5	477.0	198.5	193.0	165.0
Merged-chr18-69675498-3	chr18	69675391	69675591	+	783.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	T-rich|Low_complexity|Low_complexity	-250068.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	9.0	9.5	2.5	77.0	10.0	5.0	6.5	8.5
Merged-chr9-44407425-8	chr9	44407221	44407421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024266)	promoter-TSS (NM_024266)	227.0	NM_021789	60409.0	Mm.29814	NM_021789	ENSMUSG00000032112	Trappc4	1500017G03Rik|AI303617|HSPC172|PTD009|Sbd|Sbdn|Sdcbp2|TRS23	trafficking protein particle complex 4	protein-coding	49.5	81.0	69.0	538.0	100.0	71.5	63.0	47.5
Merged-chr11-89092902-4	chr11	89092793	89092993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033266, exon 4 of 4)	3' UTR (NM_001033266, exon 4 of 4)	19052.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	88.0	108.0	96.5	1267.5	105.5	28.5	34.0	39.0
Merged-chr5-65120089-4	chr5	65119963	65120163	+	967.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347355, intron 1 of 10)	ORR1D2|LTR|ERVL-MaLR	-11168.0	NM_001359401	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	12.0	30.5	28.5	247.5	43.0	12.0	22.0	24.0
Merged-chr9-77828708-4	chr9	77828568	77828768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	74133.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	220.0	254.5	258.0	3350.0	585.0	233.5	279.0	240.5
Merged-chr4-132514095-4	chr4	132513995	132514195	+	968.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3639.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	23.5	24.0	17.0	233.5	45.5	25.5	24.0	20.0
Merged-chr5-143254357-2	chr5	143254257	143254457	+	560.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_017467, exon 7 of 7)	exon (NM_017467, exon 7 of 7)	15665.0	NM_017467	54201.0	Mm.6666	NM_017467	ENSMUSG00000046658	Zfp316	Emzf1|Mzf3|Znf316	zinc finger protein 316	protein-coding	8.0	5.0	8.0	6.0	15.5	6.5	5.5	6.0
Merged-chr7-118703936-2	chr7	118703846	118704046	+	853.0	f0_balb.idr|f0_c57.idr	intron (NM_019580, intron 1 of 5)	intron (NM_019580, intron 1 of 5)	1792.0	NM_019580	56209.0	Mm.273142	NM_019580	ENSMUSG00000033917	Gde1	1200003M13Rik|Mir16|RGS16	glycerophosphodiester phosphodiesterase 1	protein-coding	13.5	12.5	9.5	131.5	44.0	7.5	21.5	21.0
Merged-chr13-24862744-3	chr13	24862666	24862866	+	761.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081051, intron 5 of 20)	intron (NM_001081051, intron 5 of 20)	17635.0	NR_131787	210108.0	Mm.261514	NM_001081051	ENSMUSG00000006711	D130043K22Rik	4930451E12Rik|Kiaa0319	RIKEN cDNA D130043K22 gene	protein-coding	3.0	7.5	4.0	74.0	14.5	6.5	10.5	7.0
Merged-chr2-162958465-4	chr2	162958334	162958534	+	738.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081338, intron 8 of 22)	intron (NM_001081338, intron 8 of 22)	14969.0	NM_001081338	241764.0	Mm.187086	NM_001081338	ENSMUSG00000035576	L3mbtl1	C630004G01|L3mbtl|mKIAA0681	L3MBTL1 histone methyl-lysine binding protein	protein-coding	2.0	4.0	8.0	143.5	22.0	6.0	11.5	14.0
Merged-chr11-74572902-4	chr11	74572801	74573001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 1 of 24)	intron (NM_001015046, intron 1 of 24)	17257.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	29.5	41.5	40.5	556.0	49.0	23.5	22.5	24.5
Merged-chr10-67025683-4	chr10	67025560	67025760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110511, intron 2 of 6)	MTD|LTR|ERVL-MaLR	20585.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	85.5	122.5	93.0	1180.0	174.5	77.0	83.0	73.5
Merged-chr7-116307013-1	chr7	116306913	116307113	+	565.0	f0_balb.idr	intron (NM_001305185, intron 3 of 26)	intron (NM_001305185, intron 3 of 26)	1363.0	NM_001305185	233765.0	Mm.3741	NM_172743	ENSMUSG00000045659	Plekha7	A430081P20Rik|AI414265	pleckstrin homology domain containing, family A member 7	protein-coding	4.5	6.0	6.0	79.5	7.5	4.0	3.0	4.5
Merged-chr5-117871729-4	chr5	117871625	117871825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 1 of 27)	intron (NM_008712, intron 1 of 27)	4886.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	27.5	38.5	37.0	395.0	86.5	46.0	44.5	33.0
Merged-chr12-70477743-4	chr12	70477631	70477831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	LTR16E2|LTR|ERVL	24577.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	34.5	84.0	46.0	700.0	176.5	64.0	91.0	58.5
Merged-chr1-167349992-4	chr1	167349910	167350110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019993)	promoter-TSS (NM_019993)	19.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	93.5	146.5	176.5	1756.5	175.0	103.0	111.0	97.5
Merged-chr2-4501879-4	chr2	4501814	4502014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	HAL1|LINE|L1	-57840.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	32.5	38.5	19.5	423.0	73.0	27.5	41.5	28.0
Merged-chr4-136125724-4	chr4	136125632	136125832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-18090.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	72.5	100.5	74.5	1229.5	203.0	80.5	98.0	76.5
Merged-chr13-75845997-4	chr13	75845896	75846096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053108, intron 1 of 2)	intron (NM_053108, intron 1 of 2)	6110.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	105.5	216.5	143.0	1995.0	169.5	58.5	81.5	57.5
Merged-chr4-59438634-4	chr4	59438516	59438716	+	934.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163288)	promoter-TSS (NM_001163288)	17.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	17.0	30.5	28.5	229.5	17.5	15.0	12.5	18.0
Merged-chr11-52076442-4	chr11	52076393	52076593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	intron (NM_001166654, intron 13 of 13)	-22331.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	116.5	141.5	104.5	1603.0	203.0	61.5	97.0	90.0
Merged-chr1-180771491-4	chr1	180771396	180771596	+	872.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42109.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	7.0	18.0	8.0	144.0	31.5	12.0	12.5	15.5
Merged-chr5-65765103-4	chr5	65765003	65765203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024917, intron 1 of 19)	intron (NM_001024917, intron 1 of 19)	1582.0	NM_001024917	333789.0	Mm.332398	NM_001024917	ENSMUSG00000037795	N4bp2	B3bp|E430014I16|Gm1791|Gm868	NEDD4 binding protein 2	protein-coding	47.5	96.0	31.5	1116.5	143.5	68.0	56.5	49.0
Merged-chr13-97249167-3	chr13	97249062	97249262	+	808.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007930, intron 2 of 2)	intron (NM_007930, intron 2 of 2)	8057.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	5.0	14.0	4.5	118.5	20.0	8.0	11.0	21.0
Merged-chr3-75743826-3	chr3	75743723	75743923	+	973.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88092.0	NR_040539	69193.0	Mm.374088	NR_040539	ENSMUSG00000099370	Platr10	2410007B07Rik	pluripotency associated transcript 10	ncRNA	13.5	17.5	24.5	396.0	15.5	4.0	19.5	12.0
Merged-chr16-35776693-6	chr16	35776599	35776799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152314, intron 1 of 8)	intron (NR_152314, intron 1 of 8)	6313.0	NM_175111	66667.0	Mm.45272	NM_175111	ENSMUSG00000022849	Hspbap1	3830421G21Rik	Hspb associated protein 1	protein-coding	23.0	49.5	48.5	509.5	71.0	32.0	29.5	47.0
Merged-chr19-47228846-4	chr19	47228786	47228986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163480)	promoter-TSS (NM_001163480)	43.0	NM_001163480	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	57.0	51.5	53.5	572.5	87.5	31.0	57.0	21.0
Merged-chr2-167951482-4	chr2	167951376	167951576	+	892.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	19149.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	27.5	39.0	18.5	404.0	62.5	18.0	15.5	21.5
Merged-chr4-84675870-3	chr4	84675787	84675987	+	896.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172870)	promoter-TSS (NM_172870)	-801.0	NM_172870	242509.0	Mm.190774	NM_172870	ENSMUSG00000028487	Bnc2	5031434M05Rik|8430420F16Rik	basonuclin 2	protein-coding	7.5	14.5	11.5	163.0	13.5	6.0	7.0	8.0
Merged-chr7-31148911-4	chr7	31148816	31149016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153431, intron 1 of 18)	(CAGC)n|Simple_repeat|Simple_repeat	2255.0	NM_027898	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	63.5	102.5	64.5	1207.5	157.5	61.5	87.0	46.5
Merged-chr3-79252992-1	chr3	79252892	79253092	+	864.3333130000001	f0_balb.idr	intron (NR_045502, intron 2 of 2)	intron (NR_045502, intron 2 of 2)	40073.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	12.5	13.5	10.5	169.5	43.5	10.5	14.5	15.5
Merged-chr10-77891189-4	chr10	77891079	77891279	+	867.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2241.0	NR_015547	75188.0	Mm.348012	NM_029200	ENSMUSG00000096573	1700009J07Rik	4930535B06Rik	RIKEN cDNA 1700009J07 gene	ncRNA	14.0	7.0	7.0	238.0	33.0	10.5	15.0	13.0
Merged-chr12-99564800-6	chr12	99564685	99564885	+	814.777771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136760, intron 1 of 3)	intron (NR_136760, intron 1 of 3)	944.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	6.5	6.0	14.0	106.0	37.5	5.0	9.0	18.0
Merged-chr8-56614473-3	chr8	56614365	56614565	+	940.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63331.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	6.5	5.0	8.0	119.0	20.0	6.5	9.5	5.5
Merged-chr16-18877125-4	chr16	18877014	18877214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010922)	promoter-TSS (NM_010922)	364.0	NM_010435	15260.0	Mm.15694	NM_010435	ENSMUSG00000022702	Hira	AA138857|D16Ertd95e|Gm15797|N28177|Tuple1	histone cell cycle regulator	protein-coding	18.0	38.0	44.0	315.0	76.0	27.5	21.0	28.0
Merged-chr14-77823034-3	chr14	77822936	77823136	+	954.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24068.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	13.0	9.0	11.5	197.5	8.5	6.5	8.0	9.0
Merged-chr7-4943421-4	chr7	4943297	4943497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173008, intron 13 of 13)	intron (NM_173008, intron 13 of 13)	17553.0	NM_173008	269855.0	Mm.44190	NM_173008	ENSMUSG00000035279	Ssc5d	A430110N23Rik|S5D-SRCRB	scavenger receptor cysteine rich family, 5 domains	protein-coding	54.5	94.5	32.5	750.0	165.0	84.0	70.5	63.0
Merged-chr14-31662192-4	chr14	31662102	31662302	+	865.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025295, exon 2 of 4)	exon (NM_025295, exon 2 of 4)	21145.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	10.5	8.5	9.5	95.5	20.5	6.0	9.5	8.5
Merged-chr1-91539927-2	chr1	91539834	91540034	+	929.8333130000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039126)	promoter-TSS (NM_001039126)	-631.0	NM_001039126	65247.0	Mm.234152	NM_023046	ENSMUSG00000026311	Asb1	1700029O08Rik|1700054C17Rik|AI426616|AI851378|mKIAA1146	ankyrin repeat and SOCS box-containing 1	protein-coding	11.0	9.0	7.5	63.0	20.0	6.0	3.0	11.0
Merged-chr18-39635845-4	chr18	39635695	39635895	+	964.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137702.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	23.5	29.5	30.0	274.5	54.0	17.5	23.0	12.5
Merged-chr7-99090091-3	chr7	99089965	99090165	+	863.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 4 of 14)	intron (NM_178635, intron 4 of 14)	51079.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	11.0	4.5	7.0	93.0	2.5	1.5	8.5	12.5
Merged-chr8-88118686-4	chr8	88118598	88118798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029074)	promoter-TSS (NM_029074)	-61.0	NM_029074	382030.0	Mm.216574	NM_029074	ENSMUSG00000036810	Cnep1r1	5033428A16Rik|NEP1-R1|Tmem188	CTD nuclear envelope phosphatase 1 regulatory subunit 1	protein-coding	172.0	234.0	229.5	2456.5	360.0	141.0	147.0	174.5
Merged-chr8-39610460-3	chr8	39610372	39610572	+	665.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 7 of 9)	L1MC2|LINE|L1	32206.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	15.0	7.5	9.5	141.5	8.5	3.0	6.5	2.5
Merged-chr9-118665664-4	chr9	118665566	118665766	+	987.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 8 of 27)	intron (NM_133721, intron 8 of 27)	-46026.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	27.0	23.5	12.0	180.0	49.5	24.0	20.5	20.0
Merged-chr2-160368051-4	chr2	160367948	160368148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010658)	promoter-TSS (NM_010658)	-983.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	47.0	58.0	45.5	644.0	85.5	54.0	48.5	67.0
Merged-chr2-167887893-6	chr2	167887771	167887971	+	923.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44456.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	7.0	11.5	18.5	156.0	20.5	17.0	6.0	13.0
Merged-chr13-60357207-1	chr13	60357107	60357307	+	655.0	f1_balb.idr	Intergenic	Intergenic	151736.0	NR_036449	100503759.0	Mm.38101	NM_177810	ENSMUSG00000050765	Gm5084	A030007L22|EG328264	predicted gene 5084	ncRNA	1.5	16.5	5.0	30.5	9.5	4.5	10.5	9.5
Merged-chr17-48331064-3	chr17	48330963	48331163	+	688.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14901.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	10.0	7.0	5.5	102.5	6.0	6.0	3.0	3.5
Merged-chr11-86757793-7	chr11	86757671	86757871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356393)	promoter-TSS (NM_001356393)	-204.0	NM_001356393	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	115.0	173.0	65.0	887.5	284.5	151.0	97.0	127.5
Merged-chr18-6765075-4	chr18	6764992	6765192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278447)	promoter-TSS (NM_001278447)	-75.0	NM_181070	19330.0	Mm.132802	NM_181070	ENSMUSG00000073639	Rab18	AA959686	RAB18, member RAS oncogene family	protein-coding	318.5	500.0	313.5	4673.0	760.5	271.5	411.5	277.5
Merged-chr5-72831171-3	chr5	72831066	72831266	+	748.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 1 of 17)	HAL1|LINE|L1	37282.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	9.0	9.0	9.0	129.5	17.5	1.0	5.0	5.5
Merged-chr13-51830834-2	chr13	51830734	51830934	+	845.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15841.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	11.5	4.5	8.0	94.5	13.5	0.5	2.0	8.5
Merged-chr2-156111841-4	chr2	156111677	156111877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029397, intron 1 of 2)	CpG	188.0	NM_170598	75710.0	Mm.27660	NM_029397	ENSMUSG00000089824	Rbm12	5730420G12Rik|9430070C08Rik|AI852903|SWAN|mKIAA0765	RNA binding motif protein 12	protein-coding	36.5	46.5	27.0	387.5	63.0	31.0	27.5	40.0
Merged-chr2-142861189-4	chr2	142861081	142861281	+	958.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 3 of 26)	intron (NM_001355123, intron 3 of 26)	40283.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	29.0	9.5	30.5	513.0	50.5	9.0	24.5	18.0
Merged-chr2-58920768-4	chr2	58920691	58920891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	L1MA6|LINE|L1	165607.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	10.5	48.5	17.0	241.5	41.5	22.0	21.5	34.0
Merged-chr14-73411115-4	chr14	73411006	73411206	+	926.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25817.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	11.5	37.5	23.0	239.0	37.0	5.5	10.5	18.5
Merged-chr1-24695870-4	chr1	24695845	24696045	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 3 of 15)	intron (NM_026719, intron 3 of 15)	17027.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	16.5	4.5	12.5	198.5	15.0	1.5	5.0	6.0
Merged-chr2-4499497-4	chr2	4499399	4499599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	intron (NM_001177843, intron 5 of 23)	-60255.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	38.5	65.5	46.5	798.5	72.0	20.5	25.5	34.0
Merged-chr11-34025235-4	chr11	34025148	34025348	+	823.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-21680.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	14.0	12.5	15.0	271.0	26.5	11.0	11.5	9.0
Merged-chr19-21913912-4	chr19	21913808	21914008	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135568.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	29.0	36.0	32.0	654.5	96.5	17.0	42.0	22.5
Merged-chr12-73658647-4	chr12	73658550	73658750	+	943.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	Charlie1a|DNA|hAT-Charlie	73854.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	23.0	25.5	14.5	398.0	39.5	11.0	27.0	14.5
Merged-chr6-125622639-3	chr6	125622532	125622732	+	815.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 18 of 51)	intron (NM_011708, intron 18 of 51)	-67787.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	6.5	8.5	9.5	81.0	30.5	5.5	3.5	3.0
Merged-chr11-69666748-2	chr11	69666648	69666848	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291058)	promoter-TSS (NM_001291058)	-578.0	NR_110993	12514.0	Mm.15819	NM_009853	ENSMUSG00000018774	Cd68	Lamp4|Scard1|gp110	CD68 antigen	protein-coding	13.5	19.0	14.0	89.0	23.0	12.5	9.0	19.5
Merged-chr18-42512257-2	chr18	42512157	42512357	+	807.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360881, intron 1 of 20)	CpG	770.0	NR_110344	56070.0	Mm.270511	NM_001039474	ENSMUSG00000024498	Tcerg1	2410022J09Rik|2900090C16Rik|AI428505|CA150b|FBP23|FBP28|Taf2s|ca150|p144	transcription elongation regulator 1 (CA150)	protein-coding	3.5	6.5	17.5	93.0	17.5	5.0	5.0	8.5
Merged-chr16-31759556-4	chr16	31759451	31759651	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252436, intron 1 of 22)	intron (NM_001252436, intron 1 of 22)	5201.0	NM_001252436	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	14.0	32.0	10.0	269.0	57.0	16.5	20.0	25.5
Merged-chr18-66041338-4	chr18	66041232	66041432	+	836.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38697.0	NM_001172062	70361.0	Mm.290857	NM_027400	ENSMUSG00000041891	Lman1	2610020P13Rik|AI326273|AU043785|C730041J05|ERGIC53|F5F8D|MCFD1|MR60|P58|gp58	lectin, mannose-binding, 1	protein-coding	8.0	17.0	5.0	137.0	15.5	4.5	9.0	9.0
Merged-chr1-180300469-4	chr1	180300380	180300580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-29996.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	79.0	155.0	114.0	1385.5	208.5	85.0	128.0	110.0
Merged-chr12-76267021-2	chr12	76266921	76267121	+	745.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_138745, intron 1 of 27)	intron (NM_138745, intron 1 of 27)	11789.0	NM_138745	108156.0	Mm.29584	NM_138745	ENSMUSG00000021048	Mthfd1	Dcs|E430024A07Rik|Mthfd	methylenetetrahydrofolate dehydrogenase (NADP+ dependent), methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthase	protein-coding	8.0	10.5	9.0	41.5	13.0	8.0	4.0	12.5
Merged-chr15-25267169-4	chr15	25267058	25267258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146606.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	52.0	59.0	64.5	1169.5	69.5	23.0	37.5	24.0
Merged-chr13-69533502-6	chr13	69533394	69533594	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001169131, exon 1 of 13)	5' UTR (NM_001169131, exon 1 of 13)	370.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	20.0	21.5	30.0	227.5	28.0	16.0	23.0	14.5
Merged-chr12-52307790-4	chr12	52307698	52307898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 10 of 10)	intron (NM_029760, intron 10 of 10)	172811.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	77.0	86.5	112.5	1790.5	224.5	63.0	147.5	112.5
Merged-chr3-57735958-4	chr3	57735846	57736046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304456)	promoter-TSS (NM_001304456)	-111.0	NM_011883	24017.0	Mm.274360	NM_011883	ENSMUSG00000036503	Rnf13	2010001H16Rik|Rzf	ring finger protein 13	protein-coding	176.5	334.5	255.0	2945.0	511.5	237.0	234.0	192.0
Merged-chr7-68823464-2	chr7	68823364	68823564	+	822.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74226.0	NM_025549	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	6.0	3.5	5.0	168.5	12.0	5.5	5.0	10.5
Merged-chr3-88533550-2	chr3	88533450	88533650	+	779.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001029890, intron 1 of 1)	intron (NM_001029890, intron 1 of 1)	1155.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	3.5	4.5	2.0	11.5	5.0	7.0	5.5	4.5
Merged-chr4-133011470-4	chr4	133011351	133011551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146155)	promoter-TSS (NM_146155)	-55.0	NM_146155	230793.0	Mm.31816	NM_146155	ENSMUSG00000037692	Ahdc1	D030015G18Rik	AT hook, DNA binding motif, containing 1	protein-coding	32.5	70.5	30.0	480.5	124.5	43.5	50.0	59.5
Merged-chr7-55846356-4	chr7	55846255	55846455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	ORR1C2|LTR|ERVL-MaLR	4284.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	46.5	96.0	40.5	361.5	130.0	52.0	63.5	33.5
Merged-chr6-83323802-4	chr6	83323690	83323890	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2249.0	NM_145571	232157.0	Mm.29500	NM_145571	ENSMUSG00000043131	Mob1a	4022402H07Rik|MOB1|MOB4B|Mobk1b|Mobkl1b	MOB kinase activator 1A	protein-coding	13.5	27.0	19.5	369.0	79.0	17.5	18.5	31.0
Merged-chr1-152625065-5	chr1	152624890	152625090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016846, exon 1 of 18)	exon (NM_016846, exon 1 of 18)	227.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	25.0	50.0	13.0	351.0	102.0	48.5	34.5	41.0
Merged-chr2-148531758-4	chr2	148531571	148531771	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88136.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	15.5	18.5	28.0	262.5	12.0	14.5	15.0	6.0
Merged-chr8-13785737-5	chr8	13785595	13785795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025924)	promoter-TSS (NM_025924)	80.0	NM_025924	67031.0	Mm.44858	NM_025924	ENSMUSG00000038398	Upf3a	2600001C03Rik|4930546M19Rik|RENT3A|UPF3	UPF3 regulator of nonsense transcripts homolog A (yeast)	protein-coding	116.5	181.5	159.0	1492.0	237.0	131.5	98.0	98.0
Merged-chr5-135570618-3	chr5	135570512	135570712	+	933.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019577, exon 3 of 3)	3' UTR (NM_019577, exon 3 of 3)	2437.0	NM_019577	56221.0	Mm.31505	NM_019577	ENSMUSG00000004814	Ccl24	CKb-6|MPIF-2|Scya24	chemokine (C-C motif) ligand 24	protein-coding	4.5	5.0	16.0	125.5	12.5	1.5	3.5	6.0
Merged-chr15-83430470-4	chr15	83430378	83430578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	2372.0	NM_011862	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	30.5	47.5	30.5	396.5	55.0	18.0	20.0	13.0
Merged-chr10-128090760-4	chr10	128090655	128090855	+	988.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_016774)	TTS (NM_016774)	-2028.0	NM_054078	116848.0	Mm.252213	NM_054078	ENSMUSG00000040054	Baz2a	AA415431|C030005G16Rik|C78388|Tip5|Walp3|mKIAA0314	bromodomain adjacent to zinc finger domain, 2A	protein-coding	30.0	39.0	15.0	176.0	73.5	19.5	18.0	19.5
Merged-chr2-22811639-4	chr2	22811526	22811726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	37299.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	32.0	58.0	33.0	419.0	44.5	20.0	32.0	31.0
Merged-chr5-120516659-4	chr5	120516566	120516766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	intron (NM_001177595, intron 2 of 13)	5474.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	119.0	193.0	187.5	2319.0	369.5	142.5	176.5	147.0
Merged-chr16-36985810-4	chr16	36985717	36985917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358217, intron 1 of 3)	ORR1D1|LTR|ERVL-MaLR	4650.0	NM_001358217	207215.0	Mm.211899	NM_001037321	ENSMUSG00000047746	Fbxo40	9830003A13Rik|mKIAA1195	F-box protein 40	protein-coding	126.5	194.0	133.5	1588.5	277.0	89.0	98.5	123.5
Merged-chr2-3657588-3	chr2	3657477	3657677	+	676.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-55881.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	5.5	6.5	3.0	70.5	17.0	7.5	17.0	14.0
Merged-chr15-79659083-4	chr15	79658967	79659167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029407)	promoter-TSS (NM_029407)	-111.0	NM_029407	75729.0	Mm.78946	NM_029407	ENSMUSG00000042564	Fam227a	4933432B09Rik	family with sequence similarity 227, member A	protein-coding	43.0	67.5	59.5	423.5	99.0	58.5	46.0	66.5
Merged-chr7-84143311-4	chr7	84143198	84143398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133722, intron 1 of 2)	intron (NM_133722, intron 1 of 2)	8595.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	18.5	22.5	17.0	428.5	60.5	23.5	35.0	36.0
Merged-chr11-109615344-1	chr11	109615244	109615444	+	543.0	f1_balb.idr	Intergenic	Intergenic	-3955.0	NM_145940	52639.0	Mm.35817	NM_145940	ENSMUSG00000041895	Wipi1	4930533H01Rik|AW411817|D11Ertd498e	WD repeat domain, phosphoinositide interacting 1	protein-coding	2.0	5.0	1.0	87.5	15.5	9.5	5.5	7.5
Merged-chr8-122912247-4	chr8	122912145	122912345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 3 of 12)	intron (NM_001081379, intron 3 of 12)	63871.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	35.5	41.5	31.5	521.5	147.5	47.5	62.5	32.0
Merged-chr1-39408864-4	chr1	39408767	39408967	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018775, intron 2 of 19)	intron (NM_018775, intron 2 of 19)	41016.0	NM_001252218	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	24.0	19.5	23.0	693.5	71.5	22.0	33.0	27.0
Merged-chr11-8610072-4	chr11	8609955	8610155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	54480.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	194.5	313.0	199.0	1949.0	445.0	175.5	187.0	143.5
Merged-chr5-100846395-4	chr5	100846302	100846502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172715, intron 1 of 12)	CpG	173.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	43.5	67.0	50.0	767.0	42.5	29.0	28.0	36.0
Merged-chr4-126254977-4	chr4	126254852	126255052	+	951.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145970, intron 1 of 16)	intron (NM_001145970, intron 1 of 16)	1367.0	NM_144941	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	19.5	47.0	23.0	216.0	71.0	18.0	32.0	35.5
Merged-chr2-160048296-4	chr2	160048193	160048393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC2|LINE|L1	31640.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	40.0	33.5	21.5	346.0	42.5	26.0	31.0	32.0
Merged-chr3-16210121-4	chr3	16210031	16210231	+	919.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172677, intron 5 of 5)	intron (NM_172677, intron 5 of 5)	26966.0	NM_172677	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	25.5	17.5	26.0	344.5	56.0	13.0	13.0	19.0
Merged-chr14-41033550-4	chr14	41033440	41033640	+	680.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19707.0	NM_001316737	70564.0	Mm.27227	NM_027464	ENSMUSG00000021792	Fam213a	5730469M10Rik|AU040822|Adrx|Pamm	family with sequence similarity 213, member A	protein-coding	6.5	6.0	7.0	130.0	22.5	8.0	14.0	1.5
Merged-chr5-65435964-4	chr5	65435866	65436066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009466)	promoter-TSS (NM_009466)	-124.0	NM_009466	22235.0	Mm.344831	NM_009466	ENSMUSG00000029201	Ugdh	Udpgdh	UDP-glucose dehydrogenase	protein-coding	166.5	234.5	168.5	3407.5	434.0	164.5	225.5	155.0
Merged-chr16-76370822-4	chr16	76370723	76370923	+	848.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	2226.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	5.5	15.0	7.5	113.5	42.5	7.5	10.5	13.5
Merged-chr8-95833797-4	chr8	95833702	95833902	+	775.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19689.0	NM_172758	234595.0	Mm.29267	NM_172758	ENSMUSG00000036534	Slc38a7	D430050E18	solute carrier family 38, member 7	protein-coding	15.0	14.5	4.5	223.0	14.0	5.5	12.0	13.5
Merged-chr18-34193220-4	chr18	34193112	34193312	+	875.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27772.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	24.5	17.0	25.0	294.0	50.0	14.0	20.0	7.0
Merged-chr16-33885828-4	chr16	33885737	33885937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 5 of 14)	intron (NM_001145884, intron 5 of 14)	56172.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	16.0	22.5	33.0	513.5	59.0	17.0	22.5	29.5
Merged-chr7-141579211-3	chr7	141579062	141579262	+	969.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357068, intron 1 of 21)	intron (NM_001357068, intron 1 of 21)	16982.0	NM_007459	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	18.0	15.5	14.5	153.5	21.0	5.5	10.0	8.5
Merged-chr8-120686269-4	chr8	120686160	120686360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17940.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	189.5	221.0	272.5	3458.5	343.5	161.0	206.5	193.0
Merged-chr15-27466534-4	chr15	27466413	27466613	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020332)	promoter-TSS (NM_020332)	-164.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	46.5	55.5	27.5	710.0	79.5	23.0	42.5	20.5
Merged-chr14-17879664-4	chr14	17879585	17879785	+	959.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-101959.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	17.0	32.0	22.5	481.5	49.5	11.5	19.5	14.0
Merged-chr9-31163289-5	chr9	31163196	31163396	+	859.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357698, intron 9 of 17)	intron (NM_001357698, intron 9 of 17)	-31497.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	4.5	7.0	9.0	106.0	3.5	5.0	2.5	2.5
Merged-chr5-92436232-4	chr5	92436150	92436350	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5A|LINE|L1	-1051.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	24.0	18.0	6.0	155.5	27.0	17.5	14.0	7.5
Merged-chr7-141562822-2	chr7	141562722	141562922	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357068, intron 1 of 21)	intron (NM_001357068, intron 1 of 21)	642.0	NM_007459	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	8.0	2.0	0.0	93.5	8.5	5.0	5.5	9.0
Merged-chr3-84337730-4	chr3	84337615	84337815	+	747.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32940.0	NM_001271726	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	7.0	22.0	15.0	140.5	14.5	7.5	8.5	12.5
Merged-chr4-149520240-4	chr4	149520119	149520319	+	901.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023465, intron 1 of 4)	intron (NM_023465, intron 1 of 4)	1978.0	NM_023465	67087.0	Mm.299735	NM_023465	ENSMUSG00000028988	Ctnnbip1	1110008O09Rik|2310001I19Rik|AW457332|Catnbip1|Icat	catenin beta interacting protein 1	protein-coding	9.5	21.0	7.5	281.0	29.5	19.0	22.0	13.5
Merged-chr19-4397903-3	chr19	4397766	4397966	+	963.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001984)	promoter-TSS (NM_001001984)	-789.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	22.0	14.5	14.0	202.0	44.0	9.5	8.0	26.0
Merged-chr2-166305167-4	chr2	166305077	166305277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31269.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	23.0	27.0	44.5	489.0	76.5	23.0	56.0	40.0
Merged-chr16-30789150-4	chr16	30789046	30789246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	189423.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	127.5	160.0	99.5	1851.5	250.0	101.5	130.5	95.5
Merged-chr5-79794969-1	chr5	79794869	79795069	+	829.333313	f0_balb.idr	Intergenic	Intergenic	-1225602.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	11.5	6.0	15.0	176.5	2.0	3.0	2.5	1.0
Merged-chr3-104790540-4	chr3	104790447	104790647	+	930.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291859, intron 1 of 4)	intron (NM_001291859, intron 1 of 4)	1513.0	NM_001291859	11853.0	Mm.262	NM_007484	ENSMUSG00000002233	Rhoc	AI324259|Arh9|Arhc	ras homolog family member C	protein-coding	10.5	33.5	12.0	165.5	42.0	10.5	5.5	20.0
Merged-chr9-44483986-2	chr9	44483886	44484086	+	771.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357490, intron 1 of 7)	intron (NM_001357490, intron 1 of 7)	1161.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	6.0	5.0	6.0	16.5	11.0	3.5	11.5	9.5
Merged-chr7-107248847-3	chr7	107248737	107248937	+	695.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	39392.0	NM_029660	76572.0	Mm.128134	NM_029660	ENSMUSG00000073894	Rbmxl2	1700012H05Rik|Hnrnpg-t	RNA binding motif protein, X-linked-like 2	protein-coding	7.5	17.0	19.5	196.5	7.0	0.5	3.0	1.0
Merged-chr1-175880668-4	chr1	175880562	175880762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012012)	promoter-TSS (NM_012012)	-116.0	NM_012012	26909.0	Mm.283046	NM_012012	ENSMUSG00000039748	Exo1	5730442G03Rik|Msa	exonuclease 1	protein-coding	83.5	118.0	160.0	1745.0	108.5	70.5	88.5	98.0
Merged-chr5-136217380-5	chr5	136217222	136217422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302938)	TTS (NM_001302938)	-18368.0	NM_025774	66801.0	Mm.425295	NM_025774	ENSMUSG00000039737	Prkrip1	8430424D23Rik|C114	Prkr interacting protein 1 (IL11 inducible)	protein-coding	47.5	45.5	52.0	329.5	91.5	32.0	27.5	49.0
Merged-chr11-23008380-4	chr11	23008260	23008460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5027.0	NM_028672	73873.0	Mm.252406	NM_028672	ENSMUSG00000049811	Fam161a	4930430E16Rik	family with sequence similarity 161, member A	protein-coding	18.0	35.5	26.0	394.0	47.5	18.5	31.5	25.0
Merged-chr11-119091073-4	chr11	119090985	119091185	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4848.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	22.5	21.5	14.0	256.0	64.0	15.0	22.5	17.0
Merged-chr9-40744416-4	chr9	40744327	40744527	+	963.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-56846.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	70.5	96.5	59.5	644.5	35.5	13.5	14.5	14.0
Merged-chr2-158768607-4	chr2	158768496	158768696	+	811.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027975, intron 1 of 3)	CpG	497.0	NM_027975	71878.0	Mm.85162	NM_027975	ENSMUSG00000027654	Fam83d	2310007D09Rik|BB104611	family with sequence similarity 83, member D	protein-coding	10.0	14.0	11.5	137.5	22.0	12.0	4.0	14.0
Merged-chr11-114568928-6	chr11	114568809	114569009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-99634.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	26.0	25.0	19.0	224.5	43.5	17.0	24.5	18.0
Merged-chr15-101318318-4	chr15	101318201	101318401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25089.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	32.5	58.0	32.5	413.0	75.5	30.0	24.5	40.0
Merged-chr19-21377066-4	chr19	21376960	21377160	+	970.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95601.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	21.5	75.5	66.0	628.0	37.5	16.5	21.5	8.5
Merged-chr8-39338134-3	chr8	39338024	39338224	+	877.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044988, intron 2 of 3)	L1_Mus3|LINE|L1	40144.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	5.5	12.5	12.0	121.0	0.0	0.5	0.0	3.0
Merged-chr1-163994809-4	chr1	163994703	163994903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201364)	promoter-TSS (NM_201364)	-7.0	NM_201364	381306.0	Mm.28152	NM_201364	ENSMUSG00000041406	BC055324	-	cDNA sequence BC055324	protein-coding	78.5	128.0	90.0	1600.5	219.5	64.5	106.0	101.5
Merged-chr12-80325001-7	chr12	80324910	80325110	+	973.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-64629.0	NM_001346669	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	11.0	20.0	15.5	315.5	32.0	13.5	6.5	13.0
Merged-chr14-55788329-4	chr14	55788254	55788454	+	966.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019955, exon 2 of 10)	exon (NM_019955, exon 2 of 10)	503.0	NM_001164107	56532.0	Mm.46612	NM_019955	ENSMUSG00000022221	Ripk3	2610528K09Rik|AW107945|Rip3	receptor-interacting serine-threonine kinase 3	protein-coding	21.5	19.0	16.5	250.0	35.5	9.0	19.0	28.5
Merged-chr3-151771283-3	chr3	151771193	151771393	+	680.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-8402.0	NM_031367	15061.0	Mm.219544	NM_031367	ENSMUSG00000039146	Ifi44l	H-28|H28|H28-1|NS1178	interferon-induced protein 44 like	protein-coding	4.5	10.0	9.0	190.0	0.0	1.5	0.0	0.0
Merged-chr11-50225281-4	chr11	50225199	50225399	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145926)	promoter-TSS (NM_145926)	-36.0	NM_145926	103534.0	Mm.86759	NM_145926	ENSMUSG00000036620	Mgat4b	AA407995|GnTIVb	mannoside acetylglucosaminyltransferase 4, isoenzyme B	protein-coding	26.0	38.5	20.0	348.0	73.0	22.5	19.5	29.0
Merged-chr9-72526250-4	chr9	72526151	72526351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045735, intron 1 of 2)	MTC|LTR|ERVL-MaLR	5607.0	NR_045735	75115.0	Mm.280755	NR_045735	ENSMUSG00000096986	4930509E16Rik	-	RIKEN cDNA 4930509E16 gene	ncRNA	36.5	48.5	29.5	429.5	43.5	17.5	27.0	34.0
Merged-chr18-82910941-3	chr18	82910844	82911044	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183033)	promoter-TSS (NM_183033)	65.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	22.5	38.0	14.0	229.5	34.5	14.0	31.0	29.5
Merged-chr18-82815350-4	chr18	82815254	82815454	+	984.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-40543.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	18.0	25.0	14.5	228.0	70.5	14.5	30.5	24.5
Merged-chr9-56200843-3	chr9	56200741	56200941	+	623.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172924)	TTS (NM_172924)	-39771.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	5.0	9.0	5.0	85.5	10.0	7.5	8.5	3.5
Merged-chr14-17812637-1	chr14	17812537	17812737	+	692.0	f0_balb.idr	intron (NM_001113417, intron 1 of 9)	L1M5|LINE|L1	151677.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	4.0	8.0	7.0	154.0	25.0	13.5	5.0	10.0
Merged-chr1-156450720-4	chr1	156450582	156450782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 3 of 15)	intron (NM_009230, intron 3 of 15)	23646.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	91.5	158.5	103.5	1544.5	75.5	33.0	40.5	40.0
Merged-chr2-75705361-4	chr2	75705249	75705449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010902)	promoter-TSS (NM_010902)	-686.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	25.5	55.0	30.0	484.0	204.0	74.0	80.5	58.5
Merged-chr5-62766356-4	chr5	62766274	62766474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178407)	promoter-TSS (NM_178407)	-197.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	53.5	50.0	46.5	691.5	66.0	22.0	29.5	23.5
Merged-chr17-63864372-4	chr17	63864281	63864481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	CpG	400.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	53.5	70.5	64.5	689.5	105.5	46.5	47.5	42.5
Merged-chr17-56668972-4	chr17	56668915	56669115	+	927.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4210.0	NM_001252466	71810.0	Mm.29608	NM_027933	ENSMUSG00000002372	Ranbp3	2610024N24Rik|AA408221	RAN binding protein 3	protein-coding	12.5	18.5	4.5	179.5	31.0	17.0	12.0	19.5
Merged-chr8-13673438-4	chr8	13673320	13673520	+	999.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	4167.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	15.5	20.5	15.5	330.5	33.0	7.5	20.0	18.0
Merged-chr9-96393901-4	chr9	96393774	96393974	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-29443.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	5.5	3.5	5.5	123.0	37.0	14.5	11.5	20.5
Merged-chr9-92485043-3	chr9	92484905	92485105	+	790.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178711, intron 6 of 8)	intron (NM_178711, intron 6 of 8)	27627.0	NM_178711	235527.0	Mm.55289	NM_178711	ENSMUSG00000032377	Plscr4	AV245873	phospholipid scramblase 4	protein-coding	11.5	8.0	6.0	230.5	4.0	3.5	3.5	2.0
Merged-chr9-50739412-4	chr9	50739318	50739518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025865)	TTS (NM_025865)	-1683.0	NM_001311069	330938.0	Mm.82598	NM_178118	ENSMUSG00000032064	Dixdc1	4930563F16Rik|BC048182|Ccd1|Ccd1Aalpha1L|Ccd1Abeta1L|Ccd1BalphaL|Ccd1BbetaL|Ccd1CL|mKIAA1735	DIX domain containing 1	protein-coding	58.0	136.5	68.0	1027.0	165.0	88.5	89.5	48.5
Merged-chr9-78443237-4	chr9	78443141	78443341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173386)	promoter-TSS (NM_173386)	-4.0	NM_173386	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	77.0	153.0	87.5	1451.0	230.5	111.5	106.5	84.5
Merged-chr9-121710286-4	chr9	121710184	121710384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026794)	promoter-TSS (NM_026794)	-105.0	NM_026794	26901.0	Mm.24848	NM_026794	ENSMUSG00000032526	Ss18l2	1110020I04Rik|AI463209|Deb1	SS18, nBAF chromatin remodeling complex subunit like 2	protein-coding	231.0	394.0	201.5	2872.5	587.0	214.0	266.5	220.0
Merged-chr5-103760936-4	chr5	103760845	103761045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	6372.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	110.0	116.5	120.5	1102.0	226.5	74.0	97.5	91.0
Merged-chr19-24156253-3	chr19	24156145	24156345	+	869.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011597, intron 1 of 22)	intron (NM_011597, intron 1 of 22)	-13163.0	NM_001360391	21873.0	Mm.104744	NM_011597	ENSMUSG00000024812	Tjp2	ZO-2	tight junction protein 2	protein-coding	5.0	6.5	7.0	183.5	5.5	4.5	8.0	2.0
Merged-chr10-80848738-3	chr10	80848637	80848837	+	992.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ZP3AR|Satellite|Satellite	-4698.0	NM_001013758	237403.0	Mm.40213	NM_001013758	ENSMUSG00000051067	Lingo3	AI851712|LERN2	leucine rich repeat and Ig domain containing 3	protein-coding	18.5	42.5	14.5	161.0	24.0	4.5	8.5	8.5
Merged-chr8-84966154-4	chr8	84966051	84966251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027187)	promoter-TSS (NM_027187)	-140.0	NM_027187	69724.0	Mm.182470	NM_027187	ENSMUSG00000052926	Rnaseh2a	2400006P09Rik|RNASEHI|RNHIA|RNHL	ribonuclease H2, large subunit	protein-coding	123.0	171.0	130.0	1770.0	267.5	84.5	119.5	108.5
Merged-chr16-95955450-3	chr16	95955340	95955540	+	935.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-26363.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	6.5	6.5	2.5	131.5	23.5	6.0	12.5	4.5
Merged-chr2-6748217-2	chr2	6748117	6748317	+	918.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-26555.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	6.0	5.5	7.0	124.5	13.5	1.5	6.0	4.0
Merged-chr3-61400760-2	chr3	61400660	61400860	+	585.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36253.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	6.0	4.5	6.0	38.0	8.5	2.0	2.0	1.5
Merged-chr11-95333425-4	chr11	95333318	95333518	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3600.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	25.5	20.0	16.5	246.0	32.0	13.5	15.0	13.0
Merged-chr11-55458381-4	chr11	55458275	55458475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 1 of 3)	intron (NM_009720, intron 1 of 3)	2833.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	56.5	55.5	46.5	672.0	115.0	45.5	60.5	55.0
Merged-chr3-100440888-4	chr3	100440787	100440987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14482.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	67.0	43.5	41.5	1275.5	235.5	55.0	119.0	101.0
Merged-chr16-55790550-4	chr16	55790445	55790645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31593.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	75.0	57.0	77.5	853.0	83.5	31.0	37.0	26.5
Merged-chr9-57589496-4	chr9	57589395	57589595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027895)	promoter-TSS (NM_027895)	43.0	NM_027895	71742.0	Mm.155877	NM_027895	ENSMUSG00000032308	Ulk3	1200015E14Rik	unc-51-like kinase 3	protein-coding	28.5	40.5	22.0	424.5	60.0	19.0	21.5	25.0
Merged-chr7-46987761-3	chr7	46987654	46987854	+	987.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033461)	TTS (NR_033461)	11122.0	NR_033461	629141.0	Mm.229259	NR_033461	ENSMUSG00000056509	Gm9999	-	predicted gene 9999	ncRNA	9.5	5.0	16.0	214.0	13.5	15.0	5.5	8.0
Merged-chr2-72235401-2	chr2	72235301	72235501	+	638.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 21 of 26)	intron (NM_001355478, intron 21 of 26)	-50236.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	2.0	5.0	2.0	58.0	12.0	8.0	16.5	6.5
Merged-chr8-84743313-3	chr8	84743191	84743391	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081982, intron 2 of 9)	intron (NM_001081982, intron 2 of 9)	31078.0	NM_001081981	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	8.0	30.0	11.5	97.5	10.5	8.0	4.5	9.0
Merged-chr18-80392197-3	chr18	80392135	80392335	+	864.3110960000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27981.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	17.0	16.0	7.5	151.0	13.5	4.0	12.5	9.0
Merged-chr14-122463815-7	chr14	122463664	122463864	+	950.595215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022987, intron 1 of 1)	CpG	1894.0	NM_022987	65100.0	Mm.390761	NM_022987	ENSMUSG00000041703	Zic5	1700049L20Rik|Opr	zinc finger protein of the cerebellum 5	protein-coding	2.5	10.0	18.0	91.0	22.0	7.0	6.0	19.0
Merged-chr3-88494107-4	chr3	88494007	88494207	+	904.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019390)	promoter-TSS (NM_019390)	-795.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	9.0	7.0	4.5	150.0	16.0	9.0	13.5	13.0
Merged-chr13-81041829-4	chr13	81041738	81041938	+	907.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	ORR1E|LTR|ERVL-MaLR	77764.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	16.0	11.5	10.5	302.0	48.5	11.0	4.0	24.0
Merged-chr13-55600828-4	chr13	55600728	55600928	+	878.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146045, intron 1 of 5)	intron (NM_146045, intron 1 of 5)	932.0	NM_001311137	218271.0	Mm.139825	NM_146045	ENSMUSG00000021504	B4galt7	-	xylosylprotein beta1,4-galactosyltransferase, polypeptide 7 (galactosyltransferase I)	protein-coding	11.5	27.0	10.5	229.0	41.0	12.0	10.0	9.5
Merged-chr9-85361238-2	chr9	85361138	85361338	+	971.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34088.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	6.5	11.0	5.5	55.0	17.0	0.0	5.0	0.0
Merged-chr7-30594731-4	chr7	30594620	30594820	+	870.1124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153655, intron 1 of 3)	intron (NR_153655, intron 1 of 3)	-1778.0	NM_021397	58206.0	Mm.116789	NM_021397	ENSMUSG00000006310	Zbtb32	4930524C15Rik|FAXF|FAZF|PLZP|Rog|Tzfp	zinc finger and BTB domain containing 32	protein-coding	12.5	67.5	18.5	105.5	56.5	20.0	13.5	16.0
Merged-chr10-127050292-4	chr10	127050174	127050374	+	930.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010009, exon 5 of 9)	exon (NM_010009, exon 5 of 9)	2028.0	NM_010009	13115.0	Mm.6216	NM_010009	ENSMUSG00000006724	Cyp27b1	Cp2b|Cyp1|Cyp27b|Cyp40|P450c1|Pddr|Vdd1|Vddr|VddrI|Vdr	cytochrome P450, family 27, subfamily b, polypeptide 1	protein-coding	14.5	34.0	13.5	167.5	65.5	19.5	11.0	21.5
Merged-chr8-8459080-4	chr8	8458998	8459198	+	917.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	201675.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	14.5	44.5	16.5	86.0	69.0	33.5	18.0	21.0
Merged-chr3-63963892-3	chr3	63963790	63963990	+	891.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015728, exon 1 of 6)	exon (NM_015728, exon 1 of 6)	843.0	NM_001272035	11416.0	Mm.135619	NM_015728	ENSMUSG00000027822	Slc33a1	AI315656|AI788741|Acatn|D630022N01Rik	solute carrier family 33 (acetyl-CoA transporter), member 1	protein-coding	8.0	6.5	11.0	114.5	7.0	2.5	8.0	9.5
Merged-chr18-39612166-4	chr18	39612068	39612268	+	849.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124923.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	6.5	8.0	8.5	212.5	35.0	5.0	14.0	12.0
Merged-chr15-64276488-4	chr15	64276407	64276607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	36166.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	35.0	36.0	45.0	512.5	54.5	27.0	33.5	21.0
Merged-chr5-24781268-4	chr5	24781162	24781362	+	972.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-23419.0	NM_153076	214301.0	Mm.63484	NM_153076	ENSMUSG00000038135	Crygn	-	crystallin, gamma N	protein-coding	25.0	19.0	18.0	325.0	48.0	21.5	26.0	35.5
Merged-chr11-8566665-4	chr11	8566579	8566779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	intron (NM_001083587, intron 4 of 30)	97856.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	201.0	351.0	178.5	2757.5	390.0	147.0	179.5	135.0
Merged-chr7-111429701-2	chr7	111429601	111429801	+	778.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-307026.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	3.5	9.0	3.0	34.5	16.0	5.5	4.5	6.5
Merged-chr2-91444670-4	chr2	91444571	91444771	+	971.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311144)	promoter-TSS (NM_001311144)	43.0	NM_001311144	228356.0	Mm.386861	NM_175123	ENSMUSG00000040591	1110051M20Rik	AI586322	RIKEN cDNA 1110051M20 gene	protein-coding	18.5	45.5	12.5	199.0	77.5	16.0	22.0	12.5
Merged-chr13-103807558-3	chr13	103807433	103807633	+	787.972229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-32925.0	NM_001361085	218543.0	Mm.458176	NM_172592	ENSMUSG00000032621	Srek1	8430401B01|AI450757|AI462342|SRrp508|SRrp86|Sfrs12|Srsf12	splicing regulatory glutamine/lysine-rich protein 1	protein-coding	9.5	3.5	13.0	81.0	10.5	8.0	6.5	7.0
Merged-chr8-120131324-4	chr8	120131226	120131426	+	881.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172286, intron 1 of 12)	intron (NM_172286, intron 1 of 12)	-13603.0	NM_001163760	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	10.5	11.5	21.5	296.0	10.5	8.5	12.0	7.5
Merged-chr5-96909449-4	chr5	96909364	96909564	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	-11808.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	18.0	26.5	15.0	310.5	82.0	22.5	37.0	48.0
Merged-chr19-6046124-2	chr19	6046040	6046240	+	805.25	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_028769)	promoter-TSS (NM_028769)	-436.0	NM_028769	74126.0	Mm.149870	NM_028769	ENSMUSG00000024807	Syvn1	1200010C09Rik|AW211966|C85322|D530017H19Rik|Hrd1	synovial apoptosis inhibitor 1, synoviolin	protein-coding	6.0	12.0	6.0	44.0	22.0	7.5	8.5	15.5
Merged-chr12-3739276-4	chr12	3739164	3739364	+	788.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-67716.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	5.0	8.5	10.5	92.0	16.5	11.0	14.0	13.5
Merged-chr4-3967734-4	chr4	3967637	3967837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28313.0	NR_104356	66433.0	Mm.27406	NM_181391	ENSMUSG00000042198	Chchd7	1810049H20Rik	coiled-coil-helix-coiled-coil-helix domain containing 7	protein-coding	35.5	62.0	34.5	603.5	120.0	34.5	37.0	31.5
Merged-chr17-50522657-3	chr17	50522536	50522736	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	13089.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	30.5	48.0	23.5	416.5	2.5	2.0	1.0	1.0
Merged-chr11-76498323-2	chr11	76498223	76498423	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198018, intron 1 of 21)	intron (NM_198018, intron 1 of 21)	-3828.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	4.5	8.5	8.0	93.5	22.5	8.0	8.0	10.0
Merged-chr4-117916635-3	chr4	117916573	117916773	+	677.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1674.0	NM_146152	230673.0	Mm.287810	NM_146152	ENSMUSG00000033365	Ipo13	Imp13|Kap13|Ranbp13	importin 13	protein-coding	3.0	0.0	4.5	24.5	27.0	8.5	9.0	5.5
Merged-chr7-100150606-4	chr7	100150546	100150746	+	950.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8631.0	NM_026010	67164.0	Mm.46777	NM_026010	ENSMUSG00000030725	Lipt2	2610209A20Rik	lipoyl(octanoyl) transferase 2 (putative)	protein-coding	7.0	9.0	13.5	107.0	31.0	15.0	10.5	18.0
Merged-chr3-37332356-4	chr3	37332268	37332468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16285.0	NM_008006	14173.0	Mm.473689	NM_008006	ENSMUSG00000037225	Fgf2	Fgf-2|Fgfb|bFGF	fibroblast growth factor 2	protein-coding	65.0	63.0	83.0	1490.0	179.5	54.0	84.5	77.0
Merged-chr3-69117302-3	chr3	69117171	69117371	+	622.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008467, intron 1 of 16)	intron (NM_008467, intron 1 of 16)	9821.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	5.5	10.0	5.0	36.0	17.5	1.5	3.0	5.0
Merged-chr1-86509600-4	chr1	86509527	86509727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16930.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	84.0	128.0	61.0	1027.5	164.5	55.0	65.5	67.0
Merged-chr2-101678434-4	chr2	101678340	101678540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009424)	promoter-TSS (NM_009424)	20.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	80.5	87.0	90.5	1284.5	177.5	67.0	107.5	73.0
Merged-chr9-70833265-4	chr9	70833166	70833366	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	101542.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	24.5	39.0	14.5	409.0	74.5	14.5	17.5	10.5
Merged-chr11-116095202-4	chr11	116095123	116095323	+	844.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8228.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	16.0	14.0	8.0	59.5	46.5	12.5	11.0	14.0
Merged-chr16-90396387-4	chr16	90396275	90396475	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 1 of 10)	intron (NM_015755, intron 1 of 10)	9978.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	36.5	35.5	23.0	371.0	32.5	9.0	19.0	6.0
Merged-chr13-34667402-4	chr13	34667301	34667501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_105041)	TTS (NR_105041)	14478.0	NR_105041	101056149.0	Mm.421309	NR_105041	ENSMUSG00000086786	Gm15908	-	predicted gene 15908	ncRNA	39.0	46.0	29.5	560.0	65.0	21.0	36.5	32.5
Merged-chr15-76700792-4	chr15	76700682	76700882	+	840.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027122)	promoter-TSS (NM_027122)	-760.0	NM_027122	69572.0	Mm.34920	NM_027122	ENSMUSG00000019080	Mfsd3	2310010G13Rik	major facilitator superfamily domain containing 3	protein-coding	14.0	11.5	10.5	172.5	17.5	14.0	7.0	12.0
Merged-chr9-107548266-4	chr9	107548176	107548376	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053253, intron 2 of 11)	intron (NM_053253, intron 2 of 11)	966.0	NM_053253	114602.0	Mm.28331	NM_053253	ENSMUSG00000010044	Zmynd10	Blu	zinc finger, MYND domain containing 10	protein-coding	3.5	7.5	5.5	102.5	93.5	27.0	37.0	39.0
Merged-chr19-6296758-4	chr19	6296637	6296837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 3 of 4)	intron (NM_010119, intron 3 of 4)	-9720.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	63.0	176.0	45.0	282.0	262.5	115.5	53.5	27.0
Merged-chr12-51729229-3	chr12	51729133	51729333	+	883.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329698, intron 4 of 5)	intron (NM_001329698, intron 4 of 5)	-37319.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	5.5	15.0	14.5	131.5	3.0	2.5	1.0	5.5
Merged-chr7-127026212-8	chr7	127026062	127026262	+	865.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010772, intron 1 of 4)	intron (NM_010772, intron 1 of 4)	317.0	NM_010772	17188.0	Mm.378964	NM_010772	ENSMUSG00000030678	Maz	MAZI|PUR1|Pur-1|SAF-1|SAF-2	MYC-associated zinc finger protein (purine-binding transcription factor)	protein-coding	2.0	6.0	7.0	114.5	20.5	10.5	7.0	14.5
Merged-chr16-32003186-4	chr16	32003078	32003278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177103, exon 1 of 10)	5' UTR (NM_177103, exon 1 of 10)	109.0	NM_001357087	320213.0	Mm.152890	NM_023801	ENSMUSG00000022772	Senp5	6230429P13Rik|A730063F07Rik|AI851888|BB189556|SMT3IP3	SUMO/sentrin specific peptidase 5	protein-coding	91.5	184.5	63.5	1203.5	229.5	97.0	102.5	120.0
Merged-chr15-97195896-4	chr15	97195805	97196005	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28661.0	NR_155279	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	27.5	38.0	17.0	371.5	86.5	31.0	28.5	14.5
Merged-chr15-78185075-3	chr15	78184939	78185139	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-10931.0	NM_025931	67042.0	Mm.30191	NM_025931	ENSMUSG00000016637	Ift27	2600013G09Rik|Rabl4	intraflagellar transport 27	protein-coding	8.5	32.0	12.0	177.0	23.0	7.0	12.0	6.0
Merged-chr15-84350379-4	chr15	84350207	84350407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24188.0	NM_001162500	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	6.5	7.5	16.0	159.5	19.5	5.0	7.5	11.5
Merged-chr5-112265664-4	chr5	112265549	112265749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312893, intron 4 of 5)	intron (NM_001312893, intron 4 of 5)	9829.0	NM_001312893	12960.0	Mm.29488	NM_023695	ENSMUSG00000029343	Crybb1	3110006K12Rik|BB1CRY	crystallin, beta B1	protein-coding	109.5	157.5	89.5	1956.0	279.5	124.5	195.5	160.0
Merged-chr10-93680849-3	chr10	93680736	93680936	+	789.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038017, intron 1 of 5)	intron (NR_038017, intron 1 of 5)	2486.0	NR_038017	100504069.0	Mm.391412	NR_038017	ENSMUSG00000085723	Gm15915	-	predicted gene 15915	ncRNA	11.5	12.5	6.5	144.0	15.5	8.0	17.5	10.0
Merged-chr1-128722234-4	chr1	128722146	128722346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129947.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	239.0	426.0	244.5	3343.0	607.5	229.0	281.5	236.0
Merged-chr19-29442638-4	chr19	29442533	29442733	+	925.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 3 of 5)	intron (NM_021396, intron 3 of 5)	31714.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	21.5	14.0	20.5	275.5	52.0	17.5	9.0	9.0
Merged-chr10-86948694-2	chr10	86948594	86948794	+	766.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 17 of 68)	L2a|LINE|L2	59248.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	6.5	10.5	9.0	49.5	14.5	7.0	9.5	5.0
Merged-chr18-39876020-4	chr18	39875943	39876143	+	895.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102546.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	10.5	9.5	4.5	60.5	40.5	17.5	18.0	7.5
Merged-chr6-29273413-2	chr6	29273313	29273513	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023516, intron 1 of 1)	intron (NM_023516, intron 1 of 1)	787.0	NM_023516	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	5.0	6.5	7.0	66.5	4.0	1.5	7.0	5.5
Merged-chr13-47242609-4	chr13	47242521	47242721	+	939.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 6 of 7)	intron (NM_146042, intron 6 of 7)	48618.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	20.0	17.5	30.5	335.0	45.0	8.5	12.0	13.0
Merged-chr14-73122698-4	chr14	73122616	73122816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19794.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	150.5	165.0	188.5	2331.0	332.0	97.5	154.5	142.0
Merged-chr7-129591980-4	chr7	129591896	129592096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172255, exon 1 of 29)	exon (NM_172255, exon 1 of 29)	133.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	19.5	40.5	31.5	502.5	61.0	27.0	20.5	49.0
Merged-chr17-87260968-3	chr17	87260816	87261016	+	975.4166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139295, intron 1 of 3)	ORR1A2-int|LTR|ERVL-MaLR	5031.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	4.0	3.5	15.5	46.0	35.5	6.0	29.5	22.5
Merged-chr10-24638137-4	chr10	24638032	24638232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008813, exon 25 of 25)	3' UTR (NM_008813, exon 25 of 25)	42690.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	20.5	34.5	39.0	718.0	52.0	22.0	32.5	28.5
Merged-chr6-28623188-4	chr6	28623103	28623303	+	816.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 10 of 23)	intron (NM_019776, intron 10 of 23)	142855.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	8.0	13.5	6.5	152.0	24.0	8.0	11.5	11.5
Merged-chr11-74830438-4	chr11	74830340	74830540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010813)	promoter-TSS (NM_010813)	-484.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	193.5	381.0	227.0	2904.5	557.5	234.0	239.5	152.0
Merged-chr16-43253248-2	chr16	43253148	43253348	+	737.799988	f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 1 of 6)	intron (NM_181058, intron 1 of 6)	5964.0	NM_019778	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	3.0	12.0	5.5	59.0	17.5	10.5	7.5	6.0
Merged-chr3-96728439-4	chr3	96728338	96728538	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028925)	promoter-TSS (NM_028925)	827.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	17.0	17.5	15.0	106.0	36.5	15.0	18.0	8.0
Merged-chr8-122476142-4	chr8	122476034	122476234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153775)	promoter-TSS (NM_153775)	-9.0	NM_153775	66965.0	Mm.482288	NM_153775	ENSMUSG00000049482	Ctu2	2310061F22Rik|C16orf84|Ncs2	cytosolic thiouridylase subunit 2	protein-coding	119.5	206.5	99.5	1260.5	301.5	134.0	91.5	123.0
Merged-chr2-153557571-4	chr2	153557481	153557681	+	966.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27610.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	20.5	31.5	14.0	134.0	64.0	16.0	37.5	11.5
Merged-chr2-124625963-2	chr2	124625863	124626063	+	701.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	15667.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	5.0	5.0	5.0	36.0	13.5	4.0	0.5	3.0
Merged-chr1-156025294-4	chr1	156025188	156025388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144791, intron 4 of 6)	intron (NM_144791, intron 4 of 6)	9529.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	31.0	77.5	47.5	630.5	141.5	30.0	51.0	66.5
Merged-chr12-82257080-3	chr12	82256954	82257154	+	930.7000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	intron (NM_001167983, intron 2 of 23)	-54295.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	15.0	11.0	10.0	103.5	12.0	6.0	9.5	7.0
Merged-chr14-55148665-4	chr14	55148569	55148769	+	897.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31734.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	12.0	15.5	10.5	166.0	47.5	10.0	4.0	19.5
Merged-chr7-98085576-4	chr7	98085473	98085673	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 15 of 48)	intron (NM_008663, intron 15 of 48)	23675.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	24.5	43.0	16.0	230.5	45.0	16.5	21.5	24.0
Merged-chr7-98815330-4	chr7	98815210	98815410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-19802.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	52.0	63.0	39.0	740.0	125.0	37.0	49.0	57.0
Merged-chr18-38338431-4	chr18	38338313	38338513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011937, intron 1 of 6)	intron (NM_011937, intron 1 of 6)	580.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	25.5	54.5	44.0	433.0	78.0	34.0	47.5	44.0
Merged-chr4-133753860-2	chr4	133753760	133753960	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080819)	promoter-TSS (NM_001080819)	-249.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	19.5	22.0	19.0	162.5	43.5	20.5	12.0	32.0
Merged-chr10-60273579-4	chr10	60273480	60273680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4048.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	47.5	68.5	60.0	731.5	144.0	50.5	62.5	53.0
Merged-chr3-126770250-4	chr3	126770125	126770325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025439, intron 5 of 19)	intron (NM_001025439, intron 5 of 19)	173161.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	27.5	25.0	43.0	629.5	94.5	38.5	47.0	47.0
Merged-chr2-91098824-4	chr2	91098749	91098949	+	886.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 1 of 4)	intron (NM_011355, intron 1 of 4)	2171.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	15.0	11.0	15.0	118.5	37.0	10.0	13.5	13.5
Merged-chr12-76943748-4	chr12	76943693	76943893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361663, intron 3 of 4)	intron (NM_001361663, intron 3 of 4)	18455.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	33.0	40.5	30.5	543.0	64.5	27.0	28.5	27.5
Merged-chr3-53466709-4	chr3	53466632	53466832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173382, intron 1 of 12)	intron (NM_173382, intron 1 of 12)	2915.0	NM_173382	212127.0	Mm.491292	NM_173382	ENSMUSG00000049504	Proser1	2810046L04Rik|9330161F11	proline and serine rich 1	protein-coding	40.0	74.5	31.5	454.5	110.5	32.0	38.5	31.5
Merged-chr4-24850936-5	chr4	24850782	24850982	+	904.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033531, exon 1 of 10)	5' UTR (NM_001033531, exon 1 of 10)	242.0	NM_001163020	212390.0	Mm.409581	NM_001033531	ENSMUSG00000040387	Klhl32	6430524H05Rik|D4Ertd389e|Gm1356|mKIAA1900	kelch-like 32	protein-coding	5.5	20.5	25.5	173.0	13.0	3.5	3.0	9.5
Merged-chr3-104994779-4	chr3	104994643	104994843	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33034.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	10.0	16.5	15.5	309.0	18.0	9.5	15.0	29.0
Merged-chr8-25994182-4	chr8	25994183	25994383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029037)	promoter-TSS (NM_029037)	-162.0	NM_029037	74653.0	Mm.17631	NM_029037	ENSMUSG00000037251	Pomk	4930444A02Rik|Sgk196	protein-O-mannose kinase	protein-coding	32.0	43.0	30.5	470.0	63.5	21.5	33.5	33.5
Merged-chr11-82032813-4	chr11	82032719	82032919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2758.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	21.5	37.0	18.5	423.5	66.5	21.0	48.0	27.5
Merged-chr2-164085895-4	chr2	164085796	164085996	+	960.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021420, intron 3 of 10)	intron (NM_021420, intron 3 of 10)	11718.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	20.5	17.0	35.5	445.0	13.5	5.5	19.0	23.0
Merged-chr13-49192619-7	chr13	49192524	49192724	+	878.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	5077.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	11.0	11.0	9.0	109.0	21.0	5.5	6.5	5.5
Merged-chr11-114959220-2	chr11	114959120	114959320	+	857.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_199225, intron 2 of 3)	RSINE1|SINE|B4	1197.0	NM_199225	387565.0	Mm.351450	NM_199225	ENSMUSG00000058728	Cd300c	Clm6	CD300C molecule	protein-coding	7.5	7.0	6.5	26.0	12.0	1.0	0.5	0.0
Merged-chr17-73973734-4	chr17	73973616	73973816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23520.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	24.5	35.0	22.0	510.5	80.0	23.0	38.5	33.0
Merged-chr19-46600577-4	chr19	46600485	46600685	+	763.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146099, intron 1 of 3)	L1MB5|LINE|L1	1479.0	NM_146099	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	5.0	9.0	12.0	114.0	22.5	8.5	5.0	10.5
Merged-chr2-129311763-4	chr2	129311648	129311848	+	945.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1776.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	22.5	49.0	20.5	120.5	62.0	16.0	30.0	18.5
Merged-chr6-124741500-1	chr6	124741400	124741600	+	1000.0	f0_c57.idr	promoter-TSS (NM_013535)	promoter-TSS (NM_013535)	-421.0	NM_013535	14790.0	Mm.439877	NM_013535	ENSMUSG00000072772	Grcc10	2310033H05Rik|C10	gene rich cluster, C10 gene	protein-coding	52.5	79.5	35.0	418.0	93.0	38.0	38.0	37.0
Merged-chr9-67839548-2	chr9	67839457	67839657	+	660.5	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_177184)	promoter-TSS (NM_177184)	-839.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	7.0	12.0	19.0	96.0	18.5	4.5	2.0	12.5
Merged-chr17-26663108-4	chr17	26662991	26663191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13305.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	79.0	123.5	46.5	1006.5	165.5	62.0	71.0	79.5
Merged-chr12-117843740-4	chr12	117843636	117843836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146040)	promoter-TSS (NM_146040)	-125.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	65.0	58.5	95.5	990.0	151.5	44.0	47.0	74.5
Merged-chr2-160368689-2	chr2	160368589	160368789	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1624.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	4.5	5.0	3.0	57.5	17.0	6.0	5.0	5.0
Merged-chr13-90886893-4	chr13	90886799	90886999	+	824.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145879, intron 5 of 6)	intron (NM_001145879, intron 5 of 6)	18456.0	NM_001145879	435376.0	Mm.292579	NM_001145879	ENSMUSG00000078958	Atp6ap1l	EG435376	ATPase, H+ transporting, lysosomal accessory protein 1-like	protein-coding	6.0	9.5	3.0	92.0	34.0	9.0	10.0	15.5
Merged-chr5-67943377-4	chr5	67943307	67943507	+	783.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038182)	promoter-TSS (NR_038182)	-326.0	NR_038182	73865.0	Mm.66946	NR_038182	ENSMUSG00000106880	4930425K10Rik	-	RIKEN cDNA 4930425K10 gene	ncRNA	8.0	10.0	14.5	233.5	23.0	9.0	15.5	12.0
Merged-chr10-24151450-4	chr10	24151333	24151533	+	973.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 1 of 9)	intron (NM_016797, intron 1 of 9)	2116.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	18.5	29.5	16.5	299.0	70.5	13.0	21.0	23.5
Merged-chr3-142882106-4	chr3	142882054	142882254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178654)	promoter-TSS (NM_178654)	-150.0	NM_178654	109333.0	Mm.244236	NM_178654	ENSMUSG00000004591	Pkn2	6030436C20Rik|AI507382|PRK2|Prkcl2|Stk7	protein kinase N2	protein-coding	289.0	380.0	268.0	3399.5	822.0	323.0	437.0	345.0
Merged-chr18-68059578-4	chr18	68059471	68059671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	126398.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	22.0	31.0	22.5	388.5	43.5	15.5	28.5	15.0
Merged-chr12-83502390-3	chr12	83502269	83502469	+	760.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14633.0	NM_058212	70127.0	Mm.151308	NM_058212	ENSMUSG00000021221	Dpf3	2810403B03Rik|6530402L11Rik|BAF45C|C78788|CERD4|cer-d4	D4, zinc and double PHD fingers, family 3	protein-coding	5.5	7.0	1.0	84.0	10.5	4.5	7.5	5.0
Merged-chr7-127769081-4	chr7	127769016	127769216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198424)	promoter-TSS (NM_198424)	-699.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	128.5	195.0	116.5	1433.0	328.5	134.5	147.5	124.5
Merged-chr3-129724197-3	chr3	129724103	129724303	+	823.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010113, intron 6 of 23)	intron (NM_010113, intron 6 of 23)	883.0	NM_001310737	13645.0	Mm.252481	NM_010113	ENSMUSG00000028017	Egf	AI790464	epidermal growth factor	protein-coding	3.0	1.0	5.0	67.5	13.0	5.0	4.5	9.5
Merged-chr8-69081631-4	chr8	69081535	69081735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153054, intron 1 of 16)	intron (NM_153054, intron 1 of 16)	-7101.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	21.5	57.0	32.5	461.0	67.5	34.5	30.0	21.5
Merged-chr7-45707747-4	chr7	45707627	45707827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016974, intron 2 of 3)	intron (NM_016974, intron 2 of 3)	2480.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	53.5	133.0	45.5	708.5	185.5	78.5	62.0	70.0
Merged-chr5-92485067-4	chr5	92484970	92485170	+	902.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 2 of 11)	intron (NM_007644, intron 2 of 11)	20587.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	23.0	34.0	11.5	188.5	37.5	10.5	13.0	3.0
Merged-chr1-174049570-4	chr1	174049444	174049644	+	925.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146716)	promoter-TSS (NM_146716)	-831.0	NM_146716	258711.0	Mm.377648	NM_146716	ENSMUSG00000047048	Olfr432	MOR123-2	olfactory receptor 432	protein-coding	45.5	90.5	39.5	429.5	30.0	14.5	9.0	10.5
Merged-chr6-5583172-4	chr6	5583097	5583297	+	813.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86919.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	8.5	20.0	8.5	138.5	45.5	9.5	14.5	14.0
Merged-chr2-122301696-3	chr2	122301604	122301804	+	650.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025777, exon 5 of 6)	exon (NM_025777, exon 5 of 6)	2804.0	NM_025777	66811.0	Mm.171333	NM_025777	ENSMUSG00000027225	Duoxa2	9030623N16Rik|Nip2	dual oxidase maturation factor 2	protein-coding	13.0	5.5	7.5	124.5	20.5	2.0	5.5	6.5
Merged-chr4-47303540-4	chr4	47303439	47303639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 33 of 39)	intron (NM_009928, intron 33 of 39)	-49683.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	55.0	102.5	98.0	669.5	159.5	79.5	54.0	76.0
Merged-chr11-21421786-4	chr11	21421664	21421864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50497.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	29.0	36.0	26.0	425.0	30.0	4.0	22.0	23.5
Merged-chr17-37525650-4	chr17	37525541	37525741	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4316.0	NM_001005485	545205.0	Mm.383371	NM_001005485	ENSMUSG00000090675	Olfr111	-	olfactory receptor 111	protein-coding	25.0	20.5	18.5	278.5	136.5	41.5	54.0	59.5
Merged-chr18-56459156-6	chr18	56459019	56459219	+	827.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	26987.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	14.5	14.5	10.5	113.0	16.0	2.0	3.0	10.5
Merged-chr2-181240619-4	chr2	181240527	181240727	+	967.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183162, exon 2 of 19)	exon (NM_183162, exon 2 of 19)	1400.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	2.5	15.0	15.5	128.5	53.0	19.0	29.0	38.0
Merged-chr10-16714705-1	chr10	16714605	16714805	+	562.0	f0_balb.idr	Intergenic	Intergenic	381077.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	4.5	3.0	10.0	90.5	10.5	8.5	6.0	6.5
Merged-chr3-145950192-1	chr3	145950092	145950292	+	550.0	f0_balb.idr	Intergenic	Intergenic	12178.0	NR_151446	66421.0	Mm.25137	NM_025555	ENSMUSG00000036873	2410004B18Rik	4930572C24Rik	RIKEN cDNA 2410004B18 gene	protein-coding	4.5	10.0	9.5	97.0	5.5	1.0	4.5	4.5
Merged-chr14-55601315-6	chr14	55601198	55601398	+	729.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_194346, exon 16 of 21)	exon (NM_194346, exon 16 of 21)	-2687.0	NM_008394	16391.0	Mm.2032	NM_008394	ENSMUSG00000002325	Irf9	Irf-9|Isgf3g|p48	interferon regulatory factor 9	protein-coding	9.0	5.0	10.5	37.5	24.5	6.0	10.0	9.5
Merged-chr13-20800815-4	chr13	20800750	20800950	+	927.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012054, intron 1 of 20)	MTB_Mm|LTR|ERVL-MaLR	6737.0	NM_012054	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	18.5	13.5	3.0	118.0	53.0	21.0	16.0	10.0
Merged-chr15-89210251-3	chr15	89210138	89210338	+	971.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1321.0	NM_026813	71474.0	Mm.184055	NM_026813	ENSMUSG00000036561	Ppp6r2	1110033O10Rik|8430411H09Rik|B230107H12Rik|Pp6r2|Saps2	protein phosphatase 6, regulatory subunit 2	protein-coding	9.5	14.0	14.5	146.0	26.0	10.5	11.0	13.5
Merged-chr12-108637874-6	chr12	108637737	108637937	+	895.544434	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	2084.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	4.0	14.5	3.5	59.0	10.0	7.0	9.0	10.5
Merged-chr5-53267129-4	chr5	53267037	53267237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145433)	promoter-TSS (NM_001145433)	31.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	110.0	122.0	87.5	1433.5	187.5	76.0	114.0	76.0
Merged-chr7-102012016-2	chr7	102011916	102012116	+	547.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_133947, exon 20 of 25)	exon (NM_133947, exon 20 of 25)	6139.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	7.0	16.0	5.5	25.5	8.0	3.5	6.5	1.5
Merged-chr19-10580945-3	chr19	10580853	10581053	+	824.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362431, intron 3 of 7)	intron (NM_001362431, intron 3 of 7)	3505.0	NM_001282067	225912.0	Mm.252701	NM_201351	ENSMUSG00000034445	Cyb561a3	2310004G04Rik|Cybasc3|Lcytb	cytochrome b561 family, member A3	protein-coding	9.5	22.5	6.0	55.5	26.0	5.5	13.5	4.0
Merged-chr2-30133223-4	chr2	30133115	30133315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146252)	promoter-TSS (NM_146252)	-531.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	45.5	91.0	29.0	370.5	136.0	62.0	38.0	33.0
Merged-chr6-87542143-4	chr6	87542058	87542258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8899.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	146.5	205.5	184.0	2518.5	359.0	128.5	177.0	176.5
Merged-chr5-105409293-4	chr5	105409185	105409385	+	919.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-6490.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	16.0	19.0	17.0	207.0	39.0	13.5	26.0	20.0
Merged-chr15-63998208-4	chr15	63998118	63998318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360035)	promoter-TSS (NM_001360035)	-152.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	74.0	91.0	59.5	798.5	130.0	52.0	55.5	35.5
Merged-chr1-95624512-4	chr1	95624448	95624648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	intron (NM_009183, intron 4 of 4)	43046.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	84.0	140.0	75.0	1405.5	176.0	40.0	68.0	44.5
Merged-chr1-132011942-4	chr1	132011853	132012053	+	900.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007923, intron 1 of 4)	L1MB8|LINE|L1	4348.0	NM_007923	13714.0	Mm.254233	NM_007923	ENSMUSG00000026436	Elk4	2310011G17Rik|A130026I01Rik|BB162516|SAP-1|Sap1	ELK4, member of ETS oncogene family	protein-coding	6.0	14.5	6.0	174.5	26.0	9.0	4.5	10.5
Merged-chr19-6475504-4	chr19	6475384	6475584	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 9 of 22)	intron (NM_001205234, intron 9 of 22)	56746.0	NM_001205234	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	11.5	13.0	11.5	120.0	16.0	8.5	4.0	11.5
Merged-chr3-108185908-3	chr3	108185778	108185978	+	826.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287093)	promoter-TSS (NM_001287093)	-411.0	NM_001287093	229715.0	Mm.275752	NM_146137	ENSMUSG00000050947	Amigo1	Amigo|ali2	adhesion molecule with Ig like domain 1	protein-coding	7.0	8.0	6.0	69.5	19.5	8.0	0.5	12.5
Merged-chr11-94388890-3	chr11	94388775	94388975	+	704.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 1 of 30)	intron (NM_029600, intron 1 of 30)	4101.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	13.0	7.0	6.5	81.5	7.0	3.5	4.5	3.5
Merged-chr16-91358930-2	chr16	91358830	91359030	+	968.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-13853.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	1.0	3.5	3.5	13.0	23.5	15.5	13.0	15.0
Merged-chr12-87330470-1	chr12	87330370	87330570	+	563.0	f0_c57.idr	intron (NM_011479, intron 9 of 11)	intron (NM_011479, intron 9 of 11)	-30765.0	NM_001290302	217738.0	Mm.219363	NM_001290302	ENSMUSG00000050671	Ism2	Gm264|Thsd3	isthmin 2	protein-coding	6.5	1.5	4.5	144.5	16.5	6.0	8.5	5.5
Merged-chr1-92641368-4	chr1	92641281	92641481	+	817.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163425, intron 1 of 2)	intron (NM_001163425, intron 1 of 2)	567.0	NR_028108	66915.0	Mm.30179	NM_001163425	ENSMUSG00000073616	Cops9	1110002M09Rik|Myeov2	COP9 signalosome subunit 9	protein-coding	11.5	12.5	19.5	120.5	14.5	9.5	12.0	10.5
Merged-chr13-20128308-2	chr13	20128208	20128408	+	997.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	37801.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	6.5	7.0	5.5	90.0	14.5	6.0	5.5	3.0
Merged-chr2-124576224-4	chr2	124576122	124576322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-34074.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	68.5	91.0	77.5	1032.0	135.0	42.5	52.5	64.5
Merged-chr10-86124337-4	chr10	86124227	86124427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013722, intron 7 of 13)	intron (NM_013722, intron 7 of 13)	28473.0	NR_038024	78170.0	Mm.444790	NR_038024	ENSMUSG00000112493	4930486F22Rik	-	RIKEN cDNA 4930486F22 gene	ncRNA	42.0	32.0	55.0	599.0	156.0	45.5	99.0	70.0
Merged-chr12-35054607-4	chr12	35054499	35054699	+	878.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	7410.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	13.0	10.0	4.5	215.0	26.5	17.0	18.0	32.5
Merged-chr1-182991132-3	chr1	182991033	182991233	+	746.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36345.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	8.5	16.0	5.5	92.5	24.0	2.5	15.0	5.5
Merged-chr1-155912094-1	chr1	155911994	155912194	+	794.0	f0_balb.idr	intron (NM_001039184, intron 17 of 37)	intron (NM_001039184, intron 17 of 37)	61161.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	7.0	11.0	9.5	197.5	1.5	0.0	0.5	1.0
Merged-chr2-160872673-3	chr2	160872591	160872791	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177263, intron 1 of 3)	CpG	299.0	NM_177263	320799.0	Mm.436734	NM_177263	ENSMUSG00000035877	Zhx3	1810059C13Rik|4932418O04Rik|9530010N21Rik|Tix1|mKIAA0395	zinc fingers and homeoboxes 3	protein-coding	29.5	25.0	25.5	297.5	46.5	17.0	28.5	27.0
Merged-chr8-68277158-3	chr8	68277096	68277296	+	739.291687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028182, intron 1 of 8)	intron (NM_028182, intron 1 of 8)	668.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	5.0	14.0	3.0	54.0	14.5	5.5	6.5	9.0
Merged-chr15-54920190-4	chr15	54920077	54920277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136077)	promoter-TSS (NM_001136077)	-31.0	NM_001285994	18606.0	Mm.250256	NM_015744	ENSMUSG00000022425	Enpp2	ATX|E-NPP 2|Npps2|PD-Ialpha|Pdnp2|lysoPLD	ectonucleotide pyrophosphatase/phosphodiesterase 2	protein-coding	35.5	64.5	37.5	629.0	164.5	41.5	68.0	52.5
Merged-chr3-95160363-4	chr3	95160247	95160447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272024)	promoter-TSS (NM_001272024)	-73.0	NR_073550	20360.0	Mm.23662	NM_011351	ENSMUSG00000038777	Sema6c	Semay|mKIAA1869	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C	protein-coding	123.5	180.0	100.5	1723.0	196.5	60.5	101.5	90.5
Merged-chr8-111248044-3	chr8	111247927	111248127	+	865.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009149, intron 1 of 25)	intron (NM_009149, intron 1 of 25)	11175.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	5.0	13.5	7.5	100.0	20.0	4.5	10.0	10.5
Merged-chr17-50996061-3	chr17	50995941	50996141	+	739.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 3 of 21)	intron (NM_028162, intron 3 of 21)	163337.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	8.0	8.0	5.0	82.5	20.0	7.5	5.0	9.0
Merged-chr12-110974936-3	chr12	110974841	110975041	+	978.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3677.0	NM_001361917	74251.0	Mm.250989	NM_175207	ENSMUSG00000037904	Ankrd9	2500003O20Rik	ankyrin repeat domain 9	protein-coding	4.5	16.0	8.0	216.5	11.0	8.5	13.0	4.0
Merged-chr1-64736637-8	chr1	64736490	64736690	+	864.6823119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022721, exon 2 of 2)	exon (NM_022721, exon 2 of 2)	1160.0	NM_001042659	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	11.0	4.0	9.0	66.0	30.0	8.0	6.0	10.5
Merged-chr5-140419341-4	chr5	140419237	140419437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133916)	promoter-TSS (NM_133916)	32.0	NM_133916	27979.0	Mm.21671	NM_133916	ENSMUSG00000056076	Eif3b	AL033316|AL033334|AL033369|AW208965|D5Wsu45e|EIF3-ETA|EIF3-P110|EIF3-P116|Eif3s9|PRT1	eukaryotic translation initiation factor 3, subunit B	protein-coding	29.0	45.5	31.0	232.5	91.5	24.5	29.0	42.5
Merged-chr8-95887333-4	chr8	95887211	95887411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010325, intron 1 of 9)	intron (NM_010325, intron 1 of 9)	1054.0	NM_010325	14719.0	Mm.230169	NM_010325	ENSMUSG00000031672	Got2	AL022787|FABP-pm|Got-2|Kyat4|mAspAT	glutamatic-oxaloacetic transaminase 2, mitochondrial	protein-coding	60.5	84.0	30.0	782.5	132.0	42.5	54.5	59.0
Merged-chr15-84167758-4	chr15	84167659	84167859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105816)	promoter-TSS (NR_105816)	-57.0	NM_054088	116939.0	Mm.390817	NM_054088	ENSMUSG00000041653	Pnpla3	Adpn	patatin-like phospholipase domain containing 3	protein-coding	65.5	127.0	76.5	1031.5	191.5	91.5	99.0	50.0
Merged-chr13-102665365-4	chr13	102665262	102665462	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-28185.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	19.0	38.5	16.0	331.0	71.0	25.5	27.5	24.0
Merged-chr14-20873518-4	chr14	20873412	20873612	+	847.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36850.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	11.0	11.5	7.5	169.5	43.5	19.0	14.5	25.0
Merged-chr10-96267789-3	chr10	96267706	96267906	+	722.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41599.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	9.0	12.5	13.5	97.0	7.5	1.5	2.0	3.0
Merged-chr1-54911488-3	chr1	54911465	54911665	+	677.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	14822.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	2.5	1.0	1.0	27.5	13.5	4.5	4.5	5.0
Merged-chr9-123529683-4	chr9	123529576	123529776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030692)	promoter-TSS (NM_030692)	-77.0	NM_001357485	83493.0	Mm.273671	NM_030692	ENSMUSG00000025240	Sacm1l	SAC1|Sac1p|mKIAA0851	SAC1 suppressor of actin mutations 1-like (yeast)	protein-coding	276.5	467.5	282.5	4487.0	805.0	300.5	372.0	287.5
Merged-chr4-33189228-6	chr4	33189161	33189361	+	742.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001034867, exon 1 of 7)	exon (NM_001034867, exon 1 of 7)	476.0	NM_001034867	242377.0	Mm.372465	NM_001034867	ENSMUSG00000054659	Pm20d2	Acy1l2|Gm424	peptidase M20 domain containing 2	protein-coding	4.0	6.5	21.0	142.0	18.0	6.5	8.0	7.0
Merged-chr4-128660344-4	chr4	128660264	128660464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	5662.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	79.0	79.0	70.5	1358.0	159.0	61.5	73.5	66.0
Merged-chr4-117182709-4	chr4	117182623	117182823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134471)	promoter-TSS (NM_134471)	-99.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	44.5	56.0	46.5	453.0	93.5	45.5	45.5	50.5
Merged-chr16-55803751-3	chr16	55803653	55803853	+	883.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18385.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	8.5	12.5	4.5	99.0	8.0	4.0	2.0	2.5
Merged-chr13-37959459-4	chr13	37959364	37959564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34744.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	75.0	106.5	62.5	1075.5	118.0	74.0	77.5	68.0
Merged-chr6-100800650-4	chr6	100800534	100800734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198612, intron 6 of 6)	intron (NM_198612, intron 6 of 6)	-33004.0	NM_182939	232314.0	Mm.27223	NM_182939	ENSMUSG00000052144	Ppp4r2	BE691708|C230060M08Rik	protein phosphatase 4, regulatory subunit 2	protein-coding	56.5	76.5	58.0	830.0	154.0	56.0	33.0	46.0
Merged-chr18-39802264-4	chr18	39802151	39802351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28754.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	50.5	118.5	42.5	671.0	159.0	75.5	59.0	30.0
Merged-chr7-16400188-4	chr7	16400098	16400298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198631)	promoter-TSS (NM_198631)	-998.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	101.0	236.5	117.5	1476.5	380.5	149.5	154.0	131.0
Merged-chr6-16898591-4	chr6	16898439	16898639	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031198)	promoter-TSS (NM_031198)	-98.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	30.0	69.5	17.5	216.0	56.5	32.5	19.0	11.0
Merged-chr7-118170364-4	chr7	118170262	118170462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031814, intron 31 of 62)	RLTR13B1|LTR|ERVK	-40737.0	NM_019419	54208.0	Mm.29924	NM_019419	ENSMUSG00000030654	Arl6ip1	AIP-6|AL022945|ARMER|AU042858|Aip-1|Arl6ip|C85138|mKIAA0069	ADP-ribosylation factor-like 6 interacting protein 1	protein-coding	40.5	65.5	45.0	521.5	100.5	36.5	35.5	31.0
Merged-chr9-89227963-4	chr9	89227849	89228049	+	899.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	URR1B|DNA|hAT-Charlie	16565.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	14.0	16.0	20.0	137.5	31.5	5.5	18.0	19.0
Merged-chr19-12016373-4	chr19	12016279	12016479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20361.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	29.0	46.5	31.0	456.0	106.0	37.0	48.5	54.5
Merged-chr12-52454098-4	chr12	52453988	52454188	+	892.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26521.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	16.5	13.0	29.0	445.0	35.0	8.5	20.0	20.0
Merged-chr12-86768075-3	chr12	86768003	86768203	+	787.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33734.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	5.0	19.0	4.5	83.5	9.5	7.0	4.0	7.5
Merged-chr16-14291452-4	chr16	14291359	14291559	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161775)	promoter-TSS (NM_001161775)	-51.0	NM_013607	17880.0	Mm.250705	NM_013607	ENSMUSG00000018830	Myh11	AV071570|SM1|SM2|smMHC	myosin, heavy polypeptide 11, smooth muscle	protein-coding	11.0	26.0	6.5	244.5	44.0	16.5	25.5	24.0
Merged-chr1-136570747-4	chr1	136570655	136570855	+	955.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54146.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	19.0	16.5	11.5	352.5	58.5	15.0	33.5	23.0
Merged-chr6-112739809-3	chr6	112739730	112739930	+	710.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 15 of 21)	intron (NM_080448, intron 15 of 21)	-43160.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	7.0	19.0	7.0	228.0	14.5	4.5	8.0	15.0
Merged-chr2-169774621-3	chr2	169774505	169774705	+	984.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	140959.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	0.0	0.0	1.0	0.0	30.5	10.0	21.0	16.0
Merged-chr9-22003329-2	chr9	22003229	22003429	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029939)	promoter-TSS (NM_029939)	341.0	NM_001293650	19089.0	Mm.214593	NM_008925	ENSMUSG00000003402	Prkcsh	80K-H|PKCSH	protein kinase C substrate 80K-H	protein-coding	8.0	12.0	11.5	114.0	30.0	5.0	6.0	10.0
Merged-chr12-111676562-4	chr12	111676468	111676668	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1537.0	NM_001099792	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	18.0	19.5	6.0	197.0	38.5	15.5	16.5	13.5
Merged-chr15-98993224-4	chr15	98993116	98993316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	7251.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	80.5	144.5	49.0	1028.0	277.5	112.5	106.0	90.0
Merged-chr15-67996668-3	chr15	67996561	67996761	+	915.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	262195.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	8.0	7.5	11.0	168.0	2.0	0.5	2.0	3.5
Merged-chr4-129032318-4	chr4	129032227	129032427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25944.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	42.5	52.5	42.5	412.0	112.5	25.0	51.5	34.5
Merged-chr7-44815955-4	chr7	44815900	44816100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030693)	promoter-TSS (NM_030693)	-88.0	NM_053074	18226.0	Mm.2565	NM_053074	ENSMUSG00000109511	Nup62	D7Ertd649e|Nupc1|p62	nucleoporin 62	protein-coding	225.0	352.5	157.5	2441.0	448.5	196.0	206.0	176.5
Merged-chr11-83115334-2	chr11	83115234	83115434	+	819.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1486.0	NM_011407	20555.0	Mm.10948	NM_011407	ENSMUSG00000078763	Slfn1	AV316259	schlafen 1	protein-coding	3.5	14.5	4.5	61.0	12.5	6.5	11.5	6.0
Merged-chr7-28867822-4	chr7	28867705	28867905	+	946.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3419.0	NM_008496	16858.0	Mm.20973	NM_008496	ENSMUSG00000053522	Lgals7	Galectin-7|Pig1	lectin, galactose binding, soluble 7	protein-coding	8.5	31.0	19.5	112.0	28.0	17.0	14.0	17.5
Merged-chr11-49204547-3	chr11	49204433	49204633	+	947.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024846, intron 1 of 4)	intron (NM_001024846, intron 1 of 4)	1033.0	NM_009562	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	2.5	16.5	4.0	118.5	24.5	10.0	11.0	5.5
Merged-chr10-57828863-4	chr10	57828734	57828934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	34290.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	44.0	52.0	149.0	1449.5	46.0	31.5	60.5	38.5
Merged-chr1-154097868-4	chr1	154097770	154097970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-103317.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	62.5	128.5	51.5	834.5	157.0	77.5	52.0	55.0
Merged-chr19-45652564-4	chr19	45652467	45652667	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 1 of 8)	intron (NM_013907, intron 1 of 8)	7626.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	31.5	23.5	16.0	460.5	40.5	13.5	20.0	24.5
Merged-chr7-3941145-4	chr7	3941045	3941245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25644.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	49.5	79.0	54.5	731.0	80.0	29.0	28.5	27.5
Merged-chr7-19508563-6	chr7	19508449	19508649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177692)	promoter-TSS (NM_177692)	-121.0	NR_138583	67091.0	Mm.44213	NM_025960	ENSMUSG00000002043	Trappc6a	1810073E21Rik|4930519D19Rik|AI480686|TRS33|mhyp	trafficking protein particle complex 6A	protein-coding	25.5	58.5	61.0	431.5	78.5	31.5	35.0	37.0
Merged-chr7-142386296-2	chr7	142386200	142386400	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009983, intron 1 of 8)	intron (NM_009983, intron 1 of 8)	1570.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	4.5	6.0	9.0	41.5	21.0	4.5	5.5	16.0
Merged-chr16-59498825-1	chr16	59498725	59498925	+	809.666687	f0_balb.idr	intron (NM_174848, intron 16 of 18)	RLTR45|LTR|ERVK	27050.0	NM_025910	67014.0	Mm.289150	NM_025910	ENSMUSG00000022724	Riox2	1810047J07Rik|2410057H13Rik|3830408E23Rik|AI449204|Mina	ribosomal oxygenase 2	protein-coding	10.0	5.0	9.0	179.5	5.0	0.0	0.5	1.0
Merged-chr17-6055113-2	chr17	6055026	6055226	+	938.875	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360148, intron 10 of 15)	intron (NM_001360148, intron 10 of 15)	24613.0	NM_001111017	321007.0	Mm.5548	NM_177311	ENSMUSG00000015659	Serac1	4930511N22Rik|D17Ertd141e	serine active site containing 1	protein-coding	8.0	8.5	10.0	46.5	9.0	3.5	6.5	7.0
Merged-chr1-184807839-4	chr1	184807736	184807936	+	897.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290273, intron 1 of 6)	B3A|SINE|B2	3464.0	NM_001290273	66112.0	Mm.272457	NM_001081361	ENSMUSG00000026621	Marc1	1300013F15Rik|Mosc1	mitochondrial amidoxime reducing component 1	protein-coding	16.5	18.0	12.0	148.5	31.0	9.5	13.0	13.0
Merged-chr4-155761141-4	chr4	155761026	155761226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_179203)	promoter-TSS (NM_179203)	-28.0	NM_179203	108888.0	Mm.241152	NM_179203	ENSMUSG00000029036	Atad3a	2400004H09Rik|Atad3|Tob3|mKIAA1273	ATPase family, AAA domain containing 3A	protein-coding	193.0	241.0	132.0	1737.0	386.0	115.0	148.5	146.5
Merged-chr15-79323636-4	chr15	79323587	79323787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016915, intron 1 of 15)	intron (NM_016915, intron 1 of 15)	4684.0	NM_016915	53357.0	Mm.155620	NM_016915	ENSMUSG00000042632	Pla2g6	BB112799|PNPLA9|iPLA(2)beta|iPLA2|iPLA2beta	phospholipase A2, group VI	protein-coding	67.5	117.0	62.0	822.5	185.5	82.0	93.5	73.0
Merged-chr5-140418787-4	chr5	140418676	140418876	+	979.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133916)	promoter-TSS (NM_133916)	-529.0	NM_133916	27979.0	Mm.21671	NM_133916	ENSMUSG00000056076	Eif3b	AL033316|AL033334|AL033369|AW208965|D5Wsu45e|EIF3-ETA|EIF3-P110|EIF3-P116|Eif3s9|PRT1	eukaryotic translation initiation factor 3, subunit B	protein-coding	24.0	33.0	18.5	351.0	75.5	29.5	17.0	46.5
Merged-chr1-120531964-4	chr1	120531873	120532073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26949.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	44.0	95.5	81.5	472.0	237.0	94.0	89.0	56.0
Merged-chr7-126791957-3	chr7	126791857	126792057	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019674, intron 2 of 8)	CpG	407.0	NM_001360464	56420.0	Mm.41998	NM_019674	ENSMUSG00000030697	Ppp4c	1110002D08Rik|AU016079|PP-X|PP4C|Ppx|pp4	protein phosphatase 4, catalytic subunit	protein-coding	21.5	24.5	11.0	256.0	49.5	29.0	28.5	24.5
Merged-chr10-93484678-4	chr10	93484579	93484779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008517, exon 19 of 19)	exon (NM_008517, exon 19 of 19)	-4089.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	110.0	139.0	99.5	2224.0	134.0	45.0	43.5	38.0
Merged-chr6-129238432-4	chr6	129238345	129238545	+	842.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040265)	promoter-TSS (NR_040265)	37.0	NR_040266	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	9.0	15.0	12.0	102.5	41.0	14.5	7.0	13.0
Merged-chr4-45514223-4	chr4	45514215	45514415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	16513.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	34.5	61.5	35.0	513.0	60.5	28.5	24.5	32.0
Merged-chr16-91538687-4	chr16	91538586	91538786	+	945.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8408.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	14.0	5.5	13.0	148.5	30.5	14.0	30.0	27.5
Merged-chr7-19803903-4	chr7	19803799	19803999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7090.0	NM_023224	80794.0	Mm.81698	NM_023224	ENSMUSG00000040525	Cblc	2310076I21Rik|2310079L19Rik|Cbl3	Casitas B-lineage lymphoma c	protein-coding	47.0	140.0	81.0	492.0	162.5	49.5	66.0	38.5
Merged-chr19-40663260-4	chr19	40663166	40663366	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	3496.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	23.5	27.5	29.5	328.5	43.0	14.5	26.5	17.5
Merged-chr16-93816015-3	chr16	93815937	93816137	+	897.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-16084.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	11.0	12.0	12.0	95.5	26.0	10.5	12.5	20.5
Merged-chr5-103629174-2	chr5	103629074	103629274	+	822.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_029415, exon 1 of 6)	exon (NM_029415, exon 1 of 6)	229.0	NM_029415	75750.0	Mm.7446	NM_029415	ENSMUSG00000029321	Slc10a6	8430417G17Rik|C78479|Soat	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	protein-coding	6.0	5.0	14.5	52.5	10.0	4.5	3.0	4.0
Merged-chr1-85960463-3	chr1	85960351	85960551	+	861.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033290, intron 1 of 1)	MIRc|SINE|MIR	604.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	8.0	9.0	3.0	53.5	19.5	11.0	8.5	16.0
Merged-chr10-62339526-4	chr10	62339411	62339611	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 4 of 21)	intron (NM_010438, intron 4 of 21)	910.0	NM_001146100	15275.0	Mm.196605	NM_010438	ENSMUSG00000037012	Hk1	BB404130|Hk-1|Hk1-s|dea|mHk1-s	hexokinase 1	protein-coding	12.0	14.0	16.0	147.5	44.5	15.0	11.5	9.0
Merged-chr16-19969639-4	chr16	19969554	19969754	+	947.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	intron (NM_183390, intron 1 of 6)	13395.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	17.0	12.5	9.5	234.5	39.0	17.0	19.0	28.5
Merged-chr2-31239379-4	chr2	31239316	31239516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGTG)n|Simple_repeat|Simple_repeat	-6507.0	NM_019681	14299.0	Mm.249318	NM_019681	ENSMUSG00000062661	Ncs1	9430075O15Rik|A730032G13Rik|AI836659|Freq|Mfreq|NCS-1	neuronal calcium sensor 1	protein-coding	74.5	75.5	61.5	1004.0	103.5	42.5	54.0	62.0
Merged-chr9-107888569-2	chr9	107888469	107888669	+	681.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028369, intron 1 of 5)	intron (NM_028369, intron 1 of 5)	440.0	NM_028369	72825.0	Mm.38037	NM_028369	ENSMUSG00000032583	Mon1a	2810468K17Rik	MON1 homolog A, secretory traffciking associated	protein-coding	5.5	4.5	4.5	56.5	10.5	2.5	6.0	6.5
Merged-chr15-100622371-4	chr15	100622269	100622469	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033872, intron 3 of 3)	intron (NM_001033872, intron 3 of 3)	6707.0	NM_011873	23994.0	Mm.486175	NM_011873	ENSMUSG00000000346	Dazap2	AI314727|Brbp|Gcap28|Prtb|gt6-12|mKIAA0058	DAZ associated protein 2	protein-coding	21.0	18.0	25.0	600.0	51.5	16.5	21.5	34.5
Merged-chr4-154944397-4	chr4	154944285	154944485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16308.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	150.5	319.0	137.5	1137.0	395.0	192.0	156.0	118.5
Merged-chr8-83077570-1	chr8	83077470	83077670	+	733.333313	f0_balb.idr	intron (NM_177378, intron 6 of 6)	ORR1F|LTR|ERVL-MaLR	-87782.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	9.5	13.5	9.0	109.0	1.0	2.5	1.0	3.0
Merged-chr19-55570054-4	chr19	55569933	55570133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	132171.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	59.5	84.0	52.5	833.0	101.5	31.5	35.5	47.5
Merged-chr3-158032323-6	chr3	158032217	158032417	+	933.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001093753)	promoter-TSS (NM_001093753)	-545.0	NM_001093753	69207.0	Mm.223946	NM_026989	ENSMUSG00000055436	Srsf11	0610009J05Rik|2610019N13Rik|BF642805|Sfrs11	serine/arginine-rich splicing factor 11	protein-coding	6.5	6.0	3.5	105.0	30.0	9.5	6.5	16.5
Merged-chr16-26689926-4	chr16	26689847	26690047	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152416, intron 4 of 12)	intron (NR_152416, intron 4 of 12)	65555.0	NR_105063	100504628.0	Mm.393275	NR_105063	ENSMUSG00000092545	Gm20319	-	predicted gene, 20319	ncRNA	32.5	22.0	30.0	485.5	49.0	14.0	29.5	19.5
Merged-chr9-21134816-3	chr9	21134716	21134916	+	931.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-3541.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	4.5	14.5	2.0	111.5	13.0	5.0	9.5	8.0
Merged-chr4-133056169-4	chr4	133056002	133056202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146155, intron 3 of 6)	intron (NM_146155, intron 3 of 6)	44596.0	NM_146155	230793.0	Mm.31816	NM_146155	ENSMUSG00000037692	Ahdc1	D030015G18Rik	AT hook, DNA binding motif, containing 1	protein-coding	37.5	24.5	14.0	249.0	58.0	26.0	13.0	23.0
Merged-chr4-126429605-4	chr4	126429525	126429725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153402)	promoter-TSS (NM_153402)	-83.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	52.5	132.0	63.5	820.5	209.5	89.0	91.5	98.5
Merged-chr1-17097885-3	chr1	17097768	17097968	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020604)	promoter-TSS (NM_020604)	21.0	NM_020604	57339.0	Mm.143761	NM_020604	ENSMUSG00000042686	Jph1	JP-1|Jp1	junctophilin 1	protein-coding	14.5	7.0	6.0	176.0	10.5	5.0	5.5	8.5
Merged-chr2-72323239-4	chr2	72323140	72323340	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 2 of 19)	intron (NM_023057, intron 2 of 19)	37539.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	21.0	23.0	44.0	344.0	24.0	3.5	20.5	15.0
Merged-chr5-42977299-4	chr5	42977201	42977401	+	937.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-256162.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	7.0	24.0	19.5	232.0	35.5	9.0	17.5	18.0
Merged-chr13-64369051-6	chr13	64368850	64369050	+	935.0277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009984, intron 2 of 7)	intron (NM_009984, intron 2 of 7)	1570.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	6.5	12.0	13.0	84.5	18.0	8.5	2.0	7.5
Merged-chr11-69122767-4	chr11	69122648	69122848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033041, exon 4 of 4)	exon (NM_033041, exon 4 of 4)	2295.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	48.5	57.0	24.0	435.5	77.5	32.0	46.5	34.0
Merged-chr7-25681069-4	chr7	25680944	25681144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172148)	promoter-TSS (NM_172148)	-114.0	NM_172148	232987.0	Mm.22849	NM_172148	ENSMUSG00000063439	B9d2	stumpy	B9 protein domain 2	protein-coding	147.5	222.5	84.0	1556.0	333.5	144.0	131.5	120.5
Merged-chr2-165061791-4	chr2	165061687	165061887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027852, intron 1 of 7)	MER113|DNA|hAT-Charlie	6151.0	NM_011611	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	17.5	37.5	26.0	364.0	70.5	17.5	20.5	33.0
Merged-chr8-13494461-4	chr8	13494385	13494585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019521)	promoter-TSS (NM_019521)	50.0	NM_019521	14456.0	Mm.3982	NM_019521	ENSMUSG00000031451	Gas6	Gas-6	growth arrest specific 6	protein-coding	63.0	60.0	46.0	628.0	86.5	24.5	30.5	22.5
Merged-chr2-157501547-4	chr2	157501440	157501640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58538.0	NM_001291129	18111.0	Mm.34330	NM_010923	ENSMUSG00000067786	Nnat	5730414I02Rik|AW107673|Peg5	neuronatin	protein-coding	82.5	102.0	60.5	1010.0	148.5	94.0	65.0	72.0
Merged-chr7-25787121-4	chr7	25787017	25787217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 2 of 19)	MIR|SINE|MIR	1616.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	47.0	69.0	52.0	605.0	137.0	40.0	43.5	29.0
Merged-chr8-13874981-4	chr8	13874876	13875076	+	882.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181854, intron 1 of 1)	PB1|SINE|Alu	5335.0	NM_181854	101994.0	Mm.289346	NM_181854	ENSMUSG00000047710	Champ1	AA675043|AI116001|D8Ertd457e|D8Ertd569e|Zfp828|Znf828|mKIAA1802	chromosome alignment maintaining phosphoprotein 1	protein-coding	17.5	21.5	7.0	202.0	10.5	7.5	12.0	15.0
Merged-chr16-35769495-4	chr16	35769385	35769585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175111)	promoter-TSS (NM_175111)	-129.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	165.5	331.5	180.0	2471.5	405.5	149.0	145.0	100.5
Merged-chr5-109796389-4	chr5	109796284	109796484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37758.0	NR_027964	667213.0	Mm.454429	NR_027964	ENSMUSG00000105044	Gm10416	EG667213	zinc finger protein pseudogene	pseudo	31.5	37.5	31.0	580.5	52.5	19.0	22.0	47.5
Merged-chr9-99138515-2	chr9	99138415	99138615	+	595.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 1 of 23)	intron (NM_029094, intron 1 of 23)	1696.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	11.0	8.5	4.5	48.5	22.5	5.5	5.5	3.0
Merged-chr19-46699370-4	chr19	46699255	46699455	+	934.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025563, intron 1 of 4)	intron (NM_025563, intron 1 of 4)	-8088.0	NM_020577	57344.0	Mm.28566	NM_020577	ENSMUSG00000003559	As3mt	2310045H08Rik|Cyt19	arsenic (+3 oxidation state) methyltransferase	protein-coding	33.5	40.0	20.0	374.0	39.5	20.5	9.0	18.5
Merged-chr11-101543677-4	chr11	101543565	101543765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009764, intron 2 of 22)	intron (NM_009764, intron 2 of 22)	8290.0	NM_009764	12189.0	Mm.244975	NM_009764	ENSMUSG00000017146	Brca1	-	breast cancer 1, early onset	protein-coding	52.5	69.5	35.5	659.5	143.5	50.5	55.5	59.0
Merged-chr11-120539163-4	chr11	120539052	120539252	+	916.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008101)	TTS (NM_008101)	8425.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	11.0	24.5	9.5	134.5	43.0	16.5	22.0	14.5
Merged-chr2-30270347-4	chr2	30270251	30270451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252571, intron 2 of 9)	intron (NM_001252571, intron 2 of 9)	3532.0	NM_001252570	227696.0	Mm.297949	NM_172267	ENSMUSG00000079484	Phyhd1	-	phytanoyl-CoA dioxygenase domain containing 1	protein-coding	112.0	183.5	114.0	1625.5	182.5	90.5	95.0	80.5
Merged-chr13-103921553-4	chr13	103921476	103921676	+	973.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289474)	promoter-TSS (NM_001289474)	-990.0	NM_001005868	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	25.0	33.0	20.5	183.0	64.5	13.0	14.5	18.0
Merged-chr9-40191268-2	chr9	40191168	40191368	+	889.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1048.0	NR_153114	80902.0	Mm.132196	NM_030713	ENSMUSG00000025602	Zfp202	C130037E22Rik|Znf202	zinc finger protein 202	protein-coding	6.5	9.5	4.5	40.5	25.5	4.5	1.5	2.5
Merged-chr4-101217339-4	chr4	101217208	101217408	+	818.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	intron (NM_146145, intron 1 of 24)	47974.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	11.0	20.0	6.5	162.0	20.0	7.5	10.0	3.0
Merged-chr12-102252734-4	chr12	102252634	102252834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172152, intron 12 of 16)	intron (NM_172152, intron 12 of 16)	-30340.0	NM_177620	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	35.0	59.0	23.0	504.5	87.0	27.0	32.0	22.0
Merged-chr7-132858406-3	chr7	132858284	132858484	+	850.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198017)	promoter-TSS (NM_198017)	-841.0	NM_198017	109359.0	Mm.274824	NM_198017	ENSMUSG00000030965	Abraxas2	AA589499|AI853413|Abro1|C430003P19Rik|Fam175b	BRISC complex subunit	protein-coding	3.5	13.0	10.0	10.0	26.0	6.0	8.5	18.0
Merged-chr1-55029593-4	chr1	55029484	55029684	+	988.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2106.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	52.5	58.5	43.0	767.0	36.0	12.0	14.0	27.0
Merged-chr8-120711373-4	chr8	120711254	120711454	+	919.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-25004.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	12.0	5.0	13.5	243.5	22.5	7.5	12.0	13.5
Merged-chr5-137628914-4	chr5	137628821	137629021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168652)	promoter-TSS (NM_001168652)	-202.0	NM_001168652	231798.0	Mm.200763	NM_146164	ENSMUSG00000093445	Lrch4	2810008P14Rik|2900069C24Rik|AI558103|LRN|LRRN4|SAP25|mFLJ00248	leucine-rich repeats and calponin homology (CH) domain containing 4	protein-coding	304.5	458.0	307.5	3576.0	960.0	369.0	394.0	370.0
Merged-chr4-126058503-4	chr4	126058408	126058608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356446)	promoter-TSS (NM_001356446)	-57.0	NM_001356446	230751.0	Mm.38907	NM_172701	ENSMUSG00000042616	Oscp1	1810007P19Rik|5730415O04|6030436A01Rik	organic solute carrier partner 1	protein-coding	24.5	74.5	31.0	403.0	98.0	31.5	64.0	50.0
Merged-chr6-120470884-4	chr6	120470814	120471014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	intron (NM_008359, intron 1 of 12)	7717.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	116.5	230.5	164.0	1977.5	289.5	114.5	126.5	108.5
Merged-chr14-31422613-4	chr14	31422509	31422709	+	895.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	-4932.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	22.0	22.5	20.5	247.0	38.5	8.5	10.0	19.5
Merged-chr2-127143518-4	chr2	127143446	127143646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163527)	promoter-TSS (NM_001163527)	-89.0	NM_001355634	73338.0	Mm.57559	NM_001163527	ENSMUSG00000074825	Itpripl1	1700041B20Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 1	protein-coding	42.5	41.5	26.5	590.5	55.0	15.0	21.5	20.0
Merged-chr6-84584502-2	chr6	84584402	84584602	+	928.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177713, intron 2 of 6)	CpG-12217	9308.0	NM_175475	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	8.5	10.5	9.0	79.0	15.5	10.0	4.5	13.0
Merged-chr19-9982695-5	chr19	9982691	9982891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073181, exon 2 of 5)	non-coding (NR_073181, exon 2 of 5)	145.0	NM_010239	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	183.0	367.0	170.0	2217.0	454.5	240.0	218.0	141.5
Merged-chr17-17626106-2	chr17	17626006	17626206	+	585.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1617.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	5.0	4.5	7.5	49.5	13.5	6.5	5.0	1.5
Merged-chr7-126729050-2	chr7	126728950	126729150	+	982.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A1|LTR|ERVL-MaLR	-24234.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	6.0	14.0	7.0	80.5	21.5	11.5	7.5	7.0
Merged-chr5-92118047-4	chr5	92117971	92118171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	19654.0	NM_001359197	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	52.0	94.5	33.0	1035.5	135.5	68.0	80.5	57.0
Merged-chr7-81345283-4	chr7	81345192	81345392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009092)	promoter-TSS (NM_009092)	-58.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	80.5	112.5	57.0	622.5	200.5	88.5	81.5	73.5
Merged-chr5-122391863-4	chr5	122391760	122391960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019824)	promoter-TSS (NM_019824)	-18.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	43.0	93.5	35.5	592.5	143.0	69.5	76.0	63.5
Merged-chr15-27922383-4	chr15	27922270	27922470	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	103478.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	24.0	30.5	42.0	499.5	70.0	16.5	39.0	31.0
Merged-chr7-4225354-4	chr7	4225252	4225452	+	751.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	-12402.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	5.5	5.0	5.0	103.5	23.5	10.5	4.5	12.5
Merged-chr18-53845615-1	chr18	53845515	53845715	+	694.666687	f0_balb.idr	Intergenic	Intergenic	-16498.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	7.5	9.5	7.5	98.5	3.0	2.0	3.5	8.0
Merged-chr19-61097915-1	chr19	61097815	61098015	+	635.0	f0_balb.idr	intron (NR_131953, intron 3 of 6)	intron (NR_131953, intron 3 of 6)	42925.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	6.5	13.5	3.0	83.5	7.0	9.5	4.5	7.5
Merged-chr2-79742155-4	chr2	79742057	79742257	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110980, intron 2 of 2)	intron (NR_110980, intron 2 of 2)	34377.0	NM_001290743	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	48.0	24.0	37.5	736.0	81.5	32.5	47.5	48.0
Merged-chr1-180904900-4	chr1	180904810	180905010	+	758.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133705, intron 2 of 6)	intron (NM_133705, intron 2 of 6)	636.0	NM_133705	69051.0	Mm.274180	NM_133705	ENSMUSG00000026520	Pycr2	1810018M05Rik|P5cr2	pyrroline-5-carboxylate reductase family, member 2	protein-coding	12.0	12.0	11.5	188.0	19.0	5.0	13.0	11.0
Merged-chr8-52450878-3	chr8	52450784	52450984	+	609.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	94273.0	NR_151738	330767.0	Mm.246790	NR_151738	ENSMUSG00000110013	1190028D05Rik	-	RIKEN cDNA 1190028D05 gene	ncRNA	7.5	7.0	11.5	122.0	9.5	0.5	6.5	1.0
Merged-chr11-78019883-2	chr11	78019783	78019983	+	824.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_174852, intron 7 of 14)	intron (NM_174852, intron 7 of 14)	-12430.0	NM_183286	70451.0	Mm.390342	NM_183286	ENSMUSG00000020834	Dhrs13	2610209N15Rik	dehydrogenase/reductase (SDR family) member 13	protein-coding	1.0	6.5	0.5	18.5	5.5	5.0	5.5	7.0
Merged-chr10-80150132-2	chr10	80150032	80150232	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_021565, exon 2 of 9)	exon (NM_021565, exon 2 of 9)	450.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	3.5	2.0	4.5	36.0	15.5	5.0	7.0	7.5
Merged-chr2-68861212-7	chr2	68861099	68861299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172856)	promoter-TSS (NM_172856)	-242.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	52.5	82.5	96.5	877.5	86.5	51.0	50.5	70.0
Merged-chr10-93477036-4	chr10	93476936	93477136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008517, intron 14 of 18)	intron (NM_008517, intron 14 of 18)	-11732.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	88.5	128.5	138.5	1844.5	103.5	20.0	45.5	30.5
Merged-chr1-43500304-4	chr1	43500214	43500414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	54563.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	20.5	23.5	27.5	420.0	121.5	26.0	31.0	46.5
Merged-chr1-39578695-4	chr1	39578596	39578796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1349.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	124.5	260.5	198.0	2085.0	421.0	175.5	162.0	141.5
Merged-chr8-81375306-4	chr8	81375186	81375386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024617, intron 1 of 24)	intron (NM_001024617, intron 1 of 24)	32724.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	27.0	46.5	26.5	328.5	90.0	46.5	44.0	32.5
Merged-chr16-18877873-6	chr16	18877759	18877959	+	925.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010435, intron 1 of 24)	intron (NM_010435, intron 1 of 24)	1109.0	NM_010435	15260.0	Mm.15694	NM_010435	ENSMUSG00000022702	Hira	AA138857|D16Ertd95e|Gm15797|N28177|Tuple1	histone cell cycle regulator	protein-coding	14.0	19.0	15.5	211.0	16.0	7.5	9.0	13.0
Merged-chr11-8624195-4	chr11	8624104	8624304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	RLTR20A4|LTR|ERVK	40331.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	17.0	21.0	37.0	255.5	60.0	26.5	29.5	39.5
Merged-chr3-75279798-3	chr3	75279674	75279874	+	698.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-9696.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	13.0	6.5	8.5	70.5	10.5	6.0	6.5	6.5
Merged-chr12-65154495-4	chr12	65154398	65154598	+	929.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172578, intron 5 of 13)	L2a|LINE|L2	18082.0	NM_172578	217653.0	Mm.21144	NM_172578	ENSMUSG00000047534	Mis18bp1	6720403H11|C79407|Knl2|mKIAA1903	MIS18 binding protein 1	protein-coding	17.5	41.0	37.5	507.5	23.0	17.0	11.5	4.0
Merged-chr11-97150124-4	chr11	97150038	97150238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198100)	promoter-TSS (NM_198100)	-426.0	NM_198100	73174.0	Mm.27882	NM_198100	ENSMUSG00000038517	Tbkbp1	3110043L15Rik|ProSAPiP2|SINTBAD	TBK1 binding protein 1	protein-coding	40.5	40.5	24.0	386.0	100.0	30.0	27.5	34.5
Merged-chr11-98776010-4	chr11	98775946	98776146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145434)	promoter-TSS (NM_145434)	-669.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	66.0	135.0	69.0	902.0	142.5	66.5	73.0	57.0
Merged-chr13-113614784-4	chr13	113614679	113614879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	3785.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	52.0	60.0	32.0	824.0	77.5	28.0	48.5	27.5
Merged-chr7-88054418-4	chr7	88054307	88054507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 8 of 9)	intron (NM_001081414, intron 8 of 9)	-223678.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	64.0	130.0	102.0	1884.0	234.0	89.0	121.5	87.5
Merged-chr3-127035669-4	chr3	127035560	127035760	+	938.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 10 of 47)	L2|LINE|L2	-37208.0	NM_178655	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	5.5	19.5	8.5	390.5	141.0	34.5	74.5	47.0
Merged-chr3-87509327-4	chr3	87509233	87509433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16245.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	36.5	98.5	57.5	433.0	158.0	40.0	43.5	25.0
Merged-chr1-86587145-4	chr1	86587075	86587275	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172974, exon 2 of 8)	5' UTR (NM_172974, exon 2 of 8)	4254.0	NM_001360887	26895.0	Mm.12973	NM_172974	ENSMUSG00000026240	Cops7b	D1Wsu66e|E130114M23	COP9 signalosome subunit 7B	protein-coding	9.0	23.5	12.5	131.0	40.0	0.5	8.5	11.0
Merged-chr12-55484701-8	chr12	55484590	55484790	+	844.5339359999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7957.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	23.0	45.5	16.0	62.5	67.0	21.0	6.5	4.5
Merged-chr6-97814403-4	chr6	97814303	97814503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	7345.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	20.0	50.0	23.0	329.5	64.5	26.0	37.0	28.5
Merged-chr7-80583095-4	chr7	80583021	80583221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48002.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	25.0	29.0	22.0	210.5	80.5	13.5	18.5	31.5
Merged-chr3-123515790-4	chr3	123515712	123515912	+	743.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7476.0	NR_028574	69895.0	Mm.260791	NR_028574	ENSMUSG00000104960	Snhg8	1110065M07Rik|2010109N14Rik	small nucleolar RNA host gene 8	ncRNA	13.0	14.0	5.0	127.5	25.0	8.0	12.0	6.5
Merged-chr1-80785311-4	chr1	80785215	80785415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26762.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	67.5	80.5	65.5	831.5	145.5	36.5	44.0	49.0
Merged-chr1-125470966-4	chr1	125470836	125471036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35209.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	57.0	67.0	77.0	1067.0	143.0	37.0	60.0	70.0
Merged-chr10-40087843-4	chr10	40087725	40087925	+	819.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	L1MC3|LINE|L1	54429.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	8.0	9.0	10.0	95.5	35.0	7.0	11.5	12.5
Merged-chr2-152104882-4	chr2	152104794	152104994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029688)	promoter-TSS (NM_029688)	-630.0	NM_029688	76650.0	Mm.218639	NM_029688	ENSMUSG00000032802	Srxn1	1700127B04Rik|AI854065|AW488194|Npn3|Srx|Srx1|TX01	sulfiredoxin 1 homolog (S. cerevisiae)	protein-coding	27.0	35.5	27.5	377.0	73.0	35.0	29.5	36.5
Merged-chr13-63634517-1	chr13	63634417	63634617	+	543.0	f1_c57bl6.idr	Intergenic	Intergenic	-61057.0	NM_001328514	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	0.0	1.0	0.0	16.5	16.5	5.5	17.0	12.5
Merged-chr2-112217804-4	chr2	112217672	112217872	+	883.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6BA|LTR|ERVK	-22069.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	12.5	13.5	28.0	158.0	32.5	13.0	13.0	11.5
Merged-chr4-107017701-2	chr4	107017601	107017801	+	986.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_198438, intron 5 of 16)	intron (NM_198438, intron 5 of 16)	49165.0	NM_025500	56280.0	Mm.29517	NM_025500	ENSMUSG00000028622	Mrpl37	2300004O14Rik|AI132596|MRP-L2|Rpml2	mitochondrial ribosomal protein L37	protein-coding	6.0	6.5	5.0	111.0	4.0	4.0	4.5	10.0
Merged-chr7-63929313-4	chr7	63929169	63929369	+	975.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	9646.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	10.0	19.5	11.5	225.5	52.5	17.5	27.0	19.0
Merged-chr1-165193930-4	chr1	165193845	165194045	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151711, intron 1 of 6)	CpG	488.0	NM_145512	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	10.0	16.0	25.5	167.5	32.0	11.0	13.0	20.5
Merged-chr15-90645091-4	chr15	90644969	90645169	+	940.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033851, intron 3 of 3)	intron (NM_001033851, intron 3 of 3)	34319.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	47.0	39.0	68.0	992.5	30.5	12.0	13.0	16.0
Merged-chr7-142060412-3	chr7	142060305	142060505	+	784.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347560, exon 1 of 5)	5' UTR (NM_001347560, exon 1 of 5)	448.0	NM_001347560	101513.0	Mm.53259	NM_028308	ENSMUSG00000025147	Mob2	1110017M21Rik|2700078K21Rik|AI256456|Mmh	MOB kinase activator 2	protein-coding	5.0	8.0	13.0	48.5	3.0	9.0	6.5	9.0
Merged-chr7-133637610-4	chr7	133637515	133637715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178115)	promoter-TSS (NM_178115)	-60.0	NM_178115	214764.0	Mm.174044	NM_145995	ENSMUSG00000039990	Edrf1	2700050L05Rik|AU022667|AW558805	erythroid differentiation regulatory factor 1	protein-coding	237.5	342.0	248.5	3049.5	581.0	222.5	283.0	233.5
Merged-chr1-173880321-4	chr1	173880250	173880450	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170853)	promoter-TSS (NM_001170853)	-163.0	NM_001170853	100040462.0	Mm.463437	NM_001170853	ENSMUSG00000090272	Mndal	Gm2785|Ifi212	myeloid nuclear differentiation antigen like	protein-coding	65.5	50.0	27.0	640.0	32.0	14.5	17.0	30.0
Merged-chr2-158596996-4	chr2	158596904	158597104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040359, intron 2 of 2)	intron (NR_040359, intron 2 of 2)	13719.0	NR_040358	100045469.0	Mm.143404	NR_040358	ENSMUSG00000086496	Gm14204	-	predicted gene 14204	ncRNA	26.0	31.0	11.5	255.0	47.0	6.5	33.0	25.5
Merged-chr2-154408064-4	chr2	154407975	154408175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009228)	promoter-TSS (NM_009228)	9.0	NM_009228	20648.0	Mm.1541	NM_009228	ENSMUSG00000027488	Snta1	AW228934|Snt1	syntrophin, acidic 1	protein-coding	51.5	63.0	57.5	850.5	128.0	34.5	70.0	42.0
Merged-chr7-25649938-4	chr7	25649820	25650020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007533, intron 1 of 8)	intron (NM_007533, intron 1 of 8)	8841.0	NM_007533	12039.0	Mm.25848	NM_007533	ENSMUSG00000060376	Bckdha	-	branched chain ketoacid dehydrogenase E1, alpha polypeptide	protein-coding	51.0	72.5	67.0	1159.5	90.0	17.0	24.0	34.0
Merged-chr4-134273558-1	chr4	134273458	134273658	+	865.0	f0_balb.idr	Intergenic	Intergenic	13695.0	NM_001163794	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	9.0	7.5	6.5	145.5	2.5	0.5	0.0	5.0
Merged-chr1-133661415-4	chr1	133661261	133661461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166552)	promoter-TSS (NM_001166552)	38.0	NM_144530	70579.0	Mm.245357	NM_144530	ENSMUSG00000102976	Zc3h11a	1110003F06Rik|5730454B08Rik|G630041M05Rik|Zc3hdc11a|Zc3hh11a|mKIAA0663	zinc finger CCCH type containing 11A	protein-coding	52.5	94.0	57.5	744.0	185.0	78.5	72.0	54.5
Merged-chr14-31193979-4	chr14	31193811	31194011	+	968.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 3 of 13)	intron (NM_001347583, intron 3 of 13)	12915.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	4.5	7.0	3.0	43.5	11.0	6.5	6.0	5.5
Merged-chr13-36557525-3	chr13	36557422	36557622	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176955.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	5.5	16.5	15.5	122.0	14.0	3.0	11.0	8.5
Merged-chr1-131252763-4	chr1	131252736	131252936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7658.0	NM_018750	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	20.5	52.0	47.5	280.5	115.0	41.0	38.0	41.5
Merged-chr8-53639026-4	chr8	53638922	53639122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146208)	promoter-TSS (NM_146208)	43.0	NM_146208	234258.0	Mm.281749	NM_146208	ENSMUSG00000039396	Neil3	AI449477|BC034753|C85903	nei like 3 (E. coli)	protein-coding	66.5	96.5	43.5	1138.0	134.5	44.5	125.0	49.0
Merged-chr18-39241160-4	chr18	39241054	39241254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 14 of 21)	intron (NM_001361073, intron 14 of 21)	246091.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	83.5	63.5	92.5	1245.0	172.5	70.5	96.0	89.0
Merged-chr4-116150445-6	chr4	116150352	116150552	+	999.9722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290658)	promoter-TSS (NM_001290658)	-66.0	NM_029786	68273.0	Mm.196045	NM_026651	ENSMUSG00000028700	Pomgnt1	0610016I07Rik|4930467B06Rik	protein O-linked mannose beta 1,2-N-acetylglucosaminyltransferase	protein-coding	19.5	35.0	22.0	262.0	59.0	18.5	53.0	24.0
Merged-chr4-116176581-4	chr4	116176484	116176684	+	849.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3212.0	NM_001099295	67323.0	Mm.45442	NM_001099295	ENSMUSG00000078593	1700042G07Rik	-	RIKEN cDNA 1700042G07 gene	protein-coding	9.5	23.0	12.5	101.5	21.5	21.5	13.5	14.0
Merged-chr19-44591294-4	chr19	44591197	44591397	+	973.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28443.0	NM_176958	319594.0	Mm.145278	NM_176958	ENSMUSG00000036450	Hif1an	2310046M24Rik|A830014H24Rik|FIH|FIH1	hypoxia-inducible factor 1, alpha subunit inhibitor	protein-coding	21.5	26.0	32.0	534.0	58.0	17.0	13.0	24.0
Merged-chr18-38393757-1	chr18	38393657	38393857	+	605.0	f0_balb.idr	Intergenic	MER33|DNA|hAT-Charlie	-25150.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	6.0	5.0	6.0	71.5	5.0	6.0	2.5	4.0
Merged-chr7-96483585-1	chr7	96483485	96483685	+	853.0	f1_balb.idr	intron (NM_011858, intron 3 of 32)	MLT1J|LTR|ERVL-MaLR	-141621.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	8.5	7.5	5.0	100.5	11.5	1.5	6.5	9.5
Merged-chr7-114066914-4	chr7	114066759	114066959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	50922.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	39.5	80.5	73.5	740.5	173.0	64.0	89.5	50.5
Merged-chr4-70409844-2	chr4	70409744	70409944	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001313762, intron 1 of 33)	intron (NM_001313762, intron 1 of 33)	591.0	NM_001313762	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	4.0	7.0	5.0	47.0	14.5	6.5	7.5	8.0
Merged-chr18-49642938-4	chr18	49642813	49643013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112688.0	NM_001170960	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	46.0	56.0	69.5	841.5	89.0	32.5	47.0	43.0
Merged-chr11-102411923-4	chr11	102411842	102412042	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20B|DNA|hAT-Charlie	-4425.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	34.0	87.0	24.5	271.0	113.0	46.0	39.5	20.0
Merged-chr7-145284015-4	chr7	145283928	145284128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132642)	promoter-TSS (NR_132642)	-17.0	NR_132642	233979.0	Mm.102235	NM_146206	ENSMUSG00000048677	Tpcn2	D830047E22Rik|Gm35086	two pore segment channel 2	protein-coding	112.0	162.0	135.5	1856.0	353.5	129.0	165.0	97.5
Merged-chr19-29675651-4	chr19	29675538	29675738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22303.0	NM_029993	77836.0	Mm.138437	NM_029993	ENSMUSG00000024806	Mlana	A930034P04Rik|Mart1	melan-A	protein-coding	51.5	58.5	23.5	520.5	74.0	35.0	21.0	30.0
Merged-chr13-81133704-4	chr13	81133521	81133721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	169547.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	52.5	42.5	81.0	817.5	91.0	38.5	35.5	43.5
Merged-chr18-58576171-5	chr18	58576076	58576276	+	897.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081072, intron 2 of 9)	intron (NM_001081072, intron 2 of 9)	19936.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	14.0	21.5	13.0	306.0	31.0	11.0	6.5	16.0
Merged-chr4-149137523-4	chr4	149137395	149137595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027263, exon 1 of 5)	exon (NM_027263, exon 1 of 5)	105.0	NM_027263	69928.0	Mm.260893	NM_027263	ENSMUSG00000073705	Cenps	2610040C18Rik|2810407L01Rik|Apitd1|CENP-S	centromere protein S	protein-coding	33.0	74.5	51.0	393.0	96.5	29.0	15.0	39.5
Merged-chr13-85290864-4	chr13	85290757	85290957	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1371.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	11.5	20.5	13.5	222.5	44.0	15.5	17.5	21.0
Merged-chr17-24886543-4	chr17	24886419	24886619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355396)	promoter-TSS (NM_001355396)	-124.0	NR_152137	79043.0	Mm.274794	NM_027141	ENSMUSG00000024160	Spsb3	2310012N15Rik|3300001M01Rik|SSB3|Tce1|mKIAA4204	splA/ryanodine receptor domain and SOCS box containing 3	protein-coding	300.5	504.0	256.0	3024.5	779.5	318.5	258.0	272.5
Merged-chr7-81859706-4	chr7	81859621	81859821	+	788.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111910, intron 1 of 7)	intron (NR_111910, intron 1 of 7)	720.0	NM_145375	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	16.0	15.0	17.0	164.5	22.5	4.5	15.0	10.0
Merged-chr17-48931932-4	chr17	48931833	48932033	+	864.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027452)	promoter-TSS (NM_027452)	-649.0	NM_027452	70530.0	Mm.133607	NM_027452	ENSMUSG00000040490	Lrfn2	5730420O05Rik|SALM1|mKIAA1246	leucine rich repeat and fibronectin type III domain containing 2	protein-coding	13.0	12.5	18.0	217.5	10.0	11.0	10.5	8.0
Merged-chr12-111454226-3	chr12	111454150	111454350	+	709.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009396, exon 12 of 12)	3' UTR (NM_009396, exon 12 of 12)	11589.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	8.0	8.0	9.5	50.0	29.5	8.0	9.0	5.0
Merged-chr11-88047653-4	chr11	88047566	88047766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173374, exon 1 of 4)	5' UTR (NM_173374, exon 1 of 4)	293.0	NM_173374	110809.0	Mm.391719	NM_173374	ENSMUSG00000018379	Srsf1	1110054N12Rik|5730507C05Rik|6330415C05Rik|AI482334|AW491331|Asf|Sf2|Sfrs1	serine/arginine-rich splicing factor 1	protein-coding	84.5	159.5	75.0	836.5	282.0	118.0	110.0	96.0
Merged-chr5-112287325-7	chr5	112287248	112287448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	10657.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	22.0	16.5	17.5	274.0	61.5	16.0	13.0	36.0
Merged-chr19-40702663-4	chr19	40702529	40702729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	42859.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	24.0	51.5	24.0	406.0	48.5	23.5	18.0	25.5
Merged-chr7-3694265-4	chr7	3694188	3694388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029934)	promoter-TSS (NM_029934)	-220.0	NM_024168	66078.0	Mm.379100	NM_024168	ENSMUSG00000035585	Tsen34	0610027F08Rik|Leng5	tRNA splicing endonuclease subunit 34	protein-coding	47.5	91.5	34.0	485.0	110.5	44.5	64.0	52.0
Merged-chr10-119047412-3	chr10	119047344	119047544	+	965.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152787, intron 2 of 3)	MTC|LTR|ERVL-MaLR	3055.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	0.5	10.5	9.5	53.0	36.5	12.5	15.5	15.5
Merged-chr6-5297511-4	chr6	5297431	5297631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183308, intron 1 of 8)	intron (NM_183308, intron 1 of 8)	842.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	49.5	70.0	57.5	886.5	92.0	41.5	56.0	33.5
Merged-chr7-3629788-6	chr7	3629645	3629845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027328)	promoter-TSS (NM_027328)	184.0	NM_023524	69714.0	Mm.358730	NM_023524	ENSMUSG00000006335	Tfpt	2400004F01Rik|AI450389|Amida|FB1	TCF3 (E2A) fusion partner	protein-coding	21.5	25.5	37.0	175.5	57.0	18.0	11.0	18.0
Merged-chr4-133651670-4	chr4	133651594	133651794	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J-int|LTR|ERVL-MaLR	-18265.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	36.5	73.0	42.0	606.5	42.5	13.0	31.5	16.0
Merged-chr5-138686070-4	chr5	138685968	138686168	+	956.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63209.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	14.0	35.5	13.0	70.0	85.5	38.0	19.0	35.0
Merged-chr4-133659658-4	chr4	133659596	133659796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12951.0	NM_001145955	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	58.0	28.0	46.5	688.5	33.5	20.5	16.0	22.0
Merged-chr8-79447508-4	chr8	79447391	79447591	+	976.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48023.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	24.5	17.0	42.0	739.0	36.0	7.0	22.5	18.0
Merged-chr11-70655955-6	chr11	70655857	70656057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-2177	-1219.0	NM_001136062	13808.0	Mm.251322	NM_007933	ENSMUSG00000060600	Eno3	Eno-3|MSE	enolase 3, beta muscle	protein-coding	21.0	31.5	24.0	170.0	55.5	25.0	21.5	37.5
Merged-chr10-117982759-3	chr10	117982660	117982860	+	997.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57301.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	17.5	36.5	15.0	186.0	41.0	6.0	7.0	7.5
Merged-chr4-99152355-4	chr4	99152253	99152453	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31438.0	NM_026082	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	13.0	21.0	23.0	486.0	50.0	14.0	30.0	19.5
Merged-chr5-124059835-4	chr5	124059728	124059928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27568.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	42.5	77.5	35.5	400.5	72.5	40.5	38.0	31.0
Merged-chr17-34079791-4	chr17	34079715	34079915	+	956.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12564.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	24.5	30.0	8.0	118.5	79.0	23.0	31.0	24.5
Merged-chr3-55452096-3	chr3	55451988	55452188	+	651.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 5 of 16)	intron (NM_001357475, intron 5 of 16)	-9640.0	NM_001195539	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	6.5	11.0	3.0	85.0	17.0	9.0	11.0	11.5
Merged-chr7-19477271-3	chr7	19477170	19477370	+	877.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18776.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	0.5	2.5	6.0	92.0	23.5	7.0	13.0	5.0
Merged-chr6-125352094-4	chr6	125351995	125352195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	2372.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	24.5	37.0	22.5	350.0	117.5	36.0	45.5	46.0
Merged-chr4-35097066-4	chr4	35096956	35097156	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-54999.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	54.5	49.0	57.0	885.0	39.5	16.5	29.0	19.0
Merged-chr2-128124681-4	chr2	128124547	128124747	+	916.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028765)	TTS (NM_028765)	-1391.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	11.5	46.0	24.5	125.5	44.0	18.0	13.5	11.5
Merged-chr1-93485473-4	chr1	93485357	93485557	+	865.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159719, intron 1 of 12)	intron (NM_001159719, intron 1 of 12)	6396.0	NM_001159719	18000.0	Mm.428652	NM_010891	ENSMUSG00000026276	Sept2	AW208991|Nedd-5|Nedd5|mKIAA0158	septin 2	protein-coding	13.0	7.0	1.0	78.5	42.5	14.0	22.0	10.5
Merged-chr8-43367871-4	chr8	43367766	43367966	+	765.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60857.0	NM_009556	22702.0	Mm.285848	NM_009556	ENSMUSG00000051176	Zfp42	Rex-1|Rex1|Zfp-42	zinc finger protein 42	protein-coding	2.0	11.5	8.5	197.0	22.0	14.5	22.5	19.0
Merged-chr17-29394605-1	chr17	29394505	29394705	+	1000.0	f1_balb.idr	Intergenic	Intergenic	33691.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	24.5	38.5	10.0	199.0	96.0	25.5	27.0	33.0
Merged-chr17-65635907-4	chr17	65635787	65635987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3869.0	NM_153519	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	116.0	240.5	157.5	1472.0	211.5	124.0	100.0	59.0
Merged-chr3-86959777-1	chr3	86959677	86959877	+	789.0	f0_balb.idr	Intergenic	Intergenic	-26809.0	NM_001289449	12480.0	Mm.389465	NM_007640	ENSMUSG00000041750	Cd1d2	CD1.2|Cd1b|Ly-38	CD1d2 antigen	protein-coding	4.5	13.0	8.5	104.0	1.0	0.5	0.0	1.0
Merged-chr16-30602998-3	chr16	30602917	30603117	+	817.383362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177632)	TTS (NM_177632)	3294.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	7.5	17.0	11.0	136.0	13.0	4.5	5.5	6.0
Merged-chr12-98747463-2	chr12	98747363	98747563	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001008506, intron 1 of 14)	intron (NM_001008506, intron 1 of 14)	495.0	NM_029334	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	9.0	8.0	2.5	66.0	35.5	4.5	6.0	11.0
Merged-chr16-30058577-2	chr16	30058463	30058663	+	757.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6794.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	0.5	3.0	4.0	58.5	7.5	4.5	6.0	5.0
Merged-chr8-114438432-4	chr8	114438318	114438518	+	853.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1234.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	8.0	6.0	5.5	132.0	50.5	8.5	12.0	4.5
Merged-chr17-8147789-4	chr17	8147671	8147871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083938)	promoter-TSS (NM_001083938)	17.0	NM_001083938	100037283.0	Mm.426736	NM_001083938	ENSMUSG00000095687	Rnaset2a	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2A	protein-coding	77.0	121.5	83.5	580.5	121.5	54.0	65.5	56.0
Merged-chr4-136116036-2	chr4	136115935	136116135	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27787.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	5.0	9.0	6.0	32.5	19.0	4.0	6.0	2.0
Merged-chr9-55326759-4	chr9	55326671	55326871	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357568)	promoter-TSS (NM_001357568)	-142.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	16.0	37.0	23.0	296.5	45.0	20.0	16.0	13.0
Merged-chr10-77974551-4	chr10	77974451	77974651	+	979.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4099.0	NM_026431	67884.0	Mm.297512	NM_026431	ENSMUSG00000020284	1810043G02Rik	AV026620|D10Jhu13e	RIKEN cDNA 1810043G02 gene	protein-coding	23.0	30.0	12.5	338.0	45.0	18.0	27.0	16.0
Merged-chr17-45767175-4	chr17	45767095	45767295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	intron (NR_152153, intron 2 of 4)	32689.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	53.5	60.0	58.0	896.5	142.0	38.5	73.0	54.0
Merged-chr6-127264113-3	chr6	127264131	127264331	+	756.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43736.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	2.5	4.5	6.0	102.0	5.0	4.5	6.0	8.5
Merged-chr10-120815451-4	chr10	120815318	120815518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 5 of 6)	intron (NM_177092, intron 5 of 6)	-42211.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	19.0	47.5	39.0	574.5	34.0	18.0	23.0	17.0
Merged-chr4-6357253-4	chr4	6357159	6357359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-8421.0	NM_016807	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	80.0	115.5	92.5	1274.0	205.5	57.5	100.5	76.0
Merged-chr2-75685612-4	chr2	75685498	75685698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010902, intron 1 of 4)	intron (NM_010902, intron 1 of 4)	19065.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	147.0	224.5	146.0	2332.5	336.5	140.5	149.5	149.5
Merged-chr11-79673898-4	chr11	79673803	79674003	+	747.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045898, intron 2 of 2)	intron (NR_045898, intron 2 of 2)	1183.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	8.0	19.5	10.5	66.5	38.0	10.0	18.5	9.5
Merged-chr17-13144976-5	chr17	13144818	13145018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13127.0	NM_199252	381058.0	Mm.390935	NM_199252	ENSMUSG00000067049	Unc93a	Unc93l|unc-93A	unc-93 homolog A (C. elegans)	protein-coding	18.0	58.5	53.0	218.5	72.0	34.0	31.5	31.0
Merged-chr6-29827400-4	chr6	29827324	29827524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	intron (NM_001171000, intron 1 of 16)	-26317.0	NM_001347084	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	45.5	65.0	41.0	708.0	81.0	40.0	34.0	32.0
Merged-chr15-58416056-5	chr15	58415946	58416146	+	869.900024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145959, intron 1 of 23)	intron (NM_145959, intron 1 of 23)	578.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	4.5	2.5	9.0	76.0	28.0	8.0	7.0	21.0
Merged-chr12-91877788-3	chr12	91877676	91877876	+	741.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28619.0	NM_011344	20338.0	Mm.250605	NM_011344	ENSMUSG00000020964	Sel1l	AW493766|Sel1h|mKIAA4137	sel-1 suppressor of lin-12-like (C. elegans)	protein-coding	5.5	8.5	10.0	95.5	38.0	4.0	2.0	9.5
Merged-chr3-142596983-3	chr3	142596870	142597070	+	858.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010259, intron 1 of 10)	Lx9|LINE|L1	2123.0	NM_010259	14468.0	Mm.457978	NM_010259	ENSMUSG00000040264	Gbp2b	Gbp-1|Gbp1|Mag-1|Mpa-1|Mpa1	guanylate binding protein 2b	protein-coding	5.0	3.5	4.5	120.5	36.5	12.0	17.5	14.0
Merged-chr6-100438816-4	chr6	100438711	100438911	+	872.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-88589.0	NR_040525	73395.0	Mm.69413	NR_040525	ENSMUSG00000101553	1700049E22Rik	-	RIKEN cDNA 1700049E22 gene	ncRNA	15.0	12.5	13.0	241.0	29.5	12.5	18.0	15.5
Merged-chr7-98672755-4	chr7	98672649	98672849	+	910.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16180.0	NM_172280	233545.0	Mm.387819	NM_172280	ENSMUSG00000035401	Emsy	2210018M11Rik|2310016L09Rik|AU019521|AU019557	EMSY, BRCA2-interacting transcriptional repressor	protein-coding	21.0	34.0	13.5	351.5	34.5	17.5	19.0	25.5
Merged-chr3-146111136-3	chr3	146111038	146111238	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3102.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	44.5	83.5	51.0	1032.5	10.0	3.0	8.5	6.0
Merged-chr11-59543501-4	chr11	59543432	59543632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 2 of 9)	L1MB2|LINE|L1	846.0	NR_153314	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	58.5	67.5	20.0	252.0	133.5	41.5	37.5	32.5
Merged-chr4-6367036-3	chr4	6366898	6367098	+	920.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	1318.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	4.0	19.0	8.5	133.0	35.5	4.5	10.0	9.0
Merged-chr10-21465544-3	chr10	21465440	21465640	+	901.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88240.0	NM_178713	237320.0	Mm.90181	NM_178713	ENSMUSG00000037542	Aldh8a1	Raldh4	aldehyde dehydrogenase 8 family, member A1	protein-coding	19.5	20.5	5.5	142.5	14.5	5.0	9.0	20.0
Merged-chr11-49986827-4	chr11	49986739	49986939	+	782.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38492.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	16.5	21.5	3.0	90.5	10.5	10.0	10.5	12.0
Merged-chr12-102366251-4	chr12	102366130	102366330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 5 of 9)	intron (NM_177620, intron 5 of 9)	73583.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	41.0	37.5	64.5	941.0	72.5	12.0	26.5	25.5
Merged-chr3-54807817-4	chr3	54807719	54807919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133231)	promoter-TSS (NM_133231)	-28.0	NM_133231	170767.0	Mm.185735	NM_133231	ENSMUSG00000036615	Rfxap	5730495K23Rik	regulatory factor X-associated protein	protein-coding	87.5	123.5	115.5	1461.0	273.5	120.0	137.5	154.5
Merged-chr10-18318692-3	chr10	18318615	18318815	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-83734.0	NM_144820	215814.0	Mm.296565	NM_144820	ENSMUSG00000059554	Ccdc28a	1700009P13Rik|AI480677	coiled-coil domain containing 28A	protein-coding	5.0	6.5	6.5	53.5	5.5	7.0	2.0	3.5
Merged-chr5-74944250-4	chr5	74944154	74944354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4940.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	66.5	93.5	65.5	1484.0	154.0	54.5	88.0	59.0
Merged-chr8-11430966-4	chr8	11430876	11431076	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 29 of 47)	intron (NM_009932, intron 29 of 47)	-46953.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	27.5	53.0	42.0	345.0	39.5	16.0	22.5	17.0
Merged-chr10-76468847-4	chr10	76468730	76468930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019434)	promoter-TSS (NM_019434)	-141.0	NM_019434	54387.0	Mm.30098	NM_019434	ENSMUSG00000001150	Mcm3ap	GANP|mKIAA0572	minichromosome maintenance complex component 3 associated protein	protein-coding	48.5	101.0	76.0	1004.0	87.0	42.0	64.5	69.0
Merged-chr1-20933642-3	chr1	20933544	20933744	+	966.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355122, intron 2 of 2)	intron (NM_001355122, intron 2 of 2)	15804.0	NM_001355122	74229.0	Mm.40780	NM_028829	ENSMUSG00000025931	Paqr8	1700019B16Rik|3110001D06Rik	progestin and adipoQ receptor family member VIII	protein-coding	31.5	18.5	13.5	364.0	19.5	2.5	16.0	10.0
Merged-chr17-35821167-4	chr17	35821044	35821244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133662)	promoter-TSS (NM_133662)	-569.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	24.0	50.0	25.0	365.5	69.0	34.5	24.5	17.5
Merged-chr3-55153156-3	chr3	55153061	55153261	+	761.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177203, intron 4 of 7)	intron (NM_177203, intron 4 of 7)	10920.0	NR_110781	320604.0	Mm.213909	NM_177203	ENSMUSG00000048655	Ccdc169	A730037C10Rik	coiled-coil domain containing 169	protein-coding	10.0	16.0	10.5	163.5	16.0	3.5	6.0	7.0
Merged-chr8-3251285-4	chr8	3251208	3251408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330056, intron 2 of 21)	intron (NM_001330056, intron 2 of 21)	28309.0	NM_010568	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	74.0	74.5	87.0	1407.0	132.5	34.5	78.0	37.5
Merged-chr5-122901853-4	chr5	122901749	122901949	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 12 of 22)	intron (NM_001003953, intron 12 of 22)	-1499.0	NM_013910	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	18.0	31.5	16.5	391.5	33.0	9.0	17.5	23.0
Merged-chr19-8989322-3	chr19	8989211	8989411	+	893.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286518)	promoter-TSS (NM_001286518)	27.0	NM_001286518	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	11.0	7.5	7.5	131.5	15.0	6.5	7.5	8.5
Merged-chr13-91809634-4	chr13	91809558	91809758	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1962.0	NM_145453	69085.0	Mm.52356	NM_145453	ENSMUSG00000021621	Zcchc9	1810019C21Rik	zinc finger, CCHC domain containing 9	protein-coding	9.0	11.0	2.5	114.5	24.0	15.0	12.5	6.5
Merged-chr5-86935451-4	chr5	86935357	86935557	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	-8954.0	NM_152811	71773.0	Mm.26741	NM_152811	ENSMUSG00000035836	Ugt2b1	1300012D20Rik	UDP glucuronosyltransferase 2 family, polypeptide B1	protein-coding	32.0	31.5	49.0	1127.5	70.0	17.0	36.5	17.0
Merged-chr1-87851424-3	chr1	87851295	87851495	+	879.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-1892.0	NM_177646	227333.0	Mm.277217	NM_177646	ENSMUSG00000070738	Dgkd	AI841987|D330025K09|DGKdelta|dgkd-2	diacylglycerol kinase, delta	protein-coding	4.5	13.0	7.0	82.5	21.0	6.5	5.5	4.5
Merged-chr9-121642136-4	chr9	121642036	121642236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011703)	promoter-TSS (NM_011703)	-40.0	NM_001357346	69032.0	Mm.33351	NM_026915	ENSMUSG00000032530	Lyzl4	1810009N24Rik|AI504271|Lyc4|Lyza	lysozyme-like 4	protein-coding	18.5	33.5	20.0	400.5	67.0	32.0	45.5	45.0
Merged-chr16-92826111-4	chr16	92826042	92826242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111021)	promoter-TSS (NM_001111021)	-68.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	101.0	149.0	89.5	1587.0	219.0	89.5	77.0	92.5
Merged-chr11-114795514-2	chr11	114795414	114795614	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028055, intron 1 of 2)	intron (NM_028055, intron 1 of 2)	378.0	NM_028055	72014.0	Mm.38347	NM_028055	ENSMUSG00000000202	Btbd17	1500005I02Rik|Tango10a	BTB (POZ) domain containing 17	protein-coding	7.5	10.0	12.0	70.0	11.5	2.0	6.5	5.0
Merged-chr13-20794115-4	chr13	20794012	20794212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281854)	promoter-TSS (NM_001281854)	-1.0	NM_001281854	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	63.0	111.0	86.0	895.5	190.5	56.0	74.5	44.0
Merged-chr13-76597161-4	chr13	76596940	76597140	+	890.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	212079.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	4.5	0.5	5.0	61.0	11.5	7.5	8.5	5.0
Merged-chr5-118095681-4	chr5	118095617	118095817	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172721, exon 6 of 11)	exon (NM_172721, exon 6 of 11)	59741.0	NM_172721	231672.0	Mm.221769	NM_172721	ENSMUSG00000032867	Fbxw8	4930438M06Rik|FBW6|FBW8|FBXO29|Fbx29	F-box and WD-40 domain protein 8	protein-coding	14.5	26.0	14.5	199.5	17.0	5.5	14.0	8.5
Merged-chr8-22706573-4	chr8	22706539	22706739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010546)	promoter-TSS (NM_010546)	-56.0	NM_001159774	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	53.0	56.0	83.5	762.5	118.5	46.0	61.0	39.0
Merged-chr17-35220765-4	chr17	35220649	35220849	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010909, exon 4 of 4)	exon (NM_010909, exon 4 of 4)	-14261.0	NM_001347351	66237.0	Mm.396107	NM_023179	ENSMUSG00000024403	Atp6v1g2	1500002D01Rik|Atp6g2|NG38|VAG2	ATPase, H+ transporting, lysosomal V1 subunit G2	protein-coding	6.5	28.0	12.5	120.5	51.0	16.0	5.5	13.5
Merged-chr18-67457757-4	chr18	67457626	67457826	+	845.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7123.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	11.5	10.5	7.0	238.0	25.0	9.0	14.5	5.5
Merged-chr10-87910834-4	chr10	87910726	87910926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111274, intron 2 of 4)	intron (NM_001111274, intron 2 of 4)	49715.0	NM_001111276	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	24.5	45.0	27.5	443.0	59.0	19.0	27.0	35.5
Merged-chr11-116198918-6	chr11	116198843	116199043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027107)	promoter-TSS (NM_027107)	88.0	NM_027107	69535.0	Mm.390347	NM_027107	ENSMUSG00000020778	Ten1	2310004N24Rik	TEN1 telomerase capping complex subunit	protein-coding	87.0	164.5	87.0	1282.5	239.0	107.0	87.0	96.5
Merged-chr11-20937206-3	chr11	20937121	20937321	+	877.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106113.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	12.5	5.5	11.0	205.5	6.5	0.0	1.0	8.0
Merged-chr12-54696519-4	chr12	54696449	54696649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331162)	promoter-TSS (NM_001331162)	-655.0	NM_025456	66266.0	Mm.156440	NM_025456	ENSMUSG00000054302	Eapp	1810011O16Rik	E2F-associated phosphoprotein	protein-coding	17.0	42.5	20.0	303.5	93.0	29.0	34.0	39.5
Merged-chr10-80226534-4	chr10	80226423	80226623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023431)	promoter-TSS (NM_023431)	-75.0	NM_023431	68114.0	Mm.273418	NM_023431	ENSMUSG00000020156	Mum1	2610019J09|9430059D04Rik|UBE-1C2	melanoma associated antigen (mutated) 1	protein-coding	215.5	356.5	222.0	3360.5	577.0	177.0	324.5	196.0
Merged-chr7-28866055-4	chr7	28865910	28866110	+	928.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008496, intron 3 of 3)	intron (NM_008496, intron 3 of 3)	1624.0	NM_008496	16858.0	Mm.20973	NM_008496	ENSMUSG00000053522	Lgals7	Galectin-7|Pig1	lectin, galactose binding, soluble 7	protein-coding	9.0	9.0	14.0	103.5	12.0	5.0	5.0	16.5
Merged-chr2-52982790-4	chr2	52982735	52982935	+	923.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	B4A|SINE|B4	124967.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	6.0	12.0	12.0	116.0	17.5	9.0	13.0	11.0
Merged-chr8-26978708-4	chr8	26978621	26978821	+	994.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101502, exon 2 of 2)	exon (NM_001101502, exon 2 of 2)	1385.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	18.5	41.0	17.5	186.0	112.0	43.0	38.5	33.0
Merged-chr11-98795823-4	chr11	98795719	98795919	+	964.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001361932, exon 1 of 3)	5' UTR (NM_001361932, exon 1 of 3)	303.0	NM_028722	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	15.5	32.0	11.5	103.5	30.5	16.5	12.5	21.0
Merged-chr2-136919558-1	chr2	136919458	136919658	+	546.0	f0_balb.idr	intron (NM_001355671, intron 2 of 6)	intron (NM_001355671, intron 2 of 6)	20207.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	7.0	18.5	7.0	75.5	7.0	6.5	3.0	8.0
Merged-chr10-81177180-4	chr10	81177086	81177286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007907, intron 1 of 13)	intron (NM_007907, intron 1 of 13)	555.0	NM_007907	13629.0	Mm.2903	NM_007907	ENSMUSG00000034994	Eef2	Ef-2	eukaryotic translation elongation factor 2	protein-coding	22.0	39.0	34.5	346.5	80.5	20.0	36.0	44.5
Merged-chr1-131688679-4	chr1	131688570	131688770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311096)	promoter-TSS (NM_001311096)	-25.0	NM_001311096	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	37.5	87.5	55.5	733.5	110.0	50.0	73.0	44.5
Merged-chr2-117299113-4	chr2	117299031	117299231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 5 of 16)	intron (NM_011246, intron 5 of 16)	43746.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	68.5	120.5	57.0	617.5	193.0	83.5	76.0	60.0
Merged-chr10-43424684-3	chr10	43424587	43424787	+	982.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168289, intron 7 of 7)	intron (NM_001168289, intron 7 of 7)	-54453.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	6.0	17.5	25.5	250.5	21.5	3.0	7.5	3.5
Merged-chr3-95519094-4	chr3	95518982	95519182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-7704.0	NM_021281	13040.0	Mm.3619	NM_021281	ENSMUSG00000038642	Ctss	Cats	cathepsin S	protein-coding	58.5	87.0	47.5	703.0	127.5	48.0	40.0	52.5
Merged-chr9-94672788-4	chr9	94672700	94672900	+	848.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 1 of 15)	intron (NM_177909, intron 1 of 15)	2908.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	19.0	19.0	14.5	227.5	27.0	18.0	14.0	2.0
Merged-chr17-71020741-3	chr17	71020635	71020835	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 1 of 36)	intron (NM_001083934, intron 1 of 36)	1178.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	8.0	21.5	21.5	167.0	13.0	13.0	6.5	7.5
Merged-chr3-97610131-4	chr3	97610011	97610211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026539)	promoter-TSS (NM_026539)	79.0	NM_026539	68058.0	Mm.31761	NM_026539	ENSMUSG00000028089	Chd1l	4432404A22Rik|Alc1|Snf2p	chromodomain helicase DNA binding protein 1-like	protein-coding	74.0	105.0	127.5	977.0	123.5	59.5	68.0	69.5
Merged-chr2-102532315-3	chr2	102532219	102532419	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17702.0	NM_173749	210622.0	Mm.28649	NM_173749	ENSMUSG00000027188	Pamr1	5930437L24|E430002G05Rik|Ramp	peptidase domain containing associated with muscle regeneration 1	protein-coding	1.0	0.0	2.0	60.5	93.5	23.0	45.0	41.0
Merged-chr8-72646588-3	chr8	72646479	72646679	+	893.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176940)	promoter-TSS (NM_176940)	-132.0	NM_176940	319555.0	Mm.390076	NM_176940	ENSMUSG00000048148	Nwd1	A230063L24Rik	NACHT and WD repeat domain containing 1	protein-coding	2.0	8.0	10.5	57.0	26.5	7.0	8.0	14.5
Merged-chr9-121277305-2	chr9	121277205	121277405	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177589)	promoter-TSS (NM_177589)	-133.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	18.5	10.5	20.0	229.5	19.0	21.5	6.5	11.5
Merged-chr10-19591897-4	chr10	19591799	19591999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010511)	promoter-TSS (NM_010511)	-50.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	324.5	495.0	304.5	3921.0	717.5	294.5	337.0	235.5
Merged-chr4-134128770-4	chr4	134128690	134128890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080559)	promoter-TSS (NM_080559)	-37.0	NM_080559	73723.0	Mm.22240	NM_080559	ENSMUSG00000028843	Sh3bgrl3	1110004L05Rik|AU022188	SH3 domain binding glutamic acid-rich protein-like 3	protein-coding	62.5	65.0	33.5	616.0	103.5	35.5	39.5	40.0
Merged-chr8-46078645-3	chr8	46078531	46078731	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207213, intron 5 of 17)	intron (NM_207213, intron 5 of 17)	45515.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	9.0	5.0	10.5	175.0	15.0	4.0	2.5	5.5
Merged-chr5-143732478-4	chr5	143732362	143732562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029749)	promoter-TSS (NM_029749)	-182.0	NM_029749	76800.0	Mm.259620	NM_029749	ENSMUSG00000051306	Usp42	2410140K03Rik|3110031A07Rik|A630018G05Rik|D5Ertd591e	ubiquitin specific peptidase 42	protein-coding	123.0	232.5	152.0	1949.5	444.0	165.5	183.5	147.5
Merged-chr10-40527775-2	chr10	40527675	40527875	+	852.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42587.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	5.0	6.0	8.5	58.5	9.5	1.5	3.0	2.5
Merged-chr11-104367953-4	chr11	104367842	104368042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 5 of 14)	B1_Mm|SINE|Alu	74349.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	76.5	109.5	66.0	1114.5	140.0	44.5	52.0	59.0
Merged-chr15-67479484-4	chr15	67479382	67479582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	252713.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	37.5	64.5	8.5	472.0	66.5	26.0	23.5	28.5
Merged-chr2-125673042-4	chr2	125672945	125673145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025613)	promoter-TSS (NM_025613)	-55.0	NM_025613	58521.0	Mm.425101	NM_025613	ENSMUSG00000091337	Eid1	2610002K20Rik|Cri1|EID-1|ORF12|PNAS-22|PTD014	EP300 interacting inhibitor of differentiation 1	protein-coding	61.0	74.5	38.0	914.5	104.0	30.0	49.0	51.0
Merged-chr11-106098470-3	chr11	106098339	106098539	+	769.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 2 of 15)	intron (NM_011947, intron 2 of 15)	13537.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	6.5	12.0	2.5	68.0	9.0	8.5	7.5	11.0
Merged-chr17-80180203-4	chr17	80180114	80180314	+	971.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 4 of 6)	intron (NM_176963, intron 4 of 6)	27091.0	NM_001195486	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	23.0	33.5	25.0	296.5	50.5	22.5	15.5	23.5
Merged-chr4-139579185-4	chr4	139579078	139579278	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 1 of 8)	intron (NM_001205173, intron 1 of 8)	4458.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	10.0	21.0	4.5	118.0	120.0	41.5	31.0	40.5
Merged-chr15-100228344-4	chr15	100228261	100228461	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007497, intron 1 of 6)	CpG	502.0	NM_007497	11908.0	Mm.676	NM_007497	ENSMUSG00000023027	Atf1	-	activating transcription factor 1	protein-coding	12.5	37.0	27.5	289.5	46.5	24.0	13.0	18.5
Merged-chr8-61553866-2	chr8	61553766	61553966	+	729.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	37303.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	1.0	2.5	2.0	29.5	23.0	6.0	8.5	14.0
Merged-chr17-57285170-4	chr17	57285061	57285261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	intron (NM_001163816, intron 1 of 25)	6061.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	70.0	158.5	71.0	1085.5	238.5	112.5	80.5	97.0
Merged-chr5-54019699-4	chr5	54019585	54019785	+	983.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	21162.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	17.0	31.0	21.0	257.5	35.5	21.0	39.5	16.0
Merged-chr5-90896322-1	chr5	90896222	90896422	+	756.0	f0_balb.idr	Intergenic	Lx3C|LINE|L1	5077.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	7.5	16.5	12.5	33.5	6.5	2.0	2.5	3.5
Merged-chr10-9889825-2	chr10	9889725	9889925	+	890.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	intron (NM_001081344, intron 2 of 25)	11215.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	2.5	0.0	5.5	24.5	31.5	9.0	7.5	6.5
Merged-chr12-12264318-4	chr12	12264203	12264403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	2164.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	49.5	101.0	98.0	1107.0	222.0	73.0	99.5	78.5
Merged-chr6-57765615-4	chr6	57765513	57765713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 3 of 4)	intron (NM_146168, intron 3 of 4)	59512.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	98.0	130.5	133.0	1725.0	309.0	76.0	107.0	72.0
Merged-chr1-157047691-4	chr1	157047633	157047833	+	930.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60917.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	11.5	24.5	12.5	99.0	25.5	5.0	11.5	13.5
Merged-chr17-35241935-7	chr17	35241825	35242025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252457)	promoter-TSS (NM_001252457)	179.0	NM_019693	53817.0	Mm.439827	NM_019693	ENSMUSG00000019432	Ddx39b	0610030D10Rik|AI428441|Bat-1|Bat1|Bat1a|D17H6S81E|D17H6S81E-1|D6S81Eh	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B	protein-coding	41.0	88.5	56.5	481.5	164.5	75.5	42.0	74.5
Merged-chr4-46643511-4	chr4	46643406	46643606	+	770.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198664, intron 2 of 12)	intron (NM_198664, intron 2 of 12)	6693.0	NM_198664	381605.0	Mm.331595	NM_198664	ENSMUSG00000039813	Tbc1d2	A630005A06Rik|BC022630|Gm1037|PARIS-1|PARIS1	TBC1 domain family, member 2	protein-coding	2.5	18.0	10.0	154.0	19.5	5.0	5.5	8.5
Merged-chr2-142903055-4	chr2	142902952	142903152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131921)	promoter-TSS (NR_131921)	87.0	NR_131921	75053.0	Mm.72638	NR_131921	ENSMUSG00000086504	Kif16bos	4930511F01Rik	kinesin family member 16B, opposite strand	ncRNA	151.5	189.5	194.5	2982.0	401.0	134.5	209.5	159.0
Merged-chr14-45155865-4	chr14	45155765	45155965	+	842.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310534, intron 14 of 20)	MT2A|LTR|ERVL	63560.0	NM_172597	70561.0	Mm.28129	NM_172597	ENSMUSG00000021830	Txndc16	5730420B22Rik|C77647	thioredoxin domain containing 16	protein-coding	5.5	8.0	17.5	105.5	19.5	4.0	5.5	8.0
Merged-chr15-3958183-2	chr15	3958083	3958283	+	597.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21390.0	NM_134099	106052.0	Mm.234191	NM_134099	ENSMUSG00000022184	Fbxo4	1700096C12Rik|AI851261|AW494535|Fbx4	F-box protein 4	protein-coding	4.0	7.0	2.0	108.0	20.0	7.0	7.5	5.5
Merged-chr2-71042058-4	chr2	71041937	71042137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	Lx8|LINE|L1	13569.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	44.0	37.0	20.0	571.0	70.5	24.0	27.5	33.0
Merged-chr15-38662530-3	chr15	38662375	38662575	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025494, intron 1 of 12)	intron (NM_025494, intron 1 of 12)	571.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	18.0	20.0	23.5	303.5	48.0	12.5	20.0	25.5
Merged-chr17-8144104-4	chr17	8144043	8144243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026611, intron 2 of 8)	intron (NM_026611, intron 2 of 8)	3645.0	NM_001083938	100037283.0	Mm.426736	NM_001083938	ENSMUSG00000095687	Rnaset2a	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2A	protein-coding	57.0	75.0	54.5	709.5	94.0	37.0	46.0	32.0
Merged-chr6-108307424-4	chr6	108307308	108307508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	94312.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	74.0	108.0	46.5	994.0	123.5	51.5	51.5	49.0
Merged-chr3-96499760-4	chr3	96499698	96499898	+	884.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25387.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	6.5	5.5	13.0	131.0	14.0	15.0	7.5	12.0
Merged-chr5-135632635-4	chr5	135632548	135632748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146002)	promoter-TSS (NM_146002)	-6.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	128.5	213.5	100.5	1826.0	343.5	146.5	181.0	136.5
Merged-chr11-44471188-4	chr11	44471106	44471306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024475)	promoter-TSS (NM_024475)	-658.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	37.5	67.5	29.0	510.0	129.5	33.5	34.0	39.5
Merged-chr4-35165423-4	chr4	35165313	35165513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7929.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	94.5	108.5	106.0	1403.0	184.0	57.0	79.5	64.5
Merged-chr11-75170457-4	chr11	75170412	75170612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010430)	promoter-TSS (NM_010430)	-257.0	NM_010430	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	35.0	55.0	67.0	594.5	150.0	67.0	81.0	59.0
Merged-chr4-127027498-4	chr4	127027426	127027626	+	777.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045010, intron 9 of 11)	intron (NR_045010, intron 9 of 11)	6225.0	NM_023603	71514.0	Mm.257276	NM_023603	ENSMUSG00000028820	Sfpq	1110004P21Rik|2810416M14Rik|5730453G22Rik|9030402K04Rik|AU021830|D4Ertd314e|Gm12940|PSF|REP1	splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)	protein-coding	11.0	18.0	6.5	100.5	18.0	4.0	8.0	8.0
Merged-chr3-101806343-4	chr3	101806252	101806452	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29871.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	16.5	19.5	24.0	211.5	33.5	7.5	22.5	17.5
Merged-chr4-119966394-3	chr4	119966299	119966499	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	151721.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	103.5	168.5	117.0	1348.0	238.0	86.0	94.5	87.5
Merged-chr7-97843357-4	chr7	97843254	97843454	+	911.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357363, intron 1 of 14)	intron (NM_001357363, intron 1 of 14)	415.0	NM_011035	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	15.5	26.5	4.0	122.5	32.5	8.5	19.5	27.5
Merged-chr7-16019629-4	chr7	16019507	16019707	+	952.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28B|LTR|ERVL	-20112.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	28.0	31.5	29.5	564.5	43.5	13.0	12.5	23.5
Merged-chr11-110431676-3	chr11	110431576	110431776	+	926.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	MIRb|SINE|MIR	32574.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	10.5	19.0	3.0	59.5	42.5	14.0	19.0	9.5
Merged-chr12-102387893-2	chr12	102387793	102387993	+	899.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 9 of 9)	intron (NM_177620, intron 9 of 9)	51920.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	3.5	0.5	3.5	55.0	6.0	5.0	5.5	4.5
Merged-chr11-5734570-4	chr11	5734458	5734658	+	964.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	intron (NM_001361588, intron 1 of 6)	6618.0	NM_001361590	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	15.5	35.5	10.0	190.5	54.5	19.0	23.0	23.0
Merged-chr11-114915226-4	chr11	114915120	114915320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19166.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	97.5	76.0	86.5	1247.5	77.5	19.0	50.0	55.5
Merged-chr2-12923984-4	chr2	12923877	12924077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305436)	promoter-TSS (NM_001305436)	-64.0	NM_008961	19212.0	Mm.229322	NM_008961	ENSMUSG00000026730	Pter	AI790318|Mpr56-1	phosphotriesterase related	protein-coding	119.5	175.0	123.0	2184.0	342.5	110.5	152.5	130.5
Merged-chr10-60277682-4	chr10	60277570	60277770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146120)	promoter-TSS (NM_001146120)	42.0	NM_001146121	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	56.5	115.5	77.5	1208.0	291.0	99.0	99.0	133.5
Merged-chr6-120038549-7	chr6	120038420	120038620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001199083, exon 1 of 28)	5' UTR (NM_001199083, exon 1 of 28)	135.0	NM_001185020	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	61.5	95.5	79.0	765.5	131.5	65.0	52.5	58.0
Merged-chr18-20649108-2	chr18	20649008	20649208	+	690.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_155534, intron 1 of 2)	intron (NR_155534, intron 1 of 2)	-16142.0	NM_013697	22139.0	Mm.2108	NM_013697	ENSMUSG00000061808	Ttr	AA408768|AI787086|D17860|prealbumin	transthyretin	protein-coding	3.0	4.0	4.0	112.0	22.0	7.5	6.5	7.5
Merged-chr13-119601486-4	chr13	119601372	119601572	+	904.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	B1F1|SINE|Alu	-22347.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	17.0	12.5	15.0	52.5	15.5	12.0	8.0	29.5
Merged-chr15-66746583-4	chr15	66746477	66746677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 34 of 47)	intron (NM_009375, intron 34 of 47)	75807.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	159.0	210.0	170.5	2068.0	226.0	101.0	131.5	101.0
Merged-chr14-103099722-4	chr14	103099612	103099812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347601)	promoter-TSS (NM_001347601)	-146.0	NM_001360342	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	192.5	417.0	213.5	3231.5	574.5	242.0	263.5	127.0
Merged-chr8-79941197-3	chr8	79941095	79941295	+	910.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116813.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	16.0	15.5	17.5	250.5	16.5	3.5	14.5	9.0
Merged-chr8-25053002-4	chr8	25052891	25053091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 9 of 11)	L1_Rod|LINE|L1	-14029.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	104.0	141.0	127.0	2281.0	101.5	35.5	57.5	71.0
Merged-chr5-115125343-3	chr5	115125244	115125444	+	851.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175352, exon 5 of 5)	3' UTR (NM_175352, exon 5 of 5)	-5998.0	NM_007383	11409.0	Mm.18759	NM_007383	ENSMUSG00000029545	Acads	AI196007|Bcd-1|Bcd1|Hdlq8|SCAD	acyl-Coenzyme A dehydrogenase, short chain	protein-coding	10.0	9.5	5.5	150.5	30.0	5.0	7.5	8.5
Merged-chr19-8713828-11	chr19	8713706	8713906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008577)	promoter-TSS (NM_008577)	91.0	NM_008577	17254.0	Mm.4114	NM_008577	ENSMUSG00000010095	Slc3a2	4F2|4F2HC|AI314110|Cd98|Ly-10|Ly-m10|Ly10|Mdu1|Mgp-2hc|NACAE	solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2	protein-coding	42.0	55.0	40.0	466.5	78.0	28.5	42.5	41.5
Merged-chr4-124805205-4	chr4	124805092	124805292	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008636, intron 2 of 10)	intron (NM_008636, intron 2 of 10)	2643.0	NM_008636	17764.0	Mm.272397	NM_008636	ENSMUSG00000028890	Mtf1	MTF-1|Thyls	metal response element binding transcription factor 1	protein-coding	12.5	28.0	5.5	88.0	41.5	4.5	13.5	10.0
Merged-chr11-94730420-2	chr11	94730320	94730520	+	754.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25921.0	NM_001007584	432589.0	Mm.342314	NM_001007584	ENSMUSG00000056008	Gm11541	-	predicted gene 11541	protein-coding	2.0	3.5	7.5	24.5	20.5	6.0	7.0	9.0
Merged-chr10-84556360-4	chr10	84556255	84556455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3017.0	NR_040658	442847.0	Mm.128292	NR_040658	ENSMUSG00000097076	Platr7	C330046G13Rik	pluripotency associated transcript 7	ncRNA	59.0	61.0	37.5	502.0	77.5	44.5	28.0	28.5
Merged-chr5-123827751-3	chr5	123827652	123827852	+	973.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37764.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	3.0	16.5	4.5	148.5	16.0	4.5	9.5	11.5
Merged-chr1-65090586-4	chr1	65090556	65090756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31B|LTR|ERV1	-8366.0	NM_144761	12965.0	Mm.440053	NM_144761	ENSMUSG00000073658	Crygb	Cryg-3|DGcry-3|Nop	crystallin, gamma B	protein-coding	77.0	118.0	53.5	1194.0	145.0	57.0	54.5	35.0
Merged-chr11-53300572-4	chr11	53300486	53300686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008300)	promoter-TSS (NM_008300)	-107.0	NM_008300	15525.0	Mm.239865	NM_008300	ENSMUSG00000020361	Hspa4	70kDa|AI317151|APG-2|Hsp110|Hsp70RY|mKIAA4025	heat shock protein 4	protein-coding	223.0	318.5	185.0	2208.0	573.0	200.0	204.5	190.0
Merged-chr15-3982909-4	chr15	3982811	3983011	+	959.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145930, exon 6 of 6)	3' UTR (NM_145930, exon 6 of 6)	-3338.0	NM_134099	106052.0	Mm.234191	NM_134099	ENSMUSG00000022184	Fbxo4	1700096C12Rik|AI851261|AW494535|Fbx4	F-box protein 4	protein-coding	12.5	20.0	12.5	295.0	55.5	7.0	11.0	13.0
Merged-chr1-156568314-1	chr1	156568214	156568414	+	738.0	f1_balb.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	9527.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	2.5	2.0	2.0	33.5	15.5	6.0	5.5	8.5
Merged-chr6-148443574-1	chr6	148443474	148443674	+	561.0	f0_balb.idr	intron (NM_198967, intron 1 of 19)	intron (NM_198967, intron 1 of 19)	778.0	NM_198967	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	3.0	1.0	6.5	53.5	14.0	6.5	5.5	8.5
Merged-chr7-43562893-4	chr7	43562794	43562994	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008549, intron 1 of 4)	intron (NM_001008549, intron 1 of 4)	524.0	NM_001008549	210104.0	Mm.333821	NM_001008549	ENSMUSG00000056592	Zfp658	-	zinc finger protein 658	protein-coding	3.5	23.5	14.5	118.0	31.0	11.5	11.0	33.0
Merged-chr10-118083207-4	chr10	118083103	118083303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58584.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	222.0	313.0	235.0	3797.0	294.5	55.0	136.5	124.5
Merged-chr14-103477404-4	chr14	103477307	103477507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-35934.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	93.5	124.0	124.5	1820.5	253.0	106.5	75.0	111.0
Merged-chr14-61518837-4	chr14	61518737	61518937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1B|DNA|hAT-Tip100	26149.0	NR_045714	75349.0	Mm.233613	NR_045714	ENSMUSG00000115656	4930556J02Rik	-	RIKEN cDNA 4930556J02 gene	ncRNA	50.0	109.5	93.5	1025.0	72.0	43.0	31.0	56.0
Merged-chr12-3862365-3	chr12	3862271	3862471	+	895.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045884)	promoter-TSS (NR_045884)	-127.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	8.5	9.5	7.5	164.5	21.0	6.5	11.5	4.5
Merged-chr15-66729110-4	chr15	66729007	66729207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 26 of 47)	intron (NM_009375, intron 26 of 47)	58337.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	28.0	69.0	58.5	817.0	119.0	28.5	35.0	46.0
Merged-chr5-114922079-4	chr5	114921980	114922180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-1160.0	NM_001359946	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	91.5	192.5	107.0	1398.5	306.0	104.0	108.0	95.0
Merged-chr17-80061402-4	chr17	80061365	80061565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152119, intron 1 of 13)	CpG	803.0	NR_152119	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	25.5	60.5	56.5	570.5	73.5	24.5	35.0	35.5
Merged-chr18-65070780-4	chr18	65070694	65070894	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031881, intron 1 of 29)	intron (NM_031881, intron 1 of 29)	47267.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	17.5	30.0	19.5	424.0	74.0	19.0	20.0	22.5
Merged-chr5-92656389-4	chr5	92656312	92656512	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360020, intron 9 of 9)	intron (NM_001360020, intron 9 of 9)	18715.0	NM_001360018	320696.0	Mm.209991	NM_177230	ENSMUSG00000050050	Ccdc158	4932413O14Rik	coiled-coil domain containing 158	protein-coding	24.5	14.0	23.5	277.0	32.5	12.5	9.0	16.5
Merged-chr9-113026261-3	chr9	113026166	113026366	+	875.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	560886.0	NR_040760	102688.0	Mm.394901	NR_040760	ENSMUSG00000109890	AU023762	-	expressed sequence AU023762	ncRNA	5.0	15.0	7.0	205.0	18.5	6.5	4.5	4.0
Merged-chr8-126517357-4	chr8	126517261	126517461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42296.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	144.0	210.5	138.0	2284.5	356.5	148.5	192.5	122.0
Merged-chr19-29380745-4	chr19	29380640	29380840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 4 of 6)	intron (NM_021893, intron 4 of 6)	13302.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	43.0	58.5	38.0	577.0	63.5	31.0	34.0	43.0
Merged-chr16-23305913-4	chr16	23305808	23306008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	intron (NM_001252506, intron 1 of 6)	15438.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	35.0	65.0	49.0	912.0	57.5	23.0	51.5	41.5
Merged-chr12-112722115-3	chr12	112721995	112722195	+	891.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024602)	promoter-TSS (NM_001024602)	-79.0	NM_001024602	217882.0	Mm.23689	NM_001024602	ENSMUSG00000072825	Cep170b	AI466840|AW555464|Kiaa0284|mKIAA0284	centrosomal protein 170B	protein-coding	25.0	18.5	5.0	197.5	10.0	7.0	6.0	6.5
Merged-chr4-86668777-4	chr4	86668673	86668873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007408, intron 1 of 7)	intron (NM_007408, intron 1 of 7)	1286.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	29.5	38.5	31.5	545.5	63.0	16.5	29.5	18.5
Merged-chr19-47732161-3	chr19	47732061	47732261	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026377, intron 1 of 3)	G-rich|Low_complexity|Low_complexity	405.0	NM_026377	67788.0	Mm.181610	NM_026377	ENSMUSG00000025066	Sfr1	6330577E15Rik|Meir5	SWI5 dependent recombination repair 1	protein-coding	20.0	26.0	17.0	247.5	45.0	13.0	14.5	12.5
Merged-chr3-105862014-5	chr3	105861932	105862132	+	992.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8826.0	NM_027025	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	23.5	30.0	30.0	271.5	24.0	10.5	11.5	18.5
Merged-chr9-65357130-4	chr9	65356958	65357158	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016688, intron 4 of 4)	B1_Mus2|SINE|Alu	-4002.0	NM_001111145	208080.0	Mm.291862	NM_001111145	ENSMUSG00000086228	Ubap1l	Gm514	ubiquitin-associated protein 1-like	protein-coding	12.5	19.5	19.5	339.5	18.0	11.0	10.5	11.0
Merged-chr10-108140931-4	chr10	108140814	108141014	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21486.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	42.0	25.0	23.0	500.5	46.5	9.0	26.5	20.5
Merged-chr4-3683067-4	chr4	3682971	3683171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	intron (NM_001111096, intron 1 of 12)	4950.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	114.5	184.5	126.0	1796.0	254.5	102.5	167.0	129.5
Merged-chr4-154140810-2	chr4	154140710	154140910	+	991.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011642)	promoter-TSS (NM_011642)	-602.0	NM_011642	22062.0	Mm.78015	NM_011642	ENSMUSG00000029026	Trp73	TAp73|Tp73|deltaNp73|p73	transformation related protein 73	protein-coding	6.5	7.5	6.0	44.0	6.0	0.5	1.5	5.5
Merged-chr5-90789770-4	chr5	90789601	90789801	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3600.0	NM_203320	330122.0	Mm.244289	NM_203320	ENSMUSG00000029379	Cxcl3	Dcip1|Gm1960	chemokine (C-X-C motif) ligand 3	protein-coding	15.0	18.5	14.5	235.5	8.5	10.5	15.5	20.0
Merged-chr15-39606680-4	chr15	39606585	39606785	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053271, intron 21 of 26)	intron (NM_053271, intron 21 of 26)	-52826.0	NM_001256384	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	12.0	14.5	20.0	446.0	33.5	14.5	28.0	39.0
Merged-chr10-42759918-4	chr10	42759817	42760017	+	942.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1579.0	NM_001359283	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	9.5	42.5	14.0	317.5	59.5	11.5	16.5	19.5
Merged-chr6-116140975-4	chr6	116140852	116141052	+	918.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	intron (NM_177412, intron 1 of 5)	52422.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	12.5	10.0	5.0	119.0	28.0	12.5	3.5	4.0
Merged-chr12-72408620-3	chr12	72408531	72408731	+	893.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153457, exon 1 of 9)	5' UTR (NM_153457, exon 1 of 9)	423.0	NM_001286448	104001.0	Mm.221275	NM_153457	ENSMUSG00000021087	Rtn1	Nsp	reticulon 1	protein-coding	8.0	7.0	6.5	56.0	30.0	10.0	9.5	19.0
Merged-chr11-83657586-3	chr11	83657486	83657686	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4998.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	14.0	15.0	9.0	90.5	20.5	6.0	5.5	2.5
Merged-chr7-80229879-4	chr7	80229791	80229991	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291276, intron 1 of 4)	PB1D10|SINE|Alu	2914.0	NM_001291276	23991.0	Mm.30217	NM_011870	ENSMUSG00000030538	Cib1	Cibkip|Kip|Prkdcip	calcium and integrin binding 1 (calmyrin)	protein-coding	24.0	17.5	27.0	401.5	67.0	11.0	29.5	21.0
Merged-chr17-33902605-4	chr17	33902522	33902722	+	866.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2513.0	NR_040470	474160.0	Mm.206186	NR_040470	ENSMUSG00000092349	Platr17	-	pluripotency associated transcript 17	ncRNA	8.0	9.0	12.5	81.0	16.5	8.5	8.5	10.5
Merged-chr4-99928789-4	chr4	99928704	99928904	+	812.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028132)	promoter-TSS (NM_028132)	-647.0	NM_028132	72157.0	Mm.217764	NM_028132	ENSMUSG00000025791	Pgm2	2610020G18Rik|AA407108|AI098105|Pgm-2|Pgm1	phosphoglucomutase 2	protein-coding	17.0	10.5	8.0	255.5	20.5	3.0	12.0	13.0
Merged-chr16-92439937-2	chr16	92439837	92440037	+	710.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	26232.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	13.0	8.5	6.5	156.0	14.5	6.0	8.5	9.0
Merged-chr9-20976832-4	chr9	20976718	20976918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010333)	promoter-TSS (NM_010333)	-25.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	44.5	70.5	23.5	690.5	104.0	20.5	35.5	39.5
Merged-chr2-157259924-3	chr2	157259824	157260024	+	679.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039557, intron 4 of 24)	intron (NM_001039557, intron 4 of 24)	-19174.0	NM_001355163	20014.0	Mm.22130	NM_019642	ENSMUSG00000027642	Rpn2	1300012C06Rik|AV261018|Rpn-2	ribophorin II	protein-coding	8.5	3.5	2.0	29.5	26.5	10.5	5.0	8.5
Merged-chr16-75917852-4	chr16	75917739	75917939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8573.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	64.5	85.5	37.5	661.5	102.0	51.0	54.5	27.5
Merged-chr5-138996125-6	chr5	138995959	138996159	+	993.194458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-11694	-1106.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	39.0	16.0	22.0	317.5	63.0	21.5	16.0	30.5
Merged-chr4-132960929-2	chr4	132960829	132961029	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13166.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	5.0	4.5	6.5	30.5	6.5	1.0	3.0	5.5
Merged-chr2-35756695-4	chr2	35756590	35756790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 9 of 9)	intron (NM_029774, intron 9 of 9)	59958.0	NM_001290639	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	35.5	60.5	46.0	742.0	78.5	30.0	50.0	29.0
Merged-chr15-10486633-2	chr15	10486533	10486733	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026396)	promoter-TSS (NM_026396)	595.0	NM_001289447	19355.0	Mm.38376	NM_011232	ENSMUSG00000022248	Rad1	mRAD1	RAD1 checkpoint DNA exonuclease	protein-coding	5.0	4.5	7.5	57.5	10.5	4.5	5.0	8.5
Merged-chr6-72038913-5	chr6	72038800	72039000	+	801.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046180, intron 1 of 2)	RLTR13C2|LTR|ERVK	3628.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	13.5	11.0	12.0	9.0	9.0	4.0	1.5	7.5
Merged-chr8-75170747-2	chr8	75170647	75170847	+	735.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-43197.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	4.5	7.0	6.0	23.0	13.5	1.0	3.0	2.0
Merged-chr14-63124421-4	chr14	63124316	63124516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	1954.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	30.0	60.5	50.5	747.5	99.0	37.0	52.0	49.5
Merged-chr2-157078614-4	chr2	157078513	157078713	+	818.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164663, exon 1 of 15)	exon (NM_001164663, exon 1 of 15)	652.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	15.0	13.5	21.0	93.5	25.5	15.0	6.5	12.0
Merged-chr3-39175996-2	chr3	39175896	39176096	+	555.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERVK10D3_I-int|LTR|ERVK	289056.0	NM_183221	329628.0	Mm.316210	NM_183221	ENSMUSG00000046743	Fat4	6030410K14Rik|9430004M15	FAT atypical cadherin 4	protein-coding	4.0	8.0	3.0	13.5	24.5	7.0	8.0	5.5
Merged-chr3-8923701-4	chr3	8923610	8923810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025434, exon 1 of 3)	exon (NM_025434, exon 1 of 3)	147.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	131.0	203.0	245.5	1868.5	281.5	136.0	130.0	194.5
Merged-chr2-26933486-4	chr2	26933402	26933602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011512)	promoter-TSS (NM_011512)	9.0	NM_011512	20932.0	Mm.300594	NM_011512	ENSMUSG00000014867	Surf4	AL033340|AL033373|Surf-4	surfeit gene 4	protein-coding	163.0	285.0	139.0	2053.5	419.0	159.5	164.5	155.0
Merged-chr8-71488637-4	chr8	71488536	71488736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_032544, exon 1 of 9)	5' UTR (NM_032544, exon 1 of 9)	533.0	NM_032544	70359.0	Mm.142112	NM_032544	ENSMUSG00000007610	Gtpbp3	2410009F13Rik|AI607903	GTP binding protein 3	protein-coding	62.5	111.0	38.0	881.0	147.0	50.0	58.5	52.5
Merged-chr2-125594189-4	chr2	125594097	125594297	+	874.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081091, intron 13 of 27)	intron (NM_001081091, intron 13 of 27)	30916.0	NM_001081091	99100.0	Mm.330545	NM_001081091	ENSMUSG00000068394	Cep152	AI851464|mKIAA0912	centrosomal protein 152	protein-coding	14.0	21.0	8.5	319.0	31.0	9.0	11.0	10.5
Merged-chr5-25089752-3	chr5	25089659	25089859	+	582.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	intron (NM_145401, intron 1 of 15)	10883.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	9.0	10.0	8.5	94.5	7.0	2.5	2.0	4.0
Merged-chr1-166160843-4	chr1	166160760	166160960	+	908.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021610, intron 4 of 6)	intron (NM_021610, intron 4 of 6)	30639.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	12.0	21.5	16.5	285.5	54.0	11.5	17.0	22.0
Merged-chr4-111886178-3	chr4	111886073	111886273	+	844.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145551, intron 11 of 14)	intron (NM_145551, intron 11 of 14)	16623.0	NM_145551	230612.0	Mm.26630	NM_145551	ENSMUSG00000028544	Slc5a9	AI159731|SGLT4	solute carrier family 5 (sodium/glucose cotransporter), member 9	protein-coding	8.5	8.5	16.0	162.5	10.5	2.5	5.0	3.0
Merged-chr9-96416564-4	chr9	96416462	96416662	+	942.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52131.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	11.0	9.0	16.5	197.5	14.5	7.0	18.5	17.5
Merged-chr4-128983932-4	chr4	128983857	128984057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-9267.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	154.5	145.0	130.5	2117.0	249.0	65.0	112.0	117.0
Merged-chr2-35499134-4	chr2	35499068	35499268	+	794.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37719.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	8.5	6.5	8.0	171.0	20.5	13.0	17.5	11.0
Merged-chr1-55594150-3	chr1	55594057	55594257	+	865.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	L1_Mus2|LINE|L1	188211.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	6.0	12.0	28.0	77.0	10.5	1.0	9.5	14.0
Merged-chr11-115641361-4	chr11	115641243	115641443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13048.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	238.0	404.0	178.0	2556.5	571.0	244.0	224.5	199.5
Merged-chr1-16228775-4	chr1	16228656	16228856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025303)	TTS (NM_025303)	122874.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	98.0	107.0	97.5	1461.5	247.5	80.0	107.0	74.5
Merged-chr6-48830495-3	chr6	48830442	48830642	+	703.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10446.0	NM_023056	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	6.5	7.5	6.5	95.5	9.0	8.0	3.0	6.5
Merged-chr9-44325405-3	chr9	44325284	44325484	+	765.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1461.0	NM_007875	13478.0	Mm.18353	NM_007875	ENSMUSG00000032123	Dpagt1	AU021132|Dpagt2|GPT|Gnpta	dolichyl-phosphate (UDP-N-acetylglucosamine) acetylglucosaminephosphotransferase 1 (GlcNAc-1-P transferase)	protein-coding	2.5	6.5	5.0	45.0	22.5	8.5	7.0	7.0
Merged-chr7-101051457-4	chr7	101051341	101051541	+	947.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39388.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	13.5	39.0	14.0	235.5	49.5	14.5	7.5	13.0
Merged-chr19-60611960-4	chr19	60611831	60612031	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30908.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	22.5	26.0	16.5	297.5	51.5	13.0	26.5	10.5
Merged-chr2-34780667-4	chr2	34780555	34780755	+	977.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145522, exon 7 of 8)	exon (NM_145522, exon 7 of 8)	8565.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	27.5	73.0	5.5	35.0	95.0	55.5	6.5	17.0
Merged-chr7-27329533-4	chr7	27329452	27329652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113549, intron 3 of 29)	CpG	4096.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	78.0	82.5	74.5	968.0	206.5	81.0	100.0	60.5
Merged-chr5-139457562-4	chr5	139457384	139457584	+	926.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 1 of 4)	LTR106_Mam|LTR|LTR	3050.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	12.5	17.5	12.0	112.5	22.5	7.5	10.5	16.5
Merged-chr1-131760271-3	chr1	131760204	131760404	+	947.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177243, intron 12 of 20)	intron (NM_177243, intron 12 of 20)	16282.0	NM_177243	320718.0	Mm.482704	NM_177243	ENSMUSG00000042268	Slc26a9	E030002L01Rik	solute carrier family 26, member 9	protein-coding	22.5	17.5	15.0	88.0	8.0	2.5	4.5	2.5
Merged-chr2-27405173-7	chr2	27405052	27405252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009500, intron 1 of 27)	intron (NM_009500, intron 1 of 27)	22456.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	23.0	51.0	39.5	192.0	49.0	16.5	17.5	22.0
Merged-chr11-23754475-4	chr11	23754375	23754575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 3 of 9)	intron (NM_009044, intron 3 of 9)	16495.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	40.5	142.5	43.5	625.0	172.0	72.0	68.0	45.0
Merged-chr5-18000326-4	chr5	18000219	18000419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 4 of 7)	intron (NM_001081143, intron 4 of 7)	37749.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	151.5	166.5	172.0	1955.5	264.5	86.5	79.5	111.0
Merged-chr3-136688168-4	chr3	136688071	136688271	+	854.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	18105.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	19.5	9.5	10.0	172.5	20.5	10.5	14.5	8.0
Merged-chr18-84085270-3	chr18	84085177	84085377	+	939.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081300, intron 1 of 1)	GC_rich|Low_complexity|Low_complexity	1285.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	4.5	6.0	11.5	162.5	19.5	2.0	5.0	9.5
Merged-chr5-112297499-4	chr5	112297461	112297661	+	897.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	20870.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	4.5	14.0	8.5	369.0	18.5	2.0	11.5	19.5
Merged-chr10-81432361-3	chr10	81432267	81432467	+	863.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5194.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	5.0	10.5	6.0	29.5	20.0	6.0	12.5	9.0
Merged-chr2-27281158-4	chr2	27281069	27281269	+	820.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 18 of 29)	intron (NR_133905, intron 18 of 29)	-33866.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	8.5	13.5	5.5	95.0	14.5	3.5	12.0	10.5
Merged-chr17-45610444-4	chr17	45610310	45610510	+	867.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	-8308.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	15.5	16.0	3.5	89.5	29.5	15.0	6.0	10.5
Merged-chr16-36642855-4	chr16	36642740	36642940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	23237.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	200.0	384.0	139.0	1464.5	378.0	127.5	141.0	81.0
Merged-chr1-144001531-4	chr1	144001383	144001583	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009061, exon 5 of 5)	3' UTR (NM_009061, exon 5 of 5)	2666.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	21.0	16.0	25.5	540.0	38.5	26.0	33.0	59.5
Merged-chr18-54908468-4	chr18	54908380	54908580	+	864.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	81700.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	24.5	10.5	227.0	36.0	8.5	10.5	10.5
Merged-chr11-68914766-1	chr11	68914666	68914866	+	566.0	f1_c57bl6.idr	Intergenic	L1MC4|LINE|L1	12315.0	NM_145746	252868.0	Mm.76826	NM_145746	ENSMUSG00000032921	Odf4	Oppo1	outer dense fiber of sperm tails 4	protein-coding	4.0	5.0	4.5	112.5	21.5	10.0	5.5	10.5
Merged-chr12-4190472-2	chr12	4190372	4190572	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 3 of 21)	intron (NM_001159537, intron 3 of 21)	43493.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	4.5	7.0	5.5	152.0	8.0	1.0	1.5	0.0
Merged-chr13-33077304-6	chr13	33077236	33077436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-6767.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	21.0	31.0	50.0	413.5	270.0	77.0	125.0	105.0
Merged-chr1-91034739-4	chr1	91034639	91034839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	Lx7|LINE|L1	-18705.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	97.0	152.0	106.0	1336.5	253.0	107.0	119.5	84.5
Merged-chr2-132247768-4	chr2	132247662	132247862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141971)	promoter-TSS (NM_001141971)	26.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	149.0	209.0	82.5	1362.0	374.5	143.5	126.0	102.0
Merged-chr12-84801783-4	chr12	84801635	84801835	+	847.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 16 of 34)	intron (NM_013589, intron 16 of 34)	28465.0	NM_028863	74316.0	Mm.25719	NM_028863	ENSMUSG00000021241	Isca2	0710001C05Rik|5730594E03Rik|Hbld1	iron-sulfur cluster assembly 2	protein-coding	10.0	27.5	11.5	130.5	27.0	12.5	13.0	8.0
Merged-chr16-87700068-4	chr16	87699960	87700160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 1 of 4)	intron (NM_007520, intron 1 of 4)	1106.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	70.0	103.5	92.0	1018.5	171.5	68.5	64.5	47.0
Merged-chr9-61681213-4	chr9	61681112	61681312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	233298.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	65.0	61.5	40.0	682.5	112.0	27.0	46.5	51.5
Merged-chr8-68908814-3	chr8	68908660	68908860	+	750.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28205.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	3.0	9.0	4.5	45.5	10.0	5.0	6.5	8.5
Merged-chr17-73944945-4	chr17	73944846	73945046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 1 of 35)	intron (NM_011723, intron 1 of 35)	5250.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	27.0	20.5	41.0	631.5	46.5	8.5	24.0	36.0
Merged-chr12-80435844-3	chr12	80435778	80435978	+	915.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177267, intron 1 of 8)	intron (NM_177267, intron 1 of 8)	723.0	NM_177267	320808.0	Mm.220310	NM_177267	ENSMUSG00000049106	Dcaf5	9430020B07Rik|AI325023|AI430035|AI848110|AW124614|BCRG2|BCRP2|Wdr22	DDB1 and CUL4 associated factor 5	protein-coding	16.5	3.0	11.5	82.0	8.0	17.0	5.5	16.0
Merged-chr9-107612866-4	chr9	107612755	107612955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3614.0	NM_001291539	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	182.5	338.5	158.0	2375.0	383.5	141.5	205.0	172.5
Merged-chr8-22889621-4	chr8	22889526	22889726	+	932.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 3 of 17)	intron (NM_001081149, intron 3 of 17)	30087.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	14.5	8.0	18.0	256.5	24.5	7.5	11.0	8.5
Merged-chr10-24163431-4	chr10	24163334	24163534	+	635.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	14117.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	10.5	11.5	10.0	66.0	30.0	6.0	6.5	11.0
Merged-chr13-23729244-6	chr13	23729143	23729343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9564.0	NM_015786	50708.0	Mm.193539	NM_015786	ENSMUSG00000036181	Hist1h1c	0610008C09Rik|H1.2|H1c|H1f2|H1var1|His1a	histone cluster 1, H1c	protein-coding	19.5	29.0	39.5	434.0	44.5	20.0	18.5	34.5
Merged-chr13-9107559-4	chr13	9107467	9107667	+	973.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	intron (NM_172585, intron 1 of 17)	13686.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	12.5	20.0	13.5	502.0	70.0	7.0	36.0	23.0
Merged-chr2-52999650-4	chr2	52999528	52999728	+	977.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	141760.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	32.0	43.0	20.0	238.5	69.0	25.0	20.5	21.0
Merged-chr10-87854587-4	chr10	87854461	87854661	+	788.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3704.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	5.5	13.0	4.0	221.0	15.5	13.0	8.0	16.0
Merged-chr3-85574039-4	chr3	85573944	85574144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144896)	promoter-TSS (NM_144896)	-85.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	197.5	362.0	196.5	3567.0	460.0	215.0	266.5	221.0
Merged-chr1-142688970-1	chr1	142688870	142689070	+	780.0	f0_balb.idr	Intergenic	Intergenic	-951727.0	NM_020025	26878.0	Mm.285580	NM_020025	ENSMUSG00000033849	B3galt2	-	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 2	protein-coding	11.0	7.5	10.5	154.0	6.5	3.0	1.5	1.0
Merged-chr9-64105488-4	chr9	64105418	64105618	+	916.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11629.0	NM_145835	235435.0	Mm.436581	NM_145835	ENSMUSG00000032401	Lctl	E130104I05Rik|KLPH	lactase-like	protein-coding	24.5	28.5	24.5	284.0	31.5	12.0	17.0	15.0
Merged-chr3-8959115-3	chr3	8959025	8959225	+	691.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	5021.0	NM_001025262	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	7.0	11.0	7.5	145.0	12.0	0.5	8.0	9.5
Merged-chr19-45242634-3	chr19	45242585	45242785	+	786.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7449.0	NM_010691	16814.0	Mm.116815	NM_010691	ENSMUSG00000025216	Lbx1	Lbx1h	ladybird homeobox 1	protein-coding	3.0	7.0	9.5	70.5	7.0	6.5	6.5	6.0
Merged-chr4-129069039-4	chr4	129068919	129069119	+	922.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	10748.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	25.0	24.0	5.5	112.5	50.5	23.0	14.5	12.0
Merged-chr11-70500418-1	chr11	70500318	70500518	+	625.0	f0_balb.idr	Intergenic	Intergenic	-4856.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	10.5	19.0	6.5	46.0	9.5	6.0	2.0	5.5
Merged-chr18-57571480-4	chr18	57571364	57571564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029290, intron 3 of 6)	intron (NM_029290, intron 3 of 6)	-19067.0	NR_015494	75084.0	Mm.243841	NR_015494	ENSMUSG00000086607	4930511M06Rik	-	RIKEN cDNA 4930511M06 gene	ncRNA	30.5	31.5	40.0	611.0	104.0	30.0	39.0	38.5
Merged-chr2-93333626-4	chr2	93333548	93333748	+	903.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183180, intron 1 of 9)	CpG	839.0	NM_183180	241556.0	Mm.274159	NM_183180	ENSMUSG00000027217	Tspan18	2610042G18Rik|6720430O15|BB226562	tetraspanin 18	protein-coding	16.0	22.0	4.5	237.5	33.5	10.5	19.0	14.0
Merged-chr17-65782860-4	chr17	65782738	65782938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104465)	promoter-TSS (NR_104465)	-517.0	NR_152099	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	49.5	82.5	79.0	589.0	115.0	57.0	50.0	56.5
Merged-chr16-38701979-4	chr16	38701874	38702074	+	983.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	11061.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	26.5	34.0	18.0	242.5	43.5	16.5	32.0	9.0
Merged-chr8-76897146-4	chr8	76897045	76897245	+	974.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028579, intron 1 of 1)	intron (NR_028579, intron 1 of 1)	3476.0	NR_028579	102640923.0	Mm.367571	NR_028579	ENSMUSG00000074235	Gm10649	-	predicted gene 10649	ncRNA	13.5	22.5	7.5	340.0	56.0	5.5	9.5	20.5
Merged-chr7-19841522-4	chr7	19841401	19841601	+	992.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10502.0	NM_001270489	100502736.0	Mm.445354	NM_001270489	ENSMUSG00000092216	Gm19345	-	predicted gene, 19345	protein-coding	21.0	43.5	20.5	366.5	88.0	14.5	19.0	27.0
Merged-chr8-27253821-4	chr8	27253678	27253878	+	956.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6549.0	NM_007918	13685.0	Mm.6700	NM_007918	ENSMUSG00000031490	Eif4ebp1	4e-bp1|AA959816|PHAS-I	eukaryotic translation initiation factor 4E binding protein 1	protein-coding	24.0	6.0	8.0	239.5	44.5	10.0	11.0	14.0
Merged-chr14-120762973-4	chr14	120762881	120763081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-148213.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	121.5	127.0	81.0	1886.0	224.0	76.5	102.5	102.0
Merged-chr6-140768378-4	chr6	140768295	140768495	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141510.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	19.0	19.0	13.5	155.5	71.5	22.5	24.0	33.0
Merged-chr1-183298193-4	chr1	183298070	183298270	+	856.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027861)	promoter-TSS (NM_027861)	-877.0	NR_151660	71678.0	Mm.392270	NM_027861	ENSMUSG00000046836	Brox	0610010K06Rik	BRO1 domain and CAAX motif containing	protein-coding	12.0	11.0	5.5	104.0	27.0	3.0	1.5	14.0
Merged-chr4-9118446-4	chr4	9118324	9118524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-150869.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	86.0	88.0	123.5	1990.0	183.5	61.5	135.0	86.0
Merged-chr7-28726786-4	chr7	28726683	28726883	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310687, intron 2 of 6)	LTR41|LTR|ERVL	9993.0	NM_015796	50760.0	Mm.358659	NM_015796	ENSMUSG00000030598	Fbxo17	Fbg4|Fbx17|Fbxo26	F-box protein 17	protein-coding	15.5	28.0	9.0	191.5	75.0	21.5	30.0	10.0
Merged-chr11-49243910-4	chr11	49243788	49243988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010794)	promoter-TSS (NM_010794)	-303.0	NM_010794	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	229.0	317.0	196.0	3048.5	653.0	274.5	278.0	261.5
Merged-chr1-132139723-4	chr1	132139570	132139770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008795)	promoter-TSS (NM_008795)	15.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	36.0	48.5	40.5	505.5	36.5	22.0	44.0	25.0
Merged-chr4-109666872-4	chr4	109666751	109666951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301368)	promoter-TSS (NM_001301368)	-95.0	NM_001301368	12580.0	Mm.1912	NM_007671	ENSMUSG00000028551	Cdkn2c	C77269|INK4c|p18|p18-INK4c|p18-INK6|p18INK4c	cyclin dependent kinase inhibitor 2C	protein-coding	87.0	117.5	91.5	1638.0	220.5	97.5	132.5	105.5
Merged-chr11-62127912-3	chr11	62127811	62128011	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029936, intron 2 of 12)	intron (NM_001029936, intron 2 of 12)	50887.0	NM_001029936	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	6.0	11.0	2.0	97.0	28.5	8.0	5.5	7.0
Merged-chr13-80962987-4	chr13	80962902	80963102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1072.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	118.5	133.0	199.0	2212.0	295.5	102.0	179.5	141.0
Merged-chr11-50042802-3	chr11	50042707	50042907	+	911.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 1 of 7)	intron (NM_001290750, intron 1 of 7)	17476.0	NM_001290750	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	6.5	17.0	9.0	120.5	23.5	3.0	7.0	9.5
Merged-chr15-6587024-4	chr15	6586914	6587114	+	897.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011815, intron 1 of 17)	intron (NM_011815, intron 1 of 17)	7167.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	14.0	9.0	6.5	254.5	42.5	12.0	16.5	15.0
Merged-chr12-98746319-4	chr12	98746228	98746428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160107)	promoter-TSS (NM_001160107)	-640.0	NM_001160107	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	37.5	51.5	31.0	479.5	76.0	26.5	46.5	37.5
Merged-chr13-107676996-4	chr13	107676906	107677106	+	915.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10391.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	14.5	28.0	14.0	128.5	52.5	8.0	12.5	5.5
Merged-chr3-116126688-4	chr3	116126504	116126704	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011693, intron 2 of 8)	MIR3|SINE|MIR	3084.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	7.5	9.0	16.0	345.0	51.5	8.0	12.5	15.5
Merged-chr2-13409931-4	chr2	13409852	13410052	+	923.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 27 of 66)	intron (NM_001081084, intron 27 of 66)	81924.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	15.0	25.0	21.5	259.0	43.0	25.0	21.5	22.5
Merged-chr7-90018695-4	chr7	90018577	90018777	+	940.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B1|LTR|ERVK	-10482.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	18.5	15.0	11.0	159.0	23.5	16.5	12.0	13.0
Merged-chr1-153754165-5	chr1	153754160	153754360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011882, exon 4 of 9)	exon (NM_011882, exon 4 of 9)	4834.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	14.5	21.0	28.0	154.5	26.0	5.5	14.0	12.5
Merged-chr18-31634980-4	chr18	31634878	31635078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357555)	promoter-TSS (NM_001357555)	-150.0	NM_001357555	269003.0	Mm.194538	NM_172965	ENSMUSG00000024260	Sap130	2610304F09Rik|6720406D06	Sin3A associated protein	protein-coding	999.0	1423.0	1130.5	16029.5	1219.0	499.0	709.0	532.0
Merged-chr8-47714140-4	chr8	47714047	47714247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172407)	promoter-TSS (NM_172407)	-216.0	NM_172407	70925.0	Mm.393807	NM_172407	ENSMUSG00000038069	Cdkn2aip	4921511I16Rik|AW208986|CARF	CDKN2A interacting protein	protein-coding	336.0	431.0	300.0	4454.0	716.5	283.0	386.0	237.0
Merged-chr9-95574564-4	chr9	95574476	95574676	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14759.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	28.5	43.5	32.0	582.0	89.0	17.0	18.0	39.0
Merged-chr8-104170607-4	chr8	104170405	104170605	+	809.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141922)	promoter-TSS (NM_001141922)	-8.0	NM_001141924	65115.0	Mm.41849	NM_001141922	ENSMUSG00000031872	Bean1	Bean	brain expressed, associated with Nedd4, 1	protein-coding	8.5	6.0	8.5	117.0	12.0	8.0	5.5	3.5
Merged-chr4-119331524-4	chr4	119331387	119331587	+	750.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001270435, exon 12 of 15)	exon (NM_001270435, exon 12 of 15)	-10964.0	NM_001110130	66101.0	Mm.304080	NM_028677	ENSMUSG00000060288	Ppih	1100001J08Rik|2010111B15Rik|4833408F11Rik|AI464484|CYP-20|CYPH|D4Wsu43e	peptidyl prolyl isomerase H	protein-coding	0.0	11.0	6.0	134.5	13.5	9.0	11.0	6.5
Merged-chr13-30625648-2	chr13	30625548	30625748	+	736.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	10605.0	NR_045975	75090.0	Mm.292232	NR_045975	ENSMUSG00000086263	4930519D14Rik	-	RIKEN cDNA 4930519D14 gene	ncRNA	2.0	6.5	6.0	43.0	5.0	6.5	8.0	6.5
Merged-chr5-66081183-4	chr5	66081063	66081263	+	898.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	17016.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	29.5	15.0	11.0	173.0	53.0	9.0	16.0	12.5
Merged-chr11-63026785-4	chr11	63026668	63026868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22634.0	NR_126547	74884.0	Mm.363520	NR_126547	ENSMUSG00000087604	Cdrt4os1	4930452L02Rik	CMT1A duplicated region transcript 4, opposite strand 1	ncRNA	44.0	85.0	109.5	964.5	156.5	40.0	91.0	46.5
Merged-chr5-88519452-4	chr5	88519352	88519552	+	807.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_152839)	TTS (NM_152839)	8445.0	NM_152839	16069.0	Mm.1192	NM_152839	ENSMUSG00000067149	Jchain	9530090F24Rik|AI323815|Igj|Jch	immunoglobulin joining chain	protein-coding	8.5	12.0	11.5	191.5	54.5	14.5	15.0	9.0
Merged-chr6-114045116-4	chr6	114045010	114045210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3030.0	NM_009723	11941.0	Mm.321755	NM_009723	ENSMUSG00000030302	Atp2b2	D6Abb2e|Gena300|PMCA2|Tmy|dfw|jog|wms|wri	ATPase, Ca++ transporting, plasma membrane 2	protein-coding	49.0	104.0	73.5	938.5	53.0	26.5	52.5	37.5
Merged-chr13-12412247-4	chr13	12412165	12412365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144835, intron 17 of 44)	intron (NM_144835, intron 17 of 44)	16890.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	333.0	348.0	332.5	4898.0	661.0	251.0	378.5	272.5
Merged-chr18-67988870-3	chr18	67988775	67988975	+	842.5166630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	55702.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	9.5	13.0	13.0	93.0	3.0	8.0	5.0	5.0
Merged-chr7-4207324-4	chr7	4207224	4207424	+	923.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30430.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	9.5	25.5	30.0	332.0	35.0	13.0	22.5	17.5
Merged-chr5-86804178-4	chr5	86804100	86804300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347375)	promoter-TSS (NM_001347375)	-66.0	NM_001347375	231386.0	Mm.196325	NM_177680	ENSMUSG00000035851	Ythdc1	A730098D12Rik|C80342|mKIAA1966	YTH domain containing 1	protein-coding	216.5	293.0	205.5	3312.5	546.0	176.5	289.0	251.5
Merged-chr8-83165412-4	chr8	83165291	83165491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027758)	promoter-TSS (NM_027758)	39.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	95.0	130.0	89.5	1307.0	211.0	58.0	53.0	66.5
Merged-chr18-38381452-3	chr18	38381334	38381534	+	911.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37473.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	8.5	12.5	11.5	129.0	17.0	3.0	12.0	6.0
Merged-chr11-100735659-4	chr11	100735530	100735730	+	785.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305003, intron 1 of 5)	intron (NM_001305003, intron 1 of 5)	2585.0	NM_024456	19345.0	Mm.29829	NM_024456	ENSMUSG00000019173	Rab5c	AI326010|Rabl	RAB5C, member RAS oncogene family	protein-coding	7.0	4.0	3.0	115.0	22.0	11.5	11.5	8.5
Merged-chr17-5569287-4	chr17	5569192	5569392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	76692.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	132.0	155.0	138.0	2404.0	306.5	103.5	141.5	116.5
Merged-chr16-33520059-4	chr16	33519957	33520157	+	945.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 1 of 11)	intron (NM_001083902, intron 1 of 11)	1462.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	31.0	22.5	38.5	592.0	31.5	11.5	9.5	9.5
Merged-chr15-98387802-4	chr15	98387709	98387909	+	870.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-8701.0	NM_147036	259038.0	Mm.377802	NM_147036	ENSMUSG00000056184	Olfr283	MOR160-1	olfactory receptor 283	protein-coding	14.0	31.0	17.5	128.0	38.5	11.0	15.5	12.0
Merged-chr15-50824142-3	chr15	50824044	50824244	+	646.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 3 of 5)	MTC|LTR|ERVL-MaLR	64905.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	2.0	2.0	7.0	68.0	11.5	8.0	6.0	5.0
Merged-chr15-100914858-1	chr15	100914758	100914958	+	585.0	f0_balb.idr	intron (NM_001077499, intron 1 of 26)	intron (NM_001077499, intron 1 of 26)	-21413.0	NM_011323	20273.0	Mm.385012	NM_011323	ENSMUSG00000023033	Scn8a	AI853486|C630029C19Rik|NaCh6|Nav1.6|dmu|med|mnd-2|mnd2|nmf2|nmf335|nmf58|nur14|seal	sodium channel, voltage-gated, type VIII, alpha	protein-coding	4.0	15.5	0.0	94.5	8.5	7.5	5.0	7.5
Merged-chr18-38297466-4	chr18	38297355	38297555	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164621, intron 1 of 9)	MIR|SINE|MIR	650.0	NM_001164621	56736.0	Mm.228903	NM_020012	ENSMUSG00000060450	Rnf14	2310075C09Rik|2610005D23Rik|AA986456|AU041447|D18Ertd188e|D7Bwg0165e|Triad2	ring finger protein 14	protein-coding	45.5	66.0	17.0	458.5	84.5	32.0	54.0	21.0
Merged-chr9-82871598-4	chr9	82871511	82871711	+	859.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081216, exon 40 of 40)	exon (NM_001081216, exon 40 of 40)	41805.0	NM_001168240	65099.0	Mm.41415	NM_022986	ENSMUSG00000032251	Irak1bp1	4921528N06Rik|AI851240|Aabp3|Aip70|Simpl	interleukin-1 receptor-associated kinase 1 binding protein 1	protein-coding	7.5	7.5	19.0	249.5	28.5	4.0	10.5	13.5
Merged-chr4-123340402-4	chr4	123340299	123340499	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007558, intron 1 of 6)	intron (NM_007558, intron 1 of 6)	2853.0	NM_001256019	12163.0	Mm.439749	NM_007558	ENSMUSG00000032726	Bmp8a	Bmp7r1|OP-2|OP2	bone morphogenetic protein 8a	protein-coding	10.0	21.5	11.5	206.0	35.5	19.5	21.5	14.5
Merged-chr8-123374888-3	chr8	123374779	123374979	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359076, intron 1 of 16)	intron (NM_001359076, intron 1 of 16)	1168.0	NM_001286363	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	6.5	9.0	9.0	97.0	30.5	5.0	10.5	11.0
Merged-chr2-94165024-3	chr2	94164939	94165139	+	947.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7130.0	NM_019657	56348.0	Mm.22505	NM_019657	ENSMUSG00000027195	Hsd17b12	2610510O05Rik|AI172963|KIK-I|Kik1	hydroxysteroid (17-beta) dehydrogenase 12	protein-coding	9.0	17.5	14.5	268.5	19.0	11.0	9.5	15.0
Merged-chr9-107580692-4	chr9	107580594	107580794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019750)	promoter-TSS (NM_019750)	25.0	NM_019750	56441.0	Mm.10305	NM_019750	ENSMUSG00000079334	Nat6	AI225910|Fus2	N-acetyltransferase 6	protein-coding	79.5	114.5	41.5	858.5	197.5	62.5	75.0	58.5
Merged-chr18-65924860-2	chr18	65924760	65924960	+	745.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14229.0	NM_013833	19434.0	Mm.431047	NM_013833	ENSMUSG00000024518	Rax	7530406A22Rik|E130303K03Rik|Rx|ey-1|ey1	retina and anterior neural fold homeobox	protein-coding	7.5	5.0	5.5	34.0	24.5	9.0	8.0	9.0
Merged-chr2-160374422-3	chr2	160374319	160374519	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7354.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	4.5	10.5	10.0	120.5	14.5	5.5	5.0	11.5
Merged-chr7-67631040-3	chr7	67630942	67631142	+	989.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028143, intron 2 of 9)	intron (NR_028143, intron 2 of 9)	14194.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	7.5	14.0	10.0	77.0	39.5	6.0	15.0	7.5
Merged-chr2-129594883-4	chr2	129594915	129595115	+	969.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355160)	promoter-TSS (NM_001355160)	-447.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	10.0	21.0	9.5	184.5	50.0	14.5	9.5	26.5
Merged-chr10-127421149-4	chr10	127421037	127421237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168293, exon 1 of 24)	5' UTR (NM_001168293, exon 1 of 24)	270.0	NM_001359243	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	19.0	37.0	4.5	163.0	63.5	23.5	30.5	14.5
Merged-chr3-94814826-3	chr3	94814741	94814941	+	701.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22726.0	NM_001165948	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	14.5	13.5	11.5	217.5	6.5	3.5	3.0	5.0
Merged-chr10-128345483-2	chr10	128345383	128345583	+	598.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026444, intron 1 of 10)	intron (NM_026444, intron 1 of 10)	7756.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	1.0	4.0	1.0	26.0	8.0	4.5	4.5	5.5
Merged-chr7-97356449-2	chr7	97356349	97356549	+	994.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-15168.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	6.5	6.5	6.0	160.5	33.5	7.0	4.0	7.0
Merged-chr18-54970985-4	chr18	54970901	54971101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	19179.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	129.0	181.5	109.0	1729.5	256.0	121.5	128.0	121.0
Merged-chr6-115620056-1	chr6	115619956	115620156	+	574.0	f1_c57bl6.idr	intron (NM_029780, intron 14 of 16)	intron (NM_029780, intron 14 of 16)	18118.0	NM_023290	67027.0	Mm.101316	NM_023290	ENSMUSG00000000439	Mkrn2	2610002L04Rik|C81377	makorin, ring finger protein, 2	protein-coding	6.0	1.5	3.0	71.0	7.0	6.5	5.0	4.5
Merged-chr6-53068387-6	chr6	53068413	53068613	+	851.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173406, exon 1 of 5)	exon (NM_173406, exon 1 of 5)	111.0	NM_173406	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	5.5	7.0	4.5	81.0	9.5	8.0	1.0	2.5
Merged-chr18-36472490-4	chr18	36472378	36472578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17983.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	122.5	231.0	170.0	1760.0	241.5	95.5	117.0	89.5
Merged-chr18-62225230-4	chr18	62225133	62225333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45133.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	39.5	60.5	44.0	716.5	81.5	31.0	33.0	25.0
Merged-chr3-41618610-4	chr3	41618493	41618693	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53713.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	31.0	31.5	41.5	791.5	49.0	13.5	31.0	36.0
Merged-chr18-84699657-3	chr18	84699560	84699760	+	834.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR15|LTR|ERVK	-13958.0	NM_023149	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	10.0	8.0	1.0	123.5	9.5	6.5	12.0	12.0
Merged-chr18-73703186-4	chr18	73703052	73703252	+	956.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155448)	promoter-TSS (NR_155448)	589.0	NM_008540	17128.0	Mm.100399	NM_008540	ENSMUSG00000024515	Smad4	AW743858|D18Wsu70e|DPC4|Madh4	SMAD family member 4	protein-coding	18.0	15.5	35.0	275.5	32.0	9.5	10.0	12.0
Merged-chr2-114260600-4	chr2	114260510	114260710	+	921.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59178.0	NM_175466	228491.0	Mm.132523	NM_175466	ENSMUSG00000040321	Zfp770	6430601A21Rik|Znf770	zinc finger protein 770	protein-coding	11.5	18.0	17.5	332.0	23.5	13.0	18.0	6.0
Merged-chr5-101999770-3	chr5	101999693	101999893	+	868.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	70128.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	17.0	7.0	6.0	236.0	8.5	12.0	6.0	6.5
Merged-chr2-23005836-4	chr2	23005720	23005920	+	831.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	MLTR25A|LTR|ERVK	34421.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	16.0	19.0	29.0	345.0	41.0	15.0	25.0	16.0
Merged-chr3-136324858-2	chr3	136324758	136324958	+	907.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 1 of 16)	L1_Mus1|LINE|L1	1208.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	12.5	6.0	5.0	11.5	16.5	8.0	4.5	7.5
Merged-chr14-47188889-4	chr14	47188785	47188985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008102, intron 1 of 5)	CpG	528.0	NM_008102	14528.0	Mm.10651	NM_008102	ENSMUSG00000037580	Gch1	GTP-CH|GTP-CH-I|GTPCH|Gch	GTP cyclohydrolase 1	protein-coding	28.5	58.5	31.0	261.5	95.5	47.0	30.0	45.0
Merged-chr5-136007999-3	chr5	136007879	136008079	+	935.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256096, intron 2 of 10)	ZP3AR|Satellite|Satellite	13179.0	NM_001256098	74198.0	Mm.275574	NM_023742	ENSMUSG00000004947	Dtx2	2610524D08Rik|AA408415|AU022494|Deltex2	deltex 2, E3 ubiquitin ligase	protein-coding	17.5	7.0	19.0	366.0	8.0	3.0	3.5	0.0
Merged-chr14-40965717-4	chr14	40965646	40965846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	1150.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	37.0	44.5	43.5	767.0	67.0	30.0	63.0	34.5
Merged-chr9-58630650-4	chr9	58630528	58630728	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357751, intron 4 of 8)	intron (NM_001357751, intron 4 of 8)	48388.0	NM_001357751	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	23.5	10.0	21.0	216.5	29.0	16.5	8.0	15.5
Merged-chr10-80807435-4	chr10	80807330	80807530	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007445, exon 5 of 5)	exon (NM_007445, exon 5 of 5)	2182.0	NM_007445	11705.0	Mm.376094	NM_007445	ENSMUSG00000035262	Amh	MIS	anti-Mullerian hormone	protein-coding	15.0	23.0	9.0	313.0	41.0	18.5	21.0	19.5
Merged-chr14-27335957-4	chr14	27335832	27336032	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289687)	promoter-TSS (NM_001289687)	-105.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	35.0	37.5	34.0	441.5	46.0	25.5	34.5	16.0
Merged-chr9-56265101-4	chr9	56264982	56265182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 3 of 6)	intron (NM_172924, intron 3 of 6)	-104012.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	39.5	56.0	15.5	538.0	48.0	28.0	15.5	24.0
Merged-chr16-21689364-4	chr16	21689262	21689462	+	968.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	ORR1D2|LTR|ERVL-MaLR	5303.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	23.5	33.0	43.5	396.0	70.5	22.0	16.0	25.5
Merged-chr13-48862099-3	chr13	48862002	48862202	+	967.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011078, intron 1 of 21)	ORR1F|LTR|ERVL-MaLR	8783.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	20.0	25.0	5.5	174.5	18.5	3.5	9.0	13.0
Merged-chr5-122614497-4	chr5	122614384	122614584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358917)	promoter-TSS (NM_001358917)	60.0	NM_001358919	12589.0	Mm.10125	NM_009879	ENSMUSG00000029469	Ift81	AW060663|Cdv-1|Cdv-1r|Cdv1	intraflagellar transport 81	protein-coding	55.5	96.5	41.0	653.5	145.0	56.5	28.0	37.0
Merged-chr7-43562204-4	chr7	43562094	43562294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008549)	promoter-TSS (NM_001008549)	-176.0	NM_001008549	210104.0	Mm.333821	NM_001008549	ENSMUSG00000056592	Zfp658	-	zinc finger protein 658	protein-coding	168.5	248.0	132.5	1993.0	310.5	199.5	157.0	148.0
Merged-chr7-31112228-3	chr7	31112141	31112341	+	923.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110252, intron 2 of 13)	intron (NM_001110252, intron 2 of 13)	-1244.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	6.5	10.0	13.0	115.5	44.5	6.0	9.0	8.5
Merged-chr6-148621758-3	chr6	148621651	148621851	+	887.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7442.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	17.0	16.5	11.0	89.5	17.0	3.5	12.5	6.5
Merged-chr19-20362369-3	chr19	20362263	20362463	+	666.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28308.0	NM_010730	16952.0	Mm.248360	NM_010730	ENSMUSG00000024659	Anxa1	Anx-1|Anx-A1|C430014K04Rik|Lpc-1|Lpc1	annexin A1	protein-coding	8.5	12.5	4.0	103.0	21.5	8.0	9.5	6.0
Merged-chr13-49653416-3	chr13	49653308	49653508	+	853.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025495)	promoter-TSS (NM_025495)	330.0	NR_073167	70930.0	Mm.258915	NM_001081350	ENSMUSG00000021392	Nol8	4921532D18Rik|5730412B09Rik	nucleolar protein 8	protein-coding	13.0	7.0	9.0	102.5	15.0	8.0	13.0	9.5
Merged-chr2-132816129-4	chr2	132816016	132816216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356443)	promoter-TSS (NM_001356443)	-25.0	NM_025676	66634.0	Mm.157070	NM_025676	ENSMUSG00000027353	Mcm8	5730432L01Rik	minichromosome maintenance 8 homologous recombination repair factor	protein-coding	236.0	290.5	193.0	2817.5	476.0	184.0	238.0	190.0
Merged-chr11-4704632-3	chr11	4704535	4704735	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356391)	promoter-TSS (NM_001356391)	-21.0	NM_001356391	67178.0	Mm.271056	NM_026015	ENSMUSG00000009076	Zmat5	2610510L01Rik|D11Bwg0572e|D11Bwg1548e	zinc finger, matrin type 5	protein-coding	40.0	41.0	22.0	452.5	114.0	39.5	72.0	37.0
Merged-chr18-82902738-4	chr18	82902656	82902856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8123.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	61.0	82.5	45.0	735.0	98.5	42.0	62.0	52.0
Merged-chr1-191724851-4	chr1	191724729	191724929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134829, intron 2 of 7)	intron (NM_001134829, intron 2 of 7)	6434.0	NM_001134829	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	35.5	28.0	21.5	553.5	52.5	26.0	32.5	28.0
Merged-chr7-109083324-3	chr7	109083225	109083425	+	809.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038624)	promoter-TSS (NM_001038624)	-1.0	NM_178780	320360.0	Mm.71007	NM_178780	ENSMUSG00000048330	Ric3	E130307J04Rik	RIC3 acetylcholine receptor chaperone	protein-coding	14.5	9.5	8.5	151.5	16.5	6.0	9.0	7.0
Merged-chr2-167694283-19	chr2	167694363	167694563	+	867.5912480000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015500, intron 1 of 1)	intron (NR_015500, intron 1 of 1)	3286.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	28.5	11.0	7.0	141.0	32.5	11.5	6.5	12.0
Merged-chr12-30606901-4	chr12	30606799	30606999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22456.0	NM_172049	211986.0	Mm.34035	NM_172049	ENSMUSG00000043061	Tmem18	BC024093	transmembrane protein 18	protein-coding	111.0	168.5	113.0	1926.5	239.5	84.5	77.0	79.5
Merged-chr11-73128648-4	chr11	73128546	73128746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361245, intron 20 of 30)	B1F|SINE|Alu	9648.0	NM_010353	14841.0	Mm.42045	NM_010353	ENSMUSG00000050107	Haspin	Gsg2	histone H3 associated protein kinase	protein-coding	28.5	63.5	23.0	320.5	132.5	33.5	27.5	28.5
Merged-chr15-98830885-4	chr15	98830832	98831032	+	885.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033276)	TTS (NM_001033276)	576.0	NM_016781	19082.0	Mm.6670	NM_016781	ENSMUSG00000067713	Prkag1	AA571379|BB036179|Prkaac	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	protein-coding	10.0	12.0	9.0	167.0	24.5	12.0	10.5	14.5
Merged-chr2-102894863-4	chr2	102894791	102894991	+	831.4345089999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	6774.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	8.5	12.0	9.0	100.5	4.5	9.0	2.0	8.0
Merged-chr8-13671834-4	chr8	13671724	13671924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	5763.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	36.5	63.5	89.0	1400.5	106.5	29.5	61.0	68.5
Merged-chr11-100321895-6	chr11	100321793	100321993	+	877.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011508, exon 4 of 4)	3' UTR (NM_011508, exon 4 of 4)	1944.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	10.5	8.0	12.5	80.0	25.5	10.5	5.5	10.0
Merged-chr16-75933499-1	chr16	75933399	75933599	+	641.5	f0_balb.idr	Intergenic	Intergenic	-24233.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	14.0	6.5	15.5	102.0	11.0	8.0	1.5	4.0
Merged-chr5-140648687-4	chr5	140648571	140648771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308040, intron 1 of 12)	CpG	360.0	NM_001308040	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	16.5	16.5	18.0	132.5	35.5	16.5	15.0	13.5
Merged-chr14-47472546-4	chr14	47472435	47472635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030236)	promoter-TSS (NM_030236)	-26.0	NR_027414	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	136.0	169.5	114.0	1920.0	411.5	108.5	143.5	151.0
Merged-chr13-112507017-4	chr13	112506926	112507126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010560)	TTS (NM_010560)	42956.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	65.0	37.0	77.5	1139.5	69.5	40.0	47.5	39.0
Merged-chr3-105717014-4	chr3	105716922	105717122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175398, exon 2 of 2)	exon (NM_175398, exon 2 of 2)	11564.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	80.0	155.0	116.5	1827.5	195.0	75.5	86.5	109.0
Merged-chr10-68724568-4	chr10	68724503	68724703	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 1 of 5)	intron (NM_177794, intron 1 of 5)	857.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	15.5	10.5	28.0	306.0	70.5	25.5	37.5	32.5
Merged-chr17-81572984-3	chr17	81572887	81573087	+	948.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	RMER19B2|LTR|ERVK	165400.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	14.0	6.5	5.5	158.5	8.5	2.5	6.0	5.0
Merged-chr15-53239793-2	chr15	53239693	53239893	+	909.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	106390.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.5	3.0	8.5	62.5	7.0	6.5	5.5	8.0
Merged-chr2-154264640-4	chr2	154264519	154264719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175167, intron 6 of 14)	intron (NM_175167, intron 6 of 14)	6740.0	NM_175167	71425.0	Mm.389341	NM_175167	ENSMUSG00000067998	Bpifb9a	4833413D08Rik|AI413838	BPI fold containing family B, member 9A	protein-coding	40.5	49.0	42.5	336.5	88.0	30.0	50.0	44.5
Merged-chr3-97737830-3	chr3	97737736	97737936	+	979.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 24 of 46)	intron (NM_001039376, intron 24 of 46)	30178.0	NM_178080	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	6.5	15.5	0.0	147.0	6.0	6.0	11.5	5.5
Merged-chr11-70680111-4	chr11	70680026	70680226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190379, intron 8 of 20)	intron (NM_001190379, intron 8 of 20)	7979.0	NM_001190376	216874.0	Mm.473726	NM_178116	ENSMUSG00000040712	Camta2	Kiaa0909-hp|mKIAA0909	calmodulin binding transcription activator 2	protein-coding	105.5	149.0	103.0	1262.5	258.0	101.0	125.5	71.0
Merged-chr12-113098744-4	chr12	113098707	113098907	+	873.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346696, intron 1 of 19)	CpG	529.0	NM_054081	116870.0	Mm.212577	NM_054081	ENSMUSG00000021144	Mta1	-	metastasis associated 1	protein-coding	5.0	15.5	10.0	74.5	11.5	8.0	5.0	13.0
Merged-chr14-25471344-4	chr14	25471259	25471459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	12174.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	45.5	77.5	36.0	787.5	110.0	38.0	47.5	47.0
Merged-chr19-10279855-4	chr19	10279768	10279968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	25009.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	164.5	279.0	185.5	2280.0	372.0	128.0	146.0	149.5
Merged-chr13-49183941-4	chr13	49183834	49184034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3613.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	37.0	56.0	49.5	537.5	99.0	56.5	52.5	40.0
Merged-chr11-17258060-4	chr11	17257955	17258155	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330649, intron 1 of 4)	ID_B1|SINE|B4	367.0	NM_001330649	57316.0	Mm.287982	NM_020558	ENSMUSG00000000581	C1d	1110036E10Rik|AI875855|SUN-CoR	C1D nuclear receptor co-repressor	protein-coding	18.0	9.5	19.0	193.0	54.5	22.0	23.5	16.5
Merged-chr14-25461962-4	chr14	25461875	25462075	+	958.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	2790.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	40.5	80.5	54.0	475.5	69.0	14.5	23.5	11.0
Merged-chr14-121931161-4	chr14	121931058	121931258	+	880.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	MLT1F1|LTR|ERVL-MaLR	-15384.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	10.5	16.0	6.5	129.0	27.5	12.5	14.0	13.5
Merged-chr11-76033981-4	chr11	76033883	76034083	+	814.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6201.0	NM_029658	76566.0	Mm.34131	NM_029658	ENSMUSG00000020846	Rflnb	1500005K14Rik|Fam101b|RefilinB|cfm	refilin B	protein-coding	14.0	19.0	5.0	165.5	18.0	11.5	3.5	13.0
Merged-chr13-60738104-4	chr13	60737993	60738193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 18 of 26)	intron (NM_134062, intron 18 of 26)	48271.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	131.5	258.5	156.5	2671.5	340.5	150.5	191.0	162.0
Merged-chr10-98676945-3	chr10	98676815	98677015	+	838.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-237727.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	6.0	10.5	11.0	84.5	9.5	6.0	3.5	3.5
Merged-chr11-23727703-4	chr11	23727612	23727812	+	811.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 16 of 17)	intron (NM_001033654, intron 16 of 17)	43258.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	6.0	4.0	6.5	153.5	14.5	9.5	12.0	7.0
Merged-chr10-17724304-6	chr10	17724219	17724419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010828, exon 2 of 2)	exon (NM_010828, exon 2 of 2)	1091.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	31.0	49.0	37.5	258.0	86.5	33.5	36.5	18.0
Merged-chr2-32081507-4	chr2	32081416	32081616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151493, intron 2 of 5)	intron (NR_151493, intron 2 of 5)	2189.0	NM_175511	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	121.5	147.5	113.0	1445.5	281.0	101.0	121.0	96.0
Merged-chr9-50552405-4	chr9	50552296	50552496	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133217, intron 1 of 11)	intron (NM_133217, intron 1 of 11)	1266.0	NM_001359610	170752.0	Mm.390149	NM_133217	ENSMUSG00000032066	Bco2	B-diox-II|Bcdo2|Bcmo2|CMO2	beta-carotene oxygenase 2	protein-coding	23.5	35.0	14.0	234.0	50.0	15.0	23.0	17.5
Merged-chr5-17839330-4	chr5	17839225	17839425	+	851.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	Lx5b|LINE|L1	-3429.0	NM_007643	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	12.5	4.0	17.0	128.5	21.0	4.5	7.0	10.5
Merged-chr3-31425593-4	chr3	31425501	31425701	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-115282.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	44.0	49.0	85.0	1437.0	65.5	11.0	41.5	22.5
Merged-chr3-52069435-2	chr3	52069335	52069535	+	668.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	35571.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	3.0	3.5	12.0	34.5	11.0	5.0	4.5	8.0
Merged-chr6-124917316-4	chr6	124917215	124917415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152158, intron 1 of 1)	(CGGGG)n|Simple_repeat|Simple_repeat	452.0	NR_152158	442825.0	Mm.446713	NR_152158	ENSMUSG00000055818	A230083G16Rik	-	RIKEN cDNA A230083G16 gene	ncRNA	39.0	74.0	47.5	822.0	104.0	46.0	55.0	58.0
Merged-chr18-38409968-4	chr18	38409818	38410018	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8989.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	16.0	18.5	7.0	119.5	20.0	10.5	6.5	4.5
Merged-chr11-106216434-4	chr11	106216331	106216531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026009)	promoter-TSS (NM_026009)	-64.0	NM_026009	67163.0	Mm.22109	NM_026009	ENSMUSG00000078622	Ccdc47	2610204L23Rik|C88307|asp4|calumin	coiled-coil domain containing 47	protein-coding	144.5	210.0	93.5	1725.0	293.5	101.5	109.5	103.0
Merged-chr14-101542565-4	chr14	101542476	101542676	+	954.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	66615.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	17.0	7.0	25.0	335.5	35.5	10.5	15.5	13.5
Merged-chr11-99202543-3	chr11	99202425	99202625	+	657.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28492.0	NM_020618	57376.0	Mm.379086	NM_020618	ENSMUSG00000037935	Smarce1	2810417B20Rik|5830412H02Rik|9030408N19Rik|Baf27	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1	protein-coding	13.5	15.0	8.5	41.0	20.0	4.5	11.5	18.0
Merged-chr6-4407941-2	chr6	4407841	4408041	+	579.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97677.0	NM_007743	12843.0	Mm.277792	NM_007743	ENSMUSG00000029661	Col1a2	AA960264|AI325291|Col1a-2|Cola-2|Cola2|oim	collagen, type I, alpha 2	protein-coding	2.0	5.5	5.5	32.5	8.5	6.5	6.0	9.5
Merged-chr16-87717457-4	chr16	87717341	87717541	+	823.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 2 of 4)	L1MD2|LINE|L1	18487.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	7.0	10.5	7.5	149.0	33.0	11.0	4.5	15.0
Merged-chr9-105494086-3	chr9	105493979	105494179	+	895.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359822, intron 2 of 28)	intron (NM_001359822, intron 2 of 28)	1054.0	NM_175025	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	6.5	6.5	3.0	99.0	35.5	10.0	12.5	10.0
Merged-chr16-75887378-4	chr16	75887259	75887459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 2 of 7)	MTE2b|LTR|ERVL-MaLR	21907.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	78.5	146.0	83.5	1123.0	225.0	52.5	133.0	61.5
Merged-chr1-64690975-6	chr1	64691019	64691219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038009)	promoter-TSS (NR_038009)	-226.0	NM_001097644	227210.0	Mm.39706	NM_001097644	ENSMUSG00000070871	Ccnyl1	9630037P07Rik|AW554339	cyclin Y-like 1	protein-coding	21.0	33.0	18.5	146.0	71.0	13.5	19.0	9.5
Merged-chr12-108904070-2	chr12	108903970	108904170	+	883.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	9798.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	4.5	9.5	5.5	59.0	5.0	2.5	6.0	3.0
Merged-chr14-54686811-4	chr14	54686691	54686891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023190, exon 1 of 19)	5' UTR (NM_023190, exon 1 of 19)	140.0	NM_001085473	56215.0	Mm.297078	NM_019567	ENSMUSG00000022185	Acin1	2610036I19Rik|2610510L13Rik|Acinus|Acn|C79325|acinusL|acinusS|mKIAA0670	apoptotic chromatin condensation inducer 1	protein-coding	208.5	292.5	113.0	1354.5	591.0	315.5	172.0	167.5
Merged-chr13-111930117-4	chr13	111930021	111930221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62185.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	32.0	45.5	16.0	693.0	102.5	24.5	36.5	44.0
Merged-chr2-49372184-3	chr2	49372084	49372284	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79302.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	6.5	5.5	6.5	82.5	13.0	2.0	5.0	6.5
Merged-chr10-60192015-3	chr10	60191909	60192109	+	768.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016803, intron 2 of 3)	intron (NM_016803, intron 2 of 3)	27251.0	NM_016803	53374.0	Mm.12866	NM_016803	ENSMUSG00000057337	Chst3	C6ST|C6ST-1|GST-0	carbohydrate (chondroitin 6/keratan) sulfotransferase 3	protein-coding	6.0	5.0	8.0	84.0	22.5	0.0	3.5	9.5
Merged-chr1-125428636-4	chr1	125428517	125428717	+	857.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205386, intron 2 of 12)	intron (NM_001205386, intron 2 of 12)	7110.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	4.5	17.0	5.5	130.0	28.5	15.0	9.5	4.5
Merged-chr5-64865450-3	chr5	64865339	64865539	+	627.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61916.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	9.5	5.0	6.0	60.5	10.0	3.0	5.5	7.5
Merged-chr19-3328131-2	chr19	3328031	3328231	+	743.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 1 of 18)	intron (NM_013495, intron 1 of 18)	4830.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	5.0	4.5	5.0	54.0	10.5	2.0	1.5	3.5
Merged-chr11-119258681-3	chr11	119258631	119258831	+	861.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175430, intron 16 of 18)	MLT2B2|LTR|ERVL	-9232.0	NM_001159324	14387.0	Mm.4793	NM_008064	ENSMUSG00000025579	Gaa	E430018M07Rik	glucosidase, alpha, acid	protein-coding	9.0	15.5	2.5	157.5	6.0	6.0	8.0	4.5
Merged-chr7-111028876-4	chr7	111028808	111029008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009431)	promoter-TSS (NM_009431)	-43.0	NM_009431	22083.0	Mm.255858	NM_009431	ENSMUSG00000005609	Ctr9	AA409336|Sh2bp1|Tsbp|Tsp|mKIAA0155	CTR9 homolog, Paf1/RNA polymerase II complex component	protein-coding	98.5	181.5	125.5	1447.0	229.0	100.5	108.0	134.5
Merged-chr2-22928449-4	chr2	22928367	22928567	+	752.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149721, intron 7 of 10)	intron (NR_149721, intron 7 of 10)	32945.0	NM_001355467	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	5.5	5.0	6.0	108.5	12.5	10.5	15.5	5.5
Merged-chr2-120404681-4	chr2	120404578	120404778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110496)	promoter-TSS (NM_001110496)	-562.0	NM_001110496	211499.0	Mm.260712	NM_173734	ENSMUSG00000033808	Tmem87a	A930025J12Rik	transmembrane protein 87A	protein-coding	51.0	89.0	51.0	761.5	179.0	66.0	72.0	59.5
Merged-chr18-4170405-4	chr18	4170309	4170509	+	885.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026092, intron 3 of 4)	intron (NM_026092, intron 3 of 4)	4577.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	17.5	17.5	17.5	221.0	28.5	10.5	14.0	13.5
Merged-chr7-19119785-4	chr7	19119681	19119881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175530)	promoter-TSS (NM_175530)	-78.0	NM_175530	243867.0	Mm.230830	NM_175530	ENSMUSG00000050428	Fbxo46	20D7-FC4|4932704E22Rik|Fbxo34l	F-box protein 46	protein-coding	148.5	240.0	114.5	1876.5	358.0	120.5	157.0	116.0
Merged-chr4-122897184-3	chr4	122897091	122897291	+	689.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-11115.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	1.0	0.5	12.0	0.0	20.0	13.0	9.0	11.0
Merged-chr3-21959095-4	chr3	21958998	21959198	+	738.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117554.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	9.5	17.5	8.0	104.0	28.5	9.0	10.0	12.5
Merged-chr13-100683035-4	chr13	100682941	100683141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183115, intron 5 of 11)	intron (NM_183115, intron 5 of 11)	13560.0	NM_001168386	76041.0	Mm.23977	NM_183115	ENSMUSG00000048924	Ccdc125	5830436D01Rik|AL023012	coiled-coil domain containing 125	protein-coding	32.0	41.5	46.5	551.5	77.5	24.0	56.5	58.5
Merged-chr4-130663250-4	chr4	130663177	130663377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159604)	promoter-TSS (NM_001159604)	-44.0	NM_030722	80912.0	Mm.440206	NM_030722	ENSMUSG00000028580	Pum1	AA517475|Pumm|mKIAA0099	pumilio RNA-binding family member 1	protein-coding	72.0	83.0	34.5	519.0	107.0	46.5	68.5	46.0
Merged-chr9-44477904-4	chr9	44477774	44477974	+	902.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4951.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	10.5	13.5	4.5	73.0	44.5	15.5	15.0	19.5
Merged-chr19-6331867-4	chr19	6331758	6331958	+	844.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3121.0	NM_001168488	17283.0	Mm.12917	NM_008583	ENSMUSG00000024947	Men1	AW045611	multiple endocrine neoplasia 1	protein-coding	9.0	13.5	9.0	95.5	28.5	6.0	8.0	13.5
Merged-chr7-115251764-4	chr7	115251665	115251865	+	927.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	300491.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	14.5	33.5	23.0	305.0	21.5	23.5	22.5	15.5
Merged-chr9-60999260-4	chr9	60999178	60999378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-17791.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	56.0	59.5	62.0	1054.0	102.5	50.0	38.5	47.0
Merged-chr1-87213901-4	chr1	87213800	87214000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347083)	promoter-TSS (NM_001347083)	-11.0	NM_001347083	26987.0	Mm.227183	NM_023314	ENSMUSG00000026254	Eif4e2	2700069E09Rik|AI036339|AV129531|D0H0S6743E|Eif4el3	eukaryotic translation initiation factor 4E member 2	protein-coding	79.5	145.0	67.5	1262.0	259.5	109.5	124.0	83.5
Merged-chr3-30995459-3	chr3	30995382	30995582	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008857)	promoter-TSS (NM_008857)	-289.0	NM_008857	18759.0	Mm.291554	NM_008857	ENSMUSG00000037643	Prkci	2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165	protein kinase C, iota	protein-coding	42.5	61.5	24.0	599.5	80.5	39.5	47.0	43.0
Merged-chr6-134115155-4	chr6	134115059	134115259	+	979.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	79459.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	19.5	27.0	15.0	400.5	60.5	18.5	38.5	15.0
Merged-chr2-93588269-3	chr2	93588169	93588369	+	743.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54165.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	11.5	5.5	8.0	73.0	19.5	1.0	5.5	5.5
Merged-chr3-129878571-4	chr3	129878459	129878659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023196)	promoter-TSS (NM_023196)	-47.0	NR_104611	66350.0	Mm.151951	NM_023196	ENSMUSG00000027999	Pla2g12a	2310004B05Rik|GXII|GXII-1|GXII-1-PLA2|Pla2g12|Rossy|mGXII-1	phospholipase A2, group XIIA	protein-coding	54.0	87.0	43.5	813.5	145.5	69.0	69.5	54.0
Merged-chr14-47335020-3	chr14	47334937	47335137	+	850.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36763.0	NM_001360542	218975.0	Mm.212297	NM_178684	ENSMUSG00000021840	Mapk1ip1l	9130202B12|C130032J12Rik	mitogen-activated protein kinase 1 interacting protein 1-like	protein-coding	10.0	16.0	5.0	116.0	21.5	6.5	10.0	12.5
Merged-chr10-14186798-4	chr10	14186715	14186915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	220436.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	109.0	168.5	117.0	1775.5	188.0	81.5	74.0	69.5
Merged-chr7-28741874-4	chr7	28741844	28742044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023637)	promoter-TSS (NM_023637)	-24.0	NM_023637	71984.0	Mm.333725	NM_023637	ENSMUSG00000070699	Sars2	2410015F05Rik|D7Ertd353e|SerRS|SerRSmt	seryl-aminoacyl-tRNA synthetase 2	protein-coding	139.0	227.0	109.0	2285.0	368.5	163.5	142.5	148.5
Merged-chr8-115707415-4	chr8	115707310	115707510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025577)	promoter-TSS (NM_001025577)	-516.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	23.5	26.5	57.0	429.0	71.0	25.0	37.0	44.5
Merged-chr15-58410584-2	chr15	58410477	58410677	+	705.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-4891.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	2.5	16.0	5.5	84.0	11.5	5.5	4.5	4.5
Merged-chr5-54013442-4	chr5	54013360	54013560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	14937.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	41.5	88.5	36.0	942.0	188.0	73.5	56.0	48.0
Merged-chr11-100626786-4	chr11	100626692	100626892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028024, exon 4 of 4)	3' UTR (NM_028024, exon 4 of 4)	3837.0	NM_028024	71966.0	Mm.274734	NM_028024	ENSMUSG00000017837	Nkiras2	2410003M04Rik|4930527H08Rik|D630018G21Rik|KBRAS2	NFKB inhibitor interacting Ras-like protein 2	protein-coding	144.0	161.5	138.0	2213.0	462.5	169.5	211.5	185.5
Merged-chr10-63381749-3	chr10	63381656	63381856	+	876.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253685)	promoter-TSS (NM_001253685)	-687.0	NM_001253685	30045.0	Mm.32550	NM_013888	ENSMUSG00000036764	Dnajc12	Jdp1|mJDP1	DnaJ heat shock protein family (Hsp40) member C12	protein-coding	13.0	10.5	6.0	100.5	11.0	5.5	5.5	17.0
Merged-chr6-54816656-4	chr6	54816557	54816757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199143)	promoter-TSS (NM_199143)	-259.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	272.5	306.5	202.0	3507.5	429.5	171.5	271.5	196.0
Merged-chr19-5661671-4	chr19	5661542	5661742	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164480, intron 1 of 16)	intron (NM_001164480, intron 1 of 16)	2065.0	NM_001164482	20469.0	Mm.3072	NM_011379	ENSMUSG00000056917	Sipa1	Spa1	signal-induced proliferation associated gene 1	protein-coding	14.0	10.5	11.0	133.5	31.5	13.5	17.5	18.5
Merged-chr6-125594979-4	chr6	125594886	125595086	+	927.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 10 of 51)	MTD|LTR|ERVL-MaLR	42038.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	10.0	14.5	22.0	271.5	40.5	11.5	22.5	16.5
Merged-chr6-50188189-4	chr6	50188101	50188301	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 11 of 13)	intron (NM_001361248, intron 11 of 13)	73568.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	31.0	22.0	24.0	654.5	65.5	23.5	18.5	31.0
Merged-chr2-60284334-4	chr2	60284221	60284421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290660, exon 1 of 6)	5' UTR (NM_001290660, exon 1 of 6)	163.0	NM_025422	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	191.0	326.5	261.0	2540.5	474.0	204.5	201.5	193.5
Merged-chr15-36164902-4	chr15	36164815	36165015	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081253)	promoter-TSS (NM_001081253)	-31.0	NM_001081253	78803.0	Mm.26393	NM_175281	ENSMUSG00000048230	Fbxo43	4930533G20Rik|Emi2	F-box protein 43	protein-coding	18.5	22.0	15.0	277.0	53.5	9.0	15.0	11.5
Merged-chr1-165700710-3	chr1	165700587	165700787	+	726.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	7407.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	4.5	8.5	13.0	70.0	19.0	10.5	7.5	5.5
Merged-chr6-94274126-1	chr6	94274026	94274226	+	885.0	f0_balb.idr	intron (NM_001029850, intron 1 of 23)	intron (NM_001029850, intron 1 of 23)	9791.0	NM_010367	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	9.5	5.5	11.0	223.5	0.0	2.0	0.0	1.5
Merged-chr6-38901372-4	chr6	38901277	38901477	+	960.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17609.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	25.5	32.5	27.5	348.0	26.0	17.0	21.0	23.5
Merged-chr4-55335204-3	chr4	55335115	55335315	+	769.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14827.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	6.0	6.0	8.0	157.5	13.5	2.0	5.5	5.5
Merged-chr2-60848683-4	chr2	60848575	60848775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	32763.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	35.5	68.5	33.0	720.0	119.0	46.5	60.5	46.5
Merged-chr14-7997381-4	chr14	7997281	7997481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3199.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	65.5	91.0	53.0	903.5	144.5	44.0	41.0	59.0
Merged-chr17-26939650-4	chr17	26939564	26939764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026307)	promoter-TSS (NM_026307)	-126.0	NM_026307	67675.0	Mm.439919	NM_026307	ENSMUSG00000024194	Cuta	0610039D01Rik|1810022E02Rik|1810060C03Rik|2700094G22Rik|AI326454	cutA divalent cation tolerance homolog	protein-coding	269.0	557.0	332.5	4135.0	736.5	320.0	296.0	272.5
Merged-chr2-170325425-4	chr2	170325329	170325529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30932.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	24.0	22.5	53.0	731.0	89.5	19.5	52.5	45.0
Merged-chr11-51059346-4	chr11	51059244	51059444	+	834.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347495)	promoter-TSS (NM_001347495)	87.0	NM_001347495	21408.0	Mm.4792	NM_009329	ENSMUSG00000020364	Zfp354a	AW488485|Tcf17|Znf354a|kid1	zinc finger protein 354A	protein-coding	6.0	20.5	13.0	201.0	17.5	9.5	10.5	6.0
Merged-chr10-111583319-3	chr10	111583223	111583423	+	918.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10950.0	NR_045344	71321.0	Mm.410785	NR_045344	ENSMUSG00000097082	4933440J02Rik	-	RIKEN cDNA 4933440J02 gene	ncRNA	7.0	5.0	14.0	185.0	5.5	4.0	4.0	3.5
Merged-chr9-96537661-2	chr9	96537561	96537761	+	837.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58986.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	6.5	5.5	5.0	23.0	12.0	3.0	2.5	2.5
Merged-chr17-37051920-3	chr17	37051820	37052020	+	832.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019439, intron 6 of 22)	intron (NM_019439, intron 6 of 22)	5954.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	9.0	14.5	7.0	254.0	44.0	9.0	10.0	13.0
Merged-chr15-74672650-4	chr15	74672558	74672758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276684)	promoter-TSS (NM_001276684)	-88.0	NM_018790	11838.0	Mm.491310	NM_018790	ENSMUSG00000022602	Arc	Arc3.1|C86064|arg3.1|mArc	activity regulated cytoskeletal-associated protein	protein-coding	224.0	286.0	192.5	3441.0	422.0	194.5	191.5	128.5
Merged-chr17-35170985-4	chr17	35170876	35171076	+	999.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001361501)	TTS (NM_001361501)	5076.0	NM_019467	11629.0	Mm.10747	NM_019467	ENSMUSG00000024397	Aif1	AI607846|AIF-1|D17H6S50E|G1|Iba1	allograft inflammatory factor 1	protein-coding	18.0	74.0	22.0	195.5	159.0	54.0	34.5	28.0
Merged-chr5-148548175-4	chr5	148548047	148548247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	3526.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	62.5	71.5	26.0	492.0	123.0	46.5	78.0	47.5
Merged-chr12-69457281-1	chr12	69457181	69457381	+	564.0	f0_balb.idr	Intergenic	Intergenic	18269.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	9.0	11.0	12.0	8.5	4.0	5.0	2.0	4.0
Merged-chr16-49165950-4	chr16	49165863	49166063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166210, intron 33 of 40)	intron (NM_001166210, intron 33 of 40)	108477.0	NM_001166210	667772.0	Mm.301387	NM_001166210	ENSMUSG00000092009	Myh15	EG667772	myosin, heavy chain 15	protein-coding	44.5	38.0	66.0	782.5	101.0	18.0	77.5	39.5
Merged-chr4-11033071-2	chr4	11032971	11033171	+	585.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25452.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	10.0	7.0	5.0	94.0	11.0	0.5	3.0	2.5
Merged-chr2-125792763-6	chr2	125792702	125792902	+	839.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9932.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	1.5	6.0	2.5	68.0	21.0	9.0	6.5	10.0
Merged-chr11-116828064-4	chr11	116827969	116828169	+	953.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026280)	promoter-TSS (NM_026280)	-23.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	34.5	27.0	20.0	232.5	40.5	13.5	13.5	26.5
Merged-chr7-104401316-4	chr7	104401217	104401417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42671.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	50.0	97.5	44.0	715.5	78.0	24.5	53.5	33.5
Merged-chr3-127410422-3	chr3	127410334	127410534	+	994.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	-1376.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	0.0	30.5	38.0	6.5	14.0	8.0
Merged-chr16-22009780-2	chr16	22009682	22009882	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001357424, intron 1 of 15)	CpG	298.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	21.5	34.0	12.5	372.5	79.5	36.0	22.5	46.5
Merged-chr2-167352719-4	chr2	167352635	167352835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-3557.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	53.0	73.0	68.5	1362.0	135.0	29.5	71.5	66.5
Merged-chr5-108669238-4	chr5	108669147	108669347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_174870)	TTS (NM_174870)	5549.0	NM_001310692	231583.0	Mm.440571	NM_174870	ENSMUSG00000046959	Slc26a1	Sat1	solute carrier family 26 (sulfate transporter), member 1	protein-coding	97.0	126.0	98.0	1118.5	214.0	118.5	109.5	80.0
Merged-chr14-64658537-4	chr14	64658448	64658648	+	985.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 1 of 39)	intron (NM_001081177, intron 1 of 39)	6017.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	15.5	26.5	18.5	221.5	45.0	17.0	20.5	19.0
Merged-chr10-57777227-4	chr10	57777110	57777310	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7713.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	30.0	42.0	33.0	529.5	92.5	25.0	14.5	25.5
Merged-chr15-81845867-4	chr15	81845730	81845930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12496.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	199.5	358.0	209.5	3275.0	594.5	216.5	237.0	197.5
Merged-chr8-92855416-4	chr8	92855331	92855531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173014)	promoter-TSS (NM_173014)	98.0	NM_001357374	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	19.0	28.0	22.0	196.0	65.0	24.5	33.0	32.5
Merged-chr1-131393876-3	chr1	131393779	131393979	+	829.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	intron (NM_001081011, intron 4 of 22)	-114316.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	11.5	13.0	15.0	161.0	22.0	7.0	24.0	7.5
Merged-chr12-16877704-4	chr12	16877602	16877802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17276.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	42.5	72.0	43.5	539.5	142.0	59.5	66.0	56.5
Merged-chr11-82952800-4	chr11	82952698	82952898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183201, intron 1 of 5)	intron (NM_183201, intron 1 of 5)	696.0	NM_183201	327978.0	Mm.42147	NM_183201	ENSMUSG00000054404	Slfn5	AI956840	schlafen 5	protein-coding	78.0	85.0	71.0	943.0	148.5	47.5	46.5	78.5
Merged-chr1-37562152-4	chr1	37562043	37562243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21127.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	54.0	75.5	55.0	742.5	84.0	34.0	48.0	46.5
Merged-chr15-51991167-2	chr15	51991067	51991267	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009009, intron 1 of 13)	CpG	593.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	37.0	42.0	41.5	423.0	60.5	21.0	27.0	35.0
Merged-chr4-142074299-4	chr4	142074247	142074447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	G-rich|Low_complexity|Low_complexity	-9951.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	22.5	35.5	26.0	361.5	91.0	25.5	35.5	26.5
Merged-chr12-31350441-3	chr12	31350352	31350552	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007861, intron 1 of 13)	intron (NM_007861, intron 1 of 13)	1019.0	NM_007861	13382.0	Mm.3131	NM_007861	ENSMUSG00000020664	Dld	-	dihydrolipoamide dehydrogenase	protein-coding	10.0	22.0	13.5	76.5	23.0	5.5	5.0	8.5
Merged-chr12-55080362-6	chr12	55080229	55080429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028314)	promoter-TSS (NM_028314)	-167.0	NM_011899	24067.0	Mm.471968	NM_011899	ENSMUSG00000073079	Srp54a	54kDa|Srp54	signal recognition particle 54A	protein-coding	71.0	86.0	100.5	555.5	132.5	77.0	34.5	49.0
Merged-chr2-174453894-4	chr2	174453840	174454040	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080971, intron 1 of 3)	intron (NM_001080971, intron 1 of 3)	3345.0	NM_001080971	545486.0	Mm.45285	NM_001080971	ENSMUSG00000016255	Tubb1	2810484G07Rik|M(beta)1	tubulin, beta 1 class VI	protein-coding	7.0	11.0	4.0	108.5	60.5	20.0	13.5	19.5
Merged-chr8-115429705-4	chr8	115429600	115429800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	277194.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	56.5	139.0	55.5	1190.5	232.0	60.0	78.5	60.0
Merged-chr13-93237815-4	chr13	93237711	93237911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45394.0	NM_001361537	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	31.5	35.5	29.0	512.0	75.0	32.0	30.5	20.5
Merged-chr9-110131969-4	chr9	110131850	110132050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009211)	promoter-TSS (NM_009211)	-74.0	NM_009211	20588.0	Mm.85410	NM_009211	ENSMUSG00000032481	Smarcc1	AI115498|BAF155|Rsc8|SRG3|msp3	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	protein-coding	108.5	192.0	101.5	1758.0	384.5	160.0	176.0	146.5
Merged-chr7-101093388-4	chr7	101093271	101093471	+	965.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15404.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	14.5	26.5	12.5	264.0	42.0	26.5	21.0	17.5
Merged-chr2-148851400-4	chr2	148851305	148851505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029960)	promoter-TSS (NM_029960)	-471.0	NM_029960	77705.0	Mm.159975	NM_029960	ENSMUSG00000027446	9230104L09Rik	mCST E2	RIKEN cDNA 9230104L09 gene	protein-coding	38.0	42.5	50.0	675.5	70.5	29.5	35.5	43.0
Merged-chr17-23829195-4	chr17	23829092	23829292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026305)	promoter-TSS (NM_026305)	-83.0	NM_026305	67673.0	Mm.153758	NM_026305	ENSMUSG00000055839	Elob	0610040H15Rik|Tceb2	elongin B	protein-coding	110.5	157.5	66.0	1188.5	237.0	81.5	117.5	102.5
Merged-chr5-114594867-4	chr5	114594750	114594950	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004180, intron 2 of 2)	intron (NM_001004180, intron 2 of 2)	26599.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	49.5	27.0	32.5	564.0	62.5	18.0	28.0	19.0
Merged-chr3-106546237-4	chr3	106546145	106546345	+	753.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293694, intron 1 of 8)	intron (NM_001293694, intron 1 of 8)	1380.0	NM_001357818	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	8.5	10.5	4.0	185.5	41.0	10.0	12.0	7.0
Merged-chr5-72763098-4	chr5	72762927	72763127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 14 of 17)	intron (NM_013689, intron 14 of 17)	-10250.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	10.0	4.5	12.0	110.5	18.0	2.5	6.0	18.5
Merged-chr7-16223086-3	chr7	16222920	16223120	+	792.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027883)	promoter-TSS (NM_027883)	-988.0	NM_027883	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	5.0	10.5	13.0	96.0	4.5	1.5	0.5	2.0
Merged-chr2-3425108-3	chr2	3425010	3425210	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302684, intron 1 of 14)	intron (NM_001302684, intron 1 of 14)	979.0	NM_001302684	227525.0	Mm.23483	NM_146114	ENSMUSG00000026648	Dclre1c	9930121L06Rik|AI661365|Art|Snm1l	DNA cross-link repair 1C	protein-coding	9.0	6.0	5.0	108.0	33.0	5.5	5.0	8.5
Merged-chr2-156352356-3	chr2	156352272	156352472	+	669.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027585, intron 8 of 12)	intron (NM_027585, intron 8 of 12)	-39668.0	NM_020255	19018.0	Mm.389346	NM_020255	ENSMUSG00000046229	Scand1	2310003H23Rik|Leap1|PGC-2|Ppargc2	SCAN domain-containing 1	protein-coding	0.0	1.0	0.0	0.0	23.5	6.5	4.5	17.0
Merged-chr11-106675485-4	chr11	106675346	106675546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 12 of 14)	intron (NM_001305158, intron 12 of 14)	39835.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	179.5	229.0	130.0	1504.0	252.0	102.5	100.0	81.5
Merged-chr2-48988188-4	chr2	48988086	48988286	+	813.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029924, intron 1 of 16)	LTR87|LTR|ERVL?	-37952.0	NM_001355296	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	16.5	7.0	14.0	113.5	10.0	3.5	11.0	8.5
Merged-chr17-23803562-4	chr17	23803471	23803671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175229, intron 1 of 13)	CpG	384.0	NM_175229	75956.0	Mm.5222	NM_175229	ENSMUSG00000039218	Srrm2	5033413A03Rik|AA410130|SRm300|mKIAA0324	serine/arginine repetitive matrix 2	protein-coding	38.0	105.5	49.0	621.5	208.0	75.0	79.0	76.5
Merged-chr7-45491521-3	chr7	45491395	45491595	+	770.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290999, intron 1 of 9)	intron (NM_001290999, intron 1 of 9)	-2690.0	NM_027903	71755.0	Mm.34208	NM_027903	ENSMUSG00000011382	Dhdh	1300018L09Rik|AA591799|B830008H07Rik|Xld-1|Xld1	dihydrodiol dehydrogenase (dimeric)	protein-coding	5.0	9.5	8.0	122.0	12.0	5.0	7.5	8.5
Merged-chr4-43047420-4	chr4	43047311	43047511	+	976.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1191.0	NM_172691	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	23.5	36.0	9.0	218.0	53.0	17.0	21.0	19.5
Merged-chr9-72458471-4	chr9	72458369	72458569	+	743.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009359, exon 12 of 12)	3' UTR (NM_009359, exon 12 of 12)	19940.0	NM_008613	17427.0	Mm.387671	NM_008613	ENSMUSG00000032221	Mns1	AW546487	meiosis-specific nuclear structural protein 1	protein-coding	6.0	10.5	3.5	66.5	29.0	5.0	20.0	11.5
Merged-chr7-127851077-4	chr7	127850983	127851183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	9275.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	72.0	197.0	141.5	1816.5	244.5	87.5	126.5	109.0
Merged-chr1-138239772-4	chr1	138239675	138239875	+	656.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33963.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	11.0	17.0	8.5	120.0	27.0	7.5	10.0	2.5
Merged-chr6-125436861-4	chr6	125436742	125436942	+	670.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-56338.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	3.0	1.5	16.5	109.0	19.0	6.5	11.0	8.5
Merged-chr7-83568808-4	chr7	83568688	83568888	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16143.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	2.5	11.5	4.0	251.0	23.0	7.5	25.0	16.5
Merged-chr4-12087190-4	chr4	12087093	12087293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110955, intron 1 of 28)	intron (NR_110955, intron 1 of 28)	764.0	NM_177861	329795.0	Mm.475125	NM_177861	ENSMUSG00000049488	Tmem67	5330408M12Rik|B230117O07|b2b1163.1Clo|b2b1291.1Clo	transmembrane protein 67	protein-coding	36.5	40.0	19.0	259.0	115.0	26.5	31.0	42.0
Merged-chr8-92856453-4	chr8	92856354	92856554	+	965.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357375, intron 1 of 12)	intron (NM_001357375, intron 1 of 12)	1121.0	NM_001357374	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	22.0	17.5	17.0	300.0	33.0	12.0	21.5	19.5
Merged-chr10-40142322-4	chr10	40142221	40142421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028247)	promoter-TSS (NM_028247)	-67.0	NM_001114332	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	199.5	310.5	150.5	3138.5	430.0	170.5	257.5	144.5
Merged-chr2-173546503-4	chr2	173546425	173546625	+	801.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23933.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	9.5	12.0	11.5	192.0	19.5	6.0	13.5	9.5
Merged-chr8-73354431-4	chr8	73354350	73354550	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010687)	promoter-TSS (NM_010687)	-910.0	NM_010687	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	5.5	12.0	12.0	209.0	28.0	7.0	18.5	25.5
Merged-chr11-53794089-4	chr11	53793973	53794173	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	23600.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	18.0	18.0	26.0	305.5	46.0	18.5	13.0	30.0
Merged-chr14-70520488-4	chr14	70520386	70520586	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009755)	promoter-TSS (NM_009755)	186.0	NM_001360021	12153.0	Mm.27757	NM_009755	ENSMUSG00000022098	Bmp1	Pcp|Tld	bone morphogenetic protein 1	protein-coding	37.0	25.0	23.5	286.5	45.5	11.0	12.5	27.5
Merged-chr16-18443636-3	chr16	18443518	18443718	+	962.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001353143, intron 8 of 16)	intron (NM_001353143, intron 8 of 16)	-16902.0	NM_001111062	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	8.5	8.5	10.5	133.0	13.5	7.5	6.5	8.0
Merged-chr19-11970552-3	chr19	11970455	11970655	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033174, intron 1 of 13)	intron (NM_001033174, intron 1 of 13)	4711.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	7.5	15.0	10.5	125.5	7.0	4.0	11.5	6.0
Merged-chr11-104544735-4	chr11	104544647	104544847	+	868.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145436, intron 1 of 18)	intron (NM_145436, intron 1 of 18)	5873.0	NM_001285990	217232.0	Mm.89845	NM_145436	ENSMUSG00000020687	Cdc27	AI452358|APC3|BC023187	cell division cycle 27	protein-coding	8.5	18.0	17.5	129.0	28.5	19.0	6.5	12.0
Merged-chr3-43218952-4	chr3	43218861	43219061	+	753.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1476343.0	NM_027271	73852.0	Mm.29006	NM_027271	ENSMUSG00000025766	D3Ertd751e	2810009O15Rik|4930415G15Rik	DNA segment, Chr 3, ERATO Doi 751, expressed	protein-coding	5.0	10.5	14.0	188.0	34.0	4.5	9.5	9.0
Merged-chr11-120784232-4	chr11	120784123	120784323	+	961.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009053)	promoter-TSS (NM_009053)	-19.0	NM_009053	19719.0	Mm.871	NM_009053	ENSMUSG00000025158	Rfng	-	RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	27.0	27.0	10.5	215.5	52.0	26.0	17.5	16.0
Merged-chr16-58477776-4	chr16	58477688	58477888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	RMER6C|LTR|ERVK	45638.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	71.0	122.5	75.0	774.0	205.5	77.5	101.0	72.0
Merged-chr7-19310239-5	chr7	19310080	19310280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008036)	promoter-TSS (NM_008036)	-135.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	80.5	124.5	85.5	613.0	172.5	96.5	70.0	75.5
Merged-chr11-3181489-3	chr11	3181400	3181600	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	11963.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	37.0	42.0	48.5	421.0	25.5	3.0	7.5	7.5
Merged-chr10-57791543-4	chr10	57791426	57791626	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3018.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	29.0	32.5	41.5	410.5	49.5	21.0	21.0	17.5
Merged-chr3-59211922-4	chr3	59211823	59212023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	-1041.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	124.5	203.0	131.0	1700.5	244.0	73.5	71.0	47.5
Merged-chr7-62400342-1	chr7	62400242	62400442	+	944.0	f0_balb.idr	Intergenic	Intergenic	19797.0	NM_011746	22652.0	Mm.146	NM_011746	ENSMUSG00000070527	Mkrn3	D7H15S9-1|Zfp127	makorin, ring finger protein, 3	protein-coding	14.5	7.5	6.5	175.0	4.0	3.0	3.0	5.5
Merged-chr1-60669350-4	chr1	60669250	60669450	+	937.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77038.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	16.5	19.5	20.0	233.0	24.0	18.0	11.0	12.5
Merged-chr13-113381937-4	chr13	113381824	113382024	+	886.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	120920.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	13.5	17.0	14.5	351.5	30.5	8.0	11.0	11.5
Merged-chr1-131053402-4	chr1	131053286	131053486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008551)	TTS (NM_008551)	33541.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	47.5	69.0	44.5	907.0	112.5	54.5	57.0	52.5
Merged-chr5-138255697-4	chr5	138255624	138255824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081108, exon 1 of 4)	5' UTR (NM_001081108, exon 1 of 4)	242.0	NM_001081108	66096.0	Mm.206901	NM_001081108	ENSMUSG00000050552	Lamtor4	0910001L09Rik|AV006840	late endosomal/lysosomal adaptor, MAPK and MTOR activator 4	protein-coding	167.0	169.5	89.5	1250.5	388.0	146.0	96.5	97.5
Merged-chr7-99050096-4	chr7	99049964	99050164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 6 of 14)	intron (NM_178635, intron 6 of 14)	91080.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	129.0	215.5	147.5	1890.0	226.0	102.5	109.0	125.0
Merged-chr3-61595759-4	chr3	61595662	61595862	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	231255.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	35.5	17.5	22.5	365.0	58.5	13.5	15.0	13.5
Merged-chr1-170901745-4	chr1	170901648	170901848	+	936.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	11193.0	NM_001029984	435653.0	Mm.337931	NM_001029984	ENSMUSG00000070524	Fcrlb	FREB-2|FREB2|FcRL2|Fcrlm2|Fcry|mFCRL2	Fc receptor-like B	protein-coding	20.5	15.5	5.0	134.0	52.5	16.5	18.5	15.0
Merged-chr8-70718538-5	chr8	70718477	70718677	+	997.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195253)	promoter-TSS (NM_001195253)	34.0	NM_001195253	100502950.0	Mm.52981	NM_001195253	ENSMUSG00000095026	Gm3336	100041434|2410018E23Rik	predicted gene 3336	protein-coding	20.0	17.0	16.5	186.0	56.0	14.0	14.5	20.5
Merged-chr18-39544383-3	chr18	39544281	39544481	+	643.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57136.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	10.0	32.5	6.0	87.5	24.0	9.5	7.5	1.5
Merged-chr1-180720531-3	chr1	180720431	180720631	+	873.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5512.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	12.5	15.0	3.0	105.5	25.0	6.5	8.0	7.5
Merged-chr11-69088709-6	chr11	69088670	69088870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009497, intron 1 of 4)	CpG	242.0	NM_009497	22318.0	Mm.28643	NM_009497	ENSMUSG00000020894	Vamp2	Syb-2|Syb2|Vamp-2|sybII	vesicle-associated membrane protein 2	protein-coding	15.0	21.5	16.5	189.0	43.5	20.0	19.5	25.5
Merged-chr5-137072331-4	chr5	137072224	137072424	+	848.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008871)	promoter-TSS (NM_008871)	-52.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	8.5	26.0	11.0	226.5	28.0	16.0	5.0	8.5
Merged-chr12-108932310-2	chr12	108932210	108932410	+	864.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	38038.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	5.5	22.0	6.5	168.5	7.5	5.5	7.5	3.5
Merged-chr5-64410890-4	chr5	64410748	64410948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57094.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	41.5	43.5	36.5	574.5	38.5	24.5	28.0	26.5
Merged-chr19-44118028-3	chr19	44117925	44118125	+	818.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081077, intron 10 of 13)	intron (NM_001081077, intron 10 of 13)	-10548.0	NM_001162410	12675.0	Mm.3996	NM_007700	ENSMUSG00000025199	Chuk	AI256658|Chuk1|Fbx24|Fbxo24|IKBKA|IKK alpha|IKK1|Ikka|NFKBIKA	conserved helix-loop-helix ubiquitous kinase	protein-coding	4.0	9.5	5.0	208.5	30.0	11.5	6.5	19.5
Merged-chr9-99469847-4	chr9	99469767	99469967	+	705.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028123)	promoter-TSS (NR_028123)	-554.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	3.5	10.5	4.5	86.5	16.5	9.0	10.0	5.5
Merged-chr7-98052211-2	chr7	98052160	98052360	+	685.666626	f0_c57.idr|f1_c57bl6.idr	exon (NM_001256082, exon 48 of 49)	exon (NM_001256082, exon 48 of 49)	56988.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	0.0	2.0	0.5	4.0	13.0	4.5	5.0	8.0
Merged-chr9-70731271-4	chr9	70731158	70731358	+	897.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007399, intron 4 of 15)	L2|LINE|L2	52276.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	10.5	20.0	10.5	233.0	35.0	9.5	17.5	12.5
Merged-chr17-35394571-3	chr17	35394447	35394647	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_051981, exon 2 of 3)	non-coding (NR_051981, exon 2 of 3)	448.0	NR_051981	15016.0	Mm.439648	NR_051981	ENSMUSG00000055413	H2-Q5	H-2Q5|Qa-5|Qa5|Qat-5	histocompatibility 2, Q region locus 5	pseudo	20.0	19.0	11.0	36.0	40.5	13.0	14.5	10.0
Merged-chr19-7218147-4	chr19	7218058	7218258	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007750)	promoter-TSS (NM_007750)	-542.0	NM_007750	12868.0	Mm.14022	NM_007750	ENSMUSG00000035885	Cox8a	COX8L	cytochrome c oxidase subunit VIIIa	protein-coding	23.0	36.0	19.0	263.5	53.0	17.5	14.0	23.0
Merged-chr10-86889791-4	chr10	86889679	86889879	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 41 of 68)	Lx8|LINE|L1	110774.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	29.5	25.0	86.5	1210.0	43.0	9.5	30.0	46.0
Merged-chr3-148804059-4	chr3	148803961	148804161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	150574.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	131.5	97.0	120.0	2232.5	321.0	62.5	146.5	158.0
Merged-chr4-106840116-4	chr4	106839946	106840146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35039.0	NM_001347159	329910.0	Mm.222956	NM_025590	ENSMUSG00000034853	Acot11	1110020M10Rik|2010309H15Rik|AW060409|BFIT|BFIT1|Thea|Them1|mKIAA0707	acyl-CoA thioesterase 11	protein-coding	47.5	53.5	21.0	320.0	117.0	33.0	38.0	29.0
Merged-chr4-126137978-3	chr4	126137893	126138093	+	915.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 10 of 10)	intron (NM_028800, intron 10 of 10)	-10010.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	16.0	38.5	19.5	102.0	26.0	6.0	8.5	4.5
Merged-chr4-152333190-4	chr4	152333090	152333290	+	827.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_102292, exon 5 of 5)	non-coding (NR_102292, exon 5 of 5)	-5461.0	NM_029216	269610.0	Mm.40192	NM_029216	ENSMUSG00000005045	Chd5	4930532L22Rik|AW060752|B230399N07Rik|CHD-5	chromodomain helicase DNA binding protein 5	protein-coding	7.0	8.0	6.5	197.0	23.5	8.5	7.5	12.0
Merged-chr7-80777256-5	chr7	80777210	80777410	+	957.2666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	26021.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	2.0	1.0	0.5	14.0	31.0	6.0	5.0	6.5
Merged-chr14-75899697-3	chr14	75899591	75899791	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026816, intron 7 of 7)	intron (NM_026816, intron 7 of 7)	51768.0	NR_028481	100303751.0	Mm.484707	NR_028481	ENSMUSG00000065147	Snora31	MBI-161	small nucleolar RNA, H/ACA box 31	snoRNA	1.0	3.5	9.0	106.0	15.0	5.5	7.0	6.0
Merged-chr13-63696610-3	chr13	63696520	63696720	+	857.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126476, intron 4 of 4)	intron (NR_126476, intron 4 of 4)	37678.0	NR_126476	75522.0	Mm.54259	NR_126476	ENSMUSG00000113825	1700024I08Rik	-	RIKEN cDNA 1700024I08 gene	ncRNA	3.0	7.0	3.0	75.0	41.0	10.5	15.5	18.0
Merged-chr14-122019403-4	chr14	122019317	122019517	+	713.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 8 of 8)	intron (NM_026861, intron 8 of 8)	-15257.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	1.5	5.0	5.5	68.0	26.0	7.0	12.0	18.0
Merged-chr15-95797368-4	chr15	95797274	95797474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	6531.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	44.5	56.0	43.5	493.5	93.5	22.5	46.5	37.0
Merged-chr11-21091831-4	chr11	21091730	21091930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023324, intron 1 of 6)	CpG	506.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	25.0	51.0	20.0	282.5	87.5	23.5	25.5	14.0
Merged-chr3-116122944-4	chr3	116122857	116123057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011693, intron 4 of 8)	intron (NM_011693, intron 4 of 8)	6731.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	41.5	43.5	51.0	1103.5	51.5	15.0	25.5	37.0
Merged-chr11-72217252-4	chr11	72217135	72217335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001163728, exon 1 of 1)	3' UTR (NM_001163728, exon 1 of 1)	-1643.0	NM_026068	67279.0	Mm.159496	NM_026068	ENSMUSG00000020801	Med31	3110004H13Rik|CGI-125|l11Jus15	mediator complex subunit 31	protein-coding	57.0	68.5	59.0	908.5	72.5	23.5	35.0	43.0
Merged-chr7-56050098-4	chr7	56049982	56050182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010418)	promoter-TSS (NM_010418)	-73.0	NM_010418	15204.0	Mm.20929	NM_010418	ENSMUSG00000030451	Herc2	D15F32S1h|D7H15F32S1|D7H15F37S1|jdf2|mKIAA0393|rjs	HECT and RLD domain containing E3 ubiquitin protein ligase 2	protein-coding	392.0	585.0	471.5	7707.0	779.5	349.5	385.5	327.5
Merged-chr19-42744344-3	chr19	42744217	42744417	+	778.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029011, intron 4 of 15)	intron (NM_029011, intron 4 of 15)	8458.0	NM_029011	74580.0	Mm.329858	NM_029011	ENSMUSG00000060224	Pyroxd2	3830409H07Rik|4833409A17Rik	pyridine nucleotide-disulphide oxidoreductase domain 2	protein-coding	0.0	3.0	6.0	15.5	26.0	6.5	15.5	16.5
Merged-chr10-78487862-4	chr10	78487759	78487959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22911.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	33.5	27.0	17.0	363.0	77.5	33.0	26.5	28.0
Merged-chr14-77343921-4	chr14	77343816	77344016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253759, intron 3 of 19)	intron (NM_001253759, intron 3 of 19)	162952.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	99.0	174.5	107.0	2214.5	349.5	88.5	121.5	120.0
Merged-chr9-99379723-4	chr9	99379627	99379827	+	821.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21197.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	5.0	5.5	9.0	159.5	20.0	4.5	9.0	13.0
Merged-chr2-152344134-6	chr2	152344025	152344225	+	958.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175093)	promoter-TSS (NM_175093)	-65.0	NM_175093	228775.0	Mm.276018	NM_144554	ENSMUSG00000032715	Trib3	Ifld2|Nipk|SINK|SKIP3|TRB-3|Trb3	tribbles pseudokinase 3	protein-coding	21.5	27.0	14.5	281.5	55.5	18.0	27.0	13.0
Merged-chr15-77874474-4	chr15	77874378	77874578	+	901.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32303.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	14.5	8.0	13.5	128.0	33.0	7.0	8.0	16.5
Merged-chr13-14022028-3	chr13	14021933	14022133	+	859.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178337, intron 3 of 16)	MMVL30-int|LTR|ERV1	17605.0	NR_130788	70430.0	Mm.260209	NM_178337	ENSMUSG00000039233	Tbce	2610206D02Rik|C530005D02Rik|pmn	tubulin-specific chaperone E	protein-coding	6.5	8.5	5.5	91.0	9.5	2.5	8.0	5.0
Merged-chr9-7259918-4	chr9	7259819	7260019	+	883.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-12595.0	NM_008607	17386.0	Mm.5022	NM_008607	ENSMUSG00000050578	Mmp13	Clg|MMP-13|Mmp1	matrix metallopeptidase 13	protein-coding	7.5	27.0	8.5	188.5	23.5	3.0	9.5	11.0
Merged-chr16-55691225-4	chr16	55691108	55691308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAGCC)n|Simple_repeat|Simple_repeat	130930.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	67.5	122.0	37.5	628.0	198.0	75.5	68.0	39.5
Merged-chr1-177983256-4	chr1	177983173	177983373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8125.0	NR_155538	545391.0	Mm.442974	NM_001034899	ENSMUSG00000091476	Gm16432	EG545391|EG666250	predicted gene 16432	protein-coding	333.5	493.5	364.0	3616.5	860.5	375.0	478.5	355.5
Merged-chr11-118164745-2	chr11	118164645	118164845	+	979.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001112699, exon 13 of 13)	3' UTR (NM_001112699, exon 13 of 13)	-35526.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	9.5	6.0	6.0	21.5	15.0	2.5	7.0	5.5
Merged-chr11-69257991-4	chr11	69257886	69258086	+	969.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20964.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	16.0	27.0	13.5	224.5	52.0	26.0	24.0	20.5
Merged-chr9-107581216-4	chr9	107581116	107581316	+	896.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178020)	promoter-TSS (NM_178020)	-80.0	NM_178020	109685.0	Mm.447916	NM_178020	ENSMUSG00000036091	Hyal3	Hyl3	hyaluronoglucosaminidase 3	protein-coding	21.0	11.5	12.0	110.0	49.0	12.5	13.5	12.0
Merged-chr16-94574801-4	chr16	94574709	94574909	+	867.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	3902.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	20.5	35.5	21.5	155.0	33.5	30.0	11.0	28.0
Merged-chr5-135251162-3	chr5	135251018	135251218	+	828.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010246)	promoter-TSS (NM_010246)	-71.0	NM_010246	14371.0	Mm.6256	NM_010246	ENSMUSG00000049551	Fzd9	mfz9	frizzled class receptor 9	protein-coding	7.5	11.0	12.5	72.5	9.0	9.0	5.5	8.0
Merged-chr18-37956365-4	chr18	37956192	37956392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153793, intron 1 of 7)	intron (NM_153793, intron 1 of 7)	733.0	NM_153793	225392.0	Mm.233516	NM_153793	ENSMUSG00000044024	Rell2	4631403P03Rik|ependolin	RELT-like 2	protein-coding	54.5	56.0	36.5	734.5	140.5	42.0	64.0	50.0
Merged-chr11-70787202-4	chr11	70787105	70787305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	22758.0	NM_177565	193043.0	Mm.40966	NM_177565	ENSMUSG00000043602	Zfp3	AI854635|B230309J24|Fnp-1|Zfp-3	zinc finger protein 3	protein-coding	68.0	135.5	58.5	1059.0	145.5	69.5	68.0	63.0
Merged-chr15-75862287-4	chr15	75862199	75862399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026960)	promoter-TSS (NM_026960)	-40.0	NM_026960	69146.0	Mm.27385	NM_026960	ENSMUSG00000022575	Gsdmd	1810036L03Rik|AW558049|DF5L|Dfna5l|Gsdmdc1|M2-4	gasdermin D	protein-coding	50.5	97.0	32.5	492.5	212.5	67.5	65.0	47.5
Merged-chr7-127077133-4	chr7	127077031	127077231	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14305.0	NM_178901	101602.0	Mm.490357	NM_178901	ENSMUSG00000045165	AI467606	-	expressed sequence AI467606	protein-coding	12.5	23.5	12.5	471.5	50.0	14.5	23.0	30.5
Merged-chr7-96946719-2	chr7	96946620	96946820	+	678.333374	f0_balb.idr|f1_balb.idr	Intergenic	RLTR45|LTR|ERVK	-4807.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	15.0	25.0	17.0	69.5	11.5	4.0	3.0	3.5
Merged-chr15-6403605-3	chr15	6403510	6403710	+	715.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	(TTTTG)n|Simple_repeat|Simple_repeat	16862.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	8.0	7.5	10.0	237.5	10.5	2.5	5.5	8.0
Merged-chr11-60538024-4	chr11	60537939	60538139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172943, exon 1 of 4)	5' UTR (NM_172943, exon 1 of 4)	356.0	NM_172943	268420.0	Mm.262056	NM_172943	ENSMUSG00000042650	Alkbh5	AW050020|AW215868|Abh5|E130207K11|Ofoxd	alkB homolog 5, RNA demethylase	protein-coding	67.0	96.0	35.5	568.5	188.0	101.5	76.5	66.0
Merged-chr5-43722232-3	chr5	43722146	43722346	+	718.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359906, intron 26 of 37)	intron (NM_001359906, intron 26 of 37)	59867.0	NM_001359903	231214.0	Mm.44434	NM_172274	ENSMUSG00000039765	Cc2d2a	5730509K17Rik|b2b1035Clo	coiled-coil and C2 domain containing 2A	protein-coding	16.0	15.0	10.0	172.0	0.5	0.0	0.0	0.0
Merged-chr17-56266525-4	chr17	56266435	56266635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9742.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	81.5	171.5	73.5	1258.5	244.5	103.5	103.0	97.0
Merged-chr13-58129287-1	chr13	58129187	58129387	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_029872)	promoter-TSS (NM_029872)	-731.0	NM_029872	77134.0	Mm.490274	NM_029872	ENSMUSG00000007836	Hnrnpa0	1110055B05Rik|3010025E17Rik|Hnrpa0|hnRNP A0	heterogeneous nuclear ribonucleoprotein A0	protein-coding	35.0	69.0	34.5	371.0	80.5	62.0	34.5	61.5
Merged-chr2-27401729-3	chr2	27401623	27401823	+	680.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009500, intron 1 of 27)	ORR1A2-int|LTR|ERVL-MaLR	25885.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	8.5	15.5	2.0	65.5	20.5	6.0	8.0	6.5
Merged-chr3-152104594-3	chr3	152104502	152104702	+	813.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 4 of 5)	ID4_|SINE|ID	61298.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	15.0	28.0	18.5	249.0	7.5	2.5	4.0	3.5
Merged-chr7-43553318-4	chr7	43553214	43553414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-9056.0	NM_001008549	210104.0	Mm.333821	NM_001008549	ENSMUSG00000056592	Zfp658	-	zinc finger protein 658	protein-coding	29.0	37.5	40.5	582.5	52.5	16.5	24.5	29.5
Merged-chr11-79293186-4	chr11	79293089	79293289	+	925.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38494.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	20.5	15.0	9.0	142.5	41.0	17.0	12.5	22.5
Merged-chr10-8520618-4	chr10	8520449	8520649	+	784.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1724.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	9.0	5.5	7.5	187.0	7.5	3.0	2.0	5.0
Merged-chr7-142384455-4	chr7	142384384	142384584	+	917.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009983, intron 2 of 8)	intron (NM_009983, intron 2 of 8)	3386.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	4.0	8.0	16.0	216.5	20.5	8.0	7.5	16.0
Merged-chr12-79864380-4	chr12	79864283	79864483	+	991.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60350.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	22.5	45.0	31.0	518.0	52.5	18.5	18.0	17.0
Merged-chr2-148655165-4	chr2	148655064	148655264	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17451.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	11.0	18.0	10.0	262.0	36.0	25.0	32.5	14.5
Merged-chr4-9647172-3	chr4	9647074	9647274	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	-3457.0	NM_001177852	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	9.5	23.0	16.5	315.5	37.0	12.0	23.5	13.0
Merged-chr9-114584006-3	chr9	114583917	114584117	+	662.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19648.0	NM_001042503	636931.0	Mm.17857	NM_001042503	ENSMUSG00000079259	Trim71	2610206G21Rik|AL022943|Gm1127|Lin41|lin-41|mLin41|mlin-41	tripartite motif-containing 71	protein-coding	4.0	1.0	12.0	95.0	7.5	4.5	6.0	6.0
Merged-chr11-121082430-4	chr11	121082321	121082521	+	941.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1282.0	NM_145373	209588.0	Mm.69553	NM_145373	ENSMUSG00000025165	Sectm1a	BC010462	secreted and transmembrane 1A	protein-coding	20.0	11.0	9.5	252.0	37.5	7.0	13.5	18.0
Merged-chr3-90433621-4	chr3	90433541	90433741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145540)	promoter-TSS (NM_145540)	-5.0	NM_178876	229543.0	Mm.268564	NM_145540	ENSMUSG00000027933	Ints3	C77668	integrator complex subunit 3	protein-coding	346.5	412.5	340.0	4141.0	642.0	307.5	380.0	299.5
Merged-chr18-4351878-4	chr18	4351782	4351982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 1 of 7)	intron (NM_007746, intron 1 of 7)	1071.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	36.0	31.5	23.5	273.5	55.5	20.5	37.0	28.0
Merged-chr4-103114337-4	chr4	103114252	103114452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146254)	promoter-TSS (NM_146254)	-38.0	NM_027696	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	135.5	206.0	145.5	2207.5	433.5	142.0	276.0	177.5
Merged-chr10-88376939-4	chr10	88376847	88377047	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41B|LTR|ERVL	-2465.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	19.5	40.0	20.0	309.0	73.5	24.0	15.5	25.5
Merged-chr15-97247964-4	chr15	97247853	97248053	+	831.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164563)	promoter-TSS (NM_001164563)	-666.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	10.0	8.5	17.5	139.0	20.5	1.5	4.0	10.0
Merged-chr3-14869968-4	chr3	14869866	14870066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007606, intron 5 of 6)	intron (NM_007606, intron 5 of 6)	6428.0	NM_007606	12350.0	Mm.300	NM_007606	ENSMUSG00000027559	Car3	BB219044|Ca3|Car-3	carbonic anhydrase 3	protein-coding	55.5	54.0	32.5	781.0	164.5	55.0	94.5	69.5
Merged-chr9-47581697-3	chr9	47581594	47581794	+	840.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	51342.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	14.5	14.0	5.5	170.0	15.0	10.0	7.0	12.5
Merged-chr2-5708236-3	chr2	5708174	5708374	+	741.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	6488.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	5.0	6.5	6.5	119.0	20.0	0.5	9.5	10.5
Merged-chr7-96630638-2	chr7	96630532	96630732	+	718.25	f0_balb.idr|f1_balb.idr	intron (NM_011858, intron 5 of 32)	RLTR45|LTR|ERVK	170917.0	NR_045874	791381.0	Mm.402112	NR_045874	ENSMUSG00000053049	Gm15413	-	predicted gene 15413	ncRNA	17.0	17.0	15.0	91.0	4.5	0.5	0.5	1.0
Merged-chr17-34440023-2	chr17	34439923	34440123	+	566.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163855, intron 9 of 23)	intron (NM_001163855, intron 9 of 23)	35914.0	NM_030746	632126.0	Mm.484958	NM_030746	ENSMUSG00000058435	Btnl4	Btn3a3|EG632126|NG11	butyrophilin-like 4	protein-coding	9.0	9.0	0.0	28.5	6.5	5.5	5.0	8.5
Merged-chr12-69190684-2	chr12	69190584	69190784	+	898.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_027269, intron 2 of 2)	B2_Mm2|SINE|B2	6526.0	NM_146035	217664.0	Mm.206642	NM_146035	ENSMUSG00000043998	Mgat2	AA407964|CDGS2|GLCNACTII|GNT-II|GNT2	mannoside acetylglucosaminyltransferase 2	protein-coding	9.0	11.5	2.5	61.5	17.5	6.5	9.5	6.0
Merged-chr16-35765538-4	chr16	35765440	35765640	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	MER57-int|LTR|ERV1	3816.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	66.5	65.0	91.5	1349.5	47.0	8.0	12.5	12.0
Merged-chr18-46533806-4	chr18	46533706	46533906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7835.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	70.5	175.0	68.0	923.5	153.5	69.5	54.5	43.5
Merged-chr5-146299652-4	chr5	146299553	146299753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359990, intron 11 of 12)	intron (NM_001359990, intron 11 of 12)	68403.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	23.5	25.5	18.0	374.5	38.0	24.5	27.5	34.0
Merged-chr1-135268288-4	chr1	135268174	135268374	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 4 of 9)	intron (NM_001159624, intron 4 of 9)	-9802.0	NM_007921	13710.0	Mm.441439	NM_007921	ENSMUSG00000003051	Elf3	ESE-1|ESX|jen	E74-like factor 3	protein-coding	6.0	20.0	25.0	164.0	32.0	9.0	13.5	12.0
Merged-chr13-59798520-3	chr13	59798427	59798627	+	797.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153538, intron 14 of 27)	intron (NM_153538, intron 14 of 27)	24620.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	8.5	5.5	6.0	83.5	20.0	9.0	8.0	11.5
Merged-chr16-84713234-3	chr16	84713111	84713311	+	722.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029565)	promoter-TSS (NR_029565)	188.0	NR_132106	100653389.0	Mm.261808	NR_132106	ENSMUSG00000097418	Mir155hg	Bic|Gm26667	Mir155 host gene (non-protein coding)	ncRNA	0.5	8.5	2.0	11.5	35.0	7.5	12.0	7.0
Merged-chr12-79141637-4	chr12	79141561	79141761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	MMAR1|DNA|TcMar-Mariner	10873.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	92.0	120.0	128.5	1778.0	80.5	19.5	30.5	17.0
Merged-chr2-32494633-4	chr2	32494540	32494740	+	926.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-40719.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	21.0	24.0	11.5	306.5	31.5	12.5	14.0	20.0
Merged-chr3-30592528-4	chr3	30592465	30592665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7305.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	36.5	39.0	20.0	372.0	63.5	24.0	18.0	31.0
Merged-chr6-125313920-4	chr6	125313811	125314011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010736)	promoter-TSS (NM_010736)	-26.0	NM_010736	17000.0	Mm.3122	NM_010736	ENSMUSG00000030339	Ltbr	AI256028|LTbetaR|Ltar|TNF-R-III|TNFCR|TNFR-RP|TNFR2-RP|TNFRrp|Tnfbr|Tnfrsf3	lymphotoxin B receptor	protein-coding	152.5	179.5	112.5	1788.5	370.5	133.0	184.5	161.5
Merged-chr17-13660101-4	chr17	13659983	13660183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-100458.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	85.0	96.5	62.0	1362.0	190.0	73.0	87.5	84.0
Merged-chr6-29526139-4	chr6	29526033	29526233	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012057)	promoter-TSS (NM_012057)	-492.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	11.5	19.5	48.5	440.5	33.0	17.0	26.5	21.5
Merged-chr4-128806178-4	chr4	128806096	128806296	+	869.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081098)	promoter-TSS (NM_001081098)	-84.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	10.5	16.0	13.5	82.0	33.5	7.0	12.0	2.5
Merged-chr7-47052647-6	chr7	47052582	47052782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026436, intron 1 of 2)	intron (NM_026436, intron 1 of 2)	2042.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	14.0	14.0	24.5	275.0	34.0	13.0	15.5	17.5
Merged-chr14-72603038-4	chr14	72602909	72603109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 3 of 25)	intron (NM_207636, intron 3 of 25)	106994.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	66.0	101.5	63.5	893.5	168.5	49.5	58.5	73.5
Merged-chr6-31412698-4	chr6	31412590	31412790	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 1 of 17)	B3|SINE|B2	13862.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	18.5	16.5	22.5	288.0	40.0	9.0	20.5	19.5
Merged-chr9-121385297-4	chr9	121385194	121385394	+	896.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357970, intron 1 of 15)	intron (NM_001357970, intron 1 of 15)	2500.0	NM_001357969	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	16.0	22.0	7.0	103.5	42.0	16.5	10.5	15.0
Merged-chr6-21958278-4	chr6	21958178	21958378	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 4 of 11)	intron (NM_001311061, intron 4 of 11)	8663.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	11.5	15.0	5.0	178.5	36.5	13.0	10.0	10.0
Merged-chr2-43556064-2	chr2	43555964	43556164	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289593, intron 1 of 12)	intron (NM_001289593, intron 1 of 12)	739.0	NM_027552	70789.0	Mm.105278	NM_027552	ENSMUSG00000026866	Kynu	4432411A05Rik	kynureninase (L-kynurenine hydrolase)	protein-coding	8.5	18.0	10.0	112.5	26.5	6.0	9.0	7.0
Merged-chr16-5473682-3	chr16	5473565	5473765	+	966.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-217709.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	13.0	17.5	22.0	214.0	22.5	4.5	5.0	19.5
Merged-chr7-63903863-4	chr7	63903765	63903965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-12992.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	44.0	58.5	54.0	667.5	71.5	29.0	40.0	35.0
Merged-chr6-89644551-4	chr6	89644450	89644650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153162, intron 1 of 15)	CpG	562.0	NM_001178059	232223.0	Mm.229332	NM_153162	ENSMUSG00000000811	Txnrd3	AI196535|TGR|TR2	thioredoxin reductase 3	protein-coding	153.5	260.0	188.5	2272.5	314.5	106.0	161.5	144.0
Merged-chr8-115070433-3	chr8	115070335	115070535	+	697.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 8 of 8)	intron (NM_019573, intron 8 of 8)	630783.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	4.5	8.0	8.0	192.5	16.5	7.0	6.0	12.5
Merged-chr11-121704249-5	chr11	121704207	121704407	+	816.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 1 of 3)	intron (NM_144797, intron 1 of 3)	1880.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	10.0	10.0	7.0	39.5	24.5	8.5	5.0	7.5
Merged-chr1-163930004-4	chr1	163929904	163930104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028776, exon 1 of 14)	5' UTR (NM_028776, exon 1 of 14)	239.0	NM_028776	240880.0	Mm.389213	NM_028776	ENSMUSG00000026584	Scyl3	1200016D23Rik|6030457O16|AW214499|Pace1	SCY1-like 3 (S. cerevisiae)	protein-coding	23.0	40.5	40.5	505.0	86.5	42.0	32.5	43.5
Merged-chr2-101766795-4	chr2	101766708	101766908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 3 of 8)	intron (NM_001355625, intron 3 of 8)	30899.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	51.5	44.5	56.0	971.0	125.5	38.5	59.0	34.5
Merged-chr16-76341887-4	chr16	76341783	76341983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358238, intron 2 of 3)	RMER15-int|LTR|ERVL	31166.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	67.5	108.5	46.0	969.0	206.0	68.0	78.5	48.0
Merged-chr16-38321583-4	chr16	38321490	38321690	+	796.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081025, intron 8 of 16)	intron (NM_001081025, intron 8 of 16)	20270.0	NM_001081025	320214.0	Mm.294342	NM_177104	ENSMUSG00000022805	Maats1	4932425I24Rik|Aat1|CFAP91|Spata26	MYCBP-associated, testis expressed 1	protein-coding	5.0	13.5	5.0	147.0	26.5	7.0	17.5	10.0
Merged-chr7-43310626-3	chr7	43310516	43310716	+	969.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027264, intron 2 of 4)	intron (NM_027264, intron 2 of 4)	2684.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	16.5	16.5	17.5	528.0	46.0	7.5	7.5	10.5
Merged-chr11-62847117-3	chr11	62847039	62847239	+	914.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291441)	promoter-TSS (NM_001291441)	16.0	NM_001291441	213980.0	Mm.482259	NM_001033669	ENSMUSG00000090173	Fbxw10	Fbw10|HREP|SM25H2|SM2SH2	F-box and WD-40 domain protein 10	protein-coding	7.0	6.5	1.5	73.0	27.5	7.5	8.0	11.0
Merged-chr5-145232759-4	chr5	145232658	145232858	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028298, intron 1 of 3)	intron (NM_028298, intron 1 of 3)	999.0	NM_028298	72611.0	Mm.206555	NM_028298	ENSMUSG00000007812	Zfp655	2700038I16Rik|9030409O18Rik|mKIAA4222	zinc finger protein 655	protein-coding	7.5	10.5	4.0	161.0	41.0	11.0	10.0	22.0
Merged-chr10-7725980-4	chr10	7725875	7726075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011835)	promoter-TSS (NM_011835)	-25.0	NM_011835	23924.0	Mm.28127	NM_011835	ENSMUSG00000019794	Katna1	-	katanin p60 (ATPase-containing) subunit A1	protein-coding	239.5	413.0	199.5	2289.0	580.5	222.5	196.0	173.0
Merged-chr1-120038809-4	chr1	120038704	120038904	+	978.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 5 of 13)	intron (NM_001012322, intron 5 of 13)	31824.0	NM_001012322	319229.0	Mm.189223	NM_001012322	ENSMUSG00000026387	Sctr	6530402O03Rik	secretin receptor	protein-coding	14.0	2.5	10.5	223.0	33.5	16.5	25.5	18.0
Merged-chr17-26252957-4	chr17	26252843	26253043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025881)	promoter-TSS (NM_025881)	33.0	NR_037905	66978.0	Mm.440216	NM_025881	ENSMUSG00000024188	Luc7l	1810045C04Rik|2410018D03Rik	Luc7-like	protein-coding	37.5	36.5	32.5	526.0	58.0	31.0	27.0	33.0
Merged-chr9-50499105-4	chr9	50499011	50499211	+	790.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029639, exon 2 of 4)	exon (NM_029639, exon 2 of 4)	4586.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	6.5	6.0	7.0	153.5	14.0	7.5	7.0	11.0
Merged-chr3-27859487-4	chr3	27859361	27859561	+	941.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36907.0	NM_001164437	208613.0	Mm.59189	NM_001164437	ENSMUSG00000043164	Tmem212	E030011K20Rik|Gm564	transmembrane protein 212	protein-coding	10.5	20.5	19.5	240.0	26.0	16.0	15.0	11.5
Merged-chr2-30965785-4	chr2	30965681	30965881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144884, intron 2 of 4)	URR1A|DNA|hAT-Charlie	2137.0	NM_144884	30931.0	Mm.154994	NM_144884	ENSMUSG00000026849	Tor1a	DQ2|Dyt1|torsinA	torsin family 1, member A (torsin A)	protein-coding	61.0	82.0	41.5	565.0	154.5	40.5	67.5	48.0
Merged-chr17-35829923-4	chr17	35829814	35830014	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008027, exon 9 of 13)	exon (NM_008027, exon 9 of 13)	6557.0	NM_008027	14251.0	Mm.2931	NM_008027	ENSMUSG00000059714	Flot1	reggie-2	flotillin 1	protein-coding	12.0	17.0	4.5	136.5	27.0	15.0	15.5	7.5
Merged-chr9-107771112-4	chr9	107770997	107771197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148930)	promoter-TSS (NM_148930)	-95.0	NM_001359525	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	151.5	205.5	126.0	1810.5	301.0	90.5	140.0	100.5
Merged-chr5-104955441-4	chr5	104955340	104955540	+	762.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030239, intron 10 of 15)	intron (NM_030239, intron 10 of 15)	27277.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	7.0	14.5	13.0	29.5	22.5	13.0	5.5	2.0
Merged-chr18-36471125-4	chr18	36471059	36471259	+	977.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-16664.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	10.0	50.0	17.0	259.0	52.0	23.5	15.5	19.0
Merged-chr12-73201813-4	chr12	73201721	73201921	+	970.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008612, intron 6 of 7)	intron (NM_008612, intron 6 of 7)	78104.0	NM_008612	17420.0	Mm.246750	NM_008612	ENSMUSG00000021103	Mnat1	E130115E11Rik|MAT1|P36	menage a trois 1	protein-coding	16.0	22.0	27.5	543.5	42.5	12.0	35.0	23.0
Merged-chr5-30998531-3	chr5	30998431	30998631	+	792.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	29854.0	NM_053085	69852.0	Mm.57874	NM_053085	ENSMUSG00000006642	Tcf23	2010002O16Rik|Out|bHLHa24	transcription factor 23	protein-coding	4.0	2.0	4.0	88.0	21.0	6.5	12.0	9.0
Merged-chr19-29816362-4	chr19	29816248	29816448	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3374.0	NM_177721	240614.0	Mm.125503	NM_177721	ENSMUSG00000074909	Ranbp6	C630001B19	RAN binding protein 6	protein-coding	22.0	29.5	14.5	463.5	38.5	15.0	19.0	22.0
Merged-chr7-45526296-4	chr7	45526198	45526398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148927)	promoter-TSS (NM_148927)	-30.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	189.5	374.5	239.0	2329.0	552.0	272.0	261.0	215.5
Merged-chr15-6441852-3	chr15	6441828	6442028	+	756.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-3405.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	16.0	11.5	6.0	49.0	7.0	10.5	0.0	8.0
Merged-chr5-99234632-4	chr5	99234524	99234724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145839, exon 5 of 14)	exon (NM_145839, exon 5 of 14)	18303.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	53.5	108.5	49.5	1169.5	152.5	75.0	79.5	51.0
Merged-chr17-63849748-4	chr17	63849633	63849833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-14248.0	NM_001037997	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	44.5	29.0	47.0	668.0	96.0	51.0	36.5	28.0
Merged-chr2-180273011-3	chr2	180272892	180273092	+	975.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145851, intron 1 of 9)	intron (NM_145851, intron 1 of 9)	473.0	NM_145851	252966.0	Mm.386884	NM_145851	ENSMUSG00000038990	Cables2	ik3-2	CDK5 and Abl enzyme substrate 2	protein-coding	8.5	12.0	10.5	167.5	22.0	5.5	13.5	2.5
Merged-chr1-183510950-4	chr1	183510844	183511044	+	949.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91696.0	NM_001308052	78772.0	Mm.29003	NM_030175	ENSMUSG00000053461	Hhipl2	4930507C10Rik|AW208802|Hhip3	hedgehog interacting protein-like 2	protein-coding	25.5	31.5	25.0	630.5	45.5	7.0	13.5	12.0
Merged-chr9-104339188-3	chr9	104339075	104339275	+	823.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-1453.0	NM_207668	56318.0	Mm.19941	NM_019807	ENSMUSG00000032561	Acpp	5'-NT|A030005E02Rik|FRAP|Lap|PAP|Ppal	acid phosphatase, prostate	protein-coding	13.0	13.0	18.5	211.0	12.0	7.0	10.0	14.0
Merged-chr14-47395848-3	chr14	47395744	47395944	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144553, exon 14 of 19)	exon (NM_144553, exon 14 of 19)	21984.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	26.5	54.0	53.5	706.5	13.0	0.0	1.5	4.5
Merged-chr14-70767698-4	chr14	70767593	70767793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR67B|LTR|ERVL	-1065.0	NM_023045	65246.0	Mm.152987	NM_023045	ENSMUSG00000022100	Xpo7	4930506C02Rik|BB164534|Ranbp16|exp7	exportin 7	protein-coding	33.0	39.0	19.5	553.5	77.5	41.0	44.0	32.0
Merged-chr12-75855340-3	chr12	75855247	75855447	+	755.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 2 of 115)	intron (NM_001005510, intron 2 of 115)	37029.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	5.0	5.0	6.5	108.5	11.5	2.0	8.5	12.0
Merged-chr1-154112653-1	chr1	154112553	154112753	+	797.333313	f0_balb.idr	Intergenic	MIR|SINE|MIR	-88534.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	10.0	9.5	7.5	166.0	10.5	5.0	0.0	3.0
Merged-chr14-54554431-4	chr14	54554328	54554528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145462)	promoter-TSS (NM_145462)	-67.0	NM_145462	219072.0	Mm.202152	NM_145462	ENSMUSG00000022177	Haus4	9430093H08Rik|AU016300|D14Ertd500e	HAUS augmin-like complex, subunit 4	protein-coding	44.0	67.0	32.0	776.5	196.0	50.0	89.5	92.5
Merged-chr8-33929949-6	chr8	33929895	33930095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286168)	promoter-TSS (NM_001286168)	-132.0	NM_001042675	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	18.5	38.0	27.0	233.0	84.0	38.0	30.0	47.5
Merged-chr8-83108754-1	chr8	83108654	83108854	+	567.0	f0_balb.idr	Intergenic	MTC|LTR|ERVL-MaLR	-56598.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	8.0	4.5	7.0	78.0	0.5	1.0	1.0	2.0
Merged-chr2-128714518-3	chr2	128714412	128714612	+	687.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	15597.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	10.0	13.5	11.0	205.5	17.5	4.5	11.5	18.5
Merged-chr6-34869671-4	chr6	34869565	34869765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197986, intron 1 of 1)	intron (NM_197986, intron 1 of 1)	6519.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	130.5	188.0	166.5	2348.5	270.5	123.0	123.0	91.0
Merged-chr4-53386427-4	chr4	53386304	53386504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR89|LTR|ERVL?	-54009.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	27.0	23.0	22.0	468.5	42.0	28.0	24.5	27.5
Merged-chr13-18779794-4	chr13	18779682	18779882	+	833.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 4 of 28)	MTC|LTR|ERVL-MaLR	62490.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	14.0	10.5	16.0	303.0	35.0	3.5	17.5	13.0
Merged-chr19-56722856-4	chr19	56722763	56722963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007419, exon 1 of 1)	exon (NM_007419, exon 1 of 1)	491.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	20.5	71.5	36.5	504.0	61.5	39.0	37.0	33.0
Merged-chr13-41019953-4	chr13	41019823	41020023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360770, intron 3 of 4)	intron (NM_001360770, intron 3 of 4)	3673.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	42.0	41.0	33.5	447.5	96.0	38.0	48.0	33.0
Merged-chr17-29435600-4	chr17	29435485	29435685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1N2|LTR|ERVL-MaLR	-55460.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	74.0	122.0	118.5	943.0	233.5	82.5	128.0	93.0
Merged-chr12-83922081-4	chr12	83922020	83922220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073563)	promoter-TSS (NR_073563)	-186.0	NR_073564	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	242.5	355.0	213.0	2871.0	534.0	293.0	280.0	250.5
Merged-chr19-3936618-4	chr19	3936512	3936712	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019449, intron 3 of 10)	intron (NM_019449, intron 3 of 10)	1426.0	NM_001161428	54445.0	Mm.262094	NM_019449	ENSMUSG00000036908	Unc93b1	Unc-93B1|Unc93b	unc-93 homolog B1 (C. elegans)	protein-coding	40.0	37.5	11.0	337.0	95.0	33.5	21.0	26.5
Merged-chr6-88435831-3	chr6	88435718	88435918	+	901.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023060, intron 1 of 6)	intron (NM_023060, intron 1 of 6)	10721.0	NM_023060	65967.0	Mm.333237	NM_023060	ENSMUSG00000033216	Eefsec	Selb|mSelB|sec	eukaryotic elongation factor, selenocysteine-tRNA-specific	protein-coding	7.0	12.0	10.5	118.5	15.0	7.0	8.5	6.0
Merged-chr6-122602898-5	chr6	122602840	122603040	+	914.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031159)	promoter-TSS (NM_031159)	-496.0	NM_001134391	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	2.0	8.5	3.5	83.5	17.0	7.5	8.5	19.0
Merged-chr1-136135210-4	chr1	136135098	136135298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	3808.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	151.5	222.5	200.0	2947.5	366.0	115.0	179.0	141.5
Merged-chr13-69809849-4	chr13	69809749	69809949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138596)	promoter-TSS (NM_138596)	-33.0	NM_138596	28077.0	Mm.52583	NM_138596	ENSMUSG00000021598	Med10	AA959813|AI385605|C78613|D13Wsu50e	mediator complex subunit 10	protein-coding	86.0	129.5	74.5	1293.0	201.5	76.5	106.0	66.0
Merged-chr1-177796111-4	chr1	177796004	177796204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007422, intron 1 of 12)	CpG	405.0	NM_007422	11566.0	Mm.338021	NM_007422	ENSMUSG00000015961	Adss	AI314886|AS|Adss2	adenylosuccinate synthetase, non muscle	protein-coding	31.5	56.5	59.0	274.5	125.5	49.0	40.5	28.5
Merged-chr4-43508814-4	chr4	43508724	43508924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013377)	promoter-TSS (NM_001013377)	-77.0	NM_001013377	230098.0	Mm.331567	NM_001013377	ENSMUSG00000051517	Arhgef39	E130306D19Rik	Rho guanine nucleotide exchange factor (GEF) 39	protein-coding	87.0	103.0	53.5	969.5	155.5	58.5	70.0	55.0
Merged-chr2-118554543-4	chr2	118554378	118554578	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4792.0	NM_138313	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	8.0	16.5	7.0	343.0	27.5	10.0	22.5	17.5
Merged-chr2-69790483-4	chr2	69790397	69790597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028521, intron 2 of 3)	intron (NM_028521, intron 2 of 3)	760.0	NM_028521	73373.0	Mm.9621	NM_028521	ENSMUSG00000027088	Phospho2	1700048E23Rik|AI661517|AU021728|AV006103|Phos2	phosphatase, orphan 2	protein-coding	37.0	67.0	38.0	585.0	118.5	65.5	61.0	49.0
Merged-chr8-117322139-4	chr8	117322001	117322201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-27069.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	33.0	42.0	42.5	756.5	96.5	33.0	54.0	60.0
Merged-chr3-103021509-1	chr3	103021409	103021609	+	1000.0	f0_c57.idr	intron (NM_001310693, intron 1 of 17)	intron (NM_001310693, intron 1 of 17)	963.0	NM_144901	229663.0	Mm.277713	NM_144901	ENSMUSG00000068823	Csde1	AA960392|BC016898|D3Jfr1|mKIAA0885|unr	cold shock domain containing E1, RNA binding	protein-coding	15.0	35.0	19.0	241.0	57.0	22.0	26.5	32.0
Merged-chr17-10985536-3	chr17	10985440	10985640	+	939.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	145181.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	12.5	9.5	5.0	162.0	7.5	2.5	4.0	7.0
Merged-chr2-145957568-1	chr2	145957468	145957668	+	721.666687	f1_c57bl6.idr	intron (NM_175280, intron 6 of 6)	intron (NM_175280, intron 6 of 6)	22784.0	NM_175280	78774.0	Mm.136347	NM_175280	ENSMUSG00000037143	Cfap61	4930529M08Rik|BB178539|BC024760	cilia and flagella associated protein 61	protein-coding	6.5	5.5	5.0	30.0	11.5	8.0	7.0	3.0
Merged-chr4-134767991-4	chr4	134767870	134768070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145554)	promoter-TSS (NM_145554)	34.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	38.0	49.5	36.5	340.5	100.0	28.0	34.5	44.5
Merged-chr17-31855167-3	chr17	31855059	31855259	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_010831, intron 1 of 13)	CpG-6228	645.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	7.5	3.5	2.0	95.5	19.0	7.5	8.0	16.0
Merged-chr16-20693273-4	chr16	20693155	20693355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001304432)	TTS (NM_001304432)	-1802.0	NM_133778	78408.0	Mm.196512	NM_133778	ENSMUSG00000050821	Fam131a	2900046G09Rik	family with sequence similarity 131, member A	protein-coding	50.5	105.0	46.0	813.5	151.0	55.5	69.0	51.5
Merged-chr19-36410281-3	chr19	36410199	36410399	+	790.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029508, intron 1 of 8)	CpG	31232.0	NM_029508	76073.0	Mm.259180	NM_029508	ENSMUSG00000024805	Pcgf5	0610009F02Rik|1110054A01Rik|5830406C17Rik|5830443C21Rik|9530023M17Rik|AI324127	polycomb group ring finger 5	protein-coding	7.5	8.0	6.0	131.0	17.0	11.0	11.5	5.5
Merged-chr8-61224059-4	chr8	61223970	61224170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021506)	promoter-TSS (NM_021506)	-101.0	NM_021506	59009.0	Mm.27949	NM_021506	ENSMUSG00000031642	Sh3rf1	2200003J05Rik|Posh|R75531|Sh3md2	SH3 domain containing ring finger 1	protein-coding	28.5	44.0	75.5	811.0	61.0	20.5	30.0	33.5
Merged-chr9-120492610-4	chr9	120492516	120492716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026892)	promoter-TSS (NM_026892)	10.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	29.5	46.5	25.5	572.0	126.0	43.5	66.5	38.5
Merged-chr15-81466220-4	chr15	81466126	81466326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019712)	promoter-TSS (NM_019712)	-90.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	158.5	268.0	137.5	1326.0	421.5	170.5	166.5	130.0
Merged-chr15-78876363-4	chr15	78876255	78876455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145929)	promoter-TSS (NM_145929)	-835.0	NM_145929	106039.0	Mm.251331	NM_145929	ENSMUSG00000033128	Gga1	4930406E12Rik|AU016030|AW209092	golgi associated, gamma adaptin ear containing, ARF binding protein 1	protein-coding	27.5	71.5	32.0	356.0	82.5	34.5	37.5	33.5
Merged-chr11-97280523-5	chr11	97280437	97280637	+	986.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008942)	promoter-TSS (NM_008942)	39.0	NM_008942	19155.0	Mm.29824	NM_008942	ENSMUSG00000001441	Npepps	AAP-S|MP100|Psa|R74825|goku	aminopeptidase puromycin sensitive	protein-coding	15.5	41.5	35.0	264.5	31.5	12.5	14.0	15.0
Merged-chr5-151368606-4	chr5	151368523	151368723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045699)	promoter-TSS (NR_045699)	-52.0	NR_045700	625175.0	Mm.443286	NR_045699	ENSMUSG00000097321	1700028E10Rik	A630054D14|Gm6561	RIKEN cDNA 1700028E10 gene	ncRNA	400.0	553.5	342.0	5328.0	946.5	415.0	494.0	404.0
Merged-chr10-77540858-4	chr10	77540764	77540964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 1 of 15)	intron (NM_008404, intron 1 of 15)	10516.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	30.0	31.0	45.0	827.0	50.5	19.5	34.5	22.5
Merged-chr5-74792482-3	chr5	74792385	74792585	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89582.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	60.5	53.5	80.5	848.0	5.0	2.0	5.0	7.0
Merged-chr4-117478294-3	chr4	117478177	117478377	+	955.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025739, intron 2 of 14)	intron (NM_025739, intron 2 of 14)	18775.0	NM_025739	66743.0	Mm.318331	NM_025739	ENSMUSG00000028677	Rnf220	4732477A13|4931406I20Rik|5730503K05Rik|AV302541	ring finger protein 220	protein-coding	11.5	20.0	15.5	225.5	23.5	7.0	4.0	4.5
Merged-chr14-76010901-4	chr14	76010823	76011023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026816)	promoter-TSS (NM_026816)	-58.0	NM_026816	68705.0	Mm.20415	NM_026816	ENSMUSG00000067995	Gtf2f2	1110031C13Rik|AI326315	general transcription factor IIF, polypeptide 2	protein-coding	67.5	93.5	52.0	931.0	164.5	86.5	61.5	53.5
Merged-chr5-148554893-4	chr5	148554778	148554978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2090.0	NM_001359199	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	16.5	48.5	49.5	502.5	112.0	50.0	57.0	42.0
Merged-chr1-164007767-3	chr1	164007701	164007901	+	824.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	12912.0	NM_001355132	69962.0	Mm.27284	NM_027279	ENSMUSG00000041396	Mettl18	2810422O20Rik|C78571	methyltransferase like 18	protein-coding	6.0	2.0	5.0	58.5	20.5	7.0	5.5	6.5
Merged-chr1-33964820-3	chr1	33964715	33964915	+	951.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 2 of 102)	intron (NM_001276764, intron 2 of 102)	-47010.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	11.0	18.0	10.5	202.0	19.0	3.5	9.0	6.5
Merged-chr4-135945907-4	chr4	135945795	135945995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008254)	promoter-TSS (NM_008254)	-553.0	NM_008254	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	90.5	104.5	73.0	1436.0	167.0	64.5	68.0	60.5
Merged-chr2-11713646-4	chr2	11713546	11713746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271499, intron 1 of 6)	RLTR17|LTR|ERVK	7934.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	29.5	40.0	23.5	294.0	117.0	44.5	52.5	33.5
Merged-chr17-24171944-4	chr17	24171837	24172037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2259.0	NM_001361531	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	64.5	139.0	60.5	854.0	311.5	114.0	122.0	121.5
Merged-chr5-99266508-4	chr5	99266407	99266607	+	952.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13580.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	19.5	17.0	10.0	145.5	110.5	19.0	18.0	17.0
Merged-chr10-88623711-3	chr10	88623609	88623809	+	907.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18557.0	NM_175418	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	8.5	16.0	21.0	315.5	27.5	7.5	8.0	10.0
Merged-chr4-130800727-4	chr4	130800634	130800834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	8197.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	60.5	96.5	79.5	1475.0	208.0	61.0	114.5	89.5
Merged-chr15-68260190-4	chr15	68260087	68260287	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1331.0	NM_198644	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	6.5	18.0	7.0	271.5	31.0	8.0	10.5	24.5
Merged-chr11-86807147-3	chr11	86807055	86807255	+	864.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026191, intron 1 of 17)	intron (NM_026191, intron 1 of 17)	505.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	2.5	14.5	3.5	82.0	13.0	6.5	6.0	12.0
Merged-chr16-43966504-2	chr16	43966404	43966604	+	997.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12546.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	4.5	5.0	8.5	40.5	4.5	1.5	3.0	1.5
Merged-chr17-73095256-4	chr17	73095157	73095357	+	984.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12728.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	18.0	31.5	29.0	491.5	38.5	14.5	27.0	19.0
Merged-chr11-94329679-4	chr11	94329566	94329766	+	707.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027799, intron 1 of 4)	intron (NM_027799, intron 1 of 4)	1665.0	NM_146024	71452.0	Mm.141054	NM_027799	ENSMUSG00000020864	Ankrd40	1110011C06Rik|5530600A18Rik|Gcap15	ankyrin repeat domain 40	protein-coding	20.0	17.5	8.5	102.5	14.0	8.0	4.0	13.0
Merged-chr1-36556149-4	chr1	36556037	36556237	+	889.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304329, intron 1 of 14)	intron (NM_001304329, intron 1 of 14)	1420.0	NM_001304330	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	12.0	21.5	22.5	143.0	19.5	15.0	20.0	15.0
Merged-chr17-47629014-3	chr17	47628890	47629090	+	854.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1700.0	NM_198421	224836.0	Mm.59393	NM_198421	ENSMUSG00000090115	Usp49	C330046L10Rik|Gm545	ubiquitin specific peptidase 49	protein-coding	5.0	12.5	10.5	93.0	34.5	12.0	14.5	14.0
Merged-chr2-71037710-4	chr2	71037601	71037801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	MLT1L|LTR|ERVL-MaLR	17905.0	NM_145524	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	42.0	43.5	40.0	721.0	80.0	27.5	26.5	35.5
Merged-chr2-152406267-4	chr2	152406165	152406365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8219.0	NM_011438	20667.0	Mm.28424	NM_011438	ENSMUSG00000051817	Sox12	2010205A02Rik	SRY (sex determining region Y)-box 12	protein-coding	121.5	163.5	123.0	1612.5	229.0	66.5	144.0	93.0
Merged-chr18-30088625-4	chr18	30088517	30088717	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-184248.0	NM_181414	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	90.0	117.0	120.5	1647.0	63.5	20.0	19.5	11.5
Merged-chr1-143956369-3	chr1	143956283	143956483	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47766.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	2.0	5.5	11.0	137.0	18.5	8.5	9.0	13.0
Merged-chr11-113173014-1	chr11	113172914	113173114	+	834.599976	f0_c57.idr	intron (NR_015556, intron 1 of 2)	intron (NR_015556, intron 1 of 2)	28824.0	NR_015556	72386.0	Mm.266961	NR_015556	ENSMUSG00000087259	2610035D17Rik	-	RIKEN cDNA 2610035D17 gene	ncRNA	0.0	0.0	0.0	0.0	46.5	10.0	16.5	26.0
Merged-chr4-140701319-4	chr4	140701243	140701443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173867)	promoter-TSS (NM_173867)	-130.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	43.5	40.0	30.5	371.0	109.5	35.5	51.5	26.5
Merged-chr7-16264676-1	chr7	16264576	16264776	+	636.0	f0_balb.idr	Intergenic	B3A|SINE|B2	-5136.0	NM_007577	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	3.5	12.0	12.0	154.0	15.0	7.5	6.0	7.0
Merged-chr1-183657297-4	chr1	183657178	183657378	+	855.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91699.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	6.0	12.0	6.0	165.5	26.0	9.0	11.0	18.5
Merged-chr2-103655274-4	chr2	103655149	103655349	+	831.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	88939.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	8.0	10.5	9.0	129.0	33.0	1.5	13.0	6.5
Merged-chr3-89281258-6	chr3	89281188	89281388	+	763.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162425)	promoter-TSS (NM_001162425)	-337.0	NM_001162425	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	16.0	12.0	4.5	93.5	15.0	4.0	4.5	14.5
Merged-chr10-99172256-4	chr10	99172150	99172350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	64115.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	70.5	74.0	154.5	2453.0	139.5	38.0	92.0	60.5
Merged-chr17-35425260-3	chr17	35425135	35425335	+	972.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023124, exon 2 of 5)	exon (NM_023124, exon 2 of 5)	358.0	NM_207648	110557.0	Mm.439827	NM_207648	ENSMUSG00000073409	H2-Q6	0610037M15Rik|H-2Q6|Qa-6|Qa6	histocompatibility 2, Q region locus 6	protein-coding	16.5	23.0	11.5	181.5	55.5	9.5	12.5	18.0
Merged-chr15-62041328-4	chr15	62041213	62041413	+	911.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	2056.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	12.0	11.5	7.0	203.5	33.0	21.5	17.0	8.5
Merged-chr2-6165988-4	chr2	6165908	6166108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27243.0	NR_040333	320132.0	Mm.445891	NR_040333	ENSMUSG00000087125	A230108P19Rik	-	RIKEN cDNA A230108P19 gene	ncRNA	36.0	55.0	33.5	708.0	77.0	26.0	28.0	61.5
Merged-chr9-78448668-2	chr9	78448568	78448768	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026658, intron 1 of 11)	CpG	458.0	NM_026658	68291.0	Mm.291779	NM_026658	ENSMUSG00000032342	Mto1	2310039H01Rik|5730419A02Rik	mitochondrial tRNA translation optimization 1	protein-coding	8.5	20.5	23.0	371.5	45.5	14.0	23.5	26.5
Merged-chr9-124125763-4	chr9	124125646	124125846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009917, exon 2 of 2)	3' UTR (NM_009917, exon 2 of 2)	4203.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	84.5	100.0	77.5	1170.0	204.5	69.5	117.5	92.0
Merged-chr6-124913441-4	chr6	124913351	124913551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026988)	TTS (NM_026988)	-1746.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	57.0	79.0	87.5	1844.5	134.0	48.0	58.0	77.5
Merged-chr1-37735031-4	chr1	37734939	37735139	+	908.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15228.0	NM_028096	72097.0	Mm.142607	NM_028096	ENSMUSG00000026090	2010300C02Rik	-	RIKEN cDNA 2010300C02 gene	protein-coding	16.0	28.0	9.0	246.5	28.5	17.0	19.0	19.0
Merged-chr17-44027465-3	chr17	44027376	44027576	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357742, intron 4 of 4)	intron (NM_001357742, intron 4 of 4)	-51326.0	NM_001168620	83965.0	Mm.30145	NM_032003	ENSMUSG00000023960	Enpp5	AW061004|D17Abb1e|E-NPP 5	ectonucleotide pyrophosphatase/phosphodiesterase 5	protein-coding	46.5	49.5	35.0	611.0	0.0	1.0	0.0	1.0
Merged-chr12-40543712-4	chr12	40543583	40543783	+	949.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	97630.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	16.0	18.5	5.0	206.5	52.0	24.0	11.5	13.0
Merged-chr4-35018532-3	chr4	35018444	35018644	+	671.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 2 of 3)	B1_Mur2|SINE|Alu	-107063.0	NR_040652	73696.0	Mm.1361	NR_040652	ENSMUSG00000085824	Platr9	2410114N07Rik	pluripotency associated transcript 9	ncRNA	11.0	8.0	7.0	99.0	1.5	3.0	5.0	4.5
Merged-chr12-117479911-4	chr12	117479852	117480052	+	893.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36527.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	8.5	16.5	10.0	133.0	28.5	7.5	11.0	10.5
Merged-chr2-165884006-3	chr2	165883938	165884138	+	883.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 1 of 11)	intron (NM_001252587, intron 1 of 11)	800.0	NM_001252584	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	5.5	7.5	4.5	66.5	20.0	5.5	7.5	13.0
Merged-chr10-99263161-4	chr10	99263057	99263257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026268)	promoter-TSS (NM_026268)	-74.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	294.5	357.0	317.0	4174.5	545.0	217.5	232.0	184.5
Merged-chr12-110698765-3	chr12	110698638	110698838	+	839.6333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2343.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	2.5	11.5	3.0	105.0	15.5	6.5	5.5	9.5
Merged-chr14-69853075-4	chr14	69852985	69853185	+	985.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 3 of 6)	intron (NM_028560, intron 3 of 6)	12678.0	NM_028526	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	21.0	31.5	10.5	260.0	79.5	16.5	31.0	21.5
Merged-chr6-91693664-4	chr6	91693566	91693766	+	942.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 1 of 14)	intron (NM_009320, intron 1 of 14)	9599.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	23.0	40.0	10.0	406.5	59.0	18.5	25.0	13.5
Merged-chr13-100833480-4	chr13	100833388	100833588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022885)	promoter-TSS (NM_022885)	-61.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	202.5	292.0	186.5	2981.5	534.0	232.5	239.5	167.5
Merged-chr11-114229454-2	chr11	114229354	114229554	+	984.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	31196.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	0.0	1.5	4.0	25.0	27.5	5.0	6.5	5.0
Merged-chr16-35754970-4	chr16	35754876	35755076	+	967.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	MTD|LTR|ERVL-MaLR	14380.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	4.0	22.5	18.0	220.5	58.5	25.0	19.5	13.0
Merged-chr6-97402723-4	chr6	97402643	97402843	+	882.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	intron (NM_145148, intron 5 of 23)	56543.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.0	15.0	16.5	245.0	23.5	11.0	7.5	10.5
Merged-chr10-9707203-4	chr10	9707058	9707258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22436.0	NR_038036	620417.0	Mm.378085	NR_038036	ENSMUSG00000111901	Gm6150	-	predicted gene 6150	ncRNA	129.5	176.5	118.5	2290.5	274.5	78.0	130.5	111.5
Merged-chr14-120277915-1	chr14	120277815	120278015	+	700.0	f0_balb.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	2246.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	9.0	13.5	4.5	135.5	14.0	6.0	8.0	10.5
Merged-chr11-96777687-4	chr11	96777585	96777785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163389)	promoter-TSS (NM_001163389)	-130.0	NM_001163389	74479.0	Mm.270781	NM_028965	ENSMUSG00000020876	Snx11	4933439F10Rik|A930041K09Rik|AI117694	sorting nexin 11	protein-coding	251.5	423.0	235.5	2971.0	641.0	232.0	233.0	226.0
Merged-chr14-46761384-3	chr14	46761278	46761478	+	988.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360041, intron 1 of 7)	intron (NM_001360041, intron 1 of 7)	837.0	NM_028222	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	6.5	2.0	2.0	70.0	58.5	16.5	34.5	45.0
Merged-chr11-63827629-6	chr11	63827541	63827741	+	945.4027710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94643.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	3.0	14.0	8.0	80.0	33.0	27.5	21.0	15.5
Merged-chr19-5723043-4	chr19	5722946	5723146	+	988.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 1 of 17)	intron (NM_001114595, intron 1 of 17)	3271.0	NM_001114595	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	32.0	47.0	17.0	256.5	107.5	24.5	39.0	30.0
Merged-chr6-38943220-3	chr6	38943111	38943311	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	ORR1D2|LTR|ERVL-MaLR	24225.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	12.0	13.0	4.5	36.0	6.0	3.5	5.5	5.0
Merged-chr6-42398469-4	chr6	42398391	42398591	+	743.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1747.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	11.0	10.5	15.5	419.0	24.5	5.5	9.0	21.5
Merged-chr18-62227773-4	chr18	62227698	62227898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47698.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	48.5	109.0	33.5	562.0	74.5	31.0	37.5	24.5
Merged-chr18-46621682-3	chr18	46621573	46621773	+	962.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23969.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	35.5	22.0	9.0	444.5	15.0	6.5	10.5	16.5
Merged-chr7-80202733-2	chr7	80202633	80202833	+	998.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	4292.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	6.5	4.5	5.0	115.0	8.5	2.5	5.5	5.0
Merged-chr6-145855869-4	chr6	145855763	145855963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9557.0	NM_024469	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	75.0	97.0	96.5	1012.5	120.5	36.5	42.0	73.5
Merged-chr11-72796153-4	chr11	72796056	72796256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045536)	promoter-TSS (NM_001045536)	-70.0	NM_001045536	195018.0	Mm.272030	NM_001045536	ENSMUSG00000055670	Zzef1	8430405D05Rik|BC051585|C130099L13Rik|C85424|NSPA|mKIAA0399	zinc finger, ZZ-type with EF hand domain 1	protein-coding	93.5	134.0	43.5	839.5	219.5	79.0	79.0	89.0
Merged-chr19-44930987-4	chr19	44930898	44931098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081225)	promoter-TSS (NM_001081225)	-121.0	NM_172638	226151.0	Mm.212609	NM_172638	ENSMUSG00000036097	Slf2	3632432H19|Fam178a	SMC5-SMC6 complex localization factor 2	protein-coding	207.0	317.5	172.0	2449.5	485.0	221.0	216.0	217.5
Merged-chr6-137560608-4	chr6	137560503	137560703	+	916.1875	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271588, intron 1 of 20)	intron (NM_001271588, intron 1 of 20)	10406.0	NM_001271595	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	7.5	7.0	8.0	65.0	6.5	5.5	1.0	6.5
Merged-chr6-29217857-4	chr6	29217770	29217970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1506.0	NM_001302934	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	42.5	45.0	57.0	611.5	81.5	26.0	36.5	41.0
Merged-chr11-75168932-8	chr11	75168809	75169009	+	986.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098203)	promoter-TSS (NM_001098203)	-757.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	8.0	29.5	27.5	181.0	49.0	16.0	21.0	35.5
Merged-chr12-44176553-3	chr12	44176467	44176667	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33501.0	NM_013760	27362.0	Mm.27432	NM_013760	ENSMUSG00000014905	Dnajb9	AA408011|AA673251|AA673481|AW556981|ERdj4|Mdg1|mDj7	DnaJ heat shock protein family (Hsp40) member B9	protein-coding	1.5	3.5	2.5	54.5	70.5	34.0	67.5	38.5
Merged-chr3-126831618-3	chr3	126831514	126831714	+	848.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 14 of 18)	intron (NM_001025438, intron 14 of 18)	111772.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	11.0	5.5	16.0	141.0	11.0	3.0	2.5	8.0
Merged-chr4-155066152-4	chr4	155066059	155066259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042407)	promoter-TSS (NM_001042407)	-871.0	NM_001042407	668173.0	Mm.133114	NM_001042407	ENSMUSG00000029047	Pex10	AV128229|Gm142	peroxisomal biogenesis factor 10	protein-coding	37.5	50.5	18.0	384.0	125.0	37.5	62.5	51.5
Merged-chr9-124037933-4	chr9	124037859	124038059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26B_MM|LTR|ERVK	15988.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	73.5	126.5	67.5	1500.0	140.5	71.0	115.5	74.0
Merged-chr9-123929082-5	chr9	123929000	123929200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39592.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	30.5	47.0	28.5	296.5	59.5	28.0	29.5	26.5
Merged-chr18-5806513-4	chr18	5806420	5806620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	213873.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	153.0	252.0	152.0	1713.5	267.5	98.0	118.5	71.5
Merged-chr2-127080125-4	chr2	127079994	127080194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 1 of 7)	MTD|LTR|ERVL-MaLR	9437.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	52.5	79.5	45.5	626.0	147.0	60.5	52.5	55.5
Merged-chr8-84811064-4	chr8	84810941	84811141	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10703.0	NM_001081982	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	54.0	60.0	23.5	559.0	117.0	48.5	31.5	25.5
Merged-chr2-126496464-4	chr2	126496350	126496550	+	885.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 1 of 27)	intron (NM_001359975, intron 1 of 27)	3397.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	11.0	20.0	10.5	210.5	29.0	0.0	8.0	15.0
Merged-chr18-67931906-3	chr18	67931799	67931999	+	657.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1274.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	5.5	4.5	6.0	129.0	5.0	1.0	3.0	13.5
Merged-chr15-76625670-3	chr15	76625574	76625774	+	765.888916	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	TTS (NM_183091)	TTS (NM_183091)	410.0	NM_025842	66914.0	Mm.30028	NM_025842	ENSMUSG00000115987	Vps28	1110014J03Rik|CIIA|D730005C08Rik	vacuolar protein sorting 28	protein-coding	16.5	8.0	6.0	54.5	20.5	10.0	16.0	17.0
Merged-chr8-83159124-4	chr8	83159020	83159220	+	856.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6232.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	16.0	31.0	10.0	217.0	19.0	4.5	13.0	7.5
Merged-chr10-118970776-4	chr10	118970647	118970847	+	861.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43604.0	NR_110482	216377.0	Mm.208936	NR_110482	ENSMUSG00000112854	Gm38403	C230029M16	predicted gene, 38403	ncRNA	8.0	42.5	12.5	75.5	31.5	11.5	11.5	13.0
Merged-chr11-55005161-4	chr11	55005084	55005284	+	905.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001110211, exon 9 of 25)	exon (NM_001110211, exon 9 of 25)	28287.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	18.0	20.0	5.0	196.5	42.0	11.5	9.0	12.0
Merged-chr13-119409310-8	chr13	119409149	119409349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008710)	promoter-TSS (NM_008710)	8.0	NM_001308506	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	44.0	53.5	61.0	509.0	89.5	45.5	39.0	42.0
Merged-chr17-28694889-4	chr17	28694782	28694982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	2314.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	53.5	93.0	42.0	473.5	140.0	56.0	41.5	28.0
Merged-chr1-84321593-4	chr1	84321500	84321700	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-36955.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	32.0	35.0	41.5	693.0	60.0	26.5	14.5	21.0
Merged-chr7-19800950-3	chr7	19800864	19801064	+	816.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4155.0	NM_023224	80794.0	Mm.81698	NM_023224	ENSMUSG00000040525	Cblc	2310076I21Rik|2310079L19Rik|Cbl3	Casitas B-lineage lymphoma c	protein-coding	15.5	19.5	4.5	112.0	25.0	20.0	3.5	5.0
Merged-chr6-122657913-4	chr6	122657800	122658000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31476.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	182.5	249.0	174.5	2594.0	362.5	145.5	171.0	188.5
Merged-chr4-129060130-4	chr4	129060032	129060232	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	1861.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	15.0	35.0	10.0	276.5	85.0	18.0	20.5	11.0
Merged-chr17-57279129-4	chr17	57279028	57279228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011691)	promoter-TSS (NM_011691)	28.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	67.0	70.5	73.5	853.5	184.5	52.5	68.0	48.5
Merged-chr8-22934619-4	chr8	22934507	22934707	+	837.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 16 of 17)	intron (NM_001081149, intron 16 of 17)	-40229.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	23.0	28.0	26.5	429.5	20.0	6.5	9.0	21.0
Merged-chr6-37396310-2	chr6	37396210	37396410	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	intron (NM_178661, intron 1 of 11)	45838.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	4.5	3.0	6.5	180.0	22.0	8.0	13.0	14.5
Merged-chr11-94687380-4	chr11	94687276	94687476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9883.0	NM_145828	217119.0	Mm.100638	NM_145828	ENSMUSG00000020868	Xylt2	E030002B02Rik|XT-II|XT2|xylT-II	xylosyltransferase II	protein-coding	71.0	116.0	67.5	1197.0	126.0	35.5	70.0	48.0
Merged-chr1-64919519-4	chr1	64919461	64919661	+	866.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 3 of 7)	intron (NM_001039493, intron 3 of 7)	37263.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	10.0	6.5	15.0	218.0	19.5	7.5	11.0	11.5
Merged-chr10-60741699-3	chr10	60741599	60741799	+	796.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	intron (NM_023596, intron 2 of 5)	11083.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	17.0	15.0	9.5	91.0	10.5	9.0	12.0	4.0
Merged-chr13-10540366-4	chr13	10540260	10540460	+	655.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42-int|LTR|ERVK	-179557.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	9.0	18.5	4.0	90.0	19.0	8.0	10.0	13.0
Merged-chr18-20713615-4	chr18	20713503	20713703	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 3 of 8)	intron (NM_019737, intron 3 of 8)	32801.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	28.5	49.0	29.5	588.0	74.5	14.5	30.0	38.0
Merged-chr9-53536813-4	chr9	53536727	53536927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007499)	promoter-TSS (NM_007499)	-156.0	NM_007499	11920.0	Mm.5088	NM_007499	ENSMUSG00000034218	Atm	AI256621|C030026E19Rik	ataxia telangiectasia mutated	protein-coding	403.0	610.0	456.5	6182.5	963.0	408.5	489.5	394.0
Merged-chr10-84774819-4	chr10	84774716	84774916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024918, intron 1 of 17)	intron (NM_001024918, intron 1 of 17)	18768.0	NM_001024918	71137.0	Mm.79070	NM_027689	ENSMUSG00000020037	Rfx4	4933412G19Rik|NYD-sp10	regulatory factor X, 4 (influences HLA class II expression)	protein-coding	86.5	120.5	97.0	1708.5	213.5	63.5	112.5	91.0
Merged-chr2-166979251-4	chr2	166979131	166979331	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	RSINE1|SINE|B4	-14514.0	NR_111895	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	23.5	42.5	32.5	182.5	40.5	12.0	23.5	19.0
Merged-chr17-67260638-3	chr17	67260541	67260741	+	884.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	93818.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	7.0	5.5	6.0	33.0	39.0	2.5	12.0	9.0
Merged-chr16-19733122-3	chr16	19733021	19733221	+	771.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26756.0	NM_177356	239739.0	Mm.258059	NM_177356	ENSMUSG00000041247	Lamp3	1200002D17Rik|Cd208|DC-LAMP|DCLAMP|LAMP|TSC403	lysosomal-associated membrane protein 3	protein-coding	10.0	7.0	5.5	115.0	17.0	3.5	11.0	9.5
Merged-chr16-95893903-2	chr16	95893803	95894003	+	775.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_040484, intron 1 of 3)	MTE2b|LTR|ERVL-MaLR	4810.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	4.0	10.0	8.0	188.5	18.5	6.0	10.5	7.5
Merged-chr3-96759871-4	chr3	96759774	96759974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026406, intron 3 of 8)	intron (NM_026406, intron 3 of 8)	32263.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	43.5	75.5	66.0	765.0	85.0	38.0	35.5	34.5
Merged-chr10-117866336-4	chr10	117866229	117866429	+	963.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20355.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	28.5	30.5	14.0	304.5	86.5	14.5	28.0	39.5
Merged-chr13-101844231-4	chr13	101844125	101844325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76008.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	43.5	50.0	56.5	852.0	108.5	46.5	46.0	51.5
Merged-chr13-24762011-4	chr13	24761911	24762111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020567)	promoter-TSS (NM_020567)	-74.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	86.0	88.5	63.0	1197.0	163.5	60.0	73.0	70.5
Merged-chr10-60348129-4	chr10	60348032	60348232	+	895.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 1 of 6)	intron (NM_028732, intron 1 of 6)	1281.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	16.5	7.0	18.0	174.0	30.5	9.5	15.0	12.5
Merged-chr13-56758691-4	chr13	56758582	56758782	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55014.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	12.5	23.0	12.5	132.0	21.0	1.5	14.5	9.5
Merged-chr11-68853170-4	chr11	68853057	68853257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023668)	promoter-TSS (NM_023668)	-26.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	230.0	390.0	191.0	2137.0	517.5	202.5	204.5	184.5
Merged-chr2-122244024-3	chr2	122243931	122244131	+	838.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146126, intron 1 of 8)	intron (NM_146126, intron 1 of 8)	9192.0	NM_146126	20322.0	Mm.371580	NM_146126	ENSMUSG00000027227	Sord	Sdh-1|Sdh1|Sodh-1	sorbitol dehydrogenase	protein-coding	6.0	11.0	9.0	49.5	19.5	7.5	9.5	11.0
Merged-chr18-57879464-3	chr18	57879406	57879606	+	740.2023929999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009194, exon 1 of 27)	exon (NM_009194, exon 1 of 27)	828.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	6.0	11.0	15.5	78.0	9.5	4.5	7.5	10.0
Merged-chr5-96912323-5	chr5	96912170	96912370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-9002.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	12.0	5.5	9.0	66.5	116.0	27.0	46.5	41.5
Merged-chr7-123084978-4	chr7	123084879	123085079	+	760.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38906.0	NM_144925	233833.0	Mm.102305	NM_144925	ENSMUSG00000052707	Tnrc6a	2010321I05Rik|3110054G10Rik|AW557223|CAGH26|D130023A07Rik|GW182|Tnrc6	trinucleotide repeat containing 6a	protein-coding	9.5	16.0	2.0	116.0	27.0	10.5	18.5	15.5
Merged-chr6-134205329-4	chr6	134205229	134205429	+	829.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	169629.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	22.0	21.0	16.5	342.5	22.5	8.0	14.0	8.0
Merged-chr2-158028455-7	chr2	158028385	158028585	+	969.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291136)	promoter-TSS (NM_001291136)	-12.0	NM_001291134	70470.0	Mm.290810	NM_027434	ENSMUSG00000027651	Rprd1b	2610304G08Rik|2810446G03Rik|Crept	regulation of nuclear pre-mRNA domain containing 1B	protein-coding	25.0	33.0	15.0	278.0	76.5	34.5	21.0	40.0
Merged-chr1-35890687-4	chr1	35890586	35890786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177714.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	42.5	89.0	112.5	1461.0	182.0	54.5	112.5	75.0
Merged-chr5-105356583-4	chr5	105356481	105356681	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10105.0	NR_132129	634650.0	Mm.458435	NM_001039647	ENSMUSG00000092021	Gbp11	EG634650|Gm7141	guanylate binding protein 11	protein-coding	27.5	55.5	39.0	247.0	87.0	30.0	22.0	36.5
Merged-chr2-145830213-4	chr2	145830098	145830298	+	869.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	44082.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	11.5	11.5	27.5	333.5	22.5	11.5	6.5	24.0
Merged-chr14-122261444-4	chr14	122261354	122261554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029556, intron 1 of 7)	intron (NM_029556, intron 1 of 7)	-27816.0	NR_015532	68245.0	Mm.443285	NR_015532	ENSMUSG00000100585	1700108J01Rik	-	RIKEN cDNA 1700108J01 gene	ncRNA	54.0	74.5	103.0	1831.0	144.5	35.5	84.0	73.0
Merged-chr3-90084080-4	chr3	90083987	90084187	+	949.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357581, intron 1 of 8)	intron (NM_001357581, intron 1 of 8)	4566.0	NM_001293749	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	52.0	64.0	46.0	747.0	39.5	13.0	14.5	19.0
Merged-chr5-5213623-4	chr5	5213526	5213726	+	909.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 4 of 14)	intron (NM_011074, intron 4 of 14)	52442.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	7.5	15.0	16.0	251.0	42.0	9.0	22.0	16.0
Merged-chr9-16046873-4	chr9	16046811	16047011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 3 of 24)	intron (NM_001080814, intron 3 of 24)	-172355.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	80.0	103.0	132.5	1643.0	105.0	53.0	48.5	55.0
Merged-chr19-17251574-3	chr19	17251450	17251650	+	639.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	87955.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	4.0	6.5	5.5	131.5	18.0	9.0	10.0	8.5
Merged-chr8-46672925-4	chr8	46672809	46673009	+	971.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55618.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	20.0	19.5	18.0	245.5	55.0	9.0	23.0	19.5
Merged-chr5-150522645-4	chr5	150522565	150522765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009765)	promoter-TSS (NM_009765)	44.0	NM_001081001	12190.0	Mm.236256	NM_009765	ENSMUSG00000041147	Brca2	Fancd1|RAB163	breast cancer 2, early onset	protein-coding	68.0	132.5	60.0	1366.0	155.0	49.0	83.0	53.5
Merged-chr9-65001635-3	chr9	65001534	65001734	+	812.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021345, intron 5 of 10)	intron (NM_021345, intron 5 of 10)	20083.0	NM_021345	57874.0	Mm.308180	NM_021345	ENSMUSG00000033629	Hacd3	4930523M17Rik|AW742319|B-ind1|Hcad3|Hspc121|Ptplad1	3-hydroxyacyl-CoA dehydratase 3	protein-coding	5.5	11.0	7.5	140.0	15.0	3.0	6.5	7.0
Merged-chr18-20810397-2	chr18	20810297	20810497	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-63993.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	5.0	11.5	12.5	104.5	36.5	9.5	9.5	12.5
Merged-chr5-4104517-4	chr5	4104415	4104615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020010, exon 1 of 10)	5' UTR (NM_020010, exon 1 of 10)	182.0	NM_020010	13121.0	Mm.140158	NM_020010	ENSMUSG00000001467	Cyp51	AI426508|CYPLI|Cyp51a1|Ldm|P450-14DM|P450LI	cytochrome P450, family 51	protein-coding	118.0	155.0	107.5	2380.5	350.0	131.5	172.5	138.0
Merged-chr6-51544571-4	chr6	51544432	51544632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127348)	promoter-TSS (NM_001127348)	9.0	NM_001127348	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	100.5	186.0	88.0	1219.5	290.5	102.5	94.5	67.0
Merged-chr13-32801045-4	chr13	32800947	32801147	+	931.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030215)	promoter-TSS (NM_030215)	-983.0	NM_030215	78903.0	Mm.286680	NM_030215	ENSMUSG00000021400	Wrnip1	4833444L21Rik|WHIP|Wrnip	Werner helicase interacting protein 1	protein-coding	19.0	21.0	16.0	236.5	52.0	22.5	28.0	12.0
Merged-chr5-16424924-1	chr5	16424824	16425024	+	542.0	f0_balb.idr	Intergenic	RMER13B|LTR|ERVK	-128571.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	3.0	8.5	15.0	68.5	5.0	5.5	6.0	6.0
Merged-chr12-32111782-4	chr12	32111691	32111891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50512.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	53.5	58.0	41.5	823.5	150.0	42.5	60.0	60.5
Merged-chr17-29380725-6	chr17	29380586	29380786	+	962.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	19772.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	13.0	12.5	23.5	261.0	41.0	21.0	12.5	14.5
Merged-chr19-25139518-2	chr19	25139419	25139619	+	873.5499880000001	f0_c57.idr|f1_c57bl6.idr	intron (NM_028785, intron 23 of 47)	intron (NM_028785, intron 23 of 47)	-97456.0	NM_181404	107351.0	Mm.260722	NM_181404	ENSMUSG00000032702	Kank1	A930031B09Rik|AU015049|AW121052|Ankrd15|D330024H06Rik|mKIAA0172	KN motif and ankyrin repeat domains 1	protein-coding	5.0	7.5	6.0	46.0	61.0	29.0	27.5	13.5
Merged-chr2-84638653-4	chr2	84638555	84638755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007615, intron 1 of 19)	intron (NM_007615, intron 1 of 19)	10825.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	40.5	61.0	53.5	563.5	92.0	31.0	34.0	40.5
Merged-chr6-101552350-4	chr6	101552248	101552448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-174451.0	NM_018884	55983.0	Mm.321654	NM_018884	ENSMUSG00000035357	Pdzrn3	1110020C07Rik|AI429718|AL023082|LNX3|SEMACAP3|Semcap3	PDZ domain containing RING finger 3	protein-coding	20.5	39.0	34.0	321.5	59.0	33.5	34.0	23.0
Merged-chr18-50229390-2	chr18	50229290	50229490	+	862.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48979.0	NM_001004061	225497.0	Mm.329435	NM_001004061	ENSMUSG00000035420	Fam170a	Gm93|Znfd	family with sequence similarity 170, member A	protein-coding	5.0	27.5	6.5	74.0	9.0	5.5	6.0	1.5
Merged-chr15-38302417-4	chr15	38302321	38302521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1710.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	28.0	25.5	40.0	456.5	47.0	20.5	25.0	25.0
Merged-chr15-95802953-4	chr15	95802840	95803040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	12097.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	31.0	71.5	31.5	545.0	96.0	37.0	28.5	31.5
Merged-chr4-116719600-4	chr4	116719512	116719712	+	796.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1343.0	NM_146151	230661.0	Mm.482431	NM_146151	ENSMUSG00000033985	Tesk2	-	testis-specific kinase 2	protein-coding	17.0	20.5	4.5	143.5	46.0	10.0	15.5	12.0
Merged-chr15-72818819-2	chr15	72818719	72818919	+	630.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	intron (NM_001164641, intron 17 of 17)	-8495.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	5.5	6.0	4.5	140.5	14.0	9.0	5.0	13.5
Merged-chr19-42110732-3	chr19	42110626	42110826	+	957.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145501, intron 4 of 8)	L1MC4|LINE|L1	18267.0	NM_027106	69534.0	Mm.30060	NM_027106	ENSMUSG00000018821	Avpi1	2310008N12Rik|AA410041|VIT32|esu|mVIT32	arginine vasopressin-induced 1	protein-coding	21.5	39.5	14.5	245.0	18.0	8.5	5.5	15.0
Merged-chr2-59177463-4	chr2	59177324	59177524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	16574.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	20.5	21.5	26.5	411.0	45.0	18.0	18.0	18.0
Merged-chr11-74649351-4	chr11	74649254	74649454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081158)	promoter-TSS (NM_001081158)	-141.0	NM_001081158	74148.0	Mm.214574	NM_001081158	ENSMUSG00000020741	Cluh	1300001I01Rik|Kiaa0664|mKIAA0664	clustered mitochondria (cluA/CLU1) homolog	protein-coding	164.5	264.0	150.5	2022.5	370.0	165.5	159.5	179.0
Merged-chr8-72320292-4	chr8	72320184	72320384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008452, intron 2 of 2)	PB1D7|SINE|Alu	1222.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	43.5	54.0	29.5	254.0	108.0	54.0	55.5	47.5
Merged-chr7-81862101-3	chr7	81861987	81862187	+	952.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291282)	promoter-TSS (NM_001291282)	-600.0	NM_001291282	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	14.0	15.5	9.0	227.0	11.0	10.0	8.5	7.0
Merged-chr5-120578902-3	chr5	120578787	120578987	+	902.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145853, intron 2 of 27)	intron (NM_145853, intron 2 of 27)	9726.0	NM_145853	252972.0	Mm.114054	NM_145853	ENSMUSG00000032741	Tpcn1	5730403B01Rik|Tpc1|mKIAA1169	two pore channel 1	protein-coding	13.0	8.5	5.5	137.0	16.0	7.5	6.0	12.5
Merged-chr9-94433640-4	chr9	94433533	94433733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	104448.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	82.0	103.0	66.0	1465.5	210.5	89.5	95.0	93.5
Merged-chr2-32882801-4	chr2	32882674	32882874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146119, intron 1 of 13)	intron (NM_146119, intron 1 of 13)	6640.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	99.5	164.5	77.0	1069.0	184.5	72.0	72.5	69.5
Merged-chr2-23571945-5	chr2	23571814	23572014	+	988.980957	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001165997, exon 1 of 12)	5' UTR (NM_001165997, exon 1 of 12)	190.0	NM_029773	76857.0	Mm.276415	NM_029773	ENSMUSG00000026771	Spopl	4921517N04Rik|AU014935|BB233739|E430033K04Rik	speckle-type POZ protein-like	protein-coding	13.5	10.0	17.5	180.0	22.5	11.0	13.5	16.0
Merged-chr1-184626599-3	chr1	184626503	184626703	+	883.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-68912.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	17.5	8.0	14.0	467.0	15.5	5.0	8.5	7.5
Merged-chr12-28733418-3	chr12	28733256	28733456	+	892.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161410, intron 3 of 11)	B1_Mm|SINE|Alu	17038.0	NM_001161410	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	2.0	22.5	5.5	11.0	24.0	11.0	15.0	5.0
Merged-chr11-4661587-4	chr11	4661509	4661709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029291, intron 8 of 19)	intron (NM_029291, intron 8 of 19)	23816.0	NM_029291	75452.0	Mm.439906	NM_029291	ENSMUSG00000020412	Ascc2	1700011I11Rik|2610034L15Rik|AI482016|ASC1p100|AW046480	activating signal cointegrator 1 complex subunit 2	protein-coding	54.0	71.5	61.5	876.5	176.0	38.0	57.0	78.0
Merged-chr18-84851280-4	chr18	84851175	84851375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025797)	promoter-TSS (NM_025797)	-63.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	326.0	474.0	345.0	5925.5	776.0	301.5	432.0	291.5
Merged-chr12-24708189-4	chr12	24708088	24708288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009104)	promoter-TSS (NM_009104)	-66.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	54.0	70.0	47.0	800.0	168.5	58.5	64.5	58.5
Merged-chr15-81810975-4	chr15	81810888	81811088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017376)	promoter-TSS (NM_017376)	-426.0	NM_017376	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	129.5	195.5	130.0	1512.0	387.5	154.0	149.0	137.0
Merged-chr4-13281593-4	chr4	13281514	13281714	+	786.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	374777.0	NM_001171801	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	9.0	19.0	20.5	130.0	9.5	5.0	2.5	8.5
Merged-chr8-94381394-3	chr8	94381293	94381493	+	696.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-5036.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	5.0	12.0	8.5	90.5	11.0	3.5	10.5	4.5
Merged-chr6-35252624-4	chr6	35252506	35252706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015608)	promoter-TSS (NR_015608)	-93.0	NR_015608	67705.0	Mm.228046	NR_015608	ENSMUSG00000073155	1810058I24Rik	AI414869|AI848234	RIKEN cDNA 1810058I24 gene	ncRNA	72.0	111.0	75.0	1020.0	239.0	79.0	101.5	78.0
Merged-chr12-65075538-4	chr12	65075452	65075652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178912)	promoter-TSS (NM_178912)	-54.0	NM_178912	104806.0	Mm.374847	NM_178912	ENSMUSG00000055884	Fancm	AI427100|C730036B14Rik|D12Ertd364e	Fanconi anemia, complementation group M	protein-coding	122.0	214.0	124.5	2442.5	401.0	125.0	137.0	127.0
Merged-chr3-81126893-4	chr3	81126798	81126998	+	956.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	90482.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	21.0	18.0	29.0	556.0	35.5	17.5	23.0	13.5
Merged-chr16-56716235-2	chr16	56716135	56716335	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357126, intron 1 of 8)	B1_Mus2|SINE|Alu	1215.0	NM_001357124	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	7.5	6.5	7.0	58.0	18.0	7.0	10.5	6.5
Merged-chr6-54811799-4	chr6	54811692	54811892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5124.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	34.5	59.5	30.5	914.0	71.0	21.5	36.0	50.0
Merged-chr17-65786418-4	chr17	65786320	65786520	+	867.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152099, intron 2 of 20)	intron (NR_152099, intron 2 of 20)	3065.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	15.0	16.5	10.0	243.5	27.0	8.5	21.0	16.0
Merged-chr17-86972052-4	chr17	86971972	86972172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	8961.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	113.0	109.0	85.5	1524.0	204.0	74.5	74.5	58.5
Merged-chr11-117320618-4	chr11	117320494	117320694	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-11121.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	14.5	19.5	13.5	250.5	27.0	4.5	10.5	22.0
Merged-chr1-93507170-3	chr1	93507049	93507249	+	883.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159719, intron 12 of 12)	intron (NM_001159719, intron 12 of 12)	-4955.0	NM_145519	227377.0	Mm.243091	NM_145519	ENSMUSG00000034066	Farp2	AI465173|BC009153|D030026M03Rik|Fir|mKIAA0793	FERM, RhoGEF and pleckstrin domain protein 2	protein-coding	8.0	9.0	7.5	170.5	16.5	8.0	2.0	3.5
Merged-chr11-90247983-4	chr11	90247878	90248078	+	822.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1498.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	7.5	10.0	3.0	96.5	33.5	5.5	11.0	7.5
Merged-chr1-155054874-4	chr1	155054831	155055031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(G)n|Simple_repeat|Simple_repeat	28333.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	53.0	55.0	21.5	833.0	124.0	41.5	57.0	44.0
Merged-chr2-32260833-4	chr2	32260710	32260910	+	879.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011675)	promoter-TSS (NM_011675)	-705.0	NM_011675	22245.0	Mm.425076	NM_011675	ENSMUSG00000002550	Uck1	URK1|Umpk	uridine-cytidine kinase 1	protein-coding	16.5	24.0	3.0	119.0	29.5	16.5	12.5	18.5
Merged-chr11-69995068-4	chr11	69994963	69995163	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291125)	promoter-TSS (NM_001291125)	-703.0	NM_001291125	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	18.0	21.0	7.5	266.0	68.5	19.5	15.5	22.5
Merged-chr14-61757281-4	chr14	61757187	61757387	+	929.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74914.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	21.0	33.5	9.5	162.5	73.5	9.5	17.0	22.0
Merged-chr7-67422026-4	chr7	67421927	67422127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49169.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	15.0	33.5	30.0	367.0	44.0	17.5	28.5	8.0
Merged-chr15-78802985-4	chr15	78802873	78803073	+	903.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130859)	promoter-TSS (NM_130859)	69.0	NM_130859	105844.0	Mm.17629	NM_130859	ENSMUSG00000033170	Card10	AI449026|Bimp1|Carma3	caspase recruitment domain family, member 10	protein-coding	28.0	38.5	18.5	295.0	81.5	25.0	24.5	13.0
Merged-chr14-57399039-4	chr14	57398952	57399152	+	982.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030004)	promoter-TSS (NM_030004)	-569.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	30.5	23.5	32.5	345.0	50.0	25.5	24.0	15.0
Merged-chr7-109629003-4	chr7	109628909	109629109	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11862.0	NM_029811	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	10.0	15.5	13.5	175.5	42.0	7.5	18.5	14.5
Merged-chr4-98436988-4	chr4	98436894	98437094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005784, intron 11 of 19)	intron (NM_001005784, intron 11 of 19)	25967.0	NM_001355177	12695.0	Mm.90218	NM_007704	ENSMUSG00000061859	Patj	Cipp|Inadl	PATJ, crumbs cell polarity complex component	protein-coding	33.5	34.5	40.0	324.5	78.0	30.0	31.0	24.5
Merged-chr1-58802522-4	chr1	58802413	58802613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080126)	promoter-TSS (NM_001080126)	11.0	NM_001277926	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	93.0	122.5	75.0	1517.5	200.5	70.5	115.0	96.5
Merged-chr7-30353590-4	chr7	30353527	30353727	+	846.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9145.0	NM_175478	233067.0	Mm.23157	NM_175478	ENSMUSG00000036957	Lrfn3	A530045B06Rik|SALM4	leucine rich repeat and fibronectin type III domain containing 3	protein-coding	28.5	29.5	10.5	292.5	21.0	8.0	6.5	7.5
Merged-chr10-6694651-4	chr10	6694568	6694768	+	935.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63925.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	9.5	14.5	6.5	215.5	51.0	18.5	15.5	16.5
Merged-chr13-75707992-4	chr13	75707851	75708051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138953, intron 1 of 11)	CpG	467.0	NM_138953	192657.0	Mm.21288	NM_138953	ENSMUSG00000001542	Ell2	-	elongation factor RNA polymerase II 2	protein-coding	58.5	136.0	69.5	645.0	176.5	79.0	79.0	53.5
Merged-chr11-73030999-4	chr11	73030916	73031116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018883, intron 9 of 15)	intron (NM_018883, intron 9 of 15)	12008.0	NM_018883	55984.0	Mm.9998	NM_018883	ENSMUSG00000020785	Camkk1	AI846603|CaMKKalpha|Camkk	calcium/calmodulin-dependent protein kinase kinase 1, alpha	protein-coding	50.0	33.5	19.5	522.5	69.0	24.0	23.5	32.0
Merged-chr7-101321501-4	chr7	101321382	101321582	+	725.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019990, intron 1 of 6)	CpG	369.0	NM_019990	56018.0	Mm.28896	NM_019990	ENSMUSG00000030688	Stard10	AV048538|CGI-52|NY-C0-28|PC-TP2|PCTP2|Pctpl|Sdccag28|SdccagG28|TISP-81	START domain containing 10	protein-coding	9.0	8.0	6.0	94.5	17.5	6.5	8.0	7.0
Merged-chr5-120907005-4	chr5	120906929	120907129	+	664.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145211, intron 1 of 6)	MIR3|SINE|MIR	496.0	NM_145211	246730.0	Mm.14301	NM_145211	ENSMUSG00000052776	Oas1a	L3	2'-5' oligoadenylate synthetase 1A	protein-coding	7.5	18.0	6.5	76.0	13.5	12.0	7.0	11.0
Merged-chr19-7494906-1	chr19	7494806	7495006	+	1000.0	f0_c57.idr	intron (NM_146091, intron 1 of 12)	CpG	468.0	NM_146091	109168.0	Mm.264016	NM_146091	ENSMUSG00000024759	Atl3	4633402C03Rik|5730596K20Rik|AI465397|AW228836	atlastin GTPase 3	protein-coding	8.0	23.5	13.0	157.0	27.5	16.0	24.5	16.5
Merged-chr19-45056475-4	chr19	45056371	45056571	+	918.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001178013)	TTS (NM_001178013)	8895.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	15.5	17.5	14.0	306.5	25.5	5.5	15.0	17.5
Merged-chr14-105923028-3	chr14	105922925	105923125	+	977.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26206.0	NM_011897	24064.0	Mm.89982	NM_011897	ENSMUSG00000022114	Spry2	sprouty2	sprouty RTK signaling antagonist 2	protein-coding	10.5	28.0	18.0	190.5	5.5	3.5	11.5	15.0
Merged-chr17-70818071-4	chr17	70817972	70818172	+	886.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347414, exon 11 of 11)	exon (NM_001347414, exon 11 of 11)	28705.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	8.5	24.0	21.5	133.5	23.5	6.0	11.0	15.0
Merged-chr17-42943616-4	chr17	42943506	42943706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67182.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	24.0	53.0	28.0	487.5	110.0	39.0	42.0	38.0
Merged-chr9-37041229-3	chr9	37041133	37041333	+	827.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 2 of 12)	L2c|LINE|L2	106089.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	6.0	8.0	18.0	231.0	2.0	0.0	0.0	0.5
Merged-chr14-48459506-2	chr14	48459417	48459617	+	745.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001310584, intron 4 of 16)	intron (NM_001310584, intron 4 of 16)	13165.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	6.5	10.0	10.0	125.0	6.5	3.0	4.5	3.0
Merged-chr2-72260879-4	chr2	72260732	72260932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-24805.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	178.5	249.5	211.0	2817.0	364.5	155.0	230.0	156.0
Merged-chr6-142698154-4	chr6	142698063	142698263	+	865.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001044720, intron 2 of 39)	intron (NM_001044720, intron 2 of 39)	4111.0	NM_021041	20928.0	Mm.35670	NM_011511	ENSMUSG00000030249	Abcc9	AI414027|AI449286|SUR2A|SUR2B|Sur2	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	protein-coding	9.0	5.5	24.0	281.5	34.0	10.0	15.5	21.5
Merged-chr10-95324100-4	chr10	95323997	95324197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001330175)	promoter-TSS (NM_001330175)	40.0	NM_001330141	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	48.0	94.5	42.5	745.0	178.5	42.5	60.0	60.5
Merged-chr17-34000366-4	chr17	34000263	34000463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347346)	promoter-TSS (NM_001347346)	-16.0	NM_001347346	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	257.5	514.0	260.0	2348.5	660.5	293.0	259.0	181.0
Merged-chr5-137787772-4	chr5	137787671	137787871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005426)	promoter-TSS (NM_001005426)	-31.0	NM_001005426	381678.0	Mm.332765	NM_001005426	ENSMUSG00000037108	Zcwpw1	Gm1053	zinc finger, CW type with PWWP domain 1	protein-coding	80.0	84.0	36.0	415.5	140.0	58.0	47.0	52.5
Merged-chr11-69012516-4	chr11	69012400	69012600	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR34C_MM|LTR|ERVK	-3411.0	NM_001281465	68964.0	Mm.285785	NM_001013256	ENSMUSG00000020898	Ctc1	1500010J02Rik|AAF-132|AAF132	CTS telomere maintenance complex component 1	protein-coding	35.5	58.5	20.0	290.5	65.5	28.5	31.5	28.5
Merged-chr12-112631658-4	chr12	112631531	112631731	+	957.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 2 of 12)	intron (NM_007421, intron 2 of 12)	11584.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	14.5	26.5	12.0	195.5	30.5	12.0	8.5	14.0
Merged-chr1-167212503-3	chr1	167212399	167212599	+	867.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72628.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	6.5	9.5	5.5	85.0	25.5	6.5	7.0	8.0
Merged-chr18-4908921-4	chr18	4908823	4909023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96437.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	51.0	53.0	39.5	746.0	108.5	29.0	60.0	31.0
Merged-chr5-125383548-12	chr5	125383442	125383642	+	910.99585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6475.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	8.5	34.0	2.5	78.0	33.0	13.0	13.0	9.5
Merged-chr5-38598832-3	chr5	38598719	38598919	+	840.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	-37224.0	NM_011715	22388.0	Mm.2654	NM_011715	ENSMUSG00000005103	Wdr1	Aip1|D5Wsu185e|rede	WD repeat domain 1	protein-coding	0.0	0.0	0.0	0.0	34.0	30.0	32.0	16.0
Merged-chr8-111300346-4	chr8	111300232	111300432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146218)	promoter-TSS (NM_146218)	-110.0	NM_146218	234736.0	Mm.334816	NM_146218	ENSMUSG00000033596	Rfwd3	BC027246	ring finger and WD repeat domain 3	protein-coding	294.5	482.0	270.0	4288.5	660.5	313.5	369.0	287.0
Merged-chr17-84181738-4	chr17	84181652	84181852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D11|SINE|Alu	6195.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	48.5	72.5	58.5	620.0	103.5	45.5	32.0	45.0
Merged-chr10-121587609-4	chr10	121587504	121587704	+	970.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019786)	promoter-TSS (NM_019786)	-810.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	27.5	50.5	13.5	172.0	66.5	18.5	24.0	17.0
Merged-chr8-46953617-3	chr8	46953517	46953717	+	876.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33270.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	7.0	9.0	5.0	102.0	19.5	13.5	3.0	5.0
Merged-chr11-16999624-4	chr11	16999526	16999726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	9092.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	58.5	91.0	73.0	1301.5	113.0	53.0	50.0	42.0
Merged-chr2-26917029-4	chr2	26916917	26917117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013677)	promoter-TSS (NM_013677)	-487.0	NM_013677	20930.0	Mm.347512	NM_013677	ENSMUSG00000015790	Surf1	0610010F23Rik|Surf-1	surfeit gene 1	protein-coding	14.5	26.5	8.5	187.0	31.5	10.0	20.0	20.5
Merged-chr5-140321611-4	chr5	140321501	140321701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010752)	promoter-TSS (NM_010752)	-21.0	NM_001356585	17766.0	Mm.118846	NM_008637	ENSMUSG00000036639	Nudt1	Mth1	nudix (nucleoside diphosphate linked moiety X)-type motif 1	protein-coding	108.5	166.5	93.5	1212.0	277.5	101.0	94.5	151.5
Merged-chr13-91681680-3	chr13	91681580	91681780	+	802.883362	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 9 of 15)	intron (NM_001360776, intron 9 of 15)	-59841.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	5.5	6.5	7.0	208.0	35.5	3.5	9.5	10.0
Merged-chr7-80403019-4	chr7	80402921	80403121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011046)	promoter-TSS (NM_011046)	-209.0	NM_011046	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	12.0	20.5	16.0	176.0	27.5	22.0	15.0	26.0
Merged-chr17-47609384-4	chr17	47609277	47609477	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016859, intron 1 of 6)	L2|LINE|L2	2115.0	NM_016859	53414.0	Mm.472101	NM_016859	ENSMUSG00000023988	Bysl	Bys|Enp1	bystin-like	protein-coding	17.0	20.5	6.0	198.0	39.0	8.0	28.0	20.5
Merged-chr14-70107599-4	chr14	70107500	70107700	+	804.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021328, intron 1 of 8)	intron (NM_021328, intron 1 of 8)	7507.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	5.0	8.5	8.5	248.5	23.0	16.0	12.5	17.5
Merged-chr11-98961160-4	chr11	98961088	98961288	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001176528, intron 1 of 7)	intron (NM_001176528, intron 1 of 7)	717.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	3.5	5.0	14.0	141.5	19.5	9.0	5.0	19.0
Merged-chr10-79802588-4	chr10	79802490	79802690	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023128, intron 1 of 8)	MIR|SINE|MIR	9018.0	NM_001161747	18483.0	Mm.34650	NM_023128	ENSMUSG00000035863	Palm	-	paralemmin	protein-coding	15.0	31.0	23.0	295.5	59.5	19.0	25.0	19.0
Merged-chr2-133553459-2	chr2	133553359	133553559	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007553, intron 1 of 2)	CpG	1300.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	9.0	8.5	11.0	73.0	12.5	6.5	2.0	10.5
Merged-chr8-83064256-4	chr8	83064159	83064359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 6 of 6)	intron (NM_177378, intron 6 of 6)	-101093.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	25.0	20.0	19.5	295.5	114.5	50.0	44.0	58.0
Merged-chr2-43862887-4	chr2	43862768	43862968	+	945.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 5 of 14)	intron (NM_001301831, intron 5 of 14)	114044.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	25.0	19.5	25.5	529.5	41.5	11.5	14.5	28.5
Merged-chr15-59264109-3	chr15	59263989	59264189	+	869.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42859.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	17.0	10.0	17.0	145.5	8.0	1.5	4.5	3.5
Merged-chr9-64736874-5	chr9	64736687	64736887	+	999.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017382, intron 1 of 4)	intron (NM_017382, intron 1 of 4)	969.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	19.5	23.0	17.5	258.0	55.0	13.0	16.5	22.5
Merged-chr9-40732543-3	chr9	40732432	40732632	+	873.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	46568.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	26.0	27.0	28.5	269.5	2.0	0.0	0.0	1.0
Merged-chr1-171845639-4	chr1	171845528	171845728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	intron (NM_001289470, intron 2 of 8)	5931.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	79.0	75.0	46.5	861.0	64.0	21.5	20.5	32.0
Merged-chr6-129407102-1	chr6	129407002	129407202	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-1760.0	NM_001205363	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	26.5	19.5	24.0	346.0	61.5	14.0	22.0	21.5
Merged-chr16-29527302-4	chr16	29527188	29527388	+	912.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164613, intron 2 of 21)	intron (NM_001164613, intron 2 of 21)	14195.0	NM_172613	224079.0	Mm.54954	NM_172613	ENSMUSG00000038094	Atp13a4	4631413J11Rik|4832416L12|9330174J19Rik	ATPase type 13A4	protein-coding	19.0	19.5	15.0	367.0	33.0	14.0	15.0	14.0
Merged-chr1-118553244-3	chr1	118553143	118553343	+	636.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 30 of 39)	intron (NM_001359330, intron 30 of 39)	-74702.0	NM_023755	81879.0	Mm.24621	NM_023755	ENSMUSG00000026380	Tfcp2l1	1810030F05Rik|4932442M07Rik|AA575098|Cp2l1|Crtr-1|D930018N21Rik|LBP-9|Tcfcp2l1	transcription factor CP2-like 1	protein-coding	10.0	7.0	8.0	102.5	3.0	1.5	3.5	4.0
Merged-chr9-66878325-3	chr9	66878196	66878396	+	805.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	B2_Mm1t|SINE|B2	41409.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	7.0	5.0	9.5	52.5	16.5	10.5	1.5	6.5
Merged-chr11-75171737-4	chr11	75171628	75171828	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1473.0	NM_010430	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	19.5	31.0	15.0	172.5	65.5	20.0	22.0	11.0
Merged-chr13-24442493-4	chr13	24442401	24442601	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 11 of 16)	intron (NM_001111110, intron 11 of 16)	27379.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	15.0	25.5	16.5	510.0	28.5	8.5	19.0	8.0
Merged-chr5-88543076-4	chr5	88542967	88543167	+	831.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-11395.0	NM_023054	65961.0	Mm.490364	NM_023054	ENSMUSG00000070697	Utp3	2400011K09Rik|AW557551|C87704|Crl-1|Crl1|Crlz1|Sas10	UTP3 small subunit processome component	protein-coding	11.5	16.0	9.0	180.0	24.5	13.0	21.0	18.5
Merged-chr1-131524014-4	chr1	131523906	131524106	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	3355.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	12.5	11.5	5.5	6.5	71.5	16.5	14.5	18.0
Merged-chr12-73659937-4	chr12	73659826	73660026	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	75130.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	40.0	28.5	25.0	486.5	40.5	13.5	35.5	33.0
Merged-chr4-45320471-4	chr4	45320356	45320556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025513, exon 1 of 4)	exon (NM_025513, exon 1 of 4)	147.0	NM_025513	66362.0	Mm.275788	NM_025513	ENSMUSG00000028322	Exosc3	2310005D06Rik|AI593501|Rrp40	exosome component 3	protein-coding	102.5	153.0	142.5	1362.0	116.5	88.0	76.0	83.0
Merged-chr11-35834562-4	chr11	35834476	35834676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025936)	promoter-TSS (NM_025936)	-48.0	NM_025936	104458.0	Mm.284906	NM_025936	ENSMUSG00000018848	Rars	2610011N19Rik|2610037E21Rik|AL033339|AW985894	arginyl-tRNA synthetase	protein-coding	122.5	186.5	127.5	1815.0	285.0	126.5	124.5	111.0
Merged-chr9-7337304-4	chr9	7337188	7337388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7109.0	NM_001320077	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	54.0	58.0	39.5	936.0	93.0	29.5	32.0	37.5
Merged-chr7-102267476-8	chr7	102267352	102267552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009287)	promoter-TSS (NM_009287)	-372.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	56.0	63.5	82.5	549.5	120.5	71.5	56.5	95.0
Merged-chr6-116142422-4	chr6	116142309	116142509	+	926.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	Lx8|LINE|L1	50965.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	40.5	45.5	17.5	320.0	22.5	18.0	17.5	11.5
Merged-chr11-118488469-2	chr11	118488369	118488569	+	1000.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153103, exon 14 of 14)	non-coding (NR_153103, exon 14 of 14)	11637.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	4.5	5.5	5.0	80.5	14.0	1.5	3.5	5.5
Merged-chr12-84617464-4	chr12	84617375	84617575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008992)	promoter-TSS (NM_008992)	-9.0	NM_008992	19300.0	Mm.229109	NM_008992	ENSMUSG00000021240	Abcd4	P69r|P70R|Pxmp1l	ATP-binding cassette, sub-family D (ALD), member 4	protein-coding	91.5	164.5	109.0	1415.0	235.5	75.5	121.0	87.5
Merged-chr11-76897987-4	chr11	76897875	76898075	+	956.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6570.0	NM_025655	66601.0	Mm.25138	NM_025655	ENSMUSG00000020839	Tmigd1	2010002A20Rik|Tmigd	transmembrane and immunoglobulin domain containing 1	protein-coding	13.5	18.0	10.5	122.0	43.0	23.5	7.5	25.5
Merged-chr16-33922447-4	chr16	33922359	33922559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	44579.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	126.0	114.5	180.0	2088.0	274.5	98.5	124.0	148.0
Merged-chr8-105304118-4	chr8	105304011	105304211	+	783.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148952, intron 7 of 9)	intron (NM_148952, intron 7 of 9)	-1490.0	NM_172760	234683.0	Mm.237966	NM_172760	ENSMUSG00000014791	Elmo3	9930107J06|BC058752|CED-12|Ced12	engulfment and cell motility 3	protein-coding	9.0	10.0	7.5	88.5	25.5	4.0	17.5	17.0
Merged-chr1-171017025-6	chr1	171016967	171017167	+	918.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1859.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	8.0	9.5	7.0	149.5	17.0	6.5	7.5	9.0
Merged-chr2-118762636-4	chr2	118762482	118762682	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001982)	promoter-TSS (NM_001001982)	79.0	NM_001001982	214239.0	Mm.379342	NM_001001982	ENSMUSG00000045838	A430105I19Rik	Ccdc9b|Gm353	RIKEN cDNA A430105I19 gene	protein-coding	8.5	5.5	7.5	214.0	48.0	7.5	17.0	14.5
Merged-chr1-138542303-2	chr1	138542203	138542403	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 3 of 9)	intron (NM_021605, intron 3 of 9)	77454.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	2.0	6.5	8.0	54.5	13.5	5.5	9.5	12.0
Merged-chr1-45826973-4	chr1	45826895	45827095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31829.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	35.0	30.0	38.5	884.5	72.0	18.0	22.0	18.0
Merged-chr7-45155099-4	chr7	45155014	45155214	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285904)	promoter-TSS (NM_001285904)	-576.0	NM_145954	69748.0	Mm.82139	NM_145954	ENSMUSG00000007833	Aldh16a1	2410004H02Rik|AI452234|mFLJ00209	aldehyde dehydrogenase 16 family, member A1	protein-coding	28.0	29.5	18.5	199.0	75.0	24.0	19.0	26.5
Merged-chr15-97816804-3	chr15	97816702	97816902	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	-1939.0	NM_001204281	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	24.0	24.0	33.0	433.5	12.5	5.5	7.0	14.0
Merged-chr5-64297271-4	chr5	64297164	64297364	+	946.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	L1MB2|LINE|L1	66907.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	17.0	21.0	13.5	293.0	36.0	9.0	19.5	17.5
Merged-chr4-56133423-3	chr4	56133293	56133493	+	699.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-600918.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	5.5	14.5	15.0	89.5	13.5	1.5	8.0	11.5
Merged-chr1-151270829-4	chr1	151270717	151270917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-73669.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	23.5	27.0	27.5	486.5	71.0	31.5	35.5	30.0
Merged-chr7-19523981-2	chr7	19523881	19524081	+	842.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_027116, exon 4 of 4)	exon (NM_027116, exon 4 of 4)	5250.0	NM_027116	69547.0	Mm.77325	NM_027116	ENSMUSG00000060621	Nkpd1	2310015G09Rik	NTPase, KAP family P-loop domain containing 1	protein-coding	6.0	6.0	6.0	31.5	9.5	1.0	1.0	10.0
Merged-chr2-119516986-2	chr2	119516886	119517086	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30641.0	NM_172857	241624.0	Mm.212773	NM_172857	ENSMUSG00000048647	Exd1	4932702D22Rik|Exdl1|mExd1	exonuclease 3'-5' domain containing 1	protein-coding	6.0	12.0	0.0	39.5	7.0	7.0	5.5	6.5
Merged-chr9-58580986-4	chr9	58580854	58581054	+	823.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1286.0	NM_001293673	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	18.5	11.5	12.0	91.5	26.0	8.0	10.0	5.0
Merged-chr8-3628171-2	chr8	3628071	3628271	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2626.0	NM_001129803	18545.0	Mm.440882	NM_008790	ENSMUSG00000004630	Pcp2	L7|Pcp-2	Purkinje cell protein 2 (L7)	protein-coding	6.5	4.0	7.5	56.0	13.5	6.5	11.0	7.0
Merged-chr16-14352275-4	chr16	14352188	14352388	+	831.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9270.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	9.0	9.5	4.5	95.5	31.0	19.0	7.5	8.0
Merged-chr2-38643896-4	chr2	38643751	38643951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011187)	promoter-TSS (NM_011187)	55.0	NM_011187	19177.0	Mm.389251	NM_011187	ENSMUSG00000026750	Psmb7	AU020723|MC14	proteasome (prosome, macropain) subunit, beta type 7	protein-coding	17.0	21.5	30.0	328.0	60.5	33.5	29.0	22.0
Merged-chr2-148575670-4	chr2	148575574	148575774	+	773.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96941.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	11.5	18.5	12.0	90.0	24.5	10.5	5.0	8.0
Merged-chr13-4650413-4	chr13	4650305	4650505	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41241.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	16.0	19.5	21.0	308.0	36.5	21.0	27.5	20.0
Merged-chr5-24586743-4	chr5	24586639	24586839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133913)	promoter-TSS (NM_133913)	-11.0	NM_133913	100910.0	Mm.140672	NM_133913	ENSMUSG00000038181	Chpf2	2010209O12Rik|AW060945|Gm42230|mKIAA1402|mir-671	chondroitin polymerizing factor 2	protein-coding	37.5	50.0	45.0	530.5	87.0	38.5	64.5	43.0
Merged-chr11-6508673-4	chr11	6508583	6508783	+	989.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178440, intron 18 of 21)	MTD|LTR|ERVL-MaLR	12275.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	19.5	25.5	28.0	449.5	47.5	16.0	29.0	26.0
Merged-chr7-120883918-7	chr7	120883814	120884014	+	896.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 6 of 17)	B1_Mus2|SINE|Alu	32725.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	12.0	5.0	13.0	140.0	13.0	7.5	7.5	6.5
Merged-chr2-51387358-4	chr2	51387262	51387462	+	871.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50538.0	NR_130155	73375.0	Mm.396227	NR_130155	ENSMUSG00000086007	1700057H21Rik	-	RIKEN cDNA 1700057H21 gene	ncRNA	21.5	15.5	23.5	523.0	20.0	11.0	18.5	4.0
Merged-chr4-128980542-4	chr4	128980461	128980661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31A|LTR|ERV1	-12663.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	62.5	95.0	73.5	1019.0	153.0	38.5	46.0	52.0
Merged-chr8-83743086-4	chr8	83742987	83743187	+	796.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-1776.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	4.5	13.0	6.0	76.0	19.0	15.5	16.5	31.0
Merged-chr18-65680268-4	chr18	65680137	65680337	+	992.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361052, intron 6 of 8)	intron (NM_001361052, intron 6 of 8)	-18031.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	19.5	41.5	21.5	441.5	48.0	12.0	24.0	13.5
Merged-chr6-31210537-2	chr6	31210437	31210637	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	B3|SINE|B2	7937.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	6.0	21.0	5.5	77.0	12.0	6.0	6.0	13.5
Merged-chr5-129006408-4	chr5	129006304	129006504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152615, intron 1 of 11)	B3|SINE|B2	2168.0	NR_152615	13852.0	Mm.260716	NM_007941	ENSMUSG00000029428	Stx2	AW538950|Epim|G1-536-1|Syn-2|repro34	syntaxin 2	protein-coding	42.0	48.5	60.5	794.5	111.5	40.5	54.5	52.0
Merged-chr11-107242812-3	chr11	107242711	107242911	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 6 of 9)	intron (NR_153311, intron 6 of 9)	-53430.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	4.5	6.5	23.5	158.0	22.0	3.0	7.0	3.5
Merged-chr1-177110814-4	chr1	177110706	177110906	+	954.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 2 of 12)	intron (NM_011785, intron 2 of 12)	137961.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	8.0	19.5	23.5	441.0	27.5	4.5	16.5	20.0
Merged-chr17-50490303-4	chr17	50490197	50490397	+	937.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19250.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	17.0	25.5	12.0	325.5	39.5	25.5	12.5	7.0
Merged-chr2-59612515-3	chr2	59612489	59612689	+	903.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	CpG	547.0	NM_198294	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	9.0	17.0	18.5	64.0	10.0	11.0	11.5	5.0
Merged-chr12-57237197-4	chr12	57237097	57237297	+	899.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	Lx9|LINE|L1	6772.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	9.5	11.0	13.0	382.5	25.5	4.0	13.0	11.5
Merged-chr11-62648050-2	chr11	62647950	62648150	+	840.099976	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175002)	promoter-TSS (NM_175002)	-1.0	NM_001357955	192976.0	Mm.339972	NM_198861	ENSMUSG00000046417	Lrrc75a	Fam211a	leucine rich repeat containing 75A	protein-coding	5.5	11.0	8.0	50.0	17.5	7.0	11.5	6.0
Merged-chr5-112276521-4	chr5	112276439	112276639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326590)	promoter-TSS (NM_001326590)	-152.0	NM_001326590	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	242.5	443.5	302.0	2852.0	790.5	347.5	408.5	297.5
Merged-chr8-126536333-4	chr8	126536229	126536429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57107.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	70.0	130.0	52.0	1062.5	94.5	51.0	52.0	33.0
Merged-chr19-3379205-1	chr19	3379105	3379305	+	1000.0	f0_balb.idr	intron (NM_013495, intron 15 of 18)	intron (NM_013495, intron 15 of 18)	-9652.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	18.5	12.0	12.0	252.5	32.5	12.0	13.0	19.5
Merged-chr6-124309128-4	chr6	124309003	124309203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053094, exon 4 of 17)	exon (NM_053094, exon 4 of 17)	4452.0	NM_053094	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	85.0	52.5	87.5	1034.5	137.0	54.0	67.0	79.0
Merged-chr19-26845447-4	chr19	26845326	26845526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21519.0	NR_045306	70942.0	Mm.411548	NR_045306	ENSMUSG00000093772	4931403E22Rik	-	RIKEN cDNA 4931403E22 gene	ncRNA	22.5	35.5	15.0	316.5	57.0	24.0	21.0	29.0
Merged-chr7-92962014-4	chr7	92961931	92962131	+	874.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	86778.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	11.0	10.5	13.5	155.0	27.0	12.0	18.0	13.0
Merged-chr2-158156669-4	chr2	158156564	158156764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10272.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	25.5	47.0	44.0	379.0	81.0	27.5	45.5	40.5
Merged-chr10-95684902-4	chr10	95684794	95684994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-120748.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	47.5	35.0	28.0	386.0	72.0	34.5	43.5	29.5
Merged-chr9-62980888-4	chr9	62980723	62980923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019663)	promoter-TSS (NM_019663)	56.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	51.5	98.0	59.0	674.5	153.5	55.5	46.5	73.5
Merged-chr7-35117170-3	chr7	35117046	35117246	+	952.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2147.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	18.5	10.0	14.5	463.0	5.0	2.0	3.5	4.5
Merged-chr7-19361164-4	chr7	19361053	19361253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001010836)	promoter-TSS (NM_001010836)	-63.0	NM_001010836	333654.0	Mm.333640	NM_001010836	ENSMUSG00000040734	Ppp1r13l	AV260376|IASPP|Nkip1|wa3	protein phosphatase 1, regulatory (inhibitor) subunit 13 like	protein-coding	49.0	76.0	28.5	587.5	167.0	47.0	59.5	45.5
Merged-chr7-97123561-4	chr7	97123468	97123668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	41817.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	62.5	37.0	37.0	726.0	88.5	25.5	36.5	56.0
Merged-chr15-79752009-4	chr15	79751882	79752082	+	949.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045069, intron 3 of 3)	intron (NR_045069, intron 3 of 3)	9284.0	NR_045069	100504191.0	Mm.421420	NR_045069	ENSMUSG00000087543	Gm16576	-	predicted gene 16576	ncRNA	23.5	27.0	24.5	275.5	35.5	13.5	13.5	16.0
Merged-chr11-120348516-4	chr11	120348423	120348623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038126)	promoter-TSS (NR_038126)	-28.0	NM_009609	11465.0	Mm.196173	NM_009609	ENSMUSG00000062825	Actg1	AL023024|Actg|Actl|E51	actin, gamma, cytoplasmic 1	protein-coding	119.5	240.5	71.5	954.5	401.5	159.0	107.0	119.0
Merged-chr19-5117604-4	chr19	5117501	5117701	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045528, intron 1 of 15)	CpG	807.0	NR_045528	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	9.5	34.5	6.5	117.0	44.0	11.0	14.5	14.0
Merged-chr8-70042788-4	chr8	70042687	70042887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167939)	promoter-TSS (NM_001167939)	-26.0	NM_027481	70616.0	Mm.17665	NM_027481	ENSMUSG00000011306	Sugp1	5730496N02Rik|Sf4	SURP and G patch domain containing 1	protein-coding	71.0	100.0	48.5	738.0	181.0	56.0	57.0	62.0
Merged-chr7-96484996-1	chr7	96484896	96485096	+	863.5	f0_balb.idr	intron (NM_011858, intron 3 of 32)	intron (NM_011858, intron 3 of 32)	-143032.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	8.5	6.5	22.5	184.0	2.5	0.0	2.5	2.5
Merged-chr17-17749590-3	chr17	17749494	17749694	+	651.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45653.0	NM_001104539	626942.0	Mm.404019	NM_001104539	ENSMUSG00000092120	Vmn2r90	EG626942	vomeronasal 2, receptor 90	protein-coding	5.5	9.5	8.5	76.5	10.5	5.5	10.0	7.0
Merged-chr4-156210145-4	chr4	156210059	156210259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-5768.0	NM_172417	74183.0	Mm.431343	NM_172417	ENSMUSG00000078486	Perm1	2310042D19Rik	PPARGC1 and ESRR induced regulator, muscle 1	protein-coding	18.5	52.0	26.0	471.0	67.0	25.5	41.0	26.5
Merged-chr11-116533105-4	chr11	116533032	116533232	+	745.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025367)	promoter-TSS (NM_025367)	-106.0	NM_025367	20698.0	Mm.20944	NM_011451	ENSMUSG00000061878	Sphk1	1110006G24Rik|Sk1|Spk1	sphingosine kinase 1	protein-coding	9.5	10.5	4.0	104.5	8.0	4.5	4.5	10.0
Merged-chr1-51792716-2	chr1	51792616	51792816	+	659.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_010863, intron 13 of 29)	intron (NM_010863, intron 13 of 29)	123262.0	NM_001161817	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	2.0	6.5	7.5	31.5	15.0	5.0	10.5	7.0
Merged-chr1-87658222-4	chr1	87658147	87658347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	37935.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	35.0	34.0	33.0	618.0	36.5	23.0	21.0	22.0
Merged-chr13-36315067-4	chr13	36314970	36315170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 3 of 5)	intron (NM_001039189, intron 3 of 5)	197427.0	NM_001039189	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	40.0	81.0	75.0	845.5	153.5	62.5	101.0	44.0
Merged-chr15-66812703-4	chr15	66812608	66812808	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009192, exon 2 of 9)	5' UTR (NM_009192, exon 2 of 9)	19121.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	36.5	41.0	36.0	422.5	38.5	26.0	17.0	22.5
Merged-chr7-5058047-1	chr7	5057947	5058147	+	627.0	f0_c57.idr	exon (NM_001290432, exon 4 of 6)	exon (NM_001290432, exon 4 of 6)	1321.0	NM_146178	232821.0	Mm.482157	NM_146178	ENSMUSG00000035228	Ccdc106	BC018462	coiled-coil domain containing 106	protein-coding	5.0	7.5	7.5	91.0	32.0	13.0	10.0	11.0
Merged-chr7-30563275-4	chr7	30563179	30563379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170760)	promoter-TSS (NM_170760)	-61.0	NM_170760	233073.0	Mm.34790	NM_170760	ENSMUSG00000078765	U2af1l4	AA407033|AF419339|AI451269|AW553050|U2af26	U2 small nuclear RNA auxiliary factor 1-like 4	protein-coding	94.0	133.5	53.5	784.5	192.0	97.5	113.0	81.5
Merged-chr11-120916669-4	chr11	120916557	120916757	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 3 of 18)	intron (NM_027745, intron 3 of 18)	16215.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	12.5	42.0	18.0	194.0	105.5	34.5	18.5	26.0
Merged-chr1-93083784-3	chr1	93083685	93083885	+	840.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294149, intron 1 of 47)	intron (NM_001294149, intron 1 of 47)	-1305.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	13.0	13.0	16.5	282.0	13.5	5.0	8.5	7.0
Merged-chr7-63752224-2	chr7	63752124	63752324	+	826.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_130880, intron 11 of 13)	intron (NM_130880, intron 11 of 13)	-164633.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	3.0	6.0	4.5	32.0	13.0	4.5	5.5	4.5
Merged-chr15-83510424-3	chr15	83510326	83510526	+	770.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357953, intron 1 of 11)	intron (NM_001357953, intron 1 of 11)	481.0	NM_178869	319953.0	Mm.235007	NM_178869	ENSMUSG00000022442	Ttll1	6330444E16Rik|AV014541	tubulin tyrosine ligase-like 1	protein-coding	6.0	11.0	3.5	90.0	17.5	6.5	7.0	9.0
Merged-chr11-75541151-4	chr11	75541067	75541267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 2 of 13)	intron (NM_001199284, intron 2 of 13)	9055.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	88.0	119.0	93.5	1060.0	208.5	90.0	74.5	86.0
Merged-chr13-112602780-4	chr13	112602696	112602896	+	959.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145885, intron 18 of 21)	intron (NM_001145885, intron 18 of 21)	-22134.0	NM_139299	218624.0	Mm.380801	NM_139299	ENSMUSG00000050377	Il31ra	CRL3|GLM-R|GPL|Glmr|NR10	interleukin 31 receptor A	protein-coding	10.0	4.0	14.5	212.0	70.5	13.5	25.5	31.0
Merged-chr1-184471543-4	chr1	184471440	184471640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86151.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	35.0	43.5	32.5	937.0	66.0	29.5	54.0	32.0
Merged-chr3-104780094-3	chr3	104779979	104780179	+	847.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027982)	promoter-TSS (NM_027982)	-977.0	NM_027982	71887.0	Mm.379204	NM_027982	ENSMUSG00000002228	Ppm1j	2310008J22Rik|PP2Czeta|Ppp2cz	protein phosphatase 1J	protein-coding	2.0	8.5	9.0	61.0	15.5	6.5	7.5	6.0
Merged-chr17-55963349-4	chr17	55963233	55963433	+	888.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028381, intron 3 of 7)	intron (NM_028381, intron 3 of 7)	-3932.0	NR_108021	100504333.0	Mm.391908	NR_108021	ENSMUSG00000097077	Gm16712	-	predicted gene, 16712	ncRNA	9.5	12.5	5.5	125.5	50.5	11.5	17.5	20.5
Merged-chr2-69676892-3	chr2	69676792	69676992	+	813.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081087, intron 3 of 5)	B2_Mm2|SINE|B2	6772.0	NM_001081087	228003.0	Mm.178784	NM_001081087	ENSMUSG00000075307	Klhl41	Gm112|Kbtbd10|SARCOSIN	kelch-like 41	protein-coding	1.5	9.0	1.0	20.5	23.5	8.5	9.5	8.5
Merged-chr19-5050411-3	chr19	5050386	5050586	+	828.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145495)	promoter-TSS (NM_145495)	-322.0	NM_145495	225870.0	Mm.271922	NM_145495	ENSMUSG00000024883	Rin1	-	Ras and Rab interactor 1	protein-coding	8.5	11.5	8.0	82.0	13.5	0.0	4.0	9.5
Merged-chr10-19547033-4	chr10	19546911	19547111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44938.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	15.5	49.0	21.5	430.5	88.0	23.5	43.0	32.5
Merged-chr18-38962906-3	chr18	38962805	38963005	+	718.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 4 of 4)	intron (NM_001033789, intron 4 of 4)	-30240.0	NM_001361073	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	10.0	21.5	10.5	194.0	18.0	10.0	10.0	5.0
Merged-chr1-94035249-6	chr1	94035115	94035315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14722.0	NM_001310769	241159.0	Mm.214565	NM_173772	ENSMUSG00000034000	Neu4	9330166I04	sialidase 4	protein-coding	14.5	20.5	42.5	309.0	21.5	17.0	11.0	26.5
Merged-chr13-92651142-4	chr13	92651033	92651233	+	977.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 1 of 11)	MIRb|SINE|MIR	39995.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	15.5	47.0	42.5	521.5	33.0	17.5	40.0	18.5
Merged-chr3-145964187-4	chr3	145964070	145964270	+	941.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23700.0	NM_001166064	214804.0	Mm.268854	NM_001166064	ENSMUSG00000036863	Syde2	C430017H16Rik	synapse defective 1, Rho GTPase, homolog 2 (C. elegans)	protein-coding	27.0	71.0	60.5	652.5	37.5	16.0	19.5	46.0
Merged-chr17-5846196-4	chr17	5846100	5846300	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025664, intron 1 of 17)	L1MEd|LINE|L1	4820.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	19.0	27.5	20.0	648.0	47.5	7.0	16.0	11.5
Merged-chr3-52630394-4	chr3	52630273	52630473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109351.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	23.0	44.5	32.5	686.0	36.0	16.5	37.5	17.5
Merged-chr4-53104680-3	chr4	53104556	53104756	+	842.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 7 of 49)	intron (NM_013454, intron 7 of 49)	55239.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	8.5	5.0	6.5	125.5	23.0	2.0	8.5	13.0
Merged-chr19-29501189-5	chr19	29501048	29501248	+	850.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	20839.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	4.5	7.0	7.5	94.5	16.0	6.0	12.0	12.5
Merged-chr6-48968115-3	chr6	48968013	48968213	+	786.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-7030.0	NM_001029987	243376.0	Mm.244112	NM_001029987	ENSMUSG00000068536	Doxl2	-	diamine oxidase-like protein 2	protein-coding	4.0	16.5	2.5	175.5	18.5	7.5	11.5	11.0
Merged-chr19-37511093-4	chr19	37510992	37511192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39326.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	40.0	48.5	21.5	313.0	68.0	19.5	39.5	11.0
Merged-chr16-91359551-4	chr16	91359460	91359660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13223.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	49.5	55.5	34.5	395.5	67.5	30.5	22.5	22.5
Merged-chr13-94098542-4	chr13	94098458	94098658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 1 of 3)	intron (NM_172589, intron 1 of 3)	40762.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	59.0	124.0	82.0	987.0	188.5	74.5	67.5	85.0
Merged-chr16-57570729-4	chr16	57570633	57570833	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177871, exon 2 of 2)	exon (NM_001177871, exon 2 of 2)	21491.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	30.5	39.5	42.0	632.5	60.5	28.0	42.0	19.5
Merged-chr7-126625586-4	chr7	126625481	126625681	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019738)	promoter-TSS (NM_019738)	-111.0	NM_019738	56312.0	Mm.18742	NM_019738	ENSMUSG00000030717	Nupr1	2310032H04Rik|Com1|p8	nuclear protein transcription regulator 1	protein-coding	16.5	107.5	20.0	169.5	101.0	49.0	35.0	28.5
Merged-chr3-115714378-3	chr3	115714282	115714482	+	974.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007901, intron 1 of 1)	intron (NM_007901, intron 1 of 1)	673.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	13.5	35.5	15.0	357.0	15.0	5.5	8.0	2.0
Merged-chr7-30669446-4	chr7	30669338	30669538	+	740.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2167.0	NR_027849	74927.0	Mm.87326	NM_183108	ENSMUSG00000049761	Pmis2	1700071L20Rik|4930479M11Rik	Pmis2, sperm specific protein	ncRNA	8.5	17.0	7.5	60.0	25.5	6.5	11.0	11.0
Merged-chr14-20576322-3	chr14	20576227	20576427	+	835.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030180, intron 13 of 20)	intron (NM_030180, intron 13 of 20)	-29754.0	NM_008914	19056.0	Mm.274432	NM_008914	ENSMUSG00000021816	Ppp3cb	1110063J16Rik|Calnb|CnAbeta|Cnab	protein phosphatase 3, catalytic subunit, beta isoform	protein-coding	12.0	16.5	3.0	125.0	12.5	8.0	8.0	10.0
Merged-chr9-45299432-4	chr9	45299318	45299518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19682.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	98.0	198.0	100.0	1006.5	334.5	126.0	127.0	84.5
Merged-chr16-4936278-4	chr16	4936147	4936347	+	844.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037666, intron 2 of 2)	intron (NR_037666, intron 2 of 2)	-2864.0	NM_001316715	66911.0	Mm.428698	NM_025839	ENSMUSG00000022516	Nudt16l1	1110001K21Rik|5330437I08Rik|Sdos	nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1	protein-coding	14.5	11.5	20.5	136.5	25.0	8.0	11.0	7.0
Merged-chr15-67424128-3	chr15	67424028	67424228	+	936.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	197359.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	8.5	16.5	9.5	196.5	11.5	2.0	5.0	3.5
Merged-chr2-151494148-4	chr2	151494025	151494225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291074)	promoter-TSS (NM_001291074)	-57.0	NM_001291074	386649.0	Mm.419479	NM_198326	ENSMUSG00000027455	Nsfl1c	Munc-18c|Stxbp3a|p47	NSFL1 (p97) cofactor (p47)	protein-coding	141.0	176.0	131.0	1965.5	348.5	141.0	137.0	150.0
Merged-chr14-74643481-3	chr14	74643372	74643572	+	861.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172812, intron 1 of 2)	intron (NM_172812, intron 1 of 2)	2598.0	NM_172812	15558.0	Mm.214351	NM_172812	ENSMUSG00000034997	Htr2a	5-HT-2|5-HT-2A|E030013E04|Htr-2|Htr2	5-hydroxytryptamine (serotonin) receptor 2A	protein-coding	9.0	20.0	11.5	99.0	10.5	6.0	4.0	6.5
Merged-chr14-68582142-4	chr14	68582043	68582243	+	947.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021475)	promoter-TSS (NM_021475)	-71.0	NM_021475	58860.0	Mm.36742	NM_021475	ENSMUSG00000022057	Adamdec1	2210414L24Rik|AI574231|Dcsn	ADAM-like, decysin 1	protein-coding	13.0	31.5	13.5	507.0	42.0	13.0	18.5	17.5
Merged-chr2-34372159-4	chr2	34372075	34372275	+	928.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016768)	promoter-TSS (NM_016768)	-130.0	NM_016768	18516.0	Mm.239941	NM_016768	ENSMUSG00000038718	Pbx3	-	pre B cell leukemia homeobox 3	protein-coding	15.5	20.0	5.5	147.5	24.0	8.5	10.0	10.0
Merged-chr5-72168161-4	chr5	72168010	72168210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356611)	promoter-TSS (NM_001356611)	79.0	NM_001356611	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	67.5	84.5	66.0	592.5	125.5	48.5	41.0	35.5
Merged-chr3-138964066-3	chr3	138963967	138964167	+	842.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 5 of 13)	intron (NM_001356388, intron 5 of 13)	111134.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	13.0	12.5	9.5	76.5	17.0	5.0	9.0	6.0
Merged-chr7-4131310-2	chr7	4131210	4131410	+	941.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001305822, exon 10 of 14)	exon (NM_001305822, exon 10 of 14)	5616.0	NR_033548	100037396.0	Mm.447887	NR_033548	ENSMUSG00000085886	D030047H15Rik	Gm15924	RIKEN cDNA D030047H15 gene	ncRNA	4.0	12.0	7.0	44.0	15.0	7.0	4.5	13.5
Merged-chr6-5211877-4	chr6	5211776	5211976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17930.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	61.5	57.0	70.5	1387.0	98.5	45.5	42.5	58.0
Merged-chr4-116507584-4	chr4	116507539	116507739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008389)	promoter-TSS (NM_008389)	90.0	NM_008389	16351.0	Mm.1350	NM_008389	ENSMUSG00000028696	Ipp	D4Jhu8|Mipp	IAP promoted placental gene	protein-coding	114.5	187.0	103.5	1499.5	308.5	94.0	116.5	91.0
Merged-chr10-42171185-3	chr10	42171077	42171277	+	840.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105565.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	8.0	10.5	10.0	180.5	19.0	7.0	4.5	5.0
Merged-chr2-59160193-4	chr2	59160070	59160270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026361)	promoter-TSS (NM_026361)	513.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	22.5	53.0	40.0	649.0	109.5	17.0	39.5	45.5
Merged-chr14-21745292-4	chr14	21745179	21745379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007268, intron 3 of 7)	MER91C|DNA|hAT-Tip100	-2400.0	NM_013849	27389.0	Mm.390674	NM_013849	ENSMUSG00000021768	Dusp13	DUSP13A|DUSP13B|Gm1203|LMW-DSP6|MDSP|TMDP|TS-DSP6	dual specificity phosphatase 13	protein-coding	71.5	101.0	139.0	1627.0	184.5	33.0	70.5	76.0
Merged-chr2-167988417-4	chr2	167988323	167988523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080708, intron 13 of 21)	intron (NM_001080708, intron 13 of 21)	22170.0	NM_001080708	69553.0	Mm.68454	NM_001080708	ENSMUSG00000074577	Ripor3	2310033K02Rik|Fam65c|Gm124	RIPOR family member 3	protein-coding	17.5	24.5	41.0	443.5	40.0	20.0	25.0	39.0
Merged-chr5-122131816-4	chr5	122131736	122131936	+	973.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183307, intron 2 of 12)	intron (NM_183307, intron 2 of 12)	3057.0	NM_001289811	330188.0	Mm.386907	NM_183307	ENSMUSG00000043036	Ccdc63	4921511C16Rik	coiled-coil domain containing 63	protein-coding	31.0	32.0	18.5	443.0	31.0	16.0	26.0	13.5
Merged-chr11-32268134-1	chr11	32268034	32268234	+	643.0	f0_balb.idr	promoter-TSS (NR_104306)	promoter-TSS (NR_104306)	-427.0	NM_001284359	17168.0	Mm.263161	NM_181569	ENSMUSG00000020289	Nprl3	Aag|CGTHBA|HS-26|HS-40|Mare|Phg|Prox1|m(alpha)RE	nitrogen permease regulator-like 3	protein-coding	13.0	4.5	8.5	105.5	1.0	6.5	2.5	8.5
Merged-chr9-123270177-3	chr9	123270091	123270291	+	621.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9402.0	NM_001002267	72309.0	Mm.8569	NM_001002267	ENSMUSG00000054871	Tmem158	2310037P21Rik|Ris1	transmembrane protein 158	protein-coding	4.5	7.0	7.5	33.5	9.5	1.0	3.5	6.5
Merged-chr5-146947777-3	chr5	146947795	146947995	+	789.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025652)	promoter-TSS (NM_025652)	-762.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	0.5	0.0	0.0	0.0	10.5	5.0	5.5	4.5
Merged-chr17-42909589-4	chr17	42909483	42909683	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33159.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	16.0	16.0	8.5	73.5	170.0	62.0	54.5	57.0
Merged-chr4-133853687-3	chr4	133853592	133853792	+	867.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009097, intron 17 of 21)	intron (NM_009097, intron 17 of 21)	21039.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	11.0	26.5	12.5	103.5	2.0	1.5	1.5	2.5
Merged-chr14-58075056-1	chr14	58074956	58075156	+	589.0	f0_balb.idr	intron (NM_013518, intron 1 of 2)	CpG	2370.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	5.0	4.5	6.0	108.5	11.5	7.5	3.5	9.5
Merged-chr5-20864762-4	chr5	20864653	20864853	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172992, intron 1 of 17)	intron (NM_172992, intron 1 of 17)	17371.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	34.5	62.5	17.0	465.0	90.5	26.0	42.0	16.0
Merged-chr8-84799321-4	chr8	84799230	84799430	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081982, intron 1 of 9)	CpG	1008.0	NM_010906	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	15.0	43.5	19.5	148.0	48.0	14.5	8.0	10.0
Merged-chr17-33782011-5	chr17	33781870	33782070	+	889.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020581)	promoter-TSS (NM_020581)	-395.0	NM_020581	57875.0	Mm.196189	NM_020581	ENSMUSG00000002289	Angptl4	Arp4|Bk89|Fiaf|Hfarp|Ng27|Pgar|Pgarg|Pp1158	angiopoietin-like 4	protein-coding	4.0	7.5	7.5	76.0	16.5	4.5	6.0	4.5
Merged-chr11-26585571-1	chr11	26585471	26585671	+	575.333313	f0_balb.idr	intron (NM_027260, intron 2 of 12)	intron (NM_027260, intron 2 of 12)	8349.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	8.0	14.0	12.0	95.0	6.0	4.5	3.5	0.0
Merged-chr7-79887163-3	chr7	79887075	79887275	+	681.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009682, intron 4 of 5)	L1M7|LINE|L1	33465.0	NM_009682	11778.0	Mm.220173	NM_009682	ENSMUSG00000063801	Ap3s2	[s]3B	adaptor-related protein complex 3, sigma 2 subunit	protein-coding	5.0	7.5	1.0	44.5	27.0	6.0	13.5	5.5
Merged-chr10-85185965-4	chr10	85185851	85186051	+	871.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007771)	promoter-TSS (NM_007771)	-897.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	12.5	17.5	8.5	128.5	32.0	12.0	24.0	21.0
Merged-chr1-136008100-4	chr1	136007997	136008197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160145)	promoter-TSS (NM_001160145)	-122.0	NM_001160145	66241.0	Mm.41773	NM_025439	ENSMUSG00000026411	Tmem9	1500015G18Rik|AW545782	transmembrane protein 9	protein-coding	36.5	74.0	29.5	721.0	92.5	32.0	43.5	40.0
Merged-chr14-27379553-4	chr14	27379447	27379647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 3 of 10)	intron (NM_027871, intron 3 of 10)	18158.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	64.0	105.0	78.5	1058.0	148.5	41.5	51.0	41.5
Merged-chr17-26942623-4	chr17	26942516	26942716	+	904.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281491, intron 1 of 18)	intron (NM_001281491, intron 1 of 18)	1164.0	NM_001281491	240057.0	Mm.328888	NM_001281491	ENSMUSG00000067629	Syngap1	Gm1963|Syngap	synaptic Ras GTPase activating protein 1 homolog (rat)	protein-coding	10.0	16.5	2.5	156.0	21.0	11.0	11.5	13.5
Merged-chr9-118858661-3	chr9	118858532	118858732	+	697.3555299999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 9 of 13)	intron (NM_001113514, intron 9 of 13)	-67904.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	4.5	5.0	4.0	83.0	13.0	8.0	5.0	8.0
Merged-chr5-76525936-3	chr5	76525851	76526051	+	950.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-3356.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	8.5	11.5	13.0	161.0	16.5	8.5	5.0	4.0
Merged-chr7-67307306-4	chr7	67307220	67307420	+	709.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 3 of 11)	intron (NM_001357324, intron 3 of 11)	65538.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	10.0	12.5	4.0	200.5	20.0	9.0	5.0	14.0
Merged-chr12-69458549-4	chr12	69458456	69458656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16994.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	19.5	39.0	24.5	260.5	62.5	18.5	22.0	22.5
Merged-chr19-25074994-4	chr19	25074898	25075098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 4 of 47)	intron (NM_028785, intron 4 of 47)	75469.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	21.0	32.0	26.5	510.5	44.0	18.0	35.0	39.5
Merged-chr2-28478816-3	chr2	28478699	28478899	+	915.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10733.0	NM_001166031	118451.0	Mm.294951	NM_080452	ENSMUSG00000035772	Mrps2	1500019M10Rik	mitochondrial ribosomal protein S2	protein-coding	8.0	12.0	10.0	113.5	8.0	6.5	3.0	4.0
Merged-chr2-157399823-3	chr2	157399727	157399927	+	808.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24466.0	NM_009271	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	10.0	11.0	7.5	81.5	4.5	1.0	2.5	4.0
Merged-chr4-150035504-4	chr4	150035399	150035599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26476.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	29.5	72.0	28.0	542.5	101.0	22.0	40.0	17.5
Merged-chr4-105643207-3	chr4	105643091	105643291	+	971.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	485844.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	15.5	17.0	42.5	844.0	7.5	6.0	10.0	8.0
Merged-chr11-101658481-4	chr11	101658399	101658599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7042.0	NM_025404	80981.0	Mm.266840	NM_025404	ENSMUSG00000034936	Arl4d	1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5	ADP-ribosylation factor-like 4D	protein-coding	33.0	80.0	52.5	318.0	83.5	33.0	37.5	26.0
Merged-chr17-71672170-2	chr17	71672070	71672270	+	866.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1091.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	5.0	5.5	4.5	37.0	7.5	5.5	6.0	1.5
Merged-chr5-66125095-3	chr5	66125010	66125210	+	861.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	ID4|SINE|ID	25868.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	15.0	13.0	7.5	145.5	14.5	2.0	2.0	3.5
Merged-chr6-117166991-4	chr6	117166886	117167086	+	860.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1549.0	NM_001012477	20315.0	Mm.303231	NM_013655	ENSMUSG00000061353	Cxcl12	Pbsf|Scyb12|Sdf1|Tlsf|Tpar1	chemokine (C-X-C motif) ligand 12	protein-coding	6.0	21.0	5.5	189.0	27.5	9.0	13.5	14.0
Merged-chr6-34005889-3	chr6	34005791	34005991	+	770.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23557.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	3.5	7.5	7.5	76.5	9.0	6.5	4.5	8.5
Merged-chr8-116967364-2	chr8	116967264	116967464	+	679.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	11289.0	NM_001357254	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	5.0	16.0	4.0	46.0	11.5	7.5	6.5	11.0
Merged-chr7-97082166-2	chr7	97082066	97082266	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	CpG	415.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	12.0	10.5	18.0	201.0	44.0	19.5	19.5	28.0
Merged-chr14-30635400-4	chr14	30635307	30635507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9199.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	32.0	84.0	35.5	269.0	142.0	64.0	52.0	47.0
Merged-chr15-64306326-4	chr15	64306233	64306433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	6340.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	17.5	37.5	34.5	554.0	77.0	28.5	54.0	40.5
Merged-chr9-21181640-4	chr9	21181531	21181731	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	CpG	-2470.0	NM_001310750	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	35.5	26.5	29.5	335.5	29.5	10.5	17.5	16.5
Merged-chr16-92698778-4	chr16	92698674	92698874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	CpG	-1445.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	42.0	50.0	28.0	403.0	106.5	28.5	51.5	38.0
Merged-chr17-50530354-4	chr17	50530239	50530439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	20792.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	44.0	65.5	34.0	777.0	58.5	29.0	29.5	26.5
Merged-chr11-40693677-4	chr11	40693612	40693812	+	860.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199274, intron 1 of 6)	intron (NM_001199274, intron 1 of 6)	-1030.0	NM_134017	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	3.0	7.0	6.0	146.5	20.5	14.0	8.0	12.0
Merged-chr7-27361591-4	chr7	27361481	27361681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_032610, exon 33 of 36)	exon (NM_032610, exon 33 of 36)	-5573.0	NM_138676	192192.0	Mm.21297	NM_138676	ENSMUSG00000089832	Shkbp1	B930062H15Rik|Sb1	Sh3kbp1 binding protein 1	protein-coding	259.0	383.5	270.5	3114.5	725.5	253.5	314.0	225.0
Merged-chr8-25993212-2	chr8	25993112	25993312	+	934.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029037, intron 1 of 4)	B3|SINE|B2	909.0	NM_029037	74653.0	Mm.17631	NM_029037	ENSMUSG00000037251	Pomk	4930444A02Rik|Sgk196	protein-O-mannose kinase	protein-coding	5.0	8.5	11.5	43.0	7.5	9.0	1.5	6.5
Merged-chr18-67933194-4	chr18	67933064	67933264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172631)	promoter-TSS (NM_172631)	-9.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	36.0	75.5	47.0	528.0	52.0	27.0	19.5	22.5
Merged-chr13-24501663-5	chr13	24501576	24501776	+	907.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80513.0	NM_001286100	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	10.0	11.0	9.5	113.5	26.0	15.0	3.5	16.0
Merged-chr15-90132640-3	chr15	90132556	90132756	+	690.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91655.0	NM_001033441	380959.0	Mm.17853	NM_001033441	ENSMUSG00000075470	Alg10b	AA469671|AU045404|AW123895|C85569|Deaf1|Gm917|nse5	asparagine-linked glycosylation 10B (alpha-1,2-glucosyltransferase)	protein-coding	11.5	10.5	12.0	244.0	9.5	0.0	4.0	3.5
Merged-chr14-101662097-4	chr14	101661999	101662199	+	868.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016723, intron 2 of 8)	CT-rich|Low_complexity|Low_complexity	8132.0	NM_016723	50933.0	Mm.275970	NM_016723	ENSMUSG00000022111	Uchl3	-	ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase)	protein-coding	14.0	12.0	20.0	281.0	19.0	17.5	12.5	15.5
Merged-chr9-84544905-4	chr9	84544813	84545013	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-229485.0	NR_040739	75253.0	Mm.401984	NR_040739	ENSMUSG00000099724	4930554C24Rik	-	RIKEN cDNA 4930554C24 gene	ncRNA	7.0	7.5	2.5	73.0	77.0	16.5	37.0	25.5
Merged-chr10-94041602-1	chr10	94041502	94041702	+	560.0	f0_c57.idr	intron (NM_053072, intron 1 of 20)	intron (NM_053072, intron 1 of 20)	5601.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	0.0	0.0	0.0	13.5	37.0	17.0	10.0	9.5
Merged-chr10-53881419-4	chr10	53881347	53881547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130538.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	24.0	44.0	52.5	731.0	43.0	15.0	19.5	24.0
Merged-chr19-44264385-4	chr19	44264277	44264477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-29299.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	61.0	98.5	59.0	784.0	109.0	21.0	45.5	44.5
Merged-chr4-40703156-4	chr4	40703052	40703252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025545)	promoter-TSS (NM_025545)	42.0	NM_001025444	66408.0	Mm.430710	NM_025545	ENSMUSG00000028411	Aptx	2410016G21Rik|AA388047|FHA-HIT	aprataxin	protein-coding	106.5	169.0	103.0	1187.0	230.5	93.5	74.5	115.5
Merged-chr9-123923269-4	chr9	123923193	123923393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	45399.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	25.0	25.0	22.0	366.5	121.5	28.5	40.0	65.5
Merged-chr2-59231800-4	chr2	59231705	59231905	+	963.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	intron (NM_175464, intron 2 of 20)	70955.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	51.0	40.0	65.0	1532.0	112.5	13.0	43.5	61.5
Merged-chr12-76822467-4	chr12	76822415	76822615	+	849.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134050)	promoter-TSS (NM_134050)	9.0	NM_134050	104886.0	Mm.172847	NM_134050	ENSMUSG00000021062	Rab15	2310012G06Rik|AI840042	RAB15, member RAS oncogene family	protein-coding	9.5	14.0	14.0	164.0	19.0	3.0	8.0	6.5
Merged-chr7-65644776-4	chr7	65644680	65644880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172310)	promoter-TSS (NM_172310)	-118.0	NM_172310	272396.0	Mm.35127	NM_172310	ENSMUSG00000030515	Tarsl2	A530046H20Rik	threonyl-tRNA synthetase-like 2	protein-coding	206.0	320.0	207.5	2971.5	484.5	203.0	246.5	175.0
Merged-chr5-25007046-3	chr5	25006959	25007159	+	779.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 3 of 15)	intron (NM_145401, intron 3 of 15)	-11306.0	NM_001310480	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	7.5	3.5	7.0	109.5	7.0	5.5	6.0	12.0
Merged-chr9-99499582-4	chr9	99499485	99499685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 15 of 21)	intron (NM_028768, intron 15 of 21)	29164.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	43.5	79.0	55.0	701.0	98.5	35.5	58.0	41.0
Merged-chr1-164681810-4	chr1	164681723	164681923	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114840.0	NM_019759	56429.0	Mm.28935	NM_019759	ENSMUSG00000026574	Dpt	1810032B19Rik|5033416F05Rik|EQ-1|Eq1	dermatopontin	protein-coding	7.5	11.5	14.0	493.0	43.0	12.5	52.5	24.0
Merged-chr1-177408898-2	chr1	177408798	177408998	+	710.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33453.0	NM_001355099	30928.0	Mm.330700	NM_013915	ENSMUSG00000063659	Zbtb18	RP58|Zfp238|Znf238.|zfp-238	zinc finger and BTB domain containing 18	protein-coding	5.0	4.5	11.5	22.5	3.0	2.5	4.0	10.0
Merged-chr3-145118601-4	chr3	145118552	145118752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025714)	promoter-TSS (NM_025714)	52.0	NM_025714	52184.0	Mm.259105	NM_025714	ENSMUSG00000028256	Odf2l	4733401D09Rik|9630045K08Rik|D3Ertd250e	outer dense fiber of sperm tails 2-like	protein-coding	177.5	256.0	259.0	2707.5	380.0	164.5	184.5	158.0
Merged-chr12-3424337-4	chr12	3424246	3424446	+	950.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030694, intron 1 of 2)	intron (NR_030694, intron 1 of 2)	2401.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	11.5	18.0	9.5	213.5	38.0	2.5	19.0	18.0
Merged-chr2-180580506-1	chr2	180580406	180580606	+	714.400024	f0_balb.idr	promoter-TSS (NM_028479)	promoter-TSS (NM_028479)	-716.0	NM_028479	73247.0	Mm.426558	NM_028479	ENSMUSG00000027569	Mrgbp	1600027N09Rik|AW060503|C80444	MRG/MORF4L binding protein	protein-coding	10.0	15.5	13.0	127.5	8.5	3.5	3.0	2.5
Merged-chr19-40629122-4	chr19	40629016	40629216	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	16750.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	25.0	30.5	32.0	435.0	55.0	12.5	17.5	36.0
Merged-chr11-82177966-2	chr11	82177866	82178066	+	673.983337	f1_balb.idr|f1_c57bl6.idr	intron (NM_011329, intron 2 of 2)	intron (NM_011329, intron 2 of 2)	1846.0	NM_011329	20290.0	Mm.1283	NM_011329	ENSMUSG00000020702	Ccl1	BF534335|I-309|P500|Scya1|Tca-3|Tca3	chemokine (C-C motif) ligand 1	protein-coding	3.5	10.5	1.0	43.5	17.0	13.0	10.0	8.0
Merged-chr11-22954541-2	chr11	22954441	22954641	+	886.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361661, intron 2 of 2)	intron (NM_001361661, intron 2 of 2)	-17464.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	2.0	1.0	8.0	26.5	17.0	8.0	7.5	5.0
Merged-chr9-61946905-4	chr9	61946824	61947024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024245)	promoter-TSS (NM_024245)	-125.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	182.5	251.0	117.5	1680.5	410.5	163.5	162.5	154.5
Merged-chr9-56114077-4	chr9	56113991	56114191	+	984.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	24115.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	15.0	22.0	13.0	243.0	28.5	17.5	17.0	20.5
Merged-chr17-78400731-4	chr17	78400645	78400845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001285946, exon 5 of 7)	exon (NM_001285946, exon 5 of 7)	17407.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	29.5	36.5	46.0	885.0	64.0	30.0	34.5	45.0
Merged-chr12-34225011-1	chr12	34224911	34225111	+	811.333313	f0_balb.idr	intron (NM_001271386, intron 19 of 27)	intron (NM_001271386, intron 19 of 27)	267340.0	NM_011658	22160.0	Mm.3280	NM_011658	ENSMUSG00000035799	Twist1	M-Twist|Pde|Ska10|Ska<m10Jus>|Twist|bHLHa38|pdt	twist basic helix-loop-helix transcription factor 1	protein-coding	11.0	13.0	5.0	119.0	0.0	0.0	0.0	0.0
Merged-chr10-19549684-3	chr10	19549573	19549773	+	763.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42276.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	6.5	14.0	4.5	68.5	20.5	2.0	9.0	3.5
Merged-chr3-41565617-4	chr3	41565516	41565716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130186, intron 1 of 10)	CpG	736.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	59.5	93.0	59.5	1419.0	112.5	41.5	76.0	50.0
Merged-chr5-125278561-4	chr5	125278444	125278644	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205082, intron 11 of 11)	intron (NM_001205082, intron 11 of 11)	62550.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	18.0	19.0	20.5	128.0	45.5	18.0	12.5	27.0
Merged-chr2-90478311-4	chr2	90478213	90478413	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	L1MB5|LINE|L1	861.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	34.5	34.0	30.0	499.0	57.5	20.5	18.0	5.5
Merged-chr13-41605763-4	chr13	41605653	41605853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163572)	promoter-TSS (NM_001163572)	-463.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	128.0	198.5	94.5	1655.5	321.5	135.5	133.5	108.0
Merged-chr6-87500437-4	chr6	87500337	87500537	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	-4110.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	29.5	43.5	41.0	450.0	61.5	17.0	22.5	24.5
Merged-chr16-91740723-2	chr16	91740623	91740823	+	998.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	11352.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	12.0	12.5	8.0	108.5	9.0	3.5	6.5	8.5
Merged-chr18-37908281-4	chr18	37908168	37908368	+	938.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305980, intron 1 of 27)	intron (NM_001305980, intron 1 of 27)	27208.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	19.0	29.5	7.5	271.5	57.0	12.5	27.0	29.5
Merged-chr8-126693803-3	chr8	126693682	126693882	+	851.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-100346.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	2.0	1.0	1.0	59.5	21.5	6.5	10.5	10.0
Merged-chr8-85557727-4	chr8	85557624	85557824	+	934.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2453.0	NM_019794	56445.0	Mm.475573	NM_019794	ENSMUSG00000031701	Dnaja2	1500017M13Rik|2010206B19Rik|DNAJ|DNJ3|Dnaj3|HIRIP4|PRO3015|mDj3	DnaJ heat shock protein family (Hsp40) member A2	protein-coding	11.5	33.5	9.5	150.0	70.5	29.0	25.5	17.0
Merged-chr11-74995084-4	chr11	74995001	74995201	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 10 of 18)	intron (NM_001002764, intron 10 of 18)	69229.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	6.0	4.5	3.5	101.5	25.5	7.5	14.0	9.0
Merged-chr2-36244902-4	chr2	36244800	36245000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 8 of 10)	intron (NM_008969, intron 8 of 10)	14474.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	52.0	41.5	79.5	1420.5	118.0	26.5	58.0	79.5
Merged-chr17-84647857-4	chr17	84647754	84647954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172256, intron 10 of 12)	intron (NM_172256, intron 10 of 12)	21355.0	NM_172256	213575.0	Mm.246119	NM_172256	ENSMUSG00000024253	Dync2li1	4933404O11Rik|CGI-60|D2lic|LIC3|mD2LIC	dynein cytoplasmic 2 light intermediate chain 1	protein-coding	95.5	137.5	80.0	1575.0	266.5	99.5	117.0	96.5
Merged-chr9-82829937-4	chr9	82829873	82830073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_022986, exon 1 of 4)	5' UTR (NM_022986, exon 1 of 4)	167.0	NM_001168240	65099.0	Mm.41415	NM_022986	ENSMUSG00000032251	Irak1bp1	4921528N06Rik|AI851240|Aabp3|Aip70|Simpl	interleukin-1 receptor-associated kinase 1 binding protein 1	protein-coding	94.0	200.5	79.5	1204.0	235.5	99.0	105.0	115.5
Merged-chr16-21630772-4	chr16	21630667	21630867	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	intron (NM_001081366, intron 45 of 46)	63898.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	30.5	47.5	34.0	540.0	76.5	15.5	22.0	33.5
Merged-chr8-106611331-4	chr8	106611182	106611382	+	874.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009864, intron 2 of 15)	intron (NM_009864, intron 2 of 15)	7932.0	NM_009864	12550.0	Mm.35605	NM_009864	ENSMUSG00000000303	Cdh1	AA960649|ARC-1|E-cad|Ecad|L-CAM|UVO|Um	cadherin 1	protein-coding	8.5	6.5	17.5	158.0	16.0	9.5	8.5	9.0
Merged-chr7-123293192-4	chr7	123293093	123293293	+	861.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122641, intron 16 of 18)	intron (NM_001122641, intron 16 of 18)	76722.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	9.0	12.5	13.0	102.5	10.5	14.5	17.0	8.5
Merged-chr10-17721814-4	chr10	17721778	17721978	+	859.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1350.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	11.5	9.5	13.5	123.0	25.0	12.0	9.0	15.0
Merged-chr16-95702488-4	chr16	95702388	95702588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011809)	promoter-TSS (NM_011809)	81.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	150.5	326.0	189.5	1739.5	472.0	208.0	264.0	166.5
Merged-chr13-76055408-4	chr13	76055308	76055508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175495, exon 1 of 1)	3' UTR (NM_175495, exon 1 of 1)	1588.0	NM_175495	238725.0	Mm.167172	NM_175495	ENSMUSG00000045509	Gpr150	C030001A19Rik|PGR11	G protein-coupled receptor 150	protein-coding	23.0	36.5	25.5	669.5	71.5	19.0	35.5	23.5
Merged-chr13-105327099-4	chr13	105327014	105327214	+	854.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-32629.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	20.0	8.0	11.5	226.5	33.5	14.5	8.5	11.5
Merged-chr7-13046305-4	chr7	13046198	13046398	+	941.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290453, intron 5 of 6)	intron (NM_001290453, intron 5 of 6)	-8023.0	NM_001168469	22192.0	Mm.196580	NM_145578	ENSMUSG00000005575	Ube2m	2510040H03Rik|UBC12|Ubc-rs2	ubiquitin-conjugating enzyme E2M	protein-coding	20.5	33.0	14.0	298.5	44.0	9.5	29.5	23.5
Merged-chr11-100701515-4	chr11	100701424	100701624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030150, intron 6 of 12)	intron (NM_030150, intron 6 of 12)	2747.0	NM_030150	80861.0	Mm.271830	NM_030150	ENSMUSG00000017830	Dhx58	B430001I08Rik|D11Lgp2e|LPG2|Lgp2|RLR-3	DEXH (Asp-Glu-X-His) box polypeptide 58	protein-coding	38.0	56.5	33.5	245.5	88.5	32.5	35.0	25.0
Merged-chr5-34534085-4	chr5	34533980	34534180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	8296.0	NM_011893	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	95.5	130.0	114.0	1137.0	216.5	84.5	117.5	73.5
Merged-chr14-74847787-4	chr14	74847677	74847877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 2 of 19)	ORR1D1|LTR|ERVL-MaLR	100100.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	35.0	71.5	26.5	311.0	98.5	48.0	28.5	27.5
Merged-chr10-10458380-1	chr10	10458280	10458480	+	614.0	f1_balb.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	13934.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	3.0	6.0	2.0	25.5	15.0	8.0	6.5	7.0
Merged-chr1-40224973-4	chr1	40224890	40225090	+	936.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008362)	promoter-TSS (NM_008362)	-90.0	NM_008362	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	16.5	39.0	29.0	502.0	32.0	9.5	14.0	16.5
Merged-chr18-39559615-3	chr18	39559494	39559694	+	951.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72349.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	14.0	34.0	15.5	182.5	11.0	1.5	10.0	3.0
Merged-chr5-137533641-4	chr5	137533559	137533759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010312)	promoter-TSS (NM_010312)	-353.0	NM_010312	14693.0	Mm.30141	NM_010312	ENSMUSG00000029713	Gnb2	Gnb-2	guanine nucleotide binding protein (G protein), beta 2	protein-coding	81.5	143.0	81.5	1107.0	191.5	92.0	81.0	78.0
Merged-chr1-21101382-3	chr1	21101299	21101499	+	847.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-22174.0	NM_177409	170829.0	Mm.185680	NM_177409	ENSMUSG00000041779	Tram2	C330003D03Rik	translocating chain-associating membrane protein 2	protein-coding	17.0	16.0	5.5	197.0	33.0	4.5	10.0	6.0
Merged-chr11-55022748-1	chr11	55022648	55022848	+	599.0	f0_balb.idr	intron (NR_138556, intron 1 of 24)	intron (NR_138556, intron 1 of 24)	10723.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	9.5	8.0	6.0	86.0	6.5	4.5	2.0	12.5
Merged-chr2-159607769-3	chr2	159607668	159607868	+	711.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-339573.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	14.0	10.0	9.0	76.0	15.0	11.0	3.5	1.0
Merged-chr18-65802445-4	chr18	65802321	65802521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025468, intron 1 of 5)	intron (NM_025468, intron 1 of 5)	1843.0	NM_025468	66286.0	Mm.27800	NM_025468	ENSMUSG00000024516	Sec11c	1810029G24Rik|Sec11l3	SEC11 homolog C, signal peptidase complex subunit	protein-coding	55.0	82.5	43.5	820.0	103.0	48.5	45.5	59.0
Merged-chr1-171272188-4	chr1	171272011	171272211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020579, intron 3 of 7)	intron (NM_020579, intron 3 of 7)	1783.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	19.0	22.0	18.0	283.5	46.0	12.0	16.5	18.5
Merged-chr4-148449150-4	chr4	148449024	148449224	+	798.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020009, intron 1 of 57)	intron (NM_020009, intron 1 of 57)	542.0	NM_020009	56717.0	Mm.21158	NM_020009	ENSMUSG00000028991	Mtor	2610315D21Rik|AI327068|FRAP|FRAP2|Frap1|RAFT1|RAPT1|flat	mechanistic target of rapamycin kinase	protein-coding	6.5	12.0	7.5	87.0	30.0	5.5	14.5	12.5
Merged-chr16-94258933-4	chr16	94258832	94259032	+	669.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	intron (NM_001360045, intron 5 of 10)	31359.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	8.5	11.0	6.5	114.5	30.0	5.0	10.5	11.5
Merged-chr5-5368931-4	chr5	5368808	5369008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	11343.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	20.5	23.0	25.5	265.0	54.0	15.5	20.0	17.0
Merged-chr10-118869233-5	chr10	118869181	118869381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014390)	promoter-TSS (NM_001014390)	-378.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	126.5	219.5	115.5	1657.5	346.5	139.5	169.5	141.5
Merged-chr9-23570370-4	chr9	23570260	23570460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A2|LTR|ERVK	347284.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	41.5	45.0	29.5	802.5	56.0	23.0	36.0	36.5
Merged-chr16-23311877-3	chr16	23311783	23311983	+	946.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252506, intron 1 of 6)	L2|LINE|L2	21413.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	10.5	23.0	16.0	148.0	19.0	9.0	20.5	12.0
Merged-chr2-59184689-4	chr2	59184595	59184795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	23845.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	75.5	110.0	60.5	1050.5	203.5	63.0	91.5	76.0
Merged-chr18-60978476-4	chr18	60978369	60978569	+	968.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177407, intron 15 of 17)	intron (NM_177407, intron 15 of 17)	14915.0	NM_001286809	12322.0	Mm.131530	NM_009792	ENSMUSG00000024617	Camk2a	CaMKII|R74975|mKIAA0968	calcium/calmodulin-dependent protein kinase II alpha	protein-coding	23.0	19.5	25.5	205.0	28.0	14.0	24.0	20.5
Merged-chr2-102967001-4	chr2	102966901	102967101	+	847.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-65336.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	2.0	10.0	9.5	56.5	18.0	4.5	6.0	13.0
Merged-chr6-125645020-2	chr6	125644920	125645120	+	886.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 28 of 51)	L1MA5A|LINE|L1	-45399.0	NM_153589	243634.0	Mm.333398	NM_153589	ENSMUSG00000038115	Ano2	BC033409|Tmem16b	anoctamin 2	protein-coding	5.0	7.0	5.5	119.0	16.0	3.5	7.5	4.5
Merged-chr2-58932379-4	chr2	58932280	58932480	+	918.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	177196.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	14.0	21.0	20.0	524.5	65.0	7.5	16.0	20.0
Merged-chr18-23874777-4	chr18	23874701	23874901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 5 of 7)	intron (NM_001162941, intron 5 of 7)	70831.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	43.0	29.5	55.5	921.5	70.0	14.0	37.5	36.5
Merged-chr10-22058720-4	chr10	22058623	22058823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	9356.0	NM_053264	114671.0	Mm.288194	NM_053264	ENSMUSG00000069712	4930444G20Rik	-	RIKEN cDNA 4930444G20 gene	protein-coding	64.5	111.5	42.0	832.5	355.0	136.5	203.0	134.5
Merged-chr10-37337508-4	chr10	37337413	37337613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198587.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	91.0	150.5	88.5	1232.0	249.5	99.0	101.5	71.5
Merged-chr7-30072733-5	chr7	30072576	30072776	+	980.159973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177889, intron 1 of 6)	CpG	147.0	NM_177889	330502.0	Mm.295906	NM_177889	ENSMUSG00000098022	Zfp82	A030010D05|Krab16|Mszf3|Zfp-82	zinc finger protein 82	protein-coding	10.0	9.0	13.0	214.5	23.5	10.0	9.5	6.5
Merged-chr5-88628784-3	chr5	88628705	88628905	+	881.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359208, intron 8 of 13)	intron (NM_001359208, intron 8 of 13)	45292.0	NM_001359209	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	8.0	5.5	6.5	187.0	19.5	7.0	8.5	21.5
Merged-chr6-7800240-3	chr6	7800140	7800340	+	980.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-44984.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	22.0	7.5	13.5	307.0	18.5	7.0	9.0	20.0
Merged-chr18-65693754-4	chr18	65693657	65693857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4511.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	125.0	160.5	180.0	2210.0	179.5	79.5	124.0	82.5
Merged-chr19-56673151-4	chr19	56673027	56673227	+	957.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie5|DNA|hAT-Charlie	-49245.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	21.0	24.0	23.5	352.0	55.5	11.0	14.0	16.0
Merged-chr1-181345748-1	chr1	181345648	181345848	+	857.6666869999999	f0_balb.idr	Intergenic	Intergenic	-6880.0	NM_001160212	72978.0	Mm.338083	NM_028408	ENSMUSG00000026514	Cnih3	2900075G08Rik|CNIH-3	cornichon family AMPA receptor auxiliary protein 3	protein-coding	11.0	4.5	14.0	227.0	9.0	4.0	10.0	11.5
Merged-chr15-96566986-4	chr15	96566847	96567047	+	915.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75015.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	8.5	14.5	13.0	179.0	35.0	10.0	10.5	16.5
Merged-chr8-25745186-4	chr8	25745093	25745293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361595, intron 7 of 15)	intron (NM_001361595, intron 7 of 15)	9087.0	NM_028102	72108.0	Mm.246875	NM_028102	ENSMUSG00000061313	Ddhd2	2010305K11Rik|SAMWD1|mKIAA0725	DDHD domain containing 2	protein-coding	40.0	72.0	46.0	879.5	131.5	27.0	61.5	41.5
Merged-chr18-35707944-4	chr18	35707839	35708039	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4795.0	NM_029669	76594.0	Mm.108596	NM_029669	ENSMUSG00000024350	Dnajc18	2700075B01Rik|AU041129	DnaJ heat shock protein family (Hsp40) member C18	protein-coding	24.0	45.5	23.5	465.0	56.0	15.5	20.5	27.0
Merged-chr15-6557119-4	chr15	6557010	6557210	+	962.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22737.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	50.5	47.5	56.5	810.0	38.0	10.5	28.5	9.5
Merged-chr3-79628887-4	chr3	79628806	79629006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029482)	promoter-TSS (NM_029482)	-139.0	NM_025794	66841.0	Mm.28336	NM_025794	ENSMUSG00000027809	Etfdh	0610010I20Rik|AV001013	electron transferring flavoprotein, dehydrogenase	protein-coding	469.0	711.0	545.5	9368.5	1158.0	468.0	638.5	554.0
Merged-chr18-12131485-4	chr18	12131384	12131584	+	977.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024182, intron 1 of 12)	intron (NM_024182, intron 1 of 12)	2634.0	NM_024182	66878.0	Mm.28551	NM_024182	ENSMUSG00000024404	Riok3	1200013N13Rik|D18Ertd331e|E130306C24Rik|Sudd	RIO kinase 3	protein-coding	19.5	55.0	9.5	289.5	81.0	38.5	26.5	33.5
Merged-chr8-70793029-3	chr8	70792946	70793146	+	965.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199308)	promoter-TSS (NM_199308)	-613.0	NM_199308	546071.0	Mm.250731	NM_199308	ENSMUSG00000031833	Mast3	BC024265|mKIAA0561	microtubule associated serine/threonine kinase 3	protein-coding	19.5	15.0	13.5	181.5	33.5	12.0	7.5	7.0
Merged-chr13-47216485-4	chr13	47216392	47216592	+	892.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 2 of 7)	intron (NM_146042, intron 2 of 7)	22489.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	32.5	41.0	9.5	122.5	37.5	10.0	2.5	11.5
Merged-chr4-97772317-4	chr4	97772205	97772405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	CpG	-5321.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	279.0	403.0	301.0	4710.0	647.0	248.0	354.5	213.0
Merged-chr7-65704980-4	chr7	65704852	65705052	+	908.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11535.0	NM_026795	68634.0	Mm.476828	NM_026795	ENSMUSG00000078681	Tm2d3	1110025I09Rik|5930422O05Rik|Blp2	TM2 domain containing 3	protein-coding	18.5	23.0	11.0	105.0	41.0	19.5	16.0	14.0
Merged-chr9-119357518-4	chr9	119357406	119357606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001199568, exon 1 of 20)	5' UTR (NM_001199568, exon 1 of 20)	125.0	NM_001359699	102448.0	Mm.219497	NM_001033209	ENSMUSG00000035769	Xylb	AI132223|AI327421	xylulokinase homolog (H. influenzae)	protein-coding	106.5	129.0	80.0	1172.0	229.5	108.5	117.5	108.5
Merged-chr17-74811002-4	chr17	74810819	74811019	+	875.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	intron (NM_152817, intron 13 of 19)	93169.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	5.5	5.5	6.5	95.0	14.5	7.0	12.5	5.0
Merged-chr2-156515891-2	chr2	156515792	156515992	+	663.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291122, intron 14 of 20)	intron (NM_001291122, intron 14 of 20)	-31684.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	9.0	15.0	7.0	44.5	10.5	3.5	9.5	5.5
Merged-chr2-148443621-1	chr2	148443521	148443721	+	1000.0	f0_balb.idr	promoter-TSS (NM_010740)	promoter-TSS (NM_010740)	-86.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	6.5	6.5	19.5	180.0	13.5	1.0	1.5	7.5
Merged-chr3-27193518-3	chr3	27193367	27193567	+	976.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	10463.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	4.5	17.5	5.0	72.0	17.5	12.5	3.5	11.0
Merged-chr18-46745963-4	chr18	46745842	46746042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009681, intron 1 of 5)	intron (NM_009681, intron 1 of 5)	4066.0	NM_009681	11777.0	Mm.312536	NM_009681	ENSMUSG00000024480	Ap3s1	-	adaptor-related protein complex 3, sigma 1 subunit	protein-coding	39.0	57.5	40.5	635.0	114.5	19.5	26.0	41.0
Merged-chr12-36036875-4	chr12	36036791	36036991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	5587.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	89.0	128.5	75.0	1676.0	168.5	53.5	52.0	61.0
Merged-chr2-130501825-3	chr2	130501706	130501906	+	921.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	intron (NM_001355161, intron 1 of 21)	51528.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	17.5	15.5	15.5	354.5	18.0	6.5	9.5	15.5
Merged-chr16-11288375-4	chr16	11288261	11288461	+	873.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25448.0	NM_011608	21935.0	Mm.12935	NM_011608	ENSMUSG00000022496	Tnfrsf17	BCM|BCMA|Tnfrsf13|Tnfrsf13a	tumor necrosis factor receptor superfamily, member 17	protein-coding	8.0	15.0	10.5	2.5	68.0	17.5	14.5	13.5
Merged-chr13-37434234-4	chr13	37434130	37434330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88885.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	31.5	36.0	20.0	354.0	68.0	20.5	21.5	34.5
Merged-chr13-3523655-4	chr13	3523540	3523740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A_|LTR|ERVL	-14435.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	33.0	22.5	22.0	758.0	37.0	22.0	22.5	27.5
Merged-chr5-76906055-4	chr5	76905947	76906147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173765)	promoter-TSS (NM_173765)	-533.0	NM_173765	231326.0	Mm.39271	NM_173765	ENSMUSG00000055923	Aasdh	A230062G08Rik|A830035E16|Acsf4|U26	aminoadipate-semialdehyde dehydrogenase	protein-coding	42.0	84.5	47.0	586.0	145.5	51.5	43.0	43.5
Merged-chr16-21382360-4	chr16	21382259	21382459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40759.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	106.0	154.0	92.5	1860.0	261.5	102.0	130.0	104.0
Merged-chr8-24431497-4	chr8	24431411	24431611	+	717.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7435.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	9.5	23.5	10.0	100.5	30.0	9.0	10.0	3.5
Merged-chr1-165735016-3	chr1	165734920	165735120	+	880.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26926.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	8.0	8.5	2.5	92.0	20.0	6.0	5.5	7.5
Merged-chr15-80800915-3	chr15	80800822	80801022	+	927.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177124, intron 1 of 21)	intron (NM_177124, intron 1 of 21)	2312.0	NM_177124	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	19.0	8.0	7.0	206.5	18.5	13.5	4.5	6.5
Merged-chr18-7869872-4	chr18	7869759	7869959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001360956, exon 1 of 14)	5' UTR (NM_001360956, exon 1 of 14)	146.0	NM_001360956	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	22.0	17.5	19.5	285.5	28.5	14.0	20.5	21.5
Merged-chr12-105937306-4	chr12	105937201	105937401	+	946.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72962.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	25.0	23.0	26.5	466.5	38.0	6.5	27.5	29.0
Merged-chr10-127609835-5	chr10	127609745	127609945	+	954.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 3 of 88)	intron (NM_008512, intron 3 of 88)	11303.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	8.5	15.0	13.5	231.0	5.0	1.0	3.5	6.0
Merged-chr11-114989398-2	chr11	114989295	114989495	+	842.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_145437, intron 1 of 3)	ID_B1|SINE|B4	491.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	8.5	5.0	3.0	36.5	17.5	6.5	6.0	8.5
Merged-chr12-119357479-4	chr12	119357378	119357578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85932.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	32.0	46.0	57.0	846.5	86.0	33.5	34.0	23.0
Merged-chr14-121877581-4	chr14	121877475	121877675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130999, intron 1 of 1)	intron (NR_130999, intron 1 of 1)	695.0	NR_131002	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	50.0	141.5	36.0	480.0	133.5	52.0	37.0	29.0
Merged-chr7-16273481-4	chr7	16273377	16273577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001136471)	TTS (NM_001136471)	215.0	NM_001136270	66300.0	Mm.218698	NM_001136270	ENSMUSG00000091811	Inafm1	2610014I16Rik|Prr24	InaF motif containing 1	protein-coding	82.0	129.0	88.5	1541.5	188.5	79.0	95.0	90.0
Merged-chr11-96404507-1	chr11	96404407	96404607	+	925.0	f0_balb.idr	Intergenic	Intergenic	38749.0	NM_008266	15407.0	Mm.890	NM_008266	ENSMUSG00000018973	Hoxb1	Hox-2.9	homeobox B1	protein-coding	5.0	11.5	14.0	243.0	1.0	3.0	2.0	4.5
Merged-chr13-63431285-4	chr13	63431200	63431400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347515, intron 1 of 15)	(CCCCG)n|Simple_repeat|Simple_repeat	445.0	NM_001347515	14088.0	Mm.126106	NM_007985	ENSMUSG00000021461	Fancc	Facc	Fanconi anemia, complementation group C	protein-coding	205.0	301.0	208.0	2540.5	293.0	98.5	126.0	128.0
Merged-chr4-3780559-4	chr4	3780444	3780644	+	979.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 10 of 12)	B3A|SINE|B2	55111.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	14.5	43.0	17.0	184.5	53.5	27.5	29.0	12.0
Merged-chr9-78588631-4	chr9	78588539	78588739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276452)	promoter-TSS (NM_001276452)	-594.0	NM_001276452	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	129.0	249.0	122.5	2155.5	337.5	112.5	138.0	151.0
Merged-chr11-85652281-3	chr11	85652183	85652383	+	585.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	67461.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	9.5	6.0	9.5	78.5	7.5	0.5	2.0	5.0
Merged-chr11-113326540-1	chr11	113326440	113326640	+	876.3333130000001	f1_c57bl6.idr	intron (NM_027216, intron 6 of 9)	intron (NM_027216, intron 6 of 9)	-116871.0	NR_040276	319871.0	Mm.383743	NR_040276	ENSMUSG00000085421	4732490B19Rik	-	RIKEN cDNA 4732490B19 gene	ncRNA	7.5	5.0	0.0	72.5	9.5	6.5	6.5	11.0
Merged-chr14-122060863-4	chr14	122060773	122060973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26199.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	34.5	138.5	45.5	924.5	205.0	75.5	78.0	34.0
Merged-chr3-52243813-2	chr3	52243723	52243923	+	741.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-24514.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	7.5	15.0	6.0	162.5	9.0	2.5	7.5	8.0
Merged-chr12-85523300-4	chr12	85523191	85523391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49401.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	66.0	83.0	63.0	604.5	68.0	34.5	24.0	19.0
Merged-chr11-107466138-4	chr11	107466031	107466231	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	B4|SINE|B4	4589.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	25.0	26.0	24.5	370.0	55.5	13.5	28.0	17.0
Merged-chr9-110710815-3	chr9	110710712	110710912	+	897.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 5 of 6)	intron (NM_028312, intron 5 of 6)	31798.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	6.0	12.0	5.0	80.5	12.5	4.0	9.5	7.0
Merged-chr4-116202953-4	chr4	116202858	116203058	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-18458.0	NM_001355585	18710.0	Mm.253819	NM_181585	ENSMUSG00000028698	Pik3r3	AA414954|p55|p55pik	phosphoinositide-3-kinase regulatory subunit 3	protein-coding	24.5	35.5	10.0	212.0	40.0	5.0	20.0	17.5
Merged-chr14-49019978-4	chr14	49019859	49020059	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207214, intron 13 of 17)	intron (NM_207214, intron 13 of 17)	-46590.0	NM_001360070	74385.0	Mm.379235	NM_144535	ENSMUSG00000036291	Ap5m1	4932432K03Rik|Mu5|Mudeng	adaptor-related protein complex 5, mu 1 subunit	protein-coding	34.0	35.0	37.0	589.5	71.5	21.5	17.5	45.0
Merged-chr13-91223174-4	chr13	91223068	91223268	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 1 of 7)	intron (NM_025770, intron 1 of 7)	819.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	13.5	7.0	19.0	233.5	44.5	8.0	19.5	11.0
Merged-chr17-24152364-4	chr17	24152254	24152454	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1432.0	NM_001286662	18607.0	Mm.10504	NM_011062	ENSMUSG00000024122	Pdpk1	Pdk1	3-phosphoinositide dependent protein kinase 1	protein-coding	4.0	10.0	5.0	163.0	117.5	35.5	45.0	32.5
Merged-chr2-25621403-4	chr2	25621302	25621502	+	974.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001109993, exon 2 of 4)	exon (NM_001109993, exon 2 of 4)	600.0	NM_001040130	51875.0	Mm.271147	NM_001040130	ENSMUSG00000026939	Tmem141	1110065P14Rik|AI663999|D2Ertd217e	transmembrane protein 141	protein-coding	14.0	18.5	20.5	342.5	36.5	24.5	17.0	21.5
Merged-chr1-191275819-4	chr1	191275704	191275904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER30|DNA|hAT-Charlie	42314.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	168.0	282.0	183.5	2325.5	322.5	153.0	138.5	129.0
Merged-chr14-50842369-2	chr14	50842264	50842464	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 28 of 54)	B3|SINE|B2	28190.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	7.5	2.5	5.5	13.0	22.0	4.5	6.5	14.0
Merged-chr7-4238594-2	chr7	4238486	4238686	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001081239, exon 4 of 6)	exon (NM_001081239, exon 4 of 6)	832.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	1.5	1.5	5.0	49.0	13.5	6.0	8.0	8.0
Merged-chr19-53529043-4	chr19	53528932	53529132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085390)	promoter-TSS (NM_001085390)	-286.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	292.0	435.0	242.5	3326.0	580.0	235.5	230.0	222.5
Merged-chr13-18794642-4	chr13	18794543	18794743	+	923.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 7 of 28)	intron (NM_172120, intron 7 of 28)	77351.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	15.0	16.5	20.0	196.0	29.5	11.0	13.0	9.5
Merged-chr17-6779804-2	chr17	6779704	6779904	+	990.0833130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 1 of 12)	intron (NM_009510, intron 1 of 12)	2976.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	7.0	22.5	7.0	67.0	16.5	4.0	6.5	12.0
Merged-chr2-131494626-3	chr2	131494573	131494773	+	922.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 1 of 3)	intron (NM_001177840, intron 1 of 3)	2811.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	9.5	4.5	10.0	106.0	12.0	5.0	8.0	5.5
Merged-chr15-79670810-4	chr15	79670708	79670908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172609)	promoter-TSS (NM_172609)	-60.0	NM_172609	223696.0	Mm.246435	NM_172609	ENSMUSG00000022427	Tomm22	2310047D01|Tom22	translocase of outer mitochondrial membrane 22	protein-coding	51.5	68.0	28.0	566.5	133.5	46.5	70.5	44.0
Merged-chr12-59219006-4	chr12	59218939	59219139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033156, exon 1 of 4)	exon (NM_001033156, exon 1 of 4)	444.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	17.0	24.0	31.0	352.5	59.5	32.0	20.5	22.5
Merged-chr4-12557286-3	chr4	12557186	12557386	+	949.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-349551.0	NM_173746	208820.0	Mm.12057	NM_173746	ENSMUSG00000055963	Triqk	C130086A10|Gm11818	triple QxxK/R motif containing	protein-coding	9.5	9.5	25.5	186.5	12.5	5.0	3.5	9.5
Merged-chr6-34340670-4	chr6	34340556	34340756	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13490.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	22.0	18.0	16.5	372.5	39.0	13.5	26.5	28.0
Merged-chr16-94223247-5	chr16	94223170	94223370	+	965.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 6 of 10)	intron (NM_001360045, intron 6 of 10)	67021.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	12.5	30.0	16.0	374.0	38.5	19.0	26.0	24.0
Merged-chr4-98383225-4	chr4	98383131	98383331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053157)	promoter-TSS (NM_053157)	34.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	86.5	103.0	79.5	1303.0	195.5	77.0	110.5	74.5
Merged-chr18-26932540-2	chr18	26932495	26932695	+	697.75	f0_balb.idr|f1_balb.idr	Intergenic	RLTR45|LTR|ERVK	-1178438.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	6.0	4.5	8.5	74.0	10.5	3.0	7.0	8.0
Merged-chr19-38030958-4	chr19	38030837	38031037	+	678.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 1 of 53)	RLTR26C_MM|LTR|ERVK	12640.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	12.0	11.0	7.5	137.5	24.0	7.5	14.0	3.0
Merged-chr2-3519508-4	chr2	3519440	3519640	+	960.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177647, intron 2 of 3)	intron (NM_177647, intron 2 of 3)	6475.0	NM_177647	227526.0	Mm.211455	NM_177647	ENSMUSG00000039496	Cdnf	9330140G23|Armetl1	cerebral dopamine neurotrophic factor	protein-coding	13.5	19.5	14.5	228.5	39.5	19.5	21.0	16.5
Merged-chr4-3629033-4	chr4	3628930	3629130	+	884.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27476.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	12.0	8.5	19.5	194.5	29.0	6.5	22.5	11.5
Merged-chr12-54985801-4	chr12	54985708	54985908	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013815, intron 1 of 26)	CpG-3178	528.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	24.0	35.5	10.0	177.5	55.0	25.0	10.0	15.5
Merged-chr13-60708355-3	chr13	60708251	60708451	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 3 of 26)	RMER15|LTR|ERVL	78013.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	4.5	5.5	6.0	106.0	6.5	1.0	4.5	3.5
Merged-chr5-100915327-2	chr5	100915227	100915427	+	948.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69098.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	3.0	4.0	2.5	76.5	10.5	6.0	7.5	8.5
Merged-chr2-156539378-1	chr2	156539278	156539478	+	756.0	f0_c57.idr	intron (NM_001006664, intron 21 of 21)	intron (NM_001006664, intron 21 of 21)	-8198.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	1.0	1.0	0.0	0.0	28.5	6.5	11.5	9.0
Merged-chr19-56701048-1	chr19	56700948	56701148	+	810.0	f0_balb.idr	Intergenic	Intergenic	-21324.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	13.0	5.0	5.0	131.0	17.0	2.0	3.0	8.0
Merged-chr17-15065795-4	chr17	15065701	15065901	+	826.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12742.0	NM_001034891	381062.0	Mm.393767	NM_183133	ENSMUSG00000036552	Ermard	2210404J11Rik|2410011O22Rik|AI448938	ER membrane associated RNA degradation	protein-coding	15.5	13.0	7.0	133.0	27.5	10.0	9.5	14.5
Merged-chr4-8700368-4	chr4	8700282	8700482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277149, intron 1 of 37)	intron (NM_001277149, intron 1 of 37)	9976.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	37.0	53.5	41.0	854.5	82.0	30.5	46.5	59.5
Merged-chr7-79496166-4	chr7	79496070	79496270	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3856.0	NR_040311	101694.0	Mm.41661	NR_040311	ENSMUSG00000097023	Mir9-3hg	AI854517	Mir9-3 host gene	ncRNA	25.5	32.5	11.0	285.0	65.0	18.0	48.0	23.5
Merged-chr1-57837180-5	chr1	57837076	57837276	+	806.6309809999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144882, intron 3 of 13)	intron (NM_144882, intron 3 of 13)	-8395.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	5.0	8.5	5.5	32.5	4.5	12.0	2.5	1.0
Merged-chr3-108226659-4	chr3	108226560	108226760	+	919.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008596)	promoter-TSS (NM_008596)	-61.0	NM_008596	17306.0	Mm.316885	NM_008596	ENSMUSG00000027887	Sypl2	AI552439|Mg29	synaptophysin-like 2	protein-coding	9.0	24.5	13.0	194.5	35.5	13.5	14.0	5.5
Merged-chr7-81196828-4	chr7	81196717	81196917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16987.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	22.0	34.0	32.0	328.0	63.5	19.5	30.0	24.5
Merged-chr7-126199866-4	chr7	126199781	126199981	+	938.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 1 of 23)	intron (NM_028816, intron 1 of 23)	620.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	17.0	16.5	18.5	116.5	65.5	13.0	14.5	31.0
Merged-chr8-71611999-4	chr8	71611900	71612100	+	918.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146211, intron 1 of 11)	intron (NM_146211, intron 1 of 11)	976.0	NM_146211	234407.0	Mm.240885	NM_146211	ENSMUSG00000034807	Colgalt1	2810024B22Rik|Glt25d1	collagen beta(1-O)galactosyltransferase 1	protein-coding	8.0	18.0	9.5	87.5	40.0	12.5	4.5	10.5
Merged-chr5-110424365-4	chr5	110424252	110424452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 2 of 18)	intron (NM_001142642, intron 2 of 18)	24151.0	NM_001317042	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	69.5	105.5	78.5	1142.0	180.5	79.0	103.5	75.5
Merged-chr10-30778488-4	chr10	30778389	30778589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	24837.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	44.0	77.0	59.0	612.0	97.5	44.5	56.0	30.0
Merged-chr17-50121231-5	chr17	50121075	50121275	+	875.6966550000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	69322.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	6.0	12.5	4.0	103.0	19.0	9.0	13.5	8.5
Merged-chr2-154656923-4	chr2	154656836	154657036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029362)	promoter-TSS (NM_029362)	-90.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	197.0	342.5	225.5	2686.0	529.0	195.5	250.5	177.5
Merged-chr12-116597170-4	chr12	116597079	116597279	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011215, intron 2 of 22)	MTE2a|LTR|ERVL-MaLR	111459.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	10.5	9.0	10.5	108.5	114.5	55.0	54.5	55.5
Merged-chr18-62174702-3	chr18	62174613	62174813	+	764.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5268.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	12.0	23.5	6.0	163.5	8.0	9.0	3.5	5.0
Merged-chr15-31465959-1	chr15	31465859	31466059	+	742.0	f0_balb.idr	intron (NM_172606, intron 23 of 25)	intron (NM_172606, intron 23 of 25)	-12270.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	10.5	8.5	5.0	137.5	14.5	4.0	5.5	10.0
Merged-chr6-115367459-4	chr6	115367372	115367572	+	941.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 1 of 7)	intron (NM_001308354, intron 1 of 7)	5123.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	12.5	6.0	5.0	214.0	20.0	5.5	15.0	13.0
Merged-chr3-98026204-4	chr3	98026118	98026318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	12680.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	36.0	76.0	51.0	304.5	94.5	35.5	37.0	22.5
Merged-chr7-3962194-4	chr7	3962088	3962288	+	895.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46687.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	23.5	11.5	14.0	281.0	61.5	13.0	16.0	8.5
Merged-chr13-52062110-4	chr13	52061998	52062198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-34643.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	50.5	83.5	41.5	468.5	116.0	47.0	62.0	31.5
Merged-chr13-12302450-4	chr13	12302362	12302562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033268, intron 6 of 20)	intron (NM_033268, intron 6 of 20)	38270.0	NM_033268	11472.0	Mm.37638	NM_033268	ENSMUSG00000052374	Actn2	1110008F24Rik	actinin alpha 2	protein-coding	30.5	30.5	20.5	301.0	57.5	26.5	22.5	26.5
Merged-chr8-35971671-3	chr8	35971572	35971772	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-88715.0	NR_046181	330737.0	Mm.381743	NR_046181	ENSMUSG00000109761	5430403N17Rik	5430403N17	RIKEN cDNA 5430403N17 gene	ncRNA	53.0	43.5	56.5	859.0	0.0	0.0	0.0	1.0
Merged-chr16-78265193-4	chr16	78265086	78265286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9732.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	34.5	49.0	38.5	713.0	95.0	41.5	33.0	33.5
Merged-chr6-83077869-1	chr6	83077769	83077969	+	591.0	f0_balb.idr	promoter-TSS (NM_197992)	promoter-TSS (NM_197992)	-521.0	NM_197992	69837.0	Mm.12261	NM_197992	ENSMUSG00000069678	Pcgf1	2010002K04Rik|AU024121|Nspc1	polycomb group ring finger 1	protein-coding	9.5	14.5	20.5	142.0	14.0	6.5	5.5	15.5
Merged-chr12-82151192-4	chr12	82151090	82151290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18826.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	59.0	63.0	44.5	739.0	103.5	45.5	48.5	42.0
Merged-chr15-103486827-4	chr15	103486725	103486925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153505, exon 25 of 31)	exon (NM_153505, exon 25 of 31)	-16209.0	NM_008800	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	56.5	53.5	57.5	621.0	69.0	35.5	33.5	27.0
Merged-chr5-24878036-4	chr5	24877938	24878138	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 8 of 15)	intron (NM_145401, intron 8 of 15)	-24531.0	NR_040684	71161.0	Mm.443533	NR_040684	ENSMUSG00000086446	Prkag2os1	4933426D04Rik	protein kinase, AMP-activated, gamma 2 non-catalytic subunit, opposite strand 1	ncRNA	24.0	12.5	31.5	550.0	34.0	6.5	26.0	17.5
Merged-chr11-49712059-4	chr11	49711987	49712187	+	909.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212484, intron 1 of 11)	CpG	635.0	NM_212484	104625.0	Mm.247113	NM_212484	ENSMUSG00000020362	Cnot6	CCR4	CCR4-NOT transcription complex, subunit 6	protein-coding	13.0	14.0	28.0	183.5	55.5	10.5	12.5	27.0
Merged-chr9-22225286-3	chr9	22225184	22225384	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172763)	promoter-TSS (NM_172763)	-419.0	NM_172763	235047.0	Mm.290849	NM_172763	ENSMUSG00000057982	Zfp809	BB114266|C330026E23	zinc finger protein 809	protein-coding	17.5	40.0	26.0	277.0	47.5	23.5	15.0	19.5
Merged-chr1-87849499-4	chr1	87849375	87849575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3812.0	NM_177646	227333.0	Mm.277217	NM_177646	ENSMUSG00000070738	Dgkd	AI841987|D330025K09|DGKdelta|dgkd-2	diacylglycerol kinase, delta	protein-coding	55.5	103.0	70.5	1165.0	143.0	57.0	85.0	46.5
Merged-chr8-107293402-4	chr8	107293300	107293500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133957)	promoter-TSS (NM_133957)	-70.0	NM_018823	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	131.0	146.0	120.0	1387.5	323.5	126.0	92.5	99.0
Merged-chr9-58204786-4	chr9	58204728	58204928	+	978.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161541)	promoter-TSS (NM_001161541)	-509.0	NM_001161541	320563.0	Mm.186499	NM_177193	ENSMUSG00000051243	Islr2	B930052A04Rik|Linx|Mbu-3|mKIAA1465	immunoglobulin superfamily containing leucine-rich repeat 2	protein-coding	19.5	29.0	9.0	227.0	49.0	21.5	22.0	17.0
Merged-chr3-36854226-4	chr3	36854115	36854315	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8891.0	NM_172679	229227.0	Mm.207907	NM_172679	ENSMUSG00000037270	4932438A13Rik	4732443H21|B830039D19Rik|D630029K19Rik|FSA|Kiaa1109|Tweek	RIKEN cDNA 4932438A13 gene	protein-coding	36.5	23.5	22.0	325.0	19.0	7.0	11.0	18.5
Merged-chr4-62697625-3	chr4	62697527	62697727	+	838.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 12 of 15)	intron (NM_134257, intron 12 of 15)	23653.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	13.5	7.5	7.5	153.0	12.5	4.5	17.0	7.5
Merged-chr14-21831183-5	chr14	21831109	21831309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011695)	promoter-TSS (NM_011695)	-352.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	104.5	221.0	81.0	1893.5	311.0	127.5	186.5	142.0
Merged-chr8-116237735-4	chr8	116237627	116237827	+	772.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-267288.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	20.5	14.5	18.0	198.5	19.0	10.5	7.5	10.0
Merged-chr14-67008747-7	chr14	67008679	67008879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009761)	promoter-TSS (NM_009761)	98.0	NM_009761	12177.0	Mm.29820	NM_009761	ENSMUSG00000022051	Bnip3l	C86132|D14Ertd719e|Nip3L|Nix	BCL2/adenovirus E1B interacting protein 3-like	protein-coding	119.5	185.0	117.0	1190.5	271.5	134.5	112.5	136.0
Merged-chr14-109289048-4	chr14	109288946	109289146	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-374807.0	NM_199065	76965.0	Mm.257268	NM_199065	ENSMUSG00000075478	Slitrk1	3200001I04Rik	SLIT and NTRK-like family, member 1	protein-coding	48.5	39.5	39.5	539.0	39.0	13.5	28.0	33.5
Merged-chr14-79482421-4	chr14	79482314	79482514	+	980.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	intron (NM_007920, intron 1 of 8)	-1146.0	NM_018765	22380.0	Mm.476813	NM_018765	ENSMUSG00000022023	Wbp4	AW545037|BB101031|FBP21	WW domain binding protein 4	protein-coding	20.0	26.0	14.0	337.0	44.0	7.0	12.5	25.0
Merged-chr13-117036503-4	chr13	117036407	117036607	+	951.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10991.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	34.5	27.5	25.5	629.5	77.0	17.5	16.0	14.0
Merged-chr4-138133575-3	chr4	138133482	138133682	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355700, intron 8 of 30)	intron (NM_001355700, intron 8 of 30)	4936.0	NR_126429	73563.0	Mm.444294	NR_126429	ENSMUSG00000084804	1700095J12Rik	-	RIKEN cDNA 1700095J12 gene	ncRNA	47.5	84.0	47.0	886.0	22.0	5.0	7.0	13.0
Merged-chr5-22923615-3	chr5	22923505	22923705	+	865.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	intron (NM_001359998, intron 1 of 3)	-176721.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	0.5	0.0	0.5	21.5	23.5	22.5	16.0	4.5
Merged-chr5-144770648-5	chr5	144770514	144770714	+	780.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081362, intron 1 of 70)	ID_B1|SINE|B4	1822.0	NM_001081362	100683.0	Mm.273570	NM_001081362	ENSMUSG00000045482	Trrap	AI481500	transformation/transcription domain-associated protein	protein-coding	8.5	8.5	6.0	36.5	15.5	5.0	6.0	1.5
Merged-chr18-24205477-3	chr18	24205376	24205576	+	939.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160404)	promoter-TSS (NM_001160404)	132.0	NM_013814	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	16.5	14.0	13.5	189.0	27.5	17.5	15.5	8.0
Merged-chr3-146159578-4	chr3	146159466	146159666	+	854.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	ORR1B1|LTR|ERVL-MaLR	9392.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	16.5	27.5	4.5	213.0	39.5	12.5	18.5	14.5
Merged-chr16-87689037-4	chr16	87688934	87689134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9920.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	53.0	51.0	58.5	534.0	138.5	62.5	66.0	59.0
Merged-chr3-108148065-4	chr3	108147971	108148171	+	965.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001305461)	TTS (NM_001305461)	-1919.0	NM_010306	14679.0	Mm.271703	NM_010306	ENSMUSG00000000001	Gnai3	AI158965|AW537698|Galphai3|Gnai-3	guanine nucleotide binding protein (G protein), alpha inhibiting 3	protein-coding	17.5	31.0	10.0	181.5	51.0	21.5	21.0	33.0
Merged-chr4-53158844-4	chr4	53158757	53158957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	1038.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	156.5	269.0	196.0	2803.5	395.0	134.0	211.5	169.0
Merged-chr2-113391178-4	chr2	113391083	113391283	+	939.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285458, intron 2 of 16)	intron (NM_001285458, intron 2 of 16)	-49881.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	14.0	17.0	11.0	246.0	53.0	21.0	18.5	17.5
Merged-chr11-49101673-4	chr11	49101558	49101758	+	802.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12G|LTR|ERVK	12099.0	NM_146337	258334.0	Mm.390388	NM_146337	ENSMUSG00000047511	Olfr1396	MOR276-2	olfactory receptor 1396	protein-coding	10.5	12.5	18.5	88.5	26.5	24.0	8.5	18.5
Merged-chr16-11140805-4	chr16	11140708	11140908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145931, exon 21 of 23)	exon (NM_145931, exon 21 of 23)	-6276.0	NM_029582	106200.0	Mm.291015	NM_029582	ENSMUSG00000022498	Txndc11	2810408E11Rik|AI427833|EFP1|Txdc11	thioredoxin domain containing 11	protein-coding	83.5	132.0	126.5	1515.0	192.0	51.5	91.0	93.0
Merged-chr3-9556546-3	chr3	9556437	9556637	+	971.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 2 of 8)	intron (NM_133218, intron 2 of 8)	53548.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	9.5	41.0	24.5	327.0	18.5	4.5	3.0	9.0
Merged-chr16-46148765-4	chr16	46148651	46148851	+	766.21875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	6326.0	NM_001304528	11615.0	Mm.330692	NM_001304528	ENSMUSG00000048087	Gm4737	AL024110|EG11615	predicted gene 4737	protein-coding	4.5	8.0	11.5	156.5	9.0	5.0	5.5	3.5
Merged-chr3-87223815-2	chr3	87223712	87223912	+	747.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	39712.0	NM_030707	80891.0	Mm.45173	NM_030707	ENSMUSG00000015852	Fcrls	2810439C17Rik|9330158F12|FcRH2sc|Fcrh2|IFGP2|IgSR|MMAN-g|Msr2|moFcRH2sc	Fc receptor-like S, scavenger receptor	protein-coding	0.0	0.5	0.0	0.0	33.5	7.5	12.0	8.0
Merged-chr6-17410454-6	chr6	17410412	17410612	+	904.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR81|LTR|Gypsy	-53445.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	7.0	13.5	19.5	103.0	63.0	8.5	22.5	17.5
Merged-chr11-72041937-4	chr11	72041823	72042023	+	822.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144526)	promoter-TSS (NM_144526)	-579.0	NM_144526	109212.0	Mm.33118	NM_144526	ENSMUSG00000020808	Pimreg	2610008F03Rik|6720460F02Rik|AI115087|CATS|Fam64a	PICALM interacting mitotic regulator	protein-coding	10.5	16.5	6.5	106.0	25.0	7.5	13.5	11.0
Merged-chr9-53635023-3	chr9	53634943	53635143	+	872.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027807, exon 8 of 19)	exon (NM_027807, exon 8 of 19)	-24693.0	NM_144784	110446.0	Mm.293233	NM_144784	ENSMUSG00000032047	Acat1	6330585C21Rik|Acat	acetyl-Coenzyme A acetyltransferase 1	protein-coding	10.0	7.0	6.0	152.0	20.0	4.5	6.5	6.0
Merged-chr11-74993250-4	chr11	74993150	74993350	+	860.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 10 of 18)	intron (NM_001002764, intron 10 of 18)	67378.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	7.0	13.5	12.0	135.5	16.5	3.0	18.5	13.5
Merged-chr2-45197558-4	chr2	45197430	45197630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80088.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	116.5	182.0	102.5	1071.0	312.5	103.5	95.5	71.0
Merged-chr2-70885867-4	chr2	70885761	70885961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-60381.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	109.5	149.0	92.0	1807.0	185.0	54.5	77.0	105.0
Merged-chr5-99334208-4	chr5	99334095	99334295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-81268.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	35.5	45.5	20.5	433.0	115.5	48.5	28.5	21.0
Merged-chr5-106681128-4	chr5	106681027	106681227	+	971.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026856, intron 1 of 6)	intron (NM_026856, intron 1 of 6)	15703.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	29.0	19.0	17.0	327.5	49.0	18.5	35.0	19.5
Merged-chr13-112331383-3	chr13	112331248	112331448	+	852.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 5 of 11)	intron (NM_001168403, intron 5 of 11)	42830.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	7.5	11.5	26.0	437.0	7.0	5.5	2.0	5.0
Merged-chr16-22398922-4	chr16	22398842	22399042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358428, intron 9 of 12)	intron (NM_001358428, intron 9 of 12)	39426.0	NM_001358428	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	27.5	55.5	36.5	471.5	117.5	50.0	60.0	48.5
Merged-chr10-8769499-4	chr10	8769401	8769601	+	838.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	116569.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	20.5	19.5	18.0	247.5	23.0	7.5	10.5	9.5
Merged-chr11-88993781-4	chr11	88993694	88993894	+	948.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5609.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	21.0	28.0	19.5	349.0	50.5	16.0	13.5	18.0
Merged-chr18-68180936-1	chr18	68180836	68181036	+	890.3333130000001	f0_balb.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-47010.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	14.5	4.5	11.5	143.0	2.0	1.0	3.5	1.5
Merged-chr10-85194696-4	chr10	85194608	85194808	+	988.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	-9654.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	29.0	37.5	18.5	217.0	98.5	24.0	28.5	25.5
Merged-chr1-33883547-4	chr1	33883464	33883664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177235, exon 2 of 7)	5' UTR (NM_177235, exon 2 of 7)	24057.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	62.5	73.0	43.0	923.5	103.5	54.5	62.5	51.5
Merged-chr8-82864410-2	chr8	82864308	82864508	+	849.6666869999999	f1_balb.idr|f1_c57bl6.idr	exon (NM_177378, exon 1 of 7)	exon (NM_177378, exon 1 of 7)	1052.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	2.0	3.5	8.5	84.0	8.0	6.0	6.5	6.0
Merged-chr3-146328138-4	chr3	146328057	146328257	+	910.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50787.0	NR_033542	100038607.0	Mm.365888	NR_033542	ENSMUSG00000105602	Gm10636	-	predicted gene 10636	ncRNA	11.0	22.5	17.0	255.0	66.0	25.5	16.5	21.0
Merged-chr14-63111829-4	chr14	63111732	63111932	+	986.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER2|DNA|TcMar-Tigger	-10630.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	31.5	42.0	13.0	356.5	81.0	26.0	20.5	20.0
Merged-chr12-86801362-3	chr12	86801278	86801478	+	961.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67009.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	17.5	28.5	8.0	93.5	33.5	19.0	8.0	13.0
Merged-chr4-15987370-4	chr4	15987267	15987467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013752, intron 13 of 15)	Lx9|LINE|L1	26471.0	NM_001355615	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	21.0	39.0	20.0	604.0	114.5	9.5	38.0	34.0
Merged-chr11-16508257-4	chr11	16508152	16508352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011343, exon 1 of 4)	5' UTR (NM_011343, exon 1 of 4)	232.0	NM_011343	20335.0	Mm.325350	NM_011343	ENSMUSG00000078974	Sec61g	-	SEC61, gamma subunit	protein-coding	160.5	217.5	141.5	2443.5	406.5	118.5	190.0	144.5
Merged-chr7-30873287-4	chr7	30873195	30873395	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009845, exon 5 of 14)	exon (NM_009845, exon 5 of 14)	5733.0	NM_009845	12483.0	Mm.260994	NM_009845	ENSMUSG00000030577	Cd22	A530093D23|Lyb-8|Lyb8	CD22 antigen	protein-coding	13.5	8.5	3.0	183.0	28.0	6.5	11.5	12.0
Merged-chr9-50452601-4	chr9	50452486	50452686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41939.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	29.0	57.0	20.5	420.0	76.5	27.5	44.0	36.5
Merged-chr16-36633265-4	chr16	36633170	36633370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	32807.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	26.5	56.0	21.0	299.0	97.0	38.0	30.5	25.5
Merged-chr14-77036762-4	chr14	77036667	77036867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310648)	promoter-TSS (NM_001310648)	-5.0	NM_001310648	108811.0	Mm.102168	NM_175369	ENSMUSG00000034795	Ccdc122	4933415L06Rik	coiled-coil domain containing 122	protein-coding	102.0	180.0	103.0	1471.5	445.0	177.0	171.5	116.5
Merged-chr10-51405340-4	chr10	51405262	51405462	+	915.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75250.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	16.5	22.5	9.0	325.0	32.0	12.0	25.0	21.0
Merged-chr15-44427993-4	chr15	44427893	44428093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175009)	promoter-TSS (NM_175009)	-118.0	NM_175009	223527.0	Mm.291828	NM_175009	ENSMUSG00000022338	Eny2	1810057B09Rik|6720481I12|DC6|Ey2	ENY2 transcription and export complex 2 subunit	protein-coding	357.0	463.0	363.5	6403.0	840.5	331.5	444.0	355.0
Merged-chr5-28209989-2	chr5	28209889	28210089	+	793.5	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310511, exon 1 of 3)	5' UTR (NM_001310511, exon 1 of 3)	179.0	NM_001310511	269637.0	Mm.68286	NM_175651	ENSMUSG00000044681	Cnpy1	1500012D20Rik|9630008K15Rik|AI853839	canopy FGF signaling regulator 1	protein-coding	4.5	7.0	7.0	77.5	28.0	5.5	8.5	4.5
Merged-chr5-121999790-4	chr5	121999685	121999885	+	862.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 2 of 22)	intron (NM_007804, intron 2 of 22)	48040.0	NM_007804	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	3.0	14.5	20.5	294.5	28.0	7.0	11.0	7.5
Merged-chr10-117930094-3	chr10	117929970	117930170	+	663.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045342, intron 2 of 3)	MLT1L|LTR|ERVL-MaLR	4611.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	8.5	4.5	4.5	44.0	19.0	5.5	12.5	17.5
Merged-chr1-173694487-4	chr1	173694436	173694636	+	910.8875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162938, intron 5 of 6)	ERVB2_1-I_MM-int|LTR|ERVK	20856.0	NM_001162938	100033459.0	Mm.303377	NM_001162938	ENSMUSG00000066677	Ifi208	9830148g24rik|E430029J22Rik|NG2creBAC|Pydc3|Pyr-rv1|Tg(Cspg4-cre)1Akik	interferon activated gene 208	protein-coding	20.0	10.0	11.5	166.0	35.5	10.0	20.5	10.0
Merged-chr9-114581579-3	chr9	114581483	114581683	+	761.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17214.0	NM_001042503	636931.0	Mm.17857	NM_001042503	ENSMUSG00000079259	Trim71	2610206G21Rik|AL022943|Gm1127|Lin41|lin-41|mLin41|mlin-41	tripartite motif-containing 71	protein-coding	4.0	5.5	5.5	105.0	5.5	5.0	6.5	9.5
Merged-chr11-50276080-4	chr11	50275965	50276165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	B4A|SINE|B4	16271.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	62.5	68.5	42.0	1190.0	129.5	60.0	67.5	64.0
Merged-chr3-144381175-4	chr3	144381117	144381317	+	818.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175962.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	5.5	8.0	12.5	207.0	11.0	7.0	12.0	16.0
Merged-chr10-60351443-4	chr10	60351330	60351530	+	916.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 1 of 6)	intron (NM_028732, intron 1 of 6)	4579.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	9.5	13.0	21.0	229.5	40.5	9.0	13.0	13.5
Merged-chr10-127588515-2	chr10	127588415	127588615	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008512, exon 14 of 89)	exon (NM_008512, exon 14 of 89)	32633.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	5.5	3.0	3.0	75.5	13.0	7.0	11.5	7.0
Merged-chr17-65951136-4	chr17	65951023	65951223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023053)	promoter-TSS (NM_023053)	64.0	NM_023053	65960.0	Mm.10153	NM_023053	ENSMUSG00000024098	Twsg1	1810013J15Rik|9030422N06Rik|AW552143|D17Ertd403e|Tsg|Twg	twisted gastrulation BMP signaling modulator 1	protein-coding	39.0	46.0	42.5	572.5	95.5	42.0	41.5	29.0
Merged-chr16-91385754-4	chr16	91385666	91385866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 3 of 7)	intron (NM_001347258, intron 3 of 7)	12983.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	82.5	118.5	68.0	1153.5	159.0	62.0	74.5	64.0
Merged-chr9-106477153-4	chr9	106477058	106477258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145620)	promoter-TSS (NM_145620)	-151.0	NM_145620	27966.0	Mm.239997	NM_145620	ENSMUSG00000041506	Rrp9	55kDa|D19435|D9Wsu10e|Rnu3ip2|U3-55k	RRP9, small subunit (SSU) processome component, homolog (yeast)	protein-coding	331.0	609.5	349.0	5182.5	930.5	350.0	433.0	326.0
Merged-chr2-128804355-3	chr2	128804271	128804471	+	849.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13932.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	8.0	10.5	8.0	92.5	6.0	0.0	6.5	16.5
Merged-chr4-59360887-4	chr4	59360787	59360987	+	808.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 10 of 16)	L1MC4|LINE|L1	77746.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	7.5	7.5	2.0	123.0	24.0	12.5	17.5	18.0
Merged-chr5-90414784-4	chr5	90414671	90414871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46099.0	NM_009654	11657.0	Mm.16773	NM_009654	ENSMUSG00000029368	Alb	Alb-1|Alb1|BCL002	albumin	protein-coding	22.5	33.0	30.0	364.5	55.0	17.5	24.0	20.0
Merged-chr6-134068621-4	chr6	134068516	134068716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	32916.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	33.0	47.5	28.0	543.5	89.5	24.0	38.0	33.0
Merged-chr5-65076306-4	chr5	65076207	65076407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-31261.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	43.5	68.5	67.5	946.5	117.0	35.0	43.5	50.5
Merged-chr2-181278043-4	chr2	181277940	181278140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198169, exon 2 of 10)	exon (NM_198169, exon 2 of 10)	9926.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	25.5	21.0	30.0	608.5	52.5	18.0	39.0	31.5
Merged-chr18-50045012-3	chr18	50044931	50045131	+	775.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155293, intron 2 of 3)	MER119|DNA|hAT-Charlie	-8251.0	NM_134131	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	6.0	23.0	17.0	221.5	22.5	8.0	3.5	3.5
Merged-chr3-88488518-4	chr3	88488416	88488616	+	924.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002011, intron 1 of 11)	intron (NM_001002011, intron 1 of 11)	4796.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	12.0	13.5	13.0	100.5	42.5	22.5	6.0	15.5
Merged-chr13-55447861-4	chr13	55447767	55447967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038018, intron 1 of 15)	intron (NM_001038018, intron 1 of 15)	2536.0	NM_001112711	26385.0	Mm.10193	NM_011938	ENSMUSG00000074886	Grk6	Gprk6	G protein-coupled receptor kinase 6	protein-coding	53.5	60.5	59.5	719.0	157.5	70.0	79.0	58.5
Merged-chr15-76670215-3	chr15	76670112	76670312	+	798.422241	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007989)	promoter-TSS (NM_007989)	-264.0	NM_007989	14106.0	Mm.42011	NM_007989	ENSMUSG00000033837	Foxh1	Fast1|Fast2|fast-1|fast-2	forkhead box H1	protein-coding	3.5	16.5	1.0	28.0	48.5	13.0	12.5	12.0
Merged-chr11-54251722-2	chr11	54251622	54251822	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1823.0	NM_009969	12981.0	Mm.4922	NM_009969	ENSMUSG00000018916	Csf2	CSF|Csfgm|GMCSF|Gm-CSf|MGI-IGM	colony stimulating factor 2 (granulocyte-macrophage)	protein-coding	8.5	8.5	17.0	53.5	4.0	3.5	7.0	11.5
Merged-chr18-38185500-4	chr18	38185358	38185558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24304.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	36.5	52.5	33.5	441.0	72.5	32.5	50.0	38.0
Merged-chr15-38553637-4	chr15	38553550	38553750	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045757, intron 2 of 2)	ORR1A4|LTR|ERVL-MaLR	-34384.0	NM_018745	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	13.5	26.0	20.0	202.5	36.0	7.0	27.5	20.0
Merged-chr10-97712843-4	chr10	97712759	97712959	+	847.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033537, intron 4 of 4)	intron (NR_033537, intron 4 of 4)	-1913.0	NR_130993	78127.0	Mm.376175	NR_130992	ENSMUSG00000112497	4930525C09Rik	-	RIKEN cDNA 4930525C09 gene	ncRNA	15.0	18.5	7.0	123.0	26.5	8.0	12.5	10.5
Merged-chr2-48916042-3	chr2	48915948	48916148	+	651.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149356, intron 9 of 13)	ORR1C2|LTR|ERVL-MaLR	33219.0	NM_001177313	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	4.5	6.0	10.0	83.0	9.5	5.0	8.0	10.0
Merged-chr19-43771644-4	chr19	43771535	43771735	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-10673.0	NM_013806	12780.0	Mm.39054	NM_013806	ENSMUSG00000025194	Abcc2	AI173996|Abc30|Cmoat|Mrp2|cMRP	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	protein-coding	27.5	35.0	23.0	413.0	63.0	21.0	26.5	17.5
Merged-chr14-120263599-4	chr14	120263498	120263698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12071.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	59.0	137.0	62.0	829.0	151.0	57.0	49.5	42.5
Merged-chr13-30786291-3	chr13	30786190	30786390	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37057.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	17.5	21.5	9.0	344.0	23.0	4.0	3.5	20.0
Merged-chr11-21034211-4	chr11	21034063	21034263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57161.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	90.5	295.0	62.0	446.5	247.0	132.0	56.5	28.0
Merged-chr4-4793326-4	chr4	4793205	4793405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177730)	promoter-TSS (NM_177730)	1.0	NM_177730	242291.0	Mm.218889	NM_177730	ENSMUSG00000066324	Impad1	1110001C20Rik|AA408880|AI451589|AL022796|B230207P20|Jaws|gPAPP	inositol monophosphatase domain containing 1	protein-coding	100.5	174.0	153.0	1438.5	232.0	97.0	132.5	90.0
Merged-chr11-78916597-4	chr11	78916487	78916687	+	906.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4200.0	NM_010927	18126.0	Mm.2893	NM_010927	ENSMUSG00000020826	Nos2	MAC-NOS|NOS-II|Nos-2|Nos2a|i-NOS|iNOS	nitric oxide synthase 2, inducible	protein-coding	16.5	28.5	11.5	226.5	31.0	10.0	8.5	12.0
Merged-chr1-95647054-4	chr1	95646954	95647154	+	950.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 3 of 3)	intron (NM_001159745, intron 3 of 3)	20540.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	15.0	31.0	15.5	475.0	82.5	15.5	24.5	28.0
Merged-chr14-14640728-4	chr14	14640621	14640821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62304.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	33.5	19.5	15.0	392.5	53.0	15.0	16.0	8.5
Merged-chr11-94704116-4	chr11	94704011	94704211	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001007584, exon 1 of 2)	exon (NM_001007584, exon 1 of 2)	388.0	NM_001007584	432589.0	Mm.342314	NM_001007584	ENSMUSG00000056008	Gm11541	-	predicted gene 11541	protein-coding	25.5	18.5	17.5	188.5	50.0	13.5	20.5	30.0
Merged-chr14-31019506-4	chr14	31019418	31019618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153547)	promoter-TSS (NM_153547)	-187.0	NM_001359855	66923.0	Mm.27913	NM_025847	ENSMUSG00000042323	Pbrm1	2610016F04Rik|AI507524|BAF180|Pb1	polybromo 1	protein-coding	43.0	88.5	34.5	667.5	102.0	48.5	53.5	42.5
Merged-chr18-60716907-4	chr18	60716794	60716994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	10672.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	66.5	57.0	68.0	1092.5	112.5	25.0	57.5	71.5
Merged-chr5-23418376-7	chr5	23418311	23418511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15942.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	47.5	63.5	70.5	565.0	106.0	27.0	42.5	52.5
Merged-chr1-149843594-1	chr1	149843494	149843694	+	558.0	f0_c57.idr	intron (NM_008869, intron 15 of 17)	MTD|LTR|ERVL-MaLR	78845.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	7.5	7.0	3.0	66.0	24.0	9.0	8.5	10.5
Merged-chr19-44297638-2	chr19	44297538	44297738	+	564.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_009128, intron 2 of 5)	intron (NM_009128, intron 2 of 5)	3962.0	NM_009128	20250.0	Mm.487021	NM_009128	ENSMUSG00000025203	Scd2	Mir5114|Scd-2|mir-5114|swty	stearoyl-Coenzyme A desaturase 2	protein-coding	8.0	8.0	5.5	74.5	14.0	6.0	8.0	5.5
Merged-chr1-132133661-4	chr1	132133528	132133728	+	946.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008795, intron 1 of 15)	L2|LINE|L2	6057.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	27.0	39.5	19.0	427.0	25.5	17.5	15.0	30.5
Merged-chr2-68978843-4	chr2	68978750	68978950	+	983.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 3 of 10)	intron (NM_001347161, intron 3 of 10)	117409.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	25.0	37.0	29.0	560.5	35.5	19.5	20.0	15.5
Merged-chr7-46059112-4	chr7	46058997	46059197	+	950.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153057, intron 15 of 30)	intron (NM_153057, intron 15 of 30)	25401.0	NM_153057	211548.0	Mm.274811	NM_153057	ENSMUSG00000030835	Nomo1	D7Ertd156e|Nomo|pM5	nodal modulator 1	protein-coding	7.0	10.0	11.0	156.5	22.5	6.5	15.5	22.0
Merged-chr15-71917871-1	chr15	71917771	71917971	+	702.0	f0_balb.idr	intron (NM_027174, intron 23 of 63)	intron (NM_027174, intron 23 of 63)	116356.0	NM_027174	69700.0	Mm.322500	NM_027174	ENSMUSG00000079022	Col22a1	2310067L16Rik|C80743	collagen, type XXII, alpha 1	protein-coding	5.0	8.5	12.0	110.0	4.0	0.0	7.0	4.5
Merged-chr15-97880718-4	chr15	97880592	97880792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009504, intron 3 of 9)	intron (NM_009504, intron 3 of 9)	27604.0	NM_009504	22337.0	Mm.245084	NM_009504	ENSMUSG00000022479	Vdr	Nr1i1	vitamin D (1,25-dihydroxyvitamin D3) receptor	protein-coding	50.0	68.5	58.0	999.0	156.5	30.5	46.0	62.5
Merged-chr5-108629179-2	chr5	108629078	108629278	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_028223)	promoter-TSS (NM_028223)	599.0	NM_001359924	231580.0	Mm.276647	NM_153569	ENSMUSG00000062234	Gak	D130045N16Rik	cyclin G associated kinase	protein-coding	20.0	36.0	45.0	256.5	44.0	19.0	18.0	33.5
Merged-chr11-44356402-4	chr11	44356286	44356486	+	891.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-43677.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	11.5	1.5	10.5	137.0	36.0	9.0	9.5	15.5
Merged-chr1-132316061-4	chr1	132315919	132316119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028778)	promoter-TSS (NM_028778)	-106.0	NM_001195025	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	81.0	149.5	89.5	1063.0	204.0	88.5	105.5	74.0
Merged-chr6-38965655-4	chr6	38965560	38965760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	MTEa|LTR|ERVL-MaLR	46674.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	21.0	47.5	23.5	642.5	60.5	24.0	34.0	39.0
Merged-chr8-11550756-4	chr8	11550619	11550819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024248)	promoter-TSS (NM_024248)	52.0	NM_024248	71941.0	Mm.196576	NM_024248	ENSMUSG00000056228	Cars2	2310051N18Rik|2410044A07Rik|D530030H10Rik|cysRS	cysteinyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	135.5	163.5	144.5	1961.0	314.0	94.0	137.5	144.5
Merged-chr16-15890130-4	chr16	15890029	15890229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007679)	TTS (NM_007679)	2843.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	35.5	54.5	44.0	811.0	106.0	27.0	37.5	40.5
Merged-chr7-30563727-4	chr7	30563620	30563820	+	947.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025498)	promoter-TSS (NM_025498)	380.0	NM_170760	233073.0	Mm.34790	NM_170760	ENSMUSG00000078765	U2af1l4	AA407033|AF419339|AI451269|AW553050|U2af26	U2 small nuclear RNA auxiliary factor 1-like 4	protein-coding	8.5	27.0	13.5	302.5	49.5	14.0	22.5	10.5
Merged-chr2-61585623-4	chr2	61585515	61585715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011529, intron 1 of 7)	intron (NM_011529, intron 1 of 7)	7029.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	64.5	119.5	91.5	885.0	296.0	113.5	126.0	121.5
Merged-chr7-25712025-4	chr7	25711967	25712167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028771, exon 5 of 5)	3' UTR (NM_028771, exon 5 of 5)	6986.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	97.5	71.5	120.0	994.0	161.5	63.5	35.0	48.0
Merged-chr2-165947774-4	chr2	165947694	165947894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44843.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	23.0	19.0	22.5	245.5	66.0	32.0	49.0	41.0
Merged-chr8-85024563-4	chr8	85024468	85024668	+	905.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019652, intron 1 of 6)	intron (NM_019652, intron 1 of 6)	719.0	NM_001357203	56495.0	Mm.41475	NM_019652	ENSMUSG00000052456	Asna1	1810048H22Rik|ArsA	arsA arsenite transporter, ATP-binding, homolog 1 (bacterial)	protein-coding	6.0	9.5	2.5	115.5	34.5	5.0	7.5	16.5
Merged-chr1-162740569-4	chr1	162740475	162740675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081290)	promoter-TSS (NM_001081290)	-19.0	NM_001081290	226562.0	Mm.245446	NM_001081290	ENSMUSG00000040225	Prrc2c	1810043M20Rik|9630039I18Rik|A630006J20|Bat2d|Bat2d1|Bat2l2|E130112L15Rik|Prrc3|mKIAA1096	proline-rich coiled-coil 2C	protein-coding	144.0	171.0	82.5	1864.5	432.5	181.5	216.5	178.0
Merged-chr11-30649227-4	chr11	30649132	30649332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029344, intron 1 of 3)	CpG	164.0	NM_029344	75572.0	Mm.390319	NM_029344	ENSMUSG00000060923	Acyp2	2310004B09Rik	acylphosphatase 2, muscle type	protein-coding	52.0	76.0	56.0	750.5	113.0	55.0	76.5	49.0
Merged-chr13-3782707-4	chr13	3782596	3782796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21622.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	74.5	85.5	81.5	875.0	115.5	56.5	72.5	33.0
Merged-chr1-190944501-4	chr1	190944379	190944579	+	854.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357133, intron 8 of 8)	intron (NM_001357133, intron 8 of 8)	15657.0	NM_001357133	52477.0	Mm.289914	NM_021421	ENSMUSG00000026634	Angel2	2610307I21Rik|5730410O10Rik|AI845692|D1Ertd396e|D1Ertd654e	angel homolog 2	protein-coding	2.5	8.0	11.5	140.5	20.0	5.0	9.5	7.0
Merged-chr2-80176652-4	chr2	80176610	80176810	+	800.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger5|DNA|TcMar-Tigger	-47052.0	NM_001355140	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	0.0	1.5	3.5	28.0	16.0	5.0	6.0	8.5
Merged-chr4-63765243-4	chr4	63765124	63765324	+	965.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20111.0	NM_177371	326623.0	Mm.208152	NM_177371	ENSMUSG00000050395	Tnfsf15	Tl1|Tl1a|Tnlg1b|Vegi	tumor necrosis factor (ligand) superfamily, member 15	protein-coding	13.5	29.5	23.5	440.0	39.0	14.0	11.0	30.0
Merged-chr5-100582629-4	chr5	100582533	100582733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10428.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	35.0	30.5	24.0	570.0	85.0	24.0	21.0	33.0
Merged-chr1-88701215-4	chr1	88701126	88701326	+	940.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177305, exon 1 of 1)	exon (NM_177305, exon 1 of 1)	965.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	20.0	13.5	27.0	155.0	16.0	11.5	10.5	14.5
Merged-chr9-124118679-4	chr9	124118598	124118798	+	858.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2845.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	12.5	23.0	3.0	182.0	25.0	22.5	20.0	13.5
Merged-chr2-72980493-4	chr2	72980406	72980606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001018042)	promoter-TSS (NM_001018042)	-60.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	136.0	260.0	133.5	2361.0	416.0	188.0	205.5	184.5
Merged-chr6-84031467-4	chr6	84031364	84031564	+	846.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	MTD|LTR|ERVL-MaLR	12078.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	10.0	13.0	11.5	170.5	21.5	11.5	12.5	15.5
Merged-chr12-100184283-4	chr12	100184194	100184394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-3674.0	NR_045282	100038378.0	Mm.387075	NR_045282	ENSMUSG00000072884	Gm10433	-	predicted gene 10433	ncRNA	235.0	333.5	302.0	3800.5	595.5	230.0	309.0	292.0
Merged-chr5-31292562-2	chr5	31292462	31292662	+	954.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_022424, exon 7 of 7)	3' UTR (NM_022424, exon 7 of 7)	-1448.0	NM_026298	67661.0	Mm.293023	NM_026298	ENSMUSG00000038564	Ift172	4930553F24Rik|Slb|avc1|wim	intraflagellar transport 172	protein-coding	8.0	6.0	12.0	52.5	8.5	3.0	9.5	17.0
Merged-chr9-88939173-4	chr9	88939042	88939242	+	944.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17778.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	18.5	39.0	19.5	48.0	69.5	13.5	13.0	10.0
Merged-chr15-4016445-4	chr15	4016370	4016570	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045740)	TTS (NR_045740)	-9958.0	NM_024188	67041.0	Mm.13445	NM_024188	ENSMUSG00000022186	Oxct1	2610008O03Rik|Oxct|Oxct2a|Scot-s	3-oxoacid CoA transferase 1	protein-coding	17.0	10.0	13.0	415.5	36.0	15.0	15.5	23.0
Merged-chr1-64876441-4	chr1	64876331	64876531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 5 of 7)	intron (NM_001039493, intron 5 of 7)	80393.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	75.0	86.5	62.0	1457.5	224.0	70.5	99.0	69.0
Merged-chr9-44082775-4	chr9	44082692	44082892	+	775.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198092, intron 2 of 12)	RMER15|LTR|ERVL	-2128.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	11.0	10.5	4.0	126.0	31.5	4.5	7.5	13.5
Merged-chr14-61556904-4	chr14	61556813	61557013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025697)	promoter-TSS (NM_025697)	-27.0	NM_001310603	66674.0	Mm.282706	NM_025697	ENSMUSG00000021930	Spryd7	6330409N04Rik|Clld6	SPRY domain containing 7	protein-coding	224.0	439.5	254.0	3504.0	588.5	249.5	252.5	235.5
Merged-chr1-170924712-4	chr1	170924607	170924807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160215, intron 1 of 4)	intron (NM_001160215, intron 1 of 4)	2876.0	NM_145141	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	33.0	47.0	30.5	576.0	95.5	32.5	37.5	30.0
Merged-chr13-102683954-4	chr13	102683850	102684050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9597.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	20.0	42.5	26.5	508.0	52.0	18.5	26.5	22.0
Merged-chr12-85575030-4	chr12	85574938	85575138	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-24067.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	7.0	21.5	7.0	331.5	24.5	16.0	18.0	14.0
Merged-chr1-43472173-4	chr1	43472046	43472246	+	888.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	26395.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	15.5	24.0	9.5	100.0	32.5	16.5	7.0	18.0
Merged-chr4-145210808-4	chr4	145210749	145210949	+	909.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTG)n|Simple_repeat|Simple_repeat	-15844.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	7.0	8.5	13.5	174.5	41.5	6.5	10.0	13.0
Merged-chr2-43727822-4	chr2	43727713	43727913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21011.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	57.0	46.0	51.0	643.0	81.5	19.0	43.0	25.0
Merged-chr8-71660833-6	chr8	71660771	71660971	+	800.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029873, intron 8 of 41)	intron (NM_001029873, intron 8 of 41)	10886.0	NM_001029873	382018.0	Mm.334606	NM_001029873	ENSMUSG00000034799	Unc13a	2410078G03Rik|Munc13-1	unc-13 homolog A (C. elegans)	protein-coding	21.5	27.5	11.0	149.5	19.5	10.5	11.0	20.5
Merged-chr6-52486786-3	chr6	52486708	52486908	+	725.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5643.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	6.0	8.5	1.5	216.0	20.0	5.0	5.0	6.5
Merged-chr3-108571654-4	chr3	108571623	108571823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025444)	promoter-TSS (NM_025444)	24.0	NM_025444	99730.0	Mm.24431	NM_025444	ENSMUSG00000048100	Taf13	1810004N01Rik|2010309N11Rik|AI847295|TAFII18	TATA-box binding protein associated factor 13	protein-coding	136.5	215.5	96.5	1410.0	306.0	108.5	108.5	111.0
Merged-chr19-47067673-4	chr19	47067545	47067745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177342)	promoter-TSS (NM_177342)	-103.0	NM_177342	226182.0	Mm.301522	NM_177342	ENSMUSG00000025049	Taf5	6330528C20Rik|AV117817	TATA-box binding protein associated factor 5	protein-coding	60.5	63.0	46.5	494.5	110.5	70.5	27.5	42.5
Merged-chr4-6370802-4	chr4	6370712	6370912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	5132.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	24.5	54.5	121.0	1939.0	61.0	18.5	42.5	28.5
Merged-chr15-99474275-2	chr15	99474174	99474374	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029236, intron 1 of 1)	intron (NM_029236, intron 1 of 1)	456.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	7.5	14.5	7.5	56.5	13.0	5.0	4.5	8.0
Merged-chr14-50352592-3	chr14	50352481	50352681	+	923.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR41|LTR|ERV1	-5333.0	NM_205819	239081.0	Mm.291512	NM_205819	ENSMUSG00000051969	Tlr11	Gm287	toll-like receptor 11	protein-coding	4.5	7.0	6.0	171.5	40.0	6.5	12.5	9.5
Merged-chr3-144570342-4	chr3	144570238	144570438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053102)	promoter-TSS (NM_053102)	-89.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	322.5	501.0	295.0	4738.0	837.0	266.0	411.5	325.5
Merged-chr7-90130232-4	chr7	90130126	90130326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146194)	promoter-TSS (NM_146194)	13.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	289.0	474.5	337.0	4077.5	704.5	388.5	359.5	316.5
Merged-chr17-46297391-2	chr17	46297291	46297491	+	929.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286028)	promoter-TSS (NM_001286028)	-92.0	NM_001286028	106565.0	Mm.23633	NM_134120	ENSMUSG00000047428	Dlk2	AI413481|DLK-2|Egfl9	delta like non-canonical Notch ligand 2	protein-coding	5.0	9.0	8.5	26.0	16.0	1.5	4.0	6.0
Merged-chr6-87807302-6	chr6	87807238	87807438	+	898.677795	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	intron (NR_104478, intron 1 of 2)	2419.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	10.5	5.5	8.5	45.5	8.5	2.0	9.5	7.5
Merged-chr16-30733086-4	chr16	30732963	30733163	+	905.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	133340.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	7.0	16.5	2.0	172.0	38.5	11.0	13.5	25.0
Merged-chr11-50212126-4	chr11	50212028	50212228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1308.0	NM_011018	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	93.0	83.0	33.0	1008.5	100.5	71.0	48.5	51.5
Merged-chr10-79669864-4	chr10	79669762	79669962	+	849.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148934, intron 1 of 1)	CpG	452.0	NM_148934	110012.0	Mm.22623	NM_148934	ENSMUSG00000020308	Tpgs1	AV005629|Gm16517|Gtrgeo22|PGs1	tubulin polyglutamylase complex subunit 1	protein-coding	8.0	11.5	5.0	65.5	32.0	9.5	7.0	26.0
Merged-chr9-96725928-3	chr9	96725819	96726019	+	896.81665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175537, intron 1 of 2)	intron (NM_175537, intron 1 of 2)	5756.0	NM_175537	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	21.0	15.0	22.0	202.5	12.0	3.0	5.5	7.5
Merged-chr9-53376961-4	chr9	53376866	53377066	+	748.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176846, exon 6 of 6)	exon (NM_176846, exon 6 of 6)	-7057.0	NM_212445	68304.0	Mm.427519	NM_212445	ENSMUSG00000034487	Kdelc2	2010004J24Rik|4833410J10Rik|AW549401	KDEL (Lys-Asp-Glu-Leu) containing 2	protein-coding	4.5	8.0	10.0	98.0	23.5	11.0	12.5	10.5
Merged-chr5-123866653-4	chr5	123866556	123866756	+	745.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1140.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	6.5	8.5	0.0	66.5	41.0	5.5	10.0	12.5
Merged-chr12-16847453-4	chr12	16847348	16847548	+	809.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	36483.0	NM_033270	50496.0	Mm.23296	NM_033270	ENSMUSG00000057469	E2f6	AI462434|E2F6a|E2F6b|EMA	E2F transcription factor 6	protein-coding	9.0	13.5	9.5	182.0	22.5	9.0	14.0	10.5
Merged-chr4-16086733-4	chr4	16086612	16086812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72824.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	44.0	59.0	40.5	706.0	148.5	57.5	52.0	58.5
Merged-chr1-51480623-4	chr1	51480517	51480717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2218.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	64.0	77.5	48.5	819.0	93.5	42.0	58.0	45.0
Merged-chr13-23425663-4	chr13	23425557	23425757	+	896.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Tyr-TAC|tRNA|tRNA	-1791.0	NM_013924	30946.0	Mm.292094	NM_013924	ENSMUSG00000036376	Abt1	-	activator of basal transcription 1	protein-coding	12.0	17.0	6.0	183.0	21.0	8.5	8.5	5.5
Merged-chr17-23749007-7	chr17	23748963	23749163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015472)	promoter-TSS (NR_015472)	-173.0	NR_015472	638247.0	Mm.382600	NR_015472	ENSMUSG00000097006	9530082P21Rik	E030034P13Rik	RIKEN cDNA 9530082P21 gene	ncRNA	45.5	49.5	29.5	431.0	60.5	27.5	17.0	35.5
Merged-chr2-167319191-4	chr2	167319098	167319298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	29980.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	154.5	260.5	143.0	2380.0	370.5	132.5	152.0	145.0
Merged-chr13-100744214-4	chr13	100744111	100744311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025369, intron 1 of 3)	CpG	448.0	NM_001190264	66128.0	Mm.306173	NM_025369	ENSMUSG00000061474	Mrps36	1110018B13Rik|S36mt	mitochondrial ribosomal protein S36	protein-coding	61.5	84.5	49.0	817.5	114.5	57.5	90.0	63.5
Merged-chr18-53090543-3	chr18	53090451	53090651	+	850.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-85741.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	2.0	3.0	3.0	34.5	33.5	11.5	15.5	20.0
Merged-chr2-122032190-1	chr2	122032090	122032290	+	747.5	f0_c57.idr	intron (NM_001256055, intron 2 of 7)	intron (NM_001256055, intron 2 of 7)	3607.0	NM_001256055	100042807.0	Mm.329403	NM_001256055	ENSMUSG00000043424	Eif3j2	Eif3j-2|Gm9781|eIF3 p35|eIF3j-B	eukaryotic translation initiation factor 3, subunit J2	protein-coding	0.0	0.0	0.0	0.0	39.5	7.5	9.5	22.0
Merged-chr2-75650681-3	chr2	75650626	75650826	+	733.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8533.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	0.0	0.0	0.0	39.5	11.0	4.5	6.0	7.5
Merged-chr8-117134051-3	chr8	117133970	117134170	+	808.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163028)	TTS (NM_001163028)	-24065.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	7.0	4.5	2.0	29.0	11.5	13.0	14.0	5.5
Merged-chr8-75085053-4	chr8	75084964	75085164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8554.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	30.5	41.0	22.0	588.5	70.0	28.0	24.5	38.5
Merged-chr9-63731605-4	chr9	63731495	63731695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	26399.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	117.0	155.5	138.5	2211.5	267.5	129.5	151.5	124.5
Merged-chr2-30246007-4	chr2	30245881	30246081	+	874.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177725, intron 2 of 3)	intron (NM_177725, intron 2 of 3)	8212.0	NM_177725	241296.0	Mm.389232	NM_177725	ENSMUSG00000007476	Lrrc8a	Lrrc8|mKIAA1437	leucine rich repeat containing 8A	protein-coding	11.5	11.5	8.5	129.5	29.0	4.5	5.0	12.0
Merged-chr18-36783161-4	chr18	36783055	36783255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305627)	promoter-TSS (NM_001305627)	50.0	NM_008214	15115.0	Mm.10528	NM_008214	ENSMUSG00000001380	Hars	MMHRS	histidyl-tRNA synthetase	protein-coding	70.0	74.0	56.5	755.0	182.5	59.5	89.5	63.5
Merged-chr10-37335310-4	chr10	37335183	37335383	+	627.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-196357.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.5	7.0	11.5	124.0	25.5	7.0	3.0	5.5
Merged-chr5-107763841-4	chr5	107763738	107763938	+	939.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 17 of 17)	intron (NM_007964, intron 17 of 17)	-38033.0	NM_001267621	14581.0	Mm.2078	NM_010278	ENSMUSG00000029275	Gfi1	AW495828|Gfi-1|Pal-1|Pal1	growth factor independent 1	protein-coding	20.5	29.5	14.5	283.5	58.5	10.5	18.0	26.5
Merged-chr10-53876126-4	chr10	53876002	53876202	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125193.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	20.5	50.5	101.5	1305.0	41.5	19.0	42.5	36.0
Merged-chr6-129344615-4	chr6	129344523	129344723	+	953.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5621.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	11.5	20.0	22.5	275.0	40.5	17.0	20.5	23.0
Merged-chr8-121850135-4	chr8	121850057	121850257	+	939.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20588.0	NM_145605	234825.0	Mm.209329	NM_145605	ENSMUSG00000040263	Klhdc4	AA408426|AV352552|BC012312|G430025P05Rik	kelch domain containing 4	protein-coding	10.0	28.0	13.5	216.0	39.5	7.0	29.0	29.5
Merged-chr2-34944345-2	chr2	34944245	34944445	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009421, intron 10 of 10)	intron (NM_009421, intron 10 of 10)	17427.0	NM_009421	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	5.5	9.0	4.5	77.5	15.0	8.5	4.5	7.5
Merged-chr7-95791062-4	chr7	95790968	95791168	+	927.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-380176.0	NM_001310762	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	14.5	32.0	39.0	349.0	24.5	7.0	14.5	1.5
Merged-chr16-38346969-4	chr16	38346879	38347079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001017429)	promoter-TSS (NM_001017429)	-20.0	NM_001017429	12856.0	Mm.27396	NM_001017429	ENSMUSG00000046516	Cox17	AI037035	cytochrome c oxidase assembly protein 17	protein-coding	126.5	202.5	120.5	2048.5	475.0	142.0	180.0	150.5
Merged-chr12-80114539-4	chr12	80114454	80114654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1541.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	32.5	56.0	27.0	264.5	98.5	47.0	36.0	27.0
Merged-chr8-26744619-4	chr8	26744522	26744722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79801.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	50.0	55.5	97.5	1181.0	100.0	38.0	43.0	60.0
Merged-chr19-6235898-4	chr19	6235795	6235995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198168)	promoter-TSS (NM_198168)	-55.0	NM_198168	225849.0	Mm.118076	NM_198168	ENSMUSG00000024777	Ppp2r5b	B'beta|BC026670	protein phosphatase 2, regulatory subunit B', beta	protein-coding	73.0	123.5	65.5	1031.0	244.0	87.0	107.5	97.0
Merged-chr5-36796818-4	chr5	36796714	36796914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026242)	promoter-TSS (NM_026242)	-60.0	NM_026242	67568.0	Mm.332336	NM_026242	ENSMUSG00000055302	Mrfap1	9130413I22Rik|AL022827|Pam14	Morf4 family associated protein 1	protein-coding	75.0	95.5	74.0	788.0	297.5	97.0	113.0	97.0
Merged-chr7-24208066-4	chr7	24207923	24208123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019940, intron 1 of 3)	intron (NM_019940, intron 1 of 3)	126.0	NM_019940	56707.0	Mm.448367	NM_019940	ENSMUSG00000087598	Zfp111	-	zinc finger protein 111	protein-coding	22.0	32.5	28.5	361.5	58.0	23.0	35.5	26.0
Merged-chr19-23045111-2	chr19	23045011	23045211	+	938.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96115.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	4.5	4.0	6.5	141.5	13.5	8.5	7.5	12.0
Merged-chr5-147915305-2	chr5	147915205	147915405	+	816.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20490.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	4.5	7.5	11.0	44.0	27.0	6.0	2.5	10.5
Merged-chr14-103096866-3	chr14	103096754	103096954	+	980.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360342, intron 1 of 4)	intron (NM_001360342, intron 1 of 4)	2150.0	NM_001360341	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	6.0	18.0	16.0	276.0	17.0	7.0	7.0	8.5
Merged-chr5-41845303-4	chr5	41845170	41845370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310601)	promoter-TSS (NM_001310601)	-955.0	NM_001081422	665775.0	Mm.158726	NM_001081422	ENSMUSG00000061755	Bod1l	A230054D04Rik|AI853319|FAM44A|mKIAA1327	biorientation of chromosomes in cell division 1-like	protein-coding	22.0	44.0	33.0	474.0	85.5	21.0	44.5	31.5
Merged-chr4-150009098-4	chr4	150008993	150009193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173371)	promoter-TSS (NM_173371)	-70.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	118.5	156.5	71.5	1400.0	217.5	84.0	116.0	66.5
Merged-chr11-121703369-4	chr11	121703284	121703484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 1 of 3)	CpG	957.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	104.5	162.0	86.5	1472.5	285.5	96.0	150.0	120.5
Merged-chr2-170130671-3	chr2	170130572	170130772	+	930.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159683, intron 2 of 6)	CpG	548.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	7.0	13.5	5.5	129.0	53.0	16.0	11.5	12.0
Merged-chr7-98106790-4	chr7	98106677	98106877	+	960.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 3 of 48)	intron (NM_008663, intron 3 of 48)	2471.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	24.0	9.5	12.5	157.0	82.5	23.0	36.5	26.5
Merged-chr14-66873495-4	chr14	66873360	66873560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4610.0	NM_001034881	432870.0	Mm.425890	NM_001034881	ENSMUSG00000075553	Gm5464	EG432870	predicted gene 5464	protein-coding	29.0	28.5	25.5	192.5	60.5	20.0	22.0	22.0
Merged-chr12-3780492-4	chr12	3780394	3780594	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007886, intron 18 of 18)	intron (NM_007886, intron 18 of 18)	-26486.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	31.0	41.5	19.0	339.5	47.5	14.0	20.0	27.0
Merged-chr2-72170726-4	chr2	72170628	72170828	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 3 of 26)	ORR1B2|LTR|ERVL-MaLR	-114909.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	24.5	55.0	36.5	370.5	49.5	11.5	31.5	24.5
Merged-chr13-5779052-4	chr13	5778975	5779175	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79017.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	16.0	16.5	14.0	187.0	38.5	11.5	10.0	6.5
Merged-chr7-25789505-4	chr7	25789391	25789591	+	845.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190974)	promoter-TSS (NM_001190974)	-758.0	NM_001190975	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	10.0	18.0	4.5	101.0	21.5	7.0	9.0	17.0
Merged-chr12-91751507-4	chr12	91751413	91751613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	Lx7|LINE|L1	34923.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	31.0	33.5	34.5	506.0	93.0	16.5	23.5	31.5
Merged-chr11-115187344-4	chr11	115187247	115187447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025400)	promoter-TSS (NM_025400)	-31.0	NM_025400	66176.0	Mm.86823	NM_025400	ENSMUSG00000015542	Nat9	1110028N05Rik	N-acetyltransferase 9 (GCN5-related, putative)	protein-coding	197.5	292.0	180.5	2265.0	452.5	220.0	203.5	197.0
Merged-chr7-134556209-4	chr7	134556105	134556305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-114482.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	98.0	91.5	94.5	1610.0	105.0	65.5	65.5	48.5
Merged-chr11-116103718-4	chr11	116103629	116103829	+	861.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6506.0	NM_001205081	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	13.0	15.5	11.5	121.5	40.5	8.0	4.5	13.0
Merged-chr9-21718225-2	chr9	21718125	21718325	+	895.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-5351.0	NM_001252658	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	1.0	6.5	3.0	128.0	7.5	6.0	6.5	8.5
Merged-chr6-125350679-4	chr6	125350583	125350783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	960.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	21.0	31.5	20.0	269.0	85.0	32.5	26.0	25.0
Merged-chr15-103310609-4	chr15	103310536	103310736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030720)	promoter-TSS (NM_030720)	-198.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	143.5	277.5	162.5	1818.0	346.0	151.0	141.0	91.5
Merged-chr13-81110353-4	chr13	81110242	81110442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	146268.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	28.0	38.0	25.5	539.0	87.0	24.5	44.5	48.0
Merged-chr10-108191698-4	chr10	108191602	108191802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027892, intron 1 of 25)	intron (NM_027892, intron 1 of 25)	29302.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	137.5	215.5	219.5	2755.5	312.0	110.5	172.0	146.5
Merged-chr5-136962758-4	chr5	136962667	136962867	+	978.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025562, intron 1 of 4)	intron (NM_025562, intron 1 of 4)	690.0	NM_025562	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	18.0	38.0	12.0	219.5	64.5	21.5	25.5	29.0
Merged-chr17-67196483-2	chr17	67196361	67196561	+	719.75	f0_balb.idr|f1_balb.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	157998.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	2.0	12.0	8.0	170.0	18.0	8.5	16.0	4.5
Merged-chr12-77058806-3	chr12	77058723	77058923	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96575.0	NM_001146176	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	19.0	6.5	13.0	502.5	13.0	2.0	11.0	9.5
Merged-chr1-136465371-2	chr1	136465271	136465471	+	903.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2477.0	NM_001287179	381293.0	Mm.458468	NM_001081258	ENSMUSG00000041498	Kif14	D1Ertd367e|E130203M01	kinesin family member 14	protein-coding	5.0	8.0	5.0	26.0	13.5	2.5	2.5	3.5
Merged-chr6-54048982-4	chr6	54048885	54049085	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	9053.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	35.0	45.5	13.5	512.5	76.0	18.5	34.0	30.0
Merged-chr13-102665924-3	chr13	102665756	102665956	+	858.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27691.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	9.0	7.0	8.5	130.0	18.5	6.0	4.5	5.0
Merged-chr9-63989448-4	chr9	63989367	63989567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	32592.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	83.0	125.0	82.5	1498.0	147.5	37.5	65.5	62.5
Merged-chr10-39261339-4	chr10	39261246	39261446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97552.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	94.5	136.0	119.5	1810.0	205.0	66.0	105.0	76.5
Merged-chr10-80148926-4	chr10	80148831	80149031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305799)	promoter-TSS (NM_001305799)	659.0	NM_001347117	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	107.0	184.5	113.5	1354.0	375.0	140.0	150.0	156.5
Merged-chr19-36834768-4	chr19	36834676	36834876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163635, intron 1 of 26)	CpG	544.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	17.5	26.0	44.5	444.5	76.0	19.5	16.5	19.5
Merged-chr5-123145435-3	chr5	123145345	123145545	+	873.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 4 of 16)	intron (NM_001040398, intron 4 of 16)	3252.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	4.0	23.0	21.5	163.0	17.0	5.5	11.0	9.0
Merged-chr13-59676962-4	chr13	59676798	59676998	+	880.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-1114.0	NM_027307	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	5.0	15.0	8.5	32.0	20.0	12.0	11.0	8.0
Merged-chr19-11601481-1	chr19	11601381	11601581	+	909.0	f1_c57bl6.idr	intron (NM_026835, intron 3 of 6)	intron (NM_026835, intron 3 of 6)	3323.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	0.0	2.5	2.0	19.5	14.0	6.5	7.0	6.5
Merged-chr6-53708082-4	chr6	53707963	53708163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112762.0	NM_025817	66873.0	Mm.422727	NM_025817	ENSMUSG00000043496	Tril	1200009O22Rik|AI316813|mKIAA0644	TLR4 interactor with leucine-rich repeats	protein-coding	25.5	64.5	31.5	301.5	58.5	37.0	44.0	31.5
Merged-chr3-152884158-3	chr3	152884067	152884267	+	973.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	98040.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	18.0	15.0	14.0	285.0	6.0	0.0	2.5	7.0
Merged-chr2-122452698-4	chr2	122452620	122452820	+	960.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356532, intron 10 of 17)	ID_B1|SINE|B4	11900.0	NM_001356532	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	11.0	42.0	26.0	437.0	39.5	10.5	21.0	10.5
Merged-chr13-4663508-2	chr13	4663408	4663608	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54344.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	7.5	7.0	5.0	53.5	11.0	5.0	4.5	6.0
Merged-chr8-111233958-4	chr8	111233866	111234066	+	947.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009149, intron 1 of 25)	intron (NM_009149, intron 1 of 25)	25236.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	11.5	12.5	13.0	325.5	50.5	22.5	12.5	30.0
Merged-chr8-105283324-4	chr8	105283221	105283421	+	940.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001166394, exon 5 of 7)	exon (NM_001166394, exon 5 of 7)	6207.0	NM_001166394	74356.0	Mm.204876	NM_028888	ENSMUSG00000014837	4931428F04Rik	AI426165|Kiaa0895l	RIKEN cDNA 4931428F04 gene	protein-coding	28.0	25.0	16.0	292.5	59.0	9.5	19.0	17.5
Merged-chr6-142757266-4	chr6	142757155	142757355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009908, intron 1 of 7)	intron (NM_009908, intron 1 of 7)	569.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	61.0	57.5	48.0	874.5	145.0	53.5	48.5	50.0
Merged-chr11-115708661-4	chr11	115708555	115708755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008163)	promoter-TSS (NM_008163)	-58.0	NM_008163	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	116.5	236.5	133.0	1599.5	441.0	162.0	190.5	159.5
Merged-chr18-5603683-4	chr18	5603578	5603778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360981, intron 2 of 8)	intron (NM_001360981, intron 2 of 8)	11031.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	41.0	42.0	20.5	876.5	103.5	47.5	53.0	34.0
Merged-chr19-34524857-6	chr19	34524809	34525009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021460, intron 1 of 9)	intron (NM_021460, intron 1 of 9)	2565.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	17.0	37.5	36.0	204.0	44.0	21.5	24.0	26.0
Merged-chr11-119339874-3	chr11	119339778	119339978	+	739.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130886, intron 18 of 21)	B3|SINE|B2	15632.0	NM_018822	27029.0	Mm.103788	NM_018822	ENSMUSG00000005043	Sgsh	4632406A19Rik	N-sulfoglucosamine sulfohydrolase (sulfamidase)	protein-coding	12.0	2.5	1.5	88.5	14.5	5.5	4.5	5.0
Merged-chr10-94464070-3	chr10	94463945	94464145	+	795.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-50812.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	7.0	5.0	10.0	75.0	9.5	1.5	2.0	6.5
Merged-chr15-79511706-4	chr15	79511589	79511789	+	851.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4719.0	NM_134090	105785.0	Mm.298199	NM_134090	ENSMUSG00000010830	Kdelr3	AI173274	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	protein-coding	12.0	19.0	14.0	117.0	24.5	11.0	9.5	7.0
Merged-chr16-95659709-4	chr16	95659613	95659813	+	945.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42694.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	24.5	42.5	17.0	415.0	37.5	11.0	25.0	22.0
Merged-chr13-73803538-4	chr13	73803434	73803634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 17 of 24)	intron (NM_001360694, intron 17 of 24)	39837.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	60.5	71.0	41.5	928.5	118.0	38.5	56.5	42.5
Merged-chr6-53287267-4	chr6	53287177	53287377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001327821)	promoter-TSS (NM_001327821)	-26.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	53.0	151.0	63.5	919.5	93.5	43.5	42.0	26.0
Merged-chr13-12408873-4	chr13	12408760	12408960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144835, intron 13 of 44)	intron (NM_144835, intron 13 of 44)	13485.0	NM_144835	217995.0	Mm.171186	NM_144835	ENSMUSG00000050244	Heatr1	AA517551|B130016L12Rik|BC019693	HEAT repeat containing 1	protein-coding	152.0	187.5	175.5	2692.0	331.5	102.5	151.5	114.5
Merged-chr2-58940661-1	chr2	58940561	58940761	+	932.5	f0_balb.idr	intron (NM_001362394, intron 9 of 13)	intron (NM_001362394, intron 9 of 13)	185477.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	12.0	6.0	10.0	214.0	9.0	3.5	5.0	12.0
Merged-chr2-91237100-4	chr2	91237001	91237201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015464)	promoter-TSS (NR_015464)	-35.0	NM_028119	107986.0	Mm.389334	NM_028119	ENSMUSG00000002109	Ddb2	2610043A19Rik	damage specific DNA binding protein 2	protein-coding	174.5	232.0	159.5	1798.5	417.5	165.5	207.5	159.0
Merged-chr10-70181592-4	chr10	70181511	70181711	+	957.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111121, intron 6 of 8)	intron (NM_001111121, intron 6 of 8)	-23053.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	16.0	15.0	14.5	217.5	60.0	13.5	18.0	10.5
Merged-chr4-6517806-4	chr4	6517688	6517888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63517.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	25.0	22.0	28.0	465.0	77.5	18.0	46.5	40.5
Merged-chr1-57983610-1	chr1	57983510	57983710	+	559.0	f0_balb.idr	Intergenic	Lx6|LINE|L1	-1730.0	NM_001177867	68549.0	Mm.32800	NM_199007	ENSMUSG00000026039	Sgo2a	1110007N04Rik|4932411A20Rik|5730576N04Rik|AU018846|AV008062|D1Ertd8e|Sgol2|Sgol2a|Tripin	shugoshin 2A	protein-coding	5.0	15.5	11.0	81.5	8.5	0.5	1.5	7.0
Merged-chr3-126599606-4	chr3	126599499	126599699	+	676.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	2648.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	5.0	7.5	4.5	228.0	27.0	2.5	12.5	11.5
Merged-chr16-91362862-3	chr16	91362789	91362989	+	803.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9894.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	13.5	25.0	12.0	46.5	9.0	9.0	2.5	6.0
Merged-chr1-170897180-4	chr1	170897083	170897283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11643.0	NM_023173	80915.0	Mm.34365	NM_023173	ENSMUSG00000026659	Dusp12	1190004O14Rik|AA027408|AW049275|ESTM36|LMW-DSP4|T-DSP4|VH1|mVH1	dual specificity phosphatase 12	protein-coding	46.0	51.5	35.0	614.5	92.0	38.5	43.0	45.5
Merged-chr10-118643731-2	chr10	118643631	118643831	+	795.916687	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-87206.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	2.0	3.5	4.0	75.0	10.5	5.5	14.5	11.0
Merged-chr3-95623728-2	chr3	95623628	95623828	+	827.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	-1252.0	NM_019561	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	2.0	1.5	2.0	26.0	5.0	4.5	5.0	6.0
Merged-chr11-84522803-3	chr11	84522702	84522902	+	884.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008498, intron 1 of 4)	CpG	2732.0	NM_008498	16869.0	Mm.4965	NM_008498	ENSMUSG00000018698	Lhx1	Lim1	LIM homeobox protein 1	protein-coding	21.5	16.5	12.0	216.5	7.0	11.0	6.0	13.0
Merged-chr3-37421386-3	chr3	37421294	37421494	+	785.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021343, intron 1 of 15)	intron (NM_021343, intron 1 of 15)	1444.0	NM_021343	57815.0	Mm.172679	NM_021343	ENSMUSG00000027722	Spata5	2510048F20Rik|C78064|Spaf	spermatogenesis associated 5	protein-coding	10.5	8.0	9.0	149.0	11.5	3.0	5.5	19.0
Merged-chr2-3284037-4	chr2	3283939	3284139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290370)	promoter-TSS (NM_001290370)	-173.0	NM_008708	18108.0	Mm.65021	NM_008708	ENSMUSG00000026643	Nmt2	A930001K02Rik|AI605445|AU044698|hNMT-2	N-myristoyltransferase 2	protein-coding	412.5	568.0	456.5	5256.5	1178.5	533.5	588.0	483.5
Merged-chr10-94521103-2	chr10	94521003	94521203	+	988.099976	f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	intron (NM_172051, intron 1 of 3)	6246.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	2.5	4.0	6.5	53.5	13.5	5.5	5.0	7.5
Merged-chr14-47375214-4	chr14	47375136	47375336	+	822.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145953, intron 1 of 5)	ORR1A2|LTR|ERVL-MaLR	1376.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	2.5	9.0	17.0	58.5	20.0	5.5	6.0	17.0
Merged-chr9-65032390-4	chr9	65032324	65032524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028906)	promoter-TSS (NM_028906)	-34.0	NM_028906	74388.0	Mm.202749	NM_028906	ENSMUSG00000032393	Dpp8	2310004I03Rik|4932434F09Rik|AI666706|DPP VIII	dipeptidylpeptidase 8	protein-coding	61.5	62.0	37.5	775.5	159.0	48.5	43.5	55.5
Merged-chr12-29713486-4	chr12	29713381	29713581	+	879.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361657, intron 3 of 24)	intron (NM_001361657, intron 3 of 24)	-27036.0	NR_046080	328075.0	Mm.447832	NR_046080	ENSMUSG00000112663	C630031E19Rik	C630031E19	RIKEN cDNA C630031E19 gene	ncRNA	17.0	6.0	6.5	113.0	62.5	24.0	18.0	17.5
Merged-chr14-70545290-4	chr14	70545194	70545394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_180588)	promoter-TSS (NM_180588)	43.0	NM_180588	72549.0	Mm.46742	NM_180588	ENSMUSG00000033589	Reep4	2700029E10Rik	receptor accessory protein 4	protein-coding	42.5	67.0	48.0	572.0	88.0	33.5	57.0	32.5
Merged-chr6-124637257-4	chr6	124637150	124637350	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1165.0	NM_173864	317677.0	Mm.483270	NM_173864	ENSMUSG00000079343	C1s2	C1sb|EG317677|Gm5077	complement component 1, s subcomponent 2	protein-coding	34.0	103.0	48.0	259.5	85.0	39.0	35.0	25.0
Merged-chr3-116858520-6	chr3	116858422	116858622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1045.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	11.5	27.0	28.0	353.0	62.0	26.5	16.0	26.5
Merged-chr14-73237923-4	chr14	73237834	73238034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175116)	promoter-TSS (NM_175116)	43.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	61.0	129.5	75.5	800.5	192.0	108.5	82.5	88.0
Merged-chr3-65372874-4	chr3	65372777	65372977	+	874.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357358, intron 13 of 13)	intron (NM_001357358, intron 13 of 13)	19676.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	10.5	10.5	9.0	218.5	46.0	3.5	12.0	13.5
Merged-chr7-88280808-2	chr7	88280708	88280908	+	971.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 1 of 6)	intron (NM_009982, intron 1 of 6)	2723.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	8.0	8.0	10.5	57.5	25.0	3.0	6.0	2.5
Merged-chr10-119040015-4	chr10	119039888	119040088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152787, intron 3 of 3)	intron (NR_152787, intron 3 of 3)	10511.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	26.0	29.5	38.5	447.5	56.0	18.0	32.0	24.0
Merged-chr14-45038200-4	chr14	45038079	45038279	+	982.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	50068.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	10.5	47.5	22.5	417.5	60.5	31.5	25.5	21.0
Merged-chr5-147742724-4	chr5	147742643	147742843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16755.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	37.5	36.0	27.5	427.5	59.0	46.0	38.5	37.5
Merged-chr9-124013435-4	chr9	124013321	124013521	+	802.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8550.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	15.0	17.0	10.5	307.0	22.5	5.0	11.0	9.5
Merged-chr8-69189665-4	chr8	69189577	69189777	+	886.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19369.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	12.5	18.0	17.5	148.0	19.0	11.0	13.5	19.0
Merged-chr17-50588184-4	chr17	50588094	50588294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	MTD|LTR|ERVL-MaLR	78647.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	17.5	23.5	18.5	509.5	46.0	23.0	27.5	29.5
Merged-chr17-81536357-4	chr17	81536269	81536469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	202018.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	52.5	76.5	71.5	1000.5	118.0	47.0	47.5	42.0
Merged-chr3-146156390-4	chr3	146156287	146156487	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	intron (NM_001005846, intron 1 of 13)	6213.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	61.5	114.5	59.5	718.0	164.0	63.5	52.0	27.0
Merged-chr4-14826580-4	chr4	14826488	14826688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152812)	promoter-TSS (NM_152812)	-1.0	NM_152812	72201.0	Mm.387724	NM_152812	ENSMUSG00000040550	Otud6b	2600013N14Rik|AU015433	OTU domain containing 6B	protein-coding	356.0	480.5	399.5	5528.0	759.5	308.5	402.0	251.5
Merged-chr14-55698287-3	chr14	55698159	55698359	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14829.0	NM_019984	21816.0	Mm.41964	NM_019984	ENSMUSG00000022218	Tgm1	2310004J08Rik|Tgase1	transglutaminase 1, K polypeptide	protein-coding	8.5	16.0	7.0	162.5	19.0	2.5	4.0	15.5
Merged-chr11-115322544-4	chr11	115322497	115322697	+	828.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362400)	promoter-TSS (NM_001362400)	67.0	NM_001362400	237987.0	Mm.44542	NM_172801	ENSMUSG00000050201	Otop2	4732464P15	otopetrin 2	protein-coding	6.0	9.5	7.0	37.0	16.0	2.0	4.5	7.5
Merged-chr2-21179310-4	chr2	21179179	21179379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26086.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	19.5	26.0	28.0	515.0	37.0	18.0	14.0	21.0
Merged-chr6-21959116-4	chr6	21959049	21959249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 4 of 11)	Lx9|LINE|L1	9534.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	78.0	91.5	81.5	1725.5	179.0	76.5	69.0	86.5
Merged-chr2-120098041-4	chr2	120097930	120098130	+	927.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 4 of 5)	intron (NM_133838, intron 4 of 5)	56545.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	21.5	9.5	13.0	300.5	34.5	6.0	31.0	33.0
Merged-chr19-6950746-3	chr19	6950666	6950866	+	844.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007522, exon 3 of 4)	exon (NM_007522, exon 3 of 4)	8204.0	NM_001285453	12015.0	Mm.4387	NM_007522	ENSMUSG00000024959	Bad	AI325008|Bbc2	BCL2-associated agonist of cell death	protein-coding	6.0	8.5	8.0	48.5	15.5	10.5	5.5	10.0
Merged-chr9-13584694-3	chr9	13584574	13584774	+	940.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35315.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	11.0	25.5	7.5	250.0	9.5	8.5	3.5	6.0
Merged-chr2-18816198-4	chr2	18816082	18816282	+	932.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14364.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	11.5	10.0	21.5	322.5	20.0	4.5	23.5	12.0
Merged-chr3-103830881-4	chr3	103830787	103830987	+	877.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D2|LTR|ERVK	-1809.0	NM_001142959	229672.0	Mm.297245	NM_001142959	ENSMUSG00000044165	Bcl2l15	Bfk|Gm566	BCLl2-like 15	protein-coding	15.5	31.5	11.0	91.5	33.0	8.0	8.0	13.0
Merged-chr12-55474829-1	chr12	55474729	55474929	+	656.333313	f0_balb.idr	Intergenic	Intergenic	17818.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	9.5	9.0	7.5	105.0	12.5	6.5	3.5	6.0
Merged-chr2-126152078-4	chr2	126151982	126152182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026981)	promoter-TSS (NM_026981)	-59.0	NM_001355583	69185.0	Mm.29019	NM_026981	ENSMUSG00000023330	Dtwd1	1810033A06Rik	DTW domain containing 1	protein-coding	187.5	335.0	151.0	2870.5	452.5	158.0	251.5	155.0
Merged-chr13-101767305-4	chr13	101767206	101767406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 1 of 15)	CpG	911.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	28.0	35.0	47.0	420.5	63.0	25.0	27.0	23.5
Merged-chr1-37872269-4	chr1	37872141	37872341	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037918)	promoter-TSS (NM_001037918)	35.0	NM_001037918	623661.0	Mm.138000	NM_001037918	ENSMUSG00000037216	Lipt1	EG623661	lipoyltransferase 1	protein-coding	30.5	30.5	22.5	398.5	55.0	26.5	33.0	14.5
Merged-chr15-35460456-4	chr15	35460351	35460551	+	914.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177151, intron 16 of 61)	intron (NM_177151, intron 16 of 61)	88905.0	NM_177151	666173.0	Mm.309250	NM_177151	ENSMUSG00000037646	Vps13b	1810042B05Rik|2310042E16Rik|4732488H20|C330002D13Rik|C87206|Coh1|D230005K13|mKIAA0532|mKIAA5032	vacuolar protein sorting 13B	protein-coding	10.5	13.0	13.5	348.5	34.5	9.0	18.0	16.0
Merged-chr3-84773097-3	chr3	84772995	84773195	+	787.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42482.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	13.5	16.5	16.5	153.5	14.5	2.5	9.0	9.0
Merged-chr14-121036198-2	chr14	121036098	121036298	+	742.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_134082, intron 1 of 26)	CpG	624.0	NM_134082	223254.0	Mm.223980	NM_134082	ENSMUSG00000025555	Farp1	AW228844|BC030329|Cdep	FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)	protein-coding	4.5	6.0	9.0	56.0	13.5	3.0	8.0	15.5
Merged-chr3-116615867-4	chr3	116615773	116615973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289568, intron 9 of 17)	ORR1E|LTR|ERVL-MaLR	-1286.0	NM_030016	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	36.5	62.5	56.0	890.5	51.0	21.5	40.5	40.5
Merged-chr17-47688100-4	chr17	47687992	47688192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001290337)	TTS (NM_001290337)	294.0	NM_025365	66119.0	Mm.89912	NM_025365	ENSMUSG00000033475	Tomm6	1110002E23Rik|AI663970	translocase of outer mitochondrial membrane 6	protein-coding	123.5	169.0	82.5	1853.0	408.5	127.0	138.5	129.5
Merged-chr11-100525132-4	chr11	100525009	100525209	+	798.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134037, intron 1 of 27)	intron (NM_134037, intron 1 of 27)	2891.0	NM_134037	104112.0	Mm.282039	NM_134037	ENSMUSG00000020917	Acly	A730098H14Rik|AW538652	ATP citrate lyase	protein-coding	9.0	9.0	5.5	158.5	28.0	8.5	8.0	16.0
Merged-chr11-59554359-4	chr11	59554247	59554447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 5 of 9)	RSINE1|SINE|B4	11661.0	NR_153314	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	73.0	112.5	28.0	452.5	159.5	51.0	49.5	47.5
Merged-chr13-64154129-4	chr13	64154014	64154214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175494)	promoter-TSS (NM_175494)	-915.0	NM_175494	238673.0	Mm.300065	NM_175494	ENSMUSG00000044934	Zfp367	8030486J21Rik|ZFF29a|ZFF29b|Znf367	zinc finger protein 367	protein-coding	35.5	67.0	40.5	783.5	143.5	43.5	69.5	63.0
Merged-chr17-83727857-4	chr17	83727758	83727958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 3 of 16)	intron (NM_054082, intron 3 of 16)	21695.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	58.0	61.5	36.0	678.0	127.5	27.0	43.0	55.0
Merged-chr8-126585694-4	chr8	126585519	126585719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7817.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	26.0	15.5	11.0	228.0	51.5	19.0	12.0	16.0
Merged-chr15-76538788-4	chr15	76538669	76538869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013909)	promoter-TSS (NM_013909)	-23.0	NM_013909	30840.0	Mm.275279	NM_013909	ENSMUSG00000022559	Fbxl6	AU021795|Fbl6	F-box and leucine-rich repeat protein 6	protein-coding	97.5	118.5	65.5	1529.5	233.5	74.0	108.0	93.0
Merged-chr19-42045438-4	chr19	42045326	42045526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026152)	promoter-TSS (NM_026152)	-425.0	NM_026152	67432.0	Mm.24196	NM_026152	ENSMUSG00000025176	Hoga1	0610010D20Rik|Dhdpsl|Npl2	4-hydroxy-2-oxoglutarate aldolase 1	protein-coding	91.5	120.0	65.0	1251.5	219.5	82.5	89.5	49.5
Merged-chr11-115133983-4	chr11	115133876	115134076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145634)	promoter-TSS (NM_145634)	16.0	NM_001347648	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	74.0	106.5	57.0	899.0	135.5	57.5	75.5	62.5
Merged-chr2-156840775-4	chr2	156840732	156840932	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291124, intron 1 of 3)	CpG	825.0	NM_173396	228839.0	Mm.315625	NM_173396	ENSMUSG00000062175	Tgif2	4921501K24|5730599O09Rik|C80753|C81206	TGFB-induced factor homeobox 2	protein-coding	12.5	4.5	14.5	52.5	15.0	5.0	4.0	6.0
Merged-chr7-43985821-4	chr7	43985744	43985944	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9783.0	NM_010116	13648.0	Mm.440884	NM_010116	ENSMUSG00000059042	Klk1b9	EGF-BP C|Egfbp-3|Egfbp3|KAL|Klk9|kallikrein|mGk-9	kallikrein 1-related peptidase b9	protein-coding	32.0	56.5	69.0	486.0	50.0	15.0	21.5	27.5
Merged-chr13-92668761-4	chr13	92668654	92668854	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 2 of 11)	MLT1A1|LTR|ERVL-MaLR	57616.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	22.0	25.5	15.0	266.0	29.0	3.0	10.0	13.5
Merged-chr5-115535113-4	chr5	115535003	115535203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	-24364.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	68.0	80.0	55.5	986.0	177.0	32.5	52.0	82.5
Merged-chr7-128226531-4	chr7	128226405	128226605	+	977.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10852.0	NM_146205	233912.0	Mm.475117	NM_146205	ENSMUSG00000042178	Armc5	AW049683|BC032200	armadillo repeat containing 5	protein-coding	19.0	32.5	23.5	39.0	75.0	23.0	18.0	13.0
Merged-chr4-106881255-4	chr4	106881176	106881376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-30194.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	28.0	42.5	20.0	219.5	64.0	25.0	24.0	11.5
Merged-chr15-64088558-4	chr15	64088446	64088646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001276462, exon 28 of 28)	3' UTR (NM_001276462, exon 28 of 28)	-28098.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	61.5	94.0	69.0	1100.5	93.5	38.5	53.5	66.5
Merged-chr3-63964761-4	chr3	63964649	63964849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331067)	promoter-TSS (NM_001331067)	-16.0	NM_015728	11416.0	Mm.135619	NM_015728	ENSMUSG00000027822	Slc33a1	AI315656|AI788741|Acatn|D630022N01Rik	solute carrier family 33 (acetyl-CoA transporter), member 1	protein-coding	232.5	406.5	247.0	3230.0	492.0	238.5	279.0	215.5
Merged-chr1-189868253-2	chr1	189868153	189868353	+	713.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008976, intron 18 of 18)	intron (NM_008976, intron 18 of 18)	54038.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	7.0	9.0	7.0	35.0	6.0	1.0	5.0	0.0
Merged-chr11-69395770-2	chr11	69395668	69395868	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_030083)	promoter-TSS (NM_030083)	-23.0	NM_030083	78304.0	Mm.45683	NM_030083	ENSMUSG00000059278	Naa38	1500034E06Rik|Lsmd1	N(alpha)-acetyltransferase 38, NatC auxiliary subunit	protein-coding	50.5	78.5	23.5	318.5	160.5	65.0	44.0	37.5
Merged-chr12-86945296-3	chr12	86945186	86945386	+	713.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1755.0	NM_001289431	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	6.5	10.5	5.0	130.5	18.5	6.5	7.0	9.5
Merged-chr8-83749500-1	chr8	83749400	83749600	+	1000.0	f1_c57bl6.idr	Intergenic	Intergenic	-8189.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	28.0	33.0	34.5	336.0	77.0	32.0	28.5	20.5
Merged-chr6-124712165-4	chr6	124712082	124712282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013536)	promoter-TSS (NM_013536)	-4.0	NM_013536	14791.0	Mm.6390	NM_013536	ENSMUSG00000004268	Emg1	C2f|Grcc2f	EMG1 N1-specific pseudouridine methyltransferase	protein-coding	212.0	306.5	204.0	2246.0	527.0	182.5	179.5	132.5
Merged-chr5-105416288-6	chr5	105416189	105416389	+	938.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033550, intron 1 of 4)	CpG	514.0	NM_001033550	433926.0	Mm.439781	NM_001033550	ENSMUSG00000070639	Lrrc8b	2210408K08Rik|R75581|Ta-lrrp|mKIAA0231	leucine rich repeat containing 8 family, member B	protein-coding	7.5	7.5	4.0	124.5	21.0	8.0	5.0	6.5
Merged-chr4-53028543-3	chr4	53028443	53028643	+	792.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16663.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	6.0	3.0	7.0	51.5	10.5	13.5	4.5	9.0
Merged-chr2-38511899-4	chr2	38511851	38512051	+	972.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159631)	promoter-TSS (NM_001159631)	75.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	15.0	15.5	9.5	162.5	43.0	7.5	11.0	11.5
Merged-chr7-121035472-3	chr7	121035359	121035559	+	763.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021554, intron 1 of 4)	intron (NM_021554, intron 1 of 4)	1014.0	NM_021554	59052.0	Mm.29122	NM_021554	ENSMUSG00000030876	Mettl9	0610012D09Rik|AA517660|Drev|MNCb-5680	methyltransferase like 9	protein-coding	12.0	11.5	2.0	76.5	17.0	6.0	6.0	7.5
Merged-chr1-172082746-4	chr1	172082664	172082864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021607)	promoter-TSS (NM_021607)	-15.0	NM_021607	59287.0	Mm.218203	NM_021607	ENSMUSG00000003458	Ncstn	9430068N19Rik|AA727311|Aph2|D1Dau13e|Kiaa0253|Nct|mKIAA0253	nicastrin	protein-coding	85.5	95.0	63.0	945.5	221.0	90.5	100.0	75.5
Merged-chr9-21137420-4	chr9	21137326	21137526	+	827.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6151.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	11.0	6.0	6.0	92.5	23.0	16.0	4.0	12.5
Merged-chr1-97567964-3	chr1	97567868	97568068	+	772.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93708.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	12.0	11.0	5.0	228.0	8.0	2.5	5.5	12.5
Merged-chr7-139248746-1	chr7	139248646	139248846	+	991.0	f0_balb.idr	intron (NM_001098636, intron 1 of 2)	CpG	264.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	10.0	17.0	17.5	172.0	101.5	23.5	20.0	27.0
Merged-chr12-31826052-1	chr12	31825952	31826152	+	634.0	f0_balb.idr	intron (NM_001163126, intron 11 of 22)	intron (NM_001163126, intron 11 of 22)	-112126.0	NM_175191	73010.0	Mm.441517	NM_175191	ENSMUSG00000044067	Gpr22	2900068K05Rik|AW061316	G protein-coupled receptor 22	protein-coding	6.0	10.5	7.0	109.5	1.5	0.0	0.5	1.5
Merged-chr3-51408970-4	chr3	51408892	51409092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025523)	promoter-TSS (NM_025523)	-37.0	NM_025523	66377.0	Mm.331007	NM_025523	ENSMUSG00000037152	Ndufc1	2310016K22Rik|KFYI	NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 1	protein-coding	100.0	115.5	47.5	1378.5	263.5	95.0	116.0	93.5
Merged-chr11-97801767-4	chr11	97801654	97801854	+	872.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 1 of 6)	intron (NM_010688, intron 1 of 6)	2189.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	5.5	10.0	16.5	124.5	23.0	10.5	4.5	14.0
Merged-chr16-35870378-9	chr16	35870279	35870479	+	819.4259030000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039530, intron 1 of 16)	intron (NM_001039530, intron 1 of 16)	1003.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	7.0	13.0	4.5	63.0	26.5	4.5	2.5	7.5
Merged-chr1-174036256-4	chr1	174036132	174036332	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4477.0	NM_172648	226695.0	Mm.425061	NM_172648	ENSMUSG00000054203	Ifi205	D3|D3cDNA|Ifi205a	interferon activated gene 205	protein-coding	7.0	18.5	5.0	121.0	20.0	6.5	8.0	6.0
Merged-chr3-50444329-1	chr3	50444229	50444429	+	683.5	f0_balb.idr	promoter-TSS (NM_011990)	promoter-TSS (NM_011990)	-716.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	8.0	12.0	5.5	90.0	6.0	5.5	3.0	5.5
Merged-chr6-57536410-3	chr6	57536387	57536587	+	895.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1061.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	8.5	9.5	9.0	85.5	13.5	8.5	7.5	4.5
Merged-chr10-96901324-4	chr10	96901207	96901407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134461.0	NR_045358	75301.0	Mm.108650	NR_045358	ENSMUSG00000111924	4930556N09Rik	-	RIKEN cDNA 4930556N09 gene	ncRNA	20.0	25.0	22.5	295.0	46.0	8.0	25.0	14.5
Merged-chr4-150474984-4	chr4	150474866	150475066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 6 of 22)	intron (NM_001085492, intron 6 of 22)	177208.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	21.0	20.0	26.5	564.0	51.5	6.0	8.5	18.0
Merged-chr17-43017664-4	chr17	43017581	43017781	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 1 of 5)	intron (NM_178589, intron 1 of 5)	1126.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	9.5	9.0	16.5	350.0	30.0	6.0	23.0	10.0
Merged-chr17-17893467-4	chr17	17893433	17893633	+	863.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008039, exon 2 of 2)	exon (NM_008039, exon 2 of 2)	5709.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	14.5	10.0	12.0	80.0	23.0	6.5	7.0	13.5
Merged-chr10-61147672-4	chr10	61147577	61147777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316674)	promoter-TSS (NM_001316674)	7.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	144.5	250.5	167.0	2226.0	476.0	147.5	212.5	158.5
Merged-chr5-23826567-4	chr5	23826484	23826684	+	875.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	17561.0	NM_025394	66169.0	Mm.291868	NM_025394	ENSMUSG00000028998	Tomm7	1110020J08Rik|AW047273|Tom7	translocase of outer mitochondrial membrane 7	protein-coding	15.0	25.5	17.0	145.5	19.0	11.0	10.5	17.0
Merged-chr2-11502115-4	chr2	11502050	11502250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177752)	promoter-TSS (NM_001177752)	-60.0	NM_001177757	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	57.5	103.5	63.5	1091.5	186.0	78.0	77.0	99.0
Merged-chr5-24780419-4	chr5	24780326	24780526	+	905.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22583.0	NM_153076	214301.0	Mm.63484	NM_153076	ENSMUSG00000038135	Crygn	-	crystallin, gamma N	protein-coding	6.5	13.0	3.0	74.0	41.0	20.5	16.0	6.5
Merged-chr7-24629011-4	chr7	24628892	24629092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001102613, exon 15 of 15)	3' UTR (NM_001102613, exon 15 of 15)	-7578.0	NM_133743	72434.0	Mm.281093	NM_133743	ENSMUSG00000057454	Lypd3	2310061G07Rik|C4.4a	Ly6/Plaur domain containing 3	protein-coding	103.0	128.5	109.5	1706.0	263.5	80.5	110.0	90.5
Merged-chr18-21001752-4	chr18	21001640	21001840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303011)	promoter-TSS (NM_001303011)	-217.0	NM_207623	56515.0	Mm.253542	NM_019706	ENSMUSG00000024317	Rnf138	2410015A17Rik|2810480D20Rik|STRIN|Trif|Trif-d	ring finger protein 138	protein-coding	405.5	706.5	526.5	7109.0	1152.5	448.0	551.0	421.5
Merged-chr14-122009703-4	chr14	122009585	122009785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 8 of 8)	ORR1D2|LTR|ERVL-MaLR	-24989.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	111.5	147.0	141.5	2484.5	240.5	74.5	171.5	124.0
Merged-chr14-57619660-4	chr14	57619562	57619762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020506, intron 6 of 22)	intron (NM_020506, intron 6 of 22)	45294.0	NM_020506	57258.0	Mm.202747	NM_020506	ENSMUSG00000021952	Xpo4	B430309A01Rik|mKIAA1721	exportin 4	protein-coding	25.5	40.0	31.0	617.5	73.0	24.5	35.5	43.5
Merged-chr6-92241363-4	chr6	92241262	92241462	+	831.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009426)	TTS (NM_009426)	3288.0	NM_009426	22044.0	Mm.1363	NM_009426	ENSMUSG00000005892	Trh	Pro-TRH|Trf	thyrotropin releasing hormone	protein-coding	4.5	9.5	4.0	99.5	32.5	8.0	9.5	11.5
Merged-chr11-74476124-4	chr11	74476014	74476214	+	898.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 3 of 24)	intron (NM_001015046, intron 3 of 24)	111443.0	NM_001011851	258153.0	Mm.376124	NM_001011851	ENSMUSG00000058275	Olfr412	MOR127-5P	olfactory receptor 412	protein-coding	26.5	54.5	28.5	110.0	37.0	27.5	17.5	13.5
Merged-chr12-98777629-3	chr12	98777539	98777739	+	770.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008506, intron 10 of 14)	L2|LINE|L2	6617.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	9.5	16.5	18.5	188.0	7.0	13.0	9.0	3.5
Merged-chr16-15956607-4	chr16	15956522	15956722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 9 of 18)	intron (NM_001355731, intron 9 of 18)	69336.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	53.0	87.0	70.0	1103.0	132.5	30.0	62.5	60.5
Merged-chr10-77531912-4	chr10	77531806	77532006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 1 of 15)	intron (NM_008404, intron 1 of 15)	1558.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	92.5	175.5	125.0	1468.5	212.5	95.5	92.0	89.0
Merged-chr8-124845336-1	chr8	124845236	124845436	+	789.0	f0_balb.idr	intron (NM_025615, intron 2 of 6)	intron (NM_025615, intron 2 of 6)	17693.0	NM_025615	66523.0	Mm.436864	NM_025615	ENSMUSG00000031984	2810004N23Rik	3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55	RIKEN cDNA 2810004N23 gene	protein-coding	6.5	11.0	5.0	174.0	5.0	2.5	0.5	4.0
Merged-chr10-95843401-4	chr10	95843309	95843509	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97254.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	32.0	46.0	16.0	324.0	68.5	25.0	25.5	19.5
Merged-chr7-75880906-4	chr7	75880823	75881023	+	798.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32585.0	NM_029652	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	13.0	9.0	18.5	85.0	23.5	9.0	15.5	15.0
Merged-chr13-58448242-4	chr13	58448099	58448299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44856.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	45.0	33.0	89.5	840.5	114.5	38.5	75.0	66.0
Merged-chr2-167662601-3	chr2	167662467	167662667	+	912.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1023.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	10.0	11.0	4.5	116.5	8.0	5.0	4.0	4.0
Merged-chr18-80151055-4	chr18	80150939	80151139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175028, intron 1 of 3)	C-rich|Low_complexity|Low_complexity	443.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	47.5	73.5	59.5	761.0	137.5	63.0	67.5	73.5
Merged-chr14-64753574-4	chr14	64753481	64753681	+	976.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 21 of 39)	intron (NM_001081177, intron 21 of 39)	101050.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	14.0	83.0	44.5	317.0	42.5	31.0	23.0	21.5
Merged-chr15-50972714-1	chr15	50972614	50972814	+	733.0	f0_balb.idr	Intergenic	Intergenic	-82673.0	NM_032000	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	5.0	6.0	9.0	101.0	6.0	6.5	6.0	5.5
Merged-chr5-9266113-6	chr5	9266024	9266224	+	811.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359887)	promoter-TSS (NM_001359887)	6.0	NM_001359887	231014.0	Mm.130063	NM_172706	ENSMUSG00000056004	9330182L06Rik	Eig121l	RIKEN cDNA 9330182L06 gene	protein-coding	4.5	6.5	6.0	199.5	20.5	20.5	14.5	14.5
Merged-chr12-102469570-4	chr12	102469462	102469662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013747)	promoter-TSS (NM_013747)	-348.0	NM_013747	27277.0	Mm.273370	NM_013747	ENSMUSG00000021192	Golga5	Ret-II	golgi autoantigen, golgin subfamily a, 5	protein-coding	50.5	107.5	45.0	547.5	120.5	33.0	34.0	48.0
Merged-chr5-135794724-3	chr5	135794673	135794873	+	815.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16124.0	NM_008617	17448.0	Mm.297096	NM_008617	ENSMUSG00000019179	Mdh2	MDH|Mdh-2|Mor-1|Mor1	malate dehydrogenase 2, NAD (mitochondrial)	protein-coding	0.0	8.5	10.5	30.5	23.5	8.0	7.0	9.5
Merged-chr9-58269561-4	chr9	58269453	58269653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16389.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	59.0	54.5	56.0	959.0	99.0	24.0	41.5	34.0
Merged-chr5-98055017-3	chr5	98054909	98055109	+	848.305542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24047.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	3.5	4.0	1.0	52.5	68.5	13.0	21.0	14.5
Merged-chr11-120991315-4	chr11	120991202	120991402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139059)	promoter-TSS (NM_139059)	31.0	NM_139059	104318.0	Mm.216227	NM_027874	ENSMUSG00000025162	Csnk1d	1200006A05Rik|AA409348|D930010H05Rik	casein kinase 1, delta	protein-coding	32.0	77.0	21.5	334.0	112.5	34.5	26.5	50.0
Merged-chr6-57825050-4	chr6	57824935	57825135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146168)	promoter-TSS (NM_146168)	90.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	33.0	47.0	65.0	631.5	121.0	43.0	61.0	44.5
Merged-chr6-86849018-1	chr6	86848918	86849118	+	1000.0	f0_c57.idr	promoter-TSS (NM_177762)	promoter-TSS (NM_177762)	422.0	NR_028298	67170.0	Mm.119489	NR_028298	ENSMUSG00000100164	2610306M01Rik	-	RIKEN cDNA 2610306M01 gene	ncRNA	24.5	24.5	15.5	228.0	57.0	28.5	16.0	22.5
Merged-chr4-6383622-4	chr4	6383518	6383718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016807, intron 4 of 8)	RLTR49|LTR|ERVK	17938.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	300.5	412.0	301.0	4011.0	620.0	226.5	274.5	221.0
Merged-chr6-108558069-2	chr6	108557969	108558169	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	65098.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	8.5	7.5	7.5	38.5	23.0	5.5	6.5	1.5
Merged-chr1-59619617-4	chr1	59619524	59619724	+	806.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013771, intron 13 of 19)	ORR1F|LTR|ERVL-MaLR	51210.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	11.0	5.0	6.5	68.0	21.0	5.0	14.0	8.0
Merged-chr12-99153627-2	chr12	99153527	99153727	+	753.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9181.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	6.0	7.5	5.0	60.0	12.5	4.0	3.5	2.0
Merged-chr13-34726370-1	chr13	34726270	34726470	+	544.0	f0_balb.idr	Intergenic	Intergenic	-13272.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	5.0	10.5	9.5	85.5	17.0	10.0	6.0	2.5
Merged-chr17-66077104-4	chr17	66077006	66077206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025572)	promoter-TSS (NM_001025572)	-60.0	NM_001025572	106585.0	Mm.34706	NM_001025572	ENSMUSG00000034647	Ankrd12	2900001A12Rik|AI447928|ANCO-2|AV347965|GAC-1|mKIAA0874	ankyrin repeat domain 12	protein-coding	139.0	204.5	105.5	2427.5	501.0	177.0	211.5	200.0
Merged-chr16-33966973-4	chr16	33966890	33967090	+	994.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009471)	promoter-TSS (NM_009471)	48.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	15.5	26.0	18.5	235.0	58.0	17.5	16.5	16.0
Merged-chr9-22070886-4	chr9	22070761	22070961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040406)	promoter-TSS (NR_040406)	-141.0	NR_040406	100503652.0	Mm.439941	NR_040406	ENSMUSG00000096981	Gm16845	-	predicted gene, 16845	ncRNA	139.5	261.5	143.5	2604.0	458.0	174.0	245.0	160.0
Merged-chr10-75517927-4	chr10	75517824	75518024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347201)	promoter-TSS (NM_001347201)	48.0	NM_001347201	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	129.0	195.5	92.5	1213.0	273.5	131.5	110.0	122.0
Merged-chr13-102887681-2	chr13	102887581	102887781	+	728.599976	f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	B1_Mur1|SINE|Alu	127426.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	7.5	4.5	5.0	81.5	17.5	6.0	1.0	7.5
Merged-chr4-58585560-4	chr4	58585475	58585675	+	841.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32084.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	9.5	13.0	4.0	140.0	38.0	6.0	12.0	7.5
Merged-chr13-73970701-4	chr13	73970617	73970817	+	938.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153830, intron 2 of 9)	intron (NR_153830, intron 2 of 9)	6866.0	NM_027704	71164.0	Mm.66995	NM_027704	ENSMUSG00000069189	Zdhhc11	4933421L13Rik|DHHC-11|Zdhhc20	zinc finger, DHHC domain containing 11	protein-coding	13.0	20.5	11.0	172.5	36.0	11.0	20.5	8.5
Merged-chr14-32159346-3	chr14	32159240	32159440	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033988)	promoter-TSS (NM_001033988)	-547.0	NM_001033988	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	24.0	20.5	24.5	165.0	28.0	18.0	7.5	11.5
Merged-chr3-131869516-4	chr3	131869410	131869610	+	698.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-215782.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	7.5	7.5	10.0	140.0	23.0	7.0	8.5	15.0
Merged-chr6-34350390-4	chr6	34350278	34350478	+	856.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3768.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	11.5	9.5	11.5	180.5	33.0	16.0	9.5	8.0
Merged-chr18-65001314-3	chr18	65001223	65001423	+	668.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 2 of 30)	intron (NM_001114386, intron 2 of 30)	-22204.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	6.0	9.5	9.0	99.0	8.0	7.5	4.5	9.0
Merged-chr12-84409010-4	chr12	84408919	84409119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007647)	promoter-TSS (NM_007647)	10.0	NM_007647	12499.0	Mm.10211	NM_007647	ENSMUSG00000021236	Entpd5	AI196558|AI987697|Cd39l4|ER-UDPase|NTPDase-5|NTPDase5|Pcph|mNTPase	ectonucleoside triphosphate diphosphohydrolase 5	protein-coding	55.0	73.0	23.5	739.5	133.0	66.5	89.0	60.0
Merged-chr11-26586756-4	chr11	26586645	26586845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027260, intron 2 of 12)	intron (NM_027260, intron 2 of 12)	7175.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	46.0	52.5	54.0	1124.5	132.0	49.0	54.5	50.5
Merged-chr7-101310833-4	chr7	101310722	101310922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6264.0	NM_001360460	56018.0	Mm.28896	NM_019990	ENSMUSG00000030688	Stard10	AV048538|CGI-52|NY-C0-28|PC-TP2|PCTP2|Pctpl|Sdccag28|SdccagG28|TISP-81	START domain containing 10	protein-coding	129.0	210.0	100.5	1198.5	296.5	134.0	138.0	107.5
Merged-chr10-69252555-3	chr10	69252458	69252658	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	intron (NM_001252637, intron 4 of 10)	39364.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	24.5	31.5	17.5	300.5	57.5	10.5	21.5	20.5
Merged-chr15-101298170-4	chr15	101298065	101298265	+	939.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033803)	TTS (NR_033803)	4953.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	12.0	19.0	13.5	242.0	31.0	5.5	15.5	14.0
Merged-chr11-6526857-3	chr11	6526757	6526957	+	790.866638	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045893, intron 2 of 3)	B2_Mm2|SINE|B2	1903.0	NR_045893	100041286.0	Mm.459507	NR_045893	ENSMUSG00000085156	Snhg15	Gm11974	small nucleolar RNA host gene 15	ncRNA	5.5	19.0	2.0	36.0	30.0	10.5	12.5	9.5
Merged-chr17-36205834-7	chr17	36205847	36206047	+	912.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-15796.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	9.0	22.0	17.0	97.0	22.5	6.5	6.0	8.0
Merged-chr4-116685635-4	chr4	116685608	116685808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040442, exon 2 of 3)	intron (NM_011034, intron 1 of 5)	109.0	NM_011034	18477.0	Mm.30929	NM_011034	ENSMUSG00000028691	Prdx1	MSP23|NkefA|OSF-3|OSF3|PAG|Paga|PrdxI|PrxI|TDX2|TPxA|Tdpx2|prx1	peroxiredoxin 1	protein-coding	88.0	154.0	94.0	812.0	249.5	95.0	112.5	97.5
Merged-chr8-33653471-4	chr8	33653383	33653583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010344, exon 1 of 13)	5' UTR (NM_010344, exon 1 of 13)	245.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	70.5	112.5	68.0	1280.5	223.5	85.0	150.5	110.5
Merged-chr11-32542957-4	chr11	32542856	32543056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	9690.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	142.5	164.5	174.5	2262.0	242.5	76.5	116.5	64.5
Merged-chr10-95416854-4	chr10	95416765	95416965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045338)	promoter-TSS (NR_045338)	-8.0	NM_007706	216233.0	Mm.474283	NM_007706	ENSMUSG00000020027	Socs2	8030460M17|AI527257|AW108012|CIS2|Cish2|D130043N08Rik|JAB|SOCS-2|SSI-2|hg	suppressor of cytokine signaling 2	protein-coding	39.0	74.5	52.5	673.0	150.5	49.5	44.0	59.0
Merged-chr11-59209282-4	chr11	59209151	59209351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024210, intron 4 of 6)	intron (NM_024210, intron 4 of 6)	890.0	NM_024210	67862.0	Mm.358708	NM_024210	ENSMUSG00000020441	2310033P09Rik	Mmtag2	RIKEN cDNA 2310033P09 gene	protein-coding	37.5	54.0	42.5	342.0	52.5	23.5	41.0	33.5
Merged-chr12-55492739-4	chr12	55492625	55492825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010907)	promoter-TSS (NM_010907)	-78.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	336.5	531.5	410.0	4068.0	729.0	297.0	302.0	229.0
Merged-chr15-101284161-4	chr15	101284007	101284207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026566)	promoter-TSS (NM_026566)	-194.0	NM_026566	68118.0	Mm.482360	NM_026566	ENSMUSG00000037204	Atg101	9430023L20Rik|AA407441|AU022967	autophagy related 101	protein-coding	47.5	73.5	62.0	735.0	152.0	45.0	41.0	81.5
Merged-chr7-63755730-4	chr7	63755630	63755830	+	994.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130880, intron 13 of 13)	intron (NM_130880, intron 13 of 13)	-161127.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	9.5	40.0	15.0	381.5	35.0	20.0	27.5	22.0
Merged-chr9-69702734-4	chr9	69702622	69702822	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58218.0	NM_022378	64290.0	Mm.440890	NM_022378	ENSMUSG00000059246	Foxb1	C43|Fkh5|Foxb1a|Foxb1b|Hfh-e5.1|Mf3|Twh	forkhead box B1	protein-coding	20.5	52.5	23.5	531.5	57.0	15.5	17.0	20.5
Merged-chr12-100732049-4	chr12	100731951	100732151	+	814.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6931.0	NM_153587	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	12.5	7.0	14.5	165.5	27.5	6.5	5.5	10.5
Merged-chr2-6096527-3	chr2	6096409	6096609	+	619.277771	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	33676.0	NM_144883	227545.0	Mm.133542	NM_144883	ENSMUSG00000045319	Proser2	5430407P10Rik|AU067770	proline and serine rich 2	protein-coding	6.5	23.0	12.5	120.0	26.0	5.0	12.5	2.5
Merged-chr4-86538147-3	chr4	86538062	86538262	+	921.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081096, intron 1 of 3)	B2_Mm2|SINE|B2	20141.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	10.5	20.5	6.5	77.5	32.5	10.0	13.0	16.0
Merged-chr2-143063034-4	chr2	143062944	143063144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021335)	promoter-TSS (NM_021335)	-25.0	NM_021335	20639.0	Mm.1323	NM_021335	ENSMUSG00000008333	Snrpb2	2810052G09Rik	U2 small nuclear ribonucleoprotein B	protein-coding	62.5	81.5	64.5	939.0	167.0	64.0	88.0	60.0
Merged-chr17-10394914-7	chr17	10394820	10395020	+	924.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61296.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	6.5	10.0	13.5	199.5	35.0	7.5	12.5	10.5
Merged-chr13-83655158-3	chr13	83655062	83655262	+	839.0499880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347576, intron 8 of 10)	intron (NM_001347576, intron 8 of 10)	-66219.0	NR_152244	320203.0	Mm.245636	NM_177100	ENSMUSG00000050334	C130071C03Rik	2810449C10Rik|ECONEXIN|EyeLinc1|Visc-1	RIKEN cDNA C130071C03 gene	ncRNA	8.5	16.0	29.0	261.0	25.0	10.5	4.5	9.0
Merged-chr17-43334334-4	chr17	43334231	43334431	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26100.0	NM_001357332	224792.0	Mm.23478	NM_001081178	ENSMUSG00000056492	Adgrf5	8430401C09Rik|9330185D23|AI528491|Gpr116|mKIAA0758	adhesion G protein-coupled receptor F5	protein-coding	2.0	10.5	9.0	140.0	72.5	26.5	39.5	25.5
Merged-chr9-24395023-4	chr9	24394943	24395143	+	859.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108097.0	NM_001359948	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	16.5	15.0	18.0	304.0	9.0	4.5	12.0	6.5
Merged-chr12-120028380-4	chr12	120028274	120028474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82412.0	NM_001160385	217951.0	Mm.387395	NM_001160385	ENSMUSG00000048004	Tmem196	Gm528	transmembrane protein 196	protein-coding	18.0	38.0	33.0	358.5	51.5	22.5	20.0	24.0
Merged-chr19-32277009-4	chr19	32276888	32277088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168525, intron 2 of 9)	intron (NM_001168525, intron 2 of 9)	-65975.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	112.0	146.0	97.5	1461.0	184.5	69.5	96.5	68.0
Merged-chr2-145744702-3	chr2	145744593	145744793	+	593.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 3 of 3)	intron (NR_033220, intron 3 of 3)	-41423.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	9.0	12.5	6.5	115.0	17.0	2.0	5.0	1.0
Merged-chr4-141646197-4	chr4	141646095	141646295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	17920.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	43.0	48.5	38.0	524.5	125.0	38.5	56.0	44.0
Merged-chr8-83748839-4	chr8	83748729	83748929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7518.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	230.0	319.5	194.0	2998.5	469.0	182.0	189.5	160.0
Merged-chr11-98708722-4	chr11	98708615	98708815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361995, intron 19 of 25)	L1MB2|LINE|L1	7402.0	NM_009971	12985.0	Mm.1238	NM_009971	ENSMUSG00000038067	Csf3	Csfg|G-CSF|MGI-IG	colony stimulating factor 3 (granulocyte)	protein-coding	90.5	161.5	96.5	1048.5	225.0	103.0	68.0	119.5
Merged-chr10-110805243-3	chr10	110805138	110805338	+	957.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045979, intron 2 of 2)	intron (NR_045979, intron 2 of 2)	59799.0	NM_178609	52679.0	Mm.11747	NM_178609	ENSMUSG00000020185	E2f7	A630014C11Rik|D10Ertd739e|E2F-7	E2F transcription factor 7	protein-coding	16.0	16.0	21.0	363.0	7.0	1.0	6.5	12.5
Merged-chr10-127555933-4	chr10	127555812	127556012	+	890.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 54 of 88)	intron (NM_008512, intron 54 of 88)	-21353.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	5.0	33.5	17.0	240.5	43.5	11.0	6.0	12.5
Merged-chr11-76628817-4	chr11	76628736	76628936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43634.0	NM_177182	320522.0	Mm.131585	NM_177182	ENSMUSG00000044243	Bhlha9	A830053O21Rik|Fingerin	basic helix-loop-helix family, member a9	protein-coding	36.5	64.5	57.5	820.0	91.0	32.5	60.0	58.0
Merged-chr11-86544870-4	chr11	86544770	86544970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199047)	promoter-TSS (NM_001199047)	-63.0	NM_001114334	72508.0	Mm.394280	NM_028259	ENSMUSG00000020516	Rps6kb1	2610318I15Rik|4732464A07Rik|70kDa|AA959758|AI256796|AI314060|P70S6K1|S6K|S6K1|p70/85s6k|p70s6k	ribosomal protein S6 kinase, polypeptide 1	protein-coding	103.5	172.5	72.5	925.5	260.5	81.5	75.0	82.5
Merged-chr4-118179708-4	chr4	118179638	118179838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161823, intron 1 of 21)	intron (NM_001161823, intron 1 of 21)	305.0	NM_172382	230674.0	Mm.234234	NM_172382	ENSMUSG00000033326	Kdm4a	D4Ertd222e|JHDM3A|Jmjd2|Jmjd2a|mKIAA0677	lysine (K)-specific demethylase 4A	protein-coding	152.0	182.5	100.5	2006.0	377.0	136.5	167.5	164.0
Merged-chr18-60795311-4	chr18	60795208	60795408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8541.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	56.0	49.5	45.0	689.0	183.0	62.5	82.5	78.0
Merged-chr1-91293919-3	chr1	91293824	91294024	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4414.0	NM_016717	50880.0	Mm.25724	NM_016717	ENSMUSG00000026307	Scly	9830169H08|A930015N15Rik|SCL|Scly1|Scly2	selenocysteine lyase	protein-coding	70.0	79.5	37.5	859.0	3.5	3.5	2.5	4.5
Merged-chr16-17222373-4	chr16	17222269	17222469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-11218.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	28.0	63.5	27.5	132.5	84.0	31.0	27.5	60.0
Merged-chr17-44078839-4	chr17	44078741	44078941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329619)	promoter-TSS (NM_001329619)	39.0	NM_001329619	83965.0	Mm.30145	NM_032003	ENSMUSG00000023960	Enpp5	AW061004|D17Abb1e|E-NPP 5	ectonucleotide pyrophosphatase/phosphodiesterase 5	protein-coding	14.5	43.5	34.5	382.0	164.0	56.5	68.5	54.0
Merged-chr6-124260757-4	chr6	124260659	124260859	+	639.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28975.0	NM_001104642	232367.0	Mm.469872	NM_001104642	ENSMUSG00000072778	Vmn2r27	EG232367	vomeronasal 2, receptor27	protein-coding	9.5	16.0	6.5	55.5	42.0	14.5	6.0	2.5
Merged-chr10-118102174-4	chr10	118102132	118102332	+	951.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39555.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	17.5	4.5	6.0	171.5	27.5	4.0	14.5	6.5
Merged-chr12-30584425-4	chr12	30584370	30584570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172049)	promoter-TSS (NM_172049)	27.0	NM_172049	211986.0	Mm.34035	NM_172049	ENSMUSG00000043061	Tmem18	BC024093	transmembrane protein 18	protein-coding	105.0	144.0	158.5	1587.5	180.5	89.5	89.5	97.5
Merged-chr13-52194631-4	chr13	52194519	52194719	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	97878.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	12.5	3.5	22.0	165.0	6.0	5.0	13.5	18.5
Merged-chr8-110619373-4	chr8	110619270	110619470	+	960.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151675, intron 1 of 17)	intron (NR_151675, intron 1 of 17)	803.0	NR_151675	234729.0	Mm.274894	NM_146216	ENSMUSG00000010936	Vac14	AA959718|BC032215|D8Wsu151e|Tax1bp2|Trx|ingls	Vac14 homolog (S. cerevisiae)	protein-coding	17.0	23.0	23.5	198.0	48.5	13.0	18.0	21.0
Merged-chr1-64118367-4	chr1	64118277	64118477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033563, intron 1 of 3)	intron (NM_033563, intron 1 of 3)	3012.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	57.5	130.5	79.0	646.5	90.5	51.0	38.0	35.0
Merged-chr4-134287793-3	chr4	134287712	134287912	+	838.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163794)	promoter-TSS (NM_001163794)	34.0	NM_146156	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	27.0	12.0	12.0	155.0	28.5	13.5	10.5	14.0
Merged-chr5-136933431-3	chr5	136933318	136933518	+	742.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015555, intron 3 of 3)	(ACGTG)n|Simple_repeat|Simple_repeat	14272.0	NR_015555	66752.0	Mm.135764	NR_015555	ENSMUSG00000097908	4933404O12Rik	AW494809	RIKEN cDNA 4933404O12 gene	ncRNA	6.5	9.0	6.5	6.5	41.0	6.5	5.0	16.0
Merged-chr16-94370831-4	chr16	94370660	94370860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159620)	promoter-TSS (NM_001159620)	21.0	NM_009441	22129.0	Mm.213408	NM_009441	ENSMUSG00000040785	Ttc3	2610202A04Rik|AA409221|D16Ium21|D16Ium21e|TPRD|mKIAA4119	tetratricopeptide repeat domain 3	protein-coding	48.0	61.5	24.5	449.5	135.5	63.0	53.0	91.0
Merged-chr8-122523365-3	chr8	122523256	122523456	+	813.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037298, intron 1 of 50)	intron (NM_001037298, intron 1 of 50)	27973.0	NM_001037298	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	6.5	7.0	9.5	102.5	8.0	1.5	3.5	6.0
Merged-chr3-152479080-6	chr3	152478961	152479161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081277, intron 11 of 13)	intron (NM_001081277, intron 11 of 13)	82377.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	16.5	29.5	25.5	818.5	38.5	17.5	23.5	19.0
Merged-chr9-101061198-2	chr9	101061098	101061298	+	744.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13564.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	7.0	13.0	6.5	81.0	19.5	9.0	12.0	6.5
Merged-chr3-88087845-3	chr3	88087746	88087946	+	714.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033484, intron 4 of 37)	B2_Mm2|SINE|B2	5795.0	NM_001033484	404710.0	Mm.331133	NM_001033484	ENSMUSG00000028068	Iqgap3	AI593484|D030034H08	IQ motif containing GTPase activating protein 3	protein-coding	7.0	10.5	5.5	45.0	14.5	4.5	9.5	4.5
Merged-chr2-143093859-4	chr2	143093757	143093957	+	990.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15464.0	NM_020595	57329.0	Mm.157751	NM_020595	ENSMUSG00000027416	Otor	CDRAP|Fdp|MIA|MIAL	otoraplin	protein-coding	42.5	29.5	33.0	773.0	41.5	12.5	32.0	21.5
Merged-chr2-27476103-3	chr2	27476004	27476204	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113574)	promoter-TSS (NM_001113574)	-431.0	NM_001113574	67382.0	Mm.28721	NM_023336	ENSMUSG00000026918	Brd3	2410084F24Rik|AW060456|Fsrg2|ORFX|RINGL3	bromodomain containing 3	protein-coding	18.5	29.5	11.5	157.0	48.0	28.5	31.0	18.5
Merged-chr17-34934981-4	chr17	34934881	34935081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010893, exon 6 of 6)	3' UTR (NM_010893, exon 6 of 6)	3728.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	91.0	132.5	95.0	1103.5	223.0	86.0	107.0	103.0
Merged-chr15-78579648-4	chr15	78579557	78579757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155437, intron 1 of 1)	intron (NR_155437, intron 1 of 1)	1932.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	23.0	25.0	17.5	257.0	48.5	26.0	14.0	24.5
Merged-chr17-21515881-4	chr17	21515793	21515993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19646.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	28.5	32.0	36.0	401.0	72.0	29.0	31.0	23.0
Merged-chr8-111526785-4	chr8	111526672	111526872	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4665.0	NM_176923	319481.0	Mm.247294	NM_176923	ENSMUSG00000031959	Wdr59	5430401O09Rik|Cdw12	WD repeat domain 59	protein-coding	10.0	40.5	25.0	271.5	116.0	29.0	49.5	37.5
Merged-chr2-124577100-4	chr2	124576985	124577185	+	958.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-33211.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	18.5	63.5	16.0	69.5	38.5	16.0	13.0	4.0
Merged-chr14-61529709-4	chr14	61529603	61529803	+	851.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	27183.0	NM_025697	66674.0	Mm.282706	NM_025697	ENSMUSG00000021930	Spryd7	6330409N04Rik|Clld6	SPRY domain containing 7	protein-coding	8.0	24.0	9.5	126.5	23.0	4.5	9.5	6.0
Merged-chr1-170632556-4	chr1	170632462	170632662	+	828.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11970.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	16.5	21.5	11.0	129.0	35.0	11.5	13.0	7.5
Merged-chr9-114887858-3	chr9	114887744	114887944	+	627.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-43692.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	6.0	5.5	8.0	112.0	6.5	3.0	5.0	7.5
Merged-chr1-119534604-1	chr1	119534504	119534704	+	559.0	f0_balb.idr	intron (NR_126486, intron 3 of 3)	MTD|LTR|ERVL-MaLR	1561.0	NR_126486	320069.0	Mm.406320	NR_126486	ENSMUSG00000101731	3830432H09Rik	-	RIKEN cDNA 3830432H09 gene	ncRNA	10.0	6.0	4.5	114.0	7.0	4.0	6.5	11.5
Merged-chr17-26243768-4	chr17	26243651	26243851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	491.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	25.0	52.0	31.0	327.0	77.0	20.0	30.0	31.0
Merged-chr9-37430773-4	chr9	37430659	37430859	+	883.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164767, intron 1 of 27)	intron (NM_001164767, intron 1 of 27)	2416.0	NM_001164767	19649.0	Mm.212826	NM_011248	ENSMUSG00000032128	Robo3	Rbig1|Rig-1|Rig1|Robo3a|Robo3b	roundabout guidance receptor 3	protein-coding	17.0	31.5	5.5	324.5	53.0	24.0	33.5	29.0
Merged-chr8-120110432-4	chr8	120110305	120110505	+	972.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-3747.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	12.5	20.5	21.0	166.0	46.0	24.5	21.5	17.5
Merged-chr9-20889402-4	chr9	20889312	20889512	+	877.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145610, exon 3 of 11)	exon (NM_145610, exon 3 of 11)	1237.0	NM_145610	235036.0	Mm.2930	NM_145610	ENSMUSG00000004100	Ppan	A230087P06Rik|SSF1	peter pan homolog	protein-coding	15.0	9.5	9.0	102.0	29.0	11.5	23.5	17.0
Merged-chr4-149990482-4	chr4	149990349	149990549	+	764.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291004, intron 3 of 4)	intron (NM_001291004, intron 3 of 4)	12787.0	NM_001291004	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	13.5	12.5	11.5	138.0	17.0	5.5	6.5	5.5
Merged-chr6-15790284-3	chr6	15790160	15790360	+	894.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 4 of 4)	intron (NM_175088, intron 4 of 4)	69599.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	3.0	8.0	5.5	161.5	20.5	8.0	19.0	8.5
Merged-chr4-53303726-3	chr4	53303613	53303813	+	731.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33481.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	7.0	27.0	14.0	92.5	13.0	4.5	8.5	1.0
Merged-chr6-51509425-4	chr6	51509324	51509524	+	944.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14479.0	NM_001361582	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	18.0	20.0	12.0	355.5	50.5	28.5	12.0	18.0
Merged-chr11-32562874-3	chr11	32562781	32562981	+	977.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	29615.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	19.0	26.5	17.0	232.0	27.0	19.5	8.0	4.5
Merged-chr16-30969482-4	chr16	30969411	30969611	+	757.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	intron (NM_198626, intron 3 of 3)	111921.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	10.0	8.0	10.0	181.0	23.0	9.5	4.0	10.0
Merged-chr17-31079372-3	chr17	31079297	31079497	+	686.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	21703.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	1.5	8.0	4.0	20.0	13.0	12.5	7.5	5.5
Merged-chr7-139247289-1	chr7	139247189	139247389	+	1000.0	f1_balb.idr	Intergenic	Intergenic	-1193.0	NM_001033206	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	5.5	7.5	4.0	117.0	32.0	6.0	10.5	13.5
Merged-chr11-118254359-4	chr11	118254298	118254498	+	911.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5806.0	NM_011180	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	16.5	10.0	12.0	92.5	28.0	5.0	11.0	16.5
Merged-chr1-95665225-4	chr1	95665176	95665376	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 1 of 3)	intron (NM_001159745, intron 1 of 3)	2318.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	23.5	29.5	10.5	408.0	37.5	20.0	14.5	21.0
Merged-chr3-87360586-4	chr3	87360474	87360674	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 1 of 5)	intron (NM_009690, intron 1 of 5)	2693.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	12.5	19.0	12.0	353.0	78.5	15.5	33.5	62.0
Merged-chr8-126563872-4	chr8	126563776	126563976	+	917.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29560.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	22.5	48.5	13.0	209.0	56.0	17.0	13.0	18.5
Merged-chr9-83546027-4	chr9	83545922	83546122	+	813.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2316.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	8.0	5.0	16.5	119.5	29.5	9.5	7.5	9.5
Merged-chr11-4639020-4	chr11	4638935	4639135	+	918.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029291, intron 1 of 19)	intron (NM_029291, intron 1 of 19)	1242.0	NM_029291	75452.0	Mm.439906	NM_029291	ENSMUSG00000020412	Ascc2	1700011I11Rik|2610034L15Rik|AI482016|ASC1p100|AW046480	activating signal cointegrator 1 complex subunit 2	protein-coding	17.5	23.0	1.5	190.5	31.0	12.5	11.0	8.0
Merged-chr8-119440592-4	chr8	119440494	119440694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027950, intron 1 of 5)	intron (NM_027950, intron 1 of 5)	3432.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	54.5	99.0	63.5	782.0	136.5	60.5	61.0	52.5
Merged-chr8-83090274-4	chr8	83090163	83090363	+	853.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177378, exon 7 of 7)	3' UTR (NM_177378, exon 7 of 7)	-75089.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	16.5	23.0	1.0	123.0	32.0	4.5	6.5	10.0
Merged-chr10-127428172-3	chr10	127428069	127428269	+	641.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359246, intron 1 of 23)	intron (NM_001359246, intron 1 of 23)	7302.0	NM_001359243	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	5.0	10.0	4.5	103.5	22.0	2.5	2.0	5.5
Merged-chr17-31297814-4	chr17	31297695	31297895	+	826.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242427, intron 1 of 19)	intron (NM_001242427, intron 1 of 19)	1571.0	NM_001242427	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	13.0	14.5	5.5	114.0	18.0	7.5	14.5	8.0
Merged-chr13-36506482-2	chr13	36506382	36506582	+	713.150024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 5 of 5)	intron (NM_001039189, intron 5 of 5)	227995.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	5.0	2.5	3.5	42.0	9.5	6.5	7.0	8.0
Merged-chr19-42147946-4	chr19	42147890	42148090	+	893.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183195, exon 1 of 2)	exon (NM_183195, exon 1 of 2)	601.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	18.0	14.0	13.0	163.0	18.5	6.0	8.0	11.5
Merged-chr3-108786753-3	chr3	108786649	108786849	+	708.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	47091.0	NM_177859	329738.0	Mm.72322	NM_177859	ENSMUSG00000049565	Aknad1	4921525H12Rik	AKNA domain containing 1	protein-coding	5.5	21.5	7.5	96.0	19.5	10.0	7.5	11.0
Merged-chr2-148572353-2	chr2	148572253	148572453	+	797.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-100262.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	5.0	9.5	0.5	41.5	12.5	6.0	10.0	8.0
Merged-chr18-39010233-3	chr18	39010146	39010346	+	956.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 1 of 21)	intron (NM_001361073, intron 1 of 21)	17101.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	9.5	9.5	14.5	224.5	19.0	0.5	5.5	8.5
Merged-chr15-58214000-4	chr15	58213874	58214074	+	904.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026346, intron 1 of 8)	intron (NM_026346, intron 1 of 8)	918.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	12.5	10.5	15.5	173.5	17.0	3.0	9.0	7.0
Merged-chr9-103202092-4	chr9	103201986	103202186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009275)	promoter-TSS (NM_009275)	-21.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	51.5	137.5	101.0	1206.5	152.5	72.5	88.0	90.0
Merged-chr10-7955908-3	chr10	7955799	7955999	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_138667, exon 1 of 7)	5' UTR (NM_138667, exon 1 of 7)	224.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	39.0	35.5	53.5	284.5	59.0	20.5	28.5	20.0
Merged-chr7-114305651-4	chr7	114305562	114305762	+	692.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29546.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	6.5	18.0	12.0	109.5	21.0	2.0	12.0	4.0
Merged-chr16-20651671-4	chr16	20651587	20651787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027485)	promoter-TSS (NR_027485)	35.0	NM_134101	21762.0	Mm.243234	NM_134101	ENSMUSG00000006998	Psmd2	9430095H01Rik|AA407121|TEG-190|Tex190	proteasome (prosome, macropain) 26S subunit, non-ATPase, 2	protein-coding	58.5	81.5	39.0	934.0	198.0	51.5	71.5	62.5
Merged-chr14-54474803-3	chr14	54474687	54474887	+	951.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1313.0	NM_080726	140743.0	Mm.274727	NM_080726	ENSMUSG00000022176	Rem2	AW411893	rad and gem related GTP binding protein 2	protein-coding	17.0	24.5	11.5	269.0	0.5	1.0	0.0	3.0
Merged-chr2-168478132-2	chr2	168478064	168478264	+	898.1666869999999	f0_balb.idr|f1_balb.idr	3' UTR (NM_001136073, exon 11 of 11)	3' UTR (NM_001136073, exon 11 of 11)	112201.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	13.5	24.0	12.5	205.0	2.0	0.0	0.0	0.5
Merged-chr1-171285531-3	chr1	171285454	171285654	+	868.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013919, exon 3 of 13)	exon (NM_013919, exon 3 of 13)	2407.0	NM_013919	30941.0	Mm.27510	NM_013919	ENSMUSG00000053483	Usp21	ESTM28|Usp16|Usp23|W53272	ubiquitin specific peptidase 21	protein-coding	13.5	6.0	12.0	113.5	20.0	3.5	5.0	12.5
Merged-chr13-50417887-4	chr13	50417790	50417990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175401)	promoter-TSS (NM_175401)	26.0	NR_154273	109082.0	Mm.18638	NM_175401	ENSMUSG00000037816	Fbxw17	1110064L07Rik|C85886	F-box and WD-40 domain protein 17	protein-coding	36.5	48.5	26.5	715.0	75.5	34.5	56.0	36.5
Merged-chr8-105827726-1	chr8	105827626	105827826	+	1000.0	f0_c57.idr	promoter-TSS (NM_024445)	promoter-TSS (NM_024445)	-18.0	NM_024445	72236.0	Mm.386810	NM_024445	ENSMUSG00000031893	Tsnaxip1	1700016K08Rik|TXI1	translin-associated factor X (Tsnax) interacting protein 1	protein-coding	50.0	81.5	36.5	501.5	150.0	55.0	84.5	73.0
Merged-chr7-101896691-4	chr7	101896585	101896785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291349, intron 1 of 4)	intron (NM_001291349, intron 1 of 4)	354.0	NM_001291349	75430.0	Mm.284491	NM_027532	ENSMUSG00000030649	Anapc15	3200002M19Rik|6330414C15Rik|APC15	anaphase prompoting complex C subunit 15	protein-coding	117.0	184.0	94.5	1534.0	366.5	161.5	152.5	154.5
Merged-chr11-21236577-4	chr11	21236472	21236672	+	913.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12D|LTR|ERVK	-2460.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	12.0	16.0	14.5	223.0	49.5	5.5	17.5	16.5
Merged-chr16-18498758-4	chr16	18498658	18498858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023120)	promoter-TSS (NM_023120)	45.0	NM_001285491	13972.0	Mm.236139	NM_023120	ENSMUSG00000000884	Gnb1l	ESTM55|Gm16314|Me49f07|Wdr14|Wdvcf	guanine nucleotide binding protein (G protein), beta polypeptide 1-like	protein-coding	101.0	109.5	92.5	1165.0	221.5	63.0	81.5	66.0
Merged-chr18-66459494-2	chr18	66459394	66459594	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021451, intron 1 of 2)	intron (NM_021451, intron 1 of 2)	890.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	4.5	9.0	6.0	144.5	15.5	6.0	6.0	12.0
Merged-chr2-181319745-4	chr2	181319655	181319855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166665)	promoter-TSS (NM_001166665)	31.0	NM_001001882	269400.0	Mm.11333	NM_001001882	ENSMUSG00000038685	Rtel1	AI451565|AW540478|Rtel	regulator of telomere elongation helicase 1	protein-coding	43.5	36.5	28.0	412.0	84.0	22.0	26.0	22.5
Merged-chr10-14102063-4	chr10	14101949	14102149	+	976.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010437, intron 2 of 8)	intron (NM_010437, intron 2 of 8)	135670.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	1.5	22.5	37.0	380.5	35.0	12.0	19.5	35.5
Merged-chr8-11464365-4	chr8	11464243	11464443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-13586.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	266.0	463.0	442.5	5191.5	779.0	364.0	422.5	355.0
Merged-chr10-118100798-4	chr10	118100693	118100893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40994.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	161.5	219.0	114.0	1709.5	298.5	96.5	131.0	86.5
Merged-chr10-61680259-4	chr10	61680182	61680382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358488)	promoter-TSS (NM_001358488)	-3.0	NM_001358488	20224.0	Mm.391794	NM_009120	ENSMUSG00000020088	Sar1a	1600019H17Rik|Sara|Sara1	secretion associated Ras related GTPase 1A	protein-coding	251.5	390.0	279.0	3626.5	793.0	312.5	383.0	305.5
Merged-chr2-58978276-4	chr2	58978156	58978356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 9 of 13)	intron (NM_001362394, intron 9 of 13)	182427.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	76.5	92.5	125.0	1541.0	141.5	67.0	60.5	86.0
Merged-chr4-145240340-4	chr4	145240229	145240429	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	6541.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	21.0	16.0	8.5	215.0	32.5	9.0	17.5	10.0
Merged-chr7-74909314-2	chr7	74909214	74909414	+	751.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-120897.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	0.5	5.0	3.5	42.5	7.0	8.0	5.5	11.0
Merged-chr10-95677719-4	chr10	95677612	95677812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger12|DNA|TcMar-Tigger	-113566.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	118.5	153.0	194.5	2043.5	358.0	100.0	145.5	134.0
Merged-chr13-89383913-4	chr13	89383766	89383966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	-156770.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	55.0	71.0	44.0	393.5	562.0	185.5	269.0	222.0
Merged-chr2-30178513-4	chr2	30178417	30178617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172660)	promoter-TSS (NM_172660)	-58.0	NM_172660	227695.0	Mm.4449	NM_172660	ENSMUSG00000039660	Spout1	9930028P05|AL033358|CENP-32|D2Wsu81e	SPOUT domain containing methyltransferase 1	protein-coding	139.0	208.5	87.5	1230.0	273.0	105.5	136.5	103.5
Merged-chr13-37742391-4	chr13	37742247	37742447	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83691.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	13.0	11.0	9.0	171.0	34.0	7.0	3.0	11.0
Merged-chr11-95042307-4	chr11	95042202	95042402	+	983.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133667)	promoter-TSS (NM_133667)	-931.0	NM_133667	18604.0	Mm.29768	NM_133667	ENSMUSG00000038967	Pdk2	-	pyruvate dehydrogenase kinase, isoenzyme 2	protein-coding	40.0	37.0	18.5	248.0	34.0	16.5	12.0	27.0
Merged-chr16-12091059-4	chr16	12090979	12091179	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028277, intron 2 of 4)	Tigger9b|DNA|TcMar-Tigger	106966.0	NM_001174086	72555.0	Mm.310139	NM_028277	ENSMUSG00000022494	Shisa9	2700045P11Rik|Ckamp44	shisa family member 9	protein-coding	7.0	19.5	18.0	340.5	38.0	4.5	14.5	14.5
Merged-chr7-45098997-3	chr7	45098904	45099104	+	981.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357117, intron 4 of 6)	B3|SINE|B2	4818.0	NM_001357117	14132.0	Mm.3303	NM_010189	ENSMUSG00000003420	Fcgrt	FcRn	Fc receptor, IgG, alpha chain transporter	protein-coding	31.5	26.5	19.5	269.0	19.0	4.0	17.0	9.0
Merged-chr12-16588858-4	chr12	16588764	16588964	+	906.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130412, intron 1 of 20)	intron (NM_001130412, intron 1 of 20)	906.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	16.0	39.0	12.5	380.0	17.0	11.0	10.5	11.0
Merged-chr4-99111917-4	chr4	99111825	99112025	+	895.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 1 of 47)	MLT1K|LTR|ERVL-MaLR	8990.0	NM_001290636	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	8.0	8.5	10.0	95.0	45.5	21.5	34.5	39.5
Merged-chr11-60836674-4	chr11	60836573	60836773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172112, intron 1 of 6)	ORR1C1-int|LTR|ERVL-MaLR	6042.0	NM_145428	216820.0	Mm.21475	NM_145428	ENSMUSG00000042569	Dhrs7b	BC003479|C79874|C80074|PexRAP	dehydrogenase/reductase (SDR family) member 7B	protein-coding	74.5	77.5	48.0	771.0	161.5	58.0	62.5	98.5
Merged-chr6-83109113-4	chr6	83109030	83109230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026744)	promoter-TSS (NM_026744)	22.0	NM_026744	68499.0	Mm.333183	NM_026744	ENSMUSG00000030037	Mrpl53	1110007K17Rik	mitochondrial ribosomal protein L53	protein-coding	31.0	41.5	20.5	275.0	54.5	18.0	23.5	20.5
Merged-chr2-144720629-3	chr2	144720520	144720720	+	988.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	intron (NM_025314, intron 4 of 5)	-103046.0	NM_025490	66328.0	Mm.45377	NM_025490	ENSMUSG00000027431	Scp2d1	1700010M22Rik	SCP2 sterol-binding domain containing 1	protein-coding	18.5	25.0	41.0	498.0	6.5	6.5	10.0	9.0
Merged-chr12-111436676-7	chr12	111436552	111436752	+	978.7261960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6009.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	7.0	19.5	6.0	66.5	19.0	9.0	16.0	10.0
Merged-chr6-28292863-4	chr6	28292772	28292972	+	968.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31271.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	15.0	34.0	14.5	193.5	58.5	23.0	26.0	14.5
Merged-chr3-121618790-4	chr3	121618692	121618892	+	829.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	24693.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	11.0	8.5	2.5	126.0	21.5	6.0	13.0	13.5
Merged-chr9-77748216-1	chr9	77748116	77748316	+	834.666687	f0_balb.idr	Intergenic	RMER4B|LTR|ERVK	-6319.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	8.5	6.5	10.0	220.0	3.0	2.5	4.5	5.0
Merged-chr15-27708663-4	chr15	27708557	27708757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27115.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	59.5	50.0	43.0	532.5	94.0	36.0	50.5	69.5
Merged-chr6-97483478-1	chr6	97483378	97483578	+	661.0	f1_balb.idr	intron (NM_145148, intron 2 of 23)	B4A|SINE|B4	4342.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	4.0	3.5	5.5	9.0	5.5	5.0	5.5	4.5
Merged-chr9-121642678-4	chr9	121642575	121642775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011703)	promoter-TSS (NM_011703)	-41.0	NM_011703	22354.0	Mm.282007	NM_011703	ENSMUSG00000032528	Vipr1	AV071699|VIP-R1|VPAC1	vasoactive intestinal peptide receptor 1	protein-coding	23.5	32.5	38.0	406.0	71.5	31.5	36.5	46.0
Merged-chr6-4749343-4	chr6	4749244	4749444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040611, intron 1 of 1)	intron (NM_001040611, intron 1 of 1)	2038.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	85.0	133.5	64.0	1155.5	225.5	80.0	106.0	94.5
Merged-chr10-121693330-5	chr10	121693206	121693406	+	591.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177335, exon 13 of 13)	3' UTR (NM_177335, exon 13 of 13)	-46624.0	NM_001359720	270802.0	Mm.209172	NM_173022	ENSMUSG00000053684	BC048403	E030027L10	cDNA sequence BC048403	protein-coding	6.5	6.0	2.0	71.0	6.0	6.0	4.5	4.5
Merged-chr11-69092933-4	chr11	69092819	69093019	+	830.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009497)	TTS (NM_009497)	4391.0	NM_009497	22318.0	Mm.28643	NM_009497	ENSMUSG00000020894	Vamp2	Syb-2|Syb2|Vamp-2|sybII	vesicle-associated membrane protein 2	protein-coding	8.0	6.5	10.0	88.0	25.0	13.5	5.0	22.5
Merged-chr9-110857058-4	chr9	110856948	110857148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146227)	promoter-TSS (NM_146227)	-919.0	NM_146227	235631.0	Mm.102265	NM_146227	ENSMUSG00000048752	Prss50	79H19C|Tsp50	protease, serine 50	protein-coding	28.0	43.0	28.5	466.0	82.0	22.0	30.5	44.0
Merged-chr8-108809037-2	chr8	108808933	108809133	+	733.333374	f0_balb.idr|f0_c57.idr	intron (NM_007496, intron 3 of 9)	intron (NM_007496, intron 3 of 9)	94389.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	11.5	7.5	16.5	170.5	22.5	0.0	6.5	11.0
Merged-chr16-17012799-4	chr16	17012711	17012911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038663, intron 1 of 7)	intron (NM_001038663, intron 1 of 7)	29429.0	NM_001038663	26413.0	Mm.196581	NM_011949	ENSMUSG00000063358	Mapk1	9030612K14Rik|AA407128|AU018647|C78273|ERK|Erk2|MAPK2|PRKM2|Prkm1|p41mapk|p42mapk	mitogen-activated protein kinase 1	protein-coding	49.5	82.5	43.0	632.0	139.5	58.0	56.0	46.0
Merged-chr16-3776520-4	chr16	3776391	3776591	+	819.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32392.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	8.0	11.0	5.0	88.5	31.0	12.0	17.0	14.0
Merged-chr18-47318982-3	chr18	47318862	47319062	+	753.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311097, intron 1 of 17)	intron (NM_001311097, intron 1 of 17)	49906.0	NM_018744	20358.0	Mm.40909	NM_018744	ENSMUSG00000019647	Sema6a	A730020P05Rik|AI851735|Sema6A-1|Semaq|VIa	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	protein-coding	13.5	8.0	15.0	231.0	6.0	1.0	2.0	3.5
Merged-chr1-24553616-4	chr1	24553518	24553718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 4 of 50)	intron (NM_007733, intron 4 of 50)	33819.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	23.5	37.0	28.5	542.0	86.0	17.5	35.0	23.5
Merged-chr15-90109613-4	chr15	90109524	90109724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114687.0	NM_001033441	380959.0	Mm.17853	NM_001033441	ENSMUSG00000075470	Alg10b	AA469671|AU045404|AW123895|C85569|Deaf1|Gm917|nse5	asparagine-linked glycosylation 10B (alpha-1,2-glucosyltransferase)	protein-coding	63.5	41.5	60.0	1200.5	58.5	35.5	45.0	8.0
Merged-chr15-38342927-3	chr15	38342831	38343031	+	815.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-42220.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	3.0	2.5	9.0	120.5	14.0	7.0	8.0	13.0
Merged-chr9-99560542-2	chr9	99560442	99560642	+	952.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 1 of 21)	B1F2|SINE|Alu	8357.0	NM_001166138	74125.0	Mm.234823	NM_028768	ENSMUSG00000032468	Armc8	1200015K23Rik|Gid5|HSPC056	armadillo repeat containing 8	protein-coding	9.0	7.5	4.5	44.5	25.5	3.0	4.5	10.0
Merged-chr1-36303574-4	chr1	36303492	36303692	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4141.0	NM_001172206	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	27.0	35.5	17.5	281.5	48.0	22.0	15.5	20.0
Merged-chr14-52119299-5	chr14	52119149	52119349	+	900.7416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023879, exon 4 of 25)	exon (NM_023879, exon 4 of 25)	8346.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	12.5	10.5	8.5	113.5	39.0	18.5	16.5	18.0
Merged-chr5-125465829-4	chr5	125465731	125465931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10042.0	NM_030210	78894.0	Mm.431573	NM_030210	ENSMUSG00000029482	Aacs	2210408B16Rik|SUR5	acetoacetyl-CoA synthetase	protein-coding	181.0	314.5	133.0	2413.0	464.0	185.5	222.0	138.0
Merged-chr17-27133898-4	chr17	27133792	27133992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026063)	promoter-TSS (NM_026063)	-1.0	NM_026063	67267.0	Mm.272389	NM_026063	ENSMUSG00000024208	Uqcc2	2900010M23Rik|Cbp6|M19|Mnf1	ubiquinol-cytochrome c reductase complex assembly factor 2	protein-coding	41.5	64.5	35.0	479.5	101.5	61.5	39.0	52.0
Merged-chr16-78232427-4	chr16	78232325	78232525	+	934.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23029.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	26.5	55.0	38.5	329.0	66.0	10.5	20.5	15.0
Merged-chr14-79552984-3	chr14	79552881	79553081	+	857.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 2 of 8)	L1_Mur2|LINE|L1	-34679.0	NM_026474	67955.0	Mm.18972	NM_026474	ENSMUSG00000022024	Sugt1	2410174K12Rik|SGT1	SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae)	protein-coding	17.0	20.5	7.0	47.5	14.5	10.0	8.5	9.0
Merged-chr19-32887434-3	chr19	32887351	32887551	+	843.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	129874.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	15.0	19.5	21.0	190.5	8.0	9.0	2.0	8.0
Merged-chr10-4405102-4	chr10	4404997	4405197	+	732.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358796, intron 12 of 13)	intron (NM_001358796, intron 12 of 13)	-16989.0	NM_001033466	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	3.0	16.5	5.0	103.5	20.0	14.5	16.0	9.5
Merged-chr14-13961746-5	chr14	13961645	13961845	+	977.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025435)	promoter-TSS (NM_025435)	107.0	NM_001359901	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	7.5	14.0	7.5	115.5	35.5	13.0	6.5	12.0
Merged-chr7-29171231-4	chr7	29171126	29171326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_182694, exon 2 of 3)	exon (NM_182694, exon 2 of 3)	1016.0	NM_182694	243897.0	Mm.389886	NM_182694	ENSMUSG00000031493	Ggn	AI593290	gametogenetin	protein-coding	27.0	88.0	22.5	332.0	128.0	36.5	45.5	29.5
Merged-chr15-81871913-4	chr15	81871797	81871997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080633)	promoter-TSS (NM_080633)	-5.0	NM_026737	68479.0	Mm.271715	NM_026737	ENSMUSG00000061360	Phf5a	1110007B08Rik	PHD finger protein 5A	protein-coding	30.5	44.0	11.5	282.0	107.5	33.0	26.0	26.0
Merged-chr9-109875435-4	chr9	109875325	109875525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007658)	promoter-TSS (NM_007658)	-154.0	NM_007658	12530.0	Mm.307103	NM_007658	ENSMUSG00000032477	Cdc25a	D9Ertd393e	cell division cycle 25A	protein-coding	158.0	204.0	112.0	1862.0	467.5	180.0	222.5	184.0
Merged-chr7-129403943-4	chr7	129403935	129404135	+	944.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146941.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	4.5	15.5	6.5	207.0	27.5	15.5	9.5	9.5
Merged-chr2-52742370-4	chr2	52742283	52742483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019667)	promoter-TSS (NM_019667)	-234.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	58.0	72.5	75.5	664.0	127.0	52.0	49.5	61.5
Merged-chr8-13660452-4	chr8	13660333	13660533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	17154.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	65.0	69.0	88.0	1309.0	119.0	43.5	55.5	57.5
Merged-chr1-184441397-4	chr1	184441304	184441504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116287.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	40.5	64.5	30.0	930.5	133.5	50.0	57.5	66.5
Merged-chr17-25240033-6	chr17	25239919	25240119	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163718)	promoter-TSS (NM_001163718)	97.0	NM_172529	214505.0	Mm.38607	NM_172529	ENSMUSG00000035521	Gnptg	6430527N14Rik|A830081F19|AU067667|AU067744|Mdcp1|Tce7	N-acetylglucosamine-1-phosphotransferase, gamma subunit	protein-coding	19.0	17.0	20.5	126.5	37.0	18.0	5.5	27.0
Merged-chr5-30913198-2	chr5	30913098	30913298	+	843.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133918)	promoter-TSS (NM_133918)	-588.0	NM_133918	100952.0	Mm.286375	NM_133918	ENSMUSG00000029163	Emilin1	5830419M17Rik|AW229038|BB105748|EMILIN-1|gp115	elastin microfibril interfacer 1	protein-coding	3.5	6.5	0.0	22.5	8.0	5.0	5.5	7.5
Merged-chr1-74304609-4	chr1	74304509	74304709	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027154)	promoter-TSS (NM_027154)	-273.0	NM_027154	69660.0	Mm.261182	NM_027154	ENSMUSG00000006301	Tmbim1	2310061B02Rik|AA960455|AU024746|C78899|RECS1|Tmbib1|mKIAA4161	transmembrane BAX inhibitor motif containing 1	protein-coding	18.5	25.0	7.0	211.0	38.0	11.0	19.0	13.5
Merged-chr7-3719380-3	chr7	3719272	3719472	+	871.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011095, exon 4 of 15)	exon (NM_011095, exon 4 of 15)	1010.0	NM_001357394	18733.0	Mm.326531	NM_011095	ENSMUSG00000058818	Pirb	Gp91|LIR-3|Lilrb3|PIR-B	paired Ig-like receptor B	protein-coding	11.5	10.0	7.0	134.0	32.5	5.5	8.5	2.0
Merged-chr17-81480910-4	chr17	81480810	81481010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	257477.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	43.0	40.0	46.5	730.0	131.0	30.5	27.5	49.5
Merged-chr6-17628433-4	chr6	17628313	17628513	+	844.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8597.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	24.5	12.0	12.5	95.0	41.5	14.0	16.0	7.0
Merged-chr9-120571502-4	chr9	120571384	120571584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025974)	promoter-TSS (NM_025974)	-33.0	NM_025974	67115.0	Mm.289810	NM_025974	ENSMUSG00000025794	Rpl14	3100001N19Rik|AA407502|AL022816|CAG-ISL-7|CTG-B33|L14	ribosomal protein L14	protein-coding	129.0	177.0	70.5	1630.5	426.5	157.0	161.0	178.5
Merged-chr18-34391027-4	chr18	34390931	34391131	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-17616.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	14.5	50.5	21.0	248.5	32.0	19.0	15.5	25.5
Merged-chr2-163919114-4	chr2	163919063	163919263	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183023)	promoter-TSS (NM_183023)	-480.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	4.0	8.0	9.5	213.5	8.5	4.5	5.0	4.5
Merged-chr3-93362088-3	chr3	93361992	93362192	+	776.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31607.0	NM_009100	20129.0	Mm.1417	NM_009100	ENSMUSG00000041984	Rptn	-	repetin	protein-coding	11.0	10.0	6.0	154.5	12.5	5.5	5.5	9.5
Merged-chr17-67450633-4	chr17	67450531	67450731	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96140.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	16.0	10.5	13.0	211.0	28.0	9.0	14.0	18.0
Merged-chr10-127600401-4	chr10	127600295	127600495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	20753.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	84.5	106.0	101.0	1421.5	166.0	49.0	76.0	71.5
Merged-chr12-21389638-3	chr12	21389532	21389732	+	956.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011739)	TTS (NM_011739)	-16000.0	NM_009615	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	5.0	1.5	0.0	46.5	64.0	16.5	35.5	46.0
Merged-chr16-19985522-4	chr16	19985419	19985619	+	936.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-2470.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	22.0	22.0	27.0	212.5	27.5	13.0	9.0	16.5
Merged-chr5-41525153-4	chr5	41525052	41525252	+	907.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16B_MM|LTR|ERVK	182539.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	7.0	9.5	9.0	242.0	108.0	37.5	45.5	36.0
Merged-chr1-155049835-2	chr1	155049735	155049935	+	980.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	33429.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	5.0	6.0	2.5	9.0	5.5	5.5	4.5	15.5
Merged-chr2-51934993-4	chr2	51934930	51935130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141982)	promoter-TSS (NM_001141982)	133.0	NM_030243	71684.0	Mm.28309	NM_030243	ENSMUSG00000036249	Rbm43	0610033I05Rik	RNA binding motif protein 43	protein-coding	61.5	60.0	43.5	748.0	123.5	33.0	57.5	49.0
Merged-chr9-62828154-2	chr9	62828054	62828254	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10633.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	3.0	1.5	7.0	90.5	11.5	5.5	5.5	7.5
Merged-chr10-8858401-4	chr10	8858300	8858500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	27670.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	40.0	35.5	31.0	621.0	62.5	23.0	23.5	35.0
Merged-chr8-56328399-4	chr8	56328301	56328501	+	965.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33849.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	41.5	18.0	39.0	835.0	41.5	19.5	51.5	58.5
Merged-chr13-41487254-6	chr13	41487125	41487325	+	917.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001111324, exon 1 of 8)	5' UTR (NM_001111324, exon 1 of 8)	135.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	32.0	30.5	25.0	248.0	27.0	19.5	11.0	21.0
Merged-chr19-4113906-4	chr19	4113807	4114007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_075078)	TTS (NR_075078)	7668.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	29.5	38.5	40.5	529.0	105.0	27.0	51.5	30.5
Merged-chr9-71167251-4	chr9	71167148	71167348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1528.0	NR_110517	102635087.0	Mm.444536	NR_110517	ENSMUSG00000111429	Gm32511	-	predicted gene, 32511	ncRNA	122.0	136.5	100.5	1619.5	301.5	111.5	121.0	108.5
Merged-chr14-14065012-4	chr14	14064905	14065105	+	913.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139227, intron 4 of 11)	intron (NM_139227, intron 4 of 11)	52514.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	8.0	30.0	13.5	399.0	31.0	8.0	6.5	13.5
Merged-chr14-60911001-4	chr14	60910949	60911149	+	839.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126483.0	NR_040642	70478.0	Mm.274650	NM_027436	ENSMUSG00000021993	Mipep	5730405E07Rik|MIP	mitochondrial intermediate peptidase	protein-coding	12.0	9.0	7.0	111.0	13.5	4.5	6.0	9.0
Merged-chr1-191817999-4	chr1	191817900	191818100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3473.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	38.0	79.0	26.0	618.5	87.5	30.5	77.5	32.0
Merged-chr14-73334049-4	chr14	73333946	73334146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-E-int|LTR|ERVL	-8224.0	NM_009029	19645.0	Mm.273862	NM_009029	ENSMUSG00000022105	Rb1	Rb|Rb-1|pRb|pp105	RB transcriptional corepressor 1	protein-coding	38.5	51.0	32.0	774.0	86.0	51.0	36.0	63.0
Merged-chr11-5059981-3	chr11	5059880	5060080	+	625.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190408)	TTS (NM_001190408)	1852.0	NM_145216	75668.0	Mm.374836	NM_145216	ENSMUSG00000034209	Rasl10a	2210403B10Rik|AI852688	RAS-like, family 10, member A	protein-coding	5.5	6.5	0.5	44.0	20.0	7.5	9.5	6.5
Merged-chr9-44234211-4	chr9	44234124	44234324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007619)	promoter-TSS (NM_007619)	-178.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	162.5	245.5	91.5	1766.0	397.5	169.5	181.5	109.5
Merged-chr16-58481922-4	chr16	58481788	58481988	+	837.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	intron (NM_001357433, intron 6 of 10)	41538.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	11.0	10.5	8.5	43.0	22.5	9.0	7.0	8.5
Merged-chr3-87334860-4	chr3	87334775	87334975	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23006.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	50.5	62.5	49.0	1045.0	47.5	17.5	11.0	20.5
Merged-chr13-4662572-4	chr13	4662472	4662672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53408.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	43.5	61.0	45.0	564.0	105.5	40.5	46.5	43.0
Merged-chr12-37248768-3	chr12	37248652	37248852	+	907.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178767, intron 2 of 12)	intron (NM_178767, intron 2 of 12)	7113.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	24.5	35.5	41.0	507.0	3.0	0.0	2.0	1.0
Merged-chr1-16797974-4	chr1	16797827	16798027	+	901.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109471.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	13.5	12.0	17.5	241.5	31.5	9.0	16.5	12.5
Merged-chr17-73302231-4	chr17	73302122	73302322	+	922.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97074.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	9.0	11.5	26.5	258.0	30.5	11.5	19.0	19.5
Merged-chr14-57999247-4	chr14	57999084	57999284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028643)	promoter-TSS (NM_028643)	78.0	NM_028643	68514.0	Mm.26834	NM_028643	ENSMUSG00000021973	Micu2	1110008L20Rik|4833427E09Rik|AU041871|Efha1|Smhs2	mitochondrial calcium uptake 2	protein-coding	31.0	44.0	27.0	388.5	57.0	33.0	32.0	19.5
Merged-chr17-34638106-4	chr17	34638012	34638212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6771.0	NM_019873	56299.0	Mm.10025	NM_019873	ENSMUSG00000033739	Fkbpl	DIR1|NG7|Ppiase-X|Wisp39	FK506 binding protein-like	protein-coding	36.5	65.5	29.5	445.5	76.5	36.5	41.0	41.5
Merged-chr5-139745979-3	chr5	139745809	139746009	+	776.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-9576.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	7.5	5.5	1.0	50.5	21.0	4.5	4.5	7.0
Merged-chr1-85977876-4	chr1	85977775	85977975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16820.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	29.0	49.0	23.0	81.0	64.5	40.5	32.5	13.0
Merged-chr4-91376502-1	chr4	91376402	91376602	+	775.0	f0_balb.idr	promoter-TSS (NM_001357188)	promoter-TSS (NM_001357188)	-6.0	NM_001347149	15569.0	Mm.318042	NM_010486	ENSMUSG00000008489	Elavl2	Hub|mel-N1	ELAV like RNA binding protein 1	protein-coding	9.0	9.5	15.5	180.0	1.5	0.0	5.0	5.0
Merged-chr13-59508751-2	chr13	59508643	59508843	+	599.0	f0_balb.idr|f1_balb.idr	intron (NM_001048008, intron 11 of 17)	intron (NM_001048008, intron 11 of 17)	35708.0	NM_001284221	67269.0	Mm.153008	NM_023328	ENSMUSG00000021557	Agtpbp1	1700020N17Rik|2310001G17Rik|2900054O13Rik|4930445M19Rik|5730402G09Rik|CCP1|Nna1|nmf243|pcd	ATP/GTP binding protein 1	protein-coding	4.5	17.5	3.0	102.5	13.0	4.5	8.0	5.0
Merged-chr13-106812235-4	chr13	106812095	106812295	+	901.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360897, intron 30 of 30)	intron (NM_001360897, intron 30 of 30)	124763.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	19.5	14.0	22.0	432.0	24.5	6.0	8.5	7.0
Merged-chr8-69832424-4	chr8	69832260	69832460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024954)	promoter-TSS (NM_001024954)	-264.0	NM_001357308	80720.0	Mm.210823	NM_001024954	ENSMUSG00000031860	Pbx4	2410015M21Rik|AI429113|AW045266	pre B cell leukemia homeobox 4	protein-coding	22.5	57.5	37.0	559.0	170.5	67.5	87.0	83.5
Merged-chr7-66110025-4	chr7	66109916	66110116	+	893.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081163, exon 1 of 3)	exon (NM_001081163, exon 1 of 3)	501.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	15.5	13.0	10.5	170.0	21.0	13.0	3.5	8.0
Merged-chr1-51789495-4	chr1	51789390	51789590	+	770.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010863, intron 13 of 29)	intron (NM_010863, intron 13 of 29)	126488.0	NM_001161817	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	11.0	12.5	10.0	157.5	24.0	6.0	10.0	13.5
Merged-chr6-72025669-4	chr6	72025569	72025769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046180, intron 1 of 2)	intron (NR_046180, intron 1 of 2)	16859.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	53.0	124.5	45.0	764.5	184.5	69.0	61.5	53.0
Merged-chr1-157554510-5	chr1	157554428	157554628	+	737.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159986, intron 14 of 25)	intron (NM_001159986, intron 14 of 25)	28358.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	6.0	4.5	15.0	85.0	11.5	1.0	2.5	3.5
Merged-chr7-19462084-2	chr7	19461984	19462184	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3590.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	5.0	9.5	9.5	251.0	22.0	6.5	6.0	8.5
Merged-chr11-79871334-4	chr11	79871242	79871442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91045.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	62.5	106.0	58.5	952.0	195.5	52.0	74.0	75.0
Merged-chr4-84876570-2	chr4	84876470	84876670	+	909.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7739.0	NM_175275	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	4.5	3.5	2.0	206.0	17.0	5.5	14.5	8.5
Merged-chr2-131159622-3	chr2	131159528	131159728	+	888.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154887, intron 1 of 6)	intron (NR_154887, intron 1 of 6)	453.0	NR_154887	67326.0	Mm.27711	NM_026091	ENSMUSG00000027327	1700037H04Rik	-	RIKEN cDNA 1700037H04 gene	protein-coding	15.0	10.5	8.5	151.0	34.0	7.0	6.5	26.0
Merged-chr6-136804423-4	chr6	136804338	136804538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175652)	promoter-TSS (NM_175652)	-7.0	NM_175652	320332.0	Mm.246720	NM_175652	ENSMUSG00000096010	Hist4h4	B130044J01Rik	histone cluster 4, H4	protein-coding	125.0	206.0	137.0	1623.5	231.0	96.0	116.5	126.0
Merged-chr7-31059332-4	chr7	31059258	31059458	+	927.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144556)	promoter-TSS (NM_144556)	-577.0	NM_144556	243914.0	Mm.389870	NM_144556	ENSMUSG00000036560	Lgi4	Lgil3|clp	leucine-rich repeat LGI family, member 4	protein-coding	12.0	22.0	21.5	196.5	20.0	5.0	9.0	18.0
Merged-chr16-30013275-4	chr16	30013173	30013373	+	946.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033631, intron 1 of 2)	intron (NR_033631, intron 1 of 2)	4606.0	NR_033631	100043102.0	Mm.30797	NR_033631	ENSMUSG00000097184	4632428C04Rik	Gm4231	RIKEN cDNA 4632428C04 gene	ncRNA	32.5	15.0	52.5	1078.5	29.5	12.0	32.5	17.0
Merged-chr11-59534907-4	chr11	59534823	59535023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-6646.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	32.5	36.0	17.5	253.0	80.0	18.0	21.5	26.0
Merged-chr17-56265119-6	chr17	56264949	56265149	+	962.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8256.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	4.5	8.5	4.5	48.0	31.5	15.5	8.0	27.0
Merged-chr4-155487948-4	chr4	155487841	155488041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3420.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	38.0	35.5	19.5	334.5	80.0	19.0	19.0	33.5
Merged-chr4-43038031-2	chr4	43037931	43038131	+	910.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	2270.0	NM_001253353	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	7.0	8.5	13.5	61.0	17.5	9.5	8.0	10.0
Merged-chr11-68939816-4	chr11	68939703	68939903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B3A_MM|LTR|ERVK	-12722.0	NM_145746	252868.0	Mm.76826	NM_145746	ENSMUSG00000032921	Odf4	Oppo1	outer dense fiber of sperm tails 4	protein-coding	79.0	86.0	49.0	907.0	164.0	77.0	65.5	71.0
Merged-chr11-48855628-4	chr11	48855516	48855716	+	866.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15804.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	8.0	18.0	7.0	90.0	25.0	4.5	18.0	9.5
Merged-chr2-60805551-3	chr2	60805467	60805667	+	745.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	75871.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	11.0	12.0	10.5	146.0	16.5	8.0	2.5	4.5
Merged-chr4-57948121-4	chr4	57948016	57948216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 3 of 4)	intron (NM_011660, intron 3 of 4)	8295.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	55.5	144.5	133.0	1631.5	234.5	56.5	122.0	95.5
Merged-chr11-3163141-3	chr11	3163068	3163268	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 9 of 32)	intron (NM_030207, intron 9 of 32)	30295.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	35.5	43.0	38.0	568.0	7.0	3.5	0.5	5.0
Merged-chr17-13682808-4	chr17	13682704	13682904	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77737.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	14.0	23.0	9.5	278.0	45.0	14.5	23.5	33.5
Merged-chr10-128062489-2	chr10	128062389	128062589	+	622.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019766, intron 1 of 7)	intron (NM_019766, intron 1 of 7)	3507.0	NM_019766	56351.0	Mm.305816	NM_019766	ENSMUSG00000071072	Ptges3	5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177	prostaglandin E synthase 3	protein-coding	6.0	7.0	0.5	97.0	6.5	6.0	4.5	5.0
Merged-chr4-130107508-4	chr4	130107414	130107614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026441)	promoter-TSS (NM_026441)	-42.0	NM_026441	67898.0	Mm.20818	NM_026441	ENSMUSG00000028779	Pef1	2600002E23Rik|Peflin	penta-EF hand domain containing 1	protein-coding	36.0	94.0	20.5	596.0	167.0	51.0	41.0	57.0
Merged-chr11-3198742-7	chr11	3198761	3198961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-3492.0	NM_001166548	74203.0	Mm.255649	NM_023743	ENSMUSG00000020454	Eif4enif1	2610509L04Rik|A930019J01Rik|AA410001|AU021239|Clast4|D11Ertd166e	eukaryotic translation initiation factor 4E nuclear import factor 1	protein-coding	62.0	57.0	39.0	382.5	150.5	49.0	54.5	83.0
Merged-chr1-165193468-4	chr1	165193321	165193521	+	943.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151711, intron 1 of 6)	intron (NR_151711, intron 1 of 6)	1012.0	NM_145512	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	5.0	11.5	17.0	165.0	26.0	6.0	7.0	16.5
Merged-chr3-27338623-4	chr3	27338537	27338737	+	866.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009425, exon 5 of 5)	3' UTR (NM_009425, exon 5 of 5)	21560.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	13.5	19.0	2.5	161.5	31.0	10.5	9.0	10.0
Merged-chr11-95006755-4	chr11	95006641	95006841	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172261, exon 10 of 10)	3' UTR (NM_172261, exon 10 of 10)	-3138.0	NM_146025	217125.0	Mm.297199	NM_146025	ENSMUSG00000047181	Samd14	AI839049|AI854782|BC034054	sterile alpha motif domain containing 14	protein-coding	18.0	9.5	6.0	173.0	29.5	8.5	16.5	11.0
Merged-chr10-40525955-4	chr10	40525837	40526037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44425.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	49.5	114.5	41.5	568.0	123.5	23.0	52.5	18.5
Merged-chr9-119341142-4	chr9	119341039	119341239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130864)	promoter-TSS (NM_130864)	-155.0	NM_130864	113868.0	Mm.205266	NM_130864	ENSMUSG00000036138	Acaa1a	Acaa|Acaa1|D9Ertd25e|PTL	acetyl-Coenzyme A acyltransferase 1A	protein-coding	264.5	484.5	302.0	3352.5	744.0	343.0	306.0	308.0
Merged-chr7-4370654-3	chr7	4370530	4370730	+	913.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163014, intron 6 of 7)	MTA_Mm|LTR|ERVL-MaLR	27114.0	NM_001163014	243816.0	Mm.248662	NM_001163014	ENSMUSG00000078810	Gp6	9830166G18Rik|Gm469|Gpvi	glycoprotein 6 (platelet)	protein-coding	5.5	18.5	8.0	66.0	38.0	12.5	22.0	18.0
Merged-chr10-21826084-4	chr10	21825978	21826178	+	768.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56106.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	6.5	15.0	10.0	113.0	27.0	10.5	5.0	17.0
Merged-chr10-43479164-4	chr10	43479093	43479293	+	996.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199028)	promoter-TSS (NM_199028)	53.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	25.0	27.5	23.0	284.5	85.0	21.5	29.0	21.5
Merged-chr13-112785185-4	chr13	112785084	112785284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15593.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	31.5	35.0	26.0	381.0	93.0	38.5	31.5	36.5
Merged-chr4-43058898-4	chr4	43058793	43058993	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310758)	promoter-TSS (NM_001310758)	-60.0	NM_021468	22249.0	Mm.128892	NM_021468	ENSMUSG00000028456	Unc13b	Munc13-1|Munc13-2|Unc13a|Unc13h1|Unc13h2	unc-13 homolog B (C. elegans)	protein-coding	41.5	66.5	31.5	504.5	62.5	23.5	25.0	16.5
Merged-chr14-72604321-4	chr14	72604213	72604413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 3 of 25)	intron (NM_207636, intron 3 of 25)	105690.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	100.5	127.5	99.0	1915.0	210.5	83.0	98.5	93.0
Merged-chr5-74641227-3	chr5	74641128	74641328	+	894.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159577, intron 2 of 10)	intron (NM_001159577, intron 2 of 10)	36644.0	NM_001159580	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	20.0	19.5	21.0	332.0	11.5	2.5	8.5	8.5
Merged-chr14-57713023-4	chr14	57712918	57713118	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015771, intron 2 of 7)	intron (NM_015771, intron 2 of 7)	21400.0	NM_153382	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	16.0	21.5	31.5	521.5	40.0	6.5	32.0	23.5
Merged-chr13-46907249-4	chr13	46907145	46907345	+	815.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 2 of 37)	intron (NM_010617, intron 2 of 37)	22473.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	5.0	8.5	5.0	119.5	55.0	26.5	22.0	19.0
Merged-chr15-99651706-4	chr15	99651605	99651805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012025)	promoter-TSS (NM_012025)	-49.0	NM_001253809	26934.0	Mm.273804	NM_012025	ENSMUSG00000023015	Racgap1	AI227039|AI327394|Band25|GTPase|MgcRacGAP|gtl11|mKIAA1478	Rac GTPase-activating protein 1	protein-coding	89.0	113.5	43.0	638.5	171.5	58.5	52.0	53.0
Merged-chr2-84454230-3	chr2	84454130	84454330	+	762.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355271, intron 3 of 8)	intron (NM_001355271, intron 3 of 8)	19944.0	NM_011576	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	5.5	21.5	7.0	178.5	22.5	5.5	1.5	7.0
Merged-chr2-165955013-4	chr2	165954910	165955110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37627.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	52.0	71.5	49.0	1174.0	115.5	37.0	60.0	55.5
Merged-chr11-30676329-3	chr11	30676243	30676443	+	784.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	MamRep1527|LTR|LTR	-26947.0	NM_029344	75572.0	Mm.390319	NM_029344	ENSMUSG00000060923	Acyp2	2310004B09Rik	acylphosphatase 2, muscle type	protein-coding	7.0	9.0	7.5	102.5	23.5	13.5	12.5	3.5
Merged-chr3-142530857-3	chr3	142530759	142530959	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083312, intron 1 of 10)	intron (NM_001083312, intron 1 of 10)	523.0	NM_145545	229900.0	Mm.45740	NM_145545	ENSMUSG00000040253	Gbp7	9830147J24Rik	guanylate binding protein 7	protein-coding	5.0	12.0	6.0	86.5	21.5	7.5	9.5	11.0
Merged-chr4-126260965-4	chr4	126260852	126261052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1453.0	NM_013718	27096.0	Mm.8392	NM_013718	ENSMUSG00000028847	Trappc3	1110058K12Rik|AI835942|AU019197|Bet3	trafficking protein particle complex 3	protein-coding	55.5	79.0	56.5	544.0	102.5	46.0	41.5	31.0
Merged-chr15-78983553-4	chr15	78983459	78983659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024716, intron 1 of 13)	intron (NM_001024716, intron 1 of 13)	503.0	NM_001024716	110253.0	Mm.123714	NM_138579	ENSMUSG00000033088	Triobp	AI428493|EST478828|Tara|mKIAA1662	TRIO and F-actin binding protein	protein-coding	18.5	24.5	16.0	261.0	41.5	10.5	14.5	18.0
Merged-chr13-113607594-3	chr13	113607489	113607689	+	675.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	10975.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	18.0	27.0	5.5	73.5	23.5	10.0	7.0	1.0
Merged-chr10-99430879-4	chr10	99430773	99430973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	167642.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	70.0	111.0	72.0	1151.5	161.5	63.5	64.0	40.0
Merged-chr1-86430221-4	chr1	86430124	86430324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3895.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	65.0	71.5	52.0	675.0	124.0	32.0	70.0	50.0
Merged-chr2-84618841-4	chr2	84618735	84618935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 5 of 18)	MIRc|SINE|MIR	30645.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	21.0	51.0	42.0	470.0	61.0	22.0	23.5	25.5
Merged-chr12-84174475-4	chr12	84174486	84174686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	19429.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	58.0	70.0	64.0	650.0	181.0	33.0	37.0	41.5
Merged-chr4-109204547-3	chr4	109204441	109204641	+	942.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2269.0	NM_001346502	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	9.0	16.0	6.5	210.5	16.5	5.0	6.0	14.0
Merged-chr2-167388584-4	chr2	167388497	167388697	+	911.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33113.0	NM_148929	77031.0	Mm.278924	NM_148929	ENSMUSG00000039463	Slc9a8	1200006P13Rik|6430709P13Rik|AI182282|NHE-8|NHE8	solute carrier family 9 (sodium/hydrogen exchanger), member 8	protein-coding	16.0	53.5	19.5	132.0	67.5	33.0	17.5	15.0
Merged-chr11-68472668-4	chr11	68472585	68472785	+	885.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	-30334.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	23.5	22.5	15.0	94.5	40.5	11.5	27.5	13.0
Merged-chr14-60451810-4	chr14	60451708	60451908	+	744.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	73522.0	NM_001164705	72125.0	Mm.275499	NM_028113	ENSMUSG00000021986	Amer2	2600011E07Rik|Fam123a	APC membrane recruitment 2	protein-coding	5.0	12.5	12.0	86.5	43.5	4.5	9.0	10.5
Merged-chr5-106696717-5	chr5	106696636	106696836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026856)	promoter-TSS (NM_026856)	94.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	75.5	102.5	86.5	1096.0	172.0	58.5	96.5	67.0
Merged-chr3-121890782-4	chr3	121890678	121890878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62451.0	NM_172525	214137.0	Mm.229287	NM_172525	ENSMUSG00000039831	Arhgap29	6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1	Rho GTPase activating protein 29	protein-coding	74.5	89.0	86.5	1697.0	182.5	43.0	77.5	76.0
Merged-chr12-105032462-4	chr12	105032360	105032560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003145)	promoter-TSS (NR_003145)	-158.0	NM_028419	73046.0	Mm.29128	NM_028419	ENSMUSG00000021102	Glrx5	-	glutaredoxin 5	protein-coding	389.0	700.5	477.0	6593.5	1120.5	482.0	536.0	454.0
Merged-chr18-36525687-4	chr18	36525590	36525790	+	906.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2462.0	NM_172830	240215.0	Mm.135463	NM_172830	ENSMUSG00000024485	Slc4a9	AE4|D630003B07|D630024F24Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 9	protein-coding	8.5	20.0	10.0	163.5	45.5	12.5	22.5	25.5
Merged-chr5-3381888-4	chr5	3381737	3381937	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	37944.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	9.0	7.0	7.5	87.0	24.0	8.5	16.5	13.0
Merged-chr7-117490881-4	chr7	117490776	117490976	+	882.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175645, intron 2 of 11)	intron (NM_175645, intron 2 of 11)	109897.0	NM_175645	233781.0	Mm.461427	NM_175645	ENSMUSG00000030657	Xylt1	8030490L12	xylosyltransferase 1	protein-coding	3.0	5.5	18.5	102.0	9.5	9.0	6.5	9.0
Merged-chr2-30772092-4	chr2	30772030	30772230	+	939.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29607.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	21.5	18.5	13.0	233.5	35.5	18.5	13.5	20.5
Merged-chr4-11166715-4	chr4	11166601	11166801	+	802.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021897, intron 3 of 3)	B3|SINE|B2	10260.0	NM_021897	60599.0	Mm.393018	NM_021897	ENSMUSG00000028211	Trp53inp1	2700057G22Rik|SIP|SIP18|SIP27|Stinp|Teap|p53DINP1	transformation related protein 53 inducible nuclear protein 1	protein-coding	4.5	11.5	3.0	175.5	37.5	10.0	15.5	11.5
Merged-chr9-119322359-4	chr9	119322288	119322488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045693)	promoter-TSS (NR_045693)	39.0	NR_045693	108737.0	Mm.293565	NM_133985	ENSMUSG00000036737	Oxsr1	2210022N24Rik|2810422B09Rik|AI462649|AW209236|Osr1|mKIAA1101	oxidative-stress responsive 1	protein-coding	23.0	49.5	45.0	482.0	169.0	64.5	45.0	47.0
Merged-chr3-146450591-4	chr3	146450492	146450692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001293672, exon 1 of 7)	exon (NM_001293672, exon 1 of 7)	125.0	NM_001293672	74245.0	Mm.45396	NM_028836	ENSMUSG00000028189	Ctbs	2210401K11Rik|CTB	chitobiase, di-N-acetyl-	protein-coding	145.0	216.0	232.5	2322.5	284.5	161.0	155.5	154.5
Merged-chr15-84466618-4	chr15	84466513	84466713	+	993.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19516.0	NM_001163145	72301.0	Mm.275387	NM_001163145	ENSMUSG00000062760	1810041L15Rik	Kiaa1644|Shisal1	RIKEN cDNA 1810041L15 gene	protein-coding	13.0	29.0	23.5	270.5	52.5	9.0	22.0	22.5
Merged-chr8-79392807-4	chr8	79392718	79392918	+	818.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	6650.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	6.0	21.0	18.5	262.5	28.5	16.5	11.0	20.5
Merged-chr9-61372295-4	chr9	61372202	61372402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083927)	promoter-TSS (NM_001083927)	-64.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	155.5	203.5	78.5	1638.5	356.0	141.0	126.5	100.5
Merged-chr19-34199665-4	chr19	34199552	34199752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	6718.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	79.0	72.5	40.0	1038.5	147.0	52.0	68.0	62.0
Merged-chr11-121091179-4	chr11	121091054	121091254	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10015.0	NM_145373	209588.0	Mm.69553	NM_145373	ENSMUSG00000025165	Sectm1a	BC010462	secreted and transmembrane 1A	protein-coding	21.0	47.5	10.5	228.5	54.0	33.0	16.0	29.0
Merged-chr17-78937141-4	chr17	78937084	78937284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028611)	promoter-TSS (NM_028611)	49.0	NM_028611	73694.0	Mm.104959	NM_028611	ENSMUSG00000024082	Ndufaf7	2410091C18Rik|AL033374|PRO1853	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex assembly factor 7	protein-coding	256.0	357.5	191.5	4191.5	446.0	173.5	218.0	183.5
Merged-chr4-138325760-4	chr4	138325696	138325896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026880, intron 1 of 7)	CpG	500.0	NM_026880	68943.0	Mm.18539	NM_026880	ENSMUSG00000028756	Pink1	1190006F07Rik|AU042772|AW557854|BRPK|mFLJ00387	PTEN induced putative kinase 1	protein-coding	63.0	78.5	58.5	704.0	159.5	63.0	74.5	63.5
Merged-chr19-45675306-3	chr19	45675208	45675408	+	967.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15115.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	14.5	10.0	5.5	177.5	18.5	8.0	12.0	8.0
Merged-chr8-124751810-3	chr8	124751712	124751912	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081120)	promoter-TSS (NM_001081120)	-3.0	NM_001081120	69627.0	Mm.271600	NM_001081120	ENSMUSG00000043068	Fam89a	2310031A18Rik	family with sequence similarity 89, member A	protein-coding	7.0	19.5	7.5	135.5	10.5	5.0	6.0	6.0
Merged-chr12-106016473-4	chr12	106016366	106016566	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	L1MD|LINE|L1	6203.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	18.0	21.5	12.5	352.0	30.5	12.0	14.0	16.5
Merged-chr1-36962443-7	chr1	36962363	36962563	+	971.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22936.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	7.5	8.5	15.0	222.5	43.0	25.0	23.0	19.0
Merged-chr12-33128395-4	chr12	33128302	33128502	+	844.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015602, intron 4 of 5)	L1MC1|LINE|L1	19184.0	NR_015602	320046.0	Mm.208337	NR_015602	ENSMUSG00000052125	F730043M19Rik	-	RIKEN cDNA F730043M19 gene	ncRNA	10.0	14.0	9.0	207.0	34.0	4.5	8.5	13.5
Merged-chr14-54383943-1	chr14	54383843	54384043	+	841.0	f0_balb.idr	intron (NM_011405, intron 4 of 11)	B4A|SINE|B4	23102.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	19.0	16.0	13.0	186.5	19.0	8.5	5.0	1.5
Merged-chr3-135686708-4	chr3	135686607	135686807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 1 of 24)	intron (NM_008689, intron 1 of 24)	4840.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	48.0	46.0	34.5	554.5	98.0	47.0	37.5	33.5
Merged-chr2-61711688-4	chr2	61711623	61711823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021526)	promoter-TSS (NM_021526)	29.0	NM_021526	59029.0	Mm.218198	NM_021526	ENSMUSG00000026914	Psmd14	2610312C03Rik|3200001M20Rik|AA986732|Pad1|Poh1|rpm11	proteasome (prosome, macropain) 26S subunit, non-ATPase, 14	protein-coding	104.0	137.0	99.0	2051.0	305.0	108.5	114.0	127.5
Merged-chr9-20467291-3	chr9	20467202	20467402	+	799.399963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR55|LTR|ERVL?	-7142.0	NM_001357809	22688.0	Mm.107441	NM_011753	ENSMUSG00000063108	Zfp26	5033428C05Rik|KRAB15|Zfp-26|Zfp70|Zfp81-rs1|mKIAA4196|mkr-3|mszf14|mszf52	zinc finger protein 26	protein-coding	2.0	11.5	7.0	117.5	10.5	7.0	6.0	5.0
Merged-chr15-98517524-4	chr15	98517401	98517601	+	929.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001289437)	TTS (NM_001289437)	2333.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	8.5	25.5	18.5	144.5	38.5	8.0	6.5	14.0
Merged-chr7-88277388-4	chr7	88277307	88277507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311790)	promoter-TSS (NM_001311790)	-678.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	64.0	152.0	79.0	1456.0	257.5	69.5	96.0	96.5
Merged-chr19-3376199-4	chr19	3376132	3376332	+	887.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 13 of 18)	Lx8|LINE|L1	-12625.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	4.5	12.5	12.5	108.5	16.0	5.0	14.0	18.0
Merged-chr2-166228612-3	chr2	166228499	166228699	+	819.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45309.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	7.0	4.5	4.5	99.0	16.0	7.0	5.0	5.0
Merged-chr14-55092468-4	chr14	55092380	55092580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039198)	promoter-TSS (NM_001039198)	-432.0	NM_001039198	239102.0	Mm.441113	NM_001039198	ENSMUSG00000040721	Zfhx2	ZFH-5	zinc finger homeobox 2	protein-coding	36.0	62.5	17.5	434.0	97.0	38.0	41.5	23.5
Merged-chr2-173019442-3	chr2	173019319	173019519	+	768.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2483.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	12.0	8.0	10.0	125.5	14.5	8.5	6.5	9.0
Merged-chr8-120682882-4	chr8	120682794	120682994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14574.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	46.5	112.0	36.0	463.0	135.5	43.5	49.0	29.5
Merged-chr2-6713723-4	chr2	6713641	6713841	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 4 of 15)	intron (NM_001110232, intron 4 of 15)	7921.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	29.5	17.0	14.0	479.0	52.5	15.0	10.0	22.5
Merged-chr3-36533516-3	chr3	36533410	36533610	+	881.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12065.0	NR_040411	100503068.0	Mm.389423	NR_040411	ENSMUSG00000085007	Gm11549	-	predicted gene 11549	ncRNA	14.0	16.5	22.0	127.0	16.0	6.0	7.5	8.5
Merged-chr1-36566563-4	chr1	36566419	36566619	+	705.287476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 12 of 14)	intron (NM_001126046, intron 12 of 14)	-8138.0	NM_001126047	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	7.5	6.0	8.0	123.5	6.0	8.5	5.0	5.0
Merged-chr17-69178878-4	chr17	69178749	69178949	+	823.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	19493.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	9.0	8.5	7.0	114.5	37.0	6.5	7.0	3.5
Merged-chr9-108991789-4	chr9	108991680	108991880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173019)	promoter-TSS (NM_173019)	-122.0	NM_173019	270198.0	Mm.132391	NM_173019	ENSMUSG00000025648	Pfkfb4	C230090D14	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4	protein-coding	217.5	323.0	223.5	2887.5	502.0	228.0	269.5	211.0
Merged-chr16-52031494-4	chr16	52031323	52031523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033238)	promoter-TSS (NM_001033238)	-126.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	186.0	249.5	311.0	3654.5	336.0	120.0	200.0	151.0
Merged-chr5-21425276-2	chr5	21425176	21425376	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029195)	promoter-TSS (NM_029195)	373.0	NM_177869	330050.0	Mm.40655	NM_177869	ENSMUSG00000047221	Fam185a	4631428I10|AI847670	family with sequence similarity 185, member A	protein-coding	20.0	15.5	21.5	267.5	27.5	22.0	18.0	18.0
Merged-chr7-83653958-6	chr7	83653841	83654041	+	985.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 13 of 18)	intron (NM_001360088, intron 13 of 18)	1554.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	15.5	20.5	16.0	82.0	35.0	15.0	14.0	10.0
Merged-chr18-8370474-4	chr18	8370405	8370605	+	807.195862	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	500792.0	NM_001360956	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	17.0	14.5	12.5	249.5	35.0	8.5	17.0	16.5
Merged-chr9-90261515-3	chr9	90261412	90261612	+	958.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	9257.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	5.5	15.0	4.0	20.5	37.5	17.5	13.5	5.5
Merged-chr11-115929966-4	chr11	115929844	115930044	+	909.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130454, intron 2 of 18)	intron (NM_130454, intron 2 of 18)	3548.0	NM_130454	170472.0	Mm.379351	NM_130454	ENSMUSG00000020752	Recql5	RecQ5|Recq5b|Recql5b	RecQ protein-like 5	protein-coding	11.0	17.5	21.5	250.5	30.5	7.5	11.5	15.0
Merged-chr13-103768154-4	chr13	103768045	103768245	+	857.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361085, intron 2 of 11)	intron (NM_001361085, intron 2 of 11)	-3563.0	NM_172592	218543.0	Mm.458176	NM_172592	ENSMUSG00000032621	Srek1	8430401B01|AI450757|AI462342|SRrp508|SRrp86|Sfrs12|Srsf12	splicing regulatory glutamine/lysine-rich protein 1	protein-coding	15.5	14.5	16.5	306.5	28.0	7.5	17.0	15.0
Merged-chr7-110910667-3	chr7	110910543	110910743	+	781.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194464, intron 10 of 20)	HAL1b|LINE|L1	5658.0	NR_045267	100504184.0	Mm.441327	NR_045267	ENSMUSG00000087160	Gm16336	-	predicted gene 16336	ncRNA	4.5	4.5	9.0	177.5	7.5	2.5	2.5	7.0
Merged-chr19-21818266-4	chr19	21818162	21818362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033759, intron 12 of 23)	intron (NM_001033759, intron 12 of 23)	39922.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	35.0	34.0	45.5	574.0	103.0	16.0	35.5	36.5
Merged-chr7-136308993-4	chr7	136308885	136309085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102277, intron 3 of 3)	intron (NR_102277, intron 3 of 3)	40430.0	NR_040459	330664.0	Mm.127762	NR_040459	ENSMUSG00000109633	C230079O03Rik	C230079O03	RIKEN cDNA C230079O03 gene	ncRNA	58.5	86.0	90.0	1232.0	231.5	90.0	92.5	89.0
Merged-chr15-6426057-1	chr15	6425957	6426157	+	715.5	f0_balb.idr	intron (NM_001008702, intron 9 of 13)	intron (NM_001008702, intron 9 of 13)	-19276.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	8.5	8.0	9.0	141.5	8.0	0.0	1.5	5.5
Merged-chr17-74711017-4	chr17	74710931	74711131	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6719.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	6.0	21.5	5.5	132.0	171.0	73.0	52.5	93.0
Merged-chr4-59928581-4	chr4	59928474	59928674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13518.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	33.5	64.0	26.5	619.5	94.0	39.5	65.5	29.5
Merged-chr13-4667023-4	chr13	4666972	4667172	+	766.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57908.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	9.0	12.0	3.5	76.0	26.5	8.0	5.5	6.5
Merged-chr10-60697191-4	chr10	60697097	60697297	+	773.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045556)	promoter-TSS (NR_045556)	-707.0	NM_023370	22295.0	Mm.440327	NM_023370	ENSMUSG00000012819	Cdh23	4930542A03Rik|USH1D|ahl|ahl1|bob|bus|mdfw|nmf112|nmf181|nmf252|sals|v	cadherin 23 (otocadherin)	protein-coding	9.0	15.0	3.5	113.0	24.5	9.0	11.5	10.0
Merged-chr13-113418319-4	chr13	113418219	113418419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84525.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	140.0	251.0	99.5	1453.5	362.5	142.0	142.0	113.0
Merged-chr2-30132125-3	chr2	30132011	30132211	+	879.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1635.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	5.0	12.0	1.0	8.0	31.0	9.5	7.0	5.5
Merged-chr8-46828583-4	chr8	46828485	46828685	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008391, intron 6 of 8)	intron (NM_008391, intron 6 of 8)	88840.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	19.0	33.0	13.0	121.5	46.0	17.5	16.0	14.5
Merged-chr7-44997293-4	chr7	44997208	44997408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016849)	promoter-TSS (NM_016849)	271.0	NM_029410	75736.0	Mm.261006	NM_029410	ENSMUSG00000003190	Bcl2l12	2810475P17Rik|5430429M05Rik|Bcl-L12|Bcl2-L12	BCL2-like 12 (proline rich)	protein-coding	52.5	55.5	48.5	459.5	135.5	62.5	55.0	55.0
Merged-chr14-16240178-4	chr14	16240065	16240265	+	853.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001359883, exon 3 of 3)	3' UTR (NM_001359883, exon 3 of 3)	3166.0	NM_001359883	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	16.5	20.5	13.5	95.5	41.5	23.5	21.5	21.0
Merged-chr12-33315411-4	chr12	33315322	33315522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	12907.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	107.5	105.5	79.0	1712.0	154.5	50.0	139.0	70.0
Merged-chr6-24955270-6	chr6	24955161	24955361	+	865.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177013, exon 1 of 1)	exon (NM_177013, exon 1 of 1)	864.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	8.5	10.0	18.5	104.0	3.0	10.0	2.5	6.0
Merged-chr7-67374131-4	chr7	67374012	67374212	+	924.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1254.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	19.5	15.5	20.0	264.0	49.0	13.5	11.5	20.5
Merged-chr17-22353012-3	chr17	22352896	22353096	+	757.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355280, intron 4 of 6)	intron (NM_001355280, intron 4 of 6)	8404.0	NM_176962	319615.0	Mm.442162	NM_176962	ENSMUSG00000033972	Zfp944	6330416L07Rik	zinc finger protein 944	protein-coding	10.0	10.5	5.0	149.5	33.0	4.0	16.5	11.5
Merged-chr6-47562546-4	chr6	47562385	47562585	+	720.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146689, intron 3 of 19)	intron (NM_001146689, intron 3 of 19)	32545.0	NM_001146689	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	9.0	5.5	6.0	113.5	9.0	1.0	1.5	5.5
Merged-chr2-90543300-1	chr2	90543200	90543400	+	548.0	f0_balb.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	37347.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	6.5	5.5	6.0	96.5	25.0	10.5	4.5	10.5
Merged-chr13-107057848-3	chr13	107057742	107057942	+	792.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35272.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	0.0	3.0	6.5	75.0	19.0	6.0	6.5	7.5
Merged-chr14-66281029-4	chr14	66280933	66281133	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172498)	promoter-TSS (NM_172498)	19.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	37.5	26.0	15.0	356.0	71.0	22.0	27.5	22.0
Merged-chr1-162477975-4	chr1	162477875	162478075	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172646)	promoter-TSS (NM_172646)	59.0	NM_172646	103967.0	Mm.441620	NM_172646	ENSMUSG00000040265	Dnm3	9630020E24Rik|AW061159|B230343F03Rik|C530045C17|Dyna III|mKIAA0820	dynamin 3	protein-coding	15.0	17.5	39.0	462.5	21.5	7.0	19.5	17.5
Merged-chr18-11657782-4	chr18	11657694	11657894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081223, intron 1 of 18)	CpG	445.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	68.5	96.5	68.0	1095.0	211.0	88.5	90.0	77.0
Merged-chr1-86041043-4	chr1	86040948	86041148	+	803.829163	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb-int|LTR|ERVL-MaLR	-4815.0	NM_001144993	72792.0	Mm.54981	NM_001144992	ENSMUSG00000026227	2810459M11Rik	-	RIKEN cDNA 2810459M11 gene	protein-coding	16.0	12.5	7.5	159.5	21.5	8.5	17.5	15.5
Merged-chr4-42968884-3	chr4	42968774	42968974	+	923.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1072.0	NM_026088	67317.0	Mm.478018	NM_026088	ENSMUSG00000028451	1700022I11Rik	-	RIKEN cDNA 1700022I11 gene	protein-coding	3.0	5.0	4.0	36.0	97.5	46.5	45.0	52.0
Merged-chr13-100247176-4	chr13	100247063	100247263	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010870, intron 1 of 14)	intron (NM_010870, intron 1 of 14)	173.0	NM_010870	17951.0	Mm.290476	NM_010870	ENSMUSG00000071203	Naip5	Birc1e|Lgn1|Naip-rs3	NLR family, apoptosis inhibitory protein 5	protein-coding	13.5	20.5	14.5	157.5	59.5	22.5	37.5	39.0
Merged-chr15-89175636-4	chr15	89175540	89175740	+	987.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	-1689.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	46.5	84.5	34.0	313.5	113.0	54.0	29.5	16.0
Merged-chr15-25322253-4	chr15	25322145	25322345	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91519.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	31.0	18.5	31.0	380.5	62.0	19.0	34.5	22.0
Merged-chr17-86770024-4	chr17	86769848	86770048	+	893.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010137, intron 1 of 15)	intron (NM_010137, intron 1 of 15)	16084.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	11.5	16.5	13.5	283.5	7.5	8.0	7.5	4.5
Merged-chr3-149072737-3	chr3	149072623	149072823	+	660.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118088.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	7.0	11.0	6.5	155.0	14.0	4.0	1.5	5.0
Merged-chr4-116556111-6	chr4	116556027	116556227	+	951.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177670)	promoter-TSS (NM_177670)	-184.0	NM_177670	230657.0	Mm.291484	NM_177670	ENSMUSG00000055900	Tmem69	A630048M13Rik	transmembrane protein 69	protein-coding	7.0	8.5	15.5	85.0	14.0	7.0	8.0	5.5
Merged-chr2-4601472-3	chr2	4601361	4601561	+	778.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 8 of 11)	intron (NM_001177844, intron 8 of 11)	41707.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	9.0	8.0	11.5	89.5	18.0	9.0	6.0	11.0
Merged-chr11-102432239-4	chr11	102432159	102432359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008175, intron 1 of 12)	intron (NM_008175, intron 1 of 12)	1937.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	79.5	133.5	83.0	991.0	179.5	74.5	75.5	64.5
Merged-chr8-120589270-4	chr8	120589187	120589387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178856)	promoter-TSS (NM_178856)	-212.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	466.5	748.5	471.5	5854.5	902.5	431.5	466.0	372.5
Merged-chr3-83002395-2	chr3	83002299	83002499	+	784.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-5325.0	NM_133862	99571.0	Mm.16422	NM_133862	ENSMUSG00000033860	Fgg	3010002H13Rik|AI256424	fibrinogen gamma chain	protein-coding	4.0	19.5	6.0	140.5	18.0	9.0	6.0	4.5
Merged-chr16-36745205-3	chr16	36745102	36745302	+	806.144409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	39760.0	NM_001145899	57738.0	Mm.281804	NM_021301	ENSMUSG00000022899	Slc15a2	8430408C16Rik|C78862|Pept2	solute carrier family 15 (H+/peptide transporter), member 2	protein-coding	6.0	7.0	10.5	146.5	20.5	3.5	2.0	4.0
Merged-chr2-16310855-3	chr2	16310755	16310955	+	906.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45449.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	12.0	4.0	10.5	220.0	6.0	8.5	6.5	10.5
Merged-chr9-21015946-4	chr9	21015859	21016059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010493)	promoter-TSS (NM_010493)	19.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	98.0	232.5	70.5	372.5	237.5	91.5	87.5	38.0
Merged-chr9-55259979-4	chr9	55259877	55260077	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	intron (NM_032002, intron 3 of 7)	23648.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	27.5	31.5	39.5	307.5	41.0	22.5	39.0	23.0
Merged-chr11-63790420-4	chr11	63790345	63790545	+	889.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131839.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	9.0	20.5	11.5	159.5	22.0	12.0	15.0	24.5
Merged-chr13-76130093-3	chr13	76129989	76130189	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081352, intron 18 of 43)	intron (NM_001081352, intron 18 of 43)	31355.0	NM_001081352	218343.0	Mm.277964	NM_001081352	ENSMUSG00000033991	Ttc37	-	tetratricopeptide repeat domain 37	protein-coding	21.0	36.0	24.0	610.5	15.0	4.0	5.5	3.0
Merged-chr6-136835648-3	chr6	136835581	136835781	+	773.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039558)	promoter-TSS (NM_001039558)	-231.0	NM_001039558	654818.0	Mm.386899	NM_001039558	ENSMUSG00000043298	Smco3	C030030A07Rik	single-pass membrane protein with coiled-coil domains 3	protein-coding	18.5	35.5	17.0	244.5	6.5	3.5	4.0	1.0
Merged-chr7-128461355-3	chr7	128461261	128461461	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009383, exon 1 of 12)	5' UTR (NM_009383, exon 1 of 12)	152.0	NM_009383	21843.0	Mm.242072	NM_009383	ENSMUSG00000030846	Tial1	5330433G13Rik|AL033329|TIAR|mTIAR	Tia1 cytotoxic granule-associated RNA binding protein-like 1	protein-coding	23.0	38.5	38.0	304.5	94.0	51.5	53.0	56.0
Merged-chr3-21633979-4	chr3	21633876	21634076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-442676.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	37.0	28.5	51.5	749.0	76.0	32.0	55.0	61.5
Merged-chr1-193145355-4	chr1	193145254	193145454	+	922.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7758.0	NM_016851	54139.0	Mm.273695	NM_016851	ENSMUSG00000026638	Irf6	AI876454|E230028I05Rik|mirf6	interferon regulatory factor 6	protein-coding	13.5	14.5	20.5	170.5	27.0	8.0	21.5	16.5
Merged-chr14-46831503-1	chr14	46831403	46831603	+	631.5	f0_balb.idr	promoter-TSS (NM_001360455)	promoter-TSS (NM_001360455)	-631.0	NM_001360454	68755.0	Mm.343809	NM_026832	ENSMUSG00000055128	Cgrrf1	1110038G02Rik|1810009H17Rik|CGR19	cell growth regulator with ring finger domain 1	protein-coding	5.0	13.5	17.0	95.5	17.5	4.5	7.5	10.0
Merged-chr15-79721022-3	chr15	79720939	79721139	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013818, exon 12 of 12)	3' UTR (NM_013818, exon 12 of 12)	21497.0	NM_194342	223697.0	Mm.202715	NM_194342	ENSMUSG00000042524	Sun2	B230369L08Rik|C030011B15|Unc84b	Sad1 and UNC84 domain containing 2	protein-coding	11.5	3.5	5.5	140.0	13.0	8.5	8.5	6.5
Merged-chr10-92722397-4	chr10	92722314	92722514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008682)	promoter-TSS (NM_008682)	4.0	NM_008682	17997.0	Mm.2998	NM_008682	ENSMUSG00000019988	Nedd1	-	neural precursor cell expressed, developmentally down-regulated gene 1	protein-coding	150.0	239.5	131.0	3188.5	394.5	162.0	251.0	145.0
Merged-chr2-51014455-4	chr2	51014363	51014563	+	976.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104779.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	8.5	27.0	17.0	358.0	46.0	17.0	23.5	10.0
Merged-chr7-101906279-2	chr7	101906179	101906379	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081679)	promoter-TSS (NM_001081679)	80.0	NM_001081679	791260.0	Mm.475469	NM_001081679	ENSMUSG00000078630	Tomt	Comt2|F930017I19Rik	transmembrane O-methyltransferase	protein-coding	40.5	36.5	29.0	504.5	96.5	38.0	61.5	57.0
Merged-chr11-54156085-4	chr11	54155980	54156180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	55156.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	69.5	95.0	59.0	947.5	143.0	42.5	65.5	72.5
Merged-chr1-177711197-4	chr1	177711102	177711302	+	977.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25B|LTR|ERVK	-18612.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	28.5	28.0	22.5	566.5	56.0	33.5	16.0	57.0
Merged-chr10-77353581-2	chr10	77353481	77353681	+	846.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001024838, intron 2 of 11)	intron (NM_001024838, intron 2 of 11)	64692.0	NM_130895	110532.0	Mm.276815	NM_130895	ENSMUSG00000020262	Adarb1	1700057H01Rik|AW124433|AW558573|Adar2|BB220382|D10Bwg0447e|Red1	adenosine deaminase, RNA-specific, B1	protein-coding	1.5	7.0	0.5	64.5	10.0	5.0	7.0	9.5
Merged-chr4-41274643-2	chr4	41274543	41274743	+	757.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026872, intron 1 of 28)	intron (NM_026872, intron 1 of 28)	492.0	NM_026872	68926.0	Mm.41864	NM_026872	ENSMUSG00000028433	Ubap2	1190005K07Rik|AA408600|AU045235|UBAP-2|mKIAA1491	ubiquitin-associated protein 2	protein-coding	3.5	10.5	7.5	44.0	11.5	6.0	5.0	9.5
Merged-chr7-80711615-4	chr7	80711497	80711697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_016721)	TTS (NM_016721)	-22720.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	65.5	122.0	44.5	956.0	111.5	47.0	67.0	72.0
Merged-chr2-174439654-4	chr2	174439544	174439744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022325)	promoter-TSS (NM_022325)	-605.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	117.0	158.0	120.5	1568.0	341.5	126.5	127.0	125.5
Merged-chr17-80497363-4	chr17	80497274	80497474	+	930.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16921.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	17.0	26.0	14.5	130.0	38.5	9.5	24.5	16.0
Merged-chr14-74976509-3	chr14	74976412	74976612	+	899.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046078, intron 2 of 2)	intron (NR_046078, intron 2 of 2)	1426.0	NR_046078	100043169.0	Mm.145900	NR_046078	ENSMUSG00000115019	Gm4278	-	predicted gene 4278	ncRNA	6.0	14.5	9.0	150.5	17.5	1.5	3.0	5.0
Merged-chr11-32554931-4	chr11	32554814	32555014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	21648.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	29.5	42.0	22.0	500.5	90.5	32.5	24.5	26.5
Merged-chr1-194977288-5	chr1	194977225	194977425	+	889.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033564)	promoter-TSS (NR_033564)	-366.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	7.0	9.0	16.5	151.0	25.0	10.0	8.0	14.0
Merged-chr5-90876279-4	chr5	90876196	90876396	+	862.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14949.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	11.0	18.0	7.0	53.0	48.5	8.5	3.5	2.5
Merged-chr4-132526865-2	chr4	132526765	132526965	+	619.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	8549.0	NM_007512	11983.0	Mm.2171	NM_007512	ENSMUSG00000054428	Atpif1	Atpi|IF(1)|If1	ATPase inhibitory factor 1	protein-coding	2.0	2.0	1.0	32.5	16.5	8.5	4.5	7.5
Merged-chr10-125324716-4	chr10	125324630	125324830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 1 of 5)	MLT1B-int|LTR|ERVL-MaLR	4233.0	NM_011391	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	58.0	42.5	61.5	784.5	101.0	29.0	49.0	56.0
Merged-chr6-34399345-4	chr6	34399251	34399451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13011.0	NM_009731	11997.0	Mm.482073	NM_009731	ENSMUSG00000052131	Akr1b7	AR|Avdp|MVDP	aldo-keto reductase family 1, member B7	protein-coding	69.5	71.0	79.5	1368.0	169.0	55.0	76.5	69.0
Merged-chr9-114797715-4	chr9	114797575	114797775	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 1 of 3)	intron (NM_027294, intron 1 of 3)	-15682.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	2.5	13.0	13.5	89.5	32.0	7.5	13.0	11.0
Merged-chr4-129812201-4	chr4	129812074	129812274	+	919.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-8305.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	11.0	56.5	8.5	32.5	45.5	18.5	8.5	5.0
Merged-chr15-61989374-4	chr15	61989318	61989518	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010849, exon 3 of 3)	exon (NM_010849, exon 3 of 3)	4077.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	4.0	11.0	12.5	114.5	14.5	4.5	8.5	4.5
Merged-chr11-120349040-4	chr11	120348940	120349140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313923)	promoter-TSS (NM_001313923)	362.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	20.0	30.0	24.0	315.5	94.0	30.5	13.5	26.5
Merged-chr11-106613221-4	chr11	106613107	106613307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198292)	promoter-TSS (NM_198292)	-277.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	137.5	187.5	128.5	1788.5	301.0	120.5	132.0	145.0
Merged-chr12-80807551-4	chr12	80807464	80807664	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	17032.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	25.5	56.0	15.5	421.0	70.0	28.5	32.5	22.0
Merged-chr9-99488991-4	chr9	99488880	99489080	+	755.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 18 of 21)	intron (NM_028768, intron 18 of 21)	18559.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	9.5	24.0	6.0	203.0	30.5	9.5	11.5	12.5
Merged-chr11-83066878-4	chr11	83066771	83066971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011408, intron 1 of 1)	intron (NM_011408, intron 1 of 1)	1759.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	78.0	143.0	78.0	1273.5	211.5	90.5	84.5	70.0
Merged-chr1-24679707-1	chr1	24679607	24679807	+	888.0	f0_balb.idr	intron (NM_001310483, intron 1 of 15)	intron (NM_001310483, intron 1 of 15)	789.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	9.5	8.0	5.0	139.5	28.5	9.5	6.0	18.5
Merged-chr7-141134342-3	chr7	141134242	141134442	+	738.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013782, intron 1 of 11)	intron (NM_013782, intron 1 of 11)	3056.0	NM_013782	27388.0	Mm.293591	NM_013782	ENSMUSG00000025495	Ptdss2	AI481134|AI988017|PSS2	phosphatidylserine synthase 2	protein-coding	6.0	16.5	12.5	44.5	9.5	11.0	6.5	9.5
Merged-chr12-100090256-2	chr12	100090156	100090356	+	671.56665	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2|LTR|ERVL-MaLR	-22075.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	8.0	8.5	5.0	24.5	8.5	2.5	4.0	9.5
Merged-chr9-57831497-4	chr9	57831391	57831591	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019689, intron 1 of 7)	intron (NM_019689, intron 1 of 7)	2743.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	16.5	28.5	16.0	92.0	30.5	6.5	5.0	17.0
Merged-chr15-62071490-4	chr15	62071417	62071617	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	32260.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	24.5	23.5	9.5	166.5	31.0	15.5	17.5	12.0
Merged-chr1-171466769-4	chr1	171466643	171466843	+	970.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	29182.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	23.5	22.0	9.0	340.5	65.5	24.5	20.0	18.5
Merged-chr7-126695863-4	chr7	126695766	126695966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029420)	promoter-TSS (NM_029420)	-83.0	NR_033446	75764.0	Mm.280573	NM_029420	ENSMUSG00000059772	Slx1b	1110030E23Rik|2410170E21Rik|4833422P03Rik|AI853643|Giyd1|Giyd2	SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)	protein-coding	153.5	264.5	95.0	1551.5	309.5	114.5	145.0	105.5
Merged-chr3-65959102-2	chr3	65959002	65959202	+	665.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355432)	promoter-TSS (NM_001355432)	-853.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	7.5	5.0	6.0	12.5	16.5	9.0	5.0	8.5
Merged-chr15-99815052-4	chr15	99814924	99815124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113545, intron 4 of 10)	intron (NM_001113545, intron 4 of 10)	5125.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	59.0	56.5	28.5	577.0	119.0	46.5	52.5	72.5
Merged-chr19-10603039-3	chr19	10602930	10603130	+	933.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145496, intron 1 of 16)	intron (NM_145496, intron 1 of 16)	1228.0	NM_145496	225913.0	Mm.374868	NM_145496	ENSMUSG00000034371	Tkfc	BC021917|Dak	triokinase, FMN cyclase	protein-coding	12.0	11.0	13.0	237.0	20.5	8.0	20.5	14.0
Merged-chr12-100110209-4	chr12	100110115	100110315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2116.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	42.0	70.5	41.5	729.0	118.5	60.5	46.0	52.0
Merged-chr7-65693470-4	chr7	65693309	65693509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026795)	promoter-TSS (NM_026795)	-8.0	NM_178056	68634.0	Mm.476828	NM_026795	ENSMUSG00000078681	Tm2d3	1110025I09Rik|5930422O05Rik|Blp2	TM2 domain containing 3	protein-coding	77.0	95.5	56.5	987.5	143.5	67.5	88.0	76.5
Merged-chr1-170510776-3	chr1	170510662	170510862	+	933.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 2 of 9)	MIRc|SINE|MIR	46348.0	NM_027528	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	8.5	8.0	11.0	203.5	19.0	2.5	8.0	10.0
Merged-chr12-25094682-9	chr12	25094576	25094776	+	920.3312380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010496, intron 2 of 2)	intron (NM_010496, intron 2 of 2)	1416.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	11.5	14.5	5.5	95.0	27.0	6.5	10.5	11.5
Merged-chr1-173743245-3	chr1	173743179	173743379	+	724.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-1470.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	3.0	3.5	2.0	35.0	15.0	9.0	8.5	14.5
Merged-chr5-5420221-6	chr5	5420084	5420284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-39933.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	109.5	186.5	212.0	1910.5	228.0	143.0	159.5	102.5
Merged-chr10-25268680-4	chr10	25268602	25268802	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 4 of 7)	intron (NM_018747, intron 4 of 7)	30461.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	18.5	31.5	15.5	421.5	63.5	18.5	26.5	24.0
Merged-chr13-114387993-4	chr13	114387866	114388066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010887, exon 1 of 5)	exon (NM_010887, exon 1 of 5)	128.0	NM_010887	17993.0	Mm.253142	NM_010887	ENSMUSG00000021764	Ndufs4	6720411N02Rik|C1-18k	NADH dehydrogenase (ubiquinone) Fe-S protein 4	protein-coding	26.0	32.0	63.0	426.0	54.0	25.0	21.0	35.5
Merged-chr17-33955279-1	chr17	33955179	33955379	+	1000.0	f0_c57.idr	promoter-TSS (NM_001357330)	promoter-TSS (NM_001357330)	362.0	NM_011296	20084.0	Mm.298745	NM_011296	ENSMUSG00000008668	Rps18	H-2Ke3|H2-Ke3|Ke-3|ke3	ribosomal protein S18	protein-coding	11.5	18.0	17.0	117.5	59.0	22.0	19.5	32.0
Merged-chr9-70832355-4	chr9	70832230	70832430	+	874.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	102478.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	11.0	13.5	26.5	202.5	26.0	6.0	5.0	10.5
Merged-chr19-12463899-4	chr19	12463805	12464005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010821, exon 2 of 2)	3' UTR (NM_010821, exon 2 of 2)	3126.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	91.5	141.5	106.5	1410.0	204.5	75.0	84.5	58.5
Merged-chr1-152813855-4	chr1	152813780	152813980	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 3 of 15)	RLTR28|LTR|ERVL	13727.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	17.0	18.5	18.0	97.0	48.0	20.5	14.0	14.5
Merged-chr3-9249906-4	chr3	9249817	9250017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177660)	promoter-TSS (NM_177660)	-650.0	NM_177660	229055.0	Mm.103262	NM_177660	ENSMUSG00000069114	Zbtb10	4832414A18|AU021107|RINZF	zinc finger and BTB domain containing 10	protein-coding	167.5	265.5	177.5	1828.0	268.0	73.0	127.5	94.0
Merged-chr15-59051272-4	chr15	59051180	59051380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	L1M2|LINE|L1	30746.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	90.0	130.5	115.5	1498.5	128.0	47.0	88.5	91.5
Merged-chr18-62231578-4	chr18	62231474	62231674	+	923.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51474.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	21.5	44.0	29.0	192.0	24.0	11.5	17.0	12.5
Merged-chr12-91766480-4	chr12	91766379	91766579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	19957.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	300.5	391.5	483.5	6581.0	743.0	282.0	475.0	294.5
Merged-chr15-79403298-4	chr15	79403201	79403401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253817)	promoter-TSS (NM_001253817)	2.0	NM_172608	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	41.0	100.5	36.5	521.5	140.0	39.0	53.0	62.0
Merged-chr2-30929080-4	chr2	30928976	30929176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23925.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	66.0	103.0	37.5	708.0	119.5	56.0	54.0	47.0
Merged-chr6-125328480-4	chr6	125328378	125328578	+	775.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 1 of 11)	intron (NM_011324, intron 1 of 11)	7138.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	14.5	14.0	20.5	73.5	22.5	11.5	11.0	14.0
Merged-chr9-77756278-4	chr9	77756193	77756393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151778, intron 1 of 16)	intron (NR_151778, intron 1 of 16)	1758.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	26.0	38.5	11.5	330.5	76.5	27.5	39.5	34.0
Merged-chr17-50570853-2	chr17	50570753	50570953	+	614.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	URR1B|DNA|hAT-Charlie	61306.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	0.0	10.0	1.5	22.0	19.5	7.5	5.0	4.5
Merged-chr7-145018355-2	chr7	145018290	145018490	+	824.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78465.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	0.5	3.0	1.5	40.0	10.0	4.5	16.5	8.5
Merged-chr3-94886927-4	chr3	94886843	94887043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008945)	promoter-TSS (NM_008945)	15.0	NM_008945	19172.0	Mm.368	NM_008945	ENSMUSG00000005779	Psmb4	Pros-27	proteasome (prosome, macropain) subunit, beta type 4	protein-coding	34.0	43.5	23.5	577.5	119.5	33.5	32.0	38.0
Merged-chr3-81981727-4	chr3	81981617	81981817	+	928.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5989.0	NM_019911	56720.0	Mm.258622	NM_019911	ENSMUSG00000028011	Tdo2	AA407491|TDO|TO|chky	tryptophan 2,3-dioxygenase	protein-coding	10.0	37.0	15.0	349.0	30.0	13.5	9.5	19.5
Merged-chr7-73572760-4	chr7	73572661	73572861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14366.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	34.5	39.5	35.5	523.0	88.0	29.5	33.0	59.5
Merged-chr2-10079759-1	chr2	10079659	10079859	+	804.333313	f0_balb.idr	promoter-TSS (NM_025280)	promoter-TSS (NM_025280)	751.0	NM_020615	11949.0	Mm.12677	NM_020615	ENSMUSG00000025781	Atp5c1	1700094F02Rik|Atp5f1c	ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1	protein-coding	9.5	17.5	11.5	170.5	27.0	9.0	6.0	7.5
Merged-chr6-113668887-4	chr6	113668801	113669001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172161, intron 3 of 12)	intron (NM_172161, intron 3 of 12)	-28149.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	224.5	357.5	268.5	2389.0	468.0	222.0	191.0	168.5
Merged-chr2-5711705-3	chr2	5711621	5711821	+	727.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	B4A|SINE|B4	3041.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	5.5	8.0	4.5	160.0	13.0	4.5	4.5	9.0
Merged-chr7-30422251-4	chr7	30422144	30422344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360907)	promoter-TSS (NM_001360907)	-162.0	NM_001360907	243910.0	Mm.386878	NM_172142	ENSMUSG00000036931	Nfkbid	I-kappa-B-delta|IkappaBNS|ikB-delta	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, delta	protein-coding	205.5	460.0	159.0	1261.0	751.5	259.0	230.5	231.5
Merged-chr3-142570863-3	chr3	142570751	142570951	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355403, intron 10 of 11)	intron (NM_001355403, intron 10 of 11)	10495.0	NM_001289493	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	13.0	4.5	13.5	180.5	12.5	6.0	12.0	16.5
Merged-chr8-9976428-4	chr8	9976322	9976522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176953)	promoter-TSS (NM_176953)	-99.0	NM_176953	319583.0	Mm.80584	NM_176953	ENSMUSG00000049717	Lig4	5830471N16Rik|tiny	ligase IV, DNA, ATP-dependent	protein-coding	333.5	537.0	497.0	5965.5	940.5	360.5	544.0	369.0
Merged-chr2-163676967-4	chr2	163676865	163677065	+	931.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 2 of 4)	intron (NM_001039390, intron 2 of 4)	-17072.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	37.0	33.0	18.0	511.5	44.5	11.0	12.0	28.0
Merged-chr15-78915912-4	chr15	78915859	78916059	+	931.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020271, intron 1 of 1)	intron (NM_020271, intron 1 of 1)	2040.0	NM_020271	57028.0	Mm.263169	NM_020271	ENSMUSG00000116165	Pdxp	1600027H05Rik|AB041662|PLPP	pyridoxal (pyridoxine, vitamin B6) phosphatase	protein-coding	14.5	18.5	4.0	97.5	38.5	10.0	10.0	14.0
Merged-chr1-152697626-3	chr1	152697523	152697723	+	909.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	ORR1D1|LTR|ERVL-MaLR	-52928.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	5.5	14.0	11.0	122.0	11.5	6.0	9.0	9.5
Merged-chr10-117721611-4	chr10	117721502	117721702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10844.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	39.5	60.5	23.5	468.5	145.0	51.5	32.5	35.5
Merged-chr8-81767881-4	chr8	81767782	81767982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001297593, intron 4 of 23)	intron (NM_001297593, intron 4 of 23)	425320.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	21.5	36.5	25.0	502.5	69.5	19.0	41.0	31.5
Merged-chr3-79253295-3	chr3	79253218	79253418	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 2 of 2)	intron (NR_045502, intron 2 of 2)	40399.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	18.5	8.0	7.5	165.0	110.5	23.0	57.0	48.5
Merged-chr1-97657356-4	chr1	97657257	97657457	+	803.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133825, intron 1 of 2)	MTC|LTR|ERVL-MaLR	4319.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	8.0	8.5	4.5	125.0	21.5	9.0	8.0	11.0
Merged-chr15-96709863-4	chr15	96709761	96709961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10133.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	183.5	301.0	167.0	1738.5	465.5	199.0	175.0	151.5
Merged-chr4-144896519-4	chr4	144896363	144896563	+	858.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	3326.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	9.5	7.5	9.5	106.5	21.0	5.0	9.5	6.5
Merged-chr15-58705518-4	chr15	58705458	58705658	+	982.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117869.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	23.5	16.5	20.0	293.5	39.0	9.5	12.0	16.0
Merged-chr13-65112140-4	chr13	65112055	65112255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083901, intron 2 of 12)	intron (NM_001083901, intron 2 of 12)	827.0	NM_001083901	66631.0	Mm.239196	NM_133680	ENSMUSG00000038212	Mfsd14b	5730414C17Rik|AU045608|AW539692|Hiatl1	major facilitator superfamily domain containing 14B	protein-coding	63.0	103.5	66.5	1171.0	118.5	39.5	63.5	57.0
Merged-chr5-136954531-4	chr5	136954368	136954568	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347504, intron 1 of 3)	intron (NM_001347504, intron 1 of 3)	1193.0	NM_001347504	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	5.0	12.0	10.0	144.5	34.0	6.0	7.0	14.0
Merged-chr18-62252487-4	chr18	62252389	62252589	+	876.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-71715.0	NM_008313	15562.0	Mm.20440	NM_008313	ENSMUSG00000026322	Htr4	5-HT-4|5-HT4|5-HT<4L>|5HTR4	5 hydroxytryptamine (serotonin) receptor 4	protein-coding	6.5	12.5	2.5	185.0	55.0	16.0	9.5	14.0
Merged-chr13-59848273-3	chr13	59848167	59848367	+	743.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-25120.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	1.0	1.0	10.0	37.0	32.0	8.0	7.0	8.0
Merged-chr17-47523571-4	chr17	47523461	47523661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	18510.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	27.0	35.5	30.5	513.0	52.5	20.5	25.0	20.5
Merged-chr3-15194562-4	chr3	15194471	15194671	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137731.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	15.0	18.5	15.0	408.0	51.5	11.5	50.0	18.0
Merged-chr15-57838908-2	chr15	57838808	57839008	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_199449, exon 4 of 4)	3' UTR (NM_199449, exon 4 of 4)	53510.0	NM_024207	67819.0	Mm.289387	NM_024207	ENSMUSG00000022365	Derl1	1110021N07Rik|AI195141|AW551338|Derlin-1	Der1-like domain family, member 1	protein-coding	10.0	8.0	11.5	69.5	13.5	1.5	7.0	2.0
Merged-chr2-70971222-4	chr2	70971120	70971320	+	870.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 7 of 9)	intron (NM_145524, intron 7 of 9)	47154.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	12.5	17.5	16.0	205.0	30.0	10.5	24.5	10.0
Merged-chr7-83062252-4	chr7	83062147	83062347	+	924.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86223.0	NM_177895	330578.0	Mm.5796	NM_177895	ENSMUSG00000053528	A530021J07Rik	-	Riken cDNA A530021J07 gene	protein-coding	10.0	22.0	14.5	164.5	27.5	11.0	19.5	17.0
Merged-chr11-69417698-4	chr11	69417625	69417825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4050.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	53.5	105.5	32.5	669.5	149.5	75.5	76.0	51.0
Merged-chr9-59755391-4	chr9	59755272	59755472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173018, intron 1 of 43)	intron (NM_173018, intron 1 of 43)	4198.0	NM_173018	270163.0	Mm.249545	NM_173018	ENSMUSG00000039585	Myo9a	4732465J09Rik|C130068I12Rik|C230003M11	myosin IXa	protein-coding	50.0	65.0	37.0	781.0	111.0	39.5	41.5	29.5
Merged-chr4-133159887-4	chr4	133159786	133159986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	29253.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	78.0	141.0	82.5	1077.0	216.0	78.5	84.0	102.5
Merged-chr7-110816288-3	chr7	110816195	110816395	+	824.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025999)	TTS (NM_025999)	28086.0	NM_025999	67150.0	Mm.96867	NM_025999	ENSMUSG00000030788	Rnf141	2610110L04Rik|AA792898|AU022812|ZFP36|ZNF230	ring finger protein 141	protein-coding	7.5	9.5	10.0	92.0	22.5	10.0	7.0	11.0
Merged-chr3-107279042-4	chr3	107278959	107279159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026774, exon 1 of 4)	exon (NM_026774, exon 1 of 4)	201.0	NM_026774	68576.0	Mm.290035	NM_026774	ENSMUSG00000087260	Lamtor5	1110003H18Rik|Hbxip|XIP	late endosomal/lysosomal adaptor, MAPK and MTOR activator 5	protein-coding	59.5	75.0	76.0	1020.0	121.5	32.5	66.5	46.5
Merged-chr5-124047188-4	chr5	124047104	124047304	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-14944.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	5.5	9.0	8.5	160.0	64.5	18.0	32.5	20.0
Merged-chr9-105129985-3	chr9	105129881	105130081	+	928.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029385, exon 3 of 3)	3' UTR (NM_029385, exon 3 of 3)	1824.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	30.0	30.5	19.0	421.0	11.5	4.5	2.5	17.0
Merged-chr9-66876719-3	chr9	66876640	66876840	+	954.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	-42034.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	14.0	19.5	10.5	157.5	20.5	7.5	3.0	5.5
Merged-chr18-56470979-4	chr18	56470855	56471055	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360917, intron 2 of 13)	intron (NM_001360917, intron 2 of 13)	38823.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	27.0	39.5	19.5	291.0	22.0	10.5	10.5	6.5
Merged-chr8-46341007-4	chr8	46340854	46341054	+	905.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46283.0	NM_173789	234219.0	Mm.145631	NM_173789	ENSMUSG00000047171	Helt	A830086M02|Hesl|Heslike|Mgn|megane	helt bHLH transcription factor	protein-coding	6.5	11.0	12.5	237.0	42.0	6.5	9.0	30.0
Merged-chr6-149409547-2	chr6	149409447	149409647	+	894.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_009753, exon 1 of 9)	exon (NM_009753, exon 1 of 9)	563.0	NM_009753	12121.0	Mm.177181	NM_009753	ENSMUSG00000003452	Bicd1	B830009D06Rik|bic-D 1	BICD cargo adaptor 1	protein-coding	5.0	5.0	11.0	60.5	10.0	2.0	4.5	7.0
Merged-chr16-45967692-3	chr16	45967590	45967790	+	772.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152226, intron 2 of 2)	intron (NR_152226, intron 2 of 2)	22084.0	NR_152227	100503378.0	Mm.387133	NR_152226	ENSMUSG00000085826	Gm15638	Gm41457	predicted gene 15638	ncRNA	7.0	13.0	6.0	159.5	12.0	5.5	10.0	6.5
Merged-chr11-69041090-4	chr11	69040990	69041190	+	993.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4547.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	50.5	67.5	22.0	349.0	103.0	57.0	18.5	61.5
Merged-chr9-16363910-3	chr9	16363798	16363998	+	780.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	14333.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	7.0	6.5	9.5	138.0	11.0	2.0	4.5	5.5
Merged-chr4-93551302-4	chr4	93551210	93551410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-215799.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	17.0	8.5	31.0	427.5	50.5	3.5	21.0	23.5
Merged-chr17-45555610-4	chr17	45555506	45555706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304956)	promoter-TSS (NM_001304956)	-94.0	NM_008690	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	199.0	320.5	154.5	1660.0	447.5	167.0	149.0	182.0
Merged-chr13-46930031-4	chr13	46929918	46930118	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010617)	promoter-TSS (NM_010617)	-300.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	18.0	28.0	14.5	173.0	41.5	18.5	25.5	24.5
Merged-chr1-133134461-4	chr1	133134362	133134562	+	858.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133819, intron 1 of 1)	intron (NM_133819, intron 1 of 1)	3296.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	6.5	15.0	6.5	93.0	41.0	21.5	12.5	15.0
Merged-chr2-14207014-4	chr2	14206919	14207119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 3 of 3)	intron (NM_001081310, intron 3 of 3)	-22395.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	84.0	85.5	72.5	1213.5	181.5	73.5	67.5	75.5
Merged-chr11-114896722-3	chr11	114896633	114896833	+	783.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170758, intron 3 of 6)	intron (NM_170758, intron 3 of 6)	6692.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	19.0	14.0	8.0	72.5	21.0	6.5	2.5	10.5
Merged-chr7-45718003-4	chr7	45717888	45718088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_203280)	promoter-TSS (NM_203280)	14.0	NM_203280	56632.0	Mm.24222	NM_020011	ENSMUSG00000057342	Sphk2	C76851	sphingosine kinase 2	protein-coding	79.0	117.5	81.5	1092.5	236.5	97.0	91.5	121.5
Merged-chr15-38244999-4	chr15	38244867	38245067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	25764.0	NM_008757	18285.0	Mm.252830	NM_008757	ENSMUSG00000061923	Odf1	-	outer dense fiber of sperm tails 1	protein-coding	65.5	63.5	33.5	1014.5	172.0	62.5	92.0	41.0
Merged-chr15-78244806-4	chr15	78244716	78244916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008677)	promoter-TSS (NM_008677)	5.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	156.5	259.0	168.0	1564.5	299.0	97.5	133.0	74.5
Merged-chr4-43045885-4	chr4	43045779	43045979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	341.0	NR_045567	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	105.5	121.5	91.5	1422.0	235.5	73.0	93.5	84.0
Merged-chr10-81627696-4	chr10	81627574	81627774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027480)	promoter-TSS (NM_027480)	-66.0	NM_181586	50721.0	Mm.25643	NM_181586	ENSMUSG00000034748	Sirt6	2810449N18Rik|AI043036|Sir2l6	sirtuin 6	protein-coding	48.0	74.0	52.5	948.5	114.0	49.5	65.0	55.5
Merged-chr13-51734797-4	chr13	51734700	51734900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281880, intron 2 of 16)	intron (NM_001281880, intron 2 of 16)	58947.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	66.5	73.5	72.5	919.0	117.0	45.5	48.5	62.5
Merged-chr13-52268503-4	chr13	52268405	52268605	+	942.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	171764.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	21.0	23.0	20.5	283.0	21.0	11.5	21.5	23.0
Merged-chr19-15998332-3	chr19	15998234	15998434	+	783.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045355, intron 2 of 2)	intron (NR_045355, intron 2 of 2)	13259.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	10.0	13.5	1.0	33.5	34.5	5.5	4.5	4.5
Merged-chr1-132477065-4	chr1	132476918	132477118	+	931.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172517)	promoter-TSS (NM_172517)	-349.0	NM_001357486	213464.0	Mm.132868	NM_172517	ENSMUSG00000026439	Rbbp5	4933411J24Rik|C330016J05	retinoblastoma binding protein 5, histone lysine methyltransferase complex subunit	protein-coding	11.0	17.0	7.5	200.0	34.5	9.0	10.5	14.0
Merged-chr14-63126632-2	chr14	63126532	63126732	+	938.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	4170.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	9.0	10.5	6.0	42.0	9.0	3.5	8.5	11.0
Merged-chr11-110967354-3	chr11	110967198	110967398	+	867.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252207)	promoter-TSS (NM_001252207)	-735.0	NM_010604	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	5.5	15.0	8.5	86.5	3.5	2.0	1.5	4.0
Merged-chr15-83452119-1	chr15	83452019	83452219	+	723.333313	f0_balb.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	-4239.0	NM_001358644	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	9.0	10.5	10.0	116.5	15.5	5.0	4.0	6.0
Merged-chr10-17919210-3	chr10	17919112	17919312	+	692.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033432, intron 1 of 3)	intron (NM_001033432, intron 1 of 3)	28855.0	NM_001033432	380629.0	Mm.276430	NM_001033432	ENSMUSG00000039879	Heca	Gm869|HDC|HDCL	hdc homolog, cell cycle regulator	protein-coding	5.5	19.0	12.0	103.0	9.5	8.0	7.0	2.0
Merged-chr12-99240262-1	chr12	99240162	99240362	+	588.0	f0_balb.idr	intron (NM_183186, intron 4 of 5)	intron (NM_183186, intron 4 of 5)	-77454.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	6.0	4.5	7.0	78.0	9.0	3.5	9.5	8.0
Merged-chr10-81496461-4	chr10	81496362	81496562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134009)	promoter-TSS (NM_134009)	-99.0	NM_134009	103425.0	Mm.302791	NM_134009	ENSMUSG00000020238	Ncln	3100002P13Rik|AW120537	nicalin	protein-coding	272.5	468.0	279.0	4297.0	673.0	277.0	327.0	322.0
Merged-chr11-4232813-3	chr11	4232704	4232904	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3981.0	NM_001013365	18413.0	Mm.131422	NM_001013365	ENSMUSG00000058755	Osm	OncoM	oncostatin M	protein-coding	63.0	104.5	150.5	1117.0	4.0	2.5	4.0	3.5
Merged-chr17-25285274-3	chr17	25285183	25285383	+	668.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10973.0	NM_011665	22196.0	Mm.240044	NM_011665	ENSMUSG00000015120	Ube2i	5830467E05Rik|UBC9|Ubce2i|Ubce9	ubiquitin-conjugating enzyme E2I	protein-coding	5.5	9.0	7.5	61.5	19.0	3.0	3.5	3.0
Merged-chr1-95598867-3	chr1	95598761	95598961	+	657.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	intron (NM_009183, intron 4 of 4)	68733.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	10.0	7.0	7.5	153.0	21.0	6.5	1.0	7.5
Merged-chr13-23745610-4	chr13	23745504	23745704	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175653)	promoter-TSS (NM_175653)	-83.0	NM_175653	319148.0	Mm.262517	NM_175653	ENSMUSG00000069310	Hist1h3c	H3-143	histone cluster 1, H3c	protein-coding	21.5	42.5	24.0	288.5	62.0	26.5	45.0	26.5
Merged-chr1-154034315-4	chr1	154034209	154034409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134380.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	45.0	79.5	45.5	864.5	108.5	52.5	54.0	34.5
Merged-chr16-92870390-4	chr16	92870304	92870504	+	975.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44330.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	28.5	69.0	14.5	215.5	73.0	27.0	16.5	17.0
Merged-chr11-55433134-3	chr11	55433022	55433222	+	848.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13042.0	NM_001290817	20692.0	Mm.291442	NM_009242	ENSMUSG00000018593	Sparc	BM-40|ON	secreted acidic cysteine rich glycoprotein	protein-coding	6.0	1.0	5.0	96.0	17.5	8.5	10.0	8.5
Merged-chr15-55268754-2	chr15	55268654	55268854	+	932.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38996.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	6.0	5.5	1.0	89.0	7.5	5.0	5.5	12.0
Merged-chr8-88633587-4	chr8	88633476	88633676	+	973.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027840, intron 1 of 3)	MTEa|LTR|ERVL-MaLR	2552.0	NM_027840	71607.0	Mm.270607	NM_027840	ENSMUSG00000031662	Snx20	9130017C17Rik	sorting nexin 20	protein-coding	11.5	32.5	21.0	197.0	235.5	90.5	134.5	118.5
Merged-chr16-30262961-3	chr16	30262879	30263079	+	901.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027904, intron 1 of 1)	intron (NM_027904, intron 1 of 1)	4553.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	1.5	35.5	3.5	47.0	26.5	8.0	10.5	9.0
Merged-chr6-128887540-4	chr6	128887429	128887629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289707)	promoter-TSS (NM_001289707)	-58.0	NM_001289706	93675.0	Mm.391513	NM_020257	ENSMUSG00000030365	Clec2i	Clr-g|Clrg|Dcl1|LCL-1|OCILrP2	C-type lectin domain family 2, member i	protein-coding	20.0	38.5	17.0	261.0	73.0	29.5	28.5	29.5
Merged-chr2-114201322-5	chr2	114201122	114201322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175466, intron 1 of 1)	CpG	210.0	NM_175466	228491.0	Mm.132523	NM_175466	ENSMUSG00000040321	Zfp770	6430601A21Rik|Znf770	zinc finger protein 770	protein-coding	18.5	41.0	33.0	328.5	53.5	28.0	23.0	49.0
Merged-chr14-14104324-3	chr14	14104242	14104442	+	813.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_139227, exon 12 of 12)	3' UTR (NM_139227, exon 12 of 12)	16562.0	NM_025550	66413.0	Mm.27591	NM_025550	ENSMUSG00000021737	Psmd6	2400006A19Rik	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	protein-coding	1.5	2.0	2.0	40.0	17.5	12.5	14.5	11.0
Merged-chr8-76902176-4	chr8	76902061	76902261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083906)	promoter-TSS (NM_001083906)	-347.0	NM_001083906	110784.0	Mm.324393	NM_001083906	ENSMUSG00000031618	Nr3c2	MR|Mlr	nuclear receptor subfamily 3, group C, member 2	protein-coding	346.5	491.5	421.0	6917.5	550.0	253.5	288.5	231.5
Merged-chr12-85496989-4	chr12	85496897	85497097	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	23107.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	19.0	41.0	32.0	184.5	47.5	11.0	24.5	19.5
Merged-chr2-142700912-3	chr2	142700828	142701028	+	773.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 23 of 26)	intron (NM_001355123, intron 23 of 26)	200536.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	4.0	4.0	2.5	107.5	21.5	7.5	17.5	14.0
Merged-chr14-122292663-3	chr14	122292579	122292779	+	935.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029556, intron 1 of 7)	intron (NM_029556, intron 1 of 7)	-59041.0	NR_015532	68245.0	Mm.443285	NR_015532	ENSMUSG00000100585	1700108J01Rik	-	RIKEN cDNA 1700108J01 gene	ncRNA	14.5	18.0	7.5	193.0	14.5	2.0	9.0	13.0
Merged-chr12-44171628-3	chr12	44171530	44171730	+	922.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38438.0	NM_013760	27362.0	Mm.27432	NM_013760	ENSMUSG00000014905	Dnajb9	AA408011|AA673251|AA673481|AW556981|ERdj4|Mdg1|mDj7	DnaJ heat shock protein family (Hsp40) member B9	protein-coding	3.0	1.5	5.0	94.5	24.5	15.5	20.5	26.0
Merged-chr6-108832427-4	chr6	108832320	108832520	+	984.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138677, intron 1 of 11)	intron (NM_138677, intron 1 of 11)	3779.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	24.0	21.0	18.0	337.5	44.5	13.0	25.5	10.0
Merged-chr5-43233743-4	chr5	43233638	43233838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175937, exon 1 of 11)	exon (NM_175937, exon 1 of 11)	275.0	NM_001177379	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	124.5	138.5	165.5	2534.0	327.0	122.0	181.0	134.5
Merged-chr11-69340561-7	chr11	69340473	69340673	+	999.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027827)	promoter-TSS (NR_027827)	-196.0	NR_027827	80515.0	Mm.5324	NM_020591	ENSMUSG00000043419	Chd3os	2310043C11Rik|A030009H04Rik|AA589459|AB041807|MNCb-2875|RNF21	chromodomain helicase DNA binding protein 3, opposite strand	ncRNA	18.5	25.5	23.5	171.5	35.0	13.5	5.5	6.0
Merged-chr7-109781542-4	chr7	109781394	109781594	+	828.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020610)	promoter-TSS (NM_020610)	51.0	NM_020610	78593.0	Mm.275374	NM_020610	ENSMUSG00000034825	Nrip3	A330103B05Rik|D7H11orf14|ICRFP703B1614Q5.2	nuclear receptor interacting protein 3	protein-coding	6.5	20.0	14.5	139.0	20.5	6.0	8.5	12.0
Merged-chr7-43397615-4	chr7	43397539	43397739	+	826.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10641.0	NM_172900	243958.0	Mm.24444	NM_172900	ENSMUSG00000030468	Siglecg	9830164H23|A630096C01Rik|Siglec-G|Siglec10|mSiglec-G	sialic acid binding Ig-like lectin G	protein-coding	10.5	11.5	6.5	217.0	21.0	8.5	8.0	13.5
Merged-chr9-96167395-4	chr9	96167276	96167476	+	823.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177352, intron 11 of 16)	intron (NM_177352, intron 11 of 16)	-28899.0	NM_001184706	211586.0	Mm.17977	NM_178667	ENSMUSG00000032411	Tfdp2	1110029I05Rik|A330080J22Rik|DP-3|DP3	transcription factor Dp 2	protein-coding	3.0	9.5	6.5	116.5	29.5	14.5	14.0	15.0
Merged-chr15-63932895-3	chr15	63932788	63932988	+	842.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 11 of 11)	intron (NM_001360037, intron 11 of 11)	18427.0	NR_029414	74460.0	Mm.390801	NR_029414	ENSMUSG00000100127	Gsdmcl-ps	4933426G20Rik	gasdermin C-like, pseudogene	pseudo	4.5	12.0	11.5	141.0	18.0	3.0	10.0	8.0
Merged-chr1-118388243-4	chr1	118388163	118388363	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359346)	promoter-TSS (NM_001359346)	-795.0	NM_001359329	76707.0	Mm.138740	NM_029709	ENSMUSG00000064302	Clasp1	1700030C23Rik|5730583A19Rik|B130045P17Rik|CLASP1alpha	CLIP associating protein 1	protein-coding	22.0	31.0	30.5	307.0	75.5	17.0	32.5	20.0
Merged-chr13-4616812-4	chr13	4616724	4616924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7660.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	39.5	67.5	45.5	483.0	139.0	56.0	51.5	36.5
Merged-chr18-82822836-2	chr18	82822736	82822936	+	755.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAAA)n|Simple_repeat|Simple_repeat	-33061.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	3.0	4.0	5.0	65.5	9.0	6.0	5.5	8.5
Merged-chr3-142393838-1	chr3	142393738	142393938	+	549.0	f0_balb.idr	intron (NM_001190854, intron 1 of 12)	intron (NM_001190854, intron 1 of 12)	1858.0	NM_001190853	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	7.0	10.5	5.0	83.5	11.0	3.5	6.0	3.0
Merged-chr7-129994930-4	chr7	129994846	129995046	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	32781.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	16.5	24.0	14.0	267.0	50.5	26.5	30.0	29.5
Merged-chr10-127542698-5	chr10	127542731	127542931	+	898.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 77 of 88)	intron (NM_008512, intron 77 of 88)	-8272.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	5.5	4.5	4.5	48.5	5.5	3.0	2.5	7.5
Merged-chr10-30755251-4	chr10	30755077	30755277	+	894.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 2 of 14)	intron (NM_001358842, intron 2 of 14)	48149.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	3.5	4.5	15.0	130.5	26.5	6.0	4.5	8.5
Merged-chr13-110384718-4	chr13	110384589	110384789	+	903.429199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-10355.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	24.0	18.0	9.0	225.5	43.0	11.0	20.0	20.0
Merged-chr7-92884571-4	chr7	92884465	92884665	+	834.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	intron (NM_028243, intron 1 of 8)	9312.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	17.0	12.0	10.5	231.0	44.0	18.5	12.0	12.0
Merged-chr5-21210617-4	chr5	21210532	21210732	+	946.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 5 of 26)	(CA)n|Simple_repeat|Simple_repeat	24365.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	20.5	15.5	15.0	354.5	25.0	12.5	23.0	22.5
Merged-chr9-59292306-3	chr9	59292220	59292420	+	661.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359282, intron 1 of 6)	intron (NM_001359282, intron 1 of 6)	748.0	NM_028121	72141.0	Mm.22456	NM_028121	ENSMUSG00000025236	Adpgk	2610017G09Rik|Adp-gk|C77577	ADP-dependent glucokinase	protein-coding	8.5	8.5	3.0	110.0	28.5	11.0	7.5	8.0
Merged-chr2-180051205-4	chr2	180051108	180051308	+	849.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178750, intron 1 of 10)	intron (NM_178750, intron 1 of 10)	8725.0	NM_178750	269397.0	Mm.63068	NM_178750	ENSMUSG00000039086	Ss18l1	A230053O16Rik|CREST	SS18, nBAF chromatin remodeling complex subunit like 1	protein-coding	12.5	18.5	12.0	187.0	34.0	19.5	17.0	11.0
Merged-chr16-62940787-4	chr16	62940693	62940893	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86486.0	NM_011173	19128.0	Mm.127156	NM_011173	ENSMUSG00000022912	Pros1	AW214361	protein S (alpha)	protein-coding	8.5	23.0	17.5	344.5	50.0	7.5	16.5	22.0
Merged-chr2-66142429-4	chr2	66142269	66142469	+	955.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17576.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	8.5	13.5	34.0	332.0	33.5	9.5	18.0	25.0
Merged-chr12-28727284-4	chr12	28727202	28727402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161410, intron 3 of 11)	intron (NM_001161410, intron 3 of 11)	23092.0	NM_001161410	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	30.5	54.0	57.0	591.0	73.0	28.5	35.0	44.5
Merged-chr2-4652121-4	chr2	4652008	4652208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356451)	promoter-TSS (NM_001356451)	27.0	NM_026045	67229.0	Mm.38529	NM_026045	ENSMUSG00000039449	Prpf18	2810441A10Rik	pre-mRNA processing factor 18	protein-coding	25.5	33.5	36.0	331.5	88.0	23.5	23.0	25.0
Merged-chr13-56004005-4	chr13	56003928	56004128	+	854.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131522.0	NM_012015	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	22.0	29.0	17.5	194.5	16.0	12.0	5.0	11.5
Merged-chr4-118135570-4	chr4	118135454	118135654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161774)	promoter-TSS (NM_001161774)	-608.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	30.0	57.5	52.0	356.5	99.0	29.0	36.5	12.5
Merged-chr2-4882031-8	chr2	4881964	4882164	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175400, intron 1 of 8)	CpG	500.0	NM_175400	109079.0	Mm.34329	NM_175400	ENSMUSG00000026662	Sephs1	1110046B24Rik|AA589574|AI505014|AW111620|SELD|SPS|SPS1	selenophosphate synthetase 1	protein-coding	8.0	16.0	25.0	169.0	71.5	28.5	28.5	17.0
Merged-chr12-8432968-5	chr12	8432782	8432982	+	964.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67127.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	7.5	15.0	11.0	95.5	19.5	7.0	8.5	10.0
Merged-chr11-102573006-4	chr11	102572901	102573101	+	838.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6118.0	NR_040286	100040792.0	Mm.277966	NR_040286	ENSMUSG00000078640	Gm11627	-	predicted gene 11627	ncRNA	15.0	20.0	8.0	136.5	22.5	12.0	6.5	12.5
Merged-chr1-33982176-3	chr1	33982064	33982264	+	839.5166630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276764, intron 3 of 102)	intron (NM_001276764, intron 3 of 102)	-29661.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	5.5	8.5	10.0	123.5	5.0	1.0	7.0	12.5
Merged-chr2-127273957-4	chr2	127273850	127274050	+	897.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139308, intron 1 of 7)	(TG)n|Simple_repeat|Simple_repeat	3721.0	NM_139308	99138.0	Mm.41271	NM_139308	ENSMUSG00000027367	Stard7	AI852671|AL022671|AW544915	START domain containing 7	protein-coding	9.5	9.5	7.5	105.5	43.0	9.0	13.5	16.5
Merged-chr16-94011447-4	chr16	94011330	94011530	+	836.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2593.0	NM_019500	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	9.0	13.0	7.0	216.5	26.5	7.5	3.5	12.5
Merged-chr3-90373627-3	chr3	90373521	90373721	+	941.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16317.0	NM_001316688	26568.0	Mm.45519	NM_011988	ENSMUSG00000027932	Slc27a3	Acsvl3|FATP-3|FATP3|Vlcs-3	solute carrier family 27 (fatty acid transporter), member 3	protein-coding	2.5	25.0	2.0	168.0	18.5	5.5	10.5	11.5
Merged-chr12-73554347-4	chr12	73554224	73554424	+	952.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5841.0	NR_044985	73644.0	Mm.369885	NR_044985	ENSMUSG00000113800	2210039B01Rik	-	RIKEN cDNA 2210039B01 gene	ncRNA	14.0	8.0	20.5	130.5	35.0	13.5	12.0	12.0
Merged-chr3-127331734-2	chr3	127331637	127331837	+	878.75	f0_c57.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	MTC|LTR|ERVL-MaLR	77321.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	3.0	0.0	2.0	10.5	34.0	9.0	23.5	19.5
Merged-chr12-55321892-3	chr12	55321778	55321978	+	993.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025373, intron 3 of 6)	intron (NM_025373, intron 3 of 6)	-18878.0	NM_021529	59032.0	Mm.427307	NM_021529	ENSMUSG00000021022	Ppp2r3c	4930511A21Rik|5730412A08Rik|G4-1|G5pr	protein phosphatase 2, regulatory subunit B'', gamma	protein-coding	17.0	48.0	27.5	205.5	21.5	3.5	5.5	2.5
Merged-chr17-46641280-3	chr17	46641188	46641388	+	946.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357130, intron 3 of 15)	intron (NM_001357130, intron 3 of 15)	4792.0	NM_001357130	74764.0	Mm.279599	NM_029091	ENSMUSG00000003546	Klc4	1200014P03Rik|AA408085|AW146303|Knsl8	kinesin light chain 4	protein-coding	13.0	18.0	22.0	86.0	15.5	14.0	12.5	12.0
Merged-chr10-121291850-1	chr10	121291750	121291950	+	702.0	f0_balb.idr	intron (NM_001361015, intron 8 of 12)	intron (NM_001361015, intron 8 of 12)	19546.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	5.0	9.5	4.5	98.5	6.5	0.0	2.0	0.0
Merged-chr2-166327164-4	chr2	166327078	166327278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	53270.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	29.5	35.0	35.5	505.0	63.0	17.5	22.5	29.5
Merged-chr9-57643979-4	chr9	57643901	57644101	+	913.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 2 of 14)	intron (NM_001304761, intron 2 of 14)	1652.0	NM_007783	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	6.5	7.0	13.5	436.0	31.5	2.0	19.5	11.5
Merged-chr15-41784327-3	chr15	41784235	41784435	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 3 of 17)	intron (NR_152565, intron 3 of 17)	-4660.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	22.0	23.0	26.0	582.5	23.5	8.0	18.5	11.0
Merged-chr18-56451822-4	chr18	56451713	56451913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	19681.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	82.5	119.0	125.0	1369.5	197.0	58.5	119.0	72.0
Merged-chr2-160673626-3	chr2	160673538	160673738	+	644.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009408, intron 3 of 20)	MTD|LTR|ERVL-MaLR	27741.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	10.5	7.5	7.5	113.5	14.0	9.0	7.5	18.0
Merged-chr10-57792611-4	chr10	57792524	57792724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1920.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	64.5	79.0	77.0	774.5	118.5	24.5	44.0	38.5
Merged-chr1-131138292-4	chr1	131138125	131138325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145508)	promoter-TSS (NM_145508)	9.0	NM_145508	226419.0	Mm.39299	NM_145508	ENSMUSG00000016526	Dyrk3	BC006704	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3	protein-coding	58.0	75.0	65.0	688.0	158.0	44.5	32.5	42.0
Merged-chr14-30694967-4	chr14	30694808	30695008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19941.0	NM_019460	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	49.5	51.0	43.0	884.0	64.5	28.5	26.5	29.5
Merged-chr9-44571133-4	chr9	44571034	44571234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33758.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	45.0	103.5	32.0	340.0	194.0	74.0	86.0	61.5
Merged-chr7-19179331-3	chr7	19179218	19179418	+	861.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347582, exon 2 of 22)	exon (NM_001347582, exon 2 of 22)	-1852.0	NM_001162996	72205.0	Mm.154121	NM_028153	ENSMUSG00000040811	Eml2	1600029N02Rik|EMAP-2	echinoderm microtubule associated protein like 2	protein-coding	4.5	8.5	7.5	68.5	39.0	11.0	5.5	6.0
Merged-chr7-114562804-8	chr7	114562710	114562910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177382, exon 1 of 5)	exon (NM_177382, exon 1 of 5)	162.0	NR_110407	244209.0	Mm.108037	NM_177382	ENSMUSG00000030670	Cyp2r1	-	cytochrome P450, family 2, subfamily r, polypeptide 1	protein-coding	48.5	53.0	122.0	685.0	140.5	77.5	91.0	76.5
Merged-chr10-80688041-4	chr10	80687944	80688144	+	953.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 3 of 3)	B3|SINE|B2	-11751.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	27.5	37.0	8.0	300.5	98.0	10.0	19.0	31.0
Merged-chr4-94052915-3	chr4	94052817	94053017	+	704.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	503879.0	NM_026368	67770.0	Mm.35170	NM_026368	ENSMUSG00000028578	Caap1	5830433M19Rik|AI536248|CAAP	caspase activity and apoptosis inhibitor 1	protein-coding	8.0	16.0	14.0	228.0	4.0	2.0	3.5	3.0
Merged-chr7-96406756-4	chr7	96406649	96406849	+	853.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 2 of 32)	intron (NM_011858, intron 2 of 32)	-64785.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	19.0	25.5	10.5	458.5	22.0	13.0	11.0	21.5
Merged-chr4-131875432-3	chr4	131875317	131875517	+	787.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020587, intron 1 of 5)	intron (NM_020587, intron 1 of 5)	1778.0	NM_020587	57317.0	Mm.2478	NM_020587	ENSMUSG00000028911	Srsf4	5730499P16Rik|AW550192|MNCb-2616|SRp75|Sfrs4	serine/arginine-rich splicing factor 4	protein-coding	7.0	8.0	5.0	96.5	9.0	9.0	3.5	5.0
Merged-chr2-113848845-6	chr2	113848738	113848938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181416)	promoter-TSS (NM_181416)	-177.0	NM_181416	228482.0	Mm.45753	NM_181416	ENSMUSG00000041219	Arhgap11a	6530401L14Rik|mKIAA0013	Rho GTPase activating protein 11A	protein-coding	33.0	44.0	49.0	301.5	44.5	28.0	25.5	32.0
Merged-chr15-75748419-4	chr15	75748320	75748520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194350)	promoter-TSS (NM_194350)	-498.0	NM_194350	378435.0	Mm.309589	NM_194350	ENSMUSG00000047591	Mafa	RIPE3b1	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein A (avian)	protein-coding	84.5	173.0	109.5	1379.0	230.5	107.5	102.0	117.0
Merged-chr6-117936084-4	chr6	117936008	117936208	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033648, intron 2 of 8)	intron (NM_033648, intron 2 of 8)	1227.0	NM_001173372	108017.0	Mm.250392	NM_033648	ENSMUSG00000004988	Fxyd4	0610008I02Rik|AI267073|Chif	FXYD domain-containing ion transport regulator 4	protein-coding	12.5	21.0	15.0	256.0	7.0	3.5	13.0	14.0
Merged-chr2-145675396-3	chr2	145675391	145675591	+	714.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25704.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	5.0	3.0	4.5	106.0	13.0	8.0	4.5	10.5
Merged-chr11-115630630-3	chr11	115630532	115630732	+	860.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-2337.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	10.5	22.5	7.0	46.0	30.0	5.0	15.5	17.5
Merged-chr16-97462996-4	chr16	97462896	97463096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010846)	promoter-TSS (NM_010846)	-90.0	NR_003520	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	50.0	49.5	56.0	984.5	133.0	43.0	69.0	49.5
Merged-chr7-88278016-4	chr7	88277897	88278097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311790)	promoter-TSS (NM_001311790)	-88.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	182.0	294.5	224.0	3041.0	609.0	230.5	314.5	216.5
Merged-chr5-99423183-4	chr5	99423076	99423276	+	916.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-170249.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	14.5	11.0	6.0	100.5	34.0	9.0	21.5	1.0
Merged-chr5-102063272-4	chr5	102063159	102063359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	6662.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	23.0	30.0	60.0	678.0	83.0	32.0	36.0	58.0
Merged-chr8-117198309-4	chr8	117198221	117198421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081151, intron 9 of 10)	intron (NM_001081151, intron 9 of 10)	40186.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	292.5	403.0	265.5	3528.5	593.0	218.0	230.5	237.0
Merged-chr17-47883305-3	chr17	47883216	47883416	+	962.4111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028767, intron 3 of 16)	intron (NM_028767, intron 3 of 16)	41316.0	NM_028767	74123.0	Mm.240062	NM_028767	ENSMUSG00000023991	Foxp4	1200010K03Rik|2310007G05Rik|mFKHLA	forkhead box P4	protein-coding	16.5	46.0	28.0	300.0	0.5	0.5	0.5	2.5
Merged-chr18-57878678-5	chr18	57878587	57878787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009194)	promoter-TSS (NM_009194)	9.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	52.5	65.0	69.5	554.0	80.0	25.5	35.5	25.5
Merged-chr1-138923112-4	chr1	138923014	138923214	+	966.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-40595.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	20.5	23.0	29.0	580.5	43.0	14.0	28.0	14.0
Merged-chr14-118662836-1	chr14	118662736	118662936	+	668.0	f0_c57.idr	intron (NM_001033336, intron 3 of 30)	MTE2b|LTR|ERVL-MaLR	14095.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	7.5	15.5	13.5	169.0	28.0	12.5	16.5	13.0
Merged-chr14-30626412-5	chr14	30626284	30626484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011103)	promoter-TSS (NM_011103)	-176.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	80.0	182.0	104.0	662.0	159.0	103.5	53.5	52.5
Merged-chr2-136936598-3	chr2	136936497	136936697	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355671, intron 2 of 6)	intron (NM_001355671, intron 2 of 6)	37246.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	46.0	41.0	38.5	586.5	102.0	43.0	52.0	31.5
Merged-chr3-121842398-3	chr3	121842289	121842489	+	875.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27087.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	6.5	3.0	4.0	57.5	24.5	8.0	11.5	9.5
Merged-chr16-16571540-4	chr16	16571439	16571639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	-11320.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	116.5	178.0	111.0	1444.5	200.0	78.5	103.0	132.0
Merged-chr9-13296622-4	chr9	13296529	13296729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49673.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	102.0	143.0	68.5	1313.5	194.5	83.5	103.0	54.0
Merged-chr9-90274698-4	chr9	90274583	90274783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3914.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	148.5	292.0	202.0	2783.0	491.5	181.0	233.0	200.0
Merged-chr15-44624997-3	chr15	44624904	44625104	+	819.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357690, intron 2 of 6)	B3|SINE|B2	5363.0	NM_019480	55960.0	Mm.287896	NM_019480	ENSMUSG00000022339	Ebag9	AI835379|Rcas1	estrogen receptor-binding fragment-associated gene 9	protein-coding	8.5	16.0	8.0	123.0	38.0	3.5	8.5	12.5
Merged-chr5-30850474-4	chr5	30850380	30850580	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133350, intron 1 of 6)	intron (NM_133350, intron 1 of 6)	-11327.0	NM_001310516	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	23.0	37.0	15.5	282.5	55.0	34.0	26.5	31.0
Merged-chr15-100687235-4	chr15	100687143	100687343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 1 of 7)	intron (NM_033612, intron 1 of 7)	677.0	NM_033612	109901.0	Mm.2131	NM_033612	ENSMUSG00000023031	Cela1	1810009A17Rik|1810062B19Rik|Ela-1|Ela1|PC-TsF	chymotrypsin-like elastase family, member 1	protein-coding	21.0	23.5	17.0	232.5	59.5	25.0	35.0	35.5
Merged-chr12-73963727-4	chr12	73963630	73963830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178392)	promoter-TSS (NM_178392)	-800.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	50.0	80.5	39.0	922.0	128.0	45.5	43.0	35.5
Merged-chr3-22010108-4	chr3	22010011	22010211	+	937.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66541.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	33.0	26.5	22.5	388.5	31.5	13.5	24.5	20.5
Merged-chr3-90267286-4	chr3	90267189	90267389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201407, intron 1 of 27)	intron (NM_201407, intron 1 of 27)	775.0	NM_201407	229541.0	Mm.30571	NM_201407	ENSMUSG00000042404	Dennd4b	-	DENN/MADD domain containing 4B	protein-coding	17.0	30.5	22.0	311.5	71.5	34.5	26.5	32.5
Merged-chr7-73584230-4	chr7	73584117	73584317	+	886.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25822.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	9.0	11.5	4.5	165.5	39.5	10.5	13.5	13.0
Merged-chr1-36589225-3	chr1	36589142	36589342	+	722.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 10 of 14)	intron (NM_001126046, intron 10 of 14)	4090.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	7.0	4.5	14.5	82.0	5.5	6.0	8.5	8.5
Merged-chr14-51255022-3	chr14	51254901	51255101	+	916.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053113)	TTS (NM_053113)	1111.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	4.5	12.5	19.0	163.0	9.5	9.0	4.0	9.5
Merged-chr13-95778946-4	chr13	95778872	95779072	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 2 of 35)	intron (NM_027711, intron 2 of 35)	82052.0	NM_010170	14064.0	Mm.440952	NM_010170	ENSMUSG00000021675	F2rl2	F730031A08|PAR3	coagulation factor II (thrombin) receptor-like 2	protein-coding	16.5	31.5	22.5	344.5	58.5	26.5	28.0	30.0
Merged-chr2-164493696-4	chr2	164493550	164493750	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026797)	TTS (NM_026797)	-3875.0	NM_133779	78928.0	Mm.28228	NM_133779	ENSMUSG00000017721	Pigt	2510012P17Rik|4930534E15Rik|CGI-06|NDAP|Ndap7	phosphatidylinositol glycan anchor biosynthesis, class T	protein-coding	50.0	129.0	56.5	327.5	49.0	15.5	16.5	9.5
Merged-chr8-25012611-1	chr8	25012511	25012711	+	555.0	f0_balb.idr	intron (NM_001270996, intron 1 of 21)	intron (NM_001270996, intron 1 of 21)	4311.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	9.5	13.5	3.0	80.0	27.0	14.0	8.0	6.5
Merged-chr7-75610696-3	chr7	75610614	75610814	+	938.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029332, exon 7 of 37)	exon (NM_029332, exon 7 of 37)	155180.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	9.5	19.0	15.5	145.0	9.5	6.0	7.0	7.0
Merged-chr4-19873765-4	chr4	19873701	19873901	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48765.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	4.5	29.5	12.5	177.0	44.0	15.0	4.0	9.5
Merged-chr6-25798408-4	chr6	25798296	25798496	+	856.8624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133931, intron 3 of 17)	intron (NM_133931, intron 3 of 17)	10830.0	NM_133931	101185.0	Mm.274589	NM_133931	ENSMUSG00000029676	Pot1a	1500031H18Rik|AI851169|Pot1	protection of telomeres 1A	protein-coding	8.0	15.5	24.5	125.5	18.5	9.5	11.5	10.0
Merged-chr7-121072612-4	chr7	121072510	121072710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030691, intron 1 of 5)	intron (NM_030691, intron 1 of 5)	1920.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	84.5	140.0	120.0	1069.0	306.5	90.5	91.0	76.5
Merged-chr4-117545754-4	chr4	117545665	117545865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-4559.0	NM_001356404	140546.0	Mm.235891	NM_080469	ENSMUSG00000033423	Eri3	PINT1|Prnpip1	exoribonuclease 3	protein-coding	146.5	190.5	195.0	2142.0	339.5	78.5	150.5	134.5
Merged-chr11-116986219-4	chr11	116986122	116986322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172948, exon 17 of 17)	3' UTR (NM_172948, exon 17 of 17)	67359.0	NM_172948	268510.0	Mm.35141	NM_172948	ENSMUSG00000043857	Mgat5b	C330018B01|GnT-IX|mGnTVB	mannoside acetylglucosaminyltransferase 5, isoenzyme B	protein-coding	19.5	30.0	37.0	510.0	37.0	20.5	20.0	19.0
Merged-chr1-64195469-3	chr1	64195344	64195544	+	869.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74055.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	8.0	6.0	9.0	83.0	22.5	7.5	5.5	5.5
Merged-chr17-71869722-2	chr17	71869653	71869853	+	702.083374	f0_balb.idr|f1_balb.idr	exon (NM_007439, exon 29 of 29)	exon (NM_007439, exon 29 of 29)	87806.0	NM_030179	78785.0	Mm.196382	NM_030179	ENSMUSG00000024059	Clip4	1700024K14Rik|1700074B05Rik|4833417L20Rik|5830409B12Rik|Rsnl2	CAP-GLY domain containing linker protein family, member 4	protein-coding	5.0	8.0	8.0	105.5	0.0	0.0	0.0	0.0
Merged-chr6-34359229-4	chr6	34359135	34359335	+	965.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008012, intron 4 of 9)	intron (NM_008012, intron 4 of 9)	5089.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	15.5	30.5	11.0	369.0	48.5	14.5	34.5	33.0
Merged-chr8-3387484-4	chr8	3387385	3387585	+	884.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033378, intron 7 of 10)	intron (NM_001033378, intron 7 of 10)	-5523.0	NM_133962	102098.0	Mm.170461	NM_133962	ENSMUSG00000004568	Arhgef18	AI467246|D030053O22Rik	rho/rac guanine nucleotide exchange factor (GEF) 18	protein-coding	11.0	17.0	16.0	118.5	28.0	10.5	12.0	4.5
Merged-chr16-75856154-2	chr16	75856054	75856254	+	960.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	IMPB_01|Satellite|Satellite	53112.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	7.0	2.5	1.0	15.5	11.0	7.0	5.0	10.0
Merged-chr14-40914936-1	chr14	40914836	40915036	+	661.0	f0_balb.idr	intron (NM_145928, intron 5 of 8)	intron (NM_145928, intron 5 of 8)	-21971.0	NM_177816	328381.0	Mm.235694	NM_177816	ENSMUSG00000037833	Sh2d4b	A430109M18Rik|D030001E08	SH2 domain containing 4B	protein-coding	8.5	7.0	7.0	106.5	3.5	5.5	4.5	3.5
Merged-chr2-165388217-4	chr2	165388062	165388262	+	937.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178411)	promoter-TSS (NM_178411)	97.0	NM_178411	228876.0	Mm.26316	NM_178411	ENSMUSG00000017667	Zfp334	D2Ertd535e	zinc finger protein 334	protein-coding	6.0	9.0	21.5	65.0	15.0	6.0	5.5	10.5
Merged-chr10-117436926-3	chr10	117436853	117437053	+	671.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10482.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	2.0	5.5	2.5	22.5	14.0	9.5	14.5	12.0
Merged-chr7-101033530-1	chr7	101033430	101033630	+	749.5	f0_balb.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-21477.0	NM_001302346	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	13.5	6.0	6.0	162.5	1.0	1.0	1.0	2.0
Merged-chr8-93011616-2	chr8	93011497	93011697	+	562.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36595.0	NM_001013764	244595.0	Mm.390089	NM_001013764	ENSMUSG00000071047	Ces1a	Ces1l|EG244595|Gm4976	carboxylesterase 1A	protein-coding	7.0	6.5	6.5	60.5	19.0	11.5	7.0	7.0
Merged-chr18-4234487-4	chr18	4234393	4234593	+	894.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	68661.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	13.0	17.0	12.0	315.5	55.5	7.0	12.0	11.5
Merged-chr2-35452606-3	chr2	35452496	35452696	+	972.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010283, intron 1 of 8)	intron (NM_010283, intron 1 of 8)	8853.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	13.0	19.0	56.5	521.0	19.5	3.0	11.0	4.5
Merged-chr15-95799807-4	chr15	95799698	95799898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	8955.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	44.0	83.5	66.5	1010.0	133.0	36.0	69.5	54.5
Merged-chr9-96196272-4	chr9	96196174	96196374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001184708)	promoter-TSS (NM_001184708)	-1.0	NM_001184706	211586.0	Mm.17977	NM_178667	ENSMUSG00000032411	Tfdp2	1110029I05Rik|A330080J22Rik|DP-3|DP3	transcription factor Dp 2	protein-coding	184.0	194.0	157.0	2979.0	397.0	129.5	224.5	158.5
Merged-chr3-59225592-3	chr3	59225484	59225684	+	770.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357010, intron 1 of 3)	intron (NM_001357010, intron 1 of 3)	-14702.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	7.0	20.5	11.0	173.5	21.5	4.0	5.5	9.0
Merged-chr12-82169315-4	chr12	82169223	82169423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167983)	promoter-TSS (NM_001167983)	-693.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	98.5	166.5	58.5	1080.0	290.0	98.0	109.0	91.0
Merged-chr8-117282758-4	chr8	117282667	117282867	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	25748.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	30.5	49.5	9.0	272.0	40.5	24.5	26.0	19.0
Merged-chr3-103017592-4	chr3	103017543	103017743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2903.0	NM_001310693	229663.0	Mm.277713	NM_144901	ENSMUSG00000068823	Csde1	AA960392|BC016898|D3Jfr1|mKIAA0885|unr	cold shock domain containing E1, RNA binding	protein-coding	39.5	69.0	48.5	877.0	131.0	42.5	50.5	63.0
Merged-chr5-34288476-2	chr5	34288376	34288576	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001015039)	promoter-TSS (NM_001015039)	-152.0	NM_001015039	231125.0	Mm.113388	NM_001015039	ENSMUSG00000037224	Zfyve28	9630058O20Rik|Gm146|mKIAA1643	zinc finger, FYVE domain containing 28	protein-coding	16.0	6.5	4.0	99.5	19.0	4.5	10.0	11.0
Merged-chr4-150473775-4	chr4	150473576	150473776	+	952.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 6 of 22)	intron (NM_001085492, intron 6 of 22)	178498.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	18.0	22.5	16.5	374.5	32.0	6.0	4.0	6.0
Merged-chr1-80614857-4	chr1	80614758	80614958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 4 of 55)	intron (NM_175291, intron 4 of 55)	50494.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	40.5	58.0	35.5	428.0	77.5	29.0	39.5	23.5
Merged-chr3-137955682-4	chr3	137955594	137955794	+	987.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	MIR|SINE|MIR	25855.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	41.0	61.5	36.5	432.5	85.5	42.5	23.5	21.0
Merged-chr7-79831777-3	chr7	79831687	79831887	+	886.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008486, intron 15 of 20)	HAL1|LINE|L1	16423.0	NM_008486	16790.0	Mm.4487	NM_008486	ENSMUSG00000039062	Anpep	AP-M|AP-N|Apn|Cd13|P150	alanyl (membrane) aminopeptidase	protein-coding	5.5	7.5	5.5	199.5	14.5	8.0	5.5	5.0
Merged-chr2-129491870-2	chr2	129491783	129491983	+	754.791626	f0_balb.idr|f1_balb.idr	intron (NM_177653, intron 1 of 6)	RMER13A2|LTR|ERVK	44719.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	13.0	26.5	17.5	163.5	3.5	0.5	0.5	3.5
Merged-chr8-46851787-4	chr8	46851694	46851894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112049.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	113.0	173.0	85.0	1584.5	272.5	100.5	110.5	131.0
Merged-chr10-98744347-4	chr10	98744253	98744453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-170289.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	123.5	177.5	140.5	2083.0	259.5	115.5	129.0	113.0
Merged-chr2-157049128-4	chr2	157049023	157049223	+	978.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 3 of 14)	intron (NM_001164663, intron 3 of 14)	30142.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	21.5	42.5	12.0	257.5	47.5	18.0	24.5	11.5
Merged-chr13-41525475-4	chr13	41525374	41525574	+	917.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38114.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	17.0	13.0	11.5	255.5	47.5	11.0	20.5	22.0
Merged-chr6-83159636-4	chr6	83159518	83159718	+	842.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027948, intron 1 of 3)	B2_Mm2|SINE|B2	3214.0	NM_027948	71837.0	Mm.17621	NM_027948	ENSMUSG00000030030	1700003E16Rik	AU041756	RIKEN cDNA 1700003E16 gene	protein-coding	9.5	14.0	6.5	56.5	28.0	4.5	3.0	21.0
Merged-chr16-49781818-4	chr16	49781725	49781925	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73829.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	24.0	21.5	39.0	521.5	43.0	12.5	25.5	28.0
Merged-chr19-18713690-2	chr19	18713590	18713790	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177640, intron 1 of 1)	CpG	454.0	NM_177640	225995.0	Mm.28101	NM_177640	ENSMUSG00000047044	D030056L22Rik	-	RIKEN cDNA D030056L22 gene	protein-coding	13.0	5.0	2.5	116.5	19.5	8.5	5.5	9.0
Merged-chr6-72742592-4	chr6	72742484	72742684	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	intron (NM_001079822, intron 3 of 12)	46461.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	1.5	8.0	23.0	297.0	23.5	16.5	38.0	28.5
Merged-chr2-14224568-4	chr2	14224456	14224656	+	956.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-4858.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	19.5	20.5	17.5	356.0	30.5	7.5	13.5	8.0
Merged-chr10-17201296-4	chr10	17201186	17201386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105504.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	71.5	83.5	49.0	1233.0	119.5	44.5	43.5	41.0
Merged-chr18-39553243-8	chr18	39553138	39553338	+	953.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65993.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	9.5	14.0	12.0	186.0	26.5	6.5	6.5	8.5
Merged-chr16-33985547-4	chr16	33985444	33985644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 56 of 59)	intron (NM_177357, intron 56 of 59)	-18506.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	36.0	50.5	32.0	264.5	91.5	34.0	32.5	28.0
Merged-chr1-88705308-4	chr1	88705182	88705382	+	933.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3091.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	13.0	25.5	20.0	148.5	26.5	18.5	18.0	15.5
Merged-chr7-19740521-2	chr7	19740421	19740621	+	961.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008990, intron 1 of 8)	intron (NM_008990, intron 1 of 8)	9052.0	NM_008990	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	3.5	6.5	3.0	98.0	12.5	6.0	15.0	9.5
Merged-chr18-78805216-4	chr18	78805105	78805305	+	863.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053099, intron 4 of 5)	T-rich|Low_complexity|Low_complexity	-208255.0	NM_207651	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	15.0	16.5	16.5	87.5	39.5	12.5	7.5	12.0
Merged-chr2-27745291-2	chr2	27745191	27745391	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 4 of 9)	intron (NM_001290481, intron 4 of 9)	34708.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	14.5	14.5	6.0	136.5	20.0	4.5	4.0	18.5
Merged-chr9-71187588-4	chr9	71187501	71187701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110517, intron 5 of 5)	intron (NR_110517, intron 5 of 5)	18825.0	NR_110517	102635087.0	Mm.444536	NR_110517	ENSMUSG00000111429	Gm32511	-	predicted gene, 32511	ncRNA	25.5	70.0	27.0	297.5	87.5	39.5	36.5	24.0
Merged-chr18-88866645-4	chr18	88866548	88866748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	27559.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	50.0	53.5	32.5	904.0	99.5	26.5	37.0	26.0
Merged-chr4-133690442-4	chr4	133690326	133690526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080819, intron 11 of 19)	intron (NM_001080819, intron 11 of 19)	-17260.0	NM_001356466	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	25.0	35.0	21.0	463.5	146.0	27.0	42.0	59.5
Merged-chr15-41765893-4	chr15	41765745	41765945	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 3 of 17)	L1MA4|LINE|L1	-23150.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	19.5	19.5	22.5	204.0	20.5	8.0	21.0	10.0
Merged-chr11-114818470-4	chr11	114818378	114818578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19554.0	NM_181749	217302.0	Mm.269127	NM_181749	ENSMUSG00000034677	Gpr142	PGR2	G protein-coupled receptor 142	protein-coding	110.5	154.5	88.0	1678.5	174.0	74.5	84.0	91.0
Merged-chr12-8947862-4	chr12	8947789	8947989	+	893.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010770)	promoter-TSS (NM_010770)	-40.0	NM_010770	17182.0	Mm.42226	NM_010770	ENSMUSG00000020583	Matn3	AV009181	matrilin 3	protein-coding	21.0	17.0	17.5	235.5	37.5	16.5	21.0	13.0
Merged-chr3-79145815-4	chr3	79145722	79145922	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310536)	promoter-TSS (NM_001310536)	53.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	17.0	16.0	9.0	91.5	31.5	5.0	15.0	11.0
Merged-chr4-83526375-4	chr4	83526264	83526464	+	961.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355549, intron 1 of 24)	intron (NM_001355549, intron 1 of 24)	819.0	NM_001355378	320226.0	Mm.180032	NM_029117	ENSMUSG00000052407	Ccdc171	4930418J05Rik|4930473A06Rik|A330015D16Rik	coiled-coil domain containing 171	protein-coding	23.0	9.5	12.0	231.0	58.5	14.0	19.0	24.5
Merged-chr6-129544393-3	chr6	129544288	129544488	+	779.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11104.0	NR_045270	100504641.0	Mm.398286	NR_045270	ENSMUSG00000097675	1700101I11Rik	-	RIKEN cDNA 1700101I11 gene	ncRNA	5.5	7.0	7.5	61.5	32.5	6.5	9.0	9.5
Merged-chr10-86074313-3	chr10	86074209	86074409	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013722, intron 8 of 13)	intron (NM_013722, intron 8 of 13)	-21545.0	NR_038024	78170.0	Mm.444790	NR_038024	ENSMUSG00000112493	4930486F22Rik	-	RIKEN cDNA 4930486F22 gene	ncRNA	5.0	9.5	3.5	117.0	55.5	6.5	19.5	12.0
Merged-chr3-105816271-4	chr3	105816172	105816372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045845, intron 2 of 2)	intron (NR_045845, intron 2 of 2)	705.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	51.0	122.5	81.5	1075.5	231.0	79.5	132.5	94.5
Merged-chr5-64852883-4	chr5	64852773	64852973	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	49350.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	30.5	30.0	20.0	364.0	59.5	18.5	16.0	24.0
Merged-chr2-94470936-3	chr2	94470860	94471060	+	721.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32774.0	NM_001349003	11800.0	Mm.181824	NM_007466	ENSMUSG00000027193	Api5	AAC-11|AI196452|API-5	apoptosis inhibitor 5	protein-coding	7.0	4.5	4.0	100.0	17.0	6.5	9.0	13.0
Merged-chr11-60776837-4	chr11	60776731	60776931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175491)	promoter-TSS (NM_175491)	534.0	NM_009410	21975.0	Mm.10708	NM_009410	ENSMUSG00000002814	Top3a	-	topoisomerase (DNA) III alpha	protein-coding	55.0	96.0	36.5	561.0	130.5	51.0	49.0	31.5
Merged-chr1-54829430-1	chr1	54829330	54829530	+	822.0	f0_balb.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	96957.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	11.0	14.0	6.0	157.0	7.5	2.0	5.5	11.0
Merged-chr12-8913172-4	chr12	8912988	8913188	+	790.303589	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8219.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	4.0	3.0	13.0	99.5	7.5	5.0	7.5	10.0
Merged-chr10-23851430-3	chr10	23851327	23851527	+	971.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011979)	promoter-TSS (NM_011979)	-35.0	NM_011979	26464.0	Mm.27334	NM_011979	ENSMUSG00000020010	Vnn3	-	vanin 3	protein-coding	1.0	1.5	6.0	111.5	62.0	7.0	41.5	22.0
Merged-chr16-45283329-3	chr16	45283216	45283416	+	939.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67D|LTR|ERV1	58979.0	NM_177584	208154.0	Mm.38199	NM_177584	ENSMUSG00000052013	Btla	A630002H24	B and T lymphocyte associated	protein-coding	6.0	14.0	8.5	121.0	22.0	8.0	5.5	7.0
Merged-chr5-43031498-3	chr5	43031399	43031599	+	869.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-201964.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	7.0	7.5	19.5	174.5	9.5	3.0	16.0	2.5
Merged-chr1-36052818-4	chr1	36052718	36052918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-15582.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	133.0	199.0	157.5	2553.0	341.0	87.5	145.5	124.0
Merged-chr7-128059303-4	chr7	128059203	128059403	+	918.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-3337.0	NM_001082960	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	11.5	17.0	7.0	264.0	51.5	10.0	25.5	15.0
Merged-chr13-5875635-4	chr13	5875561	5875761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14172.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	55.0	93.5	65.0	1137.0	100.5	47.0	44.0	27.5
Merged-chr13-3406828-4	chr13	3406739	3406939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71464.0	NR_015522	76937.0	Mm.487240	NR_015522	ENSMUSG00000097709	2810429I04Rik	AI256682	RIKEN cDNA 2810429I04 gene	ncRNA	57.5	75.5	34.5	512.5	129.0	58.5	52.5	40.5
Merged-chr4-144892373-4	chr4	144892286	144892486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172424)	promoter-TSS (NM_001172424)	-441.0	NM_001172424	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	87.5	166.5	120.0	1928.0	348.0	118.5	167.5	135.5
Merged-chr4-138884420-4	chr4	138884297	138884497	+	821.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6455.0	NM_012044	26970.0	Mm.296007	NM_012044	ENSMUSG00000028751	Pla2g2e	-	phospholipase A2, group IIE	protein-coding	12.0	24.5	10.5	71.5	21.0	14.0	10.5	13.5
Merged-chr11-117781719-4	chr11	117781614	117781814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195088)	promoter-TSS (NM_001195088)	-583.0	NM_001195090	217356.0	Mm.116675	NM_181856	ENSMUSG00000050106	Tmc8	EVIN2|Ever2|mFLJ00400	transmembrane channel-like gene family 8	protein-coding	69.5	79.0	51.5	1056.5	140.5	38.5	51.0	65.5
Merged-chr17-52712484-1	chr17	52712384	52712584	+	764.5	f0_balb.idr	intron (NM_001031811, intron 1 of 15)	intron (NM_001031811, intron 1 of 15)	109775.0	NM_001031811	211468.0	Mm.399068	NM_001031811	ENSMUSG00000035580	Kcnh8	C130090D05Rik|ELK|ELK1|ELK3|Kv12.1	potassium voltage-gated channel, subfamily H (eag-related), member 8	protein-coding	6.0	5.5	10.5	131.0	10.0	1.0	9.5	4.5
Merged-chr7-19750310-4	chr7	19750224	19750424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159724)	promoter-TSS (NM_001159724)	-751.0	NM_001159724	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	30.0	67.0	32.5	626.0	125.0	52.0	54.0	52.0
Merged-chr2-151575732-3	chr2	151575647	151575847	+	853.56665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145535, intron 1 of 8)	intron (NM_145535, intron 1 of 8)	3124.0	NM_145535	228765.0	Mm.32068	NM_145535	ENSMUSG00000027456	Sdcbp2	-	syndecan binding protein (syntenin) 2	protein-coding	9.0	4.0	6.5	72.0	27.0	8.0	8.0	9.0
Merged-chr5-141056189-4	chr5	141056077	141056277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55581.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	60.0	96.5	61.5	909.0	149.0	56.0	62.0	70.0
Merged-chr1-23920936-4	chr1	23920852	23921052	+	710.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357395, intron 1 of 10)	intron (NM_001357395, intron 1 of 10)	1429.0	NM_001357395	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	3.5	9.5	5.5	80.5	35.5	11.5	20.0	15.0
Merged-chr12-12176809-4	chr12	12176697	12176897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85342.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	26.5	46.5	41.0	683.5	83.5	19.0	20.0	31.0
Merged-chr6-88009401-3	chr6	88009300	88009500	+	908.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009005, intron 3 of 5)	intron (NM_009005, intron 3 of 5)	10395.0	NM_001293655	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	6.5	13.5	7.5	119.0	15.5	9.5	2.5	10.0
Merged-chr2-131086842-4	chr2	131086737	131086937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011426)	promoter-TSS (NM_011426)	-72.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	36.0	46.5	37.5	519.5	63.0	30.0	47.5	32.0
Merged-chr10-120151806-4	chr10	120151697	120151897	+	848.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 8 of 11)	intron (NM_001359184, intron 8 of 11)	-38832.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	10.5	12.5	7.0	193.0	29.0	3.5	10.5	3.5
Merged-chr7-28169917-8	chr7	28169841	28170041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007991, intron 1 of 8)	CpG	193.0	NM_007991	14113.0	Mm.4595	NM_007991	ENSMUSG00000046865	Fbl	AL022665|FIB|FLRN|RNU3IP1	fibrillarin	protein-coding	27.0	40.0	45.5	505.0	80.5	37.5	39.0	62.5
Merged-chr6-24166952-3	chr6	24166858	24167058	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019481, intron 1 of 14)	MIR|SINE|MIR	1134.0	NM_019481	55961.0	Mm.19299	NM_019481	ENSMUSG00000029700	Slc13a1	AI314066|AI987826|NaSi-1|Nas1	solute carrier family 13 (sodium/sulfate symporters), member 1	protein-coding	59.0	84.5	51.0	660.0	7.0	1.0	2.5	3.0
Merged-chr7-38061254-4	chr7	38061147	38061347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-41695.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	39.5	60.5	42.5	680.0	106.0	25.5	40.0	48.5
Merged-chr7-4431685-2	chr7	4431585	4431785	+	620.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290409, intron 3 of 5)	B3|SINE|B2	13972.0	NM_175372	108841.0	Mm.413106	NM_175372	ENSMUSG00000008435	Rdh13	8430425D21Rik	retinol dehydrogenase 13 (all-trans and 9-cis)	protein-coding	7.5	10.0	4.0	72.0	11.0	6.0	6.0	6.5
Merged-chr8-123292934-1	chr8	123292834	123293034	+	690.0	f1_balb.idr	intron (NM_016925, intron 20 of 42)	ORR1B1|LTR|ERVL-MaLR	25642.0	NM_016925	14087.0	Mm.6536	NM_016925	ENSMUSG00000032815	Fanca	AW208693|FACA	Fanconi anemia, complementation group A	protein-coding	5.5	13.0	5.5	36.0	5.0	4.5	3.0	2.5
Merged-chr8-106150336-4	chr8	106150242	106150442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133792)	promoter-TSS (NM_133792)	-12.0	NM_133792	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	101.0	152.5	74.0	1333.5	295.5	85.5	138.5	97.5
Merged-chr3-22073322-4	chr3	22073245	22073445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-3307.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	66.0	79.5	70.5	1077.5	103.0	47.5	49.0	46.5
Merged-chr6-108214734-4	chr6	108214639	108214839	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 2 of 61)	intron (NM_010585, intron 2 of 61)	1643.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	28.0	41.5	16.5	514.5	61.0	22.5	24.0	17.0
Merged-chr1-55053229-4	chr1	55053138	55053338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026424, intron 1 of 3)	CpG	468.0	NM_001039710	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	82.0	224.0	128.0	1581.0	305.0	119.5	154.5	110.5
Merged-chr2-102899401-4	chr2	102899315	102899515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	2250.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	22.0	32.5	43.0	627.5	115.0	28.5	54.5	46.0
Merged-chr10-14048669-4	chr10	14048575	14048775	+	990.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	82296.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	36.0	63.5	31.5	429.5	63.0	33.0	30.5	14.5
Merged-chr17-33903502-4	chr17	33903411	33903611	+	915.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4A|LTR|ERVK	-1624.0	NR_040470	474160.0	Mm.206186	NR_040470	ENSMUSG00000092349	Platr17	-	pluripotency associated transcript 17	ncRNA	11.0	23.0	12.0	133.0	48.0	14.5	11.0	21.0
Merged-chr1-182368526-3	chr1	182368426	182368626	+	689.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26920.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	9.0	7.5	8.0	170.0	3.5	5.0	3.5	6.5
Merged-chr13-113433691-4	chr13	113433581	113433781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69163.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	90.0	102.5	134.5	1704.0	153.5	50.0	95.0	67.0
Merged-chr12-83958512-4	chr12	83958406	83958606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7898.0	NM_023633	71952.0	Mm.251483	NM_023633	ENSMUSG00000046791	Riox1	2410016O06Rik|MAPJD|NO66	ribosomal oxygenase 1	protein-coding	26.5	53.5	28.0	350.5	114.5	34.0	39.5	40.5
Merged-chr8-70273114-4	chr8	70273015	70273215	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9884.0	NM_011984	26558.0	Mm.388127	NM_011984	ENSMUSG00000003573	Homer3	AW146114	homer scaffolding protein 3	protein-coding	17.5	42.0	23.5	488.0	57.5	14.0	41.0	39.0
Merged-chr11-108378231-4	chr11	108378126	108378326	+	884.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17071.0	NM_013475	11818.0	Mm.2266	NM_013475	ENSMUSG00000000049	Apoh	B2GPI|beta-2-GPI|beta2-GPI	apolipoprotein H	protein-coding	17.0	17.5	25.5	176.5	20.5	8.5	5.5	14.0
Merged-chr14-31380019-3	chr14	31379922	31380122	+	735.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	37655.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	7.0	4.0	7.5	52.5	40.5	10.5	11.0	6.5
Merged-chr19-3389323-4	chr19	3389237	3389437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286557)	promoter-TSS (NM_001286557)	-41.0	NM_001286557	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	152.0	252.5	132.0	1786.5	246.5	124.0	151.0	117.0
Merged-chr13-42052364-2	chr13	42052264	42052464	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 1 of 8)	CpG	343.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	19.0	57.5	21.5	397.0	83.5	28.0	28.5	37.0
Merged-chr8-106415330-4	chr8	106415220	106415420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011764)	promoter-TSS (NM_011764)	-19.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	134.0	167.0	108.0	1734.5	273.5	107.0	139.5	118.5
Merged-chr3-96663805-4	chr3	96663764	96663964	+	799.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001302471, exon 30 of 30)	3' UTR (NM_001302471, exon 30 of 30)	-6267.0	NM_001356539	213121.0	Mm.39732	NM_001081139	ENSMUSG00000038354	Ankrd35	4732436F15Rik	ankyrin repeat domain 35	protein-coding	4.0	19.0	5.0	36.5	30.5	9.0	8.5	13.0
Merged-chr9-63721755-4	chr9	63721681	63721881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	36213.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	55.5	124.0	48.0	673.5	132.0	45.5	59.0	44.5
Merged-chr10-72654814-4	chr10	72654728	72654928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293684)	promoter-TSS (NM_001293684)	-18.0	NM_025635	52696.0	Mm.62876	NM_025635	ENSMUSG00000019923	Zwint	2010007E07Rik|2600001N01Rik|D10Ertd749e|Zwint-1	ZW10 interactor	protein-coding	232.0	332.5	203.0	3833.5	564.0	216.5	292.5	224.0
Merged-chr6-83914389-4	chr6	83914292	83914492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008717)	promoter-TSS (NM_008717)	39.0	NM_001355284	18139.0	Mm.132392	NM_008717	ENSMUSG00000030016	Zfp638	AI323587|Np220|Zfml|Znf638|mNP220	zinc finger protein 638	protein-coding	68.0	84.5	41.5	679.0	180.0	48.0	66.0	55.0
Merged-chr11-114906878-4	chr11	114906789	114906989	+	973.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	16848.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	43.5	38.0	21.0	243.5	52.0	41.5	11.0	25.5
Merged-chr3-88745159-4	chr3	88745073	88745273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018804, exon 4 of 4)	3' UTR (NM_018804, exon 4 of 4)	27426.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	21.5	47.5	27.5	207.0	76.5	21.0	17.5	9.0
Merged-chr2-103488992-4	chr2	103488891	103489091	+	950.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3838.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	17.5	16.5	9.5	216.0	52.0	24.0	22.5	17.0
Merged-chr1-37357328-4	chr1	37357224	37357424	+	966.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	-11893.0	NM_172971	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	23.5	53.0	26.0	642.0	79.5	11.5	24.5	19.0
Merged-chr4-126057993-4	chr4	126057931	126058131	+	919.5125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356446)	promoter-TSS (NM_001356446)	-534.0	NM_001356446	230751.0	Mm.38907	NM_172701	ENSMUSG00000042616	Oscp1	1810007P19Rik|5730415O04|6030436A01Rik	organic solute carrier partner 1	protein-coding	14.5	9.0	4.0	118.0	32.0	17.0	16.5	17.5
Merged-chr4-45890259-4	chr4	45890154	45890354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198660)	promoter-TSS (NM_198660)	-49.0	NM_198660	381522.0	Mm.54220	NM_198660	ENSMUSG00000035539	Ccdc180	E230008N13Rik|Gm1025	coiled-coil domain containing 180	protein-coding	72.0	95.5	45.5	1085.5	161.0	55.0	98.0	73.5
Merged-chr7-16398574-4	chr7	16398499	16398699	+	781.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2597.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	1.5	19.5	7.0	73.5	17.5	7.5	5.5	11.0
Merged-chr13-30974058-4	chr13	30973963	30974163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025588)	promoter-TSS (NM_025588)	-16.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	79.0	110.5	73.5	1265.0	167.5	72.0	116.0	99.0
Merged-chr19-4300445-4	chr19	4300344	4300544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	5778.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	157.0	205.5	155.5	2269.0	293.0	107.0	129.5	111.5
Merged-chr4-84372629-4	chr4	84372520	84372720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172870, intron 4 of 5)	PB1D7|SINE|Alu	302466.0	NM_172870	242509.0	Mm.190774	NM_172870	ENSMUSG00000028487	Bnc2	5031434M05Rik|8430420F16Rik	basonuclin 2	protein-coding	39.0	29.0	26.5	697.5	61.0	19.5	32.5	32.0
Merged-chr18-5345019-6	chr18	5344899	5345099	+	999.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10192.0	NM_001360447	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	17.0	23.0	14.0	205.0	31.5	12.5	9.0	15.0
Merged-chr9-7571370-4	chr9	7571277	7571477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310717)	promoter-TSS (NM_001310717)	-19.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	59.5	54.0	59.5	916.0	131.0	37.5	71.0	67.5
Merged-chr4-40269840-4	chr4	40269742	40269942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134097)	promoter-TSS (NM_134097)	-1.0	NM_134097	106021.0	Mm.251548	NM_134097	ENSMUSG00000036822	Topors	AW105885|LUN|TP53BPL|p53BP3/LUN	topoisomerase I binding, arginine/serine-rich	protein-coding	171.0	314.0	152.0	2776.0	503.0	184.5	269.0	229.5
Merged-chr16-21310974-4	chr16	21310909	21311109	+	997.392822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14137.0	NR_046162	328646.0	Mm.404748	NR_046162	ENSMUSG00000096918	Gm16863	A830060N17	predicted gene, 16863	ncRNA	32.0	26.0	16.5	368.5	53.5	23.5	25.0	21.0
Merged-chr4-53154988-4	chr4	53154884	53155084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	4911.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	43.5	65.0	35.5	364.0	39.5	23.0	26.0	23.5
Merged-chr1-173437736-3	chr1	173437633	173437833	+	777.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	MIRb|SINE|MIR	17129.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	9.0	7.5	11.5	130.0	16.5	4.5	9.0	11.5
Merged-chr11-29707034-4	chr11	29706930	29707130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_194051, exon 3 of 9)	exon (NM_194051, exon 3 of 9)	-11533.0	NM_024226	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	38.5	66.0	40.5	891.0	76.5	22.5	38.5	38.5
Merged-chr2-32150934-4	chr2	32150835	32151035	+	732.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159634)	promoter-TSS (NM_001159634)	-213.0	NM_172661	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	14.0	17.5	6.0	132.0	31.0	7.0	7.5	8.5
Merged-chr4-53239072-4	chr4	53238973	53239173	+	972.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-7123.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	14.5	22.0	26.0	365.5	40.0	10.5	22.5	18.0
Merged-chr14-103065787-4	chr14	103065679	103065879	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4437.0	NM_001033242	211286.0	Mm.295289	NM_001033242	ENSMUSG00000022125	Cln5	A730075N08Rik	ceroid-lipofuscinosis, neuronal 5	protein-coding	15.5	23.5	7.5	177.5	38.0	17.5	11.0	13.0
Merged-chr3-84827949-4	chr3	84827852	84828052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 1 of 13)	intron (NM_001177773, intron 1 of 13)	12375.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	45.5	41.0	61.0	688.0	116.5	43.0	28.5	38.5
Merged-chr8-68456860-4	chr8	68456710	68456910	+	899.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172753, intron 4 of 9)	RMER16_Mm|LTR|ERVK	88351.0	NR_038181	73609.0	Mm.443247	NR_038181	ENSMUSG00000085197	1700125H03Rik	4930510D22Rik	RIKEN cDNA 1700125H03 gene	ncRNA	18.0	26.0	40.0	93.5	45.0	6.0	10.5	8.0
Merged-chr18-46524436-4	chr18	46524376	46524576	+	936.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173423, exon 2 of 3)	exon (NM_173423, exon 2 of 3)	1495.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	11.5	13.5	15.0	176.5	26.0	6.5	14.0	17.0
Merged-chr2-129306200-4	chr2	129306075	129306275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040371, exon 4 of 5)	non-coding (NR_040371, exon 4 of 5)	3797.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	68.0	78.5	116.5	1446.0	146.5	35.0	80.5	66.5
Merged-chr3-132116320-4	chr3	132116204	132116404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	intron (NM_020265, intron 1 of 3)	31012.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	33.0	12.5	43.0	721.5	65.0	37.0	37.5	31.5
Merged-chr7-135605239-4	chr7	135605143	135605343	+	852.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316679)	promoter-TSS (NM_001316679)	-585.0	NM_001316679	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	10.5	14.0	9.5	184.0	20.5	8.0	7.0	12.0
Merged-chr10-40133223-4	chr10	40133126	40133326	+	781.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	9028.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	11.0	10.0	15.0	291.0	28.0	8.5	5.5	7.5
Merged-chr8-25096981-4	chr8	25096892	25097092	+	958.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 1 of 11)	intron (NM_031257, intron 1 of 11)	4819.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	22.0	36.0	16.0	272.5	68.0	28.5	15.0	26.5
Merged-chr17-34632545-4	chr17	34632454	34632654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030890)	TTS (NM_030890)	2868.0	NM_030890	260297.0	Mm.390965	NM_030890	ENSMUSG00000015476	Prrt1	Bat-4|Bat4|D17H6S54E|DSPD1|G5b|NG5|ORF31|SynDIG4	proline-rich transmembrane protein 1	protein-coding	175.5	210.0	124.5	1682.0	228.0	161.5	151.5	114.0
Merged-chr18-82567830-4	chr18	82567727	82567927	+	807.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025251, intron 2 of 6)	intron (NM_001025251, intron 2 of 6)	13319.0	NM_001025254	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	12.5	17.0	16.0	159.0	22.5	12.0	9.5	14.5
Merged-chr8-128602104-4	chr8	128601947	128602147	+	899.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83607.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	11.0	11.5	13.0	170.0	19.0	6.0	6.0	3.5
Merged-chr11-20469441-4	chr11	20469354	20469554	+	865.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73799.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	17.0	17.5	5.0	138.0	30.5	13.5	13.5	9.0
Merged-chr7-43636346-4	chr7	43636222	43636422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 1 of 5)	intron (NM_028236, intron 1 of 5)	1583.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	49.5	72.0	57.0	752.5	119.0	49.0	61.0	49.0
Merged-chr1-23827273-3	chr1	23827171	23827371	+	696.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172124, intron 2 of 3)	intron (NM_172124, intron 2 of 3)	65345.0	NM_172124	280645.0	Mm.471661	NM_172124	ENSMUSG00000026156	B3gat2	GlcAT-S|Glcats	beta-1,3-glucuronyltransferase 2 (glucuronosyltransferase S)	protein-coding	2.0	5.0	1.0	63.0	25.5	7.5	12.0	7.0
Merged-chr11-115047237-3	chr11	115047163	115047363	+	848.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199201, intron 1 of 3).2	B4A|SINE|B4	1032.0	NM_199201	382551.0	Mm.424732	NM_199201	ENSMUSG00000069607	Cd300ld3	AY457049|Cd300lh|Clm3|Lmir7|clm-3	CD300 molecule like family member D3	protein-coding	9.0	10.5	9.0	75.0	7.5	10.5	1.0	8.0
Merged-chr5-144014901-4	chr5	144014801	144015001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177682)	promoter-TSS (NM_177682)	-48.0	NM_177682	231874.0	Mm.320432	NM_177682	ENSMUSG00000029617	Ccz1	AU022870	CCZ1 vacuolar protein trafficking and biogenesis associated	protein-coding	69.0	87.5	45.0	1032.0	179.0	56.5	91.0	86.0
Merged-chr16-33892186-4	chr16	33892096	33892296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 5 of 14)	intron (NM_001145884, intron 5 of 14)	62531.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	20.5	33.5	24.0	461.0	37.0	26.5	31.5	33.0
Merged-chr1-180848276-4	chr1	180848189	180848389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2862.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	70.0	146.0	61.5	1087.0	164.0	64.5	87.5	67.5
Merged-chr15-27616372-4	chr15	27616301	27616501	+	943.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013792, exon 4 of 7)	exon (NM_001013792, exon 4 of 7)	14292.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	19.0	17.5	46.5	509.5	35.0	11.0	21.0	18.5
Merged-chr11-69040360-4	chr11	69040259	69040459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5278.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	49.0	61.5	36.0	469.5	68.5	33.0	26.0	32.0
Merged-chr4-132494759-4	chr4	132494673	132494873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144907, intron 8 of 9)	intron (NM_144907, intron 8 of 9)	15683.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	139.5	181.5	146.5	1939.5	295.0	116.5	143.5	130.0
Merged-chr3-122509332-4	chr3	122509256	122509456	+	876.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013867, intron 5 of 11)	intron (NM_013867, intron 5 of 11)	25787.0	NM_001355264	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	3.5	15.0	9.5	156.5	16.5	11.0	14.5	8.0
Merged-chr19-6276723-4	chr19	6276618	6276818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010119)	promoter-TSS (NM_010119)	-178.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	279.5	458.5	249.5	2686.0	642.0	276.0	289.0	236.0
Merged-chr17-6827970-4	chr17	6827901	6828101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-45221.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	68.0	129.0	91.5	1012.0	180.0	91.0	75.5	63.5
Merged-chr2-180970556-2	chr2	180970438	180970638	+	958.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_145760, intron 2 of 13)	intron (NM_145760, intron 2 of 13)	3238.0	NM_001177706	228998.0	Mm.33765	NM_145760	ENSMUSG00000027575	Arfgap1	AI115377|Arf1gap	ADP-ribosylation factor GTPase activating protein 1	protein-coding	4.5	11.0	5.0	51.5	14.0	8.5	6.5	10.0
Merged-chr9-22085478-4	chr9	22085372	22085572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253898)	promoter-TSS (NM_001253898)	-45.0	NM_001253897	26940.0	Mm.425568	NM_012029	ENSMUSG00000066839	Ecsit	Sitpec	ECSIT signalling integrator	protein-coding	177.0	210.5	128.0	2662.5	417.0	156.0	184.5	173.0
Merged-chr1-157445586-4	chr1	157445490	157445690	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12978.0	NM_001356418	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	23.5	17.0	21.0	300.0	125.0	51.5	61.0	66.5
Merged-chr13-110711074-4	chr13	110710974	110711174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-192425.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	43.0	50.5	25.5	655.5	106.5	34.5	39.5	33.0
Merged-chr13-96543522-3	chr13	96543442	96543642	+	906.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012048)	promoter-TSS (NM_012048)	807.0	NM_023420	68018.0	Mm.24125	NM_023420	ENSMUSG00000021669	Col4a3bp	2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP	collagen, type IV, alpha 3 (Goodpasture antigen) binding protein	protein-coding	7.5	10.5	12.0	109.0	16.5	12.5	7.5	11.0
Merged-chr7-62463743-2	chr7	62463643	62463843	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_013788, exon 1 of 1)	exon (NM_013788, exon 1 of 1)	767.0	NM_013788	27412.0	Mm.422745	NM_013788	ENSMUSG00000070526	Peg12	Frat3	paternally expressed 12	protein-coding	10.5	8.5	26.0	81.5	0.0	0.0	0.0	8.5
Merged-chr5-148548720-3	chr5	148548591	148548791	+	856.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	2982.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	7.5	10.0	5.5	27.0	26.5	10.0	7.0	10.0
Merged-chr13-23696317-3	chr13	23696170	23696370	+	793.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010377, exon 1 of 1)	exon (NM_010377, exon 1 of 1)	459.0	NM_010377	107970.0	Mm.8048	NM_010377	ENSMUSG00000036211	Hist1h1t	H1.6|H1ft|H1t	histone cluster 1, H1t	protein-coding	3.0	2.5	4.5	18.5	21.5	9.0	12.5	9.0
Merged-chr8-22713200-3	chr8	22713121	22713321	+	660.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6638.0	NM_001159774	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	11.0	10.5	5.0	92.0	9.5	1.5	8.5	6.0
Merged-chr3-144688423-3	chr3	144688327	144688527	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019464, exon 9 of 9)	3' UTR (NM_019464, exon 9 of 9)	31908.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	23.0	22.5	25.0	380.0	18.5	5.0	7.5	14.5
Merged-chr13-54303833-2	chr13	54303733	54303933	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67516.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	10.0	8.0	5.5	52.5	24.5	11.5	3.0	6.0
Merged-chr1-55506596-4	chr1	55506506	55506706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	MIR|SINE|MIR	100660.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	83.5	173.0	89.5	1526.5	270.5	73.0	111.5	86.0
Merged-chr10-19583222-4	chr10	19583116	19583316	+	907.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8733.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	14.0	25.0	20.5	341.0	52.0	11.0	22.0	13.0
Merged-chr13-37482783-4	chr13	37482691	37482891	+	768.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137446.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	7.5	13.5	12.5	271.0	22.0	5.5	9.0	3.5
Merged-chr16-17209192-4	chr16	17209077	17209277	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033338, exon 1 of 1)	exon (NM_001033338, exon 1 of 1)	1042.0	NM_001033338	239731.0	Mm.86671	NM_001033338	ENSMUSG00000071636	Rimbp3	Gm1759|Gm603|RIM-BP3|mKIAA1666	RIMS binding protein 3	protein-coding	24.0	40.0	26.5	289.0	51.0	21.5	19.0	26.0
Merged-chr2-129582277-2	chr2	129582161	129582361	+	661.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-10578.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	7.0	11.0	11.5	50.5	2.5	0.0	0.0	3.0
Merged-chr5-146795056-4	chr5	146794971	146795171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011669)	promoter-TSS (NM_011669)	-115.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	215.5	320.5	173.0	2586.0	455.5	229.5	231.5	214.5
Merged-chr4-126019193-4	chr4	126019100	126019300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5459.0	NR_045561	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	116.5	181.5	94.5	1474.5	313.5	105.0	123.0	139.5
Merged-chr10-60398620-4	chr10	60398522	60398722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 28 of 68)	intron (NM_001252635, intron 28 of 68)	-1104.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	88.5	121.0	71.0	1185.5	205.0	105.5	71.5	74.0
Merged-chr2-38209344-3	chr2	38209249	38209449	+	762.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 2 of 21)	ORR1F|LTR|ERVL-MaLR	78035.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	5.5	11.0	5.5	56.5	24.0	11.0	12.5	4.0
Merged-chr13-54838747-3	chr13	54838669	54838869	+	789.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49364.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	6.5	11.0	8.0	58.0	11.0	6.0	3.5	8.5
Merged-chr9-57655912-4	chr9	57655788	57655988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2257.0	NM_001304761	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	30.0	40.5	18.0	351.0	69.5	21.0	26.0	33.5
Merged-chr16-57176487-4	chr16	57176396	57176596	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 15 of 17)	intron (NM_026254, intron 15 of 17)	-9164.0	NM_023175	52633.0	Mm.383203	NM_023175	ENSMUSG00000022751	Nit2	1190017B19Rik|D16Ertd502e	nitrilase family, member 2	protein-coding	7.5	18.0	14.0	241.0	39.5	14.5	15.0	11.5
Merged-chr4-19850820-3	chr4	19850614	19850814	+	833.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C2|LTR|ERVK	31987.0	NM_028746	74087.0	Mm.173833	NM_028746	ENSMUSG00000041052	Slc7a13	0610009O04Rik|AGT-1|AGT1|XAT2	solute carrier family 7, (cationic amino acid transporter, y+ system) member 13	protein-coding	4.0	5.0	3.5	49.5	5.0	7.0	5.0	5.0
Merged-chr17-85090221-3	chr17	85090125	85090325	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163624)	promoter-TSS (NM_001163624)	42.0	NM_145984	213760.0	Mm.259035	NM_145984	ENSMUSG00000024127	Prepl	2810457N15Rik|9530014L06Rik|D030028O16Rik|mKIAA0436	prolyl endopeptidase-like	protein-coding	25.5	32.5	44.5	392.0	66.0	30.5	43.5	40.5
Merged-chr9-103364389-2	chr9	103364266	103364466	+	953.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_175833, intron 1 of 4)	RSINE1|SINE|B4	613.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	5.0	8.5	9.5	65.5	13.5	5.5	6.0	7.5
Merged-chr9-57645680-4	chr9	57645577	57645777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007783)	promoter-TSS (NM_007783)	-24.0	NM_007783	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	103.5	164.5	109.0	1205.0	277.0	92.0	125.5	135.5
Merged-chr6-127149753-6	chr6	127149699	127149899	+	818.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040273, exon 1 of 3)	non-coding (NR_040273, exon 1 of 3)	173.0	NR_040273	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	6.0	17.0	5.5	91.0	30.5	3.0	7.0	6.0
Merged-chr16-91820472-4	chr16	91820417	91820617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010587, exon 13 of 39)	exon (NM_010587, exon 13 of 39)	91146.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	37.0	68.0	35.5	858.0	118.0	37.0	50.0	55.5
Merged-chr11-103021495-4	chr11	103021407	103021607	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4360.0	NM_026551	68087.0	Mm.277449	NM_026551	ENSMUSG00000020935	Dcakd	3010024O21Rik|6720485C15Rik|AI849483	dephospho-CoA kinase domain containing	protein-coding	19.5	42.0	38.0	616.5	42.5	5.5	22.5	30.0
Merged-chr5-93265661-4	chr5	93265564	93265764	+	938.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1909.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	11.5	31.5	18.5	259.0	51.5	21.5	12.0	13.5
Merged-chr8-108722878-3	chr8	108722786	108722986	+	784.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	8242.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	11.5	16.5	9.0	94.0	10.5	4.5	5.0	7.0
Merged-chr2-145934762-4	chr2	145934668	145934868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025820)	promoter-TSS (NM_025820)	-16.0	NM_175280	78774.0	Mm.136347	NM_175280	ENSMUSG00000037143	Cfap61	4930529M08Rik|BB178539|BC024760	cilia and flagella associated protein 61	protein-coding	77.5	103.5	66.0	1066.0	264.0	111.5	105.5	133.5
Merged-chr6-87547606-4	chr6	87547532	87547732	+	943.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14373.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	11.0	20.5	6.5	164.5	40.5	7.5	14.0	13.5
Merged-chr18-39446135-4	chr18	39446032	39446232	+	944.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	41113.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	16.0	37.0	14.5	235.5	30.0	14.0	9.0	13.5
Merged-chr4-24897041-4	chr4	24896926	24897126	+	862.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1057.0	NM_026742	68493.0	Mm.204831	NM_026742	ENSMUSG00000028261	Ndufaf4	1110007M04Rik|3000003G13Rik|AW214064	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4	protein-coding	10.0	22.5	10.0	166.5	33.5	12.5	11.0	13.0
Merged-chr8-70792498-4	chr8	70792394	70792594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199308)	promoter-TSS (NM_199308)	-61.0	NM_199308	546071.0	Mm.250731	NM_199308	ENSMUSG00000031833	Mast3	BC024265|mKIAA0561	microtubule associated serine/threonine kinase 3	protein-coding	180.0	242.0	113.0	2344.0	367.0	156.0	147.0	111.5
Merged-chr2-14336036-1	chr2	14335936	14336136	+	897.3333130000001	f0_balb.idr	Intergenic	Intergenic	-52362.0	NM_001012305	277468.0	Mm.44662	NM_001012305	ENSMUSG00000036949	Slc39a12	AW046938|Gm731	solute carrier family 39 (zinc transporter), member 12	protein-coding	12.0	5.5	20.0	171.5	14.5	6.0	11.5	7.5
Merged-chr16-32608926-4	chr16	32608838	32609038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011638)	promoter-TSS (NM_011638)	42.0	NM_011638	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	78.0	171.0	45.0	990.5	213.5	99.5	84.0	64.5
Merged-chr9-63706520-4	chr9	63706400	63706600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	51494.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	66.5	157.5	78.0	848.5	266.0	77.0	86.0	72.0
Merged-chr9-55110645-4	chr9	55110535	55110735	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38734.0	NM_180600	109161.0	Mm.207894	NM_180600	ENSMUSG00000032307	Ube2q2	3010021M21Rik	ubiquitin-conjugating enzyme E2Q family member 2	protein-coding	28.5	51.0	10.5	253.5	36.0	12.5	22.5	20.5
Merged-chr13-96578779-4	chr13	96578673	96578873	+	796.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023420, intron 3 of 17)	RMER6B|LTR|ERVK	36038.0	NM_023420	68018.0	Mm.24125	NM_023420	ENSMUSG00000021669	Col4a3bp	2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP	collagen, type IV, alpha 3 (Goodpasture antigen) binding protein	protein-coding	14.5	17.5	18.0	164.0	20.5	10.5	9.0	12.0
Merged-chr14-54713088-4	chr14	54713032	54713232	+	929.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207131)	promoter-TSS (NM_207131)	-958.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	8.0	24.0	19.0	210.0	31.5	7.0	8.5	7.5
Merged-chr14-22739775-3	chr14	22739678	22739878	+	696.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-196980.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	15.0	11.5	15.5	256.5	10.0	0.0	2.5	7.5
Merged-chr19-32949517-4	chr19	32949449	32949649	+	714.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	191972.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	9.0	13.5	9.0	78.0	23.5	12.5	6.0	2.0
Merged-chr9-63612165-4	chr9	63612078	63612278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	9532.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	41.5	40.0	31.0	432.0	44.0	31.0	30.5	25.5
Merged-chr4-101998734-4	chr4	101998632	101998832	+	847.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11892.0	NM_001085520	381536.0	Mm.297685	NM_001085520	ENSMUSG00000078625	Gm12789	-	predicted gene 12789	protein-coding	8.0	11.5	5.5	87.5	28.5	7.5	11.5	11.0
Merged-chr9-109000931-4	chr9	109000825	109001025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 3 of 13)	intron (NR_153430, intron 3 of 13)	9023.0	NR_153430	270198.0	Mm.132391	NM_173019	ENSMUSG00000025648	Pfkfb4	C230090D14	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4	protein-coding	24.5	38.0	13.0	203.0	71.0	31.0	20.0	28.5
Merged-chr7-44553962-4	chr7	44553858	44554058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285519)	promoter-TSS (NM_001285519)	7.0	NM_009473	22260.0	Mm.968	NM_009473	ENSMUSG00000060601	Nr1h2	AI194859|LXR|LXRB|LXRBSV|LXRbeta|NER1|OR-1|RIP15|UR|Unr|Unr2	nuclear receptor subfamily 1, group H, member 2	protein-coding	76.5	108.5	58.5	966.0	245.5	80.5	96.5	81.5
Merged-chr6-56691492-3	chr6	56691386	56691586	+	946.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	13213.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	12.0	18.5	12.0	266.5	20.0	10.0	12.5	12.0
Merged-chr2-12350579-3	chr2	12350493	12350693	+	896.361145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149732, intron 14 of 15)	intron (NR_149732, intron 14 of 15)	-48649.0	NM_001001309	241226.0	Mm.329997	NM_001001309	ENSMUSG00000026768	Itga8	AI447669	integrin alpha 8	protein-coding	16.0	9.5	31.5	374.5	20.5	6.5	9.0	6.5
Merged-chr11-44617121-4	chr11	44616964	44617164	+	833.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1036.0	NM_001290711	13591.0	Mm.439662	NM_007897	ENSMUSG00000057098	Ebf1	Ebf|O/E-1|OE-1|Olf-1|Olf1	early B cell factor 1	protein-coding	8.0	5.5	5.0	49.5	9.0	4.0	4.5	4.5
Merged-chr5-92332624-4	chr5	92332550	92332750	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 1 of 10)	intron (NM_001310664, intron 1 of 10)	823.0	NM_001310664	109979.0	Mm.263514	NM_181728	ENSMUSG00000034842	Art3	4930569O04Rik|ARTC3	ADP-ribosyltransferase 3	protein-coding	11.0	24.0	17.0	104.5	49.5	15.5	11.5	10.5
Merged-chr7-43464957-2	chr7	43464857	43465057	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001290316, exon 3 of 10)	exon (NM_001290316, exon 3 of 10)	1724.0	NM_001290316	75690.0	Mm.30200	NM_001290316	ENSMUSG00000070604	Vsig10l	-	V-set and immunoglobulin domain containing 10 like	protein-coding	8.5	9.0	10.5	92.0	6.0	4.0	3.5	7.5
Merged-chr2-130731420-4	chr2	130731336	130731536	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 27 of 36)	L2a|LINE|L2	-33917.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	31.5	43.0	18.0	104.5	46.5	12.0	26.5	16.0
Merged-chr1-165639741-4	chr1	165639635	165639835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5194.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	44.0	42.0	50.5	814.0	98.0	45.5	74.5	52.5
Merged-chr13-8644993-4	chr13	8644897	8645097	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 3 of 10)	MIRb|SINE|MIR	226047.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	26.5	23.0	27.0	481.5	44.0	13.0	12.0	13.5
Merged-chr6-113047537-4	chr6	113047376	113047576	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001355266, exon 2 of 10)	exon (NM_001355266, exon 2 of 10)	1174.0	NM_008188	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	7.0	17.5	11.0	258.5	24.5	6.5	16.0	21.5
Merged-chr6-128786605-2	chr6	128786505	128786705	+	764.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159904, intron 1 of 5)	Tigger7|DNA|TcMar-Tigger	2036.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	0.0	0.0	0.0	0.0	15.5	5.5	8.0	8.5
Merged-chr8-95806969-4	chr8	95806777	95806977	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015574)	promoter-TSS (NR_015574)	47.0	NR_015574	319960.0	Mm.386996	NR_015574	ENSMUSG00000074136	4930513N10Rik	-	RIKEN cDNA 4930513N10 gene	ncRNA	11.5	12.0	20.0	195.0	25.5	22.0	11.0	25.0
Merged-chr2-173062171-4	chr2	173062119	173062319	+	960.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40317.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	14.5	46.5	42.5	326.0	51.5	9.5	18.5	19.5
Merged-chr1-53787539-4	chr1	53787445	53787645	+	911.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-2330.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	9.0	11.0	10.5	206.5	42.5	7.0	16.5	13.0
Merged-chr19-32259267-4	chr19	32259164	32259364	+	910.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 3 of 9)	intron (NM_144792, intron 3 of 9)	-48251.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	11.5	34.5	17.5	401.0	62.0	13.5	14.0	24.5
Merged-chr3-146345407-4	chr3	146345296	146345496	+	795.295837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33548.0	NR_033542	100038607.0	Mm.365888	NR_033542	ENSMUSG00000105602	Gm10636	-	predicted gene 10636	ncRNA	7.0	14.5	8.5	353.0	22.5	15.5	13.5	23.0
Merged-chr4-129036253-10	chr4	129036165	129036365	+	808.616638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-22006.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	10.5	15.5	3.5	59.0	28.5	4.5	11.5	7.5
Merged-chr15-81813428-2	chr15	81813328	81813528	+	606.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_017376, intron 1 of 3)	intron (NM_017376, intron 1 of 3)	2014.0	NM_017376	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	5.5	1.0	0.0	30.0	8.0	6.0	5.5	8.0
Merged-chr19-10240181-3	chr19	10240037	10240237	+	908.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033481, intron 1 of 25)	intron (NM_001033481, intron 1 of 25)	611.0	NM_001033481	225908.0	Mm.329716	NM_001033481	ENSMUSG00000036098	Myrf	6030439E18|Gm1804|Gm98|Mrf	myelin regulatory factor	protein-coding	11.0	17.0	9.5	94.5	18.5	3.0	10.0	8.0
Merged-chr18-73541772-4	chr18	73541673	73541873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30932.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	33.5	50.0	31.5	449.5	62.5	18.5	32.5	22.5
Merged-chr8-69887396-2	chr8	69887296	69887496	+	814.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026818)	promoter-TSS (NM_026818)	-4.0	NM_026818	68709.0	Mm.334584	NM_026818	ENSMUSG00000044006	Cilp2	1110031K21Rik|AA407300|CLIP-2	cartilage intermediate layer protein 2	protein-coding	4.0	4.0	3.0	46.0	9.5	5.0	5.0	5.5
Merged-chr17-5796079-4	chr17	5795965	5796165	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2592.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	34.0	59.0	18.5	521.0	85.5	23.5	33.0	35.0
Merged-chr19-46899505-3	chr19	46899403	46899603	+	982.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029810, intron 5 of 17)	intron (NM_029810, intron 5 of 17)	62848.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	24.0	31.5	24.5	483.0	5.5	4.0	7.0	4.5
Merged-chr3-138522037-5	chr3	138521857	138522057	+	915.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4234.0	NM_007917	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	9.0	15.5	8.5	218.0	15.0	5.5	14.0	21.0
Merged-chr3-96905260-4	chr3	96905110	96905310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026229)	promoter-TSS (NM_026229)	88.0	NM_026229	67549.0	Mm.46722	NM_026229	ENSMUSG00000028096	Gpr89	4933412D19Rik|Gpr89a|SH120	G protein-coupled receptor 89	protein-coding	22.0	32.5	33.0	253.5	51.5	18.5	20.5	34.5
Merged-chr10-96263839-3	chr10	96263735	96263935	+	971.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37628.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	12.0	20.0	4.5	157.5	15.5	2.5	8.0	8.5
Merged-chr16-30945116-4	chr16	30944999	30945199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136333.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	56.5	64.5	40.0	533.0	70.5	26.0	29.0	22.5
Merged-chr11-118227852-4	chr11	118227750	118227950	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	-15108.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	26.5	24.0	56.0	849.0	26.0	7.5	23.5	20.5
Merged-chr3-59208931-5	chr3	59208835	59209035	+	922.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028808, exon 2 of 2)	3' UTR (NM_028808, exon 2 of 2)	1947.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	14.0	24.0	7.0	128.0	17.5	12.5	3.0	21.5
Merged-chr16-43380105-4	chr16	43379999	43380199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	40097.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	38.5	51.5	48.0	779.0	86.0	18.0	35.0	47.0
Merged-chr4-121016651-2	chr4	121016551	121016751	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	596.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	2.5	3.5	5.5	37.0	11.5	6.0	6.0	7.5
Merged-chr16-25061862-3	chr16	25061767	25061967	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040374, intron 1 of 2)	intron (NR_040374, intron 1 of 2)	2228.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	16.0	7.5	3.5	158.5	8.0	11.5	5.0	10.5
Merged-chr11-98943993-2	chr11	98943893	98944093	+	993.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177303, intron 1 of 8)	intron (NM_001177303, intron 1 of 8)	4282.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	8.0	7.5	7.0	71.5	28.0	9.0	6.0	3.5
Merged-chr3-28805381-4	chr3	28805231	28805431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026517)	promoter-TSS (NM_026517)	-177.0	NR_154889	68028.0	Mm.21724	NM_026517	ENSMUSG00000039221	Rpl22l1	3110001N18Rik|AU041196	ribosomal protein L22 like 1	protein-coding	134.0	208.5	138.5	2016.5	487.0	179.0	224.0	188.0
Merged-chr11-87074123-4	chr11	87074015	87074215	+	894.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025638)	promoter-TSS (NM_025638)	22.0	NM_025638	66569.0	Mm.281887	NM_025638	ENSMUSG00000061666	Gdpd1	2610020H15Rik	glycerophosphodiester phosphodiesterase domain containing 1	protein-coding	9.5	26.0	11.5	214.5	41.0	14.5	14.5	14.5
Merged-chr5-96923651-4	chr5	96923462	96923662	+	919.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131152, intron 2 of 2)	intron (NR_131152, intron 2 of 2)	2290.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	5.5	10.5	3.0	130.0	24.0	10.0	13.0	9.0
Merged-chr17-72961069-4	chr17	72960966	72961166	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	42761.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	15.5	39.0	17.0	435.5	39.5	13.0	19.5	15.5
Merged-chr14-56034608-4	chr14	56034508	56034708	+	939.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4113.0	NM_010782	17232.0	Mm.436621	NM_010782	ENSMUSG00000071361	Mcpt9	MMCP-1|MMCP-9|MMCP9	mast cell protease 9	protein-coding	15.0	23.0	14.0	211.5	27.0	14.5	17.5	11.0
Merged-chr6-52221780-4	chr6	52221644	52221844	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3171.0	NM_010455	15404.0	Mm.294826	NM_010455	ENSMUSG00000038236	Hoxa7	AV118143|Hox-1.1|M6	homeobox A7	protein-coding	17.0	29.0	14.5	313.0	49.5	16.0	13.0	14.0
Merged-chr1-120258982-2	chr1	120258867	120259067	+	744.875	f0_balb.idr|f1_c57bl6.idr	intron (NM_001085409, intron 2 of 5)	intron (NM_001085409, intron 2 of 5)	6313.0	NM_133186	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	11.0	12.5	12.5	182.0	4.0	1.0	3.0	2.0
Merged-chr15-58239205-3	chr15	58239059	58239259	+	806.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-24267.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	8.0	4.5	5.0	23.5	6.0	1.5	1.5	3.0
Merged-chr6-146759228-4	chr6	146759173	146759373	+	914.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172734, intron 2 of 13)	intron (NM_172734, intron 2 of 13)	34343.0	NM_172734	232533.0	Mm.322121	NM_172734	ENSMUSG00000001630	Stk38l	4930473A22Rik|Ndr2|Ndr54	serine/threonine kinase 38 like	protein-coding	2.0	11.0	16.0	119.5	54.5	9.0	37.0	22.0
Merged-chr13-56615424-4	chr13	56615293	56615493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 2 of 16)	intron (NR_155548, intron 2 of 16)	5807.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	23.0	46.0	25.5	343.5	56.0	16.0	23.5	18.5
Merged-chr19-5107082-4	chr19	5106984	5107184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029576)	promoter-TSS (NM_029576)	-88.0	NM_029576	76308.0	Mm.182563	NM_029576	ENSMUSG00000024870	Rab1b	1110011F09Rik	RAB1B, member RAS oncogene family	protein-coding	129.5	182.5	128.0	1402.0	352.0	128.5	141.0	132.0
Merged-chr6-56384427-3	chr6	56384322	56384522	+	774.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14788.0	NM_001159955	18575.0	Mm.5145	NM_011054	ENSMUSG00000004347	Pde1c	-	phosphodiesterase 1C	protein-coding	8.0	12.5	17.5	302.5	13.0	3.5	13.0	5.5
Merged-chr11-61714766-3	chr11	61714666	61714866	+	894.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033227, intron 6 of 15)	intron (NM_001033227, intron 6 of 15)	6033.0	NM_001033227	109342.0	Mm.441070	NM_001033227	ENSMUSG00000042371	Slc5a10	C330021F16Rik|SGLT5	solute carrier family 5 (sodium/glucose cotransporter), member 10	protein-coding	6.5	15.0	6.0	53.0	27.0	7.0	14.5	11.5
Merged-chr15-84212291-3	chr15	84212187	84212387	+	674.377747	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178614, intron 14 of 14)	intron (NM_178614, intron 14 of 14)	-19756.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	5.0	11.5	11.0	57.0	12.0	2.5	6.0	7.0
Merged-chr18-74393128-3	chr18	74393030	74393230	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49489.0	NM_201600	17919.0	Mm.260098	NM_008661	ENSMUSG00000025885	Myo5b	AI661750|mKIAA1119	myosin VB	protein-coding	28.5	25.0	18.0	499.0	12.0	5.5	4.0	1.5
Merged-chr18-50126296-4	chr18	50126176	50126376	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1925.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	27.0	29.5	29.0	605.5	85.5	13.0	24.5	26.0
Merged-chr8-83972818-4	chr8	83972718	83972918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008854)	promoter-TSS (NM_008854)	-160.0	NM_008854	18747.0	Mm.19111	NM_008854	ENSMUSG00000005469	Prkaca	PKCD|Pkaca	protein kinase, cAMP dependent, catalytic, alpha	protein-coding	326.0	573.0	377.5	5317.0	819.5	300.0	412.0	352.0
Merged-chr7-132656277-4	chr7	132656174	132656374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 6 of 6)	intron (NM_029609, intron 6 of 6)	45631.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	26.0	32.5	17.0	297.5	52.5	30.5	24.5	18.5
Merged-chr9-72528230-1	chr9	72528130	72528330	+	792.666687	f0_balb.idr	intron (NR_045735, intron 1 of 2)	MTC|LTR|ERVL-MaLR	3628.0	NR_045735	75115.0	Mm.280755	NR_045735	ENSMUSG00000096986	4930509E16Rik	-	RIKEN cDNA 4930509E16 gene	ncRNA	12.5	10.5	9.0	119.5	1.0	0.0	3.5	1.0
Merged-chr17-36064776-1	chr17	36064676	36064876	+	688.400024	f0_balb.idr	Intergenic	Intergenic	-6405.0	NM_001199967	100529082.0	Mm.484641	NM_001199967	ENSMUSG00000079492	Gm11127	-	predicted gene 11127	protein-coding	10.0	12.0	9.0	173.5	1.5	1.5	0.0	0.5
Merged-chr5-129594359-3	chr5	129594243	129594443	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011846, intron 1 of 9)	intron (NM_011846, intron 1 of 9)	10174.0	NM_011846	23948.0	Mm.42047	NM_011846	ENSMUSG00000029436	Mmp17	MT4-MMP|MT4MMP|MTMMP4	matrix metallopeptidase 17	protein-coding	4.0	6.5	4.5	92.5	12.5	9.0	5.5	5.5
Merged-chr3-30595573-4	chr3	30595483	30595683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	4287.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	35.0	105.5	47.0	386.0	126.0	67.0	33.5	39.5
Merged-chr2-164859836-4	chr2	164859754	164859954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-2146.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	60.5	68.0	66.5	1040.0	116.0	37.5	48.5	37.5
Merged-chr14-55736488-4	chr14	55736403	55736603	+	883.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	9181.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	14.0	9.0	11.5	283.0	18.0	10.5	14.5	31.5
Merged-chr4-147848481-4	chr4	147848425	147848625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355730)	promoter-TSS (NM_001355730)	-107.0	NM_198619	242747.0	Mm.332053	NM_198619	ENSMUSG00000059423	Zfp933	2810408P10Rik	zinc finger protein 933	protein-coding	45.0	81.0	28.0	310.5	123.5	62.0	38.0	25.5
Merged-chr9-23581181-1	chr9	23581081	23581281	+	635.25	f0_balb.idr	Intergenic	Intergenic	358105.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	10.5	12.0	7.5	111.5	30.0	7.0	7.5	4.5
Merged-chr4-134730146-4	chr4	134730064	134730264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20B|LTR|ERVK	-25874.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	44.5	67.0	75.0	922.0	100.0	29.5	60.0	54.5
Merged-chr7-80027124-4	chr7	80027097	80027297	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	CpG	969.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	18.0	18.5	31.5	160.0	38.0	8.0	12.5	20.5
Merged-chr17-26638857-4	chr17	26638764	26638964	+	959.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 8 of 9)	intron (NM_026170, intron 8 of 9)	-37532.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	17.0	21.0	11.0	308.0	38.5	17.0	14.5	24.0
Merged-chr9-64172907-4	chr9	64172774	64172974	+	951.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026507)	promoter-TSS (NM_026507)	57.0	NM_026507	68014.0	Mm.335237	NM_026507	ENSMUSG00000032400	Zwilch	2310031L18Rik	zwilch kinetochore protein	protein-coding	12.0	27.0	16.0	107.5	58.5	21.5	12.5	24.0
Merged-chr13-41596544-3	chr13	41596428	41596628	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9688.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	8.5	7.5	16.5	265.0	34.5	7.5	17.5	14.5
Merged-chr7-35750953-5	chr7	35750783	35750983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 2 of 18)	intron (NM_178704, intron 2 of 18)	3571.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	15.5	24.0	22.5	261.5	26.5	8.5	13.0	14.5
Merged-chr6-145275972-2	chr6	145275867	145276067	+	869.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25415.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	6.0	15.5	8.0	61.0	37.0	4.5	9.5	7.0
Merged-chr1-180417336-4	chr1	180417235	180417435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081175, intron 4 of 7)	intron (NM_001081175, intron 4 of 7)	66169.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	94.5	110.5	76.0	1550.5	204.0	81.5	104.5	86.5
Merged-chr8-84872845-2	chr8	84872743	84872943	+	639.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_031759, intron 2 of 3)	CpG	585.0	NM_001168244	71846.0	Mm.229128	NM_027954	ENSMUSG00000003824	Syce2	1700013H19Rik|AA407907|Cesc1	synaptonemal complex central element protein 2	protein-coding	6.5	6.0	10.0	59.0	16.5	7.5	3.0	5.5
Merged-chr3-136795017-4	chr3	136794885	136795085	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	124919.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	11.5	15.5	12.5	227.0	34.5	8.5	13.0	7.0
Merged-chr9-44175998-5	chr9	44175872	44176072	+	696.633301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	intron (NM_007619, intron 2 of 15)	41314.0	NM_001359530	84004.0	Mm.275003	NM_023061	ENSMUSG00000032135	Mcam	1-gicerin|AV025631|CD146|CD149|Muc18|s-endo|s-gicerin	melanoma cell adhesion molecule	protein-coding	8.5	7.0	9.0	99.5	7.5	4.0	7.0	1.5
Merged-chr11-28188346-4	chr11	28188238	28188438	+	951.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	395986.0	NM_001166661	216613.0	Mm.93759	NM_181577	ENSMUSG00000032878	Ccdc85a	-	coiled-coil domain containing 85A	protein-coding	17.5	27.0	18.0	332.5	33.5	11.5	12.5	18.5
Merged-chr5-137817657-4	chr5	137817550	137817750	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360023, intron 13 of 16)	intron (NM_001360023, intron 13 of 16)	18628.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	19.0	33.5	16.5	215.5	45.0	18.0	21.0	22.0
Merged-chr4-47352425-2	chr4	47352325	47352525	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009370)	promoter-TSS (NM_009370)	-797.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	4.0	4.0	11.0	68.5	20.5	7.5	7.5	5.0
Merged-chr7-127841639-4	chr7	127841553	127841753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009294)	promoter-TSS (NM_009294)	-155.0	NM_009294	20909.0	Mm.24867	NM_009294	ENSMUSG00000030805	Stx4a	Stx4|Syn-4|Syn4	syntaxin 4A (placental)	protein-coding	106.5	242.0	179.0	2094.0	417.5	155.0	247.0	182.5
Merged-chr15-76230970-3	chr15	76230868	76231068	+	860.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163542, intron 1 of 33)	intron (NM_001163542, intron 1 of 33)	410.0	NM_001163542	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	3.0	17.0	3.5	74.0	13.5	4.5	7.0	9.0
Merged-chr10-82860760-4	chr10	82860632	82860832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042513, intron 2 of 14)	intron (NM_001042513, intron 2 of 14)	391.0	NM_001042514	50493.0	Mm.210155	NM_015762	ENSMUSG00000020250	Txnrd1	TR|TR1|TrxR1	thioredoxin reductase 1	protein-coding	161.5	341.0	256.0	2909.0	541.0	216.5	282.0	197.5
Merged-chr19-10184361-3	chr19	10184212	10184412	+	891.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146094, intron 1 of 11)	intron (NM_146094, intron 1 of 11)	1424.0	NM_146094	76267.0	Mm.30158	NM_146094	ENSMUSG00000010663	Fads1	0710001O03Rik|A930006B21Rik|AI317215|DSD	fatty acid desaturase 1	protein-coding	5.0	12.0	10.5	95.0	4.0	2.0	1.0	2.0
Merged-chr9-50540360-3	chr9	50540246	50540446	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359610, intron 6 of 10)	intron (NM_001359610, intron 6 of 10)	-11705.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	11.0	6.0	11.5	132.0	14.0	6.5	10.5	1.0
Merged-chr6-148989693-4	chr6	148989603	148989803	+	938.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177192, exon 21 of 21)	3' UTR (NM_177192, exon 21 of 21)	-43233.0	NM_001361398	56306.0	Mm.18637	NM_019643	ENSMUSG00000039985	Fam60a	Ppcs1|Pptcs1|Sinhcaf|Tera	family with sequence similarity 60, member A	protein-coding	24.0	11.5	13.5	379.0	58.5	29.0	31.5	24.0
Merged-chr10-40476734-4	chr10	40476630	40476830	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198164, intron 9 of 11)	intron (NM_198164, intron 9 of 11)	-93632.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	13.0	10.0	29.0	332.5	32.5	7.0	13.5	15.5
Merged-chr14-25483462-4	chr14	25483369	25483569	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	24284.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	15.0	20.0	11.0	232.5	31.0	1.5	12.0	8.5
Merged-chr10-127620357-6	chr10	127620296	127620496	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 1 of 88)	intron (NM_008512, intron 1 of 88)	752.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	15.0	12.0	25.0	237.0	13.0	15.0	23.5	13.0
Merged-chr18-3888796-3	chr18	3888696	3888896	+	697.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_A|LINE|L1	-277036.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	6.0	20.5	11.0	15.0	28.0	17.5	18.0	14.0
Merged-chr2-181581180-4	chr2	181581099	181581299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001164597)	TTS (NM_001164597)	774.0	NM_026765	68556.0	Mm.232400	NM_026765	ENSMUSG00000089917	Uckl1	1110007H10Rik|Urkl1	uridine-cytidine kinase 1-like 1	protein-coding	56.0	99.0	38.5	973.5	169.0	78.5	60.0	88.5
Merged-chr8-123065028-2	chr8	123064928	123065128	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153176)	promoter-TSS (NM_153176)	-480.0	NM_153176	234847.0	Mm.292075	NM_153176	ENSMUSG00000000738	Spg7	AI452278|AU015315|Cmar|PGN	SPG7, paraplegin matrix AAA peptidase subunit	protein-coding	4.5	9.5	5.0	69.0	14.5	4.0	6.5	4.5
Merged-chr19-5088423-4	chr19	5088316	5088516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026553)	promoter-TSS (NM_026553)	-122.0	NM_026553	68090.0	Mm.44202	NM_026553	ENSMUSG00000024875	Yif1a	5330422J23Rik|54TM|Yif1|Yif1p	Yip1 interacting factor homolog A (S. cerevisiae)	protein-coding	179.0	284.5	164.5	2218.0	429.0	168.0	133.5	168.5
Merged-chr2-157458634-4	chr2	157458538	157458738	+	894.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 5 of 13)	intron (NM_001025395, intron 5 of 13)	34345.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	11.0	23.0	10.0	130.5	24.0	18.5	13.5	14.5
Merged-chr11-100816316-4	chr11	100816217	100816417	+	729.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 1 of 18)	intron (NM_001113563, intron 1 of 18)	6253.0	NM_011489	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	10.5	9.0	6.0	150.0	23.5	9.0	14.5	10.0
Merged-chr10-121484340-3	chr10	121484233	121484433	+	928.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-8083.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	8.5	6.5	4.0	139.0	17.5	4.5	7.0	11.0
Merged-chr16-20325517-3	chr16	20325435	20325635	+	982.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183158)	promoter-TSS (NM_183158)	-131.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	20.5	13.0	18.5	225.5	9.5	1.5	10.5	3.0
Merged-chr4-21879823-4	chr4	21879723	21879923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356348)	promoter-TSS (NM_001356348)	-30.0	NM_001356348	230027.0	Mm.5662	NM_172687	ENSMUSG00000028247	Coq3	4732433J24|C77934	coenzyme Q3 methyltransferase	protein-coding	46.0	38.5	37.5	665.0	92.0	31.0	50.5	43.5
Merged-chr12-8865053-4	chr12	8864965	8865165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-56242.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	55.5	84.5	72.5	672.5	77.5	33.5	37.5	32.5
Merged-chr18-62188939-4	chr18	62188812	62189012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8812.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	52.0	79.0	30.5	658.0	98.5	61.0	66.0	60.0
Merged-chr1-186204377-3	chr1	186204275	186204475	+	798.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87065.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	9.0	9.5	11.0	384.0	2.5	0.0	1.0	3.0
Merged-chr16-16473553-3	chr16	16473467	16473667	+	756.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 7 of 16)	RLTR10D2|LTR|ERVK	53844.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	9.5	14.0	12.0	114.0	12.0	6.5	10.5	7.0
Merged-chr2-128573362-3	chr2	128573266	128573466	+	749.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18975.0	NM_001310641	241634.0	Mm.297682	NM_001310641	ENSMUSG00000074812	Spdye4c	Gm355|SpeedyB3|SpyB3	speedy/RINGO cell cycle regulator family, member E4C	protein-coding	3.0	9.5	18.5	59.5	13.5	7.0	8.0	10.0
Merged-chr9-22468323-4	chr9	22468221	22468421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018739)	promoter-TSS (NM_018739)	35.0	NM_018739	55934.0	Mm.38235	NM_018739	ENSMUSG00000032239	Rp9	PAP-1|Rp9h	retinitis pigmentosa 9 (human)	protein-coding	47.5	88.5	68.5	857.5	130.5	48.0	70.0	50.5
Merged-chr19-16015354-4	chr19	16015235	16015435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	30260.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	29.0	21.5	26.0	324.0	71.0	25.0	41.5	34.5
Merged-chr1-87112043-4	chr1	87111926	87112126	+	957.710693	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10420.0	NM_001081082	76768.0	Mm.58068	NM_001081082	ENSMUSG00000079440	Alpi	2010001C14Rik|Akp6|gIAP	alkaline phosphatase, intestinal	protein-coding	19.0	12.0	13.0	272.0	13.5	10.0	12.0	9.5
Merged-chr11-106742437-4	chr11	106742354	106742554	+	908.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8772.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	18.5	17.5	14.5	61.5	53.5	11.0	16.5	9.5
Merged-chr8-70646107-4	chr8	70646073	70646273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023217)	TTS (NM_023217)	13565.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	50.0	78.5	69.5	825.5	280.5	91.0	104.5	108.5
Merged-chr10-115816760-4	chr10	115816664	115816864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146010)	promoter-TSS (NM_146010)	-520.0	NM_001168680	216350.0	Mm.22270	NM_146010	ENSMUSG00000034127	Tspan8	C76990|E330007O21Rik|Tm4sf3	tetraspanin 8	protein-coding	40.0	56.0	37.5	589.0	51.5	31.5	28.0	22.0
Merged-chr18-20741047-4	chr18	20740952	20741152	+	969.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	intron (NM_019737, intron 1 of 8)	5352.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	26.0	25.5	36.0	532.5	30.0	11.0	17.5	17.5
Merged-chr7-145264404-3	chr7	145264336	145264536	+	945.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132643, intron 13 of 22)	LTR41B|LTR|ERVL	19575.0	NR_132644	233979.0	Mm.102235	NM_146206	ENSMUSG00000048677	Tpcn2	D830047E22Rik|Gm35086	two pore segment channel 2	protein-coding	10.5	17.5	13.0	281.0	12.5	1.5	8.0	7.5
Merged-chr2-59889442-4	chr2	59889346	59889546	+	790.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-6840.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	8.5	5.5	21.0	155.5	30.0	5.5	12.5	20.5
Merged-chr5-99247702-8	chr5	99247566	99247766	+	977.7589109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	intron (NM_181318, intron 1 of 13)	5261.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	15.5	19.0	23.0	318.0	57.5	9.0	20.0	15.5
Merged-chr11-79523757-4	chr11	79523657	79523857	+	931.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077496)	promoter-TSS (NM_001077496)	5.0	NM_001077496	216984.0	Mm.439665	NM_001077496	ENSMUSG00000093938	Evi2b	Evi-2|Evi2	ecotropic viral integration site 2b	protein-coding	22.0	18.5	8.0	272.0	58.0	13.0	13.0	20.5
Merged-chr8-94373023-1	chr8	94372923	94373123	+	708.0	f0_balb.idr	Intergenic	RLTR33|LTR|ERVK	-13406.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	13.5	11.0	16.0	34.5	14.5	8.0	9.0	3.0
Merged-chr2-147012867-4	chr2	147012752	147012952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011917)	promoter-TSS (NM_011917)	-147.0	NM_001356403	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	67.5	101.5	96.0	924.0	176.0	67.0	73.0	87.5
Merged-chr10-128535994-4	chr10	128535881	128536081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10122.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	51.5	96.0	87.0	1484.0	200.0	51.5	71.0	85.5
Merged-chr17-17867235-4	chr17	17867121	17867321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12033.0	NM_008215	15116.0	Mm.255701	NM_008215	ENSMUSG00000003665	Has1	HAS	hyaluronan synthase 1	protein-coding	117.0	171.5	122.0	1987.0	284.5	102.5	166.0	90.5
Merged-chr19-8953752-4	chr19	8953649	8953849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197993)	promoter-TSS (NM_197993)	-83.0	NM_197993	70044.0	Mm.165979	NM_197993	ENSMUSG00000071645	Tut1	2700038E08Rik|PAPD2|Rbm21|TUTase6|U6-TUTase|star-PAP	terminal uridylyl transferase 1, U6 snRNA-specific	protein-coding	94.5	156.5	114.0	1218.0	302.5	126.0	113.5	103.0
Merged-chr2-132180576-4	chr2	132180476	132180676	+	918.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35256.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	12.0	43.0	21.5	332.5	25.0	10.0	23.0	33.5
Merged-chr2-118727029-4	chr2	118726971	118727171	+	837.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177568, intron 1 of 31)	intron (NM_177568, intron 1 of 31)	1367.0	NM_177568	18796.0	Mm.215156	NM_177568	ENSMUSG00000040061	Plcb2	AI550384|B230205M18Rik|B230399N12	phospholipase C, beta 2	protein-coding	7.5	9.0	11.0	170.5	28.0	8.5	10.0	7.5
Merged-chr14-75011189-4	chr14	75011084	75011284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 3 of 3)	intron (NR_030568, intron 3 of 3)	-4843.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	56.0	64.0	63.5	862.0	102.0	42.5	59.0	33.0
Merged-chr4-151996622-1	chr4	151996522	151996722	+	1000.0	f0_c57.idr	promoter-TSS (NM_172705)	promoter-TSS (NM_172705)	-443.0	NM_172705	230936.0	Mm.25582	NM_172705	ENSMUSG00000047777	Phf13	BC029632|Phf5|SPOC1	PHD finger protein 13	protein-coding	158.0	180.0	137.0	1597.5	315.5	133.5	146.0	181.5
Merged-chr10-53914187-4	chr10	53914075	53914275	+	931.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 11 of 12)	intron (NM_008548, intron 11 of 12)	161621.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	19.0	17.5	15.5	257.5	25.5	13.5	6.5	22.0
Merged-chr13-113949953-4	chr13	113949815	113950015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 3 of 4)	intron (NM_172595, intron 3 of 4)	155407.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	82.0	94.0	194.5	3836.5	448.5	57.5	256.5	158.5
Merged-chr4-149309464-4	chr4	149309365	149309565	+	851.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGA)n|Simple_repeat|Simple_repeat	-1732.0	NM_001290995	16561.0	Mm.402393	NM_008441	ENSMUSG00000063077	Kif1b	A530096N05Rik|AI448212|AI506502|D4Mil1e|KIF1Bp130|KIF1Bp204	kinesin family member 1B	protein-coding	18.0	8.0	10.0	253.0	39.5	9.5	14.0	9.5
Merged-chr9-107340524-4	chr9	107340404	107340604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175486)	promoter-TSS (NM_175486)	-136.0	NM_175486	235599.0	Mm.71039	NM_175486	ENSMUSG00000037977	6430571L13Rik	-	RIKEN cDNA 6430571L13 gene	protein-coding	66.5	85.5	67.0	751.5	219.0	69.5	104.0	66.5
Merged-chr12-18610061-4	chr12	18609955	18610155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	95545.0	NM_001201330	236366.0	Mm.352227	NM_001033157	ENSMUSG00000073197	5730507C01Rik	-	RIKEN cDNA 5730507C01 gene	protein-coding	66.5	85.0	82.5	1249.0	268.5	62.0	150.5	84.5
Merged-chr13-81055749-3	chr13	81055641	81055841	+	935.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	Lx7|LINE|L1	91667.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	7.0	8.5	13.0	216.0	9.0	1.5	8.5	8.0
Merged-chr6-131022417-1	chr6	131022317	131022517	+	556.0	f0_balb.idr	Intergenic	Intergenic	224945.0	NM_001170851	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	6.5	12.0	14.0	71.5	9.5	0.5	1.0	6.0
Merged-chr6-35536273-4	chr6	35536176	35536376	+	765.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008098, intron 1 of 3)	intron (NM_008098, intron 1 of 3)	3612.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	7.0	19.0	10.5	210.0	21.0	10.0	6.0	10.5
Merged-chr10-12869414-4	chr10	12869300	12869500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7665.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	62.5	95.5	107.0	1303.0	107.5	66.0	45.0	76.5
Merged-chr9-118674502-4	chr9	118674455	118674655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 11 of 27)	intron (NM_133721, intron 11 of 27)	-37137.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	138.5	188.5	194.0	1835.0	534.5	180.5	305.0	239.0
Merged-chr16-5049974-4	chr16	5049869	5050069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356320)	promoter-TSS (NM_001356320)	-59.0	NM_028720	74022.0	Mm.21652	NM_028720	ENSMUSG00000022536	Glyr1	2810419J22Rik|3930401K13Rik|AW545332|Npac	glyoxylate reductase 1 homolog (Arabidopsis)	protein-coding	241.5	353.5	192.5	2766.0	552.5	232.0	256.0	227.0
Merged-chr3-95293806-4	chr3	95293714	95293914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133858, intron 7 of 9)	intron (NM_133858, intron 7 of 9)	10879.0	NM_199475	75007.0	Mm.279287	NM_133858	ENSMUSG00000038712	Mindy1	1810005H09Rik|4930504E06Rik|AA562754|AA960384|AW561904|Fam63a|cI-40|mKIAA1390|ni	MINDY lysine 48 deubiquitinase 1	protein-coding	208.0	234.5	194.0	3400.5	306.5	111.5	169.5	183.0
Merged-chr10-43706222-2	chr10	43706147	43706347	+	581.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39911.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	7.0	7.5	10.0	60.0	13.5	3.0	8.5	6.5
Merged-chr12-32343684-3	chr12	32343595	32343795	+	921.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-35094.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	9.0	12.5	5.5	59.5	33.0	12.0	9.0	6.5
Merged-chr8-23237791-4	chr8	23237695	23237895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024240)	promoter-TSS (NM_024240)	-127.0	NM_024240	109145.0	Mm.27945	NM_024240	ENSMUSG00000031546	Gins4	2810037C03Rik|4933405K01Rik|Sld5	GINS complex subunit 4 (Sld5 homolog)	protein-coding	322.0	465.0	379.0	5851.0	679.5	288.0	396.5	236.0
Merged-chr16-91073696-4	chr16	91073594	91073794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4549.0	NM_028905	74387.0	Mm.236220	NM_028905	ENSMUSG00000039851	4932438H23Rik	4931406G06Rik|AI550392	RIKEN cDNA 4932438H23 gene	protein-coding	40.0	60.0	28.5	603.0	105.0	21.0	64.5	53.0
Merged-chr5-92137824-4	chr5	92137722	92137922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019490)	promoter-TSS (NM_019490)	-97.0	NM_001359195	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	275.0	391.0	296.0	4507.0	623.0	252.5	295.5	198.0
Merged-chr15-77798152-4	chr15	77798032	77798232	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	-41122.0	NM_001357895	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	29.5	29.0	28.5	352.5	76.5	14.0	16.0	31.5
Merged-chr6-88075259-4	chr6	88075169	88075369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9204.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	127.5	212.0	107.0	2009.0	278.5	108.0	146.0	143.5
Merged-chr7-99381414-4	chr7	99381347	99381547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362166)	promoter-TSS (NM_001362166)	-71.0	NM_001362168	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	204.5	293.0	182.0	2055.5	515.0	173.5	188.5	178.5
Merged-chr6-140815919-4	chr6	140815820	140816020	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	189035.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	7.0	11.0	12.5	157.5	45.0	11.5	18.0	13.5
Merged-chr14-103375750-3	chr14	103375643	103375843	+	701.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-28943.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	9.0	7.0	7.5	159.0	20.0	1.0	11.5	7.5
Merged-chr13-49169977-3	chr13	49169882	49170082	+	991.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17565.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	13.5	5.5	2.5	105.0	44.5	5.0	17.5	21.5
Merged-chr1-171326816-3	chr1	171326703	171326903	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2005.0	NM_001357550	21945.0	Mm.270139	NM_011615	ENSMUSG00000013973	Dedd	CASP8IP1|DEFT|Dedpro1|FLDED1|KE05	death effector domain-containing	protein-coding	0.0	0.0	0.0	4.0	79.0	22.0	47.0	37.0
Merged-chr2-32424149-4	chr2	32424039	32424239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290558)	promoter-TSS (NM_001290558)	-73.0	NM_001290558	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	49.0	70.0	35.0	728.5	130.0	43.0	74.0	49.5
Merged-chr2-34800620-4	chr2	34800534	34800734	+	944.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145522)	promoter-TSS (NM_145522)	-722.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	22.5	35.5	9.0	232.0	47.0	17.5	13.5	24.0
Merged-chr10-127120648-2	chr10	127120548	127120748	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177614, intron 1 of 13)	intron (NM_177614, intron 1 of 13)	512.0	NM_177614	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	8.5	4.5	4.5	41.5	11.0	6.5	4.0	14.5
Merged-chr10-121474789-2	chr10	121474689	121474889	+	562.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	1461.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	7.5	10.5	6.5	79.0	7.0	3.0	3.5	1.5
Merged-chr11-116142795-4	chr11	116142710	116142910	+	832.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172571, exon 31 of 31)	3' UTR (NM_172571, exon 31 of 31)	-3942.0	NM_024177	60441.0	Mm.29974	NM_024177	ENSMUSG00000020775	Mrpl38	1110036N21Rik|4733401F03Rik|MRP-L3|R75240|Rpml3	mitochondrial ribosomal protein L38	protein-coding	15.0	18.5	4.5	146.0	14.0	7.5	10.5	6.5
Merged-chr12-85964683-4	chr12	85964594	85964794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	114347.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	100.5	109.5	115.0	1702.0	100.5	52.5	68.5	69.0
Merged-chr13-44272012-1	chr13	44271912	44272112	+	631.0	f0_balb.idr	Intergenic	RMER5|LTR|ERV1	-55525.0	NR_045088	100503592.0	Mm.184925	NR_045088	ENSMUSG00000113186	A330076C08Rik	-	RIKEN cDNA A330076C08 gene	ncRNA	4.5	9.5	5.5	6.5	0.5	0.5	0.0	1.0
Merged-chr6-116674410-1	chr6	116674310	116674510	+	1000.0	f0_c57.idr	promoter-TSS (NM_178045)	promoter-TSS (NM_178045)	-574.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	14.0	26.0	24.0	222.5	39.5	18.5	33.5	24.5
Merged-chr2-163932368-3	chr2	163932260	163932460	+	995.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13677.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	23.5	20.0	34.5	590.0	14.0	5.5	11.5	4.5
Merged-chr11-107511039-4	chr11	107510947	107511147	+	792.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31519.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	10.0	15.0	13.0	147.0	22.0	6.5	10.5	13.0
Merged-chr8-71296481-4	chr8	71296337	71296537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	intron (NM_001142322, intron 2 of 39)	23723.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	86.5	112.0	63.0	1035.0	119.0	57.5	62.5	54.0
Merged-chr13-42246035-6	chr13	42245932	42246132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55444.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	13.0	28.5	26.0	326.5	46.5	30.5	18.0	23.0
Merged-chr7-42490584-2	chr7	42490484	42490684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001309388, intron 2 of 6)	intron (NM_001309388, intron 2 of 6)	15169.0	NM_001309389	434178.0	Mm.333810	NM_001309388	ENSMUSG00000092416	Zfp141	-	zinc finger protein 141	protein-coding	7.0	8.5	10.0	311.5	12.5	0.0	11.5	19.0
Merged-chr1-72641192-1	chr1	72641092	72641292	+	621.0	f0_c57.idr	Intergenic	CpG	57941.0	NM_018817	54380.0	Mm.274232	NM_018817	ENSMUSG00000039354	Smarcal1	6030401P21Rik|AI851716|Mharp	SWI/SNF related matrix associated, actin dependent regulator of chromatin, subfamily a-like 1	protein-coding	1.0	4.5	8.0	33.0	23.5	5.5	8.5	9.0
Merged-chr7-145110842-4	chr7	145110749	145110949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97270.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	147.5	226.0	127.0	2086.0	347.0	139.5	162.0	104.0
Merged-chr6-125271694-4	chr6	125271609	125271809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015527, intron 3 of 3)	intron (NR_015527, intron 3 of 3)	6184.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	141.5	236.0	120.0	2141.5	338.0	100.0	160.5	147.5
Merged-chr4-41275466-4	chr4	41275358	41275558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026872)	promoter-TSS (NM_026872)	-323.0	NM_026872	68926.0	Mm.41864	NM_026872	ENSMUSG00000028433	Ubap2	1190005K07Rik|AA408600|AU045235|UBAP-2|mKIAA1491	ubiquitin-associated protein 2	protein-coding	106.0	119.5	43.5	1086.5	219.5	82.0	95.5	79.0
Merged-chr16-36709675-4	chr16	36709583	36709783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 3 of 7)	intron (NM_001285788, intron 3 of 7)	15705.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	101.5	186.5	119.5	1226.5	263.0	124.5	120.5	92.0
Merged-chr3-108401902-4	chr3	108401782	108401982	+	974.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004177, intron 9 of 33)	intron (NM_001004177, intron 9 of 33)	13612.0	NM_017392	53883.0	Mm.39728	NM_017392	ENSMUSG00000068740	Celsr2	Adgrc2|EGFL2|Flamingo1|flamingo|mKIAA0279|mfmi1	cadherin, EGF LAG seven-pass G-type receptor 2	protein-coding	16.5	21.0	15.0	264.5	31.5	12.5	16.0	14.5
Merged-chr7-30280469-4	chr7	30280386	30280586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146186)	promoter-TSS (NM_146186)	-65.0	NM_146186	233064.0	Mm.271677	NM_146186	ENSMUSG00000037020	Wdr62	2310038K02Rik|b2b1508Clo	WD repeat domain 62	protein-coding	95.5	189.5	76.5	872.0	304.5	95.0	133.5	110.0
Merged-chr12-100006040-4	chr12	100005937	100006137	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	Charlie2b|DNA|hAT-Charlie	41538.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	19.0	17.5	23.0	183.5	45.0	13.5	16.0	14.5
Merged-chr4-151996313-4	chr4	151996214	151996414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172705)	promoter-TSS (NM_172705)	-135.0	NM_172705	230936.0	Mm.25582	NM_172705	ENSMUSG00000047777	Phf13	BC029632|Phf5|SPOC1	PHD finger protein 13	protein-coding	226.0	386.5	188.0	3285.0	578.0	238.5	307.5	243.0
Merged-chr15-25831517-4	chr15	25831408	25831608	+	894.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11790.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	18.0	11.0	22.5	233.0	21.0	14.0	10.5	5.0
Merged-chr6-124818073-4	chr6	124817988	124818188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326594, intron 15 of 19)	intron (NM_001326594, intron 15 of 19)	-3792.0	NM_009415	21991.0	Mm.4222	NM_009415	ENSMUSG00000023456	Tpi1	AI255506|TIM|Tpi|Tpi-1	triosephosphate isomerase 1	protein-coding	45.5	39.5	50.5	749.0	74.5	25.5	48.0	43.0
Merged-chr1-168362658-4	chr1	168362568	168362768	+	819.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183355, intron 2 of 8)	intron (NM_183355, intron 2 of 8)	69501.0	NM_001291509	18514.0	Mm.43358	NM_008783	ENSMUSG00000052534	Pbx1	2310056B04Rik|D230003C07Rik|Pbx-1	pre B cell leukemia homeobox 1	protein-coding	9.5	17.0	12.5	110.0	19.5	9.5	9.5	6.0
Merged-chr14-48189519-2	chr14	48189410	48189610	+	729.166626	f0_balb.idr|f1_balb.idr	intron (NM_033602, intron 2 of 5)	intron (NM_033602, intron 2 of 5)	-9206.0	NR_003630	624367.0	Mm.445185	NM_001037921	ENSMUSG00000021846	Gm6498	EG624367	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	9.0	22.5	5.5	250.0	8.0	0.0	7.0	2.0
Merged-chr3-54724154-8	chr3	54724060	54724260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358017, intron 22 of 24)	intron (NM_001358017, intron 22 of 24)	11204.0	NM_027148	69639.0	Mm.29253	NM_027148	ENSMUSG00000027752	Exosc8	2310032N20Rik|CIP3|mKIAA4013	exosome component 8	protein-coding	27.0	18.0	18.5	332.0	37.0	17.5	13.5	20.5
Merged-chr3-107094235-1	chr3	107094135	107094335	+	608.5	f0_balb.idr	Intergenic	Intergenic	-7332.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	7.5	11.0	6.0	65.0	26.5	6.5	5.5	8.5
Merged-chr7-19823632-4	chr7	19823536	19823736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033601)	promoter-TSS (NM_033601)	-881.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	59.5	73.5	70.0	1152.0	127.0	49.0	68.0	53.0
Merged-chr17-53566911-4	chr17	53566811	53567011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020005)	promoter-TSS (NM_020005)	-60.0	NM_020005	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	117.5	152.0	137.0	1930.5	256.0	95.5	90.5	96.5
Merged-chr17-47600664-2	chr17	47600564	47600764	+	823.833374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081636)	TTS (NM_001081636)	7197.0	NM_007632	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	5.0	5.0	5.0	30.0	9.5	2.0	4.0	2.5
Merged-chr2-167906968-4	chr2	167906859	167907059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-25368.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	28.0	50.0	35.5	287.5	84.5	31.5	33.0	32.5
Merged-chr4-139252159-4	chr4	139252058	139252258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 2 of 9)	intron (NM_001037761, intron 2 of 9)	58047.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	25.5	37.5	17.0	340.0	90.5	15.0	22.0	30.5
Merged-chr3-102995690-4	chr3	102995552	102995752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025679)	promoter-TSS (NM_025679)	-88.0	NM_025679	66641.0	Mm.33937	NM_025679	ENSMUSG00000027854	Sike1	2810005O12Rik|5730470L24Rik|AI450236|AI839862|Sike|Sikeb	suppressor of IKBKE 1	protein-coding	83.5	110.5	78.5	1641.0	172.5	88.5	104.5	86.0
Merged-chr9-119323749-4	chr9	119323556	119323756	+	892.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1229.0	NM_133985	108737.0	Mm.293565	NM_133985	ENSMUSG00000036737	Oxsr1	2210022N24Rik|2810422B09Rik|AI462649|AW209236|Osr1|mKIAA1101	oxidative-stress responsive 1	protein-coding	8.5	13.0	4.0	57.5	23.0	10.5	9.5	13.0
Merged-chr7-90475383-2	chr7	90475283	90475483	+	735.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026734, intron 1 of 4)	intron (NM_026734, intron 1 of 4)	612.0	NM_026734	68472.0	Mm.289791	NM_026734	ENSMUSG00000030614	Tmem126b	1110001A23Rik	transmembrane protein 126B	protein-coding	6.0	6.0	3.0	143.5	17.0	7.0	6.0	6.5
Merged-chr19-34519415-4	chr19	34519313	34519513	+	926.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	8061.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	20.0	8.0	15.5	257.0	32.5	6.0	16.0	11.5
Merged-chr4-9073972-4	chr4	9073858	9074058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-195335.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	17.0	37.5	46.5	573.0	57.0	31.0	44.0	35.0
Merged-chr16-3718171-4	chr16	3718062	3718262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161790)	promoter-TSS (NM_001161790)	-38.0	NM_001161791	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	21.5	68.5	34.5	530.5	130.0	55.0	55.5	29.5
Merged-chr9-75414484-3	chr9	75414393	75414593	+	959.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040719, intron 3 of 3)	intron (NR_040719, intron 3 of 3)	4309.0	NR_040719	71274.0	Mm.399152	NR_040719	ENSMUSG00000097021	4933433G15Rik	4921522K19Rik	RIKEN cDNA 4933433G15 gene	ncRNA	1.5	6.0	0.0	0.5	74.5	19.0	21.0	21.0
Merged-chr11-63091215-4	chr11	63091113	63091313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027660, intron 7 of 7)	intron (NM_027660, intron 7 of 7)	29554.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	30.5	28.5	38.0	559.0	90.5	19.5	46.0	36.5
Merged-chr17-5422068-3	chr17	5422001	5422201	+	589.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027457, intron 3 of 3)	intron (NM_027457, intron 3 of 3)	-3334.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	4.0	7.5	2.5	41.5	11.0	4.5	10.5	6.5
Merged-chr12-75308098-2	chr12	75307998	75308198	+	552.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023275)	promoter-TSS (NM_023275)	-215.0	NM_023275	80837.0	Mm.27467	NM_023275	ENSMUSG00000046768	Rhoj	1110005O19Rik|AW210585|Arhj|TC10L|TCL	ras homolog family member J	protein-coding	5.5	8.5	6.5	63.5	1.5	6.0	1.5	4.0
Merged-chr10-39456477-3	chr10	39456388	39456588	+	770.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 3 of 13)	intron (NM_001122893, intron 3 of 13)	86689.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	8.5	5.5	8.0	187.0	16.0	0.5	9.5	2.5
Merged-chr11-69095113-4	chr11	69094989	69095189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3860.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	367.5	518.5	374.5	4177.5	810.0	363.5	317.5	310.5
Merged-chr11-79527508-4	chr11	79527398	79527598	+	979.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033711, exon 2 of 2)	exon (NM_001033711, exon 2 of 2)	3111.0	NM_146023	101488212.0	Mm.439665	NM_146023	ENSMUSG00000070354	Evi2	Evi2a-evi2b|Gm21975	ecotropic viral integration site 2	protein-coding	13.0	25.0	6.5	242.5	34.5	10.5	20.5	18.0
Merged-chr12-103144346-2	chr12	103144246	103144446	+	653.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081017, intron 38 of 48)	intron (NM_001081017, intron 38 of 48)	97800.0	NM_133364	170952.0	Mm.217019	NM_133364	ENSMUSG00000041669	Prima1	B230212M13Rik|BB120497|PRiMA	proline rich membrane anchor 1	protein-coding	1.0	4.5	4.0	38.0	6.5	4.5	9.0	5.0
Merged-chr8-84257284-4	chr8	84257208	84257408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026423)	promoter-TSS (NM_026423)	16.0	NM_026423	67873.0	Mm.278085	NM_026423	ENSMUSG00000004996	Mri1	2410018C20Rik	methylthioribose-1-phosphate isomerase 1	protein-coding	32.5	58.5	14.0	522.5	113.0	62.0	56.0	47.5
Merged-chr6-48410114-4	chr6	48410002	48410202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362145, intron 9 of 15)	intron (NM_001362145, intron 9 of 15)	14516.0	NM_001362144	77827.0	Mm.107646	NM_133922	ENSMUSG00000042810	Krba1	A930040G15Rik|AI448780	KRAB-A domain containing 1	protein-coding	86.5	101.0	124.5	1939.0	167.0	61.0	117.0	99.5
Merged-chr7-96151493-2	chr7	96151395	96151595	+	581.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-19749.0	NM_001310762	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	5.0	4.5	7.5	99.5	2.0	3.0	2.0	6.5
Merged-chr8-104655160-3	chr8	104655054	104655254	+	942.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13426.0	NM_026753	68523.0	Mm.279	NM_026753	ENSMUSG00000031879	Fam96b	1110019N10Rik	family with sequence similarity 96, member B	protein-coding	14.5	13.0	4.5	160.0	12.0	4.5	11.5	7.5
Merged-chr10-120113025-4	chr10	120112915	120113115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080446)	promoter-TSS (NM_080446)	-50.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	211.0	269.5	222.5	3744.5	512.0	200.5	304.0	182.0
Merged-chr11-23416725-3	chr11	23416627	23416827	+	950.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190401, intron 35 of 79)	L1MC4|LINE|L1	81312.0	NM_001290655	268390.0	Mm.13148	NM_172391	ENSMUSG00000020288	Ahsa2	-	AHA1, activator of heat shock protein ATPase 2	protein-coding	5.5	18.0	9.0	161.0	17.0	7.5	4.0	6.0
Merged-chr17-42857706-4	chr17	42857644	42857844	+	838.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009847, intron 1 of 17)	intron (NM_009847, intron 1 of 17)	18680.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	10.0	7.0	3.0	83.5	39.0	13.5	10.5	15.0
Merged-chr12-55572352-4	chr12	55572250	55572450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7145.0	NM_001277340	79459.0	Mm.392781	NM_001277340	ENSMUSG00000063129	Aldoart2	4933425L11Rik|Aldo1-ps1|Aldoa-ps1	aldolase 1 A, retrogene 2	protein-coding	34.0	63.5	44.0	788.0	118.5	34.5	33.0	38.0
Merged-chr11-97641962-3	chr11	97641891	97642091	+	602.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-12275.0	NM_175332	103551.0	Mm.24506	NM_175332	ENSMUSG00000043439	Epop	AA409164|AI413509|AW539173|E13|E130012A19Rik|esPRC2p48	elongin BC and polycomb repressive complex 2 associated protein	protein-coding	8.0	7.5	5.0	79.5	15.0	4.0	8.5	3.0
Merged-chr8-120786590-4	chr8	120786514	120786714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47975.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	27.0	37.0	28.0	711.5	66.5	20.5	31.5	34.5
Merged-chr11-29809529-4	chr11	29809440	29809640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 16 of 41)	intron (NM_146016, intron 16 of 41)	16128.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	17.5	43.0	45.5	783.0	90.5	16.5	46.0	31.5
Merged-chr8-122978407-2	chr8	122978307	122978507	+	693.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	URR1A|DNA|hAT-Charlie	63877.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	10.5	7.5	6.0	21.5	11.5	2.5	0.5	2.0
Merged-chr17-5890566-3	chr17	5890465	5890665	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025664, intron 3 of 17)	intron (NM_025664, intron 3 of 17)	49185.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	6.5	12.0	7.0	158.0	18.5	6.5	7.0	8.5
Merged-chr4-136896722-7	chr4	136896623	136896823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007572, exon 3 of 3)	exon (NM_007572, exon 3 of 3)	2121.0	NM_007572	12259.0	Mm.439957	NM_007572	ENSMUSG00000036887	C1qa	AI255395|C1q	complement component 1, q subcomponent, alpha polypeptide	protein-coding	16.5	35.0	40.0	302.5	29.5	13.5	13.5	19.0
Merged-chr19-12457547-4	chr19	12457435	12457635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3244.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	58.0	73.5	63.0	939.0	117.5	44.0	46.0	58.5
Merged-chr17-27012146-4	chr17	27012051	27012251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-5884.0	NM_001251881	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	42.5	73.0	41.5	559.5	82.0	18.0	48.5	44.5
Merged-chr1-191153264-4	chr1	191153161	191153361	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11556.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	8.5	19.0	11.5	180.5	47.5	10.0	10.0	17.5
Merged-chr6-121366747-3	chr6	121366648	121366848	+	811.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133661)	TTS (NM_133661)	20051.0	NM_133661	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	8.5	10.0	1.5	99.0	47.5	5.0	11.0	6.5
Merged-chr19-32758264-5	chr19	32758201	32758401	+	905.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008960, exon 1 of 9)	5' UTR (NM_008960, exon 1 of 9)	724.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	15.5	20.5	10.0	89.0	19.0	6.5	12.0	9.5
Merged-chr7-100520886-4	chr7	100520792	100520992	+	934.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6077.0	NM_153527	69387.0	Mm.278554	NM_153527	ENSMUSG00000030708	Dnajb13	1700014P03Rik|Tsarg	DnaJ heat shock protein family (Hsp40) member B13	protein-coding	15.5	19.5	7.0	91.0	52.0	25.0	20.5	20.5
Merged-chr3-103374268-4	chr3	103374168	103374368	+	812.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	94975.0	NM_053170	94093.0	Mm.195036	NM_053170	ENSMUSG00000033014	Trim33	8030451N04Rik|AI413936|Ecto|Tif1g	tripartite motif-containing 33	protein-coding	6.0	17.0	4.0	84.5	21.0	5.5	8.0	13.5
Merged-chr6-50060130-4	chr6	50060030	50060230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-50111.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	23.5	68.0	32.5	675.5	120.5	21.5	59.5	34.0
Merged-chr18-39607366-4	chr18	39607263	39607463	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120118.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	16.5	27.0	33.0	390.0	38.0	19.5	27.0	18.0
Merged-chr13-64129353-4	chr13	64129255	64129455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001321)	promoter-TSS (NM_001001321)	-25.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	33.5	37.5	35.5	676.5	84.5	31.5	52.0	35.5
Merged-chr15-59865338-3	chr15	59865244	59865444	+	889.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70385.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	15.0	13.0	5.0	107.5	14.0	13.0	6.0	11.5
Merged-chr1-93804246-3	chr1	93804126	93804326	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025454, intron 1 of 7)	CpG	261.0	NM_025454	66262.0	Mm.64065	NM_025454	ENSMUSG00000026283	Ing5	1700001C14Rik|1700027H23Rik|1810018M11Rik|AI225768	inhibitor of growth family, member 5	protein-coding	67.5	181.0	65.5	1126.5	301.0	110.5	151.5	101.0
Merged-chr6-118419540-4	chr6	118419527	118419727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194339)	promoter-TSS (NM_194339)	-210.0	NM_194339	213895.0	Mm.25269	NM_194339	ENSMUSG00000030138	Bms1	AA408648|AU020092|AU043373|BB007109|BC030906|Bms1l|mKIAA0187	BMS1, ribosome biogenesis factor	protein-coding	84.5	153.5	129.5	1415.0	213.5	96.0	97.5	107.5
Merged-chr17-71259921-2	chr17	71259820	71260020	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	51091.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	52.0	105.0	50.5	1060.5	0.0	1.5	5.5	0.0
Merged-chr4-41135370-4	chr4	41135243	41135443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026275)	promoter-TSS (NM_026275)	-678.0	NM_026275	67615.0	Mm.389540	NM_026275	ENSMUSG00000036241	Ube2r2	1200003M11Rik|Cdc34b|Ubc3b	ubiquitin-conjugating enzyme E2R 2	protein-coding	100.0	127.0	129.5	1488.5	146.0	74.5	80.0	74.0
Merged-chr13-108135931-2	chr13	108135845	108136045	+	760.875	f0_balb.idr|f0_c57.idr	intron (NM_001360140, intron 1 of 4)	intron (NM_001360140, intron 1 of 4)	22680.0	NM_001360140	75597.0	Mm.276040	NM_001127346	ENSMUSG00000068184	Ndufaf2	1810058I14Rik|C86051|Ndufa12l|mimitin	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 2	protein-coding	15.5	11.5	9.5	280.5	22.0	6.5	11.0	6.5
Merged-chr4-41407573-3	chr4	41407492	41407692	+	700.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024241, intron 6 of 12)	ORR1E|LTR|ERVL-MaLR	55629.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	9.5	6.0	6.5	107.0	4.5	3.0	3.0	4.5
Merged-chr5-90365541-5	chr5	90365471	90365671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198010, intron 1 of 32)	CpG	614.0	NM_030886	81702.0	Mm.245522	NM_030886	ENSMUSG00000055204	Ankrd17	4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697	ankyrin repeat domain 17	protein-coding	13.0	27.0	32.5	167.0	44.5	17.5	19.5	24.5
Merged-chr6-122724854-4	chr6	122724764	122724964	+	932.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	17299.0	NM_001289828	71950.0	Mm.6047	NM_028016	ENSMUSG00000012396	Nanog	2410002E02Rik|ENK|ecat4	Nanog homeobox	protein-coding	16.0	23.0	10.5	302.0	47.5	12.5	22.0	18.5
Merged-chr15-101138845-4	chr15	101138740	101138940	+	884.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277255, intron 10 of 11)	intron (NM_001277255, intron 10 of 11)	10318.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	10.5	8.5	8.5	128.5	40.0	19.0	25.5	23.0
Merged-chr10-80664598-4	chr10	80664508	80664708	+	994.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021462)	TTS (NM_021462)	-7537.0	NM_145361	208198.0	Mm.60720	NM_145361	ENSMUSG00000003344	Btbd2	2610037C03Rik|4930512K17Rik	BTB (POZ) domain containing 2	protein-coding	30.5	73.5	25.0	328.5	79.5	42.0	19.0	14.0
Merged-chr12-91776481-4	chr12	91776402	91776602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	9934.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	25.0	52.0	54.5	787.0	94.5	28.0	46.5	47.5
Merged-chr6-129499798-3	chr6	129499725	129499925	+	845.388916	f0_balb.idr|f1_balb.idr	intron (NM_138648, intron 3 of 7)	intron (NM_138648, intron 3 of 7)	7340.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	11.5	14.0	8.0	37.5	6.0	1.0	2.0	5.5
Merged-chr7-79811148-4	chr7	79811045	79811245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008589, exon 1 of 2)	exon (NM_008589, exon 1 of 2)	418.0	NM_008589	17293.0	Mm.31472	NM_008589	ENSMUSG00000030543	Mesp2	bHLHc6	mesoderm posterior 2	protein-coding	24.0	32.5	20.5	296.0	60.0	25.5	17.5	27.0
Merged-chr7-142982035-4	chr7	142981933	142982133	+	828.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-12769.0	NM_008554	17173.0	Mm.196417	NM_008554	ENSMUSG00000009248	Ascl2	2410083I15Rik|Mash2|bHLHa45	achaete-scute family bHLH transcription factor 2	protein-coding	9.0	18.0	14.5	82.5	50.0	5.0	20.5	16.5
Merged-chr9-90431147-4	chr9	90431060	90431260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160391.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	73.0	133.0	105.5	1262.0	279.0	79.0	94.0	137.0
Merged-chr9-121857765-4	chr9	121857669	121857869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357839)	promoter-TSS (NM_001357839)	27.0	NM_001357841	56295.0	Mm.347915	NM_019814	ENSMUSG00000038412	Higd1a	2210020B17Rik|7420700H20Rik|AI303276|AW049839|HIMP1|Hig1	HIG1 domain family, member 1A	protein-coding	135.5	154.5	201.5	1505.5	288.5	139.0	153.5	143.0
Merged-chr1-171682137-6	chr1	171682076	171682276	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007649, intron 1 of 3)	intron (NM_007649, intron 1 of 3)	184.0	NM_001360767	12506.0	Mm.1738	NM_007649	ENSMUSG00000015355	Cd48	AI449234|AW610730|BCM1|BLAST|BLAST-1|BLAST1|Bcm-1|MEM-102|SLAMF2|Sgp-60	CD48 antigen	protein-coding	11.5	23.5	12.0	203.5	31.0	12.0	6.5	17.5
Merged-chr5-134507525-4	chr5	134507410	134507610	+	907.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009990, intron 8 of 16)	B3A|SINE|B2	44924.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	20.5	13.5	17.0	180.5	30.5	9.5	15.0	18.0
Merged-chr19-14677182-4	chr19	14677073	14677273	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11B|LTR|ERVK	-78990.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	22.0	37.5	60.5	241.0	66.0	17.5	34.0	13.0
Merged-chr8-13106122-1	chr8	13106022	13106222	+	1000.0	f0_balb.idr	promoter-TSS (NM_178708)	promoter-TSS (NM_178708)	401.0	NM_146207	99375.0	Mm.212861	NM_146207	ENSMUSG00000031446	Cul4a	2810470J21Rik|AW495282	cullin 4A	protein-coding	27.0	27.0	53.5	227.5	51.0	17.0	24.5	30.5
Merged-chr13-31347314-4	chr13	31347208	31347408	+	861.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-106222.0	NR_045957	73924.0	Mm.417825	NR_045957	ENSMUSG00000087460	4930401O12Rik	-	RIKEN cDNA 4930401O12 gene	ncRNA	15.0	14.0	22.5	365.5	21.0	6.5	9.0	15.5
Merged-chr9-59539748-5	chr9	59539682	59539882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010421, exon 1 of 14)	exon (NM_010421, exon 1 of 14)	242.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	25.0	49.0	46.5	379.0	86.5	47.5	36.5	58.5
Merged-chr15-78334633-4	chr15	78334636	78334836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358854, intron 2 of 14)	intron (NM_001358854, intron 2 of 14)	8746.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	15.5	21.0	12.0	78.0	35.5	20.5	10.5	15.0
Merged-chr19-45032743-4	chr19	45032632	45032832	+	866.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195265, intron 10 of 15)	intron (NM_001195265, intron 10 of 15)	13040.0	NM_001195265	100503041.0	Mm.329877	NM_177605	ENSMUSG00000074818	Pdzd7	9130207N01|EG435601|Pdzk7	PDZ domain containing 7	protein-coding	11.0	15.0	7.5	117.0	23.5	10.5	6.0	11.0
Merged-chr2-4919494-3	chr2	4919444	4919644	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010726, intron 1 of 8)	intron (NM_010726, intron 1 of 8)	548.0	NM_010726	16922.0	Mm.391704	NM_010726	ENSMUSG00000026664	Phyh	AI256161|AI265699|Lnap1|PAHX	phytanoyl-CoA hydroxylase	protein-coding	36.5	45.5	33.5	431.5	9.0	5.5	3.0	9.5
Merged-chr8-94772118-4	chr8	94772027	94772227	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009142)	promoter-TSS (NM_009142)	-53.0	NM_009142	20312.0	Mm.103711	NM_009142	ENSMUSG00000031778	Cx3cl1	AB030188|ABCD-3|AI848747|CX3C|Cxc3|D8Bwg0439e|Scyd1	chemokine (C-X3-C motif) ligand 1	protein-coding	8.5	15.0	18.5	227.0	40.0	11.5	14.5	4.0
Merged-chr17-71286131-4	chr17	71286039	71286239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	24872.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	93.5	113.5	134.5	2312.0	53.5	44.5	67.5	51.5
Merged-chr8-71368520-4	chr8	71368363	71368563	+	816.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025917, intron 4 of 7)	intron (NM_025917, intron 4 of 7)	1246.0	NM_025917	67023.0	Mm.41890	NM_025917	ENSMUSG00000002395	Use1	2010315L10Rik|5730403H22Rik|AV002165|D12|Ed2|Q-snare|p31	unconventional SNARE in the ER 1 homolog (S. cerevisiae)	protein-coding	9.0	8.5	0.5	82.0	24.5	12.0	6.0	7.0
Merged-chr2-6168038-2	chr2	6167938	6168138	+	787.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25213.0	NR_040333	320132.0	Mm.445891	NR_040333	ENSMUSG00000087125	A230108P19Rik	-	RIKEN cDNA A230108P19 gene	ncRNA	5.0	4.5	2.0	54.0	12.0	8.5	10.5	7.0
Merged-chr14-31195351-4	chr14	31195235	31195435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 3 of 13)	intron (NM_001347583, intron 3 of 13)	11491.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	60.5	98.5	49.5	485.5	74.5	29.0	30.5	19.5
Merged-chr15-78913836-4	chr15	78913720	78913920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020271)	promoter-TSS (NM_020271)	-99.0	NM_020271	57028.0	Mm.263169	NM_020271	ENSMUSG00000116165	Pdxp	1600027H05Rik|AB041662|PLPP	pyridoxal (pyridoxine, vitamin B6) phosphatase	protein-coding	80.0	126.0	66.5	959.0	218.0	60.5	78.0	60.0
Merged-chr11-50245829-2	chr11	50245729	50245929	+	743.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-7297.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	6.0	10.0	6.0	115.0	9.5	1.0	3.0	4.5
Merged-chr5-43915416-4	chr5	43915324	43915524	+	999.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	46615.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	27.0	39.0	52.0	447.0	49.0	15.5	38.0	41.0
Merged-chr13-76638467-2	chr13	76638353	76638553	+	702.333374	f0_c57.idr|f1_balb.idr	intron (NM_030174, intron 1 of 20)	MIR|SINE|MIR	253492.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	2.0	1.0	1.0	74.0	39.0	4.5	16.0	16.0
Merged-chr6-134095875-3	chr6	134095750	134095950	+	725.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	60150.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	8.5	5.0	11.5	124.5	15.0	3.5	0.0	7.5
Merged-chr4-63545880-4	chr4	63545755	63545955	+	933.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024173, intron 1 of 2)	intron (NM_024173, intron 1 of 2)	1090.0	NM_024173	66290.0	Mm.371615	NM_024173	ENSMUSG00000039105	Atp6v1g1	1810024D14Rik|AA960677|ATP6J|Atp6g1|VAG1|Vma10	ATPase, H+ transporting, lysosomal V1 subunit G1	protein-coding	13.0	16.0	27.0	326.0	37.0	18.5	14.0	15.0
Merged-chr5-74628003-4	chr5	74627888	74628088	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359074, intron 2 of 10)	intron (NM_001359074, intron 2 of 10)	49884.0	NM_001159580	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	13.0	35.0	19.5	257.0	36.5	9.5	17.0	12.5
Merged-chr16-30465017-4	chr16	30464944	30465144	+	956.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-76514.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	15.5	20.0	19.5	107.5	78.0	19.5	27.5	30.5
Merged-chr13-113470351-4	chr13	113470287	113470487	+	794.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 3 of 6)	(TC)n|Simple_repeat|Simple_repeat	32457.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	5.5	8.5	13.0	55.5	10.5	12.0	7.0	5.0
Merged-chr9-104604888-2	chr9	104604772	104604972	+	736.166626	f0_balb.idr|f1_balb.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	35389.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	19.0	8.5	21.5	559.5	6.0	0.0	0.0	0.0
Merged-chr1-93635136-6	chr1	93635007	93635207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021537, intron 2 of 11)	CpG	620.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	11.0	23.5	25.5	212.5	38.5	10.5	23.5	15.0
Merged-chr2-91963734-4	chr2	91963667	91963867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138306)	promoter-TSS (NM_138306)	-204.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	176.0	265.5	193.5	2184.0	440.5	178.0	214.5	196.5
Merged-chr18-39249201-4	chr18	39249090	39249290	+	839.037476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 17 of 21)	intron (NM_001361073, intron 17 of 21)	238055.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	21.0	15.0	10.0	158.0	23.0	7.0	15.5	8.5
Merged-chr17-36207088-2	chr17	36206988	36207188	+	637.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-16937.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	6.0	5.5	6.0	39.0	16.0	5.5	1.0	3.0
Merged-chr11-44435928-3	chr11	44435833	44436033	+	591.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	34615.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	7.0	5.5	6.0	60.5	22.5	6.5	8.0	1.0
Merged-chr15-25365613-4	chr15	25365499	25365699	+	876.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	48165.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	12.5	11.5	12.5	157.0	39.5	10.0	14.5	11.5
Merged-chr5-108671060-2	chr5	108670960	108671160	+	829.666626	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_174870, exon 3 of 3)	3' UTR (NM_174870, exon 3 of 3)	3736.0	NM_001310692	231583.0	Mm.440571	NM_174870	ENSMUSG00000046959	Slc26a1	Sat1	solute carrier family 26 (sulfate transporter), member 1	protein-coding	2.0	4.5	7.5	30.0	12.5	5.0	8.5	8.0
Merged-chr12-35889982-2	chr12	35889887	35890087	+	626.75	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-35634.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	7.0	8.5	0.5	132.0	19.5	9.5	13.5	15.5
Merged-chr4-56953343-4	chr4	56953235	56953435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-5906.0	NM_175518	242474.0	Mm.296632	NM_175518	ENSMUSG00000055296	Tmem245	A630051L19Rik|AI957324|D730040F13Rik	transmembrane protein 245	protein-coding	26.5	53.5	50.5	799.5	50.0	9.5	32.0	30.5
Merged-chr9-21221713-4	chr9	21221619	21221819	+	916.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	17613.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	19.0	36.0	11.0	165.0	37.0	17.0	13.5	14.5
Merged-chr5-122732658-4	chr5	122732534	122732734	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145358, exon 16 of 16)	3' UTR (NM_145358, exon 16 of 16)	25090.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	17.5	45.5	21.5	390.0	22.5	2.0	3.5	4.5
Merged-chr19-5572934-4	chr19	5572855	5573055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4931.0	NM_001033448	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	22.0	45.5	34.5	410.0	50.0	21.5	22.5	20.0
Merged-chr8-111056796-1	chr8	111056696	111056896	+	1000.0	f1_balb.idr	exon (NM_028274, exon 1 of 1)	exon (NM_028274, exon 1 of 1)	457.0	NM_028274	72544.0	Mm.24174	NM_028274	ENSMUSG00000109941	Exosc6	2610510N21Rik|C76919|Mtr3	exosome component 6	protein-coding	15.5	12.0	9.0	156.5	17.0	11.0	4.5	15.0
Merged-chr10-34127876-5	chr10	34127735	34127935	+	946.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175449, exon 1 of 2)	exon (NM_175449, exon 1 of 2)	137.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	15.0	31.5	29.0	271.0	52.5	16.5	8.5	12.0
Merged-chr10-118709870-4	chr10	118709746	118709946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-153321.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	90.0	203.5	216.0	1919.0	313.5	104.0	136.0	105.0
Merged-chr6-39207021-4	chr6	39206961	39207161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033430)	promoter-TSS (NM_001033430)	-288.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	37.5	60.0	38.5	615.5	94.0	35.0	37.5	37.5
Merged-chr13-64312715-4	chr13	64312661	64312861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025370)	promoter-TSS (NM_025370)	-51.0	NM_025370	66129.0	Mm.491110	NM_025370	ENSMUSG00000021482	Aaed1	1110018J18Rik|AI849003	AhpC/TSA antioxidant enzyme domain containing 1	protein-coding	232.5	292.0	165.0	3032.5	759.0	209.0	325.5	262.0
Merged-chr9-123989853-4	chr9	123989749	123989949	+	878.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11441.0	NM_007718	12770.0	Mm.423532	NM_007718	ENSMUSG00000064039	Ccr1l1	Cmkbr1l1	chemokine (C-C motif) receptor 1-like 1	protein-coding	4.5	10.5	10.0	195.5	28.0	8.0	5.0	3.5
Merged-chr6-100163310-4	chr6	100163218	100163418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124040.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	149.0	161.5	183.0	3342.0	259.5	90.0	121.5	103.0
Merged-chr4-62407959-4	chr4	62407850	62408050	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027297)	promoter-TSS (NM_027297)	673.0	NM_139291	66440.0	Mm.109930	NM_139291	ENSMUSG00000066149	Cdc26	2010012C09Rik	cell division cycle 26	protein-coding	13.5	9.0	21.0	246.5	52.0	27.5	18.0	21.0
Merged-chr7-122297847-4	chr7	122297746	122297946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	8721.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	23.5	24.5	20.0	455.5	74.5	9.5	36.5	32.5
Merged-chr11-54927966-3	chr11	54927860	54928060	+	872.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271456, intron 9 of 18)	intron (NM_001271456, intron 9 of 18)	25106.0	NM_008161	14778.0	Mm.200916	NM_008161	ENSMUSG00000018339	Gpx3	AA960521|EGPx|GPx|GSHPx-3|GSHPx-P	glutathione peroxidase 3	protein-coding	10.5	7.0	2.0	87.0	26.5	9.5	5.0	4.5
Merged-chr12-32635209-4	chr12	32635078	32635278	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-185157.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	76.0	103.5	85.0	1772.0	63.5	16.0	23.0	35.0
Merged-chr9-63793869-4	chr9	63793796	63793996	+	910.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35902.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	19.5	23.0	7.0	287.0	24.5	7.5	13.0	9.0
Merged-chr9-5311928-4	chr9	5311827	5312027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007609, intron 1 of 8)	RLTR17|LTR|ERVK	3078.0	NM_007609	12363.0	Mm.1569	NM_007609	ENSMUSG00000033538	Casp4	CASP-11|CASP-4|Casp11|Caspl|ich-3	caspase 4, apoptosis-related cysteine peptidase	protein-coding	84.5	98.0	38.5	373.5	154.0	57.5	51.5	37.5
Merged-chr15-97379521-2	chr15	97379421	97379621	+	815.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 5 of 5)	intron (NM_172293, intron 5 of 5)	-132234.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	6.0	4.5	5.0	117.5	21.0	2.0	3.0	3.0
Merged-chr10-98708802-3	chr10	98708712	98708912	+	581.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205830.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	7.0	8.0	5.5	104.0	5.0	2.5	5.0	1.5
Merged-chr13-32935119-4	chr13	32935010	32935210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30403.0	NM_011454	20708.0	Mm.36526	NM_011454	ENSMUSG00000042842	Serpinb6b	NK13|Spi12|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 6b	protein-coding	78.5	98.5	119.0	1652.0	193.0	62.0	84.5	70.5
Merged-chr14-103234378-1	chr14	103234278	103234478	+	744.0	f0_balb.idr	intron (NM_207215, intron 26 of 84)	L2a|LINE|L2	112422.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	4.5	5.0	7.5	136.5	5.0	5.0	8.5	4.0
Merged-chr15-39112820-4	chr15	39112728	39112928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172402)	promoter-TSS (NM_172402)	-46.0	NM_198606	223499.0	Mm.321937	NM_198606	ENSMUSG00000022300	Dcaf13	Gm83|Wdsof1	DDB1 and CUL4 associated factor 13	protein-coding	254.5	454.5	253.0	4268.0	735.0	312.5	359.0	264.5
Merged-chr4-152448796-4	chr4	152448697	152448897	+	938.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252655)	promoter-TSS (NM_001252655)	58.0	NM_001252655	16498.0	Mm.388924	NM_010598	ENSMUSG00000028931	Kcnab2	F5|I2rf5|Kcnb3|kv-beta-2	potassium voltage-gated channel, shaker-related subfamily, beta member 2	protein-coding	48.0	34.5	39.5	499.0	31.5	13.5	24.0	21.5
Merged-chr4-59440163-4	chr4	59440043	59440243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1510.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	109.0	123.0	126.0	1813.5	147.0	70.0	58.0	58.0
Merged-chr2-181536598-4	chr2	181536488	181536688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271584, intron 2 of 5)	MYSERV6-int|LTR|ERVK	16103.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	122.0	143.5	97.5	1422.5	215.5	64.5	75.5	83.5
Merged-chr9-31926035-4	chr9	31925946	31926146	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12761.0	NM_013800	12023.0	Mm.261044	NM_013800	ENSMUSG00000032033	Barx2	2310006E12Rik|Barx2b	BarH-like homeobox 2	protein-coding	37.0	43.0	16.5	599.5	68.0	14.5	26.0	25.5
Merged-chr1-165724395-4	chr1	165724276	165724476	+	880.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-16282.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	16.5	22.5	17.0	336.0	39.5	7.5	11.0	15.5
Merged-chr7-4865256-3	chr7	4865161	4865361	+	952.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026158, intron 1 of 5)	B2_Mm2|SINE|B2	918.0	NM_026158	67441.0	Mm.41385	NM_026158	ENSMUSG00000052605	Isoc2b	0610042E07Rik|AI553388|Isoc2	isochorismatase domain containing 2b	protein-coding	1.0	2.0	2.0	85.5	59.0	12.0	29.0	30.5
Merged-chr13-45911395-3	chr13	45911286	45911486	+	925.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	53605.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	20.5	17.0	19.5	134.0	19.0	1.0	6.5	5.5
Merged-chr1-91024132-4	chr1	91024034	91024234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	25407.0	NM_001111312	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	87.5	125.5	71.0	1370.0	181.0	65.0	92.5	67.0
Merged-chr11-6628741-4	chr11	6628631	6628831	+	833.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2664.0	NM_134011	21379.0	Mm.247761	NM_134011	ENSMUSG00000000384	Tbrg4	2310042P22Rik|AA120735|AA408001|AI527316|Cpr2|R74877|Tb-12|mKIAA0948	transforming growth factor beta regulated gene 4	protein-coding	4.5	11.5	1.5	75.5	31.5	15.0	8.5	12.5
Merged-chr2-26352127-4	chr2	26352020	26352220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001139504)	promoter-TSS (NM_001139504)	-10.0	NM_001139504	52838.0	Mm.31239	NM_026828	ENSMUSG00000075467	Dnlz	1110034G11Rik|D2Bwg1335e|HEP1	DNL-type zinc finger	protein-coding	62.5	81.5	47.0	766.5	172.5	64.5	50.5	56.0
Merged-chr7-89980537-4	chr7	89980444	89980644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021876, exon 1 of 12)	5' UTR (NM_021876, exon 1 of 12)	432.0	NM_021876	13626.0	Mm.380914	NM_021876	ENSMUSG00000030619	Eed	l(7)5Rn|l7Rn5|lusk	embryonic ectoderm development	protein-coding	129.5	230.0	135.5	1878.0	326.0	124.5	146.5	118.5
Merged-chr11-11777403-3	chr11	11777302	11777502	+	924.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31560.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	11.5	18.0	14.0	168.5	25.0	9.5	13.0	8.5
Merged-chr6-29468172-4	chr6	29468061	29468261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025381, intron 1 of 1)	intron (NM_025381, intron 1 of 1)	378.0	NM_025381	66144.0	Mm.371614	NM_025381	ENSMUSG00000004285	Atp6v1f	1110004G16Rik	ATPase, H+ transporting, lysosomal V1 subunit F	protein-coding	88.0	158.0	89.5	1303.5	304.5	90.5	97.5	72.5
Merged-chr17-50394135-4	chr17	50394052	50394252	+	895.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100532.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	12.0	25.5	11.5	133.5	51.5	12.0	9.5	8.0
Merged-chr18-82479891-4	chr18	82479787	82479987	+	771.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 1 of 3)	intron (NM_001025245, intron 1 of 3)	4764.0	NM_010777	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	11.0	14.5	7.5	136.0	33.5	6.5	9.5	11.0
Merged-chr13-55362779-4	chr13	55362687	55362887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025828)	promoter-TSS (NM_025828)	-4.0	NM_025828	66890.0	Mm.38868	NM_025828	ENSMUSG00000021484	Lman2	1110003H06Rik|1300009F09Rik|AA408240|AL023023|AU040819|GP36B|VIP36	lectin, mannose-binding 2	protein-coding	263.0	426.5	263.0	3536.5	550.5	239.0	309.5	240.5
Merged-chr14-69825050-2	chr14	69824950	69825150	+	998.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15357.0	NM_028560	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	14.0	6.0	4.5	83.0	10.5	9.5	5.5	2.0
Merged-chr18-56754906-3	chr18	56754827	56755027	+	964.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47114.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	18.0	6.5	16.5	154.0	8.5	3.0	6.0	8.0
Merged-chr10-127535979-4	chr10	127535883	127536083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1424.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	26.5	68.0	34.5	303.0	69.5	22.0	36.0	62.0
Merged-chr16-96083069-2	chr16	96082957	96083157	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_176928)	promoter-TSS (NM_176928)	-629.0	NM_145125	93871.0	Mm.240871	NM_145125	ENSMUSG00000022914	Brwd1	5330419I02Rik|D530019K20Rik|G1-403-16|Wdr9|repro5	bromodomain and WD repeat domain containing 1	protein-coding	58.0	127.0	51.0	562.5	173.5	54.0	71.5	47.5
Merged-chr1-10233086-4	chr1	10232984	10233184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102430)	promoter-TSS (NM_001102430)	-414.0	NM_001102430	211673.0	Mm.229141	NM_001102430	ENSMUSG00000067851	Arfgef1	ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200	ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited)	protein-coding	117.5	152.0	131.0	2048.0	261.5	79.5	118.0	79.0
Merged-chr3-65680768-4	chr3	65680670	65680870	+	948.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037923, intron 2 of 2)	intron (NM_001037923, intron 2 of 2)	14542.0	NM_001166659	624866.0	Mm.296317	NM_001037923	ENSMUSG00000074579	Lekr1	EG546798|EG624866|Gm6534	leucine, glutamate and lysine rich 1	protein-coding	4.0	17.5	16.5	274.0	87.0	17.0	23.5	19.0
Merged-chr3-144677676-4	chr3	144677602	144677802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42633.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	80.5	90.0	70.0	1182.5	153.0	40.0	68.5	55.5
Merged-chr16-24777271-4	chr16	24777148	24777348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 8 of 12)	intron (NM_178665, intron 8 of 12)	55393.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	51.0	102.0	53.0	853.0	180.0	45.0	61.0	56.5
Merged-chr2-173000089-4	chr2	172999994	173000194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175112)	promoter-TSS (NM_175112)	-23.0	NM_175112	66679.0	Mm.4113	NM_175112	ENSMUSG00000027509	Rae1	3230401I12Rik|D2Ertd342e|MNRP|MNRP41	ribonucleic acid export 1	protein-coding	160.5	305.0	139.0	2828.5	509.0	232.0	240.0	222.5
Merged-chr19-41375241-2	chr19	41375145	41375345	+	690.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	9825.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	10.5	11.5	5.0	108.0	4.5	2.5	9.5	5.5
Merged-chr7-19693618-4	chr7	19693543	19693743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007469)	promoter-TSS (NM_007469)	-984.0	NM_007469	11812.0	Mm.182440	NM_007469	ENSMUSG00000040564	Apoc1	Apo-CIB|ApoC-IB|apo-CI|apoC-I	apolipoprotein C-I	protein-coding	77.5	72.0	119.5	1366.0	179.5	62.0	114.5	72.0
Merged-chr2-122132268-4	chr2	122132096	122132296	+	908.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	RLTR20C1_MM|LTR|ERVK	-13810.0	NM_145531	214585.0	Mm.222303	NM_145531	ENSMUSG00000033396	Spg11	6030465E24Rik|A330015I11|C530005A01Rik	SPG11, spatacsin vesicle trafficking associated	protein-coding	15.0	6.5	12.0	107.0	23.0	3.5	6.5	9.0
Merged-chr11-53774261-4	chr11	53774172	53774372	+	855.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159393, intron 6 of 9)	intron (NM_001159393, intron 6 of 9)	3799.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	14.0	16.5	6.0	13.0	31.0	9.5	4.5	5.5
Merged-chr4-40236805-4	chr4	40236716	40236916	+	842.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172689, intron 1 of 17)	intron (NM_172689, intron 1 of 17)	3009.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	12.0	14.5	14.5	187.5	27.5	9.5	10.5	9.0
Merged-chr15-89174056-4	chr15	89173948	89174148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159521)	promoter-TSS (NM_001159521)	-97.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	56.0	73.0	51.5	803.0	109.0	36.0	63.5	36.0
Merged-chr9-66126652-4	chr9	66126571	66126771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026635)	promoter-TSS (NM_026635)	60.0	NM_026635	68250.0	Mm.27107	NM_026635	ENSMUSG00000032381	Fam96a	5730536A07Rik	family with sequence similarity 96, member A	protein-coding	184.0	255.5	160.5	1760.5	346.5	141.0	153.0	151.0
Merged-chr10-117910629-4	chr10	117910528	117910728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44B|DNA|TcMar-Tigger	-14831.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	66.5	136.5	62.5	1088.5	193.5	39.5	66.0	71.0
Merged-chr5-31754810-4	chr5	31754701	31754901	+	883.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 3 of 11)	ORR1E|LTR|ERVL-MaLR	56751.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	12.5	12.5	10.5	314.5	19.0	6.5	13.0	20.5
Merged-chr14-40931308-4	chr14	40931197	40931397	+	979.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	intron (NM_145928, intron 2 of 8)	16912.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	26.0	15.0	27.0	414.5	51.0	5.0	25.5	18.5
Merged-chr9-63960568-4	chr9	63960505	63960705	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	61454.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	17.0	27.5	21.0	182.5	38.5	13.5	18.5	28.0
Merged-chr19-55587936-4	chr19	55587850	55588050	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	114254.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	15.5	22.5	33.0	398.5	36.0	7.5	16.0	18.0
Merged-chr2-27232535-4	chr2	27232435	27232635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138665, intron 8 of 20)	intron (NM_138665, intron 8 of 20)	14768.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	84.0	100.5	108.5	1051.0	110.0	58.0	49.0	59.5
Merged-chr4-128734384-3	chr4	128734289	128734489	+	878.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	intron (NM_001195083, intron 1 of 6)	6818.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	9.0	6.0	18.0	220.0	11.5	2.0	7.0	14.5
Merged-chr11-106463234-4	chr11	106463131	106463331	+	802.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 1 of 21)	RSINE1|SINE|B4	24565.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	7.0	9.0	7.0	134.5	29.0	5.5	16.0	12.5
Merged-chr5-145115437-2	chr5	145115337	145115537	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	intron (NM_023142, intron 1 of 9)	1181.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	1.5	13.0	2.5	22.0	20.5	5.0	4.5	10.5
Merged-chr13-42976312-4	chr13	42976222	42976422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005740, intron 2 of 12)	MIR|SINE|MIR	110075.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	34.0	57.5	46.0	639.0	65.5	23.0	26.5	23.0
Merged-chr7-125597267-3	chr7	125597134	125597334	+	873.900024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6195.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	4.0	1.0	2.0	8.0	45.5	16.5	11.5	4.5
Merged-chr1-171840615-4	chr1	171840516	171840716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001252472, exon 2 of 3)	5' UTR (NM_001252472, exon 2 of 3)	919.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	37.0	31.0	40.0	362.5	108.0	37.0	42.0	37.5
Merged-chr7-24462996-4	chr7	24462894	24463094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011113, intron 1 of 6)	intron (NM_011113, intron 1 of 6)	511.0	NM_011113	18793.0	Mm.1359	NM_011113	ENSMUSG00000046223	Plaur	Cd87|u-PAR|uPAR	plasminogen activator, urokinase receptor	protein-coding	32.5	47.0	45.0	549.5	94.5	51.0	25.5	35.0
Merged-chr12-30912226-4	chr12	30912135	30912335	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021330)	promoter-TSS (NM_021330)	566.0	NM_013709	24057.0	Mm.218624	NM_013709	ENSMUSG00000020669	Sh3yl1	AI314953|Ray|YSC84	Sh3 domain YSC-like 1	protein-coding	16.5	12.5	11.0	187.5	27.0	7.0	13.0	6.0
Merged-chr14-73380476-4	chr14	73380382	73380582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	4807.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	24.5	41.5	35.0	451.5	103.0	45.5	39.5	47.5
Merged-chr2-21187503-3	chr2	21187408	21187608	+	998.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027728, intron 4 of 4)	intron (NM_027728, intron 4 of 4)	17857.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	15.5	24.0	20.5	239.0	59.0	9.0	9.5	5.5
Merged-chr12-76371019-4	chr12	76370921	76371121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178744, intron 1 of 1)	CpG-3289	755.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	28.5	59.5	21.5	440.0	137.5	28.5	49.0	43.0
Merged-chr13-9093754-4	chr13	9093668	9093868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311117)	promoter-TSS (NM_001311117)	-113.0	NM_001311117	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	462.0	646.0	386.0	5836.0	1089.5	403.0	522.0	385.5
Merged-chr18-62478273-3	chr18	62478205	62478405	+	799.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65547.0	NM_001361091	107035.0	Mm.21295	NM_134136	ENSMUSG00000042211	Fbxo38	6030410I24Rik|AU044865|AW214031|Moka|SP329	F-box protein 38	protein-coding	1.0	0.0	0.0	0.0	54.0	23.0	28.0	32.5
Merged-chr4-141347636-2	chr4	141347536	141347736	+	729.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-20556.0	NM_001085513	277743.0	Mm.294614	NM_001085513	ENSMUSG00000006218	Fam131c	Gm693	family with sequence similarity 131, member C	protein-coding	2.0	3.0	5.5	72.0	9.5	6.5	4.5	6.5
Merged-chr14-64330625-4	chr14	64330526	64330726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 1 of 4)	L1MD|LINE|L1	86330.0	NM_001253716	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	96.5	119.5	78.5	1430.0	210.0	30.0	83.5	56.5
Merged-chr15-58692046-4	chr15	58691941	58692141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	131386.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	112.0	122.0	111.0	1595.5	253.0	71.0	102.0	91.5
Merged-chr9-20727083-4	chr9	20726997	20727197	+	736.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357635)	promoter-TSS (NM_001357635)	-94.0	NM_001357635	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	8.5	12.5	12.5	148.0	17.0	9.5	9.5	9.5
Merged-chr2-160062684-4	chr2	160062599	160062799	+	854.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46046.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	15.5	14.5	17.0	286.0	23.5	8.5	26.0	10.0
Merged-chr10-115245696-1	chr10	115245596	115245796	+	555.0	f0_balb.idr	intron (NM_025706, intron 1 of 16)	intron (NM_025706, intron 1 of 16)	5797.0	NM_025706	66687.0	Mm.22252	NM_025706	ENSMUSG00000020130	Tbc1d15	4432405K22Rik|AU022358|AU023730|AW557774|Ly6dl|Rab7-GAP	TBC1 domain family, member 15	protein-coding	5.5	9.5	5.5	90.0	13.5	3.0	2.0	8.5
Merged-chr4-155559683-4	chr4	155559563	155559763	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001160017)	TTS (NM_001160017)	-2718.0	NM_138671	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	30.0	20.5	18.0	390.0	49.0	16.0	32.0	19.5
Merged-chr18-61083248-4	chr18	61083156	61083356	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146268, exon 23 of 23)	exon (NM_001146268, exon 23 of 23)	-22316.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	15.5	26.5	19.0	185.0	72.0	22.5	19.0	18.0
Merged-chr4-141060686-4	chr4	141060588	141060788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145958)	promoter-TSS (NM_001145958)	-143.0	NM_001145958	230872.0	Mm.80685	NM_172122	ENSMUSG00000040860	Crocc	-	ciliary rootlet coiled-coil, rootletin	protein-coding	214.5	330.5	189.5	2312.0	551.0	220.0	234.0	207.0
Merged-chr11-117993688-4	chr11	117993587	117993787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151726, intron 1 of 9)	intron (NR_151726, intron 1 of 9)	6830.0	NR_151726	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	46.0	60.5	35.5	332.5	90.5	35.0	33.5	27.0
Merged-chr8-105609820-2	chr8	105609720	105609920	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081241, intron 1 of 21)	L2|LINE|L2	4591.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	7.0	5.5	7.0	62.5	8.0	0.5	2.5	6.5
Merged-chr5-148465544-4	chr5	148465464	148465664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65660.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	18.5	37.0	19.0	179.5	93.0	24.0	33.5	36.5
Merged-chr4-99120518-4	chr4	99120420	99120620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 1 of 47)	CpG	395.0	NM_001290636	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	27.0	44.0	44.0	679.5	84.5	32.5	35.0	41.5
Merged-chr19-37436642-4	chr19	37436524	37436724	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008245, intron 1 of 3)	intron (NM_008245, intron 1 of 3)	1783.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	13.5	46.0	33.5	402.0	37.5	18.5	23.0	23.0
Merged-chr1-9953116-4	chr1	9953013	9953213	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8995.0	NR_024067	73824.0	Mm.28311	NR_024067	ENSMUSG00000098234	Snhg6	1110008H02Rik	small nucleolar RNA host gene 6	ncRNA	21.5	40.5	20.0	653.5	76.5	14.0	32.5	25.0
Merged-chr2-77946044-4	chr2	77945971	77946171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030560, intron 1 of 20)	CpG	285.0	NM_001290740	80744.0	Mm.288151	NM_030560	ENSMUSG00000027014	Cwc22	AA684037|AI173004|AL022752|B230213M24|mKIAA1604	CWC22 spliceosome-associated protein	protein-coding	66.0	66.5	91.5	619.0	136.0	51.0	50.5	70.0
Merged-chr17-80728201-4	chr17	80728104	80728304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290345)	promoter-TSS (NM_001290345)	-179.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	44.0	67.5	35.0	613.0	137.0	40.5	62.5	30.0
Merged-chr7-74497401-4	chr7	74497284	74497484	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038643, intron 2 of 10)	ORR1E|LTR|ERVL-MaLR	57396.0	NM_023908	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	14.5	21.0	38.5	423.5	102.5	18.0	34.0	46.5
Merged-chr10-8353715-4	chr10	8353621	8353821	+	842.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 2 of 7)	intron (NM_177387, intron 2 of 7)	165104.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	11.5	28.0	11.0	192.5	35.0	14.0	17.5	16.5
Merged-chr13-51958553-4	chr13	51958455	51958655	+	800.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111880.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	8.5	9.5	2.0	89.0	12.0	8.5	13.0	14.5
Merged-chr5-31940874-3	chr5	31940777	31940977	+	780.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 7 of 11)	intron (NM_144541, intron 7 of 11)	-195595.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	16.5	10.5	12.5	153.5	20.5	0.0	5.0	6.0
Merged-chr13-14613130-4	chr13	14613032	14613232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029271)	promoter-TSS (NM_029271)	-95.0	NM_029271	75398.0	Mm.36511	NM_029271	ENSMUSG00000015672	Mrpl32	0610033O15Rik	mitochondrial ribosomal protein L32	protein-coding	410.5	516.0	297.0	6471.0	958.0	388.0	470.5	333.5
Merged-chr12-73445802-3	chr12	73445692	73445892	+	915.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger9b|DNA|TcMar-Tigger	-36229.0	NR_046013	380765.0	Mm.490476	NR_046013	ENSMUSG00000056359	D830013O20Rik	Gm891	RIKEN cDNA D830013O20 gene	ncRNA	6.0	5.0	13.5	147.5	4.5	6.5	10.0	9.0
Merged-chr2-46302881-2	chr2	46302781	46302981	+	764.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	606276.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	9.0	8.0	4.0	55.0	24.5	7.5	6.0	5.5
Merged-chr7-28168856-4	chr7	28168742	28168942	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007991)	promoter-TSS (NM_007991)	-906.0	NM_007991	14113.0	Mm.4595	NM_007991	ENSMUSG00000046865	Fbl	AL022665|FIB|FLRN|RNU3IP1	fibrillarin	protein-coding	12.0	17.5	9.5	171.5	44.0	15.5	19.0	27.5
Merged-chr6-71804254-4	chr6	71804141	71804341	+	780.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178608, intron 6 of 6)	intron (NM_178608, intron 6 of 6)	19543.0	NM_025430	66223.0	Mm.28579	NM_025430	ENSMUSG00000052962	Mrpl35	1110066C01Rik	mitochondrial ribosomal protein L35	protein-coding	19.0	18.5	5.5	154.0	14.0	13.0	11.5	8.5
Merged-chr11-32455918-4	chr11	32455830	32456030	+	959.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361561, intron 1 of 1)	CpG	560.0	NM_173784	327900.0	Mm.260956	NM_173784	ENSMUSG00000044949	Ubtd2	4930571L24|9630054F20Rik|AI645720	ubiquitin domain containing 2	protein-coding	8.5	20.5	16.0	202.0	23.5	22.5	6.0	33.0
Merged-chr7-16252159-2	chr7	16252059	16252259	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	B1_Mur4|SINE|Alu	7179.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	15.0	9.5	12.5	46.5	15.0	1.0	3.0	4.5
Merged-chr19-46306169-2	chr19	46306101	46306301	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NR_152247)	promoter-TSS (NR_152247)	271.0	NM_001177370	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	13.5	42.0	13.0	184.5	40.5	25.0	31.5	15.5
Merged-chr5-105495349-4	chr5	105495256	105495456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24115.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	56.0	101.5	78.0	1042.0	127.0	44.0	48.5	41.5
Merged-chr10-59224118-4	chr10	59223994	59224194	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172939, exon 1 of 1)	3' UTR (NM_172939, exon 1 of 1)	2172.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	21.5	25.5	27.0	317.5	69.0	16.5	36.0	21.0
Merged-chr13-35452622-3	chr13	35452518	35452718	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-207244.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	6.0	5.5	13.0	107.5	5.5	4.0	8.5	6.5
Merged-chr2-32965697-3	chr2	32965603	32965803	+	755.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	2402.0	NR_002898	104367.0	Mm.250030	NR_002898	ENSMUSG00000065124	Snora65	MBII-351|Rnu65	small nucleolar RNA, H/ACA box 65	snoRNA	10.5	11.0	6.0	79.0	13.0	1.5	1.0	11.5
Merged-chr1-149948575-1	chr1	149948475	149948675	+	708.0	f0_balb.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	12715.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	5.5	9.0	5.5	131.0	11.0	5.5	3.5	8.0
Merged-chr3-40894139-4	chr3	40894039	40894239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026622)	promoter-TSS (NM_026622)	-138.0	NM_026622	269423.0	Mm.32373	NM_026622	ENSMUSG00000037818	Abhd18	2310068E01Rik|3110057O12Rik|AI645591	abhydrolase domain containing 18	protein-coding	270.0	408.5	292.5	3096.0	682.5	283.5	396.0	222.5
Merged-chr6-135947595-3	chr6	135947482	135947682	+	982.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008171, intron 4 of 14)	intron (NM_008171, intron 4 of 14)	225929.0	NM_008171	14812.0	Mm.436649	NM_008171	ENSMUSG00000030209	Grin2b	AW490526|GluN2B|NR2B|Nmdar2b	glutamate receptor, ionotropic, NMDA2B (epsilon 2)	protein-coding	0.0	0.0	0.5	0.5	48.5	20.5	22.0	23.5
Merged-chr8-3461136-3	chr8	3461027	3461227	+	840.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026951, intron 3 of 4)	B1_Mur1|SINE|Alu	6521.0	NM_026951	69129.0	Mm.45279	NM_026951	ENSMUSG00000069633	Pex11g	1810022F11Rik|1810049N02Rik|Pex11c|Pex11gamma	peroxisomal biogenesis factor 11 gamma	protein-coding	6.5	5.0	9.0	150.0	6.0	3.5	5.0	7.0
Merged-chr14-25660222-4	chr14	25660139	25660339	+	872.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 22 of 23)	intron (NM_183208, intron 22 of 23)	-33931.0	NM_134084	105675.0	Mm.41656	NM_134084	ENSMUSG00000021868	Ppif	AW457192|CyP-D|CyP-F|CypD|PPIase	peptidylprolyl isomerase F (cyclophilin F)	protein-coding	11.5	30.5	26.5	259.5	23.0	8.0	7.5	12.0
Merged-chr6-85333258-8	chr6	85333119	85333319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178639, intron 1 of 13)	CpG	203.0	NM_178639	94282.0	Mm.121485	NM_178639	ENSMUSG00000033720	Sfxn5	C230001H08Rik	sideroflexin 5	protein-coding	57.5	91.5	80.0	875.5	155.0	79.5	80.5	102.0
Merged-chr19-23135612-4	chr19	23135514	23135714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5612.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	58.0	95.0	68.5	626.5	137.0	68.0	80.0	54.5
Merged-chr3-95609413-4	chr3	95609255	95609455	+	947.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146133, intron 3 of 4)	intron (NM_146133, intron 3 of 4)	-15625.0	NM_019561	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	11.5	11.0	14.0	140.5	18.0	5.0	4.5	10.0
Merged-chr2-181291166-4	chr2	181291022	181291222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-3156.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	18.0	34.5	29.0	253.5	64.5	22.0	21.0	28.0
Merged-chr7-6729619-3	chr7	6729519	6729719	+	851.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290994)	promoter-TSS (NM_001290994)	800.0	NM_008817	18616.0	Mm.389800	NM_008817	ENSMUSG00000002265	Peg3	AL022617|ASF-1|End4|Gcap4|Pw1|Zfp102|mKIAA0287	paternally expressed 3	protein-coding	8.0	14.5	10.5	106.5	7.5	3.0	6.5	0.5
Merged-chr1-16216779-4	chr1	16216681	16216881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110899.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	40.5	70.5	47.5	611.5	140.5	60.0	42.5	38.0
Merged-chr10-81088564-4	chr10	81088469	81088669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145365, exon 8 of 12)	exon (NM_145365, exon 8 of 12)	10303.0	NM_145365	208677.0	Mm.294693	NM_145365	ENSMUSG00000035041	Creb3l3	BC010786|CREB-H|D10Bur1e	cAMP responsive element binding protein 3-like 3	protein-coding	40.0	34.5	26.5	431.0	67.5	37.0	33.0	49.5
Merged-chr11-120515694-4	chr11	120515564	120515764	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15063.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	16.0	34.0	14.0	203.0	47.5	15.5	15.5	16.0
Merged-chr2-11664107-4	chr2	11663998	11664198	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008367, intron 1 of 7)	intron (NM_008367, intron 1 of 7)	21306.0	NM_008367	16184.0	Mm.915	NM_008367	ENSMUSG00000026770	Il2ra	CD25|Il2r|Ly-43	interleukin 2 receptor, alpha chain	protein-coding	12.5	24.5	4.5	127.0	17.5	12.0	17.0	23.5
Merged-chr7-27185218-2	chr7	27185118	27185318	+	657.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4069.0	NM_019394	12587.0	Mm.262447	NM_019394	ENSMUSG00000089661	Mia	CD-RAP|Cdrap|Mia1	melanoma inhibitory activity	protein-coding	5.5	4.5	6.5	23.5	15.5	7.0	12.0	2.5
Merged-chr12-76371493-1	chr12	76371393	76371593	+	865.6666869999999	f0_balb.idr	intron (NM_178744, intron 1 of 1)	intron (NM_178744, intron 1 of 1)	1227.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	17.5	12.0	7.0	145.5	42.0	12.5	14.0	14.0
Merged-chr6-128766979-4	chr6	128766889	128767089	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	21652.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	15.5	17.5	22.0	172.0	51.0	25.0	40.0	22.5
Merged-chr3-87527307-3	chr3	87527216	87527416	+	873.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_012051, exon 2 of 5)	exon (NM_012051, exon 2 of 5)	1738.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	16.0	17.5	7.5	88.5	23.5	2.5	5.5	5.0
Merged-chr14-70778205-4	chr14	70778064	70778264	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010071, exon 5 of 5)	3' UTR (NM_010071, exon 5 of 5)	3783.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	43.5	32.0	36.0	494.5	58.0	22.5	36.0	15.5
Merged-chr2-59522258-4	chr2	59522161	59522361	+	875.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37608.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	9.0	25.5	23.5	144.5	29.0	10.0	15.5	8.5
Merged-chr9-94703638-4	chr9	94703544	94703744	+	819.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 2 of 15)	intron (NM_177909, intron 2 of 15)	33752.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	4.5	7.0	13.5	174.0	23.5	4.0	9.5	9.0
Merged-chr14-70880274-4	chr14	70880130	70880330	+	996.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9877.0	NM_001302095	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	20.0	19.0	21.0	259.0	42.0	14.5	28.0	22.0
Merged-chr2-70702455-3	chr2	70702321	70702521	+	612.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40912.0	NM_027352	70231.0	Mm.271950	NM_027352	ENSMUSG00000014959	Gorasp2	0610011A07Rik|2410043M02Rik|5730520M13Rik|9430094F20Rik|AW552058|GOLPH2|GRASP55|GRS2|p59	golgi reassembly stacking protein 2	protein-coding	5.0	9.5	9.0	55.0	3.5	2.0	4.0	10.0
Merged-chr2-181523006-3	chr2	181522903	181523103	+	759.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271584, intron 2 of 5)	B2_Mm2|SINE|B2	2518.0	NM_001271584	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	7.5	9.0	4.0	24.5	16.5	8.5	12.0	12.5
Merged-chr7-35066840-4	chr7	35066737	35066937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-10271.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	125.5	118.5	41.0	896.0	218.5	70.0	112.0	73.5
Merged-chr11-73109291-3	chr11	73109190	73109390	+	726.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361245, intron 2 of 30)	intron (NM_001361245, intron 2 of 30)	18695.0	NM_172944	16407.0	Mm.96	NM_008399	ENSMUSG00000005947	Itgae	A530055J10|CD103|aM290|alpha-E1|alpha-M290	integrin alpha E, epithelial-associated	protein-coding	8.5	8.0	7.5	98.5	6.0	2.0	0.5	4.0
Merged-chr1-9773341-4	chr1	9773287	9773487	+	883.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24743.0	NM_133220	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	5.0	9.0	10.5	177.5	19.5	8.5	6.5	6.5
Merged-chr10-75772848-4	chr10	75772775	75772975	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010027, exon 2 of 3)	exon (NM_010027, exon 2 of 3)	499.0	NM_010027	13202.0	Mm.298947	NM_010027	ENSMUSG00000001666	Ddt	C78655	D-dopachrome tautomerase	protein-coding	7.0	10.0	14.5	173.0	29.0	4.5	13.0	13.5
Merged-chr13-49292120-4	chr13	49292020	49292220	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 3 of 17)	L1M4c|LINE|L1	17088.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	20.5	35.5	29.0	608.5	95.5	13.5	20.0	35.0
Merged-chr4-126110756-4	chr4	126110714	126110914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 1 of 10)	intron (NM_028800, intron 1 of 10)	6857.0	NM_001145827	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	70.5	174.5	102.0	655.0	178.5	72.0	61.0	45.0
Merged-chr6-123049934-4	chr6	123049875	123050075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190310)	promoter-TSS (NM_001190310)	13.0	NM_001190310	69810.0	Mm.333374	NM_027218	ENSMUSG00000030147	Clec4b1	1810046I24Rik|Aplra2|Clec4b|DCAR|DCARbeta|Dcar2	C-type lectin domain family 4, member b1	protein-coding	35.0	48.0	54.0	799.5	58.0	16.5	27.5	21.5
Merged-chr14-77911599-4	chr14	77911493	77911693	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 1 of 11)	intron (NM_029495, intron 1 of 11)	7354.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	10.5	17.0	15.5	339.0	64.0	15.0	18.0	18.0
Merged-chr12-84317467-3	chr12	84317380	84317580	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252582, intron 1 of 7)	CpG	621.0	NM_001252583	52708.0	Mm.255150	NM_144833	ENSMUSG00000042472	Zfp410	Apa1|D12Ertd748e|Znf410	zinc finger protein 410	protein-coding	4.0	20.0	4.5	85.0	13.0	6.0	7.0	7.0
Merged-chr18-26711635-4	chr18	26711526	26711726	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-957469.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	24.5	27.0	22.5	292.0	71.5	21.5	23.5	24.0
Merged-chr6-124965404-6	chr6	124965259	124965459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355541, exon 1 of 8)	5' UTR (NM_001355541, exon 1 of 8)	179.0	NM_012003	26894.0	Mm.244536	NM_012003	ENSMUSG00000030127	Cops7a	D6Ertd35e|SGN7a	COP9 signalosome subunit 7A	protein-coding	70.0	138.0	107.5	948.5	138.0	56.0	41.0	76.5
Merged-chr13-73600361-4	chr13	73600251	73600451	+	922.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3651.0	NM_146047	218335.0	Mm.30099	NM_146047	ENSMUSG00000021610	Clptm1l	C130052I12Rik|Crr9	CLPTM1-like	protein-coding	11.5	14.0	18.5	274.0	31.5	16.0	24.5	22.0
Merged-chr15-12404718-2	chr15	12404618	12404818	+	841.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081064, intron 9 of 23)	RSINE1|SINE|B4	83222.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	9.0	5.0	14.5	54.5	4.0	2.0	4.0	4.0
Merged-chr13-43118965-1	chr13	43118865	43119065	+	707.0	f0_balb.idr	intron (NM_001005740, intron 8 of 12)	intron (NM_001005740, intron 8 of 12)	-3874.0	NM_001005748	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	5.0	5.0	7.5	138.5	0.0	1.5	0.0	1.5
Merged-chr17-6430113-4	chr17	6430012	6430212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009342)	promoter-TSS (NM_009342)	0.0	NM_009342	21648.0	Mm.1948	NM_009342	ENSMUSG00000096255	Dynlt1b	AGS2|Dynlt1|Tctex-1|Tctex1	dynein light chain Tctex-type 1B	protein-coding	273.0	336.5	156.0	2329.5	285.0	102.0	130.5	119.5
Merged-chr13-12565776-4	chr13	12565674	12565874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026184)	promoter-TSS (NM_026184)	-109.0	NM_026184	67475.0	Mm.358706	NM_026184	ENSMUSG00000057069	Ero1lb	1300013B24Rik|1700065B09Rik|AI447560|Ero1b|ero1-beta	ERO1-like beta (S. cerevisiae)	protein-coding	340.0	583.0	387.5	5992.0	861.5	304.5	423.0	334.5
Merged-chr14-70774288-4	chr14	70774177	70774377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010071)	promoter-TSS (NM_010071)	-104.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	49.5	67.5	54.0	879.5	91.5	39.0	56.0	41.0
Merged-chr3-105688926-5	chr3	105688901	105689101	+	802.273315	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1430.0	NM_017397	53975.0	Mm.272826	NM_017397	ENSMUSG00000027905	Ddx20	GEMIN3|dp103	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	protein-coding	13.0	20.0	14.0	217.0	19.5	8.0	13.5	4.0
Merged-chr2-6459681-4	chr2	6459497	6459697	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106861.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	5.0	19.5	13.0	228.5	22.0	10.0	13.0	19.5
Merged-chr9-120586746-4	chr9	120586664	120586864	+	777.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9433.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	13.5	33.5	10.5	116.5	31.0	14.0	10.5	17.5
Merged-chr13-21716337-4	chr13	21716222	21716422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178182)	promoter-TSS (NM_178182)	-90.0	NM_178182	319191.0	Mm.14767	NM_178182	ENSMUSG00000071516	Hist1h2ai	H2a-291A	histone cluster 1, H2ai	protein-coding	57.0	140.0	41.0	792.5	185.5	108.5	80.0	95.0
Merged-chr10-8358395-4	chr10	8358288	8358488	+	982.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 2 of 7)	intron (NM_177387, intron 2 of 7)	160437.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	8.0	33.0	16.5	278.5	26.5	32.5	24.5	24.0
Merged-chr16-19979987-4	chr16	19979902	19980102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	intron (NM_183390, intron 1 of 6)	3047.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	59.0	54.5	41.5	527.0	101.0	33.5	40.0	26.5
Merged-chr11-105592086-4	chr11	105591965	105592165	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181071, intron 1 of 25)	intron (NM_181071, intron 1 of 25)	2079.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	35.0	34.0	18.0	266.5	76.5	28.5	31.5	35.0
Merged-chr4-132158423-4	chr4	132158319	132158519	+	883.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13933.0	NM_013622	18386.0	Mm.5243	NM_013622	ENSMUSG00000050511	Oprd1	DOR|DOR-1|Nbor|mDOR	opioid receptor, delta 1	protein-coding	16.5	11.5	6.0	95.5	28.5	10.5	4.0	12.0
Merged-chr8-79028739-3	chr8	79028661	79028861	+	741.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	intron (NM_001294279, intron 1 of 14)	324.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	8.0	13.5	5.5	106.5	5.0	4.5	2.0	0.0
Merged-chr15-89210696-4	chr15	89210604	89210804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027805)	promoter-TSS (NM_027805)	-855.0	NM_026813	71474.0	Mm.184055	NM_026813	ENSMUSG00000036561	Ppp6r2	1110033O10Rik|8430411H09Rik|B230107H12Rik|Pp6r2|Saps2	protein phosphatase 6, regulatory subunit 2	protein-coding	24.5	24.0	18.5	254.5	79.0	34.0	34.0	36.5
Merged-chr14-70060175-2	chr14	70060075	70060275	+	651.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_028560)	TTS (NM_028560)	-17270.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	5.0	5.0	4.5	87.5	13.0	8.0	6.5	11.5
Merged-chr3-145650755-4	chr3	145650662	145650862	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010516)	promoter-TSS (NM_010516)	-777.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	24.5	23.5	20.0	304.5	31.0	16.0	23.5	22.0
Merged-chr4-108369814-4	chr4	108369708	108369908	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099303, intron 2 of 2)	B3|SINE|B2	13847.0	NM_001099303	545667.0	Mm.380025	NM_001099303	ENSMUSG00000059816	Fam159a	Shisal2a	family with sequence similarity 159, member A	protein-coding	8.0	14.0	17.0	234.5	46.5	15.5	17.5	22.0
Merged-chr12-111946881-4	chr12	111946755	111946955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2373.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	63.0	81.5	42.5	982.0	162.5	49.5	66.0	62.0
Merged-chr15-39608854-5	chr15	39608710	39608910	+	988.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053271, intron 21 of 26)	Lx2A|LINE|L1	-50701.0	NM_001256384	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	12.0	17.5	16.5	147.5	25.0	14.0	16.5	12.5
Merged-chr11-67021162-4	chr11	67021069	67021269	+	833.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3985.0	NM_001291042	338369.0	Mm.128138	NM_177392	ENSMUSG00000050270	Tmem220	-	transmembrane protein 220	protein-coding	7.0	15.0	3.5	85.0	28.5	5.5	15.0	11.5
Merged-chr13-113340806-1	chr13	113340706	113340906	+	573.0	f0_balb.idr	Intergenic	Intergenic	131147.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	6.5	10.0	6.5	96.5	18.5	6.0	6.0	2.5
Merged-chr4-53469233-4	chr4	53469135	53469335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133891, intron 1 of 15)	L1MB8|LINE|L1	28822.0	NM_133891	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	38.0	63.0	41.0	586.0	75.0	30.5	48.0	40.5
Merged-chr7-28350684-4	chr7	28350593	28350793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013647)	promoter-TSS (NM_013647)	4.0	NM_013647	20055.0	Mm.702	NM_013647	ENSMUSG00000037563	Rps16	AA420385|AI317031	ribosomal protein S16	protein-coding	158.5	289.5	200.5	1988.0	479.0	215.0	189.0	209.0
Merged-chr4-99298883-4	chr4	99298803	99299003	+	850.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104756.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	4.5	12.5	2.5	67.0	48.5	12.5	22.5	18.0
Merged-chr15-58933293-4	chr15	58933205	58933405	+	873.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023172)	promoter-TSS (NM_023172)	425.0	NM_175151	69694.0	Mm.383230	NM_175151	ENSMUSG00000050891	Tatdn1	2310079P03Rik|CDA11	TatD DNase domain containing 1	protein-coding	13.5	19.5	15.5	136.5	26.5	10.5	10.5	15.0
Merged-chr4-15989062-3	chr4	15988947	15989147	+	905.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013752, exon 14 of 16)	exon (NM_013752, exon 14 of 16)	24791.0	NM_001355615	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	10.0	5.5	7.0	150.0	15.5	5.5	1.0	8.0
Merged-chr11-79146492-4	chr11	79146381	79146581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013571)	promoter-TSS (NM_013571)	-8.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	103.0	130.5	74.5	933.5	200.0	67.5	68.5	66.0
Merged-chr15-63616964-4	chr15	63616858	63617058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137350.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	55.5	54.5	95.5	1277.0	130.5	27.0	66.5	49.0
Merged-chr11-70525271-4	chr11	70525176	70525376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008946)	promoter-TSS (NM_008946)	-81.0	NM_008946	19175.0	Mm.98	NM_008946	ENSMUSG00000018286	Psmb6	Lmp19|Mpnd	proteasome (prosome, macropain) subunit, beta type 6	protein-coding	122.5	178.0	80.5	845.5	273.5	99.0	93.0	92.5
Merged-chr15-84183545-4	chr15	84183441	84183641	+	955.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054088, intron 7 of 7)	intron (NM_054088, intron 7 of 7)	-8692.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	24.0	18.0	9.5	236.5	64.0	27.5	15.5	28.5
Merged-chr1-59670245-4	chr1	59670130	59670330	+	979.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009460, intron 1 of 4)	intron (NM_009460, intron 1 of 4)	604.0	NM_009460	22218.0	Mm.362118	NM_009460	ENSMUSG00000026021	Sumo1	GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1	small ubiquitin-like modifier 1	protein-coding	10.0	27.0	19.5	123.0	73.0	18.5	15.5	21.0
Merged-chr2-83705919-3	chr2	83705813	83706013	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-18484.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	11.5	14.0	26.0	265.0	11.0	6.5	8.0	6.5
Merged-chr15-27665277-2	chr15	27665177	27665377	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	16265.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	5.5	5.5	6.5	42.5	3.5	3.5	2.0	8.0
Merged-chr6-83137729-4	chr6	83137619	83137819	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133641, exon 1 of 12)	5' UTR (NM_133641, exon 1 of 12)	635.0	NM_133641	20166.0	Mm.4139	NM_009106	ENSMUSG00000034930	Rtkn	-	rhotekin	protein-coding	15.0	28.0	16.5	344.0	22.0	8.5	12.5	6.5
Merged-chr19-37550898-2	chr19	37550798	37550998	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175353, intron 1 of 21)	CpG	480.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	4.5	4.5	7.5	101.5	14.5	10.5	4.0	7.5
Merged-chr3-90491508-3	chr3	90491418	90491618	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133854)	promoter-TSS (NM_133854)	-505.0	NM_133854	20615.0	Mm.331182	NM_133854	ENSMUSG00000001018	Snapin	25kDa|AA407989|AV026596|Bloc1s7|Snap25bp|Snapap	SNAP-associated protein	protein-coding	14.5	23.5	9.0	77.0	55.0	24.0	22.0	29.0
Merged-chr10-127322908-5	chr10	127322824	127323024	+	774.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359656)	promoter-TSS (NM_001359656)	-783.0	NM_146011	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	6.5	7.5	7.5	88.5	11.0	6.0	5.0	14.0
Merged-chr7-29229432-6	chr7	29229393	29229593	+	880.236084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033525, intron 1 of 2)	intron (NM_001033525, intron 1 of 2)	3029.0	NM_001033525	52150.0	Mm.24877	NM_001033525	ENSMUSG00000046410	Kcnk6	D7Ertd764e|Toss|Twik2	potassium inwardly-rectifying channel, subfamily K, member 6	protein-coding	7.0	11.5	4.0	24.5	32.0	10.5	5.5	7.5
Merged-chr4-132306177-4	chr4	132306078	132306278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-2500.0	NR_029468	100039864.0	Mm.258912	NR_029468	ENSMUSG00000086290	Snhg12	2310005L22Rik	small nucleolar RNA host gene 12	ncRNA	38.0	30.5	43.5	630.5	120.0	20.5	41.0	42.5
Merged-chr11-101010601-2	chr11	101010483	101010683	+	794.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001243049, intron 1 of 20)	intron (NM_001243049, intron 1 of 20)	1131.0	NM_001243051	11975.0	Mm.340818	NM_016920	ENSMUSG00000019302	Atp6v0a1	AA959968|ATP6a1|Atp6n1|Atp6n1a|Atpv0a1|Vpp-1|Vpp1	ATPase, H+ transporting, lysosomal V0 subunit A1	protein-coding	5.5	8.0	8.0	24.5	6.0	1.0	3.0	9.0
Merged-chr9-64789496-4	chr9	64789397	64789597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21514.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	84.0	100.0	70.5	737.0	211.5	94.5	71.5	86.5
Merged-chr13-34709773-3	chr13	34709680	34709880	+	960.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29862.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	9.0	20.5	13.0	212.0	7.0	16.0	6.0	6.5
Merged-chr5-53995388-4	chr5	53995259	53995459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3164.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	173.0	284.5	139.5	1514.0	473.0	163.5	221.5	117.5
Merged-chr5-45917041-4	chr5	45916947	45917147	+	919.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	15362.0	NR_110478	78106.0	Mm.243807	NR_110478	ENSMUSG00000106602	4930405L22Rik	-	RIKEN cDNA 4930405L22 gene	ncRNA	14.5	11.0	9.0	294.5	36.5	16.0	13.5	28.0
Merged-chr17-46248034-4	chr17	46247934	46248134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145353)	promoter-TSS (NM_145353)	11.0	NM_009085	20016.0	Mm.3458	NM_009085	ENSMUSG00000067148	Polr1c	40kDa|AA409007|AA959927|AL024089|Polr1e|RPA40|Rpo1-1	polymerase (RNA) I polypeptide C	protein-coding	97.5	149.0	48.0	1108.0	246.5	67.5	100.0	88.5
Merged-chr3-38237813-3	chr3	38237728	38237928	+	913.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29709.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	9.0	13.0	7.5	153.5	31.5	2.0	10.0	8.0
Merged-chr15-97164839-4	chr15	97164746	97164946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155278, intron 2 of 3)	intron (NR_155278, intron 2 of 3)	2398.0	NR_155278	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	100.5	125.5	144.0	2020.5	250.0	70.5	124.5	149.5
Merged-chr10-78169844-4	chr10	78169730	78169930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138601)	promoter-TSS (NM_138601)	-62.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	195.5	280.5	175.0	2605.5	461.5	173.5	216.0	162.5
Merged-chr2-117378473-4	chr2	117378378	117378578	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-35601.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	23.0	24.0	16.5	205.0	46.5	8.5	17.0	25.0
Merged-chr7-31007942-3	chr7	31007834	31008034	+	875.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26013.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	11.0	5.0	9.0	166.0	29.5	6.0	14.0	14.5
Merged-chr2-130733666-4	chr2	130733563	130733763	+	937.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 27 of 36)	intron (NM_029432, intron 27 of 36)	-36144.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	13.5	10.5	9.5	202.5	42.0	11.0	18.0	18.0
Merged-chr17-74020706-4	chr17	74020601	74020801	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053188, intron 4 of 4)	intron (NM_053188, intron 4 of 4)	27215.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	12.5	18.0	11.5	159.0	31.5	12.5	10.0	20.5
Merged-chr13-94709840-3	chr13	94709718	94709918	+	804.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79125.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	11.0	9.0	12.0	70.5	12.0	5.5	3.0	3.0
Merged-chr5-33335457-4	chr5	33335343	33335543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021500)	promoter-TSS (NM_021500)	-129.0	NM_021500	59003.0	Mm.138617	NM_021500	ENSMUSG00000079562	Maea	1110030D19Rik|EMP|Gid9	macrophage erythroblast attacher	protein-coding	207.5	326.5	163.5	2669.5	528.0	175.5	262.5	181.5
Merged-chr1-152531759-6	chr1	152531568	152531768	+	977.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 13 of 17)	intron (NM_016846, intron 13 of 17)	93549.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	13.5	21.0	30.0	412.5	31.0	11.5	19.5	38.5
Merged-chr16-39881761-1	chr16	39881661	39881861	+	801.5	f0_balb.idr	Intergenic	Intergenic	-102603.0	NM_001361282	268890.0	Mm.310524	NM_175548	ENSMUSG00000061080	Lsamp	5430428I19|AW046674|B130007O04Rik|D930023J12Rik|Gm29907|Lam|Lamp	limbic system-associated membrane protein	protein-coding	11.0	10.5	22.5	202.5	6.0	1.0	1.0	0.0
Merged-chr1-138976142-4	chr1	138976032	138976232	+	874.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	-1525.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	11.5	14.0	20.5	408.5	49.0	9.0	10.0	11.0
Merged-chr16-30388168-3	chr16	30387985	30388185	+	964.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128096, intron 1 of 33)	CpG	445.0	NM_001128094	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	7.5	22.5	16.5	196.0	31.5	9.0	12.5	32.5
Merged-chr9-65196702-6	chr9	65196623	65196823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17967.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	20.5	39.0	22.0	184.5	54.0	20.0	29.0	35.5
Merged-chr3-148810730-3	chr3	148810635	148810835	+	963.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TC)n|Simple_repeat|Simple_repeat	143900.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	12.5	11.5	14.5	225.5	14.0	5.5	5.5	8.0
Merged-chr2-62656279-4	chr2	62656173	62656373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-8054.0	NM_145523	227960.0	Mm.219877	NM_145523	ENSMUSG00000026893	Gca	5133401E04Rik|AI573844	grancalcin	protein-coding	47.5	57.5	41.0	679.5	122.0	25.5	38.0	33.0
Merged-chr1-154118572-4	chr1	154118471	154118671	+	932.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82616.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	26.0	21.0	15.0	127.0	47.0	21.5	7.0	12.0
Merged-chr9-111083751-3	chr9	111083653	111083853	+	890.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26235.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	6.0	9.5	19.5	176.5	12.0	1.5	12.5	8.5
Merged-chr1-153894444-4	chr1	153894355	153894555	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2809.0	NM_178244	240819.0	Mm.453236	NM_178244	ENSMUSG00000047053	Teddm1a	Epdd1|Teddm1|e9-1	transmembrane epididymal protein 1A	protein-coding	50.5	51.5	57.5	767.0	45.0	13.0	28.0	19.5
Merged-chr12-100426468-4	chr12	100426359	100426559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	intron (NM_001033213, intron 5 of 19)	94363.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	118.0	128.5	135.0	2029.0	122.0	50.0	92.0	88.0
Merged-chr4-63089663-3	chr4	63089557	63089757	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028326, intron 4 of 14)	intron (NM_028326, intron 4 of 14)	64515.0	NM_007443	11699.0	Mm.2197	NM_007443	ENSMUSG00000028356	Ambp	AI194774|ASPI|HI-30|Intin4|Itil|UTI	alpha 1 microglobulin/bikunin	protein-coding	19.0	25.5	18.0	326.5	6.5	2.0	7.5	7.0
Merged-chr7-27536807-4	chr7	27536695	27536895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317355, intron 10 of 13)	intron (NM_001317355, intron 10 of 13)	13534.0	NM_001033315	233020.0	Mm.429716	NM_001033315	ENSMUSG00000040424	Hipk4	Gm162	homeodomain interacting protein kinase 4	protein-coding	103.5	156.5	128.0	1920.0	237.0	75.0	136.5	121.0
Merged-chr18-12940507-3	chr18	12940411	12940611	+	779.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 1 of 27)	intron (NM_207530, intron 1 of 27)	1330.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	5.0	9.5	3.0	211.5	28.0	5.5	4.5	12.0
Merged-chr6-120155036-4	chr6	120154946	120155146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-38777.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	201.0	271.0	204.5	2794.0	444.0	138.5	161.5	152.0
Merged-chr5-139405229-4	chr5	139405150	139405350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	-1137.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	97.0	189.0	133.0	2436.0	194.0	61.5	121.5	122.0
Merged-chr6-115765309-2	chr6	115765209	115765409	+	927.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCAA)n|Simple_repeat|Simple_repeat	-2843.0	NM_001168256	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	3.0	1.0	1.0	29.5	11.0	5.0	9.0	6.5
Merged-chr13-4191173-4	chr13	4191079	4191279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013778)	promoter-TSS (NM_013778)	-8.0	NM_013778	27384.0	Mm.27447	NM_013778	ENSMUSG00000021213	Akr1c13	mKIAA4014	aldo-keto reductase family 1, member C13	protein-coding	28.5	27.0	31.5	324.5	49.0	28.0	41.5	37.0
Merged-chr3-10087676-3	chr3	10087607	10087807	+	795.955566	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045710)	promoter-TSS (NR_045710)	-570.0	NR_045710	100041480.0	Mm.455632	NR_045710	ENSMUSG00000049230	Gm9833	-	myelin basic protein expression factor 2, repressor pseudogene	pseudo	0.0	0.0	0.0	0.0	39.5	9.5	11.0	15.5
Merged-chr11-90558832-3	chr11	90558712	90558912	+	830.1777950000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011505, intron 12 of 17)	intron (NM_011505, intron 12 of 17)	79296.0	NM_011505	20913.0	Mm.207203	NM_011505	ENSMUSG00000020546	Stxbp4	6030470M02Rik|Synip	syntaxin binding protein 4	protein-coding	6.5	13.5	10.0	171.0	9.5	5.5	3.5	6.5
Merged-chr6-122575902-4	chr6	122575841	122576041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	22132.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	70.0	122.5	56.5	507.5	79.5	53.0	44.5	28.5
Merged-chr1-34564561-4	chr1	34564470	34564670	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3627.0	NM_009356	21756.0	Mm.14418	NM_009356	ENSMUSG00000037529	Prss40	Tesp2	protease, serine 40	protein-coding	14.0	17.5	25.0	411.5	39.5	4.5	17.5	11.0
Merged-chr11-79089837-3	chr11	79089714	79089914	+	688.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	IMPB_01|Satellite|Satellite	-29978.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	5.5	8.5	5.5	98.0	15.5	11.5	3.5	2.5
Merged-chr14-120306414-4	chr14	120306325	120306525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360376)	promoter-TSS (NM_001360376)	-27.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	71.5	120.5	68.5	1635.0	202.5	62.0	94.0	63.5
Merged-chr4-129514512-4	chr4	129514465	129514665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010807, intron 1 of 1)	intron (NM_010807, intron 1 of 1)	984.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	57.0	176.0	45.0	254.0	158.5	104.5	57.0	33.5
Merged-chr16-4475257-4	chr16	4475148	4475348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	47827.0	NM_001347162	106393.0	Mm.35811	NM_175347	ENSMUSG00000022519	Srl	9830004M20Rik|AW108387|sar	sarcalumenin	protein-coding	140.5	188.0	109.0	1681.0	341.5	133.5	131.5	194.5
Merged-chr10-8848365-4	chr10	8848268	8848468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	intron (NM_175155, intron 2 of 19)	37702.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	75.5	152.5	94.5	1217.5	147.0	73.0	74.0	43.5
Merged-chr7-16272950-4	chr7	16272853	16273053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001136270, exon 1 of 1)	exon (NM_001136270, exon 1 of 1)	739.0	NM_001136270	66300.0	Mm.218698	NM_001136270	ENSMUSG00000091811	Inafm1	2610014I16Rik|Prr24	InaF motif containing 1	protein-coding	23.0	55.5	39.5	454.5	77.5	23.0	42.5	46.5
Merged-chr5-31362083-4	chr5	31361978	31362178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	64497.0	NM_144909	231103.0	Mm.100043	NM_144909	ENSMUSG00000059434	Gckr	GKRP	glucokinase regulatory protein	protein-coding	45.0	116.0	63.5	386.0	78.0	34.5	36.0	45.5
Merged-chr10-128702805-4	chr10	128702710	128702910	+	797.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183417, intron 3 of 7)	RSINE1|SINE|B4	2241.0	NM_183417	12566.0	Mm.111326	NM_016756	ENSMUSG00000025358	Cdk2	A630093N05Rik	cyclin-dependent kinase 2	protein-coding	9.0	5.5	7.0	110.5	24.0	9.0	4.0	6.5
Merged-chr13-112635397-2	chr13	112635297	112635497	+	680.125	f1_balb.idr|f1_c57bl6.idr	intron (NM_001145885, intron 5 of 21)	intron (NM_001145885, intron 5 of 21)	16913.0	NM_010029	13206.0	Mm.12818	NM_010029	ENSMUSG00000021758	Ddx4	AV206478|Mvh|VASA	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4	protein-coding	5.0	14.0	6.5	65.0	31.0	12.0	26.0	7.5
Merged-chr1-178342773-4	chr1	178342699	178342899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B3|LTR|ERVL	-4984.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	91.5	172.5	95.5	1727.0	263.0	87.0	119.5	97.0
Merged-chr17-27591947-3	chr17	27591772	27591972	+	890.361084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291046, intron 2 of 4)	intron (NM_001291046, intron 2 of 4)	-26145.0	NM_001002895	106672.0	Mm.61488	NM_001002895	ENSMUSG00000062753	AI413582	AI854251|Smim29	expressed sequence AI413582	protein-coding	3.0	0.0	0.0	0.5	30.5	10.0	12.0	11.5
Merged-chr9-57148275-4	chr9	57148158	57148358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357409)	promoter-TSS (NM_001357409)	47.0	NM_028347	72774.0	Mm.35749	NM_028347	ENSMUSG00000032298	Neil1	2810450N13Rik|NEH1|Nei1	nei endonuclease VIII-like 1 (E. coli)	protein-coding	168.0	308.5	186.0	2282.5	509.5	194.5	208.5	197.5
Merged-chr11-88955474-4	chr11	88955386	88955586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029023)	promoter-TSS (NM_029023)	-44.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	95.5	158.5	58.5	1351.5	322.5	98.5	151.5	119.5
Merged-chr18-80938238-4	chr18	80938137	80938337	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A2B_MM|LTR|ERVK	-4179.0	NM_015805	50771.0	Mm.247138	NM_015805	ENSMUSG00000024566	Atp9b	AA934181|Atpc2b|IIb|MMR	ATPase, class II, type 9B	protein-coding	7.0	17.5	6.5	158.5	71.0	24.5	40.0	38.5
Merged-chr10-51497522-3	chr10	51497318	51497518	+	644.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013532)	TTS (NM_013532)	6520.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	9.5	30.5	7.5	70.5	17.0	6.5	6.0	2.0
Merged-chr2-160237548-3	chr2	160237441	160237641	+	941.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89953.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	10.0	4.0	13.5	246.5	18.5	5.5	9.0	19.5
Merged-chr16-34121010-4	chr16	34120930	34121130	+	907.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 33 of 59)	intron (NM_177357, intron 33 of 59)	-153992.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	6.0	17.5	10.0	155.0	22.5	5.5	11.5	7.5
Merged-chr15-36879877-4	chr15	36879772	36879972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-82943.0	NM_001253806	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	65.5	82.0	53.5	1167.5	131.5	46.0	81.5	56.5
Merged-chr8-22398499-4	chr8	22398397	22398597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045473)	promoter-TSS (NR_045473)	124.0	NM_181325	18408.0	Mm.200907	NM_181325	ENSMUSG00000031482	Slc25a15	D630044L02Rik|Ornt1	solute carrier family 25 (mitochondrial carrier ornithine transporter), member 15	protein-coding	103.5	156.0	197.5	1760.0	169.0	91.5	86.0	87.5
Merged-chr15-31447409-3	chr15	31447298	31447498	+	757.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145852, intron 3 of 4)	intron (NM_145852, intron 3 of 4)	6291.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	8.5	18.5	10.5	139.0	20.0	11.5	7.0	8.0
Merged-chr11-20446037-4	chr11	20445936	20446136	+	848.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97217.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	7.5	8.5	13.5	105.5	26.0	9.5	10.0	6.5
Merged-chr7-118766228-4	chr7	118766112	118766312	+	922.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 8 of 30)	intron (NM_027815, intron 8 of 30)	25941.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	10.0	20.0	5.0	215.5	23.0	8.0	16.0	13.0
Merged-chr7-15922480-4	chr7	15922372	15922572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009156)	promoter-TSS (NM_009156)	-101.0	NM_009156	20364.0	Mm.42829	NM_009156	ENSMUSG00000041571	Selenow	Sepw1|selW	selenoprotein W	protein-coding	74.5	113.0	126.0	1133.0	161.5	73.5	62.0	106.0
Merged-chr18-42513401-4	chr18	42513307	42513507	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360881, intron 1 of 20)	intron (NM_001360881, intron 1 of 20)	1920.0	NR_110344	56070.0	Mm.270511	NM_001039474	ENSMUSG00000024498	Tcerg1	2410022J09Rik|2900090C16Rik|AI428505|CA150b|FBP23|FBP28|Taf2s|ca150|p144	transcription elongation regulator 1 (CA150)	protein-coding	19.0	22.5	14.5	440.0	46.5	14.0	36.0	32.0
Merged-chr7-99963025-4	chr7	99962948	99963148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	intron (NM_175388, intron 1 of 5)	17410.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	43.0	79.5	54.5	822.0	62.5	20.5	30.0	29.5
Merged-chr6-100336058-4	chr6	100335956	100336156	+	848.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR81|LTR|Gypsy	-48698.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	10.0	27.0	12.5	95.0	27.0	11.0	13.5	13.0
Merged-chr4-129121187-3	chr4	129121112	129121312	+	907.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010471)	promoter-TSS (NM_010471)	91.0	NM_010471	15444.0	Mm.384452	NM_010471	ENSMUSG00000028785	Hpca	-	hippocalcin	protein-coding	6.0	6.5	4.5	15.5	12.5	8.0	4.5	11.0
Merged-chr18-12661336-1	chr18	12661236	12661436	+	610.0	f0_balb.idr	intron (NM_028341, intron 1 of 13)	intron (NM_028341, intron 1 of 13)	17803.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	4.0	3.0	10.5	104.0	39.5	4.5	8.5	7.0
Merged-chr19-34662230-4	chr19	34662144	34662344	+	973.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	21355.0	NM_008331	15957.0	Mm.439751	NM_008331	ENSMUSG00000034459	Ifit1	ISG56|Ifi56|P56	interferon-induced protein with tetratricopeptide repeats 1	protein-coding	16.0	30.0	43.5	270.5	30.5	17.5	10.0	13.0
Merged-chr12-112672036-3	chr12	112671933	112672133	+	942.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331107, intron 1 of 13)	intron (NM_001331107, intron 1 of 13)	2243.0	NM_001165894	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	6.0	5.0	13.0	66.0	24.5	6.5	15.5	8.0
Merged-chr7-25768867-2	chr7	25768767	25768967	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 12 of 19)	PB1D10|SINE|Alu	-14108.0	NM_178089	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	8.5	7.0	20.0	64.0	6.5	6.5	6.5	3.5
Merged-chr19-36006456-4	chr19	36006368	36006568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360298, intron 1 of 2)	MER54A|LTR|ERVL	50892.0	NM_001360318	15566.0	Mm.254266	NM_008315	ENSMUSG00000024798	Htr7	5-HT-X|5-HT7	5-hydroxytryptamine (serotonin) receptor 7	protein-coding	4.5	24.5	31.5	311.0	39.0	4.0	27.0	18.0
Merged-chr12-116405956-2	chr12	116405885	116406085	+	829.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NR_028421)	promoter-TSS (NR_028421)	583.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	6.0	11.0	8.0	84.0	22.5	3.5	8.5	13.0
Merged-chr3-52077781-3	chr3	52077694	52077894	+	638.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	27212.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	6.0	14.0	6.0	42.0	13.5	5.0	3.5	0.0
Merged-chr7-135598043-4	chr7	135597921	135598121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316680, intron 1 of 20)	intron (NM_001316680, intron 1 of 20)	4540.0	NM_001316680	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	26.5	39.0	41.0	394.0	58.0	27.0	42.5	14.5
Merged-chr8-95142610-4	chr8	95142472	95142672	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145831)	promoter-TSS (NM_001145831)	-32.0	NM_001145831	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	30.5	23.5	17.5	286.5	44.0	17.5	18.0	21.0
Merged-chr6-83356768-4	chr6	83356650	83356850	+	867.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175277, intron 3 of 3)	intron (NM_175277, intron 3 of 3)	7266.0	NM_175277	78653.0	Mm.391470	NM_175277	ENSMUSG00000045160	Bola3	1810056O20Rik	bolA-like 3 (E. coli)	protein-coding	10.0	38.0	11.5	190.0	56.0	16.0	21.5	18.0
Merged-chr7-71873999-4	chr7	71873912	71874112	+	866.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35683.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	39.0	36.0	51.0	777.0	24.0	3.5	9.5	18.5
Merged-chr1-171248879-6	chr1	171248772	171248972	+	903.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1257.0	NM_172845	240913.0	Mm.491147	NM_172845	ENSMUSG00000006403	Adamts4	ADAM-TS4|ADAMTS-2|ADMP-1	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 4	protein-coding	4.0	15.0	7.5	67.5	40.5	9.0	5.5	12.0
Merged-chr6-97877608-3	chr6	97877504	97877704	+	832.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	-52213.0	NM_001178049	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	11.5	7.5	7.0	152.0	2.0	2.5	2.0	3.0
Merged-chr12-82240868-4	chr12	82240762	82240962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	intron (NM_001167983, intron 2 of 23)	-70487.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	70.0	64.0	47.5	1070.0	181.5	71.5	50.5	64.0
Merged-chr2-129307745-2	chr2	129307645	129307845	+	768.0	f1_balb.idr|f1_c57bl6.idr	TTS (NR_040371)	TTS (NR_040371)	2227.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	7.5	4.5	5.0	43.0	5.5	4.5	0.5	6.5
Merged-chr18-68301016-1	chr18	68300916	68301116	+	1000.0	f0_c57.idr	promoter-TSS (NM_153794)	promoter-TSS (NM_153794)	596.0	NM_001361003	67897.0	Mm.27544	NM_026440	ENSMUSG00000009535	Rnmt	2610002P10Rik|AI848273|Rg7mt1|mKIAA0398	RNA (guanine-7-) methyltransferase	protein-coding	6.5	11.0	10.5	135.5	41.5	15.0	13.5	14.5
Merged-chr12-112829556-4	chr12	112829443	112829643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359292)	promoter-TSS (NM_001359292)	-22.0	NM_001359234	71963.0	Mm.313185	NM_028023	ENSMUSG00000047832	Cdca4	2410018C03Rik|HEPP|SEI-3	cell division cycle associated 4	protein-coding	252.0	392.5	296.5	3617.5	635.5	262.5	294.5	253.5
Merged-chr2-129572766-4	chr2	129572666	129572866	+	984.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20073.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	15.5	33.5	27.5	308.0	78.5	20.0	15.5	21.0
Merged-chr13-112466231-3	chr13	112466133	112466333	+	838.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010560, intron 1 of 16)	intron (NM_010560, intron 1 of 16)	2163.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	18.5	14.5	19.0	166.5	17.0	12.5	10.0	5.5
Merged-chr6-17842966-3	chr6	17842871	17843071	+	782.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 3 of 15)	intron (NM_022332, intron 3 of 15)	93801.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	7.5	9.0	6.0	89.5	21.0	7.0	5.5	7.5
Merged-chr11-48874669-4	chr11	48874584	48874784	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3264.0	NM_008326	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	16.5	13.0	15.0	194.0	35.5	11.0	11.0	18.5
Merged-chr4-55631331-4	chr4	55631208	55631408	+	979.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-98833.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	19.0	27.0	14.5	437.0	96.0	30.0	35.5	48.0
Merged-chr12-55824224-4	chr12	55824127	55824327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2711.0	NM_001286263	56784.0	Mm.292180	NM_019994	ENSMUSG00000021027	Ralgapa1	2310003F20Rik|4930400K19Rik|AI563624|GRIPE|Garnl1|Tulip1|mKIAA0884	Ral GTPase activating protein, alpha subunit 1	protein-coding	41.0	74.5	59.5	736.0	104.5	48.0	33.5	36.5
Merged-chr11-120660667-5	chr11	120660505	120660705	+	872.179993	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175263, intron 1 of 11)	CpG-2953	232.0	NM_175263	77583.0	Mm.32839	NM_175263	ENSMUSG00000042988	Notum	5730593N15Rik	notum palmitoleoyl-protein carboxylesterase	protein-coding	7.5	10.0	9.0	61.0	8.5	3.0	7.0	7.5
Merged-chr7-121734264-3	chr7	121734187	121734387	+	758.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011326)	promoter-TSS (NM_011326)	-192.0	NM_011326	20278.0	Mm.35247	NM_011326	ENSMUSG00000000216	Scnn1g	SCNEG	sodium channel, nonvoltage-gated 1 gamma	protein-coding	5.5	6.5	5.0	86.0	21.0	5.0	6.5	10.0
Merged-chr17-28233596-4	chr17	28233488	28233688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 1 of 7)	intron (NM_011145, intron 1 of 7)	834.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	32.0	67.0	17.0	455.5	88.0	44.5	37.5	42.0
Merged-chr16-38721585-3	chr16	38721513	38721713	+	704.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8578.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	12.0	8.0	7.5	119.5	3.0	0.5	1.5	2.0
Merged-chr7-128461819-4	chr7	128461716	128461916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009383)	promoter-TSS (NM_009383)	-143.0	NM_001347640	21843.0	Mm.242072	NM_009383	ENSMUSG00000030846	Tial1	5330433G13Rik|AL033329|TIAR|mTIAR	Tia1 cytotoxic granule-associated RNA binding protein-like 1	protein-coding	307.5	560.5	361.0	4747.5	804.0	272.5	384.0	321.0
Merged-chr10-80943103-4	chr10	80942988	80943188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12997.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	17.5	33.5	30.0	198.0	68.0	28.0	11.5	13.5
Merged-chr10-96015943-4	chr10	96015829	96016029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001932, intron 13 of 28)	intron (NM_001001932, intron 13 of 28)	75266.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	100.0	146.5	69.5	1288.5	193.0	64.0	67.0	65.0
Merged-chr1-143777804-3	chr1	143777732	143777932	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013835)	promoter-TSS (NM_013835)	554.0	NM_019562	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	24.5	39.0	41.5	423.0	44.5	21.0	22.0	42.5
Merged-chr16-21702853-4	chr16	21702765	21702965	+	906.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8200.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	28.0	25.5	26.0	370.5	30.0	9.5	8.5	8.0
Merged-chr3-146607377-4	chr3	146607271	146607471	+	911.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009474, intron 1 of 7)	intron (NM_009474, intron 1 of 7)	8227.0	NM_019957	56629.0	Mm.25853	NM_019957	ENSMUSG00000028185	Dnase2b	AI526873|Dlad|DnaseIIb	deoxyribonuclease II beta	protein-coding	21.0	21.0	18.5	105.5	33.5	15.0	14.0	6.0
Merged-chr5-146806060-4	chr5	146805936	146806136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11080.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	106.0	147.5	180.5	2047.0	240.0	80.0	104.0	118.0
Merged-chr7-28442962-4	chr7	28442862	28443062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039192, intron 3 of 6)	intron (NM_001039192, intron 3 of 6)	2025.0	NM_001039192	63986.0	Mm.194536	NM_022024	ENSMUSG00000060791	Gmfg	0610039G16Rik|2310057N07Rik|AI324845	glia maturation factor, gamma	protein-coding	163.5	225.0	123.5	1681.5	345.0	146.0	138.0	129.0
Merged-chr12-75733876-12	chr12	75733787	75733987	+	829.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030750, intron 1 of 2)	intron (NM_030750, intron 1 of 2)	1842.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	9.5	22.0	10.5	168.0	28.5	4.0	9.5	7.5
Merged-chr5-118575123-4	chr5	118575008	118575208	+	881.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 1 of 30)	intron (NM_001347445, intron 1 of 30)	14389.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	7.5	15.0	23.0	246.5	25.5	2.5	24.0	17.5
Merged-chr8-125559276-3	chr8	125559215	125559415	+	756.833313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	10548.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	4.5	8.5	10.0	115.5	15.5	4.0	13.5	4.5
Merged-chr14-25694074-4	chr14	25693962	25694162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134084)	promoter-TSS (NM_134084)	-108.0	NM_134084	105675.0	Mm.41656	NM_134084	ENSMUSG00000021868	Ppif	AW457192|CyP-D|CyP-F|CypD|PPIase	peptidylprolyl isomerase F (cyclophilin F)	protein-coding	138.5	213.0	164.5	2481.0	292.0	147.5	179.5	150.0
Merged-chr5-32940880-4	chr5	32940785	32940985	+	963.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025426, intron 28 of 42)	intron (NM_001025426, intron 28 of 42)	77164.0	NM_001170567	277854.0	Mm.101524	NM_177786	ENSMUSG00000037426	Depdc5	AV016528	DEP domain containing 5	protein-coding	16.5	19.5	7.0	329.0	54.5	12.0	16.0	20.0
Merged-chr11-119267934-4	chr11	119267844	119268044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159324)	promoter-TSS (NM_001159324)	-19.0	NM_001159324	14387.0	Mm.4793	NM_008064	ENSMUSG00000025579	Gaa	E430018M07Rik	glucosidase, alpha, acid	protein-coding	64.5	94.5	45.5	716.5	179.5	43.5	47.5	68.0
Merged-chr5-135012934-4	chr5	135012856	135013056	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190437)	TTS (NM_001190437)	201.0	NR_026688	69812.0	Mm.18422	NR_026688	ENSMUSG00000085042	Abhd11os	2010001M06Rik|AI462243|Wbscr26|Wnscr26	abhydrolase domain containing 11, opposite strand	ncRNA	18.5	20.5	6.5	209.0	81.5	14.5	21.0	29.0
Merged-chr3-96577468-4	chr3	96577368	96577568	+	924.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001293701)	TTS (NM_001293701)	-10667.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	14.0	12.0	12.0	219.0	32.0	14.5	14.5	18.5
Merged-chr4-95390756-4	chr4	95390663	95390863	+	845.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-166744.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	23.0	17.0	15.5	335.5	31.5	4.5	14.0	14.5
Merged-chr1-58712686-4	chr1	58712613	58712813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009805)	promoter-TSS (NM_009805)	-573.0	NM_207653	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	131.5	377.0	125.5	1770.5	416.0	151.5	196.0	106.0
Merged-chr11-83616765-4	chr11	83616658	83616858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 5 of 8)	intron (NR_036453, intron 5 of 8)	-23671.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	77.5	107.0	112.0	1584.5	69.0	32.5	63.5	53.0
Merged-chr11-69671391-4	chr11	69671283	69671483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159375, intron 1 of 10)	CpG	1040.0	NM_144958	13681.0	Mm.26680	NM_144958	ENSMUSG00000059796	Eif4a1	BM-010|Ddx2a|Eif4	eukaryotic translation initiation factor 4A1	protein-coding	127.5	243.5	122.0	2027.5	400.5	127.0	143.0	141.5
Merged-chr1-157141230-4	chr1	157141142	157141342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177644, intron 17 of 17)	intron (NM_177644, intron 17 of 17)	-32562.0	NM_001305063	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	57.5	66.0	62.5	895.5	78.0	30.5	22.5	31.0
Merged-chr5-43039614-3	chr5	43039540	43039740	+	905.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-193823.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	10.5	9.5	5.5	137.5	14.0	7.5	11.0	5.5
Merged-chr18-61095725-4	chr18	61095643	61095843	+	904.1124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-9829.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	7.0	16.0	10.0	183.0	36.0	10.0	25.0	12.5
Merged-chr10-80105655-4	chr10	80105547	80105747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-2945.0	NM_001359637	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	85.5	120.0	46.5	534.0	212.5	88.0	67.5	38.5
Merged-chr18-44381088-4	chr18	44380992	44381192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 1 of 10)	CpG	592.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	17.5	26.5	17.0	325.5	63.5	24.5	27.0	28.5
Merged-chr2-84555628-3	chr2	84555532	84555732	+	919.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-48759.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	4.0	0.5	1.0	10.0	18.0	9.0	10.0	14.5
Merged-chr2-119547097-4	chr2	119547023	119547223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019769)	promoter-TSS (NM_019769)	504.0	NM_172857	241624.0	Mm.212773	NM_172857	ENSMUSG00000048647	Exd1	4932702D22Rik|Exdl1|mExd1	exonuclease 3'-5' domain containing 1	protein-coding	128.0	267.5	103.5	1513.5	283.5	108.0	136.5	103.0
Merged-chr1-164586318-4	chr1	164586222	164586422	+	880.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	83015.0	NR_151593	102635083.0	Mm.98705	NR_151593	ENSMUSG00000097281	Gm26685	-	predicted gene, 26685	ncRNA	18.5	9.5	12.0	277.5	16.0	7.5	14.0	10.5
Merged-chr12-118198927-3	chr12	118198828	118199028	+	768.333313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	5' UTR (NM_010060, exon 1 of 82)	5' UTR (NM_010060, exon 1 of 82)	115.0	NM_010060	13411.0	Mm.390540	NM_010060	ENSMUSG00000018581	Dnah11	Dnahc11|avc4|b2b1203Clo|b2b1279Clo|b2b1289Clo|b2b1727Clo|b2b598Clo|iv|lrd	dynein, axonemal, heavy chain 11	protein-coding	15.0	10.0	20.0	100.5	24.0	7.5	17.0	8.5
Merged-chr5-33352158-4	chr5	33352058	33352258	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021500, intron 1 of 8)	ID_B1|SINE|B4	16586.0	NM_021500	59003.0	Mm.138617	NM_021500	ENSMUSG00000079562	Maea	1110030D19Rik|EMP|Gid9	macrophage erythroblast attacher	protein-coding	22.0	28.5	12.0	380.0	75.5	39.0	27.0	29.5
Merged-chr7-130847399-4	chr7	130847323	130847523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18301.0	NM_133942	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	31.5	50.0	34.0	742.0	93.0	18.0	40.5	39.5
Merged-chr17-5493959-4	chr17	5493840	5494040	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	1340.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	24.5	22.5	47.0	661.5	60.5	9.5	36.5	38.5
Merged-chr10-117147681-4	chr10	117147567	117147767	+	934.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 1 of 9)	intron (NM_177798, intron 1 of 9)	807.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	15.0	19.5	7.0	79.5	48.0	11.5	10.5	3.5
Merged-chr14-100026205-1	chr14	100026105	100026305	+	708.0	f0_balb.idr	intron (NM_010636, intron 2 of 6)	intron (NM_010636, intron 2 of 6)	123591.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	6.0	10.0	6.0	219.0	9.5	8.5	3.0	1.5
Merged-chr3-89795751-3	chr3	89795656	89795856	+	606.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22147.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	8.0	12.5	4.0	101.0	7.0	10.0	5.0	11.5
Merged-chr4-116655777-4	chr4	116655667	116655867	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-4093.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	11.5	18.5	13.5	278.5	57.0	10.0	22.5	14.0
Merged-chr18-34103239-2	chr18	34103139	34103339	+	806.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96033.0	NM_013512	13824.0	Mm.3465	NM_013512	ENSMUSG00000024376	Epb41l4a	Epb4.1l4|Epb4.1l4a|NBL4	erythrocyte membrane protein band 4.1 like 4a	protein-coding	5.0	4.5	10.0	54.0	13.5	5.0	2.5	9.5
Merged-chr12-35885356-4	chr12	35885240	35885440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40281.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	41.5	44.5	50.0	846.5	55.5	49.0	44.0	41.5
Merged-chr3-115762815-3	chr3	115762699	115762899	+	878.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47744.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	4.5	13.0	13.0	82.0	12.0	6.5	7.0	8.0
Merged-chr8-128686249-4	chr8	128686162	128686362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010578, intron 1 of 15)	CpG	608.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	27.0	76.0	47.0	552.5	138.0	37.5	85.0	52.0
Merged-chr6-125145168-4	chr6	125145053	125145253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302779)	promoter-TSS (NM_001302779)	-71.0	NR_126495	320678.0	Mm.129415	NM_178787	ENSMUSG00000038271	Iffo1	4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo	intermediate filament family orphan 1	protein-coding	58.5	88.0	45.5	591.5	226.0	54.0	78.5	56.5
Merged-chr17-25320833-4	chr17	25320742	25320942	+	911.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053260, intron 3 of 5)	intron (NM_053260, intron 3 of 5)	2188.0	NM_053260	114662.0	Mm.207082	NM_053260	ENSMUSG00000034039	Prss29	D19363|Isp2|mISP-2	protease, serine 29	protein-coding	26.0	29.0	27.5	464.5	24.0	12.0	9.5	15.0
Merged-chr5-72868507-4	chr5	72868395	72868595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113460)	promoter-TSS (NM_001113460)	-47.0	NM_001113460	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	68.5	82.5	26.5	1015.0	136.5	65.5	70.0	56.5
Merged-chr8-69973789-4	chr8	69973698	69973898	+	828.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 1 of 12)	CpG	585.0	NM_001113346	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	7.0	11.0	11.0	127.5	17.0	5.5	7.5	15.0
Merged-chr5-5380354-7	chr5	5380338	5380538	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011074)	promoter-TSS (NM_011074)	-187.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	29.5	16.0	25.5	380.0	47.0	22.5	25.0	26.5
Merged-chr14-50896277-4	chr14	50896190	50896390	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3035.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	24.0	35.0	15.5	400.0	68.0	19.5	18.5	24.5
Merged-chr9-44655310-3	chr9	44655239	44655439	+	845.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17894.0	NM_001277851	58866.0	Mm.45380	NM_021481	ENSMUSG00000032098	Treh	2210412M19Rik	trehalase (brush-border membrane glycoprotein)	protein-coding	9.5	14.5	10.0	189.0	13.0	3.0	3.5	4.5
Merged-chr2-48949329-4	chr2	48949220	48949420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177313)	promoter-TSS (NM_001177313)	-53.0	NR_149356	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	306.0	503.5	289.5	4967.0	913.5	353.0	453.0	398.0
Merged-chr2-32488849-3	chr2	32488741	32488941	+	993.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37371.0	NM_146118	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	14.5	19.0	3.0	135.0	17.5	5.0	10.0	14.0
Merged-chr10-18431050-3	chr10	18430957	18431157	+	911.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173390, intron 1 of 6)	intron (NM_173390, intron 1 of 6)	23382.0	NM_173390	215819.0	Mm.297971	NM_173390	ENSMUSG00000039835	Nhsl1	5730409E15Rik|A630035H13Rik|A730096F01|BC013565|D10Bwg0940e|mKIAA1357	NHS-like 1	protein-coding	7.5	10.0	15.0	82.0	11.5	3.0	2.5	2.0
Merged-chr8-105636822-4	chr8	105636695	105636895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358924, intron 1 of 11)	CpG	257.0	NM_001358924	13018.0	Mm.269474	NM_181322	ENSMUSG00000005698	Ctcf	AW108038	CCCTC-binding factor	protein-coding	69.0	79.5	52.0	894.5	179.0	81.0	76.0	53.0
Merged-chr5-33358665-4	chr5	33358546	33358746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021500, intron 2 of 8)	intron (NM_021500, intron 2 of 8)	-20050.0	NR_153108	71101.0	Mm.132178	NM_027674	ENSMUSG00000037355	Uvssa	4933407H18Rik|D330017J19Rik|Kiaa1530|mKIAA1530	UV stimulated scaffold protein A	protein-coding	64.0	73.0	69.0	935.5	130.0	35.5	45.0	49.5
Merged-chr17-8905653-4	chr17	8905585	8905785	+	889.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 2 of 21)	intron (NM_001347321, intron 2 of 21)	55700.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	11.5	11.0	15.0	317.5	25.0	6.5	10.0	8.0
Merged-chr7-27490840-4	chr7	27490738	27490938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_018820)	TTS (NM_018820)	3885.0	NM_018820	55942.0	Mm.153684	NM_018820	ENSMUSG00000008384	Sertad1	1110032C13Rik|AV000455|AW456625|Sei-1|Sei1|TRIP-Br1	SERTA domain containing 1	protein-coding	205.5	274.5	252.0	3058.5	565.5	209.0	300.0	212.0
Merged-chr10-93589633-4	chr10	93589502	93589702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027246)	promoter-TSS (NM_027246)	56.0	NM_027246	69878.0	Mm.259642	NM_027246	ENSMUSG00000020018	Snrpf	2010013O18Rik|SMF|sm-F|snRNP-F	small nuclear ribonucleoprotein polypeptide F	protein-coding	87.5	104.0	75.5	341.0	105.0	53.5	47.0	54.0
Merged-chr8-84832376-5	chr8	84832371	84832571	+	970.3666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033145)	promoter-TSS (NR_033145)	189.0	NM_183358	102060.0	Mm.489649	NM_183358	ENSMUSG00000033751	Gadd45gip1	2310040G17Rik|AI425883|Crif1|MRP-L59|Plinp1	growth arrest and DNA-damage-inducible, gamma interacting protein 1	protein-coding	14.0	27.5	19.0	196.5	21.0	24.0	6.5	15.0
Merged-chr4-150656125-4	chr4	150656045	150656245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3971.0	NM_173774	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	34.5	132.5	39.0	423.0	180.5	58.0	55.0	48.0
Merged-chr15-97871236-3	chr15	97871130	97871330	+	880.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009504, intron 4 of 9)	intron (NM_009504, intron 4 of 9)	-26728.0	NM_001204278	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	7.0	11.0	7.0	118.0	16.5	3.0	5.0	3.5
Merged-chr14-70107188-4	chr14	70107094	70107294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021328, intron 1 of 8)	intron (NM_021328, intron 1 of 8)	7101.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	27.5	67.0	58.0	505.5	77.5	44.0	41.5	33.0
Merged-chr1-184851908-4	chr1	184851758	184851958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6011.0	NM_133684	67247.0	Mm.177724	NM_133684	ENSMUSG00000073481	Marc2	2810484M10Rik|Mosc2|mARC1	mitochondrial amidoxime reducing component 2	protein-coding	10.5	19.5	6.5	126.0	32.0	10.0	12.5	24.5
Merged-chr15-59390466-4	chr15	59390404	59390604	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	B1_Mm|SINE|Alu	16306.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	29.0	44.0	11.0	125.0	40.0	13.0	10.0	29.0
Merged-chr9-49485401-4	chr9	49485297	49485497	+	928.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172770, intron 1 of 21)	intron (NM_172770, intron 1 of 21)	828.0	NM_172770	235330.0	Mm.177413	NM_172770	ENSMUSG00000040219	Ttc12	E330017O07Rik	tetratricopeptide repeat domain 12	protein-coding	15.0	23.0	11.0	211.5	35.5	12.5	15.0	6.5
Merged-chr14-51942414-4	chr14	51942296	51942496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19623.0	NM_001011687	497071.0	Mm.378602	NM_001011687	ENSMUSG00000068392	Rnase13	-	ribonuclease, RNase A family, 13 (non-active)	protein-coding	54.0	86.5	51.0	773.5	71.0	29.5	39.0	32.0
Merged-chr17-47521752-4	chr17	47521673	47521873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	16722.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	28.5	33.5	38.0	601.5	47.5	21.0	27.5	25.5
Merged-chr2-112394184-4	chr2	112394107	112394307	+	901.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024254, intron 1 of 9)	L2|LINE|L2	14996.0	NM_024254	72425.0	Mm.425091	NM_024254	ENSMUSG00000027132	Katnbl1	2410042D21Rik|AA166487|AA473307|AI467442	katanin p80 subunit B like 1	protein-coding	10.5	7.0	7.5	186.5	38.0	6.0	8.0	13.5
Merged-chr15-84072363-4	chr15	84072262	84072462	+	894.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7013.0	NM_029946	77627.0	Mm.196288	NM_029946	ENSMUSG00000022441	Efcab6	4931407K02Rik|4932408N08Rik|bM150J22.2|mKIAA1672	EF-hand calcium binding domain 6	protein-coding	10.0	31.0	10.0	256.0	24.5	9.5	15.5	24.5
Merged-chr16-38522715-4	chr16	38522633	38522833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024273)	promoter-TSS (NM_024273)	-70.0	NM_024273	76916.0	Mm.132231	NM_024273	ENSMUSG00000002846	Timmdc1	2810021C21Rik|4930455C21Rik|AV135763	translocase of inner mitochondrial membrane domain containing 1	protein-coding	202.5	314.0	180.0	3681.5	515.5	211.0	246.0	246.5
Merged-chr10-95367895-4	chr10	95367782	95367982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	31606.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	44.5	39.5	50.0	645.5	82.0	36.0	34.5	38.0
Merged-chr2-48694741-4	chr2	48694639	48694839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119370.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	40.5	34.5	31.0	615.5	94.5	28.0	37.0	36.5
Merged-chr15-101105584-4	chr15	101105488	101105688	+	889.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10167.0	NM_144790	208258.0	Mm.152952	NM_144790	ENSMUSG00000047034	Ankrd33	A930021G21Rik|Panky|Panky-a	ankyrin repeat domain 33	protein-coding	4.5	9.5	4.5	108.0	29.0	22.0	13.0	18.0
Merged-chr4-135282900-4	chr4	135282789	135282989	+	929.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10129.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	16.5	31.0	11.5	126.5	37.0	7.5	3.5	16.5
Merged-chr1-152573251-4	chr1	152573143	152573343	+	985.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	51974.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	21.0	22.5	41.5	396.5	49.0	13.0	32.5	27.0
Merged-chr7-110313580-4	chr7	110313473	110313673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 37 of 40)	intron (NM_177324, intron 37 of 40)	91870.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	147.0	181.5	208.5	2580.5	255.0	80.0	117.0	114.5
Merged-chr19-21461410-4	chr19	21461284	21461484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010266, intron 1 of 13)	L1MB5|LINE|L1	11277.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	65.5	87.0	83.0	1288.0	109.0	41.0	49.5	51.0
Merged-chr7-6169654-4	chr7	6169581	6169781	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER91A|DNA|hAT-Tip100	-2832.0	NM_028316	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	29.5	27.5	52.0	600.0	36.0	18.5	25.0	34.0
Merged-chr1-79762975-4	chr1	79762863	79763063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-1194.0	NM_027057	69368.0	Mm.293273	NM_027057	ENSMUSG00000073643	Wdfy1	1700013B03Rik|1700120F24Rik|FENS-1|Jr1|WDF1|ZFYVE17|mKIAA1435	WD repeat and FYVE domain containing 1	protein-coding	25.5	26.0	16.5	412.0	130.5	47.5	70.5	65.5
Merged-chr1-36369194-4	chr1	36369089	36369289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310513)	promoter-TSS (NM_001310513)	-8.0	NM_001310513	226976.0	Mm.24734	NM_172652	ENSMUSG00000010453	Kansl3	4632411B12Rik|4932435K23|AI431067|AI647574|C85723|Kiaa1310|mKIAA1310	KAT8 regulatory NSL complex subunit 3	protein-coding	63.5	83.5	42.5	588.5	205.0	97.0	55.0	69.5
Merged-chr1-191095761-4	chr1	191095651	191095851	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-2663.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	22.0	46.5	14.0	372.0	48.5	13.0	19.5	20.5
Merged-chr17-31685650-3	chr17	31685541	31685741	+	804.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7710.0	NM_001278570	12954.0	Mm.1228	NM_013501	ENSMUSG00000024041	Cryaa	Acry-1|Crya-1|Crya1|DAcry-1|lop18	crystallin, alpha A	protein-coding	6.5	16.0	5.0	82.0	14.0	3.5	6.5	16.5
Merged-chr13-95870202-3	chr13	95870095	95870295	+	845.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	21727.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	1.0	1.0	0.5	66.5	29.5	4.5	10.5	28.5
Merged-chr15-91260150-3	chr15	91260047	91260247	+	759.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-68140.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	9.0	14.5	9.5	272.0	12.5	2.0	4.5	7.0
Merged-chr5-147891949-4	chr5	147891827	147892027	+	801.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357002, intron 2 of 5)	(GGGTG)n|Simple_repeat|Simple_repeat	2888.0	NM_001357002	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	6.5	20.0	7.0	118.0	33.5	17.0	12.0	13.5
Merged-chr10-127171086-4	chr10	127170959	127171159	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008080, exon 10 of 11)	exon (NM_008080, exon 10 of 11)	5228.0	NM_001358578	14421.0	Mm.386762	NM_008080	ENSMUSG00000006731	B4galnt1	4933429D13Rik|Gal-NAc-T|GalNAc-T|GalNAcT|Galgt1|Ggm-2|Ggm2	beta-1,4-N-acetyl-galactosaminyl transferase 1	protein-coding	26.5	38.5	22.0	309.5	31.5	17.0	17.0	20.0
Merged-chr1-60974149-4	chr1	60974051	60974251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3763.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	22.0	27.0	44.5	435.5	37.0	17.5	16.0	18.5
Merged-chr4-136124748-4	chr4	136124669	136124869	+	907.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A4|LTR|ERVK	-19053.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	16.0	14.5	2.5	69.0	48.5	19.0	11.0	25.0
Merged-chr7-25238207-10	chr7	25238100	25238300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001031667)	promoter-TSS (NM_001031667)	-349.0	NM_001031667	606496.0	Mm.491101	NM_001031667	ENSMUSG00000057177	Gsk3a	2700086H06Rik	glycogen synthase kinase 3 alpha	protein-coding	57.5	102.5	35.5	707.0	184.5	107.5	97.5	86.5
Merged-chr8-37037645-3	chr8	37037557	37037757	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13419.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	48.5	48.5	45.0	798.5	5.5	0.5	3.0	3.5
Merged-chr3-51185624-4	chr3	51185533	51185733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38814.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	63.0	48.5	46.0	1111.0	215.0	60.0	118.0	100.5
Merged-chr13-48878760-4	chr13	48878631	48878831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033268)	TTS (NM_001033268)	-7846.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	200.0	265.5	172.0	2416.5	370.0	140.0	191.5	143.0
Merged-chr5-66051815-4	chr5	66051733	66051933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	MIR|SINE|MIR	46346.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	18.0	45.0	21.5	600.0	88.5	36.0	43.5	37.5
Merged-chr5-120500275-4	chr5	120500176	120500376	+	994.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023625, intron 1 of 11)	intron (NM_023625, intron 1 of 11)	3347.0	NM_023625	71772.0	Mm.100065	NM_023625	ENSMUSG00000029598	Plbd2	1300012G16Rik|AU019810|P76	phospholipase B domain containing 2	protein-coding	14.0	27.0	27.5	315.0	81.5	12.5	25.5	36.5
Merged-chr4-116877335-4	chr4	116877310	116877510	+	954.642822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029912)	promoter-TSS (NM_001029912)	8.0	NM_001029912	74464.0	Mm.218946	NM_001029912	ENSMUSG00000033948	Zswim5	4933426E21Rik|AI503093|mKIAA1511	zinc finger SWIM-type containing 5	protein-coding	16.0	15.0	20.0	165.0	13.5	9.5	7.5	6.5
Merged-chr4-58723051-3	chr4	58722978	58723178	+	827.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62642.0	NM_146920	258922.0	Mm.223327	NM_146920	ENSMUSG00000043385	Olfr267	MOR262-1	olfactory receptor 267	protein-coding	10.0	12.0	8.0	166.0	24.0	3.0	4.0	7.0
Merged-chr6-53996785-3	chr6	53996692	53996892	+	966.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110484, intron 2 of 3)	intron (NR_110484, intron 2 of 3)	18101.0	NR_110484	320178.0	Mm.320413	NR_110484	ENSMUSG00000108060	4921529L05Rik	4930590G02Rik	RIKEN cDNA 4921529L05 gene	ncRNA	6.5	4.0	21.0	59.0	53.0	10.5	10.5	8.0
Merged-chr3-96098777-4	chr3	96098660	96098860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5767.0	NM_001025613	229603.0	Mm.272336	NM_001025613	ENSMUSG00000038495	Otud7b	2900060B22Rik|4930463P07Rik|AI462125|CEZANNE|Trabid2|Za20d1	OTU domain containing 7B	protein-coding	46.5	67.5	25.5	508.0	117.5	33.5	56.5	57.0
Merged-chr13-119461999-3	chr13	119461888	119462088	+	871.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113550)	promoter-TSS (NM_001113550)	-771.0	NR_153825	67392.0	Mm.390641	NM_026127	ENSMUSG00000062822	4833420G17Rik	2210017J06Rik|5730533D17Rik|AW107518|C85193	RIKEN cDNA 4833420G17 gene	protein-coding	7.0	8.0	2.5	135.5	14.5	9.0	7.0	15.0
Merged-chr18-9732209-4	chr18	9732109	9732309	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	24561.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	20.0	25.0	19.5	359.0	39.0	10.0	9.0	6.0
Merged-chr16-94371634-4	chr16	94371491	94371691	+	855.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019543)	promoter-TSS (NM_019543)	-576.0	NM_001159617	56176.0	Mm.474449	NM_019543	ENSMUSG00000022940	Pigp	Dcrc|Dscr5	phosphatidylinositol glycan anchor biosynthesis, class P	protein-coding	11.5	7.5	5.5	120.5	25.5	5.0	10.5	12.5
Merged-chr11-76900215-4	chr11	76900092	76900292	+	906.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4353.0	NM_025655	66601.0	Mm.25138	NM_025655	ENSMUSG00000020839	Tmigd1	2010002A20Rik|Tmigd	transmembrane and immunoglobulin domain containing 1	protein-coding	15.5	22.5	21.5	269.0	32.5	9.0	10.5	20.5
Merged-chr4-133757534-4	chr4	133757426	133757626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3915.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	32.0	46.0	24.5	304.5	63.5	29.5	32.0	31.0
Merged-chr1-127257203-4	chr1	127257087	127257287	+	989.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 2 of 17)	MER77B|LTR|ERVL	52201.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	25.5	41.5	19.0	404.5	40.5	19.0	18.0	29.5
Merged-chr8-125729956-4	chr8	125729846	125730046	+	967.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-4257.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	36.0	17.0	18.0	297.0	42.0	13.0	40.0	31.0
Merged-chr15-102377155-7	chr15	102377037	102377237	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10169.0	NM_001348205	170574.0	Mm.263284	NM_130458	ENSMUSG00000060284	Sp7	6430578P22Rik|C22|Osx	Sp7 transcription factor 7	protein-coding	5.0	9.0	7.0	52.5	12.0	8.0	6.5	7.5
Merged-chr5-24423711-4	chr5	24423596	24423796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007668)	promoter-TSS (NM_007668)	-166.0	NM_007668	12568.0	Mm.298798	NM_007668	ENSMUSG00000028969	Cdk5	AW048668|Crk6	cyclin-dependent kinase 5	protein-coding	257.5	397.5	263.5	3656.5	608.5	234.0	276.0	239.5
Merged-chr3-51238715-2	chr3	51238615	51238815	+	655.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009834, intron 1 of 2)	ORR1D1|LTR|ERVL-MaLR	14268.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	0.5	6.0	7.0	114.5	5.5	4.5	5.0	4.5
Merged-chr8-123065461-4	chr8	123065360	123065560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153176)	promoter-TSS (NM_153176)	-48.0	NM_153176	234847.0	Mm.292075	NM_153176	ENSMUSG00000000738	Spg7	AI452278|AU015315|Cmar|PGN	SPG7, paraplegin matrix AAA peptidase subunit	protein-coding	132.5	145.0	74.0	1285.0	237.0	107.0	119.0	105.5
Merged-chr5-8944083-4	chr5	8943967	8944167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008830, intron 21 of 27)	MIR|SINE|MIR	50346.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	34.0	61.5	49.0	946.5	162.0	38.5	68.5	53.0
Merged-chr13-113614126-4	chr13	113614037	113614237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	4427.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	99.0	128.0	159.5	1711.5	230.5	86.5	141.0	97.5
Merged-chr13-23762584-7	chr13	23762470	23762670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013550)	promoter-TSS (NM_013550)	-184.0	NM_013550	360198.0	Mm.221301	NM_013550	ENSMUSG00000069265	Hist1h3a	-	histone cluster 1, H3a	protein-coding	38.0	39.0	54.0	373.0	100.0	37.0	47.5	56.0
Merged-chr6-71831260-4	chr6	71831153	71831353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253681)	promoter-TSS (NM_001253681)	-67.0	NM_001362134	76614.0	Mm.235123	NM_029673	ENSMUSG00000052337	Immt	1700082C19Rik|D830041H16Rik|HMP|P87|P87/89|P89	inner membrane protein, mitochondrial	protein-coding	166.0	315.0	145.5	2817.0	355.5	138.5	221.5	166.0
Merged-chr8-35379371-4	chr8	35379276	35379476	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177741, intron 1 of 1)	intron (NM_177741, intron 1 of 1)	3635.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	13.5	28.5	17.5	478.5	32.0	11.0	21.0	19.5
Merged-chr13-41505878-3	chr13	41505748	41505948	+	960.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18488.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	17.0	7.5	9.0	201.0	10.5	1.0	1.5	7.5
Merged-chr1-24612747-4	chr1	24612645	24612845	+	866.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25308.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	505.5	757.0	685.5	41618.0	26.5	18.5	10.5	5.0
Merged-chr8-79037811-3	chr8	79037708	79037908	+	740.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	intron (NM_001294279, intron 1 of 14)	9371.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	9.5	15.5	12.5	266.0	26.5	5.5	7.0	3.0
Merged-chr9-50584830-1	chr9	50584730	50584930	+	638.5	f0_balb.idr	Intergenic	RLTR23|LTR|ERV1	19019.0	NM_025848	66925.0	Mm.10406	NM_025848	ENSMUSG00000000171	Sdhd	3110001M13Rik|AVLL5809|C78570|PRO19626	succinate dehydrogenase complex, subunit D, integral membrane protein	protein-coding	4.5	9.0	8.5	91.5	10.5	0.5	5.5	2.0
Merged-chr14-98406545-3	chr14	98406439	98406639	+	983.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-236774.0	NM_007826	13134.0	Mm.320593	NM_007826	ENSMUSG00000055639	Dach1	Dac|Dach	dachshund family transcription factor 1	protein-coding	19.5	16.5	21.5	484.0	5.5	0.5	2.5	6.5
Merged-chr16-48992811-8	chr16	48992683	48992883	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027341, intron 1 of 30)	intron (NM_027341, intron 1 of 30)	1329.0	NM_027341	224170.0	Mm.275138	NM_027341	ENSMUSG00000064061	Dzip3	2310047C04Rik|2A-HUB|6430549P11Rik|A230104G20	DAZ interacting protein 3, zinc finger	protein-coding	7.5	11.5	10.0	142.5	30.5	7.5	11.5	11.0
Merged-chr7-90131872-7	chr7	90131767	90131967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	1654.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	9.0	21.0	14.5	118.0	43.0	16.0	34.0	24.5
Merged-chr11-100397895-4	chr11	100397807	100398007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132425)	promoter-TSS (NR_132425)	-117.0	NM_010593	16480.0	Mm.299774	NM_010593	ENSMUSG00000001552	Jup	Ctnng|D930025P04Rik|PG	junction plakoglobin	protein-coding	195.0	324.0	154.0	2346.0	515.5	228.5	257.5	194.5
Merged-chr1-88495441-3	chr1	88495358	88495558	+	897.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	14608.0	NM_008132	14659.0	Mm.5187	NM_008132	ENSMUSG00000062310	Glrp1	GRP-1	glutamine repeat protein 1	protein-coding	3.5	8.0	3.0	175.0	6.5	4.5	18.5	16.0
Merged-chr4-133911086-4	chr4	133910978	133911178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-23281.0	NM_009097	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	165.0	252.0	141.0	1981.5	510.5	235.0	261.0	196.5
Merged-chr12-99874837-3	chr12	99874740	99874940	+	893.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030172, intron 3 of 5)	intron (NM_030172, intron 3 of 5)	8602.0	NM_030172	78767.0	Mm.235920	NM_030172	ENSMUSG00000021176	Efcab11	2610021K21Rik|2610110A13Rik	EF-hand calcium binding domain 11	protein-coding	9.0	4.5	8.0	164.0	12.0	7.0	5.5	7.5
Merged-chr2-114233298-4	chr2	114233197	114233397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31865.0	NM_175466	228491.0	Mm.132523	NM_175466	ENSMUSG00000040321	Zfp770	6430601A21Rik|Znf770	zinc finger protein 770	protein-coding	18.0	31.5	14.5	349.5	60.5	11.5	18.5	25.0
Merged-chr5-100039007-4	chr5	100038913	100039113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026421)	promoter-TSS (NM_026421)	209.0	NM_016690	50926.0	Mm.389579	NM_016690	ENSMUSG00000029328	Hnrnpdl	AA407431|AA959857|D5Ertd650e|D5Wsu145e|Hnrnpdl1|Hnrpdl|JKTBP|hnRNP DL|hnRNP-DL	heterogeneous nuclear ribonucleoprotein D-like	protein-coding	147.5	263.0	164.0	2168.0	449.0	151.5	167.0	144.0
Merged-chr4-125055472-4	chr4	125055353	125055553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145552)	TTS (NM_145552)	10204.0	NM_175223	75563.0	Mm.50304	NM_175223	ENSMUSG00000042707	Dnali1	1700023A09Rik|AW049135	dynein, axonemal, light intermediate polypeptide 1	protein-coding	70.5	89.0	51.0	1030.5	145.5	58.0	57.5	52.0
Merged-chr9-69989414-4	chr9	69989304	69989504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016787)	promoter-TSS (NM_016787)	-62.0	NM_016787	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	92.5	128.0	51.5	1169.5	266.5	139.5	98.5	120.0
Merged-chr1-59317597-4	chr1	59317500	59317700	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356389, intron 10 of 13)	intron (NM_001356389, intron 10 of 13)	60694.0	NM_001356389	271697.0	Mm.297713	NM_001033373	ENSMUSG00000026023	Cdk15	Als2cr7|Pftk2	cyclin-dependent kinase 15	protein-coding	13.5	32.0	7.0	54.5	68.5	13.5	20.0	4.5
Merged-chr6-124847465-4	chr6	124847352	124847552	+	959.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013534, intron 9 of 14)	intron (NM_013534, intron 9 of 14)	-7177.0	NM_013530	14695.0	Mm.68889	NM_013530	ENSMUSG00000023439	Gnb3	Gnb-3	guanine nucleotide binding protein (G protein), beta 3	protein-coding	30.5	33.0	8.5	193.5	61.5	19.5	14.5	21.5
Merged-chr7-101011986-4	chr7	101011829	101012029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008773)	promoter-TSS (NM_008773)	69.0	NM_001302347	18442.0	Mm.3000	NM_008773	ENSMUSG00000032860	P2ry2	P2U1|P2Y2	purinergic receptor P2Y, G-protein coupled 2	protein-coding	66.0	52.0	62.5	884.0	53.0	18.5	34.0	24.0
Merged-chr6-39379469-4	chr6	39379355	39379555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1748.0	NR_155077	72144.0	Mm.482167	NM_028123	ENSMUSG00000029924	Slc37a3	2610507O21Rik|AU044904	solute carrier family 37 (glycerol-3-phosphate transporter), member 3	protein-coding	66.0	98.0	73.0	941.5	134.0	45.5	46.5	57.5
Merged-chr11-49728051-3	chr11	49727954	49728154	+	710.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15332.0	NM_212484	104625.0	Mm.247113	NM_212484	ENSMUSG00000020362	Cnot6	CCR4	CCR4-NOT transcription complex, subunit 6	protein-coding	7.0	14.0	5.0	113.0	16.5	13.5	10.5	7.0
Merged-chr2-31052631-4	chr2	31052531	31052731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019406)	TTS (NM_019406)	43869.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	90.5	150.0	99.5	1397.0	172.0	64.0	75.5	75.5
Merged-chr1-42851214-4	chr1	42851131	42851331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023514)	promoter-TSS (NM_023514)	-2.0	NM_023514	69527.0	Mm.252982	NM_023514	ENSMUSG00000060679	Mrps9	2310002A08Rik|AW322516|Mrp-S9|S9mt|mg637	mitochondrial ribosomal protein S9	protein-coding	244.5	302.5	207.5	3672.0	525.0	200.0	287.0	248.5
Merged-chr17-40877797-3	chr17	40877703	40877903	+	814.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027834, intron 1 of 1)	intron (NM_027834, intron 1 of 1)	2755.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	3.5	2.5	3.0	30.0	24.5	10.5	13.5	5.0
Merged-chr10-13964792-4	chr10	13964690	13964890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1285.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	243.5	488.0	394.0	4615.5	683.5	296.0	388.5	251.0
Merged-chr11-59202466-4	chr11	59202368	59202568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037964)	promoter-TSS (NR_037964)	-18.0	NM_001302335	67212.0	Mm.282694	NM_026035	ENSMUSG00000036860	Mrpl55	2810038N09Rik|L55mt|MRP-L55	mitochondrial ribosomal protein L55	protein-coding	39.0	40.5	27.0	396.0	151.0	86.0	73.5	59.0
Merged-chr6-118066746-2	chr6	118066646	118066846	+	573.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001362103, intron 1 of 12)	intron (NM_001362103, intron 1 of 12)	361.0	NM_001362103	70727.0	Mm.87660	NM_027526	ENSMUSG00000030134	Rasgef1a	6330404M18Rik|AI835194	RasGEF domain family, member 1A	protein-coding	9.5	11.0	6.0	57.5	6.5	6.0	3.0	9.5
Merged-chr8-94549689-4	chr8	94549599	94549799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153507, intron 2 of 15)	ID_B1|SINE|B4	16671.0	NM_153507	234577.0	Mm.291815	NM_153507	ENSMUSG00000034361	Cpne2	3322401K10Rik	copine II	protein-coding	24.0	39.0	37.0	902.0	103.5	40.0	40.5	49.0
Merged-chr12-8521610-4	chr12	8521518	8521718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17948.0	NM_001038660	328059.0	Mm.46326	NM_177802	ENSMUSG00000020600	Slc7a15	Arpat	solute carrier family 7 (cationic amino acid transporter, y+ system), member 15	protein-coding	264.0	390.0	316.0	4642.0	591.0	281.0	274.5	242.0
Merged-chr8-10849712-4	chr8	10849661	10849861	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32693.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	21.0	43.5	51.0	631.0	46.5	13.5	7.5	29.0
Merged-chr18-58567998-4	chr18	58567898	58568098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081072, intron 1 of 9)	Lx7|LINE|L1	11758.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	42.5	63.0	44.5	457.5	74.0	25.5	20.0	19.0
Merged-chr15-6519634-1	chr15	6519534	6519734	+	692.599976	f0_balb.idr	Intergenic	Intergenic	-60213.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	9.0	15.0	13.0	116.5	15.0	7.0	5.5	3.5
Merged-chr11-106458747-3	chr11	106458644	106458844	+	639.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 2 of 21)	intron (NM_023913, intron 2 of 21)	29052.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	5.0	7.5	8.0	105.0	21.5	2.0	10.0	9.5
Merged-chr9-13299386-4	chr9	13299283	13299483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52427.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	38.5	37.5	25.5	509.0	74.0	25.0	39.0	27.5
Merged-chr5-43672662-1	chr5	43672562	43672762	+	1000.0	f1_c57bl6.idr	intron (NM_001359906, intron 4 of 37)	intron (NM_001359906, intron 4 of 37)	10283.0	NM_001359903	231214.0	Mm.44434	NM_172274	ENSMUSG00000039765	Cc2d2a	5730509K17Rik|b2b1035Clo	coiled-coil and C2 domain containing 2A	protein-coding	9.0	14.0	23.0	148.0	2.0	3.5	2.5	5.0
Merged-chr18-11352533-4	chr18	11352416	11352616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-280760.0	NM_001252495	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	48.5	72.0	41.0	756.5	50.0	13.5	22.0	28.5
Merged-chr5-127611327-4	chr5	127611230	127611430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 1 of 7)	intron (NM_133895, intron 1 of 7)	6062.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	36.5	53.0	36.0	847.5	94.0	42.0	38.5	32.5
Merged-chr6-125074151-3	chr6	125074061	125074261	+	639.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163268, intron 1 of 1)	intron (NM_001163268, intron 1 of 1)	2884.0	NM_001163268	381810.0	Mm.333386	NM_001163268	ENSMUSG00000067714	Lpar5	GPR93|Gm1072|Gpr92|LPA5	lysophosphatidic acid receptor 5	protein-coding	7.0	9.0	5.0	78.0	6.5	10.0	2.0	10.5
Merged-chr8-69750059-4	chr8	69749939	69750139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001200023)	promoter-TSS (NM_001200023)	-77.0	NM_001200023	620419.0	Mm.460423	NM_001200023	ENSMUSG00000092260	Zfp963	-	zinc finger protein 963	protein-coding	150.5	187.5	179.5	2721.0	334.5	114.5	219.0	148.5
Merged-chr3-60528415-4	chr3	60528294	60528494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	27215.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	47.0	31.0	46.0	497.5	63.0	24.0	25.5	29.0
Merged-chr5-33275158-4	chr5	33275062	33275262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310535)	promoter-TSS (NM_001310535)	-158.0	NM_001198860	13016.0	Mm.7286	NM_013502	ENSMUSG00000037373	Ctbp1	BARS|CtBP3/BARS|D4S115h|D5H4S115|D5H4S115E	C-terminal binding protein 1	protein-coding	95.0	153.0	95.5	1382.5	177.5	79.0	88.0	106.0
Merged-chr11-3910763-4	chr11	3910656	3910856	+	916.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153142, intron 1 of 1)	intron (NM_153142, intron 1 of 1)	3908.0	NM_153142	103710.0	Mm.171514	NM_153142	ENSMUSG00000048807	Slc35e4	A330108F03Rik|AI414849|AI536442	solute carrier family 35, member E4	protein-coding	19.5	22.5	19.0	308.5	26.5	14.0	15.0	17.5
Merged-chr1-37491827-4	chr1	37491675	37491875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 4 of 15)	intron (NM_173870, intron 4 of 15)	-3170.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	91.5	166.0	103.0	1357.5	234.5	82.5	77.5	91.5
Merged-chr8-18912414-3	chr8	18912311	18912511	+	890.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38460.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	20.5	23.0	18.0	421.5	7.0	2.5	0.0	1.0
Merged-chr6-16892094-4	chr6	16892013	16892213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 1 of 6)	intron (NM_031198, intron 1 of 6)	6328.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	84.5	129.0	76.5	1289.0	151.0	63.5	54.5	43.5
Merged-chr11-115192349-4	chr11	115192263	115192463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 2 of 9)	intron (NM_001033393, intron 2 of 9)	4876.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	47.5	54.5	36.0	787.0	135.0	36.0	47.5	54.0
Merged-chr6-17788197-4	chr6	17788091	17788291	+	670.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	RMER1C|Other|Other	39021.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	13.0	17.0	6.5	86.5	25.0	6.0	7.0	9.5
Merged-chr3-59120684-4	chr3	59120584	59120784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287119, intron 1 of 2)	MER20|DNA|hAT-Charlie	10078.0	NM_001287124	140795.0	Mm.439021	NM_133200	ENSMUSG00000036381	P2ry14	A330108O13Rik|Gpr105|P2Y14	purinergic receptor P2Y, G-protein coupled, 14	protein-coding	18.5	39.5	23.5	431.0	57.0	18.5	34.5	23.5
Merged-chr6-48554795-4	chr6	48554705	48554905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177736)	promoter-TSS (NM_177736)	6.0	NM_177736	243371.0	Mm.290764	NM_177736	ENSMUSG00000073096	Lrrc61	BC027309	leucine rich repeat containing 61	protein-coding	154.5	222.0	145.0	2378.0	322.0	121.5	163.5	112.0
Merged-chr1-155028882-4	chr1	155028779	155028979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54385.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	26.0	52.5	30.0	540.0	87.0	28.0	37.0	36.5
Merged-chr14-57746716-4	chr14	57746619	57746819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015771)	promoter-TSS (NM_015771)	-596.0	NM_015771	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	39.0	32.0	38.0	581.5	92.0	25.0	43.5	46.5
Merged-chr15-66093673-4	chr15	66093578	66093778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	C-rich|Low_complexity|Low_complexity	-116874.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	32.0	47.0	19.5	527.0	67.0	16.0	30.0	27.5
Merged-chr8-90877120-4	chr8	90877043	90877243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	48308.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	80.5	82.0	70.0	623.0	108.0	42.0	34.5	34.0
Merged-chr14-45669911-4	chr14	45669804	45670004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-11761.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	38.0	39.0	21.0	490.0	120.0	32.0	35.0	28.0
Merged-chr11-83533425-4	chr11	83533324	83533524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2906.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	50.5	68.0	17.5	445.0	104.0	33.0	24.5	42.5
Merged-chr18-39737888-4	chr18	39737785	39737985	+	966.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35612.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	27.0	52.0	30.5	171.5	52.0	21.5	12.0	20.0
Merged-chr11-69948421-7	chr11	69948318	69948518	+	944.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009204)	promoter-TSS (NM_009204)	-221.0	NM_001359114	20528.0	Mm.10661	NM_009204	ENSMUSG00000018566	Slc2a4	GT2|Glut-4|Glut4|twgy	solute carrier family 2 (facilitated glucose transporter), member 4	protein-coding	6.0	13.0	11.5	74.0	25.5	8.0	4.0	6.5
Merged-chr5-36563970-4	chr5	36563871	36564071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	18426.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	39.5	48.5	84.0	1019.5	90.5	18.5	55.5	51.5
Merged-chr10-119239286-8	chr10	119239212	119239412	+	938.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027994, intron 1 of 14)	CpG	743.0	NM_027994	71902.0	Mm.203965	NM_027994	ENSMUSG00000020114	Cand1	2310038O07Rik|6330512O03Rik|AI195005|AI846556|D10Ertd516e|Tp120a|mKIAA0829	cullin associated and neddylation disassociated 1	protein-coding	12.0	14.5	26.0	192.5	48.5	26.0	20.0	16.5
Merged-chr4-85695388-3	chr4	85695287	85695487	+	962.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie5|DNA|hAT-Charlie	-358528.0	NM_029967	77739.0	Mm.331690	NM_029967	ENSMUSG00000066113	Adamtsl1	5930437A14Rik|6720426B09Rik|ADAMTSL-1	ADAMTS-like 1	protein-coding	0.0	2.0	5.0	70.5	52.0	14.5	21.0	24.5
Merged-chr5-118466563-4	chr5	118466454	118466654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58A|DNA|hAT-Charlie	-94165.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	53.5	66.5	29.5	447.0	66.5	26.5	20.5	25.5
Merged-chr2-166773804-2	chr2	166773704	166773904	+	973.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19963.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	6.0	6.0	14.0	39.5	12.5	2.0	2.5	10.5
Merged-chr8-117569618-2	chr8	117569518	117569718	+	730.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 7 of 32)	intron (NM_172285, intron 7 of 32)	71343.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	7.5	3.5	3.0	122.5	13.5	8.5	6.5	10.5
Merged-chr7-112180340-4	chr7	112180230	112180430	+	726.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20848.0	NM_001360257	50781.0	Mm.55143	NM_015814	ENSMUSG00000030772	Dkk3	AW061014|C87148|dkk-3|mDkk-3	dickkopf WNT signaling pathway inhibitor 3	protein-coding	8.5	8.5	5.5	180.0	20.5	8.5	13.5	8.5
Merged-chr10-17385433-2	chr10	17385333	17385533	+	662.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-289651.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	5.0	15.5	5.0	36.0	18.5	13.0	2.0	1.0
Merged-chr12-105013271-4	chr12	105013143	105013343	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3434.0	NM_172500	212073.0	Mm.212688	NM_172500	ENSMUSG00000054150	Syne3	KASH3|nesprin-3	spectrin repeat containing, nuclear envelope family member 3	protein-coding	48.0	81.0	79.0	881.5	46.0	16.0	28.0	17.5
Merged-chr4-40773327-4	chr4	40773229	40773429	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15444.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	29.0	31.5	19.0	378.0	60.0	21.5	16.5	27.5
Merged-chr4-3799833-1	chr4	3799733	3799933	+	635.0	f1_balb.idr	Intergenic	Intergenic	35822.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	3.0	8.5	2.0	26.5	6.0	5.5	6.0	4.5
Merged-chr1-16104837-4	chr1	16104737	16104937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011291)	promoter-TSS (NM_011291)	-404.0	NM_011291	19989.0	Mm.319659	NM_011291	ENSMUSG00000043716	Rpl7	Rpl7a|Surf-3	ribosomal protein L7	protein-coding	72.0	96.5	104.5	1410.0	217.0	79.5	84.0	85.0
Merged-chr1-23975296-4	chr1	23975207	23975407	+	854.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	30333.0	NM_026503	68002.0	Mm.250424	NM_026503	ENSMUSG00000026154	Sdhaf4	1110058L19Rik|1700001E18Rik|C6orf57	succinate dehydrogenase complex assembly factor 4	protein-coding	0.0	11.0	7.5	101.5	29.5	10.0	9.0	9.5
Merged-chr8-106059423-4	chr8	106059304	106059504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010901)	promoter-TSS (NM_010901)	-199.0	NM_010901	18021.0	Mm.383185	NM_010901	ENSMUSG00000031902	Nfatc3	C80703|D8Ertd281e|NFAT4|NFATx	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3	protein-coding	223.0	402.5	271.5	3581.5	528.0	242.0	248.0	236.5
Merged-chr18-54989271-4	chr18	54989179	54989379	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 1 of 8)	intron (NM_001360787, intron 1 of 8)	901.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	29.5	23.5	20.5	323.5	33.5	22.5	14.5	13.5
Merged-chr11-23665941-4	chr11	23665848	23666048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023651)	promoter-TSS (NM_023651)	-13.0	NM_023651	72129.0	Mm.29536	NM_023651	ENSMUSG00000020283	Pex13	2610008O20Rik	peroxisomal biogenesis factor 13	protein-coding	78.5	118.0	80.0	1321.0	264.5	85.0	76.0	74.0
Merged-chr4-12533114-4	chr4	12533020	12533220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-361105.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	76.0	106.0	75.5	1409.0	269.0	71.5	71.0	67.5
Merged-chr12-36380408-4	chr12	36380289	36380489	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1061.0	NM_001289504	75847.0	Mm.261764	NM_178629	ENSMUSG00000043153	Ispd	4930579E17Rik|AV040780	isoprenoid synthase domain containing	protein-coding	22.0	24.5	13.5	610.0	65.0	10.0	35.5	31.0
Merged-chr16-30968626-4	chr16	30968550	30968750	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 3 of 3)	intron (NM_198626, intron 3 of 3)	112782.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	114.5	213.5	116.5	1633.5	53.5	11.5	27.5	13.0
Merged-chr10-84514356-3	chr10	84514271	84514471	+	875.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19517.0	NM_175451	216197.0	Mm.334999	NM_175451	ENSMUSG00000046841	Ckap4	5630400A09Rik|CLIMP-63|P63	cytoskeleton-associated protein 4	protein-coding	4.5	13.5	1.0	98.5	15.5	7.5	6.0	8.0
Merged-chr11-120938970-4	chr11	120938844	120939044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6072.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	52.0	153.0	52.5	756.5	165.0	82.5	72.0	44.5
Merged-chr16-30870198-4	chr16	30870101	30870301	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	211231.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	21.5	25.5	17.5	256.0	63.0	14.5	16.5	25.0
Merged-chr8-70674217-4	chr8	70674130	70674330	+	780.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015816, intron 1 of 4)	ID_B1|SINE|B4	999.0	NM_015816	50783.0	Mm.248188	NM_015816	ENSMUSG00000031848	Lsm4	-	LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	5.5	10.5	6.5	145.5	23.0	4.0	3.5	8.5
Merged-chr13-22043101-4	chr13	22042994	22043194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178198)	promoter-TSS (NM_178198)	-136.0	NM_178198	319183.0	Mm.371766	NM_178198	ENSMUSG00000069300	Hist1h2bj	-	histone cluster 1, H2bj	protein-coding	140.5	254.5	141.5	2045.5	346.0	108.5	147.5	154.0
Merged-chr10-128232187-4	chr10	128232095	128232295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008600)	TTS (NM_008600)	132.0	NM_001136082	21853.0	Mm.6458	NM_011589	ENSMUSG00000039994	Timeless	C77407|Debt69|tim	timeless circadian clock 1	protein-coding	49.0	59.5	58.0	492.5	71.0	48.5	32.0	66.0
Merged-chr9-90126875-4	chr9	90126777	90126977	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12057.0	NM_024431	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	12.5	17.5	6.5	213.5	42.0	18.0	17.0	14.5
Merged-chr18-38003405-4	chr18	38003305	38003505	+	828.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4436.0	NM_001205336	106952.0	Mm.247642	NM_139206	ENSMUSG00000024451	Arap3	Centd3|Drag1|E030006K04Rik|cnt-d3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	protein-coding	15.5	14.5	5.5	209.0	25.5	12.0	12.5	11.5
Merged-chr3-144205384-6	chr3	144205300	144205500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010723)	promoter-TSS (NM_010723)	-145.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	78.5	101.5	117.5	1373.0	187.5	66.0	67.5	62.5
Merged-chr7-6940962-4	chr7	6940872	6941072	+	932.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360502, intron 5 of 7)	intron (NM_001360502, intron 5 of 7)	35690.0	NR_036631	116811.0	Mm.381671	NR_036631	ENSMUSG00000108043	Zim3	1700128I23Rik	zinc finger, imprinted 3	ncRNA	17.0	20.0	17.0	236.5	44.5	14.5	12.0	8.5
Merged-chr17-86447318-4	chr17	86447208	86447408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 2 of 14)	intron (NM_011104, intron 2 of 14)	-160130.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	101.5	131.0	81.0	1619.0	187.0	53.0	78.5	79.0
Merged-chr3-122984598-4	chr3	122984488	122984688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133857)	promoter-TSS (NM_133857)	-141.0	NM_133857	99526.0	Mm.491248	NM_133857	ENSMUSG00000039701	Usp53	AA939927|Phxr3|Sp6|mKIAA1350|mbo	ubiquitin specific peptidase 53	protein-coding	260.5	358.5	245.5	3642.0	670.0	254.0	323.5	264.5
Merged-chr11-103315535-4	chr11	103315436	103315636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29166.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	38.0	113.0	64.5	392.0	140.5	46.0	42.5	35.0
Merged-chr3-100641307-4	chr3	100641199	100641399	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010763, intron 5 of 12)	intron (NM_010763, intron 5 of 12)	44174.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	13.5	20.0	14.5	505.5	50.0	9.5	23.5	33.5
Merged-chr19-5567605-4	chr19	5567559	5567759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033448)	promoter-TSS (NM_001033448)	-365.0	NM_001362046	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	60.5	70.5	40.5	536.0	170.5	76.5	50.5	90.5
Merged-chr1-86406495-4	chr1	86406393	86406593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17132.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	59.0	62.5	59.0	1143.0	114.0	36.5	54.0	50.5
Merged-chr2-157838901-3	chr2	157838799	157838999	+	754.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025680, intron 11 of 15)	intron (NM_025680, intron 11 of 15)	-75754.0	NM_198627	277432.0	Mm.441156	NM_198627	ENSMUSG00000037843	Vstm2l	Gm691	V-set and transmembrane domain containing 2-like	protein-coding	4.0	5.5	9.5	82.5	7.0	4.5	4.5	9.5
Merged-chr4-11485893-4	chr4	11485809	11486009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347055)	promoter-TSS (NM_001347055)	-49.0	NM_001081183	66185.0	Mm.331487	NM_001081183	ENSMUSG00000040720	Virma	1110037F02Rik|4930422M05Rik|Kiaa1429|mKIAA1429	vir like m6A methyltransferase associated	protein-coding	253.0	392.5	251.0	3790.0	572.5	219.5	307.5	235.0
Merged-chr2-156524271-4	chr2	156524184	156524384	+	968.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291122, intron 14 of 20)	intron (NM_001291122, intron 14 of 20)	-23292.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	28.0	32.0	9.5	252.0	80.5	13.0	21.5	26.0
Merged-chr11-107340946-3	chr11	107340860	107341060	+	780.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	Lx8|LINE|L1	129760.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	13.0	5.0	6.5	106.5	14.0	7.0	6.5	5.0
Merged-chr8-70702814-9	chr8	70702833	70703033	+	798.806396	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5194.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	9.0	15.0	10.0	70.5	20.0	6.0	5.5	9.0
Merged-chr7-130834495-4	chr7	130834385	130834585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-31239.0	NM_133942	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	65.5	72.5	77.0	109.5	110.5	55.5	47.5	101.5
Merged-chr9-123932533-3	chr9	123932430	123932630	+	922.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	36162.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	8.0	17.5	7.5	282.5	14.0	11.0	6.0	5.0
Merged-chr17-33629089-1	chr17	33628989	33629189	+	1000.0	f0_c57.idr	promoter-TSS (NM_026712)	promoter-TSS (NM_026712)	-3.0	NR_034153	328801.0	Mm.181488	NM_026712	ENSMUSG00000073423	Zfp414	0610030H11Rik|Znf414	zinc finger protein 414	protein-coding	43.0	65.0	14.5	440.5	108.0	59.0	39.0	45.5
Merged-chr14-21757756-4	chr14	21757664	21757864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359953, intron 1 of 5)	(T)n|Simple_repeat|Simple_repeat	6212.0	NM_001359953	67630.0	Mm.102765	NM_026283	ENSMUSG00000021770	Samd8	1110053F04Rik|1700010P07Rik|SMSr	sterile alpha motif domain containing 8	protein-coding	57.5	117.5	49.5	1074.0	181.0	65.5	53.5	76.5
Merged-chr16-24773932-4	chr16	24773828	24774028	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 8 of 12)	AT_rich|Low_complexity|Low_complexity	52073.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	29.5	26.5	38.0	420.5	56.5	15.0	24.5	28.5
Merged-chr9-58247290-4	chr9	58247226	58247426	+	933.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001311088, exon 2 of 9)	exon (NM_001311088, exon 2 of 9)	2460.0	NM_008884	18854.0	Mm.392123	NM_008884	ENSMUSG00000036986	Pml	1200009E24Rik|AI661194|Trim19	promyelocytic leukemia	protein-coding	10.5	18.5	15.0	96.5	37.5	12.5	14.0	23.5
Merged-chr9-21016724-4	chr9	21016626	21016826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010493, intron 1 of 6)	intron (NM_010493, intron 1 of 6)	786.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	137.5	327.0	138.0	929.5	426.0	182.5	137.0	85.5
Merged-chr10-40098641-4	chr10	40098550	40098750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	RSINE1|SINE|B4	43604.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	43.5	89.5	62.0	393.5	102.0	52.5	48.5	35.5
Merged-chr6-112696671-4	chr6	112696565	112696765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021385)	promoter-TSS (NM_021385)	5.0	NM_021385	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	24.0	60.5	35.0	551.0	163.5	33.0	44.0	53.0
Merged-chr10-80744447-4	chr10	80744377	80744577	+	990.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2202.0	NM_007460	11776.0	Mm.27082	NM_007460	ENSMUSG00000020198	Ap3d1	AA407035|Ap3d|Bolvr|mBLVR1|mh|mocha	adaptor-related protein complex 3, delta 1 subunit	protein-coding	28.5	34.5	25.5	240.5	68.0	14.5	36.0	29.0
Merged-chr7-98415665-4	chr7	98415558	98415758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24758.0	NM_001130693	14918.0	Mm.389928	NM_001034890	ENSMUSG00000074003	Gucy2d	-	guanylate cyclase 2d	protein-coding	78.5	110.0	65.0	929.0	119.0	48.5	33.0	43.5
Merged-chr10-25426727-4	chr10	25426629	25426829	+	980.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013511, intron 1 of 19)	intron (NM_013511, intron 1 of 19)	18361.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	11.0	40.5	33.5	327.5	46.0	18.0	16.0	18.5
Merged-chr10-24164736-4	chr10	24164658	24164858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 2 of 9)	intron (NM_016797, intron 2 of 9)	15441.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	124.5	177.0	111.5	1607.0	312.5	123.0	141.5	114.5
Merged-chr2-31077019-3	chr2	31076926	31077126	+	964.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	MTD|LTR|ERVL-MaLR	19474.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	26.0	9.5	15.5	254.0	51.5	5.0	4.5	11.5
Merged-chr3-9818178-4	chr3	9818076	9818276	+	923.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	15503.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	10.5	17.5	9.5	215.5	48.5	13.0	27.0	14.0
Merged-chr1-92974788-4	chr1	92974724	92974924	+	872.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271766)	promoter-TSS (NM_001271766)	-523.0	NM_001271766	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	11.0	12.5	13.0	111.5	37.0	8.0	10.5	5.0
Merged-chr13-45031469-4	chr13	45031379	45031579	+	775.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29383.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	16.5	23.5	14.0	158.5	42.0	5.5	9.5	12.5
Merged-chr1-163910515-4	chr1	163910419	163910619	+	831.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305643, intron 19 of 19)	intron (NM_001305643, intron 19 of 19)	-18581.0	NM_001286002	240880.0	Mm.389213	NM_028776	ENSMUSG00000026584	Scyl3	1200016D23Rik|6030457O16|AW214499|Pace1	SCY1-like 3 (S. cerevisiae)	protein-coding	13.5	18.0	16.0	127.5	38.5	8.0	19.5	13.5
Merged-chr19-37546484-3	chr19	37546375	37546575	+	688.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3943.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	10.5	7.5	11.0	106.0	2.5	1.5	2.0	4.5
Merged-chr16-10452711-4	chr16	10452606	10452806	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5344.0	NM_001013778	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	42.5	33.0	37.5	807.5	114.5	21.5	21.5	34.0
Merged-chr6-148354658-4	chr6	148354574	148354774	+	917.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003634)	promoter-TSS (NR_003634)	18.0	NR_003634	66184.0	Mm.391542	NM_025405	ENSMUSG00000063171	Rps4l	1110033J19Rik|AA407494|Rps4y2	ribosomal protein S4-like	pseudo	4.5	10.5	2.5	127.5	32.0	6.0	6.0	13.0
Merged-chr2-180921004-4	chr2	180920905	180921105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173761)	promoter-TSS (NM_173761)	-69.0	NM_173761	228994.0	Mm.30205	NM_173761	ENSMUSG00000038848	Ythdf1	2210410K23Rik|8030473O16	YTH domain family 1	protein-coding	197.5	267.0	173.5	2198.0	368.0	169.5	182.0	138.0
Merged-chr11-78189027-10	chr11	78188799	78188999	+	900.511902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033475, exon 1 of 10)	5' UTR (NM_033475, exon 1 of 10)	151.0	NM_033475	19376.0	Mm.275864	NM_033475	ENSMUSG00000002059	Rab34	AI326479|Narr|Rah|Rah1	RAB34, member RAS oncogene family	protein-coding	6.0	10.0	8.0	23.5	14.0	8.5	3.0	5.5
Merged-chr4-141615629-2	chr4	141615492	141615692	+	722.875	f1_balb.idr|f1_c57bl6.idr	TTS (NR_033566)	TTS (NR_033566)	1222.0	NR_033566	100165.0	Mm.439819	NR_033566	ENSMUSG00000073731	AI507597	-	expressed sequence AI507597	ncRNA	2.0	0.0	1.5	44.0	5.5	11.5	4.5	8.5
Merged-chr3-129901425-4	chr3	129901306	129901506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009811)	promoter-TSS (NM_009811)	-9.0	NM_009811	12368.0	Mm.281379	NM_009811	ENSMUSG00000027997	Casp6	CASP-6|Mch2	caspase 6	protein-coding	97.5	101.0	77.0	1882.0	258.0	74.0	153.5	125.5
Merged-chr9-118706351-4	chr9	118706245	118706445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 15 of 27)	intron (NM_133721, intron 15 of 27)	-5347.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	96.0	96.5	65.5	1204.0	128.5	65.5	62.0	64.5
Merged-chr14-66190503-4	chr14	66190392	66190592	+	933.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 2 of 30)	intron (NM_001162366, intron 2 of 30)	23332.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	23.0	29.0	15.5	353.0	54.5	20.0	12.5	12.0
Merged-chr12-102340540-4	chr12	102340405	102340605	+	830.5059809999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 3 of 9)	intron (NM_177620, intron 3 of 9)	56864.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	11.0	18.0	12.0	205.0	15.5	7.0	9.5	14.0
Merged-chr7-72109197-3	chr7	72109102	72109302	+	943.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024703, intron 19 of 22)	intron (NM_001024703, intron 19 of 22)	-147184.0	NR_126483	102640608.0	Mm.399138	NR_126483	ENSMUSG00000108480	Gm36633	-	predicted gene, 36633	ncRNA	19.0	35.5	28.0	462.0	5.5	3.5	7.0	2.0
Merged-chr12-21370683-7	chr12	21370637	21370837	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 1 of 18)	intron (NM_001291871, intron 1 of 18)	2895.0	NR_102380	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	10.5	6.0	6.5	90.0	16.5	5.5	6.0	11.0
Merged-chr5-36796153-4	chr5	36796063	36796263	+	992.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026242, intron 1 of 1)	CpG	591.0	NM_026242	67568.0	Mm.332336	NM_026242	ENSMUSG00000055302	Mrfap1	9130413I22Rik|AL022827|Pam14	Morf4 family associated protein 1	protein-coding	23.5	37.0	22.0	242.0	49.5	17.0	17.0	27.0
Merged-chr17-55931871-5	chr17	55931745	55931945	+	874.5200199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	13414.0	NM_146249	240120.0	Mm.441018	NM_146249	ENSMUSG00000062101	Zfp119b	-	zinc finger protein 119b	protein-coding	11.5	9.0	11.0	94.5	14.0	10.0	7.0	14.5
Merged-chr8-83698457-4	chr8	83698299	83698499	+	952.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177262, intron 1 of 21)	intron (NM_177262, intron 1 of 21)	780.0	NM_177262	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	27.5	27.0	10.0	263.5	41.5	11.5	12.5	20.5
Merged-chr9-40324427-4	chr9	40324341	40324541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	-3118.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	218.0	354.5	331.5	4525.5	482.0	202.5	290.0	194.0
Merged-chr1-163975285-4	chr1	163975188	163975388	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357049, intron 10 of 24)	intron (NM_001357049, intron 10 of 24)	19508.0	NM_001357049	381306.0	Mm.28152	NM_201364	ENSMUSG00000041406	BC055324	-	cDNA sequence BC055324	protein-coding	14.5	21.0	8.0	303.0	49.0	18.0	26.5	18.5
Merged-chr11-3183374-2	chr11	3183258	3183458	+	994.833374	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 4 of 32)	B3|SINE|B2	10105.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	14.0	11.5	13.5	158.0	0.0	0.0	0.0	0.0
Merged-chr13-22035140-4	chr13	22035029	22035229	+	845.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175665)	promoter-TSS (NM_175665)	514.0	NM_175659	319168.0	Mm.250564	NM_175659	ENSMUSG00000069302	Hist1h2ah	-	histone cluster 1, H2ah	protein-coding	6.0	22.5	10.5	93.0	28.5	11.5	17.5	20.5
Merged-chr16-4200214-4	chr16	4200125	4200325	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025432, intron 1 of 30)	RSINE1|SINE|B4	13179.0	NM_001025432	12914.0	Mm.132238	NM_001025432	ENSMUSG00000022521	Crebbp	AW558298|CBP|CBP/p300|KAT3A|p300/CBP	CREB binding protein	protein-coding	8.5	50.5	25.0	299.5	64.5	19.0	31.0	28.0
Merged-chr13-102849278-3	chr13	102849171	102849371	+	970.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 5 of 28)	MLT1E3|LTR|ERVL-MaLR	89016.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	7.0	20.0	13.5	326.0	13.0	3.5	9.5	4.0
Merged-chr18-80684500-2	chr18	80684399	80684599	+	983.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 2 of 9)	intron (NM_198429, intron 2 of 9)	23674.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	3.0	3.5	8.0	168.5	23.0	5.0	8.5	8.0
Merged-chr14-14013065-4	chr14	14012997	14013197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139227, exon 2 of 12)	exon (NM_139227, exon 2 of 12)	606.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	62.5	72.0	85.0	1062.0	173.5	50.5	74.0	40.5
Merged-chr14-57424097-4	chr14	57424005	57424205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009376)	promoter-TSS (NM_009376)	34.0	NM_009376	21821.0	Mm.4653	NM_009376	ENSMUSG00000040040	Ift88	AW552028|Tg737|Tg737Rpw|TgN737Rpw|Ttc10|flexo|fxo|orpk|polaris	intraflagellar transport 88	protein-coding	160.5	200.0	129.5	2312.5	299.5	105.0	200.5	127.5
Merged-chr5-100587818-4	chr5	100587706	100587906	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15601.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	16.0	28.0	18.5	274.5	60.5	21.0	15.5	18.5
Merged-chr2-160620974-2	chr2	160620874	160621074	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24923.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	6.0	8.5	8.0	64.5	19.5	9.5	6.0	10.0
Merged-chr7-44836536-3	chr7	44836449	44836649	+	883.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010215, intron 2 of 7)	intron (NM_010215, intron 2 of 7)	261.0	NM_010215	14204.0	Mm.2565	NM_010215	ENSMUSG00000074141	Il4i1	Fig1|Fig1-ps|LAAO|LAO	interleukin 4 induced 1	protein-coding	7.5	10.0	11.0	86.0	17.5	3.0	7.0	11.5
Merged-chr14-103762497-4	chr14	103762403	103762603	+	717.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63071.0	NR_045148	70898.0	Mm.27548	NR_045148	ENSMUSG00000089707	Slain1os	4921525B02Rik	SLAIN motif family, member 1, opposite strand	ncRNA	9.5	9.0	8.5	128.0	21.5	2.0	13.0	2.5
Merged-chr4-11558872-4	chr4	11558795	11558995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256145)	promoter-TSS (NM_001256145)	-25.0	NM_001039556	623474.0	Mm.491200	NM_177285	ENSMUSG00000078773	Rad54b	E130016E03Rik	RAD54 homolog B (S. cerevisiae)	protein-coding	99.0	109.0	88.5	1525.0	258.5	77.5	123.0	94.5
Merged-chr5-135144437-4	chr5	135144335	135144535	+	834.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5276.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	11.0	7.0	17.0	185.5	21.5	7.0	11.5	13.0
Merged-chr3-54248552-5	chr3	54248388	54248588	+	900.742859	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 3 of 11)	intron (NM_001253682, intron 3 of 11)	92431.0	NM_001253682	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	12.0	15.0	18.0	130.0	15.0	4.5	9.5	4.5
Merged-chr1-143929922-3	chr1	143929827	143930027	+	773.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74222.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	4.0	9.0	15.5	285.0	9.5	8.5	5.0	5.0
Merged-chr6-115602494-3	chr6	115602395	115602595	+	787.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023290, intron 1 of 7)	intron (NM_023290, intron 1 of 7)	557.0	NM_023290	67027.0	Mm.101316	NM_023290	ENSMUSG00000000439	Mkrn2	2610002L04Rik|C81377	makorin, ring finger protein, 2	protein-coding	10.5	11.5	6.0	81.0	14.5	12.5	6.0	9.5
Merged-chr11-20146169-2	chr11	20146070	20146270	+	629.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGAA)n|Simple_repeat|Simple_repeat	-33219.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	4.5	6.0	7.0	121.0	10.5	4.5	3.0	15.0
Merged-chr10-75282856-4	chr10	75282741	75282941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 13 of 15)	intron (NM_153406, intron 13 of 15)	-34036.0	NM_009630	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	83.5	118.5	116.5	1711.0	178.5	57.5	102.5	121.5
Merged-chr17-28420542-4	chr17	28420457	28420657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 5 of 10)	intron (NM_010220, intron 5 of 10)	-55341.0	NM_021478	22157.0	Mm.42102	NM_021478	ENSMUSG00000037446	Tulp1	Tulp1l	tubby like protein 1	protein-coding	57.5	46.0	62.5	1462.5	66.0	22.5	45.0	47.5
Merged-chr12-82446745-4	chr12	82446633	82446833	+	986.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 21 of 23)	ORR1A4|LTR|ERVL-MaLR	135384.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	17.0	25.0	19.5	471.5	66.0	13.0	28.0	28.0
Merged-chr3-66981267-4	chr3	66981177	66981377	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302359)	promoter-TSS (NM_001302359)	-136.0	NM_001302359	20429.0	Mm.39093	NM_013665	ENSMUSG00000027833	Shox2	6330543G17Rik|OG12|Og12x|Prx3|SHOT	short stature homeobox 2	protein-coding	38.5	18.5	29.0	413.0	54.0	9.0	20.5	21.0
Merged-chr10-84330046-3	chr10	84329938	84330138	+	914.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110433.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	16.5	16.0	21.0	235.0	15.5	6.0	12.0	2.5
Merged-chr16-43409328-4	chr16	43409235	43409435	+	893.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	10861.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	16.0	16.0	20.0	464.0	29.0	12.0	13.5	15.0
Merged-chr2-167689051-4	chr2	167688913	167689113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009883)	promoter-TSS (NM_009883)	98.0	NM_001287738	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	134.5	235.5	174.5	2223.0	383.5	176.0	230.5	188.5
Merged-chr9-13525873-4	chr9	13525778	13525978	+	932.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94111.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	24.0	44.5	16.5	576.0	34.5	6.0	3.0	14.0
Merged-chr11-100619667-4	chr11	100619551	100619751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019795, exon 1 of 14)	5' UTR (NM_019795, exon 1 of 14)	517.0	NM_019795	56354.0	Mm.402409	NM_019795	ENSMUSG00000014195	Dnajc7	2010003F24Rik|2010004G07Rik|CCRP|Ttc2|mDj11|mTpr2	DnaJ heat shock protein family (Hsp40) member C7	protein-coding	65.5	83.0	27.0	479.0	156.0	50.0	86.0	63.0
Merged-chr15-83009190-4	chr15	83009092	83009292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028728, intron 4 of 5)	intron (NM_028728, intron 4 of 5)	13946.0	NM_028728	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	23.0	61.5	35.5	336.0	99.0	33.0	44.0	37.5
Merged-chr9-3403308-4	chr9	3403220	3403420	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027545)	promoter-TSS (NM_027545)	-765.0	NM_027545	244672.0	Mm.245482	NM_027545	ENSMUSG00000025898	Cwf19l2	3230401L03Rik|9030209E10	CWF19-like 2, cell cycle control (S. pombe)	protein-coding	13.5	15.0	10.0	156.5	57.5	24.0	13.5	26.5
Merged-chr5-36751842-4	chr5	36751724	36751924	+	970.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3145.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	20.5	31.5	17.0	208.5	40.0	12.5	17.0	22.0
Merged-chr1-9748497-4	chr1	9748394	9748594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173443)	promoter-TSS (NM_173443)	-112.0	NM_173443	70675.0	Mm.274493	NM_173443	ENSMUSG00000045210	Vcpip1	4932442A08|5730421J18Rik|5730538E15Rik|VCIP135|mKIAA1850	valosin containing protein (p97)/p47 complex interacting protein 1	protein-coding	360.5	453.5	356.5	5402.0	802.0	280.0	445.0	304.0
Merged-chr14-59397151-3	chr14	59397049	59397249	+	658.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001320725, intron 14 of 23)	intron (NM_001320725, intron 14 of 23)	-3637.0	NM_001164289	628705.0	Mm.479244	NM_001164289	ENSMUSG00000091144	Phf11c	EG628705|Gm6907|Phf11	PHD finger protein 11C	protein-coding	4.0	10.0	2.5	134.0	10.5	10.0	6.5	10.0
Merged-chr2-48767995-4	chr2	48767884	48768084	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-46125.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	24.0	12.5	50.5	462.0	24.0	11.5	27.5	20.0
Merged-chr10-121370972-3	chr10	121370868	121371068	+	872.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	B3|SINE|B2	5878.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	3.0	19.0	7.5	41.0	41.5	10.0	14.5	11.0
Merged-chr16-90712502-4	chr16	90712368	90712568	+	921.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14903.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	12.0	21.0	13.5	333.0	27.5	9.5	12.0	12.5
Merged-chr11-88954201-3	chr11	88954093	88954293	+	690.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029023, intron 1 of 12)	B2_Mm2|SINE|B2	1249.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	8.5	9.0	10.5	77.5	14.0	8.0	5.5	10.0
Merged-chr7-48881650-1	chr7	48881550	48881750	+	566.0	f0_balb.idr	promoter-TSS (NM_001360812)	promoter-TSS (NM_001360812)	-54.0	NM_001360812	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	13.0	17.0	7.5	113.5	22.0	15.5	15.0	13.5
Merged-chr14-103059815-4	chr14	103059693	103059893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR9E|LTR|ERVK	-10423.0	NM_001033242	211286.0	Mm.295289	NM_001033242	ENSMUSG00000022125	Cln5	A730075N08Rik	ceroid-lipofuscinosis, neuronal 5	protein-coding	54.0	125.5	45.5	406.0	134.0	51.5	42.5	37.0
Merged-chr3-82795753-3	chr3	82795617	82795817	+	765.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3e|LINE|L1	80766.0	NM_001277170	633285.0	Mm.265114	NM_001146328	ENSMUSG00000033882	Rbm46	EG633285|Gm761	RNA binding motif protein 46	protein-coding	6.0	5.0	4.5	50.0	2.5	1.0	3.5	1.5
Merged-chr8-83566748-4	chr8	83566655	83566855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025843)	promoter-TSS (NM_025843)	-3.0	NM_025843	66916.0	Mm.29683	NM_025843	ENSMUSG00000033938	Ndufb7	1110002H15Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 7	protein-coding	34.0	67.0	38.0	638.5	109.0	37.5	63.0	60.5
Merged-chr5-23617852-3	chr5	23617749	23617949	+	653.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359174, intron 2 of 16)	MIRb|SINE|MIR	-1278.0	NM_009274	20817.0	Mm.288728	NM_009274	ENSMUSG00000062604	Srpk2	AW226533|AW492537|AW547358|Wbp6|mSRPK2	serine/arginine-rich protein specific kinase 2	protein-coding	9.0	9.5	6.0	119.5	10.5	4.0	12.0	6.5
Merged-chr1-149940411-4	chr1	149940305	149940505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	-17966.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	127.5	134.0	99.0	1595.5	218.0	87.5	70.5	81.0
Merged-chr8-70647017-4	chr8	70646934	70647134	+	870.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_023217, exon 5 of 5)	3' UTR (NM_023217, exon 5 of 5)	12704.0	NM_023217	66522.0	Mm.154906	NM_023217	ENSMUSG00000056204	Pgpep1	2810003H13Rik|Gm19458|PAP-I|PGP|PGP-I|PGPI|Pcp	pyroglutamyl-peptidase I	protein-coding	8.0	8.0	6.5	139.0	25.5	20.0	14.5	18.0
Merged-chr19-55689764-4	chr19	55689661	55689861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	12443.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	39.5	70.0	51.0	843.0	84.0	21.0	36.5	23.5
Merged-chr13-113271444-4	chr13	113271388	113271588	+	917.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	61829.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	7.0	12.0	6.5	54.0	23.0	12.5	2.5	8.5
Merged-chr7-112240941-1	chr7	112240841	112241041	+	978.6666869999999	f0_balb.idr	intron (NM_001193305, intron 2 of 25)	intron (NM_001193305, intron 2 of 25)	15105.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	13.0	23.5	21.0	372.0	5.0	1.5	2.0	0.5
Merged-chr5-124352410-3	chr5	124352326	124352526	+	703.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013812, intron 1 of 3)	intron (NM_013812, intron 1 of 3)	2202.0	NM_013812	13445.0	Mm.391838	NM_013812	ENSMUSG00000029394	Cdk2ap1	Apc10|Cdkap1|DORC1|Doc1|ST19|doc-1|p12	CDK2 (cyclin-dependent kinase 2)-associated protein 1	protein-coding	8.0	10.5	8.5	114.5	14.5	2.0	4.5	6.0
Merged-chr10-127945472-3	chr10	127945351	127945551	+	865.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46916.0	NM_027301	70061.0	Mm.158320	NM_027301	ENSMUSG00000040127	Sdr9c7	1810054F20Rik|Rdh20|Rdhs|SDR-O|Sdro	4short chain dehydrogenase/reductase family 9C, member 7	protein-coding	3.5	7.5	2.0	45.0	11.0	10.5	4.5	8.0
Merged-chr4-136142297-4	chr4	136142219	136142419	+	918.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-1503.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	16.0	23.5	6.0	253.5	31.5	9.0	11.5	12.5
Merged-chr1-136656730-3	chr1	136656658	136656858	+	717.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26638.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	12.0	10.0	18.0	322.0	17.0	9.5	6.0	11.5
Merged-chr13-101719657-6	chr13	101719550	101719750	+	981.048584	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	-27020.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	12.0	17.5	8.0	205.5	19.5	15.5	6.0	16.5
Merged-chr11-78247951-4	chr11	78247859	78248059	+	948.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359106, intron 1 of 3)	RLTR12E|LTR|ERVK	2208.0	NM_001359106	20316.0	Mm.20755	NM_009143	ENSMUSG00000002064	Sdf2	AI853825	stromal cell derived factor 2	protein-coding	25.5	33.5	8.5	156.5	81.0	17.0	25.5	40.5
Merged-chr12-8494645-6	chr12	8494510	8494710	+	817.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5399.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	5.0	12.0	10.5	102.5	12.0	4.5	3.0	8.5
Merged-chr5-105902898-2	chr5	105902815	105903015	+	695.299988	f1_balb.idr|f1_c57bl6.idr	intron (NR_030777, intron 5 of 9)	L1_Rod|LINE|L1	26347.0	NM_018759	54367.0	Mm.248876	NM_018759	ENSMUSG00000029290	Zfp326	5730470H14Rik|ZAN75|Znf326	zinc finger protein 326	protein-coding	5.0	5.0	5.0	49.5	12.5	1.5	8.5	4.5
Merged-chr6-72140593-4	chr6	72140495	72140695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 3 of 6)	intron (NM_001035228, intron 3 of 6)	-17398.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	225.5	368.0	310.5	4183.0	471.5	225.0	248.0	218.5
Merged-chr10-93488636-4	chr10	93488539	93488739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010401)	promoter-TSS (NM_010401)	-129.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	157.5	259.5	169.5	2557.5	140.5	47.0	73.5	52.5
Merged-chr8-68191950-4	chr8	68191838	68192038	+	883.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84590.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	12.0	10.0	8.0	102.5	41.5	12.0	30.5	17.0
Merged-chr10-98951668-5	chr10	98951553	98951753	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	36501.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	8.0	10.5	10.5	221.5	17.5	5.5	8.0	4.0
Merged-chr10-81343254-6	chr10	81343106	81343306	+	833.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148951)	promoter-TSS (NM_148951)	60.0	NM_148951	209047.0	Mm.218755	NM_148951	ENSMUSG00000034872	Gipc3	Ahl5|Rgs19ip3	GIPC PDZ domain containing family, member 3	protein-coding	6.5	7.5	5.5	41.5	18.0	5.0	5.5	4.5
Merged-chr16-24953514-1	chr16	24953414	24953614	+	553.0	f0_c57.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-106125.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	8.0	6.0	4.0	4.5	27.5	12.0	7.5	13.0
Merged-chr17-45579048-4	chr17	45578942	45579142	+	763.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-5781.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	11.0	15.5	3.0	55.0	29.0	16.0	18.5	16.5
Merged-chr17-56291297-4	chr17	56291187	56291387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025836)	promoter-TSS (NM_025836)	-776.0	NM_025836	66905.0	Mm.311696	NM_025836	ENSMUSG00000024197	Plin3	1300012C15Rik|M6prbp1|Tip47	perilipin 3	protein-coding	122.0	223.5	96.0	1782.5	280.0	145.0	146.0	125.0
Merged-chr2-144009246-4	chr2	144009140	144009340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133626, intron 1 of 2)	intron (NM_133626, intron 1 of 2)	2023.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	42.5	67.0	66.0	753.0	97.0	41.5	64.0	43.0
Merged-chr15-95826119-4	chr15	95825996	95826196	+	967.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	intron (NR_155276, intron 1 of 1)	3976.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	13.0	29.0	18.5	164.5	44.0	14.5	20.0	15.0
Merged-chr9-123949635-4	chr9	123949551	123949751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	19041.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	37.0	40.0	27.5	619.0	66.5	20.5	25.0	23.5
Merged-chr3-31394084-4	chr3	31393970	31394170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83751.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	50.0	53.5	145.5	1649.0	105.0	19.0	61.5	33.5
Merged-chr11-116020726-4	chr11	116020677	116020877	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	3727.0	NM_008211	15081.0	Mm.18516	NM_008211	ENSMUSG00000016559	H3f3b	9430068D06Rik|H3.3B	H3 histone, family 3B	protein-coding	19.0	45.5	7.5	75.5	73.0	19.5	30.0	21.5
Merged-chr3-152265950-3	chr3	152265853	152266053	+	938.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357206)	promoter-TSS (NM_001357206)	-158.0	NM_001357206	68810.0	Mm.200188	NM_199465	ENSMUSG00000039103	Nexn	1110046H09Rik|AA553326|NELIN	nexilin	protein-coding	9.5	17.0	19.5	203.5	11.0	3.0	7.0	3.0
Merged-chr10-84615700-4	chr10	84615603	84615803	+	898.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6734.0	NM_027423	70428.0	Mm.335007	NM_027423	ENSMUSG00000034453	Polr3b	2700078H01Rik|A330032P03Rik|C85372|RPC2	polymerase (RNA) III (DNA directed) polypeptide B	protein-coding	14.0	23.5	7.5	126.5	18.5	4.5	15.0	5.0
Merged-chr1-60410079-4	chr1	60409973	60410173	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198127, intron 1 of 8)	CpG	454.0	NM_001198570	329165.0	Mm.212066	NM_198127	ENSMUSG00000026782	Abi2	8430425M24Rik|AI839867|C130078H13	abl-interactor 2	protein-coding	18.0	19.5	20.0	170.0	28.5	11.0	7.0	4.0
Merged-chr3-95053895-4	chr3	95053809	95054009	+	687.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-11295.0	NM_008951	19185.0	Mm.2261	NM_008951	ENSMUSG00000005625	Psmd4	Af1|Mcb1|angiocidin	proteasome (prosome, macropain) 26S subunit, non-ATPase, 4	protein-coding	7.5	10.0	13.0	98.0	23.5	10.0	6.5	11.5
Merged-chr8-79391656-1	chr8	79391556	79391756	+	724.0	f0_balb.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	7812.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	10.0	7.0	12.5	170.5	5.0	5.5	0.5	9.0
Merged-chr1-169532308-3	chr1	169532212	169532412	+	849.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023284)	promoter-TSS (NM_023284)	-848.0	NM_001355159	66977.0	Mm.151315	NM_023284	ENSMUSG00000026683	Nuf2	2410003C07Rik|AU044112|C85691|Cdca1|NUF2R	NUF2, NDC80 kinetochore complex component	protein-coding	7.0	6.0	3.0	100.5	22.5	4.5	8.0	7.5
Merged-chr14-14606208-4	chr14	14606100	14606300	+	908.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96825.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	20.0	13.0	17.0	488.5	28.5	10.5	9.5	15.5
Merged-chr11-20108368-4	chr11	20108313	20108513	+	901.804199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146243, intron 1 of 8)	Lx8b|LINE|L1	4538.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	15.0	10.0	12.0	115.0	43.5	18.0	14.5	22.5
Merged-chr13-8780639-4	chr13	8780550	8780750	+	686.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	90394.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	6.5	6.0	6.0	102.0	19.0	14.5	16.0	4.5
Merged-chr5-122643929-4	chr5	122643813	122644013	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011027)	promoter-TSS (NM_011027)	2.0	NM_001038887	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	48.5	66.5	34.0	595.0	61.0	16.5	25.0	23.0
Merged-chr1-34579682-2	chr1	34579583	34579783	+	603.25	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_213727)	promoter-TSS (NM_213727)	-10.0	NM_213727	211383.0	Mm.330696	NM_213727	ENSMUSG00000045174	Amer3	9430069J07Rik|Fam123c	APC membrane recruitment 3	protein-coding	7.0	13.0	11.0	80.5	36.5	7.0	5.5	13.0
Merged-chr12-69372537-4	chr12	69372468	69372668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007481, exon 2 of 2)	5' UTR (NM_007481, exon 2 of 2)	418.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	24.5	41.5	61.5	534.5	117.0	42.0	63.0	61.5
Merged-chr15-75940981-4	chr15	75940876	75941076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030199)	promoter-TSS (NM_030199)	24.0	NM_030199	78834.0	Mm.273264	NM_030199	ENSMUSG00000050846	Zfp623	2610029D06Rik|AI847036	zinc finger protein 623	protein-coding	73.0	128.5	55.0	979.0	165.0	60.5	66.5	68.0
Merged-chr15-97576922-4	chr15	97576817	97577017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	128905.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	41.0	44.0	39.0	564.5	86.0	27.5	45.0	30.5
Merged-chr13-37778887-4	chr13	37778809	37779009	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-47129.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	16.5	14.5	11.5	100.5	28.5	3.0	3.5	15.0
Merged-chr16-23592685-3	chr16	23592603	23592803	+	833.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17216.0	NM_023386	67775.0	Mm.475107	NM_023386	ENSMUSG00000033355	Rtp4	5830458K16Rik|Ifrg28	receptor transporter protein 4	protein-coding	11.5	11.0	23.0	212.0	17.5	5.0	6.0	12.5
Merged-chr8-64896966-4	chr8	64896866	64897066	+	825.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-47042.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	11.0	13.0	11.0	400.0	20.0	9.0	14.0	12.0
Merged-chr2-166905995-4	chr2	166905908	166906108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023565)	promoter-TSS (NM_023565)	-88.0	NM_023565	110750.0	Mm.22417	NM_023565	ENSMUSG00000002718	Cse1l	2610100P18Rik|AA407533|Capts|Cas|Xpo2	chromosome segregation 1-like (S. cerevisiae)	protein-coding	124.0	141.0	79.0	1277.0	309.5	100.0	70.5	99.0
Merged-chr17-84981846-4	chr17	84981758	84981958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159498, intron 2 of 7)	intron (NM_001159498, intron 2 of 7)	16833.0	NM_001159498	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	56.0	108.0	81.0	770.5	118.0	35.0	59.0	29.0
Merged-chr4-128973948-4	chr4	128973896	128974096	+	721.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-11541.0	NM_001301841	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	2.5	3.5	2.5	38.0	5.0	5.5	5.5	10.0
Merged-chr9-65552446-4	chr9	65552379	65552579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153119)	TTS (NM_153119)	27608.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	121.0	201.0	170.5	2368.5	262.5	59.5	96.0	110.0
Merged-chr17-71221628-4	chr17	71221536	71221736	+	855.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357791, intron 2 of 19)	intron (NM_001357791, intron 2 of 19)	16982.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	14.0	32.5	38.5	363.0	18.0	5.5	21.0	15.5
Merged-chr4-9060318-4	chr4	9060177	9060377	+	918.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-209016.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	8.0	12.0	11.0	195.5	13.5	8.0	15.0	18.5
Merged-chr6-145746558-7	chr6	145746445	145746645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-61838.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	45.0	65.5	79.0	809.0	83.0	41.5	50.0	60.0
Merged-chr14-32939379-3	chr14	32939267	32939467	+	864.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001361602, exon 6 of 6)	3' UTR (NM_001361602, exon 6 of 6)	-52015.0	NM_001146021	67580.0	Mm.46115	NM_026253	ENSMUSG00000041673	Lrrc18	4930442L21Rik|MTLR1	leucine rich repeat containing 18	protein-coding	6.0	7.5	9.0	85.5	1.0	2.5	5.5	1.5
Merged-chr7-80215532-2	chr7	80215432	80215632	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 3 of 13)	intron (NM_001360135, intron 3 of 13)	17091.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	3.0	5.5	5.0	71.5	15.5	7.5	7.0	5.5
Merged-chr10-24641931-4	chr10	24641841	24642041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008813, exon 25 of 25)	exon (NM_008813, exon 25 of 25)	46499.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	40.5	27.0	72.5	1087.5	107.0	9.0	74.5	48.5
Merged-chr11-94236235-4	chr11	94236140	94236340	+	918.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_181819, exon 2 of 2)	3' UTR (NM_181819, exon 2 of 2)	6339.0	NM_181819	278507.0	Mm.342216	NM_181819	ENSMUSG00000044177	Wfikkn2	2610304F08Rik|AY100450|Gasp1|WFIKKNRP	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2	protein-coding	19.5	22.0	11.0	170.0	31.5	21.0	15.0	18.0
Merged-chr1-55529710-3	chr1	55529624	55529824	+	864.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	123778.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	8.5	12.5	12.5	173.5	10.0	3.5	10.5	2.5
Merged-chr15-43487487-2	chr15	43487387	43487587	+	547.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_025736, intron 1 of 10)	RLTR13B1|LTR|ERVK	10258.0	NM_025736	66736.0	Mm.244512	NM_025736	ENSMUSG00000022337	Emc2	4921531G14Rik|AV060620|AW209495|Ttc35	ER membrane protein complex subunit 2	protein-coding	5.5	14.0	6.0	56.0	9.5	2.0	11.5	10.0
Merged-chr11-70151273-4	chr11	70151169	70151369	+	762.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-15354.0	NM_001204252	17312.0	Mm.252405	NM_010796	ENSMUSG00000000318	Clec10a	CD301a|M-ASGP-BP-1|Mgl|Mgl1	C-type lectin domain family 10, member A	protein-coding	6.5	14.5	1.0	93.0	22.5	10.0	12.0	6.5
Merged-chr7-114356651-4	chr7	114356539	114356739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029438, intron 3 of 4)	intron (NR_029438, intron 3 of 4)	58522.0	NR_029437	71045.0	Mm.235682	NR_029437	ENSMUSG00000087475	4933406I18Rik	4933403D24Rik	RIKEN cDNA 4933406I18 gene	ncRNA	131.0	190.5	131.0	2458.5	366.5	109.5	168.0	143.0
Merged-chr18-84086659-4	chr18	84086569	84086769	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081300)	promoter-TSS (NM_001081300)	-107.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	17.5	21.0	21.5	268.0	39.0	10.5	14.5	17.5
Merged-chr4-134702157-4	chr4	134702057	134702257	+	807.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207237, intron 1 of 11)	intron (NM_207237, intron 1 of 11)	2133.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	7.0	11.5	7.5	102.5	18.5	5.0	12.0	5.0
Merged-chr1-20508113-3	chr1	20508011	20508211	+	932.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153179, intron 34 of 66)	intron (NM_153179, intron 34 of 66)	109946.0	NM_153179	241035.0	Mm.249253	NM_153179	ENSMUSG00000043760	Pkhd1	AI118496|AI182499|FPC|Tigm1	polycystic kidney and hepatic disease 1	protein-coding	21.0	18.0	31.5	551.5	8.0	0.5	8.0	9.5
Merged-chr1-24686425-4	chr1	24686338	24686538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 2 of 15)	MIR|SINE|MIR	7520.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	41.0	65.0	48.5	1128.0	88.5	58.0	61.5	65.0
Merged-chr1-144283990-3	chr1	144283891	144284091	+	791.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-34887.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	10.0	9.5	11.0	86.5	13.5	4.0	11.5	13.5
Merged-chr19-29366367-4	chr19	29366267	29366467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1071.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	74.5	168.5	80.0	1005.5	212.5	70.5	70.0	56.5
Merged-chr12-72761095-4	chr12	72760984	72761184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008910)	promoter-TSS (NM_008910)	-127.0	NM_008910	19042.0	Mm.261045	NM_008910	ENSMUSG00000021096	Ppm1a	2310003C21Rik|2900017D14Rik|AI427932|AU017636|MMPa-2|MPPa-1	protein phosphatase 1A, magnesium dependent, alpha isoform	protein-coding	146.0	218.5	160.0	2066.0	558.0	187.5	240.5	193.0
Merged-chr3-115766362-4	chr3	115766255	115766455	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51300.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	24.5	58.0	55.5	906.5	40.0	20.0	28.0	13.0
Merged-chr1-36089651-4	chr1	36089550	36089750	+	925.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	21250.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	8.0	17.5	22.5	319.0	25.5	20.0	8.5	18.5
Merged-chr7-27285933-4	chr7	27285820	27286020	+	616.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	27159.0	NM_010950	18223.0	Mm.458153	NM_010950	ENSMUSG00000063160	Numbl	nbl	numb-like	protein-coding	3.0	3.5	5.0	146.0	26.0	11.5	4.5	8.0
Merged-chr8-41024420-4	chr8	41024342	41024542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015457)	TTS (NR_015457)	6974.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	29.5	25.0	33.0	575.5	94.0	32.0	35.0	54.5
Merged-chr16-30252276-4	chr16	30252165	30252365	+	976.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15267.0	NM_027904	71756.0	Mm.290614	NM_027904	ENSMUSG00000023176	Cpn2	1300018K11Rik	carboxypeptidase N, polypeptide 2	protein-coding	15.5	31.0	9.0	367.0	51.5	18.0	32.0	17.5
Merged-chr12-33332220-4	chr12	33332098	33332298	+	940.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 2 of 7)	intron (NM_001033436, intron 2 of 7)	29683.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	17.0	19.0	15.0	369.0	35.0	8.5	22.5	25.0
Merged-chr8-31168809-4	chr8	31168697	31168897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026453)	promoter-TSS (NM_026453)	-73.0	NM_026453	67920.0	Mm.289818	NM_026453	ENSMUSG00000031578	Mak16	2600016B03Rik|AI314911|Rbm13	MAK16 homolog	protein-coding	188.0	232.0	167.5	2700.5	366.5	156.5	170.5	195.5
Merged-chr1-107584115-6	chr1	107584041	107584241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5865.0	NM_011459	20725.0	Mm.83909	NM_011459	ENSMUSG00000026315	Serpinb8	CAP-2|CAP2|NK10|Spi8|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 8	protein-coding	44.5	65.5	39.5	577.0	125.5	60.0	63.0	49.5
Merged-chr16-35904581-4	chr16	35904477	35904677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33195.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	36.0	55.5	46.5	851.0	106.5	33.0	65.5	57.5
Merged-chr8-104630825-4	chr8	104630774	104630974	+	892.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019662, exon 2 of 5)	exon (NM_019662, exon 2 of 5)	447.0	NM_019662	56437.0	Mm.29467	NM_019662	ENSMUSG00000031880	Rrad	REM3|Rad	Ras-related associated with diabetes	protein-coding	10.5	20.0	23.5	132.0	35.0	10.0	17.0	12.5
Merged-chr2-77249943-3	chr2	77249848	77250048	+	677.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 1 of 17)	intron (NM_175465, intron 1 of 17)	30644.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	4.5	5.0	8.5	95.5	11.5	1.5	2.5	7.5
Merged-chr5-130000946-4	chr5	130000861	130001061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357027, intron 1 of 2)	intron (NM_001357027, intron 1 of 2)	2088.0	NM_010368	110006.0	Mm.3317	NM_010368	ENSMUSG00000025534	Gusb	AI747421|Gur|Gus|Gus-r|Gus-s|Gus-t|Gus-u|Gut|asd|g	glucuronidase, beta	protein-coding	164.0	300.0	183.0	2618.5	402.5	163.5	232.0	157.5
Merged-chr16-20403454-4	chr16	20403354	20403554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 5 of 6)	intron (NM_176839, intron 5 of 6)	22940.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	88.0	150.0	77.0	693.5	196.0	78.5	45.5	54.0
Merged-chr13-95960922-8	chr13	95960813	95961013	+	818.144043	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029210, exon 13 of 13)	3' UTR (NM_029210, exon 13 of 13)	-68991.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	9.0	7.0	10.0	68.0	21.0	7.0	8.0	8.0
Merged-chr2-70939332-3	chr2	70939235	70939435	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	79039.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	3.5	7.0	4.5	43.0	38.0	6.0	19.5	6.5
Merged-chr10-123061016-4	chr10	123060913	123061113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163024, intron 1 of 34)	RMER19B|LTR|ERVK	15492.0	NM_001163024	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	124.5	109.0	183.5	2592.0	107.0	37.0	72.0	56.5
Merged-chr13-35953115-3	chr13	35953018	35953218	+	940.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-14788.0	NM_029628	76487.0	Mm.44745	NM_029628	ENSMUSG00000050423	Ppp1r3g	1600032L17Rik	protein phosphatase 1, regulatory (inhibitor) subunit 3G	protein-coding	13.5	40.0	23.5	229.0	7.0	6.0	7.0	6.5
Merged-chr14-20388930-4	chr14	20388819	20389019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134081)	promoter-TSS (NM_134081)	-9.0	NM_134081	108671.0	Mm.2871	NM_134081	ENSMUSG00000021811	Dnajc9	5330419I01Rik|AU020082	DnaJ heat shock protein family (Hsp40) member C9	protein-coding	102.0	157.0	111.5	1596.5	301.5	115.5	85.0	106.5
Merged-chr4-41353084-3	chr4	41352980	41353180	+	857.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355508, exon 1 of 7)	5' UTR (NM_001355508, exon 1 of 7)	1117.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	2.5	7.5	3.0	91.5	14.0	5.5	7.0	12.0
Merged-chr18-54902405-1	chr18	54902305	54902505	+	1000.0	f0_c57.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	87775.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	17.0	23.5	19.5	287.0	82.5	19.5	29.0	26.5
Merged-chr8-25277300-2	chr8	25277200	25277400	+	644.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28970.0	NR_040352	74489.0	Mm.256468	NR_040352	ENSMUSG00000110140	5430421F17Rik	-	RIKEN cDNA 5430421F17 gene	ncRNA	6.5	6.5	5.5	45.0	20.5	3.0	2.5	3.0
Merged-chr19-9914577-4	chr19	9914491	9914691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-15058.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	118.5	134.0	85.0	1756.5	265.0	95.5	95.0	85.0
Merged-chr4-32187345-4	chr4	32187273	32187473	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	223266.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	15.5	22.0	26.0	393.5	39.5	13.5	13.5	7.5
Merged-chr12-46870253-4	chr12	46870162	46870362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51487.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	62.0	71.0	96.5	1825.0	114.5	39.5	44.0	60.5
Merged-chr17-6215960-4	chr17	6215886	6216086	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001103181, intron 8 of 13)	intron (NM_001103181, intron 8 of 13)	-40874.0	NM_001357884	77106.0	Mm.381893	NM_001033178	ENSMUSG00000038141	Tmem181a	5930418K15Rik|C76977|Gpr178|Tmem181|mKIAA1423	transmembrane protein 181A	protein-coding	26.0	22.5	17.0	717.5	26.0	7.5	4.5	11.5
Merged-chr2-153163145-3	chr2	153163049	153163249	+	854.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	intron (NM_133847, intron 1 of 17)	1848.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	8.0	28.5	4.5	44.5	35.0	8.0	5.0	11.5
Merged-chr18-32163446-3	chr18	32163352	32163552	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011946, exon 1 of 17)	5' UTR (NM_011946, exon 1 of 17)	363.0	NM_011946	26405.0	Mm.211762	NM_011946	ENSMUSG00000024383	Map3k2	9630061B06Rik|AI585793|Mekk2|Mekk2b	mitogen-activated protein kinase kinase kinase 2	protein-coding	57.0	51.5	58.5	566.5	113.0	37.0	33.5	45.0
Merged-chr13-98819300-4	chr13	98819194	98819394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3845.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	17.0	33.0	25.0	557.5	94.0	19.0	31.5	31.5
Merged-chr14-75045334-4	chr14	75045245	75045445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 9 of 13)	intron (NM_198642, intron 9 of 13)	29318.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	84.5	106.0	82.0	1243.5	176.5	65.0	106.0	74.0
Merged-chr4-11550306-4	chr4	11550214	11550414	+	895.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347055, exon 24 of 24)	3' UTR (NM_001347055, exon 24 of 24)	-8606.0	NM_001039556	623474.0	Mm.491200	NM_177285	ENSMUSG00000078773	Rad54b	E130016E03Rik	RAD54 homolog B (S. cerevisiae)	protein-coding	19.5	14.0	5.5	313.0	40.5	10.0	16.5	16.0
Merged-chr4-150438799-4	chr4	150438716	150438916	+	704.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 3 of 22)	intron (NM_001085492, intron 3 of 22)	156900.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	3.0	10.0	11.0	100.0	32.0	10.0	14.0	12.5
Merged-chr16-8736168-4	chr16	8736056	8736256	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003918, intron 1 of 30)	intron (NM_001003918, intron 1 of 30)	2186.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	18.5	41.0	16.5	475.0	40.5	15.5	15.5	16.5
Merged-chr1-43589198-4	chr1	43589094	43589294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141408.0	NM_024283	78896.0	Mm.50109	NM_024283	ENSMUSG00000026051	1500015O10Rik	Ecrg4	RIKEN cDNA 1500015O10 gene	protein-coding	24.0	35.0	22.5	587.5	93.0	26.0	30.5	42.0
Merged-chr8-115709583-4	chr8	115709476	115709676	+	891.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2682.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	18.0	13.5	7.5	214.0	29.0	17.5	16.5	12.5
Merged-chr1-151422376-4	chr1	151422283	151422483	+	687.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025819, intron 2 of 19)	intron (NM_025819, intron 2 of 19)	6052.0	NM_025819	66875.0	Mm.290905	NM_025819	ENSMUSG00000052748	Swt1	1200016B10Rik|C1orf26	SWT1 RNA endoribonuclease homolog (S. cerevisiae)	protein-coding	8.5	14.0	8.0	120.0	30.0	6.5	9.5	10.0
Merged-chr7-80439523-2	chr7	80439410	80439610	+	686.75	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-34074.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	6.5	1.0	3.5	128.5	28.0	15.0	9.0	20.5
Merged-chr8-83089746-4	chr8	83089617	83089817	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177378, exon 7 of 7)	3' UTR (NM_177378, exon 7 of 7)	-75635.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	9.0	9.0	24.0	197.0	12.5	6.0	9.0	6.0
Merged-chr14-74855614-4	chr14	74855457	74855657	+	893.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 2 of 19)	RSINE1|SINE|B4	92320.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	19.0	23.0	9.0	240.5	40.5	21.0	8.0	9.5
Merged-chr10-25321345-4	chr10	25321239	25321439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-22176.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	46.0	62.0	53.5	722.5	99.5	32.5	53.0	26.0
Merged-chr5-92488359-4	chr5	92488259	92488459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	17298.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	60.5	79.5	112.5	987.0	156.0	57.5	84.0	54.5
Merged-chr17-35738030-4	chr17	35737928	35738128	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33429.0	NM_007584	12305.0	Mm.5021	NM_007584	ENSMUSG00000003534	Ddr1	6030432F18|AI323681|CD167a|Cak|Nep|PTK3A	discoidin domain receptor family, member 1	protein-coding	13.5	34.0	12.5	240.0	59.5	17.0	38.0	15.5
Merged-chr15-103260564-4	chr15	103260320	103260520	+	971.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2017.0	NM_001302341	18022.0	Mm.457989	NM_008685	ENSMUSG00000058794	Nfe2	NF-E2|NF-E2/P45|p45|p45NFE2|p45nf-e2	nuclear factor, erythroid derived 2	protein-coding	2.5	3.0	4.5	41.0	9.5	6.0	7.0	10.0
Merged-chr1-85961113-4	chr1	85960996	85961196	+	971.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033290)	promoter-TSS (NM_001033290)	-41.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	10.5	31.0	14.5	340.5	46.5	18.5	16.0	19.0
Merged-chr12-57231823-2	chr12	57231723	57231923	+	864.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	MTD|LTR|ERVL-MaLR	1398.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	5.5	7.5	18.5	27.5	10.0	5.0	5.0	3.0
Merged-chr5-135909163-4	chr5	135909037	135909237	+	962.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018871, exon 2 of 2)	3' UTR (NM_018871, exon 2 of 2)	21218.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	46.5	53.5	38.5	634.0	62.0	16.5	13.0	9.5
Merged-chr13-92483532-4	chr13	92483429	92483629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163627, intron 1 of 5)	B2_Mm2|SINE|B2	502.0	NM_001163627	73942.0	Mm.85935	NM_001163627	ENSMUSG00000034334	Fam151b	4930405M20Rik	family with sequence similarity 151, member B	protein-coding	41.5	53.5	27.5	503.5	145.0	53.0	65.0	68.5
Merged-chr16-43398034-4	chr16	43397927	43398127	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	22169.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	36.0	31.0	47.5	873.0	63.0	14.0	31.5	23.5
Merged-chr14-66225232-6	chr14	66225148	66225348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-11424.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	15.0	26.0	19.5	315.5	37.5	26.0	15.5	20.5
Merged-chr15-98871505-7	chr15	98871420	98871620	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033276)	promoter-TSS (NM_001033276)	-315.0	NM_001033276	381022.0	Mm.264889	NM_001033276	ENSMUSG00000048154	Kmt2d	ALR|BC032281|BC058659|C430014K11Rik|KMT2B|Mll2|Mll4	lysine (K)-specific methyltransferase 2D	protein-coding	7.5	13.0	10.5	114.0	24.5	6.0	13.5	8.0
Merged-chr5-120503621-4	chr5	120503535	120503735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023625)	promoter-TSS (NM_023625)	-12.0	NM_023625	71772.0	Mm.100065	NM_023625	ENSMUSG00000029598	Plbd2	1300012G16Rik|AU019810|P76	phospholipase B domain containing 2	protein-coding	43.0	75.0	25.5	472.0	153.0	77.0	57.0	53.0
Merged-chr4-101356759-4	chr4	101356650	101356850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040708)	promoter-TSS (NR_040708)	-502.0	NR_040708	77866.0	Mm.137053	NR_040708	ENSMUSG00000086782	E130102H24Rik	-	RIKEN cDNA E130102H24 gene	ncRNA	26.0	38.0	29.5	404.5	120.5	26.5	29.5	42.5
Merged-chr16-90197533-4	chr16	90197419	90197619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23223.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	61.0	102.0	49.5	851.5	181.5	78.0	106.5	63.5
Merged-chr9-55541112-4	chr9	55541014	55541214	+	946.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027397)	promoter-TSS (NM_027397)	-35.0	NM_027397	104360.0	Mm.273996	NM_027397	ENSMUSG00000032318	Isl2	3110001N10Rik	insulin related protein 2 (islet 2)	protein-coding	15.0	18.0	14.5	150.5	32.0	15.5	14.5	23.0
Merged-chr4-41506406-2	chr4	41506301	41506501	+	704.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253788, intron 4 of 5)	intron (NM_001253788, intron 4 of 5)	1363.0	NM_028624	73721.0	Mm.45614	NM_028624	ENSMUSG00000028441	1110017D15Rik	Cbe1|Smrp1	RIKEN cDNA 1110017D15 gene	protein-coding	12.0	2.5	1.5	35.5	19.5	10.0	6.5	5.0
Merged-chr15-61983537-4	chr15	61983424	61983624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1817.0	NM_001177354	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	108.0	164.5	100.0	1789.0	252.0	84.5	100.5	79.0
Merged-chr9-108710922-4	chr9	108710810	108711010	+	953.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008924, intron 1 of 10)	intron (NM_008924, intron 1 of 10)	18767.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	12.5	17.5	9.5	182.0	48.0	7.5	20.5	26.5
Merged-chr2-166675608-3	chr2	166675518	166675718	+	924.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	38214.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	7.5	6.0	12.0	178.0	13.5	8.0	3.0	9.5
Merged-chr8-64945002-4	chr8	64944918	64945118	+	913.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2167.0	NM_001163747	73067.0	Mm.294445	NM_028427	ENSMUSG00000025521	Tmem192	3110005G23Rik	transmembrane protein 192	protein-coding	5.5	31.0	14.0	130.0	29.5	9.0	12.0	14.0
Merged-chr7-29169561-3	chr7	29169479	29169679	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182696)	promoter-TSS (NM_182696)	-631.0	NM_001358852	243897.0	Mm.389886	NM_182694	ENSMUSG00000031493	Ggn	AI593290	gametogenetin	protein-coding	4.0	6.5	3.5	68.0	41.0	19.5	6.0	24.5
Merged-chr11-31850549-4	chr11	31850458	31850658	+	913.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-20382.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	16.0	8.0	13.5	264.0	26.5	2.5	10.5	3.5
Merged-chr7-19817624-4	chr7	19817536	19817736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033601, intron 2 of 8)	intron (NM_033601, intron 2 of 8)	5119.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	100.5	143.5	118.5	1066.0	283.0	94.0	103.5	112.5
Merged-chr17-46520789-4	chr17	46520740	46520940	+	910.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081335, exon 23 of 41)	exon (NM_001081335, exon 23 of 41)	24051.0	NM_207161	381101.0	Mm.35801	NM_207161	ENSMUSG00000040658	Dnph1	C76683|Rcl	2'-deoxynucleoside 5'-phosphate N-hydrolase 1	protein-coding	15.5	19.5	18.0	163.0	30.5	3.0	11.0	7.0
Merged-chr12-84751454-4	chr12	84751346	84751546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	21666.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	25.0	38.0	29.0	583.0	88.0	22.5	38.0	34.5
Merged-chr14-27182322-4	chr14	27182234	27182434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	intron (NM_001289686, intron 2 of 12)	38341.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	106.0	100.5	157.0	2527.0	114.5	46.5	71.0	74.0
Merged-chr13-3611167-4	chr13	3611060	3611260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134063)	promoter-TSS (NM_134063)	-52.0	NM_001360838	105203.0	Mm.221609	NM_134063	ENSMUSG00000033799	Fam208b	AI645998|Pap20|mKIAA2006	family with sequence similarity 208, member B	protein-coding	301.5	530.5	320.0	4251.0	977.5	375.0	402.5	294.0
Merged-chr16-22119049-4	chr16	22118961	22119161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183029, intron 2 of 15)	intron (NM_183029, intron 2 of 15)	44238.0	NM_183029	319765.0	Mm.489442	NM_183029	ENSMUSG00000033581	Igf2bp2	C330012H03Rik|IMP-2|Imp2|Neilsen	insulin-like growth factor 2 mRNA binding protein 2	protein-coding	98.0	178.5	92.0	1334.5	293.5	76.5	103.5	108.0
Merged-chr5-74794335-2	chr5	74794232	74794432	+	625.666626	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-91429.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	13.5	10.0	7.0	99.0	2.0	0.0	0.0	2.5
Merged-chr13-52533855-4	chr13	52533747	52533947	+	934.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3011.0	NM_001024474	68203.0	Mm.29362	NM_001024474	ENSMUSG00000047842	Diras2	2900052J15Rik|AI414999	DIRAS family, GTP-binding RAS-like 2	protein-coding	20.5	37.5	11.0	357.5	32.0	16.5	19.0	16.0
Merged-chr1-180777825-4	chr1	180777701	180777901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	35804.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	61.5	69.0	40.5	721.0	88.5	48.0	45.5	44.5
Merged-chr11-117873433-4	chr11	117873333	117873533	+	971.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027919)	promoter-TSS (NM_027919)	93.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	18.5	21.0	14.5	223.5	36.5	17.0	25.0	27.5
Merged-chr11-110483384-3	chr11	110483298	110483498	+	840.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 2 of 11)	intron (NM_001356352, intron 2 of 11)	4058.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.0	9.0	0.5	60.5	18.5	12.0	6.5	14.5
Merged-chr19-57361644-3	chr19	57361538	57361738	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040316)	promoter-TSS (NR_040316)	629.0	NM_145505	226252.0	Mm.358870	NM_145505	ENSMUSG00000033478	Fam160b1	AI450540|mKIAA1600	family with sequence similarity 160, member B1	protein-coding	19.5	18.0	32.0	226.5	48.5	18.5	16.5	25.5
Merged-chr9-103184030-3	chr9	103183931	103184131	+	852.64447	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173781, exon 8 of 8)	3' UTR (NM_173781, exon 8 of 8)	18034.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	9.0	15.0	8.5	157.5	22.5	2.5	7.0	19.5
Merged-chr7-5125357-5	chr7	5125299	5125499	+	941.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009028, exon 1 of 1)	exon (NM_009028, exon 1 of 1)	551.0	NM_009028	19428.0	Mm.322186	NM_009028	ENSMUSG00000083649	Rasl2-9	M2|Ran|Ran/M2|Rasl2-9-ps	RAS-like, family 2, locus 9	protein-coding	14.0	8.0	11.5	39.0	28.0	7.0	10.5	12.5
Merged-chr5-17857463-4	chr5	17857378	17857578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	-7686.0	NM_001159556	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	204.0	258.0	160.0	2758.5	344.5	123.5	165.0	121.0
Merged-chr6-120191104-3	chr6	120191002	120191202	+	833.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-2721.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	14.5	10.5	16.0	289.5	8.0	9.0	9.5	7.5
Merged-chr11-62646782-4	chr11	62646681	62646881	+	925.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198861, intron 1 of 3)	intron (NM_198861, intron 1 of 3)	1268.0	NM_001357955	192976.0	Mm.339972	NM_198861	ENSMUSG00000046417	Lrrc75a	Fam211a	leucine rich repeat containing 75A	protein-coding	14.5	38.0	9.0	72.5	48.0	47.5	16.5	13.5
Merged-chr17-56553164-4	chr17	56553071	56553271	+	808.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130128, intron 2 of 3)	intron (NR_130128, intron 2 of 3)	1216.0	NR_130128	100504425.0	Mm.384143	NR_130128	ENSMUSG00000110218	Gm20219	Tincr	predicted gene, 20219	ncRNA	15.0	20.5	8.5	175.5	33.5	15.0	17.5	15.0
Merged-chr1-184083275-3	chr1	184083175	184083375	+	955.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48894.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	4.0	14.0	11.5	290.0	19.5	6.5	6.5	23.0
Merged-chr4-86657759-2	chr4	86657681	86657881	+	652.0	f0_balb.idr|f1_balb.idr	intron (NM_007408, intron 7 of 7)	intron (NM_007408, intron 7 of 7)	12278.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	10.0	7.0	18.0	169.5	17.5	2.5	6.0	6.5
Merged-chr2-84094983-1	chr2	84094883	84095083	+	724.0	f0_balb.idr	Intergenic	Intergenic	-153757.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	5.0	8.0	4.5	136.5	11.5	2.5	3.0	2.5
Merged-chr5-140331892-4	chr5	140331790	140331990	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026510)	promoter-TSS (NM_026510)	8.0	NM_026510	68017.0	Mm.38894	NM_026510	ENSMUSG00000029557	Mrm2	2310037B18Rik|Ftsj2	mitochondrial rRNA methyltransferase 2	protein-coding	16.0	22.5	3.5	203.5	34.5	12.0	14.5	8.0
Merged-chr14-75065491-4	chr14	75065408	75065608	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	49481.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	23.0	19.0	17.5	273.0	35.0	13.0	11.0	22.5
Merged-chr18-61092625-3	chr18	61092512	61092712	+	772.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-12960.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	4.0	7.5	3.0	43.5	12.5	10.5	4.5	14.0
Merged-chr15-73732915-8	chr15	73732853	73733053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166388, intron 1 of 5)	UCON5|Unknown|Unknown	8023.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	14.0	31.5	16.5	173.5	65.0	35.0	22.0	27.0
Merged-chr1-194962394-4	chr1	194962302	194962502	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033564, intron 2 of 4)	intron (NR_033564, intron 2 of 4)	14557.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	20.5	28.5	15.0	236.0	46.0	7.0	9.0	15.5
Merged-chr3-14874617-4	chr3	14874618	14874818	+	826.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11180.0	NM_007606	12350.0	Mm.300	NM_007606	ENSMUSG00000027559	Car3	BB219044|Ca3|Car-3	carbonic anhydrase 3	protein-coding	1.0	6.0	4.0	29.0	14.5	8.0	5.0	5.5
Merged-chr6-146616794-3	chr6	146616699	146616899	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026281, intron 6 of 11)	MTE2b|LTR|ERVL-MaLR	17793.0	NM_026281	67623.0	Mm.278037	NM_026281	ENSMUSG00000040234	Tm7sf3	2010003B14Rik|NARP1	transmembrane 7 superfamily member 3	protein-coding	30.5	20.5	73.5	586.5	1.5	3.5	0.5	1.0
Merged-chr12-69199696-4	chr12	69199589	69199789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033222, exon 2 of 2)	non-coding (NR_033222, exon 2 of 2)	-1260.0	NM_027269	109065.0	Mm.107180	NM_027269	ENSMUSG00000020973	Dnaaf2	Ktu|TU54|kintoun|mknt	dynein, axonemal assembly factor 2	protein-coding	53.5	67.5	49.0	1014.5	135.5	46.0	73.0	63.0
Merged-chr2-131530735-4	chr2	131530643	131530843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	31542.0	NM_013460	11550.0	Mm.389380	NM_013460	ENSMUSG00000027335	Adra1d	Adra-1|Adra1|Adra1a|Gpcr8|Spr8|[a]1d|alpha1D-AR	adrenergic receptor, alpha 1d	protein-coding	18.5	28.0	21.0	331.0	53.0	22.5	26.0	27.5
Merged-chr2-155299666-3	chr2	155299550	155299750	+	941.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004721, intron 8 of 11)	intron (NM_001004721, intron 8 of 11)	23286.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	18.0	29.5	18.0	332.5	3.0	1.0	5.5	11.5
Merged-chr15-25692519-3	chr15	25692433	25692633	+	616.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 2 of 40)	PB1D10|SINE|Alu	-60673.0	NM_001353142	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	6.5	7.0	8.5	62.0	1.5	3.0	4.5	4.5
Merged-chr8-109694079-4	chr8	109693993	109694193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028018)	promoter-TSS (NM_028018)	-799.0	NM_001361562	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	46.5	73.0	65.0	754.0	152.5	57.0	60.0	85.5
Merged-chr5-31697856-4	chr5	31697764	31697964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181282)	promoter-TSS (NM_181282)	-186.0	NM_181281	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	65.5	148.0	78.5	919.5	186.0	85.5	93.0	106.0
Merged-chr12-3844489-3	chr12	3844428	3844628	+	873.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 2 of 22)	intron (NM_007872, intron 2 of 22)	17716.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	9.5	7.0	9.0	114.0	12.0	2.5	7.5	2.5
Merged-chr4-137072809-3	chr4	137072701	137072901	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24106.0	NM_198248	230848.0	Mm.31068	NM_198248	ENSMUSG00000060862	Zbtb40	BC059177|C230087D24|Gm571|mKIAA0478	zinc finger and BTB domain containing 40	protein-coding	8.5	14.5	7.5	167.5	23.0	5.5	7.5	13.0
Merged-chr17-34180711-4	chr17	34180596	34180796	+	864.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6634.0	NM_013585	16912.0	Mm.390983	NM_013585	ENSMUSG00000096727	Psmb9	Lmp-2|Lmp2	proteasome (prosome, macropain) subunit, beta type 9 (large multifunctional peptidase 2)	protein-coding	6.0	8.5	11.0	86.5	93.5	12.0	32.0	18.0
Merged-chr2-155071230-3	chr2	155071108	155071308	+	689.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016661, intron 1 of 9)	L2|LINE|L2	3289.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	5.0	11.0	8.0	36.5	15.0	2.5	1.5	1.0
Merged-chr2-84059459-4	chr2	84059349	84059549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118223.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	96.0	133.5	115.5	1377.5	185.0	85.0	76.0	74.5
Merged-chr11-86745758-4	chr11	86745654	86745854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	intron (NM_001003908, intron 1 of 31)	11813.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	30.0	27.5	37.0	525.0	49.5	21.0	20.0	16.0
Merged-chr12-17715873-4	chr12	17715752	17715952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	25043.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	74.5	103.5	70.0	1318.5	160.5	57.5	104.0	70.0
Merged-chr11-79905588-3	chr11	79905475	79905675	+	935.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	56812.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	8.0	9.5	15.5	180.5	5.0	4.0	6.5	7.5
Merged-chr4-101214226-4	chr4	101214140	101214340	+	856.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	intron (NM_146145, intron 1 of 24)	51042.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	12.0	13.0	10.5	246.5	24.0	12.0	8.5	5.5
Merged-chr14-30617464-3	chr14	30617354	30617554	+	814.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	-7144.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	11.5	15.5	10.0	88.5	15.0	7.0	7.5	5.0
Merged-chr8-123477931-4	chr8	123477853	123478053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054070)	promoter-TSS (NM_054070)	91.0	NR_028260	114896.0	Mm.287475	NM_054070	ENSMUSG00000031967	Afg3l1	1700047G05Rik|3110061K15Rik	AFG3-like AAA ATPase 1	protein-coding	66.0	78.0	73.5	650.0	137.0	59.0	53.0	70.0
Merged-chr19-61226021-6	chr19	61225957	61226157	+	841.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009970, intron 6 of 11)	CpG-7695	2361.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	3.0	7.0	5.5	28.5	38.0	8.5	4.5	20.5
Merged-chr15-99416720-4	chr15	99416629	99416829	+	920.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23510.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	18.0	25.0	13.0	136.0	69.5	12.5	12.0	14.0
Merged-chr10-58383455-4	chr10	58383358	58383558	+	790.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201242, intron 1 of 9)	intron (NM_201242, intron 1 of 9)	-10915.0	NM_001193303	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	11.5	24.0	4.0	207.0	22.0	9.0	11.0	12.0
Merged-chr4-123342904-4	chr4	123342812	123343012	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001256019, exon 1 of 7)	5' UTR (NM_001256019, exon 1 of 7)	340.0	NM_001256019	12163.0	Mm.439749	NM_007558	ENSMUSG00000032726	Bmp8a	Bmp7r1|OP-2|OP2	bone morphogenetic protein 8a	protein-coding	11.5	25.5	9.5	195.0	38.5	12.5	22.0	13.0
Merged-chr1-36617027-4	chr1	36616933	36617133	+	788.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201365, intron 6 of 9)	Lx7|LINE|L1	-23701.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	15.5	7.0	7.0	180.5	29.0	10.5	8.0	12.5
Merged-chr5-43855020-4	chr5	43854923	43855123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13786.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	54.5	22.5	72.5	979.0	49.5	14.5	23.5	13.0
Merged-chr2-84999646-4	chr2	84999571	84999771	+	975.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145526, exon 11 of 12)	exon (NM_145526, exon 11 of 12)	11456.0	NM_016914	53856.0	Mm.19943	NM_016914	ENSMUSG00000027072	Prg3	MBP2|MBPH	proteoglycan 3	protein-coding	8.5	28.5	17.0	238.5	74.0	15.0	40.5	28.5
Merged-chr2-105716765-3	chr2	105716677	105716877	+	842.1889039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023876, intron 9 of 9)	intron (NM_023876, intron 9 of 9)	34314.0	NM_001310145	18508.0	Mm.3608	NM_013627	ENSMUSG00000027168	Pax6	1500038E17Rik|AEY11|Dey|Gsfaey11|Pax-6|Sey	paired box 6	protein-coding	10.0	24.0	12.5	34.0	28.5	3.0	3.0	0.0
Merged-chr10-61375320-4	chr10	61375211	61375411	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013753, intron 1 of 19)	intron (NM_013753, intron 1 of 19)	8212.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	15.0	21.0	4.0	167.0	39.0	8.0	24.0	8.5
Merged-chr12-73846837-3	chr12	73846721	73846921	+	912.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-54503.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	9.0	18.0	3.5	116.5	13.0	9.0	6.5	6.0
Merged-chr17-26113320-4	chr17	26113215	26113415	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021793)	promoter-TSS (NM_021793)	-1.0	NM_021793	60455.0	Mm.304656	NM_021793	ENSMUSG00000024180	Tmem8	AW490096|GPI-PLA2|M83|Pgap6|Tmem8a	transmembrane protein 8 (five membrane-spanning domains)	protein-coding	39.5	44.0	20.0	370.5	76.5	20.0	26.0	18.0
Merged-chr5-88720843-4	chr5	88720727	88720927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026735)	promoter-TSS (NM_026735)	-44.0	NM_026735	68473.0	Mm.35764	NM_026735	ENSMUSG00000006262	Mob1b	1110003E08Rik|AU015450|B230364F10|Mobkl1a	MOB kinase activator 1B	protein-coding	212.0	293.5	197.5	3613.0	547.5	246.0	252.0	202.5
Merged-chr10-37261288-4	chr10	37261188	37261388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122362.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	69.5	92.0	58.0	832.0	141.5	40.0	73.0	35.0
Merged-chr16-94332023-3	chr16	94331920	94332120	+	701.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133229, intron 2 of 3)	intron (NM_133229, intron 2 of 3)	3598.0	NM_133229	170765.0	Mm.42604	NM_133229	ENSMUSG00000022941	Ripply3	Dscr6	ripply transcriptional repressor 3	protein-coding	5.5	12.5	10.5	82.5	21.5	9.0	7.0	15.5
Merged-chr10-45058311-3	chr10	45058205	45058405	+	608.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-8909.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	11.5	8.0	8.5	83.0	21.0	2.5	4.0	7.0
Merged-chr13-24338036-4	chr13	24337939	24338139	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284519, intron 2 of 17)	intron (NM_001284519, intron 2 of 17)	10635.0	NM_001111110	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	8.0	10.5	10.5	145.5	25.0	13.5	16.0	19.0
Merged-chr8-105393965-4	chr8	105393860	105394060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301173, intron 4 of 15)	intron (NM_001301173, intron 4 of 15)	18579.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	23.5	58.0	26.0	194.5	64.0	40.0	26.5	33.0
Merged-chr6-39418102-4	chr6	39418005	39418205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018810, intron 1 of 7)	intron (NM_018810, intron 1 of 7)	1671.0	NM_001311109	54484.0	Mm.270484	NM_018810	ENSMUSG00000029922	Mkrn1	RFP	makorin, ring finger protein, 1	protein-coding	104.5	150.5	72.5	859.0	148.5	75.0	73.5	44.0
Merged-chr9-106261306-3	chr9	106261200	106261400	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13346.0	NM_020559	11655.0	Mm.290578	NM_020559	ENSMUSG00000032786	Alas1	ALAS|ALAS-N|Alas-1|Alas-h	aminolevulinic acid synthase 1	protein-coding	3.0	21.5	3.0	38.0	78.5	33.0	38.0	38.0
Merged-chr1-72711272-4	chr1	72711164	72711364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009084)	promoter-TSS (NM_009084)	4.0	NM_009084	19981.0	Mm.21529	NM_009084	ENSMUSG00000046330	Rpl37a	-	ribosomal protein L37a	protein-coding	91.0	118.0	95.0	1286.0	253.5	63.0	116.0	95.5
Merged-chr5-122158211-4	chr5	122158074	122158274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013636)	promoter-TSS (NM_013636)	-105.0	NM_013636	19047.0	Mm.280784	NM_013636	ENSMUSG00000004455	Ppp1cc	PP-1G|PP1|dis2m1	protein phosphatase 1, catalytic subunit, gamma isoform	protein-coding	166.0	190.5	113.0	1427.0	397.5	169.0	141.5	124.0
Merged-chr2-167496555-4	chr2	167496456	167496656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030743, intron 1 of 7)	L3|LINE|CR1	-3682.0	NM_001356523	263876.0	Mm.34342	NM_170756	ENSMUSG00000047030	Spata2	AI504642|mKIAA0757	spermatogenesis associated 2	protein-coding	147.0	341.5	97.0	1538.0	388.0	137.0	118.0	97.5
Merged-chr4-117133525-1	chr4	117133425	117133625	+	1000.0	f0_c57.idr	intron (NM_001313916, intron 1 of 14)	CpG	438.0	NM_013807	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	17.0	28.0	12.5	237.5	32.5	22.5	21.0	18.5
Merged-chr5-124478389-4	chr5	124478242	124478442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030259)	promoter-TSS (NM_030259)	-107.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	101.5	157.5	55.5	854.0	265.0	102.5	109.0	95.0
Merged-chr15-101859926-4	chr15	101859829	101860029	+	749.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001003667)	TTS (NM_001003667)	-9143.0	NM_008473	16678.0	Mm.183137	NM_008473	ENSMUSG00000046834	Krt1	Krt-2.1|Krt2-1|Krt86	keratin 1	protein-coding	9.5	7.0	14.0	101.0	13.0	7.0	5.0	10.0
Merged-chr17-67246693-4	chr17	67246670	67246870	+	929.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	107689.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	4.0	8.0	3.0	194.0	25.0	9.5	17.0	12.0
Merged-chr10-57001535-4	chr10	57001435	57001635	+	910.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	484818.0	NR_045353	74928.0	Mm.416643	NR_045353	ENSMUSG00000097370	4930467K11Rik	-	RIKEN cDNA 4930467K11 gene	ncRNA	20.5	36.0	22.5	433.5	28.5	11.0	17.0	13.0
Merged-chr15-77798849-3	chr15	77798759	77798959	+	758.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	-41849.0	NM_001357895	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	7.5	9.5	6.5	72.0	10.0	4.0	1.5	6.0
Merged-chr12-17551473-3	chr12	17551411	17551611	+	813.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013614)	TTS (NM_013614)	6638.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	4.0	2.0	0.0	19.5	12.0	7.0	9.5	10.5
Merged-chr8-117079903-4	chr8	117079813	117080013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 3 of 42)	intron (NM_029686, intron 3 of 42)	2536.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	33.0	47.5	30.0	430.5	74.0	24.5	33.0	23.5
Merged-chr5-117133583-4	chr5	117133503	117133703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183306)	promoter-TSS (NM_183306)	15.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	39.5	60.5	37.5	575.5	77.0	25.5	46.0	38.0
Merged-chr2-131258926-4	chr2	131258802	131259002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3106.0	NM_001355681	74450.0	Mm.101264	NM_153501	ENSMUSG00000037514	Pank2	4933409I19Rik|AI642621	pantothenate kinase 2	protein-coding	51.5	57.0	40.0	446.0	146.0	65.0	79.5	59.0
Merged-chr6-29925747-4	chr6	29925659	29925859	+	978.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037740, intron 4 of 20)	intron (NM_001037740, intron 4 of 20)	8746.0	NM_001037740	320609.0	Mm.56097	NM_177204	ENSMUSG00000039629	Strip2	D330017J20Rik|Fam40b	striatin interacting protein 2	protein-coding	43.0	36.5	27.0	528.5	37.5	18.5	18.0	34.0
Merged-chr9-83831298-4	chr9	83831187	83831387	+	953.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3402.0	NM_009445	22137.0	Mm.1904	NM_009445	ENSMUSG00000038379	Ttk	AL022661|Esk1|Mps1|PYT|esk	Ttk protein kinase	protein-coding	9.5	14.5	11.5	158.5	32.5	13.5	8.0	11.5
Merged-chr17-28750787-4	chr17	28750685	28750885	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-18532.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	24.0	43.0	28.0	319.5	18.5	12.0	29.5	11.0
Merged-chr18-35745435-4	chr18	35745352	35745552	+	751.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11D|LTR|ERVK	-4898.0	NM_001289592	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	15.0	13.5	6.0	83.0	32.5	9.0	5.5	13.5
Merged-chr18-70415606-3	chr18	70415510	70415710	+	914.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-56844.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	1.0	1.0	5.5	12.0	48.0	14.5	33.0	18.5
Merged-chr7-75668598-2	chr7	75668498	75668698	+	825.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 10 of 36)	intron (NM_029332, intron 10 of 36)	-179740.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	0.5	8.5	4.0	27.5	9.5	9.0	5.0	7.0
Merged-chr2-170507925-4	chr2	170507826	170508026	+	942.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040367, intron 1 of 2)	intron (NR_040367, intron 1 of 2)	-3304.0	NM_001110152	109054.0	Mm.28808	NM_001013369	ENSMUSG00000052033	Pfdn4	0610025M10Rik|1810063B06Rik|C-1|C1|Pfd4	prefoldin 4	protein-coding	21.0	22.5	9.0	369.0	58.0	15.5	14.0	20.5
Merged-chr8-40495825-3	chr8	40495729	40495929	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011135, exon 6 of 7)	exon (NM_011135, exon 6 of 7)	14650.0	NM_001361938	18983.0	Mm.272551	NM_011135	ENSMUSG00000031601	Cnot7	AU022737|CAF-1|Caf1|Pop2	CCR4-NOT transcription complex, subunit 7	protein-coding	39.0	34.5	26.5	512.5	29.0	4.5	6.0	7.5
Merged-chr12-70698499-3	chr12	70698384	70698584	+	729.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-127030.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	12.0	6.5	7.0	232.5	3.5	0.0	2.0	0.5
Merged-chr11-95825093-4	chr11	95824994	95825194	+	938.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153104, intron 1 of 2)	intron (NM_153104, intron 1 of 2)	594.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	14.5	17.5	7.0	206.5	33.0	12.0	10.0	23.0
Merged-chr1-171841569-3	chr1	171841481	171841681	+	831.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289470, intron 2 of 8)	L1_Mur3|LINE|L1	1884.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	6.0	8.0	7.5	77.5	16.5	6.5	4.5	7.0
Merged-chr1-91459455-4	chr1	91459348	91459548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011066)	promoter-TSS (NM_011066)	-120.0	NM_011066	18627.0	Mm.482463	NM_011066	ENSMUSG00000055866	Per2	mKIAA0347|mPer2	period circadian clock 2	protein-coding	335.5	496.5	283.5	3815.5	618.0	293.0	298.5	293.5
Merged-chr1-62725153-3	chr1	62725002	62725202	+	931.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 2 of 16)	intron (NM_001077404, intron 2 of 16)	21785.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	19.0	29.0	24.0	89.5	12.0	10.0	8.0	4.5
Merged-chr4-156087575-4	chr4	156087482	156087682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22416.0	NM_145557	230996.0	Mm.318925	NM_145557	ENSMUSG00000059939	9430015G10Rik	-	RIKEN cDNA 9430015G10 gene	protein-coding	21.5	26.0	17.5	335.0	60.5	10.5	24.0	23.0
Merged-chr9-21426246-4	chr9	21426152	21426352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357721, intron 1 of 19)	intron (NM_001357721, intron 1 of 19)	1344.0	NM_001357719	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	31.5	34.5	22.5	378.5	63.5	22.5	33.5	34.0
Merged-chr5-92279924-4	chr5	92279832	92280032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1751.0	NM_025972	67111.0	Mm.28890	NM_025972	ENSMUSG00000029413	Naaa	2210023K21Rik|3830414F09Rik|Asahl	N-acylethanolamine acid amidase	protein-coding	42.5	60.0	28.5	596.0	116.5	25.0	38.5	35.0
Merged-chr11-69655502-4	chr11	69655358	69655558	+	870.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009235, exon 1 of 2)	exon (NM_009235, exon 1 of 2)	421.0	NM_009235	20670.0	Mm.347499	NM_009235	ENSMUSG00000041287	Sox15	-	SRY (sex determining region Y)-box 15	protein-coding	5.5	8.5	4.5	57.5	21.0	16.5	8.0	4.5
Merged-chr3-94851903-3	chr3	94851803	94852003	+	803.483337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165948, intron 1 of 18)	intron (NM_001165948, intron 1 of 18)	14336.0	NM_172683	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	5.0	11.5	8.0	187.0	14.5	1.0	13.5	13.5
Merged-chr3-127492189-2	chr3	127492088	127492288	+	788.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	6927.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.5	0.5	0.0	11.5	4.5	9.5	7.5
Merged-chr10-68721196-4	chr10	68721097	68721297	+	920.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2549.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	14.5	14.5	30.5	433.0	36.0	13.0	14.5	15.0
Merged-chr13-91460963-4	chr13	91460844	91461044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024186)	promoter-TSS (NM_024186)	-153.0	NM_024272	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	213.5	254.5	227.5	3366.5	358.0	167.5	219.0	144.0
Merged-chr6-56808830-4	chr6	56808725	56808925	+	921.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11012.0	NM_001362213	210973.0	Mm.57295	NM_145958	ENSMUSG00000059486	Kbtbd2	BC022962|Bklhd1|mKIAA1489	kelch repeat and BTB (POZ) domain containing 2	protein-coding	14.5	36.0	6.5	289.0	38.0	15.0	24.5	13.5
Merged-chr5-140116664-2	chr5	140116564	140116764	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359025, intron 14 of 17)	B4A|SINE|B4	58254.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	6.5	8.0	4.5	166.0	25.0	8.0	6.0	9.0
Merged-chr13-37453340-4	chr13	37453236	37453436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	107991.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	38.0	69.0	20.0	471.5	94.0	17.5	24.0	29.0
Merged-chr11-107452295-2	chr11	107452195	107452395	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	Lx7|LINE|L1	18425.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	8.0	7.5	0.0	50.5	18.0	4.5	8.0	26.5
Merged-chr5-100500796-4	chr5	100500690	100500890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172714)	promoter-TSS (NM_172714)	-151.0	NM_001359914	231506.0	Mm.212568	NM_172714	ENSMUSG00000035310	Lin54	AI461788	lin-54 homolog (C. elegans)	protein-coding	130.5	237.5	93.5	1392.5	363.5	145.0	147.0	101.0
Merged-chr15-95789723-4	chr15	95789611	95789811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1132.0	NM_175344	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	36.0	75.5	45.5	772.0	139.5	33.0	52.5	54.0
Merged-chr19-17393489-1	chr19	17393389	17393589	+	622.0	f0_balb.idr	promoter-TSS (NM_019437)	promoter-TSS (NM_019437)	-554.0	NM_019437	54391.0	Mm.7013	NM_019437	ENSMUSG00000024712	Rfk	0610038L10Rik|AF031381|KOI-4	riboflavin kinase	protein-coding	4.5	6.5	7.0	81.5	8.5	2.0	0.0	3.0
Merged-chr17-67341690-4	chr17	67341598	67341798	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	12761.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	38.5	44.5	59.5	778.5	69.5	14.5	26.5	19.5
Merged-chr2-126602422-4	chr2	126602328	126602528	+	868.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008230, intron 7 of 11)	intron (NM_008230, intron 7 of 11)	16250.0	NM_008230	15186.0	Mm.18603	NM_008230	ENSMUSG00000027360	Hdc	AW108189|Hdc-a|Hdc-c|Hdc-e|Hdc-s	histidine decarboxylase	protein-coding	26.5	23.0	10.0	106.0	30.0	16.5	14.0	25.0
Merged-chr5-3497863-4	chr5	3497737	3497937	+	886.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-45996.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	17.0	40.0	11.5	368.0	23.0	9.0	8.5	9.5
Merged-chr9-44231150-4	chr9	44231031	44231231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	intron (NM_007619, intron 1 of 15)	2915.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	38.0	75.5	23.0	311.0	101.5	48.0	30.5	35.5
Merged-chr3-31094577-4	chr3	31094471	31094671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011386)	promoter-TSS (NM_011386)	-487.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	141.5	290.0	195.5	1966.0	466.5	160.5	212.0	129.5
Merged-chr7-27545839-3	chr7	27545729	27545929	+	868.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011116, intron 1 of 13)	RMER19B|LTR|ERVK	7389.0	NM_011116	18807.0	Mm.6483	NM_011116	ENSMUSG00000003363	Pld3	Sam-9	phospholipase D family, member 3	protein-coding	7.5	5.0	10.5	35.5	12.0	4.0	6.0	1.5
Merged-chr19-5018944-4	chr19	5018836	5019036	+	848.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5070.0	NM_007854	13340.0	Mm.4930	NM_007854	ENSMUSG00000024891	Slc29a2	Der12|Ent2|Hnp36	solute carrier family 29 (nucleoside transporters), member 2	protein-coding	25.5	25.5	13.0	130.0	44.5	16.5	11.5	16.5
Merged-chr1-37344661-3	chr1	37344489	37344689	+	963.875	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	-24628.0	NM_172971	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	5.0	7.5	21.5	114.0	6.0	1.0	1.0	2.5
Merged-chr17-29549265-4	chr17	29549170	29549370	+	861.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198647)	promoter-TSS (NM_198647)	323.0	NM_001162901	71138.0	Mm.158581	NM_001162901	ENSMUSG00000079580	Tmem217	4933413N12Rik|EG622644	transmembrane protein 217	protein-coding	12.0	13.0	8.0	135.0	24.0	7.0	13.0	5.0
Merged-chr4-5644562-1	chr4	5644462	5644662	+	871.0	f0_balb.idr	intron (NM_173426, intron 1 of 2)	CpG	472.0	NM_173426	242297.0	Mm.331470	NM_173426	ENSMUSG00000049119	Fam110b	1700012H17Rik|5031405P22|AW049855	family with sequence similarity 110, member B	protein-coding	5.5	13.5	26.5	145.5	23.0	10.5	7.0	7.0
Merged-chr4-56757466-4	chr4	56757374	56757574	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026079, intron 34 of 36)	intron (NM_026079, intron 34 of 36)	14052.0	NM_009611	11470.0	Mm.30959	NM_009611	ENSMUSG00000070979	Actl7a	Tact2	actin-like 7a	protein-coding	17.0	11.5	10.5	308.5	213.0	81.5	127.0	112.0
Merged-chr10-78144327-4	chr10	78144235	78144435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25433.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	31.0	32.0	44.0	560.0	70.5	21.5	35.5	34.0
Merged-chr3-52046226-4	chr3	52046126	52046326	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	58780.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	46.5	28.5	17.5	489.0	46.0	34.5	24.0	32.5
Merged-chr6-67170481-4	chr6	67170414	67170614	+	953.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96465.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	16.5	18.0	17.0	194.0	26.5	11.5	7.0	17.0
Merged-chr2-128855607-4	chr2	128855512	128855712	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8320.0	NM_024237	70370.0	Mm.5107	NM_024237	ENSMUSG00000027386	Fbln7	1600015H20Rik|AI464334|TM14	fibulin 7	protein-coding	22.5	21.5	22.0	421.5	31.5	12.0	13.0	23.0
Merged-chr2-93450922-4	chr2	93450835	93451035	+	874.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136055, intron 1 of 9)	intron (NM_001136055, intron 1 of 9)	1737.0	NM_001271462	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	13.0	16.0	4.5	106.5	28.0	3.5	13.5	9.0
Merged-chr19-5692775-4	chr19	5692666	5692866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022012, intron 3 of 11)	intron (NM_022012, intron 3 of 11)	3635.0	NM_022012	26403.0	Mm.185026	NM_022012	ENSMUSG00000004054	Map3k11	2610017K16Rik|Mlk3|PTK1|SPRK	mitogen-activated protein kinase kinase kinase 11	protein-coding	60.0	35.5	33.0	392.0	98.0	23.0	30.5	34.5
Merged-chr5-25087145-3	chr5	25087062	25087262	+	788.399963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	intron (NM_145401, intron 1 of 15)	13480.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	9.0	10.0	5.0	185.0	5.0	2.5	3.5	12.5
Merged-chr17-56474564-2	chr17	56474483	56474683	+	870.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 1 of 27)	CpG	1897.0	NM_001252455	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	5.0	3.5	4.5	52.0	9.0	6.0	5.5	8.0
Merged-chr3-146329057-2	chr3	146328957	146329157	+	620.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	49887.0	NR_033542	100038607.0	Mm.365888	NR_033542	ENSMUSG00000105602	Gm10636	-	predicted gene 10636	ncRNA	6.0	8.0	4.5	28.5	9.5	5.5	6.0	9.0
Merged-chr5-5266621-4	chr5	5266513	5266713	+	842.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310448)	promoter-TSS (NM_001310448)	-545.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	8.5	7.5	6.0	159.5	20.5	6.0	11.5	10.0
Merged-chr2-167771764-4	chr2	167771666	167771866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80589.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	32.0	38.5	62.5	789.5	80.5	18.0	38.5	42.5
Merged-chr7-31208355-4	chr7	31208269	31208469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	46011.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	25.5	46.5	45.0	398.0	52.5	23.5	26.0	25.0
Merged-chr4-85618959-3	chr4	85618895	85619095	+	822.93335	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	413539.0	NM_019535	20404.0	Mm.143603	NM_019535	ENSMUSG00000028488	Sh3gl2	9530001L19Rik|AI120490|AW555077|B930049H17Rik|EEN-B1|SH3PA|Sh3d2a	SH3-domain GRB2-like 2	protein-coding	1.5	7.0	2.0	42.0	51.0	19.5	14.5	15.0
Merged-chr13-21945263-4	chr13	21945166	21945366	+	971.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360886, intron 1 of 5)	CpG	166.0	NM_001360886	193452.0	Mm.187446	NM_183014	ENSMUSG00000006720	Zfp184	4930500C15Rik	zinc finger protein 184 (Kruppel-like)	protein-coding	20.5	27.5	24.5	323.0	32.0	16.0	26.0	21.0
Merged-chr2-32583601-4	chr2	32583517	32583717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198191, exon 10 of 10)	3' UTR (NM_198191, exon 10 of 10)	-3461.0	NM_001276425	20448.0	Mm.27446	NM_011373	ENSMUSG00000079442	St6galnac4	SIAT7-D|ST6GalNAcIV|Siat7d	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4	protein-coding	46.0	81.0	27.5	495.5	118.5	50.0	58.0	50.0
Merged-chr2-45114725-4	chr2	45114604	45114804	+	959.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110572)	TTS (NR_110572)	-1425.0	NM_015753	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	9.5	29.0	19.0	108.0	28.5	15.5	11.0	6.0
Merged-chr1-72710855-3	chr1	72710769	72710969	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009084)	promoter-TSS (NM_009084)	-391.0	NM_009084	19981.0	Mm.21529	NM_009084	ENSMUSG00000046330	Rpl37a	-	ribosomal protein L37a	protein-coding	10.5	21.0	11.0	113.0	51.0	26.5	19.5	17.5
Merged-chr17-56257572-3	chr17	56257450	56257650	+	991.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010192, exon 1 of 1)	exon (NM_010192, exon 1 of 1)	757.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	5.0	11.5	4.5	45.0	19.0	5.0	3.5	14.5
Merged-chr11-95832089-6	chr11	95832044	95832244	+	921.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153104)	TTS (NM_153104)	7644.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	5.0	13.0	13.5	102.0	18.0	4.0	6.5	10.5
Merged-chr7-101538285-4	chr7	101538176	101538376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17526.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	73.0	82.5	50.5	676.5	139.0	57.5	41.5	50.5
Merged-chr11-12535741-4	chr11	12535646	12535846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70786.0	NM_001282993	12808.0	Mm.22847	NM_172496	ENSMUSG00000020173	Cobl	-	cordon-bleu WH2 repeat	protein-coding	29.0	76.0	45.5	665.5	98.5	28.0	23.0	37.5
Merged-chr1-16703074-2	chr1	16702977	16703177	+	851.333374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001159711, intron 3 of 4)	intron (NM_001159711, intron 3 of 4)	14621.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	1.5	1.0	2.0	6.0	36.5	7.5	7.5	15.5
Merged-chr5-112324750-4	chr5	112324658	112324858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1611.0	NM_018783	54723.0	Mm.172947	NM_018783	ENSMUSG00000029345	Tfip11	2810002G02Rik|AF097181|AW046167|Srr1|TIP33|Tip39	tuftelin interacting protein 11	protein-coding	174.5	235.5	155.5	2090.0	220.5	74.5	79.5	95.0
Merged-chr17-81424566-4	chr17	81424471	81424671	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 7 of 8)	intron (NR_104580, intron 7 of 8)	313816.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	11.0	11.0	8.0	362.5	8.0	6.0	10.5	13.0
Merged-chr11-59545245-4	chr11	59545096	59545296	+	690.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 2 of 9)	B3|SINE|B2	2510.0	NR_153314	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	12.5	4.0	0.0	81.5	23.0	9.0	5.0	9.0
Merged-chr5-43185715-4	chr5	43185642	43185842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	intron (NR_028417, intron 5 of 7)	-47721.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	60.0	128.0	108.5	1654.5	193.5	73.0	129.5	91.5
Merged-chr15-53237698-3	chr15	53237601	53237801	+	956.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	108482.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	14.0	22.0	15.5	286.5	15.5	6.5	10.5	10.0
Merged-chr14-37165417-4	chr14	37165306	37165506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30084.0	NM_078478	66092.0	Mm.182912	NM_078478	ENSMUSG00000041028	Ghitm	1010001P14Rik|C77840|MICS1|PTD010|Tmbim5	growth hormone inducible transmembrane protein	protein-coding	50.0	92.5	32.5	721.0	153.5	73.5	49.5	61.0
Merged-chr11-78791682-4	chr11	78791580	78791780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34915.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	39.5	41.0	19.5	344.0	67.5	31.5	24.5	30.0
Merged-chr6-72553656-3	chr6	72553549	72553749	+	729.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271395, intron 1 of 9)	intron (NM_001271395, intron 1 of 9)	4002.0	NM_001271395	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	2.0	4.5	4.5	58.0	19.0	5.0	7.0	12.5
Merged-chr8-105290292-5	chr8	105290170	105290370	+	918.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166394)	promoter-TSS (NM_001166394)	-742.0	NM_028888	74356.0	Mm.204876	NM_028888	ENSMUSG00000014837	4931428F04Rik	AI426165|Kiaa0895l	RIKEN cDNA 4931428F04 gene	protein-coding	8.5	1.0	1.0	110.5	15.0	6.0	19.0	7.5
Merged-chr5-138831971-4	chr5	138831863	138832063	+	908.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	11883.0	NM_001195128	384244.0	Mm.485002	NM_001195128	ENSMUSG00000094504	Gm5294	EG384244	predicted gene 5294	protein-coding	16.5	22.0	22.5	111.0	22.5	13.0	13.5	24.0
Merged-chr13-94702811-4	chr13	94702817	94703017	+	942.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-86026.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	7.0	19.5	15.0	301.5	28.5	9.5	13.5	19.0
Merged-chr10-41288976-4	chr10	41288863	41289063	+	905.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133999, intron 1 of 22)	intron (NM_133999, intron 1 of 22)	14278.0	NM_133999	103199.0	Mm.277242	NM_133999	ENSMUSG00000038417	Fig4	A530089I17Rik|AI326867|Sac3	FIG4 phosphoinositide 5-phosphatase	protein-coding	14.5	10.5	8.5	184.0	24.0	11.5	18.0	29.5
Merged-chr8-69921611-2	chr8	69921511	69921711	+	949.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 3 of 12)	intron (NM_001286450, intron 3 of 12)	-19053.0	NM_023312	67184.0	Mm.21162	NM_023312	ENSMUSG00000036199	Ndufa13	2700054G14Rik|AU022060|CDA016|CGI-39|GRIM-19|Grim19	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13	protein-coding	3.0	4.5	2.0	35.5	6.0	4.5	7.0	6.5
Merged-chr10-13323441-4	chr10	13323317	13323517	+	881.854126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	872.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	8.0	11.0	14.0	151.5	40.5	4.5	10.5	10.5
Merged-chr19-40678683-4	chr19	40678572	40678772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	18902.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	140.5	185.5	280.5	3587.5	301.5	82.0	204.5	152.5
Merged-chr5-36575470-3	chr5	36575390	36575590	+	996.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113362, intron 2 of 14)	intron (NM_001113362, intron 2 of 14)	6907.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	3.0	0.0	1.5	62.0	46.5	11.5	17.0	14.0
Merged-chr8-70560914-2	chr8	70560814	70561014	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	21239.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	6.0	5.0	7.0	288.5	9.0	0.0	2.5	4.0
Merged-chr2-120353085-4	chr2	120352978	120353178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027618)	promoter-TSS (NR_027618)	55.0	NR_027618	269338.0	Mm.246131	NM_147153	ENSMUSG00000027291	Vps39	A230065P22Rik|AW743070|Vam6|Vam6P|mVam6	VPS39 HOPS complex subunit	protein-coding	72.5	125.5	45.0	1110.5	192.0	47.5	62.5	55.5
Merged-chr7-127573241-4	chr7	127573143	127573343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026888)	promoter-TSS (NM_026888)	-105.0	NM_001360741	68961.0	Mm.274473	NM_026888	ENSMUSG00000030815	Phkg2	1500017I02Rik	phosphorylase kinase, gamma 2 (testis)	protein-coding	234.5	335.0	191.0	2631.0	444.5	164.0	178.5	197.0
Merged-chr1-144244372-3	chr1	144244318	144244518	+	977.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_015811)	TTS (NM_015811)	4686.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	22.5	19.5	12.5	126.5	17.5	6.0	7.0	11.5
Merged-chr11-70306254-4	chr11	70306152	70306352	+	854.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR73|LTR|ERV1	16278.0	NM_145684	11685.0	Mm.274093	NM_145684	ENSMUSG00000018907	Alox12e	12-LOX|8-LOX|AW259591|Alox12-ps1|Alox12-ps2|Aloxe|e-LOX1	arachidonate lipoxygenase, epidermal	protein-coding	12.5	28.5	12.0	214.0	14.0	3.0	11.0	15.0
Merged-chr14-45318153-2	chr14	45318053	45318253	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_015774, intron 1 of 15)	CpG	419.0	NM_015774	50527.0	Mm.387108	NM_015774	ENSMUSG00000021831	Ero1l	ERO1-L|Ero1a	ERO1-like (S. cerevisiae)	protein-coding	8.0	13.5	11.0	86.0	15.0	13.5	6.0	12.0
Merged-chr3-78958976-4	chr3	78958887	78959087	+	809.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	185900.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	16.0	19.5	8.0	82.0	40.5	14.0	7.5	4.5
Merged-chr2-152831524-7	chr2	152831423	152831623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289717)	promoter-TSS (NM_001289717)	205.0	NM_009743	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	81.0	116.0	83.0	724.5	183.0	70.0	76.5	83.5
Merged-chr12-13215092-4	chr12	13214965	13215165	+	847.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34109.0	NM_134040	104721.0	Mm.251255	NM_134040	ENSMUSG00000037149	Ddx1	AA409185|DBP-RB	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	protein-coding	5.5	15.5	6.0	158.0	25.0	6.0	16.0	13.5
Merged-chr6-113038134-4	chr6	113038024	113038224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8178.0	NM_001355266	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	81.0	119.0	68.5	1003.0	129.0	54.0	56.0	62.0
Merged-chr1-21218694-4	chr1	21218584	21218784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029398, exon 1 of 5)	5' UTR (NM_029398, exon 1 of 5)	109.0	NM_029398	75712.0	Mm.304763	NM_029398	ENSMUSG00000025933	Tmem14a	5730496E24Rik|C85783|PTD011	transmembrane protein 14A	protein-coding	94.0	157.5	235.5	1745.0	124.0	82.0	89.0	75.0
Merged-chr5-113114350-3	chr5	113114260	113114460	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172884, intron 1 of 7)	intron (NM_172884, intron 1 of 7)	24225.0	NM_001347397	243219.0	Mm.160131	NM_172884	ENSMUSG00000051339	2900026A02Rik	8430408O14Rik|A530094D01|AW539426|Gm449|Kiaa1671|mKIAA1671	RIKEN cDNA 2900026A02 gene	protein-coding	26.5	28.0	17.5	379.0	5.5	2.0	2.0	4.5
Merged-chr7-116476027-3	chr7	116475953	116476153	+	900.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28316.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	12.5	8.0	10.0	117.5	45.0	5.5	12.5	9.0
Merged-chr9-74938823-3	chr9	74938724	74938924	+	866.361084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14056.0	NM_001359816	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	2.5	1.0	4.0	67.5	27.0	7.0	16.0	16.0
Merged-chr1-131703666-3	chr1	131703561	131703761	+	785.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311096, intron 4 of 4)	intron (NM_001311096, intron 4 of 4)	14966.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	3.0	1.0	0.0	4.5	45.5	26.0	14.0	22.0
Merged-chr18-64888394-2	chr18	64888289	64888489	+	819.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	CpG	633.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	4.5	9.0	17.0	99.0	17.0	3.0	6.5	9.0
Merged-chr13-6062451-4	chr13	6062379	6062579	+	912.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	200990.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	10.5	24.0	17.5	173.5	28.5	11.5	18.0	7.0
Merged-chr4-121004849-4	chr4	121004728	121004928	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	12419.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	11.0	21.5	2.5	103.0	76.0	16.0	11.5	9.5
Merged-chr8-70343920-3	chr8	70343845	70344045	+	859.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030680, intron 2 of 23)	intron (NM_030680, intron 2 of 23)	9334.0	NM_030680	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	4.5	16.0	8.0	65.0	22.5	1.5	4.0	18.5
Merged-chr9-106222494-4	chr9	106222367	106222567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031178)	promoter-TSS (NM_031178)	-131.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	73.5	84.0	60.5	1286.0	185.0	61.5	51.0	61.5
Merged-chr19-18716569-4	chr19	18716475	18716675	+	825.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177640, intron 1 of 1)	B3|SINE|B2	3339.0	NM_177640	225995.0	Mm.28101	NM_177640	ENSMUSG00000047044	D030056L22Rik	-	RIKEN cDNA D030056L22 gene	protein-coding	22.0	9.5	3.5	157.5	22.0	12.0	14.0	19.0
Merged-chr12-100527906-2	chr12	100527806	100528006	+	796.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7084.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	6.0	13.5	6.0	88.5	6.5	7.0	3.5	1.5
Merged-chr17-31060823-4	chr17	31060713	31060913	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 1 of 14)	intron (NM_009593, intron 1 of 14)	3119.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	44.5	61.0	38.5	671.0	81.5	24.0	20.5	26.0
Merged-chr11-49848583-4	chr11	49848479	49848679	+	956.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016961, intron 1 of 11)	intron (NM_016961, intron 1 of 11)	1828.0	NM_016961	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	11.0	7.5	14.0	146.5	38.0	11.5	9.5	19.0
Merged-chr12-85710791-4	chr12	85710688	85710888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24068.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	256.0	418.0	206.5	2744.5	482.5	182.5	159.5	154.5
Merged-chr14-75024983-4	chr14	75024881	75025081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 1 of 13)	intron (NM_198642, intron 1 of 13)	8954.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	28.5	80.5	29.0	371.0	86.0	40.0	22.5	24.0
Merged-chr1-87626553-4	chr1	87626450	87626650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	6238.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	197.0	293.0	222.5	3348.0	519.5	172.5	263.0	204.5
Merged-chr18-79981132-3	chr18	79981031	79981231	+	990.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65764.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	19.0	14.5	34.0	402.0	3.0	2.5	1.5	2.5
Merged-chr10-128731163-4	chr10	128731084	128731284	+	837.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016811, exon 11 of 24)	exon (NM_016811, exon 11 of 24)	12892.0	NM_016811	13139.0	Mm.291235	NM_016811	ENSMUSG00000025357	Dgka	80kDa|AW146112|Dagk1	diacylglycerol kinase, alpha	protein-coding	6.5	9.0	10.5	116.5	30.0	12.5	14.0	9.5
Merged-chr15-64089407-4	chr15	64089277	64089477	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001276462, exon 28 of 28)	3' UTR (NM_001276462, exon 28 of 28)	-28929.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	6.0	18.5	16.0	244.5	24.5	11.0	14.5	6.0
Merged-chr4-15995702-4	chr4	15995591	15995791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145950)	TTS (NM_145950)	18147.0	NM_001355615	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	15.5	36.0	32.0	400.0	68.5	25.0	29.0	24.5
Merged-chr5-5860926-3	chr5	5860830	5861030	+	960.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-111613.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	12.0	6.0	9.5	151.5	10.0	2.0	7.0	4.5
Merged-chr1-189688204-4	chr1	189688115	189688315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081363)	promoter-TSS (NM_001081363)	-129.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	307.0	387.5	311.5	5762.5	832.0	265.5	422.0	281.0
Merged-chr4-35223653-4	chr4	35223563	35223763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081343, intron 1 of 10)	intron (NM_001081343, intron 1 of 10)	2217.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	60.0	62.5	56.0	812.5	181.5	49.0	70.0	61.5
Merged-chr11-20231375-4	chr11	20231262	20231462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172260, intron 5 of 6)	intron (NM_172260, intron 5 of 6)	18062.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	62.0	79.0	105.0	1542.5	191.0	54.0	67.0	73.5
Merged-chr18-74402551-3	chr18	74402450	74402650	+	958.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	-40069.0	NM_201600	17919.0	Mm.260098	NM_008661	ENSMUSG00000025885	Myo5b	AI661750|mKIAA1119	myosin VB	protein-coding	15.5	10.5	9.0	167.5	5.0	9.0	2.0	9.5
Merged-chr9-56168140-3	chr9	56168041	56168241	+	755.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-7071.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	9.0	14.5	7.0	106.0	8.5	1.0	1.0	2.5
Merged-chr3-90077612-4	chr3	90077505	90077705	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022314, intron 2 of 8)	intron (NM_022314, intron 2 of 8)	-1916.0	NM_001253738	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	35.5	37.0	17.5	239.5	54.0	25.5	18.0	22.0
Merged-chr7-67223233-2	chr7	67223133	67223333	+	635.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131044)	promoter-TSS (NR_131044)	617.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	4.5	9.0	7.5	71.0	12.5	4.0	3.5	9.0
Merged-chr13-52031620-4	chr13	52031463	52031663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65178.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	38.0	38.5	50.0	471.5	126.0	43.5	50.5	54.0
Merged-chr11-48776798-3	chr11	48776670	48776870	+	864.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-23590.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	9.0	17.0	3.0	132.5	12.0	4.5	6.5	6.0
Merged-chr8-25040614-4	chr8	25040517	25040717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_031257, exon 12 of 12)	3' UTR (NM_031257, exon 12 of 12)	-1655.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	54.0	86.5	66.0	920.0	96.5	48.0	49.0	46.5
Merged-chr2-48690804-4	chr2	48690697	48690897	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123312.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	13.5	11.0	26.5	491.0	42.0	7.5	19.0	22.0
Merged-chr13-55841496-3	chr13	55841401	55841601	+	854.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-10076.0	NM_011097	18740.0	Mm.135195	NM_011097	ENSMUSG00000021506	Pitx1	Bft|P-OTX|Potx|Ptx1	paired-like homeodomain transcription factor 1	protein-coding	10.0	8.0	6.0	91.5	19.0	1.5	2.0	9.0
Merged-chr2-173785096-4	chr2	173784998	173785198	+	895.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019806)	TTS (NM_019806)	47527.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	24.5	19.5	13.5	363.0	26.0	8.5	6.0	12.0
Merged-chr6-47358950-2	chr6	47358850	47359050	+	638.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94782.0	NM_001355551	26965.0	Mm.87611	NM_012042	ENSMUSG00000029686	Cul1	Cul-1	cullin 1	protein-coding	8.0	10.5	6.0	51.0	14.0	4.5	7.5	7.5
Merged-chr1-64367180-3	chr1	64367079	64367279	+	954.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-165625.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	14.0	6.5	13.5	236.5	27.5	6.5	5.5	7.0
Merged-chr1-13370580-4	chr1	13370487	13370687	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	1842.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	14.0	39.0	8.0	125.5	97.5	30.5	27.0	23.5
Merged-chr4-118136237-4	chr4	118136142	118136342	+	935.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001161823)	TTS (NM_001161823)	-1296.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	13.0	19.0	7.0	189.0	33.0	12.5	16.0	16.0
Merged-chr4-154160789-4	chr4	154160695	154160895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026388)	promoter-TSS (NM_026388)	-111.0	NM_026388	67808.0	Mm.288737	NM_026388	ENSMUSG00000029030	Tprgl	1200015A19Rik|Svap30|Tprg1l|mover	transformation related protein 63 regulated like	protein-coding	217.0	324.5	188.0	3183.5	579.0	186.5	284.5	220.5
Merged-chr4-62329527-4	chr4	62329430	62329630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 12 of 27)	intron (NM_001355385, intron 12 of 27)	31066.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	77.5	127.0	88.0	1231.0	176.0	64.0	69.5	65.5
Merged-chr13-5859900-5	chr13	5859809	5860009	+	918.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1580.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	8.5	9.5	11.0	66.5	13.5	4.5	7.5	9.0
Merged-chr2-34913377-3	chr2	34913275	34913475	+	857.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028716, intron 1 of 14)	CpG	601.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	6.5	17.0	10.5	68.5	16.5	7.0	15.5	12.5
Merged-chr17-28894550-4	chr17	28894451	28894651	+	748.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERVK10C-int|LTR|ERVK	-10714.0	NR_045457	74179.0	Mm.248931	NR_045457	ENSMUSG00000085333	1700030A11Rik	-	RIKEN cDNA 1700030A11 gene	ncRNA	9.5	10.5	10.0	95.0	15.5	13.5	20.5	7.0
Merged-chr10-121494104-4	chr10	121494001	121494201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17851.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	36.5	27.5	22.5	493.5	70.0	21.5	32.5	66.0
Merged-chr14-65890881-3	chr14	65890749	65890949	+	992.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53547.0	NM_145944	67179.0	Mm.214576	NM_145944	ENSMUSG00000022035	Ccdc25	2610528H13Rik|NSrp70	coiled-coil domain containing 25	protein-coding	12.0	12.0	8.5	71.0	72.0	28.5	35.5	16.0
Merged-chr7-127273267-3	chr7	127273141	127273341	+	943.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009266, exon 1 of 1)	exon (NM_009266, exon 1 of 1)	818.0	NM_009266	20768.0	Mm.20294	NM_009266	ENSMUSG00000049091	Sephs2	Sps2|Ysg3	selenophosphate synthetase 2	protein-coding	5.0	15.5	1.5	53.0	22.5	9.5	5.0	5.0
Merged-chr2-122763216-4	chr2	122763122	122763322	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2137.0	NM_001162503	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	9.5	15.5	16.5	211.0	120.5	45.0	48.5	34.5
Merged-chr5-110286327-4	chr5	110286278	110286478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008993)	promoter-TSS (NM_008993)	59.0	NM_011132	18973.0	Mm.35061	NM_011132	ENSMUSG00000007080	Pole	-	polymerase (DNA directed), epsilon	protein-coding	98.5	165.5	132.5	1485.5	285.5	115.0	179.0	94.0
Merged-chr8-46795514-4	chr8	46795429	46795629	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 2 of 7)	B1_Mur3|SINE|Alu	55784.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	18.0	6.0	17.5	182.0	37.5	14.0	8.5	10.0
Merged-chr7-79232255-4	chr7	79232169	79232369	+	912.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	-40997.0	NM_018811	54608.0	Mm.365490	NM_018811	ENSMUSG00000039202	Abhd2	2210009N18Rik|LABH2|Labh-2	abhydrolase domain containing 2	protein-coding	8.5	14.5	23.0	178.0	40.5	15.5	13.0	22.0
Merged-chr19-4192028-4	chr19	4191935	4192135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031868)	promoter-TSS (NM_031868)	-139.0	NM_031868	19045.0	Mm.1970	NM_031868	ENSMUSG00000040385	Ppp1ca	Ppp1c|dism2	protein phosphatase 1, catalytic subunit, alpha isoform	protein-coding	172.0	314.0	197.5	2180.5	400.5	182.5	225.5	149.0
Merged-chr4-116075863-4	chr4	116075765	116075965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025641)	promoter-TSS (NM_025641)	596.0	NM_153521	230654.0	Mm.3655	NM_153521	ENSMUSG00000028703	Lrrc41	AA409966|AW555107|D630045E04Rik|D730026A16Rik|MUF1	leucine rich repeat containing 41	protein-coding	30.0	55.0	44.5	451.5	123.0	45.0	66.5	78.0
Merged-chr4-117836579-5	chr4	117836485	117836685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008135, intron 1 of 13)	CpG	1327.0	NM_008135	14664.0	Mm.244549	NM_008135	ENSMUSG00000028542	Slc6a9	Glyt-1|Glyt1	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	protein-coding	36.5	48.0	23.5	467.0	65.0	34.0	23.0	44.5
Merged-chr11-75760859-4	chr11	75760755	75760955	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009536, intron 5 of 5)	intron (NM_009536, intron 5 of 5)	27968.0	NM_009536	22627.0	Mm.234700	NM_009536	ENSMUSG00000020849	Ywhae	AU019196	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide	protein-coding	20.5	29.5	32.0	329.0	57.0	12.0	27.5	30.0
Merged-chr4-135856039-4	chr4	135855969	135856169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010178)	promoter-TSS (NM_010178)	-2.0	NM_001284196	14105.0	Mm.10229	NM_010178	ENSMUSG00000028676	Srsf10	FUSIP2|Fusip1|NSSR1|NSSR2|Nssr|SRrp40|Sfrs13a|Srsf13a|TASR|TASR1|TASR2	serine/arginine-rich splicing factor 10	protein-coding	114.5	223.5	94.5	1319.5	342.0	155.0	106.0	146.0
Merged-chr13-34037645-4	chr13	34037545	34037745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026512)	promoter-TSS (NM_026512)	4.0	NM_026512	68021.0	Mm.140243	NM_026512	ENSMUSG00000038286	Bphl	2010012D11Rik|5730533B08Rik|AI115341	biphenyl hydrolase-like (serine hydrolase, breast epithelial mucin-associated antigen)	protein-coding	31.5	37.0	26.0	546.0	51.0	23.0	40.5	36.0
Merged-chr11-106418836-4	chr11	106418733	106418933	+	973.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023913, exon 10 of 22)	exon (NM_023913, exon 10 of 22)	-36052.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	7.0	27.5	17.0	148.0	38.0	19.0	17.0	21.0
Merged-chr9-114793548-2	chr9	114793449	114793649	+	666.25	f0_c57.idr|f1_c57bl6.idr	intron (NM_027294, intron 2 of 3)	intron (NM_027294, intron 2 of 3)	-11556.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	1.0	2.0	1.5	36.5	19.5	11.5	8.0	23.5
Merged-chr11-60537612-4	chr11	60537522	60537722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172943)	promoter-TSS (NM_172943)	-61.0	NM_172943	268420.0	Mm.262056	NM_172943	ENSMUSG00000042650	Alkbh5	AW050020|AW215868|Abh5|E130207K11|Ofoxd	alkB homolog 5, RNA demethylase	protein-coding	105.0	172.5	49.0	876.0	221.0	114.5	81.5	67.5
Merged-chr19-5806946-4	chr19	5806854	5807054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4282.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	75.5	82.5	39.0	801.5	169.0	38.0	42.5	64.5
Merged-chr16-93192921-4	chr16	93192812	93193012	+	920.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	160277.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	17.5	13.5	19.0	506.0	33.5	17.5	12.0	15.5
Merged-chr11-80094681-4	chr11	80094586	80094786	+	864.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001029856, exon 2 of 23)	exon (NM_001029856, exon 2 of 23)	5286.0	NM_001029856	237877.0	Mm.89551	NM_001029856	ENSMUSG00000017550	Atad5	C130052G03Rik|FRAG1|Gm17	ATPase family, AAA domain containing 5	protein-coding	5.0	14.5	6.5	109.0	30.5	4.5	9.5	13.5
Merged-chr1-178391617-3	chr1	178391547	178391747	+	724.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14371.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	6.0	4.5	5.5	58.5	16.0	11.0	10.0	5.5
Merged-chr8-80948602-4	chr8	80948488	80948688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66318.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	133.5	143.0	156.5	1788.0	282.0	115.0	168.0	106.5
Merged-chr4-89458081-4	chr4	89457995	89458195	+	976.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 7 of 9)	intron (NR_132431, intron 7 of 9)	-147063.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	16.0	42.5	44.0	553.5	46.5	14.5	29.5	18.0
Merged-chr5-110434963-3	chr5	110434856	110435056	+	658.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317042, intron 1 of 2)	intron (NM_001317042, intron 1 of 2)	13547.0	NM_001317042	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	6.0	5.0	5.0	122.0	22.0	8.0	13.5	8.0
Merged-chr17-10599214-3	chr17	10599118	10599318	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	143002.0	NR_077238	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	8.0	7.5	20.5	341.0	11.5	6.5	8.0	5.0
Merged-chr5-110211500-4	chr5	110211405	110211605	+	730.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347389, intron 17 of 23)	MTB_Mm|LTR|ERVL-MaLR	-19499.0	NM_001253814	71782.0	Mm.288442	NM_027922	ENSMUSG00000029501	Ankle2	1110001J12Rik|AI661024|D5Ertd585e	ankyrin repeat and LEM domain containing 2	protein-coding	9.5	7.0	7.5	132.0	34.5	6.0	13.5	12.5
Merged-chr4-136056192-4	chr4	136056085	136056285	+	835.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-2814.0	NM_025919	67025.0	Mm.276856	NM_025919	ENSMUSG00000059291	Rpl11	2010203J19Rik	ribosomal protein L11	protein-coding	17.0	22.0	5.0	163.0	28.5	7.5	10.0	9.5
Merged-chr18-38418872-4	chr18	38418798	38418998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022996)	promoter-TSS (NM_022996)	-9.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	91.0	124.5	95.0	1300.5	256.0	68.0	111.5	78.0
Merged-chr2-126707277-4	chr2	126707174	126707374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252580)	promoter-TSS (NM_001252580)	-54.0	NM_001252580	84092.0	Mm.272629	NM_019729	ENSMUSG00000027363	Usp8	AI574262|AW557536|Ubpy|mKIAA0055	ubiquitin specific peptidase 8	protein-coding	145.5	293.5	153.5	2133.5	394.0	160.0	190.0	178.5
Merged-chr19-3324138-4	chr19	3324031	3324231	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 1 of 18)	CpG	830.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	20.0	33.0	17.5	171.5	50.5	13.5	23.0	16.0
Merged-chr17-62623389-4	chr17	62623289	62623489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010109, intron 2 of 3)	intron (NM_010109, intron 2 of 3)	257928.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	59.5	71.5	46.0	961.5	84.5	52.5	69.0	42.5
Merged-chr4-126051801-4	chr4	126051717	126051917	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025544, intron 5 of 7)	intron (NM_025544, intron 5 of 7)	4889.0	NM_025544	66407.0	Mm.195628	NM_025544	ENSMUSG00000028861	Mrps15	1500003E24Rik|2410002B11Rik|Mprs15	mitochondrial ribosomal protein S15	protein-coding	11.0	16.5	10.0	224.0	27.5	9.0	11.5	22.5
Merged-chr16-62785804-3	chr16	62785713	62785913	+	878.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178925, exon 2 of 6)	exon (NM_178925, exon 2 of 6)	903.0	NM_178925	106338.0	Mm.26321	NM_178925	ENSMUSG00000050312	Nsun3	6720484A09Rik|AU022521	NOL1/NOP2/Sun domain family member 3	protein-coding	5.5	16.5	3.0	119.5	27.0	5.5	11.0	10.5
Merged-chr7-35555422-4	chr7	35555297	35555497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033080, exon 1 of 3)	exon (NM_033080, exon 1 of 3)	531.0	NM_033080	110959.0	Mm.410206	NM_033080	ENSMUSG00000034875	Nudt19	D7Rp2|D7Rp2-r|D7Rp2-s|D7Rp2e|RP2-r|RP2-s	nudix (nucleoside diphosphate linked moiety X)-type motif 19	protein-coding	93.5	106.5	112.5	1191.0	188.5	97.5	105.0	108.5
Merged-chr14-20892088-3	chr14	20891967	20892167	+	822.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37331.0	NM_009502	22330.0	Mm.279361	NM_009502	ENSMUSG00000021823	Vcl	9430097D22|AA571387|AI462105|AW545629	vinculin	protein-coding	4.5	11.5	11.5	176.5	15.0	5.5	1.5	11.5
Merged-chr3-106474401-4	chr3	106474315	106474515	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR104_Mam|LTR|Gypsy	-8016.0	NM_001093754	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	27.0	33.5	18.5	303.0	51.0	15.5	12.5	11.5
Merged-chr7-29179510-4	chr7	29179413	29179613	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026545, intron 1 of 6)	intron (NM_026545, intron 1 of 6)	1160.0	NM_026545	57296.0	Mm.273152	NM_026545	ENSMUSG00000030591	Psmd8	6720456J22Rik|AA407360|AL033291|AL033322|AL033323|C76433	proteasome (prosome, macropain) 26S subunit, non-ATPase, 8	protein-coding	17.5	40.5	4.0	110.0	64.0	27.0	24.5	22.0
Merged-chr2-167778412-2	chr2	167778312	167778512	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87235.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	9.5	6.5	5.0	143.5	23.0	5.5	4.5	9.5
Merged-chr6-106791620-4	chr6	106791506	106791706	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021449, intron 4 of 10)	intron (NM_021449, intron 4 of 10)	8481.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	18.0	39.5	28.5	243.5	100.0	21.0	22.5	46.0
Merged-chr9-104576323-1	chr9	104576223	104576423	+	747.0	f0_balb.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	6840.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	8.0	4.5	11.5	131.5	5.5	2.0	6.0	1.5
Merged-chr4-63590128-4	chr4	63590030	63590230	+	910.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	10634.0	NM_001354647	670833.0	Mm.32213	NM_001354647	ENSMUSG00000084782	Gm11213	-	predicted gene 11213	protein-coding	8.0	14.5	33.0	358.0	22.0	14.0	15.0	15.5
Merged-chr2-159900141-4	chr2	159900028	159900228	+	985.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47213.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	40.0	27.0	18.0	566.0	92.0	23.5	29.0	38.0
Merged-chr3-108382020-6	chr3	108381926	108382126	+	954.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040560, intron 2 of 2)	intron (NR_040560, intron 2 of 2)	1715.0	NR_040560	100038453.0	Mm.214328	NR_040560	ENSMUSG00000074281	Gm12522	-	predicted gene 12522	ncRNA	13.5	6.5	16.0	125.0	43.0	10.5	7.0	13.0
Merged-chr3-119783134-6	chr3	119783114	119783314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019550, exon 1 of 14)	5' UTR (NM_019550, exon 1 of 14)	174.0	NM_001310711	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	70.5	93.0	122.5	904.0	139.5	42.0	59.5	57.5
Merged-chr5-101765714-4	chr5	101765559	101765759	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173370, intron 1 of 12)	CpG	529.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	12.0	27.5	15.0	263.0	22.5	24.0	11.5	11.0
Merged-chr17-44436740-4	chr17	44436642	44436842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	248170.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	41.5	35.5	18.0	421.5	115.0	20.0	43.0	30.5
Merged-chr6-142831505-3	chr6	142831415	142831615	+	819.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045707, intron 6 of 6)	intron (NR_045707, intron 6 of 6)	17284.0	NR_045707	665037.0	Mm.401493	NR_045707	ENSMUSG00000072683	Gm7457	EG665037	predicted gene 7457	ncRNA	7.5	6.5	10.5	93.5	12.5	4.5	5.5	3.5
Merged-chr2-110205097-3	chr2	110204962	110205162	+	880.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100663.0	NM_130452	170442.0	Mm.27335	NM_130452	ENSMUSG00000041660	Bbox1	AI874739	butyrobetaine (gamma), 2-oxoglutarate dioxygenase 1 (gamma-butyrobetaine hydroxylase)	protein-coding	5.0	4.0	5.5	114.5	31.0	5.5	5.0	10.0
Merged-chr8-31121094-4	chr8	31120948	31121148	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175136, intron 2 of 5)	intron (NM_175136, intron 2 of 5)	9202.0	NM_175136	68867.0	Mm.29532	NM_175136	ENSMUSG00000039328	Rnf122	1110063C11Rik	ring finger protein 122	protein-coding	8.0	5.5	9.0	117.0	21.5	3.0	5.0	12.5
Merged-chr9-44568259-3	chr9	44568141	44568341	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36651.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	29.5	27.5	14.0	201.0	99.5	23.0	19.5	41.0
Merged-chr19-30031242-4	chr19	30031115	30031315	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144873, intron 1 of 15)	CpG	702.0	NM_144873	109113.0	Mm.313364	NM_144873	ENSMUSG00000024817	Uhrf2	2310065A22Rik|AI426270|AW214556|D130071B19Rik|Nirf	ubiquitin-like, containing PHD and RING finger domains 2	protein-coding	15.0	11.0	13.5	206.0	47.5	20.0	14.0	19.5
Merged-chr7-145025571-4	chr7	145025458	145025658	+	884.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GC_rich|Low_complexity|Low_complexity	-85633.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	5.5	15.5	4.5	122.0	32.5	6.0	10.0	19.0
Merged-chr3-28032068-5	chr3	28031833	28032033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 6 of 25)	intron (NM_008875, intron 6 of 25)	47762.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	13.0	38.0	53.0	454.0	59.0	24.0	24.5	18.5
Merged-chr17-35301983-7	chr17	35301869	35302069	+	929.585693	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18578.0	NM_010390	15006.0	Mm.466882	NM_010390	ENSMUSG00000079507	H2-Q1	H-2Q1|Q1|Q1b|Q1d|Q1k|Qa-1|Qa1|Qed-1	histocompatibility 2, Q region locus 1	protein-coding	8.5	13.0	6.0	89.5	21.0	6.0	9.5	12.5
Merged-chr14-25735592-4	chr14	25735502	25735702	+	873.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 2 of 3)	intron (NM_001101433, intron 2 of 3)	33254.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	16.5	38.0	26.5	281.0	15.0	10.5	13.0	11.0
Merged-chr15-66785642-4	chr15	66785548	66785748	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029841, intron 6 of 7)	intron (NM_001029841, intron 6 of 7)	46181.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	10.0	12.5	22.5	332.5	30.5	6.5	9.5	14.0
Merged-chr3-133093125-4	chr3	133093027	133093227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027927, intron 1 of 6)	intron (NM_027927, intron 1 of 6)	-1088.0	NM_001356309	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	25.5	43.5	34.0	561.0	98.5	32.0	36.0	51.0
Merged-chr19-4625638-4	chr19	4625528	4625728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023131)	promoter-TSS (NM_023131)	-11.0	NM_023131	19671.0	Mm.391143	NM_023131	ENSMUSG00000024889	Rce1	D19Ertd283e|D19Ertd98e	Ras converting CAAX endopeptidase 1	protein-coding	56.5	137.5	65.5	963.5	175.0	67.5	46.0	62.0
Merged-chr17-62642699-4	chr17	62642604	62642804	+	976.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010109, intron 2 of 3)	intron (NM_010109, intron 2 of 3)	238613.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	15.5	27.0	32.0	696.5	30.0	14.0	25.0	29.0
Merged-chr4-150594518-4	chr4	150594412	150594612	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	URR1B|DNA|hAT-Charlie	57662.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	34.0	42.5	15.0	402.0	80.0	25.0	22.0	26.0
Merged-chr4-125059263-4	chr4	125059170	125059370	+	762.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175223, intron 4 of 5)	intron (NM_175223, intron 4 of 5)	6387.0	NM_175223	75563.0	Mm.50304	NM_175223	ENSMUSG00000042707	Dnali1	1700023A09Rik|AW049135	dynein, axonemal, light intermediate polypeptide 1	protein-coding	9.0	15.0	4.0	76.0	32.0	6.0	10.0	5.0
Merged-chr11-49983077-4	chr11	49982995	49983195	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4b|LINE|L1	-42236.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	5.0	10.0	3.0	81.0	24.0	14.5	5.0	10.5
Merged-chr14-13361401-4	chr14	13361317	13361517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028052, intron 2 of 5)	intron (NM_028052, intron 2 of 5)	76637.0	NM_028052	72003.0	Mm.317515	NM_028052	ENSMUSG00000056296	Synpr	1500003F20Rik|SPO	synaptoporin	protein-coding	110.5	166.5	166.0	1985.5	237.0	110.5	102.5	120.0
Merged-chr15-100039564-4	chr15	100039444	100039644	+	887.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	880.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	5.5	9.0	10.5	115.0	25.0	6.0	10.0	9.0
Merged-chr3-87215351-4	chr3	87215226	87215426	+	831.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-40579.0	NM_130867	170643.0	Mm.89552	NM_130867	ENSMUSG00000041734	Kirrel	6720469N11Rik|Kirrel1|Neph1	kirre like nephrin family adhesion molecule 1	protein-coding	14.0	5.0	7.0	172.5	28.0	5.0	4.0	13.0
Merged-chr6-82781077-4	chr6	82780963	82781163	+	914.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6609.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	11.0	29.5	12.5	166.5	31.5	8.0	7.0	6.5
Merged-chr18-56756281-4	chr18	56756171	56756371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48458.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	46.5	39.0	37.0	576.5	136.0	36.5	61.0	56.0
Merged-chr17-34899632-12	chr17	34899453	34899653	+	893.930542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001286573, exon 2 of 26)	exon (NM_001286573, exon 2 of 26)	579.0	NM_145830	110147.0	Mm.35345	NM_145830	ENSMUSG00000013787	Ehmt2	Bat8|D17Ertd710e|G9a|KMT1C|NG36	euchromatic histone lysine N-methyltransferase 2	protein-coding	6.0	8.5	7.0	91.5	16.0	6.5	5.5	8.5
Merged-chr1-107502259-4	chr1	107502172	107502372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9151.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	67.5	122.0	127.5	1500.5	148.5	73.0	79.0	61.0
Merged-chr12-24975609-4	chr12	24975512	24975712	+	934.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081378, intron 1 of 31)	intron (NM_001081378, intron 1 of 31)	680.0	NM_001081378	77480.0	Mm.250641	NM_001081378	ENSMUSG00000036333	Kidins220	3110039L19Rik|AI194387|AI316525|C330002I19Rik|mKIAA1250	kinase D-interacting substrate 220	protein-coding	14.5	16.5	17.0	269.5	49.5	25.5	23.0	12.0
Merged-chr5-150157938-2	chr5	150157854	150158054	+	715.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101976.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	2.5	0.0	3.0	35.0	13.5	5.5	6.5	5.0
Merged-chr7-16311018-7	chr7	16310913	16311113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 1 of 3)	intron (NM_133234, intron 1 of 3)	1430.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	15.5	19.5	20.5	249.0	49.5	12.5	18.5	13.5
Merged-chr11-20847732-4	chr11	20847643	20847843	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16635.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	5.0	20.5	10.0	269.0	36.5	7.0	8.0	20.5
Merged-chr5-16467310-4	chr5	16467212	16467412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-86183.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	99.0	68.5	129.0	2440.5	172.0	65.5	103.0	97.0
Merged-chr3-108537483-4	chr3	108537387	108537587	+	983.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029314)	promoter-TSS (NM_029314)	-97.0	NM_029314	75504.0	Mm.271255	NM_029314	ENSMUSG00000027886	1700013F07Rik	-	RIKEN cDNA 1700013F07 gene	protein-coding	12.5	23.5	17.5	279.0	43.0	22.5	51.0	24.0
Merged-chr7-44849082-4	chr7	44848975	44849175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290695)	promoter-TSS (NM_001290695)	4.0	NM_001042655	233204.0	Mm.27567	NM_144924	ENSMUSG00000038520	Tbc1d17	BC017607	TBC1 domain family, member 17	protein-coding	264.0	450.5	217.0	2981.5	589.5	299.0	294.5	250.0
Merged-chr7-107519563-4	chr7	107519451	107519651	+	747.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021889, intron 6 of 6)	intron (NM_021889, intron 6 of 6)	-47882.0	NM_172907	244198.0	Mm.77425	NM_172907	ENSMUSG00000051041	Olfml1	6720478C22|AV321997|BC047207|MVAL564|ONT2|mONT2	olfactomedin-like 1	protein-coding	10.5	9.5	12.5	322.0	22.5	4.0	5.5	15.5
Merged-chr4-148677166-2	chr4	148677066	148677266	+	690.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33849.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	10.5	3.0	6.5	72.0	19.5	6.5	7.5	6.0
Merged-chr16-14362172-5	chr16	14362059	14362259	+	988.840027	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 1 of 30)	intron (NM_008576, intron 1 of 30)	601.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	9.5	33.5	21.5	80.0	81.5	34.0	17.0	12.5
Merged-chr10-5807723-3	chr10	5807617	5807817	+	825.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2252.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	8.0	11.5	19.5	179.0	20.0	3.5	4.0	5.0
Merged-chr3-154510415-4	chr3	154510346	154510546	+	885.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86265.0	NM_009968	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	10.5	4.0	9.0	232.0	58.0	15.0	16.0	14.0
Merged-chr4-132600707-4	chr4	132600604	132600804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36637.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	107.5	202.0	151.0	2390.5	247.5	60.0	98.0	103.0
Merged-chr6-97273425-1	chr6	97273325	97273525	+	918.0	f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-20645.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	5.5	8.0	4.5	54.5	10.5	3.5	2.5	4.5
Merged-chr2-181520407-4	chr2	181520308	181520508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016775)	promoter-TSS (NM_016775)	-77.0	NM_016775	13002.0	Mm.140761	NM_016775	ENSMUSG00000000826	Dnajc5	2610314I24Rik|AU018536|Csp	DnaJ heat shock protein family (Hsp40) member C5	protein-coding	223.0	311.5	231.5	2902.5	445.0	167.5	208.5	178.5
Merged-chr1-92216380-4	chr1	92216273	92216473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-36032.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	113.0	153.5	166.0	1653.0	325.0	107.5	114.5	136.0
Merged-chr13-41381624-4	chr13	41381534	41381734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 2 of 7)	intron (NM_001111324, intron 2 of 7)	-22633.0	NM_017464	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	40.0	27.5	37.0	645.0	47.5	21.5	24.0	29.5
Merged-chr2-59393366-4	chr2	59393261	59393461	+	960.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-6679.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	11.5	28.0	24.5	331.5	73.0	14.5	17.0	29.5
Merged-chr3-95891979-4	chr3	95891889	95892089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346514)	promoter-TSS (NM_001346514)	16.0	NM_153513	229600.0	Mm.89556	NM_153513	ENSMUSG00000038543	BC028528	L259	cDNA sequence BC028528	protein-coding	20.5	31.0	17.0	414.5	47.0	25.5	21.0	20.0
Merged-chr3-108445231-4	chr3	108445122	108445322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204979)	promoter-TSS (NM_001204979)	37.0	NM_011319	20226.0	Mm.28688	NM_011319	ENSMUSG00000068739	Sars	Sars1|Strs|serRS	seryl-aminoacyl-tRNA synthetase	protein-coding	84.5	89.5	69.5	1121.0	178.5	63.5	125.5	72.0
Merged-chr7-144907186-4	chr7	144907081	144907281	+	783.454163	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7919.0	NM_001357868	72284.0	Mm.273049	NM_028184	ENSMUSG00000031072	Oraov1	2210010N10Rik|TAOS1	oral cancer overexpressed 1	protein-coding	10.5	17.0	4.5	179.5	37.0	11.5	13.5	9.5
Merged-chr6-29785967-4	chr6	29785872	29786072	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	L1M2|LINE|L1	17529.0	NM_001171000	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	7.0	32.0	18.5	348.0	24.0	16.5	7.5	21.5
Merged-chr16-17131606-4	chr16	17131484	17131684	+	934.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022324, intron 2 of 2)	CpG	799.0	NM_022324	64136.0	Mm.30222	NM_022324	ENSMUSG00000022769	Sdf2l1	-	stromal cell-derived factor 2-like 1	protein-coding	21.5	26.5	16.0	273.5	45.5	11.0	12.5	22.5
Merged-chr4-24574467-4	chr4	24574382	24574582	+	874.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_199467, exon 14 of 24)	exon (NM_199467, exon 14 of 24)	78031.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	17.0	9.0	15.0	162.0	24.5	8.5	25.5	17.5
Merged-chr8-3467666-4	chr8	3467576	3467776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026951)	promoter-TSS (NM_026951)	-28.0	NM_026951	69129.0	Mm.45279	NM_026951	ENSMUSG00000069633	Pex11g	1810022F11Rik|1810049N02Rik|Pex11c|Pex11gamma	peroxisomal biogenesis factor 11 gamma	protein-coding	134.0	241.5	116.0	2989.0	422.5	121.5	160.5	132.0
Merged-chr9-70651135-3	chr9	70651021	70651221	+	928.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172772, intron 1 of 8)	RMER5|LTR|ERV1	6053.0	NM_172772	235461.0	Mm.170855	NM_172772	ENSMUSG00000042444	Mindy2	AI465301|B230380D07Rik|Fam63b|mKIAA1164	MINDY lysine 48 deubiquitinase 2	protein-coding	8.5	14.5	15.0	286.5	13.5	5.0	6.5	16.0
Merged-chr14-65097701-3	chr14	65097611	65097811	+	871.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018788, intron 1 of 6)	CpG	395.0	NM_018788	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	6.0	20.5	9.0	86.5	17.0	4.5	6.5	7.5
Merged-chr4-9642241-4	chr4	9642148	9642348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	1469.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	26.5	53.0	11.5	396.5	120.5	42.0	66.5	26.0
Merged-chr10-42680774-4	chr10	42680687	42680887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172416, intron 1 of 5)	intron (NM_172416, intron 1 of 5)	1871.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	33.0	57.0	53.0	582.5	122.0	47.0	55.5	40.5
Merged-chr7-114292130-4	chr7	114292027	114292227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16011.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	30.5	53.5	36.0	677.0	153.5	34.5	60.0	66.5
Merged-chr2-163719424-4	chr2	163719324	163719524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 3 of 4)	intron (NM_001039390, intron 3 of 4)	25387.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	39.5	61.5	48.0	870.0	110.5	39.5	42.0	42.5
Merged-chr18-33790233-4	chr18	33790128	33790328	+	679.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4664.0	NR_038152	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	5.0	12.0	10.0	124.0	28.5	7.0	14.5	14.0
Merged-chr10-21996906-5	chr10	21996872	21997072	+	959.349976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011361, intron 7 of 11)	intron (NM_011361, intron 7 of 11)	2306.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	11.5	12.0	4.5	25.0	5.5	3.5	0.0	13.5
Merged-chr11-121237632-2	chr11	121237532	121237732	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026272, intron 1 of 10)	intron (NM_026272, intron 1 of 10)	396.0	NM_026272	67608.0	Mm.291832	NM_026272	ENSMUSG00000000056	Narf	4430402O11Rik	nuclear prelamin A recognition factor	protein-coding	4.5	12.5	6.0	63.0	14.5	3.0	6.0	8.5
Merged-chr2-145825854-1	chr2	145825754	145825954	+	643.0	f0_balb.idr	intron (NM_028724, intron 4 of 12)	ID_B1|SINE|B4	39738.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	10.5	11.5	8.5	123.0	21.5	7.0	13.0	20.0
Merged-chr5-113773933-4	chr5	113773854	113774054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025526, intron 1 of 4)	intron (NM_025526, intron 1 of 4)	1142.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	111.5	196.5	140.5	1270.5	277.0	135.5	108.5	124.0
Merged-chr10-99252563-4	chr10	99252453	99252653	+	909.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10678.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	13.5	22.0	25.0	485.0	35.0	8.5	5.5	4.5
Merged-chr4-102517236-4	chr4	102517201	102517401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-52759.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	0.0	10.0	0.0	183.0	60.5	13.5	28.0	23.0
Merged-chr2-167799763-4	chr2	167799620	167799820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108543.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	20.0	23.5	30.0	376.0	63.5	20.0	30.0	36.0
Merged-chr2-113305566-4	chr2	113305462	113305662	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	19830.0	NM_029232	75275.0	Mm.159484	NM_029232	ENSMUSG00000041255	Tmco5b	4930563P21Rik	transmembrane and coiled-coil domains 5B	protein-coding	5.0	15.0	4.5	203.5	22.0	9.5	12.0	8.0
Merged-chr11-17528053-3	chr11	17527953	17528153	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	270365.0	NM_001330649	57316.0	Mm.287982	NM_020558	ENSMUSG00000000581	C1d	1110036E10Rik|AI875855|SUN-CoR	C1D nuclear receptor co-repressor	protein-coding	12.5	8.0	7.5	198.0	11.5	1.0	1.5	6.5
Merged-chr7-135705314-4	chr7	135705205	135705405	+	829.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081117, intron 7 of 13)	intron (NM_001081117, intron 7 of 13)	11074.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	18.5	32.5	17.0	112.5	37.0	13.5	15.0	15.5
Merged-chr2-25628746-7	chr2	25628583	25628783	+	980.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007995)	promoter-TSS (NM_007995)	-709.0	NM_007995	14133.0	Mm.10510	NM_007995	ENSMUSG00000026938	Fcna	Fcn1	ficolin A	protein-coding	18.0	15.0	35.0	480.5	16.5	10.0	3.5	10.0
Merged-chr8-40321223-2	chr8	40321131	40321331	+	830.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_030110, intron 1 of 14)	ORR1E|LTR|ERVL-MaLR	13180.0	NM_030110	78506.0	Mm.169893	NM_030110	ENSMUSG00000039478	Micu3	2900075B16Rik|Efha2	mitochondrial calcium uptake family, member 3	protein-coding	1.5	2.0	7.0	47.5	9.0	7.0	11.5	8.0
Merged-chr4-155891412-2	chr4	155891312	155891512	+	981.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207223)	promoter-TSS (NM_207223)	350.0	NM_001033490	433813.0	Mm.259270	NM_001033490	ENSMUSG00000051557	Pusl1	2810021I11Rik|AI853843|D18346	pseudouridylate synthase-like 1	protein-coding	3.0	11.0	13.5	138.0	25.5	7.0	7.0	13.5
Merged-chr7-135652409-4	chr7	135652337	135652537	+	945.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015548)	promoter-TSS (NR_015548)	-123.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	23.0	24.5	12.5	259.5	27.0	12.5	10.5	18.0
Merged-chr10-84390933-3	chr10	84390841	84391041	+	953.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 4 of 6)	intron (NM_001004363, intron 4 of 6)	49530.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	5.0	10.5	13.5	76.5	12.0	6.5	4.5	3.5
Merged-chr17-65768667-4	chr17	65768548	65768748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	4104.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	159.0	94.5	134.0	1792.0	263.0	97.0	100.0	119.5
Merged-chr5-53594540-1	chr5	53594440	53594640	+	913.1666869999999	f0_c57.idr	intron (NM_001359152, intron 1 of 9)	intron (NM_001359152, intron 1 of 9)	4054.0	NM_001080927	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	13.5	12.0	9.0	63.0	46.0	22.0	18.5	14.0
Merged-chr18-75367322-4	chr18	75367219	75367419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042660)	promoter-TSS (NM_001042660)	-46.0	NM_001042660	17131.0	Mm.34407	NM_008543	ENSMUSG00000025880	Smad7	Madh7	SMAD family member 7	protein-coding	115.5	131.5	90.0	1312.5	296.5	121.5	134.5	128.5
Merged-chr16-31838281-7	chr16	31838208	31838408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357281, intron 13 of 22)	intron (NM_001357281, intron 13 of 22)	-40502.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	32.0	89.5	91.0	839.0	129.5	43.0	48.5	33.0
Merged-chr14-30625164-4	chr14	30625150	30625350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 1 of 17)	intron (NM_011103, intron 1 of 17)	958.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	24.0	36.5	31.5	302.0	71.5	21.0	21.5	26.5
Merged-chr1-152619994-3	chr1	152619868	152620068	+	784.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	5249.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	5.0	11.0	4.5	61.5	9.0	1.0	4.5	5.0
Merged-chr18-36196696-3	chr18	36196599	36196799	+	850.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167891, exon 1 of 10)	exon (NM_001167891, exon 1 of 10)	461.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	7.5	8.0	8.0	31.5	13.0	6.5	6.0	11.5
Merged-chr6-129469003-3	chr6	129468884	129469084	+	963.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_132130, exon 3 of 6)	non-coding (NR_132130, exon 3 of 6)	3795.0	NM_001309637	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	0.5	3.5	3.0	63.0	35.0	11.0	16.0	18.5
Merged-chr5-41627701-4	chr5	41627606	41627806	+	961.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310589, intron 6 of 6)	intron (NM_001310589, intron 6 of 6)	79985.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	14.0	9.0	18.5	251.0	54.5	27.5	34.5	20.5
Merged-chr19-21571371-4	chr19	21571230	21571430	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81461.0	NM_025423	66206.0	Mm.272430	NM_025423	ENSMUSG00000035171	1110059E24Rik	-	RIKEN cDNA 1110059E24 gene	protein-coding	22.0	20.0	25.0	291.5	14.0	10.0	15.5	9.0
Merged-chr7-142387945-4	chr7	142387839	142388039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009983)	promoter-TSS (NM_009983)	-69.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	158.0	178.0	139.0	2209.5	421.0	179.0	177.5	221.0
Merged-chr2-26445426-4	chr2	26445304	26445504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153125)	promoter-TSS (NM_153125)	-188.0	NM_153125	227648.0	Mm.206371	NM_153125	ENSMUSG00000026924	Sec16a	AU024582|C230052J16Rik	SEC16 homolog A, endoplasmic reticulum export factor	protein-coding	277.0	533.0	261.5	3038.5	753.0	341.5	339.5	283.5
Merged-chr2-6731040-4	chr2	6730939	6731139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-9377.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	33.5	29.5	26.0	408.0	52.0	20.5	31.0	25.5
Merged-chr15-59735875-2	chr15	59735775	59735975	+	743.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	59084.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	7.0	6.5	4.5	68.5	16.0	8.5	7.5	7.0
Merged-chr4-24898055-4	chr4	24897988	24898188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026742)	promoter-TSS (NM_026742)	5.0	NM_026742	68493.0	Mm.204831	NM_026742	ENSMUSG00000028261	Ndufaf4	1110007M04Rik|3000003G13Rik|AW214064	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4	protein-coding	164.0	223.0	139.0	2293.5	381.5	145.5	180.0	152.0
Merged-chr1-58714580-3	chr1	58714431	58714631	+	867.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_149256)	TTS (NR_149256)	1245.0	NM_001355056	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	10.5	20.5	6.5	106.0	16.5	8.0	5.0	7.5
Merged-chr19-14586268-4	chr19	14586169	14586369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302951, intron 4 of 19)	intron (NM_001302951, intron 4 of 19)	10944.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	131.0	181.5	139.5	2709.5	259.0	87.5	147.0	84.5
Merged-chr16-36718670-4	chr16	36718622	36718822	+	973.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285791, intron 5 of 6)	intron (NM_001285791, intron 5 of 6)	24744.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	20.0	23.0	17.0	358.5	37.5	11.0	17.0	22.0
Merged-chr5-88500060-4	chr5	88499964	88500164	+	967.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017468, intron 9 of 9)	intron (NM_017468, intron 9 of 9)	12089.0	NM_017468	13801.0	Mm.8014	NM_017468	ENSMUSG00000029286	Enam	abte	enamelin	protein-coding	13.5	18.5	4.0	231.0	77.0	25.5	16.0	27.0
Merged-chr12-70472864-4	chr12	70472753	70472953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	L1M2|LINE|L1	19699.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	44.0	66.5	50.5	730.0	79.5	33.5	45.5	39.5
Merged-chr2-4591813-4	chr2	4591723	4591923	+	939.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 5 of 11)	MTEb|LTR|ERVL-MaLR	32069.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	12.0	13.5	5.5	195.5	46.0	13.5	15.0	13.0
Merged-chr10-62213703-4	chr10	62213604	62213804	+	721.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197996, intron 1 of 7)	ORR1B1|LTR|ERVL-MaLR	17514.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	14.5	13.0	7.5	126.5	19.5	13.5	10.5	4.5
Merged-chr1-155098128-4	chr1	155098035	155098235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010500, exon 1 of 1)	3' UTR (NM_010500, exon 1 of 1)	1501.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	107.0	185.5	101.0	1100.0	350.0	136.5	153.0	117.5
Merged-chr14-105258777-4	chr14	105258672	105258872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190989)	promoter-TSS (NM_001190989)	99.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	109.0	147.5	115.0	1632.5	289.0	71.0	134.5	111.0
Merged-chr9-25504290-4	chr9	25504205	25504405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	22708.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	86.0	155.0	148.5	1774.5	256.0	97.5	97.0	119.0
Merged-chr19-11343294-4	chr19	11343185	11343385	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-7139.0	NM_027836	109225.0	Mm.491251	NM_027836	ENSMUSG00000024672	Ms4a7	9130422I10Rik|A430103C15Rik|CD20l4|CFFMA	membrane-spanning 4-domains, subfamily A, member 7	protein-coding	35.5	25.5	34.0	381.5	70.5	15.5	13.0	41.0
Merged-chr11-76506984-3	chr11	76506882	76507082	+	855.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198018, intron 1 of 21)	intron (NM_198018, intron 1 of 21)	2437.0	NM_198018	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	13.5	7.5	5.0	80.5	20.5	5.0	7.5	9.5
Merged-chr10-10325739-3	chr10	10325642	10325842	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	146572.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	36.5	37.5	29.0	425.5	6.0	4.0	2.0	2.0
Merged-chr15-66561074-4	chr15	66560967	66561167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172514)	promoter-TSS (NM_172514)	-21.0	NM_172514	213068.0	Mm.132299	NM_172514	ENSMUSG00000036944	Tmem71	AI661017|E430024D12	transmembrane protein 71	protein-coding	46.5	86.0	67.5	839.0	148.0	51.5	56.5	59.0
Merged-chr3-95296274-4	chr3	95296158	95296358	+	885.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_199475)	TTS (NM_199475)	10546.0	NM_001085383	71790.0	Mm.218844	NM_023628	ENSMUSG00000015702	Anxa9	1110003P15Rik|2310069F17Rik	annexin A9	protein-coding	13.0	13.5	4.0	130.0	37.0	13.0	16.0	24.0
Merged-chr18-68219157-2	chr18	68219060	68219260	+	759.166626	f0_balb.idr|f0_c57.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-8786.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	13.0	17.0	13.5	213.0	20.0	4.0	13.0	12.0
Merged-chr8-11411904-3	chr8	11411825	11412025	+	733.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 16 of 47)	intron (NM_009932, intron 16 of 47)	-66004.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	9.0	13.0	12.0	98.0	0.0	0.5	4.0	6.5
Merged-chr15-101256243-4	chr15	101256136	101256336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10610.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	38.5	34.5	38.5	362.0	67.0	29.0	31.5	43.5
Merged-chr10-111390087-4	chr10	111389991	111390191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83136.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	59.0	98.5	101.0	1518.5	161.0	73.0	74.0	93.0
Merged-chr11-98810079-1	chr11	98809979	98810179	+	1000.0	f0_c57.idr	promoter-TSS (NR_033551)	promoter-TSS (NR_033551)	10.0	NR_033551	100037262.0	Mm.442062	NR_033551	ENSMUSG00000075576	Gm12359	-	predicted gene 12359	ncRNA	20.5	40.5	19.5	269.0	47.0	29.5	31.0	28.0
Merged-chr1-16059920-4	chr1	16059831	16060031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33394.0	NM_001243238	75799.0	Mm.78557	NM_001243238	ENSMUSG00000067795	4930444P10Rik	-	RIKEN cDNA 4930444P10 gene	protein-coding	52.0	52.0	50.5	652.5	103.5	30.5	76.0	51.5
Merged-chr6-84015427-4	chr6	84015334	84015534	+	983.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 1 of 54)	intron (NM_001077694, intron 1 of 54)	-3952.0	NM_001310152	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	10.5	33.5	4.5	274.5	49.5	25.5	19.0	22.5
Merged-chr2-84541636-4	chr2	84541557	84541757	+	870.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34784.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	7.5	23.0	11.0	328.5	37.5	9.0	12.0	10.5
Merged-chr6-81957218-3	chr6	81957118	81957318	+	734.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026490)	TTS (NM_026490)	8731.0	NM_026490	56284.0	Mm.276293	NM_026490	ENSMUSG00000030045	Mrpl19	9030416F12Rik|9130412E02Rik|D6Ertd157e|MRP-L15|RLX1|Rpml15	mitochondrial ribosomal protein L19	protein-coding	9.5	10.0	14.0	261.5	1.5	3.0	0.0	1.0
Merged-chr9-44316651-4	chr9	44316568	44316768	+	907.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359259, intron 4 of 13)	intron (NM_001359259, intron 4 of 13)	3614.0	NM_001359259	71764.0	Mm.491174	NM_027909	ENSMUSG00000032120	C2cd2l	1300006O23Rik|Tmem24	C2 calcium-dependent domain containing 2-like	protein-coding	20.5	27.5	9.0	196.5	19.0	5.0	17.0	13.0
Merged-chr19-60666027-4	chr19	60665946	60666146	+	954.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER58A|DNA|hAT-Charlie	-85023.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	12.5	13.0	12.0	378.5	55.5	15.0	8.5	20.5
Merged-chr9-100395895-4	chr9	100395805	100396005	+	850.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90568.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	10.0	14.5	7.5	194.0	47.5	3.5	18.0	9.0
Merged-chr1-95667035-4	chr1	95666945	95667145	+	829.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 1 of 3)	intron (NM_001159745, intron 1 of 3)	549.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	14.0	19.5	9.0	51.5	19.0	6.5	5.0	3.0
Merged-chr2-26493580-2	chr2	26493445	26493645	+	698.25	f0_balb.idr|f0_c57.idr	intron (NM_008714, intron 2 of 33)	intron (NM_008714, intron 2 of 33)	10277.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	10.5	22.5	15.0	89.5	35.0	8.5	7.0	11.0
Merged-chr15-73148919-4	chr15	73148816	73149016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	36031.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	32.0	69.0	34.0	570.0	149.5	42.5	54.0	53.5
Merged-chr19-42146424-4	chr19	42146320	42146520	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183195)	promoter-TSS (NM_183195)	-969.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	46.0	70.0	42.5	667.5	47.5	34.0	17.0	16.0
Merged-chr10-8913069-6	chr10	8913047	8913247	+	787.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-27077.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	2.5	6.5	2.0	117.0	15.5	13.0	10.5	14.0
Merged-chr6-37448101-4	chr6	37447989	37448189	+	852.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5941.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	4.5	26.5	12.0	121.5	22.5	16.5	9.0	7.5
Merged-chr3-96104422-4	chr3	96104292	96104492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025614)	promoter-TSS (NM_001025614)	-135.0	NM_001025613	229603.0	Mm.272336	NM_001025613	ENSMUSG00000038495	Otud7b	2900060B22Rik|4930463P07Rik|AI462125|CEZANNE|Trabid2|Za20d1	OTU domain containing 7B	protein-coding	37.5	40.0	41.5	421.0	138.5	35.5	53.0	45.5
Merged-chr17-10328598-4	chr17	10328565	10328765	+	981.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045461, intron 2 of 2)	intron (NR_045461, intron 2 of 2)	4063.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	12.5	12.5	13.0	137.5	24.5	3.5	8.5	7.0
Merged-chr17-57113112-4	chr17	57113014	57113214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7172.0	NR_033508	100169874.0	Mm.76700	NR_033508	ENSMUSG00000079414	Gm11110	-	predicted gene 11110	ncRNA	112.5	183.5	119.5	1308.5	271.5	101.5	111.5	96.5
Merged-chr19-53900174-4	chr19	53900103	53900303	+	873.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011050, intron 1 of 11)	intron (NM_011050, intron 1 of 11)	-3148.0	NM_001168492	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	12.0	16.0	8.0	214.5	24.0	11.0	14.0	9.0
Merged-chr16-36711480-4	chr16	36711388	36711588	+	992.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 3 of 7)	intron (NM_001285788, intron 3 of 7)	17510.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	14.5	26.5	27.0	248.0	69.0	21.0	37.5	13.5
Merged-chr5-137787317-4	chr5	137787224	137787424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144913)	promoter-TSS (NM_144913)	-7.0	NM_001360023	381678.0	Mm.332765	NM_001005426	ENSMUSG00000037108	Zcwpw1	Gm1053	zinc finger, CW type with PWWP domain 1	protein-coding	35.0	53.5	21.5	301.5	95.0	30.0	49.0	25.0
Merged-chr18-34506200-7	chr18	34506056	34506256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146084, intron 1 of 20)	intron (NM_146084, intron 1 of 20)	667.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	5.5	20.0	23.0	265.0	53.0	21.5	18.5	30.5
Merged-chr5-50058319-3	chr5	50058230	50058430	+	878.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133911, intron 1 of 18)	CpG	666.0	NM_133911	70693.0	Mm.272974	NM_133911	ENSMUSG00000029090	Adgra3	3830613O22Rik|AU044632|Gpr125|Tem5-like	adhesion G protein-coupled receptor A3	protein-coding	11.5	11.5	11.5	107.0	6.0	4.0	3.5	15.0
Merged-chr5-129925053-4	chr5	129924980	129925180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16540.0	NM_026916	69034.0	Mm.211372	NM_026916	ENSMUSG00000095789	Nupr1l	1810010E01Rik|4930579G22Rik|Nupr2	nuclear protein transcriptional regulator 1 like	protein-coding	62.5	108.0	69.0	1918.0	53.5	23.0	21.0	37.5
Merged-chr15-88751936-2	chr15	88751855	88752055	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_181412, intron 1 of 2)	CpG	244.0	NM_181412	223773.0	Mm.396622	NM_181412	ENSMUSG00000034333	Zbed4	1700009F06Rik	zinc finger, BED type containing 4	protein-coding	25.0	45.5	33.5	351.0	76.5	37.0	40.5	38.0
Merged-chr13-30657984-4	chr13	30657864	30658064	+	937.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2095.0	NM_001037955	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	14.5	9.0	24.0	146.5	36.0	8.0	15.0	23.0
Merged-chr1-152025464-4	chr1	152025355	152025555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 1 of 5)	MTD|LTR|ERVL-MaLR	64865.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	35.0	61.0	34.5	595.0	150.5	21.0	33.5	34.5
Merged-chr5-30155142-4	chr5	30155037	30155237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178878)	promoter-TSS (NM_178878)	-116.0	NM_145558	231086.0	Mm.291463	NM_145558	ENSMUSG00000059447	Hadhb	4930479F15Rik|Mtpb|TP-beta	hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), beta subunit	protein-coding	36.0	65.0	39.5	452.0	61.0	43.0	16.0	34.0
Merged-chr13-51946366-4	chr13	51946274	51946474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99699.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	97.0	149.5	95.5	1606.5	273.5	105.0	117.0	92.0
Merged-chr11-23753340-3	chr11	23753242	23753442	+	867.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 3 of 9)	intron (NM_009044, intron 3 of 9)	17628.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	14.0	8.0	8.5	143.0	12.0	10.5	4.0	6.0
Merged-chr13-60613791-3	chr13	60613686	60613886	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	11575.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	13.0	13.0	8.5	177.0	10.5	1.0	2.0	12.5
Merged-chr12-85475137-4	chr12	85475050	85475250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010234, exon 2 of 4)	exon (NM_010234, exon 2 of 4)	1260.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	72.0	175.5	29.5	395.5	210.0	125.0	68.0	46.0
Merged-chr17-35749414-4	chr17	35749248	35749448	+	920.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-23102.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	4.0	3.0	2.5	34.5	41.0	15.0	13.0	22.0
Merged-chr16-97533963-3	chr16	97533863	97534063	+	701.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-2118.0	NR_003508	17858.0	Mm.14157	NM_013606	ENSMUSG00000023341	Mx2	AI528743|Mx-2	MX dynamin-like GTPase 2	protein-coding	15.0	14.0	5.0	164.0	10.5	3.5	0.5	1.0
Merged-chr1-94079304-4	chr1	94079214	94079414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26761.0	NM_008798	18566.0	Mm.5024	NM_008798	ENSMUSG00000026285	Pdcd1	Ly101|PD-1|Pdc1	programmed cell death 1	protein-coding	44.5	80.5	52.5	1102.5	98.5	35.0	42.5	56.0
Merged-chr9-44480316-4	chr9	44480191	44480391	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2534.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	19.5	24.0	15.0	236.5	52.5	19.5	31.5	40.0
Merged-chr19-55866433-4	chr19	55866323	55866523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-28898.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	24.0	40.0	37.0	876.5	56.5	24.5	32.5	46.5
Merged-chr1-136416448-4	chr1	136416352	136416552	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024328)	promoter-TSS (NR_024328)	-933.0	NR_024328	320054.0	Mm.208000	NR_024328	ENSMUSG00000097403	9230116N13Rik	-	RIKEN cDNA 9230116N13 gene	ncRNA	12.0	26.5	13.5	260.0	24.0	7.5	23.0	25.0
Merged-chr11-52043421-4	chr11	52043326	52043526	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	intron (NM_001166654, intron 13 of 13)	39205.0	NM_001166653	213084.0	Mm.280557	NM_153785	ENSMUSG00000020389	Cdkl3	AI852479|B230379H01Rik	cyclin-dependent kinase-like 3	protein-coding	22.5	18.5	5.5	322.5	38.5	11.0	14.0	25.0
Merged-chr5-115516261-4	chr5	115516168	115516368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	9592.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	149.0	194.5	129.0	2018.0	278.5	105.5	155.0	127.0
Merged-chr8-70760402-3	chr8	70760274	70760474	+	892.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183170, exon 2 of 5)	exon (NM_183170, exon 2 of 5)	547.0	NM_183170	234384.0	Mm.213010	NM_183170	ENSMUSG00000035559	Mpv17l2	Fksg24	MPV17 mitochondrial membrane protein-like 2	protein-coding	9.0	4.5	8.5	73.0	11.5	2.5	3.5	11.5
Merged-chr16-13902348-4	chr16	13902280	13902480	+	950.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289562)	promoter-TSS (NM_001289562)	765.0	NM_001039533	94184.0	Mm.171484	NM_053181	ENSMUSG00000022680	Pdxdc1	2210010A19Rik|AA415817|Kiaa0251-hp	pyridoxal-dependent decarboxylase domain containing 1	protein-coding	21.0	25.0	15.5	289.5	32.0	10.0	13.0	13.0
Merged-chr19-41321376-4	chr19	41321279	41321479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 8 of 16)	intron (NM_031376, intron 8 of 16)	-57375.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	185.0	365.0	184.0	2431.5	385.5	163.5	161.5	145.0
Merged-chr1-161329421-2	chr1	161329335	161329535	+	602.833374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66003.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	3.5	2.0	9.0	81.0	29.0	11.0	8.5	11.0
Merged-chr16-17492369-4	chr16	17492259	17492459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291070, intron 1 of 19)	intron (NM_001291070, intron 1 of 19)	438.0	NM_001291070	72168.0	Mm.40038	NM_175178	ENSMUSG00000022763	Aifm3	2810401C16Rik|AI840249|Aifl	apoptosis-inducing factor, mitochondrion-associated 3	protein-coding	17.0	40.0	21.5	350.5	60.0	23.0	41.5	37.0
Merged-chr14-71104187-3	chr14	71104112	71104312	+	914.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147061.0	NR_046075	100043132.0	Mm.399336	NR_046075	ENSMUSG00000115139	Gm4251	-	predicted gene 4251	ncRNA	46.0	19.0	49.0	426.0	8.5	4.5	7.5	8.0
Merged-chr19-28677209-4	chr19	28677143	28677343	+	886.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045330)	promoter-TSS (NR_045330)	-981.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	12.5	16.0	21.0	308.0	19.5	15.0	10.0	5.5
Merged-chr13-45401920-1	chr13	45401820	45402020	+	585.0	f0_balb.idr	intron (NM_153789, intron 2 of 6)	PB1D9|SINE|Alu	12178.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	8.5	12.0	5.0	72.5	12.0	3.0	1.0	0.5
Merged-chr2-45111273-4	chr2	45111158	45111358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289521)	promoter-TSS (NM_001289521)	120.0	NR_110572	433424.0	Mm.441408	NR_110571	ENSMUSG00000052248	Zeb2os	Gm13476|Zeb2nat	zinc finger E-box binding homeobox 2, opposite strand	ncRNA	29.0	49.0	28.5	449.0	83.5	37.5	35.5	19.5
Merged-chr7-107045978-1	chr7	107045878	107046078	+	550.0	f1_balb.idr	Intergenic	Intergenic	9842.0	NM_147034	259036.0	Mm.377801	NM_147034	ENSMUSG00000073898	Olfr713	MOR263-1|P3	olfactory receptor 713	protein-coding	8.0	5.0	5.0	76.0	7.0	8.0	7.0	5.5
Merged-chr3-123797209-3	chr3	123797119	123797319	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2D|LTR|ERVL	-106367.0	NR_121616	83398.0	Mm.443908	NM_031186	ENSMUSG00000027977	Ndst3	4921531K01Rik|4930511P15Rik|N-HSST 3|NDST-3	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3	protein-coding	69.5	48.5	49.0	649.0	3.0	0.0	0.0	1.5
Merged-chr9-65666310-3	chr9	65666216	65666416	+	713.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-10232.0	NM_010952	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	5.0	9.0	10.5	116.5	2.5	4.0	5.5	6.5
Merged-chr9-59486762-4	chr9	59486661	59486861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019927)	promoter-TSS (NM_019927)	-387.0	NM_019927	23806.0	Mm.305925	NM_019927	ENSMUSG00000025234	Arih1	AU021774|Ari|Ari1|Hari|Hhari|Ubch7bp|Uip77	ariadne RBR E3 ubiquitin protein ligase 1	protein-coding	220.5	377.5	192.0	2738.5	536.0	223.0	241.5	195.0
Merged-chr2-29632387-4	chr2	29632280	29632480	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	L1MB3|LINE|L1	12660.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	23.5	22.0	9.0	210.5	39.5	16.0	15.5	26.5
Merged-chr19-46528778-6	chr19	46528625	46528825	+	963.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27077.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	21.0	25.5	28.5	296.0	23.5	15.0	9.5	9.5
Merged-chr16-50457177-4	chr16	50457096	50457296	+	915.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24730.0	NM_001347240	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	22.0	18.5	23.5	338.5	57.0	13.0	20.5	15.0
Merged-chr9-96375581-3	chr9	96375499	96375699	+	819.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11168.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	0.0	0.0	0.0	0.0	13.5	7.0	6.5	6.5
Merged-chr16-11460425-4	chr16	11460334	11460534	+	873.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 13 of 20)	intron (NM_028964, intron 13 of 20)	54786.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	13.5	32.5	30.5	463.0	32.0	16.5	8.5	6.5
Merged-chr10-79767609-4	chr10	79767486	79767686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027505)	promoter-TSS (NR_027505)	-634.0	NR_027505	70294.0	Mm.466670	NM_144528	ENSMUSG00000035890	Rnf126	2610010O19Rik	ring finger protein 126	protein-coding	11.0	23.5	14.5	198.5	56.5	22.0	22.5	29.5
Merged-chr4-53127783-4	chr4	53127708	53127908	+	966.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 4 of 49)	intron (NM_013454, intron 4 of 49)	32087.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	21.5	18.0	18.5	253.5	38.0	12.5	21.5	9.0
Merged-chr19-16029541-7	chr19	16029444	16029644	+	955.839294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44469.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	9.0	8.5	18.5	57.0	17.5	13.0	6.5	15.0
Merged-chr9-57561118-7	chr9	57561010	57561210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022813, exon 1 of 9)	exon (NM_022813, exon 1 of 9)	166.0	NM_022813	24044.0	Mm.286069	NM_022813	ENSMUSG00000040188	Scamp2	AI875466|Sc2	secretory carrier membrane protein 2	protein-coding	27.5	48.0	39.5	321.0	83.0	32.5	24.5	51.0
Merged-chr10-99461280-3	chr10	99461192	99461392	+	972.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147879.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	7.5	12.5	5.0	293.5	25.0	14.0	15.5	16.5
Merged-chr10-8747957-4	chr10	8747858	8748058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 10 of 19)	intron (NM_175155, intron 10 of 19)	138112.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	79.5	75.5	65.5	1329.5	112.0	41.0	56.5	28.5
Merged-chr6-113046221-4	chr6	113046132	113046332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355266)	promoter-TSS (NM_001355266)	-70.0	NM_001355266	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	222.0	354.5	209.5	2635.5	540.5	190.5	193.0	210.0
Merged-chr9-108490691-4	chr9	108490571	108490771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168371)	promoter-TSS (NM_001168371)	-5.0	NM_001168372	71472.0	Mm.289706	NM_027804	ENSMUSG00000006676	Usp19	8430421I07Rik|AI047774|Zmynd9	ubiquitin specific peptidase 19	protein-coding	89.5	110.5	41.5	871.5	217.0	76.0	86.0	77.0
Merged-chr6-135907714-4	chr6	135907600	135907800	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008171, intron 5 of 14)	intron (NM_008171, intron 5 of 14)	248787.0	NR_126088	75024.0	Mm.399147	NR_126088	ENSMUSG00000107396	4930425L21Rik	4930473P14Rik	RIKEN cDNA 4930425L21 gene	ncRNA	7.0	13.0	2.5	119.0	50.0	18.5	31.5	33.0
Merged-chr4-98465642-4	chr4	98465533	98465733	+	859.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005784, intron 16 of 19)	intron (NM_001005784, intron 16 of 19)	54606.0	NM_001355177	12695.0	Mm.90218	NM_007704	ENSMUSG00000061859	Patj	Cipp|Inadl	PATJ, crumbs cell polarity complex component	protein-coding	9.5	8.5	8.5	153.0	25.0	4.0	15.0	7.0
Merged-chr11-84117579-4	chr11	84117486	84117686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172562, intron 4 of 15)	ORR1D1|LTR|ERVL-MaLR	11982.0	NM_172562	217031.0	Mm.45159	NM_172562	ENSMUSG00000018651	Tada2a	AV319371|D030022J10Rik|Tada2l	transcriptional adaptor 2A	protein-coding	40.0	53.5	33.5	415.5	97.5	21.0	46.5	41.0
Merged-chr18-56874726-4	chr18	56874615	56874815	+	710.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177115, intron 1 of 4)	intron (NM_177115, intron 1 of 4)	50833.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	8.0	4.5	15.0	101.5	9.0	2.5	10.5	15.0
Merged-chr19-14596503-4	chr19	14596407	14596607	+	954.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302951, intron 2 of 19)	intron (NM_001302951, intron 2 of 19)	706.0	NM_001302951	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	17.0	17.0	17.0	312.0	42.0	20.0	19.5	23.0
Merged-chr15-24596480-4	chr15	24596389	24596589	+	682.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	817275.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	5.5	9.5	16.5	120.0	20.5	3.5	11.5	10.0
Merged-chr18-34858166-4	chr18	34858074	34858274	+	940.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-3033.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	9.0	22.0	6.5	175.5	120.5	14.0	42.5	24.0
Merged-chr16-31233541-4	chr16	31233422	31233622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32284.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	42.5	50.5	64.0	633.5	98.5	42.5	32.0	45.5
Merged-chr13-36314453-4	chr13	36314347	36314547	+	930.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 3 of 5)	intron (NM_001039189, intron 3 of 5)	196804.0	NM_001039189	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	15.0	30.0	16.5	263.5	55.0	22.5	14.0	7.5
Merged-chr6-125274974-4	chr6	125274871	125275071	+	915.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	9446.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	8.0	21.5	12.5	58.0	42.5	12.5	3.5	8.5
Merged-chr15-100028318-3	chr15	100028221	100028421	+	888.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-10343.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	6.5	13.0	4.5	129.5	18.5	2.0	5.5	5.5
Merged-chr18-32285334-4	chr18	32285227	32285427	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44996.0	NM_133658	13872.0	Mm.282335	NM_133658	ENSMUSG00000024382	Ercc3	BTF2 p89|Ercc-3|XPB	excision repair cross-complementing rodent repair deficiency, complementation group 3	protein-coding	17.5	14.0	9.0	260.0	38.5	14.0	14.0	28.0
Merged-chr18-46521660-2	chr18	46521560	46521760	+	805.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_173423, intron 2 of 2)	B1_Mus2|SINE|Alu	4311.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	5.5	5.5	6.5	20.0	11.0	4.0	10.0	1.0
Merged-chr5-137095375-4	chr5	137095280	137095480	+	796.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	20827.0	NM_201373	384309.0	Mm.100647	NM_201373	ENSMUSG00000043279	Trim56	A130009K11Rik|Gm452|RNF109	tripartite motif-containing 56	protein-coding	4.0	11.0	14.0	66.0	35.0	14.5	20.5	10.0
Merged-chr11-21377742-3	chr11	21377653	21377853	+	771.844421	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAA)n|Simple_repeat|Simple_repeat	-6486.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	2.5	4.0	4.5	36.0	38.0	23.5	15.5	15.5
Merged-chr13-34046567-4	chr13	34046469	34046669	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026512, intron 2 of 6)	intron (NM_026512, intron 2 of 6)	8928.0	NM_026512	68021.0	Mm.140243	NM_026512	ENSMUSG00000038286	Bphl	2010012D11Rik|5730533B08Rik|AI115341	biphenyl hydrolase-like (serine hydrolase, breast epithelial mucin-associated antigen)	protein-coding	22.0	28.5	13.5	208.5	40.5	22.5	22.5	11.5
Merged-chr19-11818854-3	chr19	11818769	11818969	+	975.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153434, exon 1 of 12)	non-coding (NR_153434, exon 1 of 12)	534.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	16.0	33.5	15.0	138.5	30.0	8.5	15.0	12.0
Merged-chr17-88368070-4	chr17	88367963	88368163	+	959.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72641.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	18.0	23.5	42.5	521.5	41.0	10.0	19.5	22.5
Merged-chr17-44783336-4	chr17	44783232	44783432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178652, intron 1 of 11)	intron (NM_178652, intron 1 of 11)	6166.0	NM_178652	109115.0	Mm.431327	NM_178652	ENSMUSG00000038954	Supt3	2310066G22Rik|AI315192|SPT3|SPT3L|Supt3h	suppressor of Ty 3	protein-coding	68.5	57.0	50.0	938.5	127.0	41.0	63.5	61.0
Merged-chr13-37847776-4	chr13	37847687	37847887	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	20394.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	20.0	23.5	18.0	274.0	31.0	14.0	16.5	5.5
Merged-chr6-117909263-2	chr6	117909163	117909363	+	582.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001166428, intron 1 of 3)	B1_Mm|SINE|Alu	1459.0	NM_001166429	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	6.0	6.0	4.5	5.5	6.0	1.0	0.5	9.5
Merged-chr7-97094433-4	chr7	97094330	97094530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	MLT1G|LTR|ERVL-MaLR	12679.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	22.0	21.0	27.0	731.0	49.5	6.0	27.5	26.5
Merged-chr6-33501243-3	chr6	33501160	33501360	+	823.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 9 of 17)	intron (NM_009148, intron 9 of 17)	252132.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	6.5	4.0	5.0	106.0	21.0	10.0	5.0	12.5
Merged-chr4-101292179-4	chr4	101292099	101292299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-26917.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	62.5	58.5	54.5	951.0	153.5	32.5	75.5	54.0
Merged-chr7-97076752-3	chr7	97076648	97076848	+	903.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5003.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	7.0	8.0	4.5	162.0	14.5	10.0	4.0	4.0
Merged-chr8-108697734-2	chr8	108697634	108697834	+	776.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16910.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	7.0	6.0	6.5	51.0	15.0	6.5	11.5	7.0
Merged-chr5-125177919-4	chr5	125177777	125177977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253905, intron 1 of 42)	CpG	1337.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	17.0	23.0	21.0	297.5	31.5	14.5	14.0	24.0
Merged-chr1-171222588-4	chr1	171222496	171222696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037170)	promoter-TSS (NM_001037170)	-82.0	NM_001037170	641376.0	Mm.288374	NM_001037170	ENSMUSG00000005674	Tomm40l	-	translocase of outer mitochondrial membrane 40-like	protein-coding	198.0	436.5	244.5	3563.5	534.0	245.0	229.0	218.5
Merged-chr2-153109062-4	chr2	153108956	153109156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	intron (NM_001172117, intron 1 of 12)	588.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	37.5	65.0	19.0	480.5	134.0	36.5	69.0	47.0
Merged-chr17-40716462-3	chr17	40716382	40716582	+	989.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-10638.0	NM_001038500	619517.0	Mm.391018	NM_001038500	ENSMUSG00000073396	Esp1	EG619517|Gm6084	exocrine gland secreted peptide 1	protein-coding	4.5	3.0	3.5	90.0	63.0	22.5	43.5	45.5
Merged-chr12-84101062-3	chr12	84101043	84101243	+	892.5238039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172580, exon 1 of 3)	exon (NM_172580, exon 1 of 3)	489.0	NM_172580	217700.0	Mm.49245	NM_172580	ENSMUSG00000043487	Acot6	4632408A20Rik|A330054B07|BE688602	acyl-CoA thioesterase 6	protein-coding	3.5	13.5	1.5	12.0	6.5	7.0	5.0	10.5
Merged-chr10-83152358-4	chr10	83152270	83152470	+	797.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021439, intron 2 of 2)	intron (NM_021439, intron 2 of 2)	166873.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	7.0	30.0	15.0	95.0	12.5	10.5	14.5	6.0
Merged-chr3-95665147-13	chr3	95665115	95665315	+	908.487183	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6494.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	14.5	15.5	2.0	71.0	17.5	8.5	10.5	18.5
Merged-chr5-125391220-3	chr5	125391128	125391328	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-1211.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	3.5	10.5	4.5	87.0	14.0	5.5	10.0	6.0
Merged-chr10-8251750-4	chr10	8251616	8251816	+	768.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 5 of 7)	intron (NM_177387, intron 5 of 7)	267109.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	15.5	11.0	7.0	130.5	22.5	15.0	22.0	13.0
Merged-chr10-94476932-4	chr10	94476833	94477033	+	804.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	RLTR20D|LTR|ERVK	-37924.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	8.5	6.5	10.0	188.5	32.5	11.5	12.0	17.5
Merged-chr1-52500571-4	chr1	52500483	52500683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008667)	promoter-TSS (NM_008667)	-135.0	NM_008667	17936.0	Mm.25903	NM_008667	ENSMUSG00000002881	Nab1	-	Ngfi-A binding protein 1	protein-coding	153.5	232.0	199.0	2011.5	424.5	153.0	181.5	161.0
Merged-chr13-67081441-4	chr13	67081335	67081535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012449, intron 1 of 2)	intron (NM_001012449, intron 1 of 2)	110.0	NM_001012448	432769.0	Mm.458849	NM_001012325	ENSMUSG00000058883	Zfp708	Rslcan11	zinc finger protein 708	protein-coding	75.5	141.0	157.0	1833.5	226.0	98.0	136.0	154.5
Merged-chr12-85472254-4	chr12	85472152	85472352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1638.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	205.5	204.5	150.5	2533.0	293.0	118.5	220.0	195.5
Merged-chr10-88332554-4	chr10	88332443	88332643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 4 of 6)	intron (NM_027878, intron 4 of 6)	24532.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	48.5	57.5	45.0	510.0	152.5	51.0	74.5	44.0
Merged-chr17-50361921-4	chr17	50361814	50362014	+	972.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68294.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	17.5	14.0	20.0	285.0	57.5	13.0	19.5	21.5
Merged-chr18-77967064-4	chr18	77966965	77967165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 12 of 43)	intron (NM_001195633, intron 12 of 43)	28598.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	28.0	33.5	54.5	634.5	71.0	26.0	54.5	25.5
Merged-chr17-32143357-4	chr17	32143272	32143472	+	920.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008716, exon 24 of 33)	exon (NM_008716, exon 24 of 33)	23480.0	NM_008716	18131.0	Mm.439741	NM_008716	ENSMUSG00000038146	Notch3	AW229011|N3|hpbk	notch 3	protein-coding	14.0	23.5	10.5	194.5	45.5	17.5	20.5	22.5
Merged-chr17-78245089-4	chr17	78244993	78245193	+	932.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	intron (NM_015800, intron 2 of 16)	44845.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	17.5	21.5	13.0	228.0	46.0	13.0	14.0	24.5
Merged-chr7-101949165-4	chr7	101949064	101949264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15307.0	NM_001162974	69358.0	Mm.214841	NM_027053	ENSMUSG00000064307	Lrrc51	1700008D07Rik|Lrtomt	leucine rich repeat containing 51	protein-coding	17.0	31.0	21.0	201.0	92.0	39.5	21.5	34.0
Merged-chr1-155059674-4	chr1	155059564	155059764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23600.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	83.5	108.0	61.5	1370.5	228.5	58.5	113.0	96.5
Merged-chr7-19266141-4	chr7	19266046	19266246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009499, intron 1 of 12)	intron (NM_009499, intron 1 of 12)	5708.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	209.0	369.5	212.5	2052.0	567.5	244.5	189.5	163.5
Merged-chr1-170702518-4	chr1	170702409	170702609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57977.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	41.0	34.5	28.5	480.0	48.0	14.5	22.0	10.0
Merged-chr16-64756536-4	chr16	64756468	64756668	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14371.0	NM_026273	67609.0	Mm.212157	NM_026273	ENSMUSG00000059920	4930453N24Rik	AI649104|din	RIKEN cDNA 4930453N24 gene	protein-coding	16.0	22.0	17.0	266.5	30.5	14.0	14.5	17.0
Merged-chr8-41600471-4	chr8	41600457	41600657	+	845.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-183439.0	NM_013522	14300.0	Mm.217312	NM_013522	ENSMUSG00000031590	Frg1	-	FSHD region gene 1	protein-coding	8.5	24.5	13.5	375.0	16.0	5.5	5.0	13.0
Merged-chr5-69557720-6	chr5	69557618	69557818	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310631, intron 1 of 14)	intron (NM_001310631, intron 1 of 14)	794.0	NM_001310631	231279.0	Mm.21105	NM_172711	ENSMUSG00000029208	Guf1	4631409J12|AA407526|EF-4	GUF1 homolog, GTPase	protein-coding	5.5	11.0	11.5	123.5	16.0	5.5	6.0	10.5
Merged-chr15-73643198-4	chr15	73643117	73643317	+	714.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18473.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	5.0	11.0	6.0	91.5	15.0	4.0	2.5	6.0
Merged-chr1-64531672-4	chr1	64531540	64531740	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1164.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	6.5	13.5	5.0	130.5	34.5	4.0	9.0	10.5
Merged-chr7-45017734-4	chr7	45017640	45017840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009101)	promoter-TSS (NM_009101)	-202.0	NM_009101	20130.0	Mm.389894	NM_009101	ENSMUSG00000038387	Rras	AI573426	related RAS viral (r-ras) oncogene	protein-coding	327.5	551.0	341.5	4069.5	646.0	255.5	271.5	267.5
Merged-chr11-79871005-1	chr11	79870905	79871105	+	1000.0	f0_c57.idr	Intergenic	Intergenic	91382.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	23.0	30.0	4.5	322.5	76.0	26.0	23.5	36.0
Merged-chr12-117832361-4	chr12	117832263	117832463	+	907.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-11498.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	17.5	23.5	16.5	297.0	25.5	7.5	17.0	13.0
Merged-chr7-143058343-3	chr7	143058184	143058384	+	837.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133655, intron 1 of 7)	intron (NM_133655, intron 1 of 7)	-4598.0	NR_110354	97423.0	Mm.5250	NM_133790	ENSMUSG00000059277	R74862	-	expressed sequence R74862	ncRNA	2.5	6.5	8.5	66.5	7.0	4.5	7.0	13.5
Merged-chr11-29787614-4	chr11	29787501	29787701	+	945.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 24 of 41)	intron (NM_146016, intron 24 of 41)	38067.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	6.5	20.0	14.5	227.5	37.5	9.0	12.5	15.5
Merged-chr4-143216464-3	chr4	143216364	143216564	+	887.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-3755.0	NM_001256380	110593.0	Mm.332020	NM_001081355	ENSMUSG00000057637	Prdm2	4833427P12Rik|E330024L24Rik|Gm1033|Gm19732|KMT8|Riz|Riz1|Znfpr1c1	PR domain containing 2, with ZNF domain	protein-coding	9.0	5.0	2.0	130.5	17.5	4.5	8.5	6.5
Merged-chr3-95106921-4	chr3	95106816	95107016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008847)	promoter-TSS (NM_008847)	14.0	NM_008847	18720.0	Mm.296409	NM_008847	ENSMUSG00000028126	Pip5k1a	PI4P5K-I[a]|PIP5K1-alpha|PIP5KIalpha|Pipk5a	phosphatidylinositol-4-phosphate 5-kinase, type 1 alpha	protein-coding	93.0	145.5	93.0	1098.5	223.5	66.5	108.0	98.5
Merged-chr11-83534393-2	chr11	83534293	83534493	+	975.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-3875.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	5.5	5.0	2.0	46.5	18.5	8.0	5.5	10.5
Merged-chr14-121372019-4	chr14	121371909	121372109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 1 of 10)	intron (NM_145465, intron 1 of 10)	7221.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	39.0	38.5	43.0	836.5	42.0	29.5	44.0	31.0
Merged-chr6-100150963-3	chr6	100150870	100151070	+	825.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136388.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	6.0	10.5	10.0	106.0	18.5	5.5	7.0	17.0
Merged-chr1-138130347-2	chr1	138130247	138130447	+	994.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	44779.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	7.0	11.0	6.0	62.0	17.0	7.0	1.5	12.0
Merged-chr5-90898676-4	chr5	90898544	90898744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5255.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	49.0	62.0	52.0	731.0	107.5	39.0	58.0	50.0
Merged-chr5-80706849-3	chr5	80706758	80706958	+	726.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-313713.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	0.0	4.0	6.5	16.5	48.0	16.0	18.0	15.5
Merged-chr13-5804786-4	chr13	5804657	5804857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53335.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	102.0	149.0	94.0	1267.5	277.0	81.5	123.5	102.0
Merged-chr12-108641187-4	chr12	108641087	108641287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	5434.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	54.5	70.5	62.5	962.5	133.5	43.0	86.0	68.5
Merged-chr3-28103838-3	chr3	28103761	28103961	+	661.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 20 of 25)	RSINE1|SINE|B4	119690.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	7.0	2.5	2.0	145.0	9.0	7.0	5.5	11.0
Merged-chr16-32189285-4	chr16	32189179	32189379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	9479.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	123.0	143.0	89.0	1326.0	217.5	92.5	105.5	109.5
Merged-chr5-36483959-3	chr5	36483855	36484055	+	965.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025725)	promoter-TSS (NM_025725)	330.0	NM_001170454	231151.0	Mm.421558	NM_001170454	ENSMUSG00000029196	Tada2b	AA474455|Gm145	transcriptional adaptor 2B	protein-coding	18.5	25.5	12.5	163.0	33.0	3.0	14.0	19.0
Merged-chr9-99090673-4	chr9	99090595	99090795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 6 of 23)	RSINE1|SINE|B4	49516.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	73.5	90.0	65.0	947.0	164.5	58.5	53.5	73.5
Merged-chr11-89098288-4	chr11	89098192	89098392	+	940.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	24451.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	3.5	15.0	8.5	102.5	95.5	38.5	37.0	39.0
Merged-chr5-120600493-3	chr5	120600391	120600591	+	802.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029408, exon 2 of 5)	exon (NM_029408, exon 2 of 5)	11468.0	NM_029408	75732.0	Mm.425285	NM_029408	ENSMUSG00000029601	Iqcd	4933433C09Rik|AI662646	IQ motif containing D	protein-coding	4.5	8.0	2.5	69.0	15.5	12.5	9.0	8.0
Merged-chr12-104175832-3	chr12	104175742	104175942	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21970.0	NM_008458	16625.0	Mm.422814	NM_008458	ENSMUSG00000066361	Serpina3c	1A1|Kalbp|Klkbp|spi2	serine (or cysteine) peptidase inhibitor, clade A, member 3C	protein-coding	6.5	9.5	0.5	32.0	175.5	74.5	83.5	54.0
Merged-chr10-127121234-4	chr10	127121112	127121312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171026)	promoter-TSS (NM_001171026)	-52.0	NM_001171026	216440.0	Mm.295246	NM_177614	ENSMUSG00000040462	Os9	4632413K17Rik|AU022351	amplified in osteosarcoma	protein-coding	147.0	229.0	120.5	1955.5	388.0	156.0	137.0	115.0
Merged-chr12-98832571-3	chr12	98832470	98832670	+	851.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 21 of 43)	MTD|LTR|ERVL-MaLR	61548.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	0.5	16.0	6.0	67.5	47.0	10.5	19.0	13.5
Merged-chr5-8917289-4	chr5	8917190	8917390	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008830, intron 9 of 27)	intron (NM_008830, intron 9 of 27)	23569.0	NM_008830	18670.0	Mm.297825	NM_008830	ENSMUSG00000042476	Abcb4	Mdr2|Pgy-2|Pgy2|mdr-2	ATP-binding cassette, sub-family B (MDR/TAP), member 4	protein-coding	24.0	31.0	40.5	843.5	69.5	16.5	30.5	28.5
Merged-chr11-50769648-2	chr11	50769548	50769748	+	576.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175643, intron 5 of 21)	intron (NM_175643, intron 5 of 21)	58083.0	NM_013922	30944.0	Mm.103674	NM_013922	ENSMUSG00000044807	Zfp354c	5330421P20Rik|AJ18|AW743325|Kid3|Tcf17l2|Znf354c|mKIAA4218	zinc finger protein 354C	protein-coding	7.5	5.0	7.5	26.5	15.0	4.0	3.5	1.0
Merged-chr2-127587277-4	chr2	127587206	127587406	+	983.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029963)	promoter-TSS (NM_029963)	-120.0	NM_029963	77721.0	Mm.274601	NM_029963	ENSMUSG00000027374	Mrps5	1620401I16Rik|AI850294	mitochondrial ribosomal protein S5	protein-coding	26.5	42.0	61.0	320.0	40.0	21.0	11.5	27.0
Merged-chr5-23969091-4	chr5	23968980	23969180	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053090, intron 10 of 10)	intron (NM_053090, intron 10 of 10)	61232.0	NM_001310471	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	11.0	15.0	14.5	268.5	50.5	29.0	30.0	2.0
Merged-chr15-38635233-1	chr15	38635133	38635333	+	604.0	f0_balb.idr	Intergenic	Intergenic	-26671.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	8.0	7.0	6.5	109.5	1.0	2.5	1.5	4.0
Merged-chr7-145001734-2	chr7	145001643	145001843	+	618.25	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-61818.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	5.0	5.0	7.0	75.5	11.5	4.5	4.0	4.5
Merged-chr19-3851770-4	chr19	3851671	3851871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013490)	promoter-TSS (NM_013490)	-2.0	NM_001271496	12660.0	Mm.225505	NM_013490	ENSMUSG00000024843	Chka	CK|CK/EK-alpha|Chetk-alpha|Chk|ChoK|EK|EtnK-alpha	choline kinase alpha	protein-coding	127.5	258.5	115.5	1585.0	344.0	180.5	140.5	135.0
Merged-chr17-71257341-3	chr17	71257237	71257437	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	52683.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	118.0	219.5	154.5	1936.0	13.5	2.5	0.5	6.0
Merged-chr4-63557923-3	chr4	63557833	63558033	+	806.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356354)	promoter-TSS (NM_001356354)	-830.0	NM_001356355	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	6.5	9.5	3.5	71.5	16.0	7.0	8.0	13.5
Merged-chr6-137694156-2	chr6	137694049	137694249	+	654.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F2|LINE|L1	-40933.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	9.5	7.0	6.5	0.0	21.0	5.0	7.5	7.0
Merged-chr16-24393074-7	chr16	24393041	24393241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178665)	promoter-TSS (NM_178665)	-209.0	NM_178665	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	37.5	55.0	30.5	521.5	56.5	21.0	26.0	45.0
Merged-chr7-67460036-4	chr7	67459943	67460143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87185.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	78.5	113.0	73.0	1239.5	159.5	48.0	94.0	75.0
Merged-chr13-98872668-4	chr13	98872547	98872747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 6 of 23)	intron (NM_178716, intron 6 of 23)	18395.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	31.0	35.5	44.5	482.0	90.0	19.5	13.5	24.5
Merged-chr11-67588580-4	chr11	67588472	67588672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109657, intron 1 of 13)	MIR3|SINE|MIR	2072.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	35.0	58.5	26.0	590.0	78.5	27.0	28.0	28.5
Merged-chr2-90574374-4	chr2	90574294	90574494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	6253.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	149.5	283.5	176.0	2512.0	307.0	145.0	170.5	130.5
Merged-chr10-80928687-4	chr10	80928552	80928752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1439.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	71.5	118.0	73.5	468.0	193.5	69.5	64.0	65.5
Merged-chr18-75695375-4	chr18	75695247	75695447	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 1 of 11)	intron (NM_201354, intron 1 of 11)	2349.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	48.0	74.0	38.5	767.5	99.5	18.0	48.0	48.5
Merged-chr18-52463691-4	chr18	52463554	52463754	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2039.0	NM_026040	67222.0	Mm.100617	NM_026040	ENSMUSG00000024528	Srfbp1	2810036K01Rik|p49/STRAP	serum response factor binding protein 1	protein-coding	14.5	26.5	13.5	225.0	201.5	60.0	49.0	89.0
Merged-chr8-40449430-3	chr8	40449321	40449521	+	874.3777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357249, intron 3 of 12)	intron (NM_001357249, intron 3 of 12)	25606.0	NM_001357249	70546.0	Mm.34326	NM_178395	ENSMUSG00000039470	Zdhhc2	5730415P04Rik|6430583A19Rik|DHHC-2	zinc finger, DHHC domain containing 2	protein-coding	13.0	13.0	12.0	210.5	4.0	6.5	4.5	3.5
Merged-chr7-142372159-4	chr7	142372008	142372208	+	915.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347541, intron 1 of 2)	CpG	151.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	1.5	4.0	7.0	53.0	20.0	12.5	10.5	11.5
Merged-chr5-110135729-4	chr5	110135624	110135824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289580)	promoter-TSS (NM_001289580)	-106.0	NM_172717	231600.0	Mm.30264	NM_172717	ENSMUSG00000014668	Chfr	5730484M20Rik|C230082M18|RNF116	checkpoint with forkhead and ring finger domains	protein-coding	221.5	280.5	214.0	2969.0	541.0	162.5	234.0	205.0
Merged-chr8-83657012-4	chr8	83656935	83657135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018771, intron 1 of 6)	L2|LINE|L2	4357.0	NM_018771	67903.0	Mm.20945	NM_018771	ENSMUSG00000019433	Gipc1	GIPC|Glut1CIP|Rgs19ip1|Semcap1|TIP-2|TaxIP2	GIPC PDZ domain containing family, member 1	protein-coding	27.0	28.0	27.5	272.5	52.0	25.0	20.0	32.5
Merged-chr4-150009556-1	chr4	150009456	150009656	+	897.6666869999999	f0_balb.idr	promoter-TSS (NM_173371)	promoter-TSS (NM_173371)	-533.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	16.0	10.0	12.5	190.0	24.0	6.5	5.0	11.5
Merged-chr2-116976549-2	chr2	116976449	116976649	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76397.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	11.0	20.0	8.0	112.0	15.5	17.5	13.5	4.0
Merged-chr11-96916138-3	chr11	96916042	96916242	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030248, intron 2 of 13)	CpG	372.0	NM_001308183	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	20.5	54.0	15.0	214.5	39.5	12.5	16.0	19.0
Merged-chr2-129058165-3	chr2	129058063	129058263	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7784.0	NM_027192	69737.0	Mm.33909	NM_027192	ENSMUSG00000027394	Ttl	2410003M22Rik|2700049H19Rik|AI848570	tubulin tyrosine ligase	protein-coding	36.0	95.0	45.0	444.0	1.5	0.0	1.5	0.0
Merged-chr17-24352783-3	chr17	24352675	24352875	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039581, intron 1 of 31)	intron (NM_001039581, intron 1 of 31)	752.0	NM_001039581	27410.0	Mm.239470	NM_013855	ENSMUSG00000024130	Abca3	1810036E22Rik|ABC-C|Abc3	ATP-binding cassette, sub-family A (ABC1), member 3	protein-coding	19.0	42.5	29.0	415.5	11.0	4.0	4.5	3.5
Merged-chr8-111643463-4	chr8	111643362	111643562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011742)	promoter-TSS (NM_011742)	19.0	NM_011742	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	101.5	126.0	75.5	1106.5	209.5	88.0	100.5	98.0
Merged-chr1-181846006-4	chr1	181845920	181846120	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3619.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	16.0	32.0	22.0	479.0	61.5	19.5	46.0	25.0
Merged-chr6-34059965-4	chr6	34059844	34060044	+	921.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028886, intron 6 of 19)	intron (NM_028886, intron 6 of 19)	30496.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	7.5	24.0	21.5	253.5	34.5	10.5	20.0	19.5
Merged-chr9-94670489-4	chr9	94670425	94670625	+	907.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 1 of 15)	intron (NM_177909, intron 1 of 15)	633.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	13.5	13.5	17.5	133.5	21.5	10.0	8.5	11.5
Merged-chr14-20661168-4	chr14	20661064	20661264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310431, exon 4 of 4)	exon (NM_001310431, exon 4 of 4)	3410.0	NM_001310432	68760.0	Mm.35789	NM_175132	ENSMUSG00000039376	Synpo2l	1110054M18Rik|Chap	synaptopodin 2-like	protein-coding	87.5	123.0	48.0	1384.5	205.5	107.0	98.0	99.5
Merged-chr6-97442813-4	chr6	97442719	97442919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	B1_Mur1|SINE|Alu	16467.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	31.0	33.0	22.0	465.0	60.0	29.0	37.0	30.5
Merged-chr4-62208530-4	chr4	62208429	62208629	+	916.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290353)	promoter-TSS (NM_001290353)	17.0	NM_001290351	22696.0	Mm.5011	NM_009554	ENSMUSG00000028389	Zfp37	Tzn|Zfp-37	zinc finger protein 37	protein-coding	28.5	39.5	31.5	583.0	22.0	8.5	11.5	20.5
Merged-chr1-138175341-4	chr1	138175235	138175435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011210)	promoter-TSS (NM_011210)	-30.0	NM_001268286	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	66.0	122.5	64.0	1006.0	164.0	73.0	70.5	86.5
Merged-chr12-85705519-7	chr12	85705414	85705614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 2 of 2)	intron (NM_016767, intron 2 of 2)	18794.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	82.0	147.0	110.0	1056.5	199.0	62.0	66.5	75.5
Merged-chr12-69401207-4	chr12	69401103	69401303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29053.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	103.0	145.0	95.5	1739.5	142.5	40.5	89.0	77.0
Merged-chr5-140619554-4	chr5	140619438	140619638	+	935.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12197.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	6.5	27.0	15.0	174.0	22.0	11.0	8.5	13.0
Merged-chr1-86064746-4	chr1	86064644	86064844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027357, exon 1 of 25)	5' UTR (NM_027357, exon 1 of 25)	125.0	NM_027357	70247.0	Mm.280013	NM_027357	ENSMUSG00000026229	Psmd1	2410026J11Rik|P112|S1	proteasome (prosome, macropain) 26S subunit, non-ATPase, 1	protein-coding	46.5	77.5	71.5	511.0	56.0	44.0	32.5	44.5
Merged-chr19-6306558-8	chr19	6306427	6306627	+	986.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033342)	promoter-TSS (NM_001033342)	70.0	NM_001033342	240505.0	Mm.329622	NM_001033342	ENSMUSG00000024769	Cdc42bpg	BC046418|MRCKgamma	CDC42 binding protein kinase gamma (DMPK-like)	protein-coding	15.5	20.0	14.0	54.0	31.0	14.5	12.5	5.5
Merged-chr17-80563919-4	chr17	80563809	80564009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033443)	promoter-TSS (NM_001033443)	-75.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	68.0	92.5	47.0	722.0	178.5	47.5	76.0	39.5
Merged-chr13-111824347-4	chr13	111824227	111824427	+	850.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-15334.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	24.0	20.0	10.0	229.0	19.5	6.5	6.0	12.0
Merged-chr2-118814154-4	chr2	118814051	118814251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026412, exon 1 of 9)	exon (NM_026412, exon 1 of 9)	148.0	NM_026412	51944.0	Mm.252695	NM_026412	ENSMUSG00000027331	Knstrn	1700025D04Rik|C15orf23|D2Ertd750e|SKAP|Traf4af1	kinetochore-localized astrin/SPAG5 binding	protein-coding	43.0	62.0	40.5	550.5	105.5	20.0	52.0	36.5
Merged-chr17-44105230-4	chr17	44105124	44105324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357996, intron 1 of 3)	intron (NM_001357996, intron 1 of 3)	584.0	NM_199016	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	20.5	47.0	18.0	235.5	73.0	36.0	8.5	17.5
Merged-chr10-117824424-4	chr10	117824314	117824514	+	826.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 2 of 7)	ID_B1|SINE|B4	21560.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	17.5	28.5	8.5	69.5	16.5	8.5	5.5	6.5
Merged-chr10-118981610-4	chr10	118981494	118981694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54451.0	NR_110482	216377.0	Mm.208936	NR_110482	ENSMUSG00000112854	Gm38403	C230029M16	predicted gene, 38403	ncRNA	93.5	149.0	87.0	1325.5	318.5	130.0	144.0	93.0
Merged-chr12-91581898-4	chr12	91581799	91581999	+	958.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175335, intron 2 of 8)	intron (NM_175335, intron 2 of 8)	7750.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	14.0	25.0	24.5	306.5	59.0	6.0	23.5	15.5
Merged-chr9-52287563-3	chr9	52287454	52287654	+	856.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119443.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	3.5	7.5	8.5	110.5	20.5	9.0	9.5	6.5
Merged-chr1-161033957-3	chr1	161033825	161034025	+	769.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153814)	promoter-TSS (NR_153814)	924.0	NM_001356489	240869.0	Mm.296127	NM_173424	ENSMUSG00000043467	Zbtb37	D430004I08Rik	zinc finger and BTB domain containing 37	protein-coding	8.0	8.0	14.5	165.0	1.0	1.0	0.5	5.0
Merged-chr1-181150945-4	chr1	181150834	181151034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030131)	promoter-TSS (NM_030131)	3.0	NM_030131	98417.0	Mm.38229	NM_030131	ENSMUSG00000062169	Cnih4	AI647760|AW050376|CNIH-4|D530030D03Rik|E430023H19Rik|HSPC163	cornichon family AMPA receptor auxiliary protein 4	protein-coding	44.5	38.5	20.0	603.5	98.0	45.5	54.5	34.0
Merged-chr4-47251311-4	chr4	47251148	47251348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 5 of 39)	intron (NM_009928, intron 5 of 39)	43236.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	58.5	49.5	37.0	460.5	64.0	20.0	27.5	27.5
Merged-chr18-49756343-3	chr18	49756237	49756437	+	938.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170960)	promoter-TSS (NM_001170960)	-736.0	NM_026854	68857.0	Mm.96010	NM_026854	ENSMUSG00000024505	Dtwd2	1190002H09Rik|8030470C17Rik|AI414673|BB115449	DTW domain containing 2	protein-coding	9.5	9.5	21.0	62.0	23.5	8.0	10.5	11.0
Merged-chr3-101800037-4	chr3	101799931	101800131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36192.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	56.0	52.5	51.0	705.5	80.5	22.5	61.0	31.5
Merged-chr7-3601336-4	chr7	3601174	3601374	+	807.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14883.0	NM_175632	232790.0	Mm.358882	NM_175632	ENSMUSG00000054594	Oscar	mOSCAR|mOSCAR-M1|mOSCAR-M2|mOSCAR-M3	osteoclast associated receptor	protein-coding	7.0	5.0	3.5	51.5	16.5	5.0	7.5	5.0
Merged-chr3-103790230-3	chr3	103790102	103790302	+	897.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301304, intron 1 of 15)	intron (NM_001301304, intron 1 of 15)	1073.0	NM_001301306	15257.0	Mm.20827	NM_010432	ENSMUSG00000008730	Hipk1	1110062K04Rik|Myak	homeodomain interacting protein kinase 1	protein-coding	14.5	7.5	9.0	128.5	13.0	8.0	6.5	11.5
Merged-chr18-73542196-4	chr18	73542101	73542301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30504.0	NM_001039214	240396.0	Mm.24131	NM_001039214	ENSMUSG00000037253	Mex3c	A130001D14Rik|BC035207|BM-013|Rkhd2	mex3 RNA binding family member C	protein-coding	78.5	144.0	64.0	891.5	174.5	63.0	72.5	37.5
Merged-chr10-117288414-4	chr10	117288299	117288499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013590, exon 4 of 4)	3' UTR (NM_013590, exon 4 of 4)	4469.0	NM_013590	17110.0	Mm.177539	NM_013590	ENSMUSG00000069515	Lyz1	Lyz|Lyzf3|Lzp-s	lysozyme 1	protein-coding	64.5	135.5	86.0	1050.0	145.5	58.5	93.5	58.0
Merged-chr18-39653042-4	chr18	39652938	39653138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120459.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	58.0	143.5	54.0	605.0	168.5	44.5	63.0	37.0
Merged-chr5-8422761-4	chr5	8422660	8422860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289595)	promoter-TSS (NM_001289595)	-44.0	NM_001190717	27214.0	Mm.292470	NM_013726	ENSMUSG00000002297	Dbf4	AA545217|Ask	DBF4 zinc finger	protein-coding	357.5	441.0	298.5	6096.0	817.0	304.5	436.0	263.5
Merged-chr7-55706978-3	chr7	55706882	55707082	+	885.144409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61202.0	NM_001310740	233274.0	Mm.44425	NM_178706	ENSMUSG00000051504	Siglech	6430529G09Rik|Siglec-H	sialic acid binding Ig-like lectin H	protein-coding	14.5	21.0	23.0	465.0	13.5	7.5	7.0	12.0
Merged-chr17-87255858-4	chr17	87255760	87255960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_139295, exon 4 of 4)	3' UTR (NM_139295, exon 4 of 4)	10087.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	159.0	218.0	261.0	3425.0	200.5	43.5	121.5	82.5
Merged-chr17-30182934-4	chr17	30182841	30183041	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356265, intron 4 of 5)	intron (NM_001356265, intron 4 of 5)	177902.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	15.0	16.0	7.5	420.0	24.0	8.5	24.5	26.0
Merged-chr6-89340219-3	chr6	89340128	89340328	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008881, intron 9 of 31)	intron (NM_008881, intron 9 of 31)	22385.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	3.0	12.5	5.0	93.0	16.5	9.5	8.0	7.0
Merged-chr9-7346850-2	chr9	7346750	7346950	+	996.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320076)	promoter-TSS (NM_001320076)	-524.0	NM_001320076	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	8.5	15.0	2.5	69.5	23.0	7.0	4.5	5.5
Merged-chr19-4148578-4	chr19	4148471	4148671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011778)	promoter-TSS (NM_011778)	-92.0	NM_011778	23789.0	Mm.276859	NM_011778	ENSMUSG00000024835	Coro1b	-	coronin, actin binding protein 1B	protein-coding	85.0	116.0	79.0	970.0	220.0	92.5	96.0	106.0
Merged-chr10-60341777-4	chr10	60341670	60341870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 37 of 68)	ORR1E|LTR|ERVL-MaLR	-5081.0	NM_001159572	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	25.5	46.0	21.0	472.5	53.5	32.0	22.5	29.5
Merged-chr3-103790966-3	chr3	103790834	103791034	+	998.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301304, intron 1 of 15)	CpG	341.0	NM_001301306	15257.0	Mm.20827	NM_010432	ENSMUSG00000008730	Hipk1	1110062K04Rik|Myak	homeodomain interacting protein kinase 1	protein-coding	19.0	29.5	19.0	198.0	41.5	21.5	20.0	15.0
Merged-chr4-133759606-2	chr4	133759518	133759718	+	560.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6007.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	4.5	11.5	6.5	65.0	9.0	1.5	4.5	6.5
Merged-chr3-65891289-3	chr3	65891181	65891381	+	832.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66968.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	1.0	7.0	4.5	61.5	49.5	6.0	11.5	11.5
Merged-chr1-151307258-4	chr1	151307161	151307361	+	833.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37225.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	9.0	9.0	15.5	194.0	18.5	13.0	11.5	7.5
Merged-chr17-29268890-4	chr17	29268802	29269002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030561, exon 1 of 9)	5' UTR (NM_030561, exon 1 of 9)	114.0	NM_030561	80748.0	Mm.290116	NM_030561	ENSMUSG00000052712	BC004004	2400006G15Rik	cDNA sequence BC004004	protein-coding	126.5	222.0	99.0	1450.5	305.5	120.0	92.0	112.5
Merged-chr8-105289207-4	chr8	105289120	105289320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177788)	TTS (NM_177788)	308.0	NM_001166394	74356.0	Mm.204876	NM_028888	ENSMUSG00000014837	4931428F04Rik	AI426165|Kiaa0895l	RIKEN cDNA 4931428F04 gene	protein-coding	126.0	277.5	117.0	1626.5	421.0	169.0	171.0	154.0
Merged-chr12-110503019-3	chr12	110502926	110503126	+	870.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081457, intron 1 of 12)	intron (NM_001081457, intron 1 of 12)	17287.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	1.5	5.5	8.5	98.0	5.5	7.0	6.5	10.0
Merged-chr10-94521923-4	chr10	94521835	94522035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	intron (NM_172051, intron 1 of 3)	7078.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	79.0	90.5	49.0	885.0	127.0	49.0	43.5	31.5
Merged-chr4-135314637-4	chr4	135314561	135314761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38553.0	NM_016799	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	32.0	55.0	48.5	768.5	100.5	32.0	48.0	43.0
Merged-chr11-62576698-4	chr11	62576590	62576790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011706, intron 2 of 15)	intron (NM_011706, intron 2 of 15)	2204.0	NM_011706	22368.0	Mm.288064	NM_011706	ENSMUSG00000018507	Trpv2	GRC|OTRPC2|VRL-1|Vrl1	transient receptor potential cation channel, subfamily V, member 2	protein-coding	44.5	38.0	37.5	400.0	64.0	25.5	26.5	28.0
Merged-chr5-141080536-4	chr5	141080442	141080642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-79946.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	88.0	74.5	78.0	1369.5	140.0	47.0	80.0	69.5
Merged-chr17-30494468-3	chr17	30494366	30494566	+	929.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172618, intron 6 of 11)	intron (NM_172618, intron 6 of 11)	81821.0	NM_172618	224671.0	Mm.41220	NM_027060	ENSMUSG00000062202	Btbd9	1700023F20Rik|4930402L05|AI464421	BTB (POZ) domain containing 9	protein-coding	10.0	8.5	11.5	205.5	20.5	12.5	8.0	4.0
Merged-chr6-84043638-4	chr6	84043528	84043728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 3 of 54)	intron (NM_001077694, intron 3 of 54)	24242.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	70.0	107.5	105.0	1443.5	202.5	67.0	70.0	80.0
Merged-chr6-116004910-4	chr6	116004815	116005015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9910.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	42.5	72.5	34.5	744.5	81.5	43.5	47.5	29.5
Merged-chr5-123714857-3	chr5	123714756	123714956	+	781.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027494, intron 3 of 13)	intron (NM_027494, intron 3 of 13)	6188.0	NM_027494	70650.0	Mm.279427	NM_027494	ENSMUSG00000029427	Zcchc8	5730565F05Rik	zinc finger, CCHC domain containing 8	protein-coding	7.0	14.0	5.0	128.0	29.0	5.0	5.5	8.5
Merged-chr15-102381755-4	chr15	102381664	102381864	+	874.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14796.0	NM_001348205	170574.0	Mm.263284	NM_130458	ENSMUSG00000060284	Sp7	6430578P22Rik|C22|Osx	Sp7 transcription factor 7	protein-coding	4.5	10.5	10.5	143.0	30.0	5.0	11.0	12.0
Merged-chr12-69538108-4	chr12	69537948	69538148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44980.0	NM_001033236	207965.0	Mm.102487	NM_001033236	ENSMUSG00000049882	Vcpkmt	Gm71|Mettl21d|Mettl221d|VCP-KMT	valosin containing protein lysine (K) methyltransferase	protein-coding	45.5	137.5	65.5	544.0	104.5	62.5	40.0	22.5
Merged-chr13-18808435-5	chr13	18808424	18808624	+	966.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 7 of 28)	intron (NM_172120, intron 7 of 28)	91232.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	11.0	19.0	8.5	167.0	25.5	13.0	11.0	8.0
Merged-chr4-9136009-4	chr4	9135949	9136149	+	915.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133244.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	10.5	7.0	12.0	281.5	27.5	8.0	10.5	7.0
Merged-chr5-64234357-4	chr5	64234250	64234450	+	937.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 1 of 18)	L2a|LINE|L2	3993.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	20.0	11.5	30.0	471.5	42.5	9.0	12.0	23.5
Merged-chr2-175142005-4	chr2	175141867	175142067	+	917.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64950.0	NM_001164689	626832.0	Mm.441314	NM_001164689	ENSMUSG00000078887	Gm6710	1600017I02Rik|2310011F05Rik|2900089K14Rik|3100002L24Rik|WF-4	predicted gene 6710	protein-coding	19.0	14.0	34.5	147.0	22.5	17.0	15.5	22.0
Merged-chr8-57427746-3	chr8	57427652	57427852	+	873.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-28171.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	10.0	22.0	7.5	206.5	20.5	4.5	2.0	3.5
Merged-chr3-28026341-4	chr3	28026224	28026424	+	693.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 3 of 25)	RMER10A|LTR|ERVL	42153.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	8.0	5.5	10.0	89.5	30.5	5.0	9.0	13.0
Merged-chr8-104146505-3	chr8	104146391	104146591	+	737.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24022.0	NM_001141924	65115.0	Mm.41849	NM_001141922	ENSMUSG00000031872	Bean1	Bean	brain expressed, associated with Nedd4, 1	protein-coding	9.0	7.5	3.5	115.0	24.0	13.0	11.5	8.0
Merged-chr15-74930520-4	chr15	74930415	74930615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24536.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	34.0	44.0	25.5	643.5	111.0	21.0	34.5	46.5
Merged-chr11-115691253-3	chr11	115691152	115691352	+	820.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	8282.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	7.0	12.0	9.0	58.0	21.5	6.5	11.5	9.5
Merged-chr1-95319092-4	chr1	95318998	95319198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026321, intron 1 of 2)	intron (NM_026321, intron 1 of 2)	5470.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	33.5	21.5	30.0	308.5	72.0	20.5	24.0	13.5
Merged-chr6-116123041-4	chr6	116122920	116123120	+	986.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	MERVL_2A-int|LTR|ERVL	70354.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	23.0	42.0	18.0	498.5	58.5	24.0	43.0	17.5
Merged-chr2-120100047-4	chr2	120099941	120100141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 4 of 5)	intron (NM_133838, intron 4 of 5)	54534.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	56.0	58.0	45.0	788.5	108.5	37.0	58.0	59.5
Merged-chr11-6476139-4	chr11	6476045	6476245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011221)	promoter-TSS (NM_011221)	-69.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	55.0	84.5	55.0	873.5	199.5	69.5	85.0	76.0
Merged-chr5-145201898-4	chr5	145201771	145201971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023322)	promoter-TSS (NM_023322)	11.0	NM_023322	67235.0	Mm.432480	NM_023322	ENSMUSG00000029627	Zkscan14	2310046C23Rik|2810437E14Rik|Zfp99|Znf394	zinc finger with KRAB and SCAN domains 14	protein-coding	100.5	171.5	86.5	1162.5	253.5	73.0	96.5	91.5
Merged-chr5-100671581-3	chr5	100671484	100671684	+	856.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027978, intron 1 of 6)	intron (NM_027978, intron 1 of 6)	2672.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	12.0	14.5	9.0	90.0	20.5	6.0	6.0	8.0
Merged-chr5-142935794-4	chr5	142935681	142935881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33B|LTR|ERVL	-24574.0	NM_007984	14086.0	Mm.289707	NM_007984	ENSMUSG00000029581	Fscn1	AI663989|Fan1|fascin-1	fascin actin-bundling protein 1	protein-coding	25.0	62.5	23.0	486.5	146.5	43.0	71.0	41.5
Merged-chr1-78724642-4	chr1	78724567	78724767	+	917.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66227.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	19.0	17.5	16.0	177.5	28.5	19.0	18.0	16.0
Merged-chr10-75710407-4	chr10	75710311	75710511	+	930.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 26 of 36)	intron (NM_172549, intron 26 of 36)	53946.0	NM_172549	104248.0	Mm.257404	NM_172549	ENSMUSG00000020196	Cabin1	A330070M20Rik|Cain|Ppp3in	calcineurin binding protein 1	protein-coding	12.5	12.5	13.5	328.0	32.5	7.0	37.5	27.5
Merged-chr7-24593881-4	chr7	24593782	24593982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023154, exon 2 of 8)	5' UTR (NM_023154, exon 2 of 8)	-6241.0	NM_001033205	101544.0	Mm.20117	NM_001033205	ENSMUSG00000066721	Zfp575	AI326876|Znf575	zinc finger protein 575	protein-coding	34.5	51.5	31.0	666.0	94.5	21.5	42.5	24.0
Merged-chr10-80510500-4	chr10	80510378	80510578	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139226, intron 1 of 1)	intron (NM_139226, intron 1 of 1)	15572.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	9.0	18.5	16.0	296.5	44.5	17.5	16.0	17.5
Merged-chr3-103058309-4	chr3	103058197	103058397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010937)	promoter-TSS (NM_010937)	12.0	NM_010937	18176.0	Mm.400954	NM_010937	ENSMUSG00000027852	Nras	AV095280|N-ras	neuroblastoma ras oncogene	protein-coding	55.0	57.5	43.5	738.0	206.0	54.5	61.5	93.0
Merged-chr1-64338101-4	chr1	64338018	64338218	+	911.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-194686.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	15.5	29.5	28.5	274.0	25.0	12.5	17.5	9.0
Merged-chr10-21941369-3	chr10	21941257	21941457	+	785.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 2 of 13)	intron (NM_001161845, intron 2 of 13)	-37315.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	4.0	8.0	2.5	50.0	23.0	4.5	11.5	5.0
Merged-chr5-8082891-3	chr5	8082787	8082987	+	824.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310440, intron 29 of 30)	intron (NM_001310440, intron 29 of 30)	26345.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	9.0	13.5	11.5	297.5	14.5	3.5	5.5	2.5
Merged-chr1-43110724-4	chr1	43110616	43110816	+	935.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133818, intron 2 of 3)	ORR1D2|LTR|ERVL-MaLR	12006.0	NM_133818	98404.0	Mm.28817	NM_133818	ENSMUSG00000010290	AI597479	-	expressed sequence AI597479	protein-coding	23.5	22.5	23.5	238.0	53.0	6.0	13.0	18.0
Merged-chr4-109458217-2	chr4	109458117	109458317	+	820.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_013876, intron 1 of 2)	intron (NM_013876, intron 1 of 2)	18288.0	NM_013876	29864.0	Mm.392580	NM_013876	ENSMUSG00000028557	Rnf11	-	ring finger protein 11	protein-coding	6.0	5.5	6.5	102.0	17.5	5.5	4.5	8.0
Merged-chr7-28809140-4	chr7	28809062	28809262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1728.0	NM_177301	15388.0	Mm.9043	NM_177301	ENSMUSG00000015165	Hnrnpl	C79783|D830027H13Rik|Hnrpl	heterogeneous nuclear ribonucleoprotein L	protein-coding	53.0	89.5	81.5	928.0	219.0	92.5	114.5	74.5
Merged-chr7-142391320-3	chr7	142391267	142391467	+	741.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3497.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	8.0	5.5	7.0	136.5	14.0	1.0	1.0	6.0
Merged-chr4-110668222-4	chr4	110668066	110668266	+	838.516663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284190, intron 3 of 12)	intron (NM_001284190, intron 3 of 12)	270468.0	NM_030231	78933.0	Mm.435620	NM_030231	ENSMUSG00000061298	Agbl4	4930578N11Rik|4931433A01Rik	ATP/GTP binding protein-like 4	protein-coding	6.0	12.0	10.5	160.5	10.5	9.0	5.5	6.0
Merged-chr13-111807661-1	chr13	111807561	111807761	+	1000.0	f1_balb.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	1332.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	15.0	11.5	12.0	151.5	37.5	8.0	7.5	7.0
Merged-chr1-89940582-4	chr1	89940488	89940688	+	855.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9412.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	15.0	33.5	6.5	191.0	27.0	9.0	11.5	14.0
Merged-chr1-149947164-4	chr1	149947060	149947260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	14130.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	39.0	50.5	44.0	857.0	87.0	31.0	34.5	41.0
Merged-chr10-99599561-1	chr10	99599461	99599661	+	974.3333130000001	f0_c57.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	-9610.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	0.0	0.0	0.0	0.5	44.0	12.5	26.0	16.0
Merged-chr12-111572619-2	chr12	111572519	111572719	+	936.25	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045295, exon 2 of 2)	non-coding (NR_045295, exon 2 of 2)	1783.0	NR_045295	100504687.0	Mm.26072	NR_045295	ENSMUSG00000096995	2810029C07Rik	AU017849	RIKEN cDNA 2810029C07 gene	ncRNA	8.0	14.0	2.0	18.5	9.5	11.0	8.0	6.5
Merged-chr5-108268820-4	chr5	108268718	108268918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026106)	promoter-TSS (NM_026106)	-79.0	NM_026106	13486.0	Mm.303534	NM_026106	ENSMUSG00000029265	Dr1	1700121L09Rik|Dr1l|NC2|NC2beta	down-regulator of transcription 1	protein-coding	90.5	161.0	89.5	1830.5	254.0	65.0	152.0	85.5
Merged-chr4-135801684-4	chr4	135801585	135801785	+	834.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085509, intron 27 of 36)	intron (NM_001085509, intron 27 of 36)	41970.0	NM_001085509	242702.0	Mm.318639	NM_001085509	ENSMUSG00000037139	Myom3	8430427K15Rik|Gm434	myomesin family, member 3	protein-coding	12.5	14.5	9.5	116.5	28.0	10.0	8.0	12.0
Merged-chr14-65100613-4	chr14	65100521	65100721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2515.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	43.5	39.5	34.0	613.5	67.5	23.5	28.5	22.0
Merged-chr18-82914429-7	chr18	82914273	82914473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177464)	promoter-TSS (NM_001177464)	-259.0	NM_001177464	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	37.0	72.5	65.5	782.5	151.0	66.0	61.0	78.0
Merged-chr18-39137610-4	chr18	39137504	39137704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 10 of 21)	intron (NM_001361073, intron 10 of 21)	144459.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	22.5	44.0	26.5	554.5	65.0	28.0	29.5	31.5
Merged-chr7-25298183-4	chr7	25298056	25298256	+	953.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008776)	promoter-TSS (NM_008776)	-170.0	NM_001357350	18476.0	Mm.597	NM_008776	ENSMUSG00000005447	Pafah1b3	Pafahg|mus[g]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 3	protein-coding	12.0	21.5	13.5	131.0	32.0	9.5	8.0	11.0
Merged-chr6-32718078-4	chr6	32717975	32718175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-129883.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	44.0	71.5	63.5	909.0	90.5	26.0	55.5	71.5
Merged-chr4-3981604-4	chr4	3981510	3981710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38053.0	NM_181989	242285.0	Mm.98096	NM_181989	ENSMUSG00000028236	Sdr16c5	Rdhe2|Scdr9	short chain dehydrogenase/reductase family 16C, member 5	protein-coding	41.5	53.5	59.0	976.0	98.5	23.5	45.0	57.5
Merged-chr11-48998056-2	chr11	48997956	48998156	+	607.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	-5810.0	NM_011579	21822.0	Mm.15793	NM_011579	ENSMUSG00000078922	Tgtp1	Gtp2|Irgb6|Mg21|Tgtp	T cell specific GTPase 1	protein-coding	8.0	12.5	4.5	56.5	12.0	6.5	8.0	16.5
Merged-chr14-70929118-1	chr14	70929018	70929218	+	627.0	f0_balb.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	39011.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	8.5	12.0	4.5	73.5	0.5	0.5	0.5	1.5
Merged-chr5-105595725-4	chr5	105595630	105595830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	76259.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	54.5	58.5	49.5	576.5	112.0	25.5	41.5	44.5
Merged-chr3-88625005-3	chr3	88624890	88625090	+	999.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	3596.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	32.5	44.5	26.5	312.5	20.0	6.0	15.5	8.5
Merged-chr13-112308923-4	chr13	112308856	112309056	+	739.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168404, intron 2 of 7)	intron (NM_001168404, intron 2 of 7)	20438.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	5.5	5.0	11.0	96.5	12.0	3.0	7.0	3.0
Merged-chr4-7405290-4	chr4	7405214	7405414	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-155374.0	NR_040645	71510.0	Mm.410775	NR_040645	ENSMUSG00000086070	8430436N08Rik	-	RIKEN cDNA 8430436N08 gene	ncRNA	14.5	15.0	10.5	419.5	41.5	9.5	7.5	14.5
Merged-chr8-13164538-3	chr8	13164432	13164632	+	851.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010684, intron 1 of 8)	intron (NM_010684, intron 1 of 8)	5371.0	NM_010684	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	10.5	6.5	4.5	87.5	14.0	4.5	8.0	9.5
Merged-chr10-4431862-1	chr10	4431762	4431962	+	1000.0	f1_balb.idr	promoter-TSS (NM_024261)	promoter-TSS (NM_024261)	526.0	NM_025343	66084.0	Mm.153111	NM_025343	ENSMUSG00000019763	Rmnd1	0610042C05Rik|AA408137|AI462664|AW536662	required for meiotic nuclear division 1 homolog	protein-coding	5.0	1.5	5.5	85.0	11.0	6.5	4.5	22.5
Merged-chr18-49488600-2	chr18	49488500	49488700	+	614.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34689.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	5.5	8.5	7.0	93.0	15.0	0.5	0.0	3.0
Merged-chr11-4190826-4	chr11	4190701	4190901	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	intron (NM_134023, intron 1 of 8)	3968.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	31.0	36.0	64.5	679.0	66.5	13.0	19.0	24.0
Merged-chr13-37346034-4	chr13	37345918	37346118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	673.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	32.0	59.5	16.5	261.5	65.0	34.0	36.0	29.5
Merged-chr14-120479509-4	chr14	120479403	120479603	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029519, intron 1 of 1)	intron (NM_029519, intron 1 of 1)	1042.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	19.5	24.0	10.0	181.5	21.5	14.5	10.0	13.0
Merged-chr10-18927567-4	chr10	18927467	18927667	+	869.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie2b|DNA|hAT-Charlie	82496.0	NM_022032	64058.0	Mm.28209	NM_022032	ENSMUSG00000019851	Perp	1110017A08Rik|KCP1|KRTCAP1|PIGPC1|THW	PERP, TP53 apoptosis effector	protein-coding	2.5	9.0	9.0	106.5	43.0	7.5	12.5	14.0
Merged-chr10-117883736-4	chr10	117883635	117883835	+	922.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-37761.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	23.5	22.0	10.5	168.0	32.0	8.0	10.0	24.0
Merged-chr6-57703909-3	chr6	57703827	57704027	+	797.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	Lx8|LINE|L1	1472.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	9.0	10.0	13.0	161.5	11.0	1.5	8.5	7.0
Merged-chr18-88820273-4	chr18	88820160	88820360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73947.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	98.5	101.0	159.0	2079.5	109.5	39.5	66.5	47.5
Merged-chr19-47395058-3	chr19	47394985	47395185	+	734.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 3 of 14)	B1_Mur4|SINE|Alu	69326.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	8.5	25.0	8.5	55.5	7.5	8.0	6.5	11.0
Merged-chr5-140798414-3	chr5	140798314	140798514	+	875.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	ID|SINE|ID	32017.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	10.0	3.5	8.5	105.0	10.0	5.5	5.0	5.5
Merged-chr5-64322566-2	chr5	64322500	64322700	+	742.875	f0_balb.idr|f1_balb.idr	intron (NM_001289514, intron 13 of 18)	Lx7|LINE|L1	92243.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	9.0	12.0	9.5	307.5	2.5	1.0	2.0	8.0
Merged-chr15-84139842-3	chr15	84139723	84139923	+	877.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16648.0	NM_029427	75772.0	Mm.159565	NM_029427	ENSMUSG00000018868	Pnpla5	4833426H19Rik|GS2L	patatin-like phospholipase domain containing 5	protein-coding	12.0	15.5	13.0	188.0	19.0	2.5	9.5	14.5
Merged-chr15-101275850-3	chr15	101275748	101275948	+	866.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8453.0	NM_026566	68118.0	Mm.482360	NM_026566	ENSMUSG00000037204	Atg101	9430023L20Rik|AA407441|AU022967	autophagy related 101	protein-coding	6.0	10.0	9.0	49.0	39.5	18.0	8.0	14.0
Merged-chr6-122658482-4	chr6	122658398	122658598	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32074.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	8.5	9.0	8.5	91.0	27.5	5.0	8.0	17.5
Merged-chr8-79225783-4	chr8	79225687	79225887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026315, intron 2 of 5)	MTEa|LTR|ERVL-MaLR	22796.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	50.0	63.5	81.5	1563.5	114.0	51.5	77.5	62.5
Merged-chr6-17612447-3	chr6	17612345	17612545	+	962.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-24565.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	8.5	11.0	21.0	71.0	32.5	17.5	19.5	17.5
Merged-chr5-139407273-6	chr5	139407161	139407361	+	947.0793460000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177000, intron 1 of 1)	intron (NM_177000, intron 1 of 1)	874.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	5.5	10.5	14.0	95.0	20.0	4.0	11.0	13.0
Merged-chr5-104943098-1	chr5	104942998	104943198	+	628.0	f0_balb.idr	intron (NM_030239, intron 13 of 15)	intron (NM_030239, intron 13 of 15)	39619.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	10.0	6.5	1.5	42.0	14.0	6.5	9.5	4.5
Merged-chr6-50110759-3	chr6	50110656	50110856	+	996.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361247)	promoter-TSS (NM_001361247)	-104.0	NM_001361247	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	18.0	32.0	44.5	348.0	19.5	11.0	9.5	16.0
Merged-chr2-24935316-4	chr2	24935196	24935396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162485)	promoter-TSS (NM_001162485)	-15.0	NM_178408	215705.0	Mm.45275	NM_178408	ENSMUSG00000026972	Arrdc1	AI957342|BC004091	arrestin domain containing 1	protein-coding	189.5	286.5	165.0	2329.0	420.0	147.0	208.0	168.5
Merged-chr16-91358640-3	chr16	91358528	91358728	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14155.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	0.0	0.0	0.0	0.0	50.5	14.5	25.0	26.5
Merged-chr9-107985282-4	chr9	107985164	107985364	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026597, intron 1 of 1)	intron (NM_026597, intron 1 of 1)	652.0	NM_026597	68176.0	Mm.76166	NM_026597	ENSMUSG00000042106	Fam212a	6230427J02Rik|Inka1	family with sequence similarity 212, member A	protein-coding	33.5	51.0	28.5	371.0	90.5	21.5	26.5	18.0
Merged-chr15-13423637-4	chr15	13423520	13423720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-249945.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	78.0	87.0	125.0	2157.5	197.5	51.5	137.5	73.5
Merged-chr7-46790866-4	chr7	46790757	46790957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005247, intron 2 of 22)	intron (NM_001005247, intron 2 of 22)	5024.0	NM_001005248	246694.0	Mm.379442	NM_178742	ENSMUSG00000014418	Hps5	AI646796|AL022647|C85120|haze|hz|maroon|mr|ru-2|ru2	HPS5, biogenesis of lysosomal organelles complex 2 subunit 2	protein-coding	32.0	30.0	32.5	595.5	67.0	23.0	28.5	35.5
Merged-chr13-80899892-4	chr13	80899788	80899988	+	673.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13793.0	NR_153411	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	6.5	5.0	10.0	92.0	16.0	4.0	10.0	10.0
Merged-chr16-17127467-3	chr16	17127358	17127558	+	855.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2256.0	NM_001358255	70458.0	Mm.234165	NM_183287	ENSMUSG00000049916	2610318N02Rik	AL033325	RIKEN cDNA 2610318N02 gene	protein-coding	6.5	7.0	5.5	86.5	19.5	4.5	9.0	10.0
Merged-chr5-23851401-3	chr5	23851301	23851501	+	858.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028536)	promoter-TSS (NR_028536)	804.0	NR_045040	67194.0	Mm.423733	NR_045040	ENSMUSG00000097180	2700038G22Rik	-	RIKEN cDNA 2700038G22 gene	ncRNA	3.0	9.5	4.5	37.5	16.0	7.0	16.0	10.0
Merged-chr8-68822910-4	chr8	68822808	68823008	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027590, intron 16 of 16)	intron (NM_027590, intron 16 of 16)	28979.0	NM_001293792	70885.0	Mm.252421	NM_027590	ENSMUSG00000031864	Ints10	4921521J11Rik|AI462004	integrator complex subunit 10	protein-coding	14.5	31.0	20.0	317.5	73.0	19.0	33.5	28.0
Merged-chr11-6497400-1	chr11	6497300	6497500	+	791.0	f1_c57bl6.idr	Intergenic	Intergenic	-21324.0	NM_011221	19291.0	Mm.296150	NM_011221	ENSMUSG00000094483	Purb	2310015K15Rik|AA114818|Cager-2|D11Bwg0414e	purine rich element binding protein B	protein-coding	0.0	0.0	0.0	0.0	8.0	9.0	4.5	6.0
Merged-chr16-26105552-6	chr16	26105466	26105666	+	763.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173379, exon 1 of 15)	exon (NM_173379, exon 1 of 15)	218.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	8.5	7.5	4.5	142.5	12.0	5.0	4.0	12.5
Merged-chr11-31852101-3	chr11	31852008	31852208	+	932.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18832.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	10.0	11.5	7.5	139.0	13.0	0.0	2.0	5.5
Merged-chr5-143990277-4	chr5	143990165	143990365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177682, intron 14 of 14)	intron (NM_177682, intron 14 of 14)	24588.0	NM_177682	231874.0	Mm.320432	NM_177682	ENSMUSG00000029617	Ccz1	AU022870	CCZ1 vacuolar protein trafficking and biogenesis associated	protein-coding	60.5	81.5	72.5	1064.5	140.0	47.5	79.0	81.5
Merged-chr4-149738112-4	chr4	149738021	149738221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177672)	promoter-TSS (NM_177672)	-53.0	NM_177672	230917.0	Mm.266704	NM_177672	ENSMUSG00000044700	Tmem201	AV028368|D4Ertd429e|Net5|Samp1	transmembrane protein 201	protein-coding	115.5	172.0	62.5	1394.0	314.5	116.5	126.0	102.0
Merged-chr10-94961481-4	chr10	94961370	94961570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-16892.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	37.0	53.5	43.0	918.0	63.0	20.0	16.0	54.5
Merged-chr19-60755928-4	chr19	60755832	60756032	+	976.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178421)	promoter-TSS (NM_178421)	-55.0	NM_178421	332397.0	Mm.186390	NM_178421	ENSMUSG00000072437	Nanos1	NOS-1	nanos C2HC-type zinc finger 1	protein-coding	31.5	39.0	37.5	691.0	70.5	18.5	41.5	15.0
Merged-chr13-114818823-4	chr13	114818727	114818927	+	966.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113375, intron 1 of 5)	intron (NM_001113375, intron 1 of 5)	590.0	NM_001113374	17434.0	Mm.19027	NM_013826	ENSMUSG00000015536	Mocs2	AI415403	molybdenum cofactor synthesis 2	protein-coding	30.0	27.0	41.0	499.0	58.5	14.5	14.5	33.5
Merged-chr19-32389675-4	chr19	32389568	32389768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033198, intron 1 of 1)	CpG-7452	452.0	NR_033198	67188.0	Mm.391160	NR_033198	ENSMUSG00000097787	2700046G09Rik	-	RIKEN cDNA 2700046G09 gene	ncRNA	25.0	25.5	28.5	304.5	47.0	15.0	18.0	17.5
Merged-chr18-67212968-3	chr18	67212895	67213095	+	914.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177137, intron 7 of 11)	intron (NM_177137, intron 7 of 11)	7636.0	NM_024190	67064.0	Mm.73777	NM_024190	ENSMUSG00000109901	Chmp1b	2810405I11Rik|Chmp1b1	charged multivesicular body protein 1B	protein-coding	5.5	12.0	4.5	187.5	6.5	1.5	1.5	4.0
Merged-chr6-31314204-4	chr6	31314100	31314300	+	970.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040261, intron 3 of 4)	intron (NR_040261, intron 3 of 4)	84573.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	16.0	23.5	16.5	400.5	41.5	10.5	17.5	24.5
Merged-chr3-31408332-4	chr3	31408226	31408426	+	908.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-98007.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	9.0	15.0	11.0	216.5	30.0	3.5	11.0	17.0
Merged-chr5-124536920-4	chr5	124536792	124536992	+	862.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3899.0	NM_019770	56334.0	Mm.325307	NM_019770	ENSMUSG00000029390	Tmed2	1110032D12Rik|1810020N21Rik|Rnp24|Sid394|p24beta1	transmembrane p24 trafficking protein 2	protein-coding	12.5	11.0	9.0	144.0	23.5	8.0	18.0	10.0
Merged-chr4-84077523-3	chr4	84077450	84077650	+	800.638855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32671.0	NR_130998	78238.0	Mm.243903	NR_130998	ENSMUSG00000085217	6030471H07Rik	-	RIKEN cDNA 6030471H07 gene	ncRNA	7.5	14.5	20.5	210.0	1.0	0.0	0.0	0.0
Merged-chr9-56937398-4	chr9	56937284	56937484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133976)	promoter-TSS (NM_133976)	-116.0	NM_133976	102462.0	Mm.12864	NM_133976	ENSMUSG00000032288	Imp3	1190002L16Rik|AI256594	IMP3, U3 small nucleolar ribonucleoprotein	protein-coding	68.0	107.0	59.5	945.0	196.5	92.0	64.0	73.0
Merged-chr3-81102786-2	chr3	81102686	81102886	+	764.583374	f0_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	66370.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	17.0	22.0	17.5	264.5	17.5	9.5	4.5	8.5
Merged-chr15-96655689-4	chr15	96655577	96655777	+	974.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-12764.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	18.0	38.0	9.5	380.0	58.5	6.0	27.5	30.0
Merged-chr13-111797208-4	chr13	111797098	111797298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	11795.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	80.5	126.5	77.5	1319.5	232.5	64.5	126.0	80.5
Merged-chr10-59951937-4	chr10	59951814	59952014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029083)	promoter-TSS (NM_029083)	-144.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	214.5	380.0	240.0	3845.5	576.5	194.5	332.0	229.0
Merged-chr19-61021720-1	chr19	61021620	61021820	+	674.0	f0_balb.idr	intron (NM_018869, intron 2 of 15)	intron (NM_018869, intron 2 of 15)	119120.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	7.0	4.5	4.5	143.0	1.0	0.0	0.0	0.0
Merged-chr9-32676295-3	chr9	32676187	32676387	+	674.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19755.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	15.0	15.5	10.0	100.5	22.5	6.5	7.0	5.5
Merged-chr17-28907587-2	chr17	28907487	28907687	+	648.549988	f1_balb.idr|f1_c57bl6.idr	TTS (NR_045457)	TTS (NR_045457)	2322.0	NR_045457	74179.0	Mm.248931	NR_045457	ENSMUSG00000085333	1700030A11Rik	-	RIKEN cDNA 1700030A11 gene	ncRNA	7.0	16.0	8.0	9.5	18.5	11.0	1.0	4.5
Merged-chr6-33263212-4	chr6	33263104	33263304	+	912.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347089, intron 1 of 9)	B1F|SINE|Alu	14076.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	12.0	22.0	5.5	187.0	49.5	16.0	14.0	25.5
Merged-chr1-88230045-2	chr1	88229945	88230145	+	912.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001281466, intron 3 of 41)	intron (NM_001281466, intron 3 of 41)	3025.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	6.5	5.0	9.0	40.5	9.5	2.5	3.0	10.5
Merged-chr17-70847245-4	chr17	70847142	70847342	+	916.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164077)	promoter-TSS (NM_001164077)	-465.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	14.0	18.0	13.5	129.0	69.0	8.5	23.5	21.0
Merged-chr14-26638896-4	chr14	26638801	26639001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	intron (NM_007479, intron 1 of 5)	767.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	49.5	106.5	52.5	617.5	162.5	60.5	87.5	61.0
Merged-chr17-34931241-4	chr17	34931141	34931341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010893)	promoter-TSS (NM_010893)	-12.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	224.0	418.0	223.5	2931.0	613.0	247.5	279.0	192.5
Merged-chr2-6442513-4	chr2	6442428	6442628	+	954.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001080548, exon 15 of 15)	3' UTR (NM_001080548, exon 15 of 15)	89792.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	11.0	15.5	29.5	367.5	38.5	4.0	14.5	24.0
Merged-chr11-103413320-3	chr11	103413244	103413444	+	889.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183034)	promoter-TSS (NM_183034)	-680.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	11.0	10.5	6.5	134.0	17.5	6.0	4.5	14.5
Merged-chr8-46868897-4	chr8	46868803	46869003	+	760.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117984.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	5.0	25.0	14.5	103.5	24.0	6.0	7.0	10.0
Merged-chr12-17591433-1	chr12	17591333	17591533	+	820.0	f0_c57.idr	Intergenic	MYSERV-int|LTR|ERVK	46560.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	0.0	2.0	0.0	0.0	8.5	7.5	16.0	20.0
Merged-chr8-116951113-4	chr8	116951016	116951216	+	947.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177700, intron 1 of 3)	intron (NM_177700, intron 1 of 3)	7723.0	NM_177700	234776.0	Mm.259736	NM_177700	ENSMUSG00000047388	Atmin	Asciz|gpg6|mKIAA0431	ATM interactor	protein-coding	11.0	24.5	14.0	339.5	30.5	8.5	18.0	18.5
Merged-chr12-116620066-4	chr12	116619891	116620091	+	886.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011215, intron 2 of 22)	intron (NM_011215, intron 2 of 22)	134271.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	2.0	12.0	7.0	96.5	17.5	5.5	10.0	20.5
Merged-chr15-74955371-9	chr15	74955331	74955531	+	956.8037109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164036, exon 1 of 4)	5' UTR (NM_001164036, exon 1 of 4)	325.0	NM_001164040	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	7.0	13.5	15.5	210.0	18.5	6.0	8.0	13.0
Merged-chr4-139249456-4	chr4	139249357	139249557	+	761.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 2 of 9)	intron (NM_001037761, intron 2 of 9)	55346.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	9.0	7.5	8.0	186.0	15.5	4.0	12.5	16.5
Merged-chr9-106362153-1	chr9	106362053	106362253	+	562.0	f0_c57.idr	Intergenic	RSINE1|SINE|B4	-6479.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	1.0	2.0	0.0	1.5	30.0	6.5	7.5	7.5
Merged-chr6-145517161-2	chr6	145517057	145517257	+	711.166626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-82232.0	NM_028742	74071.0	Mm.441497	NM_028742	ENSMUSG00000054966	Lmntd1	4933403M22Rik|AI482300|Ifltd1|Lmna-rs1|Lmna1	lamin tail domain containing 1	protein-coding	7.5	11.5	12.5	250.0	1.5	0.0	0.5	0.0
Merged-chr10-41933060-4	chr10	41933004	41933204	+	882.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 12 of 17)	intron (NM_001034858, intron 12 of 17)	45665.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	9.5	10.0	9.5	192.5	13.5	11.5	17.0	11.5
Merged-chr14-19986891-4	chr14	19986817	19987017	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9668.0	NM_001285909	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	49.5	30.0	33.5	527.0	54.5	15.0	35.5	34.0
Merged-chr19-6952445-4	chr19	6952349	6952549	+	876.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007522)	TTS (NM_007522)	9887.0	NM_001285453	12015.0	Mm.4387	NM_007522	ENSMUSG00000024959	Bad	AI325008|Bbc2	BCL2-associated agonist of cell death	protein-coding	9.0	20.0	5.0	88.0	20.0	10.0	7.0	8.0
Merged-chr15-97338045-3	chr15	97337933	97338133	+	900.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	RMER17C|LTR|ERVK	-90746.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	3.5	6.0	3.5	81.5	24.5	17.5	27.5	16.5
Merged-chr4-53218901-3	chr4	53218809	53219009	+	953.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27287.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	20.5	14.5	23.5	200.5	16.0	2.5	4.0	3.5
Merged-chr9-102522513-3	chr9	102522425	102522625	+	862.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024291, intron 4 of 10)	intron (NM_024291, intron 4 of 10)	16387.0	NM_024291	16716.0	Mm.101692	NM_024291	ENSMUSG00000035606	Ky	CD1|D9Mgc44e|ky	kyphoscoliosis peptidase	protein-coding	10.0	12.0	7.5	138.5	31.0	4.5	6.5	4.5
Merged-chr13-107676578-4	chr13	107676469	107676669	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER121|DNA|TcMar?	-10828.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	19.0	35.5	29.5	465.5	25.5	16.0	24.5	22.5
Merged-chr12-105981576-3	chr12	105981483	105981683	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-28680.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	2.0	1.0	0.0	6.5	56.5	37.0	25.5	24.0
Merged-chr2-84592950-4	chr2	84592840	84593040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56540.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	52.5	44.0	37.5	1003.0	66.0	27.0	42.5	43.0
Merged-chr2-124574115-8	chr2	124574027	124574227	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-36169.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	15.5	11.5	13.5	68.5	18.5	7.0	9.5	13.5
Merged-chr2-34803203-2	chr2	34803103	34803303	+	709.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-3291.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	6.0	4.5	6.0	13.0	8.5	3.5	1.5	6.5
Merged-chr5-25099731-3	chr5	25099602	25099802	+	870.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	CpG	940.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	11.5	9.5	9.0	157.0	4.5	5.5	3.5	8.5
Merged-chr1-91053003-4	chr1	91052914	91053114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310732)	promoter-TSS (NM_001310732)	-430.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	177.5	293.5	234.0	2307.5	366.5	130.5	235.5	129.5
Merged-chr4-129496799-4	chr4	129496717	129496917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5627.0	NM_001085491	68233.0	Mm.424983	NM_001085491	ENSMUSG00000078554	Fam229a	1700125D06Rik	family with sequence similarity 229, member A	protein-coding	86.5	166.5	93.5	646.5	325.5	90.0	98.5	85.0
Merged-chr1-131827932-4	chr1	131827847	131828047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173865)	promoter-TSS (NM_173865)	-65.0	NM_173865	98396.0	Mm.389181	NM_173865	ENSMUSG00000013275	Slc41a1	AI573938|B230315F01Rik	solute carrier family 41, member 1	protein-coding	168.0	206.0	133.5	1989.0	310.0	150.0	135.0	134.5
Merged-chr2-22749995-4	chr2	22749912	22750112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24315.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	55.5	71.5	44.5	793.5	123.5	41.5	70.0	60.0
Merged-chr5-123662241-4	chr5	123662142	123662342	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	intron (NM_001359224, intron 1 of 18)	22119.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	27.0	37.5	26.5	356.0	36.0	13.5	24.5	29.5
Merged-chr2-79180948-4	chr2	79180826	79181026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74500.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	36.5	38.0	48.0	599.5	53.5	22.0	25.5	29.5
Merged-chr9-102521540-4	chr9	102521450	102521650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024291, intron 4 of 10)	ORR1E|LTR|ERVL-MaLR	15412.0	NM_024291	16716.0	Mm.101692	NM_024291	ENSMUSG00000035606	Ky	CD1|D9Mgc44e|ky	kyphoscoliosis peptidase	protein-coding	36.5	83.5	77.0	866.0	127.5	47.0	70.5	40.0
Merged-chr3-145750533-4	chr3	145750430	145750630	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-8162.0	NM_026993	69219.0	Mm.234247	NM_026993	ENSMUSG00000028194	Ddah1	2410006N07Rik|2510015N06Rik|AI987801|AW050362	dimethylarginine dimethylaminohydrolase 1	protein-coding	24.5	36.0	16.5	216.5	42.5	18.0	15.5	9.0
Merged-chr1-135669999-4	chr1	135669903	135670103	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50060.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	30.5	30.5	29.0	417.0	44.5	15.5	27.5	47.5
Merged-chr17-25332482-4	chr17	25332365	25332565	+	984.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13097.0	NM_031187	100503895.0	Mm.3301	NM_031187	ENSMUSG00000024173	Tpsab1	MMCP-7|Mcp-7|Mcp7|Mcpt7	tryptase alpha/beta 1	protein-coding	19.0	23.0	11.5	261.5	71.5	20.5	33.5	49.5
Merged-chr10-50657524-4	chr10	50657425	50657625	+	976.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 11 of 41)	intron (NM_198007, intron 11 of 41)	64856.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	17.5	39.0	10.5	319.5	73.5	23.0	46.0	35.5
Merged-chr15-7129972-3	chr15	7129888	7130088	+	888.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358593, intron 1 of 19)	CpG	416.0	NM_001358593	16880.0	Mm.149720	NM_013584	ENSMUSG00000054263	Lifr	A230075M04Rik|AW061234|LIF	leukemia inhibitory factor receptor	protein-coding	10.5	5.0	7.0	108.0	31.5	4.0	13.5	14.5
Merged-chr4-150546922-3	chr4	150546824	150547024	+	880.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	105250.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	12.5	8.0	13.0	256.0	8.5	1.0	6.5	7.5
Merged-chr17-31058936-4	chr17	31058843	31059043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 1 of 14)	intron (NM_009593, intron 1 of 14)	1249.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	83.0	160.5	122.0	1674.5	159.0	45.5	69.0	82.5
Merged-chr11-73324649-4	chr11	73324542	73324742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023113)	promoter-TSS (NM_023113)	-5.0	NM_023113	11484.0	Mm.293574	NM_023113	ENSMUSG00000020774	Aspa	Acy-2|Acy2|nur7	aspartoacylase	protein-coding	75.0	110.0	79.0	1211.5	198.5	63.5	77.5	85.5
Merged-chr9-43096488-1	chr9	43096388	43096588	+	582.0	f0_balb.idr	intron (NM_001359232, intron 1 of 40)	intron (NM_001359232, intron 1 of 40)	9230.0	NM_001359232	69632.0	Mm.275266	NM_027144	ENSMUSG00000059495	Arhgef12	2310014B11Rik|AU019857|Larg|mKIAA0382	Rho guanine nucleotide exchange factor (GEF) 12	protein-coding	4.5	5.0	9.0	86.0	21.5	3.0	5.5	8.0
Merged-chr8-105453459-4	chr8	105453383	105453583	+	807.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033371, intron 6 of 10)	intron (NM_001033371, intron 6 of 10)	17939.0	NM_026481	67971.0	Mm.29358	NM_026481	ENSMUSG00000014846	Tppp3	2700055K07Rik|CGI-38|Ceacam9|mmCGM8	tubulin polymerization-promoting protein family member 3	protein-coding	17.0	15.5	11.0	132.5	28.5	9.0	6.0	6.5
Merged-chr1-172004608-3	chr1	172004479	172004679	+	953.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_033509, exon 8 of 8)	3' UTR (NM_033509, exon 8 of 8)	22716.0	NM_033509	93840.0	Mm.36148	NM_033509	ENSMUSG00000026556	Vangl2	C530001F03Rik|Lootl|Lp|Lpp1|Ltap|Vang1l2|loop-tail|ska17|ska<m17Jus>|stbm|strabismus	VANGL planar cell polarity 2	protein-coding	20.5	21.0	15.5	154.5	11.0	12.5	5.0	3.5
Merged-chr13-119835752-4	chr13	119835657	119835857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5540.0	NM_001001449	380878.0	Mm.327311	NM_001001449	ENSMUSG00000094237	AF067063	-	cDNA sequence AF067063	protein-coding	92.5	120.5	50.5	762.5	214.0	97.5	77.5	78.0
Merged-chr2-166826976-4	chr2	166826889	166827089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085495, intron 2 of 38)	intron (NM_001085495, intron 2 of 38)	21408.0	NM_001085495	99371.0	Mm.297192	NM_001085495	ENSMUSG00000074582	Arfgef2	AI463430|AW493672|BIG2|E230011G24Rik	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	protein-coding	29.0	40.0	32.5	627.5	100.5	23.5	43.0	39.0
Merged-chr7-83396399-3	chr7	83396311	83396511	+	750.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-188520.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	5.5	9.0	13.5	78.0	15.0	6.0	12.5	9.5
Merged-chr5-140116892-2	chr5	140116792	140116992	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359025, intron 14 of 17)	intron (NM_001359025, intron 14 of 17)	58026.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	1.5	6.0	5.5	88.0	14.5	7.0	10.0	8.5
Merged-chr1-171617092-4	chr1	171616988	171617188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9678.0	NM_001277968	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	151.5	230.0	140.5	1884.0	296.5	112.5	115.0	108.5
Merged-chr4-103114740-4	chr4	103114626	103114826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146254)	promoter-TSS (NM_146254)	336.0	NM_001286222	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	94.0	114.5	115.0	1174.0	249.0	137.5	127.0	104.0
Merged-chr13-37827864-4	chr13	37827753	37827953	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	CpG	460.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	19.0	14.0	25.5	275.0	27.0	17.0	6.5	26.5
Merged-chr1-59238123-4	chr1	59238032	59238232	+	836.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028717)	promoter-TSS (NM_028717)	-901.0	NM_028717	74018.0	Mm.272078	NM_028717	ENSMUSG00000026024	Als2	3222402C23Rik|9430073A21Rik|Als2cr6|Alsin|mKIAA1563	alsin Rho guanine nucleotide exchange factor	protein-coding	15.5	13.5	7.0	190.5	24.5	19.5	10.5	24.0
Merged-chr7-100159705-4	chr7	100159623	100159823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026010, exon 1 of 2)	exon (NM_026010, exon 1 of 2)	446.0	NM_026010	67164.0	Mm.46777	NM_026010	ENSMUSG00000030725	Lipt2	2610209A20Rik	lipoyl(octanoyl) transferase 2 (putative)	protein-coding	115.0	153.5	91.5	1331.0	194.5	78.0	104.0	70.0
Merged-chr7-24389645-4	chr7	24389531	24389731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9997.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	29.0	28.0	19.0	383.0	244.5	89.5	119.5	84.5
Merged-chr7-16426321-4	chr7	16426163	16426363	+	880.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198631, intron 10 of 13)	intron (NM_198631, intron 10 of 13)	25067.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	6.5	20.0	12.0	229.0	20.5	7.5	16.5	12.5
Merged-chr6-116172655-4	chr6	116172538	116172738	+	848.287476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	L1VL4|LINE|L1	20736.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	17.5	15.5	21.0	53.5	42.5	3.0	11.0	13.0
Merged-chr4-56946822-4	chr4	56946717	56946917	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175518, intron 1 of 17)	CpG	612.0	NM_175518	242474.0	Mm.296632	NM_175518	ENSMUSG00000055296	Tmem245	A630051L19Rik|AI957324|D730040F13Rik	transmembrane protein 245	protein-coding	27.0	29.0	46.5	564.5	40.0	15.0	19.0	39.5
Merged-chr10-94381817-3	chr10	94381719	94381919	+	860.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	69870.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	5.0	8.5	7.0	122.0	27.5	11.5	10.0	2.5
Merged-chr5-101826691-4	chr5	101826597	101826797	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	61567.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	12.5	32.0	12.0	260.0	35.5	17.5	17.5	31.5
Merged-chr3-89246937-3	chr3	89246855	89247055	+	587.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310625, intron 2 of 4)	intron (NM_001310625, intron 2 of 4)	482.0	NM_001310625	66059.0	Mm.177991	NM_025327	ENSMUSG00000042747	Krtcap2	0610010I12Rik|Kcp2	keratinocyte associated protein 2	protein-coding	5.5	4.0	8.5	90.5	13.5	5.5	5.5	6.5
Merged-chr6-123260381-3	chr6	123260303	123260503	+	957.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1704.0	NM_001163161	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	20.0	20.5	11.0	151.0	11.5	3.5	6.5	4.0
Merged-chr7-25757341-2	chr7	25757241	25757441	+	808.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001190974, exon 19 of 19)	3' UTR (NM_001190974, exon 19 of 19)	-2582.0	NM_178089	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	4.5	1.5	0.0	33.0	5.5	8.0	4.5	7.0
Merged-chr16-91561241-4	chr16	91561134	91561334	+	841.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 5 of 6)	intron (NM_008338, intron 5 of 6)	14140.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	6.5	15.0	4.5	88.5	29.0	3.5	13.0	17.5
Merged-chr9-44170174-4	chr9	44170085	44170285	+	769.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 3 of 15)	intron (NM_007619, intron 3 of 15)	35527.0	NM_001359530	84004.0	Mm.275003	NM_023061	ENSMUSG00000032135	Mcam	1-gicerin|AV025631|CD146|CD149|Muc18|s-endo|s-gicerin	melanoma cell adhesion molecule	protein-coding	23.5	27.0	12.0	121.5	29.0	12.5	9.0	2.0
Merged-chr6-115601921-4	chr6	115601824	115602024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023290)	promoter-TSS (NM_023290)	-14.0	NM_023290	67027.0	Mm.101316	NM_023290	ENSMUSG00000000439	Mkrn2	2610002L04Rik|C81377	makorin, ring finger protein, 2	protein-coding	65.0	91.0	63.5	645.5	171.0	62.0	75.5	71.0
Merged-chr2-83767103-4	chr2	83766970	83767170	+	908.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 8 of 29)	intron (NM_008402, intron 8 of 29)	42673.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	9.0	6.0	5.0	180.5	42.0	12.5	8.5	13.5
Merged-chr4-116557082-4	chr4	116556980	116557180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029868)	promoter-TSS (NM_029868)	-647.0	NM_029868	77110.0	Mm.41715	NM_029868	ENSMUSG00000034042	Gpbp1l1	5330440M15Rik|BC002292	GC-rich promoter binding protein 1-like 1	protein-coding	31.0	58.0	42.5	529.5	142.5	45.0	38.5	49.5
Merged-chr2-153168339-4	chr2	153168235	153168435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	intron (NM_133847, intron 1 of 17)	7034.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	52.0	58.0	76.5	592.5	114.0	42.0	38.0	28.0
Merged-chr3-27711306-4	chr3	27711208	27711408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173182)	promoter-TSS (NM_173182)	-856.0	NM_173182	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	74.5	153.5	70.5	776.5	178.5	79.0	75.5	55.5
Merged-chr12-85455350-4	chr12	85455245	85455445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18545.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	277.5	454.5	296.0	3145.5	692.0	348.5	296.5	284.5
Merged-chr10-17275416-4	chr10	17275315	17275515	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179633.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	24.5	19.0	21.0	622.0	31.0	12.5	16.5	24.0
Merged-chr11-106770443-3	chr11	106770380	106770580	+	946.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_148431, intron 7 of 7)	B3|SINE|B2	8986.0	NM_001353435	50776.0	Mm.859	NM_015810	ENSMUSG00000020718	Polg2	mtPolB|p55|polG-beta	polymerase (DNA directed), gamma 2, accessory subunit	protein-coding	5.5	18.5	8.0	73.5	21.5	8.5	7.0	4.0
Merged-chr1-155224366-4	chr1	155224271	155224471	+	940.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65668.0	NM_021433	58244.0	Mm.66264	NM_021433	ENSMUSG00000026470	Stx6	2310039E05Rik|2410005I16Rik|AA437559|AI415714|AI845861	syntaxin 6	protein-coding	14.0	32.5	20.0	302.0	31.0	17.0	36.5	10.5
Merged-chr6-125351497-4	chr6	125351405	125351605	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	1782.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	17.0	20.5	11.5	282.5	129.5	23.5	58.0	24.5
Merged-chr1-150372112-3	chr1	150372010	150372210	+	836.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145511, exon 12 of 14)	exon (NM_145511, exon 12 of 14)	-20728.0	NM_133780	108989.0	Mm.174256	NM_133780	ENSMUSG00000006005	Tpr	2610029M07Rik|C77892	translocated promoter region, nuclear basket protein	protein-coding	18.5	29.5	15.0	412.0	2.0	0.0	3.0	3.0
Merged-chr4-147809799-4	chr4	147809703	147809903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127189)	promoter-TSS (NM_001127189)	-15.0	NM_001127189	100041677.0	Mm.327194	NM_001127189	ENSMUSG00000078495	Zfp984	Gm13157	zinc finger protein 984	protein-coding	85.0	150.0	73.0	473.0	280.5	123.5	124.5	82.0
Merged-chr10-9718228-4	chr10	9718125	9718325	+	878.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33503.0	NR_038036	620417.0	Mm.378085	NR_038036	ENSMUSG00000111901	Gm6150	-	predicted gene 6150	ncRNA	10.5	28.5	15.5	318.0	24.5	16.5	15.5	18.0
Merged-chr5-62858661-4	chr5	62858555	62858755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 7 of 8)	intron (NM_001170705, intron 7 of 8)	44832.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	152.5	168.0	159.5	1647.5	233.5	127.5	94.0	99.5
Merged-chr1-118389981-4	chr1	118389882	118390082	+	891.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 1 of 39)	intron (NM_001359330, intron 1 of 39)	924.0	NM_001359334	76707.0	Mm.138740	NM_029709	ENSMUSG00000064302	Clasp1	1700030C23Rik|5730583A19Rik|B130045P17Rik|CLASP1alpha	CLIP associating protein 1	protein-coding	10.0	15.0	16.0	169.5	22.0	12.5	7.0	18.5
Merged-chr18-6515092-4	chr18	6515000	6515200	+	799.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007935, intron 1 of 13)	intron (NM_007935, intron 1 of 13)	1008.0	NM_007935	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	10.5	26.0	4.5	184.0	29.0	9.0	6.0	7.0
Merged-chr18-38298177-4	chr18	38298064	38298264	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361267, intron 2 of 9)	intron (NM_001361267, intron 2 of 9)	1359.0	NM_001164621	56736.0	Mm.228903	NM_020012	ENSMUSG00000060450	Rnf14	2310075C09Rik|2610005D23Rik|AA986456|AU041447|D18Ertd188e|D7Bwg0165e|Triad2	ring finger protein 14	protein-coding	17.5	13.5	5.5	112.5	40.5	7.5	7.0	17.0
Merged-chr11-70675265-1	chr11	70675165	70675365	+	761.75	f0_balb.idr	intron (NM_001190379, intron 12 of 20)	intron (NM_001190379, intron 12 of 20)	-5849.0	NM_001167669	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	22.5	9.0	17.5	142.5	17.0	8.5	7.5	8.5
Merged-chr2-30545258-4	chr2	30545157	30545357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-49787.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	26.0	37.5	29.0	357.5	120.0	35.0	27.5	45.5
Merged-chr18-38352254-4	chr18	38352153	38352353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-13260.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	68.0	60.0	37.0	619.5	122.0	45.5	54.0	53.0
Merged-chr14-70062299-5	chr14	70062297	70062497	+	977.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15048.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	31.0	85.0	77.5	421.0	124.5	39.0	47.5	52.5
Merged-chr14-103115555-4	chr14	103115467	103115667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 84 of 84)	intron (NM_207215, intron 84 of 84)	-16001.0	NM_001360342	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	54.5	88.5	31.0	519.5	138.0	37.0	47.5	31.0
Merged-chr5-114647805-3	chr5	114647707	114647907	+	912.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022017, intron 1 of 15)	intron (NM_022017, intron 1 of 15)	10614.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	9.0	13.0	10.0	132.5	16.5	9.0	5.5	11.5
Merged-chr17-56858422-3	chr17	56858352	56858552	+	898.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039114, intron 6 of 14)	intron (NM_001039114, intron 6 of 14)	15995.0	NM_001039114	328845.0	Mm.179421	NM_001039114	ENSMUSG00000024207	Acsbg2	Bgr	acyl-CoA synthetase bubblegum family member 2	protein-coding	3.0	10.0	4.0	73.5	14.0	13.5	7.0	20.0
Merged-chr6-129098040-4	chr6	129097949	129098149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153506, intron 2 of 4)	intron (NM_153506, intron 2 of 4)	2854.0	NM_153506	232409.0	Mm.30870	NM_153506	ENSMUSG00000030155	Clec2e	Clra|clr-a	C-type lectin domain family 2, member e	protein-coding	47.0	37.0	27.0	544.5	97.5	44.5	24.5	52.5
Merged-chr6-125071887-4	chr6	125071783	125071983	+	952.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163268, intron 1 of 1)	intron (NM_001163268, intron 1 of 1)	606.0	NM_001163268	381810.0	Mm.333386	NM_001163268	ENSMUSG00000067714	Lpar5	GPR93|Gm1072|Gpr92|LPA5	lysophosphatidic acid receptor 5	protein-coding	20.5	18.5	22.5	273.5	39.0	14.5	16.0	28.5
Merged-chr4-121018423-4	chr4	121018335	121018535	+	936.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1188.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	26.0	50.0	34.5	502.5	43.0	24.5	13.0	11.5
Merged-chr1-160441360-4	chr1	160441248	160441448	+	941.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013862, intron 17 of 20)	intron (NM_013862, intron 17 of 20)	-89777.0	NM_001038621	29809.0	Mm.25833	NM_013862	ENSMUSG00000026721	Rabgap1l	5830411O09Rik|8430421H08Rik|9630005B12Rik|AW049894|HHL|Hh1|mKIAA0471	RAB GTPase activating protein 1-like	protein-coding	19.0	17.0	14.0	411.0	32.0	16.5	31.5	19.0
Merged-chr10-93268524-4	chr10	93268435	93268635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001322265, intron 2 of 4)	L1MB3|LINE|L1	42624.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	80.5	102.0	85.0	1206.5	140.0	73.0	73.0	72.0
Merged-chr5-99202816-10	chr5	99202631	99202831	+	896.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50196.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	19.5	14.0	5.5	179.0	38.0	16.0	8.0	17.0
Merged-chr4-99126991-4	chr4	99126896	99127096	+	856.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-6081.0	NM_026082	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	11.5	25.5	16.0	452.0	44.5	10.5	12.5	19.0
Merged-chr6-35028483-4	chr6	35028378	35028578	+	849.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164413, intron 10 of 11)	intron (NM_001164413, intron 10 of 11)	-50479.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	5.0	12.5	14.0	150.0	22.5	14.0	14.0	18.0
Merged-chr12-31634045-4	chr12	31633933	31634133	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007530, intron 1 of 6)	RSINE1|SINE|B4	564.0	NM_007530	12033.0	Mm.242379	NM_007530	ENSMUSG00000020650	Bcap29	AW208404|Bap29	B cell receptor associated protein 29	protein-coding	14.5	21.5	19.5	239.0	42.0	14.5	22.0	15.0
Merged-chr2-173738302-4	chr2	173738192	173738392	+	941.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019806, intron 1 of 5)	intron (NM_019806, intron 1 of 5)	721.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	9.5	6.0	16.0	216.5	37.5	15.0	10.5	26.0
Merged-chr7-4510031-4	chr7	4509922	4510122	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011618, exon 8 of 14)	exon (NM_011618, exon 8 of 14)	5953.0	NM_001277903	21955.0	Mm.358643	NM_011618	ENSMUSG00000064179	Tnnt1	AW146156|Tnt|sTnT|ssTnT	troponin T1, skeletal, slow	protein-coding	20.5	49.5	16.0	312.5	51.5	23.0	47.5	13.5
Merged-chr19-5848233-4	chr19	5848151	5848351	+	939.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2771.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	12.5	19.0	27.0	180.5	25.0	7.5	12.5	15.5
Merged-chr17-47694925-4	chr17	47694847	47695047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290337)	promoter-TSS (NM_001290337)	-211.0	NM_001290337	381104.0	Mm.392206	NM_001290337	ENSMUSG00000096549	Prickle4	Gm939	prickle planar cell polarity protein 4	protein-coding	195.0	275.5	192.0	2513.5	384.5	173.0	193.5	145.0
Merged-chr3-68952219-3	chr3	68952064	68952264	+	871.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026641, intron 8 of 19)	RLTR45|LTR|ERVK	52406.0	NM_026641	68259.0	Mm.389451	NM_026641	ENSMUSG00000027778	Ift80	4921524P20Rik|Wdr56|mKIAA1374	intraflagellar transport 80	protein-coding	8.5	10.0	5.5	84.0	13.5	7.5	7.5	11.5
Merged-chr17-32193186-4	chr17	32193088	32193288	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-3718.0	NM_001347341	71932.0	Mm.176240	NM_001033163	ENSMUSG00000037577	Ephx3	2310063B19Rik|Abhd9|EH3	epoxide hydrolase 3	protein-coding	5.0	16.0	8.5	167.0	30.5	7.0	23.0	19.5
Merged-chr17-36044952-4	chr17	36044867	36045067	+	877.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034909, intron 1 of 2)	MLT1F1|LTR|ERVL-MaLR	2006.0	NM_001034909	547347.0	Mm.484641	NM_001034909	ENSMUSG00000073407	Gm6034	EG547347|H2-gs14-2	predicted gene 6034	protein-coding	13.0	16.5	6.5	60.5	33.0	7.0	11.5	5.0
Merged-chr16-11323519-4	chr16	11323424	11323624	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 1 of 20)	intron (NM_028964, intron 1 of 20)	620.0	NM_028964	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	5.0	9.0	4.0	147.5	13.5	7.0	10.0	10.0
Merged-chr11-69935667-6	chr11	69935627	69935827	+	944.922241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347634)	promoter-TSS (NM_001347634)	-172.0	NM_016875	53422.0	Mm.29286	NM_016875	ENSMUSG00000018554	Ybx2	Msy2	Y box protein 2	protein-coding	11.0	13.0	7.5	196.5	33.0	12.0	15.0	18.0
Merged-chr9-94361382-3	chr9	94361301	94361501	+	798.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176680.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	2.0	2.0	10.0	86.5	18.0	15.5	10.0	6.5
Merged-chr18-39265274-4	chr18	39265167	39265367	+	861.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 17 of 21)	intron (NM_001361073, intron 17 of 21)	221978.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	9.0	17.0	19.5	187.5	17.5	6.0	12.5	8.5
Merged-chr11-22672108-3	chr11	22671967	22672167	+	676.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	159784.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	1.0	18.0	2.5	91.0	11.0	6.0	8.0	4.5
Merged-chr19-9931283-4	chr19	9931175	9931375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31742.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	163.0	216.5	186.5	1860.5	340.5	134.5	149.5	141.5
Merged-chr1-15805586-4	chr1	15805497	15805697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152944)	promoter-TSS (NR_152944)	-49.0	NM_009352	21749.0	Mm.4306	NM_009352	ENSMUSG00000025925	Terf1	Pin2|Trbf1|Trf1	telomeric repeat binding factor 1	protein-coding	180.0	257.0	177.5	3492.0	545.0	196.5	281.0	189.0
Merged-chr10-62506387-4	chr10	62506271	62506471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	intron (NM_001358965, intron 2 of 3)	1386.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	117.5	244.5	157.0	2681.5	394.5	119.5	165.5	166.0
Merged-chr1-182562804-4	chr1	182562709	182562909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2198.0	NM_001145806	170725.0	Mm.189201	NM_130890	ENSMUSG00000038599	Capn8	nCL-2|nCL-2'	calpain 8	protein-coding	52.5	68.0	52.0	1016.0	124.5	23.0	62.0	43.0
Merged-chr14-122601824-3	chr14	122601733	122601933	+	749.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 6 of 24)	intron (NR_153443, intron 6 of 24)	67505.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	5.5	6.5	15.5	145.5	6.5	5.0	10.0	5.0
Merged-chr15-98534343-4	chr15	98534222	98534422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289437)	promoter-TSS (NM_001289437)	-53.0	NR_153345	69612.0	Mm.229107	NM_133714	ENSMUSG00000022992	Kansl2	2310037I24Rik|B930009D17	KAT8 regulatory NSL complex subunit 2	protein-coding	152.5	314.5	142.0	2713.0	507.5	176.5	232.5	203.5
Merged-chr4-3913643-4	chr4	3913538	3913738	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019969, intron 2 of 5)	intron (NM_019969, intron 2 of 5)	24767.0	NM_019969	56711.0	Mm.331467	NM_019969	ENSMUSG00000003282	Plag1	-	pleiomorphic adenoma gene 1	protein-coding	25.5	14.0	12.5	352.0	50.0	9.5	15.5	19.5
Merged-chr16-24826574-4	chr16	24826456	24826656	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 8 of 12)	intron (NM_178665, intron 8 of 12)	104701.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	17.0	48.0	12.0	237.0	39.0	11.5	20.5	13.0
Merged-chr1-84350454-4	chr1	84350349	84350549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65804.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	183.5	234.5	250.0	3503.0	364.5	165.5	214.5	178.5
Merged-chr11-8597094-4	chr11	8597006	8597206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 3 of 30)	intron (NM_001083587, intron 3 of 30)	67429.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	104.0	126.5	106.5	1495.0	193.0	76.0	61.5	105.5
Merged-chr3-8747351-4	chr3	8747257	8747457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-80319.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	72.0	99.0	83.5	1167.0	120.5	52.0	76.5	68.5
Merged-chr13-41603579-4	chr13	41603459	41603659	+	941.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2657.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	11.5	16.5	10.5	89.5	24.0	11.5	13.5	10.0
Merged-chr11-32554193-4	chr11	32554108	32554308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	URR1B|DNA|hAT-Charlie	20942.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	84.0	127.0	70.5	978.0	212.5	78.0	79.5	74.5
Merged-chr17-72916015-2	chr17	72915918	72916118	+	883.416626	f0_balb.idr|f1_balb.idr	Intergenic	MIRc|SINE|MIR	-2287.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	16.5	24.5	20.0	371.5	4.5	1.0	4.5	4.0
Merged-chr8-80240105-3	chr8	80240010	80240210	+	846.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-182102.0	NM_020259	15245.0	Mm.254493	NM_020259	ENSMUSG00000064325	Hhip	Hhip1	Hedgehog-interacting protein	protein-coding	16.0	10.5	21.5	363.0	17.0	8.0	11.0	11.0
Merged-chr15-79742568-4	chr15	79742446	79742646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205345)	promoter-TSS (NM_001205345)	-10.0	NM_001205345	223697.0	Mm.202715	NM_194342	ENSMUSG00000042524	Sun2	B230369L08Rik|C030011B15|Unc84b	Sad1 and UNC84 domain containing 2	protein-coding	67.0	120.0	42.0	750.0	188.5	72.5	73.5	72.5
Merged-chr3-41042425-3	chr3	41042324	41042524	+	924.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	40622.0	NM_027558	70804.0	Mm.40321	NM_027558	ENSMUSG00000049940	Pgrmc2	4631434O19Rik|5730409G06Rik|DG6|PMBP	progesterone receptor membrane component 2	protein-coding	2.0	4.5	3.0	46.5	11.0	13.5	16.5	7.0
Merged-chr7-126502518-4	chr7	126502416	126502616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347658)	promoter-TSS (NM_001347658)	-91.0	NM_001347658	233871.0	Mm.231450	NM_183020	ENSMUSG00000032637	Atxn2l	A2D|A2LG|A2RP|A2lp|Atxnl2	ataxin 2-like	protein-coding	105.5	129.0	130.0	1418.0	266.5	105.0	129.5	132.0
Merged-chr9-26999625-4	chr9	26999545	26999745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144543)	promoter-TSS (NM_144543)	-32.0	NM_144543	77862.0	Mm.16925	NM_144543	ENSMUSG00000035443	Thyn1	D730042P09Rik|HSPC144|MDS012|MY105|Thy28	thymocyte nuclear protein 1	protein-coding	155.0	224.5	176.5	2989.0	403.0	116.5	215.0	128.5
Merged-chr18-69402193-4	chr18	69402107	69402307	+	892.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	intron (NM_001361128, intron 3 of 19)	56047.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	8.0	0.5	9.5	195.5	24.0	17.5	24.5	14.5
Merged-chr4-8915748-4	chr4	8915657	8915857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	164433.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	35.0	22.0	24.5	629.5	78.0	28.5	47.0	45.5
Merged-chr10-112002759-4	chr10	112002666	112002866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5502.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	31.5	34.0	39.0	1135.0	134.5	22.0	51.0	49.5
Merged-chr11-113684546-4	chr11	113684436	113684636	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138598)	promoter-TSS (NM_138598)	102.0	NM_001361593	276852.0	Mm.239566	NM_177777	ENSMUSG00000041623	D11Wsu47e	-	DNA segment, Chr 11, Wayne State University 47, expressed	protein-coding	18.0	20.0	19.5	185.5	42.0	22.5	15.0	24.0
Merged-chr5-99571165-4	chr5	99571065	99571265	+	985.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	157895.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	16.0	18.5	10.0	346.5	56.0	21.0	27.5	27.0
Merged-chr7-140845133-4	chr7	140845062	140845262	+	886.8273929999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099742)	promoter-TSS (NM_001099742)	-403.0	NM_001099742	338417.0	Mm.270960	NM_001099742	ENSMUSG00000038801	Scgb1c1	Ryd5	secretoglobin, family 1C, member 1	protein-coding	11.5	6.5	6.5	143.5	20.5	5.5	6.5	7.0
Merged-chr5-139381446-3	chr5	139381347	139381547	+	906.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	808.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	16.0	11.0	4.5	167.0	25.5	7.5	7.5	11.0
Merged-chr4-135618186-3	chr4	135618105	135618305	+	942.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8450.0	NR_015613	73937.0	Mm.292326	NM_028688	ENSMUSG00000086788	1700029M20Rik	4930406E24Rik	RIKEN cDNA 1700029M20 gene	ncRNA	0.5	6.0	4.0	72.0	32.0	21.5	26.5	14.5
Merged-chr13-54055636-3	chr13	54055543	54055743	+	861.138855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010076)	promoter-TSS (NM_010076)	15.0	NM_010076	13488.0	Mm.54161	NM_010076	ENSMUSG00000021478	Drd1	C030036C15Rik|Drd-1|Drd1a|Gpcr15	dopamine receptor D1	protein-coding	5.5	8.0	3.0	37.0	53.0	8.0	18.5	14.5
Merged-chr1-86381199-4	chr1	86381096	86381296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6945.0	NM_010341	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	31.0	51.5	45.5	597.0	94.5	34.5	35.5	37.0
Merged-chr1-59496113-4	chr1	59496018	59496218	+	949.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13971.0	NM_008057	14369.0	Mm.297906	NM_008057	ENSMUSG00000041075	Fzd7	Fz7	frizzled class receptor 7	protein-coding	40.5	39.0	32.0	424.0	68.5	11.0	15.0	26.0
Merged-chr5-145119666-4	chr5	145119571	145119771	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	intron (NM_023142, intron 1 of 9)	5415.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	9.0	23.5	13.0	56.0	38.0	16.5	7.5	10.0
Merged-chr11-113684100-4	chr11	113684009	113684209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138598)	promoter-TSS (NM_138598)	42.0	NM_138598	28081.0	Mm.351688	NM_138598	ENSMUSG00000041629	Fam104a	D11Wsu99e	family with sequence similarity 104, member A	protein-coding	97.0	133.0	97.5	1051.0	240.0	84.5	110.0	92.0
Merged-chr8-11486261-4	chr8	11486169	11486369	+	933.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7770.0	NM_011227	19332.0	Mm.37632	NM_011227	ENSMUSG00000031504	Rab20	AA536966|D8Ertd350e	RAB20, member RAS oncogene family	protein-coding	10.0	29.5	13.0	202.0	46.0	11.5	9.0	24.5
Merged-chr7-127745940-4	chr7	127745836	127746036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172748)	promoter-TSS (NM_172748)	-839.0	NM_172748	233902.0	Mm.259353	NM_172748	ENSMUSG00000030811	Fbxl19	6030430O11|BC059812|Fbl19	F-box and leucine-rich repeat protein 19	protein-coding	137.5	166.5	96.0	1568.0	358.5	137.5	165.5	160.0
Merged-chr4-125131485-7	chr4	125131420	125131620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3639.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	22.5	17.5	28.5	250.5	31.5	19.5	16.5	29.5
Merged-chr4-138013027-1	chr4	138012927	138013127	+	786.0	f0_balb.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	15202.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	10.5	8.5	8.0	178.5	0.0	2.0	1.0	1.0
Merged-chr3-84749430-3	chr3	84749339	84749539	+	914.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-66138.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	7.5	14.0	13.5	261.0	1.0	2.5	1.0	4.0
Merged-chr11-80489934-3	chr11	80489835	80490035	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177390, intron 21 of 21)	intron (NM_177390, intron 21 of 21)	12912.0	NM_009871	12569.0	Mm.142275	NM_009871	ENSMUSG00000048895	Cdk5r1	Cdk5r|D11Bwg0379e|p25|p35	cyclin-dependent kinase 5, regulatory subunit 1 (p35)	protein-coding	7.5	6.0	10.5	164.5	9.0	3.0	4.5	8.5
Merged-chr5-138187888-4	chr5	138187764	138187964	+	900.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009315)	promoter-TSS (NM_009315)	329.0	NM_178612	66455.0	Mm.24592	NM_178612	ENSMUSG00000036968	Cnpy4	2610019P18Rik	canopy FGF signaling regulator 4	protein-coding	9.0	18.0	11.0	152.0	23.5	13.0	10.5	8.5
Merged-chr12-111920227-3	chr12	111920134	111920334	+	670.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12179.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	5.0	7.0	16.0	136.5	10.0	1.0	7.0	13.0
Merged-chr1-92775500-3	chr1	92775397	92775597	+	798.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56148.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	4.5	9.5	9.5	110.5	6.5	0.5	5.0	8.5
Merged-chr4-119005142-4	chr4	119005013	119005213	+	834.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43146.0	NM_133892	100470.0	Mm.26698	NM_133892	ENSMUSG00000024903	Lao1	AW990848	L-amino acid oxidase 1	protein-coding	7.0	15.0	12.0	84.5	34.0	8.0	9.5	13.5
Merged-chr11-83717242-4	chr11	83717154	83717354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8250.0	NM_007969	14038.0	Mm.1650	NM_007969	ENSMUSG00000000983	Wfdc18	Expi|Kal1|WDNM1	WAP four-disulfide core domain 18	protein-coding	68.0	80.0	36.5	343.0	101.0	47.0	25.0	27.5
Merged-chr4-125127443-4	chr4	125127327	125127527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153159, intron 1 of 5)	intron (NM_153159, intron 1 of 5)	454.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	121.5	244.0	147.0	1531.5	417.5	185.0	180.0	110.0
Merged-chr5-123137806-4	chr5	123137710	123137910	+	963.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4383.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	19.5	42.0	20.0	411.0	28.5	16.0	26.0	22.0
Merged-chr1-75180432-4	chr1	75180309	75180509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023732)	promoter-TSS (NM_023732)	-17.0	NM_023732	74104.0	Mm.28663	NM_023732	ENSMUSG00000026198	Abcb6	1200005B17Rik	ATP-binding cassette, sub-family B (MDR/TAP), member 6	protein-coding	88.0	95.5	93.5	1544.5	189.0	70.5	125.0	58.0
Merged-chr17-87044588-4	chr17	87044508	87044708	+	992.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19047.0	NM_019936	56724.0	Mm.109329	NM_019936	ENSMUSG00000024146	Cript	1200020A08Rik|AA589469	cysteine-rich PDZ-binding protein	protein-coding	10.0	40.5	23.0	267.5	85.5	23.0	32.0	25.5
Merged-chr5-67302113-4	chr5	67301982	67302182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4873.0	NM_178651	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	43.0	57.0	46.5	662.5	107.0	44.5	42.0	46.5
Merged-chr14-16365706-4	chr14	16365596	16365796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009409, exon 1 of 36)	exon (NM_009409, exon 1 of 36)	490.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	47.5	53.0	60.5	775.5	120.0	32.5	80.5	55.5
Merged-chr12-110446496-4	chr12	110446341	110446541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135001)	promoter-TSS (NM_001135001)	-738.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	172.5	193.5	130.0	2150.5	272.0	111.5	158.5	107.0
Merged-chr13-42829102-4	chr13	42828965	42829165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005740, intron 1 of 12)	intron (NM_001005740, intron 1 of 12)	-37182.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	163.5	242.5	162.0	2613.5	406.5	145.5	218.5	183.5
Merged-chr17-63370099-4	chr17	63369998	63370198	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 5 of 8)	intron (NM_015794, intron 5 of 8)	-57125.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	19.0	47.0	29.0	381.0	73.0	18.0	31.5	19.5
Merged-chr7-139298685-3	chr7	139298577	139298777	+	940.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50195.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	17.5	11.5	8.0	241.5	19.0	6.5	8.0	16.5
Merged-chr5-102778028-3	chr5	102777936	102778136	+	821.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286468, intron 1 of 7)	intron (NM_001286468, intron 1 of 7)	9226.0	NM_001286468	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	6.5	11.0	13.0	193.0	22.5	5.0	5.5	9.5
Merged-chr6-94509034-1	chr6	94508934	94509134	+	579.0	f0_balb.idr	intron (NM_026255, intron 2 of 9)	intron (NM_026255, intron 2 of 9)	8720.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	8.5	7.0	5.5	85.5	8.5	2.0	9.0	6.0
Merged-chr10-93471597-4	chr10	93471413	93471613	+	878.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008517, intron 10 of 18)	intron (NM_008517, intron 10 of 18)	-17255.0	NM_010401	15109.0	Mm.13000	NM_010401	ENSMUSG00000020017	Hal	Hsd|his|histidase	histidine ammonia lyase	protein-coding	3.0	2.5	4.0	48.0	26.5	12.5	13.5	10.5
Merged-chr2-121484665-2	chr2	121484557	121484757	+	980.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10634.0	NM_001081975	100034361.0	Mm.270393	NM_001081975	ENSMUSG00000048222	Mfap1b	-	microfibrillar-associated protein 1B	protein-coding	6.5	10.5	7.0	85.0	8.5	1.0	7.5	8.0
Merged-chr7-29307908-4	chr7	29307801	29308001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013874, intron 1 of 11)	CpG	3896.0	NM_013874	29861.0	Mm.101885	NM_013874	ENSMUSG00000030584	Dpf1	Neud4	D4, zinc and double PHD fingers family 1	protein-coding	38.0	53.5	39.0	739.0	110.5	31.5	57.5	45.0
Merged-chr7-97251824-4	chr7	97251740	97251940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 2 of 9)	intron (NM_001162477, intron 2 of 9)	74124.0	NM_001177412	244144.0	Mm.297541	NM_001177412	ENSMUSG00000035713	Usp35	Gm1088|Gm493	ubiquitin specific peptidase 35	protein-coding	94.5	127.0	74.5	1344.5	154.0	54.5	92.5	71.0
Merged-chr6-39068865-4	chr6	39068802	39069002	+	696.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 9 of 12)	intron (NM_011539, intron 9 of 12)	-1316.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	13.0	12.0	9.5	171.0	15.0	8.0	6.5	17.0
Merged-chr11-75459769-2	chr11	75459669	75459869	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1770.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	2.0	18.0	6.0	36.5	13.5	6.0	4.5	10.5
Merged-chr2-24962414-4	chr2	24962325	24962525	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355558)	promoter-TSS (NM_001355558)	3.0	NM_026044	67228.0	Mm.389248	NM_026044	ENSMUSG00000026975	Dph7	2810443J12Rik|AW060693|Wdr85	diphthamine biosynethesis 7	protein-coding	17.5	37.0	12.0	287.0	38.0	18.5	21.5	31.0
Merged-chr4-149326020-4	chr4	149325920	149326120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8619.0	NR_131918	74310.0	Mm.440455	NR_131918	ENSMUSG00000085286	Ube4bos3	1700121F15Rik	ubiquitination factor E4B, opposite strand 3	ncRNA	24.0	70.0	30.0	400.0	72.0	34.0	30.5	33.0
Merged-chr16-32202306-3	chr16	32202204	32202404	+	984.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	22504.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	7.5	25.0	3.0	41.0	28.0	11.5	9.5	7.0
Merged-chr11-88989688-3	chr11	88989626	88989826	+	794.988892	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016706, intron 6 of 6)	intron (NM_016706, intron 6 of 6)	-9677.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	4.0	10.5	7.0	13.5	18.0	9.0	14.5	15.5
Merged-chr10-50690486-4	chr10	50690403	50690603	+	992.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 14 of 41)	MTC|LTR|ERVL-MaLR	97834.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	20.0	29.5	19.5	305.0	68.0	19.0	39.0	16.5
Merged-chr4-63307529-4	chr4	63307420	63307620	+	913.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025685, intron 36 of 60)	intron (NM_025685, intron 36 of 60)	-37036.0	NM_008768	18405.0	Mm.4777	NM_008768	ENSMUSG00000039196	Orm1	Agp-1|Agp-2|Orm-1	orosomucoid 1	protein-coding	18.0	17.0	14.0	307.5	24.5	7.0	11.5	11.0
Merged-chr7-110796803-4	chr7	110796693	110796893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009667, intron 6 of 14)	intron (NM_009667, intron 6 of 14)	24189.0	NM_009667	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	61.0	79.0	62.5	971.0	73.5	30.0	31.0	33.0
Merged-chr11-50208270-3	chr11	50208161	50208361	+	822.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290769, intron 1 of 7)	intron (NM_001290769, intron 1 of 7)	2559.0	NM_001290769	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	12.0	11.0	12.0	77.5	16.0	6.5	4.5	7.0
Merged-chr16-24643177-4	chr16	24643075	24643275	+	739.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-78680.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	15.5	16.0	9.0	85.0	23.0	13.5	7.0	10.5
Merged-chr11-58103502-2	chr11	58103400	58103600	+	813.833374	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356477)	promoter-TSS (NM_001356477)	-470.0	NM_026949	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	13.0	13.5	7.0	19.0	11.0	2.5	3.0	6.5
Merged-chr8-68212248-4	chr8	68212160	68212360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64268.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	36.0	23.0	41.5	963.5	61.0	21.0	37.0	37.0
Merged-chr10-118611228-4	chr10	118611129	118611329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54704.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	23.5	39.0	52.0	482.5	58.5	28.0	52.5	44.5
Merged-chr2-29125074-4	chr2	29124993	29125193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_198033, exon 1 of 26)	5' UTR (NM_198033, exon 1 of 26)	101.0	NM_198033	269254.0	Mm.41867	NM_198033	ENSMUSG00000043535	Setx	A130090N03|A930037J23Rik|AOA2|AW060766|Als4|SCAR1|Sen1|mKIAA0625	senataxin	protein-coding	135.5	210.5	112.5	1782.5	307.0	114.5	160.5	126.5
Merged-chr5-129501877-4	chr5	129501785	129501985	+	713.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359952, intron 1 of 17)	CpG	654.0	NM_172276	231769.0	Mm.288714	NM_172276	ENSMUSG00000029439	Sfswap	1190005N23Rik|6330437E22Rik|AI197402|AW212079|SWAP|Sfrs8|Srsf8	splicing factor SWAP	protein-coding	10.0	8.0	8.0	88.0	21.5	13.5	16.0	8.5
Merged-chr1-78703107-4	chr1	78703026	78703226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033606, intron 12 of 14)	intron (NM_001033606, intron 12 of 14)	44686.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	68.5	86.0	127.5	1781.0	41.0	23.5	62.0	45.5
Merged-chr6-113645050-4	chr6	113644933	113645133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 1 of 11)	intron (NM_001113553, intron 1 of 11)	6566.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	195.0	352.0	111.5	2335.5	436.5	230.5	217.5	161.0
Merged-chr9-110994867-4	chr9	110994779	110994979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152179, intron 2 of 6)	RMER17C2|LTR|ERVK	-5166.0	NM_153100	235636.0	Mm.441138	NM_153100	ENSMUSG00000066319	Rtp3	Tmem7	receptor transporter protein 3	protein-coding	27.5	86.0	29.5	582.0	102.5	34.5	43.0	31.0
Merged-chr9-118913234-4	chr9	118913137	118913337	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13299.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	41.0	31.5	31.0	422.5	58.5	24.0	33.0	16.0
Merged-chr15-58250191-4	chr15	58250074	58250274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-35282.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	131.0	219.5	145.5	1640.5	267.5	97.5	87.5	92.5
Merged-chr8-72144556-4	chr8	72144450	72144650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001491, intron 3 of 7)	intron (NM_001001491, intron 3 of 7)	9258.0	NM_001001491	326618.0	Mm.295124	NM_001001491	ENSMUSG00000031799	Tpm4	2610528G24Rik|Tpm4.2|Tpm4.2cy	tropomyosin 4	protein-coding	24.5	48.0	27.5	430.5	58.5	25.0	39.5	21.5
Merged-chr11-120489475-4	chr11	120489384	120489584	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027204)	TTS (NM_027204)	-2353.0	NM_013770	27376.0	Mm.3991	NM_013770	ENSMUSG00000025792	Slc25a10	Dic	solute carrier family 25 (mitochondrial carrier, dicarboxylate transporter), member 10	protein-coding	26.0	33.0	7.5	234.5	52.0	29.0	22.0	26.0
Merged-chr5-125306561-4	chr5	125306461	125306661	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	PB1D9|SINE|Alu	34533.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	17.0	24.0	7.0	282.0	41.0	13.0	17.5	21.5
Merged-chr1-138559973-3	chr1	138559867	138560067	+	881.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 2 of 9)	intron (NM_021605, intron 2 of 9)	59790.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	11.5	14.5	7.0	145.0	29.5	9.0	3.5	7.5
Merged-chr8-70354205-4	chr8	70354110	70354310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122829)	promoter-TSS (NM_001122829)	-931.0	NM_001122829	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	27.0	39.0	26.5	289.5	85.5	17.0	35.5	31.0
Merged-chr10-39134024-4	chr10	39133932	39134132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028006)	promoter-TSS (NM_028006)	9.0	NM_028006	71924.0	Mm.297956	NM_028006	ENSMUSG00000019845	Tube1	2310061K05Rik|AI551343|Tube	epsilon-tubulin 1	protein-coding	32.0	39.5	70.5	483.5	57.5	23.0	34.5	35.5
Merged-chr3-152555287-4	chr3	152555188	152555388	+	974.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355635, intron 6 of 8)	intron (NM_001355635, intron 6 of 8)	-111625.0	NR_040386	99542.0	Mm.394921	NR_040386	ENSMUSG00000097745	AI115009	-	expressed sequence AI115009	ncRNA	14.5	36.0	62.0	929.5	35.0	19.0	27.5	30.5
Merged-chr3-103859662-4	chr3	103859554	103859754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008979)	promoter-TSS (NM_008979)	-141.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	83.5	145.5	118.0	1229.5	205.0	84.5	116.0	61.0
Merged-chr1-192532452-3	chr1	192532368	192532568	+	853.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 11 of 11)	intron (NM_144881, intron 11 of 11)	238751.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	6.0	10.0	10.5	239.0	7.5	1.0	11.0	2.5
Merged-chr13-56352644-4	chr13	56352604	56352804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10196.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	38.0	38.5	51.0	459.0	43.5	31.5	23.5	28.0
Merged-chr8-108317702-4	chr8	108317614	108317814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD1|LINE|L1	266963.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	59.0	102.0	41.5	697.5	169.5	63.5	69.0	65.5
Merged-chr12-17544775-4	chr12	17544657	17544857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013614)	promoter-TSS (NM_013614)	-116.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	253.0	406.0	229.5	3381.5	646.5	247.0	316.5	233.5
Merged-chr5-114806180-4	chr5	114806066	114806266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026718)	TTS (NM_026718)	7810.0	NR_027818	66236.0	Mm.268546	NR_027817	ENSMUSG00000072694	1500011B03Rik	AI415201|AV141149|AW556386	RIKEN cDNA 1500011B03 gene	ncRNA	52.0	93.0	42.5	846.0	117.0	47.5	32.0	54.0
Merged-chr4-138972260-4	chr4	138972166	138972366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305423)	promoter-TSS (NM_001305423)	-17.0	NM_001305423	77056.0	Mm.122336	NM_029857	ENSMUSG00000041143	Tmco4	4632413C14Rik|AI430825	transmembrane and coiled-coil domains 4	protein-coding	48.5	96.0	44.5	622.5	132.5	54.0	52.5	44.5
Merged-chr18-82762799-4	chr18	82762692	82762892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3753.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	37.5	33.0	66.0	751.0	117.0	44.5	39.5	57.5
Merged-chr4-34765921-4	chr4	34765822	34766022	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-9663.0	NM_001033255	214568.0	Mm.297405	NM_001033255	ENSMUSG00000071015	Gm136	-	predicted gene 136	protein-coding	1.5	13.5	17.0	99.5	53.0	6.0	35.0	32.5
Merged-chr16-15636694-1	chr16	15636594	15636794	+	857.0	f0_c57.idr	exon (NM_008565, exon 2 of 16)	exon (NM_008565, exon 2 of 16)	706.0	NM_008565	17217.0	Mm.1500	NM_008565	ENSMUSG00000022673	Mcm4	19G|AI325074|AU045576|Cdc21|Mcmd4|mKIAA4003|mcdc21	minichromosome maintenance complex component 4	protein-coding	1.5	9.0	0.5	57.0	14.5	8.0	5.0	5.5
Merged-chr16-11385983-4	chr16	11385901	11386101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 4 of 20)	intron (NM_028964, intron 4 of 20)	-19647.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	87.0	163.5	100.5	1486.0	214.0	75.5	99.5	95.0
Merged-chr11-59948185-4	chr11	59948086	59948286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045273)	promoter-TSS (NR_045273)	-28.0	NM_138675	192191.0	Mm.125288	NM_138675	ENSMUSG00000061650	Med9	BC019367|Med25	mediator complex subunit 9	protein-coding	42.5	70.5	20.5	407.0	111.0	55.5	26.0	58.5
Merged-chr11-80043589-4	chr11	80043466	80043666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1M8|LINE|L1	37425.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	107.5	231.5	78.5	812.5	313.0	132.0	99.5	111.5
Merged-chr14-47276958-4	chr14	47276868	47277068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172598)	promoter-TSS (NM_172598)	-111.0	NM_172598	218973.0	Mm.265615	NM_172598	ENSMUSG00000037572	Wdhd1	A630092E18|AND-1|D630024B06Rik	WD repeat and HMG-box DNA binding protein 1	protein-coding	88.0	157.0	108.5	1326.5	269.0	114.0	105.0	116.5
Merged-chr16-21590499-3	chr16	21590415	21590615	+	687.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 44 of 46)	intron (NM_001081366, intron 44 of 46)	104150.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	10.5	4.5	6.5	127.5	11.5	1.5	2.5	4.0
Merged-chr10-128299951-4	chr10	128299847	128300047	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1863.0	NM_031252	83430.0	Mm.125482	NM_031252	ENSMUSG00000025383	Il23a	IL-23|p19	interleukin 23, alpha subunit p19	protein-coding	19.5	36.5	9.0	177.0	52.5	18.0	34.5	15.5
Merged-chr11-31812389-4	chr11	31812298	31812498	+	989.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102312, intron 1 of 4)	intron (NR_102312, intron 1 of 4)	12149.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	27.5	32.0	19.0	566.5	45.0	13.5	23.5	22.0
Merged-chr18-75740771-4	chr18	75740667	75740867	+	842.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43071.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	11.0	14.5	7.0	189.0	35.5	6.0	9.0	12.0
Merged-chr8-107572738-3	chr8	107572633	107572833	+	783.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	15749.0	NM_010817	17463.0	Mm.18347	NM_010817	ENSMUSG00000039067	Psmd7	AW107203|Mov-34|Mov34	proteasome (prosome, macropain) 26S subunit, non-ATPase, 7	protein-coding	6.5	7.5	5.5	97.5	18.0	6.0	17.0	10.0
Merged-chr19-43930662-4	chr19	43930521	43930721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 1 of 15)	intron (NM_028029, intron 1 of 15)	9577.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	45.5	52.5	33.0	779.5	67.0	22.5	49.0	31.0
Merged-chr7-92741566-4	chr7	92741466	92741666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029494)	promoter-TSS (NM_029494)	-107.0	NR_015510	666737.0	Mm.473620	NR_015510	ENSMUSG00000074024	4632427E13Rik	AU015482	RIKEN cDNA 4632427E13 gene	ncRNA	395.5	537.5	341.0	6150.0	778.5	253.0	412.5	284.0
Merged-chr9-111501863-2	chr9	111501749	111501949	+	735.375	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	62768.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	13.0	13.5	11.5	271.5	0.5	1.0	0.5	0.5
Merged-chr8-13641414-1	chr8	13641314	13641514	+	713.0	f0_balb.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	36173.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	9.0	20.0	5.0	99.0	11.0	1.5	3.5	2.5
Merged-chr19-34521602-4	chr19	34521503	34521703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	5871.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	57.0	94.0	63.0	1138.5	183.0	50.0	47.0	65.0
Merged-chr2-121171117-4	chr2	121170964	121171164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290819)	promoter-TSS (NM_001290819)	61.0	NM_001290819	99334.0	Mm.188422	NM_178889	ENSMUSG00000050619	Zscan29	AW125441|Zfp690	zinc finger SCAN domains 29	protein-coding	30.5	40.0	42.0	514.0	102.5	27.5	55.5	62.5
Merged-chr2-38998108-4	chr2	38998037	38998237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029687)	promoter-TSS (NM_029687)	-172.0	NM_029687	76646.0	Mm.358777	NM_029687	ENSMUSG00000035295	Wdr38	1700123D08Rik	WD repeat domain 38	protein-coding	123.0	198.0	241.0	2336.5	277.5	130.0	117.5	184.0
Merged-chr16-78635489-3	chr16	78635381	78635581	+	869.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58793.0	NM_025967	67102.0	Mm.37332	NM_025967	ENSMUSG00000022864	D16Ertd472e	1700010I10Rik|2310009O17Rik|E330003K22Rik|Eurl	DNA segment, Chr 16, ERATO Doi 472, expressed	protein-coding	8.5	15.0	13.0	92.0	20.5	9.0	7.0	9.0
Merged-chr16-32572739-3	chr16	32572663	32572863	+	756.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36133.0	NM_011638	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	6.5	10.5	7.5	75.0	11.5	8.0	4.0	8.5
Merged-chr1-88589192-4	chr1	88589117	88589317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	37700.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	68.0	65.5	33.5	735.5	119.5	36.5	34.0	55.0
Merged-chr10-78264934-1	chr10	78264834	78265034	+	555.0	f0_balb.idr	Intergenic	Intergenic	-20292.0	NM_001081055	216131.0	Mm.27539	NM_001081055	ENSMUSG00000000374	Trappc10	B230307C21Rik|Gm870|Tmem1|b2b2416Clo|b2b2613Clo	trafficking protein particle complex 10	protein-coding	5.0	8.0	10.0	89.0	12.0	3.5	6.5	8.0
Merged-chr5-105748547-2	chr5	105748455	105748655	+	674.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001122768, intron 2 of 2)	B1_Mur4|SINE|Alu	47745.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	6.0	11.5	10.0	55.5	13.5	0.5	3.5	9.0
Merged-chr15-96552167-4	chr15	96552073	96552273	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89789.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	18.0	20.5	16.5	261.0	53.5	15.5	28.0	15.0
Merged-chr18-88971692-4	chr18	88971595	88971795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175542)	promoter-TSS (NM_175542)	-95.0	NM_175542	246102.0	Mm.772	NM_175542	ENSMUSG00000023066	Rttn	4921538A15Rik|AI666264|C530033I08Rik|D230040K24	rotatin	protein-coding	79.5	95.0	61.0	1291.5	204.5	79.0	140.5	72.5
Merged-chr8-39639879-4	chr8	39639824	39640024	+	924.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 1 of 9)	intron (NM_001113326, intron 1 of 9)	2754.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	9.5	23.5	15.0	230.5	40.0	9.5	13.5	6.5
Merged-chr13-6906186-4	chr13	6906108	6906308	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-257437.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	40.0	24.0	40.0	829.5	42.5	14.5	40.0	19.0
Merged-chr3-104638568-4	chr3	104638435	104638635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009196)	promoter-TSS (NM_009196)	-129.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	32.0	64.0	39.0	418.0	49.0	22.5	26.0	31.5
Merged-chr5-76853754-4	chr5	76853720	76853920	+	895.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163793, intron 4 of 8)	intron (NM_001163793, intron 4 of 8)	13221.0	NM_001163793	320827.0	Mm.101504	NM_001163793	ENSMUSG00000036377	C530008M17Rik	2810489J07Rik|4930529A19Rik|4931405B09Rik|Kiaa1211|mKIAA1211	RIKEN cDNA C530008M17 gene	protein-coding	7.5	23.5	7.0	171.0	23.5	6.0	13.0	6.5
Merged-chr12-99349860-3	chr12	99349769	99349969	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 2 of 5)	intron (NM_183186, intron 2 of 5)	100205.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	11.0	12.0	17.0	136.5	17.0	7.0	13.5	8.0
Merged-chr13-112440097-4	chr13	112440024	112440224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23946.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	72.5	74.5	78.5	1287.5	96.5	40.5	48.0	35.0
Merged-chr2-102899861-2	chr2	102899769	102899969	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	1796.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	22.0	26.0	25.0	204.0	58.5	16.5	23.5	29.5
Merged-chr13-67609691-4	chr13	67609606	67609806	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163246)	promoter-TSS (NM_001163246)	1.0	NM_001163246	100416706.0	Mm.478045	NM_001163246	ENSMUSG00000058093	Zfp729b	AA987127	zinc finger protein 729b	protein-coding	48.0	52.5	21.0	407.0	368.0	120.0	142.5	126.5
Merged-chr5-151651207-4	chr5	151651123	151651323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027009)	promoter-TSS (NM_027009)	-15.0	NM_027009	69263.0	Mm.12553	NM_027009	ENSMUSG00000033970	Rfc3	2810416I22Rik|38kDa|AU022547|Recc3	replication factor C (activator 1) 3	protein-coding	163.5	255.0	159.0	2635.5	417.5	178.0	213.0	156.5
Merged-chr7-80180656-4	chr7	80180549	80180749	+	934.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6192.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	25.0	22.0	12.0	186.5	68.0	24.5	18.0	15.5
Merged-chr13-34002297-4	chr13	34002212	34002412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009068)	promoter-TSS (NM_009068)	-51.0	NM_001359997	19766.0	Mm.374799	NM_009068	ENSMUSG00000021408	Ripk1	D330015H01Rik|RIP|RIP-1|Rinp|Rip1	receptor (TNFRSF)-interacting serine-threonine kinase 1	protein-coding	72.0	71.0	84.5	1076.5	136.0	67.5	85.5	71.5
Merged-chr2-181241074-4	chr2	181240989	181241189	+	814.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183162, intron 1 of 18)	intron (NM_183162, intron 1 of 18)	938.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	5.5	5.5	3.0	81.0	18.0	9.0	12.0	10.5
Merged-chr7-35580068-3	chr7	35579965	35580165	+	830.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145840, exon 1 of 1)	3' UTR (NM_145840, exon 1 of 1)	5517.0	NM_145840	243923.0	Mm.222680	NM_145840	ENSMUSG00000056043	Rgs9bp	R9AP|Rgs9-1bp	regulator of G-protein signalling 9 binding protein	protein-coding	10.5	13.0	7.5	139.5	20.5	7.0	5.5	4.5
Merged-chr18-52565565-2	chr18	52565465	52565665	+	699.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-35698.0	NM_001286182	16948.0	Mm.172	NM_010728	ENSMUSG00000024529	Lox	AI893619|TSC-160|rrg	lysyl oxidase	protein-coding	5.0	8.0	7.0	22.0	26.5	5.0	3.5	3.5
Merged-chr9-38728400-4	chr9	38728311	38728511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145957, intron 9 of 18)	intron (NM_001145957, intron 9 of 18)	10143.0	NM_172767	67776.0	Mm.290950	NM_172767	ENSMUSG00000023186	Vwa5a	5830475I06Rik|AW552491|BCSC-1|E130119J22|Loh11cr2a	von Willebrand factor A domain containing 5A	protein-coding	113.0	119.0	159.5	2756.5	227.0	96.0	146.0	130.0
Merged-chr5-62763341-4	chr5	62763239	62763439	+	942.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	2838.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	11.0	15.0	14.5	410.5	52.5	14.0	23.0	25.5
Merged-chr11-78263390-3	chr11	78263310	78263510	+	899.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002004, intron 2 of 38)	intron (NM_001002004, intron 2 of 38)	1656.0	NM_001002004	72503.0	Mm.237103	NM_001002004	ENSMUSG00000010277	2610507B11Rik	AU022687|D11Bhm178e|D11Bhm179e|E1|Kiaa0100|mKIAA0100	RIKEN cDNA 2610507B11 gene	protein-coding	13.0	6.0	5.0	134.5	18.0	5.5	4.5	11.0
Merged-chr7-127822849-2	chr7	127822749	127822949	+	640.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_024414, intron 1 of 9)	MIRb|SINE|MIR	1682.0	NM_024414	56216.0	Mm.439759	NM_024414	ENSMUSG00000030806	Stx1b	Stx1b2|Stx1bl|Syn1b	syntaxin 1B	protein-coding	9.0	15.5	1.5	56.5	14.5	6.0	7.5	6.0
Merged-chr17-83830736-4	chr17	83830634	83830834	+	943.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025325)	TTS (NM_025325)	16056.0	NM_025325	107766.0	Mm.30100	NM_025325	ENSMUSG00000000673	Haao	0610007K21Rik|0610012J07Rik|3-HAO|3-HAOxase|3HAO	3-hydroxyanthranilate 3,4-dioxygenase	protein-coding	17.0	15.5	14.5	387.0	38.0	11.5	31.5	25.5
Merged-chr16-17804700-4	chr16	17804566	17804766	+	943.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153790, intron 8 of 10)	intron (NM_153790, intron 8 of 10)	7384.0	NM_153790	224024.0	Mm.194950	NM_153790	ENSMUSG00000012017	Scarf2	NSR1|SREC-II|SRECRP-1|Scatf1|Srec2|SrecII	scavenger receptor class F, member 2	protein-coding	23.0	21.5	9.5	220.5	26.5	12.0	14.5	20.5
Merged-chr15-99664682-4	chr15	99664584	99664784	+	892.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5693.0	NM_009597	11419.0	Mm.440107	NM_009597	ENSMUSG00000023017	Asic1	AI843610|ASIC|ASIC1a|Accn2|B530003N02Rik|BNaC2	acid-sensing (proton-gated) ion channel 1	protein-coding	10.0	29.0	16.0	287.5	22.5	11.0	18.0	12.0
Merged-chr2-51022675-4	chr2	51022576	51022776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	112992.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	35.5	93.0	39.0	511.0	90.0	37.0	41.0	29.0
Merged-chr14-52015772-5	chr14	52015695	52015895	+	897.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253694, intron 1 of 5)	MIRb|SINE|MIR	-1070.0	NM_001033805	619301.0	Mm.475177	NM_001033805	ENSMUSG00000072571	Tmem253	G630016D24Rik	transmembrane protein 253	protein-coding	6.5	4.5	14.5	52.0	15.0	3.5	2.5	6.0
Merged-chr2-91265155-4	chr2	91265068	91265268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166024)	promoter-TSS (NM_001166024)	53.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	316.0	503.5	329.0	4192.0	632.5	259.5	305.0	220.5
Merged-chr4-150566384-4	chr4	150566295	150566495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	85779.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	132.5	131.5	104.0	2218.0	231.0	82.5	112.0	112.5
Merged-chr15-38515418-4	chr15	38515306	38515506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301688, intron 1 of 11)	intron (NM_001301688, intron 1 of 11)	3860.0	NM_001301688	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	23.0	39.5	45.0	666.5	77.5	20.5	38.5	40.5
Merged-chr15-74673511-4	chr15	74673417	74673617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276684)	promoter-TSS (NM_001276684)	-947.0	NM_018790	11838.0	Mm.491310	NM_018790	ENSMUSG00000022602	Arc	Arc3.1|C86064|arg3.1|mArc	activity regulated cytoskeletal-associated protein	protein-coding	42.5	32.0	36.0	463.5	61.0	24.5	33.0	37.0
Merged-chr19-45308150-4	chr19	45308028	45308228	+	982.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55606.0	NM_001360122	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	12.5	22.5	16.0	363.5	33.0	18.0	18.5	22.0
Merged-chr17-56077596-3	chr17	56077453	56077653	+	769.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024432, intron 1 of 11)	intron (NM_024432, intron 1 of 11)	1780.0	NM_024432	66530.0	Mm.28000	NM_024432	ENSMUSG00000019578	Ubxn6	1200008L11Rik|2210415J11Rik|AU040909|Ubxd1|Ubxdc2	UBX domain protein 6	protein-coding	6.5	3.0	3.0	41.5	17.0	7.5	8.0	8.0
Merged-chr9-90232998-4	chr9	90232906	90233106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	37763.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	116.0	163.0	114.5	1952.0	258.0	98.5	115.5	129.0
Merged-chr3-87515926-6	chr3	87515827	87516027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9651.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	42.0	62.5	58.0	575.5	64.5	22.0	33.0	27.0
Merged-chr5-113225287-3	chr5	113225190	113225390	+	999.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-1619.0	NM_001033428	333048.0	Mm.332586	NM_001033428	ENSMUSG00000066964	Tmem211	Gm854	transmembrane protein 211	protein-coding	25.0	25.0	28.0	235.5	3.0	3.5	3.0	4.0
Merged-chr11-55460733-4	chr11	55460633	55460833	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 1 of 3)	intron (NM_009720, intron 1 of 3)	475.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	7.5	15.5	9.5	138.0	35.5	11.5	13.0	14.5
Merged-chr3-126610104-4	chr3	126610012	126610212	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	13161.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	20.5	25.0	14.5	435.0	52.0	13.5	27.5	23.0
Merged-chr5-90977460-4	chr5	90977369	90977569	+	857.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026788, intron 6 of 7)	intron (NM_026788, intron 6 of 7)	46273.0	NM_026788	665563.0	Mm.153030	NM_026788	ENSMUSG00000029376	Mthfd2l	1110019K23Rik|C630010D07Rik	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2-like	protein-coding	10.0	26.0	10.5	233.0	27.0	3.5	14.0	4.5
Merged-chr18-36471721-4	chr18	36471642	36471842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-17247.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	57.5	101.0	46.5	982.0	164.5	56.0	58.5	55.5
Merged-chr10-94013346-2	chr10	94013246	94013446	+	772.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001304720, intron 1 of 11)	B3|SINE|B2	22396.0	NM_001304720	215008.0	Mm.124177	NM_172538	ENSMUSG00000036099	Vezt	A630071D13Rik|AI848282	vezatin, adherens junctions transmembrane protein	protein-coding	10.0	4.0	2.0	44.5	22.0	6.0	6.0	6.5
Merged-chr8-26699718-2	chr8	26699618	26699818	+	745.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124705.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	1.5	2.0	3.0	23.5	17.5	6.0	5.0	4.5
Merged-chr7-143748614-3	chr7	143748526	143748726	+	834.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6663.0	NM_024289	79196.0	Mm.21199	NM_024289	ENSMUSG00000037606	Osbpl5	1110006M06Rik|AI462538|ORP5|Obph1|Osbp2	oxysterol binding protein-like 5	protein-coding	5.5	11.5	6.0	80.0	12.0	5.5	5.0	4.5
Merged-chr6-95117778-4	chr6	95117693	95117893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102670)	promoter-TSS (NM_001102670)	-87.0	NM_001008785	243574.0	Mm.333275	NM_001008785	ENSMUSG00000030031	Kbtbd8	AU040152|SSEC-51|SSEC51|Takrp|mKIAA1842	kelch repeat and BTB (POZ) domain containing 8	protein-coding	313.0	480.0	391.0	6677.5	989.0	385.5	513.5	454.5
Merged-chr2-18884520-4	chr2	18884423	18884623	+	875.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355147, intron 3 of 8)	intron (NM_001355147, intron 3 of 8)	-82705.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	9.0	11.5	7.5	147.0	21.5	5.0	4.5	14.5
Merged-chr2-3424671-4	chr2	3424552	3424752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302684, intron 1 of 14)	intron (NM_001302684, intron 1 of 14)	521.0	NM_001302684	227525.0	Mm.23483	NM_146114	ENSMUSG00000026648	Dclre1c	9930121L06Rik|AI661365|Art|Snm1l	DNA cross-link repair 1C	protein-coding	52.5	107.0	35.5	429.0	125.0	52.0	61.0	38.0
Merged-chr8-22433200-4	chr8	22433124	22433324	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21884.0	NM_020560	57312.0	Mm.289402	NM_020560	ENSMUSG00000031533	Mrps31	1500002D03Rik|AA960481|Imogen38|Imogen44	mitochondrial ribosomal protein S31	protein-coding	16.0	25.0	12.5	213.5	45.5	4.5	9.0	11.5
Merged-chr16-21286296-4	chr16	21286255	21286455	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046162, intron 1 of 4)	intron (NR_046162, intron 1 of 4)	10517.0	NR_046162	328646.0	Mm.404748	NR_046162	ENSMUSG00000096918	Gm16863	A830060N17	predicted gene, 16863	ncRNA	14.0	22.0	22.5	188.5	20.5	9.0	7.0	13.0
Merged-chr3-37771120-4	chr3	37770992	37771192	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-46732.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	17.5	15.0	2.0	47.0	11.0	8.0	27.5	22.5
Merged-chr13-113693601-3	chr13	113693512	113693712	+	760.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29936.0	NM_019960	56534.0	Mm.41410	NM_019960	ENSMUSG00000051456	Hspb3	2310035K17Rik|AI844863|Hsbp3|spb3	heat shock protein 3	protein-coding	7.5	8.0	7.5	135.0	18.0	5.5	16.0	7.0
Merged-chr5-142702109-2	chr5	142702009	142702209	+	842.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146257)	promoter-TSS (NM_146257)	8.0	NM_146257	243328.0	Mm.125942	NM_146257	ENSMUSG00000050822	Slc29a4	ENT4|mPMAT	solute carrier family 29 (nucleoside transporters), member 4	protein-coding	7.5	10.5	5.0	28.0	13.5	3.0	1.5	5.0
Merged-chr13-74301376-4	chr13	74301303	74301503	+	842.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9072.0	NM_001317351	11624.0	Mm.290446	NM_009644	ENSMUSG00000021575	Ahrr	mKIAA1234	aryl-hydrocarbon receptor repressor	protein-coding	5.5	12.0	2.5	112.0	20.0	5.5	13.0	4.5
Merged-chr6-129400094-4	chr6	129399994	129400194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019985, exon 2 of 6)	exon (NM_019985, exon 2 of 6)	2797.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	194.5	335.5	186.0	3409.5	471.0	158.5	220.5	157.5
Merged-chr5-102074238-2	chr5	102074138	102074338	+	893.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4317.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	1.0	5.0	3.0	100.0	21.0	10.0	9.5	17.0
Merged-chr9-51044844-4	chr9	51044735	51044935	+	900.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	32259.0	NM_001033534	244864.0	Mm.335152	NM_001033534	ENSMUSG00000060594	Layn	E030012M19Rik|Gm511	layilin	protein-coding	17.0	27.0	20.5	179.0	33.5	10.0	11.5	22.0
Merged-chr10-8323386-3	chr10	8323289	8323489	+	791.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 3 of 7)	intron (NM_177387, intron 3 of 7)	195436.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	10.0	10.5	5.5	114.0	23.0	7.0	5.0	6.0
Merged-chr4-62353658-3	chr4	62353559	62353759	+	655.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 1 of 27)	intron (NM_001355385, intron 1 of 27)	6937.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	5.0	19.0	11.0	101.5	13.0	11.5	3.5	12.0
Merged-chr8-126587973-4	chr8	126587847	126588047	+	877.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001164598)	TTS (NM_001164598)	5489.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	7.0	9.5	7.0	82.0	19.5	5.0	3.5	4.0
Merged-chr3-86758795-3	chr3	86758692	86758892	+	804.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077688, intron 53 of 54)	intron (NM_001077688, intron 53 of 54)	162092.0	NM_001195499	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	8.5	8.5	10.5	209.5	14.5	7.5	6.5	6.5
Merged-chr5-124440223-1	chr5	124440123	124440323	+	1000.0	f0_c57.idr	intron (NM_001310725, intron 1 of 6)	CpG	293.0	NM_001310725	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	13.5	37.0	14.5	123.0	40.0	30.5	23.5	26.5
Merged-chr7-27605758-3	chr7	27605666	27605866	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007434)	promoter-TSS (NM_007434)	-31.0	NM_007434	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	7.0	13.0	8.5	64.0	39.0	26.5	39.5	30.0
Merged-chr14-64858541-4	chr14	64858450	64858650	+	861.8624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 5 of 9)	intron (NM_177338, intron 5 of 9)	91307.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	3.5	8.5	10.0	200.0	19.5	11.0	14.0	9.0
Merged-chr9-75408016-4	chr9	75407899	75408099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015806, intron 1 of 5)	intron (NM_015806, intron 1 of 5)	1360.0	NM_027418	50772.0	Mm.480076	NM_015806	ENSMUSG00000042688	Mapk6	2610021I23Rik|D130053K17Rik|Erk3|Mapk4|Mapk63|Prkm4|Prkm6	mitogen-activated protein kinase 6	protein-coding	68.5	140.5	60.0	817.5	233.0	74.0	108.5	70.0
Merged-chr10-41573361-4	chr10	41573259	41573459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 36 of 47)	intron (NM_001358562, intron 36 of 47)	5343.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	118.0	135.0	118.0	1664.5	198.5	76.0	120.0	95.5
Merged-chr2-150362763-4	chr2	150362677	150362877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027017)	promoter-TSS (NM_027017)	-12.0	NM_027017	69277.0	Mm.272470	NM_027017	ENSMUSG00000063364	3300002I08Rik	2900016H11Rik	RIKEN cDNA 3300002I08 gene	protein-coding	57.5	76.0	45.5	1244.5	183.5	76.0	127.0	75.5
Merged-chr19-17361400-4	chr19	17361311	17361511	+	885.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	MTD|LTR|ERVL-MaLR	-4744.0	NM_173442	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	21.0	26.0	20.5	409.0	21.0	9.0	11.5	10.5
Merged-chr17-10343890-2	chr17	10343790	10343990	+	654.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19288.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	7.0	6.5	5.0	35.5	10.0	2.0	2.0	4.0
Merged-chr4-55526694-2	chr4	55526518	55526718	+	682.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_010637)	TTS (NM_010637)	5857.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	1.5	3.5	1.0	22.5	4.5	6.5	5.0	9.0
Merged-chr1-170576563-4	chr1	170576447	170576647	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 1 of 9)	intron (NM_001109985, intron 1 of 9)	13302.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	21.0	15.5	3.0	169.5	45.5	12.5	4.5	20.0
Merged-chr11-65807150-4	chr11	65807073	65807273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026107)	promoter-TSS (NM_026107)	-2.0	NM_001302374	52712.0	Mm.340052	NM_026107	ENSMUSG00000018347	Zkscan6	1700128E15Rik|D11Ertd714e|KOX11|Zfp535|Znf18	zinc finger with KRAB and SCAN domains 6	protein-coding	130.0	215.0	131.5	1885.5	420.5	162.0	224.5	151.0
Merged-chr2-25549639-4	chr2	25549542	25549742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2702.0	NM_009422	22030.0	Mm.3399	NM_009422	ENSMUSG00000026942	Traf2	AI325259	TNF receptor-associated factor 2	protein-coding	20.0	49.5	19.5	77.0	198.0	75.5	40.0	40.5
Merged-chr10-96342694-4	chr10	96342588	96342788	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116481.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	4.5	25.0	9.5	128.5	53.0	35.0	33.5	20.0
Merged-chr2-142859728-4	chr2	142859615	142859815	+	801.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 3 of 26)	intron (NM_001355123, intron 3 of 26)	41749.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	7.5	6.0	8.5	106.0	20.5	6.0	15.5	14.5
Merged-chr17-87265106-4	chr17	87265034	87265234	+	609.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176808, intron 1 of 4)	intron (NM_176808, intron 1 of 4)	813.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	6.0	7.5	4.0	148.5	12.5	9.0	8.5	10.5
Merged-chr17-33629392-4	chr17	33629287	33629487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026712, intron 1 of 5)	intron (NM_026712, intron 1 of 5)	295.0	NM_026712	328801.0	Mm.181488	NM_026712	ENSMUSG00000073423	Zfp414	0610030H11Rik|Znf414	zinc finger protein 414	protein-coding	70.5	119.5	48.5	820.0	146.5	63.0	66.0	56.0
Merged-chr3-87322780-2	chr3	87322669	87322869	+	662.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	-35112.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	6.0	15.0	3.0	66.0	30.0	10.5	13.0	12.5
Merged-chr19-11912304-4	chr19	11912203	11912403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172635)	promoter-TSS (NM_172635)	-96.0	NM_172635	225929.0	Mm.42711	NM_172635	ENSMUSG00000046139	Patl1	AV312086|Pat1b	protein associated with topoisomerase II homolog 1 (yeast)	protein-coding	144.5	268.0	124.0	1856.0	387.0	152.5	101.5	134.0
Merged-chr19-11234439-4	chr19	11234350	11234550	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045317, intron 1 of 2)	intron (NR_045317, intron 1 of 2)	31701.0	NM_007641	12482.0	Mm.4046	NM_007641	ENSMUSG00000024673	Ms4a1	AA960661|Cd20|Ly-44|Ms4a2	membrane-spanning 4-domains, subfamily A, member 1	protein-coding	28.0	21.0	22.0	302.0	38.0	8.0	17.5	19.5
Merged-chr8-105121153-4	chr8	105121054	105121254	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10646.0	NM_146213	234677.0	Mm.120297	NM_146213	ENSMUSG00000060560	Ces4a	Ces8	carboxylesterase 4A	protein-coding	10.5	16.5	10.0	126.5	38.0	10.5	10.0	19.5
Merged-chr7-142374255-2	chr7	142374155	142374355	+	840.833374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347541)	promoter-TSS (NM_001347541)	-509.0	NM_001347541	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	5.5	1.5	4.0	83.0	18.0	6.0	8.0	18.0
Merged-chr11-55454258-2	chr11	55454158	55454358	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 2 of 3)	PB1D10|SINE|Alu	6950.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	5.0	7.5	5.0	42.5	18.5	7.0	6.5	5.0
Merged-chr12-51705755-4	chr12	51705651	51705851	+	692.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329698, intron 1 of 5)	intron (NM_001329698, intron 1 of 5)	-13837.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	1.0	12.0	10.0	112.0	25.0	4.5	8.5	10.5
Merged-chr3-87263630-3	chr3	87263538	87263738	+	893.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030707)	promoter-TSS (NM_030707)	-114.0	NM_030707	80891.0	Mm.45173	NM_030707	ENSMUSG00000015852	Fcrls	2810439C17Rik|9330158F12|FcRH2sc|Fcrh2|IFGP2|IgSR|MMAN-g|Msr2|moFcRH2sc	Fc receptor-like S, scavenger receptor	protein-coding	6.5	14.5	7.0	226.5	7.5	7.0	8.5	3.5
Merged-chr8-14652962-3	chr8	14652887	14653087	+	799.083313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-235549.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	2.5	0.5	7.5	137.0	21.5	5.5	15.0	17.0
Merged-chr10-99198069-4	chr10	99197973	99198173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027740)	TTS (NM_027740)	-65158.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	41.0	44.0	43.0	576.0	62.0	37.0	22.5	36.0
Merged-chr2-103606357-4	chr2	103606240	103606440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	40030.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	58.5	77.5	40.0	847.5	124.5	62.0	58.0	70.0
Merged-chr17-57275657-4	chr17	57275560	57275760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3440.0	NM_001163816	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	51.5	62.5	56.0	383.0	118.5	43.5	34.5	46.5
Merged-chr3-21992337-4	chr3	21992259	21992459	+	888.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84293.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	18.5	11.5	12.0	223.5	28.0	9.5	22.5	9.5
Merged-chr2-167350620-4	chr2	167350513	167350713	+	870.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1435.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	9.5	11.0	6.0	101.0	18.0	6.5	5.0	12.5
Merged-chr14-17632002-1	chr14	17631902	17632102	+	610.0	f0_balb.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-28958.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	10.0	12.0	10.5	89.5	12.0	0.5	2.0	13.0
Merged-chr3-79842771-4	chr3	79842671	79842871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027495)	promoter-TSS (NM_027495)	-109.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	85.0	127.5	105.0	1453.5	165.5	75.0	85.5	79.5
Merged-chr1-183979990-4	chr1	183979894	183980094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54004.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	136.0	204.5	185.0	2082.5	358.5	132.0	176.5	179.5
Merged-chr14-63121985-4	chr14	63121891	63122091	+	934.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007798)	promoter-TSS (NM_007798)	-471.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	20.0	10.5	7.0	183.0	38.5	11.5	13.5	11.0
Merged-chr10-22000721-4	chr10	22000558	22000758	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001161850)	TTS (NM_001161850)	5992.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	25.5	43.5	20.5	262.0	33.0	22.0	11.5	12.5
Merged-chr9-106310047-4	chr9	106309919	106310119	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	28958.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	58.0	52.5	39.5	1025.5	50.5	10.0	25.5	17.0
Merged-chr2-78868892-8	chr2	78868788	78868988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009454)	promoter-TSS (NM_009454)	-159.0	NM_009454	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	33.5	67.5	47.0	341.5	99.5	38.0	42.0	39.0
Merged-chr9-105034168-4	chr9	105034066	105034266	+	993.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001357439, exon 16 of 16)	3' UTR (NM_001357439, exon 16 of 16)	-19102.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	31.5	26.5	41.0	406.5	39.0	29.5	21.0	27.0
Merged-chr19-18631403-4	chr19	18631307	18631507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145497)	promoter-TSS (NM_145497)	406.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	52.5	73.0	45.0	904.5	117.5	38.5	58.0	53.0
Merged-chr6-129501146-3	chr6	129501034	129501234	+	895.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138648, intron 2 of 7)	intron (NM_138648, intron 2 of 7)	6031.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	30.5	30.5	53.5	540.5	5.0	0.0	0.0	1.0
Merged-chr3-15345781-4	chr3	15345673	15345873	+	875.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13471.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	18.5	24.5	29.5	290.5	24.5	14.5	12.0	6.5
Merged-chr2-173770852-2	chr2	173770767	173770967	+	808.875	f0_balb.idr|f0_c57.idr	intron (NM_019806, intron 2 of 5)	intron (NM_019806, intron 2 of 5)	33296.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	10.0	21.5	12.0	146.0	23.0	11.5	23.0	22.0
Merged-chr11-32586144-3	chr11	32586051	32586251	+	952.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 4 of 18)	intron (NM_009288, intron 4 of 18)	52885.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	20.0	17.0	12.5	324.5	11.5	4.5	4.0	8.5
Merged-chr9-70014041-2	chr9	70013941	70014141	+	719.233337	f1_balb.idr|f1_c57bl6.idr	intron (NM_001282083, intron 1 of 4)	intron (NM_001282083, intron 1 of 4)	1493.0	NR_104093	235459.0	Mm.293117	NM_199151	ENSMUSG00000033543	Gtf2a2	TFIIA-gamma|TfIIg|Tfiia2	general transcription factor II A, 2	protein-coding	3.0	3.0	2.5	151.0	23.0	6.0	6.0	6.5
Merged-chr9-50601823-3	chr9	50601723	50601923	+	669.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025848, intron 1 of 3)	MTD|LTR|ERVL-MaLR	2026.0	NM_025848	66925.0	Mm.10406	NM_025848	ENSMUSG00000000171	Sdhd	3110001M13Rik|AVLL5809|C78570|PRO19626	succinate dehydrogenase complex, subunit D, integral membrane protein	protein-coding	14.5	9.0	4.0	103.0	6.5	5.5	4.5	6.5
Merged-chr17-28247819-4	chr17	28247723	28247923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 2 of 7)	intron (NM_011145, intron 2 of 7)	15069.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	27.0	39.5	32.5	598.5	59.5	19.5	33.5	37.0
Merged-chr18-11691043-3	chr18	11690944	11691144	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081223, intron 4 of 18)	RLTR13B1|LTR|ERVK	33695.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	2.5	5.0	4.5	22.0	117.0	36.0	33.0	32.5
Merged-chr9-18292168-4	chr9	18292057	18292257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025844)	promoter-TSS (NM_025844)	-110.0	NM_025844	66917.0	Mm.103534	NM_025844	ENSMUSG00000001774	Chordc1	1110001O09Rik|AA409036|Chp-1|morgana	cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1	protein-coding	136.5	262.0	200.5	2353.5	541.0	189.0	246.0	163.5
Merged-chr6-120866242-4	chr6	120866133	120866333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153516, intron 4 of 6)	intron (NM_153516, intron 4 of 6)	30003.0	NM_153516	94044.0	Mm.27990	NM_153516	ENSMUSG00000009112	Bcl2l13	BCL-RAMBO|E430016C20Rik|Mil-1|Mil1	BCL2-like 13 (apoptosis facilitator)	protein-coding	23.5	39.5	16.5	399.0	116.0	34.0	36.5	52.5
Merged-chr15-35296038-4	chr15	35295954	35296154	+	897.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054049)	promoter-TSS (NM_054049)	-58.0	NM_054049	107587.0	Mm.46336	NM_054049	ENSMUSG00000022330	Osr2	5430409I15Rik|Osr2A|Osr2B	odd-skipped related 2	protein-coding	10.5	21.0	22.0	229.5	22.0	0.0	7.0	10.5
Merged-chr17-43061420-3	chr17	43061341	43061541	+	955.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	intron (NM_178589, intron 3 of 5)	44886.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	19.5	10.0	16.0	239.5	4.0	3.0	2.5	4.5
Merged-chr4-120955841-4	chr4	120955740	120955940	+	978.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4139.0	NM_001005788	381549.0	Mm.331840	NM_001005788	ENSMUSG00000064141	Zfp69	Gm1029|Krab2|Zfp63	zinc finger protein 69	protein-coding	15.5	42.0	14.5	356.5	39.0	21.0	20.5	33.0
Merged-chr4-53125626-2	chr4	53125526	53125726	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	34269.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	36.5	57.5	29.5	241.5	67.5	22.0	13.0	14.0
Merged-chr19-41382864-4	chr19	41382757	41382957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 1 of 16)	intron (NM_031376, intron 1 of 16)	2213.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	61.0	218.5	108.0	866.0	256.0	82.5	79.5	44.5
Merged-chr8-33928433-4	chr8	33928358	33928558	+	909.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042675, intron 1 of 6)	intron (NM_001042675, intron 1 of 6)	1405.0	NM_019733	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	10.0	18.0	6.0	206.0	45.5	19.0	15.0	27.5
Merged-chr12-85472947-1	chr12	85472847	85473047	+	912.0	f0_c57.idr	promoter-TSS (NM_010234)	promoter-TSS (NM_010234)	-943.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	20.0	22.5	6.5	155.0	39.0	10.0	10.0	11.5
Merged-chr19-24432216-3	chr19	24432105	24432305	+	917.1555789999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008846, intron 3 of 14)	intron (NM_008846, intron 3 of 14)	45269.0	NM_026520	68034.0	Mm.440181	NM_026520	ENSMUSG00000074922	Fam122a	2410124L17Rik|2900009I07Rik|Gm9849	family with sequence similarity 122, member A	protein-coding	1.0	7.0	6.5	28.5	21.0	5.5	22.0	14.5
Merged-chr12-83988435-2	chr12	83988335	83988535	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_134188, exon 1 of 3)	exon (NM_134188, exon 1 of 3)	574.0	NM_134188	171210.0	Mm.371675	NM_134188	ENSMUSG00000021226	Acot2	AA571646|MTE-I|Mte1	acyl-CoA thioesterase 2	protein-coding	10.0	23.5	13.0	60.0	27.0	4.0	12.5	33.0
Merged-chr17-81616624-4	chr17	81616522	81616722	+	914.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	121765.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	20.0	16.5	17.5	186.5	28.0	12.0	6.0	5.5
Merged-chr3-27270324-4	chr3	27270244	27270444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46733.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	154.0	360.0	179.0	1373.0	424.0	203.5	144.0	106.5
Merged-chr11-121748510-4	chr11	121748393	121748593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46066.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	31.5	53.0	15.5	426.0	48.0	28.0	21.0	28.0
Merged-chr18-49458430-4	chr18	49458338	49458538	+	900.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64851.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	8.0	16.5	29.0	472.0	22.0	9.5	16.0	5.0
Merged-chr11-65787811-2	chr11	65787711	65787911	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316368, intron 1 of 10)	CpG	548.0	NM_009157	26398.0	Mm.412922	NM_009157	ENSMUSG00000033352	Map2k4	JNKK1|MEK4|MKK4|PRKMK4|Sek1|Serk1	mitogen-activated protein kinase kinase 4	protein-coding	3.5	18.0	23.0	131.5	35.5	17.0	10.5	19.5
Merged-chr1-16659626-4	chr1	16659532	16659732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_037998, exon 1 of 4)	non-coding (NR_037998, exon 1 of 4)	2080.0	NR_037998	329101.0	Mm.406049	NR_037998	ENSMUSG00000097744	D030040B21Rik	D030040B21	RIKEN cDNA D030040B21 gene	ncRNA	25.0	66.0	44.5	557.0	109.5	43.0	40.0	34.0
Merged-chr9-13774900-4	chr9	13774803	13775003	+	952.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_024025, intron 1 of 15)	RodERV21-int|LTR|ERV1	25722.0	NM_023858	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	10.5	14.5	12.5	194.0	37.0	8.0	8.5	23.0
Merged-chr6-115759718-4	chr6	115759622	115759822	+	893.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144805)	promoter-TSS (NM_144805)	-723.0	NM_144805	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	14.0	7.0	7.0	268.0	21.0	7.0	9.5	14.0
Merged-chr11-100575070-6	chr11	100574960	100575160	+	972.589294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146318)	promoter-TSS (NM_001146318)	121.0	NM_009923	12799.0	Mm.15711	NM_009923	ENSMUSG00000006782	Cnp	CNPase|Cnp-1|Cnp1	2',3'-cyclic nucleotide 3' phosphodiesterase	protein-coding	12.5	18.5	11.5	164.5	38.0	9.5	8.0	21.5
Merged-chr7-5053139-2	chr7	5053039	5053239	+	850.25	f1_balb.idr|f1_c57bl6.idr	exon (NM_026900, exon 2 of 2)	exon (NM_026900, exon 2 of 2)	1607.0	NM_026900	68992.0	Mm.41484	NM_026900	ENSMUSG00000055633	Zfp580	1500015O20Rik|AI838225|Znf580	zinc finger protein 580	protein-coding	7.5	3.0	11.0	38.0	7.0	6.0	6.0	8.0
Merged-chr8-123319891-4	chr8	123319724	123319924	+	918.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-1248.0	NM_016925	14087.0	Mm.6536	NM_016925	ENSMUSG00000032815	Fanca	AW208693|FACA	Fanconi anemia, complementation group A	protein-coding	8.5	27.5	8.0	48.0	45.5	13.5	20.0	26.0
Merged-chr1-34867432-4	chr1	34867349	34867549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145516, intron 6 of 7)	intron (NM_145516, intron 6 of 7)	17460.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	31.5	70.5	23.5	538.0	111.5	41.0	57.5	38.0
Merged-chr2-90964956-3	chr2	90964859	90965059	+	690.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001244891, intron 2 of 14)	intron (NM_001244891, intron 2 of 14)	24562.0	NM_017368	13046.0	Mm.29495	NM_017368	ENSMUSG00000005506	Celf1	1600010O03Rik|AA407467|Brunol2|CUG-BP|CUG-BP1|CUGBP|Cugbp1|D2Wsu101e|HNAB50|NAB50	CUGBP, Elav-like family member 1	protein-coding	12.5	5.0	12.5	197.0	13.5	6.0	10.5	5.0
Merged-chr19-4191083-2	chr19	4190983	4191183	+	998.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178650)	promoter-TSS (NM_178650)	-36.0	NM_178650	108995.0	Mm.288312	NM_178650	ENSMUSG00000040247	Tbc1d10c	1810062O14Rik|AI428527	TBC1 domain family, member 10c	protein-coding	9.5	10.5	2.5	60.0	15.0	8.0	9.0	23.5
Merged-chr5-100632947-4	chr5	100632845	100633045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41311.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	61.0	77.0	34.5	585.0	104.0	47.5	33.5	35.5
Merged-chr17-10848973-4	chr17	10848859	10849059	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	8600.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	18.5	21.5	16.5	304.5	30.5	15.0	40.0	20.0
Merged-chr2-31165159-4	chr2	31165066	31165266	+	711.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178760, intron 1 of 17)	L1MEd|LINE|L1	12850.0	NM_178760	277463.0	Mm.236074	NM_178760	ENSMUSG00000000194	Gpr107	9930033D15Rik|AI790205|C530034M11|mKIAA1624	G protein-coupled receptor 107	protein-coding	16.5	24.5	9.0	85.5	17.5	6.0	5.5	9.5
Merged-chr19-44389174-2	chr19	44389069	44389269	+	857.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	18540.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	13.5	22.0	14.0	276.0	32.5	16.5	15.0	8.5
Merged-chr14-64916050-4	chr14	64915941	64916141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 1 of 9)	intron (NM_177338, intron 1 of 9)	33816.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	80.0	72.0	52.5	935.0	164.5	57.0	67.5	65.5
Merged-chr10-10654926-2	chr10	10654826	10655026	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3c|LINE|L1	48981.0	NR_033630	382450.0	Mm.422788	NR_033630	ENSMUSG00000098065	Gm5177	EG382450	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	6.0	6.0	7.0	82.5	38.0	4.5	7.5	1.5
Merged-chr1-64246742-3	chr1	64246644	64246844	+	637.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125355.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	7.0	11.5	10.0	75.5	18.5	3.0	4.5	5.0
Merged-chr13-38634530-3	chr13	38634432	38634632	+	637.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139063, intron 1 of 4)	intron (NM_139063, intron 1 of 4)	577.0	NM_139063	17828.0	Mm.261554	NM_139063	ENSMUSG00000038982	Bloc1s5	1810074A19Rik|Muted|mu	biogenesis of lysosomal organelles complex-1, subunit 5, muted	protein-coding	7.0	9.5	11.0	60.0	11.0	6.0	7.0	6.5
Merged-chr10-43752215-4	chr10	43752122	43752322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040581, intron 1 of 3)	intron (NR_040581, intron 1 of 3)	6064.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	23.5	32.0	36.5	549.5	64.5	30.5	33.5	26.5
Merged-chr6-131269757-4	chr6	131269654	131269854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22392.0	NM_008462	16633.0	Mm.4783	NM_008462	ENSMUSG00000030187	Klra2	Klra30|Ly49b	killer cell lectin-like receptor, subfamily A, member 2	protein-coding	151.0	193.5	151.5	2488.5	237.5	82.0	88.5	90.0
Merged-chr7-43645353-2	chr7	43645253	43645453	+	998.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 4 of 5)	MTD|LTR|ERVL-MaLR	10614.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	6.5	6.0	6.5	54.5	11.0	2.5	6.0	5.5
Merged-chr16-10996701-4	chr16	10996588	10996788	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-3567.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	17.5	45.0	33.0	245.0	35.0	11.0	22.5	8.5
Merged-chr10-117776107-4	chr10	117776008	117776208	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134010, intron 11 of 27)	MTC|LTR|ERVL-MaLR	16597.0	NM_134010	103468.0	Mm.12568	NM_134010	ENSMUSG00000052798	Nup107	AW541137|C76801	nucleoporin 107	protein-coding	16.0	50.5	43.0	325.5	96.5	32.0	75.0	28.0
Merged-chr1-55363560-6	chr1	55363500	55363700	+	921.257935	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029267)	promoter-TSS (NM_029267)	-131.0	NM_029267	75388.0	Mm.483408	NM_029267	ENSMUSG00000025977	Boll	4930554P13Rik|4930597B14Rik	boule homolog, RNA binding protein	protein-coding	7.5	14.0	14.5	103.5	25.5	11.5	8.5	7.5
Merged-chr13-73763602-4	chr13	73763486	73763686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011390)	promoter-TSS (NM_011390)	-74.0	NM_001360694	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	84.0	112.5	76.0	1229.0	176.0	73.5	49.0	64.0
Merged-chr1-171112014-3	chr1	171111946	171112146	+	876.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9615.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	4.5	4.5	7.5	80.0	7.5	5.0	7.0	2.5
Merged-chr10-34193850-4	chr10	34193728	34193928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	13723.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	22.0	59.0	26.5	376.0	65.5	26.0	27.5	21.5
Merged-chr3-121330381-4	chr3	121330267	121330467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 2 of 2)	intron (NR_155539, intron 2 of 2)	38627.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	21.5	21.5	26.5	447.5	88.5	16.0	29.0	30.5
Merged-chr3-106485202-4	chr3	106485118	106485318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028110)	promoter-TSS (NM_028110)	695.0	NR_033207	69206.0	Mm.14816	NM_001033146	ENSMUSG00000091575	2010016I18Rik	-	RIKEN cDNA 2010016I18 gene	ncRNA	34.5	62.0	46.0	684.5	98.0	29.0	33.5	37.0
Merged-chr2-80316166-1	chr2	80316066	80316266	+	981.0	f1_c57bl6.idr	intron (NM_024181, intron 1 of 22)	intron (NM_024181, intron 1 of 22)	700.0	NM_024181	66861.0	Mm.21762	NM_024181	ENSMUSG00000027006	Dnajc10	1200006L06Rik|D2Ertd706e|ERdj5|JPDI	DnaJ heat shock protein family (Hsp40) member C10	protein-coding	4.5	6.5	8.5	32.0	7.5	7.0	0.5	8.5
Merged-chr2-18649008-4	chr2	18648846	18649046	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23516.0	NM_147778	12238.0	Mm.249586	NM_147778	ENSMUSG00000051154	Commd3	AW550818|Bup|D2Ertd542e	COMM domain containing 3	protein-coding	6.0	6.5	5.0	134.0	19.0	3.5	13.0	10.0
Merged-chr10-99422466-3	chr10	99422379	99422579	+	664.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	159248.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	5.5	14.5	4.5	116.5	16.0	7.0	9.0	4.0
Merged-chr8-123236271-4	chr8	123236162	123236362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357300)	promoter-TSS (NM_001357300)	-4.0	NM_030176	78779.0	Mm.41459	NM_030176	ENSMUSG00000033594	Spata2l	2610039E05Rik|AI648233	spermatogenesis associated 2-like	protein-coding	43.0	60.0	36.5	431.0	94.5	25.0	48.0	31.5
Merged-chr6-28833441-5	chr6	28833367	28833567	+	783.97998	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 16 of 23)	CpG	-1720.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	20.0	16.0	10.0	137.5	6.0	2.0	4.5	7.5
Merged-chr16-94586483-4	chr16	94586353	94586553	+	918.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	15546.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	21.0	21.5	16.5	272.0	20.0	17.5	5.0	19.0
Merged-chr11-102407556-4	chr11	102407460	102407660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026542)	promoter-TSS (NM_026542)	-43.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	98.5	139.0	78.0	1009.5	268.5	71.0	98.5	98.0
Merged-chr4-118099791-2	chr4	118099651	118099851	+	853.25	f0_balb.idr|f1_balb.idr	intron (NM_001285520, intron 2 of 11)	ID_B1|SINE|B4	35195.0	NM_001285520	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	5.0	18.0	8.5	67.5	11.5	3.0	3.5	3.5
Merged-chr6-47317414-4	chr6	47317294	47317494	+	831.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14_RN|LTR|ERV1	72998.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	10.0	23.5	26.5	267.0	22.0	4.5	2.0	7.5
Merged-chr2-167922051-4	chr2	167921960	167922160	+	979.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10267.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	16.5	33.0	25.5	378.0	30.5	8.0	20.0	26.0
Merged-chr16-28911250-4	chr16	28911156	28911356	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177718, intron 1 of 1)	intron (NM_177718, intron 1 of 1)	18442.0	NM_177718	239796.0	Mm.155887	NM_177718	ENSMUSG00000051065	Mb21d2	1600021P15Rik|A430031N04|C87006	Mab-21 domain containing 2	protein-coding	14.0	22.5	6.0	111.0	47.5	14.0	8.5	17.5
Merged-chr12-85701037-4	chr12	85700901	85701101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 2 of 2)	intron (NM_016767, intron 2 of 2)	14281.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	52.0	79.5	72.5	1009.0	58.5	24.5	24.5	29.0
Merged-chr5-24451789-4	chr5	24451695	24451895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139153)	promoter-TSS (NM_139153)	-382.0	NM_001359881	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	170.0	288.0	214.5	2393.5	474.5	194.0	214.5	216.5
Merged-chr2-91052154-3	chr2	91052057	91052257	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-1859.0	NM_008948	19182.0	Mm.289832	NM_008948	ENSMUSG00000002102	Psmc3	TBP-1	proteasome (prosome, macropain) 26S subunit, ATPase 3	protein-coding	5.5	18.5	9.0	164.0	20.0	3.5	15.5	3.0
Merged-chr2-11212183-4	chr2	11212082	11212282	+	997.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	39800.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	13.5	38.0	22.5	236.0	70.5	33.5	23.5	26.5
Merged-chr4-132488777-4	chr4	132488662	132488862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21694.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	25.5	49.0	49.0	570.0	93.0	19.5	35.5	27.5
Merged-chr8-120741219-4	chr8	120741103	120741303	+	948.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 2 of 8)	intron (NM_001301811, intron 2 of 8)	2564.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	23.0	35.0	35.0	353.0	29.0	24.5	22.5	24.0
Merged-chr2-166031229-4	chr2	166031128	166031328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	intron (NM_008679, intron 1 of 22)	38591.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	37.0	51.5	20.0	496.0	81.5	30.5	28.0	24.0
Merged-chr17-26090456-4	chr17	26090322	26090522	+	963.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011933)	promoter-TSS (NM_011933)	-258.0	NM_011933	26378.0	Mm.292869	NM_011933	ENSMUSG00000036775	Decr2	-	2-4-dienoyl-Coenzyme A reductase 2, peroxisomal	protein-coding	19.0	22.5	16.0	169.0	42.0	10.0	13.0	20.5
Merged-chr10-44453976-3	chr10	44453867	44454067	+	676.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007548, intron 2 of 6)	intron (NM_007548, intron 2 of 6)	4781.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	9.5	11.5	6.0	110.5	10.0	1.0	3.5	8.0
Merged-chr4-121028883-4	chr4	121028782	121028982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10684.0	NM_007741	12840.0	Mm.269384	NM_007741	ENSMUSG00000028626	Col9a2	AI427499|Col9a-2	collagen, type IX, alpha 2	protein-coding	52.0	62.5	19.0	379.5	112.0	54.5	39.0	32.0
Merged-chr15-5355491-3	chr15	5355412	5355612	+	873.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111325.0	NM_008965	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	16.0	21.0	16.0	239.5	23.0	4.0	13.0	7.5
Merged-chr13-100795715-4	chr13	100795605	100795805	+	840.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-9219.0	NM_172301	268697.0	Mm.260114	NM_172301	ENSMUSG00000041431	Ccnb1	Ccnb1-rs1|Ccnb1-rs13|CycB1|Cycb-4|Cycb-5|Cycb1-rs1	cyclin B1	protein-coding	4.5	21.5	8.0	114.0	27.5	4.0	5.5	9.5
Merged-chr3-96152081-3	chr3	96151977	96152177	+	808.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025613, intron 10 of 12)	intron (NM_001025613, intron 10 of 12)	-9893.0	NM_181409	194126.0	Mm.268536	NM_181409	ENSMUSG00000045934	Mtmr11	AI035306|BC051083|Cra	myotubularin related protein 11	protein-coding	14.5	15.0	18.5	116.5	20.5	4.0	10.5	12.5
Merged-chr11-117657529-3	chr11	117657443	117657643	+	775.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 1 of 21)	intron (NM_198022, intron 1 of 21)	3254.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	12.0	4.0	5.0	75.5	13.0	4.5	11.0	18.0
Merged-chr10-79793590-4	chr10	79793498	79793698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161747)	promoter-TSS (NM_001161747)	26.0	NM_001161747	18483.0	Mm.34650	NM_023128	ENSMUSG00000035863	Palm	-	paralemmin	protein-coding	30.0	26.0	14.0	392.0	61.0	16.5	29.0	23.5
Merged-chr2-32132806-4	chr2	32132704	32132904	+	940.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-18344.0	NM_172661	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	17.5	20.5	12.5	157.5	71.0	14.5	14.5	7.5
Merged-chr7-96879051-1	chr7	96878951	96879151	+	794.0	f0_balb.idr	intron (NM_011858, intron 27 of 32)	intron (NM_011858, intron 27 of 32)	-72476.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	9.0	12.5	8.5	132.0	4.0	4.0	4.0	6.0
Merged-chr1-92641950-4	chr1	92641854	92642054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028108)	promoter-TSS (NR_028108)	-6.0	NR_028108	66915.0	Mm.30179	NM_001163425	ENSMUSG00000073616	Cops9	1110002M09Rik|Myeov2	COP9 signalosome subunit 9	protein-coding	75.0	111.5	74.5	912.5	120.5	65.0	84.0	64.5
Merged-chr2-75981829-4	chr2	75981659	75981859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030188, exon 1 of 1)	5' UTR (NM_030188, exon 1 of 1)	208.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	44.5	49.0	20.5	424.0	143.5	57.0	45.5	62.5
Merged-chr14-56887644-3	chr14	56887553	56887753	+	870.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360643, intron 1 of 24)	intron (NM_001360643, intron 1 of 24)	810.0	NM_001360643	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	9.5	10.0	16.5	48.5	19.5	9.5	10.5	10.0
Merged-chr11-48872426-4	chr11	48872328	48872528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1008.0	NM_008326	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	46.0	41.5	35.5	850.0	81.5	25.5	32.0	33.5
Merged-chr2-75732727-2	chr2	75732630	75732830	+	857.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-28067.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	6.5	4.5	9.0	26.5	6.0	2.0	1.5	5.0
Merged-chr1-134196562-4	chr1	134196462	134196662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357515, intron 3 of 10)	intron (NM_001357515, intron 3 of 10)	3114.0	NM_016749	53311.0	Mm.379067	NM_016749	ENSMUSG00000042451	Mybph	AI385643|MyBP-H	myosin binding protein H	protein-coding	181.0	236.0	165.5	3015.0	406.0	152.0	190.5	136.0
Merged-chr15-68258550-2	chr15	68258450	68258650	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 1 of 13)	CpG	306.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	68.0	143.5	55.0	797.0	177.5	74.0	85.5	80.0
Merged-chr2-12406886-4	chr2	12406787	12406987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355537, intron 2 of 13)	intron (NM_001355537, intron 2 of 13)	12573.0	NM_001355537	66960.0	Mm.34059	NM_024185	ENSMUSG00000026767	Mindy3	1810041E18Rik|2310047O13Rik|5830410F13Rik|AI447827|AW111958|Fam188a	MINDY lysine 48 deubiquitinase 3	protein-coding	51.5	72.0	63.0	1249.5	229.0	71.0	88.0	91.0
Merged-chr4-63357220-4	chr4	63357136	63357336	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013623, intron 3 of 5)	intron (NM_013623, intron 3 of 5)	1074.0	NM_013623	18407.0	Mm.381399	NM_013623	ENSMUSG00000028359	Orm3	Agp-3|Orm-3	orosomucoid 3	protein-coding	20.5	42.0	12.5	119.5	42.0	12.0	10.5	8.5
Merged-chr12-28732397-3	chr12	28732289	28732489	+	940.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161410, intron 3 of 11)	intron (NM_001161410, intron 3 of 11)	18005.0	NM_001161410	217449.0	Mm.132006	NM_178811	ENSMUSG00000020628	Trappc12	CGI-87|D930014A20Rik|Ttc15	trafficking protein particle complex 12	protein-coding	5.5	10.0	7.0	142.0	34.5	7.0	6.0	9.0
Merged-chr11-69628490-4	chr11	69628389	69628589	+	888.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21B|LTR|ERVL	-4482.0	NM_011814	23879.0	Mm.41930	NM_011814	ENSMUSG00000018765	Fxr2	Fxr2h	fragile X mental retardation, autosomal homolog 2	protein-coding	11.0	24.0	10.0	100.5	26.0	17.0	16.0	10.0
Merged-chr1-191194269-4	chr1	191194163	191194363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10930.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	51.0	79.5	19.5	722.0	129.0	41.0	67.0	49.0
Merged-chr13-52507676-3	chr13	52507575	52507775	+	754.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001024474, exon 2 of 2)	exon (NM_001024474, exon 2 of 2)	23161.0	NM_001024474	68203.0	Mm.29362	NM_001024474	ENSMUSG00000047842	Diras2	2900052J15Rik|AI414999	DIRAS family, GTP-binding RAS-like 2	protein-coding	10.5	5.5	9.5	127.0	14.5	0.0	4.0	2.5
Merged-chr2-84988150-4	chr2	84988062	84988262	+	711.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016914)	promoter-TSS (NM_016914)	-53.0	NM_016914	53856.0	Mm.19943	NM_016914	ENSMUSG00000027072	Prg3	MBP2|MBPH	proteoglycan 3	protein-coding	10.0	5.0	4.5	84.5	24.0	1.5	10.0	8.5
Merged-chr10-39421005-4	chr10	39420905	39421105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	51206.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	121.0	207.5	189.5	2913.5	318.5	119.5	187.5	140.5
Merged-chr5-103753564-4	chr5	103753457	103753657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133919)	promoter-TSS (NM_133919)	-605.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	99.0	193.0	111.0	1453.5	330.5	120.0	117.0	94.5
Merged-chr7-96494156-3	chr7	96494054	96494254	+	998.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 3 of 32)	intron (NM_011858, intron 3 of 32)	-152190.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	30.5	39.0	51.5	623.5	3.5	3.0	3.0	1.0
Merged-chr8-84723011-4	chr8	84722924	84723124	+	874.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001297601, intron 6 of 8)	intron (NM_001297601, intron 6 of 8)	21567.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	22.0	9.0	11.5	203.5	23.5	4.0	7.5	11.5
Merged-chr17-34169472-3	chr17	34169372	34169572	+	856.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16281.0	NM_010387	14999.0	Mm.460938	NM_010387	ENSMUSG00000079547	H2-DMb1	AI385589|H-2Mb1|H2-Mb1	histocompatibility 2, class II, locus Mb1	protein-coding	5.0	8.0	8.5	125.5	23.5	3.5	5.0	15.5
Merged-chr2-102944238-4	chr2	102944127	102944327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42562.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	261.0	428.5	276.0	3745.5	489.0	217.5	234.5	238.5
Merged-chr4-3659433-4	chr4	3659331	3659531	+	938.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040643, intron 3 of 3)	intron (NR_040643, intron 3 of 3)	2925.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	18.0	14.0	27.0	243.5	47.5	3.0	14.5	15.0
Merged-chr5-66090250-4	chr5	66090149	66090349	+	834.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	7930.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	13.0	29.5	8.5	126.5	19.0	11.5	9.0	12.0
Merged-chr5-117127259-3	chr5	117127166	117127366	+	662.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199685, intron 1 of 20)	intron (NM_001199685, intron 1 of 20)	-6322.0	NM_001081308	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	8.5	5.0	7.0	89.5	4.5	2.0	10.5	3.5
Merged-chr2-121956432-4	chr2	121956333	121956533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008545)	promoter-TSS (NM_008545)	-341.0	NM_008545	17147.0	Mm.389349	NM_008545	ENSMUSG00000074881	Mageb3	Mage-b3|Mage-ps1|Mage-rs3|Smage3	melanoma antigen, family B, 3	protein-coding	66.0	81.5	37.5	707.0	185.5	61.5	70.0	98.5
Merged-chr16-94526943-4	chr16	94526863	94527063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007834)	promoter-TSS (NM_007834)	-334.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	181.5	228.5	133.0	2065.5	438.0	155.0	217.5	141.5
Merged-chr6-140767108-3	chr6	140766986	140767186	+	850.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140201.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	11.0	11.5	6.5	174.5	16.5	12.0	13.0	6.0
Merged-chr10-34129159-1	chr10	34129059	34129259	+	677.5	f0_balb.idr	Intergenic	MIRb|SINE|MIR	-1187.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	5.5	8.5	10.5	101.5	7.5	12.5	5.0	5.5
Merged-chr3-69126549-4	chr3	69126477	69126677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008467, intron 1 of 16)	CpG	515.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	35.0	42.0	45.5	579.5	121.0	46.0	72.5	50.0
Merged-chr3-55129515-4	chr3	55129425	55129625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144987, intron 8 of 8)	MER73|LTR|ERVL	-7814.0	NM_001290138	320604.0	Mm.213909	NM_177203	ENSMUSG00000048655	Ccdc169	A730037C10Rik	coiled-coil domain containing 169	protein-coding	106.5	139.5	129.5	2495.0	281.5	119.5	154.5	110.0
Merged-chr4-126103850-4	chr4	126103753	126103953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145827)	promoter-TSS (NM_001145827)	-104.0	NM_028800	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	210.5	308.0	189.5	2413.5	472.5	209.5	211.0	171.0
Merged-chr11-70654633-4	chr11	70654535	70654735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011072)	promoter-TSS (NM_011072)	15.0	NM_011072	18643.0	Mm.2647	NM_011072	ENSMUSG00000018293	Pfn1	Pfn	profilin 1	protein-coding	30.0	53.5	14.0	248.5	123.0	48.5	36.5	56.5
Merged-chr11-4122729-4	chr11	4122647	4122847	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4018.0	NM_144520	67815.0	Mm.253922	NM_144520	ENSMUSG00000003585	Sec14l2	1300013M05Rik|Spf|TAP	SEC14-like lipid binding 2	protein-coding	15.0	23.0	5.0	237.5	31.0	16.0	16.5	10.0
Merged-chr17-7430486-4	chr17	7430383	7430583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45178.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	74.0	134.5	65.5	609.5	261.0	117.5	115.5	128.5
Merged-chr9-41228938-4	chr9	41228901	41229101	+	909.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22846.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	9.5	14.5	16.5	122.0	30.5	5.5	11.0	6.5
Merged-chr5-72551410-4	chr5	72551307	72551507	+	978.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153351, intron 4 of 21)	intron (NR_153351, intron 4 of 21)	8238.0	NM_001359837	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	43.5	111.0	63.5	657.0	93.5	30.5	22.5	16.5
Merged-chr19-40679833-4	chr19	40679725	40679925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	Lx5|LINE|L1	20055.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	32.0	59.5	21.0	297.5	73.0	23.5	27.0	23.0
Merged-chr16-30532219-4	chr16	30532109	30532309	+	905.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357415, intron 9 of 11)	intron (NM_001357415, intron 9 of 11)	18369.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	8.0	19.0	8.0	279.0	28.5	14.0	12.5	8.5
Merged-chr4-136309939-3	chr4	136309833	136310033	+	804.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-1009.0	NM_001277122	74326.0	Mm.31051	NM_028871	ENSMUSG00000066037	Hnrnpr	2610003J05Rik|2610528B01Rik|Hnrpr	heterogeneous nuclear ribonucleoprotein R	protein-coding	13.0	21.0	9.5	120.0	33.5	5.5	4.5	6.5
Merged-chr19-6951617-4	chr19	6951515	6951715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007522, exon 4 of 4)	3' UTR (NM_007522, exon 4 of 4)	9053.0	NM_001285453	12015.0	Mm.4387	NM_007522	ENSMUSG00000024959	Bad	AI325008|Bbc2	BCL2-associated agonist of cell death	protein-coding	126.5	138.5	89.5	1225.0	286.0	111.0	100.0	114.0
Merged-chr6-50458109-4	chr6	50458011	50458211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1757.0	NM_001347213	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	40.0	36.5	26.0	435.5	53.0	23.0	26.0	33.5
Merged-chr5-110102099-4	chr5	110102000	110102200	+	967.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281812, intron 4 of 6)	intron (NM_001281812, intron 4 of 6)	1541.0	NM_001281812	403178.0	Mm.297057	NM_207279	ENSMUSG00000064247	Plcxd1	A330045H12Rik|Gm576	phosphatidylinositol-specific phospholipase C, X domain containing 1	protein-coding	10.0	28.0	12.5	299.5	54.5	21.0	16.5	34.0
Merged-chr2-13574083-9	chr2	13574024	13574224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011701)	promoter-TSS (NM_011701)	-187.0	NM_011701	22352.0	Mm.268000	NM_011701	ENSMUSG00000026728	Vim	-	vimentin	protein-coding	40.0	55.0	35.5	478.0	81.5	36.5	51.5	32.0
Merged-chr2-90625147-3	chr2	90625031	90625231	+	733.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44484.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	6.0	9.5	3.0	56.0	13.0	5.0	8.5	11.0
Merged-chr17-87304546-4	chr17	87304453	87304653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	intron (NM_028639, intron 3 of 19)	21667.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	106.5	148.0	98.0	1730.5	236.5	88.0	113.5	96.5
Merged-chr6-86396142-4	chr6	86396059	86396259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025823, intron 1 of 5)	intron (NM_025823, intron 1 of 5)	991.0	NM_001355687	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	62.5	69.5	79.0	907.5	143.0	54.5	44.5	48.5
Merged-chr3-9832924-3	chr3	9832814	9833014	+	930.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	765.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	14.5	10.5	23.0	100.0	17.0	2.5	6.5	5.5
Merged-chr8-94874462-4	chr8	94874343	94874543	+	832.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053246, intron 1 of 8)	intron (NM_053246, intron 1 of 8)	1869.0	NM_053246	114255.0	Mm.203949	NM_053246	ENSMUSG00000040631	Dok4	-	docking protein 4	protein-coding	5.0	7.5	5.0	144.0	10.5	7.5	7.0	8.5
Merged-chr11-102604278-3	chr11	102604209	102604409	+	851.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020510)	promoter-TSS (NM_020510)	-122.0	NM_020510	57265.0	Mm.36416	NM_020510	ENSMUSG00000050288	Fzd2	AL033370|AW456835|Fz10|Fzd10|Mfz10|Mfz10a	frizzled class receptor 2	protein-coding	7.5	6.0	4.0	50.5	30.0	16.0	11.0	11.0
Merged-chr14-105296349-3	chr14	105296251	105296451	+	885.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 4 of 7)	intron (NM_029561, intron 4 of 7)	37678.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	10.0	21.0	8.5	131.5	20.5	5.5	10.0	8.0
Merged-chr5-52677339-4	chr5	52677234	52677434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7633.0	NM_172490	211006.0	Mm.244719	NM_172490	ENSMUSG00000029173	Sepsecs	AA986712|D5Ertd135e|SLA|SecS	Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase	protein-coding	77.5	133.0	76.5	1355.5	51.5	23.5	33.5	21.0
Merged-chr6-129397005-4	chr6	129396892	129397092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204239)	promoter-TSS (NM_001204239)	-305.0	NM_001204253	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	66.5	99.0	99.5	1108.5	142.0	57.5	54.0	68.5
Merged-chr6-87207853-4	chr6	87207774	87207974	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054041, intron 13 of 17)	intron (NM_054041, intron 13 of 17)	103128.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	27.0	36.5	16.0	473.0	76.5	23.0	50.0	26.5
Merged-chr4-136148714-7	chr4	136148604	136148804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4882.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	40.0	41.0	17.5	404.5	55.5	22.0	18.5	27.5
Merged-chr6-135252706-7	chr6	135252628	135252828	+	977.257141	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080553, intron 1 of 5)	intron (NM_001080553, intron 1 of 5)	1608.0	NM_010352	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	56.5	35.5	37.5	756.0	10.5	9.5	16.5	9.0
Merged-chr1-85793387-4	chr1	85793299	85793499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133781)	promoter-TSS (NM_133781)	-42.0	NM_133781	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	119.0	154.0	126.0	2015.0	334.5	99.0	134.5	141.5
Merged-chr16-36631776-4	chr16	36631687	36631887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	L1MB3|LINE|L1	34290.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	62.5	115.0	80.0	631.0	194.5	59.5	45.0	42.0
Merged-chr10-12729194-3	chr10	12729103	12729303	+	945.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 13 of 73)	intron (NM_011682, intron 13 of 73)	132532.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	8.5	9.0	6.5	175.0	6.5	2.5	8.0	10.5
Merged-chr6-83599100-4	chr6	83598984	83599184	+	944.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26580.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	14.0	18.5	16.5	304.0	38.0	9.5	19.5	17.0
Merged-chr11-106759220-4	chr11	106759098	106759298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073165, intron 4 of 9)	intron (NR_073165, intron 4 of 9)	7972.0	NM_001033435	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	31.5	54.5	22.0	357.5	89.5	41.5	32.5	39.0
Merged-chr2-145720335-4	chr2	145720235	145720435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033220, intron 2 of 3)	intron (NR_033220, intron 2 of 3)	19140.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	38.5	50.0	27.5	423.0	90.0	28.0	32.5	35.5
Merged-chr4-108458312-4	chr4	108458206	108458406	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1120.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	41.0	50.5	11.5	168.5	62.5	29.0	11.0	7.5
Merged-chr7-41651754-4	chr7	41651624	41651824	+	881.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360680)	TTS (NM_001360680)	-16290.0	NR_004441	75835.0	Mm.159597	NM_029460	ENSMUSG00000074164	Vmn2r-ps54	1700108E19Rik|4930562N12Rik|Casr-rs5|Gm10948|Gprc2a-rs5	vomeronasal 2, receptor, pseudogene 54	pseudo	18.0	44.0	23.5	230.5	26.5	11.0	8.5	12.5
Merged-chr15-64083376-4	chr15	64083274	64083474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22926.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	81.5	117.5	87.5	1403.0	187.5	75.5	107.5	94.5
Merged-chr10-57632055-4	chr10	57631980	57632180	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008863)	promoter-TSS (NM_008863)	99.0	NM_001039051	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	22.5	26.0	20.0	356.5	34.0	9.5	24.5	15.5
Merged-chr7-143048132-4	chr7	143048018	143048218	+	950.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 1 of 4)	MTC|LTR|ERVL-MaLR	-4632.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	23.0	17.0	4.5	179.5	41.0	22.5	15.0	30.0
Merged-chr14-21750569-4	chr14	21750463	21750663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026283)	promoter-TSS (NM_026283)	32.0	NM_001359954	67630.0	Mm.102765	NM_026283	ENSMUSG00000021770	Samd8	1110053F04Rik|1700010P07Rik|SMSr	sterile alpha motif domain containing 8	protein-coding	77.0	93.5	46.5	912.0	185.0	68.5	80.0	76.5
Merged-chr9-44468156-2	chr9	44468056	44468256	+	743.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13389.0	NM_009476	22269.0	Mm.4453	NM_009476	ENSMUSG00000041523	Upk2	AW491716|UPII	uroplakin 2	protein-coding	7.5	14.5	9.5	49.0	12.5	7.5	2.5	6.0
Merged-chr14-73238620-4	chr14	73238478	73238678	+	872.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175116, exon 1 of 1)	5' UTR (NM_175116, exon 1 of 1)	687.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	8.5	5.0	15.0	225.5	22.0	15.0	12.5	12.5
Merged-chr8-80961384-4	chr8	80961237	80961437	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	53569.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	4.5	16.0	7.5	209.5	12.5	7.0	11.5	10.0
Merged-chr4-35068337-3	chr4	35068217	35068417	+	834.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 2 of 3)	intron (NM_178061, intron 2 of 3)	-83738.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	19.5	15.5	15.0	143.5	12.5	2.5	7.0	7.5
Merged-chr6-128438694-4	chr6	128438602	128438802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028592)	promoter-TSS (NR_028592)	-46.0	NM_010219	14228.0	Mm.12758	NM_010219	ENSMUSG00000030357	Fkbp4	AL022792|AW208983|FKBP-4|FKBP-52|FKBP52|FKPB52|p59	FK506 binding protein 4	protein-coding	164.0	171.0	136.5	2676.5	384.5	130.0	220.0	142.5
Merged-chr6-71223491-4	chr6	71223385	71223585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160127, intron 6 of 9)	MLT1B|LTR|ERVL-MaLR	23606.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	34.5	70.0	45.0	760.5	86.0	25.5	35.5	38.0
Merged-chr4-35131727-4	chr4	35131605	35131805	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-20350.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	10.0	24.5	5.5	157.5	31.5	14.0	10.5	8.0
Merged-chr1-131492629-4	chr1	131492516	131492716	+	880.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	34745.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	11.0	16.5	7.0	116.5	40.0	10.0	12.5	4.0
Merged-chr16-29597296-3	chr16	29597139	29597339	+	946.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133752, intron 5 of 28)	intron (NM_133752, intron 5 of 28)	17905.0	NM_001199177	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	9.0	14.0	7.5	243.0	9.0	4.5	3.5	6.0
Merged-chr16-92440374-4	chr16	92440236	92440436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	25833.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	48.0	88.0	69.5	917.0	49.5	28.5	25.0	20.0
Merged-chr4-132606043-5	chr4	132606046	132606246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32900.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	15.0	24.5	21.5	183.5	63.0	35.0	36.5	41.0
Merged-chr17-57357803-4	chr17	57357719	57357919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355723)	promoter-TSS (NM_001355723)	-867.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	22.5	41.5	18.0	245.0	54.0	28.5	33.5	26.5
Merged-chr12-85598244-4	chr12	85598131	85598331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205052)	promoter-TSS (NM_001205052)	-874.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	87.0	115.0	71.5	1413.5	220.5	52.0	74.0	73.0
Merged-chr15-64174688-4	chr15	64174588	64174788	+	779.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	-114240.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	5.5	9.5	8.0	151.0	30.5	14.0	7.5	9.0
Merged-chr3-9914750-3	chr3	9914641	9914841	+	769.827759	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81062.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	5.5	10.0	6.0	34.5	28.5	15.5	19.5	14.0
Merged-chr9-99107847-4	chr9	99107767	99107967	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 2 of 23)	intron (NM_029094, intron 2 of 23)	32344.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	25.0	27.0	21.5	212.5	45.5	8.5	28.0	17.5
Merged-chr4-3656446-4	chr4	3656361	3656561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040643)	promoter-TSS (NR_040643)	-45.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	38.0	53.5	48.0	403.0	117.5	46.5	64.0	47.5
Merged-chr13-75840974-1	chr13	75840874	75841074	+	752.0	f1_balb.idr	intron (NM_053108, intron 1 of 2)	intron (NM_053108, intron 1 of 2)	1088.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	5.5	14.0	6.0	61.0	17.5	4.0	4.0	1.5
Merged-chr14-25850600-3	chr14	25850483	25850683	+	817.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013469, intron 1 of 14)	intron (NM_013469, intron 1 of 14)	8428.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	4.0	7.5	13.5	190.5	11.5	6.0	11.0	13.0
Merged-chr5-135613053-4	chr5	135612941	135613141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19613.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	122.5	150.0	213.0	2447.0	169.5	64.5	70.5	80.5
Merged-chr16-44993549-4	chr16	44993451	44993651	+	921.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49873.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	18.5	17.5	28.0	534.5	32.0	17.5	33.5	12.5
Merged-chr16-91607180-4	chr16	91607061	91607261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9481.0	NM_030018	77975.0	Mm.290341	NM_030018	ENSMUSG00000022964	Tmem50b	AU015466|AU019872|B230114J08Rik	transmembrane protein 50B	protein-coding	129.0	197.5	109.0	1680.5	292.0	102.0	126.0	122.0
Merged-chr9-75559581-4	chr9	75559437	75559637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_016963, exon 1 of 10)	5' UTR (NM_016963, exon 1 of 10)	120.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	68.0	72.0	70.5	893.0	111.0	52.0	56.5	58.0
Merged-chr18-60744801-4	chr18	60744714	60744914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348146, intron 1 of 6)	intron (NM_001348146, intron 1 of 6)	1932.0	NM_001348101	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	141.5	271.5	203.0	3329.5	382.0	120.0	199.0	153.0
Merged-chr10-13016743-4	chr10	13016645	13016845	+	822.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8295.0	NM_175102	66125.0	Mm.29743	NM_175102	ENSMUSG00000078348	Sf3b5	10kDa|1110005L13Rik|AU043053|Sf3b10	splicing factor 3b, subunit 5	protein-coding	21.5	24.5	9.0	348.0	36.5	10.5	10.5	20.5
Merged-chr18-12941812-4	chr18	12941738	12941938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207530)	promoter-TSS (NM_207530)	3.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	165.5	244.0	178.5	2438.5	398.5	153.5	178.5	172.5
Merged-chr9-86477034-4	chr9	86476931	86477131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 1 of 38)	L1MB2|LINE|L1	9877.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	19.5	29.5	30.5	507.0	46.0	7.5	30.5	28.5
Merged-chr17-31512268-4	chr17	31512140	31512340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021322, exon 1 of 11)	exon (NM_021322, exon 1 of 11)	247.0	NM_021322	57773.0	Mm.143771	NM_021322	ENSMUSG00000024037	Wdr4	AI415180|AI448349|D530049K22Rik|Wh	WD repeat domain 4	protein-coding	79.0	113.5	60.0	897.5	120.0	55.0	43.0	49.5
Merged-chr19-56703891-4	chr19	56703790	56703990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18482.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	147.0	257.0	175.0	1599.5	245.0	121.5	116.0	121.0
Merged-chr4-137374327-4	chr4	137374237	137374437	+	891.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-16578.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	5.5	20.0	15.0	133.0	57.0	5.0	9.5	21.0
Merged-chr9-106822673-7	chr9	106822499	106822699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015507, intron 1 of 22)	CpG	623.0	NM_001015507	321006.0	Mm.440089	NM_001015507	ENSMUSG00000040325	Dcaf1	AI447437|B930007L02Rik|Vprbp|mKIAA0800	DDB1 and CUL4 associated factor 1	protein-coding	26.0	46.0	16.0	244.5	104.5	44.0	34.5	40.5
Merged-chr2-59616664-4	chr2	59616562	59616762	+	928.8624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	4620.0	NM_198294	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	15.0	12.5	8.0	245.5	36.0	9.0	24.5	21.0
Merged-chr13-5804403-3	chr13	5804312	5804512	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53680.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	35.5	40.0	27.0	369.0	84.0	43.5	33.0	25.0
Merged-chr15-66559301-3	chr15	66559208	66559408	+	832.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172514, exon 2 of 10)	exon (NM_172514, exon 2 of 10)	1738.0	NM_172514	213068.0	Mm.132299	NM_172514	ENSMUSG00000036944	Tmem71	AI661017|E430024D12	transmembrane protein 71	protein-coding	2.0	4.0	10.0	107.5	13.5	8.5	6.5	9.5
Merged-chr10-69275495-3	chr10	69275387	69275587	+	788.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252638, intron 8 of 11)	intron (NM_001252638, intron 8 of 11)	62293.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	7.5	3.0	19.5	179.0	15.0	7.5	8.0	16.0
Merged-chr6-72395082-4	chr6	72394985	72395185	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4418.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	27.5	29.5	17.0	269.5	64.5	12.5	11.5	33.0
Merged-chr13-33951513-3	chr13	33951421	33951621	+	759.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040707, intron 1 of 4)	intron (NR_040707, intron 1 of 4)	-13138.0	NM_001163239	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	5.0	6.5	14.5	127.0	11.5	4.5	1.0	4.0
Merged-chr9-32501043-4	chr9	32500929	32501129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	40423.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	59.0	120.0	67.0	1417.0	168.5	58.5	85.0	108.0
Merged-chr11-100298439-3	chr11	100298337	100298537	+	767.472229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21512.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	14.0	15.0	1.5	61.5	20.0	11.5	7.0	5.5
Merged-chr19-55868130-4	chr19	55868036	55868236	+	827.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-27185.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	22.5	24.0	37.0	318.0	10.0	4.5	15.0	12.5
Merged-chr17-28692092-4	chr17	28692014	28692214	+	925.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357724)	promoter-TSS (NM_001357724)	-454.0	NM_001168513	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	19.5	29.0	12.0	132.5	43.5	14.0	12.5	16.0
Merged-chr2-4573499-4	chr2	4573411	4573611	+	958.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 3 of 11)	MTD|LTR|ERVL-MaLR	13757.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	14.0	9.5	19.0	427.0	54.5	11.0	26.5	19.0
Merged-chr9-106322700-4	chr9	106322676	106322876	+	806.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	41715.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	9.5	10.5	5.0	100.5	9.0	6.0	10.0	6.0
Merged-chr4-40854134-4	chr4	40854030	40854230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_022305, exon 1 of 6)	5' UTR (NM_022305, exon 1 of 6)	407.0	NM_022305	14595.0	Mm.15622	NM_022305	ENSMUSG00000028413	B4galt1	B-1,4-GalT|B-1,4-GalT1|GalT|Ggtb|Ggtb2|b4Gal-T1|beta-1,4-GalT|beta-1,4-GalT1|beta4Gal-T1	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 1	protein-coding	210.5	472.0	234.0	2929.5	586.0	284.5	290.5	275.0
Merged-chr11-34427410-4	chr11	34427308	34427508	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 27 of 51)	intron (NM_033374, intron 27 of 51)	112586.0	NM_001025382	574403.0	Mm.444796	NM_001025382	ENSMUSG00000069911	Fam196b	EG574403|Gm6041	family with sequence similarity 196, member B	protein-coding	29.0	15.0	33.0	407.5	78.5	12.5	36.5	25.5
Merged-chr6-83131770-4	chr6	83131632	83131832	+	934.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4076.0	NM_001136227	20166.0	Mm.4139	NM_009106	ENSMUSG00000034930	Rtkn	-	rhotekin	protein-coding	18.0	14.0	12.5	146.0	19.5	7.0	10.5	9.0
Merged-chr13-67813987-7	chr13	67813882	67814082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198322, intron 1 of 3)	CpG	166.0	NM_198322	212569.0	Mm.358842	NM_198322	ENSMUSG00000030446	Zfp273	6820416H06Rik|Rslcan1	zinc finger protein 273	protein-coding	32.0	47.0	42.0	377.0	89.0	36.0	32.5	56.0
Merged-chr2-105835075-3	chr2	105834970	105835170	+	671.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023876, intron 4 of 9)	intron (NM_023876, intron 4 of 9)	69494.0	NM_023876	77766.0	Mm.3608	NM_023876	ENSMUSG00000027167	Elp4	A330107A17Rik|Paxneb	elongator acetyltransferase complex subunit 4	protein-coding	3.0	1.0	6.0	44.0	25.5	7.0	9.5	9.5
Merged-chr10-34118647-4	chr10	34118540	34118740	+	766.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9332.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	7.5	14.0	8.0	180.0	28.0	9.5	12.0	8.0
Merged-chr15-59146261-4	chr15	59146158	59146358	+	860.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64232.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	20.0	27.5	14.5	185.0	37.0	8.5	10.0	20.0
Merged-chr6-83654861-3	chr6	83654806	83655006	+	922.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016751, intron 2 of 6)	intron (NM_016751, intron 2 of 6)	1210.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	5.0	6.0	24.5	292.5	3.5	2.5	5.0	11.5
Merged-chr14-25472706-4	chr14	25472624	25472824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	13539.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	53.5	87.0	35.0	805.5	152.0	57.5	57.5	63.0
Merged-chr14-79461090-2	chr14	79460990	79461190	+	734.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018765, exon 10 of 10)	3' UTR (NM_018765, exon 10 of 10)	9255.0	NM_001034882	432879.0	Mm.308666	NM_001034882	ENSMUSG00000075502	Kbtbd6	EG432879|Gm5465|Zbtbd6	kelch repeat and BTB (POZ) domain containing 6	protein-coding	5.0	9.0	9.0	69.0	11.5	4.5	9.0	10.0
Merged-chr4-139212308-4	chr4	139212195	139212395	+	928.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	MIRb|SINE|MIR	18184.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	0.0	5.0	5.5	58.0	20.0	7.5	8.0	13.5
Merged-chr3-135420735-4	chr3	135420636	135420836	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025902, intron 1 of 2)	intron (NM_025902, intron 1 of 2)	2697.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	12.5	17.0	19.5	316.0	88.5	26.0	26.0	30.5
Merged-chr10-99247344-4	chr10	99247238	99247438	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-15893.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	18.0	62.5	13.5	359.0	78.0	26.5	25.5	39.0
Merged-chr5-95922990-3	chr5	95922877	95923077	+	980.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	-33962.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	15.5	19.0	19.5	163.5	15.0	7.5	4.5	12.0
Merged-chr11-45851944-4	chr11	45851883	45852083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346760)	promoter-TSS (NM_001346760)	19.0	NM_001045520	216705.0	Mm.169673	NM_001045520	ENSMUSG00000006169	Clint1	AI642036|AW537616|C530049I24Rik|Enth|Epn4|F630206G17Rik|mKIAA0171	clathrin interactor 1	protein-coding	52.5	90.5	48.0	851.5	139.5	40.5	69.0	45.0
Merged-chr3-105059059-4	chr3	105058944	105059144	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5898.0	NM_030249	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	21.5	20.0	7.0	177.0	48.0	18.0	18.5	20.0
Merged-chr15-77336567-3	chr15	77336490	77336690	+	573.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29537.0	NM_053104	93686.0	Mm.202774	NM_053104	ENSMUSG00000033565	Rbfox2	Fbm2|Fxh|Hrnbp2|Rbm9	RNA binding protein, fox-1 homolog (C. elegans) 2	protein-coding	10.0	8.0	4.5	79.5	6.0	9.5	4.5	14.5
Merged-chr1-165708052-4	chr1	165707930	165708130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178593)	promoter-TSS (NM_178593)	64.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	24.0	43.0	23.5	228.0	47.0	15.5	32.5	8.0
Merged-chr2-35132235-4	chr2	35132144	35132344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290635)	promoter-TSS (NM_001290635)	10.0	NM_001290635	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	120.0	150.5	139.5	1649.0	214.5	80.5	114.5	90.5
Merged-chr19-5878159-2	chr19	5878059	5878259	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134154, exon 1 of 6)	5' UTR (NM_134154, exon 1 of 6)	337.0	NM_001361974	107375.0	Mm.5323	NM_134154	ENSMUSG00000024818	Slc25a45	AW491445	solute carrier family 25, member 45	protein-coding	41.0	44.5	22.5	115.5	48.0	27.5	19.5	17.0
Merged-chr18-23874275-4	chr18	23874187	23874387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 5 of 7)	intron (NM_001162941, intron 5 of 7)	70317.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	49.5	67.5	49.5	672.5	130.5	61.0	50.5	31.0
Merged-chr13-108013291-4	chr13	108013185	108013385	+	878.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31189.0	NM_001048250	75616.0	Mm.491164	NM_001048250	ENSMUSG00000071180	Smim15	2810008M24Rik	small integral membrane protein 15	protein-coding	19.5	24.5	17.5	213.5	23.5	7.5	13.0	5.5
Merged-chr4-132838270-4	chr4	132838151	132838351	+	863.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355198, intron 2 of 6)	intron (NM_001355198, intron 2 of 6)	4883.0	NM_001355198	100336.0	Mm.105230	NM_146154	ENSMUSG00000028882	Ppp1r8	6330548N22Rik|AU044684|NIPP1	protein phosphatase 1, regulatory (inhibitor) subunit 8	protein-coding	18.5	10.5	16.0	248.5	24.5	4.0	6.5	19.5
Merged-chr2-164860312-1	chr2	164860212	164860412	+	621.5	f0_balb.idr	Intergenic	Lx5c|LINE|L1	-2604.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	7.0	15.5	9.0	70.5	36.5	5.5	7.5	11.0
Merged-chr2-157448026-3	chr2	157447924	157448124	+	906.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 2 of 13)	B3A|SINE|B2	23731.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	15.0	37.0	16.5	317.5	32.0	7.0	6.0	4.0
Merged-chr13-97219653-3	chr13	97219551	97219751	+	621.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	-21294.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	13.0	4.0	6.0	79.0	20.5	5.5	13.0	7.0
Merged-chr9-99072718-4	chr9	99072632	99072832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 9 of 23)	intron (NM_029094, intron 9 of 23)	-37042.0	NM_001080776	382097.0	Mm.293727	NM_001080776	ENSMUSG00000044860	Gm1123	AV052824|CLSP	predicted gene 1123	protein-coding	32.5	27.0	24.5	544.0	77.5	34.5	45.5	46.0
Merged-chr9-83599646-4	chr9	83599540	83599740	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172507, exon 4 of 4)	3' UTR (NM_172507, exon 4 of 4)	51302.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	22.0	10.0	16.5	522.5	48.0	4.5	25.0	20.5
Merged-chr17-34850889-2	chr17	34850789	34850989	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021337)	promoter-TSS (NM_021337)	498.0	NM_001045864	27632.0	Mm.653	NM_138580	ENSMUSG00000024369	Nelfe	D17H6S45|NELF-E|RD|Rdbp	negative elongation factor complex member E, Rdbp	protein-coding	5.0	7.0	3.0	57.0	11.5	10.0	7.5	9.5
Merged-chr13-42337227-4	chr13	42337130	42337330	+	879.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35754.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	12.5	17.5	2.0	124.5	64.0	10.5	12.0	13.0
Merged-chr11-9373326-4	chr11	9373240	9373440	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178259, exon 30 of 62)	exon (NM_178259, exon 30 of 62)	181398.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	24.5	14.5	26.0	442.5	62.0	27.0	33.5	21.5
Merged-chr15-102516719-2	chr15	102516619	102516819	+	972.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163643, intron 1 of 15)	CpG	285.0	NM_001163643	26404.0	Mm.172897	NM_009582	ENSMUSG00000023050	Map3k12	DLK|MUK|Zpk	mitogen-activated protein kinase kinase kinase 12	protein-coding	4.0	1.5	4.5	69.0	11.5	6.5	4.5	4.5
Merged-chr10-117282266-4	chr10	117282145	117282345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017372)	promoter-TSS (NM_017372)	27.0	NM_017372	17105.0	Mm.45436	NM_017372	ENSMUSG00000069516	Lyz2	AI326280|Lys|Lysm|Lyzf2|Lyzs|Lzm|Lzm-s1|Lzp	lysozyme 2	protein-coding	66.0	103.0	75.5	624.5	177.0	39.0	69.5	51.5
Merged-chr16-87676425-3	chr16	87676350	87676550	+	818.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-22504.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	10.5	17.0	6.5	230.0	7.0	0.5	10.5	1.0
Merged-chr4-109116683-4	chr4	109116595	109116795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355190, intron 2 of 21)	intron (NM_001355190, intron 2 of 21)	1341.0	NM_173350	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	43.5	54.5	33.0	433.5	83.0	41.5	42.5	21.0
Merged-chr15-90305178-4	chr15	90305072	90305272	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48538.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	20.0	28.0	31.5	764.5	43.5	11.0	29.5	15.5
Merged-chr6-43640757-4	chr6	43640601	43640801	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013861, intron 2 of 8)	intron (NM_013861, intron 2 of 8)	25577.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	13.5	23.5	17.5	310.0	25.5	10.0	9.0	7.0
Merged-chr8-13674475-4	chr8	13674377	13674577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	3110.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	56.0	101.5	82.5	1328.0	126.0	50.5	85.5	61.5
Merged-chr5-147046484-3	chr5	147046388	147046588	+	989.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	30084.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	31.5	7.0	16.5	513.0	5.5	0.0	3.5	5.5
Merged-chr3-116804679-2	chr3	116804580	116804780	+	748.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001362367, intron 2 of 27)	intron (NM_001362367, intron 2 of 27)	3486.0	NM_001362367	77559.0	Mm.237099	NM_001081326	ENSMUSG00000033400	Agl	1110061O17Rik|9430004C13Rik|9630046L06Rik|AI850929|C77197	amylo-1,6-glucosidase, 4-alpha-glucanotransferase	protein-coding	4.5	0.0	2.0	1.5	15.5	13.0	12.5	16.5
Merged-chr5-43180625-4	chr5	43180515	43180715	+	986.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	intron (NR_028417, intron 5 of 7)	-52848.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	32.0	33.0	27.0	552.0	68.0	23.0	25.5	20.5
Merged-chr10-4601245-4	chr10	4601158	4601358	+	946.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10731.0	NM_001302532	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	20.0	25.5	10.0	327.0	47.0	10.0	10.5	4.5
Merged-chr2-114654774-4	chr2	114654696	114654896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025675, intron 1 of 8)	CpG	168.0	NM_001356438	66632.0	Mm.117809	NM_025675	ENSMUSG00000057147	Dph6	5730421E18Rik|Atpbd4	diphthamine biosynthesis 6	protein-coding	105.0	178.5	223.0	2339.5	192.5	101.0	123.5	124.0
Merged-chr10-7681573-4	chr10	7681470	7681670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033219)	promoter-TSS (NR_033219)	361.0	NM_010690	16798.0	Mm.34083	NM_010690	ENSMUSG00000040021	Lats1	AW208599	large tumor suppressor	protein-coding	18.0	38.5	45.0	358.0	68.0	19.5	40.5	26.0
Merged-chr6-97417110-4	chr6	97417015	97417215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 4 of 23)	intron (NM_145148, intron 4 of 23)	42171.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	28.5	59.0	31.5	356.5	76.5	28.5	32.5	28.5
Merged-chr13-56163046-4	chr13	56162946	56163146	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15839.0	NM_145976	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	16.5	22.5	31.0	444.5	41.0	5.5	12.0	8.0
Merged-chr6-51612683-6	chr6	51612559	51612759	+	802.227783	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	67366.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	10.5	18.5	12.0	233.0	17.0	10.5	13.0	15.0
Merged-chr2-27749981-4	chr2	27749896	27750096	+	792.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 5 of 9)	intron (NM_001290481, intron 5 of 9)	39413.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	23.0	25.0	8.0	219.0	21.0	5.5	8.0	21.0
Merged-chr2-126491636-4	chr2	126491549	126491749	+	918.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080944)	promoter-TSS (NM_001080944)	-96.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	15.5	40.0	20.5	400.0	25.5	7.0	12.0	14.0
Merged-chr11-58610194-2	chr11	58610081	58610281	+	784.5	f0_balb.idr|f1_balb.idr	intron (NM_144544, intron 5 of 5)	MLT1F2|LTR|ERVL-MaLR	3311.0	NM_144544	78354.0	Mm.58038	NM_144544	ENSMUSG00000037145	2210407C18Rik	Ep1	RIKEN cDNA 2210407C18 gene	protein-coding	4.5	19.0	5.5	232.0	1.0	2.5	1.0	0.0
Merged-chr4-116720820-4	chr4	116720738	116720938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146151)	promoter-TSS (NM_146151)	-117.0	NM_146151	230661.0	Mm.482431	NM_146151	ENSMUSG00000033985	Tesk2	-	testis-specific kinase 2	protein-coding	151.5	245.5	106.0	1831.0	387.5	127.5	138.0	128.0
Merged-chr13-43790814-4	chr13	43790710	43790910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	5698.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	130.0	250.5	128.0	1937.5	291.5	145.0	129.0	108.5
Merged-chr5-90892494-1	chr5	90892394	90892594	+	615.0	f1_c57bl6.idr	intron (NM_008176, intron 3 of 3)	intron (NM_008176, intron 3 of 3)	1249.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	5.5	21.0	8.0	10.5	8.5	3.0	1.5	1.5
Merged-chr5-112342506-1	chr5	112342406	112342606	+	577.0	f0_balb.idr	promoter-TSS (NM_138646)	promoter-TSS (NM_138646)	534.0	NM_001359388	70118.0	Mm.172947	NM_027323	ENSMUSG00000029346	Srrd	2810002G02Rik|Srr1	SRR1 domain containing	protein-coding	4.0	9.0	10.5	88.0	9.5	10.0	5.0	10.0
Merged-chr10-117862090-2	chr10	117861977	117862177	+	870.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-16103.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	2.0	2.5	0.5	34.0	19.5	6.5	4.5	10.5
Merged-chr13-3918170-4	chr13	3918065	3918265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019671)	promoter-TSS (NM_019671)	55.0	NM_019671	56349.0	Mm.22261	NM_019671	ENSMUSG00000021215	Net1	Net1a|mNET1	neuroepithelial cell transforming gene 1	protein-coding	74.5	83.5	108.5	1163.5	120.0	49.5	62.0	45.5
Merged-chr3-89378695-6	chr3	89378644	89378844	+	980.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001355206, exon 4 of 4)	3' UTR (NM_001355206, exon 4 of 4)	8927.0	NM_001355212	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	23.0	18.0	7.0	189.5	35.0	21.0	13.0	13.0
Merged-chr11-115047927-1	chr11	115047827	115048027	+	619.0	f0_balb.idr	intron (NM_199201, intron 1 of 3).2	ID_B1|SINE|B4	368.0	NM_199201	382551.0	Mm.424732	NM_199201	ENSMUSG00000069607	Cd300ld3	AY457049|Cd300lh|Clm3|Lmir7|clm-3	CD300 molecule like family member D3	protein-coding	6.0	7.0	10.5	86.0	7.0	0.5	3.0	6.0
Merged-chr12-116077667-4	chr12	116077564	116077764	+	869.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009511)	promoter-TSS (NM_009511)	-62.0	NM_009511	22355.0	Mm.395245	NM_009511	ENSMUSG00000011171	Vipr2	VPAC2|VPAC2R|Vip2	vasoactive intestinal peptide receptor 2	protein-coding	10.5	9.0	18.0	185.0	21.0	4.0	11.5	11.5
Merged-chr11-3183989-2	chr11	3183888	3184088	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	9475.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	30.0	35.5	47.5	241.5	3.0	2.5	0.0	1.0
Merged-chr1-127204979-4	chr1	127204884	127205084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145128)	promoter-TSS (NM_145128)	-2.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	36.0	43.5	28.0	708.5	105.0	30.0	46.0	49.5
Merged-chr2-18694299-8	chr2	18694181	18694381	+	997.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4741.0	NM_001001334	381350.0	Mm.330024	NM_001001334	ENSMUSG00000037708	Spag6	Spag6l	sperm associated antigen 6	protein-coding	13.0	26.5	27.5	205.5	52.5	22.0	25.5	43.0
Merged-chr18-46370821-4	chr18	46370734	46370934	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58906.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	17.0	7.5	45.5	702.5	57.0	12.5	42.0	31.0
Merged-chr12-26464577-4	chr12	26464474	26464674	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4641.0	NM_020557	22169.0	Mm.271839	NM_020557	ENSMUSG00000020638	Cmpk2	1200004E04Rik|TDKI|Tyki	cytidine monophosphate (UMP-CMP) kinase 2, mitochondrial	protein-coding	29.5	58.0	19.0	429.0	39.0	20.0	10.5	9.0
Merged-chr1-78678663-3	chr1	78678553	78678753	+	898.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028817, intron 2 of 15)	ORR1C2|LTR|ERVL-MaLR	20213.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	16.0	17.0	18.0	300.5	8.0	1.5	4.0	1.0
Merged-chr19-42157903-3	chr19	42157766	42157966	+	867.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10477.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	6.0	8.0	4.0	59.0	8.0	7.0	6.5	6.0
Merged-chr17-57029907-4	chr17	57029874	57030074	+	748.71875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010613, intron 1 of 17)	intron (NM_010613, intron 1 of 17)	1533.0	NM_010613	16549.0	Mm.34296	NM_010613	ENSMUSG00000007670	Khsrp	6330409F21Rik|Fbp2|Fubp2|Ksrp	KH-type splicing regulatory protein	protein-coding	5.0	14.0	3.5	52.5	8.0	7.5	8.5	5.0
Merged-chr9-94669867-4	chr9	94669782	94669982	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177909)	promoter-TSS (NM_177909)	-10.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	30.5	23.5	41.5	514.0	43.0	15.5	30.5	21.0
Merged-chr8-106527439-2	chr8	106527339	106527539	+	738.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_007665, intron 2 of 15)	intron (NM_007665, intron 2 of 15)	16587.0	NM_001037809	12560.0	Mm.4658	NM_007665	ENSMUSG00000061048	Cdh3	AI385538|Cadp|Cdhp|P-cadherin|Pcad	cadherin 3	protein-coding	4.5	8.0	13.0	79.5	5.0	3.5	5.0	6.5
Merged-chr1-138153310-4	chr1	138153207	138153407	+	906.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	21819.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	9.5	20.0	23.0	216.5	28.5	7.0	17.5	8.0
Merged-chr7-97798266-4	chr7	97798168	97798368	+	959.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357364, intron 1 of 14)	L2c|LINE|L2	9727.0	NM_001357364	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	21.0	27.5	20.5	370.5	48.0	9.0	15.5	17.0
Merged-chr17-74529364-4	chr17	74529252	74529452	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007566, intron 1 of 72)	intron (NM_007566, intron 1 of 72)	1057.0	NM_007566	12211.0	Mm.442564	NM_007566	ENSMUSG00000024073	Birc6	A430032G04Rik|A430040A19Rik|AA501170|Bruce|D630005A10Rik|mKIAA1289	baculoviral IAP repeat-containing 6	protein-coding	15.0	17.5	31.0	206.0	36.0	12.0	24.0	25.5
Merged-chr19-47133284-4	chr19	47133183	47133383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133746, intron 2 of 2)	intron (NM_133746, intron 2 of 2)	5011.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	57.5	77.0	80.5	875.5	92.5	29.0	41.0	50.0
Merged-chr14-103088799-3	chr14	103088701	103088901	+	729.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360342, intron 4 of 4)	ORR1E|LTR|ERVL-MaLR	10203.0	NM_001360341	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	7.0	10.5	11.0	114.0	13.5	4.5	4.0	4.5
Merged-chr9-83574872-2	chr9	83574777	83574977	+	662.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	MTC|LTR|ERVL-MaLR	26539.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	5.5	11.0	12.5	148.0	21.0	6.0	8.0	1.5
Merged-chr1-64797423-4	chr1	64797316	64797516	+	935.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 7 of 7)	intron (NM_001039493, intron 7 of 7)	-59666.0	NM_022721	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	23.5	27.5	22.5	453.0	34.0	14.5	15.0	19.0
Merged-chr15-75019686-3	chr15	75019582	75019782	+	648.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-21651.0	NM_010738	110454.0	Mm.425949	NM_010738	ENSMUSG00000075602	Ly6a	Ly-6A.2|Ly-6A/E|Ly-6E.1|Sca-1|Sca1|TAP	lymphocyte antigen 6 complex, locus A	protein-coding	1.5	4.5	1.0	1.5	14.0	7.5	11.0	9.5
Merged-chr12-8519632-4	chr12	8519503	8519703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19594.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	110.5	138.0	134.0	2915.5	328.0	82.5	177.0	125.0
Merged-chr6-38551333-4	chr6	38551225	38551425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138680)	promoter-TSS (NM_138680)	-9.0	NM_138680	192196.0	Mm.276133	NM_138680	ENSMUSG00000029823	Luc7l2	4930471C18Rik|AA522013|AU015269|CGI59|Cgi74	LUC7-like 2 (S. cerevisiae)	protein-coding	158.5	270.5	148.5	2150.5	553.0	208.5	230.0	221.5
Merged-chr11-54884607-4	chr11	54884504	54884704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	18221.0	NM_008248	15254.0	Mm.425	NM_008248	ENSMUSG00000020267	Hint1	AA673479|Hint|Ipk1|PKCI-1|PRKCNH1	histidine triad nucleotide binding protein 1	protein-coding	63.5	70.5	83.0	970.5	127.0	51.0	55.0	80.0
Merged-chr12-41313605-4	chr12	41313518	41313718	+	927.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	172439.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	26.5	24.5	22.0	200.0	39.5	14.0	18.5	16.5
Merged-chr9-64022086-4	chr9	64021989	64022189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008542)	promoter-TSS (NM_008542)	-30.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	124.0	203.5	110.5	2140.0	408.0	156.5	149.0	165.5
Merged-chr8-110998367-4	chr8	110998256	110998456	+	899.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007916)	promoter-TSS (NM_007916)	-533.0	NM_007916	13680.0	Mm.287901	NM_007916	ENSMUSG00000015023	Ddx19a	DBP5|Ddx19|Eif4a-rs1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 19a	protein-coding	19.0	22.0	5.5	140.5	38.5	11.0	11.0	11.5
Merged-chr18-6531378-3	chr18	6531287	6531487	+	844.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-15279.0	NM_007935	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	23.0	21.0	33.5	626.5	6.0	1.0	5.5	3.0
Merged-chr6-134310454-3	chr6	134310343	134310543	+	997.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153848, intron 8 of 8)	L1_Mus2|LINE|L1	-85886.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	30.5	43.5	48.0	262.0	20.5	7.0	7.0	7.0
Merged-chr3-131272096-4	chr3	131272000	131272200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008212)	promoter-TSS (NM_008212)	1.0	NM_008212	15107.0	Mm.260164	NM_008212	ENSMUSG00000027984	Hadh	AA409008|AU019341|AW742602|HCDH|Hadhsc|Schad	hydroxyacyl-Coenzyme A dehydrogenase	protein-coding	113.0	148.0	97.0	2004.5	252.5	91.0	132.5	89.0
Merged-chr17-48270906-4	chr17	48270816	48271016	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033922, intron 4 of 5)	intron (NM_001033922, intron 4 of 5)	6621.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	7.5	28.5	18.0	180.5	26.5	12.0	10.0	6.0
Merged-chr10-60259861-4	chr10	60259768	60259968	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17760.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	15.5	18.0	16.5	163.0	75.0	19.5	17.5	18.5
Merged-chr16-65371136-4	chr16	65371049	65371249	+	852.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149480.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	8.5	15.0	5.0	140.5	21.5	13.5	13.0	14.5
Merged-chr9-108443532-4	chr9	108443427	108443627	+	950.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004192, intron 2 of 3)	intron (NM_001004192, intron 2 of 3)	7045.0	NM_001004192	434439.0	Mm.78372	NM_001004192	ENSMUSG00000050641	BC048562	-	cDNA sequence BC048562	protein-coding	31.0	25.0	14.5	419.0	47.0	11.0	22.5	24.0
Merged-chr15-12375728-4	chr15	12375603	12375803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081064, exon 19 of 24)	exon (NM_001081064, exon 19 of 24)	54207.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	70.0	107.0	70.0	940.5	169.5	58.0	71.0	63.0
Merged-chr11-94716975-4	chr11	94716828	94717028	+	685.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger1|DNA|TcMar-Tigger	-12429.0	NM_001007584	432589.0	Mm.342314	NM_001007584	ENSMUSG00000056008	Gm11541	-	predicted gene 11541	protein-coding	9.0	9.5	5.5	94.5	20.0	8.5	7.0	10.0
Merged-chr11-59540802-2	chr11	59540702	59540902	+	978.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359638)	promoter-TSS (NM_001359638)	-767.0	NM_001359638	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	1.0	2.5	7.0	41.0	10.5	5.0	5.5	9.5
Merged-chr13-54828756-3	chr13	54828665	54828865	+	697.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39360.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	2.5	7.5	2.0	2.0	32.5	5.0	19.0	12.0
Merged-chr14-118691094-4	chr14	118690978	118691178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163676, intron 1 of 29)	intron (NM_001163676, intron 1 of 29)	-14147.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	52.5	43.0	47.5	1144.0	102.5	31.0	39.0	55.5
Merged-chr11-88958841-1	chr11	88958741	88958941	+	561.0	f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-3399.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	0.0	0.0	0.0	26.0	11.0	10.0	5.0	10.0
Merged-chr7-80092633-4	chr7	80092534	80092734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001146000, exon 6 of 6)	3' UTR (NM_001146000, exon 6 of 6)	-17377.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	64.0	68.0	60.5	884.0	79.5	33.5	42.5	55.0
Merged-chr2-157133906-4	chr2	157133805	157134005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139520, intron 1 of 16)	BC1_Mm|scRNA|scRNA	1317.0	NM_001139520	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	32.0	43.0	54.0	558.0	58.5	28.0	32.0	40.0
Merged-chr4-149398438-3	chr4	149398336	149398536	+	947.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022022, intron 2 of 26)	intron (NM_022022, intron 2 of 26)	28195.0	NM_022022	63958.0	Mm.415260	NM_022022	ENSMUSG00000028960	Ube4b	4930551I19Rik|4933406G05Rik|AU014668|D4Bwg0973e|UFD2|UFD2a|Ufd2p|mKIAA0684	ubiquitination factor E4B	protein-coding	11.0	21.0	18.5	263.5	20.5	3.0	16.5	4.5
Merged-chr10-20105525-4	chr10	20105414	20105614	+	939.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 18 of 29)	intron (NM_008580, intron 18 of 29)	-43406.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	29.5	14.0	19.5	307.0	38.5	21.0	8.0	14.0
Merged-chr13-8785482-3	chr13	8785340	8785540	+	810.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85604.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	5.5	12.5	5.5	74.0	14.0	4.5	1.5	6.0
Merged-chr9-57629404-4	chr9	57629275	57629475	+	805.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 7 of 14)	intron (NM_001304761, intron 7 of 14)	-8601.0	NM_199222	235416.0	Mm.295630	NM_199222	ENSMUSG00000056271	Lman1l	BC020188|slamp	lectin, mannose-binding 1 like	protein-coding	8.5	11.0	6.0	109.5	28.5	7.5	10.0	7.5
Merged-chr9-77689385-1	chr9	77689285	77689485	+	675.0	f0_balb.idr	Intergenic	Intergenic	52653.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	7.5	10.0	7.0	120.5	14.0	4.5	4.0	3.0
Merged-chr8-69996526-4	chr8	69996426	69996626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145596)	promoter-TSS (NM_145596)	-142.0	NM_145596	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	402.0	650.0	533.0	6609.0	1045.0	485.5	568.0	495.5
Merged-chr18-83984196-4	chr18	83984088	83984288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	102374.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	32.5	39.5	33.0	493.0	145.0	36.0	79.5	73.0
Merged-chr7-5014792-4	chr7	5014698	5014898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025324)	promoter-TSS (NM_025324)	-70.0	NM_001110328	23877.0	Mm.38911	NM_011813	ENSMUSG00000061374	Fiz1	AI790204|mFLJ00416	Flt3 interacting zinc finger protein 1	protein-coding	95.0	171.5	112.5	1189.0	297.0	136.5	121.5	158.5
Merged-chr15-91172371-4	chr15	91172260	91172460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011994, intron 6 of 9)	intron (NM_011994, intron 6 of 9)	19647.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	56.5	79.5	76.0	1419.5	113.0	28.5	30.5	55.0
Merged-chr2-118507292-4	chr2	118507163	118507363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie2b|DNA|hAT-Charlie	-27567.0	NM_009273	20813.0	Mm.363404	NM_009273	ENSMUSG00000009549	Srp14	14kDa|AW536328	signal recognition particle 14	protein-coding	33.0	37.5	20.5	320.5	73.5	33.5	26.0	32.0
Merged-chr2-167063145-4	chr2	167063033	167063233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033196)	promoter-TSS (NM_001033196)	-118.0	NM_001033196	98999.0	Mm.297074	NM_001033196	ENSMUSG00000039501	Znfx1	AI481105|Astx3	zinc finger, NFX1-type containing 1	protein-coding	146.0	180.5	79.5	1490.5	344.0	109.5	126.5	119.5
Merged-chr1-180813657-4	chr1	180813552	180813752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008210)	promoter-TSS (NM_008210)	-47.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	185.5	283.0	187.0	1806.5	455.5	189.0	188.5	202.5
Merged-chr10-57795762-2	chr10	57795662	57795862	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_020561, intron 1 of 7)	intron (NM_020561, intron 1 of 7)	1218.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	7.5	9.5	7.5	104.5	11.5	3.5	13.5	10.5
Merged-chr11-53617399-4	chr11	53617290	53617490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027491)	promoter-TSS (NR_027491)	-52.0	NR_027491	16189.0	Mm.276360	NM_021283	ENSMUSG00000000869	Il4	BSF-1|Il-4	interleukin 4	protein-coding	41.0	64.5	47.0	924.0	86.5	17.5	37.5	37.5
Merged-chr5-34949431-4	chr5	34949332	34949532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173402)	promoter-TSS (NM_173402)	-16.0	NM_173402	71729.0	Mm.196208	NM_173402	ENSMUSG00000029101	Rgs12	1200016K18Rik|4632412M04Rik|AI481290|E130309H11	regulator of G-protein signaling 12	protein-coding	89.5	91.0	95.0	1086.0	188.0	64.0	85.5	52.0
Merged-chr15-73148364-4	chr15	73148276	73148476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	36571.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	20.0	34.0	36.0	405.0	89.5	36.5	37.5	49.5
Merged-chr11-68548598-4	chr11	68548500	68548700	+	930.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004435, intron 18 of 19)	intron (NM_001004435, intron 18 of 19)	-7586.0	NM_146004	215723.0	Mm.131205	NM_146004	ENSMUSG00000048329	Mfsd6l	-	major facilitator superfamily domain containing 6-like	protein-coding	14.0	36.0	9.0	126.5	40.5	20.5	2.0	15.5
Merged-chr6-136543311-4	chr6	136543219	136543419	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	24468.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	13.0	20.5	19.5	362.0	66.0	31.0	46.5	28.5
Merged-chr3-85195275-4	chr3	85195194	85195394	+	920.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-122225.0	NR_040542	73283.0	Mm.489084	NR_040542	ENSMUSG00000099995	1700036G14Rik	-	RIKEN cDNA 1700036G14 gene	ncRNA	11.0	12.0	28.5	241.0	13.5	8.0	12.5	7.0
Merged-chr5-105345181-3	chr5	105345062	105345262	+	778.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132129, intron 1 of 10)	intron (NR_132129, intron 1 of 10)	1310.0	NM_001039647	634650.0	Mm.458435	NM_001039647	ENSMUSG00000092021	Gbp11	EG634650|Gm7141	guanylate binding protein 11	protein-coding	5.5	7.5	8.0	60.5	12.5	2.5	5.5	5.5
Merged-chr11-69121108-2	chr11	69121008	69121208	+	727.041626	f1_balb.idr|f1_c57bl6.idr	intron (NM_033041, intron 1 of 3)	intron (NM_033041, intron 1 of 3)	655.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	3.5	1.5	1.5	43.0	5.5	6.0	5.0	5.0
Merged-chr9-22130663-4	chr9	22130579	22130779	+	986.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007388)	promoter-TSS (NM_007388)	-81.0	NM_007388	11433.0	Mm.46354	NM_007388	ENSMUSG00000001348	Acp5	TRACP|TRAP	acid phosphatase 5, tartrate resistant	protein-coding	37.5	76.5	53.5	300.5	99.5	43.0	30.0	17.0
Merged-chr2-181691815-4	chr2	181691731	181691931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291205)	promoter-TSS (NM_001291205)	-14.0	NM_001291205	56470.0	Mm.274366	NM_026446	ENSMUSG00000002458	Rgs19	2610042F04Rik|AI324841|AW547781|GAIP	regulator of G-protein signaling 19	protein-coding	21.0	34.5	13.0	514.0	40.0	26.0	20.5	21.0
Merged-chr19-27429919-4	chr19	27429826	27430026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131940)	promoter-TSS (NR_131940)	-18.0	NR_131940	52874.0	Mm.261027	NM_177474	ENSMUSG00000041360	Pum3	1110069H02Rik|AA675048|D19Bwg1357e	pumilio RNA-binding family member 3	protein-coding	241.5	348.5	218.5	3711.5	508.0	225.0	272.5	207.5
Merged-chr9-60741949-2	chr9	60741849	60742049	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28828.0	NM_026235	67557.0	Mm.44546	NM_026235	ENSMUSG00000034839	Larp6	5430431G03Rik|AI552438|Achn	La ribonucleoprotein domain family, member 6	protein-coding	11.5	10.5	6.0	88.0	9.0	4.0	4.5	4.5
Merged-chr1-144002149-3	chr1	144002005	144002205	+	925.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009061, intron 4 of 4)	intron (NM_009061, intron 4 of 4)	2044.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	9.0	10.0	4.0	71.0	25.0	8.0	16.5	13.5
Merged-chr14-27351671-4	chr14	27351560	27351760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	-9729.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	60.0	147.0	77.0	1281.0	151.5	54.5	44.0	48.0
Merged-chr16-76366071-4	chr16	76365988	76366188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	6961.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	41.5	48.5	50.0	843.5	90.0	35.5	49.0	27.5
Merged-chr5-150601383-2	chr5	150601283	150601483	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001362416, exon 8 of 8)	3' UTR (NM_001362416, exon 8 of 8)	-6858.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	9.5	16.5	14.0	118.5	19.0	14.5	6.0	16.0
Merged-chr10-22357640-3	chr10	22357532	22357732	+	971.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	ORR1D1|LTR|ERVL-MaLR	-4262.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	8.0	32.0	14.0	70.0	23.5	11.0	7.5	6.5
Merged-chr19-23758358-4	chr19	23758265	23758465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177034)	promoter-TSS (NM_177034)	-511.0	NM_177034	319924.0	Mm.22879	NM_177034	ENSMUSG00000024897	Apba1	6430513E09Rik|Lin-10|Mint|Mint1|Urop11|X11|X11alpha	amyloid beta (A4) precursor protein binding, family A, member 1	protein-coding	40.5	83.5	40.5	722.0	110.0	60.0	58.0	48.5
Merged-chr2-129315997-4	chr2	129315897	129316097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6025.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	44.0	47.0	49.0	726.0	128.0	66.5	67.0	64.5
Merged-chr2-24341643-4	chr2	24341527	24341727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031167, intron 1 of 4)	intron (NM_031167, intron 1 of 4)	-3664.0	NM_001159562	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	22.0	34.5	23.0	349.5	73.5	28.0	24.0	36.5
Merged-chr4-108348666-4	chr4	108348564	108348764	+	946.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	20512.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	16.5	16.0	15.5	431.5	53.0	10.5	7.0	15.5
Merged-chr5-143113063-4	chr5	143112935	143113135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207110)	promoter-TSS (NM_207110)	-15.0	NM_001359851	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	78.0	120.5	47.0	760.0	215.0	96.5	103.0	95.5
Merged-chr5-140389312-4	chr5	140389195	140389395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172277)	promoter-TSS (NM_172277)	13.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	88.5	110.5	58.5	709.5	211.5	87.5	84.5	84.0
Merged-chr11-110337645-4	chr11	110337498	110337698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_147219, exon 1 of 39)	5' UTR (NM_147219, exon 1 of 39)	118.0	NM_147219	217265.0	Mm.41942	NM_147219	ENSMUSG00000018800	Abca5	ABC13|B930033A02Rik|mKIAA1888	ATP-binding cassette, sub-family A (ABC1), member 5	protein-coding	27.5	24.0	26.0	234.5	46.0	21.5	16.0	18.0
Merged-chr2-128746714-4	chr2	128746613	128746813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	47798.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	36.0	29.0	25.0	762.0	85.0	20.0	40.0	48.0
Merged-chr5-137871795-4	chr5	137871704	137871904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024932)	promoter-TSS (NM_001024932)	-46.0	NM_001024932	545812.0	Mm.332769	NM_001024932	ENSMUSG00000066682	Pilrb2	EG545812	paired immunoglobin-like type 2 receptor beta 2	protein-coding	37.5	52.5	30.5	261.0	43.0	23.0	21.5	21.5
Merged-chr18-34954753-4	chr18	34954649	34954849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010481)	promoter-TSS (NM_010481)	-398.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	180.0	322.5	121.0	2216.0	390.0	169.5	179.5	150.5
Merged-chr4-132944307-4	chr4	132944213	132944413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21762.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	68.0	71.0	74.5	1030.5	113.5	43.0	39.0	47.0
Merged-chr2-29827244-4	chr2	29827145	29827345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026615)	promoter-TSS (NM_026615)	-144.0	NM_026615	68205.0	Mm.20273	NM_026615	ENSMUSG00000069020	Urm1	2900073H19Rik	ubiquitin related modifier 1	protein-coding	127.0	271.5	98.0	1771.5	370.0	124.5	136.5	128.0
Merged-chr12-3221278-4	chr12	3221188	3221388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-14503.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	93.5	162.5	116.5	380.5	198.5	76.5	90.5	95.5
Merged-chr17-84183606-4	chr17	84183520	84183720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001001806)	TTS (NM_001001806)	4327.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	64.5	116.5	59.0	1239.5	205.0	54.5	93.5	81.5
Merged-chr11-46817917-4	chr11	46817817	46818017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 3 of 8)	intron (NM_178759, intron 3 of 8)	7118.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	62.5	87.5	102.0	1390.5	189.5	48.0	52.0	39.0
Merged-chr13-17781995-4	chr13	17781905	17782105	+	975.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027118, intron 1 of 13)	L1_Mus3|LINE|L1	23092.0	NM_001081058	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	20.0	23.5	21.0	82.5	97.0	31.0	30.0	32.5
Merged-chr1-152168550-4	chr1	152168421	152168621	+	895.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78201.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	14.0	10.5	38.5	437.0	24.0	5.0	6.0	14.5
Merged-chr19-12796267-4	chr19	12796162	12796362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024093)	promoter-TSS (NR_024093)	69.0	NM_001361971	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	202.0	290.0	215.5	2589.5	487.0	177.5	204.0	153.5
Merged-chr15-35376635-3	chr15	35376516	35376716	+	862.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177151, intron 2 of 61)	URR1A|DNA|hAT-Charlie	5070.0	NM_177151	666173.0	Mm.309250	NM_177151	ENSMUSG00000037646	Vps13b	1810042B05Rik|2310042E16Rik|4732488H20|C330002D13Rik|C87206|Coh1|D230005K13|mKIAA0532|mKIAA5032	vacuolar protein sorting 13B	protein-coding	7.5	6.0	5.0	79.0	12.0	5.5	4.5	11.5
Merged-chr12-111592646-4	chr12	111592530	111592730	+	971.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022801, exon 2 of 16)	exon (NM_022801, exon 2 of 16)	18120.0	NM_022801	17169.0	Mm.260504	NM_021516	ENSMUSG00000007411	Mark3	1600015G02Rik|A430080F22Rik|C-TAK1|ETK-1|ETK1|Emk2|MPK10	MAP/microtubule affinity regulating kinase 3	protein-coding	24.5	42.0	14.0	218.5	33.5	23.5	11.5	5.5
Merged-chr10-36888358-3	chr10	36888231	36888431	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86213.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	5.0	7.0	8.0	152.0	15.0	4.0	2.0	7.0
Merged-chr8-121635751-3	chr8	121635657	121635857	+	686.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080855, intron 1 of 12)	intron (NM_080855, intron 1 of 12)	16176.0	NM_080855	142682.0	Mm.103202	NM_080855	ENSMUSG00000061410	Zcchc14	AA792890|BDG29	zinc finger, CCHC domain containing 14	protein-coding	6.5	11.5	7.0	128.5	1.0	0.5	4.5	7.5
Merged-chr19-47089838-3	chr19	47089740	47089940	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011053)	promoter-TSS (NM_011053)	785.0	NM_023211	66477.0	Mm.29722	NM_023211	ENSMUSG00000071528	Usmg5	2010301L15Rik	upregulated during skeletal muscle growth 5	protein-coding	4.0	7.5	2.5	94.0	7.5	6.0	6.5	12.5
Merged-chr5-123945455-3	chr5	123945352	123945552	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134767, intron 5 of 12)	intron (NM_001134767, intron 5 of 12)	14763.0	NM_001134767	208908.0	Mm.243679	NM_001134767	ENSMUSG00000061882	Ccdc62	AI661708|G1-485-3|Gm150|repro29	coiled-coil domain containing 62	protein-coding	36.5	43.0	34.5	432.0	3.5	0.0	0.0	0.0
Merged-chr16-92038131-4	chr16	92038022	92038222	+	958.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20200.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	17.5	34.0	29.5	333.5	56.0	6.0	7.0	15.0
Merged-chr2-129675128-4	chr2	129675053	129675253	+	866.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23505.0	NM_001286502	18610.0	Mm.6239	NM_018863	ENSMUSG00000027400	Pdyn	Dyn	prodynorphin	protein-coding	4.0	22.5	8.0	137.0	36.5	14.0	11.5	12.0
Merged-chr5-31200813-3	chr5	31200716	31200916	+	958.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175311, exon 3 of 4)	exon (NM_175311, exon 3 of 4)	1226.0	NM_001177901	101023.0	Mm.45033	NM_175311	ENSMUSG00000043059	Zfp513	AW990386|D430028M17Rik|Znf513	zinc finger protein 513	protein-coding	12.0	11.0	16.5	164.5	17.0	13.5	2.5	10.5
Merged-chr5-148711635-1	chr5	148711535	148711735	+	735.0	f0_c57.idr	Intergenic	Intergenic	-30205.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	0.0	1.0	3.0	33.0	29.0	5.0	10.5	5.5
Merged-chr7-30954095-2	chr7	30953995	30954195	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011680, intron 7 of 9)	intron (NM_011680, intron 7 of 9)	2708.0	NM_011680	22282.0	Mm.322453	NM_011680	ENSMUSG00000058239	Usf2	Usf-2|bHLHb12	upstream transcription factor 2	protein-coding	3.5	8.0	6.5	85.0	30.0	9.0	8.5	7.5
Merged-chr9-53247560-3	chr9	53247448	53247648	+	922.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029936, intron 1 of 17)	intron (NM_029936, intron 1 of 17)	564.0	NM_029936	77591.0	Mm.133560	NM_029936	ENSMUSG00000053289	Ddx10	4632415A01Rik|AI646054	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	protein-coding	14.0	8.5	5.0	130.5	12.5	7.5	4.0	5.5
Merged-chr17-12416446-2	chr17	12416289	12416489	+	574.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008877, intron 17 of 18)	intron (NM_008877, intron 17 of 18)	37780.0	NM_008877	18815.0	Mm.971	NM_008877	ENSMUSG00000059481	Plg	AI649309|Pg	plasminogen	protein-coding	1.0	7.5	4.5	40.5	9.0	7.5	8.0	10.0
Merged-chr10-99168591-4	chr10	99168483	99168683	+	968.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	60448.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	15.5	31.0	13.5	209.0	48.5	24.5	36.0	17.0
Merged-chr5-64290100-4	chr5	64289974	64290174	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	intron (NM_001289514, intron 11 of 18)	59717.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	13.5	11.0	12.0	289.0	32.5	2.0	24.0	6.5
Merged-chr15-31586672-4	chr15	31586581	31586781	+	858.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181588, intron 4 of 5)	intron (NM_181588, intron 4 of 5)	14858.0	NM_001348035	12465.0	Mm.282158	NM_007637	ENSMUSG00000022234	Cct5	CCT-epsilon|Ccte|TCP-1-epsilon|TCPE|mKIAA0098	chaperonin containing Tcp1, subunit 5 (epsilon)	protein-coding	6.5	16.5	8.5	120.5	33.5	12.5	9.0	7.5
Merged-chr16-91354341-3	chr16	91354246	91354446	+	885.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-18437.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	28.0	23.0	15.0	276.5	35.0	11.0	24.0	12.5
Merged-chr17-6154627-3	chr17	6154529	6154729	+	945.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054040, intron 1 of 13)	intron (NM_054040, intron 1 of 13)	16481.0	NM_054040	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	9.5	22.5	3.5	161.5	19.0	12.0	7.0	5.0
Merged-chr5-111178361-2	chr5	111178268	111178468	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001267622, intron 5 of 22)	intron (NM_001267622, intron 5 of 22)	-152329.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	24.5	57.5	25.0	231.0	72.0	40.5	27.5	37.5
Merged-chr4-19942413-4	chr4	19942301	19942501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19835.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	87.0	100.0	132.5	2366.5	139.0	52.0	72.0	89.0
Merged-chr4-33310258-4	chr4	33310165	33310365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011884)	promoter-TSS (NM_011884)	-46.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	139.0	211.0	125.0	2092.0	395.0	131.0	177.0	178.5
Merged-chr14-31394987-4	chr14	31394879	31395079	+	899.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	22698.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	23.5	14.0	25.5	242.5	33.5	9.5	12.5	32.5
Merged-chr8-120511033-4	chr8	120510933	120511133	+	940.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	PB1D7|SINE|Alu	22167.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	20.5	50.0	10.5	182.5	82.5	17.0	17.0	19.0
Merged-chr2-156295904-3	chr2	156295795	156295995	+	925.9111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 13 of 17)	intron (NM_172674, intron 13 of 17)	-16578.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	6.0	13.0	17.0	165.5	14.5	5.5	4.0	19.5
Merged-chr1-190927945-4	chr1	190927845	190928045	+	972.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357131)	promoter-TSS (NM_001357131)	-545.0	NM_001357132	52477.0	Mm.289914	NM_021421	ENSMUSG00000026634	Angel2	2610307I21Rik|5730410O10Rik|AI845692|D1Ertd396e|D1Ertd654e	angel homolog 2	protein-coding	29.0	34.5	24.5	621.0	28.0	15.0	23.5	18.0
Merged-chr2-180171440-4	chr2	180171340	180171540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019822)	promoter-TSS (NM_019822)	-148.0	NM_019822	56436.0	Mm.316654	NM_019822	ENSMUSG00000039041	Adrm1	1110063P18Rik|2510006J17Rik|AA408205|ARM-1|AU043535|Arm1|Gp110|Rpn13	adhesion regulating molecule 1	protein-coding	353.5	546.5	411.5	5415.0	837.5	330.5	401.5	331.5
Merged-chr18-16252127-5	chr18	16252043	16252243	+	832.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-534097.0	NM_199055	71367.0	Mm.329304	NM_199055	ENSMUSG00000047161	Chst9	5430438D01Rik	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9	protein-coding	8.0	13.0	8.5	126.0	18.0	2.5	4.5	3.5
Merged-chr4-155668701-2	chr4	155668601	155668801	+	914.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001256107, exon 1 of 20)	5' UTR (NM_001256107, exon 1 of 20)	553.0	NM_001256108	76580.0	Mm.235738	NM_145124	ENSMUSG00000029060	Mib2	2210008I11Rik|Zzank1|skd	mindbomb E3 ubiquitin protein ligase 2	protein-coding	5.0	2.0	14.5	41.5	12.0	11.5	8.5	9.5
Merged-chr3-86999235-4	chr3	86999133	86999333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007639, exon 1 of 6)	exon (NM_007639, exon 1 of 6)	107.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	26.0	33.0	27.0	315.0	48.5	17.5	25.0	24.0
Merged-chr4-133752869-8	chr4	133752732	133752932	+	930.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001080819, exon 1 of 20)	exon (NM_001080819, exon 1 of 20)	779.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	17.0	20.5	14.5	72.5	17.5	4.5	14.5	15.5
Merged-chr1-45926232-1	chr1	45926132	45926332	+	586.0	f0_balb.idr	promoter-TSS (NM_016917)	promoter-TSS (NM_016917)	-638.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	10.5	11.5	6.5	74.0	14.0	2.5	3.5	8.0
Merged-chr1-87036421-2	chr1	87036321	87036521	+	571.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001172157, intron 15 of 21)	intron (NM_001172157, intron 15 of 21)	53507.0	NM_007433	11650.0	Mm.195224	NM_007433	ENSMUSG00000026246	Alppl2	Akp5|C77216|D1Ertd816e|EAP	alkaline phosphatase, placental-like 2	protein-coding	4.5	7.5	12.5	67.0	18.0	1.0	0.0	1.5
Merged-chr4-136029572-3	chr4	136029464	136029664	+	996.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7915.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	42.0	51.5	16.0	237.5	19.5	3.5	4.0	3.5
Merged-chr16-43448724-4	chr16	43448633	43448833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	-28537.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	68.0	63.5	93.5	1287.5	131.5	54.0	64.0	24.5
Merged-chr19-16047175-4	chr19	16047049	16047249	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62074.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	30.5	15.5	30.0	344.5	19.0	7.0	8.5	9.5
Merged-chr17-74434769-4	chr17	74434646	74434846	+	903.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 7 of 8)	intron (NM_001033367, intron 7 of 8)	24362.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	4.5	15.0	7.0	51.0	30.5	9.5	5.5	12.5
Merged-chr2-4890604-3	chr2	4890505	4890705	+	882.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175400, intron 3 of 8)	intron (NM_175400, intron 3 of 8)	9041.0	NM_175400	109079.0	Mm.34329	NM_175400	ENSMUSG00000026662	Sephs1	1110046B24Rik|AA589574|AI505014|AW111620|SELD|SPS|SPS1	selenophosphate synthetase 1	protein-coding	5.0	12.5	12.0	231.5	27.5	3.5	7.0	3.0
Merged-chr2-105674578-3	chr2	105674493	105674693	+	750.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001244198, intron 1 of 12)	intron (NM_001244198, intron 1 of 12)	-1151.0	NM_001244200	18508.0	Mm.3608	NM_013627	ENSMUSG00000027168	Pax6	1500038E17Rik|AEY11|Dey|Gsfaey11|Pax-6|Sey	paired box 6	protein-coding	2.0	6.5	8.0	77.5	13.5	4.5	5.0	7.0
Merged-chr10-53597717-4	chr10	53597611	53597811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025541, intron 1 of 3)	CpG	750.0	NM_025541	66403.0	Mm.272989	NM_025541	ENSMUSG00000019857	Asf1a	2310079C17Rik|C79052	anti-silencing function 1A histone chaperone	protein-coding	38.0	42.5	47.5	445.0	47.0	21.0	38.0	19.5
Merged-chr10-127211654-4	chr10	127211575	127211775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054097)	promoter-TSS (NM_054097)	-53.0	NM_001359280	117150.0	Mm.22682	NM_054097	ENSMUSG00000025417	Pip4k2c	Pip5k2c	phosphatidylinositol-5-phosphate 4-kinase, type II, gamma	protein-coding	58.0	88.5	56.0	1003.0	175.5	35.0	56.0	62.0
Merged-chr10-117866914-4	chr10	117866861	117867061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20987.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	45.0	86.5	35.0	654.0	90.5	52.0	39.5	41.0
Merged-chr16-33820960-4	chr16	33820852	33821052	+	912.5125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8713.0	NM_010580	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	24.5	27.5	8.0	362.0	66.5	19.0	12.5	13.0
Merged-chr2-153779649-2	chr2	153779549	153779749	+	880.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1230.0	NR_036629	100504221.0	Mm.246778	NM_177849	ENSMUSG00000044083	Efcab8	A630008I04|EG329541	EF-hand calcium binding domain 8	ncRNA	7.5	18.0	5.5	44.5	15.5	4.0	10.0	7.5
Merged-chr13-59823150-4	chr13	59823035	59823235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153538)	promoter-TSS (NM_153538)	12.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	156.0	311.5	171.0	2382.5	562.0	258.0	291.0	263.0
Merged-chr9-119324274-3	chr9	119324185	119324385	+	747.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1858.0	NM_133985	108737.0	Mm.293565	NM_133985	ENSMUSG00000036737	Oxsr1	2210022N24Rik|2810422B09Rik|AI462649|AW209236|Osr1|mKIAA1101	oxidative-stress responsive 1	protein-coding	3.0	8.0	5.0	111.5	16.0	7.5	8.0	10.5
Merged-chr15-74709395-4	chr15	74709271	74709471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008415)	promoter-TSS (NM_008415)	-49.0	NM_008415	16469.0	Mm.87052	NM_008415	ENSMUSG00000046380	Jrk	-	jerky	protein-coding	26.0	40.0	60.0	537.5	43.5	26.5	25.5	34.0
Merged-chr9-44734538-6	chr9	44734481	44734681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153537, intron 1 of 21)	intron (NM_153537, intron 1 of 21)	617.0	NM_153537	102693.0	Mm.28639	NM_153537	ENSMUSG00000048537	Phldb1	AU041016|D330037A14Rik|Ll5a	pleckstrin homology like domain, family B, member 1	protein-coding	13.5	62.0	24.0	113.0	74.5	34.0	28.5	23.5
Merged-chr11-79296315-2	chr11	79296216	79296416	+	925.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41621.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	8.0	9.5	10.0	41.5	16.0	3.5	6.5	8.5
Merged-chr5-92489234-3	chr5	92489163	92489363	+	945.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	16394.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	12.5	8.5	8.5	124.0	9.0	1.5	13.5	11.0
Merged-chr19-11329648-4	chr19	11329566	11329766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027836, intron 2 of 6)	L1MA4|LINE|L1	5029.0	NM_001276398	109225.0	Mm.491251	NM_027836	ENSMUSG00000024672	Ms4a7	9130422I10Rik|A430103C15Rik|CD20l4|CFFMA	membrane-spanning 4-domains, subfamily A, member 7	protein-coding	111.0	132.0	79.5	623.0	147.5	77.5	67.0	27.5
Merged-chr5-76779325-1	chr5	76779225	76779425	+	805.0	f0_balb.idr	Intergenic	Intergenic	-61274.0	NM_001163793	320827.0	Mm.101504	NM_001163793	ENSMUSG00000036377	C530008M17Rik	2810489J07Rik|4930529A19Rik|4931405B09Rik|Kiaa1211|mKIAA1211	RIKEN cDNA C530008M17 gene	protein-coding	4.5	4.5	10.0	107.5	10.5	0.5	1.0	4.0
Merged-chr16-32164589-4	chr16	32164530	32164730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146069, intron 1 of 3)	intron (NM_146069, intron 1 of 3)	964.0	NM_146069	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	13.5	45.0	18.5	260.0	45.5	23.5	34.0	31.0
Merged-chr6-71446421-7	chr6	71446324	71446524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5787.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	21.0	51.0	34.5	257.5	63.5	33.0	27.5	17.0
Merged-chr3-109439437-3	chr3	109439328	109439528	+	837.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	98745.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	9.0	6.0	8.0	150.0	8.5	1.5	11.5	3.0
Merged-chr6-97818307-4	chr6	97818198	97818398	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	11240.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	11.5	35.5	11.0	164.5	78.5	30.0	30.0	35.0
Merged-chr4-46451962-4	chr4	46451849	46452049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130889, intron 1 of 6)	CpG	1023.0	NM_130889	67628.0	Mm.263913	NM_130889	ENSMUSG00000028333	Anp32b	2410015B15Rik|PAL31|PHAPI2a|Ssp29	acidic (leucine-rich) nuclear phosphoprotein 32 family, member B	protein-coding	23.0	23.0	41.0	456.0	62.5	42.0	35.0	33.0
Merged-chr1-72412891-4	chr1	72412767	72412967	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105446.0	NM_001357519	22596.0	Mm.246952	NM_009533	ENSMUSG00000026187	Xrcc5	AI314015|CTC85|CTCBF|Ku80|Ku86	X-ray repair complementing defective repair in Chinese hamster cells 5	protein-coding	7.0	10.0	18.0	154.0	44.5	15.5	9.5	10.5
Merged-chr17-35200216-1	chr17	35200116	35200316	+	577.0	f0_balb.idr	exon (NM_001278601, exon 3 of 3)	exon (NM_001278601, exon 3 of 3)	1791.0	NM_013693	21926.0	Mm.1293	NM_013693	ENSMUSG00000024401	Tnf	DIF|TNF-a|TNF-alpha|TNFSF2|TNFalpha|Tnfa|Tnfsf1a|Tnlg1f	tumor necrosis factor	protein-coding	9.0	14.5	11.0	18.0	17.5	16.5	5.5	4.5
Merged-chr3-144110886-4	chr3	144110795	144110995	+	861.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91437.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	12.5	11.0	14.0	211.5	45.0	7.0	18.5	36.0
Merged-chr2-30929907-4	chr2	30929835	30930035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23066.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	23.5	69.5	14.5	186.0	86.5	44.0	21.5	30.0
Merged-chr7-109519621-1	chr7	109519521	109519721	+	1000.0	f0_balb.idr	promoter-TSS (NR_028079)	promoter-TSS (NR_028079)	426.0	NM_011975	26451.0	Mm.305750	NM_011975	ENSMUSG00000046364	Rpl27a	L27'|L27A|L29	ribosomal protein L27A	protein-coding	25.0	67.5	43.5	316.0	103.0	38.5	40.5	51.5
Merged-chr14-99142401-4	chr14	99142314	99142514	+	956.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029320, intron 9 of 17)	intron (NM_029320, intron 9 of 17)	-42644.0	NR_153390	72662.0	Mm.163339	NM_028315	ENSMUSG00000033166	Dis3	2810028N01Rik	DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease	protein-coding	4.0	15.0	17.0	123.5	32.0	4.5	22.0	15.0
Merged-chr1-150266697-2	chr1	150266597	150266797	+	558.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52720.0	NM_024458	20028.0	Mm.440883	NM_024458	ENSMUSG00000006007	Pdc	Rpr-1|Rpr1	phosducin	protein-coding	6.0	9.0	1.0	26.5	20.5	11.5	9.0	5.0
Merged-chr3-107155805-1	chr3	107155705	107155905	+	859.1666869999999	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-27338.0	NM_001081140	242151.0	Mm.245155	NM_001081140	ENSMUSG00000042861	Kcna10	Gm1962|Kcna8|Kv1.8	potassium voltage-gated channel, shaker-related subfamily, member 10	protein-coding	11.0	31.5	15.0	122.5	2.0	0.0	1.5	2.0
Merged-chr5-130205711-4	chr5	130205603	130205803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199059, intron 4 of 8)	intron (NM_001199059, intron 4 of 8)	-14041.0	NM_001081394	71667.0	Mm.258508	NM_027854	ENSMUSG00000053094	Tmem248	0610007L01Rik|A930023A16Rik|AW557951|G430067H08Rik	transmembrane protein 248	protein-coding	22.5	54.0	17.0	378.0	88.0	31.5	62.5	42.0
Merged-chr9-50773784-2	chr9	50773684	50773884	+	603.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-1441.0	NM_133981	102580.0	Mm.160035	NM_133981	ENSMUSG00000032059	Alg9	8230402H15Rik|AI747665|B430313H07Rik|Dibd1	asparagine-linked glycosylation 9 (alpha 1,2 mannosyltransferase)	protein-coding	13.0	12.0	4.5	5.5	15.5	12.5	9.5	2.5
Merged-chr5-30806310-4	chr5	30806225	30806425	+	756.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8316.0	NM_133350	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	12.5	15.5	4.0	134.5	36.5	18.5	10.0	12.5
Merged-chr5-45919818-4	chr5	45919712	45919912	+	879.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1|DNA|hAT-Tip100	12597.0	NR_110478	78106.0	Mm.243807	NR_110478	ENSMUSG00000106602	4930405L22Rik	-	RIKEN cDNA 4930405L22 gene	ncRNA	6.0	6.0	12.5	125.5	31.5	7.5	30.0	25.5
Merged-chr11-121848076-4	chr11	121847948	121848148	+	955.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17830.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	6.5	10.5	12.0	197.5	46.5	16.5	28.5	19.0
Merged-chr13-101734400-2	chr13	101734300	101734500	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	33817.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	5.5	8.0	5.0	170.5	26.0	3.0	8.0	9.5
Merged-chr4-132555777-4	chr4	132555676	132555876	+	935.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8291.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	14.0	42.5	12.0	140.5	59.0	12.5	22.0	18.5
Merged-chr3-79789095-4	chr3	79789003	79789203	+	878.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51152.0	NM_212452	381489.0	Mm.331086	NM_212452	ENSMUSG00000034009	Rxfp1	Gm1018|Lgr7	relaxin/insulin-like family peptide receptor 1	protein-coding	8.5	7.0	24.5	264.0	27.0	9.0	15.5	11.0
Merged-chr5-135990791-4	chr5	135990680	135990880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4020.0	NM_023742	74198.0	Mm.275574	NM_023742	ENSMUSG00000004947	Dtx2	2610524D08Rik|AA408415|AU022494|Deltex2	deltex 2, E3 ubiquitin ligase	protein-coding	42.0	76.5	57.5	777.5	140.5	36.5	40.5	53.0
Merged-chr14-66219040-4	chr14	66218972	66219172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-5248.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	75.0	118.5	84.5	1161.5	181.5	49.0	57.5	76.0
Merged-chr11-120484622-4	chr11	120484534	120484734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027204)	promoter-TSS (NM_027204)	-3.0	NM_027204	56282.0	Mm.133851	NM_027204	ENSMUSG00000039640	Mrpl12	0610034O11Rik|1500031N16Rik|L12mt|MRP-L12|Rpml12	mitochondrial ribosomal protein L12	protein-coding	63.0	101.0	37.0	659.0	192.5	63.0	85.0	56.0
Merged-chr10-128696432-4	chr10	128696330	128696530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177411)	promoter-TSS (NM_177411)	-162.0	NM_177411	19344.0	Mm.12815	NM_011229	ENSMUSG00000000711	Rab5b	C030027M18Rik	RAB5B, member RAS oncogene family	protein-coding	356.0	619.5	400.5	5772.0	970.0	389.5	460.5	408.0
Merged-chr16-24946665-3	chr16	24946524	24946724	+	878.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-113015.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	5.0	11.5	5.0	75.5	6.0	4.0	5.0	4.5
Merged-chr16-92019522-4	chr16	92019412	92019612	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-38810.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	26.0	17.5	8.0	267.0	74.5	12.5	15.5	23.0
Merged-chr17-26601086-3	chr17	26600972	26601172	+	824.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	intron (NM_026170, intron 1 of 9)	39560.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	7.5	5.0	11.5	271.0	11.0	1.0	6.5	6.0
Merged-chr8-84236191-4	chr8	84236100	84236300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172503, intron 1 of 13)	intron (NM_172503, intron 1 of 13)	842.0	NM_172503	212168.0	Mm.117094	NM_172503	ENSMUSG00000035671	Zswim4	D330002I24|E130119J17Rik	zinc finger SWIM-type containing 4	protein-coding	51.0	114.5	26.0	348.5	159.5	72.0	61.0	39.0
Merged-chr10-41304280-1	chr10	41304180	41304380	+	608.0	f0_balb.idr	Intergenic	Intergenic	-1039.0	NM_133999	103199.0	Mm.277242	NM_133999	ENSMUSG00000038417	Fig4	A530089I17Rik|AI326867|Sac3	FIG4 phosphoinositide 5-phosphatase	protein-coding	7.0	10.0	3.5	136.0	14.0	5.5	9.5	11.5
Merged-chr14-48121327-3	chr14	48121229	48121429	+	881.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033602, intron 1 of 5)	CpG	460.0	NM_033602	93834.0	Mm.296457	NM_033602	ENSMUSG00000021846	Peli2	AW047589|BB129927	pellino 2	protein-coding	12.5	10.0	31.0	159.5	5.5	5.0	3.0	6.0
Merged-chr16-18733318-4	chr16	18733246	18733446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43501.0	NM_013805	12741.0	Mm.22768	NM_013805	ENSMUSG00000041378	Cldn5	AI854493|MBEC1|Tmvcf	claudin 5	protein-coding	62.0	98.0	79.5	1361.0	118.5	35.0	70.0	58.5
Merged-chr5-117614484-2	chr5	117614384	117614584	+	631.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 4 of 19)	intron (NM_001312914, intron 4 of 19)	200482.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	2.0	2.5	0.0	21.5	19.0	5.0	5.5	9.5
Merged-chr7-80799395-3	chr7	80799296	80799496	+	818.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	3935.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	3.5	12.0	2.0	54.0	32.5	7.0	13.0	9.5
Merged-chr2-92008469-4	chr2	92008361	92008561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011957, intron 1 of 11)	CpG	15709.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	141.0	229.5	187.5	2742.0	371.5	137.0	236.5	128.0
Merged-chr8-122938733-3	chr8	122938636	122938836	+	905.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	90362.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	26.5	6.0	8.0	242.0	12.0	7.0	10.5	11.5
Merged-chr15-31331949-4	chr15	31331863	31332063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027496, intron 1 of 3)	MLT1A0|LTR|ERVL-MaLR	35796.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	63.5	73.0	91.5	1056.5	109.0	37.5	58.5	51.0
Merged-chr4-55353210-3	chr4	55353121	55353321	+	777.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	intron (NM_009011, intron 1 of 9)	3179.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	7.0	10.5	3.0	77.0	27.5	7.0	8.5	9.0
Merged-chr5-124532143-3	chr5	124532036	124532236	+	884.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021430)	promoter-TSS (NM_021430)	-745.0	NM_021430	75695.0	Mm.41180	NM_021430	ENSMUSG00000029392	Rilpl1	2900002H16Rik|6330559I19Rik|GOSPEL	Rab interacting lysosomal protein-like 1	protein-coding	13.0	10.5	5.5	108.5	17.5	7.0	11.0	10.5
Merged-chr13-58067927-4	chr13	58067817	58068017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 6 of 16)	MIRc|SINE|MIR	34511.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	125.5	170.0	112.0	1591.0	302.0	109.0	161.0	96.5
Merged-chr10-77622341-4	chr10	77622275	77622475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019803)	promoter-TSS (NM_019803)	54.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	65.0	112.5	63.0	1000.5	118.0	65.5	68.5	64.0
Merged-chr10-94944870-4	chr10	94944777	94944977	+	863.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018797)	promoter-TSS (NM_018797)	-299.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	9.5	15.5	6.0	254.0	20.5	7.0	5.5	11.0
Merged-chr10-25411602-4	chr10	25411493	25411693	+	839.1375119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013511, intron 1 of 19)	intron (NM_013511, intron 1 of 19)	3225.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	12.0	26.0	25.5	112.0	20.0	10.0	5.0	5.0
Merged-chr17-22166073-3	chr17	22165922	22166122	+	756.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177596)	promoter-TSS (NM_177596)	-45.0	NM_177596	210853.0	Mm.441622	NM_177596	ENSMUSG00000063383	Zfp947	6720451E15|EG210853|Gm4769	zinc finger protein 947	protein-coding	4.5	13.0	7.0	66.0	13.0	8.0	8.5	7.0
Merged-chr1-89078903-4	chr1	89078821	89079021	+	932.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133816, intron 1 of 5)	intron (NM_133816, intron 1 of 5)	8506.0	NM_133816	98402.0	Mm.170983	NM_133816	ENSMUSG00000036206	Sh3bp4	AI594717|AW227605|BOG25	SH3-domain binding protein 4	protein-coding	14.0	41.5	22.5	125.0	103.5	17.0	17.0	24.5
Merged-chr5-102066900-3	chr5	102066688	102066888	+	750.518494	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	3133.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	2.0	2.0	5.0	142.0	14.5	6.0	4.5	6.0
Merged-chr15-100227776-4	chr15	100227684	100227884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007497)	promoter-TSS (NM_007497)	-75.0	NM_007497	11908.0	Mm.676	NM_007497	ENSMUSG00000023027	Atf1	-	activating transcription factor 1	protein-coding	49.0	112.5	37.0	614.0	233.0	61.5	73.5	78.5
Merged-chr2-78048597-3	chr2	78048507	78048707	+	900.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2570.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	10.5	14.5	14.5	166.0	15.5	4.0	7.5	9.5
Merged-chr17-47394408-4	chr17	47394312	47394512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008189)	TTS (NM_008189)	6194.0	NM_008189	14913.0	Mm.16224	NM_008189	ENSMUSG00000023982	Guca1a	GC-A|Gcap1|Guca1|mGCAP1	guanylate cyclase activator 1a (retina)	protein-coding	28.5	40.5	25.0	476.0	70.0	25.5	53.5	30.0
Merged-chr6-148561282-4	chr6	148561177	148561377	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53032.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	26.0	32.5	42.5	551.5	64.0	14.5	33.0	38.5
Merged-chr5-122662712-4	chr5	122662603	122662803	+	982.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038845, intron 5 of 12)	Lx8|LINE|L1	12279.0	NM_001284402	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	8.5	21.0	14.5	243.5	66.5	14.0	21.0	24.5
Merged-chr10-17727089-5	chr10	17727036	17727236	+	885.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	3908.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	9.0	10.0	4.5	57.0	10.5	9.0	4.0	4.0
Merged-chr9-119923506-2	chr9	119923406	119923606	+	815.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026236, intron 17 of 18)	intron (NM_026236, intron 17 of 18)	14052.0	NM_028976	74498.0	Mm.104789	NM_028976	ENSMUSG00000032513	Gorasp1	5430411C10Rik|GOLPH5|GRASP65|P65	golgi reassembly stacking protein 1	protein-coding	5.0	15.0	8.0	49.5	18.0	10.0	7.5	9.0
Merged-chr11-17002634-4	chr11	17002545	17002745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	6073.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	81.0	111.0	110.0	1716.5	216.5	84.0	120.5	79.0
Merged-chr7-19001266-4	chr7	19001158	19001358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145579, exon 3 of 3)	3' UTR (NM_145579, exon 3 of 3)	-2807.0	NM_178757	272359.0	Mm.274237	NM_178757	ENSMUSG00000044030	Irf2bp1	6330414O09Rik|C530033F24	interferon regulatory factor 2 binding protein 1	protein-coding	33.5	55.0	31.5	479.0	74.5	31.0	26.0	21.5
Merged-chr13-115900920-4	chr13	115900829	115901029	+	943.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	408759.0	NM_021459	16392.0	Mm.42242	NM_021459	ENSMUSG00000042258	Isl1	-	ISL1 transcription factor, LIM/homeodomain	protein-coding	17.5	29.5	21.0	325.0	54.0	7.0	10.5	14.0
Merged-chr9-47528661-4	chr9	47528558	47528758	+	860.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1512.0	NM_001310841	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	13.5	17.0	8.5	211.5	18.0	6.5	19.5	13.0
Merged-chr11-120142769-4	chr11	120142689	120142889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361697, intron 1 of 15)	intron (NM_001361697, intron 1 of 15)	8562.0	NM_001361698	72055.0	Mm.253403	NM_024249	ENSMUSG00000061306	Slc38a10	1810073N04Rik	solute carrier family 38, member 10	protein-coding	93.5	140.5	140.5	1548.0	211.0	67.5	81.5	84.5
Merged-chr17-8233946-3	chr17	8233851	8234051	+	664.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2092.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	14.0	12.0	9.5	105.0	12.0	7.5	7.0	9.0
Merged-chr4-43669287-4	chr4	43669187	43669387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175517)	promoter-TSS (NM_175517)	316.0	NM_001355718	242409.0	Mm.171489	NM_001085508	ENSMUSG00000078716	Tmem8b	4930500O05Rik	transmembrane protein 8B	protein-coding	71.5	97.5	103.5	905.0	164.5	44.5	88.0	90.5
Merged-chr8-70139225-4	chr8	70139119	70139319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309645)	promoter-TSS (NM_001309645)	-22.0	NM_001025589	19727.0	Mm.161167	NM_011266	ENSMUSG00000036120	Rfxank	Tvl1	regulatory factor X-associated ankyrin-containing protein	protein-coding	241.5	394.5	256.5	2877.0	365.5	164.0	180.0	163.5
Merged-chr7-114317569-4	chr7	114317468	114317668	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_029437, intron 3 of 3)	intron (NR_029437, intron 3 of 3)	-41452.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	21.5	32.5	32.5	508.0	83.5	28.0	21.0	21.5
Merged-chr8-115479474-1	chr8	115479374	115479574	+	540.0	f1_balb.idr	Intergenic	Intergenic	227420.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	6.0	4.5	9.0	64.5	7.5	3.5	3.5	0.0
Merged-chr3-41348952-3	chr3	41348875	41349075	+	856.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144224.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	7.0	11.0	10.0	140.0	7.0	8.0	5.0	16.0
Merged-chr1-155470621-4	chr1	155470512	155470712	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-53168.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	19.5	29.5	25.0	218.0	44.5	9.5	17.0	26.5
Merged-chr11-59519077-4	chr11	59518981	59519181	+	752.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12441.0	NM_172941	268417.0	Mm.239793	NM_172941	ENSMUSG00000020472	Zkscan17	Nizp1|Zfp496|Znf496	zinc finger with KRAB and SCAN domains 17	protein-coding	14.0	14.0	6.0	112.5	29.5	4.0	10.0	5.5
Merged-chr13-92940807-3	chr13	92940695	92940895	+	771.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96008.0	NM_001162945	382793.0	Mm.296770	NM_001162945	ENSMUSG00000021704	Mtx3	4930470O13Rik|AA409304|AI853833|AU067765|EG624619|Gm1194|Gm6514	metaxin 3	protein-coding	2.0	2.0	2.5	23.0	50.0	6.0	11.5	12.0
Merged-chr7-64409040-4	chr7	64408958	64409158	+	736.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028626, intron 2 of 2)	intron (NM_028626, intron 2 of 2)	16436.0	NM_001355124	73724.0	Mm.10093	NM_028626	ENSMUSG00000033429	Mcee	1110007A04Rik	methylmalonyl CoA epimerase	protein-coding	11.0	9.0	19.0	195.5	20.5	3.0	11.5	14.0
Merged-chr2-45194480-4	chr2	45194353	45194553	+	970.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77011.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	17.5	11.5	19.5	381.0	76.5	13.5	27.5	26.0
Merged-chr12-69145433-3	chr12	69145360	69145560	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	13726.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	15.0	27.5	23.5	260.0	7.5	9.0	10.5	2.0
Merged-chr9-50661673-4	chr9	50661564	50661764	+	970.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1884.0	NM_145614	235339.0	Mm.285076	NM_145614	ENSMUSG00000000168	Dlat	6332404G05Rik|DLTA|PDC-E2	dihydrolipoamide S-acetyltransferase (E2 component of pyruvate dehydrogenase complex)	protein-coding	18.5	22.5	10.5	136.5	91.5	16.0	19.0	40.5
Merged-chr14-21501216-4	chr14	21501098	21501298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017479, intron 1 of 16)	CpG	1413.0	NM_017479	54169.0	Mm.248967	NM_017479	ENSMUSG00000021767	Kat6b	AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf	K(lysine) acetyltransferase 6B	protein-coding	78.5	150.0	117.5	1366.5	372.0	142.5	163.0	119.0
Merged-chr1-151583691-4	chr1	151583610	151583810	+	878.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	12337.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	13.0	14.5	7.5	110.0	33.0	13.5	18.5	7.5
Merged-chr3-82333778-3	chr3	82333641	82333841	+	927.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24331.0	NM_001081230	213582.0	Mm.271269	NM_001081230	ENSMUSG00000033900	Map9	5033421J10Rik|5330427D05Rik|ASAP|Mtap9	microtubule-associated protein 9	protein-coding	4.5	9.0	8.0	184.0	12.5	5.0	6.0	5.5
Merged-chr9-88725487-2	chr9	88725387	88725587	+	909.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_007536, intron 1 of 1)	intron (NM_007536, intron 1 of 1)	-5689.0	NM_001128601	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	3.0	22.5	9.5	0.0	23.0	6.0	6.0	9.5
Merged-chr13-112137049-4	chr13	112136953	112137153	+	912.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-151398.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	16.5	22.0	3.5	100.0	27.5	13.0	11.5	9.0
Merged-chr7-12961919-4	chr7	12961832	12962032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-3906.0	NM_001362140	243834.0	Mm.133086	NM_178732	ENSMUSG00000004500	Zfp324	A930002M05|D430030K24Rik|ZF5128	zinc finger protein 324	protein-coding	158.5	273.5	177.5	2954.5	457.0	169.0	193.5	184.5
Merged-chr5-137778830-4	chr5	137778675	137778875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356989)	promoter-TSS (NM_001356989)	-129.0	NM_001356989	69871.0	Mm.276058	NM_027242	ENSMUSG00000029725	Ppp1r35	2010007H12Rik|2010011D20Rik|AL024004	protein phosphatase 1, regulatory subunit 35	protein-coding	49.0	70.0	31.5	707.5	114.0	47.5	34.0	37.0
Merged-chr6-39206618-1	chr6	39206518	39206718	+	1000.0	f0_c57.idr	exon (NM_001033430, exon 1 of 20)	exon (NM_001033430, exon 1 of 20)	155.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	18.0	19.5	30.0	349.5	95.5	27.5	33.0	23.0
Merged-chr1-191878142-4	chr1	191878059	191878259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28622.0	NM_009579	22782.0	Mm.9024	NM_009579	ENSMUSG00000037434	Slc30a1	AI839647|C130040I11Rik|Znt1	solute carrier family 30 (zinc transporter), member 1	protein-coding	57.0	96.5	82.5	1076.0	159.5	61.5	55.5	69.0
Merged-chr8-111343370-4	chr8	111343263	111343463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5158.0	NM_029005	74568.0	Mm.207971	NM_029005	ENSMUSG00000012519	Mlkl	9130019I15Rik	mixed lineage kinase domain-like	protein-coding	43.0	73.5	24.5	521.0	115.5	44.5	61.0	34.5
Merged-chr5-38039252-4	chr5	38039146	38039346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289535)	promoter-TSS (NM_001289535)	16.0	NM_026959	71116.0	Mm.18959	NM_026959	ENSMUSG00000029125	Stx18	1810035L21Rik|4933425D03Rik|AU041562	syntaxin 18	protein-coding	30.0	34.5	28.0	508.0	81.5	27.5	30.0	34.0
Merged-chr2-119740746-4	chr2	119740607	119740807	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1630.0	NM_146125	228550.0	Mm.65337	NM_146125	ENSMUSG00000027296	Itpka	-	inositol 1,4,5-trisphosphate 3-kinase A	protein-coding	29.0	21.5	11.5	141.0	49.0	10.5	24.0	21.0
Merged-chr2-27715403-4	chr2	27715300	27715500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	4817.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	52.0	32.5	54.5	866.0	73.0	23.0	34.0	28.5
Merged-chr18-36725623-4	chr18	36725509	36725709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009841, exon 2 of 2)	exon (NM_009841, exon 2 of 2)	1206.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	40.0	37.0	21.5	363.0	61.0	25.5	26.5	27.0
Merged-chr11-114927364-4	chr11	114927273	114927473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347651, intron 2 of 3)	intron (NM_001347651, intron 2 of 3)	7013.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	29.5	75.0	43.0	530.0	115.0	16.0	40.0	39.0
Merged-chr12-54844596-4	chr12	54844517	54844717	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18260.0	NM_007688	12632.0	Mm.276826	NM_007688	ENSMUSG00000062929	Cfl2	-	cofilin 2, muscle	protein-coding	21.5	24.5	16.5	269.5	41.5	17.0	19.0	21.0
Merged-chr15-102100380-3	chr15	102100276	102100476	+	841.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2558.0	NM_001355636	209039.0	Mm.29389	NM_153533	ENSMUSG00000037003	Tns2	C1-ten|Tenc1|nep|nph	tensin 2	protein-coding	7.0	12.5	6.5	128.0	17.0	7.5	8.0	8.5
Merged-chr5-86066324-3	chr5	86066225	86066425	+	847.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007683)	promoter-TSS (NM_007683)	-742.0	NM_007683	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	7.5	4.0	4.5	146.0	24.0	7.5	12.5	10.5
Merged-chr16-4863089-4	chr16	4863008	4863208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030192, exon 12 of 16)	exon (NM_030192, exon 12 of 16)	16743.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	32.0	71.0	38.5	708.0	94.5	41.0	75.5	27.5
Merged-chr12-81860881-4	chr12	81860756	81860956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 1 of 35)	CpG	826.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	41.0	52.5	42.0	314.5	55.5	17.5	15.5	37.5
Merged-chr6-83317196-4	chr6	83317101	83317301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008638, intron 1 of 7)	intron (NM_008638, intron 1 of 7)	403.0	NM_008638	17768.0	Mm.443	NM_008638	ENSMUSG00000005667	Mthfd2	AW558851|NMDMC	methylenetetrahydrofolate dehydrogenase (NAD+ dependent), methenyltetrahydrofolate cyclohydrolase	protein-coding	26.5	42.5	21.0	374.5	86.5	36.5	40.0	32.0
Merged-chr6-83078481-6	chr6	83078393	83078593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197992, intron 1 of 8)	CpG	103.0	NM_197992	69837.0	Mm.12261	NM_197992	ENSMUSG00000069678	Pcgf1	2010002K04Rik|AU024121|Nspc1	polycomb group ring finger 1	protein-coding	54.0	79.0	78.5	657.0	129.5	75.5	45.0	74.0
Merged-chr16-23985542-4	chr16	23985450	23985650	+	963.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	intron (NM_009744, intron 1 of 9)	3302.0	NM_009744	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	35.5	79.0	17.5	158.0	80.0	42.5	20.0	21.0
Merged-chr11-97826682-4	chr11	97826611	97826811	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010688, intron 4 of 6)	intron (NM_010688, intron 4 of 6)	-14069.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	25.0	30.5	24.5	347.0	47.5	22.0	7.5	19.0
Merged-chr17-62544408-4	chr17	62544317	62544517	+	875.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	336900.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	7.5	14.5	10.0	177.0	45.5	12.0	17.5	11.0
Merged-chr8-105714361-4	chr8	105714270	105714470	+	889.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6081.0	NM_027655	71046.0	Mm.280888	NM_027655	ENSMUSG00000013158	4933405L10Rik	-	RIKEN cDNA 4933405L10 gene	protein-coding	13.5	7.5	7.0	155.0	19.5	15.0	11.0	20.0
Merged-chr2-122143968-4	chr2	122143858	122144058	+	754.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 2 of 17)	MTD|LTR|ERVL-MaLR	-3729.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	7.5	7.5	12.0	94.0	18.0	3.5	8.0	14.5
Merged-chr6-145830350-4	chr6	145830273	145830473	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21990.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	50.5	97.5	73.0	1173.5	100.5	14.0	49.5	37.5
Merged-chr12-110957210-4	chr12	110957113	110957313	+	825.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175336, intron 18 of 20)	L1MB7|LINE|L1	21405.0	NM_001361917	74251.0	Mm.250989	NM_175207	ENSMUSG00000037904	Ankrd9	2500003O20Rik	ankyrin repeat domain 9	protein-coding	20.5	13.5	2.0	175.0	28.0	7.5	19.5	20.5
Merged-chr11-23633703-4	chr11	23633595	23633795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347242)	promoter-TSS (NM_001347242)	-64.0	NM_027860	71675.0	Mm.48031	NM_027860	ENSMUSG00000042208	0610010F05Rik	Kiaa1841|mKIAA1841	RIKEN cDNA 0610010F05 gene	protein-coding	216.5	333.5	269.0	4310.0	535.0	147.0	284.5	197.0
Merged-chr10-78130195-1	chr10	78130095	78130295	+	557.0	f0_c57.idr	Intergenic	Intergenic	39573.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	3.0	15.5	6.5	38.5	18.0	8.0	6.0	6.5
Merged-chr9-45395224-3	chr9	45395121	45395321	+	826.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_022004, exon 8 of 8)	3' UTR (NM_022004, exon 8 of 8)	-4488.0	NR_028499	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	11.0	16.0	18.5	146.5	2.0	5.5	8.0	7.5
Merged-chr1-138955653-3	chr1	138955543	138955743	+	853.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8066.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	8.5	18.0	7.5	193.0	15.0	7.0	6.5	7.5
Merged-chr3-96575710-4	chr3	96575620	96575820	+	842.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8919.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	11.0	10.5	8.5	216.0	16.5	8.0	8.0	11.0
Merged-chr10-44625801-4	chr10	44625689	44625889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167041.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	78.0	137.5	85.5	691.5	203.0	59.5	69.0	48.5
Merged-chr14-21500673-4	chr14	21500576	21500776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017479, intron 1 of 16)	CpG	891.0	NM_017479	54169.0	Mm.248967	NM_017479	ENSMUSG00000021767	Kat6b	AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf	K(lysine) acetyltransferase 6B	protein-coding	457.0	673.0	483.0	7949.5	1073.0	406.0	565.5	432.5
Merged-chr11-78213281-4	chr11	78213176	78213376	+	987.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009297, exon 29 of 37)	exon (NM_009297, exon 29 of 37)	19884.0	NM_001045516	216974.0	Mm.50974	NM_001045516	ENSMUSG00000044122	Proca1	4933404M19Rik	protein interacting with cyclin A1	protein-coding	33.5	58.0	13.0	576.5	66.0	22.0	35.0	34.0
Merged-chr6-128133861-3	chr6	128133729	128133929	+	955.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	9749.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	12.0	9.5	21.5	188.5	14.5	5.5	5.5	6.0
Merged-chr17-29363305-4	chr17	29363202	29363402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013710, intron 1 of 15)	intron (NM_013710, intron 1 of 15)	2388.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	28.0	61.0	21.5	363.5	121.0	33.5	39.0	40.5
Merged-chr12-112760515-8	chr12	112760425	112760625	+	996.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178911)	promoter-TSS (NM_178911)	-130.0	NM_178911	104759.0	Mm.203915	NM_178911	ENSMUSG00000052160	Pld4	AI132321|thss	phospholipase D family, member 4	protein-coding	14.0	21.0	13.0	188.0	45.0	13.5	16.5	27.5
Merged-chr10-81298873-4	chr10	81298791	81298991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	L1MB7|LINE|L1	5928.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	167.0	253.0	124.0	2103.5	308.0	126.0	137.5	132.5
Merged-chr6-131353738-4	chr6	131353642	131353842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34708.0	NM_139117	56449.0	Mm.458000	NM_011733	ENSMUSG00000030189	Ybx3	Csda|Dpba|MSY3|MSY4|Yb2|dbpA|oxyR	Y box protein 3	protein-coding	32.5	46.0	33.5	750.0	79.0	37.0	46.5	52.0
Merged-chr5-137503007-2	chr5	137502905	137503105	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_028753)	promoter-TSS (NM_028753)	-576.0	NM_028753	74097.0	Mm.290242	NM_028753	ENSMUSG00000029715	Pop7	0610037N12Rik|AI852017|Rpp20	processing of precursor 7, ribonuclease P family, (S. cerevisiae)	protein-coding	41.5	44.5	10.0	176.5	104.0	27.5	11.0	18.5
Merged-chr6-72120100-4	chr6	72120010	72120210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045163)	TTS (NR_045163)	2830.0	NR_045163	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	64.5	69.5	61.5	1260.0	142.0	47.0	70.5	83.5
Merged-chr6-127561736-4	chr6	127561641	127561841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-16234.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	31.5	64.5	18.0	419.0	83.0	34.0	37.5	40.5
Merged-chr12-17711585-4	chr12	17711489	17711689	+	973.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	MTC|LTR|ERVL-MaLR	20780.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	37.0	97.0	45.0	807.0	51.5	17.0	38.0	18.0
Merged-chr11-116019354-6	chr11	116019221	116019421	+	971.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5183.0	NM_008211	15081.0	Mm.18516	NM_008211	ENSMUSG00000016559	H3f3b	9430068D06Rik|H3.3B	H3 histone, family 3B	protein-coding	13.0	28.5	7.0	81.0	36.0	22.0	11.0	4.0
Merged-chr4-109199609-4	chr4	109199519	109199719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346502, intron 1 of 23)	intron (NM_001346502, intron 1 of 23)	2653.0	NM_133885	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	20.5	38.0	29.5	631.5	50.5	27.0	28.0	28.0
Merged-chr16-11843661-4	chr16	11843547	11843747	+	968.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146067, intron 2 of 3)	intron (NM_146067, intron 2 of 3)	-57717.0	NR_033509	791359.0	Mm.227592	NR_033509	ENSMUSG00000055015	Gm9961	-	predicted gene 9961	ncRNA	13.5	16.5	25.0	241.0	47.0	15.5	51.5	27.5
Merged-chr11-97685833-4	chr11	97685736	97685936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085500)	promoter-TSS (NM_001085500)	-116.0	NM_001085500	217149.0	Mm.29659	NM_001085500	ENSMUSG00000078695	Cisd3	Mel-13|Mel13	CDGSH iron sulfur domain 3	protein-coding	152.0	209.0	97.0	1590.5	272.5	112.5	150.0	113.0
Merged-chr11-68864898-4	chr11	68864743	68864943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11712.0	NM_023668	83431.0	Mm.31979	NM_023668	ENSMUSG00000018736	Ndel1	2600006O07Rik|MITAP1|NUDEL|mNudel	nudE neurodevelopment protein 1 like 1	protein-coding	55.0	80.5	33.0	722.5	148.0	56.5	52.0	50.5
Merged-chr16-44063330-4	chr16	44063197	44063397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-21289.0	NM_001359085	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	29.5	29.5	37.0	490.5	51.0	25.5	36.5	36.0
Merged-chr5-124328004-4	chr5	124327910	124328110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028310)	promoter-TSS (NM_028310)	-38.0	NM_001277867	269702.0	Mm.60224	NM_001081323	ENSMUSG00000038126	Mphosph9	4930548D04Rik|9630025B04Rik|AW413446|AW547060|B930097C17Rik|C87456|MPP-9|MPP9	M-phase phosphoprotein 9	protein-coding	256.0	405.0	194.5	3249.0	524.0	216.0	247.5	237.0
Merged-chr5-147748197-4	chr5	147748082	147748282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22194.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	132.5	179.0	163.5	1549.5	225.5	115.5	116.5	108.0
Merged-chr16-4969627-4	chr16	4969526	4969726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073370, intron 4 of 8)	intron (NR_073370, intron 4 of 8)	5338.0	NM_001271586	74684.0	Mm.374835	NM_001271586	ENSMUSG00000022543	4930451G09Rik	-	RIKEN cDNA 4930451G09 gene	protein-coding	30.5	46.5	45.0	743.0	42.0	16.5	34.5	27.5
Merged-chr2-72390130-4	chr2	72390046	72390246	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178084)	TTS (NM_178084)	-86073.0	NM_025866	66953.0	Mm.270676	NM_025866	ENSMUSG00000055612	Cdca7	2310021G01Rik|AU044109|JPO1	cell division cycle associated 7	protein-coding	15.0	35.0	13.0	305.5	58.0	13.0	21.0	21.5
Merged-chr10-44858893-4	chr10	44858788	44858988	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-208326.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	23.0	36.0	25.5	532.0	49.5	13.0	58.0	49.0
Merged-chr2-174344312-4	chr2	174344241	174344441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077507, intron 5 of 10)	intron (NM_001077507, intron 5 of 10)	14252.0	NM_001077510	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	69.5	76.0	62.5	691.0	159.5	68.5	53.0	65.5
Merged-chr11-117990172-4	chr11	117990074	117990274	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151726, intron 1 of 9)	intron (NR_151726, intron 1 of 9)	3317.0	NR_151726	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	30.5	41.5	23.5	251.0	57.5	28.5	15.0	28.0
Merged-chr14-20105629-4	chr14	20105533	20105733	+	908.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22461.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	11.5	8.0	10.0	193.0	28.0	11.0	6.0	9.5
Merged-chr7-88251694-4	chr7	88251575	88251775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26410.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	49.5	105.0	112.0	943.5	97.0	52.5	67.5	65.0
Merged-chr7-90214215-4	chr7	90214105	90214305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51227.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	54.0	36.5	51.5	635.5	182.5	57.0	116.5	77.0
Merged-chr17-85575208-3	chr17	85575113	85575313	+	880.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43183.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	18.0	12.0	5.5	271.5	15.5	5.5	4.5	5.0
Merged-chr4-118360046-4	chr4	118359926	118360126	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026601)	promoter-TSS (NM_026601)	27.0	NR_003946	68180.0	Mm.193212	NM_026601	ENSMUSG00000006395	Hyi	2700033B16Rik|6430559E15Rik|HT036	hydroxypyruvate isomerase (putative)	protein-coding	16.5	23.0	23.5	219.5	24.5	9.0	8.0	17.5
Merged-chr12-8659918-4	chr12	8659820	8660020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-14214.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	36.5	19.5	29.0	422.5	53.0	20.0	37.5	25.5
Merged-chr8-122475272-5	chr8	122475216	122475416	+	927.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153775)	promoter-TSS (NM_153775)	748.0	NM_001033142	68718.0	Mm.34356	NM_001033142	ENSMUSG00000014470	Rnf166	1110031E24Rik|AW555115|Zfp313l	ring finger protein 166	protein-coding	12.5	14.0	14.5	144.5	43.5	21.5	11.5	29.5
Merged-chr10-40256941-4	chr10	40256838	40257038	+	850.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359493, intron 2 of 5)	intron (NM_001359493, intron 2 of 5)	624.0	NM_001359493	67371.0	Mm.64104	NM_026113	ENSMUSG00000019837	Gtf3c6	2410016F19Rik|AU019813	general transcription factor IIIC, polypeptide 6, alpha	protein-coding	10.5	21.0	14.0	100.5	25.0	3.0	7.0	9.5
Merged-chr12-57196869-3	chr12	57196771	57196971	+	931.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172577, intron 1 of 9)	CpG	601.0	NM_172577	217593.0	Mm.32835	NM_172577	ENSMUSG00000035472	Slc25a21	9930033G19Rik|A630030I10|BB158148	solute carrier family 25 (mitochondrial oxodicarboxylate carrier), member 21	protein-coding	3.5	18.0	11.5	199.0	5.0	6.5	5.0	4.5
Merged-chr1-134416872-4	chr1	134416787	134416987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306069, intron 1 of 7)	intron (NM_001306069, intron 1 of 7)	1223.0	NM_001306069	72674.0	Mm.259976	NM_028320	ENSMUSG00000026457	Adipor1	2810031L11Rik|ACDCR1|CGI-45|Paqr1	adiponectin receptor 1	protein-coding	32.0	27.5	5.0	310.5	57.5	17.5	25.5	32.0
Merged-chr7-18959593-4	chr7	18959473	18959673	+	678.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001029877, exon 4 of 4)	3' UTR (NM_001029877, exon 4 of 4)	-27951.0	NM_194064	378430.0	Mm.277153	NM_194064	ENSMUSG00000051965	Nanos2	nos2	nanos C2HC-type zinc finger 2	protein-coding	5.5	4.5	2.0	68.5	14.0	10.5	10.5	12.0
Merged-chr7-12943686-1	chr7	12943586	12943786	+	655.0	f0_balb.idr	Intergenic	B3A|SINE|B2	16270.0	NM_029809	381845.0	Mm.439896	NM_029809	ENSMUSG00000033967	Rnf225	2310014L17Rik|AV237412|C77118	ring finger protein 225	protein-coding	3.5	13.5	3.5	72.0	9.5	5.5	4.5	7.5
Merged-chr3-90125955-4	chr3	90125843	90126043	+	968.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029937, intron 7 of 39)	intron (NM_029937, intron 7 of 39)	21811.0	NM_029937	77595.0	Mm.159949	NM_029937	ENSMUSG00000027939	Nup210l	4930548O11Rik|R26-EGFP|Tg(Gt(ROSA)26Sor-EGFP)130910Eps	nucleoporin 210-like	protein-coding	23.0	41.5	25.0	429.0	97.5	24.5	43.0	17.0
Merged-chr4-129276657-4	chr4	129276548	129276748	+	863.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10973.0	NM_023485	68828.0	Mm.132243	NM_023485	ENSMUSG00000001333	Sync	1110057H03Rik|SNIP4	syncoilin	protein-coding	14.0	14.0	4.5	134.0	56.5	13.0	19.0	15.0
Merged-chr11-31872918-7	chr11	31872902	31873102	+	874.045349	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290676, exon 1 of 9)	exon (NM_001290676, exon 1 of 9)	2062.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	7.5	7.5	6.0	54.0	14.5	6.0	11.0	14.5
Merged-chr11-72570772-4	chr11	72570659	72570859	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20513.0	NM_029932	77577.0	Mm.46185	NM_029932	ENSMUSG00000020798	Spns3	9830002I17Rik	spinster homolog 3	protein-coding	17.5	15.0	5.0	144.0	26.0	13.0	6.5	22.5
Merged-chr5-107950830-4	chr5	107950721	107950921	+	807.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	intron (NM_026062, intron 1 of 4)	36256.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	14.5	10.5	24.0	232.5	31.0	5.5	14.0	13.0
Merged-chr13-84348101-3	chr13	84348010	84348210	+	790.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125814.0	NM_175187	72745.0	Mm.295063	NM_175187	ENSMUSG00000035762	Tmem161b	2810446P07Rik|AI843389	transmembrane protein 161B	protein-coding	17.0	29.0	23.5	397.5	31.0	8.5	9.0	8.0
Merged-chr17-84408892-4	chr17	84408773	84408973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 22 of 37)	intron (NM_183021, intron 22 of 37)	57335.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	23.0	43.5	7.5	201.5	67.0	21.5	40.5	40.5
Merged-chr2-165361084-2	chr2	165360983	165361183	+	997.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005425, intron 1 of 4)	MER20|DNA|hAT-Charlie	1036.0	NM_001005425	381405.0	Mm.296323	NM_001005425	ENSMUSG00000056824	Zfp663	Gm1008	zinc finger protein 663	protein-coding	6.0	13.5	1.0	49.0	14.0	12.5	5.0	6.5
Merged-chr7-101385501-4	chr7	101385403	101385603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027180)	promoter-TSS (NM_027180)	-23.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	56.5	119.0	58.5	554.5	96.0	32.5	42.5	34.5
Merged-chr2-52872823-4	chr2	52872724	52872924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	14956.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	30.5	39.5	62.0	644.5	53.0	21.5	21.5	26.5
Merged-chr19-29419623-4	chr19	29419517	29419717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 1 of 5)	L1MB7|LINE|L1	8698.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	83.5	110.5	64.0	1057.0	162.5	47.5	63.0	64.0
Merged-chr6-97504946-4	chr6	97504865	97505065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-17145.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	28.0	23.0	35.0	518.5	101.5	24.0	37.5	50.0
Merged-chr10-123197025-4	chr10	123196958	123197158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027604)	promoter-TSS (NM_027604)	-39.0	NM_001301628	14479.0	Mm.244209	NM_027604	ENSMUSG00000020124	Usp15	4921514G19Rik|AI327321|E430033I05Rik|Gcap18	ubiquitin specific peptidase 15	protein-coding	105.5	127.5	81.0	1162.5	224.5	77.0	92.5	90.5
Merged-chr11-69996285-4	chr11	69996190	69996390	+	870.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291126)	promoter-TSS (NM_001291126)	524.0	NM_030064	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	13.5	8.5	1.0	87.5	30.0	12.5	4.5	10.5
Merged-chr5-103614354-7	chr5	103614235	103614435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029415, intron 3 of 5)	intron (NM_029415, intron 3 of 5)	15068.0	NM_029415	75750.0	Mm.7446	NM_029415	ENSMUSG00000029321	Slc10a6	8430417G17Rik|C78479|Soat	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	protein-coding	41.5	39.5	41.5	334.5	45.5	28.0	17.0	24.0
Merged-chr13-97239713-4	chr13	97239606	97239806	+	917.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1399.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	9.5	14.5	9.5	154.5	32.5	7.0	18.5	12.0
Merged-chr14-45664101-2	chr14	45664003	45664203	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5960.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	2.0	6.0	1.0	70.5	24.0	7.5	14.5	9.0
Merged-chr10-96163964-4	chr10	96163839	96164039	+	911.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62268.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	23.0	15.0	16.0	288.0	46.0	17.5	29.5	21.0
Merged-chr15-103366643-4	chr15	103366520	103366720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010577, exon 1 of 30)	5' UTR (NM_010577, exon 1 of 30)	171.0	NM_010577	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	93.5	164.0	86.5	633.5	200.0	104.0	84.5	55.0
Merged-chr6-51663385-4	chr6	51663260	51663460	+	926.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	118067.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	11.5	3.5	12.5	162.5	65.5	12.5	15.0	16.5
Merged-chr13-70659870-4	chr13	70659753	70659953	+	850.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22219.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	4.0	8.0	14.0	179.0	11.5	12.0	10.5	11.5
Merged-chr7-3303482-1	chr7	3303382	3303582	+	632.0	f0_c57.idr	promoter-TSS (NM_011102)	promoter-TSS (NM_011102)	-50.0	NM_001291434	18752.0	Mm.7980	NM_011102	ENSMUSG00000078816	Prkcg	PKCgamma|Pkcc|Prkcc	protein kinase C, gamma	protein-coding	5.5	4.5	8.0	69.0	30.5	12.5	3.0	18.0
Merged-chr9-110530814-4	chr9	110530708	110530908	+	799.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1789.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	15.0	13.5	11.0	167.0	19.0	2.0	8.5	12.0
Merged-chr15-59481318-4	chr15	59481225	59481425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	107127.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	39.5	107.5	48.5	425.0	50.0	36.0	24.0	10.5
Merged-chr1-131934737-4	chr1	131934644	131934844	+	889.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175294, exon 7 of 7)	3' UTR (NM_175294, exon 7 of 7)	24286.0	NM_175294	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	8.5	17.0	19.0	211.5	24.5	2.5	12.5	11.0
Merged-chr7-126941309-4	chr7	126941212	126941412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172747, intron 2 of 5)	intron (NM_172747, intron 2 of 5)	7847.0	NM_001347657	233879.0	Mm.444143	NM_001039645	ENSMUSG00000046378	Asphd1	A830007L07Rik|Gm168	aspartate beta-hydroxylase domain containing 1	protein-coding	27.0	34.5	28.5	389.5	78.5	28.0	40.0	48.0
Merged-chr19-32911502-4	chr19	32911421	32911621	+	718.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	153944.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	8.0	10.5	8.5	135.5	25.0	9.0	3.0	19.0
Merged-chr15-98512110-2	chr15	98512010	98512210	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	7724.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	2.0	1.5	8.0	9.5	8.5	5.0	5.5	5.5
Merged-chr5-120513530-1	chr5	120513430	120513630	+	840.0	f0_balb.idr	intron (NM_001177595, intron 2 of 13)	L2a|LINE|L2	2338.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	8.5	30.0	14.5	193.5	45.0	14.5	14.0	10.0
Merged-chr10-24727698-4	chr10	24727598	24727798	+	808.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15539.0	NM_008813	18605.0	Mm.27254	NM_008813	ENSMUSG00000037370	Enpp1	4833416E15Rik|AI428932|C76301|CD203c|E-NPP 1|E-NPP1|Ly-41|M6S1|NPP1|Npps|PC-1|Pca|Pca-1|Pdnp1|ttw|twy	ectonucleotide pyrophosphatase/phosphodiesterase 1	protein-coding	18.0	10.0	8.5	273.0	16.0	10.0	15.5	6.5
Merged-chr2-153410360-1	chr2	153410260	153410460	+	802.666687	f0_balb.idr	3' UTR (NM_001134300, exon 11 of 11)	3' UTR (NM_001134300, exon 11 of 11)	34119.0	NM_001001986	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	10.0	17.5	8.0	196.0	27.5	5.5	6.5	4.5
Merged-chr5-108082553-1	chr5	108082453	108082653	+	694.400024	f0_c57.idr	intron (NM_001253879, intron 3 of 14)	B2_Mm2|SINE|B2	4388.0	NM_001253878	17765.0	Mm.257149	NM_013827	ENSMUSG00000029267	Mtf2	9230112N11Rik|AA537621|C76717|M96|Pcl2	metal response element binding transcription factor 2	protein-coding	5.0	9.0	2.0	61.5	26.5	16.5	11.5	13.5
Merged-chr5-23783146-3	chr5	23783023	23783223	+	770.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178403, intron 1 of 15)	intron (NM_178403, intron 1 of 15)	588.0	NM_001289780	78697.0	Mm.58660	NM_178403	ENSMUSG00000057541	Pus7	C330017I15Rik	pseudouridylate synthase 7	protein-coding	6.5	9.5	5.5	71.5	11.5	3.5	3.5	7.0
Merged-chr4-59569766-4	chr4	59569671	59569871	+	936.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-11792.0	NM_001301367	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	29.0	22.0	20.0	389.5	61.5	21.5	16.5	13.5
Merged-chr13-9454540-4	chr13	9454445	9454645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	178020.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	37.5	70.5	51.0	809.5	161.5	35.5	59.0	34.5
Merged-chr3-40950791-4	chr3	40950692	40950892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040399, intron 1 of 9)	CpG-9127	161.0	NM_001040399	214048.0	Mm.46782	NM_027663	ENSMUSG00000025762	Larp1b	1700108L22Rik|4933421B21Rik|AA690246|Larp2	La ribonucleoprotein domain family, member 1B	protein-coding	22.5	24.0	11.0	358.5	42.5	9.5	22.0	24.0
Merged-chr7-100429328-3	chr7	100429247	100429447	+	917.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 20 of 32)	MER90|LTR|ERV1	-43644.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	3.0	17.5	7.5	114.5	31.5	5.0	6.0	9.5
Merged-chr14-27123714-4	chr14	27123622	27123822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20271.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	158.0	279.0	174.5	1761.5	193.0	96.0	118.5	63.0
Merged-chr7-27552249-4	chr7	27552142	27552342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317355, intron 1 of 13)	intron (NM_001317355, intron 1 of 13)	976.0	NM_011116	18807.0	Mm.6483	NM_011116	ENSMUSG00000003363	Pld3	Sam-9	phospholipase D family, member 3	protein-coding	28.0	61.5	25.5	592.5	47.0	31.0	30.5	48.0
Merged-chr1-153900754-2	chr1	153900654	153900854	+	984.3333130000001	f1_balb.idr|f1_c57bl6.idr	TTS (NR_106194)	TTS (NR_106194)	825.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	11.5	12.5	8.0	43.5	21.0	9.5	6.5	5.5
Merged-chr1-177796679-4	chr1	177796561	177796761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007422)	promoter-TSS (NM_007422)	-152.0	NM_007422	11566.0	Mm.338021	NM_007422	ENSMUSG00000015961	Adss	AI314886|AS|Adss2	adenylosuccinate synthetase, non muscle	protein-coding	586.5	806.5	591.0	8819.0	1084.5	539.0	691.5	513.5
Merged-chr2-168154645-4	chr2	168154524	168154724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040327)	promoter-TSS (NR_040327)	-111.0	NR_040327	77017.0	Mm.407822	NR_040327	ENSMUSG00000087648	E130018N17Rik	-	RIKEN cDNA E130018N17 gene	ncRNA	50.0	78.5	51.5	576.5	72.0	24.0	46.0	23.0
Merged-chr13-58067385-3	chr13	58067284	58067484	+	986.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 6 of 16)	intron (NM_001195075, intron 6 of 16)	35044.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	12.5	20.0	23.0	226.5	39.0	12.5	8.5	19.5
Merged-chr16-65739854-3	chr16	65739758	65739958	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75775.0	NM_028572	73569.0	Mm.25670	NM_028572	ENSMUSG00000091243	Vgll3	1700110N18Rik|4832416J22|C80713|Vgl-3|Vito-2	vestigial like family member 3	protein-coding	0.0	0.0	0.0	0.0	214.5	99.0	119.0	87.5
Merged-chr9-90107141-4	chr9	90107038	90107238	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 3 of 12)	intron (NM_001039147, intron 3 of 12)	7682.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	22.5	16.0	4.0	125.5	50.0	22.0	20.0	20.5
Merged-chr8-3308507-4	chr8	3308405	3308605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44-int|LTR|ERVK	-28888.0	NM_001330056	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	51.5	90.0	65.5	494.0	152.0	55.5	49.0	56.0
Merged-chr11-76945638-4	chr11	76945490	76945690	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178645)	promoter-TSS (NM_178645)	-66.0	NM_178645	104184.0	Mm.399785	NM_178645	ENSMUSG00000020840	Blmh	AI035728|Bh|Bmh	bleomycin hydrolase	protein-coding	12.0	19.0	16.0	230.0	40.0	14.5	11.0	25.5
Merged-chr2-153199307-4	chr2	153199191	153199391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 13 of 17)	intron (NM_133847, intron 13 of 17)	26150.0	NM_198617	241732.0	Mm.277243	NM_198617	ENSMUSG00000074671	Tspyl3	AW212607|Gm36	TSPY-like 3	protein-coding	76.0	123.0	60.5	1091.5	161.0	72.0	96.5	92.5
Merged-chr11-108222820-4	chr11	108222739	108222939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	121049.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	95.0	149.5	150.5	2294.0	283.5	71.5	112.0	99.5
Merged-chr16-31066898-4	chr16	31066795	31066995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 1 of 3)	intron (NM_198626, intron 1 of 3)	14537.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	33.5	61.5	37.0	371.5	91.0	34.0	45.5	32.0
Merged-chr1-170282617-4	chr1	170282527	170282727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012009, intron 2 of 3)	intron (NM_012009, intron 2 of 3)	5309.0	NR_153837	26904.0	Mm.57009	NM_012009	ENSMUSG00000102418	Sh2d1b1	EAT-2|EAT-2A|Eat2|Eat2a|Sh2d1b	SH2 domain containing 1B1	protein-coding	60.5	49.5	59.0	1408.0	62.0	24.0	53.0	48.0
Merged-chr2-128817962-4	chr2	128817897	128818097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028248)	promoter-TSS (NM_028248)	-306.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	155.5	196.5	111.5	1244.0	346.5	168.5	139.0	141.5
Merged-chr1-95314048-4	chr1	95313941	95314141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026321, exon 1 of 3)	exon (NM_026321, exon 1 of 3)	413.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	67.5	106.5	111.5	1574.5	192.5	74.0	104.5	132.0
Merged-chr9-116169227-2	chr9	116169133	116169333	+	676.5	f0_balb.idr|f1_balb.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	6130.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	5.0	10.5	5.0	118.0	5.5	1.0	0.5	1.0
Merged-chr9-65844659-4	chr9	65844549	65844749	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357872, intron 12 of 13)	intron (NM_001357872, intron 12 of 13)	-17085.0	NM_172536	214812.0	Mm.139231	NM_172536	ENSMUSG00000040524	Zfp609	9830165N24|BC016271|Znf609|mKIAA0295	zinc finger protein 609	protein-coding	25.5	25.0	38.5	573.0	33.5	12.0	19.5	14.0
Merged-chr1-171579742-1	chr1	171579642	171579842	+	639.0	f0_balb.idr	intron (NM_018729, intron 6 of 8)	intron (NM_018729, intron 6 of 8)	20549.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	5.0	9.0	5.0	108.5	3.5	1.5	4.5	4.5
Merged-chr11-95859700-2	chr11	95859576	95859776	+	963.75	f0_balb.idr|f0_c57.idr	intron (NR_045187, intron 1 of 1)	CpG	859.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	19.0	20.0	14.0	228.5	36.5	12.5	14.0	23.5
Merged-chr13-63148289-1	chr13	63148189	63148389	+	810.0	f0_balb.idr	intron (NM_001289926, intron 5 of 15)	intron (NM_001289926, intron 5 of 15)	-91740.0	NR_110520	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	4.5	9.5	18.5	173.0	6.5	0.0	0.0	3.5
Merged-chr12-69790677-4	chr12	69790580	69790780	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183294)	promoter-TSS (NM_183294)	27.0	NM_183294	71091.0	Mm.132325	NM_183294	ENSMUSG00000020990	Cdkl1	4933411O17Rik	cyclin-dependent kinase-like 1 (CDC2-related kinase)	protein-coding	16.5	21.5	14.0	164.0	35.5	4.0	17.5	5.0
Merged-chr3-21986385-4	chr3	21986290	21986490	+	885.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90262.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	18.0	26.5	15.0	303.5	31.0	5.5	14.5	14.5
Merged-chr11-82088154-4	chr11	82088055	82088255	+	807.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13690.0	NM_011331	20293.0	Mm.867	NM_011331	ENSMUSG00000035352	Ccl12	MCP-5|Scya12	chemokine (C-C motif) ligand 12	protein-coding	11.0	21.0	10.0	165.5	20.5	17.0	10.0	18.0
Merged-chr1-37865204-4	chr1	37865090	37865290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207228)	promoter-TSS (NM_207228)	-108.0	NM_207228	211484.0	Mm.332756	NM_207228	ENSMUSG00000060771	Tsga10	4933432N21Rik|AI843383|Gm217|Mtsga10	testis specific 10	protein-coding	283.0	489.0	344.0	4247.0	673.0	333.0	348.5	284.0
Merged-chr17-47594327-4	chr17	47594217	47594417	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 3 of 6)	intron (NM_001081635, intron 3 of 6)	850.0	NM_007632	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	7.5	22.0	4.0	176.0	34.5	15.0	7.5	16.0
Merged-chr16-4381696-4	chr16	4381598	4381798	+	916.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009624, intron 2 of 10)	intron (NM_009624, intron 2 of 10)	38800.0	NM_001291910	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	15.5	20.5	14.0	236.5	44.0	12.5	21.5	12.5
Merged-chr5-144100336-4	chr5	144100249	144100449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081109)	promoter-TSS (NM_001081109)	-87.0	NM_001081109	231876.0	Mm.288726	NM_001081109	ENSMUSG00000038970	Lmtk2	2900041G10Rik|A330101P12Rik|BREK|KPI-2|KPI2|aatyk2|cprk	lemur tyrosine kinase 2	protein-coding	37.0	35.5	15.5	490.0	94.0	36.0	37.0	35.5
Merged-chr7-102233815-4	chr7	102233738	102233938	+	978.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111937, intron 2 of 5)	intron (NR_111937, intron 2 of 5)	10810.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	29.5	51.0	44.0	151.0	125.0	38.5	13.5	25.5
Merged-chr8-53496408-4	chr8	53496296	53496496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15306.0	NM_001205054	11593.0	Mm.334535	NM_001005847	ENSMUSG00000031521	Aga	AW060726	aspartylglucosaminidase	protein-coding	63.0	73.5	66.0	1325.0	92.0	45.0	66.5	60.0
Merged-chr9-110880211-4	chr9	110880135	110880335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146228)	promoter-TSS (NM_146228)	61.0	NM_001146059	235633.0	Mm.86338	NM_146228	ENSMUSG00000044037	Als2cl	79H19D|79H19E|BC022645|D930044G19Rik|mRn.49018	ALS2 C-terminal like	protein-coding	20.0	65.5	31.5	385.0	65.5	24.0	27.5	25.0
Merged-chr4-24496369-4	chr4	24496268	24496468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199467)	promoter-TSS (NM_199467)	-83.0	NR_149739	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	163.0	204.0	202.0	3138.5	402.0	168.0	245.0	184.5
Merged-chr8-106433140-3	chr8	106433037	106433237	+	748.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17798.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	4.0	13.5	6.0	73.5	32.0	6.0	12.0	5.5
Merged-chr7-3286198-4	chr7	3286096	3286296	+	827.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2842.0	NM_001093764	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	7.0	11.0	6.5	144.0	19.5	8.5	19.5	14.5
Merged-chr2-117123023-5	chr2	117122935	117123135	+	978.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277256, intron 1 of 4)	intron (NM_001277256, intron 1 of 4)	1964.0	NM_033524	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	10.0	8.5	16.0	102.0	40.0	9.0	6.0	15.0
Merged-chr4-46508389-3	chr4	46508294	46508494	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029077, intron 5 of 5)	intron (NM_029077, intron 5 of 5)	19065.0	NM_053179	94181.0	Mm.249349	NM_053179	ENSMUSG00000028334	Nans	4632418E04Rik|BB056474|Sas	N-acetylneuraminic acid synthase (sialic acid synthase)	protein-coding	14.0	8.5	4.0	226.5	31.5	4.5	7.5	10.0
Merged-chr3-27302543-4	chr3	27302442	27302642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14535.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	51.5	52.5	29.0	650.5	104.0	33.0	40.0	31.0
Merged-chr13-5714382-4	chr13	5714279	5714479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143713.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	54.0	73.5	97.0	1850.0	190.5	54.5	83.0	84.5
Merged-chr5-34514020-4	chr5	34513905	34514105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139064)	promoter-TSS (NM_139064)	-26.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	165.0	236.5	152.0	1839.0	314.0	149.5	153.0	119.5
Merged-chr4-117019421-4	chr4	117019330	117019530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355225)	promoter-TSS (NM_001355225)	28.0	NM_001111277	108067.0	Mm.34612	NM_175135	ENSMUSG00000028683	Eif2b3	1190002P15Rik	eukaryotic translation initiation factor 2B, subunit 3	protein-coding	57.5	68.0	34.5	732.0	114.0	43.0	42.0	46.5
Merged-chr2-129562577-3	chr2	129562472	129562672	+	922.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25970.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	1.0	2.0	1.0	0.0	28.5	9.5	22.5	32.5
Merged-chr7-43681178-4	chr7	43681077	43681277	+	854.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9146.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	4.0	22.0	11.0	184.0	44.0	16.0	14.0	16.0
Merged-chr11-63813045-4	chr11	63812961	63813161	+	970.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10D2|LTR|ERVK	109223.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	16.5	15.5	15.0	240.0	80.5	39.5	32.5	34.0
Merged-chr10-120163703-4	chr10	120163624	120163824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 8 of 11)	intron (NM_001359184, intron 8 of 11)	37873.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	83.5	181.0	115.5	2135.5	290.5	98.0	150.0	112.5
Merged-chr16-92412445-6	chr16	92412252	92412452	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-12274.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	6.5	14.5	16.5	166.5	20.5	3.5	10.0	11.5
Merged-chr12-40583943-4	chr12	40583844	40584044	+	928.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	ORR1D2|LTR|ERVL-MaLR	137891.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	21.5	20.5	29.0	326.5	41.0	12.0	19.5	13.0
Merged-chr5-76304888-4	chr5	76304766	76304966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289826)	promoter-TSS (NM_001289826)	-10.0	NR_152171	665055.0	Mm.425276	NR_152171	ENSMUSG00000098449	Gm7467	EG665055	predicted gene 7467	ncRNA	100.5	295.5	159.0	1492.0	278.5	141.0	109.0	74.0
Merged-chr14-20848443-3	chr14	20848343	20848543	+	635.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11781.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	4.0	5.0	8.0	80.0	11.0	5.0	7.0	6.5
Merged-chr12-39230956-3	chr12	39230855	39231055	+	969.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	447244.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	13.5	10.5	18.5	289.5	14.0	2.5	8.5	18.5
Merged-chr9-106438391-4	chr9	106438280	106438480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276442)	promoter-TSS (NM_001276442)	-144.0	NM_025371	109652.0	Mm.7165	NM_025371	ENSMUSG00000023262	Acy1	1110014J22Rik|Acy-1	aminoacylase 1	protein-coding	159.5	255.0	129.0	2062.5	374.0	146.0	165.5	88.5
Merged-chr6-17589835-4	chr6	17589714	17589914	+	853.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47196.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	6.5	9.0	15.5	170.5	23.5	7.5	21.5	16.5
Merged-chr14-75187034-4	chr14	75186920	75187120	+	920.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	50595.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	15.0	67.0	15.5	239.5	80.0	31.5	13.5	14.5
Merged-chr4-102607820-2	chr4	102607721	102607921	+	728.833374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177980)	TTS (NM_001177980)	17978.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	10.5	15.5	5.0	35.5	13.5	1.0	2.5	1.0
Merged-chr14-77878053-5	chr14	77877944	77878144	+	949.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3127.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	20.5	41.0	32.5	465.0	171.0	71.0	78.5	64.0
Merged-chr8-94093611-3	chr8	94093493	94093693	+	700.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026116, intron 1 of 16)	intron (NM_026116, intron 1 of 16)	5218.0	NM_026116	67378.0	Mm.292107	NM_026116	ENSMUSG00000031755	Bbs2	2410125H22Rik|AI447581	Bardet-Biedl syndrome 2 (human)	protein-coding	3.0	4.0	0.5	88.5	12.5	6.5	8.5	6.5
Merged-chr2-35906628-3	chr2	35906528	35906728	+	594.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 3 of 9)	intron (NM_029774, intron 3 of 9)	72996.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	10.0	9.5	5.5	58.0	16.5	10.5	8.0	8.5
Merged-chr12-52383141-4	chr12	52383024	52383224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GGGTG)n|Simple_repeat|Simple_repeat	97485.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	33.5	51.0	53.0	586.5	99.0	35.5	44.0	45.5
Merged-chr7-101900853-4	chr7	101900748	101900948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081679, intron 3 of 3)	MIRb|SINE|MIR	2937.0	NM_001282088	791260.0	Mm.475469	NM_001081679	ENSMUSG00000078630	Tomt	Comt2|F930017I19Rik	transmembrane O-methyltransferase	protein-coding	73.0	100.0	59.5	712.0	140.0	61.5	53.0	57.5
Merged-chr6-15754016-4	chr6	15753911	15754111	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	33350.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	9.5	5.5	13.0	384.0	51.5	2.0	12.0	13.5
Merged-chr15-25832757-4	chr15	25832650	25832850	+	940.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10548.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	23.0	12.5	17.5	386.5	32.0	12.5	21.5	16.0
Merged-chr5-36596442-3	chr5	36596346	36596546	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-10220.0	NM_001113362	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	5.5	12.0	8.5	64.5	16.0	12.0	6.0	9.0
Merged-chr13-5870974-4	chr13	5870875	5871075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011803)	TTS (NM_011803)	9486.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	29.5	53.5	18.0	454.5	67.5	24.5	22.0	24.0
Merged-chr3-35933611-4	chr3	35933483	35933683	+	859.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205361)	promoter-TSS (NM_001205361)	-617.0	NM_001205361	114893.0	Mm.374810	NM_033623	ENSMUSG00000027708	Dcun1d1	Rp42|SCCRO|Tes3|pTes3	DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)	protein-coding	20.5	16.5	8.0	117.0	35.0	12.0	9.0	13.5
Merged-chr3-95631063-4	chr3	95630949	95631149	+	853.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001026212)	TTS (NM_001026212)	6069.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	14.0	20.0	26.0	331.0	15.0	11.5	18.5	11.0
Merged-chr8-35625874-4	chr8	35625797	35625997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-36877.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	32.0	54.5	37.5	686.5	138.5	32.0	63.0	39.0
Merged-chr13-18800610-4	chr13	18800516	18800716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 7 of 28)	intron (NM_172120, intron 7 of 28)	83324.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	176.5	244.0	207.5	2443.5	364.5	130.0	172.5	121.5
Merged-chr1-131473981-4	chr1	131473882	131474082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	53379.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	61.5	81.5	45.0	439.0	122.5	52.0	47.0	51.0
Merged-chr5-142938557-3	chr5	142938464	142938664	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21791.0	NM_007984	14086.0	Mm.289707	NM_007984	ENSMUSG00000029581	Fscn1	AI663989|Fan1|fascin-1	fascin actin-bundling protein 1	protein-coding	14.0	33.0	5.0	193.5	32.0	6.0	5.5	5.5
Merged-chr3-133758667-4	chr3	133758560	133758760	+	907.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-214270.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	2.0	14.0	9.5	194.5	10.0	8.0	6.5	17.5
Merged-chr6-134606739-2	chr6	134606639	134606839	+	659.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	25749.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	3.5	6.5	9.5	74.0	18.0	8.5	6.5	7.5
Merged-chr6-103525844-4	chr6	103525746	103525946	+	825.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007697, intron 1 of 26)	intron (NM_007697, intron 1 of 26)	14970.0	NM_007697	12661.0	Mm.251288	NM_007697	ENSMUSG00000030077	Chl1	A530023M13Rik|AI465420|CALL|LICAM2	cell adhesion molecule L1-like	protein-coding	14.5	12.0	10.5	146.5	28.5	4.0	19.0	11.5
Merged-chr3-7366485-3	chr3	7366386	7366586	+	983.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008862)	promoter-TSS (NM_008862)	-118.0	NM_008862	18767.0	Mm.3193	NM_008862	ENSMUSG00000027499	Pkia	AI415001|PKIalpha	protein kinase inhibitor, alpha	protein-coding	25.5	34.5	50.5	502.0	1.5	1.5	2.0	0.5
Merged-chr6-7845020-1	chr6	7844920	7845120	+	1000.0	f0_c57.idr	promoter-TSS (NM_052993)	promoter-TSS (NM_052993)	-204.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	36.0	48.0	56.0	439.0	46.0	24.0	25.5	25.5
Merged-chr5-30888998-4	chr5	30888897	30889097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001294262)	promoter-TSS (NM_001294262)	-9.0	NM_001048192	231093.0	Mm.440364	NM_174849	ENSMUSG00000029165	Agbl5	9430057O19Rik|CCP5	ATP/GTP binding protein-like 5	protein-coding	26.0	24.5	27.5	205.0	38.5	26.5	13.5	19.5
Merged-chr10-61370997-3	chr10	61370885	61371085	+	913.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013753, intron 1 of 19)	intron (NM_013753, intron 1 of 19)	12538.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	16.0	5.0	5.5	97.5	15.5	7.0	9.0	6.0
Merged-chr6-129333983-4	chr6	129333887	129334087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2206.0	NM_199034	381816.0	Mm.46114	NM_199034	ENSMUSG00000047720	4922502D21Rik	Clec2m|Gm1074|SPATA78	RIKEN cDNA 4922502D21 gene	protein-coding	91.5	129.5	63.0	1547.0	178.5	71.0	95.0	118.0
Merged-chr4-98202390-4	chr4	98202257	98202457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	180908.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	24.5	47.5	32.0	461.5	64.0	20.0	36.5	22.5
Merged-chr9-106687498-4	chr9	106687332	106687532	+	890.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030730)	TTS (NM_030730)	-1480.0	NM_001286498	21767.0	Mm.22266	NM_011573	ENSMUSG00000040813	Tex264	TEG-264	testis expressed gene 264	protein-coding	11.5	11.5	7.5	49.5	21.0	8.0	14.5	22.5
Merged-chr14-31390009-4	chr14	31389926	31390126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	27651.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	244.0	365.5	313.0	3564.0	549.5	263.5	320.5	239.0
Merged-chr2-167920113-4	chr2	167920034	167920234	+	889.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12193.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	21.5	14.0	36.5	246.5	39.0	5.0	8.5	6.0
Merged-chr9-104232167-4	chr9	104232050	104232250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359740, intron 6 of 56)	intron (NM_001359740, intron 6 of 56)	30780.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	38.0	64.0	26.0	544.5	77.5	24.0	35.5	43.5
Merged-chr17-30007076-3	chr17	30006979	30007179	+	939.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151443, intron 1 of 4)	intron (NR_151443, intron 1 of 4)	2040.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	6.5	24.5	4.5	103.0	41.5	12.5	19.5	13.0
Merged-chr9-55512263-4	chr9	55512165	55512365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145615)	promoter-TSS (NM_145615)	-22.0	NM_145615	110842.0	Mm.290853	NM_145615	ENSMUSG00000032314	Etfa	2010200I21Rik|D9Ertd394e	electron transferring flavoprotein, alpha polypeptide	protein-coding	158.0	251.5	123.5	2024.0	348.0	154.5	160.0	138.0
Merged-chr12-102747804-3	chr12	102747701	102747901	+	926.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142939, intron 1 of 1)	intron (NM_001142939, intron 1 of 1)	4041.0	NM_177140	320351.0	Mm.86546	NM_177140	ENSMUSG00000046675	Tmem251	D230037D09Rik	transmembrane protein 251	protein-coding	8.5	9.0	13.0	205.0	42.0	7.5	6.5	9.5
Merged-chr18-38628952-2	chr18	38628852	38629052	+	707.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27684.0	NM_011898	24066.0	Mm.42038	NM_011898	ENSMUSG00000024427	Spry4	A030006O18Rik|sprouty4	sprouty RTK signaling antagonist 4	protein-coding	8.5	8.0	5.5	73.5	19.0	6.5	12.0	1.0
Merged-chr9-111604217-3	chr9	111604123	111604323	+	812.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016853, intron 4 of 10)	intron (NM_016853, intron 4 of 10)	86125.0	NM_016853	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	1.0	2.0	0.0	10.0	38.0	18.5	16.5	12.0
Merged-chr7-19076731-4	chr7	19076629	19076829	+	790.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010058, intron 1 of 4)	intron (NM_010058, intron 1 of 4)	529.0	NM_010058	13401.0	Mm.2852	NM_010058	ENSMUSG00000030410	Dmwd	DMR-N9|Dm9	dystrophia myotonica-containing WD repeat motif	protein-coding	1.5	8.5	11.0	95.0	27.5	6.0	12.0	16.0
Merged-chr13-44538394-4	chr13	44538294	44538494	+	984.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98667.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	26.0	79.5	31.0	317.5	80.0	35.0	32.0	13.5
Merged-chr6-13601789-4	chr6	13601673	13601873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155435, intron 1 of 3)	intron (NR_155435, intron 1 of 3)	6325.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	139.5	205.0	126.5	2015.5	266.5	99.5	85.0	85.5
Merged-chr4-118180117-4	chr4	118179998	118180198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172382)	promoter-TSS (NM_172382)	-55.0	NM_001161823	230674.0	Mm.234234	NM_172382	ENSMUSG00000033326	Kdm4a	D4Ertd222e|JHDM3A|Jmjd2|Jmjd2a|mKIAA0677	lysine (K)-specific demethylase 4A	protein-coding	283.0	327.0	254.0	3782.0	582.5	231.5	329.5	288.0
Merged-chr12-17724718-3	chr12	17724632	17724832	+	782.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	33923.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	6.5	7.0	0.0	38.5	16.0	5.0	12.0	8.0
Merged-chr14-63860268-4	chr14	63860146	63860346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028228)	promoter-TSS (NM_028228)	-66.0	NM_028228	72400.0	Mm.379214	NM_028228	ENSMUSG00000021958	Pinx1	2210403I16Rik|2610028A01Rik|67-11-3|AU024023|LPTS|LPTS1	PIN2/TERF1 interacting, telomerase inhibitor 1	protein-coding	58.5	92.5	68.0	784.5	100.5	51.5	68.0	47.0
Merged-chr10-79986274-8	chr10	79986151	79986351	+	916.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	B1_Mur3|SINE|Alu	-1991.0	NM_001003949	216157.0	Mm.29442	NM_001003949	ENSMUSG00000013858	Tmem259	AC087114.7gm2|ORF61|R32184_3|mFLJ00277	transmembrane protein 259	protein-coding	5.5	15.0	6.0	116.5	13.5	6.5	4.0	19.5
Merged-chr11-75532069-4	chr11	75531961	75532161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199283)	promoter-TSS (NM_001199283)	-51.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	70.5	61.5	35.5	641.5	102.0	44.5	39.0	48.0
Merged-chr4-45795849-4	chr4	45795724	45795924	+	993.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3198.0	NM_028270	72535.0	Mm.331583	NM_028270	ENSMUSG00000035561	Aldh1b1	2700007F14Rik	aldehyde dehydrogenase 1 family, member B1	protein-coding	12.5	11.0	16.5	194.0	46.0	21.0	20.0	31.0
Merged-chr19-29647757-4	chr19	29647679	29647879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362131, intron 1 of 14)	intron (NM_001362131, intron 1 of 14)	636.0	NM_001081213	226090.0	Mm.267131	NM_001081213	ENSMUSG00000046324	Ermp1	D19Ertd410e|D19Wsu12e|Fxna|b2b2633Clo|mKIAA1815	endoplasmic reticulum metallopeptidase 1	protein-coding	16.0	39.5	33.5	353.5	38.5	18.0	33.0	20.5
Merged-chr11-118470432-4	chr11	118470316	118470516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6416.0	NM_172573	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	43.5	37.5	51.0	816.0	45.0	16.5	31.0	26.5
Merged-chr11-69778149-4	chr11	69778061	69778261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029348, exon 4 of 4)	exon (NM_029348, exon 4 of 4)	12249.0	NM_029348	75580.0	Mm.426361	NM_029348	ENSMUSG00000018750	Zbtb4	2310026P19Rik|9230111I22Rik|mKIAA1538	zinc finger and BTB domain containing 4	protein-coding	26.5	63.0	45.5	449.0	97.0	38.0	57.5	30.5
Merged-chr9-13563679-4	chr9	13563574	13563774	+	932.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56315.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	25.0	45.0	17.0	94.0	36.5	20.5	12.5	4.0
Merged-chr3-15960939-1	chr3	15960839	15961039	+	917.0	f0_balb.idr	intron (NM_001081687, intron 3 of 3)	intron (NM_001081687, intron 3 of 3)	45393.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	15.5	7.5	13.5	332.0	6.0	0.5	4.0	2.0
Merged-chr12-72665238-2	chr12	72665128	72665328	+	756.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_025522)	promoter-TSS (NM_025522)	-400.0	NM_025522	66375.0	Mm.289653	NM_025522	ENSMUSG00000021094	Dhrs7	2310016E22Rik|5730564L20Rik|AW061210|Retdsr4|Retsdr4	dehydrogenase/reductase (SDR family) member 7	protein-coding	10.0	8.0	6.0	214.0	35.0	14.5	11.5	14.0
Merged-chr16-10767375-4	chr16	10767284	10767484	+	724.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18152.0	NM_009896	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	7.0	9.0	10.5	68.0	19.0	4.0	14.0	9.5
Merged-chr13-115089429-1	chr13	115089329	115089529	+	629.0	f0_balb.idr	exon (NM_134058, exon 1 of 2)	exon (NM_134058, exon 1 of 2)	729.0	NM_134058	105083.0	Mm.486295	NM_134058	ENSMUSG00000042275	Pelo	AA409897|AI852218	pelota mRNA surveillance and ribosome rescue factor	protein-coding	13.0	10.0	14.5	104.0	19.0	3.5	6.5	7.5
Merged-chr14-45041244-2	chr14	45041144	45041344	+	732.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53133.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	1.0	6.0	1.5	10.5	11.5	6.0	4.5	6.5
Merged-chr6-33273116-4	chr6	33273025	33273225	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347089, intron 2 of 9)	B1F|SINE|Alu	23997.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	20.0	5.0	12.5	187.0	47.0	8.0	27.0	13.0
Merged-chr19-18595053-3	chr19	18594958	18595158	+	840.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 3 of 9)	L1MC5|LINE|L1	36755.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	7.0	21.0	11.5	225.5	4.5	2.5	7.0	5.0
Merged-chr12-40553804-4	chr12	40553700	40553900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	107747.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	21.0	24.0	24.5	220.5	59.0	16.5	22.5	28.0
Merged-chr8-35068473-3	chr8	35068369	35068569	+	987.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-102779.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	14.0	23.5	25.5	388.0	14.0	3.0	11.0	5.5
Merged-chr14-23839852-3	chr14	23839757	23839957	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253364, intron 1 of 27)	intron (NM_001253364, intron 1 of 27)	164348.0	NM_001253375	16531.0	Mm.343607	NM_010610	ENSMUSG00000063142	Kcnma1	5730414M22Rik|BKCa|MaxiK|Slo|Slo1|mSlo|mSlo1	potassium large conductance calcium-activated channel, subfamily M, alpha member 1	protein-coding	3.0	7.5	20.5	262.5	10.5	6.0	11.0	5.5
Merged-chr16-35981704-4	chr16	35981589	35981789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-1674.0	NM_008465	16646.0	Mm.3991	NM_008465	ENSMUSG00000022905	Kpna1	AW494490|IPOA5|NPI1|Rch2|mSRP1	karyopherin (importin) alpha 1	protein-coding	18.5	34.0	24.0	545.5	47.0	11.5	27.0	49.0
Merged-chr7-126175004-2	chr7	126174904	126175104	+	790.200012	f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 1 of 23)	intron (NM_028816, intron 1 of 23)	25497.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	2.0	2.0	5.0	41.0	14.0	6.5	5.5	9.0
Merged-chr5-102571636-4	chr5	102571560	102571760	+	770.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029270, intron 2 of 9)	intron (NM_029270, intron 2 of 9)	90269.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	6.0	4.5	6.5	151.0	7.5	6.5	13.0	16.0
Merged-chr5-135934678-4	chr5	135934571	135934771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018871)	promoter-TSS (NM_018871)	-30.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	76.0	108.0	43.5	738.0	197.0	79.5	82.5	69.5
Merged-chr2-153632725-4	chr2	153632642	153632842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195390)	promoter-TSS (NM_001195390)	39.0	NM_001195390	99311.0	Mm.294478	NM_133850	ENSMUSG00000056941	Commd7	2310010I22Rik|AW060956|mU3	COMM domain containing 7	protein-coding	25.5	40.0	29.5	502.5	122.0	44.0	44.0	63.5
Merged-chr9-108995431-4	chr9	108995331	108995531	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 1 of 13)	intron (NR_153430, intron 1 of 13)	3529.0	NR_153430	270198.0	Mm.132391	NM_173019	ENSMUSG00000025648	Pfkfb4	C230090D14	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4	protein-coding	8.5	14.5	14.0	161.0	45.5	13.0	19.5	14.5
Merged-chr6-122593521-4	chr6	122593425	122593625	+	984.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031159, intron 3 of 7)	intron (NM_031159, intron 3 of 7)	8919.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	24.5	24.0	13.5	367.5	68.0	22.5	35.5	21.0
Merged-chr4-144892724-4	chr4	144892619	144892819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172424)	promoter-TSS (NM_001172424)	-108.0	NM_001172424	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	57.5	130.0	83.0	994.5	193.0	70.5	79.0	74.0
Merged-chr10-116951141-1	chr10	116951041	116951241	+	637.0	f0_balb.idr	promoter-TSS (NM_001003950)	promoter-TSS (NM_001003950)	579.0	NR_038026	71086.0	Mm.214134	NR_038025	ENSMUSG00000112627	4933412E12Rik	-	RIKEN cDNA 4933412E12 gene	ncRNA	15.5	7.5	5.5	89.5	15.0	4.0	3.5	9.0
Merged-chr13-100866307-7	chr13	100866148	100866348	+	893.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32821.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	5.5	12.0	3.5	36.5	19.5	11.0	5.5	5.5
Merged-chr1-39851318-4	chr1	39851216	39851416	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3986.0	NR_040465	73426.0	Mm.396239	NR_040465	ENSMUSG00000101634	1700066B17Rik	-	RIKEN cDNA 1700066B17 gene	ncRNA	20.0	38.0	11.5	56.5	68.0	20.0	18.5	15.5
Merged-chr11-79611113-4	chr11	79611011	79611211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003283, intron 2 of 2)	intron (NR_003283, intron 2 of 2)	12052.0	NR_003283	790912.0	Mm.447313	NR_003283	ENSMUSG00000087434	Rab11fip4os1	Gm11202	RAB11 family interacting protein 4 (class II), opposite strand 1	ncRNA	55.0	89.0	68.5	1103.0	95.5	33.5	41.5	42.5
Merged-chr3-98019485-4	chr3	98019390	98019590	+	795.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	5952.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	11.5	11.0	6.0	183.0	30.5	6.0	5.5	10.5
Merged-chr7-103861155-1	chr7	103861055	103861255	+	685.333313	f0_balb.idr	Intergenic	Intergenic	-7948.0	NM_008221	15135.0	Mm.440164	NM_008221	ENSMUSG00000052187	Hbb-y	Ey|Hby	hemoglobin Y, beta-like embryonic chain	protein-coding	9.0	9.0	7.0	147.5	3.0	0.0	4.5	6.0
Merged-chr2-84831801-4	chr2	84831693	84831893	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4772.0	NM_013899	30059.0	Mm.21826	NM_013899	ENSMUSG00000027076	Timm10	Tim13|Timm13a	translocase of inner mitochondrial membrane 10	protein-coding	18.0	37.0	13.0	347.0	62.0	9.5	16.0	19.0
Merged-chr8-126573333-4	chr8	126573210	126573410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	20126.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	21.5	25.5	13.5	315.5	39.5	21.5	20.0	20.5
Merged-chr15-31601780-4	chr15	31601673	31601873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007637)	promoter-TSS (NM_007637)	73.0	NM_007637	12465.0	Mm.282158	NM_007637	ENSMUSG00000022234	Cct5	CCT-epsilon|Ccte|TCP-1-epsilon|TCPE|mKIAA0098	chaperonin containing Tcp1, subunit 5 (epsilon)	protein-coding	161.5	275.5	128.0	2266.0	413.5	167.5	141.5	156.0
Merged-chr11-94589574-4	chr11	94589464	94589664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153807, intron 1 of 15)	intron (NM_153807, intron 1 of 15)	12222.0	NM_153807	264895.0	Mm.386885	NM_153807	ENSMUSG00000076435	Acsf2	-	acyl-CoA synthetase family member 2	protein-coding	201.5	328.0	169.0	2509.5	401.0	154.5	196.0	172.0
Merged-chr15-96594109-4	chr15	96594010	96594210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166456, intron 4 of 15)	intron (NM_001166456, intron 4 of 15)	47852.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	17.5	39.0	18.5	471.5	83.0	20.0	45.0	32.5
Merged-chr5-144223675-4	chr5	144223569	144223769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356992)	promoter-TSS (NM_001356992)	-54.0	NM_001356993	70381.0	Mm.239412	NM_027410	ENSMUSG00000066621	Tecpr1	2210010N04Rik|mKIAA1358	tectonin beta-propeller repeat containing 1	protein-coding	123.0	168.0	173.0	2140.0	308.0	126.0	175.0	134.5
Merged-chr16-23280648-4	chr16	23280568	23280768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	L3|LINE|CR1	-9802.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	56.5	51.0	76.5	1066.0	60.5	25.5	56.5	42.5
Merged-chr10-58446024-3	chr10	58445910	58446110	+	959.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011240)	promoter-TSS (NM_011240)	-842.0	NM_011240	19386.0	Mm.431695	NM_011240	ENSMUSG00000003226	Ranbp2	A430087B05Rik|AI256741|NUP358	RAN binding protein 2	protein-coding	14.5	16.5	12.0	93.5	30.5	14.5	15.5	23.0
Merged-chr15-50763544-3	chr15	50763433	50763633	+	917.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	125516.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	5.5	9.5	14.0	138.5	9.5	2.5	12.0	5.0
Merged-chr1-128729725-4	chr1	128729598	128729798	+	939.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-137399.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	10.5	12.0	7.5	308.0	31.0	7.5	29.5	15.5
Merged-chr11-85925578-3	chr11	85925477	85925677	+	754.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28812.0	NM_172798	21387.0	Mm.275336	NM_011536	ENSMUSG00000000094	Tbx4	3930401C23	T-box 4	protein-coding	8.0	6.5	7.0	78.0	9.5	3.0	8.0	5.5
Merged-chr4-84977063-3	chr4	84976963	84977163	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175275, intron 7 of 25)	Lx8b|LINE|L1	92754.0	NM_177385	338349.0	Mm.440562	NM_175275	ENSMUSG00000038070	Cntln	AI448092|B430108F07Rik|D530005L17Rik	centlein, centrosomal protein	protein-coding	8.0	10.5	9.0	210.5	23.5	6.5	17.5	6.5
Merged-chr19-24271793-7	chr19	24271633	24271833	+	983.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008044, intron 3 of 4)	intron (NM_008044, intron 3 of 4)	8853.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	13.5	24.0	10.0	246.0	45.0	13.0	22.5	22.5
Merged-chr6-49031446-4	chr6	49031355	49031555	+	964.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5063.0	NM_053110	93695.0	Mm.302602	NM_053110	ENSMUSG00000029816	Gpnmb	DC-HIL|Dchil|ipd	glycoprotein (transmembrane) nmb	protein-coding	19.5	15.0	14.5	374.0	44.5	7.0	8.5	17.0
Merged-chr14-8081019-4	chr14	8080901	8081101	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025938, intron 1 of 5)	intron (NM_025938, intron 1 of 5)	688.0	NM_025938	67053.0	Mm.210048	NM_025938	ENSMUSG00000023156	Rpp14	2610511E03Rik|AA682089	ribonuclease P 14 subunit	protein-coding	33.5	40.0	24.5	549.0	74.0	15.0	36.0	32.0
Merged-chr1-121135856-4	chr1	121135740	121135940	+	896.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	48435.0	NR_110450	98452.0	Mm.131017	NR_038008	ENSMUSG00000097881	Celrr	AI848258|B230209K01Rik|Celr|Gm818	cerebellum expressed regulatory RNA	ncRNA	8.5	8.0	10.0	117.5	34.0	9.0	25.5	17.0
Merged-chr9-85396698-2	chr9	85396598	85396798	+	554.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69548.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	4.5	4.5	5.0	37.0	11.0	3.5	3.5	2.0
Merged-chr3-135699750-2	chr3	135699682	135699882	+	825.75	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-8235.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	8.0	1.5	8.0	83.0	43.5	13.5	14.0	8.5
Merged-chr6-87509280-4	chr6	87509189	87509389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	L1M4c|LINE|L1	-12962.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	35.5	48.0	60.5	944.0	99.5	35.5	40.0	41.5
Merged-chr17-56005888-4	chr17	56005790	56005990	+	778.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102313)	promoter-TSS (NR_102313)	-284.0	NR_102313	106766.0	Mm.204991	NM_145934	ENSMUSG00000038781	Stap2	AW049765|STAP-2	signal transducing adaptor family member 2	protein-coding	10.5	20.5	9.5	226.5	34.0	21.5	9.0	18.5
Merged-chr6-17595860-3	chr6	17595753	17595953	+	841.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41157.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	16.0	7.5	5.5	124.5	30.5	6.0	14.5	5.0
Merged-chr19-55414251-2	chr19	55414151	55414351	+	785.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 6 of 8)	intron (NM_001360431, intron 6 of 8)	98194.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	6.0	7.0	5.0	92.5	21.0	8.5	8.5	3.5
Merged-chr17-35813333-4	chr17	35813223	35813423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8390.0	NM_133662	15937.0	Mm.25613	NM_133662	ENSMUSG00000003541	Ier3	AI663993|IEX-1|cI-3|gly96	immediate early response 3	protein-coding	102.5	103.0	53.0	962.0	157.0	51.5	69.0	59.0
Merged-chr12-54825399-2	chr12	54825299	54825499	+	693.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-29737.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	3.0	5.0	1.0	61.0	15.5	10.0	7.5	13.0
Merged-chr16-4683305-2	chr16	4683205	4683405	+	712.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023646)	promoter-TSS (NM_023646)	-765.0	NM_023646	83945.0	Mm.248337	NM_023646	ENSMUSG00000004069	Dnaja3	1200003J13Rik|1810053A11Rik|C81173|Tid-1|Tid1l	DnaJ heat shock protein family (Hsp40) member A3	protein-coding	2.5	4.5	2.0	16.0	8.5	7.0	4.5	10.5
Merged-chr4-95212964-6	chr4	95212856	95213056	+	988.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160734.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	21.0	26.5	20.0	268.5	14.0	16.5	8.5	19.5
Merged-chr13-14068220-4	chr13	14068121	14068321	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194262, intron 2 of 23)	T-rich|Low_complexity|Low_complexity	4437.0	NM_198122	94246.0	Mm.439784	NM_194262	ENSMUSG00000039219	Arid4b	BCAA|BRCAA1|RBBP1L1|Rbp1l1|SAP180	AT rich interactive domain 4B (RBP1-like)	protein-coding	15.0	8.0	9.0	297.0	18.0	16.5	9.0	15.0
Merged-chr2-30934162-4	chr2	30934055	30934255	+	930.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-18846.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	12.0	24.5	7.0	91.0	37.0	24.0	14.0	18.0
Merged-chr16-45192773-3	chr16	45192676	45192876	+	824.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-31561.0	NM_001037719	208154.0	Mm.38199	NM_177584	ENSMUSG00000052013	Btla	A630002H24	B and T lymphocyte associated	protein-coding	7.0	8.5	5.0	130.5	27.0	4.0	2.0	4.5
Merged-chr9-57874337-4	chr9	57874236	57874436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36650.0	NM_027086	69459.0	Mm.41735	NM_027086	ENSMUSG00000055720	Ubl7	2300004C15Rik	ubiquitin-like 7 (bone marrow stromal cell-derived)	protein-coding	49.5	75.0	41.5	507.0	170.5	44.0	74.0	76.0
Merged-chr5-45520312-4	chr5	45520208	45520408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025895)	promoter-TSS (NM_025895)	79.0	NM_025895	66999.0	Mm.283045	NM_025895	ENSMUSG00000015804	Med28	1500003D12Rik|AI451633|AU045690|Eg1|FKSG20|magicin	mediator complex subunit 28	protein-coding	75.5	126.5	73.0	1450.5	219.0	94.0	95.0	96.5
Merged-chr10-13941625-4	chr10	13941524	13941724	+	744.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24451.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	13.0	25.5	10.0	184.0	34.5	20.5	11.5	14.0
Merged-chr14-33185199-4	chr14	33185113	33185313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146022)	promoter-TSS (NM_001146022)	-147.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	42.0	70.5	57.0	1012.5	119.0	46.0	62.0	51.0
Merged-chr12-79356364-4	chr12	79356295	79356495	+	944.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	59044.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	12.0	42.0	10.5	131.5	70.0	19.0	17.0	31.5
Merged-chr12-59130850-2	chr12	59130750	59130950	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165253)	promoter-TSS (NM_001165253)	-603.0	NM_001165253	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	8.0	13.0	14.0	189.5	30.5	21.0	11.5	17.5
Merged-chr19-47621710-4	chr19	47621604	47621804	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164639, intron 9 of 17)	intron (NM_001164639, intron 9 of 17)	41685.0	NM_001164639	20874.0	Mm.281011	NM_009289	ENSMUSG00000025060	Slk	9A2|AV021402|AW411554|Etk4|SMAK|Stk2|mKIAA0204|mSLK	STE20-like kinase	protein-coding	16.5	28.0	16.5	257.0	49.5	2.5	9.0	14.0
Merged-chr1-172126721-4	chr1	172126612	172126812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159525)	promoter-TSS (NM_001159525)	-43.0	NM_001356513	19298.0	Mm.247764	NM_023041	ENSMUSG00000003464	Pex19	Pxf	peroxisomal biogenesis factor 19	protein-coding	62.5	81.5	40.5	769.0	135.5	53.0	57.5	44.5
Merged-chr5-90771545-4	chr5	90771452	90771652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019932)	promoter-TSS (NM_019932)	-883.0	NM_019932	56744.0	Mm.332490	NM_019932	ENSMUSG00000029373	Pf4	Cxcl4|Scyb4	platelet factor 4	protein-coding	43.0	29.0	43.0	784.5	90.0	29.5	51.0	48.5
Merged-chr5-139408698-4	chr5	139408600	139408800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177000, intron 1 of 1)	intron (NM_177000, intron 1 of 1)	2313.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	147.0	152.0	181.0	2585.0	324.0	116.0	164.5	148.0
Merged-chr8-25743030-3	chr8	25742943	25743143	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361595, intron 7 of 15)	B3A|SINE|B2	11237.0	NM_028102	72108.0	Mm.246875	NM_028102	ENSMUSG00000061313	Ddhd2	2010305K11Rik|SAMWD1|mKIAA0725	DDHD domain containing 2	protein-coding	7.0	11.5	4.5	180.5	17.0	9.5	5.5	9.5
Merged-chr6-22423693-3	chr6	22423549	22423749	+	974.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67568.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	16.0	3.5	5.5	204.5	29.0	7.0	7.5	16.5
Merged-chr14-58072142-4	chr14	58071981	58072181	+	990.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013518)	promoter-TSS (NM_013518)	-605.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	18.5	23.5	28.0	287.0	23.0	11.0	21.5	22.0
Merged-chr10-82763595-4	chr10	82763454	82763654	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010914, intron 1 of 7)	CpG	587.0	NM_010914	18045.0	Mm.245998	NM_010914	ENSMUSG00000020248	Nfyb	AA985999|Cbf-A	nuclear transcription factor-Y beta	protein-coding	13.0	17.5	14.0	179.5	44.0	13.0	9.0	16.0
Merged-chr2-153092361-3	chr2	153092261	153092461	+	797.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16107.0	NM_001172117	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	7.0	10.0	6.5	96.0	10.0	1.5	5.0	6.5
Merged-chr9-44510227-4	chr9	44510123	44510323	+	948.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_030256, exon 9 of 9)	3' UTR (NM_030256, exon 9 of 9)	11087.0	NM_030256	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	10.0	15.5	6.5	128.0	23.0	16.0	8.5	8.5
Merged-chr15-59568019-4	chr15	59567914	59568114	+	840.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-80640.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	15.0	15.0	11.5	151.0	17.5	14.5	12.5	6.0
Merged-chr3-21936835-4	chr3	21936663	21936863	+	751.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139889.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	4.0	6.5	1.5	99.5	15.5	7.5	4.5	8.0
Merged-chr8-111056283-4	chr8	111056186	111056386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028274)	promoter-TSS (NM_028274)	-53.0	NM_028274	72544.0	Mm.24174	NM_028274	ENSMUSG00000109941	Exosc6	2610510N21Rik|C76919|Mtr3	exosome component 6	protein-coding	96.0	116.0	63.0	1317.5	211.5	82.5	127.5	90.5
Merged-chr9-121314983-4	chr9	121314876	121315076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	17474.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	78.5	157.5	91.0	1072.5	202.0	79.0	97.0	81.0
Merged-chr13-41373041-4	chr13	41372917	41373117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 2 of 7)	intron (NM_001111324, intron 2 of 7)	-14016.0	NM_017464	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	37.0	50.5	45.5	694.5	96.0	31.0	63.5	45.5
Merged-chr16-10978569-3	chr16	10978441	10978641	+	741.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	14580.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	11.0	7.0	7.5	80.5	10.0	12.0	4.5	10.0
Merged-chr6-38434851-4	chr6	38434764	38434964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177185, intron 1 of 16)	CpG	939.0	NM_177185	320538.0	Mm.302831	NM_177185	ENSMUSG00000038538	Ubn2	2900060J04Rik|6030408G03Rik|BC060116|D130059P03Rik|mKIAA2030	ubinuclein 2	protein-coding	42.0	48.5	27.0	504.0	112.5	28.5	27.5	46.5
Merged-chr12-3110031-4	chr12	3109931	3110131	+	949.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	-125760.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	57.5	39.0	36.0	747.0	32.0	15.5	8.5	39.5
Merged-chr7-136321541-4	chr7	136321440	136321640	+	921.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27875.0	NR_040459	330664.0	Mm.127762	NR_040459	ENSMUSG00000109633	C230079O03Rik	C230079O03	RIKEN cDNA C230079O03 gene	ncRNA	6.5	9.0	25.0	396.5	55.0	11.5	33.0	17.5
Merged-chr12-51348223-4	chr12	51348111	51348311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167963)	promoter-TSS (NM_001167963)	-19.0	NM_001167964	217558.0	Mm.253264	NM_001015099	ENSMUSG00000035293	G2e3	6030408C04Rik|9030416F18|AW046379|D930034K21Rik|mKIAA1333	G2/M-phase specific E3 ubiquitin ligase	protein-coding	137.5	148.0	163.0	2958.5	222.0	79.0	108.5	88.5
Merged-chr13-13349519-3	chr13	13349421	13349621	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44103.0	NM_031999	83924.0	Mm.379269	NM_031999	ENSMUSG00000021306	Gpr137b	AI788917|AU016435|AW546472|C730041E01|C80550|C80741|D13Abb1e|Tm7sf1	G protein-coupled receptor 137B	protein-coding	5.0	6.5	9.5	96.5	16.5	4.0	10.0	8.0
Merged-chr9-53650928-3	chr9	53650802	53651002	+	664.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161618, intron 3 of 17)	intron (NM_001161618, intron 3 of 17)	16605.0	NM_001161618	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	3.5	3.0	7.5	97.0	15.5	4.5	7.0	6.0
Merged-chr9-95603077-4	chr9	95602980	95603180	+	960.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34548.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	8.5	21.5	7.0	152.5	46.0	6.0	15.5	17.0
Merged-chr11-74724234-7	chr11	74724173	74724373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037610)	promoter-TSS (NR_037610)	111.0	NM_013625	18472.0	Mm.397111	NM_013625	ENSMUSG00000020745	Pafah1b1	LIS-1|Lis1|MMS10-U|Mdsh|Ms10u|Pafaha	platelet-activating factor acetylhydrolase, isoform 1b, subunit 1	protein-coding	55.0	139.0	106.5	909.5	205.5	85.5	77.0	81.5
Merged-chr5-24454464-4	chr5	24454370	24454570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359881, intron 1 of 15)	intron (NM_001359881, intron 1 of 15)	2293.0	NM_139153	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	35.5	60.5	27.0	638.5	67.5	28.0	26.5	32.5
Merged-chr14-65902970-3	chr14	65902869	65903069	+	808.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50775.0	NM_172604	219151.0	Mm.344095	NM_172604	ENSMUSG00000034463	Scara3	APC7|C130058N24Rik|CSR|CSR1|MSLR1|MSRL1	scavenger receptor class A, member 3	protein-coding	1.5	6.0	7.0	47.5	27.5	20.5	12.5	17.0
Merged-chr12-10755239-3	chr12	10755124	10755324	+	957.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC-int|LTR|ERVL-MaLR	-292589.0	NR_045860	71457.0	Mm.95280	NR_045860	ENSMUSG00000113620	7420701I03Rik	-	RIKEN cDNA 7420701I03 gene	ncRNA	21.0	11.0	13.0	373.0	11.5	8.0	9.0	6.0
Merged-chr11-109394972-4	chr11	109394875	109395075	+	877.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010303, intron 3 of 3)	intron (NM_010303, intron 3 of 3)	-30971.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	15.5	19.5	11.5	270.5	23.5	10.5	5.0	7.0
Merged-chr7-25812441-2	chr7	25812341	25812541	+	752.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_028775, intron 2 of 8)	intron (NM_028775, intron 2 of 8)	4089.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	1.5	8.5	7.5	39.0	12.0	11.0	5.5	7.0
Merged-chr13-102658603-3	chr13	102658504	102658704	+	973.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34943.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	2.0	3.0	1.0	4.5	40.0	31.5	16.5	17.5
Merged-chr10-20590295-4	chr10	20590201	20590401	+	931.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	intron (NM_013875, intron 2 of 12)	-41973.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	26.0	35.0	28.0	1061.0	27.5	12.0	53.5	16.5
Merged-chr2-166730361-4	chr2	166730272	166730472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16540.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	108.0	177.5	119.5	1493.0	281.0	101.0	130.0	118.5
Merged-chr16-75592877-4	chr16	75592791	75592991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198302)	promoter-TSS (NM_198302)	0.0	NM_198302	224344.0	Mm.273214	NM_198302	ENSMUSG00000032940	Rbm11	A330018F01	RNA binding motif protein 11	protein-coding	45.0	75.5	49.5	979.5	78.0	38.0	75.0	30.0
Merged-chr3-18339319-4	chr3	18339218	18339418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-95980.0	NM_007825	13123.0	Mm.316000	NM_007825	ENSMUSG00000039519	Cyp7b1	AW261589|D3Ertd552e|hct-1	cytochrome P450, family 7, subfamily b, polypeptide 1	protein-coding	26.0	34.0	36.0	707.0	62.5	24.0	26.5	32.0
Merged-chr2-93346387-8	chr2	93346185	93346385	+	918.2802119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11798.0	NM_183180	241556.0	Mm.274159	NM_183180	ENSMUSG00000027217	Tspan18	2610042G18Rik|6720430O15|BB226562	tetraspanin 18	protein-coding	12.0	11.5	6.0	204.5	15.0	9.5	9.0	4.5
Merged-chr1-164057028-3	chr1	164056901	164057101	+	901.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011345, exon 14 of 14)	3' UTR (NM_011345, exon 14 of 14)	-5075.0	NM_001164059	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	9.0	8.5	4.5	122.5	8.5	11.5	5.5	5.5
Merged-chr4-132628931-2	chr4	132628831	132629031	+	726.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10115.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	5.0	4.0	0.0	29.5	10.0	8.5	4.5	7.0
Merged-chr18-23914705-4	chr18	23914598	23914798	+	869.3249509999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-39990.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	13.5	15.5	9.5	204.5	25.5	13.5	16.0	12.0
Merged-chr9-31131918-4	chr9	31131796	31131996	+	823.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011176)	promoter-TSS (NM_011176)	-97.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	20.0	13.5	15.5	185.0	24.0	7.5	14.5	5.5
Merged-chr11-83045756-4	chr11	83045652	83045852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5219.0	NR_073524	237887.0	Mm.341645	NM_181542	ENSMUSG00000072621	Slfn10-ps	Slfn10|mFLJ00257	schlafen 10, pseudogene	protein-coding	114.0	212.5	77.0	1107.5	221.5	103.0	92.0	81.0
Merged-chr12-119113990-4	chr12	119113910	119114110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124266.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	29.5	36.5	23.0	685.0	120.5	46.0	36.5	36.0
Merged-chr3-136793723-1	chr3	136793623	136793823	+	587.0	f0_balb.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	123657.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	9.0	7.0	11.5	83.5	13.5	3.0	3.0	9.0
Merged-chr2-160667491-4	chr2	160667378	160667578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009408, intron 2 of 20)	MLT1F|LTR|ERVL-MaLR	21581.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	95.5	103.0	81.0	1607.5	192.0	49.5	58.0	91.5
Merged-chr5-21186230-4	chr5	21186126	21186326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175437)	promoter-TSS (NM_175437)	-41.0	NR_153365	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	139.0	160.0	121.5	2034.5	329.0	108.5	142.5	110.5
Merged-chr13-8842427-4	chr13	8842342	8842542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039388, intron 9 of 13)	intron (NM_001039388, intron 9 of 13)	28602.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	21.5	29.5	31.5	841.0	91.5	16.5	48.5	31.0
Merged-chr13-41000291-5	chr13	41000155	41000355	+	864.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026550)	promoter-TSS (NM_026550)	-755.0	NM_026550	68083.0	Mm.24789	NM_026550	ENSMUSG00000038683	Pak1ip1	5830431I15Rik|5930415H02Rik|AA419825|AI314040|AW556169|Gdpd1|PIP1	PAK1 interacting protein 1	protein-coding	3.5	13.0	4.5	51.5	14.0	14.0	9.0	11.5
Merged-chr11-115473819-4	chr11	115473699	115473899	+	967.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001080934, exon 4 of 4)	3' UTR (NM_001080934, exon 4 of 4)	-1868.0	NM_177778	276905.0	Mm.38019	NM_177778	ENSMUSG00000057219	Armc7	A630084C13|BC023126	armadillo repeat containing 7	protein-coding	21.0	42.0	19.0	345.0	35.5	18.5	21.0	15.0
Merged-chr4-119663627-3	chr4	119663533	119663733	+	960.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-4688.0	NM_008191	14916.0	Mm.278	NM_008191	ENSMUSG00000032978	Guca2b	AV066530|Gcap2|Ugn	guanylate cyclase activator 2b (retina)	protein-coding	15.5	18.0	18.0	164.5	10.5	3.0	5.5	5.0
Merged-chr16-17234746-3	chr16	17234651	17234851	+	934.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178922, intron 1 of 2)	intron (NM_178922, intron 1 of 2)	1164.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	9.0	5.0	4.0	107.5	25.0	10.0	5.0	9.0
Merged-chr14-87125697-3	chr14	87125613	87125813	+	810.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019670, intron 1 of 27)	B3|SINE|B2	15511.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	3.0	9.0	8.5	97.5	13.5	6.0	11.5	7.5
Merged-chr7-132576367-4	chr7	132576270	132576470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016978)	promoter-TSS (NM_016978)	28.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	144.0	333.0	196.5	2143.0	500.0	237.5	257.5	170.0
Merged-chr2-14056177-4	chr2	14056080	14056280	+	915.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013935)	promoter-TSS (NM_013935)	-145.0	NM_013935	30963.0	Mm.241205	NM_013935	ENSMUSG00000063275	Hacd1	Ptpla	3-hydroxyacyl-CoA dehydratase 1	protein-coding	21.0	21.5	20.0	230.0	23.0	9.5	13.0	10.0
Merged-chr2-59387362-4	chr2	59387260	59387460	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040510)	promoter-TSS (NR_040510)	-678.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	19.5	10.0	22.5	100.0	69.0	10.5	18.5	13.0
Merged-chr13-113542633-4	chr13	113542574	113542774	+	846.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39830.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	11.0	17.5	22.0	257.0	15.0	10.0	17.5	10.0
Merged-chr8-125600211-4	chr8	125600112	125600312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015535, intron 2 of 2)	ORR1E|LTR|ERVL-MaLR	15574.0	NR_015535	75930.0	Mm.195663	NR_015535	ENSMUSG00000110629	4930567H12Rik	4930579P07Rik	RIKEN cDNA 4930567H12 gene	ncRNA	22.0	34.0	26.5	321.5	106.5	38.0	61.5	53.0
Merged-chr6-82971275-4	chr6	82971184	82971384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 3 of 9)	intron (NM_033079, intron 3 of 9)	24362.0	NM_033079	110958.0	Mm.100652	NM_033079	ENSMUSG00000030041	M1ap	D6Mm5e	meiosis 1 associated protein	protein-coding	21.5	60.0	44.5	617.0	76.0	25.0	26.0	34.0
Merged-chr19-24995042-4	chr19	24994930	24995130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4499.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	26.0	31.5	14.5	421.5	80.0	36.0	37.5	32.5
Merged-chr13-30767077-4	chr13	30766984	30767184	+	943.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013674)	TTS (NM_013674)	17851.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	16.0	18.5	6.5	210.5	34.5	6.0	18.5	27.5
Merged-chr6-85370862-4	chr6	85370753	85370953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003955, intron 1 of 5)	intron (NM_001003955, intron 1 of 5)	3781.0	NM_177466	52055.0	Mm.220334	NM_177466	ENSMUSG00000051343	Rab11fip5	9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11	RAB11 family interacting protein 5 (class I)	protein-coding	41.5	60.0	63.0	1176.0	91.5	24.5	37.0	62.5
Merged-chr4-32274967-4	chr4	32274864	32275064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-142471.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	70.0	88.5	88.5	1471.0	172.5	61.5	75.0	90.5
Merged-chr18-39517359-4	chr18	39517247	39517447	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30102.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	14.0	54.0	32.5	356.0	82.5	15.5	25.5	30.5
Merged-chr2-153348593-4	chr2	153348495	153348695	+	769.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039939, intron 1 of 11)	intron (NM_001039939, intron 1 of 11)	2456.0	NM_001039939	228790.0	Mm.330677	NM_001039939	ENSMUSG00000042548	Asxl1	mKIAA0978	additional sex combs like 1	protein-coding	13.0	17.0	4.5	64.5	25.0	12.5	2.5	6.0
Merged-chr13-40900176-4	chr13	40900078	40900278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008105, intron 1 of 2)	intron (NM_008105, intron 1 of 2)	13420.0	NM_008105	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	39.5	72.0	64.0	1326.0	116.5	39.0	62.5	52.0
Merged-chr3-89214403-4	chr3	89214297	89214497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013691)	promoter-TSS (NM_013691)	-62.0	NM_001357367	17827.0	Mm.280943	NM_013604	ENSMUSG00000064068	Mtx1	Gcap6|Mtx	metaxin 1	protein-coding	81.0	135.5	47.0	987.5	203.5	76.0	80.0	99.0
Merged-chr2-90577765-4	chr2	90577654	90577854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	B4A|SINE|B4	2893.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	72.5	120.5	79.5	812.0	194.0	60.0	72.5	74.5
Merged-chr12-85599706-4	chr12	85599599	85599799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205053)	promoter-TSS (NM_001205053)	283.0	NM_030887	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	97.0	233.5	96.5	852.5	319.5	131.0	173.0	92.0
Merged-chr7-140954369-4	chr7	140954263	140954463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030694)	TTS (NM_030694)	1598.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	76.5	122.0	77.5	1114.5	173.0	66.5	96.5	65.0
Merged-chr12-44276168-3	chr12	44276042	44276242	+	760.209534	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026164, intron 1 of 9)	L1MA4|LINE|L1	6988.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	2.5	7.5	6.0	53.5	38.0	8.5	6.0	11.0
Merged-chr14-48443941-1	chr14	48443841	48444041	+	580.0	f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-2182.0	NM_001310584	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	1.0	7.5	1.0	21.0	22.0	7.5	7.0	5.0
Merged-chr2-128719507-4	chr2	128719421	128719621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	20606.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	54.5	87.5	54.0	1213.5	137.5	57.5	50.0	49.0
Merged-chr10-70213866-4	chr10	70213789	70213989	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304739, intron 1 of 2)	intron (NM_001304739, intron 1 of 2)	9225.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	15.5	7.5	19.0	282.0	30.0	7.5	7.5	16.0
Merged-chr6-134556398-3	chr6	134556281	134556481	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	MER92A|LTR|ERV1	10532.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	3.0	0.0	1.0	20.0	229.5	57.5	111.0	113.5
Merged-chr11-117413362-4	chr11	117413258	117413458	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1031.0	NR_132097	105827746.0	Mm.388009	NR_132097	ENSMUSG00000086588	Gm11729	-	predicted gene 11729	ncRNA	34.5	73.0	42.0	779.5	72.5	18.5	34.0	42.0
Merged-chr1-131021142-4	chr1	131021022	131021222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010548, intron 2 of 4)	intron (NM_010548, intron 2 of 4)	1277.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	43.0	29.0	24.5	438.5	80.5	20.0	40.0	27.5
Merged-chr1-133025351-4	chr1	133025238	133025438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302803)	promoter-TSS (NM_001302803)	78.0	NR_126506	17248.0	Mm.426531	NM_008575	ENSMUSG00000054387	Mdm4	4933417N07Rik|AA414968|AL023055|AU018793|AU021806|C85810|Mdmx	transformed mouse 3T3 cell double minute 4	protein-coding	55.5	67.0	54.0	476.5	162.5	57.0	66.0	70.0
Merged-chr11-106648513-4	chr11	106648331	106648531	+	954.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35501.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	12.0	14.0	3.5	197.5	39.0	9.5	5.5	11.0
Merged-chr5-117931624-2	chr5	117931524	117931724	+	601.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 19 of 27)	intron (NM_008712, intron 19 of 27)	-45146.0	NM_145564	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	0.0	1.5	3.0	53.5	12.0	5.0	5.5	5.5
Merged-chr3-19216465-4	chr3	19216369	19216569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356295, intron 5 of 7)	intron (NM_001356295, intron 5 of 7)	28174.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	40.0	61.0	36.5	1108.0	170.5	70.5	70.5	45.5
Merged-chr15-37006565-4	chr15	37006474	37006674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026521, intron 1 of 3)	intron (NM_026521, intron 1 of 3)	828.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	39.5	56.5	24.0	593.0	102.5	26.0	49.0	28.5
Merged-chr3-126690809-4	chr3	126690646	126690846	+	982.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 3 of 18)	intron (NM_001025438, intron 3 of 18)	93795.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	10.0	20.0	11.5	147.0	34.5	14.0	9.0	7.5
Merged-chr8-26835845-4	chr8	26835749	26835949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11426.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	54.0	42.5	83.5	903.0	95.5	36.5	55.5	42.0
Merged-chr16-91043990-4	chr16	91043905	91044105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152264, intron 1 of 17)	CpG	374.0	NM_026110	67367.0	Mm.347	NM_026110	ENSMUSG00000022974	Paxbp1	1810007M14Rik|C21orf66|Gcfc|Gcfc1|Pax3/7bp	PAX3 and PAX7 binding protein 1	protein-coding	29.5	52.5	30.0	329.5	37.0	10.0	25.5	36.0
Merged-chr12-38787893-4	chr12	38787791	38787991	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163154, intron 1 of 9)	intron (NM_001163154, intron 1 of 9)	4180.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	31.5	43.0	27.0	674.5	54.0	18.0	23.0	24.5
Merged-chr11-75588127-4	chr11	75588031	75588231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008850)	promoter-TSS (NM_008850)	52.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	96.5	142.0	73.0	1265.0	201.0	94.0	94.5	85.5
Merged-chr1-46927265-4	chr1	46927166	46927366	+	966.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1490.0	NM_001356417	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	84.5	96.0	69.0	1378.0	32.5	9.0	11.0	23.5
Merged-chr7-82866264-4	chr7	82866180	82866380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1053.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	156.0	197.5	136.0	2864.0	523.5	181.5	303.0	243.5
Merged-chr13-34875973-2	chr13	34875895	34876095	+	950.666626	f0_balb.idr|f0_c57.idr	intron (NM_013830, intron 1 of 14)	CpG	501.0	NM_013830	19134.0	Mm.10027	NM_013830	ENSMUSG00000021413	Prpf4b	2610037H07|Prp4|Prp4k|Prpk|cbp143	pre-mRNA processing factor 4B	protein-coding	16.5	27.0	15.0	261.5	43.0	13.5	12.5	21.5
Merged-chr10-67271863-4	chr10	67271763	67271963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036293, intron 2 of 3)	intron (NM_001036293, intron 2 of 3)	13418.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	56.0	71.0	69.0	1173.5	88.0	25.0	46.0	51.5
Merged-chr10-7050032-3	chr10	7049940	7050140	+	918.666626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26855.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	9.5	7.5	10.5	144.0	13.0	3.0	2.0	5.0
Merged-chr6-48016293-4	chr6	48016197	48016397	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31497.0	NM_001347139	72306.0	Mm.381553	NM_001081382	ENSMUSG00000071477	Zfp777	2500002G23Rik	zinc finger protein 777	protein-coding	21.5	25.0	21.5	346.5	19.0	9.0	12.5	18.0
Merged-chr1-107399533-4	chr1	107399420	107399620	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23169.0	NM_027548	116872.0	Mm.66015	NM_027548	ENSMUSG00000067001	Serpinb7	4631416M05Rik|megsin|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 7	protein-coding	19.0	20.5	30.5	406.0	41.0	12.0	19.5	16.0
Merged-chr7-31125538-5	chr7	31125361	31125561	+	784.11499	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011322, intron 1 of 5)	intron (NM_011322, intron 1 of 5)	1562.0	NM_011322	20266.0	Mm.1418	NM_011322	ENSMUSG00000019194	Scn1b	-	sodium channel, voltage-gated, type I, beta	protein-coding	9.5	13.5	14.0	134.5	18.5	8.5	14.0	5.5
Merged-chr5-142905981-4	chr5	142905896	142906096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007393, intron 1 of 5)	CpG	758.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	175.5	402.5	258.5	2632.0	662.0	337.5	331.0	350.0
Merged-chr2-90573586-3	chr2	90573475	90573675	+	779.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	7072.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	10.5	8.5	2.0	22.5	29.5	6.0	5.5	10.5
Merged-chr3-15231788-3	chr3	15231688	15231888	+	889.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100514.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	11.0	14.0	17.5	364.5	17.5	4.0	2.0	10.0
Merged-chr9-119977039-4	chr9	119976929	119977129	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153287, exon 2 of 5)	exon (NM_153287, exon 2 of 5)	5994.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	23.5	27.5	21.5	153.5	48.5	14.0	22.0	21.5
Merged-chr9-118606639-4	chr9	118606526	118606726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133721)	promoter-TSS (NM_133721)	-83.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	54.5	73.5	46.0	893.5	211.0	81.5	127.0	85.5
Merged-chr6-67168493-4	chr6	67168420	67168620	+	836.145874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42|LTR|ERVK	-98459.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	15.0	9.5	9.5	156.0	21.5	9.0	11.0	6.0
Merged-chr17-87531916-6	chr17	87531896	87532096	+	928.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85061.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	3.0	4.0	12.0	41.0	12.0	7.0	10.0	10.0
Merged-chr4-150789353-4	chr4	150789250	150789450	+	988.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-64446.0	NM_001356323	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	15.5	39.0	29.5	309.5	64.5	32.5	29.0	21.0
Merged-chr13-83518414-3	chr13	83518227	83518427	+	995.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170537, intron 1 of 10)	(CA)n|Simple_repeat|Simple_repeat	-5329.0	NM_001347579	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	29.5	41.5	51.0	482.0	19.0	6.5	2.5	5.0
Merged-chr18-6241964-4	chr18	6241872	6242072	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008448)	promoter-TSS (NM_008448)	-448.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	42.5	57.5	20.0	456.5	60.5	16.5	29.0	18.5
Merged-chr9-32725250-4	chr9	32725209	32725409	+	849.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038642, intron 1 of 6)	intron (NM_001038642, intron 1 of 6)	29267.0	NM_001038642	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	11.5	21.5	11.0	91.0	37.5	9.5	4.5	1.0
Merged-chr6-128799658-4	chr6	128799550	128799750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11009.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	28.5	59.5	42.0	543.0	151.5	55.0	48.0	71.0
Merged-chr5-90700367-4	chr5	90700247	90700447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58951.0	NM_009141	20311.0	Mm.4660	NM_009141	ENSMUSG00000029371	Cxcl5	AMCF-II|Cxcl6|ENA-78|GCP-2|LIX|Scyb5|Scyb6	chemokine (C-X-C motif) ligand 5	protein-coding	98.5	111.0	121.5	1807.5	192.0	62.5	88.5	76.0
Merged-chr18-66476532-4	chr18	66476431	66476631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17927.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	67.0	136.5	56.5	696.5	158.5	53.0	92.5	43.0
Merged-chr11-51763674-4	chr11	51763557	51763757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025535)	promoter-TSS (NM_025535)	-6.0	NM_025535	66397.0	Mm.196592	NM_025535	ENSMUSG00000020386	Sar1b	2310075M17Rik|2900019I22Rik|CMRD|Sara1b|Sara2|Sarb	secretion associated Ras related GTPase 1B	protein-coding	35.5	55.0	25.0	393.5	130.5	39.0	45.5	25.5
Merged-chr15-62057634-4	chr15	62057525	62057725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	L1MB4|LINE|L1	18368.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	120.0	153.0	164.5	2060.5	201.5	83.0	95.5	139.0
Merged-chr2-31759906-4	chr2	31759805	31760005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001283045)	promoter-TSS (NM_001283045)	-34.0	NM_009594	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	34.5	42.5	25.0	493.5	73.0	27.5	32.0	40.0
Merged-chr12-110816988-4	chr12	110816882	110817082	+	888.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011973, intron 4 of 11)	intron (NM_011973, intron 4 of 11)	23957.0	NM_011973	26448.0	Mm.140948	NM_011973	ENSMUSG00000056458	Mok	RAGE1|Rage|Stk30	MOK protein kinase	protein-coding	13.5	20.5	16.5	254.5	29.5	7.0	11.5	14.5
Merged-chr5-64934441-3	chr5	64934349	64934549	+	887.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276445)	promoter-TSS (NM_001276445)	-891.0	NM_001276445	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	5.0	7.0	7.5	125.0	47.5	5.0	11.0	11.0
Merged-chr14-121427894-4	chr14	121427801	121428001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-48671.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	36.0	36.0	37.5	340.5	96.5	15.5	43.5	34.5
Merged-chr13-13553863-4	chr13	13553771	13553971	+	971.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-36538.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	14.0	17.5	24.5	423.0	75.0	20.5	18.5	31.5
Merged-chr6-125008950-4	chr6	125008880	125009080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175557)	promoter-TSS (NM_175557)	-258.0	NM_001252083	269800.0	Mm.108677	NM_175557	ENSMUSG00000038346	Zfp384	BB163993|C130073D16Rik|Ciz|NP|Nmp4	zinc finger protein 384	protein-coding	185.5	275.0	188.0	2498.0	491.0	224.5	245.5	194.5
Merged-chr3-95142818-4	chr3	95142744	95142944	+	919.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027206)	promoter-TSS (NM_027206)	-484.0	NM_027206	69769.0	Mm.34368	NM_027206	ENSMUSG00000013707	Tnfaip8l2	1810019A08Rik|AW610835|TIPE2	tumor necrosis factor, alpha-induced protein 8-like 2	protein-coding	7.5	17.0	9.0	118.0	42.5	14.5	21.5	17.5
Merged-chr5-138659106-4	chr5	138659000	138659200	+	834.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36241.0	NM_183025	243308.0	Mm.36612	NM_183025	ENSMUSG00000056014	A430033K04Rik	C86988	RIKEN cDNA A430033K04 gene	protein-coding	10.0	17.0	2.0	106.0	21.0	11.5	11.5	19.5
Merged-chr4-145194201-4	chr4	145194116	145194316	+	850.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 1 of 69)	intron (NM_001276465, intron 1 of 69)	789.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	12.5	9.0	12.5	197.0	19.5	4.5	8.5	18.5
Merged-chr1-65177670-4	chr1	65177586	65177786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111320, intron 1 of 8)	intron (NM_001111320, intron 1 of 8)	1456.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	46.0	70.5	77.5	846.5	157.0	48.0	57.5	48.0
Merged-chr1-175692838-4	chr1	175692719	175692919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010098)	promoter-TSS (NM_010098)	-187.0	NM_010098	13603.0	Mm.32744	NM_010098	ENSMUSG00000026525	Opn3	ERO|Ecpn	opsin 3	protein-coding	444.0	645.0	444.0	5870.5	1174.0	489.5	618.0	399.5
Merged-chr17-48347484-4	chr17	48347393	48347593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031254, intron 1 of 4)	intron (NM_031254, intron 1 of 4)	1092.0	NM_001272078	83433.0	Mm.261623	NM_031254	ENSMUSG00000023992	Trem2	TREM-2|Trem2a|Trem2b|Trem2c	triggering receptor expressed on myeloid cells 2	protein-coding	45.5	55.5	49.5	927.5	133.5	62.0	51.5	58.5
Merged-chr15-89429955-4	chr15	89429854	89430054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_004843)	promoter-TSS (NR_004843)	-27.0	NR_037153	12651.0	Mm.485045	NM_007692	ENSMUSG00000022617	Chkb	Chetk|Chkl|Ck|Ck/Ek|Ck/Ek-beta|Ckb|Ckekb|Ek	choline kinase beta	protein-coding	139.5	215.0	118.5	2132.0	372.0	138.5	204.0	131.0
Merged-chr19-43920029-2	chr19	43919929	43920129	+	934.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 1 of 15)	RMER6B|LTR|ERVK	20169.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	5.0	6.5	7.5	106.0	4.0	7.0	8.0	5.0
Merged-chr11-43755626-4	chr11	43755522	43755722	+	987.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-7649.0	NM_133795	66827.0	Mm.271974	NM_133795	ENSMUSG00000041278	Ttc1	4833412C19Rik|C79328|TPR1	tetratricopeptide repeat domain 1	protein-coding	25.0	35.5	9.0	259.5	76.0	15.5	19.5	20.5
Merged-chr2-109231478-1	chr2	109231378	109231578	+	582.5	f0_balb.idr	intron (NM_029790, intron 2 of 5)	intron (NM_029790, intron 2 of 5)	46812.0	NM_029790	76894.0	Mm.330451	NM_029790	ENSMUSG00000057234	Mettl15	0610027B03Rik|AI303697|AW049952|Mett5d1	methyltransferase like 15	protein-coding	6.5	9.0	5.0	111.5	16.5	0.0	8.0	5.0
Merged-chr1-106817769-4	chr1	106817640	106817840	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21015.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	19.0	37.5	23.0	315.5	85.5	19.0	20.0	18.0
Merged-chr8-25519380-3	chr8	25519283	25519483	+	861.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010206, exon 1 of 18)	5' UTR (NM_010206, exon 1 of 18)	624.0	NM_001079908	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	2.5	5.5	10.0	117.0	19.5	5.0	4.5	10.5
Merged-chr2-156862243-4	chr2	156862166	156862366	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026124)	promoter-TSS (NM_026124)	679.0	NR_015591	74487.0	Mm.490465	NR_015591	ENSMUSG00000085741	5430405H02Rik	2610307N17Rik	RIKEN cDNA 5430405H02 gene	ncRNA	8.0	5.5	7.0	202.5	33.5	4.0	9.5	30.5
Merged-chr13-113242373-4	chr13	113242321	113242521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32762.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	6.5	15.5	13.5	250.5	53.5	16.0	15.0	16.0
Merged-chr5-99375891-4	chr5	99375791	99375991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-122964.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	185.5	333.5	241.0	2866.0	384.0	132.5	186.0	96.0
Merged-chr12-38864211-4	chr12	38864176	38864376	+	980.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347379, intron 11 of 11)	intron (NM_001347379, intron 11 of 11)	80565.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	15.0	19.0	13.0	224.0	26.0	22.5	12.5	15.5
Merged-chr7-100372696-1	chr7	100372596	100372796	+	627.0	f0_balb.idr	promoter-TSS (NM_028292)	promoter-TSS (NM_028292)	463.0	NM_001017985	277939.0	Mm.276374	NM_001017985	ENSMUSG00000047248	C2cd3	AU020772	C2 calcium-dependent domain containing 3	protein-coding	6.5	15.5	2.0	62.5	18.0	6.5	8.5	5.0
Merged-chr12-3781633-4	chr12	3781525	3781725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_149729, exon 19 of 19)	non-coding (NR_149729, exon 19 of 19)	-25355.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	99.0	141.5	102.0	1447.5	267.0	81.0	104.5	86.0
Merged-chr10-121460649-3	chr10	121460552	121460752	+	905.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	15598.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	4.5	14.5	8.5	68.5	48.0	15.0	10.5	7.0
Merged-chr5-63966548-4	chr5	63966467	63966667	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	intron (NM_145923, intron 1 of 6)	2330.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	18.0	17.0	15.5	196.5	25.0	12.5	10.5	23.5
Merged-chr14-47178019-4	chr14	47177909	47178109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008102, intron 1 of 5)	intron (NM_008102, intron 1 of 5)	11404.0	NM_008102	14528.0	Mm.10651	NM_008102	ENSMUSG00000037580	Gch1	GTP-CH|GTP-CH-I|GTPCH|Gch	GTP cyclohydrolase 1	protein-coding	61.0	80.0	114.0	1506.5	132.0	42.5	82.0	72.0
Merged-chr9-64830225-4	chr9	64830142	64830342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162917, intron 2 of 34)	intron (NM_001162917, intron 2 of 34)	19231.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	43.0	97.0	43.0	714.5	95.0	38.5	37.0	54.5
Merged-chr5-72161291-3	chr5	72161189	72161389	+	945.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178599, intron 3 of 4)	intron (NM_178599, intron 3 of 4)	6900.0	NM_001356611	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	17.5	12.5	16.0	324.5	10.5	5.0	5.5	1.5
Merged-chr9-99074656-4	chr9	99074559	99074759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 8 of 23)	B4A|SINE|B4	-38969.0	NM_001080776	382097.0	Mm.293727	NM_001080776	ENSMUSG00000044860	Gm1123	AV052824|CLSP	predicted gene 1123	protein-coding	26.5	37.5	48.0	670.5	70.0	16.5	28.5	32.0
Merged-chr3-52198653-4	chr3	52198557	52198757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69680.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	42.0	50.0	53.0	720.0	90.0	41.0	47.0	34.0
Merged-chr14-106681434-4	chr14	106681334	106681534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-194914.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	116.5	157.5	97.0	2299.5	250.0	96.0	117.0	92.5
Merged-chr7-55857905-4	chr7	55857791	55857991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	intron (NM_001164661, intron 2 of 31)	15820.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	48.5	51.0	26.5	554.5	121.0	37.5	31.5	44.0
Merged-chr6-142715636-3	chr6	142715548	142715748	+	783.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13374.0	NM_001310143	20928.0	Mm.35670	NM_011511	ENSMUSG00000030249	Abcc9	AI414027|AI449286|SUR2A|SUR2B|Sur2	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	protein-coding	7.0	5.0	6.0	272.5	29.5	8.0	12.0	11.5
Merged-chr6-49319209-4	chr6	49319117	49319317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175098)	promoter-TSS (NM_175098)	-57.0	NM_175098	57895.0	Mm.32416	NM_175098	ENSMUSG00000050786	Ccdc126	6330407D12Rik|AA675040|AI465320|AL022711	coiled-coil domain containing 126	protein-coding	206.5	277.5	156.0	2599.5	534.0	242.5	298.0	204.5
Merged-chr1-191756742-4	chr1	191756637	191756837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134829, intron 4 of 7)	intron (NM_001134829, intron 4 of 7)	38342.0	NM_001134829	226856.0	Mm.277958	NM_172266	ENSMUSG00000026623	Lpgat1	AI649174|AW112037|BC013667	lysophosphatidylglycerol acyltransferase 1	protein-coding	43.0	37.0	50.5	874.5	92.5	35.0	48.0	39.5
Merged-chr5-139017912-4	chr5	139017805	139018005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001253890, exon 11 of 11)	3' UTR (NM_001253890, exon 11 of 11)	-22952.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	120.5	139.0	69.5	1134.0	270.0	98.5	112.0	104.0
Merged-chr10-77619841-4	chr10	77619724	77619924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14_RN|LTR|ERV1	-2497.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	31.5	49.5	57.5	740.0	70.5	19.5	26.5	23.0
Merged-chr19-23273902-4	chr19	23273781	23273981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153808)	promoter-TSS (NM_153808)	16.0	NM_153808	226026.0	Mm.23267	NM_153808	ENSMUSG00000024943	Smc5	MLZ-453|SMC-5|Smc5l1|mKIAA0594|mSMC5	structural maintenance of chromosomes 5	protein-coding	90.5	101.5	85.0	1381.0	176.5	81.5	77.0	84.0
Merged-chr8-126696599-4	chr8	126696496	126696696	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103160.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	25.0	23.5	25.5	393.0	69.0	15.5	34.0	23.0
Merged-chr19-3899138-4	chr19	3899044	3899244	+	961.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136091, intron 10 of 19)	intron (NM_001136091, intron 10 of 19)	6086.0	NM_016921	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	25.0	23.5	22.5	311.5	62.5	15.0	18.0	13.5
Merged-chr14-66847298-3	chr14	66847215	66847415	+	932.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	21285.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	28.0	19.0	11.0	102.5	19.5	2.0	8.0	5.0
Merged-chr9-14381580-4	chr9	14381543	14381743	+	878.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028013)	promoter-TSS (NM_028013)	-401.0	NM_028013	71946.0	Mm.41423	NM_028013	ENSMUSG00000037419	Endod1	2210414F18Rik|2310067E08Rik|C85344	endonuclease domain containing 1	protein-coding	9.0	7.5	21.5	187.5	21.5	11.0	3.5	6.5
Merged-chr1-191194794-4	chr1	191194683	191194883	+	711.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11450.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	8.5	13.0	7.0	57.0	19.0	8.5	4.5	6.5
Merged-chr5-19952561-4	chr5	19952453	19952653	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015823, intron 1 of 21)	intron (NM_015823, intron 1 of 21)	45035.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	18.0	10.0	47.0	533.0	50.0	13.5	16.5	19.5
Merged-chr5-108132679-4	chr5	108132579	108132779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361467)	promoter-TSS (NM_001361467)	-59.0	NM_001361467	73130.0	Mm.363960	NM_028876	ENSMUSG00000063406	Tmed5	3110020O18Rik|4432412D15Rik|p24gamma2	transmembrane p24 trafficking protein 5	protein-coding	305.0	489.0	325.0	4781.0	738.5	273.5	339.5	273.0
Merged-chr2-102186381-4	chr2	102186272	102186472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290784)	promoter-TSS (NM_001290784)	88.0	NM_178886	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	69.0	86.5	69.5	1371.5	65.5	45.5	66.0	63.0
Merged-chr19-18624074-4	chr19	18623989	18624189	+	922.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	7724.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	17.5	22.5	17.5	294.5	35.0	7.0	11.0	11.0
Merged-chr17-55736869-4	chr17	55736764	55736964	+	900.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13120.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	9.0	24.0	18.5	301.0	17.5	12.5	12.5	18.5
Merged-chr4-156197558-4	chr4	156197435	156197635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021604)	promoter-TSS (NM_021604)	-47.0	NM_021604	11603.0	Mm.273098	NM_021604	ENSMUSG00000041936	Agrn	Agrin|nmf380	agrin	protein-coding	51.0	105.5	75.5	877.0	185.0	67.5	78.5	62.5
Merged-chr9-94275159-4	chr9	94275045	94275245	+	793.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	262936.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	8.5	6.5	2.0	121.0	49.5	7.0	18.0	14.5
Merged-chr17-53479174-4	chr17	53479108	53479308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025887)	promoter-TSS (NM_025887)	-26.0	NM_025887	271457.0	Mm.329123	NM_025887	ENSMUSG00000017831	Rab5a	2410015H04Rik|AI663973|AU021172|nnyRab5a	RAB5A, member RAS oncogene family	protein-coding	318.0	458.5	374.0	5048.0	889.5	310.0	363.5	303.0
Merged-chr17-47522659-1	chr17	47522559	47522759	+	931.0	f0_balb.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	17608.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	7.0	7.5	10.5	150.5	15.5	3.0	4.0	6.5
Merged-chr11-34737417-4	chr11	34737308	34737508	+	860.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 2 of 51)	L1M3|LINE|L1	46497.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	7.0	17.5	7.5	305.5	19.5	7.0	15.0	11.5
Merged-chr1-91252200-4	chr1	91252098	91252298	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355764, intron 1 of 10)	intron (NM_001355764, intron 1 of 10)	1632.0	NM_001355764	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	5.0	26.5	17.5	65.0	34.5	23.0	19.0	17.0
Merged-chr18-56720094-3	chr18	56719987	56720187	+	852.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010721, intron 1 of 10)	intron (NM_010721, intron 1 of 10)	12274.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	5.5	11.0	5.5	47.5	28.5	10.5	9.5	8.0
Merged-chr2-128967879-4	chr2	128967792	128967992	+	968.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178404, intron 1 of 11)	GC_rich|Low_complexity|Low_complexity	490.0	NM_178404	78751.0	Mm.26377	NM_178404	ENSMUSG00000042851	Zc3h6	4631426G04Rik|4833425H18Rik|AU024389|AW060453|Zc3hdc6|mKIAA2035	zinc finger CCCH type containing 6	protein-coding	15.0	38.5	26.0	227.0	44.0	17.0	5.5	19.5
Merged-chr2-48844340-4	chr2	48844215	48844415	+	829.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007396, intron 1 of 10)	intron (NM_007396, intron 1 of 10)	30206.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	11.0	8.5	17.5	223.5	24.5	3.5	10.5	4.5
Merged-chr3-95883219-4	chr3	95883108	95883308	+	740.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033302)	promoter-TSS (NM_001033302)	-980.0	NM_001033302	229599.0	Mm.331218	NM_001033302	ENSMUSG00000038550	Ciart	Chrono|Gm129	circadian associated repressor of transcription	protein-coding	9.0	13.0	5.5	89.0	17.5	9.0	11.5	11.5
Merged-chr10-37257731-4	chr10	37257625	37257825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-118799.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	29.0	85.5	54.5	840.0	114.5	39.0	54.0	24.0
Merged-chr1-152532900-2	chr1	152532800	152533000	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 13 of 17)	intron (NM_016846, intron 13 of 17)	92317.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	6.0	4.5	7.0	52.5	9.5	2.5	6.5	7.0
Merged-chr19-10895177-4	chr19	10895081	10895281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253843)	promoter-TSS (NM_001253843)	-50.0	NM_134129	28000.0	Mm.491104	NM_134129	ENSMUSG00000024735	Prpf19	AA617263|AL024362|D19Wsu55e|NMP200|PSO4|Prp19|Snev	pre-mRNA processing factor 19	protein-coding	169.5	318.0	126.0	2059.0	378.5	177.0	150.5	156.5
Merged-chr13-52041547-4	chr13	52041440	52041640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55201.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	31.5	33.0	25.5	447.5	98.0	36.0	34.0	28.5
Merged-chr9-66882047-4	chr9	66881959	66882159	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	37646.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	29.5	31.5	34.5	492.0	39.5	15.5	23.0	3.0
Merged-chr15-63895760-2	chr15	63895660	63895860	+	621.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028992, intron 5 of 11)	B3|SINE|B2	15053.0	NR_108053	665769.0	Mm.290602	NR_108053	ENSMUSG00000093867	Gsdmcl2	4921501E01Rik|4930453O09Rik|Gm7779	gasdermin C-like 2	pseudo	6.0	8.0	5.5	59.0	5.0	5.5	6.0	10.5
Merged-chr13-67399772-4	chr13	67399668	67399868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080941)	promoter-TSS (NM_001080941)	-1.0	NM_001080941	72807.0	Mm.303790	NM_001080941	ENSMUSG00000078994	Zfp429	2810487A22Rik|AI929863|Rsl2	zinc finger protein 429	protein-coding	91.0	132.5	60.0	1098.5	297.5	112.5	114.5	88.5
Merged-chr5-43853441-4	chr5	43853325	43853525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15384.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	72.0	51.5	106.0	1014.5	70.5	17.0	42.5	38.5
Merged-chr14-79661285-3	chr14	79661215	79661415	+	891.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010701, intron 2 of 6)	CpG	868.0	NM_001310655	16840.0	Mm.46561	NM_010701	ENSMUSG00000022025	Cnmd	Bricd3|ChM-I|Chmd|Lect1	chondromodulin	protein-coding	6.5	10.5	6.5	94.0	13.5	7.5	5.5	2.0
Merged-chr1-85572389-3	chr1	85572290	85572490	+	605.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	26420.0	NM_030194	109032.0	Mm.335802	NM_030194	ENSMUSG00000070034	Sp110	5031415C07Rik|52kDa|5830484A20Rik|Ifi75|Ipr1	Sp110 nuclear body protein	protein-coding	8.5	19.0	11.0	63.0	11.0	3.5	7.5	2.5
Merged-chr3-121571691-4	chr3	121571589	121571789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39345.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	43.5	55.0	35.5	474.5	105.5	55.5	74.5	49.0
Merged-chr2-16131749-4	chr2	16131641	16131841	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 33 of 38)	L2|LINE|L2	-224563.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	8.0	2.0	7.5	254.0	51.5	5.0	19.0	26.0
Merged-chr17-71834791-3	chr17	71834701	71834901	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271483, intron 13 of 16)	intron (NM_001271483, intron 13 of 16)	52854.0	NM_030179	78785.0	Mm.196382	NM_030179	ENSMUSG00000024059	Clip4	1700024K14Rik|1700074B05Rik|4833417L20Rik|5830409B12Rik|Rsnl2	CAP-GLY domain containing linker protein family, member 4	protein-coding	29.5	21.0	21.5	463.5	0.0	0.0	0.5	0.0
Merged-chr6-123171248-4	chr6	123171153	123171353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	-1770.0	NM_001004159	381809.0	Mm.333372	NM_001004159	ENSMUSG00000067767	Clec4b2	Aplra1|F830043G12Rik|mDCAR1	C-type lectin domain family 4, member b2	protein-coding	27.0	52.0	34.0	438.0	93.0	20.5	42.0	36.0
Merged-chr2-90521302-2	chr2	90521202	90521402	+	615.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-42128.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	3.0	9.0	2.0	8.5	21.5	6.5	6.5	5.5
Merged-chr2-32350640-4	chr2	32350544	32350744	+	880.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010065, intron 1 of 20)	intron (NM_010065, intron 1 of 20)	2685.0	NM_001301737	13429.0	Mm.44736	NM_010065	ENSMUSG00000026825	Dnm1	AI838169|Dnm|Ftfl|mKIAA4093	dynamin 1	protein-coding	19.0	21.0	12.0	120.0	86.5	13.0	13.5	7.0
Merged-chr8-46497101-3	chr8	46497011	46497211	+	884.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302163, intron 2 of 20)	intron (NM_001302163, intron 2 of 20)	6145.0	NM_001302163	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	10.5	11.5	5.5	100.0	18.5	3.5	6.0	4.0
Merged-chr4-116557589-4	chr4	116557498	116557698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029868)	promoter-TSS (NM_029868)	-129.0	NM_029868	77110.0	Mm.41715	NM_029868	ENSMUSG00000034042	Gpbp1l1	5330440M15Rik|BC002292	GC-rich promoter binding protein 1-like 1	protein-coding	179.0	269.5	158.0	2469.5	539.5	188.0	230.0	163.5
Merged-chr17-84922205-3	chr17	84922126	84922326	+	649.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027929, intron 2 of 3)	intron (NR_027929, intron 2 of 3)	-34515.0	NM_001159497	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	7.5	15.5	10.0	129.5	7.0	2.0	3.0	5.5
Merged-chr2-168570155-3	chr2	168570065	168570265	+	879.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291173, intron 1 of 8)	intron (NM_001291173, intron 1 of 8)	20200.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	6.0	16.0	19.5	197.0	9.5	0.5	6.5	6.0
Merged-chr15-86180603-3	chr15	86180512	86180712	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145475, intron 1 of 12)	intron (NM_145475, intron 1 of 12)	-5116.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	10.5	6.0	3.0	141.5	9.0	6.5	5.0	6.5
Merged-chr1-54564150-4	chr1	54564049	54564249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RCHARR1|DNA|hAT-Charlie	-6465.0	NM_001163314	241062.0	Mm.103539	NM_175508	ENSMUSG00000073678	Pgap1	5033403E17Rik|9030223K07Rik|A530084K22|D230012E17Rik|oto	post-GPI attachment to proteins 1	protein-coding	75.5	165.5	72.0	1527.5	218.0	90.5	77.5	77.0
Merged-chr7-121259028-3	chr7	121258943	121259143	+	822.138916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133253.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	6.5	9.0	6.5	111.0	38.0	7.0	16.0	7.0
Merged-chr2-62635491-3	chr2	62635387	62635587	+	799.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027835, intron 2 of 15)	intron (NM_027835, intron 2 of 15)	10768.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	4.5	7.0	2.0	156.5	34.5	5.5	14.0	14.5
Merged-chr16-58670351-4	chr16	58670231	58670431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007757, exon 1 of 7)	5' UTR (NM_007757, exon 1 of 7)	123.0	NM_007757	12892.0	Mm.291519	NM_007757	ENSMUSG00000022742	Cpox	CPX|Cpo|HCP|cac|nct	coproporphyrinogen oxidase	protein-coding	69.0	71.0	140.5	1171.5	132.5	34.5	55.5	43.0
Merged-chr11-43653936-3	chr11	43653838	43654038	+	710.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-28060.0	NM_027557	70802.0	Mm.397449	NM_027557	ENSMUSG00000044950	Pwwp2a	4631424J17Rik|AI891583|AU024105|D930040F23Rik	PWWP domain containing 2A	protein-coding	7.0	18.5	6.5	96.0	24.0	6.0	8.5	3.5
Merged-chr1-16651298-4	chr1	16651197	16651397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310470, intron 1 of 4)	intron (NM_001310470, intron 1 of 4)	5568.0	NM_026456	67923.0	Mm.289248	NM_026456	ENSMUSG00000079658	Eloc	2610043E24Rik|2610301I15Rik|AA407206|AI987979|AW049146|Tceb1	elongin C	protein-coding	29.5	48.0	19.0	466.0	105.5	29.5	43.0	29.0
Merged-chr11-118095197-4	chr11	118095106	118095306	+	907.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167746, intron 27 of 80)	ORR1E|LTR|ERVL-MaLR	34013.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	9.5	25.5	8.5	211.5	35.5	17.5	20.5	14.5
Merged-chr3-27650298-4	chr3	27650213	27650413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173182, intron 1 of 25)	intron (NM_173182, intron 1 of 25)	60139.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	71.0	115.5	100.5	1343.5	123.0	51.5	75.5	79.0
Merged-chr8-84415290-3	chr8	84415179	84415379	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007578)	promoter-TSS (NM_007578)	-85.0	NM_001252060	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	41.5	84.5	47.0	708.5	2.5	0.0	0.0	2.0
Merged-chr4-138217134-4	chr4	138217023	138217223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122897)	promoter-TSS (NM_001122897)	-4.0	NM_001356432	15441.0	Mm.348429	NM_010470	ENSMUSG00000028759	Hp1bp3	Hp1bp74	heterochromatin protein 1, binding protein 3	protein-coding	173.5	252.0	127.0	1806.0	409.5	178.0	162.5	165.5
Merged-chr16-17619435-4	chr16	17619332	17619532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029945)	promoter-TSS (NM_029945)	78.0	NM_001164609	77626.0	Mm.34659	NM_029945	ENSMUSG00000005899	Smpd4	4122402O22Rik	sphingomyelin phosphodiesterase 4	protein-coding	31.5	32.0	45.0	392.5	55.5	12.5	21.5	33.5
Merged-chr10-95530924-4	chr10	95530800	95531000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	MTD|LTR|ERVL-MaLR	15738.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	58.0	78.5	54.5	864.5	127.0	58.5	64.5	45.5
Merged-chr3-107867260-4	chr3	107867147	107867347	+	874.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9983.0	NM_133867	99662.0	Mm.108491	NM_133867	ENSMUSG00000040600	Eps8l3	AI504489|Eps8r3	EPS8-like 3	protein-coding	8.0	23.5	8.0	232.5	20.5	10.0	18.5	14.5
Merged-chr13-12468657-4	chr13	12468551	12468751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6913.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	78.0	71.5	95.0	1328.0	243.0	49.5	82.0	83.0
Merged-chr16-52093551-3	chr16	52093451	52093651	+	845.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	62002.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	6.0	14.5	9.0	118.0	25.5	6.5	10.5	8.0
Merged-chr8-23256712-2	chr8	23256636	23256836	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_001042484, exon 2 of 6)	exon (NM_001042484, exon 2 of 6)	344.0	NM_020585	57437.0	Mm.196269	NM_020585	ENSMUSG00000015341	Golga7	AB041568|C130038N16Rik|GCP16|GOLGA3AP1|HSPC041|R75586	golgi autoantigen, golgin subfamily a, 7	protein-coding	23.0	31.0	35.0	183.0	48.5	18.5	27.0	31.0
Merged-chr3-41408068-3	chr3	41407953	41408153	+	819.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85146.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	7.0	6.0	9.0	202.0	25.0	6.5	4.0	7.0
Merged-chr11-120042627-4	chr11	120042491	120042691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198787)	promoter-TSS (NM_001198787)	-810.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	24.0	43.0	13.0	309.0	64.0	16.5	17.0	34.5
Merged-chr6-124997521-3	chr6	124997439	124997639	+	682.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145927)	promoter-TSS (NM_001145927)	819.0	NM_175696	319352.0	Mm.295327	NM_175696	ENSMUSG00000030329	Pianp	AI255183|AU067746|C530028O21Rik|Panp	PILR alpha associated neural protein	protein-coding	6.5	6.0	14.5	83.5	6.5	2.0	2.5	7.5
Merged-chr19-34213079-3	chr19	34212979	34213179	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	-4429.0	NM_001360719	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	21.5	23.0	21.0	352.5	9.5	6.5	5.0	11.5
Merged-chr5-30840900-4	chr5	30840816	30841016	+	948.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133350, intron 1 of 6)	intron (NM_133350, intron 1 of 6)	-20891.0	NM_001310516	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	7.5	28.5	17.5	276.5	32.5	20.0	22.0	11.5
Merged-chr17-35219764-4	chr17	35219689	35219889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010909)	TTS (NM_010909)	-14438.0	NM_010735	16992.0	Mm.87787	NM_010735	ENSMUSG00000024402	Lta	LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382	lymphotoxin A	protein-coding	44.5	109.0	41.5	445.0	136.5	61.5	41.5	31.0
Merged-chr14-63117668-4	chr14	63117579	63117779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-4783.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	77.0	123.5	114.0	1326.5	146.5	57.5	72.5	62.0
Merged-chr16-33178587-4	chr16	33178484	33178684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6487.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	30.0	32.0	22.5	349.0	63.5	24.0	27.0	26.0
Merged-chr15-84829607-3	chr15	84829521	84829721	+	844.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356573, intron 2 of 12)	intron (NM_001356573, intron 2 of 12)	25478.0	NM_001356573	271305.0	Mm.101022	NM_001081166	ENSMUSG00000016624	Phf21b	A730032D07Rik	PHD finger protein 21B	protein-coding	9.5	10.0	8.0	150.0	18.0	8.5	8.5	7.5
Merged-chr14-122633322-6	chr14	122633210	122633410	+	966.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 7 of 24)	intron (NR_153443, intron 7 of 24)	98982.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	16.5	4.5	13.5	121.5	34.5	6.0	9.0	12.0
Merged-chr5-64961774-3	chr5	64961676	64961876	+	935.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1680.0	NM_011604	21899.0	Mm.42146	NM_011604	ENSMUSG00000051498	Tlr6	-	toll-like receptor 6	protein-coding	11.5	10.0	11.5	147.0	46.0	11.5	14.5	24.0
Merged-chr6-148615607-1	chr6	148615507	148615707	+	614.5	f0_balb.idr	Intergenic	Intergenic	-1298.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	6.5	9.5	5.5	80.0	23.0	5.0	6.5	6.5
Merged-chr19-6363646-4	chr19	6363515	6363715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011750)	promoter-TSS (NM_011750)	-75.0	NM_011750	22668.0	Mm.256422	NM_011750	ENSMUSG00000024949	Sf1	BBP|MZFM|WBP4|Zfp162	splicing factor 1	protein-coding	286.5	453.0	302.5	3374.0	764.5	380.0	403.0	335.0
Merged-chr8-4109058-4	chr8	4108936	4109136	+	823.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3272.0	NM_026956	69142.0	Mm.171061	NM_026956	ENSMUSG00000051906	Cd209f	1810029C22Rik|AI647041|SIGNR8	CD209f antigen	protein-coding	10.0	12.0	13.5	323.5	23.0	6.0	7.0	9.0
Merged-chr6-134319742-3	chr6	134319642	134319842	+	974.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153848, intron 4 of 8)	MLT1B|LTR|ERVL-MaLR	-76587.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	14.0	16.0	46.0	492.0	9.0	0.5	2.5	3.5
Merged-chr17-57105321-4	chr17	57105237	57105437	+	936.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009404)	promoter-TSS (NM_009404)	-48.0	NM_009404	21950.0	Mm.41171	NM_009404	ENSMUSG00000035678	Tnfsf9	4-1BB-L|4-1BBL|AI848817|Cd137l|Ly63l	tumor necrosis factor (ligand) superfamily, member 9	protein-coding	12.0	19.5	4.0	130.5	111.5	54.5	40.0	20.5
Merged-chr12-79347881-3	chr12	79347778	79347978	+	935.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	50527.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	1.5	12.0	1.0	135.0	18.5	5.5	10.5	8.0
Merged-chr12-86906547-4	chr12	86906367	86906567	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21653.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	13.0	18.5	11.0	169.5	41.5	8.5	18.5	18.0
Merged-chr7-83857345-4	chr7	83857251	83857451	+	931.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26990.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	22.0	24.5	17.0	426.0	30.5	10.0	13.0	13.0
Merged-chr13-64432405-4	chr13	64432298	64432498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053180)	promoter-TSS (NM_053180)	-155.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	177.0	167.0	162.0	2321.0	297.0	95.0	145.0	98.5
Merged-chr2-129221276-4	chr2	129221164	129221364	+	914.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045838, intron 1 of 4)	intron (NR_045838, intron 1 of 4)	2295.0	NR_045838	329513.0	Mm.473529	NM_177847	ENSMUSG00000056738	A730036I17Rik	-	RIKEN cDNA A730036I17 gene	ncRNA	14.5	33.5	15.5	126.5	36.5	10.0	10.5	21.0
Merged-chr15-53196520-4	chr15	53196413	53196613	+	943.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	149670.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	14.5	45.5	26.0	232.5	32.5	17.0	15.0	12.5
Merged-chr11-29808740-4	chr11	29808653	29808853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 17 of 41)	intron (NM_146016, intron 17 of 41)	16915.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	137.0	166.5	190.5	4010.0	293.0	72.5	210.0	157.5
Merged-chr17-63422838-4	chr17	63422745	63422945	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	intron (NM_015794, intron 4 of 8)	77735.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	24.0	40.0	20.5	431.5	67.0	39.5	31.5	24.0
Merged-chr11-108343960-4	chr11	108343885	108344085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011101)	promoter-TSS (NM_011101)	-97.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	56.5	63.0	37.5	615.5	116.5	72.5	50.5	64.0
Merged-chr3-133111891-3	chr3	133111811	133112011	+	758.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027927)	TTS (NM_027927)	-19872.0	NM_001356309	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	2.0	8.0	12.0	137.5	12.0	4.5	11.5	6.5
Merged-chr11-11554298-2	chr11	11554198	11554398	+	668.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65032.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	0.5	3.0	3.0	58.5	36.5	6.0	6.5	8.5
Merged-chr5-113008241-2	chr5	113008141	113008341	+	697.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	7297.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	5.5	6.5	5.5	29.0	2.5	5.5	2.5	5.5
Merged-chr5-139287295-4	chr5	139287203	139287403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	33806.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	83.0	136.5	77.0	1269.5	265.5	83.5	81.5	76.0
Merged-chr3-146047931-3	chr3	146047871	146048071	+	593.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172864, intron 19 of 22)	intron (NM_172864, intron 19 of 22)	60065.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	7.5	6.5	5.0	82.5	4.5	3.0	1.5	9.0
Merged-chr2-180273604-4	chr2	180273504	180273704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145851)	promoter-TSS (NM_145851)	-139.0	NM_145851	252966.0	Mm.386884	NM_145851	ENSMUSG00000038990	Cables2	ik3-2	CDK5 and Abl enzyme substrate 2	protein-coding	284.0	474.0	318.0	5011.0	660.0	286.5	357.0	280.5
Merged-chr13-41097853-4	chr13	41097778	41097978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12110.0	NM_008104	107889.0	Mm.1399	NM_008104	ENSMUSG00000021362	Gcm2	Gcm-rs1|Gcm1|Gcm1-rs2	glial cells missing homolog 2	protein-coding	35.5	49.0	52.5	668.0	84.0	33.5	31.0	27.0
Merged-chr4-63215363-4	chr4	63215277	63215477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025685)	promoter-TSS (NM_025685)	-35.0	NM_025685	373864.0	Mm.194116	NM_025685	ENSMUSG00000045672	Col27a1	5730512J02Rik|AI449266	collagen, type XXVII, alpha 1	protein-coding	21.5	25.0	13.5	307.5	38.5	16.0	19.5	24.0
Merged-chr11-40692667-4	chr11	40692577	40692777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134017)	promoter-TSS (NM_134017)	5.0	NM_134017	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	245.5	302.5	200.5	4337.0	486.5	164.5	270.5	215.5
Merged-chr14-21995692-3	chr14	21995593	21995793	+	872.64447	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6092.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	8.5	10.5	15.0	132.5	16.5	6.5	6.0	6.0
Merged-chr10-20059076-4	chr10	20058993	20059193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 10 of 29)	intron (NM_008580, intron 10 of 29)	-89827.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	57.5	56.0	64.0	876.0	53.5	19.0	32.0	37.0
Merged-chr2-90584786-2	chr2	90584686	90584886	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4139.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	11.5	0.0	1.0	61.5	14.0	5.0	6.0	4.5
Merged-chr16-87495163-1	chr16	87495063	87495263	+	943.0	f0_balb.idr	promoter-TSS (NR_040375)	promoter-TSS (NR_040375)	706.0	NM_009840	12469.0	Mm.328673	NM_009840	ENSMUSG00000025613	Cct8	AI132397|Cctq|Tcpq	chaperonin containing Tcp1, subunit 8 (theta)	protein-coding	4.5	15.5	11.0	117.0	23.0	6.5	12.0	17.5
Merged-chr14-13917862-3	chr14	13917758	13917958	+	946.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43455.0	NM_001285780	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	4.5	15.5	8.5	137.0	24.5	6.0	7.0	7.5
Merged-chr18-5334912-4	chr18	5334821	5335021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178722)	promoter-TSS (NM_178722)	-114.0	NM_001360447	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	177.0	302.0	138.5	2549.0	361.5	166.5	189.5	149.5
Merged-chr5-64835460-4	chr5	64835372	64835572	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31949.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	56.5	39.5	29.0	371.0	88.5	26.0	38.0	18.5
Merged-chr1-91087067-4	chr1	91086900	91087100	+	853.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 7 of 22)	intron (NM_008515, intron 7 of 22)	33556.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	4.5	6.5	10.5	86.5	15.0	3.5	10.0	10.5
Merged-chr6-32586425-4	chr6	32586348	32586548	+	842.429199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	intron (NM_175750, intron 1 of 31)	1744.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	6.5	20.0	15.5	146.0	25.5	7.0	9.0	6.5
Merged-chr3-142561722-4	chr3	142561620	142561820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289492, intron 2 of 11)	intron (NM_001289492, intron 2 of 11)	1364.0	NM_001289493	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	44.0	104.5	46.5	681.5	73.5	19.5	25.5	29.5
Merged-chr8-26980819-3	chr8	26980710	26980910	+	877.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001101502, exon 2 of 2)	3' UTR (NM_001101502, exon 2 of 2)	3474.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	19.5	18.5	9.0	202.0	27.0	8.0	2.0	9.0
Merged-chr17-80290176-4	chr17	80290085	80290285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194269)	promoter-TSS (NM_194269)	-27.0	NM_194269	378462.0	Mm.45208	NM_194269	ENSMUSG00000045257	Morn2	Mopt	MORN repeat containing 2	protein-coding	133.0	203.5	121.5	2642.0	456.0	117.5	223.0	190.0
Merged-chr12-98280724-4	chr12	98280594	98280794	+	901.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12059.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	8.0	10.0	5.0	199.0	44.5	12.5	16.5	15.0
Merged-chr14-50819888-3	chr14	50819804	50820004	+	993.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009632, intron 12 of 15)	intron (NM_009632, intron 12 of 15)	11988.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	3.5	0.0	1.0	20.5	63.5	15.5	17.5	37.5
Merged-chr6-82844047-4	chr6	82843954	82844154	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37799.0	NR_040520	69652.0	Mm.96357	NR_040520	ENSMUSG00000100291	2310069B03Rik	-	RIKEN cDNA 2310069B03 gene	ncRNA	7.0	10.0	9.0	153.5	33.0	6.0	10.5	7.5
Merged-chr3-105017600-4	chr3	105017489	105017689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	intron (NM_030249, intron 3 of 5)	35364.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	68.5	131.5	86.5	971.0	99.5	32.0	58.0	41.5
Merged-chr12-35462824-4	chr12	35462737	35462937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72152.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	55.0	62.5	76.5	1063.0	118.0	52.5	56.0	48.0
Merged-chr2-160452166-4	chr2	160452081	160452281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85116.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	32.0	39.5	35.0	559.0	63.5	18.5	38.5	23.0
Merged-chr12-102354649-4	chr12	102354547	102354747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 4 of 9)	intron (NM_177620, intron 4 of 9)	71006.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	26.0	49.0	61.5	786.5	98.5	29.5	73.5	36.5
Merged-chr7-12965822-4	chr7	12965715	12965915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362139)	promoter-TSS (NM_001362139)	-23.0	NM_001362140	243834.0	Mm.133086	NM_178732	ENSMUSG00000004500	Zfp324	A930002M05|D430030K24Rik|ZF5128	zinc finger protein 324	protein-coding	96.0	155.5	98.5	2010.5	256.0	79.5	135.0	130.0
Merged-chr2-11254142-3	chr2	11254038	11254238	+	819.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 9 of 17)	intron (NM_008859, intron 9 of 17)	81756.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	9.0	16.5	6.0	152.5	30.5	4.5	13.0	8.5
Merged-chr19-28940590-2	chr19	28940490	28940690	+	770.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_198651, intron 8 of 12)	intron (NM_198651, intron 8 of 12)	-23330.0	NM_028922	74411.0	Mm.441887	NM_028922	ENSMUSG00000040105	Plpp6	4932443D16Rik|Ppapdc2	phospholipid phosphatase 6	protein-coding	2.0	6.5	10.5	68.0	10.5	4.5	7.5	10.0
Merged-chr4-46196253-4	chr4	46196131	46196331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011728)	promoter-TSS (NM_011728)	80.0	NM_011728	22590.0	Mm.247036	NM_011728	ENSMUSG00000028329	Xpa	AI573865|Xpac	xeroderma pigmentosum, complementation group A	protein-coding	62.5	68.5	95.5	1072.0	144.5	48.5	61.0	65.0
Merged-chr3-95673376-4	chr3	95673280	95673480	+	848.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14537.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	9.5	13.0	4.0	119.5	24.5	16.0	4.5	15.0
Merged-chr11-9335436-4	chr11	9335351	9335551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 27 of 61)	intron (NM_178259, intron 27 of 61)	143509.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	64.5	140.0	54.0	1139.5	248.0	80.0	131.0	99.0
Merged-chr19-7482843-1	chr19	7482743	7482943	+	1000.0	f0_c57.idr	intron (NM_001003934, intron 1 of 8)	CpG	448.0	NM_001271486	20168.0	Mm.246990	NM_053076	ENSMUSG00000024758	Rtn3	RTN3-A1	reticulon 3	protein-coding	33.5	42.0	17.5	413.0	81.5	21.5	24.0	48.5
Merged-chr8-46617965-4	chr8	46617863	46618063	+	926.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151680)	promoter-TSS (NR_151680)	672.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	23.5	15.0	21.5	191.0	31.5	9.5	19.5	19.0
Merged-chr16-11313916-4	chr16	11313816	11314016	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011608, exon 1 of 3)	5' UTR (NM_011608, exon 1 of 3)	107.0	NM_011608	21935.0	Mm.12935	NM_011608	ENSMUSG00000022496	Tnfrsf17	BCM|BCMA|Tnfrsf13|Tnfrsf13a	tumor necrosis factor receptor superfamily, member 17	protein-coding	22.5	16.0	4.0	207.0	50.0	9.5	10.0	11.5
Merged-chr10-22301768-4	chr10	22301662	22301862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	ORR1C1|LTR|ERVL-MaLR	-4958.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	51.5	69.0	45.0	790.0	66.5	17.0	42.5	39.5
Merged-chr8-46741181-4	chr8	46741048	46741248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	CpG	1403.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	49.5	72.5	56.0	991.0	125.5	44.0	70.0	64.5
Merged-chr1-187215918-2	chr1	187215818	187216018	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028848)	promoter-TSS (NM_028848)	175.0	NM_001357645	67769.0	Mm.138321	NM_026367	ENSMUSG00000039210	Gpatch2	5830433G22Rik|5830436K05Rik|AI427714|AI447508|AW107440|AW491060|Gpatc2	G patch domain containing 2	protein-coding	5.0	7.5	7.0	66.5	16.5	3.0	6.0	11.0
Merged-chr13-81135725-4	chr13	81135647	81135847	+	852.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	171673.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	4.0	4.0	9.5	138.5	23.5	12.0	9.5	11.0
Merged-chr14-122112505-4	chr14	122112376	122112576	+	662.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080556, intron 1 of 16)	intron (NM_080556, intron 1 of 16)	5394.0	NM_080556	68059.0	Mm.275191	NM_080556	ENSMUSG00000025544	Tm9sf2	1500001N15Rik|AA536814|D14Ertd64e|P76	transmembrane 9 superfamily member 2	protein-coding	5.0	6.5	11.5	103.5	22.0	9.0	4.5	3.0
Merged-chr4-117550282-4	chr4	117550183	117550383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080469)	promoter-TSS (NM_080469)	-41.0	NM_001356404	140546.0	Mm.235891	NM_080469	ENSMUSG00000033423	Eri3	PINT1|Prnpip1	exoribonuclease 3	protein-coding	168.5	265.5	151.5	2884.0	502.0	175.5	227.5	175.5
Merged-chr10-80101225-4	chr10	80101125	80101325	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359635)	promoter-TSS (NM_001359635)	-38.0	NM_001359635	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	20.0	46.5	14.5	387.5	124.0	27.5	33.0	40.0
Merged-chr3-95687927-4	chr3	95687802	95688002	+	992.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144899)	promoter-TSS (NM_144899)	15.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	20.0	35.5	23.0	405.0	48.0	24.0	18.0	20.5
Merged-chr4-130520420-4	chr4	130520302	130520502	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53634.0	NM_025998	67149.0	Mm.423029	NM_025998	ENSMUSG00000078532	Nkain1	2610200G18Rik|2810426C15Rik	Na+/K+ transporting ATPase interacting 1	protein-coding	26.5	57.5	15.0	277.5	77.0	30.5	42.5	23.5
Merged-chr10-89695543-3	chr10	89695505	89695705	+	836.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130956, intron 2 of 2)	intron (NR_130956, intron 2 of 2)	9242.0	NR_130956	69002.0	Mm.293947	NR_130956	ENSMUSG00000097383	1500026H17Rik	-	RIKEN cDNA 1500026H17 gene	ncRNA	5.5	6.5	10.5	34.5	1.0	4.0	3.5	8.0
Merged-chr10-67538248-3	chr10	67538170	67538370	+	873.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010118, exon 1 of 2)	exon (NM_010118, exon 1 of 2)	340.0	NM_001347458	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	5.0	10.5	5.5	101.5	18.0	5.5	6.5	4.0
Merged-chr14-16250817-4	chr14	16250739	16250939	+	881.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362432, intron 1 of 11)	intron (NM_001362432, intron 1 of 11)	-1031.0	NM_027695	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	14.0	17.0	5.0	183.5	41.0	11.5	10.5	10.5
Merged-chr18-75465149-4	chr18	75465069	75465269	+	692.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 10 of 11)	intron (NM_201354, intron 10 of 11)	-49476.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	11.5	13.0	15.0	78.5	13.0	9.0	6.0	12.0
Merged-chr19-5178816-3	chr19	5178726	5178926	+	765.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153129, intron 1 of 23)	RLTR13D3|LTR|ERVK	-60418.0	NM_008451	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	0.0	5.0	0.5	10.5	7.5	7.5	11.5	11.5
Merged-chr7-4741219-4	chr7	4741093	4741293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358044, intron 1 of 8)	intron (NM_001358044, intron 1 of 8)	1066.0	NM_001358044	232811.0	Mm.247844	NM_146177	ENSMUSG00000059851	Kmt5c	BC024816|Suv4-20h2|Suv420h2	lysine methyltransferase 5C	protein-coding	30.5	23.5	19.0	276.0	44.5	19.0	22.0	15.5
Merged-chr12-118772938-4	chr12	118772810	118773010	+	724.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6BA|LTR|ERVK	-73419.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	8.5	9.5	13.0	78.0	17.0	2.0	8.5	7.0
Merged-chr17-57031856-7	chr17	57031725	57031925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010613)	promoter-TSS (NM_010613)	-318.0	NM_010613	16549.0	Mm.34296	NM_010613	ENSMUSG00000007670	Khsrp	6330409F21Rik|Fbp2|Fubp2|Ksrp	KH-type splicing regulatory protein	protein-coding	405.5	670.0	461.0	5579.5	936.0	468.5	469.0	419.5
Merged-chr3-139021917-4	chr3	139021841	139022041	+	901.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 2 of 13)	intron (NM_001356388, intron 2 of 13)	53260.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	27.0	22.5	30.0	235.5	32.0	25.0	9.0	10.5
Merged-chr3-41409026-1	chr3	41408926	41409126	+	803.0	f0_balb.idr	Intergenic	Intergenic	84173.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	33.5	19.0	23.0	341.5	28.0	13.0	7.5	8.0
Merged-chr13-49215590-1	chr13	49215490	49215690	+	1000.0	f0_c57.idr	intron (NM_026738, intron 1 of 5)	CpG	436.0	NM_026738	68480.0	Mm.3336	NM_026738	ENSMUSG00000037960	Card19	1110007C09Rik|AI851695|Bincard	caspase recruitment domain family, member 19	protein-coding	34.5	31.5	34.5	417.5	42.0	25.5	32.0	43.5
Merged-chr17-79615276-4	chr17	79615176	79615376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201361, intron 1 of 10)	CpG	376.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	35.5	29.0	45.0	480.5	53.0	24.0	33.0	29.0
Merged-chr1-157039268-4	chr1	157039191	157039391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69359.0	NM_001305059	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	112.5	216.5	184.5	1633.0	319.0	149.5	165.0	98.0
Merged-chr14-31251375-4	chr14	31251236	31251436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360624)	promoter-TSS (NM_001360624)	-21.0	NR_153760	71838.0	Mm.5348	NM_027949	ENSMUSG00000021902	Phf7	1700006H01Rik|1700010P14Rik|AI427892|AW555949	PHD finger protein 7	protein-coding	78.0	129.5	67.0	724.5	276.0	121.5	119.5	124.0
Merged-chr4-120879663-4	chr4	120879540	120879740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 3 of 7)	MIR3|SINE|MIR	24841.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	86.0	130.5	118.5	993.0	186.0	90.5	84.5	49.5
Merged-chr17-43458790-3	chr17	43458673	43458873	+	883.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081178, exon 21 of 21)	3' UTR (NM_001081178, exon 21 of 21)	44000.0	NM_008585	17287.0	Mm.5346	NM_008585	ENSMUSG00000023914	Mep1a	AI098089|AW107200|Mep-1|Mep-1a|Mep1	meprin 1 alpha	protein-coding	9.5	11.0	5.0	75.0	31.5	6.5	7.0	5.0
Merged-chr8-36173217-2	chr8	36173100	36173300	+	804.375	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	17190.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	9.5	7.0	9.5	161.0	4.0	0.0	3.0	6.5
Merged-chr1-177981516-4	chr1	177981409	177981609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-9889.0	NR_155538	545391.0	Mm.442974	NM_001034899	ENSMUSG00000091476	Gm16432	EG545391|EG666250	predicted gene 16432	protein-coding	22.5	24.0	26.5	463.0	74.5	16.5	31.0	39.5
Merged-chr17-81580622-4	chr17	81580530	81580730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	157757.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	41.5	34.5	33.5	678.0	133.5	20.0	39.0	36.0
Merged-chr4-6191062-4	chr4	6190965	6191165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026534)	promoter-TSS (NM_026534)	-40.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	131.5	160.5	112.0	2072.5	318.0	119.0	195.0	112.0
Merged-chr5-124075073-4	chr5	124074974	124075174	+	987.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019875, intron 9 of 11)	intron (NM_019875, intron 9 of 11)	20724.0	NM_019875	56325.0	Mm.254839	NM_019875	ENSMUSG00000029408	Abcb9	TAPL|mKIAA1520	ATP-binding cassette, sub-family B (MDR/TAP), member 9	protein-coding	47.5	48.5	48.5	665.5	76.0	13.0	29.5	44.5
Merged-chr3-41580072-4	chr3	41579974	41580174	+	937.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130186, intron 1 of 10)	intron (NM_001130186, intron 1 of 10)	15194.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	25.0	12.0	20.0	191.5	35.5	5.0	13.0	8.5
Merged-chr4-62283590-4	chr4	62283463	62283663	+	950.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2866.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	7.5	8.5	14.5	115.5	27.0	14.5	12.0	19.5
Merged-chr4-59415516-2	chr4	59415416	59415616	+	889.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 3 of 16)	intron (NM_001163288, intron 3 of 16)	23117.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	6.5	4.5	4.5	167.0	13.0	8.0	6.5	2.0
Merged-chr10-96503467-3	chr10	96503361	96503561	+	608.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113540.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	11.0	5.5	15.0	100.0	13.0	4.0	2.5	2.5
Merged-chr9-57651019-4	chr9	57650878	57651078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 2 of 14)	intron (NM_001304761, intron 2 of 14)	2653.0	NM_001304761	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	32.5	52.0	70.5	551.5	99.0	32.5	44.0	55.5
Merged-chr7-89338757-4	chr7	89338662	89338862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360745)	promoter-TSS (NM_001360745)	25.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	174.5	260.5	151.5	2782.0	454.0	160.5	177.5	130.5
Merged-chr5-8368180-4	chr5	8368081	8368281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098225)	promoter-TSS (NM_001098225)	-21.0	NM_001310439	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	44.0	69.5	72.0	1217.0	67.5	27.0	66.5	36.5
Merged-chr1-107506401-3	chr1	107506288	107506488	+	764.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5035.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	11.5	15.0	8.5	187.5	12.0	5.0	10.5	14.0
Merged-chr7-27166712-6	chr7	27166549	27166749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357767)	promoter-TSS (NM_001357767)	153.0	NM_053208	112406.0	Mm.29978	NM_053208	ENSMUSG00000058709	Egln2	0610011A13Rik|C85656|Hif-p4h-1|Ier4|Phd1|SM-20	egl-9 family hypoxia-inducible factor 2	protein-coding	52.5	126.5	105.0	805.0	172.0	90.0	45.0	102.5
Merged-chr2-154436337-4	chr2	154436261	154436461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009823)	promoter-TSS (NM_009823)	-123.0	NM_172860	12396.0	Mm.29914	NM_009823	ENSMUSG00000038533	Cbfa2t2	A430091M07|C330013D05Rik|Cbfa2t2h|MTGR1	core-binding factor, runt domain, alpha subunit 2, translocated to, 2 (human)	protein-coding	267.0	359.5	228.0	2863.5	544.0	241.0	279.5	185.0
Merged-chr15-98937032-4	chr15	98936979	98937179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2689.0	NM_011654	22143.0	Mm.392113	NM_011654	ENSMUSG00000023004	Tuba1b	Tuba2	tubulin, alpha 1B	protein-coding	63.0	58.0	38.5	630.5	112.5	53.0	45.0	43.0
Merged-chr18-39460987-4	chr18	39460876	39461076	+	890.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	26269.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	12.0	8.0	17.0	150.0	29.0	8.5	29.0	25.0
Merged-chr1-155532944-3	chr1	155532842	155533042	+	842.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5831.0	NR_132128	433367.0	Mm.359304	NR_132128	ENSMUSG00000073535	Gm5532	EG433367	predicted gene 5532	ncRNA	5.5	3.0	7.0	88.5	19.5	6.5	5.5	7.0
Merged-chr1-136249915-3	chr1	136249810	136250010	+	827.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10963.0	NM_001101516	383563.0	Mm.40367	NM_001101516	ENSMUSG00000052759	Gpr25	Gm1300	G protein-coupled receptor 25	protein-coding	3.0	8.0	9.0	153.0	13.5	5.5	19.5	5.0
Merged-chr11-102267613-3	chr11	102267491	102267691	+	571.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-1232.0	NM_148953	217217.0	Mm.216432	NM_148953	ENSMUSG00000034768	Asb16	-	ankyrin repeat and SOCS box-containing 16	protein-coding	11.5	11.5	4.0	75.0	28.0	7.0	5.5	11.0
Merged-chr10-75146811-4	chr10	75146769	75146969	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081412, intron 8 of 22)	intron (NM_001081412, intron 8 of 22)	-65204.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	22.0	29.5	20.5	277.0	39.0	11.0	24.0	16.5
Merged-chr12-80785240-4	chr12	80785148	80785348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5284.0	NM_178682	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	18.5	23.0	32.0	336.5	78.5	28.5	33.0	23.5
Merged-chr12-98278458-4	chr12	98278353	98278553	+	833.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9818.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	11.0	12.5	7.5	263.5	27.0	7.5	11.5	9.0
Merged-chr2-118389789-3	chr2	118389694	118389894	+	868.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177806, intron 1 of 37)	intron (NM_001177806, intron 1 of 37)	682.0	NM_001177806	27103.0	Mm.217616	NM_013719	ENSMUSG00000005102	Eif2ak4	2610011M03|GCN2|MGCN2	eukaryotic translation initiation factor 2 alpha kinase 4	protein-coding	0.0	8.0	0.5	43.0	35.5	14.0	10.5	11.0
Merged-chr7-96856123-3	chr7	96856008	96856208	+	978.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 24 of 32)	intron (NM_011858, intron 24 of 32)	-54559.0	NR_045874	791381.0	Mm.402112	NR_045874	ENSMUSG00000053049	Gm15413	-	predicted gene 15413	ncRNA	13.5	13.0	14.0	299.5	19.0	1.5	2.0	5.0
Merged-chr7-106759004-4	chr7	106758903	106759103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5617.0	NM_146602	258595.0	Mm.377585	NM_146602	ENSMUSG00000059087	Olfr698	MOR283-3	olfactory receptor 698	protein-coding	31.0	39.5	29.5	373.5	81.5	20.5	21.0	29.0
Merged-chr14-32168395-4	chr14	32168304	32168504	+	983.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019744, intron 1 of 9)	intron (NM_019744, intron 1 of 9)	2615.0	NM_019744	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	20.0	19.0	47.0	483.5	52.0	15.5	28.0	17.0
Merged-chr11-71888707-3	chr11	71888618	71888818	+	852.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	51404.0	NR_045942	73816.0	Mm.390391	NR_045942	ENSMUSG00000085528	4930401O10Rik	-	RIKEN cDNA 4930401O10 gene	ncRNA	12.0	4.5	8.0	169.5	21.5	3.0	13.0	9.5
Merged-chr7-90016669-4	chr7	90016572	90016772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12487.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	60.0	48.0	43.5	841.5	87.0	29.0	34.0	54.5
Merged-chr9-66879700-4	chr9	66879586	66879786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	L1MA4|LINE|L1	40019.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	56.0	74.5	25.0	547.5	77.0	26.5	20.5	22.0
Merged-chr4-141860700-4	chr4	141860608	141860808	+	759.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 2 of 3)	intron (NM_025994, intron 2 of 3)	14212.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	10.0	17.0	13.0	132.0	14.0	9.0	2.0	12.0
Merged-chr6-113120986-4	chr6	113120887	113121087	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173005, exon 13 of 21)	exon (NM_173005, exon 13 of 21)	16052.0	NM_173005	72895.0	Mm.367159	NM_028385	ENSMUSG00000034269	Setd5	2900045N06Rik|C330007C20|C85544|mKIAA1757	SET domain containing 5	protein-coding	18.5	22.0	21.0	354.5	44.0	8.0	25.0	33.5
Merged-chr1-55406777-4	chr1	55406672	55406872	+	784.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	826.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	4.5	15.5	19.5	125.0	25.5	13.0	10.0	7.5
Merged-chr12-33303142-4	chr12	33303024	33303224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	609.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	127.0	302.5	173.0	1877.5	382.5	140.5	159.5	129.0
Merged-chr10-99171490-3	chr10	99171364	99171564	+	914.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	63329.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	9.0	6.0	6.5	93.0	12.0	4.0	7.0	8.0
Merged-chr5-96162625-4	chr5	96162511	96162711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178854)	promoter-TSS (NM_178854)	-621.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	54.0	93.0	75.0	1128.0	194.0	59.0	74.5	76.5
Merged-chr7-25269192-1	chr7	25269092	25269292	+	618.0	f0_balb.idr	intron (NM_001302811, intron 1 of 20)	intron (NM_001302811, intron 1 of 20)	1493.0	NM_001302811	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	5.0	6.5	7.5	77.5	18.0	6.0	4.5	14.0
Merged-chr2-33227494-4	chr2	33227391	33227591	+	727.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011923, intron 1 of 4)	L2b|LINE|L2	11530.0	NM_011923	26360.0	Mm.208919	NM_011923	ENSMUSG00000004105	Angptl2	AI593246|AW260363|Arp2	angiopoietin-like 2	protein-coding	3.0	9.0	9.0	219.0	20.5	10.0	6.0	17.0
Merged-chr4-128706732-4	chr4	128706615	128706815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 2 of 14)	intron (NM_018774, intron 2 of 14)	17977.0	NM_018774	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	94.5	218.0	105.5	1075.5	219.0	71.0	91.0	70.0
Merged-chr11-5542291-4	chr11	5542180	5542380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134033)	promoter-TSS (NM_134033)	-63.0	NM_134033	104479.0	Mm.210403	NM_134033	ENSMUSG00000020482	Ccdc117	1110004K02Rik|1700026O03Rik|AU018638|AU042822|AV173073|BC018601	coiled-coil domain containing 117	protein-coding	117.5	162.5	87.0	1625.0	313.0	113.0	158.0	104.5
Merged-chr2-180678830-4	chr2	180678749	180678949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111965, intron 5 of 12)	intron (NR_111965, intron 5 of 12)	13199.0	NR_111965	23856.0	Mm.253836	NM_011805	ENSMUSG00000038914	Dido1	6720461J16Rik|D130048F08Rik|DATF-1|DIO-1|Datf1|dido	death inducer-obliterator 1	protein-coding	33.5	49.5	42.0	683.0	77.0	31.0	38.0	38.0
Merged-chr6-148478771-3	chr6	148478682	148478882	+	800.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34430.0	NM_001347518	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	7.0	8.5	5.5	127.0	16.0	6.5	18.0	4.0
Merged-chr11-43433717-4	chr11	43433633	43433833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148673)	promoter-TSS (NM_148673)	2.0	NM_198936	193116.0	Mm.28200	NM_148673	ENSMUSG00000020409	Slu7	AU018913|D11Ertd730e|D3Bwg0878e	SLU7 splicing factor homolog (S. cerevisiae)	protein-coding	69.0	118.0	57.5	863.0	185.5	79.0	47.5	61.0
Merged-chr1-58897743-3	chr1	58897658	58897858	+	838.361084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75724.0	NM_172406	70827.0	Mm.222887	NM_172406	ENSMUSG00000026028	Trak2	2900022D04Rik|4733401O11Rik|AI480836|AW046271|Als2cr3|CALS-C|GRIF-1|GRIF1|OIP98|mKIAA0549	trafficking protein, kinesin binding 2	protein-coding	1.0	7.5	1.0	33.0	58.0	12.0	19.5	17.0
Merged-chr10-96416837-4	chr10	96416729	96416929	+	937.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	190622.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	17.5	41.0	45.0	481.5	34.0	13.0	27.0	24.5
Merged-chr4-86672467-4	chr4	86672376	86672576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2417.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	30.0	24.5	15.5	308.5	39.5	11.5	26.5	14.5
Merged-chr7-83399941-3	chr7	83399845	83400045	+	758.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-184986.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	5.0	5.5	10.0	75.5	17.5	3.0	6.5	13.5
Merged-chr7-139273533-4	chr7	139273425	139273625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25043.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	46.0	31.5	45.0	947.5	90.0	30.0	48.0	36.5
Merged-chr4-140572585-4	chr4	140572496	140572696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112723, intron 14 of 26)	intron (NM_001112723, intron 14 of 26)	76160.0	NM_001112723	72754.0	Mm.29329	NM_172415	ENSMUSG00000040964	Arhgef10l	2810441C07Rik	Rho guanine nucleotide exchange factor (GEF) 10-like	protein-coding	34.0	59.5	47.5	496.0	70.5	24.0	24.0	22.5
Merged-chr5-113621229-4	chr5	113621112	113621312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	L4_B_Mam|LINE|RTE-X	22391.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	37.5	80.0	56.0	762.0	74.5	34.0	34.0	45.5
Merged-chr5-105711641-3	chr5	105711564	105711764	+	862.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	10854.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	8.0	1.5	7.0	156.0	15.5	5.0	7.0	8.5
Merged-chr11-93972435-2	chr11	93972321	93972521	+	637.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3900.0	NM_008704	18102.0	Mm.439702	NM_008704	ENSMUSG00000037601	Nme1	AL024257|NDPK-A|NM23-M1|NM23A	NME/NM23 nucleoside diphosphate kinase 1	protein-coding	9.0	13.0	4.0	106.0	8.0	5.5	5.0	5.0
Merged-chr17-80048411-3	chr17	80048334	80048534	+	557.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152119, intron 6 of 13)	intron (NR_152119, intron 6 of 13)	13834.0	NR_152119	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	0.5	2.0	5.5	71.0	13.0	6.0	7.0	10.5
Merged-chr5-107869873-4	chr5	107869770	107869970	+	981.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007964, intron 1 of 17)	intron (NM_007964, intron 1 of 17)	5237.0	NM_007964	14020.0	Mm.35796	NM_007964	ENSMUSG00000011831	Evi5	NB4S	ecotropic viral integration site 5	protein-coding	8.0	23.0	24.5	432.5	49.5	12.0	21.0	19.0
Merged-chr7-122067148-4	chr7	122067073	122067273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138589)	promoter-TSS (NM_138589)	-25.0	NM_138589	28018.0	Mm.282122	NM_138589	ENSMUSG00000030870	Ubfd1	AI467302|D7Wsu105e|D7Wsu128e|Ubph	ubiquitin family domain containing 1	protein-coding	114.0	220.0	116.5	1590.0	338.0	113.0	115.0	164.5
Merged-chr2-52772617-4	chr2	52772516	52772716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-30467.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	36.0	72.5	52.5	328.5	87.5	43.5	43.5	40.5
Merged-chr9-42124018-2	chr9	42123918	42124118	+	761.916626	f1_balb.idr|f1_c57bl6.idr	exon (NM_011436, exon 1 of 48)	exon (NM_011436, exon 1 of 48)	279.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	6.5	0.5	6.0	71.5	13.5	11.5	8.0	6.5
Merged-chr13-49097743-3	chr13	49097627	49097827	+	789.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290313, intron 4 of 29)	intron (NM_001290313, intron 4 of 29)	50601.0	NM_029361	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	4.5	4.5	7.0	70.0	6.0	6.5	10.5	7.5
Merged-chr17-28927368-2	chr17	28927268	28927468	+	767.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12044.0	NM_172450	207819.0	Mm.248931	NM_172450	ENSMUSG00000048905	4930539E08Rik	9130014G02	RIKEN cDNA 4930539E08 gene	protein-coding	4.5	7.5	5.0	43.0	20.0	4.0	2.0	6.0
Merged-chr18-9731692-3	chr18	9731611	9731811	+	916.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 2 of 9)	intron (NM_130449, intron 2 of 9)	24063.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	12.0	16.5	13.5	156.0	13.0	3.5	4.5	2.0
Merged-chr6-88379942-4	chr6	88379855	88380055	+	928.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023060, intron 1 of 6)	intron (NM_023060, intron 1 of 6)	66584.0	NM_023060	65967.0	Mm.333237	NM_023060	ENSMUSG00000033216	Eefsec	Selb|mSelB|sec	eukaryotic elongation factor, selenocysteine-tRNA-specific	protein-coding	21.0	15.0	15.5	341.0	25.0	8.5	13.5	13.0
Merged-chr4-48419269-4	chr4	48419215	48419415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281978, intron 15 of 18)	intron (NM_001281978, intron 15 of 18)	54148.0	NM_172304	269536.0	Mm.272025	NM_172304	ENSMUSG00000028345	Tex10	2610206N19Rik|2810462N03Rik|BC006867	testis expressed gene 10	protein-coding	32.5	41.0	52.5	830.0	59.0	15.5	38.5	46.0
Merged-chr4-28812963-4	chr4	28812856	28813056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122889)	promoter-TSS (NM_001122889)	-175.0	NM_001290434	13841.0	Mm.257266	NM_010141	ENSMUSG00000028289	Epha7	Cek11|Ebk|Ehk3|Hek11|Mdk1	Eph receptor A7	protein-coding	43.5	75.0	69.5	1000.0	125.5	47.0	92.0	42.0
Merged-chr18-70436413-4	chr18	70436298	70436498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36056.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	146.0	256.0	153.0	2585.5	400.0	128.5	164.5	113.5
Merged-chr9-64793079-4	chr9	64792971	64793171	+	790.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17940.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	23.0	10.5	10.0	175.5	15.5	1.0	8.0	14.0
Merged-chr12-73598441-4	chr12	73598340	73598540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	13644.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	47.5	70.5	49.0	728.5	120.5	59.5	52.0	54.5
Merged-chr16-31700394-4	chr16	31700241	31700441	+	920.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357281, intron 1 of 22)	B1_Mus1|SINE|Alu	4793.0	NM_001357281	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	10.5	12.0	6.0	136.5	12.0	7.0	8.5	14.5
Merged-chr5-104459883-2	chr5	104459783	104459983	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008861, exon 1 of 15)	exon (NM_008861, exon 1 of 15)	426.0	NM_008861	18764.0	Mm.6442	NM_008861	ENSMUSG00000034462	Pkd2	C030034P18Rik|PC2|TRPP2	polycystic kidney disease 2	protein-coding	4.0	2.5	9.5	99.5	8.5	4.5	6.5	8.0
Merged-chr1-167415060-4	chr1	167414944	167415144	+	692.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21247.0	NM_025569	66447.0	Mm.218286	NM_025569	ENSMUSG00000026688	Mgst3	2010012L10Rik|2010306B17Rik|2700004G04Rik|AA516734|GST-III	microsomal glutathione S-transferase 3	protein-coding	10.5	19.0	7.0	77.0	31.5	12.0	9.0	11.0
Merged-chr2-38211642-4	chr2	38211543	38211743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 2 of 21)	ORR1F|LTR|ERVL-MaLR	75741.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	73.5	164.0	73.0	955.5	225.5	69.0	95.0	53.0
Merged-chr11-115514463-4	chr11	115514368	115514568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008258)	promoter-TSS (NM_008258)	-75.0	NM_008258	15374.0	Mm.1775	NM_008258	ENSMUSG00000020737	Jpt1	Hn1	Jupiter microtubule associated homolog 1	protein-coding	121.0	245.5	77.5	1429.0	337.0	126.5	104.0	105.5
Merged-chr3-14880535-4	chr3	14880445	14880645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5724.0	NM_001357334	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	92.0	140.5	90.0	1273.5	273.0	89.0	92.5	64.0
Merged-chr12-99608918-2	chr12	99608818	99609018	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_136760, intron 2 of 3)	intron (NR_136760, intron 2 of 3)	19056.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	4.5	5.5	5.0	88.0	18.0	2.5	6.5	4.5
Merged-chr17-25016393-4	chr17	25016287	25016487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134126, exon 1 of 30)	5' UTR (NM_134126, exon 1 of 30)	301.0	NM_134126	106633.0	Mm.32802	NM_134126	ENSMUSG00000024169	Ift140	AI661311|Tce5|Wdtc2|mKIAA0590	intraflagellar transport 140	protein-coding	29.0	56.5	24.5	485.5	73.5	38.5	53.0	39.0
Merged-chr3-96220892-4	chr3	96220789	96220989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175662)	promoter-TSS (NM_175662)	-9.0	NM_175662	319176.0	Mm.358954	NM_175662	ENSMUSG00000068855	Hist2h2ac	H2a-613b	histone cluster 2, H2ac	protein-coding	124.0	157.5	86.0	1264.0	324.5	143.5	162.0	154.0
Merged-chr15-58015413-4	chr15	58015323	58015523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18871.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	123.0	173.0	145.0	2076.0	289.5	101.0	130.0	149.0
Merged-chr8-22139877-3	chr8	22139793	22139993	+	758.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011848, intron 11 of 15)	intron (NM_011848, intron 11 of 15)	-14826.0	NM_001347318	330721.0	Mm.113940	NM_177898	ENSMUSG00000037738	Nek5	6530411J22|BB049667	NIMA (never in mitosis gene a)-related expressed kinase 5	protein-coding	8.0	11.5	9.0	59.5	2.0	0.0	0.0	5.0
Merged-chr4-57930771-4	chr4	57930664	57930864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-14500.0	NM_178727	242484.0	Mm.23214	NM_178727	ENSMUSG00000052117	D630039A03Rik	-	RIKEN cDNA D630039A03 gene	protein-coding	63.0	54.0	66.0	1427.5	188.5	42.0	42.0	61.5
Merged-chr11-110562536-4	chr11	110562449	110562649	+	837.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83209.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	16.0	12.5	14.0	228.5	29.0	11.5	9.5	4.0
Merged-chr5-116011876-4	chr5	116011778	116011978	+	960.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12550.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	31.5	43.0	45.5	785.5	37.5	11.0	25.5	27.5
Merged-chr14-122913099-4	chr14	122912972	122913172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155287)	promoter-TSS (NR_155287)	42.0	NR_155286	105245866.0	Mm.390754	NM_001039531	ENSMUSG00000075463	Gm15735	4930594M22Rik|F930011C10Rik	predicted gene 15735	ncRNA	46.0	22.0	56.5	621.0	48.5	26.0	23.5	17.0
Merged-chr11-82867834-3	chr11	82867692	82867892	+	887.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164569, intron 1 of 7)	Tigger14a|DNA|TcMar-Tigger	2952.0	NM_001164570	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	7.0	12.0	6.5	35.0	35.5	8.5	2.0	4.0
Merged-chr1-39650936-4	chr1	39650820	39651020	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_170597, exon 1 of 4)	exon (NM_170597, exon 1 of 4)	262.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	17.0	31.0	24.5	334.5	37.0	11.5	24.5	25.0
Merged-chr17-36135944-4	chr17	36135844	36136044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6519.0	NM_001177467	630294.0	Mm.484916	NM_001177467	ENSMUSG00000092243	Gm7030	EG630294|H2-t9	predicted gene 7030	protein-coding	62.5	82.0	52.0	832.0	94.5	8.5	22.0	27.0
Merged-chr2-6359830-4	chr2	6359733	6359933	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 1 of 13)	MER3|DNA|hAT-Charlie	7097.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	19.5	24.5	23.0	321.5	37.5	14.0	11.5	21.5
Merged-chr11-48813845-4	chr11	48813759	48813959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145377, intron 1 of 5)	MIRb|SINE|MIR	3532.0	NM_145377	211007.0	Mm.794	NM_145377	ENSMUSG00000040365	Trim41	AW552703|BC020156|R75223|RINCK	tripartite motif-containing 41	protein-coding	37.5	66.5	69.0	919.0	94.0	32.5	43.5	55.0
Merged-chr18-36320160-4	chr18	36320054	36320254	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	20053.0	NM_001267796	109169.0	Mm.426423	NM_001267796	ENSMUSG00000110185	Igip	6330403M23Rik	IgA inducing protein	protein-coding	39.0	35.0	15.0	419.5	76.5	21.0	22.0	17.5
Merged-chr11-54237193-4	chr11	54237065	54237265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12734.0	NM_009969	12981.0	Mm.4922	NM_009969	ENSMUSG00000018916	Csf2	CSF|Csfgm|GMCSF|Gm-CSf|MGI-IGM	colony stimulating factor 2 (granulocyte-macrophage)	protein-coding	24.5	40.5	18.0	270.0	78.5	20.0	39.0	41.0
Merged-chr1-143702892-4	chr1	143702787	143702987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145991)	promoter-TSS (NM_145991)	6.0	NM_145991	214498.0	Mm.156727	NM_145991	ENSMUSG00000026361	Cdc73	8430414L16Rik|C130030P16Rik|C81219|Hrpt2	cell division cycle 73, Paf1/RNA polymerase II complex component	protein-coding	250.0	301.5	221.5	3654.0	488.0	230.0	283.0	171.0
Merged-chr4-32555759-4	chr4	32555662	32555862	+	991.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 2 of 4)	L1MA9|LINE|L1	15900.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	50.5	69.5	114.5	1898.5	90.5	13.5	62.0	57.5
Merged-chr2-166304762-3	chr2	166304675	166304875	+	890.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30867.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	12.5	12.0	4.5	100.5	14.0	9.0	8.5	13.0
Merged-chr8-11015801-4	chr8	11015658	11015858	+	945.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 1 of 4)	intron (NR_046017, intron 1 of 4)	-7328.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	21.5	28.5	33.0	862.0	30.5	12.0	15.0	19.0
Merged-chr17-86536046-4	chr17	86535927	86536127	+	866.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 10 of 14)	intron (NM_011104, intron 10 of 14)	-217837.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	10.5	25.0	7.0	172.5	43.5	10.0	8.5	14.0
Merged-chr1-36869808-4	chr1	36869708	36869908	+	797.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 4 of 40)	intron (NM_018872, intron 4 of 40)	69719.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	12.5	15.5	8.5	139.0	30.0	10.5	1.5	9.5
Merged-chr7-64048541-4	chr7	64048434	64048634	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-105301.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	29.5	28.5	30.0	507.0	38.5	22.0	13.0	30.0
Merged-chr3-108653928-4	chr3	108653824	108654024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145543)	promoter-TSS (NM_145543)	-3.0	NM_001355632	229725.0	Mm.214545	NM_145543	ENSMUSG00000027884	Clcc1	Mclc	chloride channel CLIC-like 1	protein-coding	86.5	154.5	63.5	1117.5	263.0	96.5	95.5	106.0
Merged-chr5-107901008-1	chr5	107900908	107901108	+	1000.0	f1_balb.idr	intron (NM_016980, intron 1 of 7)	intron (NM_016980, intron 1 of 7)	480.0	NM_016980	100503670.0	Mm.277897	NM_016980	ENSMUSG00000058558	Rpl5	U21RNA	ribosomal protein L5	protein-coding	18.0	21.5	29.0	190.0	34.5	20.0	18.5	18.0
Merged-chr8-121116106-4	chr8	121116025	121116225	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013519)	promoter-TSS (NM_013519)	-46.0	NM_013519	14234.0	Mm.14092	NM_013519	ENSMUSG00000046714	Foxc2	Fkh14|Hfhbf3|MFH-1|Mfh1	forkhead box C2	protein-coding	15.5	26.0	18.0	155.0	30.0	9.0	19.5	11.5
Merged-chr6-125162141-4	chr6	125162055	125162255	+	910.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302779)	TTS (NM_001302779)	3618.0	NM_008084	14433.0	Mm.304088	NM_008084	ENSMUSG00000057666	Gapdh	Gapd	glyceraldehyde-3-phosphate dehydrogenase	protein-coding	6.0	14.0	12.0	151.0	44.0	15.0	19.0	18.5
Merged-chr1-169531536-4	chr1	169531416	169531616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023284)	promoter-TSS (NM_023284)	-52.0	NM_001355159	66977.0	Mm.151315	NM_023284	ENSMUSG00000026683	Nuf2	2410003C07Rik|AU044112|C85691|Cdca1|NUF2R	NUF2, NDC80 kinetochore complex component	protein-coding	163.0	276.5	157.0	2313.5	458.0	177.0	144.5	135.5
Merged-chr13-96542581-4	chr13	96542467	96542667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164222)	promoter-TSS (NM_001164222)	12.0	NM_012048	27015.0	Mm.89926	NM_012048	ENSMUSG00000021668	Polk	DINP|Dinb1	polymerase (DNA directed), kappa	protein-coding	253.5	371.5	277.5	4391.5	650.0	227.5	337.5	259.5
Merged-chr13-59835336-4	chr13	59835249	59835449	+	871.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12202.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	15.5	21.5	11.0	147.0	16.5	1.0	10.0	10.0
Merged-chr10-20770676-4	chr10	20770574	20770774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-E-int|LTR|ERVL	-45596.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	63.5	58.0	48.0	929.0	175.0	45.5	63.0	51.0
Merged-chr16-32672443-3	chr16	32672335	32672535	+	988.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347185)	promoter-TSS (NM_001347185)	-719.0	NM_001347185	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	12.5	27.5	7.5	48.5	63.5	12.5	18.5	9.5
Merged-chr16-19963185-4	chr16	19963097	19963297	+	864.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 2 of 6)	Lx8|LINE|L1	19852.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	12.0	11.0	10.5	340.5	20.5	6.0	12.0	20.0
Merged-chr2-129310848-4	chr2	129310886	129311086	+	931.142822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1014.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	16.5	10.0	8.0	200.5	8.0	2.0	2.0	7.5
Merged-chr2-35108941-1	chr2	35108841	35109041	+	810.0	f0_balb.idr	promoter-TSS (NM_012018)	promoter-TSS (NM_012018)	-551.0	NM_012018	26920.0	Mm.231332	NM_012018	ENSMUSG00000057110	Cntrl	6720467O09Rik|AA968343|Cep1|Cep110|IB3/5|Ma2a8|b2b1468.1Clo|b2b1468Clo	centriolin	protein-coding	6.0	11.0	5.5	139.0	25.0	3.5	3.0	8.0
Merged-chr5-135712424-3	chr5	135712314	135712514	+	902.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	MTEb|LTR|ERVL-MaLR	23269.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	11.5	13.0	4.5	76.0	23.5	3.0	4.0	3.5
Merged-chr6-121183885-4	chr6	121183764	121183964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_130903, exon 1 of 7)	non-coding (NR_130903, exon 1 of 7)	197.0	NM_001304773	74043.0	Mm.491240	NM_028730	ENSMUSG00000067825	Pex26	4632428M11Rik	peroxisomal biogenesis factor 26	protein-coding	82.0	92.5	41.5	1216.0	153.0	64.0	101.5	91.5
Merged-chr13-5911638-4	chr13	5911556	5911756	+	977.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	50167.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	23.0	26.0	16.5	150.0	90.0	21.5	24.5	17.0
Merged-chr4-123343392-1	chr4	123343292	123343492	+	673.5	f0_balb.idr	promoter-TSS (NM_001256019)	promoter-TSS (NM_001256019)	-140.0	NM_007558	12163.0	Mm.439749	NM_007558	ENSMUSG00000032726	Bmp8a	Bmp7r1|OP-2|OP2	bone morphogenetic protein 8a	protein-coding	4.5	12.0	7.0	74.5	13.5	6.0	4.0	4.5
Merged-chr16-95931712-4	chr16	95931613	95931813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2636.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	156.0	204.0	164.5	2242.5	286.0	96.5	141.0	128.0
Merged-chr8-70527732-4	chr8	70527645	70527845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199631)	promoter-TSS (NM_001199631)	2.0	NM_010223	14232.0	Mm.141864	NM_010223	ENSMUSG00000019428	Fkbp8	38kDa|FKBP-38|FKBP-8|FKBPR38|Fkbp38|mFKBP38	FK506 binding protein 8	protein-coding	75.5	86.5	50.0	707.5	133.5	38.5	59.0	53.5
Merged-chr1-75316798-4	chr1	75316565	75316765	+	826.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110831, intron 2 of 14)	intron (NM_001110831, intron 2 of 14)	352.0	NM_016878	13437.0	Mm.24680	NM_016878	ENSMUSG00000026209	Dnpep	AA407814	aspartyl aminopeptidase	protein-coding	6.5	5.5	9.5	77.5	11.0	4.5	2.0	2.5
Merged-chr7-79997306-4	chr7	79997202	79997402	+	807.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27512.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	15.0	11.5	6.5	105.5	21.5	12.0	4.5	16.0
Merged-chr5-105599494-2	chr5	105599394	105599594	+	890.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	80023.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	4.0	20.0	8.5	108.0	26.0	10.5	16.5	5.0
Merged-chr8-41053512-4	chr8	41053358	41053558	+	899.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 3 of 13)	intron (NM_001005863, intron 3 of 13)	1338.0	NM_001005864	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	10.5	8.0	20.5	377.5	36.0	4.5	8.0	16.0
Merged-chr4-40142389-1	chr4	40142289	40142489	+	754.0	f0_balb.idr	promoter-TSS (NM_007386)	promoter-TSS (NM_007386)	-876.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	10.5	16.5	9.0	147.5	20.5	8.5	3.5	16.5
Merged-chr12-116433906-4	chr12	116433788	116433988	+	975.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 16 of 28)	intron (NM_133762, intron 16 of 28)	28486.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	11.0	8.0	14.0	189.5	174.0	67.5	77.5	93.5
Merged-chr1-191198120-4	chr1	191198015	191198215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14782.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	98.0	141.0	110.5	1793.5	197.0	73.0	90.5	81.0
Merged-chr1-80636445-3	chr1	80636343	80636543	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	28909.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	16.5	14.0	10.0	217.5	28.0	5.5	8.5	8.0
Merged-chr10-121373145-4	chr10	121373054	121373254	+	908.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 2 of 13)	MTD|LTR|ERVL-MaLR	8064.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	13.5	16.5	16.0	286.5	40.5	18.0	11.0	12.0
Merged-chr8-70001868-4	chr8	70001717	70001917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5433.0	NM_145596	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	68.0	94.5	63.0	800.0	159.0	52.5	75.5	61.0
Merged-chr5-124031233-4	chr5	124031143	124031343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	1017.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	31.0	32.0	34.5	508.5	90.5	24.5	31.0	39.5
Merged-chr10-120141315-4	chr10	120141214	120141414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028679)	TTS (NM_028679)	-28349.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	32.5	55.5	35.5	730.0	118.0	33.5	44.0	30.0
Merged-chr4-32588419-4	chr4	32588339	32588539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	13943.0	NM_010289	14610.0	Mm.377084	NM_010289	ENSMUSG00000051056	Gja10	Cx-57|Cx59|cx57	gap junction protein, alpha 10	protein-coding	55.0	60.0	60.0	1354.0	216.0	51.0	75.0	77.0
Merged-chr19-3908087-4	chr19	3908002	3908202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136091)	promoter-TSS (NM_001136091)	-969.0	NM_001136091	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	146.5	212.5	94.5	1854.5	261.5	117.5	110.0	146.0
Merged-chr1-85122030-3	chr1	85121932	85122132	+	822.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	-12179.0	NM_213615	381287.0	Mm.487565	NM_213615	ENSMUSG00000089844	A530032D15Rik	Gm1888	RIKEN cDNA A530032D15Rik gene	protein-coding	8.5	11.0	10.5	96.0	5.5	5.5	2.0	8.0
Merged-chr7-126746997-4	chr7	126746948	126747148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12578.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	67.5	156.0	59.5	619.5	245.5	90.5	88.0	60.0
Merged-chr7-24380147-3	chr7	24380097	24380297	+	957.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163510, intron 4 of 8)	intron (NM_001163510, intron 4 of 8)	9934.0	NM_008433	16534.0	Mm.9911	NM_008433	ENSMUSG00000054342	Kcnn4	IK1|IKCA1|KCA4|KCa3.1|SK4|SKCas|mIKCa1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	protein-coding	2.5	3.0	1.5	61.5	24.0	9.0	14.0	22.0
Merged-chr6-136828350-4	chr6	136828268	136828468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178776)	promoter-TSS (NM_178776)	-152.0	NM_021714	60321.0	Mm.141197	NM_021714	ENSMUSG00000030216	Wbp11	2510026P17Rik|D6Wsu113e|Npwbp|SIPP1	WW domain binding protein 11	protein-coding	320.0	503.5	347.0	5196.0	847.0	382.5	347.0	333.5
Merged-chr5-141241370-4	chr5	141241258	141241458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177879)	promoter-TSS (NM_177879)	-176.0	NM_177879	330222.0	Mm.151931	NM_177879	ENSMUSG00000039683	Sdk1	5330440E10|6720466O15Rik	sidekick cell adhesion molecule 1	protein-coding	23.5	44.0	36.5	529.0	67.5	23.0	35.0	29.0
Merged-chr4-151842812-4	chr4	151842724	151842924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 1 of 23)	intron (NM_001081557, intron 1 of 23)	18944.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	41.5	68.5	36.0	665.0	95.0	27.0	46.5	44.5
Merged-chr7-16047882-2	chr7	16047792	16047992	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	CpG	-23953.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	16.5	36.5	37.0	219.0	54.5	14.5	22.0	26.0
Merged-chr7-30593399-1	chr7	30593299	30593499	+	563.5	f0_balb.idr	promoter-TSS (NM_021397)	promoter-TSS (NM_021397)	-457.0	NM_021397	58206.0	Mm.116789	NM_021397	ENSMUSG00000006310	Zbtb32	4930524C15Rik|FAXF|FAZF|PLZP|Rog|Tzfp	zinc finger and BTB domain containing 32	protein-coding	4.0	7.5	6.0	86.5	10.5	5.5	11.5	5.5
Merged-chr13-5863045-2	chr13	5862945	5863145	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 1 of 3)	intron (NM_011803, intron 1 of 3)	1556.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	14.5	10.5	3.5	107.5	33.5	18.5	7.5	14.0
Merged-chr4-108383457-3	chr4	108383315	108383515	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001099303, exon 1 of 3)	5' UTR (NM_001099303, exon 1 of 3)	240.0	NM_001099303	545667.0	Mm.380025	NM_001099303	ENSMUSG00000059816	Fam159a	Shisal2a	family with sequence similarity 159, member A	protein-coding	7.5	2.5	5.5	101.5	11.5	9.5	5.0	5.0
Merged-chr7-75786194-4	chr7	75786102	75786302	+	827.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-62136.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	14.0	14.5	10.0	159.5	26.0	7.5	9.0	4.5
Merged-chr16-32247113-4	chr16	32246968	32247168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173439)	promoter-TSS (NM_173439)	-43.0	NM_173439	268882.0	Mm.256137	NM_173439	ENSMUSG00000035764	Fbxo45	2610017J04Rik|AI463119|BC026799	F-box protein 45	protein-coding	112.5	134.0	60.5	1191.5	264.0	98.5	110.0	79.5
Merged-chr4-12083436-4	chr4	12083352	12083552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110955, intron 2 of 28)	RodERV21-int|LTR|ERV1	4505.0	NM_177861	329795.0	Mm.475125	NM_177861	ENSMUSG00000049488	Tmem67	5330408M12Rik|B230117O07|b2b1163.1Clo|b2b1291.1Clo	transmembrane protein 67	protein-coding	27.5	41.5	21.0	428.5	120.5	30.0	53.5	47.0
Merged-chr16-90349857-4	chr16	90349761	90349961	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-36536.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	39.5	54.0	22.5	294.5	94.5	37.5	28.5	20.0
Merged-chr5-110230991-4	chr5	110230876	110231076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253814)	promoter-TSS (NM_001253814)	-28.0	NM_001253814	71782.0	Mm.288442	NM_027922	ENSMUSG00000029501	Ankle2	1110001J12Rik|AI661024|D5Ertd585e	ankyrin repeat and LEM domain containing 2	protein-coding	145.5	199.5	103.0	1867.0	303.0	118.5	147.0	107.5
Merged-chr11-121791642-4	chr11	121791532	121791732	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38586.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	35.5	65.5	34.0	382.5	53.5	20.5	24.0	16.5
Merged-chr19-14668651-4	chr19	14668536	14668736	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70453.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	17.0	15.0	45.5	302.0	54.5	20.5	14.0	13.5
Merged-chr9-92490069-3	chr9	92489973	92490173	+	885.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178711, exon 8 of 9)	exon (NM_178711, exon 8 of 9)	32695.0	NM_178711	235527.0	Mm.55289	NM_178711	ENSMUSG00000032377	Plscr4	AV245873	phospholipid scramblase 4	protein-coding	13.0	15.0	20.5	525.0	17.5	0.5	3.0	6.0
Merged-chr2-155710764-4	chr2	155710674	155710874	+	851.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145537, intron 8 of 10)	intron (NM_145537, intron 8 of 10)	-18390.0	NM_001163452	56407.0	Mm.234944	NM_019828	ENSMUSG00000038324	Trpc4ap	4833429F06Rik|D2Ertd113e|Trrp4ap|mFLJ00177|truss	transient receptor potential cation channel, subfamily C, member 4 associated protein	protein-coding	6.0	7.5	16.0	170.5	21.0	8.5	14.0	12.0
Merged-chr19-32071111-3	chr19	32071017	32071217	+	768.455566	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018830, intron 2 of 23)	intron (NM_018830, intron 2 of 23)	32023.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	1.0	0.0	0.0	29.5	38.5	18.0	15.0	18.5
Merged-chr9-64018072-5	chr9	64017928	64018128	+	673.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 1 of 3)	(TCTG)n|Simple_repeat|Simple_repeat	4031.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	5.5	3.0	7.0	65.0	11.5	4.5	8.0	4.5
Merged-chr8-35123466-4	chr8	35123355	35123555	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157765.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	17.0	16.5	18.0	320.5	43.5	22.5	35.0	30.5
Merged-chr8-72296753-2	chr8	72296643	72296843	+	902.5	f0_balb.idr|f1_balb.idr	Intergenic	PB1D9|SINE|Alu	-22319.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	5.5	13.5	11.0	169.0	13.0	7.0	3.0	9.5
Merged-chr5-120605864-4	chr5	120605781	120605981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029408, intron 4 of 4)	intron (NM_029408, intron 4 of 4)	6708.0	NM_029096	100764.0	Mm.9654	NM_029096	ENSMUSG00000029600	Rita1	1110008J03Rik|AI853657|C86297|Rita	RBPJ interacting and tubulin associated 1	protein-coding	31.5	34.5	16.0	364.5	64.5	28.5	25.0	30.0
Merged-chr17-34931941-3	chr17	34931771	34931971	+	976.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010893, intron 1 of 5)	intron (NM_010893, intron 1 of 5)	618.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	15.5	17.5	11.5	221.5	28.5	14.0	18.0	13.0
Merged-chr2-51013246-4	chr2	51013125	51013325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103541.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	20.0	48.5	36.0	767.5	60.5	29.5	47.5	27.5
Merged-chr5-142463914-4	chr5	142463825	142464025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172725)	promoter-TSS (NM_172725)	-6.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	113.5	187.5	93.5	1120.0	271.0	111.5	115.5	134.0
Merged-chr13-51398881-4	chr13	51398758	51398958	+	981.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD2|LINE|L1	-9760.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	38.0	35.5	30.0	543.0	97.5	26.0	34.0	17.5
Merged-chr1-184025375-3	chr1	184025265	184025465	+	763.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8633.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	5.5	9.5	8.5	105.5	25.5	0.5	6.5	10.0
Merged-chr3-37420304-4	chr3	37420218	37420418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291044)	promoter-TSS (NM_001291044)	368.0	NM_021343	57815.0	Mm.172679	NM_021343	ENSMUSG00000027722	Spata5	2510048F20Rik|C78064|Spaf	spermatogenesis associated 5	protein-coding	145.0	150.0	101.5	1770.0	399.0	147.5	198.5	147.0
Merged-chr18-80390870-4	chr18	80390780	80390980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26626.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	18.0	21.5	39.5	322.0	29.0	18.5	22.5	23.5
Merged-chr3-121293381-4	chr3	121293257	121293457	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 1 of 2)	intron (NR_155539, intron 1 of 2)	1617.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	16.0	13.5	3.0	119.5	50.0	21.0	20.0	8.0
Merged-chr9-20980002-4	chr9	20979899	20980099	+	943.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3206.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	22.5	19.5	10.0	354.0	51.0	13.5	16.0	17.5
Merged-chr5-74975689-4	chr5	74975586	74975786	+	818.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26492.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	5.5	13.5	3.5	100.0	9.0	7.5	13.0	9.5
Merged-chr7-4239370-4	chr7	4239275	4239475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081239, intron 4 of 5)	intron (NM_001081239, intron 4 of 5)	1621.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	46.5	79.5	79.0	610.5	119.5	45.0	69.5	72.0
Merged-chr5-64812716-4	chr5	64812621	64812821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	9198.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	47.0	95.0	45.0	1034.5	117.0	31.5	55.0	50.0
Merged-chr8-10663948-4	chr8	10663803	10664003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	218551.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	92.0	112.0	99.0	1777.5	210.0	72.0	124.0	108.0
Merged-chr17-45558095-4	chr17	45557978	45558178	+	919.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008690, intron 1 of 5)	intron (NM_008690, intron 1 of 5)	2378.0	NM_001304956	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	25.5	100.0	18.0	154.0	106.5	35.5	16.0	11.5
Merged-chr9-59731297-4	chr9	59731216	59731416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19333.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	79.0	129.0	74.5	956.0	166.0	47.5	65.5	65.5
Merged-chr8-84910139-4	chr8	84910041	84910241	+	923.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010062, intron 5 of 5)	intron (NM_010062, intron 5 of 5)	1517.0	NM_010062	13423.0	Mm.350831	NM_010062	ENSMUSG00000003812	Dnase2a	Dnase2	deoxyribonuclease II alpha	protein-coding	8.5	21.5	17.5	377.5	29.0	13.0	25.5	22.0
Merged-chr15-103315328-3	chr15	103315312	103315512	+	819.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013866, exon 7 of 8)	exon (NM_013866, exon 7 of 8)	-4974.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	0.0	7.0	6.0	52.0	10.5	6.0	5.0	6.0
Merged-chr15-102460243-3	chr15	102460171	102460371	+	732.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025385, intron 3 of 4)	intron (NM_025385, intron 3 of 4)	1101.0	NM_025385	66151.0	Mm.393955	NM_025385	ENSMUSG00000023048	Prr13	1110020C13Rik|2010324E22Rik	proline rich 13	protein-coding	3.0	14.5	12.0	77.5	17.0	11.0	5.5	11.0
Merged-chr9-31386141-4	chr9	31386059	31386259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172766)	promoter-TSS (NM_172766)	-33.0	NM_172766	235134.0	Mm.238146	NM_172766	ENSMUSG00000042185	Nfrkb	A530090G11Rik	nuclear factor related to kappa B binding protein	protein-coding	122.5	155.5	82.0	1797.0	253.5	94.5	107.0	77.0
Merged-chr13-23433055-3	chr13	23432957	23433157	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Tyr-TAC|tRNA|tRNA	-2040.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	24.5	38.0	25.5	290.5	73.5	19.0	23.0	18.0
Merged-chr10-95261295-3	chr10	95261198	95261398	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	(CAAAA)n|Simple_repeat|Simple_repeat	62411.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	5.5	9.0	5.0	97.5	23.5	5.0	5.5	14.5
Merged-chr10-127188754-3	chr10	127188652	127188852	+	774.216675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358557)	promoter-TSS (NM_001358557)	20.0	NM_001358557	52666.0	Mm.272230	NM_028027	ENSMUSG00000019467	Arhgef25	2410008H17Rik|D10Ertd610e|GEFT	Rho guanine nucleotide exchange factor (GEF) 25	protein-coding	13.0	9.5	8.5	115.5	18.5	4.0	10.5	6.0
Merged-chr11-22675235-2	chr11	22675135	22675335	+	575.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	162952.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	7.0	6.0	5.0	74.0	11.5	3.5	6.0	10.0
Merged-chr13-37619447-3	chr13	37619356	37619556	+	803.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-206582.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	10.0	12.0	15.0	78.0	10.0	4.0	4.5	13.0
Merged-chr6-86792985-2	chr6	86792887	86793087	+	889.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_013471, intron 1 of 12)	intron (NM_013471, intron 1 of 12)	597.0	NM_013471	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	6.5	7.0	6.0	45.0	11.5	3.0	0.5	3.0
Merged-chr2-130563739-4	chr2	130563655	130563855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040348)	promoter-TSS (NR_040348)	-2.0	NM_207207	99045.0	Mm.30057	NM_207207	ENSMUSG00000037740	Mrps26	AI648866|GI008|MRP-S13|MRP-S26|Rpms13	mitochondrial ribosomal protein S26	protein-coding	139.0	182.5	116.5	1726.0	164.0	69.0	117.5	88.5
Merged-chr13-110598587-4	chr13	110598434	110598634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	203490.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	17.5	35.0	28.5	351.0	47.5	24.5	16.5	26.0
Merged-chr3-37140338-4	chr3	37140241	37140441	+	946.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA9|LINE|L1	-14387.0	NM_008366	16183.0	Mm.14190	NM_008366	ENSMUSG00000027720	Il2	Il-2	interleukin 2	protein-coding	16.0	11.5	26.0	324.5	26.0	11.0	17.5	12.5
Merged-chr16-87746929-4	chr16	87746814	87747014	+	923.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	47960.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	15.5	30.0	7.5	199.0	46.5	11.5	25.5	20.0
Merged-chr19-6278897-4	chr19	6278829	6279029	+	890.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010119, intron 1 of 4)	intron (NM_010119, intron 1 of 4)	2033.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	9.0	11.5	7.0	82.0	36.0	16.5	3.5	7.0
Merged-chr6-39230878-4	chr6	39230792	39230992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-24119.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	164.5	203.5	173.0	2222.5	288.5	85.5	143.0	126.0
Merged-chr8-40511317-4	chr8	40511228	40511428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033560)	promoter-TSS (NM_033560)	426.0	NM_001271543	18983.0	Mm.272551	NM_011135	ENSMUSG00000031601	Cnot7	AU022737|CAF-1|Caf1|Pop2	CCR4-NOT transcription complex, subunit 7	protein-coding	54.5	56.0	53.0	558.0	123.5	33.5	34.0	43.0
Merged-chr5-140620901-2	chr5	140620801	140621001	+	873.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175274, exon 14 of 14)	3' UTR (NM_175274, exon 14 of 14)	13560.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	6.5	5.0	8.0	61.0	10.0	2.0	4.5	9.0
Merged-chr14-75179460-4	chr14	75179356	75179556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	43031.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	32.5	85.5	55.5	557.0	113.5	46.0	56.0	55.0
Merged-chr15-34083399-2	chr15	34083299	34083499	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_026002, exon 1 of 12)	exon (NM_026002, exon 1 of 12)	680.0	NM_001357925	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	18.0	30.0	35.5	463.5	57.5	25.5	23.5	31.0
Merged-chr14-103550637-4	chr14	103550534	103550734	+	955.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022886, intron 8 of 30)	intron (NM_022886, intron 8 of 30)	37293.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	10.5	27.0	12.5	276.5	38.5	17.5	13.5	15.5
Merged-chr13-41619715-3	chr13	41619609	41619809	+	758.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163572, intron 1 of 2)	intron (NM_001163572, intron 1 of 2)	13493.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	8.5	4.5	5.5	80.5	8.5	4.5	5.0	8.0
Merged-chr5-5418503-4	chr5	5418402	5418602	+	752.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-38251.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	14.0	18.5	9.5	58.0	15.5	12.0	14.5	13.0
Merged-chr14-46994973-4	chr14	46994872	46995072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	-6368.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	59.5	67.5	52.0	1111.0	69.5	33.5	35.5	38.0
Merged-chr3-37693114-1	chr3	37693014	37693214	+	686.5	f0_balb.idr	Intergenic	C-rich|Low_complexity|Low_complexity	31246.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	10.5	5.0	11.0	92.0	8.5	2.0	2.5	2.5
Merged-chr6-87513600-4	chr6	87513493	87513693	+	848.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	-17266.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	8.5	12.5	2.5	99.5	29.5	9.0	17.0	19.5
Merged-chr13-110903426-4	chr13	110903326	110903526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131193)	promoter-TSS (NR_131193)	-73.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	64.5	78.0	96.0	1614.0	224.5	62.0	107.5	112.0
Merged-chr18-38484338-4	chr18	38484248	38484448	+	804.513916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	65441.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	2.5	4.0	3.0	56.5	8.5	6.0	8.0	9.5
Merged-chr11-118476890-4	chr11	118476802	118477002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359368)	promoter-TSS (NM_001359368)	70.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	155.0	259.5	168.5	2357.0	398.5	150.5	181.0	175.0
Merged-chr12-56434748-4	chr12	56434640	56434840	+	923.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88846.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	12.5	25.0	12.0	288.5	52.5	11.0	14.5	15.5
Merged-chr10-80748841-4	chr10	80748755	80748955	+	886.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6348.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	14.5	10.5	16.0	102.5	36.5	19.0	12.0	16.0
Merged-chr7-130117342-1	chr7	130117242	130117442	+	662.0	f0_balb.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	149466.0	NM_010207	14183.0	Mm.16340	NM_010207	ENSMUSG00000030849	Fgfr2	AU043015|AW556123|Bek|Fgfr-2|Fgfr-7|Fgfr7|KGFR|KGFRTr|svs	fibroblast growth factor receptor 2	protein-coding	6.5	12.0	7.0	104.5	14.5	2.0	14.5	2.5
Merged-chr10-40068888-4	chr10	40068791	40068991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 3 of 5)	intron (NM_001114332, intron 3 of 5)	-43623.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	39.5	54.0	88.0	1205.5	92.5	22.0	49.0	44.0
Merged-chr10-128211848-4	chr10	128211734	128211934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025716)	promoter-TSS (NM_025716)	-40.0	NM_025716	66701.0	Mm.29694	NM_025716	ENSMUSG00000051346	Spryd4	4633402N23Rik|AA114801	SPRY domain containing 4	protein-coding	29.5	45.5	19.0	352.5	116.0	35.5	54.0	36.5
Merged-chr10-80071836-2	chr10	80071736	80071936	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359635, intron 5 of 31)	intron (NM_001359635, intron 5 of 31)	3603.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	4.0	7.0	5.5	69.5	12.0	6.0	10.0	6.0
Merged-chr14-69089359-4	chr14	69089249	69089449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60060.0	NM_009285	20855.0	Mm.20911	NM_009285	ENSMUSG00000014813	Stc1	Stc	stanniocalcin 1	protein-coding	228.5	273.5	222.0	3715.0	522.0	199.5	259.5	198.5
Merged-chr5-64743214-2	chr5	64743120	64743320	+	807.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-60303.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	4.0	0.5	3.0	47.5	27.5	8.0	9.0	10.0
Merged-chr9-21724321-4	chr9	21724166	21724366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252659, intron 1 of 17)	intron (NM_001252659, intron 1 of 17)	690.0	NM_010700	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	45.0	67.5	41.5	581.5	184.0	31.5	58.5	45.0
Merged-chr2-51376291-3	chr2	51376179	51376379	+	925.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61621.0	NR_130155	73375.0	Mm.396227	NR_130155	ENSMUSG00000086007	1700057H21Rik	-	RIKEN cDNA 1700057H21 gene	ncRNA	27.5	25.5	23.5	438.5	14.0	6.5	11.5	6.0
Merged-chr9-72991641-4	chr9	72991545	72991745	+	865.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359295, intron 1 of 9)	intron (NM_001359295, intron 1 of 9)	6141.0	NM_001286544	72278.0	Mm.268475	NM_028181	ENSMUSG00000034563	Ccpg1	1700030B06Rik|1810073J13Rik|9430028F23Rik|AI426686|AI875170|CPR8|D9Ertd392e	cell cycle progression 1	protein-coding	18.0	24.0	22.0	208.5	20.5	10.5	4.5	12.5
Merged-chr16-65377317-3	chr16	65377218	65377418	+	644.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143311.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	8.0	6.0	8.0	88.0	23.5	13.0	5.0	6.5
Merged-chr2-52967122-4	chr2	52967021	52967221	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	109253.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	16.0	28.0	20.5	291.5	41.5	9.5	10.0	15.0
Merged-chr10-30654389-3	chr10	30654263	30654463	+	932.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001358841, exon 12 of 16)	exon (NM_001358841, exon 12 of 16)	1504.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	6.5	10.0	9.5	111.0	9.5	7.5	10.0	6.5
Merged-chr15-86194852-2	chr15	86194752	86194952	+	756.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-8711.0	NM_145475	223753.0	Mm.222685	NM_145475	ENSMUSG00000035891	Cerk	AI848610|D330016D08Rik|mKIAA1646	ceramide kinase	protein-coding	4.0	7.0	6.5	1.0	5.0	5.5	5.0	6.0
Merged-chr11-69052982-4	chr11	69052965	69053165	+	785.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3-int|LTR|ERVL-MaLR	-6710.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	3.0	2.5	4.5	26.0	16.0	5.0	14.0	9.5
Merged-chr1-161528339-4	chr1	161528245	161528445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33688.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	18.5	46.5	32.5	321.0	66.5	30.0	23.5	11.0
Merged-chr6-124505225-4	chr6	124505129	124505329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181344, intron 2 of 5)	L3|LINE|CR1	-7392.0	NM_023143	50909.0	Mm.333375	NM_023143	ENSMUSG00000055172	C1ra	AI132558|C1r|mC1rA	complement component 1, r subcomponent A	protein-coding	62.0	76.5	53.0	864.5	118.5	35.5	50.5	55.0
Merged-chr14-55784050-4	chr14	55783939	55784139	+	930.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361604)	promoter-TSS (NM_001361604)	33.0	NM_080435	104110.0	Mm.287010	NM_080435	ENSMUSG00000022220	Adcy4	mKIAA4004	adenylate cyclase 4	protein-coding	23.0	26.0	10.5	247.5	41.0	11.5	15.5	22.5
Merged-chr11-94149856-3	chr11	94149749	94149949	+	921.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	-61605.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	11.5	13.5	7.5	160.5	16.5	5.5	3.0	6.5
Merged-chr1-52909884-3	chr1	52909709	52909909	+	848.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146108, intron 11 of 13)	intron (NM_146108, intron 11 of 13)	43031.0	NM_144953	67080.0	Mm.236287	NM_144953	ENSMUSG00000043629	1700019D03Rik	2410136C24Rik|AA410151|smAKAP	RIKEN cDNA 1700019D03 gene	protein-coding	5.5	4.5	4.5	101.0	0.0	2.5	1.0	4.0
Merged-chr4-129809485-2	chr4	129809437	129809637	+	704.5	f0_c57.idr|f1_balb.idr	Intergenic	RSINE1|SINE|B4	-10942.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	2.0	1.0	1.5	6.5	13.0	7.5	8.0	12.0
Merged-chr16-35764207-4	chr16	35764123	35764323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	intron (NM_153550, intron 1 of 8)	5133.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	32.5	92.5	61.5	800.0	107.5	30.5	43.5	38.5
Merged-chr3-57732056-4	chr3	57731944	57732144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4013.0	NM_011883	24017.0	Mm.274360	NM_011883	ENSMUSG00000036503	Rnf13	2010001H16Rik|Rzf	ring finger protein 13	protein-coding	29.5	51.0	40.0	717.5	92.5	24.0	43.5	31.5
Merged-chr13-110563050-4	chr13	110562954	110563154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168010.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	14.0	30.5	7.5	58.5	68.5	26.5	8.0	11.0
Merged-chr16-35871438-4	chr16	35871305	35871505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039530)	promoter-TSS (NM_001039530)	-23.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	19.0	37.0	16.0	246.5	106.0	25.5	38.0	23.5
Merged-chr11-98741862-4	chr11	98741782	98741982	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313983)	promoter-TSS (NM_001313983)	97.0	NM_001313983	21833.0	Mm.265917	NM_178060	ENSMUSG00000058756	Thra	6430529J03Rik|AW259572|Erba|Nr1a1|Rvr|T3R[a]|T3Ralpha|Thra1|Thra2|c-erbA-1|c-erbA-alpha|c-erbAalpha	thyroid hormone receptor alpha	protein-coding	36.0	22.0	20.0	374.0	41.5	25.5	25.5	18.0
Merged-chr17-49384455-3	chr17	49384366	49384566	+	960.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43898.0	NM_028464	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	2.0	5.5	7.0	211.5	25.5	8.5	5.5	5.0
Merged-chr6-97509611-4	chr6	97509516	97509716	+	943.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-21796.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	15.0	18.0	21.5	136.0	72.5	9.5	30.5	17.0
Merged-chr6-83029936-3	chr6	83029852	83030052	+	788.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291799)	TTS (NM_001291799)	3519.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	8.0	10.5	8.5	96.5	6.5	2.5	0.5	0.5
Merged-chr11-3189119-7	chr11	3189013	3189213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 1 of 32)	intron (NM_030207, intron 1 of 32)	4350.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	34.0	37.0	25.0	377.5	102.5	37.0	19.0	58.5
Merged-chr10-8772637-4	chr10	8772543	8772743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	113427.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	54.0	59.5	85.5	985.0	80.0	35.5	42.0	54.5
Merged-chr9-40765128-3	chr9	40765045	40765245	+	990.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 2 of 6)	B2_Mm2|SINE|B2	-36128.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	9.0	7.5	3.5	40.5	62.5	24.0	18.5	16.0
Merged-chr1-118388898-4	chr1	118388794	118388994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359346)	promoter-TSS (NM_001359346)	-164.0	NM_001359329	76707.0	Mm.138740	NM_029709	ENSMUSG00000064302	Clasp1	1700030C23Rik|5730583A19Rik|B130045P17Rik|CLASP1alpha	CLIP associating protein 1	protein-coding	51.5	64.0	51.5	512.5	107.0	47.5	52.5	54.5
Merged-chr17-21579691-4	chr17	21579605	21579805	+	933.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357347, intron 4 of 6)	intron (NM_001357347, intron 4 of 6)	12727.0	NM_001357347	381066.0	Mm.441097	NM_001002008	ENSMUSG00000067931	Zfp948	-	zinc finger protein 948	protein-coding	21.5	12.5	14.0	240.0	30.0	8.5	26.0	22.0
Merged-chr4-116824747-4	chr4	116824626	116824826	+	749.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3218.0	NM_146256	242642.0	Mm.279897	NM_146256	ENSMUSG00000043155	Hpdl	A830048M07Rik|BC034099|Gloxd1	4-hydroxyphenylpyruvate dioxygenase-like	protein-coding	9.5	11.0	4.5	60.5	25.0	6.0	6.5	4.5
Merged-chr7-143769746-3	chr7	143769657	143769857	+	787.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2764.0	NM_203492	381974.0	Mm.297839	NM_203492	ENSMUSG00000050276	Mrgprg	Gm1098|Mrgg	MAS-related GPR, member G	protein-coding	6.5	12.0	14.5	232.0	15.0	12.0	5.5	8.0
Merged-chr10-34234206-3	chr10	34234089	34234289	+	875.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-26638.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	5.5	5.0	4.0	91.0	17.0	12.5	5.0	5.5
Merged-chr4-131922233-3	chr4	131922189	131922389	+	871.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001201367, exon 1 of 1)	exon (NM_001201367, exon 1 of 1)	518.0	NM_001201367	623230.0	Mm.421179	NM_001201367	ENSMUSG00000070720	Tmem200b	EG623230	transmembrane protein 200B	protein-coding	2.0	7.5	5.0	81.5	5.5	5.0	5.5	11.0
Merged-chr17-24162152-3	chr17	24162053	24162253	+	904.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172935, intron 3 of 10)	intron (NM_172935, intron 3 of 10)	1580.0	NM_172935	245847.0	Mm.87319	NM_172935	ENSMUSG00000036820	Amdhd2	5730457F11Rik	amidohydrolase domain containing 2	protein-coding	12.5	7.5	11.5	172.0	2.0	1.5	3.0	7.0
Merged-chr15-31572518-4	chr15	31572434	31572634	+	950.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181588, intron 1 of 5)	MTD|LTR|ERVL-MaLR	3701.0	NM_181588	69574.0	Mm.28108	NM_181588	ENSMUSG00000022235	Cmbl	2310016A09Rik	carboxymethylenebutenolidase-like (Pseudomonas)	protein-coding	11.5	30.5	19.5	388.5	41.5	14.0	21.0	17.5
Merged-chr6-97449938-4	chr6	97449818	97450018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	9368.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	130.5	229.5	161.0	1491.0	246.0	91.5	103.5	116.5
Merged-chr5-32754098-4	chr5	32753999	32754199	+	833.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177298, intron 3 of 7)	intron (NM_177298, intron 3 of 7)	-7757.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	12.0	8.5	12.5	113.5	32.5	8.5	15.0	17.0
Merged-chr14-26645664-3	chr14	26645567	26645767	+	677.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 1 of 5)	B1_Mus1|SINE|Alu	7533.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	16.5	15.5	7.0	47.0	29.5	11.0	1.0	7.5
Merged-chr17-29492937-4	chr17	29492834	29493034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008842, intron 4 of 5)	intron (NM_008842, intron 4 of 5)	1889.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	70.0	93.0	66.0	581.5	108.5	46.5	59.0	79.5
Merged-chr2-35289191-3	chr2	35289073	35289273	+	957.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206368, intron 3 of 16)	intron (NM_001206368, intron 3 of 16)	6793.0	NM_146120	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	5.5	16.0	7.0	125.0	16.5	12.5	6.5	10.0
Merged-chr9-66916605-4	chr9	66916492	66916692	+	820.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	AmnSINE1|SINE|Deu	3113.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	10.0	16.0	2.0	63.0	30.5	7.5	5.0	5.5
Merged-chr15-57692119-3	chr15	57692018	57692218	+	906.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2549.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	14.5	13.0	7.5	119.5	12.0	12.5	5.5	11.0
Merged-chr4-126163247-2	chr4	126163147	126163347	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162533)	promoter-TSS (NM_001162533)	94.0	NM_001162533	66938.0	Mm.29813	NM_025856	ENSMUSG00000073758	Sh3d21	1700029G01Rik|AU019788	SH3 domain containing 21	protein-coding	6.5	21.0	10.5	114.5	39.5	12.5	11.5	22.5
Merged-chr11-17013139-4	chr11	17013032	17013232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4414.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	16.5	31.5	25.0	287.5	57.5	6.5	39.0	20.0
Merged-chr7-128633372-4	chr7	128633270	128633470	+	967.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178641, intron 1 of 19)	intron (NM_178641, intron 1 of 19)	22005.0	NM_178641	101490.0	Mm.490344	NM_178641	ENSMUSG00000042105	Inpp5f	5830435P03Rik|AI115354|AW561896|SAC2|cI-27|hSAC2|mKIAA0966	inositol polyphosphate-5-phosphatase F	protein-coding	11.5	23.0	6.5	205.5	84.5	15.0	17.5	25.0
Merged-chr3-93556189-4	chr3	93556061	93556261	+	769.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009112, intron 1 of 2)	intron (NM_009112, intron 1 of 2)	1044.0	NM_009112	20194.0	Mm.1	NM_009112	ENSMUSG00000041959	S100a10	42C|AA409961|AL024248|CAL12|CLP11|Cal1l|p10|p11	S100 calcium binding protein A10 (calpactin)	protein-coding	6.0	10.5	11.5	163.0	35.5	8.0	9.0	6.0
Merged-chr1-180771934-4	chr1	180771847	180772047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41658.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	45.0	70.5	23.0	348.0	95.0	29.0	34.0	23.0
Merged-chr13-13393598-4	chr13	13393488	13393688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031999)	promoter-TSS (NM_031999)	36.0	NM_031999	83924.0	Mm.379269	NM_031999	ENSMUSG00000021306	Gpr137b	AI788917|AU016435|AW546472|C730041E01|C80550|C80741|D13Abb1e|Tm7sf1	G protein-coupled receptor 137B	protein-coding	43.0	69.0	62.0	559.5	114.5	38.5	75.0	60.0
Merged-chr5-147408986-2	chr5	147408901	147409101	+	786.766663	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8512.0	NM_010229	14255.0	Mm.194	NM_010229	ENSMUSG00000042817	Flt3	B230315G04|CD135|Flk-2|Flk2|Flt-3|Ly72|wmfl	FMS-like tyrosine kinase 3	protein-coding	2.5	2.0	0.0	0.0	16.5	4.5	8.0	5.0
Merged-chr5-8058267-3	chr5	8058173	8058373	+	861.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080974, intron 2 of 7)	intron (NM_001080974, intron 2 of 7)	1731.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	12.5	10.5	13.5	197.5	24.0	4.0	7.0	17.0
Merged-chr3-69182572-4	chr3	69182483	69182683	+	925.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39836.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	33.0	61.0	65.5	1621.5	26.0	7.5	14.0	20.0
Merged-chr10-57784848-4	chr10	57784745	57784945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021272)	promoter-TSS (NM_021272)	-78.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	123.0	163.5	201.5	1916.0	225.5	135.0	114.0	77.0
Merged-chr10-127312438-4	chr10	127312315	127312515	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171582)	promoter-TSS (NM_001171582)	-629.0	NM_001171582	216443.0	Mm.28173	NM_001003913	ENSMUSG00000040354	Mars	Metrs|Mtrns	methionine-tRNA synthetase	protein-coding	18.0	31.0	17.0	188.5	47.0	16.5	12.0	23.0
Merged-chr14-70100087-4	chr14	70099987	70100187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360404)	promoter-TSS (NM_001360404)	-6.0	NM_021328	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	58.0	102.0	44.0	764.0	165.5	55.5	60.5	53.0
Merged-chr5-130853531-4	chr5	130853451	130853651	+	999.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	404759.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	31.0	28.5	24.5	354.5	62.0	19.0	31.5	28.0
Merged-chr9-45464399-4	chr9	45464293	45464493	+	957.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	intron (NM_001081270, intron 3 of 32)	-33161.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	11.0	15.0	14.0	273.5	98.5	43.5	52.5	52.0
Merged-chr16-97431469-4	chr16	97431365	97431565	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019517, intron 8 of 8)	ID_B1|SINE|B4	31440.0	NM_010846	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	5.0	8.5	7.5	161.5	26.5	15.5	25.0	12.0
Merged-chr1-105992649-3	chr1	105992550	105992750	+	850.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	2244.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	6.0	9.5	10.0	63.5	4.0	4.0	13.0	3.0
Merged-chr15-77875014-4	chr15	77874905	77875105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32830.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	46.0	66.5	27.5	643.0	155.5	59.0	69.5	58.5
Merged-chr8-85013428-4	chr8	85013329	85013529	+	955.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_052011, exon 2 of 10)	non-coding (NR_052011, exon 2 of 10)	979.0	NM_001130194	212989.0	Mm.215154	NM_001130194	ENSMUSG00000052819	Best2	Vmd2l1	bestrophin 2	protein-coding	15.5	19.0	9.0	161.0	42.5	7.0	16.5	14.0
Merged-chr4-108519026-4	chr4	108518930	108519130	+	652.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175472, intron 15 of 30)	ORR1F|LTR|ERVL-MaLR	59604.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	14.0	12.0	6.0	74.0	22.5	1.5	11.5	14.5
Merged-chr8-106058756-4	chr8	106058621	106058821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010901)	promoter-TSS (NM_010901)	-882.0	NM_010901	18021.0	Mm.383185	NM_010901	ENSMUSG00000031902	Nfatc3	C80703|D8Ertd281e|NFAT4|NFATx	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3	protein-coding	47.0	82.5	16.5	174.5	91.0	40.0	31.5	31.5
Merged-chr2-30171632-4	chr2	30171592	30171792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007931, exon 1 of 3)	exon (NM_007931, exon 1 of 3)	168.0	NM_007931	13804.0	Mm.474473	NM_007931	ENSMUSG00000015337	Endog	-	endonuclease G	protein-coding	20.0	47.5	40.5	256.5	70.0	21.0	27.5	30.5
Merged-chr17-34031163-4	chr17	34031072	34031272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011306)	promoter-TSS (NM_011306)	518.0	NM_001077709	14977.0	Mm.18556	NM_008202	ENSMUSG00000024327	Slc39a7	AA408174|AI117660|AL024048|H-2Ke4|H2-Ke4|Ke-4|Ke4|Ring5|Zip7	solute carrier family 39 (zinc transporter), member 7	protein-coding	15.0	27.5	31.5	165.5	58.5	21.0	13.5	17.5
Merged-chr2-167742678-4	chr2	167742575	167742775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	51498.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	50.0	87.0	48.5	367.5	185.0	66.5	96.5	54.5
Merged-chr4-63401171-4	chr4	63401077	63401277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 1 of 21)	intron (NM_001045514, intron 1 of 21)	2268.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	75.5	87.5	65.0	864.5	146.5	44.5	60.0	59.0
Merged-chr8-70539468-4	chr8	70539361	70539561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007924)	promoter-TSS (NM_007924)	-214.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	274.0	385.5	270.5	3554.0	627.5	303.5	280.5	270.0
Merged-chr10-51433202-4	chr10	51433126	51433326	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47386.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	21.5	6.0	12.5	329.0	40.5	4.0	11.5	15.0
Merged-chr14-75066106-4	chr14	75066002	75066202	+	885.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	50075.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	16.5	14.5	15.5	227.5	45.5	10.5	12.5	21.5
Merged-chr13-8680646-4	chr13	8680548	8680748	+	816.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 4 of 10)	intron (NR_110345, intron 4 of 10)	190396.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	21.0	27.5	40.5	623.5	22.5	8.0	10.5	12.5
Merged-chr17-47630349-2	chr17	47630249	47630449	+	802.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198421)	promoter-TSS (NM_198421)	-341.0	NM_198421	224836.0	Mm.59393	NM_198421	ENSMUSG00000090115	Usp49	C330046L10Rik|Gm545	ubiquitin specific peptidase 49	protein-coding	4.5	15.5	5.0	30.5	17.0	6.0	2.0	2.5
Merged-chr9-65568876-4	chr9	65568763	65568963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 2 of 5)	MTD|LTR|ERVL-MaLR	11224.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	140.0	227.0	198.0	2073.0	380.0	136.5	158.5	158.0
Merged-chr1-135535488-4	chr1	135535373	135535573	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 2 of 28)	intron (NM_173437, intron 2 of 28)	49882.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	24.5	29.5	28.0	308.0	50.0	22.0	30.5	16.0
Merged-chr7-67371582-4	chr7	67371476	67371676	+	898.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 1 of 11)	intron (NM_001357324, intron 1 of 11)	1282.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	12.0	25.0	1.5	77.5	26.5	8.0	6.0	11.5
Merged-chr6-128411292-4	chr6	128411187	128411387	+	753.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133927, intron 10 of 11)	B3|SINE|B2	11521.0	NM_001162858	60345.0	Mm.269883	NM_021717	ENSMUSG00000001520	Nrip2	AW491344|NIX1	nuclear receptor interacting protein 2	protein-coding	11.5	4.5	3.0	85.5	27.0	8.5	12.0	15.5
Merged-chr15-62037936-4	chr15	62037824	62038024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003368)	promoter-TSS (NR_003368)	-62.0	NR_132747	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	43.5	55.0	48.0	702.0	149.5	50.5	41.5	65.5
Merged-chr2-150787445-4	chr2	150787344	150787544	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153781, intron 1 of 19)	intron (NM_153781, intron 1 of 19)	648.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	6.5	12.0	12.5	151.0	25.5	7.5	11.0	10.5
Merged-chr1-80659651-4	chr1	80659561	80659761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	5691.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	36.5	45.5	29.5	368.0	71.5	24.0	21.0	36.5
Merged-chr5-124052302-4	chr5	124052195	124052395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20035.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	125.0	214.5	114.5	1470.5	283.5	127.0	67.0	100.5
Merged-chr12-72536289-4	chr12	72536187	72536387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026327)	promoter-TSS (NM_026327)	-70.0	NM_026327	67708.0	Mm.11233	NM_026327	ENSMUSG00000034501	Pcnx4	1810048J11Rik|4932413O10|AU017192|Pcnxl4	pecanex homolog 4	protein-coding	312.5	428.5	373.5	5917.5	663.5	267.0	409.0	320.0
Merged-chr8-75031571-4	chr8	75031458	75031658	+	912.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001316753, exon 12 of 12)	3' UTR (NM_001316753, exon 12 of 12)	-2128.0	NM_001136259	21968.0	Mm.1967	NM_011622	ENSMUSG00000042870	Tom1	-	target of myb1 trafficking protein	protein-coding	12.0	23.0	27.0	387.0	32.0	8.5	11.5	12.5
Merged-chr4-138207094-4	chr4	138207006	138207206	+	904.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172703)	TTS (NM_172703)	-9506.0	NM_001122896	15441.0	Mm.348429	NM_010470	ENSMUSG00000028759	Hp1bp3	Hp1bp74	heterochromatin protein 1, binding protein 3	protein-coding	52.5	69.0	34.0	536.5	32.0	5.0	13.0	9.0
Merged-chr8-72420977-4	chr8	72420872	72421072	+	939.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122832, intron 1 of 15)	CpG	502.0	NM_001122832	13859.0	Mm.288894	NM_007944	ENSMUSG00000006276	Eps15l1	9830147J04Rik|AI593686|Eps15-rs|Eps15R	epidermal growth factor receptor pathway substrate 15-like 1	protein-coding	21.0	31.0	23.0	164.5	44.5	11.0	17.0	16.0
Merged-chr5-53809632-4	chr5	53809532	53809732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144517)	promoter-TSS (NM_144517)	5.0	NM_144517	67249.0	Mm.28823	NM_144517	ENSMUSG00000039178	Tbc1d19	2810453K03Rik	TBC1 domain family, member 19	protein-coding	27.0	35.5	27.5	496.5	74.0	33.0	57.0	33.0
Merged-chr15-34356831-3	chr15	34356728	34356928	+	866.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256161, intron 1 of 3)	hAT-N1_Mam|DNA|hAT?	1044.0	NM_001256161	77358.0	Mm.402759	NM_001256161	ENSMUSG00000094447	9430069I07Rik	-	RIKEN cDNA 9430069I07 gene	protein-coding	5.0	11.5	15.0	183.5	8.5	2.0	6.0	4.0
Merged-chr3-127077587-2	chr3	127077482	127077682	+	744.333374	f0_c57.idr|f1_c57bl6.idr	exon (NM_001327939, exon 5 of 46)	exon (NM_001327939, exon 5 of 46)	-79130.0	NM_178655	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	2.0	0.0	0.0	0.0	39.5	16.0	15.5	12.5
Merged-chr12-36215300-1	chr12	36215200	36215400	+	846.0	f0_balb.idr	intron (NM_001361098, intron 5 of 8)	intron (NM_001361098, intron 5 of 8)	2918.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	6.5	3.0	8.5	150.0	11.0	6.0	9.0	12.5
Merged-chr9-75049296-4	chr9	75049209	75049409	+	882.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357880, intron 2 of 3)	intron (NM_001357880, intron 2 of 3)	11577.0	NM_021548	59046.0	Mm.247837	NM_021548	ENSMUSG00000007656	Arpp19	19kDa|2700024H10Rik|ARPP-19|AW559096|Arpp12	cAMP-regulated phosphoprotein 19	protein-coding	14.0	8.5	17.0	171.0	23.5	9.0	15.0	6.5
Merged-chr2-153694639-1	chr2	153694539	153694739	+	673.0	f1_balb.idr	Intergenic	Intergenic	45190.0	NM_001271747	13436.0	Mm.89772	NM_010068	ENSMUSG00000027478	Dnmt3b	MmuIIIB	DNA methyltransferase 3B	protein-coding	5.5	4.5	1.0	26.0	5.0	4.5	5.0	8.0
Merged-chr7-128321361-4	chr7	128321259	128321459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23228.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	81.5	135.0	83.0	763.0	267.5	108.0	120.5	66.5
Merged-chr5-43879579-4	chr5	43879446	43879646	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	RSINE1|SINE|B4	10737.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	23.5	15.5	18.5	175.0	51.5	21.0	25.5	19.5
Merged-chr8-14873197-4	chr8	14873104	14873304	+	917.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15332.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	19.0	14.0	17.0	532.0	56.5	12.0	27.5	19.0
Merged-chr5-99244331-3	chr5	99244207	99244407	+	962.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 1 of 13)	B1_Mur3|SINE|Alu	8620.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	3.5	9.0	1.5	62.5	15.0	17.5	6.0	5.0
Merged-chr17-17906130-3	chr17	17906032	17906232	+	664.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18308.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	4.0	3.0	3.0	77.5	22.0	16.0	5.5	12.0
Merged-chr11-94386496-4	chr11	94386397	94386597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 1 of 30)	intron (NM_029600, intron 1 of 30)	6479.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	231.5	304.0	258.5	3150.5	435.0	163.5	217.0	190.5
Merged-chr11-86956608-4	chr11	86956505	86956705	+	868.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005341, intron 2 of 4)	intron (NM_001005341, intron 2 of 4)	37157.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	9.0	11.5	11.5	192.0	25.5	11.5	13.0	25.5
Merged-chr6-84026318-4	chr6	84026179	84026379	+	833.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	intron (NM_001310152, intron 1 of 53)	6893.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	8.0	13.5	1.5	124.5	16.5	7.0	5.0	9.5
Merged-chr17-75551967-4	chr17	75551872	75552072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133747)	promoter-TSS (NM_133747)	-26.0	NM_001357860	72722.0	Mm.24641	NM_133747	ENSMUSG00000002017	Fam98a	2810405J04Rik|AL024114	family with sequence similarity 98, member A	protein-coding	277.5	462.5	330.0	3733.0	818.5	320.0	326.0	274.5
Merged-chr2-131436343-4	chr2	131436254	131436454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-55508.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	66.5	122.5	40.0	584.5	206.5	91.0	58.5	51.0
Merged-chr3-144698589-3	chr3	144698482	144698682	+	962.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019464, intron 5 of 8)	intron (NM_019464, intron 5 of 8)	21753.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	15.5	14.0	11.5	196.5	30.5	7.0	13.5	16.0
Merged-chr11-19019010-4	chr11	19018914	19019114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001193271)	promoter-TSS (NM_001193271)	-45.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	122.0	134.0	74.5	1339.0	316.5	70.5	126.5	90.0
Merged-chr3-95301534-3	chr3	95301433	95301633	+	733.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085383, intron 6 of 12)	intron (NM_001085383, intron 6 of 12)	5271.0	NM_001085383	71790.0	Mm.218844	NM_023628	ENSMUSG00000015702	Anxa9	1110003P15Rik|2310069F17Rik	annexin A9	protein-coding	12.0	13.5	8.0	134.5	33.5	8.5	6.0	9.0
Merged-chr15-67124918-4	chr15	67124820	67125020	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 3 of 8)	MIRc|SINE|MIR	51962.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	60.5	75.5	59.0	820.0	14.0	11.5	20.0	8.0
Merged-chr17-80291387-4	chr17	80291309	80291509	+	832.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163759)	promoter-TSS (NM_001163759)	-933.0	NM_001163759	106794.0	Mm.12412	NM_198942	ENSMUSG00000035051	Dhx57	AW494914	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	protein-coding	11.0	12.0	6.0	139.5	14.5	8.5	5.0	10.0
Merged-chr6-97299526-3	chr6	97299417	97299617	+	947.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 20 of 23)	ORR1F|LTR|ERVL-MaLR	-46737.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	0.0	2.5	2.0	103.5	50.5	26.5	16.0	7.5
Merged-chr15-59622824-3	chr15	59622723	59622923	+	688.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25831.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	6.0	8.0	6.0	65.5	20.0	3.5	5.5	7.0
Merged-chr2-148876141-2	chr2	148876041	148876241	+	821.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009976)	promoter-TSS (NM_009976)	-629.0	NM_009976	13010.0	Mm.4263	NM_009976	ENSMUSG00000027447	Cst3	CysC	cystatin C	protein-coding	5.0	8.5	4.0	118.0	29.0	15.5	10.5	16.5
Merged-chr14-19715117-5	chr14	19715021	19715221	+	723.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36136.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	7.0	7.0	7.5	89.5	9.5	5.0	2.0	2.5
Merged-chr15-27941240-4	chr15	27941133	27941333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	intron (NM_001081302, intron 1 of 56)	84615.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	103.5	143.0	114.0	1806.5	334.0	128.5	131.0	124.5
Merged-chr13-41029497-4	chr13	41029393	41029593	+	917.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145802, intron 11 of 11)	intron (NM_001145802, intron 11 of 11)	13243.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	12.5	15.0	6.0	251.5	41.5	9.5	7.5	11.5
Merged-chr4-133574784-4	chr4	133574715	133574915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172876)	promoter-TSS (NM_172876)	70.0	NM_172876	242691.0	Mm.40110	NM_172876	ENSMUSG00000028850	Gpatch3	D930035B09Rik|Gpatc3	G patch domain containing 3	protein-coding	30.5	40.0	24.0	356.0	74.0	25.5	23.5	27.0
Merged-chr9-25570522-4	chr9	25570423	25570623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 3 of 7)	intron (NM_026189, intron 3 of 7)	88926.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	219.5	298.5	203.5	3235.5	353.5	112.0	183.5	174.5
Merged-chr13-46043165-3	chr13	46043098	46043298	+	957.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	UCON26|Unknown|Unknown	-78207.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	16.0	19.5	19.0	86.5	13.5	12.5	9.0	13.0
Merged-chr14-60251495-4	chr14	60251404	60251604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170591)	promoter-TSS (NM_170591)	-25.0	NM_001362439	71844.0	Mm.258051	NM_170591	ENSMUSG00000114797	Nupl1	1700017F11Rik|Nup58|mKIAA0410	nucleoporin like 1	protein-coding	229.5	444.0	227.0	3381.5	644.5	237.0	300.5	199.5
Merged-chr6-120908334-3	chr6	120908228	120908428	+	944.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007544, intron 1 of 5)	BGLII|LTR|ERVK	8496.0	NM_007544	12122.0	Mm.235081	NM_007544	ENSMUSG00000004446	Bid	2700049M22Rik|AI875481|AU022477	BH3 interacting domain death agonist	protein-coding	8.0	9.0	15.0	67.5	49.0	11.5	17.5	26.5
Merged-chr7-49047340-6	chr7	49047230	49047430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	88257.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	26.0	9.5	52.5	511.5	43.5	15.5	20.5	34.0
Merged-chr2-91082300-5	chr2	91082174	91082374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11959.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	21.0	49.0	38.0	359.0	59.0	20.0	24.5	21.0
Merged-chr9-114851996-3	chr9	114851897	114852097	+	923.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7845.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	7.5	9.0	15.5	256.0	6.0	3.0	4.5	3.0
Merged-chr7-81829552-4	chr7	81829442	81829642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146193)	promoter-TSS (NM_146193)	-111.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	94.0	157.0	82.5	1235.5	137.5	66.5	87.5	72.5
Merged-chr13-107022503-4	chr13	107022399	107022599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145779)	promoter-TSS (NM_001145779)	-71.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	99.5	113.5	63.5	942.0	246.5	87.5	123.5	52.0
Merged-chr5-41337173-2	chr5	41337075	41337275	+	738.5	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	370516.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	0.0	0.0	0.0	26.5	37.0	6.5	8.0	14.5
Merged-chr7-44887134-4	chr7	44887039	44887239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331206, intron 3 of 16)	intron (NM_001331206, intron 3 of 16)	5285.0	NM_001331208	75613.0	Mm.157778	NM_029365	ENSMUSG00000002968	Med25	2610034E13Rik|2610529E18Rik|ESTM2	mediator complex subunit 25	protein-coding	52.5	69.5	61.5	685.0	105.0	31.5	52.0	48.0
Merged-chr12-17710318-3	chr12	17710319	17710519	+	752.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	19610.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	0.5	1.5	0.0	7.0	22.5	6.0	5.0	6.5
Merged-chr2-154613440-4	chr2	154613347	154613547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199304)	promoter-TSS (NM_199304)	79.0	NM_199304	228807.0	Mm.103555	NM_199304	ENSMUSG00000059842	Zfp341	Znf341	zinc finger protein 341	protein-coding	70.5	132.0	52.5	858.5	187.0	90.0	121.5	77.5
Merged-chr10-78465734-4	chr10	78465634	78465834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172134)	promoter-TSS (NM_172134)	-786.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	68.0	80.0	81.0	1243.5	180.5	44.0	73.0	78.0
Merged-chr9-71189238-4	chr9	71189143	71189343	+	866.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110517, intron 5 of 5)	intron (NR_110517, intron 5 of 5)	20467.0	NR_110517	102635087.0	Mm.444536	NR_110517	ENSMUSG00000111429	Gm32511	-	predicted gene, 32511	ncRNA	10.0	19.5	9.0	89.5	32.5	13.5	14.5	14.5
Merged-chr15-3270649-4	chr15	3270544	3270744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009155)	promoter-TSS (NM_009155)	-123.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	121.5	176.5	165.0	1885.5	281.5	91.0	112.5	113.5
Merged-chr17-34898434-5	chr17	34898321	34898521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286573)	promoter-TSS (NM_001286573)	-71.0	NM_001286575	110147.0	Mm.35345	NM_145830	ENSMUSG00000013787	Ehmt2	Bat8|D17Ertd710e|G9a|KMT1C|NG36	euchromatic histone lysine N-methyltransferase 2	protein-coding	16.5	34.0	19.5	231.5	55.0	22.0	19.0	25.0
Merged-chr7-110164272-4	chr7	110164185	110164385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42226.0	NM_009516	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	116.5	183.5	64.0	1289.0	306.0	121.5	92.0	128.0
Merged-chr13-52239802-2	chr13	52239702	52239902	+	833.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	143061.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	10.0	2.5	2.5	60.5	7.0	7.0	4.5	10.0
Merged-chr3-132154449-3	chr3	132154356	132154556	+	970.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	intron (NM_020265, intron 1 of 3)	69164.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	5.5	8.0	10.0	263.0	30.5	5.5	14.0	16.0
Merged-chr10-67297711-4	chr10	67297601	67297801	+	831.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12420.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	14.5	24.0	17.5	283.0	30.0	5.0	12.5	11.5
Merged-chr2-10048094-4	chr2	10048018	10048218	+	823.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027748, intron 1 of 6)	CpG	491.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	15.0	12.0	13.0	223.0	30.5	14.0	15.5	15.5
Merged-chr2-142858636-2	chr2	142858536	142858736	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 3 of 26)	intron (NM_001355123, intron 3 of 26)	42828.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	3.0	8.0	6.0	273.0	7.5	4.5	6.5	8.0
Merged-chr13-9430133-3	chr13	9430010	9430210	+	723.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	153585.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	6.0	9.5	8.0	73.5	6.0	2.0	2.0	10.0
Merged-chr7-29488985-4	chr7	29488890	29489090	+	709.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081028, intron 2 of 22)	Charlie2a|DNA|hAT-Charlie	16470.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	5.5	21.0	15.0	94.5	21.5	12.0	12.0	10.0
Merged-chr8-126692420-3	chr8	126692349	126692549	+	966.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99013.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	14.5	4.5	13.0	158.5	18.5	4.5	7.0	5.5
Merged-chr10-11281014-6	chr10	11281068	11281268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027968)	promoter-TSS (NM_027968)	-162.0	NM_027968	71865.0	Mm.276229	NM_027968	ENSMUSG00000047648	Fbxo30	1700026A16Rik|MUSA1	F-box protein 30	protein-coding	115.0	226.0	225.5	2101.0	309.5	118.0	151.0	124.0
Merged-chr9-109017332-4	chr9	109017230	109017430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 9 of 13)	intron (NR_153430, intron 9 of 13)	-21237.0	NM_001284332	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	43.0	119.5	45.5	575.0	98.0	29.5	54.5	42.0
Merged-chr2-18676719-4	chr2	18676646	18676846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007552)	promoter-TSS (NM_007552)	-272.0	NM_007552	12151.0	Mm.289584	NM_007552	ENSMUSG00000026739	Bmi1	AW546694|Bmi-1|Pcgf4	Bmi1 polycomb ring finger oncogene	protein-coding	52.0	106.5	70.5	673.0	127.0	44.0	44.0	37.0
Merged-chr17-10841018-4	chr17	10840911	10841111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027032)	promoter-TSS (NM_027032)	652.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	21.0	37.0	29.0	469.0	80.0	27.0	56.5	35.5
Merged-chr9-107554579-4	chr9	107554481	107554681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019713)	promoter-TSS (NM_019713)	-2.0	NM_019713	56289.0	Mm.12091	NM_019713	ENSMUSG00000010067	Rassf1	123F2|AA536941|AU044980|NORE2A|RDA32|REH3P21|Rassf1A|Rassf1B|Rassf1C	Ras association (RalGDS/AF-6) domain family member 1	protein-coding	208.5	328.0	231.5	2313.0	584.5	240.5	219.5	246.5
Merged-chr6-82044665-3	chr6	82044556	82044756	+	997.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145570, intron 1 of 2)	intron (NM_145570, intron 1 of 2)	3028.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	26.0	31.0	38.0	847.0	5.5	4.0	1.5	2.0
Merged-chr10-68465061-4	chr10	68464950	68465150	+	951.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 5 of 7)	intron (NM_028491, intron 5 of 7)	76825.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	12.0	31.0	28.5	431.0	67.0	16.0	18.0	15.5
Merged-chr8-13287519-4	chr8	13287463	13287663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172282)	promoter-TSS (NM_172282)	-450.0	NM_172282	234076.0	Mm.219813	NM_172282	ENSMUSG00000038497	Tmco3	B230339H12Rik|C87304	transmembrane and coiled-coil domains 3	protein-coding	132.0	216.0	101.5	2168.5	337.5	132.5	182.0	117.0
Merged-chr11-51638090-4	chr11	51637993	51638193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2197.0	NM_025346	66089.0	Mm.288183	NM_025346	ENSMUSG00000001054	Rmnd5b	0610039K22Rik|Gid2	required for meiotic nuclear division 5 homolog B	protein-coding	53.0	69.5	46.5	883.5	88.0	23.5	42.0	31.0
Merged-chr13-4756577-4	chr13	4756480	4756680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-147416.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	69.0	85.5	66.5	1042.5	167.5	61.0	64.5	69.5
Merged-chr9-87098247-3	chr9	87098148	87098348	+	619.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46058.0	NM_001177731	244958.0	Mm.335337	NM_001101482	ENSMUSG00000042761	Mrap2	BB633055	melanocortin 2 receptor accessory protein 2	protein-coding	6.0	9.0	10.0	107.5	18.0	2.0	10.0	6.5
Merged-chr13-44731205-4	chr13	44731112	44731312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360281)	promoter-TSS (NM_001360281)	-59.0	NM_001360281	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	35.5	79.5	27.5	365.0	123.5	49.5	41.5	37.0
Merged-chr5-53401261-4	chr5	53401148	53401348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134142.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	76.5	74.5	56.0	828.0	166.0	54.5	78.0	71.0
Merged-chr15-96757650-3	chr15	96757547	96757747	+	985.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57919.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	22.5	25.5	13.0	236.5	11.0	3.5	6.0	11.0
Merged-chr3-146158204-4	chr3	146158104	146158304	+	993.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	intron (NM_001005846, intron 1 of 13)	8030.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	20.5	21.0	20.0	280.0	57.5	20.0	24.0	20.0
Merged-chr16-4913858-4	chr16	4913737	4913937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 5 of 17)	B3|SINE|B2	-25274.0	NM_001316715	66911.0	Mm.428698	NM_025839	ENSMUSG00000022516	Nudt16l1	1110001K21Rik|5330437I08Rik|Sdos	nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1	protein-coding	64.5	74.0	31.0	765.0	124.0	57.5	51.5	48.5
Merged-chr17-50471419-4	chr17	50471317	50471517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38130.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	34.5	67.5	33.5	517.0	126.5	35.0	57.0	25.0
Merged-chr4-88409473-4	chr4	88409363	88409563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 43 of 43)	intron (NM_001081184, intron 43 of 43)	29463.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	32.5	81.5	23.5	883.0	67.5	9.0	50.5	61.5
Merged-chr2-103073607-4	chr2	103073523	103073723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019735)	promoter-TSS (NM_019735)	-52.0	NM_001355474	56369.0	Mm.24772	NM_019735	ENSMUSG00000010911	Apip	APIP2|CGI-29|Mmrp19	APAF1 interacting protein	protein-coding	272.0	365.0	233.5	3883.5	593.0	245.5	293.0	296.0
Merged-chr1-64308212-3	chr1	64308074	64308274	+	896.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186785.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	6.0	9.0	7.0	212.5	18.0	7.5	8.5	20.5
Merged-chr9-51076040-3	chr9	51075955	51076155	+	738.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033534, intron 2 of 7)	intron (NM_001033534, intron 2 of 7)	1039.0	NM_001033534	244864.0	Mm.335152	NM_001033534	ENSMUSG00000060594	Layn	E030012M19Rik|Gm511	layilin	protein-coding	5.5	13.5	4.5	111.5	5.5	3.0	1.0	6.5
Merged-chr17-71483959-3	chr17	71483858	71484058	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-8615.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	1.0	1.0	3.0	23.0	322.5	124.0	162.5	109.0
Merged-chr15-63601664-4	chr15	63601534	63601734	+	684.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122026.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	7.5	5.0	6.5	93.0	10.5	9.5	8.0	6.5
Merged-chr4-108459879-4	chr4	108459774	108459974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175472, intron 1 of 30)	CpG	448.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	22.5	25.0	34.5	316.5	97.5	40.5	39.5	45.5
Merged-chr15-82147774-4	chr15	82147659	82147859	+	919.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033218, intron 1 of 18)	CpG	490.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	10.0	20.0	14.5	115.0	52.0	17.0	17.5	13.5
Merged-chr11-32671662-4	chr11	32671579	32671779	+	851.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	29124.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	12.0	5.0	7.5	201.0	29.5	5.0	14.5	12.0
Merged-chr19-44931570-4	chr19	44931444	44931644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172638, intron 1 of 19)	CpG	425.0	NM_001081225	226151.0	Mm.212609	NM_172638	ENSMUSG00000036097	Slf2	3632432H19|Fam178a	SMC5-SMC6 complex localization factor 2	protein-coding	25.0	36.5	25.0	500.5	89.0	26.0	25.5	36.5
Merged-chr17-35168960-4	chr17	35168859	35169059	+	820.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4082.0	NM_020027	53761.0	Mm.272462	NM_020027	ENSMUSG00000024393	Prrc2a	3110039B05Rik|Bat-2|Bat2|D17H6S51E|G2|Wbp12|mKIAA4178	proline-rich coiled-coil 2A	protein-coding	4.0	10.5	7.5	116.5	23.0	12.0	10.5	15.0
Merged-chr9-111577651-4	chr9	111577544	111577744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016853, intron 8 of 10)	intron (NM_016853, intron 8 of 10)	112704.0	NM_016853	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	24.5	45.0	24.0	208.0	88.5	19.5	37.0	22.5
Merged-chr9-32159401-3	chr9	32159325	32159525	+	911.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 4 of 21)	intron (NM_001195632, intron 4 of 21)	43289.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	11.0	15.5	21.5	277.5	13.0	3.0	4.0	2.5
Merged-chr5-105662874-3	chr5	105662833	105663033	+	843.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-37036.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	6.5	15.0	10.5	200.5	2.5	0.0	1.0	5.0
Merged-chr10-30797095-3	chr10	30797015	30797215	+	998.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	MTB_Mm|LTR|ERVL-MaLR	6211.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	12.5	17.5	13.0	169.5	9.0	3.0	10.0	6.5
Merged-chr11-117177476-4	chr11	117177380	117177580	+	939.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22181.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	15.5	27.0	18.0	156.5	49.0	9.0	18.0	18.0
Merged-chr9-56101240-4	chr9	56101119	56101319	+	870.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	intron (NM_011193, intron 1 of 14)	11243.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	13.0	19.0	17.5	208.0	33.0	18.0	15.5	13.5
Merged-chr2-127323155-4	chr2	127323057	127323257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13002.0	NM_010090	13537.0	Mm.4729	NM_010090	ENSMUSG00000027368	Dusp2	PAC1	dual specificity phosphatase 2	protein-coding	23.5	59.5	42.5	285.5	171.0	61.5	61.0	42.0
Merged-chr19-12585476-4	chr19	12585379	12585579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015503)	TTS (NR_015503)	11087.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	88.0	83.5	71.5	913.5	132.5	79.0	58.5	70.5
Merged-chr12-102705267-4	chr12	102705191	102705391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172584)	promoter-TSS (NM_172584)	-422.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	58.5	85.5	70.5	678.5	120.5	60.5	55.0	53.0
Merged-chr5-120613004-4	chr5	120612903	120613103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028041)	promoter-TSS (NM_028041)	-127.0	NM_028041	71990.0	Mm.24495	NM_028041	ENSMUSG00000029599	Ddx54	2410015A15Rik|AI414901|DP97	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	protein-coding	367.0	581.0	271.0	3752.5	780.5	338.5	302.5	249.5
Merged-chr10-53893237-4	chr10	53893134	53893334	+	978.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-142325.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	27.5	35.0	10.0	458.5	36.5	20.0	23.5	5.5
Merged-chr18-58134023-4	chr18	58133906	58134106	+	831.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010181, intron 7 of 64)	L1MB8|LINE|L1	75920.0	NM_010181	14119.0	Mm.20271	NM_010181	ENSMUSG00000024598	Fbn2	BC063774|Fib-2|mKIAA4226|sne|sy	fibrillin 2	protein-coding	15.0	9.0	5.0	210.5	29.0	8.0	13.5	9.5
Merged-chr18-39196743-4	chr18	39196627	39196827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 11 of 21)	intron (NM_001361073, intron 11 of 21)	203582.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	59.5	76.5	31.0	838.0	128.0	61.5	66.0	37.5
Merged-chr13-81136173-4	chr13	81136068	81136268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	172094.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	17.0	37.5	26.5	339.5	55.5	28.5	21.0	26.5
Merged-chr2-119898489-4	chr2	119898390	119898590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013720, intron 1 of 23)	intron (NM_013720, intron 1 of 23)	1262.0	NM_013720	29808.0	Mm.87532	NM_013720	ENSMUSG00000033943	Mga	AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5	MAX gene associated	protein-coding	59.5	69.5	24.0	475.5	132.5	76.0	60.0	54.0
Merged-chr8-79498829-4	chr8	79498732	79498932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99364.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	152.0	234.0	212.5	3455.5	335.0	141.5	211.5	163.5
Merged-chr11-54438580-4	chr11	54438456	54438656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173753, intron 1 of 17)	CpG	377.0	NM_173753	216742.0	Mm.34087	NM_173753	ENSMUSG00000035992	Fnip1	A730024A03Rik|AI838773|AW557298	folliculin interacting protein 1	protein-coding	24.5	25.5	13.5	238.5	47.5	14.0	42.0	21.5
Merged-chr7-98086225-4	chr7	98086125	98086325	+	817.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 15 of 48)	intron (NM_008663, intron 15 of 48)	23023.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	15.5	6.5	5.0	124.5	26.0	9.5	22.0	14.5
Merged-chr16-57216213-4	chr16	57216136	57216336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 2 of 17)	intron (NM_026254, intron 2 of 17)	-14765.0	NM_001358434	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	109.0	153.5	85.0	1924.5	239.0	88.0	115.5	90.0
Merged-chr12-119157904-4	chr12	119157810	119158010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80366.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	78.5	115.0	82.5	1064.5	233.5	89.0	133.5	90.0
Merged-chr17-6967836-4	chr17	6967747	6967947	+	995.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6691.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	55.0	95.5	86.5	891.5	47.5	14.0	24.0	24.0
Merged-chr8-13154337-3	chr8	13154235	13154435	+	863.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-4826.0	NM_001317353	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	4.5	12.0	14.5	89.5	16.5	10.0	7.5	8.5
Merged-chr12-110777252-3	chr12	110777162	110777362	+	641.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	B3|SINE|B2	39330.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	8.0	12.0	5.5	125.5	17.5	2.0	4.0	3.5
Merged-chr14-54781196-4	chr14	54781113	54781313	+	914.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016972, exon 1 of 11)	exon (NM_016972, exon 1 of 11)	673.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	12.5	15.5	21.0	125.5	26.0	19.0	25.0	17.0
Merged-chr4-43469621-4	chr4	43469509	43469709	+	840.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	14100.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	10.0	12.0	16.0	81.0	31.0	4.5	20.5	10.5
Merged-chr1-180974580-4	chr1	180974475	180974675	+	920.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_144794, exon 23 of 23)	3' UTR (NM_144794, exon 23 of 23)	32057.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	24.0	16.5	3.5	195.5	52.0	15.0	10.5	19.5
Merged-chr19-38010631-3	chr19	38010548	38010748	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 3 of 53)	intron (NM_001302140, intron 3 of 53)	32929.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	35.5	30.0	47.5	911.0	16.0	2.5	6.0	10.0
Merged-chr14-50785524-4	chr14	50785403	50785603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177625)	promoter-TSS (NM_177625)	17.0	NM_177625	219022.0	Mm.276362	NM_177625	ENSMUSG00000006288	Ttc5	-	tetratricopeptide repeat domain 5	protein-coding	68.5	86.5	49.5	703.5	169.0	54.0	67.0	39.0
Merged-chr13-55432509-4	chr13	55432389	55432589	+	990.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-5685.0	NM_021489	58992.0	Mm.42224	NM_021489	ENSMUSG00000021492	F12	FXII|HAF	coagulation factor XII (Hageman factor)	protein-coding	26.0	27.5	15.0	198.0	50.0	23.0	24.5	18.0
Merged-chr1-95646231-3	chr1	95646111	95646311	+	962.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 3 of 3)	intron (NM_001159745, intron 3 of 3)	21383.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	14.5	11.0	20.0	400.0	24.0	8.0	4.0	9.0
Merged-chr12-84969141-3	chr12	84969065	84969265	+	960.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178065, intron 1 of 19)	intron (NM_178065, intron 1 of 19)	1721.0	NM_178065	68497.0	Mm.24446	NM_178065	ENSMUSG00000042350	Arel1	1110018G07Rik|AI649076|AW610792|Kiaa0317|mKIAA0317	apoptosis resistant E3 ubiquitin protein ligase 1	protein-coding	17.0	18.5	5.5	88.5	10.5	4.0	4.5	8.0
Merged-chr2-117390350-4	chr2	117390247	117390447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47470.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	51.5	77.0	45.0	333.5	151.0	75.5	59.0	31.0
Merged-chr5-30973875-4	chr5	30973771	30973971	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_053085, exon 3 of 3)	3' UTR (NM_053085, exon 3 of 3)	5194.0	NM_053085	69852.0	Mm.57874	NM_053085	ENSMUSG00000006642	Tcf23	2010002O16Rik|Out|bHLHa24	transcription factor 23	protein-coding	11.0	15.0	18.0	206.5	72.5	20.0	48.5	37.5
Merged-chr3-9696765-4	chr3	9696635	9696835	+	848.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 6 of 7)	intron (NM_053182, intron 6 of 7)	-86650.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	11.5	10.0	15.0	276.0	17.0	9.0	8.5	15.5
Merged-chr13-5785670-4	chr13	5785552	5785752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR40a|LTR|ERVL	72440.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	112.5	173.5	61.5	1250.5	240.0	91.5	77.5	61.5
Merged-chr10-130228479-3	chr10	130228379	130228579	+	958.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17351.0	NM_146300	258297.0	Mm.377419	NM_146300	ENSMUSG00000045559	Olfr827	MOR210-5	olfactory receptor 827	protein-coding	8.0	15.0	12.5	214.5	16.0	4.5	12.5	7.5
Merged-chr3-87987065-4	chr3	87986968	87987168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007529)	TTS (NM_007529)	13288.0	NM_007529	12032.0	Mm.4598	NM_007529	ENSMUSG00000004892	Bcan	Cspg7	brevican	protein-coding	35.5	51.5	19.0	383.5	94.0	40.0	42.5	38.0
Merged-chr1-138158591-4	chr1	138158522	138158722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	16504.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	65.5	161.5	86.5	826.5	148.5	69.5	51.5	30.5
Merged-chr19-60588865-1	chr19	60588765	60588965	+	939.5	f0_c57.idr	Intergenic	RLTR45|LTR|ERVK	-7842.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	0.0	2.0	2.0	17.0	45.5	14.5	21.5	22.5
Merged-chr9-107696296-4	chr9	107696229	107696429	+	823.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011349, intron 2 of 17)	intron (NM_011349, intron 2 of 17)	9262.0	NM_001311151	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	5.0	5.0	4.0	136.0	14.0	6.5	10.0	14.0
Merged-chr15-57906004-4	chr15	57905894	57906094	+	703.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6205.0	NM_001081396	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	3.5	16.5	6.0	121.0	8.5	8.0	10.5	14.5
Merged-chr19-29488240-4	chr19	29488170	29488370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33717.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	55.0	79.0	86.0	728.0	152.5	61.0	55.5	63.5
Merged-chr4-130284037-4	chr4	130283942	130284142	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-8456.0	NM_172702	230779.0	Mm.45132	NM_172702	ENSMUSG00000023232	Serinc2	2310004K20Rik|AW121759|FKSG84|TDE2|Tde2l	serine incorporator 2	protein-coding	10.0	30.0	18.5	132.5	51.0	23.5	22.5	19.5
Merged-chr19-61151851-3	chr19	61151744	61151944	+	687.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11004.0	NR_131954	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	5.0	3.5	3.5	7.0	17.5	7.5	12.0	9.0
Merged-chr7-45238111-4	chr7	45238019	45238219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007645, intron 2 of 7)	intron (NM_007645, intron 2 of 7)	720.0	NM_007645	12493.0	Mm.3689	NM_007645	ENSMUSG00000030798	Cd37	Tspan26	CD37 antigen	protein-coding	54.0	64.0	75.0	975.5	75.5	26.5	35.0	41.5
Merged-chr7-98531782-3	chr7	98531664	98531864	+	953.2000119999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	37542.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	10.5	39.5	10.5	59.5	66.5	18.0	18.5	12.5
Merged-chr18-73800057-3	chr18	73799965	73800165	+	776.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145494, intron 3 of 15)	intron (NM_145494, intron 3 of 15)	15327.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	18.0	18.0	14.5	437.0	3.5	1.5	3.5	2.5
Merged-chr14-72708842-4	chr14	72708733	72708933	+	649.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 1 of 25)	intron (NM_207636, intron 1 of 25)	1170.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	15.0	16.5	14.5	186.5	29.5	5.5	8.0	5.0
Merged-chr8-14815262-4	chr8	14815146	14815346	+	920.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 9 of 15)	intron (NM_172910, intron 9 of 15)	-73290.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	4.5	6.0	16.5	322.5	29.0	6.0	16.5	18.5
Merged-chr1-150496834-3	chr1	150496739	150496939	+	731.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-30674.0	NM_021400	96875.0	Mm.174256	NM_021400	ENSMUSG00000006014	Prg4	CACP|DOL54|JCAP|MSF|SZP|lubricin	proteoglycan 4 (megakaryocyte stimulating factor, articular superficial zone protein)	protein-coding	5.5	15.0	11.5	114.5	10.0	6.5	7.5	7.0
Merged-chr1-136466289-4	chr1	136466196	136466396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1552.0	NM_001287179	381293.0	Mm.458468	NM_001081258	ENSMUSG00000041498	Kif14	D1Ertd367e|E130203M01	kinesin family member 14	protein-coding	119.5	104.0	94.5	1592.0	256.0	72.0	127.0	111.0
Merged-chr6-28421723-4	chr6	28421630	28421830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028900)	promoter-TSS (NM_028900)	-6.0	NM_028900	74375.0	Mm.332950	NM_028900	ENSMUSG00000029708	Gcc1	4932417P04Rik	golgi coiled coil 1	protein-coding	195.5	249.5	198.5	2822.0	512.0	201.0	248.0	216.0
Merged-chr4-141454710-3	chr4	141454611	141454811	+	860.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009541, intron 2 of 15)	intron (NM_009541, intron 2 of 15)	10038.0	NM_009541	22642.0	Mm.389590	NM_009541	ENSMUSG00000006215	Zbtb17	AA589413|Lp-1|Miz1|Zfp100|mZ13	zinc finger and BTB domain containing 17	protein-coding	10.0	9.5	4.5	36.0	21.5	11.0	4.5	14.5
Merged-chr8-18954155-4	chr8	18954055	18954255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3180.0	NM_001113350	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	114.0	162.5	138.0	2185.5	241.0	99.0	155.5	116.5
Merged-chr10-80434095-4	chr10	80433992	80434192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164151)	promoter-TSS (NM_001164151)	-439.0	NM_001164148	21423.0	Mm.3406	NM_011548	ENSMUSG00000020167	Tcf3	A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21	transcription factor 3	protein-coding	189.5	280.0	138.0	2050.5	402.5	152.5	178.5	151.5
Merged-chr7-123377930-4	chr7	123377822	123378022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025304)	promoter-TSS (NM_025304)	-60.0	NM_025304	30949.0	Mm.260527	NM_025304	ENSMUSG00000030763	Lcmt1	AL033290|LCMT-1|Lcmt	leucine carboxyl methyltransferase 1	protein-coding	186.0	276.5	158.0	2552.0	387.0	162.5	208.5	184.0
Merged-chr4-12088000-4	chr4	12087912	12088112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177861)	promoter-TSS (NM_177861)	-5.0	NR_110955	329795.0	Mm.475125	NM_177861	ENSMUSG00000049488	Tmem67	5330408M12Rik|B230117O07|b2b1163.1Clo|b2b1291.1Clo	transmembrane protein 67	protein-coding	113.5	188.0	102.0	1650.0	378.5	150.5	161.5	151.5
Merged-chr5-125275387-3	chr5	125275279	125275479	+	901.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65715.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	4.5	6.0	9.0	147.0	8.5	1.5	2.0	2.5
Merged-chr1-91523967-3	chr1	91523870	91524070	+	827.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028718, intron 13 of 14)	intron (NM_028718, intron 13 of 14)	-16595.0	NM_001039126	65247.0	Mm.234152	NM_023046	ENSMUSG00000026311	Asb1	1700029O08Rik|1700054C17Rik|AI426616|AI851378|mKIAA1146	ankyrin repeat and SOCS box-containing 1	protein-coding	12.0	8.5	7.5	169.5	10.5	7.5	13.5	8.0
Merged-chr10-95533087-4	chr10	95532974	95533174	+	681.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	RLTR17|LTR|ERVK	17912.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	5.5	18.0	14.0	80.0	14.5	8.5	10.0	8.0
Merged-chr10-77291269-4	chr10	77291171	77291371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_004429, exon 11 of 11)	non-coding (NR_004429, exon 11 of 11)	31971.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	34.5	31.0	40.0	348.5	57.0	22.5	21.0	31.5
Merged-chr3-60627780-4	chr3	60627674	60627874	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001253710, exon 8 of 8)	3' UTR (NM_001253710, exon 8 of 8)	126595.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	29.5	36.0	33.5	529.5	53.0	16.0	26.0	27.0
Merged-chr8-70152646-2	chr8	70152561	70152761	+	773.5	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_001045484)	promoter-TSS (NM_001045484)	-100.0	NM_001045484	17259.0	Mm.432505	NM_008578	ENSMUSG00000079033	Mef2b	AI451606	myocyte enhancer factor 2B	protein-coding	15.0	7.5	9.0	165.0	25.0	5.5	21.5	13.0
Merged-chr11-106366521-2	chr11	106366421	106366621	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8305.0	NM_029345	75573.0	Mm.159539	NM_029345	ENSMUSG00000009210	Prr29	2310007L24Rik	proline rich 29	protein-coding	6.0	7.0	4.0	46.5	25.0	4.5	8.0	12.0
Merged-chr11-116985719-4	chr11	116985620	116985820	+	824.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172948, exon 17 of 17)	3' UTR (NM_172948, exon 17 of 17)	66857.0	NM_172948	268510.0	Mm.35141	NM_172948	ENSMUSG00000043857	Mgat5b	C330018B01|GnT-IX|mGnTVB	mannoside acetylglucosaminyltransferase 5, isoenzyme B	protein-coding	9.0	6.5	7.5	89.0	19.0	0.5	6.0	8.5
Merged-chr6-148761605-4	chr6	148761513	148761713	+	936.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69854.0	NM_001081113	320727.0	Mm.260105	NM_001081113	ENSMUSG00000040029	Ipo8	6230418K12Rik|Abcc10|C130009K11Rik|MRP7|OM-1|Om1|Ranbp8	importin 8	protein-coding	11.0	24.0	15.0	365.5	43.0	13.0	30.0	17.5
Merged-chr7-29442002-3	chr7	29441920	29442120	+	936.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081028, intron 2 of 22)	intron (NM_001081028, intron 2 of 22)	63440.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	8.0	13.5	5.5	172.5	12.0	2.5	8.0	12.5
Merged-chr3-135628577-4	chr3	135628488	135628688	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 6 of 24)	intron (NM_008689, intron 6 of 24)	62959.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	20.0	26.0	20.0	364.0	52.5	13.0	32.5	36.5
Merged-chr18-35942319-4	chr18	35942227	35942427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22503.0	NM_001289602	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	115.5	146.0	97.0	1603.0	235.5	99.5	107.5	98.5
Merged-chr17-73303387-2	chr17	73303287	73303487	+	579.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95909.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	5.5	6.5	5.5	39.0	11.0	1.5	3.0	8.0
Merged-chr10-80249163-4	chr10	80249117	80249317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029272)	promoter-TSS (NM_029272)	-235.0	NM_029272	75406.0	Mm.28712	NM_029272	ENSMUSG00000020153	Ndufs7	1010001M04Rik	NADH dehydrogenase (ubiquinone) Fe-S protein 7	protein-coding	59.0	111.5	57.0	852.5	150.5	77.5	44.5	104.0
Merged-chr17-24850414-4	chr17	24850289	24850489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024284)	promoter-TSS (NM_024284)	-87.0	NM_023480	68636.0	Mm.347964	NM_023480	ENSMUSG00000045316	Fahd1	1110025H10Rik|AV002085	fumarylacetoacetate hydrolase domain containing 1	protein-coding	205.5	285.0	172.5	2775.0	427.0	180.0	180.0	205.5
Merged-chr8-73350526-4	chr8	73350434	73350634	+	805.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317391, intron 1 of 15)	intron (NM_001317391, intron 1 of 15)	3006.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	8.0	9.0	6.5	165.0	35.0	6.5	14.5	11.5
Merged-chr11-62847974-4	chr11	62847876	62848076	+	749.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033669, intron 1 of 12)	intron (NM_001033669, intron 1 of 12)	853.0	NM_001291441	213980.0	Mm.482259	NM_001033669	ENSMUSG00000090173	Fbxw10	Fbw10|HREP|SM25H2|SM2SH2	F-box and WD-40 domain protein 10	protein-coding	10.5	18.5	8.5	185.0	27.0	10.5	8.0	6.5
Merged-chr6-29273790-2	chr6	29273690	29273890	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_023516, intron 1 of 1)	B1_Mus1|SINE|Alu	1164.0	NM_023516	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	7.5	9.0	10.5	25.0	14.5	10.0	4.0	7.0
Merged-chr9-25592277-4	chr9	25592175	25592375	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 6 of 7)	intron (NM_026189, intron 6 of 7)	110678.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	34.5	33.0	41.5	557.5	96.0	15.5	41.0	45.5
Merged-chr4-129791200-3	chr4	129791092	129791292	+	952.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29287.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	12.5	13.0	7.0	169.0	13.5	3.5	4.5	5.5
Merged-chr7-126752030-4	chr7	126751937	126752137	+	858.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-7589.0	NM_011952	26417.0	Mm.8385	NM_011952	ENSMUSG00000063065	Mapk3	Erk-1|Erk1|Ert2|Esrk1|Mnk1|Mtap2k|Prkm3|p44|p44erk1|p44mapk	mitogen-activated protein kinase 3	protein-coding	11.0	22.0	14.0	121.0	12.5	8.0	14.5	13.0
Merged-chr4-139169507-4	chr4	139169401	139169601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11154.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	44.0	53.5	74.5	646.5	190.0	96.5	79.0	97.5
Merged-chr14-21707231-4	chr14	21707232	21707432	+	939.1726070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013826, intron 1 of 3)	intron (NM_001013826, intron 1 of 3)	7244.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	10.5	13.5	7.5	153.0	7.0	11.5	5.0	12.0
Merged-chr6-85374168-3	chr6	85374064	85374264	+	962.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177466, exon 1 of 5)	exon (NM_177466, exon 1 of 5)	470.0	NM_177466	52055.0	Mm.220334	NM_177466	ENSMUSG00000051343	Rab11fip5	9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11	RAB11 family interacting protein 5 (class I)	protein-coding	17.5	14.0	25.0	177.0	11.0	11.5	14.5	15.0
Merged-chr15-96698165-1	chr15	96698065	96698265	+	685.0	f0_c57.idr	intron (NM_175121, intron 3 of 15)	intron (NM_175121, intron 3 of 15)	1563.0	NM_001355633	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	7.5	11.0	2.0	47.0	30.0	7.0	7.5	10.5
Merged-chr1-189875839-3	chr1	189875738	189875938	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008976, exon 19 of 19)	3' UTR (NM_008976, exon 19 of 19)	46453.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	32.5	39.5	37.5	629.5	9.0	0.0	4.0	2.5
Merged-chr17-71203437-4	chr17	71203330	71203530	+	918.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	intron (NM_022882, intron 1 of 19)	-1224.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	6.5	17.0	4.5	127.5	48.5	16.5	14.5	9.5
Merged-chr1-75435976-4	chr1	75435877	75436077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357171)	promoter-TSS (NM_001357171)	41.0	NM_001357169	69080.0	Mm.23951	NM_133708	ENSMUSG00000033021	Gmppa	1810012N01Rik	GDP-mannose pyrophosphorylase A	protein-coding	42.5	53.5	26.5	499.0	52.0	30.0	40.5	30.5
Merged-chr3-60501849-4	chr3	60501757	60501957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	678.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	36.0	59.0	53.0	878.5	111.0	48.0	87.5	58.0
Merged-chr4-138028126-1	chr4	138028026	138028226	+	560.0	f0_balb.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	30301.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	11.5	13.0	10.5	85.0	6.0	0.0	1.5	0.0
Merged-chr16-11420452-4	chr16	11420349	11420549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 10 of 20)	Tigger17|DNA|TcMar-Tigger	14801.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	59.5	55.5	49.5	975.0	78.5	39.5	39.5	46.5
Merged-chr6-126792237-2	chr6	126792147	126792347	+	598.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-51573.0	NM_013568	16494.0	Mm.62535	NM_013568	ENSMUSG00000038077	Kcna6	Kv1.6|MK1.6	potassium voltage-gated channel, shaker-related, subfamily, member 6	protein-coding	7.0	13.0	14.0	47.0	3.0	1.0	1.0	6.0
Merged-chr8-123032908-4	chr8	123032811	123033011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	9373.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	64.0	104.0	31.0	637.5	145.5	38.0	78.0	54.0
Merged-chr17-34924580-6	chr17	34924475	34924675	+	991.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023557, intron 13 of 20)	intron (NM_023557, intron 13 of 20)	-6678.0	NM_010893	18010.0	Mm.8856	NM_010893	ENSMUSG00000007038	Neu1	AA407268|AA407316|Aglp|Apl|Bat-7|Bat7|G9|Map-2|Neu|Neu-1	neuraminidase 1	protein-coding	20.5	23.0	7.5	190.0	64.5	20.5	19.0	34.5
Merged-chr17-87459452-4	chr17	87459346	87459546	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12511.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	21.5	18.0	16.0	381.0	28.5	13.0	21.0	11.0
Merged-chr5-25223575-4	chr5	25223480	25223680	+	911.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144908, intron 1 of 11)	intron (NM_144908, intron 1 of 11)	708.0	NM_144908	231050.0	Mm.246718	NM_144908	ENSMUSG00000038072	Galnt11	A430075I06Rik|AI648252|E430002F06Rik	polypeptide N-acetylgalactosaminyltransferase 11	protein-coding	11.0	12.0	14.5	264.5	32.5	14.5	20.5	24.0
Merged-chr2-3419133-4	chr2	3419025	3419225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355210)	promoter-TSS (NM_001355210)	4.0	NM_001355207	104362.0	Mm.2688	NM_008579	ENSMUSG00000026650	Meig1	MLZ-278|Meg1	meiosis expressed gene 1	protein-coding	229.0	291.5	150.5	2484.0	435.5	211.5	206.5	175.0
Merged-chr5-90685965-4	chr5	90685857	90686057	+	967.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45430.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	26.5	15.5	51.0	813.5	58.5	21.0	19.0	18.5
Merged-chr11-110372378-2	chr11	110372267	110372467	+	794.5	f0_balb.idr|f0_c57.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-26735.0	NM_001356345	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	8.0	4.0	4.5	86.5	20.0	11.0	14.0	10.5
Merged-chr8-26154101-4	chr8	26154037	26154237	+	599.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4032.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	3.5	8.0	4.5	105.5	10.5	8.0	12.0	8.5
Merged-chr11-111444991-3	chr11	111444901	111445101	+	633.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	378837.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	0.5	9.0	5.5	75.5	14.5	5.0	6.5	6.0
Merged-chr16-11286084-4	chr16	11285982	11286182	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-27727.0	NM_011608	21935.0	Mm.12935	NM_011608	ENSMUSG00000022496	Tnfrsf17	BCM|BCMA|Tnfrsf13|Tnfrsf13a	tumor necrosis factor receptor superfamily, member 17	protein-coding	16.0	19.5	10.0	89.0	85.0	41.0	13.5	18.5
Merged-chr3-136331318-4	chr3	136331217	136331417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5251.0	NM_001033350	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	104.0	170.0	147.0	2056.0	297.0	97.0	124.5	97.5
Merged-chr3-95016263-4	chr3	95016117	95016317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030074)	promoter-TSS (NM_030074)	-760.0	NM_001357863	78266.0	Mm.389478	NM_030074	ENSMUSG00000019338	Zfp687	4931408L03Rik|Znf687|mKIAA1441	zinc finger protein 687	protein-coding	77.5	118.0	96.5	1134.0	241.0	119.0	117.0	81.0
Merged-chr8-83081847-4	chr8	83081692	83081892	+	866.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 6 of 6)	MTE2a|LTR|ERVL-MaLR	-83560.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	19.0	12.0	10.0	153.5	15.5	9.0	5.0	2.5
Merged-chr3-9610159-4	chr3	9610068	9610268	+	897.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133218)	promoter-TSS (NM_133218)	-83.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	7.0	21.0	10.5	331.0	25.0	11.5	22.0	15.5
Merged-chr10-67031391-4	chr10	67031300	67031500	+	976.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110511, intron 3 of 6)	intron (NR_110511, intron 3 of 6)	26325.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	22.5	45.0	20.5	341.5	83.5	12.5	44.0	27.5
Merged-chr10-19575481-1	chr10	19575381	19575581	+	656.75	f0_balb.idr	Intergenic	Lx6|LINE|L1	-16468.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	12.5	10.5	12.0	61.5	11.0	5.5	3.0	7.0
Merged-chr11-34048192-1	chr11	34048092	34048292	+	826.0	f0_balb.idr	intron (NM_010696, intron 1 of 20)	intron (NM_010696, intron 1 of 20)	1264.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	2.0	29.5	13.5	32.5	11.0	12.5	8.0	4.5
Merged-chr6-88045239-4	chr6	88045115	88045315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293652)	promoter-TSS (NM_001293652)	55.0	NM_001293652	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	73.5	149.5	66.0	1033.0	258.5	97.5	100.0	86.0
Merged-chr6-29762727-3	chr6	29762625	29762825	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5718.0	NM_021414	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	6.0	20.5	14.5	162.0	13.5	7.0	9.0	4.5
Merged-chr11-23682948-4	chr11	23682838	23683038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 4 of 17)	intron (NM_001033654, intron 4 of 17)	16962.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	32.0	21.5	57.5	725.0	66.0	36.5	29.0	33.5
Merged-chr19-43524644-4	chr19	43524527	43524727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010324)	promoter-TSS (NM_010324)	-22.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	252.5	320.0	270.5	4301.5	754.5	232.0	376.5	279.5
Merged-chr4-141872992-4	chr4	141872810	141873010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	2010.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	11.5	27.5	15.5	150.0	67.0	27.5	30.5	18.0
Merged-chr7-129649132-3	chr7	129649032	129649232	+	909.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57269.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	8.5	13.0	8.5	140.0	22.5	6.5	8.0	12.0
Merged-chr11-50285419-4	chr11	50285315	50285515	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	RLTR20B2|LTR|ERVK	6921.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	49.0	69.5	54.5	453.0	80.5	32.0	41.5	14.5
Merged-chr18-39637078-2	chr18	39636978	39637178	+	778.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136419.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	10.0	12.5	7.5	31.5	10.5	3.0	2.0	7.0
Merged-chr7-122189697-2	chr7	122189597	122189797	+	860.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3466.0	NM_001316689	26918.0	Mm.20452	NM_012016	ENSMUSG00000030866	Ern2	Ern1|Ire1|Ire1b|ire1-beta|mIre1	endoplasmic reticulum (ER) to nucleus signalling 2	protein-coding	6.0	5.0	7.0	46.5	21.5	5.0	6.5	3.0
Merged-chr7-83659603-4	chr7	83659515	83659715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 12 of 18)	intron (NM_001360088, intron 12 of 18)	-4120.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	131.0	255.0	173.5	1903.5	378.5	158.0	131.0	112.5
Merged-chr11-97404409-5	chr11	97404309	97404509	+	752.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41858.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	16.0	17.0	12.0	161.5	23.5	6.5	2.5	6.5
Merged-chr8-124520732-4	chr8	124520628	124520828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029746)	promoter-TSS (NM_029746)	-39.0	NM_029746	76332.0	Mm.240108	NM_029746	ENSMUSG00000031979	Cog2	1190002B08Rik|2700012E02Rik|C86089|Ldlc	component of oligomeric golgi complex 2	protein-coding	154.5	186.0	118.0	1757.5	338.5	134.5	201.5	159.0
Merged-chr19-34515935-4	chr19	34515836	34516036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	11538.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	260.5	412.5	283.0	4113.0	519.5	192.5	250.0	223.5
Merged-chr7-92876232-4	chr7	92876148	92876348	+	733.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	MIRc|SINE|MIR	995.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	4.0	3.5	16.5	95.0	24.0	8.0	8.5	13.0
Merged-chr11-97793370-4	chr11	97793262	97793462	+	853.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-6203.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	17.5	21.5	10.0	83.5	26.0	6.0	12.0	15.5
Merged-chr11-54146254-3	chr11	54146159	54146359	+	928.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45335.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	8.0	14.5	12.5	210.5	16.5	12.5	3.5	9.0
Merged-chr10-96376730-4	chr10	96376626	96376826	+	778.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150519.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	6.0	7.5	9.5	96.5	18.5	7.5	5.0	2.5
Merged-chr13-51845192-3	chr13	51845104	51845304	+	882.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1471.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	7.0	12.5	7.5	63.5	21.5	12.0	7.0	9.0
Merged-chr1-177795527-4	chr1	177795422	177795622	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007422, intron 1 of 12)	(A)n|Simple_repeat|Simple_repeat	987.0	NM_007422	11566.0	Mm.338021	NM_007422	ENSMUSG00000015961	Adss	AI314886|AS|Adss2	adenylosuccinate synthetase, non muscle	protein-coding	15.5	28.5	4.0	198.0	59.5	11.0	15.0	7.0
Merged-chr13-32868404-2	chr13	32868277	32868477	+	827.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-17192.0	NM_025429	66222.0	Mm.20144	NM_025429	ENSMUSG00000044734	Serpinb1a	1190005M04Rik|AI325983|EI|EIA|ELANH2|LEI|M/NEI|MNEI|PI2	serine (or cysteine) peptidase inhibitor, clade B, member 1a	protein-coding	10.0	9.0	8.5	52.0	0.5	0.0	1.5	3.0
Merged-chr8-18849501-4	chr8	18849376	18849576	+	839.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026792, intron 1 of 7)	intron (NM_026792, intron 1 of 7)	3197.0	NM_026792	52123.0	Mm.24117	NM_026792	ENSMUSG00000031467	Agpat5	1110013A05Rik|D8Ertd319e	1-acylglycerol-3-phosphate O-acyltransferase 5 (lysophosphatidic acid acyltransferase, epsilon)	protein-coding	5.5	19.5	14.5	172.5	40.5	12.5	15.5	24.0
Merged-chr6-129350151-4	chr6	129350049	129350249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177686)	promoter-TSS (NM_177686)	-95.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	122.0	176.5	178.0	1869.5	313.5	109.5	99.0	111.0
Merged-chr1-59755486-4	chr1	59755387	59755587	+	940.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-8792.0	NM_007561	12168.0	Mm.7106	NM_007561	ENSMUSG00000067336	Bmpr2	2610024H22Rik|AL117858|AW546137|BB189135|BMP-2|BMPR-2|BMPR-II|BMPRII|BRK-3|Gm20272	bone morphogenetic protein receptor, type II (serine/threonine kinase)	protein-coding	27.0	49.0	30.0	231.5	56.0	15.5	27.0	16.5
Merged-chr1-56972366-4	chr1	56972278	56972478	+	881.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024325, exon 1 of 1)	non-coding (NR_024325, exon 1 of 1)	909.0	NR_024326	329160.0	Mm.419039	NR_024325	ENSMUSG00000087022	9130024F11Rik	B530002L08|EG329160	RIKEN cDNA 9130024F11 gene	ncRNA	9.0	16.5	14.0	166.0	41.0	19.0	13.0	12.0
Merged-chr9-13668978-4	chr9	13668890	13669090	+	842.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173776, intron 1 of 3)	intron (NM_173776, intron 1 of 3)	6530.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	10.0	16.0	15.5	228.0	26.5	10.0	5.5	3.5
Merged-chr17-32091464-4	chr17	32091407	32091607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027316)	promoter-TSS (NR_027316)	-84.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	40.5	65.0	42.0	621.0	136.5	43.5	67.0	48.5
Merged-chr14-76081795-5	chr14	76081724	76081924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR41|LTR|ERV1	28991.0	NM_026177	67467.0	Mm.260767	NM_026177	ENSMUSG00000022008	Gpalpp1	1200011I18Rik|Kiaa1704	GPALPP motifs containing 1	protein-coding	21.0	28.5	22.5	255.5	84.0	25.5	32.5	28.5
Merged-chr14-67098343-4	chr14	67098196	67098396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25825.0	NM_001205188	71978.0	Mm.273997	NM_028032	ENSMUSG00000022052	Ppp2r2a	2410004D02Rik|mKIAA1541	protein phosphatase 2, regulatory subunit B, alpha	protein-coding	21.0	22.5	25.0	242.0	45.5	24.5	25.5	17.0
Merged-chr17-3273907-3	chr17	3273858	3274058	+	688.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52615.0	NM_001122998	24001.0	Mm.137134	NM_011878	ENSMUSG00000023800	Tiam2	3000002F19Rik|STEF|mKIAA2016	T cell lymphoma invasion and metastasis 2	protein-coding	0.0	8.0	0.0	74.0	39.0	7.0	9.5	14.5
Merged-chr5-90655040-4	chr5	90654949	90655149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14522.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	63.5	90.0	74.5	1291.0	169.5	60.0	71.5	74.0
Merged-chr5-140350135-4	chr5	140350018	140350218	+	931.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 7 of 10)	intron (NM_172277, intron 7 of 10)	18162.0	NM_001356584	17766.0	Mm.118846	NM_008637	ENSMUSG00000036639	Nudt1	Mth1	nudix (nucleoside diphosphate linked moiety X)-type motif 1	protein-coding	24.0	24.5	22.0	571.0	26.0	10.0	13.5	10.0
Merged-chr9-18277647-3	chr9	18277554	18277754	+	620.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14613.0	NM_025844	66917.0	Mm.103534	NM_025844	ENSMUSG00000001774	Chordc1	1110001O09Rik|AA409036|Chp-1|morgana	cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1	protein-coding	6.0	7.0	11.0	87.0	13.0	3.0	7.0	2.0
Merged-chr12-111587628-3	chr12	111587522	111587722	+	849.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021516, intron 1 of 16)	MER20|DNA|hAT-Charlie	13112.0	NM_022801	17169.0	Mm.260504	NM_021516	ENSMUSG00000007411	Mark3	1600015G02Rik|A430080F22Rik|C-TAK1|ETK-1|ETK1|Emk2|MPK10	MAP/microtubule affinity regulating kinase 3	protein-coding	9.0	8.0	8.0	56.5	32.5	6.5	8.0	8.0
Merged-chr6-48818020-4	chr6	48817909	48818109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22979.0	NM_023056	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	36.5	58.0	53.5	874.0	87.5	35.0	64.5	47.0
Merged-chr17-34305802-4	chr17	34305692	34305892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010382)	promoter-TSS (NM_010382)	-75.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	65.5	105.5	30.0	629.0	345.5	98.5	112.0	138.5
Merged-chr12-110705969-4	chr12	110705868	110706068	+	968.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-9573.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	21.5	17.0	25.0	317.0	48.0	15.5	26.0	26.5
Merged-chr7-54836223-2	chr7	54836133	54836333	+	829.125	f0_balb.idr|f1_balb.idr	intron (NM_178705, intron 1 of 11)	intron (NM_178705, intron 1 of 11)	988.0	NM_178705	233271.0	Mm.387344	NM_178705	ENSMUSG00000063297	Luzp2	9330154K17Rik|D130073E01	leucine zipper protein 2	protein-coding	12.5	28.5	9.5	174.5	1.0	0.0	1.5	2.0
Merged-chr17-56673242-4	chr17	56673133	56673333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027933)	promoter-TSS (NM_027933)	8.0	NM_027933	71810.0	Mm.29608	NM_027933	ENSMUSG00000002372	Ranbp3	2610024N24Rik|AA408221	RAN binding protein 3	protein-coding	240.0	391.5	165.0	2958.0	430.5	198.5	227.5	196.0
Merged-chr1-106099349-4	chr1	106099252	106099452	+	983.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72172.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	26.0	27.0	58.5	828.0	40.5	11.5	22.5	29.0
Merged-chr9-50670893-3	chr9	50670784	50670984	+	906.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178118, intron 17 of 19)	B3|SINE|B2	-11104.0	NM_145614	235339.0	Mm.285076	NM_145614	ENSMUSG00000000168	Dlat	6332404G05Rik|DLTA|PDC-E2	dihydrolipoamide S-acetyltransferase (E2 component of pyruvate dehydrogenase complex)	protein-coding	7.5	12.0	5.5	69.0	24.5	6.5	18.5	11.5
Merged-chr7-45621680-4	chr7	45621530	45621730	+	728.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001018013)	promoter-TSS (NM_001018013)	-181.0	NM_001018013	73456.0	Mm.380445	NM_001018013	ENSMUSG00000064158	Izumo1	1700058F15Rik|Izumo	izumo sperm-egg fusion 1	protein-coding	5.5	9.0	5.0	60.5	20.0	5.5	3.5	9.0
Merged-chr8-46400874-2	chr8	46400774	46400974	+	988.8333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-70163.0	NM_007981	14081.0	Mm.210323	NM_007981	ENSMUSG00000018796	Acsl1	Acas|Acas1|Acs|FACS|Facl2|LACS 1|LACS1	acyl-CoA synthetase long-chain family member 1	protein-coding	3.5	9.0	4.0	77.0	26.0	5.0	6.0	11.0
Merged-chr2-31245815-3	chr2	31245714	31245914	+	816.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019681)	promoter-TSS (NM_019681)	-109.0	NM_019681	14299.0	Mm.249318	NM_019681	ENSMUSG00000062661	Ncs1	9430075O15Rik|A730032G13Rik|AI836659|Freq|Mfreq|NCS-1	neuronal calcium sensor 1	protein-coding	11.5	12.5	11.0	195.5	17.0	9.0	5.0	5.5
Merged-chr4-62287631-4	chr4	62287541	62287741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025286, intron 1 of 3)	intron (NM_025286, intron 1 of 3)	1212.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	24.0	20.5	28.0	366.5	54.5	28.5	56.0	30.5
Merged-chr6-134701000-4	chr6	134700910	134701110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 3 of 3)	intron (NM_001170479, intron 3 of 3)	60070.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	140.0	217.5	124.5	1504.5	314.0	124.5	109.0	96.0
Merged-chr13-9188782-2	chr13	9188689	9188889	+	660.333374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-87736.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	11.0	5.5	8.0	112.0	15.5	10.0	8.5	8.0
Merged-chr13-103919423-4	chr13	103919309	103919509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	intron (NM_001005868, intron 1 of 26)	1177.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	24.0	53.0	39.5	472.5	99.0	25.5	43.0	41.5
Merged-chr1-171823369-4	chr1	171823244	171823444	+	975.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16353.0	NM_001252472	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	28.5	43.5	27.0	571.5	47.0	9.5	25.5	22.0
Merged-chr16-55687708-4	chr16	55687605	55687805	+	909.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134433.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	25.0	32.5	18.0	170.0	30.0	17.0	11.0	9.0
Merged-chr2-145123676-1	chr2	145123576	145123776	+	725.333313	f0_balb.idr	Intergenic	IAPLTR1_Mm|LTR|ERVK	-44099.0	NM_001356497	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	13.0	42.0	16.0	113.5	6.0	0.0	0.0	0.0
Merged-chr9-96325735-4	chr9	96325635	96325835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	37980.0	NM_001357213	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	22.5	26.5	22.0	275.5	90.5	20.5	28.5	51.5
Merged-chr5-140704902-4	chr5	140704807	140705007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276287)	promoter-TSS (NM_001276287)	-104.0	NM_181066	231841.0	Mm.271932	NM_172724	ENSMUSG00000000148	Brat1	AA881470|Baat1	BRCA1-associated ATM activator 1	protein-coding	314.0	519.0	279.0	3434.5	770.0	316.0	360.0	301.5
Merged-chr8-36251671-4	chr8	36251591	36251791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2175.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	82.5	144.0	101.5	1647.0	184.0	43.0	49.5	64.5
Merged-chr16-17562076-4	chr16	17561977	17562177	+	985.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029053)	promoter-TSS (NM_029053)	192.0	NM_001159561	18440.0	Mm.8032	NM_011028	ENSMUSG00000022758	P2rx6	P2rxl1|P2x6|P2xm	purinergic receptor P2X, ligand-gated ion channel, 6	protein-coding	89.0	163.5	76.5	780.0	46.5	12.5	18.5	26.0
Merged-chr14-51091612-4	chr14	51091500	51091700	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021472, intron 1 of 1)	intron (NM_021472, intron 1 of 1)	523.0	NM_021472	58809.0	Mm.202665	NM_021472	ENSMUSG00000021876	Rnase4	C730049F20Rik|Rab1	ribonuclease, RNase A family 4	protein-coding	17.5	39.5	16.5	300.0	35.0	21.5	19.5	29.0
Merged-chr19-40612351-4	chr19	40612250	40612450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026260)	promoter-TSS (NM_026260)	-16.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	197.5	307.0	170.0	2486.0	373.5	158.5	186.5	134.5
Merged-chr14-50865147-4	chr14	50865063	50865263	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 4 of 54)	intron (NM_009351, intron 4 of 54)	5391.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	15.5	20.0	18.0	271.0	66.5	17.0	28.0	30.0
Merged-chr15-25985605-4	chr15	25985500	25985700	+	878.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144523, intron 1 of 5)	B1_Mus1|SINE|Alu	1234.0	NM_144523	52521.0	Mm.29145	NM_144523	ENSMUSG00000052253	Zfp622	1110033B05Rik|D15Ertd806e|ZPR9|Znf622	zinc finger protein 622	protein-coding	12.0	10.0	8.0	80.5	28.0	10.0	14.0	13.0
Merged-chr15-64185389-3	chr15	64185293	64185493	+	990.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	Lx9|LINE|L1	-124945.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	1.0	2.0	1.5	1.0	63.5	30.5	31.5	29.0
Merged-chr6-50294332-4	chr6	50294218	50294418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347213, exon 24 of 24)	3' UTR (NM_001347213, exon 24 of 24)	-32549.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	24.5	50.5	29.0	439.5	118.0	36.5	43.5	30.0
Merged-chr14-120276504-4	chr14	120276411	120276611	+	905.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	842.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	8.0	8.5	12.0	283.0	42.0	13.5	24.5	19.0
Merged-chr5-123141449-6	chr5	123141332	123141532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040398)	promoter-TSS (NM_001040398)	-761.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	28.5	41.5	28.0	331.5	89.0	46.5	28.5	38.5
Merged-chr3-36318806-4	chr3	36318692	36318892	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-96517.0	NM_198192	229214.0	Mm.330975	NM_198192	ENSMUSG00000058400	Qrfpr	AQ27|Gpr103|SP9155	pyroglutamylated RFamide peptide receptor	protein-coding	16.5	23.0	15.5	334.0	93.0	32.0	26.0	39.0
Merged-chr10-63430093-4	chr10	63429995	63430195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177612)	promoter-TSS (NM_177612)	-3.0	NM_177612	216033.0	Mm.444692	NM_177612	ENSMUSG00000060843	Ctnna3	4930429L08Rik|4933408A16|Catna3|Vr22	catenin (cadherin associated protein), alpha 3	protein-coding	25.5	47.0	19.5	419.0	75.5	25.0	41.0	32.5
Merged-chr7-132339593-4	chr7	132339499	132339699	+	988.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22371.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	27.5	79.5	50.0	407.0	63.5	32.0	20.5	12.5
Merged-chr10-40310396-4	chr10	40310290	40310490	+	957.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-8202.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	17.5	31.0	27.0	354.0	45.5	14.5	20.5	16.0
Merged-chr9-89268996-4	chr9	89268893	89269093	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57609.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	34.5	42.0	32.5	475.0	37.5	9.0	18.5	10.5
Merged-chr4-114909012-4	chr4	114908910	114909110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008593)	promoter-TSS (NM_008593)	-112.0	NM_008593	17301.0	Mm.7997	NM_008593	ENSMUSG00000055210	Foxd2	AI426778|Mf2	forkhead box D2	protein-coding	58.5	81.5	39.5	886.0	177.5	66.5	90.0	79.5
Merged-chr11-54703478-2	chr11	54703378	54703578	+	997.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84225.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	8.5	2.0	9.0	24.5	18.0	5.0	7.0	14.0
Merged-chr4-141669289-4	chr4	141669195	141669395	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTG)n|Simple_repeat|Simple_repeat	-5180.0	NM_001033150	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	16.5	21.0	3.0	264.0	18.0	7.0	14.5	23.5
Merged-chr7-114069873-2	chr7	114069773	114069973	+	696.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	47908.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	5.5	1.5	2.0	80.0	15.5	5.5	11.5	8.5
Merged-chr11-23855547-4	chr11	23855450	23855650	+	989.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39720.0	NM_172555	216578.0	Mm.470599	NM_172555	ENSMUSG00000020273	Papolg	9630006B20Rik	poly(A) polymerase gamma	protein-coding	20.5	27.0	21.0	183.5	42.0	15.0	21.5	11.5
Merged-chr1-170175051-4	chr1	170174947	170175147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305045)	promoter-TSS (NM_001305045)	-83.0	NM_001305045	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	332.0	575.5	327.0	4369.5	821.5	346.0	330.5	279.5
Merged-chr8-70695891-4	chr8	70695821	70696021	+	952.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1818.0	NM_010592	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	9.0	23.5	12.5	286.0	48.0	16.5	19.5	17.0
Merged-chr3-105836207-3	chr3	105836097	105836297	+	839.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20630.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	10.0	9.0	7.0	201.0	22.5	6.0	11.5	11.0
Merged-chr11-87018224-2	chr11	87018124	87018324	+	669.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24462.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	7.0	4.5	6.0	32.0	18.5	2.5	1.5	5.5
Merged-chr15-38672450-3	chr15	38672360	38672560	+	773.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025494, intron 1 of 12)	intron (NM_025494, intron 1 of 12)	10556.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	10.0	9.5	6.0	155.0	16.0	2.5	9.5	4.5
Merged-chr19-53303562-4	chr19	53303470	53303670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-6936.0	NM_001008542	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	38.0	51.5	42.0	391.5	85.0	31.5	39.5	27.0
Merged-chr4-139218603-6	chr4	139218448	139218648	+	943.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	24437.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	4.5	14.0	15.5	155.0	33.0	8.0	8.5	8.0
Merged-chr2-34749910-4	chr2	34749822	34750022	+	877.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151469, intron 2 of 26)	intron (NR_151469, intron 2 of 26)	5310.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	13.5	14.0	5.5	188.0	24.5	6.0	12.0	5.5
Merged-chr16-49801679-4	chr16	49801588	49801788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53966.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	97.5	102.0	87.5	1645.0	225.0	59.0	81.0	89.5
Merged-chr19-41274665-3	chr19	41274486	41274686	+	870.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 16 of 16)	ORR1A4|LTR|ERVL-MaLR	-10582.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	5.5	6.0	6.0	17.0	14.5	4.0	17.5	11.0
Merged-chr6-16857235-3	chr6	16857133	16857333	+	952.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 2 of 6)	intron (NM_031198, intron 2 of 6)	41208.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	8.0	26.0	11.5	201.0	9.5	10.5	0.0	2.0
Merged-chr5-102010539-4	chr5	102010437	102010637	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	MER3|DNA|hAT-Charlie	59384.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	19.5	18.5	9.0	348.0	51.5	11.5	18.5	16.5
Merged-chr16-76355458-4	chr16	76355342	76355542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	ID4_|SINE|ID	17607.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	22.0	27.5	32.0	523.0	77.5	29.0	29.5	37.0
Merged-chr1-136569404-4	chr1	136569315	136569515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55486.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	37.0	25.5	49.0	785.0	117.5	32.0	44.5	60.5
Merged-chr7-64061340-4	chr7	64061260	64061460	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92475.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	27.5	44.5	16.5	279.0	62.5	17.5	10.5	14.0
Merged-chr2-60815031-4	chr2	60814938	60815138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	66400.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	40.5	26.5	68.0	741.0	88.5	23.5	45.5	30.5
Merged-chr14-105297497-3	chr14	105297421	105297621	+	872.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 4 of 7)	intron (NM_029561, intron 4 of 7)	38848.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	12.0	15.5	9.0	166.0	9.0	3.0	2.5	1.5
Merged-chr16-32638692-3	chr16	32638589	32638789	+	833.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5954.0	NM_001110147	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	11.0	7.5	8.5	109.0	9.5	6.5	4.5	11.5
Merged-chr2-91084663-4	chr2	91084573	91084773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12005.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	87.5	112.0	96.0	1277.5	182.0	64.0	110.0	126.5
Merged-chr15-82354358-4	chr15	82354248	82354448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025987)	promoter-TSS (NM_025987)	-57.0	NM_025987	67130.0	Mm.27570	NM_025987	ENSMUSG00000022450	Ndufa6	14kDa|2700038D15Rik|B230217P19Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 6 (B14)	protein-coding	197.5	243.5	145.5	2620.0	414.0	140.0	224.0	125.0
Merged-chr10-57571449-4	chr10	57571336	57571536	+	911.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38907.0	NM_019760	56442.0	Mm.29344	NM_019760	ENSMUSG00000019877	Serinc1	1500011D18Rik|AI315070|AIGP-2|TMS-2|Tde1l|Tde2|Tms2|mKIAA1253	serine incorporator 1	protein-coding	8.5	8.0	11.5	112.5	27.0	6.5	15.5	14.0
Merged-chr5-121384078-4	chr5	121383963	121384163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163470, exon 2 of 12)	exon (NM_001163470, exon 2 of 12)	1346.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	45.5	68.5	25.0	627.0	127.0	45.5	42.0	43.0
Merged-chr9-40800108-4	chr9	40800004	40800204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1169.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	62.5	74.5	58.0	916.0	130.0	32.0	66.0	61.5
Merged-chr4-74222536-4	chr4	74222428	74222628	+	828.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19969.0	NM_001172095	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	2.5	5.5	6.5	107.0	29.5	6.0	6.0	12.5
Merged-chr7-143506082-4	chr7	143505979	143506179	+	790.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3555.0	NM_009434	22113.0	Mm.334344	NM_009434	ENSMUSG00000010760	Phlda2	Ipl|Tssc3	pleckstrin homology like domain, family A, member 2	protein-coding	9.0	8.5	3.5	94.5	26.0	7.0	22.0	10.0
Merged-chr1-90592973-3	chr1	90592896	90593096	+	820.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10429.0	NM_133805	108679.0	Mm.119177	NM_133805	ENSMUSG00000034432	Cops8	9430009J09Rik|AA408242|Csn8|Sgn8	COP9 signalosome subunit 8	protein-coding	9.5	5.5	3.5	84.5	13.5	5.0	5.5	9.0
Merged-chr2-38472969-3	chr2	38472895	38473095	+	943.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38702.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	8.5	14.0	11.0	219.0	14.0	8.5	5.0	5.0
Merged-chr7-46739168-3	chr7	46739057	46739257	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	3823.0	NM_001357493	20208.0	Mm.148800	NM_009117	ENSMUSG00000074115	Saa1	Saa-1|Saa2	serum amyloid A 1	protein-coding	4.5	5.0	5.0	172.0	9.5	6.5	9.5	2.0
Merged-chr3-52262659-4	chr3	52262534	52262734	+	824.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5703.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	10.0	20.0	9.0	167.5	32.5	15.5	15.0	9.5
Merged-chr8-123361470-4	chr8	123361360	123361560	+	886.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172287, intron 10 of 14)	intron (NM_172287, intron 10 of 14)	-12251.0	NM_001359076	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	11.0	18.0	12.5	144.0	26.5	5.5	10.5	13.0
Merged-chr1-121427102-3	chr1	121427013	121427213	+	946.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3954.0	NM_001025156	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	8.0	7.5	11.5	171.5	4.0	6.0	8.0	13.0
Merged-chr10-41665697-4	chr10	41665575	41665775	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 10 of 47)	L1MB2|LINE|L1	50788.0	NM_001358562	75973.0	Mm.228517	NM_029493	ENSMUSG00000075225	Ccdc162	5033413D22Rik|Ccdc162p|Gm29096|Gm61|Gm6976	coiled-coil domain containing 162	protein-coding	35.0	26.0	31.0	265.5	52.5	20.0	29.5	20.0
Merged-chr7-67973640-4	chr7	67973541	67973741	+	872.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 1 of 20)	intron (NM_010513, intron 1 of 20)	21384.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	11.5	29.0	17.5	389.5	28.0	11.5	12.5	9.5
Merged-chr7-19229414-2	chr7	19229314	19229514	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207525, intron 1 of 1)	intron (NM_207525, intron 1 of 1)	1025.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	1.5	5.5	2.0	53.5	7.5	7.5	10.0	10.0
Merged-chr6-128845516-4	chr6	128845412	128845612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19197.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	82.5	93.5	62.0	1167.5	225.0	54.5	105.0	72.5
Merged-chr7-45635405-4	chr7	45635316	45635516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152217)	TTS (NR_152217)	3342.0	NR_152217	100126243.0	Mm.440600	NR_152217	ENSMUSG00000110357	A030001D20Rik	1110025D03Rik	RIKEN cDNA A030001D20 gene	ncRNA	72.0	122.5	31.5	645.5	193.0	67.5	45.5	75.5
Merged-chr8-127441329-4	chr8	127441244	127441444	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033620, intron 20 of 24)	intron (NM_033620, intron 20 of 24)	141692.0	NM_001013580	93742.0	Mm.299254	NM_033620	ENSMUSG00000025812	Pard3	AA960621|AI256638|Asip|D8Ertd580e|Par-3|Par3|Pard-3|Pard3a|Phip	par-3 family cell polarity regulator	protein-coding	17.0	42.0	20.0	423.0	610.5	231.0	268.0	193.5
Merged-chr17-5220629-4	chr17	5220495	5220695	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	198172.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	13.0	21.5	19.0	394.0	37.5	8.5	18.0	17.5
Merged-chr7-100862733-4	chr7	100862634	100862834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	679.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	17.0	25.5	18.0	109.0	47.0	21.0	19.5	22.5
Merged-chr7-126809207-4	chr7	126809103	126809303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7682.0	NM_026884	68952.0	Mm.440393	NM_026884	ENSMUSG00000058966	Fam57b	1500016O10Rik|A330104J06Rik|AI413816|AW060769	family with sequence similarity 57, member B	protein-coding	29.0	48.5	19.0	521.0	70.5	15.5	35.0	36.0
Merged-chr3-60481916-4	chr3	60481831	60482031	+	908.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253713, intron 2 of 9)	intron (NM_001253713, intron 2 of 9)	9101.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	20.0	16.5	9.0	286.5	36.0	10.5	15.0	11.5
Merged-chr10-9880566-4	chr10	9880425	9880625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	Lx|LINE|L1	20515.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	32.0	66.5	78.5	1211.5	51.5	24.5	16.5	32.5
Merged-chr6-119175269-4	chr6	119175297	119175497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033379, exon 1 of 9)	exon (NM_001033379, exon 1 of 9)	144.0	NM_001033379	319618.0	Mm.250197	NM_001033379	ENSMUSG00000041477	Dcp1b	B930050E02Rik	decapping mRNA 1B	protein-coding	52.5	54.0	71.5	748.0	70.5	37.5	33.0	49.5
Merged-chr4-149901718-3	chr4	149901615	149901815	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029035, intron 2 of 2)	intron (NM_029035, intron 2 of 2)	53291.0	NM_029035	74646.0	Mm.30	NM_029035	ENSMUSG00000039911	Spsb1	1110014L01Rik|4930422J18Rik|AI596360|AI854583|SSB-1|SSB1	splA/ryanodine receptor domain and SOCS box containing 1	protein-coding	7.5	3.5	2.0	83.0	11.0	6.0	12.5	9.0
Merged-chr9-102913780-4	chr9	102913682	102913882	+	976.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	78862.0	NM_001284258	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	11.0	21.5	17.0	304.5	52.0	13.0	23.0	18.0
Merged-chr4-20041804-1	chr4	20041704	20041904	+	1000.0	f1_balb.idr	promoter-TSS (NM_010281)	promoter-TSS (NM_010281)	-248.0	NM_010281	14590.0	Mm.20461	NM_010281	ENSMUSG00000073987	Ggh	gamma-GH	gamma-glutamyl hydrolase	protein-coding	50.0	38.0	38.0	487.5	71.5	23.0	44.0	22.0
Merged-chr10-24149247-4	chr10	24149164	24149364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358563)	promoter-TSS (NM_001358563)	-25.0	NM_001358563	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	231.0	252.5	221.5	3083.0	493.0	185.0	246.5	181.5
Merged-chr2-18840164-3	chr2	18840075	18840275	+	651.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5A|LINE|L1	-38357.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	6.5	6.5	6.5	69.0	7.5	0.0	9.0	5.5
Merged-chr2-165408014-4	chr2	165407916	165408116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054055, intron 12 of 12)	intron (NM_054055, intron 12 of 12)	-7622.0	NM_029021	74614.0	Mm.72179	NM_029021	ENSMUSG00000027670	Ocstamp	4833422F24Rik|OC-STAMP	osteoclast stimulatory transmembrane protein	protein-coding	17.5	43.5	22.5	317.0	76.5	23.5	17.0	11.0
Merged-chr4-149782583-4	chr4	149782501	149782701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8334.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	45.5	46.0	47.0	801.0	84.5	38.5	47.5	48.5
Merged-chr8-26690142-4	chr8	26690066	26690266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134257.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	32.5	32.5	24.5	555.5	103.5	29.5	34.0	41.0
Merged-chr16-33963889-4	chr16	33963782	33963982	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009471, exon 2 of 6)	exon (NM_009471, exon 2 of 6)	3156.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	18.0	38.5	20.5	517.0	44.5	20.0	17.5	16.5
Merged-chr10-81268198-4	chr10	81268076	81268276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018758)	promoter-TSS (NM_018758)	4.0	NM_018758	57267.0	Mm.293931	NM_018758	ENSMUSG00000004931	Apba3	AW208791|Mint-3|X11gamma|lin-10|mint3	amyloid beta (A4) precursor protein-binding, family A, member 3	protein-coding	23.5	57.0	28.0	519.5	121.0	34.5	60.5	50.5
Merged-chr8-72303835-4	chr8	72303758	72303958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15204.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	64.5	41.5	67.5	758.5	90.5	42.5	39.5	40.0
Merged-chr8-107030209-4	chr8	107030058	107030258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1168.0	NM_126165	116733.0	Mm.236004	NM_126165	ENSMUSG00000031913	Vps4a	4930589C15Rik|AI325971|AW553189	vacuolar protein sorting 4A	protein-coding	76.5	115.5	80.5	926.5	182.0	60.0	85.0	105.0
Merged-chr11-67080392-3	chr11	67080297	67080497	+	760.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099635, intron 3 of 40)	intron (NM_001099635, intron 3 of 40)	2097.0	NM_001099635	17883.0	Mm.340090	NM_001099635	ENSMUSG00000020908	Myh3	MyHC-emb|Myhs-e|Myhse	myosin, heavy polypeptide 3, skeletal muscle, embryonic	protein-coding	11.0	9.0	0.0	100.0	8.0	7.0	5.0	5.0
Merged-chr11-29846753-3	chr11	29846664	29846864	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 10 of 41)	Lx2|LINE|L1	-21096.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	8.0	9.0	19.0	215.5	15.5	5.5	11.0	6.0
Merged-chr15-37972845-4	chr15	37972746	37972946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112721, intron 56 of 58)	intron (NM_001112721, intron 56 of 58)	-11791.0	NM_199476	382985.0	Mm.24738	NM_199476	ENSMUSG00000022292	Rrm2b	p53R2	ribonucleotide reductase M2 B (TP53 inducible)	protein-coding	33.5	50.5	19.0	731.0	69.5	20.0	39.5	53.5
Merged-chr7-81855140-4	chr7	81855050	81855250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3851.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	181.5	201.0	212.0	2663.0	331.0	154.5	188.0	136.5
Merged-chr2-114175364-4	chr2	114175279	114175479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009702)	promoter-TSS (NM_009702)	-40.0	NM_001290788	11834.0	Mm.2545	NM_009702	ENSMUSG00000040383	Aqr	AW495846|mKIAA0560	aquarius	protein-coding	104.5	163.5	102.5	1967.5	151.0	48.5	86.5	47.5
Merged-chr4-128858435-3	chr4	128858338	128858538	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25702.0	NM_178110	67525.0	Mm.30653	NM_178110	ENSMUSG00000041000	Trim62	6330414G21Rik|AI450348|Dear1	tripartite motif-containing 62	protein-coding	5.5	9.5	1.5	67.5	14.0	6.5	5.5	6.5
Merged-chr17-17871855-4	chr17	17871765	17871965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12074.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	101.0	184.5	104.5	1709.0	279.5	120.0	135.5	97.5
Merged-chr5-142821837-4	chr5	142821710	142821910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4423.0	NM_001122730	231861.0	Mm.354649	NM_178242	ENSMUSG00000039477	Tnrc18	BC025631|EG381742|Zfp469	trinucleotide repeat containing 18	protein-coding	37.0	33.0	18.5	283.0	45.5	20.5	25.5	24.0
Merged-chr17-29054056-4	chr17	29053950	29054150	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21390.0	NR_036613	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	42.0	85.0	55.5	350.0	93.0	30.5	25.0	12.5
Merged-chr4-102646359-6	chr4	102646239	102646439	+	803.986084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56496.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	15.5	7.5	12.5	107.0	26.0	3.0	3.5	12.5
Merged-chr6-115037885-4	chr6	115037779	115037979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026894)	promoter-TSS (NM_026894)	-5.0	NM_026894	68971.0	Mm.24937	NM_026894	ENSMUSG00000030316	Tamm41	1500001M20Rik|TAM41	TAM41 mitochondrial translocator assembly and maintenance homolog	protein-coding	54.0	73.5	38.5	644.0	70.5	41.0	50.5	35.5
Merged-chr18-34247106-4	chr18	34247023	34247223	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360979)	promoter-TSS (NM_001360979)	-571.0	NM_001360980	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	13.0	26.0	23.0	247.0	55.0	35.5	23.5	28.0
Merged-chr16-21842330-4	chr16	21842235	21842435	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47988.0	NR_037957	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	20.0	12.0	14.0	198.5	41.0	13.0	9.5	24.0
Merged-chr3-27863526-4	chr3	27863400	27863600	+	990.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32868.0	NM_001164437	208613.0	Mm.59189	NM_001164437	ENSMUSG00000043164	Tmem212	E030011K20Rik|Gm564	transmembrane protein 212	protein-coding	52.5	86.5	42.5	540.0	102.0	49.0	51.0	19.0
Merged-chr9-70282307-4	chr9	70282189	70282389	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	74939.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	34.0	48.0	15.0	348.5	46.5	10.0	20.5	19.0
Merged-chr4-41529045-3	chr4	41528960	41529160	+	896.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	intron (NM_027993, intron 1 of 5)	11623.0	NR_045726	76992.0	Mm.440546	NR_045726	ENSMUSG00000036162	Fam219aos	1700066J24Rik	family with sequence similarity 219, member A, opposite strand	ncRNA	0.0	1.0	0.5	5.0	35.5	6.5	17.5	9.0
Merged-chr14-32093812-4	chr14	32093641	32093841	+	831.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145460, intron 3 of 7)	intron (NM_145460, intron 3 of 7)	8013.0	NM_145460	218885.0	Mm.202257	NM_145460	ENSMUSG00000021906	Oxnad1	2410002F01Rik|AW492292|BC019806	oxidoreductase NAD-binding domain containing 1	protein-coding	9.5	14.0	9.5	104.0	15.5	6.5	8.5	7.0
Merged-chr11-70655517-4	chr11	70655424	70655624	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011072)	promoter-TSS (NM_011072)	-874.0	NM_011072	18643.0	Mm.2647	NM_011072	ENSMUSG00000018293	Pfn1	Pfn	profilin 1	protein-coding	20.0	49.0	21.5	159.0	134.5	43.0	36.0	31.5
Merged-chr7-113556391-4	chr7	113556278	113556478	+	893.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126544, intron 1 of 5)	intron (NR_126544, intron 1 of 5)	8609.0	NR_126544	69295.0	Mm.396150	NR_126544	ENSMUSG00000084984	Far1os	1700006P19Rik	fatty acyl CoA reductase 1, opposite strand	ncRNA	12.0	27.0	11.5	173.5	43.0	13.0	12.0	7.0
Merged-chr2-120629022-4	chr2	120628929	120629129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19434.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	262.0	366.5	259.0	3576.0	670.5	235.5	321.0	280.5
Merged-chr5-26904422-6	chr5	26904327	26904527	+	748.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198886)	promoter-TSS (NM_001198886)	-351.0	NM_001198886	13483.0	Mm.42078	NM_010075	ENSMUSG00000061576	Dpp6	B930011P16Rik|D5Buc3|D5Buc4|D5Buc5|DPP VI|Dpp-6|Gm1377|In(5)6H-p|Peplb|Rw	dipeptidylpeptidase 6	protein-coding	5.0	8.0	9.5	146.0	22.0	9.0	7.5	11.0
Merged-chr7-19843766-4	chr7	19843667	19843867	+	957.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8236.0	NM_001270489	100502736.0	Mm.445354	NM_001270489	ENSMUSG00000092216	Gm19345	-	predicted gene, 19345	protein-coding	16.5	28.0	4.0	153.5	34.0	12.5	13.5	13.5
Merged-chr2-124611415-4	chr2	124611316	124611516	+	927.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	1120.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	10.0	21.5	14.5	181.5	34.0	14.0	19.5	12.0
Merged-chr14-21941749-4	chr14	21941651	21941851	+	885.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	47850.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	12.5	25.0	9.5	218.0	35.0	3.5	8.5	12.5
Merged-chr2-167300313-7	chr2	167300219	167300419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019835, exon 9 of 9)	3' UTR (NM_019835, exon 9 of 9)	48859.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	9.5	18.0	18.0	324.5	20.5	1.0	5.0	11.5
Merged-chr11-62079721-4	chr11	62079617	62079817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029936, intron 1 of 12)	ERV3-16A3_LTR|LTR|ERVL	2693.0	NM_001029936	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	35.5	71.0	28.5	565.5	62.0	27.0	33.5	24.0
Merged-chr1-193128347-2	chr1	193128247	193128447	+	659.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151719, exon 3 of 12)	non-coding (NR_151719, exon 3 of 12)	1904.0	NM_145415	215193.0	Mm.173758	NM_145415	ENSMUSG00000016181	Diexf	AA408296|AW045375|Def	digestive organ expansion factor homolog (zebrafish)	protein-coding	7.0	6.5	6.5	51.5	15.0	5.5	6.5	2.5
Merged-chr7-115616155-4	chr7	115616056	115616256	+	837.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025559, intron 7 of 15)	intron (NM_001025559, intron 7 of 15)	185453.0	NM_001277328	20679.0	Mm.323365	NM_011445	ENSMUSG00000051910	Sox6	AI987981|SOX-LZ	SRY (sex determining region Y)-box 6	protein-coding	17.0	18.0	3.5	139.5	22.5	12.5	15.0	10.5
Merged-chr11-51855641-4	chr11	51855550	51855750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 1 of 12)	G-rich|Low_complexity|Low_complexity	1831.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	27.0	48.5	44.0	601.0	77.0	19.5	36.0	32.0
Merged-chr2-27679916-4	chr2	27679808	27680008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	2707.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	30.0	41.5	32.0	311.5	62.0	20.5	24.5	30.0
Merged-chr15-85012782-3	chr15	85012664	85012864	+	941.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4377.0	NM_023478	22270.0	Mm.46214	NM_023478	ENSMUSG00000022435	Upk3a	1110017C07Rik|UP3a|UPIII|Upk3	uroplakin 3A	protein-coding	9.5	15.5	14.5	263.0	22.0	5.5	4.0	1.0
Merged-chr5-142630514-4	chr5	142630397	142630597	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178398, intron 1 of 11)	intron (NM_178398, intron 1 of 11)	913.0	NM_178398	74781.0	Mm.29432	NM_178398	ENSMUSG00000029578	Wipi2	1110018O08Rik|2510001I10Rik	WD repeat domain, phosphoinositide interacting 2	protein-coding	4.0	14.5	4.0	103.0	28.0	18.0	12.0	10.5
Merged-chr19-34270441-4	chr19	34270363	34270563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15090.0	NM_007392	11475.0	Mm.213025	NM_007392	ENSMUSG00000035783	Acta2	0610041G09Rik|Actvs|SMAalpha|SMalphaA|a-SMA|alphaSMA	actin, alpha 2, smooth muscle, aorta	protein-coding	18.5	32.0	15.0	214.0	79.0	40.0	29.5	27.0
Merged-chr1-154036961-4	chr1	154036854	154037054	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137025.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	13.5	28.5	17.5	202.0	15.0	11.0	15.0	18.0
Merged-chr10-80656593-4	chr10	80656505	80656705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145361, exon 1 of 9)	5' UTR (NM_145361, exon 1 of 9)	466.0	NM_145361	208198.0	Mm.60720	NM_145361	ENSMUSG00000003344	Btbd2	2610037C03Rik|4930512K17Rik	BTB (POZ) domain containing 2	protein-coding	86.5	95.5	53.0	716.5	135.0	74.0	68.0	60.5
Merged-chr4-109438147-4	chr4	109438056	109438256	+	896.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145948, intron 12 of 17)	intron (NM_001145948, intron 12 of 17)	22509.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	12.0	10.0	16.0	134.0	22.0	21.5	17.0	15.5
Merged-chr2-104595174-3	chr2	104595056	104595256	+	893.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037326, intron 1 of 1)	intron (NM_001037326, intron 1 of 1)	4672.0	NM_001037326	228410.0	Mm.259876	NM_145529	ENSMUSG00000027176	Cstf3	4732468G05Rik|C79532|CstF-77	cleavage stimulation factor, 3' pre-RNA, subunit 3	protein-coding	9.0	18.0	9.0	217.0	16.0	10.0	7.5	9.0
Merged-chr19-10266641-4	chr19	10266528	10266728	+	961.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 5 of 19)	intron (NM_198114, intron 5 of 19)	-25880.0	NM_001033481	225908.0	Mm.329716	NM_001033481	ENSMUSG00000036098	Myrf	6030439E18|Gm1804|Gm98|Mrf	myelin regulatory factor	protein-coding	20.0	19.0	7.5	298.0	43.0	11.5	20.0	16.0
Merged-chr18-65695567-4	chr18	65695468	65695668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2700.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	158.5	200.5	205.0	2613.0	285.0	83.0	169.0	192.5
Merged-chr10-41682933-4	chr10	41682838	41683038	+	941.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 5 of 47)	B3A|SINE|B2	33525.0	NM_001358562	75973.0	Mm.228517	NM_029493	ENSMUSG00000075225	Ccdc162	5033413D22Rik|Ccdc162p|Gm29096|Gm61|Gm6976	coiled-coil domain containing 162	protein-coding	18.0	26.5	13.5	248.0	37.0	16.0	15.5	19.5
Merged-chr10-108099056-4	chr10	108098955	108099155	+	946.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63345.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	11.0	31.5	15.5	381.5	26.5	19.0	22.0	22.5
Merged-chr10-111997210-4	chr10	111997120	111997320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028608)	promoter-TSS (NM_028608)	44.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	40.0	67.0	59.0	414.0	143.0	39.5	76.5	53.0
Merged-chr3-137951971-1	chr3	137951871	137952071	+	1000.0	f0_balb.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	29578.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	29.5	28.5	20.0	423.5	72.5	11.5	21.5	21.0
Merged-chr13-64153379-4	chr13	64153274	64153474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175494)	promoter-TSS (NM_175494)	-175.0	NM_175494	238673.0	Mm.300065	NM_175494	ENSMUSG00000044934	Zfp367	8030486J21Rik|ZFF29a|ZFF29b|Znf367	zinc finger protein 367	protein-coding	301.5	478.5	322.0	5811.0	1006.5	393.5	581.0	383.0
Merged-chr11-72660553-4	chr11	72660446	72660646	+	955.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025985, intron 1 of 5)	PB1D9|SINE|Alu	-29456.0	NM_009671	11736.0	Mm.10313	NM_009671	ENSMUSG00000020790	Ankfy1	Ankhzn|ZFYVE14|mKIAA1255	ankyrin repeat and FYVE domain containing 1	protein-coding	11.5	14.0	11.0	243.5	59.5	7.0	10.0	23.5
Merged-chr1-151343718-4	chr1	151343636	151343836	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359262)	promoter-TSS (NM_001359262)	-750.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	19.0	28.5	10.5	197.5	44.5	17.5	9.0	18.0
Merged-chr6-134141430-3	chr6	134141322	134141522	+	817.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	105722.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	6.5	12.0	9.0	192.5	5.5	3.0	6.0	3.5
Merged-chr2-59243629-5	chr2	59243563	59243763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	intron (NM_175464, intron 2 of 20)	82813.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	51.5	18.5	41.5	662.5	48.0	13.5	20.0	24.5
Merged-chr18-12102316-4	chr18	12102223	12102423	+	889.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178801, intron 4 of 14)	intron (NM_178801, intron 4 of 14)	19214.0	NR_110356	338363.0	Mm.271567	NM_178801	ENSMUSG00000049411	Tmem241	6030446N20Rik	transmembrane protein 241	protein-coding	19.0	23.0	19.0	176.0	23.5	12.5	9.5	21.5
Merged-chr3-60502424-6	chr3	60502286	60502486	+	913.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	1207.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	1.0	11.0	11.0	70.0	19.5	6.0	15.5	21.0
Merged-chr2-121506659-4	chr2	121506548	121506748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030234)	promoter-TSS (NM_030234)	8.0	NM_026220	67532.0	Mm.440764	NM_026220	ENSMUSG00000068479	Mfap1a	4432409M24Rik|Mfap1	microfibrillar-associated protein 1A	protein-coding	49.5	45.0	23.0	592.5	99.0	33.5	48.0	47.0
Merged-chr1-120256066-4	chr1	120255963	120256163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085409, intron 2 of 5)	intron (NM_001085409, intron 2 of 5)	9217.0	NM_133186	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	45.5	34.0	61.5	532.0	84.0	17.5	25.5	58.0
Merged-chr10-31600300-3	chr10	31600195	31600395	+	996.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146349, intron 1 of 5)	intron (NM_001146349, intron 1 of 5)	9430.0	NM_001146349	268291.0	Mm.295212	NM_001146349	ENSMUSG00000063760	Rnf217	AU016819|Ibrdc1	ring finger protein 217	protein-coding	25.0	14.5	36.5	603.5	38.0	3.0	6.5	9.0
Merged-chr1-55511733-4	chr1	55511632	55511832	+	913.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	105786.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	13.0	12.0	1.0	86.0	63.5	9.0	16.5	6.0
Merged-chr9-83555804-4	chr9	83555716	83555916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	7478.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	22.5	57.5	23.0	460.5	106.5	26.0	28.5	31.5
Merged-chr10-82899116-3	chr10	82899022	82899222	+	980.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	32496.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	1.0	1.0	3.5	136.5	66.5	16.0	57.0	17.0
Merged-chr5-52783061-4	chr5	52782940	52783140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308144)	promoter-TSS (NM_001308144)	-15.0	NM_001308144	78796.0	Mm.266886	NM_030185	ENSMUSG00000029179	Zcchc4	4930449I23Rik	zinc finger, CCHC domain containing 4	protein-coding	63.5	63.0	41.5	791.5	161.0	61.0	81.5	54.5
Merged-chr6-34862629-4	chr6	34862529	34862729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197986)	promoter-TSS (NM_197986)	-517.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	32.0	37.0	26.5	385.0	78.0	16.5	21.5	39.5
Merged-chr8-47691778-5	chr8	47691626	47691826	+	943.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C|LTR|ERVK	-16567.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	6.5	6.5	18.5	129.5	14.0	4.5	5.5	10.0
Merged-chr10-98514994-4	chr10	98514901	98515101	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163134.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	9.5	30.5	22.0	229.0	24.0	7.5	11.5	10.0
Merged-chr5-52742247-4	chr5	52742134	52742334	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025951, intron 1 of 9)	intron (NM_025951, intron 1 of 9)	660.0	NM_025951	67073.0	Mm.248647	NM_025951	ENSMUSG00000029186	Pi4k2b	2610042N09Rik|4933409G22Rik	phosphatidylinositol 4-kinase type 2 beta	protein-coding	17.5	27.5	23.0	295.0	43.0	8.5	15.0	12.5
Merged-chr3-65516013-4	chr3	65515908	65516108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12439.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	85.0	111.0	55.0	1253.5	170.0	62.0	54.0	45.5
Merged-chr12-105781529-4	chr12	105781419	105781619	+	976.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030187, intron 17 of 17)	intron (NM_030187, intron 17 of 17)	-3178.0	NM_011112	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	6.0	23.5	17.5	293.0	76.5	10.5	18.5	30.5
Merged-chr1-172514126-4	chr1	172514016	172514216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7014.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	145.5	223.5	135.5	2549.5	497.5	169.5	227.5	167.0
Merged-chr6-54117239-7	chr6	54117140	54117340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	77308.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	59.5	103.0	81.5	1020.0	118.5	47.5	52.0	67.5
Merged-chr17-80450686-4	chr17	80450606	80450806	+	856.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009231, intron 5 of 21)	intron (NM_009231, intron 5 of 21)	29747.0	NM_009231	20662.0	Mm.60975	NM_009231	ENSMUSG00000024241	Sos1	4430401P03Rik|9630010N06|AI449023	SOS Ras/Rac guanine nucleotide exchange factor 1	protein-coding	11.5	3.0	12.0	171.5	21.0	9.5	13.0	14.0
Merged-chr11-44415017-5	chr11	44414870	44415070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001303244)	TTS (NM_001303244)	14907.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	56.5	92.0	87.5	1082.5	174.5	84.5	93.0	95.5
Merged-chr7-132859871-4	chr7	132859778	132859978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198017, intron 1 of 8)	intron (NM_198017, intron 1 of 8)	653.0	NM_198017	109359.0	Mm.274824	NM_198017	ENSMUSG00000030965	Abraxas2	AA589499|AI853413|Abro1|C430003P19Rik|Fam175b	BRISC complex subunit	protein-coding	48.5	59.0	32.5	678.5	112.5	26.5	47.0	44.5
Merged-chr10-119062203-4	chr10	119062114	119062314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11715.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	32.5	45.5	59.5	765.5	114.0	28.0	52.5	37.5
Merged-chr3-131862157-2	chr3	131862032	131862232	+	872.5	f0_c57.idr|f1_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-223160.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	7.0	1.0	3.0	62.5	14.0	4.5	9.0	7.0
Merged-chr4-126252738-3	chr4	126252623	126252823	+	774.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145970, intron 1 of 16)	intron (NM_001145970, intron 1 of 16)	3596.0	NM_144941	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	3.0	7.5	2.5	41.0	16.5	5.5	5.0	8.0
Merged-chr7-24642658-3	chr7	24642560	24642760	+	646.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	6090.0	NM_133743	72434.0	Mm.281093	NM_133743	ENSMUSG00000057454	Lypd3	2310061G07Rik|C4.4a	Ly6/Plaur domain containing 3	protein-coding	12.5	5.5	3.0	97.5	18.5	5.0	4.5	13.0
Merged-chr1-54835973-3	chr1	54835866	54836066	+	827.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	90421.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	8.0	11.5	7.0	141.5	11.0	6.5	7.5	16.0
Merged-chr2-167769944-4	chr2	167769844	167770044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78767.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	44.0	74.5	67.0	679.5	121.5	33.5	46.0	39.5
Merged-chr3-132171753-4	chr3	132171647	132171847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	MER121|DNA|TcMar?	86455.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	83.5	95.0	103.5	1384.0	154.0	66.0	65.0	61.5
Merged-chr3-51415377-4	chr3	51415304	51415504	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053089)	promoter-TSS (NM_053089)	-612.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	11.0	11.0	10.5	159.5	25.5	10.0	5.5	19.0
Merged-chr6-106441031-2	chr6	106440926	106441126	+	572.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001109749, intron 8 of 25)	intron (NM_001109749, intron 8 of 25)	308011.0	NM_008370	16192.0	Mm.3448	NM_008370	ENSMUSG00000005364	Il5ra	CD125|CDw125|Il5r	interleukin 5 receptor, alpha	protein-coding	9.5	5.0	10.0	62.5	10.0	4.0	2.5	0.0
Merged-chr3-96730029-3	chr3	96729932	96730132	+	835.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026406, intron 1 of 8)	intron (NM_026406, intron 1 of 8)	2421.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	6.0	11.5	3.0	91.5	19.5	11.5	7.0	7.0
Merged-chr11-3203218-8	chr11	3203095	3203295	+	830.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001166549, exon 1 of 18)	5' UTR (NM_001166549, exon 1 of 18)	176.0	NM_001166549	74203.0	Mm.255649	NM_023743	ENSMUSG00000020454	Eif4enif1	2610509L04Rik|A930019J01Rik|AA410001|AU021239|Clast4|D11Ertd166e	eukaryotic translation initiation factor 4E nuclear import factor 1	protein-coding	6.0	11.0	3.0	56.5	21.0	8.0	7.0	15.5
Merged-chr5-32725600-1	chr5	32725500	32725700	+	789.5	f1_balb.idr	Intergenic	RMER4A|LTR|ERVK	20742.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	7.5	8.5	13.5	38.5	3.5	2.5	3.5	2.0
Merged-chr6-149141522-4	chr6	149141439	149141639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177101)	promoter-TSS (NM_177101)	26.0	NM_001252095	320204.0	Mm.274099	NM_177101	ENSMUSG00000039958	Etfbkmt	4833442J19Rik|AI256744|ETFB-KMT|Mettl20	electron transfer flavoprotein beta subunit lysine methyltransferase	protein-coding	131.5	169.5	85.5	2038.5	268.5	92.5	139.0	107.5
Merged-chr16-36827879-1	chr16	36827779	36827979	+	962.0	f0_balb.idr	promoter-TSS (NM_177128)	promoter-TSS (NM_177128)	380.0	NM_001113401	106389.0	Mm.432078	NM_134111	ENSMUSG00000022838	Eaf2	AW048865|FESTA-L|FESTA-S|Festa|Traits|U19	ELL associated factor 2	protein-coding	7.5	14.5	8.0	146.0	11.0	10.5	3.5	11.0
Merged-chr2-35463597-4	chr2	35463489	35463689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21B|LTR|ERV1	-2140.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	67.5	80.0	38.5	809.0	172.0	44.0	78.5	54.5
Merged-chr10-41519949-1	chr10	41519849	41520049	+	1000.0	f0_balb.idr	intron (NM_016898, intron 1 of 5)	CpG	449.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	25.0	30.5	25.5	404.5	59.0	15.5	20.0	36.0
Merged-chr3-21935665-4	chr3	21935548	21935748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141004.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	20.0	35.0	21.0	318.5	75.0	19.5	40.5	35.0
Merged-chr5-121837079-4	chr5	121836972	121837172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008507)	promoter-TSS (NM_008507)	-213.0	NM_008507	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	244.5	394.0	235.0	2054.0	609.0	252.0	236.5	223.0
Merged-chr8-45367307-4	chr8	45367196	45367396	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153535, intron 1 of 13)	intron (NM_153535, intron 1 of 13)	14995.0	NM_153535	212326.0	Mm.51259	NM_153535	ENSMUSG00000070044	Fam149a	AW213256|mKIAA4166	family with sequence similarity 149, member A	protein-coding	7.5	22.0	24.0	432.5	21.0	7.5	18.0	22.5
Merged-chr4-12084150-4	chr4	12084087	12084287	+	947.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110955, intron 2 of 28)	RodERV21-int|LTR|ERV1	3770.0	NM_177861	329795.0	Mm.475125	NM_177861	ENSMUSG00000049488	Tmem67	5330408M12Rik|B230117O07|b2b1163.1Clo|b2b1291.1Clo	transmembrane protein 67	protein-coding	11.0	13.0	4.5	119.5	50.0	11.5	16.0	5.5
Merged-chr4-155223270-4	chr4	155223151	155223351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011385)	promoter-TSS (NM_011385)	-716.0	NM_001357191	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	259.0	384.5	233.0	2333.5	606.0	257.5	245.0	217.0
Merged-chr7-35745348-3	chr7	35745245	35745445	+	908.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 3 of 18)	intron (NM_178704, intron 3 of 18)	9109.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	5.0	5.5	10.5	158.0	1.0	4.5	0.0	3.5
Merged-chr2-148527216-4	chr2	148527102	148527302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83667.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	87.5	64.5	99.5	1405.5	124.5	51.5	79.0	79.5
Merged-chr5-100656500-4	chr5	100656380	100656580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027978, intron 6 of 6)	intron (NM_027978, intron 6 of 6)	17776.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	241.5	365.0	222.5	2847.0	541.0	223.5	272.5	246.5
Merged-chr2-49748738-4	chr2	49748632	49748832	+	884.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 21 of 25)	MIR|SINE|MIR	-38954.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	12.5	20.5	14.0	176.5	25.0	18.5	14.0	16.0
Merged-chr4-95163395-4	chr4	95163265	95163465	+	952.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111143.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	10.0	16.5	25.5	223.0	27.0	4.5	13.0	21.5
Merged-chr16-57558404-4	chr16	57558279	57558479	+	947.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	intron (NM_001177871, intron 1 of 1)	9137.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	28.5	60.5	30.5	302.0	73.0	16.5	8.5	9.0
Merged-chr18-11832999-4	chr18	11832893	11833093	+	866.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045421, intron 1 of 3)	(T)n|Simple_repeat|Simple_repeat	-6281.0	NM_001146287	63955.0	Mm.40717	NM_022021	ENSMUSG00000040957	Cables1	Cables|ik3-1	CDK5 and Abl enzyme substrate 1	protein-coding	11.0	6.0	14.0	249.5	26.5	8.0	9.0	7.0
Merged-chr9-85693349-4	chr9	85693282	85693482	+	868.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175371, intron 25 of 27)	intron (NM_175371, intron 25 of 27)	55952.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	13.0	18.5	11.5	407.5	19.5	10.0	19.0	14.0
Merged-chr16-21793495-4	chr16	21793409	21793609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037957)	promoter-TSS (NR_037957)	-838.0	NR_037958	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	50.5	72.0	54.0	624.5	80.0	30.5	39.5	34.5
Merged-chr14-45664464-4	chr14	45664337	45664537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-6294.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	37.0	56.5	54.5	580.0	226.5	73.5	71.0	49.0
Merged-chr5-28243242-4	chr5	28243145	28243345	+	822.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310512, intron 1 of 3)	intron (NM_001310512, intron 1 of 3)	2543.0	NM_001310512	269637.0	Mm.68286	NM_175651	ENSMUSG00000044681	Cnpy1	1500012D20Rik|9630008K15Rik|AI853839	canopy FGF signaling regulator 1	protein-coding	9.5	17.0	12.5	251.5	18.5	11.0	19.5	4.0
Merged-chr5-113645799-4	chr5	113645657	113645857	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	-2154.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	15.0	13.0	14.5	278.0	32.0	12.0	9.0	14.0
Merged-chr11-114523483-4	chr11	114523397	114523597	+	783.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74637.0	NR_027643	319819.0	Mm.50754	NM_177008	ENSMUSG00000062391	4932435O22Rik	-	RIKEN cDNA 4932435O22 gene	ncRNA	2.0	4.5	7.0	90.0	23.5	12.0	11.0	18.5
Merged-chr10-39520546-3	chr10	39520452	39520652	+	959.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 5 of 13)	intron (NM_001122893, intron 5 of 13)	-92382.0	NM_134000	103213.0	Mm.436686	NM_134000	ENSMUSG00000019842	Traf3ip2	AI429613|Act1|CIKS	TRAF3 interacting protein 2	protein-coding	3.0	17.0	3.0	213.0	16.5	6.5	17.0	13.0
Merged-chr15-97964687-4	chr15	97964554	97964754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201359, intron 1 of 7)	intron (NM_201359, intron 1 of 7)	425.0	NM_001252153	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	42.0	73.0	35.5	398.0	100.5	29.5	34.0	34.5
Merged-chr9-56259839-6	chr9	56259773	56259973	+	796.937012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172924, exon 4 of 7)	exon (NM_172924, exon 4 of 7)	-98803.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	4.5	7.5	4.5	27.0	23.5	16.0	8.0	9.5
Merged-chr16-93888540-6	chr16	93888418	93888618	+	924.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028083, intron 5 of 13)	intron (NM_028083, intron 5 of 13)	4617.0	NM_028083	110749.0	Mm.274222	NM_028083	ENSMUSG00000022945	Chaf1b	2600017H24Rik|C76145|CAF-I p60|CAF-Ip60|CAF1|CAF1A|CAF1P60|MPHOSPH7	chromatin assembly factor 1, subunit B (p60)	protein-coding	7.5	1.5	0.0	72.5	32.5	14.5	11.0	16.5
Merged-chr11-110997481-5	chr11	110997477	110997677	+	930.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252209)	promoter-TSS (NM_001252209)	90.0	NM_001252209	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	11.5	36.5	36.5	309.5	24.0	8.0	14.5	20.0
Merged-chr17-65745068-4	chr17	65744985	65745185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	MTE2a|LTR|ERVL-MaLR	27667.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	32.5	33.0	26.5	473.0	181.5	66.0	67.0	50.0
Merged-chr15-103258437-4	chr15	103258366	103258566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302341)	promoter-TSS (NM_001302341)	-63.0	NM_001302341	18022.0	Mm.457989	NM_008685	ENSMUSG00000058794	Nfe2	NF-E2|NF-E2/P45|p45|p45NFE2|p45nf-e2	nuclear factor, erythroid derived 2	protein-coding	109.0	163.5	125.5	2063.0	196.0	71.0	103.0	81.0
Merged-chr2-71389643-4	chr2	71389534	71389734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026115, intron 1 of 10)	intron (NM_026115, intron 1 of 10)	374.0	NM_026115	107435.0	Mm.272472	NM_026115	ENSMUSG00000027018	Hat1	2410071B14Rik|AA536933|Hat-1|KAT1	histone aminotransferase 1	protein-coding	35.5	71.5	39.0	515.5	142.0	40.5	78.5	43.0
Merged-chr15-67781053-4	chr15	67780937	67781137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	477819.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	142.5	210.0	91.5	1316.0	309.0	142.0	132.5	108.5
Merged-chr15-19856077-1	chr15	19855977	19856177	+	762.0	f0_c57.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	670704.0	NR_155419	102639102.0	Mm.463245	NR_155419	ENSMUSG00000115803	Gm35496	-	predicted gene, 35496	ncRNA	0.0	0.0	0.5	0.0	40.0	14.0	7.5	7.5
Merged-chr12-111691426-4	chr12	111691325	111691525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13320.0	NM_177374	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	32.0	34.5	41.5	624.0	46.0	16.0	41.5	32.5
Merged-chr8-69808855-8	chr8	69808767	69808967	+	993.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198101, intron 1 of 20)	intron (NM_198101, intron 1 of 20)	180.0	NM_198101	78816.0	Mm.324305	NM_198101	ENSMUSG00000036246	Gmip	5031419I10Rik	Gem-interacting protein	protein-coding	8.0	7.5	20.0	75.0	30.0	7.5	10.0	11.0
Merged-chr10-125321661-4	chr10	125321570	125321770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 1 of 5)	intron (NM_001358496, intron 1 of 5)	7293.0	NM_011391	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	60.5	59.0	79.5	929.0	111.0	38.0	75.0	53.0
Merged-chr1-161767376-3	chr1	161767315	161767515	+	747.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21080.0	NM_001205243	14103.0	Mm.3355	NM_010177	ENSMUSG00000000817	Fasl	APT1LG1|CD178|CD95-L|CD95L|Fas-L|Faslg|Tnfsf6|Tnlg1a|gld	Fas ligand (TNF superfamily, member 6)	protein-coding	2.5	5.5	2.0	31.5	30.5	4.5	5.5	13.5
Merged-chr5-59853131-3	chr5	59853024	59853224	+	905.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	132878.0	NR_040683	71057.0	Mm.50817	NR_040682	ENSMUSG00000106013	4933402J10Rik	-	RIKEN cDNA 4933402J10 gene	ncRNA	10.0	8.0	10.0	53.0	31.5	1.0	11.0	16.0
Merged-chr5-117872728-4	chr5	117872612	117872812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 1 of 27)	intron (NM_008712, intron 1 of 27)	5873.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	116.5	204.5	140.0	1587.0	316.0	148.0	132.5	101.0
Merged-chr2-160362848-1	chr2	160362748	160362948	+	748.0	f0_balb.idr	TTS (NM_010658)	TTS (NM_010658)	4217.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	4.5	6.0	12.5	85.5	11.0	5.0	8.0	3.0
Merged-chr1-86526530-4	chr1	86526442	86526642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360831)	promoter-TSS (NM_001360831)	-15.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	363.0	489.0	322.0	4999.5	654.0	292.0	345.5	275.0
Merged-chr1-13342825-3	chr1	13342746	13342946	+	595.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	29583.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	6.5	10.5	6.0	103.0	9.5	5.5	11.5	6.0
Merged-chr7-27302435-3	chr7	27302354	27302554	+	999.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31194.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	1.5	0.0	1.5	28.0	26.5	8.0	5.0	5.5
Merged-chr7-113513724-4	chr7	113513629	113513829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027379)	promoter-TSS (NM_027379)	-105.0	NM_001285831	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	268.0	366.0	291.0	4531.0	561.5	252.5	306.5	221.5
Merged-chr11-26452979-5	chr11	26452999	26453199	+	920.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102382, intron 7 of 11)	MTD|LTR|ERVL-MaLR	66015.0	NR_102382	67030.0	Mm.18875	NM_025923	ENSMUSG00000004018	Fancl	2010322C19Rik|AW554273|B230118H11Rik|Phf9|Pog|gcd	Fanconi anemia, complementation group L	protein-coding	5.5	10.5	15.0	139.0	15.5	10.0	9.5	10.5
Merged-chr19-24265197-4	chr19	24265123	24265323	+	800.75415	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008044, intron 4 of 4)	B3A|SINE|B2	15363.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	8.0	12.5	21.0	93.5	33.0	19.0	31.0	21.5
Merged-chr9-50603915-4	chr9	50603820	50604020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025848)	promoter-TSS (NM_025848)	19.0	NM_013897	30057.0	Mm.335149	NM_013897	ENSMUSG00000039016	Timm8b	Tim8b	translocase of inner mitochondrial membrane 8B	protein-coding	132.0	162.5	84.5	1568.0	285.0	100.0	104.0	114.0
Merged-chr11-83224007-1	chr11	83223907	83224107	+	624.0	f0_c57.idr	intron (NR_015519, intron 1 of 3)	intron (NR_015519, intron 1 of 3)	431.0	NR_015519	100043636.0	Mm.295569	NR_015519	ENSMUSG00000087107	AI662270	AW496474	expressed sequence AI662270	ncRNA	4.5	9.0	4.0	74.0	23.0	7.0	5.0	11.0
Merged-chr11-48816444-4	chr11	48816314	48816514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145377, exon 1 of 6)	exon (NM_145377, exon 1 of 6)	977.0	NM_145377	211007.0	Mm.794	NM_145377	ENSMUSG00000040365	Trim41	AW552703|BC020156|R75223|RINCK	tripartite motif-containing 41	protein-coding	26.5	33.0	35.0	439.0	74.5	30.0	21.0	26.0
Merged-chr1-88224255-4	chr1	88224154	88224354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2766.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	81.0	125.5	128.5	2033.5	315.0	104.0	151.5	168.0
Merged-chr4-150625582-4	chr4	150625482	150625682	+	975.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26592.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	15.5	28.5	12.0	175.0	48.5	17.0	26.0	21.0
Merged-chr2-33047063-4	chr2	33046967	33047167	+	909.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355201, intron 6 of 29)	ORR1F|LTR|ERVL-MaLR	39390.0	NM_001355202	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	22.0	22.5	17.0	387.0	34.5	4.5	14.5	23.5
Merged-chr15-5243272-2	chr15	5243172	5243372	+	792.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008965, intron 1 of 2)	intron (NM_008965, intron 1 of 2)	915.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	6.0	3.5	3.0	59.0	18.5	8.5	10.5	8.5
Merged-chr9-83536286-4	chr9	83536167	83536367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12071.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	58.0	57.0	32.5	1086.5	101.5	25.5	46.0	42.5
Merged-chr4-8842976-4	chr4	8842874	8843074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 18 of 36)	L1MA5A|LINE|L1	91650.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	192.5	274.0	208.5	3139.0	374.0	181.5	190.0	148.5
Merged-chr16-32324029-9	chr16	32323982	32324182	+	862.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8170.0	NM_177633	224111.0	Mm.31275	NM_177633	ENSMUSG00000053774	Ubxn7	A630090P18|AI196514|Ubxd7|mKIAA0794	UBX domain protein 7	protein-coding	11.0	17.0	8.0	139.5	23.0	9.0	13.0	4.5
Merged-chr11-98786684-4	chr11	98786584	98786784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8832.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	98.5	95.0	51.0	741.5	209.0	82.5	79.5	76.0
Merged-chr13-5801959-2	chr13	5801859	5802059	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	56133.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	8.5	6.0	5.0	88.5	18.5	9.0	5.5	6.5
Merged-chr2-84524206-4	chr2	84524094	84524294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17321.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	95.0	125.0	92.5	1430.5	255.0	84.0	113.0	94.5
Merged-chr13-3546882-3	chr13	3546796	3546996	+	624.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	RMER6A|LTR|ERVK	8821.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	6.5	4.5	5.0	70.5	9.5	10.0	6.5	9.0
Merged-chr5-147059505-4	chr5	147059386	147059586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	17086.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	122.5	135.5	111.5	1797.5	91.5	19.5	40.0	35.5
Merged-chr9-57262505-6	chr9	57262394	57262594	+	993.380981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028820, exon 1 of 3)	5' UTR (NM_028820, exon 1 of 3)	105.0	NM_028820	74211.0	Mm.428905	NM_028820	ENSMUSG00000032300	1700017B05Rik	AA682102|D9Ertd278e	RIKEN cDNA 1700017B05 gene	protein-coding	23.0	48.0	31.0	335.0	90.5	29.5	16.0	45.5
Merged-chr8-35394296-4	chr8	35394187	35394387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18546.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	61.0	99.0	89.0	1486.5	154.5	54.5	94.0	87.5
Merged-chr10-67223027-4	chr10	67222929	67223129	+	932.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207221, intron 8 of 25)	intron (NM_207221, intron 8 of 25)	37279.0	NM_001242396	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	17.5	35.5	16.5	307.0	53.0	8.5	16.0	12.0
Merged-chr6-114908170-4	chr6	114908062	114908262	+	906.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	Lx7|LINE|L1	13659.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	13.0	14.0	12.0	177.0	34.0	2.0	15.0	18.0
Merged-chr10-67048444-2	chr10	67048344	67048544	+	627.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	43369.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	9.5	5.0	3.0	30.5	10.0	5.0	5.0	4.5
Merged-chr11-68417990-4	chr11	68417887	68418087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-14138.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	54.0	67.5	42.0	663.5	106.5	44.0	46.0	39.5
Merged-chr6-72958439-4	chr6	72958346	72958546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039392)	promoter-TSS (NM_001039392)	37.0	NM_025284	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	34.0	49.5	29.0	508.0	71.5	20.0	22.0	27.0
Merged-chr5-110598893-3	chr5	110598784	110598984	+	710.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198306, intron 5 of 10)	intron (NM_198306, intron 5 of 10)	-4621.0	NM_001122639	231605.0	Mm.275748	NM_198306	ENSMUSG00000033316	Galnt9	GalNAc-T9	polypeptide N-acetylgalactosaminyltransferase 9	protein-coding	6.5	21.0	5.0	88.0	8.0	8.0	4.5	5.0
Merged-chr16-36920633-4	chr16	36920536	36920736	+	932.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030035, intron 14 of 21)	intron (NM_030035, intron 14 of 21)	-14347.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	5.0	2.0	33.0	339.5	29.0	7.0	18.0	7.0
Merged-chr6-83455496-4	chr6	83455389	83455589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 1 of 11)	intron (NM_001347313, intron 1 of 11)	903.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	73.5	81.0	43.0	772.5	162.0	62.5	57.0	69.0
Merged-chr15-57929572-4	chr15	57929441	57929641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356310, intron 3 of 19)	intron (NM_001356310, intron 3 of 19)	17342.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	64.5	69.0	83.5	1242.0	190.0	59.5	126.5	81.5
Merged-chr5-123897499-4	chr5	123897403	123897603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9772.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	42.0	50.5	22.5	572.0	185.5	35.0	30.0	57.0
Merged-chr12-79208911-4	chr12	79208788	79208988	+	880.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030017)	promoter-TSS (NM_030017)	-25.0	NM_001313971	77974.0	Mm.274373	NM_030017	ENSMUSG00000021123	Rdh12	-	retinol dehydrogenase 12	protein-coding	14.5	10.5	16.5	144.5	23.5	9.0	9.0	9.0
Merged-chr6-29164746-4	chr6	29164654	29164854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133925)	promoter-TSS (NM_133925)	-30.0	NM_133925	68272.0	Mm.40802	NM_026650	ENSMUSG00000029701	Rbm28	2810480G15Rik|AI503051	RNA binding motif protein 28	protein-coding	58.5	107.0	44.0	761.5	85.5	50.5	54.5	58.5
Merged-chr3-88719171-4	chr3	88719058	88719258	+	957.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028056, intron 3 of 5)	intron (NR_028056, intron 3 of 5)	2304.0	NR_028056	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	10.5	19.0	19.0	173.0	43.5	12.0	23.0	23.0
Merged-chr14-51984919-3	chr14	51984895	51985095	+	776.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145921, intron 1 of 23)	CpG	162.0	NM_198249	268739.0	Mm.9239	NM_198249	ENSMUSG00000004562	Arhgef40	E130112L23Rik|Gm669|Solo	Rho guanine nucleotide exchange factor (GEF) 40	protein-coding	6.5	10.5	8.0	75.5	20.0	1.5	3.5	1.5
Merged-chr8-88282856-4	chr8	88282760	88282960	+	982.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109756)	promoter-TSS (NM_001109756)	-132.0	NM_001109756	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	33.5	27.5	23.0	467.0	44.0	11.0	27.0	40.0
Merged-chr2-57103154-3	chr2	57103082	57103282	+	780.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11856.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	5.0	12.0	7.5	200.5	4.5	1.0	6.0	6.5
Merged-chr9-99195256-4	chr9	99195142	99195342	+	668.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	41997.0	NM_001244762	623459.0	Mm.260891	NM_001244762	ENSMUSG00000096316	Faiml	EG623459|Gm6432	Fas apoptotic inhibitory molecule like	protein-coding	10.5	10.5	5.5	162.0	27.0	8.0	6.0	13.5
Merged-chr6-57769257-4	chr6	57769147	57769347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 3 of 4)	intron (NM_146168, intron 3 of 4)	55878.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	225.0	217.5	247.0	2904.5	512.5	153.5	235.0	213.0
Merged-chr4-150586423-3	chr4	150586314	150586514	+	915.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	65760.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	8.0	8.0	5.5	251.0	36.0	3.5	6.0	7.5
Merged-chr4-16087834-2	chr4	16087734	16087934	+	634.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73946.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	4.5	4.5	4.5	25.0	4.0	4.0	3.5	7.0
Merged-chr12-52637943-4	chr12	52637834	52638034	+	987.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-35612.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	24.0	38.0	17.0	471.0	60.5	39.0	13.5	27.0
Merged-chr1-90973433-4	chr1	90973341	90973541	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3821.0	NM_008998	19329.0	Mm.279780	NM_008998	ENSMUSG00000026304	Rab17	AW413472	RAB17, member RAS oncogene family	protein-coding	15.0	30.5	11.5	245.5	80.0	28.5	19.5	28.0
Merged-chr14-103793653-3	chr14	103793521	103793721	+	839.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD1|LINE|L1	50080.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	9.0	11.0	5.5	134.0	10.0	1.5	2.0	3.5
Merged-chr7-16242289-4	chr7	16242163	16242363	+	790.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146005)	promoter-TSS (NM_001146005)	68.0	NM_001146005	319430.0	Mm.239570	NM_176912	ENSMUSG00000074361	C5ar2	C5L2|E030029A11Rik|Gpr77	complement component 5a receptor 2	protein-coding	6.5	5.5	14.0	100.5	13.0	10.0	6.0	11.0
Merged-chr3-144697337-4	chr3	144697245	144697445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 8 of 10)	(T)n|Simple_repeat|Simple_repeat	22990.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	49.0	125.0	57.0	1314.5	281.0	67.5	80.0	66.0
Merged-chr4-154911393-4	chr4	154911307	154911507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12364.0	NM_025582	66469.0	Mm.41868	NM_025582	ENSMUSG00000029059	Fam213b	2810405K02Rik|AI836168|PM/PGFS	family with sequence similarity 213, member B	protein-coding	219.0	349.0	192.0	2672.0	535.0	209.0	253.0	204.5
Merged-chr9-90060082-4	chr9	90059983	90060183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 1 of 10)	B4A|SINE|B4	5816.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	58.5	71.0	54.0	950.0	143.5	43.0	58.5	39.5
Merged-chr11-14449404-3	chr11	14449308	14449508	+	650.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	149817.0	NR_045918	73307.0	Mm.399291	NR_045918	ENSMUSG00000085561	1700046C09Rik	-	RIKEN cDNA 1700046C09 gene	ncRNA	4.0	0.5	1.0	23.5	38.5	14.0	8.5	23.5
Merged-chr14-74732252-4	chr14	74732153	74732353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285423)	promoter-TSS (NM_001285423)	-44.0	NM_001285423	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	128.0	139.5	101.0	1579.5	249.0	87.0	135.0	96.5
Merged-chr3-18055591-4	chr3	18055496	18055696	+	851.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021560, exon 1 of 1)	exon (NM_021560, exon 1 of 1)	1271.0	NM_021560	59058.0	Mm.149938	NM_021560	ENSMUSG00000025128	Bhlhe22	Beta3|Beta3a|Bhlhb5	basic helix-loop-helix family, member e22	protein-coding	11.5	9.0	9.0	192.0	10.5	8.0	11.5	11.0
Merged-chr16-91372948-8	chr16	91372874	91373074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001110498, exon 1 of 7)	5' UTR (NM_001110498, exon 1 of 7)	191.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	19.0	68.5	48.0	546.5	49.5	29.0	26.5	32.5
Merged-chr2-170218600-4	chr2	170218470	170218670	+	994.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75895.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	15.5	20.5	20.0	199.0	43.5	17.5	15.0	14.0
Merged-chr2-122348669-4	chr2	122348571	122348771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001099297)	TTS (NM_001099297)	20247.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	30.5	38.0	29.0	443.0	95.0	49.5	33.5	33.5
Merged-chr12-85346600-4	chr12	85346487	85346687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-7225.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	24.5	62.0	35.5	636.5	83.5	26.0	50.0	49.5
Merged-chr17-14988068-1	chr17	14987968	14988168	+	642.0	f0_balb.idr	intron (NM_001123370, intron 9 of 11)	intron (NM_001123370, intron 9 of 11)	9204.0	NM_001123370	100041574.0	Mm.393767	NM_001123370	ENSMUSG00000036552	9030025P20Rik	D17Zt9e	RIKEN cDNA 9030025P20 gene	protein-coding	11.0	13.5	13.5	108.5	3.5	2.0	1.0	10.5
Merged-chr17-34681232-1	chr17	34681132	34681332	+	614.0	f1_balb.idr	intron (NM_031176, intron 5 of 32)	intron (NM_031176, intron 5 of 32)	10697.0	NM_031176	81877.0	Mm.290527	NM_031176	ENSMUSG00000033327	Tnxb	Tn-mhc|Tnx	tenascin XB	protein-coding	5.5	19.5	4.5	82.0	5.5	7.0	4.5	5.0
Merged-chr6-141066024-4	chr6	141065921	141066121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19A|LTR|ERVK	-183248.0	NM_018779	54611.0	Mm.103728	NM_018779	ENSMUSG00000041741	Pde3a	A930022O17Rik|C87899	phosphodiesterase 3A, cGMP inhibited	protein-coding	59.5	75.5	66.5	1183.5	132.5	36.5	93.5	78.0
Merged-chr5-67427141-2	chr5	67427041	67427241	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001164806, exon 1 of 5)	exon (NM_001164806, exon 1 of 5)	658.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	1.5	7.0	12.5	91.0	11.0	12.0	7.0	13.5
Merged-chr9-111053468-3	chr9	111053464	111053664	+	693.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IMPB_01|Satellite|Satellite	3680.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	8.5	26.0	8.0	124.0	5.5	6.0	1.5	2.5
Merged-chr5-122707586-4	chr5	122707507	122707707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011026)	promoter-TSS (NM_011026)	63.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	90.5	176.0	77.5	818.0	227.0	88.0	119.0	111.0
Merged-chr16-94569513-4	chr16	94569405	94569605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007890)	promoter-TSS (NM_007890)	-701.0	NM_007890	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	237.5	377.5	163.0	2481.0	654.0	226.0	257.5	214.0
Merged-chr11-118424866-3	chr11	118424771	118424971	+	876.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3586.0	NM_001204129	56745.0	Mm.23845	NM_019959	ENSMUSG00000017446	C1qtnf1	1600017K21Rik|CTRP1|Zsig37	C1q and tumor necrosis factor related protein 1	protein-coding	6.0	7.5	11.5	164.5	17.0	11.0	3.5	19.5
Merged-chr7-143459795-3	chr7	143459707	143459907	+	668.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001161624, exon 2 of 4)	exon (NM_001161624, exon 2 of 4)	1243.0	NM_009876	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	6.0	7.0	8.5	67.5	9.5	4.5	5.0	11.5
Merged-chr8-128610914-4	chr8	128610819	128611019	+	905.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74735.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	17.0	11.5	8.5	194.0	19.5	9.0	16.5	15.5
Merged-chr10-43475593-2	chr10	43475493	43475693	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3547.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	4.5	12.0	6.0	67.5	5.5	3.0	9.0	6.0
Merged-chr7-122256850-4	chr7	122256763	122256963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32262.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	69.0	72.5	31.5	737.0	98.5	41.5	30.0	36.0
Merged-chr6-127236715-4	chr6	127236571	127236771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71296.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	119.5	212.5	128.5	1414.0	382.5	166.0	170.5	113.0
Merged-chr1-52748432-4	chr1	52748323	52748523	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21065.0	NM_001357464	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	11.5	18.0	8.0	170.0	47.0	18.5	18.5	5.5
Merged-chr13-6649311-2	chr13	6649211	6649411	+	818.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291071)	promoter-TSS (NM_001291071)	-540.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	10.0	18.0	18.0	356.0	22.5	18.0	9.5	22.0
Merged-chr5-125330272-3	chr5	125330166	125330366	+	754.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	10828.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	9.5	12.5	11.0	78.0	12.0	6.5	4.0	9.5
Merged-chr14-49154036-3	chr14	49153924	49154124	+	719.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18222.0	NM_027492	70646.0	Mm.275688	NM_027492	ENSMUSG00000036282	Naa30	4930487N19Rik|5730533P17Rik|AI447922|AW322455|Nat12	N(alpha)-acetyltransferase 30, NatC catalytic subunit	protein-coding	4.0	7.0	3.0	92.0	19.0	9.0	9.0	13.5
Merged-chr16-46011067-4	chr16	46010944	46011144	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134480)	promoter-TSS (NM_001134480)	-631.0	NM_001134480	433022.0	Mm.380993	NM_001134480	ENSMUSG00000087141	Plcxd2	AW494639|EG433022	phosphatidylinositol-specific phospholipase C, X domain containing 2	protein-coding	30.5	40.0	20.0	499.5	57.5	11.5	26.0	25.5
Merged-chr5-147751841-4	chr5	147751731	147751931	+	770.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-25843.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	6.0	12.0	10.5	99.0	38.0	14.5	10.0	14.5
Merged-chr6-42376372-4	chr6	42376294	42376494	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045169, intron 2 of 3)	intron (NR_045169, intron 2 of 3)	-3126.0	NM_023580	13835.0	Mm.133330	NM_023580	ENSMUSG00000029859	Epha1	5730453L17Rik|AL033318|Eph|Esk	Eph receptor A1	protein-coding	21.0	30.5	45.5	487.0	58.0	16.0	28.5	20.5
Merged-chr14-50838659-3	chr14	50838547	50838747	+	996.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 34 of 54)	intron (NM_009351, intron 34 of 54)	30731.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	20.5	21.0	19.5	436.0	75.5	19.0	28.5	26.5
Merged-chr3-89282185-3	chr3	89282062	89282262	+	889.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1211.0	NM_001162425	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	8.5	16.5	7.0	80.5	24.0	6.0	12.5	17.0
Merged-chr6-114224666-4	chr6	114224575	114224775	+	817.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172890, intron 6 of 13)	intron (NM_172890, intron 6 of 13)	-57960.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	9.5	22.5	6.0	259.0	20.5	13.5	15.5	10.0
Merged-chr16-16829380-4	chr16	16829297	16829497	+	893.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015773)	promoter-TSS (NM_015773)	-34.0	NM_015773	50525.0	Mm.31701	NM_015773	ENSMUSG00000022783	Spag6l	PF16|Spag6|Spag6l1	sperm associated antigen 6-like	protein-coding	7.0	20.5	11.5	159.0	40.0	16.0	12.5	11.0
Merged-chr5-122726284-2	chr5	122726184	122726384	+	721.958374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310718, intron 8 of 10)	intron (NM_001310718, intron 8 of 10)	18740.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	3.0	5.5	2.0	52.0	16.0	7.0	6.5	8.5
Merged-chr3-144604370-3	chr3	144604256	144604456	+	838.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2C2|LTR|ERVL	33929.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	6.5	12.5	6.0	146.0	23.5	8.5	7.5	9.5
Merged-chr2-160873081-4	chr2	160872971	160873171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177263)	promoter-TSS (NM_177263)	-81.0	NM_177263	320799.0	Mm.436734	NM_177263	ENSMUSG00000035877	Zhx3	1810059C13Rik|4932418O04Rik|9530010N21Rik|Tix1|mKIAA0395	zinc fingers and homeoboxes 3	protein-coding	89.5	71.0	69.0	957.5	158.5	77.5	70.0	72.0
Merged-chr15-9127751-1	chr15	9127651	9127851	+	1000.0	f0_balb.idr	intron (NM_013787, intron 3 of 9)	intron (NM_013787, intron 3 of 9)	12703.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	6.0	4.5	11.5	275.5	1.5	0.0	2.0	4.0
Merged-chr6-146776830-4	chr6	146776709	146776909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001346666, exon 12 of 12)	3' UTR (NM_001346666, exon 12 of 12)	-28721.0	NM_001289680	272322.0	Mm.333500	NM_172309	ENSMUSG00000040187	Arntl2	4632430A05Rik|BMAL2|CLIF|MOP9|bHLHe6	aryl hydrocarbon receptor nuclear translocator-like 2	protein-coding	50.0	93.5	86.5	1115.5	148.5	59.0	95.0	44.0
Merged-chr6-83488708-4	chr6	83488595	83488795	+	897.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149734, intron 3 of 6)	intron (NR_149734, intron 3 of 6)	18274.0	NM_013764	27369.0	Mm.42234	NM_013764	ENSMUSG00000014554	Dguok	dGK|dGK1|dGK2|dGK3	deoxyguanosine kinase	protein-coding	17.0	16.5	9.5	278.5	12.5	1.0	15.5	10.0
Merged-chr4-148152036-4	chr4	148151977	148152177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015797)	promoter-TSS (NM_015797)	-48.0	NM_001163706	50762.0	Mm.27445	NM_015797	ENSMUSG00000055401	Fbxo6	AA408845|FBG2|Fbs2|Fbx6b|Fbxo6b	F-box protein 6	protein-coding	163.5	245.5	185.0	2491.0	473.5	200.0	262.5	157.5
Merged-chr13-55728096-3	chr13	55727995	55728195	+	802.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028281, intron 1 of 3)	intron (NM_028281, intron 1 of 3)	727.0	NM_028281	72562.0	Mm.28145	NM_028281	ENSMUSG00000021496	Pcbd2	2700061N24Rik|Dcoh2|Dcohm	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2	protein-coding	6.0	13.5	8.0	99.0	20.5	10.0	8.0	7.5
Merged-chr8-56063367-4	chr8	56063266	56063466	+	924.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080438, intron 5 of 9)	intron (NM_080438, intron 5 of 9)	122541.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	15.0	17.0	15.0	283.0	23.5	10.5	11.5	17.5
Merged-chr15-59552654-4	chr15	59552572	59552772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-95982.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	105.5	138.5	67.0	1281.5	165.0	81.0	70.0	83.0
Merged-chr6-39056104-4	chr6	39056023	39056223	+	678.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 9 of 12)	intron (NM_011539, intron 9 of 12)	11463.0	NR_040523	69986.0	Mm.490941	NR_040523	ENSMUSG00000100121	1700025N23Rik	-	RIKEN cDNA 1700025N23 gene	ncRNA	2.5	11.0	11.5	71.0	27.0	6.5	9.0	9.0
Merged-chr2-148572935-4	chr2	148572842	148573042	+	947.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99673.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	10.0	28.5	9.0	191.5	49.5	13.0	23.5	23.0
Merged-chr9-109023478-4	chr9	109023389	109023589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 9 of 13)	MLT1-int|LTR|ERVL-MaLR	-15078.0	NM_001284332	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	48.0	98.0	35.0	734.0	101.0	46.0	42.0	59.0
Merged-chr3-129634551-3	chr3	129634427	129634627	+	850.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_130450, exon 5 of 5)	3' UTR (NM_130450, exon 5 of 5)	90559.0	NM_001310737	13645.0	Mm.252481	NM_010113	ENSMUSG00000028017	Egf	AI790464	epidermal growth factor	protein-coding	8.5	9.0	22.0	181.5	10.0	10.0	11.5	2.5
Merged-chr11-64837955-4	chr11	64837855	64838055	+	913.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-141080.0	NM_023479	68626.0	Mm.157711	NM_023479	ENSMUSG00000020549	Elac2	1110017O07Rik|D11Wsu80e|Hpc2	elaC ribonuclease Z 2	protein-coding	17.5	20.5	8.0	216.5	27.5	7.0	30.5	19.0
Merged-chr11-20215456-3	chr11	20215354	20215554	+	811.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 1 of 5)	intron (NM_008996, intron 1 of 5)	14042.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	8.5	15.0	9.0	110.5	11.5	9.0	6.0	9.0
Merged-chr18-32204931-4	chr18	32204821	32205021	+	829.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011946, intron 7 of 16)	intron (NM_011946, intron 7 of 16)	-35410.0	NM_133658	13872.0	Mm.282335	NM_133658	ENSMUSG00000024382	Ercc3	BTF2 p89|Ercc-3|XPB	excision repair cross-complementing rodent repair deficiency, complementation group 3	protein-coding	9.5	11.0	3.5	152.5	22.5	4.5	9.5	13.5
Merged-chr14-25773896-4	chr14	25773778	25773978	+	771.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5022.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	15.5	17.5	7.0	135.0	28.5	4.0	9.5	14.5
Merged-chr12-85992643-4	chr12	85992547	85992747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	86394.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	92.5	119.5	62.0	1514.5	161.0	55.0	93.0	69.0
Merged-chr14-52314501-5	chr14	52314272	52314472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015772, exon 2 of 2)	exon (NM_015772, exon 2 of 2)	1951.0	NM_001244916	50524.0	Mm.39487	NM_015772	ENSMUSG00000049532	Sall2	AI225809|AW559097|Msal-2|Sal-2|mKIAA0360|p150(Sal2)	spalt like transcription factor 2	protein-coding	5.5	8.5	5.0	108.0	49.0	11.0	12.0	22.5
Merged-chr6-125243816-3	chr6	125243721	125243921	+	861.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-6794.0	NM_001286753	21940.0	Mm.367714	NM_001033126	ENSMUSG00000030336	Cd27	S152|Tnfrsf7|Tp55	CD27 antigen	protein-coding	5.0	12.5	9.5	255.0	18.0	6.0	13.0	11.0
Merged-chr1-21014663-2	chr1	21014563	21014763	+	806.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_177409, intron 2 of 10)	intron (NM_177409, intron 2 of 10)	63037.0	NM_027974	71877.0	Mm.29178	NM_027974	ENSMUSG00000041809	Efhc1	1700029F22Rik|mRib72-1|myoclonin1	EF-hand domain (C-terminal) containing 1	protein-coding	13.5	17.5	23.5	330.0	6.0	2.0	8.0	7.5
Merged-chr17-46752309-4	chr17	46752208	46752408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305990)	promoter-TSS (NM_001305990)	-94.0	NM_001305988	72029.0	Mm.240325	NM_028065	ENSMUSG00000023973	Cnpy3	1600025D17Rik|2410050O22Rik|AI413153|CAG4A|ERDA5|PRAT4A|Tnrc5	canopy FGF signaling regulator 3	protein-coding	224.5	349.5	216.0	2629.0	466.0	218.0	229.5	204.0
Merged-chr11-74491330-4	chr11	74491232	74491432	+	975.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	MIRb|SINE|MIR	98826.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	15.0	37.0	18.0	320.0	63.0	18.0	25.5	17.0
Merged-chr15-41789578-4	chr15	41789416	41789616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130885)	promoter-TSS (NM_130885)	1.0	NM_130885	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	30.5	25.5	23.0	358.5	40.5	19.5	22.0	30.0
Merged-chr13-30738652-4	chr13	30738548	30738748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10585.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	105.5	131.5	111.5	2128.0	190.0	70.5	140.0	107.5
Merged-chr13-68582112-4	chr13	68582014	68582214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131892)	promoter-TSS (NR_131892)	-10.0	NM_001308475	210009.0	Mm.205514	NM_172480	ENSMUSG00000034617	Mtrr	4732420G08|MSR	5-methyltetrahydrofolate-homocysteine methyltransferase reductase	protein-coding	161.0	189.5	134.0	2035.5	383.0	156.0	208.5	141.0
Merged-chr6-31285428-4	chr6	31285289	31285489	+	931.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040261, intron 3 of 4)	L2c|LINE|L2	65038.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	18.0	21.0	16.0	171.5	37.5	7.0	20.0	13.5
Merged-chr13-20379760-3	chr13	20379659	20379859	+	941.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 15 of 21)	intron (NM_080288, intron 15 of 21)	-93231.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	1.5	13.0	5.5	164.5	14.0	4.5	5.5	8.0
Merged-chr9-72111901-4	chr9	72111789	72111989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253862)	promoter-TSS (NM_001253862)	-70.0	NM_011544	21406.0	Mm.171615	NM_011544	ENSMUSG00000032228	Tcf12	A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20	transcription factor 12	protein-coding	61.5	82.5	42.0	631.0	186.5	59.5	78.5	65.5
Merged-chr14-30944300-7	chr14	30944207	30944407	+	987.642883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1018.0	NM_001306078	16424.0	Mm.3227	NM_008406	ENSMUSG00000006529	Itih1	ITI-HC1|Intin1|Itih-1	inter-alpha trypsin inhibitor, heavy chain 1	protein-coding	9.0	31.5	31.5	151.0	40.5	15.5	9.5	13.5
Merged-chr1-160212976-4	chr1	160212888	160213088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009786)	promoter-TSS (NM_009786)	-96.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	410.5	591.5	419.0	5318.5	933.0	389.0	464.5	311.5
Merged-chr9-120709443-3	chr9	120709358	120709558	+	863.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	132127.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	19.0	20.5	22.0	250.5	0.0	0.0	0.0	0.5
Merged-chr10-59964935-5	chr10	59964760	59964960	+	994.371399	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13090.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	14.5	4.0	13.5	95.0	48.0	20.5	8.5	9.0
Merged-chr7-118482615-4	chr7	118482541	118482741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9334.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	77.0	84.5	59.5	1276.0	93.5	41.5	44.0	49.0
Merged-chr16-25052573-3	chr16	25052459	25052659	+	947.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7080.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	12.0	7.5	12.5	123.5	13.5	2.0	3.0	8.0
Merged-chr9-44182489-4	chr9	44182372	44182572	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	B3|SINE|B2	47814.0	NM_001359530	84004.0	Mm.275003	NM_023061	ENSMUSG00000032135	Mcam	1-gicerin|AV025631|CD146|CD149|Muc18|s-endo|s-gicerin	melanoma cell adhesion molecule	protein-coding	17.5	13.0	9.0	106.0	26.0	3.5	9.5	6.0
Merged-chr2-112257722-2	chr2	112257622	112257822	+	547.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172521, intron 1 of 6)	intron (NM_172521, intron 1 of 6)	1569.0	NM_172521	213765.0	Mm.78965	NM_172521	ENSMUSG00000041358	Nutm1	4932438M10|Nut	NUT midline carcinoma, family member 1	protein-coding	6.5	7.0	5.0	25.5	3.5	0.5	2.0	1.0
Merged-chr16-33751748-4	chr16	33751646	33751846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 12 of 14)	intron (NM_175256, intron 12 of 14)	-42291.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	123.0	193.0	140.5	2518.0	219.0	79.5	93.5	88.0
Merged-chr17-27204496-4	chr17	27204392	27204592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146075)	promoter-TSS (NM_146075)	-54.0	NM_146075	224640.0	Mm.29689	NM_146075	ENSMUSG00000044857	Lemd2	BC026588|Lem2|NET25	LEM domain containing 2	protein-coding	93.0	146.0	71.5	1019.0	295.5	139.5	104.0	83.5
Merged-chr11-62185129-3	chr11	62185028	62185228	+	979.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029936, intron 10 of 12)	intron (NM_001029936, intron 10 of 12)	-63856.0	NM_007413	11541.0	Mm.40740	NM_007413	ENSMUSG00000018500	Adora2b	A2BAR|A2BR|A2b|AA2BR|AI480866|AI605384	adenosine A2b receptor	protein-coding	13.0	22.0	19.0	226.0	12.5	4.5	2.0	2.5
Merged-chr12-86078603-4	chr12	86078502	86078702	+	958.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009368, exon 1 of 7)	5' UTR (NM_009368, exon 1 of 7)	439.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	14.5	28.0	8.5	229.0	90.5	12.5	35.0	30.0
Merged-chr11-90390892-4	chr11	90390786	90390986	+	872.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172563)	promoter-TSS (NM_172563)	31.0	NM_172563	217082.0	Mm.158903	NM_172563	ENSMUSG00000003949	Hlf	E230015K02Rik	hepatic leukemia factor	protein-coding	12.0	15.0	13.5	208.0	16.0	7.0	16.5	12.5
Merged-chr8-71310588-4	chr8	71310463	71310663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	RLTR17|LTR|ERVK	37849.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	89.5	155.5	60.0	887.5	196.5	88.0	87.0	89.0
Merged-chr11-99165108-4	chr11	99164993	99165193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10016.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	91.0	175.0	69.0	374.5	311.0	125.5	90.5	54.5
Merged-chr7-43353332-4	chr7	43353253	43353453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145581, intron 5 of 9)	intron (NM_145581, intron 5 of 9)	2012.0	NM_145581	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	117.5	157.5	149.5	1851.5	227.5	102.0	110.5	101.5
Merged-chr2-102982978-4	chr2	102982881	102983081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81316.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	53.5	123.5	98.0	492.0	140.0	53.0	49.0	35.0
Merged-chr13-89740419-4	chr13	89740347	89740547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081249, intron 1 of 14)	intron (NM_001081249, intron 1 of 14)	2065.0	NM_001081249	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	40.5	69.0	45.0	931.5	126.5	30.5	70.0	47.0
Merged-chr3-85887542-3	chr3	85887409	85887609	+	897.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177130)	promoter-TSS (NM_177130)	9.0	NM_177130	320302.0	Mm.482978	NM_177130	ENSMUSG00000031286	Glt28d2	4732486J07Rik|Glt28d1l	glycosyltransferase 28 domain containing 2	protein-coding	8.5	11.5	5.0	77.0	14.5	6.0	7.0	5.5
Merged-chr5-39838067-4	chr5	39837972	39838172	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-193441.0	NM_010474	15476.0	Mm.12559	NM_010474	ENSMUSG00000051022	Hs3st1	3-Ost|D5Wsu110e|Hsg3ost	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	protein-coding	23.5	32.5	16.5	637.0	67.5	14.0	31.0	32.5
Merged-chr5-121197572-4	chr5	121197489	121197689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6192.0	NM_011202	19247.0	Mm.8681	NM_011202	ENSMUSG00000043733	Ptpn11	2700084A17Rik|AW536184|PTP1D|PTP2C|SAP-2|SH-PTP2|SH-PTP3|SHP-2|Shp2|Syp	protein tyrosine phosphatase, non-receptor type 11	protein-coding	19.5	26.0	20.0	304.5	50.0	23.0	28.5	23.0
Merged-chr15-101319401-2	chr15	101319272	101319472	+	800.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	26160.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	8.0	4.5	5.0	29.0	5.5	0.0	2.5	5.5
Merged-chr2-22781628-4	chr2	22781526	22781726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	L1_Mus4|LINE|L1	7299.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	23.5	68.0	21.5	54.5	122.0	47.0	29.0	7.5
Merged-chr1-44070365-4	chr1	44070262	44070462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32079.0	NM_029368	75623.0	Mm.348017	NM_029368	ENSMUSG00000026049	Tex30	1700029F09Rik|3110030D08Rik	testis expressed 30	protein-coding	36.5	37.0	44.5	922.0	73.0	29.5	43.5	43.5
Merged-chr4-136147043-4	chr4	136146927	136147127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3205.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	40.0	46.0	40.5	531.0	98.0	35.0	52.5	52.5
Merged-chr16-95797364-4	chr16	95797248	95797448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94941.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	47.5	73.5	84.5	1169.0	173.5	51.0	104.5	58.5
Merged-chr17-83212646-4	chr17	83212538	83212738	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2645.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	34.5	22.5	31.0	633.0	48.5	18.0	23.0	24.5
Merged-chr5-64680216-4	chr5	64680131	64680331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69532.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	31.5	50.5	33.5	565.0	81.0	28.5	52.0	30.5
Merged-chr17-45474914-4	chr17	45474820	45475020	+	868.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027649)	promoter-TSS (NM_027649)	18.0	NM_027649	71020.0	Mm.44257	NM_027649	ENSMUSG00000023935	Spats1	1700011H05Rik|4933400B06Rik|Ddip|Srsp1	spermatogenesis associated, serine-rich 1	protein-coding	9.5	27.0	11.5	203.0	24.5	11.5	17.0	12.0
Merged-chr10-69257760-4	chr10	69257651	69257851	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	intron (NM_001252637, intron 4 of 10)	44557.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	17.5	36.0	22.0	299.0	75.5	21.0	31.5	28.5
Merged-chr16-5233565-4	chr16	5233481	5233681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145362)	promoter-TSS (NM_145362)	-40.0	NM_145362	208211.0	Mm.34581	NM_145362	ENSMUSG00000039427	Alg1	HMAT1|HMT1	asparagine-linked glycosylation 1 (beta-1,4-mannosyltransferase)	protein-coding	111.5	149.0	113.5	1330.0	288.5	133.0	120.0	140.0
Merged-chr4-101654778-4	chr4	101654618	101654818	+	862.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175036, intron 2 of 3)	intron (NM_175036, intron 2 of 3)	6935.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	10.0	10.0	4.0	115.5	23.5	8.5	7.5	15.0
Merged-chr3-108591917-2	chr3	108591817	108592017	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001358055, exon 1 of 15)	5' UTR (NM_001358055, exon 1 of 15)	184.0	NM_001358055	99512.0	Mm.285968	NM_181400	ENSMUSG00000040389	Wdr47	1810073M12Rik|AA552998|mKIAA0893	WD repeat domain 47	protein-coding	6.5	10.5	12.0	121.0	9.5	11.5	8.0	9.5
Merged-chr4-132757224-4	chr4	132757112	132757312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133888)	promoter-TSS (NM_133888)	-41.0	NM_133888	100340.0	Mm.287187	NM_133888	ENSMUSG00000028885	Smpdl3b	1110054A24Rik|AU045240|Asml3b	sphingomyelin phosphodiesterase, acid-like 3B	protein-coding	41.0	104.5	34.0	478.0	109.0	38.0	62.0	29.5
Merged-chr1-37315213-4	chr1	37315092	37315292	+	917.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	15354.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	10.5	22.5	15.0	435.0	34.0	10.5	12.0	18.0
Merged-chr17-15564387-4	chr17	15564268	15564468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1045.0	NM_144809	213389.0	Mm.215162	NM_144809	ENSMUSG00000051977	Prdm9	BC012016|Dsbc1|G1-419-29|Meisetz|PRDM9-B|Rcr1|repro7	PR domain containing 9	protein-coding	283.0	318.5	226.5	4193.5	603.5	191.5	280.5	232.0
Merged-chr15-38078941-4	chr15	38078853	38079053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081359)	promoter-TSS (NM_001081359)	-99.0	NM_001081359	70790.0	Mm.476840	NM_027553	ENSMUSG00000037487	Ubr5	Edd|Edd1	ubiquitin protein ligase E3 component n-recognin 5	protein-coding	220.0	348.0	213.5	3177.0	613.5	224.0	332.0	182.5
Merged-chr6-116694177-4	chr6	116694079	116694279	+	937.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178768, exon 5 of 5)	3' UTR (NM_178768, exon 5 of 5)	-20343.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	16.5	10.5	8.0	177.0	48.0	11.0	27.0	27.0
Merged-chr15-79830538-2	chr15	79830449	79830649	+	850.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013362, intron 4 of 8)	intron (NM_001013362, intron 4 of 8)	3784.0	NM_001013360	504193.0	Mm.38438	NM_029079	ENSMUSG00000089837	Npcd	Cbx6-Nptxr	neuronal pentraxin chromo domain	protein-coding	4.0	2.5	2.5	54.5	15.0	6.5	4.5	6.5
Merged-chr2-24297036-3	chr2	24296936	24297136	+	693.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5840.0	NM_153077	215274.0	Mm.218750	NM_153077	ENSMUSG00000046845	Il1f10	-	interleukin 1 family, member 10	protein-coding	7.5	14.0	2.0	119.0	23.5	13.0	13.5	12.0
Merged-chr12-85490581-4	chr12	85490490	85490690	+	991.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16700.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	24.5	34.5	15.0	476.5	70.5	34.0	36.0	15.5
Merged-chr7-100431307-4	chr7	100431170	100431370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 22 of 32)	intron (NM_001017985, intron 22 of 32)	-41721.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	58.5	39.5	60.0	693.5	276.0	85.5	134.5	97.0
Merged-chr8-72487184-4	chr8	72487081	72487281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177766, intron 4 of 5)	intron (NM_177766, intron 4 of 5)	5433.0	NM_177766	270066.0	Mm.291461	NM_177766	ENSMUSG00000019731	Slc35e1	6030458H05|AA408278	solute carrier family 35, member E1	protein-coding	31.0	33.5	22.5	352.5	70.5	23.5	27.0	24.0
Merged-chr9-78526317-3	chr9	78526233	78526433	+	907.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44609.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	5.5	9.5	7.5	154.0	7.5	6.0	3.5	10.5
Merged-chr9-90216204-1	chr9	90216104	90216304	+	970.0	f1_balb.idr	intron (NM_194334, intron 9 of 12)	intron (NM_194334, intron 9 of 12)	53226.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	5.5	3.0	9.0	58.0	15.0	4.5	7.5	6.0
Merged-chr13-94468201-2	chr13	94468101	94468301	+	603.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009680, intron 15 of 26)	ID4|SINE|ID	109241.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	8.0	5.0	3.0	59.5	12.5	8.5	7.0	9.5
Merged-chr3-109340726-5	chr3	109340706	109340906	+	923.0285640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020505, exon 1 of 27)	5' UTR (NM_020505, exon 1 of 27)	123.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	14.0	22.5	12.5	175.0	34.5	21.5	26.5	32.0
Merged-chr16-59421046-4	chr16	59420938	59421138	+	751.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081190, intron 2 of 8)	intron (NM_001081190, intron 2 of 8)	13656.0	NM_001081190	328699.0	Mm.451970	NM_001081190	ENSMUSG00000074991	Gabrr3	-	gamma-aminobutyric acid (GABA) receptor, rho 3	protein-coding	13.0	5.5	4.0	192.5	24.0	7.5	9.5	15.5
Merged-chr6-29523610-4	chr6	29523500	29523700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3025.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	69.0	100.0	43.0	840.0	182.5	53.0	70.5	85.5
Merged-chr5-140701914-2	chr5	140701814	140702014	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347517, intron 1 of 22)	CpG	464.0	NM_028833	74239.0	Mm.179704	NM_028833	ENSMUSG00000036555	Iqce	1700028P05Rik|mKIAA1023	IQ motif containing E	protein-coding	15.0	25.0	15.5	151.0	36.5	24.0	15.5	11.5
Merged-chr5-43868019-5	chr5	43868001	43868201	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007646)	promoter-TSS (NM_007646)	-708.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	43.0	70.0	49.0	251.0	48.0	22.0	23.0	11.5
Merged-chr5-99339890-4	chr5	99339756	99339956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-86929.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	183.0	293.0	280.5	4225.0	460.5	180.0	249.5	251.0
Merged-chr19-37604162-3	chr19	37604061	37604261	+	912.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175353, intron 17 of 21)	intron (NM_175353, intron 17 of 21)	53743.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	11.0	13.0	16.0	259.5	11.0	10.0	6.0	10.5
Merged-chr1-58716355-3	chr1	58716199	58716399	+	839.88092	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	3013.0	NM_001355056	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	5.5	9.0	8.0	41.0	9.5	4.5	3.0	2.5
Merged-chr15-13384948-3	chr15	13384857	13385057	+	800.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-211282.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	9.5	4.5	14.0	233.0	13.0	4.0	11.5	7.0
Merged-chr5-45448826-3	chr5	45448747	45448947	+	662.211121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024236, intron 1 of 6)	MTD|LTR|ERVL-MaLR	1382.0	NM_024236	110391.0	Mm.30204	NM_024236	ENSMUSG00000015806	Qdpr	2610008L04Rik|D5Ertd371e|Dhpr|PKU2	quinoid dihydropteridine reductase	protein-coding	4.0	7.0	9.0	134.5	18.0	4.5	6.5	5.0
Merged-chr16-17409697-3	chr16	17409599	17409799	+	948.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023348, intron 1 of 4)	intron (NM_023348, intron 1 of 4)	-3385.0	NM_001001983	224020.0	Mm.5718	NM_001001983	ENSMUSG00000041720	Pi4ka	Pik4ca	phosphatidylinositol 4-kinase alpha	protein-coding	11.5	28.0	16.0	144.0	19.5	5.5	6.5	4.5
Merged-chr7-84171473-4	chr7	84171343	84171543	+	899.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19550.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	6.0	5.0	5.5	139.0	41.0	6.5	21.5	16.0
Merged-chr9-123818827-2	chr9	123818727	123818927	+	572.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110253, intron 14 of 17)	intron (NM_001110253, intron 14 of 17)	12350.0	NM_030712	80901.0	Mm.124289	NM_030712	ENSMUSG00000048521	Cxcr6	BB217514|BONZO|STRL33	chemokine (C-X-C motif) receptor 6	protein-coding	8.5	6.0	8.5	62.5	7.5	4.0	4.5	7.0
Merged-chr8-120324804-4	chr8	120324740	120324940	+	970.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96610.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	12.5	19.0	17.5	218.0	57.5	19.5	17.5	27.0
Merged-chr2-103567120-4	chr2	103567019	103567219	+	869.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178890, exon 1 of 17)	exon (NM_178890, exon 1 of 17)	809.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	11.0	15.0	16.5	135.0	27.0	14.5	12.0	19.0
Merged-chr10-10468876-4	chr10	10468771	10468971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	3443.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	35.0	39.0	30.5	655.0	166.0	47.5	70.5	46.0
Merged-chr13-5592056-4	chr13	5591964	5592164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	266028.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	38.0	44.5	24.0	286.0	81.0	18.0	37.5	33.0
Merged-chr13-23436419-4	chr13	23436346	23436546	+	824.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5429.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	9.5	12.0	14.0	93.0	26.5	2.5	7.0	12.5
Merged-chr13-41263498-4	chr13	41263396	41263596	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135577, intron 1 of 1)	intron (NM_001135577, intron 1 of 1)	13652.0	NM_001135577	108934.0	Mm.38578	NM_001135577	ENSMUSG00000091264	Smim13	2900036K02Rik	small integral membrane protein 13	protein-coding	7.0	11.0	11.5	172.0	28.5	13.0	9.5	6.5
Merged-chr7-59248680-1	chr7	59248580	59248780	+	854.0	f0_balb.idr	intron (NM_011668, intron 4 of 12)	L1MB2|LINE|L1	19930.0	NM_173010	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	10.0	4.5	6.0	155.0	0.5	3.0	1.0	0.0
Merged-chr6-28867752-4	chr6	28867650	28867850	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 16 of 23)	intron (NM_019776, intron 16 of 23)	-36003.0	NM_138682	192198.0	Mm.443660	NM_138682	ENSMUSG00000049939	Lrrc4	MBAG1|NGL-2|NGL2|NLG-2|Nag14	leucine rich repeat containing 4	protein-coding	16.5	44.5	28.5	179.0	58.0	23.0	24.0	17.0
Merged-chr10-30781222-4	chr10	30781125	30781325	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	22101.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	13.5	20.5	18.5	197.0	26.5	7.5	10.0	7.5
Merged-chr4-149791725-4	chr4	149791646	149791846	+	836.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17479.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	7.5	8.0	9.5	65.0	27.0	18.0	8.5	19.0
Merged-chr11-76027801-4	chr11	76027694	76027894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029658)	promoter-TSS (NM_029658)	-12.0	NM_029658	76566.0	Mm.34131	NM_029658	ENSMUSG00000020846	Rflnb	1500005K14Rik|Fam101b|RefilinB|cfm	refilin B	protein-coding	60.5	69.5	27.0	527.0	100.0	46.0	47.5	29.5
Merged-chr1-105999198-4	chr1	105999085	105999285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	8779.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	19.5	39.5	16.0	553.0	59.5	17.0	23.0	20.0
Merged-chr18-36304553-4	chr18	36304461	36304661	+	912.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4460.0	NM_001267796	109169.0	Mm.426423	NM_001267796	ENSMUSG00000110185	Igip	6330403M23Rik	IgA inducing protein	protein-coding	23.0	10.5	9.0	260.5	49.0	11.5	13.5	21.0
Merged-chr9-95698009-2	chr9	95697909	95698109	+	995.5833130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	52349.0	NM_001311123	22063.0	Mm.149633	NM_011643	ENSMUSG00000032839	Trpc1	Mtrp1|Trp1|Trrp1	transient receptor potential cation channel, subfamily C, member 1	protein-coding	4.0	7.5	3.0	21.0	14.0	13.0	8.5	6.5
Merged-chr9-48266789-2	chr9	48266689	48266889	+	849.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74109.0	NM_030069	78252.0	Mm.31626	NM_030069	ENSMUSG00000032028	Nxpe2	4432416J03Rik|AI323362|Fam55b	neurexophilin and PC-esterase domain family, member 2	protein-coding	2.5	1.0	0.0	18.5	7.0	8.0	5.0	9.0
Merged-chr8-86757536-4	chr8	86757425	86757625	+	731.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11519.0	NM_009172	20437.0	Mm.324553	NM_009172	ENSMUSG00000036840	Siah1a	AA982064|AI853500|Sinh1a	siah E3 ubiquitin protein ligase 1A	protein-coding	7.0	12.5	4.5	93.5	27.0	5.0	13.5	11.5
Merged-chr12-78923959-3	chr12	78923864	78924064	+	809.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17026.0	NM_013738	27260.0	Mm.103380	NM_013738	ENSMUSG00000021118	Plek2	-	pleckstrin 2	protein-coding	9.0	19.0	8.0	136.0	11.0	9.5	8.5	11.0
Merged-chr7-143024513-4	chr7	143024379	143024579	+	703.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110354, intron 4 of 4)	Lx7|LINE|L1	18820.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	5.5	7.0	6.5	149.0	22.0	13.0	12.0	5.0
Merged-chr7-134693356-4	chr7	134693246	134693446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	MTD|LTR|ERVL-MaLR	22659.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	38.0	41.5	34.5	473.0	66.0	18.5	32.0	39.0
Merged-chr3-96883591-4	chr3	96883469	96883669	+	856.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026229, intron 7 of 13)	intron (NM_026229, intron 7 of 13)	21729.0	NM_026229	67549.0	Mm.46722	NM_026229	ENSMUSG00000028096	Gpr89	4933412D19Rik|Gpr89a|SH120	G protein-coupled receptor 89	protein-coding	4.0	11.0	9.0	234.0	37.5	10.5	15.5	16.0
Merged-chr5-134258634-4	chr5	134258507	134258707	+	901.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359066, intron 15 of 32)	intron (NM_001359066, intron 15 of 32)	-28982.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	29.5	35.5	32.5	254.5	28.0	6.5	8.0	10.0
Merged-chr6-120795697-4	chr6	120795586	120795786	+	922.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007510, exon 9 of 9)	3' UTR (NM_007510, exon 9 of 9)	21918.0	NM_001081048	71803.0	Mm.425340	NM_001081048	ENSMUSG00000004902	Slc25a18	1500015I14Rik|AW125787	solute carrier family 25 (mitochondrial carrier), member 18	protein-coding	11.0	15.5	22.0	192.0	30.5	16.5	16.0	11.0
Merged-chr9-120602942-4	chr9	120602862	120603062	+	942.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25631.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	23.5	25.0	19.5	224.0	48.5	10.0	13.0	18.5
Merged-chr6-134106014-4	chr6	134105927	134106127	+	835.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	70327.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	23.0	10.5	11.0	287.0	63.0	9.0	13.5	6.5
Merged-chr2-18056114-2	chr2	18056014	18056214	+	852.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_149308, intron 1 of 9)	intron (NR_149308, intron 1 of 9)	386.0	NR_149308	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	2.5	4.0	3.0	16.5	25.5	5.0	5.5	10.0
Merged-chr2-120424499-3	chr2	120424350	120424550	+	963.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172672, intron 6 of 23)	intron (NM_172672, intron 6 of 23)	-20334.0	NM_001110496	211499.0	Mm.260712	NM_173734	ENSMUSG00000033808	Tmem87a	A930025J12Rik	transmembrane protein 87A	protein-coding	21.5	7.0	14.5	169.5	12.5	5.0	7.0	10.5
Merged-chr18-73745090-4	chr18	73744998	73745198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053255, intron 2 of 3)	intron (NM_053255, intron 2 of 3)	9381.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	66.0	60.5	55.0	955.0	101.0	37.5	44.5	48.0
Merged-chr11-101425562-2	chr11	101425462	101425662	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026865)	promoter-TSS (NM_026865)	-234.0	NM_001361123	73635.0	Mm.472804	NM_026865	ENSMUSG00000097487	Ptges3l	1110069E20Rik|1700113I22Rik	prostaglandin E synthase 3 like	protein-coding	5.0	12.5	12.5	70.5	23.5	9.5	14.0	7.0
Merged-chr4-141858774-4	chr4	141858665	141858865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025994, exon 4 of 4)	3' UTR (NM_025994, exon 4 of 4)	-12406.0	NM_001033875	76701.0	Mm.489680	NM_001033875	ENSMUSG00000062478	Ctrc	1810044E12Rik	chymotrypsin C (caldecrin)	protein-coding	84.5	146.0	62.5	606.0	275.0	91.0	92.5	103.0
Merged-chr7-17024008-4	chr7	17023866	17024066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011155, intron 1 of 12)	intron (NM_011155, intron 1 of 12)	3948.0	NM_011155	19060.0	Mm.3294	NM_011155	ENSMUSG00000003099	Ppp5c	AU020526|PP5	protein phosphatase 5, catalytic subunit	protein-coding	56.0	89.0	60.0	997.5	142.0	37.0	98.5	59.0
Merged-chr1-165643209-4	chr1	165643100	165643300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8659.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	23.5	26.0	32.5	334.0	54.5	21.0	34.0	27.5
Merged-chr8-84893903-4	chr8	84893783	84893983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008097)	promoter-TSS (NM_008097)	38.0	NM_001044744	270076.0	Mm.2475	NM_008097	ENSMUSG00000003809	Gcdh	9030411L18|AI266902|D17825|GCD	glutaryl-Coenzyme A dehydrogenase	protein-coding	136.0	251.5	131.0	2328.5	377.5	127.0	175.0	127.5
Merged-chr5-148959235-2	chr5	148959135	148959335	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8985.0	NR_040686	71473.0	Mm.90306	NR_040686	ENSMUSG00000079069	8430423G03Rik	-	RIKEN cDNA 8430423G03 gene	ncRNA	11.0	4.5	8.0	36.0	15.0	6.0	4.0	8.5
Merged-chr6-97457392-4	chr6	97457281	97457481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	1905.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	186.0	242.0	219.5	2512.0	327.0	131.5	178.0	150.0
Merged-chr10-120234156-3	chr10	120234041	120234241	+	772.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7081.0	NM_025431	66225.0	Mm.291755	NM_025431	ENSMUSG00000020224	Llph	1190005P17Rik	LLP homolog, long-term synaptic facilitation (Aplysia)	protein-coding	0.5	2.0	1.0	25.0	42.0	4.5	9.5	11.5
Merged-chr7-109646691-4	chr7	109646589	109646789	+	876.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie2a|DNA|hAT-Charlie	-29542.0	NM_029811	76954.0	Mm.252009	NM_029811	ENSMUSG00000031024	St5	2010004M01Rik|2610305K15Rik	suppression of tumorigenicity 5	protein-coding	7.5	14.5	6.5	173.0	31.0	8.0	11.0	8.5
Merged-chr1-152528391-4	chr1	152528295	152528495	+	809.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346119, exon 15 of 18)	exon (NM_001346119, exon 15 of 18)	96822.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	9.0	16.5	9.0	191.5	25.5	9.0	7.0	13.0
Merged-chr7-116504846-1	chr7	116504746	116504946	+	855.0	f0_balb.idr	intron (NM_001130479, intron 1 of 13)	intron (NM_001130479, intron 1 of 13)	477.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	4.0	10.0	11.5	144.0	17.0	9.5	18.0	5.0
Merged-chr11-60046447-4	chr11	60046336	60046536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290012)	promoter-TSS (NM_001290012)	53.0	NM_001290012	18618.0	Mm.2731	NM_008819	ENSMUSG00000000301	Pemt	PEAMT|PEMT2|PLMT|Pempt|Pempt2	phosphatidylethanolamine N-methyltransferase	protein-coding	82.0	102.5	88.5	692.0	108.5	59.0	46.5	48.0
Merged-chr3-115789295-4	chr3	115789202	115789402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74247.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	40.5	43.0	88.0	1350.0	75.5	17.0	46.0	37.5
Merged-chr2-132263072-4	chr2	132262983	132263183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138651)	promoter-TSS (NM_138651)	-65.0	NM_001291040	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	219.5	331.5	219.5	3202.5	528.0	233.0	256.5	219.0
Merged-chr11-59392515-4	chr11	59392409	59392609	+	965.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16856.0	NM_001045521	216797.0	Mm.339586	NM_001045521	ENSMUSG00000049291	Prss38	Gm249|Mpn2	protease, serine 38	protein-coding	35.5	43.5	41.0	625.5	121.5	10.5	30.5	46.0
Merged-chr18-84439004-3	chr18	84438885	84439085	+	849.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 3 of 8)	L1_Mus3|LINE|L1	150519.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	7.5	5.5	13.5	77.5	6.5	4.5	5.5	7.0
Merged-chr19-10203965-4	chr19	10203891	10204091	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026919)	promoter-TSS (NM_026919)	-48.0	NM_001271614	14156.0	Mm.2952	NM_007999	ENSMUSG00000024742	Fen1	AW538437|FEN-1	flap structure specific endonuclease 1	protein-coding	24.5	83.0	57.0	409.0	88.0	35.5	21.0	28.0
Merged-chr3-116053532-4	chr3	116053443	116053643	+	930.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45246.0	NM_001163514	58193.0	Mm.41739	NM_021388	ENSMUSG00000027963	Extl2	3000001D04Rik|AW146439	exostoses (multiple)-like 2	protein-coding	9.5	20.0	15.5	268.0	32.5	6.0	15.0	5.5
Merged-chr6-128201545-3	chr6	128201441	128201641	+	970.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17738.0	NR_077223	330427.0	Mm.426356	NR_077223	ENSMUSG00000107879	9330102E08Rik	-	RIKEN cDNA 9330102E08 gene	ncRNA	18.0	35.5	13.0	274.0	17.5	8.5	9.0	18.5
Merged-chr2-160070575-4	chr2	160070481	160070681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53928.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	133.0	202.5	126.0	1637.5	371.5	144.5	107.5	157.0
Merged-chr19-36083727-4	chr19	36083627	36083827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019428)	promoter-TSS (NM_019428)	11.0	NM_019428	54364.0	Mm.277891	NM_019428	ENSMUSG00000024800	Rpp30	Rnasep2|TSG15	ribonuclease P/MRP 30 subunit	protein-coding	61.0	60.5	59.5	850.5	83.0	22.0	63.5	57.5
Merged-chr15-74679246-3	chr15	74679109	74679309	+	749.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6639.0	NM_018790	11838.0	Mm.491310	NM_018790	ENSMUSG00000022602	Arc	Arc3.1|C86064|arg3.1|mArc	activity regulated cytoskeletal-associated protein	protein-coding	4.5	5.0	9.0	48.5	11.0	2.0	8.5	5.0
Merged-chr1-153559459-4	chr1	153559380	153559580	+	717.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9766.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	9.0	12.0	3.0	79.0	28.5	10.0	7.0	12.0
Merged-chr10-121583207-4	chr10	121583109	121583309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019786, intron 2 of 20)	intron (NM_019786, intron 2 of 20)	3585.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	57.5	111.5	32.0	552.5	157.5	70.0	47.0	35.5
Merged-chr2-60120875-4	chr2	60120754	60120954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	4886.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	53.5	120.0	62.0	1236.0	191.0	47.0	63.5	54.0
Merged-chr11-114851012-4	chr11	114850901	114851101	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110337)	promoter-TSS (NM_001110337)	-531.0	NM_001110337	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	34.5	24.5	16.0	166.5	43.0	22.0	19.0	18.0
Merged-chr11-11730291-4	chr11	11730193	11730393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301865, intron 3 of 6)	intron (NM_001301865, intron 3 of 6)	40116.0	NM_001301863	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	153.5	184.0	193.0	2363.0	256.0	118.5	152.5	130.5
Merged-chr4-122848215-4	chr4	122848088	122848288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 4 of 8)	intron (NM_008917, intron 4 of 8)	11961.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	121.5	160.5	77.5	1513.0	285.5	97.0	138.5	122.0
Merged-chr11-103320422-4	chr11	103320342	103320542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24260.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	45.0	111.0	38.0	432.5	145.5	45.5	50.5	30.0
Merged-chr1-176223453-4	chr1	176223357	176223557	+	939.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357846, intron 1 of 8)	intron (NM_001357846, intron 1 of 8)	-9515.0	NM_001195816	319455.0	Mm.338001	NM_176916	ENSMUSG00000055214	Pld5	B230365F16Rik	phospholipase D family, member 5	protein-coding	26.5	34.5	13.5	250.5	32.5	16.5	18.5	13.0
Merged-chr12-33281033-2	chr12	33280932	33281132	+	882.541626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-21483.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	2.5	8.5	3.0	76.0	18.5	8.5	5.5	6.5
Merged-chr1-64603582-2	chr1	64603482	64603682	+	807.166626	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009952, exon 9 of 9)	3' UTR (NM_009952, exon 9 of 9)	13586.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	5.0	7.5	1.5	95.0	20.5	5.0	9.5	6.0
Merged-chr15-61157692-4	chr15	61157582	61157782	+	801.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-236412.0	NM_001081067	117586.0	Mm.291499	NM_001081067	ENSMUSG00000022347	A1bg	C44	alpha-1-B glycoprotein	protein-coding	3.5	10.0	8.5	103.5	28.0	8.0	5.5	11.0
Merged-chr2-121452218-4	chr2	121452111	121452311	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_110986, exon 3 of 3)	non-coding (NR_110986, exon 3 of 3)	3013.0	NR_110986	378702.0	Mm.262252	NM_011354	ENSMUSG00000074884	Serf2	C80083|Msmac1l|m4F5rel	small EDRK-rich factor 2	protein-coding	22.0	18.0	16.5	154.5	68.5	30.0	21.5	32.5
Merged-chr19-5637398-4	chr19	5637263	5637463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009045)	promoter-TSS (NM_009045)	-127.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	83.5	206.0	75.0	890.0	254.0	121.0	106.5	91.0
Merged-chr17-65718789-4	chr17	65718675	65718875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 2 of 6)	MTC|LTR|ERVL-MaLR	53977.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	39.0	45.5	30.0	534.0	101.0	28.0	39.0	34.0
Merged-chr17-83213531-4	chr17	83213394	83213594	+	769.027771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1789.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	5.0	4.5	5.5	68.5	24.0	6.5	9.0	2.5
Merged-chr3-96572127-4	chr3	96572026	96572226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5325.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	50.5	90.0	64.5	929.0	160.0	56.5	84.0	57.5
Merged-chr13-113617757-3	chr13	113617683	113617883	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_130796, exon 1 of 2)	exon (NM_130796, exon 1 of 2)	781.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	24.0	65.0	50.0	297.0	81.0	26.5	30.5	21.5
Merged-chr1-136126377-4	chr1	136126273	136126473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	4810.0	NR_046170	329253.0	Mm.487858	NR_046167	ENSMUSG00000086264	Gm15850	6530439I21	predicted gene 15850	ncRNA	26.5	20.0	24.0	618.0	83.0	29.5	53.0	28.5
Merged-chr2-72197234-3	chr2	72197133	72197333	+	804.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 8 of 26)	intron (NM_001355478, intron 8 of 26)	-88404.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	2.0	0.0	0.0	21.0	26.0	12.5	16.0	10.5
Merged-chr4-63508411-3	chr4	63508330	63508530	+	897.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-12439.0	NM_001008791	73750.0	Mm.300397	NM_028640	ENSMUSG00000039137	Whrn	1110035G07Rik|AW122018|AW742671|C430046P22Rik|Dfnb31|Ush2d|wi	whirlin	protein-coding	9.0	7.5	4.5	165.5	21.0	6.5	23.0	9.5
Merged-chr4-106678933-4	chr4	106678799	106678999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028209)	promoter-TSS (NM_028209)	45.0	NM_028209	72354.0	Mm.25806	NM_028209	ENSMUSG00000025413	Ttc4	2810002P21Rik|AF007005|L62	tetratricopeptide repeat domain 4	protein-coding	56.0	86.0	48.0	604.0	133.5	37.0	70.0	54.5
Merged-chr11-97546089-4	chr11	97546004	97546204	+	967.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 3 of 19)	(CA)n|Simple_repeat|Simple_repeat	29022.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	19.0	17.5	15.5	235.0	52.5	12.5	18.0	31.0
Merged-chr15-98805452-3	chr15	98805336	98805536	+	864.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013741, exon 2 of 2)	exon (NM_001013741, exon 2 of 2)	2489.0	NM_001013741	13199.0	Mm.390810	NM_001013741	ENSMUSG00000059213	Ddn	Gm748	dendrin	protein-coding	2.5	13.0	10.0	50.5	21.5	9.0	6.0	8.5
Merged-chr11-11836931-3	chr11	11836885	11837085	+	622.666687	f0_balb.idr|f1_balb.idr	intron (NM_016672, intron 8 of 14)	intron (NM_016672, intron 8 of 14)	-28023.0	NM_001163360	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	4.5	6.0	4.5	85.0	8.0	4.0	3.0	5.0
Merged-chr1-138192197-4	chr1	138192113	138192313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16908.0	NM_001268286	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	97.0	127.5	100.0	1770.0	148.5	56.5	83.5	56.0
Merged-chr7-34389267-2	chr7	34389167	34389367	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025948, intron 1 of 10)	CpG	438.0	NM_001360654	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	32.5	35.0	32.5	397.0	55.5	13.0	25.0	32.0
Merged-chr8-112034876-4	chr8	112034762	112034962	+	883.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23503.0	NM_020584	57321.0	Mm.213064	NM_020584	ENSMUSG00000033430	Terf2ip	Rap1	telomeric repeat binding factor 2, interacting protein	protein-coding	6.0	9.0	6.0	113.5	51.5	9.0	21.5	13.0
Merged-chr10-59263181-4	chr10	59263085	59263285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41263.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	44.5	69.0	59.0	813.5	189.0	49.5	56.5	59.0
Merged-chr1-75141677-4	chr1	75141554	75141754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356264)	promoter-TSS (NM_001356264)	37.0	NM_001356264	69171.0	Mm.28193	NM_026977	ENSMUSG00000033159	Cnppd1	1810031K17Rik|AU043960	cyclin Pas1/PHO80 domain containing 1	protein-coding	35.5	56.0	45.0	657.0	96.0	37.0	47.5	37.5
Merged-chr10-56107348-4	chr10	56107250	56107450	+	768.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163833, intron 1 of 1)	intron (NM_001163833, intron 1 of 1)	433.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	7.0	14.0	11.0	137.0	13.0	5.0	12.5	9.0
Merged-chr2-103970114-4	chr2	103970029	103970229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142335)	promoter-TSS (NM_001142335)	-158.0	NM_008505	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	86.5	103.0	66.0	1196.0	168.5	80.5	65.0	75.5
Merged-chr1-87640511-4	chr1	87640404	87640604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	20192.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	115.0	153.5	131.0	1753.5	235.5	57.0	116.5	109.5
Merged-chr4-155694774-4	chr4	155694690	155694890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178699, exon 1 of 1)	exon (NM_178699, exon 1 of 1)	448.0	NM_178699	230991.0	Mm.29083	NM_178699	ENSMUSG00000074738	Fndc10	B930041F14Rik|MNCb-3966	fibronectin type III domain containing 10	protein-coding	23.0	42.0	21.5	422.5	55.5	20.0	23.5	37.0
Merged-chr9-49486163-4	chr9	49486069	49486269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172770)	promoter-TSS (NM_172770)	56.0	NM_172770	235330.0	Mm.177413	NM_172770	ENSMUSG00000040219	Ttc12	E330017O07Rik	tetratricopeptide repeat domain 12	protein-coding	79.0	104.5	89.0	1307.0	142.0	68.5	115.0	80.0
Merged-chr17-49016373-4	chr17	49016280	49016480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027452, intron 1 of 2)	intron (NM_027452, intron 1 of 2)	83798.0	NM_027452	70530.0	Mm.133607	NM_027452	ENSMUSG00000040490	Lrfn2	5730420O05Rik|SALM1|mKIAA1246	leucine rich repeat and fibronectin type III domain containing 2	protein-coding	40.5	56.5	24.5	368.0	99.0	29.5	46.0	25.0
Merged-chr7-126780134-4	chr7	126780074	126780274	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026875, exon 5 of 5)	3' UTR (NM_026875, exon 5 of 5)	-1309.0	NM_011538	21389.0	Mm.727	NM_011538	ENSMUSG00000030699	Tbx6	rv	T-box 6	protein-coding	27.0	45.5	17.5	284.0	84.5	18.0	22.5	19.0
Merged-chr18-54900108-4	chr18	54900020	54900220	+	973.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 3 of 8)	intron (NM_001360787, intron 3 of 8)	90060.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	21.0	19.5	10.0	203.5	36.5	14.5	6.0	25.5
Merged-chr15-79455015-4	chr15	79454911	79455111	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12868.0	NM_001359863	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	13.5	21.0	11.0	205.5	41.0	19.5	24.5	16.5
Merged-chr18-65583918-4	chr18	65583792	65583992	+	904.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361051, intron 1 of 8)	intron (NM_001361051, intron 1 of 8)	691.0	NM_001361051	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	14.0	10.5	25.0	421.5	21.0	3.0	16.5	13.5
Merged-chr8-47553859-4	chr8	47553766	47553966	+	849.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	20221.0	NM_203507	192174.0	Mm.273081	NM_203507	ENSMUSG00000031568	Rwdd4a	BC016198|Gm1942|Rwdd4	RWD domain containing 4A	protein-coding	11.0	21.0	11.0	324.5	20.5	5.5	11.5	17.5
Merged-chr7-101584491-3	chr7	101584387	101584587	+	872.4111330000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3326.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	6.5	3.5	5.0	52.0	32.5	12.5	19.5	27.0
Merged-chr6-52158291-4	chr6	52158202	52158402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311118)	promoter-TSS (NM_001311118)	15.0	NM_010449	15394.0	Mm.197	NM_010449	ENSMUSG00000029844	Hoxa1	ERA1|Hox-1.6	homeobox A1	protein-coding	34.5	48.5	31.5	460.0	139.5	36.0	55.0	42.0
Merged-chr8-111626097-4	chr8	111625978	111626178	+	734.845825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001168623)	TTS (NM_001168623)	4244.0	NM_027570	52815.0	Mm.27589	NM_027570	ENSMUSG00000031958	Ldhd	4733401P21Rik|D8Bwg1320e	lactate dehydrogenase D	protein-coding	9.0	11.5	9.0	173.0	25.5	11.0	9.0	12.5
Merged-chr3-9000540-4	chr3	9000438	9000638	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	RMER6A|LTR|ERVK	3666.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	8.5	13.0	6.0	186.5	25.0	4.5	10.5	16.0
Merged-chr4-86885120-1	chr4	86885020	86885220	+	569.0	f0_c57.idr	intron (NM_001290543, intron 1 of 5)	B3|SINE|B2	10706.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	4.0	8.5	10.0	36.0	18.0	5.0	15.5	13.5
Merged-chr6-108688539-4	chr6	108688434	108688634	+	802.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27600.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	6.0	27.5	18.0	95.0	22.5	6.0	20.0	12.5
Merged-chr2-71594682-3	chr2	71594584	71594784	+	858.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	intron (NR_039557, intron 2 of 3).2	-47930.0	NM_010054	13392.0	Mm.3896	NM_010054	ENSMUSG00000023391	Dlx2	AW121999|Dlx-2|Tes-1	distal-less homeobox 2	protein-coding	0.0	0.0	0.0	2.0	34.0	11.0	14.5	30.0
Merged-chr19-17144356-4	chr19	17144254	17144454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	intron (NM_181348, intron 9 of 19)	188236.0	NM_181348	353211.0	Mm.257354	NM_181348	ENSMUSG00000039126	Prune2	6330414G02Rik|A230083H22Rik|A330102H22Rik|Bmcc1|mKIAA0367	prune homolog 2	protein-coding	64.0	29.5	52.5	772.5	53.0	25.0	23.0	19.5
Merged-chr18-61068590-3	chr18	61068488	61068688	+	896.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008809, intron 9 of 22)	intron (NM_008809, intron 9 of 22)	23438.0	NM_008809	18596.0	Mm.4146	NM_008809	ENSMUSG00000024620	Pdgfrb	AI528809|CD140b|PDGFR-1|Pdgfr	platelet derived growth factor receptor, beta polypeptide	protein-coding	8.0	13.5	6.0	134.0	31.0	8.0	6.5	19.5
Merged-chr19-11518549-4	chr19	11518471	11518671	+	915.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027209)	promoter-TSS (NM_027209)	12.0	NM_027209	69774.0	Mm.436639	NM_027209	ENSMUSG00000024677	Ms4a6b	1810027D10Rik	membrane-spanning 4-domains, subfamily A, member 6B	protein-coding	19.0	19.5	12.0	149.5	32.0	13.0	13.0	13.5
Merged-chr4-132807946-2	chr4	132807846	132808046	+	747.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11582.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	3.0	13.0	4.0	88.0	18.0	8.0	9.5	17.0
Merged-chr18-9450175-4	chr18	9450083	9450283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026484)	promoter-TSS (NM_026484)	-29.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	259.5	425.0	287.0	4511.0	710.5	337.5	365.5	249.5
Merged-chr9-95572778-4	chr9	95572669	95572869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12952.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	179.0	239.0	260.0	3185.0	408.0	127.0	198.5	195.0
Merged-chr19-4061329-4	chr19	4061187	4061387	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1840.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	17.5	39.5	27.0	273.5	59.0	24.5	32.0	12.5
Merged-chr5-36462975-4	chr5	36462846	36463046	+	920.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126490, intron 1 of 1)	intron (NR_126490, intron 1 of 1)	1908.0	NR_126490	76710.0	Mm.165495	NR_126488	ENSMUSG00000039563	2210406O10Rik	-	RIKEN cDNA 2210406O10 gene	ncRNA	13.5	17.5	10.0	140.0	28.5	9.5	9.0	16.5
Merged-chr7-43920763-4	chr7	43920660	43920860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13011.0	NM_174865	317652.0	Mm.389896	NM_174865	ENSMUSG00000055193	Klk15	-	kallikrein related-peptidase 15	protein-coding	59.0	103.0	106.0	934.0	173.5	62.0	112.5	90.0
Merged-chr16-4624924-4	chr16	4624762	4624962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025571)	promoter-TSS (NM_025571)	84.0	NM_025571	66449.0	Mm.354760	NM_025571	ENSMUSG00000014301	Pam16	2010110I09Rik|AV006767|CGI-136|Magmas|Tim16|Timm16	presequence translocase-asssociated motor 16 homolog (S. cerevisiae)	protein-coding	74.0	105.5	75.0	479.5	173.5	70.0	65.0	72.5
Merged-chr12-110436914-4	chr12	110436817	110437017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10262.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	40.0	79.0	50.5	757.5	93.5	29.5	46.0	40.5
Merged-chr4-109476716-4	chr4	109476653	109476853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013876)	promoter-TSS (NM_013876)	-248.0	NM_013876	29864.0	Mm.392580	NM_013876	ENSMUSG00000028557	Rnf11	-	ring finger protein 11	protein-coding	74.0	91.0	75.0	1538.0	217.0	64.0	128.0	110.5
Merged-chr2-118111226-4	chr2	118111133	118111333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011580)	promoter-TSS (NM_011580)	-31.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	30.5	43.5	18.0	385.5	67.5	20.0	21.5	45.5
Merged-chr12-12301358-4	chr12	12301248	12301448	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	Lx8|LINE|L1	39209.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	29.0	23.0	9.5	264.5	42.5	23.5	21.5	14.0
Merged-chr11-20632857-1	chr11	20632757	20632957	+	618.0	f0_c57.idr	intron (NM_001038625, intron 1 of 1)	intron (NM_001038625, intron 1 of 1)	880.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	11.0	11.0	13.5	69.0	32.5	10.5	27.5	16.0
Merged-chr19-45782776-4	chr19	45782616	45782816	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023799, intron 1 of 15)	intron (NM_023799, intron 1 of 15)	837.0	NR_151594	76055.0	Mm.122725	NM_023799	ENSMUSG00000025220	Mgea5	Hy5|Ncoat|OGA	meningioma expressed antigen 5 (hyaluronidase)	protein-coding	5.5	22.5	18.0	181.5	37.5	13.0	16.0	15.5
Merged-chr6-149355333-1	chr6	149355233	149355433	+	947.0	f0_c57.idr	Intergenic	Intergenic	45919.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	2.0	1.5	4.0	63.5	58.0	15.0	22.0	16.0
Merged-chr4-26353882-2	chr4	26353809	26354009	+	759.625	f0_balb.idr|f0_c57.idr	Intergenic	BGLII_B|LTR|ERVK	-7257.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	14.5	7.5	10.5	189.0	20.5	13.0	8.0	13.0
Merged-chr2-75725097-4	chr2	75725011	75725211	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20448.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	11.5	25.5	21.0	483.5	71.0	14.0	21.0	20.5
Merged-chr19-46131827-4	chr19	46131731	46131931	+	749.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007703)	promoter-TSS (NM_007703)	-68.0	NM_007703	12686.0	Mm.21806	NM_007703	ENSMUSG00000038754	Elovl3	CIN-2|Cig30	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3	protein-coding	7.5	12.5	4.0	153.0	10.5	6.0	11.5	10.0
Merged-chr2-122312833-3	chr2	122312743	122312943	+	724.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305262, intron 3 of 9)	intron (NM_001305262, intron 3 of 9)	887.0	NM_001305262	213696.0	Mm.247121	NM_145395	ENSMUSG00000027224	Duoxa1	BC019755|Nip|Nip1	dual oxidase maturation factor 1	protein-coding	7.0	8.5	12.5	30.0	12.5	2.5	6.5	4.0
Merged-chr18-32147632-4	chr18	32147525	32147725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8055.0	NM_001042767	19123.0	Mm.2786	NM_008934	ENSMUSG00000024386	Proc	PC	protein C	protein-coding	36.0	47.0	41.0	761.0	55.0	43.0	49.5	31.0
Merged-chr12-41290005-4	chr12	41289903	41290103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	196054.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	66.5	85.0	114.5	1333.5	123.0	48.0	40.5	56.5
Merged-chr17-65726981-4	chr17	65726884	65727084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	MIR3|SINE|MIR	45768.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	98.0	100.5	92.5	1846.0	260.0	109.5	116.0	107.0
Merged-chr18-13007766-4	chr18	13007662	13007862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153087, intron 1 of 2)	intron (NM_153087, intron 1 of 2)	772.0	NM_153087	225192.0	Mm.207073	NM_153087	ENSMUSG00000037346	Hrh4	AXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R	histamine receptor H4	protein-coding	54.0	58.5	43.5	960.5	173.5	49.0	53.5	67.5
Merged-chr13-73328494-4	chr13	73328384	73328584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010888)	promoter-TSS (NM_010888)	-2.0	NM_010888	407785.0	Mm.29897	NM_010888	ENSMUSG00000021606	Ndufs6	BC059730|IP13	NADH dehydrogenase (ubiquinone) Fe-S protein 6	protein-coding	120.5	144.5	131.0	1924.0	429.0	131.0	176.0	173.5
Merged-chr5-34531842-4	chr5	34531745	34531945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	6061.0	NM_011893	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	40.5	76.5	56.5	602.0	77.0	40.0	35.0	48.0
Merged-chr4-150371863-4	chr4	150371766	150371966	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	CpG	89950.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	41.5	88.0	32.5	768.5	87.0	17.5	50.5	51.0
Merged-chr3-88483889-3	chr3	88483784	88483984	+	874.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019390, exon 9 of 10)	exon (NM_019390, exon 9 of 10)	9428.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	6.0	9.5	5.0	19.5	21.0	7.5	5.0	7.5
Merged-chr11-70236846-4	chr11	70236774	70236974	+	871.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177606, intron 2 of 3)	intron (NM_001177606, intron 2 of 3)	1040.0	NM_001177601	104457.0	Mm.30016	NM_026757	ENSMUSG00000020831	0610010K14Rik	1110020A23Rik|AL033328|AU045833|Bap18	RIKEN cDNA 0610010K14 gene	protein-coding	6.0	11.5	10.5	130.5	25.5	8.5	7.0	5.5
Merged-chr6-30468794-4	chr6	30468710	30468910	+	660.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7825.0	NR_131049	69337.0	Mm.396168	NR_131049	ENSMUSG00000085470	1700012C14Rik	-	RIKEN cDNA 1700012C14 gene	ncRNA	11.0	12.0	5.5	84.0	17.5	7.5	13.5	9.0
Merged-chr16-93750680-4	chr16	93750557	93750757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357118, intron 6 of 35)	intron (NM_001357118, intron 6 of 35)	20558.0	NM_001357118	70028.0	Mm.23230	NM_026700	ENSMUSG00000022946	Dopey2	0610038M01Rik|2610510B01Rik|AI503246|C21orf5|mKIAA0933	dopey family member 2	protein-coding	46.0	79.0	41.5	884.5	76.0	39.0	51.0	45.5
Merged-chr16-76053321-1	chr16	76053221	76053421	+	705.0	f0_balb.idr	Intergenic	L2c|LINE|L2	52537.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	5.0	12.5	6.5	90.0	19.5	2.0	8.5	5.0
Merged-chr14-74917918-4	chr14	74917764	74917964	+	736.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	30013.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	6.0	10.5	4.0	117.5	11.0	6.5	6.0	14.0
Merged-chr13-111468055-2	chr13	111467955	111468155	+	675.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028487, intron 2 of 12)	L1M3|LINE|L1	22072.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	7.5	3.5	1.0	34.0	18.0	6.5	5.0	6.5
Merged-chr16-8823859-4	chr16	8823766	8823966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-6234.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	75.0	138.0	63.5	812.0	178.0	64.0	47.0	59.5
Merged-chr7-16048919-3	chr7	16048839	16049039	+	871.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22906.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	13.0	4.0	12.5	82.0	11.0	5.5	6.0	11.0
Merged-chr7-98178910-4	chr7	98178811	98179011	+	958.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007602)	promoter-TSS (NM_007602)	-637.0	NM_007602	12337.0	Mm.326847	NM_007602	ENSMUSG00000035547	Capn5	nCL-3	calpain 5	protein-coding	13.0	50.0	6.0	53.0	92.0	28.0	30.0	13.0
Merged-chr17-69215897-4	chr17	69215823	69216023	+	907.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 3 of 21)	intron (NM_001355736, intron 3 of 21)	56567.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	10.0	8.0	15.5	242.0	29.5	5.5	4.0	15.0
Merged-chr13-54301883-4	chr13	54301780	54301980	+	708.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69469.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	14.5	5.0	14.5	72.5	22.5	13.5	10.0	17.0
Merged-chr10-81292834-4	chr10	81292733	81292933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008844)	promoter-TSS (NM_008844)	-130.0	NM_008844	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	357.0	631.5	353.0	4543.0	892.0	353.0	410.0	335.5
Merged-chr10-42478553-4	chr10	42478478	42478678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145743)	promoter-TSS (NM_145743)	-13.0	NM_145743	215951.0	Mm.89646	NM_145743	ENSMUSG00000038302	Afg1l	CG8520|Lace1	AFG1 like ATPase	protein-coding	161.0	230.5	152.0	2081.0	406.5	141.0	184.0	145.0
Merged-chr17-8311869-4	chr17	8311781	8311981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073374)	promoter-TSS (NR_073374)	-763.0	NR_073374	75060.0	Mm.426530	NR_073374	ENSMUSG00000087478	4930506C21Rik	-	RIKEN cDNA 4930506C21 gene	ncRNA	25.5	32.5	51.0	734.5	117.5	34.0	39.5	41.0
Merged-chr4-3626847-4	chr4	3626749	3626949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D2_MM|LTR|ERV1	-29657.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	110.0	191.5	103.0	1334.5	279.0	99.5	126.5	125.0
Merged-chr15-72810129-4	chr15	72810079	72810279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_002864, exon 1 of 1)	non-coding (NR_002864, exon 1 of 1)	145.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	38.0	53.0	54.5	300.5	70.0	48.5	37.0	49.0
Merged-chr7-81789483-4	chr7	81789394	81789594	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026077)	promoter-TSS (NM_026077)	-41.0	NM_026077	67290.0	Mm.248391	NM_026077	ENSMUSG00000025102	3110040N11Rik	AI851475	RIKEN cDNA 3110040N11 gene	protein-coding	36.5	26.0	25.0	515.5	61.0	17.0	26.5	38.5
Merged-chr16-62814023-3	chr16	62813910	62814110	+	900.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026588)	promoter-TSS (NM_026588)	-666.0	NM_026588	68159.0	Mm.386793	NM_026588	ENSMUSG00000047854	Stx19	A030009B12Rik	syntaxin 19	protein-coding	10.5	13.5	8.0	198.5	14.5	5.5	14.0	5.5
Merged-chr11-116623319-4	chr11	116623200	116623400	+	841.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	952.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	11.5	14.5	11.5	77.5	32.0	6.5	10.5	18.0
Merged-chr7-116444422-4	chr7	116444353	116444553	+	834.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011083)	promoter-TSS (NM_011083)	-995.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	7.5	11.5	11.5	120.0	16.5	8.5	10.5	16.5
Merged-chr5-114702794-4	chr5	114702684	114702884	+	768.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4995.0	NM_029992	77832.0	Mm.239698	NM_029992	ENSMUSG00000002486	Tchp	A930031F18Rik|AV279199	trichoplein, keratin filament binding	protein-coding	13.0	11.5	19.5	303.0	31.0	7.0	14.0	17.5
Merged-chr6-84742430-1	chr6	84742330	84742530	+	562.0	f0_balb.idr	intron (NM_177077, intron 20 of 21)	MLT1H|LTR|ERVL-MaLR	-148522.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	7.0	5.5	5.0	83.0	5.0	2.5	1.5	3.5
Merged-chr18-35889260-3	chr18	35889141	35889341	+	719.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	34554.0	NM_001357459	67393.0	Mm.94560	NM_133687	ENSMUSG00000046668	Cxxc5	4930415K17Rik	CXXC finger 5	protein-coding	7.0	8.0	3.0	72.0	15.0	9.0	9.5	7.5
Merged-chr19-41090058-2	chr19	41089958	41090158	+	653.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011904, intron 18 of 20)	intron (NM_011904, intron 18 of 20)	-12945.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	3.0	5.0	3.0	50.0	12.5	8.0	7.5	7.5
Merged-chr17-43072486-3	chr17	43072397	43072597	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 4 of 5)	intron (NM_178589, intron 4 of 5)	55942.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	32.0	56.0	39.0	530.0	13.0	1.0	4.5	2.5
Merged-chr11-31868125-4	chr11	31868022	31868222	+	837.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2818.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	11.0	9.0	10.0	251.0	18.5	14.5	17.5	19.0
Merged-chr8-34895244-3	chr8	34895151	34895351	+	861.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 3 of 26)	intron (NM_175091, intron 3 of 26)	70439.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	4.5	9.0	8.5	223.0	31.0	7.5	5.5	4.5
Merged-chr12-32920434-4	chr12	32920333	32920533	+	734.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044986, intron 5 of 5)	intron (NR_044986, intron 5 of 5)	33356.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	4.0	13.0	15.5	109.5	20.5	15.0	5.0	4.5
Merged-chr7-118277646-4	chr7	118277526	118277726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33719.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	94.5	136.5	60.5	1409.0	259.5	94.0	83.0	91.0
Merged-chr1-34828098-4	chr1	34828003	34828203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160235, intron 3 of 7)	intron (NM_001160235, intron 3 of 7)	14947.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	76.0	64.5	98.5	1526.5	149.5	39.0	63.5	74.5
Merged-chr2-140778358-4	chr2	140778270	140778470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	intron (NM_001013802, intron 3 of 18)	-106894.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	36.0	64.5	44.5	897.0	120.5	48.0	37.0	38.0
Merged-chr5-138085102-4	chr5	138085006	138085206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029869)	promoter-TSS (NM_029869)	22.0	NM_029869	74570.0	Mm.213114	NM_029869	ENSMUSG00000029729	Zkscan1	5930429A01Rik|9130423L19Rik|9230118B16Rik|AI646829|AI788588|C87323|KOX18|PHZ-37|ZNF139	zinc finger with KRAB and SCAN domains 1	protein-coding	35.0	49.0	27.0	258.0	90.0	20.5	29.0	31.0
Merged-chr8-61517947-4	chr8	61517829	61518029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 18 of 21)	intron (NM_001293772, intron 18 of 21)	30195.0	NM_145595	234309.0	Mm.29059	NM_145595	ENSMUSG00000031641	Cbr4	A730083J17Rik|BC009118	carbonyl reductase 4	protein-coding	102.0	134.5	146.5	1743.0	177.0	50.5	101.0	62.0
Merged-chr7-24300948-4	chr7	24300819	24301019	+	963.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199321)	TTS (NM_001199321)	-1370.0	NM_009561	22719.0	Mm.12832	NM_009561	ENSMUSG00000050605	Zfp61	-	zinc finger protein 61	protein-coding	11.0	12.5	30.5	176.0	42.5	4.5	9.5	9.0
Merged-chr9-90227385-3	chr9	90227312	90227512	+	788.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_194334, exon 5 of 13)	exon (NM_194334, exon 5 of 13)	43357.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	6.0	9.0	4.5	89.0	10.5	6.0	4.0	5.0
Merged-chr15-101146476-6	chr15	101146417	101146617	+	948.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17995.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	26.5	24.5	36.0	422.0	53.5	17.0	28.5	26.0
Merged-chr3-8986075-4	chr3	8985975	8986175	+	918.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	18129.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	16.5	16.0	30.0	565.0	24.5	9.0	16.0	19.5
Merged-chr9-27026857-2	chr9	27026757	27026957	+	864.7000119999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_178027, intron 1 of 5)	intron (NM_178027, intron 1 of 5)	3237.0	NM_178027	69091.0	Mm.218717	NM_178027	ENSMUSG00000031988	Vps26b	1810012I05Rik|2310075A12Rik|AI848392	VPS26 retromer complex component B	protein-coding	5.0	5.5	5.0	54.5	21.0	2.0	5.0	12.0
Merged-chr11-20532360-10	chr11	20532287	20532487	+	998.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10866.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	30.5	107.0	25.0	326.0	107.5	53.0	39.0	19.0
Merged-chr12-57252798-4	chr12	57252714	57252914	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	L1_Mur3|LINE|L1	22389.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	2.5	3.0	7.5	137.0	38.5	6.0	12.0	8.5
Merged-chr8-26687802-4	chr8	26687706	26687906	+	791.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136617.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	14.0	7.5	7.5	88.5	24.0	8.5	5.0	12.0
Merged-chr10-26996182-3	chr10	26996088	26996288	+	959.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008481, intron 57 of 63)	intron (NM_008481, intron 57 of 63)	223676.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	15.5	27.5	7.0	244.5	15.5	12.0	6.5	8.0
Merged-chr12-72535381-4	chr12	72535305	72535505	+	818.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026327)	promoter-TSS (NM_026327)	-952.0	NM_026327	67708.0	Mm.11233	NM_026327	ENSMUSG00000034501	Pcnx4	1810048J11Rik|4932413O10|AU017192|Pcnxl4	pecanex homolog 4	protein-coding	11.0	32.0	4.5	75.5	32.5	10.5	13.0	11.0
Merged-chr8-111875977-3	chr8	111875886	111876086	+	830.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025781, intron 1 of 2)	intron (NM_025781, intron 1 of 2)	689.0	NM_025781	66817.0	Mm.345350	NM_025781	ENSMUSG00000031953	Tmem170	9030409E16Rik|AA403674|D8Bwg1414e|Tmem170a	transmembrane protein 170	protein-coding	10.0	8.5	4.0	90.0	18.5	6.5	4.5	6.0
Merged-chr4-47272250-4	chr4	47272161	47272361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 14 of 39)	intron (NM_009928, intron 14 of 39)	64249.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	28.5	40.5	18.5	514.0	62.0	28.0	26.0	24.5
Merged-chr12-59012059-4	chr12	59011931	59012131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009147)	promoter-TSS (NM_009147)	-14.0	NM_001361956	20334.0	Mm.491137	NM_009147	ENSMUSG00000020986	Sec23a	Msec23|Sec23r	SEC23 homolog A, COPII coat complex component	protein-coding	380.0	522.5	381.0	5827.5	861.5	327.0	446.5	336.0
Merged-chr9-32686067-4	chr9	32685960	32686160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9982.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	35.5	67.0	58.5	835.0	95.0	26.0	53.0	46.5
Merged-chr8-108781389-4	chr8	108781273	108781473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	66729.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	60.5	71.5	63.5	1121.5	105.0	32.0	33.5	38.0
Merged-chr9-75441515-4	chr9	75441414	75441614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039522)	promoter-TSS (NM_001039522)	-10.0	NM_001039522	235497.0	Mm.41508	NM_001006122	ENSMUSG00000042487	Leo1	Gm185	Leo1, Paf1/RNA polymerase II complex component	protein-coding	102.0	214.0	151.5	1680.0	285.5	108.5	116.5	110.5
Merged-chr18-56701000-4	chr18	56700892	56701092	+	946.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6821.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	8.5	14.5	17.5	277.0	80.0	12.0	25.0	22.0
Merged-chr16-90456834-4	chr16	90456689	90456889	+	946.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 4 of 10)	intron (NM_015755, intron 4 of 10)	70392.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	16.5	13.0	16.5	163.0	35.0	12.0	8.0	11.5
Merged-chr9-64774528-4	chr9	64774418	64774618	+	925.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36493.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	27.0	31.0	38.0	574.5	20.5	10.0	18.0	24.0
Merged-chr17-5753145-6	chr17	5753013	5753213	+	877.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146073, exon 9 of 9)	3' UTR (NM_146073, exon 9 of 9)	-45544.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	0.0	8.5	7.0	36.0	12.5	12.5	5.5	11.0
Merged-chr6-84737143-4	chr6	84737037	84737237	+	905.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 20 of 21)	intron (NM_177077, intron 20 of 21)	-143229.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	5.5	15.5	4.5	225.5	19.0	11.5	13.5	5.5
Merged-chr11-103383749-4	chr11	103383644	103383844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 5 of 11)	L2a|LINE|L2	-20052.0	NM_001205236	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	111.0	117.5	99.0	1510.5	194.5	87.0	114.0	101.0
Merged-chr4-141142591-7	chr4	141142482	141142682	+	996.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2786.0	NR_102343	213491.0	Mm.332006	NM_174996	ENSMUSG00000040842	Szrd1	1110022I03|D4Ertd22e	SUZ RNA binding domain containing 1	protein-coding	9.5	23.0	22.0	135.0	30.5	20.0	13.0	10.5
Merged-chr13-55405623-4	chr13	55405506	55405706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011392, intron 8 of 12)	intron (NM_011392, intron 8 of 12)	5958.0	NM_011392	20505.0	Mm.276355	NM_011392	ENSMUSG00000021490	Slc34a1	NaPi-IIa|Npt2|Npt2a|Slc17a2	solute carrier family 34 (sodium phosphate), member 1	protein-coding	36.5	93.0	37.0	640.0	123.5	47.5	51.5	63.5
Merged-chr12-99315125-3	chr12	99315005	99315205	+	923.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 3 of 5)	intron (NM_183186, intron 3 of 5)	134969.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	6.0	9.5	12.0	258.5	11.0	2.0	5.5	1.5
Merged-chr15-88828857-4	chr15	88828746	88828946	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9200.0	NM_029720	76737.0	Mm.292567	NM_029720	ENSMUSG00000023272	Creld2	5730592L21Rik|C85758	cysteine-rich with EGF-like domains 2	protein-coding	27.0	26.0	14.5	145.0	21.0	10.5	8.0	10.0
Merged-chr13-20787142-4	chr13	20787025	20787225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6988.0	NM_001281854	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	156.0	346.0	177.0	1487.0	389.5	161.5	149.0	101.5
Merged-chr1-161500527-4	chr1	161500421	161500621	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183391, intron 2 of 2)	intron (NM_183391, intron 2 of 2)	5864.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	20.0	17.5	21.5	208.5	59.0	13.5	8.0	8.5
Merged-chr3-21953636-4	chr3	21953542	21953742	+	970.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-123010.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	22.5	13.0	25.0	293.5	56.0	15.5	28.0	15.5
Merged-chr19-33366782-3	chr19	33366683	33366883	+	893.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146342, intron 2 of 4)	intron (NM_001146342, intron 2 of 4)	25512.0	NM_001167818	67795.0	Mm.204591	NM_001146342	ENSMUSG00000071573	Rnls	6530404N21Rik|AI452315|AW060440|C10orf59	renalase, FAD-dependent amine oxidase	protein-coding	6.0	9.5	7.0	124.0	18.5	2.5	5.5	7.0
Merged-chr2-166711104-4	chr2	166711011	166711211	+	837.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	2721.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	9.5	19.0	8.5	55.0	42.5	14.0	6.5	14.0
Merged-chr1-172402868-2	chr1	172402768	172402968	+	915.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	26337.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	0.0	6.0	0.5	46.5	6.5	6.0	4.5	6.0
Merged-chr18-40459120-1	chr18	40459020	40459220	+	701.0	f0_c57.idr	intron (NM_026135, intron 1 of 1)	intron (NM_026135, intron 1 of 1)	200759.0	NM_026135	383348.0	Mm.76366	NM_026135	ENSMUSG00000051401	Kctd16	4930434H12Rik|Gm1267	potassium channel tetramerisation domain containing 16	protein-coding	0.0	2.0	0.0	41.0	25.5	6.0	11.0	6.0
Merged-chr15-66950347-4	chr15	66950248	66950448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008681, intron 3 of 15)	intron (NM_008681, intron 3 of 15)	19293.0	NM_008681	17988.0	Mm.30837	NM_008681	ENSMUSG00000005125	Ndrg1	CAP43|CMT4D|DRG1|HMSNL|NMSL|Ndr1|Ndrl|PROXY1|RTP|TDD5	N-myc downstream regulated gene 1	protein-coding	34.0	33.5	49.5	725.0	79.0	29.5	58.5	40.5
Merged-chr1-64299079-4	chr1	64298958	64299158	+	912.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177669.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	5.0	13.0	19.5	291.0	27.0	8.0	10.0	20.5
Merged-chr10-44002742-4	chr10	44002659	44002859	+	870.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172393, intron 1 of 19)	intron (NM_172393, intron 1 of 19)	2087.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	12.5	32.0	7.0	153.5	45.5	12.0	7.0	15.0
Merged-chr13-21279731-3	chr13	21279611	21279811	+	858.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Arg-CGA|tRNA|tRNA	12975.0	NM_010343	14780.0	Mm.1332	NM_010343	ENSMUSG00000004344	Gpx5	AV379049|Arep	glutathione peroxidase 5	protein-coding	14.5	23.5	14.0	121.0	26.5	2.0	4.0	3.5
Merged-chr8-124232041-6	chr8	124231879	124232079	+	748.561096	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139272, intron 1 of 15)	CpG	585.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	11.0	11.0	8.5	106.5	15.5	8.5	9.0	12.0
Merged-chr14-47013044-1	chr14	47012944	47013144	+	662.0	f0_balb.idr	intron (NM_001163433, intron 1 of 11)	intron (NM_001163433, intron 1 of 11)	11704.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	7.5	4.5	7.5	83.5	13.5	5.0	3.0	3.0
Merged-chr17-50729704-4	chr17	50729609	50729809	+	843.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31028.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	20.5	28.5	19.0	342.0	18.0	11.5	13.0	16.0
Merged-chr18-4325347-4	chr18	4325243	4325443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	27610.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	14.0	47.5	39.0	367.0	106.5	35.5	38.5	34.0
Merged-chr14-118137037-4	chr14	118136937	118137137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021434)	promoter-TSS (NM_021434)	-90.0	NM_021434	58245.0	Mm.275411	NM_021434	ENSMUSG00000022131	Gpr180	AB041545|E130016I23Rik|Itr	G protein-coupled receptor 180	protein-coding	296.0	421.5	260.5	4878.0	631.5	270.0	382.0	260.0
Merged-chr17-12810641-4	chr17	12810511	12810711	+	834.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027784, intron 2 of 2)	intron (NR_027784, intron 2 of 2)	-40905.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	7.5	4.5	13.5	195.0	14.5	10.5	10.0	12.0
Merged-chr7-16405762-1	chr7	16405662	16405862	+	1000.0	f0_balb.idr	intron (NM_198631, intron 1 of 13)	intron (NM_198631, intron 1 of 13)	4566.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	14.0	11.0	9.0	193.0	30.5	7.0	7.5	9.5
Merged-chr17-50071748-3	chr17	50071628	50071828	+	892.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 4 of 9)	ORR1D2|LTR|ERVL-MaLR	118769.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	22.5	34.5	19.5	205.5	8.5	0.0	5.5	2.0
Merged-chr5-32746436-4	chr5	32746342	32746542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347332)	promoter-TSS (NM_001347332)	-100.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	219.5	332.0	237.5	3244.5	452.0	193.0	280.5	150.5
Merged-chr10-75182623-3	chr10	75182527	75182727	+	780.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081412, exon 23 of 23)	3' UTR (NM_001081412, exon 23 of 23)	-29446.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	5.0	12.0	7.0	72.0	25.5	4.5	12.0	13.0
Merged-chr5-134607322-4	chr5	134607214	134607414	+	964.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020044, intron 3 of 12)	intron (NM_020044, intron 3 of 12)	7711.0	NM_022964	56743.0	Mm.391375	NM_020044	ENSMUSG00000040751	Lat2	AW125574|LAB|NTAL|WSCR5|Wbscr15|Wbscr5	linker for activation of T cells family, member 2	protein-coding	26.5	71.0	26.0	387.5	46.0	15.5	20.0	16.0
Merged-chr11-87423031-4	chr11	87422918	87423118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031386, intron 1 of 30)	U1|snRNA|snRNA	-4573.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	84.5	170.5	104.0	596.5	196.0	83.5	89.0	83.0
Merged-chr11-109361773-8	chr11	109361681	109361881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038097, intron 1 of 1)	intron (NR_038097, intron 1 of 1)	-1013.0	NM_010303	14674.0	Mm.193925	NM_010303	ENSMUSG00000020611	Gna13	AU024132|AU043124|Galpha13	guanine nucleotide binding protein, alpha 13	protein-coding	39.5	82.5	46.0	282.5	132.0	43.0	32.5	48.5
Merged-chr2-68438095-4	chr2	68438015	68438215	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	Lx8b|LINE|L1	33866.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	35.0	29.0	24.5	385.5	46.5	20.5	24.0	18.5
Merged-chr13-58217774-4	chr13	58217666	58217866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-2113.0	NM_026842	56085.0	Mm.182053	NM_026842	ENSMUSG00000005312	Ubqln1	1110046H03Rik|1810030E05Rik|AU019746|C77538|D13Ertd372e|Da41|Dsk2|Plic-1|Plic1|Xdrp1	ubiquilin 1	protein-coding	28.5	41.5	20.0	489.0	93.0	25.5	28.0	38.5
Merged-chr12-40446729-4	chr12	40446717	40446917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	764.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	14.5	30.5	22.5	283.0	54.0	14.5	17.0	19.5
Merged-chr2-18047496-3	chr2	18047379	18047579	+	858.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028317, exon 1 of 1)	exon (NM_028317, exon 1 of 1)	970.0	NM_028317	72668.0	Mm.102183	NM_028317	ENSMUSG00000054074	Skida1	2810030E01Rik|5730507N06Rik|BB088113|DLN-1	SKI/DACH domain containing 1	protein-coding	6.0	7.5	7.0	118.0	11.0	3.5	5.5	7.5
Merged-chr17-56479550-4	chr17	56479438	56479638	+	774.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3058.0	NM_011218	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	13.5	12.5	8.0	157.0	13.5	9.0	5.5	8.0
Merged-chr6-115321546-4	chr6	115321431	115321631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-39420.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	37.5	21.5	23.5	747.5	55.0	15.5	30.5	32.5
Merged-chr2-132008273-4	chr2	132008165	132008365	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 3 of 10)	intron (NM_175445, intron 3 of 10)	21723.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	28.5	27.5	29.5	397.0	18.0	14.0	22.5	12.0
Merged-chr18-60753013-4	chr18	60752883	60753083	+	874.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4318.0	NM_008306	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	16.5	12.0	8.5	139.0	15.0	5.0	11.5	13.0
Merged-chr4-155519487-4	chr4	155519386	155519586	+	708.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160016, intron 2 of 11)	intron (NM_001160016, intron 2 of 11)	28125.0	NM_001160016	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	11.0	5.0	6.0	116.0	18.0	6.5	17.0	16.0
Merged-chr11-69063011-4	chr11	69062799	69062999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3124.0	NM_028005	71923.0	Mm.340257	NM_028005	ENSMUSG00000045176	Borcs6	2310047M10Rik	BLOC-1 related complex subunit 6	protein-coding	28.5	48.0	24.5	348.0	49.5	24.5	16.5	29.5
Merged-chr10-4430542-4	chr10	4430445	4430645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358796, intron 1 of 13)	L2|LINE|L2	-1379.0	NR_002891	433224.0	Mm.153111	NR_002891	ENSMUSG00000112693	Gm5512	EG433224	required for meiotic nuclear division 1 pseudogene	pseudo	57.0	73.5	55.5	1123.0	154.5	49.5	68.0	76.0
Merged-chr19-53423939-2	chr19	53423839	53424039	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33305.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	7.5	6.0	9.5	69.0	3.5	1.0	2.5	0.5
Merged-chr7-43608490-2	chr7	43608390	43608590	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355131, intron 1 of 3)	intron (NM_001355131, intron 1 of 3)	1321.0	NM_028913	74400.0	Mm.159188	NM_028913	ENSMUSG00000055102	Zfp819	4930427I11Rik|4933405K07Rik	zinc finger protein 819	protein-coding	20.0	38.0	25.5	146.5	38.0	22.0	24.0	12.5
Merged-chr6-54972493-4	chr6	54972390	54972590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171007)	promoter-TSS (NM_001171007)	122.0	NM_172729	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	38.5	45.5	31.0	498.5	85.5	29.0	24.0	35.0
Merged-chr11-26586208-4	chr11	26586101	26586301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027260, intron 2 of 12)	intron (NM_027260, intron 2 of 12)	7719.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	63.0	71.5	75.0	1392.0	143.0	43.0	54.0	39.5
Merged-chr12-85974221-4	chr12	85974106	85974306	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	MLT1F|LTR|ERVL-MaLR	104835.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	11.0	9.0	14.0	133.0	25.5	5.0	18.5	13.5
Merged-chr12-101740699-4	chr12	101740590	101740790	+	926.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-22167.0	NM_001082976	74413.0	Mm.275939	NM_028924	ENSMUSG00000021187	Tc2n	4933406D09Rik|Mtac2d1|Tac2-N	tandem C2 domains, nuclear	protein-coding	6.5	6.0	11.5	172.0	25.0	9.5	12.5	15.5
Merged-chr14-66232423-1	chr14	66232323	66232523	+	717.0	f0_balb.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-18599.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	14.5	23.0	7.5	109.0	28.5	15.5	16.5	19.5
Merged-chr1-173740321-2	chr1	173740220	173740420	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001204910, intron 1 of 7)	B1_Mus1|SINE|Alu	1489.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	8.0	11.0	4.0	35.0	13.5	11.5	10.0	7.5
Merged-chr15-96593291-4	chr15	96593250	96593450	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166456, intron 4 of 15)	intron (NM_001166456, intron 4 of 15)	48612.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	14.0	32.5	7.0	183.5	59.5	14.0	18.5	19.0
Merged-chr6-16883708-4	chr6	16883612	16883812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 1 of 6)	MLT1D|LTR|ERVL-MaLR	14729.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	58.0	101.5	53.5	699.0	108.0	54.0	44.0	35.5
Merged-chr8-60631714-1	chr8	60631614	60631814	+	770.5	f0_balb.idr	Intergenic	Intergenic	-1111.0	NM_027756	71306.0	Mm.23242	NM_027756	ENSMUSG00000031647	Mfap3l	4933428A15Rik|5430405D20Rik|AI461995|AW125052|NYD-sp9|mKIAA0626	microfibrillar-associated protein 3-like	protein-coding	8.5	5.5	9.5	36.5	1.5	3.0	2.0	0.5
Merged-chr5-124049017-4	chr5	124048933	124049133	+	873.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-16773.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	15.5	19.0	23.5	350.0	21.0	3.0	7.0	12.5
Merged-chr16-77083124-3	chr16	77083017	77083217	+	773.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 16 of 23)	RLTR11A2|LTR|ERVK	69048.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	10.5	9.5	4.0	98.0	21.5	6.5	9.0	13.0
Merged-chr16-36941362-4	chr16	36941260	36941460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008225, intron 3 of 13)	intron (NM_008225, intron 3 of 13)	6377.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	71.0	97.0	63.0	982.5	206.0	82.5	81.5	61.5
Merged-chr7-13278733-4	chr7	13278634	13278834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010715)	promoter-TSS (NM_010715)	-13.0	NM_177312	321008.0	Mm.458832	NM_177312	ENSMUSG00000070814	Zswim9	6330408A02Rik	zinc finger SWIM-type containing 9	protein-coding	145.0	206.5	173.0	2080.5	349.5	136.5	170.0	131.0
Merged-chr9-124027503-4	chr9	124027414	124027614	+	923.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009914, intron 1 of 1)	intron (NM_009914, intron 1 of 1)	5543.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	13.5	23.0	18.5	177.5	15.0	3.0	12.0	5.5
Merged-chr9-106242947-4	chr9	106242845	106243045	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020559, intron 3 of 10)	intron (NM_020559, intron 3 of 10)	4785.0	NM_001291835	11655.0	Mm.290578	NM_020559	ENSMUSG00000032786	Alas1	ALAS|ALAS-N|Alas-1|Alas-h	aminolevulinic acid synthase 1	protein-coding	21.0	39.0	25.5	297.0	37.0	16.0	27.0	11.5
Merged-chr12-113075249-4	chr12	113075142	113075342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291444)	TTS (NM_001291444)	740.0	NM_001361920	75671.0	Mm.23377	NM_029381	ENSMUSG00000012211	Tex22	1700028O09Rik|AV210422|Tep22	testis expressed gene 22	protein-coding	56.0	81.0	34.5	729.0	127.5	33.5	55.0	34.0
Merged-chr14-61440072-4	chr14	61439975	61440175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008466)	promoter-TSS (NM_008466)	-128.0	NM_008466	16648.0	Mm.25548	NM_008466	ENSMUSG00000021929	Kpna3	IPOA4	karyopherin (importin) alpha 3	protein-coding	314.5	499.5	387.0	4350.5	715.5	309.0	318.0	297.0
Merged-chr10-57776819-4	chr10	57776732	57776932	+	901.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8091.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	19.5	40.0	15.0	296.0	30.0	8.0	6.5	7.0
Merged-chr2-132217267-4	chr2	132217166	132217366	+	737.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30522.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	9.5	15.0	8.0	172.0	40.5	4.5	16.0	19.5
Merged-chr19-29370730-3	chr19	29370634	29370834	+	773.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 1 of 6)	B2_Mm2|SINE|B2	3296.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	2.0	2.0	0.0	14.0	22.0	7.0	11.0	6.5
Merged-chr12-100445453-4	chr12	100445352	100445552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	intron (NM_001033213, intron 5 of 19)	75370.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	37.5	51.0	39.5	729.5	60.0	19.5	48.5	27.0
Merged-chr18-6104679-4	chr18	6104574	6104774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039692, intron 3 of 18)	L1MDa|LINE|L1	31424.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	35.0	41.5	31.0	663.0	100.0	41.0	26.0	32.5
Merged-chr5-62762742-4	chr5	62762646	62762846	+	906.8214109999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	3431.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	10.5	5.5	9.0	50.5	18.0	3.5	3.5	2.5
Merged-chr11-69754849-4	chr11	69754761	69754961	+	905.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291068, intron 1 of 28)	MER119|DNA|hAT-Charlie	3772.0	NM_001291068	20020.0	Mm.16533	NM_009089	ENSMUSG00000005198	Polr2a	220kDa|Rpb1|Rpo2-1	polymerase (RNA) II (DNA directed) polypeptide A	protein-coding	15.0	24.0	12.0	122.0	42.0	15.0	11.5	16.0
Merged-chr7-120831311-4	chr7	120831209	120831409	+	939.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11522.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	11.5	12.5	11.0	187.5	44.0	11.0	17.0	28.0
Merged-chr5-43279933-4	chr5	43279836	43280036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177379, intron 7 of 10)	intron (NM_001177379, intron 7 of 10)	-44582.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	20.0	46.0	46.5	1044.5	211.5	56.0	67.5	110.0
Merged-chr2-57191025-4	chr2	57190922	57191122	+	938.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	9191.0	NR_040633	75279.0	Mm.401987	NR_040633	ENSMUSG00000086396	4930555B11Rik	-	RIKEN cDNA 4930555B11 gene	ncRNA	12.5	18.5	16.5	491.5	59.5	12.5	32.0	39.0
Merged-chr9-99130687-3	chr9	99130562	99130762	+	857.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 1 of 23)	MIR|SINE|MIR	9549.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	7.0	13.5	8.0	95.0	21.0	4.0	10.5	12.5
Merged-chr6-121130238-4	chr6	121130134	121130334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270475, intron 1 of 31)	intron (NM_001270475, intron 1 of 31)	788.0	NM_001270475	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	22.0	50.5	24.5	437.5	82.5	26.0	34.0	37.0
Merged-chr3-89774617-4	chr3	89774523	89774723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027315, intron 1 of 12)	intron (NM_027315, intron 1 of 12)	1014.0	NM_027315	70093.0	Mm.41438	NM_027315	ENSMUSG00000042572	Ube2q1	1110002C01Rik|2310012M18Rik|AI854014|Gtap|NICE-5|PRO3094|Ube2q	ubiquitin-conjugating enzyme E2Q family member 1	protein-coding	39.5	81.0	41.5	620.0	125.5	40.5	47.0	34.5
Merged-chr1-171377312-4	chr1	171377236	171377436	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122680, intron 1 of 7)	intron (NM_001122680, intron 1 of 7)	7163.0	NM_001122680	71740.0	Mm.263414	NM_027893	ENSMUSG00000006411	Nectin4	1200017F15Rik|Prr4|Pvrl4	nectin cell adhesion molecule 4	protein-coding	14.5	25.5	9.0	142.5	67.0	21.0	37.0	23.0
Merged-chr11-79254201-4	chr11	79254058	79254258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019653, intron 1 of 8)	CpG	537.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	24.0	43.0	21.5	340.5	82.5	34.0	46.0	38.5
Merged-chr16-49817041-4	chr16	49816932	49817132	+	746.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-38622.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	4.5	12.0	5.0	199.5	27.5	5.5	12.5	8.5
Merged-chr2-119156990-4	chr2	119156888	119157088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033136)	promoter-TSS (NM_001033136)	46.0	NM_001033136	67809.0	Mm.475909	NM_001033136	ENSMUSG00000070730	Rmdn3	1200015F23Rik|AI131757|Fam82a2|Ptpip51|RMD-3|Rmd3	regulator of microtubule dynamics 3	protein-coding	53.0	62.5	27.5	625.5	213.5	51.5	41.5	90.0
Merged-chr17-78373975-4	chr17	78373846	78374046	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 16 of 16)	intron (NM_015800, intron 16 of 16)	44206.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	25.5	21.0	32.5	650.5	39.5	12.0	27.5	25.0
Merged-chr4-119912425-4	chr4	119912310	119912510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	97732.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	29.5	64.0	35.5	482.5	69.5	39.5	31.5	28.0
Merged-chr1-85608574-2	chr1	85608477	85608677	+	958.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013817, intron 1 of 16)	intron (NM_001013817, intron 1 of 16)	-4686.0	NM_175397	109032.0	Mm.335802	NM_030194	ENSMUSG00000070034	Sp110	5031415C07Rik|52kDa|5830484A20Rik|Ifi75|Ipr1	Sp110 nuclear body protein	protein-coding	9.0	10.0	6.5	50.5	5.5	1.5	1.5	4.5
Merged-chr7-141092446-4	chr7	141092294	141092494	+	957.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023059, exon 7 of 10)	exon (NM_023059, exon 7 of 10)	8152.0	NM_023059	24058.0	Mm.38017	NM_023059	ENSMUSG00000025494	Sigirr	AI256711|TIR8	single immunoglobulin and toll-interleukin 1 receptor (TIR) domain	protein-coding	17.5	20.0	8.5	196.5	28.5	9.0	12.0	7.5
Merged-chr10-121310954-4	chr10	121310842	121311042	+	867.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029057, exon 1 of 12)	5' UTR (NM_029057, exon 1 of 12)	454.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	11.5	11.5	14.5	222.0	11.0	9.5	6.0	9.5
Merged-chr4-135876799-4	chr4	135876683	135876883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2937.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	212.0	272.5	150.5	1930.5	404.0	157.0	175.5	143.5
Merged-chr7-80715423-4	chr7	80715318	80715518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 37 of 37)	intron (NM_016721, intron 37 of 37)	-26541.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	106.0	163.0	111.5	1396.0	157.0	96.5	75.5	68.5
Merged-chr8-84857341-3	chr8	84857233	84857433	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152751, intron 1 of 12)	intron (NR_152751, intron 1 of 12)	347.0	NM_025648	66590.0	Mm.292517	NM_025648	ENSMUSG00000003808	Farsa	0610012A19Rik|Farsla|pheRS	phenylalanyl-tRNA synthetase, alpha subunit	protein-coding	13.5	30.5	18.0	204.0	39.5	11.0	21.0	6.5
Merged-chr8-108692432-4	chr8	108692340	108692540	+	840.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17A2|LTR|ERVK	-22204.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	15.0	7.0	10.5	140.5	21.0	13.5	9.0	11.5
Merged-chr2-31446243-4	chr2	31446136	31446336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24034.0	NM_007494	11898.0	Mm.3217	NM_007494	ENSMUSG00000076441	Ass1	AA408052|ASS|Ass-1|fold	argininosuccinate synthetase 1	protein-coding	21.5	47.0	16.5	184.5	89.5	23.5	37.0	26.5
Merged-chr5-112153960-3	chr5	112153890	112154090	+	688.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-52773.0	NR_045377	75569.0	Mm.243721	NR_045377	ENSMUSG00000101683	1700028D13Rik	-	RIKEN cDNA 1700028D13 gene	ncRNA	6.0	9.0	1.0	56.0	23.0	7.0	4.5	10.5
Merged-chr7-24082222-1	chr7	24082122	24082322	+	1000.0	f0_c57.idr	5' UTR (NM_001045486, exon 1 of 5)	5' UTR (NM_001045486, exon 1 of 5)	325.0	NM_001289637	210135.0	Mm.32254	NM_172483	ENSMUSG00000057101	Zfp180	2310040I01Rik|AI852378|D130011P11|HHZ168	zinc finger protein 180	protein-coding	31.0	28.0	32.5	332.5	60.5	37.0	54.5	43.0
Merged-chr18-84858317-3	chr18	84858206	84858406	+	897.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348159, intron 1 of 5)	intron (NM_001348159, intron 1 of 5)	6968.0	NM_001348159	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	7.5	12.0	8.5	120.5	1.0	2.0	2.5	4.0
Merged-chr10-117221080-4	chr10	117220981	117221181	+	791.237488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026570, intron 2 of 6)	intron (NM_026570, intron 2 of 6)	3426.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	14.5	32.0	8.5	176.5	27.0	15.5	7.0	13.0
Merged-chr1-74964667-4	chr1	74964569	74964769	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12997.0	NM_010544	16147.0	Mm.439736	NM_010544	ENSMUSG00000006538	Ihh	HHG-2	Indian hedgehog	protein-coding	8.0	19.0	2.5	212.0	36.0	9.0	13.0	17.5
Merged-chr17-5195569-4	chr17	5195481	5195681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	200507.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	72.0	121.5	60.0	873.0	114.0	38.5	63.0	38.0
Merged-chr9-40196175-4	chr9	40196073	40196273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153114, intron 1 of 6)	intron (NR_153114, intron 1 of 6)	3857.0	NM_030713	80902.0	Mm.132196	NM_030713	ENSMUSG00000025602	Zfp202	C130037E22Rik|Znf202	zinc finger protein 202	protein-coding	22.5	37.5	36.5	415.0	97.5	40.0	50.0	39.0
Merged-chr14-66280296-4	chr14	66280191	66280391	+	927.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	761.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	14.0	21.0	6.0	200.0	49.0	5.0	7.5	11.5
Merged-chr2-127322745-4	chr2	127322658	127322858	+	894.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13401.0	NM_010090	13537.0	Mm.4729	NM_010090	ENSMUSG00000027368	Dusp2	PAC1	dual specificity phosphatase 2	protein-coding	6.0	13.5	15.0	128.5	39.0	12.0	15.5	17.0
Merged-chr13-45105407-4	chr13	45105375	45105575	+	946.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103379.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	8.5	10.0	6.0	110.5	35.0	5.0	20.5	21.5
Merged-chr13-58478078-4	chr13	58477984	58478184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-74741.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	26.5	26.5	18.0	600.0	48.0	19.0	40.0	12.0
Merged-chr9-75314225-4	chr9	75314126	75314326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073186, exon 1 of 12)	non-coding (NR_073186, exon 1 of 12)	158.0	NM_138719	14697.0	Mm.17604	NM_010313	ENSMUSG00000032192	Gnb5	GBS|Gbeta5|flr	guanine nucleotide binding protein (G protein), beta 5	protein-coding	57.5	132.0	145.5	991.0	123.5	53.0	72.0	76.5
Merged-chr6-124316143-3	chr6	124316051	124316251	+	899.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170395, intron 6 of 16)	intron (NM_001170395, intron 6 of 16)	11500.0	NM_053094	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	8.0	11.5	12.5	151.5	20.5	4.0	6.0	8.0
Merged-chr2-112457201-1	chr2	112457101	112457301	+	856.3333130000001	f0_balb.idr	intron (NM_133749, intron 1 of 4)	intron (NM_133749, intron 1 of 4)	2176.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	11.5	15.0	4.5	152.0	13.0	6.0	2.0	20.5
Merged-chr3-89843333-4	chr3	89843239	89843439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172530, intron 2 of 5)	intron (NM_172530, intron 2 of 5)	11969.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	73.0	98.5	84.5	1394.5	136.0	51.0	73.5	102.0
Merged-chr10-117856387-4	chr10	117856271	117856471	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10397.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	38.5	19.0	25.0	435.0	46.5	15.5	13.5	29.0
Merged-chr7-67458084-4	chr7	67457961	67458161	+	960.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	-85203.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	18.5	31.0	26.0	391.0	68.5	12.0	29.0	24.0
Merged-chr9-82829264-4	chr9	82829171	82829371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022986)	promoter-TSS (NM_022986)	-535.0	NM_022986	65099.0	Mm.41415	NM_022986	ENSMUSG00000032251	Irak1bp1	4921528N06Rik|AI851240|Aabp3|Aip70|Simpl	interleukin-1 receptor-associated kinase 1 binding protein 1	protein-coding	19.5	44.5	31.5	335.5	86.0	33.0	36.0	7.0
Merged-chr11-97546487-4	chr11	97546377	97546577	+	810.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 3 of 19)	CpG	28649.0	NM_018873	56013.0	Mm.342665	NM_018873	ENSMUSG00000038453	Srcin1	P140|SNIP|mKIAA1684|p140Cap	SRC kinase signaling inhibitor 1	protein-coding	10.0	12.0	5.0	113.5	18.0	10.5	5.5	10.0
Merged-chr14-50862711-4	chr14	50862619	50862819	+	857.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 6 of 54)	intron (NM_009351, intron 6 of 54)	7835.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	8.0	15.5	18.5	219.5	29.5	9.5	11.5	16.0
Merged-chr5-115282648-4	chr5	115282548	115282748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026504, intron 1 of 6)	intron (NM_026504, intron 1 of 6)	2946.0	NM_026504	52064.0	Mm.290142	NM_026504	ENSMUSG00000041733	Coq5	1810014G04Rik|D5Ertd33e	coenzyme Q5 methyltransferase	protein-coding	136.5	243.5	157.5	2566.0	283.0	89.0	92.5	108.5
Merged-chr12-79812673-2	chr12	79812573	79812773	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 10 of 10)	intron (NM_009014, intron 10 of 10)	112060.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	5.0	11.5	9.5	101.0	17.5	15.5	10.5	17.0
Merged-chr5-146767855-3	chr5	146767768	146767968	+	985.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 2 of 8)	intron (NM_011669, intron 2 of 8)	27088.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	4.5	17.5	7.5	1.0	172.5	47.0	40.5	22.0
Merged-chr13-108268416-4	chr13	108268315	108268515	+	886.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029001, intron 3 of 7)	intron (NM_029001, intron 3 of 7)	-47922.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	5.5	16.0	9.0	143.0	47.0	12.5	11.5	14.5
Merged-chr4-148069932-4	chr4	148069840	148070040	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	18124.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	43.0	47.0	12.0	372.5	117.0	48.0	22.5	46.5
Merged-chr16-10962244-4	chr16	10962140	10962340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 3 of 3)	intron (NM_019980, intron 3 of 3)	30881.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	30.5	49.5	22.5	492.5	79.5	20.0	29.5	19.5
Merged-chr13-95390393-3	chr13	95390278	95390478	+	702.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15021.0	NM_025630	66549.0	Mm.36785	NM_025630	ENSMUSG00000021681	Aggf1	2010009L17Rik|2310029P06Rik|AW112072|Peg3|VG5Q	angiogenic factor with G patch and FHA domains 1	protein-coding	7.0	7.5	5.5	114.0	18.5	6.0	7.0	5.0
Merged-chr10-80151304-4	chr10	80151208	80151408	+	948.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347117, intron 2 of 7)	CT-rich|Low_complexity|Low_complexity	1626.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	10.0	21.5	24.0	119.5	46.0	17.5	16.0	28.5
Merged-chr7-3442845-4	chr7	3442742	3442942	+	935.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18180.0	NM_133183	54378.0	Mm.424047	NM_133183	ENSMUSG00000078815	Cacng6	2310033H20Rik	calcium channel, voltage-dependent, gamma subunit 6	protein-coding	16.0	42.5	17.0	126.0	21.0	10.0	12.0	14.5
Merged-chr17-34093463-3	chr17	34093371	34093571	+	865.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046183, intron 2 of 4)	intron (NR_046183, intron 2 of 4)	1092.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	6.0	14.0	9.0	48.0	41.5	9.0	13.0	12.5
Merged-chr11-117200898-4	chr11	117200781	117200981	+	980.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 1 of 11)	intron (NM_001113486, intron 1 of 11)	1220.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	24.5	49.0	29.5	473.0	69.0	19.5	15.0	40.0
Merged-chr5-146845087-4	chr5	146844988	146845188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026864)	promoter-TSS (NM_026864)	17.0	NM_026864	68895.0	Mm.266978	NM_026864	ENSMUSG00000029641	Rasl11a	1110065D03Rik|AI852031	RAS-like, family 11, member A	protein-coding	54.5	69.0	79.5	1382.5	205.5	94.5	106.0	93.0
Merged-chr15-78257911-4	chr15	78257764	78257964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 7 of 9)	intron (NM_008677, intron 7 of 9)	13053.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	50.5	98.5	59.0	878.0	133.0	48.0	39.0	47.5
Merged-chr3-53522923-3	chr3	53522826	53523026	+	706.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172862, intron 18 of 23)	intron (NM_172862, intron 18 of 23)	34133.0	NM_153156	229277.0	Mm.222810	NM_153156	ENSMUSG00000027744	Stoml3	Epb7.2l|SLP3|sro	stomatin (Epb7.2)-like 3	protein-coding	6.0	7.0	8.0	97.0	5.5	0.0	2.0	2.0
Merged-chr5-36576412-4	chr5	36576321	36576521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113362, intron 2 of 14)	intron (NM_001113362, intron 2 of 14)	5976.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	81.0	87.5	77.0	1207.0	205.0	42.5	62.5	90.5
Merged-chr2-150922355-4	chr2	150922249	150922449	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 4 of 6)	Lx9|LINE|L1	12755.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	25.0	25.0	21.5	336.5	31.0	28.5	22.5	18.0
Merged-chr7-133122240-7	chr7	133122197	133122397	+	854.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 1 of 10)	CpG	1186.0	NM_009980	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	8.0	9.0	8.0	132.0	17.0	10.5	3.0	4.0
Merged-chr9-61983415-4	chr9	61983319	61983519	+	918.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 2 of 7)	ORR1E|LTR|ERVL-MaLR	-36620.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	28.0	35.5	10.0	446.0	51.0	12.0	24.0	10.0
Merged-chr4-59550379-4	chr4	59550268	59550468	+	829.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1004.0	NM_144904	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	9.0	13.5	8.0	144.5	19.0	3.5	10.5	13.0
Merged-chr17-34355181-4	chr17	34355076	34355276	+	902.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_079835, intron 1 of 8)	intron (NM_079835, intron 1 of 8)	354.0	NM_079835	547431.0	Mm.441007	NM_079835	ENSMUSG00000024340	Btnl2	BTL-II|BTLN2|Btl2|Gm315|NG9	butyrophilin-like 2	protein-coding	22.5	9.0	7.5	125.0	63.0	23.5	22.5	16.0
Merged-chr9-104710504-1	chr9	104710404	104710604	+	839.5	f0_balb.idr	intron (NM_028719, intron 2 of 15)	intron (NM_028719, intron 2 of 15)	141021.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	10.0	5.0	20.5	422.5	2.0	0.0	0.0	0.0
Merged-chr10-76835851-3	chr10	76835715	76835915	+	812.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347216, intron 2 of 15)	intron (NM_001347216, intron 2 of 15)	-13003.0	NR_152849	59093.0	Mm.272803	NM_021568	ENSMUSG00000001120	Pcbp3	AlphaCP-3	poly(rC) binding protein 3	protein-coding	6.0	5.5	8.5	84.0	9.0	1.5	2.5	6.5
Merged-chr5-38082720-4	chr5	38082619	38082819	+	945.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359398, intron 1 of 9)	intron (NM_001359398, intron 1 of 9)	43489.0	NM_026959	71116.0	Mm.18959	NM_026959	ENSMUSG00000029125	Stx18	1810035L21Rik|4933425D03Rik|AU041562	syntaxin 18	protein-coding	12.5	18.0	16.0	231.0	55.5	14.5	23.0	16.5
Merged-chr13-23562033-2	chr13	23561933	23562133	+	741.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_178205, exon 1 of 1)	exon (NM_178205, exon 1 of 1)	332.0	NM_178205	319151.0	Mm.261658	NM_178205	ENSMUSG00000069273	Hist1h3e	H3-f|H3.1	histone cluster 1, H3e	protein-coding	8.0	28.5	13.5	72.0	74.0	26.5	29.0	23.5
Merged-chr2-35475086-4	chr2	35474976	35475176	+	893.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-13627.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	10.5	14.5	8.5	345.0	33.5	16.5	12.5	25.0
Merged-chr10-44003844-4	chr10	44003760	44003960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172393, exon 1 of 20)	exon (NM_172393, exon 1 of 20)	986.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	48.0	57.5	39.5	468.0	75.0	29.5	40.5	42.0
Merged-chr17-21008908-4	chr17	21008801	21009001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145483)	promoter-TSS (NM_145483)	-40.0	NM_145483	224585.0	Mm.296036	NM_145483	ENSMUSG00000067942	Zfp160	6720480D16Rik|F11|HKr18|HZF5|KR18|mKIAA1611|mszf47	zinc finger protein 160	protein-coding	103.0	103.0	97.0	1761.5	225.5	71.5	124.0	95.5
Merged-chr13-63278954-4	chr13	63278867	63279067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	18180.0	NR_045794	100504114.0	Mm.437070	NR_045794	ENSMUSG00000097242	Gm16907	-	predicted gene, 16907	ncRNA	132.5	161.0	164.0	2261.5	232.5	83.5	134.0	111.0
Merged-chr14-29978459-4	chr14	29978424	29978624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027493, exon 1 of 13)	exon (NM_027493, exon 1 of 13)	187.0	NM_027493	56249.0	Mm.215110	NM_027493	ENSMUSG00000015971	Actr8	5730542K05Rik|ARP8	ARP8 actin-related protein 8	protein-coding	44.0	58.0	64.0	517.0	80.5	31.5	27.5	36.5
Merged-chr2-92483762-4	chr2	92483662	92483862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-23244.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	80.0	125.5	96.0	1083.0	145.0	85.5	83.5	75.0
Merged-chr7-128738177-4	chr7	128738076	128738276	+	945.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145955, intron 1 of 15)	intron (NM_145955, intron 1 of 15)	2253.0	NM_145955	210711.0	Mm.58882	NM_145955	ENSMUSG00000048170	Mcmbp	1110007A13Rik|AU017382|BC025641|MCM-BP	minichromosome maintenance complex binding protein	protein-coding	16.5	18.5	19.0	308.0	34.5	13.0	15.5	39.0
Merged-chr4-62667807-4	chr4	62667689	62667889	+	796.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	L2|LINE|L2	-6185.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	17.0	22.0	14.5	130.5	31.5	13.0	17.5	11.5
Merged-chr7-44869929-4	chr7	44869847	44870047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133949)	promoter-TSS (NM_133949)	-159.0	NM_133949	84113.0	Mm.42855	NM_133949	ENSMUSG00000038502	Ptov1	1110030G05Rik|AU041779|Gcap3	prostate tumor over expressed gene 1	protein-coding	120.5	252.5	179.5	2047.0	338.0	128.0	174.5	122.0
Merged-chr7-137609955-3	chr7	137609856	137610056	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	172282.0	NR_033611	620016.0	Mm.388932	NR_033611	ENSMUSG00000100863	Gm12669	-	glutaredoxin 3 pseudogene	pseudo	19.0	59.5	21.5	468.0	8.0	1.0	5.0	12.5
Merged-chr15-25843721-3	chr15	25843624	25843824	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	intron (NM_001034851, intron 1 of 8)	426.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	8.0	15.5	9.5	269.0	25.0	3.0	5.0	4.0
Merged-chr10-14086367-4	chr10	14086256	14086456	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010437, intron 2 of 8)	intron (NM_010437, intron 2 of 8)	119977.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	16.5	57.0	29.0	145.5	77.0	26.5	21.0	10.0
Merged-chr13-58128113-4	chr13	58127959	58128159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029872, exon 1 of 1)	exon (NM_029872, exon 1 of 1)	497.0	NM_029872	77134.0	Mm.490274	NM_029872	ENSMUSG00000007836	Hnrnpa0	1110055B05Rik|3010025E17Rik|Hnrpa0|hnRNP A0	heterogeneous nuclear ribonucleoprotein A0	protein-coding	15.5	33.5	29.0	192.0	51.0	24.0	26.0	31.5
Merged-chr11-97531908-4	chr11	97531804	97532004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_018873, exon 12 of 20)	exon (NM_018873, exon 12 of 20)	-31564.0	NM_001289118	100141474.0	Mm.482426	NM_001289118	ENSMUSG00000047988	4933428G20Rik	-	RIKEN cDNA 4933428G20 gene	protein-coding	22.0	57.0	19.5	333.5	57.0	29.5	36.0	29.0
Merged-chr8-83608112-4	chr8	83608019	83608219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018808)	promoter-TSS (NM_018808)	-56.0	NM_018808	81489.0	Mm.282092	NM_018808	ENSMUSG00000005483	Dnajb1	0610007I11Rik|DjB1|HSPF1|Hdj1|Hsp40	DnaJ heat shock protein family (Hsp40) member B1	protein-coding	288.5	413.5	246.0	3504.0	643.5	287.5	307.0	301.0
Merged-chr13-40971458-4	chr13	40971361	40971561	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155347, intron 1 of 4)	intron (NR_155347, intron 1 of 4)	-29549.0	NM_026550	68083.0	Mm.24789	NM_026550	ENSMUSG00000038683	Pak1ip1	5830431I15Rik|5930415H02Rik|AA419825|AI314040|AW556169|Gdpd1|PIP1	PAK1 interacting protein 1	protein-coding	50.5	83.0	36.5	589.5	94.0	38.5	25.0	24.0
Merged-chr16-4558086-4	chr16	4557979	4558179	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031182, intron 1 of 6)	intron (NM_031182, intron 1 of 6)	1641.0	NM_031182	83383.0	Mm.273210	NM_031182	ENSMUSG00000005718	Tfap4	AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41	transcription factor AP4	protein-coding	13.0	14.5	10.5	206.5	26.5	14.0	23.0	11.5
Merged-chr9-59340177-1	chr9	59340077	59340277	+	543.0	f0_c57.idr	intron (NR_153195, intron 5 of 15)	intron (NR_153195, intron 5 of 15)	13331.0	NM_001359558	102774.0	Mm.200714	NM_175325	ENSMUSG00000025235	Bbs4	AW537059|AW742241|D9Ertd464e	Bardet-Biedl syndrome 4 (human)	protein-coding	4.0	2.0	3.0	22.5	17.5	5.5	7.5	9.0
Merged-chr16-49278702-4	chr16	49278605	49278805	+	748.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	221219.0	NM_001166210	667772.0	Mm.301387	NM_001166210	ENSMUSG00000092009	Myh15	EG667772	myosin, heavy chain 15	protein-coding	6.5	6.0	10.0	161.0	9.5	6.5	17.5	15.5
Merged-chr15-102247150-4	chr15	102247040	102247240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042727)	promoter-TSS (NM_001042727)	-640.0	NM_001042727	19411.0	Mm.1273	NM_011244	ENSMUSG00000001288	Rarg	Nr1b3|RAR-gamma|RARD|RARgamma2	retinoic acid receptor, gamma	protein-coding	81.0	128.5	48.0	658.5	253.5	101.5	92.0	60.0
Merged-chr15-95795369-4	chr15	95795250	95795450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	4507.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	68.0	82.0	52.0	901.5	156.5	57.5	73.5	56.0
Merged-chr3-89319734-4	chr3	89319655	89319855	+	757.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010108, intron 1 of 4)	CpG	3124.0	NM_010108	13638.0	Mm.331159	NM_010108	ENSMUSG00000028039	Efna3	AW494418|EFL-2|Ehk1-L|Epl3|LERK-3	ephrin A3	protein-coding	8.5	7.0	6.0	161.5	29.5	7.5	10.5	7.5
Merged-chr1-186677821-4	chr1	186677721	186677921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009367, intron 1 of 6)	B4A|SINE|B4	28168.0	NM_009367	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	24.5	25.5	37.5	523.5	48.0	18.5	29.5	33.5
Merged-chr14-51098484-3	chr14	51098384	51098584	+	810.833313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_201239, intron 1 of 1)	intron (NM_201239, intron 1 of 1)	2484.0	NM_201239	58809.0	Mm.202665	NM_021472	ENSMUSG00000021876	Rnase4	C730049F20Rik|Rab1	ribonuclease, RNase A family 4	protein-coding	3.0	9.5	4.0	98.5	48.0	18.0	10.5	7.0
Merged-chr17-34031678-4	chr17	34031573	34031773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205216)	promoter-TSS (NM_001205216)	17.0	NM_001077709	14977.0	Mm.18556	NM_008202	ENSMUSG00000024327	Slc39a7	AA408174|AI117660|AL024048|H-2Ke4|H2-Ke4|Ke-4|Ke4|Ring5|Zip7	solute carrier family 39 (zinc transporter), member 7	protein-coding	132.0	173.0	85.0	1030.0	362.0	126.0	101.0	118.5
Merged-chr10-41303257-4	chr10	41303154	41303354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133999)	promoter-TSS (NM_133999)	-13.0	NM_133999	103199.0	Mm.277242	NM_133999	ENSMUSG00000038417	Fig4	A530089I17Rik|AI326867|Sac3	FIG4 phosphoinositide 5-phosphatase	protein-coding	84.5	131.5	72.0	957.5	185.0	88.0	87.0	73.0
Merged-chr4-117202429-7	chr4	117202321	117202521	+	950.738098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19797.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	6.0	18.5	10.0	125.5	46.0	13.0	10.0	17.0
Merged-chr7-126487276-4	chr7	126487162	126487362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163713)	promoter-TSS (NM_001163713)	-93.0	NM_172745	233870.0	Mm.197829	NM_172745	ENSMUSG00000073838	Tufm	2300002G02Rik|C76308|C76389|EF-TuMT|EFTU	Tu translation elongation factor, mitochondrial	protein-coding	109.5	204.0	125.5	1778.5	283.5	132.0	171.5	122.5
Merged-chr4-57028133-4	chr4	57028037	57028237	+	892.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355492, intron 18 of 24)	intron (NM_001355492, intron 18 of 24)	-37746.0	NM_001142965	230235.0	Mm.207654	NM_001142965	ENSMUSG00000045589	Frrs1l	6430704M03Rik	ferric-chelate reductase 1 like	protein-coding	12.0	26.5	17.0	359.0	23.0	17.0	13.5	8.5
Merged-chr11-23257461-4	chr11	23257366	23257566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035226, intron 2 of 25)	intron (NM_001035226, intron 2 of 25)	1425.0	NM_134014	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	77.5	105.5	100.5	1550.5	159.0	41.0	92.0	78.5
Merged-chr8-120575892-6	chr8	120575713	120575913	+	860.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145896, intron 13 of 15)	intron (NM_001145896, intron 13 of 15)	13262.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	6.5	3.0	14.0	95.0	11.5	6.0	4.5	7.5
Merged-chr11-93987184-3	chr11	93987043	93987243	+	854.650024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8948.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	1.0	6.0	3.0	78.5	39.0	13.5	12.5	10.5
Merged-chr10-112774459-3	chr10	112774363	112774563	+	860.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040579, intron 5 of 6)	L1MEf|LINE|L1	47537.0	NR_040579	69355.0	Mm.84337	NR_040579	ENSMUSG00000100314	1700010J16Rik	-	RIKEN cDNA 1700010J16 gene	ncRNA	15.0	11.0	7.0	229.0	1.0	1.0	5.5	3.0
Merged-chr6-84751595-4	chr6	84751482	84751682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 19 of 21)	Lx5|LINE|L1	-157674.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	39.0	73.0	73.5	830.5	127.5	59.0	62.0	58.5
Merged-chr16-33832102-3	chr16	33832005	33832205	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	intron (NM_001145884, intron 1 of 14)	2440.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	10.5	11.0	5.0	122.0	28.0	5.5	15.5	4.5
Merged-chr10-127323639-4	chr10	127323520	127323720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359656)	promoter-TSS (NM_001359656)	-87.0	NM_146011	216445.0	Mm.227198	NM_146011	ENSMUSG00000040345	Arhgap9	AU043488	Rho GTPase activating protein 9	protein-coding	48.5	47.0	41.0	584.5	101.5	47.5	45.5	39.5
Merged-chr2-166697484-4	chr2	166697388	166697588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	16344.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	52.5	90.5	40.0	377.0	138.0	46.0	49.0	45.5
Merged-chr2-23156489-4	chr2	23156368	23156568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025979)	promoter-TSS (NM_025979)	-37.0	NM_013771	27377.0	Mm.23335	NM_013771	ENSMUSG00000026775	Yme1l1	FtsH1|Ftsh	YME1-like 1 (S. cerevisiae)	protein-coding	62.5	80.0	40.0	970.0	251.5	108.0	102.0	53.5
Merged-chr3-118064144-2	chr3	118064044	118064244	+	965.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-195208.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	5.5	6.5	9.5	128.5	22.0	2.0	4.5	6.5
Merged-chr12-112870980-4	chr12	112870855	112871055	+	932.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10039.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	5.0	15.5	12.5	126.0	20.5	3.0	13.0	7.0
Merged-chr6-108340536-3	chr6	108340451	108340651	+	817.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 5 of 61)	L2a|LINE|L2	127455.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	19.5	18.0	17.0	281.5	0.0	0.0	0.0	0.0
Merged-chr12-112145428-4	chr12	112145355	112145555	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001097621)	promoter-TSS (NM_001097621)	-753.0	NM_001097621	668303.0	Mm.313104	NM_001097621	ENSMUSG00000021294	Kif26a	mKIAA1236	kinesin family member 26A	protein-coding	8.0	23.0	6.5	219.5	11.5	8.5	4.5	10.5
Merged-chr4-19567071-1	chr4	19566971	19567171	+	646.666687	f0_balb.idr	intron (NM_027769, intron 1 of 15)	PB1D9|SINE|Alu	3037.0	NM_027769	70568.0	Mm.38390	NM_027769	ENSMUSG00000028228	Cpne3	5430428M23Rik|5730450C07Rik|C85108|CPN3	copine III	protein-coding	8.5	12.0	8.5	78.5	7.5	1.5	0.0	1.5
Merged-chr9-96675637-4	chr9	96675543	96675743	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43802.0	NM_001359960	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	17.5	53.5	19.0	433.5	44.0	16.0	19.0	13.0
Merged-chr12-91719279-4	chr12	91719188	91719388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 3 of 6)	MTD|LTR|ERVL-MaLR	67148.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	203.0	268.5	324.0	4211.0	502.5	128.0	198.0	207.5
Merged-chr17-5138915-4	chr17	5138793	5138993	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	143819.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	17.5	26.5	32.5	321.0	40.5	16.0	22.5	12.0
Merged-chr15-77830897-4	chr15	77830803	77831003	+	849.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	11272.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	16.0	21.0	8.5	72.0	27.5	7.5	9.5	12.0
Merged-chr13-102906300-8	chr13	102906200	102906400	+	971.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	146045.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	9.0	18.5	20.5	185.0	25.0	13.0	13.0	15.5
Merged-chr17-63875650-3	chr17	63875557	63875757	+	695.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	MLTR31FA_MM|LTR|ERVK	-2409.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	15.5	5.5	9.5	105.5	9.5	4.0	5.0	11.5
Merged-chr1-186708922-4	chr1	186708825	186709025	+	889.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2936.0	NM_001329107	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	32.0	18.5	15.0	452.0	20.0	6.0	9.0	18.0
Merged-chr12-117534072-4	chr12	117533952	117534152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 3 of 27)	CpG	17573.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	9.5	28.5	27.5	396.0	28.0	16.5	18.0	15.5
Merged-chr7-44854699-6	chr7	44854553	44854753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290695, exon 4 of 4)	exon (NM_001290695, exon 4 of 4)	-2493.0	NM_021549	59047.0	Mm.238254	NM_021549	ENSMUSG00000002963	Pnkp	1810009G08Rik|PNK	polynucleotide kinase 3'- phosphatase	protein-coding	27.5	41.0	42.0	412.5	82.0	19.0	36.5	29.5
Merged-chr3-95650757-4	chr3	95650650	95650850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7971.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	155.0	218.5	164.5	1841.0	313.0	150.0	115.0	139.5
Merged-chr13-21160873-4	chr13	21160763	21160963	+	947.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17808.0	NM_146534	258527.0	Mm.271440	NM_146534	ENSMUSG00000045474	Olfr1368	MOR256-15	olfactory receptor 1368	protein-coding	14.0	19.5	13.0	158.0	47.5	7.5	10.5	16.5
Merged-chr10-59310318-3	chr10	59310204	59310404	+	892.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12992.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	5.0	3.5	4.5	132.5	7.0	8.0	10.0	8.5
Merged-chr10-67284921-4	chr10	67284811	67285011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036293, intron 1 of 3)	CpG	370.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	20.5	44.0	26.0	340.5	65.5	34.5	32.5	28.0
Merged-chr3-96263302-4	chr3	96263148	96263348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033596)	promoter-TSS (NM_033596)	69.0	NM_033596	97122.0	Mm.227295	NM_033596	ENSMUSG00000091405	Hist2h4	H4|X04652	histone cluster 2, H4	protein-coding	22.5	76.0	46.0	562.5	168.0	50.0	82.5	66.0
Merged-chr10-20879736-4	chr10	20879624	20879824	+	954.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72823.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	6.0	4.5	12.0	220.0	34.0	10.0	13.0	31.0
Merged-chr12-44269719-4	chr12	44269619	44269819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026164, intron 1 of 9)	intron (NM_026164, intron 1 of 9)	565.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	69.5	143.5	73.5	1043.0	197.0	89.5	108.0	78.5
Merged-chr4-55797453-4	chr4	55797358	55797558	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-264983.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	13.5	15.0	11.0	170.0	40.5	26.0	21.5	21.5
Merged-chr15-5517589-4	chr15	5517476	5517676	+	837.552063	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045274, intron 1 of 4)	intron (NR_045274, intron 1 of 4)	21258.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	6.5	4.5	20.0	66.0	12.0	5.0	7.5	6.5
Merged-chr9-21852660-4	chr9	21852543	21852743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177030)	promoter-TSS (NM_177030)	-8.0	NM_177030	319899.0	Mm.128153	NM_177030	ENSMUSG00000032198	Dock6	2410095B20Rik|4931431C02Rik|C330023D02Rik|mKIAA1395	dedicator of cytokinesis 6	protein-coding	112.0	193.0	113.5	1429.0	240.5	72.5	115.0	81.0
Merged-chr14-87417730-3	chr14	87417663	87417863	+	834.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253755, intron 1 of 11)	intron (NM_001253755, intron 1 of 11)	1180.0	NM_001253755	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	5.0	12.5	8.5	78.0	19.5	8.0	3.5	7.0
Merged-chr9-42083882-2	chr9	42083782	42083982	+	587.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011436, intron 5 of 47)	intron (NM_011436, intron 5 of 47)	-6669.0	NM_001357261	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	5.0	7.5	5.0	71.5	17.5	6.5	11.5	19.0
Merged-chr17-64603347-4	chr17	64603252	64603452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	1703.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	24.0	30.0	30.0	351.0	54.0	20.5	23.0	26.0
Merged-chr8-72485650-2	chr8	72485560	72485760	+	861.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177766, intron 4 of 5)	B4A|SINE|B4	6954.0	NM_177766	270066.0	Mm.291461	NM_177766	ENSMUSG00000019731	Slc35e1	6030458H05|AA408278	solute carrier family 35, member E1	protein-coding	2.0	2.5	2.5	9.5	19.0	8.5	16.0	13.0
Merged-chr1-156718601-4	chr1	156718521	156718721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145413, intron 1 of 7)	CpG	289.0	NM_145413	215015.0	Mm.229107	NM_145413	ENSMUSG00000033557	Fam20b	C530043G21Rik|mKIAA0475	family with sequence similarity 20, member B	protein-coding	24.5	32.0	24.0	226.5	62.5	27.0	22.0	23.5
Merged-chr6-71440727-4	chr6	71440600	71440800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024288)	promoter-TSS (NM_024288)	-63.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	437.0	651.5	451.5	5841.0	1109.5	430.5	524.0	416.5
Merged-chr2-167691549-4	chr2	167691436	167691636	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015500, intron 1 of 1)	intron (NR_015500, intron 1 of 1)	359.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	6.5	9.5	20.0	195.5	33.5	7.0	16.5	13.0
Merged-chr2-129314107-4	chr2	129314007	129314207	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-4135.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	33.0	35.5	14.5	411.5	71.5	17.5	21.0	20.0
Merged-chr10-80398940-4	chr10	80398857	80399057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306143, intron 1 of 6)	CpG	574.0	NM_013595	17192.0	Mm.7142	NM_013595	ENSMUSG00000035478	Mbd3	AI181826|AU019209	methyl-CpG binding domain protein 3	protein-coding	159.0	287.5	142.5	2093.5	414.5	167.5	172.5	180.0
Merged-chr10-20347753-4	chr10	20347653	20347853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027930)	promoter-TSS (NM_027930)	-66.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	56.0	62.5	58.0	753.0	143.5	44.5	70.5	58.0
Merged-chr6-128808717-2	chr6	128808617	128808817	+	891.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17598.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	0.5	6.0	1.0	5.5	24.0	7.0	9.0	6.5
Merged-chr13-105048879-3	chr13	105048801	105049001	+	947.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029879, intron 2 of 5)	intron (NM_029879, intron 2 of 5)	6029.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	11.5	15.5	22.0	152.5	13.5	8.5	6.0	6.0
Merged-chr7-47008447-4	chr7	47008333	47008533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175318)	promoter-TSS (NM_175318)	-19.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	215.0	337.5	143.5	2199.5	646.0	301.0	215.0	238.0
Merged-chr10-34416110-4	chr10	34416008	34416208	+	887.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176968, intron 1 of 11)	RMER6A|LTR|ERVK	2443.0	NM_176968	319638.0	Mm.73467	NM_176968	ENSMUSG00000039480	Nt5dc1	6030401B09Rik|AW987726|Nt5c2l1	5'-nucleotidase domain containing 1	protein-coding	19.0	8.0	10.0	92.0	35.0	9.0	10.5	16.0
Merged-chr7-110117001-3	chr7	110116900	110117100	+	889.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5059.0	NM_001355058	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	11.5	7.5	7.5	167.0	4.5	8.5	13.0	5.5
Merged-chr8-85510946-4	chr8	85510832	85511032	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 5 of 11)	intron (NM_173866, intron 5 of 11)	18315.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	23.5	57.5	20.0	425.5	54.5	14.5	24.5	19.5
Merged-chr9-69289843-4	chr9	69289721	69289921	+	914.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289916)	promoter-TSS (NM_001289916)	-20.0	NM_001289916	19883.0	Mm.378450	NM_013646	ENSMUSG00000032238	Rora	9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26	RAR-related orphan receptor alpha	protein-coding	33.0	52.5	26.0	329.5	15.5	13.0	16.5	16.0
Merged-chr13-77135449-4	chr13	77135311	77135511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145676)	promoter-TSS (NM_001145676)	57.0	NM_134071	105377.0	Mm.209730	NM_134071	ENSMUSG00000021597	Slf1	2700017A04Rik|AW545819|Ankrd32|Brctd1|Brctx|C730024G01Rik	SMC5-SMC6 complex localization factor 1	protein-coding	35.5	35.5	30.0	920.0	52.0	27.5	44.0	40.0
Merged-chr4-48109304-1	chr4	48109204	48109404	+	821.0	f0_balb.idr	Intergenic	Intergenic	-15615.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	5.5	6.5	10.0	86.0	8.0	7.0	5.0	6.0
Merged-chr19-28612459-3	chr19	28612358	28612558	+	926.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175459, intron 2 of 10)	intron (NM_175459, intron 2 of 10)	-65766.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	8.0	14.0	8.0	236.0	15.5	2.0	1.5	9.0
Merged-chr5-137062021-3	chr5	137061920	137062120	+	770.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008871, exon 9 of 9)	3' UTR (NM_008871, exon 9 of 9)	10252.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	6.0	9.0	5.5	97.5	16.0	7.0	6.0	11.0
Merged-chr13-67755156-4	chr13	67755039	67755239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001130)	promoter-TSS (NM_001001130)	-5.0	NM_001001130	22746.0	Mm.288396	NM_001001130	ENSMUSG00000058331	Zfp85	KRAB19|Rslcan2|Zfp71|Zfp85-rs1	zinc finger protein 85	protein-coding	45.5	65.5	76.5	825.0	109.5	32.0	53.5	76.5
Merged-chr6-13838742-4	chr6	13838667	13838867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330666, exon 2 of 4)	5' UTR (NM_001330666, exon 2 of 4)	1175.0	NM_001330666	64450.0	Mm.167625	NM_145066	ENSMUSG00000048216	Gpr85	2900026B03Rik	G protein-coupled receptor 85	protein-coding	19.5	32.5	23.0	241.5	53.0	23.5	29.0	26.5
Merged-chr17-48192979-1	chr17	48192879	48193079	+	571.0	f0_balb.idr	Intergenic	Intergenic	-25722.0	NM_178796	328830.0	Mm.470939	NM_178796	ENSMUSG00000043939	A530064D06Rik	Trem4|pdctrem	RIKEN cDNA A530064D06 gene	protein-coding	10.0	14.0	14.0	67.0	15.0	8.5	7.5	10.5
Merged-chr16-93818919-4	chr16	93818834	93819034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-13187.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	37.0	37.0	46.0	688.5	101.5	55.5	48.5	87.5
Merged-chr17-55751327-4	chr17	55751213	55751413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139138, intron 1 of 16)	intron (NM_139138, intron 1 of 16)	1329.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	17.5	40.0	22.5	255.5	32.0	14.5	23.5	6.5
Merged-chr3-108070507-4	chr3	108070402	108070602	+	843.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14900.0	NM_001346665	109674.0	Mm.274335	NM_028779	ENSMUSG00000027889	Ampd2	1200014F01Rik|AI552571|Ampd-2|m4521Dajl	adenosine monophosphate deaminase 2	protein-coding	5.0	12.0	4.5	127.5	29.0	9.0	14.0	16.5
Merged-chr19-18713094-4	chr19	18713009	18713209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177640)	promoter-TSS (NM_177640)	-127.0	NM_177640	225995.0	Mm.28101	NM_177640	ENSMUSG00000047044	D030056L22Rik	-	RIKEN cDNA D030056L22 gene	protein-coding	247.0	376.5	254.5	4144.5	644.0	257.5	324.0	239.5
Merged-chr7-43921294-4	chr7	43921194	43921394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12477.0	NM_174865	317652.0	Mm.389896	NM_174865	ENSMUSG00000055193	Klk15	-	kallikrein related-peptidase 15	protein-coding	57.5	113.0	67.0	1078.0	239.5	68.5	99.5	68.0
Merged-chr15-83182153-3	chr15	83182058	83182258	+	895.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9950.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	9.5	23.5	5.0	105.5	46.0	12.5	20.5	12.0
Merged-chr9-101073824-4	chr9	101073748	101073948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001100451)	promoter-TSS (NM_001100451)	-914.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	179.5	323.5	240.0	2555.0	583.5	202.5	268.0	178.0
Merged-chr14-17916695-3	chr14	17916604	17916804	+	915.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-64940.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	8.0	7.5	8.0	267.0	10.5	11.5	6.5	7.0
Merged-chr7-118996351-4	chr7	118996217	118996417	+	783.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1106.0	NM_001195774	64297.0	Mm.103439	NM_022420	ENSMUSG00000008734	Gprc5b	AW125761|Raig2	G protein-coupled receptor, family C, group 5, member B	protein-coding	5.0	8.0	5.5	176.5	29.5	13.5	9.5	8.5
Merged-chr1-59684962-4	chr1	59684875	59685075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018868)	promoter-TSS (NM_018868)	-31.0	NM_018868	55989.0	Mm.220367	NM_018868	ENSMUSG00000026020	Nop58	MSSP|Nol5|SIK|nop5	NOP58 ribonucleoprotein	protein-coding	66.0	130.0	59.5	1009.5	212.0	100.0	85.5	87.5
Merged-chr11-88718473-4	chr11	88718353	88718553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201341)	promoter-TSS (NM_001201341)	-186.0	NM_001201341	76626.0	Mm.400451	NM_054043	ENSMUSG00000069769	Msi2	1700105C15Rik|AI451722|AI563628|AW489193|Msi2h	musashi RNA-binding protein 2	protein-coding	64.0	104.0	62.0	1005.0	184.5	61.5	75.0	65.5
Merged-chr18-65466315-4	chr18	65466230	65466430	+	947.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172833, intron 12 of 15)	intron (NM_172833, intron 12 of 15)	35333.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	21.0	20.5	17.0	377.5	67.0	13.5	27.5	15.0
Merged-chr3-126771751-4	chr3	126771641	126771841	+	996.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 6 of 18)	intron (NM_001025438, intron 6 of 18)	171645.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	19.0	23.0	11.0	238.0	43.0	18.0	27.0	28.0
Merged-chr17-15380808-3	chr17	15380702	15380902	+	832.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4979.0	NM_007865	13388.0	Mm.4875	NM_007865	ENSMUSG00000014773	Dll1	Delta1	delta like canonical Notch ligand 1	protein-coding	6.5	13.5	13.0	124.0	12.5	6.0	8.0	5.0
Merged-chr12-83582239-3	chr12	83582139	83582339	+	720.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359167, intron 3 of 12)	intron (NM_001359167, intron 3 of 12)	14983.0	NM_001359167	217695.0	Mm.59257	NM_183154	ENSMUSG00000042628	Zfyve1	DFCP1|G630053K23|TAFF1|ZNFN2A1|mKIAA1589	zinc finger, FYVE domain containing 1	protein-coding	5.5	14.5	8.0	83.5	11.0	6.0	4.0	7.5
Merged-chr13-91361722-3	chr13	91361634	91361834	+	565.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26351.0	NR_045161	320297.0	Mm.375866	NR_045161	ENSMUSG00000097182	A830009L08Rik	-	RIKEN cDNA A830009L08 gene	ncRNA	5.5	10.5	9.0	66.0	9.0	5.0	0.0	2.0
Merged-chr7-10495053-2	chr7	10494953	10495153	+	876.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009577, intron 1 of 3)	intron (NM_009577, intron 1 of 3)	328.0	NM_009577	22775.0	Mm.49441	NM_009577	ENSMUSG00000030393	Zik1	-	zinc finger protein interacting with K protein 1	protein-coding	4.5	7.0	7.5	138.5	4.5	9.0	8.0	4.0
Merged-chr10-94471654-4	chr10	94471547	94471747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-43210.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	118.5	167.5	157.0	3050.0	259.5	57.0	144.5	147.5
Merged-chr15-83148513-4	chr15	83148401	83148601	+	861.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 1 of 7)	PB1|SINE|Alu	877.0	NM_178627	73826.0	Mm.23758	NM_178627	ENSMUSG00000041815	Poldip3	1110008P04Rik|AA408269|AL022852|C77954|PDIP46|SKAR|mKIAA1649	polymerase (DNA-directed), delta interacting protein 3	protein-coding	7.5	18.0	12.5	127.0	35.5	8.5	10.5	12.5
Merged-chr19-40662172-4	chr19	40662125	40662325	+	816.428589	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	2455.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	7.5	7.5	8.5	19.0	6.5	6.5	4.0	15.5
Merged-chr7-132765795-3	chr7	132765708	132765908	+	745.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347630, intron 2 of 3)	intron (NM_001347630, intron 2 of 3)	11108.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	4.5	4.5	6.5	115.5	7.0	5.0	2.5	4.5
Merged-chr14-21814044-4	chr14	21813952	21814152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-17509.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	31.0	46.0	29.5	397.5	140.0	28.5	45.5	68.5
Merged-chr4-9631230-3	chr4	9631131	9631331	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177856, intron 4 of 4)	intron (NM_001177856, intron 4 of 4)	12486.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	7.5	20.5	15.5	165.0	30.0	6.5	17.5	15.5
Merged-chr16-78236547-2	chr16	78236447	78236647	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	18907.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	8.5	11.5	19.5	126.5	22.0	5.5	9.0	8.0
Merged-chr2-181238325-2	chr2	181238225	181238425	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_183162, exon 5 of 19)	exon (NM_183162, exon 5 of 19)	3702.0	NM_183162	229003.0	Mm.315872	NM_183162	ENSMUSG00000027580	Helz2	PDIP1|Pric285|mKIAA1769|mPDIP1	helicase with zinc finger 2, transcriptional coactivator	protein-coding	1.5	6.0	0.0	0.5	14.5	11.0	9.0	9.5
Merged-chr7-73541700-4	chr7	73541594	73541794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081345)	promoter-TSS (NM_001081345)	52.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	30.0	40.5	20.5	314.0	115.5	22.5	58.0	39.5
Merged-chr2-27761929-4	chr2	27761811	27762011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011305, exon 10 of 10)	3' UTR (NM_011305, exon 10 of 10)	51328.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	28.0	52.5	25.0	347.0	65.0	23.0	19.5	40.0
Merged-chr12-69977678-4	chr12	69977588	69977788	+	963.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022028, intron 2 of 4)	MLT1F1|LTR|ERVL-MaLR	9314.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	7.0	18.5	14.0	205.0	41.5	15.0	25.5	24.5
Merged-chr15-96666063-4	chr15	96665984	96666184	+	896.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23171.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	4.5	13.5	8.5	140.5	46.0	10.5	22.0	17.0
Merged-chr11-97188100-4	chr11	97187991	97188191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008379)	promoter-TSS (NM_008379)	-199.0	NM_008379	16211.0	Mm.251013	NM_008379	ENSMUSG00000001440	Kpnb1	AA409963|IPOB|Impnb	karyopherin (importin) beta 1	protein-coding	262.5	402.0	227.0	3214.0	678.0	285.5	290.5	188.0
Merged-chr11-49986397-3	chr11	49986302	49986502	+	716.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-38929.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	8.0	25.0	8.5	109.0	39.0	11.5	7.5	12.5
Merged-chr13-106945720-4	chr13	106945620	106945820	+	927.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1409.0	NM_025447	66254.0	Mm.9563	NM_025447	ENSMUSG00000021692	Dimt1	1500031M22Rik|AV111347|Dimt1l	DIM1 dimethyladenosine transferase 1-like (S. cerevisiae)	protein-coding	19.0	26.5	18.0	472.5	28.0	9.5	11.5	7.5
Merged-chr18-12648266-4	chr18	12648150	12648350	+	918.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028341, intron 1 of 13)	intron (NM_028341, intron 1 of 13)	4717.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	6.5	16.0	8.5	148.5	48.0	13.5	26.0	13.0
Merged-chr9-71805847-4	chr9	71805772	71805972	+	992.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34270.0	NM_001304362	68178.0	Mm.99961	NM_026599	ENSMUSG00000032232	Cgnl1	4933421H10Rik|9930020M10Rik|AI503810|Jacop	cingulin-like 1	protein-coding	25.5	35.5	46.0	390.0	64.5	30.5	40.0	14.5
Merged-chr2-178506230-4	chr2	178506121	178506321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75706.0	NM_198656	381409.0	Mm.330860	NM_198656	ENSMUSG00000039155	Cdh26	Gm1010	cadherin-like 26	protein-coding	32.5	76.5	100.0	1100.0	61.0	17.0	39.5	33.0
Merged-chr5-24051940-2	chr5	24051843	24052043	+	845.0	f0_balb.idr|f1_balb.idr	Intergenic	RMER2|LTR|ERV1	-21253.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	11.0	24.5	18.5	146.5	7.5	1.0	0.0	0.0
Merged-chr6-129237568-2	chr6	129237462	129237662	+	733.0	f0_balb.idr|f0_c57.idr	intron (NR_040268, intron 2 of 3)	intron (NR_040268, intron 2 of 3)	483.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	3.5	10.5	4.0	73.5	29.5	10.5	6.0	14.5
Merged-chr11-98022719-4	chr11	98022627	98022827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031173)	promoter-TSS (NM_031173)	-100.0	NM_001282978	12295.0	Mm.41252	NM_031173	ENSMUSG00000020882	Cacnb1	CAB1|Cchb1|Cchlb1	calcium channel, voltage-dependent, beta 1 subunit	protein-coding	17.0	29.0	20.5	180.5	33.5	11.5	15.0	16.5
Merged-chr7-29007422-4	chr7	29007335	29007535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009109, intron 101 of 105)	intron (NM_009109, intron 101 of 105)	24581.0	NM_008279	26411.0	Mm.148278	NM_008279	ENSMUSG00000037337	Map4k1	Hpk1|mHPK1	mitogen-activated protein kinase kinase kinase kinase 1	protein-coding	53.5	54.0	49.5	1177.5	75.0	22.5	32.5	45.5
Merged-chr3-79910923-4	chr3	79910807	79911007	+	849.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133187, intron 2 of 3)	intron (NM_133187, intron 2 of 3)	24977.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	9.0	10.0	13.5	313.5	17.5	6.0	10.0	7.5
Merged-chr18-84799469-4	chr18	84799376	84799576	+	851.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51862.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	8.5	17.0	10.5	146.0	30.5	11.5	18.0	13.0
Merged-chr5-88631725-4	chr5	88631614	88631814	+	835.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359208, intron 9 of 13)	intron (NM_001359208, intron 9 of 13)	43866.0	NM_001098476	231413.0	Mm.332474	NM_178700	ENSMUSG00000044221	Grsf1	BB232551|C80280|D5Wsu31e	G-rich RNA sequence binding factor 1	protein-coding	40.5	19.5	9.5	275.5	39.5	14.0	11.5	13.0
Merged-chr3-84259813-4	chr3	84259717	84259917	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271727)	promoter-TSS (NM_001271727)	-38.0	NM_001271727	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	31.0	37.5	30.5	430.0	36.5	15.5	6.5	22.0
Merged-chr9-109985619-4	chr9	109985529	109985729	+	929.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205332, intron 2 of 17)	intron (NM_001205332, intron 2 of 17)	53855.0	NM_008633	17758.0	Mm.217318	NM_008633	ENSMUSG00000032479	Map4	AA407148|MAP-4|Mtap-4|Mtap4	microtubule-associated protein 4	protein-coding	9.0	18.0	5.5	218.0	32.5	3.5	18.5	31.0
Merged-chr2-73338632-4	chr2	73338536	73338736	+	927.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029022)	TTS (NM_029022)	25984.0	NM_001355711	74616.0	Mm.247457	NM_029022	ENSMUSG00000008226	Scrn3	4833415E20Rik|AI427019|AV002033|Ses3	secernin 3	protein-coding	18.0	25.0	31.0	341.0	34.0	11.5	17.0	14.0
Merged-chr7-80776317-4	chr7	80776226	80776426	+	914.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	RSINE1|SINE|B4	27005.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	20.5	14.5	14.5	375.0	23.5	11.5	15.0	22.0
Merged-chr11-93988689-3	chr11	93988570	93988770	+	743.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7421.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	17.0	15.0	12.5	89.0	15.5	8.0	3.5	7.5
Merged-chr13-58366567-3	chr13	58366470	58366670	+	657.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11623.0	NM_175214	75050.0	Mm.385742	NM_175214	ENSMUSG00000060176	Kif27	4930517I18Rik	kinesin family member 27	protein-coding	9.5	12.5	3.0	132.5	21.0	5.5	5.5	5.0
Merged-chr12-33125757-4	chr12	33125661	33125861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015602, intron 4 of 5)	MLT1J|LTR|ERVL-MaLR	21825.0	NR_015602	320046.0	Mm.208337	NR_015602	ENSMUSG00000052125	F730043M19Rik	-	RIKEN cDNA F730043M19 gene	ncRNA	95.0	103.5	70.5	1093.0	148.0	40.0	70.0	84.0
Merged-chr4-152173213-4	chr4	152173100	152173300	+	831.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4900.0	NM_133348	70025.0	Mm.296191	NM_133348	ENSMUSG00000028937	Acot7	2410041A17Rik|Ach1|Act|Bach|CTE-IIa|Cte-II|Lach1	acyl-CoA thioesterase 7	protein-coding	6.0	13.5	6.0	130.5	30.0	4.5	9.0	11.5
Merged-chr3-131303193-4	chr3	131303095	131303295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027816)	promoter-TSS (NM_027816)	32.0	NM_027816	71519.0	Mm.473179	NM_027816	ENSMUSG00000027983	Cyp2u1	8430436A10Rik	cytochrome P450, family 2, subfamily u, polypeptide 1	protein-coding	66.5	80.5	91.0	1289.5	97.0	32.5	75.5	45.5
Merged-chr10-117111716-3	chr10	117111606	117111806	+	701.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 1 of 9)	MLT1N2|LTR|ERVL-MaLR	36768.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	9.0	6.0	5.5	234.0	11.0	4.0	2.0	0.5
Merged-chr16-64884670-3	chr16	64884558	64884758	+	846.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	32657.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	8.5	11.0	9.5	141.5	8.5	7.5	7.0	7.0
Merged-chr14-47373884-4	chr14	47373781	47373981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145953)	promoter-TSS (NM_001145953)	21.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	43.5	68.0	45.0	641.0	88.5	43.5	42.5	39.5
Merged-chr19-44069391-4	chr19	44069286	44069486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164359, exon 2 of 12)	5' UTR (NM_001164359, exon 2 of 12)	300.0	NM_145502	226144.0	Mm.279865	NM_145502	ENSMUSG00000025198	Erlin1	2810439N09Rik|C80197|Keo4|Spfh1	ER lipid raft associated 1	protein-coding	51.0	86.5	44.5	525.0	137.5	45.0	76.0	47.0
Merged-chr3-7613052-5	chr3	7612922	7613122	+	947.2800289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313890)	promoter-TSS (NM_001313890)	-129.0	NM_001313890	16196.0	Mm.3825	NM_008371	ENSMUSG00000040329	Il7	A630026I06Rik|Il-7|hlb368	interleukin 7	protein-coding	6.0	6.5	9.0	49.0	18.5	9.0	7.0	8.0
Merged-chr15-96627390-4	chr15	96627262	96627462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166458, intron 1 of 15)	intron (NM_001166458, intron 1 of 15)	14600.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	40.5	60.0	46.0	994.5	118.0	30.5	49.5	48.0
Merged-chr6-31190779-4	chr6	31190682	31190882	+	949.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 1 of 2)	intron (NR_110470, intron 1 of 2)	27692.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	14.0	31.5	11.0	305.5	60.5	12.5	16.5	26.5
Merged-chr3-27183871-5	chr3	27183735	27183935	+	996.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	831.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	27.0	24.0	17.0	160.0	33.0	14.0	19.0	32.0
Merged-chr13-23563300-4	chr13	23563191	23563391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178205)	promoter-TSS (NM_178205)	-926.0	NM_178205	319151.0	Mm.261658	NM_178205	ENSMUSG00000069273	Hist1h3e	H3-f|H3.1	histone cluster 1, H3e	protein-coding	18.5	33.5	19.5	310.5	45.5	29.5	21.0	33.5
Merged-chr11-62494944-4	chr11	62494843	62495043	+	965.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039536, intron 2 of 6)	intron (NM_001039536, intron 2 of 6)	36483.0	NM_001039536	327942.0	Mm.390358	NM_199026	ENSMUSG00000014245	Pigl	Gm737	phosphatidylinositol glycan anchor biosynthesis, class L	protein-coding	21.0	16.0	47.5	728.0	41.5	8.0	44.0	39.5
Merged-chr17-45953739-3	chr17	45953642	45953842	+	945.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71421.0	NM_001110267	22339.0	Mm.282184	NM_009505	ENSMUSG00000023951	Vegfa	Vegf|Vpf	vascular endothelial growth factor A	protein-coding	9.5	13.5	27.5	309.5	29.0	4.0	11.5	9.0
Merged-chr2-43561390-4	chr2	43561296	43561496	+	958.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289593, intron 1 of 12)	intron (NM_001289593, intron 1 of 12)	6071.0	NM_027552	70789.0	Mm.105278	NM_027552	ENSMUSG00000026866	Kynu	4432411A05Rik	kynureninase (L-kynurenine hydrolase)	protein-coding	26.0	12.0	20.5	294.5	39.5	6.5	20.5	15.0
Merged-chr15-101316011-4	chr15	101315918	101316118	+	948.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22806.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	27.0	22.0	18.5	190.0	50.5	22.5	12.5	16.5
Merged-chr15-6708310-4	chr15	6708209	6708409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030168)	promoter-TSS (NM_030168)	-72.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	44.5	58.0	32.5	546.5	130.5	30.5	34.0	33.5
Merged-chr7-145050914-4	chr7	145050805	145051005	+	889.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110980.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	23.0	14.0	10.0	300.0	18.0	11.0	21.5	11.5
Merged-chr7-127091771-3	chr7	127091669	127091869	+	966.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178901, intron 1 of 1)	intron (NM_178901, intron 1 of 1)	333.0	NM_178901	101602.0	Mm.490357	NM_178901	ENSMUSG00000045165	AI467606	-	expressed sequence AI467606	protein-coding	9.0	21.0	18.5	222.0	4.5	0.5	4.5	5.5
Merged-chr13-110672798-2	chr13	110672698	110672898	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-230701.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	4.5	4.5	5.0	106.0	10.5	5.5	6.0	5.5
Merged-chr10-60283721-4	chr10	60283634	60283834	+	874.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146124)	promoter-TSS (NM_001146124)	-727.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	13.0	5.5	13.5	248.0	18.0	5.0	14.0	14.0
Merged-chr3-153571645-11	chr3	153571535	153571735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 1 of 4)	intron (NM_011372, intron 1 of 4)	153498.0	NM_011372	20447.0	Mm.296453	NM_011372	ENSMUSG00000052544	St6galnac3	Siat7c	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 3	protein-coding	8.0	15.5	20.0	298.5	45.0	19.5	39.0	31.5
Merged-chr19-40744835-2	chr19	40744734	40744934	+	957.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85064.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	6.5	9.5	5.0	37.0	7.0	8.0	5.5	4.5
Merged-chr13-95347136-2	chr13	95347036	95347236	+	970.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16525.0	NR_034043	100217450.0	Mm.442313	NR_034043	ENSMUSG00000088108	Snora47	MBI-115	small nucleolar RNA, H/ACA box 47	snoRNA	2.0	0.5	3.0	78.5	11.5	4.5	8.0	6.0
Merged-chr6-113045692-4	chr6	113045590	113045790	+	789.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355266)	promoter-TSS (NM_001355266)	-612.0	NM_001355266	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	19.5	16.0	5.5	221.0	15.0	7.5	9.5	15.5
Merged-chr14-7817956-4	chr14	7817866	7818066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134080)	promoter-TSS (NM_134080)	9.0	NM_134080	286940.0	Mm.489652	NM_134080	ENSMUSG00000025278	Flnb	AL024016|Fln-b	filamin, beta	protein-coding	138.5	160.5	113.5	2254.0	223.5	84.0	125.5	73.0
Merged-chr13-12520230-3	chr13	12520129	12520329	+	945.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133643, exon 1 of 6)	5' UTR (NM_133643, exon 1 of 6)	221.0	NM_133643	171211.0	Mm.159671	NM_133643	ENSMUSG00000095105	Edaradd	1810032E07Rik|5830469M23Rik|A630043P06|cr	EDAR (ectodysplasin-A receptor)-associated death domain	protein-coding	9.0	5.5	5.0	143.5	13.5	4.0	5.0	7.5
Merged-chr6-113695929-4	chr6	113695831	113696031	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172161)	TTS (NM_172161)	-1119.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	8.5	28.5	15.0	116.5	34.5	8.0	15.0	7.5
Merged-chr13-110538450-5	chr13	110538425	110538625	+	905.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143481.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	10.0	8.0	9.0	61.5	12.5	5.0	10.5	8.5
Merged-chr11-83443040-2	chr11	83442940	83443140	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_080453, intron 7 of 7)	intron (NM_080453, intron 7 of 7)	5346.0	NM_025492	66330.0	Mm.44800	NM_025492	ENSMUSG00000035085	1700020L24Rik	-	RIKEN cDNA 1700020L24 gene	protein-coding	9.0	22.0	3.0	74.0	16.0	5.0	5.5	5.5
Merged-chr4-55488808-4	chr4	55488706	55488906	+	960.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B|LTR|ERVL	43669.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	26.0	21.5	24.5	329.0	31.0	16.0	15.0	15.0
Merged-chr11-3174025-9	chr11	3173891	3174091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 6 of 32)	intron (NM_030207, intron 6 of 32)	19472.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	448.5	456.5	674.0	5493.5	57.5	35.0	27.5	59.0
Merged-chr6-4997769-3	chr6	4997663	4997863	+	857.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	94443.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	11.0	12.0	8.5	162.5	15.0	4.0	5.5	2.5
Merged-chr16-30604266-4	chr16	30604152	30604352	+	931.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4529.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	14.5	16.0	17.5	169.5	33.5	8.5	16.0	15.0
Merged-chr9-71165286-4	chr9	71165190	71165390	+	973.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2001.0	NM_022026	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	15.5	33.0	18.5	330.0	51.5	12.0	37.0	31.5
Merged-chr4-101721948-4	chr4	101721849	101722049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146146, intron 1 of 18)	L2a|LINE|L2	4542.0	NM_010704	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	50.5	28.0	63.5	850.0	105.0	27.0	56.5	54.0
Merged-chr17-25015951-4	chr17	25015849	25016049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020608)	promoter-TSS (NM_020608)	-137.0	NM_134126	106633.0	Mm.32802	NM_134126	ENSMUSG00000024169	Ift140	AI661311|Tce5|Wdtc2|mKIAA0590	intraflagellar transport 140	protein-coding	283.0	383.5	193.0	3049.0	561.0	230.0	229.0	205.5
Merged-chr7-75782161-4	chr7	75782082	75782282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66156.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	112.0	205.5	147.5	1934.0	305.5	114.5	114.0	87.5
Merged-chr3-69598992-4	chr3	69598906	69599106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020026)	promoter-TSS (NM_020026)	-46.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	34.0	50.0	30.0	312.5	65.5	23.0	36.5	37.0
Merged-chr9-77751315-4	chr9	77751210	77751410	+	987.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3225.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	29.0	24.5	39.5	483.5	78.0	18.0	17.0	41.5
Merged-chr2-60020044-4	chr2	60019928	60020128	+	979.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 2 of 35)	MTE2b|LTR|ERVL-MaLR	105712.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	16.0	34.5	10.5	294.0	45.5	16.0	25.0	20.5
Merged-chr4-40202407-3	chr4	40202305	40202505	+	930.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	37420.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	10.5	6.5	9.0	151.0	19.0	6.5	13.0	13.0
Merged-chr1-80759892-4	chr1	80759832	80760032	+	821.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1379.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	4.5	13.0	10.0	94.0	17.0	11.0	3.5	6.0
Merged-chr10-52234061-1	chr10	52233961	52234161	+	714.0	f0_balb.idr	intron (NM_001347444, intron 1 of 9)	CpG	442.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	8.5	14.5	20.5	202.0	11.0	9.0	3.5	15.5
Merged-chr13-94381619-4	chr13	94381517	94381717	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009680, intron 1 of 26)	intron (NM_009680, intron 1 of 26)	22657.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	14.0	15.5	18.5	422.5	75.0	17.5	21.5	19.0
Merged-chr10-34128648-4	chr10	34128530	34128730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175449)	promoter-TSS (NM_175449)	-658.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	76.0	196.5	121.0	1453.5	306.5	79.5	87.0	66.0
Merged-chr8-94528383-2	chr8	94528283	94528483	+	856.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4645.0	NM_153507	234577.0	Mm.291815	NM_153507	ENSMUSG00000034361	Cpne2	3322401K10Rik	copine II	protein-coding	11.5	11.0	7.0	68.0	29.5	6.0	18.5	12.0
Merged-chr11-111096807-4	chr11	111096718	111096918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30654.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	98.5	93.5	89.5	1195.0	229.0	87.5	72.5	109.0
Merged-chr1-156035638-2	chr1	156035532	156035732	+	1000.0	f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_001160019)	promoter-TSS (NM_001160019)	-32.0	NM_172843	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	32.5	73.5	43.5	758.0	94.5	48.5	42.0	33.5
Merged-chr12-84180874-4	chr12	84180800	84181000	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	B4A|SINE|B4	13115.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	17.0	27.5	19.0	221.0	89.5	17.5	25.0	13.0
Merged-chr19-29501633-3	chr19	29501561	29501761	+	749.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20326.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	7.5	12.5	9.0	65.0	29.0	6.0	9.5	16.0
Merged-chr16-25064704-2	chr16	25064604	25064804	+	730.375	f1_balb.idr|f1_c57bl6.idr	intron (NR_040374, intron 1 of 2)	intron (NR_040374, intron 1 of 2)	5065.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	14.5	6.5	12.5	79.0	8.0	9.0	24.0	8.5
Merged-chr2-27025752-4	chr2	27025651	27025851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177627, intron 3 of 8)	L2|LINE|L2	2247.0	NM_172659	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	54.5	86.5	26.5	340.0	113.0	38.0	47.5	43.5
Merged-chr9-67001275-4	chr9	67001172	67001372	+	877.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25788.0	NM_030717	80907.0	Mm.157882	NM_030717	ENSMUSG00000032370	Lactb	LACT-1|Lact1|Mrpl56	lactamase, beta	protein-coding	6.5	24.5	6.0	116.0	29.5	12.5	11.5	13.0
Merged-chr2-22986503-1	chr2	22986403	22986603	+	613.666687	f0_balb.idr	intron (NM_001077190, intron 2 of 10)	intron (NM_001077190, intron 2 of 10)	53738.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	11.0	8.0	7.5	131.0	10.0	0.5	1.5	12.0
Merged-chr16-20724597-3	chr16	20724497	20724697	+	711.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001289896, exon 6 of 6)	3' UTR (NM_001289896, exon 6 of 6)	6001.0	NM_001289896	21832.0	Mm.3943	NM_009379	ENSMUSG00000022847	Thpo	Mgdf|Ml|Mpllg|Tpo	thrombopoietin	protein-coding	9.0	10.0	2.5	86.0	12.5	7.0	12.0	7.0
Merged-chr8-61909940-3	chr8	61909857	61910057	+	871.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7263.0	NM_001293772	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	7.5	4.0	12.0	122.5	14.5	5.5	11.0	10.0
Merged-chr12-110458883-4	chr12	110458700	110458900	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135001, intron 2 of 13)	L1MA5A|LINE|L1	11621.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	21.5	17.5	30.0	252.0	28.0	11.5	14.5	28.0
Merged-chr8-41298548-4	chr8	41298446	41298646	+	950.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 22 of 37)	L1MA5A|LINE|L1	58787.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	9.0	32.0	13.0	254.5	85.5	28.0	16.0	33.0
Merged-chr11-75324623-4	chr11	75324530	75324730	+	858.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026653, intron 5 of 16)	Lx8|LINE|L1	23753.0	NM_001164223	68275.0	Mm.102574	NM_026653	ENSMUSG00000000751	Rpa1	5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa	replication protein A1	protein-coding	10.0	19.0	7.5	98.5	42.0	10.5	14.0	21.0
Merged-chr3-51360356-3	chr3	51360241	51360441	+	882.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-19697.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	2.5	1.5	2.0	40.5	28.5	14.5	10.5	16.0
Merged-chr10-10287669-4	chr10	10287474	10287674	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	184740.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	28.0	23.5	24.5	415.0	34.0	9.5	9.0	12.0
Merged-chr5-36560357-3	chr5	36560239	36560439	+	793.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	22058.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	0.0	0.0	0.0	0.0	18.0	5.5	17.0	24.5
Merged-chr11-95729123-3	chr11	95729024	95729224	+	854.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5538.0	NR_028263	320616.0	Mm.428140	NM_177209	ENSMUSG00000075596	B130006D01Rik	-	RIKEN cDNA B130006D01 gene	ncRNA	15.0	9.0	2.0	40.5	21.0	5.0	9.5	10.5
Merged-chr15-31615615-4	chr15	31615493	31615693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356313, intron 5 of 5)	intron (NM_001356313, intron 5 of 5)	13477.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	33.0	32.0	33.5	423.0	58.0	17.5	36.0	16.0
Merged-chr12-112976527-4	chr12	112976424	112976624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145900)	promoter-TSS (NM_001145900)	-39.0	NM_201646	399566.0	Mm.440140	NM_201646	ENSMUSG00000002803	Btbd6	-	BTB (POZ) domain containing 6	protein-coding	36.0	36.0	25.0	591.0	54.5	33.5	55.0	35.0
Merged-chr4-62283086-4	chr4	62282981	62283181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3348.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	68.0	140.0	73.5	746.0	229.5	76.5	67.0	56.5
Merged-chr19-5024519-3	chr19	5024364	5024564	+	938.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007854, intron 1 of 11)	CpG	458.0	NM_007854	13340.0	Mm.4930	NM_007854	ENSMUSG00000024891	Slc29a2	Der12|Ent2|Hnp36	solute carrier family 29 (nucleoside transporters), member 2	protein-coding	11.0	9.5	5.0	45.0	21.0	5.0	9.5	4.5
Merged-chr6-148443091-2	chr6	148442991	148443191	+	814.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_198967, intron 1 of 19)	intron (NM_198967, intron 1 of 19)	1261.0	NM_198967	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	5.5	5.5	7.5	36.5	13.5	2.5	4.0	9.0
Merged-chr8-88295240-2	chr8	88295140	88295340	+	963.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037724, intron 2 of 27)	intron (NM_001037724, intron 2 of 27)	1036.0	NM_001037724	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	8.0	9.5	10.5	72.5	15.0	7.0	1.5	4.0
Merged-chr11-50827786-4	chr11	50827683	50827883	+	858.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013922)	promoter-TSS (NM_013922)	-52.0	NM_013922	30944.0	Mm.103674	NM_013922	ENSMUSG00000044807	Zfp354c	5330421P20Rik|AJ18|AW743325|Kid3|Tcf17l2|Znf354c|mKIAA4218	zinc finger protein 354C	protein-coding	17.5	13.0	17.5	288.0	21.0	6.5	32.0	13.0
Merged-chr18-52614201-3	chr18	52614111	52614311	+	641.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1704.0	NM_025749	66758.0	Mm.251599	NM_025749	ENSMUSG00000046886	Zfp474	4933409D10Rik|Znf474	zinc finger protein 474	protein-coding	4.5	7.0	9.0	156.5	17.5	7.5	7.0	12.5
Merged-chr1-54926421-4	chr1	54926327	54926527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081433)	promoter-TSS (NM_001081433)	-40.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	23.5	38.0	23.5	562.0	104.0	34.0	66.0	37.5
Merged-chr10-99265501-4	chr10	99265400	99265600	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026268, intron 2 of 2)	intron (NM_026268, intron 2 of 2)	2269.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	18.5	24.5	29.0	342.5	51.5	19.0	26.5	20.0
Merged-chr19-6978477-3	chr19	6978381	6978581	+	840.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008020, intron 3 of 5)	intron (NM_008020, intron 3 of 5)	911.0	NM_001360288	14227.0	Mm.4234	NM_008020	ENSMUSG00000056629	Fkbp2	mFKBP13|mFKBP2	FK506 binding protein 2	protein-coding	5.0	8.0	7.5	78.0	16.0	1.0	3.0	4.5
Merged-chr4-40971426-2	chr4	40971329	40971529	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001290448, intron 1 of 15)	CpG	486.0	NM_023739	74164.0	Mm.247456	NM_023739	ENSMUSG00000028423	Nfx1	1300017N15Rik|3000003M19Rik|NFX.1|TEG-42|Tex42	nuclear transcription factor, X-box binding 1	protein-coding	40.0	65.5	40.5	535.0	101.0	47.0	49.0	39.0
Merged-chr6-135008414-4	chr6	135008326	135008526	+	946.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3186.0	NM_026360	67755.0	Mm.166524	NM_026360	ENSMUSG00000030204	Ddx47	4930588A18Rik|C77285	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	protein-coding	25.5	32.0	21.5	537.5	34.5	6.0	24.0	31.5
Merged-chr5-147430193-4	chr5	147430162	147430362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359433, exon 1 of 20)	5' UTR (NM_001359433, exon 1 of 20)	106.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	22.0	80.0	60.0	634.5	86.0	54.0	57.5	51.5
Merged-chr6-134705901-4	chr6	134705794	134705994	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 3 of 3)	intron (NM_001170479, intron 3 of 3)	64954.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	7.0	14.0	14.0	219.5	42.0	23.5	20.0	16.0
Merged-chr2-60923283-4	chr2	60923176	60923376	+	961.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	39928.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	19.0	18.0	17.0	261.0	70.5	21.5	24.5	16.5
Merged-chr13-23517224-4	chr13	23517123	23517323	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Gly-GGY|tRNA|tRNA	-13821.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	22.0	18.5	13.5	200.0	60.0	18.5	13.5	21.5
Merged-chr16-90283027-4	chr16	90282876	90283076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 1 of 19)	intron (NM_001346799, intron 1 of 19)	1510.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	47.5	66.5	36.0	731.0	99.0	41.5	51.5	59.5
Merged-chr3-79158421-4	chr3	79158338	79158538	+	978.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-12563.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	42.0	78.0	46.0	449.0	32.0	46.5	44.0	27.0
Merged-chr3-109425684-3	chr3	109425619	109425819	+	936.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	85036.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	0.0	0.0	3.0	11.0	41.0	10.5	23.5	11.5
Merged-chr12-112543069-4	chr12	112542969	112543169	+	849.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31909.0	NM_178915	104885.0	Mm.37751	NM_178915	ENSMUSG00000054013	Tmem179	AI839735	transmembrane protein 179	protein-coding	8.5	19.0	8.5	182.0	18.5	8.5	8.5	18.0
Merged-chr10-77130697-4	chr10	77130578	77130778	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009929, intron 2 of 41)	intron (NM_009929, intron 2 of 41)	-16973.0	NM_001109991	12822.0	Mm.4352	NM_009929	ENSMUSG00000001435	Col18a1	-	collagen, type XVIII, alpha 1	protein-coding	5.0	7.0	17.0	200.5	23.5	11.0	4.0	7.5
Merged-chr8-47990553-4	chr8	47990432	47990632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133791)	promoter-TSS (NM_133791)	19.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	173.0	205.5	186.0	2619.5	343.0	121.0	181.0	158.5
Merged-chr11-119917249-3	chr11	119917173	119917373	+	956.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085498, intron 6 of 7)	intron (NM_001085498, intron 6 of 7)	3463.0	NM_001085498	208092.0	Mm.306673	NM_001085498	ENSMUSG00000025371	Chmp6	2400004G01Rik	charged multivesicular body protein 6	protein-coding	14.5	9.5	10.0	249.5	8.5	3.0	6.5	10.5
Merged-chr11-43411610-4	chr11	43411523	43411723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14358.0	NM_013917	30939.0	Mm.6856	NM_013917	ENSMUSG00000020415	Pttg1	AW555095|C87862|Pttg|Pttg3	pituitary tumor-transforming gene 1	protein-coding	83.5	110.0	68.0	1046.5	193.5	69.0	80.0	59.0
Merged-chr13-21787395-4	chr13	21787298	21787498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178202)	promoter-TSS (NM_178202)	-90.0	NM_178202	319188.0	Mm.264645	NM_178202	ENSMUSG00000069308	Hist1h2bp	-	histone cluster 1, H2bp	protein-coding	225.5	290.0	174.5	3038.5	567.0	198.0	257.0	206.0
Merged-chr13-5800040-3	chr13	5799936	5800136	+	761.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58056.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	5.5	9.0	5.0	66.0	8.0	2.0	3.5	2.5
Merged-chr3-146352384-4	chr3	146352315	146352515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26529.0	NR_033542	100038607.0	Mm.365888	NR_033542	ENSMUSG00000105602	Gm10636	-	predicted gene 10636	ncRNA	38.0	63.5	47.0	805.5	114.5	58.5	72.0	73.0
Merged-chr3-51560751-4	chr3	51560633	51560833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080793)	promoter-TSS (NM_080793)	90.0	NM_080793	73251.0	Mm.192111	NM_080793	ENSMUSG00000037111	Setd7	1600028F23Rik|H3K4MT|KMT7|Set7|Set7/9|mKIAA1717	SET domain containing (lysine methyltransferase) 7	protein-coding	27.0	32.0	35.0	309.0	81.5	18.0	20.5	41.0
Merged-chr15-88509211-4	chr15	88509116	88509316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91086.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	156.5	169.0	170.5	2912.5	395.5	134.5	209.0	182.0
Merged-chr17-81480547-4	chr17	81480450	81480650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	257837.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	45.0	71.5	90.0	1067.0	146.5	49.5	47.0	39.5
Merged-chr11-115634271-4	chr11	115634173	115634373	+	968.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5978.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	33.0	29.5	18.0	269.0	55.5	27.0	33.0	14.5
Merged-chr18-34663301-4	chr18	34663216	34663416	+	810.920837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11580.0	NM_178347	52563.0	Mm.196638	NM_178347	ENSMUSG00000024370	Cdc23	6030435O18|D18Ertd243e	CDC23 cell division cycle 23	protein-coding	4.0	16.5	3.5	145.0	39.5	19.5	13.0	24.0
Merged-chr9-90034123-4	chr9	90034017	90034217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20150.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	119.5	217.0	107.0	1890.5	406.5	147.5	138.5	146.0
Merged-chr5-120514441-4	chr5	120514307	120514507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 2 of 13)	intron (NM_001177595, intron 2 of 13)	3215.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	76.0	113.0	178.0	2588.5	176.5	44.0	93.5	81.0
Merged-chr3-104822610-4	chr3	104822495	104822695	+	859.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001355044)	TTS (NM_001355044)	-4032.0	NM_001163440	17454.0	Mm.1597	NM_008619	ENSMUSG00000002227	Mov10	C77703|Mov-10	Moloney leukemia virus 10	protein-coding	6.0	13.0	9.0	216.5	26.0	10.0	6.0	13.0
Merged-chr16-21652868-4	chr16	21652801	21653001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001001881, exon 2 of 2)	3' UTR (NM_001001881, exon 2 of 2)	41764.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	27.5	32.0	31.0	573.5	76.5	22.0	34.0	27.5
Merged-chr5-36538816-4	chr5	36538722	36538922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 3 of 13)	L1MEf|LINE|L1	-8199.0	NM_001113364	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	28.0	25.0	27.0	581.0	63.0	9.5	24.0	32.0
Merged-chr19-4928335-4	chr19	4928238	4928438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133803)	promoter-TSS (NM_133803)	-51.0	NM_133803	75221.0	Mm.234769	NM_133803	ENSMUSG00000063904	Dpp3	4930533O14Rik|C86324|DPP III	dipeptidylpeptidase 3	protein-coding	62.0	119.5	54.0	810.0	265.5	61.5	94.5	64.5
Merged-chr9-32509907-3	chr9	32509791	32509991	+	992.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	31561.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	11.0	20.0	17.5	221.5	9.5	2.5	4.5	6.5
Merged-chr7-90362918-3	chr7	90362830	90363030	+	661.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040085, intron 4 of 18)	intron (NM_001040085, intron 4 of 18)	-24051.0	NM_001040087	83671.0	Mm.26751	NM_031394	ENSMUSG00000030616	Sytl2	AI266830|Slp2|mKIAA1597	synaptotagmin-like 2	protein-coding	7.5	16.5	10.0	108.0	6.0	0.0	2.5	5.0
Merged-chr15-64072060-3	chr15	64071972	64072172	+	872.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11624.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	17.5	12.0	16.5	192.5	15.0	4.0	5.5	5.5
Merged-chr3-151742437-3	chr3	151742352	151742552	+	773.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133871, intron 5 of 7)	RMER20B|LTR|ERVK	7507.0	NM_133871	99899.0	Mm.30756	NM_133871	ENSMUSG00000028037	Ifi44	A430056A10Rik|AW261460|MTAP44|p44	interferon-induced protein 44	protein-coding	4.0	1.0	1.5	26.5	19.5	10.5	11.0	13.0
Merged-chr7-39448945-1	chr7	39448845	39449045	+	614.0	f0_balb.idr	promoter-TSS (NM_001243021)	promoter-TSS (NM_001243021)	-573.0	NM_001243021	233147.0	Mm.148946	NM_001243021	ENSMUSG00000030424	Zfp939	9430025M13Rik	zinc finger protein 939	protein-coding	6.0	10.0	7.0	95.5	1.5	1.5	1.0	1.5
Merged-chr11-46813384-3	chr11	46813275	46813475	+	761.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 1 of 8)	B3|SINE|B2	2576.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	3.0	7.5	8.5	74.0	27.0	8.0	12.0	8.0
Merged-chr12-118847138-4	chr12	118847049	118847249	+	671.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177082, intron 1 of 2)	CpG	820.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	3.0	7.5	6.5	84.5	33.0	5.0	9.0	6.0
Merged-chr5-104046824-4	chr5	104046706	104046906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028794)	promoter-TSS (NM_028794)	-58.0	NM_028794	74167.0	Mm.241484	NM_028794	ENSMUSG00000029310	Nudt9	1190002C07Rik|ADPR-PPase|AI462474	nudix (nucleoside diphosphate linked moiety X)-type motif 9	protein-coding	239.5	342.0	215.5	3016.5	495.0	272.0	282.0	212.0
Merged-chr9-124053721-4	chr9	124053630	124053830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31759.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	41.5	42.5	69.5	905.5	75.0	24.0	46.0	38.5
Merged-chr14-61498400-4	chr14	61498310	61498510	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045714, intron 2 of 2)	intron (NR_045714, intron 2 of 2)	5722.0	NR_045714	75349.0	Mm.233613	NR_045714	ENSMUSG00000115656	4930556J02Rik	-	RIKEN cDNA 4930556J02 gene	ncRNA	27.5	27.0	17.5	234.0	30.5	13.0	19.0	29.0
Merged-chr2-84531835-3	chr2	84531736	84531936	+	999.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-24963.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	12.5	11.5	8.5	190.0	52.0	10.0	13.5	8.5
Merged-chr4-139230951-4	chr4	139230863	139231063	+	873.49585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	36852.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	14.0	12.5	6.0	155.0	23.5	21.0	12.0	20.5
Merged-chr1-134967876-3	chr1	134967808	134968008	+	771.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026024, intron 2 of 6)	intron (NM_026024, intron 2 of 6)	5343.0	NM_001278115	67196.0	Mm.284587	NM_026024	ENSMUSG00000026429	Ube2t	2700084L22Rik|C80607	ubiquitin-conjugating enzyme E2T	protein-coding	8.0	6.0	7.0	84.5	14.5	2.5	7.5	12.0
Merged-chr1-54883202-1	chr1	54883102	54883302	+	640.0	f0_balb.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	43185.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	5.0	10.0	8.0	73.0	10.5	1.0	2.5	3.0
Merged-chr2-164803607-4	chr2	164803523	164803723	+	908.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133240, intron 1 of 5)	intron (NM_133240, intron 1 of 5)	1258.0	NM_133240	170789.0	Mm.277878	NM_133240	ENSMUSG00000017307	Acot8	PTE-2|Pte1	acyl-CoA thioesterase 8	protein-coding	16.0	14.5	3.5	190.0	58.5	19.5	11.5	11.0
Merged-chr13-49324469-4	chr13	49324362	49324562	+	977.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15254.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	14.5	30.0	24.5	343.5	41.5	11.5	20.5	19.5
Merged-chr11-116808407-3	chr11	116808281	116808481	+	881.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347633, intron 4 of 4)	intron (NM_001347633, intron 4 of 4)	19665.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	13.0	24.5	5.0	118.0	13.0	2.0	2.5	8.0
Merged-chr7-92637506-2	chr7	92637409	92637609	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028665)	promoter-TSS (NM_028665)	-367.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	9.0	23.0	11.0	157.0	40.0	13.5	13.5	16.5
Merged-chr9-41999800-3	chr9	41999686	41999886	+	682.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357261, intron 26 of 42)	intron (NM_001357261, intron 26 of 42)	77427.0	NM_001357261	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	5.0	8.0	8.5	70.0	9.0	3.0	6.5	20.0
Merged-chr19-3929642-4	chr19	3929539	3929739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026316)	promoter-TSS (NM_026316)	77.0	NM_026316	67689.0	Mm.109341	NM_026316	ENSMUSG00000024885	Aldh3b1	1700001N19Rik|ALDH4|ALDH7	aldehyde dehydrogenase 3 family, member B1	protein-coding	68.5	97.5	75.0	772.5	116.0	44.5	47.5	41.5
Merged-chr2-118008214-4	chr2	118008102	118008302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	103000.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	208.0	172.5	193.5	3058.0	437.0	129.0	186.5	187.0
Merged-chr15-99030782-4	chr15	99030675	99030875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	intron (NM_009448, intron 1 of 3)	884.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	47.0	116.0	48.5	677.0	135.5	48.5	71.0	69.5
Merged-chr13-30136454-3	chr13	30136367	30136567	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153546)	promoter-TSS (NM_153546)	-23.0	NM_153546	218121.0	Mm.89682	NM_153546	ENSMUSG00000038732	Mboat1	9130215M02Rik|BC023845|LPEAT1|Moact1|Oact1	membrane bound O-acyltransferase domain containing 1	protein-coding	9.5	4.5	10.0	137.5	4.5	3.5	4.0	21.0
Merged-chr7-25269871-4	chr7	25269761	25269961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302811, intron 1 of 20)	intron (NM_001302811, intron 1 of 20)	2162.0	NM_001302811	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	53.0	89.5	48.5	960.0	86.5	27.0	48.5	37.5
Merged-chr6-146671619-4	chr6	146671509	146671709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14391.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	57.0	99.5	51.0	929.5	63.0	24.0	25.5	25.5
Merged-chr14-51907380-3	chr14	51907277	51907477	+	735.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360266, intron 11 of 15)	intron (NM_001360266, intron 11 of 15)	4612.0	NM_001360269	29811.0	Mm.26722	NM_013864	ENSMUSG00000004558	Ndrg2	AI182517|AU040374|Ndr2|SYLD	N-myc downstream regulated gene 2	protein-coding	1.0	4.5	5.5	31.5	17.0	8.5	16.5	17.0
Merged-chr13-52189720-4	chr13	52189598	52189798	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	92957.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	21.0	20.5	20.0	295.0	40.5	14.5	28.0	32.0
Merged-chr10-26773186-4	chr10	26773062	26773262	+	985.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	650.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	14.5	23.5	16.0	297.5	39.0	6.0	16.0	10.0
Merged-chr9-88709688-2	chr9	88709587	88709787	+	963.0	f0_balb.idr|f0_c57.idr	intron (NM_001359992, intron 2 of 2)	intron (NM_001359992, intron 2 of 2)	9900.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	26.0	35.0	21.5	339.0	89.0	12.5	16.0	19.0
Merged-chr14-64368423-3	chr14	64368322	64368522	+	700.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 1 of 4)	intron (NM_001253715, intron 1 of 4)	48534.0	NM_001253716	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	6.5	12.0	7.0	247.0	9.5	8.0	4.5	2.5
Merged-chr8-66341012-3	chr8	66340921	66341121	+	993.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 4 of 7)	intron (NM_175188, intron 4 of 7)	-45280.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	4.5	14.0	26.5	517.5	12.5	3.0	9.5	16.5
Merged-chr10-91080740-4	chr10	91080641	91080841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042558, intron 1 of 26)	intron (NM_001042558, intron 1 of 26)	2002.0	NM_001042558	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	16.5	47.5	23.0	251.5	102.5	27.0	28.5	13.5
Merged-chr11-5520910-4	chr11	5520826	5521026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001271730, exon 1 of 6)	5' UTR (NM_001271730, exon 1 of 6)	285.0	NM_001271730	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	139.0	178.5	112.0	1551.0	347.0	129.5	158.0	139.0
Merged-chr16-32010547-3	chr16	32010461	32010661	+	715.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7274.0	NM_177103	320213.0	Mm.152890	NM_023801	ENSMUSG00000022772	Senp5	6230429P13Rik|A730063F07Rik|AI851888|BB189556|SMT3IP3	SUMO/sentrin specific peptidase 5	protein-coding	9.5	13.5	5.5	53.0	11.5	6.5	7.0	12.5
Merged-chr6-85380678-4	chr6	85380576	85380776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6042.0	NM_001003955	52055.0	Mm.220334	NM_177466	ENSMUSG00000051343	Rab11fip5	9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11	RAB11 family interacting protein 5 (class I)	protein-coding	88.0	155.0	70.5	1573.0	200.5	88.0	90.0	74.0
Merged-chr2-129258975-4	chr2	129258884	129259084	+	664.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38228.0	NM_181589	70466.0	Mm.45785	NM_181589	ENSMUSG00000048327	Ckap2l	2010016H04Rik|2610318C08Rik|AV070319|radmis|rdm	cytoskeleton associated protein 2-like	protein-coding	6.5	7.5	0.5	119.0	25.0	10.5	5.5	6.0
Merged-chr3-103841128-3	chr3	103841024	103841224	+	744.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142960, intron 3 of 3)	RLTR45|LTR|ERVK	8428.0	NM_001142960	229672.0	Mm.297245	NM_001142959	ENSMUSG00000044165	Bcl2l15	Bfk|Gm566	BCLl2-like 15	protein-coding	6.5	5.5	12.0	62.5	31.5	13.0	17.0	13.5
Merged-chr16-76373771-4	chr16	76373670	76373870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173440)	promoter-TSS (NM_173440)	57.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	51.5	59.0	74.0	928.0	74.0	23.0	58.0	37.0
Merged-chr14-73410296-4	chr14	73410179	73410379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24990.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	44.5	61.0	26.0	430.5	81.0	33.5	45.5	34.5
Merged-chr3-104817936-6	chr3	104817854	104818054	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008619, exon 1 of 20)	exon (NM_008619, exon 1 of 20)	351.0	NM_008619	17454.0	Mm.1597	NM_008619	ENSMUSG00000002227	Mov10	C77703|Mov-10	Moloney leukemia virus 10	protein-coding	13.0	17.0	12.0	159.5	25.5	8.0	15.0	20.5
Merged-chr8-83783327-4	chr8	83783203	83783403	+	943.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41992.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	22.0	35.5	5.0	164.5	32.5	13.0	12.0	7.5
Merged-chr4-8804107-3	chr4	8804018	8804218	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 3 of 36)	intron (NM_001355382, intron 3 of 36)	52794.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	28.5	15.5	29.0	510.0	18.0	5.5	2.5	16.5
Merged-chr15-97858629-3	chr15	97858561	97858761	+	993.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009504, intron 9 of 9)	intron (NM_009504, intron 9 of 9)	-14159.0	NM_001204278	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	4.5	6.5	6.5	118.5	25.0	7.0	7.5	4.0
Merged-chr9-103233189-4	chr9	103233088	103233288	+	772.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2902.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	6.5	6.0	1.5	107.0	35.0	12.0	19.0	11.0
Merged-chr6-8339658-4	chr6	8339550	8339750	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302354, intron 2 of 3)	intron (NM_001302354, intron 2 of 3)	80362.0	NM_001302353	100036521.0	Mm.446106	NM_001302353	ENSMUSG00000089862	Umad1	Gm16039	UMAP1-MVP12 associated (UMA) domain containing 1	protein-coding	27.5	38.5	33.5	790.0	59.0	20.0	20.0	34.0
Merged-chr4-109118065-4	chr4	109117950	109118150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134791)	promoter-TSS (NM_001134791)	-14.0	NM_001134791	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	114.5	159.0	89.0	1157.0	265.5	88.5	101.5	83.5
Merged-chr3-133086075-4	chr3	133085982	133086182	+	791.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356309, intron 1 of 11)	intron (NM_001356309, intron 1 of 11)	5743.0	NM_026231	67553.0	Mm.304899	NM_026231	ENSMUSG00000028018	Gstcd	4933434L15Rik	glutathione S-transferase, C-terminal domain containing	protein-coding	4.0	24.5	8.5	252.0	24.0	11.0	19.0	13.0
Merged-chr13-30987105-4	chr13	30987008	30987208	+	975.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13061.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	20.5	17.0	24.5	262.5	28.5	14.0	21.5	22.5
Merged-chr7-35554923-4	chr7	35554837	35555037	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033080, intron 1 of 2)	intron (NM_033080, intron 1 of 2)	991.0	NM_033080	110959.0	Mm.410206	NM_033080	ENSMUSG00000034875	Nudt19	D7Rp2|D7Rp2-r|D7Rp2-s|D7Rp2e|RP2-r|RP2-s	nudix (nucleoside diphosphate linked moiety X)-type motif 19	protein-coding	18.5	17.0	23.5	276.5	42.5	9.5	23.5	15.5
Merged-chr11-120581641-4	chr11	120581543	120581743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133796)	promoter-TSS (NM_133796)	-23.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	37.5	54.5	26.0	337.0	148.5	53.5	30.0	38.0
Merged-chr2-103566268-4	chr2	103566181	103566381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178890)	promoter-TSS (NM_178890)	-29.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	78.0	110.0	95.0	1497.0	174.5	57.5	114.5	81.5
Merged-chr8-83144786-4	chr8	83144648	83144848	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-20604.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	88.5	122.5	80.5	982.0	51.5	29.0	17.0	13.5
Merged-chr8-46140079-3	chr8	46139972	46140172	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15926.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	13.5	12.0	6.0	162.0	17.5	4.5	5.0	16.0
Merged-chr19-55767792-4	chr19	55767687	55767887	+	779.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	(TC)n|Simple_repeat|Simple_repeat	25977.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	8.0	14.0	7.0	71.5	24.0	12.5	7.0	17.5
Merged-chr9-63780726-4	chr9	63780609	63780809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22715.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	94.5	140.0	75.5	1223.5	187.5	59.0	77.0	82.5
Merged-chr14-14869448-3	chr14	14869340	14869540	+	985.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 21 of 34)	HAL1|LINE|L1	48625.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	19.0	4.5	11.0	213.0	19.0	2.5	9.5	5.0
Merged-chr2-164929242-4	chr2	164929133	164929333	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17483.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	24.5	25.0	35.0	407.0	50.0	13.5	19.0	22.5
Merged-chr15-90403802-4	chr15	90403677	90403877	+	916.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50067.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	15.0	24.5	12.5	396.0	35.0	14.0	11.5	20.0
Merged-chr5-149241186-4	chr5	149241133	149241333	+	957.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23771.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	10.0	17.5	4.0	172.5	40.5	23.5	11.0	11.0
Merged-chr16-28929058-4	chr16	28928979	28929179	+	885.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177718, intron 1 of 1)	CpG	619.0	NM_177718	239796.0	Mm.155887	NM_177718	ENSMUSG00000051065	Mb21d2	1600021P15Rik|A430031N04|C87006	Mab-21 domain containing 2	protein-coding	14.5	11.0	1.5	165.0	23.5	5.0	14.5	14.5
Merged-chr6-124729510-4	chr6	124729417	124729617	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077705, intron 3 of 15)	B1F2|SINE|Alu	3637.0	NM_013545	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	27.0	28.5	20.5	206.0	72.0	19.0	19.0	20.5
Merged-chr6-57823229-4	chr6	57823138	57823338	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	intron (NM_146168, intron 1 of 4)	1887.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	19.5	31.0	17.0	242.0	99.0	27.5	29.0	29.5
Merged-chr8-11103505-2	chr8	11103405	11103605	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95075.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	6.0	12.0	31.0	215.0	16.0	3.5	3.0	9.0
Merged-chr18-12640679-4	chr18	12640551	12640751	+	979.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2882.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	14.5	73.5	34.5	258.5	148.0	52.5	39.5	26.5
Merged-chr14-30717010-4	chr14	30716904	30717104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166532, intron 1 of 20)	intron (NM_001166532, intron 1 of 20)	1389.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	71.0	86.0	119.5	1065.5	176.0	80.5	65.5	49.5
Merged-chr2-27414564-3	chr2	27414450	27414650	+	803.422241	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009500, intron 1 of 27)	intron (NM_009500, intron 1 of 27)	13058.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	6.0	18.0	12.5	201.5	12.5	6.5	5.0	14.0
Merged-chr10-30778940-4	chr10	30778843	30779043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	Lx7|LINE|L1	24383.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	38.5	45.0	32.5	467.5	73.0	35.5	27.0	38.5
Merged-chr2-92253987-3	chr2	92253869	92254069	+	951.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109690, intron 3 of 15)	intron (NM_001109690, intron 3 of 15)	32407.0	NM_001109690	192285.0	Mm.330408	NM_138755	ENSMUSG00000058318	Phf21a	80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1	PHD finger protein 21A	protein-coding	15.5	15.0	12.5	320.5	13.5	3.5	4.5	2.0
Merged-chr9-118617486-4	chr9	118617407	118617607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	RLTR11C_MM|LTR|ERVK	10798.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	148.0	240.5	175.0	2295.0	438.0	143.0	188.0	142.5
Merged-chr17-63873657-4	chr17	63873564	63873764	+	944.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	intron (NM_001037997, intron 1 of 18)	-4402.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	23.5	23.5	21.5	353.5	62.5	5.5	12.0	18.0
Merged-chr2-45117305-4	chr2	45117218	45117418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355288, exon 1 of 11)	5' UTR (NM_001355288, exon 1 of 11)	124.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	38.0	74.0	46.5	241.5	91.5	45.0	50.0	41.0
Merged-chr9-123928246-4	chr9	123928171	123928371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40421.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	92.0	131.0	68.0	1385.0	231.5	70.5	77.0	88.5
Merged-chr14-16366502-1	chr14	16366402	16366602	+	569.0	f0_balb.idr	intron (NM_009409, intron 1 of 35)	intron (NM_009409, intron 1 of 35)	1296.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	5.5	7.0	15.0	77.5	23.0	3.0	4.5	7.5
Merged-chr10-34089616-4	chr10	34089530	34089730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162937, intron 4 of 6)	intron (NM_001162937, intron 4 of 6)	6889.0	NM_178908	103511.0	Mm.66334	NM_178908	ENSMUSG00000049872	Fam26e	BB146404|Calhm5	family with sequence similarity 26, member E	protein-coding	42.0	38.0	21.5	452.5	62.5	6.5	21.5	24.5
Merged-chr3-58414640-4	chr3	58414540	58414740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081229)	promoter-TSS (NM_001081229)	-80.0	NM_001081229	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	59.5	109.0	87.0	1137.5	230.0	92.0	81.0	113.0
Merged-chr14-62347358-4	chr14	62347260	62347460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026001, intron 2 of 10)	intron (NM_026001, intron 2 of 10)	15292.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	96.0	163.0	98.0	1152.5	263.5	70.0	110.0	83.0
Merged-chr19-60982077-4	chr19	60981946	60982146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	intron (NM_018869, intron 1 of 15)	92297.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	33.0	62.0	66.0	871.0	59.0	36.5	49.5	44.5
Merged-chr2-153275156-4	chr2	153275048	153275248	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-16268.0	NM_008444	16569.0	Mm.315560	NM_008444	ENSMUSG00000027475	Kif3b	AI854312|AW549267|mKIAA0359	kinesin family member 3B	protein-coding	24.0	29.5	48.0	595.5	49.0	16.0	25.5	20.0
Merged-chr4-119320550-4	chr4	119320448	119320648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028677)	promoter-TSS (NM_028677)	-25.0	NM_001110130	66101.0	Mm.304080	NM_028677	ENSMUSG00000060288	Ppih	1100001J08Rik|2010111B15Rik|4833408F11Rik|AI464484|CYP-20|CYPH|D4Wsu43e	peptidyl prolyl isomerase H	protein-coding	81.5	84.5	52.0	543.5	177.5	89.0	77.5	83.5
Merged-chr8-95132139-4	chr8	95132050	95132250	+	871.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145831, intron 3 of 21)	intron (NM_001145831, intron 3 of 21)	10390.0	NM_010631	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	9.5	19.0	15.5	295.5	26.0	11.0	9.0	8.0
Merged-chr19-29385127-4	chr19	29385022	29385222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021893, intron 6 of 6)	intron (NM_021893, intron 6 of 6)	17684.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	69.0	161.5	89.0	837.0	202.5	95.0	94.0	66.5
Merged-chr7-98720440-4	chr7	98720346	98720546	+	890.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17199.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	15.5	13.0	2.5	153.5	25.5	11.5	9.5	15.5
Merged-chr1-75245010-4	chr1	75244885	75245085	+	878.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159885, exon 9 of 9)	3' UTR (NM_001159885, exon 9 of 9)	8283.0	NM_001159885	56812.0	Mm.489660	NM_020266	ENSMUSG00000026203	Dnajb2	2700059H22Rik|Dnajb10|Hsj1|mDj8	DnaJ heat shock protein family (Hsp40) member B2	protein-coding	3.0	17.0	7.5	180.0	17.5	8.5	8.5	9.0
Merged-chr1-191328120-4	chr1	191328070	191328270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 1 of 7)	intron (NM_025864, intron 1 of 7)	2205.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	56.5	105.5	50.5	957.5	136.5	46.5	66.0	61.0
Merged-chr11-117663648-4	chr11	117663552	117663752	+	922.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 1 of 21)	intron (NM_198022, intron 1 of 21)	9363.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	16.0	37.0	9.5	222.0	72.5	15.5	12.5	19.5
Merged-chr15-77931829-4	chr15	77931731	77931931	+	956.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2837.0	NM_019913	56551.0	Mm.291917	NM_019913	ENSMUSG00000005354	Txn2	2510006J11Rik|AI788873|Trx2	thioredoxin 2	protein-coding	15.0	33.0	15.0	407.5	40.5	14.5	31.5	37.5
Merged-chr18-46576442-4	chr18	46576340	46576540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1907.0	NM_173394	225471.0	Mm.149280	NM_173394	ENSMUSG00000056130	Ticam2	B430113A10|TICAM-2|TRAM|Tirp|Trif	toll-like receptor adaptor molecule 2	protein-coding	65.5	94.5	54.5	895.5	126.0	59.0	46.5	51.0
Merged-chr2-181659366-4	chr2	181659286	181659486	+	930.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12254.0	NM_009236	20672.0	Mm.264904	NM_009236	ENSMUSG00000046470	Sox18	AI385749|Ra|Ragl	SRY (sex determining region Y)-box 18	protein-coding	14.5	29.5	6.5	255.0	37.5	13.5	10.0	14.0
Merged-chr5-66144464-4	chr5	66144353	66144553	+	923.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	6525.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	4.5	3.0	8.5	146.5	45.0	9.0	25.5	26.5
Merged-chr14-21068827-3	chr14	21068714	21068914	+	836.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 1 of 10)	intron (NM_134079, intron 1 of 10)	-7338.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	11.0	8.5	12.0	98.0	13.5	10.0	7.5	10.0
Merged-chr12-38778701-4	chr12	38778627	38778827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1355.0	NM_001347379	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	112.0	185.5	90.5	1431.0	264.5	102.5	134.0	78.0
Merged-chr9-8017436-3	chr9	8017332	8017532	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12836.0	NM_001171147	22601.0	Mm.221992	NM_009534	ENSMUSG00000053110	Yap1	AI325207|Yap|Yap65|Yki|Yorkie	yes-associated protein 1	protein-coding	11.5	38.5	13.5	362.5	31.0	8.0	9.0	10.5
Merged-chr1-45925565-4	chr1	45925471	45925671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016917)	promoter-TSS (NM_016917)	23.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	81.5	55.5	47.0	1348.5	107.5	45.5	72.0	100.5
Merged-chr18-60733169-3	chr18	60733081	60733281	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348102)	promoter-TSS (NM_001348102)	-40.0	NM_001348102	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	16.5	24.5	31.0	252.0	32.5	11.5	22.5	12.5
Merged-chr2-23040355-4	chr2	23040241	23040441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331044)	promoter-TSS (NM_001331044)	-100.0	NM_145994	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	142.5	238.0	150.5	1666.5	419.0	180.5	153.0	158.0
Merged-chr13-51848080-4	chr13	51847980	51848180	+	972.970215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011817, exon 4 of 4)	3' UTR (NM_011817, exon 4 of 4)	1405.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	8.5	20.5	9.0	254.5	53.0	34.5	28.5	19.0
Merged-chr15-36167893-4	chr15	36167813	36168013	+	820.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3029.0	NM_001081253	78803.0	Mm.26393	NM_175281	ENSMUSG00000048230	Fbxo43	4930533G20Rik|Emi2	F-box protein 43	protein-coding	9.0	12.0	9.5	136.0	19.5	10.0	7.5	7.0
Merged-chr15-59501672-4	chr15	59501557	59501757	+	980.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	127459.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	8.0	22.0	20.0	238.0	50.5	20.5	23.5	23.5
Merged-chr5-140411591-3	chr5	140411493	140411693	+	807.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7712.0	NM_133916	27979.0	Mm.21671	NM_133916	ENSMUSG00000056076	Eif3b	AL033316|AL033334|AL033369|AW208965|D5Wsu45e|EIF3-ETA|EIF3-P110|EIF3-P116|Eif3s9|PRT1	eukaryotic translation initiation factor 3, subunit B	protein-coding	9.0	10.5	9.5	124.5	16.0	1.0	4.5	6.5
Merged-chr2-94465925-2	chr2	94465825	94466025	+	681.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27739.0	NM_001349003	11800.0	Mm.181824	NM_007466	ENSMUSG00000027193	Api5	AAC-11|AI196452|API-5	apoptosis inhibitor 5	protein-coding	5.5	5.5	5.0	29.0	7.5	3.5	10.5	3.5
Merged-chr4-43025602-4	chr4	43025510	43025710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020035, exon 1 of 10)	5' UTR (NM_020035, exon 1 of 10)	164.0	NM_020035	56703.0	Mm.143738	NM_020035	ENSMUSG00000028454	Pigo	PIG-O	phosphatidylinositol glycan anchor biosynthesis, class O	protein-coding	34.5	80.0	53.0	573.5	105.5	39.5	47.5	42.5
Merged-chr11-34778438-4	chr11	34778336	34778536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	5469.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	25.0	45.5	41.0	516.0	81.0	39.5	34.5	38.5
Merged-chr1-181234506-4	chr1	181234388	181234588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22510.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	28.0	30.5	28.5	320.0	45.0	21.0	23.0	15.5
Merged-chr19-17345065-4	chr19	17344939	17345139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	-5534.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	52.0	64.0	50.5	846.0	171.5	48.5	63.0	54.0
Merged-chr11-49204133-4	chr11	49204036	49204236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024846, intron 1 of 4)	intron (NM_001024846, intron 1 of 4)	636.0	NM_009562	22720.0	Mm.16650	NM_009562	ENSMUSG00000046311	Zfp62	-	zinc finger protein 62	protein-coding	31.5	56.5	27.0	368.0	89.5	30.0	29.5	42.5
Merged-chr12-100087516-4	chr12	100087426	100087626	+	981.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24805.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	14.5	14.5	30.0	600.5	40.5	11.0	19.5	15.5
Merged-chr12-3436676-2	chr12	3436576	3436776	+	895.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001270988, intron 1 of 11)	L1VL4|LINE|L1	9819.0	NM_172421	75302.0	Mm.120475	NM_172421	ENSMUSG00000037486	Asxl2	4930556B16Rik|mKIAA1685	additional sex combs like 2, transcriptional regulator	protein-coding	5.5	9.0	7.5	69.0	30.0	7.0	5.0	8.0
Merged-chr7-25827394-4	chr7	25827292	25827492	+	883.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10862.0	NM_028775	74134.0	Mm.275188	NM_028775	ENSMUSG00000040703	Cyp2s1	1200011C15Rik|AU041727|C79779	cytochrome P450, family 2, subfamily s, polypeptide 1	protein-coding	20.0	15.0	12.0	203.0	22.5	12.5	10.5	17.5
Merged-chr8-91357711-4	chr8	91357644	91357844	+	745.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 1 of 8)	intron (NM_011936, intron 1 of 8)	44219.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	11.0	4.5	2.0	101.5	26.5	8.0	8.5	9.0
Merged-chr7-143045513-3	chr7	143045418	143045618	+	857.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 1 of 4)	intron (NR_110355, intron 1 of 4)	-7232.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	13.0	14.5	5.5	206.0	20.0	7.0	13.0	6.5
Merged-chr3-52267833-2	chr3	52267733	52267933	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019739)	promoter-TSS (NM_019739)	-504.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	10.5	15.5	27.5	153.5	24.5	12.0	10.0	12.0
Merged-chr15-58882496-4	chr15	58882406	58882606	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	-6723.0	NM_175226	75841.0	Mm.4537	NM_175226	ENSMUSG00000037075	Rnf139	4930555P18Rik	ring finger protein 139	protein-coding	17.5	21.0	13.0	93.5	25.0	14.5	22.5	9.0
Merged-chr13-61241755-4	chr13	61241649	61241849	+	823.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13599.0	NM_019541	56094.0	Mm.342861	NM_019541	ENSMUSG00000057446	Cts8	CTS2|Epcs68|Epcs70	cathepsin 8	protein-coding	10.0	16.0	7.0	113.0	25.0	9.0	8.0	14.0
Merged-chr9-114787327-4	chr9	114787179	114787379	+	819.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5286.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	8.5	16.0	2.5	70.5	16.0	11.5	10.5	7.5
Merged-chr4-58911682-4	chr4	58911601	58911801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355697, intron 1 of 49)	CpG	229.0	NM_001355697	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	18.5	20.5	37.5	352.5	52.0	16.0	25.5	33.0
Merged-chr9-21288627-2	chr9	21288527	21288727	+	888.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145416)	promoter-TSS (NM_145416)	-658.0	NM_145416	215194.0	Mm.290690	NM_145416	ENSMUSG00000035047	Kri1	-	KRI1 homolog	protein-coding	7.0	7.0	5.5	31.0	17.0	3.5	13.0	5.5
Merged-chr9-75273744-4	chr9	75273639	75273839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081322, intron 19 of 40)	intron (NM_001081322, intron 19 of 40)	-32549.0	NM_010313	14697.0	Mm.17604	NM_010313	ENSMUSG00000032192	Gnb5	GBS|Gbeta5|flr	guanine nucleotide binding protein (G protein), beta 5	protein-coding	27.5	26.0	38.0	923.0	97.0	16.5	40.5	42.0
Merged-chr3-36495643-4	chr3	36495552	36495752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11157.0	NR_040590	329623.0	Mm.490730	NR_040590	ENSMUSG00000085320	Gm11548	E330009D11	predicted gene 11548	ncRNA	61.5	100.0	53.0	1030.5	138.5	72.0	92.5	58.0
Merged-chr15-78863317-3	chr15	78863201	78863401	+	949.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-7772.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	12.5	14.0	11.5	146.5	13.5	9.5	1.0	14.0
Merged-chr3-108284073-4	chr3	108283922	108284122	+	783.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271599)	promoter-TSS (NM_001271599)	-42.0	NM_001271599	20661.0	Mm.157119	NM_019972	ENSMUSG00000068747	Sort1	2900053A11Rik|AI852375|Ntr3|Ntsr3	sortilin 1	protein-coding	13.5	9.5	13.0	165.5	15.0	4.5	14.5	6.0
Merged-chr6-17286525-3	chr6	17286454	17286654	+	776.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016900, intron 2 of 2)	intron (NM_016900, intron 2 of 2)	5369.0	NM_016900	12390.0	Mm.396075	NM_016900	ENSMUSG00000000058	Cav2	AI447843	caveolin 2	protein-coding	7.0	6.0	5.0	78.0	12.5	7.0	3.5	2.5
Merged-chr1-152685757-2	chr1	152685657	152685857	+	930.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-60540.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	10.5	9.5	8.5	51.0	11.0	7.5	4.0	8.5
Merged-chr6-83779231-2	chr6	83779131	83779331	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3419.0	NM_009357	21766.0	Mm.28371	NM_009357	ENSMUSG00000014748	Tex261	3110001O07Rik|AA409339|AI480706|AL033351|TEG-261	testis expressed gene 261	protein-coding	1.5	3.0	2.5	52.5	9.5	10.0	6.5	7.0
Merged-chr17-7399162-3	chr17	7399067	7399267	+	989.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS_Mus|LTR|ERV1	-13862.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	0.0	3.0	5.5	11.5	66.5	36.5	19.5	19.5
Merged-chr8-75081862-7	chr8	75081753	75081953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-11765.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	24.0	28.0	14.5	360.0	52.0	27.0	18.5	24.5
Merged-chr1-24005610-4	chr1	24005500	24005700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026503)	promoter-TSS (NM_026503)	40.0	NM_026503	68002.0	Mm.250424	NM_026503	ENSMUSG00000026154	Sdhaf4	1110058L19Rik|1700001E18Rik|C6orf57	succinate dehydrogenase complex assembly factor 4	protein-coding	93.0	103.0	106.5	1245.0	100.0	47.5	63.0	61.5
Merged-chr4-155200986-4	chr4	155200904	155201104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	21531.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	128.5	216.0	95.0	1567.5	285.5	105.0	146.0	133.5
Merged-chr3-9515765-2	chr3	9515665	9515865	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 2 of 8)	intron (NM_133218, intron 2 of 8)	94320.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	11.0	7.0	10.0	54.0	9.5	0.0	0.5	6.0
Merged-chr19-24961751-4	chr19	24961643	24961843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033744)	promoter-TSS (NR_033744)	-127.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	270.5	411.5	239.0	2694.5	872.0	331.0	366.5	274.5
Merged-chr2-32083769-4	chr2	32083665	32083865	+	966.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175511)	promoter-TSS (NM_175511)	-60.0	NM_175511	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	9.0	17.5	20.0	320.5	59.5	24.0	19.0	30.0
Merged-chr1-138152959-2	chr1	138152859	138153059	+	849.400024	f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	22167.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	7.5	15.5	7.5	139.0	15.5	4.5	3.5	2.5
Merged-chr18-24152118-3	chr18	24152017	24152217	+	939.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30298.0	NM_172625	225280.0	Mm.258973	NM_172625	ENSMUSG00000047989	Ino80c	D030070L09Rik	INO80 complex subunit C	protein-coding	6.5	14.0	5.5	245.0	11.5	0.5	10.0	6.0
Merged-chr14-103099091-6	chr14	103099058	103099258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347601)	promoter-TSS (NM_001347601)	-154.0	NM_001347601	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	47.0	59.5	40.5	508.5	115.5	46.0	44.0	36.0
Merged-chr11-76622819-4	chr11	76622718	76622918	+	817.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-45079.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	10.0	11.0	8.0	58.0	19.5	6.5	8.5	10.5
Merged-chr6-99263684-2	chr6	99263584	99263784	+	845.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_053202, intron 2 of 18)	intron (NM_053202, intron 2 of 18)	2831.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	4.0	6.0	6.5	100.5	19.0	7.0	9.0	7.5
Merged-chr19-6895765-4	chr19	6895661	6895861	+	923.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44-int|LTR|ERVK	-13937.0	NM_001166370	67674.0	Mm.318804	NM_026306	ENSMUSG00000038812	Trmt112	0610038D11Rik|Trm112p	tRNA methyltransferase 11-2	protein-coding	24.5	33.0	12.5	115.5	56.5	16.5	24.5	18.5
Merged-chr11-23256434-4	chr11	23256345	23256545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134014, exon 2 of 26)	5' UTR (NM_134014, exon 2 of 26)	404.0	NM_134014	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	28.0	40.0	16.5	358.0	139.5	40.5	54.0	51.5
Merged-chr6-51546294-4	chr6	51546217	51546417	+	703.854187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	intron (NM_001361577, intron 1 of 6)	1024.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	10.5	8.0	9.0	98.0	21.0	4.5	14.5	7.5
Merged-chr2-72474301-3	chr2	72474238	72474438	+	837.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1881.0	NM_025866	66953.0	Mm.270676	NM_025866	ENSMUSG00000055612	Cdca7	2310021G01Rik|AU044109|JPO1	cell division cycle associated 7	protein-coding	7.0	7.0	4.5	76.0	24.5	4.0	4.0	5.0
Merged-chr16-10970800-4	chr16	10970706	10970906	+	835.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	22315.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	13.0	25.0	0.0	61.0	18.5	8.0	5.0	7.0
Merged-chr2-91965634-4	chr2	91965544	91965744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2081.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	61.5	91.0	84.5	1385.0	212.5	59.5	74.5	70.0
Merged-chr3-32736874-4	chr3	32736807	32737007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029017)	promoter-TSS (NM_029017)	-152.0	NM_029017	74600.0	Mm.288960	NM_029017	ENSMUSG00000037531	Mrpl47	4833424P18Rik|CGI-204|Gm9859|L47mt|MRP-L47|MTF/L47|NCM1	mitochondrial ribosomal protein L47	protein-coding	267.5	404.5	292.5	3749.5	669.0	238.5	228.0	245.5
Merged-chr18-80691823-8	chr18	80691738	80691938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 2 of 9)	intron (NM_198429, intron 2 of 9)	16335.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	18.5	32.5	42.0	453.5	65.0	23.5	23.0	21.0
Merged-chr5-36554035-4	chr5	36553939	36554139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	B3A|SINE|B2	-23416.0	NM_001113364	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	29.5	37.5	20.0	425.5	47.0	23.0	33.0	19.5
Merged-chr7-64873010-4	chr7	64872896	64873096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023239)	promoter-TSS (NM_023239)	44.0	NM_023239	66647.0	Mm.19944	NM_023239	ENSMUSG00000070520	Nsmce3	5730494G16Rik|AI642138|BB044375|HCA4|Mageg1|Ndnl2|mage-g1	NSE3 homolog, SMC5-SMC6 complex component	protein-coding	133.5	183.0	161.0	1787.0	275.5	99.5	132.5	124.5
Merged-chr15-95900069-4	chr15	95899973	95900173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 3 of 19)	intron (NM_175344, intron 3 of 19)	-70001.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	53.0	64.5	45.5	811.0	141.0	34.5	55.5	46.5
Merged-chr13-89889235-4	chr13	89889097	89889297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 7 of 7)	intron (NM_028012, intron 7 of 7)	-146685.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	234.0	315.0	311.0	4623.5	537.5	186.0	238.0	179.5
Merged-chr18-83830127-4	chr18	83830021	83830221	+	996.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	256441.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	30.5	48.5	21.0	541.0	66.5	15.5	37.0	16.5
Merged-chr11-11557319-3	chr11	11557217	11557417	+	836.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68051.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	12.0	16.5	1.0	121.5	21.0	5.0	8.0	8.5
Merged-chr13-15848203-4	chr13	15848090	15848290	+	987.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155430, intron 3 of 3)	intron (NR_155430, intron 3 of 3)	40947.0	NR_046131	328190.0	Mm.446957	NR_046131	ENSMUSG00000113338	A530046M15Rik	A530046M15	RIKEN cDNA A530046M15 gene	ncRNA	14.5	35.5	26.5	205.0	81.5	27.0	34.5	15.0
Merged-chr9-54734558-4	chr9	54734451	54734651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023191)	promoter-TSS (NM_023191)	-2.0	NM_001025375	66317.0	Mm.28437	NM_023191	ENSMUSG00000061559	Wdr61	2700038L12Rik|2810418I05Rik|REC14	WD repeat domain 61	protein-coding	145.0	216.5	145.0	1970.0	438.5	142.0	185.0	179.5
Merged-chr10-23840779-3	chr10	23840680	23840880	+	891.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10682.0	NM_011979	26464.0	Mm.27334	NM_011979	ENSMUSG00000020010	Vnn3	-	vanin 3	protein-coding	4.5	3.5	5.5	261.0	29.0	6.5	11.0	11.5
Merged-chr17-31855617-3	chr17	31855516	31855716	+	978.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010831, intron 1 of 13)	CpG-6228	188.0	NM_010831	17691.0	Mm.290941	NM_010831	ENSMUSG00000024042	Sik1	Hrt-20|Msk|Sik|Sik-1|Snf1lk	salt inducible kinase 1	protein-coding	18.5	15.5	23.0	163.0	25.5	16.0	8.0	12.5
Merged-chr2-83625411-4	chr2	83625312	83625512	+	691.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19166.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	5.0	13.5	6.0	133.0	20.0	8.5	15.0	4.5
Merged-chr15-51803458-4	chr15	51803386	51803586	+	882.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080635, intron 2 of 7)	intron (NM_080635, intron 2 of 7)	61975.0	NM_080635	68135.0	Mm.289800	NM_080635	ENSMUSG00000022312	Eif3h	1110008A16Rik|40kD|9430017H16Rik|EIF3-P40|EIF3-gamma|Eif3s3	eukaryotic translation initiation factor 3, subunit H	protein-coding	6.5	15.5	14.5	142.5	29.0	7.5	18.0	9.0
Merged-chr5-20945536-4	chr5	20945441	20945641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	MLT1B|LTR|ERVL-MaLR	-5448.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	54.5	115.5	69.0	1038.0	150.0	69.0	77.0	82.5
Merged-chr15-96285563-4	chr15	96285471	96285671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1951.0	NM_175251	77044.0	Mm.17166	NM_175251	ENSMUSG00000033237	Arid2	1700124K17Rik|4432409D24Rik|BAF200|zipzap/p200	AT rich interactive domain 2 (ARID, RFX-like)	protein-coding	110.5	185.5	75.0	1333.0	307.0	115.5	158.5	140.5
Merged-chr16-38693543-3	chr16	38693437	38693637	+	661.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	MTD|LTR|ERVL-MaLR	19498.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	8.5	7.5	5.5	98.5	19.0	1.0	15.5	11.0
Merged-chr1-80772696-3	chr1	80772598	80772798	+	848.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-14145.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	7.0	6.0	6.5	79.5	4.5	1.5	1.5	4.0
Merged-chr18-65555124-3	chr18	65555021	65555221	+	818.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 1 of 6)	LTR16E1|LTR|ERVL	-25109.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	5.0	16.0	14.5	183.5	27.0	6.0	6.0	9.0
Merged-chr2-156190384-6	chr2	156190250	156190450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-6297.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	23.0	17.5	15.0	158.0	61.0	23.5	25.5	20.0
Merged-chr12-108761423-4	chr12	108761314	108761514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31897.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	111.0	159.5	136.0	2068.5	261.0	101.0	112.0	102.5
Merged-chr7-45813966-4	chr7	45813865	45814065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011181, intron 1 of 11)	CpG	351.0	NM_011181	19158.0	Mm.272130	NM_011181	ENSMUSG00000003269	Cyth2	ARNO|CLM2|Pscd2	cytohesin 2	protein-coding	18.5	25.0	23.5	251.5	42.0	22.0	20.0	19.0
Merged-chr10-95919032-3	chr10	95918893	95919093	+	764.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21670.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	10.0	6.5	6.5	229.0	12.5	0.5	3.5	7.0
Merged-chr4-133212596-4	chr4	133212480	133212680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008154)	promoter-TSS (NM_008154)	-44.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	75.5	99.5	32.0	554.0	182.5	78.0	56.0	64.0
Merged-chr16-20621523-4	chr16	20621415	20621615	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028420)	promoter-TSS (NM_028420)	-237.0	NM_028420	73047.0	Mm.425977	NM_028420	ENSMUSG00000051146	Camk2n2	2900075A18Rik	calcium/calmodulin-dependent protein kinase II inhibitor 2	protein-coding	11.0	19.5	15.5	236.0	43.0	5.0	13.5	16.0
Merged-chr4-35373082-1	chr4	35372982	35373182	+	546.0	f1_c57bl6.idr	Intergenic	Intergenic	-147202.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	9.0	7.0	2.0	97.5	20.5	9.5	8.0	9.0
Merged-chr4-115903051-3	chr4	115902954	115903154	+	715.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12388.0	NM_001357060	76237.0	Mm.101606	NM_001357060	ENSMUSG00000034185	6430628N08Rik	-	RIKEN cDNA 6430628N08 gene	protein-coding	4.0	10.0	1.5	107.0	24.0	9.5	11.5	6.5
Merged-chr17-84273065-4	chr17	84272971	84273171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 29 of 37)	intron (NM_183021, intron 29 of 37)	-85124.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	116.5	130.5	104.0	1341.5	156.5	82.0	67.0	57.5
Merged-chr10-8875413-4	chr10	8875302	8875502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	10668.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	199.0	293.0	214.0	2811.0	293.0	107.5	109.5	78.5
Merged-chr19-40630831-4	chr19	40630725	40630925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304721, intron 1 of 9)	L1MDa|LINE|L1	18459.0	NM_001304721	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	126.5	127.5	108.5	1471.0	176.0	70.5	85.5	70.5
Merged-chr11-60104934-4	chr11	60104833	60105033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009021)	promoter-TSS (NM_009021)	-80.0	NM_009021	19377.0	Mm.296366	NM_009021	ENSMUSG00000062115	Rai1	Gt1	retinoic acid induced 1	protein-coding	19.0	33.5	13.5	317.5	68.0	28.0	29.5	38.5
Merged-chr1-34484634-4	chr1	34484533	34484733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13779.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	28.0	28.0	22.5	361.0	84.0	32.5	24.0	36.0
Merged-chr1-36914689-4	chr1	36914573	36914773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	intron (NM_018872, intron 1 of 40)	24854.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	33.0	61.5	26.5	504.5	78.0	27.0	28.0	32.5
Merged-chr16-16438660-3	chr16	16438579	16438779	+	712.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 11 of 16)	MRLTR33|LTR|ERVK	-79648.0	NM_001360009	74006.0	Mm.218820	NM_152816	ENSMUSG00000022789	Dnm1l	6330417M19Rik|AI450666|Dlp1|Dnmlp1|Drp1|python	dynamin 1-like	protein-coding	15.5	10.5	9.0	86.5	9.0	1.5	7.5	6.5
Merged-chr3-79161593-3	chr3	79161518	79161718	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15743.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	27.0	55.0	18.0	316.5	60.5	30.5	31.0	9.5
Merged-chr1-133660852-2	chr1	133660738	133660938	+	687.583374	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001166552)	promoter-TSS (NM_001166552)	47.0	NM_001166552	667118.0	Mm.245357	NM_001166552	ENSMUSG00000102049	Zbed6	Gm8466|MGR	zinc finger, BED type containing 6	protein-coding	14.0	15.5	9.5	116.0	21.5	10.5	11.5	19.5
Merged-chr8-95434957-4	chr8	95434845	95435045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008187)	promoter-TSS (NM_008187)	-76.0	NM_008187	14894.0	Mm.2080	NM_008187	ENSMUSG00000031796	Cfap20	2600014O15Rik|AL024127|Gtl3|T10-2A2	cilia and flagella associated protein 20	protein-coding	280.5	459.0	231.0	3500.5	722.0	329.5	342.5	251.5
Merged-chr12-118758209-4	chr12	118758079	118758279	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88150.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	27.0	36.0	30.0	567.5	79.0	21.5	41.0	15.5
Merged-chr6-122557187-4	chr6	122557100	122557300	+	951.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009645, intron 1 of 4)	intron (NM_009645, intron 1 of 4)	3391.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	26.5	29.5	13.0	219.0	33.5	27.5	14.0	29.0
Merged-chr3-30917338-3	chr3	30917247	30917447	+	887.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165954, intron 11 of 14)	intron (NM_001165954, intron 11 of 14)	52068.0	NM_001165954	241915.0	Mm.233173	NM_153421	ENSMUSG00000037652	Phc3	E030046K01Rik|Edr3|Hph3	polyhomeotic 3	protein-coding	5.0	11.5	8.5	193.0	15.5	2.0	17.5	9.0
Merged-chr3-59220666-3	chr3	59220592	59220792	+	680.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357010, intron 1 of 3)	intron (NM_001357010, intron 1 of 3)	-9810.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	5.0	7.0	6.0	97.0	22.0	2.5	4.5	6.5
Merged-chr13-41520988-4	chr13	41520895	41521095	+	884.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33635.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	6.5	27.5	15.5	357.5	23.0	9.0	12.0	14.5
Merged-chr4-155848079-2	chr4	155847979	155848179	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356381, intron 1 of 15)	intron (NM_001356381, intron 1 of 15)	677.0	NM_001356381	13542.0	Mm.3400	NM_010091	ENSMUSG00000029071	Dvl1	Dvl|mKIAA4029	dishevelled segment polarity protein 1	protein-coding	5.0	2.0	13.0	86.0	22.0	5.5	9.5	20.5
Merged-chr2-71813009-3	chr2	71812912	71813112	+	654.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008397, intron 1 of 25)	intron (NM_008397, intron 1 of 25)	26073.0	NM_001277970	16403.0	Mm.225096	NM_008397	ENSMUSG00000027111	Itga6	5033401O05Rik|AI115430|Cd49f|VLA-6	integrin alpha 6	protein-coding	8.5	6.5	14.5	100.5	23.0	6.0	5.5	3.0
Merged-chr3-148221051-4	chr3	148220932	148221132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	733603.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	228.5	332.5	231.0	3855.0	354.0	154.0	179.0	175.5
Merged-chr3-69004546-4	chr3	69004445	69004645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133786)	promoter-TSS (NM_133786)	25.0	NM_026641	68259.0	Mm.389451	NM_026641	ENSMUSG00000027778	Ift80	4921524P20Rik|Wdr56|mKIAA1374	intraflagellar transport 80	protein-coding	110.5	182.0	84.0	1546.0	336.5	113.0	138.5	96.5
Merged-chr5-110809390-3	chr5	110809287	110809487	+	949.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347394, intron 1 of 27)	intron (NM_001347394, intron 1 of 27)	694.0	NM_009469	22241.0	Mm.271898	NM_009469	ENSMUSG00000029512	Ulk1	AU041434|Unc51.1|mKIAA0722	unc-51 like kinase 1	protein-coding	5.5	13.0	5.0	81.5	31.0	4.5	12.5	8.0
Merged-chr17-13898037-4	chr17	13897950	13898150	+	960.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 31 of 33)	intron (NR_151731, intron 31 of 33)	-50323.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	18.0	15.0	23.5	402.5	12.0	7.5	15.0	21.0
Merged-chr6-137697028-4	chr6	137696936	137697136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38046.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	62.0	56.5	58.0	806.0	113.5	35.0	59.0	42.0
Merged-chr12-69454661-4	chr12	69454569	69454769	+	882.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20881.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	23.5	30.0	25.5	439.0	22.0	8.5	6.5	12.0
Merged-chr1-144775480-1	chr1	144775380	144775580	+	720.333313	f0_balb.idr	promoter-TSS (NM_022881)	promoter-TSS (NM_022881)	-53.0	NM_022881	64214.0	Mm.253927	NM_022881	ENSMUSG00000026357	Rgs18	-	regulator of G-protein signaling 18	protein-coding	7.0	10.5	13.0	114.0	4.0	2.0	6.0	5.0
Merged-chr4-151044800-4	chr4	151044695	151044895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289878)	promoter-TSS (NM_001289878)	-130.0	NM_001289878	18628.0	Mm.121361	NM_011067	ENSMUSG00000028957	Per3	2810049O06Rik|mPer3	period circadian clock 3	protein-coding	248.0	392.0	242.0	3227.0	559.0	216.5	273.5	201.0
Merged-chr12-82246613-4	chr12	82246490	82246690	+	957.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	L1M4c|LINE|L1	-64759.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	13.5	24.0	21.5	297.5	33.5	13.0	16.0	23.5
Merged-chr11-116648698-3	chr11	116648573	116648773	+	806.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030206, intron 3 of 3)	intron (NM_030206, intron 3 of 3)	5640.0	NM_030206	114886.0	Mm.34598	NM_030206	ENSMUSG00000020810	Cygb	3110001K20Rik|HGb|Staap	cytoglobin	protein-coding	9.5	15.0	8.5	116.0	7.5	3.5	0.0	4.0
Merged-chr7-19257573-4	chr7	19257495	19257695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_104069, exon 11 of 11)	non-coding (NR_104069, exon 11 of 11)	14259.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	33.5	65.5	43.5	398.0	128.5	37.0	45.5	42.5
Merged-chr4-133872669-4	chr4	133872576	133872776	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009097, intron 2 of 21)	intron (NM_009097, intron 2 of 21)	2055.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	22.5	38.5	38.0	320.0	60.5	15.0	24.0	14.5
Merged-chr3-65319477-1	chr3	65319377	65319577	+	910.0	f0_c57.idr	exon (NM_001289450, exon 9 of 15)	exon (NM_001289450, exon 9 of 15)	-16792.0	NR_126080	102637797.0	Mm.446731	NR_126080	ENSMUSG00000104093	A330015K06Rik	-	RIKEN cDNA A330015K06 gene	ncRNA	10.5	21.0	7.0	115.5	35.5	14.5	25.0	12.0
Merged-chr16-94240349-4	chr16	94240241	94240441	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	L1MB4|LINE|L1	49950.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	17.0	18.5	14.0	386.5	34.0	21.0	28.5	23.0
Merged-chr7-141435296-4	chr7	141435199	141435399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177576)	promoter-TSS (NM_001177576)	76.0	NM_001360723	68267.0	Mm.33729	NM_026646	ENSMUSG00000019082	Slc25a22	1300006L01Rik|AI060884|Gc1	solute carrier family 25 (mitochondrial carrier, glutamate), member 22	protein-coding	71.5	74.5	67.0	829.0	133.5	59.5	53.5	47.5
Merged-chr1-37496199-4	chr1	37496098	37496298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290801, intron 2 of 14)	intron (NM_001290801, intron 2 of 14)	-7593.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	57.0	42.5	28.0	486.5	111.0	42.5	31.5	36.5
Merged-chr15-102625353-6	chr15	102625226	102625426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310070, exon 1 of 12)	5' UTR (NM_001310070, exon 1 of 12)	138.0	NM_001310070	223922.0	Mm.208714	NM_146065	ENSMUSG00000099083	Atf7	1110012F10Rik|9430065F09Rik|AI549878|C130020M04Rik	activating transcription factor 7	protein-coding	106.5	161.5	155.5	1339.5	169.0	105.0	85.5	133.0
Merged-chr11-118173204-4	chr11	118173101	118173301	+	945.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112700, intron 10 of 12)	intron (NM_001112700, intron 10 of 12)	39541.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	31.0	31.5	22.5	230.0	53.0	11.5	17.0	15.0
Merged-chr4-154907972-4	chr4	154907884	154908084	+	846.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8941.0	NM_025582	66469.0	Mm.41868	NM_025582	ENSMUSG00000029059	Fam213b	2810405K02Rik|AI836168|PM/PGFS	family with sequence similarity 213, member B	protein-coding	9.0	14.0	7.5	108.5	26.0	8.5	11.0	4.5
Merged-chr2-27381449-1	chr2	27381349	27381549	+	674.0	f0_balb.idr	intron (NR_133905, intron 1 of 29)	intron (NR_133905, intron 1 of 29)	46159.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	5.0	9.5	7.5	117.0	9.0	9.0	3.5	4.0
Merged-chr10-121365463-3	chr10	121365344	121365544	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	CpG	354.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	32.0	61.5	34.0	401.0	112.0	35.5	47.0	42.0
Merged-chr1-127868802-4	chr1	127868707	127868907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178690)	promoter-TSS (NM_178690)	34.0	NM_178690	226407.0	Mm.489713	NM_178690	ENSMUSG00000036104	Rab3gap1	1700003B17Rik|4732493F09Rik|AL117896|Rab3gap|p130	RAB3 GTPase activating protein subunit 1	protein-coding	65.0	90.5	68.0	883.5	142.5	63.0	65.5	54.0
Merged-chr5-149247749-4	chr5	149247645	149247845	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17259.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	31.5	20.0	39.0	540.5	54.0	12.5	36.5	32.0
Merged-chr2-102898862-4	chr2	102898789	102898989	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	2776.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	31.5	25.5	24.0	336.5	17.5	10.5	14.5	16.5
Merged-chr10-60285122-3	chr10	60285027	60285227	+	915.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146124, intron 1 of 13)	intron (NM_001146124, intron 1 of 13)	666.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	8.0	7.0	7.0	186.0	38.0	4.5	9.5	11.5
Merged-chr9-70207271-4	chr9	70207158	70207358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181072)	promoter-TSS (NM_181072)	-92.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	132.0	160.5	124.0	1924.5	199.0	72.5	119.5	128.5
Merged-chr14-70959009-4	chr14	70958910	70959110	+	916.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	L1_Rod|LINE|L1	68903.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	8.5	9.5	9.5	260.5	29.0	5.5	16.0	9.0
Merged-chr9-46110810-4	chr9	46110697	46110897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 1 of 24)	intron (NM_027498, intron 1 of 24)	97977.0	NM_027498	70661.0	Mm.219459	NM_027498	ENSMUSG00000034135	Sik3	5730525O22Rik|9030204A07Rik|AI447252|AI846254|AI849445|Qsk|SIK-3|mKIAA0999	SIK family kinase 3	protein-coding	25.0	93.5	27.5	240.5	113.0	50.0	39.0	20.5
Merged-chr7-92985083-7	chr7	92984967	92985167	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94812.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	7.5	11.5	18.5	263.5	27.5	10.0	13.0	10.0
Merged-chr17-85189797-4	chr17	85189696	85189896	+	964.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028576, intron 3 of 10)	intron (NM_028576, intron 3 of 10)	99096.0	NM_028576	73582.0	Mm.260753	NM_028576	ENSMUSG00000071037	Camkmt	1700106N22Rik|AI480743|AV099781|CLNMT|CaM KMT	calmodulin-lysine N-methyltransferase	protein-coding	14.0	26.0	10.5	192.0	60.0	9.5	16.0	18.5
Merged-chr4-34687329-4	chr4	34687233	34687433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011895, exon 1 of 8)	5' UTR (NM_011895, exon 1 of 8)	105.0	NM_011895	24060.0	Mm.281885	NM_011895	ENSMUSG00000028293	Slc35a1	AA408150|AI314851	solute carrier family 35 (CMP-sialic acid transporter), member 1	protein-coding	111.0	182.0	157.0	2099.5	263.0	112.5	144.5	115.5
Merged-chr13-49058699-4	chr13	49058599	49058799	+	684.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290313, intron 21 of 29)	intron (NM_001290313, intron 21 of 29)	89629.0	NM_029361	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	9.5	9.0	9.5	73.0	22.5	4.0	7.0	9.5
Merged-chr4-9144286-3	chr4	9144224	9144424	+	744.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124969.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	4.5	6.5	4.5	151.5	11.0	6.0	15.5	6.5
Merged-chr12-52328220-4	chr12	52328139	52328339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152370.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	36.5	46.0	37.0	524.5	87.5	30.0	29.0	28.0
Merged-chr8-40926655-2	chr8	40926548	40926748	+	718.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_026840, intron 1 of 5)	intron (NM_026840, intron 1 of 5)	415.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	3.0	9.0	8.5	58.0	11.5	7.5	10.0	6.0
Merged-chr19-3414482-4	chr19	3414375	3414575	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329667)	promoter-TSS (NM_001329667)	69.0	NM_001329667	14419.0	Mm.4655	NM_010253	ENSMUSG00000024907	Gal	Galn	galanin	protein-coding	13.0	33.5	26.0	259.5	44.5	14.5	27.5	17.5
Merged-chr3-133758027-3	chr3	133757930	133758130	+	949.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-213640.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	12.0	17.0	12.0	164.5	24.5	1.5	9.0	12.0
Merged-chr11-46488383-3	chr11	46488280	46488480	+	866.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33449.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	5.5	14.0	11.0	102.0	11.0	7.0	9.0	10.5
Merged-chr17-28419809-3	chr17	28419685	28419885	+	787.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 5 of 10)	intron (NM_010220, intron 5 of 10)	-54569.0	NM_021478	22157.0	Mm.42102	NM_021478	ENSMUSG00000037446	Tulp1	Tulp1l	tubby like protein 1	protein-coding	10.0	3.5	9.0	70.0	5.5	8.0	8.0	8.0
Merged-chr12-69357135-4	chr12	69357037	69357237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025441)	promoter-TSS (NM_025441)	39.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	24.0	26.0	25.0	371.5	81.5	30.5	25.5	27.0
Merged-chr4-109657445-6	chr4	109657369	109657569	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	7903.0	NM_007671	12580.0	Mm.1912	NM_007671	ENSMUSG00000028551	Cdkn2c	C77269|INK4c|p18|p18-INK4c|p18-INK6|p18INK4c	cyclin dependent kinase inhibitor 2C	protein-coding	3.5	14.0	14.5	164.5	43.5	15.0	11.0	12.5
Merged-chr10-13832818-4	chr10	13832699	13832899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 1 of 5)	intron (NM_025446, intron 1 of 5)	36158.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	97.5	154.0	140.0	1559.5	399.5	135.5	138.5	111.0
Merged-chr11-52283399-3	chr11	52283294	52283494	+	724.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313981)	promoter-TSS (NM_001313981)	-380.0	NM_001313981	21414.0	Mm.31630	NM_009331	ENSMUSG00000000782	Tcf7	AI465550|TCF-1|Tcf1	transcription factor 7, T cell specific	protein-coding	10.0	7.0	3.5	80.5	27.5	8.5	8.5	10.5
Merged-chr10-118041256-1	chr10	118041156	118041356	+	792.5	f0_balb.idr	Intergenic	RMER15-int|LTR|ERVL	-100531.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	9.5	6.5	6.0	158.0	1.0	0.5	1.5	0.0
Merged-chr7-101383932-4	chr7	101383827	101384027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	-1599.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	128.0	252.5	105.5	1837.5	293.0	113.0	142.0	159.5
Merged-chr19-41914227-3	chr19	41914127	41914327	+	902.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023418, intron 1 of 3)	intron (NM_023418, intron 1 of 3)	2356.0	NM_023418	18648.0	Mm.16783	NM_023418	ENSMUSG00000011752	Pgam1	2310050F24Rik|Pgam-1	phosphoglycerate mutase 1	protein-coding	11.5	17.5	14.5	82.5	10.5	8.5	6.0	8.0
Merged-chr7-44384123-4	chr7	44384017	44384217	+	834.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114116)	promoter-TSS (NM_001114116)	-9.0	NM_001114116	20981.0	Mm.4824	NM_016663	ENSMUSG00000030731	Syt3	AI385753|sytIII	synaptotagmin III	protein-coding	10.5	13.5	7.0	135.5	27.0	9.5	9.5	16.0
Merged-chr11-100738313-4	chr11	100738204	100738404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024456)	promoter-TSS (NM_024456)	-89.0	NM_001305003	19345.0	Mm.29829	NM_024456	ENSMUSG00000019173	Rab5c	AI326010|Rabl	RAB5C, member RAS oncogene family	protein-coding	228.5	399.5	211.5	2953.0	566.5	218.5	279.0	200.5
Merged-chr2-156415867-4	chr2	156415764	156415964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-5045.0	NM_001291122	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	46.5	71.5	38.0	603.5	134.0	49.0	68.5	37.5
Merged-chr11-89022519-4	chr11	89022410	89022610	+	836.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	23107.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	12.0	8.5	13.5	321.5	22.0	8.0	12.5	7.0
Merged-chr10-3973814-4	chr10	3973707	3973907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 1 of 27)	CpG	732.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	103.0	141.5	107.0	2031.0	183.0	60.5	91.0	62.5
Merged-chr3-146521201-8	chr3	146521127	146521327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027332, exon 1 of 5)	exon (NM_027332, exon 1 of 5)	196.0	NM_027332	70285.0	Mm.28128	NM_027332	ENSMUSG00000028187	Rpf1	2210420E24Rik|2310066N05Rik|Bxdc5	ribosome production factor 1 homolog	protein-coding	28.5	45.5	70.0	583.5	85.5	48.5	58.0	61.5
Merged-chr13-23885731-4	chr13	23885645	23885845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121611, intron 10 of 12)	intron (NR_121611, intron 10 of 12)	15472.0	NM_001170638	20504.0	Mm.2656	NM_009198	ENSMUSG00000021335	Slc17a1	NAPI-1|Napi1|Npt1	solute carrier family 17 (sodium phosphate), member 1	protein-coding	34.5	59.0	34.0	628.0	135.5	36.5	48.5	30.5
Merged-chr17-43327955-4	chr17	43327874	43328074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-32457.0	NM_001357332	224792.0	Mm.23478	NM_001081178	ENSMUSG00000056492	Adgrf5	8430401C09Rik|9330185D23|AI528491|Gpr116|mKIAA0758	adhesion G protein-coupled receptor F5	protein-coding	45.0	46.5	71.0	580.5	127.0	30.0	56.0	55.0
Merged-chr2-79618736-3	chr2	79618643	79618843	+	734.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16682.0	NM_080558	70599.0	Mm.272881	NM_080558	ENSMUSG00000027007	Ssfa2	5730488C15Rik|CS-1|CS1|KRAP|SPAG13|mKIAA1927	sperm specific antigen 2	protein-coding	7.5	7.0	6.0	85.5	10.5	3.5	7.0	9.0
Merged-chr11-63923669-4	chr11	63923570	63923770	+	966.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1386.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	12.0	12.5	3.5	198.5	30.5	17.0	18.5	13.5
Merged-chr5-80953114-3	chr5	80952994	80953194	+	772.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67477.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	4.5	0.0	8.5	81.0	13.5	6.5	9.0	9.5
Merged-chr1-171150577-4	chr1	171150457	171150657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008623)	promoter-TSS (NM_008623)	46.0	NM_025321	66052.0	Mm.198138	NM_025321	ENSMUSG00000058076	Sdhc	0610010E03Rik|AI316496|AU019277	succinate dehydrogenase complex, subunit C, integral membrane protein	protein-coding	69.5	126.0	104.0	783.0	185.0	54.0	73.0	73.0
Merged-chr1-59904191-3	chr1	59904088	59904288	+	986.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8818.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	7.0	7.0	13.0	229.5	13.5	4.5	9.5	4.5
Merged-chr17-29362125-4	chr17	29362027	29362227	+	962.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013710, intron 1 of 15)	intron (NM_013710, intron 1 of 15)	1213.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	17.5	18.0	16.0	253.0	60.0	16.5	14.5	31.0
Merged-chr4-82933829-3	chr4	82933713	82933913	+	909.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154662, intron 26 of 35)	intron (NR_154662, intron 26 of 35)	-48662.0	NM_009887	12622.0	Mm.6780	NM_009887	ENSMUSG00000038192	Cer1	Cerl|Cerl1|Cerr1|cer-1	cerberus 1, DAN family BMP antagonist	protein-coding	5.0	18.5	15.5	170.5	20.0	5.0	6.0	8.0
Merged-chr10-34206611-4	chr10	34206516	34206716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	935.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	63.5	121.5	67.0	1040.5	178.5	89.0	79.5	68.0
Merged-chr2-4460302-4	chr2	4460228	4460428	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	59352.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	12.5	25.5	26.0	326.0	149.5	24.5	82.5	79.0
Merged-chr1-43091881-4	chr1	43091774	43091974	+	805.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013025, intron 2 of 12)	intron (NM_001013025, intron 2 of 12)	612.0	NM_001357299	73122.0	Mm.246069	NM_001013025	ENSMUSG00000070939	Tgfbrap1	3110018K12Rik|AU024090|AU042859|AW742551|Trap1	transforming growth factor, beta receptor associated protein 1	protein-coding	9.0	12.5	19.5	102.0	18.5	9.5	11.0	15.0
Merged-chr1-61649223-4	chr1	61649125	61649325	+	944.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081050, intron 1 of 22)	intron (NM_001081050, intron 1 of 22)	10401.0	NM_001081050	72823.0	Mm.35153	NM_001081050	ENSMUSG00000052062	Pard3b	1810008K04Rik|2010002N16Rik|2810455B10Rik|Als2cr19|PAR3B|PAR3L|PAR3beta	par-3 family cell polarity regulator beta	protein-coding	41.0	76.5	59.5	740.0	37.0	3.5	16.0	17.0
Merged-chr9-21515526-4	chr9	21515417	21515617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5283.0	NR_136911	17083.0	Mm.196618	NM_010744	ENSMUSG00000032180	Tmed1	Il1rl1l|Ly84l|St2l	transmembrane p24 trafficking protein 1	protein-coding	59.5	100.5	37.0	581.0	143.0	44.5	41.5	36.0
Merged-chr18-34931476-1	chr18	34931376	34931576	+	1000.0	f0_balb.idr	intron (NM_144866, intron 2 of 10)	CpG	527.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	15.0	50.5	34.0	214.5	60.5	31.5	16.5	35.5
Merged-chr7-128611202-4	chr7	128611114	128611314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178641)	promoter-TSS (NM_178641)	-151.0	NM_178641	101490.0	Mm.490344	NM_178641	ENSMUSG00000042105	Inpp5f	5830435P03Rik|AI115354|AW561896|SAC2|cI-27|hSAC2|mKIAA0966	inositol polyphosphate-5-phosphatase F	protein-coding	269.5	450.0	229.5	3263.0	632.0	236.0	269.5	205.5
Merged-chr10-19062248-4	chr10	19062126	19062326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46816.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	311.0	650.5	330.0	4060.5	893.0	379.0	447.5	378.5
Merged-chr4-43982540-4	chr4	43982441	43982641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002787)	promoter-TSS (NM_001002787)	-963.0	NM_001002787	442829.0	Mm.348215	NM_001002787	ENSMUSG00000070999	Ccin	4933417A14Rik	calicin	protein-coding	84.5	95.0	48.0	660.0	190.0	57.5	89.5	57.5
Merged-chr15-81905204-4	chr15	81905112	81905312	+	963.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080633, intron 7 of 17)	Tigger20a|DNA|TcMar-Tigger	21001.0	NM_030229	78929.0	Mm.215115	NM_030229	ENSMUSG00000022476	Polr3h	5031409G22Rik|RPC8	polymerase (RNA) III (DNA directed) polypeptide H	protein-coding	15.0	37.5	19.0	208.5	90.5	25.0	39.0	21.5
Merged-chr4-98204316-2	chr4	98204216	98204416	+	924.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	178949.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	4.5	6.0	3.0	110.0	10.5	5.5	11.0	5.0
Merged-chr5-67836435-4	chr5	67836323	67836523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	11008.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	32.0	41.5	26.0	639.5	100.5	27.0	21.5	36.0
Merged-chr6-99252963-4	chr6	99252860	99253060	+	939.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	13555.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	11.0	11.5	14.0	198.5	30.5	9.5	17.0	20.0
Merged-chr12-3818153-4	chr12	3818047	3818247	+	931.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	10987.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	20.5	13.0	27.0	620.5	35.0	11.0	22.0	32.0
Merged-chr7-28386652-4	chr7	28386555	28386755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026042, exon 4 of 4)	3' UTR (NM_026042, exon 4 of 4)	6035.0	NM_026042	67224.0	Mm.41647	NM_026042	ENSMUSG00000003444	Med29	2810405O22Rik|AU020902|Ixl	mediator complex subunit 29	protein-coding	72.5	93.5	46.5	549.5	185.0	58.5	100.5	75.5
Merged-chr15-79354818-4	chr15	79354712	79354912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304832, intron 1 of 2)	intron (NM_001304832, intron 1 of 2)	6410.0	NM_001304832	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	67.0	129.0	81.0	981.5	307.0	83.0	75.0	69.0
Merged-chr5-134509178-4	chr5	134509078	134509278	+	878.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009990, intron 8 of 16)	MIR3|SINE|MIR	43256.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	12.5	14.5	13.5	304.0	25.5	9.5	13.0	9.0
Merged-chr16-91870393-4	chr16	91870282	91870482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001110275, exon 29 of 29)	3' UTR (NM_001110275, exon 29 of 29)	61248.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	100.0	210.0	90.5	1455.0	337.5	117.0	95.5	92.5
Merged-chr4-132947792-4	chr4	132947693	132947893	+	853.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25242.0	NM_001163792	230789.0	Mm.11473	NM_145553	ENSMUSG00000028878	Fam76a	-	family with sequence similarity 76, member A	protein-coding	19.5	27.0	14.5	102.0	53.5	9.0	9.0	7.0
Merged-chr10-67113112-4	chr10	67113018	67113218	+	740.141663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus1|LINE|L1	-14140.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	12.5	18.0	13.0	20.5	31.5	11.5	8.5	10.5
Merged-chr19-24281486-3	chr19	24281344	24281544	+	995.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008044)	promoter-TSS (NM_008044)	-858.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	21.0	14.5	16.5	120.0	11.0	4.5	10.0	3.5
Merged-chr9-96376062-4	chr9	96375948	96376148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11617.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	34.0	49.0	37.0	375.0	161.0	52.0	47.5	72.0
Merged-chr8-70645411-4	chr8	70645307	70645507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12951.0	NM_001330687	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	20.5	52.5	49.5	888.5	191.0	50.0	94.0	122.0
Merged-chr4-34642583-4	chr4	34642470	34642670	+	934.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151507, intron 8 of 19)	MTE2b|LTR|ERVL-MaLR	27613.0	NM_181406	109093.0	Mm.22363	NM_181406	ENSMUSG00000028292	Rars2	1500002I10Rik|PRO1992|Rarsl	arginyl-tRNA synthetase 2, mitochondrial	protein-coding	16.5	8.5	2.0	220.5	20.5	10.0	8.0	8.0
Merged-chr8-56550730-4	chr8	56550653	56550853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015791)	promoter-TSS (NM_015791)	-187.0	NM_001009951	382010.0	Mm.425534	NM_001009951	ENSMUSG00000038215	Cep44	4933440G23Rik|mKIAA1712	centrosomal protein 44	protein-coding	17.0	27.0	36.0	324.0	62.5	22.5	17.0	33.5
Merged-chr14-93654943-2	chr14	93654845	93655045	+	782.0	f0_balb.idr|f1_balb.idr	intron (NM_001081377, intron 2 of 4)	intron (NM_001081377, intron 2 of 4)	235724.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	20.5	24.0	14.5	463.5	11.5	4.0	5.5	3.0
Merged-chr2-154551908-2	chr2	154551808	154552008	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001171640, exon 1 of 1)	5' UTR (NM_001171640, exon 1 of 1)	132.0	NM_001171640	70362.0	Mm.479620	NM_001171640	ENSMUSG00000078129	Actl10	1700007I08Rik	actin-like 10	protein-coding	6.0	7.5	0.5	182.0	13.5	5.0	6.0	17.5
Merged-chr3-9598211-4	chr3	9598108	9598308	+	893.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 1 of 8)	intron (NM_133218, intron 1 of 8)	11877.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	12.5	17.5	5.0	198.0	38.5	12.0	34.0	14.5
Merged-chr8-84686217-4	chr8	84686133	84686333	+	869.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025788, intron 1 of 5)	intron (NM_025788, intron 1 of 5)	1629.0	NM_025788	66830.0	Mm.289698	NM_025788	ENSMUSG00000001910	Nacc1	2010001H03Rik|4930511N13Rik|Btbd14b|Nac1	nucleus accumbens associated 1, BEN and BTB (POZ) domain containing	protein-coding	12.0	16.0	12.5	175.5	19.0	5.0	10.0	11.5
Merged-chr1-45906816-4	chr1	45906701	45906901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18793.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	22.0	30.0	27.0	333.5	58.0	21.5	23.0	24.0
Merged-chr9-89204451-4	chr9	89204352	89204552	+	782.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007534, intron 1 of 1)	intron (NM_007534, intron 1 of 1)	5179.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	12.5	23.5	10.0	99.5	21.5	14.5	13.5	13.5
Merged-chr10-128489646-4	chr10	128489551	128489751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001114096, exon 29 of 29)	3' UTR (NM_001114096, exon 29 of 29)	3358.0	NM_001317220	17904.0	Mm.337074	NM_010860	ENSMUSG00000090841	Myl6	ESMLC|LC17|LC17-GI|MLC-3|MLC1SM|Myln	myosin, light polypeptide 6, alkali, smooth muscle and non-muscle	protein-coding	81.0	161.5	73.5	1040.5	258.0	89.5	104.0	79.0
Merged-chr2-90580580-4	chr2	90580502	90580702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008982)	promoter-TSS (NM_008982)	45.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	80.5	129.0	98.5	858.0	266.0	152.0	106.0	74.5
Merged-chr5-150593841-7	chr5	150593723	150593923	+	973.3214109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133898, intron 1 of 4)	CpG	702.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	20.0	14.0	20.5	162.0	51.5	24.5	15.5	35.0
Merged-chr10-88584637-4	chr10	88584517	88584717	+	957.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175418, intron 2 of 28)	intron (NM_175418, intron 2 of 28)	20535.0	NM_001252372	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	17.5	11.0	5.0	277.0	39.5	20.0	17.0	23.5
Merged-chr11-88205113-3	chr11	88204957	88205157	+	713.633362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291271, intron 1 of 4)	intron (NM_001291271, intron 1 of 4)	669.0	NM_001291271	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	6.0	9.0	9.0	105.0	10.0	4.5	7.0	10.5
Merged-chr6-134830857-2	chr6	134830775	134830975	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177687, intron 1 of 4)	intron (NM_177687, intron 1 of 4)	676.0	NM_177687	232430.0	Mm.267010	NM_177687	ENSMUSG00000032652	Crebl2	AI046348|B230205M03	cAMP responsive element binding protein-like 2	protein-coding	5.0	3.5	6.0	87.0	9.0	8.0	9.5	13.5
Merged-chr15-97373973-4	chr15	97373868	97374068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172293, exon 5 of 6)	5' UTR (NM_172293, exon 5 of 6)	-126681.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	32.0	64.5	45.0	774.0	113.5	38.5	41.5	33.0
Merged-chr7-142919426-4	chr7	142919334	142919534	+	949.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19468.0	NM_009377	21823.0	Mm.1292	NM_009377	ENSMUSG00000000214	Th	-	tyrosine hydroxylase	protein-coding	4.0	17.0	8.0	135.0	42.5	16.5	10.0	10.0
Merged-chr17-55754577-4	chr17	55754477	55754677	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139138, intron 1 of 16)	L1_Mus2|LINE|L1	4593.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	29.0	43.0	35.0	90.5	29.0	16.5	13.0	5.0
Merged-chr10-75676464-4	chr10	75676350	75676550	+	906.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 29 of 36)	MIR3|SINE|MIR	-32442.0	NM_027890	71733.0	Mm.247956	NM_027890	ENSMUSG00000006342	Susd2	1200011D11Rik	sushi domain containing 2	protein-coding	12.0	11.0	6.0	145.5	30.0	9.0	13.0	8.0
Merged-chr14-122297052-1	chr14	122296952	122297152	+	841.0	f0_balb.idr	intron (NM_029556, intron 1 of 7)	intron (NM_029556, intron 1 of 7)	-63414.0	NR_015532	68245.0	Mm.443285	NR_015532	ENSMUSG00000100585	1700108J01Rik	-	RIKEN cDNA 1700108J01 gene	ncRNA	2.0	1.0	11.5	127.5	8.5	7.5	5.5	6.0
Merged-chr1-178369058-4	chr1	178368970	178369170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-31255.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	125.5	177.0	110.5	1972.5	282.5	139.0	154.0	101.0
Merged-chr4-120033155-4	chr4	120033046	120033246	+	919.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	CpG	-128060.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	6.0	19.5	6.5	90.5	35.0	8.5	5.0	12.0
Merged-chr5-35758493-3	chr5	35758385	35758585	+	792.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177678, intron 1 of 19)	CpG	605.0	NM_001177698	231148.0	Mm.254446	NM_177678	ENSMUSG00000029095	Ablim2	AI606905|C230091L11	actin-binding LIM protein 2	protein-coding	11.5	12.5	7.5	49.5	20.5	4.5	10.0	6.0
Merged-chr7-118243764-4	chr7	118243697	118243897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027879)	promoter-TSS (NR_027879)	-110.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	270.5	430.0	257.0	3417.5	585.5	273.0	298.0	240.5
Merged-chr15-81858305-4	chr15	81858180	81858380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020507)	promoter-TSS (NM_020507)	46.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	30.0	62.5	18.0	255.5	105.5	42.5	34.5	46.5
Merged-chr15-73435062-4	chr15	73434976	73435176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11885.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	95.5	163.5	87.5	1469.5	233.0	104.0	138.0	94.0
Merged-chr3-155093367-4	chr3	155093258	155093458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028938)	promoter-TSS (NM_028938)	20.0	NM_029330	75540.0	Mm.35218	NM_029330	ENSMUSG00000053870	Fpgt	1700016E03Rik	fucose-1-phosphate guanylyltransferase	protein-coding	228.0	332.0	282.0	3570.5	705.5	243.5	325.0	234.0
Merged-chr2-58282722-4	chr2	58282613	58282813	+	885.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033369, intron 5 of 7)	intron (NM_001033369, intron 5 of 7)	5934.0	NR_040365	100502932.0	Mm.417207	NR_040365	ENSMUSG00000086995	Gm13544	-	predicted gene 13544	ncRNA	10.5	19.5	5.5	165.0	48.0	11.0	32.0	14.5
Merged-chr1-64597763-4	chr1	64597716	64597916	+	775.982117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009952, exon 9 of 9)	3' UTR (NM_009952, exon 9 of 9)	19352.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	5.0	4.5	4.0	29.0	23.0	10.0	7.0	9.0
Merged-chr18-80934046-4	chr18	80933950	80934150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001201569)	promoter-TSS (NM_001201569)	8.0	NM_001201569	50771.0	Mm.247138	NM_015805	ENSMUSG00000024566	Atp9b	AA934181|Atpc2b|IIb|MMR	ATPase, class II, type 9B	protein-coding	124.0	170.0	97.0	1137.0	292.0	134.0	128.0	115.0
Merged-chr2-91956114-4	chr2	91956016	91956216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138306, intron 1 of 30)	intron (NM_138306, intron 1 of 30)	-5768.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	20.5	23.5	29.0	552.5	46.0	26.5	26.5	29.5
Merged-chr6-145303800-4	chr6	145303707	145303907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53255.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	87.5	109.0	123.5	1735.5	244.5	69.0	126.5	105.0
Merged-chr16-23314460-1	chr16	23314360	23314560	+	1000.0	f0_c57.idr	intron (NM_001252506, intron 1 of 6)	L1_Mus3|LINE|L1	23990.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	19.0	27.0	12.5	88.0	53.0	22.5	16.0	15.0
Merged-chr2-29765021-2	chr2	29764921	29765121	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177392)	TTS (NM_001177392)	3493.0	NM_001177392	433416.0	Mm.330112	NM_001034887	ENSMUSG00000075425	Gm13547	-	predicted gene 13547	protein-coding	6.0	12.5	6.5	65.0	12.0	6.0	4.5	11.0
Merged-chr15-44617115-4	chr15	44617003	44617203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2124.0	NM_001357690	55960.0	Mm.287896	NM_019480	ENSMUSG00000022339	Ebag9	AI835379|Rcas1	estrogen receptor-binding fragment-associated gene 9	protein-coding	27.0	32.0	42.5	359.0	51.5	15.5	35.5	28.0
Merged-chr15-95851132-1	chr15	95851032	95851232	+	596.666687	f0_c57.idr	intron (NM_001253813, intron 2 of 20)	MTB|LTR|ERVL-MaLR	-21060.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	8.5	8.0	5.5	65.5	33.5	3.0	9.5	9.0
Merged-chr5-122269386-4	chr5	122269296	122269496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4936.0	NM_001039153	654470.0	Mm.28804	NM_001039153	ENSMUSG00000038593	Tctn1	G730031O11Rik|Tect1	tectonic family member 1	protein-coding	27.5	61.0	36.5	485.5	105.0	31.0	44.5	42.5
Merged-chr14-104005442-4	chr14	104005322	104005522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045953, intron 1 of 2)	intron (NR_045953, intron 1 of 2)	21720.0	NR_045953	73877.0	Mm.399172	NR_045953	ENSMUSG00000115727	4930432J09Rik	-	RIKEN cDNA 4930432J09 gene	ncRNA	62.5	100.0	134.0	1597.0	197.5	60.0	60.0	59.5
Merged-chr10-80900369-4	chr10	80900303	80900503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010722)	TTS (NM_010722)	566.0	NM_013895	30055.0	Mm.142132	NM_013895	ENSMUSG00000020219	Timm13	D10Ertd378e|Tim9|Timm9	translocase of inner mitochondrial membrane 13	protein-coding	19.0	27.0	13.0	207.5	65.5	23.5	22.0	38.0
Merged-chr8-117308462-4	chr8	117308346	117308546	+	968.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-40724.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	38.0	47.0	37.5	707.5	55.0	14.0	34.0	26.0
Merged-chr16-25038710-4	chr16	25038617	25038817	+	894.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20922.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	16.5	13.5	8.5	348.5	31.0	11.5	16.5	16.5
Merged-chr9-118479309-2	chr9	118479209	118479409	+	716.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_010136, exon 1 of 6)	exon (NM_010136, exon 1 of 6)	1120.0	NM_010136	13813.0	Mm.200692	NM_010136	ENSMUSG00000032446	Eomes	C77258|TBR-2|Tbr2	eomesodermin	protein-coding	2.5	5.5	0.0	44.0	16.5	6.0	5.0	9.0
Merged-chr17-70851864-4	chr17	70851769	70851969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009372)	promoter-TSS (NM_009372)	-135.0	NM_001164075	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	187.5	358.5	193.0	2825.5	471.0	194.5	228.0	163.0
Merged-chr19-53452762-3	chr19	53452660	53452860	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028427, intron 2 of 9)	intron (NR_028427, intron 2 of 9)	12036.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	20.5	28.0	27.5	445.5	6.0	0.0	0.5	2.5
Merged-chr3-52198179-4	chr3	52198089	52198289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70148.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	82.5	103.5	56.5	1100.5	192.5	57.0	73.0	101.0
Merged-chr7-64142154-1	chr7	64142054	64142254	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-11681.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	18.5	19.0	13.0	139.0	44.5	17.5	13.5	19.5
Merged-chr3-116130952-5	chr3	116130891	116131091	+	951.080017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1303.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	6.0	20.5	27.0	108.0	21.5	14.0	9.5	14.5
Merged-chr10-96408038-3	chr10	96407923	96408123	+	777.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181816.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	5.5	9.0	11.0	179.0	19.5	3.5	5.5	6.5
Merged-chr4-8535628-4	chr4	8535529	8535729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021518)	promoter-TSS (NM_021518)	-15.0	NM_021518	59021.0	Mm.397471	NM_021518	ENSMUSG00000047187	Rab2a	9330148M11Rik|C80220|Rab2	RAB2A, member RAS oncogene family	protein-coding	135.5	186.0	125.0	1908.5	350.0	148.5	225.5	127.5
Merged-chr16-87405175-3	chr16	87405067	87405267	+	817.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081068, intron 17 of 29)	ORR1B1|LTR|ERVL-MaLR	27439.0	NM_001081068	78913.0	Mm.249005	NM_001081068	ENSMUSG00000052299	Ltn1	4930528H02Rik|AV266914|C87237|Listerin|Rnf160|Zfp294	listerin E3 ubiquitin protein ligase 1	protein-coding	11.5	10.5	8.0	55.5	9.5	2.0	17.0	5.5
Merged-chr2-157129271-4	chr2	157129174	157129374	+	763.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139520, intron 2 of 16)	intron (NM_001139520, intron 2 of 16)	5948.0	NM_001139520	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	10.5	20.0	11.0	133.5	24.0	8.5	17.0	8.5
Merged-chr4-33244608-2	chr4	33244508	33244708	+	996.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033225)	TTS (NM_001033225)	4179.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	8.5	8.5	10.5	59.5	11.5	10.0	4.5	8.0
Merged-chr13-9504517-4	chr13	9504380	9504580	+	851.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 2 of 36)	intron (NM_001081426, intron 2 of 36)	227955.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	12.5	9.5	15.0	128.5	11.0	3.5	5.5	10.0
Merged-chr6-101545805-2	chr6	101545698	101545898	+	705.375	f0_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-167901.0	NM_018884	55983.0	Mm.321654	NM_018884	ENSMUSG00000035357	Pdzrn3	1110020C07Rik|AI429718|AL023082|LNX3|SEMACAP3|Semcap3	PDZ domain containing RING finger 3	protein-coding	16.5	9.5	16.5	195.5	21.0	2.5	5.0	4.5
Merged-chr1-39535682-4	chr1	39535574	39535774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028043)	promoter-TSS (NM_028043)	-27.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	154.5	280.5	103.5	2086.0	379.0	167.0	142.5	124.5
Merged-chr13-59822711-4	chr13	59822617	59822817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153538, intron 1 of 27)	CpG	430.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	95.0	188.0	101.0	1423.0	270.5	119.5	131.5	135.0
Merged-chr3-138143820-4	chr3	138143719	138143919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163457)	promoter-TSS (NM_001163457)	20.0	NM_001348197	108943.0	Mm.471692	NM_175389	ENSMUSG00000004127	Trmt10a	3110023L08Rik|AA794508|Rg9mtd2|Rnmtd2	tRNA methyltransferase 10A	protein-coding	263.0	341.0	204.0	2999.0	639.0	246.5	221.0	210.5
Merged-chr6-140750686-4	chr6	140750590	140750790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123805.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	21.0	18.5	39.0	434.5	50.0	22.0	14.0	25.5
Merged-chr5-66246118-4	chr5	66246017	66246217	+	775.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13781.0	NM_001302833	70918.0	Mm.23166	NM_027602	ENSMUSG00000029206	Nsun7	4921525L17Rik	NOL1/NOP2/Sun domain family, member 7	protein-coding	13.0	13.5	5.0	140.5	35.5	8.0	10.5	5.0
Merged-chr18-50052856-3	chr18	50052742	50052942	+	757.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134131)	promoter-TSS (NM_134131)	-440.0	NM_134131	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	6.0	8.5	2.0	51.5	13.5	6.5	9.5	6.5
Merged-chr19-41802059-4	chr19	41801922	41802122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163495)	promoter-TSS (NM_001163495)	62.0	NM_001163495	71085.0	Mm.21646	NM_027667	ENSMUSG00000025154	Arhgap19	4933411B03Rik|AI120128|AW546831|mFLJ00368	Rho GTPase activating protein 19	protein-coding	130.5	178.5	133.5	2013.0	247.5	113.5	107.5	103.0
Merged-chr16-91476547-3	chr16	91476437	91476637	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B1|LTR|ERVL	-8678.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	28.5	38.0	25.5	473.0	13.5	3.0	7.5	8.5
Merged-chr4-126046935-4	chr4	126046853	126047053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025544)	promoter-TSS (NM_025544)	25.0	NM_025544	66407.0	Mm.195628	NM_025544	ENSMUSG00000028861	Mrps15	1500003E24Rik|2410002B11Rik|Mprs15	mitochondrial ribosomal protein S15	protein-coding	122.0	183.0	85.0	1585.5	206.0	91.5	122.5	94.0
Merged-chr7-142395165-4	chr7	142395050	142395250	+	891.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-7280.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	9.5	5.0	8.5	217.0	17.0	5.5	14.0	21.5
Merged-chr11-79339552-4	chr11	79339462	79339662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010897)	promoter-TSS (NM_010897)	-330.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	54.5	82.5	30.5	526.0	166.0	67.5	38.5	66.0
Merged-chr18-46963593-4	chr18	46963496	46963696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178377, intron 2 of 6)	intron (NM_178377, intron 2 of 6)	4720.0	NM_178377	69456.0	Mm.210734	NM_178377	ENSMUSG00000042705	Commd10	2310003A05Rik|AU019438|DRWMS2|Tg(Vav1-icre)A2Kio|Vav-cre|Vav-iCre|Vav1-Cre|VavCre	COMM domain containing 10	protein-coding	35.0	56.0	32.5	767.5	53.0	15.0	34.5	30.0
Merged-chr14-30593895-4	chr14	30593811	30594011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16399.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	90.5	133.0	102.0	1268.0	158.5	50.5	103.0	83.5
Merged-chr4-102506779-4	chr4	102506682	102506882	+	762.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-63278.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	6.5	10.0	11.0	107.5	43.0	10.0	14.0	14.0
Merged-chr9-89210552-4	chr9	89210475	89210675	+	706.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026829)	promoter-TSS (NM_026829)	-615.0	NM_026829	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	3.0	2.0	5.0	48.5	24.0	8.5	15.5	9.5
Merged-chr2-155385295-4	chr2	155385234	155385434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178111, exon 2 of 4)	5' UTR (NM_178111, exon 2 of 4)	3478.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	24.5	61.5	23.5	438.5	92.5	34.5	28.0	36.5
Merged-chr17-35051892-4	chr17	35051805	35052005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033444, intron 1 of 5)	intron (NM_033444, intron 1 of 5)	1662.0	NM_033444	114584.0	Mm.29524	NM_033444	ENSMUSG00000007041	Clic1	Clcp|G6	chloride intracellular channel 1	protein-coding	112.0	169.0	93.5	1726.0	314.5	102.0	120.0	102.5
Merged-chr7-87925614-4	chr7	87925534	87925734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 4 of 9)	intron (NM_001081414, intron 4 of 9)	341466.0	NM_001143834	108071.0	Mm.235018	NM_001033224	ENSMUSG00000049583	Grm5	6430542K11Rik|AI850523|Glu5R|Gprc1e|mGluR5|mGluR5b	glutamate receptor, metabotropic 5	protein-coding	46.5	49.5	77.0	941.0	91.0	29.0	33.0	42.5
Merged-chr6-17696526-3	chr6	17696430	17696630	+	780.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289624, intron 1 of 15)	intron (NM_001289624, intron 1 of 15)	2536.0	NM_001289625	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	10.5	7.5	7.0	90.0	16.0	5.0	3.5	4.0
Merged-chr12-81796769-3	chr12	81796654	81796854	+	872.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR18-int|LTR|ERVK	-15584.0	NM_001174107	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	7.5	9.0	1.0	143.0	21.5	13.0	8.0	7.5
Merged-chr8-60983826-4	chr8	60983727	60983927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007711)	promoter-TSS (NM_007711)	-516.0	NM_173874	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	47.0	84.5	59.5	928.5	127.5	65.0	63.5	75.5
Merged-chr4-19537544-4	chr4	19537461	19537661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027769, intron 7 of 15)	intron (NM_027769, intron 7 of 15)	32547.0	NM_027769	70568.0	Mm.38390	NM_027769	ENSMUSG00000028228	Cpne3	5430428M23Rik|5730450C07Rik|C85108|CPN3	copine III	protein-coding	32.5	25.5	23.5	621.5	83.0	21.0	37.5	24.5
Merged-chr16-94571111-9	chr16	94571086	94571286	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	279.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	18.0	32.0	20.0	244.0	75.0	26.5	22.5	21.0
Merged-chr17-23741010-2	chr17	23740874	23741074	+	980.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023824)	promoter-TSS (NM_023824)	-644.0	NM_023824	76498.0	Mm.491253	NM_023824	ENSMUSG00000023909	Paqr4	1500004C10Rik	progestin and adipoQ receptor family member IV	protein-coding	3.0	8.0	9.5	109.5	8.5	6.0	6.0	10.5
Merged-chr4-123749870-1	chr4	123749770	123749970	+	1000.0	f0_c57.idr	intron (NM_023423, intron 1 of 4)	CpG	429.0	NM_023423	68050.0	Mm.27903	NM_023423	ENSMUSG00000023075	Akirin1	6330407G11Rik	akirin 1	protein-coding	8.0	20.5	16.5	156.0	47.5	15.5	24.0	26.0
Merged-chr19-8982873-4	chr19	8982838	8983038	+	953.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6346.0	NR_104460	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	12.5	30.5	11.0	116.5	21.0	14.0	6.0	4.5
Merged-chr17-10359604-4	chr17	10359502	10359702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35000.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	102.0	171.0	96.5	1735.5	308.5	88.5	144.5	114.0
Merged-chr19-28777078-4	chr19	28776969	28777169	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58097.0	NM_009199	20510.0	Mm.246670	NM_009199	ENSMUSG00000024935	Slc1a1	D130048G10Rik|EAAC1|EAAC2|EAAT3|MEAAC1	solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1	protein-coding	16.0	10.5	30.5	242.5	21.5	7.0	14.5	16.0
Merged-chr9-119248164-4	chr9	119248049	119248249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359582, intron 13 of 18)	intron (NM_001359582, intron 13 of 18)	-16457.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	43.5	31.5	34.5	623.0	65.0	14.5	38.0	28.5
Merged-chr16-70387545-3	chr16	70387452	70387652	+	938.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 2 of 15)	intron (NM_028803, intron 2 of 15)	73603.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	6.0	7.0	9.0	211.5	12.5	7.0	9.0	8.0
Merged-chr5-99382950-4	chr5	99382853	99383053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-130026.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	92.5	181.5	124.0	1641.0	216.5	94.5	107.0	113.0
Merged-chr16-50397475-4	chr16	50397402	50397602	+	912.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	intron (NM_027444, intron 2 of 16)	34887.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	14.5	16.5	3.0	223.5	24.0	6.0	11.5	11.0
Merged-chr11-68691318-1	chr11	68691218	68691418	+	1000.0	f0_balb.idr	promoter-TSS (NM_175260)	promoter-TSS (NM_175260)	-597.0	NM_175260	77579.0	Mm.218233	NM_175260	ENSMUSG00000020900	Myh10	5730504C04Rik|9330167F11Rik|Fltn|Myhn-2|Myhn2|NMHC II-B|NMHC-B|NMHCII-B|NMMHC II-b|NMMHC-B|NMMHC-IIB|SMemb|mKIAA3005	myosin, heavy polypeptide 10, non-muscle	protein-coding	27.5	36.5	22.5	336.5	59.0	16.0	20.0	26.5
Merged-chr10-111083518-4	chr10	111083434	111083634	+	954.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73468.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	24.5	23.5	17.5	391.5	45.5	15.5	15.5	15.0
Merged-chr17-71292120-3	chr17	71292042	71292242	+	973.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	18869.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	19.0	19.5	4.5	172.5	17.0	10.0	8.5	2.5
Merged-chr9-62828902-4	chr9	62828789	62828989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9898.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	261.0	416.0	212.5	3273.5	602.5	283.5	277.5	227.0
Merged-chr3-69128327-3	chr3	69128223	69128423	+	786.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1231.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	11.0	18.5	11.0	283.5	18.5	6.0	9.0	21.0
Merged-chr18-39582095-3	chr18	39581994	39582194	+	896.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94849.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	9.0	20.5	12.5	93.0	12.0	9.0	16.5	9.0
Merged-chr9-47435406-3	chr9	47435318	47435518	+	749.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94752.0	NM_001310841	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	5.0	7.5	6.0	112.5	3.0	0.5	3.5	6.0
Merged-chr5-28315711-3	chr5	28315561	28315761	+	865.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR87|LTR|ERVL?	-1528.0	NM_028234	381626.0	Mm.304075	NM_028234	ENSMUSG00000048271	Rbm33	3200001K10Rik|6430512A10Rik|AA386890|Prr8	RNA binding motif protein 33	protein-coding	14.5	9.0	16.5	279.0	20.0	0.5	3.0	7.5
Merged-chr2-150451520-3	chr2	150451416	150451616	+	865.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310645)	promoter-TSS (NM_001310645)	-15.0	NM_001310645	668923.0	Mm.393876	NM_001177550	ENSMUSG00000068130	Zfp442	ZIPO-II	zinc finger protein 442	protein-coding	3.0	7.5	5.5	16.5	19.0	6.5	8.5	8.5
Merged-chr14-8214451-4	chr14	8214346	8214546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305936)	promoter-TSS (NM_001305936)	-56.0	NM_001305936	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	33.5	42.0	45.5	374.0	92.0	19.5	30.0	22.5
Merged-chr19-10018192-4	chr19	10018095	10018295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347430)	promoter-TSS (NM_001347430)	1.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	87.5	125.0	72.5	1124.5	186.0	64.5	110.0	58.0
Merged-chr17-48266750-3	chr17	48266661	48266861	+	780.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033922, intron 2 of 5)	RLTR22_Mur|LTR|ERVK	2466.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	13.5	10.5	6.0	57.0	15.5	6.0	4.5	4.0
Merged-chr2-160618799-4	chr2	160618704	160618904	+	914.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-27093.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	13.0	25.0	19.5	306.5	26.5	9.0	13.0	15.5
Merged-chr12-111670943-4	chr12	111670879	111671079	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021273, exon 5 of 8)	exon (NM_021273, exon 5 of 8)	1359.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	24.5	22.5	17.0	168.5	46.0	24.0	21.0	22.0
Merged-chr1-97688948-4	chr1	97688837	97689037	+	909.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26919.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	11.5	22.0	10.5	378.0	53.0	14.0	35.5	25.5
Merged-chr2-25423265-4	chr2	25423182	25423382	+	918.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013524)	promoter-TSS (NM_013524)	40.0	NM_001289456	14347.0	Mm.1203	NM_013524	ENSMUSG00000036587	Fut7	AI853193|FTVII|Fuc-TVII|FucT-VII	fucosyltransferase 7	protein-coding	21.5	21.5	12.5	176.5	29.5	6.0	8.0	20.0
Merged-chr3-103745502-4	chr3	103745398	103745598	+	888.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010432, intron 14 of 15)	intron (NM_010432, intron 14 of 15)	-7497.0	NM_133859	99543.0	Mm.211535	NM_133859	ENSMUSG00000027848	Olfml3	2810002E22Rik|AI115209|AW550633|HNOEL-iso|ONT3|mONT3	olfactomedin-like 3	protein-coding	24.0	15.0	36.5	391.5	19.5	7.5	10.5	13.0
Merged-chr4-59000805-4	chr4	59000685	59000885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2408.0	NM_001033165	72429.0	Mm.317801	NM_001033165	ENSMUSG00000070972	Dnajc25	2010109C08Rik|2010203O07Rik	DnaJ heat shock protein family (Hsp40) member C25	protein-coding	26.5	83.0	28.0	333.5	113.5	52.0	47.5	37.0
Merged-chr7-100191037-4	chr7	100190924	100191124	+	885.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12341.0	NM_001190871	57442.0	Mm.282386	NM_020574	ENSMUSG00000035165	Kcne3	2210017H05Rik|MiRP2	potassium voltage-gated channel, Isk-related subfamily, gene 3	protein-coding	11.0	16.5	17.0	90.5	29.5	9.5	13.5	6.5
Merged-chr17-86658039-3	chr17	86657942	86658142	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011104)	TTS (NM_011104)	-95822.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	27.0	28.5	28.5	227.5	6.0	8.5	5.0	6.5
Merged-chr10-60282252-4	chr10	60282189	60282389	+	945.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	intron (NM_011179, intron 1 of 14)	-2172.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	15.5	12.5	16.5	298.5	68.5	11.0	24.0	24.0
Merged-chr2-125122394-4	chr2	125122299	125122499	+	831.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162418, intron 1 of 14)	intron (NM_001162418, intron 1 of 14)	1261.0	NM_001162417	17876.0	Mm.18535	NM_010852	ENSMUSG00000027201	Myef2	9430071B01|mKIAA1341	myelin basic protein expression factor 2, repressor	protein-coding	22.0	27.5	17.5	202.0	30.5	13.5	11.0	14.5
Merged-chr16-33988556-4	chr16	33988452	33988652	+	814.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 55 of 59)	intron (NM_177357, intron 55 of 59)	-21514.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	8.5	18.0	7.0	137.0	43.5	7.5	9.0	19.5
Merged-chr17-73041142-4	chr17	73041066	73041266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-66819.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	35.0	25.5	31.0	857.0	52.5	22.0	29.5	33.0
Merged-chr11-98709282-4	chr11	98709179	98709379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361995, intron 19 of 25)	intron (NM_001361995, intron 19 of 25)	7966.0	NM_009971	12985.0	Mm.1238	NM_009971	ENSMUSG00000038067	Csf3	Csfg|G-CSF|MGI-IG	colony stimulating factor 3 (granulocyte)	protein-coding	26.0	43.5	49.5	462.5	69.0	27.5	35.5	44.5
Merged-chr2-59332741-4	chr2	59332638	59332838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 11 of 20)	intron (NM_175464, intron 11 of 20)	53944.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	23.5	38.0	29.0	461.5	90.5	32.0	59.0	33.5
Merged-chr6-116679782-4	chr6	116679697	116679897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5961.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	134.0	152.5	135.0	2244.0	219.0	116.0	166.0	119.5
Merged-chr12-3344411-4	chr12	3344317	3344517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20715.0	NM_008445	16570.0	Mm.7688	NM_008445	ENSMUSG00000020668	Kif3c	mKIAA4058	kinesin family member 3C	protein-coding	135.0	242.0	141.0	1852.5	270.5	118.0	161.5	102.5
Merged-chr19-42515553-4	chr19	42515459	42515659	+	898.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3246.0	NM_177464	52013.0	Mm.254169	NM_177464	ENSMUSG00000025184	R3hcc1l	1700036B12Rik|AI450607|C10orf28|D19Ertd386e|GIDRP86|Gidrp88	R3H domain and coiled-coil containing 1 like	protein-coding	24.0	23.0	10.0	297.0	26.0	2.0	12.0	24.5
Merged-chr13-24758564-4	chr13	24758508	24758708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020567, intron 2 of 6)	MTD|LTR|ERVL-MaLR	3329.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	17.5	30.0	26.0	280.5	33.0	18.5	15.0	17.0
Merged-chr4-156216779-4	chr4	156216677	156216877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172417, exon 2 of 4)	5' UTR (NM_172417, exon 2 of 4)	850.0	NM_172417	74183.0	Mm.431343	NM_172417	ENSMUSG00000078486	Perm1	2310042D19Rik	PPARGC1 and ESRR induced regulator, muscle 1	protein-coding	42.5	57.0	33.0	687.0	93.5	19.5	41.5	25.0
Merged-chr16-3885638-4	chr16	3885481	3885681	+	868.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290689, intron 1 of 5)	intron (NM_001290689, intron 1 of 5)	962.0	NM_001290689	74763.0	Mm.28403	NM_029090	ENSMUSG00000005982	Naa60	1200013P24Rik|AI315146|HAT4|Nat15|NatF	N(alpha)-acetyltransferase 60, NatF catalytic subunit	protein-coding	17.5	14.0	5.0	218.0	27.0	4.5	6.5	10.5
Merged-chr10-86731222-4	chr10	86731126	86731326	+	950.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153595, exon 5 of 5)	exon (NM_153595, exon 5 of 5)	18461.0	NM_153595	103220.0	Mm.440762	NM_153595	ENSMUSG00000044937	Ttc41	AI449705|AU041509|Gnn	tetratricopeptide repeat domain 41	protein-coding	14.0	8.0	10.0	91.0	11.0	14.0	10.0	13.0
Merged-chr12-80769818-4	chr12	80769731	80769931	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9116.0	NM_001008423	380768.0	Mm.29367	NM_001008423	ENSMUSG00000062961	Ccdc177	Gm1568	coiled-coil domain containing 177	protein-coding	3.0	18.5	5.5	118.0	39.5	9.0	15.5	6.0
Merged-chr11-114960511-3	chr11	114960412	114960612	+	868.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199225)	promoter-TSS (NM_199225)	-95.0	NM_199225	387565.0	Mm.351450	NM_199225	ENSMUSG00000058728	Cd300c	Clm6	CD300C molecule	protein-coding	13.5	9.5	6.5	94.0	19.0	5.0	7.5	18.0
Merged-chr2-167775421-4	chr2	167775330	167775530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84253.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	403.0	587.5	346.0	4812.0	786.0	328.0	380.0	393.0
Merged-chr19-17348068-4	chr19	17347982	17348182	+	918.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	-8577.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	26.5	26.0	15.0	334.0	68.0	9.5	21.5	17.0
Merged-chr13-93355291-4	chr13	93355209	93355409	+	974.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147176, intron 4 of 9)	intron (NM_147176, intron 4 of 9)	47275.0	NM_152134	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	20.5	21.5	16.5	464.0	29.5	13.0	20.5	18.0
Merged-chr3-137969375-3	chr3	137969268	137969468	+	946.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 1 of 8)	intron (NM_011932, intron 1 of 8)	12181.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	14.0	15.0	12.5	200.5	29.5	3.0	23.5	9.5
Merged-chr3-37802886-4	chr3	37802794	37802994	+	838.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78534.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	9.0	7.5	16.5	278.0	13.0	2.0	12.0	18.5
Merged-chr6-53370148-4	chr6	53370036	53370236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 2 of 10)	intron (NM_001327821, intron 2 of 10)	82833.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	145.0	233.0	158.5	2300.0	290.5	92.0	141.0	109.0
Merged-chr11-55469454-4	chr11	55469382	55469582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013716)	promoter-TSS (NM_013716)	-270.0	NM_013716	27041.0	Mm.39631	NM_013716	ENSMUSG00000018583	G3bp1	AI849976|B430204O07|C87777|G3bp|mKIAA4115	GTPase activating protein (SH3 domain) binding protein 1	protein-coding	395.0	698.5	457.0	5583.5	1067.5	502.0	514.5	461.0
Merged-chr10-80935534-4	chr10	80935464	80935664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5473.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	91.5	150.5	65.0	739.5	239.5	99.5	107.5	45.5
Merged-chr9-120011742-4	chr9	120011618	120011818	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	11880.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	51.0	104.5	54.0	507.0	79.0	8.5	23.0	13.5
Merged-chr17-48278552-2	chr17	48278434	48278634	+	767.833374	f0_balb.idr|f1_balb.idr	Intergenic	RMER6A|LTR|ERVK	14239.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	6.5	11.5	12.0	141.0	8.5	5.5	4.0	7.0
Merged-chr8-70673670-4	chr8	70673566	70673766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015816, intron 1 of 4)	CpG	435.0	NM_015816	50783.0	Mm.248188	NM_015816	ENSMUSG00000031848	Lsm4	-	LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	71.0	127.5	41.0	913.0	200.0	76.0	76.0	74.5
Merged-chr4-101419456-3	chr4	101419266	101419466	+	783.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177602)	promoter-TSS (NM_001177602)	45.0	NM_001177604	11639.0	Mm.42040	NM_009647	ENSMUSG00000028527	Ak4	AK 4|Ak-3|Ak-4|Ak3|Ak3l1|D4Ertd274e	adenylate kinase 4	protein-coding	5.0	7.0	7.0	26.5	6.0	1.5	5.0	8.5
Merged-chr6-134920395-4	chr6	134920320	134920520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009875)	promoter-TSS (NM_009875)	19.0	NM_009875	12576.0	Mm.2958	NM_009875	ENSMUSG00000003031	Cdkn1b	AA408329|AI843786|Kip1|p27|p27Kip1	cyclin-dependent kinase inhibitor 1B	protein-coding	103.0	156.0	74.5	1084.5	292.0	117.0	161.5	119.0
Merged-chr5-123151279-4	chr5	123151156	123151356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040398, intron 6 of 16)	MIR|SINE|MIR	9063.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	121.5	162.0	86.5	1377.5	223.0	80.0	116.5	125.0
Merged-chr9-77917287-4	chr9	77917175	77917375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134255)	promoter-TSS (NM_134255)	-90.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	314.0	463.0	338.5	4115.0	700.0	272.5	311.0	238.5
Merged-chr6-32996766-2	chr6	32996666	32996866	+	799.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355667, intron 3 of 8)	intron (NM_001355667, intron 3 of 8)	63494.0	NM_001355667	66075.0	Mm.21501	NM_025336	ENSMUSG00000053768	Chchd3	0610041L09Rik|1700039J09Rik|AW558177	coiled-coil-helix-coiled-coil-helix domain containing 3	protein-coding	9.5	4.5	7.0	98.0	6.0	1.0	3.5	5.0
Merged-chr6-85160412-4	chr6	85160312	85160512	+	805.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22648.0	NM_011467	20751.0	Mm.28393	NM_011467	ENSMUSG00000033735	Spr	AA409688|Gm10328	sepiapterin reductase	protein-coding	21.5	27.5	12.5	177.0	41.0	11.5	8.5	12.5
Merged-chr4-132798122-4	chr4	132798036	132798236	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1772.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	32.5	38.0	28.0	317.0	54.5	25.5	16.5	23.0
Merged-chr13-21181012-4	chr13	21180920	21181120	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009054, intron 1 of 7)	CpG	1089.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	25.5	32.5	36.5	335.0	66.5	22.5	21.0	27.5
Merged-chr15-98504665-4	chr15	98504561	98504761	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	7187.0	NM_001001807	258502.0	Mm.377539	NM_001001807	ENSMUSG00000054036	Olfr279	MOR122-1|Olfr234|Olfr234-ps1|Olfr279-ps1	olfactory receptor 279	protein-coding	29.0	42.5	18.0	285.5	62.5	16.0	20.0	12.5
Merged-chr18-56573646-3	chr18	56573547	56573747	+	874.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127338)	promoter-TSS (NM_001127338)	-708.0	NM_001127338	110695.0	Mm.30250	NM_138600	ENSMUSG00000053644	Aldh7a1	Atq1|D18Wsu181e	aldehyde dehydrogenase family 7, member A1	protein-coding	9.5	7.5	8.0	87.0	14.5	7.5	2.0	7.5
Merged-chr6-85410878-3	chr6	85410789	85410989	+	823.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12997.0	NM_001007472	384452.0	Mm.347883	NM_001007472	ENSMUSG00000068302	Noto	Flh|MmNot|Not|tc	notochord homeobox	protein-coding	16.0	4.0	4.0	144.5	21.5	10.5	9.5	17.5
Merged-chr1-152575142-4	chr1	152575050	152575250	+	838.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	50067.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	14.0	13.0	12.0	103.0	31.5	11.5	5.5	4.5
Merged-chr7-111370753-4	chr7	111370627	111370827	+	949.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-248052.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	11.5	21.5	13.0	167.0	64.0	17.0	25.5	21.5
Merged-chr4-70535048-4	chr4	70534948	70535148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172694)	promoter-TSS (NM_172694)	-120.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	258.0	377.0	305.0	5647.0	724.0	270.0	472.0	281.5
Merged-chr2-91237713-6	chr2	91237657	91237857	+	888.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028119)	promoter-TSS (NM_028119)	611.0	NR_015464	606735.0	Mm.246808	NR_015464	ENSMUSG00000097868	A330069E16Rik	-	RIKEN cDNA A330069E16 gene	ncRNA	3.0	9.5	2.0	49.0	25.5	7.0	6.5	6.5
Merged-chr10-80342939-4	chr10	80342816	80343016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001285435, exon 8 of 13)	exon (NM_001285435, exon 8 of 13)	5532.0	NM_001285435	66548.0	Mm.71891	NM_025629	ENSMUSG00000043822	Adamtsl5	2010109H09Rik|Thsd6	ADAMTS-like 5	protein-coding	54.5	77.5	42.0	696.5	114.5	51.0	65.0	54.0
Merged-chr1-105781052-3	chr1	105780982	105781182	+	880.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	359.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	5.5	14.0	10.5	94.5	22.5	3.5	4.5	7.0
Merged-chr4-135315442-4	chr4	135315351	135315551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	37763.0	NM_016799	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	52.5	74.5	102.5	1336.5	143.5	43.0	77.5	83.0
Merged-chr17-35202604-4	chr17	35202503	35202703	+	972.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001278601)	promoter-TSS (NM_001278601)	-596.0	NM_001278601	21926.0	Mm.1293	NM_013693	ENSMUSG00000024401	Tnf	DIF|TNF-a|TNF-alpha|TNFSF2|TNFalpha|Tnfa|Tnfsf1a|Tnlg1f	tumor necrosis factor	protein-coding	24.5	38.0	12.0	47.0	72.0	21.5	22.0	10.0
Merged-chr3-103912896-2	chr3	103912788	103912988	+	731.25	f0_balb.idr|f1_balb.idr	TTS (NM_008979)	TTS (NM_008979)	-1232.0	NM_001356557	229675.0	Mm.29366	NM_172684	ENSMUSG00000044098	Rsbn1	C230004D03Rik|E330004N01|KDM9|Rosbin|Rsbn|Rsbp|mKIAA3002	rosbin, round spermatid basic protein 1	protein-coding	6.0	28.5	17.5	198.5	10.5	5.5	5.0	5.5
Merged-chr1-66700837-4	chr1	66700765	66700965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025683)	promoter-TSS (NM_025683)	34.0	NM_001310644	66646.0	Mm.240912	NM_025683	ENSMUSG00000026005	Rpe	2810429B02Rik|5730518J08Rik	ribulose-5-phosphate-3-epimerase	protein-coding	143.5	189.0	190.0	2200.5	395.5	149.0	197.0	131.5
Merged-chr3-67576954-4	chr3	67576839	67577039	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5829.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	6.0	20.5	10.0	61.0	33.5	4.5	15.5	4.5
Merged-chr19-47179045-6	chr19	47178896	47179096	+	838.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021360, exon 1 of 6)	5' UTR (NM_021360, exon 1 of 6)	176.0	NM_021360	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	8.5	5.0	10.0	67.0	9.0	6.0	4.0	9.5
Merged-chr6-72155246-4	chr6	72155086	72155286	+	836.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011375)	TTS (NM_011375)	-31989.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	2.5	13.0	7.5	60.0	10.0	8.5	6.5	6.0
Merged-chr9-41088139-4	chr9	41088056	41088256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	L2b|LINE|L2	-8650.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	68.5	121.5	84.5	1398.5	281.5	115.0	113.0	101.0
Merged-chr9-113745585-4	chr9	113745480	113745680	+	855.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 1 of 39)	intron (NM_001114347, intron 1 of 39)	4107.0	NM_001114347	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	15.5	13.0	9.5	296.0	21.5	9.5	6.0	12.0
Merged-chr17-86918973-2	chr17	86918877	86919077	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001277980, intron 2 of 2)	B2_Mm2|SINE|B2	1629.0	NM_030104	78469.0	Mm.67234	NM_030104	ENSMUSG00000037689	Tmem247	1700090G07Rik	transmembrane protein 247	protein-coding	11.0	11.5	5.5	8.0	11.5	2.5	7.0	2.0
Merged-chr13-49959138-2	chr13	49959038	49959238	+	860.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	277008.0	NM_172015	105148.0	Mm.21118	NM_172015	ENSMUSG00000037851	Iars	2510016L12Rik|AI327140|AU044614|E430001P04Rik|ILRS	isoleucine-tRNA synthetase	protein-coding	6.0	7.5	8.5	48.0	2.5	0.0	1.5	3.5
Merged-chr13-91808359-3	chr13	91808265	91808465	+	897.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145453)	promoter-TSS (NM_145453)	-669.0	NM_145453	69085.0	Mm.52356	NM_145453	ENSMUSG00000021621	Zcchc9	1810019C21Rik	zinc finger, CCHC domain containing 9	protein-coding	1.0	8.0	10.5	81.5	8.5	4.5	7.5	10.0
Merged-chr13-74854533-4	chr13	74854443	74854643	+	923.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45783.0	NM_001301153	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	22.0	17.5	15.0	397.0	17.0	11.5	23.5	27.0
Merged-chr7-80078081-3	chr7	80077927	80078127	+	911.8777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	-2770.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	8.5	9.5	10.0	150.5	18.0	3.5	12.5	13.0
Merged-chr6-42325412-4	chr6	42325309	42325509	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113327)	promoter-TSS (NM_001113327)	-769.0	NM_001113327	76156.0	Mm.234314	NM_029528	ENSMUSG00000029861	Fam131b	6330503C03Rik|6530406I18Rik|AV277466	family with sequence similarity 131, member B	protein-coding	14.5	9.0	3.5	174.5	27.0	10.0	9.5	10.0
Merged-chr9-123940247-4	chr9	123940145	123940345	+	946.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28447.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	27.5	55.0	29.5	168.0	52.5	14.0	12.0	6.5
Merged-chr5-123436956-1	chr5	123436856	123437056	+	612.0	f0_c57.idr	intron (NM_133917, intron 1 of 16)	intron (NM_133917, intron 1 of 16)	42158.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	6.0	13.0	5.0	44.5	33.0	10.0	1.5	5.0
Merged-chr16-8637611-4	chr16	8637485	8637685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016881)	promoter-TSS (NM_016881)	116.0	NM_025708	66690.0	Mm.10068	NM_025708	ENSMUSG00000043140	Tmem186	2810440M13Rik|4432406C05Rik|AI648175|AW210586	transmembrane protein 186	protein-coding	104.0	144.5	86.0	1377.0	288.5	119.0	111.0	142.5
Merged-chr10-94039007-3	chr10	94038902	94039102	+	821.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 1 of 20)	intron (NM_053072, intron 1 of 20)	3001.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	4.0	8.5	1.0	67.0	27.5	17.5	22.5	15.0
Merged-chr15-86225281-4	chr15	86225195	86225395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 1 of 12)	intron (NM_145476, intron 1 of 12)	10836.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	198.5	237.5	241.0	3074.5	312.0	118.0	206.5	212.5
Merged-chr7-27507075-4	chr7	27506977	27507177	+	898.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019412, intron 4 of 5)	intron (NM_019412, intron 4 of 5)	7753.0	NM_019412	19153.0	Mm.10119	NM_019412	ENSMUSG00000053198	Prx	L-Periaxin	periaxin	protein-coding	12.5	19.5	5.5	226.5	39.5	7.5	17.0	14.0
Merged-chr10-89443926-4	chr10	89443824	89444024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284344)	promoter-TSS (NM_001284344)	43.0	NM_001284344	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	97.5	157.0	92.5	1583.0	255.0	91.0	125.5	88.5
Merged-chr2-164879913-4	chr2	164879826	164880026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146129, intron 1 of 16)	CpG	558.0	NM_146129	228866.0	Mm.241134	NM_146129	ENSMUSG00000039849	Pcif1	2310022K11Rik|C20orf67|F730014I05Rik	PDX1 C-terminal inhibiting factor 1	protein-coding	159.0	181.0	151.5	1487.0	283.5	124.5	109.0	134.0
Merged-chr18-76237496-4	chr18	76237407	76237607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-4194.0	NM_010754	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	59.5	59.5	40.5	752.5	133.5	48.0	50.5	56.5
Merged-chr14-61687026-2	chr14	61686926	61687126	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4653.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	2.0	10.5	3.5	41.5	21.5	6.0	7.0	8.5
Merged-chr6-129209308-4	chr6	129209220	129209420	+	950.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28705.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	9.5	4.5	13.0	191.0	56.0	4.5	13.0	22.0
Merged-chr9-116123755-4	chr9	116123644	116123844	+	888.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 3 of 6)	Lx9|LINE|L1	51619.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	17.5	14.5	26.0	371.0	28.0	10.0	20.5	11.5
Merged-chr2-120666766-3	chr2	120666664	120666864	+	879.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57169.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	5.0	22.0	6.0	34.0	37.0	12.5	4.0	1.5
Merged-chr3-36772147-2	chr3	36772047	36772247	+	681.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81980.0	NM_019510	22065.0	Mm.74363	NM_019510	ENSMUSG00000027716	Trpc3	Mwk|Trcp3|Trp3|Trrp3	transient receptor potential cation channel, subfamily C, member 3	protein-coding	2.5	5.0	7.0	70.5	5.5	8.5	6.5	9.0
Merged-chr3-127796488-4	chr3	127796394	127796594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356430, intron 2 of 2)	intron (NM_001356430, intron 2 of 2)	5837.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	92.5	185.0	94.0	2776.0	230.0	62.0	134.5	110.5
Merged-chr14-44835287-4	chr14	44835181	44835381	+	846.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24094.0	NM_008962	19214.0	Mm.5105	NM_008962	ENSMUSG00000071489	Ptgdr	DP|PGD	prostaglandin D receptor	protein-coding	12.5	15.5	15.0	474.5	43.5	17.5	7.5	16.0
Merged-chr5-103758703-4	chr5	103758615	103758815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	AT_rich|Low_complexity|Low_complexity	4142.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	49.0	59.0	44.5	514.0	102.0	49.5	38.0	47.5
Merged-chr1-191396248-4	chr1	191396146	191396346	+	975.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144880, exon 1 of 13)	exon (NM_144880, exon 1 of 13)	795.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	13.0	13.5	15.0	212.0	67.0	17.0	20.0	19.5
Merged-chr19-3084238-2	chr19	3084138	3084338	+	925.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	113465.0	NR_045304	70011.0	Mm.393871	NR_045304	ENSMUSG00000100969	1700030N03Rik	1700087C08Rik	RIKEN cDNA 1700030N03 gene	ncRNA	9.0	8.0	6.0	51.0	17.5	1.5	4.5	6.0
Merged-chr4-8857649-3	chr4	8857522	8857722	+	919.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 31 of 36)	intron (NM_001355382, intron 31 of 36)	106298.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	0.0	1.0	2.0	31.5	22.5	20.5	29.5	27.0
Merged-chr2-112267054-4	chr2	112266941	112267141	+	906.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133649, exon 1 of 25)	exon (NM_133649, exon 1 of 25)	727.0	NM_133649	107723.0	Mm.491155	NM_133648	ENSMUSG00000027130	Slc12a6	9530023I19Rik|KCC3|gaxp	solute carrier family 12, member 6	protein-coding	3.5	13.0	7.0	95.0	19.5	10.5	7.0	15.0
Merged-chr17-71834505-3	chr17	71834400	71834600	+	989.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271483, intron 13 of 16)	intron (NM_001271483, intron 13 of 16)	52553.0	NM_030179	78785.0	Mm.196382	NM_030179	ENSMUSG00000024059	Clip4	1700024K14Rik|1700074B05Rik|4833417L20Rik|5830409B12Rik|Rsnl2	CAP-GLY domain containing linker protein family, member 4	protein-coding	20.5	22.5	21.5	426.0	0.0	0.0	0.0	0.0
Merged-chr1-120033251-4	chr1	120033157	120033357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 4 of 13)	intron (NM_001012322, intron 4 of 13)	26277.0	NM_001012322	319229.0	Mm.189223	NM_001012322	ENSMUSG00000026387	Sctr	6530402O03Rik	secretin receptor	protein-coding	27.5	24.0	13.5	350.0	55.5	25.0	28.0	27.0
Merged-chr6-127109607-4	chr6	127109493	127109693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177003)	promoter-TSS (NM_177003)	-41.0	NM_177003	319801.0	Mm.101836	NM_177003	ENSMUSG00000038028	Tigar	9630033F20Rik|AA793651|AI595337|C79710|C85509	Trp53 induced glycolysis repulatory phosphatase	protein-coding	107.0	164.0	92.5	1369.0	216.5	73.0	101.0	55.5
Merged-chr8-70506586-4	chr8	70506503	70506703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151646)	promoter-TSS (NR_151646)	149.0	NM_001357209	66462.0	Mm.28242	NM_025577	ENSMUSG00000058833	Rex1bd	2810428I15Rik	required for excision 1-B domain containing	protein-coding	73.5	135.5	138.0	879.0	116.5	56.0	50.0	67.5
Merged-chr16-62782456-3	chr16	62782377	62782577	+	795.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178925, intron 2 of 5)	intron (NM_178925, intron 2 of 5)	4239.0	NM_178925	106338.0	Mm.26321	NM_178925	ENSMUSG00000050312	Nsun3	6720484A09Rik|AU022521	NOL1/NOP2/Sun domain family member 3	protein-coding	5.0	18.5	6.5	122.5	8.0	6.5	5.5	5.5
Merged-chr11-73131210-4	chr11	73131126	73131326	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361245, intron 22 of 30)	intron (NM_001361245, intron 22 of 30)	7068.0	NM_010353	14841.0	Mm.42045	NM_010353	ENSMUSG00000050107	Haspin	Gsg2	histone H3 associated protein kinase	protein-coding	6.5	11.5	10.0	168.0	31.5	10.0	13.5	13.0
Merged-chr1-36445345-4	chr1	36445230	36445430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310517)	promoter-TSS (NM_001310517)	-59.0	NM_001310517	214895.0	Mm.287854	NM_001013374	ENSMUSG00000001143	Lman2l	A630028F14Rik|VIP36-like|VIPL	lectin, mannose-binding 2-like	protein-coding	80.0	106.0	38.5	869.5	191.5	52.5	92.0	60.5
Merged-chr3-105928335-4	chr3	105928204	105928404	+	766.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033780, intron 2 of 5)	intron (NM_001033780, intron 2 of 5)	4360.0	NM_001033780	433638.0	Mm.239081	NM_001033780	ENSMUSG00000074342	I830077J02Rik	-	RIKEN cDNA I830077J02 gene	protein-coding	0.5	8.0	8.5	105.5	21.0	7.0	9.5	6.0
Merged-chr1-151338422-4	chr1	151338307	151338507	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6079.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	22.0	24.0	18.0	250.5	49.0	14.0	25.5	24.5
Merged-chr3-87330947-4	chr3	87330761	87330961	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-27020.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	15.5	24.0	21.5	340.0	36.5	8.5	14.5	19.0
Merged-chr13-52595010-4	chr13	52594908	52595108	+	952.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198977, intron 1 of 13)	intron (NM_001198977, intron 1 of 13)	-1874.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	19.0	51.0	10.5	68.5	62.0	18.5	6.0	9.0
Merged-chr14-62218250-4	chr14	62218152	62218352	+	924.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74727.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	18.5	18.5	23.5	183.5	29.0	18.5	10.5	14.5
Merged-chr6-97806914-4	chr6	97806797	97806997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113198)	promoter-TSS (NM_001113198)	-161.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	106.5	132.0	116.0	1653.0	210.0	96.0	109.5	76.0
Merged-chr14-51913463-3	chr14	51913366	51913566	+	912.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145959)	promoter-TSS (NM_001145959)	22.0	NM_001145959	29811.0	Mm.26722	NM_013864	ENSMUSG00000004558	Ndrg2	AI182517|AU040374|Ndr2|SYLD	N-myc downstream regulated gene 2	protein-coding	15.0	8.0	11.0	160.5	17.5	7.0	10.0	12.5
Merged-chr12-110830752-2	chr12	110830652	110830852	+	839.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011973, intron 2 of 11)	(GGA)n|Simple_repeat|Simple_repeat	10187.0	NM_011973	26448.0	Mm.140948	NM_011973	ENSMUSG00000056458	Mok	RAGE1|Rage|Stk30	MOK protein kinase	protein-coding	5.5	6.0	9.0	23.0	14.0	4.0	5.0	8.0
Merged-chr3-65396983-4	chr3	65396887	65397087	+	831.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4434.0	NM_026155	67437.0	Mm.232728	NM_026155	ENSMUSG00000027828	Ssr3	0610038P07Rik|AL022999|AU022074|AW553833|TRAPG	signal sequence receptor, gamma	protein-coding	7.5	8.0	7.5	166.0	42.0	6.0	16.5	8.0
Merged-chr12-86242825-4	chr12	86242719	86242919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027405, intron 1 of 9)	intron (NM_027405, intron 1 of 9)	961.0	NM_001324488	70373.0	Mm.252967	NM_027405	ENSMUSG00000021254	Gpatch2l	1700020O03Rik|4732487G21Rik|A630090I05Rik|Kiaa1152	G patch domain containing 2 like	protein-coding	54.0	100.0	36.0	514.5	128.5	41.0	37.0	53.0
Merged-chr15-61998997-4	chr15	61998914	61999114	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13673.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	33.0	63.0	57.0	797.5	64.0	48.5	20.5	49.0
Merged-chr6-89257066-4	chr6	89256971	89257171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28654.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	70.5	90.5	61.0	928.5	165.0	77.5	67.5	137.5
Merged-chr14-105397665-4	chr14	105397557	105397757	+	956.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29902.0	NR_045859	71362.0	Mm.410781	NR_045859	ENSMUSG00000115548	5430440P10Rik	-	RIKEN cDNA 5430440P10 gene	ncRNA	7.5	12.5	8.0	218.0	47.0	8.0	22.0	18.0
Merged-chr10-96732202-4	chr10	96732086	96732286	+	946.3916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	115185.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	17.5	15.0	12.5	328.0	60.5	10.5	20.0	20.5
Merged-chr11-78536299-4	chr11	78536207	78536407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159392)	promoter-TSS (NM_001159392)	-47.0	NM_009395	21927.0	Mm.386774	NM_009395	ENSMUSG00000017615	Tnfaip1	Bacurd2|Edp-1|Edp1|Tnfip1	tumor necrosis factor, alpha-induced protein 1 (endothelial)	protein-coding	215.5	373.5	212.5	2699.0	529.0	226.5	167.0	212.5
Merged-chr1-152761977-4	chr1	152761871	152762071	+	913.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	4334.0	NM_001346119	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	19.0	14.0	7.0	199.5	36.5	10.0	24.0	14.5
Merged-chr8-80949440-2	chr8	80949333	80949533	+	832.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	65473.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	14.0	5.0	8.0	39.5	15.0	13.0	5.0	12.0
Merged-chr8-84981104-4	chr8	84980984	84981184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2336.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	165.5	222.0	241.5	1889.5	359.5	130.5	140.0	157.0
Merged-chr10-70261160-1	chr10	70261060	70261260	+	699.0	f0_balb.idr	intron (NM_025807, intron 2 of 5)	intron (NM_025807, intron 2 of 5)	15884.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	6.5	12.0	8.5	142.0	1.0	2.0	3.5	3.0
Merged-chr4-141659403-3	chr4	141659308	141659508	+	706.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	4707.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	4.0	12.5	3.5	67.5	8.5	9.0	5.0	5.5
Merged-chr9-7250816-4	chr9	7250738	7250938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21676.0	NM_008607	17386.0	Mm.5022	NM_008607	ENSMUSG00000050578	Mmp13	Clg|MMP-13|Mmp1	matrix metallopeptidase 13	protein-coding	48.0	47.0	60.0	845.0	78.0	32.5	46.5	32.5
Merged-chr1-34850956-6	chr1	34850831	34851031	+	970.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145516, intron 1 of 7)	intron (NM_145516, intron 1 of 7)	942.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	9.0	4.5	10.5	93.5	20.0	13.0	13.5	24.0
Merged-chr11-90492279-4	chr11	90492185	90492385	+	921.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011505, intron 17 of 17)	intron (NM_011505, intron 17 of 17)	-101368.0	NM_172563	217082.0	Mm.158903	NM_172563	ENSMUSG00000003949	Hlf	E230015K02Rik	hepatic leukemia factor	protein-coding	6.5	16.5	6.5	210.5	48.5	15.5	21.5	17.0
Merged-chr3-87408370-4	chr3	87408261	87408461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27421.0	NM_001113238	329693.0	Mm.331122	NM_183222	ENSMUSG00000048031	Fcrl5	Fcrh3|mBXMH2	Fc receptor-like 5	protein-coding	35.5	44.5	29.5	397.5	109.0	22.0	28.0	31.0
Merged-chr2-39011466-4	chr2	39011355	39011555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028809, intron 1 of 3)	intron (NM_028809, intron 1 of 3)	3316.0	NM_028809	74192.0	Mm.38155	NM_028809	ENSMUSG00000026755	Arpc5l	2010015J01Rik|AI852867|ARC16-2|AW555592|AW742746	actin related protein 2/3 complex, subunit 5-like	protein-coding	30.5	55.0	40.0	817.5	93.0	27.0	48.0	37.5
Merged-chr7-37490507-4	chr7	37490409	37490609	+	925.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172385, intron 5 of 5)	intron (NM_172385, intron 5 of 5)	279243.0	NM_172385	243937.0	Mm.322505	NM_172385	ENSMUSG00000043456	Zfp536	9630010P11Rik|Znf536|mKIAA0390	zinc finger protein 536	protein-coding	12.0	32.5	14.0	258.0	69.0	11.5	12.0	19.0
Merged-chr8-90840255-4	chr8	90840143	90840343	+	988.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 1 of 39)	MamRep605|LTR?|LTR?	11408.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	20.0	25.0	20.5	344.0	26.5	13.0	25.5	14.0
Merged-chr15-58616197-3	chr15	58616091	58616291	+	924.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	200723.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	18.0	6.0	7.0	223.5	11.5	4.0	2.5	4.5
Merged-chr1-153434009-4	chr1	153433912	153434112	+	914.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033162, intron 3 of 9)	MTD|LTR|ERVL-MaLR	8803.0	NM_001033162	71836.0	Mm.49460	NM_001033162	ENSMUSG00000042708	Shcbp1l	1700012A16Rik	Shc SH2-domain binding protein 1-like	protein-coding	16.0	22.5	10.0	239.5	26.0	11.0	12.5	21.0
Merged-chr8-14883716-3	chr8	14883633	14883833	+	815.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4803.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	2.0	0.0	1.0	0.0	26.0	5.5	5.5	10.0
Merged-chr11-96303323-4	chr11	96303206	96303406	+	928.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008268)	promoter-TSS (NM_008268)	-206.0	NM_008268	15413.0	Mm.207	NM_008268	ENSMUSG00000038700	Hoxb5	AI385717|Hox-2.1	homeobox B5	protein-coding	8.5	19.5	18.0	168.0	37.0	13.5	5.0	8.0
Merged-chr3-108061546-4	chr3	108061456	108061656	+	960.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16697.0	NM_001160411	14865.0	Mm.31203	NM_026764	ENSMUSG00000027890	Gstm4	1110004G14Rik|GSTM7-7|Gstb-4|Gstb4	glutathione S-transferase, mu 4	protein-coding	8.0	10.0	12.0	138.5	29.0	16.0	10.5	16.0
Merged-chr15-94592258-7	chr15	94592178	94592378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2454.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	20.5	30.5	25.0	266.5	43.5	9.0	16.5	39.0
Merged-chr16-89774455-3	chr16	89774425	89774625	+	928.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43827.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	13.0	12.0	4.5	165.0	32.5	13.5	4.5	10.5
Merged-chr5-24603135-4	chr5	24603023	24603223	+	830.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1121.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	17.5	14.0	26.5	231.5	20.0	8.0	10.0	11.5
Merged-chr3-9713716-4	chr3	9713621	9713821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 2 of 7)	intron (NM_053182, intron 2 of 7)	-103636.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	34.5	39.5	56.0	1027.0	90.5	19.5	46.0	37.0
Merged-chr19-56742170-4	chr19	56742016	56742216	+	906.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19744.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	6.0	19.5	7.5	151.5	21.5	5.5	2.5	7.5
Merged-chr11-106999059-2	chr11	106998959	106999159	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010655, intron 1 of 10)	intron (NM_010655, intron 1 of 10)	466.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	3.0	9.5	8.5	49.0	17.0	10.0	5.5	6.5
Merged-chr2-33371009-3	chr2	33370905	33371105	+	978.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290570, intron 1 of 16)	(CCA)n|Simple_repeat|Simple_repeat	489.0	NM_001290570	241308.0	Mm.274249	NM_175211	ENSMUSG00000038831	Ralgps1	5830418G11Rik|AI853783|AI854138|RALGEF2|RALGPS1A|RalGEF 2|mKIAA0351	Ral GEF with PH domain and SH3 binding motif 1	protein-coding	7.5	16.0	14.0	118.0	47.5	11.5	8.0	23.0
Merged-chr6-136742984-3	chr6	136742894	136743094	+	828.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 10 of 25)	intron (NM_145067, intron 10 of 25)	38748.0	NM_145067	14917.0	Mm.222729	NM_145067	ENSMUSG00000042638	Gucy2c	AI893437|GC-C|Gcc	guanylate cyclase 2c	protein-coding	7.0	11.5	18.0	134.0	20.0	2.5	10.5	7.0
Merged-chr5-108270674-4	chr5	108270522	108270722	+	818.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026106, intron 1 of 2)	intron (NM_026106, intron 1 of 2)	1725.0	NM_026106	13486.0	Mm.303534	NM_026106	ENSMUSG00000029265	Dr1	1700121L09Rik|Dr1l|NC2|NC2beta	down-regulator of transcription 1	protein-coding	4.5	7.0	4.5	54.5	10.5	7.5	6.5	5.5
Merged-chr4-133609906-4	chr4	133609810	133610010	+	815.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 7 of 7)	intron (NM_001017968, intron 7 of 7)	-7742.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	6.0	13.5	10.5	82.0	15.5	22.0	14.0	10.5
Merged-chr8-117224817-4	chr8	117224741	117224941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32178.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	31.5	28.0	25.5	356.5	58.0	23.0	36.0	23.0
Merged-chr2-46443311-4	chr2	46443211	46443411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	746706.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	44.5	32.5	57.0	578.0	90.0	21.0	31.0	25.5
Merged-chr11-87426447-4	chr11	87426375	87426575	+	963.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031386, intron 1 of 30)	intron (NM_031386, intron 1 of 30)	-1116.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	22.5	27.0	17.5	143.5	67.0	31.0	19.0	21.5
Merged-chr8-22498128-3	chr8	22498038	22498238	+	980.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011394, intron 1 of 10)	intron (NM_011394, intron 1 of 10)	-21259.0	NM_001146117	102032.0	Mm.378231	NM_001012667	ENSMUSG00000031534	Smim19	AI316807|BG694986|EST-c39	small integral membrane protein 19	protein-coding	2.0	0.0	1.0	27.5	66.0	17.0	8.0	17.5
Merged-chr2-155592762-4	chr2	155592664	155592864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008180)	promoter-TSS (NM_008180)	46.0	NM_001291111	14854.0	Mm.252316	NM_008180	ENSMUSG00000027610	Gss	AI314904|GS-A/GS-B|GSH-S	glutathione synthetase	protein-coding	90.5	152.0	68.0	1024.0	209.5	115.5	105.0	102.0
Merged-chr6-82751195-4	chr6	82751097	82751297	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 2 of 17)	intron (NM_013820, intron 2 of 17)	23257.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	35.0	32.5	29.0	440.5	75.0	15.5	18.0	28.0
Merged-chr17-47737034-4	chr17	47736932	47737132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161723)	promoter-TSS (NM_001161723)	-5.0	NM_001161722	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	81.0	100.5	56.5	854.5	198.0	70.5	98.5	74.0
Merged-chr11-79223610-4	chr11	79223507	79223707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19417.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	96.0	155.0	69.0	951.0	283.5	87.0	94.0	92.5
Merged-chr8-66386241-4	chr8	66386170	66386370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166375)	promoter-TSS (NM_001166375)	-31.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	51.5	67.0	62.5	847.0	90.5	48.0	60.5	39.5
Merged-chr4-124696036-4	chr4	124695970	124696170	+	958.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2516.0	NM_026031	67205.0	Mm.259121	NM_026031	ENSMUSG00000028907	Utp11	2700082D03Rik|CGI-94|Cgi94|Utp11l	UTP11 small subunit processome component	protein-coding	14.0	17.5	16.5	117.5	24.0	10.0	13.0	19.5
Merged-chr3-115712982-4	chr3	115712889	115713089	+	941.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007901, exon 2 of 2)	5' UTR (NM_007901, exon 2 of 2)	2066.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	8.5	9.5	9.5	157.0	31.5	8.5	20.0	4.5
Merged-chr17-12892295-4	chr17	12892212	12892412	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034866, intron 14 of 18)	intron (NM_001034866, intron 14 of 18)	16278.0	NM_030726	80978.0	Mm.160368	NM_030726	ENSMUSG00000059408	Mrgprh	Gpr90|Mgrb|MrgH	MAS-related GPR, member H	protein-coding	13.5	12.0	26.5	317.5	27.0	8.0	9.5	9.5
Merged-chr6-149040300-2	chr6	149040200	149040400	+	959.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_177192, intron 6 of 20)	intron (NM_177192, intron 6 of 20)	61380.0	NM_177192	320560.0	Mm.426874	NM_177192	ENSMUSG00000030313	Dennd5b	9330160C06Rik|AI852444|D030011O10Rik|Gm17524	DENN/MADD domain containing 5B	protein-coding	4.0	3.0	6.0	52.0	13.5	5.5	4.5	12.0
Merged-chr9-116160293-4	chr9	116160243	116160443	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	15020.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	16.5	13.0	9.5	310.5	27.5	10.0	6.0	17.5
Merged-chr6-31191184-4	chr6	31191084	31191284	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 1 of 2)	LTR33C|LTR|ERVL	27290.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	9.5	17.0	4.0	196.5	37.5	17.0	11.5	16.0
Merged-chr11-3187719-8	chr11	3187572	3187772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 2 of 32)	B1_Mus1|SINE|Alu	5791.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	19.0	12.0	28.5	109.5	53.5	18.5	16.0	39.0
Merged-chr8-79492047-1	chr8	79491947	79492147	+	898.0	f0_balb.idr	Intergenic	Intergenic	-92579.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	8.0	3.0	13.5	141.5	20.5	8.0	10.5	4.5
Merged-chr9-105033866-1	chr9	105033766	105033966	+	714.0	f0_c57.idr	3' UTR (NM_001357439, exon 16 of 16)	3' UTR (NM_001357439, exon 16 of 16)	-19402.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	17.0	27.5	18.0	140.5	25.5	6.0	15.0	10.0
Merged-chr10-34194700-4	chr10	34194616	34194816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	12835.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	14.0	51.5	26.5	364.0	66.0	36.5	31.5	30.0
Merged-chr10-118103451-4	chr10	118103335	118103535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38352.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	298.0	470.5	347.5	4395.0	697.5	236.0	335.0	260.0
Merged-chr11-84351456-4	chr11	84351366	84351566	+	967.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133360, intron 43 of 53)	intron (NM_133360, intron 43 of 53)	156028.0	NM_133360	107476.0	Mm.31374	NM_133360	ENSMUSG00000020532	Acaca	A530025K05Rik|Acac|Acc1|Gm738	acetyl-Coenzyme A carboxylase alpha	protein-coding	13.5	28.5	16.0	262.0	28.0	12.5	4.5	17.5
Merged-chr2-102968500-4	chr2	102968402	102968602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66837.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	160.0	290.5	170.0	2704.5	291.0	133.5	151.5	107.5
Merged-chr14-64327636-4	chr14	64327474	64327674	+	970.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 1 of 4)	MLT1F1|LTR|ERVL-MaLR	89382.0	NM_001253716	110265.0	Mm.26713	NM_026322	ENSMUSG00000054733	Msra	2310045J23Rik|6530413P12Rik|MSR-A	methionine sulfoxide reductase A	protein-coding	28.0	56.0	21.5	457.0	78.0	22.5	39.0	44.0
Merged-chr7-144937680-4	chr7	144937570	144937770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007631, intron 2 of 4)	intron (NM_007631, intron 2 of 4)	2255.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	33.0	50.0	25.5	370.5	117.5	30.0	57.0	48.0
Merged-chr5-143434618-4	chr5	143434495	143434695	+	711.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29898.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	3.0	9.5	12.0	92.0	30.0	4.5	11.5	10.5
Merged-chr2-68796690-2	chr2	68796592	68796792	+	830.333374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-64749.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	16.5	13.5	9.5	165.0	32.0	6.0	8.0	10.0
Merged-chr13-23772772-3	chr13	23772676	23772876	+	814.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9108.0	NM_030609	80838.0	Mm.480242	NM_030609	ENSMUSG00000049539	Hist1h1a	H1.1|H1a|H1f1|H1var3	histone cluster 1, H1a	protein-coding	12.5	15.5	11.0	132.0	11.5	7.5	7.0	14.0
Merged-chr3-126652563-3	chr3	126652464	126652664	+	643.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	55613.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	8.0	24.0	5.0	68.0	25.0	14.0	11.5	12.0
Merged-chr17-6654311-2	chr17	6654211	6654411	+	872.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001166630, intron 1 of 4).2	intron (NM_001166630, intron 1 of 4).2	1520.0	NM_001166630	100040563.0	Mm.457381	NM_001166630	ENSMUSG00000000579	Dynlt1c	100040603|Dynlt1d	dynein light chain Tctex-type 1C	protein-coding	4.0	6.0	1.0	55.0	14.5	7.5	5.0	9.5
Merged-chr4-83417665-4	chr4	83417558	83417758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152448)	promoter-TSS (NR_152448)	-66.0	NR_152449	77634.0	Mm.271985	NM_029949	ENSMUSG00000028483	Snapc3	1810020H02Rik|4930558A07Rik|5031401C21Rik|AI414457|E030018J20Rik	small nuclear RNA activating complex, polypeptide 3	protein-coding	180.0	237.5	187.5	3933.0	397.0	77.5	193.5	122.0
Merged-chr9-89179584-4	chr9	89179482	89179682	+	964.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19691.0	NM_007534	12045.0	Mm.479217	NM_007534	ENSMUSG00000089929	Bcl2a1b	A1-b	B cell leukemia/lymphoma 2 related protein A1b	protein-coding	21.5	32.0	28.5	122.0	47.5	12.5	12.5	3.0
Merged-chr6-146438236-3	chr6	146438157	146438357	+	952.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 2 of 56)	intron (NM_019923, intron 2 of 56)	63966.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	0.5	3.0	10.0	46.0	11.5	5.0	21.0	15.0
Merged-chr19-46991324-4	chr19	46991205	46991405	+	905.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	intron (NM_001164363, intron 1 of 17)	-21738.0	NM_001164365	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	9.0	28.5	8.0	230.5	36.0	9.5	16.5	14.5
Merged-chr5-135934007-4	chr5	135933901	135934101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018871, intron 1 of 1)	intron (NM_018871, intron 1 of 1)	640.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	36.5	45.5	18.0	421.5	86.5	37.0	27.5	43.5
Merged-chr17-4908397-4	chr17	4908302	4908502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-86672.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	74.0	107.0	58.0	1003.5	190.0	72.5	74.0	43.5
Merged-chr8-124924480-1	chr8	124924380	124924580	+	935.3333130000001	f0_balb.idr	intron (NM_053207, intron 1 of 4)	MIRc|SINE|MIR	24774.0	NM_053207	112405.0	Mm.140619	NM_053207	ENSMUSG00000031987	Egln1	AI503754|C1orf12|HIF-PH2|HPH-2|Hif-p4h-2|ORF13|Phd2|SM-20	egl-9 family hypoxia-inducible factor 1	protein-coding	6.5	20.0	15.5	190.5	9.0	0.0	0.0	3.5
Merged-chr6-59174181-4	chr6	59174056	59174256	+	963.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-34714.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	19.5	16.0	25.5	482.5	26.0	5.0	20.0	14.0
Merged-chr11-85691482-4	chr11	85691390	85691590	+	979.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	28254.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	31.0	34.0	45.5	831.5	44.5	20.0	14.0	21.0
Merged-chr8-94711513-4	chr8	94711423	94711623	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15281.0	NM_026385	67801.0	Mm.279977	NM_026385	ENSMUSG00000031775	Pllp	0610010I06Rik|AV001002|Plapi|Tm4sf11	plasma membrane proteolipid	protein-coding	15.5	28.0	17.0	278.5	82.5	38.0	64.5	32.0
Merged-chr1-162625505-4	chr1	162625357	162625557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13693.0	NM_010865	17926.0	Mm.10694	NM_010865	ENSMUSG00000026697	Myoc	AI957332|GLC1A|TIGR	myocilin	protein-coding	54.0	78.0	59.5	1000.5	158.5	46.5	66.0	64.0
Merged-chr5-32728956-1	chr5	32728856	32729056	+	894.0	f0_balb.idr	Intergenic	Intergenic	17386.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	23.5	10.0	8.5	82.0	4.0	0.5	0.0	0.5
Merged-chr2-73487755-3	chr2	73487631	73487831	+	936.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-1978.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	5.0	19.0	5.0	106.5	23.0	6.0	4.0	4.5
Merged-chr13-113600855-4	chr13	113600761	113600961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	17703.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	90.0	214.5	109.5	1157.0	298.0	110.0	102.5	131.0
Merged-chr10-98914415-4	chr10	98914288	98914488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026482)	promoter-TSS (NM_026482)	-254.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	357.0	475.0	347.5	4212.0	972.0	402.5	469.0	309.0
Merged-chr11-116869416-3	chr11	116869319	116869519	+	884.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178620, intron 10 of 12)	intron (NM_178620, intron 10 of 12)	15419.0	NM_001361586	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	7.0	16.0	3.5	92.5	15.5	7.0	5.5	11.0
Merged-chr16-38712154-4	chr16	38712092	38712292	+	834.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	843.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	6.0	5.0	4.0	79.5	21.0	9.0	10.0	23.5
Merged-chr11-8847853-4	chr11	8847725	8847925	+	981.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163366.0	NM_001303610	15574.0	Mm.42201	NM_008316	ENSMUSG00000020413	Hus1	-	HUS1 checkpoint clamp component	protein-coding	25.5	24.0	41.0	640.5	33.5	16.0	22.5	31.5
Merged-chr4-101689821-3	chr4	101689724	101689924	+	714.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27583.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	12.0	8.0	6.0	73.0	14.0	4.0	8.0	4.5
Merged-chr11-120064187-3	chr11	120064120	120064320	+	775.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009734)	TTS (NM_009734)	-17075.0	NM_007377	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	5.0	6.0	5.0	98.0	21.5	5.5	7.0	6.5
Merged-chr9-83554001-4	chr9	83553894	83554094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	5656.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	34.5	130.0	63.0	338.0	154.0	44.0	37.0	20.0
Merged-chr1-100180244-2	chr1	100180147	100180347	+	956.833374	f0_balb.idr|f0_c57.idr	intron (NM_172851, intron 10 of 23)	L1Md_F2|LINE|L1	407482.0	NM_172851	241175.0	Mm.251301	NM_172851	ENSMUSG00000067028	Cntnap5b	C230078M14Rik|Caspr5-2	contactin associated protein-like 5B	protein-coding	36.5	55.5	60.0	26.5	59.5	41.5	31.0	102.5
Merged-chr5-43235314-4	chr5	43235210	43235410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028417)	promoter-TSS (NR_028417)	44.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	25.5	39.0	39.5	462.5	46.5	17.5	39.5	31.0
Merged-chr15-62108312-1	chr15	62108212	62108412	+	901.0	f0_balb.idr	intron (NR_132746, intron 2 of 6)	intron (NR_132746, intron 2 of 6)	69055.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	9.0	6.5	5.5	163.5	7.0	8.0	2.5	13.0
Merged-chr4-40018372-1	chr4	40018272	40018472	+	797.0	f0_balb.idr	Intergenic	Intergenic	-124893.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	4.5	4.5	7.5	148.5	3.5	2.0	0.5	3.0
Merged-chr16-91793796-4	chr16	91793695	91793895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 5 of 15)	intron (NM_001110276, intron 5 of 15)	64424.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	36.5	50.5	62.0	499.5	126.0	39.5	49.0	45.5
Merged-chr19-3384583-3	chr19	3384491	3384691	+	939.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013495, exon 19 of 19)	3' UTR (NM_013495, exon 19 of 19)	-4266.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	12.0	11.5	12.5	220.0	9.0	18.0	11.5	8.0
Merged-chr5-43883960-3	chr5	43883833	43884033	+	782.122253	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	MTD|LTR|ERVL-MaLR	15124.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	5.5	8.5	6.0	103.0	20.5	6.0	3.5	14.0
Merged-chr2-166083631-4	chr2	166083530	166083730	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252579, intron 10 of 20)	intron (NM_001252579, intron 10 of 20)	71655.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	13.5	16.5	17.5	274.0	29.5	4.0	12.0	15.5
Merged-chr13-86020474-1	chr13	86020374	86020574	+	664.333313	f0_balb.idr	Intergenic	Lx|LINE|L1	26321.0	NM_007749	12867.0	Mm.378898	NM_007749	ENSMUSG00000017778	Cox7c	COXVIIc|Cox7c1	cytochrome c oxidase subunit VIIc	protein-coding	9.0	7.0	11.5	234.0	1.5	0.0	1.5	0.0
Merged-chr5-72914255-4	chr5	72914137	72914337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113423)	promoter-TSS (NM_001113423)	-125.0	NM_001113423	75991.0	Mm.121285	NM_153567	ENSMUSG00000036087	Slain2	5033405K12Rik|8030444K12Rik|AI596370	SLAIN motif family, member 2	protein-coding	220.5	455.5	284.0	3928.5	679.5	351.0	407.0	305.5
Merged-chr12-112620649-4	chr12	112620575	112620775	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 1 of 12)	intron (NM_007421, intron 1 of 12)	628.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	11.0	15.0	10.0	124.0	30.5	7.5	10.0	9.5
Merged-chr16-35770343-4	chr16	35770229	35770429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175111)	promoter-TSS (NM_175111)	-57.0	NR_152314	66667.0	Mm.45272	NM_175111	ENSMUSG00000022849	Hspbap1	3830421G21Rik	Hspb associated protein 1	protein-coding	55.5	62.5	31.0	818.0	213.5	65.5	72.0	80.0
Merged-chr12-3799756-4	chr12	3799641	3799841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7239.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	67.5	112.0	68.5	1188.5	146.5	54.5	83.0	77.0
Merged-chr7-79466309-4	chr7	79466213	79466413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017462)	promoter-TSS (NM_017462)	-40.0	NM_017462	18975.0	Mm.3616	NM_017462	ENSMUSG00000039176	Polg	AA409516|PolgA	polymerase (DNA directed), gamma	protein-coding	190.5	333.0	205.5	2835.5	465.5	211.0	236.0	201.5
Merged-chr9-107634160-4	chr9	107634065	107634265	+	768.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008138, intron 1 of 8)	intron (NM_008138, intron 1 of 8)	1177.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	5.0	6.5	8.0	93.0	16.0	10.5	12.0	13.5
Merged-chr9-95563424-4	chr9	95563330	95563530	+	860.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3613.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	3.5	10.0	26.5	286.0	26.5	5.5	12.0	14.0
Merged-chr7-44823594-2	chr7	44823505	44823705	+	586.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001171024, intron 1 of 8)	intron (NM_001171024, intron 1 of 8)	-6947.0	NR_033136	107503.0	Mm.389890	NM_030693	ENSMUSG00000038539	Atf5	AFTA|Atf7|Atfx|ODA-10	activating transcription factor 5	protein-coding	0.0	3.0	0.0	7.0	5.5	5.0	7.0	7.0
Merged-chr19-55660341-4	chr19	55660235	55660435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	41869.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	224.5	306.0	208.5	2617.0	456.5	179.5	217.5	144.5
Merged-chr13-91505638-3	chr13	91505538	91505738	+	934.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 1 of 15)	intron (NM_001360776, intron 1 of 15)	44541.0	NM_024186	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	14.5	12.0	9.0	137.0	6.5	1.0	9.0	7.5
Merged-chr3-59220187-3	chr3	59220089	59220289	+	855.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357007, intron 1 of 2)	intron (NM_001357007, intron 1 of 2)	-9307.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	8.5	6.5	9.0	105.5	2.5	2.0	4.0	1.0
Merged-chr10-111977793-4	chr10	111977671	111977871	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178610, intron 5 of 9)	intron (NM_178610, intron 5 of 9)	5076.0	NM_178610	52705.0	Mm.34606	NM_178610	ENSMUSG00000063334	Krr1	2610511F02Rik|AI255219|AI428520|D10Ertd773e|Hrb2	KRR1, small subunit (SSU) processome component, homolog (yeast)	protein-coding	28.5	24.5	14.5	377.0	34.0	8.0	20.0	21.0
Merged-chr13-45458237-3	chr13	45458134	45458334	+	711.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	-49210.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	7.5	15.0	5.0	120.0	5.5	1.0	1.0	5.5
Merged-chr4-63686288-4	chr4	63686172	63686372	+	674.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51851.0	NR_151544	102632940.0	Mm.399154	NR_151544	ENSMUSG00000086817	Gm11482	-	predicted gene 11482	ncRNA	7.0	9.5	5.0	123.5	12.0	2.0	12.0	9.0
Merged-chr13-20207259-4	chr13	20207151	20207351	+	714.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 2 of 21)	intron (NM_080288, intron 2 of 21)	116744.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	9.0	13.5	8.5	232.5	26.0	11.5	11.5	10.0
Merged-chr1-37427411-4	chr1	37427306	37427506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198006, intron 2 of 2)	GA-rich|Low_complexity|Low_complexity	2697.0	NM_198006	76178.0	Mm.28085	NM_198006	ENSMUSG00000026112	Coa5	1700001A24Rik|6330578E17Rik|Pet191	cytochrome C oxidase assembly factor 5	protein-coding	21.5	23.5	28.5	259.0	60.5	28.5	21.5	36.0
Merged-chr4-86886300-4	chr4	86886183	86886383	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290543, intron 2 of 5)	intron (NM_001290543, intron 2 of 5)	11869.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	20.0	12.5	20.5	506.5	44.5	13.5	13.5	15.0
Merged-chr6-119883340-3	chr6	119883240	119883440	+	945.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19358.0	NM_001166382	19365.0	Mm.149	NM_011236	ENSMUSG00000030166	Rad52	Rad52yh	RAD52 homolog, DNA repair protein	protein-coding	4.5	7.5	10.5	159.5	13.0	4.0	4.0	1.5
Merged-chr6-88030620-4	chr6	88030519	88030719	+	979.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293652, intron 1 of 7)	intron (NM_001293652, intron 1 of 7)	-10824.0	NM_001293654	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	32.0	21.5	14.5	377.0	78.0	24.5	18.0	40.0
Merged-chr3-88242705-4	chr3	88242628	88242828	+	832.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021375)	TTS (NM_021375)	11956.0	NM_021375	58176.0	Mm.103777	NM_021375	ENSMUSG00000104445	Rhbg	-	Rhesus blood group-associated B glycoprotein	protein-coding	9.0	17.5	4.5	102.5	37.5	9.5	11.0	11.5
Merged-chr6-92437362-3	chr6	92437236	92437436	+	938.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134461, intron 2 of 7)	intron (NM_001134461, intron 2 of 7)	44056.0	NM_001134460	243548.0	Mm.248820	NM_001081146	ENSMUSG00000030020	Prickle2	6230400G14Rik|6720451F06Rik|mpk2	prickle planar cell polarity protein 2	protein-coding	1.0	1.0	5.0	55.0	31.0	8.5	13.5	21.0
Merged-chr11-105460087-4	chr11	105459990	105460190	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3355.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	21.5	18.5	22.0	391.5	69.5	12.5	27.0	36.0
Merged-chr1-153751818-4	chr1	153751627	153751827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011882, intron 1 of 8)	ORR1A2|LTR|ERVL-MaLR	2301.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	54.0	43.0	33.5	663.5	66.0	19.0	33.0	41.0
Merged-chr18-37955014-4	chr18	37954892	37955092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153793)	promoter-TSS (NM_153793)	-4.0	NM_010411	15183.0	Mm.20521	NM_010411	ENSMUSG00000024454	Hdac3	AW537363	histone deacetylase 3	protein-coding	147.0	104.0	98.0	1295.5	225.0	114.0	111.0	95.5
Merged-chr8-120576494-3	chr8	120576387	120576587	+	743.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198671, exon 14 of 16)	exon (NM_198671, exon 14 of 16)	12588.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	14.5	19.5	13.0	126.5	9.5	5.5	6.0	6.5
Merged-chr11-83271681-4	chr11	83271592	83271792	+	973.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15034.0	NM_001166028	237890.0	Mm.297670	NM_001166028	ENSMUSG00000082101	Slfn14	Gm20|Slfn14-ps	schlafen 14	protein-coding	22.0	63.0	14.0	145.5	57.0	22.0	25.5	14.5
Merged-chr19-47405730-4	chr19	47405638	47405838	+	762.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 2 of 14)	G-rich|Low_complexity|Low_complexity	58673.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	14.0	16.5	22.5	206.5	18.5	6.5	2.0	14.5
Merged-chr10-12573833-4	chr10	12573732	12573932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 50 of 73)	intron (NM_011682, intron 50 of 73)	287903.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	51.0	77.0	45.0	770.0	136.0	62.0	58.0	32.0
Merged-chr2-139919986-4	chr2	139919871	139920071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110352, intron 9 of 12)	intron (NR_110352, intron 9 of 12)	146834.0	NM_001159640	75812.0	Mm.293449	NM_175225	ENSMUSG00000039033	Tasp1	4930485D02Rik|AW986064	taspase, threonine aspartase 1	protein-coding	79.0	159.0	92.5	1091.5	257.5	125.5	91.0	77.0
Merged-chr1-180849055-4	chr1	180848969	180849169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2082.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	179.5	290.5	138.0	2300.0	381.5	112.5	166.0	131.5
Merged-chr7-46845801-4	chr7	46845711	46845911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102727)	promoter-TSS (NR_102727)	7.0	NR_102727	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	131.0	219.0	162.0	2186.0	359.0	138.5	188.0	136.5
Merged-chr13-111788411-4	chr13	111788374	111788574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	20519.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	25.5	30.5	44.5	384.0	47.0	14.5	26.5	14.5
Merged-chr17-80801511-4	chr17	80801404	80801604	+	890.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73479.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	5.5	11.5	8.0	154.0	25.5	14.5	8.5	18.0
Merged-chr5-125406657-4	chr5	125406557	125406757	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16640.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	33.0	35.0	20.0	306.5	30.5	19.5	30.5	22.5
Merged-chr19-40659699-4	chr19	40659610	40659810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009848)	promoter-TSS (NM_009848)	-60.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	77.5	84.0	92.0	1297.0	171.0	56.5	78.5	62.0
Merged-chr10-78096261-4	chr10	78096172	78096372	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26904.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	30.0	25.5	25.5	407.0	68.5	14.5	18.5	30.5
Merged-chr18-68234774-4	chr18	68234668	68234868	+	892.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357444, intron 1 of 3)	intron (NM_001357444, intron 1 of 3)	6822.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	10.5	19.5	19.0	423.5	21.0	4.5	15.5	12.5
Merged-chr15-91192055-4	chr15	91191949	91192149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358967)	promoter-TSS (NM_001358967)	-42.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	70.0	60.0	51.0	961.0	104.0	49.0	56.0	39.0
Merged-chr17-80798542-2	chr17	80798442	80798642	+	866.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70517.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	5.0	5.5	3.0	38.5	16.5	9.5	7.0	10.5
Merged-chr13-21941082-4	chr13	21940982	21941182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4012.0	NM_183014	193452.0	Mm.187446	NM_183014	ENSMUSG00000006720	Zfp184	4930500C15Rik	zinc finger protein 184 (Kruppel-like)	protein-coding	57.0	57.5	48.0	800.5	83.5	36.5	34.0	28.5
Merged-chr2-167345200-4	chr2	167345080	167345280	+	780.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	3998.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	16.0	16.5	10.5	64.5	20.5	8.0	5.5	9.0
Merged-chr11-57801992-1	chr11	57801892	57802092	+	739.666687	f0_balb.idr	promoter-TSS (NR_131042)	promoter-TSS (NR_131042)	355.0	NM_001081168	50724.0	Mm.340083	NM_001081168	ENSMUSG00000020519	Sap30l	2310079P12Rik|AF006998|L55	SAP30-like	protein-coding	10.0	14.0	15.5	135.5	14.0	5.5	7.0	16.0
Merged-chr3-132085332-3	chr3	132085227	132085427	+	821.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020265)	promoter-TSS (NM_020265)	35.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	4.0	6.0	14.0	84.5	21.0	6.0	8.5	4.5
Merged-chr12-102392288-6	chr12	102392215	102392415	+	887.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47498.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	6.5	2.5	6.0	124.0	19.5	6.0	5.0	11.5
Merged-chr15-79063035-4	chr15	79062948	79063148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144849)	promoter-TSS (NM_144849)	-189.0	NM_144849	223690.0	Mm.24262	NM_144849	ENSMUSG00000033055	Ankrd54	C730048E16Rik|EST1068184|EST475269|Liar	ankyrin repeat domain 54	protein-coding	292.0	499.0	239.5	4171.5	745.0	340.5	340.5	319.5
Merged-chr4-46344529-4	chr4	46344531	46344731	+	843.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183298, exon 1 of 1)	exon (NM_183298, exon 1 of 1)	437.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	5.0	10.5	5.5	103.5	12.5	4.5	7.5	6.0
Merged-chr3-89200023-4	chr3	89199926	89200126	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2899.0	NM_001077411	14466.0	Mm.5031	NM_008094	ENSMUSG00000028048	Gba	GBA1|GC|GCase|GLUC|betaGC	glucosidase, beta, acid	protein-coding	17.5	24.0	18.5	340.5	44.5	23.0	20.5	16.0
Merged-chr10-7681107-4	chr10	7681022	7681222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033219)	promoter-TSS (NR_033219)	13.0	NM_001358649	18537.0	Mm.258431	NM_008786	ENSMUSG00000019795	Pcmt1	C79501|PIMT	protein-L-isoaspartate (D-aspartate) O-methyltransferase 1	protein-coding	49.0	78.5	115.5	832.5	141.0	47.5	57.0	40.5
Merged-chr5-35728506-4	chr5	35728429	35728629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359895, intron 1 of 17)	intron (NM_001359895, intron 1 of 17)	747.0	NM_194344	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	17.0	36.0	40.5	713.5	98.0	27.0	51.5	69.0
Merged-chr2-146855841-4	chr2	146855754	146855954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033298)	promoter-TSS (NM_001033298)	-35.0	NM_001033298	228730.0	Mm.292352	NM_001033298	ENSMUSG00000074749	Kiz	Gm114|Ncrna00153|Plk1s1	kizuna centrosomal protein	protein-coding	255.5	296.5	223.5	3974.5	422.0	142.5	224.5	148.0
Merged-chr18-73808733-4	chr18	73808647	73808847	+	985.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145494, intron 1 of 15)	intron (NM_145494, intron 1 of 15)	6645.0	NM_145494	107029.0	Mm.36817	NM_145494	ENSMUSG00000024556	Me2	AW120568|D030040L20Rik|NAD-ME	malic enzyme 2, NAD(+)-dependent, mitochondrial	protein-coding	19.0	22.5	24.0	365.0	57.5	10.5	23.0	27.0
Merged-chr6-134877035-3	chr6	134876926	134877126	+	859.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167694, intron 3 of 3)	intron (NM_001167694, intron 3 of 3)	10759.0	NR_074084	14760.0	Mm.4787	NM_008157	ENSMUSG00000032641	Gpr19	-	G protein-coupled receptor 19	protein-coding	0.0	3.0	4.0	30.0	32.0	7.5	15.5	4.5
Merged-chr7-142435726-4	chr7	142435619	142435819	+	801.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285858, intron 1 of 8)	intron (NM_001285858, intron 1 of 8)	742.0	NM_018802	55925.0	Mm.213002	NM_018802	ENSMUSG00000031098	Syt8	-	synaptotagmin VIII	protein-coding	6.0	8.0	11.5	80.0	19.0	5.5	4.0	10.5
Merged-chr8-124230074-4	chr8	124229996	124230196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1298.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	70.0	83.5	52.5	685.0	162.0	35.0	78.5	65.5
Merged-chr2-124705096-4	chr2	124705005	124705205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51524.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	86.0	150.0	105.0	1092.5	148.0	64.0	100.0	56.0
Merged-chr2-14229292-4	chr2	14229153	14229353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008625)	promoter-TSS (NM_008625)	-161.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	19.0	37.0	24.0	406.0	60.0	24.5	19.5	28.5
Merged-chr2-35196068-4	chr2	35195977	35196177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026697, intron 1 of 7)	B1F1|SINE|Alu	5043.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	21.5	27.0	17.5	231.0	55.0	19.0	13.5	22.0
Merged-chr14-20834313-4	chr14	20834214	20834414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2348.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	102.5	200.5	73.5	1371.5	245.0	99.5	77.5	69.5
Merged-chr18-23896802-4	chr18	23896714	23896914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57874.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	109.5	178.0	152.5	2325.0	258.5	97.0	121.0	109.0
Merged-chr5-105499591-3	chr5	105499492	105499692	+	996.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-19879.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	21.0	31.0	19.0	130.0	17.5	15.0	10.5	9.0
Merged-chr11-69838984-2	chr11	69838884	69839084	+	988.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_026982, intron 2 of 3)	intron (NM_026982, intron 2 of 3)	459.0	NM_026982	69186.0	Mm.248772	NM_026982	ENSMUSG00000070394	Tmem256	1810027O10Rik|3110009M16Rik	transmembrane protein 256	protein-coding	7.0	18.0	13.0	39.0	22.5	4.5	7.5	14.0
Merged-chr4-43466137-4	chr4	43466035	43466235	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11509.0	NM_007654	12517.0	Mm.188157	NM_007654	ENSMUSG00000028459	Cd72	CD72c|Ly-19|Ly-32|Ly-m19|Lyb-2	CD72 antigen	protein-coding	38.0	35.0	55.0	957.5	51.5	14.5	23.0	14.5
Merged-chr2-165333371-4	chr2	165333269	165333469	+	918.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-6890.0	NM_207706	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	16.0	12.5	18.5	297.5	24.5	9.5	13.5	24.5
Merged-chr15-79027909-2	chr15	79027809	79028009	+	894.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008197)	promoter-TSS (NM_008197)	-303.0	NM_008197	14958.0	Mm.24350	NM_008197	ENSMUSG00000096210	H1f0	D130017D06Rik|H1(0)|H1fv	H1 histone family, member 0	protein-coding	4.5	4.5	5.0	19.5	12.5	1.5	3.0	8.5
Merged-chr11-83065034-4	chr11	83064942	83065142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011408)	promoter-TSS (NM_011408)	-70.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	130.5	265.5	70.0	740.0	292.0	139.5	101.0	65.5
Merged-chr2-163699662-4	chr2	163699558	163699758	+	758.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011106, intron 1 of 3)	intron (NM_011106, intron 1 of 3)	5621.0	NM_011106	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	8.0	11.0	13.0	283.0	20.5	9.0	10.0	5.5
Merged-chr4-41359560-4	chr4	41359469	41359669	+	835.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355508, intron 1 of 6)	B1F2|SINE|Alu	7606.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	10.5	13.0	11.5	147.5	24.0	11.0	11.0	8.0
Merged-chr1-44119699-8	chr1	44119592	44119792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023645)	promoter-TSS (NM_023645)	164.0	NM_001357048	246229.0	Mm.386883	NM_144558	ENSMUSG00000041684	Bivm	AI854267	basic, immunoglobulin-like variable motif containing	protein-coding	22.0	21.5	28.5	203.0	37.5	25.0	24.0	34.0
Merged-chr6-91441405-4	chr6	91441298	91441498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045980)	promoter-TSS (NR_045980)	411.0	NR_038153	69798.0	Mm.229265	NR_038153	ENSMUSG00000100680	1810044D09Rik	-	RIKEN cDNA 1810044D09 gene	ncRNA	24.0	32.0	22.5	486.0	82.5	19.0	25.5	43.5
Merged-chr2-173452139-3	chr2	173452111	173452311	+	866.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie5|DNA|hAT-Charlie	-70381.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	2.5	5.0	5.0	64.5	18.5	7.5	6.5	5.0
Merged-chr6-122491757-4	chr6	122491637	122491837	+	832.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5432.0	NM_027664	108653.0	Mm.277939	NM_027664	ENSMUSG00000040649	Rimklb	4931417E21Rik|4933426K21Rik|AA097693|AI325948|AU015629|Naags	ribosomal modification protein rimK-like family member B	protein-coding	15.5	20.5	13.0	267.5	18.5	5.0	18.5	19.0
Merged-chr19-6036361-3	chr19	6036249	6036449	+	931.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10227.0	NM_028769	74126.0	Mm.149870	NM_028769	ENSMUSG00000024807	Syvn1	1200010C09Rik|AW211966|C85322|D530017H19Rik|Hrd1	synovial apoptosis inhibitor 1, synoviolin	protein-coding	3.0	17.5	4.5	62.0	51.5	6.5	13.5	18.0
Merged-chr4-139293750-3	chr4	139293590	139293790	+	800.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_151463)	TTS (NR_151463)	17018.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	9.5	7.5	6.5	39.0	5.5	0.5	3.0	9.0
Merged-chr11-107025803-4	chr11	107025689	107025889	+	839.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2434.0	NM_001163473	69066.0	Mm.40679	NM_001163473	ENSMUSG00000078607	1810010H24Rik	-	RIKEN cDNA 1810010H24 gene	protein-coding	6.5	5.5	12.0	101.5	21.0	9.5	5.5	11.0
Merged-chr1-60940782-4	chr1	60940687	60940887	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31762.0	NM_001281976	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	24.0	30.5	8.0	198.5	40.5	22.0	16.0	14.5
Merged-chr4-24617043-4	chr4	24616947	24617147	+	872.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033531, exon 10 of 10)	3' UTR (NM_001033531, exon 10 of 10)	120596.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	17.5	17.5	16.0	278.5	18.5	10.0	12.0	12.5
Merged-chr7-67463867-4	chr7	67463754	67463954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90996.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	64.5	72.5	59.0	1234.5	81.5	36.0	46.0	45.0
Merged-chr14-30322510-3	chr14	30322410	30322610	+	743.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 3 of 46)	intron (NM_001083616, intron 3 of 46)	30976.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	6.0	11.5	7.5	142.0	22.0	5.5	8.0	5.5
Merged-chr11-116885476-4	chr11	116885405	116885605	+	910.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31505.0	NM_001361586	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	10.5	9.5	15.0	67.0	20.5	5.0	3.5	15.5
Merged-chr1-138159137-4	chr1	138159061	138159261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	15965.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	87.0	140.5	65.0	1063.5	212.0	69.0	63.0	66.5
Merged-chr12-21462824-4	chr12	21462707	21462907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45371.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	15.5	23.5	19.5	457.0	75.0	19.0	22.5	34.0
Merged-chr18-69537571-4	chr18	69537441	69537641	+	935.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 6 of 19)	intron (NM_001361128, intron 6 of 19)	191381.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	16.5	19.5	12.0	199.5	34.5	7.0	21.0	11.5
Merged-chr18-68062217-4	chr18	68062161	68062361	+	955.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	129088.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	56.5	56.0	63.5	776.5	46.0	10.0	7.5	10.0
Merged-chr16-16358935-4	chr16	16358731	16358931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276341)	promoter-TSS (NM_001276341)	200.0	NM_152816	74006.0	Mm.218820	NM_152816	ENSMUSG00000022789	Dnm1l	6330417M19Rik|AI450666|Dlp1|Dnmlp1|Drp1|python	dynamin 1-like	protein-coding	39.5	39.0	69.5	575.5	102.0	35.0	45.0	51.5
Merged-chr4-36014277-4	chr4	36014168	36014368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	intron (NM_001166000, intron 7 of 8)	-169064.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	110.0	105.5	117.5	2608.0	194.0	49.5	112.5	86.5
Merged-chr4-156108859-10	chr4	156108780	156108980	+	962.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1118.0	NM_145557	230996.0	Mm.318925	NM_145557	ENSMUSG00000059939	9430015G10Rik	-	RIKEN cDNA 9430015G10 gene	protein-coding	2.5	3.5	5.0	49.5	20.5	10.0	6.0	10.5
Merged-chr3-84440098-3	chr3	84440005	84440205	+	718.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	39386.0	NM_001205355	229474.0	Mm.331107	NM_001033301	ENSMUSG00000041842	Fhdc1	6330505N24Rik|Gm126	FH2 domain containing 1	protein-coding	6.0	7.5	11.5	219.0	7.5	3.5	4.0	1.5
Merged-chr6-126940067-4	chr6	126939955	126940155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138594)	promoter-TSS (NM_138594)	89.0	NM_138594	28040.0	Mm.44228	NM_138594	ENSMUSG00000030347	D6Wsu163e	C12orf4	DNA segment, Chr 6, Wayne State University 163, expressed	protein-coding	23.0	30.5	34.5	335.0	49.0	21.0	17.5	30.5
Merged-chr4-149166714-4	chr4	149166614	149166814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356332)	promoter-TSS (NM_001356332)	-9.0	NM_001081274	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	153.5	249.0	141.0	1841.0	402.5	137.0	192.0	134.5
Merged-chr3-51654557-3	chr3	51654485	51654685	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6594.0	NM_174995	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	4.5	9.5	9.5	175.0	6.0	5.5	6.0	5.0
Merged-chr2-30472132-4	chr2	30472032	30472232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030244)	TTS (NM_030244)	2067.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	70.5	94.0	52.0	965.5	131.5	41.5	61.5	58.5
Merged-chr6-137570907-4	chr6	137570823	137571023	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271595)	promoter-TSS (NM_001271595)	86.0	NM_001271595	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	32.5	48.5	35.0	645.5	26.0	6.0	19.0	12.0
Merged-chr3-53460265-4	chr3	53460167	53460367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172501, intron 3 of 6)	intron (NM_172501, intron 3 of 6)	2991.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	74.0	114.0	67.5	1063.5	199.0	67.5	90.0	61.0
Merged-chr11-76771416-4	chr11	76771323	76771523	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7845.0	NM_001356321	53334.0	Mm.20931	NM_016810	ENSMUSG00000010392	Gosr1	AI414660|AI426320|BB145494|GOS-28|GOSRI|GS28	golgi SNAP receptor complex member 1	protein-coding	5.0	15.5	26.5	271.0	26.0	11.5	2.5	16.0
Merged-chr5-113016218-4	chr5	113016116	113016316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177078)	promoter-TSS (NM_177078)	-678.0	NM_177078	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	38.0	71.0	32.0	356.5	98.5	39.5	54.5	27.5
Merged-chr17-10822760-3	chr17	10822660	10822860	+	710.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 1 of 4)	intron (NM_027032, intron 1 of 4)	17431.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	7.5	8.0	7.0	89.0	14.5	3.0	8.5	7.5
Merged-chr19-46648769-4	chr19	46648686	46648886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177813, intron 2 of 3)	intron (NM_001177813, intron 2 of 3)	24214.0	NM_007809	13074.0	Mm.1262	NM_007809	ENSMUSG00000003555	Cyp17a1	Cyp17|p450c17	cytochrome P450, family 17, subfamily a, polypeptide 1	protein-coding	93.5	128.5	148.0	1052.5	256.5	94.0	84.0	86.5
Merged-chr7-127274096-4	chr7	127273998	127274198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009266)	promoter-TSS (NM_009266)	-39.0	NM_009266	20768.0	Mm.20294	NM_009266	ENSMUSG00000049091	Sephs2	Sps2|Ysg3	selenophosphate synthetase 2	protein-coding	46.5	72.0	34.0	464.5	132.5	62.0	35.5	68.0
Merged-chr8-124857248-3	chr8	124857178	124857378	+	981.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025615, intron 2 of 6)	MurERV4-int|LTR|ERVK	5751.0	NM_025615	66523.0	Mm.436864	NM_025615	ENSMUSG00000031984	2810004N23Rik	3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55	RIKEN cDNA 2810004N23 gene	protein-coding	17.5	31.5	13.5	360.5	0.0	0.0	0.0	0.0
Merged-chr8-66437026-4	chr8	66436934	66437134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 6 of 7)	intron (NM_175188, intron 6 of 7)	49496.0	NM_025465	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	32.5	21.0	17.0	407.5	35.5	18.0	21.0	26.5
Merged-chr3-144039649-4	chr3	144039498	144039698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	162734.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	27.5	38.5	49.5	446.5	78.0	27.0	39.5	30.5
Merged-chr11-117809716-4	chr11	117809610	117809810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009304)	promoter-TSS (NM_009304)	43.0	NM_009304	20973.0	Mm.468228	NM_009304	ENSMUSG00000048277	Syngr2	Clast2|cellugyrin	synaptogyrin 2	protein-coding	17.0	20.5	27.5	386.0	51.5	27.0	37.5	24.0
Merged-chr11-97946078-4	chr11	97945996	97946196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163608, intron 7 of 13)	MTD|LTR|ERVL-MaLR	40350.0	NM_028199	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	45.0	50.5	19.0	574.0	164.0	40.0	56.0	53.5
Merged-chr11-21093600-2	chr11	21093500	21093700	+	900.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_023324, intron 1 of 6)	intron (NM_023324, intron 1 of 6)	2276.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	10.0	20.0	3.5	56.5	25.0	4.5	6.0	10.5
Merged-chr8-14627138-4	chr8	14627047	14627247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-261389.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	56.0	43.5	23.0	756.0	69.5	31.5	47.0	49.0
Merged-chr1-150099987-4	chr1	150099883	150100083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015466)	promoter-TSS (NR_015466)	-48.0	NM_011198	19225.0	Mm.292547	NM_011198	ENSMUSG00000032487	Ptgs2	COX2|Cox-2|PES-2|PGHS-2|PHS II|PHS-2|Pghs2|TIS10|gripghs	prostaglandin-endoperoxide synthase 2	protein-coding	21.5	28.5	25.0	476.5	87.5	33.0	28.5	28.5
Merged-chr11-78094670-4	chr11	78094561	78094761	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346762)	promoter-TSS (NM_001346762)	-6.0	NM_001346762	216971.0	Mm.119387	NM_145430	ENSMUSG00000037750	Fam222b	9630020I17Rik	family with sequence similarity 222, member B	protein-coding	35.0	39.5	23.5	277.5	50.5	21.0	31.5	19.0
Merged-chr10-127311759-4	chr10	127311673	127311873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171582)	promoter-TSS (NM_001171582)	13.0	NM_001003913	216443.0	Mm.28173	NM_001003913	ENSMUSG00000040354	Mars	Metrs|Mtrns	methionine-tRNA synthetase	protein-coding	125.0	172.0	105.0	1546.0	341.0	120.5	142.0	137.5
Merged-chr8-41024836-3	chr8	41024738	41024938	+	833.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015457)	TTS (NR_015457)	7370.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	11.0	14.5	8.0	109.5	25.0	8.5	11.0	10.5
Merged-chr8-81345380-3	chr8	81345269	81345469	+	755.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024617, intron 1 of 24)	intron (NM_001024617, intron 1 of 24)	2807.0	NM_001297593	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	18.5	23.5	6.0	309.5	0.0	0.0	0.0	1.5
Merged-chr6-40585856-4	chr6	40585768	40585968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021364)	promoter-TSS (NM_021364)	-63.0	NM_001038604	23845.0	Mm.103765	NM_021364	ENSMUSG00000029915	Clec5a	Clecsf5|Ly100|MDL-1|Mdl1	C-type lectin domain family 5, member a	protein-coding	20.0	38.5	31.0	309.0	45.5	20.5	21.5	10.0
Merged-chr13-113494927-2	chr13	113494827	113495027	+	896.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	7917.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	1.0	2.5	7.5	55.5	10.0	6.0	6.0	5.5
Merged-chr9-94537484-4	chr9	94537425	94537625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033145, exon 1 of 3)	exon (NM_001033145, exon 1 of 3)	556.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	34.0	44.0	73.5	546.5	103.5	31.5	43.0	43.5
Merged-chr7-30600150-4	chr7	30600032	30600232	+	970.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1223.0	NR_153655	58206.0	Mm.116789	NM_021397	ENSMUSG00000006310	Zbtb32	4930524C15Rik|FAXF|FAZF|PLZP|Rog|Tzfp	zinc finger and BTB domain containing 32	protein-coding	43.0	68.0	60.0	1008.5	47.5	10.0	22.0	12.5
Merged-chr7-109987029-3	chr7	109986959	109987159	+	956.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153525)	promoter-TSS (NM_153525)	-829.0	NM_153525	233724.0	Mm.43212	NM_153525	ENSMUSG00000047554	Tmem41b	1500015G02Rik|1500031M19Rik|AU018901|D7Ertd70e|D7Ertd743e	transmembrane protein 41B	protein-coding	2.0	10.0	5.0	45.0	16.0	7.0	7.0	14.0
Merged-chr2-71377636-4	chr2	71377551	71377751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10097.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	31.0	39.5	31.0	397.0	79.5	30.5	27.0	42.5
Merged-chr4-62850585-3	chr4	62850450	62850650	+	995.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115024.0	NM_028326	72701.0	Mm.26479	NM_028326	ENSMUSG00000028358	Zfp618	2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1	zinc finger protein 618	protein-coding	6.0	19.0	19.5	206.0	17.5	4.0	7.5	18.5
Merged-chr10-80420823-4	chr10	80420748	80420948	+	986.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164153, intron 5 of 18)	intron (NM_001164153, intron 5 of 18)	12805.0	NM_001164150	21423.0	Mm.3406	NM_011548	ENSMUSG00000020167	Tcf3	A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21	transcription factor 3	protein-coding	12.5	16.5	18.5	489.5	39.0	4.0	18.0	25.0
Merged-chr8-106155302-4	chr8	106155208	106155408	+	960.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357319, intron 2 of 5)	intron (NM_001357319, intron 2 of 5)	4954.0	NM_001357319	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	20.5	30.0	24.5	399.0	49.5	9.0	13.5	18.0
Merged-chr2-145906069-3	chr2	145905970	145906170	+	713.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026425, intron 1 of 5)	B2_Mm1t|SINE|B2	2829.0	NM_001141965	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	4.0	14.5	3.5	5.5	30.0	6.0	12.0	6.0
Merged-chr2-119208892-4	chr2	119208762	119208962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139139)	promoter-TSS (NM_139139)	-67.0	NM_139139	69408.0	Mm.222241	NM_139139	ENSMUSG00000034278	Dnajc17	1700025B16Rik|C87112|D9Bwg1371e	DnaJ heat shock protein family (Hsp40) member C17	protein-coding	122.5	207.5	131.0	1976.0	285.0	131.5	187.0	168.0
Merged-chr6-17636959-4	chr6	17636853	17637053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007604)	promoter-TSS (NM_007604)	-57.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	219.0	291.0	192.0	2518.0	512.5	232.5	276.5	167.0
Merged-chr2-163535122-4	chr2	163535019	163535219	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312906, intron 1 of 10)	intron (NM_001312906, intron 1 of 10)	6602.0	NR_027970	68314.0	Mm.46190	NM_197983	ENSMUSG00000046840	Hnf4aos	0610008F07Rik	hepatic nuclear factor 4 alpha, opposite strand	ncRNA	22.5	40.0	20.5	392.0	43.0	14.5	15.5	25.5
Merged-chr4-21775635-4	chr4	21775523	21775723	+	834.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290425)	promoter-TSS (NM_001290425)	-647.0	NM_001290425	77593.0	Mm.154306	NM_152825	ENSMUSG00000040455	Usp45	3110003C05Rik|4930550B20Rik|AI843191|Gcap7	ubiquitin specific petidase 45	protein-coding	10.5	8.5	4.0	109.5	22.0	7.5	23.0	15.0
Merged-chr9-65303797-3	chr9	65303691	65303891	+	610.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001044389, intron 3 of 12)	MTEb|LTR|ERVL-MaLR	9531.0	NM_001044389	270166.0	Mm.30088	NM_011802	ENSMUSG00000015357	Clpx	AU014732|E330029I21	caseinolytic mitochondrial matrix peptidase chaperone subunit	protein-coding	9.0	7.0	5.5	90.5	12.5	5.5	6.5	6.0
Merged-chr9-107710386-1	chr9	107710286	107710486	+	593.5	f0_balb.idr	promoter-TSS (NM_011349)	promoter-TSS (NM_011349)	89.0	NM_011349	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	4.5	13.0	10.0	101.0	18.0	8.0	9.5	9.5
Merged-chr8-26697801-4	chr8	26697696	26697896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	126627.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	75.0	81.5	85.0	1418.5	211.5	99.0	130.0	120.0
Merged-chr13-115097161-4	chr13	115097043	115097243	+	928.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033228, intron 1 of 28)	intron (NM_001033228, intron 1 of 28)	4821.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	11.0	5.5	23.5	331.0	31.0	11.5	22.5	20.5
Merged-chr11-58847130-4	chr11	58847030	58847230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6014.0	NM_146537	258530.0	Mm.377556	NM_146537	ENSMUSG00000094805	Olfr311	MOR222-1	olfactory receptor 311	protein-coding	74.5	138.5	82.0	1002.5	298.0	89.0	120.0	76.5
Merged-chr15-8706491-3	chr15	8706393	8706593	+	763.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148938, intron 2 of 9)	intron (NM_148938, intron 2 of 9)	4314.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	1.0	5.5	5.0	54.5	15.0	14.0	7.0	7.5
Merged-chr18-61087102-4	chr18	61087026	61087226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18446.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	52.0	65.0	80.0	1150.5	121.0	39.5	65.0	62.0
Merged-chr2-170326999-4	chr2	170326901	170327101	+	962.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29360.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	37.0	32.5	38.0	665.0	84.0	17.0	13.0	39.0
Merged-chr18-51470985-4	chr18	51470876	51471076	+	890.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	353078.0	NM_001081224	71373.0	Mm.63546	NM_001081224	ENSMUSG00000073565	Prr16	5430406M13Rik|AI607429	proline rich 16	protein-coding	6.5	15.5	10.5	253.0	25.0	6.0	7.5	13.0
Merged-chr14-54231380-2	chr14	54231321	54231521	+	837.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	22508.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	3.5	6.0	5.0	54.0	12.5	5.0	6.5	7.0
Merged-chr3-144933857-2	chr3	144933757	144933957	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1328.0	NM_001033199	99709.0	Mm.440040	NM_001033199	ENSMUSG00000074195	Clca4b	AI747448|Clca7	chloride channel accessory 4B	protein-coding	6.0	6.0	7.5	79.0	17.0	3.5	8.5	0.5
Merged-chr1-44147883-4	chr1	44147769	44147969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011729, exon 1 of 15)	5' UTR (NM_011729, exon 1 of 15)	125.0	NM_011729	22592.0	Mm.2213	NM_011729	ENSMUSG00000026048	Ercc5	Xpg	excision repair cross-complementing rodent repair deficiency, complementation group 5	protein-coding	149.0	151.0	123.0	2470.5	290.5	96.0	131.5	143.5
Merged-chr11-22631701-4	chr11	22631582	22631782	+	884.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119399.0	NM_153596	103765.0	Mm.221274	NM_153596	ENSMUSG00000049904	Tmem17	AI503894|AW049890	transmembrane protein 17	protein-coding	3.5	8.0	24.5	122.0	33.0	15.5	5.0	7.5
Merged-chr2-132144706-2	chr2	132144606	132144806	+	812.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	CpG	402.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	6.0	14.5	6.5	83.5	9.5	6.5	1.5	4.5
Merged-chr3-90265110-4	chr3	90265018	90265218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356483)	promoter-TSS (NM_001356483)	-117.0	NM_001356483	229541.0	Mm.30571	NM_201407	ENSMUSG00000042404	Dennd4b	-	DENN/MADD domain containing 4B	protein-coding	66.0	103.5	77.5	1178.0	194.0	62.5	80.5	92.5
Merged-chr15-43477146-4	chr15	43477041	43477241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046064)	promoter-TSS (NR_046064)	-88.0	NM_025736	66736.0	Mm.244512	NM_025736	ENSMUSG00000022337	Emc2	4921531G14Rik|AV060620|AW209495|Ttc35	ER membrane protein complex subunit 2	protein-coding	336.0	456.0	373.5	6228.0	741.0	312.5	465.5	287.0
Merged-chr15-78899830-4	chr15	78899727	78899927	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316686)	promoter-TSS (NM_001316686)	59.0	NM_009164	20401.0	Mm.4462	NM_009164	ENSMUSG00000022436	Sh3bp1	3BP-1	SH3-domain binding protein 1	protein-coding	13.5	26.5	14.0	136.0	28.5	10.5	18.0	10.5
Merged-chr13-81109925-4	chr13	81109841	81110041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 87 of 89)	intron (NM_054053, intron 87 of 89)	145867.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	24.0	29.0	29.5	465.0	50.5	19.0	23.0	23.0
Merged-chr9-122285550-3	chr9	122285417	122285617	+	892.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271873, intron 1 of 12)	intron (NM_001271873, intron 1 of 12)	8906.0	NM_001271873	102566.0	Mm.87676	NM_133979	ENSMUSG00000037949	Ano10	AI604832|Tmem16k	anoctamin 10	protein-coding	9.0	11.5	5.5	192.5	6.5	1.5	4.5	6.0
Merged-chr2-28621906-4	chr2	28621819	28622019	+	950.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008114)	promoter-TSS (NM_008114)	63.0	NM_008114	14582.0	Mm.373385	NM_008114	ENSMUSG00000026815	Gfi1b	Gfi-1B	growth factor independent 1B	protein-coding	10.5	19.5	12.5	162.0	42.5	8.0	15.5	25.5
Merged-chr2-155098885-2	chr2	155098767	155098967	+	634.0	f0_balb.idr|f1_balb.idr	non-coding (NR_040634, exon 3 of 3)	non-coding (NR_040634, exon 3 of 3)	1212.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	14.0	8.5	4.5	122.0	2.0	1.5	2.0	0.5
Merged-chr14-32785919-4	chr14	32785807	32786007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163616)	promoter-TSS (NM_001163616)	-56.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	82.0	93.0	68.5	1300.0	135.0	42.0	67.0	72.5
Merged-chr16-32165485-4	chr16	32165397	32165597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347182)	promoter-TSS (NM_001347182)	97.0	NM_146069	224109.0	Mm.33498	NM_146069	ENSMUSG00000052384	Nrros	E430025L02Rik|Lrcc33|Lrrc33	negative regulator of reactive oxygen species	protein-coding	61.5	125.5	46.0	736.5	245.5	78.5	93.0	58.5
Merged-chr1-39527646-4	chr1	39527542	39527742	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8059.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	19.0	19.0	17.5	312.0	49.0	13.0	19.0	24.5
Merged-chr15-74919736-3	chr15	74919663	74919863	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35288.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	8.0	18.5	9.0	56.0	33.0	16.5	8.5	9.0
Merged-chr4-9649576-4	chr4	9649489	9649689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	-5872.0	NM_001177852	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	65.5	56.5	70.0	911.5	114.5	38.5	63.0	62.0
Merged-chr9-16238162-4	chr9	16238059	16238259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	Lx10|LINE|L1	140072.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	22.0	23.5	23.5	543.5	101.0	22.0	26.5	33.0
Merged-chr15-100728750-4	chr15	100728663	100728863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172451, intron 1 of 11)	intron (NM_172451, intron 1 of 11)	613.0	NM_001161767	207839.0	Mm.22969	NM_172451	ENSMUSG00000037280	Galnt6	4632410F13|AW047994|GalNAc-T6	polypeptide N-acetylgalactosaminyltransferase 6	protein-coding	95.0	127.5	79.0	1272.5	228.0	86.0	109.0	117.0
Merged-chr1-65180006-4	chr1	65179923	65180123	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010497)	promoter-TSS (NM_010497)	-881.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	26.0	27.0	11.5	327.0	46.5	32.5	37.0	32.0
Merged-chr4-122886525-4	chr4	122886428	122886628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358036)	promoter-TSS (NM_001358036)	-452.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	63.0	66.5	51.0	711.0	159.5	65.5	79.5	76.5
Merged-chr2-35397730-4	chr2	35397646	35397846	+	936.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080709)	promoter-TSS (NM_001080709)	-572.0	NM_001272040	74854.0	Mm.159338	NM_001080709	ENSMUSG00000079421	4930402F06Rik	-	RIKEN cDNA 4930402F06 gene	protein-coding	20.0	16.5	15.0	147.0	29.0	16.0	22.0	11.5
Merged-chr3-133754348-3	chr3	133754261	133754461	+	847.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-209971.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	10.0	10.0	9.5	121.0	10.5	3.5	4.5	14.0
Merged-chr18-12761316-4	chr18	12761218	12761418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252490, intron 10 of 13)	intron (NM_001252490, intron 10 of 13)	19963.0	NM_027687	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	46.0	30.0	16.5	614.5	48.0	18.0	30.5	28.5
Merged-chr3-21934945-4	chr3	21934847	21935047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141705.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	50.5	67.5	51.0	1015.5	149.5	55.5	66.0	49.5
Merged-chr9-67845906-3	chr9	67845863	67846063	+	857.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177184, intron 1 of 84)	intron (NM_177184, intron 1 of 84)	5567.0	NM_177184	320528.0	Mm.241454	NM_177184	ENSMUSG00000035284	Vps13c	AI552542|AV026040|C230055H22Rik|W51662|chorein	vacuolar protein sorting 13C	protein-coding	11.0	6.5	13.0	176.0	18.0	5.0	7.0	6.5
Merged-chr9-16222546-2	chr9	16222446	16222646	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	155685.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	7.0	10.0	5.5	45.5	16.5	2.0	6.5	3.5
Merged-chr4-119127440-4	chr4	119127352	119127552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 2 of 9)	intron (NM_011400, intron 2 of 9)	18707.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	66.0	82.5	50.5	808.5	142.0	42.0	77.0	78.5
Merged-chr8-4493422-4	chr8	4493318	4493518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026058)	promoter-TSS (NM_026058)	13.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	69.0	92.5	67.0	1272.0	138.5	45.0	76.5	61.5
Merged-chr4-156200876-4	chr4	156200792	156200992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015783)	promoter-TSS (NM_015783)	-74.0	NM_015783	100038882.0	Mm.4950	NM_015783	ENSMUSG00000035692	Isg15	G1p2|IGI15|IP17|Irfp|UCRP	ISG15 ubiquitin-like modifier	protein-coding	57.0	122.5	41.0	659.5	265.5	97.0	60.0	65.5
Merged-chr7-25120609-4	chr7	25120499	25120699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163555, intron 4 of 13)	intron (NM_001163555, intron 4 of 13)	11861.0	NM_011138	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	110.5	174.0	117.5	1439.5	325.0	161.0	150.5	160.5
Merged-chr3-58362768-4	chr3	58362685	58362885	+	957.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-51935.0	NM_001081229	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	23.5	28.0	27.0	446.0	33.0	13.0	18.5	17.5
Merged-chr10-87853543-2	chr10	87853441	87853641	+	768.25	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-4724.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	8.5	9.5	3.0	173.0	40.0	6.0	12.0	7.0
Merged-chr12-55299545-4	chr12	55299446	55299646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021529, intron 2 of 13)	intron (NM_021529, intron 2 of 13)	-3091.0	NM_025373	66132.0	Mm.383213	NM_025373	ENSMUSG00000021023	1110008L16Rik	Kiaa0391|Mrpp3|mKIAA0391	RIKEN cDNA 1110008L16 gene	protein-coding	101.0	133.0	123.5	1868.0	220.5	85.5	112.5	137.5
Merged-chr15-11995300-7	chr15	11995208	11995408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011294, intron 1 of 4)	CpG	699.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	30.5	28.5	40.5	275.5	87.5	33.0	33.0	47.5
Merged-chr19-12436328-4	chr19	12436253	12436453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	8448.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	138.0	165.0	137.5	2130.0	190.5	83.5	113.0	100.5
Merged-chr9-65195760-4	chr9	65195656	65195856	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18934.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	39.0	29.5	52.5	624.0	41.0	18.5	39.5	45.5
Merged-chr13-25793218-4	chr13	25793109	25793309	+	953.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173107.0	NR_045062	100503530.0	Mm.86763	NR_045062	ENSMUSG00000086531	Gm11351	-	predicted gene 11351	ncRNA	11.5	17.5	23.0	356.0	48.0	17.0	23.0	17.0
Merged-chr1-171019814-4	chr1	171019713	171019913	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144559, intron 2 of 4)	intron (NM_144559, intron 2 of 4)	887.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	23.0	33.5	15.5	225.0	51.5	26.0	24.5	37.0
Merged-chr7-99374529-3	chr7	99374438	99374638	+	726.533325	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-6980.0	NM_001362168	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	6.5	5.5	1.5	28.0	41.0	10.0	9.5	9.5
Merged-chr14-69707542-4	chr14	69707443	69707643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301652)	promoter-TSS (NM_001301652)	41.0	NM_001146012	71843.0	Mm.27738	NM_001146012	ENSMUSG00000034194	R3hcc1	1700020M16Rik|AA407796	R3H domain and coiled-coil containing 1	protein-coding	46.0	90.5	44.5	918.5	117.0	54.0	61.5	45.5
Merged-chr7-44553082-2	chr7	44552982	44553182	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009473, intron 2 of 9)	intron (NM_009473, intron 2 of 9)	883.0	NM_009473	22260.0	Mm.968	NM_009473	ENSMUSG00000060601	Nr1h2	AI194859|LXR|LXRB|LXRBSV|LXRbeta|NER1|OR-1|RIP15|UR|Unr|Unr2	nuclear receptor subfamily 1, group H, member 2	protein-coding	8.0	7.0	8.5	139.0	15.5	8.5	14.0	5.5
Merged-chr11-51582937-4	chr11	51582886	51583086	+	834.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153393, exon 29 of 29)	3' UTR (NM_153393, exon 29 of 29)	-1771.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	10.5	20.5	5.0	87.0	20.5	12.0	14.0	13.0
Merged-chr15-3259304-4	chr15	3259193	3259393	+	962.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-11474.0	NM_001042613	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	39.0	44.0	52.0	493.0	80.0	13.0	43.0	44.0
Merged-chr9-120881318-3	chr9	120881200	120881400	+	979.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	33950.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	20.5	26.0	21.0	359.5	2.5	0.0	0.0	1.5
Merged-chr3-105674816-4	chr3	105674702	105674902	+	874.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001039347)	TTS (NM_001039347)	12769.0	NM_017397	53975.0	Mm.272826	NM_017397	ENSMUSG00000027905	Ddx20	GEMIN3|dp103	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	protein-coding	8.0	11.5	10.5	193.5	47.5	12.5	14.0	14.0
Merged-chr2-32083321-3	chr2	32083211	32083411	+	917.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151493, exon 2 of 6)	non-coding (NR_151493, exon 2 of 6)	394.0	NM_175511	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	8.5	10.0	16.5	117.5	26.0	6.0	12.0	18.5
Merged-chr6-125042180-4	chr6	125042089	125042289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133345, intron 1 of 7)	intron (NM_133345, intron 1 of 7)	2341.0	NM_133345	28019.0	Mm.262547	NM_133345	ENSMUSG00000030330	Ing4	D6Wsu147e|D6Xrf92|p29ING4	inhibitor of growth family, member 4	protein-coding	43.5	109.5	40.0	579.5	176.0	44.0	48.0	67.0
Merged-chr4-129512275-7	chr4	129512172	129512372	+	997.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1309.0	NM_010807	17357.0	Mm.424974	NM_010807	ENSMUSG00000047945	Marcksl1	AL022768|AW215397|AW536807|D4Bc1|F52|MacMARCKS|Macs2|Macs3|Mlp|Mrp	MARCKS-like 1	protein-coding	15.5	84.5	24.0	126.5	65.0	27.0	14.5	19.0
Merged-chr3-116423619-4	chr3	116423510	116423710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001080818, exon 1 of 16)	5' UTR (NM_001080818, exon 1 of 16)	422.0	NM_001080818	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	45.5	158.0	62.5	440.0	157.0	56.0	51.5	41.0
Merged-chr1-60000415-2	chr1	60000315	60000515	+	627.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357296, intron 9 of 10)	L1M4b|LINE|L1	42707.0	NM_001357296	70375.0	Mm.17834	NM_027407	ENSMUSG00000026018	Ica1l	1700030B17Rik|Als2cr15|b2b3465Clo	islet cell autoantigen 1-like	protein-coding	5.5	12.0	6.5	49.5	20.0	8.0	2.5	7.0
Merged-chr3-90000055-4	chr3	89999960	90000160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001165984)	TTS (NM_001165984)	1300.0	NR_045749	100503469.0	Mm.440636	NR_045749	ENSMUSG00000105552	Gm19710	-	predicted gene, 19710	ncRNA	54.0	90.5	44.5	612.5	114.0	43.5	50.5	45.5
Merged-chr17-29671206-4	chr17	29671094	29671294	+	985.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028791, intron 2 of 23)	MTD-int|LTR|ERVL-MaLR	10599.0	NM_028791	74157.0	Mm.390979	NM_028791	ENSMUSG00000024019	Cmtr1	1300018I05Rik|AI451264|Ftsjd2|MTr1	cap methyltransferase 1	protein-coding	15.0	78.5	24.0	70.0	58.5	24.0	16.0	6.5
Merged-chr8-84982290-4	chr8	84982201	84982401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3553.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	85.5	94.0	71.0	1229.0	178.5	44.0	75.0	61.5
Merged-chr19-61084665-4	chr19	61084560	61084760	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 12 of 15)	intron (NM_018869, intron 12 of 15)	56180.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	27.5	33.5	29.0	389.5	44.5	21.0	24.5	20.5
Merged-chr17-7420361-3	chr17	7420263	7420463	+	942.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35058.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	6.0	6.5	6.0	41.0	28.0	8.5	16.5	9.0
Merged-chr1-43814407-7	chr1	43814317	43814517	+	872.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026430, intron 1 of 14)	intron (NM_026430, intron 1 of 14)	13291.0	NM_026430	67883.0	Mm.387202	NM_026430	ENSMUSG00000057363	Uxs1	1600025I13Rik|AI451869|AI649125|AW550562	UDP-glucuronate decarboxylase 1	protein-coding	15.5	7.5	23.5	124.5	16.5	5.0	9.5	10.0
Merged-chr7-132776629-1	chr7	132776529	132776729	+	710.799988	f0_balb.idr	intron (NM_212473, intron 2 of 4)	intron (NM_212473, intron 2 of 4)	287.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	16.0	19.0	8.0	103.0	3.5	1.5	0.5	0.0
Merged-chr11-116767910-2	chr11	116767806	116768006	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_011371, intron 3 of 8)	intron (NM_011371, intron 3 of 8)	7601.0	NM_011371	20445.0	Mm.436887	NM_011371	ENSMUSG00000009588	St6galnac1	Siat7a	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1	protein-coding	43.5	57.5	25.5	562.0	0.0	1.5	0.0	0.0
Merged-chr4-63151843-1	chr4	63151743	63151943	+	546.0	f0_balb.idr	intron (NM_007443, intron 2 of 9)	intron (NM_007443, intron 2 of 9)	2329.0	NM_007443	11699.0	Mm.2197	NM_007443	ENSMUSG00000028356	Ambp	AI194774|ASPI|HI-30|Intin4|Itil|UTI	alpha 1 microglobulin/bikunin	protein-coding	10.5	11.0	6.5	47.5	0.5	4.0	1.0	3.5
Merged-chr1-64697457-3	chr1	64697359	64697559	+	669.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001097644, intron 1 of 9)	intron (NM_001097644, intron 1 of 9)	6114.0	NM_001097644	227210.0	Mm.39706	NM_001097644	ENSMUSG00000070871	Ccnyl1	9630037P07Rik|AW554339	cyclin Y-like 1	protein-coding	4.0	10.5	4.0	119.5	17.0	6.0	9.0	8.5
Merged-chr19-10291956-4	chr19	10291856	10292056	+	925.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	12921.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	16.0	20.0	6.0	168.5	39.5	22.0	14.5	11.0
Merged-chr1-36270800-4	chr1	36270694	36270894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153408, intron 1 of 3)	intron (NM_153408, intron 1 of 3)	2631.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	125.0	163.5	139.5	1631.0	276.5	89.0	116.0	105.5
Merged-chr1-39511989-4	chr1	39511871	39512071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER92D|LTR|ERV1	-23730.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	26.0	61.5	63.5	639.5	67.0	40.0	34.0	31.0
Merged-chr16-44717063-3	chr16	44716955	44717155	+	723.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7246.0	NM_145972	212547.0	Mm.310573	NM_145972	ENSMUSG00000036208	Nepro	-	nucleolus and neural progenitor protein	protein-coding	6.0	8.0	7.5	176.5	10.0	0.5	7.5	12.0
Merged-chr5-142400368-3	chr5	142400298	142400498	+	758.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-1099.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	0.5	6.0	4.0	36.0	33.5	10.5	12.5	10.5
Merged-chr4-119293949-5	chr4	119293884	119294084	+	998.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011732, intron 1 of 7)	CpG-10232	529.0	NM_011732	22608.0	Mm.258204	NM_011732	ENSMUSG00000028639	Ybx1	1700102N10Rik|C79409|EF1A|MSY1|Nsep1|YB-1|dbpB|mYB-1a	Y box protein 1	protein-coding	26.5	19.0	16.5	207.5	49.5	17.0	18.0	23.5
Merged-chr6-72161905-4	chr6	72161773	72161973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-38676.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	68.5	107.5	77.0	1006.0	126.0	51.0	70.0	61.5
Merged-chr15-36648043-4	chr15	36647927	36648127	+	995.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39054.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	25.0	18.0	13.0	182.0	60.5	22.0	28.0	37.0
Merged-chr12-17712101-4	chr12	17712002	17712202	+	880.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	21293.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	10.0	19.0	13.0	156.0	49.0	15.0	34.5	25.0
Merged-chr17-36032756-4	chr17	36032654	36032854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010398)	promoter-TSS (NM_010398)	-53.0	NM_010398	15040.0	Mm.439648	NM_010398	ENSMUSG00000067212	H2-T23	37b|37c|H-2T23|H2-Qa1|Qa-1|Qa-1(b)|Qa1|Qed-1|T18c|T18c(37)|T23b|T23d	histocompatibility 2, T region locus 23	protein-coding	164.0	191.0	110.5	1578.0	193.0	65.5	80.0	90.5
Merged-chr15-6391355-2	chr15	6391255	6391455	+	888.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	4607.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	10.5	12.0	7.0	89.0	16.0	5.0	5.5	3.5
Merged-chr7-98071778-4	chr7	98071649	98071849	+	849.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 30 of 48)	intron (NM_008663, intron 30 of 48)	37499.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	6.0	11.5	6.0	78.0	29.0	6.0	9.5	13.0
Merged-chr6-127142664-4	chr6	127142590	127142790	+	766.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009829, intron 3 of 4)	intron (NM_009829, intron 3 of 4)	-6699.0	NR_040274	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	15.0	9.5	4.5	72.0	13.5	13.5	5.5	17.5
Merged-chr8-70625232-4	chr8	70625115	70625315	+	696.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVK26-int|LTR|ERVK	6880.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	13.0	22.5	14.0	95.5	15.5	8.0	5.0	8.5
Merged-chr12-55836269-4	chr12	55836173	55836373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037756)	promoter-TSS (NM_001037756)	-93.0	NM_001037756	52592.0	Mm.24761	NM_027867	ENSMUSG00000012076	Brms1l	0710008O11Rik|AI159718|BRMS1|D12Ertd407e	breast cancer metastasis-suppressor 1-like	protein-coding	127.0	195.5	133.5	3032.0	388.0	140.5	196.5	152.5
Merged-chr8-8462007-4	chr8	8461920	8462120	+	975.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	198753.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	21.0	24.0	14.0	344.0	50.0	29.5	30.0	25.0
Merged-chr16-25009433-4	chr16	25009333	25009533	+	848.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-50206.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	5.5	10.5	10.5	199.5	40.5	5.5	11.5	11.5
Merged-chr1-9798147-5	chr1	9798076	9798276	+	951.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177547)	promoter-TSS (NM_177547)	46.0	NM_177547	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	14.0	16.5	11.0	154.0	55.5	22.5	13.5	5.5
Merged-chr12-40538484-4	chr12	40538392	40538592	+	906.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	92439.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	15.0	10.0	4.5	306.0	31.5	12.5	15.0	10.5
Merged-chr6-120114830-3	chr6	120114709	120114909	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	21429.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	7.0	17.0	15.0	201.5	11.0	1.0	0.5	3.0
Merged-chr9-111047466-4	chr9	111047360	111047560	+	995.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9784.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	16.0	29.5	17.0	259.5	61.5	16.0	34.5	19.5
Merged-chr5-8997235-4	chr5	8997127	8997327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023733)	promoter-TSS (NM_023733)	-81.0	NM_023733	74114.0	Mm.28197	NM_023733	ENSMUSG00000003623	Crot	1200003H03Rik	carnitine O-octanoyltransferase	protein-coding	117.5	132.5	131.0	2410.5	251.5	107.5	170.5	87.5
Merged-chr13-75788393-4	chr13	75788286	75788486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51499.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	49.5	61.5	34.5	845.0	131.5	35.0	52.5	24.0
Merged-chr1-165669105-4	chr1	165669014	165669214	+	980.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	-34573.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	23.5	39.5	21.0	309.5	69.0	16.0	26.5	12.0
Merged-chr9-30427043-4	chr9	30426932	30427132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028874)	promoter-TSS (NM_028874)	-297.0	NM_028874	102607.0	Mm.35084	NM_028874	ENSMUSG00000031993	Snx19	3526401K03Rik|AI195321|AI848208|mKIAA0254	sorting nexin 19	protein-coding	85.0	94.0	97.5	1650.5	216.0	71.0	129.0	89.0
Merged-chr2-143988944-1	chr2	143988844	143989044	+	557.0	f0_c57.idr	exon (NM_024281, exon 2 of 24)	exon (NM_024281, exon 2 of 24)	22319.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	3.5	4.0	3.0	77.5	18.0	7.0	7.0	13.5
Merged-chr11-22813169-3	chr11	22813072	22813272	+	882.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46563.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	5.0	13.5	4.5	180.0	14.5	14.5	4.5	10.0
Merged-chr9-58578869-4	chr9	58578761	58578961	+	895.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3379.0	NM_001293673	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	10.0	21.0	2.5	176.5	35.0	16.5	21.5	12.5
Merged-chr1-134560534-6	chr1	134560385	134560585	+	912.744446	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_152895, exon 1 of 27)	exon (NM_152895, exon 1 of 27)	307.0	NM_152895	75605.0	Mm.28995	NM_152895	ENSMUSG00000042207	Kdm5b	2010009J12Rik|2210016I17Rik|AW556288|D1Ertd202e|Jarid1b|PLU-1|PUT1|Plu1|RBBP2H1A|Rb-Bp2|mKIAA4034	lysine (K)-specific demethylase 5B	protein-coding	8.0	13.0	6.5	102.5	36.0	10.0	12.5	13.0
Merged-chr2-124669472-5	chr2	124669428	124669628	+	900.4500119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15947.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	8.0	5.0	7.5	245.0	24.5	1.5	5.0	8.5
Merged-chr1-138965211-3	chr1	138965105	138965305	+	957.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166501, intron 1 of 21)	intron (NM_001166501, intron 1 of 21)	1496.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	13.0	10.0	16.0	155.5	16.5	5.5	4.5	10.0
Merged-chr8-126595644-4	chr8	126595504	126595704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2168.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	34.5	39.5	10.5	309.5	51.0	25.0	27.5	33.0
Merged-chr8-104339440-4	chr8	104339378	104339578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1116.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	36.0	32.0	59.5	402.5	54.5	30.5	21.0	38.5
Merged-chr9-63782860-4	chr9	63782767	63782967	+	674.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24873.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	7.0	6.0	5.5	94.5	30.0	4.5	10.5	17.0
Merged-chr14-18271146-4	chr14	18271044	18271244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316711)	promoter-TSS (NM_001316711)	8.0	NM_023526	69721.0	Mm.25648	NM_023526	ENSMUSG00000021772	Nkiras1	2400004O09Rik|KBRAS1|kappaB-Ras1	NFKB inhibitor interacting Ras-like protein 1	protein-coding	366.5	458.5	361.0	5942.0	704.0	307.0	397.0	295.5
Merged-chr2-180120272-4	chr2	180120158	180120358	+	916.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144500, intron 1 of 13)	intron (NM_144500, intron 1 of 13)	892.0	NM_144500	228983.0	Mm.253578	NM_144500	ENSMUSG00000039050	Osbpl2	C130070J12Rik|ORP-2|Orp2|mKIAA0772	oxysterol binding protein-like 2	protein-coding	17.5	22.0	7.0	242.5	26.0	10.0	6.0	13.0
Merged-chr12-13491930-3	chr12	13491844	13492044	+	892.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027706, intron 44 of 51)	intron (NM_027706, intron 44 of 51)	135702.0	NR_136761	102639399.0	Mm.122052	NR_136761	ENSMUSG00000113666	Gm35725	-	predicted gene, 35725	ncRNA	7.5	11.5	13.5	183.0	21.0	5.0	11.5	8.0
Merged-chr3-84748329-3	chr3	84748229	84748429	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67248.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	22.5	29.0	28.0	672.5	3.5	1.0	6.5	2.0
Merged-chr16-10975114-2	chr16	10975020	10975220	+	810.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	GSAT_MM|Satellite|Satellite	18001.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	9.5	13.0	10.5	34.0	4.5	1.0	0.5	8.0
Merged-chr6-83965341-3	chr6	83965227	83965427	+	737.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355286, intron 16 of 26)	intron (NM_001355286, intron 16 of 26)	-43271.0	NM_001077694	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	7.0	2.5	0.0	53.5	23.0	5.0	6.5	11.5
Merged-chr2-3760434-4	chr2	3760315	3760515	+	977.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	46957.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	55.5	37.5	32.0	844.5	59.5	13.0	24.0	37.5
Merged-chr2-22758732-4	chr2	22758652	22758852	+	805.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15575.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	2.5	16.0	8.5	84.0	24.0	12.0	15.5	9.5
Merged-chr18-4804230-4	chr18	4804130	4804330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8256.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	166.0	185.0	169.0	2176.5	266.5	102.5	132.5	134.0
Merged-chr5-108248727-4	chr5	108248627	108248827	+	912.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-20170.0	NM_026106	13486.0	Mm.303534	NM_026106	ENSMUSG00000029265	Dr1	1700121L09Rik|Dr1l|NC2|NC2beta	down-regulator of transcription 1	protein-coding	21.0	21.5	29.0	180.0	30.0	3.0	16.0	12.5
Merged-chr4-47011158-4	chr4	47011050	47011250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19436.0	NM_001081141	242425.0	Mm.101909	NM_001081141	ENSMUSG00000039809	Gabbr2	GABABR2|Gb2|Gm425|Gpr51	gamma-aminobutyric acid (GABA) B receptor, 2	protein-coding	109.0	130.0	124.5	1529.0	172.0	55.5	82.0	77.0
Merged-chr10-81285864-4	chr10	81285769	81285969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282096)	promoter-TSS (NM_001282096)	-88.0	NM_001282096	27375.0	Mm.27984	NM_013769	ENSMUSG00000034917	Tjp3	-	tight junction protein 3	protein-coding	86.5	147.0	69.0	1096.0	208.5	110.5	82.0	91.0
Merged-chr10-116515288-4	chr10	116515155	116515355	+	818.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037848, intron 4 of 4)	intron (NM_001037848, intron 4 of 4)	12694.0	NM_001359253	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	8.0	7.5	4.5	133.0	15.0	4.5	8.5	10.5
Merged-chr5-115513899-4	chr5	115513767	115513967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	7191.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	94.5	119.0	105.0	1551.5	192.5	56.0	103.0	101.5
Merged-chr8-68247159-1	chr8	68247059	68247259	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-29369.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	8.0	17.0	6.5	40.0	64.5	20.5	11.5	8.5
Merged-chr14-63130012-6	chr14	63129890	63130090	+	803.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	7528.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	10.5	11.5	7.5	145.5	14.0	11.5	7.5	17.5
Merged-chr12-33119206-2	chr12	33119106	33119306	+	580.0	f0_balb.idr|f1_c57bl6.idr	non-coding (NR_015602, exon 5 of 6)	non-coding (NR_015602, exon 5 of 6)	-26331.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	8.0	4.5	7.0	88.5	12.0	3.0	3.5	3.0
Merged-chr8-119394853-4	chr8	119394753	119394953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019966)	promoter-TSS (NM_019966)	-39.0	NM_019966	56690.0	Mm.423037	NM_019966	ENSMUSG00000074064	Mlycd	AI324784|Mcd	malonyl-CoA decarboxylase	protein-coding	153.5	274.0	165.0	2103.5	325.5	137.0	158.0	166.0
Merged-chr5-43845873-4	chr5	43845807	43846007	+	673.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22902.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	5.5	14.0	10.5	87.0	19.5	6.0	5.5	1.0
Merged-chr1-134244381-3	chr1	134244297	134244497	+	702.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8940.0	NM_001008533	11539.0	Mm.298908	NM_009629	ENSMUSG00000042429	Adora1	A1-AR|A1AR|A1R|AA1R|AI848715|BB176431|Ri	adenosine A1 receptor	protein-coding	3.5	11.0	3.0	82.0	21.0	9.0	12.5	7.5
Merged-chr14-43817960-3	chr14	43817874	43818074	+	930.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007894)	TTS (NM_007894)	1665.0	NM_007894	13586.0	Mm.86948	NM_007894	ENSMUSG00000072601	Ear1	EAR-1|ECP 1|Raf1	eosinophil-associated, ribonuclease A family, member 1	protein-coding	7.0	10.5	16.0	73.5	30.0	5.5	12.5	13.5
Merged-chr9-40414589-4	chr9	40414558	40414758	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	RLTR16C_MM|LTR|ERVK	-38241.0	NM_001357621	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	14.0	26.5	10.5	250.5	36.5	12.0	26.0	17.0
Merged-chr14-77896148-3	chr14	77896079	77896279	+	896.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8060.0	NM_178825	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	4.5	5.5	5.0	91.5	26.0	14.0	22.0	10.5
Merged-chr1-78895954-4	chr1	78895879	78896079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151519, intron 3 of 3)	MTC|LTR|ERVL-MaLR	79068.0	NM_021342	57814.0	Mm.24386	NM_021342	ENSMUSG00000047330	Kcne4	AW487937|MiRP3	potassium voltage-gated channel, Isk-related subfamily, gene 4	protein-coding	55.5	110.5	89.5	1520.5	167.0	44.5	70.5	59.5
Merged-chr18-24050081-1	chr18	24049981	24050181	+	641.333313	f0_balb.idr	Intergenic	B3|SINE|B2	-29268.0	NM_021559	59057.0	Mm.417427	NM_021559	ENSMUSG00000051469	Zfp24	3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf24	zinc finger protein 24	protein-coding	8.0	9.0	4.5	137.0	16.5	0.5	7.5	6.0
Merged-chr1-93119075-4	chr1	93119010	93119210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16130.0	NM_001276710	11611.0	Mm.7457	NM_016702	ENSMUSG00000026272	Agxt	AGT|Agt1|Agxt1|SPT	alanine-glyoxylate aminotransferase	protein-coding	35.0	23.5	30.0	519.0	64.5	15.5	27.0	20.5
Merged-chr8-116627994-4	chr8	116627899	116628099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029441, intron 1 of 6)	intron (NM_029441, intron 1 of 6)	104992.0	NM_029441	75796.0	Mm.159575	NM_029441	ENSMUSG00000031758	Cdyl2	1700029M19Rik|4930453I21Rik|Gm20194	chromodomain protein, Y chromosome-like 2	protein-coding	92.0	183.5	89.5	1301.5	328.0	109.0	166.0	99.5
Merged-chr5-73180156-3	chr5	73180061	73180261	+	717.027771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028194, intron 3 of 62)	intron (NM_028194, intron 3 of 62)	76457.0	NM_028194	72313.0	Mm.260594	NM_028194	ENSMUSG00000070733	Fryl	2010313D22Rik|2310004H21Rik|2510002A14Rik|9030227G01Rik|mKIAA0826	FRY like transcription coactivator	protein-coding	4.0	2.0	2.0	23.5	33.0	7.0	13.5	14.5
Merged-chr4-133806018-4	chr4	133805926	133806126	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-52415.0	NM_001080819	93760.0	Mm.22478	NM_001080819	ENSMUSG00000007880	Arid1a	1110030E03Rik|BAF250a|Osa1|Smarcf1	AT rich interactive domain 1A (SWI-like)	protein-coding	14.0	18.5	9.0	126.0	40.5	3.5	4.0	15.0
Merged-chr4-112288597-3	chr4	112288501	112288701	+	901.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102474, intron 8 of 9)	Lx2|LINE|L1	56356.0	NM_001102474	195564.0	Mm.259652	NM_177578	ENSMUSG00000070868	Skint3	A430090E18Rik|Skint-3	selection and upkeep of intraepithelial T cells 3	protein-coding	0.0	0.0	0.0	0.0	116.0	28.5	25.5	25.5
Merged-chr18-31760519-3	chr18	31760438	31760638	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242430)	promoter-TSS (NM_001242430)	-78.0	NM_001242430	225339.0	Mm.290804	NM_153515	ENSMUSG00000041915	Ammecr1l	5430429D03Rik|AU022236|AU040755|AW111353|E230022H04Rik	AMME chromosomal region gene 1-like	protein-coding	10.5	18.0	19.0	265.5	50.0	14.5	26.0	18.0
Merged-chr6-91703496-4	chr6	91703387	91703587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	MIRb|SINE|MIR	19420.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	23.5	69.5	37.0	425.5	144.5	37.0	38.0	33.5
Merged-chr6-50536687-4	chr6	50536595	50536795	+	997.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29779.0	NM_007808	13063.0	Mm.35389	NM_007808	ENSMUSG00000063694	Cycs	-	cytochrome c, somatic	protein-coding	20.0	25.5	19.5	329.0	32.5	17.0	19.0	16.5
Merged-chr4-126017865-4	chr4	126017764	126017964	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6795.0	NR_045561	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	32.5	33.5	25.5	483.5	58.5	21.5	21.5	34.0
Merged-chr13-113509553-4	chr13	113509469	113509669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6725.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	150.5	256.0	214.0	2656.5	366.5	131.0	234.0	149.5
Merged-chr15-67415926-3	chr15	67415845	67416045	+	678.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERV3-16A3_I-int|LTR|ERVL	189176.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	5.5	13.0	5.0	208.5	10.0	9.5	2.0	5.0
Merged-chr14-106500858-1	chr14	106500758	106500958	+	662.0	f0_balb.idr	Intergenic	Intergenic	-14338.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	6.0	5.0	7.0	136.0	14.0	2.0	5.5	10.5
Merged-chr10-87688025-4	chr10	87687930	87688130	+	950.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	166235.0	NM_008777	18478.0	Mm.263539	NM_008777	ENSMUSG00000020051	Pah	AW106920	phenylalanine hydroxylase	protein-coding	3.5	16.5	16.5	262.5	48.5	22.5	28.5	16.5
Merged-chr1-134418670-4	chr1	134418561	134418761	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306069, intron 1 of 7)	intron (NM_001306069, intron 1 of 7)	2997.0	NM_001306069	72674.0	Mm.259976	NM_028320	ENSMUSG00000026457	Adipor1	2810031L11Rik|ACDCR1|CGI-45|Paqr1	adiponectin receptor 1	protein-coding	29.0	19.5	11.5	275.5	33.5	14.5	16.5	25.5
Merged-chr11-62217840-3	chr11	62217736	62217936	+	755.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029936, intron 12 of 12)	intron (NM_001029936, intron 12 of 12)	-31148.0	NM_007413	11541.0	Mm.40740	NM_007413	ENSMUSG00000018500	Adora2b	A2BAR|A2BR|A2b|AA2BR|AI480866|AI605384	adenosine A2b receptor	protein-coding	9.0	17.0	10.0	172.5	14.5	8.0	6.0	9.0
Merged-chr6-87850533-4	chr6	87850447	87850647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355195, intron 1 of 4)	CpG	559.0	NM_001109745	12785.0	Mm.290251	NM_013493	ENSMUSG00000030057	Cnbp	AA408710|Cnbp1|Znf9	cellular nucleic acid binding protein	protein-coding	20.5	37.0	36.0	237.0	50.0	28.0	30.5	41.0
Merged-chr9-65536276-4	chr9	65536172	65536372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43815.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	190.0	258.0	125.0	1931.0	408.5	145.0	182.5	150.5
Merged-chr10-96464808-4	chr10	96464663	96464863	+	715.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-152238.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	7.5	12.0	13.0	225.0	21.5	3.0	7.5	9.0
Merged-chr2-32917728-4	chr2	32917636	32917836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146119, intron 5 of 13)	intron (NM_146119, intron 5 of 13)	41602.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	153.5	228.5	125.5	2047.0	193.5	104.0	123.5	78.0
Merged-chr5-115336909-4	chr5	115336780	115336980	+	909.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029645, intron 1 of 2)	B1_Mus1|SINE|Alu	4281.0	NM_029645	384281.0	Mm.229308	NM_029645	ENSMUSG00000029536	Gatc	2010003O18Rik	glutamyl-tRNA(Gln) amidotransferase, subunit C	protein-coding	6.5	11.0	10.0	46.0	29.0	4.0	12.0	12.5
Merged-chr2-27595459-4	chr2	27595359	27595559	+	857.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80312.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	4.0	11.5	9.0	72.0	35.5	10.5	6.0	15.5
Merged-chr15-25900753-4	chr15	25900644	25900844	+	955.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 3 of 8)	intron (NM_001034851, intron 3 of 8)	-32808.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	9.5	22.0	13.0	200.5	37.5	13.5	21.0	7.5
Merged-chr3-28814588-2	chr3	28814488	28814688	+	855.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9080.0	NM_026517	68028.0	Mm.21724	NM_026517	ENSMUSG00000039221	Rpl22l1	3110001N18Rik|AU041196	ribosomal protein L22 like 1	protein-coding	7.0	23.5	5.5	81.5	20.0	7.5	8.5	4.0
Merged-chr18-56753664-4	chr18	56753563	56753763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010721)	TTS (NM_010721)	45850.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	43.0	68.0	63.5	754.5	81.5	20.0	44.0	48.5
Merged-chr4-16159747-4	chr4	16159657	16159857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138102, intron 1 of 11)	intron (NR_138102, intron 1 of 11)	3886.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	90.0	117.0	69.0	1931.5	194.0	76.5	124.0	79.0
Merged-chr2-157064205-4	chr2	157064110	157064310	+	909.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	15055.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	10.5	22.0	25.5	180.5	33.0	11.5	15.5	7.5
Merged-chr8-111562035-4	chr8	111561926	111562126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	intron (NM_001168623, intron 1 of 4)	23683.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	36.5	57.5	55.0	611.5	85.0	33.5	32.0	35.5
Merged-chr8-36816246-4	chr8	36816129	36816329	+	907.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 4 of 17)	intron (NM_001194940, intron 4 of 17)	-83175.0	NM_001194941	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	15.5	16.0	41.0	827.5	20.0	5.0	30.0	18.5
Merged-chr2-154773210-2	chr2	154773110	154773310	+	857.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR40c|LTR|ERVL	-17900.0	NM_001139512	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	6.0	23.5	7.0	42.0	24.0	13.0	7.0	1.5
Merged-chr19-46511436-4	chr19	46511336	46511536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053100, intron 1 of 5)	intron (NM_053100, intron 1 of 5)	9788.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	217.5	305.5	213.5	2668.5	470.0	168.0	224.0	167.0
Merged-chr13-114818192-4	chr13	114818040	114818240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013826)	promoter-TSS (NM_013826)	-97.0	NM_013826	17434.0	Mm.19027	NM_013826	ENSMUSG00000015536	Mocs2	AI415403	molybdenum cofactor synthesis 2	protein-coding	88.0	126.5	118.0	1590.5	212.5	99.0	106.5	93.5
Merged-chr10-62508612-4	chr10	62508461	62508661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011157)	promoter-TSS (NM_011157)	-804.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	15.5	24.5	16.5	260.5	57.0	13.0	12.5	15.0
Merged-chr11-8702007-4	chr11	8701937	8702137	+	966.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37502.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	7.0	8.0	8.0	62.0	76.0	26.0	39.0	26.0
Merged-chr18-10609674-1	chr18	10609574	10609774	+	1000.0	f0_balb.idr	intron (NM_001081222, intron 1 of 10)	CpG	678.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	17.5	31.0	29.5	272.5	47.5	28.0	24.5	21.5
Merged-chr7-110184857-4	chr7	110184768	110184968	+	920.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEi|LINE|L1	-36835.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	10.0	13.5	8.5	158.5	61.5	12.0	9.5	19.0
Merged-chr10-69212216-2	chr10	69212116	69212316	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081347)	promoter-TSS (NM_001081347)	-441.0	NM_001081347	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	12.0	21.0	6.0	132.5	36.5	16.0	16.5	11.0
Merged-chr11-99068658-4	chr11	99068582	99068782	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172564, intron 12 of 12)	B4A|SINE|B4	20624.0	NM_172564	217169.0	Mm.262067	NM_172564	ENSMUSG00000017607	Tns4	9930017A07Rik|AA589547|AU016405|Cten	tensin 4	protein-coding	14.5	7.0	15.5	239.0	49.5	9.5	13.5	31.5
Merged-chr2-73419374-3	chr2	73419253	73419453	+	691.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32873.0	NM_001276444	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	13.0	18.0	6.0	118.0	8.0	1.5	6.0	5.5
Merged-chr7-122067815-2	chr7	122067715	122067915	+	953.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026140)	promoter-TSS (NM_026140)	617.0	NM_138589	28018.0	Mm.282122	NM_138589	ENSMUSG00000030870	Ubfd1	AI467302|D7Wsu105e|D7Wsu128e|Ubph	ubiquitin family domain containing 1	protein-coding	3.0	5.0	16.0	76.0	19.0	5.0	5.5	15.5
Merged-chr11-4544524-4	chr11	4544468	4544668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 1 of 17)	B2_Mm2|SINE|B2	50247.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	34.0	60.5	31.5	549.5	96.5	30.5	38.0	54.5
Merged-chr12-41315152-4	chr12	41315066	41315266	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	170891.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	19.0	26.0	44.5	355.5	60.0	12.0	15.0	9.0
Merged-chr17-47766805-4	chr17	47766705	47766905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-18939.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	60.5	94.5	48.0	793.5	144.5	51.0	53.5	49.5
Merged-chr6-58916748-4	chr6	58916633	58916833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361966, intron 24 of 25)	intron (NM_001361966, intron 24 of 25)	-9607.0	NM_021432	58243.0	Mm.389747	NM_021432	ENSMUSG00000055430	Nap1l5	1110020M21Rik	nucleosome assembly protein 1-like 5	protein-coding	58.0	91.0	146.0	2195.0	216.0	79.0	95.0	75.0
Merged-chr3-31090187-4	chr3	31090076	31090276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4882.0	NM_001039090	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	26.0	42.0	22.5	321.5	124.5	56.5	62.5	58.0
Merged-chr6-113326757-4	chr6	113326630	113326830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_149720)	promoter-TSS (NR_149720)	-246.0	NR_149720	18294.0	Mm.43612	NM_010957	ENSMUSG00000030271	Ogg1	Mmh	8-oxoguanine DNA-glycosylase 1	protein-coding	276.0	328.5	255.5	3887.5	603.0	276.0	252.5	230.0
Merged-chr6-83586630-2	chr6	83586530	83586730	+	829.099976	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_078345, exon 8 of 8)	non-coding (NR_078345, exon 8 of 8)	-14126.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	9.5	11.0	8.0	56.5	19.5	6.5	6.0	3.5
Merged-chr16-32547762-1	chr16	32547662	32547862	+	795.75	f0_balb.idr	Intergenic	Intergenic	51481.0	NM_199309	245308.0	Mm.76859	NM_199309	ENSMUSG00000052363	Zdhhc19	Gm1744|Gm616	zinc finger, DHHC domain containing 19	protein-coding	11.0	10.0	17.0	120.0	8.0	3.0	3.0	3.5
Merged-chr11-60454656-4	chr11	60454579	60454779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021354)	promoter-TSS (NM_021354)	88.0	NM_021354	13495.0	Mm.41803	NM_021354	ENSMUSG00000020537	Drg2	AI255295|AI461605|DRG-2	developmentally regulated GTP binding protein 2	protein-coding	24.0	29.5	23.0	252.5	66.0	18.0	17.5	25.5
Merged-chr7-30419659-4	chr7	30419557	30419757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011827, intron 1 of 3)	intron (NM_011827, intron 1 of 3)	197.0	NM_011827	23900.0	Mm.379050	NM_011827	ENSMUSG00000064109	Hcst	DAP10|KAP10	hematopoietic cell signal transducer	protein-coding	75.0	108.0	114.5	843.0	203.5	61.0	91.0	77.0
Merged-chr6-125096080-4	chr6	125095954	125096154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145979)	promoter-TSS (NM_145979)	73.0	NM_001346610	107932.0	Mm.333388	NM_145979	ENSMUSG00000063870	Chd4	9530019N15Rik|AA617397|BC005710|D6Ertd380e|Mi-2beta|mKIAA4075	chromodomain helicase DNA binding protein 4	protein-coding	59.5	118.0	43.5	425.0	183.5	73.0	70.5	43.0
Merged-chr19-5844480-2	chr19	5844380	5844580	+	1000.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_003513, exon 1 of 1)	non-coding (NR_003513, exon 1 of 1)	998.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	25.5	45.0	25.0	271.0	62.0	40.5	28.0	51.5
Merged-chr15-6571081-4	chr15	6570962	6571162	+	975.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8785.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	10.0	37.5	12.0	271.0	57.0	21.0	20.0	23.0
Merged-chr15-80233966-4	chr15	80233861	80234061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178719)	promoter-TSS (NM_178719)	-119.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	248.0	380.5	212.5	2928.5	602.0	213.5	256.5	193.5
Merged-chr3-152262169-4	chr3	152262073	152262273	+	942.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199465, intron 1 of 12)	intron (NM_199465, intron 1 of 12)	3622.0	NM_001357206	68810.0	Mm.200188	NM_199465	ENSMUSG00000039103	Nexn	1110046H09Rik|AA553326|NELIN	nexilin	protein-coding	25.5	23.5	21.5	420.0	52.0	9.5	15.0	15.0
Merged-chr5-134101743-1	chr5	134101643	134101843	+	552.0	f0_c57.idr	intron (NM_030719, intron 1 of 8)	intron (NM_030719, intron 1 of 8)	1995.0	NM_030719	80909.0	Mm.45218	NM_030719	ENSMUSG00000015944	Gatsl2	7530428J21Rik|AW742413|Castor2|Gats|Gatsl1	GATS protein-like 2	protein-coding	13.0	10.0	5.5	89.5	20.0	2.0	9.5	6.5
Merged-chr14-60432340-3	chr14	60432176	60432376	+	896.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	53990.0	NM_001164705	72125.0	Mm.275499	NM_028113	ENSMUSG00000021986	Amer2	2600011E07Rik|Fam123a	APC membrane recruitment 2	protein-coding	4.5	3.5	1.0	41.0	8.0	8.5	10.0	11.0
Merged-chr7-90212953-4	chr7	90212851	90213051	+	933.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52481.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	7.0	5.5	8.0	172.0	32.5	7.0	18.0	24.5
Merged-chr7-45053379-4	chr7	45053230	45053430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175022)	promoter-TSS (NM_175022)	-449.0	NM_175022	233210.0	Mm.219137	NM_175022	ENSMUSG00000046574	Prr12	6720469B10|BC058674	proline rich 12	protein-coding	66.0	91.0	34.5	566.0	162.5	69.5	54.0	71.5
Merged-chr8-69092998-5	chr8	69092856	69093056	+	787.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007509, intron 1 of 13)	intron (NM_007509, intron 1 of 13)	-3734.0	NM_153054	110877.0	Mm.19301	NM_153054	ENSMUSG00000036330	Slc18a1	4832416I10Rik|Vat1|Vmat1	solute carrier family 18 (vesicular monoamine), member 1	protein-coding	3.5	5.0	1.0	91.0	12.5	5.5	4.5	5.5
Merged-chr16-32333357-3	chr16	32333252	32333452	+	792.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177633, intron 1 of 10)	UCON11|Unknown|Unknown	1100.0	NM_177633	224111.0	Mm.31275	NM_177633	ENSMUSG00000053774	Ubxn7	A630090P18|AI196514|Ubxd7|mKIAA0794	UBX domain protein 7	protein-coding	7.0	6.5	5.5	89.0	25.0	1.0	5.5	6.0
Merged-chr1-172377227-4	chr1	172377111	172377311	+	963.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026234, exon 1 of 1)	exon (NM_026234, exon 1 of 1)	680.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	21.0	9.5	27.0	187.5	26.0	11.5	11.0	16.0
Merged-chr17-26660469-2	chr17	26660369	26660569	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15927.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	5.5	17.0	6.0	27.0	16.5	3.5	5.0	6.5
Merged-chr8-84737819-4	chr8	84737735	84737935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081982, intron 2 of 9)	intron (NM_001081982, intron 2 of 9)	36378.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	68.5	113.5	81.0	1241.5	154.5	67.5	80.0	73.0
Merged-chr2-164912326-4	chr2	164912219	164912419	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199027)	promoter-TSS (NM_199027)	-569.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	22.5	23.0	31.0	314.5	31.5	14.0	21.5	28.5
Merged-chr8-117340431-4	chr8	117340344	117340544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-8726.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	131.0	145.5	141.5	2284.5	259.0	66.5	125.5	122.5
Merged-chr15-68168000-4	chr15	68167903	68168103	+	985.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 8 of 13)	intron (NR_152182, intron 8 of 13)	90853.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	25.5	23.5	35.5	658.5	28.0	14.5	22.5	21.0
Merged-chr14-76153501-2	chr14	76153401	76153601	+	972.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	42610.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	8.0	8.0	7.5	47.0	10.5	0.0	1.0	10.0
Merged-chr1-62707143-3	chr1	62707056	62707256	+	773.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 1 of 16)	intron (NM_001077404, intron 1 of 16)	3839.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	7.0	20.0	11.5	94.0	18.5	4.5	3.5	5.0
Merged-chr14-25470840-1	chr14	25470740	25470940	+	719.0	f0_balb.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	11655.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	12.0	12.5	14.5	132.5	17.0	10.0	6.0	11.5
Merged-chr1-74380559-4	chr1	74380459	74380659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013612, intron 6 of 14)	intron (NM_013612, intron 6 of 14)	5356.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	19.0	32.0	17.5	342.5	48.5	27.0	31.0	41.0
Merged-chr13-76262637-3	chr13	76262546	76262746	+	927.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-122315.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	10.0	29.5	16.0	201.5	1.5	0.0	1.5	1.0
Merged-chr17-50876615-4	chr17	50876517	50876717	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 13 of 21)	intron (NM_028162, intron 13 of 21)	177936.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	19.5	27.5	16.5	213.0	27.5	14.5	21.5	11.5
Merged-chr1-161482392-4	chr1	161482271	161482471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12286.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	58.5	93.5	52.0	1173.0	120.0	51.0	58.0	47.5
Merged-chr2-103504602-4	chr2	103504494	103504694	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19441.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	16.0	14.5	8.0	291.0	39.0	14.0	11.0	16.0
Merged-chr6-113649600-4	chr6	113649494	113649694	+	968.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	11127.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	23.5	70.0	30.0	394.0	56.0	19.5	15.5	10.0
Merged-chr5-28038440-3	chr5	28038317	28038517	+	867.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32995.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	6.0	15.0	5.5	59.0	13.5	11.0	4.5	11.5
Merged-chr4-32170954-3	chr4	32170827	32171027	+	799.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206820.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	10.0	6.5	6.5	67.5	14.5	8.5	10.5	9.0
Merged-chr13-21811781-3	chr13	21811681	21811881	+	889.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175657)	promoter-TSS (NM_175657)	-3.0	NM_175657	319161.0	Mm.261664	NM_175657	ENSMUSG00000069305	Hist1h4n	-	histone cluster 1, H4n	protein-coding	0.0	0.0	0.0	0.0	91.0	22.5	53.5	27.5
Merged-chr9-60794429-3	chr9	60794307	60794507	+	973.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028283)	promoter-TSS (NM_028283)	-35.0	NM_001357408	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	17.5	22.5	11.5	268.5	24.0	13.0	8.5	8.5
Merged-chr12-84192517-4	chr12	84192478	84192678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	1437.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	19.0	31.0	34.5	386.5	65.5	27.5	19.0	21.5
Merged-chr7-100465678-6	chr7	100465571	100465771	+	926.7037349999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 32 of 32)	intron (NM_001017985, intron 32 of 32)	-7320.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	12.0	8.5	9.0	139.5	6.5	5.0	8.0	5.0
Merged-chr15-100616019-4	chr15	100615933	100616133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045701)	promoter-TSS (NR_045701)	371.0	NM_011873	23994.0	Mm.486175	NM_011873	ENSMUSG00000000346	Dazap2	AI314727|Brbp|Gcap28|Prtb|gt6-12|mKIAA0058	DAZ associated protein 2	protein-coding	80.5	125.5	68.0	981.0	251.0	105.0	104.5	98.5
Merged-chr2-77284615-4	chr2	77284517	77284717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAA)n|Simple_repeat|Simple_repeat	-4025.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	125.5	166.0	59.5	1000.5	271.5	100.5	92.0	79.5
Merged-chr3-38112765-4	chr3	38112662	38112862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95357.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	31.0	46.5	37.5	887.0	104.0	28.0	21.0	44.5
Merged-chr11-98829590-4	chr11	98829498	98829698	+	822.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138660, intron 11 of 13)	intron (NM_138660, intron 11 of 13)	-7187.0	NM_001080925	268480.0	Mm.340766	NM_001080925	ENSMUSG00000038020	Rapgefl1	B230105J10	Rap guanine nucleotide exchange factor (GEF)-like 1	protein-coding	14.0	12.0	8.0	183.0	29.0	8.0	8.5	10.0
Merged-chr8-71367483-4	chr8	71367385	71367585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025917, intron 1 of 7)	intron (NM_025917, intron 1 of 7)	268.0	NM_025917	67023.0	Mm.41890	NM_025917	ENSMUSG00000002395	Use1	2010315L10Rik|5730403H22Rik|AV002165|D12|Ed2|Q-snare|p31	unconventional SNARE in the ER 1 homolog (S. cerevisiae)	protein-coding	68.5	113.5	59.5	1023.5	249.0	105.5	110.0	95.0
Merged-chr7-106236464-3	chr7	106236314	106236514	+	583.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21074.0	NM_029000	74558.0	Mm.458429	NM_029000	ENSMUSG00000045868	Gvin1	9130002C22Rik|9830104F22Rik|Iigs1|VLIG|VLIG-1	GTPase, very large interferon inducible 1	protein-coding	3.5	1.5	8.5	74.5	10.5	4.5	7.5	12.5
Merged-chr6-115909256-3	chr6	115909160	115909360	+	754.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167763, intron 17 of 28)	intron (NM_001167763, intron 17 of 28)	-22667.0	NM_145383	212541.0	Mm.2965	NM_145383	ENSMUSG00000030324	Rho	Noerg1|Opn2|Ops|RP4	rhodopsin	protein-coding	10.0	29.0	7.0	190.0	20.0	4.5	8.0	2.5
Merged-chr7-92876788-4	chr7	92876708	92876908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	intron (NM_028243, intron 1 of 8)	1555.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	21.5	41.5	20.0	329.5	87.0	23.0	40.0	26.5
Merged-chr3-19215896-4	chr3	19215789	19215989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356295, intron 5 of 7)	intron (NM_001356295, intron 5 of 7)	27594.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	64.5	60.5	59.5	1073.0	126.0	24.0	58.0	48.5
Merged-chr12-79744308-4	chr12	79744233	79744433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 8 of 10)	intron (NM_009014, intron 8 of 10)	180400.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	21.5	41.5	23.0	353.5	56.0	19.5	30.5	30.5
Merged-chr10-128369023-4	chr10	128368911	128369111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081040, exon 1 of 5)	5' UTR (NM_001081040, exon 1 of 5)	1026.0	NM_001081040	210582.0	Mm.296876	NM_001081040	ENSMUSG00000039914	Coq10a	Gm1	coenzyme Q10A	protein-coding	79.5	169.5	77.5	1496.5	215.5	82.5	114.0	92.0
Merged-chr3-154817920-2	chr3	154817820	154818020	+	704.083313	f1_balb.idr|f1_c57bl6.idr	intron (NM_177066, intron 23 of 24)	intron (NM_177066, intron 23 of 24)	106787.0	NM_175176	209601.0	Mm.331454	NM_175176	ENSMUSG00000078161	Erich3	1700013E18Rik|4922501L14Rik|5031409G23Rik|AI596448|Gm133	glutamate rich 3	protein-coding	2.0	4.5	2.5	34.0	12.5	9.0	11.5	9.5
Merged-chr16-38432959-7	chr16	38432831	38433031	+	967.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134102, exon 1 of 11)	5' UTR (NM_134102, exon 1 of 11)	214.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	11.0	13.0	18.5	154.5	26.0	7.5	14.5	17.5
Merged-chr6-87998057-4	chr6	87997931	87998131	+	877.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16348.0	NR_026990	434064.0	Mm.371796	NR_026990	ENSMUSG00000084950	Gm5577	EG434064	predicted gene 5577	ncRNA	13.0	3.5	10.5	104.5	21.0	13.0	9.0	12.0
Merged-chr4-32615335-4	chr4	32615228	32615428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122978)	promoter-TSS (NM_001122978)	-142.0	NM_001122978	26885.0	Mm.22279	NM_011997	ENSMUSG00000028282	Casp8ap2	D4Ertd659e|FLASH	caspase 8 associated protein 2	protein-coding	460.0	660.5	505.5	7082.5	1028.0	453.0	499.0	431.0
Merged-chr8-105860510-4	chr8	105860424	105860624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357229)	promoter-TSS (NM_001357229)	-9.0	NM_026532	68051.0	Mm.455474	NM_026532	ENSMUSG00000008450	Nutf2	2700067I02Rik|AI115459|AI413596|AW546000|Ntf2|Ntf3|PP15	nuclear transport factor 2	protein-coding	228.0	263.0	181.5	3370.0	521.0	222.0	224.5	236.0
Merged-chr5-138195700-4	chr5	138195600	138195800	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177878)	TTS (NM_177878)	1386.0	NM_177878	330216.0	Mm.19719	NM_177878	ENSMUSG00000049285	Mblac1	-	metallo-beta-lactamase domain containing 1	protein-coding	27.0	38.0	27.0	296.0	46.0	13.5	28.0	23.5
Merged-chr3-65549914-4	chr3	65549808	65550008	+	896.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178892, intron 4 of 5)	intron (NM_178892, intron 4 of 5)	-20494.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	17.0	13.5	20.5	332.0	23.0	11.5	11.5	20.0
Merged-chr12-100936334-4	chr12	100936232	100936432	+	894.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026681, intron 20 of 29)	intron (NM_026681, intron 20 of 29)	-28134.0	NM_001177673	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	6.5	20.5	17.0	210.0	14.5	7.5	12.5	15.0
Merged-chr19-11818437-4	chr19	11818316	11818516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	987.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	32.0	56.0	19.0	383.0	49.0	26.5	25.0	35.0
Merged-chr14-26455077-4	chr14	26454983	26455183	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 12 of 22)	intron (NM_001310445, intron 12 of 22)	79541.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	30.5	27.0	19.5	498.5	27.5	23.5	20.5	7.0
Merged-chr9-119335079-4	chr9	119334993	119335193	+	878.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010851)	TTS (NM_010851)	4947.0	NM_010851	17874.0	Mm.213003	NM_010851	ENSMUSG00000032508	Myd88	-	myeloid differentiation primary response gene 88	protein-coding	3.0	2.5	17.0	115.5	28.5	13.0	7.5	18.0
Merged-chr7-99798442-2	chr7	99798342	99798542	+	639.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29975.0	NM_016720	50877.0	Mm.103703	NM_016720	ENSMUSG00000035239	Neu3	-	neuraminidase 3	protein-coding	0.5	7.0	2.0	53.5	15.0	6.0	4.5	5.5
Merged-chr6-53995724-4	chr6	53995634	53995834	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110484, intron 1 of 3)	MLT1H2|LTR|ERVL-MaLR	17043.0	NR_110484	320178.0	Mm.320413	NR_110484	ENSMUSG00000108060	4921529L05Rik	4930590G02Rik	RIKEN cDNA 4921529L05 gene	ncRNA	13.0	14.5	24.5	225.5	67.0	14.5	29.5	27.5
Merged-chr13-115136968-4	chr13	115136879	115137079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35015.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	24.5	53.0	53.5	620.0	87.5	27.5	29.0	35.5
Merged-chr2-30214958-4	chr2	30214862	30215062	+	892.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9115.0	NM_172404	70266.0	Mm.216089	NM_172404	ENSMUSG00000039648	Kyat1	2010009K05Rik|AI182306|Ccbl1|Gtk|Kat1|KatI	kynurenine aminotransferase 1	protein-coding	28.0	72.0	21.5	114.0	30.5	10.5	8.0	4.5
Merged-chr6-29557302-4	chr6	29557185	29557385	+	845.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177296, intron 17 of 22)	A-rich|Low_complexity|Low_complexity	28003.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	14.5	11.5	2.5	92.5	43.0	6.5	11.0	11.0
Merged-chr1-131526594-4	chr1	131526473	131526673	+	994.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 1 of 22)	CpG	788.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	27.0	18.5	16.5	182.0	40.0	11.0	25.0	31.0
Merged-chr2-124627910-4	chr2	124627812	124628012	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	B4A|SINE|B4	17616.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	32.5	36.5	34.0	590.0	95.5	33.5	22.0	12.0
Merged-chr17-24737671-4	chr17	24737570	24737770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013759, intron 1 of 4)	intron (NM_013759, intron 1 of 4)	1077.0	NM_001346668	27361.0	Mm.28212	NM_013759	ENSMUSG00000075705	Msrb1	D17Wsu82e|SELX|SelR|Sepr|Sepx1	methionine sulfoxide reductase B1	protein-coding	86.5	144.5	52.5	986.0	164.0	46.0	53.5	66.0
Merged-chr11-103249063-3	chr11	103248977	103249177	+	817.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	18324.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	5.5	9.0	13.0	98.0	15.5	1.5	7.5	3.5
Merged-chr12-95747057-4	chr12	95746947	95747147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	54821.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	81.5	121.0	61.0	1374.5	183.5	71.5	98.5	73.5
Merged-chr16-72980029-4	chr16	72979923	72980123	+	909.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019413, intron 15 of 28)	intron (NM_019413, intron 15 of 28)	316874.0	NM_019413	19876.0	Mm.310772	NM_019413	ENSMUSG00000022883	Robo1	AW494633|AW742721|DUTT1|Gm310	roundabout guidance receptor 1	protein-coding	4.5	11.0	10.5	202.5	50.5	9.0	13.5	7.0
Merged-chr4-125144393-4	chr4	125144304	125144504	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16523.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	12.0	24.5	6.0	271.0	47.5	16.0	17.5	13.5
Merged-chr12-105968214-3	chr12	105968112	105968312	+	887.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42051.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	0.0	5.5	7.5	27.0	21.5	7.5	8.0	5.0
Merged-chr1-88631673-4	chr1	88631567	88631767	+	962.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70524.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	12.5	12.0	20.5	222.0	34.0	7.5	15.0	11.0
Merged-chr11-97698871-4	chr11	97698784	97698984	+	726.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163307, intron 1 of 10)	intron (NM_001163307, intron 1 of 10)	500.0	NM_001163307	22658.0	Mm.2418	NM_009545	ENSMUSG00000018537	Pcgf2	Mel18|Rnf110|Zfp144|mel-18	polycomb group ring finger 2	protein-coding	3.0	10.5	7.5	74.0	10.0	12.0	6.5	12.5
Merged-chr7-80075051-4	chr7	80075104	80075304	+	996.357178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045695)	promoter-TSS (NR_045695)	53.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	11.0	37.5	12.5	163.5	43.5	26.5	14.5	25.0
Merged-chr11-121685979-3	chr11	121685877	121686077	+	824.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12826.0	NM_178664	210004.0	Mm.386847	NM_178664	ENSMUSG00000046605	B3gntl1	6030413G23Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase-like 1	protein-coding	4.0	11.5	1.5	71.5	8.0	5.5	10.5	9.5
Merged-chr15-5106540-2	chr15	5106440	5106640	+	975.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163138, intron 2 of 3)	B2_Mm2|SINE|B2	1993.0	NM_001163138	239319.0	Mm.31252	NM_001163138	ENSMUSG00000041849	Card6	D730008L15	caspase recruitment domain family, member 6	protein-coding	9.0	7.0	5.5	136.0	14.5	7.0	8.5	8.0
Merged-chr7-105399160-4	chr7	105399067	105399267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242363, intron 1 of 12)	intron (NM_001242363, intron 1 of 12)	887.0	NM_001242364	74349.0	Mm.30254	NM_199009	ENSMUSG00000044465	Fam160a2	4632419K20Rik|6530415H11Rik|FHIP	family with sequence similarity 160, member A2	protein-coding	101.5	145.0	107.5	1784.0	295.0	85.5	85.5	110.5
Merged-chr6-146170829-5	chr6	146170698	146170898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 51 of 56)	ORR1E|LTR|ERVL-MaLR	236676.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	36.5	61.0	59.5	491.5	44.0	40.0	35.0	28.0
Merged-chr11-53891844-4	chr11	53891742	53891942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011396)	promoter-TSS (NM_011396)	-139.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	318.0	482.0	288.5	3646.0	660.0	282.5	312.0	213.5
Merged-chr6-16842693-3	chr6	16842592	16842792	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 4 of 6)	intron (NM_031198, intron 4 of 6)	55749.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	15.0	9.0	6.0	185.0	17.5	2.0	6.0	5.5
Merged-chr15-86250468-3	chr15	86250373	86250573	+	909.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 4 of 12)	intron (NM_145476, intron 4 of 12)	-27202.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	7.5	13.5	11.0	118.0	16.0	6.5	5.0	7.0
Merged-chr16-18235615-3	chr16	18235501	18235701	+	846.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172151)	promoter-TSS (NM_172151)	-465.0	NM_172151	27801.0	Mm.326263	NM_172151	ENSMUSG00000060166	Zdhhc8	D16H22S1738E|DHHC-8|E330009O14Rik|Op53c05|ZDHHCL1	zinc finger, DHHC domain containing 8	protein-coding	6.0	5.5	14.0	52.0	10.0	8.0	7.0	8.0
Merged-chr2-32134228-4	chr2	32134100	32134300	+	793.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16948.0	NM_172661	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	13.5	13.0	1.0	69.5	18.0	6.5	5.5	9.0
Merged-chr9-7846942-4	chr9	7846846	7847046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9889.0	NM_007465	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	23.0	71.0	38.0	282.0	124.0	45.0	37.0	29.5
Merged-chr17-22866510-4	chr17	22866396	22866596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177358, intron 1 of 5)	intron (NM_177358, intron 1 of 5)	638.0	NM_177358	240041.0	Mm.328828	NM_177358	ENSMUSG00000059142	Zfp945	A630033E08Rik|C730040L01Rik	zinc finger protein 945	protein-coding	38.5	48.0	21.0	636.0	136.5	29.5	33.0	23.5
Merged-chr7-141444115-4	chr7	141444022	141444222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360523)	promoter-TSS (NM_001360523)	-97.0	NR_153591	57913.0	Mm.334321	NM_022654	ENSMUSG00000025507	Pidd1	1200011D09Rik|AU042446|Lrdd|Pidd	p53 induced death domain protein 1	protein-coding	59.0	52.5	50.0	670.5	73.0	17.5	32.0	34.5
Merged-chr12-73621914-4	chr12	73621812	73622012	+	788.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	37116.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	14.0	17.0	9.0	130.5	31.5	8.0	25.0	12.0
Merged-chr10-67097989-3	chr10	67097884	67098084	+	958.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204915)	promoter-TSS (NM_001204915)	-996.0	NM_178606	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	13.5	11.0	9.5	157.0	19.0	5.0	16.0	6.0
Merged-chr3-88522260-4	chr3	88522158	88522358	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10137.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	12.0	14.5	4.0	169.0	35.0	13.0	16.5	23.0
Merged-chr7-100818726-3	chr7	100818630	100818830	+	898.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178764, intron 4 of 8)	intron (NM_178764, intron 4 of 8)	44683.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	8.0	13.5	6.5	151.0	22.5	4.5	6.5	3.5
Merged-chr13-110568669-4	chr13	110568572	110568772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173628.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	120.0	222.0	128.0	2247.5	379.5	141.5	172.0	115.0
Merged-chr6-129238036-4	chr6	129237930	129238130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040265)	promoter-TSS (NR_040265)	15.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	36.5	57.0	25.0	409.0	79.0	30.0	38.5	35.0
Merged-chr6-120155641-4	chr6	120155532	120155732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-38191.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	79.5	94.5	54.5	899.0	172.0	61.0	84.5	92.5
Merged-chr5-74790447-2	chr5	74790326	74790526	+	756.200012	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87523.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	7.5	11.0	15.0	118.0	0.0	0.5	1.0	0.0
Merged-chr18-24039592-4	chr18	24039496	24039696	+	719.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18783.0	NM_021559	59057.0	Mm.417427	NM_021559	ENSMUSG00000051469	Zfp24	3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf24	zinc finger protein 24	protein-coding	9.0	22.5	11.5	192.0	24.5	10.5	13.5	14.5
Merged-chr1-61141109-4	chr1	61141025	61141225	+	992.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163211.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	22.0	54.0	23.5	177.5	132.0	47.5	45.5	10.5
Merged-chr4-117682155-3	chr4	117682025	117682225	+	910.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023178)	promoter-TSS (NM_023178)	100.0	NM_023178	66233.0	Mm.29142	NM_023178	ENSMUSG00000009640	Dmap1	1500016M21Rik|DNMAP1|DNMTAP1|Dmtap1|mKIAA1425	DNA methyltransferase 1-associated protein 1	protein-coding	5.0	12.0	2.5	59.5	27.5	6.5	10.5	10.5
Merged-chr13-112186591-3	chr13	112186489	112186689	+	807.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-101862.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	17.0	5.0	13.5	110.5	13.5	4.5	5.5	9.5
Merged-chr13-106836349-4	chr13	106836244	106836444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360897, intron 28 of 30)	intron (NM_001360897, intron 28 of 30)	100614.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	107.0	61.0	57.5	1519.5	123.0	40.0	67.0	58.0
Merged-chr5-105506630-3	chr5	105506535	105506735	+	866.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC-int|LTR|ERVL-MaLR	-12836.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	6.5	12.5	19.0	291.5	2.0	0.0	1.0	1.0
Merged-chr14-13961149-4	chr14	13961044	13961244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359900, intron 1 of 8)	CpG	169.0	NM_001285780	66231.0	Mm.295875	NM_025435	ENSMUSG00000053453	Thoc7	Nif3l1bp1	THO complex 7	protein-coding	27.5	40.0	66.5	563.5	46.0	27.5	24.5	22.0
Merged-chr5-64102770-3	chr5	64102664	64102864	+	941.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025700, intron 3 of 13)	ID|SINE|ID	9825.0	NM_001356964	66681.0	Mm.2325	NM_025700	ENSMUSG00000029171	Pgm1	3230402E02Rik|Pgm-1|Pgm2	phosphoglucomutase 1	protein-coding	12.5	11.5	19.0	417.0	15.5	8.5	8.0	18.0
Merged-chr12-4195413-4	chr12	4195354	4195554	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 6 of 21)	intron (NM_001159537, intron 6 of 21)	38511.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	32.5	20.0	23.0	317.5	29.5	9.0	13.5	9.5
Merged-chr7-19818559-4	chr7	19818437	19818637	+	918.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033601, intron 2 of 8)	intron (NM_033601, intron 2 of 8)	4218.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	13.5	20.0	19.0	120.5	17.0	6.5	7.0	14.5
Merged-chr11-103253762-2	chr11	103253662	103253862	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 1 of 15)	intron (NM_016896, intron 1 of 15)	13639.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	11.0	12.0	7.5	79.0	14.5	7.5	3.0	8.0
Merged-chr19-8980971-4	chr19	8980875	8981075	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8309.0	NR_104460	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	26.5	23.5	20.5	207.0	59.0	20.5	38.0	10.5
Merged-chr13-111807230-3	chr13	111807123	111807323	+	923.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	1770.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	10.0	17.0	20.5	213.5	42.5	7.5	6.5	13.5
Merged-chr1-143916710-4	chr1	143916607	143916807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87442.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	100.0	117.0	116.0	2177.0	232.5	68.0	94.5	86.5
Merged-chr16-45666362-4	chr16	45666265	45666465	+	974.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172455, intron 12 of 17)	Lx7|LINE|L1	-12247.0	NM_145389	212998.0	Mm.97511	NM_145389	ENSMUSG00000033187	BC016579	-	cDNA sequence, BC016579	protein-coding	9.0	14.0	14.0	432.5	91.0	30.5	60.0	36.0
Merged-chr13-58618731-3	chr13	58618628	58618828	+	880.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7851.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	4.5	13.0	5.0	60.0	36.5	15.0	4.5	7.0
Merged-chr15-89374055-4	chr15	89373923	89374123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111288)	promoter-TSS (NM_001111288)	-205.0	NM_001111288	100126824.0	Mm.287977	NM_001111288	ENSMUSG00000091780	Sco2	-	SCO2 cytochrome c oxidase assembly protein	protein-coding	37.5	42.5	42.0	497.0	94.5	30.0	35.0	55.0
Merged-chr9-108492225-3	chr9	108492124	108492324	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168373, intron 1 of 26)	intron (NM_001168373, intron 1 of 26)	1548.0	NM_001168373	71472.0	Mm.289706	NM_027804	ENSMUSG00000006676	Usp19	8430421I07Rik|AI047774|Zmynd9	ubiquitin specific peptidase 19	protein-coding	2.0	3.0	2.5	33.5	66.0	13.0	27.5	28.0
Merged-chr5-104005220-4	chr5	104005130	104005330	+	920.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053262, intron 4 of 6)	intron (NM_053262, intron 4 of 6)	16566.0	NM_053262	114664.0	Mm.46019	NM_053262	ENSMUSG00000029311	Hsd17b11	Dhrs8|Pan1b|SDR2|retSDR2	hydroxysteroid (17-beta) dehydrogenase 11	protein-coding	3.0	20.5	5.5	176.0	42.0	10.5	15.5	25.0
Merged-chr10-21976552-4	chr10	21976457	21976657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 3 of 13)	intron (NM_001161845, intron 3 of 13)	-2115.0	NM_001161847	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	127.5	131.0	158.5	1886.5	147.0	70.5	106.5	70.0
Merged-chr7-45163927-3	chr7	45163822	45164022	+	946.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182993)	promoter-TSS (NM_182993)	1.0	NM_182993	72961.0	Mm.255631	NM_182993	ENSMUSG00000070570	Slc17a7	2900052E22Rik|AI851913|Vglut1	solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 7	protein-coding	21.5	10.5	10.5	155.0	15.0	4.0	11.0	10.0
Merged-chr8-33968478-4	chr8	33968400	33968600	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-38637.0	NM_001042675	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	26.5	40.0	29.5	539.0	24.5	12.5	17.0	17.0
Merged-chr2-109280712-4	chr2	109280624	109280824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139303)	promoter-TSS (NM_139303)	-14.0	NM_139303	228421.0	Mm.274086	NM_139303	ENSMUSG00000027115	Kif18a	AU024633|B130001M12Rik|gcd2	kinesin family member 18A	protein-coding	163.0	245.5	175.5	3151.0	522.0	178.0	230.5	181.5
Merged-chr8-72169402-4	chr8	72169283	72169483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023126, intron 2 of 7)	PB1D10|SINE|Alu	8183.0	NM_023126	17274.0	Mm.162811	NM_023126	ENSMUSG00000003037	Rab8a	AA409338|Mel	RAB8A, member RAS oncogene family	protein-coding	80.5	197.5	89.5	1068.0	204.0	58.0	102.0	63.5
Merged-chr19-5801954-5	chr19	5801824	5802024	+	848.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_002847, exon 1 of 1)	non-coding (NR_002847, exon 1 of 1)	748.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	13.0	11.0	5.5	84.5	59.5	10.5	4.0	16.5
Merged-chr3-95855860-4	chr3	95855780	95855980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027541)	promoter-TSS (NM_027541)	5.0	NM_001316751	70767.0	Mm.279872	NM_027541	ENSMUSG00000015748	Prpf3	3632413F13Rik	pre-mRNA processing factor 3	protein-coding	82.0	87.5	45.0	851.0	178.5	65.5	78.0	63.5
Merged-chr1-180936933-4	chr1	180936833	180937033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010094, intron 2 of 3)	intron (NM_010094, intron 2 of 3)	1911.0	NM_010094	13590.0	Mm.378911	NM_010094	ENSMUSG00000038793	Lefty1	AI450052|Ebaf|Leftb|Stra3|Tgfb4|lefty|lefty-1	left right determination factor 1	protein-coding	33.0	38.0	29.0	349.0	69.0	19.0	33.0	28.5
Merged-chr2-144594050-4	chr2	144593981	144594181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033297)	promoter-TSS (NM_001033297)	16.0	NM_001033297	228715.0	Mm.27391	NM_001033297	ENSMUSG00000074754	Smim26	Gm561	small integral membrane protein 26	protein-coding	80.0	70.5	60.5	1093.0	135.0	38.5	66.0	67.5
Merged-chr13-17993331-4	chr13	17993239	17993439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025904)	promoter-TSS (NM_025904)	12.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	67.0	106.0	81.0	1160.0	227.0	62.5	109.5	79.5
Merged-chr1-157560830-3	chr1	157560724	157560924	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027641, exon 20 of 27)	non-coding (NR_027641, exon 20 of 27)	34654.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	6.0	14.0	10.5	133.5	16.0	5.5	3.5	4.5
Merged-chr8-70753312-4	chr8	70753203	70753403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1376.0	NM_001328047	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	35.5	43.0	34.0	749.5	85.0	28.5	31.0	41.5
Merged-chr9-44514289-4	chr9	44514191	44514391	+	977.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007551, exon 2 of 2)	exon (NM_007551, exon 2 of 2)	12130.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	43.0	68.5	23.0	280.5	64.5	29.5	15.0	31.5
Merged-chr16-33158588-4	chr16	33158473	33158673	+	916.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26498.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	11.5	24.5	8.5	249.0	42.5	14.0	12.0	14.0
Merged-chr17-26123442-4	chr17	26123356	26123556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024227)	promoter-TSS (NM_024227)	-47.0	NM_024227	68611.0	Mm.273102	NM_024227	ENSMUSG00000024181	Mrpl28	1110015G04Rik|L28mt|MAAT1|MRP-L28|p15	mitochondrial ribosomal protein L28	protein-coding	72.5	113.5	46.0	654.0	167.5	59.0	47.0	44.5
Merged-chr2-118388478-4	chr2	118388363	118388563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177806)	promoter-TSS (NM_001177806)	-154.0	NM_001355383	27103.0	Mm.217616	NM_013719	ENSMUSG00000005102	Eif2ak4	2610011M03|GCN2|MGCN2	eukaryotic translation initiation factor 2 alpha kinase 4	protein-coding	257.5	434.0	239.0	3351.5	618.5	225.5	253.5	231.0
Merged-chr14-69835475-2	chr14	69835375	69835575	+	821.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4932.0	NM_028560	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	2.5	12.5	7.5	80.5	14.0	7.0	12.0	7.5
Merged-chr17-27051767-4	chr17	27051662	27051862	+	850.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5542.0	NM_080553	16440.0	Mm.458106	NM_080553	ENSMUSG00000042644	Itpr3	IP3R 3|Ip3r3|Itpr-3|tf	inositol 1,4,5-triphosphate receptor 3	protein-coding	14.5	17.5	10.5	202.0	21.5	12.0	12.0	8.5
Merged-chr14-103857144-3	chr14	103857070	103857270	+	725.344421	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12694.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	8.0	5.0	8.0	178.0	12.5	5.0	5.5	2.0
Merged-chr13-113382984-4	chr13	113382885	113383085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	119859.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	29.5	26.0	26.0	269.0	59.0	18.0	39.0	26.5
Merged-chr14-70950134-4	chr14	70950051	70950251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302094, intron 3 of 7)	intron (NM_001302094, intron 3 of 7)	60044.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	36.5	54.0	26.5	834.5	61.5	30.0	22.5	14.5
Merged-chr15-59413397-4	chr15	59413310	59413510	+	972.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	39212.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	24.0	55.5	30.0	531.0	79.0	20.0	47.0	15.5
Merged-chr14-65342788-3	chr14	65342684	65342884	+	808.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15892.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	13.5	5.0	17.0	203.0	17.0	7.0	9.0	10.5
Merged-chr6-65608902-1	chr6	65608802	65609002	+	694.0	f0_balb.idr	intron (NM_001001495, intron 6 of 7)	intron (NM_001001495, intron 6 of 7)	18504.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	8.5	5.0	4.5	198.0	9.0	8.5	9.5	8.0
Merged-chr9-45300601-4	chr9	45300477	45300677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18523.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	118.0	212.0	107.5	1247.5	343.5	115.0	92.0	125.5
Merged-chr13-45005325-4	chr13	45005209	45005409	+	949.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3213.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	25.0	47.5	42.5	558.5	38.5	8.0	6.5	16.5
Merged-chr2-145675092-2	chr2	145674992	145675192	+	693.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-26103.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	3.0	4.5	12.0	79.0	7.0	5.5	8.0	5.0
Merged-chr7-19270825-4	chr7	19270743	19270943	+	943.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009499, intron 1 of 12)	intron (NM_009499, intron 1 of 12)	1011.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	11.5	16.5	21.0	66.0	41.5	17.0	21.0	21.5
Merged-chr2-48350421-4	chr2	48350330	48350530	+	894.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-463679.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	5.0	14.0	21.5	368.0	23.5	7.0	13.5	21.0
Merged-chr17-67354601-4	chr17	67354510	67354710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008984)	promoter-TSS (NM_008984)	-119.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	126.5	271.5	241.5	2871.0	480.5	189.0	258.0	164.0
Merged-chr5-19666664-4	chr5	19666562	19666762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 1 of 22)	intron (NM_001170746, intron 1 of 22)	-240856.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	66.5	79.0	64.0	1920.5	307.0	79.0	132.5	129.0
Merged-chr16-87706296-4	chr16	87706192	87706392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007520, intron 1 of 4)	intron (NM_007520, intron 1 of 4)	7338.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	71.5	97.0	79.0	2108.0	134.5	53.5	81.5	71.5
Merged-chr10-79704414-4	chr10	79704339	79704539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009768)	promoter-TSS (NM_009768)	81.0	NM_009768	12215.0	Mm.726	NM_009768	ENSMUSG00000023175	Bsg	AI115436|AI325119|CD147|EMMPRIN|HT-7	basigin	protein-coding	224.5	366.0	183.5	3341.0	667.0	243.0	369.0	239.0
Merged-chr10-26762703-4	chr10	26762599	26762799	+	972.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9813.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	30.5	49.0	21.5	488.0	49.0	29.5	20.0	12.0
Merged-chr19-10297185-4	chr19	10297086	10297286	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	7691.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	19.5	45.5	20.5	323.0	17.5	16.0	5.0	16.0
Merged-chr6-135235815-3	chr6	135235696	135235896	+	839.1889039999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028982, exon 13 of 13)	3' UTR (NM_028982, exon 13 of 13)	12088.0	NM_001080552	14840.0	Mm.272306	NM_010352	ENSMUSG00000030206	Gsg1	-	germ cell associated 1	protein-coding	13.5	21.0	21.5	205.5	13.0	6.5	3.5	4.0
Merged-chr4-141213963-4	chr4	141213874	141214074	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081174)	promoter-TSS (NM_001081174)	18.0	NM_001081174	76166.0	Mm.271064	NM_001081174	ENSMUSG00000073733	Rsg1	6330545A04Rik|Gm723|b2b2804Clo|b2b2827Clo	REM2 and RAB-like small GTPase 1	protein-coding	27.0	32.0	14.5	294.5	112.0	37.5	24.0	17.0
Merged-chr2-43772864-4	chr2	43772775	43772975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 1 of 14)	intron (NM_001301831, intron 1 of 14)	24051.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	114.5	135.5	92.5	2053.0	275.0	90.5	105.0	147.0
Merged-chr10-121498842-10	chr10	121498728	121498928	+	978.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22578.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	37.0	32.5	46.0	514.5	69.0	14.0	23.5	20.0
Merged-chr17-29614866-4	chr17	29614766	29614966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132314)	promoter-TSS (NR_132314)	77.0	NM_021419	58230.0	Mm.305994	NM_021419	ENSMUSG00000090083	Rnf8	3830404E21Rik|AIP37|laXp180	ring finger protein 8	protein-coding	55.0	82.5	56.5	731.5	131.5	48.5	47.0	68.5
Merged-chr9-7897739-4	chr9	7897628	7897828	+	832.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24558.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	10.5	11.5	5.5	178.5	39.5	6.5	8.5	17.0
Merged-chr3-127490183-3	chr3	127490076	127490276	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	URR1B|DNA|hAT-Charlie	8939.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	1.0	1.0	0.0	0.0	180.5	42.0	65.5	74.5
Merged-chr4-45018607-4	chr4	45018558	45018758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285800)	promoter-TSS (NM_001285800)	49.0	NM_001285800	64424.0	Mm.282932	NM_022811	ENSMUSG00000028318	Polr1e	53kDa|AU042259|D030019D19Rik|Paf53|Praf1	polymerase (RNA) I polypeptide E	protein-coding	85.0	102.5	75.0	1044.0	175.5	58.0	72.0	45.5
Merged-chr1-130716812-7	chr1	130716680	130716880	+	848.619019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027859)	promoter-TSS (NR_027859)	-547.0	NM_178691	226418.0	Mm.106553	NM_178691	ENSMUSG00000046404	Yod1	6330564D18Rik|9930028C20Rik|Hshin7	YOD1 deubiquitinase	protein-coding	2.0	9.5	11.0	60.5	9.0	9.5	5.0	6.0
Merged-chr8-46837201-4	chr8	46837096	46837296	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008391, intron 6 of 8)	intron (NM_008391, intron 6 of 8)	97451.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	27.0	29.5	17.5	348.0	64.0	18.5	24.5	26.0
Merged-chr7-118843215-3	chr7	118843128	118843328	+	928.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001168220, exon 5 of 5)	3' UTR (NM_001168220, exon 5 of 5)	12385.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	5.5	14.0	6.5	129.0	5.5	5.0	3.5	2.0
Merged-chr6-50944026-3	chr6	50943947	50944147	+	891.955566	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	167932.0	NR_045984	319981.0	Mm.131454	NR_045984	ENSMUSG00000107667	C530044C16Rik	-	RIKEN cDNA C530044C16 gene	ncRNA	3.0	2.5	5.5	81.0	24.0	17.5	17.5	16.0
Merged-chr15-100615319-4	chr15	100615230	100615430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011873)	promoter-TSS (NM_011873)	-220.0	NR_045701	78445.0	Mm.44383	NR_045701	ENSMUSG00000097093	C330013E15Rik	-	RIKEN cDNA C330013E15 gene	ncRNA	223.5	340.0	170.5	2021.5	589.0	320.5	255.0	217.0
Merged-chr9-35633190-2	chr9	35633090	35633290	+	762.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15012.0	NM_001167592	100312956.0	Mm.475850	NM_001167592	ENSMUSG00000094995	Pate3	Gm17365|Pate-dj	prostate and testis expressed 3	protein-coding	3.0	2.0	4.0	51.0	31.5	5.5	6.0	7.0
Merged-chr11-51931964-4	chr11	51931859	51932059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-35672.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	162.5	250.5	138.5	2260.5	332.5	126.0	212.5	177.5
Merged-chr2-166060192-2	chr2	166060059	166060259	+	709.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 16 of 22)	B3|SINE|B2	67522.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	3.5	5.5	1.5	96.0	8.5	7.0	4.5	8.5
Merged-chr6-72146602-3	chr6	72146496	72146696	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 4 of 6)	intron (NM_001035228, intron 4 of 6)	-23399.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	7.0	2.0	4.5	75.5	13.5	6.0	10.5	14.5
Merged-chr1-191201414-4	chr1	191201316	191201516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18083.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	98.0	177.5	106.5	1726.0	222.5	109.5	104.5	127.0
Merged-chr8-85083244-4	chr8	85083144	85083344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010764)	promoter-TSS (NM_010764)	-25.0	NM_010764	17159.0	Mm.4219	NM_010764	ENSMUSG00000005142	Man2b1	AW107687|LAMAN	mannosidase 2, alpha B1	protein-coding	113.0	146.0	95.5	1635.5	249.0	97.5	127.5	100.5
Merged-chr12-40040302-4	chr12	40040206	40040406	+	979.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2319.0	NM_001039515	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	22.0	23.0	20.0	245.5	56.5	18.5	19.5	14.0
Merged-chr19-6340123-4	chr19	6340025	6340225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001168488, exon 10 of 10)	exon (NM_001168488, exon 10 of 10)	-1035.0	NM_009006	26412.0	Mm.25860	NM_009006	ENSMUSG00000024948	Map4k2	AI385662|BL44|GCK|Rab8ip	mitogen-activated protein kinase kinase kinase kinase 2	protein-coding	16.0	34.0	27.5	183.5	81.5	21.0	26.0	18.5
Merged-chr9-26997252-4	chr9	26997168	26997368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025862, intron 1 of 10)	ORR1A4|LTR|ERVL-MaLR	2281.0	NM_025862	66948.0	Mm.289244	NM_025862	ENSMUSG00000031969	Acad8	2310016C19Rik|AI786953	acyl-Coenzyme A dehydrogenase family, member 8	protein-coding	40.0	110.5	59.5	1140.5	144.0	51.5	90.5	54.0
Merged-chr1-39911669-3	chr1	39911597	39911797	+	867.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	10784.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	5.0	9.0	6.5	74.0	12.0	12.0	5.0	8.5
Merged-chr10-70195517-4	chr10	70195411	70195611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR25A|LTR|ERVK	-9153.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	55.0	80.5	60.0	980.0	113.5	37.0	64.0	46.0
Merged-chr2-73536508-3	chr2	73536387	73536587	+	901.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa-int|LTR|ERVL-MaLR	-7000.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	4.5	9.5	10.0	165.0	6.0	1.0	4.0	2.5
Merged-chr7-35396332-3	chr7	35396242	35396442	+	658.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028120)	promoter-TSS (NM_028120)	425.0	NM_178643	101831.0	Mm.389855	NM_178643	ENSMUSG00000030493	Faap24	AW124591|AW538696|C230052I12Rik	Fanconi anemia core complex associated protein 24	protein-coding	9.5	6.5	11.5	89.0	23.5	8.0	6.5	11.0
Merged-chr7-16012786-2	chr7	16012689	16012889	+	850.625	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13294.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	9.5	11.0	3.5	45.5	35.0	5.5	6.5	5.0
Merged-chr13-64254324-3	chr13	64254222	64254422	+	751.083313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NR_045798, intron 1 of 2)	B1_Mus2|SINE|Alu	5622.0	NR_045798	66503.0	Mm.443331	NR_045798	ENSMUSG00000097101	1810034E14Rik	-	RIKEN cDNA 1810034E14 gene	ncRNA	2.5	0.0	11.0	35.0	19.5	7.5	5.5	6.0
Merged-chr3-144232556-3	chr3	144232476	144232676	+	692.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27321.0	NM_010723	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	4.5	6.0	11.0	111.5	15.0	4.5	7.0	6.0
Merged-chr17-35379517-4	chr17	35379438	35379638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001143689)	promoter-TSS (NM_001143689)	-79.0	NM_001143689	15015.0	Mm.464284	NM_001143689	ENSMUSG00000035929	H2-Q4	H-2Q4|H2-Gs10|Qa-4|Qa4|Qat-4|Qb-1|Qb1	histocompatibility 2, Q region locus 4	protein-coding	179.5	372.5	185.5	2376.5	469.5	183.0	175.0	131.5
Merged-chr2-34976617-4	chr2	34976528	34976728	+	963.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-14856.0	NM_001326601	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	26.0	39.0	15.0	137.0	43.0	10.0	18.5	8.0
Merged-chr4-137372344-2	chr4	137372243	137372443	+	878.541626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-14584.0	NM_001243769	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	5.0	6.0	7.5	44.5	22.0	5.5	2.5	12.5
Merged-chr7-127614699-4	chr7	127614571	127614771	+	846.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177226)	promoter-TSS (NM_177226)	196.0	NR_155452	320683.0	Mm.156718	NM_177226	ENSMUSG00000045639	Zfp629	9330199A09Rik|Znf629	zinc finger protein 629	protein-coding	11.0	12.5	11.5	147.5	20.0	8.5	6.0	15.0
Merged-chr3-107333658-4	chr3	107333572	107333772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045807)	promoter-TSS (NM_001045807)	-383.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	113.0	177.5	84.0	1276.0	376.0	114.5	128.5	116.5
Merged-chr18-67435608-4	chr18	67435514	67435714	+	854.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027130, intron 5 of 16)	intron (NM_027130, intron 5 of 16)	13522.0	NM_027130	69597.0	Mm.426052	NM_027130	ENSMUSG00000024527	Afg3l2	2310036I02Rik|AW260507|Emv66|par	AFG3-like AAA ATPase 2	protein-coding	20.5	13.0	27.0	338.5	23.5	8.0	13.0	18.5
Merged-chr13-112443356-4	chr13	112443251	112443451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20719.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	27.5	26.5	46.5	806.0	68.0	37.5	30.5	26.0
Merged-chr5-105011810-4	chr5	105011703	105011903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29086.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	91.5	83.0	81.0	955.5	126.0	53.0	69.0	46.5
Merged-chr12-86859478-4	chr12	86859383	86859583	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25331.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	22.5	23.0	9.5	70.5	21.5	8.5	10.0	5.5
Merged-chr4-123016582-4	chr4	123016487	123016687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025873)	promoter-TSS (NM_025873)	-6.0	NM_025873	66966.0	Mm.235030	NM_025873	ENSMUSG00000028653	Trit1	2310075G14Rik|AI314189|AI314635|AV099619|IPPT|IPT|MOD5	tRNA isopentenyltransferase 1	protein-coding	60.0	80.0	34.5	788.5	264.5	74.0	96.0	48.0
Merged-chr4-9665797-4	chr4	9665684	9665884	+	855.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	intron (NM_001290367, intron 1 of 22)	3378.0	NM_023066	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	10.0	4.5	7.0	99.5	26.0	5.5	13.5	12.5
Merged-chr17-49428350-4	chr17	49428252	49428452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028464)	promoter-TSS (NM_028464)	-12.0	NM_028464	56738.0	Mm.22256	NM_020042	ENSMUSG00000064120	Mocs1	3110045D15Rik|AI043170|AW536397	molybdenum cofactor synthesis 1	protein-coding	117.0	236.0	91.5	2211.5	393.0	145.5	215.0	131.5
Merged-chr14-31386251-4	chr14	31386144	31386344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	31433.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	128.5	143.5	202.5	2380.0	272.5	95.0	129.5	185.5
Merged-chr15-58604779-4	chr15	58604673	58604873	+	932.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	189305.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	20.0	20.5	18.0	265.0	36.5	6.5	13.0	20.5
Merged-chr6-46281201-4	chr6	46281098	46281298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 10 of 23)	L1MB1|LINE|L1	-963198.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	45.0	63.0	68.0	1504.0	80.0	30.5	46.5	44.0
Merged-chr15-97312086-4	chr15	97311993	97312193	+	942.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	intron (NM_172293, intron 3 of 5)	-64806.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	9.5	44.0	35.0	631.5	60.5	10.5	16.5	8.5
Merged-chr11-87461938-4	chr11	87461836	87462036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	CpG	34345.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	64.5	73.0	51.5	643.0	102.0	33.5	57.0	57.0
Merged-chr4-59783433-3	chr4	59783336	59783536	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013577, intron 1 of 4)	CpG	419.0	NM_001013577	66209.0	Mm.51988	NM_001013577	ENSMUSG00000038544	Inip	1110054O05Rik|2610312O17Rik|AA399876|Ssbip1	INTS3 and NABP interacting protein	protein-coding	27.5	56.5	18.5	474.0	117.0	28.0	36.0	36.0
Merged-chr18-36328834-4	chr18	36328726	36328926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19798.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	79.0	117.0	103.0	1325.0	148.5	53.0	73.5	67.0
Merged-chr3-88148509-4	chr3	88148373	88148573	+	814.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310593, intron 1 of 10)	intron (NM_001310593, intron 1 of 10)	6101.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	7.0	9.5	2.5	142.5	16.0	12.0	13.0	12.5
Merged-chr10-78086786-4	chr10	78086678	78086878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17410.0	NM_015790	50723.0	Mm.17819	NM_015790	ENSMUSG00000000732	Icosl	AU044799|B7-H2|B7RP-1|B7h|BG071784|GI50|GL50|GL50-B|ICOS-L|Icoslg|LICOS|Ly115l|mKIAA0653	icos ligand	protein-coding	64.5	95.5	98.5	988.0	179.0	48.0	79.5	83.0
Merged-chr6-51469399-4	chr6	51469319	51469519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016806, intron 1 of 10)	CpG	475.0	NR_104468	53379.0	Mm.155896	NM_016806	ENSMUSG00000004980	Hnrnpa2b1	9130414A06Rik|Hnrpa2|Hnrpa2b1|hnrnp-A	heterogeneous nuclear ribonucleoprotein A2/B1	protein-coding	23.0	61.5	48.0	577.0	129.5	56.0	42.0	45.0
Merged-chr15-76908302-2	chr15	76908202	76908402	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	4231.0	NM_012053	26961.0	Mm.30066	NM_012053	ENSMUSG00000003970	Rpl8	-	ribosomal protein L8	protein-coding	7.5	10.0	5.5	71.5	12.0	5.0	1.0	7.5
Merged-chr7-126643413-4	chr7	126643315	126643515	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-5894.0	NM_029339	75565.0	Mm.45686	NM_029339	ENSMUSG00000030714	Sgf29	1700023O11Rik|9530025I05Rik|Ccdc101	SAGA complex associated factor 29	protein-coding	23.5	35.0	23.0	48.5	56.0	20.5	18.0	21.0
Merged-chr9-45179474-4	chr9	45179376	45179576	+	958.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145403, intron 6 of 12)	intron (NM_145403, intron 6 of 12)	-16290.0	NM_001198971	408059.0	Mm.249297	NM_001198971	ENSMUSG00000091996	BC049352	SMIM35	cDNA sequence BC049352	protein-coding	49.5	54.0	38.5	661.5	77.5	27.5	14.0	26.5
Merged-chr11-3168096-1	chr11	3167996	3168196	+	1000.0	f1_balb.idr	intron (NM_030207, intron 7 of 32)	RLTR21|LTR|ERVK	25367.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	13.0	16.0	15.0	133.0	1.0	0.5	1.0	0.5
Merged-chr7-101364989-4	chr7	101364902	101365102	+	910.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	MIRc|SINE|MIR	-13120.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	9.5	11.5	5.0	247.5	37.5	5.0	9.0	16.0
Merged-chr8-40308572-1	chr8	40308472	40308672	+	1000.0	f1_c57bl6.idr	promoter-TSS (NR_106126)	promoter-TSS (NR_106126)	521.0	NM_030110	78506.0	Mm.169893	NM_030110	ENSMUSG00000039478	Micu3	2900075B16Rik|Efha2	mitochondrial calcium uptake family, member 3	protein-coding	23.5	21.0	32.0	206.0	27.5	7.5	11.5	12.0
Merged-chr5-74671654-2	chr5	74671553	74671753	+	996.083374	f0_balb.idr|f1_balb.idr	intron (NM_001159578, intron 1 of 12)	intron (NM_001159578, intron 1 of 12)	6219.0	NM_001159580	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	51.5	50.5	30.5	458.0	0.0	0.0	0.0	1.5
Merged-chr9-41212816-4	chr9	41212688	41212888	+	817.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040392, intron 2 of 4)	intron (NR_040392, intron 2 of 4)	6633.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	4.5	6.0	5.0	60.5	31.5	16.5	14.0	12.5
Merged-chr5-120502210-4	chr5	120502124	120502324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023625, intron 1 of 11)	intron (NM_023625, intron 1 of 11)	1399.0	NM_023625	71772.0	Mm.100065	NM_023625	ENSMUSG00000029598	Plbd2	1300012G16Rik|AU019810|P76	phospholipase B domain containing 2	protein-coding	19.5	44.5	33.5	447.5	97.0	44.0	38.0	27.0
Merged-chr9-106289060-3	chr9	106288957	106289157	+	812.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 6 of 10)	intron (NM_027354, intron 6 of 10)	7996.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	9.0	9.0	5.0	73.0	21.0	5.5	9.5	7.5
Merged-chr4-141246709-4	chr4	141246606	141246806	+	813.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172520, intron 3 of 16)	intron (NM_172520, intron 3 of 16)	3822.0	NM_172520	213649.0	Mm.134460	NM_172520	ENSMUSG00000028919	Arhgef19	6030432F23|6430573B13Rik|WGEF	Rho guanine nucleotide exchange factor (GEF) 19	protein-coding	4.0	15.0	14.5	134.5	27.0	11.5	12.5	13.0
Merged-chr10-100487472-4	chr10	100487354	100487554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110013)	promoter-TSS (NM_001110013)	-107.0	NM_001110013	237500.0	Mm.296805	NM_001033332	ENSMUSG00000036676	Tmtc3	9130014E20Rik|B130008E12Rik|mSmile	transmembrane and tetratricopeptide repeat containing 3	protein-coding	190.0	224.5	243.5	3488.5	496.0	181.0	253.0	203.5
Merged-chr16-15986327-4	chr16	15986191	15986391	+	950.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 7 of 18)	AT_rich|Low_complexity|Low_complexity	99005.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	9.5	24.0	9.5	68.5	25.5	4.0	7.5	7.5
Merged-chr4-43712080-2	chr4	43711980	43712180	+	554.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5514.0	NM_019486	56015.0	Mm.377126	NM_019486	ENSMUSG00000046450	Olfr71	MOR262-4|mOR17	olfactory receptor 71	protein-coding	3.5	11.0	4.0	42.0	6.5	6.0	6.5	9.0
Merged-chr11-117116972-4	chr11	117116875	117117075	+	854.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166507, intron 1 of 16)	intron (NM_001166507, intron 1 of 16)	1803.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	11.5	7.0	6.0	179.5	23.5	7.5	11.5	6.5
Merged-chr16-22683814-4	chr16	22683710	22683910	+	974.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26579.0	NM_001346673	110197.0	Mm.194986	NM_138650	ENSMUSG00000022861	Dgkg	2900055E17Rik|90kDa|AI854428|Dagk3|E430001K23Rik|mKIAA4131	diacylglycerol kinase, gamma	protein-coding	24.0	58.5	38.5	395.5	56.5	22.5	22.5	13.0
Merged-chr7-132551505-3	chr7	132551409	132551609	+	827.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24889.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	7.0	12.5	10.5	63.0	12.5	5.0	6.0	7.0
Merged-chr7-45457470-4	chr7	45457363	45457563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010240)	TTS (NM_010240)	2423.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	143.0	206.0	249.0	2803.0	379.0	118.0	255.0	196.5
Merged-chr3-9251450-4	chr3	9251380	9251580	+	844.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177660, exon 1 of 6)	exon (NM_177660, exon 1 of 6)	913.0	NM_177660	229055.0	Mm.103262	NM_177660	ENSMUSG00000069114	Zbtb10	4832414A18|AU021107|RINZF	zinc finger and BTB domain containing 10	protein-coding	10.0	4.0	19.0	192.0	21.5	6.5	8.0	6.5
Merged-chr19-47137934-3	chr19	47137829	47138029	+	902.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133746, exon 1 of 3)	5' UTR (NM_133746, exon 1 of 3)	365.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	6.0	14.0	8.0	102.5	8.5	5.0	10.0	7.5
Merged-chr1-63176775-4	chr1	63176793	63176993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160039)	promoter-TSS (NM_001160039)	62.0	NM_018796	55949.0	Mm.2718	NM_018796	ENSMUSG00000025967	Eef1b2	2810017J07Rik|Eef1b	eukaryotic translation elongation factor 1 beta 2	protein-coding	38.5	87.0	54.0	490.5	133.5	62.0	37.5	58.5
Merged-chr17-33956243-1	chr17	33956143	33956343	+	939.0	f0_balb.idr	promoter-TSS (NM_011296)	promoter-TSS (NM_011296)	153.0	NM_001357329	224705.0	Mm.448614	NM_172620	ENSMUSG00000024319	Vps52	ARE1|D130068D18|D430041K17Rik|SAC2|Sacm2l|tclw5	VPS52 GARP complex subunit	protein-coding	23.0	12.5	12.0	132.0	43.0	8.5	11.5	24.0
Merged-chr8-43416050-4	chr8	43415928	43416128	+	841.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109019.0	NM_009556	22702.0	Mm.285848	NM_009556	ENSMUSG00000051176	Zfp42	Rex-1|Rex1|Zfp-42	zinc finger protein 42	protein-coding	16.5	8.5	17.0	121.5	17.0	6.5	8.0	17.5
Merged-chr17-24851605-4	chr17	24851501	24851701	+	965.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159626, intron 1 of 8)	intron (NM_001159626, intron 1 of 8)	934.0	NM_001159626	14651.0	Mm.43784	NM_024284	ENSMUSG00000024158	Hagh	BC019817|Glo-2|Glo2|Rsp29	hydroxyacyl glutathione hydrolase	protein-coding	45.5	60.0	54.0	698.0	127.0	19.5	26.0	16.0
Merged-chr5-142401443-4	chr5	142401346	142401546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199068)	promoter-TSS (NM_199068)	-51.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	33.0	38.5	22.0	351.5	73.5	25.5	34.5	24.0
Merged-chr4-149702844-5	chr4	149702676	149702876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1147.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	48.5	98.0	59.0	941.5	279.5	81.0	98.5	116.5
Merged-chr5-122952348-3	chr5	122952241	122952441	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 6 of 22)	CpG	36758.0	NM_001003953	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	11.5	8.0	1.5	123.0	12.5	7.5	4.5	8.5
Merged-chr11-53324659-4	chr11	53324556	53324756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026479)	promoter-TSS (NM_026479)	-33.0	NM_026479	67966.0	Mm.288072	NM_026479	ENSMUSG00000018239	Zcchc10	2410141K03Rik|AA675321|D11Ertd416e	zinc finger, CCHC domain containing 10	protein-coding	36.0	50.0	17.0	454.0	87.5	32.5	58.5	43.0
Merged-chr8-31150275-4	chr8	31150168	31150368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199988)	promoter-TSS (NM_001199988)	-48.0	NM_144927	234138.0	Mm.349800	NM_144927	ENSMUSG00000031577	Tti2	-	TELO2 interacting protein 2	protein-coding	123.5	137.0	115.0	1530.5	457.5	172.0	169.5	157.5
Merged-chr1-39922870-4	chr1	39922755	39922955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	21942.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	31.0	19.5	34.0	669.5	43.5	15.0	29.5	39.5
Merged-chr2-166275581-4	chr2	166275483	166275683	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033467, intron 1 of 2)	intron (NR_033467, intron 1 of 2)	1675.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	33.5	35.0	41.0	968.5	40.0	15.0	18.0	21.5
Merged-chr6-85451974-4	chr6	85451873	85452073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163427)	promoter-TSS (NM_001163427)	-3.0	NR_028081	73327.0	Mm.379221	NM_028505	ENSMUSG00000030008	Pradc1	1700040I03Rik|Pap21	protease-associated domain containing 1	protein-coding	77.5	133.5	65.0	1162.5	204.5	63.5	100.0	85.0
Merged-chr7-51879362-3	chr7	51879249	51879449	+	957.1904910000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008087, exon 1 of 8)	5' UTR (NM_008087, exon 1 of 8)	382.0	NM_001330607	14453.0	Mm.207360	NM_008087	ENSMUSG00000030498	Gas2	Gas-2	growth arrest specific 2	protein-coding	0.5	1.0	2.5	73.0	42.0	16.0	29.5	32.0
Merged-chr12-35384375-3	chr12	35384290	35384490	+	715.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150599.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	8.5	3.5	9.5	118.5	20.5	8.5	6.5	8.0
Merged-chr5-113840630-3	chr5	113840535	113840735	+	967.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-10134.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	10.5	24.0	16.0	348.0	25.5	12.5	11.5	9.0
Merged-chr16-4905244-3	chr16	4905119	4905319	+	816.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	19119.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	9.0	8.5	10.5	128.5	4.0	4.0	2.0	11.0
Merged-chr1-189806735-1	chr1	189806635	189806835	+	668.0	f0_c57.idr	intron (NM_008976, intron 3 of 18)	ORR1E|LTR|ERVL-MaLR	78467.0	NM_008976	19250.0	Mm.4498	NM_008976	ENSMUSG00000026604	Ptpn14	C130080N23Rik|PTP36	protein tyrosine phosphatase, non-receptor type 14	protein-coding	0.5	0.0	0.0	11.5	22.0	6.5	12.5	14.0
Merged-chr14-21052517-4	chr14	21052375	21052575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134079)	promoter-TSS (NM_134079)	-33.0	NM_018829	55946.0	Mm.376269	NM_018829	ENSMUSG00000021824	Ap3m1	1200013D09Rik|C78982|R75378	adaptor-related protein complex 3, mu 1 subunit	protein-coding	183.0	277.5	138.5	2348.0	408.0	155.0	199.0	143.5
Merged-chr4-122955503-4	chr4	122955390	122955590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029662, intron 3 of 13)	intron (NM_029662, intron 3 of 13)	5698.0	NM_029662	76574.0	Mm.331842	NM_029662	ENSMUSG00000028655	Mfsd2a	1700018O18Rik|Mfsd2|NLS1	major facilitator superfamily domain containing 2A	protein-coding	13.5	43.0	21.5	391.0	96.0	32.5	64.5	42.5
Merged-chr2-157367685-4	chr2	157367594	157367794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026968)	promoter-TSS (NM_026968)	100.0	NM_026968	69161.0	Mm.228619	NM_026968	ENSMUSG00000063019	Manbal	1810024K12Rik|AI836500	mannosidase, beta A, lysosomal-like	protein-coding	39.5	77.0	66.0	570.5	90.0	38.5	39.0	40.0
Merged-chr4-96591662-3	chr4	96591482	96591682	+	863.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028979)	promoter-TSS (NM_028979)	-97.0	NM_028979	74519.0	Mm.458387	NM_028979	ENSMUSG00000015224	Cyp2j9	8430417E17Rik	cytochrome P450, family 2, subfamily j, polypeptide 9	protein-coding	6.0	11.5	8.5	202.0	1.0	1.5	1.0	4.5
Merged-chr14-54770588-4	chr14	54770463	54770663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	11323.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	45.5	82.5	56.0	502.0	210.0	52.0	104.0	103.0
Merged-chr12-87200321-4	chr12	87200222	87200422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290288)	promoter-TSS (NM_001290288)	-93.0	NM_001033475	382620.0	Mm.374912	NM_001033475	ENSMUSG00000034111	Tmed8	6430595O10Rik|AI447224|Gm1184|Mem1	transmembrane p24 trafficking protein 8	protein-coding	39.0	36.0	30.0	284.5	63.5	22.0	32.0	37.5
Merged-chr3-115819602-3	chr3	115819502	115819702	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68457.0	NR_027894	68161.0	Mm.392043	NR_015487	ENSMUSG00000054426	A930005H10Rik	-	RIKEN cDNA A930005H10 gene	ncRNA	5.0	7.0	8.0	90.0	15.0	2.0	3.5	8.5
Merged-chr6-37097590-1	chr6	37097490	37097690	+	677.5	f0_balb.idr	exon (NM_001081206, exon 4 of 34)	exon (NM_001081206, exon 4 of 34)	202386.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	7.5	11.0	8.5	242.5	14.0	4.0	12.0	7.5
Merged-chr2-126607705-4	chr2	126607594	126607794	+	987.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008230, intron 2 of 11)	intron (NM_008230, intron 2 of 11)	10984.0	NM_008230	15186.0	Mm.18603	NM_008230	ENSMUSG00000027360	Hdc	AW108189|Hdc-a|Hdc-c|Hdc-e|Hdc-s	histidine decarboxylase	protein-coding	18.0	34.0	13.5	292.0	61.5	26.0	23.5	28.5
Merged-chr8-41284619-4	chr8	41284574	41284774	+	995.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 16 of 37)	RCHARR1|DNA|hAT-Charlie	44915.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	13.5	37.5	24.5	309.0	87.5	35.0	50.0	35.5
Merged-chr10-80387783-4	chr10	80387689	80387889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198615)	promoter-TSS (NM_198615)	-138.0	NM_198615	237400.0	Mm.268389	NM_198615	ENSMUSG00000048696	Mex3d	BC059858|Rkhd1	mex3 RNA binding family member D	protein-coding	35.5	67.0	22.0	413.5	137.0	54.0	38.0	41.5
Merged-chr5-114131181-4	chr5	114131098	114131298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011677)	promoter-TSS (NM_011677)	42.0	NM_011677	22256.0	Mm.1393	NM_011677	ENSMUSG00000029591	Ung	UNG1|UNG2	uracil DNA glycosylase	protein-coding	33.0	63.5	36.0	481.0	84.5	33.0	47.5	42.0
Merged-chr10-28323214-4	chr10	28323118	28323318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 3 of 30)	intron (NM_001359356, intron 3 of 30)	248398.0	NM_001359356	19272.0	Mm.332303	NM_008983	ENSMUSG00000019889	Ptprk	AI853699|PTPk|RPTPkappa	protein tyrosine phosphatase, receptor type, K	protein-coding	55.0	54.0	34.5	1156.5	100.5	24.5	62.5	49.0
Merged-chr2-18392812-4	chr2	18392669	18392869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007869)	promoter-TSS (NM_007869)	61.0	NM_001190817	13418.0	Mm.246674	NM_007869	ENSMUSG00000026740	Dnajc1	4733401K02Rik|AA960110|D230036H06Rik|Dnajl1|ERdj1|ERj1p|MTJ1	DnaJ heat shock protein family (Hsp40) member C1	protein-coding	116.5	144.5	120.5	2047.5	274.0	82.5	114.5	97.0
Merged-chr4-128729917-4	chr4	128729821	128730021	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	intron (NM_001195083, intron 1 of 6)	2350.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	16.5	29.5	17.0	300.0	64.0	17.0	22.0	22.0
Merged-chr2-167839435-4	chr2	167839337	167839537	+	924.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92890.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	6.5	13.5	21.5	154.0	19.5	13.0	14.5	14.5
Merged-chr4-12241105-4	chr4	12241009	12241209	+	932.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69094.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	31.0	33.0	8.5	422.0	55.5	16.0	20.0	15.0
Merged-chr17-47658979-3	chr17	47658879	47659079	+	918.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198421, intron 2 of 6)	intron (NM_198421, intron 2 of 6)	28289.0	NM_198421	224836.0	Mm.59393	NM_198421	ENSMUSG00000090115	Usp49	C330046L10Rik|Gm545	ubiquitin specific peptidase 49	protein-coding	22.0	7.0	14.0	338.0	9.5	4.5	7.5	7.0
Merged-chr10-41883911-4	chr10	41883841	41884041	+	818.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	-3498.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	10.5	12.5	6.0	82.0	17.0	10.5	8.5	6.0
Merged-chr7-110097347-4	chr7	110097152	110097352	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24807.0	NM_001355058	22390.0	Mm.287173	NM_009516	ENSMUSG00000031016	Wee1	Wee1A	WEE 1 homolog 1 (S. pombe)	protein-coding	22.0	13.5	17.5	319.5	27.5	2.5	14.0	12.0
Merged-chr5-72329620-4	chr5	72329494	72329694	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122756, intron 16 of 21)	intron (NM_001122756, intron 16 of 21)	126251.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	21.5	33.5	38.0	918.0	66.5	9.0	45.0	35.0
Merged-chr11-51584745-4	chr11	51584666	51584866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028398)	promoter-TSS (NM_028398)	9.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	152.5	222.5	83.5	1975.0	373.0	130.5	148.0	137.5
Merged-chr4-19712479-3	chr4	19712394	19712594	+	945.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-3490.0	NR_074090	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	14.0	10.5	10.0	243.5	12.5	4.5	5.5	9.5
Merged-chr19-11053252-4	chr19	11053181	11053381	+	912.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2715.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	9.5	25.5	10.0	224.5	22.0	11.5	19.5	7.5
Merged-chr2-37358886-4	chr2	37358803	37359003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026176, intron 1 of 3)	intron (NM_026176, intron 1 of 3)	429.0	NM_026176	67466.0	Mm.30709	NM_026176	ENSMUSG00000009030	Pdcl	1200011E13Rik|AW108059|PhLP1	phosducin-like	protein-coding	128.5	198.5	135.5	2001.0	284.5	100.5	162.5	116.0
Merged-chr2-6740164-4	chr2	6740052	6740252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110232, intron 3 of 15)	intron (NM_001110232, intron 3 of 15)	-18490.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	62.0	90.0	74.0	1312.0	154.0	59.0	90.0	58.5
Merged-chr19-4930762-2	chr19	4930633	4930833	+	704.25	f0_balb.idr|f0_c57.idr	3' UTR (NM_001347422, exon 6 of 6)	3' UTR (NM_001347422, exon 6 of 6)	-2446.0	NM_133803	75221.0	Mm.234769	NM_133803	ENSMUSG00000063904	Dpp3	4930533O14Rik|C86324|DPP III	dipeptidylpeptidase 3	protein-coding	11.0	9.5	4.5	104.0	21.5	6.0	6.0	10.0
Merged-chr12-98316075-4	chr12	98315988	98316188	+	686.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47453.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	15.0	6.5	6.0	141.0	16.0	5.5	14.0	10.0
Merged-chr7-35086782-4	chr7	35086671	35086871	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30205.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	41.5	37.0	16.5	489.0	86.5	27.0	39.5	21.5
Merged-chr9-75409363-4	chr9	75409222	75409422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027418)	promoter-TSS (NM_027418)	37.0	NM_027418	50772.0	Mm.480076	NM_015806	ENSMUSG00000042688	Mapk6	2610021I23Rik|D130053K17Rik|Erk3|Mapk4|Mapk63|Prkm4|Prkm6	mitogen-activated protein kinase 6	protein-coding	68.0	111.0	56.0	992.5	207.0	60.5	91.5	89.5
Merged-chr13-24447507-4	chr13	24447413	24447613	+	925.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 11 of 16)	L1MEf|LINE|L1	32391.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	15.5	20.0	17.5	427.5	33.5	13.5	14.5	15.5
Merged-chr4-11235677-4	chr4	11235571	11235771	+	877.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159595, intron 8 of 26)	intron (NM_001159595, intron 8 of 26)	18588.0	NM_178112	72656.0	Mm.246713	NM_178112	ENSMUSG00000040738	Ints8	2810013E07Rik|AV063769|D130008D20Rik	integrator complex subunit 8	protein-coding	4.0	8.0	12.0	286.5	41.5	8.5	26.5	13.0
Merged-chr3-88245933-4	chr3	88245842	88246042	+	886.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021375, exon 5 of 10)	exon (NM_021375, exon 5 of 10)	8742.0	NM_021375	58176.0	Mm.103777	NM_021375	ENSMUSG00000104445	Rhbg	-	Rhesus blood group-associated B glycoprotein	protein-coding	13.0	12.5	13.5	144.5	28.0	11.0	7.0	22.0
Merged-chr3-87015760-3	chr3	87015675	87015875	+	717.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-16435.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	7.0	13.0	15.5	219.0	18.5	9.0	11.5	8.5
Merged-chr12-32230259-4	chr12	32230163	32230363	+	746.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21614.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	22.0	26.5	25.5	139.0	28.0	4.0	16.0	13.5
Merged-chr11-97799010-4	chr11	97798885	97799085	+	844.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010688)	promoter-TSS (NM_010688)	-580.0	NM_010688	16796.0	Mm.271967	NM_010688	ENSMUSG00000038366	Lasp1	AA408629|Def-4|LASP-1|MLN 50|SH3P6|Tg(Col1a1-lacZ)1Ngma	LIM and SH3 protein 1	protein-coding	3.0	3.5	5.5	109.5	25.5	4.5	11.0	11.0
Merged-chr4-139233142-4	chr4	139233067	139233267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	39056.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	110.5	174.5	146.5	1732.5	249.0	105.0	137.5	95.5
Merged-chr4-141663725-3	chr4	141663606	141663806	+	991.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	CpG	409.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	6.0	13.0	11.5	68.5	34.5	15.0	16.5	27.0
Merged-chr6-21955509-4	chr6	21955433	21955633	+	949.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311061, intron 4 of 11)	Lx8|LINE|L1	5918.0	NM_023626	71777.0	Mm.39999	NM_023626	ENSMUSG00000029670	Ing3	1300013A07Rik|P47ING3	inhibitor of growth family, member 3	protein-coding	15.0	14.0	16.0	364.0	42.0	14.5	21.0	14.0
Merged-chr16-91769339-2	chr16	91769239	91769439	+	784.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	39968.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	5.5	6.5	4.5	61.0	12.5	6.0	2.5	1.5
Merged-chr2-157373897-4	chr2	157373796	157373996	+	856.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026968, intron 1 of 2)	MARNA|DNA|TcMar-Mariner	6302.0	NM_026968	69161.0	Mm.228619	NM_026968	ENSMUSG00000063019	Manbal	1810024K12Rik|AI836500	mannosidase, beta A, lysosomal-like	protein-coding	11.0	23.0	10.0	227.0	21.5	10.0	7.0	12.0
Merged-chr2-155249742-2	chr2	155249641	155249841	+	660.5	f0_balb.idr|f1_balb.idr	intron (NR_111890, intron 3 of 3)	intron (NR_111890, intron 3 of 3)	13133.0	NM_001291108	67068.0	Mm.23693	NM_025947	ENSMUSG00000047459	Dynlrb1	2010012N15Rik|2010320M17Rik|9430076K19Rik|AV124457|DNLC2A|Dncl2a|km23-1	dynein light chain roadblock-type 1	protein-coding	6.0	8.5	9.0	177.5	7.0	1.0	2.5	1.5
Merged-chr13-63278348-3	chr13	63278275	63278475	+	769.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	18772.0	NR_045794	100504114.0	Mm.437070	NR_045794	ENSMUSG00000097242	Gm16907	-	predicted gene, 16907	ncRNA	5.0	14.0	5.5	63.0	5.5	2.0	4.0	6.5
Merged-chr1-184606083-4	chr1	184605986	184606186	+	882.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48395.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	9.0	13.5	13.0	416.5	28.5	11.0	14.5	17.5
Merged-chr11-117810699-5	chr11	117810652	117810852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009304, intron 1 of 3)	intron (NM_009304, intron 1 of 3)	1085.0	NM_009304	20973.0	Mm.468228	NM_009304	ENSMUSG00000048277	Syngr2	Clast2|cellugyrin	synaptogyrin 2	protein-coding	18.0	24.5	29.5	175.0	60.0	19.5	21.5	26.0
Merged-chr10-14188087-4	chr10	14187880	14188080	+	917.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F1|SINE|Alu	221601.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	6.0	6.0	5.0	101.0	16.0	3.0	5.0	6.5
Merged-chr2-31974398-4	chr2	31974320	31974520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172268)	promoter-TSS (NM_172268)	-30.0	NM_172268	227720.0	Mm.289686	NM_172268	ENSMUSG00000001855	Nup214	BC039282|CAN|D2H9S46E	nucleoporin 214	protein-coding	203.5	280.0	110.5	2276.0	537.5	221.5	192.5	226.0
Merged-chr12-112707183-4	chr12	112707088	112707288	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14986.0	NM_001024602	217882.0	Mm.23689	NM_001024602	ENSMUSG00000072825	Cep170b	AI466840|AW555464|Kiaa0284|mKIAA0284	centrosomal protein 170B	protein-coding	24.0	45.5	19.0	439.5	56.5	19.0	21.0	23.0
Merged-chr6-38805822-3	chr6	38805711	38805911	+	943.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 2 of 14)	intron (NM_010433, intron 2 of 14)	31500.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	14.0	12.5	24.5	471.5	15.5	7.0	8.5	12.5
Merged-chr8-79680692-4	chr8	79680638	79680838	+	883.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31002.0	NM_015751	24015.0	Mm.5831	NM_015751	ENSMUSG00000058355	Abce1	C79080|Oabp|RLI|RNS41|RNS4I|Rnaseli	ATP-binding cassette, sub-family E (OABP), member 1	protein-coding	11.5	19.5	18.5	170.5	21.0	9.5	8.0	10.0
Merged-chr12-73682892-4	chr12	73682793	73682993	+	980.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	98097.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	38.5	49.0	26.0	313.5	74.5	28.5	33.5	16.5
Merged-chr17-10232647-3	chr17	10232552	10232752	+	795.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021881, intron 4 of 6)	intron (NM_021881, intron 4 of 6)	86709.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	5.0	8.0	4.0	46.5	28.0	7.5	13.0	10.0
Merged-chr12-28635935-4	chr12	28635807	28636007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011300)	promoter-TSS (NM_011300)	46.0	NM_011300	20115.0	Mm.279839	NM_011300	ENSMUSG00000061477	Rps7	Mtu|Rps7A|S7	ribosomal protein S7	protein-coding	81.0	158.5	46.0	812.0	235.5	82.5	75.5	90.0
Merged-chr8-117109977-2	chr8	117109877	117110077	+	559.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021486, intron 4 of 10)	intron (NM_021486, intron 4 of 10)	14112.0	NM_001163028	63857.0	Mm.174133	NM_021486	ENSMUSG00000031845	Bco1	Bcdo|Bcdo1|Bcmo1|CMO1|Cmoi|beta-CD|betaCMOOX	beta-carotene oxygenase 1	protein-coding	6.0	14.0	6.5	55.5	12.0	5.0	5.0	1.0
Merged-chr1-24678610-4	chr1	24678522	24678722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310483)	promoter-TSS (NM_001310483)	78.0	NM_026719	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	258.0	383.0	247.5	3817.5	615.0	225.0	332.0	226.0
Merged-chr11-45853112-4	chr11	45853019	45853219	+	974.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045520, intron 1 of 11)	intron (NM_001045520, intron 1 of 11)	1155.0	NM_001045520	216705.0	Mm.169673	NM_001045520	ENSMUSG00000006169	Clint1	AI642036|AW537616|C530049I24Rik|Enth|Epn4|F630206G17Rik|mKIAA0171	clathrin interactor 1	protein-coding	29.0	20.0	9.5	290.0	46.0	17.0	18.5	22.5
Merged-chr9-66277133-7	chr9	66277025	66277225	+	961.157166	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73325.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	11.0	15.0	23.0	152.0	24.5	5.5	6.5	12.5
Merged-chr6-83613451-4	chr6	83613362	83613562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40958.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	35.5	57.0	31.0	494.5	53.0	26.0	33.5	22.5
Merged-chr7-81202584-4	chr7	81202544	81202744	+	880.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11160.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	1.0	4.0	7.0	117.0	11.5	7.0	8.0	4.5
Merged-chr3-8987225-3	chr3	8987127	8987327	+	758.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	MER57-int|LTR|ERV1	16977.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	7.0	9.5	4.0	48.5	46.0	14.0	10.5	11.5
Merged-chr19-8712130-4	chr19	8712025	8712225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161413, intron 3 of 9)	intron (NM_001161413, intron 3 of 9)	1772.0	NM_008577	17254.0	Mm.4114	NM_008577	ENSMUSG00000010095	Slc3a2	4F2|4F2HC|AI314110|Cd98|Ly-10|Ly-m10|Ly10|Mdu1|Mgp-2hc|NACAE	solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2	protein-coding	39.5	63.5	26.0	539.5	102.0	45.0	33.5	44.5
Merged-chr6-136658160-4	chr6	136658087	136658287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	3706.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	43.0	95.0	34.0	608.0	94.0	40.5	42.0	52.5
Merged-chr3-88913931-4	chr3	88913824	88914024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144898)	promoter-TSS (NM_144898)	26.0	NM_144898	229524.0	Mm.440405	NM_144898	ENSMUSG00000068922	Msto1	BC008103|mst	misato 1, mitochondrial distribution and morphology regulator	protein-coding	108.5	177.0	108.0	1710.5	212.5	97.0	94.5	114.5
Merged-chr19-37814690-3	chr19	37814596	37814796	+	929.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116888.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	15.5	11.5	15.5	221.5	18.0	2.5	6.0	16.5
Merged-chr9-116164176-4	chr9	116164066	116164266	+	939.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	11197.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	46.5	17.5	64.5	843.0	40.5	10.0	19.5	13.5
Merged-chr17-78936524-2	chr17	78936434	78936634	+	822.25	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028611)	promoter-TSS (NM_028611)	536.0	NM_001024806	12607.0	Mm.24169	NM_009882	ENSMUSG00000024081	Cebpz	AI848081|CBF2|Cbf|Cebpa-rs1	CCAAT/enhancer binding protein zeta	protein-coding	6.0	5.0	12.5	86.0	10.0	4.0	2.0	11.0
Merged-chr15-66555560-4	chr15	66555453	66555653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172514, intron 3 of 9)	intron (NM_172514, intron 3 of 9)	5493.0	NM_172514	213068.0	Mm.132299	NM_172514	ENSMUSG00000036944	Tmem71	AI661017|E430024D12	transmembrane protein 71	protein-coding	35.5	59.5	27.5	1037.5	124.5	37.5	49.0	53.0
Merged-chr8-106412401-4	chr8	106412287	106412487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2952.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	67.0	72.5	99.0	1261.0	172.0	41.5	101.5	74.5
Merged-chr8-13163976-4	chr8	13163887	13164087	+	767.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010684, intron 1 of 8)	MTC|LTR|ERVL-MaLR	4826.0	NM_010684	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	8.0	6.0	7.5	96.5	25.5	11.5	12.0	8.5
Merged-chr2-37484368-4	chr2	37484269	37484469	+	914.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033960, intron 6 of 18)	MTC|LTR|ERVL-MaLR	32115.0	NM_001033960	227800.0	Mm.383192	NM_146121	ENSMUSG00000035437	Rabgap1	Gapcena|mKIAA4104	RAB GTPase activating protein 1	protein-coding	13.0	15.0	12.0	143.0	45.5	15.0	11.5	23.0
Merged-chr4-150227407-4	chr4	150227288	150227488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-9809.0	NM_023119	13806.0	Mm.70666	NM_023119	ENSMUSG00000063524	Eno1	0610008I15|AL022784|Eno-1|MBP-1	enolase 1, alpha non-neuron	protein-coding	48.0	48.0	38.0	503.5	106.0	34.0	64.0	55.5
Merged-chr16-94290291-4	chr16	94290198	94290398	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360045)	promoter-TSS (NM_001360045)	-7.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	18.5	32.0	24.0	219.0	65.0	13.5	26.0	16.0
Merged-chr10-14103316-4	chr10	14103192	14103392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010437, intron 2 of 8)	intron (NM_010437, intron 2 of 8)	136913.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	55.5	97.5	71.5	1229.0	143.5	49.0	98.0	63.5
Merged-chr14-66811173-4	chr14	66811080	66811280	+	883.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 11 of 13)	intron (NM_009955, intron 11 of 13)	57420.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	16.0	17.0	10.0	104.0	31.0	4.5	13.5	13.0
Merged-chr4-102647222-4	chr4	102647062	102647262	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57319.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	15.0	10.0	14.5	110.5	33.0	17.5	9.0	19.0
Merged-chr11-63135848-4	chr11	63135748	63135948	+	979.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302255, intron 3 of 4)	intron (NM_001302255, intron 3 of 4)	3045.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	29.5	40.5	34.0	522.5	54.5	23.5	19.0	38.5
Merged-chr7-121075097-4	chr7	121074983	121075183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030691)	promoter-TSS (NM_030691)	-553.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	63.0	96.5	92.0	1099.0	177.5	80.5	78.0	72.0
Merged-chr16-92301657-2	chr16	92301557	92301757	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_138743, intron 1 of 3)	intron (NM_138743, intron 1 of 3)	354.0	NM_138743	68936.0	Mm.21698	NM_138743	ENSMUSG00000051989	Smim11	1190017O12Rik|C21orf51|Fam165b|Smim11a	small integral membrane protein 11	protein-coding	9.0	20.0	1.5	129.5	28.5	7.0	10.5	13.5
Merged-chr13-99339397-3	chr13	99339287	99339487	+	787.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 3 of 9)	intron (NM_026873, intron 3 of 9)	5291.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	3.0	2.5	2.0	13.5	28.5	5.0	14.0	16.0
Merged-chr3-21129057-4	chr3	21128948	21129148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-761871.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	37.5	24.5	30.5	603.0	92.5	39.0	30.5	41.5
Merged-chr5-110603431-4	chr5	110603236	110603436	+	992.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122639)	promoter-TSS (NM_001122639)	-169.0	NM_001122639	231605.0	Mm.275748	NM_198306	ENSMUSG00000033316	Galnt9	GalNAc-T9	polypeptide N-acetylgalactosaminyltransferase 9	protein-coding	18.5	15.0	14.5	190.0	24.0	9.5	10.5	15.5
Merged-chr7-122257264-3	chr7	122257156	122257356	+	963.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31869.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	17.5	19.5	8.0	163.5	15.5	7.0	7.0	20.5
Merged-chr17-6656034-4	chr17	6655975	6656175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199948)	promoter-TSS (NM_001199948)	-136.0	NM_001166627	100040531.0	Mm.457987	NM_001166627	ENSMUSG00000095677	Dynlt1f	100040631|Dynlt1e	dynein light chain Tctex-type 1F	protein-coding	40.5	36.5	23.5	309.0	75.0	30.5	32.0	23.0
Merged-chr1-180641191-7	chr1	180641127	180641327	+	948.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_120498)	promoter-TSS (NR_120498)	77.0	NR_120498	72568.0	Mm.275044	NM_175186	ENSMUSG00000058729	Lin9	2700022J23Rik|Bara|Lin-9|TGS|TGS1|mLin-9	lin-9 homolog (C. elegans)	protein-coding	35.0	42.5	33.5	468.5	60.0	30.0	27.0	14.5
Merged-chr7-88357257-4	chr7	88357155	88357355	+	844.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73018.0	NM_028238	72433.0	Mm.276669	NM_028238	ENSMUSG00000030559	Rab38	2310011F14Rik|AU043391|cht	RAB38, member RAS oncogene family	protein-coding	10.5	15.5	2.5	223.0	26.5	6.5	11.0	7.5
Merged-chr10-86772545-4	chr10	86772457	86772657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003910, intron 14 of 15)	intron (NM_001003910, intron 14 of 15)	-6448.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	107.0	137.0	99.0	1972.5	292.5	104.5	127.5	88.0
Merged-chr13-35079792-4	chr13	35079677	35079877	+	947.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85633.0	NM_001110331	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	38.0	69.5	13.5	146.5	84.5	31.0	11.0	7.5
Merged-chr5-124483414-4	chr5	124483304	124483504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029532, intron 1 of 1)	CpG	249.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	40.0	90.5	40.5	407.0	129.5	45.5	51.0	48.5
Merged-chr7-122464103-4	chr7	122464005	122464205	+	945.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 5 of 16)	Lx8b|LINE|L1	174980.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	16.5	35.5	20.0	227.0	47.0	9.0	11.0	20.0
Merged-chr1-131431630-4	chr1	131431526	131431726	+	775.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 3 of 22)	intron (NM_001081011, intron 3 of 22)	95735.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	7.0	17.0	7.5	57.0	27.0	5.0	7.0	9.0
Merged-chr6-87722892-2	chr6	87722792	87722992	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7977.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	10.0	5.5	6.0	125.0	12.0	1.0	2.5	5.5
Merged-chr4-42949776-4	chr4	42949682	42949882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355440)	promoter-TSS (NM_001355440)	-85.0	NM_001355438	56323.0	Mm.20437	NM_019874	ENSMUSG00000036052	Dnajb5	1110058L06Rik|AI462558|Hsc40|Hsp40-3	DnaJ heat shock protein family (Hsp40) member B5	protein-coding	257.5	438.5	256.0	4158.0	648.0	283.5	377.0	270.5
Merged-chr6-142748464-4	chr6	142748360	142748560	+	964.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TGGGGG)n|Simple_repeat|Simple_repeat	-8226.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	10.5	7.5	12.0	181.5	26.5	10.0	21.0	16.0
Merged-chr15-38535542-4	chr15	38535452	38535652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16286.0	NM_018745	54375.0	Mm.250214	NM_018745	ENSMUSG00000037458	Azin1	1700085L02Rik|AZI|Oazi|Oazin	antizyme inhibitor 1	protein-coding	91.0	113.5	51.5	1043.0	184.0	53.5	59.0	69.0
Merged-chr5-31179443-3	chr5	31179333	31179533	+	895.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027901, intron 1 of 18)	intron (NM_027901, intron 1 of 18)	711.0	NM_027901	71752.0	Mm.271923	NM_027901	ENSMUSG00000106864	Gtf3c2	1300004C11Rik|2610510G03Rik|AI225816|AU041069|TFIIIC110|mKIAA0011	general transcription factor IIIC, polypeptide 2, beta	protein-coding	2.5	11.0	14.0	100.0	18.0	6.5	18.5	7.0
Merged-chr7-43671206-4	chr7	43671092	43671292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145582)	promoter-TSS (NM_145582)	-839.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	24.0	45.0	37.0	443.0	73.0	33.5	44.5	35.5
Merged-chr8-34807226-4	chr8	34807103	34807303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176933)	promoter-TSS (NM_176933)	-407.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	108.5	122.5	136.5	2121.5	335.5	121.5	166.0	136.5
Merged-chr12-118296401-4	chr12	118296295	118296495	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166385, intron 3 of 5)	ID_B1|SINE|B4	5045.0	NM_009239	20688.0	Mm.34699	NM_009239	ENSMUSG00000025323	Sp4	5730497N03Rik|HF-1b|HF1-b	trans-acting transcription factor 4	protein-coding	49.5	29.5	24.0	439.5	89.0	30.5	23.0	17.0
Merged-chr7-29853608-4	chr7	29853500	29853700	+	976.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173738)	promoter-TSS (NM_173738)	48.0	NM_173738	233057.0	Mm.296864	NM_173738	ENSMUSG00000050855	Zfp940	-	zinc finger protein 940	protein-coding	20.0	32.0	24.0	220.0	29.5	15.0	22.5	19.5
Merged-chr11-77468002-4	chr11	77467906	77468106	+	929.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139130, intron 5 of 9)	CpG	4093.0	NM_139130	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	18.5	34.5	10.0	155.5	38.5	11.5	22.5	19.0
Merged-chr14-76179588-4	chr14	76179501	76179701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68710.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	163.0	291.0	207.5	2996.5	366.0	122.0	194.0	127.0
Merged-chr7-126377515-4	chr7	126377441	126377641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045537, exon 1 of 13)	non-coding (NR_045537, exon 1 of 13)	393.0	NM_023712	73658.0	Mm.11112	NM_023712	ENSMUSG00000030741	Spns1	2210013K02Rik|Spin1|Spinl	spinster homolog 1	protein-coding	65.0	127.5	57.5	662.5	190.5	67.0	65.0	59.0
Merged-chr13-34874425-4	chr13	34874321	34874521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1073.0	NM_013830	19134.0	Mm.10027	NM_013830	ENSMUSG00000021413	Prpf4b	2610037H07|Prp4|Prp4k|Prpk|cbp143	pre-mRNA processing factor 4B	protein-coding	168.5	241.0	152.0	2386.0	315.0	156.0	187.5	178.0
Merged-chr11-75966674-2	chr11	75966574	75966774	+	870.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-33238.0	NM_198637	74230.0	Mm.271247	NM_198637	ENSMUSG00000053783	1700016K19Rik	Liat1	RIKEN cDNA 1700016K19 gene	protein-coding	8.0	7.0	11.0	49.5	9.5	2.0	3.0	3.5
Merged-chr2-38511425-2	chr2	38511325	38511525	+	815.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159631)	promoter-TSS (NM_001159631)	-272.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	9.0	7.0	6.0	59.5	6.0	2.5	1.0	2.5
Merged-chr7-127774126-4	chr7	127774010	127774210	+	804.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198424, exon 2 of 2)	exon (NM_198424, exon 2 of 2)	-3279.0	NM_178029	233904.0	Mm.435494	NM_010940	ENSMUSG00000042308	Setd1a	BC010250|KMT2F|Nsccn1|mKIAA0339|mNSC1	SET domain containing 1A	protein-coding	5.0	8.5	9.5	80.0	23.5	8.5	18.0	9.5
Merged-chr4-134128372-3	chr4	134128271	134128471	+	849.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080559, intron 1 of 2)	intron (NM_080559, intron 1 of 2)	382.0	NM_080559	73723.0	Mm.22240	NM_080559	ENSMUSG00000028843	Sh3bgrl3	1110004L05Rik|AU022188	SH3 domain binding glutamic acid-rich protein-like 3	protein-coding	12.0	19.5	8.0	132.5	22.5	6.5	11.0	14.5
Merged-chr2-101856305-4	chr2	101856183	101856383	+	780.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	-17303.0	NM_001110849	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	5.0	10.0	11.5	136.5	13.0	8.0	9.0	7.5
Merged-chr17-44130627-2	chr17	44130527	44130727	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24818.0	NM_001357996	224794.0	Mm.255971	NM_199016	ENSMUSG00000023961	Enpp4	4933413N07Rik|AA986363|AI195364|E-NPP 4|Gm90	ectonucleotide pyrophosphatase/phosphodiesterase 4	protein-coding	2.0	4.5	1.0	33.5	13.5	9.0	5.5	6.0
Merged-chr10-20724513-4	chr10	20724406	20724606	+	809.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	intron (NM_013875, intron 1 of 12)	572.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	8.0	18.5	2.5	73.5	24.5	10.0	7.0	17.5
Merged-chr18-12955793-4	chr18	12955728	12955928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13987.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	31.0	41.5	36.0	529.5	62.5	31.5	34.0	43.0
Merged-chr9-107724945-4	chr9	107724828	107725028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14453.0	NM_011349	20350.0	Mm.12903	NM_011349	ENSMUSG00000034684	Sema3f	Sema4|Semak	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	protein-coding	75.5	96.0	77.0	1240.0	232.5	88.5	126.5	94.5
Merged-chr18-67774835-4	chr18	67774717	67774917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039088)	promoter-TSS (NM_001039088)	-59.0	NM_001360934	72124.0	Mm.307315	NM_028112	ENSMUSG00000079614	Seh1l	2610007A16Rik|AW540070|SEC13L|SEH1A|SEH1B|Seh1	SEH1-like (S. cerevisiae	protein-coding	154.5	156.0	125.0	2348.0	403.5	146.5	168.5	157.0
Merged-chr10-127041981-4	chr10	127041901	127042101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205036)	promoter-TSS (NM_001205036)	69.0	NM_010792	17299.0	Mm.251593	NM_010792	ENSMUSG00000006732	Mettl1	2810012D02Rik	methyltransferase like 1	protein-coding	35.5	72.0	49.5	487.0	70.5	35.0	24.5	32.0
Merged-chr8-86885295-4	chr8	86885192	86885392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030563)	promoter-TSS (NM_030563)	-34.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	56.5	77.0	30.5	542.0	142.5	53.0	85.5	46.0
Merged-chr17-29164582-4	chr17	29164480	29164680	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360239, intron 16 of 21)	RMER15|LTR|ERVL	29524.0	NM_001002786	442827.0	Mm.440341	NM_001002786	ENSMUSG00000064147	Rab44	9830134C10Rik	RAB44, member RAS oncogene family	protein-coding	46.0	63.5	51.0	867.5	27.5	8.0	6.5	14.0
Merged-chr1-93579064-4	chr1	93578960	93579160	+	873.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145519, intron 12 of 26)	intron (NM_145519, intron 12 of 26)	56667.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	11.5	24.5	14.5	312.5	26.5	8.5	13.5	25.5
Merged-chr2-57123709-4	chr2	57123621	57123821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 1 of 7)	CpG	282.0	NM_001139509	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	28.5	51.5	58.0	506.5	69.5	19.0	28.5	51.5
Merged-chr1-152677277-4	chr1	152677174	152677374	+	972.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-52057.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	22.0	16.5	24.0	360.0	65.5	22.0	24.5	15.5
Merged-chr8-105636374-4	chr8	105636270	105636470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181322)	promoter-TSS (NM_181322)	-168.0	NM_181322	13018.0	Mm.269474	NM_181322	ENSMUSG00000005698	Ctcf	AW108038	CCCTC-binding factor	protein-coding	123.5	237.5	125.0	1417.5	410.0	132.5	116.5	125.0
Merged-chr7-135736543-4	chr7	135736432	135736632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20153.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	36.0	39.5	18.5	375.5	111.5	32.5	33.0	52.5
Merged-chr13-41515918-4	chr13	41515844	41516044	+	907.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28584.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	15.0	15.0	6.5	220.5	43.5	20.5	7.5	16.5
Merged-chr16-91398277-4	chr16	91398167	91398367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 7 of 7)	intron (NM_001347258, intron 7 of 7)	-7968.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	243.0	318.0	265.0	3225.0	538.5	246.5	279.5	173.0
Merged-chr7-31131037-4	chr7	31130935	31131135	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153431, intron 18 of 18)	ORR1E|LTR|ERVL-MaLR	-4012.0	NM_011322	20266.0	Mm.1418	NM_011322	ENSMUSG00000019194	Scn1b	-	sodium channel, voltage-gated, type I, beta	protein-coding	52.0	49.0	28.5	457.5	72.0	22.5	26.5	17.5
Merged-chr1-178463845-4	chr1	178463709	178463909	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026626, intron 3 of 6)	ERV3-16A3_I-int|LTR|ERVL	57791.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	5.0	14.0	23.0	163.0	14.0	12.5	19.5	11.0
Merged-chr7-92675891-3	chr7	92675767	92675967	+	829.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie1b|DNA|hAT-Charlie	-5955.0	NM_029078	74737.0	Mm.288645	NM_029078	ENSMUSG00000041328	Pcf11	2500001H09Rik|5730417B17Rik|C77803	PCF11 cleavage and polyadenylation factor subunit	protein-coding	5.5	29.0	12.0	156.0	15.0	2.5	7.0	7.5
Merged-chr12-102398664-4	chr12	102398559	102398759	+	707.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 10 of 13)	intron (NM_011175, intron 10 of 13)	41154.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	8.0	13.0	18.0	104.0	29.0	7.5	0.5	5.0
Merged-chr10-120220174-4	chr10	120220083	120220283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026617, intron 3 of 6)	intron (NM_026617, intron 3 of 6)	-6877.0	NM_025431	66225.0	Mm.291755	NM_025431	ENSMUSG00000020224	Llph	1190005P17Rik	LLP homolog, long-term synaptic facilitation (Aplysia)	protein-coding	91.5	122.0	105.0	1347.0	195.5	96.5	118.0	85.5
Merged-chr16-18423277-4	chr16	18423180	18423380	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007744, intron 1 of 4)	intron (NM_007744, intron 1 of 4)	-3137.0	NM_001353143	26462.0	Mm.390906	NM_013711	ENSMUSG00000075704	Txnrd2	AA118373|ESTM573010|TGR|Tr3|Trxr2|Trxrd2	thioredoxin reductase 2	protein-coding	25.0	24.5	18.5	501.5	40.0	8.0	7.5	13.5
Merged-chr4-118360963-1	chr4	118360863	118361063	+	549.0	f0_balb.idr	intron (NM_026601, intron 3 of 8)	intron (NM_026601, intron 3 of 8)	964.0	NR_003946	68180.0	Mm.193212	NM_026601	ENSMUSG00000006395	Hyi	2700033B16Rik|6430559E15Rik|HT036	hydroxypyruvate isomerase (putative)	protein-coding	10.0	11.5	8.0	64.0	10.0	1.0	1.0	0.0
Merged-chr13-43767905-4	chr13	43767782	43767982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17230.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	66.5	118.5	57.5	779.0	198.0	64.5	61.5	49.0
Merged-chr7-75656650-4	chr7	75656525	75656725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	L1M4|LINE|L1	-191713.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	83.0	154.0	90.0	1017.0	139.5	62.5	53.0	36.5
Merged-chr11-29654015-4	chr11	29653907	29654107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-38891.0	NM_194053	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	49.5	87.5	67.0	765.0	115.0	36.0	50.0	31.5
Merged-chr6-124414549-4	chr6	124414454	124414654	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360570, intron 1 of 14)	intron (NM_001360570, intron 1 of 14)	309.0	NM_001277330	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	6.5	20.5	10.5	81.5	25.5	11.0	6.5	14.5
Merged-chr1-165609784-3	chr1	165609707	165609907	+	887.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	B1_Mm|SINE|Alu	24734.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	6.0	9.5	17.0	77.0	5.5	1.0	3.0	1.5
Merged-chr13-56616554-4	chr13	56616470	56616670	+	989.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 2 of 16)	intron (NR_155548, intron 2 of 16)	6984.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	28.0	30.0	20.5	341.5	48.5	25.5	17.0	23.5
Merged-chr3-97617340-4	chr3	97617244	97617444	+	908.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-7154.0	NM_026539	68058.0	Mm.31761	NM_026539	ENSMUSG00000028089	Chd1l	4432404A22Rik|Alc1|Snf2p	chromodomain helicase DNA binding protein 1-like	protein-coding	27.0	20.5	14.0	112.0	41.0	12.0	16.0	18.0
Merged-chr9-65205639-3	chr9	65205510	65205710	+	898.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9080.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	8.5	5.5	10.5	160.5	12.5	2.5	4.0	6.5
Merged-chr3-65818749-4	chr3	65818652	65818852	+	681.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166659, intron 11 of 12)	intron (NM_001166659, intron 11 of 12)	139497.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	2.5	8.5	6.5	134.0	21.0	19.0	6.0	11.0
Merged-chr9-100734253-4	chr9	100734172	100734372	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 3 of 33)	intron (NM_009282, intron 3 of 33)	90824.0	NM_001357265	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	42.5	36.5	39.0	966.5	59.0	18.0	30.0	28.5
Merged-chr18-32240276-4	chr18	32240171	32240371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133658)	promoter-TSS (NM_133658)	-60.0	NM_133658	13872.0	Mm.282335	NM_133658	ENSMUSG00000024382	Ercc3	BTF2 p89|Ercc-3|XPB	excision repair cross-complementing rodent repair deficiency, complementation group 3	protein-coding	102.0	108.5	76.5	1980.5	221.5	79.0	108.5	123.0
Merged-chr8-45333247-4	chr8	45333140	45333340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133969)	promoter-TSS (NM_133969)	-44.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	132.0	237.0	86.0	1225.0	277.0	131.0	107.0	72.0
Merged-chr12-86883258-9	chr12	86883174	86883374	+	933.648132	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145836, exon 1 of 1)	exon (NM_145836, exon 1 of 1)	1540.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	4.5	19.5	6.0	115.5	14.5	5.5	8.5	23.0
Merged-chr5-115341256-4	chr5	115341160	115341360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026933)	promoter-TSS (NM_026933)	13.0	NM_026933	69076.0	Mm.27951	NM_026933	ENSMUSG00000029535	Triap1	1810015M01Rik|AU020874|AU043831|P53csv|Wf-1	TP53 regulated inhibitor of apoptosis 1	protein-coding	38.5	60.0	17.5	392.0	82.0	38.5	33.5	54.5
Merged-chr1-153901462-4	chr1	153901282	153901482	+	892.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008131, intron 1 of 6)	intron (NM_008131, intron 1 of 6)	1453.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	16.5	10.0	11.0	165.0	18.5	11.5	10.5	6.5
Merged-chr9-108848374-4	chr9	108848285	108848485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359572, intron 34 of 35)	intron (NM_001359572, intron 34 of 35)	-5658.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	65.5	205.0	137.0	763.0	242.5	94.0	114.0	51.5
Merged-chr16-36934951-4	chr16	36934818	36935018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008225)	promoter-TSS (NM_008225)	-65.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	143.0	229.0	144.5	1962.0	264.5	119.0	151.0	112.0
Merged-chr11-100588694-2	chr11	100588594	100588794	+	979.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019795, intron 9 of 13)	PB1D10|SINE|Alu	12803.0	NM_001146318	12799.0	Mm.15711	NM_009923	ENSMUSG00000006782	Cnp	CNPase|Cnp-1|Cnp1	2',3'-cyclic nucleotide 3' phosphodiesterase	protein-coding	1.0	3.5	3.0	57.5	11.0	5.5	7.5	8.5
Merged-chr14-49140896-4	chr14	49140814	49141014	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-31332.0	NM_027492	70646.0	Mm.275688	NM_027492	ENSMUSG00000036282	Naa30	4930487N19Rik|5730533P17Rik|AI447922|AW322455|Nat12	N(alpha)-acetyltransferase 30, NatC catalytic subunit	protein-coding	17.5	35.5	21.5	370.0	20.0	10.5	11.5	20.5
Merged-chr15-81105062-4	chr15	81104960	81105160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153049)	promoter-TSS (NM_153049)	-13.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	120.0	189.5	104.0	1678.0	244.0	101.5	129.0	76.5
Merged-chr8-90873263-4	chr8	90873104	90873304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	44369.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	47.5	89.0	73.5	1361.0	72.0	24.5	31.5	46.0
Merged-chr2-165300562-3	chr2	165300449	165300649	+	952.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302754, intron 9 of 19)	intron (NM_001302754, intron 9 of 19)	-12711.0	NR_045544	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	12.5	5.0	11.0	144.5	12.5	4.0	6.0	4.5
Merged-chr6-72345874-4	chr6	72345777	72345977	+	788.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138592)	promoter-TSS (NM_138592)	-702.0	NM_138592	28035.0	Mm.281900	NM_138592	ENSMUSG00000056305	Usp39	AA408960|AI894154|CGI-21|D6Wsu157e|SAD1	ubiquitin specific peptidase 39	protein-coding	4.0	8.5	8.5	85.0	25.0	11.0	14.0	22.0
Merged-chr15-28189895-4	chr15	28189810	28190010	+	874.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13856.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	9.5	7.0	2.5	174.0	22.5	5.5	18.0	24.5
Merged-chr18-82826326-4	chr18	82826218	82826418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29579.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	78.5	97.5	118.0	1640.5	162.5	62.0	83.0	73.5
Merged-chr8-56299611-4	chr8	56299520	56299720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 3 of 6)	intron (NM_008278, intron 3 of 6)	5068.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	91.5	72.0	61.0	1400.5	181.5	69.0	90.0	73.0
Merged-chr17-29717034-4	chr17	29716935	29717135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163741)	promoter-TSS (NM_001163741)	-18.0	NM_001163741	68597.0	Mm.390979	NM_026782	ENSMUSG00000024018	Ccdc167	1110021J02Rik	coiled-coil domain containing 167	protein-coding	56.0	89.5	40.5	592.0	105.5	33.5	41.0	36.5
Merged-chr14-118900582-3	chr14	118900488	118900688	+	970.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360411, intron 11 of 21)	intron (NM_001360411, intron 11 of 21)	22203.0	NM_001360413	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	18.5	14.5	29.0	465.0	21.5	3.5	6.0	6.5
Merged-chr5-113226703-3	chr5	113226594	113226794	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033428)	promoter-TSS (NM_001033428)	-215.0	NM_001033428	333048.0	Mm.332586	NM_001033428	ENSMUSG00000066964	Tmem211	Gm854	transmembrane protein 211	protein-coding	13.5	12.0	8.0	60.0	2.5	1.0	0.5	1.0
Merged-chr6-140623487-4	chr6	140623396	140623596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009637)	promoter-TSS (NM_009637)	-6.0	NM_001005605	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	279.0	466.0	318.0	4191.0	838.5	354.5	353.0	267.5
Merged-chr19-34241401-4	chr19	34241284	34241484	+	829.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007392, exon 9 of 9)	3' UTR (NM_007392, exon 9 of 9)	8759.0	NM_001360720	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	5.0	4.0	4.5	84.5	28.5	18.0	7.5	11.0
Merged-chr11-44520315-4	chr11	44520258	44520458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 1 of 5)	intron (NM_001166553, intron 1 of 5)	981.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	42.0	66.0	58.0	822.5	130.0	56.5	69.5	58.5
Merged-chr12-69419809-3	chr12	69419705	69419905	+	768.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47655.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	2.0	7.0	1.5	63.5	39.0	7.5	20.0	13.5
Merged-chr15-80012831-4	chr15	80012724	80012924	+	894.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011057, intron 1 of 6)	CpG	1984.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	7.5	4.5	7.5	91.0	6.5	4.0	0.0	7.5
Merged-chr8-18935679-4	chr8	18935589	18935789	+	866.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176951, intron 6 of 6)	intron (NM_176951, intron 6 of 6)	15182.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	15.0	11.5	18.5	200.0	15.0	14.0	10.5	20.0
Merged-chr4-63385511-1	chr4	63385411	63385611	+	740.0	f0_balb.idr	intron (NM_001045514, intron 6 of 21)	intron (NM_001045514, intron 6 of 21)	12729.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	10.0	13.0	8.5	91.5	7.0	7.0	7.0	6.5
Merged-chr2-83676671-2	chr2	83676566	83676766	+	783.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	32088.0	NM_026934	69082.0	Mm.27804	NM_026934	ENSMUSG00000027091	Zc3h15	1700006A17Rik|1810012H02Rik|2610312B22Rik|FM22|Ierepo4	zinc finger CCCH-type containing 15	protein-coding	9.5	12.5	13.0	237.5	1.0	0.0	0.0	0.0
Merged-chr15-99105659-4	chr15	99105623	99105823	+	878.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6239.0	NM_176835	72778.0	Mm.30544	NM_176835	ENSMUSG00000038009	Dnajc22	2810451A06Rik|AI506245	DnaJ heat shock protein family (Hsp40) member C22	protein-coding	3.5	12.0	0.5	23.0	24.5	10.0	12.5	4.5
Merged-chr10-21670391-4	chr10	21670291	21670491	+	890.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20454.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	10.5	13.0	14.0	106.0	24.5	18.0	19.0	8.0
Merged-chr19-34550659-4	chr19	34550555	34550755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355262)	promoter-TSS (NM_001355262)	-39.0	NM_008332	15958.0	Mm.2036	NM_008332	ENSMUSG00000045932	Ifit2	AV302338|Ifi54|P54	interferon-induced protein with tetratricopeptide repeats 2	protein-coding	24.5	36.5	21.0	465.5	64.0	25.5	57.5	41.0
Merged-chr12-99942707-4	chr12	99942608	99942808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028354, intron 14 of 15)	intron (NM_028354, intron 14 of 15)	-21791.0	NM_001164426	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	59.5	81.0	86.0	1561.0	130.5	28.5	69.5	50.0
Merged-chr12-35026146-4	chr12	35026049	35026249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21040.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	48.0	72.0	51.5	1062.5	127.5	27.0	46.0	35.0
Merged-chr10-57794748-4	chr10	57794626	57794826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020561, exon 1 of 8)	exon (NM_020561, exon 1 of 8)	182.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	134.0	228.5	260.5	2239.0	238.0	149.5	139.0	117.0
Merged-chr1-33768958-2	chr1	33768858	33769058	+	720.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359274, intron 12 of 13)	intron (NM_001359274, intron 12 of 13)	-11208.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	3.0	5.0	5.5	108.0	14.5	5.0	6.0	9.0
Merged-chr9-66284033-2	chr9	66283933	66284133	+	551.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66417.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	4.0	6.0	4.0	63.5	20.5	7.0	5.0	11.0
Merged-chr11-19924348-4	chr11	19924242	19924442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033523)	promoter-TSS (NM_033523)	-100.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	72.5	175.5	60.0	922.5	166.5	86.0	75.5	72.0
Merged-chr13-92804526-4	chr13	92804418	92804618	+	967.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9700.0	NM_011582	21828.0	Mm.20865	NM_011582	ENSMUSG00000021702	Thbs4	TSP4	thrombospondin 4	protein-coding	10.0	29.0	8.0	313.0	91.5	31.5	42.0	44.5
Merged-chr16-5255229-3	chr16	5255139	5255339	+	703.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027446, intron 1 of 7)	intron (NM_027446, intron 1 of 7)	717.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	6.5	11.0	6.5	99.0	13.0	5.0	2.5	6.0
Merged-chr18-67724578-4	chr18	67724391	67724591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001127177, exon 1 of 9)	exon (NM_001127177, exon 1 of 9)	130.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	128.5	206.0	196.0	1789.0	395.0	174.5	161.5	195.5
Merged-chr2-38520102-4	chr2	38520022	38520222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159631, intron 1 of 9)	intron (NM_001159631, intron 1 of 9)	8246.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	43.5	73.0	76.0	921.5	108.5	24.5	41.0	47.0
Merged-chr1-180829987-4	chr1	180829879	180830079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16374.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	108.5	137.5	82.0	1515.5	244.0	81.5	114.5	84.5
Merged-chr6-136803927-2	chr6	136803819	136804019	+	1000.0	f0_c57.idr|f1_balb.idr	TTS (NM_175652)	TTS (NM_175652)	512.0	NM_175652	320332.0	Mm.246720	NM_175652	ENSMUSG00000096010	Hist4h4	B130044J01Rik	histone cluster 4, H4	protein-coding	53.0	90.0	49.0	847.5	134.0	56.0	55.0	66.0
Merged-chr2-148579197-2	chr2	148579110	148579310	+	640.333374	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-93405.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	8.5	10.0	7.0	170.0	7.0	2.5	8.0	5.0
Merged-chr19-10294746-6	chr19	10294654	10294854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	10123.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	35.5	57.0	35.0	460.5	53.0	23.5	28.0	40.0
Merged-chr11-64832332-4	chr11	64832241	64832441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146694.0	NM_023479	68626.0	Mm.157711	NM_023479	ENSMUSG00000020549	Elac2	1110017O07Rik|D11Wsu80e|Hpc2	elaC ribonuclease Z 2	protein-coding	85.0	107.0	84.0	1016.5	90.5	47.0	43.5	35.0
Merged-chr10-68282632-4	chr10	68282533	68282733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3907.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	46.5	73.5	59.0	720.0	147.0	72.5	74.0	61.5
Merged-chr5-23975225-4	chr5	23975129	23975329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053090, intron 10 of 10)	intron (NM_053090, intron 10 of 10)	55083.0	NM_001310471	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	48.5	114.5	88.5	1075.0	79.0	30.0	34.0	34.0
Merged-chr3-89393040-4	chr3	89392922	89393122	+	856.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355211)	promoter-TSS (NM_001355211)	356.0	NM_009565	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	4.5	9.0	7.5	51.5	27.5	4.5	10.5	7.5
Merged-chr5-45857845-4	chr5	45857708	45857908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163073)	promoter-TSS (NM_001163073)	-268.0	NM_001359873	209707.0	Mm.71498	NM_172153	ENSMUSG00000015882	Lcorl	Mlr1	ligand dependent nuclear receptor corepressor-like	protein-coding	286.5	408.0	417.0	4792.0	692.0	309.5	414.5	303.5
Merged-chr18-67775303-4	chr18	67775201	67775401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045376)	TTS (NR_045376)	425.0	NM_028112	72124.0	Mm.307315	NM_028112	ENSMUSG00000079614	Seh1l	2610007A16Rik|AW540070|SEC13L|SEH1A|SEH1B|Seh1	SEH1-like (S. cerevisiae	protein-coding	64.0	100.0	54.0	946.5	306.0	111.5	130.5	128.0
Merged-chr11-58009335-2	chr11	58009235	58009435	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_028451, exon 1 of 19)	exon (NM_028451, exon 1 of 19)	271.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	8.0	11.0	5.0	108.5	26.5	12.0	7.5	13.5
Merged-chr1-184771826-3	chr1	184771696	184771896	+	746.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39303.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	4.5	15.5	4.5	194.0	19.0	8.0	6.0	12.5
Merged-chr16-24933457-2	chr16	24933360	24933560	+	919.833374	f0_balb.idr|f0_c57.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-126179.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	9.5	11.0	8.0	196.5	42.5	11.0	12.5	9.0
Merged-chr10-59335078-1	chr10	59334978	59335178	+	545.0	f0_balb.idr	intron (NM_001316370, intron 1 of 13)	intron (NM_001316370, intron 1 of 13)	11782.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	6.5	8.0	9.0	84.5	6.5	0.0	3.0	0.5
Merged-chr2-154790900-4	chr2	154790775	154790975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001139511)	promoter-TSS (NM_001139511)	-235.0	NM_001139512	19383.0	Mm.221440	NM_023130	ENSMUSG00000027593	Raly	AI663842|Merc	hnRNP-associated with lethal yellow	protein-coding	202.0	300.0	167.5	2342.5	575.5	226.0	237.0	185.5
Merged-chr9-108761739-3	chr9	108761662	108761862	+	766.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34232.0	NM_029634	76500.0	Mm.276336	NM_029634	ENSMUSG00000032599	Ip6k2	1500005N04Rik|AW050208|Ihpk2	inositol hexaphosphate kinase 2	protein-coding	8.0	8.0	1.5	114.0	17.5	13.5	8.5	4.5
Merged-chr16-16870781-4	chr16	16870651	16870851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011624)	promoter-TSS (NM_011624)	15.0	NM_011624	21976.0	Mm.326089	NM_011624	ENSMUSG00000022779	Top3b	-	topoisomerase (DNA) III beta	protein-coding	73.0	92.5	74.0	762.0	216.0	63.0	87.5	55.5
Merged-chr6-114397878-4	chr6	114397777	114397977	+	948.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317126)	promoter-TSS (NM_001317126)	-59.0	NM_001317125	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	33.0	23.0	21.5	267.0	26.5	14.0	12.0	12.0
Merged-chr13-102678710-4	chr13	102678608	102678808	+	915.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14839.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	13.5	23.5	8.5	189.5	50.0	14.0	22.5	15.5
Merged-chr14-21299947-4	chr14	21299847	21300047	+	892.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 6 of 10)	intron (NM_134079, intron 6 of 10)	-199823.0	NM_001205241	54169.0	Mm.248967	NM_017479	ENSMUSG00000021767	Kat6b	AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf	K(lysine) acetyltransferase 6B	protein-coding	16.0	14.0	38.5	555.0	22.5	5.0	13.5	27.5
Merged-chr5-72223110-4	chr5	72223004	72223204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	19761.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	21.0	31.5	42.5	398.0	48.0	28.0	28.5	38.0
Merged-chr8-70872893-2	chr8	70872795	70872995	+	725.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026964, intron 1 of 4)	PB1D10|SINE|Alu	595.0	NM_026964	234388.0	Mm.295791	NM_026964	ENSMUSG00000007721	Ccdc124	1810023B24Rik	coiled-coil domain containing 124	protein-coding	1.5	7.5	4.0	13.0	16.5	7.0	5.0	4.5
Merged-chr2-25628042-4	chr2	25627938	25628138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007995)	promoter-TSS (NM_007995)	-64.0	NM_007995	14133.0	Mm.10510	NM_007995	ENSMUSG00000026938	Fcna	Fcn1	ficolin A	protein-coding	31.5	49.5	42.5	931.0	51.0	22.5	25.0	34.5
Merged-chr16-4489276-4	chr16	4489185	4489385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361474, intron 3 of 5)	intron (NM_001361474, intron 3 of 5)	33790.0	NM_001347162	106393.0	Mm.35811	NM_175347	ENSMUSG00000022519	Srl	9830004M20Rik|AW108387|sar	sarcalumenin	protein-coding	34.0	52.0	41.0	400.0	66.0	21.0	24.0	24.0
Merged-chr4-132794938-4	chr4	132794850	132795050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033308, intron 1 of 5)	intron (NM_001033308, intron 1 of 5)	1414.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	66.0	86.0	45.0	700.0	184.0	67.0	74.0	61.5
Merged-chr16-20141085-4	chr16	20140971	20141171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145931)	promoter-TSS (NM_001145931)	8.0	NM_001145930	208146.0	Mm.390895	NM_001033237	ENSMUSG00000041215	Yeats2	BC042768|mKIAA1197	YEATS domain containing 2	protein-coding	77.5	99.0	50.0	880.0	175.0	84.0	89.0	92.0
Merged-chr5-134552398-4	chr5	134552307	134552507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009990)	promoter-TSS (NM_009990)	27.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	96.5	172.0	73.5	1142.0	246.5	99.5	112.5	78.5
Merged-chr6-29624005-3	chr6	29623900	29624100	+	905.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14151.0	NM_001347079	320938.0	Mm.276381	NM_177296	ENSMUSG00000012535	Tnpo3	5730544L10Rik|C430013M08Rik|C81142|D6Ertd313e|Trn-SR|mKIAA4133	transportin 3	protein-coding	12.0	24.5	24.0	199.0	4.5	3.5	8.0	6.5
Merged-chr2-29649904-4	chr2	29649818	29650018	+	818.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	30198.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	6.0	21.5	3.5	120.5	40.5	19.5	15.0	8.0
Merged-chr10-71238131-4	chr10	71238027	71238227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009360)	promoter-TSS (NM_009360)	-83.0	NM_009360	21780.0	Mm.229292	NM_009360	ENSMUSG00000003923	Tfam	AI661103|Hmgts|mtTFA|tsHMG	transcription factor A, mitochondrial	protein-coding	153.5	246.5	132.5	2306.0	326.0	110.0	175.5	99.5
Merged-chr11-83082983-4	chr11	83082874	83083074	+	944.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SRV_MM-int|LTR|ERVK	17862.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	15.0	25.0	13.5	222.5	41.0	20.0	11.0	12.0
Merged-chr12-11196416-3	chr12	11196300	11196500	+	998.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131084, exon 3 of 5)	non-coding (NR_131084, exon 3 of 5)	8102.0	NR_131084	77442.0	Mm.159922	NR_131083	ENSMUSG00000112041	9530020I12Rik	-	RIKEN cDNA 9530020I12 gene	ncRNA	20.0	27.0	21.0	316.5	19.5	5.0	8.0	13.0
Merged-chr11-22008211-4	chr11	22008107	22008307	+	906.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252515, intron 23 of 24)	intron (NM_001252515, intron 23 of 24)	-6556.0	NM_011023	18423.0	Mm.129663	NM_011023	ENSMUSG00000005917	Otx1	A730044F23Rik|jv	orthodenticle homeobox 1	protein-coding	11.5	10.0	24.0	189.0	8.0	13.0	19.0	8.0
Merged-chr15-100637133-8	chr15	100636982	100637182	+	830.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174992)	promoter-TSS (NM_174992)	-142.0	NM_001033872	207818.0	Mm.26282	NM_174992	ENSMUSG00000053559	Smagp	-	small cell adhesion glycoprotein	protein-coding	10.5	10.5	24.5	159.0	13.0	4.0	3.5	7.5
Merged-chr8-70613969-4	chr8	70613843	70614043	+	764.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2901.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	10.5	16.5	13.0	66.0	21.5	13.5	5.0	10.0
Merged-chr16-48993734-2	chr16	48993634	48993834	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172616)	promoter-TSS (NM_172616)	378.0	NM_027341	224170.0	Mm.275138	NM_027341	ENSMUSG00000064061	Dzip3	2310047C04Rik|2A-HUB|6430549P11Rik|A230104G20	DAZ interacting protein 3, zinc finger	protein-coding	32.5	44.5	52.5	463.5	60.0	22.5	36.0	29.5
Merged-chr17-57283991-4	chr17	57283906	57284106	+	950.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	intron (NM_001163816, intron 1 of 25)	4906.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	2.0	20.0	17.5	322.0	25.0	5.5	17.5	14.0
Merged-chr10-43541022-4	chr10	43540935	43541135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026411)	promoter-TSS (NM_026411)	-17.0	NM_026411	67851.0	Mm.209953	NM_026411	ENSMUSG00000019797	1700021F05Rik	-	RIKEN cDNA 1700021F05 gene	protein-coding	111.5	145.0	118.5	1631.5	249.5	83.0	155.0	96.0
Merged-chr3-132033988-4	chr3	132033895	132034095	+	872.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51297.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	12.0	21.0	11.5	150.5	37.5	11.0	6.0	12.0
Merged-chr19-37608647-1	chr19	37608547	37608747	+	741.0	f0_balb.idr	intron (NM_175353, intron 17 of 21)	MTE2b|LTR|ERVL-MaLR	58229.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	10.0	9.5	9.0	187.5	3.0	0.5	1.0	2.0
Merged-chr1-183599448-4	chr1	183599333	183599533	+	896.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149544.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	7.5	4.5	4.0	180.0	29.5	12.5	13.0	9.5
Merged-chr15-36282596-2	chr15	36282496	36282696	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357631, intron 1 of 7)	CpG	551.0	NM_013923	30945.0	Mm.5181	NM_013923	ENSMUSG00000022280	Rnf19a	AA032313|Dorfin|Rnf19|UIP117|Ubce7ip2|XYbp	ring finger protein 19A	protein-coding	23.5	31.5	33.5	238.0	53.0	28.0	23.5	26.5
Merged-chr2-171633556-3	chr2	171633457	171633657	+	946.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	329242.0	NR_040509	75655.0	Mm.396203	NR_040509	ENSMUSG00000086823	1700028P15Rik	-	RIKEN cDNA 1700028P15 gene	ncRNA	6.5	12.5	5.0	86.5	1.5	0.5	0.5	1.5
Merged-chr10-40317394-2	chr10	40317294	40317494	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT-int|LTR|ERVL-MaLR	-15206.0	NM_009665	11702.0	Mm.253533	NM_009665	ENSMUSG00000075232	Amd1	AdoMetDC|Amd-1|SAMDC|SAMDC 1|adoMetDC1	S-adenosylmethionine decarboxylase 1	protein-coding	10.5	13.5	13.0	161.0	4.0	7.5	4.5	13.5
Merged-chr7-114164500-4	chr7	114164453	114164653	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-46772.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	13.0	10.5	14.0	223.5	47.0	17.5	27.5	12.5
Merged-chr3-138489544-4	chr3	138489468	138489668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175224)	promoter-TSS (NM_175224)	-186.0	NM_175224	75624.0	Mm.26833	NM_175224	ENSMUSG00000005813	Metap1	1700029C17Rik|AW047992|mKIAA0094	methionyl aminopeptidase 1	protein-coding	189.5	277.0	185.5	2474.5	567.5	205.0	257.0	182.0
Merged-chr8-125756765-4	chr8	125756655	125756855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175561, intron 32 of 33)	intron (NM_175561, intron 32 of 33)	22552.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	40.5	40.0	31.0	458.5	66.5	20.0	36.5	25.0
Merged-chr8-11215434-4	chr8	11215339	11215539	+	905.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009931, intron 40 of 51)	intron (NM_009931, intron 40 of 51)	-97366.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	12.0	32.5	21.5	288.5	37.5	12.0	18.0	16.0
Merged-chr15-73090371-4	chr15	73090288	73090488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053068)	promoter-TSS (NM_053068)	-24.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	85.5	208.0	53.0	1142.5	328.0	145.5	144.0	126.5
Merged-chr7-3675102-4	chr7	3674973	3675173	+	965.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181820, exon 4 of 15)	exon (NM_181820, exon 4 of 15)	2480.0	NM_181820	353499.0	Mm.360398	NM_181820	ENSMUSG00000019734	Tmc4	-	transmembrane channel-like gene family 4	protein-coding	11.5	23.5	12.0	191.0	45.0	24.5	21.5	23.5
Merged-chr1-144204909-3	chr1	144204816	144205016	+	886.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27544.0	NM_153171	246709.0	Mm.38271	NM_153171	ENSMUSG00000051079	Rgs13	-	regulator of G-protein signaling 13	protein-coding	13.0	21.0	7.5	394.5	17.0	10.5	11.5	12.0
Merged-chr10-37321389-4	chr10	37321289	37321489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-182463.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	112.0	234.0	123.0	1679.5	363.0	119.0	195.0	108.5
Merged-chr3-148989463-14	chr3	148989242	148989442	+	905.031616	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34707.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	13.5	23.5	30.5	348.0	21.5	4.0	8.0	9.0
Merged-chr10-42055490-2	chr10	42055390	42055590	+	696.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	-37108.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	11.0	18.0	3.0	31.5	13.5	17.0	5.0	9.0
Merged-chr7-63910415-2	chr7	63910303	63910503	+	736.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	-6454.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	5.5	5.5	10.0	21.5	3.5	4.0	3.0	5.0
Merged-chr11-114680961-4	chr11	114680894	114681094	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	5526.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	13.5	14.0	9.5	198.0	23.5	10.5	8.0	14.0
Merged-chr4-118152202-4	chr4	118152088	118152288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161823, intron 12 of 21)	intron (NM_001161823, intron 12 of 21)	-17242.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	45.5	38.0	46.0	809.5	64.0	15.0	24.0	62.0
Merged-chr19-12513201-1	chr19	12513101	12513301	+	694.666687	f0_balb.idr	Intergenic	L1MD|LINE|L1	-11205.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	8.0	7.5	14.0	147.5	0.0	0.0	2.0	1.0
Merged-chr15-97248474-3	chr15	97248369	97248569	+	870.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 1 of 5)	intron (NM_172293, intron 1 of 5)	-1182.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	10.0	12.5	6.5	111.5	15.5	4.0	4.5	8.0
Merged-chr1-152612893-4	chr1	152612802	152613002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	12315.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	39.5	28.0	57.0	874.0	64.5	32.5	34.0	34.0
Merged-chr4-119541947-4	chr4	119541836	119542036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357177)	promoter-TSS (NM_001357177)	-400.0	NM_001357177	230700.0	Mm.259227	NM_172699	ENSMUSG00000032998	Foxj3	C330039G02Rik|Fhd6	forkhead box J3	protein-coding	48.5	56.5	60.5	1008.0	152.0	45.5	48.5	43.5
Merged-chr2-170155111-4	chr2	170154989	170155189	+	974.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12414.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	28.5	27.0	9.5	218.0	54.0	21.0	18.5	20.0
Merged-chr18-75917925-3	chr18	75917829	75918029	+	685.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	intron (NM_145356, intron 2 of 4)	97751.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	0.0	1.5	2.0	32.5	25.5	10.0	26.5	10.5
Merged-chr17-24414596-4	chr17	24414499	24414699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009070)	promoter-TSS (NM_009070)	-47.0	NM_001357626	19826.0	Mm.1951	NM_009070	ENSMUSG00000034681	Rnps1	-	ribonucleic acid binding protein S1	protein-coding	118.5	204.0	85.5	1368.5	323.0	147.0	131.5	151.5
Merged-chr3-69223783-3	chr3	69223656	69223856	+	919.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027843)	TTS (NM_027843)	1337.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	8.5	16.0	11.0	132.5	39.5	7.0	8.5	8.5
Merged-chr1-134065476-4	chr1	134065371	134065571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13684.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	318.5	460.5	447.0	4822.5	616.0	276.0	370.0	287.5
Merged-chr12-110737898-4	chr12	110737804	110738004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027149)	promoter-TSS (NM_027149)	7.0	NM_027149	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	124.5	158.0	110.5	1319.5	249.0	111.0	94.0	108.5
Merged-chr13-63239985-4	chr13	63239889	63240089	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110521)	promoter-TSS (NR_110521)	-40.0	NR_110520	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	37.0	51.0	16.0	365.0	54.0	16.0	18.0	17.5
Merged-chr15-8444638-4	chr15	8444528	8444728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027707)	promoter-TSS (NM_027707)	-165.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	73.0	108.5	89.0	948.0	207.5	72.0	88.0	64.0
Merged-chr18-37935576-4	chr18	37935486	37935686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305981)	promoter-TSS (NM_001305981)	-110.0	NM_001305980	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	257.0	414.5	257.0	3704.0	613.5	221.0	294.0	216.0
Merged-chr5-25222905-4	chr5	25222847	25223047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144908)	promoter-TSS (NM_144908)	75.0	NM_144908	231050.0	Mm.246718	NM_144908	ENSMUSG00000038072	Galnt11	A430075I06Rik|AI648252|E430002F06Rik	polypeptide N-acetylgalactosaminyltransferase 11	protein-coding	103.0	175.0	161.5	1705.5	279.5	126.0	136.0	193.5
Merged-chr5-102072239-4	chr5	102072136	102072336	+	948.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2315.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	30.0	30.5	27.5	431.0	34.5	9.0	11.5	19.5
Merged-chr7-25220673-4	chr7	25220583	25220783	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207677)	promoter-TSS (NM_207677)	-742.0	NM_175436	210172.0	Mm.129371	NM_175436	ENSMUSG00000046541	Zfp526	D030024H03Rik|Znf526	zinc finger protein 526	protein-coding	30.5	41.5	15.0	290.0	74.0	30.0	28.0	30.0
Merged-chr4-45342063-4	chr4	45341906	45342106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153167)	promoter-TSS (NM_153167)	-95.0	NM_153167	242418.0	Mm.317668	NM_153167	ENSMUSG00000035572	Dcaf10	AA959934|Wdr32	DDB1 and CUL4 associated factor 10	protein-coding	94.5	122.5	73.0	1320.5	139.5	56.0	92.5	71.5
Merged-chr10-88578804-4	chr10	88578718	88578918	+	969.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252372, intron 2 of 28)	intron (NM_001252372, intron 2 of 28)	26334.0	NM_001252372	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	22.0	30.0	14.0	333.0	52.0	17.0	20.5	17.5
Merged-chr18-34930990-4	chr18	34930904	34931104	+	914.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144866, intron 2 of 10)	intron (NM_144866, intron 2 of 10)	999.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	14.0	7.5	17.0	180.5	32.0	7.0	7.0	20.5
Merged-chr11-31864045-2	chr11	31863945	31864145	+	597.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6895.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	4.5	10.0	6.0	51.5	7.5	1.0	7.5	6.0
Merged-chr5-41844366-4	chr5	41844272	41844472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310601)	promoter-TSS (NM_001310601)	-57.0	NM_001081422	665775.0	Mm.158726	NM_001081422	ENSMUSG00000061755	Bod1l	A230054D04Rik|AI853319|FAM44A|mKIAA1327	biorientation of chromosomes in cell division 1-like	protein-coding	220.0	236.0	294.5	2748.5	483.0	191.5	218.0	218.0
Merged-chr15-25532268-3	chr15	25532170	25532370	+	945.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-90280.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	8.0	14.0	12.5	286.5	20.0	4.0	7.0	15.5
Merged-chr18-84849906-4	chr18	84849817	84850017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1421.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	44.5	52.5	29.5	374.5	72.0	50.5	37.0	27.5
Merged-chr9-70838695-4	chr9	70838574	70838774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	intron (NM_001324473, intron 1 of 8)	96134.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	135.0	248.5	143.0	1852.0	334.0	109.5	176.0	116.5
Merged-chr19-29572476-4	chr19	29572363	29572563	+	908.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081319, intron 8 of 25)	Tigger7|DNA|TcMar-Tigger	50181.0	NM_001081319	226089.0	Mm.353838	NM_177641	ENSMUSG00000038658	Ric1	C030046E11Rik|C130057E09Rik|Kiaa1432	RAB6A GEF complex partner 1	protein-coding	13.0	7.5	5.5	184.0	27.0	7.0	8.0	15.0
Merged-chr12-103164737-4	chr12	103164642	103164842	+	911.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081017, intron 42 of 48)	intron (NM_001081017, intron 42 of 48)	77404.0	NM_133364	170952.0	Mm.217019	NM_133364	ENSMUSG00000041669	Prima1	B230212M13Rik|BB120497|PRiMA	proline rich membrane anchor 1	protein-coding	6.5	6.5	14.5	457.5	23.5	2.0	19.0	12.0
Merged-chr11-117989621-4	chr11	117989549	117989749	+	814.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151726, intron 1 of 9)	intron (NR_151726, intron 1 of 9)	2792.0	NR_151726	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	4.5	14.5	17.0	99.5	26.0	8.0	11.0	8.5
Merged-chr12-32912939-3	chr12	32912841	32913041	+	648.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	40848.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	8.0	3.0	2.0	79.0	4.5	16.0	8.0	5.0
Merged-chr11-21540276-4	chr11	21540157	21540357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-29077.0	NR_028259	237694.0	Mm.72926	NM_172792	ENSMUSG00000078962	4932414J04Rik	-	RIKEN cDNA 4932414J04 gene	ncRNA	20.5	42.5	22.0	429.5	40.5	20.5	36.5	32.0
Merged-chr4-44173343-4	chr4	44173237	44173437	+	817.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5054.0	NM_001038993	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	17.0	15.5	7.5	112.5	26.0	5.5	11.0	9.5
Merged-chr7-28382064-4	chr7	28381962	28382162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2834.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	336.5	516.0	277.0	3090.0	695.5	320.5	334.0	215.5
Merged-chr6-87535814-4	chr6	87535729	87535929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2570.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	45.5	46.5	74.0	636.0	66.0	20.5	50.5	30.5
Merged-chr16-84836224-4	chr16	84836125	84836325	+	934.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016755)	promoter-TSS (NM_016755)	-600.0	NM_001302213	11957.0	Mm.353	NM_016755	ENSMUSG00000022890	Atp5j	CF6	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F	protein-coding	16.5	17.0	16.5	216.0	19.0	18.5	11.0	16.0
Merged-chr11-75190510-4	chr11	75190433	75190633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144491)	promoter-TSS (NM_144491)	-50.0	NM_144491	116905.0	Mm.41496	NM_144491	ENSMUSG00000078789	Dph1	2310011M22Rik|4930488F09Rik|AW551873|Dph2l1|Ovca1	diphthamide biosynthesis 1	protein-coding	62.0	87.5	42.0	437.5	162.5	36.5	49.0	41.0
Merged-chr1-162665298-4	chr1	162665196	162665396	+	944.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7077.0	NM_001177581	100038657.0	Mm.416999	NM_001177581	ENSMUSG00000091060	Myocos	7420461P10Rik	myocilin opposite strand	protein-coding	20.5	17.0	13.5	211.5	67.0	10.0	37.5	21.0
Merged-chr3-87031084-4	chr3	87030990	87031190	+	828.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31750.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	14.0	19.5	17.0	117.5	27.5	12.5	7.0	13.0
Merged-chr17-35044679-2	chr17	35044578	35044778	+	650.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013600, intron 4 of 23)	intron (NM_013600, intron 4 of 23)	1944.0	NM_013600	17687.0	Mm.24192	NM_013600	ENSMUSG00000007035	Msh5	Mut5	mutS homolog 5	protein-coding	1.0	7.5	3.5	27.0	12.5	4.5	7.0	5.5
Merged-chr7-80788541-4	chr7	80788443	80788643	+	844.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	14788.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	14.5	11.5	5.5	141.5	26.5	12.0	7.5	14.0
Merged-chr13-33957032-3	chr13	33956914	33957114	+	597.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040707, intron 3 of 4)	intron (NR_040707, intron 3 of 4)	-7645.0	NM_001163239	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	6.0	6.5	4.0	107.0	15.0	4.5	8.0	6.0
Merged-chr15-81417144-4	chr15	81417032	81417232	+	908.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177310, intron 2 of 8)	ERVB7_2B-LTR_MM|LTR|ERVK	-8859.0	NM_021317	57755.0	Mm.440590	NM_021317	ENSMUSG00000047108	Dnajb7	4933424H20Rik|Dj5|mDj5	DnaJ heat shock protein family (Hsp40) member B7	protein-coding	20.0	18.0	7.5	104.0	42.0	19.5	19.5	9.0
Merged-chr7-63939601-2	chr7	63939501	63939701	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021366)	promoter-TSS (NM_021366)	-686.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	17.0	54.0	41.0	577.5	90.0	36.5	44.0	32.0
Merged-chr3-106759334-2	chr3	106759234	106759434	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007651, exon 8 of 8)	3' UTR (NM_007651, exon 8 of 8)	30815.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	1.0	4.5	4.0	96.0	9.0	4.5	5.0	11.5
Merged-chr11-116413127-4	chr11	116413023	116413223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027258)	promoter-TSS (NM_027258)	-91.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	45.0	58.0	22.5	431.5	142.0	64.5	57.5	64.5
Merged-chr3-51778470-3	chr3	51778364	51778564	+	856.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	117285.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	9.5	27.0	13.0	221.0	33.0	5.5	7.0	6.5
Merged-chr10-81244786-4	chr10	81244695	81244895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034895, intron 8 of 17)	intron (NM_001034895, intron 8 of 17)	-8140.0	NM_001285855	17179.0	Mm.2918	NM_010768	ENSMUSG00000004933	Matk	CHK|HYL|Ntk|p56ntk	megakaryocyte-associated tyrosine kinase	protein-coding	27.0	45.0	29.0	329.0	104.5	32.0	40.0	30.5
Merged-chr17-70993589-4	chr17	70993486	70993686	+	886.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357820)	TTS (NM_001357820)	-3070.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	22.0	38.0	18.0	187.0	29.0	6.5	8.0	6.0
Merged-chr7-45068072-4	chr7	45067964	45068164	+	944.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163684, intron 1 of 8)	B2_Mm2|SINE|B2	5635.0	NM_025533	66394.0	Mm.272139	NM_025533	ENSMUSG00000003421	Nosip	2310061K06Rik|CGI-25	nitric oxide synthase interacting protein	protein-coding	15.0	33.0	18.0	327.0	26.0	10.5	7.0	12.5
Merged-chr3-152355452-3	chr3	152355349	152355549	+	730.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355666, intron 1 of 21)	intron (NM_001355666, intron 1 of 21)	8971.0	NM_001076676	170822.0	Mm.258320	NM_133247	ENSMUSG00000025437	Usp33	9830169D19Rik|AA409780|Vdu1	ubiquitin specific peptidase 33	protein-coding	8.5	14.5	7.0	157.5	13.5	4.0	2.5	4.0
Merged-chr18-66467446-1	chr18	66467346	66467546	+	801.0	f0_balb.idr	Intergenic	Lx6|LINE|L1	8842.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	9.0	16.5	10.0	171.5	31.5	8.5	5.5	16.5
Merged-chr11-74501006-4	chr11	74500904	74501104	+	793.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	89154.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	7.5	13.5	7.0	120.0	18.5	4.0	18.0	9.5
Merged-chr7-128523556-4	chr7	128523427	128523627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013863)	promoter-TSS (NM_013863)	-56.0	NM_013863	29810.0	Mm.84073	NM_013863	ENSMUSG00000030847	Bag3	AA407278|Bis|mg638	BCL2-associated athanogene 3	protein-coding	180.5	258.5	199.0	2617.0	378.5	120.0	164.5	172.5
Merged-chr16-25036529-4	chr16	25036436	25036636	+	751.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23103.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	15.5	22.5	7.5	186.0	24.0	16.0	11.0	3.5
Merged-chr15-99946516-2	chr15	99946416	99946616	+	600.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14858.0	NM_028180	72277.0	Mm.272766	NM_028180	ENSMUSG00000045350	1700030F18Rik	FAM186A	RIKEN cDNA 1700030F18 gene	protein-coding	6.0	8.0	4.5	30.5	16.0	3.5	5.5	5.0
Merged-chr14-57890400-4	chr14	57890287	57890487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360097)	promoter-TSS (NM_001360097)	-51.0	NM_001360097	75965.0	Mm.29044	NM_029492	ENSMUSG00000021969	Zdhhc20	4930542A17Rik|5033406L14Rik|AI448102|B230110O18Rik|HK11	zinc finger, DHHC domain containing 20	protein-coding	241.0	340.5	211.5	2683.5	429.0	236.0	291.5	193.0
Merged-chr6-83444103-3	chr6	83444025	83444225	+	749.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028382, intron 2 of 2)	intron (NR_028382, intron 2 of 2)	2370.0	NR_028382	320775.0	Mm.434334	NR_028382	ENSMUSG00000051844	B230319C09Rik	-	RIKEN cDNA B230319C09 gene	ncRNA	10.0	17.5	5.5	184.0	24.0	4.0	7.5	9.0
Merged-chr1-191119519-4	chr1	191119396	191119596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	21082.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	86.5	118.0	89.5	1264.0	82.5	27.5	54.0	37.5
Merged-chr19-32754893-4	chr19	32754808	32755008	+	969.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2669.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	18.5	35.5	17.5	280.0	46.0	10.0	9.5	22.0
Merged-chr5-134555672-4	chr5	134555567	134555767	+	909.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3233.0	NM_009990	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	15.5	15.5	13.5	290.0	65.0	8.5	14.5	18.0
Merged-chr3-89847807-4	chr3	89847697	89847897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172530, intron 2 of 5)	MIR|SINE|MIR	16427.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	32.5	37.5	62.0	1131.5	118.0	23.0	60.5	51.0
Merged-chr17-50149966-4	chr17	50149924	50150124	+	816.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	40473.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	8.5	15.5	3.5	69.0	24.5	8.5	7.0	8.5
Merged-chr10-26375202-8	chr10	26375076	26375276	+	954.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172787)	promoter-TSS (NM_172787)	43.0	NM_172787	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	5.0	12.5	13.0	116.0	19.0	10.5	9.5	22.5
Merged-chr16-70313495-2	chr16	70313395	70313595	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028803)	promoter-TSS (NM_028803)	-454.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	6.0	15.0	4.5	81.5	6.0	7.5	6.5	9.5
Merged-chr3-8729075-4	chr3	8728924	8729124	+	978.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61986.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	21.0	17.0	13.5	281.5	32.5	6.0	13.0	16.5
Merged-chr1-182908573-4	chr1	182908481	182908681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46207.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	161.0	146.5	139.5	2307.5	284.0	104.0	135.0	156.5
Merged-chr18-79936877-3	chr18	79936777	79936977	+	941.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110018.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	17.5	22.0	23.5	415.5	0.0	0.5	1.0	0.0
Merged-chr3-116211002-3	chr3	116210906	116211106	+	586.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42478.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	13.0	11.0	6.0	94.0	13.5	3.5	5.0	11.5
Merged-chr2-35349433-4	chr2	35349345	35349545	+	802.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12436.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	13.0	10.5	5.5	122.5	19.5	10.0	12.0	10.5
Merged-chr4-133847968-3	chr4	133847861	133848061	+	989.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001285506, exon 21 of 21)	3' UTR (NM_001285506, exon 21 of 21)	26770.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	0.0	0.5	0.0	12.0	89.5	18.0	17.5	31.0
Merged-chr17-33950808-2	chr17	33950716	33950916	+	621.5	f0_balb.idr|f0_c57.idr	exon (NM_019420, exon 1 of 1)	exon (NM_019420, exon 1 of 1)	672.0	NM_019420	54218.0	Mm.11132	NM_019420	ENSMUSG00000067370	B3galt4	Gal-T2|Galt2	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4	protein-coding	9.5	9.5	4.0	64.5	15.5	8.5	5.0	16.0
Merged-chr15-99497297-4	chr15	99497249	99497449	+	823.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028224, exon 12 of 12)	3' UTR (NM_028224, exon 12 of 12)	-22619.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	8.5	15.5	0.5	64.5	34.0	8.5	5.5	19.5
Merged-chr2-158161787-4	chr2	158161634	158161834	+	877.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15342.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	7.5	9.0	12.0	293.0	14.0	4.5	10.5	13.0
Merged-chr6-48446128-3	chr6	48446047	48446247	+	928.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085417)	promoter-TSS (NM_001085417)	-322.0	NM_001355746	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	10.0	24.5	13.5	214.0	20.5	11.0	11.0	7.5
Merged-chr1-52141647-4	chr1	52141537	52141737	+	797.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205313, intron 11 of 24)	RLTR28|LTR|ERVL	22015.0	NM_001205313	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	7.5	5.0	6.5	102.0	31.5	11.5	15.5	25.5
Merged-chr7-105954037-1	chr7	105953937	105954137	+	585.5	f0_c57.idr	promoter-TSS (NM_029000)	promoter-TSS (NM_029000)	-67.0	NM_029000	74558.0	Mm.458429	NM_029000	ENSMUSG00000045868	Gvin1	9130002C22Rik|9830104F22Rik|Iigs1|VLIG|VLIG-1	GTPase, very large interferon inducible 1	protein-coding	0.0	0.0	0.0	0.0	28.5	10.0	21.0	9.5
Merged-chr7-34672160-4	chr7	34672061	34672261	+	974.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16652.0	NM_001360818	233107.0	Mm.76761	NM_146188	ENSMUSG00000030499	Kctd15	BC031749	potassium channel tetramerisation domain containing 15	protein-coding	28.0	54.5	25.0	435.5	87.0	25.0	34.5	16.5
Merged-chr18-65580932-8	chr18	65580867	65581067	+	988.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207255, intron 1 of 5)	CpG	737.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	10.0	25.5	19.0	219.5	26.5	9.5	11.5	12.5
Merged-chr3-127792840-4	chr3	127792747	127792947	+	986.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356430, intron 2 of 2)	intron (NM_001356430, intron 2 of 2)	2190.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	24.0	22.5	22.5	195.0	57.0	16.5	19.5	17.5
Merged-chr6-70855725-4	chr6	70855596	70855796	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313918, intron 1 of 2)	L2|LINE|L2	11181.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	32.0	36.0	23.5	408.0	42.5	16.5	13.0	23.5
Merged-chr8-46794131-2	chr8	46794031	46794231	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 2 of 7)	intron (NR_152560, intron 2 of 7)	54386.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	7.0	5.0	1.0	58.5	7.0	8.5	7.5	9.5
Merged-chr1-151564589-4	chr1	151564499	151564699	+	891.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6774.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	10.0	20.0	10.5	219.5	34.0	8.0	25.5	18.0
Merged-chr3-14572122-3	chr3	14572015	14572215	+	817.144409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028915, intron 18 of 18)	intron (NM_028915, intron 18 of 18)	-6556.0	NM_007892	13559.0	Mm.153415	NM_007892	ENSMUSG00000027552	E2f5	AU024671|E2F-5	E2F transcription factor 5	protein-coding	12.0	16.5	10.0	325.5	21.5	4.0	5.5	15.0
Merged-chr10-84917262-4	chr10	84917257	84917457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183172)	promoter-TSS (NM_183172)	-256.0	NM_001013441	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	139.0	182.5	137.5	1787.5	230.5	117.5	133.5	164.5
Merged-chr3-95667453-4	chr3	95667383	95667583	+	951.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	8762.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	11.5	9.0	7.5	15.0	14.0	4.5	2.5	10.5
Merged-chr16-31200198-9	chr16	31200047	31200247	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030138, intron 1 of 22)	intron (NM_030138, intron 1 of 22)	1091.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	40.0	24.0	32.5	386.5	49.5	13.5	16.5	16.5
Merged-chr14-103920375-4	chr14	103920284	103920484	+	929.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75908.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	18.5	34.0	26.5	501.0	33.0	16.5	28.0	15.5
Merged-chr18-61077359-3	chr18	61077267	61077467	+	873.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008809, intron 15 of 22)	intron (NM_008809, intron 15 of 22)	-28205.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	5.0	14.5	7.0	48.0	29.0	11.0	9.5	5.0
Merged-chr6-83656162-4	chr6	83656069	83656269	+	967.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016751)	promoter-TSS (NM_016751)	-53.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	23.0	20.5	61.5	993.0	52.0	16.0	25.5	32.5
Merged-chr10-4388652-3	chr10	4388549	4388749	+	981.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033466)	promoter-TSS (NM_001033466)	-541.0	NM_001033466	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	11.0	9.5	11.5	137.5	15.0	2.5	15.0	29.5
Merged-chr17-15021694-3	chr17	15021591	15021791	+	985.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123372, intron 11 of 11)	intron (NM_001123372, intron 11 of 11)	-11507.0	NM_198104	21647.0	Mm.440445	NM_011560	ENSMUSG00000079707	Tcte3	D17Leh117c|LC2|Tcte-3|Tctex-2|Tctex-4|Tctex2|Tctex4	t-complex-associated testis expressed 3	protein-coding	0.0	0.0	0.0	0.0	53.0	20.0	24.5	24.0
Merged-chr1-151036704-4	chr1	151036624	151036824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43289.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	57.0	38.0	59.0	783.0	90.5	22.0	53.0	48.0
Merged-chr2-157094086-3	chr2	157093963	157094163	+	990.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177439, intron 4 of 5)	intron (NM_001177439, intron 4 of 5)	7008.0	NM_001177439	383766.0	Mm.480305	NM_001177439	ENSMUSG00000074628	Tldc2	Gm1332	TBC/LysM associated domain containing 2	protein-coding	11.0	15.5	13.5	144.0	7.0	6.5	6.5	18.5
Merged-chr6-57581006-4	chr6	57580910	57581110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025992)	promoter-TSS (NM_025992)	18.0	NM_025992	67138.0	Mm.297393	NM_025992	ENSMUSG00000029798	Herc6	1700121D12Rik|2510038N07Rik|4930427L17Rik|AI451296|CEB1|Herc5	hect domain and RLD 6	protein-coding	52.0	119.5	79.5	1182.5	206.5	79.0	97.5	53.0
Merged-chr7-135667487-3	chr7	135667378	135667578	+	987.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316681, intron 7 of 17)	intron (NM_001316681, intron 7 of 17)	-15164.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	8.5	5.5	12.0	277.0	2.5	3.0	2.0	1.5
Merged-chr19-8953210-4	chr19	8953124	8953324	+	904.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197993)	promoter-TSS (NM_197993)	-608.0	NM_197993	70044.0	Mm.165979	NM_197993	ENSMUSG00000071645	Tut1	2700038E08Rik|PAPD2|Rbm21|TUTase6|U6-TUTase|star-PAP	terminal uridylyl transferase 1, U6 snRNA-specific	protein-coding	16.5	17.5	21.0	204.5	24.5	16.5	16.0	26.0
Merged-chr4-154946510-4	chr4	154946421	154946621	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14402.0	NM_010419	15208.0	Mm.137268	NM_010419	ENSMUSG00000048001	Hes5	bHLHb38	hes family bHLH transcription factor 5	protein-coding	7.0	5.5	13.0	115.0	19.0	13.0	14.0	9.5
Merged-chr6-54668041-3	chr6	54667850	54668050	+	850.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	-13674.0	NM_001289741	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	5.5	8.5	12.0	61.0	2.5	4.5	7.5	6.0
Merged-chr19-38054475-3	chr19	38054395	38054595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	promoter-TSS (NM_001360663)	promoter-TSS (NM_001360663)	-489.0	NM_028293	74107.0	Mm.9916	NM_028293	ENSMUSG00000024989	Cep55	1200008O12Rik|2700032M20Rik	centrosomal protein 55	protein-coding	36.0	55.5	66.5	493.5	117.5	59.0	70.0	65.5
Merged-chr19-10456923-3	chr19	10456850	10457050	+	924.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001111140, exon 1 of 1)	exon (NM_001111140, exon 1 of 1)	497.0	NM_001111140	278795.0	Mm.490638	NM_001111140	ENSMUSG00000090291	Lrrc10b	Gm705|SerdinR	leucine rich repeat containing 10B	protein-coding	4.5	7.5	7.0	113.5	5.5	2.5	3.0	8.5
Merged-chr12-32795894-4	chr12	32795771	32795971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24464.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	124.0	179.5	123.5	1967.0	323.5	123.5	116.0	123.5
Merged-chr11-4843637-4	chr11	4843550	4843750	+	724.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010898, intron 1 of 15)	B3|SINE|B2	5894.0	NM_001252250	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	12.0	17.5	3.5	142.5	39.0	12.0	9.5	7.0
Merged-chr11-55208453-4	chr11	55208380	55208580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153139, intron 1 of 10)	intron (NM_153139, intron 1 of 10)	4140.0	NM_153139	215335.0	Mm.35732	NM_153139	ENSMUSG00000020261	Slc36a1	5830411H19Rik|AI839897|Pat1	solute carrier family 36 (proton/amino acid symporter), member 1	protein-coding	73.5	90.0	105.0	1616.5	119.0	42.0	63.5	96.0
Merged-chr10-34282101-4	chr10	34281970	34282170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009433)	promoter-TSS (NM_009433)	-120.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	171.0	247.0	201.0	2422.0	378.0	135.0	141.5	120.5
Merged-chr19-45014808-4	chr19	45014700	45014900	+	867.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145503)	promoter-TSS (NM_145503)	-376.0	NM_145503	226154.0	Mm.28204	NM_145503	ENSMUSG00000035342	Lzts2	BC014695|LAPSER1|mKIAA1813	leucine zipper, putative tumor suppressor 2	protein-coding	15.5	23.0	13.5	78.0	32.5	15.5	11.5	9.0
Merged-chr7-79732890-3	chr7	79732787	79732987	+	949.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113471)	promoter-TSS (NM_001113471)	-111.0	NM_001113471	103968.0	Mm.254917	NM_175640	ENSMUSG00000030546	Plin1	6030432J05Rik|Peri|Plin	perilipin 1	protein-coding	6.5	14.5	12.5	154.0	13.5	2.5	6.0	8.0
Merged-chr11-120149998-3	chr11	120149895	120150095	+	949.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361699, intron 1 of 16)	intron (NM_001361699, intron 1 of 16)	1356.0	NM_001361698	72055.0	Mm.253403	NM_024249	ENSMUSG00000061306	Slc38a10	1810073N04Rik	solute carrier family 38, member 10	protein-coding	5.5	7.0	9.5	123.5	18.0	2.5	9.5	5.5
Merged-chr17-26647353-4	chr17	26647244	26647444	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 9 of 9)	intron (NM_026170, intron 9 of 9)	-29052.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	9.0	19.5	25.5	538.0	16.5	5.5	3.5	18.5
Merged-chr2-165487027-4	chr2	165486928	165487128	+	913.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6286.0	NM_001007581	381406.0	Mm.330785	NM_001007581	ENSMUSG00000039725	Trp53rka	2810408M09Rik	transformation related protein 53 regulating kinase A	protein-coding	19.5	26.5	10.0	136.5	81.0	22.0	20.5	14.0
Merged-chr14-66179152-4	chr14	66179055	66179255	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 5 of 30)	intron (NM_001162366, intron 5 of 30)	34669.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	16.0	48.5	31.0	272.5	73.0	15.5	20.0	21.0
Merged-chr2-167635136-2	chr2	167635036	167635236	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3131.0	NM_023230	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	4.0	8.5	2.0	41.0	12.5	5.0	5.0	7.0
Merged-chr2-120158314-4	chr2	120158202	120158402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-3727.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	41.5	50.0	55.0	755.0	102.5	26.5	29.0	42.5
Merged-chr9-118668719-3	chr9	118668611	118668811	+	847.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133721, exon 9 of 28)	exon (NM_133721, exon 9 of 28)	-42981.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	2.0	8.0	4.0	69.5	19.5	5.5	7.0	5.5
Merged-chr2-80638847-4	chr2	80638750	80638950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027091)	promoter-TSS (NM_027091)	38.0	NM_027091	69482.0	Mm.29200	NM_027091	ENSMUSG00000026999	Nup35	2310006I24Rik|35kDa|5330402E05Rik|MP44|NO44	nucleoporin 35	protein-coding	95.5	144.5	57.5	828.5	250.0	80.0	103.0	91.5
Merged-chr16-31883787-3	chr16	31883687	31883887	+	796.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013900, exon 4 of 16)	exon (NM_013900, exon 4 of 16)	4977.0	NM_013900	30060.0	Mm.30988	NM_013900	ENSMUSG00000022780	Meltf	CD228|MTf|Mfi2	melanotransferrin	protein-coding	9.5	23.5	14.5	147.5	18.5	6.5	10.5	8.0
Merged-chr17-46711437-4	chr17	46711343	46711543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145488)	promoter-TSS (NM_145488)	-20.0	NM_145488	224824.0	Mm.299399	NM_145488	ENSMUSG00000002763	Pex6	AI132582|D130055I09Rik|mKIAA4177	peroxisomal biogenesis factor 6	protein-coding	46.0	86.0	47.5	830.0	160.0	55.0	46.0	54.0
Merged-chr12-44209280-1	chr12	44209180	44209380	+	1000.0	f0_balb.idr	intron (NM_013760, intron 1 of 2)	intron (NM_013760, intron 1 of 2)	788.0	NM_013760	27362.0	Mm.27432	NM_013760	ENSMUSG00000014905	Dnajb9	AA408011|AA673251|AA673481|AW556981|ERdj4|Mdg1|mDj7	DnaJ heat shock protein family (Hsp40) member B9	protein-coding	20.5	36.5	22.0	221.0	64.0	19.5	14.5	21.5
Merged-chr6-50261765-4	chr6	50261700	50261900	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018769)	promoter-TSS (NM_018769)	-31.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	40.5	28.5	37.5	735.5	52.0	28.0	43.5	27.0
Merged-chr9-7556464-4	chr9	7556365	7556565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1964.0	NM_008611	17394.0	Mm.16415	NM_008611	ENSMUSG00000005800	Mmp8	BB138268	matrix metallopeptidase 8	protein-coding	43.5	31.5	53.5	650.0	96.0	20.5	39.0	28.0
Merged-chr8-124949551-4	chr8	124949486	124949686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053207)	promoter-TSS (NM_053207)	-332.0	NM_053207	112405.0	Mm.140619	NM_053207	ENSMUSG00000031987	Egln1	AI503754|C1orf12|HIF-PH2|HPH-2|Hif-p4h-2|ORF13|Phd2|SM-20	egl-9 family hypoxia-inducible factor 1	protein-coding	24.5	24.0	20.0	208.0	61.0	23.0	30.5	16.5
Merged-chr12-26438978-3	chr12	26438814	26439014	+	974.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	17538.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	36.0	64.0	34.5	578.0	2.5	3.0	2.0	0.0
Merged-chr2-90528302-4	chr2	90528194	90528394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-49120.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	60.0	138.5	76.0	550.0	211.5	77.5	80.5	59.5
Merged-chr5-140116186-4	chr5	140116078	140116278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359025, intron 14 of 17)	intron (NM_001359025, intron 14 of 17)	58740.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	110.5	149.5	124.0	1671.0	215.5	88.5	106.5	79.0
Merged-chr2-94144852-4	chr2	94144758	94144958	+	928.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019657, intron 1 of 10)	intron (NM_019657, intron 1 of 10)	13051.0	NM_019657	56348.0	Mm.22505	NM_019657	ENSMUSG00000027195	Hsd17b12	2610510O05Rik|AI172963|KIK-I|Kik1	hydroxysteroid (17-beta) dehydrogenase 12	protein-coding	21.5	20.0	16.0	185.5	28.5	9.5	10.5	16.0
Merged-chr11-86634591-4	chr11	86634471	86634671	+	888.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 7 of 11)	intron (NM_001356531, intron 7 of 11)	36704.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	18.0	9.5	18.5	234.5	47.0	12.0	10.5	15.5
Merged-chr10-84338943-4	chr10	84338835	84339035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101536.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	132.5	192.0	149.5	2874.5	276.5	88.5	141.5	97.5
Merged-chr5-140749229-3	chr5	140749123	140749323	+	961.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_173405, exon 7 of 8)	exon (NM_173405, exon 7 of 8)	25096.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	14.5	20.0	10.5	177.0	12.0	11.5	9.0	6.0
Merged-chr3-135826255-5	chr3	135826169	135826369	+	974.679993	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001135150, exon 2 of 9)	5' UTR (NM_001135150, exon 2 of 9)	479.0	NM_001135150	67547.0	Mm.30239	NM_026228	ENSMUSG00000053897	Slc39a8	4933419D20Rik|AA986696|BIGM103|ZIP-8|Zip8	solute carrier family 39 (metal ion transporter), member 8	protein-coding	13.0	14.5	19.0	326.5	32.5	13.5	18.5	10.5
Merged-chr15-89131564-4	chr15	89131458	89131658	+	817.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013871, intron 11 of 11)	intron (NM_013871, intron 11 of 11)	-2858.0	NR_028449	170787.0	Mm.203954	NM_199198	ENSMUSG00000062906	Hdac10	AW548891|Hd10	histone deacetylase 10	protein-coding	17.0	23.5	8.0	236.0	30.5	6.0	6.5	10.0
Merged-chr15-58076302-1	chr15	58076202	58076402	+	1000.0	f0_c57.idr	5' UTR (NM_001042438, exon 1 of 5)	5' UTR (NM_001042438, exon 1 of 5)	206.0	NM_001042438	22770.0	Mm.244931	NM_009572	ENSMUSG00000022361	Zhx1	-	zinc fingers and homeoboxes 1	protein-coding	98.0	165.0	122.0	1027.0	223.5	127.0	99.0	122.0
Merged-chr4-102955705-3	chr4	102955601	102955801	+	909.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285859, intron 17 of 23)	intron (NM_001285859, intron 17 of 23)	-30678.0	NM_001163767	67344.0	Mm.111346	NM_026100	ENSMUSG00000028523	Tctex1d1	1700055O19Rik	Tctex1 domain containing 1	protein-coding	12.0	15.0	13.0	145.5	6.0	2.0	1.5	8.5
Merged-chr5-135545475-4	chr5	135545356	135545556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146001)	promoter-TSS (NM_146001)	-334.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	350.0	544.5	416.5	4814.5	666.5	353.5	370.5	347.5
Merged-chr13-62620944-3	chr13	62620855	62621055	+	735.9111330000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173381, intron 1 of 2)	intron (NM_173381, intron 1 of 2)	3227.0	NM_001324406	211378.0	Mm.247448	NM_173381	ENSMUSG00000072066	6720489N17Rik	9330128I06	RIKEN cDNA 6720489N17 gene	protein-coding	0.5	4.0	2.5	44.0	51.5	11.5	16.0	11.5
Merged-chr3-100998247-6	chr3	100998104	100998304	+	949.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 8 of 8)	(GA)n|Simple_repeat|Simple_repeat	-28541.0	NM_001013026	74044.0	Mm.270961	NM_001013026	ENSMUSG00000033222	Ttf2	4632434F22Rik|8030447N19|AV218430	transcription termination factor, RNA polymerase II	protein-coding	16.0	18.0	20.0	201.5	28.0	14.0	7.5	7.5
Merged-chr3-27317732-3	chr3	27317648	27317848	+	862.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009425, intron 1 of 4)	GA-rich|Low_complexity|Low_complexity	671.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	6.5	3.5	5.5	74.0	22.5	6.5	5.5	7.5
Merged-chr16-97536004-4	chr16	97535919	97536119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003508)	promoter-TSS (NR_003508)	-62.0	NR_003508	17858.0	Mm.14157	NM_013606	ENSMUSG00000023341	Mx2	AI528743|Mx-2	MX dynamin-like GTPase 2	protein-coding	64.5	107.5	51.5	1101.5	147.0	64.5	77.5	81.0
Merged-chr9-105198901-2	chr9	105198789	105198989	+	938.625	f0_balb.idr|f1_balb.idr	intron (NM_172461, intron 15 of 15)	intron (NM_172461, intron 15 of 15)	-53807.0	NM_028562	73532.0	Mm.23516	NM_028562	ENSMUSG00000032566	1700080E11Rik	AI429110|Tseg8	RIKEN cDNA 1700080E11 gene	protein-coding	16.0	15.0	11.0	170.0	9.5	2.5	2.5	0.0
Merged-chr6-50115955-2	chr6	50115851	50116051	+	590.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 1 of 13)	intron (NM_001361248, intron 1 of 13)	5091.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	11.5	4.5	12.5	20.5	16.5	6.0	6.0	2.0
Merged-chr10-79877336-4	chr10	79877222	79877422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	-2345.0	NM_011178	19152.0	Mm.2364	NM_011178	ENSMUSG00000057729	Prtn3	PR3|mPR3	proteinase 3	protein-coding	28.0	30.5	33.5	379.5	65.5	28.0	25.5	28.0
Merged-chr2-3336062-4	chr2	3335933	3336133	+	926.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030063)	promoter-TSS (NM_030063)	-135.0	NM_030063	78245.0	Mm.99733	NM_030063	ENSMUSG00000026644	Acbd7	9230116B18Rik	acyl-Coenzyme A binding domain containing 7	protein-coding	14.0	23.0	14.5	147.5	22.5	4.0	10.5	16.0
Merged-chr17-86170598-4	chr17	86170540	86170740	+	661.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	2855.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	10.5	6.0	5.0	93.0	17.5	8.0	7.5	12.0
Merged-chr11-100619144-4	chr11	100619061	100619261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019795, intron 1 of 13)	CpG	1007.0	NM_019795	56354.0	Mm.402409	NM_019795	ENSMUSG00000014195	Dnajc7	2010003F24Rik|2010004G07Rik|CCRP|Ttc2|mDj11|mTpr2	DnaJ heat shock protein family (Hsp40) member C7	protein-coding	39.5	75.0	43.5	536.0	120.0	43.5	65.0	57.0
Merged-chr18-54998655-4	chr18	54998575	54998775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6084.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	34.0	39.5	23.0	562.0	74.0	36.5	40.5	36.5
Merged-chr10-21777350-4	chr10	21777245	21777445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	86500.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	96.0	133.0	131.0	1807.5	172.5	55.5	89.0	107.0
Merged-chr16-57166796-4	chr16	57166717	57166917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023175, intron 1 of 9)	intron (NM_023175, intron 1 of 9)	515.0	NM_023175	52633.0	Mm.383203	NM_023175	ENSMUSG00000022751	Nit2	1190017B19Rik|D16Ertd502e	nitrilase family, member 2	protein-coding	13.5	36.5	23.5	331.0	66.0	22.5	32.0	21.0
Merged-chr2-155473882-4	chr2	155473781	155473981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GC_rich|Low_complexity|Low_complexity	-33098.0	NM_019825	56406.0	Mm.27592	NM_019825	ENSMUSG00000038369	Ncoa6	AIB3|ASC-2|ASC2|NRC|Ncoa7|PRIP|RAP250|mKIAA0181	nuclear receptor coactivator 6	protein-coding	41.5	28.5	17.0	369.5	90.5	41.5	33.0	41.5
Merged-chr2-27366387-3	chr2	27366291	27366491	+	953.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 1 of 29)	intron (NR_133905, intron 1 of 29)	61217.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	9.0	5.0	26.5	415.0	13.5	5.0	14.5	6.0
Merged-chr6-83028739-4	chr6	83028636	83028836	+	825.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 9 of 9)	intron (NM_033079, intron 9 of 9)	4735.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	18.5	12.0	16.5	123.5	23.0	4.0	10.0	13.0
Merged-chr14-64834047-5	chr14	64833857	64834057	+	971.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 6 of 9)	intron (NM_177338, intron 6 of 9)	115900.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	5.0	10.5	13.5	94.5	10.5	10.5	6.5	11.0
Merged-chr5-113009788-4	chr5	113009750	113009950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	5688.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	22.5	37.0	28.5	59.0	31.0	21.0	11.0	1.0
Merged-chr11-116087583-4	chr11	116087472	116087672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347642)	promoter-TSS (NM_001347642)	-577.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	43.0	58.5	18.0	270.0	63.0	24.5	23.5	36.5
Merged-chr8-126571252-4	chr8	126571126	126571326	+	961.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22210.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	24.5	41.5	24.5	451.0	60.0	20.0	14.0	19.0
Merged-chr7-96546876-3	chr7	96546806	96547006	+	986.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310762, intron 4 of 32)	intron (NM_001310762, intron 4 of 32)	-204942.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	30.0	23.0	16.5	633.0	15.5	4.5	10.0	9.0
Merged-chr15-86272907-4	chr15	86272799	86272999	+	981.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 4 of 12)	L1M4c|LINE|L1	-4776.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	27.5	12.0	24.0	516.0	47.0	29.0	21.5	20.5
Merged-chr14-46883617-4	chr14	46883466	46883666	+	960.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 1 of 12)	CpG	601.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	11.5	19.0	20.0	144.0	40.0	8.0	20.5	12.0
Merged-chr6-125447438-4	chr6	125447328	125447528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47332.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	31.5	76.5	68.5	1136.5	98.0	20.5	59.0	38.0
Merged-chr1-180944798-4	chr1	180944719	180944919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 1 of 22)	intron (NM_144794, intron 1 of 22)	2301.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	53.0	84.5	39.0	561.0	50.5	33.5	31.0	23.5
Merged-chr1-37419621-4	chr1	37419531	37419731	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198006, exon 3 of 3)	3' UTR (NM_198006, exon 3 of 3)	10472.0	NM_198006	76178.0	Mm.28085	NM_198006	ENSMUSG00000026112	Coa5	1700001A24Rik|6330578E17Rik|Pet191	cytochrome C oxidase assembly factor 5	protein-coding	25.0	37.0	12.0	256.0	52.0	32.5	29.5	30.0
Merged-chr3-28263263-2	chr3	28263163	28263363	+	966.2000119999999	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163007)	promoter-TSS (NM_001163007)	49.0	NM_026910	665113.0	Mm.126193	NM_026910	ENSMUSG00000027692	Tnik	1500031A17Rik|4831440I19Rik|AI451411|C530008O15Rik|C630040K21Rik	TRAF2 and NCK interacting kinase	protein-coding	4.5	6.0	6.5	30.5	23.0	0.5	7.0	9.5
Merged-chr8-90870539-4	chr8	90870447	90870647	+	953.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	41712.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	15.5	48.0	29.5	475.0	50.5	10.0	24.0	15.0
Merged-chr15-96700261-4	chr15	96700137	96700337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175121)	promoter-TSS (NM_175121)	-509.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	23.5	36.5	24.0	309.5	37.0	27.5	16.0	26.5
Merged-chr1-106030547-4	chr1	106030453	106030653	+	929.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001122676, exon 13 of 14)	exon (NM_001122676, exon 13 of 14)	40147.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	16.0	21.0	27.5	516.0	21.5	7.5	26.0	12.5
Merged-chr6-148533147-1	chr6	148533047	148533247	+	545.0	f1_balb.idr	Intergenic	B4A|SINE|B4	81162.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	7.0	9.5	6.0	71.0	17.5	4.5	3.5	4.5
Merged-chr8-25056678-4	chr8	25056613	25056813	+	871.104126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 9 of 11)	intron (NM_031257, intron 9 of 11)	-17751.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	5.0	15.0	12.0	165.5	26.0	11.5	7.0	21.5
Merged-chr5-90772454-4	chr5	90772356	90772556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019932)	promoter-TSS (NM_019932)	21.0	NM_019932	56744.0	Mm.332490	NM_019932	ENSMUSG00000029373	Pf4	Cxcl4|Scyb4	platelet factor 4	protein-coding	70.5	82.0	69.5	1096.0	159.0	41.0	74.0	31.5
Merged-chr4-34495195-4	chr4	34495088	34495288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55427.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	58.5	105.5	56.5	1559.5	174.0	48.0	69.5	58.0
Merged-chr2-118295629-3	chr2	118295494	118295694	+	744.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201367, intron 1 of 2)	intron (NM_201367, intron 1 of 2)	-9320.0	NR_045919	73358.0	Mm.437192	NR_045919	ENSMUSG00000085889	1700054M17Rik	-	RIKEN cDNA 1700054M17 gene	ncRNA	1.0	0.0	3.0	27.0	15.5	7.0	15.0	13.0
Merged-chr2-28840439-4	chr2	28840375	28840575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166033)	promoter-TSS (NM_001166033)	69.0	NM_001033294	227674.0	Mm.44179	NM_001033294	ENSMUSG00000026806	Ddx31	5830444G11Rik|Gm997	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31	protein-coding	42.0	53.0	35.0	288.0	82.5	27.0	31.5	29.0
Merged-chr2-112501394-3	chr2	112501236	112501436	+	627.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028844, intron 1 of 5)	intron (NM_028844, intron 1 of 5)	8372.0	NM_028844	74268.0	Mm.315125	NM_028844	ENSMUSG00000003604	Aven	1700013A01Rik|1700056A21Rik|mAven-L|mAven-S	apoptosis, caspase activation inhibitor	protein-coding	6.0	11.5	6.5	100.5	10.5	3.0	10.0	5.5
Merged-chr3-157576137-3	chr3	157576035	157576235	+	943.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359745, intron 1 of 3)	intron (NM_001359745, intron 1 of 3)	9243.0	NM_011196	19218.0	Mm.30424	NM_011196	ENSMUSG00000040016	Ptger3	EP3|Pgerep3|Ptgerep3	prostaglandin E receptor 3 (subtype EP3)	protein-coding	2.0	7.0	18.5	151.0	14.5	6.0	8.5	17.5
Merged-chr10-77523305-4	chr10	77523212	77523412	+	935.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7036.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	19.5	23.5	16.0	295.5	33.5	10.0	13.0	8.0
Merged-chr3-87906788-4	chr3	87906689	87906889	+	986.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331052)	promoter-TSS (NM_001331052)	-61.0	NM_001331051	15191.0	Mm.292208	NM_008231	ENSMUSG00000004897	Hdgf	AI118077|D3Ertd299e	hepatoma-derived growth factor	protein-coding	15.0	35.0	22.5	255.0	39.0	24.5	15.5	29.5
Merged-chr7-99102703-4	chr7	99102622	99102822	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 3 of 14)	RMER17C|LTR|ERVK	38422.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	2.0	5.5	1.5	35.5	89.5	22.5	24.0	14.5
Merged-chr2-163987656-4	chr2	163987573	163987773	+	943.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCb|LINE|L1	-7524.0	NM_018753	54401.0	Mm.34319	NM_018753	ENSMUSG00000018326	Ywhab	1300003C17Rik|14-3-3b	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide	protein-coding	17.5	21.5	14.0	358.5	28.5	12.5	9.0	25.0
Merged-chr16-13819256-4	chr16	13819173	13819373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010946)	promoter-TSS (NM_010946)	22.0	NM_001346111	18203.0	Mm.380410	NM_010946	ENSMUSG00000022681	Ntan1	PNAA|PNAD	N-terminal Asn amidase	protein-coding	257.0	330.0	210.0	3638.5	586.0	250.0	321.5	241.0
Merged-chr11-54648768-4	chr11	54648672	54648872	+	907.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 16 of 28)	intron (NM_001252494, intron 16 of 28)	52626.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	20.5	17.0	9.0	263.5	39.0	19.5	11.0	16.0
Merged-chr1-183669864-4	chr1	183669776	183669976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79101.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	46.5	42.5	22.0	856.0	127.5	43.0	56.5	59.5
Merged-chr13-50418887-4	chr13	50418768	50418968	+	870.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154272, intron 1 of 10)	RLTR30B_MM|LTR|ERV1	1004.0	NR_154273	109082.0	Mm.18638	NM_175401	ENSMUSG00000037816	Fbxw17	1110064L07Rik|C85886	F-box and WD-40 domain protein 17	protein-coding	13.5	15.5	6.5	147.5	23.0	4.0	9.5	8.0
Merged-chr10-14115176-4	chr10	14115067	14115267	+	936.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 4 of 12)	Lx9|LINE|L1	148788.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	8.0	17.0	16.0	200.5	31.0	9.0	23.5	6.0
Merged-chr6-146209192-4	chr6	146209080	146209280	+	907.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 45 of 56)	intron (NM_019923, intron 45 of 56)	275058.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	8.0	22.0	21.0	390.0	21.0	4.0	15.0	15.0
Merged-chr8-115600020-4	chr8	115599912	115600112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106882.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	46.5	40.0	63.5	1056.0	68.0	36.0	64.0	39.5
Merged-chr6-71208875-4	chr6	71208791	71208991	+	981.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9012.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	21.5	28.5	10.0	226.0	43.0	8.0	17.0	10.0
Merged-chr6-122339765-7	chr6	122339700	122339900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073364)	promoter-TSS (NR_073364)	-143.0	NR_073364	13619.0	Mm.6822	NM_007905	ENSMUSG00000040669	Phc1	AW557034|Edr|Edr1|Mph1|Rae-28|rae28	polyhomeotic 1	protein-coding	22.5	40.0	21.5	229.0	83.5	26.5	31.0	41.0
Merged-chr6-53721814-3	chr6	53721719	53721919	+	623.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99006.0	NM_025817	66873.0	Mm.422727	NM_025817	ENSMUSG00000043496	Tril	1200009O22Rik|AI316813|mKIAA0644	TLR4 interactor with leucine-rich repeats	protein-coding	2.0	10.0	6.0	79.5	15.0	5.5	6.0	6.5
Merged-chr7-100932884-4	chr7	100932759	100932959	+	907.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081116)	promoter-TSS (NM_001081116)	-698.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	17.0	35.0	11.0	244.0	40.5	13.5	13.0	10.5
Merged-chr10-98754470-3	chr10	98754370	98754570	+	809.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-160172.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	13.0	18.5	13.0	161.5	19.5	2.5	5.5	4.0
Merged-chr4-130919425-4	chr4	130919313	130919513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	6079.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	72.0	132.0	74.5	734.0	169.5	53.0	65.5	48.0
Merged-chr6-50379390-4	chr6	50379292	50379492	+	954.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	intron (NM_001163645, intron 2 of 21)	3445.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	8.5	24.5	19.0	110.5	47.5	13.5	27.0	22.0
Merged-chr19-43993570-4	chr19	43993460	43993660	+	794.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7040.0	NM_030703	93721.0	Mm.206774	NM_030703	ENSMUSG00000025196	Cpn1	0610011F20Rik|CPN	carboxypeptidase N, polypeptide 1	protein-coding	5.0	9.0	5.5	75.0	11.5	6.0	15.0	13.5
Merged-chr5-99309171-3	chr5	99309100	99309300	+	909.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-56273.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	16.5	28.0	16.5	163.0	12.5	3.0	3.5	4.5
Merged-chr13-12462012-1	chr13	12461912	12462112	+	865.3333130000001	f0_balb.idr	promoter-TSS (NM_018886)	promoter-TSS (NM_018886)	-274.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	20.5	17.5	12.0	400.0	27.5	6.0	13.0	12.0
Merged-chr2-181219955-6	chr2	181219773	181219973	+	874.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199312)	promoter-TSS (NM_199312)	-143.0	NM_199312	332713.0	Mm.23349	NM_199312	ENSMUSG00000047841	Fndc11	1700026M20Rik	fibronectin type III domain containing 11	protein-coding	5.0	10.5	6.5	91.0	12.0	4.0	1.0	5.0
Merged-chr7-44851096-4	chr7	44850981	44851181	+	809.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253920, intron 1 of 4)	intron (NM_001253920, intron 1 of 4)	1074.0	NM_001253920	67605.0	Mm.148007	NM_026270	ENSMUSG00000011096	Akt1s1	1110012J22Rik|AI227026|Lobe|Lobel|PRAS40	AKT1 substrate 1 (proline-rich)	protein-coding	18.0	10.5	6.5	89.0	17.0	11.5	9.5	8.0
Merged-chr6-66896799-1	chr6	66896699	66896899	+	1000.0	f0_balb.idr	promoter-TSS (NM_001177558)	promoter-TSS (NM_001177558)	-92.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	30.5	32.0	31.0	394.0	39.0	15.5	22.0	24.5
Merged-chr9-119895447-4	chr9	119895332	119895532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026236, intron 1 of 18)	CpG	537.0	NM_026236	67561.0	Mm.104789	NM_026236	ENSMUSG00000032512	Wdr48	8430408H12Rik|Uaf1|mKIAA1449	WD repeat domain 48	protein-coding	9.0	53.0	18.0	284.5	111.0	33.0	25.5	18.0
Merged-chr12-76533653-5	chr12	76533629	76533829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_039597)	promoter-TSS (NR_039597)	169.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	30.0	40.0	36.0	245.0	67.0	28.5	21.0	20.0
Merged-chr17-8842081-3	chr17	8841971	8842171	+	831.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	-7914.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	8.0	6.5	12.0	151.0	20.5	2.0	5.0	12.0
Merged-chr6-86526661-4	chr6	86526567	86526767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011865)	promoter-TSS (NM_011865)	-478.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	54.0	111.0	65.0	874.5	164.0	80.0	72.0	79.5
Merged-chr10-3741117-6	chr10	3741021	3741221	+	707.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159942, intron 1 of 16)	intron (NM_001159942, intron 1 of 16)	744.0	NM_001159942	213783.0	Mm.150831	NM_001033253	ENSMUSG00000040624	Plekhg1	D10Ertd733e|Gm521|mKIAA1209	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	protein-coding	7.5	6.0	1.0	79.0	14.0	6.5	7.0	8.5
Merged-chr14-69805486-5	chr14	69805404	69805604	+	971.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153514)	promoter-TSS (NM_153514)	41.0	NM_153514	246710.0	Mm.102367	NM_153514	ENSMUSG00000022075	Rhobtb2	Dbc2|E130206H14Rik|mKIAA0717	Rho-related BTB domain containing 2	protein-coding	27.0	48.5	31.5	482.0	97.5	35.5	30.5	25.0
Merged-chr8-91070730-4	chr8	91070615	91070815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011250, intron 1 of 21)	intron (NM_011250, intron 1 of 21)	658.0	NM_001282000	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	75.0	80.0	38.5	859.5	141.0	36.0	64.0	50.5
Merged-chr7-109519073-4	chr7	109518959	109519159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011975)	promoter-TSS (NM_011975)	-136.0	NM_011975	26451.0	Mm.305750	NM_011975	ENSMUSG00000046364	Rpl27a	L27'|L27A|L29	ribosomal protein L27A	protein-coding	265.0	386.0	240.5	3246.0	606.0	260.5	273.5	228.5
Merged-chr11-116633133-3	chr11	116633007	116633207	+	839.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6088.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	6.5	15.5	16.0	175.0	3.0	0.5	0.0	1.0
Merged-chr5-35743444-3	chr5	35743347	35743547	+	945.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3460.0	NM_001359895	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	6.0	3.0	0.5	45.5	54.5	11.0	23.5	14.5
Merged-chr10-12922695-4	chr10	12922606	12922806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_038027, exon 1 of 4)	non-coding (NR_038027, exon 1 of 4)	421.0	NR_038027	320273.0	Mm.417706	NR_038027	ENSMUSG00000097378	B230208H11Rik	-	RIKEN cDNA B230208H11 gene	ncRNA	60.0	100.5	70.0	1202.0	198.5	55.5	50.5	62.5
Merged-chr1-161897385-4	chr1	161897289	161897489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20707.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	76.5	78.5	87.5	946.5	99.5	31.5	47.0	52.0
Merged-chr4-129619107-4	chr4	129619012	129619212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198026)	promoter-TSS (NM_198026)	-19.0	NM_198026	230767.0	Mm.441132	NM_198026	ENSMUSG00000040795	Iqcc	BC026978	IQ motif containing C	protein-coding	47.5	63.5	27.5	491.0	84.5	36.5	42.5	41.0
Merged-chr7-45525482-4	chr7	45525434	45525634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148927)	promoter-TSS (NM_148927)	734.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	39.0	121.5	40.5	660.0	217.0	93.5	95.5	79.0
Merged-chr13-9873625-4	chr13	9873530	9873730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108309.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	182.0	282.0	266.0	3943.0	552.0	201.0	318.5	228.0
Merged-chr7-128238245-8	chr7	128238140	128238340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177001)	promoter-TSS (NM_177001)	-209.0	NM_177001	100043133.0	Mm.183647	NM_177001	ENSMUSG00000062944	9130023H24Rik	GLI4	RIKEN cDNA 9130023H24 gene	protein-coding	104.5	169.0	141.5	1146.5	179.5	138.0	64.0	90.0
Merged-chr2-180070589-4	chr2	180070429	180070629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083328)	promoter-TSS (NM_001083328)	-64.0	NM_001083328	52856.0	Mm.219658	NM_028422	ENSMUSG00000039069	Mtg2	1810011P19Rik|2900056P18Rik|D2Bwg0647e|Gtpbp5	mitochondrial ribosome associated GTPase 2	protein-coding	75.0	96.5	63.0	1138.0	144.5	70.5	90.5	86.5
Merged-chr14-9635670-4	chr14	9635565	9635765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 8 of 9)	intron (NM_001360141, intron 8 of 9)	-248430.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	30.5	21.5	60.5	747.0	82.0	33.0	37.5	28.0
Merged-chr15-39784091-4	chr15	39784011	39784211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164466, intron 9 of 9)	intron (NM_001164466, intron 9 of 9)	-12934.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	128.5	249.5	171.5	1850.0	481.0	184.0	176.5	168.0
Merged-chr8-69901690-4	chr8	69901579	69901779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032004)	promoter-TSS (NM_032004)	-505.0	NM_032004	83984.0	Mm.432504	NM_032004	ENSMUSG00000047654	Tssk6	Sstk|TSK-6|TSSK-6	testis-specific serine kinase 6	protein-coding	103.5	177.5	91.0	1495.5	299.0	106.0	88.5	118.5
Merged-chr9-38741588-4	chr9	38741494	38741694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145957, intron 18 of 18)	intron (NM_001145957, intron 18 of 18)	-11202.0	NM_146787	258783.0	Mm.131149	NM_146787	ENSMUSG00000061039	Olfr920	MOR165-6	olfactory receptor 920	protein-coding	35.0	35.0	40.5	786.0	88.0	26.0	56.0	44.5
Merged-chr8-70212563-7	chr8	70212407	70212607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007570)	promoter-TSS (NM_001007570)	-226.0	NM_001007570	73095.0	Mm.185413	NM_001007570	ENSMUSG00000002346	Slc25a42	2900084M01Rik	solute carrier family 25, member 42	protein-coding	199.5	315.0	250.5	2828.0	416.5	215.0	213.5	209.5
Merged-chr14-118090121-3	chr14	118090019	118090219	+	927.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37873.0	NM_010024	13190.0	Mm.19987	NM_010024	ENSMUSG00000022129	Dct	DT|TRP-2|TRP2|Tyrp-2|Tyrp2|slaty|slt	dopachrome tautomerase	protein-coding	9.0	8.5	20.0	125.0	16.0	2.0	9.0	17.0
Merged-chr2-59161700-6	chr2	59161539	59161739	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001178)	promoter-TSS (NM_001001178)	789.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	20.0	21.0	45.0	325.0	41.0	10.5	27.0	21.0
Merged-chr11-75192938-4	chr11	75192791	75192991	+	924.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1102.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	9.5	16.5	11.5	110.0	35.5	12.5	10.0	17.5
Merged-chr10-121689774-3	chr10	121689665	121689865	+	904.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177335, intron 11 of 12)	intron (NM_177335, intron 11 of 12)	48064.0	NM_177335	216393.0	Mm.119759	NM_177335	ENSMUSG00000047642	D930020B18Rik	1500017I17Rik	RIKEN cDNA D930020B18 gene	protein-coding	11.5	21.0	12.0	148.5	20.0	6.0	10.0	12.0
Merged-chr8-25034760-4	chr8	25034661	25034861	+	852.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081187, intron 3 of 8)	B2_Mm2|SINE|B2	4201.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	13.0	20.0	7.5	112.0	32.0	11.5	15.5	5.0
Merged-chr2-160225643-4	chr2	160225544	160225744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101850.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	80.5	133.5	114.5	1997.0	206.5	88.5	79.5	67.5
Merged-chr12-3854704-3	chr12	3854593	3854793	+	819.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 3 of 22)	intron (NM_007872, intron 3 of 22)	7551.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	7.0	2.0	21.0	93.0	13.0	9.0	10.5	12.5
Merged-chr19-29448560-4	chr19	29448463	29448663	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 4 of 5)	RLTR14-int|LTR|ERV1	37644.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	25.0	26.5	30.5	494.0	76.5	13.0	33.0	24.0
Merged-chr18-53232599-4	chr18	53232528	53232728	+	886.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_I-int|LTR|ERV1	-13034.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	6.0	4.0	9.5	200.0	27.5	4.5	13.5	12.0
Merged-chr14-120172199-4	chr14	120172013	120172213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103556.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	8.0	19.5	21.0	255.0	33.5	14.0	19.0	14.5
Merged-chr2-5116455-4	chr2	5116365	5116565	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21311.0	NM_028804	74186.0	Mm.274715	NM_028804	ENSMUSG00000026676	Ccdc3	2310045O21Rik	coiled-coil domain containing 3	protein-coding	24.0	36.0	22.0	363.0	87.0	33.0	36.0	20.5
Merged-chr15-78450303-4	chr15	78450193	78450393	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355601, intron 10 of 17)	intron (NM_001355601, intron 10 of 17)	18341.0	NM_001355601	71753.0	Mm.34056	NM_027902	ENSMUSG00000016942	Tmprss6	1300008A22Rik	transmembrane serine protease 6	protein-coding	34.5	72.0	24.0	345.5	92.0	46.0	16.5	26.0
Merged-chr1-184735266-4	chr1	184735168	184735368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2775.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	24.0	26.5	23.0	379.5	69.0	26.0	41.5	18.5
Merged-chr10-17733222-4	chr10	17733132	17733332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10004.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	27.5	37.0	23.5	386.0	66.0	29.5	31.5	33.0
Merged-chr7-81850400-3	chr7	81850292	81850492	+	875.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8609.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	8.0	3.0	6.5	184.0	16.0	4.5	9.0	7.0
Merged-chr5-145280476-4	chr5	145280379	145280579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2864.0	NM_001081431	666311.0	Mm.260773	NM_001081431	ENSMUSG00000070420	Zscan25	EG666311|Zfp498	zinc finger and SCAN domain containing 25	protein-coding	38.5	73.5	41.0	635.5	136.5	46.5	84.0	32.5
Merged-chr12-55416289-4	chr12	55416170	55416370	+	966.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 6 of 6)	intron (NM_001310583, intron 6 of 6)	17445.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	52.0	49.5	73.0	787.0	94.0	29.0	39.0	15.5
Merged-chr13-9418805-4	chr13	9418698	9418898	+	928.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	142273.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	12.5	22.0	18.5	248.0	49.5	11.5	20.5	17.5
Merged-chr1-144000510-10	chr1	144000405	144000605	+	921.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009061, exon 5 of 5)	3' UTR (NM_009061, exon 5 of 5)	3644.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	4.5	22.0	12.0	187.5	33.0	19.5	13.5	18.0
Merged-chr11-103345004-6	chr11	103344828	103345028	+	915.297241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133715)	promoter-TSS (NM_133715)	175.0	NR_045346	653030.0	Mm.440684	NR_045346	ENSMUSG00000085887	Arhgap27os3	F830206d12rik|Gm11648	Rho GTPase activating protein 27, opposite strand 3	ncRNA	4.5	4.5	6.5	32.0	15.0	0.5	2.0	7.0
Merged-chr15-34541189-4	chr15	34541070	34541270	+	837.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45859.0	NM_152894	67724.0	Mm.248779	NM_026340	ENSMUSG00000022325	Pop1	4932434G09Rik	processing of precursor 1, ribonuclease P/MRP family, (S. cerevisiae)	protein-coding	34.5	3.0	4.0	169.5	26.5	11.0	9.0	5.0
Merged-chr6-38992141-4	chr6	38992053	38992253	+	857.6375119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 4 of 12)	L1ME3|LINE|L1	73167.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	16.5	15.5	10.0	142.0	29.0	14.5	9.5	15.0
Merged-chr6-15739324-4	chr6	15739243	15739443	+	862.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	ORR1E|LTR|ERVL-MaLR	18682.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	12.0	14.5	10.0	224.0	24.5	14.5	17.0	9.0
Merged-chr13-13954475-4	chr13	13954371	13954571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362404)	promoter-TSS (NM_001362404)	-203.0	NM_001362404	97884.0	Mm.21686	NM_178640	ENSMUSG00000039242	B3galnt2	A930105D20Rik|C80633|D230016N13Rik	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2	protein-coding	405.5	606.0	493.0	8146.5	1110.0	437.0	543.5	449.5
Merged-chr13-34096212-4	chr13	34096112	34096312	+	901.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046184, intron 2 of 4)	intron (NR_046184, intron 2 of 4)	17060.0	NR_046184	432745.0	Mm.159104	NR_046184	ENSMUSG00000113591	4930447K03Rik	-	RIKEN cDNA 4930447K03 gene	ncRNA	12.0	8.0	10.5	254.5	36.5	9.0	11.5	17.5
Merged-chr8-11473244-4	chr8	11473161	11473361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-4668.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	25.5	38.5	36.5	546.5	57.5	12.5	36.0	29.0
Merged-chr10-24150313-4	chr10	24150252	24150452	+	855.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016797, intron 1 of 9)	intron (NM_016797, intron 1 of 9)	1035.0	NM_016797	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	8.5	17.5	10.5	57.0	23.0	10.5	11.5	8.0
Merged-chr1-134458331-4	chr1	134458232	134458432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311136, intron 1 of 11)	intron (NM_001311136, intron 1 of 11)	2801.0	NM_001311136	240756.0	Mm.87398	NM_153128	ENSMUSG00000026455	Klhl12	C3ip1	kelch-like 12	protein-coding	36.0	62.5	40.0	525.5	85.5	21.5	38.0	43.5
Merged-chr2-154256248-4	chr2	154256122	154256322	+	778.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1657.0	NM_175167	71425.0	Mm.389341	NM_175167	ENSMUSG00000067998	Bpifb9a	4833413D08Rik|AI413838	BPI fold containing family B, member 9A	protein-coding	8.5	8.5	14.5	160.0	24.0	7.5	17.0	11.0
Merged-chr8-27175225-4	chr8	27175134	27175334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080813)	promoter-TSS (NM_001080813)	-588.0	NM_001080813	75767.0	Mm.205335	NM_029423	ENSMUSG00000031488	Rab11fip1	2010200K21Rik|4833414G05Rik|Rcp	RAB11 family interacting protein 1 (class I)	protein-coding	107.0	199.0	123.5	2079.0	357.5	102.0	149.0	133.5
Merged-chr15-75835650-4	chr15	75835563	75835763	+	980.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172121, intron 3 of 11)	intron (NM_172121, intron 3 of 11)	6245.0	NM_172121	223642.0	Mm.209800	NM_172121	ENSMUSG00000075600	Zc3h3	BC049953|Kiaa0150|Smicl|Zc3hdc3	zinc finger CCCH type containing 3	protein-coding	28.5	37.5	12.0	345.5	76.5	30.5	36.0	32.5
Merged-chr6-85137555-5	chr6	85137458	85137658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011467, exon 1 of 3)	exon (NM_011467, exon 1 of 3)	206.0	NM_011467	20751.0	Mm.28393	NM_011467	ENSMUSG00000033735	Spr	AA409688|Gm10328	sepiapterin reductase	protein-coding	25.5	28.5	26.5	207.5	42.0	26.0	26.5	51.5
Merged-chr10-44665807-6	chr10	44665744	44665944	+	999.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-207096.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	16.0	58.5	30.5	309.0	60.5	16.0	14.0	23.5
Merged-chr14-76690452-4	chr14	76690356	76690556	+	909.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12888.0	NR_015485	73272.0	Mm.116804	NR_015485	ENSMUSG00000101009	1700108F19Rik	1700020I02Rik|BB065030	RIKEN cDNA 1700108F19 gene	ncRNA	20.5	11.5	21.0	393.0	26.5	10.0	18.0	14.0
Merged-chr6-122660627-3	chr6	122660529	122660729	+	811.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34205.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	9.0	9.5	2.5	75.5	13.5	8.5	8.0	9.5
Merged-chr19-29641222-4	chr19	29641113	29641313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362131, intron 2 of 14)	intron (NM_001362131, intron 2 of 14)	7202.0	NM_001081213	226090.0	Mm.267131	NM_001081213	ENSMUSG00000046324	Ermp1	D19Ertd410e|D19Wsu12e|Fxna|b2b2633Clo|mKIAA1815	endoplasmic reticulum metallopeptidase 1	protein-coding	110.0	169.5	100.0	1425.5	183.0	96.5	85.5	61.5
Merged-chr17-34671685-4	chr17	34671556	34671756	+	831.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031176, exon 2 of 33)	exon (NM_031176, exon 2 of 33)	1121.0	NM_031176	81877.0	Mm.290527	NM_031176	ENSMUSG00000033327	Tnxb	Tn-mhc|Tnx	tenascin XB	protein-coding	0.0	15.5	4.5	99.5	11.0	7.5	6.0	12.5
Merged-chr17-5807322-3	chr17	5807234	5807434	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7844.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	8.5	11.5	7.0	195.5	8.0	3.0	11.5	9.0
Merged-chr2-166713965-4	chr2	166713881	166714081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177782)	promoter-TSS (NM_177782)	-149.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	148.5	330.0	164.5	1721.0	469.5	227.5	219.5	194.0
Merged-chr1-52630689-4	chr1	52630588	52630788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142647)	promoter-TSS (NM_001142647)	-17.0	NR_024590	227094.0	Mm.83541	NM_172654	ENSMUSG00000043015	Nemp2	5330401P04Rik|9830163O08|Tmem194b	nuclear envelope integral membrane protein 2	protein-coding	90.0	82.5	74.5	1425.5	221.5	75.0	116.0	77.0
Merged-chr14-74797669-3	chr14	74797612	74797812	+	862.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 13 of 19)	intron (NM_001033439, intron 13 of 19)	65415.0	NM_016903	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	8.5	7.5	14.0	178.0	8.0	2.0	7.0	7.5
Merged-chr4-6371511-4	chr4	6371507	6371707	+	905.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	URR1A|DNA|hAT-Charlie	5927.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	9.5	21.5	13.0	229.5	32.0	7.0	4.5	12.0
Merged-chr3-131271402-4	chr3	131271296	131271496	+	926.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008212, intron 1 of 7)	intron (NM_008212, intron 1 of 7)	705.0	NM_008212	15107.0	Mm.260164	NM_008212	ENSMUSG00000027984	Hadh	AA409008|AU019341|AW742602|HCDH|Hadhsc|Schad	hydroxyacyl-Coenzyme A dehydrogenase	protein-coding	11.5	25.0	18.0	121.5	44.5	8.5	19.5	18.5
Merged-chr2-137115519-3	chr2	137115438	137115638	+	970.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013822, exon 2 of 26)	exon (NM_013822, exon 2 of 26)	982.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	15.0	13.5	23.5	200.5	28.5	2.5	7.5	9.0
Merged-chr12-5375738-3	chr12	5375637	5375837	+	941.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015579)	promoter-TSS (NR_015579)	-55.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	4.5	5.5	7.0	100.5	29.0	7.5	13.0	20.0
Merged-chr7-29237720-4	chr7	29237616	29237816	+	904.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110201)	promoter-TSS (NM_001110201)	122.0	NM_001357668	77254.0	Mm.36699	NM_029887	ENSMUSG00000030588	Yif1b	9430029K10Rik|Yip1b	Yip1 interacting factor homolog B (S. cerevisiae)	protein-coding	20.0	13.0	11.0	92.0	73.0	22.5	24.0	24.5
Merged-chr9-37657264-4	chr9	37657173	37657373	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025289)	promoter-TSS (NM_025289)	39.0	NM_025289	21376.0	Mm.28689	NM_025289	ENSMUSG00000011114	Tbrg1	AA408552|AA409675|Niam|Tb-5|mFLJ00213	transforming growth factor beta regulated gene 1	protein-coding	25.5	29.5	27.0	460.0	41.0	34.5	24.0	31.0
Merged-chr10-75289607-3	chr10	75289507	75289707	+	835.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 13 of 15)	intron (NM_153406, intron 13 of 15)	-27270.0	NM_009630	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	4.5	15.5	6.0	90.0	30.5	4.0	5.0	2.5
Merged-chr13-5511968-4	chr13	5511887	5512087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	346105.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	52.5	54.5	37.0	768.5	89.5	45.5	53.0	29.0
Merged-chr11-118290304-4	chr11	118290208	118290408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033528)	promoter-TSS (NM_001033528)	-64.0	NM_001033528	72344.0	Mm.232293	NM_001033528	ENSMUSG00000033909	Usp36	2700002L06Rik|mKIAA1453	ubiquitin specific peptidase 36	protein-coding	344.0	516.5	294.0	3147.5	863.5	305.5	287.0	284.5
Merged-chr7-19094642-4	chr7	19094562	19094762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190491)	TTS (NM_001190491)	118.0	NM_011383	20475.0	Mm.3410	NM_011383	ENSMUSG00000040841	Six5	Dmahp|MDMAHP|TrexBF	sine oculis-related homeobox 5	protein-coding	42.5	104.5	29.0	351.0	180.0	58.0	48.5	32.0
Merged-chr7-48928608-4	chr7	48928536	48928736	+	909.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30437.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	9.0	16.0	21.0	129.0	20.5	16.5	15.5	8.5
Merged-chr11-35842147-4	chr11	35841979	35842179	+	908.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170779, intron 20 of 22)	intron (NM_170779, intron 20 of 22)	-7551.0	NM_025936	104458.0	Mm.284906	NM_025936	ENSMUSG00000018848	Rars	2610011N19Rik|2610037E21Rik|AL033339|AW985894	arginyl-tRNA synthetase	protein-coding	8.5	10.5	28.5	219.5	17.0	8.5	7.5	11.0
Merged-chr7-3290418-4	chr7	3290329	3290529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016969)	promoter-TSS (NM_016969)	-126.0	NM_016969	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	68.5	118.5	28.0	644.5	330.5	138.0	141.0	89.0
Merged-chr18-80294088-4	chr18	80293959	80294159	+	762.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001190373)	TTS (NM_001190373)	37753.0	NM_025861	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	12.5	14.5	5.0	84.5	13.0	2.5	8.0	11.0
Merged-chr2-113645903-4	chr2	113645807	113646007	+	949.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 13 of 16)	intron (NM_001285459, intron 13 of 16)	-39183.0	NM_001287818	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	32.5	21.0	17.5	385.0	72.0	40.5	13.0	15.0
Merged-chr2-91984738-4	chr2	91984682	91984882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011957, intron 10 of 11)	C-rich|Low_complexity|Low_complexity	-21219.0	NM_138306	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	75.5	93.0	93.5	1407.5	116.0	63.0	60.0	67.5
Merged-chr10-81167881-4	chr10	81167788	81167988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021501)	promoter-TSS (NM_021501)	-168.0	NM_021501	59004.0	Mm.34428	NM_021501	ENSMUSG00000004934	Pias4	PIASY|Pias-gamma|Piasg	protein inhibitor of activated STAT 4	protein-coding	190.5	380.0	197.0	2097.0	629.5	222.0	193.5	223.0
Merged-chr12-65172764-4	chr12	65172650	65172850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172578)	promoter-TSS (NM_172578)	-170.0	NM_172578	217653.0	Mm.21144	NM_172578	ENSMUSG00000047534	Mis18bp1	6720403H11|C79407|Knl2|mKIAA1903	MIS18 binding protein 1	protein-coding	185.0	293.5	236.5	2901.0	444.0	175.0	244.0	169.5
Merged-chr11-83593647-4	chr11	83593547	83593747	+	903.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009139)	promoter-TSS (NM_009139)	-560.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	13.5	22.5	11.5	318.5	47.0	23.0	11.0	10.5
Merged-chr15-77800707-4	chr15	77800604	77800804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	41471.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	158.5	218.0	138.0	2227.0	409.0	153.5	203.0	161.5
Merged-chr5-124477342-4	chr5	124477246	124477446	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 1 of 3)	B3|SINE|B2	889.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	7.5	34.5	20.5	219.0	48.0	19.5	30.0	29.5
Merged-chr3-37648634-3	chr3	37648523	37648723	+	715.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8676.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	4.5	11.0	7.0	97.5	8.0	3.5	7.5	1.0
Merged-chr16-58299694-3	chr16	58299595	58299795	+	713.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108840.0	NM_001356484	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	7.0	12.0	7.0	114.5	6.0	5.0	7.5	5.5
Merged-chr9-66888194-3	chr9	66888081	66888281	+	682.011108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	31524.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	10.0	9.5	13.5	132.5	15.0	8.5	7.5	13.0
Merged-chr13-23710630-4	chr13	23710542	23710742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010424, exon 1 of 6)	exon (NM_010424, exon 1 of 6)	212.0	NM_001347493	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	42.5	60.0	45.5	717.5	119.5	38.0	54.0	57.0
Merged-chr10-117715372-4	chr10	117715279	117715479	+	963.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D_MM|LTR|ERV1	-4621.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	58.5	124.0	43.5	146.5	170.5	85.5	46.5	39.0
Merged-chr6-134632327-3	chr6	134632208	134632408	+	705.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026345, exon 1 of 4)	5' UTR (NM_026345, exon 1 of 4)	180.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	4.5	9.0	6.5	136.0	6.0	6.0	5.0	13.5
Merged-chr16-93835343-3	chr16	93835244	93835444	+	870.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045529, intron 1 of 16)	intron (NM_001045529, intron 1 of 16)	3223.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	6.0	4.5	0.5	97.5	30.5	6.0	6.0	10.5
Merged-chr7-122520510-4	chr7	122520400	122520600	+	890.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 7 of 16)	intron (NM_001316672, intron 7 of 16)	-151244.0	NM_019430	54376.0	Mm.444212	NM_019430	ENSMUSG00000066189	Cacng3	-	calcium channel, voltage-dependent, gamma subunit 3	protein-coding	9.5	4.0	10.0	181.5	11.0	7.0	17.0	20.5
Merged-chr18-60211379-3	chr18	60211263	60211463	+	684.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033767)	promoter-TSS (NM_001033767)	-714.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	4.5	1.0	1.0	49.5	18.0	8.0	5.0	9.5
Merged-chr14-32173960-1	chr14	32173860	32174060	+	1000.0	f0_balb.idr	intron (NM_001033988, intron 6 of 9)	RSINE1|SINE|B4	8171.0	NM_019744	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	21.0	15.5	11.0	254.0	33.0	3.0	20.0	14.5
Merged-chr15-73620388-4	chr15	73620288	73620488	+	872.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033219, intron 1 of 7)	intron (NM_001033219, intron 1 of 7)	-3064.0	NM_001357747	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	23.5	12.0	9.0	164.5	42.0	7.5	16.0	18.0
Merged-chr6-115544638-4	chr6	115544506	115544706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199033)	promoter-TSS (NM_199033)	-98.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	106.5	141.0	84.5	886.5	198.0	75.0	62.5	61.0
Merged-chr14-57378307-3	chr14	57378209	57378409	+	761.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 2 of 7)	intron (NM_030004, intron 2 of 7)	20174.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	10.5	7.5	6.0	124.0	6.5	4.0	5.5	4.5
Merged-chr1-189973182-2	chr1	189973046	189973246	+	747.125	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-50855.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	9.0	10.0	15.0	182.0	9.0	5.0	4.0	5.5
Merged-chr10-60933950-1	chr10	60933850	60934050	+	634.0	f0_balb.idr	intron (NR_033616, intron 1 of 2)	intron (NR_033616, intron 1 of 2)	4182.0	NR_033616	73616.0	Mm.159038	NR_033616	ENSMUSG00000037247	Pldi	1700125F08Rik|Poldi	polymorphic derived intron containing	ncRNA	7.0	9.0	8.0	78.0	18.5	4.0	6.5	12.5
Merged-chr2-52785258-4	chr2	52785164	52785364	+	794.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43115.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	5.0	14.5	8.0	227.5	14.5	2.5	13.5	12.0
Merged-chr1-65054700-1	chr1	65054600	65054800	+	578.0	f0_c57.idr	Intergenic	RLTR45|LTR|ERVK	-3537.0	NM_007777	12968.0	Mm.258170	NM_007777	ENSMUSG00000070870	Cryge	Cryg-2|Cryg-6|DGcry-2|Elo	crystallin, gamma E	protein-coding	6.0	6.0	11.5	90.0	22.5	8.0	4.0	16.0
Merged-chr16-33836808-4	chr16	33836707	33836907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	intron (NM_001145884, intron 1 of 14)	7142.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	59.5	42.5	26.0	798.5	43.5	25.0	26.0	33.5
Merged-chr9-114592490-4	chr9	114592369	114592569	+	930.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153585, intron 18 of 19)	intron (NM_153585, intron 18 of 19)	-28100.0	NM_001042503	636931.0	Mm.17857	NM_001042503	ENSMUSG00000079259	Trim71	2610206G21Rik|AL022943|Gm1127|Lin41|lin-41|mLin41|mlin-41	tripartite motif-containing 71	protein-coding	12.0	11.0	11.5	178.0	27.5	20.0	19.5	26.0
Merged-chr16-24637980-4	chr16	24637866	24638066	+	895.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-83889.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	14.5	23.0	8.0	135.0	43.0	9.0	12.5	6.0
Merged-chr11-3387270-4	chr11	3387178	3387378	+	768.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010718, intron 2 of 15)	intron (NM_010718, intron 2 of 15)	-15874.0	NM_173053	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	9.5	13.0	5.0	87.0	24.0	8.0	15.0	11.0
Merged-chr11-53466742-4	chr11	53466596	53466796	+	951.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027917, intron 7 of 7)	CpG	9491.0	NM_027917	71774.0	Mm.274370	NM_027917	ENSMUSG00000018387	Shroom1	Apx|Shrm1	shroom family member 1	protein-coding	5.5	22.5	8.5	107.0	25.5	5.0	13.0	11.0
Merged-chr13-34199630-4	chr13	34199557	34199757	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 5 of 10)	intron (NM_001033167, intron 5 of 10)	36693.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	4.0	3.0	5.0	101.5	93.0	32.5	49.0	31.5
Merged-chr7-110432469-3	chr7	110432361	110432561	+	702.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 13 of 40)	intron (NM_177324, intron 13 of 40)	182459.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	4.0	12.5	4.0	94.5	30.5	6.0	7.0	6.5
Merged-chr3-51511077-4	chr3	51510966	51511166	+	977.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27100.0	NM_016858	19338.0	Mm.1664	NM_016858	ENSMUSG00000027739	Rab33b	-	RAB33B, member RAS oncogene family	protein-coding	22.5	18.5	14.5	209.5	55.5	13.0	22.0	11.0
Merged-chr18-60797165-3	chr18	60797068	60797268	+	934.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6681.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	1.5	0.0	1.0	0.0	76.5	9.5	20.5	33.0
Merged-chr17-72904018-4	chr17	72903914	72904114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14291.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	74.0	116.5	96.0	1699.0	239.0	59.5	94.0	74.5
Merged-chr6-22359199-4	chr6	22359097	22359297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-3116.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	65.5	91.5	68.0	1197.0	143.0	43.0	104.0	57.0
Merged-chr1-128642440-4	chr1	128642330	128642530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50131.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	50.5	98.5	56.5	1263.0	108.5	29.5	48.5	53.0
Merged-chr15-103333419-4	chr15	103333314	103333514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013866, intron 1 of 7)	intron (NM_013866, intron 1 of 7)	924.0	NM_001356627	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	42.0	33.5	33.5	626.5	77.5	24.0	29.5	30.0
Merged-chr5-9073405-2	chr5	9073305	9073505	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27332.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	2.0	3.5	4.0	57.0	19.0	10.5	10.5	10.0
Merged-chr14-122513202-2	chr14	122513102	122513302	+	590.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 1 of 24)	intron (NR_153443, intron 1 of 24)	-21126.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	4.5	7.0	9.5	35.0	20.0	0.0	8.0	9.0
Merged-chr19-37207562-4	chr19	37207440	37207640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290828)	promoter-TSS (NM_001290828)	-5.0	NM_027314	69104.0	Mm.175989	NM_027314	ENSMUSG00000023307	March5	1810015H18Rik|2310008I22Rik|2700055A20Rik|5730499H23Rik|E130202O05Rik|MARCH-V|MITOL|Marchv|Rnf153	membrane-associated ring finger (C3HC4) 5	protein-coding	54.0	102.5	68.0	833.5	162.5	66.5	83.5	61.0
Merged-chr4-139574475-4	chr4	139574374	139574574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205173)	promoter-TSS (NM_001205173)	-246.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	427.0	616.0	421.0	4828.0	959.0	367.5	531.5	389.5
Merged-chr8-18595568-4	chr8	18595461	18595661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173189, exon 1 of 14)	5' UTR (NM_173189, exon 1 of 14)	430.0	NM_173189	244329.0	Mm.235296	NM_173189	ENSMUSG00000039842	Mcph1	5430437K10Rik|BRIT1|D030046N04Rik|MCT|Tg(HLA-A2.1)1Enge	microcephaly, primary autosomal recessive 1	protein-coding	63.0	56.0	64.5	920.0	130.0	46.5	67.5	46.5
Merged-chr13-73847595-4	chr13	73847470	73847670	+	832.362488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028186)	promoter-TSS (NM_028186)	61.0	NM_028186	72293.0	Mm.45506	NM_028186	ENSMUSG00000021567	Nkd2	2210403L10Rik|AW212591|mNkd2	naked cuticle 2	protein-coding	3.5	12.0	13.0	140.5	16.0	8.5	7.5	7.0
Merged-chr8-85036047-4	chr8	85035934	85036134	+	955.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145390)	promoter-TSS (NM_145390)	-881.0	NM_145390	212999.0	Mm.220357	NM_145390	ENSMUSG00000031691	Tnpo2	1110034O24Rik|AA414969|AI464345|AI852433|IPO3|Knpb2b|Kpnb2b|TRN2	transportin 2 (importin 3, karyopherin beta 2b)	protein-coding	9.5	13.0	10.0	163.0	36.0	12.0	9.5	15.5
Merged-chr15-26362290-4	chr15	26362191	26362391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310774, intron 2 of 2)	intron (NM_001310774, intron 2 of 2)	53243.0	NM_001310774	211147.0	Mm.54257	NM_177597	ENSMUSG00000022269	March11	9630025C22	membrane-associated ring finger (C3HC4) 11	protein-coding	51.0	55.5	41.0	543.5	96.5	36.0	48.5	48.0
Merged-chr11-34071457-4	chr11	34071344	34071544	+	889.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 7 of 20)	intron (NM_010696, intron 7 of 20)	24516.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	20.0	17.0	6.0	213.5	25.0	8.5	3.0	9.5
Merged-chr1-36914060-3	chr1	36913960	36914160	+	686.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	intron (NM_018872, intron 1 of 40)	25467.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	6.0	12.5	6.0	89.0	9.5	4.5	5.0	4.0
Merged-chr14-48131779-4	chr14	48131663	48131863	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033602, intron 1 of 5)	intron (NM_033602, intron 1 of 5)	10894.0	NM_033602	93834.0	Mm.296457	NM_033602	ENSMUSG00000021846	Peli2	AW047589|BB129927	pellino 2	protein-coding	34.0	54.0	48.0	725.0	14.0	10.5	11.0	10.0
Merged-chr14-57417368-4	chr14	57417260	57417460	+	937.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B1|LTR|ERVL	-6711.0	NM_009376	21821.0	Mm.4653	NM_009376	ENSMUSG00000040040	Ift88	AW552028|Tg737|Tg737Rpw|TgN737Rpw|Ttc10|flexo|fxo|orpk|polaris	intraflagellar transport 88	protein-coding	15.0	17.0	11.0	243.5	41.0	8.0	18.5	12.5
Merged-chr5-24530243-4	chr5	24530132	24530332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3384.0	NM_015739	231044.0	Mm.246596	NM_015739	ENSMUSG00000067724	Gbx1	Gbx-1	gastrulation brain homeobox 1	protein-coding	37.0	78.5	24.0	475.5	105.5	66.0	63.0	58.0
Merged-chr3-152397156-4	chr3	152397119	152397319	+	976.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287139, intron 1 of 13)	intron (NM_001287139, intron 1 of 13)	535.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	11.0	24.5	16.0	287.5	31.0	5.5	21.5	19.0
Merged-chr19-32953529-4	chr19	32953430	32953630	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	195953.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	22.0	19.5	6.5	312.5	52.5	14.0	15.0	22.0
Merged-chr7-19845294-4	chr7	19845206	19845406	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6697.0	NM_001270489	100502736.0	Mm.445354	NM_001270489	ENSMUSG00000092216	Gm19345	-	predicted gene, 19345	protein-coding	33.0	45.0	20.0	382.5	60.5	14.5	17.5	25.0
Merged-chr3-108112363-1	chr3	108112263	108112463	+	678.0	f0_balb.idr	intron (NM_010306, intron 6 of 8)	intron (NM_010306, intron 6 of 8)	19297.0	NM_008141	14686.0	Mm.439652	NM_008141	ENSMUSG00000009108	Gnat2	AW490837|Gnat-2|Gt-2|Tcalpha	guanine nucleotide binding protein, alpha transducing 2	protein-coding	8.0	6.5	9.5	137.0	8.0	4.5	0.5	1.5
Merged-chr10-67503736-2	chr10	67503636	67503836	+	639.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34133.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	5.5	4.0	6.0	156.0	15.5	5.0	6.5	8.0
Merged-chr1-79858545-4	chr1	79858431	79858631	+	826.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009255, exon 1 of 9)	5' UTR (NM_009255, exon 1 of 9)	134.0	NM_009255	20720.0	Mm.3093	NM_009255	ENSMUSG00000026249	Serpine2	B230326M24Rik|PAI-1|PI-7|PI7|PN-1|Spi4	serine (or cysteine) peptidase inhibitor, clade E, member 2	protein-coding	9.5	10.0	11.5	139.0	17.5	3.5	8.5	11.0
Merged-chr1-162589687-4	chr1	162589602	162589802	+	912.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356527, intron 6 of 7)	intron (NM_001356527, intron 6 of 7)	18874.0	NM_016796	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	21.0	20.0	10.0	565.5	30.5	7.5	20.5	24.5
Merged-chr12-40545748-2	chr12	40545648	40545848	+	903.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	99695.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	3.5	8.5	3.5	58.0	18.5	12.5	7.5	8.0
Merged-chr4-21727739-4	chr4	21727689	21727889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290420)	promoter-TSS (NM_001290420)	88.0	NM_001290420	51813.0	Mm.278584	NM_016746	ENSMUSG00000028252	Ccnc	AI451004|AU020987|CG1C	cyclin C	protein-coding	63.5	87.5	87.5	1240.5	139.0	47.0	72.0	77.0
Merged-chr1-134420332-4	chr1	134420273	134420473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001306069, intron 1 of 7)	intron (NM_001306069, intron 1 of 7)	4709.0	NM_001306069	72674.0	Mm.259976	NM_028320	ENSMUSG00000026457	Adipor1	2810031L11Rik|ACDCR1|CGI-45|Paqr1	adiponectin receptor 1	protein-coding	134.5	149.5	97.5	1246.0	257.5	99.5	126.0	122.0
Merged-chr17-71263323-4	chr17	71263262	71263462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	47649.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	77.5	79.0	95.5	1530.0	82.5	33.5	27.0	41.0
Merged-chr14-52197324-4	chr14	52197216	52197416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033618)	promoter-TSS (NM_033618)	-77.0	NM_033618	114741.0	Mm.21662	NM_033618	ENSMUSG00000035726	Supt16	Cdc68|Fact140|Spt16|Supt16h	suppressor of Ty 16	protein-coding	57.0	86.0	71.0	679.5	152.5	57.5	61.5	70.5
Merged-chr19-55581049-4	chr19	55580935	55581135	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	121169.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	11.0	13.5	26.5	274.0	16.5	7.5	12.5	19.0
Merged-chr7-30373715-4	chr7	30373620	30373820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10948.0	NM_175478	233067.0	Mm.23157	NM_175478	ENSMUSG00000036957	Lrfn3	A530045B06Rik|SALM4	leucine rich repeat and fibronectin type III domain containing 3	protein-coding	79.5	128.5	61.0	1210.0	228.0	62.5	87.5	60.0
Merged-chr12-4189843-4	chr12	4189734	4189934	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 3 of 21)	intron (NM_001159537, intron 3 of 21)	44131.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	36.0	33.5	29.0	403.0	43.0	17.0	13.0	22.0
Merged-chr7-78913140-3	chr7	78913015	78913215	+	961.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291220)	promoter-TSS (NM_001291220)	-309.0	NM_001291221	57444.0	Mm.322843	NM_020583	ENSMUSG00000039236	Isg20	1600023I01Rik|2010107M23Rik|20kDa|DnaQL|HEM45	interferon-stimulated protein	protein-coding	5.5	10.5	6.0	137.0	12.5	16.5	9.5	10.0
Merged-chr7-75739270-4	chr7	75739157	75739357	+	803.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 29 of 36)	intron (NM_029332, intron 29 of 36)	-109081.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	12.5	17.0	9.0	155.0	22.0	6.0	10.0	23.5
Merged-chr1-134076335-4	chr1	134076238	134076438	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007570, exon 2 of 2)	3' UTR (NM_007570, exon 2 of 2)	2817.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	14.5	10.0	19.5	185.5	18.0	6.5	23.0	18.0
Merged-chr1-153752714-4	chr1	153752621	153752821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011882, intron 2 of 8)	intron (NM_011882, intron 2 of 8)	3295.0	NM_011882	24014.0	Mm.259254	NM_011882	ENSMUSG00000066800	Rnasel	E230029I04Rik	ribonuclease L (2', 5'-oligoisoadenylate synthetase-dependent)	protein-coding	38.5	31.5	43.5	730.5	86.5	29.0	41.0	53.5
Merged-chr6-13599937-3	chr6	13599849	13600049	+	723.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155435, intron 1 of 3)	intron (NR_155435, intron 1 of 3)	8149.0	NR_155435	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	1.0	12.0	6.5	87.5	25.5	8.5	7.5	6.0
Merged-chr7-73528581-4	chr7	73528482	73528682	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	13164.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	5.5	17.0	6.5	117.0	16.0	6.0	10.5	13.0
Merged-chr10-75492108-4	chr10	75492039	75492239	+	944.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	25242.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	23.0	10.0	34.5	283.0	33.5	5.0	11.0	13.5
Merged-chr5-113015303-6	chr5	113015279	113015479	+	905.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177078, exon 1 of 21)	exon (NM_177078, exon 1 of 21)	159.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	4.5	16.0	6.0	68.0	31.5	9.0	11.0	4.5
Merged-chr4-33250260-3	chr4	33250045	33250245	+	800.6592410000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1358.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	6.5	8.5	5.5	45.0	16.5	4.0	4.5	2.5
Merged-chr2-126876269-4	chr2	126876153	126876353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021450)	promoter-TSS (NM_021450)	8.0	NM_001164325	58800.0	Mm.244705	NM_021450	ENSMUSG00000027365	Trpm7	2310022G15Rik|4833414K03Rik|5033407O22Rik|CHAK|CHAK1|LTrpC-7|Ltpr7|Ltrpc7|TRPPLIK	transient receptor potential cation channel, subfamily M, member 7	protein-coding	105.5	195.0	86.5	1545.5	282.5	148.0	113.5	138.0
Merged-chr11-74897191-4	chr11	74897112	74897312	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177325)	promoter-TSS (NM_177325)	-132.0	NM_197943	97761.0	Mm.245894	NM_197943	ENSMUSG00000038351	Sgsm2	D630003G22Rik|R74628|Rutbc1|mKIAA0397	small G protein signaling modulator 2	protein-coding	27.5	29.5	23.5	238.0	65.5	14.5	25.0	25.0
Merged-chr1-89902382-4	chr1	89902293	89902493	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28783.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	37.0	43.5	26.5	956.0	42.5	15.5	17.0	6.0
Merged-chr15-25268586-4	chr15	25268480	25268680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	145184.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	96.0	105.0	53.5	1184.0	217.5	83.5	61.5	59.0
Merged-chr3-146800691-3	chr3	146800601	146800801	+	773.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011100, intron 1 of 9)	MTD|LTR|ERVL-MaLR	12245.0	NM_011100	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	5.0	5.5	8.0	77.0	6.5	1.5	8.5	15.5
Merged-chr13-111792629-3	chr13	111792532	111792732	+	708.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	16361.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	8.0	8.0	6.0	77.5	7.0	5.5	6.5	3.5
Merged-chr17-31077675-4	chr17	31077562	31077762	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	19968.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	49.5	95.0	70.5	1385.5	54.5	23.5	19.0	19.0
Merged-chr4-136117201-4	chr4	136117066	136117266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26656.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	92.0	192.5	68.0	1319.5	201.5	83.5	110.0	96.0
Merged-chr10-117335793-3	chr10	117335695	117335895	+	859.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	41178.0	NM_001013391	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	13.5	14.0	9.0	67.0	12.5	6.5	10.0	17.5
Merged-chr10-80822201-3	chr10	80822109	80822309	+	887.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4447.0	NM_001301034	18245.0	Mm.398119	NM_008753	ENSMUSG00000035242	Oaz1	AZ-1|AZ1|Antizyme|ODC-Az|Oaz	ornithine decarboxylase antizyme 1	protein-coding	14.5	17.0	4.0	106.5	15.0	17.0	11.5	4.5
Merged-chr10-62449253-2	chr10	62449153	62449353	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027926)	promoter-TSS (NR_027926)	93.0	NR_027926	74706.0	Mm.402550	NR_027926	ENSMUSG00000097129	4930507D05Rik	-	RIKEN cDNA 4930507D05 gene	ncRNA	6.0	6.0	9.0	75.0	17.5	9.5	3.5	7.5
Merged-chr3-130873963-4	chr3	130873887	130874087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143589.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	108.5	160.5	111.5	2231.0	317.0	103.5	151.5	135.0
Merged-chr1-9944113-4	chr1	9943965	9944165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024067)	promoter-TSS (NR_024067)	53.0	NR_024067	73824.0	Mm.28311	NR_024067	ENSMUSG00000098234	Snhg6	1110008H02Rik	small nucleolar RNA host gene 6	ncRNA	82.5	87.5	90.5	867.0	176.0	68.0	108.5	81.5
Merged-chr2-30096070-2	chr2	30095970	30096170	+	845.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2435.0	NM_001037762	66220.0	Mm.22538	NM_025428	ENSMUSG00000015335	Zdhhc12	1190004A01Rik	zinc finger, DHHC domain containing 12	protein-coding	4.5	7.0	5.0	59.5	12.0	9.0	10.0	6.0
Merged-chr9-108809929-4	chr9	108809833	108810033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030729, intron 1 of 12)	intron (NM_030729, intron 1 of 12)	1553.0	NM_030729	80987.0	Mm.192416	NM_030729	ENSMUSG00000032598	Nckipsd	AF3P21|DIP1|ORF1|SPIN90|WASLBP|WISH|Wasbp	NCK interacting protein with SH3 domain	protein-coding	38.5	58.5	19.0	580.5	99.0	30.0	44.0	49.5
Merged-chr14-33160487-2	chr14	33160387	33160587	+	867.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 2 of 58)	intron (NM_001146022, intron 2 of 58)	24579.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	1.5	11.0	2.5	64.0	12.5	8.5	10.5	10.0
Merged-chr5-105685963-4	chr5	105685815	105686015	+	933.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-14054.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	3.0	12.0	6.5	28.0	46.0	16.0	18.5	26.5
Merged-chr15-63704882-4	chr15	63704787	63704987	+	891.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103852.0	NM_031378	83492.0	Mm.335619	NM_031378	ENSMUSG00000079025	Gsdmc	Gsdmc1|Mlze	gasdermin C	protein-coding	12.5	18.5	22.0	399.5	26.0	4.0	3.5	11.5
Merged-chr6-134559753-3	chr6	134559685	134559885	+	974.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	7128.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	13.0	32.0	8.0	260.5	8.0	3.0	2.0	2.5
Merged-chr4-140983039-2	chr4	140982939	140983139	+	823.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-3834.0	NM_029097	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	4.0	4.5	5.5	23.5	13.5	7.5	4.5	7.5
Merged-chr17-70849161-6	chr17	70849098	70849298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164074, intron 1 of 2)	intron (NM_001164074, intron 1 of 2)	592.0	NM_001164076	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	60.5	175.5	96.0	717.5	286.5	108.0	141.0	95.0
Merged-chr7-19003320-4	chr7	19003210	19003410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178757)	promoter-TSS (NM_178757)	-755.0	NM_178757	272359.0	Mm.274237	NM_178757	ENSMUSG00000044030	Irf2bp1	6330414O09Rik|C530033F24	interferon regulatory factor 2 binding protein 1	protein-coding	48.5	52.5	35.0	498.5	164.5	34.5	59.0	78.0
Merged-chr13-92668436-4	chr13	92668316	92668516	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172588, intron 2 of 11)	intron (NM_172588, intron 2 of 11)	57278.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	28.5	26.5	19.0	370.5	34.0	4.5	16.5	15.0
Merged-chr11-4705140-2	chr11	4705040	4705240	+	792.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197979)	promoter-TSS (NM_197979)	484.0	NM_001356390	67178.0	Mm.271056	NM_026015	ENSMUSG00000009076	Zmat5	2610510L01Rik|D11Bwg0572e|D11Bwg1548e	zinc finger, matrin type 5	protein-coding	3.0	4.5	1.0	24.0	7.5	6.5	6.0	9.5
Merged-chr15-27874085-4	chr15	27873977	27874177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 10 of 56)	intron (NM_001081302, intron 10 of 56)	151771.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	46.0	64.5	73.5	1033.0	62.5	32.0	41.0	45.0
Merged-chr9-90226043-1	chr9	90225943	90226143	+	625.0	f0_c57.idr	exon (NM_194334, exon 6 of 13)	exon (NM_194334, exon 6 of 13)	44726.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	7.0	8.0	5.0	126.5	18.0	6.5	5.0	9.5
Merged-chr8-109706002-2	chr8	109705902	109706102	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029468)	promoter-TSS (NM_029468)	-17.0	NM_029468	75871.0	Mm.180410	NM_029468	ENSMUSG00000031728	Zfp821	4930566A11Rik|Znf821	zinc finger protein 821	protein-coding	18.0	10.5	31.5	85.0	27.0	18.5	13.5	19.0
Merged-chr1-63181211-4	chr1	63181111	63181311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_018796)	TTS (NM_018796)	2188.0	NR_028558	100217464.0	Mm.484706	NR_028558	ENSMUSG00000064602	Snora41	MBI-83	small nucleolar RNA, H/ACA box 41	snoRNA	101.0	128.5	64.0	1627.0	218.0	97.0	112.0	79.0
Merged-chr9-90263077-3	chr9	90262981	90263181	+	899.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	7688.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	12.5	8.0	2.5	93.5	35.0	14.0	16.5	11.0
Merged-chr1-97769371-6	chr1	97769285	97769485	+	986.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026250)	promoter-TSS (NM_026250)	707.0	NM_173760	227399.0	Mm.220817	NM_173760	ENSMUSG00000040648	Ppip5k2	AW555814|Cfap160|D330021B20|Hisppd1|Vip2|mKIAA0433	diphosphoinositol pentakisphosphate kinase 2	protein-coding	14.5	16.5	19.0	201.5	25.0	16.0	9.5	17.5
Merged-chr2-66125122-4	chr2	66125029	66125229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015736)	promoter-TSS (NM_015736)	-336.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	47.5	68.5	80.0	1035.5	94.0	41.5	35.0	59.5
Merged-chr9-21926943-4	chr9	21926834	21927034	+	994.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164614)	promoter-TSS (NM_001164614)	354.0	NM_001253869	235043.0	Mm.253329	NM_178577	ENSMUSG00000040883	Tmem205	-	transmembrane protein 205	protein-coding	25.0	50.0	24.0	530.0	62.5	17.5	22.5	15.5
Merged-chr3-90231610-4	chr3	90231504	90231704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_206924)	promoter-TSS (NM_206924)	7.0	NM_206924	23922.0	Mm.13912	NM_206924	ENSMUSG00000027937	Jtb	Gm622	jumping translocation breakpoint	protein-coding	94.5	119.0	61.0	966.5	167.5	90.5	76.0	98.0
Merged-chr4-3682109-2	chr4	3682009	3682209	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	intron (NM_001111096, intron 1 of 12)	3988.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	7.0	14.0	14.5	88.0	26.5	19.5	19.0	16.0
Merged-chr19-4019388-4	chr19	4019302	4019502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6647.0	NM_133666	17995.0	Mm.29842	NM_133666	ENSMUSG00000037916	Ndufv1	CI-51kD	NADH dehydrogenase (ubiquinone) flavoprotein 1	protein-coding	23.5	55.5	17.0	291.5	60.0	19.5	21.0	39.5
Merged-chr5-63886937-3	chr5	63886834	63887034	+	815.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 2 of 3)	intron (NM_029554, intron 2 of 3)	74439.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	5.5	5.0	8.0	67.5	19.0	4.0	2.5	4.5
Merged-chr2-27677776-3	chr2	27677658	27677858	+	867.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	CpG	557.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	7.5	16.5	17.0	74.0	12.5	11.0	7.0	9.5
Merged-chr17-50415843-4	chr17	50415744	50415944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-93703.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	64.5	90.0	41.5	810.5	129.5	62.0	52.5	45.0
Merged-chr10-117843820-4	chr10	117843733	117843933	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	2141.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	21.5	45.5	28.0	435.5	71.5	18.0	28.0	18.5
Merged-chr12-76324820-3	chr12	76324724	76324924	+	960.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101471)	promoter-TSS (NM_001101471)	-67.0	NM_001101471	238276.0	Mm.311452	NM_001101471	ENSMUSG00000021057	Akap5	3526401B18Rik|AKAP 150|AKAP-5|AKAP150|BB098886|Gm258|P150	A kinase (PRKA) anchor protein 5	protein-coding	9.0	6.0	19.0	214.0	7.5	7.0	4.5	8.5
Merged-chr15-58145859-3	chr15	58145783	58145983	+	904.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029734, intron 1 of 5)	PB1D9|SINE|Alu	4517.0	NM_001326599	76773.0	Mm.26771	NM_029734	ENSMUSG00000022359	Wdyhv1	2410187C16Rik|AU014961|AW550036|Ntaq1	WDYHV motif containing 1	protein-coding	0.0	2.0	0.5	6.5	40.5	16.0	19.5	27.5
Merged-chr3-106483492-4	chr3	106483393	106483593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033207, intron 1 of 1)	intron (NR_033207, intron 1 of 1)	1043.0	NM_001278941	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	28.5	59.0	30.5	499.5	69.5	27.5	25.0	27.5
Merged-chr2-5811676-4	chr2	5811624	5811824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133837, intron 6 of 12)	intron (NM_133837, intron 6 of 12)	-33310.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	27.5	15.5	25.0	384.0	36.0	15.0	23.0	24.5
Merged-chr16-91452748-4	chr16	91452657	91452857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12347.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	28.0	37.0	45.0	656.5	73.5	17.5	23.5	38.0
Merged-chr4-149170818-4	chr4	149170730	149170930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4125.0	NM_001081274	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	26.0	66.0	28.0	396.0	96.5	36.5	25.0	50.0
Merged-chr19-29430680-4	chr19	29430546	29430746	+	920.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 2 of 5)	intron (NM_021396, intron 2 of 5)	19727.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	17.5	16.0	14.5	186.5	24.5	7.5	6.5	11.5
Merged-chr18-31918739-6	chr18	31918593	31918793	+	968.4097289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6790.0	NM_026006	67158.0	Mm.31537	NM_026006	ENSMUSG00000044982	Sft2d3	2610206C24Rik|AI847965|AW046173	SFT2 domain containing 3	protein-coding	4.5	6.0	19.0	76.5	15.0	14.0	11.0	10.0
Merged-chr11-83648432-4	chr11	83648338	83648538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011337, intron 2 of 2)	intron (NM_011337, intron 2 of 2)	940.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	48.5	71.0	35.0	548.5	119.5	52.0	49.0	43.5
Merged-chr19-24477513-4	chr19	24477398	24477598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026520)	promoter-TSS (NM_026520)	-24.0	NM_026520	68034.0	Mm.440181	NM_026520	ENSMUSG00000074922	Fam122a	2410124L17Rik|2900009I07Rik|Gm9849	family with sequence similarity 122, member A	protein-coding	163.0	241.5	189.0	2297.0	446.5	189.5	176.0	151.0
Merged-chr19-57610710-5	chr19	57610518	57610718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181415)	promoter-TSS (NM_181415)	-416.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	46.5	86.5	47.5	643.0	98.5	48.5	48.0	62.0
Merged-chr18-80046854-4	chr18	80046765	80046965	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053117)	promoter-TSS (NM_053117)	-30.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	32.0	55.0	46.5	452.5	47.5	20.5	46.5	22.5
Merged-chr9-122351686-4	chr9	122351606	122351806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026179)	promoter-TSS (NM_026179)	90.0	NM_026179	67469.0	Mm.280254	NM_026179	ENSMUSG00000032540	Abhd5	1300003D03Rik|2010002J10Rik|CDS|CGI-58|IECN5|NCIE2	abhydrolase domain containing 5	protein-coding	194.5	301.5	158.5	1937.0	499.5	166.0	234.0	152.5
Merged-chr4-83234735-4	chr4	83234662	83234862	+	946.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 17 of 19)	intron (NM_027238, intron 17 of 19)	89427.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	11.5	4.0	9.5	222.5	26.5	8.0	5.0	11.0
Merged-chr2-167700954-4	chr2	167700832	167701032	+	973.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9755.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	20.0	16.5	62.0	1036.5	41.5	8.5	18.0	27.0
Merged-chr17-35777229-4	chr17	35777077	35777277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045459, exon 2 of 3)	non-coding (NR_045459, exon 2 of 3)	4727.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	77.5	120.0	125.5	1376.5	210.0	105.0	151.0	133.5
Merged-chr17-85395703-4	chr17	85395604	85395804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028576, intron 6 of 10)	intron (NM_028576, intron 6 of 10)	222692.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	97.0	216.0	129.0	2369.0	370.0	118.5	158.0	137.0
Merged-chr11-120350348-4	chr11	120350245	120350445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038126, intron 1 of 1)	CpG	1667.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	96.5	135.0	93.0	973.5	212.5	83.5	120.5	118.0
Merged-chr4-8667340-4	chr4	8667255	8667455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23051.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	81.5	153.0	123.5	1365.5	194.0	81.5	107.5	92.0
Merged-chr18-24654471-4	chr18	24654312	24654512	+	894.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026779, intron 1 of 14)	intron (NM_026779, intron 1 of 14)	721.0	NM_026779	68591.0	Mm.28252	NM_026779	ENSMUSG00000039616	Mocos	1110018O12Rik|HMCS|MCS|MOS	molybdenum cofactor sulfurase	protein-coding	1.5	8.0	18.5	70.0	23.5	4.5	14.5	11.5
Merged-chr13-56748042-1	chr13	56747942	56748142	+	611.0	f0_balb.idr	Intergenic	L2c|LINE|L2	44374.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	8.0	7.0	5.0	95.5	4.5	0.0	2.0	6.0
Merged-chr5-32197898-4	chr5	32197805	32198005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34803.0	NM_030072	665270.0	Mm.160067	NM_030072	ENSMUSG00000029134	Plb1	4632413E21Rik|4930433E17Rik|4930539A06Rik|BC033606	phospholipase B1	protein-coding	76.5	98.0	45.5	834.5	120.0	55.0	95.5	78.0
Merged-chr7-27332383-3	chr7	27332279	27332479	+	752.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175641, intron 4 of 32)	intron (NM_175641, intron 4 of 32)	1269.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	13.0	6.0	7.0	101.5	13.5	5.5	9.5	6.0
Merged-chr13-94162681-4	chr13	94162575	94162775	+	986.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	MTD|LTR|ERVL-MaLR	104879.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	28.0	23.0	46.5	595.5	49.0	14.0	21.0	15.0
Merged-chr7-127478896-4	chr7	127478791	127478991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6330.0	NM_010183	14123.0	Mm.323505	NM_010183	ENSMUSG00000042423	Fbrs	Fbs|Fbs1	fibrosin	protein-coding	178.5	323.5	199.5	2004.5	494.0	206.5	184.5	166.0
Merged-chr13-95494576-2	chr13	95494481	95494681	+	870.75	f0_c57.idr|f1_balb.idr	Intergenic	L1MC5|LINE|L1	-15926.0	NM_001081159	268686.0	Mm.291249	NM_001081159	ENSMUSG00000021679	S100z	Gm625	S100 calcium binding protein, zeta	protein-coding	0.5	0.0	0.0	0.0	31.0	19.0	5.5	4.5
Merged-chr8-70804130-4	chr8	70804016	70804216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4333.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	29.0	42.5	32.0	464.5	76.0	26.0	24.0	12.0
Merged-chr18-4351422-3	chr18	4351310	4351510	+	936.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 1 of 7)	intron (NM_007746, intron 1 of 7)	1543.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	13.0	8.0	30.5	327.0	28.0	5.5	14.5	23.5
Merged-chr12-25096200-4	chr12	25096124	25096324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010496)	promoter-TSS (NM_010496)	-132.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	233.5	324.5	277.0	4045.0	760.5	288.5	335.5	299.0
Merged-chr4-138216735-2	chr4	138216635	138216835	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122897)	promoter-TSS (NM_001122897)	123.0	NM_001285478	15441.0	Mm.348429	NM_010470	ENSMUSG00000028759	Hp1bp3	Hp1bp74	heterochromatin protein 1, binding protein 3	protein-coding	8.5	29.0	10.0	130.5	27.0	15.0	7.0	16.5
Merged-chr11-17180908-4	chr11	17180805	17181005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 1 of 5)	intron (NM_024459, intron 1 of 5)	21607.0	NM_024459	19058.0	Mm.41840	NM_024459	ENSMUSG00000033953	Ppp3r1	CaNB1|Cnb1|MCIP1	protein phosphatase 3, regulatory subunit B, alpha isoform (calcineurin B, type I)	protein-coding	29.0	51.5	27.5	784.0	77.5	23.5	24.5	27.5
Merged-chr15-98567824-4	chr15	98567720	98567920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009833)	promoter-TSS (NM_009833)	-184.0	NM_009833	12455.0	Mm.29941	NM_009833	ENSMUSG00000011960	Ccnt1	2810478G24Rik|AI115585|CycT1	cyclin T1	protein-coding	174.0	320.5	178.0	1771.0	505.0	236.0	169.0	202.5
Merged-chr19-5848846-2	chr19	5848746	5848946	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3366.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	3.0	7.0	7.5	77.0	15.5	9.5	7.5	5.5
Merged-chr12-33311883-1	chr12	33311783	33311983	+	634.0	f0_balb.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	9368.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	0.5	9.0	7.5	90.0	10.0	7.5	11.0	5.0
Merged-chr6-66537493-4	chr6	66537415	66537615	+	915.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355624, intron 2 of 5)	intron (NM_001355624, intron 2 of 5)	2294.0	NM_001355624	56150.0	Mm.489653	NM_019499	ENSMUSG00000029910	Mad2l1	AA673185|MAD2	MAD2 mitotic arrest deficient-like 1	protein-coding	1.5	5.5	5.5	123.0	30.5	15.5	5.5	10.0
Merged-chr18-34859902-4	chr18	34859804	34860004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1303.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	155.0	277.5	154.0	2101.5	379.0	170.0	245.5	180.0
Merged-chr4-126256473-4	chr4	126256375	126256575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144941)	promoter-TSS (NM_144941)	-156.0	NM_001145970	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	135.5	262.0	159.0	1531.0	223.0	116.0	81.5	113.0
Merged-chr3-148805912-4	chr3	148805804	148806004	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148731.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	24.0	34.0	30.0	308.5	73.0	19.0	23.5	20.0
Merged-chr8-105983638-4	chr8	105983542	105983742	+	919.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4223.0	NM_027960	71854.0	Mm.173395	NM_027960	ENSMUSG00000031898	Dpep3	1700018F16Rik|AI507039|MBD-3|MLZ-136	dipeptidase 3	protein-coding	21.0	24.5	16.0	73.0	23.0	7.5	11.0	13.5
Merged-chr8-61581495-2	chr8	61581402	61581602	+	789.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	9667.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	7.5	0.0	0.0	9.5	44.5	9.0	8.5	5.5
Merged-chr3-154597152-4	chr3	154597067	154597267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168358)	promoter-TSS (NM_001168358)	-30.0	NM_001357673	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	59.0	111.5	60.0	1048.0	138.0	65.0	95.5	64.5
Merged-chr1-183221476-4	chr1	183221378	183221578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026866)	promoter-TSS (NM_026866)	51.0	NM_026866	68897.0	Mm.327216	NM_026866	ENSMUSG00000030768	Disp1	1190008H24Rik|DispA	dispatched RND transporter family member 1	protein-coding	33.0	37.0	27.5	467.5	58.5	32.0	46.0	41.5
Merged-chr5-135187670-3	chr5	135187572	135187772	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011714, exon 1 of 19)	exon (NM_011714, exon 1 of 19)	349.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	17.0	17.5	25.0	249.0	51.0	23.5	14.5	28.5
Merged-chr3-61592527-4	chr3	61592427	61592627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	228020.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	68.5	105.0	90.5	1768.5	216.0	86.5	65.5	83.0
Merged-chr7-130839568-4	chr7	130839463	130839663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26161.0	NM_133942	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	35.0	71.5	22.0	275.5	51.0	30.0	25.5	22.5
Merged-chr12-3691161-5	chr12	3691105	3691305	+	966.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 9 of 17)	RLTR10D2|LTR|ERVK	-115775.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	16.0	43.0	16.5	118.0	66.5	18.5	33.0	17.5
Merged-chr19-40401344-4	chr19	40401145	40401345	+	976.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034962, intron 2 of 22)	intron (NM_001034962, intron 2 of 22)	1065.0	NM_001034964	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	11.0	18.5	21.5	207.5	20.0	19.0	9.5	17.5
Merged-chr4-109420956-4	chr4	109420845	109421045	+	960.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145948, intron 2 of 17)	intron (NM_001145948, intron 2 of 17)	5298.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	18.0	14.0	16.5	257.0	39.5	8.5	12.0	8.0
Merged-chr11-29547831-4	chr11	29547721	29547921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028504)	promoter-TSS (NM_028504)	-129.0	NM_028504	73324.0	Mm.69388	NM_028504	ENSMUSG00000020461	Clhc1	1700034F02Rik	clathrin heavy chain linker domain containing 1	protein-coding	53.5	101.0	147.0	712.0	163.5	60.5	70.0	51.5
Merged-chr13-59834908-3	chr13	59834788	59834988	+	925.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11741.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	9.0	4.5	13.0	155.5	13.0	7.0	5.5	2.5
Merged-chr16-91355400-4	chr16	91355329	91355529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17354.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	172.0	323.0	213.5	3345.5	427.5	197.5	217.0	162.5
Merged-chr8-104115170-3	chr8	104115071	104115271	+	662.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 2 of 11)	MTE2b|LTR|ERVL-MaLR	-9298.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	4.5	4.0	6.0	118.0	13.5	6.0	7.5	7.5
Merged-chr13-97187233-2	chr13	97187133	97187333	+	758.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010422, intron 5 of 13)	L1MC4|LINE|L1	11124.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	1.0	0.5	0.0	22.0	4.5	5.0	5.0	9.5
Merged-chr12-36053818-3	chr12	36053722	36053922	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11344.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	74.5	89.0	94.0	1522.0	8.5	2.0	5.5	4.5
Merged-chr16-4757049-6	chr16	4756927	4757127	+	934.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357050)	promoter-TSS (NM_001357050)	81.0	NM_001357050	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	9.0	17.0	16.5	69.0	24.0	23.5	12.0	15.0
Merged-chr10-119001154-4	chr10	119001056	119001256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49343.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	78.0	169.0	81.5	985.5	200.0	68.0	78.0	60.0
Merged-chr13-44819555-3	chr13	44819427	44819627	+	857.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	intron (NM_001205043, intron 1 of 17)	88256.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	6.5	9.0	8.5	200.0	13.0	2.5	4.0	13.0
Merged-chr8-81342463-4	chr8	81342356	81342556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001297591)	promoter-TSS (NM_001297591)	-106.0	NM_001024617	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	67.0	95.5	111.0	1236.0	56.0	26.5	60.0	51.5
Merged-chr11-26639675-4	chr11	26639587	26639787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-45767.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	71.5	58.5	51.5	383.0	171.5	58.0	65.5	35.0
Merged-chr7-101537766-4	chr7	101537652	101537852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18050.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	34.5	47.5	18.5	381.5	92.0	28.0	19.0	28.0
Merged-chr1-191334672-4	chr1	191334564	191334764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 2 of 7)	MTEa|LTR|ERVL-MaLR	8699.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	134.5	203.0	123.5	2184.0	342.5	123.0	138.0	140.5
Merged-chr9-45489610-2	chr9	45489506	45489706	+	589.333374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	MTD|LTR|ERVL-MaLR	-58374.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	0.0	0.0	0.0	0.0	19.5	10.0	7.5	10.5
Merged-chr2-144287353-4	chr2	144287251	144287451	+	934.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16447.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	18.5	29.0	14.0	319.0	56.0	11.0	24.0	11.0
Merged-chr18-77949734-4	chr18	77949633	77949833	+	725.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 2 of 43)	intron (NM_001195633, intron 2 of 43)	11266.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	8.0	10.0	9.0	136.5	39.5	7.5	14.5	10.5
Merged-chr2-181365992-3	chr2	181365911	181366111	+	986.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165991)	promoter-TSS (NM_001165991)	588.0	NM_001048148	229007.0	Mm.87720	NM_144894	ENSMUSG00000027582	Zgpat	1500006I01Rik|BC021513	zinc finger, CCCH-type with G patch domain	protein-coding	18.5	15.5	11.5	142.0	17.5	2.5	12.0	10.5
Merged-chr1-149827194-4	chr1	149827097	149827297	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95242.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	13.0	21.5	11.0	162.0	125.5	21.0	30.0	39.5
Merged-chr4-136431488-3	chr4	136431385	136431585	+	889.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285484, intron 1 of 1)	intron (NM_001285484, intron 1 of 1)	6873.0	NM_001285484	15552.0	Mm.40573	NM_008309	ENSMUSG00000070687	Htr1d	5-HT-1D|5-HT1D|AI853647|Gpcr14|Htr1db	5-hydroxytryptamine (serotonin) receptor 1D	protein-coding	15.5	12.5	10.0	207.5	19.5	6.0	1.5	10.0
Merged-chr19-29470144-4	chr19	29470029	29470229	+	893.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	intron (NM_021396, intron 5 of 5)	51858.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	4.5	19.0	8.5	179.0	39.5	14.0	11.0	14.5
Merged-chr10-34129690-4	chr10	34129644	34129844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-1772.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	34.5	37.5	29.5	401.5	62.5	14.5	16.5	22.5
Merged-chr7-127119286-4	chr7	127119177	127119377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133686, intron 1 of 3)	intron (NM_133686, intron 1 of 3)	2752.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	61.0	51.5	34.5	783.5	162.0	52.5	62.0	43.0
Merged-chr4-33347269-4	chr4	33347177	33347377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305273, intron 8 of 15)	intron (NM_001305273, intron 8 of 15)	36966.0	NM_001305273	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	50.0	74.0	50.5	1270.0	75.0	26.5	46.5	47.5
Merged-chr8-117285236-4	chr8	117285132	117285332	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	28213.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	16.5	23.5	5.0	250.0	37.5	8.0	10.5	11.5
Merged-chr3-88178191-4	chr3	88178085	88178285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045997)	promoter-TSS (NR_045997)	-400.0	NR_045997	76642.0	Mm.424420	NR_045997	ENSMUSG00000096935	1700113A16Rik	2210408E11Rik|AA408983	RIKEN cDNA 1700113A16 gene	ncRNA	240.0	337.0	233.5	2981.0	512.5	193.0	242.0	218.0
Merged-chr4-59374646-1	chr4	59374546	59374746	+	609.0	f1_c57bl6.idr	intron (NM_001163288, intron 8 of 16)	intron (NM_001163288, intron 8 of 16)	63987.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	5.5	7.0	5.0	60.0	3.0	1.5	3.0	2.5
Merged-chr5-64923149-4	chr5	64923048	64923248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9551.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	63.5	95.0	101.0	1022.0	93.5	28.0	38.5	39.0
Merged-chr3-89912466-4	chr3	89912344	89912544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	752.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	44.5	49.0	35.5	389.5	68.5	38.0	30.5	35.5
Merged-chr16-91869127-3	chr16	91869018	91869218	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 27 of 28)	intron (NM_001110275, intron 27 of 28)	62512.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	17.5	29.0	12.5	262.0	43.5	14.0	14.5	11.5
Merged-chr8-40491575-4	chr8	40491476	40491676	+	934.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011135)	TTS (NM_011135)	18903.0	NM_001361938	18983.0	Mm.272551	NM_011135	ENSMUSG00000031601	Cnot7	AU022737|CAF-1|Caf1|Pop2	CCR4-NOT transcription complex, subunit 7	protein-coding	7.5	42.0	21.0	373.0	26.5	9.0	14.5	13.0
Merged-chr17-5189866-4	chr17	5189760	5189960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	CpG	194786.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	138.0	236.0	91.5	2530.0	350.5	138.0	169.5	144.5
Merged-chr9-63975511-3	chr9	63975401	63975601	+	997.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	46558.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	20.0	18.0	35.5	305.0	15.5	6.0	14.5	9.5
Merged-chr5-36466096-4	chr5	36465988	36466188	+	864.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024478, intron 1 of 3)	intron (NM_024478, intron 1 of 3)	903.0	NM_024478	17713.0	Mm.21535	NM_024478	ENSMUSG00000029198	Grpel1	AA408748|mt-GrpE#1|mt-Grpel1	GrpE-like 1, mitochondrial	protein-coding	9.0	13.5	8.5	185.0	30.5	12.0	13.0	16.0
Merged-chr10-79924075-7	chr10	79924016	79924216	+	943.9523929999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	RLTR12A|LTR|ERVK	-2927.0	NM_001288626	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	10.5	15.5	8.0	108.0	39.0	10.0	10.0	17.5
Merged-chr7-143466419-4	chr7	143466298	143466498	+	983.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5348.0	NM_001161624	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	14.5	18.0	20.0	240.5	24.5	16.5	18.0	16.0
Merged-chr2-155696392-4	chr2	155696263	155696463	+	937.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3979.0	NM_001163452	56407.0	Mm.234944	NM_019828	ENSMUSG00000038324	Trpc4ap	4833429F06Rik|D2Ertd113e|Trrp4ap|mFLJ00177|truss	transient receptor potential cation channel, subfamily C, member 4 associated protein	protein-coding	7.5	17.0	20.5	122.5	18.5	16.0	3.5	5.0
Merged-chr8-95024578-4	chr8	95024450	95024650	+	859.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173036, intron 2 of 11)	intron (NM_173036, intron 2 of 11)	6858.0	NM_173036	54672.0	Mm.27995	NM_173036	ENSMUSG00000060470	Adgrg3	A030001G24Rik|AW214383|Gpr97|Pb1|Pb99	adhesion G protein-coupled receptor G3	protein-coding	9.5	15.0	7.5	245.5	15.5	10.0	12.5	12.5
Merged-chr5-28321911-4	chr5	28321820	28322020	+	875.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028234, intron 1 of 18)	intron (NM_028234, intron 1 of 18)	4731.0	NM_028234	381626.0	Mm.304075	NM_028234	ENSMUSG00000048271	Rbm33	3200001K10Rik|6430512A10Rik|AA386890|Prr8	RNA binding motif protein 33	protein-coding	14.0	17.0	14.0	134.5	19.5	6.0	16.5	21.0
Merged-chr15-76381020-4	chr15	76380986	76381186	+	860.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175457, intron 1 of 43)	CpG	573.0	NM_175457	223658.0	Mm.123240	NM_175457	ENSMUSG00000022558	Mroh1	D330001F17Rik|Heatr7a	maestro heat-like repeat family member 1	protein-coding	20.5	16.5	10.0	142.0	31.0	8.5	8.0	16.5
Merged-chr4-6415420-4	chr4	6415298	6415498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 21 of 30)	intron (NM_010945, intron 21 of 30)	38873.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	234.5	375.5	348.0	4806.5	722.0	263.0	319.5	239.0
Merged-chr5-95919582-4	chr5	95919483	95919683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37356.0	NM_018866	55985.0	Mm.10116	NM_018866	ENSMUSG00000023078	Cxcl13	4631412M08Rik|ANGIE2|Angie|BCA-1|BLC|BLR1L|Scyb13	chemokine (C-X-C motif) ligand 13	protein-coding	99.5	142.5	119.0	1586.5	123.0	66.5	54.0	60.5
Merged-chr9-35559501-4	chr9	35559400	35559600	+	850.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023292, exon 2 of 5)	5' UTR (NM_023292, exon 2 of 5)	940.0	NM_023292	67049.0	Mm.425574	NM_023292	ENSMUSG00000032103	Pus3	2610020J05Rik|5730412F04Rik	pseudouridine synthase 3	protein-coding	13.5	18.0	10.0	245.0	24.5	11.0	13.5	4.0
Merged-chr8-121652107-4	chr8	121651923	121652123	+	824.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080855)	promoter-TSS (NM_080855)	-90.0	NM_080855	142682.0	Mm.103202	NM_080855	ENSMUSG00000061410	Zcchc14	AA792890|BDG29	zinc finger, CCHC domain containing 14	protein-coding	4.0	10.0	2.0	29.5	10.0	4.5	8.0	6.0
Merged-chr8-26169328-4	chr8	26169225	26169425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11156.0	NM_199042	73754.0	Mm.383241	NM_199042	ENSMUSG00000037214	Thap1	4833431A01Rik|AW490810	THAP domain containing, apoptosis associated protein 1	protein-coding	35.5	62.0	29.0	495.0	64.5	26.5	41.0	30.5
Merged-chr13-97544789-2	chr13	97544689	97544889	+	639.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-15211.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	4.5	5.0	1.0	11.0	5.0	5.0	5.0	9.0
Merged-chr7-13038833-4	chr7	13038743	13038943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168469)	promoter-TSS (NM_001168469)	-568.0	NM_001168469	22192.0	Mm.196580	NM_145578	ENSMUSG00000005575	Ube2m	2510040H03Rik|UBC12|Ubc-rs2	ubiquitin-conjugating enzyme E2M	protein-coding	43.0	59.5	37.0	596.0	97.5	38.5	83.5	56.0
Merged-chr2-33887692-4	chr2	33887584	33887784	+	825.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175184, exon 1 of 10)	5' UTR (NM_175184, exon 1 of 10)	262.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	14.0	19.0	19.5	131.0	12.5	8.5	13.5	10.0
Merged-chr1-178303569-4	chr1	178303478	178303678	+	996.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15575.0	NM_025511	66359.0	Mm.489720	NM_025511	ENSMUSG00000026500	Cox20	2310005N03Rik|Fam36a	COX20 Cox2 chaperone	protein-coding	21.5	20.0	25.0	299.5	44.5	17.0	18.0	20.5
Merged-chr19-4112346-4	chr19	4112229	4112429	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_075078, exon 22 of 24)	non-coding (NR_075078, exon 22 of 24)	9246.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	4.5	20.0	9.5	136.5	31.0	9.5	11.0	7.5
Merged-chr4-136898027-5	chr4	136898023	136898223	+	970.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007572, intron 1 of 2)	(CCCTAA)n|Simple_repeat|Simple_repeat	721.0	NM_007572	12259.0	Mm.439957	NM_007572	ENSMUSG00000036887	C1qa	AI255395|C1q	complement component 1, q subcomponent, alpha polypeptide	protein-coding	18.0	35.0	23.0	183.5	50.5	28.0	15.0	19.0
Merged-chr2-126950637-2	chr2	126950537	126950737	+	981.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17402.0	NM_023220	66552.0	Mm.269928	NM_023220	ENSMUSG00000027366	Sppl2a	2010106G01Rik|C130089K23Rik	signal peptide peptidase like 2A	protein-coding	8.0	6.0	4.0	49.5	11.5	7.0	5.5	13.0
Merged-chr10-121377132-4	chr10	121377048	121377248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 5 of 13)	intron (NM_029364, intron 5 of 13)	12058.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	87.5	138.5	59.5	1013.0	212.0	95.5	52.0	70.5
Merged-chr1-106232019-3	chr1	106231923	106232123	+	906.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	60154.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	10.5	11.5	10.5	124.5	17.0	8.0	13.0	8.5
Merged-chr14-50991313-4	chr14	50991227	50991427	+	818.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-16424.0	NM_001162863	75019.0	Mm.318775	NM_029145	ENSMUSG00000021872	Rnase10	4930474F22Rik|Rah1	ribonuclease, RNase A family, 10 (non-active)	protein-coding	6.0	12.5	4.0	106.0	27.5	15.0	8.0	7.0
Merged-chr10-117747746-4	chr10	117747639	117747839	+	957.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1381.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	12.5	13.5	12.5	202.0	58.0	19.0	23.5	20.5
Merged-chr15-8512045-4	chr15	8511944	8512144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-67581.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	29.0	35.5	36.5	588.0	53.0	17.0	36.0	36.0
Merged-chr10-59221856-4	chr10	59221656	59221856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172939)	promoter-TSS (NM_172939)	91.0	NM_001024911	103080.0	Mm.346842	NM_001024910	ENSMUSG00000019917	Sept10	4921515A04Rik|9430099J10Rik|AA408298|AI874685	septin 10	protein-coding	124.5	213.5	132.5	1703.5	329.5	132.5	148.5	142.0
Merged-chr4-134924586-4	chr4	134924524	134924724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023665, intron 2 of 4)	intron (NM_023665, intron 2 of 4)	999.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	48.5	78.5	31.0	621.0	183.0	34.5	77.5	67.0
Merged-chr7-74724839-3	chr7	74724741	74724941	+	979.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-170061.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	23.5	35.5	27.5	398.0	0.0	1.0	1.0	3.5
Merged-chr8-22860261-3	chr8	22860157	22860357	+	934.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 1 of 17)	CpG	718.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	8.0	13.5	14.0	158.5	25.0	11.0	7.0	6.5
Merged-chr11-95425064-2	chr11	95424964	95425164	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359107, intron 1 of 9)	PB1D7|SINE|Alu	10981.0	NM_001359107	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	5.0	7.0	6.0	55.5	6.5	2.5	3.0	3.0
Merged-chr8-77467026-2	chr8	77466926	77467126	+	693.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-50030.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	6.0	4.5	5.5	62.5	11.0	1.5	8.0	0.0
Merged-chr7-139377047-2	chr7	139376947	139377147	+	650.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12062.0	NM_183144	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	11.0	8.0	6.5	43.0	8.0	6.5	4.0	10.0
Merged-chr6-100191395-4	chr6	100191304	100191504	+	812.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	95954.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	3.5	3.0	9.0	186.0	25.5	6.5	13.0	14.0
Merged-chr12-86024619-3	chr12	86024505	86024705	+	763.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081423, intron 33 of 33)	intron (NM_001081423, intron 33 of 33)	54436.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	6.0	1.5	12.5	138.0	20.0	4.5	5.0	8.0
Merged-chr7-110062071-1	chr7	110061971	110062171	+	1000.0	f0_balb.idr	intron (NM_009281, intron 1 of 15)	CpG	369.0	NM_009281	20841.0	Mm.10815	NM_009281	ENSMUSG00000061079	Zfp143	AA959806|AU015869|D7Ertd805e|KRAB14|SBF|Staf|Zfp79|Zfp80-rs1|Znf143|pHZ-1	zinc finger protein 143	protein-coding	49.5	71.5	70.5	563.5	110.5	44.5	59.5	60.5
Merged-chr4-131975328-4	chr4	131975228	131975428	+	969.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 10 of 20)	intron (NM_183428, intron 10 of 20)	53557.0	NM_001201367	623230.0	Mm.421179	NM_001201367	ENSMUSG00000070720	Tmem200b	EG623230	transmembrane protein 200B	protein-coding	34.0	13.0	19.0	449.0	44.5	16.0	27.5	23.5
Merged-chr15-38567596-3	chr15	38567489	38567689	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045757, intron 2 of 2)	intron (NR_045757, intron 2 of 2)	27345.0	NR_045757	69679.0	Mm.416890	NR_045757	ENSMUSG00000102106	2310043O21Rik	-	RIKEN cDNA 2310043O21 gene	ncRNA	5.0	8.0	15.5	167.5	14.5	1.5	6.5	2.5
Merged-chr7-42692789-4	chr7	42692692	42692892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008427)	promoter-TSS (NM_001008427)	-74.0	NM_001008427	434179.0	Mm.284947	NM_001008427	ENSMUSG00000069727	Zfp975	EG434179|Gm5595|mszf88	zinc finger protein 975	protein-coding	64.0	80.5	65.0	1092.0	131.5	40.5	124.5	95.0
Merged-chr4-135873937-4	chr4	135873839	135874039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026383)	promoter-TSS (NM_026383)	-93.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	101.0	187.5	75.0	870.0	292.0	99.0	90.5	96.0
Merged-chr18-9707623-4	chr18	9707523	9707723	+	975.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130449)	promoter-TSS (NM_130449)	-25.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	47.5	48.0	42.5	710.0	34.0	15.0	15.5	19.0
Merged-chr18-42011088-4	chr18	42010932	42011132	+	944.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-11983.0	NM_001033426	332309.0	Mm.240520	NM_001033426	ENSMUSG00000073574	Grxcr2	Gm851	glutaredoxin, cysteine rich 2	protein-coding	9.0	31.0	12.0	349.5	44.5	14.5	13.5	10.5
Merged-chr8-105375239-3	chr8	105375142	105375342	+	885.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081333)	promoter-TSS (NM_001081333)	-139.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	9.5	4.0	5.0	57.5	27.5	12.5	8.0	19.5
Merged-chr2-11777623-4	chr2	11777502	11777702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348237)	promoter-TSS (NM_001348237)	-17.0	NM_001348236	50755.0	Mm.24088	NM_015792	ENSMUSG00000058594	Fbxo18	AU015756|Fbh1|Fbx18	F-box protein 18	protein-coding	210.5	330.0	189.5	3070.5	537.0	197.5	305.5	205.5
Merged-chr19-25622717-4	chr19	25622625	25622825	+	821.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177360, exon 2 of 2)	exon (NM_177360, exon 2 of 2)	12188.0	NM_177360	240590.0	Mm.62785	NM_177360	ENSMUSG00000042372	Dmrt3	-	doublesex and mab-3 related transcription factor 3	protein-coding	2.5	20.0	8.0	189.5	18.0	13.0	9.5	21.0
Merged-chr4-105353190-1	chr4	105353090	105353290	+	723.0	f0_balb.idr	Intergenic	Intergenic	195843.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	4.5	8.5	10.0	146.5	7.0	5.0	7.5	6.5
Merged-chr2-181289241-4	chr2	181289146	181289346	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-1280.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	33.5	41.5	48.5	639.5	127.5	17.5	51.0	72.0
Merged-chr4-150608819-4	chr4	150608708	150608908	+	891.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	43366.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	24.5	20.0	25.0	504.5	36.5	8.0	15.5	17.5
Merged-chr1-55210317-3	chr1	55210224	55210424	+	600.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356287, intron 1 of 7)	intron (NM_001356287, intron 1 of 7)	16458.0	NM_001356288	74013.0	Mm.292050	NM_028713	ENSMUSG00000025978	Rftn2	2700010E02Rik|3222401M22Rik	raftlin family member 2	protein-coding	9.0	8.5	6.0	87.5	5.0	3.0	2.0	4.0
Merged-chr8-106039781-4	chr8	106039685	106039885	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301176, intron 6 of 14)	intron (NM_001301176, intron 6 of 14)	-19818.0	NM_010901	18021.0	Mm.383185	NM_010901	ENSMUSG00000031902	Nfatc3	C80703|D8Ertd281e|NFAT4|NFATx	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3	protein-coding	17.5	34.0	15.0	294.5	33.5	7.0	24.0	24.0
Merged-chr3-103735085-4	chr3	103734884	103735084	+	855.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133859)	TTS (NM_133859)	3017.0	NM_133859	99543.0	Mm.211535	NM_133859	ENSMUSG00000027848	Olfml3	2810002E22Rik|AI115209|AW550633|HNOEL-iso|ONT3|mONT3	olfactomedin-like 3	protein-coding	7.5	4.0	5.5	86.5	13.0	10.0	11.5	11.0
Merged-chr4-106376065-2	chr4	106375965	106376165	+	879.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_183225, intron 24 of 67)	intron (NM_183225, intron 24 of 67)	59852.0	NM_183225	329908.0	Mm.234544	NM_183225	ENSMUSG00000028514	Usp24	2700066K03Rik|2810030C21Rik|AI414051|B130021E18|C79851	ubiquitin specific peptidase 24	protein-coding	13.0	12.0	2.0	69.0	13.0	5.0	8.0	10.0
Merged-chr7-89342134-6	chr7	89342021	89342221	+	917.955566	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	intron (NM_001360746, intron 2 of 14)	-3334.0	NM_001360745	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	7.0	25.5	18.5	168.0	38.5	2.5	7.5	4.5
Merged-chr17-24165093-4	chr17	24164964	24165164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361533, intron 1 of 2)	intron (NM_001361533, intron 1 of 2)	-1331.0	NM_172935	245847.0	Mm.87319	NM_172935	ENSMUSG00000036820	Amdhd2	5730457F11Rik	amidohydrolase domain containing 2	protein-coding	153.0	265.0	127.5	2234.0	305.5	135.5	105.0	126.5
Merged-chr19-55792094-4	chr19	55792012	55792212	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	50302.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	18.5	27.5	24.0	403.5	68.0	20.5	42.5	15.0
Merged-chr2-117019340-4	chr2	117019222	117019422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101749.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	58.0	104.0	56.5	1155.5	169.0	47.5	77.0	52.0
Merged-chr10-117861073-4	chr10	117860980	117861180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15106.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	207.0	317.5	150.0	3270.5	512.5	187.5	242.5	168.0
Merged-chr13-40978854-4	chr13	40978737	40978937	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155347, intron 1 of 4)	MER2|DNA|TcMar-Tigger	-22173.0	NM_026550	68083.0	Mm.24789	NM_026550	ENSMUSG00000038683	Pak1ip1	5830431I15Rik|5930415H02Rik|AA419825|AI314040|AW556169|Gdpd1|PIP1	PAK1 interacting protein 1	protein-coding	43.0	41.5	34.0	935.0	73.5	29.5	16.5	25.5
Merged-chr11-93994734-2	chr11	93994634	93994834	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1357.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	2.0	3.5	9.5	74.5	10.0	4.5	7.5	9.0
Merged-chr1-65569526-2	chr1	65569426	65569626	+	739.700012	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR10|LTR|ERVK	258269.0	NM_139270	213527.0	Mm.294225	NM_139270	ENSMUSG00000025946	Pth2r	Pthr2	parathyroid hormone 2 receptor	protein-coding	3.5	5.0	5.5	92.0	12.5	8.0	13.0	9.0
Merged-chr13-28953037-5	chr13	28952917	28953117	+	976.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009238, exon 1 of 1)	exon (NM_009238, exon 1 of 1)	682.0	NM_009238	20677.0	Mm.240627	NM_009238	ENSMUSG00000076431	Sox4	AA682046|Sox-4	SRY (sex determining region Y)-box 4	protein-coding	12.5	13.0	11.0	285.5	16.0	2.5	8.0	7.5
Merged-chr13-56296436-4	chr13	56296300	56296500	+	944.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019568, exon 1 of 4)	5' UTR (NM_019568, exon 1 of 4)	151.0	NM_019568	57266.0	Mm.30211	NM_019568	ENSMUSG00000021508	Cxcl14	1110031L23Rik|1200006I23Rik|AI414372|BMAC|BRAK|KS1|Kec|MIP-2g|MIP2gamma|NJAC|Scyb14|bolekine	chemokine (C-X-C motif) ligand 14	protein-coding	30.5	31.0	23.0	366.0	25.0	8.0	9.5	15.5
Merged-chr1-138517166-3	chr1	138517077	138517277	+	821.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 5 of 9)	ID_B1|SINE|B4	102580.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	7.0	9.0	11.5	174.0	10.5	4.5	7.5	2.5
Merged-chr15-75120240-2	chr15	75120164	75120364	+	701.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-8293.0	NM_001099217	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	3.0	4.0	0.0	21.0	20.5	6.0	5.0	5.0
Merged-chr3-69606667-4	chr3	69606553	69606753	+	909.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7693.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	24.0	21.5	16.0	423.0	31.0	9.0	13.0	16.0
Merged-chr5-99381794-4	chr5	99381681	99381881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-128854.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	147.0	172.5	108.0	2074.5	330.0	140.5	141.5	131.5
Merged-chr17-45566389-3	chr17	45566365	45566565	+	869.125	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357105, exon 4 of 4)	exon (NM_001357105, exon 4 of 4)	2529.0	NM_001357105	73836.0	Mm.289716	NM_028662	ENSMUSG00000037089	Slc35b2	1110003M08Rik|AA407792|AI842275|PAPST1|Slc35b1	solute carrier family 35, member B2	protein-coding	4.5	6.0	6.0	47.5	8.5	2.0	1.0	6.5
Merged-chr8-19785318-2	chr8	19785218	19785418	+	854.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001270553, intron 6 of 9)	intron (NM_001270553, intron 6 of 9)	55742.0	NM_001039553	626415.0	Mm.425517	NM_001039553	ENSMUSG00000096265	4930467E23Rik	TSAP	RIKEN cDNA 4930467E23 gene	protein-coding	4.5	8.5	4.0	45.0	13.0	7.0	5.0	5.5
Merged-chr10-81603022-4	chr10	81602908	81603108	+	974.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TC)n|Simple_repeat|Simple_repeat	-2108.0	NM_001346695	114606.0	Mm.206764	NM_053254	ENSMUSG00000034758	Tle6	1810057E06Rik|Grg6	transducin-like enhancer of split 6	protein-coding	13.5	24.0	11.5	269.0	36.0	20.5	8.0	24.5
Merged-chr7-109479252-3	chr7	109479152	109479352	+	760.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170913, intron 7 of 19)	intron (NM_001170913, intron 7 of 19)	14486.0	NM_001170913	330627.0	Mm.183528	NM_181853	ENSMUSG00000031026	Trim66	Kiaa0298-hp|Tif1d	tripartite motif-containing 66	protein-coding	9.5	8.5	3.5	146.5	8.5	7.0	17.0	6.5
Merged-chr8-70342376-4	chr8	70342245	70342445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030680, intron 3 of 23)	intron (NM_030680, intron 3 of 23)	10934.0	NM_030680	19704.0	Mm.258280	NM_030680	ENSMUSG00000058301	Upf1	B430202H16Rik|NORF1|PNORF-1|Rent1|Upflp	UPF1 regulator of nonsense transcripts homolog (yeast)	protein-coding	23.5	29.0	37.5	291.5	89.5	29.0	20.5	28.5
Merged-chr4-129058986-6	chr4	129058879	129059079	+	872.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	708.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	12.5	38.5	16.0	84.5	42.0	19.5	14.0	11.5
Merged-chr8-79475328-3	chr8	79475234	79475434	+	825.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-75866.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	12.0	18.0	13.0	224.5	9.5	1.0	3.5	4.0
Merged-chr5-117396628-4	chr5	117396513	117396713	+	814.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7590.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	10.0	8.0	13.5	215.0	25.0	19.5	15.0	21.5
Merged-chr9-47671257-3	chr9	47671131	47671331	+	829.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	140879.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	18.0	13.5	30.0	233.5	5.5	2.5	4.5	3.5
Merged-chr8-14931492-3	chr8	14931449	14931649	+	601.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037736, intron 4 of 27)	intron (NM_001037736, intron 4 of 27)	19886.0	NM_001037736	234094.0	Mm.240298	NM_172751	ENSMUSG00000071176	Arhgef10	6430549H08Rik|mKIAA0294	Rho guanine nucleotide exchange factor (GEF) 10	protein-coding	10.0	12.5	13.0	92.0	13.5	5.5	2.5	6.5
Merged-chr2-122234427-2	chr2	122234328	122234528	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146126)	promoter-TSS (NM_146126)	-411.0	NM_146126	20322.0	Mm.371580	NM_146126	ENSMUSG00000027227	Sord	Sdh-1|Sdh1|Sodh-1	sorbitol dehydrogenase	protein-coding	13.0	11.0	10.5	200.5	30.0	6.5	5.0	15.0
Merged-chr8-84913443-7	chr8	84913152	84913352	+	937.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_103491)	promoter-TSS (NR_103491)	-83.0	NR_103491	100503676.0	Mm.437155	NR_103491	ENSMUSG00000003812	Gm38426	-	predicted gene, 38426	ncRNA	11.5	15.0	8.0	171.0	31.5	13.0	12.0	7.5
Merged-chr10-43479546-3	chr10	43479473	43479673	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199028, intron 1 of 3)	CpG	433.0	NM_199028	331623.0	Mm.490388	NM_199028	ENSMUSG00000038214	Bend3	mKIAA1553	BEN domain containing 3	protein-coding	15.0	31.0	15.5	212.0	70.0	15.0	17.5	26.0
Merged-chr10-80141439-4	chr10	80141331	80141531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025313)	promoter-TSS (NM_025313)	-844.0	NM_001347092	66043.0	Mm.278560	NM_025313	ENSMUSG00000003072	Atp5d	0610008F14Rik|1500000I11Rik|AA960090|AI876556|AU020773|Atp5f1d|C85518	ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit	protein-coding	143.5	218.0	116.0	2011.5	344.5	103.0	159.0	158.5
Merged-chr1-134093167-4	chr1	134093108	134093308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-14053.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	271.0	480.5	362.5	3925.5	789.0	318.5	405.5	320.0
Merged-chr7-114117730-4	chr7	114117626	114117826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025846)	promoter-TSS (NM_025846)	55.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	44.5	59.0	37.5	626.0	79.0	35.0	43.0	39.0
Merged-chr2-132289353-4	chr2	132289273	132289473	+	992.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291039, intron 1 of 12)	RLTR17|LTR|ERVK	3434.0	NM_001291039	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	14.0	26.0	14.0	172.0	51.0	16.0	21.0	41.0
Merged-chr19-10510998-4	chr19	10510882	10511082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025333, intron 3 of 3)	MLT1E2|LTR|ERVL-MaLR	14227.0	NM_025333	66072.0	Mm.180063	NM_025333	ENSMUSG00000024668	Sdhaf2	0610038F07Rik|AA407634|AW049997	succinate dehydrogenase complex assembly factor 2	protein-coding	55.5	45.5	63.0	987.0	137.0	42.5	71.0	82.0
Merged-chr5-92309764-7	chr5	92309629	92309829	+	981.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172713, intron 1 of 21)	CpG	295.0	NM_172713	231452.0	Mm.86564	NM_172713	ENSMUSG00000029415	Sdad1	4931421J16|AA591032|AW538460	SDA1 domain containing 1	protein-coding	16.5	18.0	3.0	142.0	40.0	16.0	20.5	24.0
Merged-chr15-100461192-4	chr15	100461079	100461279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-7832.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	43.0	78.5	40.5	569.0	184.5	56.0	93.0	56.5
Merged-chr9-94362777-4	chr9	94362678	94362878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	175303.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	34.0	44.5	70.5	1332.5	103.0	31.5	66.5	54.0
Merged-chr15-5496152-4	chr15	5496037	5496237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045274)	promoter-TSS (NR_045274)	-181.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	21.5	30.0	36.0	395.0	81.5	33.0	36.0	31.5
Merged-chr5-65960476-4	chr5	65960366	65960566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6658.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	26.0	35.5	22.0	442.0	61.5	22.5	21.0	33.0
Merged-chr14-121423639-4	chr14	121423537	121423737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44407.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	74.0	63.0	53.0	936.5	139.0	36.5	45.5	38.5
Merged-chr17-50499580-4	chr17	50499466	50499666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9981.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	49.0	52.5	43.0	623.0	118.5	39.5	63.0	43.0
Merged-chr3-87365347-4	chr3	87365245	87365445	+	751.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 2 of 5)	intron (NM_009690, intron 2 of 5)	7464.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	11.5	9.5	5.5	82.0	33.5	10.5	8.5	10.5
Merged-chr11-6528820-4	chr11	6528719	6528919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045893)	promoter-TSS (NR_045893)	-59.0	NR_045893	100041286.0	Mm.459507	NR_045893	ENSMUSG00000085156	Snhg15	Gm11974	small nucleolar RNA host gene 15	ncRNA	162.0	298.5	124.5	2279.0	444.0	186.0	202.5	170.0
Merged-chr15-64113352-4	chr15	64113256	64113456	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010026, intron 25 of 30)	intron (NM_010026, intron 25 of 30)	-52908.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	21.0	23.0	6.0	205.0	91.5	29.5	18.0	22.5
Merged-chr2-145881218-4	chr2	145881164	145881364	+	971.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 11 of 12)	intron (NM_028724, intron 11 of 12)	-21977.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	15.5	9.0	17.0	189.0	31.0	13.5	30.0	28.5
Merged-chr12-55552808-4	chr12	55552697	55552897	+	970.37854	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44-int|LTR|ERVK	-12408.0	NM_001277340	79459.0	Mm.392781	NM_001277340	ENSMUSG00000063129	Aldoart2	4933425L11Rik|Aldo1-ps1|Aldoa-ps1	aldolase 1 A, retrogene 2	protein-coding	16.5	30.0	18.0	183.5	36.5	10.5	15.5	18.0
Merged-chr9-37086333-3	chr9	37086237	37086437	+	870.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	Lx8b|LINE|L1	60985.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	10.5	21.5	16.0	405.0	0.0	1.0	1.0	3.0
Merged-chr8-92846771-4	chr8	92846677	92846877	+	954.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008610, intron 11 of 12)	intron (NM_008610, intron 11 of 12)	-8556.0	NM_173014	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	14.0	18.0	19.5	326.5	46.0	21.5	19.0	17.0
Merged-chr7-109968004-4	chr7	109967907	109968107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7537.0	NM_001311139	19347.0	Mm.21904	NM_021494	ENSMUSG00000035901	Dennd5a	1500012B19Rik|AJ245569|AW496491|ORF37|Rab6ip1|mKIAA1091	DENN/MADD domain containing 5A	protein-coding	74.5	99.5	66.0	1152.5	197.5	56.5	76.0	76.5
Merged-chr3-89449023-3	chr3	89448901	89449101	+	860.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146131, exon 11 of 11)	3' UTR (NM_146131, exon 11 of 11)	-5540.0	NM_001310640	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	5.5	6.0	4.5	86.0	19.0	3.0	13.0	4.0
Merged-chr7-88280265-4	chr7	88280195	88280395	+	875.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 1 of 6)	intron (NM_009982, intron 1 of 6)	2210.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	8.0	11.0	9.0	97.5	29.5	9.5	12.0	11.0
Merged-chr6-29712281-2	chr6	29712181	29712381	+	794.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301407, intron 4 of 7)	intron (NM_001301407, intron 4 of 7)	18067.0	NM_146173	232670.0	Mm.225289	NM_146173	ENSMUSG00000001763	Tspan33	1300010A20Rik|Pen	tetraspanin 33	protein-coding	4.0	1.0	0.5	37.0	10.5	6.0	8.5	11.5
Merged-chr2-11778510-4	chr2	11778404	11778604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348237)	promoter-TSS (NM_001348237)	751.0	NM_177268	320816.0	Mm.260201	NM_177268	ENSMUSG00000047909	Ankrd16	2810455F06Rik|AI646698|D430029B21Rik	ankyrin repeat domain 16	protein-coding	112.5	189.0	119.0	2047.5	345.0	137.0	146.5	96.5
Merged-chr13-85508001-4	chr13	85507914	85508114	+	979.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-218528.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	18.5	22.0	21.5	553.5	43.0	18.0	22.5	24.0
Merged-chr15-75678767-4	chr15	75678681	75678881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355589)	promoter-TSS (NM_001355589)	19.0	NM_001355589	72960.0	Mm.182401	NM_028404	ENSMUSG00000000934	Top1mt	2900052H09Rik	DNA topoisomerase 1, mitochondrial	protein-coding	61.0	77.5	41.5	837.5	102.0	44.0	50.5	51.0
Merged-chr5-130172470-4	chr5	130172365	130172565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359233, intron 1 of 7)	intron (NM_001359233, intron 1 of 7)	646.0	NM_001359233	56715.0	Mm.288639	NM_019983	ENSMUSG00000025340	Rabgef1	Rab5ef|Rabex5|Rin2	RAB guanine nucleotide exchange factor (GEF) 1	protein-coding	88.5	148.5	85.5	1395.0	282.0	91.5	136.0	68.0
Merged-chr13-52603444-4	chr13	52603353	52603553	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	intron (NM_011518, intron 1 of 13)	6571.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	23.0	39.0	25.0	417.5	49.5	18.0	18.0	14.0
Merged-chr2-157007055-4	chr2	157006964	157007164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025853)	promoter-TSS (NM_025853)	11.0	NM_025853	66934.0	Mm.25410	NM_025853	ENSMUSG00000027635	Dsn1	1700022L09Rik|AW552447	DSN1 homolog, MIS12 kinetochore complex component	protein-coding	94.5	151.0	53.5	863.0	243.0	93.0	64.0	64.5
Merged-chr4-155095476-4	chr4	155095378	155095578	+	907.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356327, intron 6 of 12)	intron (NM_001356327, intron 6 of 12)	8874.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	16.0	10.5	7.0	187.0	37.0	5.5	21.0	10.0
Merged-chr11-17007332-14	chr11	17007243	17007443	+	897.535706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	1375.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	10.5	17.0	10.5	106.0	28.0	8.0	7.5	18.0
Merged-chr7-108967165-3	chr7	108967035	108967235	+	853.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32720.0	NM_025344	66085.0	Mm.182962	NM_025344	ENSMUSG00000031029	Eif3f	0610037M02Rik|AA409853|Eif3s5	eukaryotic translation initiation factor 3, subunit F	protein-coding	7.5	5.5	7.0	90.5	11.5	6.5	12.5	8.5
Merged-chr17-44261959-1	chr17	44261859	44262059	+	741.0	f0_balb.idr	intron (NM_172621, intron 4 of 5)	intron (NM_172621, intron 4 of 5)	73387.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	5.0	8.0	10.0	118.0	6.0	9.5	6.5	4.0
Merged-chr5-34232028-4	chr5	34231930	34232130	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 6 of 12)	intron (NM_001015039, intron 6 of 12)	-44320.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	26.5	22.0	17.5	334.0	25.5	13.5	7.0	12.5
Merged-chr13-48966148-4	chr13	48966056	48966256	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033268, intron 1 of 17)	intron (NM_001033268, intron 1 of 17)	1672.0	NM_001033268	218236.0	Mm.426571	NM_001033268	ENSMUSG00000038014	Fam120a	C9orf10|Ossa	family with sequence similarity 120, member A	protein-coding	4.0	20.5	23.0	254.0	54.5	10.5	24.5	9.0
Merged-chr13-59675770-4	chr13	59675645	59675845	+	909.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027307)	promoter-TSS (NM_027307)	39.0	NM_001035122	105348.0	Mm.171335	NM_027307	ENSMUSG00000021556	Golm1	2310001L02Rik|AW125446|D030064E01Rik|GP73|Golph2|PSEC0257	golgi membrane protein 1	protein-coding	5.0	13.0	12.0	116.5	14.0	7.0	11.5	11.0
Merged-chr3-79177778-1	chr3	79177678	79177878	+	617.0	f0_c57.idr	Intergenic	L1M3|LINE|L1	-31903.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	3.0	8.0	8.5	128.5	10.5	12.5	12.5	18.0
Merged-chr5-21129772-4	chr5	21129684	21129884	+	894.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46495.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	11.5	14.5	7.0	195.5	34.5	11.5	17.0	11.5
Merged-chr8-85800389-4	chr8	85800310	85800510	+	888.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028007, intron 6 of 17)	intron (NM_028007, intron 6 of 17)	40539.0	NM_028007	71927.0	Mm.61018	NM_028007	ENSMUSG00000031703	Itfg1	2310047C21Rik|AI314457|Cda08|D8Wsu49e	integrin alpha FG-GAP repeat containing 1	protein-coding	11.0	5.0	6.0	238.5	29.5	11.5	12.0	19.5
Merged-chr5-110613604-1	chr5	110613504	110613704	+	542.0	f0_balb.idr	intron (NR_104449, intron 1 of 5)	ORR1D2|LTR|ERVL-MaLR	10099.0	NR_104449	231605.0	Mm.275748	NM_198306	ENSMUSG00000033316	Galnt9	GalNAc-T9	polypeptide N-acetylgalactosaminyltransferase 9	protein-coding	8.5	6.5	4.5	63.5	10.5	0.5	4.0	2.5
Merged-chr4-3684794-2	chr4	3684623	3684823	+	986.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	B4A|SINE|B4	6602.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	2.5	6.5	0.0	14.5	10.5	5.0	4.5	5.5
Merged-chr1-43501469-3	chr1	43501391	43501591	+	933.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	ORR1F|LTR|ERVL-MaLR	55740.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	10.0	7.0	16.5	149.0	27.0	7.0	10.0	7.5
Merged-chr5-135478978-2	chr5	135478871	135479071	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_146001, intron 1 of 30)	B4|SINE|B4	66151.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	52.0	98.5	58.0	922.0	99.0	49.0	60.0	38.0
Merged-chr3-146655431-4	chr3	146655331	146655531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4114.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	35.0	36.5	39.5	718.0	94.0	33.0	45.0	45.0
Merged-chr14-17905766-3	chr14	17905682	17905882	+	999.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-75862.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	8.0	6.5	7.0	224.5	25.5	8.0	19.0	21.5
Merged-chr1-164586737-4	chr1	164586648	164586848	+	926.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83441.0	NR_151593	102635083.0	Mm.98705	NR_151593	ENSMUSG00000097281	Gm26685	-	predicted gene, 26685	ncRNA	11.0	8.0	17.0	297.5	24.5	5.5	11.0	17.5
Merged-chr4-75259558-3	chr4	75259469	75259669	+	903.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18723.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	8.5	15.0	6.5	135.5	12.5	4.0	7.5	11.0
Merged-chr9-47588532-3	chr9	47588458	47588658	+	903.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	MTEa|LTR|ERVL-MaLR	58206.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	22.5	22.0	16.0	182.5	2.0	1.0	0.0	1.5
Merged-chr13-54565422-4	chr13	54565341	54565541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252648)	promoter-TSS (NM_001252648)	-59.0	NM_133797	97820.0	Mm.24593	NM_133797	ENSMUSG00000025871	4833439L19Rik	4930558H15Rik|C81457|Kiaa1191|P33monox	RIKEN cDNA 4833439L19 gene	protein-coding	60.5	193.0	50.5	744.5	280.0	105.5	69.0	46.0
Merged-chr19-6418329-4	chr19	6418229	6418429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205235)	promoter-TSS (NM_001205235)	-409.0	NM_001205235	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	11.5	28.0	16.5	199.0	68.5	17.5	24.5	27.5
Merged-chr8-56292499-4	chr8	56292321	56292521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2131.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	122.5	102.0	175.5	1934.5	150.5	56.5	89.5	91.5
Merged-chr11-8567351-4	chr11	8567237	8567437	+	969.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	intron (NM_001083587, intron 4 of 30)	97198.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	20.0	68.5	32.0	358.5	110.0	42.0	32.5	16.0
Merged-chr2-22744388-4	chr2	22744300	22744500	+	907.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-29927.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	9.5	16.5	16.5	129.5	24.5	14.0	13.5	10.5
Merged-chr16-57606813-4	chr16	57606714	57606914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025599)	promoter-TSS (NM_025599)	53.0	NM_025599	66497.0	Mm.425976	NM_025599	ENSMUSG00000022748	Cmss1	1110001A06Rik|2610528E23Rik|4930572F24Rik|AV099812|AV122629	cms small ribosomal subunit 1	protein-coding	31.5	50.5	21.5	513.0	123.5	44.5	49.0	33.5
Merged-chr11-46287008-4	chr11	46286918	46287118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 3 of 30)	intron (NM_001252459, intron 3 of 30)	25340.0	NM_001252460	76884.0	Mm.154358	NM_133769	ENSMUSG00000020340	Cyfip2	1500004I01Rik|6430511D02Rik|AA930218|AU022376|Pir121|mKIAA1168	cytoplasmic FMR1 interacting protein 2	protein-coding	61.0	56.5	79.0	1388.5	106.5	53.0	59.0	47.5
Merged-chr10-128909271-3	chr10	128909177	128909377	+	908.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282966)	promoter-TSS (NM_001282966)	-68.0	NM_001282966	12512.0	Mm.371552	NM_007653	ENSMUSG00000025351	Cd63	C75951|ME491|Tspan30	CD63 antigen	protein-coding	21.5	26.0	16.5	308.5	29.0	7.5	3.0	9.0
Merged-chr16-17803071-5	chr16	17803039	17803239	+	902.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153790, exon 4 of 11)	exon (NM_153790, exon 4 of 11)	5857.0	NM_153790	224024.0	Mm.194950	NM_153790	ENSMUSG00000012017	Scarf2	NSR1|SREC-II|SRECRP-1|Scatf1|Srec2|SrecII	scavenger receptor class F, member 2	protein-coding	5.5	17.5	13.0	95.5	28.5	10.0	11.0	17.0
Merged-chr19-56763849-3	chr19	56763763	56763963	+	788.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41491.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	9.5	10.0	11.0	137.5	13.5	13.5	4.5	4.5
Merged-chr6-83634227-4	chr6	83634121	83634321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21895.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	55.0	55.5	120.0	1606.0	103.0	22.0	56.5	65.5
Merged-chr5-110780614-4	chr5	110780519	110780719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347390)	promoter-TSS (NM_001347390)	-4.0	NM_001025562	56361.0	Mm.23528	NM_019700	ENSMUSG00000029507	Pus1	A730013B20Rik|MPUS1|mPus1p	pseudouridine synthase 1	protein-coding	73.5	169.5	68.0	1009.0	288.5	129.0	97.5	86.0
Merged-chr17-56159927-4	chr17	56159871	56160071	+	837.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2520.0	NM_025566	66443.0	Mm.2312	NM_025566	ENSMUSG00000044469	Tnfaip8l1	2600017J23Rik|TIPE1	tumor necrosis factor, alpha-induced protein 8-like 1	protein-coding	6.0	20.5	6.0	99.5	33.5	12.5	18.5	7.5
Merged-chr9-106429874-1	chr9	106429774	106429974	+	998.0	f0_balb.idr	5' UTR (NM_001324534, exon 1 of 3)	5' UTR (NM_001324534, exon 1 of 3)	463.0	NM_009082	19944.0	Mm.288696	NM_009082	ENSMUSG00000048758	Rpl29	Rpl43	ribosomal protein L29	protein-coding	10.5	14.0	10.0	135.0	38.5	7.5	9.0	14.5
Merged-chr9-108478865-2	chr9	108478765	108478965	+	683.833313	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008483)	promoter-TSS (NM_008483)	-997.0	NM_008483	16779.0	Mm.27560	NM_008483	ENSMUSG00000052911	Lamb2	AW211941|Lamb-2|Lams|npht	laminin, beta 2	protein-coding	5.5	10.5	5.5	59.0	10.0	2.5	0.5	6.5
Merged-chr1-125454682-4	chr1	125454604	125454804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18977.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	60.5	107.5	49.5	937.5	109.0	44.0	64.5	60.5
Merged-chr5-115491950-4	chr5	115491816	115492016	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7432.0	NM_133760	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	43.0	51.0	50.0	520.5	60.0	15.0	23.5	22.0
Merged-chr16-27436710-3	chr16	27436658	27436858	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025615, intron 7 of 9)	intron (NM_001025615, intron 7 of 9)	47802.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	9.0	7.5	12.5	176.0	9.0	10.0	2.5	4.5
Merged-chr5-115521998-4	chr5	115521901	115522101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	L1M5|LINE|L1	15325.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	90.5	119.5	81.5	1250.5	171.0	66.5	85.5	76.5
Merged-chr4-35225999-7	chr4	35225894	35226094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081343)	promoter-TSS (NM_001081343)	-114.0	NM_001081343	73205.0	Mm.331544	NM_001081343	ENSMUSG00000028300	3110043O21Rik	AI840585|C9orf72	RIKEN cDNA 3110043O21 gene	protein-coding	90.0	119.5	158.0	1139.5	214.5	93.0	106.0	104.0
Merged-chr2-43739653-4	chr2	43739555	43739755	+	906.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9169.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	15.0	15.5	23.5	252.0	39.0	9.5	24.0	12.0
Merged-chr9-5309531-4	chr9	5309412	5309612	+	946.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007609, intron 1 of 8)	intron (NM_007609, intron 1 of 8)	663.0	NM_007609	12363.0	Mm.1569	NM_007609	ENSMUSG00000033538	Casp4	CASP-11|CASP-4|Casp11|Caspl|ich-3	caspase 4, apoptosis-related cysteine peptidase	protein-coding	10.0	30.5	27.5	267.0	34.0	22.5	29.5	7.5
Merged-chr13-66906106-4	chr13	66906015	66906215	+	987.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026219)	promoter-TSS (NM_026219)	700.0	NM_001177750	100038538.0	Mm.405005	NM_001177750	ENSMUSG00000074826	Gm10767	-	predicted gene 10767	protein-coding	12.0	35.5	21.5	404.5	154.0	34.0	48.0	37.0
Merged-chr1-91180001-3	chr1	91179903	91180103	+	872.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178401, exon 1 of 3)	5' UTR (NM_178401, exon 1 of 3)	181.0	NM_001168392	51801.0	Mm.3272	NM_016894	ENSMUSG00000034353	Ramp1	9130218E19Rik	receptor (calcitonin) activity modifying protein 1	protein-coding	6.0	8.0	8.5	115.5	15.0	4.0	8.0	6.5
Merged-chr8-68392746-4	chr8	68392630	68392830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172753, intron 5 of 9)	intron (NM_172753, intron 5 of 9)	24271.0	NR_038181	73609.0	Mm.443247	NR_038181	ENSMUSG00000085197	1700125H03Rik	4930510D22Rik	RIKEN cDNA 1700125H03 gene	ncRNA	104.5	124.5	132.5	1954.0	154.5	63.5	57.5	71.0
Merged-chr1-191166449-4	chr1	191166357	191166557	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-1640.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	26.5	55.0	21.0	285.0	33.5	24.0	37.5	14.0
Merged-chr5-129584027-4	chr5	129583937	129584137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011846)	promoter-TSS (NM_011846)	-132.0	NM_011846	23948.0	Mm.42047	NM_011846	ENSMUSG00000029436	Mmp17	MT4-MMP|MT4MMP|MTMMP4	matrix metallopeptidase 17	protein-coding	35.5	72.0	80.0	643.0	64.0	41.0	42.5	59.5
Merged-chr9-40776636-3	chr9	40776545	40776745	+	859.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 5 of 6)	RSINE1|SINE|B4	-24628.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	13.0	10.0	7.0	226.5	3.0	0.5	2.5	0.0
Merged-chr15-57923084-4	chr15	57922981	57923181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167679, exon 4 of 18)	exon (NM_001167679, exon 4 of 18)	10882.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	42.5	52.0	36.0	925.5	127.0	29.5	60.5	54.0
Merged-chr9-21715460-4	chr9	21715351	21715551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8125.0	NM_001252658	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	82.5	136.0	86.5	1439.0	306.5	104.0	174.5	114.0
Merged-chr10-75060438-4	chr10	75060363	75060563	+	986.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081412)	promoter-TSS (NM_001081412)	-433.0	NM_001081412	110279.0	Mm.333722	NM_001081412	ENSMUSG00000009681	Bcr	5133400C09Rik|AI561783|AI853148|mKIAA3017	breakpoint cluster region	protein-coding	22.0	51.0	47.0	660.0	52.5	7.0	17.5	11.5
Merged-chr8-71676639-4	chr8	71676532	71676732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190830, intron 1 of 23)	CpG	249.0	NM_010589	16453.0	Mm.249645	NM_010589	ENSMUSG00000031805	Jak3	fae|wil	Janus kinase 3	protein-coding	31.5	57.5	55.0	458.5	104.0	41.0	41.0	52.0
Merged-chr2-94010775-4	chr2	94010658	94010858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026944)	promoter-TSS (NM_026944)	-28.0	NM_026944	69113.0	Mm.272498	NM_026944	ENSMUSG00000040174	Alkbh3	1700108H04Rik|1810020C19Rik|Abh3|mABH3	alkB homolog 3, alpha-ketoglutarate-dependent dioxygenase	protein-coding	55.5	88.0	71.0	834.5	176.0	57.5	79.5	75.5
Merged-chr2-166729848-4	chr2	166729750	166729950	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16018.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	15.5	43.5	9.0	255.0	59.5	11.0	22.5	19.5
Merged-chr11-119300119-4	chr11	119300010	119300210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138669)	promoter-TSS (NM_138669)	-67.0	NM_138669	192170.0	Mm.197555	NM_138669	ENSMUSG00000025580	Eif4a3	2400003O03Rik|Ddx48|eIF4A-III|mKIAA0111	eukaryotic translation initiation factor 4A3	protein-coding	102.0	130.0	61.0	707.5	284.0	118.5	98.0	96.0
Merged-chr16-87655205-4	chr16	87655097	87655297	+	990.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43757.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	34.5	52.5	75.0	771.5	43.5	28.5	25.5	18.5
Merged-chr7-80652467-4	chr7	80652343	80652543	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173863, intron 2 of 14)	intron (NM_173863, intron 2 of 14)	16426.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	29.0	25.0	16.5	315.5	53.0	8.0	21.5	16.5
Merged-chr3-90051889-4	chr3	90051791	90051991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027500)	promoter-TSS (NM_027500)	255.0	NM_001287087	99650.0	Mm.300083	NM_025762	ENSMUSG00000027942	4933434E20Rik	5730552F22Rik|AI462154|NICE-3|NS5ATP4	RIKEN cDNA 4933434E20 gene	protein-coding	29.5	45.5	18.0	469.0	76.0	39.0	43.0	51.0
Merged-chr2-68886295-4	chr2	68886196	68886396	+	890.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	RMER10B|LTR|ERVL	24855.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	7.5	6.5	7.5	157.5	23.5	4.0	13.0	14.5
Merged-chr13-66905271-4	chr13	66905079	66905279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177750)	promoter-TSS (NM_001177750)	171.0	NM_026219	67530.0	Mm.379136	NM_026219	ENSMUSG00000021520	Uqcrb	2210415M14Rik|QP-C|QPC|UQBC|UQBP|UQPC	ubiquinol-cytochrome c reductase binding protein	protein-coding	37.5	56.5	86.5	684.5	96.0	45.5	39.0	48.0
Merged-chr6-116456002-4	chr6	116455927	116456127	+	888.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 1 of 13)	intron (NM_009662, intron 1 of 13)	5151.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	37.5	50.5	54.5	680.5	18.5	10.0	19.5	10.5
Merged-chr5-139791465-4	chr5	139791381	139791581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010757)	promoter-TSS (NM_010757)	-55.0	NM_010757	17135.0	Mm.157313	NM_010757	ENSMUSG00000018143	Mafk	AW061068|NF-E2|Nfe2u	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	protein-coding	178.5	278.0	176.0	2188.5	517.5	207.5	186.5	202.5
Merged-chr6-5633203-4	chr6	5633104	5633304	+	788.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92435.0	NM_001191023	13426.0	Mm.20893	NM_010063	ENSMUSG00000029757	Dync1i1	DH IC-1|DHIC-1|DIC|Dncic1|IC74	dynein cytoplasmic 1 intermediate chain 1	protein-coding	6.5	8.5	13.0	185.5	22.5	11.5	8.5	3.5
Merged-chr15-88142187-3	chr15	88142087	88142287	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172687.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	33.5	30.5	36.5	743.0	0.0	0.5	0.0	1.0
Merged-chr4-117191912-3	chr4	117191819	117192019	+	874.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-9295.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	10.0	18.5	5.0	71.0	0.0	1.0	0.0	5.5
Merged-chr1-57995984-4	chr1	57995878	57996078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199007)	promoter-TSS (NM_199007)	4.0	NM_199007	68549.0	Mm.32800	NM_199007	ENSMUSG00000026039	Sgo2a	1110007N04Rik|4932411A20Rik|5730576N04Rik|AU018846|AV008062|D1Ertd8e|Sgol2|Sgol2a|Tripin	shugoshin 2A	protein-coding	67.0	102.5	70.5	1197.5	250.0	84.5	128.0	70.0
Merged-chr18-62726791-3	chr18	62726691	62726891	+	827.027771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168423, intron 1 of 4)	MTEb|LTR|ERVL-MaLR	14596.0	NM_001168423	100038417.0	Mm.387557	NM_001168423	ENSMUSG00000073551	Spink13	Gm10534|Spink5l3	serine peptidase inhibitor, Kazal type 13	protein-coding	6.5	2.0	5.0	112.5	34.5	10.0	21.5	19.5
Merged-chr3-94483517-3	chr3	94483406	94483606	+	874.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357787)	promoter-TSS (NM_001357787)	784.0	NR_110353	78784.0	Mm.44292	NM_172434	ENSMUSG00000028137	Celf3	4930415M08Rik|BRUNOL1|CAGH4|ERDA4|ETR-1|Tnrc4	CUGBP, Elav-like family member 3	protein-coding	6.0	12.0	10.0	100.0	4.0	2.0	0.0	3.5
Merged-chr17-36271330-5	chr17	36271275	36271475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178281)	promoter-TSS (NM_178281)	56.0	NM_001357889	79263.0	Mm.40624	NM_024468	ENSMUSG00000045409	Trim39	1100001D15Rik|E130103K13Rik|RBCC-B30.2|Rnf23|mKIAA4179|tfp	tripartite motif-containing 39	protein-coding	45.0	109.5	88.5	777.0	169.5	74.0	72.0	88.5
Merged-chr14-121318446-3	chr14	121318360	121318560	+	933.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 2 of 10)	intron (NM_145465, intron 2 of 10)	60770.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	8.5	14.5	7.0	204.5	10.0	2.5	5.5	9.0
Merged-chr2-118534119-4	chr2	118534000	118534200	+	886.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 3 of 3)	intron (NM_001331221, intron 3 of 3)	10487.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	15.5	25.0	21.0	160.0	20.0	6.0	12.5	16.0
Merged-chr18-67973869-4	chr18	67973779	67973979	+	899.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	40706.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	7.0	5.0	9.5	70.5	5.0	2.0	5.0	9.0
Merged-chr17-80175187-4	chr17	80175084	80175284	+	955.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 4 of 6)	intron (NM_176963, intron 4 of 6)	32121.0	NM_001195486	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	15.5	22.0	13.5	400.0	38.5	13.5	19.0	24.0
Merged-chr4-129821453-4	chr4	129821358	129821558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164745, intron 1 of 5)	intron (NM_001164745, intron 1 of 5)	750.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	23.0	24.0	19.5	265.0	47.5	23.0	26.0	11.0
Merged-chr3-88460154-6	chr3	88460041	88460241	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163489, intron 1 of 14)	intron (NM_001163489, intron 1 of 14)	-1040.0	NM_001163490	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	24.5	12.5	27.0	99.0	37.5	14.0	15.5	17.0
Merged-chr6-72900510-2	chr6	72900410	72900610	+	991.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019715)	promoter-TSS (NM_019715)	-531.0	NM_019715	74287.0	Mm.29194	NM_019715	ENSMUSG00000055239	Kcmf1	1700094M07Rik|Debt91|Pmcf	potassium channel modulatory factor 1	protein-coding	13.5	17.0	10.5	229.0	32.5	13.0	12.0	21.0
Merged-chr5-24387863-3	chr5	24387702	24387902	+	812.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001002897, exon 6 of 14)	exon (NM_001002897, exon 6 of 14)	4341.0	NM_001002897	213948.0	Mm.332252	NM_001002897	ENSMUSG00000038295	Atg9b	Apg912|Apg9l2|Apgdc2|Gm574|Nos3as|eONE|sONE	autophagy related 9B	protein-coding	9.5	12.0	5.5	69.5	14.5	6.5	4.5	4.0
Merged-chr7-3665557-4	chr7	3665439	3665639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_181820)	TTS (NM_181820)	301.0	NM_027203	69757.0	Mm.389782	NM_027203	ENSMUSG00000078813	Leng1	1500001K17Rik	leukocyte receptor cluster (LRC) member 1	protein-coding	219.0	281.0	213.5	3205.0	417.0	156.0	191.5	176.0
Merged-chr7-132653241-4	chr7	132653117	132653317	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 6 of 6)	intron (NM_029609, intron 6 of 6)	42574.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	26.5	41.5	23.0	654.0	40.5	14.0	36.5	19.5
Merged-chr17-34836619-3	chr17	34836513	34836713	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163770)	promoter-TSS (NM_001163770)	290.0	NM_019442	54402.0	Mm.440064	NM_019442	ENSMUSG00000061207	Stk19	G11|RP1	serine/threonine kinase 19	protein-coding	20.5	24.0	26.5	108.5	36.5	24.5	21.0	17.0
Merged-chr6-28430859-6	chr6	28430748	28430948	+	992.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019569, intron 2 of 6)	MTD|LTR|ERVL-MaLR	2947.0	NM_019569	56223.0	Mm.31708	NM_019569	ENSMUSG00000029707	Fscn3	-	fascin actin-bundling protein 3	protein-coding	10.5	16.5	8.5	234.5	21.5	4.0	11.5	10.0
Merged-chr18-65692344-4	chr18	65692245	65692445	+	951.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5923.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	13.5	21.0	17.0	338.5	38.0	15.0	11.0	23.0
Merged-chr8-33606566-5	chr8	33606450	33606650	+	853.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017374, intron 1 of 6)	RMER6B|LTR|ERVK	6929.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	8.0	14.0	9.5	137.0	28.0	11.0	18.5	11.5
Merged-chr8-105596764-7	chr8	105596573	105596773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8556.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	10.0	9.0	8.5	138.5	40.5	21.5	16.0	13.0
Merged-chr1-23380200-4	chr1	23380065	23380265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081079, intron 1 of 6)	intron (NM_001081079, intron 1 of 6)	3010.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	77.5	88.5	73.0	1617.0	140.0	47.0	68.0	82.0
Merged-chr13-35749363-4	chr13	35749246	35749446	+	962.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123386, intron 1 of 6)	Lx9|LINE|L1	7944.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	6.5	19.0	16.5	226.5	30.5	19.5	22.5	12.5
Merged-chr16-91916816-4	chr16	91916712	91916912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010587, exon 39 of 39)	3' UTR (NM_010587, exon 39 of 39)	14818.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	28.0	45.0	24.5	461.5	70.0	14.0	18.5	18.5
Merged-chr14-40932440-3	chr14	40932329	40932529	+	904.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 2 of 8)	intron (NM_145928, intron 2 of 8)	15780.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	6.5	6.5	10.5	236.5	5.0	0.0	5.0	3.0
Merged-chr7-128392492-4	chr7	128392379	128392579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	intron (NM_026418, intron 3 of 4)	25693.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	95.5	193.5	123.5	1654.5	268.5	112.0	126.5	115.5
Merged-chr5-43782196-7	chr5	43782109	43782309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159963)	promoter-TSS (NM_001159963)	-60.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	46.5	64.5	41.5	284.5	159.0	57.5	59.5	58.5
Merged-chr6-4797495-4	chr6	4797407	4797607	+	813.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50201.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	19.5	4.5	11.0	127.5	38.5	15.0	15.0	9.5
Merged-chr17-37483681-3	chr17	37483554	37483754	+	963.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347387)	promoter-TSS (NM_001347387)	-100.0	NM_001347387	14990.0	Mm.329041	NM_008204	ENSMUSG00000016283	H2-M2	H-2M2|Thy19.4	histocompatibility 2, M region locus 2	protein-coding	7.0	27.5	8.5	106.5	75.5	20.0	14.5	13.5
Merged-chr17-4969871-3	chr17	4969755	4969955	+	890.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25219.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	6.5	14.5	25.5	166.5	19.5	8.5	13.0	5.0
Merged-chr8-72570968-5	chr8	72570901	72571101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172396)	promoter-TSS (NM_172396)	47.0	NM_172396	66818.0	Mm.22565	NM_172396	ENSMUSG00000044600	Smim7	9130011J15Rik	small integral membrane protein 7	protein-coding	83.5	141.5	147.5	1195.5	194.5	84.5	99.5	124.5
Merged-chr16-90995474-6	chr16	90995373	90995573	+	878.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045515, intron 2 of 32)	intron (NM_001045515, intron 2 of 32)	15622.0	NM_001045515	104015.0	Mm.187079	NM_001045515	ENSMUSG00000022973	Synj1	A930006D20Rik|AA675315|mKIAA0910	synaptojanin 1	protein-coding	9.0	13.0	10.0	132.5	20.0	5.5	11.5	7.5
Merged-chr6-118127355-4	chr6	118127263	118127463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362149, intron 2 of 7)	intron (NM_001362149, intron 2 of 7)	11467.0	NM_001362149	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	21.5	33.0	22.5	430.0	54.0	22.0	30.0	32.0
Merged-chr5-134234382-4	chr5	134234302	134234502	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4777.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	24.5	51.0	22.5	205.0	34.0	9.5	14.0	8.5
Merged-chr13-8641563-3	chr13	8641461	8641661	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 3 of 10)	intron (NR_110345, intron 3 of 10)	229483.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	8.5	14.5	14.0	335.5	8.0	9.5	4.0	4.5
Merged-chr4-121014756-4	chr4	121014653	121014853	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	2494.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	16.0	10.0	4.0	234.5	55.5	9.0	13.5	8.0
Merged-chr17-31090004-4	chr17	31089894	31090094	+	938.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	32300.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	15.5	28.0	20.5	364.0	24.0	11.0	13.0	10.0
Merged-chr17-71311925-3	chr17	71311797	71311997	+	896.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357336)	promoter-TSS (NM_001357336)	-341.0	NM_001357336	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	10.0	17.0	8.0	101.0	7.5	5.0	1.5	10.5
Merged-chr15-59864897-4	chr15	59864797	59864997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-69938.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	146.0	176.0	125.0	2169.5	295.0	106.0	145.0	130.5
Merged-chr3-69923214-4	chr3	69923075	69923275	+	955.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-63281.0	NM_001286959	66183.0	Mm.45481	NM_133675	ENSMUSG00000043461	Sptssb	1110032A04Rik|ADMP|Sssptb	serine palmitoyltransferase, small subunit B	protein-coding	10.0	13.5	5.5	140.5	49.5	29.0	39.0	26.5
Merged-chr19-56375713-4	chr19	56375597	56375797	+	856.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008733, intron 11 of 41)	B4A|SINE|B4	14341.0	NM_198059	18175.0	Mm.386769	NM_008733	ENSMUSG00000049134	Nrap	-	nebulin-related anchoring protein	protein-coding	9.0	14.0	16.0	251.0	18.0	11.5	13.5	11.5
Merged-chr4-67473183-3	chr4	67473062	67473262	+	723.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2B2|LINE|L1	645611.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	19.0	15.0	31.0	204.0	5.0	0.0	3.5	3.0
Merged-chr4-116821650-4	chr4	116821567	116821767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146256)	promoter-TSS (NM_146256)	-159.0	NM_146256	242642.0	Mm.279897	NM_146256	ENSMUSG00000043155	Hpdl	A830048M07Rik|BC034099|Gloxd1	4-hydroxyphenylpyruvate dioxygenase-like	protein-coding	29.0	74.0	63.5	430.0	52.5	28.0	44.5	54.0
Merged-chr8-56412210-4	chr8	56412100	56412300	+	986.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72768.0	NR_131020	75123.0	Mm.72666	NR_131020	ENSMUSG00000110310	4930518J21Rik	-	RIKEN cDNA 4930518J21 gene	ncRNA	14.5	29.0	25.5	439.0	57.5	16.0	24.0	7.5
Merged-chr5-43393424-4	chr5	43393297	43393497	+	875.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122172.0	NM_001135172	109323.0	Mm.275553	NM_175425	ENSMUSG00000061535	C1qtnf7	5530401N20Rik|8430425G24Rik|Ctrp7	C1q and tumor necrosis factor related protein 7	protein-coding	1.5	10.5	12.0	218.5	17.5	12.0	16.5	13.5
Merged-chr2-148073322-3	chr2	148073224	148073424	+	775.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26355.0	NM_010446	15376.0	Mm.938	NM_010446	ENSMUSG00000037025	Foxa2	HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b	forkhead box A2	protein-coding	4.0	2.0	1.0	12.0	27.0	11.0	19.5	23.0
Merged-chr5-32996022-3	chr5	32995924	32996124	+	975.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22792.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	19.5	6.0	16.5	235.5	9.5	6.5	14.0	5.0
Merged-chr10-81137440-4	chr10	81137348	81137548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010731, intron 1 of 2)	CpG	1177.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	349.0	548.5	337.0	4497.0	798.5	368.0	370.0	332.0
Merged-chr8-24437930-4	chr8	24437825	24438025	+	906.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026931, exon 1 of 1)	3' UTR (NM_026931, exon 1 of 1)	1021.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	16.5	15.5	12.0	188.0	29.0	10.5	10.5	10.0
Merged-chr9-90447070-4	chr9	90446935	90447135	+	682.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-176266.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	2.0	7.5	2.0	35.0	17.5	7.0	7.0	8.0
Merged-chr7-128345118-4	chr7	128345005	128345205	+	825.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46974.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	5.5	10.0	2.0	110.5	16.0	17.0	11.5	11.5
Merged-chr12-105731205-5	chr12	105731108	105731308	+	838.47998	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030187, intron 5 of 17)	intron (NM_030187, intron 5 of 17)	25226.0	NM_030187	78801.0	Mm.36006	NM_030187	ENSMUSG00000041323	Ak7	4930502N02Rik|AK 7	adenylate kinase 7	protein-coding	4.5	8.0	11.5	53.0	13.0	7.5	6.0	5.5
Merged-chr3-129430685-3	chr3	129430586	129430786	+	844.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2987.0	NR_033594	435755.0	Mm.430561	NR_033594	ENSMUSG00000105712	Pou5f1-rs4	EG435755|Gm5712|Oct4P1|Otf3-rs4|Otf3d	POU domain, class 5, transcription factor 1, related sequence 4	pseudo	8.0	6.5	5.5	114.0	10.5	6.5	6.5	13.5
Merged-chr7-28981931-4	chr7	28981829	28982029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285943)	promoter-TSS (NM_001285943)	-41.0	NM_001285942	73830.0	Mm.29714	NM_028659	ENSMUSG00000053565	Eif3k	1200009C21Rik|Eif3s12	eukaryotic translation initiation factor 3, subunit K	protein-coding	181.0	243.5	192.5	2220.5	456.0	195.0	167.0	215.0
Merged-chr10-122054627-4	chr10	122054531	122054731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7316.0	NM_001081037	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	145.5	235.0	181.0	2625.0	421.0	152.5	175.5	200.0
Merged-chr16-8769320-4	chr16	8769227	8769427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30985.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	38.5	58.0	42.0	511.5	74.0	26.0	51.0	32.0
Merged-chr2-124755446-4	chr2	124755348	124755548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	101867.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	50.5	89.0	63.0	1229.0	149.5	48.0	56.0	57.5
Merged-chr6-115722426-4	chr6	115722327	115722527	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	36572.0	NM_144805	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	14.5	18.0	15.5	251.0	60.5	33.0	29.5	31.0
Merged-chr13-60178617-4	chr13	60178504	60178704	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1069.0	NM_008086	14451.0	Mm.22701	NM_008086	ENSMUSG00000052957	Gas1	AW554192|Gas-1	growth arrest specific 1	protein-coding	7.0	13.5	4.0	169.0	32.0	9.5	8.0	16.5
Merged-chr7-98799871-3	chr7	98799769	98799969	+	819.600037	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-35243.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	4.5	8.0	15.0	108.0	21.5	4.5	7.5	2.5
Merged-chr5-121330535-1	chr5	121330435	121330635	+	649.0	f0_c57.idr	intron (NM_181421, intron 49 of 75)	IAPLTR2a|LTR|ERVK	54874.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	0.0	0.0	0.0	0.0	16.0	5.5	8.0	12.0
Merged-chr3-81925136-4	chr3	81925050	81925250	+	914.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7451.0	NM_177662	229445.0	Mm.254642	NM_177662	ENSMUSG00000028015	Ctso	A330105D01Rik|AI118514	cathepsin O	protein-coding	12.5	10.0	6.0	168.0	35.5	7.0	14.5	5.5
Merged-chr10-84722266-4	chr10	84722176	84722376	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027423, intron 27 of 27)	intron (NM_027423, intron 27 of 27)	-33772.0	NM_001024918	71137.0	Mm.79070	NM_027689	ENSMUSG00000020037	Rfx4	4933412G19Rik|NYD-sp10	regulatory factor X, 4 (influences HLA class II expression)	protein-coding	27.5	28.5	32.0	447.5	39.0	21.5	21.5	26.5
Merged-chr12-4539679-4	chr12	4539595	4539795	+	922.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	15582.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	19.0	32.0	12.5	255.0	44.5	7.5	15.5	25.0
Merged-chr15-67782151-4	chr15	67782156	67782356	+	934.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	476600.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	9.5	22.0	10.5	46.5	23.5	9.5	8.5	12.0
Merged-chr2-37426199-4	chr2	37426098	37426298	+	949.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146253, exon 2 of 2)	3' UTR (NM_146253, exon 2 of 2)	-3295.0	NM_001290642	319817.0	Mm.288785	NM_001100591	ENSMUSG00000075376	Rc3h2	2900024N03Rik|9430019J22Rik|D930043C02Rik|Mnab|Rnf164	ring finger and CCCH-type zinc finger domains 2	protein-coding	14.0	34.5	22.5	370.0	62.0	14.5	33.0	9.5
Merged-chr4-128971263-4	chr4	128971162	128971362	+	951.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8807.0	NM_001301841	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	16.0	19.0	8.0	167.5	42.5	19.0	14.0	21.0
Merged-chr10-80678825-4	chr10	80678778	80678978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2585.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	11.0	21.0	6.5	212.0	27.0	13.5	13.5	14.5
Merged-chr7-140080904-2	chr7	140080804	140081004	+	900.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026769, intron 1 of 5)	intron (NM_026769, intron 1 of 5)	1397.0	NM_001190386	68566.0	Mm.44241	NM_026769	ENSMUSG00000025468	Caly	0710001P07Rik|1110004A22Rik|Calcyon|Drd1ip	calcyon neuron-specific vesicular protein	protein-coding	4.0	5.5	3.0	34.5	12.0	6.0	7.5	9.0
Merged-chr1-191880353-4	chr1	191880265	191880465	+	728.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26416.0	NM_009579	22782.0	Mm.9024	NM_009579	ENSMUSG00000037434	Slc30a1	AI839647|C130040I11Rik|Znt1	solute carrier family 30 (zinc transporter), member 1	protein-coding	6.0	7.0	16.5	117.5	1.0	1.5	8.0	8.5
Merged-chr13-98693620-4	chr13	98693517	98693717	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025606, intron 1 of 3)	intron (NM_001025606, intron 1 of 3)	1214.0	NM_001025606	380863.0	Mm.28264	NM_001025606	ENSMUSG00000052485	Tmem171	Gm905	transmembrane protein 171	protein-coding	20.0	58.5	15.5	259.0	81.5	19.5	21.0	13.0
Merged-chr10-118604149-3	chr10	118604057	118604257	+	739.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-47632.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	0.0	6.0	2.5	87.0	39.5	14.5	7.5	19.0
Merged-chr6-54960102-4	chr6	54959936	54960136	+	799.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	11625.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	3.0	7.5	6.5	98.0	29.0	15.5	4.5	19.0
Merged-chr14-51128972-4	chr14	51128872	51129072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030098)	promoter-TSS (NM_030098)	-65.0	NM_030098	78416.0	Mm.103835	NM_030098	ENSMUSG00000021880	Rnase6	9530043P15Rik|BB119466	ribonuclease, RNase A family, 6	protein-coding	92.0	98.5	78.0	1463.0	145.5	43.0	81.5	61.5
Merged-chr12-56429587-3	chr12	56429477	56429677	+	794.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83683.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	10.0	7.5	5.0	183.0	14.5	4.5	7.0	10.0
Merged-chr13-28953868-4	chr13	28953762	28953962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009238)	promoter-TSS (NM_009238)	-163.0	NM_009238	20677.0	Mm.240627	NM_009238	ENSMUSG00000076431	Sox4	AA682046|Sox-4	SRY (sex determining region Y)-box 4	protein-coding	64.0	95.0	52.0	1200.5	71.5	28.0	20.5	10.0
Merged-chr7-135520433-3	chr7	135520314	135520514	+	738.188904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178669, intron 1 of 2)	intron (NM_178669, intron 1 of 2)	8240.0	NM_178669	212070.0	Mm.39721	NM_178669	ENSMUSG00000050866	Clrn3	AI649392|Tmem12	clarin 3	protein-coding	16.0	13.5	16.0	102.0	11.0	5.0	10.5	9.5
Merged-chr11-70074865-4	chr11	70074749	70074949	+	918.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17795.0	NM_007493	11890.0	Mm.1357	NM_007493	ENSMUSG00000040963	Asgr2	ASGPR2|Asgr|Asgr-2|HL-2	asialoglycoprotein receptor 2	protein-coding	8.0	13.0	3.0	98.0	40.0	13.5	5.0	5.5
Merged-chr5-28037386-4	chr5	28037283	28037483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34029.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	161.5	257.5	204.0	2782.0	381.5	143.0	143.0	153.5
Merged-chr10-80797998-4	chr10	80797925	80798125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013651)	promoter-TSS (NM_013651)	601.0	NM_023900	78670.0	Mm.41479	NM_023900	ENSMUSG00000035278	Plekhj1	9530063M10Rik	pleckstrin homology domain containing, family J member 1	protein-coding	56.0	58.0	61.0	712.0	110.5	56.0	53.0	70.0
Merged-chr4-126162739-4	chr4	126162616	126162816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025856)	promoter-TSS (NM_025856)	-51.0	NM_025856	66938.0	Mm.29813	NM_025856	ENSMUSG00000073758	Sh3d21	1700029G01Rik|AU019788	SH3 domain containing 21	protein-coding	108.0	222.5	95.0	1145.5	302.5	122.0	98.5	56.5
Merged-chr10-112928945-4	chr10	112928836	112929036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033474)	promoter-TSS (NM_001033474)	90.0	NM_001033474	382423.0	Mm.431239	NM_001033474	ENSMUSG00000074748	Atxn7l3b	4921506J03Rik|6230409E21Rik|AI315132	ataxin 7-like 3B	protein-coding	132.0	178.0	202.0	2283.0	286.0	114.0	160.0	136.5
Merged-chr16-94488549-3	chr16	94488447	94488647	+	997.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38082.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	15.0	37.5	16.0	289.0	46.0	7.5	10.0	6.5
Merged-chr9-108726287-4	chr9	108726172	108726372	+	851.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008924, intron 4 of 10)	L1MA5|LINE|L1	34129.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	9.0	6.0	7.5	230.5	17.0	9.5	11.5	15.0
Merged-chr7-31110977-1	chr7	31110877	31111077	+	1000.0	f0_c57.idr	promoter-TSS (NM_001276269)	promoter-TSS (NM_001276269)	20.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	57.0	103.0	83.5	713.0	145.0	66.5	57.0	53.0
Merged-chr9-5344260-4	chr9	5344128	5344328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1248.0	NM_009808	12364.0	Mm.42163	NM_009808	ENSMUSG00000025887	Casp12	-	caspase 12	protein-coding	53.5	66.0	54.5	831.5	92.0	32.5	58.0	27.0
Merged-chr18-53744699-4	chr18	53744608	53744808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178686)	promoter-TSS (NM_178686)	-161.0	NM_178686	225523.0	Mm.193678	NM_178686	ENSMUSG00000048799	Cep120	A230075C01|AU016693|Ccdc100	centrosomal protein 120	protein-coding	176.5	312.0	151.0	2572.0	612.0	233.0	247.0	172.0
Merged-chr19-21441036-3	chr19	21440912	21441112	+	970.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_010266, intron 1 of 13)	L1MC4|LINE|L1	31649.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	4.5	13.5	16.5	202.5	37.0	8.0	21.0	16.5
Merged-chr11-3535970-2	chr11	3535870	3536070	+	845.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159284, intron 3 of 21)	CpG	3322.0	NM_013870	29856.0	Mm.188516	NM_013870	ENSMUSG00000020439	Smtn	smsmo	smoothelin	protein-coding	10.5	6.5	18.0	219.0	12.0	2.0	9.0	9.0
Merged-chr8-116921686-8	chr8	116921569	116921769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028131)	promoter-TSS (NM_028131)	-71.0	NM_028131	72155.0	Mm.23185	NM_028131	ENSMUSG00000031756	Cenpn	2610510J17Rik|AI426416|AW545024	centromere protein N	protein-coding	89.5	132.0	122.5	914.5	168.5	104.5	83.0	87.0
Merged-chr8-126583818-2	chr8	126583718	126583918	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9618.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	11.0	23.0	17.0	356.5	43.0	6.0	17.5	17.0
Merged-chr1-171561937-3	chr1	171561823	171562023	+	758.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018729, intron 1 of 8)	intron (NM_018729, intron 1 of 8)	2730.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	7.0	12.5	10.0	144.0	6.0	3.5	0.0	5.0
Merged-chr14-120244880-4	chr14	120244784	120244984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30785.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	23.0	28.0	33.5	525.0	50.5	9.0	26.0	23.0
Merged-chr1-143803747-4	chr1	143803628	143803828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019562, intron 10 of 10)	intron (NM_019562, intron 10 of 10)	26450.0	NM_019562	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	33.5	73.0	22.5	736.5	118.5	31.0	41.0	46.0
Merged-chr4-135973242-4	chr4	135973156	135973356	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011942)	promoter-TSS (NM_011942)	-662.0	NM_011942	26394.0	Mm.34302	NM_011942	ENSMUSG00000028670	Lypla2	LysoII	lysophospholipase 2	protein-coding	8.5	8.0	4.0	127.0	16.0	8.0	5.5	15.0
Merged-chr16-57177442-2	chr16	57177342	57177542	+	627.549988	f1_balb.idr|f1_c57bl6.idr	intron (NM_026254, intron 15 of 17)	intron (NM_026254, intron 15 of 17)	-10110.0	NM_023175	52633.0	Mm.383203	NM_023175	ENSMUSG00000022751	Nit2	1190017B19Rik|D16Ertd502e	nitrilase family, member 2	protein-coding	1.0	8.0	0.0	58.5	22.0	8.0	16.0	6.5
Merged-chr7-142967649-3	chr7	142967539	142967739	+	831.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008554, intron 2 of 2)	CpG	1625.0	NM_008554	17173.0	Mm.196417	NM_008554	ENSMUSG00000009248	Ascl2	2410083I15Rik|Mash2|bHLHa45	achaete-scute family bHLH transcription factor 2	protein-coding	8.0	14.5	3.5	54.0	28.5	5.5	13.0	9.0
Merged-chr5-102003560-4	chr5	102003373	102003573	+	980.107178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	66448.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	5.5	16.0	6.0	69.5	23.0	7.0	10.0	7.0
Merged-chr11-4521102-4	chr11	4521001	4521201	+	852.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 4 of 17)	intron (NM_028860, intron 4 of 17)	73714.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	10.5	6.0	13.0	172.5	30.5	5.0	10.0	11.0
Merged-chr6-142988931-4	chr6	142988833	142989033	+	799.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24481.0	NM_011374	20449.0	Mm.260838	NM_011374	ENSMUSG00000030283	St8sia1	9330109E03Rik|GD3S|Sia-T|Siat8|Siat8a	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 1	protein-coding	16.5	9.5	11.5	65.0	18.0	13.5	8.0	15.5
Merged-chr1-138267879-4	chr1	138267786	138267986	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5852.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	17.5	28.0	18.5	409.5	63.5	26.0	23.5	20.5
Merged-chr4-109665920-6	chr4	109665813	109666013	+	975.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007671)	promoter-TSS (NM_007671)	-541.0	NM_007671	12580.0	Mm.1912	NM_007671	ENSMUSG00000028551	Cdkn2c	C77269|INK4c|p18|p18-INK4c|p18-INK6|p18INK4c	cyclin dependent kinase inhibitor 2C	protein-coding	9.0	14.5	9.5	173.5	23.5	9.5	10.0	16.5
Merged-chr14-21048067-1	chr14	21047967	21048167	+	580.0	f0_balb.idr	intron (NM_018829, intron 1 of 8)	PB1|SINE|Alu	4375.0	NM_018829	55946.0	Mm.376269	NM_018829	ENSMUSG00000021824	Ap3m1	1200013D09Rik|C78982|R75378	adaptor-related protein complex 3, mu 1 subunit	protein-coding	2.5	8.0	2.0	135.5	10.0	5.5	5.0	4.5
Merged-chr17-57275224-4	chr17	57275154	57275354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3846.0	NM_001163816	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	29.0	39.5	21.0	462.5	48.0	25.5	27.5	30.0
Merged-chr17-29032588-4	chr17	29032504	29032704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013663)	promoter-TSS (NM_013663)	-56.0	NM_013663	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	98.0	194.5	95.0	1245.5	408.0	137.5	134.5	117.5
Merged-chr11-114933753-4	chr11	114933615	114933815	+	907.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199221, intron 1 of 3)	intron (NM_199221, intron 1 of 3)	671.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	4.5	7.5	13.0	144.0	22.0	7.0	9.0	15.0
Merged-chr15-34398874-1	chr15	34398774	34398974	+	792.0	f0_balb.idr	intron (NM_001358780, intron 6 of 18)	intron (NM_001358780, intron 6 of 18)	-41002.0	NM_001256161	77358.0	Mm.402759	NM_001256161	ENSMUSG00000094447	9430069I07Rik	-	RIKEN cDNA 9430069I07 gene	protein-coding	10.5	7.0	4.5	148.5	1.0	0.0	0.0	1.0
Merged-chr7-139296465-4	chr7	139296325	139296525	+	762.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47943.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	9.0	5.5	7.0	93.5	23.0	13.0	11.0	15.0
Merged-chr5-123138353-4	chr5	123138239	123138439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3854.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	17.0	53.0	41.0	281.5	62.0	36.0	21.0	33.5
Merged-chr18-61177129-4	chr18	61177044	61177244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178277)	promoter-TSS (NM_178277)	-94.0	NM_134134	106894.0	Mm.22574	NM_134134	ENSMUSG00000024622	Hmgxb3	2510002C16Rik|A630042L21Rik|AI413166|mKIAA0194	HMG box domain containing 3	protein-coding	89.5	120.5	60.0	1032.0	157.5	46.5	50.0	58.5
Merged-chr2-104105436-3	chr2	104105342	104105542	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007652, intron 2 of 3)	intron (NM_007652, intron 2 of 3)	9641.0	NM_001111060	12509.0	Mm.247265	NM_007652	ENSMUSG00000032679	Cd59a	AA987121|Cd59|protectin	CD59a antigen	protein-coding	10.0	20.0	13.0	120.5	18.0	4.5	5.5	5.5
Merged-chr7-105554347-4	chr7	105554242	105554442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011421)	promoter-TSS (NM_011421)	-18.0	NM_011421	20597.0	Mm.4628	NM_011421	ENSMUSG00000037049	Smpd1	A-SMase|ASM|Zn-SMase|aSMase	sphingomyelin phosphodiesterase 1, acid lysosomal	protein-coding	81.5	118.0	82.0	1641.5	180.0	71.5	103.5	94.5
Merged-chr1-85986984-4	chr1	85986901	85987101	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25946.0	NM_001033290	227326.0	Mm.244158	NM_001033290	ENSMUSG00000049608	Gpr55	CTFL|Gm218|Lpir1	G protein-coupled receptor 55	protein-coding	15.5	26.5	7.5	110.5	74.0	31.0	36.5	42.0
Merged-chr4-3779534-2	chr4	3779434	3779634	+	846.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 10 of 12)	intron (NM_001111096, intron 10 of 12)	56121.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	7.5	7.5	6.5	35.5	13.5	5.0	7.0	6.5
Merged-chr8-122898505-5	chr8	122898360	122898560	+	890.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 7 of 12)	intron (NM_001081379, intron 7 of 12)	50086.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	8.5	13.5	4.5	177.0	12.5	9.5	7.5	17.5
Merged-chr1-34465669-4	chr1	34465578	34465778	+	826.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 5 of 14)	intron (NM_011206, intron 5 of 14)	5932.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	1.5	5.0	7.5	47.5	20.0	5.5	10.5	13.0
Merged-chr2-156730653-4	chr2	156730546	156730746	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042487, intron 1 of 6)	intron (NM_001042487, intron 1 of 6)	9367.0	NM_001042487	228836.0	Mm.22094	NM_146128	ENSMUSG00000061689	Dlgap4	AI225853|BC024558|DAP-4|DAP4|SAPAP-4|Sapap4|WBP16	DLG associated protein 4	protein-coding	21.0	45.5	26.0	311.5	73.5	22.5	20.0	26.5
Merged-chr10-78228385-3	chr10	78228284	78228484	+	752.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081055, intron 3 of 22)	intron (NM_001081055, intron 3 of 22)	16258.0	NM_001081055	216131.0	Mm.27539	NM_001081055	ENSMUSG00000000374	Trappc10	B230307C21Rik|Gm870|Tmem1|b2b2416Clo|b2b2613Clo	trafficking protein particle complex 10	protein-coding	6.5	12.5	5.0	145.5	14.5	3.5	4.5	6.0
Merged-chr2-84890082-4	chr2	84889956	84890156	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3364.0	NM_199223	269295.0	Mm.86447	NM_199223	ENSMUSG00000050896	Rtn4rl2	Ngr2|Ngrh1|Ngrl3	reticulon 4 receptor-like 2	protein-coding	17.0	29.5	18.0	329.0	41.0	9.0	17.0	25.5
Merged-chr7-45592002-4	chr7	45591894	45592094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-16818.0	NR_038165	71661.0	Mm.439894	NR_038165	ENSMUSG00000109644	0610005C13Rik	AI182092	RIKEN cDNA 0610005C13 gene	ncRNA	195.5	261.0	93.0	789.5	418.0	132.0	144.5	108.5
Merged-chr7-16999877-4	chr7	16999788	16999988	+	870.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5300.0	NM_001101535	434130.0	Mm.459162	NM_001101535	ENSMUSG00000041117	Ccdc8	-	coiled-coil domain containing 8	protein-coding	5.0	14.5	8.5	73.5	40.5	8.0	16.5	20.0
Merged-chr1-58711144-2	chr1	58711044	58711244	+	727.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289704)	promoter-TSS (NM_001289704)	-347.0	NR_149257	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	6.5	4.5	4.5	28.0	10.0	6.0	2.5	4.5
Merged-chr3-137975667-1	chr3	137975567	137975767	+	578.0	f0_balb.idr	intron (NM_011932, intron 1 of 8)	intron (NM_011932, intron 1 of 8)	5882.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	4.5	10.0	4.5	74.0	9.5	3.0	3.5	11.0
Merged-chr8-117050956-4	chr8	117050873	117051073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 16 of 42)	intron (NM_029686, intron 16 of 42)	31476.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	69.5	85.0	39.5	992.0	150.5	50.0	70.0	41.0
Merged-chr8-98996219-4	chr8	98996195	98996395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15592.0	NR_110579	100873092.0	Mm.414599	NR_110579	ENSMUSG00000089819	Gm15679	-	predicted gene 15679	ncRNA	32.0	36.5	46.0	840.5	55.0	16.0	14.0	15.0
Merged-chr5-93128077-4	chr5	93127970	93128170	+	982.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 1 of 9)	intron (NM_001009818, intron 1 of 9)	34654.0	NM_001347377	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	20.5	21.0	21.5	394.5	42.0	16.5	19.0	16.5
Merged-chr4-141147540-4	chr4	141147442	141147642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172518)	promoter-TSS (NM_172518)	-380.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	50.0	69.5	43.5	651.5	155.5	71.0	55.5	60.0
Merged-chr1-74364432-3	chr1	74364315	74364515	+	966.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033345, intron 5 of 9)	intron (NM_001033345, intron 5 of 9)	2307.0	NM_001033345	241112.0	Mm.310460	NM_001033345	ENSMUSG00000073650	Catip	Gm216	ciliogenesis associated TTC17 interacting protein	protein-coding	11.5	9.0	5.5	117.5	5.5	4.0	6.5	9.5
Merged-chr2-120970691-4	chr2	120970577	120970777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009461)	promoter-TSS (NM_009461)	38.0	NM_009461	22222.0	Mm.389330	NM_009461	ENSMUSG00000027272	Ubr1	AI504731	ubiquitin protein ligase E3 component n-recognin 1	protein-coding	30.0	58.5	31.5	287.5	78.5	28.5	23.5	24.0
Merged-chr6-91617397-4	chr6	91617280	91617480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	-66687.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	46.5	55.5	40.5	948.0	107.5	37.5	68.0	42.5
Merged-chr1-58669864-4	chr1	58669737	58669937	+	935.1375119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347056, intron 7 of 13)	intron (NM_001347056, intron 7 of 13)	17196.0	NR_045007	100504501.0	Mm.440933	NR_045007	ENSMUSG00000102059	Gm20257	-	caspase 8 pseudogene	pseudo	11.0	25.0	23.0	146.0	39.0	13.0	12.0	16.5
Merged-chr15-25680886-4	chr15	25680786	25680986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 2 of 40)	ORR1D2|LTR|ERVL-MaLR	58336.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	26.5	65.0	76.0	994.5	96.0	19.5	45.0	42.5
Merged-chr10-20505655-4	chr10	20505567	20505767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	intron (NM_013875, intron 2 of 12)	42661.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	110.0	183.5	138.0	1989.0	193.5	65.5	79.5	77.5
Merged-chr15-101223194-4	chr15	101223059	101223259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045328, intron 2 of 2)	MIR|SINE|MIR	962.0	NR_045326	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	31.0	29.0	24.0	570.0	107.5	24.5	22.0	40.5
Merged-chr3-40525532-4	chr3	40525438	40525638	+	874.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-2626.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	7.0	21.5	1.0	101.0	27.5	10.0	7.5	6.5
Merged-chr8-119824252-4	chr8	119824154	119824354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	16325.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	54.0	37.0	22.5	672.5	60.5	25.5	45.0	35.0
Merged-chr19-47510808-4	chr19	47510705	47510905	+	866.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175360, intron 7 of 9)	intron (NM_175360, intron 7 of 9)	-2177.0	NR_045322	100503104.0	Mm.442735	NR_045322	ENSMUSG00000097990	Gm19557	-	predicted gene, 19557	ncRNA	6.0	7.0	9.0	42.5	6.5	5.0	7.0	8.5
Merged-chr3-108258092-3	chr3	108257994	108258194	+	903.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011967, intron 1 of 8)	intron (NM_011967, intron 1 of 8)	1168.0	NM_011967	26442.0	Mm.208883	NM_011967	ENSMUSG00000068749	Psma5	ZETA	proteasome (prosome, macropain) subunit, alpha type 5	protein-coding	6.5	8.0	11.5	27.0	32.5	7.5	10.0	24.5
Merged-chr2-178023199-4	chr2	178023138	178023338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177400)	promoter-TSS (NM_001177400)	-46.0	NM_001177400	626848.0	Mm.422604	NM_001177399	ENSMUSG00000074519	Zfp971	Etohi1	zinc finger protein 971	protein-coding	45.5	43.5	42.0	465.5	166.0	50.5	71.5	70.0
Merged-chr4-99182865-3	chr4	99182793	99182993	+	995.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11041.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	3.5	7.5	8.0	101.0	36.0	8.0	7.5	5.0
Merged-chr5-32194494-4	chr5	32194389	32194589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER121|DNA|TcMar?	-38219.0	NM_030072	665270.0	Mm.160067	NM_030072	ENSMUSG00000029134	Plb1	4632413E21Rik|4930433E17Rik|4930539A06Rik|BC033606	phospholipase B1	protein-coding	41.5	54.5	49.0	369.5	92.5	39.0	35.5	40.0
Merged-chr16-78576111-4	chr16	78575999	78576199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252440, intron 1 of 4)	intron (NM_001252440, intron 1 of 4)	589.0	NM_001252438	67102.0	Mm.37332	NM_025967	ENSMUSG00000022864	D16Ertd472e	1700010I10Rik|2310009O17Rik|E330003K22Rik|Eurl	DNA segment, Chr 16, ERATO Doi 472, expressed	protein-coding	25.0	44.5	28.5	267.0	83.5	37.0	27.5	42.5
Merged-chr19-6996155-4	chr19	6996060	6996260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027351)	promoter-TSS (NR_027351)	29.0	NR_027351	107328.0	Mm.391161	NM_153597	ENSMUSG00000047656	Trpt1	AU079016|AW045591|Tpt1|Tpt1h	tRNA phosphotransferase 1	protein-coding	48.0	58.5	32.0	638.0	125.5	39.0	59.0	23.5
Merged-chr6-42391461-4	chr6	42391367	42391567	+	805.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C1_MM|LTR|ERVK	-8771.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	8.0	15.5	6.0	224.0	44.5	9.0	11.0	10.5
Merged-chr10-4675161-3	chr10	4675062	4675262	+	816.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126357, intron 2 of 7)	intron (NR_126357, intron 2 of 7)	-34996.0	NM_001302531	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	8.0	6.5	9.5	166.0	5.0	1.0	4.5	8.5
Merged-chr2-165402124-4	chr2	165402006	165402206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1712.0	NM_029021	74614.0	Mm.72179	NM_029021	ENSMUSG00000027670	Ocstamp	4833422F24Rik|OC-STAMP	osteoclast stimulatory transmembrane protein	protein-coding	111.0	169.5	134.0	1861.0	277.0	109.0	79.0	83.5
Merged-chr17-56814532-4	chr17	56814439	56814639	+	990.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009056, intron 1 of 16)	intron (NM_009056, intron 1 of 16)	16469.0	NM_009056	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	13.0	51.5	17.5	410.5	139.5	55.5	46.5	52.5
Merged-chr4-150013770-8	chr4	150013592	150013792	+	985.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-4669.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	11.5	18.0	13.5	132.0	46.0	16.0	29.5	23.0
Merged-chr17-5711547-4	chr17	5711460	5711660	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 3 of 8)	intron (NM_146073, intron 3 of 8)	-87097.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	22.0	40.0	19.0	403.5	42.0	14.0	23.5	42.0
Merged-chr10-10459348-4	chr10	10459242	10459442	+	966.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	intron (NM_001127353, intron 1 of 36)	12972.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	15.0	20.0	17.0	423.5	34.0	13.5	18.0	26.0
Merged-chr1-51517606-3	chr1	51517557	51517757	+	765.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151621, intron 3 of 3)	intron (NR_151621, intron 3 of 3)	-39258.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	7.5	10.5	7.5	181.0	16.5	1.0	4.0	3.0
Merged-chr15-5243708-3	chr15	5243606	5243806	+	690.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008965, exon 1 of 3)	5' UTR (NM_008965, exon 1 of 3)	481.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	5.5	12.0	9.5	85.0	13.5	10.5	8.0	5.0
Merged-chr12-85703638-4	chr12	85703523	85703723	+	687.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 2 of 2)	intron (NM_016767, intron 2 of 2)	16903.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	12.0	4.5	4.5	76.5	37.5	8.0	16.5	5.0
Merged-chr9-65215139-4	chr9	65215024	65215224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177460, intron 1 of 6)	intron (NM_177460, intron 1 of 6)	434.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	61.0	62.0	70.5	763.0	102.0	28.5	41.0	36.0
Merged-chr6-125149421-3	chr6	125149327	125149527	+	929.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039669, intron 1 of 9)	intron (NM_001039669, intron 1 of 9)	4203.0	NM_001302779	320678.0	Mm.129415	NM_178787	ENSMUSG00000038271	Iffo1	4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo	intermediate filament family orphan 1	protein-coding	15.5	15.0	7.5	132.5	10.5	1.5	3.0	7.5
Merged-chr5-91139605-3	chr5	91139505	91139705	+	988.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009704)	promoter-TSS (NM_009704)	6.0	NM_009704	11839.0	Mm.8039	NM_009704	ENSMUSG00000029378	Areg	AR|Mcub|Sdgf	amphiregulin	protein-coding	8.5	36.5	31.0	164.0	11.5	6.5	7.0	8.5
Merged-chr15-73675627-4	chr15	73675513	73675713	+	894.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31892.0	NM_173365	239530.0	Mm.122997	NM_173365	ENSMUSG00000045281	Gpr20	A430106B11Rik	G protein-coupled receptor 20	protein-coding	10.5	14.5	17.0	261.5	23.5	3.0	8.5	12.5
Merged-chr3-121104988-4	chr3	121104884	121105084	+	899.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66711.0	NM_028456	66568.0	Mm.263163	NM_025637	ENSMUSG00000028133	Rwdd3	2510027J23Rik|3110037C01Rik|AI035684|AI662458|Rsume|X2CR1	RWD domain containing 3	protein-coding	8.0	7.5	21.5	288.0	27.0	6.0	15.5	15.5
Merged-chr13-113623062-4	chr13	113622885	113623085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4421.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	53.0	62.5	60.0	758.0	129.5	41.5	68.5	68.0
Merged-chr1-58745026-6	chr1	58744940	58745140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 7 of 8)	intron (NM_001355056, intron 7 of 8)	14488.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	41.0	107.0	54.5	589.0	106.0	32.0	23.0	25.5
Merged-chr5-117158785-4	chr5	117158686	117158886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	25198.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	135.5	252.5	178.0	2491.5	428.5	159.0	160.0	148.5
Merged-chr15-25764948-3	chr15	25764879	25765079	+	888.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001353142, intron 1 of 20)	intron (NM_001353142, intron 1 of 20)	-9034.0	NM_001353141	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	4.5	6.5	5.0	108.0	5.0	5.0	1.0	2.0
Merged-chr17-57332485-4	chr17	57332390	57332590	+	835.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-26196.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	15.0	14.5	5.5	77.5	28.0	7.5	13.5	6.0
Merged-chr5-122050567-4	chr5	122050472	122050672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312908)	promoter-TSS (NM_001312908)	-721.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	15.5	56.5	21.5	368.5	63.0	23.5	27.5	23.5
Merged-chr13-42528353-4	chr13	42528246	42528446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-152453.0	NM_001302635	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	99.0	173.5	157.5	1931.0	295.5	103.0	142.5	143.5
Merged-chr3-95672987-2	chr3	95672887	95673087	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14266.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	14.5	11.5	5.0	53.5	24.5	8.0	6.0	7.0
Merged-chr2-166733101-4	chr2	166733007	166733207	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19275.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	33.0	53.0	25.0	418.0	44.5	21.5	24.5	18.5
Merged-chr10-42276785-4	chr10	42276688	42276888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019740)	promoter-TSS (NM_019740)	-46.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	151.5	284.5	159.5	3179.0	505.0	178.5	222.5	173.5
Merged-chr1-39577497-4	chr1	39577396	39577596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033135)	promoter-TSS (NM_001033135)	-149.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	235.0	442.0	340.0	3494.0	577.5	248.5	319.5	218.5
Merged-chr9-78532666-4	chr9	78532550	78532750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50926.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	63.5	64.0	36.5	867.0	124.5	44.0	48.0	76.5
Merged-chr3-52019811-4	chr3	52019734	52019934	+	857.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	85172.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	7.0	11.5	13.5	216.5	36.5	5.5	22.5	14.0
Merged-chr1-105199532-3	chr1	105199425	105199625	+	870.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-156482.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	6.0	2.0	5.5	97.0	15.5	9.5	13.0	12.0
Merged-chr2-14073981-4	chr2	14073845	14074045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038162)	promoter-TSS (NR_038162)	-11.0	NR_038162	70957.0	Mm.399049	NR_038162	ENSMUSG00000086657	Stamos	4921530L18Rik	signal transducing adaptor molecule (SH3 domain and ITAM motif) 1, opposite strand	ncRNA	43.5	102.5	85.5	777.0	99.5	73.5	60.5	69.0
Merged-chr14-31336568-4	chr14	31336441	31336641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360187)	promoter-TSS (NM_001360187)	-97.0	NM_001360187	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	166.5	285.5	170.5	2396.5	345.0	130.5	154.5	116.5
Merged-chr10-59636887-4	chr10	59636778	59636978	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20186.0	NM_001033259	215999.0	Mm.296470	NM_001033259	ENSMUSG00000009647	Mcu	2010012O16Rik|AV064928|C10orf42|Ccdc109a|D130073L02Rik|Gm64	mitochondrial calcium uniporter	protein-coding	33.5	36.5	14.5	460.0	85.5	15.0	31.0	25.5
Merged-chr5-3362188-4	chr5	3362074	3362274	+	950.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	18281.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	19.5	15.5	24.5	297.5	38.5	11.0	12.0	25.5
Merged-chr12-71808248-4	chr12	71808128	71808328	+	814.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22840.0	NM_026102	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	15.5	23.5	6.5	130.0	28.5	10.0	13.0	15.0
Merged-chr17-26451775-3	chr17	26451689	26451889	+	776.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36824.0	NM_001081656	240055.0	Mm.133211	NM_001081656	ENSMUSG00000034413	Neurl1b	C230078M08Rik|EG240055	neuralized E3 ubiquitin protein ligase 1B	protein-coding	0.5	10.5	2.5	63.5	24.5	11.5	8.5	10.0
Merged-chr4-149666087-3	chr4	149665985	149666185	+	968.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 2 of 23)	ID_B1|SINE|B4	-2769.0	NM_001164052	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	22.0	11.0	4.5	153.0	24.0	16.0	7.0	8.0
Merged-chr3-144401413-3	chr3	144401294	144401494	+	815.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168822.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	6.5	6.0	5.5	124.5	10.0	4.5	5.0	9.5
Merged-chr14-60990284-4	chr14	60990188	60990388	+	988.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013869, intron 5 of 9)	intron (NM_013869, intron 5 of 9)	47699.0	NM_001164155	29820.0	Mm.281356	NM_013869	ENSMUSG00000060548	Tnfrsf19	AL023044|AW123854|TAJ|TAJ-ALPHA|TRADE|Troy	tumor necrosis factor receptor superfamily, member 19	protein-coding	16.0	8.0	22.0	508.0	58.0	35.0	63.0	43.5
Merged-chr9-55255869-4	chr9	55255758	55255958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	LTR37-int|LTR|ERV1	27767.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	51.0	89.5	94.0	916.5	68.0	32.0	24.5	31.0
Merged-chr6-38871191-4	chr6	38871006	38871206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 1 of 14)	intron (NM_010433, intron 1 of 14)	5084.0	NM_010433	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	23.0	38.0	32.0	385.0	77.0	23.0	33.0	36.5
Merged-chr8-109596002-2	chr8	109595902	109596102	+	796.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_020046, intron 5 of 8)	intron (NM_020046, intron 5 of 8)	12671.0	NM_020046	56749.0	Mm.23894	NM_020046	ENSMUSG00000031730	Dhodh	2810417D19Rik|AI834883	dihydroorotate dehydrogenase	protein-coding	6.5	6.0	5.5	49.0	18.5	7.0	6.0	9.5
Merged-chr5-90413462-1	chr5	90413362	90413562	+	595.0	f0_balb.idr	Intergenic	Lx6|LINE|L1	46465.0	NR_045618	791294.0	Mm.30508	NR_045618	ENSMUSG00000054945	Gm9958	-	predicted gene 9958	ncRNA	5.5	9.5	6.0	56.0	22.5	4.0	4.5	6.0
Merged-chr6-146796061-4	chr6	146795979	146796179	+	856.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9451.0	NM_001289680	272322.0	Mm.333500	NM_172309	ENSMUSG00000040187	Arntl2	4632430A05Rik|BMAL2|CLIF|MOP9|bHLHe6	aryl hydrocarbon receptor nuclear translocator-like 2	protein-coding	6.5	7.5	13.5	145.5	12.5	8.0	9.5	19.5
Merged-chr4-46451576-4	chr4	46451464	46451664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130889, intron 1 of 6)	CpG	638.0	NM_130889	67628.0	Mm.263913	NM_130889	ENSMUSG00000028333	Anp32b	2410015B15Rik|PAL31|PHAPI2a|Ssp29	acidic (leucine-rich) nuclear phosphoprotein 32 family, member B	protein-coding	21.5	32.5	18.5	251.5	54.5	22.5	29.5	36.5
Merged-chr9-50462557-4	chr9	50462449	50462649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31976.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	43.5	50.5	26.5	482.5	74.0	30.0	53.0	42.5
Merged-chr10-81575311-2	chr10	81575211	81575411	+	739.333313	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252401)	promoter-TSS (NM_001252401)	24.0	NM_001252401	21886.0	Mm.38608	NM_019725	ENSMUSG00000034771	Tle2	Grg2|mKIAA4188	transducin-like enhancer of split 2	protein-coding	2.5	2.5	13.5	91.5	14.5	5.5	13.5	7.5
Merged-chr14-33194421-4	chr14	33194338	33194538	+	960.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9372.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	15.5	26.0	27.0	343.5	41.0	12.5	14.0	19.0
Merged-chr5-115300339-4	chr5	115300302	115300502	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131932)	promoter-TSS (NR_131932)	588.0	NM_019682	56455.0	Mm.256858	NM_019682	ENSMUSG00000009013	Dynll1	Dlc8|Dnclc1|Pin	dynein light chain LC8-type 1	protein-coding	9.5	25.0	14.0	155.5	38.0	12.5	15.5	26.5
Merged-chr8-4193466-4	chr8	4193368	4193568	+	946.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346730, intron 10 of 19)	intron (NM_001346730, intron 10 of 19)	23844.0	NM_207203	73072.0	Mm.477379	NM_207203	ENSMUSG00000064125	Prr36	-	proline rich 36	protein-coding	9.5	16.0	19.0	258.5	55.0	24.0	38.0	13.0
Merged-chr7-127761206-3	chr7	127761123	127761323	+	891.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172748, intron 7 of 10)	intron (NM_172748, intron 7 of 10)	-8592.0	NM_198424	269999.0	Mm.36852	NM_198424	ENSMUSG00000043964	Orai3	9930124N15|BC061259|Tmem142c	ORAI calcium release-activated calcium modulator 3	protein-coding	6.5	8.0	6.0	26.5	24.5	12.5	14.5	6.0
Merged-chr3-123386982-3	chr3	123386872	123387072	+	877.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201638)	promoter-TSS (NM_201638)	-982.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	2.0	4.0	1.5	19.5	25.0	12.5	5.0	9.5
Merged-chr7-4724537-4	chr7	4724438	4724638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142792, intron 1 of 5)	intron (NM_001142792, intron 1 of 5)	544.0	NM_001142792	330460.0	Mm.361851	NM_177887	ENSMUSG00000046456	Tmem150b	A630041N19|Tmem224	transmembrane protein 150B	protein-coding	72.5	112.5	113.0	1509.5	184.0	63.0	90.0	93.5
Merged-chr5-104023711-4	chr5	104023608	104023808	+	930.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1912.0	NM_053262	114664.0	Mm.46019	NM_053262	ENSMUSG00000029311	Hsd17b11	Dhrs8|Pan1b|SDR2|retSDR2	hydroxysteroid (17-beta) dehydrogenase 11	protein-coding	16.0	20.0	6.5	179.0	55.0	19.0	14.5	13.5
Merged-chr16-18413202-4	chr16	18413113	18413313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007744, intron 1 of 4)	intron (NM_007744, intron 1 of 4)	281.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	57.5	44.0	70.5	1219.0	105.5	36.0	46.0	74.5
Merged-chr5-105699941-4	chr5	105699843	105700043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178701)	promoter-TSS (NM_178701)	-26.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	125.5	163.0	87.5	1994.0	286.5	108.0	147.5	63.0
Merged-chr16-91717160-4	chr16	91717044	91717244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026994, intron 2 of 11)	MTE2a|LTR|ERVL-MaLR	11658.0	NM_026994	66609.0	Mm.109823	NM_026994	ENSMUSG00000058240	Cryzl1	2210407J23Rik|2410006O11Rik|QOH-1	crystallin, zeta (quinone reductase)-like 1	protein-coding	33.0	38.5	17.5	618.5	72.0	24.5	33.5	32.0
Merged-chr19-23140254-4	chr19	23140156	23140356	+	858.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010638)	promoter-TSS (NM_010638)	-970.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	12.5	22.5	3.5	142.0	18.0	5.0	14.5	8.5
Merged-chr4-40777334-7	chr4	40777242	40777442	+	896.904785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19457.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	8.5	17.0	3.5	88.5	31.5	12.5	7.5	8.0
Merged-chr11-98917673-4	chr11	98917589	98917789	+	947.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025779, intron 9 of 11)	intron (NM_001025779, intron 9 of 11)	9538.0	NM_011799	23834.0	Mm.20912	NM_011799	ENSMUSG00000017499	Cdc6	CDC18L	cell division cycle 6	protein-coding	10.0	16.5	12.5	196.0	35.0	9.5	4.0	10.5
Merged-chr11-77983709-4	chr11	77983616	77983816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174852, intron 1 of 14)	intron (NM_174852, intron 1 of 14)	900.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	30.5	43.0	19.0	247.5	72.5	17.0	36.0	25.5
Merged-chr14-75010563-3	chr14	75010452	75010652	+	900.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 3 of 3)	intron (NR_030568, intron 3 of 3)	-5475.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	8.5	15.5	20.5	230.5	22.5	8.0	6.5	18.5
Merged-chr17-56626365-2	chr17	56626265	56626465	+	768.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357897)	promoter-TSS (NM_001357897)	538.0	NM_028782	74142.0	Mm.329136	NM_028782	ENSMUSG00000041168	Lonp1	1200017E13Rik|LON|Prss15	lon peptidase 1, mitochondrial	protein-coding	5.5	5.0	8.0	56.0	14.0	3.0	4.5	10.5
Merged-chr5-137307689-4	chr5	137307553	137307753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031405)	promoter-TSS (NM_031405)	21.0	NM_031405	83701.0	Mm.387734	NM_031405	ENSMUSG00000037364	Srrt	2810019G02Rik|ASR2A|ASR2B|ASR2C|ASR2D|Ars2|Asr2	serrate RNA effector molecule homolog (Arabidopsis)	protein-coding	61.0	96.5	47.5	740.5	92.0	49.0	34.5	36.0
Merged-chr13-45371831-4	chr13	45371724	45371924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17918.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	89.5	153.5	95.0	1165.0	230.5	69.5	74.0	95.0
Merged-chr17-46904036-4	chr17	46903942	46904142	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6443.0	NM_008938	19133.0	Mm.291370	NM_008938	ENSMUSG00000023978	Prph2	AOFMD|AVMD|Nmf193|PRPH|RP7|Rd-2|Rd2|Rds|Tspan22|rds	peripherin 2	protein-coding	22.5	33.5	14.0	402.5	61.0	26.0	36.0	31.5
Merged-chr13-64120969-3	chr13	64120879	64121079	+	837.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001321, intron 2 of 11)	intron (NM_001001321, intron 2 of 11)	8351.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	2.5	12.5	6.5	66.0	14.0	4.5	12.5	10.5
Merged-chr1-177236918-4	chr1	177236822	177237022	+	925.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	B3|SINE|B2	11845.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	36.5	73.5	24.5	302.0	35.5	8.5	15.5	14.5
Merged-chr3-108840278-1	chr3	108840178	108840378	+	1000.0	f0_c57.idr	intron (NM_011504, intron 1 of 18)	CpG	224.0	NM_011504	20912.0	Mm.316894	NM_011504	ENSMUSG00000027882	Stxbp3	Munc-18c|Stxbp3a|Sxtbp3|Unc18-3	syntaxin binding protein 3	protein-coding	40.5	38.5	41.0	572.5	98.0	67.5	50.0	54.0
Merged-chr1-135753111-4	chr1	135753017	135753217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_153810)	TTS (NR_153810)	-12968.0	NM_013750	27280.0	Mm.34346	NM_013750	ENSMUSG00000041801	Phlda3	Tih1	pleckstrin homology like domain, family A, member 3	protein-coding	45.5	84.5	46.5	753.5	151.5	60.0	92.0	56.5
Merged-chr12-76540335-4	chr12	76540234	76540434	+	975.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	6774.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	27.5	25.0	37.0	296.0	72.5	10.5	14.0	24.5
Merged-chr10-80158527-4	chr10	80158424	80158624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021565)	TTS (NM_021565)	8842.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	119.0	179.5	92.0	1379.0	245.5	74.0	93.5	85.5
Merged-chr13-119366362-3	chr13	119366269	119366469	+	947.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008710, exon 12 of 17)	exon (NM_008710, exon 12 of 17)	42642.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	0.0	2.0	5.5	126.5	33.0	8.5	18.5	13.0
Merged-chr11-100320493-4	chr11	100320387	100320587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011508, intron 1 of 3)	CpG	538.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	181.5	335.0	199.0	2555.5	481.5	221.5	229.0	229.5
Merged-chr1-58393042-4	chr1	58392951	58393151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025824)	promoter-TSS (NM_025824)	-85.0	NM_025824	66882.0	Mm.21848	NM_025824	ENSMUSG00000051223	Bzw1	1200015E15Rik|mKIAA0005	basic leucine zipper and W2 domains 1	protein-coding	81.5	119.5	88.0	1266.5	231.5	123.5	98.5	130.5
Merged-chr7-107668734-4	chr7	107668640	107668840	+	959.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357437, intron 1 of 23)	intron (NM_001357437, intron 1 of 23)	3262.0	NM_001357436	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	16.0	29.5	14.5	508.0	41.5	6.5	15.5	13.5
Merged-chr8-46617303-4	chr8	46617189	46617389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009810)	promoter-TSS (NM_009810)	-2.0	NM_001284409	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	128.5	197.5	114.5	1983.5	334.5	103.0	180.0	133.0
Merged-chr5-136253067-3	chr5	136252960	136253160	+	871.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291238, intron 18 of 22)	intron (NM_001291238, intron 18 of 22)	-8120.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	9.0	12.0	2.0	64.0	13.5	4.5	7.0	15.0
Merged-chr10-80151903-4	chr10	80151805	80152005	+	976.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347117, intron 4 of 7)	intron (NM_001347117, intron 4 of 7)	2223.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	21.5	28.5	13.5	269.5	63.0	14.5	11.0	16.0
Merged-chr13-81351210-3	chr13	81351109	81351309	+	871.3777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	Lx9|LINE|L1	281935.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	19.5	17.5	12.0	194.0	19.5	9.5	9.0	11.0
Merged-chr8-61558860-4	chr8	61558748	61558948	+	890.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	32321.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	8.5	23.0	6.5	188.5	42.0	7.0	9.5	15.0
Merged-chr9-21220673-4	chr9	21220563	21220763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18669.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	83.5	107.0	59.5	1097.0	206.5	66.5	77.0	64.0
Merged-chr13-37432914-3	chr13	37432838	37433038	+	814.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87593.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	8.0	10.0	5.0	109.5	1.0	9.0	8.0	8.0
Merged-chr2-166774677-2	chr2	166774579	166774779	+	895.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19088.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	6.0	5.5	4.5	32.5	7.5	2.0	7.0	8.5
Merged-chr9-20642622-4	chr9	20642485	20642685	+	967.0238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153857)	promoter-TSS (NR_153857)	-132.0	NM_001361025	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	15.0	13.0	8.0	156.5	49.5	11.5	16.5	15.0
Merged-chr2-91002297-3	chr2	91002202	91002402	+	913.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198683, intron 4 of 13)	intron (NM_198683, intron 4 of 13)	-33325.0	NM_009023	19400.0	Mm.1272	NM_009023	ENSMUSG00000002104	Rapsn	43kDa|Nraps|Raps|rapsyn	receptor-associated protein of the synapse	protein-coding	14.5	14.5	17.0	239.0	11.5	11.5	1.5	7.5
Merged-chr11-102946773-4	chr11	102946694	102946894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011795)	promoter-TSS (NM_011795)	-333.0	NM_011795	23829.0	Mm.57154	NM_011795	ENSMUSG00000045532	C1ql1	C1qrf|CRF|CTRP14|gliacolin	complement component 1, q subcomponent-like 1	protein-coding	20.0	46.5	45.0	405.5	123.5	30.5	28.5	27.5
Merged-chr17-88349384-3	chr17	88349317	88349517	+	872.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-91287.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	4.5	13.0	8.5	113.0	7.0	1.5	6.0	1.5
Merged-chr9-99171358-4	chr9	99171266	99171466	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31155.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	14.0	18.5	14.0	242.0	47.5	8.0	24.5	23.5
Merged-chr8-26976050-4	chr8	26975952	26976152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1284.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	53.0	60.5	39.0	536.5	107.0	28.5	46.5	37.0
Merged-chr11-74832297-4	chr11	74832198	74832398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010813, intron 1 of 5)	CpG-2219	1374.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	310.5	560.5	294.0	3813.0	673.5	263.0	336.0	323.5
Merged-chr14-31462431-4	chr14	31462354	31462554	+	730.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-26354.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	9.0	23.0	12.5	27.5	28.0	6.0	2.0	13.5
Merged-chr13-45971302-4	chr13	45971206	45971406	+	960.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6315.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	19.0	21.0	10.0	256.0	49.0	7.0	16.0	17.5
Merged-chr1-164405604-4	chr1	164405506	164405706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138314, intron 13 of 13)	intron (NM_138314, intron 13 of 13)	52749.0	NM_009721	11931.0	Mm.4550	NM_009721	ENSMUSG00000026576	Atp1b1	Atp4b|Atpb|Atpb-1|NKbeta1	ATPase, Na+/K+ transporting, beta 1 polypeptide	protein-coding	26.0	26.0	53.5	1205.0	78.0	30.5	51.0	50.5
Merged-chr6-129232376-1	chr6	129232276	129232476	+	1000.0	f1_c57bl6.idr	TTS (NR_040265)	TTS (NR_040265)	5669.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	5.5	14.5	5.5	43.0	16.0	2.5	5.0	7.0
Merged-chr11-116413806-4	chr11	116413726	116413926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027258)	promoter-TSS (NM_027258)	-794.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	19.5	32.5	26.0	149.5	84.5	26.0	22.0	17.0
Merged-chr19-53128671-4	chr19	53128556	53128756	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11787.0	NM_001164099	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	15.0	23.5	25.0	486.0	21.0	7.0	27.0	15.0
Merged-chr1-134791213-4	chr1	134791104	134791304	+	989.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081307, intron 18 of 23)	intron (NM_001081307, intron 18 of 23)	12517.0	NR_015606	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	25.5	33.5	29.0	324.0	37.5	32.5	20.5	18.5
Merged-chr10-96332974-4	chr10	96332875	96333075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	106768.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	155.5	203.5	225.5	2800.0	408.5	147.0	242.5	176.0
Merged-chr6-84583580-4	chr6	84583481	84583681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177713, intron 3 of 6)	intron (NM_001177713, intron 3 of 6)	10229.0	NM_175475	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	75.5	113.5	61.5	954.0	153.5	49.0	64.5	37.5
Merged-chr14-47362616-1	chr14	47362516	47362716	+	551.0	f1_c57bl6.idr	Intergenic	Intergenic	-11244.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	1.0	1.0	1.0	51.0	23.0	10.0	5.0	7.5
Merged-chr12-75687699-4	chr12	75687593	75687793	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-18156.0	NM_028203	72338.0	Mm.341719	NM_028203	ENSMUSG00000045690	Wdr89	2600001A11Rik	WD repeat domain 89	protein-coding	25.5	21.5	20.0	301.5	54.0	23.5	21.0	11.5
Merged-chr12-69502129-4	chr12	69502024	69502224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26574.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	102.0	150.0	107.0	1949.5	263.0	54.5	109.5	88.0
Merged-chr2-178078432-3	chr2	178078333	178078533	+	878.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162922)	promoter-TSS (NM_001162922)	-8.0	NM_001162922	353208.0	Mm.381194	NM_001162922	ENSMUSG00000078861	Zfp931	2810021G02Rik	zinc finger protein 931	protein-coding	11.0	19.5	30.0	0.0	10.5	9.5	8.5	7.0
Merged-chr10-80506458-4	chr10	80506365	80506565	+	779.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139226, intron 1 of 1)	intron (NM_139226, intron 1 of 1)	11559.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	8.0	13.0	7.0	64.5	26.5	8.0	8.5	14.0
Merged-chr17-34647617-4	chr17	34647520	34647720	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017406, intron 1 of 17)	CpG	474.0	NM_017406	12915.0	Mm.4068	NM_017406	ENSMUSG00000015461	Atf6b	AA617266|ATF6beta|Creb-rp|Crebl1	activating transcription factor 6 beta	protein-coding	13.0	26.5	14.0	179.0	40.5	17.5	11.5	23.0
Merged-chr12-78350969-4	chr12	78350857	78351057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172952, intron 2 of 23)	LSU-rRNA_Hsa|rRNA|rRNA	124302.0	NM_145965	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	56.0	91.0	64.5	0.0	87.5	39.5	34.5	103.0
Merged-chr7-44554595-3	chr7	44554494	44554694	+	838.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285519)	promoter-TSS (NM_001285519)	-629.0	NM_001285517	22260.0	Mm.968	NM_009473	ENSMUSG00000060601	Nr1h2	AI194859|LXR|LXRB|LXRBSV|LXRbeta|NER1|OR-1|RIP15|UR|Unr|Unr2	nuclear receptor subfamily 1, group H, member 2	protein-coding	3.0	4.0	0.0	31.5	25.0	14.0	7.0	10.5
Merged-chr7-24904267-4	chr7	24904172	24904372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130152)	promoter-TSS (NM_001130152)	-74.0	NM_001130152	16801.0	Mm.3181	NM_008488	ENSMUSG00000040940	Arhgef1	Lbcl2|Lsc	Rho guanine nucleotide exchange factor (GEF) 1	protein-coding	209.0	370.0	281.0	3894.5	431.5	182.5	298.0	224.5
Merged-chr7-80091464-5	chr7	80091295	80091495	+	922.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001146000, exon 6 of 6)	3' UTR (NM_001146000, exon 6 of 6)	-16138.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	7.0	11.5	5.0	87.0	35.5	9.5	3.0	10.0
Merged-chr11-6416175-2	chr11	6416075	6416275	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008907, intron 1 of 4)	CpG	305.0	NM_008907	268373.0	Mm.5246	NM_008907	ENSMUSG00000071866	Ppia	2700098C05|Cphn|CyP-18|CypA	peptidylprolyl isomerase A	protein-coding	63.0	159.0	62.5	849.5	270.0	117.0	104.0	98.5
Merged-chr13-80884786-4	chr13	80884707	80884907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042591, intron 1 of 7)	intron (NM_001042591, intron 1 of 7)	-1288.0	NR_153411	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	52.0	40.5	37.0	601.0	66.0	30.5	36.5	47.5
Merged-chr2-131174842-4	chr2	131174744	131174944	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027641)	promoter-TSS (NM_027641)	-34.0	NM_027641	70997.0	Mm.252722	NM_027641	ENSMUSG00000027329	Spef1	4931426K16Rik|Clamp	sperm flagellar 1	protein-coding	25.0	20.0	3.0	222.5	45.5	20.0	22.5	14.0
Merged-chr9-64811148-4	chr9	64811066	64811266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162917, intron 1 of 34)	CpG	155.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	248.5	436.5	268.0	2612.5	716.5	285.0	309.5	242.5
Merged-chr5-32690815-2	chr5	32690715	32690915	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55527.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	3.5	8.0	5.0	16.5	13.0	9.0	11.0	11.0
Merged-chr15-58325596-4	chr15	58325517	58325717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1448.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	36.0	33.0	21.0	307.0	68.0	22.0	22.5	28.0
Merged-chr4-141655987-4	chr4	141655891	141656091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	8124.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	50.5	90.5	77.5	1054.0	158.5	51.5	73.0	85.0
Merged-chr17-31564824-3	chr17	31564756	31564956	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016670)	promoter-TSS (NM_016670)	83.0	NM_016670	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	124.5	183.0	102.5	1459.0	340.5	131.0	174.0	94.5
Merged-chr13-52603893-2	chr13	52603793	52603993	+	882.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	intron (NM_011518, intron 1 of 13)	7011.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	4.5	13.5	5.0	40.0	12.5	2.0	3.0	6.5
Merged-chr17-33089468-4	chr17	33089378	33089578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001024950, exon 1 of 4)	exon (NM_001024950, exon 1 of 4)	111.0	NM_001024950	240068.0	Mm.121392	NM_001024950	ENSMUSG00000067424	Zfp563	D10628|D130054H01|NTfin7|Zfp413	zinc finger protein 563	protein-coding	45.5	81.0	63.0	691.5	100.0	56.5	48.0	47.0
Merged-chr16-95708350-4	chr16	95708245	95708445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 2 of 9)	intron (NM_011809, intron 2 of 9)	5938.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	215.0	329.5	238.0	3444.0	547.0	214.0	209.0	227.0
Merged-chr15-73731057-4	chr15	73730959	73731159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166388, intron 1 of 5)	intron (NM_001166388, intron 1 of 5)	6129.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	41.5	79.0	45.0	549.0	124.5	37.0	45.5	23.5
Merged-chr15-12037434-4	chr15	12037319	12037519	+	929.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41412.0	NM_011294	20024.0	Mm.41746	NM_011294	ENSMUSG00000022205	Sub1	AI842364|P15|P9|Pc4|Rpo2tc1	SUB1 homolog (S. cerevisiae)	protein-coding	26.0	17.5	6.0	206.0	42.5	15.5	14.0	14.0
Merged-chr9-122923154-4	chr9	122923050	122923250	+	961.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009544)	promoter-TSS (NM_009544)	72.0	NM_009544	22646.0	Mm.290595	NM_009544	ENSMUSG00000057895	Zfp105	AW557864	zinc finger protein 105	protein-coding	12.5	23.0	15.0	264.0	27.0	17.5	23.5	25.0
Merged-chr8-72033089-3	chr8	72032978	72033178	+	807.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-23452.0	NM_024444	72054.0	Mm.160020	NM_024444	ENSMUSG00000003484	Cyp4f18	1810054N16Rik|Cyp4f3|Cypf18	cytochrome P450, family 4, subfamily f, polypeptide 18	protein-coding	0.0	0.0	0.0	0.0	36.5	6.5	16.0	16.0
Merged-chr5-36696732-4	chr5	36696629	36696829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081232)	promoter-TSS (NM_001081232)	-708.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	39.5	36.5	23.5	446.0	72.5	25.5	37.5	19.5
Merged-chr11-117846965-2	chr11	117846865	117847065	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2272.0	NM_001012273	11799.0	Mm.8552	NM_009689	ENSMUSG00000017716	Birc5	AAC-11|Api4|TIAP|survivin40	baculoviral IAP repeat-containing 5	protein-coding	7.5	10.0	4.5	38.5	8.0	5.5	3.5	16.0
Merged-chr5-129715505-4	chr5	129715403	129715603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356954)	promoter-TSS (NM_001356954)	6.0	NM_001356959	66258.0	Mm.249809	NM_025450	ENSMUSG00000034211	Mrps17	1810006P02Rik|Mprs17	mitochondrial ribosomal protein S17	protein-coding	87.5	126.0	67.0	1122.5	256.0	69.5	87.5	73.0
Merged-chr1-20940284-3	chr1	20940189	20940389	+	752.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028829)	TTS (NM_028829)	-11337.0	NM_027974	71877.0	Mm.29178	NM_027974	ENSMUSG00000041809	Efhc1	1700029F22Rik|mRib72-1|myoclonin1	EF-hand domain (C-terminal) containing 1	protein-coding	8.0	9.5	13.0	152.0	12.5	2.5	9.5	3.0
Merged-chr19-42752746-4	chr19	42752676	42752876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029011)	promoter-TSS (NM_029011)	-1.0	NM_029011	74580.0	Mm.329858	NM_029011	ENSMUSG00000060224	Pyroxd2	3830409H07Rik|4833409A17Rik	pyridine nucleotide-disulphide oxidoreductase domain 2	protein-coding	64.5	55.0	75.5	825.0	80.5	35.5	49.0	36.0
Merged-chr4-58912181-4	chr4	58912083	58912283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355697)	promoter-TSS (NM_001355697)	-253.0	NM_001355696	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	18.5	39.5	30.0	360.0	43.0	11.0	13.5	45.5
Merged-chr18-62069026-4	chr18	62068922	62069122	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110959.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	29.0	29.5	23.0	431.5	52.5	20.0	12.0	21.5
Merged-chr10-96466162-4	chr10	96466078	96466278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-150823.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	91.0	160.5	125.0	1440.0	180.0	68.5	72.5	36.0
Merged-chr10-62337351-4	chr10	62337258	62337458	+	867.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 4 of 21)	intron (NM_010438, intron 4 of 21)	3063.0	NM_001146100	15275.0	Mm.196605	NM_010438	ENSMUSG00000037012	Hk1	BB404130|Hk-1|Hk1-s|dea|mHk1-s	hexokinase 1	protein-coding	19.0	12.5	21.5	164.5	27.5	11.0	9.5	24.0
Merged-chr15-73622068-4	chr15	73621968	73622168	+	969.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033219, intron 1 of 7)	A-rich|Low_complexity|Low_complexity	2676.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	24.5	34.5	10.5	387.0	75.0	29.0	21.0	38.5
Merged-chr13-64110518-2	chr13	64110422	64110622	+	666.333374	f0_c57.idr|f1_c57bl6.idr	intron (NM_001001321, intron 6 of 11)	intron (NM_001001321, intron 6 of 11)	18808.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	0.0	0.0	0.0	11.0	24.5	6.0	18.5	11.5
Merged-chr4-43454691-4	chr4	43454633	43454833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007654)	promoter-TSS (NM_007654)	-107.0	NM_007654	12517.0	Mm.188157	NM_007654	ENSMUSG00000028459	Cd72	CD72c|Ly-19|Ly-32|Ly-m19|Lyb-2	CD72 antigen	protein-coding	13.5	31.5	25.0	313.0	51.5	13.5	35.0	18.0
Merged-chr7-67431238-4	chr7	67431150	67431350	+	815.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58392.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	8.0	7.5	11.0	273.0	9.5	7.5	15.0	12.5
Merged-chr2-153147414-4	chr2	153147303	153147503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 11 of 12)	intron (NM_001172117, intron 11 of 12)	-13898.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	35.0	43.0	34.0	544.5	72.5	48.5	49.0	58.0
Merged-chr8-79030514-6	chr8	79030330	79030530	+	916.1203609999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	CpG	1993.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	14.0	10.5	17.0	98.0	8.0	8.0	5.5	2.0
Merged-chr1-125519381-5	chr1	125519270	125519470	+	830.960022	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41225.0	NM_001356294	74150.0	Mm.28654	NM_028787	ENSMUSG00000026342	Slc35f5	1300003P13Rik|AI646727	solute carrier family 35, member F5	protein-coding	12.5	15.0	10.5	122.0	20.0	11.0	5.5	6.5
Merged-chr9-86544749-4	chr9	86544650	86544850	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 33 of 38)	intron (NM_177208, intron 33 of 38)	27092.0	NM_001163746	109785.0	Mm.390201	NM_028352	ENSMUSG00000056131	Pgm3	2810473H05Rik|Agm1|BB187688|C77933|PAGM|Pgm-3	phosphoglucomutase 3	protein-coding	20.5	10.0	23.0	297.0	134.0	50.5	28.0	23.0
Merged-chr12-9007224-4	chr12	9007121	9007321	+	990.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172470, intron 15 of 27)	intron (NM_172470, intron 15 of 27)	-22776.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	11.5	17.0	21.0	298.5	50.5	29.5	34.0	33.5
Merged-chr7-122383471-4	chr7	122383374	122383574	+	919.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	MTEa|LTR|ERVL-MaLR	94349.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	14.5	24.0	9.5	291.5	30.0	11.5	16.5	25.5
Merged-chr7-6398720-4	chr7	6398630	6398830	+	886.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15412.0	NM_175247	22690.0	Mm.127014	NM_175247	ENSMUSG00000062861	Zfp28	2810438M17Rik|Zfp-28|mkr-5	zinc finger protein 28	protein-coding	15.5	5.0	13.0	172.0	20.5	5.5	11.0	18.5
Merged-chr1-135259259-4	chr1	135259182	135259382	+	889.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163131)	promoter-TSS (NM_001163131)	-810.0	NM_007921	13710.0	Mm.441439	NM_007921	ENSMUSG00000003051	Elf3	ESE-1|ESX|jen	E74-like factor 3	protein-coding	9.0	19.0	6.5	133.0	29.0	15.0	12.0	11.0
Merged-chr11-74946530-2	chr11	74946430	74946630	+	627.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 8 of 18)	intron (NM_001002764, intron 8 of 18)	20658.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	2.0	2.0	0.0	12.5	4.5	4.5	7.5	6.5
Merged-chr4-135318190-4	chr4	135318091	135318291	+	926.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35023.0	NM_016799	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	14.0	8.5	7.5	245.5	37.0	8.0	14.0	17.5
Merged-chr16-48831497-3	chr16	48831391	48831591	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11061.0	NM_020509	57262.0	Mm.441868	NM_020509	ENSMUSG00000061100	Retnla	1810019L16Rik|Fizz-1|Fizz1|HIMF|RELM-alpha|RELMa|RELMalpha|Xcp2	resistin like alpha	protein-coding	9.0	11.5	24.5	487.5	10.5	1.5	7.0	16.5
Merged-chr2-130424309-4	chr2	130424197	130424397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030559)	promoter-TSS (NM_030559)	-9.0	NM_178762	319513.0	Mm.482539	NM_178762	ENSMUSG00000037773	Pced1a	A930025D01Rik|AI480484|Fam113a	PC-esterase domain containing 1A	protein-coding	60.0	70.0	37.0	597.0	155.5	71.0	50.0	59.0
Merged-chr11-54437478-4	chr11	54437389	54437589	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173753)	promoter-TSS (NM_173753)	-690.0	NM_173753	216742.0	Mm.34087	NM_173753	ENSMUSG00000035992	Fnip1	A730024A03Rik|AI838773|AW557298	folliculin interacting protein 1	protein-coding	23.5	42.0	18.5	439.5	66.0	19.0	16.5	29.5
Merged-chr10-45454320-4	chr10	45454225	45454425	+	898.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031772, intron 2 of 4)	intron (NM_001031772, intron 2 of 4)	15876.0	NM_001031772	380669.0	Mm.440328	NM_001031772	ENSMUSG00000063804	Lin28b	2810403D23Rik|D030047M17Rik|Lin-28.2	lin-28 homolog B (C. elegans)	protein-coding	14.5	12.5	5.5	211.5	35.5	5.5	18.0	12.0
Merged-chr8-83055073-4	chr8	83054943	83055143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 6 of 6)	intron (NM_177378, intron 6 of 6)	-110309.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	50.5	30.5	111.0	1260.5	93.0	39.5	34.5	44.0
Merged-chr1-191182531-4	chr1	191182407	191182607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 1 of 3)	CpG	826.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	61.0	92.0	60.5	909.5	169.0	71.0	72.5	59.0
Merged-chr9-90060492-4	chr9	90060396	90060596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007801, exon 2 of 12)	exon (NM_007801, exon 2 of 12)	6229.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	75.5	174.5	68.5	1108.5	262.0	97.0	71.0	80.5
Merged-chr1-36271665-4	chr1	36271575	36271775	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153408, intron 1 of 3)	intron (NM_153408, intron 1 of 3)	1750.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	27.0	23.0	21.0	204.0	42.5	19.0	15.5	35.5
Merged-chr14-65805915-3	chr14	65805835	65806035	+	895.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023209)	promoter-TSS (NM_023209)	24.0	NM_023209	52033.0	Mm.24337	NM_023209	ENSMUSG00000022033	Pbk	2810434B10Rik|AW538537|D14Ertd732e|TOPK	PDZ binding kinase	protein-coding	7.5	9.5	5.5	108.5	31.0	4.5	7.0	5.0
Merged-chr8-84990013-4	chr8	84989902	84990102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167991)	promoter-TSS (NM_001167991)	-593.0	NM_133255	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	20.5	44.0	24.5	369.0	78.0	28.5	30.0	39.0
Merged-chr5-96998305-6	chr5	96998140	96998340	+	985.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 1 of 15)	intron (NM_080708, intron 1 of 15)	551.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	10.0	22.0	22.0	237.0	27.5	18.5	15.0	24.5
Merged-chr5-53547088-4	chr5	53546984	53547184	+	946.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8695.0	NM_001080928	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	17.0	26.5	28.5	177.0	36.5	9.5	17.5	12.5
Merged-chr7-43670285-4	chr7	43670179	43670379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-1752.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	169.5	261.5	189.0	1490.5	379.5	154.5	180.5	163.0
Merged-chr4-55476410-2	chr4	55476316	55476516	+	952.083374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	56059.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	19.0	43.0	27.5	455.0	0.5	0.0	1.0	0.0
Merged-chr1-74308820-4	chr1	74308735	74308935	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039509, intron 2 of 9)	RMER2|LTR|ERV1	-4499.0	NM_027154	69660.0	Mm.261182	NM_027154	ENSMUSG00000006301	Tmbim1	2310061B02Rik|AA960455|AU024746|C78899|RECS1|Tmbib1|mKIAA4161	transmembrane BAX inhibitor motif containing 1	protein-coding	39.5	56.0	18.0	305.0	71.0	18.0	23.0	19.5
Merged-chr17-43576534-4	chr17	43576436	43576636	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	8085.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	53.0	38.5	47.0	442.5	54.0	12.5	22.0	23.5
Merged-chr19-5002296-4	chr19	5002178	5002378	+	891.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12307.0	NM_153553	225872.0	Mm.287867	NM_153553	ENSMUSG00000045903	Npas4	LE-PAS|Nxf	neuronal PAS domain protein 4	protein-coding	12.0	27.5	14.5	135.0	33.5	10.5	6.5	3.5
Merged-chr17-26502023-4	chr17	26501909	26502109	+	976.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	6463.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	45.5	76.0	18.5	398.5	91.0	34.5	19.5	10.0
Merged-chr7-24407098-4	chr7	24406939	24407139	+	728.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028047, intron 5 of 13)	intron (NM_028047, intron 5 of 13)	7411.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	5.0	9.5	10.0	47.5	12.5	1.5	6.0	3.5
Merged-chr19-42753395-4	chr19	42753321	42753521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029011)	promoter-TSS (NM_029011)	-646.0	NM_029011	74580.0	Mm.329858	NM_029011	ENSMUSG00000060224	Pyroxd2	3830409H07Rik|4833409A17Rik	pyridine nucleotide-disulphide oxidoreductase domain 2	protein-coding	123.5	153.0	115.0	1701.0	184.0	95.0	90.0	82.5
Merged-chr6-52714346-4	chr6	52714221	52714421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355596, exon 1 of 18)	5' UTR (NM_001355596, exon 1 of 18)	156.0	NM_001355596	52440.0	Mm.389757	NM_025816	ENSMUSG00000004535	Tax1bp1	1200003J11Rik|1700069J21Rik|AA930106|D6Ertd404e|D6Ertd772e|T6bp|TXBP151	Tax1 (human T cell leukemia virus type I) binding protein 1	protein-coding	29.5	52.0	56.5	495.5	42.5	20.5	31.5	40.5
Merged-chr17-48043718-4	chr17	48043637	48043837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-5444.0	NM_029689	76651.0	Mm.76918	NM_029689	ENSMUSG00000094928	1700122O11Rik	-	RIKEN cDNA 1700122O11 gene	protein-coding	48.5	70.5	63.5	662.0	59.0	21.0	29.0	33.5
Merged-chr6-100833995-3	chr6	100833916	100834116	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182939, intron 1 of 8)	CpG	378.0	NM_182939	232314.0	Mm.27223	NM_182939	ENSMUSG00000052144	Ppp4r2	BE691708|C230060M08Rik	protein phosphatase 4, regulatory subunit 2	protein-coding	21.5	30.0	44.0	265.5	50.5	19.0	23.0	35.5
Merged-chr16-95674604-4	chr16	95674497	95674697	+	980.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27810.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	25.0	24.5	20.5	266.5	41.5	12.5	22.5	16.5
Merged-chr16-57501001-4	chr16	57500895	57501095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-48247.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	91.0	101.0	90.0	1720.0	160.0	50.5	72.0	68.0
Merged-chr10-127596901-4	chr10	127596799	127596999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 6 of 88)	intron (NM_008512, intron 6 of 88)	24249.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	211.5	395.5	275.5	3274.5	486.0	207.5	269.5	182.5
Merged-chr9-44233406-4	chr9	44233306	44233506	+	945.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	intron (NM_007619, intron 1 of 15)	640.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	11.0	14.0	5.5	174.5	45.0	16.0	16.5	16.5
Merged-chr9-55024069-4	chr9	55023977	55024177	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145129, intron 3 of 5)	intron (NM_145129, intron 3 of 5)	2482.0	NM_145129	110834.0	Mm.63569	NM_145129	ENSMUSG00000032303	Chrna3	(a)3|A730007P14Rik|Acra-3|Acra3	cholinergic receptor, nicotinic, alpha polypeptide 3	protein-coding	14.5	21.0	13.0	114.0	37.5	13.0	19.0	17.5
Merged-chr4-24865013-3	chr4	24864913	24865113	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-13889.0	NM_001033531	212390.0	Mm.409581	NM_001033531	ENSMUSG00000040387	Klhl32	6430524H05Rik|D4Ertd389e|Gm1356|mKIAA1900	kelch-like 32	protein-coding	6.0	25.5	19.0	392.5	15.5	8.0	2.5	6.5
Merged-chr11-60930967-4	chr11	60930910	60931110	+	876.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027800, intron 1 of 1)	L2a|LINE|L2	857.0	NR_027800	24082.0	Mm.46270	NM_025293	ENSMUSG00000042549	Map2k3os	F3-1|Gm16516|Gtlf3a	mitogen-activated protein kinase kinase 3, opposite strand	ncRNA	2.5	16.0	6.0	81.0	17.5	12.5	6.0	9.0
Merged-chr8-106165567-4	chr8	106165478	106165678	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133792)	TTS (NM_133792)	-3276.0	NR_151676	330836.0	Mm.46749	NM_178798	ENSMUSG00000031904	Slc7a6	AI643885|LAT-2|LAT3|y+LAT-2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 6	protein-coding	14.0	39.5	10.0	243.5	52.5	11.0	24.5	14.0
Merged-chr11-119355471-4	chr11	119355378	119355578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018822)	promoter-TSS (NM_018822)	32.0	NM_018822	27029.0	Mm.103788	NM_018822	ENSMUSG00000005043	Sgsh	4632406A19Rik	N-sulfoglucosamine sulfohydrolase (sulfamidase)	protein-coding	30.5	46.5	70.0	281.5	92.5	38.0	40.0	59.5
Merged-chr11-106716794-4	chr11	106716708	106716908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1527.0	NM_001305157	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	95.5	120.0	95.5	987.5	215.5	79.5	67.5	69.0
Merged-chr9-35305449-4	chr9	35305351	35305551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	24346.0	NR_040715	71133.0	Mm.158577	NR_040715	ENSMUSG00000111746	4933422A05Rik	-	RIKEN cDNA 4933422A05 gene	ncRNA	1489.0	1026.0	2138.5	29232.5	2768.0	1261.5	1011.5	2485.5
Merged-chr2-142712953-4	chr2	142712868	142713068	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081133, exon 19 of 26)	exon (NM_001081133, exon 19 of 26)	188496.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	17.5	25.0	47.0	693.0	49.0	14.0	22.0	23.0
Merged-chr6-65137934-4	chr6	65137817	65138017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 2 of 5)	intron (NM_019455, intron 2 of 5)	6813.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	31.0	32.0	37.0	713.5	81.5	31.5	47.5	45.0
Merged-chr7-43994989-4	chr7	43994903	43995103	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010640)	promoter-TSS (NM_010640)	-874.0	NM_010640	16613.0	Mm.443378	NM_010640	ENSMUSG00000044485	Klk1b11	Klk11|mGK-11	kallikrein 1-related peptidase b11	protein-coding	26.5	49.5	50.5	270.0	65.0	18.0	19.5	35.0
Merged-chr3-95707700-4	chr3	95707601	95707801	+	939.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19784.0	NM_001301705	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	18.0	25.5	7.5	184.0	38.5	15.0	14.0	28.5
Merged-chr11-48837738-4	chr11	48837657	48837857	+	808.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347446, exon 1 of 7)	exon (NM_001347446, exon 1 of 7)	286.0	NM_001347446	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	7.5	13.5	6.5	97.5	15.0	9.5	1.5	9.0
Merged-chr18-60787200-4	chr18	60787105	60787305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12609.0	NM_020600	20044.0	Mm.43778	NM_020600	ENSMUSG00000024608	Rps14	2600014J02Rik|AL023078	ribosomal protein S14	protein-coding	24.5	40.0	23.0	345.5	83.0	22.5	43.0	44.0
Merged-chr14-26526386-4	chr14	26526292	26526492	+	784.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310445, intron 1 of 22)	intron (NM_001310445, intron 1 of 22)	8232.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	10.0	5.0	16.0	184.0	44.0	13.0	6.0	13.5
Merged-chr7-44125319-2	chr7	44125219	44125419	+	877.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45-int|LTR|ERVK	-11971.0	NM_008454	16615.0	Mm.440887	NM_008454	ENSMUSG00000038968	Klk1b16	Klk16|mGk-16	kallikrein 1-related peptidase b16	protein-coding	4.5	10.0	6.0	7.0	5.5	1.0	5.5	2.0
Merged-chr6-137414745-4	chr6	137414645	137414845	+	843.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 14 of 26)	B3|SINE|B2	4024.0	NM_001164403	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	7.0	22.0	11.0	112.0	38.5	15.0	19.5	14.0
Merged-chr15-4025486-2	chr15	4025386	4025586	+	978.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024188)	promoter-TSS (NM_024188)	-942.0	NM_024188	67041.0	Mm.13445	NM_024188	ENSMUSG00000022186	Oxct1	2610008O03Rik|Oxct|Oxct2a|Scot-s	3-oxoacid CoA transferase 1	protein-coding	4.0	6.0	2.5	117.0	10.0	6.5	6.0	5.0
Merged-chr15-83171341-4	chr15	83171223	83171423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029787, intron 1 of 8)	intron (NM_029787, intron 1 of 8)	885.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	21.0	36.0	24.5	209.5	67.5	21.0	39.0	43.5
Merged-chr16-55781396-4	chr16	55781284	55781484	+	892.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40754.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	6.5	20.5	4.5	344.0	50.5	10.0	13.5	17.0
Merged-chr13-43785890-2	chr13	43785790	43785990	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	778.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	39.0	45.5	16.5	188.5	92.5	40.5	33.5	20.0
Merged-chr11-17953489-3	chr11	17953389	17953589	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131916)	promoter-TSS (NR_131916)	386.0	NM_026576	68145.0	Mm.178684	NM_026576	ENSMUSG00000016984	Etaa1	5730466H23Rik|AA672646	Ewing tumor-associated antigen 1	protein-coding	36.5	39.0	75.0	702.5	95.0	31.0	43.0	38.0
Merged-chr13-37561061-4	chr13	37560969	37561169	+	916.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	215724.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	9.0	15.5	13.0	326.0	45.0	14.0	8.0	15.5
Merged-chr1-138162893-4	chr1	138162778	138162978	+	881.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	12248.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	6.5	31.5	14.0	157.0	40.5	12.0	9.5	13.5
Merged-chr6-31340133-4	chr6	31340034	31340234	+	851.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58639.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	9.0	17.5	7.5	190.0	27.5	11.0	10.5	8.0
Merged-chr2-77327992-3	chr2	77327882	77328082	+	658.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-47390.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	5.5	11.0	14.5	93.5	12.0	5.0	10.0	11.5
Merged-chr13-111490022-4	chr13	111489943	111490143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122963)	promoter-TSS (NM_001122963)	84.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	340.0	561.5	309.5	4660.5	968.5	398.0	457.0	318.5
Merged-chr4-154915520-4	chr4	154915419	154915619	+	900.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	12558.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	8.0	10.5	3.0	96.5	76.5	25.5	24.0	40.0
Merged-chr14-54569198-3	chr14	54569111	54569311	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010590, intron 7 of 7)	intron (NM_010590, intron 7 of 7)	8450.0	NM_010590	16475.0	Mm.100253	NM_010590	ENSMUSG00000022178	Ajuba	Jub	ajuba LIM protein	protein-coding	4.5	11.0	6.0	75.5	13.5	5.0	8.0	12.5
Merged-chr5-108636394-4	chr5	108636283	108636483	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359426, intron 1 of 9)	intron (NM_001359426, intron 1 of 9)	6573.0	NM_001359426	72392.0	Mm.258324	NM_028223	ENSMUSG00000013495	Tmem175	3010001K23Rik|AI504381|mTMEM175	transmembrane protein 175	protein-coding	12.5	26.5	11.5	291.5	41.0	20.5	27.5	30.0
Merged-chr7-127471855-4	chr7	127471754	127471954	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145589, exon 1 of 11)	5' UTR (NM_145589, exon 1 of 11)	240.0	NM_145589	233895.0	Mm.44183	NM_145589	ENSMUSG00000030822	Prr14	BC006909	proline rich 14	protein-coding	19.5	75.0	8.5	129.0	71.0	38.0	33.5	15.5
Merged-chr7-45182388-4	chr7	45182270	45182470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053256)	TTS (NM_053256)	1375.0	NM_053256	114640.0	Mm.207078	NM_053256	ENSMUSG00000038300	Pth2	Tifp39|Tip39	parathyroid hormone 2	protein-coding	71.5	103.5	41.0	920.0	192.0	51.0	79.0	49.5
Merged-chr11-21370804-4	chr11	21370728	21370928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139297)	promoter-TSS (NM_139297)	-199.0	NM_139297	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	28.5	60.5	54.0	696.0	80.0	44.0	28.0	40.0
Merged-chr5-43877100-2	chr5	43876984	43877184	+	791.0	f0_balb.idr|f0_c57.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	8275.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	8.0	26.0	17.0	49.0	25.0	5.5	14.5	4.5
Merged-chr12-87147583-4	chr12	87147480	87147680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010363)	promoter-TSS (NM_010363)	-127.0	NM_001252556	14874.0	Mm.29652	NM_010363	ENSMUSG00000021033	Gstz1	MAAI	glutathione transferase zeta 1 (maleylacetoacetate isomerase)	protein-coding	221.5	285.5	237.0	3159.5	456.5	192.5	238.5	198.5
Merged-chr9-63132280-3	chr9	63132187	63132387	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14693.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	5.0	13.5	12.0	156.0	18.0	16.0	6.5	11.5
Merged-chr16-56075427-4	chr16	56075322	56075522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025483)	promoter-TSS (NM_025483)	18.0	NM_001003973	66315.0	Mm.255784	NM_025483	ENSMUSG00000052917	Senp7	2410152H17Rik|2810413I22Rik|2900036C23Rik|6030449K19Rik|AI790676	SUMO1/sentrin specific peptidase 7	protein-coding	59.0	54.0	36.5	644.0	129.0	46.0	64.0	69.5
Merged-chr17-80565230-4	chr17	80565138	80565338	+	935.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360144, intron 1 of 9)	MMERVK10D3_I-int|LTR|ERVK	-1404.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	19.5	47.5	29.0	205.5	51.5	9.0	22.0	12.5
Merged-chr2-27354956-4	chr2	27354845	27355045	+	926.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 1 of 29)	intron (NR_133905, intron 1 of 29)	72663.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	11.0	28.0	11.5	180.5	20.0	11.0	10.5	13.0
Merged-chr14-122056966-4	chr14	122056854	122057054	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22280.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	24.0	75.0	25.5	221.5	67.0	26.0	24.0	10.5
Merged-chr6-122875018-2	chr6	122874918	122875118	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026267, intron 1 of 7)	CpG	461.0	NM_026267	67602.0	Mm.288114	NM_026267	ENSMUSG00000030327	Necap1	1200016B17Rik|AI747569|mFLJ00061	NECAP endocytosis associated 1	protein-coding	6.0	11.5	4.5	142.0	28.5	7.0	3.5	14.5
Merged-chr2-12002483-3	chr2	12002382	12002582	+	724.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	224729.0	NM_177268	320816.0	Mm.260201	NM_177268	ENSMUSG00000047909	Ankrd16	2810455F06Rik|AI646698|D430029B21Rik	ankyrin repeat domain 16	protein-coding	4.5	9.0	6.5	84.0	17.0	4.0	4.5	3.0
Merged-chr13-5726281-6	chr13	5726222	5726422	+	948.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131770.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	21.0	14.0	51.0	388.5	33.5	12.0	15.0	12.0
Merged-chr3-144569314-2	chr3	144569214	144569414	+	790.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355234, intron 1 of 6)	intron (NM_001355234, intron 1 of 6)	902.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	4.5	6.5	7.0	30.5	22.5	4.5	3.0	10.0
Merged-chr7-89356511-2	chr7	89356411	89356611	+	767.958374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 1 of 14)	intron (NM_001360746, intron 1 of 14)	-17724.0	NM_001360745	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	8.0	5.0	4.5	180.5	9.0	3.5	7.5	13.5
Merged-chr9-88436868-3	chr9	88436753	88436953	+	832.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359958, intron 1 of 28)	intron (NM_001359958, intron 1 of 28)	2098.0	NM_001359958	244962.0	Mm.439873	NM_172926	ENSMUSG00000032422	Snx14	B830022K16|C330035N22Rik|YR-14	sorting nexin 14	protein-coding	11.5	22.5	1.0	112.5	11.0	16.5	8.0	12.0
Merged-chr5-147437567-3	chr5	147437501	147437701	+	893.744446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 1 of 18)	intron (NM_028291, intron 1 of 18)	7445.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	14.0	11.5	16.0	201.5	7.5	5.0	3.0	7.0
Merged-chr5-96162240-1	chr5	96162140	96162340	+	1000.0	f0_balb.idr	promoter-TSS (NM_178854)	promoter-TSS (NM_178854)	-250.0	NM_144910	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	18.0	39.0	37.0	274.0	50.0	16.5	18.5	22.5
Merged-chr11-70540106-4	chr11	70540035	70540235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008876)	promoter-TSS (NM_008876)	71.0	NM_001361935	18806.0	Mm.260177	NM_008876	ENSMUSG00000020828	Pld2	PLD1C	phospholipase D2	protein-coding	118.5	165.5	82.0	1422.0	210.5	82.5	109.0	78.0
Merged-chr3-154428527-2	chr3	154428423	154428623	+	763.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	97702.0	NR_040387	99686.0	Mm.38082	NR_040387	ENSMUSG00000093738	AI606473	-	expressed sequence AI606473	ncRNA	5.5	12.0	10.5	102.5	33.5	12.0	28.0	12.5
Merged-chr6-134984216-1	chr6	134984116	134984316	+	564.0	f1_c57bl6.idr	exon (NM_001109914, exon 2 of 2)	exon (NM_001109914, exon 2 of 2)	2215.0	NM_001109914	381823.0	Mm.296104	NM_001109914	ENSMUSG00000090698	Apold1	Gm1075	apolipoprotein L domain containing 1	protein-coding	9.0	11.0	5.0	70.0	11.0	3.5	1.5	0.5
Merged-chr4-151071030-3	chr4	151070907	151071107	+	744.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 23 of 23)	intron (NM_001081557, intron 23 of 23)	-13054.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	11.5	14.0	9.5	128.0	2.5	3.0	2.5	2.5
Merged-chr2-25196000-4	chr2	25195907	25196107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146115, intron 1 of 1)	intron (NM_146115, intron 1 of 1)	806.0	NM_146115	227612.0	Mm.119747	NM_146115	ENSMUSG00000059555	Tor4a	A830007P12Rik	torsin family 4, member A	protein-coding	151.0	204.0	134.0	1557.0	323.5	140.0	152.0	115.0
Merged-chr7-118491192-1	chr7	118491092	118491292	+	1000.0	f1_balb.idr	exon (NM_001033380, exon 1 of 1)	exon (NM_001033380, exon 1 of 1)	783.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	12.0	28.5	20.5	195.0	35.0	17.5	19.5	26.5
Merged-chr18-5986027-4	chr18	5985922	5986122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150076.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	32.0	49.5	22.5	374.0	55.0	15.0	19.5	41.5
Merged-chr5-122145546-4	chr5	122145452	122145652	+	952.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7490.0	NM_183307	330188.0	Mm.386907	NM_183307	ENSMUSG00000043036	Ccdc63	4921511C16Rik	coiled-coil domain containing 63	protein-coding	9.0	23.5	9.0	132.0	45.0	25.0	15.0	28.5
Merged-chr6-146502244-4	chr6	146502149	146502349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010586)	promoter-TSS (NM_010586)	-26.0	NM_019923	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	107.5	99.0	108.5	1614.5	152.0	67.5	82.5	97.0
Merged-chr3-94758144-3	chr3	94758038	94758238	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	28377.0	NM_001293727	70737.0	Mm.87634	NM_001037711	ENSMUSG00000068876	Cgn	6330408J11Rik	cingulin	protein-coding	13.0	24.0	8.0	90.5	24.0	5.0	8.0	8.5
Merged-chr18-67800056-4	chr18	67799968	67800168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045376)	promoter-TSS (NR_045376)	-39.0	NM_027556	70799.0	Mm.30857	NM_027556	ENSMUSG00000024542	Cep192	4631422C13Rik|D430014P18Rik	centrosomal protein 192	protein-coding	110.5	129.0	69.0	1145.0	267.5	97.5	148.0	87.0
Merged-chr9-50849456-4	chr9	50849359	50849559	+	936.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7465.0	NM_001034085	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	18.0	21.0	12.5	226.0	70.0	28.0	27.0	14.5
Merged-chr3-65953956-4	chr3	65953857	65954057	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019937, intron 3 of 10)	intron (NM_019937, intron 3 of 10)	4292.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	24.5	18.0	10.0	292.5	79.5	24.0	17.5	24.5
Merged-chr9-86592243-3	chr9	86592156	86592356	+	878.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008615, intron 12 of 13)	intron (NM_008615, intron 12 of 13)	20203.0	NM_027100	69519.0	Mm.272517	NM_027100	ENSMUSG00000032417	Rwdd2a	1700030C20Rik|AI848608|Rwdd2	RWD domain containing 2A	protein-coding	9.0	11.0	7.0	299.0	8.0	3.0	3.5	6.0
Merged-chr7-47150859-3	chr7	47150764	47150964	+	817.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17180.0	NM_013643	19259.0	Mm.4654	NM_013643	ENSMUSG00000030854	Ptpn5	Step	protein tyrosine phosphatase, non-receptor type 5	protein-coding	5.0	5.0	6.5	34.5	28.0	3.5	4.5	13.0
Merged-chr7-101379120-6	chr7	101379017	101379217	+	899.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	995.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	10.5	13.5	2.5	83.0	34.0	22.5	7.5	9.5
Merged-chr1-180778329-4	chr1	180778239	180778439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	35266.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	37.0	41.0	34.0	426.0	64.5	31.0	35.0	38.0
Merged-chr5-100705940-4	chr5	100705842	100706042	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152803, intron 3 of 11)	Tigger1|DNA|TcMar-Tigger	13774.0	NM_152803	15442.0	Mm.265786	NM_152803	ENSMUSG00000035273	Hpse	HSE1|Hpa|Hpr1	heparanase	protein-coding	14.5	31.5	7.5	229.0	25.5	7.5	5.0	23.5
Merged-chr17-33929919-4	chr17	33929830	33930030	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009059)	promoter-TSS (NM_009059)	36.0	NM_009059	19732.0	Mm.43777	NM_009059	ENSMUSG00000041354	Rgl2	KE1.5|Rab2l|Rgt2|Rlf	ral guanine nucleotide dissociation stimulator-like 2	protein-coding	25.5	36.5	10.5	317.0	52.0	23.5	21.0	30.0
Merged-chr18-49552965-4	chr18	49552869	49553069	+	928.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29680.0	NR_033785	67321.0	Mm.245802	NR_033785	ENSMUSG00000100297	1700044K03Rik	-	RIKEN cDNA 1700044K03 gene	ncRNA	14.0	27.5	23.5	348.0	33.5	11.0	22.0	16.5
Merged-chr17-25868555-8	chr17	25868418	25868618	+	912.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026633, exon 2 of 5)	exon (NM_026633, exon 2 of 5)	220.0	NM_026633	68241.0	Mm.328870	NM_026633	ENSMUSG00000025732	Mcrip2	9530058B02Rik|Fam195a	MAPK regulated corepressor interacting protein 2	protein-coding	10.5	11.5	11.5	97.0	14.5	6.5	7.0	15.0
Merged-chr3-133542242-4	chr3	133542134	133542334	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040400, intron 1 of 10)	intron (NM_001040400, intron 1 of 10)	2156.0	NM_001040400	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	13.5	38.5	11.0	306.5	76.0	12.5	40.5	24.0
Merged-chr1-98591228-3	chr1	98591118	98591318	+	703.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAP1-MM_I-int|LTR|ERVK	170094.0	NM_027584	70866.0	Mm.389164	NM_027584	ENSMUSG00000026336	Slco6d1	4921511I05Rik	solute carrier organic anion transporter family, member 6d1	protein-coding	6.5	21.0	7.5	91.0	4.0	0.0	2.5	1.0
Merged-chr13-59847762-4	chr13	59847661	59847861	+	935.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-24614.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	6.5	17.5	15.5	165.5	34.5	4.0	17.5	8.5
Merged-chr17-80112825-5	chr17	80112813	80113013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14558.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	43.5	41.0	70.5	1466.0	80.0	16.0	50.0	34.0
Merged-chr10-21609781-4	chr10	21609629	21609829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027968, intron 2 of 2)	intron (NR_027968, intron 2 of 2)	16584.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	82.0	107.0	100.5	1649.0	167.5	48.5	99.5	72.0
Merged-chr4-150349864-4	chr4	150349713	150349913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	(TCC)n|Simple_repeat|Simple_repeat	67897.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	56.5	69.0	28.0	750.0	98.5	42.5	32.0	45.0
Merged-chr8-107048459-7	chr8	107048403	107048603	+	998.775513	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_139229)	TTS (NM_139229)	111.0	NM_026513	68023.0	Mm.482335	NM_026513	ENSMUSG00000078931	Pdf	2610019N19Rik	peptide deformylase (mitochondrial)	protein-coding	10.5	18.5	26.0	261.0	30.5	19.0	20.5	23.0
Merged-chr7-90442754-4	chr7	90442699	90442899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145151)	promoter-TSS (NM_145151)	18.0	NR_073438	233490.0	Mm.29496	NM_145151	ENSMUSG00000051451	Crebzf	1110034C16Rik|6330417B10Rik|LAZip|LAZipII|SMILE|Zf	CREB/ATF bZIP transcription factor	protein-coding	144.0	232.5	167.5	1998.5	457.0	163.5	165.5	156.0
Merged-chr5-92278165-4	chr5	92277996	92278196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163687)	promoter-TSS (NM_001163687)	85.0	NM_001163687	67111.0	Mm.28890	NM_025972	ENSMUSG00000029413	Naaa	2210023K21Rik|3830414F09Rik|Asahl	N-acylethanolamine acid amidase	protein-coding	77.5	117.5	132.5	1287.5	132.0	38.0	56.0	106.0
Merged-chr5-114651568-4	chr5	114651438	114651638	+	924.636902	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022017, intron 1 of 15)	intron (NM_022017, intron 1 of 15)	6883.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	10.0	18.5	13.0	96.0	8.5	5.5	3.0	1.5
Merged-chr5-21658818-4	chr5	21658714	21658914	+	931.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026034, intron 4 of 5)	intron (NM_026034, intron 4 of 5)	12830.0	NM_026034	67211.0	Mm.260782	NM_026034	ENSMUSG00000038525	Armc10	2810037C14Rik|Svh	armadillo repeat containing 10	protein-coding	10.0	15.5	18.5	177.0	60.5	14.5	19.0	6.5
Merged-chr3-79114415-4	chr3	79114320	79114520	+	848.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 1 of 23)	L2c|LINE|L2	30467.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	10.5	11.0	12.0	87.0	44.0	18.0	24.0	9.5
Merged-chr1-40230509-4	chr1	40230435	40230635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008362, intron 1 of 10)	intron (NM_008362, intron 1 of 10)	5455.0	NM_008362	16177.0	Mm.896	NM_008362	ENSMUSG00000026072	Il1r1	CD121a|CD121b|IL-1R1|IL-iR|Il1r-1	interleukin 1 receptor, type I	protein-coding	20.5	20.0	49.0	763.5	35.0	8.5	24.5	21.0
Merged-chr9-105130990-1	chr9	105130890	105131090	+	589.0	f1_c57bl6.idr	intron (NM_029385, intron 2 of 2)	intron (NM_029385, intron 2 of 2)	815.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	5.5	6.0	5.0	33.0	6.0	2.0	2.0	7.5
Merged-chr5-144283812-4	chr5	144283731	144283931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025833, intron 7 of 13)	Kanga2_a|DNA|TcMar-Tc2	6770.0	NR_040432	100504231.0	Mm.441035	NR_040432	ENSMUSG00000086894	Gm15708	-	predicted gene 15708	ncRNA	93.0	111.5	90.5	1497.5	156.5	51.5	63.0	80.0
Merged-chr6-146271314-3	chr6	146271204	146271404	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 37 of 56)	intron (NM_019923, intron 37 of 56)	230919.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	32.0	43.0	20.0	533.5	12.5	9.0	7.5	6.5
Merged-chr13-44722216-4	chr13	44722124	44722324	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8550.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	16.5	49.0	16.0	262.0	45.5	20.5	21.5	14.0
Merged-chr2-144219454-4	chr2	144219320	144219520	+	879.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30130.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	8.0	15.5	5.0	86.0	17.0	8.0	12.0	4.5
Merged-chr6-13874129-4	chr6	13874028	13874228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045995, intron 1 of 2)	intron (NR_045995, intron 1 of 2)	2559.0	NR_045995	76311.0	Mm.367129	NR_045995	ENSMUSG00000097616	1110019D14Rik	-	RIKEN cDNA 1110019D14 gene	ncRNA	130.0	221.5	142.5	2309.5	321.0	136.5	139.5	106.5
Merged-chr6-115361746-3	chr6	115361599	115361799	+	936.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308354)	promoter-TSS (NM_001308354)	555.0	NM_001308352	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	12.0	20.0	10.0	188.0	13.0	7.0	12.5	13.5
Merged-chr14-70055322-4	chr14	70055236	70055436	+	847.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 6 of 6)	intron (NM_028560, intron 6 of 6)	-22109.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	17.0	13.0	5.0	54.0	23.5	7.5	4.0	21.5
Merged-chr1-54774364-4	chr1	54774257	54774457	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 4 of 27)	intron (NM_001081433, intron 4 of 27)	152030.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	10.5	21.5	10.5	219.0	21.0	5.0	16.5	10.5
Merged-chr7-141268610-4	chr7	141268536	141268736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028069)	TTS (NM_028069)	-2212.0	NM_001252600	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	21.0	23.0	28.0	333.5	79.5	17.5	35.5	28.5
Merged-chr1-161875907-4	chr1	161875798	161875998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151684, intron 1 of 24)	intron (NR_151684, intron 1 of 24)	784.0	NM_172645	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	31.5	38.0	28.0	433.0	72.5	31.0	27.0	24.0
Merged-chr6-87743475-4	chr6	87743356	87743556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 2 of 7)	intron (NM_001159697, intron 2 of 7)	12587.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	39.0	82.0	24.0	564.5	116.5	24.0	35.0	28.0
Merged-chr1-13660610-4	chr1	13660514	13660714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145381)	promoter-TSS (NM_145381)	-105.0	NM_145381	212442.0	Mm.89572	NM_145381	ENSMUSG00000025937	Lactb2	Cgi-83|E430032H21Rik	lactamase, beta 2	protein-coding	150.0	229.0	153.5	2790.0	423.0	135.5	232.5	147.5
Merged-chr10-84163928-4	chr10	84163820	84164020	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63223.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	26.0	27.5	17.0	356.0	29.0	12.0	18.0	18.0
Merged-chr3-135477090-4	chr3	135476981	135477181	+	941.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8530.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	21.0	21.0	20.0	354.5	22.0	17.5	18.5	13.5
Merged-chr7-84594603-4	chr7	84594525	84594725	+	886.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010176, intron 9 of 13)	intron (NM_010176, intron 9 of 13)	11317.0	NM_010176	14085.0	Mm.3798	NM_010176	ENSMUSG00000030630	Fah	swst	fumarylacetoacetate hydrolase	protein-coding	16.5	12.5	9.0	223.0	27.0	11.5	23.0	19.5
Merged-chr2-119106766-4	chr2	119106676	119106876	+	597.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-6041.0	NM_011234	19361.0	Mm.330492	NM_011234	ENSMUSG00000027323	Rad51	AV304093|Rad51a|Reca	RAD51 recombinase	protein-coding	8.5	6.5	8.0	122.0	7.0	12.0	14.5	5.0
Merged-chr2-52784147-4	chr2	52784037	52784237	+	884.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41988.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	3.5	19.0	18.0	245.0	25.5	9.5	8.5	23.0
Merged-chr2-165287787-4	chr2	165287666	165287866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252574)	promoter-TSS (NM_001252574)	21.0	NM_001252574	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	25.5	42.5	19.0	250.0	40.0	20.0	20.0	20.0
Merged-chr9-50818293-4	chr9	50818214	50818414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045601, intron 12 of 13)	intron (NR_045601, intron 12 of 13)	-38610.0	NM_001034085	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	25.5	60.0	20.5	331.5	93.0	29.0	49.0	20.0
Merged-chr5-92603047-4	chr5	92602969	92603169	+	837.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175096)	promoter-TSS (NM_175096)	18.0	NM_175096	52331.0	Mm.21965	NM_175096	ENSMUSG00000047963	Stbd1	D530019K15Rik|D5Ertd593e	starch binding domain 1	protein-coding	19.5	10.0	24.5	257.5	24.0	10.0	9.5	7.5
Merged-chr18-36715945-4	chr18	36715836	36716036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	10879.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	112.5	119.0	124.5	1605.5	118.0	33.5	62.0	47.0
Merged-chr2-36136751-4	chr2	36136663	36136863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026434)	promoter-TSS (NM_026434)	-59.0	NR_027515	67889.0	Mm.205937	NM_026434	ENSMUSG00000026889	Rbm18	2010004P11Rik|AU015530	RNA binding motif protein 18	protein-coding	63.0	127.5	107.5	1230.0	218.5	98.0	89.0	110.5
Merged-chr3-88138924-4	chr3	88138802	88139002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3470.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	35.5	23.5	29.0	365.0	59.5	31.0	24.5	38.5
Merged-chr13-112927509-4	chr13	112927430	112927630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172594)	promoter-TSS (NM_172594)	-150.0	NM_028151	72198.0	Mm.291029	NM_028151	ENSMUSG00000016018	Skiv2l2	2610528A15Rik|Mtrex|mKIAA0052	superkiller viralicidic activity 2-like 2 (S. cerevisiae)	protein-coding	314.5	487.5	331.5	5394.0	590.5	257.5	311.5	273.5
Merged-chr9-30940523-2	chr9	30940423	30940623	+	591.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2039.0	NM_013906	30806.0	Mm.100582	NM_013906	ENSMUSG00000031994	Adamts8	METH-2|METH2	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 8	protein-coding	5.5	4.5	7.0	70.0	16.0	10.0	7.5	4.0
Merged-chr9-123999947-3	chr9	123999844	124000044	+	860.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21536.0	NM_007718	12770.0	Mm.423532	NM_007718	ENSMUSG00000064039	Ccr1l1	Cmkbr1l1	chemokine (C-C motif) receptor 1-like 1	protein-coding	8.0	9.0	19.0	262.5	14.5	5.5	5.5	5.0
Merged-chr6-87399335-2	chr6	87399235	87399435	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10400.0	NM_026860	68888.0	Mm.46387	NM_026860	ENSMUSG00000030048	Gkn3	1190003M12Rik	gastrokine 3	protein-coding	4.5	5.5	1.5	78.0	25.0	13.5	7.5	8.5
Merged-chr11-95713449-4	chr11	95713363	95713563	+	889.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045780)	promoter-TSS (NR_045780)	-709.0	NR_045780	432396.0	Mm.426849	NR_045780	ENSMUSG00000086191	Zfp652os	1110035M17Rik	zinc finger protein 652, opposite strand	ncRNA	7.0	6.0	12.0	131.0	28.5	11.0	13.5	15.0
Merged-chr11-85164578-2	chr11	85164478	85164678	+	812.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD3|LINE|L1	-6518.0	NM_028589	73634.0	Mm.48850	NM_028589	ENSMUSG00000018479	1700125H20Rik	-	RIKEN cDNA 1700125H20 gene	protein-coding	12.5	10.0	4.0	48.5	22.0	7.0	6.5	7.5
Merged-chr4-141869814-8	chr4	141869673	141869873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	5147.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	42.0	57.5	54.0	337.5	117.5	60.5	67.5	40.0
Merged-chr5-135962641-4	chr5	135962529	135962729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160366, intron 9 of 10)	CpG	11847.0	NM_001160366	109267.0	Mm.332750	NM_001160366	ENSMUSG00000029699	Ssc4d	C330016E03Rik|S4D-SRCRB|SRCRB-S4D|Srcrb4d	scavenger receptor cysteine rich family, 4 domains	protein-coding	291.0	550.5	349.0	3341.0	861.5	401.0	439.5	336.0
Merged-chr16-3909040-4	chr16	3908964	3909164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029738)	promoter-TSS (NM_029738)	55.0	NM_029738	76779.0	Mm.458921	NM_029738	ENSMUSG00000014232	Cluap1	2310030D15Rik|2610111M03Rik	clusterin associated protein 1	protein-coding	65.5	95.5	59.5	819.5	119.0	50.0	83.0	52.5
Merged-chr11-83605715-4	chr11	83605610	83605810	+	889.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 2 of 8)	intron (NR_036453, intron 2 of 8)	-12623.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	22.0	17.5	15.5	196.5	23.0	6.0	11.5	18.5
Merged-chr13-120321017-6	chr13	120320915	120321115	+	827.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B|LTR|ERVL	4153.0	NM_153523	236219.0	Mm.302175	NM_153523	ENSMUSG00000095821	Tcstv3	-	2-cell-stage, variable group, member 3	protein-coding	3.5	9.0	9.0	56.5	10.0	8.5	5.0	6.0
Merged-chr10-117217445-4	chr10	117217362	117217562	+	794.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026570, exon 5 of 7)	exon (NM_026570, exon 5 of 7)	7045.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	9.0	8.5	1.5	63.5	29.5	11.5	9.5	10.5
Merged-chr19-40588495-4	chr19	40588401	40588601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019698)	promoter-TSS (NM_019698)	-38.0	NM_153554	56454.0	Mm.233117	NM_019698	ENSMUSG00000025007	Aldh18a1	2810433K04Rik|AI429789|Pycs	aldehyde dehydrogenase 18 family, member A1	protein-coding	93.0	152.5	55.0	1053.0	203.5	76.5	91.0	81.5
Merged-chr7-132347813-4	chr7	132347684	132347884	+	902.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30556.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	17.5	21.5	7.5	162.5	27.5	15.0	14.5	6.5
Merged-chr4-43560504-4	chr4	43560406	43560606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011602, intron 1 of 56)	intron (NM_011602, intron 1 of 56)	2077.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	88.5	114.5	103.5	1677.5	238.0	66.0	90.5	101.5
Merged-chr8-67813793-4	chr8	67813683	67813883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177698, intron 8 of 14)	intron (NM_177698, intron 8 of 14)	4512.0	NM_027626	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	25.5	30.0	37.0	692.5	68.0	21.0	21.0	16.0
Merged-chr11-75653401-4	chr11	75653314	75653514	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080774, intron 1 of 31)	intron (NM_001080774, intron 1 of 31)	1264.0	NM_001080774	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	28.5	28.5	13.5	221.0	70.5	15.0	33.0	26.5
Merged-chr1-171130037-3	chr1	171129922	171130122	+	922.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025321, intron 5 of 5)	intron (NM_025321, intron 5 of 5)	8361.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	17.5	29.5	13.5	362.5	35.5	5.5	7.0	8.5
Merged-chr15-89339882-4	chr15	89339788	89339988	+	798.770813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5415.0	NM_019977	56727.0	Mm.158200	NM_019977	ENSMUSG00000022613	Miox	0610009I10Rik|AI314022|Aldrl6|C85427|RSOR	myo-inositol oxygenase	protein-coding	11.0	14.0	8.5	143.0	28.5	9.5	10.0	10.0
Merged-chr5-30148589-4	chr5	30148480	30148680	+	773.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178878, intron 1 of 19)	ID4_|SINE|ID	6400.0	NM_178878	97212.0	Mm.200497	NM_178878	ENSMUSG00000025745	Hadha	C77020|Mtpa	hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), alpha subunit	protein-coding	9.5	15.0	7.0	222.0	21.5	3.0	10.5	4.5
Merged-chr2-33138685-4	chr2	33138563	33138763	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290570, intron 16 of 16)	intron (NM_001290570, intron 16 of 16)	-7227.0	NM_001355201	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	14.5	20.0	24.0	288.0	27.5	7.5	16.0	20.5
Merged-chr17-29362503-4	chr17	29362384	29362584	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013710, intron 1 of 15)	intron (NM_013710, intron 1 of 15)	1570.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	32.5	31.0	17.0	512.5	86.0	14.5	29.0	43.5
Merged-chr10-77515853-4	chr10	77515732	77515932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133998)	promoter-TSS (NM_133998)	-19.0	NM_133998	108707.0	Mm.259547	NM_133998	ENSMUSG00000032977	Fam207a	1810008A18Rik|AI303072	family with sequence similarity 207, member A	protein-coding	176.0	275.0	136.5	2261.0	373.5	158.5	178.0	129.0
Merged-chr9-54467726-4	chr9	54467636	54467836	+	933.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172771, intron 6 of 43)	L2a|LINE|L2	33890.0	NM_172771	235380.0	Mm.93636	NM_172771	ENSMUSG00000041268	Dmxl2	6330586A12|6430411K14Rik|E130119P06Rik|mKIAA0856	Dmx-like 2	protein-coding	21.0	44.5	14.5	259.0	37.0	11.0	13.5	8.5
Merged-chr17-80100067-4	chr17	80099965	80100165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27406.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	42.5	57.5	47.0	746.5	73.5	35.0	22.5	32.0
Merged-chr18-26863704-4	chr18	26863590	26863790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1109533.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	36.0	41.0	47.0	874.5	166.0	48.0	116.5	65.5
Merged-chr2-180043191-4	chr2	180043080	180043280	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011969)	promoter-TSS (NM_011969)	697.0	NM_178750	269397.0	Mm.63068	NM_178750	ENSMUSG00000039086	Ss18l1	A230053O16Rik|CREST	SS18, nBAF chromatin remodeling complex subunit like 1	protein-coding	16.5	33.5	16.0	255.5	62.5	18.0	20.0	26.5
Merged-chr16-81437665-4	chr16	81437529	81437729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010954, exon 4 of 16)	exon (NM_010954, exon 4 of 16)	236932.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	42.5	50.5	64.0	1031.0	100.5	19.0	58.0	39.5
Merged-chr19-9938320-3	chr19	9938234	9938434	+	939.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38801.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	9.0	16.0	4.5	109.0	14.5	2.0	1.0	3.0
Merged-chr16-45274765-2	chr16	45274659	45274859	+	677.833374	f0_c57.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	50422.0	NM_177584	208154.0	Mm.38199	NM_177584	ENSMUSG00000052013	Btla	A630002H24	B and T lymphocyte associated	protein-coding	0.0	0.0	0.0	0.0	25.5	8.5	11.5	10.0
Merged-chr19-4409276-4	chr19	4409186	4409386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	-12209.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	32.0	50.5	27.0	418.5	76.0	27.5	40.0	51.5
Merged-chr8-106138270-4	chr8	106138168	106138368	+	885.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040344, exon 5 of 5)	non-coding (NR_040344, exon 5 of 5)	-1294.0	NM_176838	77411.0	Mm.183003	NM_176838	ENSMUSG00000084128	Esrp2	9530027K23Rik|Rbm35b	epithelial splicing regulatory protein 2	protein-coding	13.0	16.0	13.0	149.0	26.0	9.5	11.5	8.0
Merged-chr3-38013109-4	chr3	38012966	38013166	+	931.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114253.0	NR_040559	626410.0	Mm.389417	NR_040559	ENSMUSG00000106461	Gm20755	-	predicted gene, 20755	ncRNA	10.0	14.0	17.5	120.0	21.5	6.5	9.5	7.5
Merged-chr12-76329183-4	chr12	76329042	76329242	+	808.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001101471, exon 2 of 2)	exon (NM_001101471, exon 2 of 2)	4251.0	NM_001101471	238276.0	Mm.311452	NM_001101471	ENSMUSG00000021057	Akap5	3526401B18Rik|AKAP 150|AKAP-5|AKAP150|BB098886|Gm258|P150	A kinase (PRKA) anchor protein 5	protein-coding	10.0	14.5	6.0	92.0	33.5	3.0	18.5	15.0
Merged-chr9-44685535-2	chr9	44685435	44685635	+	598.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_153537)	TTS (NM_153537)	12302.0	NM_001277847	58866.0	Mm.45380	NM_021481	ENSMUSG00000032098	Treh	2210412M19Rik	trehalase (brush-border membrane glycoprotein)	protein-coding	4.0	8.0	0.0	19.0	11.0	10.5	4.5	5.0
Merged-chr11-32620167-4	chr11	32620067	32620267	+	936.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 18 of 18)	intron (NM_009288, intron 18 of 18)	-22388.0	NM_001271348	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	16.0	18.0	6.0	195.5	18.5	5.0	19.0	20.5
Merged-chr12-85395244-2	chr12	85395144	85395344	+	940.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20527.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	5.0	8.5	7.0	67.0	20.5	4.5	5.0	10.0
Merged-chr11-77196967-4	chr11	77196873	77197073	+	947.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-8005.0	NM_176965	319634.0	Mm.108786	NM_176965	ENSMUSG00000050944	Efcab5	4930563A03Rik	EF-hand calcium binding domain 5	protein-coding	25.5	30.5	16.5	327.0	41.5	13.0	18.5	14.5
Merged-chr4-84079824-3	chr4	84079729	84079929	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34950.0	NR_130998	78238.0	Mm.243903	NR_130998	ENSMUSG00000085217	6030471H07Rik	-	RIKEN cDNA 6030471H07 gene	ncRNA	33.0	40.5	44.5	833.0	0.0	0.0	0.0	0.0
Merged-chr2-73056308-4	chr2	73056190	73056390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75844.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	24.0	49.0	46.5	592.5	72.0	22.5	36.5	37.5
Merged-chr5-149272674-4	chr5	149272573	149272773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308462, intron 2 of 3)	intron (NM_001308462, intron 2 of 3)	7669.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	32.5	26.5	31.5	652.5	49.0	22.0	33.0	36.5
Merged-chr7-132765053-3	chr7	132764959	132765159	+	751.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347630, intron 2 of 3)	intron (NM_001347630, intron 2 of 3)	11857.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	9.0	17.0	16.0	139.0	12.0	5.5	3.5	2.5
Merged-chr10-60934511-4	chr10	60934419	60934619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033616, intron 1 of 2)	intron (NR_033616, intron 1 of 2)	3613.0	NR_033616	73616.0	Mm.159038	NR_033616	ENSMUSG00000037247	Pldi	1700125F08Rik|Poldi	polymorphic derived intron containing	ncRNA	131.5	191.0	118.0	2311.0	332.5	157.5	122.5	122.5
Merged-chr13-24407020-4	chr13	24406923	24407123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 2 of 16)	MER21-int|LTR|ERVL	-8099.0	NM_007717	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	22.5	39.5	18.0	352.0	43.0	19.5	28.5	24.0
Merged-chr1-32252478-3	chr1	32252377	32252577	+	861.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133235, intron 2 of 8)	(CAAAA)n|Simple_repeat|Simple_repeat	79755.0	NM_133235	170771.0	Mm.336594	NM_133235	ENSMUSG00000026058	Khdrbs2	6330586C16Rik|Slim1|Slm-1|Slm1|TG-RP135|Tg(LRRK2*R1441G)135Cjli|mSLM-1	KH domain containing, RNA binding, signal transduction associated 2	protein-coding	17.5	11.5	20.5	112.0	20.0	7.0	6.5	3.5
Merged-chr2-35327500-4	chr2	35327395	35327595	+	894.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	9514.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	18.0	31.0	12.0	218.5	28.5	1.5	9.0	18.5
Merged-chr5-146805547-2	chr5	146805447	146805647	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10591.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	12.0	14.0	16.5	206.5	21.0	3.5	5.5	15.5
Merged-chr18-9507267-4	chr18	9507157	9507357	+	860.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57103.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	8.0	7.0	11.5	330.0	26.5	9.0	4.5	14.5
Merged-chr15-38388465-4	chr15	38388360	38388560	+	816.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A1|LTR|ERVK	-87749.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	6.0	18.0	4.5	114.5	16.0	8.0	11.0	13.5
Merged-chr16-67647085-3	chr16	67646961	67647161	+	770.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-26153.0	NM_178721	239857.0	Mm.394300	NM_178721	ENSMUSG00000064115	Cadm2	2900078E11Rik|9330131D06|A830029E02Rik|Igdf4d|Igsf4d|NECL3|SynCAM 2|SynCAM2	cell adhesion molecule 2	protein-coding	8.5	11.0	8.0	186.5	6.5	0.0	0.0	1.0
Merged-chr17-24724450-4	chr17	24724333	24724533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026684)	promoter-TSS (NM_026684)	-45.0	NM_026684	68342.0	Mm.1129	NM_026684	ENSMUSG00000040048	Ndufb10	0610011B04Rik|22kDa|PDSW	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 10	protein-coding	57.5	96.5	51.5	509.5	194.5	70.5	70.0	57.5
Merged-chr16-21631832-4	chr16	21631732	21631932	+	774.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	intron (NM_001081366, intron 45 of 46)	62833.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	6.0	17.5	9.5	71.5	22.0	12.0	8.5	15.0
Merged-chr6-38982304-4	chr6	38982205	38982405	+	987.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 4 of 12)	MTD|LTR|ERVL-MaLR	63319.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	19.5	31.0	13.0	472.0	38.0	16.0	24.5	35.5
Merged-chr15-83205307-3	chr15	83205220	83205420	+	861.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33112.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	7.5	7.0	10.5	84.0	22.5	4.0	6.5	11.5
Merged-chr6-59214142-6	chr6	59214054	59214254	+	830.194458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5284.0	NM_001081145	68140.0	Mm.25843	NM_001081145	ENSMUSG00000049232	Tigd2	3632410O17Rik	tigger transposable element derived 2	protein-coding	15.5	13.0	9.5	96.5	5.5	8.5	2.0	6.0
Merged-chr3-69154907-4	chr3	69154793	69154993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126533, intron 2 of 2)	intron (NR_126533, intron 2 of 2)	23660.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	71.5	135.5	65.5	1304.0	170.0	55.0	45.5	74.5
Merged-chr17-28967291-4	chr17	28967183	28967383	+	894.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001356299, exon 7 of 7)	3' UTR (NM_001356299, exon 7 of 7)	14067.0	NM_025888	66989.0	Mm.435	NM_025888	ENSMUSG00000005936	Kctd20	2410004N11Rik|AI451943|AW541186|D17Ertd562e	potassium channel tetramerisation domain containing 20	protein-coding	19.5	34.0	13.5	207.5	34.0	5.0	8.0	17.5
Merged-chr2-5772660-4	chr2	5772561	5772761	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57899.0	NM_177343	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	10.5	18.5	22.5	293.0	72.0	17.0	41.5	36.5
Merged-chr2-133020624-4	chr2	133020517	133020717	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74581.0	NM_198029	241639.0	Mm.209784	NM_198029	ENSMUSG00000027356	Fermt1	5830467P10Rik|Kindlin-1	fermitin family member 1	protein-coding	13.5	5.0	2.5	335.5	14.0	15.5	19.0	33.5
Merged-chr4-124850661-4	chr4	124850550	124850750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142727)	promoter-TSS (NM_001142727)	80.0	NM_001142727	68920.0	Mm.272397	NM_001142727	ENSMUSG00000078570	1110065P20Rik	C530005M16Rik	RIKEN cDNA 1110065P20 gene	protein-coding	80.0	147.5	90.0	1164.0	231.5	108.5	103.5	94.0
Merged-chr8-79163069-4	chr8	79162968	79163168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	intron (NM_001294279, intron 8 of 14)	85515.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	62.0	92.5	86.5	1672.5	132.0	37.0	41.0	46.5
Merged-chr8-47673612-4	chr8	47673526	47673726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023503, intron 1 of 1)	intron (NM_023503, intron 1 of 1)	1533.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	133.5	182.5	209.0	1620.5	326.0	169.5	141.5	135.0
Merged-chr5-32785713-4	chr5	32785608	32785808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177298)	promoter-TSS (NM_177298)	-82.0	NM_177298	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	112.0	153.0	52.5	1286.5	236.5	116.5	112.0	87.0
Merged-chr11-69396134-4	chr11	69396028	69396228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045525)	promoter-TSS (NM_001045525)	337.0	NM_030083	78304.0	Mm.45683	NM_030083	ENSMUSG00000059278	Naa38	1500034E06Rik|Lsmd1	N(alpha)-acetyltransferase 38, NatC auxiliary subunit	protein-coding	54.5	98.0	60.0	658.0	154.5	64.5	69.0	53.0
Merged-chr2-21261801-4	chr2	21261712	21261912	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56088.0	NM_177588	208967.0	Mm.268841	NM_177588	ENSMUSG00000048550	Thnsl1	AW413632	threonine synthase-like 1 (bacterial)	protein-coding	12.0	22.5	17.0	268.0	56.5	14.5	27.5	26.0
Merged-chr10-24630794-4	chr10	24630692	24630892	+	868.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35350.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	11.5	5.5	7.0	151.0	17.0	6.0	7.5	11.5
Merged-chr2-34977375-4	chr2	34977278	34977478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15606.0	NM_001326601	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	62.5	177.0	55.0	921.0	164.5	66.0	55.0	50.5
Merged-chr7-99536260-5	chr7	99536146	99536346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178220, intron 1 of 14)	intron (NM_178220, intron 1 of 14)	760.0	NM_177231	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	34.0	50.5	38.5	375.0	66.5	20.0	26.0	20.5
Merged-chr10-93095987-4	chr10	93095890	93096090	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-14394.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	26.5	17.0	24.0	303.5	50.5	14.0	38.5	40.5
Merged-chr12-14056326-3	chr12	14056226	14056426	+	873.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95712.0	NM_029007	105005.0	Mm.227253	NM_029007	ENSMUSG00000020607	Fam84a	2310003N02Rik|4731402F03Rik|AW125753|Nse1	family with sequence similarity 84, member A	protein-coding	6.5	11.0	5.0	140.5	10.0	3.0	6.0	1.5
Merged-chr2-4560696-4	chr2	4560584	4560784	+	841.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 1 of 11)	intron (NM_001177844, intron 1 of 11)	930.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	4.0	11.5	1.0	86.5	29.0	5.0	12.0	29.0
Merged-chr11-98954734-4	chr11	98954640	98954840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 2 of 8)	intron (NM_009024, intron 2 of 8)	-5731.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	21.5	30.0	25.0	509.0	63.0	30.0	35.5	29.5
Merged-chr11-44437963-4	chr11	44437863	44438063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32585.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	100.5	117.5	73.0	1489.5	207.0	69.0	129.5	86.0
Merged-chr16-21595873-4	chr16	21595786	21595986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 44 of 46)	intron (NM_001081366, intron 44 of 46)	98779.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	79.0	139.5	118.5	1526.5	112.5	52.5	59.5	65.5
Merged-chr6-54682255-2	chr6	54682157	54682357	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289741, intron 1 of 4)	CpG	633.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	8.5	9.5	16.0	110.5	7.0	11.0	3.5	8.0
Merged-chr15-78303657-3	chr15	78303557	78303757	+	939.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287389, intron 1 of 11)	intron (NM_001287389, intron 1 of 11)	2064.0	NM_007781	12984.0	Mm.1940	NM_007781	ENSMUSG00000071714	Csf2rb2	AIC2A|BetaIl3|Bil3|Csfgmrb|Il3r|Il3rb|Il3rb2	colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage)	protein-coding	10.5	11.0	52.0	295.5	13.0	4.5	5.5	7.5
Merged-chr9-99009170-3	chr9	99008998	99009198	+	839.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080776, intron 7 of 7)	ID2|SINE|ID	22725.0	NM_001122851	23873.0	Mm.74605	NM_011810	ENSMUSG00000032463	Faim	-	Fas apoptotic inhibitory molecule	protein-coding	0.0	8.5	1.0	51.0	6.5	5.5	4.5	6.0
Merged-chr4-9670580-3	chr4	9670508	9670708	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-1264.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	6.5	6.0	4.5	19.0	100.0	50.5	61.5	63.5
Merged-chr19-8763519-4	chr19	8763432	8763632	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016813, intron 3 of 20)	intron (NM_016813, intron 3 of 20)	6415.0	NM_001276704	53319.0	Mm.7271	NM_016813	ENSMUSG00000010097	Nxf1	Mex67|Mvb1|Tap	nuclear RNA export factor 1	protein-coding	29.5	33.5	18.0	555.5	64.0	23.0	16.0	18.0
Merged-chr6-136464133-11	chr6	136464008	136464208	+	925.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	4.5SRNA|scRNA|scRNA	-48539.0	NM_001201390	100502936.0	Mm.21182	NM_001201390	ENSMUSG00000045291	E330021D16Rik	C85549	RIKEN cDNA E330021D16 gene	protein-coding	25.0	31.5	38.0	596.0	36.0	10.0	14.0	16.5
Merged-chr16-96292063-1	chr16	96291963	96292163	+	754.0	f0_balb.idr	intron (NM_033149, intron 1 of 2)	intron (NM_033149, intron 1 of 2)	11031.0	NM_033149	93961.0	Mm.154783	NM_033149	ENSMUSG00000074892	B3galt5	1190002B21Rik|AU045265|b3Galt-V	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 5	protein-coding	7.0	6.0	12.0	124.5	2.0	0.0	1.0	4.5
Merged-chr3-121370575-4	chr3	121370470	121370670	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55971.0	NM_028044	71994.0	Mm.275555	NM_028044	ENSMUSG00000053931	Cnn3	1600014M03Rik|C85854|Calpo3	calponin 3, acidic	protein-coding	16.5	23.0	16.0	275.0	65.0	20.0	20.5	15.0
Merged-chr5-147758868-4	chr5	147758802	147759002	+	989.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32914.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	14.0	23.5	13.5	344.5	76.0	29.5	29.0	42.5
Merged-chr1-193191956-3	chr1	193191852	193192052	+	857.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153137, intron 8 of 15)	intron (NM_153137, intron 8 of 15)	9594.0	NM_153137	215243.0	Mm.261259	NM_153137	ENSMUSG00000037318	Traf3ip3	6030423D04Rik|AI115021|T3jam	TRAF3 interacting protein 3	protein-coding	1.0	0.0	0.5	6.0	44.0	24.0	26.5	17.0
Merged-chr12-81860244-4	chr12	81860147	81860347	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_018814, exon 1 of 36)	5' UTR (NM_018814, exon 1 of 36)	217.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	10.5	18.5	8.0	162.5	36.5	15.5	9.0	16.0
Merged-chr2-166683130-4	chr2	166683038	166683238	+	862.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	30694.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	14.5	19.0	17.0	144.0	33.0	10.0	10.5	15.5
Merged-chr6-134615449-4	chr6	134615340	134615540	+	973.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026345, intron 3 of 3)	intron (NM_026345, intron 3 of 3)	17048.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	40.0	21.0	11.0	255.5	78.5	28.0	29.5	17.0
Merged-chr4-132620123-3	chr4	132620028	132620228	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-18918.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	8.5	4.5	4.0	32.0	80.0	33.0	29.0	29.5
Merged-chr2-165326567-4	chr2	165326462	165326662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207706)	promoter-TSS (NM_207706)	-83.0	NM_207706	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	223.0	319.0	208.0	2845.5	490.0	160.0	229.0	193.5
Merged-chr9-45406286-4	chr9	45406244	45406444	+	981.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007503, intron 1 of 5)	(TG)n|Simple_repeat|Simple_repeat	267.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	38.0	57.5	47.5	281.5	74.5	20.0	17.0	18.5
Merged-chr14-54463269-4	chr14	54463158	54463358	+	923.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022993)	promoter-TSS (NM_022993)	-889.0	NM_022993	65107.0	Mm.472719	NM_022993	ENSMUSG00000022175	Lrp10	Lrp9	low-density lipoprotein receptor-related protein 10	protein-coding	20.0	22.0	10.5	147.0	49.5	15.0	24.0	12.5
Merged-chr19-37613145-4	chr19	37613056	37613256	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175353, intron 18 of 21)	intron (NM_175353, intron 18 of 21)	62738.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	13.0	27.5	7.5	367.0	77.0	31.0	34.5	26.0
Merged-chr6-30499212-3	chr6	30499107	30499307	+	841.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347087, intron 5 of 13)	intron (NM_001347087, intron 5 of 13)	10566.0	NM_001347087	72649.0	Mm.45418	NM_178625	ENSMUSG00000029782	Tmem209	2700094F01Rik|AI428435	transmembrane protein 209	protein-coding	9.0	9.5	9.5	115.0	16.0	3.5	4.5	2.0
Merged-chr11-54628526-4	chr11	54628447	54628647	+	943.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 11 of 28)	intron (NM_001252494, intron 11 of 28)	32401.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	11.5	26.0	5.5	220.5	116.5	35.5	28.0	20.5
Merged-chr17-81712612-4	chr17	81712515	81712715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	25772.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	47.5	55.5	61.5	822.0	111.5	60.5	52.5	67.0
Merged-chr12-32773964-4	chr12	32773867	32774067	+	967.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46368.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	21.0	27.0	27.5	263.5	67.5	14.0	21.5	29.5
Merged-chr11-51367489-4	chr11	51367397	51367597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153393, intron 2 of 28)	MLT1C|LTR|ERVL-MaLR	77577.0	NM_153393	237759.0	Mm.154093	NM_153393	ENSMUSG00000063564	Col23a1	2810458L13Rik|AI429655	collagen, type XXIII, alpha 1	protein-coding	55.5	70.5	30.5	824.5	83.0	40.0	64.5	48.0
Merged-chr8-121951153-4	chr8	121951106	121951306	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016812, intron 1 of 13)	CpG	714.0	NM_001285983	53325.0	Mm.287163	NM_016812	ENSMUSG00000025316	Banp	AA408158|SMAR1	BTG3 associated nuclear protein	protein-coding	13.5	21.0	6.0	274.5	51.0	18.5	23.0	22.0
Merged-chr11-106614451-4	chr11	106614354	106614554	+	999.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1524.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	43.5	33.0	23.5	669.0	82.0	16.5	39.0	45.0
Merged-chr3-5575928-1	chr3	5575828	5576028	+	1000.0	f0_balb.idr	intron (NM_008994, intron 1 of 5)	CpG	320.0	NM_001163301	19302.0	Mm.132336	NM_008994	ENSMUSG00000040374	Pex2	D3Ertd138e|PAF-1|PMP35|Pxmp3	peroxisomal biogenesis factor 2	protein-coding	126.0	171.5	141.0	2225.0	343.0	155.5	159.5	148.0
Merged-chr11-69793569-3	chr11	69793484	69793684	+	777.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009601, exon 6 of 11)	exon (NM_009601, exon 6 of 11)	2353.0	NM_009601	11443.0	Mm.86425	NM_009601	ENSMUSG00000041189	Chrnb1	Achr-2|Acrb	cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)	protein-coding	14.0	16.5	11.0	122.0	13.5	7.5	10.0	14.0
Merged-chr19-37851723-3	chr19	37851624	37851824	+	678.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	153916.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	7.0	4.5	6.5	122.5	3.0	0.0	3.0	5.0
Merged-chr4-139380560-4	chr4	139380482	139380682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160319)	promoter-TSS (NM_001160319)	-77.0	NM_001160319	69116.0	Mm.271956	NM_001160319	ENSMUSG00000066036	Ubr4	1810009A16Rik|A930005E13Rik|D930005K06Rik|Gm1032|Gm1666|N28143|RBAF600|Zubr1|mKIAA0462|p600	ubiquitin protein ligase E3 component n-recognin 4	protein-coding	162.5	281.5	94.0	1778.0	536.0	235.5	188.0	219.5
Merged-chr4-83324289-4	chr4	83324199	83324399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027238)	promoter-TSS (NM_027238)	-110.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	256.5	410.0	338.0	4328.5	686.5	251.0	384.5	261.0
Merged-chr3-109026824-4	chr3	109026694	109026894	+	903.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163567, intron 1 of 10)	intron (NM_001163567, intron 1 of 10)	813.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	0.5	17.0	7.5	108.0	30.0	10.0	25.5	25.5
Merged-chr11-82908404-4	chr11	82908315	82908515	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145431)	promoter-TSS (NM_145431)	-20.0	NM_145431	217011.0	Mm.29176	NM_145431	ENSMUSG00000020692	Nle1	AL022765|BC018399|Nle|l11Jus1|l11Jus4	notchless homolog 1	protein-coding	15.0	34.5	9.0	336.5	63.0	24.5	30.0	34.0
Merged-chr16-44962991-4	chr16	44962879	44963079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027578, intron 4 of 4)	MIR3|SINE|MIR	19301.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	134.0	165.5	150.0	2183.5	306.0	129.5	147.0	133.0
Merged-chr17-13052314-3	chr17	13052197	13052397	+	801.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013832)	promoter-TSS (NM_001013832)	-17.0	NM_001013832	436440.0	Mm.335670	NM_001013832	ENSMUSG00000071311	Gpr31b	12-HETER|GPR31c(t)|Gpr31|Gpr31c	G protein-coupled receptor 31, D17Leh66b region	protein-coding	12.0	12.5	14.0	54.5	15.0	5.5	16.5	12.0
Merged-chr13-64180426-4	chr13	64180312	64180512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019986, intron 5 of 7)	C-rich|Low_complexity|Low_complexity	18546.0	NM_019986	56541.0	Mm.40989	NM_019986	ENSMUSG00000021476	Habp4	4933413D03Rik|4933428J01Rik	hyaluronic acid binding protein 4	protein-coding	20.0	50.0	42.5	534.0	60.5	27.5	28.5	28.5
Merged-chr7-89405150-3	chr7	89405069	89405269	+	939.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360746)	promoter-TSS (NM_001360746)	803.0	NM_008055	14366.0	Mm.86755	NM_008055	ENSMUSG00000049791	Fzd4	Fz4	frizzled class receptor 4	protein-coding	4.5	13.0	8.5	146.0	8.5	1.5	6.5	14.0
Merged-chr3-60219208-3	chr3	60219116	60219316	+	805.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137347.0	NM_032400	84112.0	Mm.125110	NM_032400	ENSMUSG00000027762	Sucnr1	Gpr91	succinate receptor 1	protein-coding	7.5	19.0	15.0	73.5	18.5	7.5	8.5	0.5
Merged-chr14-67188988-4	chr14	67188889	67189089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44303.0	NM_010095	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	22.5	65.5	37.0	391.0	59.0	35.5	20.5	42.0
Merged-chr17-84340780-4	chr17	84340717	84340917	+	841.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	intron (NM_183021, intron 26 of 37)	125391.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	8.0	8.5	13.0	81.5	16.5	3.5	7.5	14.5
Merged-chr7-116620571-4	chr7	116620470	116620670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116201.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	78.5	83.5	58.5	856.5	162.5	53.5	49.5	54.0
Merged-chr13-60602585-4	chr13	60602452	60602652	+	931.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001285917, exon 2 of 27)	exon (NM_001285917, exon 2 of 27)	341.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	10.0	17.5	17.0	301.5	17.5	13.5	19.0	21.5
Merged-chr6-134425380-1	chr6	134425280	134425480	+	1000.0	f0_c57.idr	intron (NM_001355686, intron 2 of 5)	intron (NM_001355686, intron 2 of 5)	10952.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	35.0	43.5	45.5	439.0	49.5	41.0	40.0	43.5
Merged-chr7-81571789-3	chr7	81571671	81571871	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001004185, exon 1 of 10)	exon (NM_001004185, exon 1 of 10)	479.0	NM_001004185	434204.0	Mm.181641	NM_001004185	ENSMUSG00000045795	Whamm	BB081391|Whdc1|mKIAA1971	WAS protein homolog associated with actin, golgi membranes and microtubules	protein-coding	10.0	23.5	15.0	215.0	53.5	13.5	14.0	12.5
Merged-chr3-52391287-4	chr3	52391165	52391365	+	899.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122928.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	14.5	23.0	10.0	99.0	34.5	14.0	4.5	6.0
Merged-chr7-19696585-3	chr7	19696469	19696669	+	959.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009696, exon 4 of 4)	exon (NM_009696, exon 4 of 4)	1829.0	NM_001305819	11816.0	Mm.305152	NM_009696	ENSMUSG00000002985	Apoe	AI255918|Apo-E	apolipoprotein E	protein-coding	14.0	5.5	12.0	237.0	11.5	8.5	5.0	11.0
Merged-chr17-34198391-4	chr17	34198284	34198484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010724, exon 1 of 6)	5' UTR (NM_010724, exon 1 of 6)	189.0	NM_010724	16913.0	Mm.180191	NM_010724	ENSMUSG00000024338	Psmb8	Lmp-7|Lmp7	proteasome (prosome, macropain) subunit, beta type 8 (large multifunctional peptidase 7)	protein-coding	45.0	54.5	25.5	488.5	97.0	36.5	41.5	34.0
Merged-chr5-110269908-4	chr5	110269831	110270031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163538)	promoter-TSS (NM_001163538)	-32.0	NM_001163538	72542.0	Mm.61682	NM_028273	ENSMUSG00000029500	Pgam5	2610528A17Rik	phosphoglycerate mutase family member 5	protein-coding	185.0	249.5	185.5	2383.5	372.5	126.5	120.0	122.5
Merged-chr8-46923591-4	chr8	46923481	46923681	+	775.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-63306.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	6.0	14.0	8.0	136.0	20.5	9.0	16.0	13.0
Merged-chr4-107252850-1	chr4	107252750	107252950	+	710.0	f0_balb.idr	promoter-TSS (NM_001355460)	promoter-TSS (NM_001355460)	683.0	NM_029985	77809.0	Mm.29681	NM_029985	ENSMUSG00000028617	Lrrc42	A930011F22Rik|AA536996	leucine rich repeat containing 42	protein-coding	7.5	16.5	6.0	91.5	6.5	7.5	7.0	2.5
Merged-chr17-42837312-4	chr17	42837219	42837419	+	874.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009847, intron 4 of 17)	intron (NM_009847, intron 4 of 17)	39105.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	14.0	3.5	12.5	205.5	23.0	8.0	12.0	11.5
Merged-chr17-5576897-4	chr17	5576810	5577010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	84310.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	48.5	49.0	51.5	1126.0	119.0	29.5	47.0	51.0
Merged-chr1-131025959-4	chr1	131025871	131026071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6126.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	21.5	52.5	37.0	270.5	139.5	55.5	46.0	51.5
Merged-chr2-154714142-3	chr2	154714041	154714241	+	926.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57115.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	16.0	20.0	12.0	177.5	19.5	6.5	13.0	8.5
Merged-chr4-155571664-4	chr4	155571577	155571777	+	650.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355599, intron 1 of 10)	MLT1B|LTR|ERVL-MaLR	7862.0	NM_001355599	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	1.5	13.0	10.0	80.5	15.5	5.5	10.0	8.5
Merged-chr8-125528129-4	chr8	125528023	125528223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	-35290.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	54.5	83.0	33.0	702.5	88.0	23.0	37.5	25.5
Merged-chr8-85515613-4	chr8	85515490	85515690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 6 of 11)	intron (NM_173866, intron 6 of 11)	22973.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	33.0	40.0	65.0	805.5	79.5	28.0	65.0	48.5
Merged-chr11-116433950-4	chr11	116433815	116434015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003376)	promoter-TSS (NR_003376)	-179.0	NM_176902	319370.0	Mm.258466	NM_176902	ENSMUSG00000050628	Ubald2	1110014K08Rik|D030012E24Rik|Fam100b	UBA-like domain containing 2	protein-coding	327.0	470.5	307.5	3905.0	724.0	274.0	359.0	293.0
Merged-chr12-32230779-4	chr12	32230678	32230878	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22129.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	43.0	60.5	21.0	372.5	76.0	32.0	38.5	14.5
Merged-chr8-117157236-3	chr8	117157131	117157331	+	865.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081151)	promoter-TSS (NM_001081151)	-904.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	5.0	7.5	16.0	88.0	10.0	1.0	3.5	8.5
Merged-chr13-34256818-4	chr13	34256707	34256907	+	877.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	L1MB1|LINE|L1	88375.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	13.0	11.5	11.0	202.5	31.0	8.5	9.5	12.5
Merged-chr15-12306750-3	chr15	12306652	12306852	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14744.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	21.5	23.0	35.5	674.5	20.0	8.0	24.0	14.5
Merged-chr11-117848489-4	chr11	117848424	117848624	+	925.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009689)	promoter-TSS (NM_009689)	-713.0	NM_001012273	11799.0	Mm.8552	NM_009689	ENSMUSG00000017716	Birc5	AAC-11|Api4|TIAP|survivin40	baculoviral IAP repeat-containing 5	protein-coding	14.5	6.5	11.5	137.0	34.5	9.5	6.5	16.0
Merged-chr4-47314125-4	chr4	47314044	47314244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009928)	TTS (NM_009928)	-39078.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	87.0	177.5	91.0	1171.0	301.0	97.5	94.0	68.0
Merged-chr4-95849798-4	chr4	95849711	95849911	+	957.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	intron (NM_001113412, intron 14 of 15)	117224.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	13.5	19.0	17.0	291.0	44.5	10.5	20.5	16.0
Merged-chr3-109476845-4	chr3	109476771	109476971	+	666.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-97136.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	5.0	7.5	6.5	45.5	0.5	1.5	3.0	1.5
Merged-chr4-59565990-4	chr4	59565898	59566098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-15565.0	NM_001301367	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	63.0	43.5	56.5	993.5	123.5	31.5	27.0	41.0
Merged-chr18-40440688-3	chr18	40440600	40440800	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026135, intron 1 of 1)	MTD|LTR|ERVL-MaLR	182339.0	NM_026135	383348.0	Mm.76366	NM_026135	ENSMUSG00000051401	Kctd16	4930434H12Rik|Gm1267	potassium channel tetramerisation domain containing 16	protein-coding	6.0	1.0	3.0	61.0	75.0	31.0	41.5	37.5
Merged-chr13-65226438-4	chr13	65226355	65226555	+	870.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-20739.0	NM_175290	97895.0	Mm.315815	NM_175290	ENSMUSG00000032999	Nlrp4f	C330026N02Rik|C86045|Nalp-kappa|Nalp4f	NLR family, pyrin domain containing 4F	protein-coding	11.0	22.0	11.0	164.0	49.0	25.5	22.0	18.0
Merged-chr4-144956042-3	chr4	144955943	144956143	+	927.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	62906.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	14.0	16.0	20.5	221.5	12.5	9.5	8.0	6.0
Merged-chr17-10392891-4	chr17	10392800	10393000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63316.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	88.5	101.0	118.0	1840.0	210.0	66.0	122.5	84.0
Merged-chr2-22724330-4	chr2	22724234	22724434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-49993.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	64.0	97.0	111.5	916.0	126.5	56.5	70.5	76.5
Merged-chr17-47511272-4	chr17	47511163	47511363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	6212.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	146.0	263.0	147.0	1903.0	386.0	148.5	131.0	130.0
Merged-chr18-80468599-4	chr18	80468476	80468676	+	919.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026295, intron 1 of 12)	intron (NM_026295, intron 1 of 12)	1091.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	12.5	19.0	16.5	237.0	30.5	11.0	14.5	19.0
Merged-chr18-3329076-3	chr18	3328982	3329182	+	678.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110851, intron 1 of 4)	B2_Mm1t|SINE|B2	-1491.0	NM_001110850	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	4.0	18.5	11.0	55.0	12.0	7.0	11.5	8.5
Merged-chr4-84065342-1	chr4	84065242	84065442	+	772.0	f0_balb.idr	Intergenic	Intergenic	-20463.0	NR_130998	78238.0	Mm.243903	NR_130998	ENSMUSG00000085217	6030471H07Rik	-	RIKEN cDNA 6030471H07 gene	ncRNA	13.5	14.5	6.0	109.5	0.0	1.0	1.0	3.5
Merged-chr13-51312162-4	chr13	51312064	51312264	+	919.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96454.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	18.0	12.5	24.5	350.0	38.0	7.0	24.5	20.0
Merged-chr3-10213442-1	chr3	10213342	10213542	+	896.0	f0_balb.idr	Intergenic	Intergenic	-4826.0	NM_024406	11770.0	Mm.582	NM_024406	ENSMUSG00000062515	Fabp4	422/aP2|AFABP|ALBP|ALBP/Ap2|Ap2|Lbpl|P15	fatty acid binding protein 4, adipocyte	protein-coding	4.5	5.0	6.0	184.5	12.5	4.0	7.0	5.0
Merged-chr11-23211232-3	chr11	23211135	23211335	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44806.0	NM_001035226	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	15.5	22.5	13.5	87.5	31.5	2.5	8.5	11.5
Merged-chr4-118152557-2	chr4	118152466	118152666	+	998.5	f0_balb.idr|f0_c57.idr	intron (NM_001161823, intron 12 of 21)	intron (NM_001161823, intron 12 of 21)	-17620.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	32.0	18.5	14.5	364.5	44.5	15.0	23.0	38.0
Merged-chr6-82039390-1	chr6	82039290	82039490	+	553.0	f0_balb.idr	Intergenic	Intergenic	-2238.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	6.5	6.0	5.5	101.0	6.5	0.0	0.5	0.5
Merged-chr14-70833948-2	chr14	70833850	70834050	+	665.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-18983.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	0.0	0.0	0.0	0.0	19.0	11.0	14.5	13.0
Merged-chr13-94050245-4	chr13	94050131	94050331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7565.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	21.5	24.0	18.0	414.0	32.5	3.0	26.0	6.5
Merged-chr10-21566294-4	chr10	21566201	21566401	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26844.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	11.5	16.0	7.5	148.5	47.0	18.0	21.5	24.0
Merged-chr18-70437655-4	chr18	70437567	70437767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34787.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	19.0	20.5	30.5	484.0	51.5	29.0	35.5	32.0
Merged-chr10-41958847-4	chr10	41958734	41958934	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 10 of 17)	intron (NM_001034858, intron 10 of 17)	59548.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	4.5	22.5	25.5	319.5	68.0	18.0	18.0	16.5
Merged-chr13-46810284-3	chr13	46810176	46810376	+	817.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 14 of 37)	ORR1E|LTR|ERVL-MaLR	-82427.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	6.0	7.0	2.0	46.0	47.5	9.5	13.5	13.5
Merged-chr3-148279216-1	chr3	148279116	148279316	+	663.5	f0_balb.idr	Intergenic	Intergenic	675419.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	9.5	5.0	8.0	112.5	6.5	1.5	14.0	8.5
Merged-chr4-139092955-3	chr4	139092850	139093050	+	690.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008675)	promoter-TSS (NM_008675)	20.0	NM_008675	17965.0	Mm.9404	NM_008675	ENSMUSG00000041120	Nbl1	D4H1S1733E|DAN|Dana|NO3	neuroblastoma, suppression of tumorigenicity 1	protein-coding	10.0	6.0	5.5	56.5	12.5	3.5	5.0	5.0
Merged-chr5-117667093-4	chr5	117666999	117667199	+	819.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 5 of 19)	intron (NM_001312914, intron 5 of 19)	-199740.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	7.0	9.5	17.0	64.5	36.5	11.5	16.5	15.0
Merged-chr8-46769538-4	chr8	46769468	46769668	+	944.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	ORR1E|LTR|ERVL-MaLR	29823.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	28.0	38.5	25.0	303.5	31.5	12.5	17.5	14.0
Merged-chr3-94588174-4	chr3	94588077	94588277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E1A|LTR|ERVL-MaLR	-5461.0	NM_029721	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	151.5	196.5	213.5	2282.0	242.0	123.5	109.0	77.0
Merged-chr5-43423213-4	chr5	43423113	43423313	+	864.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92356.0	NM_001135172	109323.0	Mm.275553	NM_175425	ENSMUSG00000061535	C1qtnf7	5530401N20Rik|8430425G24Rik|Ctrp7	C1q and tumor necrosis factor related protein 7	protein-coding	9.5	17.0	15.0	256.5	24.0	9.5	22.0	17.5
Merged-chr15-50703991-4	chr15	50703903	50704103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	185046.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	88.5	195.0	66.0	601.0	242.5	111.5	68.0	52.0
Merged-chr1-152784365-4	chr1	152784270	152784470	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-15783.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	14.5	43.0	14.5	229.0	53.5	17.5	21.0	33.0
Merged-chr5-112950394-4	chr5	112950253	112950453	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 9 of 20)	intron (NM_001285806, intron 9 of 20)	-53991.0	NM_028901	74376.0	Mm.441903	NM_028901	ENSMUSG00000072720	Myo18b	4932408L24Rik|4933411E19Rik|Gm448	myosin XVIIIb	protein-coding	19.5	27.5	22.5	361.0	38.0	12.5	13.0	24.0
Merged-chr12-112679256-3	chr12	112679221	112679421	+	979.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001100460, intron 1 of 1)	CpG	481.0	NM_001100460	382639.0	Mm.11350	NM_001100460	ENSMUSG00000037638	Zbtb42	EG382639|Gm5188|simiRP58	zinc finger and BTB domain containing 42	protein-coding	10.0	4.5	13.0	109.5	18.5	9.5	11.0	8.5
Merged-chr12-40656092-4	chr12	40655978	40656178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 8 of 52)	intron (NM_172803, intron 8 of 52)	210025.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	54.5	80.0	30.5	935.0	146.5	60.5	49.0	56.0
Merged-chr12-100925200-4	chr12	100925100	100925300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026681, intron 25 of 29)	intron (NM_026681, intron 25 of 29)	-17002.0	NM_001177673	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	40.5	53.0	26.0	550.5	71.5	27.5	23.0	26.5
Merged-chr8-123373743-4	chr8	123373653	123373853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037877)	promoter-TSS (NM_001037877)	42.0	NM_001286363	66855.0	Mm.178818	NM_025804	ENSMUSG00000001472	Tcf25	1100001J13Rik|1810041K11Rik|D8Ertd325e|Nulp1|mKIAA1049	transcription factor 25 (basic helix-loop-helix)	protein-coding	177.5	224.5	90.5	1745.0	360.0	136.0	142.5	104.0
Merged-chr10-61146364-4	chr10	61146253	61146453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316674, intron 1 of 14)	CpG	1331.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	76.0	99.5	103.5	1181.0	193.5	70.5	68.0	83.0
Merged-chr1-44064825-2	chr1	44064725	44064925	+	972.9166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37616.0	NM_029368	75623.0	Mm.348017	NM_029368	ENSMUSG00000026049	Tex30	1700029F09Rik|3110030D08Rik	testis expressed 30	protein-coding	6.0	5.5	6.0	113.5	33.5	4.5	7.5	9.5
Merged-chr8-104370607-4	chr8	104370543	104370743	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	L1MC4|LINE|L1	25164.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	21.0	18.0	34.0	484.5	48.5	15.5	19.5	26.0
Merged-chr12-80895351-4	chr12	80895206	80895406	+	891.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29141.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	8.5	21.0	11.0	178.0	34.0	9.0	13.0	11.5
Merged-chr16-23283187-4	chr16	23283087	23283287	+	723.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	MTB_Mm|LTR|ERVL-MaLR	-7283.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	6.0	13.0	4.5	101.5	27.5	6.5	12.0	17.0
Merged-chr3-105016408-3	chr3	105016308	105016508	+	907.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 3 of 5)	L1ME2|LINE|L1	36545.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	14.5	17.5	5.5	184.5	24.5	4.0	5.0	5.0
Merged-chr7-88231347-4	chr7	88231256	88231456	+	975.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46729.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	22.5	29.0	30.5	329.0	77.5	22.5	19.5	14.5
Merged-chr12-20815781-4	chr12	20815674	20815874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015521)	promoter-TSS (NR_015521)	5.0	NR_015521	69513.0	Mm.273972	NR_015521	ENSMUSG00000099759	1700030C10Rik	-	RIKEN cDNA 1700030C10 gene	ncRNA	59.0	49.0	58.0	890.0	64.5	23.0	47.0	23.5
Merged-chr4-4792742-3	chr4	4792649	4792849	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177730, exon 1 of 5)	exon (NM_177730, exon 1 of 5)	557.0	NM_177730	242291.0	Mm.218889	NM_177730	ENSMUSG00000066324	Impad1	1110001C20Rik|AA408880|AI451589|AL022796|B230207P20|Jaws|gPAPP	inositol monophosphatase domain containing 1	protein-coding	14.5	16.0	24.5	205.5	31.5	12.5	16.5	14.5
Merged-chr2-147010366-4	chr2	147010252	147010452	+	695.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-2647.0	NM_001356403	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	12.0	9.0	3.5	128.0	51.0	11.5	13.0	5.5
Merged-chr3-89714513-3	chr3	89714416	89714616	+	820.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357958)	promoter-TSS (NM_001357958)	-506.0	NM_001038587	56417.0	Mm.316628	NM_019655	ENSMUSG00000027951	Adar	AV242451|Adar1|Adar1p110|Adar1p150|DRADA|mZaADAR	adenosine deaminase, RNA-specific	protein-coding	8.0	14.5	2.5	52.5	29.0	4.5	8.0	12.5
Merged-chr2-110017781-4	chr2	110017688	110017888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026613)	promoter-TSS (NM_026613)	-29.0	NM_001355581	68201.0	Mm.181767	NM_026613	ENSMUSG00000027160	Ccdc34	2810027O19Rik|4930522P10Rik|AI596202	coiled-coil domain containing 34	protein-coding	167.0	199.5	182.5	3192.5	289.0	75.5	158.0	124.0
Merged-chr14-17850963-6	chr14	17850808	17851008	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	MER2|DNA|TcMar-Tigger	-130736.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	7.5	12.0	6.0	143.0	32.0	11.0	5.5	14.5
Merged-chr13-52600480-4	chr13	52600379	52600579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	intron (NM_011518, intron 1 of 13)	3597.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	67.5	216.5	122.0	988.5	247.5	69.0	87.0	33.0
Merged-chr9-65493084-4	chr9	65493006	65493206	+	966.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30405.0	NM_001357813	27965.0	Mm.272475	NM_138584	ENSMUSG00000032388	Spg21	ACP33|BM-019|C78576|D9Wsu18e|GL010|MAST	SPG21, maspardin	protein-coding	20.5	18.0	11.5	346.5	45.0	5.0	21.5	18.0
Merged-chr3-144607242-3	chr3	144607132	144607332	+	893.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER102b|DNA|hAT-Charlie	36805.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	18.5	19.5	32.0	365.5	5.5	6.0	12.5	5.0
Merged-chr19-47855015-4	chr19	47854907	47855107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010362)	promoter-TSS (NM_010362)	34.0	NM_010362	14873.0	Mm.378931	NM_010362	ENSMUSG00000025068	Gsto1	AA407097|AI194287|AU018802|Gsto-1|Gstx|Spg-r|p28	glutathione S-transferase omega 1	protein-coding	62.0	121.5	65.0	866.0	140.5	45.5	67.5	48.5
Merged-chr11-5787777-4	chr11	5787699	5787899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146308)	promoter-TSS (NM_001146308)	-684.0	NM_001146309	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	36.0	53.0	42.0	414.0	94.0	29.5	30.0	40.0
Merged-chr5-146897146-4	chr5	146897053	146897253	+	961.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51504.0	NM_025652	66596.0	Mm.196528	NM_025652	ENSMUSG00000016503	Gtf3a	2010015D03Rik|2610111I01Rik|5330403M05Rik	general transcription factor III A	protein-coding	11.5	27.5	13.5	275.5	68.5	17.0	27.0	27.0
Merged-chr11-68407435-4	chr11	68407367	68407567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20641.0	NM_008744	18208.0	Mm.39095	NM_008744	ENSMUSG00000020902	Ntn1	AI561871|BC019633|Netrin-1	netrin 1	protein-coding	31.5	29.5	34.0	658.5	53.5	22.5	27.5	35.0
Merged-chr1-157416801-4	chr1	157416694	157416894	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027984, intron 2 of 2)	intron (NR_027984, intron 2 of 2)	-4199.0	NM_177644	226525.0	Mm.235028	NM_177644	ENSMUSG00000070565	Rasal2	6530401P13|A330066M24Rik	RAS protein activator like 2	protein-coding	5.5	8.0	14.5	180.0	27.0	10.5	9.5	12.0
Merged-chr4-24899389-4	chr4	24899291	24899491	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026742, intron 2 of 2)	L2a|LINE|L2	1308.0	NM_026742	68493.0	Mm.204831	NM_026742	ENSMUSG00000028261	Ndufaf4	1110007M04Rik|3000003G13Rik|AW214064	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4	protein-coding	13.0	18.0	7.0	347.0	19.5	6.5	16.5	15.0
Merged-chr10-68759403-4	chr10	68759288	68759488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177794, intron 4 of 5)	ORR1E|LTR|ERVL-MaLR	35642.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	26.5	39.0	27.5	453.0	98.5	51.5	43.0	19.5
Merged-chr10-84778202-4	chr10	84778136	84778336	+	946.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024918, intron 1 of 17)	intron (NM_001024918, intron 1 of 17)	22188.0	NM_001024918	71137.0	Mm.79070	NM_027689	ENSMUSG00000020037	Rfx4	4933412G19Rik|NYD-sp10	regulatory factor X, 4 (influences HLA class II expression)	protein-coding	12.0	10.5	14.0	240.5	32.5	2.5	21.5	18.5
Merged-chr7-127406667-7	chr7	127406515	127406715	+	982.214294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001167832, exon 1 of 3)	5' UTR (NM_001167832, exon 1 of 3)	207.0	NM_146203	233893.0	Mm.297097	NM_146203	ENSMUSG00000045757	Zfp764	8030466O12Rik	zinc finger protein 764	protein-coding	14.5	18.5	8.5	97.5	36.0	6.0	8.5	20.0
Merged-chr18-35730490-4	chr18	35730386	35730586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033168, exon 2 of 2)	3' UTR (NM_001033168, exon 2 of 2)	3497.0	NM_001033168	73449.0	Mm.379225	NM_001033168	ENSMUSG00000073598	1700066B19Rik	SMIM33	RIKEN cDNA 1700066B19 gene	protein-coding	78.0	96.0	79.5	1578.0	180.5	63.5	131.5	104.0
Merged-chr1-173977810-4	chr1	173977726	173977926	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008327, intron 1 of 6)	intron (NM_008327, intron 1 of 6)	5018.0	NM_008327	26388.0	Mm.218770	NM_008327	ENSMUSG00000026535	Ifi202b	Ifbip-1|Ifi202|Ifi202a|p202	interferon activated gene 202B	protein-coding	79.5	79.5	43.0	1102.0	38.0	6.0	14.5	10.5
Merged-chr2-91928049-4	chr2	91927957	91928157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007699, exon 2 of 2)	exon (NM_007699, exon 2 of 2)	3645.0	NM_001291481	17242.0	Mm.906	NM_010784	ENSMUSG00000027239	Mdk	MK|Mek	midkine	protein-coding	38.0	59.5	34.5	597.0	71.0	28.0	34.5	40.0
Merged-chr4-134098824-4	chr4	134098717	134098917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3744.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	148.0	220.0	127.0	1713.0	303.5	121.0	137.0	103.0
Merged-chr8-124021339-4	chr8	124021223	124021423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133966)	promoter-TSS (NM_133966)	74.0	NM_133966	102162.0	Mm.291777	NM_133966	ENSMUSG00000038697	Taf5l	1110005N04Rik|AI849020	TATA-box binding protein associated factor 5 like	protein-coding	65.5	137.5	89.5	837.0	172.0	54.5	44.0	67.5
Merged-chr11-119058149-4	chr11	119058047	119058247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17234.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	30.5	73.5	36.0	274.5	66.0	25.5	22.5	25.0
Merged-chr7-80778573-4	chr7	80778430	80778630	+	894.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	24801.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	7.0	6.0	6.0	158.0	20.5	3.0	10.5	16.0
Merged-chr7-143020933-4	chr7	143020832	143021032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110354)	TTS (NR_110354)	15273.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	45.5	67.5	64.5	837.5	154.0	43.0	73.0	64.0
Merged-chr5-139735774-4	chr5	139735681	139735881	+	813.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174850, intron 1 of 16)	intron (NM_174850, intron 1 of 16)	552.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	3.5	7.5	8.0	105.0	12.5	10.0	16.0	10.5
Merged-chr4-116683240-4	chr4	116683142	116683342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2357.0	NM_011034	18477.0	Mm.30929	NM_011034	ENSMUSG00000028691	Prdx1	MSP23|NkefA|OSF-3|OSF3|PAG|Paga|PrdxI|PrxI|TDX2|TPxA|Tdpx2|prx1	peroxiredoxin 1	protein-coding	44.5	47.0	40.5	551.5	124.0	48.5	41.0	51.0
Merged-chr15-55291993-4	chr15	55291898	55292098	+	966.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15752.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	16.0	26.0	11.0	259.0	34.5	20.5	19.5	18.0
Merged-chr2-29664276-4	chr2	29664165	29664365	+	866.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	44545.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	16.5	22.0	13.5	112.5	29.5	17.0	12.5	23.5
Merged-chr12-83632174-4	chr12	83632074	83632274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027349)	promoter-TSS (NM_027349)	-60.0	NM_027349	67039.0	Mm.46005	NM_027349	ENSMUSG00000010608	Rbm25	2600011C06Rik|2610015J01Rik|A130095G20Rik|AI159652|AL023075|AU043498|RNPC7	RNA binding motif protein 25	protein-coding	236.0	319.5	134.0	2266.5	514.0	237.0	214.5	169.5
Merged-chr15-64189453-4	chr15	64189355	64189555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	123218.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	36.5	65.5	33.0	641.0	92.5	42.0	32.0	31.0
Merged-chr12-98267812-4	chr12	98267708	98267908	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008152)	promoter-TSS (NM_008152)	-827.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	22.0	16.5	20.5	434.0	44.5	13.0	29.0	21.5
Merged-chr11-87448286-4	chr11	87448206	87448406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	CpG	20715.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	81.5	67.5	36.5	422.0	150.5	42.0	94.5	53.5
Merged-chr18-38190694-4	chr18	38190584	38190784	+	969.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19078.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	21.0	13.5	22.5	250.5	42.0	20.5	27.0	29.0
Merged-chr19-3378382-1	chr19	3378282	3378482	+	798.0	f0_c57.idr	exon (NM_013495, exon 15 of 19)	exon (NM_013495, exon 15 of 19)	-10475.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	9.5	14.0	8.0	181.0	30.5	17.0	12.0	9.5
Merged-chr6-115375853-2	chr6	115375765	115375965	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001308354, intron 1 of 7)	Lx8b|LINE|L1	13516.0	NM_001308354	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	31.0	33.0	13.5	434.5	76.0	17.5	36.0	37.5
Merged-chr9-92303572-3	chr9	92303469	92303669	+	852.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5808.0	NM_001033184	78459.0	Mm.179195	NM_001033184	ENSMUSG00000074139	1700057G04Rik	-	RIKEN cDNA 1700057G04 gene	protein-coding	25.0	36.5	42.5	477.0	0.0	0.0	0.0	1.0
Merged-chr5-123398040-4	chr5	123397920	123398120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133917, intron 1 of 16)	intron (NM_133917, intron 1 of 16)	3222.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	41.5	46.0	22.5	473.5	91.0	22.0	26.5	31.0
Merged-chr3-30860252-2	chr3	30860152	30860352	+	948.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286994, intron 1 of 3)	L1_Mus2|LINE|L1	4302.0	NM_001286994	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	6.0	19.0	8.0	28.5	17.5	2.5	4.5	8.0
Merged-chr9-96396643-4	chr9	96396573	96396773	+	895.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32242.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	7.0	16.0	6.0	75.0	39.5	14.0	7.5	7.5
Merged-chr11-107473311-4	chr11	107473213	107473413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2593.0	NM_145823	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	37.5	53.0	16.0	403.0	70.5	22.0	26.5	32.5
Merged-chr9-56891622-4	chr9	56891516	56891716	+	870.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139001, intron 5 of 9)	intron (NM_139001, intron 5 of 9)	26512.0	NM_139001	121021.0	Mm.41329	NM_139001	ENSMUSG00000032911	Cspg4	4732461B14Rik|AN2|NG2	chondroitin sulfate proteoglycan 4	protein-coding	15.0	13.5	5.0	202.0	26.0	17.5	11.5	23.5
Merged-chr4-8788817-3	chr4	8788721	8788921	+	833.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 2 of 36)	intron (NM_001355382, intron 2 of 36)	37497.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	16.5	9.5	12.5	113.0	8.0	6.5	6.5	15.0
Merged-chr19-23114649-4	chr19	23114550	23114750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26576.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	36.0	38.0	26.0	686.5	94.0	32.0	31.0	40.0
Merged-chr2-122440750-4	chr2	122440660	122440860	+	841.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172980)	promoter-TSS (NM_172980)	-60.0	NM_172980	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	11.5	23.0	15.5	115.0	48.0	19.5	38.0	22.5
Merged-chr6-134247509-4	chr6	134247403	134247603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 5 of 8)	intron (NM_001303102, intron 5 of 8)	-148826.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	50.0	71.5	48.0	493.0	120.0	48.5	76.0	65.5
Merged-chr11-3290054-4	chr11	3289988	3290188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253691)	promoter-TSS (NM_001253691)	-369.0	NM_001253690	56218.0	Mm.275563	NM_019574	ENSMUSG00000020453	Patz1	8430401L15Rik|AI447519|Mazr|Patz|Zfp278	POZ (BTB) and AT hook containing zinc finger 1	protein-coding	32.0	45.0	48.0	483.0	70.5	24.5	32.5	28.5
Merged-chr5-3368444-3	chr5	3368324	3368524	+	802.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	24531.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	7.0	0.0	9.0	128.0	19.0	6.0	5.5	6.0
Merged-chr14-45142777-4	chr14	45142685	45142885	+	901.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310534, intron 18 of 20)	intron (NM_001310534, intron 18 of 20)	76640.0	NM_172597	70561.0	Mm.28129	NM_172597	ENSMUSG00000021830	Txndc16	5730420B22Rik|C77647	thioredoxin domain containing 16	protein-coding	7.0	10.0	17.5	267.0	23.0	6.5	15.5	18.5
Merged-chr16-35983979-4	chr16	35983880	35984080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008465, intron 1 of 13)	CpG	617.0	NM_008465	16646.0	Mm.3991	NM_008465	ENSMUSG00000022905	Kpna1	AW494490|IPOA5|NPI1|Rch2|mSRP1	karyopherin (importin) alpha 1	protein-coding	37.0	76.5	52.5	703.5	144.5	42.5	84.0	55.0
Merged-chr13-10210908-4	chr13	10210794	10210994	+	891.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 2 of 4)	CT-rich|Low_complexity|Low_complexity	149909.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	8.0	8.0	14.0	310.0	28.5	4.5	8.5	11.5
Merged-chr17-26540047-4	chr17	26539953	26540153	+	867.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB1|LINE|L1	-21459.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	18.5	23.5	18.5	171.0	25.5	19.5	5.5	11.5
Merged-chr19-40995780-3	chr19	40995670	40995870	+	875.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1235.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	22.0	22.0	17.0	222.5	14.5	3.5	4.0	6.0
Merged-chr5-31871000-4	chr5	31870916	31871116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 6 of 11)	MTEa|LTR|ERVL-MaLR	172966.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	47.0	52.5	51.0	781.0	90.5	31.5	47.0	41.0
Merged-chr17-50491679-4	chr17	50491578	50491778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER105|DNA|DNA	-17869.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	22.0	79.0	38.0	419.0	122.0	29.0	25.5	25.0
Merged-chr4-131874087-4	chr4	131873983	131874183	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020587, intron 1 of 5)	CpG	444.0	NM_020587	57317.0	Mm.2478	NM_020587	ENSMUSG00000028911	Srsf4	5730499P16Rik|AW550192|MNCb-2616|SRp75|Sfrs4	serine/arginine-rich splicing factor 4	protein-coding	22.5	29.5	15.5	397.5	82.5	35.0	27.5	27.5
Merged-chr5-105595367-3	chr5	105595277	105595477	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	75906.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	7.0	36.5	11.0	177.5	54.0	25.0	17.0	29.5
Merged-chr18-82840567-4	chr18	82840498	82840698	+	929.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15299.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	14.0	22.0	14.5	189.0	33.5	12.0	14.0	9.0
Merged-chr5-147063514-3	chr5	147063426	147063626	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080795, intron 1 of 9)	intron (NM_080795, intron 1 of 9)	13046.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	47.5	60.5	43.5	678.0	5.0	3.5	2.0	3.5
Merged-chr9-20961695-4	chr9	20961605	20961805	+	899.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1817.0	NM_001199432	13433.0	Mm.128580	NM_010066	ENSMUSG00000004099	Dnmt1	Cxxc9|Dnmt|Dnmt1o|MCMT|MTase|Met-1|Met1|MommeD2|m.MmuI	DNA methyltransferase (cytosine-5) 1	protein-coding	17.5	17.0	25.5	287.0	27.0	11.0	15.5	10.5
Merged-chr18-12760912-4	chr18	12760805	12761005	+	864.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252490, intron 10 of 13)	intron (NM_001252490, intron 10 of 13)	19550.0	NM_027687	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	12.5	6.0	8.0	90.0	41.0	6.0	12.5	12.5
Merged-chr3-135421249-4	chr3	135421125	135421325	+	864.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025902, intron 1 of 2)	ID_B1|SINE|B4	2208.0	NM_025902	67006.0	Mm.269993	NM_025902	ENSMUSG00000028165	Cisd2	1500009M05Rik|1500026J14Rik|1500031D15Rik|AI848398|B630006A20Rik|Miner1|Naf-1|Noxp70|Zcd2	CDGSH iron sulfur domain 2	protein-coding	11.0	6.0	15.5	226.5	28.0	5.0	28.0	10.5
Merged-chr3-139012590-4	chr3	139012496	139012696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286759, intron 4 of 14)	intron (NM_001286759, intron 4 of 14)	62605.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	18.0	31.0	23.0	415.0	89.0	26.5	28.5	35.5
Merged-chr14-51163580-4	chr14	51163479	51163679	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019398)	TTS (NM_019398)	1319.0	NM_019398	54159.0	Mm.377125	NM_019398	ENSMUSG00000059606	Rnase2b	Ear5|Raf4|mR5	ribonuclease, RNase A family, 2B (liver, eosinophil-derived neurotoxin)	protein-coding	18.5	37.5	18.0	250.0	75.0	26.5	30.5	36.5
Merged-chr8-95321026-2	chr8	95320926	95321126	+	767.375	f1_balb.idr|f1_c57bl6.idr	intron (NM_199455, intron 7 of 7)	intron (NM_199455, intron 7 of 7)	9428.0	NM_199455	73407.0	Mm.472783	NM_028532	ENSMUSG00000090206	Tepp	1700055M20Rik	testis, prostate and placenta expressed	protein-coding	8.0	14.5	6.5	64.5	27.0	2.0	7.0	5.0
Merged-chr1-165211012-4	chr1	165210912	165211112	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY3-int|LTR|ERVK	-16574.0	NR_151712	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	24.0	28.0	15.5	195.0	18.0	4.0	24.0	13.5
Merged-chr8-107100486-4	chr8	107100360	107100560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-3915.0	NR_104410	21750.0	Mm.6402	NM_009353	ENSMUSG00000031921	Terf2	TRF2	telomeric repeat binding factor 2	protein-coding	30.0	53.0	23.0	423.0	61.0	19.5	41.5	27.0
Merged-chr18-36508648-3	chr18	36508575	36508775	+	742.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010415, intron 3 of 5)	intron (NM_010415, intron 3 of 5)	7130.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	4.5	22.0	6.5	63.5	11.5	8.0	2.5	1.0
Merged-chr5-99220579-4	chr5	99220436	99220636	+	894.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181318, intron 13 of 13)	intron (NM_181318, intron 13 of 13)	32391.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	11.0	13.0	12.0	101.5	29.0	8.5	7.5	10.0
Merged-chr14-51931031-1	chr14	51930931	51931131	+	671.0	f0_balb.idr	Intergenic	Intergenic	-8258.0	NM_001011687	497071.0	Mm.378602	NM_001011687	ENSMUSG00000068392	Rnase13	-	ribonuclease, RNase A family, 13 (non-active)	protein-coding	7.5	13.0	8.0	122.5	13.0	3.0	1.5	2.0
Merged-chr1-91955068-4	chr1	91954963	91955163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 22 of 26)	intron (NM_207225, intron 22 of 26)	153602.0	NM_007855	13345.0	Mm.9474	NM_007855	ENSMUSG00000007805	Twist2	Dermo1|bHLHa39	twist basic helix-loop-helix transcription factor 2	protein-coding	27.0	37.0	37.0	729.5	108.0	30.0	32.0	42.5
Merged-chr15-59525948-4	chr15	59525840	59526040	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	-122714.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	21.5	29.0	29.5	229.0	30.5	22.5	18.0	33.5
Merged-chr10-81431916-4	chr10	81431818	81432018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4745.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	26.0	22.0	22.5	234.5	61.0	24.0	28.0	18.5
Merged-chr4-6376741-4	chr4	6376624	6376824	+	890.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	11044.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	13.5	15.5	24.0	319.5	21.0	10.0	6.0	14.5
Merged-chr1-166339313-4	chr1	166339199	166339399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39868.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	99.5	128.0	93.5	2059.0	219.0	72.5	123.5	100.5
Merged-chr17-55752598-4	chr17	55752499	55752699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139138, intron 1 of 16)	intron (NM_139138, intron 1 of 16)	2615.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	81.0	164.5	83.5	1132.5	114.0	44.0	48.5	24.5
Merged-chr9-124016795-4	chr9	124016700	124016900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5171.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	43.5	48.5	22.5	708.5	44.5	8.0	16.5	27.0
Merged-chr1-131511274-4	chr1	131511159	131511359	+	939.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	16102.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	25.5	25.0	13.5	297.5	55.0	9.0	14.5	27.0
Merged-chr8-84660182-4	chr8	84660106	84660306	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2646.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	44.0	92.0	54.0	382.0	82.5	28.5	14.5	25.0
Merged-chr17-13740966-4	chr17	13740856	13741056	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022311, intron 1 of 2)	intron (NM_022311, intron 1 of 2)	-19585.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	13.5	16.0	14.0	207.0	27.0	12.5	13.0	10.5
Merged-chr3-130690918-4	chr3	130690779	130690979	+	822.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	18565.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	4.5	13.0	4.5	85.5	15.5	5.5	7.5	7.0
Merged-chr19-4214421-7	chr19	4214282	4214482	+	873.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310039)	promoter-TSS (NM_001310039)	-7.0	NM_001310039	56708.0	Mm.347919	NM_019952	ENSMUSG00000040663	Clcf1	BSF-3|Bsf3|CLC|NNT-1	cardiotrophin-like cytokine factor 1	protein-coding	11.0	27.0	4.5	63.0	39.0	14.0	3.0	9.5
Merged-chr10-121498097-4	chr10	121497997	121498197	+	865.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21847.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	15.0	29.5	23.5	393.5	19.5	10.0	18.0	10.5
Merged-chr15-33211578-4	chr15	33211459	33211659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018755, intron 2 of 8)	intron (NM_018755, intron 2 of 8)	128430.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	82.0	91.5	98.5	1351.0	200.0	53.5	83.5	80.0
Merged-chr1-23915600-4	chr1	23915515	23915715	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357395, intron 1 of 10)	RSINE1|SINE|B4	-5879.0	NM_001290683	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	6.0	10.5	15.0	391.0	98.5	17.0	54.5	37.5
Merged-chr14-75121836-3	chr14	75121732	75121932	+	857.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027581, intron 5 of 9)	intron (NM_027581, intron 5 of 9)	9051.0	NM_027581	70859.0	Mm.320289	NM_027581	ENSMUSG00000021997	Lrrc63	4921509B22Rik	leucine rich repeat containing 63	protein-coding	10.0	10.0	7.0	170.0	20.0	3.5	12.0	6.0
Merged-chr2-122369180-4	chr2	122369067	122369267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013829)	promoter-TSS (NM_001013829)	-249.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	170.0	210.5	159.0	3004.5	455.5	140.5	234.5	131.0
Merged-chr6-146577681-5	chr6	146577577	146577777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347513)	promoter-TSS (NM_001347513)	158.0	NM_001362108	71177.0	Mm.271774	NM_138757	ENSMUSG00000040250	Ints13	4933424B01Rik|Asun|Spata30	integrator complex subunit 13	protein-coding	97.0	150.0	144.5	1343.5	202.5	108.5	102.0	108.5
Merged-chr10-127514389-3	chr10	127514304	127514504	+	994.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098789)	promoter-TSS (NM_001098789)	-535.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	12.0	17.5	15.5	141.0	11.5	5.0	1.0	6.0
Merged-chr15-61988011-6	chr15	61987872	61988072	+	934.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010849, exon 2 of 3)	exon (NM_010849, exon 2 of 3)	2631.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	12.5	17.0	14.0	140.5	24.5	5.5	7.0	3.0
Merged-chr4-156228017-4	chr4	156227911	156228111	+	973.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008233, intron 2 of 15)	intron (NM_001008233, intron 2 of 15)	531.0	NM_001008233	231002.0	Mm.423124	NM_001008233	ENSMUSG00000078485	Plekhn1	BC025458	pleckstrin homology domain containing, family N member 1	protein-coding	15.5	19.0	15.0	220.5	66.0	13.0	23.5	27.0
Merged-chr4-129829937-4	chr4	129829787	129829987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164745, intron 1 of 5)	intron (NM_001164745, intron 1 of 5)	9179.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	37.0	91.0	54.5	523.0	93.5	22.5	34.0	34.0
Merged-chr6-124279123-3	chr6	124279027	124279227	+	941.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25524.0	NM_001170395	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	12.0	5.5	17.0	211.5	16.5	7.5	8.0	5.5
Merged-chr19-53535656-3	chr19	53535533	53535733	+	895.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085390, intron 2 of 3)	intron (NM_001085390, intron 2 of 3)	6315.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	11.0	25.5	27.0	382.5	5.5	2.5	1.0	3.0
Merged-chr5-43883131-4	chr5	43883020	43883220	+	871.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	14311.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	23.0	18.5	6.0	366.5	24.5	14.5	12.5	12.5
Merged-chr19-29521204-4	chr19	29521097	29521297	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015567, intron 1 of 3)	intron (NR_015567, intron 1 of 3)	790.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	20.5	42.0	21.0	617.0	80.0	33.0	20.0	28.5
Merged-chr2-130424830-4	chr2	130424726	130424926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114541)	promoter-TSS (NM_001114541)	-185.0	NM_001114541	319513.0	Mm.482539	NM_178762	ENSMUSG00000037773	Pced1a	A930025D01Rik|AI480484|Fam113a	PC-esterase domain containing 1A	protein-coding	88.0	135.0	64.5	1184.0	204.5	67.0	68.0	66.0
Merged-chr11-84818837-4	chr11	84818731	84818931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145433, intron 1 of 4)	CpG	684.0	NM_145433	217038.0	Mm.280825	NM_145433	ENSMUSG00000018405	Mrm1	A530065E19Rik	mitochondrial rRNA methyltransferase 1	protein-coding	62.0	83.5	56.0	690.0	156.0	50.5	46.5	70.0
Merged-chr18-82530302-4	chr18	82530202	82530402	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 3 of 3)	intron (NM_001025245, intron 3 of 3)	-24161.0	NM_001025258	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	20.0	21.0	16.0	312.0	39.0	20.0	26.0	20.0
Merged-chr2-127832331-4	chr2	127832240	127832440	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113179)	promoter-TSS (NM_001113179)	-481.0	NM_009772	12235.0	Mm.2185	NM_009772	ENSMUSG00000027379	Bub1	AL022991|Bub1a|C80208|D2Xrf87	BUB1, mitotic checkpoint serine/threonine kinase	protein-coding	17.5	32.0	6.0	211.5	65.0	17.5	16.0	13.5
Merged-chr3-103130484-4	chr3	103130370	103130570	+	963.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177857, intron 1 of 18)	intron (NM_177857, intron 1 of 18)	2914.0	NM_177857	329727.0	Mm.293641	NM_177857	ENSMUSG00000007379	Dennd2c	A930010I20Rik	DENN/MADD domain containing 2C	protein-coding	52.0	47.0	40.0	737.5	39.5	10.0	17.5	11.0
Merged-chr10-93452381-1	chr10	93452281	93452481	+	1000.0	f1_balb.idr	Intergenic	Intergenic	-1015.0	NM_001313897	16993.0	Mm.271071	NM_008517	ENSMUSG00000015889	Lta4h	-	leukotriene A4 hydrolase	protein-coding	7.0	8.0	7.5	46.5	11.0	1.0	6.0	5.0
Merged-chr5-86792920-3	chr5	86792816	86793016	+	952.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC-int|LTR|ERVL-MaLR	-11350.0	NM_001347375	231386.0	Mm.196325	NM_177680	ENSMUSG00000035851	Ythdc1	A730098D12Rik|C80342|mKIAA1966	YTH domain containing 1	protein-coding	9.0	14.5	8.0	139.5	11.5	2.5	7.0	4.5
Merged-chr13-90527198-4	chr13	90527082	90527282	+	853.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	378173.0	NM_001145879	435376.0	Mm.292579	NM_001145879	ENSMUSG00000078958	Atp6ap1l	EG435376	ATPase, H+ transporting, lysosomal accessory protein 1-like	protein-coding	16.0	6.5	7.5	206.5	19.5	4.0	12.0	9.0
Merged-chr2-180104584-4	chr2	180104477	180104677	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133849)	promoter-TSS (NM_133849)	-170.0	NM_133849	99296.0	Mm.285360	NM_133849	ENSMUSG00000039059	Hrh3	AW049250|H3R|HH3R	histamine receptor H3	protein-coding	29.5	34.5	20.0	441.0	45.0	19.0	35.5	18.5
Merged-chr1-154103227-3	chr1	154103134	154103334	+	796.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97953.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	14.0	6.5	7.0	103.0	10.5	6.5	2.5	4.0
Merged-chr15-66568027-4	chr15	66567930	66568130	+	759.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6984.0	NM_172514	213068.0	Mm.132299	NM_172514	ENSMUSG00000036944	Tmem71	AI661017|E430024D12	transmembrane protein 71	protein-coding	13.5	15.5	10.5	128.0	12.5	1.5	21.0	14.0
Merged-chr1-186123886-4	chr1	186123798	186123998	+	658.779175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-6588.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	6.5	12.5	14.0	128.5	27.5	11.5	8.5	9.5
Merged-chr19-55469361-3	chr19	55469272	55469472	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 6 of 8)	intron (NM_001360431, intron 6 of 8)	153315.0	NM_001293686	53611.0	Mm.258637	NM_016862	ENSMUSG00000024983	Vti1a	1110014F16Rik|1110018K19Rik|4921537J05Rik|MVti1|MVti1a|Vti1|Vti1-rp2	vesicle transport through interaction with t-SNAREs 1A	protein-coding	66.5	73.0	71.0	923.5	1.0	0.0	0.0	0.5
Merged-chr10-14678494-3	chr10	14678389	14678589	+	944.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025418, intron 4 of 7)	intron (NM_025418, intron 4 of 7)	27000.0	NM_025418	66201.0	Mm.227983	NM_025418	ENSMUSG00000019868	Vta1	1110001D18Rik|1110059P08Rik|AU040813|C85340|LIP5|SBP1	vesicle (multivesicular body) trafficking 1	protein-coding	14.0	15.5	23.0	359.5	19.5	9.5	16.5	7.0
Merged-chr17-64821092-4	chr17	64821065	64821265	+	905.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14906.0	NM_030031	78057.0	Mm.109380	NM_030031	ENSMUSG00000024088	4930583I09Rik	-	RIKEN cDNA 4930583I09 gene	protein-coding	6.5	5.5	12.5	117.0	3.5	6.5	7.5	10.0
Merged-chr5-33658554-4	chr5	33658518	33658718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356983)	promoter-TSS (NM_001356983)	490.0	NM_001040435	21335.0	Mm.379024	NM_011524	ENSMUSG00000037313	Tacc3	Aint|C86661|Eric1	transforming, acidic coiled-coil containing protein 3	protein-coding	117.0	127.0	76.5	1258.0	219.5	87.5	81.0	89.0
Merged-chr17-5573222-4	chr17	5573148	5573348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	X7A_LINE|LINE|CR1	80648.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	240.0	205.5	220.0	3573.5	462.5	149.5	210.0	177.0
Merged-chr19-5424347-1	chr19	5424247	5424447	+	765.333313	f1_c57bl6.idr	promoter-TSS (NM_001256515)	promoter-TSS (NM_001256515)	632.0	NM_024176	66556.0	Mm.275446	NM_024176	ENSMUSG00000024914	Drap1	2310074H19Rik|NC2-alpha	Dr1 associated protein 1 (negative cofactor 2 alpha)	protein-coding	5.0	7.0	7.0	31.0	22.5	5.5	7.5	10.5
Merged-chr3-108210975-2	chr3	108210875	108211075	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289545)	promoter-TSS (NM_001289545)	-448.0	NM_175183	72522.0	Mm.187326	NM_175183	ENSMUSG00000048997	Atxn7l2	2610528J18Rik	ataxin 7-like 2	protein-coding	21.5	26.0	11.5	210.5	49.0	13.0	11.5	21.5
Merged-chr7-141428614-3	chr7	141428516	141428716	+	752.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021316, intron 1 of 1)	intron (NM_021316, intron 1 of 1)	946.0	NM_001360485	57754.0	Mm.87027	NM_021316	ENSMUSG00000060240	Cend1	1500001H12Rik|AI415214|BM88	cell cycle exit and neuronal differentiation 1	protein-coding	3.5	6.5	5.5	33.5	10.0	4.5	11.5	12.5
Merged-chr18-62164523-7	chr18	62164382	62164582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER103C|DNA|hAT-Charlie	15499.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	20.5	53.5	28.5	374.5	51.0	16.0	17.5	26.5
Merged-chr5-90655974-3	chr5	90655879	90656079	+	900.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15452.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	10.5	6.0	6.0	237.5	8.5	1.5	6.0	2.0
Merged-chr6-134171046-4	chr6	134170934	134171134	+	813.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	135334.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	15.5	11.5	4.5	126.5	45.0	7.0	11.0	12.0
Merged-chr2-119359670-2	chr2	119359599	119359799	+	772.666626	f0_balb.idr|f1_balb.idr	Intergenic	B1_Mus2|SINE|Alu	8457.0	NM_026929	69065.0	Mm.35083	NM_026929	ENSMUSG00000027313	Chac1	1810008K03Rik	ChaC, cation transport regulator 1	protein-coding	21.5	22.5	17.0	83.0	4.0	1.0	1.0	0.0
Merged-chr15-59046947-3	chr15	59046832	59047032	+	692.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	35094.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	7.0	5.0	7.5	101.5	17.5	5.0	3.5	10.0
Merged-chr1-36272314-3	chr1	36272231	36272431	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153408, intron 1 of 3)	intron (NM_153408, intron 1 of 3)	1094.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	7.0	18.0	13.0	151.5	18.0	14.5	15.0	19.0
Merged-chr8-128595123-4	chr8	128595011	128595211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90543.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	68.0	53.5	53.5	1069.5	121.5	22.5	64.5	56.5
Merged-chr1-9826053-4	chr1	9825935	9826135	+	976.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177547, intron 1 of 16)	intron (NM_177547, intron 1 of 16)	-22246.0	NM_001037759	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	16.0	16.0	2.0	266.5	60.0	15.5	19.5	25.0
Merged-chr8-46941504-4	chr8	46941409	46941609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45378.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	109.0	208.5	118.0	2218.0	282.0	128.5	148.5	132.0
Merged-chr7-101845341-3	chr7	101845243	101845443	+	790.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303231)	promoter-TSS (NM_001303231)	-12.0	NM_008035	14276.0	Mm.439666	NM_008035	ENSMUSG00000032725	Folr2	FBP2|FR-P3|FR-beta|Folbp-2|Folbp2	folate receptor 2 (fetal)	protein-coding	12.5	13.5	14.5	141.0	22.5	7.0	6.0	5.0
Merged-chr5-77194129-3	chr5	77194026	77194226	+	795.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	17079.0	NM_001289767	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	2.5	4.5	5.5	57.0	22.0	16.5	11.5	10.5
Merged-chr14-64941696-4	chr14	64941605	64941805	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 1 of 9)	intron (NM_177338, intron 1 of 9)	8152.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	24.5	19.5	14.5	365.0	60.5	12.5	12.5	12.5
Merged-chr4-142079902-4	chr4	142079791	142079991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-4407.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	53.0	48.0	41.0	1254.0	125.5	22.5	52.0	83.0
Merged-chr4-141994190-4	chr4	141994056	141994256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 2 of 31)	GA-rich|Low_complexity|Low_complexity	11164.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	57.5	49.5	18.5	686.0	100.0	42.5	44.0	29.0
Merged-chr12-85543049-4	chr12	85542962	85543162	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-56043.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	6.5	15.0	4.0	245.0	52.0	5.0	19.5	15.0
Merged-chr10-44818805-4	chr10	44818696	44818896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-248418.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	22.5	30.0	26.0	287.5	91.0	26.0	26.0	26.0
Merged-chr2-129373489-4	chr2	129373373	129373573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015474, intron 2 of 2)	intron (NR_015474, intron 2 of 2)	-2334.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	164.5	237.5	163.5	1856.5	404.5	164.0	186.0	176.5
Merged-chr10-37141167-4	chr10	37141086	37141286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2260.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	147.5	171.5	115.5	1423.5	303.5	162.0	164.5	94.5
Merged-chr7-127362610-2	chr7	127362510	127362710	+	789.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13440.0	NM_175560	269997.0	Mm.221270	NM_175560	ENSMUSG00000054381	Zfp747	6430604K15Rik	zinc finger protein 747	protein-coding	7.0	4.5	4.0	40.0	21.5	7.5	7.0	5.5
Merged-chr9-115314776-3	chr9	115314674	115314874	+	925.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-4353.0	NM_024222	68292.0	Mm.296158	NM_024222	ENSMUSG00000032437	Stt3b	1300006C19Rik|Simp	STT3, subunit of the oligosaccharyltransferase complex, homolog B (S. cerevisiae)	protein-coding	0.0	0.0	0.0	7.0	52.5	20.5	23.5	23.0
Merged-chr3-9885138-4	chr3	9884928	9885128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51349.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	28.5	38.5	32.0	483.5	286.5	81.5	104.0	92.5
Merged-chr1-153332536-3	chr1	153332441	153332641	+	659.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010683, exon 1 of 28)	5' UTR (NM_010683, exon 1 of 28)	245.0	NM_010683	226519.0	Mm.1249	NM_010683	ENSMUSG00000026478	Lamc1	Lamb2	laminin, gamma 1	protein-coding	5.0	14.5	18.5	47.0	7.5	4.0	3.5	7.5
Merged-chr1-179803131-3	chr1	179803036	179803236	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026375, intron 1 of 35)	CpG	879.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	24.5	32.0	20.5	241.5	54.5	16.5	11.0	17.5
Merged-chr15-55196570-4	chr15	55196488	55196688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037937, intron 4 of 8)	intron (NM_001037937, intron 4 of 8)	63152.0	NM_001037937	97998.0	Mm.295397	NM_145470	ENSMUSG00000022419	Deptor	Depdc6	DEP domain containing MTOR-interacting protein	protein-coding	139.5	148.5	127.0	2448.5	216.5	82.5	111.0	104.0
Merged-chr5-148812188-2	chr5	148812093	148812293	+	791.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34230.0	NR_131106	78015.0	Mm.243839	NR_131106	ENSMUSG00000085740	4930505K14Rik	-	RIKEN cDNA 4930505K14 gene	ncRNA	1.0	1.0	7.0	76.0	11.0	6.0	7.0	8.5
Merged-chr4-151068926-4	chr4	151068798	151068998	+	871.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 23 of 23)	intron (NM_001081557, intron 23 of 23)	-10945.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	12.5	15.0	7.5	137.5	25.0	5.0	16.5	6.5
Merged-chr5-99965640-4	chr5	99965559	99965759	+	746.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077265, intron 4 of 8)	intron (NM_001077265, intron 4 of 8)	13279.0	NM_001077266	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	15.5	16.5	19.5	158.0	26.5	11.0	5.5	10.5
Merged-chr4-98922319-3	chr4	98922203	98922403	+	750.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1507.0	NM_001301414	230484.0	Mm.371692	NM_146144	ENSMUSG00000028560	Usp1	-	ubiquitin specific peptidase 1	protein-coding	6.5	4.5	8.0	60.5	15.5	4.0	4.0	10.0
Merged-chr2-59401195-4	chr2	59401074	59401274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14492.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	52.0	68.5	80.0	1073.5	112.0	45.0	71.5	83.5
Merged-chr7-98716209-4	chr7	98716102	98716302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028410, exon 5 of 5)	exon (NM_028410, exon 5 of 5)	12955.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	31.5	59.0	39.0	376.0	129.0	18.5	41.5	36.5
Merged-chr8-10923775-3	chr8	10923661	10923861	+	795.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_030715)	TTS (NR_030715)	4696.0	NR_030715	665306.0	Mm.358758	NR_030715	ENSMUSG00000038917	3930402G23Rik	-	RIKEN cDNA 3930402G23 gene	ncRNA	13.5	7.0	13.0	69.5	12.0	2.5	3.0	1.5
Merged-chr8-124922703-4	chr8	124922590	124922790	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053207, intron 1 of 4)	URR1A|DNA|hAT-Charlie	24804.0	NM_001111141	244666.0	Mm.482915	NM_001111141	ENSMUSG00000031986	Sprtn	Gm505	SprT-like N-terminal domain	protein-coding	75.0	114.5	86.5	887.0	50.0	16.5	12.0	18.0
Merged-chr2-24315621-4	chr2	24315521	24315721	+	787.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-21239.0	NM_031167	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	9.0	10.5	8.0	152.5	21.5	7.0	9.0	10.0
Merged-chr4-62846725-2	chr4	62846625	62846825	+	851.3333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118849.0	NM_028326	72701.0	Mm.26479	NM_028326	ENSMUSG00000028358	Zfp618	2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1	zinc finger protein 618	protein-coding	7.0	6.0	4.5	115.5	13.0	3.0	11.5	5.5
Merged-chr17-80208498-3	chr17	80208418	80208618	+	852.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1213.0	NM_001195485	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	7.0	4.5	6.5	72.5	22.0	4.5	6.5	9.0
Merged-chr3-130900329-4	chr3	130900240	130900440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-169942.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	41.5	74.5	77.0	1461.0	148.5	23.5	73.0	94.5
Merged-chr6-89632494-4	chr6	89632388	89632588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11500.0	NM_001178060	232223.0	Mm.229332	NM_153162	ENSMUSG00000000811	Txnrd3	AI196535|TGR|TR2	thioredoxin reductase 3	protein-coding	56.5	102.0	52.0	1260.0	158.0	58.0	87.5	81.0
Merged-chr13-41607813-4	chr13	41607706	41607906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163572, intron 1 of 2)	intron (NM_001163572, intron 1 of 2)	1590.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	31.0	42.0	31.0	458.5	59.0	24.0	38.5	26.0
Merged-chr11-116130186-4	chr11	116130094	116130294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178802, intron 1 of 5)	intron (NM_178802, intron 1 of 5)	934.0	NM_178802	338364.0	Mm.439976	NM_178802	ENSMUSG00000054517	Trim65	4732463G12Rik	tripartite motif-containing 65	protein-coding	60.5	78.0	45.0	775.0	137.5	47.5	40.5	56.0
Merged-chr4-58504821-4	chr4	58504724	58504924	+	819.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010336, intron 1 of 3)	intron (NM_010336, intron 1 of 3)	-5421.0	NM_001290486	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	8.5	16.0	21.0	136.0	54.5	8.5	16.0	18.0
Merged-chr13-111798184-4	chr13	111798117	111798317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	10776.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	46.5	38.5	33.5	600.0	81.5	17.5	31.5	22.5
Merged-chr5-122343936-4	chr5	122343868	122344068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144912, intron 5 of 10)	intron (NM_144912, intron 5 of 10)	10227.0	NM_144912	231724.0	Mm.255587	NM_144912	ENSMUSG00000038569	Rad9b	A630082N15Rik|BC021784	RAD9 checkpoint clamp component B	protein-coding	30.0	63.5	35.0	683.0	62.0	16.0	26.0	61.0
Merged-chr13-93251954-4	chr13	93251847	93252047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51810.0	NM_147176	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	57.0	60.5	74.0	1211.5	75.0	29.0	49.5	47.5
Merged-chr2-132110906-4	chr2	132110799	132110999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	34209.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	85.5	178.0	84.0	1386.5	211.0	85.5	53.5	90.5
Merged-chr15-99457847-4	chr15	99457739	99457939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001884)	promoter-TSS (NM_001001884)	-91.0	NM_001001884	380969.0	Mm.22915	NM_001001884	ENSMUSG00000023009	Nckap5l	C230021P08Rik|Cep169	NCK-associated protein 5-like	protein-coding	62.0	105.0	63.0	845.5	204.5	97.0	95.0	70.5
Merged-chr10-80751689-4	chr10	80751566	80751766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2D|LTR|ERVL	-3537.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	244.0	434.5	212.0	2305.5	610.5	242.0	270.5	209.0
Merged-chr19-61229144-4	chr19	61229031	61229231	+	917.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009970)	promoter-TSS (NM_009970)	-713.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	10.5	14.0	7.0	145.5	27.0	6.0	12.5	13.0
Merged-chr1-156660822-3	chr1	156660721	156660921	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023141, intron 4 of 5)	ERVB7_1-LTR_MM|LTR|ERVK	13518.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	0.0	1.0	0.5	0.0	80.5	17.5	12.5	28.5
Merged-chr3-135681499-3	chr3	135681393	135681593	+	742.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 1 of 24)	intron (NM_008689, intron 1 of 24)	10054.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	2.0	7.0	9.5	127.5	16.0	5.0	6.5	6.5
Merged-chr14-101516258-3	chr14	101516155	101516355	+	937.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	92936.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	22.5	9.5	11.0	244.0	20.0	8.5	10.0	7.5
Merged-chr2-11395163-4	chr2	11395048	11395248	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040615, intron 1 of 2)	RLTR25B|LTR|ERVK	3352.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	33.0	68.5	37.0	426.5	55.0	34.5	30.0	19.5
Merged-chr4-133154226-1	chr4	133154126	133154326	+	594.5	f0_balb.idr	intron (NM_153423, intron 1 of 8)	CT-rich|Low_complexity|Low_complexity	23593.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	5.5	7.5	5.0	138.0	20.5	6.0	4.0	8.5
Merged-chr13-21771641-1	chr13	21771541	21771741	+	662.25	f0_c57.idr	Intergenic	RLTR45|LTR|ERVK	8984.0	NM_020034	56702.0	Mm.221314	NM_020034	ENSMUSG00000058773	Hist1h1b	H1.5|H1B|H1f5|H1s-3	histone cluster 1, H1b	protein-coding	0.0	6.0	5.5	7.5	22.5	11.5	13.5	10.5
Merged-chr1-88589660-2	chr1	88589560	88589760	+	565.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38143.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	6.5	3.5	3.5	88.0	12.5	11.0	7.5	8.0
Merged-chr4-101741706-4	chr4	101741609	101741809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146146, intron 4 of 18)	intron (NM_146146, intron 4 of 18)	24302.0	NM_010704	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	69.0	79.5	83.5	1028.0	201.0	75.0	114.0	75.5
Merged-chr4-155841197-4	chr4	155841124	155841324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024263, intron 3 of 9)	CpG	1544.0	NM_024263	74761.0	Mm.159028	NM_024263	ENSMUSG00000029070	Mxra8	1200013A08Rik|1700095D18Rik|AI131686|Asp3|Dicam	matrix-remodelling associated 8	protein-coding	47.5	62.0	80.0	882.0	94.5	32.5	55.0	55.0
Merged-chr10-80587611-3	chr10	80587511	80587711	+	818.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145421, intron 1 of 4)	intron (NM_145421, intron 1 of 4)	2730.0	NM_145421	216169.0	Mm.29802	NM_145421	ENSMUSG00000003346	Abhd17a	1700013O15Rik|BC005632|D10Bwg1364e|Fam108a	abhydrolase domain containing 17A	protein-coding	10.5	10.0	5.5	123.5	8.0	1.0	2.0	4.5
Merged-chr7-41499465-4	chr7	41499372	41499572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033530, exon 1 of 4)	5' UTR (NM_001033530, exon 1 of 4)	418.0	NM_001033530	101835.0	Mm.370336	NM_001033530	ENSMUSG00000074166	AW146154	AI451288	expressed sequence AW146154	protein-coding	97.0	134.5	107.5	2074.0	291.0	93.5	176.5	139.5
Merged-chr15-85634635-4	chr15	85634533	85634733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-52812.0	NM_009528	22422.0	Mm.306946	NM_009528	ENSMUSG00000022382	Wnt7b	Wnt-7b	wingless-type MMTV integration site family, member 7B	protein-coding	396.5	618.0	370.5	5608.0	1012.0	439.0	530.0	378.0
Merged-chr12-84712855-2	chr12	84712755	84712955	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14048.0	NM_001033334	627191.0	Mm.152484	NM_001033334	ENSMUSG00000071234	Syndig1l	DSPC1|Gm261|SynDIG2|Tmem90a	synapse differentiation inducing 1 like	protein-coding	13.0	6.0	5.0	80.0	26.5	2.5	3.5	2.5
Merged-chr1-156459844-4	chr1	156459750	156459950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 2 of 15)	intron (NM_009230, intron 2 of 15)	14478.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	89.5	102.5	87.0	1866.0	138.0	46.0	55.0	60.0
Merged-chr16-78236963-4	chr16	78236862	78237062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18492.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	74.5	138.5	109.5	1703.0	225.0	78.0	88.0	102.0
Merged-chr1-131797349-3	chr1	131797266	131797466	+	941.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178079)	promoter-TSS (NM_178079)	-29.0	NM_178079	212933.0	Mm.23844	NM_178079	ENSMUSG00000042251	Pm20d1	4732466D17Rik|AI098026	peptidase M20 domain containing 1	protein-coding	9.0	27.5	14.5	248.0	10.5	1.0	4.5	9.5
Merged-chr8-40031539-4	chr8	40031468	40031668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	255385.0	NM_030610	80857.0	Mm.425526	NM_030610	ENSMUSG00000031603	Fgf20	-	fibroblast growth factor 20	protein-coding	48.0	42.0	50.5	888.0	54.0	23.0	34.5	35.0
Merged-chr2-61594964-4	chr2	61594876	61595076	+	770.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149323, intron 2 of 9)	MTD|LTR|ERVL-MaLR	1879.0	NR_149323	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	2.0	13.5	3.5	77.0	32.0	10.5	13.5	12.5
Merged-chr8-36953252-6	chr8	36953163	36953363	+	693.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001194940)	promoter-TSS (NM_001194940)	-821.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	3.5	2.0	2.0	75.5	7.5	4.5	6.0	5.5
Merged-chr7-56042496-4	chr7	56042390	56042590	+	881.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7665.0	NM_010418	15204.0	Mm.20929	NM_010418	ENSMUSG00000030451	Herc2	D15F32S1h|D7H15F32S1|D7H15F37S1|jdf2|mKIAA0393|rjs	HECT and RLD domain containing E3 ubiquitin protein ligase 2	protein-coding	6.0	17.0	13.5	173.5	17.5	5.0	9.5	8.0
Merged-chr9-104063717-4	chr9	104063601	104063801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175324)	promoter-TSS (NM_175324)	-2.0	NM_175324	102632.0	Mm.41274	NM_175324	ENSMUSG00000090150	Acad11	5730439E10Rik|AI987948	acyl-Coenzyme A dehydrogenase family, member 11	protein-coding	68.0	130.5	63.0	981.0	186.5	79.0	89.5	66.0
Merged-chr5-110879838-4	chr5	110879755	110879955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267622)	promoter-TSS (NM_001267622)	52.0	NM_001267622	209683.0	Mm.295660	NM_024477	ENSMUSG00000033209	Ttc28	2310015L07Rik|6030435N04|AI428795|AI851761|BC002262|TPRBK	tetratricopeptide repeat domain 28	protein-coding	33.0	42.5	19.5	509.0	92.5	36.0	45.5	31.5
Merged-chr9-78448243-4	chr9	78448159	78448359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026658)	promoter-TSS (NM_026658)	49.0	NM_026658	68291.0	Mm.291779	NM_026658	ENSMUSG00000032342	Mto1	2310039H01Rik|5730419A02Rik	mitochondrial tRNA translation optimization 1	protein-coding	81.0	137.5	70.5	1262.0	201.0	65.0	54.5	62.0
Merged-chr1-134083807-4	chr1	134083699	134083899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4644.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	66.0	101.0	72.0	1370.0	147.5	27.5	90.0	65.0
Merged-chr1-144007540-4	chr1	144007458	144007658	+	990.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3409.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	35.0	38.0	19.0	487.0	48.0	15.5	25.5	16.5
Merged-chr7-63917315-2	chr7	63917215	63917415	+	875.9833369999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001256311, intron 1 of 2)	ORR1C1|LTR|ERVL-MaLR	458.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	4.5	6.5	5.5	60.0	2.5	0.0	1.5	0.5
Merged-chr8-124793406-3	chr8	124793274	124793474	+	836.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_198632, exon 1 of 10)	5' UTR (NM_198632, exon 1 of 10)	355.0	NM_198632	330863.0	Mm.422769	NM_198632	ENSMUSG00000036913	Trim67	D130049O21Rik|TNL	tripartite motif-containing 67	protein-coding	15.5	14.0	11.5	151.0	9.5	2.0	3.5	10.0
Merged-chr2-155284850-3	chr2	155284737	155284937	+	883.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004721, intron 11 of 11)	intron (NM_001004721, intron 11 of 11)	8473.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	3.5	0.5	4.0	41.5	21.5	4.5	17.0	29.0
Merged-chr17-29494739-7	chr17	29494712	29494912	+	951.5476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008842, exon 6 of 6)	3' UTR (NM_008842, exon 6 of 6)	3767.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	9.0	19.5	8.5	8.5	31.5	16.5	14.0	18.5
Merged-chr1-13978863-4	chr1	13978744	13978944	+	945.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-191915.0	NR_004447	433273.0	Mm.304088	NR_004447	ENSMUSG00000097711	Gm5523	EG433273	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	13.5	17.5	14.5	281.5	59.5	13.5	19.5	18.0
Merged-chr3-144696734-4	chr3	144696645	144696845	+	913.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 9 of 10)	intron (NM_001282037, intron 9 of 10)	23590.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	5.0	20.5	18.5	232.0	52.5	9.5	17.5	11.0
Merged-chr11-120733785-4	chr11	120733645	120733845	+	923.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-1724.0	NM_007621	12409.0	Mm.21454	NM_007621	ENSMUSG00000025150	Cbr2	MLCR	carbonyl reductase 2	protein-coding	25.5	18.0	31.0	366.5	22.0	7.5	22.5	16.5
Merged-chr13-94284585-2	chr13	94284485	94284685	+	825.099976	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346609, intron 1 of 8)	intron (NM_001346609, intron 1 of 8)	696.0	NM_029153	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	4.5	5.5	0.5	63.0	14.5	6.0	5.0	4.5
Merged-chr4-33249376-3	chr4	33249268	33249468	+	800.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033225)	promoter-TSS (NM_001033225)	-581.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	6.0	4.5	9.0	72.5	24.0	8.5	3.5	11.5
Merged-chr2-18917534-4	chr2	18917426	18917626	+	837.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	80595.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	20.0	13.0	8.0	135.5	23.5	13.5	12.0	16.0
Merged-chr13-115900416-4	chr13	115900243	115900443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	409345.0	NM_021459	16392.0	Mm.42242	NM_021459	ENSMUSG00000042258	Isl1	-	ISL1 transcription factor, LIM/homeodomain	protein-coding	51.5	69.0	56.5	602.0	100.5	24.0	32.5	28.0
Merged-chr7-81843138-4	chr7	81842960	81843160	+	870.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-13629.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	4.5	8.0	9.0	45.0	9.5	8.0	11.5	10.5
Merged-chr7-45054334-4	chr7	45054207	45054407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022999, intron 6 of 6)	intron (NM_022999, intron 6 of 6)	-1426.0	NM_175022	233210.0	Mm.219137	NM_175022	ENSMUSG00000046574	Prr12	6720469B10|BC058674	proline rich 12	protein-coding	185.5	252.0	191.5	2746.0	475.5	176.5	282.5	175.5
Merged-chr13-34715574-4	chr13	34715465	34715665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-24077.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	140.5	214.5	176.0	2229.0	195.0	71.0	122.0	98.5
Merged-chr1-132067938-3	chr1	132067873	132068073	+	606.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172510)	promoter-TSS (NM_172510)	89.0	NM_172510	213006.0	Mm.208445	NM_172510	ENSMUSG00000059149	Mfsd4a	A230072B04|A930031D07Rik|AI850289|Mfsd4	major facilitator superfamily domain containing 4A	protein-coding	9.5	10.5	8.0	118.0	14.0	7.5	10.5	5.5
Merged-chr1-134803791-4	chr1	134803675	134803875	+	965.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015606)	promoter-TSS (NR_015606)	-54.0	NR_015606	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	14.0	20.0	25.5	512.5	65.0	14.0	35.0	18.0
Merged-chr4-149710711-4	chr4	149710606	149710806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9077.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	101.5	166.5	83.0	1613.5	243.0	72.0	111.5	97.5
Merged-chr10-118085464-5	chr10	118085343	118085543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56344.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	149.0	200.5	261.0	3246.5	342.5	97.0	186.0	138.5
Merged-chr4-10978167-4	chr4	10978065	10978265	+	963.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29454.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	22.0	18.0	14.0	257.0	42.5	12.0	20.0	21.0
Merged-chr16-89864886-4	chr16	89864757	89864957	+	868.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 8 of 27)	intron (NM_009384, intron 8 of 27)	-46505.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	6.5	8.0	16.5	205.0	29.0	7.0	12.0	6.5
Merged-chr11-118235159-4	chr11	118235116	118235316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	13376.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	51.0	105.5	55.5	564.5	162.0	65.0	86.0	57.0
Merged-chr8-14837779-4	chr8	14837662	14837862	+	952.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 13 of 15)	intron (NM_172910, intron 13 of 15)	-50774.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	13.5	27.5	21.0	398.0	67.5	20.0	12.0	34.0
Merged-chr17-28012985-4	chr17	28012870	28013070	+	895.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 12 of 24)	intron (NM_181413, intron 12 of 24)	67614.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	19.5	37.5	17.0	301.5	28.0	7.0	11.0	8.0
Merged-chr17-6827368-4	chr17	6827270	6827470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44590.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	45.5	116.5	52.5	703.0	229.0	65.5	76.0	56.0
Merged-chr2-60418295-4	chr2	60418197	60418397	+	925.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008867, exon 30 of 30)	3' UTR (NM_008867, exon 30 of 30)	6772.0	NR_046065	100039176.0	Mm.261790	NR_046065	ENSMUSG00000087283	Gm13580	-	predicted gene 13580	ncRNA	5.5	8.5	6.5	235.0	29.0	12.5	18.5	13.5
Merged-chr4-119232813-4	chr4	119232715	119232915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286148)	promoter-TSS (NM_001286148)	-91.0	NM_001012400	230696.0	Mm.473722	NM_001012400	ENSMUSG00000078584	AU022252	AI450326	expressed sequence AU022252	protein-coding	248.0	443.5	228.5	3322.5	609.5	264.5	284.0	214.5
Merged-chr11-62648759-4	chr11	62648654	62648854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198861)	promoter-TSS (NM_198861)	90.0	NM_175002	216829.0	Mm.295306	NM_175002	ENSMUSG00000048497	Mmgt2	AI852046	membrane magnesium transporter 2	protein-coding	62.0	112.5	46.0	841.5	132.5	56.5	87.0	54.5
Merged-chr5-115155977-4	chr5	115155865	115156065	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175403, intron 1 of 4)	intron (NM_175403, intron 1 of 4)	2211.0	NM_175403	109154.0	Mm.153963	NM_175403	ENSMUSG00000048578	Mlec	2410014A08Rik|AI850530|ESTM19|X83352|mKIAA0152	malectin	protein-coding	30.0	37.5	12.0	381.0	57.5	20.0	27.5	26.5
Merged-chr11-103033014-4	chr11	103032957	103033157	+	976.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008707, intron 1 of 11)	intron (NM_008707, intron 1 of 11)	4514.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	23.0	21.5	11.0	143.0	35.0	16.5	12.0	11.0
Merged-chr8-71613644-4	chr8	71613554	71613754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146211, intron 3 of 11)	intron (NM_146211, intron 3 of 11)	2630.0	NM_146211	234407.0	Mm.240885	NM_146211	ENSMUSG00000034807	Colgalt1	2810024B22Rik|Glt25d1	collagen beta(1-O)galactosyltransferase 1	protein-coding	119.5	181.5	116.0	2083.5	308.5	66.0	129.5	125.0
Merged-chr12-99390914-4	chr12	99390812	99391012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 1 of 5)	intron (NM_183186, intron 1 of 5)	59162.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	52.0	68.5	53.0	437.5	126.0	39.5	27.5	75.0
Merged-chr8-69272592-2	chr8	69272482	69272682	+	901.583374	f0_balb.idr|f1_balb.idr	intron (NM_172491, intron 1 of 5)	intron (NM_172491, intron 1 of 5)	1502.0	NM_172491	211135.0	Mm.294970	NM_172491	ENSMUSG00000079038	D130040H23Rik	-	RIKEN cDNA D130040H23 gene	protein-coding	20.5	47.5	25.0	84.5	9.5	4.5	5.0	7.0
Merged-chr2-143834204-3	chr2	143834120	143834320	+	717.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291061, intron 5 of 7)	intron (NM_001291061, intron 5 of 7)	28953.0	NM_009751	12075.0	Mm.275937	NM_009751	ENSMUSG00000027420	Bfsp1	CP95	beaded filament structural protein 1, in lens-CP94	protein-coding	7.5	5.5	6.5	127.0	8.0	1.0	2.5	6.5
Merged-chr11-96975018-4	chr11	96974915	96975115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030220, intron 1 of 6)	intron (NM_030220, intron 1 of 6)	2673.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	50.0	74.0	25.5	600.0	108.0	37.5	41.0	42.0
Merged-chr9-44249709-4	chr9	44249626	44249826	+	726.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133226, exon 6 of 11)	exon (NM_133226, exon 6 of 11)	1738.0	NM_133226	170761.0	Mm.29872	NM_133226	ENSMUSG00000032105	Pdzd3	NaPi-Cap2|Pdzk2	PDZ domain containing 3	protein-coding	10.0	12.0	2.5	111.0	19.0	5.5	9.5	5.0
Merged-chr6-143167177-4	chr6	143167086	143167286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029250)	promoter-TSS (NM_029250)	-44.0	NM_029250	75320.0	Mm.272548	NM_029250	ENSMUSG00000030275	Etnk1	1110061E11Rik|4930555L11Rik|AI195356|AI841245|C80956|D6Ertd3e|EKI1	ethanolamine kinase 1	protein-coding	181.0	279.0	189.5	3460.5	476.5	173.5	254.5	175.0
Merged-chr7-126584771-4	chr7	126584617	126584817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138310)	promoter-TSS (NM_138310)	-291.0	NM_138310	171504.0	Mm.170665	NM_138310	ENSMUSG00000042759	Apobr	Apob-48r|Apob48r	apolipoprotein B receptor	protein-coding	48.0	61.0	73.0	544.5	125.0	54.0	40.0	63.0
Merged-chr12-91816229-3	chr12	91816115	91816315	+	908.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039089, intron 15 of 20)	intron (NM_001039089, intron 15 of 20)	-29779.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	7.0	14.5	11.0	110.5	17.5	3.0	7.0	5.5
Merged-chr12-80852212-4	chr12	80852101	80852301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 3 of 6)	intron (NM_001242419, intron 3 of 6)	61669.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	33.5	48.5	56.5	959.0	70.5	35.5	38.5	52.0
Merged-chr5-91302331-4	chr5	91302209	91302409	+	986.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-19233.0	NR_040428	100503265.0	Mm.125059	NR_040428	ENSMUSG00000107198	Gm19619	-	predicted gene, 19619	ncRNA	68.0	71.5	73.5	1067.0	36.5	31.5	14.5	17.5
Merged-chr5-117884579-4	chr5	117884471	117884671	+	887.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	ORR1E|LTR|ERVL-MaLR	17732.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	17.0	38.5	36.0	363.5	17.0	7.5	15.5	15.5
Merged-chr14-54476087-4	chr14	54475988	54476188	+	816.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080726)	promoter-TSS (NM_080726)	-12.0	NM_080726	140743.0	Mm.274727	NM_080726	ENSMUSG00000022176	Rem2	AW411893	rad and gem related GTP binding protein 2	protein-coding	10.0	18.5	16.0	93.5	32.5	19.0	12.5	6.5
Merged-chr5-102031066-4	chr5	102030959	102031159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	38862.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	108.0	129.5	113.0	2156.0	187.5	60.5	125.0	80.0
Merged-chr12-91756884-4	chr12	91756782	91756982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	29554.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	77.5	111.5	80.5	1062.5	185.0	55.5	69.5	65.0
Merged-chr12-79642078-4	chr12	79641975	79642175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	282658.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	34.5	55.5	37.0	540.5	72.5	24.0	21.0	25.0
Merged-chr5-113594575-4	chr5	113594484	113594684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44164.0	NM_177292	320916.0	Mm.102783	NM_177292	ENSMUSG00000063430	Wscd2	4933413A10Rik|C530024P05Rik|Gm450	WSC domain containing 2	protein-coding	41.0	60.5	57.0	355.0	138.0	50.0	45.5	26.5
Merged-chr16-76002492-4	chr16	76002387	76002587	+	840.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155447, intron 2 of 3)	intron (NR_155447, intron 2 of 3)	1703.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	13.5	11.0	17.0	226.5	25.0	17.5	12.5	10.5
Merged-chr7-132805041-3	chr7	132804946	132805146	+	748.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	8150.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	4.5	7.0	9.5	103.5	7.5	5.5	2.5	1.5
Merged-chr8-83158632-4	chr8	83158524	83158724	+	675.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-6728.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	12.5	27.5	9.0	109.5	24.0	11.5	5.5	10.0
Merged-chr15-78878360-3	chr15	78878253	78878453	+	946.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145929, intron 1 of 16)	intron (NM_145929, intron 1 of 16)	1163.0	NM_145929	106039.0	Mm.251331	NM_145929	ENSMUSG00000033128	Gga1	4930406E12Rik|AU016030|AW209092	golgi associated, gamma adaptin ear containing, ARF binding protein 1	protein-coding	5.0	7.5	5.5	45.5	32.5	12.0	5.0	15.0
Merged-chr8-107436480-5	chr8	107436397	107436597	+	912.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025830)	promoter-TSS (NM_025830)	99.0	NM_025830	66894.0	Mm.390058	NM_025830	ENSMUSG00000031930	Wwp2	1300010O06Rik|AA690238|AIP2|AW554328	WW domain containing E3 ubiquitin protein ligase 2	protein-coding	14.5	5.0	12.5	95.0	52.5	12.0	21.5	5.0
Merged-chr19-11917568-4	chr19	11917464	11917664	+	917.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172635, intron 2 of 18)	intron (NM_172635, intron 2 of 18)	5165.0	NM_172635	225929.0	Mm.42711	NM_172635	ENSMUSG00000046139	Patl1	AV312086|Pat1b	protein associated with topoisomerase II homolog 1 (yeast)	protein-coding	18.5	11.5	14.0	291.5	50.0	13.0	12.5	24.0
Merged-chr11-97988932-4	chr11	97988822	97989022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152188)	TTS (NR_152188)	-2476.0	NM_001163608	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	30.0	55.5	22.5	332.5	86.0	25.5	27.5	55.5
Merged-chr12-70110114-4	chr12	70110021	70110221	+	833.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286079, intron 1 of 28)	intron (NM_001286079, intron 1 of 28)	1508.0	NR_104398	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	9.5	6.0	9.5	201.0	31.0	4.0	8.0	14.5
Merged-chr8-13624186-4	chr8	13624073	13624273	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 2 of 23)	intron (NM_009025, intron 2 of 23)	53414.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	37.5	33.5	42.5	613.5	64.0	19.0	12.5	20.5
Merged-chr15-75060718-2	chr15	75060618	75060818	+	978.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-11881.0	NM_001252056	17067.0	Mm.1583	NM_010741	ENSMUSG00000079018	Ly6c1	AA682074|AA959465|Ly-6C|Ly-6C1|Ly6c	lymphocyte antigen 6 complex, locus C1	protein-coding	1.0	1.5	1.5	18.0	12.5	7.5	7.5	6.0
Merged-chr15-24990251-4	chr15	24990163	24990363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	423501.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	36.5	48.5	57.0	1311.0	108.0	10.0	46.5	38.5
Merged-chr11-96034848-4	chr11	96034734	96034934	+	985.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033568)	promoter-TSS (NM_033568)	-51.0	NM_033568	27681.0	Mm.372235	NM_033568	ENSMUSG00000006058	Snf8	D11Moh34	SNF8, ESCRT-II complex subunit, homolog (S. cerevisiae)	protein-coding	36.5	56.5	13.0	317.0	87.5	38.0	27.5	35.5
Merged-chr11-33115018-3	chr11	33114916	33115116	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32384.0	NM_008005	14172.0	Mm.339812	NM_008005	ENSMUSG00000057967	Fgf18	D130055P09Rik|FGF-18	fibroblast growth factor 18	protein-coding	6.5	6.0	8.5	146.5	2.0	6.0	6.0	1.5
Merged-chr14-34769864-2	chr14	34769764	34769964	+	691.625	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50272.0	NM_008166	14803.0	Mm.121569	NM_008166	ENSMUSG00000041078	Grid1	GluD1|GluRdelta1	glutamate receptor, ionotropic, delta 1	protein-coding	6.5	8.5	6.5	63.5	14.0	5.5	2.0	7.0
Merged-chr9-64790844-4	chr9	64790743	64790943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-20168.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	93.0	109.5	56.0	921.5	147.5	51.5	81.5	60.0
Merged-chr1-152533959-4	chr1	152533875	152534075	+	878.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 12 of 17)	intron (NM_016846, intron 12 of 17)	91242.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	10.0	16.0	7.5	140.5	24.0	4.5	2.5	14.5
Merged-chr8-14678092-1	chr8	14677992	14678192	+	660.0	f0_balb.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-210444.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	5.5	15.5	10.5	51.5	6.0	4.5	5.5	5.0
Merged-chr6-46961494-4	chr6	46961413	46961613	+	835.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 15 of 23)	intron (NM_001004357, intron 15 of 23)	-282883.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	5.5	6.0	7.5	142.0	30.0	9.5	10.5	11.0
Merged-chr5-143548681-4	chr5	143548585	143548785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026050)	promoter-TSS (NM_026050)	-21.0	NM_133703	67238.0	Mm.383219	NM_026050	ENSMUSG00000083012	Fam220a	1500026F15Rik|2810453I06Rik|AW047776|Acpin1|Sipar	family with sequence similarity 220, member A	protein-coding	109.5	135.5	98.5	1074.5	300.5	110.5	87.0	83.0
Merged-chr7-141216421-4	chr7	141216354	141216554	+	880.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025886, intron 1 of 5)	intron (NM_025886, intron 1 of 5)	594.0	NM_025886	66985.0	Mm.21202	NM_025886	ENSMUSG00000038618	Rassf7	2400009B11Rik|AW210608	Ras association (RalGDS/AF-6) domain family (N-terminal) member 7	protein-coding	12.0	13.5	7.0	100.0	13.5	11.5	16.0	12.5
Merged-chr1-46852428-3	chr1	46852336	46852536	+	834.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356416, intron 1 of 10)	intron (NM_001356416, intron 1 of 10)	1182.0	NM_001356416	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	9.5	9.5	5.0	100.0	39.5	6.5	5.0	13.0
Merged-chr6-134706662-3	chr6	134706569	134706769	+	898.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 3 of 3)	intron (NM_001170479, intron 3 of 3)	65729.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	9.5	17.0	12.0	269.0	41.5	6.0	6.0	10.0
Merged-chr11-87433132-4	chr11	87433035	87433235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 1 of 30)	ORR1C2|LTR|ERVL-MaLR	5544.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	115.5	149.5	64.0	1533.5	234.5	98.5	115.5	92.0
Merged-chr19-5560183-3	chr19	5560068	5560268	+	838.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019935, intron 1 of 3)	CpG	407.0	NM_019935	18426.0	Mm.280225	NM_019935	ENSMUSG00000024922	Ovol1	BB147136|Ovo1|movo1	ovo like zinc finger 1	protein-coding	7.5	8.0	10.5	17.5	8.0	2.5	0.5	8.0
Merged-chr13-67463968-4	chr13	67463863	67464063	+	961.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-12339.0	NM_177712	238692.0	Mm.486478	NM_177712	ENSMUSG00000069206	Zfp874a	C330011K17Rik|Rslcan15|Zfp874	zinc finger protein 874a	protein-coding	21.5	18.0	7.5	316.0	62.5	14.0	39.5	25.0
Merged-chr1-138614703-4	chr1	138614591	138614791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 1 of 9)	intron (NM_021605, intron 1 of 9)	5066.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	48.5	48.5	42.0	601.5	131.0	39.5	51.0	39.5
Merged-chr2-25461104-4	chr2	25461029	25461229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153557)	promoter-TSS (NM_153557)	-35.0	NM_153557	227622.0	Mm.261780	NM_153557	ENSMUSG00000047617	Paxx	D930050G13Rik	non-homologous end joining factor	protein-coding	168.5	261.0	115.0	1705.0	329.0	158.5	160.0	149.0
Merged-chr16-55895363-4	chr16	55895262	55895462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134457)	promoter-TSS (NM_001134457)	-83.0	NM_001134457	385658.0	Mm.310635	NM_001134457	ENSMUSG00000075033	Nxpe3	Fam55c|Gm1752|Gm611	neurexophilin and PC-esterase domain family, member 3	protein-coding	71.0	97.5	96.0	1141.5	85.0	40.0	68.5	76.5
Merged-chr2-143948169-4	chr2	143948046	143948246	+	987.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024281, intron 23 of 23)	intron (NM_024281, intron 23 of 23)	32815.0	NM_019771	56431.0	Mm.28919	NM_019771	ENSMUSG00000015932	Dstn	2610043P17Rik|ADF|AU042046|Dsn|corn1|sid23p	destrin	protein-coding	32.5	21.0	31.0	576.5	41.0	10.5	36.0	25.5
Merged-chr6-91515923-4	chr6	91515831	91516031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026309)	promoter-TSS (NM_026309)	-43.0	NM_009531	22591.0	Mm.2806	NM_009531	ENSMUSG00000030094	Xpc	-	xeroderma pigmentosum, complementation group C	protein-coding	259.5	344.5	178.0	2767.5	476.0	211.0	235.0	176.5
Merged-chr17-24488871-4	chr17	24488767	24488967	+	700.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027937)	promoter-TSS (NM_027937)	84.0	NM_027937	268932.0	Mm.70989	NM_027937	ENSMUSG00000033597	Caskin1	3300002N10Rik|C130061I24|C630036E02Rik|mKIAA1306	CASK interacting protein 1	protein-coding	10.5	18.5	16.0	151.5	15.5	4.0	7.0	9.5
Merged-chr6-58640579-4	chr6	58640529	58640729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011920, intron 1 of 15)	CpG	43957.0	NM_011920	26357.0	Mm.333096	NM_011920	ENSMUSG00000029802	Abcg2	ABC15|ABCP|AI428558|BCRP|Bcrp1|MXR|MXR1	ATP binding cassette subfamily G member 2 (Junior blood group)	protein-coding	46.5	72.0	66.5	941.5	101.0	42.0	45.0	36.0
Merged-chr4-108879067-3	chr4	108878946	108879146	+	913.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023537)	promoter-TSS (NM_023537)	-24.0	NM_023537	69908.0	Mm.41580	NM_023537	ENSMUSG00000003411	Rab3b	2610528C18Rik	RAB3B, member RAS oncogene family	protein-coding	0.5	5.5	1.0	4.5	30.5	12.0	24.5	12.5
Merged-chr4-116177619-2	chr4	116177519	116177719	+	853.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4247.0	NM_001099295	67323.0	Mm.45442	NM_001099295	ENSMUSG00000078593	1700042G07Rik	-	RIKEN cDNA 1700042G07 gene	protein-coding	6.5	14.5	10.0	111.0	15.5	4.5	12.0	9.0
Merged-chr4-132813701-3	chr4	132813600	132813800	+	784.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17336.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	10.5	6.5	5.0	99.0	22.0	4.5	5.0	1.5
Merged-chr17-12756082-4	chr17	12756008	12756208	+	704.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	13598.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	3.5	12.5	10.5	124.5	25.0	5.0	10.5	10.5
Merged-chr4-155839652-3	chr4	155839551	155839751	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024263)	promoter-TSS (NM_024263)	-29.0	NM_024263	74761.0	Mm.159028	NM_024263	ENSMUSG00000029070	Mxra8	1200013A08Rik|1700095D18Rik|AI131686|Asp3|Dicam	matrix-remodelling associated 8	protein-coding	96.0	134.0	91.0	1334.0	11.5	4.5	4.5	6.5
Merged-chr13-24800750-4	chr13	24800624	24800824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024473)	promoter-TSS (NM_024473)	-933.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	120.0	210.5	97.0	1800.0	338.5	148.5	194.0	138.0
Merged-chr1-92225486-4	chr1	92225402	92225602	+	836.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45161.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	7.5	17.5	15.5	115.5	18.0	7.0	11.0	11.5
Merged-chr2-137117530-4	chr2	137117430	137117630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-8595	-1010.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	24.0	40.5	18.0	438.0	41.5	20.0	20.5	11.5
Merged-chr2-130291658-4	chr2	130291543	130291743	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4296.0	NM_001110513	228598.0	Mm.32582	NM_152993	ENSMUSG00000053552	Ebf4	Ebf3|O/E-4|Olf-1	early B cell factor 4	protein-coding	25.0	37.5	22.5	297.5	46.5	22.0	19.5	20.5
Merged-chr2-176708165-4	chr2	176708051	176708251	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099327)	promoter-TSS (NM_001099327)	-202.0	NM_001099327	100043387.0	Mm.444048	NM_001099327	ENSMUSG00000078878	Gm14305	-	predicted gene 14305	protein-coding	18.0	32.5	48.0	113.5	23.0	14.0	19.5	14.5
Merged-chr3-52729149-3	chr3	52729060	52729260	+	826.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10564.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	1.0	1.0	2.0	18.5	17.0	7.5	15.0	14.0
Merged-chr2-91475910-3	chr2	91475816	91476016	+	842.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 8 of 37)	intron (NM_172668, intron 8 of 37)	18385.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	7.5	12.0	5.5	132.5	8.5	1.5	4.0	9.0
Merged-chr11-83789433-4	chr11	83789319	83789519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35782.0	NM_145432	217026.0	Mm.117874	NM_145432	ENSMUSG00000000976	Heatr6	2700008B19Rik|BB135312|BB249351	HEAT repeat containing 6	protein-coding	52.5	83.0	45.0	762.0	152.0	54.0	51.5	57.0
Merged-chr10-19053764-4	chr10	19053671	19053871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-38361.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	54.5	99.5	59.0	822.0	180.0	57.0	84.0	65.0
Merged-chr18-53255523-4	chr18	53255437	53255637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	9875.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	81.0	78.5	46.5	960.5	190.5	60.0	66.5	93.5
Merged-chr9-99575856-4	chr9	99575778	99575978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031403)	promoter-TSS (NM_031403)	79.0	NM_031403	83703.0	Mm.31324	NM_031403	ENSMUSG00000032469	Dbr1	AW018415	debranching RNA lariats 1	protein-coding	53.5	55.5	64.0	695.5	106.5	52.5	45.0	40.0
Merged-chr16-62832644-4	chr16	62832544	62832744	+	842.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026577, intron 1 of 9)	intron (NM_026577, intron 1 of 9)	14396.0	NM_026577	68146.0	Mm.96833	NM_026577	ENSMUSG00000022911	Arl13b	A530097K21Rik|A930014M17Rik|Arl2l1|C530009C10Rik|hnn	ADP-ribosylation factor-like 13B	protein-coding	11.5	11.5	8.5	97.5	32.0	6.0	27.0	11.5
Merged-chr16-11175702-4	chr16	11175612	11175812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027502, intron 1 of 22)	intron (NR_027502, intron 1 of 22)	681.0	NR_027502	106205.0	Mm.226860	NM_145931	ENSMUSG00000037965	Zc3h7a	A430104C18Rik|AI447294|AW556219|HSPC055|Zc3h7|Zc3hdc7	zinc finger CCCH type containing 7 A	protein-coding	72.5	258.0	84.0	747.5	276.5	123.0	102.5	60.5
Merged-chr2-11280178-9	chr2	11280057	11280257	+	944.552917	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 14 of 17)	intron (NM_008859, intron 14 of 17)	-59332.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	8.0	16.5	11.0	89.5	7.0	9.5	11.5	13.0
Merged-chr9-40479471-2	chr9	40479371	40479571	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 1 of 20)	intron (NM_001357617, intron 1 of 20)	-23707.0	NM_172768	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	5.0	5.0	8.5	60.0	7.5	1.0	3.5	5.5
Merged-chr6-145866164-4	chr6	145866089	145866289	+	897.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024469)	promoter-TSS (NM_024469)	-769.0	NM_001271768	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	14.5	39.5	53.0	482.0	15.0	7.5	5.5	17.5
Merged-chr10-89453259-1	chr10	89453159	89453359	+	792.333313	f0_balb.idr	TTS (NM_001163504)	TTS (NM_001163504)	-9292.0	NM_001033331	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	8.5	6.5	12.5	142.0	17.5	5.0	4.5	9.0
Merged-chr13-38613507-3	chr13	38613402	38613602	+	760.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139063, intron 3 of 4)	intron (NM_139063, intron 3 of 4)	21607.0	NM_139063	17828.0	Mm.261554	NM_139063	ENSMUSG00000038982	Bloc1s5	1810074A19Rik|Muted|mu	biogenesis of lysosomal organelles complex-1, subunit 5, muted	protein-coding	5.0	7.5	15.0	136.0	5.5	4.5	6.0	8.5
Merged-chr9-13663452-3	chr9	13663361	13663561	+	711.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173776, intron 1 of 3)	intron (NM_173776, intron 1 of 3)	1001.0	NM_173776	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	5.0	8.0	8.0	98.0	1.5	1.5	11.0	5.5
Merged-chr15-34022118-4	chr15	34022024	34022224	+	810.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60595.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	8.0	5.5	3.0	90.5	5.5	7.5	13.5	16.5
Merged-chr3-90710221-4	chr3	90710127	90710327	+	927.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	-14506.0	NM_001281852	20202.0	Mm.2128	NM_009114	ENSMUSG00000056071	S100a9	60B8Ag|AW546964|BEE22|Cagb|GAGB|L1Ag|MRP14|p14	S100 calcium binding protein A9 (calgranulin B)	protein-coding	17.5	18.0	13.5	143.0	16.5	11.5	27.0	18.5
Merged-chr2-38368855-3	chr2	38368730	38368930	+	912.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290646, intron 4 of 4)	intron (NM_001290646, intron 4 of 4)	17522.0	NM_010710	16870.0	Mm.142856	NM_010710	ENSMUSG00000000247	Lhx2	LH2A|Lh-2|Lim2|ap|apterous	LIM homeobox protein 2	protein-coding	4.5	8.5	5.5	143.5	6.5	1.0	1.0	5.0
Merged-chr1-149957689-4	chr1	149957599	149957799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	3591.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	85.5	110.0	103.5	1488.5	325.5	90.5	98.5	95.0
Merged-chr6-88903919-4	chr6	88903818	88904018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011906, intron 1 of 11)	intron (NM_011906, intron 1 of 11)	1667.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	41.0	80.5	48.0	1021.0	138.5	47.0	37.0	64.5
Merged-chr5-110448005-4	chr5	110447877	110448077	+	930.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001142642, exon 1 of 19)	exon (NM_001142642, exon 1 of 19)	526.0	NM_001317042	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	8.0	19.0	37.0	196.0	33.0	11.5	15.5	28.0
Merged-chr17-68214057-3	chr17	68213923	68214123	+	761.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59774.0	NM_177278	320858.0	Mm.137356	NM_177278	ENSMUSG00000041565	L3mbtl4	A730037L19Rik|D930040M24Rik	L3MBTL4 histone methyl-lysine binding protein	protein-coding	4.5	9.0	12.0	221.0	9.5	2.0	9.5	7.0
Merged-chr9-98563658-4	chr9	98563564	98563764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015827)	promoter-TSS (NM_015827)	-53.0	NR_029444	75881.0	Mm.483402	NM_175227	ENSMUSG00000051074	4930579K19Rik	-	RIKEN cDNA 4930579K19 gene	ncRNA	269.0	328.5	325.5	3841.5	599.0	233.0	287.5	319.5
Merged-chr10-59269026-4	chr10	59268921	59269121	+	749.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	47099.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	6.5	3.0	10.0	86.5	23.0	5.5	6.5	8.5
Merged-chr2-173018761-4	chr2	173018667	173018867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3135.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	41.0	56.0	47.0	854.5	92.0	39.0	52.5	23.5
Merged-chr14-76414544-4	chr14	76414399	76414599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310646)	promoter-TSS (NM_001310646)	-462.0	NM_001310646	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	108.0	149.0	130.5	1180.0	196.5	80.0	89.5	87.5
Merged-chr2-104712252-4	chr2	104712137	104712337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177190)	promoter-TSS (NM_177190)	-75.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	21.5	40.0	50.0	341.0	41.5	19.0	18.0	19.5
Merged-chr7-4503969-4	chr7	4503865	4504065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011618)	TTS (NM_011618)	-2285.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	60.5	36.5	45.0	827.0	79.5	20.5	20.5	25.5
Merged-chr7-80782433-4	chr7	80782357	80782557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016721, intron 2 of 37)	intron (NM_016721, intron 2 of 37)	20874.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	110.0	150.5	119.5	1396.5	173.5	82.5	56.0	81.5
Merged-chr8-11555974-4	chr8	11555871	11556071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011919)	promoter-TSS (NM_011919)	-92.0	NM_001302457	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	264.0	453.5	318.0	3681.5	785.5	305.5	413.0	295.5
Merged-chr9-61898561-2	chr9	61898461	61898661	+	682.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15949.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	8.0	11.0	5.0	17.0	14.5	2.5	4.5	8.5
Merged-chr1-13659105-4	chr1	13658999	13659199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145381, intron 1 of 6)	intron (NM_145381, intron 1 of 6)	1410.0	NM_145381	212442.0	Mm.89572	NM_145381	ENSMUSG00000025937	Lactb2	Cgi-83|E430032H21Rik	lactamase, beta 2	protein-coding	56.0	66.0	48.5	818.0	124.0	42.0	42.5	38.5
Merged-chr2-164860984-4	chr2	164860871	164861071	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3263.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	20.5	35.5	22.0	238.5	69.5	16.5	14.5	25.5
Merged-chr9-9238999-4	chr9	9238902	9239102	+	954.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027823)	promoter-TSS (NM_027823)	11.0	NM_027823	71544.0	Mm.334955	NM_027823	ENSMUSG00000050730	Arhgap42	9030420J04Rik|BE136619	Rho GTPase activating protein 42	protein-coding	17.5	23.5	26.5	253.5	40.5	14.0	14.0	30.0
Merged-chr10-78465063-4	chr10	78464988	78465188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172134)	promoter-TSS (NM_172134)	-140.0	NM_172134	216134.0	Mm.206159	NM_172134	ENSMUSG00000032788	Pdxk	2310036D04Rik|AA119688|C77999	pyridoxal (pyridoxine, vitamin B6) kinase	protein-coding	344.5	429.5	280.5	4276.5	739.0	244.5	350.5	288.5
Merged-chr19-7496358-4	chr19	7496252	7496452	+	687.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146091, intron 1 of 12)	B2_Mm1a|SINE|B2	1914.0	NM_146091	109168.0	Mm.264016	NM_146091	ENSMUSG00000024759	Atl3	4633402C03Rik|5730596K20Rik|AI465397|AW228836	atlastin GTPase 3	protein-coding	12.0	5.5	10.0	53.5	31.5	10.0	8.0	13.5
Merged-chr4-114997900-3	chr4	114997812	114998012	+	726.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2206.0	NM_001304559	20460.0	Mm.3988	NM_009185	ENSMUSG00000028718	Stil	Sil	Scl/Tal1 interrupting locus	protein-coding	7.5	6.0	11.0	65.5	10.5	3.0	14.5	9.5
Merged-chr5-64959652-4	chr5	64959547	64959747	+	814.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359180, intron 1 of 1)	intron (NM_001359180, intron 1 of 1)	449.0	NM_001359180	21899.0	Mm.42146	NM_011604	ENSMUSG00000051498	Tlr6	-	toll-like receptor 6	protein-coding	2.0	5.5	4.0	170.5	21.0	5.5	16.0	9.0
Merged-chr17-67304449-4	chr17	67304336	67304536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	50023.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	28.0	54.0	20.5	530.5	150.0	34.0	54.0	59.5
Merged-chr12-82260367-4	chr12	82260267	82260467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	intron (NM_001167983, intron 2 of 23)	-50982.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	30.5	50.0	18.5	490.0	45.0	19.5	47.0	29.0
Merged-chr4-150341012-3	chr4	150340914	150341114	+	856.727783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	intron (NM_001085492, intron 1 of 22)	59098.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	27.0	21.5	9.5	254.5	11.5	5.0	6.5	8.5
Merged-chr5-136135581-2	chr5	136135481	136135681	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347492)	promoter-TSS (NM_001347492)	493.0	NM_027891	71735.0	Mm.425292	NM_027891	ENSMUSG00000029703	Lrwd1	1200011O22Rik|AU042569|AW548074|Orca	leucine-rich repeats and WD repeat domain containing 1	protein-coding	3.5	7.0	10.0	103.0	14.0	9.5	7.0	9.5
Merged-chr3-88531790-4	chr3	88531698	88531898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029890)	promoter-TSS (NM_001029890)	-597.0	NM_001029890	72640.0	Mm.275154	NM_001029890	ENSMUSG00000074480	Mex3a	2700083E18Rik|Gm411|Rkhd4	mex3 RNA binding family member A	protein-coding	36.5	35.5	35.0	336.0	61.0	22.5	13.5	30.5
Merged-chr13-75839850-4	chr13	75839754	75839954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360151)	promoter-TSS (NM_001360151)	-31.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	149.5	171.5	157.5	2639.5	231.5	102.5	135.5	107.5
Merged-chr19-11098560-4	chr19	11098453	11098653	+	780.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 6 of 6)	intron (NM_027058, intron 6 of 6)	-17450.0	NM_022430	64381.0	Mm.34460	NM_022430	ENSMUSG00000024730	Ms4a8a	2010004L09Rik|AI481240|CD20L5|Ms4a8	membrane-spanning 4-domains, subfamily A, member 8A	protein-coding	13.0	6.0	12.0	237.5	26.5	4.0	11.0	10.5
Merged-chr19-5847585-3	chr19	5847497	5847697	+	973.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2117.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	8.5	6.5	5.0	88.5	10.5	6.0	5.0	10.0
Merged-chr9-95682027-4	chr9	95681941	95682141	+	965.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 5 of 8)	MTB_Mm|LTR|ERVL-MaLR	44413.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	17.5	11.5	9.5	143.5	57.0	11.0	23.5	18.0
Merged-chr19-41335910-4	chr19	41335803	41336003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	49167.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	96.0	147.0	64.5	1014.5	199.5	59.0	55.5	58.0
Merged-chr7-19077296-1	chr7	19077196	19077396	+	1000.0	f1_balb.idr	intron (NM_010058, intron 1 of 4)	intron (NM_010058, intron 1 of 4)	1096.0	NM_010058	13401.0	Mm.2852	NM_010058	ENSMUSG00000030410	Dmwd	DMR-N9|Dm9	dystrophia myotonica-containing WD repeat motif	protein-coding	3.0	3.0	2.0	58.0	38.0	7.5	10.5	13.5
Merged-chr17-83808234-4	chr17	83808140	83808340	+	850.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 16 of 16)	intron (NM_054082, intron 16 of 16)	38550.0	NM_025325	107766.0	Mm.30100	NM_025325	ENSMUSG00000000673	Haao	0610007K21Rik|0610012J07Rik|3-HAO|3-HAOxase|3HAO	3-hydroxyanthranilate 3,4-dioxygenase	protein-coding	8.5	10.0	8.0	203.0	34.0	16.5	12.5	15.5
Merged-chr2-76675704-2	chr2	76675604	76675804	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_031256, intron 1 of 7)	CpG	389.0	NM_031256	83435.0	Mm.41636	NM_031256	ENSMUSG00000002733	Plekha3	FAPP1	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 3	protein-coding	8.0	14.5	32.0	206.5	26.0	5.5	14.0	16.0
Merged-chr15-25269844-4	chr15	25269750	25269950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143914.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	229.0	421.0	275.5	3285.0	714.0	299.5	309.5	270.0
Merged-chr14-17902230-1	chr14	17902130	17902330	+	1000.0	f0_c57.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-79414.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	22.0	16.0	28.5	347.0	63.0	15.5	33.5	27.0
Merged-chr9-63602561-4	chr9	63602455	63602655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311098)	promoter-TSS (NM_001311098)	-62.0	NM_001311098	78250.0	Mm.444612	NM_030068	ENSMUSG00000037801	Iqch	4921504K03Rik	IQ motif containing H	protein-coding	197.5	288.0	91.0	2549.5	475.0	178.0	183.0	162.5
Merged-chr9-113709105-4	chr9	113708986	113709186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164677)	promoter-TSS (NM_001164677)	-827.0	NM_011052	18571.0	Mm.29816	NM_011052	ENSMUSG00000032504	Pdcd6ip	AI480591|AW544830|Aip1|Alix|C76364|Eig2|mKIAA1375	programmed cell death 6 interacting protein	protein-coding	69.5	67.0	50.5	1164.0	164.0	60.0	91.0	65.5
Merged-chr13-25791486-4	chr13	25791384	25791584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	174832.0	NR_045062	100503530.0	Mm.86763	NR_045062	ENSMUSG00000086531	Gm11351	-	predicted gene 11351	ncRNA	82.5	103.5	106.5	1756.0	205.0	78.0	102.0	86.0
Merged-chr11-115078526-4	chr11	115078453	115078653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-12878.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	52.0	57.0	32.5	607.5	123.5	36.0	51.5	35.5
Merged-chr16-35872579-4	chr16	35872470	35872670	+	908.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1188.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	20.5	28.0	12.0	93.0	22.0	18.0	14.0	12.0
Merged-chr15-66813613-4	chr15	66813507	66813707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	18222.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	30.0	44.0	34.0	445.0	70.0	30.0	21.5	32.0
Merged-chr5-106696078-4	chr5	106695960	106696160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026856, intron 1 of 6)	CpG	770.0	NM_026856	52397.0	Mm.249474	NM_026856	ENSMUSG00000049606	Zfp644	1110068L01Rik|AA408882|BM-005|D5Ertd689e|Zep-2	zinc finger protein 644	protein-coding	24.5	36.5	24.5	339.5	62.5	23.0	25.5	30.5
Merged-chr9-36931835-3	chr9	36931623	36931823	+	959.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 6 of 12)	intron (NM_001029838, intron 6 of 12)	98149.0	NM_001357611	235180.0	Mm.5264	NM_183171	ENSMUSG00000032118	Fez1	UNC-76|UNC76	fasciculation and elongation protein zeta 1 (zygin I)	protein-coding	5.5	9.5	14.0	111.0	5.0	0.0	1.5	0.0
Merged-chr3-22008652-4	chr3	22008569	22008769	+	907.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67983.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	6.5	14.5	13.5	156.5	40.5	7.5	14.5	17.0
Merged-chr11-114877299-6	chr11	114877243	114877443	+	866.022217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-12698.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	8.5	14.5	1.5	159.0	31.5	6.0	22.5	14.0
Merged-chr6-136809305-4	chr6	136809198	136809398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177688, exon 1 of 1)	3' UTR (NM_177688, exon 1 of 1)	1050.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	58.5	107.5	76.0	1385.5	165.0	62.0	68.5	78.5
Merged-chr2-60298444-4	chr2	60298343	60298543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013825, intron 34 of 34)	ORR1D2|LTR|ERVL-MaLR	-13959.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	43.5	64.5	49.0	598.0	123.5	55.0	70.5	77.0
Merged-chr17-56812227-4	chr17	56812139	56812339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009056, intron 1 of 16)	RMER5|LTR|ERV1	18769.0	NM_009056	19725.0	Mm.102	NM_009056	ENSMUSG00000024206	Rfx2	5430432H19Rik	regulatory factor X, 2 (influences HLA class II expression)	protein-coding	22.5	43.5	34.5	591.0	118.5	30.5	70.0	63.5
Merged-chr6-143073602-3	chr6	143073487	143073687	+	780.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362115, intron 7 of 26)	intron (NM_001362115, intron 7 of 26)	26565.0	NM_001362118	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	6.5	7.5	7.5	143.0	10.5	7.0	2.5	11.0
Merged-chr11-108215020-4	chr11	108214916	108215116	+	889.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	128872.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	13.0	18.0	11.0	188.5	36.0	21.0	14.5	11.0
Merged-chr10-59236652-4	chr10	59236525	59236725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14703.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	136.0	205.0	120.5	1787.0	336.5	116.0	164.5	136.5
Merged-chr7-122305625-4	chr7	122305512	122305712	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	16487.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	11.5	25.0	19.0	477.5	28.5	3.0	18.0	16.5
Merged-chr15-27467038-3	chr15	27466930	27467130	+	790.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020332, exon 1 of 12)	exon (NM_020332, exon 1 of 12)	353.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	13.5	11.0	17.5	194.0	9.0	2.0	6.0	3.0
Merged-chr2-4917914-2	chr2	4917814	4918014	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1082.0	NM_010726	16922.0	Mm.391704	NM_010726	ENSMUSG00000026664	Phyh	AI256161|AI265699|Lnap1|PAHX	phytanoyl-CoA hydroxylase	protein-coding	12.5	30.5	18.5	197.0	44.0	21.5	20.0	31.5
Merged-chr10-54075813-4	chr10	54075694	54075894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038016)	promoter-TSS (NR_038016)	2.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	156.0	195.5	130.5	2551.5	328.0	106.0	200.5	120.5
Merged-chr6-122921643-4	chr6	122921537	122921737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199311)	promoter-TSS (NM_199311)	-211.0	NM_199311	269799.0	Mm.297275	NM_199311	ENSMUSG00000049037	Clec4a1	BC049354|Dcir4	C-type lectin domain family 4, member a1	protein-coding	131.0	231.5	108.0	2358.0	249.5	135.5	112.0	106.0
Merged-chr15-98867512-4	chr15	98867416	98867616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033276, intron 1 of 54)	intron (NM_001033276, intron 1 of 54)	3689.0	NM_001033276	381022.0	Mm.264889	NM_001033276	ENSMUSG00000048154	Kmt2d	ALR|BC032281|BC058659|C430014K11Rik|KMT2B|Mll2|Mll4	lysine (K)-specific methyltransferase 2D	protein-coding	60.5	99.0	42.0	846.0	100.0	56.0	56.5	40.0
Merged-chr2-45111734-4	chr2	45111660	45111860	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110571)	promoter-TSS (NR_110571)	-500.0	NR_110571	433424.0	Mm.441408	NR_110571	ENSMUSG00000052248	Zeb2os	Gm13476|Zeb2nat	zinc finger E-box binding homeobox 2, opposite strand	ncRNA	29.0	63.5	14.5	146.5	82.0	29.5	33.0	20.5
Merged-chr14-27382107-2	chr14	27382007	27382207	+	912.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 4 of 10)	MER21B|LTR|ERVL	20718.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	9.5	6.0	4.0	69.0	13.5	5.0	5.0	8.5
Merged-chr18-84589735-4	chr18	84589624	84589824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033341)	promoter-TSS (NM_001033341)	-220.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	52.5	73.0	56.5	554.5	134.5	61.5	60.5	47.0
Merged-chr1-74437568-4	chr1	74437468	74437668	+	853.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001310662, exon 24 of 24)	3' UTR (NM_001310662, exon 24 of 24)	28184.0	NM_009509	22349.0	Mm.471601	NM_009509	ENSMUSG00000026175	Vil1	Vil	villin 1	protein-coding	14.0	25.0	2.5	83.0	36.5	15.5	11.0	13.0
Merged-chr15-9094182-3	chr15	9094076	9094276	+	784.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040395, intron 6 of 12)	MLT1F1|LTR|ERVL-MaLR	22916.0	NM_001040395	68646.0	Mm.244226	NM_001040395	ENSMUSG00000022253	Nadk2	MNADK|Nadkd1	NAD kinase 2, mitochondrial	protein-coding	5.5	4.5	6.5	144.5	8.5	2.5	6.5	10.5
Merged-chr4-62470914-4	chr4	62470818	62471018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290521)	promoter-TSS (NM_001290521)	-19.0	NM_001290521	71354.0	Mm.155573	NM_023597	ENSMUSG00000028391	Wdr31	5430402I10Rik|spWD	WD repeat domain 31	protein-coding	21.0	50.0	21.5	246.0	82.0	17.5	33.0	27.0
Merged-chr10-8757195-4	chr10	8757090	8757290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	128880.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	30.5	55.5	26.0	593.5	136.0	55.5	53.5	43.0
Merged-chr10-10424555-4	chr10	10424441	10424641	+	954.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 10 of 36)	MLT2B4|LTR|ERVL	47773.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	3.5	18.5	17.5	323.0	53.5	23.0	20.5	10.5
Merged-chr2-35329131-2	chr2	35329031	35329231	+	604.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	7878.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	5.0	5.5	5.0	50.5	19.5	2.0	11.0	5.0
Merged-chr15-8099262-4	chr15	8099151	8099351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081402)	promoter-TSS (NM_001081402)	-42.0	NM_001081402	545085.0	Mm.321312	NM_001081402	ENSMUSG00000039828	Wdr70	4833422F06Rik	WD repeat domain 70	protein-coding	120.5	166.0	88.0	1414.5	357.5	126.5	154.5	126.0
Merged-chr4-149989232-4	chr4	149989138	149989338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291004, intron 3 of 4)	intron (NM_001291004, intron 3 of 4)	13998.0	NM_001291004	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	39.5	39.5	50.0	811.5	62.0	35.5	32.0	51.5
Merged-chr3-9984123-4	chr3	9984015	9984215	+	831.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28470.0	NM_001272097	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	2.0	9.0	4.0	107.0	16.0	13.0	6.5	15.5
Merged-chr18-15063574-3	chr18	15063471	15063671	+	961.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142731)	promoter-TSS (NM_001142731)	11.0	NM_001142731	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	12.0	12.5	4.5	260.0	11.0	5.5	7.0	10.5
Merged-chr15-78754057-5	chr15	78753936	78754136	+	771.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19409.0	NM_008595	17305.0	Mm.149235	NM_008595	ENSMUSG00000018169	Mfng	AW546563	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	6.5	19.5	21.0	84.0	4.5	2.5	2.0	3.5
Merged-chr2-117444925-4	chr2	117444833	117445033	+	916.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102056.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	11.0	18.5	5.0	208.5	48.5	8.5	16.0	15.0
Merged-chr17-57247843-4	chr17	57247759	57247959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308074)	promoter-TSS (NM_001308074)	-170.0	NM_030084	78308.0	Mm.28468	NM_030084	ENSMUSG00000005823	Gpr108	1810015L19Rik|AA589464|C79132|Lustr2	G protein-coupled receptor 108	protein-coding	299.0	413.0	336.5	4127.5	628.5	265.0	312.5	255.0
Merged-chr3-95661017-3	chr3	95660906	95661106	+	928.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008562, exon 3 of 3)	3' UTR (NM_008562, exon 3 of 3)	2285.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	3.5	8.5	4.0	39.5	13.0	4.5	11.0	5.5
Merged-chr2-51089518-4	chr2	51089470	51089670	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59541.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	11.5	54.0	40.5	595.5	77.0	29.0	29.5	30.5
Merged-chr16-23346979-4	chr16	23346870	23347070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 5 of 7)	MTEa|LTR|ERVL-MaLR	56500.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	30.0	92.5	51.5	395.5	103.5	23.0	48.0	31.5
Merged-chr7-43608192-4	chr7	43608100	43608300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355131, intron 1 of 3)	intron (NM_001355131, intron 1 of 3)	1031.0	NM_028913	74400.0	Mm.159188	NM_028913	ENSMUSG00000055102	Zfp819	4930427I11Rik|4933405K07Rik	zinc finger protein 819	protein-coding	55.5	113.0	79.5	858.0	125.0	37.0	46.0	33.0
Merged-chr4-128797045-4	chr4	128796949	128797149	+	927.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081098, intron 1 of 8)	L1M5|LINE|L1	9063.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	11.0	31.5	13.0	77.0	40.5	7.5	14.0	19.0
Merged-chr11-54988151-3	chr11	54988060	54988260	+	729.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 19 of 24)	B3A|SINE|B2	-25220.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	5.0	16.5	1.5	44.0	20.0	7.0	9.5	5.5
Merged-chr2-122765335-4	chr2	122765210	122765410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162503)	promoter-TSS (NM_001162503)	-49.0	NM_001162503	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	82.0	93.5	58.0	1409.0	173.5	64.5	90.0	75.5
Merged-chr2-173812092-3	chr2	173811986	173812186	+	728.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74515.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	10.0	12.5	6.0	120.0	13.0	7.5	7.5	1.5
Merged-chr7-126702530-4	chr7	126702433	126702633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301374, intron 2 of 10)	intron (NM_001301374, intron 2 of 10)	1687.0	NM_001301374	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	31.5	22.0	19.5	353.0	97.0	17.0	38.5	39.5
Merged-chr8-11767632-4	chr8	11767529	11767729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017402, intron 1 of 19)	RMER15|LTR|ERVL	9299.0	NM_001113518	54126.0	Mm.244068	NM_017402	ENSMUSG00000031511	Arhgef7	Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR	Rho guanine nucleotide exchange factor (GEF7)	protein-coding	38.5	57.5	38.0	510.0	82.0	37.5	40.5	54.0
Merged-chr14-54259205-4	chr14	54259109	54259309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134076)	promoter-TSS (NM_134076)	-23.0	NM_134076	105501.0	Mm.28771	NM_134076	ENSMUSG00000040997	Abhd4	1110035H23Rik|AI429574|Abh4	abhydrolase domain containing 4	protein-coding	80.5	106.5	93.5	1453.0	215.5	67.5	95.5	70.5
Merged-chr5-143112565-3	chr5	143112489	143112689	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080561, intron 1 of 16)	CpG	431.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	20.0	34.5	43.0	322.0	73.0	28.5	30.0	32.0
Merged-chr2-104996515-3	chr2	104996422	104996622	+	801.477783	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177600, intron 17 of 17)	intron (NM_177600, intron 17 of 17)	20505.0	NM_145380	98221.0	Mm.379278	NM_145380	ENSMUSG00000027170	Eif3m	Ga17|Pcid1|Tango7	eukaryotic translation initiation factor 3, subunit M	protein-coding	4.5	8.0	6.0	81.5	34.0	4.0	6.5	19.0
Merged-chr17-35725698-4	chr17	35725577	35725777	+	912.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21078.0	NM_007584	12305.0	Mm.5021	NM_007584	ENSMUSG00000003534	Ddr1	6030432F18|AI323681|CD167a|Cak|Nep|PTK3A	discoidin domain receptor family, member 1	protein-coding	16.5	16.0	28.0	239.5	27.5	16.0	11.5	12.5
Merged-chr5-18010488-4	chr5	18010350	18010550	+	967.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	47880.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	7.0	10.0	3.0	162.0	27.5	7.0	7.0	8.0
Merged-chr13-100835061-4	chr13	100834962	100835162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAA)n|Simple_repeat|Simple_repeat	-1635.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	40.0	38.5	39.5	580.5	106.5	32.5	36.0	47.5
Merged-chr5-145140118-4	chr5	145140073	145140273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033313)	promoter-TSS (NM_001033313)	-84.0	NM_001033313	231887.0	Mm.188851	NM_001033313	ENSMUSG00000029623	Pdap1	HASPP28|PAP|PAP1	PDGFA associated protein 1	protein-coding	40.0	57.5	20.0	285.5	101.0	55.5	43.5	65.0
Merged-chr2-52762719-4	chr2	52762655	52762855	+	887.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20606.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	9.5	25.0	12.5	282.5	40.0	11.5	11.0	14.5
Merged-chr7-35106780-3	chr7	35106683	35106883	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEb|LINE|L1	-12510.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	21.5	25.5	16.0	426.5	19.5	14.5	7.5	8.0
Merged-chr7-121333157-4	chr7	121333042	121333242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-59154.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	40.5	55.0	35.0	394.5	86.5	39.0	44.0	50.0
Merged-chr10-91191506-3	chr10	91191404	91191604	+	653.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19885.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	5.5	5.0	5.5	78.5	9.0	5.5	4.0	10.5
Merged-chr4-34960301-1	chr4	34960201	34960401	+	602.0	f0_balb.idr	intron (NM_178061, intron 3 of 3)	intron (NM_178061, intron 3 of 3)	-48820.0	NR_040652	73696.0	Mm.1361	NR_040652	ENSMUSG00000085824	Platr9	2410114N07Rik	pluripotency associated transcript 9	ncRNA	8.5	7.0	10.5	129.5	19.5	3.0	3.5	10.0
Merged-chr16-24670100-7	chr16	24669999	24670199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 6 of 12)	intron (NM_178665, intron 6 of 12)	-51756.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	22.0	40.0	40.0	217.0	68.0	25.5	17.5	24.0
Merged-chr9-119402565-4	chr9	119402488	119402688	+	931.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001313757, exon 1 of 11)	exon (NM_001313757, exon 1 of 11)	410.0	NM_001313757	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	18.5	21.5	16.5	115.5	36.5	20.5	14.0	17.0
Merged-chr6-15729012-4	chr6	15728902	15729102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	8341.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	68.0	79.0	74.5	1240.0	177.0	51.5	60.5	61.5
Merged-chr17-8902176-4	chr17	8902095	8902295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 2 of 21)	ORR1D2|LTR|ERVL-MaLR	52210.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	54.5	74.5	65.5	1283.0	150.5	48.5	84.0	65.5
Merged-chr14-25768501-3	chr14	25768397	25768597	+	923.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101433, intron 1 of 3)	CpG	359.0	NM_001101433	71918.0	Mm.41904	NM_001101433	ENSMUSG00000055538	Zcchc24	2310047A01Rik	zinc finger, CCHC domain containing 24	protein-coding	12.0	7.5	7.0	86.0	19.0	6.0	7.0	9.0
Merged-chr7-45107223-3	chr7	45107118	45107318	+	870.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3396.0	NM_010189	14132.0	Mm.3303	NM_010189	ENSMUSG00000003420	Fcgrt	FcRn	Fc receptor, IgG, alpha chain transporter	protein-coding	5.5	9.5	5.0	99.5	7.5	4.5	5.0	4.5
Merged-chr2-166771603-5	chr2	166771482	166771682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22185.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	24.5	56.5	40.0	444.0	85.5	44.5	22.5	35.5
Merged-chr3-58411763-3	chr3	58411663	58411863	+	687.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2957.0	NM_001081229	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	7.5	4.0	5.0	134.0	10.5	4.5	5.0	18.5
Merged-chr2-150981562-4	chr2	150981470	150981670	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207204, intron 1 of 23)	intron (NM_207204, intron 1 of 23)	27828.0	NM_207204	78177.0	Mm.120911	NM_207204	ENSMUSG00000068115	Ninl	4930519N13Rik|Gm1004|Gm1634|mKIAA0980	ninein-like	protein-coding	24.5	12.5	16.0	247.0	12.5	2.5	17.5	15.5
Merged-chr16-91647784-4	chr16	91647692	91647892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178880)	promoter-TSS (NM_178880)	-32.0	NM_019973	20658.0	Mm.46401	NM_019973	ENSMUSG00000022961	Son	2900011L12Rik|AA409051|AU067731|C81487|mKIAA1019|nrebp	Son DNA binding protein	protein-coding	157.5	254.5	126.5	2081.5	485.5	159.0	210.5	157.0
Merged-chr2-121449191-4	chr2	121449110	121449310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011354)	promoter-TSS (NM_011354)	12.0	NR_110986	378702.0	Mm.262252	NM_011354	ENSMUSG00000074884	Serf2	C80083|Msmac1l|m4F5rel	small EDRK-rich factor 2	protein-coding	396.5	645.5	370.5	4576.5	894.0	417.0	482.5	354.5
Merged-chr10-111785702-4	chr10	111785599	111785799	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	88677.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	25.0	44.5	43.0	741.5	38.5	11.0	29.0	15.5
Merged-chr12-80793042-4	chr12	80792938	80793138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	2506.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	57.5	103.5	22.0	444.0	152.5	65.5	42.5	33.5
Merged-chr13-81352505-4	chr13	81352392	81352592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	intron (NM_054053, intron 83 of 89)	280652.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	139.0	224.5	187.5	2445.5	338.0	129.0	158.0	120.5
Merged-chr4-41129599-4	chr4	41129498	41129698	+	723.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5259.0	NM_139236	230082.0	Mm.285797	NM_139236	ENSMUSG00000028430	Nol6	AA410091|Nrap	nucleolar protein family 6 (RNA-associated)	protein-coding	6.0	6.5	3.5	95.0	29.0	11.0	11.0	6.5
Merged-chr10-84549982-4	chr10	84549876	84550076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040658, intron 2 of 3)	(A)n|Simple_repeat|Simple_repeat	3362.0	NR_040658	442847.0	Mm.128292	NR_040658	ENSMUSG00000097076	Platr7	C330046G13Rik	pluripotency associated transcript 7	ncRNA	48.0	61.5	37.5	335.5	100.5	32.0	51.0	47.0
Merged-chr1-144250601-4	chr1	144250518	144250718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1514.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	39.5	41.5	57.5	938.5	94.5	39.5	33.5	64.0
Merged-chr4-134703849-4	chr4	134703759	134703959	+	944.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_207237, exon 1 of 12)	5' UTR (NM_207237, exon 1 of 12)	431.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	17.5	33.0	26.0	175.0	35.0	19.5	12.5	20.5
Merged-chr5-147911907-4	chr5	147911811	147912011	+	904.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17096.0	NM_027872	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	12.5	5.0	11.5	138.0	45.0	9.5	21.5	16.0
Merged-chr2-142606183-3	chr2	142606082	142606282	+	765.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	295282.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	6.5	16.5	3.0	164.0	26.0	5.0	8.0	9.5
Merged-chr7-38064692-2	chr7	38064593	38064793	+	598.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	42797.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	6.0	10.5	6.5	89.5	21.0	2.5	10.5	3.0
Merged-chr19-21942486-3	chr19	21942394	21942594	+	688.444458	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	164154.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	1.5	6.5	9.5	96.0	27.5	14.5	12.0	8.5
Merged-chr9-25485702-4	chr9	25485597	25485797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	intron (NM_026189, intron 2 of 7)	4100.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	99.5	144.0	104.0	1841.5	245.5	94.0	128.0	112.5
Merged-chr11-93985590-2	chr11	93985490	93985690	+	643.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10501.0	NM_001199203	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	2.0	3.0	2.0	57.5	20.5	5.0	4.5	8.5
Merged-chr10-81601045-4	chr10	81600956	81601156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346695)	promoter-TSS (NM_001346695)	-156.0	NM_001346695	114606.0	Mm.206764	NM_053254	ENSMUSG00000034758	Tle6	1810057E06Rik|Grg6	transducin-like enhancer of split 6	protein-coding	95.0	128.0	89.0	1534.0	268.0	114.0	139.5	119.5
Merged-chr9-109118271-4	chr9	109118186	109118386	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172775, exon 38 of 38)	3' UTR (NM_172775, exon 38 of 38)	22850.0	NM_172775	235611.0	Mm.53862	NM_172775	ENSMUSG00000053646	Plxnb1	2900002G15Rik|AU042020|mKIAA0407	plexin B1	protein-coding	29.5	27.0	42.0	571.5	35.0	23.0	16.5	14.0
Merged-chr17-10675231-3	chr17	10675131	10675331	+	892.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	ORR1E|LTR|ERVL-MaLR	164960.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	13.0	15.0	15.0	307.0	20.5	5.5	15.5	6.5
Merged-chr17-28800883-4	chr17	28800710	28800910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081315)	promoter-TSS (NM_001081315)	-316.0	NM_001081315	268936.0	Mm.291877	NM_199061	ENSMUSG00000063952	Brpf3	AI413466|AW493400|mKIAA1286	bromodomain and PHD finger containing, 3	protein-coding	34.5	43.5	30.0	224.5	61.0	12.0	20.0	25.0
Merged-chr11-3428990-3	chr11	3428888	3429088	+	793.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110959, intron 1 of 5)	intron (NR_110959, intron 1 of 5)	-19750.0	NM_010718	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	10.5	10.0	8.5	138.5	10.5	9.0	5.5	6.5
Merged-chr5-125390148-4	chr5	125390056	125390256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019639)	promoter-TSS (NM_019639)	-139.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	84.0	151.0	77.0	877.5	347.0	146.5	210.0	122.5
Merged-chr15-99341242-4	chr15	99341143	99341343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310622, intron 1 of 25)	MTD|LTR|ERVL-MaLR	29239.0	NM_001310623	22379.0	Mm.29043	NM_011711	ENSMUSG00000023008	Fmnl3	2700073B04Rik|FBP11|Wbp3|mKIAA2014	formin-like 3	protein-coding	41.0	71.5	25.5	427.0	69.5	28.5	33.0	28.5
Merged-chr15-76818196-4	chr15	76818107	76818307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168288)	promoter-TSS (NM_001168288)	-37.0	NM_198420	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	93.5	124.5	55.0	983.5	249.0	97.5	105.0	89.5
Merged-chr9-36768646-4	chr9	36768528	36768728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1050.0	NM_008408	16430.0	Mm.2863	NM_008408	ENSMUSG00000032116	Stt3a	AA408947|BB081708|Itm1	STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae)	protein-coding	26.5	36.5	21.0	340.5	88.5	17.0	31.0	30.5
Merged-chr9-59544449-1	chr9	59544349	59544549	+	983.0	f0_balb.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	4909.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	14.5	13.5	15.0	240.0	31.5	18.5	8.5	13.0
Merged-chr2-6086008-4	chr2	6085840	6086040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44245.0	NM_144883	227545.0	Mm.133542	NM_144883	ENSMUSG00000045319	Proser2	5430407P10Rik|AU067770	proline and serine rich 2	protein-coding	22.0	36.0	52.5	590.0	61.5	20.5	23.5	37.5
Merged-chr11-96830064-4	chr11	96829954	96830154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130450)	promoter-TSS (NM_001130450)	-86.0	NM_008686	18023.0	Mm.6743	NM_008686	ENSMUSG00000038615	Nfe2l1	AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11	nuclear factor, erythroid derived 2,-like 1	protein-coding	253.5	357.0	223.0	2873.5	575.5	195.5	241.0	218.0
Merged-chr8-79375036-4	chr8	79374959	79375159	+	933.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	MIRb|SINE|MIR	24409.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	11.5	20.0	13.5	308.5	50.5	18.0	14.5	17.5
Merged-chr4-101656261-4	chr4	101656168	101656368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175036, exon 3 of 4)	exon (NM_175036, exon 3 of 4)	8485.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	155.5	182.5	189.0	2284.5	369.5	80.5	180.5	150.5
Merged-chr18-84806629-3	chr18	84806510	84806710	+	688.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44728.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	6.0	7.5	4.5	74.0	5.5	6.5	5.0	10.5
Merged-chr14-15065366-4	chr14	15065258	15065458	+	955.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	244543.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	15.5	12.5	25.5	241.5	63.0	21.5	12.5	14.0
Merged-chr12-8927818-4	chr12	8927738	8927938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008640, intron 1 of 6)	MTD|LTR|ERVL-MaLR	6531.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	183.0	239.0	192.5	3485.0	543.5	180.0	239.0	223.0
Merged-chr13-21408557-4	chr13	21408486	21408686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5831.0	NM_023685	72739.0	Mm.296071	NM_023685	ENSMUSG00000021327	Zkscan3	2810435N07Rik|AA408594|AI132359|Skz1|Zf47|Zfp-47|Zfp306|Zfp307|mszf35	zinc finger with KRAB and SCAN domains 3	protein-coding	122.5	144.5	128.0	2074.0	116.5	45.0	82.0	76.0
Merged-chr16-43655412-4	chr16	43655324	43655524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146325, intron 3 of 3)	intron (NM_001146325, intron 3 of 3)	8760.0	NM_001146325	100043314.0	Mm.390896	NM_001146325	ENSMUSG00000071552	Tigit	Vstm3	T cell immunoreceptor with Ig and ITIM domains	protein-coding	18.0	29.0	23.5	404.5	64.5	16.5	24.5	22.0
Merged-chr13-114376718-4	chr13	114376624	114376824	+	868.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010887, intron 1 of 4)	L1MD2|LINE|L1	11370.0	NM_010887	17993.0	Mm.253142	NM_010887	ENSMUSG00000021764	Ndufs4	6720411N02Rik|C1-18k	NADH dehydrogenase (ubiquinone) Fe-S protein 4	protein-coding	13.0	18.0	19.5	122.0	53.5	13.0	12.5	21.5
Merged-chr6-13073182-4	chr6	13073073	13073273	+	938.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027992, intron 3 of 8)	L2|LINE|L2	3414.0	NM_027992	71900.0	Mm.27742	NM_027992	ENSMUSG00000029571	Tmem106b	2310036D22Rik|5830455K21Rik|6430519M21Rik|AI428776|AI661344	transmembrane protein 106B	protein-coding	17.5	14.0	23.5	360.0	35.0	6.0	11.5	10.5
Merged-chr11-119041081-4	chr11	119040996	119041196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013926)	promoter-TSS (NM_013926)	-183.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	194.0	294.5	154.5	2018.5	546.5	226.0	251.0	207.5
Merged-chr2-80315510-4	chr2	80315415	80315615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024181)	promoter-TSS (NM_024181)	49.0	NM_024181	66861.0	Mm.21762	NM_024181	ENSMUSG00000027006	Dnajc10	1200006L06Rik|D2Ertd706e|ERdj5|JPDI	DnaJ heat shock protein family (Hsp40) member C10	protein-coding	135.5	242.0	137.5	1816.0	283.0	143.0	155.5	102.5
Merged-chr8-94703599-4	chr8	94703502	94703702	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7360.0	NM_026385	67801.0	Mm.279977	NM_026385	ENSMUSG00000031775	Pllp	0610010I06Rik|AV001002|Plapi|Tm4sf11	plasma membrane proteolipid	protein-coding	23.0	23.0	18.0	342.0	63.0	7.0	17.5	23.5
Merged-chr18-58615376-4	chr18	58615219	58615419	+	796.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44163.0	NM_025478	66307.0	Mm.182574	NM_025478	ENSMUSG00000024601	Isoc1	2610034N03Rik	isochorismatase domain containing 1	protein-coding	6.5	17.0	11.5	68.5	24.0	7.5	10.0	9.0
Merged-chr11-20143907-4	chr11	20143801	20144001	+	848.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-30950.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	8.0	22.5	14.5	119.0	31.5	7.0	6.0	12.0
Merged-chr5-90020300-4	chr5	90020184	90020384	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136950.0	NM_001081401	330119.0	Mm.133062	NM_177872	ENSMUSG00000043635	Adamts3	1100001H14Rik|6330442E02Rik	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 3	protein-coding	13.5	13.5	23.5	194.0	109.0	24.5	43.0	40.5
Merged-chr2-30128995-4	chr2	30128888	30129088	+	961.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4377.0	NM_001290503	227693.0	Mm.44526	NM_178694	ENSMUSG00000039686	Zer1	C230075L19Rik|Zyg11bl	zyg-11 related, cell cycle regulator	protein-coding	27.5	36.5	4.5	67.0	46.5	30.0	17.5	19.0
Merged-chr15-62079612-4	chr15	62079534	62079734	+	937.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	40377.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	15.0	11.5	22.5	305.5	22.5	15.0	14.5	20.5
Merged-chr9-3404616-4	chr9	3404522	3404722	+	931.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027545, intron 1 of 17)	intron (NM_027545, intron 1 of 17)	537.0	NM_027545	244672.0	Mm.245482	NM_027545	ENSMUSG00000025898	Cwf19l2	3230401L03Rik|9030209E10	CWF19-like 2, cell cycle control (S. pombe)	protein-coding	18.0	10.0	8.5	176.0	35.5	15.0	8.5	12.5
Merged-chr5-53187375-3	chr5	53187277	53187477	+	893.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172710, intron 3 of 23)	UCON28b|Unknown|Unknown	26075.0	NM_172710	231238.0	Mm.235020	NM_172710	ENSMUSG00000029189	Sel1l3	2310045A20Rik|AI429585|mKIAA0746	sel-1 suppressor of lin-12-like 3 (C. elegans)	protein-coding	14.0	9.0	26.5	310.5	12.5	5.0	7.5	5.0
Merged-chr6-89296578-4	chr6	89296513	89296713	+	933.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10888.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	18.0	17.0	19.0	282.5	40.0	13.5	10.0	21.0
Merged-chr2-60721185-2	chr2	60721085	60721285	+	573.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159564, intron 1 of 17)	intron (NM_001159564, intron 1 of 17)	1418.0	NM_001159564	16420.0	Mm.98193	NM_021359	ENSMUSG00000026971	Itgb6	2210409C20Rik|4831415H04Rik	integrin beta 6	protein-coding	5.5	5.0	5.5	66.0	4.0	5.5	3.0	3.0
Merged-chr11-74926821-2	chr11	74926721	74926921	+	920.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 1 of 18)	intron (NM_001002764, intron 1 of 18)	949.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	6.5	2.5	6.0	57.0	11.0	6.0	4.5	13.5
Merged-chr4-21776879-2	chr4	21776779	21776979	+	593.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_152825, intron 1 of 17)	intron (NM_152825, intron 1 of 17)	609.0	NM_152825	77593.0	Mm.154306	NM_152825	ENSMUSG00000040455	Usp45	3110003C05Rik|4930550B20Rik|AI843191|Gcap7	ubiquitin specific petidase 45	protein-coding	4.0	5.5	3.0	140.5	19.0	6.5	4.5	7.0
Merged-chr15-98933964-4	chr15	98933870	98934070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011654, intron 1 of 3)	CpG	420.0	NM_011654	22143.0	Mm.392113	NM_011654	ENSMUSG00000023004	Tuba1b	Tuba2	tubulin, alpha 1B	protein-coding	48.5	87.0	51.0	634.0	149.0	61.0	65.0	59.0
Merged-chr1-155564977-4	chr1	155564867	155565067	+	922.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026683, intron 2 of 3)	intron (NM_026683, intron 2 of 3)	6847.0	NM_028250	72482.0	Mm.288249	NM_026683	ENSMUSG00000033701	Acbd6	0610010G04Rik|2610100E10Rik	acyl-Coenzyme A binding domain containing 6	protein-coding	11.0	27.5	9.0	210.5	42.5	7.0	11.0	18.0
Merged-chr11-19963904-4	chr11	19963810	19964010	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	39468.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	38.5	52.0	24.5	329.5	84.5	40.5	33.0	16.0
Merged-chr5-112249829-4	chr5	112249767	112249967	+	955.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021351, intron 3 of 5)	intron (NM_021351, intron 3 of 5)	2651.0	NM_001312884	12959.0	Mm.40324	NM_021351	ENSMUSG00000066975	Cryba4	-	crystallin, beta A4	protein-coding	28.0	18.5	21.0	354.0	36.5	10.5	21.5	20.0
Merged-chr10-99108151-4	chr10	99108051	99108251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015737)	promoter-TSS (NM_015737)	16.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	65.5	103.5	67.5	1043.5	163.0	57.5	78.5	56.5
Merged-chr6-3498388-4	chr6	3498310	3498510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024260)	promoter-TSS (NM_024260)	17.0	NM_001167750	73288.0	Mm.45539	NM_024260	ENSMUSG00000001376	Vps50	1700034M03Rik|8430415E05Rik|BLM|C87205|Ccdc132|mKIAA1861	VPS50 EARP/GARPII complex subunit	protein-coding	74.5	110.5	49.5	1405.0	162.5	88.5	108.0	90.5
Merged-chr4-149155917-4	chr4	149155852	149156052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081274, intron 8 of 12)	intron (NM_001081274, intron 8 of 12)	10130.0	NM_001356332	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	76.0	120.0	113.0	1623.5	153.0	61.0	69.0	54.5
Merged-chr9-92250575-4	chr9	92250428	92250628	+	993.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011636, intron 1 of 8)	CpG	334.0	NM_011636	22038.0	Mm.421956	NM_011636	ENSMUSG00000032369	Plscr1	MmTRA1a|MmTRA1b|Nor1|Tra1|Tra1a|Tra1b|Tras1|Tras2	phospholipid scramblase 1	protein-coding	35.0	45.5	66.0	937.0	60.0	25.5	35.0	20.5
Merged-chr17-64332162-4	chr17	64332053	64332253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144859)	promoter-TSS (NM_144859)	-270.0	NM_001025309	224938.0	Mm.489681	NM_144859	ENSMUSG00000024083	Pja2	AI447901|AL022700|Neurodap1|mKIAA0438	praja ring finger ubiquitin ligase 2	protein-coding	692.0	972.5	755.0	11260.0	1819.5	789.0	978.5	733.5
Merged-chr2-118901368-4	chr2	118901268	118901468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045523)	promoter-TSS (NM_001045523)	-247.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	103.5	110.5	74.0	1384.5	266.5	96.0	116.5	89.5
Merged-chr4-137844861-3	chr4	137844799	137844999	+	822.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17338.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	6.5	8.0	5.5	80.0	19.0	6.5	9.0	4.0
Merged-chr9-96503498-3	chr9	96503398	96503598	+	711.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24823.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	3.5	5.0	3.0	140.0	12.5	5.0	12.0	12.0
Merged-chr6-125252432-4	chr6	125252323	125252523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-13102.0	NR_015527	73870.0	Mm.440681	NR_015527	ENSMUSG00000108129	4930417O13Rik	-	RIKEN cDNA 4930417O13 gene	ncRNA	92.0	89.5	107.5	1602.0	181.5	46.0	85.5	81.0
Merged-chr18-62172902-4	chr18	62172802	62173002	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7079.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	48.5	51.0	22.5	387.5	50.0	32.0	21.0	21.0
Merged-chr16-32533327-4	chr16	32533200	32533400	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37019.0	NM_199309	245308.0	Mm.76859	NM_199309	ENSMUSG00000052363	Zdhhc19	Gm1744|Gm616	zinc finger, DHHC domain containing 19	protein-coding	17.0	66.0	39.0	354.0	44.5	17.5	18.0	17.0
Merged-chr7-118491535-4	chr7	118491452	118491652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033380, exon 1 of 1)	5' UTR (NM_001033380, exon 1 of 1)	423.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	55.5	70.5	61.5	721.0	94.5	45.5	53.5	63.5
Merged-chr10-83360141-4	chr10	83360023	83360223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026579)	promoter-TSS (NM_026579)	-98.0	NM_026579	28109.0	Mm.196210	NM_026579	ENSMUSG00000020255	D10Wsu102e	AI747614|C430041I18Rik	DNA segment, Chr 10, Wayne State University 102, expressed	protein-coding	169.5	277.0	177.5	2517.5	393.0	163.5	205.0	152.0
Merged-chr6-125294183-4	chr6	125294072	125294272	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	-8091.0	NM_009446	22144.0	Mm.270295	NM_009446	ENSMUSG00000067702	Tuba3a	AI528779|M[a]3|Tuba3	tubulin, alpha 3A	protein-coding	33.0	44.0	23.5	409.0	68.5	23.5	30.5	15.5
Merged-chr5-123058001-4	chr5	123057921	123058121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11005.0	NM_001347456	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	134.5	246.5	115.0	1109.5	354.5	169.0	111.0	134.5
Merged-chr16-10416239-4	chr16	10416108	10416308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011955, intron 3 of 10)	intron (NM_011955, intron 3 of 10)	4270.0	NM_011955	26425.0	Mm.29037	NM_011955	ENSMUSG00000022503	Nubp1	-	nucleotide binding protein 1	protein-coding	24.0	91.0	35.0	571.0	132.5	35.0	39.0	37.5
Merged-chr10-37112894-4	chr10	37112787	37112987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26039.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	28.5	39.0	31.0	520.5	120.5	36.0	40.0	32.5
Merged-chr7-101848090-4	chr7	101847984	101848184	+	969.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303239, intron 2 of 5)	ORR1B1|LTR|ERVL-MaLR	-2753.0	NM_008035	14276.0	Mm.439666	NM_008035	ENSMUSG00000032725	Folr2	FBP2|FR-P3|FR-beta|Folbp-2|Folbp2	folate receptor 2 (fetal)	protein-coding	14.0	31.5	17.0	219.0	45.5	17.0	26.5	34.5
Merged-chr5-24393585-4	chr5	24393488	24393688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029020)	promoter-TSS (NM_029020)	-568.0	NM_029020	74610.0	Mm.283914	NM_029020	ENSMUSG00000028973	Abcb8	4833412N02Rik|AA409895	ATP-binding cassette, sub-family B (MDR/TAP), member 8	protein-coding	32.0	68.0	25.5	541.5	98.0	40.0	51.0	44.0
Merged-chr16-57526721-3	chr16	57526628	57526828	+	738.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	ID_B1|SINE|B4	-22514.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	6.5	8.5	11.5	175.5	12.5	2.0	2.5	4.0
Merged-chr5-138341904-4	chr5	138341804	138342004	+	956.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61395.0	NM_016964	50878.0	Mm.285609	NM_016964	ENSMUSG00000036928	Stag3	SA-2	stromal antigen 3	protein-coding	14.0	21.5	21.5	331.5	28.5	13.5	20.5	14.0
Merged-chr4-126305619-4	chr4	126305518	126305718	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199473, intron 2 of 3)	L1MB8|LINE|L1	16085.0	NM_133883	100206.0	Mm.11285	NM_133883	ENSMUSG00000042558	Adprhl2	AI836109|Arh3	ADP-ribosylhydrolase like 2	protein-coding	17.5	20.0	23.0	197.0	43.0	20.0	21.0	20.0
Merged-chr2-66410203-4	chr2	66410095	66410295	+	911.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313997, intron 1 of 26)	intron (NM_001313997, intron 1 of 26)	30642.0	NM_018733	20265.0	Mm.439704	NM_018733	ENSMUSG00000064329	Scn1a	B230332M13|Nav1.1	sodium channel, voltage-gated, type I, alpha	protein-coding	14.5	27.5	22.0	319.0	13.0	13.0	7.5	17.0
Merged-chr1-134405989-9	chr1	134406000	134406200	+	998.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355133, intron 1 of 8)	CpG	319.0	NR_149307	72017.0	Mm.280230	NM_028057	ENSMUSG00000026456	Cyb5r1	1500005G05Rik|B5R.1|C80155|Nqo3a2	cytochrome b5 reductase 1	protein-coding	31.0	18.5	20.5	241.0	45.5	21.0	19.5	32.0
Merged-chr10-8715856-3	chr10	8715748	8715948	+	873.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	170222.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	10.0	9.0	14.0	87.0	21.0	5.0	7.5	4.0
Merged-chr11-121475927-3	chr11	121475819	121476019	+	695.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029878, intron 7 of 38)	intron (NM_029878, intron 7 of 38)	23970.0	NM_029878	108903.0	Mm.23686	NM_029878	ENSMUSG00000039230	Tbcd	2310057L06Rik|A030005L14Rik|mKIAA0988	tubulin-specific chaperone d	protein-coding	7.5	7.0	6.0	110.5	30.0	8.0	4.0	4.5
Merged-chr2-181918667-4	chr2	181918566	181918766	+	889.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54306.0	NM_025901	67005.0	Mm.271986	NM_025901	ENSMUSG00000038628	Polr3k	12.3kDa|1500004O14Rik|AI196849|AU014893|C11|RPC10|RPC11	polymerase (RNA) III (DNA directed) polypeptide K	protein-coding	19.5	14.5	23.0	296.0	26.0	4.5	4.0	9.0
Merged-chr9-57762718-4	chr9	57762639	57762839	+	784.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007713, intron 1 of 12)	intron (NM_007713, intron 1 of 12)	3121.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	5.0	12.5	6.5	51.0	10.0	9.5	5.0	12.5
Merged-chr6-90435370-3	chr6	90435258	90435458	+	874.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6878.0	NM_173775	243538.0	Mm.386876	NM_173775	ENSMUSG00000048794	Cfap100	AW048498|C030041G11Rik|C230069K22Rik|Ccdc37	cilia and flagella associated protein 100	protein-coding	5.5	1.5	5.0	122.0	15.5	6.5	7.5	6.5
Merged-chr15-41647067-2	chr15	41646967	41647167	+	846.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	intron (NR_152565, intron 2 of 17)	-141928.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	5.0	6.5	8.0	342.5	3.0	3.0	8.0	12.5
Merged-chr9-56958877-3	chr9	56958765	56958965	+	916.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178374, intron 2 of 8)	intron (NM_178374, intron 2 of 8)	7941.0	NM_178374	66069.0	Mm.220984	NM_178374	ENSMUSG00000055334	Snupn	0610031A09Rik|Rnut1|Snupn1	snurportin 1	protein-coding	14.0	6.5	2.5	145.0	6.0	5.5	10.5	8.0
Merged-chr12-3894720-4	chr12	3894604	3894804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 1 of 17)	intron (NM_153743, intron 1 of 17)	2960.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	92.0	94.5	108.0	2032.5	114.5	32.0	54.0	49.5
Merged-chr12-3434853-4	chr12	3434752	3434952	+	959.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270988, intron 1 of 11)	intron (NM_001270988, intron 1 of 11)	7995.0	NM_172421	75302.0	Mm.120475	NM_172421	ENSMUSG00000037486	Asxl2	4930556B16Rik|mKIAA1685	additional sex combs like 2, transcriptional regulator	protein-coding	16.0	64.5	19.0	99.0	112.0	43.5	38.5	20.0
Merged-chr4-136028274-3	chr4	136028078	136028278	+	868.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6529.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	7.5	5.0	6.5	58.5	16.0	3.0	7.0	8.0
Merged-chr12-69371409-4	chr12	69371268	69371468	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007481)	promoter-TSS (NM_007481)	-782.0	NM_007481	11845.0	Mm.27308	NM_007481	ENSMUSG00000044147	Arf6	AI788669|AW496366	ADP-ribosylation factor 6	protein-coding	12.5	34.5	12.5	347.5	34.5	13.0	11.5	27.0
Merged-chr7-111226472-4	chr7	111226379	111226579	+	795.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103804.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	14.0	21.0	18.0	225.5	29.0	6.5	7.5	5.0
Merged-chr15-100422215-3	chr15	100422085	100422285	+	877.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008732, intron 1 of 16)	intron (NM_008732, intron 1 of 16)	870.0	NM_001146161	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	4.0	3.5	4.5	87.5	21.5	5.5	12.0	5.0
Merged-chr2-132701616-3	chr2	132701502	132701702	+	781.150024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028637, intron 2 of 2)	intron (NM_028637, intron 2 of 2)	11004.0	NM_028637	73747.0	Mm.284114	NM_028637	ENSMUSG00000044991	1110034G24Rik	-	RIKEN cDNA 1110034G24 gene	protein-coding	6.0	11.5	2.0	84.0	19.0	5.0	7.0	7.0
Merged-chr5-121255127-4	chr5	121255021	121255221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181421, intron 2 of 75)	intron (NM_181421, intron 2 of 75)	34902.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	27.0	76.0	49.0	537.0	64.0	26.5	38.5	30.0
Merged-chr11-78159289-4	chr11	78159178	78159378	+	978.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009423, exon 7 of 7)	3' UTR (NM_009423, exon 7 of 7)	6272.0	NM_009423	22032.0	Mm.390418	NM_009423	ENSMUSG00000017386	Traf4	A530032M13Rik|CART1|msp2	TNF receptor associated factor 4	protein-coding	19.0	44.5	11.0	177.5	106.5	23.0	20.0	24.0
Merged-chr4-101717779-4	chr4	101717654	101717854	+	893.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001122899, exon 1 of 19)	5' UTR (NM_001122899, exon 1 of 19)	347.0	NM_010704	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	17.0	5.5	31.0	194.5	23.0	3.5	11.0	10.0
Merged-chr13-116712448-4	chr13	116712360	116712560	+	849.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125718.0	NR_153406	74680.0	Mm.488118	NR_153406	ENSMUSG00000114290	4930435F18Rik	-	RIKEN cDNA 4930435F18 gene	ncRNA	5.5	18.0	8.0	183.5	29.5	11.0	11.5	16.5
Merged-chr14-105483540-3	chr14	105483443	105483643	+	727.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15245.0	NR_045921	74864.0	Mm.159344	NR_045921	ENSMUSG00000022116	4930449E01Rik	-	RIKEN cDNA 4930449E01 gene	ncRNA	7.0	8.0	8.5	112.5	19.0	3.0	9.5	9.0
Merged-chr7-99450919-4	chr7	99450813	99451013	+	862.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201352, intron 10 of 17)	intron (NM_201352, intron 10 of 17)	-15091.0	NM_028145	72184.0	Mm.153585	NM_028145	ENSMUSG00000035298	Klhl35	2810406K13Rik	kelch-like 35	protein-coding	5.5	12.5	10.0	129.0	28.5	13.0	11.5	6.5
Merged-chr9-7603506-4	chr9	7603383	7603583	+	857.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24748.0	NM_013903	30800.0	Mm.390121	NM_013903	ENSMUSG00000018620	Mmp20	-	matrix metallopeptidase 20 (enamelysin)	protein-coding	18.5	10.0	9.5	218.0	47.5	11.5	20.0	12.0
Merged-chr2-126996938-4	chr2	126996805	126997005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11806.0	NM_175550	108011.0	Mm.134045	NM_175550	ENSMUSG00000001998	Ap4e1	2310033A20Rik|9930028M04Rik|AV087807	adaptor-related protein complex AP-4, epsilon 1	protein-coding	28.5	31.5	21.5	199.0	68.5	17.0	18.5	5.5
Merged-chr2-19004975-4	chr2	19004869	19005069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6650.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	77.0	99.5	124.5	1970.5	147.5	66.5	73.0	81.0
Merged-chr13-81396935-2	chr13	81396835	81397035	+	720.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 78 of 89)	intron (NM_054053, intron 78 of 89)	236209.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	4.0	3.5	10.0	71.5	13.0	8.0	8.0	6.0
Merged-chr7-67953197-4	chr7	67953090	67953290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 1 of 20)	CpG-13221	933.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	29.0	48.0	22.0	371.0	41.5	29.0	19.0	18.0
Merged-chr5-110108265-4	chr5	110108171	110108371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145147)	promoter-TSS (NM_145147)	-74.0	NM_145147	107999.0	Mm.86267	NM_145147	ENSMUSG00000033434	Gtpbp6	AV119224|Pgbpll|pgpl	GTP binding protein 6 (putative)	protein-coding	137.0	266.0	134.5	1861.0	470.0	186.5	242.5	158.0
Merged-chr7-31195504-3	chr7	31195393	31195593	+	802.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	33135.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	9.0	20.0	10.0	151.0	23.0	3.5	8.0	14.0
Merged-chr11-75193906-3	chr11	75193783	75193983	+	841.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177708)	promoter-TSS (NM_177708)	-110.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	7.5	9.0	4.5	55.0	14.5	1.5	4.0	5.5
Merged-chr4-155490562-4	chr4	155490466	155490666	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160017)	promoter-TSS (NM_001160017)	-795.0	NM_001160017	14688.0	Mm.2344	NM_008142	ENSMUSG00000029064	Gnb1	AA409223|C77571|Gnb-1	guanine nucleotide binding protein (G protein), beta 1	protein-coding	29.5	42.5	19.5	286.0	56.5	25.0	24.0	16.5
Merged-chr12-17682609-6	chr12	17682636	17682836	+	993.595215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-8073.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	3.0	18.0	3.5	54.5	17.0	12.0	6.5	5.5
Merged-chr18-31920826-2	chr18	31920726	31920926	+	585.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-8923.0	NM_026006	67158.0	Mm.31537	NM_026006	ENSMUSG00000044982	Sft2d3	2610206C24Rik|AI847965|AW046173	SFT2 domain containing 3	protein-coding	3.0	7.0	1.0	40.5	8.5	7.5	6.0	9.5
Merged-chr7-16057999-4	chr7	16057900	16058100	+	895.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13845.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	20.0	8.5	11.5	285.5	25.5	16.0	14.0	23.0
Merged-chr8-90822517-4	chr8	90822414	90822614	+	856.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-6321.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	6.0	12.5	8.5	126.0	25.5	13.0	14.5	21.5
Merged-chr16-95831741-4	chr16	95831625	95831825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040485, exon 4 of 4)	non-coding (NR_040485, exon 4 of 4)	66988.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	108.5	121.5	123.0	2175.0	220.5	77.5	145.5	125.5
Merged-chr2-84460120-4	chr2	84460012	84460212	+	957.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355271, intron 2 of 8)	intron (NM_001355271, intron 2 of 8)	14062.0	NM_011576	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	11.0	29.0	15.5	288.0	52.0	12.0	29.5	24.0
Merged-chr4-119966909-4	chr4	119966808	119967008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	152230.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	277.5	504.5	319.0	3368.5	539.0	233.5	258.0	174.5
Merged-chr3-108923287-4	chr3	108923209	108923409	+	902.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11580.0	NM_001356292	66921.0	Mm.51049	NM_025845	ENSMUSG00000027881	Prpf38b	1110021E09Rik|AU018955	PRP38 pre-mRNA processing factor 38 (yeast) domain containing B	protein-coding	9.0	21.5	9.5	92.0	56.5	21.0	18.0	21.5
Merged-chr18-57354812-4	chr18	57354760	57354960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028447, exon 1 of 9)	5' UTR (NM_028447, exon 1 of 9)	127.0	NM_028447	73137.0	Mm.29889	NM_028447	ENSMUSG00000024594	Prrc1	1190002C06Rik|2310058D16Rik|3110038B19Rik|9430085A19Rik	proline-rich coiled-coil 1	protein-coding	46.5	64.5	83.0	676.5	117.5	49.0	33.0	59.5
Merged-chr7-105633650-4	chr7	105633554	105633754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285871)	promoter-TSS (NM_001285871)	-83.0	NM_001285871	55992.0	Mm.29290	NM_018880	ENSMUSG00000036989	Trim3	BERP1|HAC1|Rnf22	tripartite motif-containing 3	protein-coding	130.5	117.5	86.5	1305.5	182.5	79.5	102.5	59.5
Merged-chr13-101841440-4	chr13	101841336	101841536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73219.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	42.0	92.0	49.0	1019.0	122.5	36.0	54.5	44.0
Merged-chr3-52634555-4	chr3	52634474	52634674	+	979.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105150.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	37.5	47.0	50.0	541.0	54.5	23.0	27.0	12.0
Merged-chr2-38336709-3	chr2	38336599	38336799	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2582.0	NM_001290646	16870.0	Mm.142856	NM_010710	ENSMUSG00000000247	Lhx2	LH2A|Lh-2|Lim2|ap|apterous	LIM homeobox protein 2	protein-coding	14.0	24.5	15.0	71.0	15.0	6.5	5.0	7.0
Merged-chr1-37299824-4	chr1	37299751	37299951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290797)	promoter-TSS (NM_001290797)	13.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	72.0	89.0	50.5	752.5	153.5	69.0	66.5	65.0
Merged-chr11-98359518-3	chr11	98359421	98359621	+	943.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021547, intron 1 of 14)	intron (NM_021547, intron 1 of 14)	1153.0	NM_021547	59045.0	Mm.265546	NM_021547	ENSMUSG00000018167	Stard3	Mln64|es64	START domain containing 3	protein-coding	9.0	12.5	14.5	189.0	19.5	6.0	2.5	11.0
Merged-chr8-107437286-4	chr8	107437165	107437365	+	777.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025830, intron 1 of 23)	intron (NM_025830, intron 1 of 23)	867.0	NM_025830	66894.0	Mm.390058	NM_025830	ENSMUSG00000031930	Wwp2	1300010O06Rik|AA690238|AIP2|AW554328	WW domain containing E3 ubiquitin protein ligase 2	protein-coding	6.0	8.5	6.5	80.5	14.5	7.0	9.0	12.5
Merged-chr12-92928373-4	chr12	92928270	92928470	+	979.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	516453.0	NR_126436	75295.0	Mm.243878	NR_126436	ENSMUSG00000113164	4930559C10Rik	-	RIKEN cDNA 4930559C10 gene	ncRNA	17.5	19.0	27.5	427.5	53.0	20.5	30.0	41.0
Merged-chr14-17902585-4	chr14	17902498	17902698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	MIR3|SINE|MIR	-79046.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	46.0	28.0	125.0	1409.0	82.0	43.5	75.0	69.0
Merged-chr2-102700937-4	chr2	102700829	102701029	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077514, intron 1 of 10)	intron (NM_001077514, intron 1 of 10)	-5509.0	NM_011393	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	28.0	42.5	36.5	588.0	40.5	12.0	18.0	22.5
Merged-chr3-88139495-3	chr3	88139401	88139601	+	893.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2871.0	NM_001310593	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	6.5	15.0	4.0	102.0	14.0	9.0	7.5	15.0
Merged-chr12-12299889-4	chr12	12299809	12300009	+	861.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	37770.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	8.5	7.0	3.0	167.0	19.0	14.5	10.0	11.5
Merged-chr4-145013473-3	chr4	145013367	145013567	+	916.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 67 of 69)	intron (NM_001276465, intron 67 of 69)	120330.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	7.5	8.5	8.5	204.0	10.5	1.5	3.5	9.5
Merged-chr19-56390024-3	chr19	56389934	56390134	+	920.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286552)	promoter-TSS (NM_001286552)	4.0	NM_198059	18175.0	Mm.386769	NM_008733	ENSMUSG00000049134	Nrap	-	nebulin-related anchoring protein	protein-coding	6.5	6.0	15.5	137.5	15.0	3.5	8.0	7.5
Merged-chr3-127498982-6	chr3	127498924	127499124	+	939.194458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001327938)	promoter-TSS (NM_001327938)	91.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	9.0	11.0	4.0	69.5	51.0	29.0	20.0	34.0
Merged-chr4-39616641-2	chr4	39616563	39616763	+	627.0	f0_balb.idr|f1_balb.idr	Intergenic	Lx9|LINE|L1	166370.0	NM_001081095	75471.0	Mm.23522	NM_001081095	ENSMUSG00000028287	1700009N14Rik	AI429145	RIKEN cDNA 1700009N14 gene	protein-coding	7.5	5.0	4.5	86.0	12.0	1.5	6.0	4.0
Merged-chr8-115428214-4	chr8	115428108	115428308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	278686.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	52.0	84.0	64.0	1156.0	189.0	48.0	90.5	61.5
Merged-chr15-80619981-4	chr15	80619881	80620081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289442, intron 1 of 7)	AmnSINE1|SINE|Deu	-3502.0	NM_010815	17444.0	Mm.12947	NM_010815	ENSMUSG00000042351	Grap2	GRAP-2|GRB2L|GRBLG|GRID|Gads|GrbX|Grf40|GrpL|Mona|P38	GRB2-related adaptor protein 2	protein-coding	28.0	52.0	30.0	496.5	92.5	26.0	35.0	21.5
Merged-chr9-59749086-4	chr9	59748982	59749182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172069, intron 1 of 2)	intron (NM_001172069, intron 1 of 2)	1567.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	40.5	72.0	83.0	962.5	117.0	44.5	45.0	52.0
Merged-chr1-180698270-3	chr1	180698159	180698359	+	955.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-1225.0	NM_013729	27217.0	Mm.103647	NM_013729	ENSMUSG00000026497	Mixl1	Mm1|Mml	Mix1 homeobox-like 1 (Xenopus laevis)	protein-coding	10.5	9.5	17.5	148.0	7.5	3.5	8.0	6.5
Merged-chr15-91301554-4	chr15	91301433	91301633	+	745.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033633, intron 7 of 9)	B3|SINE|B2	-109526.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	6.0	9.5	7.0	175.5	20.5	9.0	13.5	15.5
Merged-chr3-116861848-4	chr3	116861758	116861958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009146, intron 1 of 16)	intron (NM_009146, intron 1 of 16)	178.0	NM_009146	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	27.0	57.5	41.0	513.5	80.0	53.0	35.0	38.5
Merged-chr5-45719281-4	chr5	45719183	45719383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_027993)	TTS (NR_027993)	8295.0	NR_027993	100041576.0	Mm.451765	NR_027993	ENSMUSG00000015882	Gm3414	-	predicted gene 3414	ncRNA	71.0	45.5	53.0	1257.0	126.0	39.0	51.5	63.0
Merged-chr16-17928083-6	chr16	17927911	17928111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153150, exon 1 of 9)	exon (NM_153150, exon 1 of 9)	208.0	NM_153150	13358.0	Mm.229291	NM_153150	ENSMUSG00000003528	Slc25a1	1300019P08Rik|2610100G11Rik|AI194714|Ctp|Dgsj|Slc20a3	solute carrier family 25 (mitochondrial carrier, citrate transporter), member 1	protein-coding	21.0	20.5	26.0	104.5	30.0	12.5	15.0	23.0
Merged-chr17-31994331-2	chr17	31994231	31994431	+	641.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028902, intron 6 of 7)	L1MEd|LINE|L1	40177.0	NM_028902	74377.0	Mm.75856	NM_028902	ENSMUSG00000002076	Hsf2bp	4932437G14Rik	heat shock transcription factor 2 binding protein	protein-coding	10.5	6.5	4.5	77.5	16.0	12.5	8.0	5.0
Merged-chr1-62703415-8	chr1	62703370	62703570	+	970.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010939, exon 1 of 16)	5' UTR (NM_010939, exon 1 of 16)	153.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	14.0	24.0	24.5	217.5	26.0	3.5	7.0	8.0
Merged-chr9-32211584-4	chr9	32211467	32211667	+	951.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 10 of 21)	MTC|LTR|ERVL-MaLR	-12682.0	NM_177379	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	22.5	17.5	24.0	295.0	47.5	6.5	12.5	31.0
Merged-chr16-33914256-4	chr16	33914093	33914293	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 9 of 14)	intron (NM_001145884, intron 9 of 14)	52845.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	4.5	11.5	9.5	96.5	9.0	4.5	7.5	3.0
Merged-chr8-105605113-4	chr8	105604933	105605133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081241)	promoter-TSS (NM_001081241)	-196.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	17.5	23.0	27.5	131.5	28.0	17.0	9.0	17.5
Merged-chr9-98601708-4	chr9	98601588	98601788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025485)	promoter-TSS (NM_025485)	-9.0	NM_025485	64655.0	Mm.17949	NM_025485	ENSMUSG00000032459	Mrps22	3100002P07Rik|Rpms22	mitochondrial ribosomal protein S22	protein-coding	71.5	91.5	62.5	1354.5	151.0	33.5	60.0	57.0
Merged-chr11-117110696-4	chr11	117110640	117110840	+	923.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4432.0	NR_029459	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	11.5	22.0	8.0	65.5	87.0	11.0	7.0	9.0
Merged-chr12-3843629-4	chr12	3843516	3843716	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 2 of 22)	intron (NM_007872, intron 2 of 22)	18628.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	19.5	32.5	32.5	417.5	48.0	20.5	16.5	25.0
Merged-chr4-132513619-4	chr4	132513537	132513737	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3181.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	32.0	30.5	14.0	456.5	69.0	15.5	16.5	21.5
Merged-chr1-191070433-4	chr1	191070281	191070481	+	903.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 3 of 5)	intron (NM_198654, intron 3 of 5)	7360.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	4.5	7.0	6.0	51.0	26.5	3.5	9.5	17.0
Merged-chr15-81046338-4	chr15	81046261	81046461	+	866.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	58686.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	8.0	29.0	13.5	166.0	17.0	10.0	16.5	18.5
Merged-chr7-30231882-4	chr7	30231798	30231998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027259)	promoter-TSS (NM_027259)	-176.0	NM_027259	69920.0	Mm.440028	NM_027259	ENSMUSG00000019738	Polr2i	2810002B19Rik	polymerase (RNA) II (DNA directed) polypeptide I	protein-coding	118.0	255.5	142.5	2256.0	482.5	185.0	200.0	180.5
Merged-chr9-111046393-4	chr9	111046292	111046492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	10852.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	105.0	156.0	70.5	1204.0	212.5	60.5	102.0	67.5
Merged-chr13-55600009-4	chr13	55599911	55600111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001311137, exon 1 of 5)	5' UTR (NM_001311137, exon 1 of 5)	115.0	NM_001311137	218271.0	Mm.139825	NM_146045	ENSMUSG00000021504	B4galt7	-	xylosylprotein beta1,4-galactosyltransferase, polypeptide 7 (galactosyltransferase I)	protein-coding	32.5	58.0	43.5	522.0	86.0	35.5	56.5	45.5
Merged-chr11-69428959-4	chr11	69428846	69429046	+	869.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 77 of 85)	intron (NM_001081330, intron 77 of 85)	-15271.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	10.5	14.5	12.0	107.0	42.0	10.5	13.0	15.5
Merged-chr11-75587671-4	chr11	75587596	75587796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008850)	promoter-TSS (NM_008850)	-383.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	35.5	45.5	32.5	544.5	75.5	22.0	37.0	33.0
Merged-chr2-120742561-4	chr2	120742460	120742660	+	951.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024856, intron 15 of 15)	intron (NM_001024856, intron 15 of 15)	-11043.0	NM_026891	68968.0	Mm.2289	NM_026891	ENSMUSG00000027284	Cdan1	1500015A01Rik|AI448026|AW492297|CDA-I|CDA1|CDAI	congenital dyserythropoietic anemia, type I (human)	protein-coding	14.5	26.5	26.5	429.0	31.0	7.0	15.0	18.5
Merged-chr9-35050767-1	chr9	35050667	35050867	+	1000.0	f0_balb.idr	intron (NM_009178, intron 9 of 10)	intron (NM_009178, intron 9 of 10)	-65961.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	10.0	18.5	20.0	269.0	24.0	15.0	10.0	18.5
Merged-chr1-93631547-3	chr1	93631477	93631677	+	784.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021537, intron 2 of 11)	intron (NM_021537, intron 2 of 11)	4150.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	8.5	28.5	5.5	322.0	15.0	10.5	7.5	5.5
Merged-chr1-163926533-4	chr1	163926434	163926634	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-2566.0	NM_001286002	240880.0	Mm.389213	NM_028776	ENSMUSG00000026584	Scyl3	1200016D23Rik|6030457O16|AW214499|Pace1	SCY1-like 3 (S. cerevisiae)	protein-coding	9.5	8.5	13.0	202.5	39.5	5.5	9.0	20.5
Merged-chr14-105505188-3	chr14	105505086	105505286	+	861.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045921, intron 1 of 2)	intron (NR_045921, intron 1 of 2)	6398.0	NR_045921	74864.0	Mm.159344	NR_045921	ENSMUSG00000022116	4930449E01Rik	-	RIKEN cDNA 4930449E01 gene	ncRNA	3.5	16.0	8.5	124.0	44.0	13.5	9.0	4.5
Merged-chr16-97463556-1	chr16	97463456	97463656	+	626.166687	f0_balb.idr	promoter-TSS (NM_010846)	promoter-TSS (NM_010846)	-650.0	NR_003520	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	11.0	9.5	10.0	85.0	18.5	5.5	8.5	9.5
Merged-chr8-111923682-4	chr8	111923599	111923799	+	982.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033321, intron 2 of 6)	ORR1E|LTR|ERVL-MaLR	10114.0	NM_001357348	234740.0	Mm.87513	NM_001033321	ENSMUSG00000031951	Tmem231	4932417I16Rik|Gm178	transmembrane protein 231	protein-coding	17.0	17.5	24.0	405.5	46.0	21.0	26.5	31.5
Merged-chr10-8869093-4	chr10	8869021	8869221	+	831.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	16949.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	14.5	11.0	9.0	172.0	19.0	11.5	9.0	12.0
Merged-chr17-12250099-4	chr17	12249993	12250193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357722, intron 11 of 25)	RLTR44A|LTR|ERVK	68567.0	NM_011948	26407.0	Mm.28587	NM_011948	ENSMUSG00000014426	Map3k4	D17Rp17|D17Rp17e|MAPKKK4|MEKK 4|MTK1|Mek4b|Mekk4|RP17|Rp17a|Tas|mKIAA0213	mitogen-activated protein kinase kinase kinase 4	protein-coding	140.0	319.0	196.5	2043.0	566.5	205.0	205.5	190.0
Merged-chr1-185204060-4	chr1	185203946	185204146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163754)	promoter-TSS (NM_001163754)	-122.0	NM_001163754	98732.0	Mm.275841	NM_172649	ENSMUSG00000039318	Rab3gap2	1110059F07Rik|2010002H18Rik|5830469C09|AI851069|AW743433|RAB3-GAP150|mKIAA0839	RAB3 GTPase activating protein subunit 2	protein-coding	178.0	261.5	183.5	2460.5	472.5	198.0	234.5	178.0
Merged-chr17-25844568-4	chr17	25844474	25844674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163766)	TTS (NM_001163766)	277.0	NM_145999	214952.0	Mm.40907	NM_145999	ENSMUSG00000025733	Rhot2	Arht2|Miro2	ras homolog family member T2	protein-coding	84.5	93.5	45.0	787.0	178.0	57.0	52.5	52.0
Merged-chr2-28841857-3	chr2	28841763	28841963	+	895.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033294, intron 1 of 19)	intron (NM_001033294, intron 1 of 19)	1457.0	NM_001033294	227674.0	Mm.44179	NM_001033294	ENSMUSG00000026806	Ddx31	5830444G11Rik|Gm997	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31	protein-coding	5.0	11.5	4.5	114.5	9.5	2.5	9.5	6.5
Merged-chr8-41245298-4	chr8	41245203	41245403	+	922.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023662, intron 1 of 37)	RMER6B|LTR|ERVK	5544.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	11.5	18.0	15.0	316.5	31.5	11.0	14.0	25.5
Merged-chr9-69290468-3	chr9	69290364	69290564	+	916.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289916, intron 1 of 9)	CpG	623.0	NM_001289916	19883.0	Mm.378450	NM_013646	ENSMUSG00000032238	Rora	9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26	RAR-related orphan receptor alpha	protein-coding	7.5	8.5	12.0	115.5	7.5	1.5	2.0	4.5
Merged-chr11-100378663-4	chr11	100378562	100378762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010593, intron 7 of 13)	intron (NM_010593, intron 7 of 13)	19128.0	NM_010593	16480.0	Mm.299774	NM_010593	ENSMUSG00000001552	Jup	Ctnng|D930025P04Rik|PG	junction plakoglobin	protein-coding	31.0	41.0	33.0	600.5	84.5	23.0	48.5	35.5
Merged-chr7-116462523-4	chr7	116462369	116462569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER76|LTR|ERVL	-19011.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	31.0	35.0	29.5	351.5	35.5	18.0	12.0	19.5
Merged-chr3-142621351-4	chr3	142621257	142621457	+	984.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010260, intron 1 of 10)	Lx8|LINE|L1	694.0	NM_010260	14469.0	Mm.24038	NM_010260	ENSMUSG00000028270	Gbp2	-	guanylate binding protein 2	protein-coding	45.5	109.0	43.5	584.0	78.0	45.0	34.0	19.0
Merged-chr6-88027569-1	chr6	88027469	88027669	+	622.0	f0_balb.idr	intron (NM_001293652, intron 1 of 7)	intron (NM_001293652, intron 1 of 7)	-7774.0	NM_001293654	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	6.0	13.0	5.5	92.5	5.0	4.5	2.0	8.5
Merged-chr8-120510188-4	chr8	120510059	120510259	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	intron (NM_198671, intron 1 of 15)	21293.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	20.0	23.0	25.5	230.0	23.0	12.5	11.5	14.5
Merged-chr13-37969545-4	chr13	37969446	37969646	+	877.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24662.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	12.0	10.0	6.0	131.0	43.5	12.0	16.0	20.0
Merged-chr11-29308324-4	chr11	29308215	29308415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-61043.0	NM_025740	216618.0	Mm.128663	NM_025740	ENSMUSG00000020462	Cfap36	2300003H10|4931428D14Rik|Ccdc104	cilia and flagella associated protein 36	protein-coding	24.0	24.0	34.5	290.0	73.0	27.5	30.5	27.5
Merged-chr7-4501772-4	chr7	4501680	4501880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029834)	promoter-TSS (NM_029834)	-100.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	70.5	84.5	53.5	899.5	181.5	63.5	74.0	67.0
Merged-chr7-45704349-2	chr7	45704249	45704449	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016974)	promoter-TSS (NM_016974)	-898.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	14.5	14.0	15.5	129.0	52.0	16.0	10.0	18.5
Merged-chr2-59402027-4	chr2	59401924	59402124	+	971.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15342.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	21.0	26.5	25.0	420.5	52.0	11.0	17.0	23.0
Merged-chr9-44199786-3	chr9	44199689	44199889	+	866.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	intron (NM_007619, intron 2 of 15)	34257.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	11.0	9.0	13.0	224.0	16.5	1.0	1.0	5.0
Merged-chr19-16133555-7	chr19	16133418	16133618	+	966.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	CpG	687.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	10.5	22.0	16.0	152.5	35.5	9.0	22.5	18.0
Merged-chr2-31715908-4	chr2	31715786	31715986	+	964.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283047, intron 2 of 11)	intron (NM_001283047, intron 2 of 11)	27349.0	NM_001283046	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	22.0	66.0	65.5	776.5	59.0	6.0	20.0	19.0
Merged-chr1-156522314-2	chr1	156522218	156522418	+	786.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB7_1-LTR_MM|LTR|ERVK	-36469.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	8.0	9.0	6.0	59.5	35.5	6.0	3.0	6.5
Merged-chr11-98789029-4	chr11	98788916	98789116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6500.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	108.5	206.0	97.0	1372.0	247.5	103.0	102.0	84.5
Merged-chr1-52233337-4	chr1	52233253	52233453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113383)	promoter-TSS (NM_001113383)	-121.0	NM_001113383	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	303.0	436.0	336.0	5037.5	785.0	278.0	396.0	282.0
Merged-chr6-57570594-4	chr6	57570496	57570696	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10396.0	NM_025992	67138.0	Mm.297393	NM_025992	ENSMUSG00000029798	Herc6	1700121D12Rik|2510038N07Rik|4930427L17Rik|AI451296|CEB1|Herc5	hect domain and RLD 6	protein-coding	11.0	10.5	14.0	294.5	36.0	10.5	18.0	17.5
Merged-chr14-50363751-3	chr14	50363647	50363847	+	879.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_205819)	TTS (NM_205819)	5833.0	NM_205819	239081.0	Mm.291512	NM_205819	ENSMUSG00000051969	Tlr11	Gm287	toll-like receptor 11	protein-coding	3.5	3.5	11.5	96.5	35.5	15.5	10.5	11.5
Merged-chr2-29869078-4	chr2	29868957	29869157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207298)	promoter-TSS (NM_207298)	-437.0	NM_207298	99151.0	Mm.296336	NM_207298	ENSMUSG00000039787	Cercam	2600006K01Rik|AL024097|Ceecam1	cerebral endothelial cell adhesion molecule	protein-coding	39.5	60.0	20.5	476.5	72.5	19.5	42.0	24.5
Merged-chr10-54074892-11	chr10	54074786	54074986	+	965.339417	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008548, exon 2 of 13)	exon (NM_008548, exon 2 of 13)	910.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	18.5	16.0	18.0	220.5	38.0	8.0	10.5	22.5
Merged-chr17-70987554-4	chr17	70987460	70987660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	B4A|SINE|B4	2956.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	41.0	79.0	43.0	535.0	114.5	45.0	52.5	35.0
Merged-chr5-124715301-4	chr5	124715202	124715402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011596, intron 14 of 19)	intron (NM_011596, intron 14 of 19)	-9783.0	NM_019536	56087.0	Mm.261014	NM_019536	ENSMUSG00000038011	Dnah10	Dnahc10	dynein, axonemal, heavy chain 10	protein-coding	105.0	159.0	84.0	1109.5	236.0	82.0	101.5	65.0
Merged-chr4-19879876-3	chr4	19879779	19879979	+	811.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 7 of 7)	intron (NM_175406, intron 7 of 7)	42687.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	10.0	9.0	18.0	140.5	17.0	3.5	6.0	8.0
Merged-chr7-45923083-4	chr7	45922987	45923187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1661.0	NM_010129	13732.0	Mm.20829	NM_010129	ENSMUSG00000040212	Emp3	H-4|H4|HNMP-1|MI-35|Ymp	epithelial membrane protein 3	protein-coding	166.0	351.5	213.5	2086.5	526.5	204.0	202.0	150.5
Merged-chr5-115480275-4	chr5	115480161	115480361	+	912.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001167691, exon 3 of 5)	exon (NM_001167691, exon 3 of 5)	4036.0	NM_001167691	75387.0	Mm.332616	NM_133760	ENSMUSG00000029524	Sirt4	4930596O17Rik	sirtuin 4	protein-coding	15.0	28.5	22.0	185.5	25.5	6.5	9.0	10.5
Merged-chr14-75728820-2	chr14	75728720	75728920	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177381, intron 13 of 22)	intron (NM_177381, intron 13 of 22)	25673.0	NM_177381	338337.0	Mm.86507	NM_177381	ENSMUSG00000034893	Cog3	E430004N23	component of oligomeric golgi complex 3	protein-coding	3.5	1.0	9.5	70.5	12.5	8.5	8.0	7.5
Merged-chr11-87737420-4	chr11	87737340	87737540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009296)	promoter-TSS (NM_009296)	-111.0	NM_001355753	20922.0	Mm.622	NM_009296	ENSMUSG00000020485	Supt4a	AL022777|Supt4h|Supt4h1|Supt4h1a	suppressor of Ty 4A	protein-coding	135.0	266.5	133.5	1237.0	373.5	132.0	154.0	139.0
Merged-chr3-137869607-4	chr3	137869498	137869698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033155, intron 1 of 7)	L1MB2|LINE|L1	1923.0	NM_001033155	70604.0	Mm.256488	NM_001033155	ENSMUSG00000074212	Dnajb14	5730496F10Rik	DnaJ heat shock protein family (Hsp40) member B14	protein-coding	96.0	155.0	132.5	1750.0	224.0	102.5	88.5	103.5
Merged-chr15-93337048-4	chr15	93336955	93337155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028315)	promoter-TSS (NR_028315)	-120.0	NM_024189	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	107.0	214.5	128.0	1530.0	256.0	121.5	123.5	64.5
Merged-chr13-51639026-4	chr13	51638897	51639097	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR6_Mm|LTR|ERV1	-6235.0	NM_025415	66197.0	Mm.222228	NM_025415	ENSMUSG00000062248	Cks2	1110038L14Rik|CKSHS2	CDC28 protein kinase regulatory subunit 2	protein-coding	10.5	27.5	24.5	73.5	58.0	19.0	21.5	25.0
Merged-chr4-128768344-4	chr4	128768254	128768454	+	879.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001009819, exon 5 of 5)	3' UTR (NM_001009819, exon 5 of 5)	9096.0	NM_001009819	215493.0	Mm.300900	NM_001009819	ENSMUSG00000028794	A3galt2	Gm433|iGb3|iGb3S	alpha 1,3-galactosyltransferase 2 (isoglobotriaosylceramide synthase)	protein-coding	10.0	36.5	10.5	380.5	34.5	6.0	10.0	14.0
Merged-chr2-92004882-3	chr2	92004795	92004995	+	736.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011957, intron 1 of 11)	Charlie9|DNA|hAT-Charlie	19275.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	11.0	20.5	12.0	146.0	1.5	3.5	4.5	1.0
Merged-chr2-167497478-4	chr2	167497345	167497545	+	953.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030743, intron 1 of 7)	B3|SINE|B2	-4571.0	NM_001356523	263876.0	Mm.34342	NM_170756	ENSMUSG00000047030	Spata2	AI504642|mKIAA0757	spermatogenesis associated 2	protein-coding	4.0	22.5	4.0	142.5	41.5	20.0	11.0	22.5
Merged-chr2-91183989-4	chr2	91183895	91184095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145527)	promoter-TSS (NM_145527)	-948.0	NM_145527	228355.0	Mm.36410	NM_145527	ENSMUSG00000040687	Madd	9630059K23Rik|IG20	MAP-kinase activating death domain	protein-coding	94.5	133.5	97.0	1653.0	263.5	62.5	93.5	91.0
Merged-chr1-78713260-3	chr1	78713166	78713366	+	685.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	54826.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	11.0	18.0	16.5	191.5	8.5	5.0	4.5	4.5
Merged-chr10-16989773-3	chr10	16989672	16989872	+	799.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038020, intron 2 of 8)	intron (NR_038020, intron 2 of 8)	106010.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	12.0	2.0	13.5	171.5	17.5	11.0	8.5	5.5
Merged-chr2-166235092-4	chr2	166234993	166235193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38815.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	45.0	54.5	36.0	370.0	95.5	36.5	33.5	40.5
Merged-chr9-50866025-3	chr9	50865931	50866131	+	876.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286553, intron 5 of 16)	MTC|LTR|ERVL-MaLR	9107.0	NM_001286553	73699.0	Mm.7726	NM_028614	ENSMUSG00000032058	Ppp2r1b	2410091N08Rik|AI790395	protein phosphatase 2, regulatory subunit A, beta	protein-coding	6.5	17.5	6.0	161.0	12.5	10.0	12.5	6.0
Merged-chr8-70551993-3	chr8	70551874	70552074	+	998.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	12299.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	15.0	24.0	13.0	358.0	16.5	4.5	8.0	7.0
Merged-chr17-78989152-4	chr17	78989051	78989251	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171004, intron 2 of 18)	intron (NM_001171004, intron 2 of 18)	19354.0	NM_001171005	75292.0	Mm.252776	NM_029239	ENSMUSG00000024070	Prkd3	4930557O20Rik|5730497N19Rik|PKD3|Pkcnu|Prkcn	protein kinase D3	protein-coding	40.0	72.0	78.5	1115.0	24.0	5.5	17.0	10.5
Merged-chr18-62088133-4	chr18	62088055	62088255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91826.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	30.5	46.0	34.0	551.5	63.0	16.0	31.0	23.5
Merged-chr9-51007095-4	chr9	51006996	51007196	+	734.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 1 of 15)	intron (NM_178710, intron 1 of 15)	1977.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	9.5	9.0	4.0	76.5	29.0	12.0	8.0	14.0
Merged-chr1-36988615-3	chr1	36988509	36988709	+	947.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-49082.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	4.5	6.5	10.0	118.0	13.5	4.0	1.5	6.0
Merged-chr17-12769682-4	chr17	12769534	12769734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010515)	promoter-TSS (NM_010515)	72.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	27.0	36.0	24.0	266.5	65.5	30.5	19.0	38.5
Merged-chr3-69679985-4	chr3	69679906	69680106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR1C|LTR|ERV1	-42049.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	36.0	60.5	22.0	313.0	101.0	38.0	31.5	35.5
Merged-chr2-180040520-4	chr2	180040422	180040622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011969, intron 1 of 6)	intron (NM_011969, intron 1 of 6)	1942.0	NM_001289476	26444.0	Mm.21728	NM_011969	ENSMUSG00000027566	Psma7	C6-I	proteasome (prosome, macropain) subunit, alpha type 7	protein-coding	43.0	105.5	54.0	775.0	110.5	51.5	56.0	40.5
Merged-chr3-149084347-1	chr3	149084247	149084447	+	653.0	f0_balb.idr	Intergenic	Intergenic	-129712.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	5.0	11.0	7.5	84.5	11.5	0.0	0.5	1.0
Merged-chr1-172364814-4	chr1	172364686	172364886	+	993.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	-11745.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	9.5	23.0	12.5	247.5	51.5	18.0	14.5	23.0
Merged-chr5-138731123-4	chr5	138731056	138731256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23925.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	31.5	115.5	65.0	560.5	114.0	59.5	46.0	29.0
Merged-chr5-135537486-4	chr5	135537389	135537589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	7633.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	49.5	56.5	33.0	551.0	78.5	36.5	32.5	26.0
Merged-chr8-36184273-3	chr8	36184161	36184361	+	920.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28251.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	9.5	11.5	10.5	160.5	11.0	5.0	5.5	6.0
Merged-chr5-149636738-4	chr5	149636644	149636844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013559)	promoter-TSS (NM_013559)	-408.0	NM_001347534	15505.0	Mm.270681	NM_013559	ENSMUSG00000029657	Hsph1	105kDa|AI790491|Hsp105|Hsp110|hsp-E7I|hsp110/105	heat shock 105kDa/110kDa protein 1	protein-coding	100.0	133.5	68.5	1324.5	292.5	83.0	200.0	127.0
Merged-chr7-84272470-4	chr7	84272385	84272585	+	976.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007488, intron 12 of 18)	intron (NM_007488, intron 12 of 18)	-120592.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	24.0	17.5	24.0	295.5	179.5	57.5	89.0	81.0
Merged-chr6-120539313-4	chr6	120539233	120539433	+	837.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8034.0	NM_144815	214932.0	Mm.255322	NM_144815	ENSMUSG00000058979	Hdhd5	A930002G03Rik|Cecr5	haloacid dehalogenase like hydrolase domain containing 5	protein-coding	6.0	10.0	12.5	125.5	24.0	10.5	5.5	11.0
Merged-chr13-60671347-3	chr13	60671281	60671481	+	863.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	69170.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	5.5	9.0	5.0	31.0	22.0	4.0	5.5	8.0
Merged-chr2-33353638-4	chr2	33353536	33353736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290570, intron 1 of 16)	intron (NM_001290570, intron 1 of 16)	17858.0	NM_001290570	241308.0	Mm.274249	NM_175211	ENSMUSG00000038831	Ralgps1	5830418G11Rik|AI853783|AI854138|RALGEF2|RALGPS1A|RalGEF 2|mKIAA0351	Ral GEF with PH domain and SH3 binding motif 1	protein-coding	49.5	61.0	89.5	1519.5	97.5	32.0	59.0	54.0
Merged-chr7-100961320-4	chr7	100961233	100961433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	3033.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	28.0	40.5	39.0	723.5	51.5	24.0	28.0	28.0
Merged-chr16-49700088-4	chr16	49699983	49700183	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028680, intron 1 of 10)	intron (NM_028680, intron 1 of 10)	789.0	NM_028680	73916.0	Mm.241276	NM_028680	ENSMUSG00000032965	Ift57	4833420A15Rik|Esrrbl1|Hippi|MHS4R2	intraflagellar transport 57	protein-coding	70.0	163.5	58.5	642.0	175.5	84.0	44.5	23.0
Merged-chr9-22467783-3	chr9	22467676	22467876	+	975.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018739, intron 1 of 5)	CpG	580.0	NM_018739	55934.0	Mm.38235	NM_018739	ENSMUSG00000032239	Rp9	PAP-1|Rp9h	retinitis pigmentosa 9 (human)	protein-coding	11.5	4.0	18.5	106.0	18.0	9.0	10.0	13.0
Merged-chr19-11818037-2	chr19	11817943	11818143	+	974.5	f0_balb.idr|f0_c57.idr	intron (NM_011502, intron 1 of 10)	MIRb|SINE|MIR	1360.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	31.0	52.5	11.0	341.0	30.0	12.5	14.5	17.0
Merged-chr14-33213960-4	chr14	33213851	33214051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2872.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	21.0	47.0	20.0	386.5	93.0	36.0	56.0	42.0
Merged-chr8-86861749-4	chr8	86861636	86861836	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030563, exon 2 of 7)	exon (NM_030563, exon 2 of 7)	23522.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	16.5	34.0	17.5	333.0	71.5	16.0	29.5	13.5
Merged-chr13-108300557-3	chr13	108300457	108300657	+	793.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15780.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	9.5	11.5	13.5	132.5	6.5	1.5	12.5	5.0
Merged-chr5-111228484-3	chr5	111228343	111228543	+	782.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267622, intron 8 of 22)	intron (NM_001267622, intron 8 of 22)	-102254.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	9.0	6.0	16.0	239.0	6.0	2.0	2.5	0.5
Merged-chr1-191075441-5	chr1	191075295	191075495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 4 of 5)	HAL1|LINE|L1	12374.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	114.5	267.0	86.5	1002.0	358.0	175.0	86.0	56.5
Merged-chr6-128662393-1	chr6	128662293	128662493	+	629.0	f0_balb.idr	promoter-TSS (NM_053165)	promoter-TSS (NM_053165)	8.0	NM_053165	94071.0	Mm.197689	NM_053165	ENSMUSG00000030364	Clec2h	Clrf|clr-f	C-type lectin domain family 2, member h	protein-coding	8.5	6.0	7.5	128.5	3.0	5.0	2.0	5.0
Merged-chr8-33664650-3	chr8	33664542	33664742	+	962.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	RLTR6_Mm|LTR|ERV1	11404.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	0.0	0.0	0.0	0.0	43.5	14.5	19.5	13.0
Merged-chr6-117874977-4	chr6	117874846	117875046	+	933.3624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12065.0	NM_001001792	22685.0	Mm.249661	NM_008616	ENSMUSG00000042097	Zfp239	Mok-2|Mok2|Znf239	zinc finger protein 239	protein-coding	3.0	18.0	13.5	253.0	24.5	6.0	11.5	11.0
Merged-chr10-95940643-4	chr10	95940518	95940718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001932)	promoter-TSS (NM_001001932)	-45.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	178.0	337.5	211.5	3603.5	545.5	218.0	334.0	212.0
Merged-chr14-20765909-6	chr14	20765816	20766016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039138, exon 7 of 20)	exon (NM_001039138, exon 7 of 20)	28172.0	NM_001039138	12325.0	Mm.235182	NM_178597	ENSMUSG00000021820	Camk2g	Camkg	calcium/calmodulin-dependent protein kinase II gamma	protein-coding	24.5	35.0	58.5	523.0	36.0	14.0	24.0	16.5
Merged-chr16-35022921-3	chr16	35022823	35023023	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023587, intron 1 of 6)	CpG	502.0	NM_023587	70757.0	Mm.27286	NM_023587	ENSMUSG00000035376	Hacd2	6330408J20Rik|AI255777|AI481689|Hcad2|Ptplb	3-hydroxyacyl-CoA dehydratase 2	protein-coding	11.0	28.5	10.5	145.5	26.0	14.0	13.0	7.0
Merged-chr11-95047100-4	chr11	95046940	95047140	+	827.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001306162, exon 25 of 26)	exon (NM_001306162, exon 25 of 26)	-5669.0	NM_133667	18604.0	Mm.29768	NM_133667	ENSMUSG00000038967	Pdk2	-	pyruvate dehydrogenase kinase, isoenzyme 2	protein-coding	6.0	7.0	6.5	27.0	22.5	3.5	4.0	7.5
Merged-chr5-103802699-3	chr5	103802596	103802796	+	778.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133919, intron 3 of 19)	intron (NM_133919, intron 3 of 19)	48123.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	4.5	9.5	3.5	176.5	22.0	6.0	7.0	5.0
Merged-chr8-122438161-4	chr8	122438063	122438263	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028354, intron 5 of 10)	intron (NR_028354, intron 5 of 10)	-5223.0	NM_007806	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	26.0	56.0	28.5	550.0	48.0	17.0	23.5	22.0
Merged-chr5-64759238-4	chr5	64759133	64759333	+	840.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44290.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	5.5	8.0	13.0	289.0	29.5	8.0	12.0	6.5
Merged-chr12-52302397-4	chr12	52302284	52302484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 8 of 10)	intron (NM_029760, intron 8 of 10)	178225.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	32.0	23.5	47.5	858.5	83.5	28.5	65.5	37.0
Merged-chr8-95149526-3	chr8	95149410	95149610	+	939.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6970.0	NM_001145831	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	9.0	15.5	7.0	214.5	5.0	10.5	8.5	9.0
Merged-chr12-36205941-3	chr12	36205855	36206055	+	856.7666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	12263.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	27.0	16.5	12.0	228.0	11.5	8.5	3.0	5.5
Merged-chr9-66914019-2	chr9	66913919	66914119	+	623.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	5686.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	0.5	9.5	4.5	53.5	11.5	5.0	4.5	5.0
Merged-chr16-32099767-4	chr16	32099664	32099864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025892)	promoter-TSS (NM_025892)	-37.0	NM_024464	72084.0	Mm.37613	NM_024464	ENSMUSG00000023791	Pigx	2010319C14Rik|PIG-X	phosphatidylinositol glycan anchor biosynthesis, class X	protein-coding	70.5	89.0	39.5	738.0	196.5	66.0	88.5	47.5
Merged-chr7-28379246-5	chr7	28379130	28379330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011756)	promoter-TSS (NM_011756)	-2.0	NM_011756	22695.0	Mm.389856	NM_011756	ENSMUSG00000044786	Zfp36	Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36	zinc finger protein 36	protein-coding	210.0	422.0	242.0	2769.5	515.5	250.5	320.5	200.0
Merged-chr7-140999497-4	chr7	140999398	140999598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11246.0	NM_025378	66141.0	Mm.141021	NM_025378	ENSMUSG00000025492	Ifitm3	1110004C05Rik|Cd225|Cdw217|DSPA2b|Fgls|IP15|mil-1	interferon induced transmembrane protein 3	protein-coding	90.0	107.0	117.0	1602.5	216.0	64.5	88.0	92.5
Merged-chr15-75969146-4	chr15	75969035	75969235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347040)	promoter-TSS (NM_001347040)	12.0	NM_001081065	69020.0	Mm.294295	NM_001081065	ENSMUSG00000034429	Zfp707	1500031N24Rik|AI451708|AW495315	zinc finger protein 707	protein-coding	31.5	57.0	37.0	351.5	118.0	34.0	27.5	46.5
Merged-chr10-77962874-4	chr10	77962746	77962946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 4 of 33)	L1MDa|LINE|L1	7026.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	68.0	71.0	44.0	615.5	139.0	44.5	37.5	39.5
Merged-chr14-54482740-3	chr14	54482644	54482844	+	640.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	6644.0	NM_080726	140743.0	Mm.274727	NM_080726	ENSMUSG00000022176	Rem2	AW411893	rad and gem related GTP binding protein 2	protein-coding	7.0	8.0	8.5	124.5	14.5	7.0	4.0	2.5
Merged-chr6-86556865-4	chr6	86556749	86556949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037961, intron 3 of 4)	B1F1|SINE|Alu	29448.0	NR_037961	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	43.5	72.0	55.5	969.5	154.5	43.5	56.5	75.0
Merged-chr17-26237939-4	chr17	26237859	26238059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	6283.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	36.0	34.5	34.5	585.0	71.5	23.5	21.5	21.5
Merged-chr9-100711121-3	chr9	100711019	100711219	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 2 of 33)	intron (NM_009282, intron 2 of 33)	67671.0	NM_001357265	20842.0	Mm.42135	NM_009282	ENSMUSG00000037286	Stag1	AU045003|SA-1|Scc3	stromal antigen 1	protein-coding	7.0	17.0	14.5	399.0	18.5	3.0	8.0	8.5
Merged-chr3-98050855-3	chr3	98050755	98050955	+	920.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	37317.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	8.0	4.0	4.0	175.5	8.5	7.0	8.0	17.5
Merged-chr11-70489839-4	chr11	70489720	70489920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15454.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	145.5	265.0	186.5	1942.5	367.5	141.5	155.0	134.5
Merged-chr2-4487634-3	chr2	4487532	4487732	+	865.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 4 of 23)	intron (NM_001177843, intron 4 of 23)	-72122.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	8.0	6.0	7.5	43.5	23.5	6.5	4.5	8.0
Merged-chr10-59109223-3	chr10	59109144	59109344	+	765.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172788, intron 8 of 9)	ERVL-B4-int|LTR|ERVL	112603.0	NM_001024911	103080.0	Mm.346842	NM_001024910	ENSMUSG00000019917	Sept10	4921515A04Rik|9430099J10Rik|AA408298|AI874685	septin 10	protein-coding	6.5	16.0	8.5	60.0	13.0	7.5	6.0	8.0
Merged-chr19-60757029-2	chr19	60756929	60757129	+	751.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_178421, exon 1 of 1)	exon (NM_178421, exon 1 of 1)	1042.0	NM_178421	332397.0	Mm.186390	NM_178421	ENSMUSG00000072437	Nanos1	NOS-1	nanos C2HC-type zinc finger 1	protein-coding	5.5	6.5	3.5	40.0	9.0	5.0	7.5	8.5
Merged-chr9-66069806-4	chr9	66069707	66069907	+	974.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025612)	promoter-TSS (NM_001025612)	-76.0	NM_001025612	382083.0	Mm.477103	NM_001025612	ENSMUSG00000039452	Snx22	Gm1120	sorting nexin 22	protein-coding	53.5	56.5	17.0	308.5	79.0	49.5	46.5	38.5
Merged-chr2-146848113-2	chr2	146848027	146848227	+	868.216675	f0_balb.idr|f1_balb.idr	Intergenic	LTR16C|LTR|ERVL	-7762.0	NM_001033298	228730.0	Mm.292352	NM_001033298	ENSMUSG00000074749	Kiz	Gm114|Ncrna00153|Plk1s1	kizuna centrosomal protein	protein-coding	21.5	38.0	18.5	425.0	9.0	3.0	2.5	5.0
Merged-chr15-36649935-4	chr15	36649839	36650039	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40966.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	19.5	27.5	15.0	237.5	58.0	12.0	18.5	22.0
Merged-chr2-164947696-4	chr2	164947582	164947782	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013599)	promoter-TSS (NM_013599)	-537.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	20.5	28.0	4.5	70.0	20.5	16.0	13.5	17.0
Merged-chr5-107967056-4	chr5	107966948	107967148	+	865.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	intron (NM_026062, intron 1 of 4)	20029.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	13.0	23.0	14.5	242.5	20.5	3.5	14.0	13.0
Merged-chr1-138983262-3	chr1	138983201	138983401	+	687.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	5644.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	1.5	7.5	3.5	102.0	25.0	7.0	4.5	6.5
Merged-chr15-59743073-4	chr15	59742963	59743163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51896.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	31.5	118.5	46.0	810.0	165.5	69.0	69.0	78.5
Merged-chr17-24205584-4	chr17	24205486	24205686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173186)	promoter-TSS (NM_173186)	-24.0	NM_001163850	224617.0	Mm.301585	NM_173186	ENSMUSG00000036473	Tbc1d24	9630033P11|C530046L02Rik|mKIAA1171	TBC1 domain family, member 24	protein-coding	68.0	75.0	32.5	587.5	181.5	54.0	65.5	49.5
Merged-chr11-24185135-4	chr11	24185041	24185241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104446.0	NM_001159290	14025.0	Mm.53687	NM_016707	ENSMUSG00000000861	Bcl11a	2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809	B cell CLL/lymphoma 11A (zinc finger protein)	protein-coding	49.5	92.5	53.5	826.5	55.0	28.5	33.5	27.5
Merged-chr9-45084691-3	chr9	45084599	45084799	+	863.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 3 of 10)	intron (NM_001005421, intron 3 of 10)	5516.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	47.0	42.5	45.5	607.0	13.0	3.5	5.5	12.0
Merged-chr1-82771441-4	chr1	82771343	82771543	+	859.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2987.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	9.5	16.5	13.0	460.0	26.0	5.5	5.5	8.5
Merged-chr17-64590682-4	chr17	64590572	64590772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10977.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	66.0	68.5	109.5	1726.0	221.5	42.0	69.5	44.5
Merged-chr15-99396901-5	chr15	99396840	99397040	+	894.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171036, intron 2 of 10)	ID4|SINE|ID	3721.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	6.0	9.5	6.0	58.0	3.5	1.0	1.0	1.5
Merged-chr2-73475850-4	chr2	73475740	73475940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	MLT1F2|LTR|ERVL-MaLR	9913.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	77.0	78.0	88.0	1291.5	138.5	61.5	58.5	57.5
Merged-chr4-148155225-2	chr4	148155125	148155325	+	856.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355701, intron 5 of 5)	intron (NM_001355701, intron 5 of 5)	-3090.0	NM_001163707	50762.0	Mm.27445	NM_015797	ENSMUSG00000055401	Fbxo6	AA408845|FBG2|Fbs2|Fbx6b|Fbxo6b	F-box protein 6	protein-coding	1.0	2.5	4.5	16.0	6.5	6.0	8.0	6.0
Merged-chr6-137412176-4	chr6	137412030	137412230	+	832.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 13 of 26)	intron (NM_011216, intron 13 of 26)	1409.0	NM_001164403	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	4.5	8.0	4.0	81.0	13.0	5.5	9.0	8.5
Merged-chr16-91880048-4	chr16	91879930	91880130	+	837.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010587, intron 28 of 38)	MLT1B|LTR|ERVL-MaLR	51600.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	7.0	12.0	12.5	156.5	24.5	8.0	13.5	12.5
Merged-chr14-103720809-4	chr14	103720695	103720895	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21363.0	NR_045148	70898.0	Mm.27548	NR_045148	ENSMUSG00000089707	Slain1os	4921525B02Rik	SLAIN motif family, member 1, opposite strand	ncRNA	15.0	22.5	21.5	225.5	24.5	6.5	10.5	5.5
Merged-chr5-64463822-4	chr5	64463733	64463933	+	904.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040681, intron 1 of 2)	MLT1C|LTR|ERVL-MaLR	4109.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	6.5	15.0	9.5	65.5	110.5	61.0	52.0	38.0
Merged-chr14-120293234-3	chr14	120293087	120293287	+	834.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	-13265.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	6.5	9.5	7.5	210.5	7.0	6.5	2.5	5.5
Merged-chr17-84978666-3	chr17	84978564	84978764	+	738.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159498, intron 2 of 7)	intron (NM_001159498, intron 2 of 7)	13639.0	NM_001159498	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	10.5	5.5	11.5	128.0	27.5	4.0	5.5	6.5
Merged-chr7-80230589-6	chr7	80230517	80230717	+	905.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291275, intron 2 of 6)	intron (NM_001291275, intron 2 of 6)	2188.0	NM_001291276	23991.0	Mm.30217	NM_011870	ENSMUSG00000030538	Cib1	Cibkip|Kip|Prkdcip	calcium and integrin binding 1 (calmyrin)	protein-coding	13.5	6.5	9.0	56.5	8.5	8.0	5.0	10.5
Merged-chr14-55114895-4	chr14	55114783	55114983	+	844.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177049, intron 2 of 5)	CpG	2052.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	8.5	18.5	7.5	156.5	19.5	4.5	8.5	8.5
Merged-chr1-89235558-1	chr1	89235458	89235658	+	836.5	f0_balb.idr	Intergenic	Intergenic	165143.0	NM_133816	98402.0	Mm.170983	NM_133816	ENSMUSG00000036206	Sh3bp4	AI594717|AW227605|BOG25	SH3-domain binding protein 4	protein-coding	16.0	11.0	9.0	189.0	29.5	8.0	6.5	9.5
Merged-chr13-89904773-4	chr13	89904704	89904904	+	766.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 7 of 7)	intron (NM_028012, intron 7 of 7)	-162292.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	9.5	15.0	12.5	218.5	33.0	10.5	4.5	9.0
Merged-chr2-148698841-4	chr2	148698750	148698950	+	850.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019632, intron 9 of 10)	intron (NM_019632, intron 9 of 10)	17730.0	NM_028986	74533.0	Mm.136913	NM_028986	ENSMUSG00000027439	Gzf1	8430437G08Rik|Zfp336|mGZF1	GDNF-inducible zinc finger protein 1	protein-coding	5.5	11.0	10.0	159.5	19.5	6.0	14.0	14.0
Merged-chr11-100527998-4	chr11	100527889	100528089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199296)	promoter-TSS (NM_001199296)	11.0	NM_134037	104112.0	Mm.282039	NM_134037	ENSMUSG00000020917	Acly	A730098H14Rik|AW538652	ATP citrate lyase	protein-coding	167.0	211.0	123.0	1665.5	391.0	136.5	175.0	131.0
Merged-chr6-113761865-4	chr6	113761736	113761936	+	914.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 15 of 19)	intron (NM_001036684, intron 15 of 19)	-21155.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	7.0	14.5	4.0	157.0	16.0	10.5	11.0	18.5
Merged-chr2-124711232-4	chr2	124711124	124711324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57643.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	47.0	178.0	111.0	1246.0	202.5	98.0	95.0	45.5
Merged-chr3-96300843-4	chr3	96300707	96300907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6838.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	109.5	141.0	109.0	2257.0	225.0	96.5	132.0	118.0
Merged-chr11-107417419-4	chr11	107417328	107417528	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	53292.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	29.0	31.5	19.5	274.0	37.0	20.5	21.0	19.5
Merged-chr11-117830063-4	chr11	117829952	117830152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027827, intron 2 of 10)	intron (NM_027827, intron 2 of 10)	-4038.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	78.0	174.5	120.5	1199.5	231.0	81.5	100.5	45.5
Merged-chr13-103918600-3	chr13	103918501	103918701	+	743.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	intron (NM_001005868, intron 1 of 26)	1985.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	5.0	10.5	1.0	71.5	20.0	5.5	5.0	9.5
Merged-chr6-86669416-4	chr6	86669303	86669503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010751)	promoter-TSS (NM_010751)	-244.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	436.0	692.5	465.0	6504.5	1157.0	449.0	604.5	441.0
Merged-chr17-24896501-4	chr17	24896397	24896597	+	958.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019730)	promoter-TSS (NM_019730)	-3.0	NM_019730	79059.0	Mm.430765	NM_019730	ENSMUSG00000073435	Nme3	1810009F08Rik|AI413736|DR-nm23|Ndk3|Nm23-DR|Nm23-M3	NME/NM23 nucleoside diphosphate kinase 3	protein-coding	43.0	21.5	12.5	265.0	43.5	18.5	21.0	12.5
Merged-chr17-44029821-4	chr17	44029730	44029930	+	943.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357742, intron 4 of 4)	intron (NM_001357742, intron 4 of 4)	-48972.0	NM_001168620	83965.0	Mm.30145	NM_032003	ENSMUSG00000023960	Enpp5	AW061004|D17Abb1e|E-NPP 5	ectonucleotide pyrophosphatase/phosphodiesterase 5	protein-coding	38.0	52.5	24.0	416.0	35.0	10.5	6.0	18.0
Merged-chr4-103285173-3	chr4	103285062	103285262	+	849.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027612, intron 1 of 8)	intron (NM_027612, intron 1 of 8)	5701.0	NM_027612	70941.0	Mm.158501	NM_027612	ENSMUSG00000028520	4921539E11Rik	-	RIKEN cDNA 4921539E11 gene	protein-coding	10.5	11.5	7.0	180.5	6.5	1.5	2.5	2.0
Merged-chr6-67168918-3	chr6	67168818	67169018	+	904.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25B|LTR|ERVK	-98061.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	7.0	17.0	9.0	183.5	9.0	9.0	7.5	12.0
Merged-chr9-9082846-3	chr9	9082751	9082951	+	863.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027823, intron 4 of 22)	LTR16E2|LTR|ERVL	-153437.0	NR_045754	100579151.0	Mm.412450	NR_045754	ENSMUSG00000085253	Gm16833	-	predicted gene, 16833	ncRNA	6.5	8.0	6.5	95.5	32.5	4.5	7.0	8.0
Merged-chr2-148681055-4	chr2	148680947	148681147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028986)	promoter-TSS (NM_028986)	-73.0	NM_001355689	74533.0	Mm.136913	NM_028986	ENSMUSG00000027439	Gzf1	8430437G08Rik|Zfp336|mGZF1	GDNF-inducible zinc finger protein 1	protein-coding	293.0	446.0	317.0	4479.5	703.0	301.0	347.0	282.0
Merged-chr10-85003728-2	chr10	85003628	85003828	+	752.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_183172, intron 9 of 9)	intron (NM_183172, intron 9 of 9)	86115.0	NM_183172	237422.0	Mm.18936	NM_183172	ENSMUSG00000035620	Ric8b	BC051080|Ric-8|Ric-8b	RIC8 guanine nucleotide exchange factor B	protein-coding	2.5	6.0	6.5	134.0	16.0	8.0	5.0	5.5
Merged-chr9-72532070-10	chr9	72532054	72532254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045735)	promoter-TSS (NR_045735)	-86.0	NM_001033536	319758.0	Mm.32081	NM_001033536	ENSMUSG00000037674	Rfx7	2510005N23Rik|9930116O05Rik|D130086K05Rik|Rfxdc2	regulatory factor X, 7	protein-coding	21.0	28.0	11.0	176.0	61.0	16.5	26.5	10.5
Merged-chr11-120573116-4	chr11	120573003	120573203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011032, exon 1 of 11)	5' UTR (NM_011032, exon 1 of 11)	150.0	NM_011032	18453.0	Mm.16660	NM_011032	ENSMUSG00000025130	P4hb	ERp59|PDI|Pdia1|Thbp	prolyl 4-hydroxylase, beta polypeptide	protein-coding	390.0	675.5	382.0	4112.0	803.5	391.0	365.0	313.5
Merged-chr7-90136996-4	chr7	90136898	90137098	+	980.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	B2_Mm1t|SINE|B2	6785.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	27.0	32.5	16.0	200.0	24.5	21.5	24.5	27.0
Merged-chr18-76949027-4	chr18	76948919	76949119	+	896.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361227, intron 1 of 6)	intron (NM_001361227, intron 1 of 6)	4635.0	NM_001361227	76987.0	Mm.236127	NM_029826	ENSMUSG00000025421	Hdhd2	0610039H12Rik|3110052N05Rik	haloacid dehalogenase-like hydrolase domain containing 2	protein-coding	12.0	14.0	9.5	140.5	29.5	8.5	8.5	20.5
Merged-chr3-115793508-4	chr3	115793447	115793647	+	942.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78492.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	15.5	26.0	35.0	416.0	28.0	12.0	21.5	8.0
Merged-chr4-99185549-4	chr4	99185444	99185644	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8390.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	10.5	9.5	2.5	231.0	78.0	10.0	13.0	15.0
Merged-chr11-89002485-6	chr11	89002436	89002636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	3133.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	17.0	17.0	25.5	254.5	73.5	13.5	17.5	28.0
Merged-chr7-141022293-4	chr7	141022205	141022405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-5413.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	78.5	96.5	67.0	1052.0	150.0	68.0	76.5	93.5
Merged-chr1-155144905-2	chr1	155144805	155145005	+	909.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008209, intron 1 of 5)	LTR33|LTR|ERVL	1909.0	NM_001355063	15064.0	Mm.7580	NM_008209	ENSMUSG00000026471	Mr1	H2ls	major histocompatibility complex, class I-related	protein-coding	8.0	5.0	5.5	40.5	15.5	11.5	4.5	8.5
Merged-chr19-16781037-4	chr19	16780926	16781126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173028)	promoter-TSS (NM_173028)	-93.0	NM_173028	271564.0	Mm.211963	NM_173028	ENSMUSG00000046230	Vps13a	4930425F11|4930516E05Rik|4930543C13Rik|9930023P20|Chac|Chorein|D330038K10Rik|mKIAA0986	vacuolar protein sorting 13A	protein-coding	221.5	300.5	158.0	2764.0	523.0	127.0	226.5	146.5
Merged-chr2-103019259-4	chr2	103019133	103019333	+	963.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54280.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	23.0	26.5	12.0	222.5	55.5	12.5	19.0	17.5
Merged-chr7-39545021-4	chr7	39544955	39545155	+	932.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27289.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	3.0	13.0	19.5	223.5	48.5	25.5	26.5	12.5
Merged-chr13-9834384-4	chr13	9834270	9834470	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_T|LINE|L1	-69049.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	18.0	31.0	20.0	0.0	29.5	16.0	15.0	47.0
Merged-chr5-99335204-5	chr5	99335134	99335334	+	903.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-82307.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	17.0	11.5	3.5	101.5	26.0	6.5	13.0	9.0
Merged-chr10-80175724-3	chr10	80175663	80175863	+	911.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027207)	TTS (NM_027207)	2819.0	NM_027207	69770.0	Mm.302754	NM_027207	ENSMUSG00000035595	1600002K03Rik	-	RIKEN cDNA 1600002K03 gene	protein-coding	6.0	15.5	8.0	30.0	18.5	3.5	7.5	15.5
Merged-chr18-74208334-4	chr18	74208222	74208422	+	862.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164355)	promoter-TSS (NM_001164355)	-504.0	NM_025581	66468.0	Mm.283406	NM_025581	ENSMUSG00000036223	Ska1	2810433K01Rik|AV117428	spindle and kinetochore associated complex subunit 1	protein-coding	33.0	14.5	28.0	372.5	60.0	19.5	26.5	16.0
Merged-chr3-81149343-4	chr3	81149243	81149443	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357746, intron 3 of 6)	intron (NM_001357746, intron 3 of 6)	112927.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	41.5	21.5	32.0	559.0	48.0	24.5	22.5	31.0
Merged-chr1-38129937-4	chr1	38129833	38130033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359287)	promoter-TSS (NM_001359287)	-267.0	NM_001359288	56210.0	Mm.389103	NM_019570	ENSMUSG00000026082	Rev1	1110027I23Rik|AU022044|Rev1l	REV1, DNA directed polymerase	protein-coding	86.0	165.0	91.5	1041.5	224.5	81.5	105.0	71.5
Merged-chr3-9833641-4	chr3	9833559	9833759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195031)	promoter-TSS (NM_001195031)	20.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	109.0	165.5	95.0	1487.5	258.5	106.5	112.5	69.0
Merged-chr5-63970588-7	chr5	63970514	63970714	+	998.880981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-1717.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	22.5	28.5	25.0	286.0	64.5	14.0	33.0	30.0
Merged-chr17-26561467-4	chr17	26561351	26561551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026170)	promoter-TSS (NM_026170)	-61.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	60.0	91.0	60.5	1035.0	195.0	49.5	96.0	74.0
Merged-chr2-167007788-4	chr2	167007696	167007896	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7517.0	NM_153065	228889.0	Mm.295031	NM_153065	ENSMUSG00000017999	Ddx27	C86129	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	protein-coding	31.0	57.5	21.5	275.5	46.5	32.0	28.0	16.5
Merged-chr3-95694591-4	chr3	95694498	95694698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6681.0	NM_001301705	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	28.5	34.5	31.5	501.5	71.5	32.5	43.5	33.0
Merged-chr13-52610670-4	chr13	52610571	52610771	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 1 of 13)	intron (NM_011518, intron 1 of 13)	13789.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	22.0	24.5	14.0	137.5	27.5	8.5	5.0	1.0
Merged-chr3-144202298-7	chr3	144202207	144202407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161770)	promoter-TSS (NM_001161770)	25.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	27.0	27.0	23.0	364.5	64.0	23.0	18.5	28.0
Merged-chr10-88201151-4	chr10	88201063	88201263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027487)	promoter-TSS (NM_027487)	66.0	NM_027487	67282.0	Mm.208465	NM_026070	ENSMUSG00000020056	Washc3	2900091E11Rik|5730495F03Rik|Ccdc53	WASH complex subunit 3	protein-coding	58.5	95.5	64.5	892.5	141.0	55.5	57.5	60.5
Merged-chr13-100832869-2	chr13	100832769	100832969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_022885, intron 1 of 15)	CpG	558.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	12.5	25.0	20.5	194.5	49.0	11.5	20.5	15.5
Merged-chr7-99143395-4	chr7	99143273	99143473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2229.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	123.0	166.0	137.5	1514.0	327.5	107.0	120.5	154.5
Merged-chr3-83867115-3	chr3	83866981	83867181	+	880.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3A|LTR|ERVK	-25473.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	8.0	8.5	8.0	41.5	13.0	2.5	4.0	3.0
Merged-chr17-28208206-3	chr17	28208116	28208316	+	851.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027185, intron 1 of 10)	intron (NM_027185, intron 1 of 10)	438.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	26.0	19.0	7.5	109.5	10.0	1.5	1.0	4.5
Merged-chr11-103967350-2	chr11	103967247	103967447	+	986.0	f0_balb.idr|f0_c57.idr	5' UTR (NM_007477, exon 1 of 5)	5' UTR (NM_007477, exon 1 of 5)	476.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	15.0	20.0	4.0	162.5	52.0	11.0	22.5	15.5
Merged-chr2-151536065-4	chr2	151535986	151536186	+	848.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6397.0	NR_126058	14225.0	Mm.278458	NM_008019	ENSMUSG00000032966	Fkbp1a	FKBP12|Fkbp|Fkbp1	FK506 binding protein 1a	protein-coding	12.5	27.0	11.5	195.5	18.5	11.0	12.5	10.0
Merged-chr4-141503295-3	chr4	141503179	141503379	+	782.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 3 of 14)	intron (NM_001347235, intron 3 of 14)	35318.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	6.0	10.0	2.5	118.0	8.0	10.0	8.5	11.5
Merged-chr10-13687400-3	chr10	13687298	13687498	+	649.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 4 of 5)	intron (NM_025446, intron 4 of 5)	-134256.0	NM_001347361	56535.0	Mm.282711	NM_019961	ENSMUSG00000019809	Pex3	1700014F15Rik|2810027F19Rik|2900010N04Rik	peroxisomal biogenesis factor 3	protein-coding	7.5	14.0	6.0	156.0	10.5	6.0	3.5	2.5
Merged-chr18-84313715-3	chr18	84313620	84313820	+	876.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	225562.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	3.5	10.5	3.5	30.0	38.0	12.0	11.0	12.5
Merged-chr12-35535069-4	chr12	35534970	35535170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013464)	promoter-TSS (NM_013464)	-81.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	72.5	85.0	57.0	1084.5	163.5	61.5	85.0	70.5
Merged-chr9-88731936-4	chr9	88731845	88732045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007536)	promoter-TSS (NM_007536)	-95.0	NM_007536	12047.0	Mm.378888	NM_007536	ENSMUSG00000099974	Bcl2a1d	A1-d	B cell leukemia/lymphoma 2 related protein A1d	protein-coding	54.0	121.0	48.5	643.5	152.5	70.0	63.0	68.5
Merged-chr11-70777394-4	chr11	70777284	70777484	+	952.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12937.0	NM_177565	193043.0	Mm.40966	NM_177565	ENSMUSG00000043602	Zfp3	AI854635|B230309J24|Fnp-1|Zfp-3	zinc finger protein 3	protein-coding	25.0	20.5	15.5	266.5	64.0	11.0	27.0	21.0
Merged-chr16-55934805-4	chr16	55934673	55934873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028815)	promoter-TSS (NM_028815)	75.0	NM_001159364	74201.0	Mm.178427	NM_028815	ENSMUSG00000022604	Cep97	2810403B08Rik|4932439K18Rik|AA437768|E130116N02Rik|Lrriq2	centrosomal protein 97	protein-coding	76.0	119.5	154.5	1127.0	166.5	60.0	88.0	86.0
Merged-chr8-41006473-3	chr8	41006386	41006586	+	922.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 7 of 13)	intron (NM_001005863, intron 7 of 13)	-10982.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	11.5	17.5	8.0	219.5	14.0	4.0	3.0	10.5
Merged-chr3-81926071-4	chr3	81925972	81926172	+	961.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6529.0	NM_177662	229445.0	Mm.254642	NM_177662	ENSMUSG00000028015	Ctso	A330105D01Rik|AI118514	cathepsin O	protein-coding	11.5	18.0	3.5	233.0	31.5	15.0	6.0	11.0
Merged-chr6-134035755-4	chr6	134035720	134035920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007961, exon 1 of 8)	5' UTR (NM_007961, exon 1 of 8)	120.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	56.5	74.0	64.5	939.5	141.5	61.0	73.5	47.5
Merged-chr11-20500745-4	chr11	20500647	20500847	+	940.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16D1|LTR|ERVL	-42506.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	13.0	16.0	8.0	122.0	31.0	5.0	16.0	11.5
Merged-chr1-78489199-4	chr1	78489123	78489323	+	974.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102757)	promoter-TSS (NR_102757)	-326.0	NM_011811	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	17.0	18.5	12.5	223.5	34.5	7.5	20.5	13.5
Merged-chr5-31602597-4	chr5	31602513	31602713	+	972.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11338.0	NM_025796	66845.0	Mm.120763	NM_025796	ENSMUSG00000106918	Mrpl33	0610009M10Rik|L33mt|MRP-L33	mitochondrial ribosomal protein L33	protein-coding	44.0	76.0	54.5	818.5	22.5	22.5	35.5	29.0
Merged-chr5-24602719-3	chr5	24602640	24602840	+	943.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025891)	promoter-TSS (NM_025891)	-738.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	12.5	12.0	10.5	259.5	17.0	2.5	15.0	14.0
Merged-chr1-55821318-3	chr1	55821206	55821406	+	881.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109935.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	10.0	13.5	24.5	183.5	12.5	1.0	5.0	6.0
Merged-chr6-134066295-4	chr6	134066192	134066392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	MLT2B2|LTR|ERVL	30592.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	65.5	126.0	73.0	1165.5	179.0	70.5	78.5	56.0
Merged-chr18-25461311-4	chr18	25461200	25461400	+	911.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033532, intron 10 of 10)	intron (NM_001033532, intron 10 of 10)	218448.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	9.5	18.5	17.0	147.0	55.5	16.5	14.0	6.0
Merged-chr8-22658105-4	chr8	22657906	22658106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4569.0	NM_011130	18970.0	Mm.123211	NM_011130	ENSMUSG00000031536	Polb	A430088C08Rik	polymerase (DNA directed), beta	protein-coding	24.0	35.5	33.0	377.5	60.0	32.5	33.0	9.5
Merged-chr4-120887896-4	chr4	120887803	120888003	+	960.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 5 of 7)	intron (NM_182929, intron 5 of 7)	33104.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	19.0	24.0	9.0	280.5	45.5	20.5	21.0	20.0
Merged-chr2-101715876-4	chr2	101715799	101715999	+	935.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001110849, exon 10 of 10)	3' UTR (NM_001110849, exon 10 of 10)	37479.0	NM_001303273	22034.0	Mm.292729	NM_009424	ENSMUSG00000027164	Traf6	2310003F17Rik|AI851288|C630032O20Rik	TNF receptor-associated factor 6	protein-coding	15.5	16.0	11.5	164.0	21.5	19.0	14.5	14.5
Merged-chr17-34604761-2	chr17	34604667	34604867	+	926.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-1094.0	NM_001163379	55979.0	Mm.8684	NM_018862	ENSMUSG00000034254	Agpat1	1-AGP|1-AGPAT|AW047140	1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha)	protein-coding	20.5	29.5	14.5	159.0	60.0	15.5	15.0	30.0
Merged-chr11-77519221-3	chr11	77519123	77519323	+	679.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026185, exon 2 of 2)	3' UTR (NM_026185, exon 2 of 2)	4106.0	NM_026185	67477.0	Mm.432526	NM_026185	ENSMUSG00000000686	Abhd15	1300007F04Rik	abhydrolase domain containing 15	protein-coding	9.0	13.0	5.0	168.0	15.0	2.5	5.0	8.5
Merged-chr6-100850792-4	chr6	100850688	100850888	+	887.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182939, intron 2 of 8)	ORR1C1|LTR|ERVL-MaLR	17150.0	NM_182939	232314.0	Mm.27223	NM_182939	ENSMUSG00000052144	Ppp4r2	BE691708|C230060M08Rik	protein phosphatase 4, regulatory subunit 2	protein-coding	2.0	19.5	9.0	132.0	47.5	11.5	13.0	14.5
Merged-chr3-142295428-3	chr3	142295336	142295536	+	615.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190852, intron 7 of 15)	intron (NM_001190852, intron 7 of 15)	96414.0	NM_022554	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	1.5	2.5	9.5	93.0	12.5	7.5	10.5	9.0
Merged-chr10-66998972-4	chr10	66998861	66999061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6114.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	119.5	142.5	94.5	1613.5	330.5	99.0	110.5	109.0
Merged-chr15-55557692-1	chr15	55557592	55557792	+	1000.0	f0_balb.idr	promoter-TSS (NM_026759)	promoter-TSS (NM_026759)	284.0	NM_001168250	105837.0	Mm.390829	NM_134092	ENSMUSG00000022369	Mtbp	AI429604|MDM2BP	Mdm2, transformed 3T3 cell double minute p53 binding protein	protein-coding	10.0	24.5	34.0	278.5	42.5	11.0	14.5	11.5
Merged-chr19-55294238-4	chr19	55294138	55294338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027976, exon 19 of 22)	exon (NM_027976, exon 19 of 22)	21798.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	25.5	27.5	25.0	331.0	65.5	27.5	35.0	28.5
Merged-chr7-142340748-4	chr7	142340640	142340840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	intron (NM_177265, intron 3 of 3)	31519.0	NM_177265	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	46.0	84.5	52.5	548.5	179.0	60.5	73.5	41.5
Merged-chr5-108627218-4	chr5	108627127	108627327	+	970.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359923, intron 1 of 22)	intron (NM_001359923, intron 1 of 22)	2550.0	NM_001359924	231580.0	Mm.276647	NM_153569	ENSMUSG00000062234	Gak	D130045N16Rik	cyclin G associated kinase	protein-coding	20.5	26.5	25.5	539.5	25.0	23.0	26.5	30.5
Merged-chr7-73618422-4	chr7	73618309	73618509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-60014.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	227.0	388.0	191.0	3382.5	631.0	242.5	265.5	263.0
Merged-chr3-9005706-4	chr3	9005598	9005798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025263)	promoter-TSS (NM_001025263)	-975.0	NM_001357075	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	186.0	268.5	214.0	3556.5	425.5	143.0	199.0	165.5
Merged-chr3-138442316-1	chr3	138442216	138442416	+	788.0	f0_c57.idr	promoter-TSS (NM_007410)	promoter-TSS (NM_007410)	-777.0	NM_007410	11532.0	Mm.3874	NM_007410	ENSMUSG00000028138	Adh5	Adh-5|Adh3|GSNOR	alcohol dehydrogenase 5 (class III), chi polypeptide	protein-coding	7.5	14.0	12.5	164.0	24.5	16.0	11.5	8.0
Merged-chr10-60003139-4	chr10	60003034	60003234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347451)	promoter-TSS (NM_001347451)	1.0	NM_001347451	52717.0	Mm.21793	NM_025514	ENSMUSG00000020107	Anapc16	2310005G07Rik|APC16|D10Ertd641e	anaphase promoting complex subunit 16	protein-coding	156.0	251.0	139.5	2156.0	407.5	167.0	168.0	172.5
Merged-chr6-72390533-4	chr6	72390441	72390641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_016794, exon 1 of 3)	5' UTR (NM_016794, exon 1 of 3)	126.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	43.5	37.0	18.5	427.0	69.0	16.0	25.0	33.5
Merged-chr13-116972420-4	chr13	116972309	116972509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081009, intron 3 of 26)	PB1D9|SINE|Alu	53107.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	43.5	78.0	39.5	898.5	175.5	33.0	69.5	58.5
Merged-chr7-24441998-4	chr7	24441883	24442083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199013, intron 1 of 2)	intron (NM_199013, intron 1 of 2)	3699.0	NM_199013	210145.0	Mm.33811	NM_199013	ENSMUSG00000062028	Irgc1	F630044M05Rik|Gm1102|Gm474|Ifgge|Iigp5|Irgc	immunity-related GTPase family, cinema 1	protein-coding	24.5	37.0	13.0	222.0	81.0	23.5	49.5	38.5
Merged-chr10-95501933-4	chr10	95501793	95501993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359477)	promoter-TSS (NM_001359477)	56.0	NM_001359476	67270.0	Mm.30008	NM_026065	ENSMUSG00000062981	Mrpl42	2700009F22Rik|2900055D03Rik|D10Ertd322e|HSPC204|L31mt|L42mt|MRP-L31|MRP-L42|MRP-S32|PTD007|Rpml31|S32mt	mitochondrial ribosomal protein L42	protein-coding	36.5	67.0	44.0	652.5	85.0	29.5	41.0	42.5
Merged-chr4-59407957-4	chr4	59407861	59408061	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 5 of 16)	L1MA5|LINE|L1	30672.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	20.0	70.5	61.5	424.5	75.0	28.5	39.0	19.0
Merged-chr10-118894034-4	chr10	118893950	118894150	+	938.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25147.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	19.5	14.5	18.5	236.0	35.0	12.0	25.5	16.0
Merged-chr5-102055174-4	chr5	102055053	102055253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	MLTR11B|LTR|ERVK	14768.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	80.5	97.5	129.5	1320.0	126.0	43.0	92.5	72.0
Merged-chr12-16878814-3	chr12	16878742	16878942	+	996.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16136.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	79.0	53.5	26.5	624.0	9.5	3.5	2.0	0.0
Merged-chr4-45452690-4	chr4	45452542	45452742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 3 of 5)	intron (NM_001033306, intron 3 of 5)	-43876.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	52.5	83.0	79.0	1372.0	168.5	34.5	83.5	73.5
Merged-chr2-27767004-13	chr2	27766878	27767078	+	953.1538699999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56395.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	17.0	19.5	17.5	122.0	49.0	19.5	13.5	16.0
Merged-chr2-43784012-4	chr2	43783947	43784147	+	774.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 2 of 14)	intron (NM_001301831, intron 2 of 14)	35223.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	6.0	16.5	6.5	88.5	15.5	4.5	11.0	4.5
Merged-chr8-122430419-4	chr8	122430321	122430521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301284, intron 1 of 4)	intron (NM_001301284, intron 1 of 4)	2519.0	NM_001301284	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	112.0	196.5	84.5	1236.5	254.0	116.5	110.5	124.0
Merged-chr18-70531031-4	chr18	70530946	70531146	+	996.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136090)	promoter-TSS (NM_001136090)	-725.0	NM_001289515	26447.0	Mm.244352	NM_011972	ENSMUSG00000038425	Poli	Rad30b	polymerase (DNA directed), iota	protein-coding	14.5	27.0	16.0	232.0	98.5	18.5	22.5	29.5
Merged-chr4-116123769-4	chr4	116123669	116123869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009015)	promoter-TSS (NM_009015)	-71.0	NR_131048	76786.0	Mm.373813	NR_131048	ENSMUSG00000028700	2510003B16Rik	-	RIKEN cDNA 2510003B16 gene	ncRNA	62.0	57.0	32.0	755.0	93.5	27.5	52.0	48.0
Merged-chr4-15266607-1	chr4	15266507	15266707	+	610.0	f0_balb.idr	exon (NM_181401, exon 1 of 3)	exon (NM_181401, exon 1 of 3)	787.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	12.5	9.5	12.5	123.5	15.5	6.5	8.0	14.0
Merged-chr16-31918590-4	chr16	31918481	31918681	+	808.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15270.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	3.5	9.0	10.0	144.0	25.0	11.5	6.5	13.0
Merged-chr19-27429334-1	chr19	27429234	27429434	+	672.0	f0_balb.idr	promoter-TSS (NR_027987)	promoter-TSS (NR_027987)	574.0	NM_177474	52874.0	Mm.261027	NM_177474	ENSMUSG00000041360	Pum3	1110069H02Rik|AA675048|D19Bwg1357e	pumilio RNA-binding family member 3	protein-coding	10.0	13.0	5.0	137.5	16.5	8.5	10.0	9.5
Merged-chr10-14035042-4	chr10	14034945	14035145	+	979.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	MER20|DNA|hAT-Charlie	68666.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	17.5	27.5	30.0	663.5	57.5	10.5	40.5	27.5
Merged-chr1-165737652-4	chr1	165737572	165737772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26086.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	48.0	74.5	50.5	968.5	140.5	59.5	61.5	43.5
Merged-chr1-13293515-4	chr1	13293441	13293641	+	863.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 1 of 22)	intron (NM_008678, intron 1 of 22)	78888.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	2.0	5.0	14.5	124.0	18.5	5.5	6.5	9.0
Merged-chr14-66867537-2	chr14	66867437	66867637	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 1 of 13)	CpG	1063.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	5.5	7.0	6.5	48.0	4.0	1.0	3.5	1.5
Merged-chr14-51090432-7	chr14	51090258	51090458	+	839.404785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021472)	promoter-TSS (NM_021472)	-719.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	6.5	10.0	6.0	107.5	32.0	10.5	7.0	5.5
Merged-chr4-11191306-4	chr4	11191222	11191422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009830)	promoter-TSS (NM_009830)	-29.0	NM_001037134	12448.0	Mm.35867	NM_009830	ENSMUSG00000028212	Ccne2	-	cyclin E2	protein-coding	49.0	95.0	65.0	784.5	171.0	58.5	89.0	84.0
Merged-chr2-28498638-4	chr2	28498531	28498731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139197, intron 3 of 6)	intron (NM_139197, intron 3 of 6)	1740.0	NM_139197	227671.0	Mm.484270	NM_139197	ENSMUSG00000026829	Gbgt1	Fgs|Fs	globoside alpha-1,3-N-acetylgalactosaminyltransferase 1	protein-coding	53.5	101.0	28.5	301.5	149.0	60.0	27.5	26.0
Merged-chr11-114679775-4	chr11	114679703	114679903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	4335.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	74.0	137.0	71.5	1033.0	223.5	61.0	104.0	82.0
Merged-chr6-114395520-4	chr6	114395400	114395600	+	910.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2436.0	NM_001317125	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	11.5	11.5	18.5	144.0	27.5	7.0	7.0	15.0
Merged-chr12-73678243-3	chr12	73678181	73678381	+	670.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	93485.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	8.0	10.5	3.0	38.5	15.5	5.5	7.0	4.5
Merged-chr4-4791377-3	chr4	4791265	4791465	+	769.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177730, intron 1 of 4)	intron (NM_177730, intron 1 of 4)	1941.0	NM_177730	242291.0	Mm.218889	NM_177730	ENSMUSG00000066324	Impad1	1110001C20Rik|AA408880|AI451589|AL022796|B230207P20|Jaws|gPAPP	inositol monophosphatase domain containing 1	protein-coding	12.5	6.0	14.0	130.0	25.0	7.5	5.5	13.5
Merged-chr2-118972889-4	chr2	118972780	118972980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	46383.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	22.5	38.5	17.5	360.0	141.5	37.0	41.0	42.0
Merged-chr7-25132526-4	chr7	25132420	25132620	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163555)	promoter-TSS (NM_001163555)	-60.0	NM_001163554	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	19.0	41.0	19.0	287.5	68.5	27.0	38.5	21.0
Merged-chr6-131388467-4	chr6	131388416	131388616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139117)	promoter-TSS (NM_139117)	-66.0	NM_011733	56449.0	Mm.458000	NM_011733	ENSMUSG00000030189	Ybx3	Csda|Dpba|MSY3|MSY4|Yb2|dbpA|oxyR	Y box protein 3	protein-coding	33.5	58.0	49.5	925.0	87.5	31.5	53.0	46.5
Merged-chr5-43788212-2	chr5	43788112	43788312	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6063.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	4.5	9.5	5.0	55.5	10.0	14.0	9.0	5.5
Merged-chr3-32365717-4	chr3	32365550	32365750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009517)	promoter-TSS (NM_009517)	15.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	35.0	22.5	15.5	235.5	58.0	14.0	18.0	10.5
Merged-chr11-54801967-4	chr11	54801868	54802068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14265.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	56.5	82.0	56.5	928.5	173.5	62.5	72.0	54.5
Merged-chr1-37541187-4	chr1	37541135	37541335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173870)	promoter-TSS (NM_173870)	-219.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	46.0	60.5	38.5	710.5	118.0	44.5	42.5	41.5
Merged-chr16-70333278-2	chr16	70333187	70333387	+	618.0	f0_c57.idr|f1_balb.idr	intron (NM_028803, intron 1 of 15)	AT_rich|Low_complexity|Low_complexity	19338.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	2.5	0.5	2.0	26.5	32.0	10.0	8.5	4.5
Merged-chr15-86186805-3	chr15	86186720	86186920	+	761.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145475)	promoter-TSS (NM_145475)	-679.0	NM_145475	223753.0	Mm.222685	NM_145475	ENSMUSG00000035891	Cerk	AI848610|D330016D08Rik|mKIAA1646	ceramide kinase	protein-coding	4.5	2.5	7.5	105.0	6.5	5.0	8.0	6.5
Merged-chr15-8206396-3	chr15	8206284	8206484	+	894.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162906, intron 21 of 52)	L1_Mus2|LINE|L1	37278.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	4.5	5.5	13.5	61.5	19.5	4.0	5.5	11.0
Merged-chr19-44555455-4	chr19	44555362	44555562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347447)	promoter-TSS (NM_001347447)	-20.0	NM_026061	67264.0	Mm.2060	NM_026061	ENSMUSG00000025204	Ndufb8	2900010I05Rik|AI987932|CI-ASHI	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 8	protein-coding	41.0	41.0	16.0	419.5	79.0	30.5	29.5	31.0
Merged-chr10-80295824-4	chr10	80295704	80295904	+	944.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	3295.0	NM_001310726	20054.0	Mm.643	NM_009091	ENSMUSG00000063457	Rps15	rig	ribosomal protein S15	protein-coding	15.5	30.5	16.5	182.5	42.0	9.5	8.5	20.5
Merged-chr13-119283614-3	chr13	119283514	119283714	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125397.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	9.0	8.5	1.5	184.0	27.0	4.5	16.5	12.5
Merged-chr19-15990321-4	chr19	15990230	15990430	+	773.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045355, intron 2 of 2)	L1M4b|LINE|L1	5255.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	9.0	13.0	7.0	141.5	23.0	11.0	12.5	11.0
Merged-chr4-138288870-4	chr4	138288767	138288967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010623, intron 8 of 14)	intron (NM_010623, intron 8 of 14)	-15871.0	NM_007838	13200.0	Mm.7236	NM_007838	ENSMUSG00000028757	Ddost	-	dolichyl-di-phosphooligosaccharide-protein glycotransferase	protein-coding	43.5	94.5	46.5	618.0	132.0	33.5	62.5	37.5
Merged-chr11-95827687-4	chr11	95827588	95827788	+	991.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153104, intron 1 of 2)	intron (NM_153104, intron 1 of 2)	3188.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	21.0	22.5	13.0	263.5	39.5	16.0	18.0	18.5
Merged-chr13-115077536-4	chr13	115077433	115077633	+	843.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033228, intron 1 of 28)	intron (NM_001033228, intron 1 of 28)	12625.0	NM_134058	105083.0	Mm.486295	NM_134058	ENSMUSG00000042275	Pelo	AA409897|AI852218	pelota mRNA surveillance and ribosome rescue factor	protein-coding	11.0	7.0	24.0	259.0	19.5	9.0	10.0	10.0
Merged-chr12-91748381-4	chr12	91748289	91748489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	38047.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	172.5	260.5	277.5	3480.5	332.0	118.5	220.5	166.0
Merged-chr19-5631225-3	chr19	5631138	5631338	+	647.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-6252.0	NM_009045	19697.0	Mm.249966	NM_009045	ENSMUSG00000024927	Rela	p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	protein-coding	11.0	13.0	12.0	154.0	0.5	0.0	0.0	1.0
Merged-chr11-115705716-4	chr11	115705622	115705822	+	758.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008163, intron 1 of 5)	RMER15|LTR|ERVL	2875.0	NM_008163	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	5.0	10.0	1.0	105.0	22.0	5.0	6.0	7.0
Merged-chr9-59578451-3	chr9	59578365	59578565	+	931.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175235, exon 1 of 12)	exon (NM_175235, exon 1 of 12)	128.0	NM_175235	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	18.0	9.5	7.5	141.5	30.0	22.0	9.0	9.5
Merged-chr6-82752766-1	chr6	82752666	82752866	+	608.0	f0_balb.idr	intron (NM_013820, intron 2 of 17)	intron (NM_013820, intron 2 of 17)	21688.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	13.0	22.5	5.0	89.5	16.5	3.5	1.0	7.0
Merged-chr11-114636443-4	chr11	114636344	114636544	+	666.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32099.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	5.5	9.5	11.5	88.0	18.0	7.0	4.0	8.5
Merged-chr2-93459821-1	chr2	93459721	93459921	+	1000.0	f1_balb.idr	intron (NR_040532, intron 2 of 4)	intron (NR_040532, intron 2 of 4)	2030.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	5.0	5.0	7.5	47.0	14.0	1.0	1.0	8.0
Merged-chr9-54950682-4	chr9	54950550	54950750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011966)	promoter-TSS (NM_011966)	-209.0	NM_011966	26441.0	Mm.30270	NM_011966	ENSMUSG00000032301	Psma4	C9	proteasome (prosome, macropain) subunit, alpha type 4	protein-coding	151.0	205.0	118.5	1875.5	397.5	117.0	212.0	112.5
Merged-chr6-56704706-4	chr6	56704585	56704785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025520)	promoter-TSS (NM_025520)	14.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	82.0	106.0	77.0	1174.0	143.0	46.5	46.0	56.5
Merged-chr2-132103564-4	chr2	132103474	132103674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	intron (NM_001355430, intron 1 of 15)	41534.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	51.0	152.5	56.5	670.0	164.0	59.5	51.5	46.0
Merged-chr18-13301309-3	chr18	13301196	13301396	+	957.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	294306.0	NM_153087	225192.0	Mm.207073	NM_153087	ENSMUSG00000037346	Hrh4	AXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R	histamine receptor H4	protein-coding	2.0	6.0	2.0	92.5	104.5	13.0	32.0	44.0
Merged-chr10-96690505-4	chr10	96690397	96690597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73496.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	41.0	113.0	31.0	466.0	180.0	53.5	50.5	46.5
Merged-chr18-36522254-4	chr18	36522144	36522344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5908.0	NM_172830	240215.0	Mm.135463	NM_172830	ENSMUSG00000024485	Slc4a9	AE4|D630003B07|D630024F24Rik	solute carrier family 4, sodium bicarbonate cotransporter, member 9	protein-coding	32.0	44.0	22.0	689.0	61.5	26.0	41.0	43.5
Merged-chr3-22024386-4	chr3	22024275	22024475	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52277.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	8.5	26.0	13.5	226.5	28.5	9.0	1.5	10.5
Merged-chr7-13034787-4	chr7	13034719	13034919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026885)	promoter-TSS (NM_026885)	-42.0	NM_001360731	68953.0	Mm.295670	NM_026885	ENSMUSG00000033916	Chmp2a	1500016L11Rik|mVps2	charged multivesicular body protein 2A	protein-coding	118.0	136.0	101.0	1448.5	229.0	69.0	107.0	81.0
Merged-chr16-43209732-4	chr16	43209625	43209825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285805, intron 2 of 10)	L1MD2|LINE|L1	-37559.0	NM_181058	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	24.0	36.5	35.0	916.0	52.0	29.0	39.0	29.0
Merged-chr7-19501874-4	chr7	19501766	19501966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6465.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	34.0	50.0	38.5	585.0	111.0	37.0	40.5	31.0
Merged-chr18-69666922-4	chr18	69666796	69666996	+	856.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	intron (NM_001361128, intron 15 of 19)	-258663.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	8.5	18.0	8.0	285.0	34.5	13.0	9.5	4.5
Merged-chr15-51911932-3	chr15	51911845	51912045	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34504.0	NM_030132	78581.0	Mm.176347	NM_030132	ENSMUSG00000022313	Utp23	1700010I21Rik|AI662478|BB238373|D530033C11Rik	UTP23 small subunit processome component	protein-coding	7.5	11.0	8.5	62.5	18.0	6.5	13.0	6.0
Merged-chr11-79660607-2	chr11	79660507	79660707	+	795.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 3 of 14)	CpG	14479.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	5.0	15.0	5.0	74.0	23.0	6.0	6.5	3.5
Merged-chr3-89295726-7	chr3	89295649	89295849	+	988.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14798.0	NM_001162425	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	14.5	11.0	16.0	246.5	31.0	17.0	15.0	20.0
Merged-chr11-8706110-4	chr11	8706012	8706212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-41577.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	31.5	41.5	18.0	412.5	72.5	20.5	28.0	48.0
Merged-chr1-80676439-4	chr1	80676349	80676549	+	951.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	-11097.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	21.5	39.0	12.0	341.5	59.5	14.0	24.0	17.0
Merged-chr17-15529097-3	chr17	15528990	15529190	+	605.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1789.0	NM_008799	18567.0	Mm.323	NM_008799	ENSMUSG00000014771	Pdcd2	AI528543|Pcd2|RP-8	programmed cell death 2	protein-coding	7.5	7.0	6.5	81.0	13.5	5.5	5.0	2.5
Merged-chr6-72407336-4	chr6	72407238	72407438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-6970.0	NM_019802	56316.0	Mm.19937	NM_019802	ENSMUSG00000053460	Ggcx	-	gamma-glutamyl carboxylase	protein-coding	54.0	87.0	36.0	564.0	174.5	40.5	56.0	53.0
Merged-chr5-121453978-4	chr5	121453856	121454056	+	886.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029912, intron 1 of 9)	RMER10A|LTR|ERVL	1247.0	NM_029912	77462.0	Mm.358781	NM_029912	ENSMUSG00000029452	Tmem116	4930406A18Rik|4930513P12Rik|C030022K24Rik	transmembrane protein 116	protein-coding	9.0	6.0	12.0	229.5	24.0	4.5	9.0	18.5
Merged-chr18-34862256-2	chr18	34862156	34862356	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007913, intron 1 of 1)	intron (NM_007913, intron 1 of 1)	1049.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	118.0	323.5	31.0	115.5	387.0	238.5	52.5	53.5
Merged-chr12-73545947-3	chr12	73545791	73545991	+	861.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178715, exon 1 of 1)	exon (NM_178715, exon 1 of 1)	504.0	NM_178715	238257.0	Mm.251196	NM_178715	ENSMUSG00000034435	Tmem30b	9130011B11Rik	transmembrane protein 30B	protein-coding	7.0	10.5	9.5	93.0	12.5	0.0	7.0	5.5
Merged-chr10-84409481-3	chr10	84409364	84409564	+	811.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 2 of 6)	intron (NM_001004363, intron 2 of 6)	31007.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	8.0	10.0	5.0	97.0	18.0	9.0	5.5	8.0
Merged-chr1-165655250-4	chr1	165655148	165655348	+	764.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 5 of 5)	intron (NM_001038846, intron 5 of 5)	-20707.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	9.5	7.5	11.0	98.0	28.0	14.0	17.0	11.5
Merged-chr9-78022410-4	chr9	78022297	78022497	+	887.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-29561.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	4.0	19.0	21.0	153.0	27.5	15.0	12.0	9.5
Merged-chr12-3903643-3	chr12	3903543	3903743	+	843.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 14 of 17)	intron (NM_153743, intron 14 of 17)	11899.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	7.5	3.5	7.5	191.0	13.5	7.5	4.5	12.5
Merged-chr2-116990326-4	chr2	116990249	116990449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90197.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	112.0	194.0	95.5	1475.0	236.5	95.0	115.5	88.5
Merged-chr18-73753014-4	chr18	73752914	73753114	+	897.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053255, intron 1 of 3)	PB1D10|SINE|Alu	1465.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	45.0	51.5	60.0	809.0	21.0	6.0	13.0	9.5
Merged-chr13-34647837-3	chr13	34647749	34647949	+	651.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025831, intron 1 of 4)	intron (NM_025831, intron 1 of 4)	4832.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	6.5	9.5	5.5	101.0	8.0	0.0	3.0	2.5
Merged-chr8-11557597-2	chr8	11557497	11557697	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302459)	promoter-TSS (NM_001302459)	-813.0	NM_001302459	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	33.0	48.0	49.0	287.0	89.5	34.0	35.5	40.5
Merged-chr4-95884961-3	chr4	95884864	95885064	+	836.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	intron (NM_001113412, intron 14 of 15)	82071.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	8.5	6.5	23.5	225.5	12.0	3.0	18.0	11.0
Merged-chr3-123266746-1	chr3	123266646	123266846	+	801.5	f1_balb.idr	promoter-TSS (NM_027135)	promoter-TSS (NM_027135)	-750.0	NM_027135	69608.0	Mm.29293	NM_027135	ENSMUSG00000039234	Sec24d	2310020L09Rik|Gm1349	Sec24 related gene family, member D (S. cerevisiae)	protein-coding	7.5	1.0	2.5	33.0	6.0	6.5	5.0	5.5
Merged-chr19-42148469-3	chr19	42148372	42148572	+	847.822205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_183195, exon 1 of 2)	3' UTR (NM_183195, exon 1 of 2)	1083.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	9.5	13.0	14.0	194.0	15.0	5.0	4.5	7.0
Merged-chr1-171658678-4	chr1	171658562	171658762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5625.0	NM_144539	75345.0	Mm.164642	NM_144539	ENSMUSG00000038179	Slamf7	19A|19A24|4930560D03Rik|CRACC|CS1	SLAM family member 7	protein-coding	47.5	49.5	36.5	789.0	72.5	33.0	29.0	41.0
Merged-chr5-125348246-4	chr5	125348153	125348353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7159.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	18.0	30.5	23.5	438.5	88.0	25.5	34.0	25.0
Merged-chr19-6157381-4	chr19	6157273	6157473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7066.0	NM_001356604	74481.0	Mm.159219	NM_028967	ENSMUSG00000039699	Batf2	B-ATF-2	basic leucine zipper transcription factor, ATF-like 2	protein-coding	65.0	85.0	44.5	637.0	163.5	54.0	56.0	50.0
Merged-chr17-57292435-4	chr17	57292331	57292531	+	865.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	B4A|SINE|B4	13331.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	8.5	10.0	14.0	105.0	35.0	8.5	10.0	5.0
Merged-chr16-76373148-4	chr16	76373042	76373242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173440)	promoter-TSS (NM_173440)	-93.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	137.5	263.5	206.0	2408.0	429.0	158.5	209.0	195.5
Merged-chr6-145149240-4	chr6	145149140	145149340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361633, intron 4 of 16)	intron (NM_001361633, intron 4 of 16)	3765.0	NM_001361633	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	75.5	58.5	105.0	1782.5	115.5	35.0	51.5	49.5
Merged-chr8-120792871-4	chr8	120792775	120792975	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54236.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	28.5	50.0	24.5	692.0	34.0	9.5	18.5	22.0
Merged-chr2-32487355-4	chr2	32487242	32487442	+	910.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-35872.0	NM_146118	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	13.5	9.5	24.0	143.0	21.0	20.0	9.0	6.5
Merged-chr1-39784720-6	chr1	39784608	39784808	+	879.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20624.0	NM_001177348	100042065.0	Mm.209678	NM_001177348	ENSMUSG00000091937	Gm3646	-	predicted gene 3646	protein-coding	12.5	15.0	16.0	189.5	21.0	15.0	9.5	16.5
Merged-chr19-45581470-4	chr19	45581348	45581548	+	945.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 6 of 8)	intron (NM_013907, intron 6 of 8)	20863.0	NM_172639	226162.0	Mm.21978	NM_172639	ENSMUSG00000041035	Dpcd	Ndac	deleted in primary ciliary dyskinesia	protein-coding	13.5	16.0	8.5	146.0	52.5	11.5	17.5	19.5
Merged-chr11-78178626-4	chr11	78178544	78178744	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106113)	promoter-TSS (NR_106113)	-14.0	NM_001291236	68385.0	Mm.390375	NM_026708	ENSMUSG00000019437	Tlcd1	-	TLC domain containing 1	protein-coding	14.5	27.5	16.5	270.5	65.0	19.5	19.5	25.5
Merged-chr17-27825107-4	chr17	27825001	27825201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-4559.0	NM_001271511	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	32.5	48.5	20.0	417.0	71.0	28.5	42.0	25.0
Merged-chr8-3330881-4	chr8	3330786	3330986	+	946.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22529.0	NM_001033378	319493.0	Mm.234565	NM_001033378	ENSMUSG00000074497	A430078G23Rik	-	RIKEN cDNA A430078G23 gene	protein-coding	15.5	28.0	15.0	242.0	47.5	25.5	12.5	25.5
Merged-chr11-70230528-4	chr11	70230424	70230624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007528)	promoter-TSS (NM_007528)	-726.0	NM_007528	12029.0	Mm.12930	NM_007528	ENSMUSG00000000317	Bcl6b	Bazf	B cell CLL/lymphoma 6, member B	protein-coding	26.0	50.5	22.0	201.5	57.0	28.0	25.0	20.0
Merged-chr19-59037683-3	chr19	59037573	59037773	+	593.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 5 of 16)	intron (NM_001114312, intron 5 of 16)	38396.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	8.5	5.5	7.0	110.5	22.0	2.0	2.5	12.5
Merged-chr17-12880355-4	chr17	12880256	12880456	+	844.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4322.0	NM_030726	80978.0	Mm.160368	NM_030726	ENSMUSG00000059408	Mrgprh	Gpr90|Mgrb|MrgH	MAS-related GPR, member H	protein-coding	13.0	11.0	9.5	137.5	19.5	10.5	16.5	14.5
Merged-chr11-77513329-4	chr11	77513212	77513412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024920)	promoter-TSS (NM_001024920)	-39.0	NM_001024920	216964.0	Mm.341211	NM_001024920	ENSMUSG00000044328	Trp53i13	2410019G02Rik|Tp53i13	transformation related protein 53 inducible protein 13	protein-coding	68.5	97.0	46.5	819.5	159.5	50.0	62.5	44.5
Merged-chr5-103655484-4	chr5	103655399	103655599	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028824, exon 1 of 4)	5' UTR (NM_028824, exon 1 of 4)	225.0	NM_028824	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	23.5	34.0	24.0	352.0	35.0	21.0	19.5	26.0
Merged-chr12-117831751-4	chr12	117831681	117831881	+	884.2374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12080.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	16.5	20.5	12.0	303.0	39.0	14.0	11.5	19.0
Merged-chr3-96001219-4	chr3	96001115	96001315	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013841, intron 14 of 14)	intron (NM_013841, intron 14 of 14)	-5376.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	33.5	30.0	17.0	308.5	42.5	21.0	16.5	15.5
Merged-chr2-84488051-3	chr2	84487942	84488142	+	846.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-11267.0	NM_001177320	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	1.0	4.5	2.0	28.0	22.5	10.0	10.0	17.0
Merged-chr7-48938413-3	chr7	48938313	48938513	+	758.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-20660.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	17.0	18.0	2.5	124.5	7.0	6.0	9.5	6.5
Merged-chr16-24859649-2	chr16	24859549	24859749	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 9 of 12)	intron (NM_178665, intron 9 of 12)	137794.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	14.0	34.0	14.5	158.0	54.5	19.5	8.0	16.5
Merged-chr6-85117968-3	chr6	85117837	85118037	+	836.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034902, intron 2 of 2)	intron (NM_001034902, intron 2 of 2)	8157.0	NM_001034902	545861.0	Mm.321419	NM_001034902	ENSMUSG00000072952	Gm5878	EG545861	predicted gene 5878	protein-coding	6.0	4.5	7.0	97.0	9.0	4.5	7.5	4.5
Merged-chr11-61564221-3	chr11	61564128	61564328	+	972.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252189, intron 1 of 8)	intron (NM_001252189, intron 1 of 8)	15459.0	NM_010148	13855.0	Mm.139695	NM_010148	ENSMUSG00000001036	Epn2	9530051D10Rik|AA536924|Ibp2	epsin 2	protein-coding	10.0	6.0	15.0	188.0	18.5	2.5	12.5	10.0
Merged-chr6-5497995-3	chr6	5497918	5498118	+	596.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1740.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	6.5	6.0	5.0	122.5	5.5	0.5	4.0	1.5
Merged-chr3-82999237-2	chr3	82999142	82999342	+	629.333374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-8482.0	NM_133862	99571.0	Mm.16422	NM_133862	ENSMUSG00000033860	Fgg	3010002H13Rik|AI256424	fibrinogen gamma chain	protein-coding	1.5	9.5	4.5	139.5	17.5	12.5	6.5	13.5
Merged-chr1-192771163-2	chr1	192771063	192771263	+	933.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144881)	promoter-TSS (NM_144881)	56.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	5.0	17.5	16.5	159.0	18.0	8.5	15.5	21.0
Merged-chr7-99182844-4	chr7	99182752	99182952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026384)	promoter-TSS (NM_026384)	-139.0	NM_026384	67800.0	Mm.180189	NM_026384	ENSMUSG00000030747	Dgat2	0610010B06Rik|ARAT|DGAT-2	diacylglycerol O-acyltransferase 2	protein-coding	81.0	120.0	75.5	639.5	146.5	55.0	42.5	58.5
Merged-chr1-151040569-4	chr1	151040477	151040677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTTG)n|Simple_repeat|Simple_repeat	-47142.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	36.0	43.0	27.5	468.5	74.5	37.5	27.0	35.5
Merged-chr10-94054485-1	chr10	94054385	94054585	+	795.0	f0_balb.idr	intron (NM_053072, intron 2 of 20)	intron (NM_053072, intron 2 of 20)	18484.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	5.0	11.0	5.0	138.5	8.5	6.5	3.5	7.5
Merged-chr7-30860110-3	chr7	30860030	30860230	+	716.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_194057)	TTS (NM_194057)	1340.0	NM_194057	233081.0	Mm.425422	NM_194057	ENSMUSG00000044453	Ffar1	Gpr40	free fatty acid receptor 1	protein-coding	3.0	3.5	2.5	29.5	26.5	18.5	9.5	12.0
Merged-chr2-124710325-4	chr2	124710205	124710405	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	56724.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	5.0	37.0	16.5	45.5	43.5	8.5	21.0	13.0
Merged-chr9-21368421-4	chr9	21368321	21368521	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277322)	promoter-TSS (NM_001277322)	-111.0	NM_001277322	16201.0	Mm.440026	NM_010561	ENSMUSG00000032178	Ilf3	MBII-26|MPHOSPH4|NF90|NFAR	interleukin enhancer binding factor 3	protein-coding	12.0	41.0	14.5	248.0	53.5	18.0	13.0	33.0
Merged-chr6-37442355-4	chr6	37442243	37442443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178661)	promoter-TSS (NM_178661)	-195.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	346.5	534.0	421.5	5333.0	947.0	391.0	390.5	327.5
Merged-chr10-62217447-4	chr10	62217344	62217544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197996, intron 1 of 7)	intron (NM_197996, intron 1 of 7)	13774.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	17.5	41.5	20.5	302.5	51.5	26.5	20.0	9.5
Merged-chr7-16892209-4	chr7	16892123	16892323	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010320, exon 1 of 4)	5' UTR (NM_010320, exon 1 of 4)	437.0	NM_010320	14709.0	Mm.103770	NM_010320	ENSMUSG00000063594	Gng8	G(y)8	guanine nucleotide binding protein (G protein), gamma 8	protein-coding	12.0	33.0	13.0	291.5	59.0	18.5	22.5	12.0
Merged-chr1-152511457-4	chr1	152511347	152511547	+	960.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177756)	TTS (NM_177756)	111580.0	NM_177756	269132.0	Mm.23782	NM_177756	ENSMUSG00000032649	Colgalt2	AI427652|D730024P12|Glt25d2	collagen beta(1-O)galactosyltransferase 2	protein-coding	22.5	67.0	30.5	267.0	36.0	27.5	9.5	21.0
Merged-chr14-76913998-3	chr14	76913872	76914072	+	748.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122645.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	5.0	8.0	9.0	194.5	7.5	0.5	6.5	7.5
Merged-chr17-6098067-4	chr17	6097951	6098151	+	664.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8779.0	NM_001103181	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	10.5	11.0	8.0	115.0	24.0	8.0	11.5	11.0
Merged-chr2-124609909-2	chr2	124609809	124610009	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172537)	promoter-TSS (NM_172537)	-387.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	32.0	87.0	81.5	880.5	117.0	32.0	70.5	61.0
Merged-chr3-146135102-4	chr3	146135012	146135212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134160, intron 8 of 11)	intron (NM_134160, intron 8 of 11)	13321.0	NM_134160	171166.0	Mm.114683	NM_134160	ENSMUSG00000036853	Mcoln3	6720490O21Rik|TRPML3|Va	mucolipin 3	protein-coding	38.5	37.0	44.5	782.5	125.5	30.5	31.0	26.0
Merged-chr2-127398266-4	chr2	127398162	127398362	+	967.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26937.0	NM_001081089	215456.0	Mm.440454	NM_001081089	ENSMUSG00000046338	Gpat2	A530057A03Rik|Gm116|xGPAT1	glycerol-3-phosphate acyltransferase 2, mitochondrial	protein-coding	22.5	12.0	20.0	208.5	57.0	17.5	16.5	37.5
Merged-chr17-48418435-4	chr17	48418334	48418534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009694)	TTS (NM_009694)	7984.0	NM_001357904	106821.0	Mm.203943	NM_207219	ENSMUSG00000040771	Oard1	AI314976|AW558560	O-acyl-ADP-ribose deacylase 1	protein-coding	45.0	50.0	48.0	626.5	104.0	21.5	39.0	42.0
Merged-chr17-81670261-6	chr17	81670104	81670304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	CpG	68183.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	19.5	19.5	7.5	138.5	29.0	10.0	17.5	5.0
Merged-chr6-54075665-4	chr6	54075576	54075776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	MLT1D|LTR|ERVL-MaLR	35744.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	36.0	55.0	41.5	789.0	152.5	71.0	91.0	62.5
Merged-chr4-154939128-4	chr4	154938973	154939173	+	737.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10996.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	6.0	7.0	4.5	30.5	11.0	4.5	2.0	10.5
Merged-chr7-34812907-4	chr7	34812784	34812984	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175140)	promoter-TSS (NM_175140)	-173.0	NM_175140	68947.0	Mm.29380	NM_175140	ENSMUSG00000060402	Chst8	1500011J21Rik|AI426009	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 8	protein-coding	1.0	17.0	21.5	232.5	74.0	30.0	19.5	9.5
Merged-chr4-154928995-4	chr4	154928885	154929085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178931)	promoter-TSS (NM_178931)	-908.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	34.0	54.0	20.5	308.5	121.0	26.5	37.5	37.0
Merged-chr2-180025440-3	chr2	180025323	180025523	+	857.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177727, intron 1 of 8)	CpG	436.0	NM_177727	241846.0	Mm.21577	NM_177727	ENSMUSG00000039108	Lsm14b	9430078B04|BC040823	LSM family member 14B	protein-coding	10.0	6.0	13.5	131.5	24.0	10.5	9.0	21.5
Merged-chr8-3711885-4	chr8	3711786	3711986	+	954.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8765.0	NM_029465	75863.0	Mm.109183	NM_029465	ENSMUSG00000074491	Clec4g	4930572L20Rik	C-type lectin domain family 4, member g	protein-coding	24.0	21.0	15.5	474.5	74.5	12.5	24.5	21.5
Merged-chr15-67785853-3	chr15	67785726	67785926	+	908.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	473030.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	6.0	11.0	8.5	101.5	22.5	8.5	5.5	2.5
Merged-chr17-27612187-4	chr17	27612092	27612292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019837, intron 1 of 4)	intron (NM_019837, intron 1 of 4)	10772.0	NM_001291046	56409.0	Mm.144699	NM_019837	ENSMUSG00000024213	Nudt3	1110011B09Rik|AA960325|Dipp|Dipp1	nudix (nucleotide diphosphate linked moiety X)-type motif 3	protein-coding	18.5	26.0	19.5	334.5	90.5	22.5	32.0	40.0
Merged-chr6-72153607-4	chr6	72153514	72153714	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011375, exon 7 of 7)	exon (NM_011375, exon 7 of 7)	-30417.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	35.5	25.5	26.0	724.0	45.0	22.0	19.0	14.0
Merged-chr5-32077355-4	chr5	32077275	32077475	+	752.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 11 of 11)	intron (NM_144541, intron 11 of 11)	-59097.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	11.5	18.5	12.5	261.5	26.0	3.5	10.0	16.5
Merged-chr11-11812174-4	chr11	11812067	11812267	+	930.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3205.0	NM_001163360	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	15.5	13.0	10.0	178.5	37.0	11.5	23.0	22.0
Merged-chr13-83609382-4	chr13	83609283	83609483	+	923.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347569, intron 3 of 10)	intron (NM_001347569, intron 3 of 10)	35776.0	NM_001347569	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	27.5	34.5	13.5	495.0	33.5	18.0	8.0	21.5
Merged-chr2-28540128-4	chr2	28540020	28540220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145836, intron 1 of 17)	intron (NM_001145836, intron 1 of 17)	6656.0	NM_001145836	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	228.5	398.5	264.5	3036.0	533.5	186.0	183.0	196.5
Merged-chr6-30693807-4	chr6	30693719	30693919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031998)	promoter-TSS (NM_031998)	-70.0	NR_130775	83922.0	Mm.65389	NM_031998	ENSMUSG00000029790	Cep41	1700017E11Rik|2810431D15Rik|Tsga14	centrosomal protein 41	protein-coding	63.0	77.5	48.5	648.5	147.5	72.5	53.0	74.5
Merged-chr4-135885912-4	chr4	135885802	135886002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9287.0	NM_009924	12802.0	Mm.297251	NM_009924	ENSMUSG00000062585	Cnr2	CB-2|CB2|CB2-R	cannabinoid receptor 2 (macrophage)	protein-coding	34.0	55.0	46.5	431.5	146.5	45.5	63.0	33.0
Merged-chr3-81041151-4	chr3	81041045	81041245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	Tigger15a|DNA|TcMar-Tigger	4729.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	36.0	84.0	63.0	823.0	70.0	22.0	30.0	34.0
Merged-chr7-12781147-2	chr7	12781047	12781247	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5489.0	NM_001017955	232875.0	Mm.333573	NM_001017955	ENSMUSG00000070822	Zscan18	EG232875	zinc finger and SCAN domain containing 18	protein-coding	6.0	10.0	6.0	69.5	16.0	3.0	6.0	4.5
Merged-chr6-82715806-4	chr6	82715701	82715901	+	851.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58653.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	7.0	12.0	5.5	102.5	28.5	3.0	10.0	15.0
Merged-chr3-103207257-2	chr3	103207157	103207357	+	720.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	35602.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	6.0	5.5	4.5	49.5	10.5	1.5	3.0	8.5
Merged-chr8-116974388-4	chr8	116974366	116974566	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027103, intron 1 of 2)	intron (NM_027103, intron 1 of 2)	4187.0	NM_001357254	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	10.5	23.0	23.5	200.5	13.5	7.5	19.5	17.0
Merged-chr9-122886902-4	chr9	122886816	122887016	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1555.0	NM_001177505	382118.0	Mm.86999	NM_001177505	ENSMUSG00000063488	Zkscan7	BC042569|Zfp167	zinc finger with KRAB and SCAN domains 7	protein-coding	18.0	20.5	10.0	221.0	37.0	21.5	28.0	21.0
Merged-chr2-30985433-4	chr2	30985339	30985539	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028846, intron 1 of 24)	intron (NM_028846, intron 1 of 24)	3160.0	NM_028846	74270.0	Mm.346654	NM_028846	ENSMUSG00000026854	Usp20	1700055M05Rik|AI467231|Vdu2	ubiquitin specific peptidase 20	protein-coding	10.0	15.0	6.0	97.0	17.5	7.0	2.5	15.0
Merged-chr7-114276677-4	chr7	114276597	114276797	+	928.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011965)	promoter-TSS (NM_011965)	-581.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	6.5	7.0	14.0	178.0	30.5	8.5	21.5	13.5
Merged-chr12-87374344-4	chr12	87374245	87374445	+	821.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011479, intron 1 of 11)	intron (NM_011479, intron 1 of 11)	14010.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	2.0	14.0	9.0	149.0	8.0	12.0	14.0	5.5
Merged-chr11-88046746-2	chr11	88046657	88046857	+	895.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173374)	promoter-TSS (NM_173374)	-616.0	NM_001078167	110809.0	Mm.391719	NM_173374	ENSMUSG00000018379	Srsf1	1110054N12Rik|5730507C05Rik|6330415C05Rik|AI482334|AW491331|Asf|Sf2|Sfrs1	serine/arginine-rich splicing factor 1	protein-coding	5.0	10.5	9.5	33.0	6.0	6.5	1.5	5.5
Merged-chr4-151051351-4	chr4	151051241	151051441	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009498, intron 2 of 4)	L1MB5|LINE|L1	6612.0	NM_009498	22319.0	Mm.273930	NM_009498	ENSMUSG00000028955	Vamp3	D130027G05Rik|VAMP-3|ceb	vesicle-associated membrane protein 3	protein-coding	11.5	6.0	10.5	234.5	25.0	10.0	16.0	14.0
Merged-chr10-81233111-4	chr10	81232979	81233179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034895)	promoter-TSS (NM_001034895)	-84.0	NM_001034895	103406.0	Mm.158783	NM_001034895	ENSMUSG00000034949	Zfr2	2010013I23Rik|9130206N08Rik|AW045600|mKIAA1086	zinc finger RNA binding protein 2	protein-coding	57.5	80.5	43.5	670.0	174.0	54.0	63.5	48.5
Merged-chr12-110992336-4	chr12	110992251	110992451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2047.0	NR_036598	77878.0	Mm.293198	NR_036598	ENSMUSG00000113056	6030440G07Rik	-	RIKEN cDNA 6030440G07 gene	ncRNA	36.5	92.5	80.5	629.0	73.5	43.0	43.5	60.0
Merged-chr3-14641638-4	chr3	14641547	14641747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024495)	promoter-TSS (NM_024495)	-80.0	NM_024495	71934.0	Mm.158776	NM_024495	ENSMUSG00000027555	Car13	2310075C21Rik|Ca13	carbonic anhydrase 13	protein-coding	204.0	407.5	209.5	2673.0	505.0	225.5	212.5	120.5
Merged-chr1-91413319-4	chr1	91413223	91413423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019479)	promoter-TSS (NM_019479)	-101.0	NM_001360899	55927.0	Mm.280029	NM_019479	ENSMUSG00000067071	Hes6	AI326893|bHLHb41	hairy and enhancer of split 6	protein-coding	162.0	247.5	182.0	3521.0	488.0	139.5	196.5	178.0
Merged-chr16-27435102-4	chr16	27434995	27435195	+	963.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025615, intron 5 of 9)	intron (NM_001025615, intron 5 of 9)	46139.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	20.0	14.5	22.5	411.5	37.0	13.0	23.0	19.0
Merged-chr5-122708154-2	chr5	122708057	122708257	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_001310718, intron 1 of 10)	intron (NM_001310718, intron 1 of 10)	613.0	NM_001310718	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	59.5	109.0	58.0	773.5	152.5	39.5	39.0	51.0
Merged-chr11-32534841-4	chr11	32534640	32534840	+	854.1750490000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	1474.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	8.5	14.5	15.0	152.0	33.0	8.0	10.5	15.5
Merged-chr13-81401965-4	chr13	81401873	81402073	+	838.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 77 of 89)	MTE2b|LTR|ERVL-MaLR	231171.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	11.5	19.0	15.0	436.5	34.0	12.0	34.5	13.5
Merged-chr8-119828285-2	chr8	119828185	119828385	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	(A)n|Simple_repeat|Simple_repeat	12294.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	8.5	9.5	6.5	73.0	14.0	4.0	4.0	2.5
Merged-chr13-63568033-4	chr13	63567916	63568116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001328514, intron 1 of 23)	CpG	-2281.0	NM_008957	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	90.0	145.5	115.0	1462.5	264.5	107.5	129.5	112.5
Merged-chr2-155692304-4	chr2	155692149	155692349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163452, exon 1 of 19)	exon (NM_001163452, exon 1 of 19)	135.0	NM_019828	56407.0	Mm.234944	NM_019828	ENSMUSG00000038324	Trpc4ap	4833429F06Rik|D2Ertd113e|Trrp4ap|mFLJ00177|truss	transient receptor potential cation channel, subfamily C, member 4 associated protein	protein-coding	55.5	80.5	94.0	521.5	113.5	47.0	45.0	63.0
Merged-chr16-90284554-4	chr16	90284439	90284639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178923)	promoter-TSS (NM_178923)	-36.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	166.5	269.5	192.5	2922.0	448.0	178.0	253.5	208.5
Merged-chr2-92484421-3	chr2	92484334	92484534	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23916.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	4.5	11.0	3.5	85.0	23.5	10.0	6.5	13.5
Merged-chr16-94239810-4	chr16	94239717	94239917	+	845.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	ORR1D2|LTR|ERVL-MaLR	50474.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	13.5	14.5	11.5	121.5	26.5	7.0	11.5	12.0
Merged-chr10-82797048-3	chr10	82797005	82797205	+	872.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15018.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	8.5	19.5	14.5	226.0	13.0	3.5	2.0	3.0
Merged-chr11-22370615-1	chr11	22370515	22370715	+	783.666687	f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-83820.0	NM_001252515	216565.0	Mm.491265	NM_153078	ENSMUSG00000042302	Ehbp1	AF424697|Flj21950|NACSIN	EH domain binding protein 1	protein-coding	0.0	2.0	0.0	6.5	16.0	11.0	10.0	11.5
Merged-chr10-22730977-2	chr10	22730877	22731077	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011603, intron 1 of 6)	CpG	470.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	26.5	21.5	17.5	221.0	42.0	12.5	16.0	19.0
Merged-chr4-86669462-4	chr4	86669370	86669570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007408, intron 1 of 7)	intron (NM_007408, intron 1 of 7)	589.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	135.5	234.0	174.0	1803.0	283.5	115.0	181.0	156.0
Merged-chr6-109940560-3	chr6	109940464	109940664	+	908.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-704948.0	NM_001346640	108073.0	Mm.240881	NM_177328	ENSMUSG00000056755	Grm7	6330570A01Rik|BB176677|C030018L03|E130018M02Rik|Gpr1g|Gprc1g|SMN2|Tg(SMN2)89Ahmb|mGluR7	glutamate receptor, metabotropic 7	protein-coding	7.0	9.5	10.0	213.5	35.5	7.0	9.0	8.5
Merged-chr1-151499868-3	chr1	151499763	151499963	+	923.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360844, intron 1 of 8)	intron (NM_001360844, intron 1 of 8)	1128.0	NM_001360845	19821.0	Mm.474038	NM_011277	ENSMUSG00000026484	Rnf2	AI326319|AI450156|AU019207|Ring1B|dinG	ring finger protein 2	protein-coding	17.5	47.5	10.5	133.0	24.0	9.5	2.5	5.5
Merged-chr16-14350944-4	chr16	14350840	14351040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-10618.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	114.5	156.5	138.0	1208.5	246.0	123.0	110.5	83.5
Merged-chr17-34239321-3	chr17	34239235	34239435	+	863.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010389, intron 1 of 5)	intron (NM_010389, intron 1 of 5)	430.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	4.5	4.5	1.0	27.5	28.0	9.0	6.0	8.5
Merged-chr11-73024657-4	chr11	73024552	73024752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018883, intron 1 of 15)	intron (NM_018883, intron 1 of 15)	5644.0	NM_018883	55984.0	Mm.9998	NM_018883	ENSMUSG00000020785	Camkk1	AI846603|CaMKKalpha|Camkk	calcium/calmodulin-dependent protein kinase kinase 1, alpha	protein-coding	143.0	169.0	139.0	2303.5	222.0	82.5	103.5	94.0
Merged-chr6-21985082-4	chr6	21984986	21985186	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081351)	promoter-TSS (NM_001081351)	-824.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	37.5	54.0	22.5	610.5	85.0	36.5	21.0	43.0
Merged-chr1-171380053-4	chr1	171379932	171380132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122680, intron 1 of 7)	intron (NM_001122680, intron 1 of 7)	-8928.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	82.5	150.0	78.5	886.0	136.0	58.5	66.0	58.0
Merged-chr18-70472055-2	chr18	70471948	70472148	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289649)	promoter-TSS (NM_001289649)	-406.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	7.0	13.0	10.0	165.0	37.5	17.0	16.0	23.0
Merged-chr2-170160341-4	chr2	170160240	170160440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17665.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	28.0	37.5	20.5	455.5	91.5	32.0	42.0	36.0
Merged-chr5-105110544-7	chr5	105110477	105110677	+	998.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153378)	promoter-TSS (NR_153378)	-285.0	NM_172777	236573.0	Mm.425261	NM_172777	ENSMUSG00000029298	Gbp9	-	guanylate-binding protein 9	protein-coding	24.5	48.5	20.0	129.0	78.0	36.5	17.0	19.0
Merged-chr3-27289029-4	chr3	27288968	27289168	+	907.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28009.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	9.5	13.5	22.5	264.5	33.0	7.0	5.0	6.0
Merged-chr11-69689228-4	chr11	69689123	69689323	+	794.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011614, intron 5 of 6)	intron (NM_011614, intron 5 of 6)	-3669.0	NM_023517	69583.0	Mm.8983	NM_023517	ENSMUSG00000089669	Tnfsf13	2310026N09Rik|April|Tall2|Tnlg7b|Trdl1	tumor necrosis factor (ligand) superfamily, member 13	protein-coding	12.0	7.0	5.0	75.5	15.0	4.0	12.5	10.0
Merged-chr8-83331811-3	chr8	83331771	83331971	+	724.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170691, intron 1 of 8)	intron (NM_001170691, intron 1 of 8)	615.0	NM_001170691	244548.0	Mm.38762	NM_178736	ENSMUSG00000035151	Elmod2	9830169G11Rik	ELMO/CED-12 domain containing 2	protein-coding	3.5	4.0	2.0	51.5	16.5	9.5	5.0	10.5
Merged-chr7-89236823-4	chr7	89236731	89236931	+	780.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 5 of 14)	intron (NM_001360746, intron 5 of 14)	101956.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	9.0	15.5	17.5	388.0	22.5	11.0	16.5	10.5
Merged-chr7-75702893-5	chr7	75702951	75703151	+	761.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 16 of 36)	MIRb|SINE|MIR	-145287.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	7.5	10.0	8.0	80.5	9.5	9.5	5.0	5.5
Merged-chr11-52003727-4	chr11	52003638	52003838	+	805.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153785)	promoter-TSS (NM_153785)	-483.0	NM_001166657	213084.0	Mm.280557	NM_153785	ENSMUSG00000020389	Cdkl3	AI852479|B230379H01Rik	cyclin-dependent kinase-like 3	protein-coding	15.0	18.0	6.0	63.5	29.5	9.5	9.5	13.0
Merged-chr13-65097240-4	chr13	65097148	65097348	+	909.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083901, intron 2 of 12)	ORR1D2-int|LTR|ERVL-MaLR	15734.0	NM_001083901	66631.0	Mm.239196	NM_133680	ENSMUSG00000038212	Mfsd14b	5730414C17Rik|AU045608|AW539692|Hiatl1	major facilitator superfamily domain containing 14B	protein-coding	10.5	32.0	13.0	84.0	38.5	18.0	18.5	11.0
Merged-chr16-35754108-4	chr16	35754007	35754207	+	622.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	intron (NM_153550, intron 1 of 8)	15249.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	4.0	12.5	7.5	153.5	20.5	7.5	12.5	7.0
Merged-chr10-94576096-4	chr10	94576005	94576205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177026)	promoter-TSS (NM_177026)	-158.0	NM_177026	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	287.5	389.0	336.0	4797.0	557.5	236.5	353.5	243.5
Merged-chr16-14317381-4	chr16	14317281	14317481	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025345)	promoter-TSS (NM_025345)	-49.0	NM_025345	66086.0	Mm.42072	NM_025345	ENSMUSG00000022677	Fopnl	0610037P05Rik	Fgfr1op N-terminal like	protein-coding	329.5	385.0	307.0	5165.5	633.5	275.0	349.5	243.5
Merged-chr15-66893390-4	chr15	66893296	66893496	+	937.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018865, intron 1 of 4)	intron (NM_018865, intron 1 of 4)	2003.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	23.5	17.5	18.0	275.5	36.5	12.5	25.5	19.0
Merged-chr3-90451027-3	chr3	90450955	90451155	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008727, exon 22 of 22)	3' UTR (NM_008727, exon 22 of 22)	14811.0	NM_008727	18160.0	Mm.4627	NM_008727	ENSMUSG00000027931	Npr1	AI893888|GC-A|NPR-A|NPRA|Pndr	natriuretic peptide receptor 1	protein-coding	12.0	8.0	9.0	76.5	2.0	4.5	5.0	7.0
Merged-chr1-82816191-4	chr1	82816076	82816276	+	932.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23284.0	NM_010472	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	14.5	4.5	7.0	231.5	32.0	7.5	7.5	16.0
Merged-chr4-70265401-1	chr4	70265301	70265501	+	761.0	f0_balb.idr	intron (NM_001313762, intron 21 of 33)	intron (NM_001313762, intron 21 of 33)	145034.0	NM_001313762	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	1.0	7.5	13.0	122.0	19.0	6.0	4.5	7.5
Merged-chr5-103752955-4	chr5	103752870	103753070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie1a|DNA|hAT-Charlie	-1192.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	114.5	220.5	95.0	745.0	337.5	117.5	79.5	52.0
Merged-chr14-55014601-2	chr14	55014481	55014681	+	858.833374	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_026890)	promoter-TSS (NM_026890)	-873.0	NM_026890	68966.0	Mm.21214	NM_026890	ENSMUSG00000022204	Ngdn	1500001L15Rik|Ngd|neuroguidin	neuroguidin, EIF4E binding protein	protein-coding	13.0	14.0	10.5	84.0	27.5	5.5	2.5	11.0
Merged-chr10-96625788-3	chr10	96625673	96625873	+	653.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8772.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	5.0	28.5	12.5	51.5	21.0	4.5	1.0	2.0
Merged-chr11-21729257-3	chr11	21729156	21729356	+	976.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145425, intron 12 of 17)	intron (NM_145425, intron 12 of 17)	156975.0	NM_145425	216560.0	Mm.138090	NM_145425	ENSMUSG00000020319	Wdpcp	AV249152	WD repeat containing planar cell polarity effector	protein-coding	6.5	17.0	21.5	327.5	8.0	4.0	7.5	13.0
Merged-chr17-20945665-1	chr17	20945565	20945765	+	1000.0	f0_c57.idr	intron (NM_016891, intron 1 of 14)	CpG	211.0	NM_016891	51792.0	Mm.294138	NM_016891	ENSMUSG00000007564	Ppp2r1a	6330556D22Rik|PP2A|PR65	protein phosphatase 2, regulatory subunit A, alpha	protein-coding	58.0	83.5	62.5	902.0	189.0	84.0	64.0	65.5
Merged-chr14-87044485-4	chr14	87044365	87044565	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019670, intron 4 of 27)	intron (NM_019670, intron 4 of 27)	96759.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	28.5	33.0	14.5	458.0	32.0	7.5	31.5	18.0
Merged-chr2-160250486-4	chr2	160250392	160250592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77002.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	23.0	35.0	38.0	746.5	75.5	26.0	51.0	39.5
Merged-chr11-107124626-4	chr11	107124527	107124727	+	926.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359590, intron 1 of 27)	intron (NM_001359590, intron 1 of 27)	7295.0	NM_176850	207165.0	Mm.343986	NM_176850	ENSMUSG00000040481	Bptf	9430093H17Rik|Falz	bromodomain PHD finger transcription factor	protein-coding	17.0	38.0	17.0	245.0	37.0	12.0	14.0	16.0
Merged-chr4-141535446-4	chr4	141535341	141535541	+	878.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347235, intron 1 of 14)	intron (NM_001347235, intron 1 of 14)	3156.0	NM_001347235	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	7.0	26.5	13.5	157.5	39.0	6.5	12.0	7.0
Merged-chr9-95857630-4	chr9	95857521	95857721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019864)	promoter-TSS (NM_019864)	24.0	NM_019864	245000.0	Mm.212462	NM_019864	ENSMUSG00000032409	Atr	-	ataxia telangiectasia and Rad3 related	protein-coding	104.5	181.0	99.0	1153.0	383.5	139.0	123.0	154.5
Merged-chr4-139579634-3	chr4	139579533	139579733	+	862.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001205173, intron 1 of 8)	intron (NM_001205173, intron 1 of 8)	4913.0	NM_001205173	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	11.0	8.5	5.0	108.0	41.0	12.0	21.5	21.5
Merged-chr11-62456889-4	chr11	62456745	62456945	+	827.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177229, intron 1 of 8)	CpG	487.0	NM_177229	20185.0	Mm.271814	NM_011308	ENSMUSG00000018501	Ncor1	5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047	nuclear receptor co-repressor 1	protein-coding	11.0	13.5	8.0	78.0	7.0	5.5	5.5	9.5
Merged-chr6-113308501-4	chr6	113308402	113308602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282128, intron 1 of 13)	intron (NM_001282128, intron 1 of 13)	1365.0	NM_001282126	78783.0	Mm.356059	NM_030178	ENSMUSG00000001632	Brpf1	4833438B11Rik|4930540D11Rik|Brpf2	bromodomain and PHD finger containing, 1	protein-coding	51.5	97.5	70.0	795.5	168.5	73.0	63.0	55.5
Merged-chr19-21274326-4	chr19	21274197	21274397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 1 of 5)	intron (NM_009551, intron 1 of 5)	2019.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	96.0	137.0	112.5	1891.0	235.5	80.5	160.0	93.0
Merged-chr16-36531784-4	chr16	36531687	36531887	+	912.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013803, intron 1 of 6)	intron (NM_013803, intron 1 of 6)	30347.0	NM_013803	12374.0	Mm.103619	NM_013803	ENSMUSG00000051980	Casr	CaR|Gprc2a	calcium-sensing receptor	protein-coding	15.0	15.0	10.5	268.0	37.5	4.0	15.0	11.5
Merged-chr18-38420276-4	chr18	38420177	38420377	+	955.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	1370.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	15.0	25.5	14.5	372.0	52.0	15.0	19.5	12.5
Merged-chr11-103957090-2	chr11	103956990	103957190	+	905.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-3034.0	NM_008740	18195.0	Mm.260117	NM_008740	ENSMUSG00000034187	Nsf	AI316878|AU020090|AU067812|SKD2	N-ethylmaleimide sensitive fusion protein	protein-coding	5.0	16.0	7.5	32.5	13.5	1.5	8.0	6.5
Merged-chr2-31084642-4	chr2	31084542	31084742	+	989.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 4 of 15)	intron (NM_001355105, intron 4 of 15)	11858.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	21.5	37.0	24.0	427.0	41.5	14.0	17.5	27.0
Merged-chr10-68715595-4	chr10	68715510	68715710	+	942.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8136.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	12.0	12.0	16.5	190.0	59.0	15.0	24.5	24.5
Merged-chr2-155357507-4	chr2	155357424	155357624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004721)	promoter-TSS (NM_001004721)	-100.0	NM_001004721	228812.0	Mm.5434	NM_001004721	ENSMUSG00000038383	Pigu	5430426F17Rik|BC028278|Cdc91l1	phosphatidylinositol glycan anchor biosynthesis, class U	protein-coding	87.0	171.0	58.0	1428.5	257.0	79.0	102.0	91.5
Merged-chr6-98575461-4	chr6	98575371	98575571	+	940.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-232717.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	15.0	18.0	5.5	162.0	57.0	13.0	18.5	34.0
Merged-chr15-4727092-4	chr15	4727005	4727205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016704)	promoter-TSS (NM_016704)	-105.0	NM_016704	12274.0	Mm.20247	NM_016704	ENSMUSG00000022181	C6	AW111623	complement component 6	protein-coding	69.5	62.0	53.5	1100.5	70.0	22.0	33.0	38.5
Merged-chr3-32737523-1	chr3	32737423	32737623	+	546.0	f0_balb.idr	promoter-TSS (NM_029017)	promoter-TSS (NM_029017)	460.0	NM_025316	66046.0	Mm.28058	NM_025316	ENSMUSG00000027673	Ndufb5	0610007D05Rik|AU015782|CI-SGDH|SGDH	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5	protein-coding	2.5	8.5	18.5	116.5	37.0	7.5	10.5	15.0
Merged-chr11-80301003-4	chr11	80300959	80301159	+	913.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_139228, exon 1 of 9)	5' UTR (NM_139228, exon 1 of 9)	147.0	NM_139228	246104.0	Mm.194148	NM_139228	ENSMUSG00000017692	Rhbdl3	AI847581|Rhbdl4|Rhomr1|Vrho	rhomboid like 3	protein-coding	7.0	16.5	10.5	135.0	29.5	6.0	11.5	10.0
Merged-chr1-59916083-2	chr1	59915983	59916183	+	893.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037725, intron 1 of 7)	intron (NM_001037725, intron 1 of 7)	3077.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	7.5	10.0	8.0	50.5	6.0	7.5	2.0	5.0
Merged-chr4-62696139-3	chr4	62696050	62696250	+	751.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 11 of 15)	intron (NM_134257, intron 11 of 15)	22176.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	8.0	18.0	8.5	128.5	13.5	4.0	9.0	5.5
Merged-chr12-72520756-4	chr12	72520642	72520842	+	743.145813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15615.0	NM_026327	67708.0	Mm.11233	NM_026327	ENSMUSG00000034501	Pcnx4	1810048J11Rik|4932413O10|AU017192|Pcnxl4	pecanex homolog 4	protein-coding	8.0	10.5	17.0	165.5	20.0	9.0	10.0	12.0
Merged-chr6-65589024-3	chr6	65588906	65589106	+	725.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1392.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	2.0	13.5	5.5	85.5	10.0	10.0	6.5	9.0
Merged-chr17-23771672-4	chr17	23771563	23771763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153791)	promoter-TSS (NM_153791)	-61.0	NM_001357994	224613.0	Mm.328835	NM_153791	ENSMUSG00000040097	Flywch1	E030034P13Rik|mKIAA1552	FLYWCH-type zinc finger 1	protein-coding	118.5	175.0	81.0	1341.0	284.5	115.0	135.5	104.0
Merged-chr4-43044057-4	chr4	43043949	43044149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045567, intron 1 of 7)	intron (NR_045567, intron 1 of 7)	2171.0	NR_045567	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	58.5	102.0	51.0	1277.0	163.0	45.5	63.0	56.5
Merged-chr2-30205820-4	chr2	30205741	30205941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356474)	promoter-TSS (NM_001356474)	6.0	NM_001356475	70266.0	Mm.216089	NM_172404	ENSMUSG00000039648	Kyat1	2010009K05Rik|AI182306|Ccbl1|Gtk|Kat1|KatI	kynurenine aminotransferase 1	protein-coding	101.0	161.5	98.0	1268.5	253.0	91.0	94.0	67.5
Merged-chr2-80025195-4	chr2	80025097	80025297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	13705.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	194.5	273.5	125.5	2194.5	535.5	187.5	120.0	158.5
Merged-chr12-40310091-3	chr12	40309987	40310187	+	973.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	86723.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	18.0	24.5	35.0	165.0	14.5	12.0	9.0	8.0
Merged-chr5-100441297-2	chr5	100441197	100441397	+	864.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_172714)	TTS (NM_172714)	-11762.0	NR_034038	100503199.0	Mm.392282	NR_034038	ENSMUSG00000097772	5430416N02Rik	100041797|Adapt33|Gm3514	RIKEN cDNA 5430416N02 gene	ncRNA	3.0	3.5	6.5	86.5	19.0	7.5	7.5	8.5
Merged-chr3-127769380-4	chr3	127769295	127769495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	11132.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	157.5	281.0	193.0	2785.0	364.5	145.0	167.5	151.0
Merged-chr15-80035054-4	chr15	80034962	80035162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20254.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	87.0	127.5	93.0	1410.5	202.5	73.0	80.5	51.0
Merged-chr7-49467993-4	chr7	49467938	49468138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 10 of 37)	intron (NM_175272, intron 10 of 37)	168797.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	149.5	173.0	150.5	1932.0	272.5	95.5	117.0	113.5
Merged-chr18-74207865-4	chr18	74207749	74207949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164355)	promoter-TSS (NM_001164355)	-31.0	NM_025581	66468.0	Mm.283406	NM_025581	ENSMUSG00000036223	Ska1	2810433K01Rik|AV117428	spindle and kinetochore associated complex subunit 1	protein-coding	79.5	143.0	76.0	1218.0	186.5	59.5	75.0	61.5
Merged-chr5-130222956-2	chr5	130222867	130223067	+	814.0	f0_balb.idr|f0_c57.idr	intron (NM_027854, intron 1 of 6)	B3A|SINE|B2	632.0	NM_027854	71667.0	Mm.258508	NM_027854	ENSMUSG00000053094	Tmem248	0610007L01Rik|A930023A16Rik|AW557951|G430067H08Rik	transmembrane protein 248	protein-coding	9.0	12.0	10.5	42.5	52.0	17.0	24.0	26.5
Merged-chr7-135735879-4	chr7	135735813	135736013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19534.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	39.0	57.0	52.5	450.5	124.0	57.5	50.0	60.5
Merged-chr10-49050176-4	chr10	49050068	49050268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	737769.0	NM_001358866	14806.0	Mm.185993	NM_010349	ENSMUSG00000056073	Grik2	AW124492|C130030K03Rik|GluK2|Glur-6|Glur6|Glurbeta2	glutamate receptor, ionotropic, kainate 2 (beta 2)	protein-coding	53.0	104.5	66.0	682.5	74.0	27.0	18.5	19.5
Merged-chr8-70605802-4	chr8	70605698	70605898	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133772, intron 1 of 16)	intron (NM_133772, intron 1 of 16)	2516.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	11.0	9.5	7.5	157.0	51.0	14.0	20.0	22.5
Merged-chr14-121445360-4	chr14	121445260	121445460	+	861.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59894.0	NM_053079	56643.0	Mm.155618	NM_053079	ENSMUSG00000025557	Slc15a1	D630032F02|PECT1|PEPT1	solute carrier family 15 (oligopeptide transporter), member 1	protein-coding	4.5	7.0	19.0	125.5	26.0	9.5	12.0	6.0
Merged-chr7-30552398-4	chr7	30552279	30552479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183321)	promoter-TSS (NM_183321)	-107.0	NM_183321	333193.0	Mm.34885	NM_183321	ENSMUSG00000036864	Proser3	-	proline and serine rich 3	protein-coding	206.0	269.5	156.0	3025.0	401.0	164.5	168.0	180.5
Merged-chr1-80661900-4	chr1	80661857	80662057	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	3395.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	12.5	22.5	9.0	135.5	17.0	5.5	8.5	6.5
Merged-chr17-27615571-4	chr17	27615461	27615661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019837, intron 1 of 4)	L2|LINE|L2	7403.0	NM_001291046	56409.0	Mm.144699	NM_019837	ENSMUSG00000024213	Nudt3	1110011B09Rik|AA960325|Dipp|Dipp1	nudix (nucleotide diphosphate linked moiety X)-type motif 3	protein-coding	46.0	58.0	38.5	721.0	48.0	15.0	30.0	28.5
Merged-chr9-69453837-8	chr9	69453712	69453912	+	834.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007585, intron 1 of 12)	CpG	129.0	NM_007585	12306.0	Mm.238343	NM_007585	ENSMUSG00000032231	Anxa2	AW215814|Cal1h	annexin A2	protein-coding	8.5	11.5	13.0	94.5	15.5	10.5	4.0	5.5
Merged-chr9-66978100-3	chr9	66978007	66978207	+	819.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-2623.0	NM_030717	80907.0	Mm.157882	NM_030717	ENSMUSG00000032370	Lactb	LACT-1|Lact1|Mrpl56	lactamase, beta	protein-coding	9.0	9.0	7.0	82.0	22.5	7.5	4.0	13.5
Merged-chr5-66369174-2	chr5	66369074	66369274	+	861.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310626, intron 8 of 15)	intron (NM_001310626, intron 8 of 15)	-31509.0	NM_001201416	11787.0	Mm.5159	NM_009686	ENSMUSG00000029207	Apbb2	2310007D03Rik|FE65L1|Rirl1|TR2L|Zfra	amyloid beta (A4) precursor protein-binding, family B, member 2	protein-coding	6.0	4.0	3.0	62.0	13.5	9.0	15.5	11.5
Merged-chr18-73763096-2	chr18	73762996	73763196	+	619.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-8617.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	3.5	10.5	6.0	9.5	10.0	6.0	6.5	7.5
Merged-chr8-90834201-4	chr8	90834183	90834383	+	945.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 1 of 39)	intron (NM_177224, intron 1 of 39)	5448.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	12.5	19.0	6.0	146.5	29.5	8.5	11.0	14.0
Merged-chr18-4346456-4	chr18	4346371	4346571	+	816.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 2 of 7)	intron (NM_007746, intron 2 of 7)	6482.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	12.5	2.0	9.5	64.0	7.5	7.0	5.0	5.0
Merged-chr7-30559722-4	chr7	30559618	30559818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290569)	promoter-TSS (NM_001290569)	-72.0	NM_001290569	75660.0	Mm.379242	NM_029377	ENSMUSG00000036845	Lin37	1810054G18Rik	lin-37 homolog (C. elegans)	protein-coding	178.0	282.0	174.0	3565.0	445.0	161.0	209.5	205.0
Merged-chr9-103336696-4	chr9	103336578	103336778	+	928.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176979, intron 19 of 27)	Tigger1|DNA|TcMar-Tigger	28301.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	11.5	13.5	18.0	483.5	29.5	14.0	21.0	19.0
Merged-chr11-120727313-4	chr11	120727175	120727375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347608)	promoter-TSS (NM_001347608)	6.0	NM_026428	67880.0	Mm.231091	NM_026428	ENSMUSG00000039450	Dcxr	0610038K04Rik|1810027P18Rik|XR	dicarbonyl L-xylulose reductase	protein-coding	146.0	170.0	115.0	1901.5	253.0	104.0	116.5	117.0
Merged-chr7-45708367-4	chr7	45708290	45708490	+	936.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016974, exon 3 of 4)	exon (NM_016974, exon 3 of 4)	3143.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	9.0	11.0	8.5	200.5	38.0	13.5	18.5	15.5
Merged-chr10-18023014-4	chr10	18022912	18023112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359560)	promoter-TSS (NM_001359560)	78.0	NM_001359560	73112.0	Mm.276041	NM_028440	ENSMUSG00000078453	Abracl	1700028I04Rik|3110003A17Rik	ABRA C-terminal like	protein-coding	121.0	181.5	199.0	1453.0	218.5	143.0	99.5	127.0
Merged-chr4-72195333-4	chr4	72195236	72195436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285530, intron 4 of 17)	intron (NM_001285530, intron 4 of 17)	5557.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	65.5	89.5	83.5	1408.0	90.0	28.5	52.0	29.0
Merged-chr4-138068314-3	chr4	138068126	138068326	+	999.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256195, intron 4 of 34)	intron (NM_001256195, intron 4 of 34)	70292.0	NR_126429	73563.0	Mm.444294	NR_126429	ENSMUSG00000084804	1700095J12Rik	-	RIKEN cDNA 1700095J12 gene	ncRNA	4.0	6.5	2.0	17.0	32.5	27.5	29.0	18.5
Merged-chr8-105305791-5	chr8	105305714	105305914	+	834.200012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_148952)	TTS (NM_148952)	213.0	NM_172760	234683.0	Mm.237966	NM_172760	ENSMUSG00000014791	Elmo3	9930107J06|BC058752|CED-12|Ced12	engulfment and cell motility 3	protein-coding	10.5	3.0	5.0	51.5	24.0	6.5	10.0	7.5
Merged-chr2-150311424-4	chr2	150311309	150311509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027017, intron 3 of 3)	intron (NM_027017, intron 3 of 3)	51356.0	NM_027017	69277.0	Mm.272470	NM_027017	ENSMUSG00000063364	3300002I08Rik	2900016H11Rik	RIKEN cDNA 3300002I08 gene	protein-coding	142.5	155.5	123.5	2121.5	334.0	146.0	215.5	179.0
Merged-chr7-4922797-4	chr7	4922681	4922881	+	937.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358882)	promoter-TSS (NM_001358882)	-99.0	NM_001358882	269854.0	Mm.42652	NM_201355	ENSMUSG00000035285	Nat14	BC047219	N-acetyltransferase 14	protein-coding	8.5	11.0	5.5	218.5	45.5	18.5	17.0	21.0
Merged-chr4-109257792-4	chr4	109257685	109257885	+	972.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22153.0	NM_001033226	108802.0	Mm.318248	NM_001033226	ENSMUSG00000028558	Calr4	4933403L16Rik|AU017583	calreticulin 4	protein-coding	20.5	37.0	23.0	534.0	35.5	19.0	26.0	39.0
Merged-chr2-70742775-4	chr2	70742662	70742862	+	636.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172664, intron 10 of 19)	L2b|LINE|L2	81253.0	NM_027352	70231.0	Mm.271950	NM_027352	ENSMUSG00000014959	Gorasp2	0610011A07Rik|2410043M02Rik|5730520M13Rik|9430094F20Rik|AW552058|GOLPH2|GRASP55|GRS2|p59	golgi reassembly stacking protein 2	protein-coding	10.0	8.0	9.0	198.0	24.5	4.5	6.0	10.0
Merged-chr11-94385848-2	chr11	94385748	94385948	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029600, intron 1 of 30)	intron (NM_029600, intron 1 of 30)	7128.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	5.0	3.0	8.0	58.0	13.0	5.5	6.0	8.0
Merged-chr3-129948609-4	chr3	129948517	129948717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025779, intron 1 of 7)	intron (NM_025779, intron 1 of 7)	21589.0	NM_025779	66815.0	Mm.31056	NM_025779	ENSMUSG00000027994	Mcub	9030408N13Rik|Ccdc109b	mitochondrial calcium uniporter dominant negative beta subunit	protein-coding	28.5	66.5	28.5	833.5	67.0	24.0	29.5	34.0
Merged-chr16-92861818-4	chr16	92861712	92861912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-35738.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	68.0	132.0	86.0	1418.0	201.5	98.5	98.0	102.0
Merged-chr16-90426329-4	chr16	90426215	90426415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 1 of 10)	intron (NM_015755, intron 1 of 10)	39918.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	54.5	37.5	49.5	749.0	99.0	38.0	33.5	46.0
Merged-chr18-53262031-2	chr18	53261931	53262131	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	C-rich|Low_complexity|Low_complexity	16369.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	7.0	5.0	5.5	46.0	11.0	4.5	5.5	8.5
Merged-chr6-71444948-4	chr6	71444848	71445048	+	955.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-4311.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	14.5	37.0	12.0	263.0	42.0	7.5	16.5	20.0
Merged-chr4-118437925-2	chr4	118437827	118438027	+	684.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023223)	promoter-TSS (NM_023223)	-584.0	NM_023223	107995.0	Mm.261764	NM_023223	ENSMUSG00000006398	Cdc20	2310042N09Rik|C87100|p55CDC	cell division cycle 20	protein-coding	6.0	9.5	6.5	37.0	13.0	0.5	3.5	10.0
Merged-chr3-30855138-1	chr3	30855038	30855238	+	658.5	f0_balb.idr	promoter-TSS (NM_001134386)	promoter-TSS (NM_001134386)	-812.0	NM_001134386	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	4.0	13.5	6.5	127.5	9.0	9.0	4.5	11.0
Merged-chr11-103979611-4	chr11	103979521	103979721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007477, intron 3 of 4)	intron (NM_007477, intron 3 of 4)	12750.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	57.0	141.5	74.5	873.5	163.0	56.0	57.5	54.0
Merged-chr9-119322841-4	chr9	119322772	119322972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045693)	promoter-TSS (NR_045693)	-445.0	NM_133985	108737.0	Mm.293565	NM_133985	ENSMUSG00000036737	Oxsr1	2210022N24Rik|2810422B09Rik|AI462649|AW209236|Osr1|mKIAA1101	oxidative-stress responsive 1	protein-coding	254.0	426.0	227.0	3113.0	779.0	336.0	365.0	304.5
Merged-chr18-36493706-3	chr18	36493614	36493814	+	899.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22091.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	7.5	13.0	5.0	201.0	16.0	4.5	4.5	2.0
Merged-chr16-4608015-4	chr16	4607927	4608127	+	863.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031184, intron 1 of 6)	intron (NM_031184, intron 1 of 6)	13314.0	NM_031184	83396.0	Mm.134072	NM_031184	ENSMUSG00000014303	Glis2	Gli5|Klf16|Nkl	GLIS family zinc finger 2	protein-coding	10.5	17.0	7.0	129.5	37.0	16.5	7.0	7.0
Merged-chr5-139437694-3	chr5	139437601	139437801	+	870.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 2 of 4)	intron (NM_028469, intron 2 of 4)	14522.0	NM_029771	76854.0	Mm.389706	NM_029771	ENSMUSG00000053647	Gper1	6330420K13Rik|CMKRL2|Ceprl|FEG-1|GPCR-Br|Gper|Gpr30	G protein-coupled estrogen receptor 1	protein-coding	5.0	5.0	7.0	111.5	6.5	0.0	4.0	8.5
Merged-chr7-125473979-1	chr7	125473879	125474079	+	989.0	f1_c57bl6.idr	intron (NM_001360659, intron 2 of 7)	intron (NM_001360659, intron 2 of 7)	17563.0	NM_001360659	67711.0	Mm.4467	NM_026330	ENSMUSG00000030750	Nsmce1	2510027N19Rik	NSE1 homolog, SMC5-SMC6 complex component	protein-coding	4.0	3.0	3.5	30.5	26.5	9.5	6.0	10.5
Merged-chr14-57797582-4	chr14	57797464	57797664	+	864.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142441)	promoter-TSS (NM_001142441)	-625.0	NM_009119	20220.0	Mm.30173	NM_009119	ENSMUSG00000021963	Sap18	C530046K05Rik|D11Ertd539e|EMegR4|Sap18a|Sinbp1	Sin3-associated polypeptide 18	protein-coding	10.0	13.5	15.5	85.0	43.0	18.0	11.5	9.5
Merged-chr11-51606080-4	chr11	51605973	51606173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048061, intron 2 of 7)	CpG	808.0	NM_001048061	15384.0	Mm.256875	NM_010448	ENSMUSG00000020358	Hnrnpab	3010025C11Rik|CBF-A|Cgbfa|Hnrpab	heterogeneous nuclear ribonucleoprotein A/B	protein-coding	80.5	191.5	119.5	1257.0	312.5	106.0	106.0	122.5
Merged-chr5-122536181-3	chr5	122536144	122536344	+	907.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34019.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	8.0	4.5	7.0	50.5	15.5	2.0	3.5	3.0
Merged-chr15-30468439-2	chr15	30468342	30468542	+	862.5	f0_balb.idr|f0_c57.idr	intron (NM_001355502, intron 2 of 21)	intron (NM_001355502, intron 2 of 21)	295849.0	NM_008729	18163.0	Mm.321648	NM_008729	ENSMUSG00000022240	Ctnnd2	Catnd2|Nprap|neurojugin	catenin (cadherin associated protein), delta 2	protein-coding	11.5	11.0	9.5	162.5	31.5	14.5	16.0	11.5
Merged-chr11-103172318-4	chr11	103172227	103172427	+	739.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019679, intron 1 of 26)	intron (NM_019679, intron 1 of 26)	1189.0	NM_019679	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	4.5	18.0	1.5	86.5	24.5	6.5	11.0	8.5
Merged-chr4-117210912-2	chr4	117210812	117211012	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	U5|snRNA|snRNA	-28288.0	NM_134471	73804.0	Mm.247651	NM_134471	ENSMUSG00000028678	Kif2c	4930402F02Rik|ESTM5|Knsl6|MCAK|X83316	kinesin family member 2C	protein-coding	5.0	10.5	7.5	60.5	17.0	7.5	6.5	7.0
Merged-chr12-3871079-4	chr12	3870959	3871159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 4 of 22)	intron (NM_007872, intron 4 of 22)	-8815.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	44.0	68.5	67.5	973.0	160.0	37.5	24.0	48.0
Merged-chr10-75837489-4	chr10	75837383	75837583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2602.0	NM_010361	14872.0	Mm.24118	NM_010361	ENSMUSG00000033318	Gstt2	AI266894|Yrs|mGSTT2	glutathione S-transferase, theta 2	protein-coding	227.5	367.5	217.0	3154.5	565.0	221.5	243.5	173.0
Merged-chr14-103046946-4	chr14	103046867	103047067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008392)	promoter-TSS (NM_008392)	-45.0	NM_008392	16365.0	Mm.4662	NM_008392	ENSMUSG00000022126	Acod1	AI323667|CAD|Irg1	aconitate decarboxylase 1	protein-coding	51.0	136.5	34.5	424.5	331.5	133.0	80.5	90.0
Merged-chr13-54207249-4	chr13	54207140	54207340	+	960.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 1 of 3)	intron (NR_153432, intron 1 of 3)	15107.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	18.5	42.5	28.0	94.0	72.5	18.0	15.5	12.0
Merged-chr3-88292176-4	chr3	88292079	88292279	+	840.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357024, intron 2 of 3)	B2_Mm2|SINE|B2	4659.0	NM_029801	76927.0	Mm.273330	NM_029801	ENSMUSG00000010538	Tsacc	1700021C14Rik|SIP	TSSK6 activating co-chaperone	protein-coding	12.0	17.0	5.5	59.5	42.5	13.5	18.5	15.0
Merged-chr5-68048932-4	chr5	68048831	68049031	+	831.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001018019, intron 1 of 3)	intron (NM_001018019, intron 1 of 3)	17096.0	NM_001018019	433899.0	Mm.332422	NM_001018019	ENSMUSG00000068082	Grxcr1	Tg(Eno2-Gabrb3)0370Brll|pi|tde	glutaredoxin, cysteine rich 1	protein-coding	4.5	8.0	6.5	111.0	47.0	10.0	12.0	12.5
Merged-chr13-59840947-4	chr13	59840829	59841029	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17782.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	29.5	35.5	15.0	306.5	59.0	22.5	28.0	22.5
Merged-chr3-98032388-4	chr3	98032277	98032477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	18839.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	52.5	76.0	44.5	795.0	130.5	37.5	40.0	39.0
Merged-chr7-49759173-4	chr7	49759102	49759302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146052)	promoter-TSS (NM_001146052)	96.0	NM_001146049	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	39.0	35.5	43.5	679.5	61.5	16.5	39.5	25.5
Merged-chr10-86779742-4	chr10	86779677	86779877	+	991.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175331, intron 1 of 13)	intron (NM_175331, intron 1 of 13)	772.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	23.0	21.0	32.0	322.0	25.5	19.5	25.5	25.0
Merged-chr9-58552252-4	chr9	58552142	58552342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11302.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	31.0	80.5	30.5	495.5	116.0	38.0	49.5	23.0
Merged-chr12-3808440-4	chr12	3808413	3808613	+	858.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	1353.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	2.0	16.5	14.0	85.0	7.0	10.5	7.0	12.5
Merged-chr3-60541260-4	chr3	60541151	60541351	+	925.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	40072.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	16.0	25.5	6.0	138.0	29.5	12.0	12.0	11.5
Merged-chr2-60884203-4	chr2	60884112	60884312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	MLT1M|LTR|ERVL-MaLR	-2774.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	68.0	96.0	40.0	803.0	174.5	61.5	86.0	71.5
Merged-chr19-42795135-4	chr19	42795028	42795228	+	913.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081257, intron 11 of 11)	intron (NM_001081257, intron 11 of 11)	-15150.0	NM_019424	192236.0	Mm.218381	NM_019424	ENSMUSG00000025188	Hps1	6030422N11Rik|BB405864|Gm21361|Hps|ep	HPS1, biogenesis of lysosomal organelles complex 3 subunit 1	protein-coding	19.0	12.0	10.0	147.5	44.0	17.0	14.5	14.0
Merged-chr5-53594161-4	chr5	53594055	53594255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359152, intron 1 of 9)	intron (NM_001359152, intron 1 of 9)	3669.0	NM_001080927	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	61.5	92.0	48.5	702.5	177.5	52.0	66.0	61.5
Merged-chr3-116583288-4	chr3	116583178	116583378	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175413)	TTS (NM_175413)	11609.0	NR_152258	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	4.0	6.5	9.0	146.0	52.5	6.5	20.0	12.0
Merged-chr6-86398216-2	chr6	86398116	86398316	+	959.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1066.0	NM_025823	66881.0	Mm.30849	NM_025823	ENSMUSG00000029998	Pcyox1	1200015P13Rik|AI115532|AI448340|PCL1|Pcly	prenylcysteine oxidase 1	protein-coding	6.5	11.5	11.5	54.5	19.0	8.0	3.5	7.5
Merged-chr11-98036162-4	chr11	98036091	98036291	+	749.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_146028)	TTS (NM_146028)	9267.0	NM_009078	19921.0	Mm.10247	NM_009078	ENSMUSG00000017404	Rpl19	-	ribosomal protein L19	protein-coding	9.0	6.0	7.5	136.5	29.0	14.5	8.5	6.5
Merged-chr8-117673690-4	chr8	117673584	117673784	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357272)	promoter-TSS (NM_001357272)	5.0	NM_001357273	74032.0	Mm.296302	NM_028725	ENSMUSG00000034308	Sdr42e1	4632417N05Rik|AI117603	short chain dehydrogenase/reductase family 42E, member 1	protein-coding	19.5	16.0	10.5	254.5	31.0	12.5	14.5	27.5
Merged-chr13-95881592-2	chr13	95881499	95881699	+	679.666626	f0_balb.idr|f1_balb.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	10323.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	8.5	12.0	8.0	139.0	2.0	0.0	1.0	0.5
Merged-chr16-93683777-3	chr16	93683665	93683865	+	805.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173047, intron 1 of 2)	CpG	546.0	NM_173047	109857.0	Mm.4512	NM_173047	ENSMUSG00000022947	Cbr3	1110001J05Rik|C81353	carbonyl reductase 3	protein-coding	15.0	23.0	4.5	95.0	21.5	11.5	5.0	6.5
Merged-chr3-60527102-4	chr3	60527004	60527204	+	977.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	MIRc|SINE|MIR	25925.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	31.5	43.5	20.5	570.0	82.0	14.0	40.0	57.0
Merged-chr13-111490473-1	chr13	111490373	111490573	+	1000.0	f0_c57.idr	promoter-TSS (NM_001122963)	promoter-TSS (NM_001122963)	-346.0	NM_001361924	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	131.5	224.0	221.5	1910.5	311.5	183.0	124.0	185.0
Merged-chr13-101760462-4	chr13	101760366	101760566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 1 of 15)	intron (NM_001077495, intron 1 of 15)	7751.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	36.0	45.5	28.0	468.0	75.0	23.5	21.5	26.5
Merged-chr9-58276220-6	chr9	58276137	58276337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	23073.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	6.5	7.0	6.5	20.0	16.0	5.0	6.5	5.5
Merged-chr2-32287565-2	chr2	32287465	32287665	+	722.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133852)	promoter-TSS (NM_133852)	504.0	NR_110965	72931.0	Mm.27344	NM_175190	ENSMUSG00000044627	Swi5	1500019F05Rik|2900010J23Rik|AI046671	SWI5 recombination repair homolog (yeast)	protein-coding	7.0	8.5	12.0	20.5	9.5	3.0	3.0	11.5
Merged-chr16-94713904-4	chr16	94713796	94713996	+	873.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102477.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	15.0	30.5	18.5	150.5	17.0	9.0	13.5	14.0
Merged-chr6-91509551-4	chr6	91509469	91509669	+	897.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009531, intron 2 of 15)	intron (NM_009531, intron 2 of 15)	6319.0	NM_009531	22591.0	Mm.2806	NM_009531	ENSMUSG00000030094	Xpc	-	xeroderma pigmentosum, complementation group C	protein-coding	10.0	20.5	21.5	140.0	40.5	9.5	21.0	13.5
Merged-chr4-16013906-4	chr4	16013805	16014005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145950)	promoter-TSS (NM_145950)	-17.0	NM_145950	209212.0	Mm.46455	NM_145950	ENSMUSG00000041153	Osgin2	BC010311|C230027H09Rik	oxidative stress induced growth inhibitor family member 2	protein-coding	246.0	319.0	238.0	4514.0	517.5	224.5	293.0	200.5
Merged-chr8-39427465-2	chr8	39427362	39427562	+	882.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	129482.0	NR_044988	621335.0	Mm.208080	NR_044988	ENSMUSG00000109827	Gm6213	EG621335	predicted gene 6213	ncRNA	31.5	25.0	17.0	416.5	0.0	4.0	0.0	0.0
Merged-chr10-96934904-3	chr10	96934814	96935014	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-100854.0	NR_045358	75301.0	Mm.108650	NR_045358	ENSMUSG00000111924	4930556N09Rik	-	RIKEN cDNA 4930556N09 gene	ncRNA	10.5	8.5	2.0	104.0	20.5	7.5	7.5	4.5
Merged-chr5-122644393-4	chr5	122644330	122644530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038845, intron 1 of 12)	intron (NM_001038845, intron 1 of 12)	519.0	NM_001038887	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	33.0	44.5	42.5	446.5	55.5	19.5	22.0	20.0
Merged-chr7-118741841-3	chr7	118741737	118741937	+	692.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 1 of 30)	intron (NM_027815, intron 1 of 30)	1566.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	5.0	2.0	3.0	35.0	19.5	5.0	7.0	19.5
Merged-chr9-59542726-4	chr9	59542642	59542842	+	883.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	3202.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	7.0	7.5	10.0	157.5	38.0	8.5	12.0	18.0
Merged-chr7-30953575-4	chr7	30953488	30953688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011680, intron 7 of 9)	intron (NM_011680, intron 7 of 9)	3215.0	NM_011680	22282.0	Mm.322453	NM_011680	ENSMUSG00000058239	Usf2	Usf-2|bHLHb12	upstream transcription factor 2	protein-coding	188.0	244.0	163.0	2282.0	393.5	140.0	158.0	114.5
Merged-chr16-91478320-4	chr16	91478226	91478426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-6889.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	35.5	61.0	49.0	426.0	85.0	23.0	58.0	42.5
Merged-chr10-37141796-4	chr10	37141696	37141896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-2870.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	53.5	41.5	22.5	740.5	74.5	33.0	37.0	25.5
Merged-chr17-22361496-6	chr17	22361349	22361549	+	996.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176962)	promoter-TSS (NM_176962)	-4.0	NM_001347330	224598.0	Mm.390945	NM_145484	ENSMUSG00000044501	Zfp758	BC021442	zinc finger protein 758	protein-coding	19.5	39.5	33.0	220.5	67.0	52.0	41.0	58.5
Merged-chr10-82795508-4	chr10	82795406	82795606	+	945.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16617.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	29.0	26.5	54.5	531.0	28.5	13.0	23.5	21.5
Merged-chr17-53479836-1	chr17	53479736	53479936	+	1000.0	f0_balb.idr	intron (NM_025887, intron 1 of 5)	CpG	602.0	NM_025887	271457.0	Mm.329123	NM_025887	ENSMUSG00000017831	Rab5a	2410015H04Rik|AI663973|AU021172|nnyRab5a	RAB5A, member RAS oncogene family	protein-coding	27.0	71.0	62.0	592.0	87.5	44.5	43.5	63.5
Merged-chr11-115291073-3	chr11	115290945	115291145	+	627.233337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178035, intron 2 of 5)	intron (NM_178035, intron 2 of 5)	6501.0	NM_178035	328035.0	Mm.21995	NM_178035	ENSMUSG00000044788	Fads6	BC044804	fatty acid desaturase domain family, member 6	protein-coding	6.0	3.0	2.5	71.0	5.0	5.0	8.0	6.5
Merged-chr1-13980470-4	chr1	13980371	13980571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-193542.0	NR_004447	433273.0	Mm.304088	NR_004447	ENSMUSG00000097711	Gm5523	EG433273	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	51.5	27.5	39.5	685.5	125.5	30.0	42.0	49.5
Merged-chr14-118706335-4	chr14	118706225	118706425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033336)	promoter-TSS (NM_001033336)	-106.0	NM_001033336	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	103.0	130.5	147.0	1638.5	131.5	77.0	70.0	82.0
Merged-chr2-133444934-4	chr2	133444830	133445030	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107229.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	19.0	16.5	30.5	447.5	27.5	5.0	14.0	16.0
Merged-chr10-25200173-4	chr10	25200079	25200279	+	790.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347460)	promoter-TSS (NM_001347460)	-9.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	13.0	17.0	16.5	222.5	21.0	11.5	14.5	7.0
Merged-chr8-40851141-3	chr8	40851033	40851233	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11234.0	NM_007514	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	0.5	4.5	5.0	76.5	130.0	46.0	54.5	42.0
Merged-chr11-46454868-4	chr11	46454762	46454962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134250)	promoter-TSS (NM_134250)	-69.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	55.5	111.0	129.5	1182.5	86.5	48.0	48.0	55.0
Merged-chr6-113625290-3	chr6	113625192	113625392	+	834.972229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009507, intron 1 of 2)	B1_Mm|SINE|Alu	1271.0	NM_009507	22346.0	Mm.29407	NM_009507	ENSMUSG00000033933	Vhl	Vhlh	von Hippel-Lindau tumor suppressor	protein-coding	9.0	18.0	7.5	119.0	11.0	6.5	10.0	9.0
Merged-chr1-171474443-3	chr1	171474315	171474515	+	650.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-29063.0	NM_019484	56009.0	Mm.389208	NM_019484	ENSMUSG00000060244	Alyref2	C130042O11Rik|REF2|Refbp2	Aly/REF export factor 2	protein-coding	8.0	10.0	12.5	105.5	5.0	1.0	0.0	6.0
Merged-chr1-128707922-4	chr1	128707835	128708035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115636.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	38.5	45.5	44.5	1226.0	71.5	19.5	29.0	24.0
Merged-chr18-35703118-4	chr18	35703025	35703225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029669)	promoter-TSS (NM_029669)	19.0	NM_029669	76594.0	Mm.108596	NM_029669	ENSMUSG00000024350	Dnajc18	2700075B01Rik|AU041129	DnaJ heat shock protein family (Hsp40) member C18	protein-coding	40.5	43.0	24.0	626.0	77.0	37.0	49.0	34.0
Merged-chr10-117747148-3	chr10	117747058	117747258	+	864.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029875)	promoter-TSS (NM_029875)	-800.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	4.5	6.5	6.5	55.5	23.5	9.0	4.5	10.0
Merged-chr9-114925730-3	chr9	114925636	114925836	+	621.916687	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_175380, intron 1 of 7)	intron (NM_175380, intron 1 of 7)	8251.0	NM_175380	333433.0	Mm.38198	NM_175380	ENSMUSG00000050627	Gpd1l	2210409H23Rik|D9Ertd660e	glycerol-3-phosphate dehydrogenase 1-like	protein-coding	7.0	0.5	4.5	169.5	24.5	8.0	11.0	20.0
Merged-chr15-101259333-4	chr15	101259221	101259421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-7525.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	65.5	92.0	73.5	426.5	165.0	36.5	71.5	75.0
Merged-chr7-45801575-4	chr7	45801483	45801683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005511, intron 15 of 15)	intron (NM_001005511, intron 15 of 15)	12733.0	NM_011181	19158.0	Mm.272130	NM_011181	ENSMUSG00000003269	Cyth2	ARNO|CLM2|Pscd2	cytohesin 2	protein-coding	33.5	51.0	27.0	380.5	92.0	33.5	30.0	42.5
Merged-chr16-38404387-3	chr16	38404278	38404478	+	807.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134102, intron 8 of 10)	intron (NM_134102, intron 8 of 10)	28767.0	NM_134102	85031.0	Mm.279805	NM_134102	ENSMUSG00000002847	Pla1a	AA986889|Ps-pla1|Pspla1	phospholipase A1 member A	protein-coding	1.0	10.5	4.0	104.0	22.5	6.0	5.5	8.0
Merged-chr3-104523784-4	chr3	104523667	104523867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11849.0	NM_001310698	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	44.5	43.0	64.0	992.5	58.0	16.5	32.0	30.0
Merged-chr11-23272219-4	chr11	23272118	23272318	+	883.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035226, intron 5 of 25)	B2_Mm1t|SINE|B2	16177.0	NM_134014	103573.0	Mm.217547	NM_134014	ENSMUSG00000020290	Xpo1	AA420417|Crm1|Exp1	exportin 1	protein-coding	9.0	7.0	12.5	188.0	23.0	7.5	5.5	13.0
Merged-chr1-93342857-4	chr1	93342770	93342970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023200)	promoter-TSS (NM_023200)	-82.0	NM_080850	269224.0	Mm.379454	NM_080850	ENSMUSG00000026274	Pask	mKIAA0135	PAS domain containing serine/threonine kinase	protein-coding	136.0	212.5	156.5	2191.5	347.5	138.5	163.0	127.5
Merged-chr17-71192193-4	chr17	71192074	71192274	+	942.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	L1MC3|LINE|L1	8196.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	19.0	40.0	14.0	218.0	63.5	27.5	28.5	12.5
Merged-chr14-121997017-4	chr14	121996919	121997119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 7 of 8)	intron (NM_026861, intron 7 of 8)	-31826.0	NM_183031	321019.0	Mm.265618	NM_183031	ENSMUSG00000051212	Gpr183	Ebi2	G protein-coupled receptor 183	protein-coding	76.0	88.0	102.5	2200.5	159.5	56.5	94.0	66.5
Merged-chr5-97009239-4	chr5	97009147	97009347	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 1 of 15)	intron (NM_080708, intron 1 of 15)	11558.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	9.0	15.0	17.5	211.0	33.0	12.0	17.0	14.0
Merged-chr6-124769515-4	chr6	124769411	124769611	+	872.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302555)	TTS (NM_001302555)	162.0	NM_001302642	13807.0	Mm.3913	NM_013509	ENSMUSG00000004267	Eno2	AI837106|D6Ertd375e|Eno-2|NSE	enolase 2, gamma neuronal	protein-coding	14.5	22.5	3.5	185.0	24.5	6.0	8.5	9.0
Merged-chr13-92581168-2	chr13	92581068	92581268	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4936.0	NM_030237	79401.0	Mm.23520	NM_030237	ENSMUSG00000046957	Spz1	1700027M20Rik|AI429130	spermatogenic leucine zipper 1	protein-coding	5.5	7.5	7.5	139.0	13.0	5.0	3.5	19.5
Merged-chr14-55728470-4	chr14	55728381	55728581	+	982.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6218.0	NM_001360387	56187.0	Mm.87216	NM_019519	ENSMUSG00000040472	Rabggta	gm	Rab geranylgeranyl transferase, a subunit	protein-coding	18.5	26.5	25.5	316.5	57.0	15.0	17.5	28.5
Merged-chr1-7077359-4	chr1	7077273	7077473	+	764.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11547.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	4.0	16.0	3.0	98.0	23.5	5.5	13.0	10.0
Merged-chr8-103588928-4	chr8	103588821	103589021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14878.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	50.5	45.0	37.0	969.0	90.0	33.5	51.0	44.5
Merged-chr11-62550490-4	chr11	62550427	62550627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002875)	promoter-TSS (NR_002875)	-644.0	NM_011664	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	26.0	41.5	22.0	356.0	62.5	21.5	28.5	33.5
Merged-chr10-41605095-4	chr10	41605002	41605202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001358562, exon 29 of 48)	exon (NM_001358562, exon 29 of 48)	37086.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	36.0	40.5	57.5	778.5	108.5	42.5	46.0	52.0
Merged-chr1-171221053-4	chr1	171220976	171221176	+	867.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305585)	promoter-TSS (NM_001305585)	-488.0	NM_001305585	11807.0	Mm.389209	NM_013474	ENSMUSG00000005681	Apoa2	Alp-2|Apo-AII|ApoA-II|ApoAII|Apoa-2|Hdl-1	apolipoprotein A-II	protein-coding	9.5	25.5	16.0	81.5	30.0	14.0	9.0	13.5
Merged-chr8-13632563-1	chr8	13632463	13632663	+	775.0	f0_balb.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	45024.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	8.0	4.5	6.5	189.0	12.5	3.5	4.0	5.0
Merged-chr16-78317035-4	chr16	78316941	78317141	+	873.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025192, intron 1 of 6)	B3A|SINE|B2	15370.0	NM_001276263	13052.0	Mm.66222	NM_009988	ENSMUSG00000022865	Cxadr	2610206D03Rik|AU016810|AW553441|CAR|MCAR|MCVADR	coxsackie virus and adenovirus receptor	protein-coding	9.0	19.0	10.5	156.0	25.0	15.5	22.5	19.0
Merged-chr10-111165665-4	chr10	111165555	111165755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003717, intron 1 of 22)	CpG	853.0	NM_175489	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	84.0	160.0	73.0	983.5	129.5	51.0	47.5	55.0
Merged-chr7-130865748-4	chr7	130865648	130865848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346515)	promoter-TSS (NM_001346515)	24.0	NM_001346515	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	287.5	455.0	308.0	4182.5	697.5	284.5	369.5	308.0
Merged-chr13-111808936-2	chr13	111808836	111809036	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011945)	promoter-TSS (NM_011945)	57.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	19.0	26.5	20.0	333.5	69.0	16.5	33.5	25.5
Merged-chr7-143650071-2	chr7	143649971	143650171	+	722.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023680)	promoter-TSS (NM_023680)	-407.0	NM_023680	79202.0	Mm.261384	NM_023680	ENSMUSG00000010751	Tnfrsf22	2810028K06Rik|C130035G06Rik|SOBa|Tnfrh2|Tnfrsf1al2|mDcTrailr2	tumor necrosis factor receptor superfamily, member 22	protein-coding	6.0	6.0	14.0	61.5	21.0	8.5	10.0	5.0
Merged-chr11-87109002-4	chr11	87108856	87109056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175563)	promoter-TSS (NM_175563)	-242.0	NM_175563	270906.0	Mm.132381	NM_175563	ENSMUSG00000020493	Prr11	B930067F20Rik	proline rich 11	protein-coding	218.0	390.0	189.5	2779.0	658.0	286.0	285.5	281.5
Merged-chr15-64128132-3	chr15	64128033	64128233	+	959.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 17 of 28)	intron (NM_001276461, intron 17 of 28)	-67685.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	18.5	9.0	8.5	199.0	26.5	5.0	7.5	10.5
Merged-chr11-48800372-4	chr11	48800220	48800420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008143)	promoter-TSS (NM_008143)	-40.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	46.5	76.0	33.0	502.5	210.0	80.5	44.5	74.5
Merged-chr8-104321956-3	chr8	104321838	104322038	+	905.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028524)	promoter-TSS (NM_028524)	-289.0	NM_028524	75502.0	Mm.232593	NM_028524	ENSMUSG00000035785	Cmtm2b	1700013O04Rik|Cklfsf22|Cklfsf2b	CKLF-like MARVEL transmembrane domain containing 2B	protein-coding	7.5	12.0	5.5	149.5	16.0	8.5	25.0	12.0
Merged-chr4-101694706-4	chr4	101694587	101694787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22720.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	74.5	69.5	65.0	703.0	103.5	53.0	56.5	42.5
Merged-chr2-90542266-4	chr2	90542129	90542329	+	928.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	38418.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	8.5	20.0	3.5	108.0	33.0	20.0	6.5	19.0
Merged-chr14-55591677-4	chr14	55591557	55591757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011190)	promoter-TSS (NM_011190)	-85.0	NM_194346	268749.0	Mm.23748	NM_194346	ENSMUSG00000047098	Rnf31	AL033293|BC031509|Flj10111|HOIP|Paul|mFLJ00217	ring finger protein 31	protein-coding	208.5	260.5	200.0	2552.0	354.0	158.0	185.5	174.0
Merged-chr19-41371492-4	chr19	41371400	41371600	+	951.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	L1MA9|LINE|L1	13570.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	21.0	16.0	23.0	301.5	76.0	21.5	33.0	27.5
Merged-chr8-25973294-4	chr8	25973192	25973392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029884, intron 1 of 17)	intron (NM_029884, intron 1 of 17)	3452.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	40.0	52.0	43.5	591.5	364.0	92.0	171.5	184.5
Merged-chr2-58286949-4	chr2	58286845	58287045	+	886.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040365)	TTS (NR_040365)	10166.0	NR_040365	100502932.0	Mm.417207	NR_040365	ENSMUSG00000086995	Gm13544	-	predicted gene 13544	ncRNA	9.0	13.5	14.0	245.5	28.0	9.0	7.5	25.5
Merged-chr8-105345765-3	chr8	105345678	105345878	+	886.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	2192.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	7.5	6.5	7.0	99.0	9.5	4.0	2.0	10.0
Merged-chr17-71179058-4	chr17	71178971	71179171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1b|LTR|Gypsy	-4461.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	63.5	72.0	84.5	1127.5	124.5	32.5	53.5	34.5
Merged-chr1-67382531-4	chr1	67382425	67382625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	259498.0	NM_001080809	227231.0	Mm.343942	NM_001080809	ENSMUSG00000025991	Cps1	4732433M03Rik|CPS|D1Ucla3	carbamoyl-phosphate synthetase 1	protein-coding	51.0	69.0	33.5	755.0	134.5	43.0	41.0	38.5
Merged-chr4-25281925-4	chr4	25281861	25282061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355512)	promoter-TSS (NM_001355512)	-140.0	NM_001355512	67490.0	Mm.226295	NM_026194	ENSMUSG00000040359	Ufl1	1810074P20Rik|AI429228|Kiaa0776|Maxer|Rcad|mKIAA0776	UFM1 specific ligase 1	protein-coding	249.0	310.5	257.0	3489.0	608.0	231.5	250.5	229.0
Merged-chr5-3647197-4	chr5	3647092	3647292	+	861.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026033, intron 1 of 4)	intron (NM_026033, intron 1 of 4)	744.0	NM_026033	67210.0	Mm.178424	NM_026033	ENSMUSG00000007415	Gatad1	2310031E19Rik|2810047M21Rik|8430439A17Rik|9130430G15Rik|B330017N08Rik|Odag	GATA zinc finger domain containing 1	protein-coding	6.0	11.0	24.0	154.5	21.0	8.0	17.0	6.0
Merged-chr2-152671069-6	chr2	152670969	152671169	+	830.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010376, intron 1 of 11)	intron (NM_010376, intron 1 of 11)	1608.0	NM_001159552	14950.0	Mm.277327	NM_010376	ENSMUSG00000019188	H13	1200006O09Rik|4930443L17Rik|5031424B04Rik|AV020344|H-13|Hm13|PSL3|Spp	histocompatibility 13	protein-coding	11.5	15.5	13.5	136.0	29.0	8.0	13.5	9.5
Merged-chr10-16593087-4	chr10	16592986	16593186	+	953.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	502696.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	29.0	32.5	28.5	551.0	43.0	11.5	26.0	14.0
Merged-chr1-152266577-3	chr1	152266467	152266667	+	647.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	120115.0	NM_025677	66637.0	Mm.379120	NM_025677	ENSMUSG00000014980	Tsen15	5730449L18Rik|AL023077|Sen15	tRNA splicing endonuclease subunit 15	protein-coding	5.0	5.5	10.0	118.0	5.5	7.5	6.0	7.5
Merged-chr15-64242678-4	chr15	64242586	64242786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	69987.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	142.5	216.5	172.5	2662.5	389.0	179.0	187.5	144.0
Merged-chr8-70701534-4	chr8	70701482	70701682	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010592)	TTS (NM_010592)	3843.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	7.5	15.5	14.0	142.5	28.5	8.5	17.0	21.0
Merged-chr10-63382811-4	chr10	63382636	63382836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253685, intron 1 of 4)	intron (NM_001253685, intron 1 of 4)	293.0	NM_001253685	30045.0	Mm.32550	NM_013888	ENSMUSG00000036764	Dnajc12	Jdp1|mJDP1	DnaJ heat shock protein family (Hsp40) member C12	protein-coding	63.5	87.5	39.5	989.5	112.0	33.0	58.0	39.0
Merged-chr8-76988130-4	chr8	76988027	76988227	+	915.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083906, intron 2 of 8)	Charlie4a|DNA|hAT-Charlie	85619.0	NM_001083906	110784.0	Mm.324393	NM_001083906	ENSMUSG00000031618	Nr3c2	MR|Mlr	nuclear receptor subfamily 3, group C, member 2	protein-coding	5.5	11.0	15.5	458.0	61.5	12.5	26.0	28.0
Merged-chr2-6259332-4	chr2	6259229	6259429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	MTC|LTR|ERVL-MaLR	-46335.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	27.0	32.0	47.0	840.0	81.0	18.0	42.0	42.0
Merged-chr19-32594124-3	chr19	32594021	32594221	+	963.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1594.0	NM_001201470	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	15.5	23.5	11.0	232.5	28.5	4.5	5.5	8.0
Merged-chr13-51837522-4	chr13	51837414	51837614	+	961.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9161.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	18.0	22.5	35.0	387.5	36.0	14.5	11.5	24.0
Merged-chr7-109752681-2	chr7	109752587	109752787	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_020050)	promoter-TSS (NM_020050)	-424.0	NM_020050	56786.0	Mm.240668	NM_020050	ENSMUSG00000031021	Tmem9b	2310004K06Rik|AW539847|D7H11orf15|ICRFP703B1614Q5.3	TMEM9 domain family, member B	protein-coding	27.0	32.5	25.5	284.5	47.5	15.0	22.0	31.0
Merged-chr10-56377265-3	chr10	56377156	56377356	+	987.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010288)	promoter-TSS (NM_010288)	-44.0	NM_010288	14609.0	Mm.378921	NM_010288	ENSMUSG00000050953	Gja1	AU042049|AW546267|Cnx43|Cx43|Cx43alpha1|Gja-1|Npm1|connexin43	gap junction protein, alpha 1	protein-coding	16.5	19.5	20.5	245.0	20.5	5.0	2.5	5.5
Merged-chr2-155811930-3	chr2	155811830	155812030	+	806.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010808, intron 6 of 8)	intron (NM_010808, intron 6 of 8)	7273.0	NR_015528	613262.0	Mm.330707	NR_015528	ENSMUSG00000074649	BC029722	-	cDNA sequence BC029722	ncRNA	9.0	14.0	6.0	65.0	23.5	10.0	3.5	5.5
Merged-chr5-137864203-4	chr5	137864105	137864305	+	803.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6156.0	NM_133209	170741.0	Mm.347593	NM_133209	ENSMUSG00000066684	Pilrb1	FDFACT|Fdact|Pilrb	paired immunoglobin-like type 2 receptor beta 1	protein-coding	15.5	13.0	10.5	62.0	27.5	9.0	11.5	1.0
Merged-chr4-116807670-4	chr4	116807572	116807772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133250)	promoter-TSS (NM_133250)	-62.0	NM_133250	70603.0	Mm.180333	NM_133250	ENSMUSG00000028687	Mutyh	5730495A01Rik|Mutyha|Mutyhalpha|Mutyhb|Mutyhbeta|Mutyhc|Myh	mutY DNA glycosylase	protein-coding	167.0	325.5	145.0	2880.5	501.0	205.5	283.0	197.5
Merged-chr11-21092900-3	chr11	21092796	21092996	+	828.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023324, intron 1 of 6)	intron (NM_023324, intron 1 of 6)	1572.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	4.5	8.0	5.0	83.0	14.5	8.0	4.5	1.0
Merged-chr17-56442902-2	chr17	56442802	56443002	+	843.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 6 of 27)	intron (NM_001252455, intron 6 of 27)	19319.0	NM_001252456	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	5.5	7.5	6.5	84.5	12.5	6.5	8.5	2.5
Merged-chr14-63443622-5	chr14	63443549	63443749	+	918.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177628, intron 2 of 3)	intron (NM_177628, intron 2 of 3)	7255.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	18.0	15.0	21.5	183.5	28.0	9.0	15.5	18.5
Merged-chr1-93069502-4	chr1	93069377	93069577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294150, intron 9 of 46)	intron (NM_001294150, intron 9 of 46)	13003.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	59.0	108.5	70.0	1178.5	226.0	47.5	91.0	90.0
Merged-chr2-84716156-1	chr2	84716056	84716256	+	873.0	f0_balb.idr	promoter-TSS (NM_144887)	promoter-TSS (NM_144887)	-992.0	NM_144887	228136.0	Mm.288508	NM_144887	ENSMUSG00000034075	Zdhhc5	1110032A17Rik|AI451382|Zisp	zinc finger, DHHC domain containing 5	protein-coding	11.5	23.0	13.0	170.0	30.0	19.5	14.5	21.0
Merged-chr11-101095816-2	chr11	101095716	101095916	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008949)	promoter-TSS (NM_008949)	-381.0	NM_008949	19183.0	Mm.18344	NM_008949	ENSMUSG00000019303	Psmc3ip	C79099|GT198|HOP2|Tbpip	proteasome (prosome, macropain) 26S subunit, ATPase 3, interacting protein	protein-coding	5.5	7.0	1.0	67.5	11.5	11.5	4.5	7.5
Merged-chr4-116221385-5	chr4	116221367	116221567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355584)	promoter-TSS (NM_001355584)	51.0	NM_001355585	18710.0	Mm.253819	NM_181585	ENSMUSG00000028698	Pik3r3	AA414954|p55|p55pik	phosphoinositide-3-kinase regulatory subunit 3	protein-coding	45.0	61.5	57.0	464.0	109.0	50.5	42.0	49.0
Merged-chr7-30232854-4	chr7	30232749	30232949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360649)	promoter-TSS (NM_001360649)	-652.0	NM_025548	66411.0	Mm.27947	NM_025548	ENSMUSG00000006095	Tbcb	2410007D12Rik|AU041393|CG22|CKAPI|Ckap1	tubulin folding cofactor B	protein-coding	31.0	18.5	33.5	416.5	54.0	15.0	28.5	26.5
Merged-chr2-132090019-4	chr2	132089932	132090132	+	880.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355431, intron 4 of 6)	intron (NM_001355431, intron 4 of 6)	55076.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	12.0	17.0	8.0	191.0	27.5	6.0	5.0	12.5
Merged-chr2-158606613-3	chr2	158606514	158606714	+	855.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040358, intron 1 of 2)	intron (NR_040358, intron 1 of 2)	4109.0	NR_040358	100045469.0	Mm.143404	NR_040358	ENSMUSG00000086496	Gm14204	-	predicted gene 14204	ncRNA	8.0	10.5	2.0	130.0	18.5	7.0	8.0	10.5
Merged-chr2-117264005-2	chr2	117263905	117264105	+	928.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_026620, intron 6 of 7)	intron (NM_026620, intron 6 of 7)	14266.0	NM_026620	68215.0	Mm.219389	NM_026620	ENSMUSG00000027349	Fam98b	2610510H03Rik	family with sequence similarity 98, member B	protein-coding	6.5	11.5	11.0	57.0	12.5	10.5	11.5	7.5
Merged-chr8-27023127-4	chr8	27023017	27023217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153592)	promoter-TSS (NM_153592)	-682.0	NM_153592	244373.0	Mm.277699	NM_153592	ENSMUSG00000031483	Erlin2	BC036333|C87251|Spfh2	ER lipid raft associated 2	protein-coding	69.0	156.5	89.0	1103.0	283.0	53.5	115.5	107.0
Merged-chr9-15395527-4	chr9	15395416	15395616	+	926.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-37728.0	NM_176976	319675.0	Mm.218317	NM_176976	ENSMUSG00000046111	Cep295	5830418K08Rik|5832426L23Rik|Gm1131|Kiaa1731	centrosomal protein 295	protein-coding	17.0	25.5	9.0	176.5	33.5	18.0	21.0	15.5
Merged-chr11-11808963-4	chr11	11808856	11809056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163359)	promoter-TSS (NM_001163359)	6.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	241.5	280.5	197.0	3769.0	921.5	337.0	336.5	419.5
Merged-chr4-135382534-3	chr4	135382436	135382636	+	910.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145555, intron 1 of 4)	intron (NM_145555, intron 1 of 4)	3136.0	NM_001168498	230822.0	Mm.35548	NM_145555	ENSMUSG00000043924	Ncmap	A330049M08Rik|AA545175|Mp11	noncompact myelin associated protein	protein-coding	4.5	15.5	3.5	122.0	29.5	7.5	5.5	5.5
Merged-chr9-43743791-3	chr9	43743711	43743911	+	897.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021424)	promoter-TSS (NM_021424)	-765.0	NM_021424	58235.0	Mm.335096	NM_021424	ENSMUSG00000032012	Nectin1	AI835281|AW549174|Cd111|HIgR|HveC|PRR|PRR1|Pvrl1|nectin-1	nectin cell adhesion molecule 1	protein-coding	6.5	22.5	22.0	176.0	5.5	9.0	3.5	18.5
Merged-chr15-99904575-4	chr15	99904470	99904670	+	882.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27088.0	NM_028180	72277.0	Mm.272766	NM_028180	ENSMUSG00000045350	1700030F18Rik	FAM186A	RIKEN cDNA 1700030F18 gene	protein-coding	13.5	24.0	12.5	163.5	30.0	18.5	16.0	16.0
Merged-chr14-61668194-3	chr14	61668089	61668289	+	875.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	14184.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	16.0	11.5	8.0	172.0	18.0	6.5	6.0	12.0
Merged-chr10-122553269-3	chr10	122553169	122553369	+	727.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16622.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	9.0	8.0	13.5	89.5	18.5	8.5	13.5	8.5
Merged-chr9-65909435-2	chr9	65909335	65909535	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019797)	promoter-TSS (NM_019797)	425.0	NM_173185	214897.0	Mm.325816	NM_173185	ENSMUSG00000032384	Csnk1g1	9130020E21Rik	casein kinase 1, gamma 1	protein-coding	11.0	15.5	12.5	112.0	34.0	10.5	13.5	8.0
Merged-chr5-34542427-2	chr5	34542327	34542527	+	911.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145858)	promoter-TSS (NM_001145858)	-938.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	2.5	5.0	0.5	83.5	8.5	5.0	6.5	8.0
Merged-chr10-75860254-4	chr10	75860093	75860293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010798)	promoter-TSS (NM_010798)	57.0	NM_010798	17319.0	Mm.2326	NM_010798	ENSMUSG00000033307	Mif	GIF|Glif	macrophage migration inhibitory factor (glycosylation-inhibiting factor)	protein-coding	88.0	126.5	106.0	839.0	221.5	90.0	122.5	79.0
Merged-chr1-153953964-4	chr1	153953875	153954075	+	835.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	54046.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	20.5	14.5	7.0	152.5	23.5	8.5	11.0	3.0
Merged-chr15-75903504-4	chr15	75903394	75903594	+	992.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029663, exon 3 of 10)	exon (NM_029663, exon 3 of 10)	5850.0	NM_001285433	66656.0	Mm.258927	NM_023240	ENSMUSG00000055762	Eef1d	EF-1-delta	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)	protein-coding	30.5	28.5	22.5	469.0	52.5	14.5	18.0	28.5
Merged-chr18-34758730-4	chr18	34758647	34758847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175104)	promoter-TSS (NM_175104)	-103.0	NM_175104	66306.0	Mm.29424	NM_175104	ENSMUSG00000034300	Fam53c	2810012G03Rik|Gm21179	family with sequence similarity 53, member C	protein-coding	86.5	127.5	48.5	1084.0	219.0	56.0	63.0	51.5
Merged-chr1-131018622-5	chr1	131018484	131018684	+	930.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1261.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	12.5	12.0	7.0	41.0	39.0	6.5	12.5	11.5
Merged-chr15-102506612-3	chr15	102506514	102506714	+	802.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009582, intron 1 of 13)	B1F|SINE|Alu	4086.0	NM_001358844	26404.0	Mm.172897	NM_009582	ENSMUSG00000023050	Map3k12	DLK|MUK|Zpk	mitogen-activated protein kinase kinase kinase 12	protein-coding	3.5	5.0	3.0	63.5	31.5	9.5	12.0	4.5
Merged-chr12-80938839-4	chr12	80938738	80938938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6561.0	NR_045057	100504661.0	Mm.442322	NR_045057	ENSMUSG00000112880	Gm20337	-	predicted gene, 20337	ncRNA	52.5	55.0	39.0	761.5	152.0	49.0	38.5	57.0
Merged-chr14-54786099-4	chr14	54786005	54786205	+	820.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4219.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	9.5	16.0	3.0	119.0	39.0	12.0	20.0	5.5
Merged-chr10-88200697-4	chr10	88200577	88200777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027487)	promoter-TSS (NM_027487)	-420.0	NM_026070	67282.0	Mm.208465	NM_026070	ENSMUSG00000020056	Washc3	2900091E11Rik|5730495F03Rik|Ccdc53	WASH complex subunit 3	protein-coding	21.5	18.5	20.0	259.5	36.5	13.0	9.5	9.5
Merged-chr4-20008282-5	chr4	20008197	20008397	+	797.840027	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317723)	promoter-TSS (NM_001317723)	-32.0	NM_015767	50500.0	Mm.24375	NM_015767	ENSMUSG00000073988	Ttpa	alpha-TTP	tocopherol (alpha) transfer protein	protein-coding	7.5	9.0	18.0	244.0	17.0	14.5	8.5	14.5
Merged-chr12-84784704-4	chr12	84784594	84784794	+	930.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 34 of 34)	intron (NM_013589, intron 34 of 34)	11424.0	NM_028863	74316.0	Mm.25719	NM_028863	ENSMUSG00000021241	Isca2	0710001C05Rik|5730594E03Rik|Hbld1	iron-sulfur cluster assembly 2	protein-coding	12.0	20.0	11.0	183.5	55.5	9.0	13.5	19.0
Merged-chr1-131482464-3	chr1	131482368	131482568	+	654.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	44893.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	6.0	13.0	0.5	85.5	22.5	5.5	9.5	4.5
Merged-chr2-73892819-4	chr2	73892690	73892890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284376)	promoter-TSS (NM_001284376)	-151.0	NM_001284370	11909.0	Mm.209903	NM_009715	ENSMUSG00000027104	Atf2	Atf-2|CRE-BP|Creb2|D130078H02Rik|D18875|Tg(Gzma-Klra1)7Wum|mXBP	activating transcription factor 2	protein-coding	327.5	491.5	288.5	3942.5	741.5	313.0	329.5	284.0
Merged-chr1-43520788-2	chr1	43520693	43520893	+	618.75	f0_balb.idr|f0_c57.idr	intron (NM_010879, intron 2 of 4)	intron (NM_010879, intron 2 of 4)	75042.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	3.5	9.5	10.0	195.5	10.5	10.0	12.0	15.0
Merged-chr2-129585795-4	chr2	129585699	129585899	+	963.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7040.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	24.5	37.0	42.0	315.5	41.0	24.0	25.5	16.0
Merged-chr19-23134249-4	chr19	23134147	23134347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6979.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	41.5	81.0	61.5	648.5	119.5	59.5	52.5	40.0
Merged-chr9-14275127-4	chr9	14275034	14275234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1167.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	159.5	255.0	131.5	2529.5	285.5	86.5	153.0	78.0
Merged-chr6-87517273-4	chr6	87517178	87517378	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	15981.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	16.5	31.5	48.5	591.0	41.5	12.5	18.0	16.5
Merged-chr13-39881289-4	chr13	39881194	39881394	+	959.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	406717.0	NM_172143	218165.0	Mm.364096	NM_172143	ENSMUSG00000047094	Ofcc1	opo	orofacial cleft 1 candidate 1	protein-coding	16.0	22.0	17.5	224.0	34.0	16.5	29.0	13.5
Merged-chr2-27680344-2	chr2	27680244	27680444	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	3143.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	3.5	6.0	8.0	126.0	11.5	7.0	8.5	5.0
Merged-chr4-135294159-3	chr4	135294059	135294259	+	675.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21399.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	4.5	22.0	13.0	88.5	21.0	9.0	6.5	11.0
Merged-chr13-58066974-3	chr13	58066867	58067067	+	978.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195075, intron 6 of 16)	intron (NM_001195075, intron 6 of 16)	35461.0	NM_001195075	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	15.5	18.5	14.5	200.0	39.5	4.5	7.0	7.0
Merged-chr2-91191807-2	chr2	91191707	91191907	+	771.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001177730, exon 4 of 10)	exon (NM_001177730, exon 4 of 10)	3228.0	NM_013839	22259.0	Mm.22690	NM_013839	ENSMUSG00000002108	Nr1h3	AU018371|LXR|RLD1|Unr1	nuclear receptor subfamily 1, group H, member 3	protein-coding	1.0	4.0	7.0	29.0	21.0	6.5	7.0	14.5
Merged-chr12-76403806-1	chr12	76403706	76403906	+	1000.0	f0_c57.idr	promoter-TSS (NM_008301)	promoter-TSS (NM_008301)	-370.0	NM_001002012	15512.0	Mm.296181	NM_008301	ENSMUSG00000059970	Hspa2	70kDa|HSP70.2|HSP70A2|Hsp70-2	heat shock protein 2	protein-coding	77.0	96.0	116.0	923.5	158.0	87.0	80.5	70.5
Merged-chr7-118740163-4	chr7	118740054	118740254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027815)	promoter-TSS (NM_027815)	-117.0	NM_027815	71517.0	Mm.213298	NM_027815	ENSMUSG00000030982	9030624J02Rik	2610029J22Rik	RIKEN cDNA 9030624J02 gene	protein-coding	38.5	68.5	18.0	512.0	69.0	30.0	64.0	28.5
Merged-chr2-118597774-4	chr2	118597669	118597869	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009773)	promoter-TSS (NM_009773)	-442.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	30.0	38.0	17.0	385.5	92.0	31.5	49.0	40.0
Merged-chr8-53607274-4	chr8	53607207	53607407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146208, intron 5 of 9)	intron (NM_146208, intron 5 of 9)	31758.0	NM_146208	234258.0	Mm.281749	NM_146208	ENSMUSG00000039396	Neil3	AI449477|BC034753|C85903	nei like 3 (E. coli)	protein-coding	42.0	46.0	32.0	491.0	85.5	31.0	53.5	42.0
Merged-chr2-164372840-1	chr2	164372740	164372940	+	683.0	f0_balb.idr	Intergenic	Intergenic	-16333.0	NM_011414	20568.0	Mm.371583	NM_011414	ENSMUSG00000017002	Slpi	ALP	secretory leukocyte peptidase inhibitor	protein-coding	10.0	12.0	12.0	118.0	13.5	3.0	3.0	6.0
Merged-chr9-111094799-4	chr9	111094681	111094881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-23330.0	NM_027742	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	33.0	37.5	27.5	589.5	64.0	18.0	28.0	24.5
Merged-chr17-34398834-4	chr17	34398740	34398940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001177)	promoter-TSS (NM_001001177)	20.0	NM_001163855	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	46.5	78.5	27.5	398.0	188.5	70.0	70.0	55.0
Merged-chr9-51977600-4	chr9	51977506	51977706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14004.0	NM_007996	14148.0	Mm.1061	NM_007996	ENSMUSG00000032051	Fdx1	-	ferredoxin 1	protein-coding	26.5	79.5	23.0	258.5	166.5	69.0	45.5	38.5
Merged-chr3-106497044-5	chr3	106496975	106497175	+	738.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001093754, intron 8 of 11)	intron (NM_001093754, intron 8 of 11)	11035.0	NM_028110	72121.0	Mm.14816	NM_028110	ENSMUSG00000027901	Dennd2d	2010308M01Rik|AI451421	DENN/MADD domain containing 2D	protein-coding	6.0	6.5	12.5	80.0	9.5	0.5	0.5	4.5
Merged-chr17-25874883-4	chr17	25874810	25875010	+	972.392822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026686)	promoter-TSS (NM_026686)	-590.0	NM_026686	68347.0	Mm.35098	NM_026686	ENSMUSG00000025731	Mettl26	0610011F06Rik	methyltransferase like 26	protein-coding	11.5	27.0	7.0	156.5	28.5	12.0	7.0	14.5
Merged-chr2-49417187-4	chr2	49417098	49417298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34288.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	141.5	164.0	145.5	2572.0	287.0	109.0	134.0	172.5
Merged-chr3-106558438-4	chr3	106558328	106558528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025582, intron 3 of 6)	intron (NM_001025582, intron 3 of 6)	-10626.0	NM_133869	99712.0	Mm.429443	NM_133869	ENSMUSG00000040774	Cept1	9930118K05Rik|mCEPT1	choline/ethanolaminephosphotransferase 1	protein-coding	60.0	57.5	70.0	995.5	113.5	35.0	73.5	41.0
Merged-chr9-119982526-4	chr9	119982415	119982615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153287, intron 1 of 4)	intron (NM_153287, intron 1 of 4)	508.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	34.0	49.5	30.5	397.5	113.5	37.0	55.0	49.5
Merged-chr3-127790529-4	chr3	127790442	127790642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356430)	promoter-TSS (NM_001356430)	-115.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	55.5	115.0	45.0	536.0	94.5	36.5	43.0	21.0
Merged-chr16-32434294-4	chr16	32434199	32434399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163160, intron 1 of 8)	intron (NM_001163160, intron 1 of 8)	3069.0	NM_001163160	13026.0	Mm.98775	NM_009981	ENSMUSG00000005615	Pcyt1a	CTalpha|Cctalpha|Ctpct|Cttalpha	phosphate cytidylyltransferase 1, choline, alpha isoform	protein-coding	44.0	81.0	30.0	753.5	117.5	23.5	77.0	48.0
Merged-chr8-18924633-2	chr8	18924549	18924749	+	759.333313	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	26222.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	4.5	6.5	7.5	53.0	25.5	11.0	14.5	14.0
Merged-chr9-64021054-5	chr9	64020850	64021050	+	925.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008542, exon 1 of 4)	exon (NM_008542, exon 1 of 4)	1109.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	2.5	5.0	6.5	102.5	26.0	6.5	5.0	8.5
Merged-chr5-137046149-4	chr5	137046035	137046235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007457)	promoter-TSS (NM_007457)	-27.0	NM_007457	11769.0	Mm.833	NM_007457	ENSMUSG00000004849	Ap1s1	AP19	adaptor protein complex AP-1, sigma 1	protein-coding	32.5	54.0	25.5	271.5	81.5	38.0	44.0	39.0
Merged-chr1-156676373-4	chr1	156676272	156676472	+	940.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2033.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	15.0	21.0	8.0	118.5	80.5	19.0	31.0	31.0
Merged-chr18-24206299-4	chr18	24206204	24206404	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001361200, exon 1 of 13)	5' UTR (NM_001361200, exon 1 of 13)	310.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	31.5	26.5	37.0	525.5	81.5	28.5	33.5	19.5
Merged-chr19-40666025-4	chr19	40665933	40666133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	6263.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	35.0	72.0	52.5	937.5	99.0	35.0	52.5	49.5
Merged-chr17-15498955-2	chr17	15498855	15499055	+	721.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013684)	promoter-TSS (NM_013684)	-679.0	NM_011185	19170.0	Mm.32912	NM_011185	ENSMUSG00000014769	Psmb1	AA409053|C81484|Lmpc5	proteasome (prosome, macropain) subunit, beta type 1	protein-coding	7.0	3.0	1.0	46.5	4.5	4.5	6.5	8.0
Merged-chr13-118538916-3	chr13	118538823	118539023	+	665.766663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17245.0	NR_045982	75890.0	Mm.141235	NR_045982	ENSMUSG00000100727	1700003P14Rik	1700030O10Rik|4930584L06Rik	RIKEN cDNA 1700003P14 gene	ncRNA	2.0	1.5	0.0	34.0	32.0	17.5	17.0	10.0
Merged-chr3-144679394-4	chr3	144679282	144679482	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	40953.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	46.5	41.5	41.0	873.5	35.5	9.5	14.5	12.5
Merged-chr19-57360948-4	chr19	57360822	57361022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040316)	promoter-TSS (NR_040316)	-23.0	NR_040316	320879.0	Mm.375089	NR_040316	ENSMUSG00000097785	B230217O12Rik	-	RIKEN cDNA B230217O12 gene	ncRNA	190.5	295.5	213.5	2712.0	458.5	179.5	184.5	142.5
Merged-chr19-7268134-4	chr19	7268010	7268210	+	940.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320554)	promoter-TSS (NM_001320554)	-169.0	NM_001320554	104383.0	Mm.283859	NM_054048	ENSMUSG00000024968	Rcor2	1A13|AW122124|CoREST|Rcor|Rcor1	REST corepressor 2	protein-coding	7.0	16.0	4.5	93.5	24.5	14.0	8.0	16.5
Merged-chr5-99363285-4	chr5	99363179	99363379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-110352.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	87.5	170.5	112.5	1689.0	159.0	76.0	89.5	61.0
Merged-chr13-42822760-2	chr13	42822660	42822860	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005740, intron 1 of 12)	intron (NM_001005740, intron 1 of 12)	-43487.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	4.5	7.5	4.5	22.0	13.0	5.0	6.5	5.0
Merged-chr7-6191539-2	chr7	6191439	6191639	+	899.416626	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001146024, exon 5 of 5)	3' UTR (NM_001146024, exon 5 of 5)	-5551.0	NM_178028	232836.0	Mm.246599	NM_178028	ENSMUSG00000034660	Galp	-	galanin-like peptide	protein-coding	3.0	11.0	9.0	61.5	10.0	6.0	6.0	7.5
Merged-chr5-139465104-4	chr5	139464998	139465198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4564.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	33.5	34.0	16.0	332.5	64.5	20.0	24.0	45.0
Merged-chr11-115427995-3	chr11	115427873	115428073	+	845.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183285, intron 4 of 5)	intron (NM_183285, intron 4 of 5)	7847.0	NM_183285	70382.0	Mm.276299	NM_183285	ENSMUSG00000016940	Kctd2	2310012I15Rik	potassium channel tetramerisation domain containing 2	protein-coding	6.5	12.0	1.0	77.5	8.5	8.0	5.5	4.5
Merged-chr9-83570074-3	chr9	83569964	83570164	+	885.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	21726.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	1.0	3.5	0.5	30.5	62.5	12.0	24.0	29.5
Merged-chr3-130761147-4	chr3	130760991	130761191	+	867.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30693.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	4.5	11.5	4.0	130.5	8.5	4.5	6.0	6.5
Merged-chr7-127244484-4	chr7	127244386	127244586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177362)	promoter-TSS (NM_177362)	-40.0	NM_177362	244216.0	Mm.41038	NM_177362	ENSMUSG00000054716	Zfp771	G630024C07Rik|Znf771	zinc finger protein 771	protein-coding	122.0	165.5	84.5	1304.0	228.5	86.0	109.5	104.0
Merged-chr17-43032643-4	chr17	43032557	43032757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 1 of 5)	intron (NM_178589, intron 1 of 5)	16102.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	39.5	58.0	61.5	979.0	113.0	33.5	52.5	69.0
Merged-chr11-108223328-4	chr11	108223216	108223416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	120572.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	52.0	65.0	48.5	575.0	111.0	37.5	66.5	56.0
Merged-chr11-121706622-4	chr11	121706527	121706727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144797, intron 1 of 3)	intron (NM_144797, intron 1 of 3)	4200.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	42.5	63.5	12.0	352.5	91.0	42.0	30.0	27.5
Merged-chr5-136988583-4	chr5	136988501	136988701	+	900.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027318)	promoter-TSS (NM_027318)	-642.0	NM_027318	70103.0	Mm.273147	NM_027318	ENSMUSG00000059518	Znhit1	2700001K05Rik|ZNFN4A1	zinc finger, HIT domain containing 1	protein-coding	13.0	19.0	8.0	265.0	34.5	11.5	12.5	20.5
Merged-chr11-97187155-4	chr11	97187060	97187260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008379, intron 2 of 21)	CpG	732.0	NM_008379	16211.0	Mm.251013	NM_008379	ENSMUSG00000001440	Kpnb1	AA409963|IPOB|Impnb	karyopherin (importin) beta 1	protein-coding	153.5	218.0	182.5	2408.5	340.0	136.0	197.5	137.0
Merged-chr2-180225867-4	chr2	180225780	180225980	+	951.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081171)	promoter-TSS (NM_001081171)	-21.0	NM_001081171	16776.0	Mm.4339	NM_001081171	ENSMUSG00000015647	Lama5	AA408760|AA408762|AI853660|[a]5|laminin-511|mKIAA0533	laminin, alpha 5	protein-coding	11.5	23.0	18.0	177.5	29.0	3.0	18.0	23.0
Merged-chr11-79307207-4	chr11	79307101	79307301	+	941.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32691.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	9.5	21.5	13.5	379.5	45.5	15.0	9.5	18.5
Merged-chr14-76504410-4	chr14	76504290	76504490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009366)	promoter-TSS (NM_009366)	-120.0	NM_009366	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	52.0	99.5	66.0	1138.0	123.5	38.5	50.5	61.0
Merged-chr16-55803180-4	chr16	55803082	55803282	+	906.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18956.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	18.5	29.0	29.5	188.5	37.5	6.0	17.5	9.5
Merged-chr5-103937688-3	chr5	103937600	103937800	+	760.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-26441.0	NM_001359986	246293.0	Mm.179871	NM_178741	ENSMUSG00000029312	Klhl8	2310001P09Rik|D5Ertd431e	kelch-like 8	protein-coding	1.0	9.0	4.5	77.5	14.0	6.0	7.0	7.0
Merged-chr13-100409276-3	chr13	100409135	100409335	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008670, intron 15 of 15)	intron (NM_008670, intron 15 of 15)	43629.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	27.0	36.5	31.0	218.0	7.0	2.0	0.5	2.5
Merged-chr4-133631170-4	chr4	133631066	133631266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 1 of 7)	intron (NM_001017968, intron 1 of 7)	2263.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	42.0	55.0	48.0	689.0	74.0	18.0	28.0	26.5
Merged-chr1-36947659-4	chr1	36947569	36947769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8142.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	21.5	27.0	16.0	331.0	107.5	23.0	37.5	48.5
Merged-chr10-115311455-4	chr10	115311339	115311539	+	951.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024454, intron 1 of 6)	intron (NM_024454, intron 1 of 6)	4152.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	13.5	8.0	14.5	334.5	24.5	18.5	29.0	16.5
Merged-chr2-163761601-4	chr2	163761487	163761687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11348.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	64.0	91.5	77.0	1629.5	72.0	25.5	34.5	45.5
Merged-chr19-9914023-4	chr19	9913934	9914134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14501.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	64.5	98.0	97.5	1089.0	119.5	37.5	48.5	45.0
Merged-chr17-15826640-4	chr17	15826552	15826752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178615)	promoter-TSS (NM_178615)	-66.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	180.0	233.5	155.5	3419.5	486.5	180.0	254.0	226.0
Merged-chr10-41519326-5	chr10	41519225	41519425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016898)	promoter-TSS (NM_016898)	-175.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	76.0	138.5	131.5	1079.5	244.5	110.0	87.0	108.5
Merged-chr3-89349265-3	chr3	89349188	89349388	+	855.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029974)	TTS (NM_029974)	740.0	NM_001037722	11490.0	Mm.274049	NM_009614	ENSMUSG00000028041	Adam15	AD56|MDC15	a disintegrin and metallopeptidase domain 15 (metargidin)	protein-coding	5.5	6.5	6.5	141.5	5.5	4.5	4.0	8.5
Merged-chr4-130189124-2	chr4	130189024	130189224	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14002.0	NM_023476	94242.0	Mm.15801	NM_023476	ENSMUSG00000028776	Tinagl1	1110021J17Rik|AZ-1|AZ1|Arg1|Lcn7|TARP|Tinagl	tubulointerstitial nephritis antigen-like 1	protein-coding	6.0	8.5	2.5	93.5	13.5	9.0	4.5	7.5
Merged-chr11-115001668-4	chr11	115001530	115001730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134158, exon 1 of 4)	5' UTR (NM_134158, exon 1 of 4)	250.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	48.5	68.0	31.0	700.5	76.0	24.0	60.5	66.0
Merged-chr5-117485582-3	chr5	117485479	117485679	+	737.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	intron (NM_001312914, intron 1 of 19)	71577.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	8.0	7.0	8.0	145.5	9.0	2.0	2.5	9.0
Merged-chr15-86205493-4	chr15	86205383	86205583	+	920.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-8976.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	6.0	25.0	13.5	210.0	47.5	15.0	18.5	15.0
Merged-chr15-66742743-4	chr15	66742645	66742845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 34 of 47)	intron (NM_009375, intron 34 of 47)	71975.0	NM_009375	21819.0	Mm.441333	NM_009375	ENSMUSG00000053469	Tg	Tgn|cog	thyroglobulin	protein-coding	50.5	71.5	51.5	673.0	85.0	31.0	69.5	28.5
Merged-chr14-66847756-4	chr14	66847667	66847867	+	874.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	20833.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	13.0	21.5	14.5	119.0	53.0	9.0	16.5	10.0
Merged-chr12-111037786-7	chr12	111037635	111037835	+	900.464294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2063.0	NM_198023	217864.0	Mm.23808	NM_198023	ENSMUSG00000037896	Rcor1	5730409O11|6720480E22Rik|AU042633|D12Wsu95e|Rocr1|mKIAA0071	REST corepressor 1	protein-coding	7.0	6.5	6.0	82.0	9.0	13.0	4.5	14.0
Merged-chr2-93217258-4	chr2	93217179	93217379	+	933.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183180, intron 5 of 9)	intron (NM_183180, intron 5 of 9)	29731.0	NM_001025246	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	9.5	33.0	18.5	127.0	59.5	22.0	24.0	11.0
Merged-chr1-138543687-3	chr1	138543584	138543784	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 3 of 9)	RLTR11B|LTR|ERVK	76073.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	4.5	16.0	15.0	155.0	12.0	7.5	9.0	13.5
Merged-chr13-100183320-4	chr13	100183213	100183413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 5 of 15)	intron (NM_001126182, intron 5 of 15)	18809.0	NM_001126182	17948.0	Mm.89961	NM_010872	ENSMUSG00000078945	Naip2	Birc1b|Naip-rs6	NLR family, apoptosis inhibitory protein 2	protein-coding	101.0	147.0	129.5	1245.5	201.0	70.0	83.5	86.0
Merged-chr18-62720157-4	chr18	62720047	62720247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168423, intron 1 of 4)	intron (NM_001168423, intron 1 of 4)	21240.0	NM_001168423	100038417.0	Mm.387557	NM_001168423	ENSMUSG00000073551	Spink13	Gm10534|Spink5l3	serine peptidase inhibitor, Kazal type 13	protein-coding	78.0	96.0	97.0	1146.5	213.0	91.0	140.0	86.5
Merged-chr10-60367244-4	chr10	60367142	60367342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 4 of 6)	(CCCCCT)n|Simple_repeat|Simple_repeat	20391.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	73.0	75.0	101.0	1464.5	118.5	38.0	58.5	72.5
Merged-chr8-111337772-7	chr8	111337697	111337897	+	952.7023929999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310613, intron 1 of 10)	intron (NM_001310613, intron 1 of 10)	408.0	NM_001310613	74568.0	Mm.207971	NM_029005	ENSMUSG00000012519	Mlkl	9130019I15Rik	mixed lineage kinase domain-like	protein-coding	8.5	29.5	13.0	169.5	54.0	18.5	22.0	12.0
Merged-chr1-138343553-3	chr1	138343426	138343626	+	842.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	69788.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	6.0	5.0	8.0	65.0	8.0	5.5	3.5	9.0
Merged-chr7-90134228-7	chr7	90134128	90134328	+	859.654785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	B1_Mus2|SINE|Alu	4015.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	8.5	12.0	17.0	63.0	9.0	10.5	10.0	10.5
Merged-chr10-62430634-4	chr10	62430539	62430739	+	977.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359806, intron 13 of 14)	intron (NM_001359806, intron 13 of 14)	-8182.0	NM_145419	216019.0	Mm.213213	NM_145419	ENSMUSG00000020080	Hkdc1	BC016235	hexokinase domain containing 1	protein-coding	23.0	20.0	16.5	328.5	51.0	20.5	33.0	28.0
Merged-chr8-24427722-4	chr8	24427616	24427816	+	968.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11230.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	30.5	19.0	23.5	332.5	32.0	12.0	17.5	20.0
Merged-chr4-8648551-4	chr4	8648379	8648579	+	758.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41927.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	11.0	9.0	5.5	51.0	21.5	5.0	6.5	11.5
Merged-chr17-27005838-4	chr17	27005738	27005938	+	974.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12197.0	NM_001251881	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	32.0	32.0	21.0	352.5	60.5	17.0	16.0	23.5
Merged-chr2-49554948-4	chr2	49554784	49554984	+	969.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64430.0	NM_008449	16574.0	Mm.256342	NM_008449	ENSMUSG00000026764	Kif5c	KINN|Khc|NKHC|NKHC2	kinesin family member 5C	protein-coding	8.5	23.0	21.0	172.0	74.5	30.0	39.0	17.5
Merged-chr1-75532408-2	chr1	75532308	75532508	+	805.666626	f1_balb.idr|f1_c57bl6.idr	exon (NM_027886, exon 18 of 25)	exon (NM_027886, exon 18 of 25)	10879.0	NM_027886	71728.0	Mm.312650	NM_027886	ENSMUSG00000026213	Stk11ip	1200014D22Rik|BB131189|LIP1|LKB1IP	serine/threonine kinase 11 interacting protein	protein-coding	2.0	6.5	1.0	59.0	15.0	11.0	7.0	7.0
Merged-chr5-4934737-3	chr5	4934624	4934824	+	736.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 11 of 14)	intron (NM_011074, intron 11 of 14)	-176508.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	10.0	9.0	5.5	115.5	3.0	4.5	3.5	8.5
Merged-chr12-3852700-3	chr12	3852668	3852868	+	924.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 3 of 22)	intron (NM_007872, intron 3 of 22)	9476.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	5.5	10.0	9.0	73.0	19.5	4.0	5.0	6.5
Merged-chr7-114301692-3	chr7	114301587	114301787	+	962.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_A_Mam|LINE|RTE-X	-25571.0	NM_011965	26440.0	Mm.121265	NM_011965	ENSMUSG00000030751	Psma1	C2|HC2|Pros-30|alpha-type	proteasome (prosome, macropain) subunit, alpha type 1	protein-coding	25.0	21.5	11.0	344.5	8.0	3.5	2.5	3.5
Merged-chr1-171646623-4	chr1	171646515	171646715	+	900.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347184, intron 1 of 5)	intron (NM_001347184, intron 1 of 5)	2384.0	NM_001347184	75345.0	Mm.164642	NM_144539	ENSMUSG00000038179	Slamf7	19A|19A24|4930560D03Rik|CRACC|CS1	SLAM family member 7	protein-coding	5.0	3.5	6.0	84.5	77.0	21.0	43.0	51.5
Merged-chr1-184558365-4	chr1	184558283	184558483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040472)	promoter-TSS (NR_040472)	-692.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	57.5	118.0	73.0	684.5	103.0	40.5	34.5	27.5
Merged-chr13-110541518-4	chr13	110541429	110541629	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	146485.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	18.5	32.0	23.5	239.0	66.5	26.5	19.0	14.5
Merged-chr12-84019210-4	chr12	84019138	84019338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9736.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	16.0	34.5	16.0	292.0	59.5	36.5	30.5	29.0
Merged-chr15-39785544-7	chr15	39785434	39785634	+	981.9206539999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164466, intron 8 of 9)	intron (NM_001164466, intron 8 of 9)	-11511.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	12.5	15.0	24.5	107.0	35.0	11.5	12.0	7.5
Merged-chr7-55935309-4	chr7	55935191	55935391	+	893.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256131, intron 5 of 5)	intron (NM_001256131, intron 5 of 5)	27202.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	20.5	26.0	16.0	235.5	32.0	6.5	11.5	14.0
Merged-chr15-99099222-4	chr15	99099153	99099353	+	676.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176835)	promoter-TSS (NM_176835)	-231.0	NM_176835	72778.0	Mm.30544	NM_176835	ENSMUSG00000038009	Dnajc22	2810451A06Rik|AI506245	DnaJ heat shock protein family (Hsp40) member C22	protein-coding	15.0	12.0	5.5	147.0	27.0	4.0	9.5	4.5
Merged-chr2-34779584-7	chr2	34779500	34779700	+	958.657166	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145522, intron 7 of 7)	intron (NM_145522, intron 7 of 7)	7510.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	24.0	65.5	8.0	76.5	64.5	43.0	16.0	11.5
Merged-chr6-134141892-1	chr6	134141792	134141992	+	608.0	f0_balb.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	106192.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	10.5	7.5	12.5	96.5	24.0	5.5	6.5	5.0
Merged-chr10-34187937-3	chr10	34187844	34188044	+	675.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	19607.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	10.5	19.0	10.5	162.0	12.5	7.0	7.5	14.5
Merged-chr9-14832235-4	chr9	14832128	14832328	+	971.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018736, intron 18 of 19)	intron (NM_018736, intron 18 of 19)	-27982.0	NM_001310734	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	14.0	15.0	3.5	231.5	47.5	9.5	23.0	14.0
Merged-chr2-50907291-3	chr2	50907183	50907383	+	801.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2401.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	8.5	9.0	12.0	214.5	14.5	7.0	15.5	11.5
Merged-chr4-57947765-1	chr4	57947665	57947865	+	1000.0	f0_c57.idr	intron (NM_011660, intron 3 of 4)	intron (NM_011660, intron 3 of 4)	8646.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	23.5	43.5	23.0	432.0	61.5	24.5	30.5	26.5
Merged-chr2-150136691-4	chr2	150136588	150136788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181266)	promoter-TSS (NM_181266)	-10.0	NM_181266	104348.0	Mm.485851	NM_023266	ENSMUSG00000068134	Zfp120	AI315103|E030042N05Rik|F80|MZF31|Zfp844	zinc finger protein 120	protein-coding	185.0	233.0	190.5	2977.0	519.0	177.5	291.0	232.0
Merged-chr7-97129456-4	chr7	97129361	97129561	+	922.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	CT-rich|Low_complexity|Low_complexity	47710.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	13.5	8.5	7.5	144.0	27.0	14.0	6.5	18.5
Merged-chr19-37428762-3	chr19	37428701	37428901	+	939.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-6040.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	5.5	12.0	6.0	122.0	16.0	10.0	5.5	8.5
Merged-chr7-35172008-4	chr7	35171909	35172109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14376.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	36.5	59.5	48.0	530.5	82.5	34.0	35.5	38.0
Merged-chr14-77923679-4	chr14	77923568	77923768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 1 of 11)	intron (NM_029495, intron 1 of 11)	19429.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	46.5	39.0	37.0	602.5	78.5	34.5	35.5	38.0
Merged-chr5-43880402-3	chr5	43880306	43880506	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	L1MC5a|LINE|L1	11597.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	22.0	37.5	12.5	227.5	30.0	21.5	30.5	18.0
Merged-chr11-75588807-2	chr11	75588707	75588907	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008850, intron 1 of 11)	intron (NM_008850, intron 1 of 11)	728.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	6.5	14.0	8.5	58.5	21.0	4.0	3.5	17.0
Merged-chr9-53692136-4	chr9	53692046	53692246	+	756.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	B2_Mm1a|SINE|B2	14086.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	16.0	7.0	12.0	29.5	24.0	9.0	8.5	12.5
Merged-chr15-56695617-3	chr15	56695492	56695692	+	754.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1046.0	NM_008216	15117.0	Mm.5148	NM_008216	ENSMUSG00000022367	Has2	-	hyaluronan synthase 2	protein-coding	9.5	16.0	11.0	119.0	21.5	8.0	3.0	5.5
Merged-chr15-27662925-4	chr15	27662814	27663014	+	752.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242424, intron 4 of 8)	intron (NM_001242424, intron 4 of 8)	18628.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	8.0	12.0	11.0	151.5	19.0	12.0	7.5	18.5
Merged-chr4-130913292-4	chr4	130913190	130913390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010686)	promoter-TSS (NM_010686)	-44.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	87.0	94.0	55.0	1101.5	161.0	71.5	77.0	80.5
Merged-chr15-50826341-4	chr15	50826248	50826448	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 3 of 5)	L1MEg|LINE|L1	62701.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	34.5	37.0	21.5	657.0	63.5	17.5	23.5	17.5
Merged-chr13-12575178-4	chr13	12575074	12575274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026184, intron 2 of 15)	intron (NM_026184, intron 2 of 15)	9291.0	NM_026184	67475.0	Mm.358706	NM_026184	ENSMUSG00000057069	Ero1lb	1300013B24Rik|1700065B09Rik|AI447560|Ero1b|ero1-beta	ERO1-like beta (S. cerevisiae)	protein-coding	28.5	50.0	40.0	461.0	96.5	23.0	27.5	37.5
Merged-chr16-59560120-4	chr16	59560041	59560241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4389.0	NM_174848	224273.0	Mm.246424	NM_174848	ENSMUSG00000022723	Crybg3	5031404N19|AU022790|Gm9581	beta-gamma crystallin domain containing 3	protein-coding	29.5	31.5	28.5	557.5	111.0	32.5	52.5	45.0
Merged-chr7-31155558-4	chr7	31155456	31155656	+	902.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4385.0	NR_153431	52857.0	Mm.27366	NM_027898	ENSMUSG00000001248	Gramd1a	1300003M23Rik|AI415002|AW547240|D7Bwg0611e	GRAM domain containing 1A	protein-coding	20.0	20.0	21.5	106.5	38.0	13.0	8.5	15.0
Merged-chr10-21907246-4	chr10	21907116	21907316	+	904.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 1 of 13)	intron (NM_001161845, intron 1 of 13)	25032.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	11.0	23.5	16.5	219.5	50.5	12.0	8.5	13.5
Merged-chr7-114190914-4	chr7	114190791	114190991	+	713.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63789.0	NM_033370	70349.0	Mm.277024	NM_033370	ENSMUSG00000030754	Copb1	2610019B04Rik	coatomer protein complex, subunit beta 1	protein-coding	4.0	11.0	9.0	70.0	11.0	11.0	10.5	17.5
Merged-chr2-112261935-4	chr2	112261833	112262033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025403)	promoter-TSS (NM_025403)	7.0	NM_025403	66181.0	Mm.272346	NM_025403	ENSMUSG00000027133	Nop10	1110036B12Rik|NOP10P|Nola3	NOP10 ribonucleoprotein	protein-coding	37.0	69.0	29.0	531.0	102.0	33.0	81.5	45.0
Merged-chr3-65527809-1	chr3	65527709	65527909	+	1000.0	f0_balb.idr	promoter-TSS (NM_178892)	promoter-TSS (NM_178892)	-638.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	57.0	59.0	45.5	802.0	119.5	56.0	66.0	82.0
Merged-chr15-101981511-4	chr15	101981409	101981609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22833.0	NM_031170	16691.0	Mm.358618	NM_031170	ENSMUSG00000049382	Krt8	AA960620|AL022697|AU019895|Card2|EndoA|K8|Krt-2.8|Krt2-8	keratin 8	protein-coding	41.0	43.5	53.0	685.0	55.5	18.5	34.0	35.5
Merged-chr4-144995985-3	chr4	144995885	144996085	+	907.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 67 of 69)	intron (NM_001276465, intron 67 of 69)	102848.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	14.0	17.5	14.0	268.5	12.0	3.5	1.5	6.0
Merged-chr9-123927436-4	chr9	123927324	123927524	+	904.162476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41268.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	18.0	20.0	9.5	360.0	47.5	12.0	10.0	27.0
Merged-chr2-30393068-4	chr2	30392971	30393171	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020329, intron 1 of 7)	intron (NM_020329, intron 1 of 7)	817.0	NM_001290508	57170.0	Mm.285167	NM_020329	ENSMUSG00000026856	Dolpp1	0610011H20Rik|AB030189|LSFR2	dolichyl pyrophosphate phosphatase 1	protein-coding	19.0	26.0	14.0	236.0	60.5	26.5	23.0	15.0
Merged-chr3-54245248-2	chr3	54245148	54245348	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 3 of 11)	intron (NM_001253682, intron 3 of 11)	89191.0	NM_001253682	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	7.0	5.0	3.0	98.5	15.0	6.0	5.0	12.5
Merged-chr7-63933997-4	chr7	63933889	63934089	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	4926.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	11.0	14.0	12.0	254.0	44.5	20.0	22.0	20.0
Merged-chr19-32932766-4	chr19	32932666	32932866	+	783.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	175189.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	4.0	10.0	8.0	205.5	17.5	9.0	4.5	6.5
Merged-chr7-101679806-3	chr7	101679695	101679895	+	732.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009191, intron 2 of 15)	intron (NM_009191, intron 2 of 15)	16027.0	NM_009191	20480.0	Mm.3990	NM_009191	ENSMUSG00000001829	Clpb	AL118244|Skd3	ClpB caseinolytic peptidase B	protein-coding	4.0	11.0	6.5	98.5	17.0	6.0	6.5	9.0
Merged-chr13-101768284-4	chr13	101768177	101768377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077495)	promoter-TSS (NM_001077495)	-60.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	157.0	183.0	226.0	2615.0	503.5	150.5	201.5	204.0
Merged-chr5-125339237-4	chr5	125339146	125339346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	1848.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	65.0	80.0	51.0	922.0	107.5	37.0	47.5	39.5
Merged-chr15-6570629-4	chr15	6570538	6570738	+	834.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9209.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	10.5	17.5	9.0	74.0	65.5	11.0	11.5	19.0
Merged-chr10-68673672-4	chr10	68673577	68673777	+	748.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	-50069.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	5.5	12.0	7.5	129.5	25.5	7.5	11.5	10.5
Merged-chr15-99469248-4	chr15	99469150	99469350	+	859.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029236)	TTS (NM_029236)	5480.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	12.5	26.0	10.5	118.5	30.5	8.5	16.0	15.0
Merged-chr18-60748697-4	chr18	60748587	60748787	+	917.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008306)	promoter-TSS (NM_008306)	-22.0	NM_008306	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	19.5	34.0	26.5	183.5	27.0	15.0	16.0	9.5
Merged-chr10-39171294-4	chr10	39171191	39171391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7497.0	NM_001127376	327743.0	Mm.208111	NM_001127376	ENSMUSG00000062074	Wisp3	CCN6|Gm735|WISP-3	WNT1 inducible signaling pathway protein 3	protein-coding	51.5	95.5	30.0	716.5	117.5	57.0	46.5	41.0
Merged-chr3-88772622-4	chr3	88772525	88772725	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018804)	promoter-TSS (NM_018804)	-26.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	40.0	82.0	5.0	209.0	81.5	28.0	27.5	23.0
Merged-chr10-24670812-3	chr10	24670709	24670909	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308329, intron 6 of 24)	intron (NM_001308329, intron 6 of 24)	41350.0	NM_001308327	18605.0	Mm.27254	NM_008813	ENSMUSG00000037370	Enpp1	4833416E15Rik|AI428932|C76301|CD203c|E-NPP 1|E-NPP1|Ly-41|M6S1|NPP1|Npps|PC-1|Pca|Pca-1|Pdnp1|ttw|twy	ectonucleotide pyrophosphatase/phosphodiesterase 1	protein-coding	10.0	10.0	42.0	784.5	1.5	2.0	1.5	3.0
Merged-chr18-49979329-4	chr18	49979220	49979420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177760)	promoter-TSS (NM_001177760)	-107.0	NM_001177760	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	234.5	288.5	171.0	2957.0	529.5	169.5	240.0	178.5
Merged-chr10-43827477-3	chr10	43827366	43827566	+	766.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131055, intron 1 of 2)	ORR1E|LTR|ERVL-MaLR	1559.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	8.5	11.0	8.0	116.5	12.5	2.0	4.0	7.0
Merged-chr10-127291258-1	chr10	127291158	127291358	+	1000.0	f0_balb.idr	intron (NM_001290183, intron 1 of 2)	intron (NM_001290183, intron 1 of 2)	465.0	NM_001290183	13198.0	Mm.110220	NM_007837	ENSMUSG00000025408	Ddit3	CHOP-10|CHOP10|chop|gadd153	DNA-damage inducible transcript 3	protein-coding	32.5	83.5	39.0	476.0	97.0	59.5	38.0	51.0
Merged-chr17-24015818-5	chr17	24015613	24015813	+	789.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17613.0	NM_133731	70835.0	Mm.157351	NM_133731	ENSMUSG00000045027	Prss22	4733401N09Rik|BSSP-4|SP001LA	protease, serine 22	protein-coding	2.5	3.5	5.5	18.0	9.5	6.5	4.5	7.0
Merged-chr9-109039192-4	chr9	109039085	109039285	+	878.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025858, intron 1 of 5)	intron (NM_025858, intron 1 of 5)	618.0	NM_025858	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	11.0	25.0	5.5	117.0	29.5	14.5	13.5	11.5
Merged-chr19-17319963-4	chr19	17319896	17320096	+	957.87915	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	19509.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	17.5	9.5	17.5	294.0	31.5	7.0	14.0	13.0
Merged-chr11-77216834-5	chr11	77216701	77216901	+	900.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 1 of 14)	intron (NM_177710, intron 1 of 14)	376.0	NM_177710	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	14.5	13.0	9.0	86.0	16.5	8.5	10.0	6.5
Merged-chr9-59548998-4	chr9	59548891	59549091	+	886.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	9451.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	6.5	11.5	8.5	186.0	32.5	7.0	14.5	11.0
Merged-chr9-75196542-4	chr9	75196430	75196630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010864, intron 32 of 40)	intron (NM_010864, intron 32 of 40)	-35484.0	NM_001081322	208943.0	Mm.41339	NM_001081322	ENSMUSG00000033590	Myo5c	9130003O20Rik|BB085560|C330029I24	myosin VC	protein-coding	67.0	56.5	58.5	898.0	138.5	64.0	39.0	56.5
Merged-chr10-8849636-4	chr10	8849534	8849734	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 2 of 19)	RSINE1|SINE|B4	36436.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	23.0	45.5	30.0	573.5	20.5	15.0	17.0	9.0
Merged-chr5-96793464-4	chr5	96793400	96793600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013470, exon 1 of 13)	5' UTR (NM_013470, exon 1 of 13)	115.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	20.0	25.5	33.5	335.5	37.5	27.5	16.0	24.5
Merged-chr17-87397326-4	chr17	87397231	87397431	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029298, intron 5 of 6)	intron (NM_029298, intron 5 of 6)	30410.0	NM_029298	75467.0	Mm.50108	NM_029298	ENSMUSG00000036557	Stpg4	1700011E24Rik|GSE	sperm tail PG rich repeat containing 4	protein-coding	30.5	24.0	58.0	732.5	63.5	10.0	33.0	42.5
Merged-chr1-33906263-4	chr1	33906172	33906372	+	859.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	intron (NM_177235, intron 1 of 6)	1349.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	11.0	15.5	19.0	264.0	28.5	8.5	3.0	10.0
Merged-chr15-25364833-4	chr15	25364823	25365023	+	805.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	48841.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	6.5	7.0	6.0	41.0	6.0	13.0	0.5	3.5
Merged-chr4-139622768-4	chr4	139622678	139622878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175438)	promoter-TSS (NM_175438)	-116.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	101.0	143.0	45.0	856.5	330.5	111.5	138.5	115.5
Merged-chr6-15728466-4	chr6	15728377	15728577	+	847.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	7816.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	12.0	12.0	13.0	314.0	39.5	11.5	9.0	16.0
Merged-chr5-65096253-3	chr5	65096156	65096356	+	968.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-11312.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	4.5	3.0	5.5	187.5	51.0	14.0	17.5	22.0
Merged-chr1-161252019-4	chr1	161251922	161252122	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007453)	promoter-TSS (NM_007453)	-812.0	NM_001303408	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	25.5	41.5	21.0	398.5	69.5	14.0	29.0	25.5
Merged-chr4-122990134-2	chr4	122990034	122990234	+	555.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-5797.0	NM_001303121	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	7.0	16.0	5.0	40.5	8.5	3.0	6.0	4.0
Merged-chr8-56313806-4	chr8	56313729	56313929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 4 of 6)	intron (NM_008278, intron 4 of 6)	19277.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	123.5	120.5	127.5	1844.0	200.5	74.5	90.0	81.0
Merged-chr2-157426927-2	chr2	157426847	157427047	+	839.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 1 of 13)	GA-rich|Low_complexity|Low_complexity	2654.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	8.5	11.0	9.5	56.5	16.0	4.5	4.5	6.5
Merged-chr5-123891864-4	chr5	123891782	123891982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11862.0	NM_175520	243270.0	Mm.33362	NM_175520	ENSMUSG00000049241	Hcar1	Gpr81	hydrocarboxylic acid receptor 1	protein-coding	36.5	66.5	21.0	352.0	111.5	40.0	33.5	24.0
Merged-chr2-167007054-4	chr2	167006961	167007161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8252.0	NM_153065	228889.0	Mm.295031	NM_153065	ENSMUSG00000017999	Ddx27	C86129	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27	protein-coding	101.0	136.0	81.5	1186.0	261.5	70.0	105.0	111.0
Merged-chr13-42096251-4	chr13	42096146	42096346	+	967.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	44225.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	11.5	22.5	32.5	240.5	49.5	15.0	15.5	17.0
Merged-chr13-67194522-4	chr13	67194421	67194621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001048204)	promoter-TSS (NM_001048204)	15.0	NM_001048204	218311.0	Mm.82396	NM_183156	ENSMUSG00000051037	Zfp455	3732412P20Rik|Rslcan-10	zinc finger protein 455	protein-coding	64.0	56.5	68.0	679.5	228.0	48.0	109.5	59.0
Merged-chr19-12435138-7	chr19	12435054	12435254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7249.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	110.5	218.5	262.0	1921.5	238.0	96.5	115.0	78.0
Merged-chr3-15861490-1	chr3	15861390	15861590	+	640.0	f0_balb.idr	Intergenic	RLTR45|LTR|ERVK	-13003.0	NM_001173459	100038947.0	Mm.330924	NM_001173459	ENSMUSG00000074677	LOC100038947	-	signal-regulatory protein beta 1-like	protein-coding	8.0	16.0	13.5	89.0	8.5	4.5	5.0	10.0
Merged-chr13-94838293-3	chr13	94838193	94838393	+	928.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009321, intron 3 of 3)	intron (NM_009321, intron 3 of 3)	-37334.0	NM_011021	18420.0	Mm.42051	NM_011021	ENSMUSG00000021685	Otp	-	orthopedia homeobox	protein-coding	11.0	15.0	7.0	307.0	23.0	3.5	6.5	15.5
Merged-chr7-128063500-4	chr7	128063384	128063584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 1 of 29)	intron (NM_008401, intron 1 of 29)	844.0	NM_008401	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	78.5	96.5	97.5	1357.0	107.0	39.0	41.5	68.5
Merged-chr4-119978051-4	chr4	119977967	119978167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	163389.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	112.5	166.0	120.5	1485.5	299.0	114.5	139.0	117.0
Merged-chr19-46960404-3	chr19	46960317	46960517	+	818.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	ID4_|SINE|ID	1934.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	10.5	6.0	4.5	130.5	10.5	8.0	2.5	6.0
Merged-chr10-118810862-3	chr10	118810772	118810972	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58031.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	34.5	49.0	33.0	414.5	95.0	37.0	47.0	37.5
Merged-chr17-87303700-4	chr17	87303592	87303792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	intron (NM_028639, intron 3 of 19)	20806.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	42.0	63.5	37.5	568.0	114.0	49.5	36.0	51.5
Merged-chr6-17770743-4	chr6	17770658	17770858	+	983.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	21588.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	26.0	37.0	18.0	367.5	58.5	21.0	35.5	13.5
Merged-chr15-66845503-4	chr15	66845367	66845567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 45 of 47)	intron (NM_009375, intron 45 of 47)	-13638.0	NM_009192	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	134.0	221.0	163.5	1856.0	291.5	101.0	128.0	94.5
Merged-chr11-84597775-4	chr11	84597671	84597871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72111.0	NR_038057	78365.0	Mm.260345	NR_038057	ENSMUSG00000087211	Lhx1os	1500016L03Rik|Lhx1as	LIM homeobox 1, opposite strand	ncRNA	97.0	95.5	91.5	1620.5	170.0	57.5	102.0	102.5
Merged-chr12-102333313-4	chr12	102333194	102333394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 3 of 9)	intron (NM_177620, intron 3 of 9)	49653.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	30.5	37.0	35.5	631.5	63.0	11.0	34.5	32.0
Merged-chr11-33932075-4	chr11	33931990	33932190	+	973.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190886, intron 1 of 7)	intron (NM_001190886, intron 1 of 7)	-30923.0	NM_031169	16533.0	Mm.6206	NM_031169	ENSMUSG00000020155	Kcnmb1	BKbeta1	potassium large conductance calcium-activated channel, subfamily M, beta member 1	protein-coding	21.5	20.0	4.5	277.0	35.0	17.5	13.0	20.5
Merged-chr2-73513449-4	chr2	73513360	73513560	+	933.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	16027.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	8.0	14.5	17.0	369.5	22.0	4.0	12.5	12.5
Merged-chr2-152830679-4	chr2	152830570	152830770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289717)	promoter-TSS (NM_001289717)	47.0	NM_001289716	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	89.0	180.0	88.5	1664.5	242.5	81.5	120.0	88.5
Merged-chr8-108767254-4	chr8	108767157	108767357	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	52613.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	12.0	12.5	8.5	236.0	35.0	9.0	13.0	21.5
Merged-chr4-11110384-4	chr4	11110314	11110514	+	853.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13544.0	NR_151526	100503518.0	Mm.102270	NR_151526	ENSMUSG00000086765	Gm11827	-	predicted gene 11827	ncRNA	7.5	7.0	9.0	136.5	20.0	10.5	7.0	10.0
Merged-chr3-146642125-3	chr3	146642002	146642202	+	907.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045949, exon 1 of 4)	non-coding (NR_045949, exon 1 of 4)	170.0	NR_045949	100286843.0	Mm.475299	NR_045949	ENSMUSG00000085810	Gm16325	-	predicted gene 16325	ncRNA	20.5	7.5	18.5	275.5	15.0	8.5	9.5	3.5
Merged-chr12-100568259-4	chr12	100568162	100568362	+	886.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 14 of 17)	intron (NM_153587, intron 14 of 17)	-47440.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	9.0	28.0	18.5	267.0	26.5	5.5	22.5	13.0
Merged-chr7-17066575-4	chr7	17066446	17066646	+	846.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4119.0	NM_001162950	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	16.0	6.0	10.0	167.5	27.5	3.0	9.5	8.5
Merged-chr1-175619990-4	chr1	175619873	175620073	+	794.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010209, intron 1 of 9)	RMER19B|LTR|ERVK	5662.0	NM_010209	14194.0	Mm.41502	NM_010209	ENSMUSG00000026526	Fh1	Fh|Fh-1	fumarate hydratase 1	protein-coding	10.5	10.5	11.0	143.0	22.0	6.5	10.5	8.5
Merged-chr10-128589757-4	chr10	128589651	128589851	+	893.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010153)	promoter-TSS (NM_010153)	-250.0	NM_010153	13867.0	Mm.373043	NM_010153	ENSMUSG00000018166	Erbb3	C76256|Erbb-3|Erbb3r|Her3	erb-b2 receptor tyrosine kinase 3	protein-coding	8.5	13.5	14.5	104.0	31.5	10.5	18.5	14.5
Merged-chr15-81948732-4	chr15	81948643	81948843	+	780.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145473, intron 3 of 3)	intron (NM_145473, intron 3 of 3)	11984.0	NM_145473	105859.0	Mm.22524	NM_145473	ENSMUSG00000042109	Csdc2	AI415250|AI481750|Pippin	cold shock domain containing C2, RNA binding	protein-coding	3.0	11.5	8.5	90.5	27.0	4.5	8.5	11.5
Merged-chr4-135353676-3	chr4	135353538	135353738	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130477)	promoter-TSS (NM_001130477)	-424.0	NM_001130477	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	60.0	68.0	55.5	749.5	184.5	53.5	78.0	48.0
Merged-chr7-114117100-4	chr7	114116999	114117199	+	921.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	CpG	682.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	23.0	51.0	41.0	447.5	35.5	3.0	15.5	22.0
Merged-chr2-83724412-4	chr2	83724317	83724517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008402)	promoter-TSS (NM_008402)	20.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	90.0	158.5	133.0	2347.5	307.5	133.0	150.5	122.5
Merged-chr11-62005709-4	chr11	62005614	62005814	+	887.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310526, intron 1 of 7)	intron (NM_001310526, intron 1 of 7)	48951.0	NM_001310526	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	11.0	28.5	24.5	167.5	27.5	18.0	15.5	15.5
Merged-chr11-116096907-3	chr11	116096813	116097013	+	749.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-9918.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	3.5	13.0	0.0	44.0	16.5	4.5	13.5	7.5
Merged-chr3-152932255-4	chr3	152932145	152932345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	49962.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	18.0	11.0	29.0	517.5	74.0	9.0	52.0	48.0
Merged-chr1-161251255-4	chr1	161251137	161251337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007453)	promoter-TSS (NM_007453)	-27.0	NM_001303408	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	46.0	94.5	49.5	1425.5	195.5	81.0	82.0	53.5
Merged-chr11-106008034-4	chr11	106007927	106008127	+	706.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037712)	promoter-TSS (NM_001037712)	-176.0	NM_001037712	192775.0	Mm.343850	NM_001037712	ENSMUSG00000001901	Kcnh6	m-erg2	potassium voltage-gated channel, subfamily H (eag-related), member 6	protein-coding	8.5	6.0	13.5	69.0	23.0	8.0	9.5	6.5
Merged-chr8-40861819-1	chr8	40861719	40861919	+	671.0	f0_c57.idr	promoter-TSS (NM_001044740)	promoter-TSS (NM_001044740)	-548.0	NM_007514	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	0.0	0.0	2.0	14.0	28.0	6.0	9.5	7.5
Merged-chr3-121329778-4	chr3	121329700	121329900	+	779.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 2 of 2)	intron (NR_155539, intron 2 of 2)	38060.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	12.5	7.0	8.5	98.0	26.0	3.0	15.0	6.0
Merged-chr7-110840533-4	chr7	110840417	110840617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025999, intron 1 of 5)	L3|LINE|CR1	3864.0	NM_025999	67150.0	Mm.96867	NM_025999	ENSMUSG00000030788	Rnf141	2610110L04Rik|AA792898|AU022812|ZFP36|ZNF230	ring finger protein 141	protein-coding	111.0	150.0	85.0	1552.0	220.0	69.0	90.0	106.0
Merged-chr3-84228365-2	chr3	84228265	84228465	+	832.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271726, intron 1 of 11)	intron (NM_001271726, intron 1 of 11)	-7488.0	NM_030706	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	12.5	7.5	4.5	72.5	7.5	3.5	5.0	6.0
Merged-chr7-28601928-3	chr7	28601828	28602028	+	951.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3744.0	NM_027470	70584.0	Mm.21876	NM_027470	ENSMUSG00000030602	Pak4	5730488L07Rik|AW555722|mKIAA1142	p21 (RAC1) activated kinase 4	protein-coding	22.5	33.5	12.0	150.0	32.5	7.5	9.5	8.0
Merged-chr18-76380341-1	chr18	76380241	76380441	+	634.333313	f1_c57bl6.idr	Intergenic	Intergenic	117896.0	NM_001311070	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	0.5	4.0	2.0	9.0	11.0	5.0	6.0	5.5
Merged-chr1-134078402-3	chr1	134078314	134078514	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007570, intron 1 of 1)	intron (NM_007570, intron 1 of 1)	741.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	26.0	45.0	27.0	202.5	57.5	26.0	35.0	37.0
Merged-chr7-49762846-4	chr7	49762722	49762922	+	824.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146053, intron 3 of 5)	intron (NM_001146053, intron 3 of 5)	3310.0	NM_001146052	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	19.0	19.0	17.0	215.0	16.5	7.5	5.5	10.5
Merged-chr15-38284069-4	chr15	38283965	38284165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15835.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	28.0	47.0	30.5	394.0	81.0	16.0	35.5	22.0
Merged-chr16-38550211-4	chr16	38550088	38550288	+	958.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001300827)	promoter-TSS (NM_001300827)	68.0	NR_153380	224143.0	Mm.284366	NM_172380	ENSMUSG00000034064	Poglut1	9630046K23Rik|Clp46|Ktelc1|Rumi|wsnp	protein O-glucosyltransferase 1	protein-coding	35.0	34.5	38.5	475.5	60.0	22.5	18.0	20.5
Merged-chr2-38932006-3	chr2	38931925	38932125	+	719.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172854)	promoter-TSS (NM_172854)	45.0	NM_172854	241327.0	Mm.103491	NM_172854	ENSMUSG00000046618	Olfml2a	4932431K08Rik|mFLJ00237	olfactomedin-like 2A	protein-coding	15.0	13.5	20.5	144.5	15.5	4.0	5.0	9.5
Merged-chr13-25562874-3	chr13	25562767	25562967	+	958.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-292871.0	NM_009513	22360.0	Mm.4766	NM_009513	ENSMUSG00000048978	Nrsn1	Neurensin-1|Neuro-p24|Vmp	neurensin 1	protein-coding	2.5	3.5	10.0	105.0	14.0	5.5	10.0	11.0
Merged-chr1-94721221-4	chr1	94721131	94721331	+	941.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76211.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	18.5	24.0	12.5	336.0	52.5	12.5	19.5	11.0
Merged-chr2-117052570-2	chr2	117052470	117052670	+	688.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER3D-int|LTR|ERVK	-68501.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	0.0	7.5	17.0	56.5	15.0	6.5	13.5	5.5
Merged-chr13-102693505-4	chr13	102693395	102693595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008533)	promoter-TSS (NM_008533)	-52.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	46.5	70.5	62.0	1281.0	130.5	58.5	69.5	69.0
Merged-chr2-60209836-4	chr2	60209752	60209952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020575)	promoter-TSS (NM_020575)	-84.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	142.5	199.0	105.5	1676.0	467.5	161.0	172.0	150.0
Merged-chr12-34751714-1	chr12	34751614	34751814	+	584.333313	f0_balb.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	165381.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	9.5	7.0	5.0	128.0	3.5	2.0	2.5	1.5
Merged-chr11-120349626-3	chr11	120349515	120349715	+	852.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038126, intron 1 of 1)	CpG	937.0	NR_038126	66838.0	Mm.375010	NR_038126	ENSMUSG00000043644	0610009L18Rik	-	RIKEN cDNA 0610009L18 gene	ncRNA	12.0	19.0	10.0	108.5	32.5	17.0	15.0	22.0
Merged-chr12-86796067-4	chr12	86795974	86796174	+	973.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61705.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	25.0	34.0	21.0	166.0	55.0	27.5	20.0	19.0
Merged-chr5-36560722-3	chr5	36560619	36560819	+	723.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	intron (NM_133910, intron 2 of 13)	21678.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	0.0	0.0	0.0	0.0	30.5	12.0	13.5	10.5
Merged-chr4-12483224-2	chr4	12483124	12483324	+	972.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-311209.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	7.0	13.5	8.5	49.0	32.0	7.0	3.5	8.0
Merged-chr7-107516895-4	chr7	107516791	107516991	+	934.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021889, intron 6 of 6)	Lx8|LINE|L1	-50542.0	NM_172907	244198.0	Mm.77425	NM_172907	ENSMUSG00000051041	Olfml1	6720478C22|AV321997|BC047207|MVAL564|ONT2|mONT2	olfactomedin-like 1	protein-coding	17.0	14.0	32.0	369.5	47.5	17.5	17.5	15.0
Merged-chr4-59594756-4	chr4	59594606	59594806	+	950.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301367, intron 5 of 11)	MTC|LTR|ERVL-MaLR	13143.0	NM_024255	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	3.0	5.5	5.5	117.0	20.0	15.0	15.5	14.0
Merged-chr17-83297567-3	chr17	83297490	83297690	+	796.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-53341.0	NM_001114361	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	6.5	5.0	4.5	67.5	5.5	5.5	5.5	10.5
Merged-chr5-139742854-4	chr5	139742753	139742953	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-6520.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	8.5	17.5	17.5	197.0	44.5	23.0	14.5	20.0
Merged-chr3-89430299-4	chr3	89430206	89430406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293763)	promoter-TSS (NM_001293763)	92.0	NM_001293763	68911.0	Mm.22521	NM_026869	ENSMUSG00000047824	Pygo2	1190004M21Rik	pygopus 2	protein-coding	182.5	271.0	165.0	3171.0	333.5	145.0	220.0	125.0
Merged-chr7-141456072-4	chr7	141455970	141456170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025802, intron 1 of 7)	intron (NM_025802, intron 1 of 7)	882.0	NM_001163689	66853.0	Mm.29998	NM_025802	ENSMUSG00000025509	Pnpla2	0610039C21Rik|1110001C14Rik|Atgl|TTS-2.2	patatin-like phospholipase domain containing 2	protein-coding	48.0	55.0	62.0	724.0	92.5	58.5	62.0	57.5
Merged-chr5-43867410-4	chr5	43867295	43867495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3B|LINE|L1	-1414.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	25.5	69.5	53.5	200.5	98.0	42.5	68.0	35.5
Merged-chr11-98360729-2	chr11	98360629	98360829	+	840.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_021547, intron 1 of 14)	intron (NM_021547, intron 1 of 14)	2361.0	NM_021547	59045.0	Mm.265546	NM_021547	ENSMUSG00000018167	Stard3	Mln64|es64	START domain containing 3	protein-coding	5.0	6.5	4.5	48.5	7.5	3.5	2.5	5.5
Merged-chr5-105507773-4	chr5	105507639	105507839	+	921.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-11732.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	6.5	10.5	15.5	84.0	1.5	1.0	0.5	1.5
Merged-chr11-75513502-4	chr11	75513405	75513605	+	972.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004157)	promoter-TSS (NM_001004157)	-36.0	NM_001004157	380713.0	Mm.10486	NM_001004157	ENSMUSG00000038188	Scarf1	AA986099|SREC|SREC-I|mKIAA0149	scavenger receptor class F, member 1	protein-coding	36.0	25.5	13.0	233.0	59.5	11.5	25.0	8.5
Merged-chr10-78370498-3	chr10	78370404	78370604	+	734.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-18804.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	7.5	16.5	3.0	33.0	23.0	11.0	10.5	7.5
Merged-chr17-47795627-4	chr17	47795509	47795709	+	858.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9865.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	8.0	8.5	9.5	135.0	24.0	6.5	24.5	9.5
Merged-chr11-69758652-4	chr11	69758565	69758765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291068)	promoter-TSS (NM_001291068)	-32.0	NM_001291068	20020.0	Mm.16533	NM_009089	ENSMUSG00000005198	Polr2a	220kDa|Rpb1|Rpo2-1	polymerase (RNA) II (DNA directed) polypeptide A	protein-coding	188.5	278.0	158.0	2056.5	431.5	186.0	180.5	151.0
Merged-chr14-33216526-4	chr14	33216420	33216620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153800)	promoter-TSS (NM_153800)	-303.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	28.5	39.0	45.0	659.0	81.5	18.5	22.5	33.0
Merged-chr18-82751416-4	chr18	82751324	82751524	+	967.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7615.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	19.5	15.5	13.0	236.0	51.5	16.0	20.0	19.0
Merged-chr16-4920789-4	chr16	4920708	4920908	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 9 of 17)	intron (NM_001357062, intron 9 of 17)	-18303.0	NM_001316715	66911.0	Mm.428698	NM_025839	ENSMUSG00000022516	Nudt16l1	1110001K21Rik|5330437I08Rik|Sdos	nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1	protein-coding	20.5	36.0	21.0	356.5	73.5	15.5	22.5	29.5
Merged-chr19-41341820-4	chr19	41341718	41341918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	43252.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	94.5	151.0	100.0	1547.5	153.0	59.5	74.0	62.0
Merged-chr12-100791649-4	chr12	100791545	100791745	+	954.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361017, intron 3 of 14)	intron (NM_001361017, intron 3 of 14)	12588.0	NM_145448	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	26.0	41.5	22.0	315.5	31.0	16.5	21.5	14.5
Merged-chr13-52277385-4	chr13	52277288	52277488	+	922.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	180647.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	15.5	36.0	28.5	506.5	30.0	12.5	26.5	23.5
Merged-chr5-151142400-4	chr5	151142301	151142501	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153382, intron 1 of 13)	intron (NR_153382, intron 1 of 13)	47792.0	NM_001163493	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	12.0	28.5	4.0	151.0	63.5	14.5	19.0	12.0
Merged-chr10-127675332-4	chr10	127675210	127675410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1755.0	NM_173732	210035.0	Mm.251075	NM_173732	ENSMUSG00000040195	Nemp1	Tmem194|Tmem194a	nuclear envelope integral membrane protein 1	protein-coding	14.0	27.0	13.5	188.5	65.5	29.0	19.0	24.0
Merged-chr12-100529420-4	chr12	100529313	100529513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8591.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	39.5	73.0	40.0	556.0	101.5	39.5	28.5	39.0
Merged-chr8-34817870-3	chr8	34817783	34817983	+	789.166687	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_176933, intron 3 of 3)	intron (NM_176933, intron 3 of 3)	10273.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	9.0	8.0	5.0	137.0	28.5	5.5	11.5	8.0
Merged-chr17-71094017-4	chr17	71093921	71094121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 21 of 36)	intron (NM_001083934, intron 21 of 36)	74464.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	47.0	90.5	40.5	777.0	135.0	62.5	39.5	37.0
Merged-chr1-138619705-3	chr1	138619610	138619810	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311148)	promoter-TSS (NM_001311148)	47.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	46.5	60.0	56.5	476.5	66.5	33.5	43.5	43.5
Merged-chr8-78508467-4	chr8	78508379	78508579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029736)	promoter-TSS (NM_029736)	89.0	NM_001358975	19656.0	Mm.24718	NM_009033	ENSMUSG00000037070	Rbmxl1	Hnrpg|Rbmx|Rbmxrt	RNA binding motif protein, X-linked like-1	protein-coding	32.0	20.5	29.5	369.0	92.0	30.5	39.0	45.5
Merged-chr18-80311155-4	chr18	80311037	80311237	+	914.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190373, intron 3 of 3)	intron (NM_001190373, intron 3 of 3)	53117.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	14.0	22.0	28.0	409.5	37.0	10.0	12.0	15.0
Merged-chr8-37215770-4	chr8	37215674	37215874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-191536.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	20.0	31.5	33.0	688.5	90.5	22.0	35.0	34.5
Merged-chr6-54933525-1	chr6	54933425	54933625	+	679.0	f0_balb.idr	intron (NM_001171007, intron 9 of 11)	intron (NM_001171007, intron 9 of 11)	38136.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	3.5	10.5	5.0	116.0	10.0	8.5	5.0	14.0
Merged-chr4-134286367-4	chr4	134286301	134286501	+	920.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146156, intron 1 of 2)	intron (NM_146156, intron 1 of 2)	852.0	NM_001163794	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	18.0	11.5	12.5	184.5	50.5	20.5	17.0	9.5
Merged-chr6-87732536-3	chr6	87732433	87732633	+	693.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 1 of 7)	intron (NM_001159697, intron 1 of 7)	1664.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	16.5	15.5	21.0	149.0	30.0	5.0	0.0	11.0
Merged-chr4-149954300-4	chr4	149954208	149954408	+	860.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029035, intron 1 of 2)	CpG	698.0	NM_029035	74646.0	Mm.30	NM_029035	ENSMUSG00000039911	Spsb1	1110014L01Rik|4930422J18Rik|AI596360|AI854583|SSB-1|SSB1	splA/ryanodine receptor domain and SOCS box containing 1	protein-coding	11.5	7.5	12.5	120.5	27.5	11.5	10.5	14.5
Merged-chr9-114898930-3	chr9	114898840	114899040	+	680.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175380)	TTS (NM_175380)	35047.0	NM_175380	333433.0	Mm.38198	NM_175380	ENSMUSG00000050627	Gpd1l	2210409H23Rik|D9Ertd660e	glycerol-3-phosphate dehydrogenase 1-like	protein-coding	6.5	6.0	6.0	92.0	16.0	6.5	9.5	7.5
Merged-chr1-183320947-4	chr1	183320835	183321035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181732, intron 8 of 9)	intron (NM_181732, intron 8 of 9)	-23642.0	NR_151660	71678.0	Mm.392270	NM_027861	ENSMUSG00000046836	Brox	0610010K06Rik	BRO1 domain and CAAX motif containing	protein-coding	40.0	60.5	38.0	490.5	70.0	41.0	28.5	29.0
Merged-chr14-48130983-1	chr14	48130883	48131083	+	699.0	f0_balb.idr	intron (NM_033602, intron 1 of 5)	intron (NM_033602, intron 1 of 5)	10114.0	NM_033602	93834.0	Mm.296457	NM_033602	ENSMUSG00000021846	Peli2	AW047589|BB129927	pellino 2	protein-coding	9.5	8.0	9.0	95.5	2.0	0.0	2.5	3.0
Merged-chr15-62127992-4	chr15	62127901	62128101	+	868.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 2 of 6)	intron (NR_132746, intron 2 of 6)	88744.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	26.0	12.5	18.5	381.0	24.0	15.5	13.5	11.0
Merged-chr5-74531768-4	chr5	74531676	74531876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178672)	promoter-TSS (NM_178672)	-34.0	NM_001114660	212986.0	Mm.134147	NM_178672	ENSMUSG00000062110	Scfd2	E430013M20Rik|STXBP1L1	Sec1 family domain containing 2	protein-coding	121.0	183.5	107.5	1978.0	411.0	142.5	154.5	141.0
Merged-chr12-112594042-2	chr12	112593942	112594142	+	800.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 1 of 22)	intron (NM_198411, intron 1 of 22)	5258.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	6.5	2.5	5.5	80.0	15.0	5.5	8.5	10.0
Merged-chr15-82047427-6	chr15	82047304	82047504	+	955.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011482, intron 1 of 2)	CpG	194.0	NM_011482	20826.0	Mm.299312	NM_011482	ENSMUSG00000063480	Snu13	FA-1|Fta1|Nhp2l1|Ssfa1	SNU13 homolog, small nuclear ribonucleoprotein (U4/U6.U5)	protein-coding	16.0	30.0	16.0	104.0	49.5	17.5	16.5	24.5
Merged-chr5-117123300-3	chr5	117123202	117123402	+	824.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199685, intron 1 of 20)	intron (NM_001199685, intron 1 of 20)	3173.0	NM_001199685	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	9.5	18.0	16.5	188.0	10.0	13.0	4.5	4.5
Merged-chr19-6118067-4	chr19	6118020	6118220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133678, exon 1 of 2)	exon (NM_133678, exon 1 of 2)	466.0	NM_133678	66406.0	Mm.303924	NM_133678	ENSMUSG00000024790	Sac3d1	2410004C24Rik|AU015683|shd1	SAC3 domain containing 1	protein-coding	22.0	45.0	35.0	292.0	60.0	20.5	13.0	28.5
Merged-chr4-33338191-3	chr4	33338095	33338295	+	789.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305273, intron 7 of 15)	intron (NM_001305273, intron 7 of 15)	27884.0	NM_001305273	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	10.0	28.0	14.0	121.5	15.5	9.5	4.0	7.5
Merged-chr7-63824242-3	chr7	63824136	63824336	+	769.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR10_RN|LTR|ERVK	-92621.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	8.5	7.0	9.5	184.5	7.5	3.0	8.0	9.0
Merged-chr17-86125976-4	chr17	86125882	86126082	+	912.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030133, intron 7 of 20)	intron (NM_030133, intron 7 of 20)	19193.0	NM_030133	78586.0	Mm.146236	NM_030133	ENSMUSG00000024135	Srbd1	AI461933|C85414|D530025C17Rik	S1 RNA binding domain 1	protein-coding	14.0	12.0	12.5	351.5	45.0	7.5	15.0	13.0
Merged-chr16-34690604-4	chr16	34690527	34690727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172824)	promoter-TSS (NM_172824)	11.0	NM_172824	239839.0	Mm.272045	NM_172824	ENSMUSG00000022833	Ccdc14	G630039H03Rik	coiled-coil domain containing 14	protein-coding	107.5	192.5	136.5	1633.0	295.0	125.5	146.0	100.5
Merged-chr11-69997337-4	chr11	69997241	69997441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291127)	promoter-TSS (NM_001291127)	-121.0	NM_001291127	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	126.0	194.0	83.5	1446.0	272.0	119.5	117.0	127.0
Merged-chr7-4150968-4	chr7	4150882	4151082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021454)	TTS (NM_021454)	-1110.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	34.0	32.0	23.5	272.5	57.5	20.0	37.0	30.5
Merged-chr5-143329203-4	chr5	143329121	143329321	+	988.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028379)	promoter-TSS (NM_028379)	17.0	NM_001359445	72881.0	Mm.261606	NM_028379	ENSMUSG00000001844	Zdhhc4	1810021D01Rik|2900029I10Rik|DHHC-4	zinc finger, DHHC domain containing 4	protein-coding	16.5	28.5	12.5	207.5	44.5	20.0	18.0	21.0
Merged-chr1-92052429-4	chr1	92052316	92052516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 3 of 26)	intron (NM_207225, intron 3 of 26)	127925.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	57.0	76.0	61.0	1227.0	85.0	28.5	33.5	46.5
Merged-chr3-79089262-4	chr3	79089157	79089357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099624, intron 11 of 23)	intron (NM_001099624, intron 11 of 23)	55630.0	NM_001310536	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	84.0	155.5	67.0	1263.5	109.0	55.0	71.5	64.0
Merged-chr18-5990087-4	chr18	5989999	5990199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	145999.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	161.0	259.0	166.5	3090.5	349.0	138.5	187.0	141.0
Merged-chr8-105996500-4	chr8	105996381	105996581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176913)	promoter-TSS (NM_176913)	-58.0	NM_176913	319446.0	Mm.248357	NM_176913	ENSMUSG00000053687	Dpep2	F630103D06Rik|MBD-2	dipeptidase 2	protein-coding	58.0	55.5	35.0	525.5	67.0	21.0	49.0	40.0
Merged-chr13-37772890-4	chr13	37772815	37773015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53123.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	31.5	51.0	29.0	413.5	62.5	39.0	34.5	28.0
Merged-chr14-57798171-4	chr14	57798086	57798286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142441)	promoter-TSS (NM_001142441)	-3.0	NM_009119	20220.0	Mm.30173	NM_009119	ENSMUSG00000021963	Sap18	C530046K05Rik|D11Ertd539e|EMegR4|Sap18a|Sinbp1	Sin3-associated polypeptide 18	protein-coding	151.5	237.0	121.5	1525.5	451.5	168.5	190.5	142.0
Merged-chr12-79725090-4	chr12	79724992	79725192	+	994.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 8 of 10)	intron (NM_009014, intron 8 of 10)	199641.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	25.0	20.5	7.5	375.0	65.0	16.0	24.0	18.5
Merged-chr2-132145263-6	chr2	132145235	132145435	+	793.049988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355430)	promoter-TSS (NM_001355430)	-15.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	5.5	12.5	7.5	113.5	11.0	4.0	4.5	2.0
Merged-chr18-5764412-3	chr18	5764312	5764512	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360982, intron 5 of 7)	intron (NM_001360982, intron 5 of 7)	171765.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	10.0	9.5	4.5	48.5	63.5	10.0	17.0	25.5
Merged-chr1-192939206-4	chr1	192939114	192939314	+	911.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301370, intron 4 of 8)	GA-rich|Low_complexity|Low_complexity	-83462.0	NM_198247	214791.0	Mm.22806	NM_198247	ENSMUSG00000016262	Sertad4	4833404A09|C130018M11Rik	SERTA domain containing 4	protein-coding	3.5	16.0	7.0	148.0	43.5	14.0	12.5	17.5
Merged-chr2-28537126-2	chr2	28537026	28537226	+	842.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001145836, intron 1 of 17)	B1_Mus1|SINE|Alu	3662.0	NM_001145836	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	10.0	24.0	2.5	80.0	29.5	6.0	8.0	7.5
Merged-chr11-11690258-4	chr11	11690037	11690237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301866)	promoter-TSS (NM_001301866)	-40.0	NM_001301865	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	10.0	14.5	28.0	395.0	47.0	14.0	23.5	25.5
Merged-chr12-105784579-4	chr12	105784476	105784676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347440)	promoter-TSS (NM_001347440)	-121.0	NM_011112	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	246.5	469.5	317.5	4070.0	519.5	200.0	209.5	175.0
Merged-chr11-120571923-2	chr11	120571823	120572023	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011032, intron 1 of 10)	intron (NM_011032, intron 1 of 10)	1330.0	NM_011032	18453.0	Mm.16660	NM_011032	ENSMUSG00000025130	P4hb	ERp59|PDI|Pdia1|Thbp	prolyl 4-hydroxylase, beta polypeptide	protein-coding	5.0	18.5	10.5	60.5	10.5	8.0	4.5	9.5
Merged-chr19-29325341-4	chr19	29325234	29325434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013754)	promoter-TSS (NM_013754)	-16.0	NM_013754	27356.0	Mm.306511	NM_013754	ENSMUSG00000050957	Insl6	RIF1	insulin-like 6	protein-coding	35.0	36.5	32.0	720.0	81.0	24.5	35.0	31.0
Merged-chr6-29768988-3	chr6	29768925	29769125	+	930.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	CpG	582.0	NM_001171000	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	13.0	12.0	14.5	133.5	25.0	9.0	7.5	14.0
Merged-chr13-100824624-3	chr13	100824523	100824723	+	871.7666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022885, intron 4 of 15)	intron (NM_022885, intron 4 of 15)	8804.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	19.0	12.0	6.5	248.0	23.5	7.0	8.5	10.5
Merged-chr2-24977263-4	chr2	24977172	24977372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146251, intron 1 of 34)	intron (NM_146251, intron 1 of 34)	1239.0	NM_146251	241274.0	Mm.389243	NM_146251	ENSMUSG00000036833	Pnpla7	BC027342|E430013P11Rik|Nre	patatin-like phospholipase domain containing 7	protein-coding	79.0	106.5	44.0	1258.0	182.0	50.0	49.0	73.5
Merged-chr3-142577286-4	chr3	142577179	142577379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	16923.0	NM_001289493	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	39.0	84.5	50.0	766.0	112.5	49.5	67.0	41.5
Merged-chr6-50306838-4	chr6	50306751	50306951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 18 of 21)	intron (NM_027881, intron 18 of 21)	-45082.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	42.5	50.5	32.5	904.5	105.0	34.5	42.0	48.5
Merged-chr3-89389239-4	chr3	89389086	89389286	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009565, intron 1 of 2)	intron (NM_009565, intron 1 of 2)	-1515.0	NM_001355206	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	18.5	28.0	14.0	187.0	39.5	15.5	8.5	12.5
Merged-chr2-150788903-3	chr2	150788801	150789001	+	897.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153781, intron 1 of 19)	intron (NM_153781, intron 1 of 19)	2105.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	5.0	6.0	18.0	163.0	18.5	6.0	7.0	5.0
Merged-chr2-79321837-4	chr2	79321739	79321939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010576, intron 24 of 27)	intron (NM_010576, intron 24 of 27)	66413.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	37.0	34.0	69.5	1206.5	100.5	44.5	59.5	62.0
Merged-chr9-63613774-4	chr9	63613676	63613876	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	11130.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	15.0	13.0	23.0	457.5	30.0	8.0	18.5	23.0
Merged-chr14-65380660-4	chr14	65380575	65380775	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 1 of 9)	intron (NM_199029, intron 1 of 9)	21999.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	29.0	27.5	16.5	234.5	26.5	15.0	5.5	12.5
Merged-chr15-96588814-4	chr15	96588733	96588933	+	944.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166456, intron 8 of 15)	intron (NM_001166456, intron 8 of 15)	53129.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	16.5	23.5	30.5	569.5	40.0	9.5	28.5	21.0
Merged-chr3-89210316-4	chr3	89210214	89210414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013604, exon 5 of 8)	exon (NM_013604, exon 5 of 8)	4021.0	NM_013604	17827.0	Mm.280943	NM_013604	ENSMUSG00000064068	Mtx1	Gcap6|Mtx	metaxin 1	protein-coding	107.0	140.0	161.5	2412.5	292.0	81.5	137.0	164.0
Merged-chr4-138024851-3	chr4	138024758	138024958	+	970.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	27033.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	20.5	12.5	19.0	256.5	3.5	0.0	1.0	4.0
Merged-chr9-47531778-2	chr9	47531678	47531878	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	CpG	1426.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	7.0	4.0	3.0	60.0	17.0	5.0	6.0	5.5
Merged-chr10-80590407-4	chr10	80590304	80590504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145421)	promoter-TSS (NM_145421)	-63.0	NM_145421	216169.0	Mm.29802	NM_145421	ENSMUSG00000003346	Abhd17a	1700013O15Rik|BC005632|D10Bwg1364e|Fam108a	abhydrolase domain containing 17A	protein-coding	232.5	366.0	133.0	2238.5	574.0	213.0	242.5	173.5
Merged-chr14-76402417-3	chr14	76402320	76402520	+	881.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12541.0	NM_001310646	21807.0	Mm.153272	NM_009366	ENSMUSG00000022010	Tsc22d1	AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22	TSC22 domain family, member 1	protein-coding	13.0	16.5	5.5	171.0	19.0	1.5	5.5	9.5
Merged-chr4-141977537-4	chr4	141977445	141977645	+	897.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 5 of 31)	intron (NM_177868, intron 5 of 31)	-5447.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	16.0	17.5	13.0	222.0	34.0	13.5	34.0	16.0
Merged-chr6-122486323-2	chr6	122486223	122486423	+	622.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027664)	promoter-TSS (NM_027664)	-18.0	NM_027664	108653.0	Mm.277939	NM_027664	ENSMUSG00000040649	Rimklb	4931417E21Rik|4933426K21Rik|AA097693|AI325948|AU015629|Naags	ribosomal modification protein rimK-like family member B	protein-coding	8.0	5.5	7.5	81.5	11.0	4.0	8.0	5.5
Merged-chr18-39026597-3	chr18	39026494	39026694	+	987.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 1 of 21)	intron (NM_001361073, intron 1 of 21)	33449.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	16.5	18.5	18.0	239.0	9.0	1.5	6.5	2.5
Merged-chr13-85553312-4	chr13	85553213	85553413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-263827.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	82.5	107.5	118.5	1499.0	265.5	73.0	123.5	82.0
Merged-chr16-57530727-4	chr16	57530628	57530828	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-18514.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	20.5	25.0	25.0	515.5	42.5	14.0	12.5	29.0
Merged-chr4-128669830-2	chr4	128669730	128669930	+	996.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	L1MEf|LINE|L1	15128.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	7.0	11.0	4.5	25.0	14.5	1.5	2.0	6.0
Merged-chr2-166188229-4	chr2	166188142	166188342	+	895.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32559.0	NM_028072	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	29.0	22.5	22.0	313.0	42.0	14.0	17.5	17.0
Merged-chr4-88641147-4	chr4	88641051	88641251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3308.0	NM_177347	230396.0	Mm.246592	NM_177347	ENSMUSG00000063376	Ifna13	-	interferon alpha 13	protein-coding	28.0	38.5	43.5	417.0	65.5	21.5	37.0	55.0
Merged-chr1-87035962-4	chr1	87035861	87036061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172157, intron 15 of 21)	intron (NM_001172157, intron 15 of 21)	53967.0	NM_007433	11650.0	Mm.195224	NM_007433	ENSMUSG00000026246	Alppl2	Akp5|C77216|D1Ertd816e|EAP	alkaline phosphatase, placental-like 2	protein-coding	51.0	48.0	82.0	1351.5	80.0	29.0	37.0	56.0
Merged-chr12-85524614-4	chr12	85524523	85524723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50733.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	95.0	174.5	111.5	1234.0	268.5	103.0	100.5	75.5
Merged-chr7-5020391-4	chr7	5020280	5020480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290426)	promoter-TSS (NM_001290426)	4.0	NM_001033383	319748.0	Mm.86607	NM_001033383	ENSMUSG00000074405	Zfp865	6430526N21Rik|Znf865	zinc finger protein 865	protein-coding	132.5	197.5	103.0	1938.5	379.0	145.5	154.5	147.5
Merged-chr1-171411747-1	chr1	171411647	171411847	+	1000.0	f1_balb.idr	promoter-TSS (NM_009480)	promoter-TSS (NM_009480)	66.0	NM_009480	22278.0	Mm.8	NM_009480	ENSMUSG00000026641	Usf1	bHLHb11	upstream transcription factor 1	protein-coding	10.5	10.5	18.5	89.0	13.5	4.0	7.5	20.0
Merged-chr16-13717088-4	chr16	13717026	13717226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011987, intron 3 of 3)	MTC|LTR|ERVL-MaLR	-12710.0	NR_040574	76684.0	Mm.491043	NR_040574	ENSMUSG00000086550	Pla2g10os	1810007I06Rik	phospholipase A2, group X, opposite strand	ncRNA	41.5	62.5	89.0	725.0	63.5	40.0	46.0	62.5
Merged-chr11-48856116-1	chr11	48856016	48856216	+	584.0	f0_c57.idr	Intergenic	Intergenic	15304.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	9.0	14.0	8.0	76.5	28.0	11.5	10.5	9.0
Merged-chr2-129547554-2	chr2	129547454	129547654	+	604.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10952.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	11.5	9.0	6.0	35.0	20.0	1.0	6.5	11.0
Merged-chr9-114789804-3	chr9	114789731	114789931	+	585.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 3 of 3)	intron (NM_027294, intron 3 of 3)	-7838.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	6.0	8.0	6.5	160.0	13.5	7.0	8.5	3.0
Merged-chr6-25894628-1	chr6	25894528	25894728	+	543.0	f1_c57bl6.idr	Intergenic	B3|SINE|B2	-36798.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	4.0	2.5	3.0	86.5	10.0	4.5	5.5	5.0
Merged-chr3-148917999-4	chr3	148917901	148918101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081298, intron 1 of 23)	intron (NM_001081298, intron 1 of 23)	36634.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	23.5	44.5	47.0	662.5	78.5	19.0	40.0	42.0
Merged-chr10-54131890-3	chr10	54131794	54131994	+	875.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55972.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	9.0	13.5	6.0	86.5	17.5	9.0	4.0	5.0
Merged-chr19-32224539-4	chr19	32224440	32224640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 4 of 9)	intron (NM_144792, intron 4 of 9)	-13527.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	56.0	54.0	14.5	382.5	61.5	17.5	10.0	13.5
Merged-chr4-95216179-4	chr4	95216097	95216297	+	919.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4_19-int|LTR|ERVK	-163975.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	20.5	23.0	16.0	183.0	27.0	9.5	9.0	5.0
Merged-chr5-140611866-3	chr5	140611768	140611968	+	895.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008494, exon 2 of 8)	exon (NM_008494, exon 2 of 8)	4527.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	5.5	9.0	11.0	54.0	10.5	2.5	3.5	2.0
Merged-chr18-84274057-4	chr18	84273973	84274173	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	185915.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	23.5	22.5	42.0	494.5	31.0	16.0	12.5	21.5
Merged-chr4-95846582-3	chr4	95846487	95846687	+	760.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 13 of 15)	intron (NM_001113412, intron 13 of 15)	120448.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	6.5	15.0	11.0	226.0	6.5	6.5	7.5	13.0
Merged-chr19-37561695-4	chr19	37561594	37561794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175353, intron 1 of 21)	intron (NM_175353, intron 1 of 21)	11276.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	35.5	31.5	30.5	611.0	95.0	27.5	28.0	29.5
Merged-chr5-64619993-4	chr5	64619893	64620093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-9294.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	31.0	54.5	31.5	494.5	110.0	51.0	39.5	43.5
Merged-chr3-142881522-1	chr3	142881422	142881622	+	1000.0	f0_balb.idr	promoter-TSS (NR_152127)	promoter-TSS (NR_152127)	482.0	NM_178654	109333.0	Mm.244236	NM_178654	ENSMUSG00000004591	Pkn2	6030436C20Rik|AI507382|PRK2|Prkcl2|Stk7	protein kinase N2	protein-coding	20.0	29.0	38.5	377.0	64.0	37.0	23.0	29.5
Merged-chr18-83870965-4	chr18	83870844	83871044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	215618.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	117.5	169.5	100.5	1121.0	269.0	89.0	116.5	57.0
Merged-chr12-116434928-3	chr12	116434827	116435027	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 17 of 28)	intron (NM_133762, intron 17 of 28)	29525.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	9.5	6.5	7.5	72.5	120.0	30.0	34.0	32.5
Merged-chr14-45080014-4	chr14	45079917	45080117	+	983.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR1a|LTR|Gypsy	91906.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	25.0	33.5	11.5	565.0	68.5	22.5	31.5	45.5
Merged-chr12-111675899-4	chr12	111675786	111675986	+	958.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2219.0	NM_001099792	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	12.0	14.0	18.0	174.0	48.5	17.0	14.0	23.5
Merged-chr4-3778583-2	chr4	3778483	3778683	+	874.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 10 of 12)	intron (NM_001111096, intron 10 of 12)	57072.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	2.5	7.0	5.0	20.5	10.0	7.5	5.5	4.5
Merged-chr13-37537506-3	chr13	37537413	37537613	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	192168.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	0.0	2.0	1.0	6.5	133.5	54.0	55.5	60.5
Merged-chr19-46132459-4	chr19	46132406	46132606	+	848.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007703, intron 1 of 3)	(CA)n|Simple_repeat|Simple_repeat	607.0	NM_007703	12686.0	Mm.21806	NM_007703	ENSMUSG00000038754	Elovl3	CIN-2|Cig30	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3	protein-coding	8.5	7.5	4.5	108.0	7.0	6.0	7.0	7.0
Merged-chr6-29214555-4	chr6	29214405	29214605	+	781.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302933, intron 1 of 14)	intron (NM_001302933, intron 1 of 14)	1859.0	NM_001302933	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	12.0	22.0	19.5	423.5	16.0	4.5	14.0	7.0
Merged-chr15-93275354-4	chr15	93275231	93275431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346785)	promoter-TSS (NM_001346785)	-152.0	NM_001346785	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	372.0	467.0	411.5	5191.0	951.0	385.5	505.5	375.0
Merged-chr8-46896842-4	chr8	46896740	46896940	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-90047.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	19.5	20.5	17.0	186.0	23.0	6.0	18.0	23.0
Merged-chr11-60777407-4	chr11	60777321	60777521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175491)	promoter-TSS (NM_175491)	-56.0	NM_009410	21975.0	Mm.10708	NM_009410	ENSMUSG00000002814	Top3a	-	topoisomerase (DNA) III alpha	protein-coding	141.0	222.5	140.0	1875.5	355.5	168.0	146.0	126.0
Merged-chr2-60822367-3	chr2	60822263	60822463	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	59075.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	22.5	38.0	25.5	370.0	46.0	9.5	17.0	13.5
Merged-chr15-74926920-5	chr15	74926909	74927109	+	986.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER31A|LTR|ERV1	-28042.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	11.5	19.5	18.0	185.0	69.5	28.0	26.5	24.5
Merged-chr10-21804531-3	chr10	21804439	21804639	+	810.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77645.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	2.0	3.0	6.5	116.5	20.5	9.5	12.5	11.0
Merged-chr6-134135113-4	chr6	134135016	134135216	+	989.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	99416.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	20.5	45.5	13.0	270.5	63.5	20.5	19.5	18.5
Merged-chr6-72552272-4	chr6	72552159	72552359	+	852.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271395, intron 1 of 9)	MER31A|LTR|ERV1	2612.0	NM_001271395	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	5.0	10.5	13.5	189.5	20.5	4.5	9.5	13.5
Merged-chr6-91776731-2	chr6	91776631	91776831	+	697.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159507, intron 17 of 23)	intron (NM_001159507, intron 17 of 23)	30662.0	NM_001159507	243547.0	Mm.333264	NM_001033353	ENSMUSG00000030098	Grip2	-	glutamate receptor interacting protein 2	protein-coding	3.5	5.5	4.5	52.5	7.5	8.0	7.5	6.5
Merged-chr14-52257889-4	chr14	52257773	52257973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-20301.0	NM_201637	67772.0	Mm.289934	NM_201637	ENSMUSG00000053754	Chd8	5830451P18Rik|AU015341|Duplin|HELSNF1|mKIAA1564	chromodomain helicase DNA binding protein 8	protein-coding	184.0	229.5	180.5	2886.0	496.5	186.0	250.5	206.0
Merged-chr1-13652351-4	chr1	13652323	13652523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145381, intron 1 of 6)	intron (NM_145381, intron 1 of 6)	8086.0	NM_145381	212442.0	Mm.89572	NM_145381	ENSMUSG00000025937	Lactb2	Cgi-83|E430032H21Rik	lactamase, beta 2	protein-coding	23.5	20.0	47.5	643.5	26.0	5.5	15.5	30.0
Merged-chr18-34512065-3	chr18	34511978	34512178	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5255.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	9.0	6.5	11.0	310.5	3.0	1.0	1.0	0.0
Merged-chr1-182564593-2	chr1	182564493	182564693	+	575.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145806)	promoter-TSS (NM_001145806)	-414.0	NM_001145806	170725.0	Mm.189201	NM_130890	ENSMUSG00000038599	Capn8	nCL-2|nCL-2'	calpain 8	protein-coding	4.5	5.5	5.0	16.0	3.5	4.0	4.5	2.0
Merged-chr5-76565529-4	chr5	76565432	76565632	+	971.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359370, intron 17 of 19)	B3A|SINE|B2	-26182.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	32.0	34.5	15.5	347.5	80.5	20.5	31.5	13.0
Merged-chr1-4785698-4	chr1	4785597	4785797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033530)	promoter-TSS (NR_033530)	29.0	NM_001177658	27395.0	Mm.182927	NM_025300	ENSMUSG00000033845	Mrpl15	HSPC145|MRP-L7|Rpml7	mitochondrial ribosomal protein L15	protein-coding	122.5	175.5	137.5	1896.5	271.0	118.5	118.0	100.5
Merged-chr17-62649788-4	chr17	62649691	62649891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010109, intron 2 of 3)	intron (NM_010109, intron 2 of 3)	231526.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	5.5	5.5	23.5	252.0	39.5	4.0	20.5	18.0
Merged-chr19-24989088-4	chr19	24988990	24989190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10439.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	85.5	144.0	87.0	1270.0	218.5	87.0	102.0	92.5
Merged-chr8-71404986-4	chr8	71404903	71405103	+	880.595825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026636)	TTS (NM_026636)	-1009.0	NM_001310502	234396.0	Mm.216549	NM_172756	ENSMUSG00000046295	Ankle1	8430438L13Rik|Ankrd41|C430003I23|Lem3	ankyrin repeat and LEM domain containing 1	protein-coding	6.5	31.5	19.5	194.0	20.0	13.0	13.5	17.5
Merged-chr13-49100599-4	chr13	49100493	49100693	+	995.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290313, intron 4 of 29)	intron (NM_001290313, intron 4 of 29)	47735.0	NM_029361	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	41.5	14.0	45.5	709.0	77.5	15.5	33.5	36.0
Merged-chr3-19201509-4	chr3	19201410	19201610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356295, intron 2 of 7)	RSINE1|SINE|B4	13215.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	156.5	247.0	157.5	2794.5	343.0	140.0	184.5	136.5
Merged-chr5-99340632-1	chr5	99340532	99340732	+	655.5	f0_balb.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-87705.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	6.0	8.5	6.0	117.0	20.5	4.0	9.0	7.5
Merged-chr3-145692269-4	chr3	145692145	145692345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42260.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	109.5	92.5	123.0	2249.5	166.5	72.0	99.0	114.0
Merged-chr10-81185113-4	chr10	81185012	81185212	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190473, intron 2 of 8)	intron (NM_001190473, intron 2 of 8)	1194.0	NM_007828	13144.0	Mm.10294	NM_007828	ENSMUSG00000034974	Dapk3	ZIPK|dlk	death-associated protein kinase 3	protein-coding	9.0	25.5	12.0	95.0	39.5	14.5	8.0	1.5
Merged-chr7-43512162-4	chr7	43512022	43512222	+	915.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6184.0	NM_028737	74054.0	Mm.195732	NM_028737	ENSMUSG00000013353	4931406B18Rik	4930538L19Rik	RIKEN cDNA 4931406B18 gene	protein-coding	8.5	21.0	22.5	88.5	10.5	8.0	8.5	7.5
Merged-chr4-95049401-4	chr4	95049324	95049524	+	910.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010591, exon 1 of 1)	3' UTR (NM_010591, exon 1 of 1)	2798.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	11.5	6.5	17.0	186.5	22.5	7.0	13.5	20.0
Merged-chr4-150282190-4	chr4	150282056	150282256	+	878.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	intron (NM_001085492, intron 1 of 22)	240.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	5.0	10.0	10.5	169.5	22.5	5.0	5.5	11.5
Merged-chr4-105207120-4	chr4	105207019	105207219	+	957.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 2 of 5)	intron (NM_080555, intron 2 of 5)	49772.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	14.0	17.5	22.0	230.0	70.0	21.5	27.0	17.0
Merged-chr9-21728540-4	chr9	21728434	21728634	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252659, intron 1 of 17)	RMER4B|LTR|ERVK	4958.0	NM_010700	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	26.5	53.0	21.0	462.5	128.5	42.0	25.5	19.5
Merged-chr5-103678333-4	chr5	103678221	103678421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22589.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	27.0	36.0	21.0	220.0	93.5	18.5	38.0	45.5
Merged-chr6-7693184-3	chr6	7693049	7693249	+	973.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012055)	promoter-TSS (NM_012055)	33.0	NM_012055	27053.0	Mm.2942	NM_012055	ENSMUSG00000029752	Asns	-	asparagine synthetase	protein-coding	13.0	11.5	14.0	186.5	7.5	2.5	2.0	7.0
Merged-chr15-37007466-4	chr15	37007383	37007583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026521)	promoter-TSS (NM_026521)	-81.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	297.0	458.5	325.0	4747.0	790.0	282.0	393.0	279.0
Merged-chr1-43098601-4	chr1	43098510	43098710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133818)	promoter-TSS (NM_133818)	18.0	NM_001013025	73122.0	Mm.246069	NM_001013025	ENSMUSG00000070939	Tgfbrap1	3110018K12Rik|AU024090|AU042859|AW742551|Trap1	transforming growth factor, beta receptor associated protein 1	protein-coding	152.0	252.0	165.0	1871.5	242.0	120.0	134.5	114.0
Merged-chr6-56797032-4	chr6	56796942	56797142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001362209, exon 1 of 4)	5' UTR (NM_001362209, exon 1 of 4)	171.0	NM_001362211	210973.0	Mm.57295	NM_145958	ENSMUSG00000059486	Kbtbd2	BC022962|Bklhd1|mKIAA1489	kelch repeat and BTB (POZ) domain containing 2	protein-coding	33.5	30.5	31.0	370.0	52.5	31.0	29.5	39.0
Merged-chr8-126945911-4	chr8	126945801	126946001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024214)	promoter-TSS (NM_024214)	20.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	117.5	161.5	127.0	1117.5	313.5	122.5	127.5	147.0
Merged-chr11-29526323-4	chr11	29526186	29526386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133767)	promoter-TSS (NM_133767)	-111.0	NM_001282120	76784.0	Mm.285429	NM_133767	ENSMUSG00000020459	Mtif2	2310038D14Rik|2410112O06Rik|IF-2(Mt)|IF-2mt|IF2(mt)	mitochondrial translational initiation factor 2	protein-coding	32.5	36.0	30.0	488.5	39.5	20.0	23.5	23.5
Merged-chr6-120187801-4	chr6	120187694	120187894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-6029.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	80.0	73.0	51.0	1303.0	141.5	26.5	74.5	40.5
Merged-chr4-19898206-4	chr4	19898115	19898315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	24351.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	55.5	60.0	37.5	984.0	101.5	34.0	51.5	41.5
Merged-chr3-95530011-4	chr3	95529905	95530105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021281, intron 2 of 7)	intron (NM_021281, intron 2 of 7)	3219.0	NM_001267695	13040.0	Mm.3619	NM_021281	ENSMUSG00000038642	Ctss	Cats	cathepsin S	protein-coding	48.0	78.5	61.0	1067.0	119.0	54.0	74.5	58.5
Merged-chr8-3221882-4	chr8	3221778	3221978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330056, intron 2 of 21)	intron (NM_001330056, intron 2 of 21)	57739.0	NM_010568	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	39.0	35.0	33.5	793.0	96.0	29.5	37.5	36.5
Merged-chr2-102701691-4	chr2	102701577	102701777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077514, intron 1 of 10)	intron (NM_001077514, intron 1 of 10)	-4761.0	NM_011393	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	70.0	164.0	160.5	1357.5	157.5	62.5	88.5	68.5
Merged-chr15-93340844-4	chr15	93340731	93340931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3896.0	NM_024189	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	69.5	156.5	70.0	1348.5	187.0	89.5	67.5	78.0
Merged-chr11-73186277-4	chr11	73186188	73186388	+	771.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357891, intron 10 of 11)	intron (NM_001357891, intron 10 of 11)	9205.0	NM_029564	76281.0	Mm.371656	NM_029564	ENSMUSG00000040158	Tax1bp3	1300011C24Rik|TIP-1	Tax1 (human T cell leukemia virus type I) binding protein 3	protein-coding	4.0	3.0	8.0	34.0	13.0	8.0	7.0	7.5
Merged-chr1-131990621-4	chr1	131990528	131990728	+	893.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16977.0	NM_007923	13714.0	Mm.254233	NM_007923	ENSMUSG00000026436	Elk4	2310011G17Rik|A130026I01Rik|BB162516|SAP-1|Sap1	ELK4, member of ETS oncogene family	protein-coding	8.5	22.0	12.0	281.0	33.5	12.0	6.0	6.5
Merged-chr11-53795385-2	chr11	53795271	53795471	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	24898.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	64.5	95.0	39.5	763.0	150.5	59.5	73.0	46.0
Merged-chr10-120202363-5	chr10	120202317	120202517	+	903.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028679)	promoter-TSS (NM_028679)	-287.0	NM_001359184	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	7.5	26.0	18.0	134.5	30.5	11.0	14.0	12.5
Merged-chr13-25857284-4	chr13	25857189	25857389	+	856.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109027.0	NR_045062	100503530.0	Mm.86763	NR_045062	ENSMUSG00000086531	Gm11351	-	predicted gene 11351	ncRNA	8.5	17.0	22.5	415.5	30.5	3.0	5.0	10.0
Merged-chr14-120911683-4	chr14	120911570	120911770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023579, intron 1 of 25)	CpG	476.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	55.5	76.5	79.5	901.5	133.5	45.5	60.0	57.5
Merged-chr3-104714446-4	chr3	104714376	104714576	+	815.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63071.0	NM_183224	329731.0	Mm.389494	NM_183224	ENSMUSG00000055865	Fam19a3	7530404M11Rik|Sam3|TAFA3|Tafa-3	family with sequence similarity 19, member A3	protein-coding	7.5	3.5	8.0	81.5	16.5	5.0	11.5	8.5
Merged-chr5-114774711-4	chr5	114774615	114774815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026718)	promoter-TSS (NM_026718)	268.0	NR_027872	67642.0	Mm.482535	NM_175120	ENSMUSG00000092183	4930515G01Rik	-	RIKEN cDNA 4930515G01 gene	ncRNA	73.0	110.5	45.0	696.0	189.0	72.5	62.0	80.0
Merged-chr7-30553566-4	chr7	30553472	30553672	+	910.4583130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_128568)	TTS (NR_128568)	270.0	NM_001012401	243912.0	Mm.34885	NM_001012401	ENSMUSG00000036854	Hspb6	AA387366|Gm479|Hsp20	heat shock protein, alpha-crystallin-related, B6	protein-coding	0.0	1.0	3.0	20.5	16.5	4.5	5.5	12.0
Merged-chr10-128412329-2	chr10	128412229	128412429	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026259, intron 1 of 7)	intron (NM_026259, intron 1 of 7)	713.0	NM_026259	67588.0	Mm.294120	NM_026259	ENSMUSG00000025373	Rnf41	2210404G21Rik|4930511A05Rik|4933415P08Rik|D10Ertd722e|FLRF|Nrdp1	ring finger protein 41	protein-coding	5.0	7.0	4.5	35.5	5.0	5.0	2.0	6.0
Merged-chr18-90510135-4	chr18	90510052	90510252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198295)	promoter-TSS (NM_198295)	-2.0	NM_198295	67988.0	Mm.268041	NM_198295	ENSMUSG00000024614	Tmx3	6430411B10Rik|A730024F05Rik|AV259382|Txndc10|mKIAA1830	thioredoxin-related transmembrane protein 3	protein-coding	217.0	307.5	271.5	3553.5	492.0	192.0	208.0	202.5
Merged-chr2-122381130-4	chr2	122381015	122381215	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12197.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	5.5	11.0	7.5	166.0	18.0	11.0	5.5	15.5
Merged-chr5-105148244-4	chr5	105148146	105148346	+	937.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-8660.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	22.5	30.0	7.5	144.5	90.0	45.0	17.5	28.5
Merged-chr2-148536810-4	chr2	148536703	148536903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93268.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	49.5	44.5	68.0	1499.0	92.5	37.0	57.5	43.5
Merged-chr5-17839751-4	chr5	17839640	17839840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	-3844.0	NM_007643	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	123.5	165.5	112.5	2234.0	306.0	138.5	103.5	94.5
Merged-chr19-4756495-4	chr19	4756384	4756584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025717)	promoter-TSS (NM_025717)	-41.0	NM_025717	66704.0	Mm.396734	NM_025717	ENSMUSG00000033760	Rbm4b	4921506I22Rik|AI504630|AI506404|Lark2|Neosin	RNA binding motif protein 4B	protein-coding	129.5	161.0	78.0	1127.5	263.5	103.0	129.0	125.5
Merged-chr4-6355537-4	chr4	6355463	6355663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-10117.0	NM_016807	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	91.5	165.5	125.5	1333.0	253.5	100.0	69.5	50.0
Merged-chr2-90673493-4	chr2	90673395	90673595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3720.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	69.0	109.0	70.0	709.0	140.5	49.0	63.5	47.0
Merged-chr4-119233747-3	chr4	119233634	119233834	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042411)	promoter-TSS (NM_001042411)	-95.0	NM_001042411	56401.0	Mm.27961	NM_019782	ENSMUSG00000028641	P3h1	2410024C15Rik|Gros1|Lepre1	prolyl 3-hydroxylase 1	protein-coding	16.0	8.0	8.0	134.5	18.0	5.5	9.0	9.0
Merged-chr7-67462095-4	chr7	67462033	67462233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89275.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	158.0	217.0	231.5	3285.5	413.5	126.5	173.5	170.0
Merged-chr7-34958001-4	chr7	34957893	34958093	+	911.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 7 of 14)	intron (NM_008820, intron 7 of 14)	45586.0	NM_008820	18624.0	Mm.69751	NM_008820	ENSMUSG00000063931	Pepd	Pep-4|Pep4|dal	peptidase D	protein-coding	11.0	27.0	21.0	487.5	20.5	4.0	11.0	14.0
Merged-chr16-33769653-2	chr16	33769553	33769753	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-24384.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	5.0	13.0	8.0	88.5	18.0	3.0	4.0	5.0
Merged-chr13-92580461-4	chr13	92580369	92580569	+	864.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4237.0	NM_030237	79401.0	Mm.23520	NM_030237	ENSMUSG00000046957	Spz1	1700027M20Rik|AI429130	spermatogenic leucine zipper 1	protein-coding	6.5	19.5	4.5	138.0	17.5	6.5	13.5	15.5
Merged-chr11-22952857-4	chr11	22952770	22952970	+	808.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361661, intron 2 of 2)	intron (NM_001361661, intron 2 of 2)	-19135.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	13.0	13.5	14.0	261.5	21.5	8.5	2.5	4.5
Merged-chr11-104550239-1	chr11	104550139	104550339	+	1000.0	f0_balb.idr	promoter-TSS (NM_010858)	promoter-TSS (NM_010858)	381.0	NM_001285990	217232.0	Mm.89845	NM_145436	ENSMUSG00000020687	Cdc27	AI452358|APC3|BC023187	cell division cycle 27	protein-coding	6.5	25.5	21.5	229.5	45.5	29.0	23.0	35.0
Merged-chr12-54969246-4	chr12	54969135	54969335	+	884.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013815, intron 3 of 26)	intron (NM_013815, intron 3 of 26)	17101.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	1.5	11.5	10.0	177.0	46.0	12.5	13.5	19.0
Merged-chr10-5256904-1	chr10	5256804	5257004	+	794.0	f0_balb.idr	exon (NM_001347732, exon 64 of 146)	exon (NM_001347732, exon 64 of 146)	-62197.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	12.5	8.0	7.5	132.0	7.0	0.0	3.0	4.0
Merged-chr17-83730725-4	chr17	83730677	83730877	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054082, intron 3 of 16)	Lx8|LINE|L1	24614.0	NM_001171052	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	18.0	5.5	15.0	465.0	16.5	5.0	19.0	15.0
Merged-chr7-111122762-4	chr7	111122640	111122840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015573)	promoter-TSS (NR_015573)	-65.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	135.5	224.0	91.5	1997.5	277.5	127.0	175.0	157.5
Merged-chr7-125707805-4	chr7	125707724	125707924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207239)	promoter-TSS (NM_207239)	-46.0	NM_001081022	233865.0	Mm.274389	NM_001081022	ENSMUSG00000032743	D430042O09Rik	Kiaa0556	RIKEN cDNA D430042O09 gene	protein-coding	176.0	369.5	200.0	2630.0	537.0	159.5	230.5	202.5
Merged-chr13-59003443-4	chr13	59003349	59003549	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	195752.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	17.0	3.5	13.0	224.0	18.5	4.5	13.0	16.0
Merged-chr5-30961525-7	chr5	30961416	30961616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	-1189.0	NM_016703	50907.0	Mm.272414	NM_016703	ENSMUSG00000045302	Preb	C85705	prolactin regulatory element binding	protein-coding	14.0	21.5	14.5	182.0	38.0	13.0	6.0	38.0
Merged-chr5-135008995-4	chr5	135008902	135009102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190437)	promoter-TSS (NM_001190437)	-150.0	NM_001190437	68758.0	Mm.389700	NM_145215	ENSMUSG00000040532	Abhd11	1110054D16Rik|A630008N09Rik|Wbscr21	abhydrolase domain containing 11	protein-coding	295.5	455.5	279.0	3292.5	662.0	296.0	251.5	254.0
Merged-chr9-31931887-4	chr9	31931778	31931978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-18593.0	NM_013800	12023.0	Mm.261044	NM_013800	ENSMUSG00000032033	Barx2	2310006E12Rik|Barx2b	BarH-like homeobox 2	protein-coding	49.5	84.0	49.5	1094.5	88.0	35.0	37.0	42.5
Merged-chr17-6430785-2	chr17	6430685	6430885	+	908.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_009342, intron 1 of 4)	intron (NM_009342, intron 1 of 4)	673.0	NM_009342	21648.0	Mm.1948	NM_009342	ENSMUSG00000096255	Dynlt1b	AGS2|Dynlt1|Tctex-1|Tctex1	dynein light chain Tctex-type 1B	protein-coding	9.0	16.0	7.0	48.5	6.0	1.5	1.0	6.0
Merged-chr15-74749392-2	chr15	74749292	74749492	+	846.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011838, exon 4 of 4)	3' UTR (NM_011838, exon 4 of 4)	-2705.0	NM_001081961	69462.0	Mm.64338	NM_001081961	ENSMUSG00000075605	Slurp2	2300005B03Rik|SLURP-2	secreted Ly6/Plaur domain containing 2	protein-coding	2.0	4.0	0.0	29.0	6.5	7.0	12.5	9.5
Merged-chr6-83454018-4	chr6	83453910	83454110	+	981.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 2 of 11)	intron (NM_001347313, intron 2 of 11)	2382.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	23.5	13.0	32.5	366.0	49.5	20.0	13.5	11.0
Merged-chr15-6501045-4	chr15	6500970	6501170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55737.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	47.5	74.0	35.0	716.0	136.0	35.0	34.0	45.5
Merged-chr19-5843830-5	chr19	5843721	5843921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_003513, exon 1 of 1)	non-coding (NR_003513, exon 1 of 1)	1657.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	11.5	17.0	10.5	149.0	44.0	16.5	11.5	15.5
Merged-chr8-105826646-6	chr8	105826584	105826784	+	893.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145824, intron 1 of 13)	intron (NM_145824, intron 1 of 13)	666.0	NM_145824	74334.0	Mm.4206	NM_145824	ENSMUSG00000037415	Ranbp10	4432417N03Rik	RAN binding protein 10	protein-coding	7.0	9.5	1.0	77.5	16.5	10.5	6.0	7.0
Merged-chr2-156864505-4	chr2	156864425	156864625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026124, intron 1 of 3)	B4A|SINE|B4	1403.0	NM_026124	67388.0	Mm.29264	NM_026124	ENSMUSG00000027637	1110008F13Rik	AI316789	RIKEN cDNA 1110008F13 gene	protein-coding	51.5	63.0	39.0	483.0	128.5	39.0	50.0	28.0
Merged-chr12-84316940-5	chr12	84316857	84317057	+	889.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045546)	promoter-TSS (NR_045546)	98.0	NM_001252583	52708.0	Mm.255150	NM_144833	ENSMUSG00000042472	Zfp410	Apa1|D12Ertd748e|Znf410	zinc finger protein 410	protein-coding	24.0	27.0	23.0	184.5	27.0	11.0	15.5	7.5
Merged-chr19-12815391-4	chr19	12815231	12815431	+	890.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134152, intron 3 of 8)	Lx2B|LINE|L1	16752.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	12.5	12.5	13.5	123.0	25.0	9.5	8.0	5.0
Merged-chr6-124901256-4	chr6	124901148	124901348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	10457.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	220.5	354.5	206.0	2945.0	569.5	215.5	221.0	229.5
Merged-chr11-34031536-4	chr11	34031429	34031629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-15399.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	196.0	353.5	231.0	2992.0	486.0	211.5	248.0	191.0
Merged-chr11-105126402-4	chr11	105126300	105126500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172567)	promoter-TSS (NM_172567)	-25.0	NM_172567	52686.0	Mm.270091	NM_172567	ENSMUSG00000020691	Mettl2	2810438F06Rik|AW493404|C130031G21Rik|D11Ertd768e|METL|PSENIP1	methyltransferase like 2	protein-coding	76.0	105.0	53.5	735.5	159.5	70.0	61.5	59.5
Merged-chr11-53980408-4	chr11	53980221	53980421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019723)	promoter-TSS (NM_019723)	12.0	NM_001362202	56517.0	Mm.154284	NM_019723	ENSMUSG00000063652	Slc22a21	Octn3|Slc22a9	solute carrier family 22 (organic cation transporter), member 21	protein-coding	47.5	58.0	45.0	688.5	105.0	29.0	42.5	30.0
Merged-chr9-108344349-6	chr9	108344282	108344482	+	920.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3449.0	NM_001311157	22258.0	Mm.3974	NM_011678	ENSMUSG00000032612	Usp4	F730026I20Rik|Unp|mKIAA4155	ubiquitin specific peptidase 4 (proto-oncogene)	protein-coding	5.0	16.5	9.5	44.5	14.0	9.5	8.0	12.0
Merged-chr12-108637201-4	chr12	108637097	108637297	+	918.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	1444.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	11.0	17.0	15.0	284.5	31.0	8.5	25.0	17.5
Merged-chr6-54180018-4	chr6	54179905	54180105	+	878.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 2 of 12)	intron (NM_001163640, intron 2 of 12)	-84853.0	NM_001311133	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	15.0	12.0	12.0	298.5	24.0	6.0	12.0	6.5
Merged-chr18-38494883-4	chr18	38494781	38494981	+	854.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75974.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	8.0	9.5	8.5	137.5	22.5	12.5	10.5	8.0
Merged-chr4-117218686-4	chr4	117218599	117218799	+	973.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145637, intron 7 of 12)	intron (NM_001145637, intron 7 of 12)	33218.0	NM_001145637	381544.0	Mm.23504	NM_001033774	ENSMUSG00000060268	Armh1	1700012C08Rik|Gm1661|Gm1662|Ncrna00082	armadillo-like helical domain containing 1	protein-coding	24.5	57.0	38.0	367.5	37.5	18.5	13.0	13.5
Merged-chr1-74134084-4	chr1	74133990	74134190	+	703.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034060, intron 8 of 11)	intron (NM_001034060, intron 8 of 11)	8549.0	NM_001034060	435626.0	Mm.240447	NM_001034060	ENSMUSG00000061815	Rufy4	F930048N03Rik	RUN and FYVE domain containing 4	protein-coding	10.0	17.5	10.0	194.5	19.0	8.5	10.5	18.0
Merged-chr10-61344181-4	chr10	61344041	61344241	+	685.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013753, exon 11 of 20)	exon (NM_013753, exon 11 of 20)	39382.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	2.0	5.0	3.5	90.0	14.5	10.5	12.0	9.0
Merged-chr10-63308790-3	chr10	63308692	63308892	+	886.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359484, intron 17 of 22)	intron (NM_001359484, intron 17 of 22)	30243.0	NM_019812	93759.0	Mm.351459	NM_019812	ENSMUSG00000020063	Sirt1	AA673258|SIR2L1|Sir2|Sir2a|Sir2alpha	sirtuin 1	protein-coding	14.5	15.0	3.0	57.5	15.0	6.5	11.0	14.0
Merged-chr7-19472601-4	chr7	19472491	19472691	+	978.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14097.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	16.5	13.0	16.5	294.5	62.0	22.0	28.5	25.0
Merged-chr15-97351333-3	chr15	97351231	97351431	+	957.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	intron (NM_172293, intron 3 of 5)	-104044.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	15.5	13.5	19.0	286.5	9.0	7.0	15.0	5.0
Merged-chr2-126933178-4	chr2	126933074	126933274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023220)	promoter-TSS (NM_023220)	61.0	NM_023220	66552.0	Mm.269928	NM_023220	ENSMUSG00000027366	Sppl2a	2010106G01Rik|C130089K23Rik	signal peptide peptidase like 2A	protein-coding	172.5	258.0	205.5	2533.5	300.5	117.0	144.0	132.0
Merged-chr8-84042283-4	chr8	84042178	84042378	+	967.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_173184)	TTS (NM_173184)	297.0	NM_016671	50931.0	Mm.38386	NM_016671	ENSMUSG00000005465	Il27ra	CRL1|IL-27R|Tccr|WSX-1|Wsx1|zcytor1	interleukin 27 receptor, alpha	protein-coding	14.0	34.5	14.5	177.0	59.5	18.0	28.0	16.5
Merged-chr18-82462181-4	chr18	82462073	82462273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAG)n|Simple_repeat|Simple_repeat	-12950.0	NM_001025245	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	45.0	82.5	24.5	379.0	85.5	44.0	33.0	29.5
Merged-chr11-54963038-3	chr11	54962976	54963176	+	951.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199276)	promoter-TSS (NM_001199276)	-136.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	4.5	12.5	3.5	1.5	37.0	6.0	15.0	6.5
Merged-chr7-45556010-3	chr7	45555910	45556110	+	901.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025330, intron 1 of 8)	intron (NM_025330, intron 1 of 8)	1082.0	NM_025330	66065.0	Mm.285710	NM_025330	ENSMUSG00000030825	Hsd17b14	0610039E24Rik|Dhrs10|retSDR3	hydroxysteroid (17-beta) dehydrogenase 14	protein-coding	11.0	9.5	4.5	57.5	27.5	7.0	10.0	13.5
Merged-chr4-102509899-2	chr4	102509799	102509999	+	775.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-60161.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	10.5	6.0	4.5	68.0	14.5	2.5	3.5	6.0
Merged-chr17-28523213-4	chr17	28523112	28523312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7649.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	52.5	71.5	24.0	544.5	52.5	37.0	30.5	35.0
Merged-chr12-4234148-4	chr12	4234007	4234207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204912)	promoter-TSS (NM_001204912)	80.0	NM_001204912	69709.0	Mm.250552	NM_001204912	ENSMUSG00000096199	Ptrhd1	2410017P09Rik	peptidyl-tRNA hydrolase domain containing 1	protein-coding	85.0	136.0	105.0	1135.0	171.5	87.5	84.5	82.0
Merged-chr2-32447835-4	chr2	32447743	32447943	+	932.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146118, intron 1 of 10)	intron (NM_146118, intron 1 of 10)	-2614.0	NM_194335	71254.0	Mm.102341	NM_194335	ENSMUSG00000039164	Naif1	2310007O20Rik|4933440H19Rik	nuclear apoptosis inducing factor 1	protein-coding	27.5	21.0	12.0	329.0	36.0	13.0	13.5	15.0
Merged-chr3-95871482-4	chr3	95871323	95871523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040446)	promoter-TSS (NR_040446)	91.0	NM_078479	66292.0	Mm.24108	NM_078479	ENSMUSG00000054312	Mrps21	1810031B19Rik|S21mt	mitochondrial ribosomal protein S21	protein-coding	38.0	41.5	25.0	409.5	81.5	31.5	22.0	37.0
Merged-chr4-16089117-3	chr4	16089003	16089203	+	912.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74540.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	9.5	4.5	6.0	148.5	25.0	1.0	12.5	15.5
Merged-chr12-80057681-4	chr12	80057591	80057791	+	987.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55322.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	19.5	33.0	13.5	164.0	87.0	27.5	33.0	21.0
Merged-chr2-158134033-3	chr2	158133909	158134109	+	874.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 4 of 12)	intron (NM_009373, intron 4 of 12)	12383.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	11.0	10.0	5.0	105.0	18.5	4.0	5.0	8.5
Merged-chr7-25705890-4	chr7	25705771	25705971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011577)	TTS (NM_011577)	13182.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	88.5	107.5	134.0	1108.0	206.5	90.5	88.5	106.0
Merged-chr12-108635709-4	chr12	108635608	108635808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163396)	promoter-TSS (NM_001163396)	-45.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	27.5	33.5	38.0	557.0	64.5	17.0	33.0	56.0
Merged-chr14-32781665-4	chr14	32781550	32781750	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4313.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	18.0	14.5	5.0	160.0	32.5	12.5	18.5	9.0
Merged-chr10-79539116-4	chr10	79539037	79539237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5350.0	NM_001302389	50784.0	Mm.28873	NM_015817	ENSMUSG00000052151	Plpp2	Lpp2|PAP2-G|PAP2-gamma|PAP2c|Ppap2c	phospholipid phosphatase 2	protein-coding	31.0	41.5	25.5	655.0	70.5	21.0	34.5	27.0
Merged-chr11-53628099-3	chr11	53628005	53628205	+	897.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6597.0	NM_008355	16163.0	Mm.1284	NM_008355	ENSMUSG00000020383	Il13	Il-13	interleukin 13	protein-coding	9.5	15.0	4.5	100.5	18.0	7.0	7.0	6.0
Merged-chr4-40134908-4	chr4	40134785	40134985	+	802.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8380.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	5.5	14.0	17.5	93.0	38.5	6.5	9.5	16.0
Merged-chr10-30676581-4	chr10	30676485	30676685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 9 of 14)	intron (NM_001358842, intron 9 of 14)	-20718.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	110.0	113.0	195.0	2443.0	250.5	98.0	154.5	117.0
Merged-chr1-166204326-2	chr1	166204226	166204426	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175296, intron 10 of 11)	intron (NM_175296, intron 10 of 11)	34418.0	NM_175296	98558.0	Mm.26189	NM_175296	ENSMUSG00000040629	Mael	4933405K18Rik|AU019877	maelstrom spermatogenic transposon silencer	protein-coding	5.0	4.0	3.5	88.0	4.5	4.5	4.5	6.5
Merged-chr2-59203145-4	chr2	59203062	59203262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	42312.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	29.0	40.5	29.5	668.0	38.0	19.0	25.0	26.5
Merged-chr18-56722935-3	chr18	56722854	56723054	+	856.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010721, intron 1 of 10)	intron (NM_010721, intron 1 of 10)	15141.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	7.0	15.0	11.0	73.5	15.5	5.5	6.0	14.0
Merged-chr5-64900778-2	chr5	64900678	64900878	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31921.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	8.0	6.0	8.0	82.5	19.0	9.5	3.5	8.0
Merged-chr8-13287973-4	chr8	13287901	13288101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172282)	promoter-TSS (NM_172282)	-12.0	NM_172282	234076.0	Mm.219813	NM_172282	ENSMUSG00000038497	Tmco3	B230339H12Rik|C87304	transmembrane and coiled-coil domains 3	protein-coding	86.5	154.0	145.5	1072.0	199.5	81.0	85.5	98.0
Merged-chr16-91433698-4	chr16	91433610	91433810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27475.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	56.0	68.0	45.5	409.5	75.5	36.0	43.0	42.0
Merged-chr18-60733546-4	chr18	60733460	60733660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348102)	promoter-TSS (NM_001348102)	-419.0	NM_001348102	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	67.5	66.0	44.5	782.0	131.0	66.5	42.0	37.0
Merged-chr15-78927449-3	chr15	78927415	78927615	+	917.3412480000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008495, intron 1 of 3)	intron (NM_008495, intron 1 of 3)	790.0	NM_008495	16852.0	Mm.43831	NM_008495	ENSMUSG00000068220	Lgals1	AA410090|Gal-1|Galbp|L-14.5|L14|Lect14|galectin-1	lectin, galactose binding, soluble 1	protein-coding	5.0	9.0	11.5	41.0	2.0	2.0	1.5	5.0
Merged-chr2-109431007-3	chr2	109430897	109431097	+	638.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	150259.0	NM_139303	228421.0	Mm.274086	NM_139303	ENSMUSG00000027115	Kif18a	AU024633|B130001M12Rik|gcd2	kinesin family member 18A	protein-coding	8.0	9.5	8.5	138.0	4.0	3.5	4.5	2.5
Merged-chr1-80659994-1	chr1	80659894	80660094	+	597.0	f0_balb.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	5358.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	7.5	10.0	5.0	109.0	17.0	2.5	3.0	10.5
Merged-chr10-43701115-3	chr10	43701000	43701200	+	934.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2F|LTR|ERVL	-45058.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	9.5	3.0	2.5	108.5	7.5	7.0	4.5	14.5
Merged-chr1-53352739-4	chr1	53352636	53352836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001353501)	promoter-TSS (NM_001353501)	16.0	NM_001290984	70396.0	Mm.285783	NM_133728	ENSMUSG00000026095	Asnsd1	2210409M21Rik	asparagine synthetase domain containing 1	protein-coding	175.0	244.0	141.0	3024.0	475.5	179.0	241.0	163.5
Merged-chr15-5116513-4	chr15	5116412	5116612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026069)	promoter-TSS (NM_026069)	-101.0	NM_026069	67281.0	Mm.10474	NM_026069	ENSMUSG00000041841	Rpl37	3110005M08Rik	ribosomal protein L37	protein-coding	286.0	463.5	324.5	4717.5	750.0	257.5	389.0	270.0
Merged-chr3-89861327-4	chr3	89861232	89861432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29962.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	137.5	206.5	109.5	1576.0	222.0	127.0	138.0	110.5
Merged-chr7-133744611-8	chr7	133744517	133744717	+	837.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357685, intron 3 of 11)	intron (NM_001357685, intron 3 of 11)	15652.0	NM_001286030	101437.0	Mm.199223	NM_133941	ENSMUSG00000030986	Dhx32	3110079L04Rik|4732469F02Rik|AA408140|Ddx32|muDDX32	DEAH (Asp-Glu-Ala-His) box polypeptide 32	protein-coding	8.5	3.5	31.5	113.0	25.0	8.0	21.0	15.0
Merged-chr13-24445415-3	chr13	24445309	24445509	+	815.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 11 of 16)	L1MEf|LINE|L1	30287.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	11.5	11.5	9.5	134.5	13.5	6.0	7.0	19.0
Merged-chr2-49727397-4	chr2	49727299	49727499	+	729.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 12 of 25)	intron (NM_008449, intron 12 of 25)	-60287.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	9.0	10.5	5.5	191.0	30.0	10.0	7.5	13.5
Merged-chr11-22782914-3	chr11	22782811	22783011	+	855.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76824.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	5.5	8.0	8.5	144.0	5.0	4.5	10.5	3.5
Merged-chr5-139286106-4	chr5	139286025	139286225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172723, intron 4 of 10)	intron (NM_172723, intron 4 of 10)	32628.0	NM_001163316	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	21.5	10.5	21.5	167.0	75.5	24.0	23.5	26.0
Merged-chr4-35130816-4	chr4	35130732	35130932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-21223.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	219.5	383.0	273.5	3050.5	417.0	219.5	178.0	154.0
Merged-chr1-93636385-3	chr1	93636285	93636485	+	818.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021537)	promoter-TSS (NM_021537)	-658.0	NM_021537	59041.0	Mm.28761	NM_021537	ENSMUSG00000026277	Stk25	1500019J11Rik|AU018434|C86992|Ste20-like|Ysk1	serine/threonine kinase 25 (yeast)	protein-coding	3.5	5.5	6.0	53.5	23.5	12.0	13.0	19.0
Merged-chr2-90538731-4	chr2	90538610	90538810	+	836.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	41937.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	15.0	35.0	19.0	235.0	23.5	9.5	4.0	7.5
Merged-chr8-82459204-3	chr8	82459113	82459313	+	862.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56627.0	NM_008357	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	0.0	0.0	0.0	0.0	62.5	21.0	19.5	12.0
Merged-chr7-125613853-4	chr7	125613765	125613965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021887, intron 1 of 8)	L1MA9|LINE|L1	10436.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	55.5	73.5	72.5	839.5	72.0	21.0	41.0	49.5
Merged-chr17-83215139-4	chr17	83215035	83215235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134117)	promoter-TSS (NM_134117)	-148.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	76.5	116.5	69.5	1548.0	187.0	72.0	116.0	60.5
Merged-chr8-117201713-3	chr8	117201623	117201823	+	943.285706	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081151, intron 9 of 10)	ID_B1|SINE|B4	43588.0	NM_001081151	209239.0	Mm.132992	NM_001081151	ENSMUSG00000052557	Gan	A330045G18|gigaxonin	giant axonal neuropathy	protein-coding	15.5	12.5	6.5	161.5	11.5	5.5	9.5	12.0
Merged-chr11-88162252-4	chr11	88162145	88162345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198013, intron 1 of 10)	intron (NM_198013, intron 1 of 10)	-7320.0	NM_001172099	103841.0	Mm.374846	NM_198013	ENSMUSG00000018378	Cuedc1	AI841487|C330016O16Rik	CUE domain containing 1	protein-coding	19.5	34.5	13.5	259.5	48.0	6.5	19.5	17.0
Merged-chr12-32774889-4	chr12	32774806	32775006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-45429.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	50.0	100.5	23.5	449.0	180.5	68.5	48.5	46.0
Merged-chr2-5951417-4	chr2	5951319	5951519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081132)	promoter-TSS (NM_001081132)	-50.0	NM_001081132	326622.0	Mm.31102	NM_001081132	ENSMUSG00000043241	Upf2	-	UPF2 regulator of nonsense transcripts homolog (yeast)	protein-coding	62.5	74.5	44.5	575.0	138.5	60.0	81.5	59.0
Merged-chr6-22347657-4	chr6	22347528	22347728	+	997.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138587, intron 1 of 9)	intron (NM_138587, intron 1 of 9)	8453.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	26.0	46.0	32.0	537.0	42.5	16.5	30.5	18.0
Merged-chr6-26205724-4	chr6	26205633	26205833	+	941.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	274307.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	16.0	15.5	27.5	495.0	47.5	10.5	23.5	27.5
Merged-chr4-62429856-4	chr4	62429762	62429962	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153504, intron 2 of 2)	intron (NM_153504, intron 2 of 2)	4864.0	NM_153504	76072.0	Mm.169565	NM_153504	ENSMUSG00000063851	Rnf183	5830442J12Rik	ring finger protein 183	protein-coding	20.5	41.0	24.5	438.5	46.5	14.0	24.0	15.0
Merged-chr14-62120480-3	chr14	62120381	62120581	+	853.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	172498.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	17.5	4.5	12.0	296.0	5.0	10.0	4.5	7.5
Merged-chr17-33758146-4	chr17	33758032	33758232	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008997, intron 1 of 4)	intron (NM_008997, intron 1 of 4)	2354.0	NM_008997	19326.0	Mm.387587	NM_008997	ENSMUSG00000077450	Rab11b	A730055L17Rik	RAB11B, member RAS oncogene family	protein-coding	16.0	38.0	13.0	190.0	67.0	29.5	25.5	11.5
Merged-chr2-13537886-3	chr2	13537778	13537978	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010067, intron 1 of 10)	intron (NM_010067, intron 1 of 10)	6786.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	12.5	9.0	7.0	56.0	40.0	9.5	18.5	15.0
Merged-chr9-100528623-3	chr9	100528505	100528705	+	573.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010878, intron 1 of 3)	RMER6A|LTR|ERVK	17529.0	NM_010878	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	5.0	12.0	1.5	60.0	23.5	6.5	5.0	6.5
Merged-chr2-129565142-4	chr2	129564978	129565178	+	880.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27761.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	5.0	8.5	13.0	22.5	13.5	7.5	9.0	6.0
Merged-chr6-97815974-3	chr6	97815902	97816102	+	968.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	8944.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	9.0	21.0	5.5	182.0	21.0	10.0	5.5	8.5
Merged-chr8-103970666-3	chr8	103970566	103970766	+	930.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-130959.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	10.0	17.5	18.0	153.5	16.5	7.0	8.0	0.5
Merged-chr15-90634033-2	chr15	90633936	90634136	+	731.75	f0_balb.idr|f1_balb.idr	intron (NM_001357979, intron 3 of 18)	MTA_Mm|LTR|ERVL-MaLR	45352.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	12.0	13.0	24.0	147.0	0.5	0.0	0.0	0.0
Merged-chr9-89674355-3	chr9	89674233	89674433	+	838.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30710.0	NM_025360	66111.0	Mm.27606	NM_025360	ENSMUSG00000032353	Tmed3	1200002G13Rik|AW546672|P24b	transmembrane p24 trafficking protein 3	protein-coding	6.0	11.5	5.5	128.5	11.5	5.0	8.5	12.0
Merged-chr5-140596694-2	chr5	140596594	140596794	+	764.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-10647.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	8.5	7.5	10.5	80.0	8.0	3.0	6.5	6.0
Merged-chr2-160383053-3	chr2	160382956	160383156	+	682.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15991.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	2.5	6.0	1.0	136.0	18.5	5.5	5.5	7.5
Merged-chr1-34843435-2	chr1	34843335	34843535	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160235)	promoter-TSS (NM_001160235)	-385.0	NM_001160236	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	9.5	42.0	7.0	135.5	40.5	11.0	8.5	9.0
Merged-chr5-117505351-4	chr5	117505270	117505470	+	971.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 2 of 19)	intron (NM_001312914, intron 2 of 19)	91368.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	10.5	37.5	9.5	166.0	49.5	35.5	28.0	32.5
Merged-chr14-21409821-2	chr14	21409721	21409921	+	769.174988	f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 9 of 10)	intron (NM_134079, intron 9 of 10)	-89949.0	NM_001205241	54169.0	Mm.248967	NM_017479	ENSMUSG00000021767	Kat6b	AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf	K(lysine) acetyltransferase 6B	protein-coding	6.5	6.0	5.0	227.5	8.5	1.5	5.5	8.5
Merged-chr12-84361924-4	chr12	84361814	84362014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172581)	promoter-TSS (NM_172581)	-54.0	NM_172582	217707.0	Mm.280062	NM_172582	ENSMUSG00000021235	Coq6	5930427M12Rik|AW742344	coenzyme Q6 monooxygenase	protein-coding	186.5	355.5	134.0	2701.5	584.0	194.5	191.0	192.0
Merged-chr14-57665063-4	chr14	57664960	57665160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020506)	promoter-TSS (NM_020506)	-104.0	NM_020506	57258.0	Mm.202747	NM_020506	ENSMUSG00000021952	Xpo4	B430309A01Rik|mKIAA1721	exportin 4	protein-coding	61.5	96.0	78.5	1023.5	142.5	52.5	52.0	54.5
Merged-chr10-94148266-4	chr10	94148214	94148414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011629, intron 1 of 13)	CpG	383.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	44.0	53.0	29.5	363.5	107.5	33.0	39.0	39.5
Merged-chr19-42090296-4	chr19	42090171	42090371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145501)	promoter-TSS (NM_145501)	-164.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	332.0	502.0	336.0	4298.5	712.5	360.0	410.0	331.0
Merged-chr1-125463051-4	chr1	125462889	125463089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-27262.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	70.0	76.5	56.0	847.0	140.0	51.0	70.5	64.0
Merged-chr15-97098819-2	chr15	97098719	97098919	+	707.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42863.0	NM_027052	69354.0	Mm.250980	NM_027052	ENSMUSG00000022464	Slc38a4	1110012E16Rik|1700012A18Rik|Ata3|mATA3|mNAT3	solute carrier family 38, member 4	protein-coding	2.0	5.5	4.0	53.0	8.0	5.5	14.0	6.5
Merged-chr11-67125697-3	chr11	67125592	67125792	+	886.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5612.0	NR_038055	74184.0	Mm.162554	NR_038055	ENSMUSG00000087410	2310065F04Rik	linc-Myh	RIKEN cDNA 2310065F04 gene	ncRNA	14.5	24.5	25.5	592.5	9.0	6.0	2.0	6.0
Merged-chr13-62880438-3	chr13	62880363	62880563	+	657.727783	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019395, intron 1 of 6)	intron (NM_019395, intron 1 of 6)	7819.0	NM_019395	14121.0	Mm.423078	NM_019395	ENSMUSG00000069805	Fbp1	Fbp-2|Fbp2|Fbp3	fructose bisphosphatase 1	protein-coding	1.0	4.0	6.0	58.0	19.0	15.0	13.5	10.5
Merged-chr2-143035175-4	chr2	143035061	143035261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27908.0	NM_021335	20639.0	Mm.1323	NM_021335	ENSMUSG00000008333	Snrpb2	2810052G09Rik	U2 small nuclear ribonucleoprotein B	protein-coding	46.5	70.0	71.0	1480.5	158.5	61.5	82.5	64.0
Merged-chr6-136468580-4	chr6	136468492	136468692	+	814.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50259.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	17.0	12.0	7.5	134.5	23.5	4.5	8.0	10.5
Merged-chr14-73146943-4	chr14	73146872	73147072	+	888.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033185, intron 1 of 15)	RMER6A|LTR|ERVK	4187.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	10.5	21.0	9.0	180.5	49.0	19.5	14.5	11.5
Merged-chr1-54933737-1	chr1	54933637	54933837	+	693.666687	f0_balb.idr	Intergenic	Intergenic	-7350.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	6.0	16.5	8.0	33.5	16.0	5.0	2.5	2.0
Merged-chr5-115528282-3	chr5	115528159	115528359	+	896.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	21583.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	6.0	6.0	2.0	92.5	10.5	7.5	5.5	5.5
Merged-chr5-105032526-2	chr5	105032430	105032630	+	881.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_029509, intron 3 of 9)	RLTR13C2|LTR|ERVK	21031.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	3.0	2.5	2.5	26.0	9.0	6.0	7.0	12.0
Merged-chr15-98761876-2	chr15	98761776	98761976	+	770.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_007478, intron 1 of 4)	intron (NM_007478, intron 1 of 4)	1116.0	NM_001355510	11842.0	Mm.221298	NM_007478	ENSMUSG00000051853	Arf3	5430400P17Rik|AI854770	ADP-ribosylation factor 3	protein-coding	3.5	3.5	4.0	109.0	17.5	5.0	6.0	7.0
Merged-chr6-47175019-4	chr6	47174960	47175160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 20 of 23)	intron (NM_001004357, intron 20 of 23)	-69336.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	48.0	42.5	46.0	217.0	70.5	31.5	23.0	45.5
Merged-chr3-65957394-4	chr3	65957295	65957495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019937, intron 2 of 10)	intron (NM_019937, intron 2 of 10)	854.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	91.5	177.0	116.5	1561.0	245.5	101.0	140.0	83.5
Merged-chr3-79936331-1	chr3	79936231	79936431	+	789.599976	f0_balb.idr	intron (NM_133187, intron 2 of 3)	intron (NM_133187, intron 2 of 3)	50401.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	10.0	14.5	26.0	263.5	2.5	4.5	1.5	8.0
Merged-chr10-25250381-2	chr10	25250281	25250481	+	697.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 5 of 7)	intron (NM_018747, intron 5 of 7)	48782.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	4.5	3.5	7.5	63.0	15.0	9.5	7.5	10.5
Merged-chr11-106206831-3	chr11	106206694	106206894	+	630.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026009, intron 6 of 12)	intron (NM_026009, intron 6 of 12)	9573.0	NM_026009	67163.0	Mm.22109	NM_026009	ENSMUSG00000078622	Ccdc47	2610204L23Rik|C88307|asp4|calumin	coiled-coil domain containing 47	protein-coding	9.5	6.0	4.5	84.5	14.0	0.5	4.5	3.5
Merged-chr1-180303816-4	chr1	180303701	180303901	+	941.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26675.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	12.5	37.0	18.0	109.5	112.0	63.0	46.5	19.0
Merged-chr9-121877282-4	chr9	121877196	121877396	+	783.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19500.0	NM_001357840	56295.0	Mm.347915	NM_019814	ENSMUSG00000038412	Higd1a	2210020B17Rik|7420700H20Rik|AI303276|AW049839|HIMP1|Hig1	HIG1 domain family, member 1A	protein-coding	6.0	5.5	4.0	63.5	23.5	12.0	8.0	12.5
Merged-chr13-41466853-4	chr13	41466761	41466961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	20499.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	72.5	89.0	62.0	1271.0	202.0	79.5	105.0	82.0
Merged-chr15-25835093-4	chr15	25834989	25835189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8209.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	56.5	59.0	55.5	777.0	99.0	20.0	35.5	56.0
Merged-chr8-122556248-4	chr8	122556206	122556406	+	844.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4977.0	NM_001357349	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	15.0	19.0	6.5	138.0	29.5	9.0	5.0	10.5
Merged-chr4-53149901-4	chr4	53149802	53150002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	9993.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	146.5	311.5	262.0	2241.5	387.5	167.0	164.5	98.5
Merged-chr9-62373941-4	chr9	62373847	62374047	+	724.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 4 of 6)	intron (NM_009672, intron 4 of 6)	32604.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	5.5	16.5	10.0	121.0	18.0	7.0	12.5	10.0
Merged-chr15-25862990-2	chr15	25862890	25863090	+	806.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	HAL1|LINE|L1	19692.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	5.5	4.5	7.5	66.5	6.0	5.0	2.5	3.0
Merged-chr13-46930957-1	chr13	46930857	46931057	+	548.0	f0_c57.idr	Intergenic	Intergenic	-1239.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	7.0	9.5	4.5	34.5	18.5	4.5	9.0	5.0
Merged-chr13-100681835-4	chr13	100681737	100681937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183115, exon 4 of 12)	exon (NM_183115, exon 4 of 12)	12356.0	NM_001168386	76041.0	Mm.23977	NM_183115	ENSMUSG00000048924	Ccdc125	5830436D01Rik|AL023012	coiled-coil domain containing 125	protein-coding	26.5	39.5	26.0	430.5	73.0	40.5	31.5	48.5
Merged-chr18-39635028-4	chr18	39634899	39635099	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-138498.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	16.0	19.5	12.5	192.0	28.0	9.5	13.5	12.0
Merged-chr11-101983272-7	chr11	101983148	101983348	+	906.9761960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028207, intron 1 of 2)	intron (NM_028207, intron 1 of 2)	1543.0	NM_028207	72349.0	Mm.196295	NM_028207	ENSMUSG00000003518	Dusp3	2210015O03Rik|5031436O03Rik|T-DSP11|VHR	dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related)	protein-coding	3.0	2.5	19.0	50.5	14.0	8.5	11.5	22.0
Merged-chr1-190979340-4	chr1	190979231	190979431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144879)	promoter-TSS (NM_144879)	-35.0	NR_027352	226841.0	Mm.22856	NM_144879	ENSMUSG00000037568	Vash2	B130052G07Rik	vasohibin 2	protein-coding	20.5	48.5	31.5	557.0	95.0	27.0	36.0	23.0
Merged-chr9-104057312-3	chr9	104057203	104057403	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025692, intron 3 of 11)	intron (NM_025692, intron 3 of 11)	5818.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	28.0	35.5	24.5	607.0	4.5	2.5	5.0	3.5
Merged-chr10-68278685-2	chr10	68278585	68278785	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023598)	promoter-TSS (NM_023598)	41.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	7.5	9.0	6.5	78.5	49.5	7.5	9.5	8.5
Merged-chr11-97412263-4	chr11	97412166	97412366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37894.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	20.0	29.5	15.5	490.5	42.5	6.0	15.5	10.5
Merged-chr19-29369045-1	chr19	29368945	29369145	+	774.833313	f0_balb.idr	intron (NM_021893, intron 1 of 6)	intron (NM_021893, intron 1 of 6)	1607.0	NM_021893	60533.0	Mm.245363	NM_021893	ENSMUSG00000016496	Cd274	A530045L16Rik|B7h1|Pdcd1l1|Pdcd1lg1|Pdl1	CD274 antigen	protein-coding	15.0	32.0	12.0	119.5	37.0	20.0	20.0	20.0
Merged-chr16-90885965-3	chr16	90885878	90886078	+	796.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027627, intron 4 of 6)	intron (NM_027627, intron 4 of 6)	48871.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	2.0	6.0	17.0	164.5	15.0	5.0	10.5	9.5
Merged-chr16-19981218-2	chr16	19981118	19981318	+	782.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_183390, intron 1 of 6)	intron (NM_183390, intron 1 of 6)	1831.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	2.0	6.5	3.5	94.0	25.0	4.5	5.5	7.0
Merged-chr3-75276719-4	chr3	75276576	75276776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6598.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	42.5	54.0	56.5	739.0	85.0	42.0	46.0	29.5
Merged-chr12-85347695-4	chr12	85347618	85347818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 3 of 4)	intron (NM_026775, intron 3 of 4)	-8356.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	39.0	44.0	66.0	811.5	80.0	21.0	52.5	47.0
Merged-chr15-59739338-4	chr15	59739221	59739421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55638.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	47.5	77.0	30.5	686.0	111.5	39.0	32.0	39.0
Merged-chr17-33685467-4	chr17	33685365	33685565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029804)	promoter-TSS (NM_029804)	-7.0	NM_029804	76936.0	Mm.311439	NM_029804	ENSMUSG00000059208	Hnrnpm	2610023M21Rik|AA409009|Hnrpm|mKIAA4193	heterogeneous nuclear ribonucleoprotein M	protein-coding	100.0	161.5	63.5	1151.5	269.0	100.5	106.5	119.5
Merged-chr14-27186949-4	chr14	27186907	27187107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	RSINE1|SINE|B4	43014.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	37.0	48.0	42.0	629.5	74.5	35.5	25.0	36.0
Merged-chr3-87017922-4	chr3	87017814	87018014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18574.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	97.0	102.5	89.5	1330.5	198.5	68.5	85.5	70.0
Merged-chr6-71980258-4	chr6	71980178	71980378	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009088)	TTS (NM_009088)	62250.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	44.5	86.5	29.0	582.0	90.5	50.5	33.0	20.5
Merged-chr14-31382580-4	chr14	31382472	31382672	+	983.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	35105.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	14.0	25.0	27.5	179.0	61.0	22.5	27.0	26.0
Merged-chr6-24894760-4	chr6	24894667	24894867	+	933.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36770.0	NM_028957	74468.0	Mm.251601	NM_028957	ENSMUSG00000029678	Hyal5	4933439A12Rik	hyaluronoglucosaminidase 5	protein-coding	17.0	24.0	30.0	350.5	33.0	13.0	20.5	17.0
Merged-chr8-68951994-4	chr8	68951894	68952094	+	912.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	71439.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	9.0	9.5	19.0	377.0	46.5	14.0	35.5	32.5
Merged-chr7-19468505-4	chr7	19468406	19468606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10012.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	51.5	71.0	27.5	471.0	107.5	62.0	62.5	41.5
Merged-chr16-30604688-4	chr16	30604592	30604792	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4969.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	17.5	61.0	12.5	223.0	64.5	28.0	23.0	19.0
Merged-chr5-65484127-4	chr5	65484010	65484210	+	969.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	MLT-int|LTR|ERVL-MaLR	8725.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	19.5	39.0	12.5	294.5	40.0	18.5	24.5	13.5
Merged-chr3-107332597-2	chr3	107332497	107332697	+	677.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001045807, exon 1 of 2)	exon (NM_001045807, exon 1 of 2)	692.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	14.0	15.0	9.0	156.5	39.5	22.0	10.0	14.5
Merged-chr18-24205880-4	chr18	24205777	24205977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160404)	promoter-TSS (NM_001160404)	-82.0	NM_001361200	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	50.0	50.5	32.0	617.0	100.0	26.5	56.5	30.5
Merged-chr17-53567579-4	chr17	53567505	53567705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151733, intron 1 of 16)	CpG	634.0	NR_151733	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	30.5	20.0	35.0	313.0	41.0	14.5	20.5	19.0
Merged-chr3-121546147-4	chr3	121546063	121546263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13819.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	36.5	61.0	25.0	509.0	154.5	67.0	59.0	64.5
Merged-chr17-33566405-4	chr17	33566310	33566510	+	925.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053214, intron 1 of 27)	intron (NM_053214, intron 1 of 27)	10703.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	14.5	40.5	22.0	265.0	35.5	18.0	15.0	18.0
Merged-chr4-141681981-4	chr4	141681884	141682084	+	978.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3732.0	NM_023544	69994.0	Mm.441022	NM_023544	ENSMUSG00000040715	Rsc1a1	1700027M01Rik|Rs1	regulatory solute carrier protein, family 1, member 1	protein-coding	19.0	21.0	13.0	241.5	53.5	27.0	32.0	27.0
Merged-chr11-83020116-2	chr11	83020016	83020216	+	982.8000490000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_181545, intron 1 of 5)	intron (NM_181545, intron 1 of 5)	606.0	NM_001167743	276950.0	Mm.491599	NM_181545	ENSMUSG00000035208	Slfn8	-	schlafen 8	protein-coding	1.0	4.5	7.0	60.5	10.0	6.5	5.0	4.5
Merged-chr19-6869606-4	chr19	6869483	6869683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	-11372.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	98.5	162.5	60.5	1406.0	193.5	88.5	83.0	53.5
Merged-chr7-132656778-4	chr7	132656661	132656861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029609, intron 6 of 6)	intron (NM_029609, intron 6 of 6)	46118.0	NM_029609	76429.0	Mm.276721	NM_029609	ENSMUSG00000030946	Lhpp	2310007H09Rik	phospholysine phosphohistidine inorganic pyrophosphate phosphatase	protein-coding	19.5	57.0	27.5	545.0	61.5	20.0	38.0	26.0
Merged-chr11-44528643-4	chr11	44528572	44528772	+	764.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 2 of 5)	MTD|LTR|ERVL-MaLR	9295.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	6.0	8.5	11.5	98.0	15.0	9.0	7.0	5.0
Merged-chr9-21924208-4	chr9	21924115	21924315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045606, intron 3 of 4)	intron (NR_045606, intron 3 of 4)	3073.0	NM_001253869	235043.0	Mm.253329	NM_178577	ENSMUSG00000040883	Tmem205	-	transmembrane protein 205	protein-coding	80.0	154.0	83.5	1588.5	234.5	85.0	105.5	104.0
Merged-chr9-95511417-4	chr9	95511281	95511481	+	881.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357977, intron 1 of 25)	CpG	615.0	NM_001357975	67958.0	Mm.292742	NM_026476	ENSMUSG00000032407	U2surp	2610101N10Rik|AU023006|Sr140	U2 snRNP-associated SURP domain containing	protein-coding	5.5	6.5	18.5	105.0	31.0	12.0	16.5	23.5
Merged-chr16-31025120-3	chr16	31025021	31025221	+	750.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 2 of 3)	intron (NM_198626, intron 2 of 3)	56311.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	17.5	5.5	17.0	123.5	14.5	5.0	6.0	22.0
Merged-chr18-55409420-4	chr18	55409290	55409490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-416799.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	95.0	187.0	130.5	1915.0	205.5	92.0	134.5	129.5
Merged-chr1-107516089-4	chr1	107515983	107516183	+	798.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011111, intron 2 of 7)	intron (NM_011111, intron 2 of 7)	4573.0	NM_011111	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	7.5	13.5	8.5	133.5	21.5	5.0	9.5	6.5
Merged-chr17-45572593-4	chr17	45572497	45572697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008302, intron 1 of 10)	CpG	664.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	61.0	98.0	51.5	1043.0	159.5	76.5	65.0	77.0
Merged-chr11-116089200-4	chr11	116089101	116089301	+	890.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2206.0	NM_001347642	22378.0	Mm.284792	NM_016852	ENSMUSG00000034341	Wbp2	-	WW domain binding protein 2	protein-coding	18.5	27.0	6.0	60.5	44.0	11.5	16.0	20.0
Merged-chr10-16412458-4	chr10	16412360	16412560	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	620683.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	11.5	19.0	31.0	429.5	60.5	26.0	49.0	43.5
Merged-chr2-75802108-4	chr2	75802010	75802210	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30067.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	23.5	26.0	18.5	359.5	33.5	11.5	18.0	19.5
Merged-chr11-54730094-2	chr11	54729993	54730193	+	678.25	f0_balb.idr|f0_c57.idr	intron (NM_178626, intron 3 of 5)	ID|SINE|ID	57610.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	5.0	15.5	8.0	111.0	34.5	6.5	8.0	16.5
Merged-chr9-69706076-4	chr9	69705967	69706167	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54873.0	NM_022378	64290.0	Mm.440890	NM_022378	ENSMUSG00000059246	Foxb1	C43|Fkh5|Foxb1a|Foxb1b|Hfh-e5.1|Mf3|Twh	forkhead box B1	protein-coding	26.5	48.5	39.5	423.5	31.5	9.5	15.0	13.5
Merged-chr8-11107418-3	chr8	11107307	11107507	+	959.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98977.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	13.5	16.5	34.0	420.5	15.5	5.0	5.0	8.5
Merged-chr3-105894848-4	chr3	105894716	105894916	+	965.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-9605.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	7.5	16.0	12.0	223.5	29.5	7.0	24.0	15.5
Merged-chr8-83244292-4	chr8	83244176	83244376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111304, intron 9 of 20)	intron (NM_001111304, intron 9 of 20)	-46072.0	NM_009463	22227.0	Mm.4177	NM_009463	ENSMUSG00000031710	Ucp1	AI385626|Slc25a7|Ucp	uncoupling protein 1 (mitochondrial, proton carrier)	protein-coding	42.0	37.5	37.0	700.0	121.5	35.5	56.5	36.5
Merged-chr19-7040095-4	chr19	7039991	7040191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016737)	promoter-TSS (NM_016737)	-65.0	NM_016737	20867.0	Mm.258633	NM_016737	ENSMUSG00000024966	Stip1	Hop|Sti1|p60	stress-induced phosphoprotein 1	protein-coding	296.0	531.0	276.0	3578.5	719.5	318.0	345.5	350.0
Merged-chr1-191098381-4	chr1	191098277	191098477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030060)	promoter-TSS (NM_030060)	-37.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	86.5	169.5	81.5	1184.5	160.0	75.0	70.0	48.5
Merged-chr4-49607321-4	chr4	49607224	49607424	+	871.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-9448.0	NM_025944	67063.0	Mm.454013	NM_025944	ENSMUSG00000039611	Tmem246	2810432L12Rik|9330170P15Rik|AI835809	transmembrane protein 246	protein-coding	9.0	12.5	16.0	211.5	29.5	9.0	14.5	21.5
Merged-chr16-36725276-4	chr16	36725187	36725387	+	787.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 7 of 7)	intron (NM_001285788, intron 7 of 7)	31309.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	6.5	13.5	5.0	85.5	29.5	5.0	13.0	2.5
Merged-chr2-31298031-4	chr2	31297879	31298079	+	923.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52056.0	NM_019681	14299.0	Mm.249318	NM_019681	ENSMUSG00000062661	Ncs1	9430075O15Rik|A730032G13Rik|AI836659|Freq|Mfreq|NCS-1	neuronal calcium sensor 1	protein-coding	14.5	18.0	6.5	92.5	39.5	9.0	13.0	13.5
Merged-chr6-136742516-3	chr6	136742387	136742587	+	968.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 10 of 25)	intron (NM_145067, intron 10 of 25)	39255.0	NM_145067	14917.0	Mm.222729	NM_145067	ENSMUSG00000042638	Gucy2c	AI893437|GC-C|Gcc	guanylate cyclase 2c	protein-coding	19.5	33.0	13.0	358.5	29.0	7.0	7.0	10.0
Merged-chr4-115057083-4	chr4	115056973	115057173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287388)	promoter-TSS (NM_001287388)	647.0	NM_011527	21349.0	Mm.239869	NM_011527	ENSMUSG00000028717	Tal1	Hpt|SCL/tal-1|Scl|bHLHa17|tal-1	T cell acute lymphocytic leukemia 1	protein-coding	21.0	17.0	25.5	416.5	41.0	14.0	19.5	35.0
Merged-chr2-91088033-4	chr2	91087933	91088133	+	789.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8645.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	7.0	10.5	6.5	85.5	17.5	11.5	11.5	11.0
Merged-chr2-60172109-2	chr2	60172009	60172209	+	806.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-37827.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	8.0	9.0	9.5	66.0	18.0	1.5	2.0	2.0
Merged-chr11-29692827-4	chr11	29692735	29692935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194053)	promoter-TSS (NM_194053)	-63.0	NM_194053	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	407.5	596.5	445.5	5638.0	968.0	368.5	452.5	350.0
Merged-chr7-127213585-4	chr7	127213478	127213678	+	804.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_017461)	TTS (NM_017461)	1970.0	NM_016754	17907.0	Mm.14526	NM_016754	ENSMUSG00000030672	Mylpf	2410014J02Rik|MLC-2|Mlc2	myosin light chain, phosphorylatable, fast skeletal muscle	protein-coding	6.5	16.5	4.0	85.0	14.0	9.0	5.5	14.0
Merged-chr10-14293091-1	chr10	14292991	14293191	+	587.0	f0_balb.idr	Intergenic	ERVB4_2-LTR_MM|LTR|ERVK	251945.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	4.5	8.5	12.5	83.0	4.0	2.0	1.5	7.0
Merged-chr11-3931684-1	chr11	3931584	3931784	+	743.0	f0_balb.idr	intron (NM_001130458, intron 1 of 9)	intron (NM_001130458, intron 1 of 9)	277.0	NM_001130459	21452.0	Mm.20948	NM_015749	ENSMUSG00000020432	Tcn2	AW208754|Tcn-2	transcobalamin 2	protein-coding	11.0	7.0	13.0	159.0	19.5	5.5	11.5	9.5
Merged-chr17-34119415-4	chr17	34119289	34119489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_037970, exon 1 of 13)	non-coding (NR_037970, exon 1 of 13)	511.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	141.5	286.5	107.0	1379.5	422.0	213.5	127.0	170.5
Merged-chr1-60658573-3	chr1	60658430	60658630	+	890.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-87858.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	8.0	6.0	10.5	157.0	12.5	5.0	4.0	4.5
Merged-chr17-65724440-4	chr17	65724351	65724551	+	858.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	48301.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	10.5	19.5	17.0	254.0	26.5	8.0	10.5	13.5
Merged-chr1-178337820-4	chr1	178337744	178337944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016805)	promoter-TSS (NM_016805)	-29.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	113.5	218.5	115.5	1333.0	427.5	143.0	177.0	138.5
Merged-chr12-119372560-4	chr12	119372454	119372654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70856.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	53.5	88.5	80.0	998.0	138.5	66.0	59.0	37.5
Merged-chr13-20108107-4	chr13	20108000	20108200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	17593.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	85.0	163.5	64.5	1407.0	233.0	78.5	76.0	64.0
Merged-chr1-16747471-4	chr1	16747367	16747567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59011.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	51.5	64.0	76.0	1226.0	77.5	16.5	46.5	43.5
Merged-chr3-9250345-2	chr3	9250245	9250445	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177660)	promoter-TSS (NM_177660)	-222.0	NM_177660	229055.0	Mm.103262	NM_177660	ENSMUSG00000069114	Zbtb10	4832414A18|AU021107|RINZF	zinc finger and BTB domain containing 10	protein-coding	13.5	21.0	21.0	172.5	53.0	9.0	11.0	13.5
Merged-chr7-48973071-2	chr7	48972971	48973171	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	13998.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	7.0	9.5	6.0	171.5	6.0	5.0	5.0	4.0
Merged-chr12-84219426-4	chr12	84219323	84219523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163501)	promoter-TSS (NM_001163501)	-542.0	NM_001163501	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	34.5	60.0	49.0	539.5	79.5	22.0	31.0	24.0
Merged-chr5-41525680-4	chr5	41525585	41525785	+	959.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	182006.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	12.5	9.5	8.5	228.0	189.5	60.5	101.0	91.5
Merged-chr13-119358909-4	chr13	119358803	119359003	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308506, intron 12 of 16)	MTD|LTR|ERVL-MaLR	50108.0	NM_008710	18115.0	Mm.132584	NM_008710	ENSMUSG00000116207	Nnt	4930423F13Rik|AI323702|BB168308	nicotinamide nucleotide transhydrogenase	protein-coding	2.0	4.0	11.5	195.5	31.0	6.0	13.5	17.5
Merged-chr1-119997228-4	chr1	119997087	119997287	+	698.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1977.0	NM_001115074	226356.0	Mm.297290	NM_001115074	ENSMUSG00000036962	Cfap221	Gm101|Pcdp1	cilia and flagella associated protein 221	protein-coding	6.5	9.5	8.5	92.5	13.0	12.0	8.5	11.0
Merged-chr7-113614647-4	chr7	113614541	113614741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49654.0	NR_126544	69295.0	Mm.396150	NR_126544	ENSMUSG00000084984	Far1os	1700006P19Rik	fatty acyl CoA reductase 1, opposite strand	ncRNA	19.0	42.5	25.5	749.5	92.0	30.0	38.0	24.0
Merged-chr10-22732404-4	chr10	22732304	22732504	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011603)	promoter-TSS (NM_011603)	-957.0	NM_011603	237336.0	Mm.86670	NM_011603	ENSMUSG00000071359	Tbpl1	4732475G08|AW011832|AW491032|D18347|STD|TLF|TRF2|TRP|Tlp	TATA box binding protein-like 1	protein-coding	21.5	35.5	19.0	385.5	59.0	19.5	23.0	23.5
Merged-chr4-3795255-7	chr4	3795117	3795317	+	929.857117	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1A|Other|Other	40438.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	3.0	0.5	18.5	51.5	6.0	8.0	4.5	7.0
Merged-chr8-13214093-4	chr8	13213988	13214188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13464.0	NM_025768	66790.0	Mm.34901	NM_025768	ENSMUSG00000038515	Grtp1	5430401C05Rik|C81211|Tbc1d6	GH regulated TBC protein 1	protein-coding	20.5	34.5	20.5	346.0	59.0	27.5	23.0	26.5
Merged-chr15-9071149-4	chr15	9071067	9071267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286255)	promoter-TSS (NM_001286255)	-93.0	NM_001286255	68646.0	Mm.244226	NM_001040395	ENSMUSG00000022253	Nadk2	MNADK|Nadkd1	NAD kinase 2, mitochondrial	protein-coding	313.5	482.0	298.0	4718.0	918.5	340.5	463.0	327.5
Merged-chr4-139430366-4	chr4	139430292	139430492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160319, intron 48 of 105)	intron (NM_001160319, intron 48 of 105)	49733.0	NM_001160319	69116.0	Mm.271956	NM_001160319	ENSMUSG00000066036	Ubr4	1810009A16Rik|A930005E13Rik|D930005K06Rik|Gm1032|Gm1666|N28143|RBAF600|Zubr1|mKIAA0462|p600	ubiquitin protein ligase E3 component n-recognin 4	protein-coding	45.5	67.5	37.5	557.5	129.5	66.5	79.5	40.5
Merged-chr15-50855178-4	chr15	50855071	50855271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	ORR1F|LTR|ERVL-MaLR	33878.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	46.5	42.5	39.5	667.5	92.5	41.0	41.5	29.5
Merged-chr6-82042906-3	chr6	82042747	82042947	+	647.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145570, intron 1 of 2)	intron (NM_145570, intron 1 of 2)	1219.0	NM_145570	232146.0	Mm.489683	NM_145570	ENSMUSG00000035104	Eva1a	BC014699|Fam176a|Tmem166	eva-1 homolog A (C. elegans)	protein-coding	6.5	7.5	7.5	87.5	4.0	1.0	1.0	0.5
Merged-chr11-83739417-3	chr11	83739328	83739528	+	856.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7512.0	NM_183249	66107.0	Mm.902	NM_183249	ENSMUSG00000051748	Wfdc21	1100001G20Rik|Wdnm1-like	WAP four-disulfide core domain 21	protein-coding	7.5	10.0	11.0	44.5	40.0	7.5	10.5	8.0
Merged-chr11-103171039-4	chr11	103170939	103171139	+	997.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077698)	promoter-TSS (NM_001077698)	-99.0	NM_001077698	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	29.0	37.0	17.5	438.5	54.5	18.0	19.5	28.5
Merged-chr3-139110245-4	chr3	139110141	139110341	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35040.0	NM_001356388	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	20.0	24.0	19.0	406.5	52.0	16.0	23.0	19.0
Merged-chr7-28277713-4	chr7	28277602	28277802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177427)	promoter-TSS (NM_001177427)	-4.0	NM_001177427	434156.0	Mm.118535	NM_001177427	ENSMUSG00000070705	Eid2b	3010005C08Rik	EP300 interacting inhibitor of differentiation 2B	protein-coding	37.5	41.5	12.5	469.0	104.0	37.5	34.0	34.0
Merged-chr4-148087522-4	chr4	148087423	148087623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301281, intron 1 of 4)	intron (NM_001301281, intron 1 of 4)	541.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	75.0	112.5	79.5	506.0	118.5	71.5	47.5	30.0
Merged-chr1-88094587-4	chr1	88094396	88094596	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201642)	promoter-TSS (NM_201642)	-505.0	NM_201642	394432.0	Mm.300095	NM_201642	ENSMUSG00000090124	Ugt1a7c	A10'|A13|Ugt1a10	UDP glucuronosyltransferase 1 family, polypeptide A7C	protein-coding	27.0	60.5	39.0	74.0	91.5	36.0	49.0	24.5
Merged-chr9-7577551-4	chr9	7577442	7577642	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310717, intron 5 of 9)	intron (NM_001310717, intron 5 of 9)	6146.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	15.0	11.0	10.0	191.0	40.5	5.5	12.0	26.0
Merged-chr17-47515711-4	chr17	47515600	47515800	+	824.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081635, intron 1 of 6)	intron (NM_001081635, intron 1 of 6)	10649.0	NM_001081635	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	16.5	25.5	15.0	104.5	25.5	12.5	13.0	11.0
Merged-chr6-83013705-3	chr6	83013618	83013818	+	810.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 7 of 9)	intron (NM_033079, intron 7 of 9)	19753.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	10.0	11.0	11.5	334.0	3.0	0.0	1.0	3.5
Merged-chr6-84661880-3	chr6	84661715	84661915	+	854.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 20 of 21)	intron (NM_177077, intron 20 of 21)	-67907.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	5.5	7.5	17.5	62.5	9.0	1.0	9.5	6.0
Merged-chr6-122545507-3	chr6	122545413	122545613	+	681.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8296.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	11.0	11.5	9.0	107.5	3.5	4.0	4.0	12.5
Merged-chr5-110357730-4	chr5	110357626	110357826	+	743.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12996.0	NM_001310709	381667.0	Mm.332572	NM_001033459	ENSMUSG00000072754	Lrcol1	Clpsl3|Gm1679	leucine rich colipase-like 1	protein-coding	4.0	4.0	3.0	71.0	16.5	9.0	10.0	10.5
Merged-chr9-55255184-4	chr9	55255079	55255279	+	975.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	LTR37-int|LTR|ERV1	28446.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	30.5	56.5	33.0	432.5	33.0	18.5	9.0	14.0
Merged-chr11-79522162-4	chr11	79522076	79522276	+	785.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077496, intron 1 of 1)	intron (NM_001077496, intron 1 of 1)	1586.0	NM_001077496	216984.0	Mm.439665	NM_001077496	ENSMUSG00000093938	Evi2b	Evi-2|Evi2	ecotropic viral integration site 2b	protein-coding	14.5	19.0	8.0	102.5	35.0	13.5	14.5	30.0
Merged-chr5-130025996-3	chr5	130025916	130026116	+	823.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1635.0	NM_133768	109900.0	Mm.23869	NM_133768	ENSMUSG00000025533	Asl	2510006M18Rik|ASAL	argininosuccinate lyase	protein-coding	4.0	10.0	8.0	58.0	20.0	10.0	13.0	7.5
Merged-chr18-62178748-9	chr18	62178699	62178899	+	907.3110960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007420, exon 1 of 1)	exon (NM_007420, exon 1 of 1)	1182.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	19.5	18.0	12.5	91.0	19.5	10.5	5.0	15.5
Merged-chr7-142398176-4	chr7	142398059	142398259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10289.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	147.5	164.5	192.0	2437.5	298.0	144.0	164.0	191.5
Merged-chr2-160375036-4	chr2	160374950	160375150	+	925.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7985.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	13.0	11.5	12.5	269.5	34.0	17.0	21.0	17.0
Merged-chr10-118140376-3	chr10	118140286	118140486	+	876.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1401.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	23.0	13.0	10.0	213.0	2.0	1.5	4.5	1.5
Merged-chr1-34011139-4	chr1	34011037	34011237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133833)	promoter-TSS (NM_133833)	-688.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	47.0	83.0	39.0	784.0	104.5	38.0	71.5	40.0
Merged-chr7-98481202-2	chr7	98481102	98481302	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13020.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	2.0	11.0	3.0	54.5	6.0	8.0	4.5	10.5
Merged-chr2-165983761-3	chr2	165983605	165983805	+	849.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8932.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	7.5	8.0	8.0	91.5	16.5	10.5	6.5	5.5
Merged-chr2-125667300-3	chr2	125667197	125667397	+	957.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199022, intron 5 of 11)	intron (NM_199022, intron 5 of 11)	-5803.0	NM_025613	58521.0	Mm.425101	NM_025613	ENSMUSG00000091337	Eid1	2610002K20Rik|Cri1|EID-1|ORF12|PNAS-22|PTD014	EP300 interacting inhibitor of differentiation 1	protein-coding	13.0	16.0	13.0	295.5	11.5	9.0	17.5	7.5
Merged-chr17-26571594-4	chr17	26571498	26571698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	L1MD3|LINE|L1	10086.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	133.5	186.5	176.0	1858.5	236.0	54.5	73.5	87.5
Merged-chr10-62231267-4	chr10	62231170	62231370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197996)	promoter-TSS (NM_197996)	-52.0	NM_197996	70423.0	Mm.416781	NM_197996	ENSMUSG00000037031	Tspan15	1110036D12Rik|2700063A19Rik|AW048364|Tm4sf15	tetraspanin 15	protein-coding	129.0	204.5	152.5	2283.0	350.5	151.5	202.5	120.0
Merged-chr9-118747960-3	chr9	118747856	118748056	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 1 of 13)	intron (NM_001113514, intron 1 of 13)	36264.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	22.5	23.5	22.0	566.0	2.0	4.0	6.0	17.0
Merged-chr19-4144091-4	chr19	4143985	4144185	+	958.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_206973, exon 2 of 2)	3' UTR (NM_206973, exon 2 of 2)	4286.0	NM_206973	269053.0	Mm.131677	NM_206973	ENSMUSG00000044724	Gpr152	A930009H15Rik|Gm673	G protein-coupled receptor 152	protein-coding	33.0	33.5	14.5	149.5	34.0	18.5	26.0	19.5
Merged-chr7-129501573-4	chr7	129501477	129501677	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-90286.0	NM_172255	207425.0	Mm.229323	NM_172255	ENSMUSG00000042055	Wdr11	2900055P10Rik|AW489876|Brwd2|mKIAA1351	WD repeat domain 11	protein-coding	18.5	15.0	31.0	419.5	34.5	14.5	21.0	16.0
Merged-chr10-86977497-4	chr10	86977387	86977587	+	916.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 5 of 68)	intron (NM_138673, intron 5 of 68)	30455.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	19.0	12.0	19.5	357.5	27.5	4.0	12.0	9.5
Merged-chr14-33243498-4	chr14	33243394	33243594	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	26671.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	18.0	37.0	34.5	590.5	7.0	11.0	15.5	8.5
Merged-chr6-145123916-4	chr6	145123827	145124027	+	864.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008511, intron 1 of 18)	intron (NM_008511, intron 1 of 18)	2188.0	NM_008511	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	15.0	11.5	13.0	177.0	26.5	4.5	15.5	11.0
Merged-chr17-86971119-4	chr17	86971028	86971228	+	804.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	8017.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	11.0	4.5	10.5	116.0	50.5	13.0	4.0	14.0
Merged-chr8-104632202-4	chr8	104632123	104632323	+	869.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019662)	promoter-TSS (NM_019662)	-902.0	NM_019662	56437.0	Mm.29467	NM_019662	ENSMUSG00000031880	Rrad	REM3|Rad	Ras-related associated with diabetes	protein-coding	1.0	8.0	25.5	91.5	22.0	6.5	8.5	8.5
Merged-chr12-76596499-3	chr12	76596378	76596578	+	846.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013675, intron 32 of 35)	intron (NM_013675, intron 32 of 35)	-48553.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	6.5	15.5	8.5	212.0	15.5	9.0	7.0	4.0
Merged-chr17-26533994-4	chr17	26533882	26534082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25510.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	197.0	332.5	270.5	3609.0	431.0	167.0	187.5	211.5
Merged-chr7-4082976-4	chr7	4082880	4083080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033568, intron 6 of 8)	intron (NR_033568, intron 6 of 8)	-19776.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	73.5	116.0	76.0	1484.5	159.5	82.0	79.5	58.0
Merged-chr5-125273867-4	chr5	125273718	125273918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	67276.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	82.5	101.0	51.0	736.0	84.0	56.5	55.0	43.0
Merged-chr2-30464589-2	chr2	30464489	30464689	+	896.375	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9610.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	6.5	6.0	5.0	38.0	9.0	5.5	5.5	5.5
Merged-chr12-55473616-2	chr12	55473516	55473716	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19031.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	26.0	33.5	23.5	403.5	39.5	12.5	16.0	10.0
Merged-chr5-66138825-4	chr5	66138737	66138937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	12141.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	83.0	109.0	75.5	1351.5	128.5	42.5	70.0	50.5
Merged-chr15-102283825-3	chr15	102283724	102283924	+	951.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4368.0	NM_134100	106073.0	Mm.287740	NM_134100	ENSMUSG00000045665	Mfsd5	AA409375|AW556797|D15Mgi27	major facilitator superfamily domain containing 5	protein-coding	8.5	11.0	13.5	168.5	20.5	14.5	8.5	6.5
Merged-chr13-118775350-4	chr13	118775252	118775452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008002, intron 1 of 2)	intron (NM_008002, intron 1 of 2)	60653.0	NM_008002	14165.0	Mm.317323	NM_008002	ENSMUSG00000021732	Fgf10	AEY17|BB213776|Fgf-10|Gsfaey17	fibroblast growth factor 10	protein-coding	146.0	160.5	111.5	2129.5	195.0	53.0	78.0	71.0
Merged-chr10-125389483-4	chr10	125389370	125389570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-60507.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	39.0	67.5	70.0	685.5	97.0	54.5	44.5	65.5
Merged-chr5-105528232-3	chr5	105528168	105528368	+	965.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 1 of 3)	intron (NM_133897, intron 1 of 3)	8797.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	15.5	19.0	14.5	314.5	11.0	0.0	4.0	0.0
Merged-chr7-104446522-4	chr7	104446422	104446622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357467)	promoter-TSS (NM_001357467)	-397.0	NM_001357467	20128.0	Mm.295578	NM_009099	ENSMUSG00000030921	Trim30a	Rpt-1|Rpt1|Trim30	tripartite motif-containing 30A	protein-coding	59.5	74.5	33.5	645.0	120.0	41.5	62.5	38.5
Merged-chr12-91769621-4	chr12	91769534	91769734	+	901.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	16802.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	11.0	14.5	7.0	150.0	42.0	12.0	13.0	15.0
Merged-chr17-4840330-3	chr17	4840220	4840420	+	703.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-154754.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	7.0	7.5	6.0	100.0	21.0	5.0	11.0	7.5
Merged-chr5-34170931-4	chr5	34170809	34171009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1383.0	NM_001289803	272158.0	Mm.319286	NM_181857	ENSMUSG00000045102	Poln	POL4P	DNA polymerase N	protein-coding	36.0	59.0	26.0	498.5	81.0	43.5	26.5	37.0
Merged-chr1-62706404-6	chr1	62706326	62706526	+	832.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077404, intron 1 of 16)	CpG	3109.0	NM_001077407	18187.0	Mm.266341	NM_010939	ENSMUSG00000025969	Nrp2	1110048P06Rik|Np-2|Np2|Npn-2|Npn2	neuropilin 2	protein-coding	12.0	11.5	6.0	148.0	14.0	4.5	10.5	12.5
Merged-chr14-68567656-2	chr14	68567556	68567756	+	726.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_021475, intron 12 of 13)	intron (NM_021475, intron 12 of 13)	14416.0	NM_021475	58860.0	Mm.36742	NM_021475	ENSMUSG00000022057	Adamdec1	2210414L24Rik|AI574231|Dcsn	ADAM-like, decysin 1	protein-coding	8.5	10.0	5.5	99.5	12.5	10.0	11.0	10.5
Merged-chr11-80146087-4	chr11	80145999	80146199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3946.0	NM_183275	68550.0	Mm.18466	NM_183275	ENSMUSG00000046909	Tefm	1110002N22Rik	transcription elongation factor, mitochondrial	protein-coding	103.0	128.0	89.0	1183.0	163.5	64.5	74.0	85.5
Merged-chr7-136894477-4	chr7	136894381	136894581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008598)	promoter-TSS (NM_008598)	-130.0	NM_008598	17314.0	Mm.440219	NM_008598	ENSMUSG00000054612	Mgmt	AGT|AI267024|Agat	O-6-methylguanine-DNA methyltransferase	protein-coding	217.5	303.0	190.0	3603.5	484.5	222.5	305.5	186.5
Merged-chr9-20521450-4	chr9	20521354	20521554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082485)	promoter-TSS (NM_001082485)	-35.0	NM_001082485	77519.0	Mm.431849	NM_001082485	ENSMUSG00000060510	Zfp266	5330440G10Rik|5730601F06Rik|AW552317	zinc finger protein 266	protein-coding	41.0	76.5	71.0	1025.5	132.5	58.5	68.0	62.5
Merged-chr9-61251888-4	chr9	61251796	61251996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41913.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	27.0	40.5	26.0	547.5	41.5	20.5	35.0	19.5
Merged-chr12-108994783-4	chr12	108994669	108994869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 4 of 6)	intron (NM_177602, intron 4 of 6)	73448.0	NM_001163175	380785.0	Mm.342085	NM_001163175	ENSMUSG00000040867	Begain	BM948371|Gm897	brain-enriched guanylate kinase-associated	protein-coding	60.5	95.0	108.0	1532.0	111.5	65.5	106.0	61.5
Merged-chr9-44196567-4	chr9	44196444	44196644	+	932.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	L1MB5|LINE|L1	37502.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	11.0	26.5	8.5	315.5	37.0	15.0	19.0	19.0
Merged-chr16-13286671-4	chr16	13286559	13286759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122667, intron 2 of 16)	RMER19A|LTR|ERVK	21580.0	NM_181860	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	66.5	133.5	73.0	711.5	239.0	75.0	107.5	67.5
Merged-chr13-45109155-4	chr13	45109052	45109252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107056.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	175.5	268.5	193.0	2533.0	338.0	127.0	145.5	155.5
Merged-chr7-45451483-4	chr7	45451370	45451570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030678, intron 12 of 15)	intron (NM_030678, intron 12 of 15)	8416.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	42.5	83.5	28.5	794.0	126.0	61.5	60.5	69.5
Merged-chr11-77239858-4	chr11	77239763	77239963	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 1 of 14)	intron (NM_177710, intron 1 of 14)	23438.0	NM_177710	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	15.0	18.0	11.0	160.0	33.5	5.5	4.5	12.5
Merged-chr12-110738596-3	chr12	110738511	110738711	+	878.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	CpG	679.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	3.5	9.5	7.5	55.5	14.0	8.0	6.0	11.5
Merged-chr6-31177033-4	chr6	31176942	31177142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 2 of 2)	intron (NR_110470, intron 2 of 2)	41432.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	36.0	52.5	34.0	528.0	84.5	34.5	37.5	24.5
Merged-chr7-28962420-4	chr7	28962321	28962521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360548)	promoter-TSS (NM_001360548)	-89.0	NM_001360548	60595.0	Mm.81144	NM_021895	ENSMUSG00000054808	Actn4	C77391	actinin alpha 4	protein-coding	145.0	239.0	140.0	1925.0	367.0	137.0	157.0	102.0
Merged-chr1-120055644-4	chr1	120055562	120055762	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 11 of 13)	intron (NM_001012322, intron 11 of 13)	18118.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	15.0	19.5	20.5	303.5	36.0	8.5	20.0	36.5
Merged-chr8-70594308-4	chr8	70594211	70594411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023627)	promoter-TSS (NM_023627)	-170.0	NM_023627	71780.0	Mm.29357	NM_023627	ENSMUSG00000019139	Isyna1	1300017C10Rik|AU018670	myo-inositol 1-phosphate synthase A1	protein-coding	108.5	204.5	151.0	1608.5	188.5	69.5	85.0	81.0
Merged-chr6-145126548-3	chr6	145126455	145126655	+	623.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008511, intron 1 of 18)	Lx9|LINE|L1	4816.0	NM_008511	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	14.0	9.0	10.0	128.0	9.5	1.0	5.0	10.0
Merged-chr12-73044773-3	chr12	73044701	73044901	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009189, intron 1 of 1)	CpG	1911.0	NM_009189	20471.0	Mm.4645	NM_009189	ENSMUSG00000051367	Six1	BB138287	sine oculis-related homeobox 1	protein-coding	7.0	9.0	9.0	77.5	13.5	5.0	5.0	11.0
Merged-chr1-155140262-4	chr1	155140182	155140382	+	838.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008209, intron 1 of 5)	intron (NM_008209, intron 1 of 5)	6532.0	NM_001355063	15064.0	Mm.7580	NM_008209	ENSMUSG00000026471	Mr1	H2ls	major histocompatibility complex, class I-related	protein-coding	8.0	10.5	8.5	176.5	21.5	10.5	10.5	8.5
Merged-chr19-21897606-4	chr19	21897534	21897734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119294.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	77.5	88.0	82.0	1363.0	203.0	46.0	81.5	47.0
Merged-chr2-5014824-4	chr2	5014717	5014917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-2026.0	NM_027290	70024.0	Mm.23828	NM_027290	ENSMUSG00000026669	Mcm10	2410041F14Rik|AU018508|C330019M07Rik|C79164	minichromosome maintenance 10 replication initiation factor	protein-coding	18.0	27.5	22.0	467.5	57.5	22.5	38.5	21.5
Merged-chr8-12677716-4	chr8	12677604	12677804	+	796.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5604.0	NM_198031	259279.0	Mm.142095	NM_198031	ENSMUSG00000000759	Tubgcp3	GCP3|Spc98p	tubulin, gamma complex associated protein 3	protein-coding	5.0	14.0	6.5	65.0	15.0	11.0	14.5	10.0
Merged-chr15-62040538-6	chr15	62040379	62040579	+	836.722229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	1222.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	10.5	8.5	4.0	77.0	10.0	10.0	6.5	7.5
Merged-chr9-4443096-4	chr9	4443014	4443214	+	955.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113180, intron 14 of 16)	B2_Mm2|SINE|B2	66562.0	NM_145609	78100.0	Mm.206549	NM_145609	ENSMUSG00000041124	Msantd4	8430410K20Rik|Mysantd4	Myb/SANT-like DNA-binding domain containing 4 with coiled-coils	protein-coding	13.5	35.0	12.0	216.5	50.5	12.0	25.5	20.0
Merged-chr8-26696889-3	chr8	26696753	26696953	+	899.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	127570.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	5.0	23.0	13.0	133.0	15.5	5.0	4.5	9.5
Merged-chr3-152262897-4	chr3	152262789	152262989	+	942.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199465, intron 1 of 12)	intron (NM_199465, intron 1 of 12)	2906.0	NM_001357206	68810.0	Mm.200188	NM_199465	ENSMUSG00000039103	Nexn	1110046H09Rik|AA553326|NELIN	nexilin	protein-coding	19.0	15.0	19.5	551.0	43.5	8.5	15.0	21.0
Merged-chr17-34313576-4	chr17	34313452	34313652	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 2 of 5)	intron (NM_010382, intron 2 of 5)	7685.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	14.5	42.0	5.5	80.5	71.0	18.0	21.5	21.5
Merged-chr11-29172844-4	chr11	29172752	29172952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134034)	promoter-TSS (NM_134034)	-55.0	NM_134034	104570.0	Mm.276386	NM_134034	ENSMUSG00000020463	Ppp4r3b	AW011752|AW557776|Smek2|mKIAA1387	protein phosphatase 4 regulatory subunit 3B	protein-coding	177.5	203.5	171.5	1981.5	346.5	131.5	193.0	138.5
Merged-chr1-172586587-4	chr1	172586455	172586655	+	900.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029084, intron 2 of 4)	intron (NM_029084, intron 2 of 4)	4013.0	NM_029084	74748.0	Mm.179812	NM_029084	ENSMUSG00000053318	Slamf8	5830408F06Rik|Blame|SBBI42	SLAM family member 8	protein-coding	8.5	10.0	6.0	101.0	68.5	20.0	36.0	22.5
Merged-chr5-113017212-4	chr5	113017113	113017313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-1675.0	NM_177078	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	37.0	35.5	23.0	350.0	99.0	53.0	39.5	33.0
Merged-chr18-53899355-4	chr18	53899249	53899449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 2 of 12)	intron (NM_152809, intron 2 of 12)	37236.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	43.0	62.0	30.5	766.0	87.5	27.5	46.0	36.5
Merged-chr3-81933591-3	chr3	81933483	81933683	+	694.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177662, intron 1 of 7)	intron (NM_177662, intron 1 of 7)	982.0	NM_177662	229445.0	Mm.254642	NM_177662	ENSMUSG00000028015	Ctso	A330105D01Rik|AI118514	cathepsin O	protein-coding	11.0	7.5	10.5	119.0	14.5	10.0	1.0	8.0
Merged-chr14-25816633-2	chr14	25816533	25816733	+	643.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25522.0	NM_013469	11744.0	Mm.294083	NM_013469	ENSMUSG00000021866	Anxa11	A830099O17Rik|Anx11	annexin A11	protein-coding	7.0	5.5	4.5	90.5	16.0	2.5	7.0	3.5
Merged-chr11-6524605-4	chr11	6524502	6524702	+	860.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045893)	TTS (NR_045893)	-3644.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	16.0	15.5	7.5	130.0	13.5	6.5	11.0	12.5
Merged-chr1-64303079-4	chr1	64302983	64303183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-181694.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	86.5	159.5	103.5	1053.5	268.5	94.5	95.0	72.5
Merged-chr19-9936748-4	chr19	9936639	9936839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37206.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	96.0	101.5	81.5	1654.0	123.5	48.5	48.0	40.0
Merged-chr5-65717590-4	chr5	65717492	65717692	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19736.0	NM_001081321	71521.0	Mm.278974	NM_027818	ENSMUSG00000029202	Pds5a	9030416H16Rik|E230024D05Rik|mKIAA0648	PDS5 cohesin associated factor A	protein-coding	10.5	23.5	14.0	299.5	47.0	13.0	22.0	25.5
Merged-chr17-71301510-4	chr17	71301416	71301616	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	9495.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	16.0	14.0	34.5	422.5	52.0	12.5	18.0	12.0
Merged-chr5-121923659-3	chr5	121923559	121923759	+	797.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007804, intron 3 of 22)	PB1D10|SINE|Alu	74662.0	NM_001359949	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	11.0	13.0	7.5	188.5	1.5	1.0	7.5	2.5
Merged-chr14-62245630-5	chr14	62245602	62245802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47277.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	22.0	52.5	50.0	386.5	51.0	25.0	23.0	18.5
Merged-chr4-126815076-4	chr4	126814961	126815161	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035525, intron 4 of 23)	intron (NM_001035525, intron 4 of 23)	61291.0	NM_001035526	100317.0	Mm.206206	NM_133886	ENSMUSG00000028830	AU040320	A730047D20Rik|AAVR|Kiaa0319l	expressed sequence AU040320	protein-coding	24.5	55.5	57.5	683.0	51.0	19.0	18.0	24.5
Merged-chr13-91599796-3	chr13	91599684	91599884	+	962.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 4 of 15)	MTC|LTR|ERVL-MaLR	138687.0	NM_024186	66970.0	Mm.343095	NM_024186	ENSMUSG00000003992	Ssbp2	1500004K09Rik|2310079I02Rik|9330163K02Rik|A830008M03Rik|AU067692|AW558684|Hspc116|SSDP2	single-stranded DNA binding protein 2	protein-coding	11.5	9.0	21.5	260.5	14.0	4.5	14.5	5.5
Merged-chr15-99009011-3	chr15	99008914	99009114	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20877.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	13.0	20.5	17.0	158.5	19.0	20.0	11.5	13.0
Merged-chr11-97362266-4	chr11	97362188	97362388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138657)	promoter-TSS (NM_138657)	-263.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	97.0	153.0	64.5	1090.0	292.0	87.5	104.5	81.0
Merged-chr11-83078227-4	chr11	83078143	83078343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13131.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	120.5	190.5	106.0	1855.0	234.5	100.0	115.0	108.5
Merged-chr9-35040322-2	chr9	35040222	35040422	+	888.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76406.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	2.5	5.5	2.5	0.5	7.5	6.0	8.0	7.0
Merged-chr5-121249858-4	chr5	121249745	121249945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181421, intron 1 of 75)	intron (NM_181421, intron 1 of 75)	29626.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	17.5	20.5	30.0	411.5	61.0	20.0	39.0	40.0
Merged-chr2-125696433-3	chr2	125696291	125696491	+	982.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199022, intron 1 of 11)	intron (NM_199022, intron 1 of 11)	23291.0	NM_025613	58521.0	Mm.425101	NM_025613	ENSMUSG00000091337	Eid1	2610002K20Rik|Cri1|EID-1|ORF12|PNAS-22|PTD014	EP300 interacting inhibitor of differentiation 1	protein-coding	22.5	7.0	24.5	249.0	6.0	4.0	12.0	8.5
Merged-chr5-23432945-4	chr5	23432844	23433044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040469, exon 1 of 1)	non-coding (NR_040469, exon 1 of 1)	1409.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	208.5	255.0	162.5	2687.5	405.0	172.0	177.0	148.5
Merged-chr10-81633727-4	chr10	81633609	81633809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027480, intron 2 of 19)	intron (NM_027480, intron 2 of 19)	5169.0	NM_027480	70615.0	Mm.304382	NM_027480	ENSMUSG00000054708	Ankrd24	4631433D01Rik|5730519E19Rik|D10Bur2e	ankyrin repeat domain 24	protein-coding	146.5	131.0	152.0	2166.0	208.0	79.0	111.0	82.0
Merged-chr10-28463939-3	chr10	28463841	28464041	+	979.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 7 of 30)	intron (NM_001359356, intron 7 of 30)	-204419.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	9.5	24.5	17.0	442.0	6.0	5.5	6.5	5.0
Merged-chr14-55735996-4	chr14	55735888	55736088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9696.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	78.5	76.0	101.5	1234.5	152.0	47.5	87.0	89.5
Merged-chr16-25058227-4	chr16	25058126	25058326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1413.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	117.0	104.0	150.0	2044.0	156.5	83.5	70.5	92.0
Merged-chr7-101230455-4	chr7	101230343	101230543	+	832.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199012, intron 8 of 20)	intron (NM_199012, intron 8 of 20)	71645.0	NM_001111111	73683.0	Mm.275744	NM_001111111	ENSMUSG00000047767	Atg16l2	2410118P20Rik	autophagy related 16-like 2 (S. cerevisiae)	protein-coding	21.5	21.0	14.0	318.0	33.5	3.0	11.5	6.0
Merged-chr1-165738087-4	chr1	165737981	165738181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25677.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	31.5	45.5	25.5	436.0	58.0	19.5	24.5	32.0
Merged-chr5-81078198-4	chr5	81078094	81078294	+	875.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 2 of 27)	ORR1F|LTR|ERVL-MaLR	56601.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	18.0	11.5	11.5	229.0	25.5	9.5	7.5	9.5
Merged-chr17-17838364-4	chr17	17838304	17838504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162909, exon 8 of 9)	exon (NM_001162909, exon 8 of 9)	7429.0	NM_001162909	75202.0	Mm.227456	NM_029205	ENSMUSG00000080316	Spaca6	4930546H06Rik|9530079D04Rik|B230206P06Rik|Ncrna00085|SPACA6A|let-7e|mir-125a|mir-99b	sperm acrosome associated 6	protein-coding	228.5	393.0	214.5	3635.0	560.5	251.5	259.5	191.5
Merged-chr17-23193227-4	chr17	23193126	23193326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009555)	promoter-TSS (NM_009555)	2.0	NM_009555	22700.0	Mm.437934	NM_009555	ENSMUSG00000002617	Zfp40	CTfin12|NTfin12|Zfp-40	zinc finger protein 40	protein-coding	72.0	80.5	64.5	1177.0	152.5	59.0	101.0	52.5
Merged-chr11-17953891-4	chr11	17953792	17953992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131916)	promoter-TSS (NR_131916)	-17.0	NM_026576	68145.0	Mm.178684	NM_026576	ENSMUSG00000016984	Etaa1	5730466H23Rik|AA672646	Ewing tumor-associated antigen 1	protein-coding	142.5	166.0	118.0	2394.5	259.5	112.0	201.0	131.5
Merged-chr8-25080461-1	chr8	25080361	25080561	+	680.0	f0_balb.idr	intron (NM_031257, intron 2 of 11)	ORR1D1-int|LTR|ERVL-MaLR	21350.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	7.0	5.0	7.5	135.5	8.0	2.5	1.5	11.0
Merged-chr6-34863084-4	chr6	34862996	34863196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197986)	promoter-TSS (NM_197986)	-50.0	NM_197986	68487.0	Mm.248440	NM_197986	ENSMUSG00000057137	Tmem140	1110007F12Rik	transmembrane protein 140	protein-coding	60.0	92.5	43.5	921.5	174.0	65.0	66.5	66.5
Merged-chr11-78983560-1	chr11	78983460	78983660	+	582.0	f0_c57.idr	intron (NM_010708, intron 1 of 10)	intron (NM_010708, intron 1 of 10)	1364.0	NM_001159301	16859.0	Mm.341434	NM_010708	ENSMUSG00000001123	Lgals9	AA407335|AI194909|AI265545|LGALS35|Lgals5|gal-9|galectin-9	lectin, galactose binding, soluble 9	protein-coding	4.0	9.0	2.0	8.5	18.5	5.0	9.5	4.5
Merged-chr2-103495811-2	chr2	103495705	103495905	+	593.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-10652.0	NM_009804	12359.0	Mm.4215	NM_009804	ENSMUSG00000027187	Cat	2210418N07|Cas-1|Cas1|Cs-1	catalase	protein-coding	2.0	9.0	1.5	107.0	27.5	5.0	14.5	8.0
Merged-chr1-125560949-4	chr1	125560845	125561045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028787)	promoter-TSS (NM_028787)	-57.0	NM_028787	74150.0	Mm.28654	NM_028787	ENSMUSG00000026342	Slc35f5	1300003P13Rik|AI646727	solute carrier family 35, member F5	protein-coding	219.0	308.0	216.5	3179.0	539.0	218.5	314.5	249.5
Merged-chr18-42260110-2	chr18	42260014	42260214	+	685.583374	f0_balb.idr|f1_c57bl6.idr	intron (NM_134137, intron 1 of 31)	intron (NM_134137, intron 1 of 31)	1957.0	NM_134137	107045.0	Mm.312170	NM_134137	ENSMUSG00000024493	Lars	2310045K21Rik|3110009L02Rik|AW536573|mKIAA1352	leucyl-tRNA synthetase	protein-coding	8.0	12.5	14.0	99.5	4.5	1.0	4.5	1.5
Merged-chr19-11111758-2	chr19	11111658	11111858	+	750.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_027058, intron 3 of 6)	LTR87|LTR|ERVL?	19120.0	NM_027058	69369.0	Mm.391200	NM_027058	ENSMUSG00000024729	1700017D01Rik	-	RIKEN cDNA 1700017D01 gene	protein-coding	3.5	9.0	3.5	93.0	15.5	8.5	6.0	13.5
Merged-chr10-117829150-2	chr10	117829050	117829250	+	947.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	intron (NM_024457, intron 1 of 7)	16824.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	3.0	8.5	5.0	56.0	9.0	5.5	6.5	7.0
Merged-chr6-49367742-4	chr6	49367635	49367835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172216)	promoter-TSS (NM_001172216)	-4.0	NM_001172216	231946.0	Mm.35199	NM_172727	ENSMUSG00000047115	Fam221a	D330028D13Rik	family with sequence similarity 221, member A	protein-coding	85.5	114.5	84.0	1458.0	258.5	100.5	109.5	94.0
Merged-chr7-4445664-4	chr7	4445574	4445774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290409)	promoter-TSS (NM_001290409)	-17.0	NM_001290411	108841.0	Mm.413106	NM_175372	ENSMUSG00000008435	Rdh13	8430425D21Rik	retinol dehydrogenase 13 (all-trans and 9-cis)	protein-coding	58.0	78.0	56.5	881.5	136.5	51.0	62.5	64.0
Merged-chr8-71404351-2	chr8	71404272	71404472	+	796.166626	f1_balb.idr|f1_c57bl6.idr	exon (NM_026636, exon 9 of 9)	exon (NM_026636, exon 9 of 9)	-1640.0	NM_001310502	234396.0	Mm.216549	NM_172756	ENSMUSG00000046295	Ankle1	8430438L13Rik|Ankrd41|C430003I23|Lem3	ankyrin repeat and LEM domain containing 1	protein-coding	1.5	5.0	1.5	42.0	18.5	9.5	6.0	11.0
Merged-chr8-115420612-2	chr8	115420523	115420723	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	286271.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	7.5	24.0	8.5	127.5	38.5	16.5	18.5	13.5
Merged-chr7-128392073-3	chr7	128391976	128392176	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026418, intron 3 of 4)	intron (NM_026418, intron 3 of 4)	26096.0	NM_026418	67865.0	Mm.18635	NM_026418	ENSMUSG00000030844	Rgs10	2310010N19Rik	regulator of G-protein signalling 10	protein-coding	29.0	27.0	16.0	423.0	61.0	17.0	20.5	31.0
Merged-chr17-63501337-3	chr17	63501238	63501438	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015794)	promoter-TSS (NM_015794)	-758.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	5.5	9.5	9.0	160.0	5.5	3.0	2.5	5.5
Merged-chr14-54464842-4	chr14	54464748	54464948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022993, intron 1 of 6)	intron (NM_022993, intron 1 of 6)	701.0	NM_022993	65107.0	Mm.472719	NM_022993	ENSMUSG00000022175	Lrp10	Lrp9	low-density lipoprotein receptor-related protein 10	protein-coding	35.0	86.0	28.5	312.5	123.5	50.5	26.0	27.0
Merged-chr10-88622295-4	chr10	88622196	88622396	+	958.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17144.0	NM_175418	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	17.5	11.0	25.0	214.5	30.0	18.5	14.5	26.5
Merged-chr2-44274722-4	chr2	44274640	44274840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 12 of 14)	intron (NM_001301831, intron 12 of 14)	-209416.0	NR_040622	320872.0	Mm.445023	NR_040622	ENSMUSG00000085089	Arhgap15os	A430092G05Rik	Rho GTPase activating protein 15, opposite strand	ncRNA	100.0	100.5	155.0	1932.5	254.0	67.5	131.5	77.5
Merged-chr5-142440693-4	chr5	142440591	142440791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 2 of 8)	intron (NM_199068, intron 2 of 8)	-23240.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	89.5	159.0	93.5	1421.5	198.0	77.5	95.0	73.5
Merged-chr4-117127208-4	chr4	117127163	117127363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175030, intron 2 of 3)	intron (NM_175030, intron 2 of 3)	450.0	NM_175030	242646.0	Mm.358914	NM_175030	ENSMUSG00000047671	Tctex1d4	4833401D15Rik	Tctex1 domain containing 4	protein-coding	25.0	37.0	22.5	440.0	64.0	16.0	33.5	33.5
Merged-chr1-86503575-4	chr1	86503437	86503637	+	908.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23020.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	9.0	15.5	7.0	110.5	13.0	10.0	7.5	14.0
Merged-chr16-75962198-4	chr16	75962101	75962301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38583.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	21.5	37.0	39.5	343.0	58.0	18.0	39.0	28.5
Merged-chr18-3009206-1	chr18	3009106	3009306	+	809.799988	f1_balb.idr	Intergenic	RLTR30|LTR|ERV1	114206.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	5.0	5.5	12.5	91.0	0.5	3.0	2.5	0.0
Merged-chr12-32208694-4	chr12	32208599	32208799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146201)	promoter-TSS (NM_001146201)	-50.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	86.5	113.0	73.5	1379.5	178.5	81.0	99.0	135.0
Merged-chr16-70326789-4	chr16	70326684	70326884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	L1MD2|LINE|L1	12835.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	25.5	37.5	29.0	741.5	138.0	34.5	60.0	37.0
Merged-chr15-64220403-2	chr15	64220303	64220503	+	795.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	92270.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	6.0	14.5	6.0	8.0	24.0	9.0	2.0	0.5
Merged-chr12-26415282-4	chr12	26415197	26415397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081977)	promoter-TSS (NM_001081977)	-35.0	NM_080563	108089.0	Mm.214932	NM_080563	ENSMUSG00000020642	Rnf144a	Rnf144|UIP4|Ubce7ip4	ring finger protein 144A	protein-coding	54.0	70.0	36.0	828.5	92.0	32.5	41.5	22.5
Merged-chr5-140765641-4	chr5	140765540	140765740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 2 of 3)	intron (NM_010302, intron 2 of 3)	41513.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	54.5	42.0	43.5	693.0	64.0	21.0	16.5	29.0
Merged-chr5-137766503-2	chr5	137766403	137766603	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_029805, intron 5 of 5)	B3A|SINE|B2	-12401.0	NM_001356989	69871.0	Mm.276058	NM_027242	ENSMUSG00000029725	Ppp1r35	2010007H12Rik|2010011D20Rik|AL024004	protein phosphatase 1, regulatory subunit 35	protein-coding	6.5	12.0	4.5	19.0	15.0	5.0	6.0	3.5
Merged-chr1-33503042-4	chr1	33502961	33503161	+	979.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008922, intron 10 of 13)	intron (NM_008922, intron 10 of 13)	166733.0	NM_008922	19076.0	Mm.27705	NM_008922	ENSMUSG00000026134	Prim2	AI323589	DNA primase, p58 subunit	protein-coding	29.0	37.5	27.5	407.5	71.0	16.5	23.5	22.0
Merged-chr13-113590974-3	chr13	113590866	113591066	+	940.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27598.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	8.0	16.5	14.0	171.5	38.0	6.0	16.0	12.0
Merged-chr2-80038671-4	chr2	80038563	80038763	+	776.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355142, exon 1 of 15)	5' UTR (NM_001355142, exon 1 of 15)	239.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	9.0	5.0	8.5	193.5	25.0	8.5	8.5	13.0
Merged-chr8-94785889-4	chr8	94785769	94785969	+	899.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13689.0	NM_009142	20312.0	Mm.103711	NM_009142	ENSMUSG00000031778	Cx3cl1	AB030188|ABCD-3|AI848747|CX3C|Cxc3|D8Bwg0439e|Scyd1	chemokine (C-X3-C motif) ligand 1	protein-coding	15.0	25.0	3.5	93.5	45.0	16.5	10.0	9.0
Merged-chr5-92398378-4	chr5	92398274	92398474	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181728, intron 2 of 7)	intron (NM_181728, intron 2 of 7)	10240.0	NM_001310665	109979.0	Mm.263514	NM_181728	ENSMUSG00000034842	Art3	4930569O04Rik|ARTC3	ADP-ribosyltransferase 3	protein-coding	13.0	28.5	19.0	235.5	56.0	15.5	22.5	11.5
Merged-chr12-21369685-2	chr12	21369602	21369802	+	868.0	f0_c57.idr|f1_balb.idr	intron (NM_001291871, intron 1 of 18)	intron (NM_001291871, intron 1 of 18)	3930.0	NR_102380	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	8.5	6.0	0.0	64.5	25.0	6.5	11.0	10.5
Merged-chr9-105780189-2	chr9	105780083	105780283	+	914.083374	f0_balb.idr|f1_balb.idr	intron (NM_172927, intron 6 of 7)	LTR16A1|LTR|ERVL	29465.0	NM_172927	245026.0	Mm.482507	NM_172927	ENSMUSG00000043719	Col6a6	E330019B14|E330026B02Rik	collagen, type VI, alpha 6	protein-coding	12.0	29.5	18.0	170.5	0.0	0.0	1.0	0.5
Merged-chr2-159646125-4	chr2	159646029	159646229	+	921.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-301212.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	18.5	10.5	7.0	203.0	35.5	7.0	15.0	11.0
Merged-chr7-90216708-4	chr7	90216601	90216801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48731.0	NM_029256	75338.0	Mm.487222	NM_029256	ENSMUSG00000030617	Ccdc83	4930549K11Rik|4930554C01Rik|4932423M01Rik	coiled-coil domain containing 83	protein-coding	45.0	39.5	29.0	506.5	79.5	22.0	29.0	44.0
Merged-chr19-41896211-4	chr19	41896107	41896307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199447)	promoter-TSS (NM_199447)	-54.0	NM_199447	107094.0	Mm.276044	NM_199447	ENSMUSG00000035049	Rrp12	AA408556|AA536972|mKIAA0690	ribosomal RNA processing 12 homolog (S. cerevisiae)	protein-coding	70.5	76.0	32.0	682.5	155.5	40.5	45.0	50.0
Merged-chr13-29959213-4	chr13	29959111	29959311	+	819.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010093, intron 1 of 6)	MTC|LTR|ERVL-MaLR	25180.0	NM_001289920	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	14.5	6.5	8.5	103.5	27.0	4.0	13.5	10.5
Merged-chr8-86746145-4	chr8	86746053	86746253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009172)	promoter-TSS (NM_009172)	-147.0	NM_009172	20437.0	Mm.324553	NM_009172	ENSMUSG00000036840	Siah1a	AA982064|AI853500|Sinh1a	siah E3 ubiquitin protein ligase 1A	protein-coding	77.5	97.5	58.0	954.5	160.0	79.0	82.5	76.0
Merged-chr1-172334870-4	chr1	172334759	172334959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5537.0	NM_001360808	16524.0	Mm.261168	NM_008429	ENSMUSG00000038026	Kcnj9	1700085N21Rik|Girk3|Kir3.3|mbGIRK3	potassium inwardly-rectifying channel, subfamily J, member 9	protein-coding	135.5	276.0	220.0	2544.0	97.0	28.5	40.5	33.0
Merged-chr3-51373191-3	chr3	51373109	51373309	+	794.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	23338.0	NR_028121	67749.0	Mm.273339	NM_026358	ENSMUSG00000037161	Mgarp	4930583H14Rik|AI195347|CESP-1|HUMMR|Osap|Qsap	mitochondria localized glutamic acid rich protein	protein-coding	7.0	6.5	7.5	84.0	19.0	3.5	5.0	4.5
Merged-chr6-29917010-4	chr6	29916912	29917112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104576)	promoter-TSS (NR_104576)	-1.0	NM_177204	320609.0	Mm.56097	NM_177204	ENSMUSG00000039629	Strip2	D330017J20Rik|Fam40b	striatin interacting protein 2	protein-coding	36.5	63.0	33.5	460.5	89.0	31.0	45.0	38.5
Merged-chr9-96636661-4	chr9	96636519	96636719	+	958.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5116.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	19.0	16.0	20.0	153.5	31.5	17.5	14.5	21.5
Merged-chr1-72942554-1	chr1	72942454	72942654	+	910.5	f0_balb.idr	Intergenic	RMER19B|LTR|ERVK	-67689.0	NM_010518	16011.0	Mm.405761	NM_010518	ENSMUSG00000026185	Igfbp5	AI256729|AW208790|IGFBP-5|IGFBP-5P	insulin-like growth factor binding protein 5	protein-coding	12.5	11.5	6.0	142.0	0.0	0.5	4.5	0.0
Merged-chr11-95869680-4	chr11	95869547	95869747	+	904.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008081, intron 7 of 10)	intron (NM_008081, intron 7 of 10)	10830.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	13.5	30.5	11.5	81.5	62.0	24.0	17.5	11.5
Merged-chr6-16221411-3	chr6	16221309	16221509	+	667.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MCa|LINE|L1	500748.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	7.5	7.0	8.0	74.5	18.5	1.5	2.0	7.5
Merged-chr19-45221310-3	chr19	45221211	45221411	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13925.0	NM_010691	16814.0	Mm.116815	NM_010691	ENSMUSG00000025216	Lbx1	Lbx1h	ladybird homeobox 1	protein-coding	9.0	21.0	3.5	112.5	33.0	6.0	9.0	12.0
Merged-chr4-46375156-4	chr4	46375056	46375256	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14267.0	NM_029086	74753.0	Mm.45973	NM_029086	ENSMUSG00000028331	Trmo	5830415F09Rik|AV014846|Nap1	tRNA methyltransferase O	protein-coding	19.0	19.0	23.0	263.0	28.0	15.5	11.0	10.5
Merged-chr13-37489466-3	chr13	37489386	37489586	+	967.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	144141.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	1.5	3.0	1.0	30.5	125.5	16.0	52.5	23.5
Merged-chr10-81570970-4	chr10	81570871	81571071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4316.0	NM_019725	21886.0	Mm.38608	NM_019725	ENSMUSG00000034771	Tle2	Grg2|mKIAA4188	transducin-like enhancer of split 2	protein-coding	32.0	58.0	56.5	424.0	90.5	46.5	25.0	40.0
Merged-chr12-79018128-4	chr12	79018033	79018233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10856.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	36.5	76.0	30.5	648.0	78.5	37.0	49.0	36.0
Merged-chr10-40093693-4	chr10	40093602	40093802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	48552.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	79.0	142.5	65.5	1154.0	185.5	105.5	68.0	82.0
Merged-chr4-19872999-4	chr4	19872897	19873097	+	993.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49569.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	30.5	53.5	51.5	938.5	57.5	21.5	36.0	20.5
Merged-chr2-11299529-4	chr2	11299389	11299589	+	939.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 17 of 17)	intron (NM_008859, intron 17 of 17)	-40000.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	18.0	17.0	15.0	208.5	27.0	10.0	24.5	14.5
Merged-chr4-142015253-5	chr4	142015128	142015328	+	984.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2670.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	11.0	13.0	11.0	142.5	21.5	13.0	10.5	10.0
Merged-chr7-136377957-4	chr7	136377865	136378065	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	UCON26|Unknown|Unknown	-28550.0	NR_040459	330664.0	Mm.127762	NR_040459	ENSMUSG00000109633	C230079O03Rik	C230079O03	RIKEN cDNA C230079O03 gene	ncRNA	11.0	12.0	10.5	181.0	57.0	24.0	25.5	15.0
Merged-chr1-52847795-4	chr1	52847708	52847908	+	913.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146108, intron 1 of 13)	MTC|LTR|ERVL-MaLR	2770.0	NM_146108	227095.0	Mm.222063	NM_146108	ENSMUSG00000041426	Hibch	2610509I15Rik|HIBYL-COA-H	3-hydroxyisobutyryl-Coenzyme A hydrolase	protein-coding	7.0	9.0	13.0	260.0	37.0	11.5	7.5	8.5
Merged-chr4-123139610-4	chr4	123139516	123139716	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019489, intron 1 of 9)	intron (NM_019489, intron 1 of 9)	325.0	NM_019489	56031.0	Mm.126873	NM_019489	ENSMUSG00000028651	Ppie	2010010D16Rik|Cyp33	peptidylprolyl isomerase E (cyclophilin E)	protein-coding	19.0	53.5	16.0	234.5	74.5	33.0	33.0	6.0
Merged-chr15-66279497-4	chr15	66279407	66279607	+	894.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	6717.0	NM_152923	110862.0	Mm.255585	NM_152923	ENSMUSG00000056258	Kcnq3	-	potassium voltage-gated channel, subfamily Q, member 3	protein-coding	21.5	27.5	28.0	386.0	20.5	10.0	19.0	5.0
Merged-chr13-9171261-3	chr13	9171161	9171361	+	885.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311117, exon 17 of 17)	3' UTR (NM_001311117, exon 17 of 17)	77380.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	4.5	7.0	4.5	90.5	29.0	1.5	2.0	4.5
Merged-chr14-100937622-4	chr14	100937507	100937707	+	869.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	262462.0	NM_029680	76627.0	Mm.31415	NM_029680	ENSMUSG00000042888	Prr30	1700110M21Rik	proline rich 30	protein-coding	18.5	15.5	17.0	191.5	18.0	10.0	11.0	21.0
Merged-chr8-104251319-3	chr8	104251228	104251428	+	993.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037841, intron 1 of 2)	intron (NM_001037841, intron 1 of 2)	467.0	NM_001286383	75458.0	Mm.269219	NM_029295	ENSMUSG00000054400	Cklf	1700001C14Rik|1810018M11Rik|A730028G07Rik|C32|CKLF1|CKLF3|CKLF4|CKLF5|Cklf2|Cklf6|HSPC224|UCK-1	chemokine-like factor	protein-coding	15.5	17.0	33.5	303.5	28.0	10.5	18.0	9.5
Merged-chr11-115712590-4	chr11	115712518	115712718	+	996.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4021.0	NM_008163	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	12.5	17.0	16.5	143.5	21.0	12.0	14.5	19.0
Merged-chr6-125046861-4	chr6	125046758	125046958	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133345, intron 2 of 7)	intron (NM_133345, intron 2 of 7)	2995.0	NR_130997	78202.0	Mm.445941	NR_130997	ENSMUSG00000108034	4930557K07Rik	Gm43989	RIKEN cDNA 4930557K07 gene	ncRNA	11.5	15.5	6.5	157.0	43.0	8.0	16.0	21.5
Merged-chr4-32288636-5	chr4	32288581	32288781	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-128754.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	16.0	32.0	10.0	209.5	23.0	10.5	15.5	7.5
Merged-chr4-129624454-4	chr4	129624334	129624534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025455)	promoter-TSS (NM_025455)	-526.0	NM_025455	66264.0	Mm.383215	NM_025455	ENSMUSG00000028795	Ccdc28b	1110002E08Rik|1810010N17Rik	coiled coil domain containing 28B	protein-coding	100.0	145.0	74.5	1077.5	255.5	67.0	163.5	89.0
Merged-chr13-30696552-3	chr13	30696429	30696629	+	881.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 4 of 7)	intron (NM_134068, intron 4 of 7)	36470.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	11.0	11.5	4.5	76.0	32.0	3.5	5.5	7.5
Merged-chr11-67545345-3	chr11	67545219	67545419	+	918.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	12321.0	NM_008088	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	1.0	9.0	2.0	20.5	28.5	9.0	12.0	4.5
Merged-chr10-94345732-3	chr10	94345620	94345820	+	861.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	33771.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	0.0	1.5	1.0	7.0	46.0	18.5	13.0	18.5
Merged-chr17-47923717-4	chr17	47923622	47923822	+	970.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028767, intron 1 of 16)	CpG	910.0	NM_028767	74123.0	Mm.240062	NM_028767	ENSMUSG00000023991	Foxp4	1200010K03Rik|2310007G05Rik|mFKHLA	forkhead box P4	protein-coding	31.0	107.0	26.5	116.5	105.0	31.5	17.0	10.5
Merged-chr1-171329277-7	chr1	171329206	171329406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357552)	promoter-TSS (NM_001357552)	161.0	NM_011615	21945.0	Mm.270139	NM_011615	ENSMUSG00000013973	Dedd	CASP8IP1|DEFT|Dedpro1|FLDED1|KE05	death effector domain-containing	protein-coding	30.0	45.0	56.0	440.5	102.5	45.5	48.5	61.0
Merged-chr12-86836878-4	chr12	86836770	86836970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47944.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	58.0	68.5	31.0	657.5	138.5	53.0	55.5	37.5
Merged-chr9-123965009-2	chr9	123964909	123965109	+	665.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009912, intron 1 of 1)	intron (NM_009912, intron 1 of 1)	3683.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	4.5	11.0	7.5	58.5	12.5	3.5	3.5	0.5
Merged-chr8-70696696-4	chr8	70696605	70696805	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1034.0	NM_010592	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	26.0	36.0	34.5	280.0	34.5	19.5	17.0	18.0
Merged-chr12-33168661-4	chr12	33168551	33168751	+	781.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028139, intron 2 of 3)	L1MB7|LINE|L1	20965.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	5.5	21.0	10.0	301.0	50.0	12.0	11.5	10.5
Merged-chr11-30781072-4	chr11	30780963	30781163	+	616.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134013, intron 1 of 46)	ID_B1|SINE|B4	9288.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	7.0	12.5	11.5	154.5	23.0	13.0	17.5	7.0
Merged-chr3-122169752-3	chr3	122169664	122169864	+	630.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007378, intron 44 of 49)	intron (NM_007378, intron 44 of 49)	-75793.0	NM_008129	14630.0	Mm.292676	NM_008129	ENSMUSG00000028124	Gclm	AI649393|Gcmc|Glclr	glutamate-cysteine ligase, modifier subunit	protein-coding	7.0	9.0	6.0	111.0	15.0	2.5	11.5	8.5
Merged-chr6-51510276-4	chr6	51510135	51510335	+	839.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13668.0	NM_001361582	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	15.0	11.5	5.5	176.0	13.0	10.0	12.0	14.5
Merged-chr5-115011047-4	chr5	115010953	115011153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029012)	promoter-TSS (NM_029012)	-471.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	106.5	123.0	67.0	1573.5	322.5	111.0	105.5	109.0
Merged-chr1-152810003-4	chr1	152809896	152810096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 2 of 15)	intron (NM_010877, intron 2 of 15)	9843.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	31.0	48.5	27.0	743.5	74.0	31.0	39.0	46.5
Merged-chr6-86438614-5	chr6	86438496	86438696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243741)	promoter-TSS (NM_001243741)	-50.0	NM_001243742	232196.0	Mm.404040	NM_146170	ENSMUSG00000046679	C87436	-	expressed sequence C87436	protein-coding	22.5	56.0	25.0	411.5	102.5	26.0	36.0	33.5
Merged-chr15-81155465-3	chr15	81155366	81155566	+	744.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 1 of 13)	intron (NM_001082536, intron 1 of 13)	35291.0	NM_001082536	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	6.5	11.0	7.0	82.5	24.0	7.5	6.5	7.5
Merged-chr19-5693316-2	chr19	5693230	5693430	+	962.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_022012, intron 3 of 11)	intron (NM_022012, intron 3 of 11)	4199.0	NM_022012	26403.0	Mm.185026	NM_022012	ENSMUSG00000004054	Map3k11	2610017K16Rik|Mlk3|PTK1|SPRK	mitogen-activated protein kinase kinase kinase 11	protein-coding	3.5	2.0	3.0	28.0	18.0	7.0	5.5	12.5
Merged-chr14-10228196-4	chr14	10228123	10228323	+	928.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 5 of 9)	intron (NM_001360141, intron 5 of 9)	225235.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	10.0	17.5	16.5	312.0	35.5	14.0	26.5	19.0
Merged-chr17-74819861-4	chr17	74819908	74820108	+	905.9541630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	RMER19C|LTR|ERVK	102258.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	8.0	5.0	3.0	186.0	30.0	17.5	12.5	8.0
Merged-chr19-6046495-4	chr19	6046391	6046591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028769)	promoter-TSS (NM_028769)	-85.0	NM_028769	74126.0	Mm.149870	NM_028769	ENSMUSG00000024807	Syvn1	1200010C09Rik|AW211966|C85322|D530017H19Rik|Hrd1	synovial apoptosis inhibitor 1, synoviolin	protein-coding	101.0	170.5	92.5	1168.5	278.0	116.5	83.5	123.0
Merged-chr6-52012142-3	chr6	52012031	52012231	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018773, intron 1 of 12)	intron (NM_018773, intron 1 of 12)	418.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	17.0	35.0	21.0	362.0	65.0	26.5	25.0	23.0
Merged-chr6-26206222-4	chr6	26206103	26206303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	274777.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	83.5	95.5	80.0	2104.5	189.0	86.0	98.5	76.5
Merged-chr3-31106722-4	chr3	31106621	31106821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039090, intron 2 of 6)	intron (NM_001039090, intron 2 of 6)	11663.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	72.5	90.0	47.0	879.5	144.5	57.5	50.5	83.0
Merged-chr2-124626626-4	chr2	124626515	124626715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	16319.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	47.0	66.5	46.5	887.0	158.0	33.0	42.0	45.0
Merged-chr2-164460909-4	chr2	164460841	164461041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025575)	promoter-TSS (NM_025575)	-30.0	NM_025575	66460.0	Mm.44218	NM_025575	ENSMUSG00000045503	Sys1	2610042O14Rik|AI266964|C87389	SYS1 Golgi-localized integral membrane protein homolog (S. cerevisiae)	protein-coding	92.0	163.0	80.0	1303.5	282.0	81.0	113.5	111.5
Merged-chr4-155162901-4	chr4	155162769	155162969	+	976.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	59666.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	45.0	57.5	44.5	299.5	68.5	29.0	19.0	12.0
Merged-chr1-131867916-3	chr1	131867796	131867996	+	932.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144875, intron 2 of 5)	intron (NM_144875, intron 2 of 5)	619.0	NM_144875	226422.0	Mm.34027	NM_144875	ENSMUSG00000026433	Rab29	Rab7l1	RAB29, member RAS oncogene family	protein-coding	7.5	14.0	16.0	118.0	16.5	9.0	12.0	11.5
Merged-chr17-48167273-4	chr17	48167167	48167367	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113556)	promoter-TSS (NM_001113556)	-10.0	NM_178796	328830.0	Mm.470939	NM_178796	ENSMUSG00000043939	A530064D06Rik	Trem4|pdctrem	RIKEN cDNA A530064D06 gene	protein-coding	15.0	15.5	19.0	200.0	34.0	11.5	18.0	15.0
Merged-chr15-89180121-3	chr15	89179988	89180188	+	883.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	700.0	NM_001284506	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	3.0	6.5	5.0	68.0	17.5	5.5	10.0	7.0
Merged-chr6-13665870-4	chr6	13665787	13665987	+	762.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175312, intron 1 of 4)	intron (NM_175312, intron 1 of 4)	12079.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	9.0	13.5	9.5	163.5	17.0	3.0	8.5	14.0
Merged-chr15-66272509-3	chr15	66272412	66272612	+	982.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	13712.0	NM_152923	110862.0	Mm.255585	NM_152923	ENSMUSG00000056258	Kcnq3	-	potassium voltage-gated channel, subfamily Q, member 3	protein-coding	14.5	9.0	17.0	311.0	6.0	7.0	9.5	18.5
Merged-chr6-34754707-4	chr6	34754638	34754838	+	787.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145575, intron 4 of 11)	intron (NM_145575, intron 4 of 11)	-25694.0	NM_001289658	76223.0	Mm.150047	NM_178630	ENSMUSG00000038836	Agbl3	2900053G10Rik|4930431N21Rik|6530406M24Rik|CCP3	ATP/GTP binding protein-like 3	protein-coding	7.5	10.5	11.5	111.5	28.5	10.5	11.0	13.5
Merged-chr5-4935311-4	chr5	4935194	4935394	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 11 of 14)	intron (NM_011074, intron 11 of 14)	-177078.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	12.5	35.0	39.0	685.0	39.5	15.5	26.5	32.0
Merged-chr11-21570226-3	chr11	21570132	21570332	+	624.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316675, intron 1 of 8)	intron (NM_001316675, intron 1 of 8)	1702.0	NM_008618	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	4.0	3.5	8.5	73.0	8.0	9.0	5.5	4.5
Merged-chr9-100454372-4	chr9	100454268	100454468	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32105.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	37.5	68.5	27.0	344.0	129.0	30.0	32.0	22.0
Merged-chr13-41263798-4	chr13	41263710	41263910	+	975.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135577, intron 1 of 1)	intron (NM_001135577, intron 1 of 1)	13966.0	NM_001135577	108934.0	Mm.38578	NM_001135577	ENSMUSG00000091264	Smim13	2900036K02Rik	small integral membrane protein 13	protein-coding	13.0	9.0	23.5	388.5	39.5	20.5	14.0	21.5
Merged-chr1-135266084-4	chr1	135265992	135266192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 7 of 9)	intron (NM_001159624, intron 7 of 9)	-7620.0	NM_007921	13710.0	Mm.441439	NM_007921	ENSMUSG00000003051	Elf3	ESE-1|ESX|jen	E74-like factor 3	protein-coding	78.0	143.5	97.5	1223.5	144.0	70.5	75.0	56.5
Merged-chr18-60774528-4	chr18	60774447	60774647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020600)	promoter-TSS (NM_020600)	-49.0	NM_020600	20044.0	Mm.43778	NM_020600	ENSMUSG00000024608	Rps14	2600014J02Rik|AL023078	ribosomal protein S14	protein-coding	103.0	176.5	105.0	1280.5	190.0	88.5	101.0	84.5
Merged-chr14-47004120-7	chr14	47004000	47004200	+	953.152405	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163433, intron 1 of 11)	intron (NM_001163433, intron 1 of 11)	2760.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	8.0	21.5	12.0	132.5	23.0	16.0	13.0	18.0
Merged-chr14-70519752-2	chr14	70519652	70519852	+	744.125	f1_balb.idr|f1_c57bl6.idr	intron (NR_033241, intron 1 of 19)	intron (NR_033241, intron 1 of 19)	508.0	NM_009755	12153.0	Mm.27757	NM_009755	ENSMUSG00000022098	Bmp1	Pcp|Tld	bone morphogenetic protein 1	protein-coding	5.0	10.0	7.0	46.0	6.0	5.5	2.0	4.5
Merged-chr7-84688115-4	chr7	84687994	84688194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360577, intron 1 of 7)	intron (NM_001360577, intron 1 of 7)	-1546.0	NR_038175	72495.0	Mm.382914	NR_038175	ENSMUSG00000085236	2610206C17Rik	-	RIKEN cDNA 2610206C17 gene	ncRNA	19.5	25.5	18.0	312.5	61.0	25.0	25.0	30.5
Merged-chr11-101984250-4	chr11	101984170	101984370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028207, intron 1 of 2)	intron (NM_028207, intron 1 of 2)	521.0	NM_028207	72349.0	Mm.196295	NM_028207	ENSMUSG00000003518	Dusp3	2210015O03Rik|5031436O03Rik|T-DSP11|VHR	dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related)	protein-coding	143.5	229.5	104.0	1325.0	377.5	134.0	143.0	126.0
Merged-chr17-80086650-2	chr17	80086550	80086750	+	853.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24382.0	NM_144802	72692.0	Mm.64579	NM_144802	ENSMUSG00000024095	Hnrnpll	2510028H02Rik|2810036L13Rik|AI256697|AI852082|Hnrpll	heterogeneous nuclear ribonucleoprotein L-like	protein-coding	4.5	7.0	6.5	59.5	4.5	2.5	3.0	4.0
Merged-chr11-4594304-1	chr11	4594204	4594404	+	816.0	f0_balb.idr	intron (NM_028860, intron 1 of 17)	CpG	511.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	15.0	15.0	26.0	132.0	47.5	17.5	20.0	31.5
Merged-chr12-91660837-4	chr12	91660733	91660933	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	-70346.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	12.5	19.5	25.0	257.0	37.5	13.5	20.0	8.5
Merged-chr5-4595205-4	chr5	4595099	4595299	+	721.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163017.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	23.5	12.0	33.0	434.0	16.5	4.0	13.0	12.5
Merged-chr18-36365215-4	chr18	36365123	36365323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081365, intron 1 of 2)	intron (NM_001081365, intron 1 of 2)	16599.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	38.0	45.0	70.5	927.0	71.0	27.0	54.0	42.5
Merged-chr2-157071760-3	chr2	157071669	157071869	+	986.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	7496.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	12.0	34.0	20.0	208.5	19.0	6.0	4.0	2.5
Merged-chr10-26762215-2	chr10	26762115	26762315	+	764.833313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10297.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	10.5	17.0	7.5	81.5	15.0	3.5	2.5	2.5
Merged-chr11-97850754-3	chr11	97850663	97850863	+	630.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9983.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	5.0	5.0	5.5	83.5	5.0	3.0	4.0	4.5
Merged-chr7-6172251-4	chr7	6172178	6172378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146024)	promoter-TSS (NM_001146024)	-235.0	NM_028316	72667.0	Mm.274089	NM_028316	ENSMUSG00000044876	Zfp444	2810031J10Rik|6230401O10Rik|mFLJ00134	zinc finger protein 444	protein-coding	308.0	447.0	337.0	4572.5	686.0	281.0	311.0	302.0
Merged-chr2-154902296-3	chr2	154902202	154902402	+	789.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9396.0	NM_026030	67204.0	Mm.377134	NM_026030	ENSMUSG00000074656	Eif2s2	2810026E11Rik|38kDa|AA408636|AA571381|AA986487|AW822225|D2Ertd303e|EIF2|EIF2B	eukaryotic translation initiation factor 2, subunit 2 (beta)	protein-coding	14.5	13.0	4.5	95.5	14.0	3.5	4.5	1.0
Merged-chr4-154160223-2	chr4	154160123	154160323	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_026388, exon 2 of 4)	exon (NM_026388, exon 2 of 4)	461.0	NR_151647	67808.0	Mm.288737	NM_026388	ENSMUSG00000029030	Tprgl	1200015A19Rik|Svap30|Tprg1l|mover	transformation related protein 63 regulated like	protein-coding	9.5	7.0	15.0	142.0	24.5	7.0	5.5	16.0
Merged-chr11-109365510-4	chr11	109365418	109365618	+	704.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359034, intron 1 of 2)	intron (NM_001359034, intron 1 of 2)	-1864.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	5.0	11.5	7.0	78.5	23.5	14.0	8.5	3.5
Merged-chr1-120451725-2	chr1	120451677	120451877	+	760.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	53247.0	NM_010766	17167.0	Mm.1856	NM_010766	ENSMUSG00000026390	Marco	AI323439|Ly112|Scara2	macrophage receptor with collagenous structure	protein-coding	2.0	0.0	6.5	25.5	17.0	12.5	13.5	10.0
Merged-chr1-156040846-4	chr1	156040755	156040955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358627)	promoter-TSS (NM_001358627)	-6.0	NM_001160181	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	107.0	123.0	74.0	1572.5	255.5	99.5	81.5	112.0
Merged-chr3-83845368-4	chr3	83845262	83845462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3754.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	164.5	264.0	147.0	2212.0	377.0	151.5	132.5	157.5
Merged-chr17-17600176-4	chr17	17600068	17600268	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	intron (NM_172827, intron 1 of 17)	24321.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	21.0	34.5	15.5	375.0	76.0	13.0	26.0	21.5
Merged-chr5-20932821-4	chr5	20932711	20932911	+	990.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	PB1|SINE|Alu	-18178.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	27.5	47.5	28.5	627.0	65.0	29.0	18.0	25.5
Merged-chr6-37723554-4	chr6	37723467	37723667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147244.0	NM_001272064	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	19.0	23.0	6.5	142.5	246.5	92.0	89.5	114.0
Merged-chr12-111810010-4	chr12	111809910	111810110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028875, intron 3 of 7)	intron (NM_028875, intron 3 of 7)	3869.0	NM_028875	74335.0	Mm.19082	NM_028875	ENSMUSG00000021287	Xrcc3	-	X-ray repair complementing defective repair in Chinese hamster cells 3	protein-coding	72.5	104.0	47.0	1034.0	137.0	56.5	78.0	58.5
Merged-chr10-77978572-4	chr10	77978498	77978698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026431)	promoter-TSS (NM_026431)	-52.0	NM_026431	67884.0	Mm.297512	NM_026431	ENSMUSG00000020284	1810043G02Rik	AV026620|D10Jhu13e	RIKEN cDNA 1810043G02 gene	protein-coding	245.5	316.0	222.0	3198.0	465.0	209.5	225.5	197.0
Merged-chr13-9494298-3	chr13	9494207	9494407	+	626.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 2 of 36)	intron (NM_001081426, intron 2 of 36)	217782.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	10.5	6.0	11.0	158.5	31.0	1.5	3.0	8.5
Merged-chr19-34602102-4	chr19	34601999	34602199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101605)	promoter-TSS (NM_001101605)	-131.0	NM_001101605	667373.0	Mm.371956	NM_001101605	ENSMUSG00000079339	Ifit1bl1	Gm14446|Ifit1c	interferon induced protein with tetratricpeptide repeats 1B like 1	protein-coding	23.0	57.0	26.5	366.0	227.0	57.5	76.0	62.0
Merged-chr2-167939707-4	chr2	167939628	167939828	+	996.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	7401.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	49.0	127.0	88.0	505.5	105.5	50.0	70.0	15.5
Merged-chr11-43715502-4	chr11	43715419	43715619	+	945.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164231, intron 2 of 3)	intron (NM_001164231, intron 2 of 3)	32454.0	NM_133795	66827.0	Mm.271974	NM_133795	ENSMUSG00000041278	Ttc1	4833412C19Rik|C79328|TPR1	tetratricopeptide repeat domain 1	protein-coding	15.0	23.0	25.0	153.5	33.5	10.0	19.0	17.0
Merged-chr6-56909098-4	chr6	56909023	56909223	+	914.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360963, intron 1 of 9)	intron (NM_001360963, intron 1 of 9)	-7237.0	NM_001252374	107569.0	Mm.158936	NM_026004	ENSMUSG00000029780	Nt5c3	1600024P05Rik|2610206B05Rik|3110004A18Rik|AI842776|Nt5c3a|Nt5y|P5'N-1|P5N-1|PN-1|PN-I|PSN1|UMPH|Umph-1|Umph1|cN-III|lupin|p36	5'-nucleotidase, cytosolic III	protein-coding	7.5	23.0	12.0	217.0	41.0	13.0	16.0	15.5
Merged-chr2-152808737-4	chr2	152808674	152808874	+	786.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	RLTR31D_MM|LTR|ERVK	19715.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	8.0	14.5	7.5	154.5	34.5	9.0	10.0	16.5
Merged-chr6-15730408-3	chr6	15730327	15730527	+	694.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 2 of 4)	intron (NM_175088, intron 2 of 4)	9766.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	2.5	8.0	3.0	85.0	12.5	5.0	6.0	7.0
Merged-chr2-20961486-4	chr2	20961385	20961585	+	834.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 1 of 24)	intron (NM_001128084, intron 1 of 24)	6236.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	18.0	17.5	6.0	160.5	26.0	12.0	10.5	2.5
Merged-chr3-136742898-4	chr3	136742796	136742996	+	990.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	72830.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	25.5	28.5	15.5	254.5	56.5	18.5	19.0	20.0
Merged-chr2-170311166-4	chr2	170311074	170311274	+	951.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45187.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	20.5	23.5	22.0	406.0	29.0	10.0	15.0	24.0
Merged-chr7-135631969-4	chr7	135631881	135632081	+	841.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316679, intron 1 of 19)	intron (NM_001316679, intron 1 of 19)	-19918.0	NM_001316681	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	5.5	16.0	2.5	143.0	25.0	4.5	5.5	21.0
Merged-chr2-27565543-3	chr2	27565445	27565645	+	895.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50398.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	13.0	19.5	10.5	107.0	10.5	9.0	5.5	6.0
Merged-chr11-60728409-4	chr11	60728313	60728513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_039559)	promoter-TSS (NR_039559)	15.0	NM_001009927	237781.0	Mm.339760	NM_001009927	ENSMUSG00000018599	Mief2	AI482195|Gm11|Smcr7	mitochondrial elongation factor 2	protein-coding	65.5	118.5	93.0	1027.5	212.0	102.0	77.5	65.0
Merged-chr9-118908423-3	chr9	118908325	118908525	+	850.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18111.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	5.5	7.0	6.5	76.5	20.0	6.0	11.0	13.5
Merged-chr7-141949683-4	chr7	141949575	141949775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276763)	promoter-TSS (NM_001276763)	-76.0	NM_001009930	75770.0	Mm.274868	NM_029426	ENSMUSG00000053046	Brsk2	4833424K13Rik|SAD-A|SADA	BR serine/threonine kinase 2	protein-coding	64.0	94.5	51.0	970.5	143.5	42.5	59.0	49.0
Merged-chr10-125386844-3	chr10	125386738	125386938	+	771.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57875.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	9.5	7.0	6.5	173.5	12.0	2.0	2.0	4.5
Merged-chr16-32599445-3	chr16	32599347	32599547	+	836.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9449.0	NM_011638	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	11.5	16.0	3.5	188.5	13.0	8.0	7.5	12.0
Merged-chr5-74277879-3	chr5	74277772	74277972	+	911.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	MLT1I|LTR|ERVL-MaLR	82546.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	4.5	11.0	8.5	143.0	12.5	4.0	7.0	1.5
Merged-chr13-103334558-3	chr13	103334452	103334652	+	869.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175171)	promoter-TSS (NM_175171)	-60.0	NM_175171	328329.0	Mm.202606	NM_175171	ENSMUSG00000034751	Mast4	4930420O11Rik|AI642422|mKIAA0303	microtubule associated serine/threonine kinase family member 4	protein-coding	6.0	5.5	7.5	177.0	12.5	5.5	1.5	1.0
Merged-chr4-140701947-4	chr4	140701850	140702050	+	965.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173867, intron 1 of 12)	CpG	477.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	11.0	35.5	29.5	270.5	85.0	20.0	20.0	38.5
Merged-chr11-5012460-4	chr11	5012367	5012567	+	925.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 2 of 22)	intron (NM_001243043, intron 2 of 22)	25643.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	20.0	20.5	25.0	598.0	28.0	8.5	13.0	22.0
Merged-chr13-96586503-3	chr13	96586404	96586604	+	757.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023420, intron 3 of 17)	ORR1D1|LTR|ERVL-MaLR	43769.0	NM_023420	68018.0	Mm.24125	NM_023420	ENSMUSG00000021669	Col4a3bp	2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP	collagen, type IV, alpha 3 (Goodpasture antigen) binding protein	protein-coding	8.0	17.5	11.0	126.5	3.5	2.0	2.0	2.0
Merged-chr17-53689377-4	chr17	53689292	53689492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028232)	promoter-TSS (NM_028232)	-77.0	NM_028232	72415.0	Mm.153202	NM_028232	ENSMUSG00000023940	Sgo1	3300001M08Rik|C81037|Sgol1	shugoshin 1	protein-coding	234.5	328.0	204.5	3747.0	585.0	253.0	277.5	225.0
Merged-chr13-110601520-4	chr13	110601424	110601624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206480.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	28.0	64.5	34.5	517.0	119.5	35.0	29.0	27.5
Merged-chr5-36750585-4	chr5	36750476	36750676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1897.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	28.5	34.0	17.5	278.0	84.5	58.0	41.0	49.0
Merged-chr7-137410655-4	chr7	137410530	137410730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029886, intron 1 of 3)	CpG	126.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	155.5	335.0	376.0	3186.5	368.0	155.0	170.5	198.0
Merged-chr5-150621811-4	chr5	150621709	150621909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362416, intron 6 of 7)	intron (NM_001362416, intron 6 of 7)	-27284.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	45.5	109.0	52.5	837.0	102.5	47.5	34.5	25.5
Merged-chr14-75034392-4	chr14	75034299	75034499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 2 of 13)	intron (NM_198642, intron 2 of 13)	18372.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	58.5	60.5	42.0	851.5	118.0	35.0	55.5	56.5
Merged-chr2-167649515-4	chr2	167649480	167649680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145538, intron 2 of 5)	intron (NM_145538, intron 2 of 5)	11964.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	90.0	98.5	104.5	1516.0	137.5	59.5	54.0	63.5
Merged-chr15-77831476-4	chr15	77831381	77831581	+	912.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	10694.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	12.5	30.0	11.5	173.5	56.5	12.5	17.0	9.0
Merged-chr12-84706701-1	chr12	84706601	84706801	+	547.0	f0_balb.idr	Intergenic	Intergenic	-7894.0	NM_001033334	627191.0	Mm.152484	NM_001033334	ENSMUSG00000071234	Syndig1l	DSPC1|Gm261|SynDIG2|Tmem90a	synapse differentiation inducing 1 like	protein-coding	8.0	6.5	5.0	70.5	18.5	3.0	7.5	5.0
Merged-chr1-43337538-4	chr1	43337441	43337641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108210.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	33.5	28.0	55.0	728.0	67.0	17.5	36.5	47.0
Merged-chr5-22917430-3	chr5	22917379	22917579	+	963.9166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359998, intron 1 of 3)	intron (NM_001359998, intron 1 of 3)	-170595.0	NR_027362	330052.0	Mm.459265	NR_027362	ENSMUSG00000105076	A930003O13Rik	-	RIKEN cDNA A930003O13 gene	ncRNA	0.0	0.0	0.0	17.0	61.5	16.5	24.0	25.0
Merged-chr8-105859605-2	chr8	105859505	105859705	+	835.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357229)	promoter-TSS (NM_001357229)	-928.0	NM_026532	68051.0	Mm.455474	NM_026532	ENSMUSG00000008450	Nutf2	2700067I02Rik|AI115459|AI413596|AW546000|Ntf2|Ntf3|PP15	nuclear transport factor 2	protein-coding	5.0	4.0	2.0	46.5	20.0	9.5	5.0	8.5
Merged-chr18-4315298-4	chr18	4315224	4315424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37629.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	41.0	67.5	23.5	317.0	125.0	36.5	31.0	23.0
Merged-chr8-126589838-2	chr8	126589738	126589938	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164598, exon 2 of 2)	3' UTR (NM_001164598, exon 2 of 2)	3598.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	12.0	20.0	17.0	220.0	84.5	24.5	28.5	31.0
Merged-chr17-31693411-2	chr17	31693315	31693515	+	660.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15484.0	NM_001278570	12954.0	Mm.1228	NM_013501	ENSMUSG00000024041	Cryaa	Acry-1|Crya-1|Crya1|DAcry-1|lop18	crystallin, alpha A	protein-coding	5.0	4.0	3.5	23.5	17.0	11.5	5.5	11.0
Merged-chr12-52501134-3	chr12	52501036	52501236	+	837.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14941.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	10.5	19.5	11.0	158.0	54.5	6.5	12.0	7.5
Merged-chr5-123393975-4	chr5	123393872	123394072	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177582)	promoter-TSS (NM_177582)	-826.0	NM_133917	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	10.0	34.5	12.0	188.0	77.5	22.0	9.0	10.5
Merged-chr16-8671003-4	chr16	8670905	8671105	+	937.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025821, intron 1 of 3)	intron (NM_025821, intron 1 of 3)	1148.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	10.0	35.0	22.5	284.0	44.0	15.5	15.5	10.5
Merged-chr3-52268797-1	chr3	52268697	52268897	+	1000.0	f0_c57.idr	5' UTR (NM_019739, exon 1 of 3)	5' UTR (NM_019739, exon 1 of 3)	460.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	20.5	24.0	27.5	233.5	59.5	14.5	30.0	32.5
Merged-chr19-8997740-3	chr19	8997632	8997832	+	906.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039959, intron 1 of 5)	intron (NM_001039959, intron 1 of 5)	8448.0	NM_001286518	66395.0	Mm.203866	NM_009643	ENSMUSG00000069833	Ahnak	DY6	AHNAK nucleoprotein (desmoyokin)	protein-coding	24.0	16.5	20.0	245.0	15.0	5.5	7.5	3.5
Merged-chr3-54807211-2	chr3	54807111	54807311	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_133231, exon 1 of 3)	exon (NM_133231, exon 1 of 3)	580.0	NM_133231	170767.0	Mm.185735	NM_133231	ENSMUSG00000036615	Rfxap	5730495K23Rik	regulatory factor X-associated protein	protein-coding	7.5	13.0	16.5	112.5	39.0	9.5	9.0	7.5
Merged-chr19-38837332-4	chr19	38837206	38837406	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001362424, exon 1 of 11)	exon (NM_001362424, exon 1 of 11)	727.0	NM_001362424	209478.0	Mm.391153	NM_145952	ENSMUSG00000048720	Tbc1d12	BC033574	TBC1D12: TBC1 domain family, member 12	protein-coding	9.5	11.5	20.0	194.0	20.5	7.0	12.0	19.0
Merged-chr2-116977168-4	chr2	116977054	116977254	+	887.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77002.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	9.0	20.0	18.5	223.5	21.0	17.0	17.5	8.0
Merged-chr6-140767858-4	chr6	140767760	140767960	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140975.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	19.0	16.5	15.5	287.0	35.5	11.5	13.0	18.5
Merged-chr6-29696123-4	chr6	29696014	29696214	+	902.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301407, intron 1 of 7)	intron (NM_001301407, intron 1 of 7)	1900.0	NM_146173	232670.0	Mm.225289	NM_146173	ENSMUSG00000001763	Tspan33	1300010A20Rik|Pen	tetraspanin 33	protein-coding	16.5	74.5	14.5	283.0	55.0	17.0	12.5	5.0
Merged-chr5-5421632-3	chr5	5421527	5421727	+	748.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41376.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	5.5	10.0	6.5	14.0	26.0	6.0	4.5	19.0
Merged-chr14-63409390-4	chr14	63409269	63409469	+	861.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 1 of 12)	intron (NM_007549, intron 1 of 12)	7818.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	6.5	16.0	8.5	220.0	36.0	5.5	6.5	11.5
Merged-chr19-57198130-1	chr19	57198030	57198230	+	582.0	f0_balb.idr	promoter-TSS (NM_001290816)	promoter-TSS (NM_001290816)	-499.0	NM_001290816	226251.0	Mm.217161	NM_178688	ENSMUSG00000025085	Ablim1	2210411C18Rik|2610209L21Rik|4833406P10Rik|9330196J19Rik|AV079770|AW060987|AW215784|Limab1|mKIAA0059	actin-binding LIM protein 1	protein-coding	4.5	5.5	10.0	95.5	5.0	1.0	1.5	2.0
Merged-chr5-3802979-6	chr5	3802910	3803110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033173)	promoter-TSS (NR_033173)	114.0	NM_001289528	70797.0	Mm.130148	NM_001003909	ENSMUSG00000040351	Ankib1	2310061P20Rik|4631416I11Rik|AW494740|C80642|mKIAA1386	ankyrin repeat and IBR domain containing 1	protein-coding	53.0	38.5	58.0	677.5	69.5	24.0	48.5	52.5
Merged-chr18-54853235-4	chr18	54853132	54853332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136948.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	40.5	35.0	42.5	635.5	43.5	18.5	39.5	30.0
Merged-chr1-191021350-4	chr1	191021236	191021436	+	836.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081259, intron 1 of 9)	intron (NM_001081259, intron 1 of 9)	-4015.0	NR_027298	100125339.0	Mm.472263	NR_027298	ENSMUSG00000097845	A230020J21Rik	-	RIKEN cDNA A230020J21 gene	ncRNA	11.5	28.0	12.5	145.5	22.5	3.5	12.5	20.0
Merged-chr6-128143168-2	chr6	128143068	128143268	+	869.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	410.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	9.0	8.0	13.0	130.5	28.5	12.0	7.5	15.0
Merged-chr17-28015171-1	chr17	28015071	28015271	+	695.0	f0_balb.idr	intron (NM_181413, intron 12 of 24)	intron (NM_181413, intron 12 of 24)	65413.0	NM_001357681	21463.0	Mm.29758	NM_013687	ENSMUSG00000062859	Tcp11	D17Ken1|Tcp-11	t-complex protein 11	protein-coding	8.5	10.5	13.0	112.5	10.0	4.0	4.0	5.5
Merged-chr5-150140673-4	chr5	150140574	150140774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119256.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	29.0	36.5	22.5	651.5	79.0	34.0	35.0	37.5
Merged-chr18-75415440-2	chr18	75415340	75415540	+	939.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48075.0	NM_001042660	17131.0	Mm.34407	NM_008543	ENSMUSG00000025880	Smad7	Madh7	SMAD family member 7	protein-coding	5.0	10.5	8.0	40.0	7.0	2.0	6.5	1.0
Merged-chr10-111831338-3	chr10	111831249	111831449	+	876.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	43027.0	NR_046029	629206.0	Mm.391444	NR_046029	ENSMUSG00000112533	Gm20758	-	predicted gene, 20758	ncRNA	7.0	9.5	12.5	167.0	10.0	3.5	9.5	5.0
Merged-chr9-40325829-4	chr9	40325715	40325915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	-4492.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	28.5	33.5	33.5	652.5	55.5	15.0	16.5	30.5
Merged-chr2-23006426-4	chr2	23006317	23006517	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	Lx8|LINE|L1	33824.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	14.0	19.0	19.0	305.5	48.5	17.5	22.5	20.5
Merged-chr2-129297287-4	chr2	129297166	129297366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040371)	promoter-TSS (NR_040371)	-54.0	NM_181589	70466.0	Mm.45785	NM_181589	ENSMUSG00000048327	Ckap2l	2010016H04Rik|2610318C08Rik|AV070319|radmis|rdm	cytoskeleton associated protein 2-like	protein-coding	226.5	390.5	185.0	2813.0	558.0	238.0	238.0	209.5
Merged-chr10-98725335-4	chr10	98725233	98725433	+	958.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-189309.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	26.0	28.0	19.0	334.5	31.5	20.5	16.0	16.0
Merged-chr6-128630234-3	chr6	128630144	128630344	+	891.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7310.0	NM_010737	17057.0	Mm.16729	NM_010737	ENSMUSG00000030361	Klrb1a	Ly55a|NKR-P1.7|NKR-P1A|NKRP12|Nkrp1-a|Nkrp1a|ly-55A	killer cell lectin-like receptor subfamily B member 1A	protein-coding	6.0	11.0	11.0	116.5	20.0	7.5	13.5	9.0
Merged-chr17-28329383-3	chr17	28329268	28329468	+	887.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357628, intron 3 of 5)	intron (NM_001357628, intron 3 of 5)	803.0	NM_001357628	19896.0	Mm.336955	NM_011287	ENSMUSG00000037805	Rpl10a	CsA-19|Nedd6	ribosomal protein L10A	protein-coding	11.0	5.0	5.0	26.5	12.5	5.0	1.5	11.5
Merged-chr2-110018447-4	chr2	110018350	110018550	+	923.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149736, intron 1 of 6)	intron (NR_149736, intron 1 of 6)	633.0	NR_149736	68201.0	Mm.181767	NM_026613	ENSMUSG00000027160	Ccdc34	2810027O19Rik|4930522P10Rik|AI596202	coiled-coil domain containing 34	protein-coding	18.0	22.0	10.0	186.0	34.5	14.5	9.5	22.0
Merged-chr6-128107949-4	chr6	128107846	128108046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	35632.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	17.5	35.5	25.5	329.0	71.0	19.0	26.5	33.5
Merged-chr2-167656839-4	chr2	167656800	167657000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145538, intron 1 of 5)	intron (NM_145538, intron 1 of 5)	4644.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	99.0	176.5	174.5	1948.5	278.5	110.0	113.5	144.5
Merged-chr11-79121684-4	chr11	79121584	79121784	+	895.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	MIRb|SINE|MIR	24789.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	18.0	27.5	13.0	207.0	47.0	9.0	13.0	11.5
Merged-chr5-43882286-4	chr5	43882192	43882392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	PB1D10|SINE|Alu	13483.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	143.5	172.5	176.0	2089.5	348.5	111.5	155.0	134.0
Merged-chr1-33878404-4	chr1	33878319	33878519	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177235, exon 3 of 7)	exon (NM_177235, exon 3 of 7)	29202.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	25.5	21.0	21.0	194.5	76.5	33.0	27.5	20.5
Merged-chr3-87359488-4	chr3	87359388	87359588	+	946.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 1 of 5)	intron (NM_009690, intron 1 of 5)	1607.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	29.5	32.0	30.0	306.0	23.0	4.0	11.0	19.0
Merged-chr8-90876550-4	chr8	90876451	90876651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	47716.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	126.0	202.5	170.5	2418.5	291.5	79.0	114.0	122.0
Merged-chr16-31294000-4	chr16	31293885	31294085	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18708.0	NM_025800	66849.0	Mm.291593	NM_025800	ENSMUSG00000047714	Ppp1r2	0610025N14Rik|2310007G06Rik|4930440J04Rik|5430408E15Rik|D16Ertd248e|I-2|IPP-2	protein phosphatase 1, regulatory (inhibitor) subunit 2	protein-coding	24.0	24.5	16.5	473.5	46.0	13.5	25.0	25.0
Merged-chr5-112282893-4	chr5	112282768	112282968	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	6177.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	20.5	23.0	28.0	606.0	27.5	7.0	25.5	14.0
Merged-chr17-43534990-4	chr17	43534896	43535096	+	984.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001254953, exon 3 of 3)	exon (NM_001254953, exon 3 of 3)	8643.0	NM_001254953	100043332.0	Mm.17626	NM_001254953	ENSMUSG00000096140	Ankrd66	AU041848|D730048J04Rik|Gm4368	ankyrin repeat domain 66	protein-coding	35.5	35.0	37.5	569.5	37.5	21.5	16.5	18.5
Merged-chr1-161520210-5	chr1	161520161	161520361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25604.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	46.0	58.0	62.0	824.0	80.5	31.0	36.0	25.5
Merged-chr9-88956928-4	chr9	88956843	88957043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009742)	promoter-TSS (NM_009742)	23.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	66.5	96.5	74.0	462.0	166.0	75.5	78.0	57.5
Merged-chr10-117677199-4	chr10	117677108	117677308	+	924.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027468, intron 7 of 8)	intron (NM_027468, intron 7 of 8)	33550.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	23.0	16.0	12.5	358.5	59.5	13.5	24.0	27.0
Merged-chr5-137074357-4	chr5	137074273	137074473	+	782.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2101.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	8.5	13.0	5.5	79.0	17.0	17.5	6.5	12.5
Merged-chr5-67600126-4	chr5	67600026	67600226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7757.0	NM_001033415	330096.0	Mm.442747	NM_001033415	ENSMUSG00000050010	Shisa3	D830007B15Rik	shisa family member 3	protein-coding	32.5	47.0	23.5	661.0	51.5	9.0	28.0	32.5
Merged-chr18-67486694-1	chr18	67486594	67486794	+	818.333313	f0_balb.idr	Intergenic	L1_Mur3|LINE|L1	21845.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	12.5	16.0	8.0	208.5	24.0	4.5	3.0	6.0
Merged-chr18-73839793-4	chr18	73839685	73839885	+	869.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19600.0	NM_027741	71263.0	Mm.126220	NM_027741	ENSMUSG00000064036	Mro	4930507C04Rik|4933435E20Rik	maestro	protein-coding	11.0	16.0	7.5	289.0	28.0	12.5	14.5	5.0
Merged-chr10-41684790-3	chr10	41684689	41684889	+	876.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 4 of 47)	intron (NM_001358562, intron 4 of 47)	31674.0	NM_001358562	75973.0	Mm.228517	NM_029493	ENSMUSG00000075225	Ccdc162	5033413D22Rik|Ccdc162p|Gm29096|Gm61|Gm6976	coiled-coil domain containing 162	protein-coding	3.0	6.0	3.0	110.5	14.0	4.5	6.5	11.5
Merged-chr11-69035993-4	chr11	69035898	69036098	+	990.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281465, intron 22 of 22)	intron (NM_001281465, intron 22 of 22)	-9639.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	20.0	41.5	16.0	254.5	53.0	32.0	32.5	18.0
Merged-chr11-109470316-4	chr11	109470224	109470424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029842, intron 1 of 5)	intron (NM_001029842, intron 1 of 5)	2905.0	NM_134038	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	51.0	62.5	32.0	769.5	90.5	22.5	60.0	62.5
Merged-chr12-86147462-3	chr12	86147360	86147560	+	947.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029601, intron 4 of 7)	L2b|LINE|L2	-21881.0	NR_046081	328136.0	Mm.312050	NR_046081	ENSMUSG00000097543	Gm805	-	predicted gene 805	ncRNA	1.5	12.5	12.5	119.0	6.0	8.0	8.5	6.5
Merged-chr15-95850744-4	chr15	95850629	95850829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253813, intron 2 of 20)	L1MB3|LINE|L1	-20657.0	NR_155276	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	75.0	162.5	69.0	719.5	181.5	69.0	85.5	67.0
Merged-chr10-77391284-4	chr10	77391189	77391389	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024838, intron 1 of 11)	L1MC3|LINE|L1	26984.0	NM_130895	110532.0	Mm.276815	NM_130895	ENSMUSG00000020262	Adarb1	1700057H01Rik|AW124433|AW558573|Adar2|BB220382|D10Bwg0447e|Red1	adenosine deaminase, RNA-specific, B1	protein-coding	35.0	46.5	54.5	610.5	52.0	16.0	32.0	39.0
Merged-chr4-128670739-4	chr4	128670624	128670824	+	939.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	16022.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	9.5	17.0	8.0	323.5	38.5	16.0	10.5	16.5
Merged-chr8-105346622-3	chr8	105346518	105346718	+	850.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	1352.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	11.0	9.5	7.0	48.0	16.0	6.5	5.0	7.5
Merged-chr9-41170163-4	chr9	41170057	41170257	+	882.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12095.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	15.5	14.0	9.0	217.5	18.0	10.0	13.0	17.0
Merged-chr2-73459371-3	chr2	73459265	73459465	+	845.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-5476.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	18.5	3.5	17.0	183.0	24.5	7.5	20.0	7.5
Merged-chr18-65600077-4	chr18	65599978	65600178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361051, intron 1 of 8)	intron (NM_001361051, intron 1 of 8)	-6605.0	NM_001361052	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	40.5	92.0	77.5	1389.0	104.0	49.5	69.0	58.0
Merged-chr16-36072065-4	chr16	36071978	36072178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027342)	promoter-TSS (NM_027342)	418.0	NM_001159421	381045.0	Mm.310434	NM_198645	ENSMUSG00000075229	Ccdc58	A930007B11Rik|AI413631	coiled-coil domain containing 58	protein-coding	48.5	46.5	20.0	330.5	85.5	47.5	38.0	32.0
Merged-chr6-38692255-4	chr6	38692144	38692344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29175.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	29.0	30.0	30.0	567.5	39.5	8.0	23.5	28.5
Merged-chr10-8067082-4	chr10	8066982	8067182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110959.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	44.5	38.5	57.0	992.5	88.0	39.5	40.0	41.0
Merged-chr8-77421267-4	chr8	77421157	77421357	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 5 of 22)	intron (NM_030113, intron 5 of 22)	-95799.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	21.5	25.5	19.5	357.5	33.0	6.0	11.5	16.0
Merged-chr11-70653915-5	chr11	70653819	70654019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011072, intron 1 of 2)	CpG	731.0	NM_011072	18643.0	Mm.2647	NM_011072	ENSMUSG00000018293	Pfn1	Pfn	profilin 1	protein-coding	20.0	42.5	32.5	179.0	73.5	34.0	30.5	43.5
Merged-chr8-26104685-4	chr8	26104583	26104783	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207659, intron 2 of 21)	intron (NM_207659, intron 2 of 21)	14541.0	NM_207659	320191.0	Mm.334464	NM_207659	ENSMUSG00000037234	Hook3	5830454D03Rik|AI317159|E330005F07Rik	hook microtubule tethering protein 3	protein-coding	24.5	26.0	23.0	342.5	39.5	14.0	26.0	20.5
Merged-chr12-37279047-4	chr12	37278954	37279154	+	927.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178767, intron 3 of 12)	intron (NM_178767, intron 3 of 12)	37415.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	20.0	7.5	21.0	378.0	45.0	12.0	16.5	10.0
Merged-chr2-84758925-4	chr2	84758822	84759022	+	772.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16507.0	NM_009776	12258.0	Mm.38888	NM_009776	ENSMUSG00000023224	Serping1	C1INH|C1nh	serine (or cysteine) peptidase inhibitor, clade G, member 1	protein-coding	10.0	12.5	11.0	134.5	43.5	3.5	11.5	4.0
Merged-chr12-80407919-2	chr12	80407819	80408019	+	871.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_177267, intron 1 of 8)	B3A|SINE|B2	-16182.0	NR_028544	100217447.0	Mm.453532	NR_028544	ENSMUSG00000112285	Scarna3b	MBI-100	small Cajal body-specific RNA 3B	ncRNA	8.0	9.5	4.0	58.5	12.0	8.0	9.5	17.0
Merged-chr8-109681626-3	chr8	109681495	109681695	+	769.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155034, intron 4 of 10)	MTB_Mm|LTR|ERVL-MaLR	11699.0	NR_155034	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	1.5	2.5	5.0	53.5	23.0	9.0	4.5	4.5
Merged-chr19-53404805-4	chr19	53404726	53404926	+	998.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14192.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	65.5	189.0	74.5	439.5	134.0	54.5	34.0	21.5
Merged-chr1-164652441-4	chr1	164652339	164652539	+	836.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-144224.0	NM_019759	56429.0	Mm.28935	NM_019759	ENSMUSG00000026574	Dpt	1810032B19Rik|5033416F05Rik|EQ-1|Eq1	dermatopontin	protein-coding	7.5	3.0	16.5	161.0	44.5	12.0	34.0	14.5
Merged-chr7-97081609-4	chr7	97081465	97081665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010248)	promoter-TSS (NM_010248)	-186.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	77.5	88.5	88.5	1316.0	225.5	67.5	90.0	75.5
Merged-chr7-30421322-1	chr7	30421222	30421422	+	1000.0	f0_c57.idr	promoter-TSS (NM_001360906)	promoter-TSS (NM_001360906)	-409.0	NM_001360906	243910.0	Mm.386878	NM_172142	ENSMUSG00000036931	Nfkbid	I-kappa-B-delta|IkappaBNS|ikB-delta	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, delta	protein-coding	10.0	9.5	2.5	97.5	64.0	28.5	21.0	31.0
Merged-chr1-86504307-4	chr1	86504163	86504363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-22294.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	120.5	167.0	103.5	1647.5	232.0	100.5	134.5	75.5
Merged-chr10-78009364-4	chr10	78009273	78009473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358793, intron 1 of 21)	CpG	434.0	NM_008826	18641.0	Mm.269649	NM_008826	ENSMUSG00000020277	Pfkl	AA407869|ATP-PFK|PFK-B|PFK-L	phosphofructokinase, liver, B-type	protein-coding	85.0	111.5	78.0	1185.5	189.5	81.0	130.0	72.0
Merged-chr17-28698335-4	chr17	28698244	28698444	+	976.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	5776.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	24.0	45.0	12.5	187.5	70.5	17.0	22.5	16.0
Merged-chr1-86442464-8	chr1	86442368	86442568	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	16139.0	NM_027966	71863.0	Mm.179627	NM_027966	ENSMUSG00000036574	Tex44	1700019O17Rik	testis expressed 44	protein-coding	27.0	33.0	21.5	248.5	85.5	39.5	27.0	40.0
Merged-chr5-144965989-5	chr5	144965933	144966133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029438)	promoter-TSS (NM_029438)	-203.0	NM_029438	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	22.5	16.0	21.0	285.5	39.5	22.0	13.5	24.0
Merged-chr19-41086915-4	chr19	41086801	41087001	+	981.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011904, intron 19 of 20)	intron (NM_011904, intron 19 of 20)	-9788.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	14.0	24.5	14.5	217.5	44.0	22.0	14.0	38.5
Merged-chr2-22933772-4	chr2	22933682	22933882	+	949.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019501, intron 9 of 10)	intron (NM_019501, intron 9 of 10)	38260.0	NM_001355467	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	5.5	12.5	22.5	340.0	73.5	30.5	36.0	39.0
Merged-chr15-84184512-2	chr15	84184412	84184612	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_054088, intron 7 of 7)	intron (NM_054088, intron 7 of 7)	-7721.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	7.0	8.0	2.5	144.0	26.0	8.5	7.5	6.0
Merged-chr11-4095310-4	chr11	4095219	4095419	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026443, exon 1 of 4)	5' UTR (NM_026443, exon 1 of 4)	112.0	NM_026443	67900.0	Mm.41719	NM_026443	ENSMUSG00000004748	Mtfp1	1700020C11Rik|2610507A21Rik|AV005788|Mtp18	mitochondrial fission process 1	protein-coding	2.5	13.0	8.0	49.0	29.5	11.5	4.5	20.5
Merged-chr10-61121957-4	chr10	61121858	61122058	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 3 of 14)	(GTTTG)n|Simple_repeat|Simple_repeat	25726.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	28.5	50.5	14.0	211.0	96.5	26.5	35.0	35.5
Merged-chr15-86273513-4	chr15	86273416	86273616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 4 of 12)	intron (NM_145476, intron 4 of 12)	-4159.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	66.0	77.5	61.5	805.5	108.0	40.0	74.5	43.0
Merged-chr9-96713325-4	chr9	96713238	96713438	+	856.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359959, intron 2 of 2)	intron (NM_001359959, intron 2 of 2)	6107.0	NM_001359960	245007.0	Mm.485954	NM_175537	ENSMUSG00000040433	Zbtb38	A930014K01Rik|CIBZ	zinc finger and BTB domain containing 38	protein-coding	13.5	35.0	3.0	247.5	55.0	14.5	20.5	11.5
Merged-chr9-65983021-3	chr9	65982906	65983106	+	871.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173185, intron 5 of 13)	intron (NM_173185, intron 5 of 13)	73996.0	NM_173185	214897.0	Mm.325816	NM_173185	ENSMUSG00000032384	Csnk1g1	9130020E21Rik	casein kinase 1, gamma 1	protein-coding	0.0	0.0	0.0	0.0	66.0	17.5	12.5	17.5
Merged-chr16-32430889-4	chr16	32430772	32430972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009981)	promoter-TSS (NM_009981)	-49.0	NM_009981	13026.0	Mm.98775	NM_009981	ENSMUSG00000005615	Pcyt1a	CTalpha|Cctalpha|Ctpct|Cttalpha	phosphate cytidylyltransferase 1, choline, alpha isoform	protein-coding	107.5	164.5	69.0	1268.0	284.5	115.0	121.0	136.0
Merged-chr11-8569869-4	chr11	8569752	8569952	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	intron (NM_001083587, intron 4 of 30)	94683.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	25.0	34.0	24.0	422.5	38.5	12.5	27.0	20.0
Merged-chr11-117878029-1	chr11	117877929	117878129	+	794.5	f0_balb.idr	Intergenic	Intergenic	-4503.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	9.0	7.0	7.0	187.0	11.0	1.0	0.5	3.5
Merged-chr1-124073254-4	chr1	124073183	124073383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27724.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	102.5	119.0	153.0	2647.0	223.5	80.0	118.5	83.5
Merged-chr8-105701141-4	chr8	105701034	105701234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348349)	promoter-TSS (NM_001348349)	-14.0	NM_001047436	56513.0	Mm.472753	NM_019695	ENSMUSG00000005699	Pard6a	0710008C04Rik|2610010A15Rik|PAR-6A|PAR6alpha|Par-6|Par6|Par6c|TAX40|Tip-40	par-6 family cell polarity regulator alpha	protein-coding	22.5	57.5	19.5	302.5	114.0	26.5	28.5	50.5
Merged-chr12-46821607-4	chr12	46821550	46821750	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2875.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	19.0	27.0	33.5	615.5	31.5	11.5	19.0	22.0
Merged-chr4-128785133-4	chr4	128785022	128785222	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081098, intron 6 of 8)	intron (NM_001081098, intron 6 of 8)	20990.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	22.5	29.5	15.5	480.5	87.5	24.5	34.5	17.5
Merged-chr10-127570549-3	chr10	127570465	127570665	+	918.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 34 of 88)	intron (NM_008512, intron 34 of 88)	-36006.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	2.5	3.5	4.0	58.5	5.0	4.5	17.0	10.0
Merged-chr13-16912443-4	chr13	16912336	16912536	+	970.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138654, intron 13 of 13)	intron (NM_138654, intron 13 of 13)	782329.0	NM_138654	192136.0	Mm.364180	NM_138654	ENSMUSG00000055137	Sugct	5033411D12Rik|D17907	succinyl-CoA glutarate-CoA transferase	protein-coding	23.5	17.5	29.5	420.5	104.0	13.5	45.5	30.5
Merged-chr14-30607908-4	chr14	30607805	30608005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 3 of 17)	intron (NM_011103, intron 3 of 17)	2405.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	32.5	41.5	22.5	411.5	81.0	27.5	22.5	23.0
Merged-chr15-67087598-3	chr15	67087480	67087680	+	741.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G3|LTR|ERVL-MaLR	89302.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	14.5	6.0	9.0	104.0	8.0	2.0	0.0	1.0
Merged-chr1-171378116-1	chr1	171378016	171378216	+	626.0	f0_balb.idr	intron (NM_001122680, intron 1 of 7)	L2c|LINE|L2	7943.0	NM_001122680	71740.0	Mm.263414	NM_027893	ENSMUSG00000006411	Nectin4	1200017F15Rik|Prr4|Pvrl4	nectin cell adhesion molecule 4	protein-coding	9.0	25.5	13.5	94.0	16.0	2.5	2.5	2.0
Merged-chr5-3516908-4	chr5	3516779	3516979	+	989.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 6 of 7)	intron (NM_009873, intron 6 of 7)	-26954.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	20.5	40.5	11.0	262.0	49.5	20.5	25.5	11.5
Merged-chr8-4335828-4	chr8	4335725	4335925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033527, intron 2 of 5)	intron (NR_033527, intron 2 of 5)	10615.0	NR_033527	20300.0	Mm.7275	NM_009138	ENSMUSG00000023235	Ccl25	A130072A22Rik|AI852536|CKb15|Scya25|TECK	chemokine (C-C motif) ligand 25	protein-coding	78.0	83.5	85.5	1486.5	208.5	64.0	78.0	70.5
Merged-chr2-6323320-4	chr2	6323199	6323399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080548, intron 1 of 14)	CpG	542.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	17.0	28.0	18.5	347.5	51.5	30.5	29.5	21.0
Merged-chr9-40723021-1	chr9	40722921	40723121	+	732.0	f0_balb.idr	intron (NM_133733, intron 1 of 6)	MLT1B|LTR|ERVL-MaLR	37057.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	10.5	5.5	9.5	115.0	3.0	0.5	1.0	5.5
Merged-chr17-3149661-4	chr17	3149580	3149780	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134123, intron 3 of 19)	MTC|LTR|ERVL-MaLR	34708.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	1.5	14.5	7.0	148.0	11.5	7.0	13.5	11.0
Merged-chr8-46951934-5	chr8	46951862	46952062	+	784.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34925.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	6.5	6.5	2.5	109.0	16.5	5.5	5.0	12.0
Merged-chr11-100323780-4	chr11	100323670	100323870	+	948.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3821.0	NM_011508	20918.0	Mm.13886	NM_011508	ENSMUSG00000035530	Eif1	Sui1-rs1	eukaryotic translation initiation factor 1	protein-coding	26.5	23.0	6.0	174.5	31.5	12.5	13.5	13.0
Merged-chr3-99141343-4	chr3	99141169	99141369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027462, intron 1 of 5)	CpG	179.0	NM_027462	70560.0	Mm.316754	NM_027462	ENSMUSG00000004233	Wars2	5730427B17Rik|9430020O07Rik|AI413375|TrpRS	tryptophanyl tRNA synthetase 2 (mitochondrial)	protein-coding	101.0	150.0	210.0	1625.0	294.0	135.0	142.0	160.0
Merged-chr15-96666879-4	chr15	96666788	96666988	+	873.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	-23975.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	15.0	14.0	11.0	115.0	26.5	9.0	15.5	7.0
Merged-chr17-48119878-2	chr17	48119778	48119978	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26429.0	NM_001177897	328829.0	Mm.466999	NM_177824	ENSMUSG00000073386	9830107B12Rik	Trem5	RIKEN cDNA 9830107B12 gene	protein-coding	9.5	7.0	5.0	45.5	23.5	10.0	14.5	4.5
Merged-chr11-100826790-4	chr11	100826685	100826885	+	671.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 1 of 18)	intron (NM_001113563, intron 1 of 18)	-4215.0	NM_011489	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	9.0	9.0	5.0	113.0	18.5	5.5	10.5	19.5
Merged-chr10-19939419-4	chr10	19939318	19939518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	4892.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	88.0	126.5	70.0	1321.5	105.5	43.5	42.0	38.5
Merged-chr2-153346421-4	chr2	153346316	153346516	+	973.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040318)	promoter-TSS (NR_040318)	277.0	NM_001039939	228790.0	Mm.330677	NM_001039939	ENSMUSG00000042548	Asxl1	mKIAA0978	additional sex combs like 1	protein-coding	17.5	28.5	22.5	145.0	41.5	20.5	11.5	27.5
Merged-chr11-72207504-4	chr11	72207400	72207600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026559)	promoter-TSS (NM_026559)	-18.0	NR_155066	74477.0	Mm.289697	NM_028963	ENSMUSG00000020807	4933427D14Rik	C85113|Kiaa0753|MNR	RIKEN cDNA 4933427D14 gene	protein-coding	38.5	35.5	37.5	491.5	66.5	37.0	25.5	22.0
Merged-chr1-75478685-4	chr1	75478579	75478779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177056)	promoter-TSS (NM_177056)	792.0	NM_001001566	74241.0	Mm.260577	NM_001001565	ENSMUSG00000032997	Chpf	1700028N03Rik|AI414328|D1Bwg1363e	chondroitin polymerizing factor	protein-coding	14.0	21.5	15.5	281.5	49.0	9.5	24.5	19.0
Merged-chr12-20921234-4	chr12	20921084	20921284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-105405.0	NR_015521	69513.0	Mm.273972	NR_015521	ENSMUSG00000099759	1700030C10Rik	-	RIKEN cDNA 1700030C10 gene	ncRNA	23.0	38.0	35.0	337.0	73.0	33.5	43.5	43.0
Merged-chr11-50430342-4	chr11	50430193	50430393	+	840.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172557, intron 1 of 17)	intron (NM_172557, intron 1 of 17)	818.0	NM_172557	216724.0	Mm.390400	NM_172557	ENSMUSG00000020375	Rufy1	3000002E04Rik|Rabip4|ZFYVE12	RUN and FYVE domain containing 1	protein-coding	14.0	9.0	6.5	75.0	18.5	8.0	3.0	11.5
Merged-chr4-141404980-4	chr4	141404878	141405078	+	946.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019701, intron 18 of 19)	intron (NM_019701, intron 18 of 19)	-6272.0	NM_024412	12733.0	Mm.167900	NM_024412	ENSMUSG00000033770	Clcnka	C75963|CLC-K1|Clcnk1	chloride channel, voltage-sensitive Ka	protein-coding	6.0	24.5	13.5	164.5	40.5	13.0	12.0	22.5
Merged-chr5-8353885-4	chr5	8353788	8353988	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	L1_Mus2|LINE|L1	14272.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	46.5	70.5	120.5	309.0	187.0	65.0	94.0	78.0
Merged-chr6-117917725-4	chr6	117917622	117917822	+	910.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166431, intron 2 of 2)	intron (NM_001166431, intron 2 of 2)	428.0	NM_001166427	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	9.5	18.0	7.0	138.0	29.5	13.5	17.5	13.0
Merged-chr5-130283217-4	chr5	130283109	130283309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153350, exon 9 of 16)	non-coding (NR_153350, exon 9 of 16)	26172.0	NM_001015876	100929.0	Mm.271296	NM_178897	ENSMUSG00000056310	Tyw1	AW125391|Rsafd1	tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)	protein-coding	15.5	24.5	34.0	546.0	46.0	16.5	35.5	30.0
Merged-chr3-105036514-4	chr3	105036437	105036637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030249, intron 2 of 5)	intron (NM_030249, intron 2 of 5)	16416.0	NM_001163332	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	27.0	59.0	32.5	832.5	91.5	35.5	41.0	31.5
Merged-chr11-94149280-3	chr11	94149134	94149334	+	870.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-62220.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	11.5	17.0	10.5	124.5	10.5	5.5	5.0	12.5
Merged-chr7-122199475-4	chr7	122199354	122199554	+	853.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13223.0	NM_001316689	26918.0	Mm.20452	NM_012016	ENSMUSG00000030866	Ern2	Ern1|Ire1|Ire1b|ire1-beta|mIre1	endoplasmic reticulum (ER) to nucleus signalling 2	protein-coding	9.0	9.5	9.5	124.0	34.5	4.0	8.5	11.0
Merged-chr6-38736526-4	chr6	38736458	38736658	+	908.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 7 of 14)	intron (NM_010433, intron 7 of 14)	73489.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	19.5	11.5	19.5	125.0	18.0	0.5	13.5	13.0
Merged-chr1-82798531-4	chr1	82798429	82798629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30073.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	27.0	28.5	52.0	680.0	62.5	23.5	25.0	35.5
Merged-chr4-132794224-4	chr4	132794116	132794316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033308, intron 1 of 5)	intron (NM_001033308, intron 1 of 5)	2148.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	95.0	165.5	102.0	1507.5	232.0	58.0	74.5	100.5
Merged-chr6-38808449-3	chr6	38808350	38808550	+	722.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 2 of 14)	intron (NM_010433, intron 2 of 14)	28861.0	NM_001136065	15258.0	Mm.23790	NM_010433	ENSMUSG00000061436	Hipk2	1110014O20Rik|B230339E18Rik|Stank	homeodomain interacting protein kinase 2	protein-coding	8.0	9.0	6.0	175.5	5.5	4.0	9.0	13.0
Merged-chr6-124814166-4	chr6	124814063	124814263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001326594)	TTS (NM_001326594)	133.0	NM_009415	21991.0	Mm.4222	NM_009415	ENSMUSG00000023456	Tpi1	AI255506|TIM|Tpi|Tpi-1	triosephosphate isomerase 1	protein-coding	98.5	112.0	59.5	1182.5	169.0	92.5	116.0	83.0
Merged-chr9-55170940-4	chr9	55170860	55171060	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346658, intron 3 of 12)	intron (NM_001346658, intron 3 of 12)	20877.0	NM_001346658	109161.0	Mm.207894	NM_180600	ENSMUSG00000032307	Ube2q2	3010021M21Rik	ubiquitin-conjugating enzyme E2Q family member 2	protein-coding	28.0	32.5	24.0	324.5	26.0	13.5	12.5	20.0
Merged-chr5-36484467-4	chr5	36484350	36484550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170454)	promoter-TSS (NM_001170454)	-138.0	NM_025725	66717.0	Mm.42368	NM_025725	ENSMUSG00000050677	Ccdc96	4921513E08Rik	coiled-coil domain containing 96	protein-coding	265.0	421.5	323.5	3874.0	754.5	327.0	401.5	316.5
Merged-chr16-65549132-4	chr16	65549019	65549219	+	969.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026879, intron 2 of 5)	CYRA11_Mm|Unknown|Y-chromosome	13578.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	15.5	17.0	12.5	359.5	43.0	20.5	16.0	24.0
Merged-chr2-166077194-2	chr2	166077093	166077293	+	653.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252579, intron 18 of 20)	intron (NM_001252579, intron 18 of 20)	78092.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	5.5	7.5	5.5	32.0	5.5	8.0	3.5	6.0
Merged-chr10-120191373-1	chr10	120191273	120191473	+	731.25	f0_c57.idr	intron (NM_001359184, intron 1 of 11)	intron (NM_001359184, intron 1 of 11)	10224.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	0.0	6.5	1.0	15.0	34.0	9.5	20.0	17.0
Merged-chr4-134749459-4	chr4	134749378	134749578	+	800.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 6 of 8)	intron (NM_145554, intron 6 of 8)	18526.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	3.0	14.5	4.0	80.5	21.5	6.5	11.0	11.5
Merged-chr6-136813311-3	chr6	136813221	136813421	+	870.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021714)	TTS (NM_021714)	5073.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	21.0	45.0	36.5	417.0	12.5	4.0	1.0	3.5
Merged-chr10-30674928-4	chr10	30674804	30675004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 9 of 14)	intron (NM_001358842, intron 9 of 14)	-19037.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	88.0	98.5	105.5	1820.5	221.5	55.0	91.0	92.0
Merged-chr15-86202863-4	chr15	86202763	86202963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11596.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	126.5	137.0	161.5	2419.0	173.0	82.5	77.0	88.0
Merged-chr3-121766160-3	chr3	121766068	121766268	+	954.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008991, intron 20 of 22)	intron (NM_008991, intron 20 of 22)	42631.0	NM_010171	14066.0	Mm.273188	NM_010171	ENSMUSG00000028128	F3	AA409063|CD142|Cf-3|Cf3|TF	coagulation factor III	protein-coding	5.0	10.0	9.0	161.0	5.0	2.5	4.5	8.0
Merged-chr15-3293704-3	chr15	3293610	3293810	+	656.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166063, intron 4 of 8)	C-rich|Low_complexity|Low_complexity	9816.0	NM_001166063	100039139.0	Mm.455610	NM_001166063	ENSMUSG00000091119	Ccdc152	-	coiled-coil domain containing 152	protein-coding	13.5	3.5	6.5	114.5	14.5	7.5	7.5	8.5
Merged-chr4-55480658-1	chr4	55480558	55480758	+	667.0	f1_balb.idr	Intergenic	CpG	51817.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	2.0	5.5	2.0	47.5	9.5	4.5	9.0	5.5
Merged-chr11-20468841-4	chr11	20468721	20468921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-74432.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	59.5	110.0	78.0	1157.5	170.5	49.5	85.0	76.0
Merged-chr15-63494712-3	chr15	63494609	63494809	+	997.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15101.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	25.0	25.5	29.5	299.0	2.0	0.0	1.0	0.0
Merged-chr10-12735899-4	chr10	12735815	12736015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 11 of 73)	intron (NM_011682, intron 11 of 73)	125820.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	52.0	89.0	114.5	1326.0	171.5	49.5	94.0	83.5
Merged-chr10-8743058-4	chr10	8742961	8743161	+	928.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 12 of 19)	intron (NM_175155, intron 12 of 19)	143009.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	4.0	30.5	7.0	258.0	17.5	23.5	16.5	15.5
Merged-chr4-148041593-2	chr4	148041493	148041693	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001161798, exon 2 of 12)	exon (NM_001161798, exon 2 of 12)	404.0	NM_001161798	17769.0	Mm.89959	NM_010840	ENSMUSG00000029009	Mthfr	AI323986	methylenetetrahydrofolate reductase	protein-coding	9.0	13.0	11.5	56.5	22.0	4.5	6.0	16.0
Merged-chr14-61860866-4	chr14	61860761	61860961	+	854.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-178488.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	5.0	21.5	15.5	91.5	22.0	11.0	5.5	15.0
Merged-chr4-88868287-6	chr4	88868115	88868315	+	958.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	11986.0	NM_177348	230405.0	Mm.246593	NM_177348	ENSMUSG00000045364	Ifne	Ifn-tau-1|Ifne1|Ifnt1|Infe1	interferon epsilon	protein-coding	11.5	17.5	8.5	155.0	42.0	10.0	11.0	14.5
Merged-chr5-27195190-4	chr5	27195098	27195298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207282, intron 1 of 25)	intron (NM_207282, intron 1 of 25)	-66737.0	NM_001136060	13483.0	Mm.42078	NM_010075	ENSMUSG00000061576	Dpp6	B930011P16Rik|D5Buc3|D5Buc4|D5Buc5|DPP VI|Dpp-6|Gm1377|In(5)6H-p|Peplb|Rw	dipeptidylpeptidase 6	protein-coding	34.0	33.0	43.5	727.0	73.0	23.5	38.5	50.5
Merged-chr7-89441320-3	chr7	89441213	89441413	+	911.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15007.0	NR_102276	101521.0	Mm.26902	NR_102276	ENSMUSG00000109311	AI314278	-	expressed sequence AI314278	ncRNA	7.5	13.5	14.0	215.0	13.5	8.5	5.0	7.5
Merged-chr4-119733660-4	chr4	119733547	119733747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-74702.0	NM_008191	14916.0	Mm.278	NM_008191	ENSMUSG00000032978	Guca2b	AV066530|Gcap2|Ugn	guanylate cyclase activator 2b (retina)	protein-coding	219.0	268.5	184.0	2739.0	532.5	235.5	307.0	228.0
Merged-chr7-48775617-4	chr7	48775481	48775681	+	812.233337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13422.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	8.5	11.0	4.0	62.0	18.0	8.0	12.0	7.0
Merged-chr10-79417296-4	chr10	79417191	79417391	+	869.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-51667.0	NM_001104537	625029.0	Mm.469865	NM_001104537	ENSMUSG00000091381	Vmn2r83	EG625029	vomeronasal 2, receptor 83	protein-coding	23.0	17.0	26.5	265.5	12.0	7.5	14.0	17.0
Merged-chr7-140128048-4	chr7	140127962	140128162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153783, intron 3 of 6)	intron (NM_153783, intron 3 of 6)	2377.0	NM_153783	212503.0	Mm.486735	NM_153783	ENSMUSG00000025464	Paox	2410012F02Rik|AI118225|Pao	polyamine oxidase (exo-N4-amino)	protein-coding	44.5	46.0	56.0	916.0	62.0	25.0	35.0	34.0
Merged-chr3-59341810-4	chr3	59341697	59341897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162884, intron 1 of 6)	Lx8b|LINE|L1	2459.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	44.5	49.0	29.0	627.0	63.5	48.0	33.0	29.5
Merged-chr4-136511812-4	chr4	136511704	136511904	+	824.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024452, intron 1 of 4)	intron (NM_024452, intron 1 of 4)	42043.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	9.0	8.0	9.5	96.5	31.5	15.0	16.5	13.5
Merged-chr2-34965465-2	chr2	34965365	34965565	+	594.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3693.0	NM_001326601	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	7.5	8.0	2.0	58.0	6.0	5.5	5.5	5.0
Merged-chr10-81405682-4	chr10	81405573	81405773	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 7 of 8)	intron (NM_026756, intron 7 of 8)	-3902.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	25.0	25.0	22.0	294.5	52.5	15.0	35.5	18.0
Merged-chr11-21009242-3	chr11	21009133	21009333	+	853.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82091.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	6.0	5.5	1.0	50.0	12.0	11.5	10.5	6.5
Merged-chr10-10557495-4	chr10	10557381	10557581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026405, intron 1 of 2)	URR1B|DNA|hAT-Charlie	726.0	NM_026405	67844.0	Mm.31486	NM_026405	ENSMUSG00000019832	Rab32	2810011A17Rik|AU022057	RAB32, member RAS oncogene family	protein-coding	49.5	121.5	69.5	459.5	133.0	56.0	42.5	27.5
Merged-chr11-20638966-2	chr11	20638866	20639066	+	894.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001038625, intron 1 of 1)	intron (NM_001038625, intron 1 of 1)	6989.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	5.5	10.5	4.5	54.0	8.5	3.0	5.0	6.5
Merged-chr7-46788552-4	chr7	46788464	46788664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005247, intron 4 of 22)	intron (NM_001005247, intron 4 of 22)	7317.0	NM_001005248	246694.0	Mm.379442	NM_178742	ENSMUSG00000014418	Hps5	AI646796|AL022647|C85120|haze|hz|maroon|mr|ru-2|ru2	HPS5, biogenesis of lysosomal organelles complex 2 subunit 2	protein-coding	10.0	13.0	6.0	263.5	45.5	3.0	10.5	19.0
Merged-chr12-11178192-3	chr12	11177971	11178171	+	842.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26431.0	NR_131084	77442.0	Mm.159922	NR_131083	ENSMUSG00000112041	9530020I12Rik	-	RIKEN cDNA 9530020I12 gene	ncRNA	11.0	13.5	10.0	149.5	0.0	0.5	0.0	1.5
Merged-chr14-16373980-3	chr14	16373881	16374081	+	755.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009409, intron 1 of 35)	intron (NM_009409, intron 1 of 35)	8775.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	2.0	3.0	7.5	120.5	26.5	5.0	5.5	9.0
Merged-chr11-103360441-4	chr11	103360335	103360535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183288, exon 3 of 3)	exon (NM_183288, exon 3 of 3)	3257.0	NM_183288	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	34.5	56.5	25.0	464.5	88.0	46.0	62.0	39.5
Merged-chr18-23845309-2	chr18	23845209	23845409	+	658.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 3 of 7)	intron (NM_001162941, intron 3 of 7)	41339.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	4.5	3.5	2.0	105.5	17.0	6.5	6.0	6.5
Merged-chr17-23603722-1	chr17	23603622	23603822	+	579.0	f1_c57bl6.idr	intron (NM_001033425, intron 1 of 5)	intron (NM_001033425, intron 1 of 5)	2896.0	NM_001289482	332221.0	Mm.270315	NM_001033425	ENSMUSG00000023902	Zscan10	BC068284|Zfp206|Zkscan10|Znf206	zinc finger and SCAN domain containing 10	protein-coding	14.0	11.0	7.0	43.5	10.0	4.0	6.5	2.0
Merged-chr5-3420328-4	chr5	3420210	3420410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 3 of 7)	intron (NM_009873, intron 3 of 7)	76417.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	34.0	49.0	44.5	662.5	98.0	32.5	60.5	57.0
Merged-chr2-84800518-4	chr2	84800427	84800627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019949, intron 1 of 3)	intron (NM_019949, intron 1 of 3)	1699.0	NM_019949	56791.0	Mm.38261	NM_019949	ENSMUSG00000027078	Ube2l6	2810489I21Rik|RIG-B|UBCH8|Ubce8|Ubcm8	ubiquitin-conjugating enzyme E2L 6	protein-coding	31.0	103.0	25.5	514.5	161.5	60.5	38.5	35.0
Merged-chr6-117816432-4	chr6	117816311	117816511	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24770.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	30.5	28.5	46.0	809.0	27.5	15.0	23.0	27.0
Merged-chr1-71729137-3	chr1	71729026	71729226	+	737.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75791.0	NR_040308	100042814.0	Mm.405775	NR_040308	ENSMUSG00000073652	Apol7d	Gm15456	apolipoprotein L 7d	ncRNA	11.5	3.0	12.0	217.5	14.0	7.5	12.0	7.0
Merged-chr8-25597580-4	chr8	25597487	25597687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173012)	promoter-TSS (NM_173012)	-100.0	NM_173012	270035.0	Mm.268349	NM_173012	ENSMUSG00000037363	Letm2	6030453H13|D030041N04Rik	leucine zipper-EF-hand containing transmembrane protein 2	protein-coding	100.0	154.0	93.5	1590.0	345.0	114.5	158.0	122.0
Merged-chr18-42510169-3	chr18	42510071	42510271	+	978.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-1316.0	NM_001039474	56070.0	Mm.270511	NM_001039474	ENSMUSG00000024498	Tcerg1	2410022J09Rik|2900090C16Rik|AI428505|CA150b|FBP23|FBP28|Taf2s|ca150|p144	transcription elongation regulator 1 (CA150)	protein-coding	14.5	7.5	14.5	293.5	13.5	4.0	4.0	5.0
Merged-chr16-70386369-4	chr16	70386296	70386496	+	984.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 2 of 15)	MLTR14|LTR|ERV1	72447.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	13.5	6.0	14.0	174.0	55.5	21.5	21.0	27.0
Merged-chr13-23756985-4	chr13	23756917	23757117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178193)	promoter-TSS (NM_178193)	80.0	NM_178193	326620.0	Mm.261642	NM_178193	ENSMUSG00000069266	Hist1h4b	-	histone cluster 1, H4b	protein-coding	56.5	104.0	98.5	1220.5	167.0	59.5	74.0	67.0
Merged-chr5-138207426-3	chr5	138207325	138207525	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13111.0	NM_177878	330216.0	Mm.19719	NM_177878	ENSMUSG00000049285	Mblac1	-	metallo-beta-lactamase domain containing 1	protein-coding	106.5	130.5	92.5	1638.0	4.0	1.0	0.0	2.0
Merged-chr7-4149934-4	chr7	4149843	4150043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175529)	promoter-TSS (NM_175529)	-71.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	127.5	151.5	89.5	1499.0	272.5	132.5	123.0	122.5
Merged-chr14-73441353-4	chr14	73441258	73441458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56069.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	56.0	35.5	55.0	750.0	69.0	26.0	41.0	40.0
Merged-chr9-86592858-4	chr9	86592766	86592966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008615, intron 12 of 13)	intron (NM_008615, intron 12 of 13)	20813.0	NM_027100	69519.0	Mm.272517	NM_027100	ENSMUSG00000032417	Rwdd2a	1700030C20Rik|AI848608|Rwdd2	RWD domain containing 2A	protein-coding	70.5	88.5	56.5	1320.0	123.5	26.0	52.0	40.0
Merged-chr1-171238667-3	chr1	171238571	171238771	+	876.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153064, intron 5 of 12)	intron (NM_153064, intron 5 of 12)	-4322.0	NM_010185	14127.0	Mm.22673	NM_010185	ENSMUSG00000058715	Fcer1g	AI573376|CD23|FcR-gamma|FcR[g]|FcRgamma|Fce1g|FcepsilonRI|Ly-50	Fc receptor, IgE, high affinity I, gamma polypeptide	protein-coding	10.5	8.0	7.0	61.5	33.0	9.0	8.0	5.0
Merged-chr5-45474407-4	chr5	45474306	45474506	+	811.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18968.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	13.0	14.5	5.0	185.0	25.0	10.0	14.0	7.0
Merged-chr17-64941761-4	chr17	64941672	64941872	+	969.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-105701.0	NM_030031	78057.0	Mm.109380	NM_030031	ENSMUSG00000024088	4930583I09Rik	-	RIKEN cDNA 4930583I09 gene	protein-coding	47.5	51.5	37.0	661.5	56.0	13.0	29.5	18.0
Merged-chr3-16004517-3	chr3	16004414	16004614	+	741.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081687, intron 1 of 3)	RLTR23|LTR|ERV1	1818.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	5.0	14.0	10.0	116.0	9.5	3.5	4.0	6.5
Merged-chr19-47731633-4	chr19	47731530	47731730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026377)	promoter-TSS (NM_026377)	-126.0	NM_026377	67788.0	Mm.181610	NM_026377	ENSMUSG00000025066	Sfr1	6330577E15Rik|Meir5	SWI5 dependent recombination repair 1	protein-coding	206.5	346.0	172.5	2852.5	464.5	190.0	304.0	158.5
Merged-chr10-99179772-4	chr10	99179641	99179841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	71606.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	111.5	183.5	192.5	2457.5	282.5	93.5	182.5	130.0
Merged-chr2-59954900-3	chr2	59954787	59954987	+	776.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 12 of 35)	intron (NM_001001182, intron 12 of 35)	-72281.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	7.5	5.5	16.0	170.5	5.5	0.5	1.0	5.5
Merged-chr11-98773022-4	chr11	98772938	98773138	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145434, intron 1 of 7)	intron (NM_145434, intron 1 of 7)	2339.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	15.0	21.0	4.0	116.0	52.0	12.5	5.5	5.0
Merged-chr4-95385871-2	chr4	95385771	95385971	+	564.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-171636.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	7.5	4.0	5.5	86.0	7.0	6.5	6.5	7.5
Merged-chr13-58288024-4	chr13	58287931	58288131	+	990.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360894, exon 15 of 15)	exon (NM_001360894, exon 15 of 15)	-13843.0	NM_019832	56278.0	Mm.296625	NM_019832	ENSMUSG00000021552	Gkap1	42kDa|4933400B15Rik|D13Ertd340e|Gkap42	G kinase anchoring protein 1	protein-coding	15.5	34.5	13.0	253.5	37.0	17.5	28.0	27.0
Merged-chr7-55920879-4	chr7	55920745	55920945	+	765.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 24 of 30)	MTC|LTR|ERVL-MaLR	41648.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	8.5	6.0	5.5	81.5	25.5	9.0	12.5	6.0
Merged-chr12-3745941-3	chr12	3745826	3746026	+	965.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-61054.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	11.5	25.0	15.0	207.5	58.5	7.0	6.0	6.0
Merged-chr11-72461796-4	chr11	72461679	72461879	+	922.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153060, intron 3 of 12)	L1ME3Cz|LINE|L1	13248.0	NM_001276383	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	22.5	11.0	10.5	79.5	34.5	9.0	5.5	9.5
Merged-chr17-81551986-4	chr17	81551861	81552061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	186426.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	27.0	54.0	26.5	719.0	76.0	21.5	31.5	17.0
Merged-chr3-89909228-4	chr3	89909148	89909348	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	3948.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	57.5	56.5	35.0	546.5	39.0	22.0	19.0	17.0
Merged-chr5-136583857-4	chr5	136583751	136583951	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16361.0	NM_001291238	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	9.0	27.5	1.0	144.0	58.0	19.0	9.0	16.0
Merged-chr2-152847924-4	chr2	152847818	152848018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141976)	promoter-TSS (NM_001141976)	-46.0	NM_001141975	72119.0	Mm.407737	NM_028109	ENSMUSG00000027469	Tpx2	2610005B21Rik|DIL2|REPP86|p100	TPX2, microtubule-associated	protein-coding	157.0	229.5	91.0	1844.5	276.0	109.0	144.0	117.5
Merged-chr11-116071607-4	chr11	116071516	116071716	+	940.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009573, intron 13 of 32)	intron (NM_001009573, intron 13 of 32)	6345.0	NM_001009573	70450.0	Mm.259460	NM_001009573	ENSMUSG00000057948	Unc13d	2610108D09Rik|Jinx|Munc13-4|mFLJ00067	unc-13 homolog D (C. elegans)	protein-coding	8.0	24.0	5.0	109.5	38.5	16.0	14.5	21.0
Merged-chr2-32857815-4	chr2	32857728	32857928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10591.0	NM_001113569	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	37.0	47.5	22.0	381.5	48.5	35.0	22.5	24.5
Merged-chr17-24037468-4	chr17	24037356	24037556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175440)	promoter-TSS (NM_175440)	-787.0	NM_175440	213171.0	Mm.133083	NM_175440	ENSMUSG00000050762	Prss27	CAPH2|Mpn|marapsin	protease, serine 27	protein-coding	26.5	60.5	20.0	509.0	60.0	15.5	27.0	38.0
Merged-chr15-80043472-1	chr15	80043372	80043572	+	658.666687	f0_balb.idr	Intergenic	Intergenic	-28664.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	7.5	17.0	17.0	82.0	12.5	3.0	2.0	5.5
Merged-chr11-114723341-4	chr11	114723242	114723442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4070.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	55.0	113.5	45.0	468.0	71.5	39.5	35.0	27.0
Merged-chr2-71211737-4	chr2	71211669	71211869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198878)	promoter-TSS (NM_001198878)	63.0	NM_001198876	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	65.0	84.5	95.0	1031.5	116.0	51.0	63.0	55.5
Merged-chr5-110841209-3	chr5	110841105	110841305	+	826.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016681, intron 1 of 14)	intron (NM_016681, intron 1 of 14)	1188.0	NM_016681	50883.0	Mm.279308	NM_016681	ENSMUSG00000029521	Chek2	CHK2|Cds1|HUCDS1|Rad53	checkpoint kinase 2	protein-coding	7.5	11.0	6.0	157.5	10.5	1.5	2.5	2.5
Merged-chr9-65693191-3	chr9	65693110	65693310	+	838.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172536, exon 10 of 10)	3' UTR (NM_172536, exon 10 of 10)	16662.0	NM_001301307	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	12.0	3.5	10.0	64.5	12.0	8.5	5.0	6.5
Merged-chr2-27071358-4	chr2	27071268	27071468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025376, intron 1 of 4)	intron (NM_025376, intron 1 of 4)	793.0	NM_025376	66139.0	Mm.330087	NM_025376	ENSMUSG00000009214	Mymk	1110002H13Rik|AI131587|Tmem8c|myomaker	myomaker, myoblast fusion factor	protein-coding	38.0	36.0	41.5	655.0	88.5	24.0	52.0	33.0
Merged-chr2-129594381-1	chr2	129594281	129594481	+	1000.0	f0_balb.idr	intron (NM_001291022, intron 1 of 4)	intron (NM_001291022, intron 1 of 4)	-1081.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	9.5	12.0	12.5	191.5	34.5	11.5	16.5	15.5
Merged-chr10-8519042-4	chr10	8518947	8519147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177387)	promoter-TSS (NM_177387)	-222.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	68.5	86.5	74.0	1165.0	143.0	80.5	74.0	102.5
Merged-chr7-64141511-4	chr7	64141399	64141599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12336.0	NM_001039104	17364.0	Mm.38875	NM_018752	ENSMUSG00000030523	Trpm1	4732499L03Rik|AI606771|Ltrpc1|Mlsn1	transient receptor potential cation channel, subfamily M, member 1	protein-coding	110.5	150.0	138.5	1394.5	253.0	88.5	83.0	107.5
Merged-chr5-24101062-4	chr5	24100984	24101184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161800, intron 1 of 9)	CpG	494.0	NM_001161800	52323.0	Mm.273768	NM_026448	ENSMUSG00000028986	Klhl7	2700038B03Rik|D5Ertd363e|SBBI26	kelch-like 7	protein-coding	23.5	26.5	28.0	308.5	52.5	28.5	21.5	18.5
Merged-chr19-7341313-2	chr19	7341213	7341413	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007928, exon 1 of 18)	5' UTR (NM_007928, exon 1 of 18)	547.0	NM_001080389	13728.0	Mm.258986	NM_007928	ENSMUSG00000024969	Mark2	EMK-1|Emk|Par-1|Par-1b	MAP/microtubule affinity regulating kinase 2	protein-coding	13.0	22.0	24.5	155.0	55.0	20.5	40.5	26.5
Merged-chr10-99460965-4	chr10	99460873	99461073	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148198.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	37.0	36.5	26.0	675.0	62.0	23.0	19.5	21.5
Merged-chr4-55508894-2	chr4	55508791	55508991	+	980.166626	f0_balb.idr|f1_balb.idr	Intergenic	MTEb|LTR|ERVL-MaLR	23584.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	19.0	38.5	18.0	312.0	22.0	3.5	9.0	5.0
Merged-chr15-100449724-5	chr15	100449685	100449885	+	787.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19226.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	7.5	9.5	8.0	80.5	17.5	8.5	4.0	5.5
Merged-chr17-46546356-4	chr17	46546255	46546455	+	902.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081335)	promoter-TSS (NM_001081335)	33.0	NM_001081335	78309.0	Mm.329076	NM_001081335	ENSMUSG00000040327	Cul9	1810035I07Rik|Cul-9|Parc|mKIAA0708	cullin 9	protein-coding	17.5	13.0	8.5	284.0	35.0	16.5	15.0	18.5
Merged-chr10-7937800-1	chr10	7937700	7937900	+	756.0	f0_balb.idr	intron (NM_138667, intron 1 of 6)	intron (NM_138667, intron 1 of 6)	15265.0	NM_001359534	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	11.5	6.5	14.0	158.5	16.5	3.5	6.5	1.5
Merged-chr1-138541719-4	chr1	138541605	138541805	+	918.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 3 of 9)	intron (NM_021605, intron 3 of 9)	78052.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	10.0	22.0	11.0	344.0	37.5	12.0	13.5	15.5
Merged-chr2-10351330-3	chr2	10351248	10351448	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19103.0	NM_001198808	353282.0	Mm.329991	NM_177386	ENSMUSG00000061186	Sfmbt2	D2Wsu23e|D330030P06Rik	Scm-like with four mbt domains 2	protein-coding	5.0	8.0	8.5	99.5	2.0	5.0	4.0	1.5
Merged-chr4_GL456216_random-17295-1	chr4_GL456216_random	17195	17395	+	1000.0	f0_c57.idr	intron (NM_001033326, intron 1 of 6)	intron (NM_001033326, intron 1 of 6)	1414.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	679.5	244.0	315.0	236.5
Merged-chr12-80071043-4	chr12	80070944	80071144	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41969.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	9.0	17.5	3.0	69.5	62.0	23.5	17.5	10.0
Merged-chr3-157535108-4	chr3	157534990	157535190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152231)	promoter-TSS (NR_152231)	925.0	NM_001355386	53861.0	Mm.259036	NM_017381	ENSMUSG00000028180	Zranb2	AI227013|Zfp265|Zis|Znf265	zinc finger, RAN-binding domain containing 2	protein-coding	19.5	19.5	29.5	294.5	51.0	16.5	38.5	25.5
Merged-chr11-114891340-4	chr11	114891246	114891446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170758, intron 1 of 6)	Lx8|LINE|L1	1305.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	23.5	41.5	22.0	512.0	78.5	26.5	39.5	46.0
Merged-chr15-88505266-3	chr15	88505162	88505362	+	938.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95040.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	2.5	2.5	0.5	64.0	29.0	11.5	13.5	9.0
Merged-chr11-102285540-2	chr11	102285440	102285640	+	981.25	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001302505, exon 1 of 3)	5' UTR (NM_001302505, exon 1 of 3)	601.0	NM_001302505	72053.0	Mm.101274	NM_028076	ENSMUSG00000034757	Tmub2	2010008E23Rik	transmembrane and ubiquitin-like domain containing 2	protein-coding	1.0	1.5	2.5	27.0	8.5	6.5	9.5	8.5
Merged-chr14-87190879-4	chr14	87190789	87190989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49665.0	NM_019670	56419.0	Mm.440585	NM_019670	ENSMUSG00000022021	Diaph3	4930417P13Rik|Dia2|Diap3|Drf3|p134MDia2	diaphanous related formin 3	protein-coding	38.5	30.0	39.5	738.5	182.0	61.0	93.0	60.5
Merged-chr7-92740696-4	chr7	92740598	92740798	+	777.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015510)	TTS (NR_015510)	761.0	NR_015510	666737.0	Mm.473620	NR_015510	ENSMUSG00000074024	4632427E13Rik	AU015482	RIKEN cDNA 4632427E13 gene	ncRNA	14.0	25.0	7.0	104.5	20.0	8.5	12.5	16.0
Merged-chr2-167744129-4	chr2	167744023	167744223	+	990.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52946.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	31.0	102.5	62.5	274.0	134.5	57.0	27.5	20.5
Merged-chr7-101616660-4	chr7	101616565	101616765	+	918.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-35504.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	16.0	16.5	27.0	248.0	65.5	5.0	26.0	6.0
Merged-chr13-24802543-4	chr13	24802472	24802672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024473, exon 1 of 5)	5' UTR (NM_024473, exon 1 of 5)	915.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	37.5	62.5	44.5	928.0	138.0	35.5	44.5	46.5
Merged-chr14-10430093-4	chr14	10430001	10430201	+	966.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	intron (NM_001360141, intron 4 of 9)	23357.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	12.0	26.0	23.0	340.0	59.5	15.5	29.5	25.0
Merged-chr1-9799143-4	chr1	9799061	9799261	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177547, intron 1 of 16)	intron (NM_177547, intron 1 of 16)	1031.0	NM_177547	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	13.0	23.0	10.5	182.0	30.0	8.5	15.5	22.0
Merged-chr5-140510775-3	chr5	140510674	140510874	+	605.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021528, intron 1 of 1)	intron (NM_021528, intron 1 of 1)	5165.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	5.5	9.0	5.0	104.5	24.0	5.5	3.0	7.0
Merged-chr3-103791359-4	chr3	103791260	103791460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301306)	promoter-TSS (NM_001301306)	-85.0	NM_010432	15257.0	Mm.20827	NM_010432	ENSMUSG00000008730	Hipk1	1110062K04Rik|Myak	homeodomain interacting protein kinase 1	protein-coding	116.5	168.0	94.0	1716.5	251.0	108.5	90.0	82.5
Merged-chr13-70638167-4	chr13	70638090	70638290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144837)	promoter-TSS (NM_144837)	-556.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	143.0	159.0	142.5	2239.0	325.5	109.5	177.5	178.5
Merged-chr4-152087903-4	chr4	152087767	152087967	+	899.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104381, intron 2 of 21)	intron (NR_104381, intron 2 of 21)	1004.0	NR_104381	269608.0	Mm.332102	NM_001004156	ENSMUSG00000039713	Plekhg5	BC023181|Syx	pleckstrin homology domain containing, family G (with RhoGef domain) member 5	protein-coding	15.0	19.0	9.0	187.0	27.5	4.0	7.5	10.5
Merged-chr7-105762242-4	chr7	105762179	105762379	+	883.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001162943, exon 10 of 21)	exon (NM_001162943, exon 10 of 21)	-10044.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	5.5	10.5	8.0	188.5	15.0	6.0	12.0	6.0
Merged-chr15-78571633-4	chr15	78571517	78571717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009008, intron 1 of 6)	intron (NM_009008, intron 1 of 6)	1166.0	NM_009008	19354.0	Mm.1972	NM_009008	ENSMUSG00000033220	Rac2	AI323801|AI452260	Rac family small GTPase 2	protein-coding	36.0	65.0	31.5	397.5	82.5	33.0	39.5	37.0
Merged-chr14-103102729-6	chr14	103102671	103102871	+	851.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3205.0	NM_001360342	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	8.0	7.0	8.0	128.0	12.0	1.0	5.5	4.0
Merged-chr12-40037484-4	chr12	40037399	40037599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007487)	promoter-TSS (NM_007487)	-123.0	NM_007487	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	266.5	331.0	218.5	4295.5	581.0	235.0	378.5	237.5
Merged-chr3-105686538-1	chr3	105686438	105686638	+	955.0	f1_c57bl6.idr	intron (NM_017397, intron 2 of 10)	intron (NM_017397, intron 2 of 10)	1033.0	NM_017397	53975.0	Mm.272826	NM_017397	ENSMUSG00000027905	Ddx20	GEMIN3|dp103	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	protein-coding	6.0	10.0	5.0	24.0	8.0	8.5	4.5	2.5
Merged-chr4-40774458-4	chr4	40774328	40774528	+	834.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID2|SINE|ID	-16543.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	5.0	12.5	7.5	53.0	15.5	10.0	12.0	12.0
Merged-chr19-12010111-2	chr19	12009998	12010198	+	823.833374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	26642.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	8.5	20.0	11.0	109.5	25.0	13.0	11.5	20.5
Merged-chr2-164913664-4	chr2	164913567	164913767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1917.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	49.0	57.0	24.0	735.5	103.5	26.5	62.0	45.0
Merged-chr6-136964796-4	chr6	136964626	136964826	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10203.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	6.5	9.5	3.5	132.5	47.5	8.5	10.0	7.0
Merged-chr9-90226574-4	chr9	90226469	90226669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 5 of 12)	intron (NM_194334, intron 5 of 12)	44200.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	61.0	72.0	77.0	1164.5	141.0	57.0	66.0	58.0
Merged-chr7-98805572-4	chr7	98805470	98805670	+	992.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-29542.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	25.5	26.0	15.0	249.5	85.5	26.0	19.0	23.0
Merged-chr17-27754263-3	chr17	27754159	27754359	+	807.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271511, intron 3 of 3)	intron (NM_001271511, intron 3 of 3)	-23256.0	NM_001357728	30051.0	Mm.26768	NM_013891	ENSMUSG00000024215	Spdef	PDEF|Pse	SAM pointed domain containing ets transcription factor	protein-coding	5.5	8.5	7.5	189.5	12.0	3.5	1.0	6.5
Merged-chr7-104258902-1	chr7	104258802	104259002	+	910.6666869999999	f0_c57.idr	intron (NM_030684, intron 4 of 7)	(TTC)n|Simple_repeat|Simple_repeat	14445.0	NM_030684	94094.0	Mm.326945	NM_030684	ENSMUSG00000056144	Trim34a	Trim34|Trim34-1	tripartite motif-containing 34A	protein-coding	0.0	1.0	0.0	9.5	46.0	7.0	16.5	17.5
Merged-chr12-52541492-3	chr12	52541384	52541584	+	866.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009706, intron 1 of 5)	intron (NM_009706, intron 1 of 5)	25407.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	6.0	8.5	4.0	207.0	50.0	5.5	10.5	10.0
Merged-chr7-126630134-4	chr7	126630013	126630213	+	828.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4643.0	NM_019738	56312.0	Mm.18742	NM_019738	ENSMUSG00000030717	Nupr1	2310032H04Rik|Com1|p8	nuclear protein transcription regulator 1	protein-coding	4.0	7.0	8.5	107.5	24.0	8.0	19.5	13.0
Merged-chr7-34196264-1	chr7	34196164	34196364	+	1000.0	f0_balb.idr	intron (NM_026549, intron 2 of 6)	CpG	406.0	NM_026549	68079.0	Mm.38173	NM_026549	ENSMUSG00000002635	Pdcd2l	6030457N17Rik	programmed cell death 2-like	protein-coding	32.0	39.0	53.5	611.0	56.5	15.5	28.0	40.5
Merged-chr2-118900082-3	chr2	118899992	118900192	+	849.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1523.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	10.0	8.5	13.5	60.5	22.0	5.0	5.0	12.0
Merged-chr9-24516981-3	chr9	24516871	24517071	+	949.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13831.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	12.5	15.0	13.5	230.0	15.5	9.5	19.5	10.0
Merged-chr2-26561837-4	chr2	26561748	26561948	+	873.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19208.0	NM_178444	353156.0	Mm.268933	NM_178444	ENSMUSG00000026921	Egfl7	VE-statin|Zneu1	EGF-like domain 7	protein-coding	15.0	19.5	5.0	135.0	26.0	15.5	11.0	9.5
Merged-chr15-98762275-4	chr15	98762189	98762389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007478, intron 1 of 4)	intron (NM_007478, intron 1 of 4)	703.0	NM_001355510	11842.0	Mm.221298	NM_007478	ENSMUSG00000051853	Arf3	5430400P17Rik|AI854770	ADP-ribosylation factor 3	protein-coding	41.0	54.5	33.0	500.0	132.5	34.0	55.0	45.0
Merged-chr11-63060117-4	chr11	63060013	63060213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1546.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	34.0	71.5	45.5	479.5	112.5	27.0	26.0	29.0
Merged-chr10-51481597-4	chr10	51481508	51481708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001291893, exon 3 of 8)	exon (NM_001291893, exon 3 of 8)	996.0	NM_001291892	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	19.5	83.0	43.5	366.0	91.0	37.5	33.5	32.5
Merged-chr5-54053645-5	chr5	54053593	54053793	+	997.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 2 of 11)	intron (NM_001081103, intron 2 of 11)	55170.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	8.0	13.5	14.0	182.5	30.5	11.0	16.5	8.0
Merged-chr17-69397357-4	chr17	69397259	69397459	+	918.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13555.0	NM_009547	22666.0	Mm.29434	NM_009547	ENSMUSG00000049672	Zbtb14	ZF5|Zfp161|b2b1982Clo	zinc finger and BTB domain containing 14	protein-coding	18.5	15.0	10.0	263.5	44.5	11.5	13.5	11.0
Merged-chr17-35045317-4	chr17	35045212	35045412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146215, exon 4 of 25)	exon (NM_001146215, exon 4 of 25)	1310.0	NM_013600	17687.0	Mm.24192	NM_013600	ENSMUSG00000007035	Msh5	Mut5	mutS homolog 5	protein-coding	20.5	35.0	23.0	254.5	34.0	19.5	8.5	33.0
Merged-chr5-107687969-4	chr5	107687887	107688087	+	938.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	15493.0	NR_045871	654809.0	Mm.399159	NR_045871	ENSMUSG00000106333	4930428O21Rik	-	RIKEN cDNA 4930428O21 gene	ncRNA	21.0	22.5	12.0	226.0	54.5	8.0	17.0	12.0
Merged-chr4-133204615-3	chr4	133204477	133204677	+	912.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7959.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	7.0	10.0	9.0	81.0	10.0	5.5	1.0	7.0
Merged-chr9-3403846-7	chr9	3403758	3403958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027545)	promoter-TSS (NM_027545)	-227.0	NM_027545	244672.0	Mm.245482	NM_027545	ENSMUSG00000025898	Cwf19l2	3230401L03Rik|9030209E10	CWF19-like 2, cell cycle control (S. pombe)	protein-coding	71.5	101.0	82.0	1050.0	126.0	58.0	58.5	63.0
Merged-chr13-23730639-3	chr13	23730529	23730729	+	843.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8178.0	NM_015786	50708.0	Mm.193539	NM_015786	ENSMUSG00000036181	Hist1h1c	0610008C09Rik|H1.2|H1c|H1f2|H1var1|His1a	histone cluster 1, H1c	protein-coding	8.0	3.5	6.0	33.0	54.0	34.5	18.5	24.0
Merged-chr5-23410306-4	chr5	23410130	23410330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24123.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	45.0	54.0	38.0	642.5	54.5	23.0	40.0	28.5
Merged-chr10-18188739-4	chr10	18188626	18188826	+	858.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195036, intron 3 of 20)	L1MC5|LINE|L1	22164.0	NM_001195036	100045792.0	Mm.380617	NM_001195036	ENSMUSG00000071392	Ect2l	C330021H03Rik|Gm10331	epithelial cell transforming sequence 2 oncogene-like	protein-coding	9.5	8.5	12.0	197.5	25.5	6.0	17.5	16.5
Merged-chr2-94178934-4	chr2	94178835	94179035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21026.0	NM_019657	56348.0	Mm.22505	NM_019657	ENSMUSG00000027195	Hsd17b12	2610510O05Rik|AI172963|KIK-I|Kik1	hydroxysteroid (17-beta) dehydrogenase 12	protein-coding	22.0	43.5	29.5	507.5	109.0	22.5	78.5	29.5
Merged-chr15-75909554-9	chr15	75909523	75909723	+	945.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285430)	promoter-TSS (NM_001285430)	-67.0	NM_001285429	66656.0	Mm.258927	NM_023240	ENSMUSG00000055762	Eef1d	EF-1-delta	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)	protein-coding	95.5	125.5	60.0	963.5	298.5	106.0	138.5	107.5
Merged-chr7-31041811-4	chr7	31041691	31041891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111073)	promoter-TSS (NM_001111073)	48.0	NM_001111073	18301.0	Mm.1870	NM_008761	ENSMUSG00000009687	Fxyd5	EF-8|Oit2|RIC	FXYD domain-containing ion transport regulator 5	protein-coding	45.0	60.5	34.0	814.0	98.5	41.0	60.5	46.5
Merged-chr13-110600198-4	chr13	110600087	110600287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	205143.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	61.5	79.5	45.0	943.0	134.5	46.5	60.5	45.5
Merged-chr1-92755419-4	chr1	92755307	92755507	+	944.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76238.0	NM_016696	14733.0	Mm.297976	NM_016696	ENSMUSG00000034220	Gpc1	AI462976	glypican 1	protein-coding	18.0	16.0	45.5	477.0	31.0	2.0	16.5	8.5
Merged-chr10-94913564-4	chr10	94913485	94913685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 2 of 30)	intron (NM_018797, intron 2 of 30)	30993.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	41.5	60.5	44.5	876.0	96.5	28.0	51.0	62.5
Merged-chr11-80476771-4	chr11	80476694	80476894	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009871)	promoter-TSS (NM_009871)	-229.0	NM_009871	12569.0	Mm.142275	NM_009871	ENSMUSG00000048895	Cdk5r1	Cdk5r|D11Bwg0379e|p25|p35	cyclin-dependent kinase 5, regulatory subunit 1 (p35)	protein-coding	47.0	66.5	40.0	572.0	91.5	40.0	36.0	23.0
Merged-chr13-33072259-3	chr13	33072156	33072356	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11847.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	5.5	10.0	5.5	86.0	12.5	5.5	5.5	10.5
Merged-chr2-71103486-3	chr2	71103384	71103584	+	883.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14570.0	NM_028593	73649.0	Mm.45435	NM_028593	ENSMUSG00000027015	Cybrd1	2210407P13Rik|Dcytb	cytochrome b reductase 1	protein-coding	15.5	11.5	18.5	230.0	17.0	8.5	2.0	9.0
Merged-chr6-129230407-4	chr6	129230311	129230511	+	990.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7634.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	42.5	103.0	38.0	390.0	168.5	43.5	21.5	13.5
Merged-chr4-119883060-4	chr4	119882963	119883163	+	802.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	68385.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	21.5	10.0	22.5	223.0	27.5	4.5	10.5	11.0
Merged-chr4-138083302-4	chr4	138083196	138083396	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355700, intron 2 of 30)	intron (NM_001355700, intron 2 of 30)	55222.0	NR_126429	73563.0	Mm.444294	NR_126429	ENSMUSG00000084804	1700095J12Rik	-	RIKEN cDNA 1700095J12 gene	ncRNA	14.5	18.0	19.0	261.5	56.0	24.5	19.5	24.0
Merged-chr16-33933474-4	chr16	33933366	33933566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	33572.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	57.0	55.0	54.5	966.0	74.5	33.5	52.5	29.5
Merged-chr9-21029591-4	chr9	21029490	21029690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010493)	TTS (NM_010493)	217.0	NM_023892	78369.0	Mm.30220	NM_023892	ENSMUSG00000001014	Icam4	1810015M19Rik|Cd242|ICAM-4	intercellular adhesion molecule 4, Landsteiner-Wiener blood group	protein-coding	39.0	64.0	25.0	414.0	57.5	29.0	27.0	24.0
Merged-chr9-41191291-4	chr9	41191188	41191388	+	886.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14867.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	5.0	20.0	6.5	98.5	30.0	14.5	12.0	17.5
Merged-chr4-41741400-4	chr4	41741298	41741498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286551)	promoter-TSS (NM_001286551)	-39.0	NM_001286551	18391.0	Mm.425181	NM_011014	ENSMUSG00000036078	Sigmar1	Oprs1|Sig1R|sigma1R	sigma non-opioid intracellular receptor 1	protein-coding	68.0	92.5	63.5	1192.0	179.0	55.0	110.0	83.5
Merged-chr2-69897211-4	chr2	69897113	69897313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303033)	promoter-TSS (NM_001303033)	-33.0	NM_001303033	68795.0	Mm.314576	NM_177783	ENSMUSG00000044308	Ubr3	1110059H15Rik|4833421P10Rik|A130030D10Rik|AA409735|AA414972|AA422631|AI646861|AU016126|Zfp650|Znf650	ubiquitin protein ligase E3 component n-recognin 3	protein-coding	165.0	309.0	180.5	2382.0	467.0	157.0	247.5	144.5
Merged-chr1-179842769-4	chr1	179842657	179842857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38742.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	132.0	159.5	145.0	1984.5	255.5	90.0	101.0	105.5
Merged-chr11-74994308-4	chr11	74994211	74994411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002764, intron 10 of 18)	intron (NM_001002764, intron 10 of 18)	68439.0	NM_001002764	103677.0	Mm.288460	NM_001002764	ENSMUSG00000038290	Smg6	AI317223|AU041178	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	42.0	57.5	48.5	546.0	96.0	37.5	35.5	49.0
Merged-chr13-54215989-3	chr13	54215883	54216083	+	997.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 2 of 3)	intron (NR_153432, intron 2 of 3)	23850.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	2.0	2.5	1.5	5.0	211.0	55.5	95.5	97.5
Merged-chr5-99257895-2	chr5	99257766	99257966	+	707.700012	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4939.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	6.5	6.0	5.5	37.5	12.5	3.5	3.5	4.5
Merged-chr2-102999003-4	chr2	102998905	102999105	+	919.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74508.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	28.0	79.5	15.0	86.5	36.5	22.5	15.0	12.0
Merged-chr6-54022558-4	chr6	54022448	54022648	+	861.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17384.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	6.5	12.0	8.0	110.0	53.5	13.0	29.0	23.0
Merged-chr15-100084142-4	chr15	100084031	100084231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 3 of 3)	intron (NR_037311, intron 3 of 3)	45467.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	76.5	95.5	70.5	1320.0	137.0	32.5	70.5	63.5
Merged-chr13-30645816-4	chr13	30645736	30645936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-14223.0	NM_001037955	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	36.0	22.0	41.5	593.5	43.5	23.0	33.5	23.0
Merged-chr3-110250181-4	chr3	110250112	110250312	+	980.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024139, exon 1 of 2)	non-coding (NR_024139, exon 1 of 2)	787.0	NM_178891	99890.0	Mm.36115	NM_178891	ENSMUSG00000049300	Prmt6	AW124876|BB233495|Hrmt1l6	protein arginine N-methyltransferase 6	protein-coding	17.5	29.0	43.0	572.0	41.0	14.0	30.5	30.0
Merged-chr9-90055436-6	chr9	90055246	90055446	+	926.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 1 of 10)	AT_rich|Low_complexity|Low_complexity	1079.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	8.5	12.0	14.5	65.5	21.5	15.5	6.0	6.0
Merged-chr11-117138449-6	chr11	117138388	117138588	+	864.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166507, intron 2 of 16)	intron (NM_001166507, intron 2 of 16)	23316.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	14.5	13.5	10.0	272.0	34.0	10.0	13.5	17.5
Merged-chr7-43532492-4	chr7	43532301	43532501	+	815.614563	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111058, intron 2 of 6)	intron (NM_001111058, intron 2 of 6)	770.0	NM_001111058	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	2.0	6.5	3.0	67.0	13.0	6.0	5.5	6.5
Merged-chr1-106695953-4	chr1	106695849	106696049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009741, intron 1 of 1)	ORR1F|LTR|ERVL-MaLR	18341.0	NM_009741	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	57.0	70.0	93.0	1696.5	164.0	42.5	93.0	87.5
Merged-chr9-58534984-4	chr9	58534890	58535090	+	865.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133983, intron 3 of 6)	intron (NM_133983, intron 3 of 6)	5950.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	3.5	11.5	5.5	83.5	31.5	14.0	9.0	8.0
Merged-chr19-55227891-4	chr19	55227811	55228011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 7 of 20)	intron (NM_001081076, intron 7 of 20)	13325.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	36.0	40.0	44.5	498.0	101.5	28.0	41.0	30.5
Merged-chr2-13538430-4	chr2	13538347	13538547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010067, intron 1 of 10)	MIR|SINE|MIR	6217.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	104.0	151.0	121.5	1505.0	293.0	99.5	151.5	125.5
Merged-chr19-5809076-4	chr19	5808956	5809156	+	972.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6384.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	21.0	46.0	20.0	218.5	40.5	21.0	8.5	16.0
Merged-chr16-30504252-4	chr16	30504150	30504350	+	911.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MamGypLTR3|LTR|Gypsy	46328.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	10.0	33.0	5.0	138.5	51.5	14.0	13.0	16.0
Merged-chr2-61137041-3	chr2	61136934	61137134	+	845.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-161883.0	NR_045335	100038493.0	Mm.388076	NR_045335	ENSMUSG00000075325	Gm13582	-	predicted gene 13582	ncRNA	7.5	6.0	11.0	149.5	14.5	2.5	8.5	2.5
Merged-chr5-23121459-3	chr5	23121368	23121568	+	869.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029990, intron 2 of 2)	Charlie5|DNA|hAT-Charlie	312885.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	16.5	13.0	19.5	444.5	14.5	1.0	3.0	3.5
Merged-chr6-87184057-4	chr6	87183952	87184152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054041, intron 16 of 17)	intron (NM_054041, intron 16 of 17)	79306.0	NM_001167937	52372.0	Mm.282851	NM_001167937	ENSMUSG00000090891	D6Ertd527e	AU043841	DNA segment, Chr 6, ERATO Doi 527, expressed	protein-coding	52.0	64.5	23.5	339.0	106.0	41.0	40.0	38.5
Merged-chr5-31228919-3	chr5	31228834	31229034	+	974.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8389.0	NM_008014	14208.0	Mm.14501	NM_008014	ENSMUSG00000029147	Ppm1g	AI385652|Fin13	protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform	protein-coding	26.0	18.5	14.0	292.5	45.0	9.0	10.5	11.5
Merged-chr12-8348253-4	chr12	8348128	8348328	+	831.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34795.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	6.0	17.0	12.0	308.5	20.0	5.5	14.0	5.5
Merged-chr16-17812369-3	chr16	17812273	17812473	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15091.0	NM_153790	224024.0	Mm.194950	NM_153790	ENSMUSG00000012017	Scarf2	NSR1|SREC-II|SRECRP-1|Scatf1|Srec2|SrecII	scavenger receptor class F, member 2	protein-coding	6.0	11.0	5.0	70.0	8.5	4.5	6.0	9.0
Merged-chr18-32370447-3	chr18	32370365	32370565	+	797.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045403, intron 2 of 2)	Lx9|LINE|L1	-6752.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	4.0	12.0	5.5	200.0	22.5	5.5	8.5	6.0
Merged-chr14-20695172-7	chr14	20695081	20695281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001168273)	TTS (NM_001168273)	213.0	NM_028428	73068.0	Mm.277552	NM_028428	ENSMUSG00000039357	Fut11	3110009G03Rik|AI317183	fucosyltransferase 11	protein-coding	34.0	33.0	33.5	403.5	47.0	20.5	31.0	40.5
Merged-chr1-51938951-1	chr1	51938851	51939051	+	934.0	f0_balb.idr	Intergenic	Intergenic	-22973.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	7.0	15.0	13.0	138.0	0.0	0.0	1.0	0.0
Merged-chr13-8871106-4	chr13	8871001	8871201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172445)	promoter-TSS (NM_172445)	-57.0	NM_172445	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	104.5	107.0	102.0	1522.5	276.0	112.5	139.5	106.5
Merged-chr1-156939112-3	chr1	156938966	156939166	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357391, intron 1 of 19)	CpG	321.0	NM_001159966	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	13.5	6.0	6.0	43.5	16.5	3.5	5.5	7.5
Merged-chr6-137413188-4	chr6	137413079	137413279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 13 of 26)	MTE2b|LTR|ERVL-MaLR	2458.0	NM_001164403	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	64.0	85.0	66.5	904.5	178.0	59.5	96.5	54.5
Merged-chr5-67847521-4	chr5	67847407	67847607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009727)	promoter-TSS (NM_009727)	-76.0	NM_001038999	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	394.5	543.0	499.5	7426.5	955.5	343.0	469.5	330.5
Merged-chr2-153445019-4	chr2	153444919	153445119	+	821.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001986)	promoter-TSS (NM_001001986)	-540.0	NM_001001986	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	18.5	8.5	7.5	123.5	17.5	9.0	2.5	12.5
Merged-chr10-75317251-6	chr10	75317344	75317544	+	930.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331095)	promoter-TSS (NM_001331095)	-156.0	NM_001331095	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	2.5	11.0	10.0	37.5	9.5	6.5	7.5	9.0
Merged-chr9-108827103-4	chr9	108827006	108827206	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359573, exon 1 of 36)	exon (NM_001359573, exon 1 of 36)	1061.0	NM_001359572	107934.0	Mm.39945	NM_080437	ENSMUSG00000023473	Celsr3	Adgrc3|Fmi1|flamingo|mKIAA0812	cadherin, EGF LAG seven-pass G-type receptor 3	protein-coding	20.5	40.0	15.5	389.0	62.0	37.0	34.5	49.0
Merged-chr11-103332704-4	chr11	103332595	103332795	+	925.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133715, exon 16 of 16)	3' UTR (NM_133715, exon 16 of 16)	12007.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	12.5	42.5	12.0	240.0	33.0	11.0	10.0	27.0
Merged-chr11-83577231-4	chr11	83577126	83577326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011338, intron 1 of 3)	intron (NM_011338, intron 1 of 3)	1410.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	61.0	75.0	82.5	709.5	43.5	21.0	32.0	55.5
Merged-chr1-171123109-4	chr1	171123021	171123221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081275, exon 2 of 6)	5' UTR (NM_001081275, exon 2 of 6)	1460.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	64.0	113.0	49.5	754.5	180.0	28.5	44.0	59.5
Merged-chr7-120679217-4	chr7	120679079	120679279	+	854.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164580, intron 1 of 2)	intron (NM_001164580, intron 1 of 2)	1559.0	NM_001164580	233812.0	Mm.276479	NM_001164580	ENSMUSG00000046096	Mosmo	Atthog	modulator of smoothened	protein-coding	7.0	15.5	14.5	168.0	19.5	8.0	5.5	11.5
Merged-chr15-67176967-4	chr15	67176921	67177121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009177)	promoter-TSS (NM_009177)	-139.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	179.0	276.0	200.0	3071.5	286.0	116.0	154.0	145.0
Merged-chr9-20976465-2	chr9	20976365	20976565	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010333, intron 1 of 1)	CpG	328.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	14.5	18.0	19.5	214.5	31.5	17.0	22.0	24.0
Merged-chr18-4987440-3	chr18	4987353	4987553	+	997.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59136.0	NM_153153	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	22.5	17.0	29.5	484.0	17.5	2.5	15.0	6.0
Merged-chr14-19706634-4	chr14	19706559	19706759	+	918.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44598.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	12.0	28.0	12.0	175.5	42.0	20.0	20.5	18.0
Merged-chr7-120834542-3	chr7	120834448	120834648	+	741.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8283.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	5.0	9.0	6.0	71.5	21.0	5.0	4.5	11.0
Merged-chr10-19850881-3	chr10	19850788	19850988	+	943.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029529, exon 1 of 2)	exon (NM_029529, exon 1 of 2)	571.0	NM_029529	76157.0	Mm.74324	NM_029529	ENSMUSG00000050473	Slc35d3	6230421J19Rik|Frcl1	solute carrier family 35, member D3	protein-coding	15.0	14.5	11.0	110.5	11.0	11.5	8.0	7.0
Merged-chr9-45221760-4	chr9	45221668	45221868	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198971, intron 1 of 4)	intron (NM_001198971, intron 1 of 4)	-17693.0	NM_145403	214523.0	Mm.436756	NM_145403	ENSMUSG00000032091	Tmprss4	mCAP2	transmembrane protease, serine 4	protein-coding	17.5	34.0	25.5	279.5	59.0	16.0	14.5	12.5
Merged-chr12-85467683-2	chr12	85467583	85467783	+	706.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6207.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	13.5	10.0	5.5	13.0	10.5	3.0	3.5	2.5
Merged-chr17-15774888-3	chr17	15774762	15774962	+	794.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	51724.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	3.5	4.0	4.0	36.0	32.0	13.5	7.0	19.0
Merged-chr17-53594835-4	chr17	53594764	53594964	+	893.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190846, intron 1 of 17)	C-rich|Low_complexity|Low_complexity	10738.0	NM_001190846	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	34.5	30.0	23.0	451.5	34.5	10.5	10.5	11.0
Merged-chr15-103316624-4	chr15	103316518	103316718	+	852.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356627, intron 4 of 7)	intron (NM_001356627, intron 4 of 7)	-6180.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	12.5	5.5	13.5	407.5	28.0	4.5	14.0	9.5
Merged-chr9-99140327-4	chr9	99140224	99140424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029094)	promoter-TSS (NM_029094)	-113.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	120.5	180.0	125.0	1701.0	342.0	167.5	185.5	100.5
Merged-chr14-33202339-4	chr14	33202251	33202451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14472.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	51.0	80.5	48.0	918.0	105.5	30.0	61.0	55.0
Merged-chr4-132008846-4	chr4	132008759	132008959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	B3A|SINE|B2	40219.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	11.5	24.5	10.0	265.5	45.5	22.5	33.5	30.5
Merged-chr17-50190516-4	chr17	50190425	50190625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181397)	promoter-TSS (NM_181397)	-28.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	67.0	85.5	59.0	1171.0	177.0	53.5	89.5	69.5
Merged-chr19-9975105-4	chr19	9975018	9975218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5482.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	188.0	291.0	170.5	2022.0	345.0	140.5	148.0	142.5
Merged-chr7-6152413-3	chr7	6152303	6152503	+	825.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013012, intron 1 of 2)	intron (NM_001013012, intron 1 of 2)	3568.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	4.5	12.0	6.5	85.0	10.0	0.5	3.5	4.0
Merged-chr1-138993702-1	chr1	138993602	138993802	+	642.5	f0_balb.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	16045.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	8.5	7.5	0.5	115.0	13.5	8.0	8.0	8.5
Merged-chr3-51416646-4	chr3	51416532	51416732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053089, intron 1 of 19)	CpG	616.0	NM_053089	74838.0	Mm.275281	NM_053089	ENSMUSG00000063273	Naa15	5730450D16Rik|6330400I15|ASTBDN|Narg1|Tbdn-1|mNAT1	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	protein-coding	26.5	23.0	21.0	297.5	55.0	28.0	33.0	31.0
Merged-chr11-52003206-4	chr11	52003098	52003298	+	917.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1023.0	NM_001166657	213084.0	Mm.280557	NM_153785	ENSMUSG00000020389	Cdkl3	AI852479|B230379H01Rik	cyclin-dependent kinase-like 3	protein-coding	9.5	10.5	9.5	99.0	40.5	9.5	6.5	20.5
Merged-chr10-119027292-2	chr10	119027192	119027392	+	604.166626	f1_balb.idr|f1_c57bl6.idr	TTS (NR_152787)	TTS (NR_152787)	23207.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	4.5	5.0	6.0	48.5	11.5	1.5	9.0	8.0
Merged-chr16-55966366-4	chr16	55966295	55966495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024218, exon 1 of 6)	5' UTR (NM_024218, exon 1 of 6)	120.0	NM_024218	68193.0	Mm.29221	NM_024218	ENSMUSG00000098274	Rpl24	0610008L05Rik|Bst	ribosomal protein L24	protein-coding	72.0	99.5	51.0	838.5	190.0	59.5	57.5	62.5
Merged-chr9-50560708-4	chr9	50560579	50560779	+	990.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025687, intron 1 of 4)	intron (NM_025687, intron 1 of 4)	589.0	NM_025687	66654.0	Mm.442255	NM_025687	ENSMUSG00000032065	Tex12	5730518K06Rik	testis expressed gene 12	protein-coding	38.5	87.5	27.0	230.0	55.5	37.5	21.0	13.5
Merged-chr8-71752475-4	chr8	71752362	71752562	+	863.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26781.0	NM_028715	74015.0	Mm.22025	NM_028715	ENSMUSG00000070000	Fcho1	3322402E17Rik|N28152	FCH domain only 1	protein-coding	11.0	9.5	16.0	119.5	36.5	4.5	15.0	20.5
Merged-chr2-60809007-3	chr2	60808916	60809116	+	840.43335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	MLT1C|LTR|ERVL-MaLR	72422.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	20.5	10.5	22.0	380.0	10.5	4.0	1.0	3.0
Merged-chr3-145743227-3	chr3	145743128	145743328	+	970.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15464.0	NM_026993	69219.0	Mm.234247	NM_026993	ENSMUSG00000028194	Ddah1	2410006N07Rik|2510015N06Rik|AI987801|AW050362	dimethylarginine dimethylaminohydrolase 1	protein-coding	8.0	18.5	14.5	245.5	14.5	5.5	6.5	10.5
Merged-chr2-137114506-4	chr2	137114446	137114646	+	847.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013822, intron 2 of 25)	CpG	1974.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	23.0	10.0	21.0	308.0	19.5	10.5	7.5	13.0
Merged-chr3-9608539-4	chr3	9608445	9608645	+	877.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 1 of 8)	intron (NM_133218, intron 1 of 8)	1540.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	13.0	12.5	9.0	144.5	42.5	11.0	14.0	13.5
Merged-chr2-91078847-3	chr2	91078735	91078935	+	772.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGGGGG)n|Simple_repeat|Simple_repeat	-8520.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	11.5	5.5	7.0	90.0	5.5	4.5	2.5	7.0
Merged-chr15-31460781-4	chr15	31460698	31460898	+	954.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 25 of 25)	intron (NM_172606, intron 25 of 25)	-7109.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	20.5	30.0	19.0	391.0	42.5	12.5	22.0	10.5
Merged-chr11-34002400-4	chr11	34002292	34002492	+	775.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-9199.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	8.5	24.5	7.5	108.0	42.0	11.0	13.5	8.0
Merged-chr9-63568501-2	chr9	63568401	63568601	+	767.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030068, intron 5 of 21)	intron (NM_030068, intron 5 of 21)	33992.0	NM_030068	78250.0	Mm.444612	NM_030068	ENSMUSG00000037801	Iqch	4921504K03Rik	IQ motif containing H	protein-coding	6.0	5.0	4.5	31.0	7.0	2.5	2.0	2.0
Merged-chr5-72269709-4	chr5	72269590	72269790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 15 of 22)	intron (NR_003966, intron 15 of 22)	66347.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	76.5	96.5	85.0	1035.5	188.0	62.0	76.5	101.5
Merged-chr13-23535294-4	chr13	23535186	23535386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145073)	promoter-TSS (NM_145073)	-132.0	NM_145073	97908.0	Mm.261657	NM_145073	ENSMUSG00000099517	Hist1h3g	H3.1-221|M32460	histone cluster 1, H3g	protein-coding	55.5	48.0	35.5	448.0	105.0	40.0	53.0	46.0
Merged-chr1-170867020-4	chr1	170866909	170867109	+	853.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 1 of 15)	intron (NM_001081304, intron 1 of 15)	762.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	18.0	21.0	6.0	87.5	20.0	15.0	9.5	11.0
Merged-chr15-96566324-4	chr15	96566230	96566430	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75632.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	33.5	32.0	19.5	351.0	32.5	13.5	18.5	5.5
Merged-chr15-91180819-1	chr15	91180719	91180919	+	688.5	f0_balb.idr	intron (NM_011994, intron 3 of 9)	MTD|LTR|ERVL-MaLR	11188.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	8.0	2.0	11.0	83.0	27.5	4.5	4.5	5.5
Merged-chr16-90323108-4	chr16	90322998	90323198	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38595.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	12.5	28.5	14.5	275.5	33.5	18.5	21.0	16.0
Merged-chr9-59751050-7	chr9	59750930	59751130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172071)	promoter-TSS (NM_001172071)	-144.0	NM_173018	270163.0	Mm.249545	NM_173018	ENSMUSG00000039585	Myo9a	4732465J09Rik|C130068I12Rik|C230003M11	myosin IXa	protein-coding	86.0	183.5	134.0	1098.0	204.5	122.5	92.0	122.0
Merged-chr9-123769646-4	chr9	123769542	123769742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009913, intron 1 of 2)	intron (NM_009913, intron 1 of 2)	2431.0	NM_001166625	12769.0	Mm.440604	NM_009913	ENSMUSG00000029530	Ccr9	A130091K22Rik|Cmkbr10|GPR-9-6	chemokine (C-C motif) receptor 9	protein-coding	79.0	104.5	69.0	946.0	131.5	51.5	52.5	47.5
Merged-chr3-55080268-4	chr3	55080152	55080352	+	850.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040593, intron 6 of 7)	intron (NR_040593, intron 6 of 7)	25010.0	NR_040593	70970.0	Mm.251485	NR_040593	ENSMUSG00000106589	4931419H13Rik	-	RIKEN cDNA 4931419H13 gene	ncRNA	13.0	19.0	14.0	168.5	34.0	9.0	23.5	12.5
Merged-chr13-20428838-2	chr13	20428734	20428934	+	872.833374	f0_balb.idr|f1_balb.idr	intron (NM_080288, intron 15 of 21)	intron (NM_080288, intron 15 of 21)	-44156.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	11.0	7.0	12.5	370.0	2.5	1.5	1.5	1.0
Merged-chr7-30992341-3	chr7	30992233	30992433	+	806.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	10412.0	NM_001242647	76415.0	Mm.259739	NM_175240	ENSMUSG00000046826	Fam187b	1700020B09Rik|Tmem162	family with sequence similarity 187, member B	protein-coding	4.5	9.5	6.0	133.0	8.0	0.0	3.5	4.5
Merged-chr12-118846730-3	chr12	118846590	118846790	+	941.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177082, intron 1 of 2)	intron (NM_177082, intron 1 of 2)	361.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	10.5	13.0	6.0	128.5	19.5	7.0	12.0	6.0
Merged-chr5-124552838-4	chr5	124552732	124552932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026409)	promoter-TSS (NM_026409)	-32.0	NM_001190795	67848.0	Mm.281601	NM_026409	ENSMUSG00000029389	Ddx55	2810021H22Rik|mKIAA1595	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	protein-coding	82.0	132.0	69.5	951.5	203.0	73.5	75.5	74.0
Merged-chr8-123331595-4	chr8	123331482	123331682	+	788.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1131.0	NM_172287	234857.0	Mm.150200	NM_172287	ENSMUSG00000010154	Spire2	BC026502|Spir-2|Spir2	spire type actin nucleation factor 2	protein-coding	6.0	15.0	11.0	67.5	7.5	12.5	5.0	10.5
Merged-chr10-128902619-3	chr10	128902531	128902731	+	929.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6288.0	NM_001042580	12512.0	Mm.371552	NM_007653	ENSMUSG00000025351	Cd63	C75951|ME491|Tspan30	CD63 antigen	protein-coding	5.5	9.0	9.5	218.0	10.0	3.0	4.5	4.0
Merged-chr15-53137555-4	chr15	53137436	53137636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	L2c|LINE|L2	208647.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	18.0	58.0	39.0	532.5	69.0	9.0	20.0	18.5
Merged-chr6-137566056-3	chr6	137565921	137566121	+	727.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271588, intron 1 of 20)	intron (NM_001271588, intron 1 of 20)	4988.0	NM_001271595	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	5.5	6.0	7.0	149.5	5.5	2.0	3.5	5.5
Merged-chr2-4864620-4	chr2	4864491	4864691	+	702.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-16973.0	NM_175400	109079.0	Mm.34329	NM_175400	ENSMUSG00000026662	Sephs1	1110046B24Rik|AA589574|AI505014|AW111620|SELD|SPS|SPS1	selenophosphate synthetase 1	protein-coding	7.5	7.0	7.5	70.0	24.5	11.0	5.5	15.5
Merged-chr11-54100964-4	chr11	54100876	54101076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011031)	promoter-TSS (NM_011031)	52.0	NM_011031	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	21.0	44.5	38.5	340.0	49.5	21.5	21.0	16.5
Merged-chr19-53313326-4	chr19	53313179	53313379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360348, intron 1 of 5)	CpG	1834.0	NM_001360348	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	41.5	77.5	51.0	585.5	145.0	45.5	67.5	61.5
Merged-chr4-41368450-4	chr4	41368370	41368570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355508, intron 2 of 6)	intron (NM_001355508, intron 2 of 6)	16507.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	26.0	33.5	38.5	548.0	78.5	26.5	25.5	28.5
Merged-chr11-121236772-1	chr11	121236672	121236872	+	1000.0	f0_c57.idr	promoter-TSS (NM_026272)	promoter-TSS (NM_026272)	-464.0	NM_026272	67608.0	Mm.291832	NM_026272	ENSMUSG00000000056	Narf	4430402O11Rik	nuclear prelamin A recognition factor	protein-coding	61.0	95.0	36.5	571.0	127.0	76.0	72.0	69.5
Merged-chr12-85985763-4	chr12	85985653	85985853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	93288.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	27.0	39.5	28.5	659.0	101.0	35.5	52.5	49.5
Merged-chr4-133339430-4	chr4	133339325	133339525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199306)	promoter-TSS (NM_199306)	-110.0	NM_199306	230796.0	Mm.226576	NM_199306	ENSMUSG00000037622	Wdtc1	Gm695|adipose|adp	WD and tetratricopeptide repeats 1	protein-coding	101.5	154.0	75.0	823.5	228.5	90.0	83.0	101.0
Merged-chr2-169918620-3	chr2	169918500	169918700	+	954.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	44587.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	0.0	0.0	0.0	0.0	70.5	15.0	26.0	20.0
Merged-chr4-103110152-4	chr4	103110067	103110267	+	794.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146254, intron 1 of 16)	ID_B1|SINE|B4	4132.0	NM_146254	242584.0	Mm.374877	NM_146254	ENSMUSG00000035126	Wdr78	BC028975	WD repeat domain 78	protein-coding	10.0	6.0	3.5	85.5	5.5	5.0	11.0	7.0
Merged-chr3-21938238-4	chr3	21938131	21938331	+	960.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138421.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	31.0	40.5	27.0	783.5	25.5	11.0	24.0	21.5
Merged-chr15-25858263-4	chr15	25858180	25858380	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	intron (NM_001034851, intron 1 of 8)	14982.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	16.5	20.5	13.0	307.0	24.5	7.0	10.5	14.0
Merged-chr9-44089053-4	chr9	44088977	44089177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198091, intron 1 of 11)	intron (NM_198091, intron 1 of 11)	4157.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	58.5	67.5	52.5	976.5	107.5	33.5	42.0	40.0
Merged-chr17-48346441-4	chr17	48346349	48346549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272078)	promoter-TSS (NM_001272078)	48.0	NM_001272078	83433.0	Mm.261623	NM_031254	ENSMUSG00000023992	Trem2	TREM-2|Trem2a|Trem2b|Trem2c	triggering receptor expressed on myeloid cells 2	protein-coding	20.5	33.0	23.5	519.0	58.5	17.0	20.0	26.0
Merged-chr11-69016004-4	chr11	69015918	69016118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013256, exon 1 of 23)	5' UTR (NM_001013256, exon 1 of 23)	107.0	NM_001013256	68964.0	Mm.285785	NM_001013256	ENSMUSG00000020898	Ctc1	1500010J02Rik|AAF-132|AAF132	CTS telomere maintenance complex component 1	protein-coding	113.0	192.0	96.5	1251.5	236.0	97.0	112.0	85.0
Merged-chr17-8311037-4	chr17	8310916	8311116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134114)	promoter-TSS (NM_134114)	-72.0	NM_001357890	106489.0	Mm.311080	NM_134114	ENSMUSG00000073468	Sft2d1	5630401J11Rik|AA409698	SFT2 domain containing 1	protein-coding	72.0	142.5	90.5	1110.5	199.0	63.0	75.0	49.5
Merged-chr16-35844125-4	chr16	35844053	35844253	+	925.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039530, intron 12 of 16)	intron (NM_001039530, intron 12 of 16)	27229.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	11.5	14.0	9.5	307.0	32.0	7.5	17.5	17.0
Merged-chr8-106004882-3	chr8	106004775	106004975	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-6603.0	NM_025518	66369.0	Mm.287500	NM_025518	ENSMUSG00000031901	Dus2	2310016K04Rik|Dus2l	dihydrouridine synthase 2	protein-coding	12.0	12.5	13.5	46.5	2.0	3.0	2.0	5.5
Merged-chr4-136518700-2	chr4	136518600	136518800	+	812.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_024452, intron 1 of 4)	L2a|LINE|L2	48939.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	7.0	4.5	6.5	78.0	11.5	2.0	2.0	3.0
Merged-chr16-16536637-1	chr16	16536537	16536737	+	760.0	f0_balb.idr	intron (NM_001301817, intron 1 of 16)	Lx7|LINE|L1	-9226.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	6.0	6.0	9.0	132.0	7.5	1.5	5.0	3.0
Merged-chr15-96461024-4	chr15	96460943	96461143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028148)	promoter-TSS (NM_028148)	-200.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	221.0	429.5	244.0	3503.0	665.5	297.0	322.5	283.5
Merged-chr6-113622324-4	chr6	113622231	113622431	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1690.0	NM_009507	22346.0	Mm.29407	NM_009507	ENSMUSG00000033933	Vhl	Vhlh	von Hippel-Lindau tumor suppressor	protein-coding	17.5	30.5	7.0	279.0	34.5	14.0	23.0	30.0
Merged-chr7-44753020-4	chr7	44752912	44753112	+	731.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133945, intron 2 of 14)	ORR1E|LTR|ERVL-MaLR	4383.0	NM_133945	101568.0	Mm.28816	NM_133945	ENSMUSG00000002205	Vrk3	AI428238	vaccinia related kinase 3	protein-coding	15.5	32.5	13.5	126.5	20.0	14.0	10.0	1.0
Merged-chr14-66812446-4	chr14	66812346	66812546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 11 of 13)	intron (NM_009955, intron 11 of 13)	56154.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	30.5	37.0	34.5	710.0	45.5	23.0	28.0	27.0
Merged-chr5-104021927-4	chr5	104021837	104022037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053262)	promoter-TSS (NM_053262)	-141.0	NM_053262	114664.0	Mm.46019	NM_053262	ENSMUSG00000029311	Hsd17b11	Dhrs8|Pan1b|SDR2|retSDR2	hydroxysteroid (17-beta) dehydrogenase 11	protein-coding	155.5	240.0	159.5	2300.5	265.0	134.5	116.0	108.5
Merged-chr4-137609885-4	chr4	137609772	137609972	+	800.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355588, intron 6 of 26)	(TG)n|Simple_repeat|Simple_repeat	15700.0	NM_130879	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	7.0	1.0	7.5	67.0	44.0	9.5	17.5	19.5
Merged-chr18-38339565-3	chr18	38339485	38339685	+	821.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011937)	promoter-TSS (NM_011937)	-592.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	6.0	15.0	7.5	185.5	25.0	7.0	4.5	7.0
Merged-chr6-87511153-4	chr6	87511059	87511259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	-14832.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	64.5	86.0	77.0	1100.5	143.5	49.0	65.0	76.5
Merged-chr3-136230828-4	chr3	136230722	136230922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 6 of 16)	intron (NM_001033350, intron 6 of 16)	95244.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	50.0	54.5	29.0	515.5	80.5	39.5	11.5	49.0
Merged-chr2-127506240-4	chr2	127506137	127506337	+	839.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019789, intron 2 of 8)	intron (NM_019789, intron 2 of 8)	15155.0	NM_001291005	56461.0	Mm.315292	NM_019789	ENSMUSG00000079056	Kcnip3	4933407H12Rik|AI413860|Csen|DREAM|KChIP3|R74849	Kv channel interacting protein 3, calsenilin	protein-coding	6.0	13.0	12.0	122.0	29.0	11.0	3.0	14.5
Merged-chr19-46136207-5	chr19	46136117	46136317	+	661.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007703)	TTS (NM_007703)	4318.0	NM_007703	12686.0	Mm.21806	NM_007703	ENSMUSG00000038754	Elovl3	CIN-2|Cig30	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3	protein-coding	11.5	8.0	8.0	51.0	9.0	6.5	3.0	14.5
Merged-chr7-126583350-4	chr7	126583222	126583422	+	879.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329789)	promoter-TSS (NM_001329789)	-86.0	NM_009907	12752.0	Mm.268930	NM_009907	ENSMUSG00000030720	Cln3	AI323623	ceroid lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease)	protein-coding	17.5	15.5	4.5	94.5	31.0	10.5	6.0	16.0
Merged-chr17-42875735-4	chr17	42875630	42875830	+	950.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009847, intron 1 of 17)	intron (NM_009847, intron 1 of 17)	694.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	12.0	19.0	18.0	40.0	43.0	15.0	16.5	10.5
Merged-chr16-55789659-4	chr16	55789527	55789727	+	893.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32511.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	18.5	15.0	6.5	151.5	35.5	5.5	5.0	12.0
Merged-chr2-173300933-3	chr2	173300833	173301033	+	878.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24400.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	8.5	9.5	11.5	107.0	12.0	8.5	10.0	10.5
Merged-chr1-64193267-6	chr1	64193130	64193330	+	856.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71841.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	6.0	1.5	8.0	72.5	28.0	4.5	9.5	9.5
Merged-chr8-94954956-1	chr8	94954856	94955056	+	569.0	f0_balb.idr	Intergenic	Intergenic	-22153.0	NM_001198894	14766.0	Mm.290834	NM_018882	ENSMUSG00000031785	Adgrg1	Cyt28|Gpr56|TM7LN4|TM7XN1	adhesion G protein-coupled receptor G1	protein-coding	10.0	15.0	8.0	53.5	16.5	7.5	15.5	9.0
Merged-chr10-80156188-4	chr10	80156087	80156287	+	818.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347117, intron 7 of 7)	intron (NM_001347117, intron 7 of 7)	6505.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	14.5	26.0	13.0	127.5	25.5	15.0	20.5	11.5
Merged-chr8-115407729-3	chr8	115407630	115407830	+	852.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	299164.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	7.0	2.5	4.5	207.0	48.5	13.5	8.0	9.5
Merged-chr12-12164591-1	chr12	12164491	12164691	+	658.0	f1_balb.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-97548.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	2.0	4.0	5.5	79.5	12.5	6.0	8.0	5.0
Merged-chr7-127376096-4	chr7	127376002	127376202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175560)	promoter-TSS (NM_175560)	-52.0	NM_175560	269997.0	Mm.221270	NM_175560	ENSMUSG00000054381	Zfp747	6430604K15Rik	zinc finger protein 747	protein-coding	45.0	82.0	29.5	555.0	119.0	54.0	55.0	36.0
Merged-chr7-5080155-4	chr7	5080026	5080226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252454)	promoter-TSS (NM_001252454)	-109.0	NM_010147	13854.0	Mm.3091	NM_010147	ENSMUSG00000035203	Epn1	AA269831|Ibp1	epsin 1	protein-coding	118.5	159.0	103.5	1823.5	300.5	119.0	154.0	147.5
Merged-chr6-134543310-2	chr6	134543210	134543410	+	729.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	23603.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	5.0	3.5	0.5	15.0	12.5	6.5	8.5	10.5
Merged-chr13-46737683-3	chr13	46737621	46737821	+	776.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9872.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	6.0	6.5	6.0	52.5	13.5	6.0	4.0	10.5
Merged-chr6-49214083-5	chr6	49213980	49214180	+	746.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023670, intron 1 of 14)	CpG	874.0	NM_023670	140488.0	Mm.281018	NM_023670	ENSMUSG00000029814	Igf2bp3	2610101N11Rik|AA522010|AL022933|AU045931|IMP-3|IMP3|Koc13|Neilsen|mimp3	insulin-like growth factor 2 mRNA binding protein 3	protein-coding	10.5	1.0	10.5	84.5	11.5	7.5	6.0	14.0
Merged-chr10-117217017-4	chr10	117216912	117217112	+	836.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026570, intron 6 of 6)	intron (NM_026570, intron 6 of 6)	7495.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	6.5	9.5	6.5	172.0	48.5	21.0	13.0	19.5
Merged-chr12-32305893-4	chr12	32305791	32305991	+	957.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-72898.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	14.0	55.0	16.5	304.0	53.0	28.5	23.0	17.0
Merged-chr5-36497269-3	chr5	36497150	36497350	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 12 of 13)	intron (NM_133910, intron 12 of 13)	12662.0	NM_025725	66717.0	Mm.42368	NM_025725	ENSMUSG00000050677	Ccdc96	4921513E08Rik	coiled-coil domain containing 96	protein-coding	6.0	4.5	4.5	123.0	6.0	2.0	2.5	9.0
Merged-chr1-135730481-4	chr1	135730392	135730592	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007791, intron 1 of 5)	intron (NM_007791, intron 1 of 5)	1325.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	14.0	37.5	24.0	307.0	64.5	19.0	48.0	12.0
Merged-chr19-4125850-4	chr19	4125741	4125941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025889)	promoter-TSS (NM_025889)	17.0	NM_016666	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	230.0	355.0	170.5	2367.0	478.0	229.5	228.0	222.0
Merged-chr1-181247350-4	chr1	181247250	181247450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35372.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	94.5	207.5	88.0	1168.5	216.5	111.0	110.0	101.5
Merged-chr8-67950940-4	chr8	67950856	67951056	+	707.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177698, intron 3 of 14)	intron (NM_177698, intron 3 of 14)	23618.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	3.5	9.0	10.0	117.0	17.0	8.0	6.5	6.5
Merged-chr1-64928104-4	chr1	64928011	64928211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	LTR79|LTR|ERVL	28713.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	57.0	87.5	72.5	1097.0	145.0	56.5	57.0	61.0
Merged-chr1-64134645-4	chr1	64134563	64134763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur2|LINE|L1	-13274.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	24.0	32.5	54.0	591.0	66.5	23.5	59.5	31.0
Merged-chr19-29431159-4	chr19	29431041	29431241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 2 of 5)	intron (NM_021396, intron 2 of 5)	20222.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	82.0	128.0	89.5	963.0	178.5	64.0	77.0	54.0
Merged-chr5-142906794-4	chr5	142906724	142906924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007393)	promoter-TSS (NM_007393)	-70.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	144.0	241.5	149.0	1696.0	392.5	183.5	170.0	158.5
Merged-chr10-130129182-4	chr10	130129088	130129288	+	903.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2133.0	NM_146674	258669.0	Mm.377631	NM_146674	ENSMUSG00000095804	Olfr824	MOR210-3	olfactory receptor 824	protein-coding	22.5	19.0	12.5	513.0	29.0	11.5	10.0	19.0
Merged-chr13-54575151-4	chr13	54575029	54575229	+	851.258301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019968, exon 1 of 4)	exon (NM_019968, exon 1 of 4)	116.0	NM_019968	56795.0	Mm.89484	NM_019968	ENSMUSG00000025870	Arl10	Arl10a|Arm1	ADP-ribosylation factor-like 10	protein-coding	7.5	13.5	13.5	156.5	23.5	11.0	11.5	26.0
Merged-chr12-81719359-4	chr12	81719263	81719463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001174107, exon 11 of 11)	3' UTR (NM_001174107, exon 11 of 11)	61807.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	75.0	82.5	62.5	1155.5	162.5	54.0	60.5	68.0
Merged-chr6-136811558-4	chr6	136811465	136811665	+	915.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	3317.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	8.5	5.0	3.0	108.5	46.5	16.5	25.0	21.5
Merged-chr11-5789410-4	chr11	5789312	5789512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146309, intron 1 of 12)	intron (NM_001146309, intron 1 of 12)	929.0	NM_013810	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	35.0	65.5	29.0	435.0	118.0	35.0	38.5	37.0
Merged-chr9-88960197-4	chr9	88960091	88960291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009742, intron 1 of 1)	intron (NM_009742, intron 1 of 1)	3271.0	NM_009742	12044.0	Mm.425593	NM_009742	ENSMUSG00000102037	Bcl2a1a	A1|BB218357|Bcl2a1|Bfl-1|Hbpa1	B cell leukemia/lymphoma 2 related protein A1a	protein-coding	27.0	72.0	32.0	97.5	86.5	50.0	43.0	28.0
Merged-chr2-83742969-1	chr2	83742869	83743069	+	788.333313	f0_balb.idr	intron (NM_008402, intron 2 of 29)	intron (NM_008402, intron 2 of 29)	18572.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	7.0	10.5	12.5	136.0	18.0	6.0	10.0	5.5
Merged-chr2-131545555-4	chr2	131545432	131545632	+	887.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013460, exon 2 of 2)	3' UTR (NM_013460, exon 2 of 2)	16753.0	NM_013460	11550.0	Mm.389380	NM_013460	ENSMUSG00000027335	Adra1d	Adra-1|Adra1|Adra1a|Gpcr8|Spr8|[a]1d|alpha1D-AR	adrenergic receptor, alpha 1d	protein-coding	15.5	12.0	6.5	127.5	30.0	10.5	8.5	15.0
Merged-chr13-24416550-4	chr13	24416448	24416648	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007717, intron 1 of 15)	intron (NM_007717, intron 1 of 15)	1426.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	11.0	11.0	17.5	116.0	32.0	17.0	8.0	15.0
Merged-chr16-97543395-1	chr16	97543295	97543495	+	619.0	f0_balb.idr	intron (NM_013606, intron 2 of 13)	intron (NM_013606, intron 2 of 13)	7312.0	NM_013606	17858.0	Mm.14157	NM_013606	ENSMUSG00000023341	Mx2	AI528743|Mx-2	MX dynamin-like GTPase 2	protein-coding	9.0	14.0	4.5	80.0	14.5	7.0	2.0	4.0
Merged-chr12-33147685-4	chr12	33147586	33147786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015602)	promoter-TSS (NR_015602)	0.0	NM_028139	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	192.0	265.5	151.5	2483.0	383.5	144.0	152.0	145.5
Merged-chr19-46044364-4	chr19	46044303	46044503	+	616.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113408, intron 1 of 10)	intron (NM_001113408, intron 1 of 10)	908.0	NM_001113408	16825.0	Mm.327442	NM_010697	ENSMUSG00000025223	Ldb1	CLIM2|NLI	LIM domain binding 1	protein-coding	8.0	5.5	1.5	81.0	16.5	9.5	6.5	5.5
Merged-chr8-53626323-4	chr8	53626257	53626457	+	975.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146208, intron 1 of 9)	intron (NM_146208, intron 1 of 9)	12708.0	NM_146208	234258.0	Mm.281749	NM_146208	ENSMUSG00000039396	Neil3	AI449477|BC034753|C85903	nei like 3 (E. coli)	protein-coding	11.0	25.0	14.5	239.5	90.0	23.0	39.0	18.5
Merged-chr3-51796573-4	chr3	51796462	51796662	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	135383.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	14.0	15.0	21.0	184.5	27.5	13.0	11.5	23.0
Merged-chr5-111330663-4	chr5	111330593	111330793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301666)	promoter-TSS (NM_001301666)	-4.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	116.0	193.5	127.0	1360.0	429.0	190.5	214.0	165.0
Merged-chr4-138038620-4	chr4	138038509	138038709	+	857.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	40784.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	18.5	11.5	20.5	390.5	16.0	3.0	10.0	4.0
Merged-chr1-127278527-1	chr1	127278427	127278627	+	1000.0	f0_balb.idr	intron (NM_145128, intron 2 of 17)	intron (NM_145128, intron 2 of 17)	73541.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	13.0	17.5	17.0	182.0	28.0	10.5	11.5	15.5
Merged-chr7-6265906-2	chr7	6265806	6266006	+	594.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177416, intron 5 of 11)	B3|SINE|B2	9984.0	NM_001177417	627821.0	Mm.99441	NM_001177416	ENSMUSG00000053367	Epp13	EG627821|Eddm13|Gm6792	epididymal protein 13	protein-coding	7.0	8.0	5.5	53.5	22.5	7.5	6.0	10.0
Merged-chr14-26652116-3	chr14	26651988	26652188	+	726.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007479, intron 3 of 5)	B2_Mm2|SINE|B2	13954.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	2.0	24.0	4.0	61.5	15.5	7.5	4.5	8.0
Merged-chr12-32952789-7	chr12	32952765	32952965	+	869.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_044986, intron 2 of 5)	intron (NR_044986, intron 2 of 5)	924.0	NR_044986	74076.0	Mm.50114	NR_044986	ENSMUSG00000097494	4933406C10Rik	-	RIKEN cDNA 4933406C10 gene	ncRNA	6.0	8.5	6.0	43.5	11.0	4.0	3.0	6.5
Merged-chr18-32348492-4	chr18	32348373	32348573	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR40b|LTR|ERVL	-28744.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	19.5	32.0	39.0	481.0	53.0	9.5	20.5	28.0
Merged-chr11-97628997-3	chr11	97628813	97629013	+	786.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175332, exon 1 of 1)	exon (NM_175332, exon 1 of 1)	803.0	NM_175332	103551.0	Mm.24506	NM_175332	ENSMUSG00000043439	Epop	AA409164|AI413509|AW539173|E13|E130012A19Rik|esPRC2p48	elongin BC and polycomb repressive complex 2 associated protein	protein-coding	5.5	5.5	11.0	41.0	14.5	8.5	2.5	17.5
Merged-chr18-25681505-7	chr18	25681294	25681494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 1 of 12)	intron (NM_001362322, intron 1 of 12)	-1646.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	57.0	52.0	62.0	1094.5	84.0	29.0	48.0	49.5
Merged-chr14-74868772-3	chr14	74868690	74868890	+	747.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	79087.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	11.0	10.0	11.5	172.5	15.5	1.5	5.0	6.0
Merged-chr8-107425097-4	chr8	107425020	107425220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026277)	promoter-TSS (NM_026277)	-82.0	NM_026277	67619.0	Mm.36817	NM_026277	ENSMUSG00000003848	Nob1	1700021I09Rik|ART-4|Nob1p|Psmd8bp1	NIN1/RPN12 binding protein 1 homolog	protein-coding	74.5	166.5	81.5	1406.5	172.5	69.5	113.0	104.5
Merged-chr12-34787562-4	chr12	34787444	34787644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	129551.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	26.5	45.0	29.0	841.5	56.5	36.0	45.5	28.0
Merged-chr14-62837398-4	chr14	62837318	62837518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175546)	promoter-TSS (NM_175546)	-272.0	NM_175546	268752.0	Mm.1960	NM_175546	ENSMUSG00000014547	Wdfy2	5830485M08|B130024L21Rik|ProF|ZFYVE22	WD repeat and FYVE domain containing 2	protein-coding	195.0	375.5	231.0	2348.5	636.0	316.0	276.0	196.0
Merged-chr3-15769082-2	chr3	15768981	15769181	+	792.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79406.0	NM_001173459	100038947.0	Mm.330924	NM_001173459	ENSMUSG00000074677	LOC100038947	-	signal-regulatory protein beta 1-like	protein-coding	0.0	0.0	0.0	0.0	17.5	7.5	6.5	8.0
Merged-chr5-149006297-4	chr5	149006129	149006329	+	830.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040429)	promoter-TSS (NR_040429)	-733.0	NR_040429	100503307.0	Mm.188008	NR_040429	ENSMUSG00000086610	Gm15408	-	predicted gene 15408	ncRNA	8.0	3.5	6.5	119.0	23.0	6.0	6.5	21.5
Merged-chr5-67426719-4	chr5	67426611	67426811	+	999.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164806, intron 1 of 4)	CpG	1088.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	25.0	21.0	21.5	576.5	48.5	9.5	20.5	26.0
Merged-chr7-98711213-1	chr7	98711113	98711313	+	875.0	f0_balb.idr	intron (NM_001355114, intron 4 of 5)	intron (NM_001355114, intron 4 of 5)	7966.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	13.0	8.5	10.5	172.5	12.0	0.0	1.5	6.5
Merged-chr2-51108873-3	chr2	51108769	51108969	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40242.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	10.0	9.0	8.5	134.0	22.0	4.5	26.5	6.0
Merged-chr13-20211957-4	chr13	20211842	20212042	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 4 of 21)	intron (NM_080288, intron 4 of 21)	121435.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	24.0	37.5	12.0	400.5	132.0	34.0	60.5	41.0
Merged-chr5-27791024-1	chr5	27790924	27791124	+	880.0	f0_balb.idr	intron (NM_018878, intron 1 of 20)	CpG	526.0	NM_018878	55982.0	Mm.277190	NM_018878	ENSMUSG00000002221	Paxip1	D5Ertd149e|PTIP	PAX interacting (with transcription-activation domain) protein 1	protein-coding	15.0	15.0	13.5	198.0	36.5	18.0	19.5	20.5
Merged-chr12-80642927-3	chr12	80642833	80643033	+	953.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347409, intron 1 of 4)	intron (NM_001347409, intron 1 of 4)	1178.0	NM_007951	13877.0	Mm.246551	NM_007951	ENSMUSG00000021131	Erh	Mer|Prei1	ERH mRNA splicing and mitosis factor	protein-coding	13.5	20.5	13.5	226.5	26.0	6.5	6.0	8.5
Merged-chr5-118560203-4	chr5	118560106	118560306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172424)	promoter-TSS (NM_172424)	-513.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	37.5	33.0	24.5	284.0	106.0	26.5	48.0	30.5
Merged-chr10-8513435-4	chr10	8513322	8513522	+	864.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 1 of 7)	intron (NM_177387, intron 1 of 7)	5403.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	14.0	21.5	12.0	211.0	39.0	11.0	11.0	13.0
Merged-chr10-30661147-2	chr10	30661047	30661247	+	616.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 10 of 14)	intron (NM_001358842, intron 10 of 14)	-5280.0	NM_001111267	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	5.0	5.5	9.0	120.5	21.5	7.5	7.0	16.5
Merged-chr12-59129769-3	chr12	59129676	59129876	+	981.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165254)	promoter-TSS (NM_001165254)	28.0	NM_001165254	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	14.5	25.5	8.0	176.0	13.0	3.5	8.0	17.0
Merged-chr8-110266148-4	chr8	110266090	110266290	+	856.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172916)	promoter-TSS (NM_172916)	-787.0	NM_172916	244653.0	Mm.444803	NM_172916	ENSMUSG00000059854	Hydin	1700034M11Rik|4930545D19Rik|4932703P14|672398|A830061H17|AC069308.21gm4|Gm9558|hy-3|hy3|hyrh	HYDIN, axonemal central pair apparatus protein	protein-coding	7.0	8.5	11.5	50.5	36.0	8.5	11.0	18.5
Merged-chr16-85056399-1	chr16	85056299	85056499	+	678.0	f0_balb.idr	exon (NM_001198824, exon 6 of 17)	exon (NM_001198824, exon 6 of 17)	84188.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	5.0	3.0	8.5	94.0	10.5	4.5	6.0	6.5
Merged-chr17-78733622-3	chr17	78733524	78733724	+	667.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011500, intron 1 of 17)	intron (NM_011500, intron 1 of 17)	2936.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	4.0	10.5	11.5	110.5	10.0	5.0	9.5	8.0
Merged-chr13-34993692-3	chr13	34993553	34993753	+	918.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110331, intron 1 of 9)	intron (NM_001110331, intron 1 of 9)	491.0	NM_011868	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	15.0	10.5	7.5	60.5	20.5	12.5	7.5	19.5
Merged-chr11-34053647-4	chr11	34053550	34053750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 2 of 20)	LTR103b_Mam|LTR|ERV1?	6722.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	92.5	151.0	104.5	958.0	272.5	84.0	94.5	59.0
Merged-chr14-120243392-4	chr14	120243308	120243508	+	860.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32261.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	4.5	11.0	6.5	171.0	31.5	6.5	11.5	7.0
Merged-chr2-164656027-4	chr2	164655936	164656136	+	888.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039501)	promoter-TSS (NM_001039501)	-10.0	NM_001039501	629756.0	Mm.189007	NM_001039501	ENSMUSG00000070529	Wfdc10	Gm120	WAP four-disulfide core domain 10	protein-coding	14.0	19.0	13.0	138.0	43.5	21.5	12.5	16.0
Merged-chr14-65336998-4	chr14	65336905	65337105	+	732.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21671.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	3.5	13.5	16.5	111.5	41.0	6.5	11.5	5.5
Merged-chr8-105393403-4	chr8	105393306	105393506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301173, intron 5 of 15)	intron (NM_001301173, intron 5 of 15)	18025.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	75.5	84.5	48.0	694.5	165.5	63.5	69.5	37.5
Merged-chr2-27026976-4	chr2	27026870	27027070	+	982.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177627, intron 2 of 8)	intron (NM_001177627, intron 2 of 8)	1028.0	NM_172659	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	12.5	37.0	15.0	139.5	34.0	9.0	14.5	6.5
Merged-chr17-46857706-4	chr17	46857573	46857773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A4|LTR|ERVK	-26260.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	23.5	37.5	19.0	322.5	82.0	40.0	31.5	36.0
Merged-chr15-100312590-2	chr15	100312490	100312690	+	869.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_027334, intron 1 of 1)	intron (NM_027334, intron 1 of 1)	7773.0	NM_027334	70152.0	Mm.488086	NM_027334	ENSMUSG00000054619	Mettl7a1	2210414H16Rik|3300001H21Rik|Aam-B|Mettl7a|UbiE1	methyltransferase like 7A1	protein-coding	7.5	8.5	2.0	41.0	11.5	5.5	6.0	6.0
Merged-chr18-62232817-4	chr18	62232713	62232913	+	737.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52713.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	11.0	9.5	3.0	36.0	43.0	35.0	20.0	19.0
Merged-chr4-125145387-4	chr4	125145297	125145497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17516.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	205.0	317.0	241.0	2586.0	305.5	115.5	167.5	126.5
Merged-chr16-57634367-2	chr16	57634280	57634480	+	681.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_007739, intron 2 of 3)	intron (NM_007739, intron 2 of 3)	-27513.0	NM_025599	66497.0	Mm.425976	NM_025599	ENSMUSG00000022748	Cmss1	1110001A06Rik|2610528E23Rik|4930572F24Rik|AV099812|AV122629	cms small ribosomal subunit 1	protein-coding	7.5	5.5	5.5	71.0	6.5	4.5	4.5	6.5
Merged-chr1-131019558-4	chr1	131019472	131019672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010548)	promoter-TSS (NM_010548)	-273.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	38.0	107.5	45.5	383.5	145.5	77.5	81.5	42.5
Merged-chr14-104474643-4	chr14	104474563	104474763	+	894.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6664.0	NM_011143	18996.0	Mm.246550	NM_011143	ENSMUSG00000048349	Pou4f1	Brn-3|Brn-3.0|Brn3|Brn3.0|Brn3a|E130119J07Rik	POU domain, class 4, transcription factor 1	protein-coding	17.0	23.0	18.0	286.5	16.5	10.5	15.5	9.0
Merged-chr7-35118421-7	chr7	35118329	35118529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287523)	promoter-TSS (NM_001287523)	-864.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	27.5	27.0	18.5	335.0	30.0	13.0	21.0	27.0
Merged-chr19-5843134-4	chr19	5843037	5843237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_003513, exon 1 of 1)	non-coding (NR_003513, exon 1 of 1)	2341.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	40.5	58.0	33.0	676.0	97.5	27.5	58.5	25.0
Merged-chr4-121010596-2	chr4	121010496	121010696	+	673.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	6651.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	1.5	6.0	5.5	46.5	23.0	4.5	8.5	10.5
Merged-chr3-41564806-5	chr3	41564671	41564871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130186)	promoter-TSS (NM_001130186)	-109.0	NM_001130186	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	12.5	17.0	21.5	205.0	23.0	15.0	13.5	13.0
Merged-chr15-6602635-4	chr15	6602529	6602729	+	958.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011815, intron 1 of 17)	intron (NM_011815, intron 1 of 17)	22782.0	NM_011815	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	38.0	47.5	19.5	309.0	50.5	18.0	12.0	17.5
Merged-chr13-55528597-4	chr13	55528509	55528709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013739)	promoter-TSS (NM_013739)	-71.0	NM_013739	27261.0	Mm.33910	NM_013739	ENSMUSG00000035711	Dok3	AI450713|Dokl	docking protein 3	protein-coding	47.0	47.0	38.0	646.5	85.0	33.0	44.0	34.5
Merged-chr4-32564567-4	chr4	32564478	32564678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 3 of 4)	intron (NM_001109661, intron 3 of 4)	7084.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	193.0	192.0	350.5	3779.0	319.0	73.5	154.5	126.5
Merged-chr9-114794099-4	chr9	114793936	114794136	+	878.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 2 of 3)	intron (NM_027294, intron 2 of 3)	-12043.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	16.5	8.5	8.0	155.5	37.0	15.5	15.0	12.5
Merged-chr10-119028864-4	chr10	119028703	119028903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152787, exon 4 of 4)	non-coding (NR_152787, exon 4 of 4)	21696.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	35.0	92.5	49.5	470.5	166.5	67.0	61.0	64.5
Merged-chr12-73610243-4	chr12	73610140	73610340	+	912.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	25444.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	21.5	19.0	32.5	492.0	19.5	6.0	9.5	10.5
Merged-chr8-105218159-3	chr8	105218063	105218263	+	892.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001161457)	TTS (NM_001161457)	-7025.0	NM_145604	234678.0	Mm.27186	NM_145604	ENSMUSG00000031889	D230025D16Rik	BC006874|Lin10	RIKEN cDNA D230025D16 gene	protein-coding	11.0	13.5	21.5	119.0	17.0	2.5	7.5	6.0
Merged-chr3-65975537-4	chr3	65975434	65975634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17285.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	76.5	115.0	57.0	959.5	168.0	82.5	88.0	67.0
Merged-chr2-103945993-4	chr2	103945910	103946110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11985.0	NM_001142337	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	66.0	42.5	53.5	1053.5	155.0	47.5	64.5	50.5
Merged-chr7-80341081-4	chr7	80341011	80341211	+	951.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133952)	promoter-TSS (NM_133952)	-892.0	NM_133952	101869.0	Mm.243024	NM_133952	ENSMUSG00000030533	Unc45a	AW538196	unc-45 myosin chaperone A	protein-coding	8.5	14.0	8.0	107.0	25.0	16.0	14.5	12.5
Merged-chr9-120915294-4	chr9	120915181	120915381	+	883.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040742)	promoter-TSS (NR_040742)	-31.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	19.5	33.0	13.0	168.5	46.0	10.5	10.5	13.0
Merged-chr7-19002973-4	chr7	19002857	19003057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1108.0	NM_178757	272359.0	Mm.274237	NM_178757	ENSMUSG00000044030	Irf2bp1	6330414O09Rik|C530033F24	interferon regulatory factor 2 binding protein 1	protein-coding	38.0	43.5	21.0	414.0	102.0	41.0	29.0	34.0
Merged-chr10-37210466-4	chr10	37210340	37210540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-71514.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	30.0	33.5	42.0	371.5	52.0	18.0	30.0	29.5
Merged-chr15-30529797-2	chr15	30529697	30529897	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	357204.0	NM_008729	18163.0	Mm.321648	NM_008729	ENSMUSG00000022240	Ctnnd2	Catnd2|Nprap|neurojugin	catenin (cadherin associated protein), delta 2	protein-coding	7.0	8.0	6.0	217.5	12.0	10.5	12.0	6.5
Merged-chr3-123506996-4	chr3	123506998	123507198	+	988.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008939)	TTS (NM_008939)	968.0	NR_028573	100306957.0	Mm.260791	NR_028573	ENSMUSG00000092730	Snora24	ACA24	small nucleolar RNA, H/ACA box 24	snoRNA	5.0	8.0	10.0	77.0	15.0	4.0	12.0	9.0
Merged-chr12-89291436-4	chr12	89291330	89291530	+	677.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198587, intron 7 of 19)	intron (NM_001198587, intron 7 of 19)	338040.0	NM_172544	18191.0	Mm.425766	NM_172544	ENSMUSG00000066392	Nrxn3	-	neurexin III	protein-coding	5.0	7.0	5.5	119.5	22.5	9.0	13.0	9.5
Merged-chr2-148444992-3	chr2	148444873	148445073	+	771.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1438.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	12.0	2.5	12.5	175.5	18.0	4.5	5.0	14.0
Merged-chr9-121928676-4	chr9	121928591	121928791	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4c|LINE|L1	-8584.0	NR_033553	69430.0	Mm.482910	NR_033553	ENSMUSG00000043773	1700048O20Rik	1700022O21Rik	RIKEN cDNA 1700048O20 gene	ncRNA	5.0	5.5	9.5	124.5	31.5	3.5	11.5	19.5
Merged-chr1-153518758-4	chr1	153518637	153518837	+	927.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028749, intron 7 of 11)	B3|SINE|B2	30977.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	16.0	20.5	19.0	514.5	59.0	12.0	11.5	18.0
Merged-chr15-80117372-4	chr15	80117262	80117462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_207708, exon 4 of 4)	3' UTR (NM_207708, exon 4 of 4)	-15792.0	NM_025609	66513.0	Mm.288245	NM_025609	ENSMUSG00000022414	Tab1	2310012M03Rik|Map3k7ip1|b2b449Clo	TGF-beta activated kinase 1/MAP3K7 binding protein 1	protein-coding	20.5	48.5	18.0	459.0	117.0	18.0	40.5	37.0
Merged-chr11-49236062-4	chr11	49235962	49236162	+	890.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8129.0	NM_010794	17308.0	Mm.196933	NM_010794	ENSMUSG00000020346	Mgat1	Mgat-1	mannoside acetylglucosaminyltransferase 1	protein-coding	14.0	12.0	14.0	292.5	30.0	6.0	14.5	16.5
Merged-chr8-120715421-4	chr8	120715324	120715524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20934.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	58.5	79.5	68.0	1495.0	117.5	47.5	58.0	56.5
Merged-chr13-13889640-4	chr13	13889547	13889747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65027.0	NM_001362404	97884.0	Mm.21686	NM_178640	ENSMUSG00000039242	B3galnt2	A930105D20Rik|C80633|D230016N13Rik	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2	protein-coding	91.5	151.0	79.0	1241.0	215.0	85.5	56.0	60.5
Merged-chr14-74848332-4	chr14	74848234	74848434	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 2 of 19)	intron (NM_001033439, intron 2 of 19)	99543.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	23.5	72.0	22.5	118.5	87.5	42.5	33.5	15.0
Merged-chr2-92375371-4	chr2	92375260	92375460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145122, exon 1 of 11)	5' UTR (NM_145122, exon 1 of 11)	121.0	NM_145122	18633.0	Mm.202782	NM_145122	ENSMUSG00000027222	Pex16	-	peroxisomal biogenesis factor 16	protein-coding	248.0	425.0	306.0	4098.5	581.5	232.5	296.5	230.0
Merged-chr17-80207380-4	chr17	80207273	80207473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_036615)	promoter-TSS (NR_036615)	-68.0	NM_001195485	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	210.0	299.0	191.5	2818.5	481.0	204.0	203.5	199.5
Merged-chr10-42270872-4	chr10	42270762	42270962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	5880.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	134.5	237.0	180.5	2776.0	416.5	160.0	153.5	171.5
Merged-chr2-172400114-4	chr2	172400006	172400206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080820, intron 1 of 6)	L2c|LINE|L2	6312.0	NM_001276423	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	122.5	212.0	77.0	1404.5	380.0	133.5	127.0	90.0
Merged-chr3-104481511-4	chr3	104481416	104481616	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025067, intron 9 of 17)	intron (NM_001025067, intron 9 of 17)	30402.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	17.5	19.5	17.5	483.0	47.0	15.0	32.5	16.0
Merged-chr7-101548374-3	chr7	101548258	101548458	+	943.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	7444.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	10.5	33.0	7.0	57.5	58.0	23.5	19.0	12.5
Merged-chr9-63990085-3	chr9	63989982	63990182	+	765.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008542, intron 3 of 3)	intron (NM_008542, intron 3 of 3)	31977.0	NM_008542	17130.0	Mm.325757	NM_008542	ENSMUSG00000036867	Smad6	Madh6|b2b390Clo	SMAD family member 6	protein-coding	16.0	18.0	13.5	86.0	14.5	2.5	8.0	11.0
Merged-chr7-108954433-2	chr7	108954333	108954533	+	983.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	20018.0	NM_025344	66085.0	Mm.182962	NM_025344	ENSMUSG00000031029	Eif3f	0610037M02Rik|AA409853|Eif3s5	eukaryotic translation initiation factor 3, subunit F	protein-coding	6.0	9.5	2.0	54.5	8.0	6.0	7.5	8.5
Merged-chr11-11557861-4	chr11	11557755	11557955	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68589.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	16.0	19.0	14.0	248.5	38.5	4.5	9.0	12.0
Merged-chr11-103116172-4	chr11	103116078	103116278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138753)	promoter-TSS (NM_138753)	-147.0	NM_138753	192231.0	Mm.8763	NM_138753	ENSMUSG00000048878	Hexim1	7330426E13Rik|CLP-1|Clp1|HIS1	hexamethylene bis-acetamide inducible 1	protein-coding	234.5	324.0	205.5	2738.5	570.5	247.0	218.5	219.5
Merged-chr18-38367425-4	chr18	38367316	38367516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28423.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	88.5	86.0	50.5	972.5	153.0	50.0	84.0	44.0
Merged-chr5-115530107-4	chr5	115529926	115530126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	23350.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	35.5	56.5	68.5	679.0	84.5	37.5	43.5	33.0
Merged-chr18-39835830-4	chr18	39835678	39835878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62281.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	35.0	42.5	26.5	613.5	76.0	26.0	44.0	29.5
Merged-chr6-57707431-3	chr6	57707327	57707527	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	MLT1F1|LTR|ERVL-MaLR	4972.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	7.0	10.0	10.0	91.0	16.0	7.5	6.0	4.5
Merged-chr7-114016449-4	chr7	114016357	114016557	+	966.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145584, intron 6 of 15)	intron (NM_145584, intron 6 of 15)	101324.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	7.0	14.5	20.0	252.0	59.5	23.5	29.5	19.5
Merged-chr13-24937538-4	chr13	24937448	24937648	+	908.5750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_102323, exon 1 of 2)	non-coding (NR_102323, exon 1 of 2)	113.0	NM_172532	214579.0	Mm.393311	NM_172532	ENSMUSG00000035936	Aldh5a1	6330403E24Rik|Ahd-1|Ahd1|D630032B01Rik|SSADH|Ssdh1	aldhehyde dehydrogenase family 5, subfamily A1	protein-coding	13.5	14.0	19.0	166.5	22.5	8.5	9.0	20.0
Merged-chr10-108300998-4	chr10	108300891	108301091	+	785.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31198.0	NM_054056	114774.0	Mm.391419	NM_054056	ENSMUSG00000035873	Pawr	2310001G03Rik|PAR4|Par-4	PRKC, apoptosis, WT1, regulator	protein-coding	9.5	19.5	3.0	258.0	12.5	19.5	16.5	18.0
Merged-chr3-121891646-3	chr3	121891500	121891700	+	806.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61629.0	NM_172525	214137.0	Mm.229287	NM_172525	ENSMUSG00000039831	Arhgap29	6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1	Rho GTPase activating protein 29	protein-coding	3.5	7.0	4.5	105.5	24.5	7.0	10.5	12.0
Merged-chr5-97345316-4	chr5	97345224	97345424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	47006.0	NM_001033191	97243.0	Mm.11746	NM_001033191	ENSMUSG00000046000	Naa11	Ard1b|Ard2|C80008	N(alpha)-acetyltransferase 11, NatA catalytic subunit	protein-coding	13.0	34.0	28.0	509.5	53.0	34.5	46.5	28.0
Merged-chr6-129548244-4	chr6	129548187	129548387	+	915.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-15003.0	NR_045270	100504641.0	Mm.398286	NR_045270	ENSMUSG00000097675	1700101I11Rik	-	RIKEN cDNA 1700101I11 gene	ncRNA	11.5	19.5	12.0	281.0	22.0	8.0	6.0	13.5
Merged-chr8-70546619-4	chr8	70546592	70546792	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	7017.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	7.5	30.5	18.0	277.5	32.0	14.5	9.5	19.0
Merged-chr10-93768402-3	chr10	93768328	93768528	+	691.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-63127.0	NM_001206851	327799.0	Mm.491598	NM_183199	ENSMUSG00000020020	Usp44	E430004F17Rik	ubiquitin specific peptidase 44	protein-coding	3.5	12.0	9.5	75.0	15.5	9.0	12.5	8.5
Merged-chr18-90508519-4	chr18	90508420	90508620	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAP1-MM_LTR|LTR|ERVK	-1634.0	NM_198295	67988.0	Mm.268041	NM_198295	ENSMUSG00000024614	Tmx3	6430411B10Rik|A730024F05Rik|AV259382|Txndc10|mKIAA1830	thioredoxin-related transmembrane protein 3	protein-coding	24.0	37.0	13.0	178.5	45.0	31.5	21.5	3.5
Merged-chr4-111687845-4	chr4	111687730	111687930	+	916.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32180.0	NM_026470	67946.0	Mm.275526	NM_026470	ENSMUSG00000034401	Spata6	1700062C23Rik|AI790763|Hash|KRP|Mash	spermatogenesis associated 6	protein-coding	13.5	8.5	15.0	240.0	32.5	13.5	37.5	21.0
Merged-chr15-103462753-4	chr15	103462633	103462833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153505, exon 7 of 31)	exon (NM_153505, exon 7 of 31)	8908.0	NM_153505	105855.0	Mm.30805	NM_153505	ENSMUSG00000022488	Nckap1l	4930568P13Rik|AI463083|Hem1|Hemp1	NCK associated protein 1 like	protein-coding	52.0	74.0	49.5	848.5	84.0	39.0	44.5	38.0
Merged-chr11-43748034-4	chr11	43747947	43748147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133795)	promoter-TSS (NM_133795)	-74.0	NM_133795	66827.0	Mm.271974	NM_133795	ENSMUSG00000041278	Ttc1	4833412C19Rik|C79328|TPR1	tetratricopeptide repeat domain 1	protein-coding	145.5	256.5	144.0	2748.5	472.0	207.0	241.0	184.0
Merged-chr8-13627777-4	chr8	13627639	13627839	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 2 of 23)	intron (NM_009025, intron 2 of 23)	49848.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	31.0	28.0	15.5	423.5	57.0	8.0	17.0	21.0
Merged-chr12-110855610-2	chr12	110855519	110855719	+	710.5	f0_balb.idr|f1_balb.idr	exon (NM_001199785, exon 2 of 7)	exon (NM_001199785, exon 2 of 7)	5340.0	NM_028365	72805.0	Mm.443524	NM_028365	ENSMUSG00000021271	Zfp839	2810455K09Rik	zinc finger protein 839	protein-coding	7.5	12.0	4.0	174.5	9.0	5.5	6.0	7.5
Merged-chr2-58665545-2	chr2	58665445	58665645	+	785.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 1 of 7)	intron (NM_001289660, intron 1 of 7)	-89639.0	NM_001289659	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	5.0	5.0	10.0	37.5	6.5	0.5	7.0	2.0
Merged-chr18-12974140-6	chr18	12973976	12974176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357396)	promoter-TSS (NM_001357396)	-384.0	NM_001357396	16210.0	Mm.8154	NM_008378	ENSMUSG00000024423	Impact	E430016J11Rik	impact, RWD domain protein	protein-coding	61.0	116.5	67.0	846.5	181.0	97.5	101.5	94.5
Merged-chr6-70790500-3	chr6	70790383	70790583	+	948.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009075, intron 1 of 8)	intron (NM_009075, intron 1 of 8)	1692.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	24.5	5.5	6.0	156.0	11.0	7.0	5.0	11.5
Merged-chr3-96230616-4	chr3	96230507	96230707	+	917.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	8520.0	NM_054045	97114.0	Mm.358797	NM_054045	ENSMUSG00000081058	Hist2h3c2	H3-614|H3.2-614|Hist2h3c2-ps|Hist2h3ca1|M32461	histone cluster 2, H3c2	protein-coding	8.0	12.0	11.0	229.5	35.5	13.0	15.0	14.0
Merged-chr15-95792479-4	chr15	95792383	95792583	+	879.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	1640.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	4.5	10.0	14.0	124.5	20.0	6.5	3.5	15.5
Merged-chr2-91196119-4	chr2	91196013	91196213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177730)	promoter-TSS (NM_001177730)	-997.0	NM_001177730	22259.0	Mm.22690	NM_013839	ENSMUSG00000002108	Nr1h3	AU018371|LXR|RLD1|Unr1	nuclear receptor subfamily 1, group H, member 3	protein-coding	29.5	88.0	30.5	538.0	87.5	20.5	35.0	30.5
Merged-chr6-65614440-4	chr6	65614321	65614521	+	941.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001495, intron 6 of 7)	MTD|LTR|ERVL-MaLR	24023.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	13.5	17.5	17.5	324.5	41.5	6.5	16.5	12.5
Merged-chr19-36538710-3	chr19	36538608	36538808	+	757.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15931.0	NM_001163471	226098.0	Mm.61107	NM_172637	ENSMUSG00000041180	Hectd2	4921524L07|A630025O09Rik|AW212605	HECT domain E3 ubiquitin protein ligase 2	protein-coding	11.0	9.5	9.0	83.5	18.5	11.0	9.5	7.0
Merged-chr2-166744658-4	chr2	166744561	166744761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30829.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	22.0	26.0	14.5	284.0	53.0	18.0	9.5	33.0
Merged-chr1-39615002-4	chr1	39614891	39615091	+	984.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36191.0	NM_170597	263764.0	Mm.122091	NM_170597	ENSMUSG00000050967	Creg2	A830098L22Rik	cellular repressor of E1A-stimulated genes 2	protein-coding	22.0	32.0	14.0	188.0	53.5	24.0	21.5	28.5
Merged-chr15-97422357-4	chr15	97422246	97422446	+	953.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175059.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	26.5	20.0	31.5	371.0	38.5	11.5	10.0	12.5
Merged-chr7-24112255-3	chr7	24112176	24112376	+	877.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021307)	promoter-TSS (NM_021307)	-44.0	NM_021307	57745.0	Mm.82678	NM_021307	ENSMUSG00000052675	Zfp112	Znf112|Znf228	zinc finger protein 112	protein-coding	16.0	6.0	13.5	215.0	10.0	6.0	3.0	6.5
Merged-chr1-61160715-3	chr1	61160606	61160806	+	876.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	182792.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	8.0	15.0	13.5	84.5	11.5	7.5	8.0	7.0
Merged-chr9-37540827-4	chr9	37540716	37540916	+	875.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020518, intron 3 of 6)	intron (NM_020518, intron 3 of 6)	1561.0	NM_020518	57276.0	Mm.27478	NM_020518	ENSMUSG00000001943	Vsig2	1190004B15Rik|2210413P10Rik|AU040484|CTX|Ctm	V-set and immunoglobulin domain containing 2	protein-coding	5.5	11.0	7.0	80.0	29.0	18.0	19.5	13.5
Merged-chr19-8018787-4	chr19	8018684	8018884	+	730.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR50A|LTR|ERVK	-52757.0	NM_001361980	171405.0	Mm.326517	NM_134256	ENSMUSG00000067656	Slc22a27	OAT6-L|OAT6-S|Oat9	solute carrier family 22, member 27	protein-coding	13.0	30.5	10.5	81.5	23.5	15.0	8.5	5.5
Merged-chr11-4096768-4	chr11	4096660	4096860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144520)	TTS (NM_144520)	-1329.0	NM_026443	67900.0	Mm.41719	NM_026443	ENSMUSG00000004748	Mtfp1	1700020C11Rik|2610507A21Rik|AV005788|Mtp18	mitochondrial fission process 1	protein-coding	242.5	359.5	234.0	2657.0	624.5	232.0	266.0	170.5
Merged-chr8-121792360-4	chr8	121792251	121792451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37218.0	NM_145605	234825.0	Mm.209329	NM_145605	ENSMUSG00000040263	Klhdc4	AA408426|AV352552|BC012312|G430025P05Rik	kelch domain containing 4	protein-coding	29.0	47.0	46.5	802.5	288.0	99.5	141.5	124.5
Merged-chr14-57730050-4	chr14	57729961	57730161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153382, intron 1 of 1)	intron (NM_153382, intron 1 of 1)	4357.0	NM_153382	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	42.0	52.5	57.5	958.0	95.0	43.0	66.5	75.5
Merged-chr6-87525360-4	chr6	87525235	87525435	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	7924.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	35.5	42.0	37.5	910.5	55.5	23.0	14.0	28.5
Merged-chr7-99962066-3	chr7	99961969	99962169	+	782.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	(CA)n|Simple_repeat|Simple_repeat	18389.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	12.0	7.5	6.0	117.5	10.5	2.0	4.5	4.0
Merged-chr8-41239539-4	chr8	41239442	41239642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023662)	promoter-TSS (NM_023662)	-217.0	NM_023662	18536.0	Mm.117896	NM_023662	ENSMUSG00000031592	Pcm1	2600002H09Rik|9430077F19Rik|C030044G17Rik	pericentriolar material 1	protein-coding	278.0	446.0	318.5	4355.5	611.0	205.0	315.0	244.5
Merged-chr8-46686941-4	chr8	46686826	46687026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M6|LINE|L1	52589.0	NR_045750	100503498.0	Mm.187358	NR_045750	ENSMUSG00000097534	Gm16675	-	predicted gene, 16675	ncRNA	44.0	61.5	50.0	399.5	68.0	31.5	47.5	40.0
Merged-chr8-120664732-4	chr8	120664604	120664804	+	862.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010926, intron 1 of 4)	intron (NM_010926, intron 1 of 4)	3408.0	NM_010926	18117.0	Mm.2136	NM_010926	ENSMUSG00000031819	Emc8	Cox4nb|Fam158b|Noc4	ER membrane protein complex subunit 8	protein-coding	9.0	15.5	12.5	176.5	18.5	5.0	15.0	9.5
Merged-chr9-23670843-4	chr9	23670752	23670952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-427166.0	NM_175678	319239.0	Mm.130824	NM_175678	ENSMUSG00000043659	Npsr1	9330128H10Rik|GPRA|Gpr154|MVTR|PGR14|VRR1	neuropeptide S receptor 1	protein-coding	82.0	78.0	88.5	1352.5	127.5	39.0	74.0	45.5
Merged-chr7-126701261-4	chr7	126701142	126701342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301374, intron 6 of 10)	intron (NM_001301374, intron 6 of 10)	2978.0	NM_001301374	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	33.5	100.0	29.0	391.5	135.5	38.5	50.5	36.5
Merged-chr5-35729314-4	chr5	35729202	35729402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194344)	promoter-TSS (NM_194344)	-26.0	NM_194344	231147.0	Mm.290429	NM_194344	ENSMUSG00000036553	Sh3tc1	4631428G15|BC024909	SH3 domain and tetratricopeptide repeats 1	protein-coding	183.0	290.0	233.0	3604.0	403.5	128.0	199.5	189.5
Merged-chr12-108642264-4	chr12	108642160	108642360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	6507.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	19.0	31.5	19.5	161.5	58.5	24.5	20.0	19.5
Merged-chr17-29371200-4	chr17	29371101	29371301	+	987.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159538, intron 9 of 15)	intron (NM_001159538, intron 9 of 15)	10287.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	15.5	21.0	9.0	222.0	50.5	18.5	11.0	9.5
Merged-chr7-118481598-4	chr7	118481476	118481676	+	957.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10399.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	16.5	8.5	6.5	145.0	131.0	39.5	43.0	35.0
Merged-chr8-83899360-1	chr8	83899260	83899460	+	596.0	f1_balb.idr	promoter-TSS (NM_181039)	promoter-TSS (NM_181039)	-738.0	NM_181039	330814.0	Mm.260733	NM_181039	ENSMUSG00000013033	Adgrl1	2900070I05Rik|AI182398|CLIBA|Lec2|Lphn1|mKIAA0821	adhesion G protein-coupled receptor L1	protein-coding	2.5	2.0	0.0	63.5	9.0	5.0	4.5	9.5
Merged-chr11-121747166-4	chr11	121747067	121747267	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44740.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	21.0	29.5	32.5	331.0	48.0	27.5	34.5	18.5
Merged-chr4-63496065-4	chr4	63495971	63496171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028640)	promoter-TSS (NM_028640)	-80.0	NM_001008791	73750.0	Mm.300397	NM_028640	ENSMUSG00000039137	Whrn	1110035G07Rik|AW122018|AW742671|C430046P22Rik|Dfnb31|Ush2d|wi	whirlin	protein-coding	66.5	76.5	35.5	1028.5	170.5	67.0	70.0	94.5
Merged-chr4-63544751-4	chr4	63544632	63544832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024173)	promoter-TSS (NM_024173)	-33.0	NM_024173	66290.0	Mm.371615	NM_024173	ENSMUSG00000039105	Atp6v1g1	1810024D14Rik|AA960677|ATP6J|Atp6g1|VAG1|Vma10	ATPase, H+ transporting, lysosomal V1 subunit G1	protein-coding	123.0	168.5	84.0	1236.0	322.5	120.0	120.0	92.5
Merged-chr2-22784384-2	chr2	22784284	22784484	+	666.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	10057.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	6.5	5.0	2.0	71.5	12.5	4.5	8.5	7.5
Merged-chr9-7222242-2	chr9	7222142	7222342	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37737.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	2.5	5.0	8.5	21.5	15.0	6.5	8.5	11.0
Merged-chr17-70753720-4	chr17	70753629	70753829	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	93048.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	39.5	31.0	26.0	328.0	54.0	25.5	18.5	18.5
Merged-chr13-44540596-3	chr13	44540485	44540685	+	681.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100858.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	9.5	11.5	7.5	59.5	17.0	4.0	8.5	3.0
Merged-chr16-45742912-4	chr16	45742812	45743012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272070)	promoter-TSS (NM_001272070)	43.0	NM_001272070	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	116.5	140.5	143.0	1577.0	282.0	118.0	158.0	100.0
Merged-chr1-131384645-4	chr1	131384549	131384749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	intron (NM_001081011, intron 4 of 22)	-105086.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	73.5	150.0	76.0	816.0	165.5	51.0	66.0	72.5
Merged-chr3-9128584-3	chr3	9128466	9128666	+	952.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66602.0	NR_040597	75149.0	Mm.399324	NR_040597	ENSMUSG00000103116	4930539M17Rik	-	RIKEN cDNA 4930539M17 gene	ncRNA	17.0	21.0	13.5	337.5	16.0	14.0	12.0	7.0
Merged-chr4-107285642-4	chr4	107285542	107285742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21526.0	NM_007860	13370.0	Mm.148342	NM_007860	ENSMUSG00000034785	Dio1	5DI|D1|ITDI1|TXDI1	deiodinase, iodothyronine, type I	protein-coding	151.0	209.0	129.5	2266.5	313.0	157.5	151.0	132.0
Merged-chr17-34174272-4	chr17	34174184	34174384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13046.0	NM_013585	16912.0	Mm.390983	NM_013585	ENSMUSG00000096727	Psmb9	Lmp-2|Lmp2	proteasome (prosome, macropain) subunit, beta type 9 (large multifunctional peptidase 2)	protein-coding	22.0	47.0	18.5	204.5	151.0	40.5	34.0	54.0
Merged-chr11-115696788-4	chr11	115696693	115696893	+	817.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	2741.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	10.5	6.0	4.0	122.5	28.5	16.5	7.5	14.5
Merged-chr7-16294400-3	chr7	16294270	16294470	+	884.9714359999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-7575.0	NM_001136471	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	4.5	2.5	2.5	39.0	18.0	6.0	7.0	8.0
Merged-chr3-75557466-4	chr3	75557360	75557560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019745)	promoter-TSS (NM_019745)	-33.0	NM_009250	20713.0	Mm.41560	NM_009250	ENSMUSG00000027834	Serpini1	AI837402|Ns|PI-12|PI12|Spi17	serine (or cysteine) peptidase inhibitor, clade I, member 1	protein-coding	100.5	139.5	96.0	1685.0	327.5	107.5	166.0	117.5
Merged-chr15-58264797-4	chr15	58264687	58264887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-49895.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	34.5	28.5	26.5	277.0	73.5	28.5	28.5	35.0
Merged-chr15-25623143-4	chr15	25623030	25623230	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	CpG	580.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	13.5	46.5	26.0	179.5	67.0	27.5	25.5	17.0
Merged-chr2-27768557-5	chr2	27768466	27768666	+	945.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57983.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	14.5	26.5	13.0	88.0	26.0	13.5	5.0	5.5
Merged-chr8-70606731-3	chr8	70606652	70606852	+	962.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133772, intron 1 of 16)	intron (NM_133772, intron 1 of 16)	1562.0	NM_133772	76900.0	Mm.6667	NM_133772	ENSMUSG00000070003	Ssbp4	1210002E11Rik|AW743380|Sspb4	single stranded DNA binding protein 4	protein-coding	8.0	10.5	1.5	43.5	30.5	6.5	5.5	6.0
Merged-chr8-116993582-4	chr8	116993455	116993655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026572)	promoter-TSS (NM_026572)	-106.0	NM_026572	68133.0	Mm.258462	NM_026572	ENSMUSG00000034424	Gcsh	1100001L02Rik|5730591C18Rik	glycine cleavage system protein H (aminomethyl carrier)	protein-coding	272.5	391.0	272.0	4837.0	679.0	271.5	423.5	359.0
Merged-chr1-152904675-4	chr1	152904569	152904769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2023.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	129.5	180.0	74.0	1384.5	264.5	96.0	118.5	77.0
Merged-chr11-84513586-4	chr11	84513479	84513679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019816)	promoter-TSS (NM_019816)	-78.0	NM_019816	56321.0	Mm.257482	NM_019816	ENSMUSG00000018697	Aatf	4933415H02Rik|5830465M17Rik|Che-1|Trb	apoptosis antagonizing transcription factor	protein-coding	107.0	154.0	60.0	1193.5	300.0	82.5	89.5	116.0
Merged-chr8-11187776-4	chr8	11187696	11187896	+	871.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-125009.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	16.0	15.0	21.5	209.0	14.0	9.0	7.0	9.5
Merged-chr7-42980314-4	chr7	42980201	42980401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-38497.0	NM_001105061	668612.0	Mm.469896	NM_001105061	ENSMUSG00000091528	Gm9268	EG668612|Vmn2r64	predicted gene 9268	protein-coding	46.0	78.5	53.5	646.0	76.0	51.5	36.0	40.5
Merged-chr6-24515059-4	chr6	24514914	24515114	+	900.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172535)	promoter-TSS (NM_172535)	53.0	NM_172535	214704.0	Mm.61131	NM_172535	ENSMUSG00000046192	Iqub	4932408B21Rik|Trs4	IQ motif and ubiquitin domain containing	protein-coding	12.5	12.0	10.0	133.0	15.0	6.0	14.5	8.0
Merged-chr9-95750319-4	chr9	95750185	95750385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311123)	promoter-TSS (NM_001311123)	73.0	NM_001311123	22063.0	Mm.149633	NM_011643	ENSMUSG00000032839	Trpc1	Mtrp1|Trp1|Trrp1	transient receptor potential cation channel, subfamily C, member 1	protein-coding	81.5	130.0	102.0	1317.5	231.0	89.5	109.5	99.5
Merged-chr14-20478958-4	chr14	20478852	20479052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110794, intron 1 of 12)	intron (NM_001110794, intron 1 of 12)	1181.0	NM_001110794	11750.0	Mm.280231	NM_009674	ENSMUSG00000021814	Anxa7	AI265384|AI316497|Anx7|synexin	annexin A7	protein-coding	71.5	137.5	45.0	785.5	162.0	71.0	29.5	52.5
Merged-chr3-79234269-4	chr3	79234163	79234363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	21344.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	37.5	30.5	52.0	875.5	97.0	12.0	41.0	44.5
Merged-chr17-71214755-3	chr17	71214645	71214845	+	863.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164885, intron 1 of 19)	intron (NM_001164885, intron 1 of 19)	10091.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	10.0	8.5	5.0	44.0	23.0	10.0	5.5	9.0
Merged-chr7-47053537-5	chr7	47053459	47053659	+	817.293335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026436, exon 3 of 3)	exon (NM_026436, exon 3 of 3)	2919.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	9.5	8.0	5.0	82.0	9.5	0.5	9.5	5.5
Merged-chr7-116608021-2	chr7	116607921	116608121	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103652.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	7.0	2.0	10.5	73.0	20.5	7.5	8.5	25.0
Merged-chr9-99139135-3	chr9	99139031	99139231	+	680.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 1 of 23)	intron (NM_029094, intron 1 of 23)	1080.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	4.5	2.0	10.0	61.0	19.5	9.0	13.0	9.5
Merged-chr2-32601608-3	chr2	32601507	32601707	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025311, intron 1 of 4)	intron (NM_001025311, intron 1 of 4)	1898.0	NM_001025311	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	10.0	16.0	4.5	49.0	12.5	2.5	8.0	6.0
Merged-chr12-100013056-4	chr12	100012955	100013155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	MLT1A0|LTR|ERVL-MaLR	48556.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	40.5	41.0	26.0	520.0	76.5	32.0	22.5	24.0
Merged-chr5-43737176-3	chr5	43737083	43737283	+	912.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359906, intron 35 of 37)	intron (NM_001359906, intron 35 of 37)	44966.0	NM_001159963	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	26.0	44.5	43.0	774.0	4.0	0.0	0.0	2.0
Merged-chr1-45882363-3	chr1	45882245	45882445	+	957.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43249.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	4.5	9.0	8.5	78.5	10.0	2.5	6.5	5.5
Merged-chr5-122811883-4	chr5	122811787	122811987	+	808.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042491, intron 5 of 16)	B3|SINE|B2	9455.0	NM_021505	59008.0	Mm.332667	NM_021505	ENSMUSG00000029472	Anapc5	2510006G12Rik|AA408751|AA536819|AA986414|APC5|Anpc5	anaphase-promoting complex subunit 5	protein-coding	9.0	27.0	7.5	79.5	30.5	16.5	19.5	11.5
Merged-chr1-174434339-2	chr1	174434248	174434448	+	791.5	f0_balb.idr|f1_balb.idr	Intergenic	RLTR22_Mur|LTR|ERVK	3918.0	NM_146761	258756.0	Mm.223188	NM_146761	ENSMUSG00000051509	Olfr414	MOR103-10	olfactory receptor 414	protein-coding	6.0	10.0	7.5	192.5	12.0	6.5	10.0	5.0
Merged-chr11-109247089-4	chr11	109246990	109247190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165934, intron 12 of 16)	L1MB8|LINE|L1	51091.0	NM_001165934	19739.0	Mm.38548	NM_011268	ENSMUSG00000020599	Rgs9	RGS9-1|Rgs9-2	regulator of G-protein signaling 9	protein-coding	77.0	205.5	84.5	726.0	245.0	76.0	90.5	47.5
Merged-chr9-69993182-4	chr9	69993089	69993289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008238, intron 1 of 9)	intron (NM_001008238, intron 1 of 9)	3723.0	NM_001008238	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	55.0	109.0	37.0	532.0	112.0	51.5	40.5	28.0
Merged-chr12-87472332-4	chr12	87472233	87472433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025507)	promoter-TSS (NM_025507)	-34.0	NM_025507	66354.0	Mm.271174	NM_025507	ENSMUSG00000021039	Snw1	2310008B08Rik|AW048543|NCoA-62|SKIP|Skiip	SNW domain containing 1	protein-coding	63.5	104.0	33.5	926.0	194.5	57.0	75.0	77.0
Merged-chr2-10049391-6	chr2	10049285	10049485	+	837.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027748)	promoter-TSS (NM_027748)	-776.0	NM_027748	209361.0	Mm.86343	NM_027748	ENSMUSG00000025782	Taf3	140kDa|4933439M23Rik|AW539625|TAF140|TAFII-140|TAFII140|mTAFII140	TATA-box binding protein associated factor 3	protein-coding	10.5	10.5	8.5	110.0	17.5	9.0	3.5	12.5
Merged-chr10-44659716-4	chr10	44659601	44659801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200953.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	143.5	278.5	148.0	1929.0	285.0	147.5	116.5	103.5
Merged-chr8-9977759-4	chr8	9977661	9977861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026868)	promoter-TSS (NM_026868)	44.0	NM_026868	68904.0	Mm.142570	NM_026868	ENSMUSG00000040396	Abhd13	1110065L07Rik|AI463703|AI788994	abhydrolase domain containing 13	protein-coding	117.5	146.5	132.0	1548.5	266.5	130.0	125.0	117.0
Merged-chr6-48086131-4	chr6	48086008	48086208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362062, intron 1 of 5)	CpG	485.0	NM_001347142	69228.0	Mm.207555	NM_001163475	ENSMUSG00000057691	Zfp746	2810407L07Rik|AI317225|Znf746	zinc finger protein 746	protein-coding	16.5	23.0	40.5	410.5	57.0	16.0	28.5	35.0
Merged-chr11-69766145-9	chr11	69766055	69766255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029348, intron 1 of 3)	CpG	243.0	NM_029348	75580.0	Mm.426361	NM_029348	ENSMUSG00000018750	Zbtb4	2310026P19Rik|9230111I22Rik|mKIAA1538	zinc finger and BTB domain containing 4	protein-coding	22.5	22.5	27.0	336.0	68.0	27.0	25.5	40.5
Merged-chr10-39774670-4	chr10	39774568	39774768	+	958.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011264, intron 1 of 31)	intron (NM_011264, intron 1 of 31)	42508.0	NM_011264	19714.0	Mm.439723	NM_011264	ENSMUSG00000019841	Rev3l	Rev|Rev3|Sez4	REV3 like, DNA directed polymerase zeta catalytic subunit	protein-coding	7.0	15.0	17.0	240.5	32.0	5.5	19.5	21.0
Merged-chr18-34989486-4	chr18	34989374	34989574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35123.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	29.5	48.0	21.5	727.5	72.5	17.5	29.5	32.5
Merged-chr9-110529190-4	chr9	110529079	110529279	+	981.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-3418.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	34.5	37.0	13.5	232.0	95.5	32.5	56.5	36.5
Merged-chr5-65860836-4	chr5	65860722	65860922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2747.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	53.5	39.0	42.0	726.5	102.0	40.0	62.5	52.0
Merged-chr16-21787823-4	chr16	21787701	21787901	+	980.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023737)	promoter-TSS (NM_023737)	33.0	NM_023737	74147.0	Mm.28100	NM_023737	ENSMUSG00000022853	Ehhadh	1300002P22Rik|HD|L-PBE|LBFP|LBP|MFP|MFP1|PBFE	enoyl-Coenzyme A, hydratase/3-hydroxyacyl Coenzyme A dehydrogenase	protein-coding	19.5	29.5	33.0	314.5	20.5	18.5	16.5	16.0
Merged-chr1-152622016-4	chr1	152621914	152622114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	3203.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	28.5	25.5	33.0	524.0	65.0	28.5	29.0	26.5
Merged-chr5-92375549-4	chr5	92375434	92375634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-12238.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	37.0	63.0	34.0	495.5	95.0	31.0	33.5	29.0
Merged-chr1-93081204-4	chr1	93081060	93081260	+	958.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294150, intron 1 of 46)	intron (NM_001294150, intron 1 of 46)	1320.0	NM_001294150	16560.0	Mm.276408	NM_008440	ENSMUSG00000014602	Kif1a	ATSV|C630002N23Rik|Gm1626|Kns1	kinesin family member 1A	protein-coding	11.0	34.5	9.0	68.0	35.0	13.5	16.5	10.0
Merged-chr5-92381933-4	chr5	92381835	92382035	+	898.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	intron (NM_001310664, intron 2 of 10)	-6199.0	NM_181728	109979.0	Mm.263514	NM_181728	ENSMUSG00000034842	Art3	4930569O04Rik|ARTC3	ADP-ribosyltransferase 3	protein-coding	13.5	9.5	7.5	135.5	44.0	14.5	26.0	30.5
Merged-chr1-134079190-4	chr1	134079107	134079307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007570)	promoter-TSS (NM_007570)	-52.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	322.5	454.5	336.0	3630.5	781.5	304.0	358.5	270.5
Merged-chr5-45450388-4	chr5	45450305	45450505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024236)	promoter-TSS (NM_024236)	-176.0	NM_024236	110391.0	Mm.30204	NM_024236	ENSMUSG00000015806	Qdpr	2610008L04Rik|D5Ertd371e|Dhpr|PKU2	quinoid dihydropteridine reductase	protein-coding	482.0	688.0	531.0	6670.0	1243.5	561.5	566.5	499.5
Merged-chr4-44163319-4	chr4	44163209	44163409	+	813.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038993, intron 1 of 11)	MTD|LTR|ERVL-MaLR	4229.0	NM_175201	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	9.0	16.0	14.0	204.0	31.5	6.5	8.5	18.5
Merged-chr13-90516116-4	chr13	90516009	90516209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	389246.0	NM_001145879	435376.0	Mm.292579	NM_001145879	ENSMUSG00000078958	Atp6ap1l	EG435376	ATPase, H+ transporting, lysosomal accessory protein 1-like	protein-coding	113.0	214.5	175.5	2461.0	222.0	99.5	133.5	94.0
Merged-chr10-19009566-4	chr10	19009465	19009665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166402, intron 1 of 7)	intron (NM_001166402, intron 1 of 7)	2398.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	264.5	421.0	178.5	1976.5	604.5	232.0	223.5	187.5
Merged-chr2-167367555-4	chr2	167367444	167367644	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18366.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	10.5	5.0	21.5	374.5	45.5	5.5	17.0	5.0
Merged-chr1-86501768-4	chr1	86501673	86501873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24784.0	NR_153834	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	34.5	70.5	12.5	345.0	90.5	40.0	38.5	49.0
Merged-chr13-23556228-4	chr13	23556084	23556284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145713)	TTS (NM_145713)	1152.0	NM_145713	14957.0	Mm.247046	NM_145713	ENSMUSG00000052565	Hist1h1d	H1.3|H1D|H1f3|H1s-4	histone cluster 1, H1d	protein-coding	51.5	78.0	67.5	862.0	143.5	41.5	91.5	78.5
Merged-chr8-117298383-4	chr8	117298277	117298477	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	41358.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	30.0	34.0	27.5	674.5	54.5	17.0	21.5	15.0
Merged-chr10-24591980-4	chr10	24591889	24592089	+	941.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3453.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	11.0	24.0	4.5	213.5	22.0	4.5	15.0	19.0
Merged-chr10-111102455-4	chr10	111102384	111102584	+	914.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62318.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	16.0	7.5	6.0	226.5	15.5	12.5	13.5	13.5
Merged-chr3-20538712-4	chr3	20538588	20538788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-171511.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	90.5	133.5	139.0	2024.0	244.5	65.0	104.0	75.5
Merged-chr10-86884324-4	chr10	86884073	86884273	+	919.62854	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 43 of 68)	intron (NM_138673, intron 43 of 68)	105168.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	3.0	5.5	0.0	90.5	11.5	5.5	7.0	7.5
Merged-chr6-116013876-4	chr6	116013770	116013970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18865.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	59.5	58.5	52.5	985.0	150.0	47.5	53.5	69.0
Merged-chr6-29912905-3	chr6	29912786	29912986	+	919.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021414)	TTS (NM_021414)	-4127.0	NM_177204	320609.0	Mm.56097	NM_177204	ENSMUSG00000039629	Strip2	D330017J20Rik|Fam40b	striatin interacting protein 2	protein-coding	5.5	9.5	7.5	251.5	21.0	10.5	9.0	17.0
Merged-chr17-8807553-2	chr17	8807454	8807654	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	5809.0	NM_011866	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	4.5	9.5	9.5	87.0	11.0	3.0	4.0	4.0
Merged-chr6-129534244-4	chr6	129534153	129534353	+	892.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045270)	promoter-TSS (NR_045270)	-969.0	NR_045270	100504641.0	Mm.398286	NR_045270	ENSMUSG00000097675	1700101I11Rik	-	RIKEN cDNA 1700101I11 gene	ncRNA	10.5	20.5	8.5	102.5	26.0	17.5	6.5	15.5
Merged-chr13-42866742-4	chr13	42866631	42866831	+	887.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302636, intron 1 of 12)	intron (NM_001302636, intron 1 of 12)	484.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	14.5	12.5	20.0	161.5	20.0	5.0	7.5	6.5
Merged-chr2-3630990-4	chr2	3630882	3631082	+	776.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82476.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	14.5	17.0	10.5	218.5	24.5	8.5	16.0	12.5
Merged-chr10-89454005-3	chr10	89453894	89454094	+	750.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163504)	TTS (NM_001163504)	-10027.0	NM_001033331	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	10.5	19.5	14.5	162.5	14.0	5.5	3.5	10.0
Merged-chr4-123921270-4	chr4	123921151	123921351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017475, intron 3 of 6)	intron (NM_017475, intron 3 of 6)	3818.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	63.5	112.5	90.5	1134.0	152.0	42.5	71.5	82.5
Merged-chr3-116857826-4	chr3	116857728	116857928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1739.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	69.5	89.5	50.0	779.5	174.5	50.0	54.0	56.0
Merged-chr13-49272437-4	chr13	49272338	49272538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 14 of 17)	intron (NM_015759, intron 14 of 17)	-23732.0	NM_028340	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	71.0	70.0	86.5	1446.5	105.0	24.0	58.5	45.5
Merged-chr13-97254908-3	chr13	97254814	97255014	+	790.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13809.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	8.5	7.5	2.5	73.5	13.5	7.0	4.5	18.0
Merged-chr4-32179941-4	chr4	32179856	32180056	+	899.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	215849.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	30.0	22.0	47.5	232.5	22.0	7.5	18.5	19.5
Merged-chr5-63968436-2	chr5	63968336	63968536	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_145923, intron 1 of 6)	CpG	461.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	10.0	16.0	27.5	318.5	49.5	16.5	20.5	27.5
Merged-chr5-93094098-4	chr5	93093967	93094167	+	968.744019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 1 of 9)	CpG	651.0	NM_001347377	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	15.5	83.0	25.5	313.0	28.5	6.0	7.5	5.5
Merged-chr4-34387108-4	chr4	34387024	34387224	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163491.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	12.0	7.5	5.5	118.5	22.5	2.5	4.5	12.5
Merged-chr15-100038662-4	chr15	100038576	100038776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159361)	promoter-TSS (NM_001159361)	12.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	52.5	92.5	56.0	745.5	128.5	73.5	61.5	61.5
Merged-chr7-141456951-4	chr7	141456852	141457052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028142, intron 2 of 9)	intron (NR_028142, intron 2 of 9)	1764.0	NM_001163689	66853.0	Mm.29998	NM_025802	ENSMUSG00000025509	Pnpla2	0610039C21Rik|1110001C14Rik|Atgl|TTS-2.2	patatin-like phospholipase domain containing 2	protein-coding	46.0	37.0	20.0	457.5	79.0	32.0	23.5	26.0
Merged-chr18-54901069-4	chr18	54900972	54901172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	89108.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	35.5	24.5	38.5	917.5	97.5	28.0	52.5	34.0
Merged-chr8-103482417-3	chr8	103482328	103482528	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121371.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	12.5	8.0	10.0	193.0	8.0	5.0	3.5	5.5
Merged-chr2-29670360-4	chr2	29670269	29670469	+	797.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	B3A|SINE|B2	50649.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	7.0	11.0	1.5	115.5	25.0	4.5	9.5	17.5
Merged-chr16-91728738-4	chr16	91728620	91728820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133679)	promoter-TSS (NM_133679)	82.0	NM_026994	66609.0	Mm.109823	NM_026994	ENSMUSG00000058240	Cryzl1	2210407J23Rik|2410006O11Rik|QOH-1	crystallin, zeta (quinone reductase)-like 1	protein-coding	193.5	268.5	171.5	2412.0	472.0	199.5	239.0	191.5
Merged-chr17-64579991-4	chr17	64579911	64580111	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21638.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	26.0	27.5	31.0	335.0	65.0	18.0	19.5	24.5
Merged-chr8-75071854-4	chr8	75071864	75072064	+	967.09375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21654.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	14.5	9.0	6.5	150.5	18.5	3.0	11.0	10.5
Merged-chr2-34777452-12	chr2	34777344	34777544	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022310)	TTS (NM_022310)	5354.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	10.0	21.5	7.0	47.5	35.0	19.0	10.5	17.5
Merged-chr19-43711762-4	chr19	43711676	43711876	+	950.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053103, exon 6 of 13)	exon (NM_053103, exon 6 of 13)	22087.0	NM_053103	93685.0	Mm.248237	NM_053103	ENSMUSG00000025192	Entpd7	1810012B13Rik|1810020C02Rik|2810003F23Rik|LALP1|Lysal2	ectonucleoside triphosphate diphosphohydrolase 7	protein-coding	8.0	25.0	16.5	179.5	39.0	8.0	22.5	14.5
Merged-chr13-94286336-3	chr13	94286280	94286480	+	797.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346609)	promoter-TSS (NM_001346609)	-549.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	6.0	5.5	15.0	48.0	11.5	3.0	8.0	8.0
Merged-chr1-152528943-4	chr1	152528856	152529056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 14 of 17)	L1MEd|LINE|L1	96261.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	162.0	280.5	154.0	2112.0	429.0	147.5	196.5	139.5
Merged-chr8-86903314-4	chr8	86903202	86903402	+	769.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18044.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	14.5	13.0	7.0	177.0	31.0	8.0	6.0	13.0
Merged-chr5-147866360-4	chr5	147866299	147866499	+	672.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025624, intron 2 of 5)	ORR1A2-int|LTR|ERVL-MaLR	5771.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	5.0	5.5	1.5	41.5	12.0	4.5	8.5	11.0
Merged-chr8-79058711-4	chr8	79058611	79058811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 1 of 14)	intron (NM_001294279, intron 1 of 14)	30274.0	NM_178267	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	45.0	37.5	38.0	823.5	34.0	1.5	15.5	5.5
Merged-chr18-12741283-4	chr18	12741177	12741377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181731)	promoter-TSS (NM_181731)	-78.0	NM_181731	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	148.0	227.0	143.5	2392.0	441.0	167.5	159.5	154.0
Merged-chr9-86467174-4	chr9	86467027	86467227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177208)	promoter-TSS (NM_177208)	-27.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	112.0	130.0	96.0	1388.5	274.0	103.5	132.0	104.5
Merged-chr2-132019424-4	chr2	132019273	132019473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 1 of 10)	intron (NM_175445, intron 1 of 10)	10615.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	30.0	32.0	45.5	422.0	49.5	14.5	16.5	21.5
Merged-chr2-90509425-4	chr2	90509327	90509527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-30253.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	48.5	51.0	26.0	491.5	101.5	34.5	43.0	21.5
Merged-chr4-33248650-4	chr4	33248513	33248713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033225, exon 1 of 2)	5' UTR (NM_001033225, exon 1 of 2)	174.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	423.0	681.0	503.5	6141.0	1107.0	473.5	605.5	456.5
Merged-chr18-56439956-1	chr18	56439856	56440056	+	696.5	f0_balb.idr	intron (NM_026240, intron 1 of 13)	intron (NM_026240, intron 1 of 13)	7824.0	NM_026240	107022.0	Mm.24356	NM_026240	ENSMUSG00000001700	Gramd3	9030613F08Rik|9130427A09Rik|AW061306|Gramd2b|NS3TP2	GRAM domain containing 3	protein-coding	2.5	11.5	14.0	114.5	22.0	7.0	6.5	13.0
Merged-chr16-44778948-4	chr16	44778844	44779044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021325, intron 1 of 6)	intron (NM_021325, intron 1 of 6)	13208.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	45.5	69.0	54.5	1094.5	126.0	29.5	48.0	42.0
Merged-chr2-145794688-4	chr2	145794593	145794793	+	911.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	8577.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	9.0	18.5	15.5	224.5	29.0	20.0	19.0	10.5
Merged-chr6-115666847-4	chr6	115666747	115666947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029780, intron 1 of 16)	intron (NM_029780, intron 1 of 16)	9041.0	NM_001356334	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	141.0	215.0	137.5	1679.0	316.5	155.0	100.5	127.5
Merged-chr6-120463243-4	chr6	120463123	120463323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008359)	promoter-TSS (NM_008359)	26.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	30.0	64.5	32.5	414.0	91.0	36.0	29.5	36.5
Merged-chr3-97868247-4	chr3	97868130	97868330	+	857.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 1 of 46)	CpG	20477.0	NM_001289702	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	7.0	17.0	11.0	265.0	28.5	4.5	9.5	10.5
Merged-chr3-154286581-3	chr3	154286486	154286686	+	995.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43974.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	21.0	6.5	15.0	383.0	18.0	5.0	9.5	10.0
Merged-chr6-37605100-3	chr6	37605012	37605212	+	741.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74939.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	7.5	4.0	5.0	155.0	19.0	9.0	6.5	8.5
Merged-chr1-86399524-4	chr1	86399411	86399611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10150.0	NM_001319227	14767.0	Mm.389159	NM_010341	ENSMUSG00000026237	Nmur1	FM-3|Gpr66|NMU-R1|NMU1R|NmU-R	neuromedin U receptor 1	protein-coding	63.0	34.0	47.0	699.0	115.0	42.0	53.5	53.0
Merged-chr7-43538743-4	chr7	43538648	43538848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5577.0	NM_021293	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	39.5	39.0	50.0	599.5	47.5	19.5	26.0	29.5
Merged-chr6-134263075-4	chr6	134262957	134263157	+	886.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007961, exon 7 of 8)	exon (NM_007961, exon 7 of 8)	-133272.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	13.0	26.0	22.0	299.0	26.5	22.5	6.0	9.5
Merged-chr2-179975282-2	chr2	179975182	179975382	+	815.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081092, intron 1 of 14)	intron (NM_001081092, intron 1 of 14)	1364.0	NM_001081092	228980.0	Mm.235542	NM_001081092	ENSMUSG00000039117	Taf4	135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a	TATA-box binding protein associated factor 4	protein-coding	7.5	7.0	3.0	88.5	14.5	7.0	7.0	5.5
Merged-chr5-113873120-4	chr5	113873001	113873201	+	949.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 2 of 10)	intron (NM_011779, intron 2 of 10)	35605.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	17.0	13.5	12.5	291.5	27.0	13.5	15.0	19.0
Merged-chr2-71002670-4	chr2	71002591	71002791	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 2 of 9)	intron (NM_145524, intron 2 of 9)	15683.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	15.5	43.5	18.5	285.0	41.0	23.5	33.0	24.5
Merged-chr11-46808452-4	chr11	46808387	46808587	+	831.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2312.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	7.5	21.0	8.0	104.0	34.5	9.0	3.5	4.5
Merged-chr11-103115406-4	chr11	103115311	103115511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138753)	promoter-TSS (NM_138753)	-914.0	NM_138753	192231.0	Mm.8763	NM_138753	ENSMUSG00000048878	Hexim1	7330426E13Rik|CLP-1|Clp1|HIS1	hexamethylene bis-acetamide inducible 1	protein-coding	45.0	65.5	26.5	466.5	71.0	25.0	20.5	41.5
Merged-chr8-71371679-4	chr8	71371582	71371782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029865, exon 1 of 4)	exon (NM_029865, exon 1 of 4)	384.0	NM_001293800	77090.0	Mm.440170	NM_029865	ENSMUSG00000002396	Ocel1	9430098E02Rik|AI326022|AI593544	occludin/ELL domain containing 1	protein-coding	274.5	448.0	262.5	3253.0	592.0	261.5	316.5	228.0
Merged-chr16-33381340-3	chr16	33381243	33381443	+	970.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358570)	promoter-TSS (NM_001358570)	41.0	NM_001358570	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	9.0	12.0	12.0	122.5	17.0	13.5	3.5	8.0
Merged-chr17-66219936-4	chr17	66219886	66220086	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96466.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	12.0	13.5	17.5	328.5	31.0	7.5	7.5	5.0
Merged-chr7-35137725-4	chr7	35137603	35137803	+	884.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	18410.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	20.5	12.0	6.5	195.0	19.0	8.5	16.5	12.0
Merged-chr3-100920868-4	chr3	100920764	100920964	+	865.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1629.0	NM_001165952	229644.0	Mm.189351	NM_194343	ENSMUSG00000033233	Trim45	4921530N01Rik	tripartite motif-containing 45	protein-coding	8.5	16.5	15.0	168.0	35.0	8.5	6.5	11.0
Merged-chr9-32445929-4	chr9	32445832	32446032	+	754.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 5 of 8)	intron (NM_008026, intron 5 of 8)	51947.0	NM_001168354	56379.0	Mm.390168	NM_019659	ENSMUSG00000041248	Kcnj1	Kir1.1|ROMK|Romk2	potassium inwardly-rectifying channel, subfamily J, member 1	protein-coding	9.5	12.0	10.0	90.5	21.5	7.5	11.0	14.0
Merged-chr17-34304450-4	chr17	34304352	34304552	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1415.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	22.5	38.0	9.0	185.0	54.5	16.0	14.5	25.0
Merged-chr7-126144000-4	chr7	126143885	126144085	+	728.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 8 of 23)	intron (NM_028816, intron 8 of 23)	56516.0	NM_001311143	74204.0	Mm.235663	NM_028816	ENSMUSG00000000131	Xpo6	2610005L19Rik|AL022631|C230091E20Rik|R75304|Ranbp20|exp6|mKIAA0370	exportin 6	protein-coding	5.5	13.5	1.0	72.0	27.5	4.5	7.0	13.5
Merged-chr7-140957021-2	chr7	140956921	140957121	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-1060.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	7.0	10.0	11.0	77.5	22.0	1.5	3.0	6.5
Merged-chr13-67451611-4	chr13	67451518	67451718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177712)	promoter-TSS (NM_177712)	6.0	NM_177712	238692.0	Mm.486478	NM_177712	ENSMUSG00000069206	Zfp874a	C330011K17Rik|Rslcan15|Zfp874	zinc finger protein 874a	protein-coding	44.0	39.0	47.5	672.0	102.0	43.5	62.0	38.0
Merged-chr11-100860373-4	chr11	100860245	100860445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164062)	promoter-TSS (NM_001164062)	-139.0	NM_001164062	20850.0	Mm.277403	NM_011488	ENSMUSG00000004043	Stat5a	AA959963|STAT5	signal transducer and activator of transcription 5A	protein-coding	109.0	166.0	90.0	1356.5	187.0	83.0	70.0	61.0
Merged-chr15-41639885-4	chr15	41639779	41639979	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	intron (NR_152565, intron 2 of 17)	-149116.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	31.0	22.5	35.5	908.0	41.5	11.0	30.5	22.0
Merged-chr2-129304673-4	chr2	129304564	129304764	+	941.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010554, intron 5 of 6)	intron (NM_010554, intron 5 of 6)	5308.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	10.5	11.5	8.0	121.0	39.0	15.5	19.5	21.5
Merged-chr2-130450343-4	chr2	130450232	130450432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163688)	promoter-TSS (NM_001163688)	54.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	50.0	79.0	66.5	853.5	107.5	50.0	60.0	54.0
Merged-chr12-4237191-4	chr12	4237102	4237302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001204912, exon 2 of 2)	3' UTR (NM_001204912, exon 2 of 2)	3175.0	NM_001204912	69709.0	Mm.250552	NM_001204912	ENSMUSG00000096199	Ptrhd1	2410017P09Rik	peptidyl-tRNA hydrolase domain containing 1	protein-coding	56.0	119.5	54.5	1100.0	115.0	51.5	73.0	52.5
Merged-chr13-64432791-1	chr13	64432691	64432891	+	1000.0	f0_c57.idr	intron (NM_053180, intron 1 of 7)	CpG	238.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	72.5	90.0	71.5	848.5	129.5	52.5	82.0	59.0
Merged-chr15-75089327-2	chr15	75089229	75089429	+	643.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	22608.0	NM_001357693	100041546.0	Mm.482110	NM_001099217	ENSMUSG00000022584	Ly6c2	Ly-6C.2|Ly-6C2	lymphocyte antigen 6 complex, locus C2	protein-coding	4.5	13.5	5.0	127.0	14.0	1.5	5.0	9.0
Merged-chr5-137779245-2	chr5	137779145	137779345	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027242, intron 1 of 3)	CpG	341.0	NM_027242	69871.0	Mm.276058	NM_027242	ENSMUSG00000029725	Ppp1r35	2010007H12Rik|2010011D20Rik|AL024004	protein phosphatase 1, regulatory subunit 35	protein-coding	10.0	11.0	0.0	117.5	13.5	4.5	11.0	8.0
Merged-chr18-9486566-4	chr18	9486485	9486685	+	954.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36431.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	21.0	29.0	38.0	751.0	61.0	14.0	14.0	20.5
Merged-chr8-109750401-2	chr8	109750301	109750501	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12662.0	NM_001080930	52335.0	Mm.276770	NM_001080930	ENSMUSG00000069895	Atxn1l	AW558552|Boat|C330011L24Rik|D6Mgi37|D8Ertd587e	ataxin 1-like	protein-coding	17.0	14.5	5.0	75.5	11.0	9.5	6.5	5.0
Merged-chr4-83269841-4	chr4	83269751	83269951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 3 of 19)	B4|SINE|B4	54338.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	90.0	101.0	85.5	1572.5	216.5	83.0	118.5	97.0
Merged-chr13-102896001-4	chr13	102895896	102896096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	135741.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	49.0	63.5	31.5	733.0	62.0	27.5	27.0	30.5
Merged-chr1-131094627-3	chr1	131094519	131094719	+	704.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	MIR3|SINE|MIR	3224.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	5.0	11.0	6.0	40.5	9.0	9.5	7.0	6.5
Merged-chr17-80207861-1	chr17	80207761	80207961	+	678.0	f0_balb.idr	promoter-TSS (NR_036615)	promoter-TSS (NR_036615)	-556.0	NM_001195485	225027.0	Mm.292016	NM_146083	ENSMUSG00000024097	Srsf7	35kDa|9430065L19Rik|9G8|NX-96|Sfrs7	serine/arginine-rich splicing factor 7	protein-coding	9.5	32.5	9.5	100.0	24.5	4.5	8.5	21.5
Merged-chr11-20632459-4	chr11	20632351	20632551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038625, intron 1 of 1)	CpG	474.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	47.0	99.5	102.5	838.5	237.0	102.5	54.5	112.0
Merged-chr11-89028048-4	chr11	89027950	89028150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	28647.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	37.5	50.0	49.5	637.0	158.5	48.5	34.5	34.5
Merged-chr5-112280350-4	chr5	112280224	112280424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	MIR3|SINE|MIR	3633.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	77.0	90.0	134.5	1872.5	188.5	70.0	104.5	117.5
Merged-chr2-17788427-1	chr2	17788327	17788527	+	854.0	f0_balb.idr	Intergenic	Intergenic	-57359.0	NM_028757	74103.0	Mm.120298	NM_028757	ENSMUSG00000053702	Nebl	1200007O21Rik|A630080F05Rik|BB140644|D830029A09Rik|Lnebl	nebulette	protein-coding	6.0	8.0	13.0	125.5	6.0	7.0	3.0	4.5
Merged-chr4-33251914-3	chr4	33251814	33252014	+	937.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3127.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	12.5	11.0	8.0	237.0	12.0	5.0	4.5	5.0
Merged-chr1-155084635-4	chr1	155084536	155084736	+	734.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1372.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	4.0	15.5	2.5	84.5	35.5	11.0	12.5	10.0
Merged-chr17-21536268-4	chr17	21536160	21536360	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131123)	promoter-TSS (NR_131123)	-382.0	NR_131123	319870.0	Mm.488274	NR_131123	ENSMUSG00000097781	9330136K24Rik	-	RIKEN cDNA 9330136K24 gene	ncRNA	30.0	30.5	22.0	346.0	41.5	21.0	22.0	17.5
Merged-chr7-102233045-4	chr7	102232927	102233127	+	864.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111937, intron 2 of 5)	B2_Mm2|SINE|B2	9999.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	13.5	29.5	9.5	67.5	40.5	20.5	13.0	10.0
Merged-chr3-28027104-4	chr3	28026980	28027180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 3 of 25)	intron (NM_008875, intron 3 of 25)	42909.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	15.0	32.0	37.5	535.0	64.0	22.5	30.5	49.0
Merged-chr5-135630717-3	chr5	135630609	135630809	+	853.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1945.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	19.0	17.5	12.0	194.5	11.0	6.0	11.0	1.0
Merged-chr6-5292942-3	chr6	5292845	5293045	+	771.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183308, intron 1 of 8)	intron (NM_183308, intron 1 of 8)	5428.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	8.5	21.0	16.0	100.0	13.0	2.5	4.0	3.5
Merged-chr4-47333734-4	chr4	47333630	47333830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19492.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	37.0	44.5	51.0	927.0	56.0	32.0	32.5	27.0
Merged-chr1-40356139-3	chr1	40356042	40356242	+	955.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356478, intron 8 of 10)	intron (NM_001356478, intron 8 of 10)	31553.0	NM_133193	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	20.5	30.0	22.5	284.0	13.5	7.5	8.5	14.5
Merged-chr9-56924762-4	chr9	56924672	56924872	+	942.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175483, intron 1 of 1)	intron (NM_175483, intron 1 of 1)	3599.0	NM_175483	235406.0	Mm.191459	NM_175483	ENSMUSG00000032733	Snx33	E130307J07Rik|Sh3px3	sorting nexin 33	protein-coding	46.0	43.5	26.0	624.5	52.5	16.5	9.0	12.5
Merged-chr10-33986992-4	chr10	33986891	33987091	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_015526)	TTS (NR_015526)	8064.0	NR_015526	414093.0	Mm.156915	NR_015526	ENSMUSG00000112280	A830082N09Rik	Gm17567	RIKEN cDNA A830082N09 gene	ncRNA	10.5	27.0	13.0	238.0	46.0	16.0	21.5	10.0
Merged-chr11-117707025-4	chr11	117706920	117707120	+	967.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 3 of 21)	MTC|LTR|ERVL-MaLR	52731.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	20.5	36.0	16.0	261.0	33.5	12.0	25.0	16.0
Merged-chr10-60371745-4	chr10	60371632	60371832	+	927.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001159572, exon 7 of 7)	3' UTR (NM_001159572, exon 7 of 7)	24881.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	29.0	14.0	24.0	284.0	22.0	7.5	10.0	8.5
Merged-chr17-34033486-4	chr17	34033360	34033560	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205214, intron 2 of 9)	intron (NM_001205214, intron 2 of 9)	1110.0	NM_001205215	20182.0	Mm.1243	NM_011306	ENSMUSG00000039656	Rxrb	AL023085|H-2RIIBP|Nr2b2|RCoR-1|Rub	retinoid X receptor beta	protein-coding	14.0	14.0	10.5	213.5	54.0	9.5	16.5	14.0
Merged-chr1-167269471-3	chr1	167269354	167269554	+	907.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030724, intron 1 of 6)	intron (NM_030724, intron 1 of 6)	15673.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	11.0	8.5	8.5	170.5	8.5	4.5	6.5	7.5
Merged-chr15-98894135-3	chr15	98894054	98894254	+	960.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007857, exon 3 of 3)	exon (NM_007857, exon 3 of 3)	4386.0	NM_007857	13363.0	Mm.324688	NM_007857	ENSMUSG00000023000	Dhh	C78960	desert hedgehog	protein-coding	8.5	10.0	2.5	92.5	21.5	10.0	6.0	19.5
Merged-chr3-146216775-2	chr3	146216675	146216875	+	913.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4186.0	NM_022983	65086.0	Mm.155520	NM_022983	ENSMUSG00000036832	Lpar3	Edg7|lpA3	lysophosphatidic acid receptor 3	protein-coding	4.5	5.5	4.0	76.5	18.0	8.5	14.5	6.0
Merged-chr9-40238499-2	chr9	40238399	40238599	+	817.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30717.0	NM_001083917	235281.0	Mm.290083	NM_153522	ENSMUSG00000049281	Scn3b	1110001K16Rik|4833414B02Rik|Scnb3	sodium channel, voltage-gated, type III, beta	protein-coding	0.0	6.5	3.5	103.5	8.0	5.0	4.5	9.5
Merged-chr17-29079054-4	chr17	29078913	29079113	+	975.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_036469, exon 1 of 2)	non-coding (NR_036469, exon 1 of 2)	113.0	NR_036469	100504267.0	Mm.438550	NR_036469	ENSMUSG00000085912	Trp53cor1	Gm16197|linc-p21|lincRNA-p21	tumor protein p53 pathway corepressor 1	ncRNA	22.5	47.0	22.0	292.5	55.5	16.0	14.0	20.0
Merged-chr8-88244499-4	chr8	88244400	88244600	+	775.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164499, intron 3 of 11)	intron (NM_001164499, intron 3 of 11)	-27903.0	NM_007406	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	8.5	8.0	6.5	81.5	22.0	9.5	9.5	8.5
Merged-chr1-134070942-3	chr1	134070874	134071074	+	754.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8181.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	8.5	12.0	6.5	43.5	13.0	2.0	1.5	12.0
Merged-chr2-113848355-4	chr2	113848252	113848452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_181416, exon 1 of 12)	5' UTR (NM_181416, exon 1 of 12)	309.0	NM_181416	228482.0	Mm.45753	NM_181416	ENSMUSG00000041219	Arhgap11a	6530401L14Rik|mKIAA0013	Rho GTPase activating protein 11A	protein-coding	66.5	92.0	68.5	1645.5	261.5	77.5	125.5	114.5
Merged-chr3-32708534-4	chr3	32708438	32708638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019673)	promoter-TSS (NM_019673)	-8.0	NM_019673	56456.0	Mm.41077	NM_019673	ENSMUSG00000027671	Actl6a	2810432C06Rik|AI851094|ARP4|Actl6|Baf53a|C79802	actin-like 6A	protein-coding	266.5	475.0	370.0	4798.0	722.5	270.5	403.5	239.0
Merged-chr8-36815029-4	chr8	36814935	36815135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 4 of 17)	intron (NM_001194940, intron 4 of 17)	-81981.0	NM_001194941	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	82.0	66.0	93.0	1202.0	155.0	47.0	77.5	56.5
Merged-chr5-142551161-4	chr5	142551037	142551237	+	913.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289588)	promoter-TSS (NM_001289588)	-39.0	NM_001289588	231858.0	Mm.33766	NM_178702	ENSMUSG00000029576	Radil	AI536456|D930005D10Rik	Ras association and DIL domains	protein-coding	14.0	20.0	8.0	148.0	53.0	13.0	14.0	12.0
Merged-chr4-130912382-4	chr4	130912295	130912495	+	901.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010686)	promoter-TSS (NM_010686)	-939.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	12.0	24.0	11.0	139.0	38.0	16.0	6.5	13.0
Merged-chr8-68876188-2	chr8	68876084	68876284	+	889.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4371.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	9.5	6.0	5.0	85.5	17.5	5.0	6.0	8.5
Merged-chr16-13818697-4	chr16	13818616	13818816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010946)	promoter-TSS (NM_010946)	-535.0	NM_010946	18203.0	Mm.380410	NM_010946	ENSMUSG00000022681	Ntan1	PNAA|PNAD	N-terminal Asn amidase	protein-coding	118.0	150.5	84.5	1699.5	371.0	109.5	198.0	119.5
Merged-chr10-81357489-4	chr10	81357413	81357613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028657)	promoter-TSS (NM_028657)	22.0	NM_028657	73822.0	Mm.182281	NM_028657	ENSMUSG00000034854	Mfsd12	C19orf28|F630110N24Rik|Wdt1|gr	major facilitator superfamily domain containing 12	protein-coding	86.0	105.5	76.0	1113.5	210.5	74.0	91.5	52.0
Merged-chr2-52606202-4	chr2	52606079	52606279	+	789.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	L2a|LINE|L2	-47568.0	NM_001285427	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	7.5	6.0	6.5	159.5	27.0	1.0	10.0	15.0
Merged-chr1-171366099-3	chr1	171365995	171366195	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4078.0	NM_027893	71740.0	Mm.263414	NM_027893	ENSMUSG00000006411	Nectin4	1200017F15Rik|Prr4|Pvrl4	nectin cell adhesion molecule 4	protein-coding	0.5	0.5	2.0	1.5	132.0	49.0	74.0	66.5
Merged-chr15-59612011-4	chr15	59611937	59612137	+	975.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36617.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	26.0	29.5	13.5	163.5	82.5	25.5	22.0	25.0
Merged-chr15-76879195-4	chr15	76879098	76879298	+	971.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358816)	promoter-TSS (NM_001358816)	-55.0	NM_145916	223669.0	Mm.38948	NM_145916	ENSMUSG00000033669	Zfp7	KRAB20|KRAB7|Krox-2|Zfp-7|Zfp65|Zfp80|Zfp86-rs1|mszf73-2	zinc finger protein 7	protein-coding	51.0	54.5	35.0	552.5	50.0	20.5	17.0	14.0
Merged-chr12-111160170-4	chr12	111160055	111160255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_130987, exon 4 of 4)	non-coding (NR_130987, exon 4 of 4)	-6215.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	135.5	291.5	148.0	1717.0	409.5	140.5	192.5	109.0
Merged-chr9-104035479-4	chr9	104035400	104035600	+	916.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028721, intron 19 of 26)	intron (NM_028721, intron 19 of 26)	27621.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	7.0	30.5	7.5	219.0	37.5	11.0	17.5	8.0
Merged-chr13-115230741-1	chr13	115230641	115230841	+	603.5	f0_balb.idr	Intergenic	Intergenic	-128777.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	6.5	10.0	7.0	69.0	12.5	2.5	8.5	6.0
Merged-chr2-151741286-4	chr2	151741192	151741392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305244)	promoter-TSS (NM_001305244)	18.0	NM_212446	228769.0	Mm.146984	NM_144889	ENSMUSG00000032869	Psmf1	AW048666|BC012260|PI31	proteasome (prosome, macropain) inhibitor subunit 1	protein-coding	38.0	39.5	26.0	489.5	81.5	32.0	37.0	34.0
Merged-chr13-9382029-4	chr13	9381936	9382136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	105511.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	54.5	42.5	22.0	554.5	77.0	18.5	34.5	40.0
Merged-chr2-49381207-4	chr2	49381117	49381317	+	796.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70269.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	7.5	14.0	2.5	239.5	27.0	12.0	10.5	10.0
Merged-chr5-33009936-4	chr5	33009837	33010037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8879.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	112.5	185.5	108.5	1611.5	186.0	87.0	118.0	84.5
Merged-chr8-36936546-4	chr8	36936471	36936671	+	824.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 2 of 17)	intron (NM_001194940, intron 2 of 17)	15871.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	6.5	11.0	20.5	317.0	32.0	10.0	6.5	9.5
Merged-chr14-36968805-4	chr14	36968695	36968895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027045)	promoter-TSS (NM_027045)	-31.0	NM_027045	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	340.5	433.0	258.5	4777.0	755.5	257.5	381.0	282.0
Merged-chr12-3895431-4	chr12	3895335	3895535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 1 of 17)	intron (NM_153743, intron 1 of 17)	3691.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	36.0	41.5	47.5	1161.5	45.5	26.5	33.5	45.0
Merged-chr10-95617029-4	chr10	95616930	95617130	+	881.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-52884.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	18.5	25.0	12.5	352.5	24.0	9.5	10.0	12.5
Merged-chr13-20184513-2	chr13	20184410	20184610	+	847.25	f0_balb.idr|f0_c57.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	94003.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	9.5	16.5	7.0	168.0	30.5	9.5	3.0	11.5
Merged-chr9-42138582-3	chr9	42138517	42138717	+	888.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14320.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	2.0	1.5	12.5	67.5	13.0	6.0	6.0	5.5
Merged-chr18-36196210-2	chr18	36196110	36196310	+	697.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001167891, intron 1 of 9)	intron (NM_001167891, intron 1 of 9)	950.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	6.0	4.0	6.0	30.0	12.5	9.5	4.5	8.5
Merged-chr11-19965465-4	chr11	19965373	19965573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	41031.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	122.5	218.5	79.5	351.5	244.0	84.5	82.0	11.5
Merged-chr17-70829369-4	chr17	70829287	70829487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17390.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	100.5	121.5	91.5	1407.0	180.0	62.5	107.0	87.5
Merged-chr18-38403551-4	chr18	38403470	38403670	+	891.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB5|LINE|L1	-15337.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	20.0	14.5	16.5	445.5	26.0	10.0	15.0	16.5
Merged-chr7-16313041-6	chr7	16312924	16313124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133234, intron 2 of 3)	intron (NM_133234, intron 2 of 3)	3441.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	22.0	56.5	39.5	340.0	88.0	36.0	31.0	52.5
Merged-chr11-70844766-4	chr11	70844667	70844867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291143)	promoter-TSS (NM_001291143)	6.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	64.5	68.5	28.5	444.5	118.0	45.5	28.5	47.0
Merged-chr8-14890102-4	chr8	14890009	14890209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012000, intron 1 of 2)	intron (NM_012000, intron 1 of 2)	1573.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	118.0	168.5	141.5	2669.5	328.0	101.5	156.5	137.5
Merged-chr17-81579930-4	chr17	81579842	81580042	+	962.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 2 of 8)	intron (NR_104580, intron 2 of 8)	158445.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	15.0	18.5	14.5	479.0	37.5	12.5	16.5	8.5
Merged-chr2-126495997-1	chr2	126495897	126496097	+	687.333313	f0_balb.idr	intron (NM_001359975, intron 1 of 27)	intron (NM_001359975, intron 1 of 27)	3850.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	6.5	13.0	5.0	100.5	11.0	3.5	8.0	6.5
Merged-chr8-40610446-4	chr8	40610322	40610522	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040699, intron 1 of 13)	B3A|SINE|B2	24370.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	16.5	18.0	34.5	618.0	233.5	53.5	120.0	106.0
Merged-chr12-3843056-2	chr12	3842956	3843156	+	642.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 2 of 22)	PB1D11|SINE|Alu	19188.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	6.0	7.0	11.5	50.5	15.0	5.0	3.5	5.5
Merged-chr9-90243134-4	chr9	90243047	90243247	+	810.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 2 of 12)	intron (NM_194334, intron 2 of 12)	27622.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	22.5	20.5	27.0	556.5	34.0	6.0	12.0	7.5
Merged-chr11-35769419-4	chr11	35769328	35769528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145962)	promoter-TSS (NM_145962)	-67.0	NM_145962	211347.0	Mm.255044	NM_145962	ENSMUSG00000018846	Pank3	-	pantothenate kinase 3	protein-coding	391.0	535.0	393.5	5850.5	904.0	394.5	500.0	353.0
Merged-chr2-62461008-4	chr2	62460892	62461092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22661.0	NM_008100	14526.0	Mm.45494	NM_008100	ENSMUSG00000000394	Gcg	GLP-1|Glu|PPG	glucagon	protein-coding	22.0	48.5	18.0	187.5	84.0	19.0	21.0	23.5
Merged-chr17-70834621-4	chr17	70834511	70834711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	12166.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	85.5	100.0	51.0	797.0	167.5	75.5	86.5	85.5
Merged-chr7-122034502-4	chr7	122034425	122034625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026140, exon 9 of 9)	3' UTR (NM_026140, exon 9 of 9)	-13327.0	NM_028758	74105.0	Mm.29619	NM_028758	ENSMUSG00000030872	Gga2	1200007E24Rik|mKIAA1080	golgi associated, gamma adaptin ear containing, ARF binding protein 2	protein-coding	23.0	37.5	20.0	477.0	56.5	28.5	31.5	27.5
Merged-chr5-102069442-4	chr5	102069334	102069534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	CpG	487.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	33.0	29.5	50.5	570.0	81.0	31.5	61.5	47.0
Merged-chr9-77660648-2	chr9	77660548	77660748	+	859.166626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_172925)	TTS (NM_172925)	23916.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	5.0	7.0	6.0	219.5	6.5	4.5	3.5	6.0
Merged-chr18-67186430-4	chr18	67186338	67186538	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177137, intron 4 of 11)	intron (NM_177137, intron 4 of 11)	-18921.0	NM_024190	67064.0	Mm.73777	NM_024190	ENSMUSG00000109901	Chmp1b	2810405I11Rik|Chmp1b1	charged multivesicular body protein 1B	protein-coding	118.0	185.5	132.0	2118.5	23.0	14.0	12.0	14.5
Merged-chr18-12224097-4	chr18	12224005	12224205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008720, intron 1 of 24)	intron (NM_008720, intron 1 of 24)	12281.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	110.5	143.0	67.0	1495.5	233.0	102.0	123.0	122.5
Merged-chr13-5803801-4	chr13	5803704	5803904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54288.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	96.5	113.5	83.5	1109.0	193.0	70.0	76.5	80.5
Merged-chr9-41207630-4	chr9	41207519	41207719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040392, intron 1 of 4)	intron (NR_040392, intron 1 of 4)	1464.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	50.0	82.0	30.5	592.5	232.0	91.0	79.5	79.5
Merged-chr5-66147538-4	chr5	66147435	66147635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	B3A|SINE|B2	3443.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	82.5	69.0	51.0	790.0	135.5	47.0	70.5	35.0
Merged-chr17-56476531-4	chr17	56476428	56476628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011218)	promoter-TSS (NM_011218)	-48.0	NM_011218	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	42.5	72.5	35.0	554.0	124.5	57.5	44.5	50.5
Merged-chr15-5241896-3	chr15	5241784	5241984	+	958.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136079, intron 2 of 2)	intron (NM_001136079, intron 2 of 2)	2303.0	NM_001136079	19219.0	Mm.18509	NM_008965	ENSMUSG00000039942	Ptger4	EP4|Ptgerep4	prostaglandin E receptor 4 (subtype EP4)	protein-coding	6.5	3.0	9.5	81.0	19.5	11.5	15.5	15.0
Merged-chr18-60747158-5	chr18	60747091	60747291	+	819.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348101)	promoter-TSS (NM_001348101)	-445.0	NM_001348101	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	13.5	29.5	14.0	474.5	33.5	6.5	12.0	23.0
Merged-chr2-101886226-4	chr2	101886161	101886361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029635)	promoter-TSS (NM_029635)	-1.0	NM_029635	76501.0	Mm.330424	NM_029635	ENSMUSG00000027163	Commd9	1810029F08Rik|AA409293	COMM domain containing 9	protein-coding	67.0	98.0	90.0	983.5	208.0	85.5	90.0	93.0
Merged-chr5-121545444-4	chr5	121545332	121545532	+	903.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010765, exon 1 of 14)	5' UTR (NM_010765, exon 1 of 14)	460.0	NM_010765	17165.0	Mm.272206	NM_010765	ENSMUSG00000029454	Mapkapk5	MK5|PRAK	MAP kinase-activated protein kinase 5	protein-coding	12.0	25.0	18.0	147.5	25.5	14.5	14.0	18.5
Merged-chr15-83033356-4	chr15	83033252	83033452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271411)	promoter-TSS (NM_001271411)	45.0	NM_001271412	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	114.5	150.0	98.5	1553.5	191.5	70.5	89.5	92.0
Merged-chr1-88077329-4	chr1	88077220	88077420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201644, intron 1 of 4)	RLTR17|LTR|ERVK	6541.0	NM_201644	394434.0	Mm.300095	NM_201644	ENSMUSG00000090175	Ugt1a9	UDPGT|UDPGT 1-9|UGT1-09|UGT1.9|UGTP4|Ugt1a12|mUGTBr/P	UDP glucuronosyltransferase 1 family, polypeptide A9	protein-coding	27.0	35.5	17.0	204.0	68.0	19.0	19.5	10.0
Merged-chr8-25187701-4	chr8	25187645	25187845	+	796.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177089, intron 2 of 12)	intron (NM_177089, intron 2 of 12)	13797.0	NM_199323	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	6.5	22.0	5.0	251.5	11.5	4.5	8.5	5.0
Merged-chr14-70021611-4	chr14	70021474	70021674	+	742.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 4 of 6)	intron (NM_028560, intron 4 of 6)	-55871.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	2.5	14.5	11.5	96.0	18.5	6.0	10.5	5.5
Merged-chr10-118869845-4	chr10	118869718	118869918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014390)	promoter-TSS (NM_001014390)	-915.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	158.0	213.0	154.0	2554.5	348.0	120.0	206.5	152.0
Merged-chr12-16882668-3	chr12	16882552	16882752	+	826.766663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-12326.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	8.0	13.5	3.5	62.5	24.5	8.5	8.5	12.5
Merged-chr15-59650628-4	chr15	59650534	59650734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144549, intron 1 of 2)	intron (NM_144549, intron 1 of 2)	1980.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	75.5	86.5	57.5	979.5	118.5	58.0	80.5	57.0
Merged-chr14-33247842-4	chr14	33247705	33247905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	30982.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	130.0	135.5	115.5	1850.0	246.0	84.5	102.5	92.5
Merged-chr7-19309649-4	chr7	19309500	19309700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008036, exon 1 of 4)	5' UTR (NM_008036, exon 1 of 4)	445.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	69.5	102.5	19.5	366.5	182.0	94.0	62.0	80.0
Merged-chr13-98955384-4	chr13	98955268	98955468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER45R|DNA|hAT-Tip100	-28984.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	52.0	75.5	45.0	948.0	93.0	35.5	56.5	47.0
Merged-chr17-34262633-2	chr17	34262534	34262734	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207105)	promoter-TSS (NM_207105)	-593.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	5.5	2.0	12.5	44.5	10.0	5.0	10.5	9.0
Merged-chr15-88921641-4	chr15	88921500	88921700	+	767.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357736, intron 8 of 11)	intron (NM_001357736, intron 8 of 11)	32818.0	NM_001357736	239591.0	Mm.86807	NM_172818	ENSMUSG00000022388	Ttll8	1700019P01Rik|4933401B17	tubulin tyrosine ligase-like family, member 8	protein-coding	8.5	7.0	3.5	101.0	10.5	5.0	12.0	11.5
Merged-chr18-50113008-5	chr18	50112897	50113097	+	854.434265	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-15204.0	NM_008292	15488.0	Mm.277857	NM_008292	ENSMUSG00000024507	Hsd17b4	17-beta-HSD|17[b]-HSD|DBP|MFE-2|MFP2|MPF-2|Mfp-2|perMFE-2	hydroxysteroid (17-beta) dehydrogenase 4	protein-coding	6.0	13.0	15.0	146.5	38.5	9.5	11.0	8.0
Merged-chr17-5081075-3	chr17	5080974	5081174	+	846.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 2 of 19)	intron (NM_001085355, intron 2 of 19)	86000.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	12.0	12.0	15.0	195.5	13.0	6.0	13.0	10.5
Merged-chr9-70503312-4	chr9	70503199	70503399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357494)	promoter-TSS (NM_001357494)	79.0	NM_001357494	93836.0	Mm.29783	NM_033604	ENSMUSG00000032217	Rnf111	ARK|Arkadia	ring finger 111	protein-coding	82.5	113.5	84.5	945.5	149.0	75.5	78.5	74.5
Merged-chr12-84614739-4	chr12	84614629	84614829	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008992, intron 3 of 18)	intron (NM_008992, intron 3 of 18)	2737.0	NM_008992	19300.0	Mm.229109	NM_008992	ENSMUSG00000021240	Abcd4	P69r|P70R|Pxmp1l	ATP-binding cassette, sub-family D (ALD), member 4	protein-coding	29.0	26.0	20.0	299.5	44.0	20.5	16.0	11.0
Merged-chr5-138998251-6	chr5	138998166	138998366	+	905.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3313.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	10.5	18.5	8.5	122.0	25.0	8.5	10.0	16.5
Merged-chr3-9913473-4	chr3	9913375	9913575	+	723.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79796.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	10.0	14.5	14.5	200.0	10.0	11.5	14.5	5.0
Merged-chr7-16399638-2	chr7	16399542	16399742	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	CpG	-1554.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	42.5	80.0	67.0	522.0	102.5	34.0	76.5	66.0
Merged-chr7-44848697-1	chr7	44848597	44848797	+	1000.0	f0_c57.idr	promoter-TSS (NM_001290695)	promoter-TSS (NM_001290695)	382.0	NM_001042655	233204.0	Mm.27567	NM_144924	ENSMUSG00000038520	Tbc1d17	BC017607	TBC1 domain family, member 17	protein-coding	65.5	99.0	66.5	722.5	127.5	59.5	70.5	66.5
Merged-chr17-79569815-4	chr17	79569718	79569918	+	837.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45082.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	4.0	8.0	0.5	131.0	22.0	10.0	11.0	8.0
Merged-chr2-113445690-3	chr2	113445656	113445856	+	962.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 2 of 16)	intron (NM_001285459, intron 2 of 16)	4692.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	18.0	25.0	24.5	372.5	9.0	5.5	2.0	11.5
Merged-chr11-50038980-4	chr11	50038899	50039099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290750, intron 1 of 7)	intron (NM_001290750, intron 1 of 7)	13668.0	NM_001290750	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	53.5	82.0	43.5	701.0	126.5	49.5	42.5	40.0
Merged-chr11-32224997-4	chr11	32224889	32225089	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1516.0	NM_010822	268395.0	Mm.263161	NM_010822	ENSMUSG00000020287	Mpg	9830006D05|AI326268|APNG|Aag|Mid1	N-methylpurine-DNA glycosylase	protein-coding	14.5	26.0	17.0	376.5	40.5	10.5	23.5	27.5
Merged-chr13-60877458-4	chr13	60877357	60877557	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-13041.0	NM_178098	214639.0	Mm.19839	NM_178098	ENSMUSG00000050345	4930486L24Rik	AW545031	RIKEN cDNA 4930486L24 gene	protein-coding	20.5	50.0	44.5	314.5	83.5	23.0	23.5	8.5
Merged-chr15-98662729-8	chr15	98662626	98662826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080981, intron 1 of 16)	CpG	163.0	NM_001080981	74351.0	Mm.45725	NM_001080981	ENSMUSG00000003360	Ddx23	3110082M05Rik|4921506D17Rik	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	protein-coding	24.5	56.0	31.0	356.5	66.0	22.0	26.5	52.0
Merged-chr5-32742337-4	chr5	32742201	32742401	+	794.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347332, exon 3 of 9)	5' UTR (NM_001347332, exon 3 of 9)	4041.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	7.0	8.0	1.0	87.0	24.5	4.5	13.5	11.0
Merged-chr2-170101331-4	chr2	170101213	170101413	+	911.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29907.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	13.0	19.0	13.5	290.0	16.5	11.5	12.0	12.5
Merged-chr10-42504472-4	chr10	42504354	42504554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017472, intron 1 of 3)	intron (NM_017472, intron 1 of 3)	2400.0	NM_017472	54198.0	Mm.277870	NM_017472	ENSMUSG00000019804	Snx3	SDP3	sorting nexin 3	protein-coding	33.0	32.5	30.0	639.0	103.0	23.5	29.0	36.5
Merged-chr8-78821052-4	chr8	78820937	78821137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001191004, intron 1 of 4)	CpG	115.0	NM_001191004	78651.0	Mm.28694	NM_030145	ENSMUSG00000031683	Lsm6	1500031N17Rik|2410088K19Rik|AI747288	LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	84.0	94.0	78.5	1139.5	161.0	68.0	68.5	93.5
Merged-chr14-66175835-4	chr14	66175630	66175830	+	784.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172498, exon 11 of 30)	exon (NM_172498, exon 11 of 30)	34770.0	NM_144803	110902.0	Mm.57350	NM_144803	ENSMUSG00000022041	Chrna2	Acra-2|Acra2|BC011490	cholinergic receptor, nicotinic, alpha polypeptide 2 (neuronal)	protein-coding	11.5	6.0	5.0	75.5	9.5	2.5	5.0	8.0
Merged-chr3-32715347-4	chr3	32715228	32715428	+	942.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019673, intron 4 of 13)	intron (NM_019673, intron 4 of 13)	6782.0	NM_019673	56456.0	Mm.41077	NM_019673	ENSMUSG00000027671	Actl6a	2810432C06Rik|AI851094|ARP4|Actl6|Baf53a|C79802	actin-like 6A	protein-coding	15.0	17.0	5.0	134.5	48.5	18.5	19.0	14.0
Merged-chr2-152962335-4	chr2	152962222	152962422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083618)	promoter-TSS (NM_001083618)	-163.0	NM_029064	74711.0	Mm.44746	NM_029064	ENSMUSG00000074673	Ttll9	1700016F23Rik|4930509O20Rik|AW046572	tubulin tyrosine ligase-like family, member 9	protein-coding	181.5	216.5	172.5	2327.5	582.5	183.5	255.5	192.0
Merged-chr3-146108193-4	chr3	146108105	146108305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172864)	promoter-TSS (NM_172864)	-169.0	NM_172864	242253.0	Mm.235040	NM_172864	ENSMUSG00000043020	Wdr63	4931433A13Rik|IC140|Ida7	WD repeat domain 63	protein-coding	61.5	94.0	53.0	1007.5	346.5	93.5	131.5	109.0
Merged-chr11-83969249-1	chr11	83969149	83969349	+	863.6666869999999	f0_balb.idr	intron (NM_194341, intron 1 of 19)	B3|SINE|B2	4818.0	NM_194341	217030.0	Mm.82680	NM_194341	ENSMUSG00000034940	Synrg	Ap1gbp1|SYNG	synergin, gamma	protein-coding	9.5	18.0	2.5	177.0	16.5	6.5	7.5	10.5
Merged-chr12-111425479-4	chr12	111425389	111425589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 6 of 13)	intron (NM_001289487, intron 6 of 13)	8044.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	24.0	48.5	41.5	428.5	81.5	39.0	36.0	31.0
Merged-chr9-70012603-4	chr9	70012501	70012701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039519)	promoter-TSS (NM_001039519)	53.0	NR_104093	235459.0	Mm.293117	NM_199151	ENSMUSG00000033543	Gtf2a2	TFIIA-gamma|TfIIg|Tfiia2	general transcription factor II A, 2	protein-coding	43.5	68.0	51.0	493.0	113.0	46.5	46.5	47.5
Merged-chr11-83221594-4	chr11	83221490	83221690	+	911.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1986.0	NR_015519	100043636.0	Mm.295569	NR_015519	ENSMUSG00000087107	AI662270	AW496474	expressed sequence AI662270	ncRNA	11.0	11.0	14.0	134.0	40.5	4.0	16.0	14.5
Merged-chr18-8694347-3	chr18	8694229	8694429	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-518527.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	0.0	0.0	0.0	0.0	174.0	80.5	74.0	91.0
Merged-chr18-60848228-3	chr18	60848150	60848350	+	605.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011552, intron 1 of 24)	B1_Mus1|SINE|Alu	714.0	NM_011552	21453.0	Mm.486251	NM_011552	ENSMUSG00000024613	Tcof1	AA408847|AW209012|treacle	treacle ribosome biogenesis factor 1	protein-coding	9.0	4.5	3.0	38.0	19.5	5.0	5.0	8.5
Merged-chr7-49250252-4	chr7	49250206	49250406	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 1 of 37)	intron (NM_175272, intron 1 of 37)	4117.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	15.5	25.0	26.0	199.5	27.5	11.5	17.5	6.5
Merged-chr17-87602376-4	chr17	87602249	87602449	+	962.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33630.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	27.5	29.0	17.5	290.5	81.5	13.0	34.0	32.0
Merged-chr5-67297610-4	chr5	67297520	67297720	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9335.0	NM_178651	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	11.5	10.0	6.5	198.5	19.0	11.5	9.5	17.5
Merged-chr1-128615109-4	chr1	128615002	128615202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22803.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	45.5	41.0	48.5	802.0	79.0	26.0	23.0	22.5
Merged-chr3-79181364-4	chr3	79181244	79181444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31575.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	19.0	31.5	14.5	230.5	82.0	34.0	48.5	30.5
Merged-chr1-74284892-4	chr1	74284776	74284976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190444)	promoter-TSS (NM_001190444)	-138.0	NM_146110	227290.0	Mm.379371	NM_146110	ENSMUSG00000006299	Aamp	AU040907|Aamp-rs	angio-associated migratory protein	protein-coding	426.5	707.5	432.0	6279.0	1003.0	476.0	516.5	408.0
Merged-chr9-41445309-1	chr9	41445209	41445409	+	888.0	f0_balb.idr	intron (NR_131928, intron 3 of 4)	intron (NR_131928, intron 3 of 4)	-29584.0	NR_131931	73144.0	Mm.38166	NM_001033153	ENSMUSG00000074415	3110039I08Rik	2610203C20Rik|AI848448|D230004N17Rik|D3Mgi9|Mir100hg	RIKEN cDNA 3110039I08 gene	ncRNA	18.0	22.0	9.0	252.5	7.0	3.5	2.0	4.5
Merged-chr7-45339462-4	chr7	45339395	45339595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010473)	TTS (NM_010473)	4226.0	NM_010473	15464.0	Mm.39968	NM_010473	ENSMUSG00000038239	Hrc	-	histidine rich calcium binding protein	protein-coding	69.0	213.5	88.5	652.0	301.0	99.0	56.5	55.5
Merged-chr15-64447452-4	chr15	64447353	64447553	+	862.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-64534.0	NM_010026	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	11.5	12.0	7.0	349.0	32.5	9.5	15.5	13.0
Merged-chr10-75059522-3	chr10	75059418	75059618	+	809.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1378.0	NM_001081412	110279.0	Mm.333722	NM_001081412	ENSMUSG00000009681	Bcr	5133400C09Rik|AI561783|AI853148|mKIAA3017	breakpoint cluster region	protein-coding	10.5	17.5	9.0	275.0	26.0	7.0	12.0	11.0
Merged-chr13-5787306-4	chr13	5787206	5787406	+	812.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70786.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	3.5	21.0	5.0	106.0	39.0	10.0	11.0	4.5
Merged-chr1-182928624-4	chr1	182928486	182928686	+	973.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26202.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	9.0	15.0	37.0	178.5	29.0	7.0	17.5	24.0
Merged-chr4-59444204-1	chr4	59444104	59444304	+	620.0	f0_balb.idr	Intergenic	ID4|SINE|ID	-5571.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	6.0	7.0	7.0	70.0	11.5	3.0	1.0	5.5
Merged-chr14-103816796-4	chr14	103816702	103816902	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007904, exon 7 of 7)	3' UTR (NM_007904, exon 7 of 7)	26899.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	25.0	46.0	30.0	416.0	45.0	17.0	24.0	5.0
Merged-chr8-123248751-4	chr8	123248634	123248834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028200, intron 5 of 14)	intron (NM_028200, intron 5 of 14)	-5461.0	NM_020497	57247.0	Mm.379084	NM_020497	ENSMUSG00000001065	Zfp276	AW048709|D8Ertd370e|D8Ertd377e|Znf276	zinc finger protein (C2H2 type) 276	protein-coding	34.0	33.0	27.0	513.0	54.0	16.5	29.0	36.5
Merged-chr1-34013551-4	chr1	34013454	34013654	+	961.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134448, intron 1 of 97)	intron (NM_134448, intron 1 of 97)	1729.0	NM_134448	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	16.0	25.5	20.5	215.0	57.0	14.0	8.5	20.5
Merged-chr2-131939656-2	chr2	131939556	131939756	+	783.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001278259, intron 2 of 4)	intron (NM_001278259, intron 2 of 4)	-11205.0	NM_001278257	26434.0	Mm.180750	NM_023043	ENSMUSG00000027338	Prnd	AI450264|Dpl|PrPLP|doppel	prion like protein doppel	protein-coding	7.0	12.0	3.0	40.0	11.5	8.0	7.5	5.0
Merged-chr4-150583680-4	chr4	150583625	150583825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	68449.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	69.5	71.5	48.0	1065.0	108.0	41.5	50.5	60.0
Merged-chr14-54781912-4	chr14	54781826	54782026	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016972)	promoter-TSS (NM_016972)	-40.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	16.5	22.5	16.0	285.5	54.0	16.0	29.0	21.5
Merged-chr2-29640686-6	chr2	29640594	29640794	+	881.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	20974.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	8.0	10.5	1.5	88.5	12.5	7.0	4.5	10.5
Merged-chr18-56875424-3	chr18	56875331	56875531	+	956.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177115, intron 1 of 4)	MTD|LTR|ERVL-MaLR	50117.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	12.0	8.5	13.0	206.5	11.5	3.0	6.0	4.5
Merged-chr1-132296741-4	chr1	132296629	132296829	+	782.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-1897.0	NM_144810	213417.0	Mm.39723	NM_144810	ENSMUSG00000042115	Klhdc8a	A630065K24Rik	kelch domain containing 8A	protein-coding	8.0	26.5	11.0	11.0	30.5	6.0	16.5	1.5
Merged-chr8-117339589-4	chr8	117339461	117339661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-9609.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	60.0	99.0	73.0	938.0	259.5	91.0	83.0	73.5
Merged-chr10-60389705-4	chr10	60389575	60389775	+	893.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 30 of 68)	intron (NM_001252635, intron 30 of 68)	-10051.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	27.0	24.0	42.0	510.5	19.0	6.0	20.0	17.0
Merged-chr16-94517841-4	chr16	94517705	94517905	+	944.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007834, intron 1 of 7)	Lx5c|LINE|L1	8824.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	7.0	32.5	13.5	187.5	42.0	16.5	15.5	5.5
Merged-chr10-79670442-4	chr10	79670347	79670547	+	918.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148934, intron 1 of 1)	intron (NM_148934, intron 1 of 1)	1037.0	NM_148934	110012.0	Mm.22623	NM_148934	ENSMUSG00000020308	Tpgs1	AV005629|Gm16517|Gtrgeo22|PGs1	tubulin polyglutamylase complex subunit 1	protein-coding	12.5	12.5	16.5	129.0	27.0	10.0	12.5	22.0
Merged-chr12-84176859-4	chr12	84176752	84176952	+	929.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	17163.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	18.5	37.5	7.5	214.0	53.5	18.5	13.0	12.5
Merged-chr16-32087811-4	chr16	32087712	32087912	+	949.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024464, intron 3 of 5)	intron (NM_024464, intron 3 of 5)	-8470.0	NM_177326	224105.0	Mm.234204	NM_177326	ENSMUSG00000022781	Pak2	5330420P17Rik|A130002K10Rik|AI836325|D16Ertd269e|PAK-2|mKIAA4182	p21 (RAC1) activated kinase 2	protein-coding	20.0	40.0	10.5	297.0	44.5	15.5	21.0	15.0
Merged-chr4-104697965-3	chr4	104697875	104698075	+	858.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177259, intron 9 of 14)	intron (NM_177259, intron 9 of 14)	-68342.0	NM_133882	110382.0	Mm.87072	NM_133882	ENSMUSG00000029656	C8b	4930439B20Rik|AI595927	complement component 8, beta polypeptide	protein-coding	13.5	13.0	18.5	287.0	14.5	4.0	11.5	3.0
Merged-chr1-97659577-4	chr1	97659477	97659677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133825, intron 1 of 2)	intron (NM_133825, intron 1 of 2)	2099.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	72.0	87.5	75.0	1519.5	166.0	42.5	89.0	54.5
Merged-chr3-69163301-4	chr3	69163186	69163386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-int|LTR|ERVL	32053.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	41.0	63.5	31.5	530.5	119.0	39.5	57.0	41.0
Merged-chr6-71442236-4	chr6	71442158	71442358	+	926.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1621.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	18.0	27.5	14.0	274.5	45.0	9.5	15.0	14.5
Merged-chr2-52901046-4	chr2	52900937	52901137	+	775.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	Lx8|LINE|L1	43169.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	9.0	7.0	6.5	71.5	36.0	11.5	5.5	13.0
Merged-chr10-75151536-4	chr10	75151432	75151632	+	936.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081412, intron 8 of 22)	intron (NM_001081412, intron 8 of 22)	-60541.0	NM_153406	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	22.0	40.5	5.0	292.0	30.5	15.5	17.0	21.5
Merged-chr13-52982891-4	chr13	52982764	52982964	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1825.0	NM_017373	18030.0	Mm.136604	NM_017373	ENSMUSG00000056749	Nfil3	AV225605|E4BP4	nuclear factor, interleukin 3, regulated	protein-coding	43.5	20.5	24.5	215.5	73.5	37.0	20.0	23.5
Merged-chr14-10129848-4	chr14	10129731	10129931	+	947.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 5 of 9)	intron (NM_001360141, intron 5 of 9)	245736.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	10.5	14.0	14.0	281.0	44.0	7.0	16.5	12.0
Merged-chr13-100201904-4	chr13	100201830	100202030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 1 of 15)	intron (NM_001126182, intron 1 of 15)	192.0	NM_001126182	17948.0	Mm.89961	NM_010872	ENSMUSG00000078945	Naip2	Birc1b|Naip-rs6	NLR family, apoptosis inhibitory protein 2	protein-coding	17.0	41.0	30.5	135.5	35.0	25.5	27.5	21.5
Merged-chr7-46957983-1	chr7	46957883	46958083	+	720.666687	f0_balb.idr	intron (NM_001040695, intron 1 of 11)	intron (NM_001040695, intron 1 of 11)	535.0	NM_001040695	54122.0	Mm.1999	NM_016855	ENSMUSG00000043262	Uevld	8430408E05Rik|Attp	UEV and lactate/malate dehyrogenase domains	protein-coding	2.5	13.5	15.0	112.0	22.5	6.5	5.5	8.5
Merged-chr7-115149147-2	chr7	115149069	115149269	+	945.625	f0_c57.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	197895.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	3.5	4.0	5.0	23.5	29.5	8.0	26.5	15.0
Merged-chr6-145863583-6	chr6	145863409	145863609	+	914.763916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024469, exon 5 of 5)	exon (NM_024469, exon 5 of 5)	1911.0	NM_024469	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	5.5	5.5	15.5	126.5	2.5	3.0	0.0	3.0
Merged-chr18-9504335-5	chr18	9504220	9504420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54166.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	56.5	60.0	44.0	816.0	92.0	19.5	23.0	49.5
Merged-chr2-90579684-4	chr2	90579592	90579792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	CpG	955.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	29.0	158.5	73.5	339.0	155.0	74.0	52.0	41.0
Merged-chr10-83645201-4	chr10	83645093	83645293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145220, intron 1 of 20)	intron (NM_145220, intron 1 of 20)	3471.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	93.5	70.0	99.0	1847.5	95.0	62.0	82.0	89.5
Merged-chr10-112160354-4	chr10	112160264	112160464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3257.0	NM_001310675	353025.0	Mm.194428	NM_178278	ENSMUSG00000035694	Caps2	D630005B03Rik	calcyphosphine 2	protein-coding	74.5	70.5	58.0	1031.5	193.5	57.5	110.0	77.0
Merged-chr10-52284785-3	chr10	52284693	52284893	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025705, intron 3 of 10)	intron (NM_025705, intron 3 of 10)	51174.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	40.5	40.0	21.0	359.0	15.0	1.0	1.0	7.5
Merged-chr8-105965590-4	chr8	105965479	105965679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045594, intron 1 of 23)	intron (NR_045594, intron 1 of 23)	536.0	NM_001253804	20498.0	Mm.292447	NM_009195	ENSMUSG00000017765	Slc12a4	AW546649|KCC1|RBCKCC1	solute carrier family 12, member 4	protein-coding	27.0	36.5	36.5	337.5	49.0	20.0	19.0	18.5
Merged-chr8-109704713-4	chr8	109704586	109704786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286393)	promoter-TSS (NM_001286393)	-860.0	NM_001286393	75871.0	Mm.180410	NM_029468	ENSMUSG00000031728	Zfp821	4930566A11Rik|Znf821	zinc finger protein 821	protein-coding	49.0	32.0	61.0	1075.0	66.5	28.5	49.0	38.5
Merged-chr9-38719170-4	chr9	38719065	38719265	+	928.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145957, intron 1 of 18)	intron (NM_001145957, intron 1 of 18)	897.0	NM_172767	67776.0	Mm.290950	NM_172767	ENSMUSG00000023186	Vwa5a	5830475I06Rik|AW552491|BCSC-1|E130119J22|Loh11cr2a	von Willebrand factor A domain containing 5A	protein-coding	5.5	8.5	15.0	159.5	19.5	12.5	7.0	17.0
Merged-chr2-50689634-2	chr2	50689534	50689734	+	640.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-220050.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	6.0	5.0	5.0	41.0	25.5	1.5	2.5	3.0
Merged-chr2-157500592-4	chr2	157500487	157500687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59491.0	NM_001291129	18111.0	Mm.34330	NM_010923	ENSMUSG00000067786	Nnat	5730414I02Rik|AW107673|Peg5	neuronatin	protein-coding	67.5	95.5	61.0	1083.0	139.0	47.0	56.5	72.5
Merged-chr11-83580987-4	chr11	83580891	83581091	+	798.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1070.0	NR_036453	100504464.0	Mm.341706	NR_036452	ENSMUSG00000051832	E230016K23Rik	-	RIKEN cDNA E230016K23 gene	ncRNA	21.5	31.5	13.5	116.5	24.0	9.5	6.0	9.5
Merged-chr7-67226313-4	chr7	67226171	67226371	+	790.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175215, exon 3 of 3)	exon (NM_175215, exon 3 of 3)	3655.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	3.5	6.5	6.0	35.0	21.5	6.5	6.5	8.5
Merged-chr7-80582332-4	chr7	80582232	80582432	+	864.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-47213.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	1.0	4.0	3.0	49.5	67.0	13.5	28.5	39.5
Merged-chr8-125733612-4	chr8	125733513	125733713	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310688)	promoter-TSS (NM_001310688)	-590.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	8.5	11.5	4.5	182.5	28.0	5.5	18.0	4.5
Merged-chr1-172205935-4	chr1	172205861	172206061	+	724.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001329871, intron 1 of 3)	intron (NM_001329871, intron 1 of 3)	843.0	NM_001329871	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	8.0	22.0	4.0	65.0	20.0	7.0	7.5	13.5
Merged-chr13-28417706-4	chr13	28417605	28417805	+	969.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	275221.0	NM_023746	28078.0	Mm.155058	NM_023746	ENSMUSG00000017064	Prl5a1	1600013P04Rik|D13Wsu14e|Ghd24|PLP-L|Prlpl	prolactin family 5, subfamily a, member 1	protein-coding	22.0	26.5	58.5	1097.0	27.0	5.0	18.0	20.0
Merged-chr10-60280052-4	chr10	60279968	60280168	+	952.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	B4A|SINE|B4	2440.0	NM_001146121	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	14.0	5.0	27.5	363.5	47.0	10.5	11.5	49.5
Merged-chr9-108340546-4	chr9	108340448	108340648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001329528)	TTS (NM_001329528)	1468.0	NM_001329527	14775.0	Mm.1090	NM_008160	ENSMUSG00000063856	Gpx1	AI195024|AL033363|CGPx|GPx-1|GSHPx-1|Gpx	glutathione peroxidase 1	protein-coding	78.5	139.0	121.0	1664.0	235.0	82.0	141.5	102.0
Merged-chr5-67532535-4	chr5	67532442	67532642	+	902.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68644.0	NR_015582	320479.0	Mm.387187	NR_015582	ENSMUSG00000107385	C330024D21Rik	-	RIKEN cDNA C330024D21 gene	ncRNA	30.0	29.0	5.0	180.5	40.0	9.0	14.0	15.5
Merged-chr1-128357590-2	chr1	128357488	128357688	+	604.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008567, intron 1 of 16)	ID4_|SINE|ID	2117.0	NM_001313695	17219.0	Mm.4933	NM_008567	ENSMUSG00000026355	Mcm6	ASP-l1|D1Wsu22e|Mcmd6	minichromosome maintenance complex component 6	protein-coding	6.0	4.5	6.5	82.0	2.0	1.5	4.0	7.0
Merged-chr19-34206363-4	chr19	34206257	34206457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	intron (NM_001360718, intron 1 of 10)	-11151.0	NM_001360719	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	34.5	55.0	25.0	505.0	62.0	26.0	34.5	21.0
Merged-chr15-89430890-4	chr15	89430786	89430986	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_004843)	promoter-TSS (NR_004843)	-959.0	NR_037153	12651.0	Mm.485045	NM_007692	ENSMUSG00000022617	Chkb	Chetk|Chkl|Ck|Ck/Ek|Ck/Ek-beta|Ckb|Ckekb|Ek	choline kinase beta	protein-coding	14.0	15.0	11.0	111.5	28.5	9.0	7.5	22.0
Merged-chr6-108055264-4	chr6	108055162	108055362	+	771.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9783.0	NM_001276356	74729.0	Mm.56539	NM_178391	ENSMUSG00000034639	Setmar	5830404F24Rik|Etet2	SET domain without mariner transposase fusion	protein-coding	10.0	11.0	4.5	126.0	18.0	1.5	9.5	7.0
Merged-chr11-113649565-4	chr11	113649494	113649694	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013581)	promoter-TSS (NM_013581)	65.0	NM_013581	16834.0	Mm.261620	NM_013581	ENSMUSG00000018661	Cog1	6030445I15|Ldlb|mKIAA1381	component of oligomeric golgi complex 1	protein-coding	23.0	27.0	17.0	192.5	31.5	24.5	13.5	16.5
Merged-chr17-43590044-3	chr17	43589968	43590168	+	733.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045444, exon 1 of 3)	non-coding (NR_045444, exon 1 of 3)	1441.0	NR_045445	73504.0	Mm.9277	NR_045444	ENSMUSG00000090307	1700071M16Rik	-	RIKEN cDNA 1700071M16 gene	ncRNA	6.5	8.0	5.5	65.0	6.0	2.0	5.0	3.0
Merged-chr13-56592108-3	chr13	56592013	56592213	+	690.133301	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-17473.0	NM_009369	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	12.0	6.5	1.5	83.0	29.0	6.0	8.5	16.0
Merged-chr11-46480697-4	chr11	46480610	46480810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_134250, exon 7 of 7)	3' UTR (NM_134250, exon 7 of 7)	25779.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	151.0	194.0	175.5	2317.0	158.0	78.0	104.5	92.0
Merged-chr11-4237666-1	chr11	4237566	4237766	+	902.3333130000001	f0_balb.idr	intron (NM_001013365, intron 1 of 2)	intron (NM_001013365, intron 1 of 2)	881.0	NM_001013365	18413.0	Mm.131422	NM_001013365	ENSMUSG00000058755	Osm	OncoM	oncostatin M	protein-coding	14.5	6.5	16.0	149.0	0.5	3.0	3.0	3.5
Merged-chr11-60220555-4	chr11	60220425	60220625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011480, exon 1 of 19)	exon (NM_011480, exon 1 of 19)	102.0	NM_011480	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	54.0	88.0	43.0	588.0	109.0	47.0	15.5	47.5
Merged-chr9-40757936-4	chr9	40757832	40758032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	intron (NM_133733, intron 1 of 6)	-43341.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	47.0	62.5	34.0	662.5	85.5	22.0	45.5	50.5
Merged-chr6-128200722-4	chr6	128200617	128200817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16914.0	NR_077223	330427.0	Mm.426356	NR_077223	ENSMUSG00000107879	9330102E08Rik	-	RIKEN cDNA 9330102E08 gene	ncRNA	399.5	558.0	354.5	4703.0	843.5	292.0	463.0	323.5
Merged-chr17-47759826-3	chr17	47759726	47759926	+	916.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	21895.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	11.5	35.0	14.0	275.0	34.0	7.5	10.5	13.0
Merged-chr11-101984839-4	chr11	101984728	101984928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028207)	promoter-TSS (NM_028207)	-37.0	NM_028207	72349.0	Mm.196295	NM_028207	ENSMUSG00000003518	Dusp3	2210015O03Rik|5031436O03Rik|T-DSP11|VHR	dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related)	protein-coding	84.5	93.5	41.5	856.5	245.5	98.0	96.0	81.0
Merged-chr2-181275493-4	chr2	181275377	181275577	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 2 of 9)	intron (NM_198169, intron 2 of 9)	12489.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	10.5	16.5	18.5	250.5	50.5	7.0	28.5	21.5
Merged-chr14-74946837-4	chr14	74946719	74946919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	1058.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	26.0	30.5	35.0	275.5	45.0	21.0	19.5	19.0
Merged-chr1-154041076-2	chr1	154040974	154041174	+	740.166626	f0_balb.idr|f0_c57.idr	Intergenic	MLTR14|LTR|ERV1	141145.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	6.0	12.5	6.5	134.0	26.5	10.0	17.0	12.5
Merged-chr7-27333400-2	chr7	27333300	27333500	+	742.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001310678, exon 1 of 23)	exon (NM_001310678, exon 1 of 23)	248.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	4.0	1.0	0.0	72.5	7.0	6.0	4.5	7.0
Merged-chr1-181842460-4	chr1	181842358	181842558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133815)	promoter-TSS (NM_133815)	-57.0	NM_133815	98386.0	Mm.4538	NM_133815	ENSMUSG00000004880	Lbr	AI505894|ic	lamin B receptor	protein-coding	188.0	275.5	174.5	2782.5	444.5	176.5	229.5	161.5
Merged-chr5-28065679-4	chr5	28065544	28065744	+	795.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-5768.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	14.0	13.5	12.0	198.5	13.0	7.0	12.0	10.5
Merged-chr12-84337461-4	chr12	84337374	84337574	+	792.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144833, intron 8 of 11)	intron (NM_144833, intron 8 of 11)	20615.0	NM_001252583	52708.0	Mm.255150	NM_144833	ENSMUSG00000042472	Zfp410	Apa1|D12Ertd748e|Znf410	zinc finger protein 410	protein-coding	6.5	13.0	9.0	150.5	27.0	7.5	10.5	7.0
Merged-chr2-18608358-3	chr2	18608252	18608452	+	733.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64110.0	NM_147778	12238.0	Mm.249586	NM_147778	ENSMUSG00000051154	Commd3	AW550818|Bup|D2Ertd542e	COMM domain containing 3	protein-coding	9.0	9.5	9.5	86.0	18.5	1.5	5.0	9.5
Merged-chr3-142700973-4	chr3	142700886	142701086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293560)	promoter-TSS (NM_001293560)	-62.0	NM_173763	229905.0	Mm.289643	NM_173763	ENSMUSG00000040213	Kyat3	Ccbl2|KATIII|Kat3	kynurenine aminotransferase 3	protein-coding	159.5	195.0	157.5	3764.5	411.5	113.5	266.0	178.5
Merged-chr1-171262871-2	chr1	171262763	171262963	+	841.8333130000001	f1_balb.idr|f1_c57bl6.idr	TTS (NM_172845)	TTS (NM_172845)	-7465.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	6.0	5.0	2.0	100.0	20.5	5.5	8.5	9.5
Merged-chr14-101653792-4	chr14	101653730	101653930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016723)	promoter-TSS (NM_016723)	-137.0	NM_016723	50933.0	Mm.275970	NM_016723	ENSMUSG00000022111	Uchl3	-	ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase)	protein-coding	72.5	120.5	98.5	708.0	151.5	80.0	43.0	60.0
Merged-chr2-120154652-4	chr2	120154539	120154739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133838)	promoter-TSS (NM_133838)	-64.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	228.5	342.0	193.5	2879.5	513.0	210.5	228.5	207.0
Merged-chr16-84703355-4	chr16	84703241	84703441	+	837.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9682.0	NR_132106	100653389.0	Mm.261808	NR_132106	ENSMUSG00000097418	Mir155hg	Bic|Gm26667	Mir155 host gene (non-protein coding)	ncRNA	3.5	16.5	6.0	114.5	29.0	15.0	7.5	11.5
Merged-chr9-50522803-4	chr9	50522721	50522921	+	934.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011220, intron 4 of 5)	intron (NM_011220, intron 4 of 5)	5820.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	16.0	19.5	11.5	351.5	33.0	11.5	25.0	24.5
Merged-chr1-153443874-3	chr1	153443771	153443971	+	835.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033162, intron 6 of 9)	B4A|SINE|B4	18662.0	NM_001033162	71836.0	Mm.49460	NM_001033162	ENSMUSG00000042708	Shcbp1l	1700012A16Rik	Shc SH2-domain binding protein 1-like	protein-coding	6.5	11.0	8.5	139.5	11.0	8.5	5.0	9.5
Merged-chr6-100480611-3	chr6	100480500	100480700	+	643.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-46800.0	NR_040525	73395.0	Mm.69413	NR_040525	ENSMUSG00000101553	1700049E22Rik	-	RIKEN cDNA 1700049E22 gene	ncRNA	6.0	6.0	11.0	103.5	2.5	0.5	0.5	6.5
Merged-chr6-85961244-4	chr6	85961154	85961354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028099, intron 1 of 8)	CpG	413.0	NM_028099	72102.0	Mm.24007	NM_028099	ENSMUSG00000030002	Dusp11	2010300F21Rik|AI481497	dual specificity phosphatase 11 (RNA/RNP complex 1-interacting)	protein-coding	31.0	44.0	54.0	585.5	93.5	38.0	46.5	35.0
Merged-chr14-62328615-4	chr14	62328498	62328698	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3470.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	17.5	11.0	17.0	259.0	22.5	15.0	14.5	21.0
Merged-chr4-45393843-2	chr4	45393743	45393943	+	874.4166869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14923.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	2.5	8.0	6.0	231.0	25.5	7.0	4.5	6.0
Merged-chr10-121376062-4	chr10	121375950	121376150	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 3 of 13)	intron (NM_029364, intron 3 of 13)	10960.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	31.5	35.0	16.0	656.5	81.0	13.5	33.0	21.5
Merged-chr10-80548941-4	chr10	80548838	80549038	+	725.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025852, intron 2 of 14)	intron (NM_025852, intron 2 of 14)	-9814.0	NM_026094	67331.0	Mm.52511	NM_026094	ENSMUSG00000003341	Atp8b3	1700042F02Rik|1700056N23Rik|ATPIK|SAPLT	ATPase, class I, type 8B, member 3	protein-coding	7.5	9.5	6.5	128.5	13.0	7.0	5.5	17.5
Merged-chr6-123267063-4	chr6	123266967	123267167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010819, exon 3 of 6)	exon (NM_010819, exon 3 of 6)	4960.0	NM_010819	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	32.0	33.0	27.5	304.5	83.5	22.5	30.5	33.0
Merged-chr14-104523214-2	chr14	104523114	104523314	+	610.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026047)	promoter-TSS (NM_026047)	-548.0	NM_026047	72486.0	Mm.291811	NM_026047	ENSMUSG00000022120	Rnf219	2610206B13Rik|2810449K13Rik|AI451544	ring finger protein 219	protein-coding	10.0	6.5	4.5	67.5	21.0	7.5	10.5	5.0
Merged-chr2-71873129-4	chr2	71872962	71873162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172665)	promoter-TSS (NM_172665)	-162.0	NM_172665	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	140.0	153.0	120.0	1820.5	261.5	105.5	130.5	98.0
Merged-chr7-19303947-4	chr7	19303830	19304030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008036, exon 4 of 4)	3' UTR (NM_008036, exon 4 of 4)	6115.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	46.5	129.0	40.5	372.5	145.5	73.0	53.0	28.5
Merged-chr2-38287296-4	chr2	38287195	38287395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146122)	promoter-TSS (NM_146122)	89.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	116.0	165.5	163.5	1753.0	264.5	91.5	133.5	106.0
Merged-chr3-122619095-3	chr3	122618990	122619190	+	955.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114665, intron 1 of 15)	CpG	624.0	NM_153118	214459.0	Mm.209491	NM_153118	ENSMUSG00000039735	Fnbp1l	2610318I01Rik|AW548221|TOCA1|toca-1	formin binding protein 1-like	protein-coding	12.5	10.5	13.5	95.0	33.0	13.0	25.0	14.0
Merged-chr10-120978682-7	chr10	120978584	120978784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081193, exon 1 of 13)	exon (NM_001081193, exon 1 of 13)	646.0	NM_001081193	380664.0	Mm.339371	NM_001081193	ENSMUSG00000048661	Lemd3	AI316861|Man1	LEM domain containing 3	protein-coding	16.0	32.5	15.0	161.0	57.5	19.0	17.0	18.5
Merged-chr1-13589923-4	chr1	13589811	13590011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028173)	promoter-TSS (NM_028173)	-1.0	NM_028173	72265.0	Mm.28765	NM_028173	ENSMUSG00000025935	Tram1	1810049E02Rik|TRAMP	translocating chain-associating membrane protein 1	protein-coding	142.0	225.0	118.5	1923.0	400.0	149.5	160.5	122.5
Merged-chr1-119837566-4	chr1	119837464	119837664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019933)	promoter-TSS (NM_019933)	-493.0	NM_019933	19258.0	Mm.458796	NM_019933	ENSMUSG00000026384	Ptpn4	PTPMEG|Ptn4|TEP|TEP/mPTPMEG|hPTP-MEG	protein tyrosine phosphatase, non-receptor type 4	protein-coding	152.5	173.5	143.0	2735.0	345.0	115.0	182.5	135.5
Merged-chr6-124768690-4	chr6	124768573	124768773	+	757.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013509, intron 1 of 11)	intron (NM_013509, intron 1 of 11)	1000.0	NM_001302642	13807.0	Mm.3913	NM_013509	ENSMUSG00000004267	Eno2	AI837106|D6Ertd375e|Eno-2|NSE	enolase 2, gamma neuronal	protein-coding	6.5	23.5	8.5	104.5	12.5	15.0	10.0	3.0
Merged-chr7-88192918-4	chr7	88192815	88193015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-85170.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	72.0	95.0	164.0	1884.5	96.0	27.5	62.0	59.5
Merged-chr10-95533521-4	chr10	95533431	95533631	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	RLTR17|LTR|ERVK	18369.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	19.0	31.5	26.0	224.0	66.5	24.5	18.0	6.5
Merged-chr9-77966421-1	chr9	77966321	77966521	+	909.0	f0_balb.idr	intron (NM_134255, intron 3 of 7)	intron (NM_134255, intron 3 of 7)	49056.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	7.0	6.5	14.0	146.0	11.5	7.0	4.0	7.0
Merged-chr10-4432473-4	chr10	4432370	4432570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025343)	promoter-TSS (NM_025343)	-82.0	NM_001358796	66084.0	Mm.153111	NM_025343	ENSMUSG00000019763	Rmnd1	0610042C05Rik|AA408137|AI462664|AW536662	required for meiotic nuclear division 1 homolog	protein-coding	266.5	368.0	369.5	4624.0	535.0	238.0	243.5	275.5
Merged-chr17-69075700-4	chr17	69075593	69075793	+	924.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355732)	promoter-TSS (NM_001355732)	16.0	NM_001355732	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	12.0	15.5	25.0	294.0	28.0	13.0	21.5	16.5
Merged-chr4-19570110-4	chr4	19569997	19570197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356481)	promoter-TSS (NM_001356481)	11.0	NM_027769	70568.0	Mm.38390	NM_027769	ENSMUSG00000028228	Cpne3	5430428M23Rik|5730450C07Rik|C85108|CPN3	copine III	protein-coding	107.0	117.0	77.0	1512.5	234.0	53.0	107.0	80.0
Merged-chr19-31834452-4	chr19	31834346	31834546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-34315.0	NM_001081074	69865.0	Mm.87538	NM_001081074	ENSMUSG00000052595	A1cf	1810073H04Rik|ACF64|ACF65|ASP|Acf|MCM|MerCreMer|Tg(Myh6-cre/Esr1*)1Jmk|mer	APOBEC1 complementation factor	protein-coding	31.0	47.5	26.0	467.5	112.0	25.5	34.0	32.5
Merged-chr13-119429529-4	chr13	119429394	119429594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145457, intron 1 of 10)	CpG	592.0	NM_145457	218693.0	Mm.490243	NM_145457	ENSMUSG00000025451	Paip1	PAIP-1	polyadenylate binding protein-interacting protein 1	protein-coding	26.5	44.5	38.5	348.0	68.5	27.0	26.0	37.0
Merged-chr15-78258439-4	chr15	78258345	78258545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008677, intron 7 of 9)	intron (NM_008677, intron 7 of 9)	13634.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	123.5	248.5	165.0	2066.5	360.5	112.0	156.0	127.0
Merged-chr2-59184281-4	chr2	59184185	59184385	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	23435.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	22.5	55.5	28.5	475.0	106.5	47.0	38.0	17.5
Merged-chr7-19094965-1	chr7	19094865	19095065	+	1000.0	f0_c57.idr	exon (NM_011383, exon 1 of 3)	exon (NM_011383, exon 1 of 3)	421.0	NM_011383	20475.0	Mm.3410	NM_011383	ENSMUSG00000040841	Six5	Dmahp|MDMAHP|TrexBF	sine oculis-related homeobox 5	protein-coding	16.5	18.0	13.5	268.0	34.5	16.5	14.0	27.5
Merged-chr11-94073489-4	chr11	94073400	94073600	+	735.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025430, intron 5 of 25)	B3|SINE|B2	29295.0	NM_001025429	70834.0	Mm.260737	NM_027569	ENSMUSG00000020859	Spag9	3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1	sperm associated antigen 9	protein-coding	8.0	11.0	3.5	63.5	36.0	9.0	8.5	11.5
Merged-chr2-153118400-4	chr2	153118316	153118516	+	751.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	L1MA4|LINE|L1	9948.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	13.0	20.0	9.0	170.5	33.5	7.0	11.0	8.5
Merged-chr1-39418060-3	chr1	39417952	39418152	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018775, intron 2 of 19)	intron (NM_018775, intron 2 of 19)	50201.0	NM_001252218	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	13.0	8.5	16.0	90.0	5.5	4.0	8.0	7.0
Merged-chr16-95896117-2	chr16	95896017	95896217	+	757.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_040484, intron 1 of 3)	ORR1F|LTR|ERVL-MaLR	2596.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	5.0	1.5	0.0	83.0	20.0	6.5	6.5	6.5
Merged-chr6-38710625-4	chr6	38710508	38710708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 12 of 14)	intron (NM_010433, intron 12 of 14)	47539.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	103.0	141.5	90.5	1489.5	266.0	68.0	109.0	93.5
Merged-chr1-55807154-4	chr1	55807036	55807236	+	991.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124105.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	22.0	20.0	24.5	367.5	67.0	15.5	27.0	19.5
Merged-chr17-35188436-4	chr17	35188305	35188505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010734)	promoter-TSS (NM_010734)	35.0	NM_010734	16988.0	Mm.19379	NM_010734	ENSMUSG00000073412	Lst1	B144	leukocyte specific transcript 1	protein-coding	23.5	54.5	34.5	365.0	67.0	22.5	19.5	31.0
Merged-chr18-43523495-4	chr18	43523392	43523592	+	814.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85206.0	NM_001291455	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	11.0	15.0	4.5	188.0	31.5	13.0	12.0	7.0
Merged-chr7-80828636-4	chr7	80828529	80828729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25298.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	52.0	71.0	59.0	689.5	77.5	26.5	30.0	26.0
Merged-chr7-27604882-4	chr7	27604784	27604984	+	988.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007434)	promoter-TSS (NM_007434)	-913.0	NM_007434	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	7.5	12.5	25.5	368.5	170.5	64.0	108.5	66.0
Merged-chr13-112748249-4	chr13	112748141	112748341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52536.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	74.0	77.5	83.5	924.5	175.5	54.0	86.5	55.0
Merged-chr8-106151252-4	chr8	106151147	106151347	+	894.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357319, intron 1 of 5)	intron (NM_001357319, intron 1 of 5)	893.0	NM_001357319	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	8.5	11.5	8.0	77.0	35.0	6.5	8.5	14.5
Merged-chr15-25404022-4	chr15	25403918	25404118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	9746.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	45.5	80.0	45.0	616.5	117.5	38.0	45.0	44.5
Merged-chr13-30981836-3	chr13	30981744	30981944	+	690.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7797.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	6.0	14.0	10.0	133.0	17.5	3.0	14.0	13.0
Merged-chr12-69185493-3	chr12	69185395	69185595	+	684.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146035, exon 1 of 1)	exon (NM_146035, exon 1 of 1)	1337.0	NM_146035	217664.0	Mm.206642	NM_146035	ENSMUSG00000043998	Mgat2	AA407964|CDGS2|GLCNACTII|GNT-II|GNT2	mannoside acetylglucosaminyltransferase 2	protein-coding	4.5	5.5	5.0	89.5	21.5	4.0	6.0	15.0
Merged-chr13-37894398-1	chr13	37894298	37894498	+	970.0	f0_balb.idr	non-coding (NR_033615, exon 4 of 10)	non-coding (NR_033615, exon 4 of 10)	5527.0	NM_001177869	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	17.5	4.5	5.0	174.5	7.0	7.0	3.0	10.5
Merged-chr11-113751163-8	chr11	113751033	113751233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020006)	promoter-TSS (NM_020006)	27.0	NM_020006	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	14.5	24.5	15.0	157.0	48.5	27.5	12.5	33.0
Merged-chr1-60852557-4	chr1	60852453	60852653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56472.0	NM_009843	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	44.5	64.0	37.5	796.5	91.0	44.0	65.0	36.5
Merged-chr9-118811139-4	chr9	118811044	118811244	+	998.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 4 of 13)	ORR1E|LTR|ERVL-MaLR	99452.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	16.0	24.0	35.5	452.5	27.0	6.5	21.0	28.0
Merged-chr5-121594097-4	chr5	121593999	121594199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308450)	promoter-TSS (NM_001308450)	-275.0	NM_001308450	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	44.5	50.5	38.0	532.5	49.0	24.5	38.5	30.0
Merged-chr1-89891622-4	chr1	89891504	89891704	+	945.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178119, exon 18 of 18)	3' UTR (NM_178119, exon 18 of 18)	39572.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	18.5	26.5	44.5	357.5	21.5	12.5	16.0	18.0
Merged-chr7-19342216-4	chr7	19342116	19342316	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2855.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	10.5	12.5	6.0	60.5	50.5	25.0	30.5	31.0
Merged-chr6-99435361-4	chr6	99435257	99435457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053202)	promoter-TSS (NM_053202)	-12.0	NM_053202	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	77.5	70.5	92.0	1055.5	42.5	25.5	34.0	32.5
Merged-chr8-104250892-4	chr8	104250781	104250981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286383)	promoter-TSS (NM_001286383)	20.0	NM_001286383	75458.0	Mm.269219	NM_029295	ENSMUSG00000054400	Cklf	1700001C14Rik|1810018M11Rik|A730028G07Rik|C32|CKLF1|CKLF3|CKLF4|CKLF5|Cklf2|Cklf6|HSPC224|UCK-1	chemokine-like factor	protein-coding	61.0	57.0	21.5	852.0	142.0	45.0	73.5	64.5
Merged-chr2-160237038-4	chr2	160236938	160237138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90456.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	35.0	58.5	48.5	974.5	113.5	22.5	53.0	41.0
Merged-chr10-62920657-4	chr10	62920563	62920763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175194)	promoter-TSS (NM_175194)	30.0	NM_175194	73132.0	Mm.37457	NM_175194	ENSMUSG00000071253	Slc25a16	3110021G18Rik|GDA|GDC|HGT.1|ML7	solute carrier family 25 (mitochondrial carrier, Graves disease autoantigen), member 16	protein-coding	86.5	115.5	64.5	885.0	242.5	80.5	108.0	67.5
Merged-chr6-65510495-4	chr6	65510361	65510561	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-79937.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	13.0	29.0	16.5	216.5	57.0	11.5	33.0	19.0
Merged-chr17-27856452-4	chr17	27856330	27856530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080769)	promoter-TSS (NM_001080769)	-77.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	60.5	85.0	36.0	612.5	109.5	51.0	55.5	58.0
Merged-chr19-3999391-3	chr19	3999274	3999474	+	804.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011533, exon 8 of 8)	3' UTR (NM_011533, exon 8 of 8)	-1206.0	NM_025529	66387.0	Mm.259222	NM_025529	ENSMUSG00000110949	Nudt8	2310039H17Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 8	protein-coding	8.5	5.0	7.5	85.5	3.5	3.5	3.0	3.0
Merged-chr11-104425254-4	chr11	104425164	104425364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081045, exon 2 of 14)	5' UTR (NM_001081045, exon 2 of 14)	17027.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	108.0	172.5	97.0	1639.0	230.0	76.5	121.5	94.0
Merged-chr3-129213896-3	chr3	129213793	129213993	+	712.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287048)	promoter-TSS (NM_001287048)	-39.0	NM_001287048	18741.0	Mm.246804	NM_011098	ENSMUSG00000028023	Pitx2	9430085M16Rik|Brx1|Brx1b|Munc30|Otlx2|Ptx2|Rieg	paired-like homeodomain transcription factor 2	protein-coding	13.5	13.0	11.5	266.0	4.5	5.5	7.0	3.5
Merged-chr9-100452678-4	chr9	100452566	100452766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33807.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	61.0	86.0	59.5	1213.0	76.0	15.5	29.0	33.5
Merged-chr10-59324015-2	chr10	59323915	59324115	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316370, intron 1 of 13)	intron (NM_001316370, intron 1 of 13)	719.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	10.0	21.5	14.0	202.0	25.0	13.5	15.0	17.0
Merged-chr9-44334567-4	chr9	44334446	44334646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010436)	promoter-TSS (NM_010436)	-169.0	NM_010436	15270.0	Mm.245931	NM_010436	ENSMUSG00000049932	H2afx	AW228881|H2A.X|H2ax|Hist5-2ax|gammaH2ax	H2A histone family, member X	protein-coding	155.0	264.5	95.0	1423.5	461.5	162.5	146.5	132.5
Merged-chr5-114596817-4	chr5	114596670	114596870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004180, intron 2 of 2)	intron (NM_001004180, intron 2 of 2)	28519.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	28.5	30.0	19.5	372.0	49.0	20.5	27.0	21.0
Merged-chr2-133467930-4	chr2	133467837	133468037	+	945.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84222.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	21.5	22.5	30.0	353.5	49.0	18.0	34.0	15.0
Merged-chr3-127768208-3	chr3	127768113	127768313	+	917.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	12314.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	21.5	38.5	30.0	197.5	28.5	5.5	5.0	1.5
Merged-chr3-153975886-4	chr3	153975779	153975979	+	849.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081263, intron 1 of 21)	intron (NM_001081263, intron 1 of 21)	2443.0	NM_001081263	242259.0	Mm.239962	NM_001081263	ENSMUSG00000028360	Slc44a5	AA117069|Gm422	solute carrier family 44, member 5	protein-coding	14.5	9.0	14.5	254.5	19.5	8.0	4.5	9.0
Merged-chr13-52059933-4	chr13	52059843	52060043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-36798.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	69.5	82.5	74.5	903.5	106.5	36.0	33.5	42.0
Merged-chr3-132744877-4	chr3	132744756	132744956	+	992.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163455, intron 20 of 25)	intron (NM_001163455, intron 20 of 25)	60712.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	28.5	24.0	25.0	469.0	38.0	5.5	18.5	16.0
Merged-chr2-124708317-9	chr2	124708211	124708411	+	926.037048	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54730.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	7.0	13.5	11.5	121.5	10.0	7.0	9.0	6.5
Merged-chr11-22859740-4	chr11	22859636	22859836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016888)	promoter-TSS (NM_016888)	-1.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	112.5	196.0	100.0	1194.5	250.0	121.5	107.0	86.0
Merged-chr14-72710006-4	chr14	72709906	72710106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207636)	promoter-TSS (NM_207636)	-3.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	56.0	45.5	41.5	574.5	151.0	48.0	66.0	41.0
Merged-chr4-132802420-4	chr4	132802338	132802538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6074.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	59.0	108.0	64.0	818.5	186.5	60.5	48.0	46.0
Merged-chr6-129366072-4	chr6	129365971	129366171	+	949.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177686)	TTS (NM_177686)	15827.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	20.0	35.5	15.5	239.5	48.5	13.0	14.5	11.5
Merged-chr10-80622491-4	chr10	80622367	80622567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134002)	promoter-TSS (NM_134002)	-313.0	NM_134002	103236.0	Mm.29873	NM_134002	ENSMUSG00000003345	Csnk1g2	2810429I12Rik|AI463719	casein kinase 1, gamma 2	protein-coding	196.0	324.5	190.0	2172.5	560.0	238.0	238.0	188.0
Merged-chr11-72429594-4	chr11	72429481	72429681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR55|LTR|ERVL?	-5945.0	NM_027819	71522.0	Mm.23336	NM_027819	ENSMUSG00000040471	Ggt6	9030405D14Rik|AI427679|AW490214	gamma-glutamyltransferase 6	protein-coding	30.0	58.0	44.5	523.0	95.5	32.0	27.0	39.5
Merged-chr18-80483733-4	chr18	80483640	80483840	+	984.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14073.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	26.0	44.5	15.5	545.5	167.0	30.0	47.5	37.5
Merged-chr4-109360914-3	chr4	109360808	109361008	+	841.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007943, intron 13 of 24)	L2|LINE|L2	17852.0	NM_001159964	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	12.5	5.0	12.0	178.0	18.5	2.0	14.5	7.0
Merged-chr4-148675243-4	chr4	148675122	148675322	+	830.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31905.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	10.0	8.0	5.0	137.0	31.0	8.5	20.0	24.0
Merged-chr6-67158960-4	chr6	67158871	67159071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108008.0	NM_001113566	66870.0	Mm.240490	NM_025814	ENSMUSG00000036371	Serbp1	1200009K13Rik|9330147J08Rik|AL022786|Pairbp1	serpine1 mRNA binding protein 1	protein-coding	107.5	166.5	94.5	1814.5	188.5	70.0	106.0	95.0
Merged-chr18-38396951-4	chr18	38396779	38396979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22028.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	6.0	11.0	19.5	66.5	20.0	7.5	13.5	11.5
Merged-chr10-10120671-4	chr10	10120561	10120761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-219621.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	74.5	81.5	153.5	2341.5	101.0	15.0	47.5	36.5
Merged-chr14-51093642-4	chr14	51093542	51093742	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021472, intron 1 of 1)	intron (NM_021472, intron 1 of 1)	-2358.0	NM_007447	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	20.0	26.5	14.5	489.0	82.0	34.5	39.5	35.5
Merged-chr8-3314014-4	chr8	3313912	3314112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34395.0	NM_001330056	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	52.5	50.0	46.0	1015.5	107.0	36.0	42.5	40.5
Merged-chr17-67473355-4	chr17	67473250	67473450	+	929.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118859.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	19.5	15.0	6.5	266.5	31.5	17.5	22.0	28.5
Merged-chr15-78859916-4	chr15	78859773	78859973	+	860.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4344.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	19.0	11.0	8.5	162.0	19.0	6.0	14.5	11.0
Merged-chr6-72098145-3	chr6	72098040	72098240	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	532.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	13.5	14.5	21.5	241.0	17.0	6.0	11.5	18.5
Merged-chr1-180973888-4	chr1	180973780	180973980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 22 of 22)	(CAGA)n|Simple_repeat|Simple_repeat	31362.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	58.5	66.5	62.5	1105.0	98.0	33.0	36.0	57.0
Merged-chr13-3548064-4	chr13	3547937	3548137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	MLTR11A|LTR|ERVK	9962.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	49.0	43.0	69.0	839.0	55.5	33.5	42.0	37.5
Merged-chr2-125247513-6	chr2	125247406	125247606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023595)	promoter-TSS (NM_023595)	-9.0	NM_023595	110074.0	Mm.282499	NM_023595	ENSMUSG00000027203	Dut	5031412I06Rik|5133400F09Rik|D2Bwg0749e|Dutp|dUTPase	deoxyuridine triphosphatase	protein-coding	62.5	94.0	100.5	997.0	140.5	45.5	62.0	70.5
Merged-chr13-5837533-4	chr13	5837444	5837644	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F1|LTR|ERVL-MaLR	20548.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	15.0	11.5	11.5	135.5	24.5	20.0	18.5	11.5
Merged-chr17-57363031-4	chr17	57362940	57363140	+	815.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355722, intron 2 of 22)	RLTR22_Mur|LTR|ERVK	4354.0	NM_010130	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	13.0	26.0	14.5	90.0	26.5	17.5	19.0	14.0
Merged-chr1-153431915-4	chr1	153431809	153432009	+	845.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033162, intron 2 of 9)	ORR1D2|LTR|ERVL-MaLR	6700.0	NM_001033162	71836.0	Mm.49460	NM_001033162	ENSMUSG00000042708	Shcbp1l	1700012A16Rik	Shc SH2-domain binding protein 1-like	protein-coding	11.0	33.5	5.5	244.0	36.5	23.0	14.5	7.5
Merged-chr18-35599185-4	chr18	35599071	35599271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357471, intron 1 of 3)	CpG	554.0	NM_001357472	67869.0	Mm.126534	NM_026420	ENSMUSG00000037058	Paip2	2310050K10Rik|AU045972	polyadenylate-binding protein-interacting protein 2	protein-coding	32.5	60.0	22.5	460.0	105.5	30.0	44.5	33.0
Merged-chr5-105056697-3	chr5	105056573	105056773	+	587.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3112.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	8.0	12.5	6.0	22.0	34.0	11.0	2.0	3.5
Merged-chr17-45718650-2	chr17	45718550	45718750	+	818.875	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15194.0	NM_028164	72240.0	Mm.482897	NM_028164	ENSMUSG00000094690	1600014C23Rik	-	RIKEN cDNA 1600014C23 gene	protein-coding	7.0	4.5	3.5	51.5	7.0	6.0	4.5	4.5
Merged-chr15-6242303-4	chr15	6242189	6242389	+	977.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57500.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	20.5	17.0	26.5	291.0	37.0	18.5	17.5	21.0
Merged-chr1-156009175-3	chr1	156009065	156009265	+	784.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144791, intron 6 of 6)	intron (NM_144791, intron 6 of 6)	25652.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	1.0	1.5	1.5	29.0	29.0	14.0	18.5	9.0
Merged-chr13-45266420-4	chr13	45266309	45266509	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-123333.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	40.0	41.5	24.0	531.5	50.5	31.5	31.0	20.5
Merged-chr8-117121465-4	chr8	117121375	117121575	+	931.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021486, intron 7 of 10)	intron (NM_021486, intron 7 of 10)	25610.0	NM_001163028	63857.0	Mm.174133	NM_021486	ENSMUSG00000031845	Bco1	Bcdo|Bcdo1|Bcmo1|CMO1|Cmoi|beta-CD|betaCMOOX	beta-carotene oxygenase 1	protein-coding	14.5	19.5	14.5	209.0	25.0	17.5	17.5	20.0
Merged-chr19-59074588-4	chr19	59074503	59074703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 1 of 16)	intron (NM_001114312, intron 1 of 16)	1466.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	60.5	80.0	44.5	808.0	131.0	64.5	50.5	44.0
Merged-chr11-65784557-4	chr11	65784446	65784646	+	902.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316368, intron 1 of 10)	intron (NM_001316368, intron 1 of 10)	3813.0	NM_009157	26398.0	Mm.412922	NM_009157	ENSMUSG00000033352	Map2k4	JNKK1|MEK4|MKK4|PRKMK4|Sek1|Serk1	mitogen-activated protein kinase kinase 4	protein-coding	18.0	21.0	6.5	178.5	30.5	12.5	21.5	25.0
Merged-chr3-108719542-3	chr3	108719431	108719631	+	667.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029522, intron 1 of 14)	intron (NM_029522, intron 1 of 14)	2768.0	NM_029522	76123.0	Mm.226941	NM_029522	ENSMUSG00000027883	Gpsm2	6230410J09Rik|LGN|Pins	G-protein signalling modulator 2 (AGS3-like, C. elegans)	protein-coding	4.5	11.5	13.5	84.5	13.5	6.5	10.0	11.0
Merged-chr3-84037102-4	chr3	84036950	84037150	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172681, intron 2 of 34)	intron (NM_172681, intron 2 of 34)	3111.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	23.0	35.5	6.5	366.5	58.0	10.5	25.0	22.0
Merged-chr14-121919975-3	chr14	121919884	121920084	+	680.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-4210.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	7.0	15.0	10.5	114.0	15.0	4.0	7.5	6.0
Merged-chr11-17192347-2	chr11	17192247	17192447	+	543.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_024459, intron 2 of 5)	intron (NM_024459, intron 2 of 5)	19242.0	NM_025443	66249.0	Mm.27831	NM_025443	ENSMUSG00000020116	Pno1	1810003N24Rik|AA407421|AU015468|AU019495|AU042323|Emi3|Imi3	partner of NOB1 homolog	protein-coding	7.0	6.0	4.5	103.0	4.0	0.5	4.0	8.0
Merged-chr6-86694690-3	chr6	86694600	86694800	+	814.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011818, intron 13 of 13)	intron (NM_011818, intron 13 of 13)	-10209.0	NM_025665	66618.0	Mm.182650	NM_025665	ENSMUSG00000001158	Snrnp27	2610209M04Rik|AI449063|AU022368|Ry1	small nuclear ribonucleoprotein 27 (U4/U6.U5)	protein-coding	7.5	8.0	3.5	97.5	15.0	5.0	5.0	4.5
Merged-chr4-119177928-3	chr4	119177815	119178015	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013848, exon 13 of 13)	3' UTR (NM_013848, exon 13 of 13)	-3720.0	NM_001145936	195522.0	Mm.169620	NM_183140	ENSMUSG00000045268	Zfp691	6430544H17Rik|Znf691	zinc finger protein 691	protein-coding	2.0	0.5	3.0	42.0	239.5	68.5	140.5	99.0
Merged-chr17-57344599-4	chr17	57344517	57344717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14069.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	27.5	35.5	24.5	343.0	71.5	11.0	17.5	20.0
Merged-chr2-132597414-4	chr2	132597313	132597513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033469)	promoter-TSS (NR_033469)	-783.0	NR_033468	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	104.0	100.5	114.5	1464.0	204.5	67.5	110.5	87.5
Merged-chr3-144585103-6	chr3	144584981	144585181	+	939.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053102, intron 2 of 4)	intron (NM_053102, intron 2 of 4)	14654.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	5.0	4.5	5.5	130.0	18.5	3.0	9.0	7.0
Merged-chr8-46844786-4	chr8	46844708	46844908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 6 of 7)	intron (NR_152560, intron 6 of 7)	105063.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	25.0	34.5	24.0	350.0	67.5	27.5	34.5	39.0
Merged-chr17-35823075-4	chr17	35822967	35823167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008027)	promoter-TSS (NM_008027)	-290.0	NM_008027	14251.0	Mm.2931	NM_008027	ENSMUSG00000059714	Flot1	reggie-2	flotillin 1	protein-coding	171.5	245.5	150.0	2524.0	402.0	197.0	240.5	205.0
Merged-chr17-56036725-4	chr17	56036629	56036829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252471)	promoter-TSS (NM_001252471)	-70.0	NM_001357649	20405.0	Mm.1773	NM_013664	ENSMUSG00000003200	Sh3gl1	C77078|EEN|SH3P8|Sh3d2b	SH3-domain GRB2-like 1	protein-coding	177.0	317.0	171.0	2206.5	538.5	250.5	213.5	177.5
Merged-chr8-4238753-4	chr8	4238668	4238868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164172)	promoter-TSS (NM_001164172)	28.0	NM_001164172	26400.0	Mm.3906	NM_011944	ENSMUSG00000002948	Map2k7	5930412N11Rik|JNKK 2|Jnkk2|MAPKK 7|MEK 7|Mapkk7|Mek7|Mkk7|Prkmk7|sek2	mitogen-activated protein kinase kinase 7	protein-coding	272.0	417.5	327.5	3824.5	903.0	357.5	409.0	318.5
Merged-chr2-33436454-4	chr2	33436329	33436529	+	999.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5105.0	NM_001276332	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	17.0	26.0	15.5	348.0	64.0	24.5	27.0	14.0
Merged-chr16-38742300-4	chr16	38742213	38742413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285793)	promoter-TSS (NM_001285793)	54.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	42.0	58.5	45.5	813.5	72.0	26.5	35.5	28.0
Merged-chr2-156421687-4	chr2	156421591	156421791	+	841.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013510, intron 1 of 21)	intron (NM_013510, intron 1 of 21)	782.0	NM_001291123	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	9.0	19.5	16.0	175.5	24.5	4.0	5.0	8.5
Merged-chr12-26454842-4	chr12	26454720	26454920	+	789.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021384, intron 1 of 5)	intron (NM_021384, intron 1 of 5)	1632.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	13.5	36.0	10.0	83.5	22.5	13.5	10.0	6.0
Merged-chr13-34276852-4	chr13	34276777	34276977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	68305.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	31.0	26.5	55.5	539.0	47.0	25.5	29.0	36.5
Merged-chr3-83841114-4	chr3	83840997	83841197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011905, exon 2 of 3)	5' UTR (NM_011905, exon 2 of 3)	511.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	7.5	48.0	33.5	235.5	32.5	17.0	21.5	36.0
Merged-chr5-36564759-4	chr5	36564674	36564874	+	949.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133910, intron 2 of 13)	MTEb|LTR|ERVL-MaLR	17623.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	29.5	13.0	14.5	472.5	37.5	14.5	18.0	17.5
Merged-chr11-75679191-4	chr11	75679096	75679296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277221)	promoter-TSS (NM_001277221)	-63.0	NM_001277219	12928.0	Mm.280125	NM_133656	ENSMUSG00000017776	Crk	Crk-I|Crk-II|Crk-III|Crk3|CrkIII|Crko|c-Crk|p38	v-crk avian sarcoma virus CT10 oncogene homolog	protein-coding	111.0	222.0	86.0	1353.5	314.5	109.0	145.5	119.0
Merged-chr5-74957457-4	chr5	74957357	74957557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045866, intron 2 of 4)	intron (NR_045866, intron 2 of 4)	8263.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	59.0	79.0	53.0	1236.0	114.5	29.5	82.5	53.0
Merged-chr17-71264952-4	chr17	71264822	71265022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	46089.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	125.0	220.5	150.5	2447.0	111.5	47.0	48.5	50.5
Merged-chr7-35055035-6	chr7	35054949	35055149	+	947.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009884, intron 1 of 1)	intron (NM_009884, intron 1 of 1)	1517.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	8.5	14.0	6.5	179.5	28.0	6.0	10.0	8.0
Merged-chr3-88510152-4	chr3	88510048	88510248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6796.0	NM_001002011	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	364.0	537.5	283.5	4134.5	745.0	313.5	341.0	249.5
Merged-chr18-11718363-4	chr18	11718269	11718469	+	977.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081223, intron 8 of 18)	intron (NM_001081223, intron 8 of 18)	61020.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	13.0	38.5	31.5	447.0	43.5	23.0	30.0	39.0
Merged-chr1-186584051-4	chr1	186583941	186584141	+	935.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25360.0	NR_131158	320449.0	Mm.404477	NR_131124	ENSMUSG00000103690	A730004F24Rik	-	RIKEN cDNA A730004F24 gene	ncRNA	16.5	14.0	18.5	361.0	22.5	9.0	26.5	20.0
Merged-chr7-123367842-4	chr7	123367714	123367914	+	791.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	intron (NM_001316713, intron 1 of 19)	2101.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	6.0	3.5	7.5	94.0	14.5	9.5	6.5	9.5
Merged-chr15-100743475-4	chr15	100743381	100743581	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-10744.0	NR_045782	619313.0	Mm.123436	NR_045781	ENSMUSG00000116504	I730030J21Rik	-	RIKEN cDNA I730030J21 gene	ncRNA	16.5	22.0	11.5	230.5	64.5	19.5	29.5	25.0
Merged-chr1-164071259-2	chr1	164071159	164071359	+	909.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164059, intron 5 of 7)	intron (NM_001164059, intron 5 of 7)	9183.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	7.0	4.0	6.5	82.5	16.0	6.5	5.0	4.5
Merged-chr7-25129020-4	chr7	25128900	25129100	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163556, intron 1 of 13)	B1_Mus2|SINE|Alu	3460.0	NM_011138	18987.0	Mm.76683	NM_011138	ENSMUSG00000008496	Pou2f2	Oct-2|Oct2a|Oct2b|Oct2c|Oct2d|Otf-2|Otf2	POU domain, class 2, transcription factor 2	protein-coding	11.5	40.5	22.0	372.0	54.5	21.5	29.5	22.5
Merged-chr10-118796737-4	chr10	118796658	118796858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72145.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	169.0	249.0	188.0	2458.0	341.5	154.5	177.0	138.5
Merged-chr10-84424059-3	chr10	84423949	84424149	+	960.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 1 of 6)	intron (NM_001004363, intron 1 of 6)	16422.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	10.0	8.5	20.0	311.0	15.5	4.5	13.5	11.0
Merged-chr1-95451108-4	chr1	95451029	95451229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137501.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	98.0	123.0	114.5	2013.5	204.0	58.0	75.5	72.0
Merged-chr5-38503163-4	chr5	38503060	38503260	+	867.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1008.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	8.0	15.5	12.0	155.0	25.5	7.5	9.0	20.5
Merged-chr5-64385110-4	chr5	64385024	64385224	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	82818.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	22.5	22.5	9.0	160.5	26.0	6.5	10.0	10.5
Merged-chr16-21289820-4	chr16	21289726	21289926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046162, intron 1 of 4)	intron (NR_046162, intron 1 of 4)	7046.0	NR_046162	328646.0	Mm.404748	NR_046162	ENSMUSG00000096918	Gm16863	A830060N17	predicted gene, 16863	ncRNA	77.0	97.0	68.5	1468.0	137.5	62.0	75.0	80.5
Merged-chr13-113800420-4	chr13	113800319	113800519	+	919.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	5911.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	19.5	13.0	23.5	389.5	27.0	17.0	18.0	18.0
Merged-chr6-13837128-4	chr6	13836966	13837166	+	837.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330666, exon 4 of 4)	5' UTR (NM_001330666, exon 4 of 4)	2876.0	NM_001330666	64450.0	Mm.167625	NM_145066	ENSMUSG00000048216	Gpr85	2900026B03Rik	G protein-coupled receptor 85	protein-coding	8.0	11.5	8.0	183.5	17.5	4.5	3.0	7.5
Merged-chr7-144932947-3	chr7	144932861	144933061	+	833.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007631, intron 4 of 4)	intron (NM_007631, intron 4 of 4)	6964.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	12.5	22.5	10.5	95.0	51.5	4.0	9.5	22.0
Merged-chr10-42144963-3	chr10	42144843	42145043	+	816.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126561.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	15.5	8.5	17.5	228.5	10.0	6.0	7.5	11.0
Merged-chr15-73034790-4	chr15	73034685	73034885	+	907.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164643, intron 4 of 8)	intron (NM_001164643, intron 4 of 8)	21027.0	NM_029640	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	12.5	14.0	7.5	114.0	32.0	7.5	22.5	12.0
Merged-chr14-73445275-1	chr14	73445175	73445375	+	948.3333130000001	f0_balb.idr	Intergenic	Intergenic	-59986.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	3.5	17.5	22.0	141.5	28.5	8.0	8.5	17.0
Merged-chr15-51951678-4	chr15	51951564	51951764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	40096.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	34.0	52.5	53.0	819.5	98.0	47.0	35.0	59.5
Merged-chr3-15277222-4	chr3	15277100	15277300	+	838.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	55102.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	10.5	29.5	29.5	200.5	24.5	10.0	8.0	12.5
Merged-chr2-132094622-4	chr2	132094548	132094748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355431, intron 2 of 6)	intron (NM_001355431, intron 2 of 6)	50460.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	167.5	246.5	154.5	2586.5	398.5	150.0	151.5	180.5
Merged-chr16-55822011-7	chr16	55821839	55822039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159394, exon 1 of 12)	exon (NM_001159394, exon 1 of 12)	199.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	171.5	482.0	123.0	797.0	632.5	308.0	196.0	129.0
Merged-chr6-16360182-1	chr6	16360082	16360282	+	867.0	f0_c57.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	538259.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	0.0	0.0	0.0	0.0	32.5	5.5	13.0	21.0
Merged-chr2-68825009-6	chr2	68824859	68825059	+	863.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36482.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	7.5	2.0	6.0	80.5	14.5	6.0	6.5	7.5
Merged-chr12-52850530-4	chr12	52850437	52850637	+	925.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198111, intron 2 of 13)	intron (NM_198111, intron 2 of 13)	151154.0	NM_198111	238161.0	Mm.310822	NM_198111	ENSMUSG00000061603	Akap6	AI482140|Akapalpha|Akapbeta|PRKA	A kinase (PRKA) anchor protein 6	protein-coding	11.5	17.5	12.5	270.5	63.5	12.5	23.5	17.5
Merged-chr9-102633151-4	chr9	102633048	102633248	+	673.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181394, intron 2 of 2)	intron (NM_181394, intron 2 of 2)	6852.0	NM_181394	69010.0	Mm.2000	NM_181394	ENSMUSG00000035048	Anapc13	1810004D07Rik|APC13|SWM1	anaphase promoting complex subunit 13	protein-coding	2.0	17.0	10.5	164.0	22.5	7.5	5.5	11.5
Merged-chr2-38514611-4	chr2	38514520	38514720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159631, intron 1 of 9)	intron (NM_001159631, intron 1 of 9)	2744.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	76.5	118.5	74.5	1410.0	145.0	70.5	62.0	59.5
Merged-chr5-135467402-4	chr5	135467273	135467473	+	791.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	MTEa|LTR|ERVL-MaLR	-72827.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	8.5	13.5	10.5	125.5	26.0	6.0	11.0	22.5
Merged-chr1-172566451-3	chr1	172566346	172566546	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	6540.0	NR_027644	240916.0	Mm.71940	NM_177723	ENSMUSG00000049598	Vsig8	A030011M19|EG240916	V-set and immunoglobulin domain containing 8	protein-coding	1.0	6.0	1.0	0.0	168.0	101.5	56.0	32.5
Merged-chr15-57693960-4	chr15	57693893	57694093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199449)	promoter-TSS (NM_199449)	-674.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	63.0	187.0	56.0	677.0	195.5	64.0	68.5	66.5
Merged-chr13-110541884-4	chr13	110541785	110541985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	146841.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	36.5	82.5	53.0	733.5	117.0	64.5	44.5	39.5
Merged-chr4-155568273-4	chr4	155568161	155568361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355599, intron 1 of 10)	B1_Mur1|SINE|Alu	4446.0	NM_001355599	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	44.5	45.5	47.5	611.5	105.0	62.5	51.5	51.0
Merged-chr5-72225293-4	chr5	72225211	72225411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	21968.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	64.0	51.0	68.0	1066.5	106.5	39.5	57.5	45.5
Merged-chr11-69235833-4	chr11	69235739	69235939	+	730.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008192, intron 2 of 18)	CpG	1183.0	NM_008192	14919.0	Mm.291816	NM_008192	ENSMUSG00000020890	Gucy2e	GC-E|GC1|ROS-GC1	guanylate cyclase 2e	protein-coding	11.0	9.5	10.0	64.5	19.5	12.0	6.0	8.5
Merged-chr17-25188476-6	chr17	25188370	25188570	+	967.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001197024)	promoter-TSS (NM_001197024)	70.0	NM_001197024	74154.0	Mm.267353	NM_028789	ENSMUSG00000015127	Unkl	1300004G08Rik	unkempt family like zinc finger	protein-coding	14.0	26.5	15.5	186.0	24.5	15.0	8.5	11.5
Merged-chr12-111878387-4	chr12	111878288	111878488	+	862.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011625, intron 1 of 16)	intron (NM_011625, intron 1 of 16)	29667.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	18.5	26.0	6.0	125.0	22.5	11.5	16.0	14.0
Merged-chr5-96896226-3	chr5	96896116	96896316	+	788.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25056.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	9.5	6.5	15.0	210.0	7.5	1.5	0.5	3.5
Merged-chr7-145284506-4	chr7	145284407	145284607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132642)	promoter-TSS (NR_132642)	-496.0	NR_132642	233979.0	Mm.102235	NM_146206	ENSMUSG00000048677	Tpcn2	D830047E22Rik|Gm35086	two pore segment channel 2	protein-coding	77.0	125.0	77.0	1402.0	219.0	65.5	93.5	86.5
Merged-chr14-19977151-4	chr14	19977078	19977278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285911)	promoter-TSS (NM_001285911)	71.0	NM_001038637	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	31.5	40.0	45.0	787.5	78.0	35.5	43.5	36.5
Merged-chr15-102510353-4	chr15	102510251	102510451	+	925.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163643, intron 1 of 15)	MIRb|SINE|MIR	349.0	NM_001358844	26404.0	Mm.172897	NM_009582	ENSMUSG00000023050	Map3k12	DLK|MUK|Zpk	mitogen-activated protein kinase kinase kinase 12	protein-coding	23.0	20.5	24.0	206.0	37.0	10.5	13.0	21.5
Merged-chr13-73467983-3	chr13	73467869	73468069	+	954.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145376, intron 1 of 13)	intron (NM_145376, intron 1 of 13)	586.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	19.0	14.5	11.0	191.0	23.0	5.0	8.5	10.5
Merged-chr6-43666219-4	chr6	43666106	43666306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311111)	promoter-TSS (NM_001311111)	72.0	NM_013861	29807.0	Mm.320979	NM_013861	ENSMUSG00000029735	Tpk1	-	thiamine pyrophosphokinase	protein-coding	249.5	362.0	325.5	4937.0	663.0	266.0	333.0	263.5
Merged-chr4-150837598-4	chr4	150837505	150837705	+	771.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040649, intron 3 of 3)	intron (NR_040649, intron 3 of 3)	-16191.0	NM_001356323	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	19.0	37.5	12.5	105.0	19.5	10.5	8.0	6.5
Merged-chr4-129702208-2	chr4	129702094	129702294	+	685.0	f0_c57.idr|f1_c57bl6.idr	TTS (NR_045036)	TTS (NR_045036)	-5349.0	NM_001356378	230770.0	Mm.257157	NM_199305	ENSMUSG00000053730	Tmem39b	6330509E05Rik|BC037095	transmembrane protein 39b	protein-coding	14.0	5.0	5.0	65.0	29.5	3.5	8.5	3.0
Merged-chr19-21713629-7	chr19	21713524	21713724	+	984.119019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	60315.0	NM_146096	226016.0	Mm.28796	NM_146096	ENSMUSG00000047368	Abhd17b	5730446C15Rik|Cgi67|Fam108b|Fam108b1	abhydrolase domain containing 17B	protein-coding	24.5	17.5	26.0	316.0	61.5	18.0	26.5	26.5
Merged-chr4-140964217-4	chr4	140964122	140964322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355515, intron 1 of 7)	intron (NM_001355515, intron 1 of 7)	2951.0	NM_023374	67680.0	Mm.246965	NM_023374	ENSMUSG00000009863	Sdhb	0710008N11Rik	succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	protein-coding	79.0	81.0	111.5	1622.0	151.0	47.5	81.5	80.5
Merged-chr2-164798761-3	chr2	164798647	164798847	+	962.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133240, intron 3 of 5)	B2_Mm2|SINE|B2	6134.0	NM_133240	170789.0	Mm.277878	NM_133240	ENSMUSG00000017307	Acot8	PTE-2|Pte1	acyl-CoA thioesterase 8	protein-coding	13.5	18.5	5.0	65.0	25.0	6.0	13.0	13.5
Merged-chr1-161071532-4	chr1	161071499	161071699	+	928.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172644)	promoter-TSS (NM_172644)	832.0	NR_131029	70454.0	Mm.248212	NM_027429	ENSMUSG00000026708	Cenpl	2610300B10Rik|AW121806|AW550697|CENP-L	centromere protein L	protein-coding	4.0	20.5	5.5	112.0	26.0	11.0	12.5	11.5
Merged-chr7-16167605-4	chr7	16167524	16167724	+	884.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44A|LTR|ERVK	-7771.0	NM_001277988	17537.0	Mm.360516	NM_008627	ENSMUSG00000041420	Meis3	AI573393|Mrg2	Meis homeobox 3	protein-coding	7.5	13.0	7.5	165.5	22.0	11.0	14.5	22.5
Merged-chr5-88767153-4	chr5	88767070	88767270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007832, intron 1 of 6)	intron (NM_007832, intron 1 of 6)	2157.0	NM_007832	13178.0	Mm.298892	NM_007832	ENSMUSG00000029366	Dck	-	deoxycytidine kinase	protein-coding	38.5	39.5	32.0	610.0	70.0	44.5	28.0	31.0
Merged-chr11-83703908-4	chr11	83703795	83703995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081957)	promoter-TSS (NM_001081957)	-161.0	NM_001081957	100034251.0	Mm.24097	NM_001081957	ENSMUSG00000069792	Wfdc17	Amwap|Gm11428	WAP four-disulfide core domain 17	protein-coding	122.0	155.5	92.0	1359.5	190.0	62.5	98.0	71.0
Merged-chr15-88734319-4	chr15	88734223	88734423	+	938.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033274)	promoter-TSS (NM_001033274)	-104.0	NM_001033274	223770.0	Mm.254438	NM_001033274	ENSMUSG00000022387	Brd1	1110059H06Rik|AI316859|mKIAA4191	bromodomain containing 1	protein-coding	15.0	21.5	29.0	281.5	35.5	9.5	26.5	18.0
Merged-chr18-61211021-4	chr18	61210936	61211136	+	971.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007885, intron 1 of 3)	intron (NM_007885, intron 1 of 3)	560.0	NM_007885	13521.0	Mm.24803	NM_007885	ENSMUSG00000034320	Slc26a2	Dtd|ST-OB	solute carrier family 26 (sulfate transporter), member 2	protein-coding	17.5	15.0	9.5	208.5	62.0	21.5	33.0	18.0
Merged-chr6-22418492-1	chr6	22418392	22418592	+	634.333313	f0_balb.idr	Intergenic	Intergenic	-62411.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	4.5	10.0	13.0	81.5	7.0	2.0	6.5	2.0
Merged-chr6-120150715-4	chr6	120150618	120150818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-43105.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	78.5	87.0	101.0	1275.5	72.0	46.0	36.5	52.0
Merged-chr2-30980018-4	chr2	30979949	30980149	+	940.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144885, exon 3 of 9)	exon (NM_144885, exon 3 of 9)	1892.0	NM_144885	227707.0	Mm.235238	NM_144885	ENSMUSG00000026851	BC005624	-	cDNA sequence BC005624	protein-coding	12.0	11.5	17.0	60.0	40.0	6.5	9.5	26.5
Merged-chr1-37555772-4	chr1	37555692	37555892	+	871.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14776.0	NM_173870	269181.0	Mm.25861	NM_173870	ENSMUSG00000026110	Mgat4a	9530018I07Rik|GnT-IVa|glcNAc-T-IVa	mannoside acetylglucosaminyltransferase 4, isoenzyme A	protein-coding	4.5	12.5	12.5	164.5	18.5	4.0	15.0	15.5
Merged-chr12-91734814-4	chr12	91734711	91734911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 3 of 6)	intron (NM_175367, intron 3 of 6)	51625.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	90.0	127.5	90.0	1703.5	178.0	53.0	103.5	64.0
Merged-chr7-59230584-4	chr7	59230466	59230666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033962, intron 1 of 10)	intron (NM_001033962, intron 1 of 10)	1816.0	NM_173010	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	29.0	22.0	29.5	660.5	49.0	33.5	28.5	47.0
Merged-chr11-31675645-1	chr11	31675545	31675745	+	614.666687	f1_c57bl6.idr	Intergenic	Intergenic	-3783.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	6.0	9.5	6.0	72.5	21.5	6.0	3.5	7.0
Merged-chr19-32309606-4	chr19	32309505	32309705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	MTD|LTR|ERVL-MaLR	39711.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	83.5	172.5	97.5	715.0	180.0	48.5	82.5	39.0
Merged-chr19-3685985-4	chr19	3685904	3686104	+	877.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008513, intron 1 of 22)	CpG	560.0	NM_008513	16973.0	Mm.274581	NM_008513	ENSMUSG00000024913	Lrp5	BMND1|HBM|LR3|LRP7|OPPG|mKIAA4142	low density lipoprotein receptor-related protein 5	protein-coding	11.0	11.5	4.0	105.5	30.0	7.5	7.5	20.0
Merged-chr3-20027523-4	chr3	20027423	20027623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 4 of 16)	intron (NM_080634, intron 4 of 16)	7787.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	156.5	233.5	250.5	2895.5	291.0	128.5	155.5	141.0
Merged-chr19-5491459-4	chr19	5491364	5491564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007687, intron 1 of 3)	intron (NM_007687, intron 1 of 3)	1009.0	NM_007687	12631.0	Mm.329655	NM_007687	ENSMUSG00000056201	Cfl1	AA959946|Cof	cofilin 1, non-muscle	protein-coding	56.0	124.5	76.0	734.0	152.5	70.5	60.5	67.0
Merged-chr11-54464780-3	chr11	54464688	54464888	+	926.177795	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173753, intron 1 of 17)	intron (NM_173753, intron 1 of 17)	26609.0	NM_173753	216742.0	Mm.34087	NM_173753	ENSMUSG00000035992	Fnip1	A730024A03Rik|AI838773|AW557298	folliculin interacting protein 1	protein-coding	14.0	12.5	10.0	207.5	29.5	3.0	7.0	7.0
Merged-chr1-131379186-4	chr1	131379114	131379314	+	921.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 4 of 22)	(A)n|Simple_repeat|Simple_repeat	-99651.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	18.5	24.5	10.0	221.0	41.0	16.0	8.5	11.0
Merged-chr7-30761965-3	chr7	30761863	30762063	+	915.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1793.0	NM_001166173	73712.0	Mm.30138	NM_028618	ENSMUSG00000060962	Dmkn	1110014F24Rik|AW561900|C130074A08|SK30|SK89|cI-36	dermokine	protein-coding	8.0	11.5	11.0	201.5	19.0	4.0	7.5	5.5
Merged-chr11-76495459-4	chr11	76495317	76495517	+	938.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346670)	promoter-TSS (NM_001346670)	-922.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	20.5	21.5	4.5	155.0	25.0	11.5	7.0	17.0
Merged-chr2-52862126-4	chr2	52862014	52862214	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	4246.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	33.0	51.5	27.0	353.0	73.0	32.0	37.5	22.0
Merged-chr11-89025722-4	chr11	89025615	89025815	+	987.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26312.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	14.5	47.5	20.0	188.5	46.0	22.0	6.5	19.5
Merged-chr7-142334368-3	chr7	142334249	142334449	+	861.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177265, intron 3 of 3)	intron (NM_177265, intron 3 of 3)	30847.0	NM_015809	50775.0	Mm.389990	NM_015809	ENSMUSG00000045236	Krtap5-4	-	keratin associated protein 5-4	protein-coding	3.0	6.5	1.5	77.5	16.5	10.0	9.0	6.5
Merged-chr9-14074446-4	chr9	14074345	14074545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-201856.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	28.0	70.5	62.0	937.0	136.0	30.5	65.5	53.0
Merged-chr13-96697944-4	chr13	96697828	96698028	+	788.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-26992.0	NM_008255	15357.0	Mm.316652	NM_008255	ENSMUSG00000021670	Hmgcr	HMG-CoAR|Red	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	protein-coding	10.0	10.5	10.5	87.5	21.5	3.0	13.0	10.0
Merged-chr11-70446877-4	chr11	70446779	70446979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5052.0	NM_025397	66172.0	Mm.46424	NM_025397	ENSMUSG00000018923	Med11	1110030J09Rik|AI465144|AW545069	mediator complex subunit 11	protein-coding	100.0	148.5	73.5	1145.5	191.0	70.5	89.5	76.0
Merged-chr7-112285780-3	chr7	112285740	112285940	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001193305, intron 3 of 25)	intron (NM_001193305, intron 3 of 25)	60004.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	24.0	15.0	19.0	345.0	13.0	4.0	8.0	1.0
Merged-chr1-165461099-4	chr1	165461021	165461221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027430)	promoter-TSS (NM_027430)	-87.0	NM_027430	70456.0	Mm.195625	NM_027430	ENSMUSG00000026568	Mpc2	0610006C01Rik|2010002I07Rik|2610205H19Rik|AA108335|Brp44|ESTM43	mitochondrial pyruvate carrier 2	protein-coding	455.0	708.5	496.5	7447.0	1040.5	406.5	599.5	429.0
Merged-chr14-122109134-4	chr14	122109068	122109268	+	782.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080556, intron 1 of 16)	intron (NM_080556, intron 1 of 16)	2086.0	NM_080556	68059.0	Mm.275191	NM_080556	ENSMUSG00000025544	Tm9sf2	1500001N15Rik|AA536814|D14Ertd64e|P76	transmembrane 9 superfamily member 2	protein-coding	5.0	4.5	5.5	169.0	16.0	7.0	7.0	15.5
Merged-chr7-5060356-4	chr7	5060273	5060473	+	943.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290432, exon 6 of 6)	exon (NM_001290432, exon 6 of 6)	-1770.0	NM_133671	22185.0	Mm.360389	NM_133671	ENSMUSG00000030435	U2af2	65kDa	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2	protein-coding	19.5	22.0	12.5	126.0	29.0	10.5	12.0	10.5
Merged-chr16-91484261-3	chr16	91484119	91484319	+	921.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010508)	promoter-TSS (NM_010508)	-996.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	10.5	3.5	5.0	29.0	11.5	8.5	7.5	7.0
Merged-chr10-20834734-4	chr10	20834640	20834840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-109662.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	28.0	57.5	24.0	634.0	72.5	35.5	33.5	63.0
Merged-chr10-81390017-4	chr10	81389911	81390111	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3053.0	NM_001099917	72273.0	Mm.253147	NM_001099917	ENSMUSG00000078439	Smim24	2210404O07Rik	small integral membrane protein 24	protein-coding	20.0	24.0	16.5	331.0	57.5	14.5	27.5	26.5
Merged-chr5-135707981-4	chr5	135707885	135708085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	intron (NM_008898, intron 1 of 15)	18840.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	100.5	116.0	99.5	1615.0	147.5	65.0	105.0	89.0
Merged-chr2-171719393-2	chr2	171719293	171719493	+	972.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243406.0	NR_040509	75655.0	Mm.396203	NR_040509	ENSMUSG00000086823	1700028P15Rik	-	RIKEN cDNA 1700028P15 gene	ncRNA	9.0	7.0	5.0	189.0	14.0	2.5	1.0	2.5
Merged-chr2-84620660-3	chr2	84620562	84620762	+	797.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 4 of 18)	intron (NM_001355064, intron 4 of 18)	28818.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	12.5	5.0	6.0	98.0	18.0	2.0	7.0	4.5
Merged-chr11-12050687-3	chr11	12050567	12050767	+	960.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13247.0	NM_010345	14783.0	Mm.273117	NM_010345	ENSMUSG00000020176	Grb10	5730571D09Rik|AI325020|Meg1|mKIAA0207	growth factor receptor bound protein 10	protein-coding	13.0	9.0	9.0	240.5	18.0	6.5	14.0	11.0
Merged-chr1-174236188-4	chr1	174236086	174236286	+	937.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011465, intron 42 of 51)	intron (NM_011465, intron 42 of 51)	14790.0	NM_146715	258710.0	Mm.377647	NM_146715	ENSMUSG00000050788	Olfr419	MOR267-6	olfactory receptor 419	protein-coding	19.5	39.5	40.5	530.5	32.5	16.0	27.0	14.5
Merged-chr5-53385709-4	chr5	53385582	53385782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	118576.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	28.5	57.5	33.0	719.0	117.5	56.5	44.5	35.0
Merged-chr9-114812152-4	chr9	114812049	114812249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027294, intron 1 of 3)	RSINE1|SINE|B4	-30156.0	NM_001252479	102545.0	Mm.35600	NM_133978	ENSMUSG00000032436	Cmtm7	AI481279|Cklfsf7|LNV	CKLF-like MARVEL transmembrane domain containing 7	protein-coding	68.5	61.0	54.0	747.0	77.5	25.5	33.0	42.0
Merged-chr3-136253035-4	chr3	136252943	136253143	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033350, intron 3 of 16)	intron (NM_001033350, intron 3 of 16)	73023.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	31.0	32.0	36.5	416.0	39.5	26.0	33.5	25.5
Merged-chr19-7057860-4	chr19	7057746	7057946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134147, intron 1 of 10)	intron (NM_134147, intron 1 of 10)	1078.0	NM_134147	107227.0	Mm.439977	NM_134147	ENSMUSG00000036278	Macrod1	AI604841|AW743046|D930010J01Rik|Lrp16	MACRO domain containing 1	protein-coding	82.5	105.5	50.0	1298.0	239.0	63.5	67.0	50.5
Merged-chr11-6444628-4	chr11	6444530	6444730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347064)	promoter-TSS (NM_001347064)	-187.0	NM_001347064	77605.0	Mm.27624	NM_029938	ENSMUSG00000041126	H2afv	C530002L11Rik|H2a.z-2|H2av|Tg(Wnt1-cre)11Rth|Wnt1-Cre|Wnt1::Cre|Wnt1cre	H2A histone family, member V	protein-coding	286.0	502.5	291.0	4321.5	731.0	282.5	264.0	244.0
Merged-chr9-89261953-4	chr9	89261848	89262048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	50564.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	95.0	145.5	129.5	2227.5	133.0	67.5	88.0	64.5
Merged-chr8-4613111-4	chr8	4612983	4613183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145591)	promoter-TSS (NM_145591)	-87.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	159.5	198.0	180.0	3466.0	422.0	146.0	238.5	141.5
Merged-chr11-3170179-2	chr11	3170084	3170284	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 7 of 32)	MTC|LTR|ERVL-MaLR	23279.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	22.0	40.0	21.0	198.0	0.0	1.0	2.0	1.0
Merged-chr19-60598422-4	chr19	60598321	60598521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17398.0	NM_001172096	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	76.5	128.5	86.0	1304.0	172.5	60.0	60.0	67.5
Merged-chr3-81037563-4	chr3	81037384	81037584	+	966.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019971, exon 1 of 6)	exon (NM_019971, exon 1 of 6)	1068.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	15.0	14.5	18.0	175.5	45.0	16.5	15.5	9.0
Merged-chr2-79372689-4	chr2	79372630	79372830	+	863.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048176, intron 2 of 12)	(TG)n|Simple_repeat|Simple_repeat	56258.0	NM_001048176	228094.0	Mm.440704	NM_001033295	ENSMUSG00000075256	Cerkl	Gm1958|Rp26	ceramide kinase-like	protein-coding	12.0	0.0	8.0	112.0	19.5	6.0	10.5	6.5
Merged-chr5-88508712-4	chr5	88508633	88508833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19164.0	NM_152839	16069.0	Mm.1192	NM_152839	ENSMUSG00000067149	Jchain	9530090F24Rik|AI323815|Igj|Jch	immunoglobulin joining chain	protein-coding	76.5	68.0	99.5	971.0	220.5	79.0	105.0	100.5
Merged-chr10-94304542-4	chr10	94304449	94304649	+	932.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5846.0	NR_033209	215472.0	Mm.255656	NM_174999	ENSMUSG00000053420	Gm4792	E130012K09|EG215472	predicted gene 4792	ncRNA	24.0	30.5	16.0	462.0	28.0	8.5	13.5	9.5
Merged-chr9-13511205-3	chr9	13511132	13511332	+	746.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79871.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	3.0	7.0	15.5	333.5	12.0	6.0	7.5	5.0
Merged-chr8-34743605-2	chr8	34743505	34743705	+	673.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64005.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	1.0	2.0	2.0	26.0	16.0	6.5	5.5	7.0
Merged-chr2-31076547-4	chr2	31076456	31076656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	B3A|SINE|B2	19944.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	28.5	37.0	29.0	409.0	76.5	17.0	29.5	27.0
Merged-chr19-11061042-4	chr19	11060951	11061151	+	905.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-10485.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	12.5	17.5	12.5	223.5	47.0	12.5	18.0	13.0
Merged-chr17-13867130-4	chr17	13867044	13867244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 22 of 33)	intron (NR_151731, intron 22 of 33)	-81229.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	64.5	51.5	67.0	1104.0	74.0	37.5	39.0	41.0
Merged-chr1-135670561-4	chr1	135670463	135670663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49500.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	26.5	42.0	22.5	359.0	41.5	17.0	26.0	36.5
Merged-chr19-3767905-6	chr19	3767924	3768124	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001167886, exon 2 of 11)	5' UTR (NM_001167886, exon 2 of 11)	603.0	NM_001167885	225888.0	Mm.278578	NM_144871	ENSMUSG00000045098	Kmt5b	AA117471|C630029K18Rik|Suv4-20h1|Suv420h1	lysine methyltransferase 5B	protein-coding	14.0	21.0	18.0	123.0	29.0	18.0	5.0	21.0
Merged-chr19-55561998-3	chr19	55561902	55562102	+	704.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	intron (NM_001360431, intron 8 of 8)	140202.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	6.5	10.5	8.5	104.0	15.5	1.0	6.5	5.5
Merged-chr3-89279667-4	chr3	89279574	89279774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010107)	promoter-TSS (NM_010107)	-29.0	NM_010107	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	51.0	44.0	31.5	669.0	67.5	33.0	46.0	19.5
Merged-chr14-68655861-4	chr14	68655773	68655973	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183366)	promoter-TSS (NM_183366)	-31.0	NM_183366	13522.0	Mm.117450	NM_010082	ENSMUSG00000014725	Adam28	C130072N01Rik|D430033C21Rik|Dtgn1|MDC-L|MDCL|TECADAM|eMDCII	a disintegrin and metallopeptidase domain 28	protein-coding	31.0	62.0	44.5	843.5	55.5	29.5	23.5	23.0
Merged-chr2-60880144-2	chr2	60880044	60880244	+	754.200012	f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	1294.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	0.5	5.5	0.0	16.0	5.0	4.5	5.0	6.5
Merged-chr19-3882464-4	chr19	3882344	3882544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271496, intron 3 of 11)	intron (NM_001271496, intron 3 of 11)	22786.0	NM_016921	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	26.0	48.5	29.5	395.5	104.0	20.0	25.5	25.5
Merged-chr5-63826112-2	chr5	63825998	63826198	+	830.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	13603.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	2.5	4.5	3.5	111.5	23.0	4.5	7.0	5.0
Merged-chr10-34267543-4	chr10	34267452	34267652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14638.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	27.0	45.5	28.5	407.0	70.5	26.0	38.5	32.0
Merged-chr6-34352178-3	chr6	34352070	34352270	+	624.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1976.0	NM_008012	14187.0	Mm.5378	NM_008012	ENSMUSG00000029762	Akr1b8	FR-1|Fgfrp|Fgrp	aldo-keto reductase family 1, member B8	protein-coding	8.0	5.0	5.0	163.5	4.5	3.0	3.0	7.0
Merged-chr11-94549128-4	chr11	94549043	94549243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013381)	promoter-TSS (NM_001013381)	64.0	NM_001013381	237926.0	Mm.342275	NM_001013381	ENSMUSG00000039096	Rsad1	B430319G23|BC056485	radical S-adenosyl methionine domain containing 1	protein-coding	53.0	66.0	39.5	596.5	118.5	63.5	48.5	75.5
Merged-chr8-40598550-4	chr8	40598472	40598672	+	871.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040699, intron 3 of 13)	intron (NM_001040699, intron 3 of 13)	36220.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	6.5	8.0	15.0	94.5	49.0	23.5	29.0	31.0
Merged-chr4-120952274-4	chr4	120952133	120952333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005788)	promoter-TSS (NM_001005788)	-532.0	NM_001005788	381549.0	Mm.331840	NM_001005788	ENSMUSG00000064141	Zfp69	Gm1029|Krab2|Zfp63	zinc finger protein 69	protein-coding	21.5	35.5	20.5	299.5	53.0	22.0	23.0	27.5
Merged-chr10-59227495-2	chr10	59227395	59227595	+	866.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	5573.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	11.0	10.5	7.0	19.5	8.5	8.5	8.0	2.5
Merged-chr4-95830543-4	chr4	95830425	95830625	+	907.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 11 of 15)	intron (NM_001113412, intron 11 of 15)	136510.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	4.0	14.0	5.5	117.5	33.5	9.0	13.5	20.0
Merged-chr6-51939272-1	chr6	51939172	51939372	+	550.5	f0_balb.idr	intron (NM_018773, intron 4 of 12)	intron (NM_018773, intron 4 of 12)	73277.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	10.5	4.5	8.0	97.0	13.0	2.0	4.5	4.0
Merged-chr5-113703549-3	chr5	113703449	113703649	+	957.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033216, intron 2 of 2)	intron (NR_033216, intron 2 of 2)	21223.0	NR_033216	381707.0	Mm.159016	NR_033216	ENSMUSG00000042184	1700069L16Rik	1700096P12Rik	RIKEN cDNA 1700069L16 gene	ncRNA	9.0	12.0	15.0	167.0	13.5	2.0	10.0	13.0
Merged-chr7-19501135-4	chr7	19501036	19501236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	7195.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	131.5	195.5	103.5	1614.0	306.0	102.5	93.0	111.5
Merged-chr12-98628175-4	chr12	98628061	98628261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289572)	promoter-TSS (NM_001289572)	19.0	NM_001289574	104871.0	Mm.210053	NM_178914	ENSMUSG00000021007	Spata7	AI661438|B230306G18Rik|HSD3	spermatogenesis associated 7	protein-coding	56.0	79.0	61.0	630.0	95.0	50.5	61.0	53.0
Merged-chr2-167747645-4	chr2	167747544	167747744	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56467.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	26.5	62.0	33.0	318.0	89.5	36.0	43.0	22.5
Merged-chr7-30244672-3	chr7	30244577	30244777	+	741.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152437, intron 22 of 32)	intron (NR_152437, intron 22 of 32)	-7912.0	NM_001289817	381867.0	Mm.483986	NM_001289817	ENSMUSG00000100512	Ovol3	Gm1903|movo3	ovo like zinc finger 3	protein-coding	9.5	5.5	6.5	80.5	6.0	1.5	2.0	2.5
Merged-chr10-99085088-4	chr10	99084989	99085189	+	919.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21993.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	19.0	18.5	12.0	198.0	45.0	19.0	23.0	17.0
Merged-chr7-63925503-4	chr7	63925426	63925626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	intron (NM_021366, intron 1 of 1)	8669.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	103.5	48.0	52.5	1009.5	146.5	41.0	86.0	57.5
Merged-chr11-30026095-4	chr11	30025974	30026174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146016)	promoter-TSS (NM_146016)	-41.0	NM_146016	237711.0	Mm.445271	NM_146016	ENSMUSG00000044072	Eml6	2900083P10Rik|C230094A16Rik|EMAP-6	echinoderm microtubule associated protein like 6	protein-coding	279.5	497.5	334.0	5400.5	730.5	310.0	385.5	317.0
Merged-chr4-62348353-7	chr4	62348269	62348469	+	932.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 2 of 27)	intron (NM_001355385, intron 2 of 27)	12227.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	9.5	24.0	10.0	87.0	21.5	14.0	5.5	7.5
Merged-chr1-160792316-3	chr1	160792138	160792338	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013862, intron 1 of 20)	CpG	700.0	NM_013862	29809.0	Mm.25833	NM_013862	ENSMUSG00000026721	Rabgap1l	5830411O09Rik|8430421H08Rik|9630005B12Rik|AW049894|HHL|Hh1|mKIAA0471	RAB GTPase activating protein 1-like	protein-coding	10.0	11.5	15.5	128.0	12.0	4.5	6.5	8.5
Merged-chr9-22484959-6	chr9	22484838	22485038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178415, intron 2 of 22)	PB1D10|SINE|Alu	9223.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	19.5	25.5	38.0	471.0	34.5	14.0	13.0	23.0
Merged-chr8-46740200-4	chr8	46740090	46740290	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045750)	promoter-TSS (NR_045750)	445.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	17.0	21.5	14.5	216.0	23.5	6.0	17.0	17.0
Merged-chr6-145244443-4	chr6	145244348	145244548	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021284, intron 2 of 4)	intron (NM_021284, intron 2 of 4)	5783.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	32.5	22.5	21.0	578.5	62.0	17.5	24.0	33.5
Merged-chr10-93256904-4	chr10	93256808	93257008	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282967, intron 2 of 3)	intron (NM_001282967, intron 2 of 3)	54251.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	21.5	33.5	55.0	425.5	29.5	17.0	16.5	17.0
Merged-chr4-43442256-4	chr4	43442173	43442373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011571)	promoter-TSS (NM_011571)	-4.0	NM_011571	21754.0	Mm.485441	NM_011571	ENSMUSG00000028458	Tesk1	AI326901	testis specific protein kinase 1	protein-coding	180.0	280.0	138.5	2242.0	430.5	204.5	208.0	156.0
Merged-chr6-52955515-4	chr6	52955417	52955617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	-45897.0	NM_001168277	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	20.5	37.5	21.0	607.0	85.0	23.0	42.5	42.0
Merged-chr17-5202058-3	chr17	5201957	5202157	+	711.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	206983.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	14.5	11.5	6.5	108.0	23.5	11.0	9.5	9.0
Merged-chr8-86852366-3	chr8	86852292	86852492	+	921.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 3 of 6)	intron (NM_030563, intron 3 of 6)	32866.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	8.0	11.5	5.0	181.5	18.5	6.5	5.0	9.0
Merged-chr11-79920074-4	chr11	79919968	79920168	+	870.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42319.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	6.5	5.0	7.0	96.5	33.5	10.5	11.0	15.0
Merged-chr8-117343166-4	chr8	117343058	117343258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-6012.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	67.0	95.5	85.0	1421.5	146.5	43.0	68.0	78.5
Merged-chr7-30309476-3	chr7	30309373	30309573	+	727.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198027, intron 1 of 6)	intron (NM_198027, intron 1 of 6)	720.0	NM_198027	233065.0	Mm.276277	NM_198027	ENSMUSG00000042831	Alkbh6	AI839550|Abh6|C130099A02	alkB homolog 6	protein-coding	19.5	5.5	5.0	115.0	20.5	5.5	4.0	10.0
Merged-chr4-43420010-4	chr4	43419917	43420117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 2 of 11)	intron (NM_001037709, intron 2 of 11)	9117.0	NM_177377	329831.0	Mm.454466	NM_177377	ENSMUSG00000042788	Fam166b	4833436C18Rik	family with sequence similarity 166, member B	protein-coding	21.0	37.0	32.0	467.5	93.5	20.0	22.0	36.0
Merged-chr16-91461886-4	chr16	91461787	91461987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3217.0	NR_077219	100503120.0	Mm.387130	NR_077219	ENSMUSG00000084866	A930006K02Rik	-	RIKEN cDNA A930006K02 gene	ncRNA	114.5	177.5	102.0	1150.5	269.5	90.5	106.5	111.5
Merged-chr12-102426530-4	chr12	102426435	102426635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	intron (NM_011175, intron 1 of 13)	13278.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	143.5	198.5	168.0	2761.0	315.5	103.0	140.0	97.0
Merged-chr18-55391801-4	chr18	55391711	55391911	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-399220.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	16.5	22.5	13.5	225.5	30.5	9.0	32.5	14.5
Merged-chr16-18426478-4	chr16	18426375	18426575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013711)	promoter-TSS (NM_013711)	58.0	NM_013711	26462.0	Mm.390906	NM_013711	ENSMUSG00000075704	Txnrd2	AA118373|ESTM573010|TGR|Tr3|Trxr2|Trxrd2	thioredoxin reductase 2	protein-coding	31.0	46.5	48.0	724.0	76.5	36.5	38.5	40.0
Merged-chr2-37735933-4	chr2	37735805	37736005	+	914.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-40344.0	NM_001163566	241324.0	Mm.392369	NM_001163566	ENSMUSG00000035403	Crb2	5930402A21|BC043114	crumbs family member 2	protein-coding	13.0	14.5	10.0	120.5	18.5	3.0	12.5	9.5
Merged-chr7-100508837-4	chr7	100508735	100508935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153527, intron 3 of 7)	URR1B|DNA|hAT-Charlie	5980.0	NM_153527	69387.0	Mm.278554	NM_153527	ENSMUSG00000030708	Dnajb13	1700014P03Rik|Tsarg	DnaJ heat shock protein family (Hsp40) member B13	protein-coding	58.5	83.5	71.0	975.0	170.5	62.5	59.0	79.0
Merged-chr1-133131159-4	chr1	133131064	133131264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133819)	promoter-TSS (NM_133819)	-2.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	261.5	390.0	247.0	3406.0	604.0	238.5	293.0	245.0
Merged-chr15-68258164-4	chr15	68258055	68258255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 1 of 13)	intron (NR_152182, intron 1 of 13)	701.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	159.5	251.5	184.5	3151.0	486.0	142.5	225.0	161.0
Merged-chr10-99097574-3	chr10	99097453	99097653	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9529.0	NM_027740	382406.0	Mm.440656	NM_027740	ENSMUSG00000019952	Poc1b	4933430F16Rik|Wdr51b	POC1 centriolar protein B	protein-coding	5.5	8.0	7.5	113.0	20.0	7.5	8.0	6.0
Merged-chr19-40684271-4	chr19	40684164	40684364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	24494.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	219.0	346.5	227.0	3397.0	434.0	181.0	216.0	170.5
Merged-chr1-120121675-2	chr1	120121575	120121775	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007830)	promoter-TSS (NM_007830)	488.0	NM_001172074	73103.0	Mm.271602	NM_028439	ENSMUSG00000026388	3110009E18Rik	-	RIKEN cDNA 3110009E18 gene	protein-coding	10.0	7.5	4.0	89.0	21.0	5.0	7.5	8.5
Merged-chr1-131199392-4	chr1	131199277	131199477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 2 of 5)	intron (NM_018750, intron 2 of 5)	808.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	46.0	59.5	40.0	748.0	96.5	33.5	50.5	39.0
Merged-chr7-139213290-4	chr7	139213170	139213370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162540)	promoter-TSS (NM_001162540)	-5.0	NM_001143755	76612.0	Mm.17757	NM_027164	ENSMUSG00000015980	Lrrc27	1700071K18Rik|2310044E02Rik	leucine rich repeat containing 27	protein-coding	158.0	223.0	80.5	1889.5	487.0	220.5	221.0	191.5
Merged-chr3-88407200-4	chr3	88407115	88407315	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025928, intron 1 of 4)	intron (NM_025928, intron 1 of 4)	3182.0	NM_001310605	67037.0	Mm.36715	NM_025928	ENSMUSG00000028066	Pmf1	2600009M07Rik|AL033286|AW060657	polyamine-modulated factor 1	protein-coding	22.0	40.5	9.5	181.0	63.0	17.0	16.0	14.5
Merged-chr3-90612819-3	chr3	90612729	90612929	+	718.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011313)	promoter-TSS (NM_011313)	-65.0	NM_011313	20200.0	Mm.100144	NM_011313	ENSMUSG00000001025	S100a6	2A9|5B10|CALCYCLIN|Cacy|PRA	S100 calcium binding protein A6 (calcyclin)	protein-coding	3.5	5.0	3.5	25.5	17.0	9.5	12.0	14.5
Merged-chr2-166656353-4	chr2	166656241	166656441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	57491.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	22.0	38.0	36.0	358.0	73.0	23.0	32.0	34.0
Merged-chr1-65113005-4	chr1	65112914	65113114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175293, intron 5 of 7)	intron (NM_175293, intron 5 of 7)	-9651.0	NM_007774	12964.0	Mm.26904	NM_007774	ENSMUSG00000044429	Cryga	Cryg-4|DGcry-4	crystallin, gamma A	protein-coding	93.5	130.5	106.5	1839.5	279.5	82.5	115.5	117.0
Merged-chr14-76110845-4	chr14	76110764	76110964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013745)	promoter-TSS (NM_013745)	-27.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	133.0	238.0	139.0	2243.5	441.0	169.5	163.0	186.5
Merged-chr18-12738557-4	chr18	12738507	12738707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2748.0	NM_181731	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	39.5	41.0	33.0	814.5	83.5	45.0	64.0	48.5
Merged-chr1-191397229-4	chr1	191397126	191397326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144880)	promoter-TSS (NM_144880)	-185.0	NM_144880	226849.0	Mm.205569	NM_144880	ENSMUSG00000026626	Ppp2r5a	PR61alpha	protein phosphatase 2, regulatory subunit B', alpha	protein-coding	274.0	401.5	258.5	4223.0	734.0	270.5	438.5	323.0
Merged-chr9-116177464-3	chr9	116177367	116177567	+	741.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2104.0	NM_029575	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	6.0	7.0	6.0	115.5	14.5	3.0	4.0	5.0
Merged-chr7-16816277-4	chr7	16816167	16816367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133789, exon 1 of 18)	5' UTR (NM_133789, exon 1 of 18)	378.0	NM_001039878	97387.0	Mm.21612	NM_133789	ENSMUSG00000030374	Strn4	C80611|ZIN|zinedin	striatin, calmodulin binding protein 4	protein-coding	26.5	41.5	34.0	363.5	79.0	40.0	36.0	26.5
Merged-chr1-184562457-4	chr1	184562358	184562558	+	970.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4767.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	27.5	58.0	12.5	366.0	44.5	14.5	14.5	18.0
Merged-chr14-21854103-3	chr14	21854008	21854208	+	847.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_176925, exon 3 of 3)	3' UTR (NM_176925, exon 3 of 3)	-5198.0	NM_026965	69156.0	Mm.11827	NM_026965	ENSMUSG00000021773	Comtd1	1810030M08Rik|MT773	catechol-O-methyltransferase domain containing 1	protein-coding	5.0	4.5	4.5	64.0	9.5	10.0	14.5	9.5
Merged-chr1-176814765-4	chr1	176814666	176814866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151682, exon 1 of 17)	non-coding (NR_151682, exon 1 of 17)	106.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	178.5	292.5	181.0	3216.0	509.0	192.5	318.5	203.5
Merged-chr7-34313466-4	chr7	34313359	34313559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-27850.0	NM_172741	233103.0	Mm.491097	NM_172741	ENSMUSG00000066571	4931406P16Rik	AA553327|mKIAA0355	RIKEN cDNA 4931406P16 gene	protein-coding	51.0	87.5	94.5	921.5	123.5	64.5	43.5	64.0
Merged-chr3-20348390-4	chr3	20348286	20348486	+	962.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175086, intron 1 of 1)	MusHAL1|LINE|L1	18791.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	16.0	26.0	17.0	400.5	28.0	15.5	23.0	16.5
Merged-chr2-121140527-4	chr2	121140444	121140644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177846, exon 1 of 1)	exon (NM_177846, exon 1 of 1)	116.0	NM_001290812	75894.0	Mm.384805	NM_029475	ENSMUSG00000027259	Adal	4930578F03Rik	adenosine deaminase-like	protein-coding	91.0	140.5	119.0	1048.5	177.5	106.0	61.0	102.5
Merged-chr7-143461122-4	chr7	143461030	143461230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161624)	promoter-TSS (NM_001161624)	-80.0	NM_001161624	12577.0	Mm.168789	NM_009876	ENSMUSG00000037664	Cdkn1c	AL024410|CDKI|Kip2|p57(kip2)|p57Kip2	cyclin-dependent kinase inhibitor 1C (P57)	protein-coding	105.0	116.0	90.0	1357.5	218.0	69.0	132.5	61.5
Merged-chr1-80665922-4	chr1	80665814	80666014	+	989.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285927)	promoter-TSS (NM_001285927)	-562.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	30.5	19.5	34.5	590.5	42.0	19.5	28.5	19.5
Merged-chr1-170950817-4	chr1	170950727	170950927	+	926.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-23244.0	NM_001160215	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	11.5	16.5	14.5	151.0	45.0	18.0	15.5	10.0
Merged-chr12-108767052-2	chr12	108766952	108767152	+	718.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26259.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	7.0	6.0	6.5	49.5	9.5	5.0	1.0	2.0
Merged-chr17-32268865-4	chr17	32268767	32268967	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286630, intron 1 of 19)	intron (NM_001286630, intron 1 of 19)	15256.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	20.5	27.5	19.5	275.0	46.0	13.5	16.5	12.0
Merged-chr17-28232629-4	chr17	28232532	28232732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011145)	promoter-TSS (NM_011145)	-122.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	153.0	238.0	91.0	1565.5	328.5	125.5	137.5	99.5
Merged-chr7-49754959-3	chr7	49754854	49755054	+	910.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4152.0	NM_001146053	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	16.5	20.5	10.5	137.5	43.0	5.0	7.5	8.0
Merged-chr18-4971013-4	chr18	4970930	4971130	+	890.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75559.0	NM_153153	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	6.0	7.0	6.5	196.0	29.0	3.0	14.5	18.0
Merged-chr1-155384093-4	chr1	155383985	155384185	+	974.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 2 of 14)	intron (NM_011273, intron 2 of 14)	33359.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	23.0	31.0	16.5	289.5	70.5	20.5	36.0	15.0
Merged-chr3-123798022-3	chr3	123797914	123798114	+	808.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107162.0	NR_121616	83398.0	Mm.443908	NM_031186	ENSMUSG00000027977	Ndst3	4921531K01Rik|4930511P15Rik|N-HSST 3|NDST-3	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3	protein-coding	9.0	5.5	10.0	138.5	1.0	1.0	0.0	1.0
Merged-chr7-121073739-4	chr7	121073656	121073856	+	834.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030691, intron 1 of 5)	intron (NM_030691, intron 1 of 5)	774.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	6.0	10.5	13.5	154.0	20.0	7.0	10.5	10.0
Merged-chr9-70258106-2	chr9	70258006	70258206	+	574.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	MER90a|LTR|ERV1	50756.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	7.0	10.0	2.0	62.5	20.5	5.5	4.5	5.0
Merged-chr7-30417869-6	chr7	30417807	30418007	+	909.138916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011662)	TTS (NM_011662)	1947.0	NM_011827	23900.0	Mm.379050	NM_011827	ENSMUSG00000064109	Hcst	DAP10|KAP10	hematopoietic cell signal transducer	protein-coding	8.5	11.5	7.5	51.0	21.0	14.0	11.0	9.0
Merged-chr5-143820892-3	chr5	143820793	143820993	+	591.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50969.0	NM_013557	15467.0	Mm.389709	NM_013557	ENSMUSG00000029613	Eif2ak1	HCR|Hri	eukaryotic translation initiation factor 2 alpha kinase 1	protein-coding	13.0	6.5	8.0	79.5	11.5	3.0	7.5	2.0
Merged-chr14-18234112-4	chr14	18234014	18234214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011584, intron 1 of 7)	intron (NM_011584, intron 1 of 7)	4992.0	NM_011584	353187.0	Mm.26587	NM_011584	ENSMUSG00000021775	Nr1d2	RVR|Rev-erb	nuclear receptor subfamily 1, group D, member 2	protein-coding	143.5	210.5	158.5	3018.0	411.5	144.0	182.5	128.0
Merged-chr1-38898033-2	chr1	38897942	38898142	+	563.0	f0_balb.idr|f1_c57bl6.idr	5' UTR (NM_145142, exon 1 of 7)	5' UTR (NM_145142, exon 1 of 7)	118.0	NM_145142	98388.0	Mm.260054	NM_145142	ENSMUSG00000026080	Chst10	AI507003|AU041319|Hnk-1st|ST	carbohydrate sulfotransferase 10	protein-coding	7.5	5.5	6.0	88.5	3.5	0.0	3.0	2.0
Merged-chr17-65662833-4	chr17	65662748	65662948	+	992.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 6 of 6)	intron (NM_133685, intron 6 of 6)	-20644.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	26.5	58.0	42.0	445.5	55.0	22.0	21.0	15.0
Merged-chr13-93095784-2	chr13	93095684	93095884	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_023821, exon 2 of 13)	exon (NM_023821, exon 2 of 13)	951.0	NR_046182	408254.0	Mm.474857	NR_046182	ENSMUSG00000114968	A630019I02Rik	-	RIKEN cDNA A630019I02 gene	ncRNA	6.5	16.5	10.0	48.5	14.0	6.5	9.0	7.0
Merged-chr8-92855853-4	chr8	92855745	92855945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357375, intron 1 of 12)	intron (NM_001357375, intron 1 of 12)	512.0	NM_001357374	270084.0	Mm.21463	NM_173014	ENSMUSG00000033192	Lpcat2	1-AGPAT 11|A330042H22|Aytl1|Aytl1a|lpafat1|lysoPAFAT|lysoPAFAT/LPCAT2	lysophosphatidylcholine acyltransferase 2	protein-coding	16.5	24.0	17.5	247.0	37.0	17.5	24.0	28.5
Merged-chr1-136618777-4	chr1	136618694	136618894	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6107.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	31.0	25.0	22.5	474.5	34.0	17.5	17.5	15.0
Merged-chr6-116733763-4	chr6	116733672	116733872	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17014.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	4.0	15.0	2.5	175.0	27.5	7.0	14.0	4.5
Merged-chr2-50786605-4	chr2	50786506	50786706	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-123078.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	23.0	37.0	19.0	164.5	80.5	30.0	25.5	8.0
Merged-chr6-108564225-3	chr6	108564127	108564327	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58940.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	0.0	0.0	0.0	0.0	105.0	47.0	62.5	53.0
Merged-chr5-88573492-4	chr5	88573406	88573606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289774, intron 1 of 17)	intron (NM_001289774, intron 1 of 17)	8466.0	NM_001289775	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	123.5	207.0	152.0	2149.0	235.0	113.5	99.5	96.0
Merged-chr1-155062222-4	chr1	155062116	155062316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21048.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	41.0	32.5	23.5	417.0	62.0	22.5	48.5	39.0
Merged-chr14-58322771-3	chr14	58322621	58322821	+	739.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	250035.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	9.0	8.0	4.5	103.0	15.5	5.5	3.5	8.0
Merged-chr13-107758501-4	chr13	107758409	107758609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 5 of 14)	intron (NM_145456, intron 5 of 14)	71112.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	56.0	74.0	80.0	1160.5	206.5	44.5	68.5	74.5
Merged-chr13-47014826-4	chr13	47014700	47014900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175340)	promoter-TSS (NM_175340)	50.0	NM_175340	105193.0	Mm.25593	NM_175340	ENSMUSG00000044231	Nhlrc1	AI505271|B230309E09Rik|EPM2B	NHL repeat containing 1	protein-coding	45.5	84.5	48.0	662.5	111.0	37.0	46.5	55.5
Merged-chr8-124744866-2	chr8	124744736	124744936	+	631.75	f0_balb.idr|f1_balb.idr	intron (NM_001081120, intron 1 of 1)	intron (NM_001081120, intron 1 of 1)	6973.0	NM_001081120	69627.0	Mm.271600	NM_001081120	ENSMUSG00000043068	Fam89a	2310031A18Rik	family with sequence similarity 89, member A	protein-coding	8.0	10.5	9.5	64.5	3.5	0.5	1.0	1.5
Merged-chr10-80579169-2	chr10	80579069	80579269	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1873.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	1.5	3.5	1.0	32.0	11.0	6.0	4.5	10.0
Merged-chr10-13304050-4	chr10	13303962	13304162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	20227.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	46.0	77.5	41.5	695.0	126.5	42.5	43.5	29.0
Merged-chr12-73779412-4	chr12	73779297	73779497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121927.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	212.0	339.0	236.5	2900.0	449.0	194.0	244.5	193.0
Merged-chr12-55492374-3	chr12	55492278	55492478	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010907, exon 1 of 6)	exon (NM_010907, exon 1 of 6)	269.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	170.0	360.5	176.5	1176.0	448.0	190.5	119.5	88.5
Merged-chr9-45269154-4	chr9	45269055	45269255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008348)	promoter-TSS (NM_008348)	-6.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	61.5	161.0	48.5	673.0	156.0	63.5	85.5	36.5
Merged-chr1-191557338-4	chr1	191557232	191557432	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305233, intron 9 of 15)	intron (NM_001305233, intron 9 of 15)	18212.0	NM_029766	76843.0	Mm.189102	NM_029766	ENSMUSG00000037474	Dtl	2810047L02Rik|5730564G15Rik|L2dtl|Ramp	denticleless E3 ubiquitin protein ligase	protein-coding	35.0	49.0	41.5	325.5	142.0	26.5	30.0	22.5
Merged-chr4-122853813-4	chr4	122853691	122853891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 6 of 8)	intron (NM_008917, intron 6 of 8)	17564.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	66.0	98.0	46.0	774.0	165.5	77.5	68.0	64.0
Merged-chr5-130256978-4	chr5	130256893	130257093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001015876)	promoter-TSS (NM_001015876)	-44.0	NR_153350	100929.0	Mm.271296	NM_178897	ENSMUSG00000056310	Tyw1	AW125391|Rsafd1	tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)	protein-coding	193.5	338.5	179.0	3186.0	475.0	221.0	232.5	233.5
Merged-chr7-30588910-4	chr7	30588809	30589009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290573)	promoter-TSS (NM_001290573)	-183.0	NM_029274	75410.0	Mm.168688	NM_029274	ENSMUSG00000006307	Kmt2b	2610014H22Rik|Mll2|Wbp7|mKIAA0304	lysine (K)-specific methyltransferase 2B	protein-coding	140.0	235.5	132.0	1742.0	433.5	149.5	217.0	170.0
Merged-chr17-50390335-4	chr17	50390249	50390449	+	965.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-96729.0	NM_001277863	13164.0	Mm.280641	NM_010021	ENSMUSG00000010592	Dazl	Daz-like|Dazh|Dazl1|Dazla|Tpx-2|Tpx2	deleted in azoospermia-like	protein-coding	21.5	22.0	8.0	299.5	73.5	30.0	25.0	11.5
Merged-chr3-9605960-4	chr3	9605900	9606100	+	847.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133218, intron 1 of 8)	intron (NM_133218, intron 1 of 8)	4085.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	9.0	8.0	10.0	238.5	14.0	4.5	14.5	10.5
Merged-chr14-19995811-3	chr14	19995725	19995925	+	750.522217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	-18576.0	NM_001285909	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	9.0	9.5	8.5	83.5	18.5	8.0	6.5	9.5
Merged-chr12-85980182-4	chr12	85980076	85980276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	98865.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	48.5	70.0	38.5	640.5	107.0	38.5	70.0	45.0
Merged-chr8-70523167-4	chr8	70523054	70523254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029366)	promoter-TSS (NM_029366)	26.0	NM_029366	75620.0	Mm.482129	NM_029366	ENSMUSG00000055553	Kxd1	0610030B01Rik|2810422J05Rik|C78305	KxDL motif containing 1	protein-coding	121.5	200.0	58.5	1243.0	285.0	94.5	96.0	94.5
Merged-chr7-3800127-3	chr7	3800018	3800218	+	644.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289428, intron 12 of 12)	intron (NM_001289428, intron 12 of 12)	44933.0	NM_011089	18725.0	Mm.482470	NM_011089	ENSMUSG00000089942	Pira2	6M23	paired-Ig-like receptor A2	protein-coding	0.0	0.0	0.0	0.0	46.0	9.5	17.5	11.0
Merged-chr4-133369665-4	chr4	133369547	133369747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358455)	promoter-TSS (NM_001358455)	-88.0	NM_016981	20544.0	Mm.4312	NM_016981	ENSMUSG00000028854	Slc9a1	AW554487|Apnh|Mir5122|Nhe1|mir-5122|swe	solute carrier family 9 (sodium/hydrogen exchanger), member 1	protein-coding	50.5	101.0	34.5	601.5	157.5	59.0	74.5	76.0
Merged-chr7-24856687-3	chr7	24856596	24856796	+	791.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12995.0	NM_182785	232973.0	Mm.189648	NM_182785	ENSMUSG00000062732	Lypd4	4933400F01Rik	Ly6/Plaur domain containing 4	protein-coding	17.0	15.0	10.5	127.5	14.0	11.0	8.5	2.0
Merged-chr1-124072797-2	chr1	124072697	124072897	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27238.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	7.5	8.5	3.0	191.0	13.0	7.5	9.0	7.0
Merged-chr3-30515161-3	chr3	30515057	30515257	+	900.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5482.0	NM_021442	14013.0	Mm.56965	NM_007963	ENSMUSG00000027684	Mecom	D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1	MDS1 and EVI1 complex locus	protein-coding	10.5	13.5	21.5	158.0	6.0	5.0	5.0	2.0
Merged-chr12-116461382-4	chr12	116461286	116461486	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133762, exon 29 of 29)	3' UTR (NM_133762, exon 29 of 29)	-24334.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	20.5	14.0	32.5	509.0	22.0	14.0	23.5	13.0
Merged-chr6-128381434-4	chr6	128381344	128381544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027697, intron 2 of 2)	intron (NM_027697, intron 2 of 2)	5934.0	NM_027697	71149.0	Mm.483176	NM_027697	ENSMUSG00000079304	Tex52	4933413G19Rik	testis expressed 52	protein-coding	31.5	38.5	51.5	693.0	121.5	7.0	22.0	53.0
Merged-chr6-136814926-4	chr6	136814860	136815060	+	822.035706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021714, intron 11 of 11)	B2_Mm1a|SINE|B2	6712.0	NM_177688	232440.0	Mm.154564	NM_177688	ENSMUSG00000060032	H2afj	E130307C13	H2A histone family, member J	protein-coding	25.5	9.5	20.5	61.0	8.0	7.5	7.5	11.5
Merged-chr1-80475131-4	chr1	80475036	80475236	+	720.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040460, intron 2 of 2)	intron (NR_040460, intron 2 of 2)	29204.0	NR_040460	72208.0	Mm.396181	NR_040460	ENSMUSG00000101483	1700016L21Rik	CD11c-DTR|DCKO|DTR-GFP|DTR-GRP|Jr3|Tg(Itgax-DTR/EGFP)57Lan	RIKEN cDNA 1700016L21 gene	ncRNA	8.0	6.0	8.0	249.5	23.5	5.0	12.0	22.5
Merged-chr1-174042255-2	chr1	174042135	174042335	+	710.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_146717, exon 1 of 1)	exon (NM_146717, exon 1 of 1)	302.0	NM_146717	258712.0	Mm.223146	NM_146717	ENSMUSG00000045381	Olfr433	MOR123-1	olfactory receptor 433	protein-coding	0.0	4.5	2.5	28.0	6.0	4.5	4.5	4.5
Merged-chr16-21837818-4	chr16	21837721	21837921	+	711.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43474.0	NR_037957	100043489.0	Mm.326535	NR_037957	ENSMUSG00000097290	1300002E11Rik	1500026P21Rik	RIKEN cDNA 1300002E11 gene	ncRNA	9.0	9.0	7.0	96.0	33.0	6.0	7.0	11.0
Merged-chr7-67342297-2	chr7	67342197	67342397	+	922.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 2 of 11)	intron (NM_001357324, intron 2 of 11)	30561.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	9.0	12.0	4.5	28.5	18.5	8.5	7.5	10.0
Merged-chr1-90998538-4	chr1	90998459	90998659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111312)	promoter-TSS (NM_001111312)	-168.0	NM_001111312	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	33.0	36.5	45.5	411.5	40.0	18.0	32.5	20.5
Merged-chr17-22360765-4	chr17	22360674	22360874	+	854.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347330)	promoter-TSS (NM_001347330)	626.0	NM_176962	319615.0	Mm.442162	NM_176962	ENSMUSG00000033972	Zfp944	6330416L07Rik	zinc finger protein 944	protein-coding	13.5	14.5	11.5	197.0	32.5	15.0	14.0	11.5
Merged-chr19-11786822-3	chr19	11786724	11786924	+	963.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 5 of 10)	intron (NM_011502, intron 5 of 10)	16409.0	NM_025606	94063.0	Mm.203928	NM_025606	ENSMUSG00000024683	Mrpl16	2310039D06Rik	mitochondrial ribosomal protein L16	protein-coding	11.0	16.0	7.0	208.5	1.5	4.0	1.5	3.0
Merged-chr15-64313663-2	chr15	64313563	64313763	+	771.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276462)	promoter-TSS (NM_001276462)	-990.0	NM_001276463	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	7.0	5.0	5.0	43.0	10.0	0.5	2.0	2.0
Merged-chr13-76256597-4	chr13	76256527	76256727	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-128334.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	68.5	110.5	60.5	846.5	59.0	22.5	18.5	22.5
Merged-chr17-84850638-4	chr17	84850518	84850718	+	986.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-59832.0	NM_028233	72416.0	Mm.217027	NM_028233	ENSMUSG00000024120	Lrpprc	3110001K13Rik|C76645|Gp130|Lrp130|Lsfc	leucine-rich PPR-motif containing	protein-coding	14.5	34.0	25.0	311.0	48.0	16.0	19.0	21.0
Merged-chr12-87407677-4	chr12	87407548	87407748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19293.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	54.5	73.0	66.5	731.5	120.5	43.0	63.5	51.5
Merged-chr11-97511530-2	chr11	97511471	97511671	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018873, exon 20 of 20)	3' UTR (NM_018873, exon 20 of 20)	-11231.0	NM_001289118	100141474.0	Mm.482426	NM_001289118	ENSMUSG00000047988	4933428G20Rik	-	RIKEN cDNA 4933428G20 gene	protein-coding	2.5	18.0	3.0	64.0	10.5	5.5	6.5	11.5
Merged-chr17-34633474-4	chr17	34633379	34633579	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3793.0	NM_030890	260297.0	Mm.390965	NM_030890	ENSMUSG00000015476	Prrt1	Bat-4|Bat4|D17H6S54E|DSPD1|G5b|NG5|ORF31|SynDIG4	proline-rich transmembrane protein 1	protein-coding	6.0	10.5	2.5	91.5	50.0	20.0	9.0	9.0
Merged-chr3-89340729-4	chr3	89340657	89340857	+	794.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037722, intron 20 of 22)	intron (NM_001037722, intron 20 of 22)	-2729.0	NM_007910	13639.0	Mm.16332	NM_007910	ENSMUSG00000028040	Efna4	EFL-4|Epl4|LERK-4	ephrin A4	protein-coding	4.5	10.5	5.0	123.0	18.0	7.0	7.0	3.5
Merged-chr2-168117348-4	chr2	168117236	168117436	+	826.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	36332.0	NM_021409	58220.0	Mm.292834	NM_021409	ENSMUSG00000044641	Pard6b	AV025615|Par6b	par-6 family cell polarity regulator beta	protein-coding	11.0	17.5	4.0	85.0	34.5	9.0	15.0	15.0
Merged-chr14-73057027-4	chr14	73056915	73057115	+	940.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-7901.0	NM_001162412	70086.0	Mm.158324	NM_133720	ENSMUSG00000033470	Cysltr2	2300001H05Rik|CYSLT2R|Cltr2|Cyslt2	cysteinyl leukotriene receptor 2	protein-coding	28.5	26.5	22.0	503.5	50.0	11.0	14.5	33.0
Merged-chr5-3596632-4	chr5	3596538	3596738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172991)	promoter-TSS (NM_172991)	-91.0	NM_172991	269623.0	Mm.38014	NM_172991	ENSMUSG00000040302	Rbm48	AW548102|C030048B08Rik	RNA binding motif protein 48	protein-coding	30.5	46.0	22.5	568.0	90.5	41.5	54.0	46.5
Merged-chr2-53000534-4	chr2	53000448	53000648	+	936.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	142680.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	15.5	13.0	6.0	205.0	27.5	9.0	11.5	5.5
Merged-chr5-99336606-4	chr5	99336482	99336682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-83655.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	208.0	334.0	190.0	3224.5	470.5	181.0	229.5	189.5
Merged-chr2-4551490-6	chr2	4551328	4551528	+	877.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 11 of 23)	MTEa|LTR|ERVL-MaLR	-8326.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	8.0	8.5	5.5	139.0	12.0	8.0	5.0	15.0
Merged-chr2-148902505-4	chr2	148902414	148902614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27002.0	NM_009976	13010.0	Mm.4263	NM_009976	ENSMUSG00000027447	Cst3	CysC	cystatin C	protein-coding	30.0	52.0	59.0	666.0	52.0	30.5	33.5	29.0
Merged-chr19-9977962-4	chr19	9977861	9978061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2639.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	83.5	143.0	69.5	386.0	214.5	61.0	65.0	56.5
Merged-chr5-64360767-4	chr5	64360664	64360864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	107178.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	27.0	81.0	36.0	383.5	51.0	33.0	23.0	24.5
Merged-chr12-79812994-4	chr12	79812873	79813073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 10 of 10)	intron (NM_009014, intron 10 of 10)	111760.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	25.0	29.0	27.5	404.0	47.0	26.5	31.5	32.5
Merged-chr4-45473339-4	chr4	45473236	45473436	+	966.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 2 of 5)	intron (NM_001033306, intron 2 of 5)	57492.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	20.5	27.5	61.5	1010.0	36.5	10.0	14.0	17.5
Merged-chr19-46137370-4	chr19	46137267	46137467	+	918.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008852, exon 2 of 4)	exon (NM_008852, exon 2 of 4)	5468.0	NM_007703	12686.0	Mm.21806	NM_007703	ENSMUSG00000038754	Elovl3	CIN-2|Cig30	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3	protein-coding	8.5	24.5	9.0	199.5	32.5	5.5	14.0	13.5
Merged-chr3-95311231-4	chr3	95311124	95311324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3966.0	NM_029789	76893.0	Mm.181009	NM_029789	ENSMUSG00000015714	Cers2	0610013I17Rik|AI225939|Lass2|TRH3	ceramide synthase 2	protein-coding	23.5	34.0	19.5	151.5	43.0	18.5	21.0	25.0
Merged-chr1-139037318-4	chr1	139037221	139037421	+	899.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166501, intron 3 of 21)	intron (NM_001166501, intron 3 of 21)	59664.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	20.0	18.0	11.0	377.0	70.0	8.5	13.0	15.0
Merged-chr16-90045789-3	chr16	90045689	90045889	+	766.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71090.0	NM_001145886	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	8.5	2.0	4.0	104.5	11.5	4.5	12.5	10.5
Merged-chr6-117825594-4	chr6	117825493	117825693	+	765.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER91B|DNA|hAT-Tip100	-15588.0	NM_001346649	232337.0	Mm.290847	NM_177684	ENSMUSG00000059689	Zfp637	AI646709|BC021601|Znf32	zinc finger protein 637	protein-coding	6.0	12.0	3.5	139.5	23.0	8.5	21.0	12.5
Merged-chr9-69656229-4	chr9	69656148	69656348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104692.0	NM_022378	64290.0	Mm.440890	NM_022378	ENSMUSG00000059246	Foxb1	C43|Fkh5|Foxb1a|Foxb1b|Hfh-e5.1|Mf3|Twh	forkhead box B1	protein-coding	50.5	50.5	61.5	762.0	49.5	23.5	24.5	23.0
Merged-chr15-83295096-4	chr15	83295009	83295209	+	936.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43335.0	NM_001004150	239559.0	Mm.323805	NM_001004150	ENSMUSG00000047878	A4galt	-	alpha 1,4-galactosyltransferase	protein-coding	15.5	26.5	21.5	279.0	32.0	6.5	13.5	24.5
Merged-chr5-115532135-4	chr5	115532044	115532244	+	973.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	25468.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	22.0	51.5	26.5	424.5	51.5	14.0	44.0	20.5
Merged-chr3-84853000-3	chr3	84852903	84853103	+	715.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 1 of 13)	ORR1E|LTR|ERVL-MaLR	-11142.0	NM_001177774	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	15.0	15.5	10.5	85.5	6.0	4.5	4.5	3.0
Merged-chr1-43462886-4	chr1	43462800	43463000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	17149.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	53.5	80.0	57.0	1047.0	117.0	64.5	47.5	45.0
Merged-chr13-37779530-4	chr13	37779451	37779651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46487.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	41.5	53.5	46.5	665.0	85.0	17.0	36.0	30.0
Merged-chr11-101316177-4	chr11	101316095	101316295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011192)	promoter-TSS (NM_011192)	-18.0	NM_011192	19192.0	Mm.288477	NM_011192	ENSMUSG00000078652	Psme3	AA410043|AU020960|Ki|PA28gamma|REGgamma|pa28g	proteaseome (prosome, macropain) activator subunit 3 (PA28 gamma, Ki)	protein-coding	41.0	38.0	9.5	309.5	90.5	30.5	22.0	43.0
Merged-chr10-26753325-3	chr10	26753234	26753434	+	900.138855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19178.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	17.5	12.5	9.0	162.0	33.5	1.5	4.5	3.0
Merged-chr2-116984043-4	chr2	116983956	116984156	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83904.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	24.5	40.0	32.0	261.5	61.5	19.5	9.5	19.0
Merged-chr14-57701989-4	chr14	57701892	57702092	+	813.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015771, intron 3 of 7)	intron (NM_015771, intron 3 of 7)	32426.0	NM_153382	50523.0	Mm.347899	NM_015771	ENSMUSG00000021959	Lats2	4932411G09Rik|AV277261|AW228608	large tumor suppressor 2	protein-coding	5.5	16.0	4.5	232.5	22.0	11.5	11.0	8.5
Merged-chr3-18624040-4	chr3	18623942	18624142	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143565.0	NR_040544	73959.0	Mm.60616	NR_040544	ENSMUSG00000102699	4930433B08Rik	-	RIKEN cDNA 4930433B08 gene	ncRNA	54.0	61.0	29.5	530.0	56.0	18.5	34.0	20.0
Merged-chr1-143814125-4	chr1	143814012	143814212	+	918.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	36834.0	NM_019562	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	12.0	9.0	3.5	214.5	30.0	18.0	18.5	15.5
Merged-chr2-166185603-4	chr2	166185500	166185700	+	882.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29917.0	NM_028072	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	19.0	17.0	10.5	164.5	33.5	10.5	10.5	25.5
Merged-chr4-114908261-3	chr4	114908146	114908346	+	770.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008593, exon 1 of 1)	exon (NM_008593, exon 1 of 1)	652.0	NM_008593	17301.0	Mm.7997	NM_008593	ENSMUSG00000055210	Foxd2	AI426778|Mf2	forkhead box D2	protein-coding	2.0	3.5	2.0	60.5	16.0	9.0	5.0	16.0
Merged-chr10-121586148-4	chr10	121586067	121586267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019786, intron 1 of 20)	intron (NM_019786, intron 1 of 20)	627.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	79.5	180.0	62.5	458.5	261.5	106.0	80.0	69.0
Merged-chr15-78591960-4	chr15	78591861	78592061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_B_Mam|LINE|RTE-X	-5086.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	45.0	35.0	60.0	726.0	117.5	35.0	78.0	46.0
Merged-chr13-69559323-2	chr13	69559224	69559424	+	856.125	f0_balb.idr|f1_balb.idr	Intergenic	ERVL-E-int|LTR|ERVL	-25460.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	11.5	9.5	20.5	461.5	0.0	0.0	1.0	0.0
Merged-chr5-123682569-4	chr5	123682454	123682654	+	938.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	intron (NM_001359224, intron 1 of 18)	1807.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	20.5	27.0	20.0	377.0	35.5	12.0	22.5	11.0
Merged-chr8-68206913-4	chr8	68206806	68207006	+	907.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69622.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	10.0	19.0	8.5	300.5	80.0	15.0	23.5	33.0
Merged-chr19-16046048-4	chr19	16045942	16046142	+	903.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60967.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	9.5	6.5	27.5	201.5	36.0	2.0	20.0	12.0
Merged-chr13-12058614-6	chr13	12058514	12058714	+	999.194458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023868, intron 1 of 104)	intron (NM_023868, intron 1 of 104)	48331.0	NM_023868	20191.0	Mm.239871	NM_023868	ENSMUSG00000021313	Ryr2	9330127I20Rik|RYR-2	ryanodine receptor 2, cardiac	protein-coding	48.0	34.0	44.5	456.5	39.0	13.0	19.5	21.0
Merged-chr16-64884107-4	chr16	64884001	64884201	+	864.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	32100.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	10.0	15.0	7.0	165.5	21.5	8.0	16.5	13.5
Merged-chr19-4215360-5	chr19	4215220	4215420	+	939.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310039, intron 1 of 2)	CpG	931.0	NM_001310039	56708.0	Mm.347919	NM_019952	ENSMUSG00000040663	Clcf1	BSF-3|Bsf3|CLC|NNT-1	cardiotrophin-like cytokine factor 1	protein-coding	8.0	13.5	9.5	75.5	14.5	13.0	5.5	11.5
Merged-chr17-14953657-4	chr17	14953554	14953754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024250, intron 7 of 11)	intron (NM_024250, intron 7 of 11)	7606.0	NM_001360983	72057.0	Mm.440085	NM_024250	ENSMUSG00000023883	Phf10	1810055P05Rik|AV024533	PHD finger protein 10	protein-coding	116.0	134.5	112.0	1882.0	237.0	83.0	147.5	82.0
Merged-chr12-11265966-4	chr12	11265882	11266082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177331)	promoter-TSS (NM_177331)	96.0	NM_025695	67241.0	Mm.173953	NM_025695	ENSMUSG00000020608	Smc6	2810489L22Rik|3830418C19Rik|AA990493|AU018782|AW742439|SMC-6|Smc6l1|mKIAA4103	structural maintenance of chromosomes 6	protein-coding	241.5	424.5	278.5	3752.5	537.0	198.0	263.0	188.5
Merged-chr1-55051575-3	chr1	55051479	55051679	+	882.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-1191.0	NM_026424	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	1.0	5.5	4.0	90.0	24.5	7.5	12.5	15.5
Merged-chr12-71008023-3	chr12	71007931	71008131	+	812.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045055, intron 3 of 3)	intron (NR_045055, intron 3 of 3)	7792.0	NR_045056	73204.0	Mm.363770	NR_045055	ENSMUSG00000085622	3110056K07Rik	4921536K06Rik	RIKEN cDNA 3110056K07 gene	ncRNA	8.5	14.0	11.0	267.0	16.0	10.5	10.0	9.5
Merged-chr9-110452711-4	chr9	110452612	110452812	+	958.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360306, intron 2 of 9)	intron (NM_001360306, intron 2 of 9)	23982.0	NM_001360306	270201.0	Mm.41744	NM_177771	ENSMUSG00000054792	Klhl18	A930041K15|AW545966	kelch-like 18	protein-coding	26.0	14.5	18.0	255.5	57.5	12.0	21.0	21.5
Merged-chr13-30695372-4	chr13	30695265	30695465	+	858.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 3 of 7)	intron (NM_134068, intron 3 of 7)	35306.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	37.0	31.0	8.0	134.5	20.0	16.0	7.5	11.0
Merged-chr5-139384776-4	chr5	139384669	139384869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	4130.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	83.5	119.0	132.5	1858.0	165.5	67.5	102.0	97.0
Merged-chr7-67217314-3	chr7	67217215	67217415	+	789.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131044, intron 2 of 2)	intron (NR_131044, intron 2 of 2)	5143.0	NR_131044	76628.0	Mm.384589	NR_131043	ENSMUSG00000097527	1700112J16Rik	-	RIKEN cDNA 1700112J16 gene	ncRNA	4.5	17.0	8.5	86.5	16.5	4.0	8.5	10.5
Merged-chr14-70867995-3	chr14	70867907	70868107	+	913.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045939, intron 2 of 3)	Lx|LINE|L1	15074.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	8.0	46.5	20.0	76.5	22.0	6.5	13.5	5.0
Merged-chr3-84942393-3	chr3	84942280	84942480	+	923.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177774, intron 3 of 12)	intron (NM_001177774, intron 3 of 12)	-9831.0	NM_080428	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	7.5	13.0	14.0	147.0	20.0	0.5	10.0	14.0
Merged-chr15-80026389-1	chr15	80026289	80026489	+	566.0	f0_balb.idr	Intergenic	Intergenic	-11581.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	13.5	10.0	9.5	95.5	5.5	1.5	1.5	2.5
Merged-chr9-48618862-2	chr9	48618762	48618962	+	783.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13739.0	NM_001311062	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	1.5	4.0	2.0	30.0	16.0	11.0	6.0	7.5
Merged-chr3-138521082-4	chr3	138520990	138521190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5101.0	NM_007917	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	18.0	26.5	21.5	337.0	80.0	36.0	25.0	26.5
Merged-chr6-87811953-7	chr6	87811841	87812041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039394)	promoter-TSS (NM_001039394)	157.0	NR_104477	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	101.0	139.0	104.5	1182.5	185.0	91.5	99.0	97.0
Merged-chr6-128644181-1	chr6	128644081	128644281	+	571.0	f0_balb.idr	Intergenic	Intergenic	-18204.0	NM_053165	94071.0	Mm.197689	NM_053165	ENSMUSG00000030364	Clec2h	Clrf|clr-f	C-type lectin domain family 2, member h	protein-coding	5.5	6.5	11.5	74.0	5.5	1.0	9.5	3.5
Merged-chr3-90465407-5	chr3	90465165	90465365	+	958.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008727, exon 1 of 22)	exon (NM_008727, exon 1 of 22)	601.0	NM_008727	18160.0	Mm.4627	NM_008727	ENSMUSG00000027931	Npr1	AI893888|GC-A|NPR-A|NPRA|Pndr	natriuretic peptide receptor 1	protein-coding	6.0	8.5	8.5	85.0	8.0	5.0	5.0	5.0
Merged-chr15-58273124-4	chr15	58273032	58273232	+	846.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51037.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	8.0	7.5	13.0	149.0	18.0	8.5	15.0	14.5
Merged-chr4-8888486-4	chr4	8888403	8888603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137179.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	82.5	91.0	109.5	1516.0	200.0	62.0	131.0	104.5
Merged-chr13-54590864-4	chr13	54590756	54590956	+	910.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178605)	promoter-TSS (NM_178605)	625.0	NM_025933	67044.0	Mm.29353	NM_025933	ENSMUSG00000025868	Higd2a	2010110M21Rik|AA690237	HIG1 domain family, member 2A	protein-coding	15.0	16.5	9.0	115.5	44.0	15.5	20.5	11.5
Merged-chr12-41186177-3	chr12	41186070	41186270	+	688.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	162080.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	4.5	8.0	8.5	106.5	2.0	6.5	20.5	12.5
Merged-chr2-93214402-4	chr2	93214290	93214490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183180, intron 5 of 9)	intron (NM_183180, intron 5 of 9)	26842.0	NM_001025246	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	46.0	160.0	61.5	509.5	267.0	113.0	117.0	61.0
Merged-chr9-57836954-4	chr9	57836856	57837056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2722.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	158.0	280.5	163.5	1919.0	431.0	172.0	205.0	164.0
Merged-chr11-82954506-4	chr11	82954428	82954628	+	878.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183201, intron 1 of 5)	MER89|LTR|ERV1	2426.0	NM_183201	327978.0	Mm.42147	NM_183201	ENSMUSG00000054404	Slfn5	AI956840	schlafen 5	protein-coding	6.0	17.0	22.5	135.5	28.0	13.5	14.0	25.0
Merged-chr6-113330805-4	chr6	113330754	113330954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010957, intron 3 of 6)	ORR1A4|LTR|ERVL-MaLR	3878.0	NM_010957	18294.0	Mm.43612	NM_010957	ENSMUSG00000030271	Ogg1	Mmh	8-oxoguanine DNA-glycosylase 1	protein-coding	37.5	43.5	11.0	387.0	73.5	26.0	46.0	25.0
Merged-chr2-153015419-4	chr2	153015292	153015492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178939)	promoter-TSS (NM_178939)	-9.0	NM_178939	68559.0	Mm.12746	NM_178939	ENSMUSG00000027472	Pdrg1	1110004D19Rik|AU020945|AV006589|Pdrg	p53 and DNA damage regulated 1	protein-coding	76.5	177.0	71.5	1061.0	185.5	106.0	87.0	104.5
Merged-chr4-9009912-4	chr4	9009815	9010015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	258591.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	83.0	76.5	99.5	1724.5	162.0	52.0	95.0	75.0
Merged-chr5-124032312-4	chr5	124032183	124032383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177876)	promoter-TSS (NM_177876)	-23.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	37.5	77.0	37.0	767.0	264.0	117.5	84.5	82.0
Merged-chr11-76202026-4	chr11	76201918	76202118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027773)	promoter-TSS (NM_027773)	-38.0	NM_027773	116972.0	Mm.188413	NM_027773	ENSMUSG00000069808	Fam57a	2310047D13Rik|4932415L08Rik|5430402E13Rik|5430420K21Rik|Wdt3	family with sequence similarity 57, member A	protein-coding	42.0	78.0	31.5	673.5	91.5	27.0	51.0	30.0
Merged-chr10-117905890-4	chr10	117905784	117905984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19575.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	39.5	58.5	30.5	515.0	66.0	30.0	30.0	25.0
Merged-chr15-50867096-4	chr15	50867008	50867208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	intron (NM_032000, intron 1 of 5)	21941.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	93.0	147.5	71.0	1407.0	226.5	108.5	124.5	93.5
Merged-chr11-98026668-3	chr11	98026574	98026774	+	976.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159483)	promoter-TSS (NM_001159483)	-36.0	NM_001159483	19921.0	Mm.10247	NM_009078	ENSMUSG00000017404	Rpl19	-	ribosomal protein L19	protein-coding	15.5	32.0	7.0	214.0	68.5	35.0	18.5	26.0
Merged-chr9-96537041-4	chr9	96536942	96537142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-58367.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	34.0	22.0	38.5	279.5	48.5	9.5	26.0	23.0
Merged-chr19-6907773-4	chr19	6907648	6907848	+	987.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012021, intron 2 of 5)	intron (NM_012021, intron 2 of 5)	-1950.0	NM_001166370	67674.0	Mm.318804	NM_026306	ENSMUSG00000038812	Trmt112	0610038D11Rik|Trm112p	tRNA methyltransferase 11-2	protein-coding	20.5	51.5	17.0	233.0	68.5	39.0	17.0	23.5
Merged-chr15-78903435-4	chr15	78903345	78903545	+	868.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316685, intron 6 of 17)	intron (NM_001316685, intron 6 of 17)	3677.0	NM_009164	20401.0	Mm.4462	NM_009164	ENSMUSG00000022436	Sh3bp1	3BP-1	SH3-domain binding protein 1	protein-coding	11.5	10.5	7.5	104.5	36.5	15.0	4.5	6.5
Merged-chr11-97314310-2	chr11	97314211	97314411	+	778.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1405.0	NM_025927	67036.0	Mm.5381	NM_025927	ENSMUSG00000018882	Mrpl45	2600005P05Rik|AU043542|R75241	mitochondrial ribosomal protein L45	protein-coding	8.5	7.0	7.0	32.0	10.0	12.5	4.5	3.0
Merged-chr8-11393736-1	chr8	11393636	11393836	+	715.333313	f0_balb.idr	intron (NM_009932, intron 4 of 47)	ID2|SINE|ID	-80910.0	NM_009931	12826.0	Mm.738	NM_009931	ENSMUSG00000031502	Col4a1	Bru|Col4a-1|Raw|Svc	collagen, type IV, alpha 1	protein-coding	12.0	9.5	7.0	136.0	3.5	5.0	1.0	3.0
Merged-chr5-114691058-4	chr5	114690986	114691186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019821)	promoter-TSS (NM_019821)	-151.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	99.5	123.0	88.5	1158.5	316.0	98.0	140.0	93.5
Merged-chr16-16983902-4	chr16	16983801	16984001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038663, intron 1 of 7)	CpG	519.0	NM_001038663	26413.0	Mm.196581	NM_011949	ENSMUSG00000063358	Mapk1	9030612K14Rik|AA407128|AU018647|C78273|ERK|Erk2|MAPK2|PRKM2|Prkm1|p41mapk|p42mapk	mitogen-activated protein kinase 1	protein-coding	20.0	32.0	45.5	223.5	48.0	18.5	26.5	34.5
Merged-chr4-75297665-4	chr4	75297575	75297775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-19383.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	6.5	17.5	8.0	362.0	81.0	26.5	37.0	21.5
Merged-chr2-70825120-4	chr2	70825037	70825237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172664, intron 1 of 19)	CpG	343.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	27.5	27.5	42.0	261.5	60.0	14.0	27.0	35.0
Merged-chr5-34487595-4	chr5	34487471	34487671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26408.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	88.5	77.5	79.0	1221.5	146.5	56.0	92.0	83.0
Merged-chr13-58401610-4	chr13	58401540	58401740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_031761)	promoter-TSS (NR_031761)	477.0	NM_001360494	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	69.0	89.0	64.5	798.0	215.0	90.5	97.0	112.0
Merged-chr7-45716250-4	chr7	45716146	45716346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172561, intron 1 of 5)	intron (NM_001172561, intron 1 of 5)	-1039.0	NM_020011	56632.0	Mm.24222	NM_020011	ENSMUSG00000057342	Sphk2	C76851	sphingosine kinase 2	protein-coding	125.5	153.0	159.0	2232.0	256.5	80.5	142.0	147.0
Merged-chr3-98066647-4	chr3	98066561	98066761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	B3|SINE|B2	53123.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	53.0	76.0	56.5	950.5	62.0	28.0	33.0	42.0
Merged-chr3-87498351-4	chr3	87498277	87498477	+	726.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113238, intron 11 of 11)	Lx8|LINE|L1	-27201.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	11.5	8.0	12.5	121.5	15.5	7.0	12.0	6.0
Merged-chr3-148322129-4	chr3	148322035	148322235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	632500.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	46.5	101.5	55.5	529.0	108.5	28.5	35.5	23.5
Merged-chr17-70990608-4	chr17	70990548	70990748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023402)	promoter-TSS (NM_023402)	-132.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	40.0	87.0	109.0	606.0	100.0	51.5	47.0	61.0
Merged-chr2-155819950-2	chr2	155819850	155820050	+	969.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015528)	promoter-TSS (NR_015528)	-747.0	NR_015528	613262.0	Mm.330707	NR_015528	ENSMUSG00000074649	BC029722	-	cDNA sequence BC029722	ncRNA	6.5	3.0	5.0	45.5	16.5	5.0	8.5	13.5
Merged-chr5-20936028-4	chr5	20935924	20936124	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	intron (NM_001080977, intron 1 of 7)	-14965.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	20.5	25.5	20.0	388.5	42.5	22.5	8.5	17.0
Merged-chr18-79995795-4	chr18	79995643	79995843	+	949.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3-int|LTR|ERVL-MaLR	-51152.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	19.5	14.0	16.0	108.0	36.5	14.5	11.5	10.5
Merged-chr2-84538160-4	chr2	84538069	84538269	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31296.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	41.5	18.0	14.5	297.5	68.5	16.0	13.0	28.0
Merged-chr7-66689127-2	chr7	66689027	66689227	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001191001)	promoter-TSS (NM_001191001)	434.0	NM_080443	117589.0	Mm.34785	NM_080443	ENSMUSG00000030509	Asb7	AI449039|Asb-7|D030055C23Rik	ankyrin repeat and SOCS box-containing 7	protein-coding	5.0	11.0	6.5	72.5	13.0	5.0	4.0	7.5
Merged-chr8-93917370-4	chr8	93917270	93917470	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113384, intron 3 of 7)	intron (NM_001113384, intron 3 of 7)	95270.0	NM_011787	23802.0	Mm.34641	NM_011787	ENSMUSG00000031751	Amfr	gp78	autocrine motility factor receptor	protein-coding	16.5	12.5	25.5	269.0	23.0	14.5	6.0	23.0
Merged-chr9-66946379-2	chr9	66946282	66946482	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001361106)	promoter-TSS (NM_001361106)	-31.0	NM_001361106	67941.0	Mm.30120	NM_026467	ENSMUSG00000036781	Rps27l	1810034D23Rik	ribosomal protein S27-like	protein-coding	29.5	57.0	28.5	313.0	68.0	26.5	35.0	37.0
Merged-chr5-31240846-4	chr5	31240754	31240954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347326)	promoter-TSS (NM_001347326)	-29.0	NM_001347326	192292.0	Mm.292040	NM_147201	ENSMUSG00000029148	Nrbp1	B230344L17Rik|Nrbp	nuclear receptor binding protein 1	protein-coding	105.5	169.5	101.5	1491.5	276.5	120.5	148.0	121.5
Merged-chr1-69687208-4	chr1	69687089	69687289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1229.0	NM_011770	22779.0	Mm.106343	NM_011770	ENSMUSG00000025997	Ikzf2	A730095J18Rik|Helios|Zfpn1a2|Znfn1a2	IKAROS family zinc finger 2	protein-coding	25.0	34.5	24.0	481.5	51.5	11.5	37.0	23.0
Merged-chr2-59976565-4	chr2	59976437	59976637	+	856.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 6 of 35)	intron (NM_001001182, intron 6 of 35)	-93931.0	NM_028118	72137.0	Mm.288734	NM_028118	ENSMUSG00000026988	Wdsub1	1700048E19Rik|2610014F08Rik	WD repeat, SAM and U-box domain containing 1	protein-coding	9.0	12.5	14.5	212.5	20.5	2.5	14.5	7.5
Merged-chr11-5878330-4	chr11	5878229	5878429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361942)	promoter-TSS (NM_001361942)	-73.0	NM_008894	18972.0	Mm.35788	NM_008894	ENSMUSG00000020471	Pold2	50kDa|p50|po1D2	polymerase (DNA directed), delta 2, regulatory subunit	protein-coding	188.5	257.0	160.0	2697.5	452.5	177.0	223.5	147.0
Merged-chr8-46835770-4	chr8	46835656	46835856	+	839.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008391, intron 6 of 8)	intron (NM_008391, intron 6 of 8)	96011.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	4.5	4.5	11.5	124.5	14.0	10.5	15.0	11.0
Merged-chr16-58624234-2	chr16	58624134	58624334	+	874.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7256.0	NM_001033404	328695.0	Mm.293308	NM_001033404	ENSMUSG00000075002	Gm813	Gm1781	predicted gene 813	protein-coding	2.0	1.0	4.5	67.0	10.0	8.5	4.5	5.0
Merged-chr16-33684810-2	chr16	33684710	33684910	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_175256, exon 1 of 15)	exon (NM_175256, exon 1 of 15)	344.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	4.5	10.5	6.0	105.5	6.0	5.0	8.5	11.0
Merged-chr18-82909826-4	chr18	82909729	82909929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1050.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	19.5	48.5	41.0	280.0	69.5	35.0	24.0	40.0
Merged-chr19-17252280-1	chr19	17252180	17252380	+	556.0	f0_c57.idr	Intergenic	Intergenic	87225.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	5.0	5.0	1.0	52.0	13.5	8.0	12.0	4.5
Merged-chr4-134513016-3	chr4	134512914	134513114	+	897.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081099, intron 1 of 2)	MURVY-LTR|LTR|ERV1	2015.0	NM_001081099	69885.0	Mm.141592	NM_001081099	ENSMUSG00000078521	Aunip	2610002D18Rik|Clhc1	aurora kinase A and ninein interacting protein	protein-coding	0.0	0.0	0.0	0.0	56.0	16.5	20.0	12.0
Merged-chr9-107998051-4	chr9	107997955	107998155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4593.0	NM_013785	27399.0	Mm.276155	NM_013785	ENSMUSG00000032594	Ip6k1	1200016D08Rik|AU022776|Ihpk1|InsP6|InsP6k1|Itpk6	inositol hexaphosphate kinase 1	protein-coding	27.5	51.5	31.5	424.0	61.0	32.0	34.5	23.5
Merged-chr19-42518322-2	chr19	42518244	42518444	+	750.625	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_177464)	promoter-TSS (NM_177464)	-461.0	NM_177464	52013.0	Mm.254169	NM_177464	ENSMUSG00000025184	R3hcc1l	1700036B12Rik|AI450607|C10orf28|D19Ertd386e|GIDRP86|Gidrp88	R3H domain and coiled-coil containing 1 like	protein-coding	18.0	13.0	8.0	173.0	44.0	8.5	10.5	15.5
Merged-chr12-99326259-3	chr12	99326155	99326355	+	786.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 3 of 5)	intron (NM_183186, intron 3 of 5)	123819.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	5.0	5.0	5.0	146.0	24.5	3.5	9.5	4.5
Merged-chr19-4962128-5	chr19	4962100	4962300	+	943.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025553)	promoter-TSS (NM_025553)	-106.0	NM_025553	66419.0	Mm.28494	NM_025553	ENSMUSG00000024902	Mrpl11	2410001P07Rik|L11mt	mitochondrial ribosomal protein L11	protein-coding	18.0	33.0	26.0	291.5	53.0	29.0	21.5	25.5
Merged-chr2-69670737-3	chr2	69670630	69670830	+	872.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081087, exon 1 of 6)	exon (NM_001081087, exon 1 of 6)	610.0	NM_001081087	228003.0	Mm.178784	NM_001081087	ENSMUSG00000075307	Klhl41	Gm112|Kbtbd10|SARCOSIN	kelch-like 41	protein-coding	3.5	8.0	5.5	156.0	13.5	7.0	6.5	10.5
Merged-chr9-108290370-4	chr9	108290261	108290461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025449)	promoter-TSS (NM_025449)	-96.0	NM_025449	66257.0	Mm.10407	NM_025449	ENSMUSG00000032606	Nicn1	1500032A17Rik	nicolin 1	protein-coding	69.0	118.5	85.5	1311.5	223.0	71.5	123.0	73.0
Merged-chr7-135605577-2	chr7	135605477	135605677	+	586.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316679)	promoter-TSS (NM_001316679)	-251.0	NM_001316679	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	9.0	20.0	2.5	44.5	21.5	8.0	8.5	7.0
Merged-chr3-81996163-4	chr3	81996044	81996244	+	923.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021370)	promoter-TSS (NM_021370)	-778.0	NM_021370	58170.0	Mm.88839	NM_021370	ENSMUSG00000028008	Asic5	Accn5|Blinac|Inac	acid-sensing (proton-gated) ion channel family member 5	protein-coding	19.5	16.5	17.0	344.5	38.5	10.0	12.0	9.5
Merged-chr6-120189438-4	chr6	120189335	120189535	+	942.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-4388.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	29.0	27.0	34.0	582.0	24.5	19.5	15.5	17.5
Merged-chr15-34238145-4	chr15	34238039	34238239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033521, exon 1 of 7)	5' UTR (NM_033521, exon 1 of 7)	113.0	NM_033521	114128.0	Mm.197518	NM_033521	ENSMUSG00000022257	Laptm4b	C330023P13Rik|LAPTM4beta	lysosomal-associated protein transmembrane 4B	protein-coding	47.0	74.0	52.5	907.0	173.5	44.5	76.0	68.5
Merged-chr15-88491080-4	chr15	88490958	88491158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109244.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	31.5	36.5	20.5	710.5	124.0	23.0	45.5	54.0
Merged-chr13-23543491-4	chr13	23543333	23543533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013548)	promoter-TSS (NM_013548)	11.0	NM_178197	319182.0	Mm.352273	NM_178197	ENSMUSG00000114456	Hist1h2bh	H2b-221	histone cluster 1, H2bh	protein-coding	80.5	95.5	70.0	1158.5	215.0	71.5	108.5	84.5
Merged-chr16-93918510-4	chr16	93918415	93918615	+	973.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019500)	TTS (NM_019500)	11052.0	NM_001165925	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	23.0	24.0	10.0	174.0	91.5	31.0	49.5	35.5
Merged-chr9-16313465-4	chr9	16313357	16313557	+	969.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	ID_B1|SINE|B4	64774.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	25.0	27.0	26.5	396.5	39.0	19.5	16.5	16.5
Merged-chr13-44768022-2	chr13	44767922	44768122	+	964.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	B4A|SINE|B4	36751.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	5.5	5.0	5.0	148.5	30.0	2.0	2.5	5.0
Merged-chr19-6665499-4	chr19	6665405	6665605	+	830.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-122435.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	14.5	5.0	17.5	213.5	16.5	6.5	2.5	10.5
Merged-chr7-82744535-3	chr7	82744442	82744642	+	955.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_046004, exon 3 of 4)	non-coding (NR_046004, exon 3 of 4)	11102.0	NR_046004	77800.0	Mm.444811	NR_046004	ENSMUSG00000086690	4933406J10Rik	A930009F24Rik	RIKEN cDNA 4933406J10 gene	ncRNA	12.0	13.0	28.5	356.5	12.0	2.0	8.5	3.5
Merged-chr2-166195215-4	chr2	166195104	166195304	+	955.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39521.0	NM_028072	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	13.0	29.0	20.0	300.5	37.5	14.0	29.0	15.0
Merged-chr11-33274513-1	chr11	33274413	33274613	+	777.0	f0_balb.idr	intron (NR_110973, intron 23 of 28)	L2|LINE|L2	-70925.0	NM_019916	27140.0	Mm.25362	NM_019916	ENSMUSG00000040610	Tlx3	Hox11l2|Rnx|Tlx1l2	T cell leukemia, homeobox 3	protein-coding	6.0	10.5	10.0	193.5	1.0	1.5	2.5	1.0
Merged-chr7-17027653-5	chr7	17027534	17027734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011155, intron 1 of 12)	CpG	280.0	NM_011155	19060.0	Mm.3294	NM_011155	ENSMUSG00000003099	Ppp5c	AU020526|PP5	protein phosphatase 5, catalytic subunit	protein-coding	46.0	79.0	60.5	548.5	116.0	71.5	82.5	76.0
Merged-chr7-19225157-3	chr7	19225053	19225253	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175668)	TTS (NM_175668)	-3236.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	76.5	140.5	106.0	1049.0	6.5	1.5	6.0	4.0
Merged-chr10-127512054-4	chr10	127511913	127512113	+	775.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2926.0	NM_001098789	407790.0	Mm.336856	NM_001098789	ENSMUSG00000040280	Ndufa4l2	BC064011	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 4-like 2	protein-coding	5.5	15.0	4.5	36.5	16.5	10.0	4.5	7.0
Merged-chr1-79761740-4	chr1	79761652	79761852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111279)	promoter-TSS (NM_001111279)	17.0	NM_001111279	69368.0	Mm.293273	NM_027057	ENSMUSG00000073643	Wdfy1	1700013B03Rik|1700120F24Rik|FENS-1|Jr1|WDF1|ZFYVE17|mKIAA1435	WD repeat and FYVE domain containing 1	protein-coding	102.5	139.0	95.5	1644.0	287.5	116.0	140.0	80.5
Merged-chr10-40644900-2	chr10	40644800	40645000	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_133568, intron 3 of 4)	intron (NR_133568, intron 3 of 4)	14889.0	NR_133568	70503.0	Mm.252862	NM_027442	ENSMUSG00000063428	Ddo	5330420D20Rik|5730402C02Rik|AI467244	D-aspartate oxidase	protein-coding	2.0	10.5	5.0	49.0	27.5	9.0	4.5	6.0
Merged-chr16-55974595-4	chr16	55974503	55974703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027965)	promoter-TSS (NR_027965)	14.0	NR_027965	66391.0	Mm.472722	NM_133677	ENSMUSG00000102101	Zbtb11os1	2310061J03Rik	zinc finger and BTB domain containing 11, opposite strand 1	ncRNA	171.5	245.0	163.0	2563.0	501.5	147.5	274.0	181.0
Merged-chr1-173412657-2	chr1	173412566	173412766	+	894.666626	f0_c57.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-7938.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	1.5	7.5	2.0	23.5	59.5	10.5	24.0	11.5
Merged-chr1-121440802-4	chr1	121440693	121440893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029955, intron 3 of 23)	MTD|LTR|ERVL-MaLR	9726.0	NM_029955	70829.0	Mm.25788	NM_027567	ENSMUSG00000026339	Ccdc93	4633402D15Rik|9230102M16Rik	coiled-coil domain containing 93	protein-coding	71.5	79.5	98.5	1493.5	100.0	26.5	60.0	44.0
Merged-chr3-119782517-2	chr3	119782417	119782617	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310711, intron 1 of 13)	intron (NM_001310711, intron 1 of 13)	871.0	NM_001310711	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	10.0	15.5	26.5	214.5	34.0	19.5	10.5	28.5
Merged-chr5-114826404-4	chr5	114826298	114826498	+	902.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2930.0	NM_181075	330173.0	Mm.482205	NM_181075	ENSMUSG00000092486	2610524H06Rik	-	RIKEN cDNA 2610524H06 gene	protein-coding	11.5	14.0	8.0	143.0	26.0	11.0	9.0	15.5
Merged-chr15-8625580-4	chr15	8625481	8625681	+	853.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85226.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	9.0	14.0	11.5	238.5	23.5	10.0	6.5	11.0
Merged-chr18-4314759-4	chr18	4314650	4314850	+	676.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38203.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	8.0	4.5	7.0	57.0	24.5	6.0	2.5	9.5
Merged-chr6-129922874-1	chr6	129922774	129922974	+	674.0	f0_balb.idr	Intergenic	IAPEY3-int|LTR|ERVK	-9650.0	NM_008463	16636.0	Mm.14111	NM_008463	ENSMUSG00000030173	Klra5	Ly49e	killer cell lectin-like receptor, subfamily A, member 5	protein-coding	8.5	18.0	11.5	55.0	3.0	1.0	0.0	2.0
Merged-chr16-17205525-2	chr16	17205425	17205625	+	637.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-2610.0	NM_001033338	239731.0	Mm.86671	NM_001033338	ENSMUSG00000071636	Rimbp3	Gm1759|Gm603|RIM-BP3|mKIAA1666	RIMS binding protein 3	protein-coding	2.5	3.0	0.0	62.5	8.0	5.0	5.0	6.5
Merged-chr13-113600141-4	chr13	113600024	113600224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	18440.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	28.0	48.0	30.0	626.5	65.0	27.0	25.5	30.5
Merged-chr18-4055718-4	chr18	4055632	4055832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS4A|LTR|ERV1	-110100.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	36.5	30.0	38.5	394.5	97.0	40.0	49.0	59.0
Merged-chr18-5680329-4	chr18	5680214	5680414	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360981, intron 2 of 8)	Lx9|LINE|L1	87667.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	21.0	40.0	25.0	406.0	41.0	14.0	29.5	27.5
Merged-chr1-58774115-4	chr1	58774033	58774233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21241.0	NM_009812	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	35.0	26.0	50.0	844.5	51.0	17.0	26.0	36.0
Merged-chr5-140737408-3	chr5	140737296	140737496	+	962.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 2 of 7)	intron (NM_173405, intron 2 of 7)	13269.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	7.5	18.0	13.0	279.5	15.0	1.0	7.0	11.5
Merged-chr12-75415175-4	chr12	75415075	75415275	+	943.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175644, intron 2 of 2)	intron (NM_175644, intron 2 of 2)	1606.0	NM_175644	217674.0	Mm.252250	NM_175644	ENSMUSG00000048982	Gphb5	OGH|Zlut1	glycoprotein hormone beta 5	protein-coding	13.5	21.0	21.0	225.5	27.0	15.0	22.5	22.0
Merged-chr11-109269863-3	chr11	109269797	109269997	+	872.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165934, intron 7 of 16)	intron (NM_001165934, intron 7 of 16)	28284.0	NM_001165934	19739.0	Mm.38548	NM_011268	ENSMUSG00000020599	Rgs9	RGS9-1|Rgs9-2	regulator of G-protein signaling 9	protein-coding	0.5	5.0	3.5	21.0	25.0	5.5	7.5	12.5
Merged-chr17-83350809-4	chr17	83350705	83350905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286567)	promoter-TSS (NM_001286567)	-126.0	NM_001114361	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	122.5	261.5	78.0	1886.5	402.0	113.5	176.0	119.5
Merged-chr4-32551527-2	chr4	32551427	32551627	+	609.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 2 of 4)	B3|SINE|B2	20135.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	8.5	15.5	5.5	46.5	15.5	4.5	8.0	8.0
Merged-chr11-20553161-3	chr11	20553010	20553210	+	826.622253	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021372, intron 1 of 1)	intron (NM_021372, intron 1 of 1)	9857.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	4.0	1.0	4.5	33.5	15.0	5.0	6.5	8.5
Merged-chr16-84702926-4	chr16	84702830	84703030	+	924.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10093.0	NR_132106	100653389.0	Mm.261808	NR_132106	ENSMUSG00000097418	Mir155hg	Bic|Gm26667	Mir155 host gene (non-protein coding)	ncRNA	15.0	25.0	17.5	149.5	66.5	18.5	25.5	12.5
Merged-chr3-96264008-3	chr3	96263928	96264128	+	860.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033596)	promoter-TSS (NM_033596)	-711.0	NM_033596	97122.0	Mm.227295	NM_033596	ENSMUSG00000091405	Hist2h4	H4|X04652	histone cluster 2, H4	protein-coding	3.0	6.5	3.0	23.0	6.0	5.5	6.5	12.0
Merged-chr8-109691857-4	chr8	109691751	109691951	+	885.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155034, intron 1 of 10)	RSINE1|SINE|B4	1443.0	NR_155034	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	8.0	15.5	12.5	73.0	78.5	11.5	19.5	8.5
Merged-chr12-17783040-1	chr12	17782940	17783140	+	599.0	f0_balb.idr	intron (NM_001361645, intron 2 of 4)	intron (NM_001361645, intron 2 of 4)	92231.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	8.0	5.0	5.5	119.5	18.5	3.5	8.5	11.0
Merged-chr10-128338644-4	chr10	128338541	128338741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026444, intron 1 of 10)	intron (NM_026444, intron 1 of 10)	914.0	NM_026444	12974.0	Mm.58836	NM_026444	ENSMUSG00000005683	Cs	2610511A05Rik|9030605P22Rik|Ahl4|BB234005|Cis	citrate synthase	protein-coding	19.0	31.0	5.5	184.5	50.0	19.5	7.0	8.0
Merged-chr2-38296110-4	chr2	38296017	38296217	+	783.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-8733.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	15.5	29.5	12.0	114.5	17.0	7.5	12.5	16.5
Merged-chr10-57722571-4	chr10	57722478	57722678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	intron (NM_008863, intron 4 of 5)	-62345.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	53.0	66.5	48.0	918.5	149.0	40.5	64.5	61.5
Merged-chr7-25776925-4	chr7	25776847	25777047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009465, intron 6 of 19)	intron (NM_009465, intron 6 of 19)	11786.0	NM_001190974	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	154.0	199.0	168.5	2758.0	321.5	126.5	161.5	173.0
Merged-chr13-30696092-4	chr13	30696000	30696200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 3 of 7)	intron (NM_134068, intron 3 of 7)	36041.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	72.0	54.0	56.0	980.0	172.0	62.0	52.0	52.5
Merged-chr16-4727077-2	chr16	4726977	4727177	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136066, intron 1 of 5)	intron (NM_001136066, intron 1 of 5)	716.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	8.5	8.5	7.5	142.0	11.5	14.0	9.5	22.0
Merged-chr17-26502483-2	chr17	26502383	26502583	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5989.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	25.0	31.0	14.5	105.5	37.0	17.5	4.5	5.5
Merged-chr15-5416223-4	chr15	5416116	5416316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80102.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	86.5	96.5	58.5	916.5	185.5	57.0	77.0	82.0
Merged-chr10-22157598-3	chr10	22157503	22157703	+	638.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359809)	promoter-TSS (NM_001359809)	-966.0	NM_001359809	379043.0	Mm.439724	NM_198193	ENSMUSG00000053219	Raet1e	-	retinoic acid early transcript 1E	protein-coding	12.0	10.5	7.5	161.5	2.0	2.0	4.0	0.0
Merged-chr4-107879751-4	chr4	107879666	107879866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282737)	promoter-TSS (NM_001282737)	11.0	NM_001282737	17149.0	Mm.808	NM_001282737	ENSMUSG00000028609	Magoh	Mago-m|Mos2	mago homolog, exon junction complex core component	protein-coding	86.5	121.0	49.5	1075.0	282.5	95.0	83.0	82.0
Merged-chr1-182539549-4	chr1	182539443	182539643	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21933.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	17.5	36.0	26.0	229.5	69.5	27.5	29.5	22.0
Merged-chr3-139049062-4	chr3	139048994	139049194	+	840.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 2 of 13)	intron (NM_001356388, intron 2 of 13)	26107.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	11.5	14.0	15.0	248.5	30.0	6.5	9.0	7.0
Merged-chr10-26779569-3	chr10	26779452	26779652	+	655.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	7040.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	6.0	7.5	5.0	200.0	18.0	5.0	4.0	10.5
Merged-chr6-48642969-3	chr6	48642865	48643065	+	671.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4269.0	NM_001077410	243374.0	Mm.86514	NM_212486	ENSMUSG00000064262	Gimap8	Gm457|IAN9|IMAP8	GTPase, IMAP family member 8	protein-coding	8.0	5.0	1.5	149.5	24.0	7.0	5.5	4.5
Merged-chr11-76856752-3	chr11	76856653	76856853	+	849.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9745.0	NM_007754	12874.0	Mm.276736	NM_007754	ENSMUSG00000020841	Cpd	AA960140|AW322530|D830034L15Rik	carboxypeptidase D	protein-coding	13.0	12.0	5.5	86.5	12.5	8.0	9.5	7.5
Merged-chr4-53082088-4	chr4	53081994	53082194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013454, exon 16 of 50)	exon (NM_013454, exon 16 of 50)	70214.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	79.5	92.5	90.5	1389.0	163.0	56.5	116.5	74.0
Merged-chr18-14681909-1	chr18	14681809	14682009	+	1000.0	f1_c57bl6.idr	intron (NM_009280, intron 1 of 10)	intron (NM_009280, intron 1 of 10)	1005.0	NM_001161369	268996.0	Mm.31761	NM_009280	ENSMUSG00000037013	Ss18	D130059H17|Ssxt|Syt	SS18, nBAF chromatin remodeling complex subunit	protein-coding	6.0	5.0	13.0	87.0	9.5	4.0	7.0	8.5
Merged-chr13-97546326-4	chr13	97546232	97546432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13668.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	71.5	95.5	79.5	1409.5	146.5	74.0	83.5	83.0
Merged-chr6-56756360-4	chr6	56756228	56756428	+	868.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030235, intron 15 of 15)	intron (NM_030235, intron 15 of 15)	40885.0	NM_001362211	210973.0	Mm.57295	NM_145958	ENSMUSG00000059486	Kbtbd2	BC022962|Bklhd1|mKIAA1489	kelch repeat and BTB (POZ) domain containing 2	protein-coding	11.5	16.0	15.0	403.0	19.0	8.0	12.0	22.0
Merged-chr6-6186647-2	chr6	6186547	6186747	+	575.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001177572, intron 2 of 17)	B1_Mus1|SINE|Alu	30526.0	NM_015829	50799.0	Mm.24513	NM_015829	ENSMUSG00000015112	Slc25a13	AI785475|Ctrn	solute carrier family 25 (mitochondrial carrier, adenine nucleotide translocator), member 13	protein-coding	7.0	10.0	4.5	55.0	8.0	1.5	4.5	11.5
Merged-chr12-80924405-4	chr12	80924306	80924506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033786)	promoter-TSS (NR_033786)	41.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	36.0	68.5	61.5	914.0	122.5	36.0	68.0	47.5
Merged-chr15-78305694-4	chr15	78305604	78305804	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007781)	promoter-TSS (NM_007781)	17.0	NM_007781	12984.0	Mm.1940	NM_007781	ENSMUSG00000071714	Csf2rb2	AIC2A|BetaIl3|Bil3|Csfgmrb|Il3r|Il3rb|Il3rb2	colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage)	protein-coding	20.0	28.0	25.0	362.5	32.5	22.5	22.5	21.0
Merged-chr6-145139998-4	chr6	145139863	145140063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008511, intron 3 of 18)	intron (NM_008511, intron 3 of 18)	-5512.0	NM_001361633	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	53.5	52.0	50.5	852.0	112.5	31.5	33.5	49.0
Merged-chr8-120828466-3	chr8	120828365	120828565	+	809.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89826.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	12.0	10.5	1.0	65.5	25.0	6.5	8.5	6.5
Merged-chr4-117126796-2	chr4	117126733	117126933	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175030)	promoter-TSS (NM_175030)	20.0	NM_175030	242646.0	Mm.358914	NM_175030	ENSMUSG00000047671	Tctex1d4	4833401D15Rik	Tctex1 domain containing 4	protein-coding	10.0	10.0	4.5	36.0	14.5	4.0	4.0	8.0
Merged-chr18-82422249-4	chr18	82422153	82422353	+	958.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15476.0	NM_008082	14427.0	Mm.6219	NM_008082	ENSMUSG00000024553	Galr1	Galnr1	galanin receptor 1	protein-coding	7.0	22.0	9.5	260.0	47.5	11.0	28.5	20.5
Merged-chr8-83200368-3	chr8	83200238	83200438	+	827.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111304, intron 1 of 20)	intron (NM_001111304, intron 1 of 20)	34986.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	4.5	7.0	8.0	93.5	8.0	4.0	5.0	3.5
Merged-chr2-126500724-4	chr2	126500617	126500817	+	870.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359975)	promoter-TSS (NM_001359975)	-870.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	6.5	12.5	8.5	134.0	24.0	12.5	12.5	14.5
Merged-chr6-89421720-4	chr6	89421628	89421828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	intron (NM_001167736, intron 4 of 6)	-59115.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	85.5	194.5	93.5	1529.0	275.0	93.0	130.0	106.0
Merged-chr3-104637790-3	chr3	104637702	104637902	+	948.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009196)	promoter-TSS (NM_009196)	-862.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	12.0	11.0	6.5	237.5	11.0	2.0	5.5	9.0
Merged-chr1-58857097-4	chr1	58857030	58857230	+	869.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54628.0	NM_001277926	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	13.5	10.5	14.0	42.5	38.0	9.5	10.5	11.0
Merged-chr2-11218318-4	chr2	11218216	11218416	+	644.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	45934.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	7.5	10.0	8.5	97.5	23.5	5.5	9.5	8.5
Merged-chr11-26331411-3	chr11	26331300	26331500	+	743.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55684.0	NM_025923	67030.0	Mm.18875	NM_025923	ENSMUSG00000004018	Fancl	2010322C19Rik|AW554273|B230118H11Rik|Phf9|Pog|gcd	Fanconi anemia, complementation group L	protein-coding	17.0	6.5	9.0	205.0	5.5	4.5	13.5	3.0
Merged-chr13-95679308-3	chr13	95679155	95679355	+	916.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 17 of 35)	intron (NM_027711, intron 17 of 35)	-17665.0	NM_010170	14064.0	Mm.440952	NM_010170	ENSMUSG00000021675	F2rl2	F730031A08|PAR3	coagulation factor II (thrombin) receptor-like 2	protein-coding	7.5	24.5	21.5	107.5	3.5	1.5	7.0	3.5
Merged-chr12-73692521-3	chr12	73692427	73692627	+	665.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 3 of 13)	intron (NM_008856, intron 3 of 13)	107731.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	12.5	10.0	4.0	45.0	24.0	12.0	8.0	11.0
Merged-chr13-101097044-4	chr13	101096941	101097141	+	910.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-135086.0	NR_046158	328324.0	Mm.402274	NR_046158	ENSMUSG00000114590	5930438M14Rik	5930438M14	RIKEN cDNA 5930438M14 gene	ncRNA	21.0	22.0	20.5	380.5	38.5	12.0	18.5	25.0
Merged-chr9-20898618-4	chr9	20898525	20898725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016876)	promoter-TSS (NM_016876)	-35.0	NM_016876	53356.0	Mm.427309	NM_016876	ENSMUSG00000070319	Eif3g	44kDa|D0Jmb4|Eif3s4|TU-189B2|eIF3-p44|p44	eukaryotic translation initiation factor 3, subunit G	protein-coding	51.0	54.0	19.5	470.5	99.0	35.5	59.0	49.0
Merged-chr10-77664291-3	chr10	77664175	77664375	+	955.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-22294.0	NM_001287074	252974.0	Mm.221237	NM_145855	ENSMUSG00000069581	Tspear	C330046G03Rik|ORF65|TSP-EAR|Tnep1	thrombospondin type laminin G domain and EAR repeats	protein-coding	16.0	13.0	13.5	186.5	6.0	4.5	6.5	5.5
Merged-chr12-101075188-5	chr12	101075064	101075264	+	879.76001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160214, intron 1 of 14)	intron (NM_001160214, intron 1 of 14)	-7287.0	NR_038048	319760.0	Mm.440198	NM_176997	ENSMUSG00000097121	D130020L05Rik	9430007L23Rik	RIKEN cDNA D130020L05 gene	ncRNA	1.0	10.5	4.5	31.5	15.5	8.5	6.5	10.5
Merged-chr1-91027126-4	chr1	91027031	91027231	+	992.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	ORR1D2|LTR|ERVL-MaLR	-26313.0	NM_001111311	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	21.0	62.0	13.5	345.5	87.0	24.5	35.5	44.0
Merged-chr5-136136104-4	chr5	136136006	136136206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347492)	promoter-TSS (NM_001347492)	-32.0	NM_027891	71735.0	Mm.425292	NM_027891	ENSMUSG00000029703	Lrwd1	1200011O22Rik|AU042569|AW548074|Orca	leucine-rich repeats and WD repeat domain containing 1	protein-coding	79.5	103.5	49.0	976.0	126.5	37.5	67.5	44.5
Merged-chr9-44655843-3	chr9	44655722	44655922	+	723.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-17411.0	NM_001277851	58866.0	Mm.45380	NM_021481	ENSMUSG00000032098	Treh	2210412M19Rik	trehalase (brush-border membrane glycoprotein)	protein-coding	3.5	9.5	2.0	125.5	16.0	10.5	4.5	6.5
Merged-chr17-47738555-5	chr17	47738550	47738750	+	865.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	719.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	11.5	10.0	11.5	92.0	23.5	5.5	8.0	11.0
Merged-chr15-58266620-4	chr15	58266499	58266699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51707.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	125.0	120.0	112.0	1705.0	218.5	67.0	116.5	89.0
Merged-chr19-28009985-3	chr19	28009907	28010107	+	663.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360357)	promoter-TSS (NM_001360357)	-234.0	NM_001360357	19726.0	Mm.313321	NM_011265	ENSMUSG00000040929	Rfx3	C230093O12Rik|MRFX3	regulatory factor X, 3 (influences HLA class II expression)	protein-coding	5.0	7.0	8.5	93.0	9.5	4.0	4.0	3.0
Merged-chr14-76899527-1	chr14	76899427	76899627	+	554.0	f0_balb.idr	Intergenic	Intergenic	137090.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	2.5	2.5	8.0	91.0	17.0	6.5	10.0	8.0
Merged-chr4-8647399-6	chr4	8647298	8647498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-43008.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	136.5	224.0	271.0	1888.0	312.5	156.0	134.5	143.5
Merged-chr19-9899598-4	chr19	9899497	9899697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016692)	promoter-TSS (NM_016692)	-64.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	197.0	273.0	194.5	2065.5	358.5	120.5	154.5	128.5
Merged-chr8-4531898-4	chr8	4531801	4532001	+	739.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38496.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	5.0	12.0	15.5	295.0	35.0	11.0	12.5	9.5
Merged-chr12-98820793-4	chr12	98820709	98820909	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081191, intron 28 of 43)	intron (NM_001081191, intron 28 of 43)	49787.0	NM_001160108	75553.0	Mm.25549	NM_029334	ENSMUSG00000021012	Zc3h14	1010001P15Rik|1700016A15Rik|2700069A02Rik|AU014748	zinc finger CCCH type containing 14	protein-coding	25.0	33.0	28.5	491.0	81.5	17.5	42.0	31.5
Merged-chr1-131690670-4	chr1	131690567	131690767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145509, intron 1 of 5)	intron (NM_145509, intron 1 of 5)	1972.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	59.5	70.0	72.0	990.0	90.5	59.0	79.0	65.0
Merged-chr1-75236940-4	chr1	75236840	75237040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159885, exon 1 of 9)	exon (NM_001159885, exon 1 of 9)	238.0	NM_001159885	56812.0	Mm.489660	NM_020266	ENSMUSG00000026203	Dnajb2	2700059H22Rik|Dnajb10|Hsj1|mDj8	DnaJ heat shock protein family (Hsp40) member B2	protein-coding	40.0	93.5	60.5	795.5	116.0	55.0	73.5	59.0
Merged-chr17-81679812-3	chr17	81679713	81679913	+	628.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	ORR1D2|LTR|ERVL-MaLR	58574.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	6.5	8.0	8.0	134.5	3.5	4.5	4.5	1.0
Merged-chr11-51584154-2	chr11	51584054	51584254	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028398)	promoter-TSS (NM_028398)	-603.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	12.0	22.5	26.0	111.0	38.0	22.5	20.0	23.5
Merged-chr19-28685604-3	chr19	28685479	28685679	+	878.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045330, intron 1 of 4)	intron (NR_045330, intron 1 of 4)	-5502.0	NM_175459	226075.0	Mm.223508	NM_175459	ENSMUSG00000052942	Glis3	4833409N03Rik|E330013K21Rik	GLIS family zinc finger 3	protein-coding	5.0	13.0	12.0	203.0	20.0	0.5	7.5	6.5
Merged-chr6-115480894-4	chr6	115480787	115480987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 7 of 7)	MIR|SINE|MIR	58821.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	61.0	108.5	75.0	809.0	154.0	62.5	69.5	53.5
Merged-chr6-72522545-4	chr6	72522456	72522656	+	991.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-21835.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	11.0	34.0	22.0	313.5	61.5	15.5	41.5	42.5
Merged-chr12-40478174-4	chr12	40478083	40478283	+	703.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	32130.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	9.5	10.0	5.0	104.5	27.5	6.0	5.5	18.5
Merged-chr7-27486923-4	chr7	27486828	27487028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018820)	promoter-TSS (NM_018820)	-25.0	NM_018820	55942.0	Mm.153684	NM_018820	ENSMUSG00000008384	Sertad1	1110032C13Rik|AV000455|AW456625|Sei-1|Sei1|TRIP-Br1	SERTA domain containing 1	protein-coding	236.0	349.5	219.0	2505.0	604.0	218.0	258.5	188.5
Merged-chr6-128891221-4	chr6	128891129	128891329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254946)	promoter-TSS (NM_001254946)	-105.0	NM_001254946	232406.0	Mm.30745	NM_001254946	ENSMUSG00000090164	BC035044	-	cDNA sequence BC035044	protein-coding	58.0	151.5	130.5	1188.5	160.5	63.5	88.0	64.5
Merged-chr4-32239125-1	chr4	32239025	32239225	+	1000.0	f0_c57.idr	Intergenic	CpG	-178310.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	15.0	18.5	35.0	302.5	34.0	17.5	21.0	26.5
Merged-chr7-44832305-4	chr7	44832209	44832409	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053074)	TTS (NM_053074)	-3979.0	NM_010215	14204.0	Mm.2565	NM_010215	ENSMUSG00000074141	Il4i1	Fig1|Fig1-ps|LAAO|LAO	interleukin 4 induced 1	protein-coding	27.0	46.5	35.5	403.0	85.5	15.0	17.5	20.0
Merged-chr3-152122820-3	chr3	152122710	152122910	+	961.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 3 of 5)	ORR1C1|LTR|ERVL-MaLR	43090.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	10.5	21.5	15.0	93.5	10.0	3.5	4.5	1.5
Merged-chr1-171453142-4	chr1	171453074	171453274	+	848.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172647, intron 1 of 9)	intron (NM_172647, intron 1 of 9)	15613.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	16.5	17.5	4.5	159.5	21.0	20.0	13.5	13.5
Merged-chr9-41059264-1	chr9	41059164	41059364	+	564.0	f0_balb.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	20242.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	4.5	4.5	7.5	59.5	3.0	4.0	2.5	5.0
Merged-chr4-66821976-1	chr4	66821876	66822076	+	662.0	f0_balb.idr	Intergenic	Intergenic	-5575.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	12.0	5.5	5.5	121.0	2.0	3.0	3.0	0.5
Merged-chr8-40852129-3	chr8	40852010	40852210	+	804.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1-int|LTR|ERVL-MaLR	-10257.0	NM_007514	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	1.0	0.0	4.0	7.5	42.0	10.5	15.5	7.0
Merged-chr19-12798626-4	chr19	12798524	12798724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134152)	promoter-TSS (NM_134152)	45.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	55.0	92.0	43.0	603.0	70.5	21.0	35.5	27.5
Merged-chr6-125353069-4	chr6	125352980	125353180	+	954.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	3357.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	13.0	12.5	24.5	409.0	40.5	9.0	20.5	15.5
Merged-chr14-21999751-4	chr14	21999612	21999812	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-10111.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	7.5	27.5	23.5	283.5	38.0	10.5	16.0	26.0
Merged-chr11-90638130-4	chr11	90638053	90638253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011505)	promoter-TSS (NM_011505)	-31.0	NM_199008	69802.0	Mm.151940	NM_199008	ENSMUSG00000020544	Cox11	2010004I09Rik	cytochrome c oxidase assembly protein 11	protein-coding	83.5	79.5	34.5	859.5	200.0	76.0	80.5	85.5
Merged-chr10-22166212-4	chr10	22166125	22166325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359809, intron 1 of 7)	intron (NM_001359809, intron 1 of 7)	-7272.0	NM_198193	379043.0	Mm.439724	NM_198193	ENSMUSG00000053219	Raet1e	-	retinoic acid early transcript 1E	protein-coding	40.0	62.0	44.0	326.5	110.5	56.0	43.0	39.5
Merged-chr11-97663419-8	chr11	97663247	97663447	+	913.2589109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139311)	promoter-TSS (NM_139311)	-65.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	17.5	25.0	15.0	77.5	46.5	20.5	14.0	9.5
Merged-chr15-81361032-8	chr15	81360907	81361107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011399)	promoter-TSS (NM_011399)	-242.0	NM_011399	20524.0	Mm.222536	NM_011399	ENSMUSG00000022404	Slc25a17	34kDa|47kDa|PMP34|Pmp47	solute carrier family 25 (mitochondrial carrier, peroxisomal membrane protein), member 17	protein-coding	50.5	73.0	50.5	587.5	95.5	50.5	44.0	35.5
Merged-chr12-36041870-4	chr12	36041756	36041956	+	868.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	622.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	18.5	18.0	8.0	215.5	29.5	7.0	8.5	11.0
Merged-chr5-150892206-2	chr5	150892106	150892306	+	669.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34A1|LTR|ERV1	-60401.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	4.5	7.5	4.5	76.0	11.0	1.5	7.5	7.5
Merged-chr9-20690697-4	chr9	20690599	20690799	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357639, intron 1 of 5)	L1_Mus1|LINE|L1	36304.0	NM_001357635	244723.0	Mm.293552	NM_173777	ENSMUSG00000032172	Olfm2	A030009A06Rik	olfactomedin 2	protein-coding	6.5	33.5	17.5	262.5	43.0	10.5	44.0	30.5
Merged-chr11-18957993-4	chr11	18957894	18958094	+	764.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010789, intron 7 of 11)	intron (NM_010789, intron 7 of 11)	60975.0	NM_001193271	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	9.0	13.5	7.5	204.0	29.5	5.0	11.5	10.0
Merged-chr4-32153614-2	chr4	32153520	32153720	+	672.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	189513.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	5.5	10.0	2.0	78.5	9.5	7.0	8.5	6.5
Merged-chr17-87293326-4	chr17	87293214	87293414	+	913.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	intron (NM_028639, intron 3 of 19)	10428.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	18.5	19.0	9.5	202.5	31.0	14.0	13.5	9.0
Merged-chr1-144005836-4	chr1	144005715	144005915	+	979.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1666.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	22.5	18.0	26.0	374.5	64.5	22.0	26.0	30.0
Merged-chr7-110260111-4	chr7	110260016	110260216	+	772.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009302, intron 3 of 11)	intron (NM_009302, intron 3 of 11)	38413.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	15.5	10.5	13.5	195.5	23.5	7.0	5.0	16.5
Merged-chr13-113844074-4	chr13	113843980	113844180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	49572.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	35.0	48.0	40.5	870.5	107.0	30.5	80.0	58.0
Merged-chr11-68521568-4	chr11	68521472	68521672	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004435, intron 2 of 19)	intron (NM_001004435, intron 2 of 19)	18553.0	NR_126154	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	36.0	43.5	27.0	375.0	55.0	23.0	14.0	24.0
Merged-chr10-68842484-4	chr10	68842292	68842492	+	883.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	118646.0	NM_177794	327766.0	Mm.2479	NM_177794	ENSMUSG00000060044	Tmem26	3230401A06|AI195372	transmembrane protein 26	protein-coding	4.5	6.5	6.5	92.5	9.0	4.0	13.0	6.5
Merged-chr10-19580940-3	chr10	19580827	19581027	+	650.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11022.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	13.0	11.0	1.5	59.0	13.5	9.0	4.5	5.0
Merged-chr8-10794794-4	chr8	10794688	10794888	+	870.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87666.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	18.0	18.0	7.5	325.5	23.0	1.0	6.0	14.0
Merged-chr5-144040817-2	chr5	144040717	144040917	+	861.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_033039, intron 1 of 4)	intron (NM_033039, intron 1 of 4)	9792.0	NM_033039	18261.0	Mm.270533	NM_033039	ENSMUSG00000029618	Ocm	-	oncomodulin	protein-coding	2.0	6.5	6.5	45.5	14.5	6.5	10.0	4.5
Merged-chr9-57521139-4	chr9	57521001	57521201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007747)	promoter-TSS (NM_007747)	-131.0	NM_007747	12858.0	Mm.273403	NM_007747	ENSMUSG00000000088	Cox5a	AA959768|CcOX	cytochrome c oxidase subunit Va	protein-coding	59.5	103.0	49.0	649.5	215.5	89.0	46.0	86.0
Merged-chr3-58691447-4	chr3	58691367	58691567	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009174, exon 1 of 2)	exon (NM_009174, exon 1 of 2)	921.0	NM_009174	20439.0	Mm.2847	NM_009174	ENSMUSG00000036432	Siah2	AA415433|Sinh2	siah E3 ubiquitin protein ligase 2	protein-coding	10.5	23.0	28.0	311.5	30.0	14.0	21.5	30.0
Merged-chr1-120072273-4	chr1	120072198	120072398	+	926.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019432, intron 1 of 1)	C-rich|Low_complexity|Low_complexity	1482.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	20.0	19.5	7.0	205.5	36.5	16.5	7.5	10.0
Merged-chr1-156066772-2	chr1	156066656	156066856	+	922.900024	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001358627, exon 6 of 6)	3' UTR (NM_001358627, exon 6 of 6)	25895.0	NM_022329	240832.0	Mm.253335	NM_022329	ENSMUSG00000050565	Tor1aip2	1110020D10Rik|15kDa|A130072J07|AA103493|AW060462|AW610675|C77739|Ifrg15|Lull1	torsin A interacting protein 2	protein-coding	2.0	3.5	3.0	35.5	17.0	9.0	7.0	8.0
Merged-chr3-37886969-2	chr3	37886869	37887069	+	813.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11844.0	NR_040559	626410.0	Mm.389417	NR_040559	ENSMUSG00000106461	Gm20755	-	predicted gene, 20755	ncRNA	3.5	9.5	2.5	53.0	16.0	5.5	5.0	6.5
Merged-chr7-100501845-2	chr7	100501780	100501980	+	993.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	8522.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	6.5	8.5	6.5	35.5	5.5	1.0	2.5	11.5
Merged-chr11-60538802-5	chr11	60538629	60538829	+	998.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172943, exon 1 of 4)	exon (NM_172943, exon 1 of 4)	1046.0	NM_172943	268420.0	Mm.262056	NM_172943	ENSMUSG00000042650	Alkbh5	AW050020|AW215868|Abh5|E130207K11|Ofoxd	alkB homolog 5, RNA demethylase	protein-coding	12.0	26.5	13.0	169.5	72.5	18.0	18.5	32.5
Merged-chr2-14184556-3	chr2	14184461	14184661	+	875.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 1 of 3)	intron (NM_001081310, intron 1 of 3)	10037.0	NM_001081310	625286.0	Mm.158781	NM_001081310	ENSMUSG00000061531	Tmem236	2010003H20Rik|Fam23a|Gm613	transmembrane protein 236	protein-coding	7.0	9.0	6.0	168.0	23.0	9.0	6.5	5.0
Merged-chr5-142909297-4	chr5	142909210	142909410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2556.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	48.0	89.0	43.5	639.5	149.5	61.5	81.5	71.5
Merged-chr5-150259355-4	chr5	150259274	150259474	+	776.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172887)	promoter-TSS (NM_172887)	-556.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	4.5	10.5	7.5	93.5	11.5	15.5	18.0	12.5
Merged-chr1-177131688-4	chr1	177131568	177131768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	intron (NM_011785, intron 1 of 12)	117099.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	46.5	49.0	38.0	691.0	100.5	35.5	35.0	35.5
Merged-chr8-70776778-4	chr8	70776680	70776880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008841)	promoter-TSS (NM_008841)	-68.0	NM_008841	18709.0	Mm.12945	NM_008841	ENSMUSG00000031834	Pik3r2	p85beta	phosphoinositide-3-kinase regulatory subunit 2	protein-coding	176.0	246.5	123.5	1304.0	416.0	190.0	111.5	173.5
Merged-chr14-55147018-4	chr14	55146899	55147099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30064.0	NM_177049	319984.0	Mm.19047	NM_177049	ENSMUSG00000022208	Jph4	9330157P13Rik|JP-4|JPHL1	junctophilin 4	protein-coding	130.5	197.0	156.5	2273.5	399.0	121.0	168.0	166.5
Merged-chr13-49321636-3	chr13	49321531	49321731	+	877.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12423.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	13.0	13.5	5.0	126.5	14.0	9.0	4.5	11.5
Merged-chr17-26465195-4	chr17	26465086	26465286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43286.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	59.0	57.5	58.5	1167.5	201.5	66.5	134.5	113.0
Merged-chr10-59969966-4	chr10	59969922	59970122	+	972.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18252.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	14.5	19.5	22.5	110.5	11.5	13.0	11.0	15.5
Merged-chr16-32795365-4	chr16	32795262	32795462	+	830.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145874, intron 1 of 3)	intron (NM_001145874, intron 1 of 3)	2073.0	NM_146071	224116.0	Mm.153301	NM_146071	ENSMUSG00000035638	Muc20	BC026367	mucin 20	protein-coding	7.0	11.5	5.5	129.5	29.0	10.0	6.0	6.0
Merged-chr13-113548139-4	chr13	113548028	113548228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45284.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	118.5	243.5	152.0	1083.0	350.5	139.0	86.5	112.0
Merged-chr6-122635558-4	chr6	122635489	122635689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9165.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	65.5	97.0	55.0	1004.5	174.5	68.5	96.5	104.0
Merged-chr3-87526437-4	chr3	87526350	87526550	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286844, intron 1 of 4)	intron (NM_001286844, intron 1 of 4)	872.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	20.5	26.5	22.5	299.0	49.5	9.5	7.0	18.5
Merged-chr12-8942048-6	chr12	8941950	8942150	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5879.0	NM_010770	17182.0	Mm.42226	NM_010770	ENSMUSG00000020583	Matn3	AV009181	matrilin 3	protein-coding	7.5	6.0	10.0	180.5	25.0	6.0	15.0	8.5
Merged-chr10-80494800-2	chr10	80494700	80494900	+	736.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139226)	promoter-TSS (NM_139226)	-106.0	NM_139226	246086.0	Mm.250572	NM_139226	ENSMUSG00000045518	Onecut3	OC-3|Oc3	one cut domain, family member 3	protein-coding	3.5	7.5	3.5	78.5	11.0	5.0	6.0	10.0
Merged-chr7-137404874-2	chr7	137404774	137404974	+	680.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029886, intron 1 of 3)	RMER5|LTR|ERV1	5882.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	5.0	2.0	0.5	43.5	9.5	7.5	7.0	6.5
Merged-chr1-58720223-4	chr1	58720113	58720313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	6927.0	NM_001355056	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	69.0	141.0	73.5	864.5	155.5	69.0	55.0	51.5
Merged-chr17-71207414-4	chr17	71207285	71207485	+	849.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164885, intron 1 of 19)	PB1D10|SINE|Alu	2731.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	3.0	10.0	3.0	115.0	24.0	11.0	17.5	15.0
Merged-chr16-43364317-4	chr16	43364229	43364429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	55867.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	48.5	41.0	29.0	686.0	82.5	37.0	44.0	27.5
Merged-chr5-145185371-4	chr5	145185337	145185537	+	693.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020582, intron 2 of 3)	RLTR11B|LTR|ERVK	6155.0	NM_020582	57423.0	Mm.133551	NM_020582	ENSMUSG00000038690	Atp5j2	1110019H14Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F2	protein-coding	2.0	2.0	1.0	80.5	31.0	12.5	7.0	22.5
Merged-chr7-84151764-2	chr7	84151664	84151864	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_133722, exon 1 of 3)	exon (NM_133722, exon 1 of 3)	129.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	12.5	6.5	22.0	124.5	24.5	6.5	13.0	29.0
Merged-chr7-139212553-4	chr7	139212452	139212652	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027164)	promoter-TSS (NM_027164)	-436.0	NM_027164	76612.0	Mm.17757	NM_027164	ENSMUSG00000015980	Lrrc27	1700071K18Rik|2310044E02Rik	leucine rich repeat containing 27	protein-coding	25.5	50.5	30.0	630.5	64.5	16.0	21.5	22.0
Merged-chr13-92484023-4	chr13	92483944	92484144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163627)	promoter-TSS (NM_001163627)	-13.0	NM_001163627	73942.0	Mm.85935	NM_001163627	ENSMUSG00000034334	Fam151b	4930405M20Rik	family with sequence similarity 151, member B	protein-coding	80.5	111.0	50.0	1128.0	201.5	75.5	65.0	66.0
Merged-chr16-11253532-4	chr16	11253443	11253643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_035466)	TTS (NR_035466)	782.0	NM_001130008	14852.0	Mm.325827	NM_146066	ENSMUSG00000062203	Gspt1	AI314175|AI326449|AV307676|C79774|G1st|Gst-1	G1 to S phase transition 1	protein-coding	24.5	28.0	44.5	330.0	87.5	26.5	31.0	41.0
Merged-chr7-27397772-4	chr7	27397667	27397867	+	889.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032610, intron 18 of 35)	intron (NM_032610, intron 18 of 35)	-1214.0	NM_001199236	80297.0	Mm.459123	NM_032610	ENSMUSG00000011751	Sptbn4	1700022P15Rik|5830426A08Rik|ROSA62|SpbIV|Spnb4|dyn|lnd|nmf261|nmf379|qv	spectrin beta, non-erythrocytic 4	protein-coding	14.5	28.5	13.0	158.0	39.0	16.5	18.0	18.0
Merged-chr11-114826871-4	chr11	114826762	114826962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24670.0	NM_001110337	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	23.0	50.0	24.0	514.5	73.5	26.5	41.0	35.5
Merged-chr16-21666683-3	chr16	21666587	21666787	+	948.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	intron (NM_001001881, intron 1 of 1)	27978.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	7.5	12.0	14.5	233.0	6.5	3.0	4.5	3.0
Merged-chr7-64277123-3	chr7	64277027	64277227	+	891.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G|LTR|ERVL-MaLR	-10543.0	NM_172742	233315.0	Mm.214959	NM_172742	ENSMUSG00000030522	Mtmr10	BB128963|C79734	myotubularin related protein 10	protein-coding	7.0	4.5	25.5	464.0	9.5	5.0	3.0	1.5
Merged-chr16-35901949-4	chr16	35901860	35902060	+	943.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-30578.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	22.5	18.5	19.5	530.0	85.0	12.5	19.0	25.0
Merged-chr1-186508582-3	chr1	186508477	186508677	+	814.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50104.0	NR_131124	320449.0	Mm.404477	NR_131124	ENSMUSG00000103690	A730004F24Rik	-	RIKEN cDNA A730004F24 gene	ncRNA	9.0	10.5	25.0	241.0	14.0	7.0	8.5	10.5
Merged-chr12-3960046-4	chr12	3959955	3960155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008895, exon 3 of 3)	exon (NM_008895, exon 3 of 3)	5110.0	NM_001278583	18976.0	Mm.277996	NM_008895	ENSMUSG00000020660	Pomc	ACTH|BE|Beta-LPH|Clip|Gamma-LPH|Npp|Pomc-1|Pomc1|alpha-MSH|alphaMSH|beta-MSH|gamma-MSH	pro-opiomelanocortin-alpha	protein-coding	36.0	74.0	33.0	526.0	74.0	32.0	39.0	39.0
Merged-chr1-176224038-4	chr1	176223943	176224143	+	971.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357846, intron 1 of 8)	intron (NM_001357846, intron 1 of 8)	-10101.0	NM_001195816	319455.0	Mm.338001	NM_176916	ENSMUSG00000055214	Pld5	B230365F16Rik	phospholipase D family, member 5	protein-coding	17.5	34.0	13.0	667.0	57.5	26.5	17.0	22.5
Merged-chr19-6128166-4	chr19	6128025	6128225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026912)	promoter-TSS (NM_026912)	90.0	NM_026912	69024.0	Mm.329629	NM_026912	ENSMUSG00000024787	Snx15	1500032B08Rik|E130013C21Rik	sorting nexin 15	protein-coding	56.5	110.0	78.5	544.0	153.0	63.0	46.0	59.0
Merged-chr3-94425943-3	chr3	94425848	94426048	+	652.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357713, exon 6 of 6)	exon (NM_001357713, exon 6 of 6)	10703.0	NM_016901	53814.0	Mm.440422	NM_016901	ENSMUSG00000028141	Oaz3	AZ3|Az-3|Oaz-t	ornithine decarboxylase antizyme 3	protein-coding	6.5	10.0	7.0	181.5	6.5	1.5	0.0	0.5
Merged-chr1-134725457-2	chr1	134725357	134725557	+	606.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355726, intron 1 of 8)	intron (NM_001355726, intron 1 of 8)	16157.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	6.0	5.5	8.0	48.5	8.5	4.5	8.5	3.0
Merged-chr18-38930588-4	chr18	38930486	38930686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 3 of 4)	intron (NM_001033789, intron 3 of 4)	-11887.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	39.5	46.5	28.5	648.0	61.5	33.5	50.5	28.5
Merged-chr5-130075090-4	chr5	130074943	130075143	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013837, intron 1 of 5)	intron (NM_013837, intron 1 of 5)	1717.0	NM_013837	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	25.0	35.0	14.0	353.0	43.0	19.0	18.5	31.5
Merged-chr13-23833235-2	chr13	23833135	23833335	+	700.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6199.0	NM_001164743	105355.0	Mm.27038	NM_134069	ENSMUSG00000036083	Slc17a3	AW261723|Npt4	solute carrier family 17 (sodium phosphate), member 3	protein-coding	8.0	6.5	3.0	50.0	12.0	7.5	4.5	4.5
Merged-chr3-139074091-3	chr3	139074002	139074202	+	842.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 1 of 13)	intron (NM_001356388, intron 1 of 13)	1099.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	6.0	4.0	4.0	80.5	16.5	5.5	7.0	17.0
Merged-chr8-75086255-4	chr8	75086138	75086338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7380.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	158.0	314.0	236.5	2517.5	320.5	148.5	141.0	97.0
Merged-chr11-99043154-4	chr11	99043048	99043248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010517, intron 1 of 3)	intron (NM_010517, intron 1 of 3)	1904.0	NM_010517	16010.0	Mm.233799	NM_010517	ENSMUSG00000017493	Igfbp4	AI875747|Deb2|IBP-4|IGFBP-4	insulin-like growth factor binding protein 4	protein-coding	18.0	24.5	21.5	377.0	54.5	13.0	12.0	28.0
Merged-chr13-23531045-4	chr13	23530932	23531132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153173)	promoter-TSS (NM_153173)	-12.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	155.0	206.5	94.0	1196.5	316.5	147.0	132.0	134.5
Merged-chr3-121494225-4	chr3	121494126	121494326	+	953.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145394, intron 10 of 14)	intron (NM_145394, intron 10 of 14)	38118.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	14.5	22.5	15.5	313.5	54.0	9.5	13.5	13.0
Merged-chr4-135883419-3	chr4	135883332	135883532	+	884.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9586.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	9.0	8.5	11.0	95.5	26.5	8.0	8.5	13.5
Merged-chr5-85916050-2	chr5	85915950	85916150	+	638.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	149533.0	NM_001345902	12617.0	Mm.4649	NM_007683	ENSMUSG00000029253	Cenpc1	CENP-C|Cenpc	centromere protein C1	protein-coding	4.5	6.0	4.5	26.0	5.5	2.0	2.0	6.5
Merged-chr7-127873210-4	chr7	127873102	127873302	+	856.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362192, intron 2 of 4)	intron (NM_001362192, intron 2 of 4)	2440.0	NM_001362192	244219.0	Mm.207872	NM_146259	ENSMUSG00000049728	Zfp668	BC030314|E130018B19Rik|Znf668	zinc finger protein 668	protein-coding	13.0	17.0	10.5	200.0	26.0	6.5	6.0	11.0
Merged-chr11-3427844-4	chr11	3427760	3427960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290473, intron 2 of 5)	intron (NM_001290473, intron 2 of 5)	-18622.0	NM_010718	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	25.5	54.5	36.0	594.5	79.5	22.5	33.5	32.0
Merged-chr2-29788252-4	chr2	29788145	29788345	+	923.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290496)	promoter-TSS (NM_001290496)	-574.0	NM_001290495	227682.0	Mm.245739	NM_145520	ENSMUSG00000039826	Trub2	G430055L02Rik	TruB pseudouridine (psi) synthase family member 2	protein-coding	11.5	23.5	8.0	182.0	56.0	17.5	15.5	15.5
Merged-chr11-62574418-3	chr11	62574332	62574532	+	887.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011706)	promoter-TSS (NM_011706)	-54.0	NM_011706	22368.0	Mm.288064	NM_011706	ENSMUSG00000018507	Trpv2	GRC|OTRPC2|VRL-1|Vrl1	transient receptor potential cation channel, subfamily V, member 2	protein-coding	9.0	6.5	14.5	65.0	13.0	4.5	9.5	12.5
Merged-chr17-46342493-4	chr17	46342389	46342589	+	840.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-14466.0	NM_170680	224814.0	Mm.76543	NM_145140	ENSMUSG00000032842	Abcc10	Mrp7|mFLJ00002	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	protein-coding	8.5	11.5	17.0	195.5	20.5	10.0	23.5	11.0
Merged-chr12-8320210-4	chr12	8320082	8320282	+	888.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021429, intron 2 of 6)	intron (NM_021429, intron 2 of 6)	6749.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	14.0	7.5	6.5	142.5	25.5	8.5	10.5	5.0
Merged-chr15-33265869-3	chr15	33265762	33265962	+	912.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176073, intron 3 of 7)	L2c|LINE|L2	140077.0	NR_033608	73486.0	Mm.483393	NM_028551	ENSMUSG00000058101	1700084J12Rik	-	ribosomal protein L7-like 1 pseudogene	pseudo	8.5	6.0	2.0	172.5	27.5	6.5	17.0	6.5
Merged-chr13-97573769-4	chr13	97573663	97573863	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046157, intron 2 of 2)	ORR1G|LTR|ERVL-MaLR	13763.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	14.0	19.0	21.5	194.5	33.5	15.0	10.0	12.0
Merged-chr8-56301968-4	chr8	56301865	56302065	+	709.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 3 of 6)	intron (NM_008278, intron 3 of 6)	7413.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	8.0	8.5	7.5	129.0	23.0	10.5	9.5	4.5
Merged-chr6-122308766-4	chr6	122308647	122308847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010749)	promoter-TSS (NM_010749)	27.0	NM_010749	17113.0	Mm.249225	NM_010749	ENSMUSG00000007458	M6pr	CD-MPR|Mpr46	mannose-6-phosphate receptor, cation dependent	protein-coding	382.0	563.5	396.0	5155.0	870.0	357.0	453.0	387.5
Merged-chr10-60257586-4	chr10	60257481	60257681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-20047.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	62.5	110.0	109.5	1564.5	297.0	77.0	117.5	127.0
Merged-chr16-57547444-4	chr16	57547308	57547508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-1834.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	56.5	43.0	120.0	1732.0	52.5	26.0	44.5	29.0
Merged-chr7-48750581-4	chr7	48750473	48750673	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38430.0	NM_028031	243983.0	Mm.279116	NM_028031	ENSMUSG00000030471	Zdhhc13	2410004E01Rik|C530010M18|HIP3RP|Hip14l|kojak|skc4	zinc finger, DHHC domain containing 13	protein-coding	16.5	31.5	35.0	433.0	72.5	14.0	34.5	25.5
Merged-chr3-37312071-2	chr3	37311971	37312171	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001255992)	promoter-TSS (NM_001255992)	375.0	NM_145825	207175.0	Mm.344708	NM_145825	ENSMUSG00000045031	Cetn4	-	centrin 4	protein-coding	14.0	25.0	17.0	241.0	30.5	11.5	24.5	10.0
Merged-chr8-84974422-4	chr8	84974325	84974525	+	976.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011563, exon 6 of 6)	3' UTR (NM_011563, exon 6 of 6)	4323.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	15.5	36.0	9.5	294.0	61.5	23.5	23.0	27.5
Merged-chr9-66907721-3	chr9	66907623	66907823	+	975.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	11982.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	9.0	24.5	30.0	233.5	21.0	8.0	7.5	10.5
Merged-chr17-26571106-4	chr17	26571016	26571216	+	964.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	intron (NM_026170, intron 1 of 9)	9604.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	12.5	14.5	11.5	215.0	40.5	11.5	16.5	20.5
Merged-chr19-60818851-4	chr19	60818759	60818959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026437, intron 3 of 8)	intron (NM_026437, intron 3 of 8)	7304.0	NM_001347464	67894.0	Mm.26148	NM_026437	ENSMUSG00000024993	Fam45a	1810055E12Rik	family with sequence similarity 45, member A	protein-coding	161.5	183.5	185.0	2364.0	290.0	121.0	100.0	108.0
Merged-chr13-104789887-4	chr13	104789786	104789986	+	822.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360094, intron 10 of 13)	intron (NM_001360094, intron 10 of 13)	27067.0	NM_026072	67285.0	Mm.235398	NM_026072	ENSMUSG00000021715	Cwc27	3110009E13Rik|NY-CO-10|Sdccag10	CWC27 spliceosome-associated protein	protein-coding	19.5	12.0	5.5	175.5	63.0	8.0	15.0	16.0
Merged-chr9-94278816-4	chr9	94278702	94278902	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	259279.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	12.5	22.0	20.0	329.5	36.5	6.5	19.5	22.0
Merged-chr2-72848637-4	chr2	72848531	72848731	+	904.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34914.0	NR_102349	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	15.0	19.5	32.0	489.5	42.0	13.0	18.0	12.5
Merged-chr12-85343747-2	chr12	85343647	85343847	+	961.900024	f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 4 of 4)	PB1D10|SINE|Alu	-4385.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	2.5	5.0	2.0	1.5	6.5	8.0	5.0	7.5
Merged-chr6-58606930-4	chr6	58606833	58607033	+	957.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011920, intron 1 of 15)	intron (NM_011920, intron 1 of 15)	10261.0	NM_011920	26357.0	Mm.333096	NM_011920	ENSMUSG00000029802	Abcg2	ABC15|ABCP|AI428558|BCRP|Bcrp1|MXR|MXR1	ATP binding cassette subfamily G member 2 (Junior blood group)	protein-coding	24.0	17.5	16.5	403.0	35.0	15.0	11.5	15.5
Merged-chr4-32768233-4	chr4	32768109	32768309	+	904.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081392, intron 96 of 101)	(TG)n|Simple_repeat|Simple_repeat	-32050.0	NM_175364	108755.0	Mm.1182	NM_175364	ENSMUSG00000045854	Lyrm2	2610208E05Rik	LYR motif containing 2	protein-coding	16.0	21.0	46.5	547.0	27.5	10.5	13.0	20.5
Merged-chr2-68381333-4	chr2	68381234	68381434	+	933.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 5 of 17)	intron (NM_016866, intron 5 of 17)	90647.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	15.5	12.5	24.0	339.5	38.5	5.5	13.0	20.0
Merged-chr6-88898747-4	chr6	88898649	88898849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008564)	promoter-TSS (NM_008564)	31.0	NM_008564	17216.0	Mm.16711	NM_008564	ENSMUSG00000002870	Mcm2	AA959861|AW476101|BM28|CDCL1|Mcmd2|mKIAA0030	minichromosome maintenance complex component 2	protein-coding	128.5	201.5	80.0	1469.5	316.5	107.5	134.5	119.5
Merged-chr16-24913157-3	chr16	24913065	24913265	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-146474.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	12.5	5.5	8.5	81.5	16.0	4.5	6.5	4.5
Merged-chr12-102356972-2	chr12	102356868	102357068	+	949.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_177620, intron 4 of 9)	intron (NM_177620, intron 4 of 9)	73327.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	1.0	5.0	1.0	5.5	60.5	7.0	18.0	22.5
Merged-chr11-61231552-4	chr11	61231450	61231650	+	876.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138545, intron 9 of 10)	intron (NR_138545, intron 9 of 10)	22808.0	NM_001331112	11670.0	Mm.4257	NM_007436	ENSMUSG00000019102	Aldh3a1	Ahd-4|Ahd4|Aldh|Aldh3	aldehyde dehydrogenase family 3, subfamily A1	protein-coding	3.5	20.0	8.0	149.5	28.0	6.5	5.0	26.0
Merged-chr11-59506323-4	chr11	59506227	59506427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_135273, exon 1 of 4)	non-coding (NR_135273, exon 1 of 4)	313.0	NM_001291014	268417.0	Mm.239793	NM_172941	ENSMUSG00000020472	Zkscan17	Nizp1|Zfp496|Znf496	zinc finger with KRAB and SCAN domains 17	protein-coding	28.5	32.5	33.5	486.5	63.5	35.5	26.5	24.5
Merged-chr19-7056740-4	chr19	7056591	7056791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134147)	promoter-TSS (NM_134147)	-77.0	NM_134147	107227.0	Mm.439977	NM_134147	ENSMUSG00000036278	Macrod1	AI604841|AW743046|D930010J01Rik|Lrp16	MACRO domain containing 1	protein-coding	33.5	43.5	27.0	361.5	92.0	21.5	41.0	35.0
Merged-chr6-3481901-4	chr6	3481797	3481997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178899, intron 3 of 9)	intron (NM_178899, intron 3 of 9)	12601.0	NM_178899	101202.0	Mm.206911	NM_178899	ENSMUSG00000044156	Hepacam2	AI987662	HEPACAM family member 2	protein-coding	44.5	49.5	40.0	818.5	96.0	26.5	54.5	54.5
Merged-chr6-128843788-4	chr6	128843662	128843862	+	999.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17447.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	26.0	29.5	21.5	271.5	54.5	24.0	14.5	17.5
Merged-chr5-135935028-4	chr5	135934935	135935135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018871)	promoter-TSS (NM_018871)	-394.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	103.5	134.5	80.5	1175.0	259.0	116.0	104.0	101.0
Merged-chr17-27042958-4	chr17	27042861	27043061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13702.0	NM_027544	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	50.0	48.0	29.5	569.0	86.5	24.5	43.0	41.0
Merged-chr19-5849996-4	chr19	5849904	5850104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026169)	TTS (NM_026169)	-4524.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	64.0	86.5	37.5	632.0	138.5	48.5	53.0	48.5
Merged-chr9-45906461-4	chr9	45906374	45906574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281934)	promoter-TSS (NM_001281934)	-95.0	NM_001281934	18554.0	Mm.3255	NM_008794	ENSMUSG00000035382	Pcsk7	AA959856|PC7|SPC7	proprotein convertase subtilisin/kexin type 7	protein-coding	42.0	80.0	43.5	515.5	161.5	56.0	67.5	37.0
Merged-chr7-24851088-3	chr7	24850999	24851199	+	889.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	18592.0	NM_182785	232973.0	Mm.189648	NM_182785	ENSMUSG00000062732	Lypd4	4933400F01Rik	Ly6/Plaur domain containing 4	protein-coding	13.0	8.5	10.0	118.5	20.0	21.5	9.0	9.5
Merged-chr11-68467744-1	chr11	68467644	68467844	+	899.0	f0_balb.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	-35275.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	15.0	16.5	3.5	47.5	16.5	8.0	5.0	12.0
Merged-chr9-57261627-4	chr9	57261514	57261714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028820, intron 1 of 2)	CpG	985.0	NM_028820	74211.0	Mm.428905	NM_028820	ENSMUSG00000032300	1700017B05Rik	AA682102|D9Ertd278e	RIKEN cDNA 1700017B05 gene	protein-coding	27.0	55.0	32.5	645.5	68.0	22.0	35.0	44.5
Merged-chr1-171389016-4	chr1	171388979	171389179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027893)	TTS (NM_027893)	119.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	158.0	238.0	139.5	1802.0	366.0	173.5	197.5	202.0
Merged-chr9-61967435-3	chr9	61967338	61967538	+	947.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 5 of 7)	intron (NM_028748, intron 5 of 7)	-20639.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	16.5	5.0	17.5	120.0	10.5	9.0	6.5	8.5
Merged-chr9-101037533-3	chr9	101037279	101037479	+	677.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2495.0	NM_025835	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	5.0	8.5	6.0	19.5	4.0	0.0	1.0	1.5
Merged-chr10-8122138-3	chr10	8122044	8122244	+	998.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-166021.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	18.5	23.0	29.0	351.0	24.5	7.5	9.5	7.0
Merged-chr1-34011509-2	chr1	34011391	34011591	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_133833)	promoter-TSS (NM_133833)	-334.0	NM_133833	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	31.5	24.0	30.5	397.5	41.5	20.0	17.0	36.5
Merged-chr8-69007227-4	chr8	69007137	69007337	+	853.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81499.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	13.5	3.5	12.5	196.0	24.0	6.5	19.0	18.0
Merged-chr8-8441195-3	chr8	8441108	8441308	+	818.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	219565.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	10.0	11.0	14.0	184.0	12.0	2.5	8.5	11.0
Merged-chr11-106788495-4	chr11	106788372	106788572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177088)	promoter-TSS (NM_177088)	22.0	NM_007840	13207.0	Mm.491096	NM_007840	ENSMUSG00000020719	Ddx5	2600009A06Rik|G17P1|HUMP68|Hlr1|p68	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	protein-coding	107.5	263.0	115.0	1070.0	411.0	192.5	125.0	106.0
Merged-chr11-54811431-4	chr11	54811344	54811544	+	991.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8475.0	NR_040284	432562.0	Mm.406948	NR_040284	ENSMUSG00000086789	Lyrm7os	Gm12228	LYR motif containing 7, opposite strand	ncRNA	20.5	75.5	17.5	211.5	57.0	20.5	35.5	24.5
Merged-chr11-46820082-4	chr11	46819991	46820191	+	978.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 5 of 8)	intron (NM_178759, intron 5 of 8)	9292.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	64.5	60.0	152.0	1526.5	123.5	26.5	55.5	12.5
Merged-chr11-106305983-4	chr11	106305888	106306088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4092.0	NM_008117	14599.0	Mm.343934	NM_008117	ENSMUSG00000020713	Gh	Gh1|Ghb1	growth hormone	protein-coding	29.0	40.5	26.5	384.5	80.0	31.5	27.5	29.0
Merged-chr9-103111785-1	chr9	103111685	103111885	+	1000.0	f0_c57.idr	promoter-TSS (NM_173781)	promoter-TSS (NM_173781)	-289.0	NM_173781	270192.0	Mm.490252	NM_173781	ENSMUSG00000032549	Rab6b	9630015C03|AI844641|C330006L04Rik|D9Bwg0185e	RAB6B, member RAS oncogene family	protein-coding	0.0	0.0	2.0	41.0	67.5	20.5	23.0	34.0
Merged-chr17-34555698-4	chr17	34555591	34555791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8604.0	NM_010929	18132.0	Mm.173813	NM_010929	ENSMUSG00000015468	Notch4	Int-3|Int3|N4	notch 4	protein-coding	25.5	28.0	20.0	334.5	84.0	28.0	36.0	43.0
Merged-chr14-14633326-4	chr14	14633236	14633436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69689.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	61.5	144.0	52.0	411.5	200.5	136.5	63.0	52.0
Merged-chr6-124829490-4	chr6	124829384	124829584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001326594)	promoter-TSS (NM_001326594)	0.0	NM_001326594	22225.0	Mm.3571	NM_013700	ENSMUSG00000038429	Usp5	AA407472|ISOT|ISOT-1|Ucht	ubiquitin specific peptidase 5 (isopeptidase T)	protein-coding	195.0	371.0	178.0	3105.5	597.5	270.0	323.0	275.0
Merged-chr12-85498039-4	chr12	85497939	85498139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24149.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	144.5	185.0	102.5	1523.0	272.0	99.5	136.0	86.0
Merged-chr2-166745985-4	chr2	166745882	166746082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32150.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	28.5	54.5	33.5	418.0	105.0	28.5	39.5	25.0
Merged-chr1-88290104-4	chr1	88290026	88290226	+	777.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-12547.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	12.5	10.0	6.0	89.0	24.5	3.5	14.5	8.5
Merged-chr10-24622757-4	chr10	24622656	24622856	+	949.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	27314.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	12.5	22.0	18.0	316.5	53.5	13.0	18.5	7.5
Merged-chr9-119103149-4	chr9	119103046	119103246	+	972.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177117, intron 1 of 36)	intron (NM_177117, intron 1 of 36)	668.0	NM_177117	320256.0	Mm.110648	NM_177117	ENSMUSG00000038060	Dlec1	D630005C06Rik	deleted in lung and esophageal cancer 1	protein-coding	14.5	20.5	22.0	425.0	39.0	15.0	39.5	27.5
Merged-chr2-150672169-4	chr2	150672070	150672270	+	895.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3930.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	16.5	24.5	26.0	488.5	29.5	6.5	14.5	13.5
Merged-chr18-57352531-4	chr18	57352456	57352656	+	951.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-2177.0	NM_028447	73137.0	Mm.29889	NM_028447	ENSMUSG00000024594	Prrc1	1190002C06Rik|2310058D16Rik|3110038B19Rik|9430085A19Rik	proline-rich coiled-coil 1	protein-coding	31.0	26.5	28.0	451.0	59.5	11.5	11.5	17.5
Merged-chr2-52763218-4	chr2	52763163	52763363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	-21114.0	NM_019667	56324.0	Mm.263639	NM_019667	ENSMUSG00000055371	Stam2	1200004O12Rik|5730456G07Rik|BB145015|Hbp	signal transducing adaptor molecule (SH3 domain and ITAM motif) 2	protein-coding	22.5	38.0	32.0	343.5	76.5	23.0	23.0	20.0
Merged-chr2-167800237-4	chr2	167800143	167800343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	109066.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	25.0	47.5	25.5	250.5	126.5	26.5	55.0	45.0
Merged-chr17-83323101-2	chr17	83323001	83323201	+	784.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27830.0	NM_001114361	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	5.0	6.0	6.5	90.0	9.0	2.0	4.0	7.5
Merged-chr15-7941797-3	chr15	7941778	7941978	+	752.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081402, intron 10 of 17)	intron (NM_001081402, intron 10 of 17)	126328.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	6.0	3.0	6.0	96.0	14.5	7.0	5.5	6.0
Merged-chr5-21784590-4	chr5	21784483	21784683	+	949.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011188)	promoter-TSS (NM_011188)	582.0	NM_009584	22791.0	Mm.266312	NM_009584	ENSMUSG00000029014	Dnajc2	AU020218|MIDA1|Zrf1|Zrf2	DnaJ heat shock protein family (Hsp40) member C2	protein-coding	8.0	17.0	5.5	111.5	29.5	7.0	9.5	9.0
Merged-chr14-19417855-4	chr14	19417761	19417961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	184726.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	146.0	105.5	233.0	4506.0	314.0	190.5	123.0	336.5
Merged-chr3-89418444-4	chr3	89418349	89418549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016904)	promoter-TSS (NM_016904)	-102.0	NM_011368	20416.0	Mm.86595	NM_011368	ENSMUSG00000042626	Shc1	Shc|ShcA|p66|p66shc	src homology 2 domain-containing transforming protein C1	protein-coding	261.5	441.0	253.0	3632.0	618.0	242.0	283.5	248.5
Merged-chr6-83456003-4	chr6	83455888	83456088	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 1 of 11)	CpG	404.0	NM_001347313	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	18.0	37.0	22.0	152.0	56.5	28.0	21.5	13.5
Merged-chr19-44332063-4	chr19	44331974	44332174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-1252.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	22.0	41.0	29.5	693.5	90.5	31.0	36.0	46.0
Merged-chr17-37492157-4	chr17	37492061	37492261	+	995.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146328)	promoter-TSS (NM_146328)	-307.0	NM_146328	258325.0	Mm.484339	NM_146328	ENSMUSG00000090894	Olfr110	MOR249-2	olfactory receptor 110	protein-coding	27.0	27.5	37.5	444.0	61.5	16.5	24.0	20.0
Merged-chr2-120578494-4	chr2	120578393	120578593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009222, intron 1 of 7)	intron (NM_009222, intron 1 of 7)	10822.0	NM_009222	20619.0	Mm.245715	NM_009222	ENSMUSG00000027287	Snap23	23kDa|AA408749|SNAP-23|Sndt|Syndet	synaptosomal-associated protein 23	protein-coding	66.0	93.5	55.0	840.5	176.5	60.5	74.0	71.0
Merged-chr6-113469661-4	chr6	113469562	113469762	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001034029, exon 14 of 14)	exon (NM_001034029, exon 14 of 14)	-1793.0	NM_178942	171095.0	Mm.213397	NM_134159	ENSMUSG00000030281	Il17rc	1110025H02Rik|Gm19850|IL-17RC|IL17-RC|IL17-RL|Il17rl	interleukin 17 receptor C	protein-coding	19.0	17.5	17.5	186.5	24.0	10.5	9.0	12.0
Merged-chr5-137103077-3	chr5	137102953	137103153	+	850.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13154.0	NM_201373	384309.0	Mm.100647	NM_201373	ENSMUSG00000043279	Trim56	A130009K11Rik|Gm452|RNF109	tripartite motif-containing 56	protein-coding	13.5	19.5	7.5	292.5	1.0	3.5	0.0	2.5
Merged-chr2-129297800-4	chr2	129297681	129297881	+	946.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181589)	promoter-TSS (NM_181589)	411.0	NR_040371	100503468.0	Mm.446943	NR_040371	ENSMUSG00000085498	Gm14023	-	predicted gene 14023	ncRNA	21.0	70.5	14.0	134.5	112.5	40.5	24.5	36.0
Merged-chr6-124360757-4	chr6	124360647	124360847	+	959.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3661.0	NM_001177502	76921.0	Mm.425335	NM_001177502	ENSMUSG00000079346	1700013D24Rik	-	RIKEN cDNA 1700013D24 gene	protein-coding	28.0	26.5	8.5	271.0	74.0	17.5	33.0	14.5
Merged-chr7-143053551-4	chr7	143053484	143053684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_110354, exon 1 of 5)	non-coding (NR_110354, exon 1 of 5)	102.0	NR_110355	97423.0	Mm.5250	NM_133790	ENSMUSG00000059277	R74862	-	expressed sequence R74862	ncRNA	30.5	37.0	25.5	169.5	74.0	26.5	28.5	28.5
Merged-chr12-71139577-2	chr12	71139477	71139677	+	736.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163378, intron 1 of 29)	B2_Mm2|SINE|B2	2729.0	NM_001163378	76967.0	Mm.87290	NM_029818	ENSMUSG00000034601	2700049A03Rik	Ta3|Talpid3|mKIAA0586	RIKEN cDNA 2700049A03 gene	protein-coding	5.0	6.5	4.0	13.0	11.0	5.5	7.5	4.5
Merged-chr10-71285277-4	chr10	71285183	71285383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145420)	promoter-TSS (NM_145420)	-21.0	NM_145420	216080.0	Mm.270530	NM_145420	ENSMUSG00000019927	Ube2d1	UBCH5	ubiquitin-conjugating enzyme E2D 1	protein-coding	69.0	84.0	57.0	1140.0	116.5	40.5	67.5	64.0
Merged-chr6-37592548-4	chr6	37592450	37592650	+	859.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62377.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	20.0	17.0	17.0	128.5	46.0	12.0	12.5	20.0
Merged-chr18-7608765-2	chr18	7608661	7608861	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360860)	promoter-TSS (NM_001360860)	-607.0	NM_001360860	75739.0	Mm.133293	NM_001081287	ENSMUSG00000057440	Mpp7	1110068J02Rik|2810038M04Rik|5430426E14Rik|AI415104|Gm955	membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7)	protein-coding	0.0	0.0	0.0	0.0	10.0	5.0	9.0	15.0
Merged-chr1-131146510-4	chr1	131146413	131146613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-6694.0	NM_001136070	16865.0	Mm.276294	NM_010709	ENSMUSG00000026427	Eif2d	D1Ertd5e|Lgtn	eukaryotic translation initiation factor 2D	protein-coding	40.0	43.0	34.5	599.5	101.0	26.0	47.0	41.5
Merged-chr3-53863907-5	chr3	53863802	53864002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026435)	promoter-TSS (NM_026435)	-95.0	NM_026435	67890.0	Mm.23067	NM_026435	ENSMUSG00000027746	Ufm1	1810045K17Rik|AI132708|AI463323|Gm10726	ubiquitin-fold modifier 1	protein-coding	56.0	99.5	86.5	685.0	99.0	51.0	55.5	46.5
Merged-chr12-32698911-4	chr12	32698732	32698932	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121503.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	17.5	18.0	19.5	260.5	32.5	15.0	12.0	9.5
Merged-chr6-51557429-3	chr6	51557320	51557520	+	778.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	ORR1A3|LTR|ERVL-MaLR	12127.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	8.5	6.5	5.0	102.5	21.0	9.5	2.5	6.0
Merged-chr4-46536116-4	chr4	46536026	46536226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029077)	promoter-TSS (NM_029077)	15.0	NM_029077	74735.0	Mm.240252	NM_029077	ENSMUSG00000039853	Trim14	5830400N10Rik|pub	tripartite motif-containing 14	protein-coding	30.0	42.5	34.5	675.5	75.5	23.0	23.0	28.0
Merged-chr7-35098970-4	chr7	35098885	35099085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20308.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	79.5	65.0	90.5	1429.5	60.0	45.5	41.0	74.5
Merged-chr3-15284628-4	chr3	15284531	15284731	+	987.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47671.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	38.0	41.0	32.0	411.0	71.5	28.5	28.5	21.0
Merged-chr9-59732859-6	chr9	59732832	59733032	+	945.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17717.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	7.0	18.5	2.5	203.0	46.0	11.5	12.0	10.5
Merged-chr15-32920794-4	chr15	32920725	32920925	+	965.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008304, exon 1 of 5)	5' UTR (NM_008304, exon 1 of 5)	102.0	NM_008304	15529.0	Mm.234266	NM_008304	ENSMUSG00000022261	Sdc2	4833414L08Rik|AA960457|Hspg1|Synd2|syndecan-2	syndecan 2	protein-coding	18.0	17.0	16.0	330.5	26.0	14.0	12.0	24.0
Merged-chr8-122923085-4	chr8	122922962	122923162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	74688.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	42.5	63.5	28.5	694.5	76.0	58.5	61.0	37.0
Merged-chr5-105798499-4	chr5	105798386	105798586	+	967.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122768, intron 2 of 2)	L2c|LINE|L2	-78082.0	NR_030777	54367.0	Mm.248876	NM_018759	ENSMUSG00000029290	Zfp326	5730470H14Rik|ZAN75|Znf326	zinc finger protein 326	protein-coding	28.0	83.0	27.0	256.5	49.5	25.0	30.5	6.5
Merged-chr17-43536741-4	chr17	43536636	43536836	+	863.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254953, intron 2 of 2)	intron (NM_001254953, intron 2 of 2)	6903.0	NM_001254953	100043332.0	Mm.17626	NM_001254953	ENSMUSG00000096140	Ankrd66	AU041848|D730048J04Rik|Gm4368	ankyrin repeat domain 66	protein-coding	20.5	14.0	11.5	212.0	26.5	13.5	8.0	14.5
Merged-chr11-53868592-4	chr11	53868474	53868674	+	815.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011396, intron 7 of 9)	ID_B1|SINE|B4	-9318.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	8.0	22.5	9.0	9.5	35.5	5.0	12.0	9.5
Merged-chr1-23792947-2	chr1	23792856	23793056	+	699.875	f0_balb.idr|f0_c57.idr	intron (NM_172124, intron 1 of 3)	intron (NM_172124, intron 1 of 3)	31030.0	NM_172124	280645.0	Mm.471661	NM_172124	ENSMUSG00000026156	B3gat2	GlcAT-S|Glcats	beta-1,3-glucuronyltransferase 2 (glucuronosyltransferase S)	protein-coding	7.5	12.0	10.5	160.0	39.0	7.0	11.5	6.0
Merged-chr3-68981012-4	chr3	68980900	68981100	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026641, intron 5 of 19)	RSINE1|SINE|B4	23570.0	NM_026641	68259.0	Mm.389451	NM_026641	ENSMUSG00000027778	Ift80	4921524P20Rik|Wdr56|mKIAA1374	intraflagellar transport 80	protein-coding	42.0	61.5	24.0	794.0	71.0	16.0	53.0	28.5
Merged-chr4-55472813-4	chr4	55472704	55472904	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-53962.0	NR_040674	100415914.0	Mm.261765	NR_040674	ENSMUSG00000087070	Gm12505	-	predicted gene 12505	ncRNA	5.5	18.5	11.5	221.0	61.5	22.0	27.0	11.0
Merged-chr14-64882809-4	chr14	64882733	64882933	+	848.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 4 of 9)	intron (NM_177338, intron 4 of 9)	67024.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	6.5	11.0	2.0	178.0	17.0	7.5	14.5	11.0
Merged-chr7-25239394-4	chr7	25239317	25239517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1566.0	NM_001031667	606496.0	Mm.491101	NM_001031667	ENSMUSG00000057177	Gsk3a	2700086H06Rik	glycogen synthase kinase 3 alpha	protein-coding	81.5	195.0	106.5	1457.5	338.0	118.0	139.0	89.0
Merged-chr6-146642525-4	chr6	146642437	146642637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025315)	promoter-TSS (NM_025315)	-42.0	NM_025315	108098.0	Mm.26212	NM_025315	ENSMUSG00000030291	Med21	0610007L03Rik|AI449604|D19234|D6Ertd782e|Srb7|Surb7	mediator complex subunit 21	protein-coding	234.0	415.0	280.5	4199.5	740.5	337.5	375.5	284.5
Merged-chr13-107101770-4	chr13	107101671	107101871	+	970.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79201.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	23.5	50.0	26.0	385.0	102.0	35.0	54.0	14.0
Merged-chr15-61985280-7	chr15	61985198	61985398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010849)	promoter-TSS (NM_010849)	-43.0	NM_001177354	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	37.0	70.0	69.5	633.0	30.5	24.5	11.0	23.0
Merged-chr10-37364690-4	chr10	37364585	37364785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-225759.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	47.5	68.5	44.5	891.0	72.5	49.0	44.0	39.5
Merged-chr7-130669257-4	chr7	130669154	130669354	+	872.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_206856, intron 3 of 20)	intron (NM_206856, intron 3 of 20)	-23302.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	11.0	10.0	28.5	287.0	27.5	14.0	11.0	16.0
Merged-chr17-71300553-4	chr17	71300475	71300675	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	10436.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	34.5	31.0	16.0	640.5	63.5	18.5	31.0	30.0
Merged-chr3-156563270-1	chr3	156563170	156563370	+	642.0	f0_c57.idr	intron (NM_001039094, intron 1 of 6)	intron (NM_001039094, intron 1 of 6)	1476.0	NM_001039094	320840.0	Mm.317293	NM_177274	ENSMUSG00000040037	Negr1	5330422G01Rik|KILON|Ntra	neuronal growth regulator 1	protein-coding	3.5	1.5	1.0	69.5	19.0	5.0	11.0	8.5
Merged-chr3-53448437-4	chr3	53448352	53448552	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14806.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	13.0	19.0	10.5	248.0	43.5	7.0	11.5	13.0
Merged-chr17-84626478-4	chr17	84626376	84626576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172256)	promoter-TSS (NM_172256)	-23.0	NM_172256	213575.0	Mm.246119	NM_172256	ENSMUSG00000024253	Dync2li1	4933404O11Rik|CGI-60|D2lic|LIC3|mD2LIC	dynein cytoplasmic 2 light intermediate chain 1	protein-coding	47.0	61.0	45.0	786.0	132.0	51.0	76.5	51.5
Merged-chr3-100409441-4	chr3	100409372	100409572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16933.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	127.5	204.5	106.0	1533.0	359.0	148.5	188.0	112.5
Merged-chr17-66094942-3	chr17	66094836	66095036	+	573.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028388, intron 1 of 7)	intron (NM_028388, intron 1 of 7)	6623.0	NM_001278415	72900.0	Mm.2206	NM_028388	ENSMUSG00000024099	Ndufv2	2900010C23Rik	NADH dehydrogenase (ubiquinone) flavoprotein 2	protein-coding	10.0	3.5	7.0	95.0	11.5	7.5	6.0	7.5
Merged-chr5-121392927-2	chr5	121392827	121393027	+	981.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5055.0	NM_172722	231713.0	Mm.33919	NM_172722	ENSMUSG00000042719	Naa25	4833422K13Rik|A630046C11|AI450868|C330023M02Rik|Mdm20	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	protein-coding	1.0	9.0	1.0	22.5	17.5	5.0	6.5	14.0
Merged-chr15-36903526-3	chr15	36903427	36903627	+	782.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103875.0	NM_026521	68036.0	Mm.371631	NM_026521	ENSMUSG00000062397	Zfp706	3110006P09Rik|AA793007|AW536850|C77232|Znf706	zinc finger protein 706	protein-coding	7.0	13.5	18.5	199.0	14.5	6.5	9.0	8.5
Merged-chr13-64248596-4	chr13	64248493	64248693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045798)	promoter-TSS (NR_045798)	-55.0	NM_001122989	218294.0	Mm.25335	NM_172587	ENSMUSG00000033102	Cdc14b	2810432N10Rik|A530086E13Rik|AA472821|CDC14B3|Cdc14B1	CDC14 cell division cycle 14B	protein-coding	23.5	24.5	28.5	484.5	53.5	23.5	27.5	10.0
Merged-chr5-99254849-4	chr5	99254748	99254948	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1921.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	18.0	46.0	21.0	205.5	41.5	16.5	15.5	18.0
Merged-chr1-34483949-2	chr1	34483849	34484049	+	848.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-14463.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	1.5	2.5	2.0	32.5	10.5	6.5	4.5	5.0
Merged-chr18-60859307-4	chr18	60859213	60859413	+	877.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10349.0	NM_001198984	21453.0	Mm.486251	NM_011552	ENSMUSG00000024613	Tcof1	AA408847|AW209012|treacle	treacle ribosome biogenesis factor 1	protein-coding	9.0	22.0	6.5	162.0	46.0	9.0	10.5	12.5
Merged-chr1-167370073-4	chr1	167370005	167370205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20114.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	52.5	41.0	21.5	744.5	117.5	54.5	48.0	51.5
Merged-chr2-153060309-4	chr2	153060201	153060401	+	855.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5654.0	NM_145536	228788.0	Mm.299979	NM_145536	ENSMUSG00000027474	Ccm2l	-	cerebral cavernous malformation 2-like	protein-coding	6.0	8.5	1.0	91.0	63.0	14.0	19.5	12.5
Merged-chr14-31323953-4	chr14	31323841	31324041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033668)	promoter-TSS (NM_001033668)	-45.0	NM_001033668	110084.0	Mm.101811	NM_001033668	ENSMUSG00000019027	Dnah1	B230373P09Rik|Dnahc1|E030034C22Rik|MDHC7	dynein, axonemal, heavy chain 1	protein-coding	53.0	55.5	32.5	474.0	79.5	33.5	32.5	33.5
Merged-chr1-82840158-3	chr1	82840057	82840257	+	842.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310713, intron 1 of 11)	CpG	697.0	NM_001347077	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	3.5	6.5	12.5	114.0	10.5	5.5	10.5	11.5
Merged-chr8-94696164-4	chr8	94696085	94696285	+	760.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026385)	promoter-TSS (NM_026385)	57.0	NM_026385	67801.0	Mm.279977	NM_026385	ENSMUSG00000031775	Pllp	0610010I06Rik|AV001002|Plapi|Tm4sf11	plasma membrane proteolipid	protein-coding	5.5	5.5	9.5	94.5	28.0	6.5	7.5	15.0
Merged-chr7-97148634-3	chr7	97148522	97148722	+	885.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	L1MB3|LINE|L1	66871.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	17.0	21.0	15.5	174.5	12.5	4.5	11.5	4.0
Merged-chr14-87464412-3	chr14	87464296	87464496	+	729.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253755, intron 3 of 11)	intron (NM_001253755, intron 3 of 11)	47813.0	NM_001253755	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	7.0	11.0	3.5	112.5	11.5	6.0	9.5	4.5
Merged-chr17-47672572-3	chr17	47672482	47672682	+	948.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198421, exon 3 of 7)	exon (NM_198421, exon 3 of 7)	-15028.0	NR_045945	100415787.0	Mm.392206	NR_045945	ENSMUSG00000084880	Tomm6os	Gm14872|Prickle4os	translocase of outer mitochondrial membrane 6, opposite strand	ncRNA	13.5	18.0	13.5	191.5	10.5	4.0	7.0	7.5
Merged-chr15-33186540-4	chr15	33186440	33186640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018755, intron 2 of 8)	L1_Mus4|LINE|L1	103411.0	NM_176073	54381.0	Mm.158251	NM_018755	ENSMUSG00000039007	Cpq	1190003P12Rik|2610034C17Rik|Hls2|Lal-1|Pgcp	carboxypeptidase Q	protein-coding	21.5	32.0	49.0	786.5	94.5	30.0	37.0	38.5
Merged-chr7-80011683-4	chr7	80011563	80011763	+	954.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-13151.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	20.5	42.0	23.5	148.0	68.0	35.0	28.0	27.5
Merged-chr7-83650864-4	chr7	83650756	83650956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360088, intron 15 of 18)	intron (NM_001360088, intron 15 of 18)	4639.0	NM_001360089	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	82.5	74.0	45.5	749.5	115.5	37.5	37.5	32.0
Merged-chr18-56799844-1	chr18	56799744	56799944	+	661.0	f0_balb.idr	intron (NM_177115, intron 3 of 4)	L1MC1|LINE|L1	92031.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	6.0	7.5	6.0	139.5	4.5	0.0	3.0	5.5
Merged-chr11-34032418-3	chr11	34032289	34032489	+	764.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-14539.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	6.0	7.0	16.0	126.0	12.5	9.0	10.5	9.0
Merged-chr3-34033986-4	chr3	34033881	34034081	+	887.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113189, intron 1 of 16)	intron (NM_001113189, intron 1 of 16)	13902.0	NM_001113189	14359.0	Mm.259021	NM_008053	ENSMUSG00000027680	Fxr1	1110050J02Rik|9530073J07Rik|AI851072|Fxr1h|Fxr1p	fragile X mental retardation gene 1, autosomal homolog	protein-coding	14.5	11.0	3.0	193.0	32.0	11.5	16.5	12.5
Merged-chr16-11439668-4	chr16	11439572	11439772	+	950.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 11 of 20)	intron (NM_028964, intron 11 of 20)	34024.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	4.0	11.5	12.5	380.5	49.0	14.0	18.5	24.0
Merged-chr7-5112821-3	chr7	5112711	5112911	+	571.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145013, intron 2 of 2)	MTD|LTR|ERVL-MaLR	4100.0	NM_001145013	192658.0	Mm.28764	NM_138954	ENSMUSG00000035191	Rfpl4	D7Ertd486e|Rfpl4a	ret finger protein-like 4	protein-coding	6.0	5.0	9.0	78.0	0.5	2.5	10.0	6.5
Merged-chr15-89196569-4	chr15	89196467	89196667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027081)	promoter-TSS (NM_027081)	-93.0	NM_027081	69440.0	Mm.482128	NM_027081	ENSMUSG00000015377	Dennd6b	1700027J05Rik|AI414881|Fam116b	DENN/MADD domain containing 6B	protein-coding	141.5	199.5	115.5	2010.0	256.5	111.5	167.5	98.5
Merged-chr10-86989996-4	chr10	86989844	86990044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 3 of 68)	intron (NM_138673, intron 3 of 68)	17998.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	48.0	82.0	46.5	813.5	129.0	26.0	69.5	48.0
Merged-chr5-24416264-4	chr5	24416151	24416351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310474, exon 4 of 10)	exon (NM_001310474, exon 4 of 10)	2800.0	NM_001310474	171209.0	Mm.299636	NM_183000	ENSMUSG00000038276	Asic3	AW742291|Accn3|DRASIC|SLNAC1|TNAC1	acid-sensing (proton-gated) ion channel 3	protein-coding	35.0	56.0	31.5	317.5	57.0	54.0	35.0	45.0
Merged-chr4-116994465-4	chr4	116994363	116994563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009478)	promoter-TSS (NM_009478)	-50.0	NM_009478	22275.0	Mm.46484	NM_009478	ENSMUSG00000028684	Urod	AI323803|UPD|Uro-d	uroporphyrinogen decarboxylase	protein-coding	54.5	108.5	29.5	787.5	237.0	69.0	104.5	98.5
Merged-chr13-113424001-4	chr13	113423861	113424061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78883.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	23.5	59.0	44.0	670.0	86.5	22.0	39.0	35.0
Merged-chr19-40640604-1	chr19	40640504	40640704	+	776.0	f1_balb.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-19166.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	4.5	8.5	5.0	70.0	13.5	2.5	5.5	8.0
Merged-chr4-135129028-4	chr4	135128941	135129141	+	909.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019732, intron 1 of 5)	intron (NM_019732, intron 1 of 5)	8396.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	19.5	32.5	7.5	187.5	24.5	7.0	9.5	10.5
Merged-chr2-162976080-4	chr2	162975974	162976174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081338, exon 23 of 23)	3' UTR (NM_001081338, exon 23 of 23)	-11407.0	NM_001291154	27219.0	Mm.26462	NM_013731	ENSMUSG00000017868	Sgk2	AI098171|AW146006|Sgkl	serum/glucocorticoid regulated kinase 2	protein-coding	41.5	29.0	19.5	362.0	76.0	23.0	27.5	36.5
Merged-chr13-112464014-4	chr13	112463919	112464119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010560)	promoter-TSS (NM_010560)	-51.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	144.0	199.0	98.5	2489.0	353.0	139.0	212.0	155.0
Merged-chr2-25553396-2	chr2	25553296	25553496	+	935.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-4504.0	NM_021519	59022.0	Mm.29945	NM_021519	ENSMUSG00000015092	Edf1	0610008L11Rik|AA409425	endothelial differentiation-related factor 1	protein-coding	4.0	5.5	0.0	23.0	10.0	5.5	8.5	5.0
Merged-chr1-134063725-8	chr1	134063612	134063812	+	957.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15443.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	16.5	20.0	10.5	69.5	22.0	5.5	13.5	14.0
Merged-chr19-45048245-4	chr19	45048139	45048339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362381, intron 1 of 10)	intron (NM_001362381, intron 1 of 10)	663.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	47.5	60.0	27.5	749.5	96.0	34.0	37.0	30.5
Merged-chr8-25754418-4	chr8	25754305	25754505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028102)	promoter-TSS (NM_028102)	8.0	NM_001361595	72108.0	Mm.246875	NM_028102	ENSMUSG00000061313	Ddhd2	2010305K11Rik|SAMWD1|mKIAA0725	DDHD domain containing 2	protein-coding	151.0	136.5	94.0	1385.0	212.5	97.0	90.0	68.5
Merged-chr11-70605311-3	chr11	70605207	70605407	+	814.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 12 of 30)	intron (NM_016713, intron 12 of 30)	-10587.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	5.5	10.5	2.0	84.0	24.5	4.5	12.0	5.5
Merged-chr10-108155871-4	chr10	108155783	108155983	+	866.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6517.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	11.0	21.5	18.0	211.0	26.5	6.5	9.5	27.5
Merged-chr4-106970941-2	chr4	106970848	106971048	+	681.5	f0_balb.idr|f0_c57.idr	intron (NM_001355532, intron 1 of 14)	intron (NM_001355532, intron 1 of 14)	47763.0	NM_001355532	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	1.5	12.0	3.0	123.5	17.5	5.0	11.5	6.5
Merged-chr17-6106857-4	chr17	6106756	6106956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001103181)	promoter-TSS (NM_001103181)	26.0	NM_001103181	68842.0	Mm.449307	NM_054040	ENSMUSG00000034377	Tulp4	1110057P05Rik|2210038L17Rik|Tusp	tubby like protein 4	protein-coding	20.5	37.0	19.5	224.5	127.0	54.5	68.0	63.0
Merged-chr11-120510853-4	chr11	120510750	120510950	+	974.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	19013.0	NM_013770	27376.0	Mm.3991	NM_013770	ENSMUSG00000025792	Slc25a10	Dic	solute carrier family 25 (mitochondrial carrier, dicarboxylate transporter), member 10	protein-coding	21.0	30.5	15.0	238.0	57.0	15.5	23.5	23.0
Merged-chr9-109021606-4	chr9	109021503	109021703	+	786.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153430, intron 9 of 13)	intron (NR_153430, intron 9 of 13)	-16964.0	NM_001284332	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	17.5	25.5	5.5	104.5	38.5	5.5	9.0	9.0
Merged-chr17-80323960-4	chr17	80323821	80324021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145452, intron 1 of 17)	intron (NM_001145452, intron 1 of 17)	16514.0	NM_001145452	381112.0	Mm.360004	NM_001145452	ENSMUSG00000054901	Arhgef33	Gm941	Rho guanine nucleotide exchange factor (GEF) 33	protein-coding	27.0	63.0	34.5	617.5	68.0	33.0	40.5	30.0
Merged-chr2-113654238-3	chr2	113654146	113654346	+	957.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 13 of 16)	intron (NM_001285459, intron 13 of 16)	-30844.0	NM_001287818	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	11.5	16.0	27.5	322.0	15.5	6.0	4.5	6.0
Merged-chr11-114917289-4	chr11	114917178	114917378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17108.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	47.5	65.0	57.0	899.5	70.5	14.5	39.0	44.5
Merged-chr10-96334822-4	chr10	96334741	96334941	+	990.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108634.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	32.0	47.0	46.0	560.0	36.5	15.0	17.5	21.5
Merged-chr1-177282179-4	chr1	177282088	177282288	+	880.845825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33421.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	10.5	22.0	22.0	317.5	34.5	13.0	14.5	9.0
Merged-chr17-34077775-4	chr17	34077668	34077868	+	953.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14611.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	20.5	19.0	2.0	207.5	54.0	15.0	15.5	18.5
Merged-chr13-9094345-4	chr13	9094255	9094455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 1 of 17)	(CGGGG)n|Simple_repeat|Simple_repeat	474.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	44.5	84.0	89.0	625.5	112.5	53.5	60.0	49.0
Merged-chr5-62893207-4	chr5	62893100	62893300	+	725.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79377.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	2.0	8.0	13.0	93.0	21.0	13.0	7.0	6.5
Merged-chr16-65562723-4	chr16	65562629	65562829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026879)	promoter-TSS (NM_026879)	-32.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	147.0	121.5	109.0	1966.5	301.0	110.5	130.0	105.0
Merged-chr2-33871582-3	chr2	33871506	33871706	+	924.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 2 of 9)	intron (NM_175184, intron 2 of 9)	16340.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	8.0	8.5	5.0	127.5	13.0	6.5	7.0	8.0
Merged-chr12-75833640-4	chr12	75833525	75833725	+	961.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 1 of 115)	intron (NM_001005510, intron 1 of 115)	15307.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	12.0	31.5	18.0	368.0	37.0	15.5	17.0	16.5
Merged-chr6-108829914-4	chr6	108829821	108830021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138677, intron 1 of 11)	intron (NM_138677, intron 1 of 11)	1280.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	43.5	80.0	58.0	771.5	142.5	39.5	83.5	64.5
Merged-chr1-165645375-2	chr1	165645275	165645475	+	855.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10834.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	5.5	9.0	6.0	12.5	9.0	3.0	9.0	5.5
Merged-chr6-72095370-3	chr6	72095293	72095493	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2215.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	3.0	6.0	7.0	78.5	10.5	5.5	6.0	5.5
Merged-chr2-52925288-4	chr2	52925189	52925389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	67421.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	97.5	155.0	101.5	1196.5	136.0	74.5	85.0	60.0
Merged-chr11-77386538-4	chr11	77386427	77386627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 1 of 13)	intron (NM_001291190, intron 1 of 13)	38247.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	54.0	57.0	28.0	889.0	76.5	28.0	40.0	26.0
Merged-chr11-110967847-4	chr11	110967743	110967943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252207)	promoter-TSS (NM_001252207)	-190.0	NM_010604	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	31.0	46.0	24.5	641.0	124.5	43.5	67.0	40.5
Merged-chr15-61987209-4	chr15	61987114	61987314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177353, intron 1 of 2)	CpG	1873.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	49.5	57.0	63.0	1055.5	82.0	24.0	40.5	27.5
Merged-chr14-40979183-4	chr14	40979087	40979287	+	916.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12291.0	NM_145928	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	5.0	28.5	13.0	303.5	27.0	10.5	28.0	21.0
Merged-chr14-121352409-3	chr14	121352312	121352512	+	881.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 1 of 10)	intron (NM_145465, intron 1 of 10)	26818.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	6.0	7.5	10.5	226.0	22.5	5.5	11.0	8.0
Merged-chr7-145198510-4	chr7	145198462	145198662	+	900.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132643, intron 19 of 22)	intron (NR_132643, intron 19 of 22)	9557.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	7.0	9.5	9.5	291.0	28.5	13.0	21.5	14.0
Merged-chr17-63871164-1	chr17	63871064	63871264	+	826.0	f0_balb.idr	intron (NM_001037997, intron 1 of 18)	B4A|SINE|B4	-6902.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	1.5	4.0	10.0	109.5	21.0	10.0	4.5	10.5
Merged-chr4-41377800-4	chr4	41377698	41377898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355509, intron 3 of 5)	intron (NM_001355509, intron 3 of 5)	25835.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	73.0	90.0	78.5	941.0	155.5	60.0	41.5	67.5
Merged-chr3-116081978-4	chr3	116081914	116082114	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	47674.0	NM_011693	22329.0	Mm.76649	NM_011693	ENSMUSG00000027962	Vcam1	CD106|Vcam-1	vascular cell adhesion molecule 1	protein-coding	16.0	23.5	44.5	553.5	41.5	26.0	15.5	24.5
Merged-chr4_GL456216_random-16498-1	chr4_GL456216_random	16398	16598	+	1000.0	f0_c57.idr	intron (NM_001033326, intron 1 of 6)	CpG	617.0	NM_001033326	236082.0	Mm.305345	NM_001033326	ENSMUSG00000063897	Dhrsx	C80877|D4Ertd296e|Dhrsxy|Pscad	dehydrogenase/reductase (SDR family) X chromosome	protein-coding	0.0	0.0	0.0	0.0	234.5	120.0	133.5	124.5
Merged-chr12-33138073-2	chr12	33137973	33138173	+	809.333313	f1_balb.idr|f1_c57bl6.idr	intron (NR_015602, intron 3 of 5)	ORR1B1|LTR|ERVL-MaLR	9513.0	NR_015602	320046.0	Mm.208337	NR_015602	ENSMUSG00000052125	F730043M19Rik	-	RIKEN cDNA F730043M19 gene	ncRNA	9.0	10.5	3.5	35.0	14.5	7.0	4.5	4.5
Merged-chr6-38712346-4	chr6	38712250	38712450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 12 of 14)	MIRc|SINE|MIR	49281.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	40.5	107.0	44.5	928.5	179.0	77.5	95.0	93.5
Merged-chr15-58211574-4	chr15	58211478	58211678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026346, intron 1 of 8)	intron (NM_026346, intron 1 of 8)	3314.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	46.5	61.0	82.0	1391.5	105.5	43.5	55.0	67.0
Merged-chr2-181213160-3	chr2	181213059	181213259	+	723.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011481)	promoter-TSS (NM_011481)	12.0	NM_011481	20811.0	Mm.4752	NM_011481	ENSMUSG00000027579	Srms	A230069J08Rik|srm	src-related kinase lacking C-terminal regulatory tyrosine and N-terminal myristylation sites	protein-coding	7.0	6.5	7.5	70.0	12.5	1.5	6.5	3.0
Merged-chr2-25365207-4	chr2	25365113	25365313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149315, intron 1 of 8)	CpG	450.0	NR_149315	227620.0	Mm.33797	NM_001033293	ENSMUSG00000026956	Uap1l1	5730445F03Rik	UDP-N-acteylglucosamine pyrophosphorylase 1-like 1	protein-coding	40.5	45.0	48.0	608.0	69.5	28.5	35.0	32.0
Merged-chr6-113482746-4	chr6	113482669	113482869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133930)	promoter-TSS (NM_133930)	-587.0	NM_133930	171508.0	Mm.41593	NM_133930	ENSMUSG00000030284	Creld1	AI843811|i11E7	cysteine-rich with EGF-like domains 1	protein-coding	32.0	51.0	39.0	737.5	84.0	30.5	45.0	43.0
Merged-chr16-45644661-3	chr16	45644567	45644767	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145389, intron 2 of 5)	intron (NM_145389, intron 2 of 5)	9451.0	NM_145389	212998.0	Mm.97511	NM_145389	ENSMUSG00000033187	BC016579	-	cDNA sequence, BC016579	protein-coding	0.0	2.0	3.5	13.5	373.0	167.5	216.5	110.5
Merged-chr5-20816023-3	chr5	20815921	20816121	+	906.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172992, intron 2 of 17)	intron (NM_172992, intron 2 of 17)	66103.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	6.5	22.0	9.0	150.0	8.0	5.5	4.5	9.0
Merged-chr12-112619235-4	chr12	112619154	112619354	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007421)	promoter-TSS (NM_007421)	-793.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	19.5	23.5	6.5	388.5	54.0	12.0	23.0	25.5
Merged-chr6-31217624-4	chr6	31217452	31217652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	C-rich|Low_complexity|Low_complexity	922.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	15.0	51.0	26.5	394.5	105.0	22.5	35.0	55.5
Merged-chr3-107110420-4	chr3	107110333	107110533	+	980.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008417, exon 3 of 3)	3' UTR (NM_008417, exon 3 of 3)	8866.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	12.5	24.5	17.5	267.5	86.0	13.5	31.5	21.0
Merged-chr13-89505044-4	chr13	89504934	89505134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35602.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	6.0	7.5	11.5	132.0	69.0	23.5	55.5	31.0
Merged-chr2-34372807-4	chr2	34372720	34372920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016768)	promoter-TSS (NM_016768)	-775.0	NM_016768	18516.0	Mm.239941	NM_016768	ENSMUSG00000038718	Pbx3	-	pre B cell leukemia homeobox 3	protein-coding	94.0	153.5	101.5	1426.0	237.0	104.0	134.5	144.5
Merged-chr2-29060254-4	chr2	29060166	29060366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009442)	promoter-TSS (NM_009442)	3.0	NM_009442	22130.0	Mm.252195	NM_009442	ENSMUSG00000026803	Ttf1	AV245725|TTF-1|TTF-I	transcription termination factor, RNA polymerase I	protein-coding	52.5	140.5	34.5	657.0	157.5	90.5	50.0	63.0
Merged-chr17-29396363-4	chr17	29396234	29396434	+	977.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35420.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	24.5	25.0	8.0	83.5	49.0	21.0	19.5	18.0
Merged-chr1-80639184-4	chr1	80639064	80639264	+	879.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	MTEa|LTR|ERVL-MaLR	26188.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	9.5	18.5	7.5	150.0	28.5	16.5	13.5	14.0
Merged-chr18-62185806-4	chr18	62185724	62185924	+	789.075012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	5724.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	14.0	26.5	12.0	199.0	20.5	15.5	10.5	9.0
Merged-chr15-83037892-4	chr15	83037803	83038003	+	957.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger16a|DNA|TcMar-Tigger	-4506.0	NM_001271411	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	12.0	19.5	17.5	165.0	59.0	22.0	17.0	16.0
Merged-chr4-140566975-4	chr4	140566872	140567072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112723, intron 16 of 26)	intron (NM_001112723, intron 16 of 26)	81784.0	NM_001112723	72754.0	Mm.29329	NM_172415	ENSMUSG00000040964	Arhgef10l	2810441C07Rik	Rho guanine nucleotide exchange factor (GEF) 10-like	protein-coding	30.0	54.5	28.5	548.0	96.0	28.0	42.0	32.0
Merged-chr16-52094895-4	chr16	52094787	52094987	+	920.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	63338.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	24.5	17.0	10.0	228.5	63.0	16.5	14.5	15.0
Merged-chr9-62343632-3	chr9	62343513	62343713	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	CpG	2270.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	24.0	31.5	11.5	398.5	85.5	34.0	33.0	35.0
Merged-chr4-3679941-7	chr4	3679877	3680077	+	985.761902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111096, intron 1 of 12)	intron (NM_001111096, intron 1 of 12)	1856.0	NM_010747	17096.0	Mm.317331	NM_010747	ENSMUSG00000042228	Lyn	AA407514|Hck-2|p53Lyn|p56Lyn	LYN proto-oncogene, Src family tyrosine kinase	protein-coding	27.5	30.0	20.5	120.5	29.0	15.0	20.0	25.5
Merged-chr13-33003127-4	chr13	33003011	33003211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1430.0	NM_009256	20723.0	Mm.245041	NM_009256	ENSMUSG00000045827	Serpinb9	BB283241|CAP-3|CAP3|PI-9|PI9|Spi6|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9	protein-coding	45.5	99.5	52.0	477.5	275.5	63.5	77.0	78.5
Merged-chr3-16025247-4	chr3	16025202	16025402	+	927.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-18970.0	NM_001081687	381484.0	Mm.217376	NM_001081687	ENSMUSG00000078780	Gm5150	-	predicted gene 5150	protein-coding	16.5	13.5	9.5	55.0	28.0	14.5	10.0	8.5
Merged-chr7-127777061-4	chr7	127776951	127777151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178029)	promoter-TSS (NM_178029)	-338.0	NM_178029	233904.0	Mm.435494	NM_010940	ENSMUSG00000042308	Setd1a	BC010250|KMT2F|Nsccn1|mKIAA0339|mNSC1	SET domain containing 1A	protein-coding	61.5	91.0	43.0	836.0	165.0	70.5	70.0	62.5
Merged-chr7-74974676-4	chr7	74974564	74974764	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55547.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	11.0	9.0	11.5	133.0	32.0	13.0	28.5	21.5
Merged-chr5-147758273-4	chr5	147758162	147758362	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32274.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	19.5	35.5	14.5	245.0	86.5	31.0	31.0	38.0
Merged-chr11-102318838-4	chr11	102318722	102318922	+	743.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011551, intron 1 of 20)	CpG-2669	274.0	NM_001302955	21429.0	Mm.2845	NM_011551	ENSMUSG00000020923	Ubtf	A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1	upstream binding transcription factor, RNA polymerase I	protein-coding	11.0	8.5	7.0	91.5	25.0	0.5	10.5	7.0
Merged-chr7-70099220-4	chr7	70099124	70099324	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	238598.0	NR_131145	624549.0	Mm.116344	NR_131144	ENSMUSG00000109097	Gm29683	Gm44536	predicted gene, 29683	ncRNA	23.0	36.5	33.0	485.0	51.5	21.0	30.5	21.5
Merged-chr11-30291281-1	chr11	30291181	30291381	+	713.5	f0_balb.idr	Intergenic	Intergenic	-71509.0	NM_175836	20742.0	Mm.123110	NM_009260	ENSMUSG00000020315	Sptbn1	9930031C03Rik|AL033301|SPTB2|Spnb-2|Spnb2|elf1|elf3|mKIAA4049	spectrin beta, non-erythrocytic 1	protein-coding	7.5	15.5	7.5	122.0	1.0	0.0	0.0	1.5
Merged-chr16-75909282-4	chr16	75909157	75909357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023380)	promoter-TSS (NM_023380)	9.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	94.0	191.5	108.0	1856.5	262.0	102.0	162.5	114.0
Merged-chr17-50181159-3	chr17	50181073	50181273	+	888.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 1 of 9)	intron (NM_181397, intron 1 of 9)	9324.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	10.0	15.0	12.0	155.5	25.0	0.0	5.5	6.5
Merged-chr18-80469276-2	chr18	80469165	80469365	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_026295, exon 1 of 13)	exon (NM_026295, exon 1 of 13)	402.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	31.5	32.5	29.5	222.0	67.5	19.5	26.0	27.5
Merged-chr9-41070973-6	chr9	41070851	41071051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	8555.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	16.0	33.0	21.0	300.5	60.0	17.5	17.5	21.5
Merged-chr16-75767814-4	chr16	75767733	75767933	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-1015.0	NM_030201	110920.0	Mm.26704	NM_030201	ENSMUSG00000032932	Hspa13	1600002I10Rik|AV006182|B230217N24Rik|Stch	heat shock protein 70 family, member 13	protein-coding	20.0	22.0	18.5	340.5	26.5	14.0	16.5	16.5
Merged-chr2-158258158-4	chr2	158258067	158258267	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177850)	promoter-TSS (NM_177850)	-74.0	NM_177850	329547.0	Mm.260883	NM_177850	ENSMUSG00000052922	Bpi	9230105K17Rik|Bpifd1	bactericidal permeablility increasing protein	protein-coding	7.5	24.5	18.0	136.0	51.5	17.5	23.0	35.0
Merged-chr10-99179347-4	chr10	99179246	99179446	+	883.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	71211.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	13.5	19.0	6.0	103.5	26.5	5.0	8.5	3.0
Merged-chr7-102314302-3	chr7	102314200	102314400	+	867.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 1 of 11)	intron (NM_009287, intron 1 of 11)	46476.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	6.0	8.0	3.5	136.0	30.0	4.5	6.0	4.5
Merged-chr2-152737022-3	chr2	152736909	152737109	+	975.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010495, exon 2 of 2)	exon (NM_010495, exon 2 of 2)	758.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	6.0	16.0	5.5	117.5	35.5	14.0	7.5	26.5
Merged-chr9-123923690-4	chr9	123923609	123923809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	44983.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	16.0	36.0	19.0	246.0	40.5	15.5	20.5	25.0
Merged-chr18-79181553-3	chr18	79181451	79181651	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-72160.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	31.0	54.5	84.5	767.0	13.5	4.5	13.0	4.5
Merged-chr14-50838207-4	chr14	50838113	50838313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 35 of 54)	intron (NM_009351, intron 35 of 54)	30297.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	45.0	66.0	32.5	744.0	234.5	73.5	133.0	103.5
Merged-chr10-99441210-4	chr10	99441106	99441306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167965.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	66.0	64.5	75.0	957.0	106.0	37.0	39.5	43.5
Merged-chr18-88774303-3	chr18	88774195	88774395	+	880.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	119912.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	8.0	3.0	4.0	131.0	25.5	5.5	6.5	8.5
Merged-chr10-10459783-3	chr10	10459700	10459900	+	763.1777950000001	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	MamRep38|DNA|hAT	12514.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	10.0	9.0	6.5	95.0	30.0	6.0	14.0	15.5
Merged-chr11-3964935-4	chr11	3964833	3965033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022889, intron 1 of 14)	intron (NM_022889, intron 1 of 14)	958.0	NM_022889	64934.0	Mm.28659	NM_022889	ENSMUSG00000020430	Pes1	-	pescadillo ribosomal biogenesis factor 1	protein-coding	39.0	37.0	48.0	629.0	72.0	26.5	27.5	37.5
Merged-chr9-56592870-4	chr9	56592762	56592962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42786.0	NM_001311076	235402.0	Mm.246605	NM_181074	ENSMUSG00000049556	Lingo1	4930471K13Rik|AV148400|LERN1|LINGO-1|Lrrn6a|UNQ201	leucine rich repeat and Ig domain containing 1	protein-coding	42.0	65.0	32.0	598.5	96.0	24.5	44.0	43.5
Merged-chr13-17696445-3	chr13	17696372	17696572	+	712.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025479, intron 1 of 1)	intron (NM_025479, intron 1 of 1)	1059.0	NM_025479	66308.0	Mm.291109	NM_025479	ENSMUSG00000012429	Mplkip	2810021B07Rik|C330007M08Rik|Ttdn1	M-phase specific PLK1 intereacting protein	protein-coding	4.0	4.0	5.0	37.0	19.5	5.5	6.5	8.0
Merged-chr4-137345964-4	chr4	137345867	137346067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009861, intron 1 of 5)	ORR1D2|LTR|ERVL-MaLR	11792.0	NM_009861	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	31.5	58.0	25.0	738.0	136.5	35.5	39.5	39.5
Merged-chr1-84286924-3	chr1	84286820	84287020	+	991.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2275.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	7.5	17.0	5.5	129.5	12.5	8.5	9.5	8.5
Merged-chr19-32138863-4	chr19	32138766	32138966	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 7 of 9)	intron (NM_144792, intron 7 of 9)	-35726.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	23.5	40.5	19.5	541.0	50.0	12.0	15.0	28.5
Merged-chr3-96576857-4	chr3	96576718	96576918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10017.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	110.5	166.5	117.5	1566.0	209.0	116.0	108.0	98.5
Merged-chr5-138754957-4	chr5	138754821	138755021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030565)	promoter-TSS (NM_030565)	-160.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	71.5	84.5	69.0	889.0	87.0	32.0	58.0	31.5
Merged-chr13-112102206-3	chr13	112102101	112102301	+	754.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186250.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	15.0	7.5	23.0	192.5	22.5	2.5	2.5	1.0
Merged-chr15-25897746-4	chr15	25897649	25897849	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 3 of 8)	intron (NM_001034851, intron 3 of 8)	-35803.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	25.5	22.5	30.0	629.0	59.0	15.5	24.5	18.5
Merged-chr16-91931573-4	chr16	91931455	91931655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138597)	promoter-TSS (NM_138597)	75.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	83.0	124.0	53.5	945.0	163.5	52.0	75.0	72.5
Merged-chr9-90112571-4	chr9	90112486	90112686	+	766.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 1 of 12)	intron (NM_001039147, intron 1 of 12)	2234.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	5.0	5.0	5.0	72.5	28.0	5.5	12.0	2.5
Merged-chr1-36598524-2	chr1	36598410	36598610	+	707.5	f0_balb.idr|f0_c57.idr	intron (NM_001126046, intron 10 of 14)	intron (NM_001126046, intron 10 of 14)	-5178.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	6.5	7.5	8.5	99.5	27.5	7.0	11.0	4.5
Merged-chr9-66277898-4	chr9	66277787	66277987	+	882.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72563.0	NM_145617	235439.0	Mm.244179	NM_145617	ENSMUSG00000038664	Herc1	2810449H11Rik|B230218H07|D130015N03Rik|tbl	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	protein-coding	16.5	15.5	9.0	111.0	36.5	12.0	12.5	14.5
Merged-chr8-122474023-4	chr8	122473918	122474118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033142, intron 1 of 5)	intron (NM_001033142, intron 1 of 5)	2046.0	NM_001033142	68718.0	Mm.34356	NM_001033142	ENSMUSG00000014470	Rnf166	1110031E24Rik|AW555115|Zfp313l	ring finger protein 166	protein-coding	132.0	124.5	108.0	1539.0	110.0	61.5	78.5	71.5
Merged-chr14-46884945-4	chr14	46884812	46885012	+	944.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028966, exon 2 of 12)	exon (NM_028966, exon 2 of 12)	1947.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	14.0	22.0	14.0	156.5	30.5	6.5	3.0	8.0
Merged-chr11-98051803-4	chr11	98051712	98051912	+	971.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146028, intron 1 of 10)	intron (NM_146028, intron 1 of 10)	1650.0	NM_146028	217154.0	Mm.181008	NM_146028	ENSMUSG00000017400	Stac2	24b2|24b2/STAC2|AW240854	SH3 and cysteine rich domain 2	protein-coding	22.5	34.0	9.5	447.0	81.0	12.5	29.5	46.5
Merged-chr15-5495309-4	chr15	5495205	5495405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1013.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	55.5	53.5	40.0	487.0	104.0	38.5	42.0	16.5
Merged-chr11-98660664-4	chr11	98660552	98660752	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3699.0	NM_021347	57911.0	Mm.458085	NM_021347	ENSMUSG00000017204	Gsdma	BB149167|Gsdm|Gsdm1|Gsdma1|H312E	gasdermin A	protein-coding	33.0	53.5	19.5	358.0	73.0	31.0	39.5	46.0
Merged-chr12-34433595-3	chr12	34433498	34433698	+	968.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 5 of 27)	intron (NM_001271386, intron 5 of 27)	95291.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	12.5	6.5	5.0	152.0	22.5	5.5	8.5	8.0
Merged-chr6-88069970-4	chr6	88069893	88070093	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14480.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	15.5	53.5	26.5	219.0	109.5	25.0	27.0	34.5
Merged-chr14-48488522-2	chr14	48488392	48488592	+	605.25	f0_balb.idr|f1_c57bl6.idr	intron (NR_132324, intron 9 of 13)	L1MA4|LINE|L1	42140.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	8.0	8.5	19.0	76.0	4.5	3.5	4.5	7.5
Merged-chr6-115808631-4	chr6	115808529	115808729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028546)	promoter-TSS (NR_028546)	114.0	NM_172086	19951.0	Mm.104368	NM_172086	ENSMUSG00000057841	Rpl32	AU020185|rpL32-3A	ribosomal protein L32	protein-coding	50.0	65.5	75.0	556.5	123.0	51.5	40.5	47.0
Merged-chr14-77034731-4	chr14	77034664	77034864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172488, intron 3 of 7)	intron (NM_172488, intron 3 of 7)	1853.0	NM_172488	210808.0	Mm.89278	NM_172488	ENSMUSG00000044350	Lacc1	9030625A04Rik	laccase domain containing 1	protein-coding	122.0	231.5	95.0	1420.5	347.0	137.5	136.5	109.5
Merged-chr15-76080583-4	chr15	76080491	76080691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356629, intron 1 of 12)	CpG	279.0	NM_001164600	67959.0	Mm.29965	NM_028364	ENSMUSG00000002524	Puf60	2410104I19Rik|2810454F19Rik|SIAHBP1	poly-U binding splicing factor 60	protein-coding	91.5	127.5	67.0	848.5	212.5	94.5	110.5	98.0
Merged-chr18-53265714-4	chr18	53265675	53265875	+	914.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	B1_Mur2|SINE|Alu	20113.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	4.5	6.5	9.5	64.5	12.5	7.0	7.5	12.5
Merged-chr7-27472911-4	chr7	27472822	27473022	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133210)	promoter-TSS (NM_133210)	-918.0	NM_133210	170742.0	Mm.200120	NM_133210	ENSMUSG00000055200	Sertad3	AW124805|D1Mgi51|Rbt1|Sei3	SERTA domain containing 3	protein-coding	28.0	27.0	11.0	258.5	73.5	16.0	19.0	19.0
Merged-chr2-127308797-2	chr2	127308697	127308897	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-27362.0	NM_010090	13537.0	Mm.4729	NM_010090	ENSMUSG00000027368	Dusp2	PAC1	dual specificity phosphatase 2	protein-coding	6.0	13.0	5.0	15.5	5.0	4.5	4.0	2.0
Merged-chr11-115143784-3	chr11	115143659	115143859	+	652.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	B1_Mur4|SINE|Alu	-9767.0	NM_145634	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	4.0	7.0	6.5	39.0	12.0	5.0	6.0	6.0
Merged-chr6-5496284-6	chr6	5496195	5496395	+	852.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013743)	promoter-TSS (NM_013743)	-17.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	14.5	10.5	20.5	267.0	12.0	6.5	13.0	17.5
Merged-chr3-79419114-2	chr3	79419014	79419214	+	813.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001142953, intron 2 of 4)	intron (NM_001142953, intron 2 of 4)	73738.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	5.0	11.5	5.5	63.0	10.0	3.5	9.5	5.5
Merged-chr9-118611316-4	chr9	118611201	118611401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	4592.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	62.5	57.5	88.0	1249.5	145.5	36.0	94.0	68.5
Merged-chr1-154006258-4	chr1	154006136	154006336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	106307.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	37.0	47.5	26.5	546.0	93.0	32.0	34.5	43.0
Merged-chr12-32489969-4	chr12	32489884	32490084	+	936.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111195.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	15.5	36.0	24.0	339.0	21.0	5.5	15.5	16.5
Merged-chr4-58985313-3	chr4	58985207	58985407	+	732.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025968, intron 1 of 9)	intron (NM_025968, intron 1 of 9)	1771.0	NM_025968	67103.0	Mm.34497	NM_025968	ENSMUSG00000028378	Ptgr1	2510002C21Rik|Ltb4dh|Zadh3	prostaglandin reductase 1	protein-coding	6.0	13.0	6.5	112.5	16.5	4.0	5.0	8.5
Merged-chr7-16402070-3	chr7	16401977	16402177	+	836.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198631, intron 1 of 13)	intron (NM_198631, intron 1 of 13)	881.0	NM_198631	330474.0	Mm.333594	NM_198631	ENSMUSG00000059273	Zc3h4	Bwq1|Gm768|Kiaa1064-hp|mKIAA1064	zinc finger CCCH-type containing 4	protein-coding	5.0	8.5	1.5	49.0	12.5	7.0	7.0	9.5
Merged-chr15-86216715-4	chr15	86216616	86216816	+	840.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 1 of 12)	MLT1C|LTR|ERVL-MaLR	2257.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	26.5	12.5	53.0	574.5	24.0	3.0	8.5	17.5
Merged-chr9-57433954-4	chr9	57433856	57434056	+	696.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152145, intron 3 of 6)	intron (NR_152145, intron 3 of 6)	5780.0	NM_001357913	66812.0	Mm.250508	NM_176831	ENSMUSG00000063849	Ppcdc	1810057I13Rik|8430432M10Rik	phosphopantothenoylcysteine decarboxylase	protein-coding	3.5	9.0	8.0	89.0	19.5	8.0	9.5	13.5
Merged-chr2-164792541-4	chr2	164792460	164792660	+	950.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133240)	TTS (NM_133240)	6539.0	NM_133924	101113.0	Mm.295647	NM_133924	ENSMUSG00000050373	Snx21	5730407K14Rik|AI481716	sorting nexin family member 21	protein-coding	8.5	10.5	10.0	232.0	44.5	8.0	20.5	19.0
Merged-chr6-72517122-2	chr6	72517022	72517222	+	599.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27269.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	5.0	4.0	0.0	30.5	15.5	5.5	6.0	8.0
Merged-chr8-124231303-4	chr8	124231209	124231409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139272)	promoter-TSS (NM_139272)	-85.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	50.0	41.5	34.5	424.0	127.5	35.5	67.0	30.5
Merged-chr5-117149224-1	chr5	117149124	117149324	+	588.0	f0_balb.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	15636.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	3.5	5.5	0.0	99.0	8.5	5.5	4.5	4.5
Merged-chr13-64128267-2	chr13	64128167	64128367	+	543.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001321, intron 1 of 11)	intron (NM_001001321, intron 1 of 11)	1063.0	NM_001001321	70484.0	Mm.133731	NM_001001321	ENSMUSG00000033114	Slc35d2	5730408I21Rik|SQV7L|UGTrel8|hfrc|mUGTrel8	solute carrier family 35, member D2	protein-coding	1.0	0.0	0.0	37.5	6.0	5.5	5.0	6.0
Merged-chr10-127591148-4	chr10	127591048	127591248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 11 of 88)	intron (NM_008512, intron 11 of 88)	30000.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	257.5	405.0	304.5	4351.5	424.0	161.5	246.0	231.5
Merged-chr1-105665211-4	chr1	105665093	105665293	+	911.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173187, intron 1 of 28)	intron (NM_173187, intron 1 of 28)	1332.0	NM_029349	227446.0	Mm.337339	NM_029349	ENSMUSG00000026319	2310035C23Rik	6430401N10|Kiaa1468|Relch|mKIAA1468	RIKEN cDNA 2310035C23 gene	protein-coding	18.5	24.5	17.5	324.5	52.0	16.0	13.0	18.0
Merged-chr5-125107516-4	chr5	125107400	125107600	+	895.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 5 of 46)	intron (NM_011424, intron 5 of 46)	71714.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	18.0	19.5	13.5	218.5	20.0	20.5	16.5	10.0
Merged-chr2-36224781-4	chr2	36224698	36224898	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	-5628.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	9.0	9.0	7.5	133.5	36.5	9.0	17.0	6.0
Merged-chr16-77268982-2	chr16	77268882	77269082	+	951.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60346.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	6.5	5.0	4.5	32.5	3.0	3.5	3.0	3.0
Merged-chr11-40694471-4	chr11	40694358	40694558	+	939.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199274, intron 1 of 6)	intron (NM_001199274, intron 1 of 6)	745.0	NM_001199274	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	13.5	21.5	6.5	344.5	35.5	9.5	16.5	19.0
Merged-chr1-143731123-1	chr1	143731023	143731223	+	578.5	f0_balb.idr	Intergenic	B3A|SINE|B2	-8226.0	NM_001038593	69367.0	Mm.272727	NM_023505	ENSMUSG00000018196	Glrx2	1700010P22Rik|AI645710|Grx2	glutaredoxin 2 (thioltransferase)	protein-coding	7.0	7.5	4.0	94.0	21.5	7.5	6.5	6.5
Merged-chr4-140688479-3	chr4	140688385	140688585	+	676.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12988.0	NM_173867	108911.0	Mm.253	NM_173867	ENSMUSG00000040945	Rcc2	2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470	regulator of chromosome condensation 2	protein-coding	7.5	4.5	8.0	73.5	18.0	5.0	7.5	8.0
Merged-chr10-49075626-4	chr10	49075516	49075716	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	712321.0	NM_001358866	14806.0	Mm.185993	NM_010349	ENSMUSG00000056073	Grik2	AW124492|C130030K03Rik|GluK2|Glur-6|Glur6|Glurbeta2	glutamate receptor, ionotropic, kainate 2 (beta 2)	protein-coding	90.0	140.5	102.5	1854.0	67.0	30.0	32.0	18.0
Merged-chr10-121316020-3	chr10	121315912	121316112	+	737.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 2 of 12)	intron (NM_001361015, intron 2 of 12)	-4616.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	5.0	5.5	7.0	78.5	12.5	12.5	4.5	8.5
Merged-chr15-81097667-2	chr15	81097609	81097809	+	689.75	f0_balb.idr|f1_balb.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	7338.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	10.5	11.5	4.5	103.0	20.0	5.0	3.0	6.5
Merged-chr15-77839061-4	chr15	77838956	77839156	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	3119.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	14.5	41.0	4.5	197.0	54.0	14.5	21.0	17.0
Merged-chr14-25401728-4	chr14	25401612	25401812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57473.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	43.5	176.0	67.5	350.5	87.5	29.0	33.5	10.5
Merged-chr8-106687669-2	chr8	106687576	106687776	+	591.5	f0_balb.idr|f1_balb.idr	intron (NM_173037, intron 1 of 17)	intron (NM_173037, intron 1 of 17)	4608.0	NM_173037	272538.0	Mm.87151	NM_173037	ENSMUSG00000041949	Tango6	AW413431|E330010G16|Tmco7	transport and golgi organization 6	protein-coding	5.5	8.0	4.0	95.0	16.5	7.0	11.0	7.0
Merged-chr10-21601100-4	chr10	21601007	21601207	+	786.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027968, intron 2 of 2)	intron (NR_027968, intron 2 of 2)	7962.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	11.0	15.0	1.0	107.5	21.5	6.0	10.5	22.0
Merged-chr1-134303810-3	chr1	134303716	134303916	+	810.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144855, intron 24 of 28)	intron (NM_001144855, intron 24 of 28)	13812.0	NM_031189	17928.0	Mm.16528	NM_031189	ENSMUSG00000026459	Myog	MYF4|bHLHc3|myo	myogenin	protein-coding	2.0	20.5	10.0	77.5	15.5	8.0	6.0	7.5
Merged-chr14-63382021-4	chr14	63381925	63382125	+	928.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 6 of 12)	intron (NM_007549, intron 6 of 12)	35162.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	17.0	26.0	10.5	193.5	35.0	14.5	22.0	17.5
Merged-chr15-89355699-4	chr15	89355604	89355804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271601)	promoter-TSS (NM_001271601)	-15.0	NR_073376	52683.0	Mm.143167	NM_001115132	ENSMUSG00000008690	Ncaph2	-	non-SMC condensin II complex, subunit H2	protein-coding	103.5	154.5	84.0	1197.5	259.0	109.0	120.0	102.5
Merged-chr5-35757809-4	chr5	35757700	35757900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177696)	promoter-TSS (NM_001177696)	-80.0	NM_001177697	231148.0	Mm.254446	NM_177678	ENSMUSG00000029095	Ablim2	AI606905|C230091L11	actin-binding LIM protein 2	protein-coding	128.5	222.5	112.0	2138.5	331.5	121.0	164.0	138.5
Merged-chr10-27378250-3	chr10	27378158	27378358	+	965.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008481, intron 4 of 63)	intron (NM_008481, intron 4 of 63)	-11608.0	NR_131034	75855.0	Mm.402080	NR_131034	ENSMUSG00000101636	4930579H20Rik	-	RIKEN cDNA 4930579H20 gene	ncRNA	33.5	11.5	33.5	814.5	10.5	2.0	4.0	9.0
Merged-chr16-70104158-3	chr16	70104056	70104256	+	914.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-209793.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	7.0	3.5	4.0	259.5	8.5	4.5	7.0	6.5
Merged-chr17-86301410-4	chr17	86301334	86301534	+	804.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	-14256.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	9.0	11.5	3.0	135.5	17.5	12.5	11.0	9.0
Merged-chr19-3907506-1	chr19	3907406	3907606	+	1000.0	f0_balb.idr	promoter-TSS (NM_001167784)	promoter-TSS (NM_001167784)	-373.0	NM_001136091	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	14.5	15.0	24.5	157.5	10.5	15.5	12.0	15.0
Merged-chr1-80722851-4	chr1	80722759	80722959	+	954.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	35694.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	12.0	26.5	15.5	213.5	41.5	15.5	18.0	18.5
Merged-chr11-117978037-4	chr11	117977962	117978162	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8696.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	12.5	58.0	12.0	65.5	86.5	42.0	21.5	7.5
Merged-chr8-8983316-3	chr8	8983203	8983403	+	619.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	148985.0	NR_045854	71249.0	Mm.158635	NR_045854	ENSMUSG00000108848	4933430N04Rik	-	RIKEN cDNA 4933430N04 gene	ncRNA	5.5	7.0	11.0	105.5	3.0	1.0	2.0	0.5
Merged-chr10-52232748-3	chr10	52232666	52232866	+	912.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347444)	promoter-TSS (NM_001347444)	-853.0	NM_001347444	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	10.0	13.5	20.0	65.0	8.5	1.0	2.5	7.0
Merged-chr11-68458322-4	chr11	68458401	68458601	+	999.392822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	26376.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	21.5	14.0	30.0	67.5	24.5	20.5	8.0	8.5
Merged-chr10-84438208-4	chr10	84438114	84438314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 1 of 6)	intron (NM_001004363, intron 1 of 6)	2257.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	28.0	37.5	23.5	522.5	78.5	30.0	34.0	37.5
Merged-chr9-61054649-4	chr9	61054565	61054765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37596.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	31.5	32.0	44.5	456.5	96.0	24.0	64.5	39.5
Merged-chr4-134838431-3	chr4	134838323	134838523	+	601.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355499, intron 1 of 11)	intron (NM_001355499, intron 1 of 11)	14922.0	NM_001355501	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	7.0	6.5	8.0	119.0	16.5	4.0	3.5	5.5
Merged-chr9-77725732-3	chr9	77725631	77725831	+	935.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-28804.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	13.5	18.5	24.0	131.5	10.5	8.0	5.5	12.0
Merged-chr1-167336602-4	chr1	167336493	167336693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-13398.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	37.5	51.0	39.5	707.5	94.5	23.5	47.0	39.0
Merged-chr7-126595040-4	chr7	126594974	126595174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145636)	promoter-TSS (NM_145636)	-164.0	NM_145636	246779.0	Mm.222632	NM_145636	ENSMUSG00000044701	Il27	IL-27|IL-27p28|Il30|p28	interleukin 27	protein-coding	21.0	33.0	24.0	396.0	73.0	34.0	28.5	21.0
Merged-chr5-75043980-2	chr5	75043868	75044068	+	1000.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_028850, intron 1 of 5)	intron (NM_028850, intron 1 of 5)	673.0	NM_028850	74277.0	Mm.239814	NM_028850	ENSMUSG00000029229	Chic2	1700081B18Rik|4930502K01Rik|BTL	cysteine-rich hydrophobic domain 2	protein-coding	10.0	19.5	11.5	285.5	38.5	11.0	20.5	23.0
Merged-chr8-11115395-4	chr8	11115301	11115501	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106971.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	100.5	106.5	96.0	1266.0	60.5	37.0	41.0	18.5
Merged-chr4-152131661-4	chr4	152131554	152131754	+	823.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207688, intron 3 of 10)	CpG-10714	-2729.0	NM_019585	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	8.5	22.5	10.0	193.5	22.5	14.0	11.5	8.5
Merged-chr9-121919150-4	chr9	121919048	121919248	+	979.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2843.0	NM_010012	13124.0	Mm.20889	NM_010012	ENSMUSG00000050445	Cyp8b1	-	cytochrome P450, family 8, subfamily b, polypeptide 1	protein-coding	15.0	20.0	12.5	168.0	21.5	6.0	23.5	21.5
Merged-chr9-65890246-4	chr9	65890167	65890367	+	987.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026515)	promoter-TSS (NM_026515)	-56.0	NM_026515	68026.0	Mm.351273	NM_026515	ENSMUSG00000040204	Pclaf	2810417H13Rik|AA409629|Ns5apt9|Ns5atp9|PAF15|Paf|mKIAA0101|p15(PAF)	PCNA clamp associated factor	protein-coding	36.0	47.5	27.5	483.5	66.5	24.0	34.0	19.5
Merged-chr1-181540621-4	chr1	181540506	181540706	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29155.0	NM_207280	403180.0	Mm.220754	NM_207280	ENSMUSG00000050625	Ccdc121	6530421E24Rik|Gm755	coiled-coil domain containing 121	protein-coding	19.0	56.5	18.5	855.0	41.5	12.5	37.5	35.0
Merged-chr18-68031076-3	chr18	68030983	68031183	+	832.716675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	MTD|LTR|ERVL-MaLR	97910.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	14.0	15.0	15.5	186.0	8.5	8.5	4.0	15.0
Merged-chr10-125213995-4	chr10	125213883	125214083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94833.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	31.0	27.5	30.5	752.0	78.0	16.5	34.0	33.5
Merged-chr17-67352600-4	chr17	67352489	67352689	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	1870.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	10.5	24.5	18.5	213.0	42.0	27.5	19.0	21.5
Merged-chr3-126655274-4	chr3	126655171	126655371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	58320.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	42.0	65.5	56.5	884.0	108.5	51.0	53.0	40.0
Merged-chr16-62786175-4	chr16	62786093	62786293	+	843.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178925, intron 1 of 5)	Lx8|LINE|L1	523.0	NM_178925	106338.0	Mm.26321	NM_178925	ENSMUSG00000050312	Nsun3	6720484A09Rik|AU022521	NOL1/NOP2/Sun domain family member 3	protein-coding	6.0	9.5	8.5	149.5	10.5	5.5	11.0	18.0
Merged-chr10-84573849-4	chr10	84573749	84573949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3098.0	NM_146008	216198.0	Mm.296142	NM_146008	ENSMUSG00000020034	Tcp11l2	E430026E19Rik	t-complex 11 (mouse) like 2	protein-coding	46.5	63.0	34.5	953.0	83.0	37.0	67.5	33.5
Merged-chr11-117139334-4	chr11	117139274	117139474	+	745.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166507, intron 2 of 16)	intron (NM_001166507, intron 2 of 16)	24202.0	NM_001166506	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	8.5	5.0	8.5	149.5	8.0	6.5	6.0	9.0
Merged-chr11-102156346-4	chr11	102156235	102156435	+	982.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029649)	promoter-TSS (NM_029649)	72.0	NM_029649	76547.0	Mm.46529	NM_029649	ENSMUSG00000020921	Tmem101	2610511E22Rik	transmembrane protein 101	protein-coding	19.5	27.5	12.0	175.5	60.0	19.0	21.0	27.5
Merged-chr18-60727612-4	chr18	60727504	60727704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348103)	promoter-TSS (NM_001348103)	-38.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	27.5	32.5	19.5	329.5	64.5	9.5	38.5	26.5
Merged-chr14-63131886-4	chr14	63131792	63131992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	9430.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	44.5	57.5	35.0	605.0	121.5	46.0	37.5	29.5
Merged-chr13-112395157-4	chr13	112395050	112395250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68920.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	90.5	124.0	109.5	1346.5	181.5	51.5	85.5	64.5
Merged-chr11-23768056-4	chr11	23767962	23768162	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 1 of 9)	intron (NM_009044, intron 1 of 9)	2908.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	22.5	23.5	19.0	352.5	46.0	18.5	21.0	21.5
Merged-chr14-106669513-4	chr14	106669413	106669613	+	964.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-182993.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	25.0	26.0	30.5	649.5	43.5	15.5	20.0	14.0
Merged-chr10-80033339-4	chr10	80033230	80033430	+	961.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	6329.0	NM_025554	66420.0	Mm.18579	NM_025554	ENSMUSG00000004667	Polr2e	2410021N14Rik|25kDa|AW208866|RPB5|XAP4	polymerase (RNA) II (DNA directed) polypeptide E	protein-coding	61.0	77.5	59.5	1023.0	103.5	25.0	15.0	28.5
Merged-chr10-94569126-4	chr10	94568994	94569194	+	865.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359760, intron 1 of 3)	intron (NM_001359760, intron 1 of 3)	-6163.0	NM_001168684	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	11.0	21.5	4.5	115.5	19.5	5.5	8.0	11.0
Merged-chr5-8346549-4	chr5	8346440	8346640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	intron (NM_001007220, intron 2 of 28)	21620.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	75.0	70.0	58.0	1041.5	179.0	62.0	56.0	55.5
Merged-chr11-48901543-2	chr11	48901443	48901643	+	741.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001024230, intron 2 of 4)	intron (NM_001024230, intron 2 of 4)	609.0	NM_001024230	432555.0	Mm.338931	NM_001024230	ENSMUSG00000058163	Gm5431	EG432555|Irgb9b8	predicted gene 5431	protein-coding	5.0	4.5	10.5	45.0	14.0	1.5	7.5	14.0
Merged-chr2-129504479-3	chr2	129504373	129504573	+	997.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	RLTR18-int|LTR|ERVK	32129.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	10.0	28.5	7.0	45.5	44.5	17.5	3.0	9.5
Merged-chr8-77518076-4	chr8	77517999	77518199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030113)	promoter-TSS (NM_030113)	-192.0	NM_030113	78514.0	Mm.165974	NM_030113	ENSMUSG00000037148	Arhgap10	A930033B01Rik|PSGAP-m|PSGAP-s	Rho GTPase activating protein 10	protein-coding	60.5	56.0	41.5	1103.0	136.0	41.5	56.5	50.5
Merged-chr5-129940950-4	chr5	129940846	129941046	+	979.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_B_Mam|LINE|RTE-X	-1163.0	NM_001001327	69568.0	Mm.288718	NM_027121	ENSMUSG00000066735	Vkorc1l1	2310024K08Rik	vitamin K epoxide reductase complex, subunit 1-like 1	protein-coding	20.5	32.0	23.0	351.5	54.0	27.0	14.5	19.5
Merged-chr2-129596523-3	chr2	129596426	129596626	+	966.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	1064.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	25.5	28.5	34.0	116.0	54.0	40.5	24.5	26.5
Merged-chr5-105586903-4	chr5	105586808	105587008	+	959.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 3 of 3)	intron (NM_133897, intron 3 of 3)	67437.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	14.0	7.0	25.5	315.5	28.5	12.5	19.0	17.0
Merged-chr6-83005700-3	chr6	83005568	83005768	+	845.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033079, exon 6 of 10)	exon (NM_033079, exon 6 of 10)	27803.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	9.5	17.0	9.0	159.5	11.5	1.5	12.0	7.0
Merged-chr10-91171669-4	chr10	91171549	91171749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011605)	promoter-TSS (NM_011605)	-30.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	174.5	208.5	123.0	2618.5	386.0	144.5	208.0	184.0
Merged-chr1-171281793-4	chr1	171281695	171281895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008911)	promoter-TSS (NM_008911)	-609.0	NM_008911	19044.0	Mm.266888	NM_008911	ENSMUSG00000062729	Ppox	Ppo	protoporphyrinogen oxidase	protein-coding	25.5	30.0	30.5	312.5	74.5	30.5	35.5	34.5
Merged-chr5-148400334-4	chr5	148400246	148400446	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007513)	promoter-TSS (NM_007513)	-442.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	9.5	16.5	16.5	193.0	48.5	10.5	20.5	37.5
Merged-chr19-3586803-3	chr19	3586707	3586907	+	781.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008513, intron 21 of 22)	intron (NM_008513, intron 21 of 22)	-11058.0	NM_028999	52036.0	Mm.284686	NM_028999	ENSMUSG00000024908	Ppp6r3	4930528G08Rik|9130026N02Rik|D19Bwg1430e|D19Ertd703e|Pp6r3|Ppcs3|Pptcs3|Sapl|Saps3|mKIAA1558	protein phosphatase 6, regulatory subunit 3	protein-coding	12.0	6.5	5.5	83.0	6.5	3.5	4.0	5.5
Merged-chr12-26311719-1	chr12	26311619	26311819	+	634.666687	f0_balb.idr	intron (NM_080563, intron 8 of 8)	intron (NM_080563, intron 8 of 8)	-34991.0	NR_130981	75243.0	Mm.444753	NR_130981	ENSMUSG00000114048	4930549C15Rik	-	RIKEN cDNA 4930549C15 gene	ncRNA	8.0	8.0	6.5	100.0	10.0	6.5	8.0	5.5
Merged-chr10-79988653-2	chr10	79988553	79988753	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007725)	promoter-TSS (NM_007725)	53.0	NM_007725	12798.0	Mm.157770	NM_007725	ENSMUSG00000004665	Cnn2	AA408047|AI324678|Calpo2	calponin 2	protein-coding	2.0	6.5	5.0	98.5	16.5	9.5	8.5	10.5
Merged-chr11-72466473-4	chr11	72466374	72466574	+	890.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153060, intron 2 of 12)	intron (NM_153060, intron 2 of 12)	8553.0	NM_001276383	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	9.5	35.5	6.5	172.0	25.5	13.0	20.0	9.5
Merged-chr5-136962155-4	chr5	136962063	136962263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025562)	promoter-TSS (NM_025562)	86.0	NM_025562	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	58.0	70.0	70.0	602.5	74.5	41.0	43.5	45.0
Merged-chr14-103051588-4	chr14	103051482	103051682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008392, intron 4 of 4)	intron (NM_008392, intron 4 of 4)	4570.0	NM_008392	16365.0	Mm.4662	NM_008392	ENSMUSG00000022126	Acod1	AI323667|CAD|Irg1	aconitate decarboxylase 1	protein-coding	42.5	58.0	22.5	811.5	120.0	47.5	79.0	63.5
Merged-chr4-63403323-4	chr4	63403215	63403415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001045514, exon 1 of 22)	5' UTR (NM_001045514, exon 1 of 22)	130.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	44.0	99.0	57.0	443.5	90.0	47.5	42.0	38.0
Merged-chr18-35771444-4	chr18	35771343	35771543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019912)	promoter-TSS (NM_019912)	-116.0	NM_019912	56550.0	Mm.180052	NM_019912	ENSMUSG00000091896	Ube2d2a	1500034D03Rik|Ubc2e|Ube2d2|ubc4	ubiquitin-conjugating enzyme E2D 2A	protein-coding	112.5	166.0	95.0	1163.5	292.0	114.0	121.5	117.0
Merged-chr1-132011010-5	chr1	132010873	132011073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007923, intron 1 of 4)	L1MB8|LINE|L1	3368.0	NM_007923	13714.0	Mm.254233	NM_007923	ENSMUSG00000026436	Elk4	2310011G17Rik|A130026I01Rik|BB162516|SAP-1|Sap1	ELK4, member of ETS oncogene family	protein-coding	35.0	27.5	9.5	409.0	38.0	12.0	6.5	16.5
Merged-chr5-86942919-4	chr5	86942817	86943017	+	917.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3C|LINE|L1	-16414.0	NM_152811	71773.0	Mm.26741	NM_152811	ENSMUSG00000035836	Ugt2b1	1300012D20Rik	UDP glucuronosyltransferase 2 family, polypeptide B1	protein-coding	14.0	14.0	26.5	278.5	39.5	9.5	13.0	16.0
Merged-chr16-24973216-4	chr16	24973139	24973339	+	865.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 11 of 12)	intron (NM_178665, intron 11 of 12)	-86400.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	11.5	7.5	14.0	299.0	19.0	7.5	5.5	8.0
Merged-chr1-20939239-4	chr1	20939150	20939350	+	858.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028829, exon 3 of 3)	3' UTR (NM_028829, exon 3 of 3)	-12376.0	NM_027974	71877.0	Mm.29178	NM_027974	ENSMUSG00000041809	Efhc1	1700029F22Rik|mRib72-1|myoclonin1	EF-hand domain (C-terminal) containing 1	protein-coding	17.5	39.5	12.0	261.0	32.5	9.0	11.0	17.5
Merged-chr13-113352755-3	chr13	113352655	113352855	+	829.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143096.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	5.0	8.0	9.5	134.5	16.5	14.0	9.5	6.5
Merged-chr17-5610143-3	chr17	5610030	5610230	+	672.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	ORR1D2|LTR|ERVL-MaLR	117530.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	11.5	13.5	4.5	108.0	8.0	2.5	6.0	2.0
Merged-chr3-103859093-4	chr3	103858964	103859164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104070)	promoter-TSS (NR_104070)	-731.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	24.0	38.5	26.0	394.0	75.0	35.0	15.5	31.5
Merged-chr14-87416536-4	chr14	87416432	87416632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172605)	promoter-TSS (NM_172605)	-51.0	NM_172605	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	82.5	131.0	116.0	1442.0	251.0	70.0	141.0	102.5
Merged-chr11-120632726-4	chr11	120632681	120632881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010756, intron 1 of 2)	CpG	766.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	46.5	111.5	48.5	438.0	99.0	51.0	50.5	46.5
Merged-chr17-35870843-4	chr17	35870734	35870934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146710, intron 2 of 3)	intron (NM_001146710, intron 2 of 3)	4219.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	24.0	31.0	18.0	231.0	60.5	20.0	27.0	37.0
Merged-chr11-106487890-4	chr11	106487778	106487978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023913)	promoter-TSS (NM_023913)	-82.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	162.5	195.0	94.5	1747.0	354.5	118.5	169.0	138.5
Merged-chr9-55511818-2	chr9	55511731	55511931	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_145615, intron 1 of 11)	CpG	412.0	NM_145615	110842.0	Mm.290853	NM_145615	ENSMUSG00000032314	Etfa	2010200I21Rik|D9Ertd394e	electron transferring flavoprotein, alpha polypeptide	protein-coding	31.5	58.5	41.0	522.0	72.5	27.5	35.0	46.0
Merged-chr17-56443463-4	chr17	56443403	56443603	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252455, intron 6 of 27)	intron (NM_001252455, intron 6 of 27)	18718.0	NM_001252456	19280.0	Mm.258771	NM_011218	ENSMUSG00000013236	Ptprs	AL022616|PTP|PTP-NU3|PTPNU-3|PTPsigma|Ptpt9|R-PTP-S|RPTPsigma	protein tyrosine phosphatase, receptor type, S	protein-coding	22.5	32.0	34.0	187.5	20.0	12.5	15.0	19.0
Merged-chr2-160018553-4	chr2	160018456	160018656	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040499, intron 1 of 3)	intron (NR_040499, intron 1 of 3)	1903.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	19.5	37.5	21.5	172.5	73.5	15.5	17.0	16.5
Merged-chr19-34583045-2	chr19	34582945	34583145	+	817.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010501)	promoter-TSS (NM_010501)	-484.0	NM_010501	15959.0	Mm.426079	NM_010501	ENSMUSG00000074896	Ifit3	Ifi49|P49	interferon-induced protein with tetratricopeptide repeats 3	protein-coding	9.5	7.0	4.5	44.5	17.0	10.0	10.0	3.5
Merged-chr19-6987687-4	chr19	6987627	6987827	+	963.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001185164)	promoter-TSS (NM_001185164)	-76.0	NM_011697	22340.0	Mm.15607	NM_011697	ENSMUSG00000024962	Vegfb	VEGF-B|Vrf	vascular endothelial growth factor B	protein-coding	16.5	16.0	12.5	292.5	32.0	14.0	18.0	16.5
Merged-chr2-45081620-4	chr2	45081521	45081721	+	912.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355291, intron 2 of 9)	intron (NM_001355291, intron 2 of 9)	28656.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	17.0	25.0	11.5	240.0	29.0	10.5	8.0	13.5
Merged-chr3-32617002-2	chr3	32616902	32617102	+	625.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013531)	promoter-TSS (NM_013531)	-412.0	NM_013531	14696.0	Mm.139192	NM_013531	ENSMUSG00000027669	Gnb4	6720453A21Rik|G(beta)4	guanine nucleotide binding protein (G protein), beta 4	protein-coding	5.0	4.5	5.0	31.0	9.5	5.5	5.0	3.0
Merged-chr3-100994452-4	chr3	100994355	100994555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 8 of 8)	intron (NM_001167906, intron 8 of 8)	-24792.0	NM_001013026	74044.0	Mm.270961	NM_001013026	ENSMUSG00000033222	Ttf2	4632434F22Rik|8030447N19|AV218430	transcription termination factor, RNA polymerase II	protein-coding	46.5	59.0	32.5	932.5	101.5	44.0	56.0	42.0
Merged-chr7-144915076-4	chr7	144914923	144915123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347537)	promoter-TSS (NM_001347537)	-77.0	NM_001357868	72284.0	Mm.273049	NM_028184	ENSMUSG00000031072	Oraov1	2210010N10Rik|TAOS1	oral cancer overexpressed 1	protein-coding	121.0	159.0	107.5	1784.0	204.5	81.5	100.5	112.5
Merged-chr12-111470617-4	chr12	111470512	111470712	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15211.0	NM_001033248	212539.0	Mm.81916	NM_001033248	ENSMUSG00000010529	Gm266	-	predicted gene 266	protein-coding	24.0	54.5	27.5	327.5	64.0	14.0	22.5	26.0
Merged-chr13-64426409-2	chr13	64426327	64426527	+	713.916687	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-6126.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	7.0	7.0	9.0	17.0	6.0	3.0	5.5	10.5
Merged-chr10-88503630-2	chr10	88503530	88503730	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001146690, exon 1 of 9)	exon (NM_001146690, exon 1 of 9)	340.0	NR_027477	212862.0	Mm.288897	NM_144807	ENSMUSG00000060002	Chpt1	-	choline phosphotransferase 1	protein-coding	6.0	23.5	22.0	225.5	27.0	10.0	21.5	20.5
Merged-chr11-3197794-8	chr11	3197694	3197894	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4331.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	7.5	14.0	22.5	99.5	38.0	16.0	17.0	35.5
Merged-chr4-89354044-4	chr4	89353929	89354129	+	992.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 2 of 9)	intron (NR_132431, intron 2 of 9)	-42997.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	8.0	6.5	13.0	96.5	12.0	6.0	4.0	1.0
Merged-chr10-43668120-4	chr10	43668026	43668226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74699.0	NR_033558	414125.0	Mm.244305	NR_033558	ENSMUSG00000075184	F830002L21Rik	F930017D23Rik	RIKEN cDNA F830002L21 gene	ncRNA	109.5	144.0	109.0	2132.0	250.0	95.5	130.0	116.0
Merged-chr3-27202079-4	chr3	27201950	27202150	+	979.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	19046.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	12.5	9.0	19.5	241.5	26.0	12.0	9.5	23.5
Merged-chr11-34773745-4	chr11	34773560	34773760	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	10245.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	19.5	14.0	12.0	294.5	36.5	7.0	16.0	25.0
Merged-chr15-6386705-4	chr15	6386603	6386803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023118)	promoter-TSS (NM_023118)	-45.0	NM_023118	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	86.0	117.5	104.5	1228.0	146.0	70.5	68.0	54.0
Merged-chr4-59354615-3	chr4	59354509	59354709	+	837.633362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 10 of 16)	MLT1D|LTR|ERVL-MaLR	84024.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	5.0	5.0	7.5	93.5	5.0	3.5	1.5	6.0
Merged-chr2-91527088-2	chr2	91526988	91527188	+	711.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001165989, intron 1 of 43)	CpG	326.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	6.0	20.0	9.5	147.0	35.0	16.5	11.0	29.0
Merged-chr2-153291382-4	chr2	153291283	153291483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008444)	promoter-TSS (NM_008444)	-33.0	NM_008444	16569.0	Mm.315560	NM_008444	ENSMUSG00000027475	Kif3b	AI854312|AW549267|mKIAA0359	kinesin family member 3B	protein-coding	66.5	75.0	35.5	543.0	179.5	74.5	43.0	51.0
Merged-chr13-102094332-4	chr13	102094270	102094470	+	867.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-326153.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	9.5	16.0	7.5	207.0	30.5	13.0	13.5	15.5
Merged-chr17-70989678-4	chr17	70989583	70989783	+	967.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	intron (NM_023402, intron 1 of 3)	833.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	18.0	13.5	16.5	240.5	62.5	26.0	19.5	11.5
Merged-chr2-34360199-4	chr2	34360134	34360334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290576, intron 2 of 7)	intron (NM_001290576, intron 2 of 7)	11811.0	NM_001290576	18516.0	Mm.239941	NM_016768	ENSMUSG00000038718	Pbx3	-	pre B cell leukemia homeobox 3	protein-coding	51.0	32.0	27.5	562.5	93.0	21.5	29.5	27.0
Merged-chr4-33253314-4	chr4	33253209	33253409	+	821.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4522.0	NM_001033225	108767.0	Mm.27769	NM_001033225	ENSMUSG00000040128	Pnrc1	5730463C12Rik|B4-2|PRR2|Prol2	proline-rich nuclear receptor coactivator 1	protein-coding	4.0	14.5	3.0	79.0	29.0	9.0	14.0	9.0
Merged-chr17-63400862-3	chr17	63400778	63400978	+	712.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	Lx7|LINE|L1	-87905.0	NR_130176	414079.0	Mm.444282	NR_130176	ENSMUSG00000090565	4930405O22Rik	-	RIKEN cDNA 4930405O22 gene	ncRNA	0.0	6.0	4.0	37.0	29.0	5.0	12.5	9.0
Merged-chr9-26783631-3	chr9	26783526	26783726	+	963.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153803, intron 6 of 19)	Lx8|LINE|L1	22842.0	NM_001310768	244757.0	Mm.293696	NM_153803	ENSMUSG00000036395	Glb1l2	-	galactosidase, beta 1-like 2	protein-coding	21.5	10.0	18.5	283.5	13.5	9.5	22.0	7.5
Merged-chr2-112433563-4	chr2	112433463	112433663	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21462.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	22.5	28.0	30.0	445.0	53.0	25.0	20.0	23.5
Merged-chr8-77272858-4	chr8	77272760	77272960	+	831.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 20 of 22)	intron (NM_030113, intron 20 of 22)	-244196.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	6.0	9.0	20.5	208.5	7.0	7.5	12.5	15.0
Merged-chr1-172370235-3	chr1	172370174	172370374	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001039484, exon 2 of 2)	3' UTR (NM_001039484, exon 2 of 2)	-6257.0	NM_026234	67556.0	Mm.26612	NM_026234	ENSMUSG00000050229	Pigm	4933437L05Rik|AI644422|AV302080|C920011G20Rik	phosphatidylinositol glycan anchor biosynthesis, class M	protein-coding	23.0	32.0	29.0	337.5	13.0	5.0	2.0	7.0
Merged-chr13-113378476-4	chr13	113378402	113378602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124342.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	52.0	48.0	49.5	577.5	110.0	27.5	53.5	42.0
Merged-chr8-122333321-3	chr8	122333219	122333419	+	790.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009569, intron 5 of 9)	intron (NM_009569, intron 5 of 9)	29509.0	NM_133202	170732.0	Mm.154808	NM_133202	ENSMUSG00000039079	Trhr2	TRH-R2	thyrotropin releasing hormone receptor 2	protein-coding	9.5	14.5	4.0	90.0	17.5	8.0	8.0	9.0
Merged-chr17-70707154-4	chr17	70707057	70707257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360665, intron 9 of 14)	intron (NM_001360665, intron 9 of 14)	139620.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	38.5	44.5	21.0	422.0	52.0	28.5	24.5	32.5
Merged-chr6-122922649-2	chr6	122922549	122922749	+	772.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_199311, intron 1 of 5)	intron (NM_199311, intron 1 of 5)	801.0	NM_199311	269799.0	Mm.297275	NM_199311	ENSMUSG00000049037	Clec4a1	BC049354|Dcir4	C-type lectin domain family 4, member a1	protein-coding	9.5	13.0	7.0	68.0	3.5	3.5	6.5	10.5
Merged-chr5-34535181-4	chr5	34535147	34535347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	-8118.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	68.5	124.0	70.5	727.5	134.5	62.5	54.0	52.5
Merged-chr7-80928570-4	chr7	80928470	80928670	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019951, intron 2 of 5)	intron (NM_019951, intron 2 of 5)	18980.0	NM_019951	56529.0	Mm.43760	NM_019951	ENSMUSG00000025724	Sec11a	1810012E07Rik|18kDa|Sec11l1|Sid2895p|Spc18|sid2895	SEC11 homolog A, signal peptidase complex subunit	protein-coding	4.5	10.0	12.5	250.5	24.5	6.0	12.5	16.0
Merged-chr11-59633218-3	chr11	59633132	59633332	+	921.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	20266.0	NM_001011740	257886.0	Mm.457883	NM_001011740	ENSMUSG00000044061	Olfr225	MOR256-51	olfactory receptor 225	protein-coding	6.0	8.0	3.5	80.0	28.5	7.5	14.0	13.5
Merged-chr4-83274371-4	chr4	83274276	83274476	+	920.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 2 of 19)	intron (NM_027238, intron 2 of 19)	49813.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	18.5	10.0	26.0	230.5	34.0	14.5	15.0	12.0
Merged-chr5-130253418-4	chr5	130253322	130253522	+	906.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023248, intron 2 of 4)	intron (NM_023248, intron 2 of 4)	2108.0	NM_023248	66711.0	Mm.280484	NM_023248	ENSMUSG00000025337	Sbds	4733401P19Rik|AI836084|CGI-97|SDS	SBDS ribosome maturation factor	protein-coding	9.5	29.0	19.0	74.0	47.0	15.0	21.0	2.5
Merged-chr4-40233478-3	chr4	40233374	40233574	+	716.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172689, intron 2 of 17)	BGLII|LTR|ERVK	6351.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	22.0	16.0	6.0	107.5	16.5	8.5	4.5	8.5
Merged-chr15-58976644-4	chr15	58976540	58976740	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	42830.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	24.5	36.5	16.0	341.5	21.0	9.0	17.5	10.0
Merged-chr8-46732759-4	chr8	46732631	46732831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045750, intron 2 of 2)	intron (NR_045750, intron 2 of 2)	6784.0	NR_045750	100503498.0	Mm.187358	NR_045750	ENSMUSG00000097534	Gm16675	-	predicted gene, 16675	ncRNA	39.5	76.5	36.0	597.0	98.5	27.0	39.0	43.5
Merged-chr13-9152478-4	chr13	9152386	9152586	+	833.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 11 of 17)	intron (NM_172585, intron 11 of 17)	58605.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	12.5	14.0	10.0	242.5	42.5	4.5	13.5	9.5
Merged-chr16-90187672-4	chr16	90187569	90187769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33073.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	53.0	76.0	72.0	636.0	144.0	51.0	59.0	37.0
Merged-chr7-43782702-4	chr7	43782624	43782824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133712, intron 2 of 5)	intron (NM_133712, intron 2 of 5)	1670.0	NM_133712	69540.0	Mm.46421	NM_133712	ENSMUSG00000030693	Klk10	2300002A13Rik|NES1|PRSSL1	kallikrein related-peptidase 10	protein-coding	39.5	53.5	39.0	564.0	65.0	29.5	51.0	32.5
Merged-chr15-12230371-4	chr15	12230280	12230480	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 2 of 15)	intron (NM_001356498, intron 2 of 15)	25352.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	13.0	46.0	18.0	301.5	46.0	16.0	21.0	35.0
Merged-chr16-33530768-3	chr16	33530671	33530871	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083902, intron 1 of 11)	intron (NM_001083902, intron 1 of 11)	12176.0	NM_001083902	171286.0	Mm.35253	NM_134251	ENSMUSG00000035506	Slc12a8	CCC9|E330020C02Rik	solute carrier family 12 (potassium/chloride transporters), member 8	protein-coding	6.5	6.5	23.0	318.0	5.5	5.5	4.5	2.0
Merged-chr15-8722629-4	chr15	8722532	8722732	+	846.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11825.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	8.0	5.0	11.0	183.0	23.5	3.0	17.0	12.0
Merged-chr10-127626653-4	chr10	127626615	127626815	+	721.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-5567.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	9.5	24.0	14.0	102.5	20.0	12.0	7.5	5.0
Merged-chr13-64152440-4	chr13	64152347	64152547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361047)	promoter-TSS (NM_001361047)	-74.0	NM_001361047	238673.0	Mm.300065	NM_175494	ENSMUSG00000044934	Zfp367	8030486J21Rik|ZFF29a|ZFF29b|Znf367	zinc finger protein 367	protein-coding	69.5	98.0	68.0	958.0	211.5	98.5	83.0	86.0
Merged-chr10-98608633-4	chr10	98608533	98608733	+	978.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-256766.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	14.5	47.5	18.5	493.5	127.5	23.5	40.5	61.0
Merged-chr9-42264343-4	chr9	42264224	42264424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172769)	promoter-TSS (NM_172769)	-24.0	NM_172769	235293.0	Mm.32700	NM_172769	ENSMUSG00000032018	Sc5d	A830037K02|A830073K23Rik|Sc5dl	sterol-C5-desaturase	protein-coding	149.5	254.5	128.5	2252.0	447.5	129.0	177.0	126.0
Merged-chr1-180890730-3	chr1	180890620	180890820	+	817.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2388.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	5.0	17.0	13.0	167.0	21.5	2.5	10.0	2.5
Merged-chr10-23787806-2	chr10	23787706	23787906	+	805.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011295)	promoter-TSS (NM_011295)	-597.0	NM_011295	20042.0	Mm.371846	NM_011295	ENSMUSG00000061983	Rps12	-	ribosomal protein S12	protein-coding	5.0	4.5	12.5	77.5	6.5	3.0	5.5	11.5
Merged-chr11-117066886-3	chr11	117066794	117066994	+	928.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9889.0	NR_027059	76972.0	Mm.309167	NR_027059	ENSMUSG00000086859	Snhg20	2810008D09Rik	small nucleolar RNA host gene 20	ncRNA	10.5	24.0	10.0	119.5	19.5	5.0	3.0	10.0
Merged-chr14-120367112-1	chr14	120367012	120367212	+	672.0	f0_balb.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	60660.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	8.5	6.0	7.0	95.5	4.0	1.0	0.0	2.5
Merged-chr13-97187886-4	chr13	97187804	97188004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010422, intron 5 of 13)	intron (NM_010422, intron 5 of 13)	10453.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	212.5	314.0	317.5	3515.0	415.5	178.5	213.0	179.0
Merged-chr6-125231289-3	chr6	125231196	125231396	+	831.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015604)	promoter-TSS (NR_015604)	20.0	NR_015604	78668.0	Mm.10626	NR_015604	ENSMUSG00000030337	E130112N10Rik	5830448L21Rik|9530059J11Rik	RIKEN cDNA E130112N10 gene	ncRNA	5.5	15.5	8.0	72.0	23.0	9.5	11.0	6.5
Merged-chr11-54758177-4	chr11	54758084	54758284	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 1 of 5)	MER57C2|LTR|ERV1	29519.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	14.5	23.0	20.5	199.5	40.5	24.0	17.5	21.5
Merged-chr4-43875596-4	chr4	43875488	43875688	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016678)	promoter-TSS (NM_016678)	58.0	NM_016678	53614.0	Mm.331573	NM_016678	ENSMUSG00000028476	Reck	St15|mRECK	reversion-inducing-cysteine-rich protein with kazal motifs	protein-coding	25.0	25.0	42.0	296.5	21.5	12.0	11.5	24.0
Merged-chr18-69588620-4	chr18	69588521	69588721	+	775.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	242461.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	7.0	14.5	3.0	171.5	22.0	9.0	13.5	10.0
Merged-chr2-165858954-4	chr2	165858828	165859028	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252585)	promoter-TSS (NM_001252585)	-755.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	11.5	26.0	20.5	242.0	41.0	8.5	14.0	25.5
Merged-chr8-82863873-4	chr8	82863763	82863963	+	998.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177378, exon 1 of 7)	5' UTR (NM_177378, exon 1 of 7)	507.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	12.5	20.0	22.5	154.5	13.5	12.5	13.0	7.5
Merged-chr1-186749880-2	chr1	186749780	186749980	+	577.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026041)	promoter-TSS (NM_026041)	-522.0	NM_026041	67223.0	Mm.289841	NM_026041	ENSMUSG00000001305	Rrp15	2810430M08Rik|5430437H21Rik	ribosomal RNA processing 15 homolog (S. cerevisiae)	protein-coding	5.5	1.5	8.0	29.5	5.0	5.0	5.5	10.5
Merged-chr6-87530400-4	chr6	87530370	87530570	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	2789.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	5.5	5.0	14.0	90.0	17.0	2.5	4.5	9.0
Merged-chr9-92458579-3	chr9	92458464	92458664	+	754.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178711, intron 1 of 8)	intron (NM_178711, intron 1 of 8)	1186.0	NM_178711	235527.0	Mm.55289	NM_178711	ENSMUSG00000032377	Plscr4	AV245873	phospholipid scramblase 4	protein-coding	9.0	7.0	11.5	113.0	0.5	0.5	0.5	6.0
Merged-chr3-127803019-2	chr3	127802917	127803117	+	747.416626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	12360.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	13.0	16.5	20.5	198.0	12.0	4.5	2.5	5.5
Merged-chr19-53477463-2	chr19	53477363	53477563	+	647.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12667.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	10.5	12.0	9.5	80.0	9.5	0.0	0.0	0.0
Merged-chr6-8546454-3	chr6	8546356	8546556	+	793.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286729, intron 2 of 7)	intron (NM_001286729, intron 2 of 7)	26398.0	NM_001286729	170772.0	Mm.210787	NM_133236	ENSMUSG00000029638	Glcci1	2310047L21Rik|A130036A18Rik|Fam117c|Gig18|Tssn1	glucocorticoid induced transcript 1	protein-coding	9.0	13.0	15.5	265.5	18.5	3.5	11.0	9.0
Merged-chr3-95950875-2	chr3	95950787	95950987	+	1000.0	f0_balb.idr|f0_c57.idr	Intergenic	CpG	21630.0	NM_023210	66471.0	Mm.218657	NM_023210	ENSMUSG00000015749	Anp32e	2810018A15Rik|AI047746|AI326868|CPD1|LANP-L|LANPL|mLANP-L	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	protein-coding	27.0	46.5	28.5	327.5	65.0	32.0	20.5	38.0
Merged-chr2-129196451-4	chr2	129196335	129196535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2338.0	NM_015747	20515.0	Mm.272675	NM_015747	ENSMUSG00000027397	Slc20a1	AI607883|Glvr-1|Glvr1	solute carrier family 20, member 1	protein-coding	87.0	144.0	114.5	895.5	219.5	83.0	70.0	83.0
Merged-chr1-13513975-4	chr1	13513874	13514074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS-int|LTR|ERV1	75936.0	NM_028173	72265.0	Mm.28765	NM_028173	ENSMUSG00000025935	Tram1	1810049E02Rik|TRAMP	translocating chain-associating membrane protein 1	protein-coding	50.0	63.5	69.5	977.5	83.5	27.5	65.0	51.0
Merged-chr15-58019775-4	chr15	58019682	58019882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14512.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	103.5	108.5	94.5	1233.0	251.5	80.0	93.0	73.5
Merged-chr10-94992277-4	chr10	94992110	94992310	+	802.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47632.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	1.0	3.5	3.0	43.5	16.0	11.0	4.5	7.0
Merged-chr9-60826899-3	chr9	60826801	60827001	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357408, intron 1 of 19)	intron (NM_001357408, intron 1 of 19)	32459.0	NM_001357407	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	11.0	14.0	5.5	98.0	2.5	0.5	1.5	0.5
Merged-chr12-35117717-4	chr12	35117607	35117807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 17 of 25)	intron (NM_001014973, intron 17 of 25)	70518.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	36.0	28.5	33.5	763.5	84.0	20.0	29.0	39.0
Merged-chr14-19972616-4	chr14	19972533	19972733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285908, intron 1 of 3)	GA-rich|Low_complexity|Low_complexity	4060.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	29.5	33.0	40.0	686.0	86.0	29.0	21.0	32.5
Merged-chr13-107449911-3	chr13	107449798	107449998	+	904.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19924.0	NR_045083	105120.0	Mm.417700	NR_045083	ENSMUSG00000114780	AI197445	-	expressed sequence AI197445	ncRNA	11.0	16.0	9.5	103.0	22.5	8.0	6.5	0.5
Merged-chr1-128004595-4	chr1	128004488	128004688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285945, intron 8 of 20)	B4A|SINE|B4	97883.0	NM_027678	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	51.5	86.5	46.0	908.0	141.0	40.5	70.0	50.5
Merged-chr10-59223311-2	chr10	59223211	59223411	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_172939, exon 1 of 1)	exon (NM_172939, exon 1 of 1)	1389.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	4.0	22.5	11.5	76.0	33.5	19.0	9.5	9.0
Merged-chr19-5094459-4	chr19	5094445	5094645	+	931.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009920, intron 2 of 5)	intron (NM_009920, intron 2 of 5)	3976.0	NM_001302333	12794.0	Mm.299737	NM_009920	ENSMUSG00000024873	Cnih2	CNIH-2|Cnil	cornichon family AMPA receptor auxiliary protein 2	protein-coding	14.0	6.5	3.5	100.5	26.5	18.0	11.5	6.0
Merged-chr15-57924261-4	chr15	57924170	57924370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356310, intron 3 of 19)	L1M2|LINE|L1	12071.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	50.5	62.0	65.5	1269.5	115.0	34.0	90.0	94.0
Merged-chr2-43673798-4	chr2	43673700	43673900	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289593, intron 12 of 12)	intron (NM_001289593, intron 12 of 12)	-75024.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	17.0	33.5	9.5	205.0	68.5	17.0	34.5	15.0
Merged-chr9-94696856-4	chr9	94696761	94696961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 2 of 15)	intron (NM_177909, intron 2 of 15)	26969.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	157.5	218.0	201.5	3311.0	420.0	142.5	189.5	176.5
Merged-chr15-73512560-4	chr15	73512445	73512645	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081066)	promoter-TSS (NM_001081066)	-15.0	NR_152151	105841.0	Mm.322557	NM_001081066	ENSMUSG00000036661	Dennd3	AI447457|E030003N15Rik	DENN/MADD domain containing 3	protein-coding	22.0	23.5	9.0	228.0	34.0	13.0	16.5	17.0
Merged-chr14-122830646-2	chr14	122830546	122830746	+	769.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 22 of 24)	MTA_Mm|LTR|ERVL-MaLR	-82384.0	NR_155287	105245866.0	Mm.390754	NM_001039531	ENSMUSG00000075463	Gm15735	4930594M22Rik|F930011C10Rik	predicted gene 15735	ncRNA	3.0	6.0	2.5	53.5	19.0	5.0	8.5	8.5
Merged-chr2-21117344-3	chr2	21117240	21117440	+	656.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88025.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	7.0	4.5	8.5	114.0	2.0	2.0	5.0	6.0
Merged-chr1-46066867-4	chr1	46066719	46066919	+	697.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160386)	promoter-TSS (NM_001160386)	81.0	NM_001160386	227058.0	Mm.296880	NM_001160386	ENSMUSG00000041144	Dnah7b	Dnahc7b|Gm107	dynein, axonemal, heavy chain 7B	protein-coding	7.0	12.5	4.0	111.0	32.5	4.5	10.5	16.5
Merged-chr5-67827132-4	chr5	67827043	67827243	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	L3|LINE|CR1	20288.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	13.5	21.5	10.5	283.5	75.0	24.5	17.5	25.5
Merged-chr11-109424601-4	chr11	109424484	109424684	+	658.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC4a|LINE|L1	-1362.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	9.0	15.5	5.5	71.0	19.5	9.5	5.5	2.0
Merged-chr6-82985214-3	chr6	82985117	82985317	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 4 of 9)	RLTR20A3_MM|LTR|ERVK	38295.0	NM_033079	110958.0	Mm.100652	NM_033079	ENSMUSG00000030041	M1ap	D6Mm5e	meiosis 1 associated protein	protein-coding	6.5	11.5	13.5	134.0	10.0	7.0	7.5	5.5
Merged-chr6-31284628-4	chr6	31284543	31284743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040262, intron 2 of 5)	intron (NR_040262, intron 2 of 5)	64292.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	48.0	34.5	13.5	331.0	67.5	35.5	33.0	37.5
Merged-chr11-103325366-2	chr11	103325266	103325466	+	946.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19336.0	NM_133715	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	6.0	15.5	2.0	53.0	19.0	5.5	8.5	5.5
Merged-chr1-112451758-3	chr1	112451657	112451857	+	770.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-586839.0	NM_001081316	319901.0	Mm.103468	NM_001081316	ENSMUSG00000038702	Dsel	9330132E09Rik|DS-epi2	dermatan sulfate epimerase-like	protein-coding	10.0	10.5	6.0	131.0	6.0	2.5	4.5	5.0
Merged-chr7-16783472-3	chr7	16783372	16783572	+	782.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009201, intron 1 of 8)	intron (NM_009201, intron 1 of 8)	2126.0	NM_009201	20514.0	Mm.1056	NM_009201	ENSMUSG00000001918	Slc1a5	AAAT|ASCT2|ATBO|M7V1|M7VS1|R16|RDRC|Slc1a7	solute carrier family 1 (neutral amino acid transporter), member 5	protein-coding	11.5	13.0	11.0	116.5	11.5	5.0	4.5	6.0
Merged-chr11-105369059-4	chr11	105368941	105369141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172568, intron 10 of 11)	intron (NM_172568, intron 10 of 11)	76395.0	NM_008626	17534.0	Mm.235616	NM_008626	ENSMUSG00000020695	Mrc2	Endo180|mKIAA0709|uPARAP	mannose receptor, C type 2	protein-coding	17.5	55.0	28.0	314.5	53.0	20.5	45.5	30.5
Merged-chr16-42895922-1	chr16	42895822	42896022	+	793.0	f0_balb.idr	intron (NR_040402, intron 2 of 3)	Charlie7|DNA|hAT-Charlie	-11723.0	NM_001285805	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	1.0	6.0	12.5	150.5	9.0	8.5	4.5	18.0
Merged-chr17-67339793-4	chr17	67339670	67339870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	14689.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	17.0	28.5	19.0	401.5	69.0	18.0	23.5	20.0
Merged-chr15-58818777-6	chr15	58818716	58818916	+	896.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 1 of 6)	intron (NM_175212, intron 1 of 6)	4611.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	18.0	11.0	20.5	171.5	17.0	6.5	12.5	4.0
Merged-chr2-35342762-3	chr2	35342675	35342875	+	904.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5766.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	5.5	15.0	6.0	152.0	22.5	4.5	2.5	4.5
Merged-chr12-9052252-4	chr12	9052152	9052352	+	920.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22255.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	10.0	23.5	9.5	291.0	22.5	15.0	14.5	17.5
Merged-chr2-11203552-4	chr2	11203505	11203705	+	916.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 1 of 17)	intron (NM_008859, intron 1 of 17)	31223.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	10.0	7.5	7.0	182.5	29.0	8.5	10.5	22.0
Merged-chr7-110787464-3	chr7	110787352	110787552	+	796.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009667, intron 2 of 14)	ORR1D1|LTR|ERVL-MaLR	14848.0	NM_009667	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	17.0	17.5	17.5	170.0	10.0	3.5	1.0	4.0
Merged-chr10-17418342-4	chr10	17418252	17418452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-304876.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	76.5	113.0	63.0	1060.0	151.5	46.0	78.0	51.5
Merged-chr5-43770762-4	chr5	43770689	43770889	+	994.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159963, exon 3 of 11)	exon (NM_001159963, exon 3 of 11)	11360.0	NM_001159963	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	28.0	14.5	59.0	745.0	59.5	19.0	17.5	18.0
Merged-chr4-45941883-4	chr4	45941775	45941975	+	861.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_198660, exon 32 of 38)	exon (NM_198660, exon 32 of 38)	-23460.0	NM_001290475	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	7.0	24.0	12.0	158.0	20.5	11.0	13.5	15.5
Merged-chr18-53091030-3	chr18	53090941	53091141	+	900.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-85251.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	1.0	2.0	2.0	58.5	50.5	6.0	22.0	9.0
Merged-chr13-9765026-4	chr13	9764910	9765110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347472)	promoter-TSS (NM_001347472)	-54.0	NM_001347473	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	32.5	48.5	24.0	289.0	70.0	27.5	42.0	26.0
Merged-chr1-143739599-4	chr1	143739493	143739693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023505)	promoter-TSS (NM_023505)	-22.0	NM_023505	69367.0	Mm.272727	NM_023505	ENSMUSG00000018196	Glrx2	1700010P22Rik|AI645710|Grx2	glutaredoxin 2 (thioltransferase)	protein-coding	86.5	95.5	65.5	1355.5	170.5	63.0	78.5	81.5
Merged-chr13-59769874-4	chr13	59769770	59769970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015349)	promoter-TSS (NR_015349)	-81.0	NM_026921	69046.0	Mm.7884	NM_026921	ENSMUSG00000044792	Isca1	1810010A06Rik|Hbld2	iron-sulfur cluster assembly 1	protein-coding	254.5	372.5	226.0	3421.5	623.5	258.5	286.0	207.5
Merged-chr18-36345477-3	chr18	36345346	36345546	+	902.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-3178.0	NM_001081365	66060.0	Mm.272527	NM_001081365	ENSMUSG00000046727	Cystm1	0610010O12Rik	cysteine-rich transmembrane module containing 1	protein-coding	5.0	16.0	12.0	78.0	4.5	5.0	2.5	4.5
Merged-chr17-63430613-3	chr17	63430537	63430737	+	784.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	MTEa|LTR|ERVL-MaLR	69943.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	6.5	12.5	18.0	156.5	8.5	7.0	3.5	3.5
Merged-chr4-12424182-4	chr4	12424081	12424281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-252166.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	38.0	53.5	55.5	995.0	150.5	48.0	39.0	31.5
Merged-chr6-124812932-2	chr6	124812832	124813032	+	811.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009415, intron 1 of 6)	intron (NM_009415, intron 1 of 6)	1364.0	NM_009415	21991.0	Mm.4222	NM_009415	ENSMUSG00000023456	Tpi1	AI255506|TIM|Tpi|Tpi-1	triosephosphate isomerase 1	protein-coding	5.5	5.5	5.5	40.5	17.0	3.5	3.5	8.5
Merged-chr18-53256377-4	chr18	53256292	53256492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	L1MC5|LINE|L1	10730.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	61.5	64.0	59.0	1018.5	93.0	25.0	58.0	39.5
Merged-chr3-90476007-4	chr3	90475858	90476058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026374)	promoter-TSS (NM_026374)	-243.0	NM_026374	67781.0	Mm.227258	NM_026374	ENSMUSG00000001016	Ilf2	6230405A16Rik|TEG-267|Tex261|Tex267	interleukin enhancer binding factor 2	protein-coding	157.5	250.5	159.0	1514.0	401.0	143.5	157.5	217.0
Merged-chr2-22743690-2	chr2	22743590	22743790	+	947.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	(TGAG)n|Simple_repeat|Simple_repeat	-30637.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	7.0	5.0	7.0	62.5	8.0	6.5	7.0	13.0
Merged-chr3-132085991-3	chr3	132085922	132086122	+	745.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020265, exon 1 of 4)	5' UTR (NM_020265, exon 1 of 4)	730.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	8.0	4.5	6.5	56.0	8.0	3.5	5.5	1.5
Merged-chr18-39855891-3	chr18	39855792	39855992	+	744.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82395.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	9.0	6.5	10.0	242.5	24.5	5.5	13.0	9.5
Merged-chr8-125054697-4	chr8	125054559	125054759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 1 of 12)	CpG	464.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	43.5	95.5	34.0	742.0	198.5	42.5	104.5	57.0
Merged-chr4-133458219-2	chr4	133458122	133458322	+	882.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21911.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	15.0	12.0	4.5	44.5	20.0	7.5	7.5	2.5
Merged-chr1-71811465-4	chr1	71811392	71811592	+	903.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76620.0	NR_027659	667931.0	Mm.214128	NR_027658	ENSMUSG00000099707	Gm8883	EG667931|Gm554	predicted gene 8883	ncRNA	19.5	8.5	25.5	263.5	28.0	12.5	9.5	17.5
Merged-chr6-113752453-4	chr6	113752348	113752548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 19 of 19)	intron (NM_001036684, intron 19 of 19)	-11767.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	43.0	78.0	34.0	672.5	98.5	21.0	31.0	39.5
Merged-chr15-9428074-4	chr15	9427968	9428168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7960.0	NM_029341	75568.0	Mm.82143	NM_029341	ENSMUSG00000039676	Capsl	1700028N11Rik|AW125205	calcyphosine-like	protein-coding	64.5	95.0	105.5	1532.5	179.0	72.0	79.0	86.0
Merged-chr2-75609689-4	chr2	75609609	75609809	+	911.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49550.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	6.0	13.5	12.0	121.5	41.0	16.5	26.0	16.0
Merged-chr13-58589654-3	chr13	58589548	58589748	+	880.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022317, intron 1 of 17)	intron (NM_022317, intron 1 of 17)	21229.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	9.5	16.5	9.5	129.0	13.0	3.5	7.0	7.0
Merged-chr5-122851067-2	chr5	122850977	122851177	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030564, intron 1 of 5)	intron (NM_030564, intron 1 of 5)	889.0	NM_030564	80751.0	Mm.388529	NM_030564	ENSMUSG00000029474	Rnf34	AW061037|AW536122|BC004042|C88279|RIFF	ring finger protein 34	protein-coding	5.5	4.5	5.5	23.5	11.5	3.0	2.0	4.5
Merged-chr1-155087118-3	chr1	155087025	155087225	+	961.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3861.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	17.5	19.0	9.5	230.5	22.5	5.0	13.5	21.0
Merged-chr13-37356762-4	chr13	37356673	37356873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010745, intron 1 of 4)	intron (NM_010745, intron 1 of 4)	11428.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	38.5	58.5	28.0	676.5	95.0	40.5	33.5	38.0
Merged-chr11-85525194-4	chr11	85525085	85525285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 16 of 25)	intron (NM_138681, intron 16 of 25)	172021.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	153.0	213.0	168.5	2119.5	321.0	100.5	85.5	106.0
Merged-chr14-122608504-4	chr14	122608394	122608594	+	932.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 6 of 24)	intron (NR_153443, intron 6 of 24)	74166.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	8.5	6.0	12.0	380.0	28.0	3.5	15.0	18.0
Merged-chr18-77938394-4	chr18	77938283	77938483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195633)	promoter-TSS (NM_001195633)	-84.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	138.5	184.0	104.0	1513.5	307.5	125.0	110.5	109.0
Merged-chr3-10288708-4	chr3	10288580	10288780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029310, intron 1 of 5)	RMER17D2|LTR|ERVK	12503.0	NM_001357159	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	124.5	100.5	102.0	1344.5	243.0	79.5	116.0	96.5
Merged-chr7-35093829-3	chr7	35093730	35093930	+	780.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B4|LTR|ERVL	-25463.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	11.0	6.5	6.0	140.5	11.0	3.5	2.5	6.0
Merged-chr18-38631744-4	chr18	38631642	38631842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30474.0	NM_011898	24066.0	Mm.42038	NM_011898	ENSMUSG00000024427	Spry4	A030006O18Rik|sprouty4	sprouty RTK signaling antagonist 4	protein-coding	52.0	66.5	51.5	776.0	102.5	45.0	51.0	62.0
Merged-chr15-86214400-4	chr15	86214310	86214510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145476)	promoter-TSS (NM_145476)	-49.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	73.5	121.5	83.5	1282.5	231.0	102.5	91.5	107.0
Merged-chr11-116694742-3	chr11	116694579	116694779	+	965.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009180)	promoter-TSS (NM_009180)	-19.0	NM_009180	20446.0	Mm.3947	NM_009180	ENSMUSG00000057286	St6galnac2	II|ST6GalNAc|Siat7|Siat7b	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 2	protein-coding	9.5	20.5	6.5	153.5	15.0	7.0	11.0	3.5
Merged-chr11-86201726-2	chr11	86201626	86201826	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178309)	promoter-TSS (NM_178309)	366.0	NR_130958	74038.0	Mm.171304	NR_130958	ENSMUSG00000085208	Brip1os	4632419I22Rik	BRCA1 interacting protein C-terminal helicase 1, opposite strand	ncRNA	10.5	10.5	4.5	138.5	24.5	2.0	12.0	11.0
Merged-chr3-89910138-4	chr3	89910040	89910240	+	829.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	3056.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	12.0	7.5	7.0	145.0	20.0	7.0	7.5	13.0
Merged-chr19-29488602-4	chr19	29488517	29488717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33370.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	93.0	110.5	80.5	1143.0	223.0	78.5	85.5	74.5
Merged-chr19-24966425-4	chr19	24966354	24966554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4838.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	27.0	46.0	43.0	637.0	123.0	33.0	45.0	42.0
Merged-chr7-25720093-4	chr7	25719995	25720195	+	739.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1042.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	7.5	13.0	7.0	88.5	9.5	7.5	15.0	5.5
Merged-chr11-54998908-2	chr11	54998808	54999008	+	787.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_013472, intron 13 of 25)	intron (NM_013472, intron 13 of 25)	34563.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	9.0	5.0	8.0	25.0	13.0	9.0	5.5	8.0
Merged-chr10-17485100-1	chr10	17485000	17485200	+	700.666687	f0_balb.idr	Intergenic	Intergenic	-238128.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	8.5	6.0	9.5	150.0	4.5	4.0	7.5	4.5
Merged-chr1-152787032-6	chr1	152786913	152787113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	-13140.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	11.5	28.0	28.5	164.0	48.5	18.5	20.5	20.5
Merged-chr13-112439658-3	chr13	112439563	112439763	+	989.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24407.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	10.0	22.5	16.5	170.0	24.5	14.0	9.5	13.5
Merged-chr11-35091101-3	chr11	35090989	35091189	+	820.6444700000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30367.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	11.5	24.5	9.5	353.5	1.0	3.0	3.5	7.0
Merged-chr18-10531790-4	chr18	10531690	10531890	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083628, intron 18 of 32)	intron (NM_001083628, intron 18 of 32)	78562.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	25.5	20.5	29.0	349.5	86.5	17.5	26.5	25.5
Merged-chr3-89858347-4	chr3	89858248	89858448	+	969.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172530, exon 6 of 6)	3' UTR (NM_172530, exon 6 of 6)	26978.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	7.5	15.5	6.0	164.5	31.0	14.0	4.5	13.0
Merged-chr11-26587756-4	chr11	26587660	26587860	+	978.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027260, intron 2 of 12)	intron (NM_027260, intron 2 of 12)	6160.0	NM_027260	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	8.5	38.5	26.0	504.0	50.0	19.5	18.0	7.5
Merged-chr16-44988798-4	chr16	44988681	44988881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	45103.0	NM_001128132	74603.0	Mm.297337	NM_027578	ENSMUSG00000036172	Cd200r3	4733401I18Rik|4833409J19Rik|AI505817|BB106877|mCD200RLb	CD200 receptor 3	protein-coding	57.5	58.5	40.5	836.0	77.5	40.0	50.0	33.0
Merged-chr11-50211744-4	chr11	50211631	50211831	+	977.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011018)	promoter-TSS (NM_011018)	-911.0	NM_011018	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	13.5	22.0	6.0	194.5	37.0	15.0	15.0	21.5
Merged-chr1-127271361-4	chr1	127271266	127271466	+	967.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 2 of 17)	intron (NM_145128, intron 2 of 17)	66380.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	24.0	35.0	29.5	417.5	32.0	16.0	25.0	17.5
Merged-chr11-23023339-3	chr11	23023247	23023447	+	711.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028672, intron 3 of 3)	intron (NM_028672, intron 3 of 3)	9960.0	NM_028672	73873.0	Mm.252406	NM_028672	ENSMUSG00000049811	Fam161a	4930430E16Rik	family with sequence similarity 161, member A	protein-coding	5.5	4.5	2.0	60.0	21.5	7.0	16.0	18.0
Merged-chr11-69125841-2	chr11	69125741	69125941	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011786)	promoter-TSS (NM_011786)	-536.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	4.5	18.5	1.0	121.0	17.0	16.0	5.5	10.5
Merged-chr11-102296213-6	chr11	102296098	102296298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098836, intron 1 of 12)	CpG	431.0	NM_001098836	217218.0	Mm.390381	NM_001098836	ENSMUSG00000059995	Atxn7l3	E030022H21Rik	ataxin 7-like 3	protein-coding	17.0	36.5	11.5	193.5	38.5	25.0	16.0	29.5
Merged-chr3-88579986-2	chr3	88579887	88580087	+	727.166687	f1_balb.idr|f1_c57bl6.idr	exon (NM_001356316, exon 2 of 6)	exon (NM_001356316, exon 2 of 6)	379.0	NM_025448	66256.0	Mm.7091	NM_025448	ENSMUSG00000041355	Ssr2	1500032E05Rik|AI315033|AU020133|SSR-beta|TLAP|TRAPB|TRAPbeta	signal sequence receptor, beta	protein-coding	6.0	7.0	7.0	13.5	14.5	2.0	1.0	9.5
Merged-chr6-83017301-4	chr6	83017194	83017394	+	980.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 7 of 9)	L3|LINE|CR1	16177.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	21.0	27.5	12.5	239.0	46.5	19.5	26.5	20.0
Merged-chr6-83775856-4	chr6	83775769	83775969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009357)	promoter-TSS (NM_009357)	-57.0	NM_009357	21766.0	Mm.28371	NM_009357	ENSMUSG00000014748	Tex261	3110001O07Rik|AA409339|AI480706|AL033351|TEG-261	testis expressed gene 261	protein-coding	90.0	110.5	70.5	1351.0	160.0	67.5	69.5	89.5
Merged-chr11-69696007-4	chr11	69695918	69696118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034097)	promoter-TSS (NM_001034097)	80.0	NM_011614	21944.0	Mm.8983	NM_011614	ENSMUSG00000097328	Tnfsf12	Apo3l|Dr3l|Dr3lg|Tweak	tumor necrosis factor (ligand) superfamily, member 12	protein-coding	69.5	129.0	91.0	1221.0	122.5	37.5	47.5	45.5
Merged-chr11-82081099-2	chr11	82080999	82081199	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20746.0	NM_011331	20293.0	Mm.867	NM_011331	ENSMUSG00000035352	Ccl12	MCP-5|Scya12	chemokine (C-C motif) ligand 12	protein-coding	5.0	19.0	10.0	68.5	18.0	8.0	2.5	7.0
Merged-chr13-100848870-4	chr13	100848758	100848958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15431.0	NM_022885	69048.0	Mm.402215	NM_022885	ENSMUSG00000021629	Slc30a5	1810010K08Rik|AF233321|ZNT5|ZTL1|ZnT-5|Zntl1	solute carrier family 30 (zinc transporter), member 5	protein-coding	23.0	39.5	25.0	326.0	117.0	33.0	43.5	34.5
Merged-chr6-124481721-4	chr6	124481607	124481807	+	835.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11406.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	7.5	11.0	7.0	114.0	30.0	13.0	10.5	10.5
Merged-chr13-23716457-4	chr13	23716329	23716529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-5575.0	NM_010424	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	67.5	62.5	110.5	1762.0	164.0	56.5	109.5	76.0
Merged-chr2-117996340-4	chr2	117996231	117996431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	114871.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	41.0	64.5	53.0	487.5	104.0	38.0	32.0	40.5
Merged-chr4-34389398-4	chr4	34389305	34389505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-161210.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	64.5	73.0	54.5	748.0	94.0	26.5	54.0	30.5
Merged-chr17-25727578-4	chr17	25727504	25727704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145409)	promoter-TSS (NM_145409)	-113.0	NM_028009	106707.0	Mm.24603	NM_028009	ENSMUSG00000041199	Rpusd1	2310051D06Rik|AU019540|Rlucl	RNA pseudouridylate synthase domain containing 1	protein-coding	296.0	513.5	289.5	4093.5	701.5	316.5	299.0	286.0
Merged-chr13-99187073-4	chr13	99187006	99187206	+	912.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	2283.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	5.5	8.0	9.5	229.0	17.0	7.0	3.5	17.0
Merged-chr1-165641603-4	chr1	165641511	165641711	+	990.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7070.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	20.5	27.5	15.0	252.5	87.0	29.0	23.0	38.0
Merged-chr4-135874643-3	chr4	135874561	135874761	+	882.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026383)	promoter-TSS (NM_026383)	-815.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	8.0	6.0	11.5	94.5	15.0	5.0	3.0	4.5
Merged-chr17-17398855-4	chr17	17398754	17398954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3832.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	77.0	162.5	108.0	1608.0	141.0	71.5	87.5	68.0
Merged-chr2-141030872-4	chr2	141030771	141030971	+	942.354126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 5 of 18)	intron (NM_001013802, intron 5 of 18)	-359395.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	7.0	13.5	28.0	196.5	39.0	6.5	20.0	32.0
Merged-chr13-45031038-4	chr13	45030957	45031157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28961.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	46.0	67.5	26.5	593.0	77.0	28.0	31.0	33.0
Merged-chr9-121286073-5	chr9	121285980	121286180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8908.0	NM_177589	209012.0	Mm.371804	NM_177589	ENSMUSG00000040936	Ulk4	4932415A06Rik|A730098P15	unc-51-like kinase 4	protein-coding	12.5	25.5	23.0	215.5	77.5	25.5	20.0	22.5
Merged-chr1-173739712-4	chr1	173739623	173739823	+	745.041687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204910, intron 1 of 7)	intron (NM_001204910, intron 1 of 7)	2086.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	2.0	0.0	2.5	55.0	26.5	7.0	6.5	12.0
Merged-chr1-135540470-4	chr1	135540369	135540569	+	972.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 1 of 28)	intron (NM_173437, intron 1 of 28)	44886.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	18.5	33.0	16.0	261.5	37.5	19.0	26.5	12.5
Merged-chr15-78581562-4	chr15	78581436	78581636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155437)	promoter-TSS (NR_155437)	53.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	34.0	55.0	26.0	500.0	69.0	18.5	22.0	28.0
Merged-chr2-162930012-3	chr2	162929873	162930073	+	958.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1535.0	NM_026499	67996.0	Mm.24042	NM_026499	ENSMUSG00000016921	Srsf6	1210001E11Rik|AI314910|AW146126|Sfrs6	serine/arginine-rich splicing factor 6	protein-coding	10.0	15.5	8.5	259.0	12.0	2.0	4.0	3.5
Merged-chr14-122107575-3	chr14	122107488	122107688	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015586)	promoter-TSS (NR_015586)	506.0	NM_080556	68059.0	Mm.275191	NM_080556	ENSMUSG00000025544	Tm9sf2	1500001N15Rik|AA536814|D14Ertd64e|P76	transmembrane 9 superfamily member 2	protein-coding	26.5	37.0	26.0	361.0	64.5	11.5	23.5	39.5
Merged-chr19-5572485-4	chr19	5572376	5572576	+	959.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4452.0	NM_001033448	381201.0	Mm.441906	NM_001033448	ENSMUSG00000049562	Ap5b1	Gm962|beta-5	adaptor-related protein complex 5, beta 1 subunit	protein-coding	19.5	36.5	17.0	313.5	41.0	15.5	11.0	22.5
Merged-chr4-128680679-4	chr4	128680576	128680776	+	829.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	-8062.0	NM_018774	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	13.0	15.0	8.5	147.5	25.0	7.5	9.5	11.5
Merged-chr3-88621808-4	chr3	88621711	88621911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	417.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	52.5	122.0	66.0	318.5	167.0	95.0	56.0	28.0
Merged-chr16-34304069-2	chr16	34303969	34304169	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 9 of 59)	intron (NM_177357, intron 9 of 59)	209958.0	NM_001164268	545156.0	Mm.82274	NM_177357	ENSMUSG00000061751	Kalrn	2210407G14Rik|AV235988|DUET|E530005C20Rik|Gm539|Hapip|TRAD	kalirin, RhoGEF kinase	protein-coding	4.0	13.5	4.0	55.0	35.0	4.5	11.5	10.5
Merged-chr2-170436487-4	chr2	170436389	170436589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8644.0	NM_029815	76960.0	Mm.240850	NM_029815	ENSMUSG00000013523	Bcas1	2210416M21Rik|9030223A09Rik|AI841227|NABC1	breast carcinoma amplified sequence 1	protein-coding	59.0	106.5	68.0	746.0	162.5	79.0	73.0	64.0
Merged-chr1-91251585-4	chr1	91251496	91251696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355764, intron 1 of 10)	intron (NM_001355764, intron 1 of 10)	1030.0	NM_001355764	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	148.5	312.0	221.5	2201.0	383.5	152.5	177.5	135.0
Merged-chr14-55793604-4	chr14	55793498	55793698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4741.0	NM_001164108	56532.0	Mm.46612	NM_019955	ENSMUSG00000022221	Ripk3	2610528K09Rik|AW107945|Rip3	receptor-interacting serine-threonine kinase 3	protein-coding	40.0	65.5	22.5	523.0	103.0	47.5	30.0	44.0
Merged-chr15-89147231-4	chr15	89147153	89147353	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011161, intron 1 of 11)	intron (NM_011161, intron 1 of 11)	2353.0	NM_011161	19094.0	Mm.91969	NM_011161	ENSMUSG00000053137	Mapk11	P38b|Prkm11|Sapk2|Sapk2b|p38-2|p38beta|p38beta2	mitogen-activated protein kinase 11	protein-coding	10.5	11.0	9.0	122.0	44.5	19.0	14.5	14.5
Merged-chr11-50210277-4	chr11	50210202	50210402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290769, intron 1 of 7)	CpG	518.0	NM_001290769	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	120.0	309.5	155.5	1985.0	465.0	201.5	195.0	162.5
Merged-chr10-20788977-1	chr10	20788877	20789077	+	779.5	f0_balb.idr	Intergenic	RLTR45|LTR|ERVK	-63899.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	11.0	9.0	8.0	177.5	11.0	6.5	2.5	2.0
Merged-chr9-84569741-3	chr9	84569640	84569840	+	906.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-204658.0	NR_040739	75253.0	Mm.401984	NR_040739	ENSMUSG00000099724	4930554C24Rik	-	RIKEN cDNA 4930554C24 gene	ncRNA	1.0	0.0	3.0	18.5	18.0	4.5	27.0	18.0
Merged-chr2-152332575-4	chr2	152332460	152332660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083921)	promoter-TSS (NM_001083921)	79.0	NM_019705	24105.0	Mm.182145	NM_019705	ENSMUSG00000027466	Rbck1	AL033326|HOIL-1|HOIL-1L|UIP28|Ubce7ip3	RanBP-type and C3HC4-type zinc finger containing 1	protein-coding	111.5	156.5	143.5	1571.0	309.0	108.0	127.5	137.0
Merged-chr5-26905374-4	chr5	26905275	26905475	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198886, intron 1 of 25)	intron (NM_001198886, intron 1 of 25)	597.0	NM_001198886	13483.0	Mm.42078	NM_010075	ENSMUSG00000061576	Dpp6	B930011P16Rik|D5Buc3|D5Buc4|D5Buc5|DPP VI|Dpp-6|Gm1377|In(5)6H-p|Peplb|Rw	dipeptidylpeptidase 6	protein-coding	11.0	28.0	16.5	302.0	36.5	10.0	11.0	11.0
Merged-chr5-77013372-4	chr5	77013278	77013478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077218, intron 2 of 3)	intron (NR_077218, intron 2 of 3)	-2645.0	NM_027970	71868.0	Mm.151092	NM_027970	ENSMUSG00000029248	Thegl	1700023E05Rik	theg spermatid protein like	protein-coding	82.0	110.0	63.5	1137.5	158.0	43.0	77.5	68.5
Merged-chr5-30650909-4	chr5	30650785	30650985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175675, intron 1 of 5)	intron (NM_175675, intron 1 of 5)	2946.0	NM_175675	74919.0	Mm.247985	NM_175675	ENSMUSG00000029175	Slc35f6	4930471M23Rik|5730478O19Rik|ANT2BP|P40|Tango9	solute carrier family 35, member F6	protein-coding	147.0	220.5	212.0	2750.5	322.5	98.5	138.0	115.5
Merged-chr2-50984014-4	chr2	50983913	50984113	+	638.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74329.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	6.5	8.5	6.5	206.0	26.0	12.5	11.0	10.5
Merged-chr1-64928713-4	chr1	64928633	64928833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039493, intron 2 of 7)	intron (NM_001039493, intron 2 of 7)	28091.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	63.0	59.5	48.5	703.0	130.0	27.5	79.5	71.0
Merged-chr10-42841799-3	chr10	42841700	42841900	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18712.0	NM_172938	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	5.0	16.0	5.0	185.0	11.5	8.0	4.5	6.5
Merged-chr7-130074066-4	chr7	130073959	130074159	+	826.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111894.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	5.5	11.0	7.0	169.5	36.0	5.0	11.5	16.5
Merged-chr7-25708183-1	chr7	25708083	25708283	+	1000.0	f0_c57.idr	Intergenic	Intergenic	10870.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	42.5	53.0	36.0	499.0	66.5	18.0	18.0	22.0
Merged-chr5-101998432-4	chr5	101998340	101998540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	71481.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	33.5	50.5	34.5	579.0	96.5	33.5	47.0	32.0
Merged-chr4-58909927-4	chr4	58909840	58910040	+	913.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355697, intron 1 of 49)	L1MB3|LINE|L1	1990.0	NM_001355697	230249.0	Mm.234801	NM_172381	ENSMUSG00000050812	AI314180	AW558785|BB181316|Ecpas|mKIAA0368	expressed sequence AI314180	protein-coding	16.5	15.0	6.0	158.5	32.0	4.5	9.0	14.5
Merged-chr8-57429415-4	chr8	57429315	57429515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26508.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	56.0	84.0	35.0	831.5	119.0	32.5	28.5	26.0
Merged-chr6-66897379-3	chr6	66897283	66897483	+	766.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177558, intron 1 of 4)	intron (NM_001177558, intron 1 of 4)	492.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	8.0	10.5	4.5	140.5	17.5	4.0	9.5	4.5
Merged-chr6-72148751-2	chr6	72148651	72148851	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 5 of 6)	intron (NM_001035228, intron 5 of 6)	-25554.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	1.5	4.0	3.5	22.0	8.0	5.0	6.0	11.5
Merged-chr10-42271582-4	chr10	42271475	42271675	+	892.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019740, intron 2 of 3)	intron (NM_019740, intron 2 of 3)	5167.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	16.5	19.0	16.5	324.5	24.0	8.5	16.0	18.5
Merged-chr9-83610080-4	chr9	83609956	83610156	+	870.0458369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61718.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	10.5	18.5	18.0	159.5	32.5	9.0	15.0	14.5
Merged-chr9-65676025-3	chr9	65675930	65676130	+	875.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010952)	promoter-TSS (NM_010952)	-518.0	NM_010952	18247.0	Mm.116749	NM_010952	ENSMUSG00000040652	Oaz2	AZ-2|AZ2|Oaz2-ps|Sez15	ornithine decarboxylase antizyme 2	protein-coding	11.0	15.0	12.0	50.5	24.5	10.5	7.5	13.0
Merged-chr2-75734360-4	chr2	75734256	75734456	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29693.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	57.0	92.5	24.0	485.5	126.0	36.0	34.5	21.5
Merged-chr11-120612815-4	chr11	120612741	120612941	+	812.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347615, intron 6 of 12)	intron (NM_001347615, intron 6 of 12)	4364.0	NM_001347616	208990.0	Mm.29444	NM_153288	ENSMUSG00000044034	Npb	PPL7|mPPL7	neuropeptide B	protein-coding	4.0	17.0	5.5	103.5	20.5	15.5	7.0	9.5
Merged-chr16-36711976-4	chr16	36711901	36712101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 3 of 7)	intron (NM_001285788, intron 3 of 7)	18023.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	231.5	354.0	165.5	3005.5	405.0	165.5	203.0	172.0
Merged-chr6-47621761-2	chr6	47621661	47621861	+	595.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26731.0	NM_007971	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	1.0	5.0	3.5	111.5	16.5	5.0	5.0	5.0
Merged-chr8-94838382-4	chr8	94838290	94838490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026452)	promoter-TSS (NM_026452)	-27.0	NM_026452	67914.0	Mm.169234	NM_026452	ENSMUSG00000031782	Coq9	2310005O14Rik|C78387	coenzyme Q9	protein-coding	141.0	230.0	133.5	1870.5	263.0	106.0	154.0	123.5
Merged-chr7-44856726-4	chr7	44856601	44856801	+	869.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021549)	promoter-TSS (NM_021549)	-445.0	NM_021549	59047.0	Mm.238254	NM_021549	ENSMUSG00000002963	Pnkp	1810009G08Rik|PNK	polynucleotide kinase 3'- phosphatase	protein-coding	8.0	20.5	16.5	110.5	17.0	14.5	9.5	6.0
Merged-chr15-5576806-4	chr15	5576694	5576894	+	955.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045274, intron 2 of 4)	intron (NR_045274, intron 2 of 4)	80476.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	22.5	20.0	13.0	226.0	46.5	16.0	11.0	25.5
Merged-chr8-119830847-6	chr8	119830763	119830963	+	921.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	9716.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	4.5	6.0	8.0	46.0	14.0	6.5	4.5	6.0
Merged-chr2-71275490-4	chr2	71275342	71275542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 17 of 17)	intron (NM_172436, intron 17 of 17)	63496.0	NM_010064	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	33.5	28.5	45.5	427.5	65.5	27.0	27.5	20.5
Merged-chr15-81859610-3	chr15	81859487	81859687	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	-1261.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	27.5	43.0	49.5	222.5	168.5	40.0	74.0	74.5
Merged-chr13-76396116-4	chr13	76396010	76396210	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	11149.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	20.5	19.0	37.5	475.0	43.0	16.5	26.0	26.5
Merged-chr2-133407980-3	chr2	133407905	133408105	+	847.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-144154.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	8.0	13.0	14.5	143.0	2.5	4.5	2.5	7.0
Merged-chr2-52424913-4	chr2	52424825	52425025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182994)	promoter-TSS (NM_182994)	-51.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	117.0	189.0	67.0	1612.0	299.0	123.5	158.0	117.5
Merged-chr1-156455282-3	chr1	156455196	156455396	+	931.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 3 of 15)	ORR1B1|LTR|ERVL-MaLR	19032.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	7.0	21.0	26.0	147.5	8.5	1.0	4.5	3.0
Merged-chr2-16359536-4	chr2	16359441	16359641	+	852.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026162, intron 1 of 13)	intron (NM_026162, intron 1 of 13)	3237.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	12.5	21.0	8.5	214.5	23.5	3.0	12.0	4.5
Merged-chr8-126593367-4	chr8	126593266	126593466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164598)	promoter-TSS (NM_001164598)	70.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	31.5	66.0	50.5	424.5	124.0	54.0	51.5	34.0
Merged-chr2-3285281-2	chr2	3285181	3285381	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008708, intron 1 of 13)	intron (NM_008708, intron 1 of 13)	1069.0	NM_001290370	18108.0	Mm.65021	NM_008708	ENSMUSG00000026643	Nmt2	A930001K02Rik|AI605445|AU044698|hNMT-2	N-myristoyltransferase 2	protein-coding	12.5	5.0	5.0	55.5	16.5	5.5	6.0	7.0
Merged-chr1-45868893-4	chr1	45868788	45868988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56706.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	61.0	77.5	83.0	1417.5	118.5	62.5	50.5	64.0
Merged-chr16-91485086-4	chr16	91484985	91485185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010508)	promoter-TSS (NM_010508)	-130.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	277.0	502.0	252.5	3876.0	761.0	311.0	296.5	249.0
Merged-chr10-67072077-4	chr10	67071966	67072166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 1 of 7)	intron (NM_178606, intron 1 of 7)	24922.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	22.0	31.5	16.0	327.5	59.5	29.0	25.0	26.5
Merged-chr12-57244355-3	chr12	57244243	57244443	+	959.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	intron (NM_001164370, intron 1 of 9)	13918.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	16.0	10.0	14.0	186.5	13.5	3.5	10.5	3.0
Merged-chr9-58210174-4	chr9	58210087	58210287	+	870.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5868.0	NM_001161541	320563.0	Mm.186499	NM_177193	ENSMUSG00000051243	Islr2	B930052A04Rik|Linx|Mbu-3|mKIAA1465	immunoglobulin superfamily containing leucine-rich repeat 2	protein-coding	16.5	16.0	15.0	277.0	30.5	8.0	11.5	13.5
Merged-chr2-19415211-4	chr2	19415106	19415306	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30457.0	NM_018809	19213.0	Mm.69647	NM_018809	ENSMUSG00000026735	Ptf1a	PTF1-p48|PTF1p48|bHLHa29	pancreas specific transcription factor, 1a	protein-coding	17.0	31.0	19.5	346.0	37.5	24.5	26.0	51.5
Merged-chr13-34254911-4	chr13	34254818	34255018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	90264.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	138.5	216.0	152.0	2087.0	297.5	97.5	133.5	92.5
Merged-chr4-117042012-1	chr4	117041912	117042112	+	862.0	f1_c57bl6.idr	intron (NM_001111277, intron 3 of 11)	intron (NM_001111277, intron 3 of 11)	22610.0	NM_001111277	108067.0	Mm.34612	NM_175135	ENSMUSG00000028683	Eif2b3	1190002P15Rik	eukaryotic translation initiation factor 2B, subunit 3	protein-coding	14.5	11.0	19.5	55.0	31.0	8.0	15.5	15.0
Merged-chr6-97819162-4	chr6	97819056	97819256	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	12098.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	25.0	40.0	25.5	337.5	29.5	4.0	9.5	8.5
Merged-chr4-70621526-4	chr4	70621407	70621607	+	854.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86579.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	13.5	9.5	11.0	269.5	30.0	13.0	8.0	14.5
Merged-chr8-79150703-4	chr8	79150598	79150798	+	939.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001294279, intron 8 of 14)	intron (NM_001294279, intron 8 of 14)	97885.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	13.0	18.0	16.0	129.0	52.5	29.5	26.0	5.5
Merged-chr9-110681348-4	chr9	110681228	110681428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	24825.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	43.5	57.0	23.5	547.0	154.5	34.0	52.0	48.0
Merged-chr10-19078292-4	chr10	19078203	19078403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62893.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	114.5	162.0	88.5	710.5	165.5	71.0	63.5	36.5
Merged-chr15-97163233-4	chr15	97163124	97163324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155278, intron 2 of 3)	MLT1A0|LTR|ERVL-MaLR	4020.0	NR_155278	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	53.5	68.0	77.5	1071.5	126.0	53.5	51.5	47.0
Merged-chr7-3643631-4	chr7	3643546	3643746	+	866.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1623.0	NM_146176	232791.0	Mm.358731	NM_146176	ENSMUSG00000035632	Cnot3	A930039N10Rik	CCR4-NOT transcription complex, subunit 3	protein-coding	10.0	15.5	19.5	237.0	38.0	14.5	14.0	19.5
Merged-chr6-97482080-4	chr6	97481968	97482168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	MIRb|SINE|MIR	5752.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	63.0	90.5	33.0	1060.0	94.0	42.0	69.5	60.5
Merged-chr10-130542279-4	chr10	130542145	130542345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44866.0	NM_001103366	625131.0	Mm.469844	NM_001103366	ENSMUSG00000091511	Vmn2r87	EG625131	vomeronasal 2, receptor 87	protein-coding	74.0	115.0	125.0	763.5	214.0	81.5	102.0	113.5
Merged-chr5-113647929-3	chr5	113647868	113648068	+	943.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	B4|SINE|B4	2422.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	7.0	18.5	11.0	83.5	16.0	7.5	6.5	5.5
Merged-chr2-91136730-3	chr2	91136633	91136833	+	800.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177720)	TTS (NM_001177720)	18589.0	NM_008653	17868.0	Mm.10728	NM_008653	ENSMUSG00000002100	Mybpc3	-	myosin binding protein C, cardiac	protein-coding	8.5	8.0	4.0	41.0	14.0	6.5	5.5	7.0
Merged-chr14-63424923-3	chr14	63424819	63425019	+	677.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7732.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	10.5	8.0	5.0	134.0	19.5	8.5	1.0	7.5
Merged-chr11-110993802-4	chr11	110993712	110993912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252207, intron 2 of 2)	intron (NM_001252207, intron 2 of 2)	-3675.0	NM_001252209	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	66.0	90.5	114.0	1595.5	271.0	70.5	135.5	111.0
Merged-chr16-93026435-3	chr16	93026340	93026540	+	945.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200366.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	15.5	17.5	10.0	211.5	40.0	9.5	7.0	9.5
Merged-chr16-38729804-4	chr16	38729715	38729915	+	979.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12444.0	NR_152434	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	25.0	27.5	27.0	293.5	49.0	18.5	16.0	23.0
Merged-chr18-11657364-4	chr18	11657261	11657461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045526)	promoter-TSS (NR_045526)	12.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	81.0	149.0	68.0	1258.0	289.0	122.0	104.5	102.0
Merged-chr4-32575397-4	chr4	32575310	32575510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001109661, exon 4 of 5)	exon (NM_001109661, exon 4 of 5)	-3748.0	NR_026843	414068.0	Mm.389550	NR_026843	ENSMUSG00000086150	Bach2os	-	BTB and CNC homology 2, opposite strand	ncRNA	62.0	69.0	82.0	1414.5	107.0	40.5	80.0	71.0
Merged-chr19-61267115-2	chr19	61267015	61267215	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38697.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	60.5	72.5	59.0	579.0	126.5	45.5	80.0	95.5
Merged-chr9-52047290-3	chr9	52047161	52047361	+	587.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001104617)	promoter-TSS (NM_001104617)	111.0	NM_001104616	19684.0	Mm.245746	NM_009041	ENSMUSG00000032050	Rdx	AA516625	radixin	protein-coding	4.5	6.0	6.5	132.5	6.5	4.0	3.0	12.0
Merged-chr7-27197950-2	chr7	27197850	27198050	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290513, intron 2 of 7)	intron (NM_001290513, intron 2 of 7)	-1679.0	NM_001285825	53607.0	Mm.386890	NM_015782	ENSMUSG00000061479	Snrpa	C430021M15Rik|Rnu1a-1|Rnu1a1|U1-A|U1A	small nuclear ribonucleoprotein polypeptide A	protein-coding	0.5	1.0	3.5	51.0	8.0	9.0	7.0	4.5
Merged-chr18-80729540-4	chr18	80729457	80729657	+	879.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16486.0	NM_001164110	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	17.0	30.0	9.5	91.0	16.5	4.0	11.5	12.5
Merged-chr19-24971512-4	chr19	24971403	24971603	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9887.0	NM_146097	226043.0	Mm.272127	NM_146097	ENSMUSG00000024878	Cbwd1	AV349248|BC018472	COBW domain containing 1	protein-coding	40.5	47.5	31.5	599.5	61.0	33.0	22.0	15.5
Merged-chr17-8988308-4	chr17	8988234	8988434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347544)	promoter-TSS (NM_001347544)	1.0	NM_001347544	66931.0	Mm.67591	NM_025851	ENSMUSG00000023873	1700010I14Rik	-	RIKEN cDNA 1700010I14 gene	protein-coding	34.5	44.0	20.5	409.0	84.5	27.5	36.5	26.5
Merged-chr8-126483170-3	chr8	126483092	126483292	+	915.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8127.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	12.5	9.5	8.0	122.0	24.5	3.5	14.5	10.0
Merged-chr18-20897143-2	chr18	20897043	20897243	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1065.0	NM_177038	75964.0	Mm.273769	NM_029491	ENSMUSG00000033382	Trappc8	5033403J15Rik|AI845423|D030074E01Rik|Trs85|mKIAA1012	trafficking protein particle complex 8	protein-coding	10.0	6.5	4.5	38.0	21.5	7.5	2.0	1.0
Merged-chr18-49827625-4	chr18	49827508	49827708	+	904.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5389.0	NM_001081371	240283.0	Mm.257790	NM_001081371	ENSMUSG00000037416	Dmxl1	C630007L23Rik|D030030C22	Dmx-like 1	protein-coding	23.0	21.5	13.0	181.5	40.5	8.0	9.5	12.0
Merged-chr15-64178664-1	chr15	64178564	64178764	+	788.333313	f0_balb.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	-118216.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	6.0	12.0	6.5	154.5	14.5	4.5	1.5	5.5
Merged-chr9-104039157-4	chr9	104039053	104039253	+	892.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028721, intron 23 of 26)	intron (NM_028721, intron 23 of 26)	23968.0	NM_025692	66663.0	Mm.224935	NM_025692	ENSMUSG00000032557	Uba5	5730525G14Rik|AW240750|Ube1dc1	ubiquitin-like modifier activating enzyme 5	protein-coding	16.0	8.5	12.0	207.5	27.0	8.5	17.0	15.0
Merged-chr3-10440094-4	chr3	10439983	10440183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029068)	promoter-TSS (NM_029068)	47.0	NM_029068	74718.0	Mm.440548	NM_029068	ENSMUSG00000027534	Snx16	4930522N22Rik|AI117577|AI747675	sorting nexin 16	protein-coding	56.5	105.0	71.5	1182.0	174.0	76.0	103.0	59.0
Merged-chr2-26119826-4	chr2	26119737	26119937	+	849.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026495, intron 1 of 5)	intron (NM_026495, intron 1 of 5)	2974.0	NM_026495	67991.0	Mm.131074	NM_026495	ENSMUSG00000026932	Nacc2	0610020I02Rik|AI448087|Btbd14a|C030048H19Rik	nucleus accumbens associated 2, BEN and BTB (POZ) domain containing	protein-coding	16.5	16.5	4.5	183.0	29.0	8.0	17.0	8.0
Merged-chr11-79528173-4	chr11	79528075	79528275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033711, exon 2 of 2)	5' UTR (NM_001033711, exon 2 of 2)	2434.0	NM_146023	101488212.0	Mm.439665	NM_146023	ENSMUSG00000070354	Evi2	Evi2a-evi2b|Gm21975	ecotropic viral integration site 2	protein-coding	114.5	200.5	101.5	1566.0	192.0	84.0	103.0	82.0
Merged-chr15-79650780-4	chr15	79650695	79650895	+	766.608337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029407, intron 1 of 17)	B1F1|SINE|Alu	8161.0	NM_029407	75729.0	Mm.78946	NM_029407	ENSMUSG00000042564	Fam227a	4933432B09Rik	family with sequence similarity 227, member A	protein-coding	8.5	12.0	11.0	140.5	67.0	14.0	14.0	17.5
Merged-chr2-33908568-3	chr2	33908468	33908668	+	962.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20622.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	14.5	12.0	25.0	305.5	9.5	5.5	8.5	9.5
Merged-chr13-62624144-4	chr13	62624020	62624220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324406)	promoter-TSS (NM_001324406)	62.0	NM_001324406	211378.0	Mm.247448	NM_173381	ENSMUSG00000072066	6720489N17Rik	9330128I06	RIKEN cDNA 6720489N17 gene	protein-coding	64.0	96.0	99.0	998.0	230.0	89.0	134.5	121.5
Merged-chr13-95955673-4	chr13	95955574	95955774	+	983.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63B|DNA|hAT-Blackjack	-63752.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	28.0	27.5	41.0	358.0	33.5	14.0	22.5	21.5
Merged-chr7-73617275-4	chr7	73617195	73617395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58900.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	28.5	58.0	43.0	684.5	92.0	25.5	44.0	37.0
Merged-chr16-64748439-3	chr16	64748329	64748529	+	661.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22510.0	NM_026273	67609.0	Mm.212157	NM_026273	ENSMUSG00000059920	4930453N24Rik	AI649104|din	RIKEN cDNA 4930453N24 gene	protein-coding	1.5	9.0	6.5	130.5	32.0	7.0	5.5	9.5
Merged-chr11-114727342-4	chr11	114727233	114727433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034878)	promoter-TSS (NM_001034878)	-79.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	38.5	64.5	14.0	423.0	97.0	28.5	37.5	35.0
Merged-chr7-39552694-4	chr7	39552635	39552835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	34969.0	NM_001004139	70227.0	Mm.333800	NM_001004139	ENSMUSG00000068959	Zfp619	3000002G13Rik	zinc finger protein 619	protein-coding	185.5	313.0	232.0	4336.0	543.0	210.0	293.0	242.0
Merged-chr1-138125465-3	chr1	138125368	138125568	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111316, intron 2 of 31)	intron (NM_001111316, intron 2 of 31)	49658.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	20.0	29.0	5.5	231.0	34.0	6.5	8.5	8.0
Merged-chr12-36381002-4	chr12	36380905	36381105	+	923.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289502)	promoter-TSS (NM_001289502)	-445.0	NM_001289504	75847.0	Mm.261764	NM_178629	ENSMUSG00000043153	Ispd	4930579E17Rik|AV040780	isoprenoid synthase domain containing	protein-coding	5.0	10.0	10.5	126.0	51.0	18.5	14.5	15.5
Merged-chr7-27838564-4	chr7	27838476	27838676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011762)	promoter-TSS (NM_011762)	-8.0	NM_011762	22717.0	Mm.379046	NM_011762	ENSMUSG00000078779	Zfp59	Mfg-2|Mfg2	zinc finger protein 59	protein-coding	24.0	34.0	52.5	355.0	45.5	26.5	25.5	23.5
Merged-chr14-51219312-1	chr14	51219212	51219412	+	579.0	f0_balb.idr	Intergenic	MLTR25A|LTR|ERVK	15617.0	NM_017389	503847.0	Mm.377124	NM_017389	ENSMUSG00000050766	Ear14	-	eosinophil-associated, ribonuclease A family, member 14	protein-coding	7.0	7.0	5.0	98.5	0.0	0.0	4.0	2.0
Merged-chr19-5912863-4	chr19	5912757	5912957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291078)	promoter-TSS (NM_001291078)	14.0	NM_011262	19708.0	Mm.2651	NM_011262	ENSMUSG00000024826	Dpf2	2210010M07Rik|BAF45D|Req|ubi-d4	D4, zinc and double PHD fingers family 2	protein-coding	127.0	166.5	68.5	1080.5	258.5	107.5	110.5	113.0
Merged-chr10-8741187-4	chr10	8741081	8741281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 14 of 19)	intron (NM_175155, intron 14 of 19)	144889.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	28.0	41.5	20.5	530.0	49.0	32.5	42.5	38.0
Merged-chr12-101976015-8	chr12	101975946	101976146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016856)	promoter-TSS (NM_016856)	72.0	NM_016856	51786.0	Mm.716	NM_016856	ENSMUSG00000041781	Cpsf2	100kDa|2610024B04Rik|AI662483|Cpsf|MCPSF|mKIAA1367	cleavage and polyadenylation specific factor 2	protein-coding	61.0	80.0	95.0	773.5	117.5	64.0	53.0	75.0
Merged-chr15-81568806-4	chr15	81568714	81568914	+	927.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17400.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	9.5	22.5	13.0	225.5	32.5	12.0	15.5	15.5
Merged-chr15-59809166-1	chr15	59809066	59809266	+	966.0	f0_c57.idr	Intergenic	Intergenic	-14207.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	10.0	12.0	9.0	121.0	28.0	5.5	16.5	20.5
Merged-chr15-38633684-4	chr15	38633536	38633736	+	847.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-28268.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	5.5	6.0	7.0	104.5	12.0	4.5	9.5	7.5
Merged-chr7-16043005-4	chr7	16042868	16043068	+	806.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28877.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	11.0	9.0	2.5	76.5	25.5	8.5	8.0	14.0
Merged-chr6-97398563-4	chr6	97398470	97398670	+	978.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 5 of 23)	intron (NM_145148, intron 5 of 23)	60716.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	23.5	36.0	36.5	709.5	34.0	15.0	22.5	26.0
Merged-chr16-57246769-4	chr16	57246664	57246864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15298.0	NM_001358433	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	32.0	68.5	38.5	732.0	76.0	24.0	29.0	46.5
Merged-chr13-23621713-4	chr13	23621616	23621816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178194)	promoter-TSS (NM_178194)	-592.0	NM_178194	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	49.5	58.5	61.0	845.0	102.0	53.5	104.5	69.0
Merged-chr19-4182043-4	chr19	4181955	4182155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6576.0	NM_134148	107239.0	Mm.482310	NM_134148	ENSMUSG00000075289	Carns1	AI790298|Atpgd1|mKIAA1394	carnosine synthase 1	protein-coding	141.5	160.0	52.0	967.0	257.0	78.0	82.0	73.5
Merged-chr6-87809804-4	chr6	87809740	87809940	+	963.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133717)	promoter-TSS (NM_133717)	-83.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	13.0	26.5	12.0	220.5	45.5	13.5	20.0	24.5
Merged-chr6-106805073-4	chr6	106804967	106805167	+	984.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4980.0	NM_175357	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	21.5	28.5	8.5	278.0	48.0	35.0	22.0	26.0
Merged-chr18-34889053-4	chr18	34888997	34889197	+	967.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27890.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	15.0	19.5	14.5	121.5	57.0	15.0	12.5	18.0
Merged-chr16-93606804-4	chr16	93606691	93606891	+	936.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1046.0	NM_007620	12408.0	Mm.26940	NM_007620	ENSMUSG00000051483	Cbr1	AW261796|CR|Cbr	carbonyl reductase 1	protein-coding	12.0	19.0	6.0	172.5	41.5	7.0	12.5	11.0
Merged-chr4-53145984-3	chr4	53145881	53146081	+	861.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	MIRb|SINE|MIR	13914.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	5.0	14.0	5.5	72.0	19.5	5.5	13.0	9.0
Merged-chr5-145177868-3	chr5	145177759	145177959	+	759.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291249, intron 6 of 7)	intron (NM_001291249, intron 6 of 7)	10646.0	NM_001291248	54188.0	Mm.196884	NM_178576	ENSMUSG00000029625	Cpsf4	30kDa|C79664	cleavage and polyadenylation specific factor 4	protein-coding	10.0	7.0	2.0	60.5	12.5	4.5	9.0	5.5
Merged-chr19-46327203-3	chr19	46327129	46327329	+	746.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133694)	promoter-TSS (NM_133694)	-73.0	NM_028627	73728.0	Mm.268532	NM_028627	ENSMUSG00000037126	Psd	1110007H17Rik|A930015K15|Efa6|Efa6a|Psdl|mKIAA2011	pleckstrin and Sec7 domain containing	protein-coding	15.0	16.0	7.0	55.0	23.5	5.5	7.0	9.5
Merged-chr11-95507391-3	chr11	95507318	95507518	+	887.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7147.0	NM_130858	104079.0	Mm.22970	NM_130858	ENSMUSG00000046719	Nxph3	-	neurexophilin 3	protein-coding	3.0	5.0	0.0	65.0	33.0	15.5	9.0	7.5
Merged-chr4-136053445-4	chr4	136053355	136053555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025919)	promoter-TSS (NM_025919)	-84.0	NM_025919	67025.0	Mm.276856	NM_025919	ENSMUSG00000059291	Rpl11	2010203J19Rik	ribosomal protein L11	protein-coding	71.0	128.0	54.5	888.0	239.0	79.5	79.5	62.0
Merged-chr2-30246725-4	chr2	30246633	30246833	+	811.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177725, intron 2 of 3)	intron (NM_177725, intron 2 of 3)	8964.0	NM_177725	241296.0	Mm.389232	NM_177725	ENSMUSG00000007476	Lrrc8a	Lrrc8|mKIAA1437	leucine rich repeat containing 8A	protein-coding	11.0	5.5	12.5	188.5	26.5	4.5	6.5	7.5
Merged-chr14-48447080-3	chr14	48446993	48447193	+	651.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132324, intron 1 of 13)	intron (NR_132324, intron 1 of 13)	741.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	6.5	5.0	4.5	111.0	15.5	6.5	5.5	5.5
Merged-chr2-165321006-4	chr2	165320914	165321114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302752)	promoter-TSS (NM_001302752)	-188.0	NM_001302752	140579.0	Mm.35064	NM_080287	ENSMUSG00000017670	Elmo2	1190002F24Rik|CED-12	engulfment and cell motility 2	protein-coding	63.5	54.5	46.0	968.0	139.5	40.0	53.5	86.0
Merged-chr13-68605806-3	chr13	68605722	68605922	+	796.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027035, intron 1 of 2)	MLT1I|LTR|ERVL-MaLR	8383.0	NM_027035	69315.0	Mm.272795	NM_027035	ENSMUSG00000021534	1700001L19Rik	-	RIKEN cDNA 1700001L19 gene	protein-coding	14.5	14.0	11.5	95.0	13.0	9.5	14.5	8.0
Merged-chr14-56888117-4	chr14	56888017	56888217	+	956.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177627, intron 2 of 2)	intron (NM_177627, intron 2 of 2)	1274.0	NM_001360643	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	33.0	42.0	27.5	349.5	45.0	12.0	21.0	28.5
Merged-chr9-123926295-4	chr9	123926199	123926399	+	964.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42393.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	22.5	50.5	12.0	371.5	68.0	18.0	29.5	23.5
Merged-chr10-30803200-4	chr10	30803036	30803236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001358841, exon 1 of 16)	5' UTR (NM_001358841, exon 1 of 16)	190.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	68.0	72.0	67.5	1020.5	143.5	56.0	59.5	103.0
Merged-chr1-136051678-3	chr1	136051588	136051788	+	757.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001270609)	TTS (NM_001270609)	884.0	NM_001270609	226439.0	Mm.491831	NM_001270609	ENSMUSG00000097918	Ascl5	Ascl5-ps|Gm197|bHLHa47	achaete-scute family bHLH transcription factor 5	protein-coding	5.5	12.0	4.0	88.0	12.0	5.0	9.0	12.5
Merged-chr5-24394413-5	chr5	24394402	24394602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029020, exon 1 of 16)	exon (NM_029020, exon 1 of 16)	346.0	NM_029020	74610.0	Mm.283914	NM_029020	ENSMUSG00000028973	Abcb8	4833412N02Rik|AA409895	ATP-binding cassette, sub-family B (MDR/TAP), member 8	protein-coding	53.0	74.5	130.5	850.5	153.0	59.5	64.0	81.0
Merged-chr7-92669097-7	chr7	92668963	92669163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029078, intron 1 of 15)	intron (NM_029078, intron 1 of 15)	849.0	NM_029078	74737.0	Mm.288645	NM_029078	ENSMUSG00000041328	Pcf11	2500001H09Rik|5730417B17Rik|C77803	PCF11 cleavage and polyadenylation factor subunit	protein-coding	21.0	34.5	27.0	355.0	99.0	30.5	34.0	38.0
Merged-chr18-12956188-3	chr18	12956098	12956298	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14357.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	23.0	12.0	18.5	205.5	37.5	5.0	14.5	28.0
Merged-chr1-55404633-3	chr1	55404553	55404753	+	961.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1293.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	7.5	17.0	10.0	231.5	22.5	6.0	5.0	7.5
Merged-chr2-136937019-4	chr2	136936919	136937119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355671, intron 2 of 6)	intron (NM_001355671, intron 2 of 6)	37668.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	132.0	178.5	149.0	1949.5	282.5	113.0	89.0	98.0
Merged-chr1-164138837-4	chr1	164138735	164138935	+	967.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011347, intron 9 of 15)	intron (NM_011347, intron 9 of 15)	-13000.0	NM_007976	14067.0	Mm.12900	NM_007976	ENSMUSG00000026579	F5	AI173222|Cf-5|Cf5	coagulation factor V	protein-coding	23.0	37.0	18.5	306.0	33.0	24.5	29.0	31.0
Merged-chr16-16099957-4	chr16	16099841	16100041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 5 of 18)	intron (NM_001355731, intron 5 of 18)	46910.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	71.5	66.0	69.5	1176.0	111.0	34.5	53.5	34.0
Merged-chr6-149409093-4	chr6	149409014	149409214	+	949.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009753, exon 1 of 9)	5' UTR (NM_009753, exon 1 of 9)	130.0	NM_009753	12121.0	Mm.177181	NM_009753	ENSMUSG00000003452	Bicd1	B830009D06Rik|bic-D 1	BICD cargo adaptor 1	protein-coding	17.5	19.5	13.5	144.5	29.0	11.0	13.0	15.0
Merged-chr19-46588094-4	chr19	46588058	46588258	+	833.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053196, intron 5 of 11)	intron (NM_053196, intron 5 of 11)	-10948.0	NM_001177812	226178.0	Mm.329895	NM_146099	ENSMUSG00000047731	Wbp1l	D19Wsu162e|Opal1	WW domain binding protein 1 like	protein-coding	5.5	7.5	1.5	52.0	15.5	6.5	5.5	12.0
Merged-chr7-63939124-4	chr7	63939021	63939221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021366)	promoter-TSS (NM_021366)	-206.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	457.5	681.0	538.5	7371.5	1059.5	440.0	575.0	439.0
Merged-chr2-19658585-6	chr2	19658521	19658721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033642)	promoter-TSS (NR_033642)	559.0	NM_027715	71198.0	Mm.83981	NM_027715	ENSMUSG00000043415	Otud1	4933428L19Rik	OTU domain containing 1	protein-coding	26.0	24.0	44.0	414.0	68.5	37.0	37.0	28.0
Merged-chr17-56269345-4	chr17	56269248	56269448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_174989)	TTS (NM_174989)	7419.0	NM_174989	106759.0	Mm.203952	NM_174989	ENSMUSG00000047123	Ticam1	AW046014|AW547018|TICAM-1|TRIF	toll-like receptor adaptor molecule 1	protein-coding	111.5	138.0	55.0	1544.0	302.5	131.0	92.0	114.0
Merged-chr2-180745434-4	chr2	180745356	180745556	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20117.0	NM_183161	228993.0	Mm.87189	NM_183161	ENSMUSG00000023393	Slc17a9	1700019H03Rik|BC019537|Vnut	solute carrier family 17, member 9	protein-coding	43.5	54.5	31.0	437.5	115.0	38.5	35.0	21.0
Merged-chr15-58022977-2	chr15	58022877	58023077	+	988.4166869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_029418, intron 5 of 5)	intron (NM_029418, intron 5 of 5)	11317.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	7.0	7.0	4.5	31.0	22.0	4.5	5.5	3.5
Merged-chr15-6277936-4	chr15	6277848	6278048	+	923.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21841.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	24.0	26.5	13.0	178.0	37.5	27.5	16.5	12.5
Merged-chr13-55330483-2	chr13	55330390	55330590	+	745.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_016662)	promoter-TSS (NM_016662)	-760.0	NM_016662	17121.0	Mm.20350	NM_016662	ENSMUSG00000021485	Mxd3	4631412E13Rik|Mad3|bHLHc13	Max dimerization protein 3	protein-coding	12.0	23.0	2.5	109.0	29.0	11.0	18.5	9.5
Merged-chr11-5502566-4	chr11	5502470	5502670	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-18071.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	30.0	37.0	26.5	572.5	42.5	15.0	26.5	26.0
Merged-chr14-66278423-3	chr14	66278318	66278518	+	728.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	2634.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	5.5	11.0	5.0	81.5	15.0	5.0	3.5	2.0
Merged-chr7-99190070-3	chr7	99189981	99190181	+	939.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7368.0	NM_026384	67800.0	Mm.180189	NM_026384	ENSMUSG00000030747	Dgat2	0610010B06Rik|ARAT|DGAT-2	diacylglycerol O-acyltransferase 2	protein-coding	27.0	24.5	17.0	278.5	19.0	4.5	3.5	6.0
Merged-chr10-20855193-3	chr10	20855049	20855249	+	921.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97398.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	9.5	19.0	20.0	440.0	13.5	9.0	7.0	21.0
Merged-chr16-16086945-4	chr16	16086849	16087049	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 5 of 18)	intron (NM_001355731, intron 5 of 18)	59902.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	29.0	26.5	17.5	418.5	44.0	14.0	33.5	21.5
Merged-chr9-47587965-2	chr9	47587882	47588082	+	725.833374	f0_balb.idr|f1_balb.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	57630.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	18.5	15.0	8.5	137.0	8.5	2.5	3.0	4.5
Merged-chr13-93243281-4	chr13	93243190	93243390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-50873.0	NM_001361537	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	71.0	125.5	71.5	1436.0	153.0	61.5	73.0	71.0
Merged-chr13-83601952-3	chr13	83601828	83602028	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347569, intron 3 of 10)	intron (NM_001347569, intron 3 of 10)	28321.0	NM_001347569	17260.0	Mm.24001	NM_025282	ENSMUSG00000005583	Mef2c	5430401D19Rik|9930028G15Rik|AV011172|Mef2	myocyte enhancer factor 2C	protein-coding	5.0	1.0	1.0	9.0	79.5	35.5	46.0	25.5
Merged-chr16-52059737-4	chr16	52059656	52059856	+	874.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	28207.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	4.0	16.5	5.5	125.0	50.0	13.0	17.0	12.0
Merged-chr13-89885345-4	chr13	89885243	89885443	+	839.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028012, intron 7 of 7)	B3|SINE|B2	-142831.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	9.0	4.0	14.5	235.5	18.0	6.0	9.0	6.0
Merged-chr15-102074437-3	chr15	102074332	102074532	+	929.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145625, intron 1 of 14)	CpG	659.0	NM_145625	75705.0	Mm.290022	NM_145625	ENSMUSG00000058655	Eif4b	2310046H11Rik|AL024095|C85189|Eif4a2	eukaryotic translation initiation factor 4B	protein-coding	8.5	16.5	11.5	117.5	8.0	6.0	10.5	11.5
Merged-chr8-61643390-4	chr8	61643329	61643529	+	695.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	-52260.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	11.0	8.5	4.5	143.0	21.5	3.5	16.5	6.0
Merged-chr1-173742467-4	chr1	173742353	173742553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204910)	promoter-TSS (NM_001204910)	-644.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	124.0	120.0	70.5	1947.0	221.5	74.5	123.5	76.0
Merged-chr11-103966485-4	chr11	103966387	103966587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304574)	promoter-TSS (NM_001304574)	-238.0	NM_001304574	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	274.0	428.5	273.5	3404.0	643.0	296.5	304.5	236.0
Merged-chr2-156863975-4	chr2	156863882	156864082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026124, intron 1 of 3)	intron (NM_026124, intron 1 of 3)	860.0	NM_026124	67388.0	Mm.29264	NM_026124	ENSMUSG00000027637	1110008F13Rik	AI316789	RIKEN cDNA 1110008F13 gene	protein-coding	87.5	130.0	88.0	1166.5	157.0	64.0	74.0	57.0
Merged-chr7-127876201-4	chr7	127876092	127876292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362191)	promoter-TSS (NM_001362191)	-550.0	NM_001362191	244219.0	Mm.207872	NM_146259	ENSMUSG00000049728	Zfp668	BC030314|E130018B19Rik|Znf668	zinc finger protein 668	protein-coding	37.5	71.5	34.0	786.5	152.0	63.5	65.5	82.0
Merged-chr10-67049013-4	chr10	67048917	67049117	+	945.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	43942.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	21.5	27.5	14.0	276.5	62.5	32.0	25.0	26.0
Merged-chr14-70029188-4	chr14	70029072	70029272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 4 of 6)	intron (NM_028560, intron 4 of 6)	-48273.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	36.5	64.5	29.5	408.5	115.5	46.0	50.0	34.5
Merged-chr7-75686294-4	chr7	75686200	75686400	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 13 of 36)	intron (NM_029332, intron 13 of 36)	-162038.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	24.0	48.0	32.0	504.0	66.5	24.5	23.5	13.0
Merged-chr1-154787767-3	chr1	154787633	154787833	+	619.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61813.0	NM_009782	12290.0	Mm.267517	NM_009782	ENSMUSG00000004110	Cacna1e	A430040I15|BII|Cach6|Cacnl1a6|Cav2.3|Cchra1|alpha1E	calcium channel, voltage-dependent, R type, alpha 1E subunit	protein-coding	3.0	3.0	0.5	27.5	15.5	5.5	4.5	4.5
Merged-chr2-167333694-3	chr2	167333627	167333827	+	826.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	15451.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	8.0	5.0	11.5	178.5	8.5	1.0	4.0	3.5
Merged-chr9-44882205-3	chr9	44882118	44882318	+	915.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357549)	promoter-TSS (NM_001357549)	-944.0	NM_001081049	214162.0	Mm.2389	NM_001081049	ENSMUSG00000002028	Kmt2a	6430520K01|ALL-1|All1|Cxxc7|HRX|HTRX1|Mll|Mll1|mKIAA4050	lysine (K)-specific methyltransferase 2A	protein-coding	19.0	14.5	5.5	83.5	16.0	9.0	6.0	19.5
Merged-chr7-114892841-4	chr7	114892735	114892935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55815.0	NR_040317	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	34.0	58.0	34.0	458.5	80.5	46.5	27.0	34.5
Merged-chr4-88725562-4	chr4	88725427	88725627	+	675.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3019.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	9.0	9.5	10.0	111.0	15.5	15.5	5.0	12.0
Merged-chr9-85400652-4	chr9	85400569	85400769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73519.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	41.0	43.5	35.0	872.0	115.0	42.0	46.0	27.0
Merged-chr12-21318311-3	chr12	21318148	21318348	+	753.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026347, intron 3 of 5)	intron (NM_026347, intron 3 of 5)	1856.0	NM_026347	67732.0	Mm.335830	NM_026347	ENSMUSG00000062054	Iah1	1500019E20Rik|4833421E05Rik	isoamyl acetate-hydrolyzing esterase 1 homolog	protein-coding	6.0	6.5	4.5	42.5	10.0	6.5	3.0	8.0
Merged-chr17-50975137-1	chr17	50975037	50975237	+	583.0	f0_balb.idr	intron (NM_028162, intron 4 of 21)	L1_Mus4|LINE|L1	184241.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	9.0	6.0	10.0	84.5	10.5	2.5	2.0	2.5
Merged-chr1-138126986-4	chr1	138126864	138127064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	48162.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	52.0	70.0	39.0	778.0	80.0	32.0	40.5	24.0
Merged-chr11-55039797-4	chr11	55039709	55039909	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6338.0	NM_013472	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	30.0	53.0	14.0	146.5	83.5	27.0	20.5	28.5
Merged-chr8-41047077-4	chr8	41046965	41047165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	intron (NM_001005863, intron 5 of 13)	-5134.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	26.5	42.0	42.0	593.0	118.5	37.5	55.5	57.0
Merged-chr7-101908498-4	chr7	101908378	101908578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025605, intron 1 of 4)	intron (NM_025605, intron 1 of 4)	-2119.0	NM_001081679	791260.0	Mm.475469	NM_001081679	ENSMUSG00000078630	Tomt	Comt2|F930017I19Rik	transmembrane O-methyltransferase	protein-coding	28.5	37.0	41.0	744.0	65.0	27.5	45.5	22.5
Merged-chr16-25958868-4	chr16	25958772	25958972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146912.0	NM_173379	210530.0	Mm.326869	NM_173379	ENSMUSG00000038168	P3h2	4832416N06|AW553532|Leprel1|Mlat4	prolyl 3-hydroxylase 2	protein-coding	44.0	59.5	51.0	975.5	91.0	20.5	39.0	36.0
Merged-chr1-91095523-4	chr1	91095421	91095621	+	860.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 10 of 22)	intron (NM_008515, intron 10 of 22)	42077.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	6.5	19.5	11.0	210.0	18.0	8.5	8.5	13.0
Merged-chr1-52100657-4	chr1	52100563	52100763	+	964.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308266, intron 18 of 24)	intron (NM_001308266, intron 18 of 24)	-18775.0	NM_001357627	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	22.0	16.0	13.0	249.5	70.5	9.5	39.0	13.0
Merged-chr2-75639768-3	chr2	75639666	75639866	+	902.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-19493.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	0.0	3.0	4.0	21.5	20.5	10.5	12.0	15.5
Merged-chr1-43474253-4	chr1	43474135	43474335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	28484.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	37.5	51.0	23.5	387.5	82.5	40.0	26.0	48.5
Merged-chr13-55895748-4	chr13	55895690	55895890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64365.0	NM_011097	18740.0	Mm.135195	NM_011097	ENSMUSG00000021506	Pitx1	Bft|P-OTX|Potx|Ptx1	paired-like homeodomain transcription factor 1	protein-coding	74.0	162.0	135.5	1531.5	232.5	105.0	105.0	103.5
Merged-chr4-156032050-5	chr4	156031893	156032093	+	901.1333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CACG)n|Simple_repeat|Simple_repeat	5671.0	NM_021985	21936.0	Mm.3180	NM_009400	ENSMUSG00000041954	Tnfrsf18	AITR|Gitr	tumor necrosis factor receptor superfamily, member 18	protein-coding	2.0	3.5	4.0	13.0	32.5	8.0	21.5	11.5
Merged-chr1-167343881-1	chr1	167343781	167343981	+	777.200012	f0_balb.idr	Intergenic	Intergenic	-6110.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	11.0	8.5	17.0	252.5	3.5	4.0	5.0	1.0
Merged-chr4-109119811-4	chr4	109119708	109119908	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355190, intron 2 of 21)	MTD|LTR|ERVL-MaLR	-1772.0	NM_001134791	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	17.0	17.0	10.5	157.5	58.0	11.0	15.5	25.0
Merged-chr15-34082749-4	chr15	34082649	34082849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026002)	promoter-TSS (NM_026002)	30.0	NM_001357925	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	137.5	198.0	207.5	2080.0	389.5	160.0	151.5	135.0
Merged-chr2-11429766-4	chr2	11429641	11429841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31241.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	282.0	424.5	342.5	4650.5	680.0	298.5	343.0	273.5
Merged-chr5-124424498-3	chr5	124424396	124424596	+	856.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081203, intron 1 of 31)	intron (NM_001081203, intron 1 of 31)	1106.0	NM_001359979	243272.0	Mm.23879	NM_145631	ENSMUSG00000038095	Sbno1	9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno	strawberry notch 1	protein-coding	6.5	10.5	6.0	91.5	22.0	3.5	4.5	3.0
Merged-chr18-67392347-4	chr18	67392253	67392453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026473, intron 2 of 3)	intron (NM_026473, intron 2 of 3)	1622.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	128.0	140.0	102.0	2105.5	162.5	86.5	83.0	95.5
Merged-chr12-16864664-4	chr12	16864555	16864755	+	827.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30323.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	12.5	13.0	10.0	79.5	19.0	4.5	12.0	1.5
Merged-chr10-62547072-4	chr10	62546981	62547181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19636.0	NM_001358965	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	41.0	65.0	22.0	611.5	104.5	37.0	40.5	27.0
Merged-chr4-9634322-4	chr4	9634228	9634428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177856, intron 4 of 4)	intron (NM_001177856, intron 4 of 4)	9389.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	80.0	77.0	77.5	1218.5	128.5	61.0	57.0	75.0
Merged-chr7-133638243-3	chr7	133638194	133638394	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178115, intron 1 of 24)	CpG	619.0	NM_178115	214764.0	Mm.174044	NM_145995	ENSMUSG00000039990	Edrf1	2700050L05Rik|AU022667|AW558805	erythroid differentiation regulatory factor 1	protein-coding	1.5	9.0	5.5	98.0	11.0	8.0	6.5	9.0
Merged-chr17-29070799-4	chr17	29070712	29070912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036469, intron 1 of 1)	intron (NR_036469, intron 1 of 1)	8314.0	NR_036469	100504267.0	Mm.438550	NR_036469	ENSMUSG00000085912	Trp53cor1	Gm16197|linc-p21|lincRNA-p21	tumor protein p53 pathway corepressor 1	ncRNA	67.5	124.5	96.0	1118.0	131.5	56.5	63.0	36.5
Merged-chr2-84727666-1	chr2	84727566	84727766	+	1000.0	f1_balb.idr	promoter-TSS (NM_133840)	promoter-TSS (NM_133840)	-398.0	NM_133840	98985.0	Mm.21583	NM_133840	ENSMUSG00000027079	Clp1	AI462438|Heab	CLP1, cleavage and polyadenylation factor I subunit	protein-coding	118.0	125.5	113.5	1765.5	282.5	106.5	143.0	130.0
Merged-chr3-121292057-4	chr3	121291944	121292144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155539, intron 1 of 2)	CpG	304.0	NM_024178	66789.0	Mm.269881	NM_024178	ENSMUSG00000039887	Alg14	5430428G01Rik|AI854024	asparagine-linked glycosylation 14	protein-coding	147.5	166.5	98.5	2348.0	352.0	146.5	199.5	143.5
Merged-chr2-25587957-4	chr2	25587850	25588050	+	968.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024616, intron 8 of 14)	intron (NM_001024616, intron 8 of 14)	-7851.0	NM_001005424	381353.0	Mm.379511	NM_001005424	ENSMUSG00000029419	Gm996	Ajm1	predicted gene 996	protein-coding	28.5	32.0	14.5	622.0	47.5	17.0	16.0	25.5
Merged-chr1-37488548-2	chr1	37488448	37488648	+	773.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024017)	promoter-TSS (NR_024017)	57.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	1.5	6.0	4.5	31.5	12.0	4.5	7.0	5.0
Merged-chr6-54078426-4	chr6	54078343	54078543	+	764.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	38511.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	3.5	10.0	5.0	259.5	27.5	9.5	14.5	11.0
Merged-chr12-112866675-4	chr12	112866571	112866771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5755.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	80.0	191.5	76.0	360.0	224.0	85.0	64.0	54.0
Merged-chr17-32738651-4	chr17	32738551	32738751	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	48896.0	NM_001346705	208292.0	Mm.38813	NM_172458	ENSMUSG00000024298	Zfp871	4732483N19|9030612M13Rik|AI118577|AI265322|mKIAA3006	zinc finger protein 871	protein-coding	17.5	29.0	24.0	287.5	55.5	26.5	16.5	32.0
Merged-chr15-25358115-4	chr15	25358021	25358221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	55643.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	40.0	36.0	31.0	611.5	115.0	38.5	42.5	43.0
Merged-chr11-120643801-4	chr11	120643713	120643913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348222)	promoter-TSS (NM_001348222)	-44.0	NM_001348222	209027.0	Mm.127731	NM_144795	ENSMUSG00000025140	Pycr1	P5CR 1|P5CR1	pyrroline-5-carboxylate reductase 1	protein-coding	72.5	81.5	27.5	632.0	161.5	44.0	63.0	49.0
Merged-chr16-91011180-4	chr16	91011079	91011279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028368)	promoter-TSS (NR_028368)	-70.0	NR_028368	67394.0	Mm.491293	NR_028368	ENSMUSG00000087354	4930404I05Rik	-	RIKEN cDNA 4930404I05 gene	ncRNA	178.0	300.0	142.0	2373.5	485.0	180.0	245.0	178.5
Merged-chr2-68825578-4	chr2	68825477	68825677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35864.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	39.0	70.5	57.5	713.5	95.0	43.0	56.5	42.0
Merged-chr2-136921147-4	chr2	136921051	136921251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355671, intron 2 of 6)	intron (NM_001355671, intron 2 of 6)	21800.0	NM_001038641	74243.0	Mm.330612	NM_028201	ENSMUSG00000027281	Slx4ip	2210009G21Rik|2410004I22Rik|C85661|Slxip	SLX4 interacting protein	protein-coding	36.5	56.5	54.5	875.5	51.5	37.5	52.0	29.5
Merged-chr9-21030957-4	chr9	21030884	21031084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023892)	TTS (NM_023892)	-1054.0	NM_008319	15898.0	Mm.4629	NM_008319	ENSMUSG00000032174	Icam5	CD50|ICAM-3|Icam3|TLN|Tlcn	intercellular adhesion molecule 5, telencephalin	protein-coding	133.5	225.5	107.0	1706.0	380.5	153.0	134.0	150.0
Merged-chr17-47010106-4	chr17	47010009	47010209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146078, intron 1 of 46)	CpG	423.0	NM_146078	224826.0	Mm.28234	NM_146078	ENSMUSG00000023977	Ubr2	9930021A08Rik|AI462103|AW540746|E130209G04Rik|mKIAA0349	ubiquitin protein ligase E3 component n-recognin 2	protein-coding	39.0	84.0	32.0	329.0	76.5	43.0	25.5	41.0
Merged-chr10-54073712-2	chr10	54073612	54073812	+	819.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	intron (NM_008548, intron 2 of 12)	2084.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	10.0	9.0	8.0	57.0	11.5	3.0	5.5	0.5
Merged-chr19-55286238-4	chr19	55286137	55286337	+	662.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027976, intron 12 of 21)	intron (NM_027976, intron 12 of 21)	29799.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	9.0	5.0	5.5	104.0	26.0	8.5	12.5	11.0
Merged-chr17-73971086-3	chr17	73970972	73971172	+	868.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20876.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	17.0	10.0	20.0	163.5	30.0	11.5	18.5	16.5
Merged-chr10-44494670-3	chr10	44494568	44494768	+	965.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35920.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	9.5	5.5	6.0	67.5	34.5	5.0	15.0	7.0
Merged-chr12-32642676-4	chr12	32642560	32642760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177675.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	54.0	89.5	37.5	805.5	144.0	39.5	57.5	46.0
Merged-chr12-3667026-4	chr12	3666904	3667104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 8 of 17)	L1M4|LINE|L1	94020.0	NM_007886	13528.0	Mm.286202	NM_007886	ENSMUSG00000071454	Dtnb	-	dystrobrevin, beta	protein-coding	48.0	64.0	63.0	969.5	62.0	21.5	35.5	44.0
Merged-chr7-45465807-2	chr7	45465707	45465907	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007527, intron 3 of 5)	intron (NM_007527, intron 3 of 5)	1091.0	NM_007527	12028.0	Mm.19904	NM_007527	ENSMUSG00000003873	Bax	-	BCL2-associated X protein	protein-coding	4.5	4.5	4.5	37.5	12.5	2.0	4.5	2.5
Merged-chr4-8927713-4	chr4	8927619	8927819	+	922.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176395.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	10.0	4.5	8.5	148.0	37.0	11.0	23.5	20.5
Merged-chr7-64374076-4	chr7	64373968	64374168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177893)	promoter-TSS (NM_177893)	27.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	124.0	220.0	139.0	2421.5	278.5	118.5	173.0	108.0
Merged-chr1-53816618-4	chr1	53816527	53816727	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001883, intron 28 of 28)	MTE2b|LTR|ERVL-MaLR	-31412.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	29.5	19.5	26.5	568.0	44.5	10.5	12.5	25.0
Merged-chr13-37761027-3	chr13	37760911	37761111	+	819.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65027.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	5.5	4.5	5.0	42.0	19.5	2.5	1.0	8.0
Merged-chr9-42944744-6	chr9	42944660	42944860	+	975.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175481)	promoter-TSS (NM_175481)	-389.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	4.0	16.5	8.5	117.5	15.5	6.5	10.0	11.0
Merged-chr13-3537989-4	chr13	3537884	3538084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008112)	promoter-TSS (NM_008112)	-91.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	312.5	401.5	310.0	3833.0	632.0	246.5	304.5	211.0
Merged-chr14-79522538-4	chr14	79522437	79522637	+	910.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	6863.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	26.5	26.5	19.0	362.5	29.0	8.0	11.0	9.0
Merged-chr9-120043328-4	chr9	120043223	120043423	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19725.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	58.5	60.5	74.5	662.0	51.5	37.0	27.5	15.5
Merged-chr6-125515675-4	chr6	125515557	125515757	+	959.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20897.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	26.0	18.0	32.0	292.0	44.0	5.0	13.5	8.5
Merged-chr17-35836385-4	chr17	35836280	35836480	+	959.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011655, intron 2 of 3)	intron (NM_011655, intron 2 of 3)	1921.0	NM_011655	22154.0	Mm.273538	NM_011655	ENSMUSG00000001525	Tubb5	AA408537|AI596182|B130022C14Rik|M(beta)5	tubulin, beta 5 class I	protein-coding	20.0	26.5	15.0	200.5	48.5	22.0	17.5	32.5
Merged-chr9-102860195-4	chr9	102860093	102860293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284258, intron 1 of 13)	intron (NM_001284258, intron 1 of 13)	25273.0	NM_001284258	20187.0	Mm.335391	NM_013649	ENSMUSG00000032547	Ryk	AW536699|ERK-3|Vik	receptor-like tyrosine kinase	protein-coding	51.0	63.0	77.0	947.5	139.0	72.0	94.5	77.0
Merged-chr5-62750573-3	chr5	62750471	62750671	+	886.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	MTA_Mm|LTR|ERVL-MaLR	15606.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	6.0	12.5	10.0	145.0	19.5	2.5	4.5	8.0
Merged-chr1-177726282-4	chr1	177726182	177726382	+	779.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR34D_MM|LTR|ERVK	-3532.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	11.5	27.5	14.5	39.0	41.5	6.0	15.5	17.5
Merged-chr12-79351467-2	chr12	79351367	79351567	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	54116.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	6.0	4.0	7.5	40.0	14.0	4.5	5.0	7.0
Merged-chr19-41242187-4	chr19	41242109	41242309	+	863.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133352, intron 5 of 14)	intron (NM_133352, intron 5 of 14)	21795.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	18.0	14.5	25.0	156.0	23.0	7.5	10.5	15.0
Merged-chr10-81106187-8	chr10	81106127	81106327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001347144, exon 1 of 11)	exon (NM_001347144, exon 1 of 11)	312.0	NM_001358539	26396.0	Mm.275436	NM_023138	ENSMUSG00000035027	Map2k2	AA589381|MEK2|MK2|Prkmk2	mitogen-activated protein kinase kinase 2	protein-coding	57.5	90.5	42.0	506.5	150.0	50.0	52.0	70.5
Merged-chr7-127252592-4	chr7	127252484	127252684	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360916, intron 2 of 2)	B2_Mm2|SINE|B2	7483.0	NM_001360916	244216.0	Mm.41038	NM_177362	ENSMUSG00000054716	Zfp771	G630024C07Rik|Znf771	zinc finger protein 771	protein-coding	21.0	27.0	9.5	193.5	23.5	9.5	17.5	23.5
Merged-chr8-84465751-1	chr8	84465651	84465851	+	932.0	f0_balb.idr	intron (NM_001252060, intron 3 of 47)	RLTR12B|LTR|ERVK	50387.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	7.0	19.0	19.5	213.5	2.0	0.0	0.0	0.0
Merged-chr9-92250223-2	chr9	92250123	92250323	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011636)	promoter-TSS (NM_011636)	29.0	NM_011636	22038.0	Mm.421956	NM_011636	ENSMUSG00000032369	Plscr1	MmTRA1a|MmTRA1b|Nor1|Tra1|Tra1a|Tra1b|Tras1|Tras2	phospholipid scramblase 1	protein-coding	21.0	25.5	18.5	463.0	33.0	7.0	14.0	11.0
Merged-chr2-39226397-4	chr2	39226299	39226499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024209)	promoter-TSS (NM_024209)	-50.0	NM_024209	67857.0	Mm.389242	NM_024209	ENSMUSG00000026753	Ppp6c	2310003C10Rik|Pp6C	protein phosphatase 6, catalytic subunit	protein-coding	128.0	260.0	147.0	2627.0	407.5	165.0	231.5	182.5
Merged-chr8-120816556-4	chr8	120816441	120816641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	77902.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	38.0	56.0	34.0	338.0	45.5	28.0	31.5	25.0
Merged-chr15-100133690-3	chr15	100133591	100133791	+	950.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 3 of 37)	intron (NM_001159361, intron 3 of 37)	-20705.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	14.0	12.0	8.0	154.5	13.5	3.0	10.0	13.0
Merged-chr7-101382450-4	chr7	101382359	101382559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	-3067.0	NM_027180	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	215.5	353.5	201.5	2378.0	559.0	270.5	252.5	220.5
Merged-chr7-100461793-4	chr7	100461694	100461894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 32 of 32)	intron (NM_001017985, intron 32 of 32)	-11197.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	133.0	182.0	83.5	1611.5	241.0	85.5	116.0	98.5
Merged-chr17-26691474-4	chr17	26691368	26691568	+	956.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025272, intron 2 of 3)	intron (NM_025272, intron 2 of 3)	15072.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	18.5	38.5	20.5	168.5	69.5	18.0	19.0	12.0
Merged-chr4-130663792-4	chr4	130663780	130663980	+	882.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356566, intron 1 of 17)	CpG	523.0	NM_001356564	80912.0	Mm.440206	NM_030722	ENSMUSG00000028580	Pum1	AA517475|Pumm|mKIAA0099	pumilio RNA-binding family member 1	protein-coding	11.5	25.0	5.0	139.5	23.5	4.5	4.5	12.0
Merged-chr7-120201587-4	chr7	120201494	120201694	+	823.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016669, intron 1 of 7)	intron (NM_016669, intron 1 of 7)	394.0	NM_016669	12971.0	Mm.9114	NM_016669	ENSMUSG00000030905	Crym	-	crystallin, mu	protein-coding	6.0	5.0	6.0	53.5	5.5	3.5	4.5	6.0
Merged-chr19-53800226-3	chr19	53800119	53800319	+	778.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	intron (NM_001170847, intron 1 of 13)	-92012.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	1.0	7.0	4.0	54.5	29.0	7.5	14.0	15.5
Merged-chr1-191575651-4	chr1	191575560	191575760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001306203)	promoter-TSS (NM_001306203)	24.0	NM_001306204	77065.0	Mm.338175	NM_178632	ENSMUSG00000037461	Ints7	5930412E23Rik|int7	integrator complex subunit 7	protein-coding	209.0	279.0	172.0	2171.0	559.5	170.0	231.0	167.5
Merged-chr10-128058947-4	chr10	128058872	128059072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019766)	promoter-TSS (NM_019766)	-10.0	NM_019766	56351.0	Mm.305816	NM_019766	ENSMUSG00000071072	Ptges3	5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177	prostaglandin E synthase 3	protein-coding	108.5	174.0	109.5	1384.0	345.0	136.0	98.5	133.0
Merged-chr1-36554720-4	chr1	36554622	36554822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304329, intron 2 of 14)	intron (NM_001304329, intron 2 of 14)	2835.0	NM_001304330	20353.0	Mm.29558	NM_001126047	ENSMUSG00000026121	Sema4c	AI426163|M-Sema F|Semacl1|Semaf|Semai|sema I	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C	protein-coding	32.5	48.0	28.5	645.0	95.0	31.5	61.5	36.5
Merged-chr15-51991824-4	chr15	51991715	51991915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009009)	promoter-TSS (NM_009009)	-55.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	226.0	354.5	266.5	3922.5	688.0	281.0	357.0	290.0
Merged-chr8-66860201-4	chr8	66860115	66860315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163564)	promoter-TSS (NM_001163564)	-2.0	NM_001163564	234344.0	Mm.334561	NM_001163564	ENSMUSG00000014907	Naf1	Gm174	nuclear assembly factor 1 ribonucleoprotein	protein-coding	109.5	165.5	107.5	2170.0	252.5	89.0	145.5	102.5
Merged-chr18-20714029-4	chr18	20713914	20714114	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 3 of 8)	intron (NM_019737, intron 3 of 8)	32390.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	21.0	29.0	21.0	413.5	42.5	17.0	37.5	20.5
Merged-chr7-4427451-4	chr7	4427372	4427572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001290409, exon 6 of 6)	3' UTR (NM_001290409, exon 6 of 6)	18185.0	NM_175372	108841.0	Mm.413106	NM_175372	ENSMUSG00000008435	Rdh13	8430425D21Rik	retinol dehydrogenase 13 (all-trans and 9-cis)	protein-coding	42.0	68.5	23.0	515.0	170.5	34.5	60.0	45.5
Merged-chr4-16198927-4	chr4	16198823	16199023	+	912.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 2 of 6)	intron (NR_045765, intron 2 of 6)	34813.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	15.0	20.0	7.5	31.5	82.0	12.0	15.5	5.5
Merged-chr8-34878804-4	chr8	34878685	34878885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 5 of 26)	intron (NM_175091, intron 5 of 26)	71175.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	62.0	85.0	61.0	1597.5	89.0	31.0	41.5	43.0
Merged-chr11-111066568-4	chr11	111066480	111066680	+	955.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008425, intron 1 of 1)	intron (NM_008425, intron 1 of 1)	416.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	24.0	17.5	15.5	153.5	41.5	10.5	18.5	21.5
Merged-chr5-17815479-3	chr5	17815370	17815570	+	872.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159557, intron 5 of 15)	intron (NM_001159557, intron 5 of 15)	20426.0	NM_001159555	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	6.0	7.0	10.0	70.5	13.5	11.5	2.5	16.5
Merged-chr7-19935432-8	chr7	19935337	19935537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19A|LTR|ERVK	-14294.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	30.5	37.5	39.5	566.0	91.5	32.0	41.5	51.0
Merged-chr4-140961254-4	chr4	140961163	140961363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023374)	promoter-TSS (NM_023374)	-8.0	NM_001355515	67680.0	Mm.246965	NM_023374	ENSMUSG00000009863	Sdhb	0710008N11Rik	succinate dehydrogenase complex, subunit B, iron sulfur (Ip)	protein-coding	210.0	358.0	195.0	2742.5	534.5	181.5	256.0	201.0
Merged-chr4-101020273-4	chr4	101020146	101020346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48792.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	27.5	60.0	75.0	913.0	94.5	34.0	60.5	27.0
Merged-chr13-56135522-4	chr13	56135429	56135629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159514)	promoter-TSS (NM_001159514)	21.0	NM_012015	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	58.0	76.5	50.0	626.0	184.0	67.0	97.5	88.5
Merged-chr10-93078628-2	chr10	93078480	93078680	+	633.0	f0_balb.idr|f0_c57.idr	intron (NM_001347060, intron 1 of 67)	intron (NM_001347060, intron 1 of 67)	3016.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	6.0	7.0	8.5	48.5	18.0	3.5	7.0	13.5
Merged-chr2-104069923-2	chr2	104069844	104070044	+	596.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-1066.0	NM_181858	333883.0	Mm.359026	NM_181858	ENSMUSG00000068686	Cd59b	-	CD59b antigen	protein-coding	12.0	9.5	9.0	64.5	11.5	0.5	5.0	8.5
Merged-chr5-121384622-2	chr5	121384522	121384722	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172275, intron 1 of 11)	L1MC4|LINE|L1	787.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	4.0	3.0	9.0	23.0	12.5	4.5	7.5	8.0
Merged-chr6-88830284-4	chr6	88830188	88830388	+	859.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11647.0	NM_001362152	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	7.5	8.0	3.0	125.5	47.5	8.0	16.5	23.0
Merged-chr5-147725813-4	chr5	147725735	147725935	+	762.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010228, exon 1 of 30)	5' UTR (NM_010228, exon 1 of 30)	153.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	11.5	7.5	14.0	80.5	21.0	7.0	3.0	6.5
Merged-chr7-120226648-4	chr7	120226537	120226737	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026458, intron 9 of 30)	intron (NM_026458, intron 9 of 30)	22673.0	NM_026458	67928.0	Mm.158178	NM_026458	ENSMUSG00000062017	Abca14	1700110B15Rik|4930539G24Rik	ATP-binding cassette, sub-family A (ABC1), member 14	protein-coding	5.0	6.5	9.0	218.0	25.0	3.0	8.0	8.0
Merged-chr16-30733920-1	chr16	30733820	30734020	+	747.0	f0_c57.idr	Intergenic	Intergenic	134197.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	5.5	9.0	1.0	7.0	32.5	11.0	6.5	5.5
Merged-chr14-22759799-4	chr14	22759681	22759881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-216983.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	50.0	44.0	37.0	784.5	51.0	26.5	36.0	27.5
Merged-chr13-98031456-4	chr13	98031350	98031550	+	884.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012026, intron 7 of 35)	intron (NM_012026, intron 7 of 35)	174715.0	NM_012026	110596.0	Mm.252718	NM_012026	ENSMUSG00000021662	Arhgef28	9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF	Rho guanine nucleotide exchange factor (GEF) 28	protein-coding	9.0	20.0	6.5	261.5	23.5	6.5	8.5	14.5
Merged-chr6-8274587-4	chr6	8274477	8274677	+	850.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302354, intron 2 of 3)	ORR1D2|LTR|ERVL-MaLR	15289.0	NM_001302353	100036521.0	Mm.446106	NM_001302353	ENSMUSG00000089862	Umad1	Gm16039	UMAP1-MVP12 associated (UMA) domain containing 1	protein-coding	10.0	10.5	13.5	100.0	23.5	9.5	9.0	8.5
Merged-chr17-78740515-1	chr17	78740415	78740615	+	629.5	f0_balb.idr	Intergenic	Intergenic	-3955.0	NM_011500	268980.0	Mm.311915	NM_011500	ENSMUSG00000024077	Strn	AU022939|D130055P19	striatin, calmodulin binding protein	protein-coding	15.0	9.0	5.5	104.5	6.0	0.0	0.5	0.0
Merged-chr4-123996006-4	chr4	123995901	123996101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78568.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	78.5	89.5	74.0	1111.5	129.5	68.0	87.0	76.0
Merged-chr1-105805782-4	chr1	105805737	105805937	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	Lx8|LINE|L1	25114.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	27.5	39.5	21.5	348.5	40.0	22.5	25.5	17.5
Merged-chr3-8691766-8	chr3	8691683	8691883	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-24745.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	8.0	6.5	12.0	111.5	14.0	2.5	5.5	14.0
Merged-chr8-120417242-2	chr8	120417142	120417342	+	752.083313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71624.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	9.0	6.0	8.0	71.5	4.0	3.0	4.5	4.0
Merged-chr15-98937475-4	chr15	98937350	98937550	+	844.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3060.0	NM_011654	22143.0	Mm.392113	NM_011654	ENSMUSG00000023004	Tuba1b	Tuba2	tubulin, alpha 1B	protein-coding	13.5	5.5	6.0	86.5	34.5	10.5	13.5	10.5
Merged-chr19-5295545-4	chr19	5295447	5295647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030109)	promoter-TSS (NM_030109)	-92.0	NM_030109	319322.0	Mm.196532	NM_030109	ENSMUSG00000024853	Sf3b2	145kDa|2610311M13Rik|2810441F20Rik|B230398H18Rik|SAP145|SF3b1|SF3b145|SF3b150	splicing factor 3b, subunit 2	protein-coding	116.5	196.0	83.0	1404.5	384.0	100.0	109.0	112.5
Merged-chr17-35173531-4	chr17	35173455	35173655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019467, intron 1 of 7)	intron (NM_019467, intron 1 of 7)	2497.0	NM_019467	11629.0	Mm.10747	NM_019467	ENSMUSG00000024397	Aif1	AI607846|AIF-1|D17H6S50E|G1|Iba1	allograft inflammatory factor 1	protein-coding	33.5	25.0	19.5	310.0	81.5	24.0	22.5	27.5
Merged-chr12-69893139-4	chr12	69893039	69893239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201519)	promoter-TSS (NM_201519)	24.0	NM_201519	399510.0	Mm.291936	NM_201519	ENSMUSG00000034761	Map4k5	4432415E19Rik|GCKR|KHS|MAPKKKK5	mitogen-activated protein kinase kinase kinase kinase 5	protein-coding	90.5	103.0	79.0	1255.5	161.5	56.0	98.0	53.5
Merged-chr12-85389265-4	chr12	85389152	85389352	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14535.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	21.0	50.5	28.0	357.0	62.5	25.0	13.5	30.0
Merged-chr10-100031707-4	chr10	100031598	100031798	+	939.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347156, intron 1 of 8)	intron (NM_001347156, intron 1 of 8)	15877.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	15.5	17.0	25.0	481.5	56.0	6.5	22.5	14.5
Merged-chr1-128592335-4	chr1	128592239	128592439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009911)	promoter-TSS (NM_009911)	-40.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	85.0	143.5	94.5	1337.5	171.5	89.0	55.5	97.5
Merged-chr17-87286286-4	chr17	87286187	87286387	+	888.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 1 of 19)	intron (NM_028639, intron 1 of 19)	3401.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	17.5	20.0	9.0	261.0	27.0	14.0	11.5	17.5
Merged-chr8-108615983-4	chr8	108615872	108616072	+	913.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-31295.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	19.0	15.5	19.5	364.0	30.5	10.5	32.5	28.0
Merged-chr12-70494996-4	chr12	70494885	70495085	+	863.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	intron (NR_037248, intron 2 of 4)	41831.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	7.5	18.5	7.5	167.0	33.5	3.5	15.5	14.5
Merged-chr7-130646241-4	chr7	130646197	130646397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004468, intron 3 of 21)	CpG	-46259.0	NM_001347637	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	26.0	52.0	31.0	518.0	46.0	28.5	31.0	45.0
Merged-chr4-34466037-4	chr4	34465933	34466133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-84582.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	36.5	63.0	39.0	1003.5	53.5	30.5	58.0	28.0
Merged-chr16-33337365-4	chr16	33337303	33337503	+	966.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43333.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	13.0	40.0	15.0	199.0	48.5	22.0	17.0	9.0
Merged-chr6-29211982-3	chr6	29211865	29212065	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302934, intron 2 of 14)	CpG	332.0	NM_011829	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	19.5	20.5	32.0	413.0	98.0	21.5	48.5	36.0
Merged-chr16-91618998-4	chr16	91618914	91619114	+	941.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138664)	promoter-TSS (NM_138664)	-15.0	NM_138664	246738.0	Mm.101927	NM_138664	ENSMUSG00000039763	Dnajc28	BC020175|ORF28	DnaJ heat shock protein family (Hsp40) member C28	protein-coding	18.5	39.0	17.5	257.5	46.0	10.5	18.0	16.5
Merged-chr17-31583540-2	chr17	31583440	31583640	+	637.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_027493, intron 2 of 11)	intron (NR_027493, intron 2 of 11)	18767.0	NM_016670	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	7.5	5.0	5.5	31.5	3.5	0.0	0.5	1.0
Merged-chr4-10874038-4	chr4	10873906	10874106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026005)	promoter-TSS (NM_026005)	-492.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	53.0	36.0	25.0	377.0	101.0	33.0	23.0	33.0
Merged-chr2-128967256-4	chr2	128967150	128967350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178404)	promoter-TSS (NM_178404)	-152.0	NM_178404	78751.0	Mm.26377	NM_178404	ENSMUSG00000042851	Zc3h6	4631426G04Rik|4833425H18Rik|AU024389|AW060453|Zc3hdc6|mKIAA2035	zinc finger CCCH type containing 6	protein-coding	155.0	178.0	87.5	1493.0	304.0	116.0	106.0	95.0
Merged-chr6-8420250-4	chr6	8420135	8420335	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302353, intron 4 of 4)	intron (NM_001302353, intron 4 of 4)	88926.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	17.5	48.0	63.5	944.5	39.0	16.0	18.5	29.0
Merged-chr6-110040532-4	chr6	110040458	110040658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-604954.0	NM_001346640	108073.0	Mm.240881	NM_177328	ENSMUSG00000056755	Grm7	6330570A01Rik|BB176677|C030018L03|E130018M02Rik|Gpr1g|Gprc1g|SMN2|Tg(SMN2)89Ahmb|mGluR7	glutamate receptor, metabotropic 7	protein-coding	49.0	42.5	35.5	701.5	79.5	33.5	31.0	31.5
Merged-chr2-160252130-4	chr2	160252023	160252223	+	969.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	75371.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	12.0	17.0	41.5	473.0	51.0	16.0	19.5	18.5
Merged-chr10-117952292-4	chr10	117952192	117952392	+	965.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26833.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	20.0	42.0	12.0	217.0	75.0	24.0	25.0	17.5
Merged-chr6-83165806-4	chr6	83165708	83165908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198866)	promoter-TSS (NM_001198866)	-116.0	NM_001198866	13191.0	Mm.6919	NM_007835	ENSMUSG00000031865	Dctn1	AL022633|DAP-150|DP-150|Glued|p150|p150-glued|p150<glued>	dynactin 1	protein-coding	37.5	48.0	42.0	410.5	87.0	39.5	27.0	46.5
Merged-chr14-76152695-4	chr14	76152591	76152791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41800.0	NM_013745	27275.0	Mm.21138	NM_013745	ENSMUSG00000022009	Nufip1	Nufip	nuclear fragile X mental retardation protein interacting protein 1	protein-coding	69.5	141.5	64.5	1081.5	238.0	74.5	85.0	78.5
Merged-chr18-34958726-8	chr18	34958623	34958823	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4372.0	NM_010481	15526.0	Mm.209419	NM_010481	ENSMUSG00000024359	Hspa9	74kDa|Csa|Grp75|Hsc74|Hsp74|Hsp74a|Hspa9a|Mortalin|Mot-2|Mot2|Mthsp70|Pbp74	heat shock protein 9	protein-coding	7.0	19.0	10.0	169.0	34.5	14.5	8.0	20.0
Merged-chr6-134172097-1	chr6	134171997	134172197	+	773.75	f0_balb.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	136397.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	13.5	21.0	8.5	124.5	14.5	6.5	8.0	5.0
Merged-chr2-132903708-1	chr2	132903608	132903808	+	692.0	f0_balb.idr	TTS (NM_198029)	TTS (NM_198029)	-22846.0	NM_177303	320974.0	Mm.357342	NM_177303	ENSMUSG00000043110	Lrrn4	B430119L13Rik|Nlrr4	leucine rich repeat neuronal 4	protein-coding	6.0	4.5	8.5	108.0	8.5	2.0	2.0	4.0
Merged-chr9-45937096-2	chr9	45936996	45937196	+	828.599976	f1_balb.idr|f1_c57bl6.idr	TTS (NM_172257)	TTS (NM_172257)	-1038.0	NM_011526	21345.0	Mm.283283	NM_011526	ENSMUSG00000032085	Tagln	Sm22|Sm22a|Ws310	transgelin	protein-coding	9.0	4.5	3.5	88.0	17.5	10.0	6.5	7.0
Merged-chr13-95033203-4	chr13	95033120	95033320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172263, intron 16 of 19)	intron (NM_172263, intron 16 of 19)	56876.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	99.5	119.0	100.0	1766.5	204.5	62.5	73.5	84.5
Merged-chr9-15307010-4	chr9	15306948	15307148	+	923.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199484)	promoter-TSS (NM_001199484)	-600.0	NM_001199484	70984.0	Mm.261842	NM_133732	ENSMUSG00000031938	4931406C07Rik	-	RIKEN cDNA 4931406C07 gene	protein-coding	10.0	17.0	30.0	138.5	16.5	9.0	9.5	16.0
Merged-chr1-55766944-4	chr1	55766845	55767045	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-164296.0	NR_045837	329159.0	Mm.98697	NR_045837	ENSMUSG00000099950	9130227L01Rik	-	RIKEN cDNA 9130227L01 gene	ncRNA	25.0	27.0	22.0	368.5	47.0	24.5	26.5	28.0
Merged-chr2-34577700-3	chr2	34577598	34577798	+	946.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290625, intron 8 of 11)	intron (NM_001290625, intron 8 of 11)	170847.0	NM_001290626	227743.0	Mm.270866	NM_177345	ENSMUSG00000038696	Mapkap1	AI591529|D230039K05Rik|Sin1	mitogen-activated protein kinase associated protein 1	protein-coding	10.0	10.0	14.0	95.0	4.0	2.0	7.0	11.5
Merged-chr15-27630756-4	chr15	27630660	27630860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013792)	promoter-TSS (NM_001013792)	-67.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	199.5	318.0	207.0	2833.0	582.5	229.0	227.5	213.0
Merged-chr17-36121560-4	chr17	36121458	36121658	+	916.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046286)	promoter-TSS (NR_046286)	-114.0	NR_046286	15024.0	Mm.426031	NM_010395	ENSMUSG00000079491	H2-T10	H-2T10	histocompatibility 2, T region locus 10	protein-coding	17.5	32.0	5.0	241.0	353.0	149.5	106.5	103.5
Merged-chr1-193170077-4	chr1	193169977	193170177	+	986.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_016851, exon 8 of 8)	3' UTR (NM_016851, exon 8 of 8)	-3392.0	NM_001160360	319266.0	Mm.482460	NM_181048	ENSMUSG00000079144	A130010J15Rik	-	RIKEN cDNA A130010J15 gene	protein-coding	16.0	26.5	16.0	248.0	73.0	18.0	28.0	37.0
Merged-chr8-13200559-4	chr8	13200445	13200645	+	876.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025768)	promoter-TSS (NM_025768)	79.0	NM_025768	66790.0	Mm.34901	NM_025768	ENSMUSG00000038515	Grtp1	5430401C05Rik|C81211|Tbc1d6	GH regulated TBC protein 1	protein-coding	9.0	12.5	16.0	235.0	22.0	11.5	19.0	14.0
Merged-chr3-152395944-4	chr3	152395871	152396071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287139)	promoter-TSS (NM_001287139)	-32.0	NM_001080755	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	107.5	171.5	109.0	1808.5	246.5	85.5	132.5	94.5
Merged-chr1-182517546-4	chr1	182517440	182517640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009794)	promoter-TSS (NM_009794)	70.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	36.0	66.5	43.5	656.0	102.5	31.0	43.0	30.5
Merged-chr2-93199005-4	chr2	93198851	93199051	+	927.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356535, exon 7 of 9)	exon (NM_001356535, exon 7 of 9)	11403.0	NM_001025246	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	5.5	11.0	8.5	139.5	23.5	17.0	6.0	8.0
Merged-chr15-75704209-4	chr15	75704102	75704302	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008164)	promoter-TSS (NM_008164)	-86.0	NM_001163465	14787.0	Mm.57052	NM_008164	ENSMUSG00000022580	Rhpn1	BB023497|Grbp|Rhophilin|mKIAA1929	rhophilin, Rho GTPase binding protein 1	protein-coding	20.5	21.0	25.5	208.5	66.0	24.0	25.5	16.0
Merged-chr5-134232275-4	chr5	134232182	134232382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2657.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	40.0	144.5	35.0	525.0	123.0	44.0	29.0	23.0
Merged-chr10-67096341-4	chr10	67096238	67096438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 1 of 7)	CpG	650.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	70.0	88.5	50.5	1149.0	139.5	34.0	56.0	50.5
Merged-chr1-52722798-4	chr1	52722709	52722909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357464, intron 1 of 7)	intron (NM_001357464, intron 1 of 7)	4509.0	NM_178081	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	55.0	157.0	98.5	1757.0	212.5	79.0	103.5	82.5
Merged-chr17-5520153-4	chr17	5520058	5520258	+	982.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	27558.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	15.5	19.0	6.0	247.0	43.5	9.0	17.0	11.0
Merged-chr7-113208281-4	chr7	113208158	113208358	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357070, intron 1 of 19)	CpG	793.0	NM_007489	11865.0	Mm.33970	NM_007489	ENSMUSG00000055116	Arntl	Arnt3|BMAL1b|Bmal1|MOP3|bHLHe5|bmal1b'	aryl hydrocarbon receptor nuclear translocator-like	protein-coding	11.5	8.5	25.5	121.0	21.5	13.5	17.0	22.0
Merged-chr11-114725197-4	chr11	114725082	114725282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2230.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	32.5	107.0	31.5	313.5	113.0	56.5	24.5	36.0
Merged-chr11-117168835-4	chr11	117168742	117168942	+	987.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-30819.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	42.5	42.0	21.0	491.5	74.5	14.5	25.5	29.0
Merged-chr16-38701532-1	chr16	38701432	38701632	+	560.0	f0_c57.idr	intron (NM_020260, intron 1 of 11)	intron (NM_020260, intron 1 of 11)	11503.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	4.0	21.5	7.0	23.0	23.0	7.5	8.0	4.5
Merged-chr4-43498882-4	chr4	43498800	43499000	+	832.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001013377, exon 6 of 12)	exon (NM_001013377, exon 6 of 12)	5535.0	NM_001037913	622404.0	Mm.289109	NM_001037913	ENSMUSG00000028461	Ccdc107	-	coiled-coil domain containing 107	protein-coding	7.5	11.0	11.5	89.5	7.5	4.5	4.0	3.5
Merged-chr1-153480573-4	chr1	153480478	153480678	+	774.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007842, intron 4 of 27)	B3|SINE|B2	7082.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	9.0	3.0	3.5	85.5	24.5	8.0	11.0	6.0
Merged-chr18-23807108-2	chr18	23807008	23807208	+	814.833313	f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	3138.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	6.0	14.5	4.0	25.5	13.5	8.0	7.5	8.5
Merged-chr17-65674772-4	chr17	65674655	65674855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 5 of 6)	intron (NM_133685, intron 5 of 6)	-32551.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	50.5	69.0	56.0	887.0	132.5	46.5	69.5	56.5
Merged-chr13-41615614-3	chr13	41615507	41615707	+	721.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163572, intron 1 of 2)	intron (NM_001163572, intron 1 of 2)	9391.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	14.0	5.5	21.0	157.5	23.0	1.0	6.5	3.0
Merged-chr3-61340306-4	chr3	61340192	61340392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24215.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	26.5	102.0	29.0	275.5	97.0	22.0	26.0	7.0
Merged-chr14-8095563-4	chr14	8095469	8095669	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2642.0	NM_145458	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	32.0	31.5	48.0	873.0	89.5	12.0	35.5	23.0
Merged-chr2-158138015-4	chr2	158137915	158138115	+	924.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 3 of 12)	intron (NM_009373, intron 3 of 12)	8377.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	11.0	21.0	12.0	114.5	94.5	15.0	29.0	27.0
Merged-chr5-110770823-4	chr5	110770717	110770917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173066)	promoter-TSS (NM_173066)	-100.0	NM_173066	75560.0	Mm.270487	NM_029337	ENSMUSG00000029505	Ep400	1700020J09Rik|AU023439|mDomino|mKIAA1498|p400	E1A binding protein p400	protein-coding	325.0	612.0	295.5	4565.0	876.5	408.5	454.0	335.5
Merged-chr13-16011930-3	chr13	16011826	16012026	+	846.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008380)	promoter-TSS (NM_008380)	75.0	NM_008380	16323.0	Mm.8042	NM_008380	ENSMUSG00000041324	Inhba	-	inhibin beta-A	protein-coding	15.0	13.0	24.5	214.0	25.0	6.0	9.5	13.5
Merged-chr18-38418166-4	chr18	38418065	38418265	+	824.858337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022996)	promoter-TSS (NM_022996)	-742.0	NM_022996	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	8.0	20.0	12.5	139.5	32.0	11.0	9.0	15.5
Merged-chr8-76901143-2	chr8	76901043	76901243	+	552.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028579)	promoter-TSS (NR_028579)	-522.0	NR_028579	102640923.0	Mm.367571	NR_028579	ENSMUSG00000074235	Gm10649	-	predicted gene 10649	ncRNA	6.5	13.0	6.0	69.5	6.0	4.5	9.5	5.5
Merged-chr13-112792157-4	chr13	112792071	112792271	+	985.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8606.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	20.0	31.5	8.0	251.5	109.5	20.0	30.5	21.0
Merged-chr18-31804497-1	chr18	31804397	31804597	+	912.6666869999999	f0_balb.idr	intron (NM_028866, intron 1 of 21)	CpG	440.0	NM_001170966	74320.0	Mm.277705	NM_028866	ENSMUSG00000024400	Wdr33	1110001N06Rik|2310011G05Rik|2810021O11Rik|8430413N20Rik|WDC146	WD repeat domain 33	protein-coding	21.0	39.5	27.0	192.0	38.5	12.0	10.5	22.5
Merged-chr11-101265427-1	chr11	101265327	101265527	+	566.0	f0_balb.idr	exon (NM_175638, exon 6 of 19)	exon (NM_175638, exon 6 of 19)	4860.0	NM_175638	69847.0	Mm.23656	NM_175638	ENSMUSG00000035112	Wnk4	2010002J11Rik|Pha2b|Prkwnk4	WNK lysine deficient protein kinase 4	protein-coding	7.0	6.0	2.0	73.0	7.5	9.0	5.5	5.5
Merged-chr9-70194825-4	chr9	70194744	70194944	+	863.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-12506.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	11.0	24.5	11.5	286.0	15.5	5.0	6.0	8.0
Merged-chr4-75315174-4	chr4	75315060	75315260	+	991.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26|LTR|ERVK	-36868.0	NM_025849	66928.0	Mm.24332	NM_025849	ENSMUSG00000028398	Dmac1	1700027K24Rik|3110001D03Rik|Tmem261	distal membrane arm assembly complex 1	protein-coding	14.5	25.5	25.0	203.0	54.0	21.0	28.0	9.5
Merged-chr3-148202394-4	chr3	148202308	148202508	+	984.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	752227.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	72.0	142.0	68.0	735.0	60.0	38.5	45.0	16.0
Merged-chr5-65294414-4	chr5	65294306	65294506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011258, intron 8 of 24)	intron (NM_011258, intron 8 of 24)	41233.0	NM_011258	19687.0	Mm.148877	NM_011258	ENSMUSG00000029191	Rfc1	140kDa|Alp145|RFC140|Recc1	replication factor C (activator 1) 1	protein-coding	25.0	33.0	39.0	531.0	60.5	27.5	41.0	34.5
Merged-chr19-29824482-4	chr19	29824380	29824580	+	861.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11506.0	NM_177721	240614.0	Mm.125503	NM_177721	ENSMUSG00000074909	Ranbp6	C630001B19	RAN binding protein 6	protein-coding	13.0	18.0	14.0	207.5	25.0	8.0	13.0	17.5
Merged-chr4-136070159-4	chr4	136070062	136070262	+	948.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16791.0	NM_025919	67025.0	Mm.276856	NM_025919	ENSMUSG00000059291	Rpl11	2010203J19Rik	ribosomal protein L11	protein-coding	8.0	14.5	10.0	143.5	62.5	22.5	23.5	30.0
Merged-chr17-80772641-4	chr17	80772524	80772724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44599.0	NM_001290345	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	122.5	128.5	95.0	1172.0	170.0	75.5	79.5	55.5
Merged-chr7-101427904-4	chr7	101427754	101427954	+	850.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008548, intron 1 of 30)	intron (NM_001008548, intron 1 of 30)	6163.0	NR_152192	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	5.5	15.5	2.5	124.5	30.5	7.5	8.5	9.5
Merged-chr12-17676642-4	chr12	17676545	17676745	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14164.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	24.5	25.0	33.5	532.0	75.5	20.5	31.5	33.5
Merged-chr12-116449768-4	chr12	116449659	116449859	+	898.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 26 of 28)	MTD|LTR|ERVL-MaLR	-35961.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	0.0	9.0	7.0	111.0	110.0	16.0	64.5	45.0
Merged-chr18-56819996-4	chr18	56819903	56820103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177115, intron 1 of 4)	intron (NM_177115, intron 1 of 4)	105545.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	29.5	75.0	39.5	471.5	84.0	38.0	42.0	26.0
Merged-chr8-84982823-4	chr8	84982712	84982912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4064.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	51.5	79.5	84.5	1069.5	167.5	32.0	67.5	72.5
Merged-chr17-36031954-4	chr17	36031846	36032046	+	964.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010398, intron 2 of 6)	intron (NM_010398, intron 2 of 6)	755.0	NM_010398	15040.0	Mm.439648	NM_010398	ENSMUSG00000067212	H2-T23	37b|37c|H-2T23|H2-Qa1|Qa-1|Qa-1(b)|Qa1|Qed-1|T18c|T18c(37)|T23b|T23d	histocompatibility 2, T region locus 23	protein-coding	49.0	83.5	38.5	208.5	121.0	40.5	31.5	22.5
Merged-chr7-123242483-4	chr7	123242392	123242592	+	824.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146198, intron 6 of 16)	intron (NM_146198, intron 6 of 16)	27626.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	10.0	20.5	8.5	115.0	23.5	4.5	7.5	9.5
Merged-chr7-87926484-9	chr7	87926385	87926585	+	785.523804	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 4 of 9)	intron (NM_001081414, intron 4 of 9)	342317.0	NM_001143834	108071.0	Mm.235018	NM_001033224	ENSMUSG00000049583	Grm5	6430542K11Rik|AI850523|Glu5R|Gprc1e|mGluR5|mGluR5b	glutamate receptor, metabotropic 5	protein-coding	7.5	11.5	12.5	156.5	10.5	2.0	7.0	6.5
Merged-chr10-127422230-4	chr10	127422122	127422322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359246, intron 1 of 23)	intron (NM_001359246, intron 1 of 23)	1355.0	NM_001359243	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	28.0	72.5	44.5	564.5	130.0	55.5	55.0	39.0
Merged-chr2-33049063-1	chr2	33048963	33049163	+	602.0	f0_balb.idr	intron (NM_001355201, intron 6 of 29)	intron (NM_001355201, intron 6 of 29)	37394.0	NM_001355202	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	5.0	6.0	10.0	98.0	9.0	1.0	6.5	9.5
Merged-chr1-132417454-4	chr1	132417357	132417557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172516)	promoter-TSS (NM_172516)	4.0	NM_172516	213452.0	Mm.257120	NM_172516	ENSMUSG00000042046	Dstyk	A930019K20Rik|C430014H23Rik|C820013G01|Ripk5	dual serine/threonine and tyrosine protein kinase	protein-coding	99.5	181.0	130.5	2105.5	237.0	82.0	156.5	100.5
Merged-chr14-32770659-3	chr14	32770563	32770763	+	756.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15300.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	13.0	8.0	9.5	155.5	20.0	7.5	6.0	11.0
Merged-chr13-94144206-4	chr13	94144110	94144310	+	894.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	86414.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	19.0	9.0	26.5	426.5	12.5	5.0	11.0	14.0
Merged-chr11-114982086-3	chr11	114982006	114982206	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145437)	TTS (NM_145437)	7780.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	140.5	201.0	99.5	1561.5	15.5	1.5	4.5	4.0
Merged-chr19-4306409-4	chr19	4306299	4306499	+	935.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130863)	promoter-TSS (NM_130863)	-177.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	23.5	38.0	9.0	114.0	34.5	20.0	33.5	24.0
Merged-chr13-104032708-4	chr13	104032614	104032814	+	906.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029447, intron 12 of 12)	intron (NM_029447, intron 12 of 12)	76900.0	NM_029447	75805.0	Mm.127692	NM_029447	ENSMUSG00000021710	Nln	4930472G13Rik|C79345	neurolysin (metallopeptidase M3 family)	protein-coding	24.5	24.5	33.0	520.5	29.5	13.0	9.5	17.0
Merged-chr13-21831551-3	chr13	21831504	21831704	+	885.944458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175657).2	TTS (NM_175657).2	554.0	NM_175657	319161.0	Mm.261664	NM_175657	ENSMUSG00000069305	Hist1h4n	-	histone cluster 1, H4n	protein-coding	5.0	7.5	10.0	0.5	26.0	9.5	6.5	19.0
Merged-chr12-85467148-4	chr12	85467064	85467264	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6726.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	23.5	25.0	52.5	668.5	40.0	11.5	36.5	17.5
Merged-chr13-37482237-3	chr13	37482144	37482344	+	629.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136899.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	6.5	12.0	5.0	54.0	12.5	4.5	0.5	2.5
Merged-chr12-103336888-4	chr12	103336813	103337013	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 3 of 9)	intron (NM_023049, intron 3 of 9)	19088.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	11.0	12.5	20.5	232.0	48.0	7.0	12.5	18.0
Merged-chr11-119084803-3	chr11	119084744	119084944	+	927.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007625, intron 2 of 4)	intron (NM_007625, intron 2 of 4)	1393.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	6.5	9.5	2.0	127.5	25.5	8.0	5.0	14.5
Merged-chr14-27381595-4	chr14	27381483	27381683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 4 of 10)	URR1A|DNA|hAT-Charlie	20194.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	52.0	77.5	85.0	998.5	120.5	34.5	56.0	52.0
Merged-chr6-120471314-2	chr6	120471214	120471414	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008359, intron 1 of 12)	B2_Mm2|SINE|B2	8117.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	5.5	10.0	4.5	42.0	5.5	6.0	4.5	8.5
Merged-chr13-55892488-4	chr13	55892382	55892582	+	990.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61057.0	NM_011097	18740.0	Mm.135195	NM_011097	ENSMUSG00000021506	Pitx1	Bft|P-OTX|Potx|Ptx1	paired-like homeodomain transcription factor 1	protein-coding	40.0	63.5	51.0	681.0	74.0	13.0	31.0	31.5
Merged-chr1-87201640-1	chr1	87201540	87201740	+	687.5	f0_balb.idr	Intergenic	Intergenic	-4171.0	NM_009604	11449.0	Mm.2810	NM_009604	ENSMUSG00000026253	Chrng	Achr-3|Acrg	cholinergic receptor, nicotinic, gamma polypeptide	protein-coding	6.0	5.5	6.5	128.5	14.0	7.5	5.0	1.5
Merged-chr7-74665073-4	chr7	74664971	74665171	+	878.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110291.0	NM_001038643	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	3.0	12.5	3.0	193.5	32.0	12.5	24.0	21.5
Merged-chr9-73089781-4	chr9	73089675	73089875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301230, intron 6 of 6)	intron (NM_001301230, intron 6 of 6)	-12623.0	NM_025890	66991.0	Mm.471745	NM_025890	ENSMUSG00000092622	Khdc3	2410004A20Rik|AI467128|FILIA|OEEP48	KH domain containing 3, subcortical maternal complex member	protein-coding	108.5	96.5	101.0	1831.5	141.5	67.0	66.0	69.0
Merged-chr6-99024783-4	chr6	99024688	99024888	+	966.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 4 of 17)	intron (NM_001197321, intron 4 of 17)	3510.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	30.0	42.0	16.5	284.5	61.0	13.0	15.0	22.5
Merged-chr13-56183766-4	chr13	56183710	56183910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4925.0	NM_001168615	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	29.0	17.0	37.0	577.0	37.5	19.0	26.0	30.5
Merged-chr7-133776048-2	chr7	133775948	133776148	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025850)	promoter-TSS (NM_025850)	755.0	NM_001286032	101437.0	Mm.199223	NM_133941	ENSMUSG00000030986	Dhx32	3110079L04Rik|4732469F02Rik|AA408140|Ddx32|muDDX32	DEAH (Asp-Glu-Ala-His) box polypeptide 32	protein-coding	4.0	10.5	15.5	75.5	14.0	5.0	5.0	13.0
Merged-chr3-96601530-3	chr3	96601436	96601636	+	858.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163170, intron 1 of 5)	intron (NM_001163170, intron 1 of 5)	403.0	NM_001163170	280411.0	Mm.482147	NM_001163170	ENSMUSG00000049288	Lix1l	D130027M04Rik	Lix1-like	protein-coding	15.0	12.0	12.0	113.0	25.5	5.0	3.5	7.5
Merged-chr6-136492390-4	chr6	136492297	136492497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26454.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	30.5	51.0	31.5	589.5	107.0	48.0	43.0	37.5
Merged-chr10-40489552-2	chr10	40489452	40489652	+	760.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80810.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	11.5	6.0	7.0	99.5	16.0	5.5	9.5	6.0
Merged-chr3-130715266-6	chr3	130715104	130715304	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5760.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	9.0	7.0	19.0	117.0	22.0	10.5	11.5	13.0
Merged-chr1-55419138-4	chr1	55419031	55419231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	13185.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	41.5	56.0	65.5	1102.0	119.5	31.0	75.5	74.5
Merged-chr17-71144480-4	chr17	71144380	71144580	+	912.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39052.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	12.5	18.0	6.0	180.5	27.0	7.5	8.5	14.0
Merged-chr11-114680463-4	chr11	114680377	114680577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	5009.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	32.0	31.0	22.5	417.5	97.0	19.0	59.0	39.0
Merged-chr13-48870230-6	chr13	48870115	48870315	+	891.986084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011078, intron 1 of 21)	CpG	670.0	NM_011078	18676.0	Mm.486213	NM_011078	ENSMUSG00000038025	Phf2	GRC5	PHD finger protein 2	protein-coding	10.0	9.0	29.5	165.0	27.0	11.5	12.5	12.5
Merged-chr2-103672812-4	chr2	103672649	103672849	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	88521.0	NM_153126	98956.0	Mm.288005	NM_153126	ENSMUSG00000027185	Nat10	AI429152	N-acetyltransferase 10	protein-coding	12.5	13.5	13.0	124.5	23.5	8.5	7.0	7.5
Merged-chr12-98375557-7	chr12	98375462	98375662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	106927.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	29.0	37.0	44.5	465.0	85.5	28.0	25.5	58.5
Merged-chr17-80564774-4	chr17	80564687	80564887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033443)	promoter-TSS (NM_001033443)	-953.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	72.5	155.0	110.5	1292.5	263.0	93.5	102.5	118.0
Merged-chr8-3676495-4	chr8	3676421	3676621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025701)	promoter-TSS (NM_025701)	44.0	NM_025701	66682.0	Mm.29090	NM_025701	ENSMUSG00000040236	Trappc5	4021401A16Rik|TRS31	trafficking protein particle complex 5	protein-coding	77.0	123.0	108.5	1337.5	279.0	97.0	125.5	105.5
Merged-chr7-12978876-2	chr7	12978776	12978976	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001168562, intron 1 of 4)	intron (NM_001168562, intron 1 of 4)	1028.0	NM_001168561	269870.0	Mm.62083	NM_175558	ENSMUSG00000033961	Zfp446	A630035I11Rik|A930031C22|AA120513|AV306632	zinc finger protein 446	protein-coding	1.0	6.0	3.5	49.5	22.5	7.5	7.5	10.0
Merged-chr11-78360456-7	chr11	78360368	78360568	+	819.428589	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008238, intron 8 of 8)	intron (NM_008238, intron 8 of 8)	13758.0	NM_001313987	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	5.0	4.5	5.5	35.5	7.5	4.0	2.0	6.5
Merged-chr12-16887672-3	chr12	16887577	16887777	+	997.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7301.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	23.5	34.0	31.5	576.0	15.5	6.0	8.5	8.0
Merged-chr19-37180704-4	chr19	37180569	37180769	+	954.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045329, intron 2 of 2)	intron (NR_045329, intron 2 of 2)	-4606.0	NM_001290826	208922.0	Mm.391176	NM_198300	ENSMUSG00000039652	Cpeb3	4831444O18Rik|CPE-BP3|mKIAA0940	cytoplasmic polyadenylation element binding protein 3	protein-coding	22.0	18.0	19.0	380.0	38.0	9.0	23.5	12.5
Merged-chr17-65884364-2	chr17	65884229	65884429	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009067, intron 1 of 9)	CpG	594.0	NM_001198949	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	10.5	11.0	17.0	129.5	22.0	7.5	4.5	14.0
Merged-chr1-165672693-4	chr1	165672586	165672786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	MLTR11B|LTR|ERVK	35408.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	82.5	144.0	169.0	1947.0	194.5	89.0	149.5	109.5
Merged-chr8-113643660-4	chr8	113643568	113643768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_173015, exon 5 of 5)	3' UTR (NM_173015, exon 5 of 5)	455.0	NM_001048145	668110.0	Mm.390078	NM_029139	ENSMUSG00000033409	Syce1l	4930481F22Rik|MMRP|PSESS|mmrp2	synaptonemal complex central element protein 1 like	protein-coding	38.5	68.0	49.5	367.0	106.0	47.0	52.5	31.0
Merged-chr10-115343264-4	chr10	115343176	115343376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359472, intron 6 of 6)	intron (NM_001359472, intron 6 of 6)	18973.0	NM_001359470	67226.0	Mm.29647	NM_133683	ENSMUSG00000069520	Tmem19	2810428F02Rik|AW125171	transmembrane protein 19	protein-coding	23.0	27.0	28.5	747.0	59.0	17.0	46.0	47.5
Merged-chr1-132355944-4	chr1	132355824	132356024	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001311108)	TTS (NM_001311108)	12024.0	NM_001311108	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	29.0	26.0	13.5	238.5	31.0	13.5	9.5	14.0
Merged-chr3-96635464-4	chr3	96635328	96635528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162387)	promoter-TSS (NM_001162387)	-2.0	NM_011069	18632.0	Mm.20901	NM_011069	ENSMUSG00000028102	Pex11b	PEX11beta|Pex11pbeta	peroxisomal biogenesis factor 11 beta	protein-coding	23.5	37.0	30.5	706.0	62.0	15.5	48.5	33.5
Merged-chr10-4391970-4	chr10	4391843	4392043	+	862.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3835.0	NM_001033466	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	12.0	21.0	11.5	167.5	22.0	8.5	9.0	8.5
Merged-chr16-20509146-4	chr16	20509065	20509265	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172265, exon 16 of 16)	3' UTR (NM_172265, exon 16 of 16)	-7821.0	NM_001347176	13544.0	Mm.247259	NM_007889	ENSMUSG00000003233	Dvl3	b2b2866Clo	dishevelled segment polarity protein 3	protein-coding	10.0	16.0	11.0	233.0	18.5	6.5	14.5	18.5
Merged-chr7-46845122-4	chr7	46845037	46845237	+	683.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102727)	promoter-TSS (NR_102727)	-667.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	5.0	6.5	13.0	175.0	25.0	4.5	7.5	24.0
Merged-chr8-35520121-3	chr8	35520027	35520227	+	981.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24594.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	1.0	0.0	0.0	7.5	51.0	18.0	25.5	10.0
Merged-chr3-40526267-3	chr3	40526131	40526331	+	804.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3319.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	5.0	4.5	2.0	63.0	20.5	6.0	5.0	9.5
Merged-chr19-3923045-4	chr19	3922952	3923152	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026316, intron 2 of 9)	intron (NM_026316, intron 2 of 9)	6664.0	NM_026316	67689.0	Mm.109341	NM_026316	ENSMUSG00000024885	Aldh3b1	1700001N19Rik|ALDH4|ALDH7	aldehyde dehydrogenase 3 family, member B1	protein-coding	25.5	31.0	18.5	267.5	67.5	8.5	18.0	20.5
Merged-chr10-79798430-4	chr10	79798328	79798528	+	932.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023128, intron 1 of 8)	MTE2b|LTR|ERVL-MaLR	4856.0	NM_001161747	18483.0	Mm.34650	NM_023128	ENSMUSG00000035863	Palm	-	paralemmin	protein-coding	19.5	13.0	18.5	267.5	31.0	11.5	11.0	11.0
Merged-chr15-78383611-3	chr15	78383500	78383700	+	884.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163613, intron 3 of 4)	ORR1F|LTR|ERVL-MaLR	5169.0	NM_001163613	73376.0	Mm.73222	NM_028522	ENSMUSG00000062154	Tex33	1700061J05Rik|Ean57	testis expressed 33	protein-coding	7.0	8.0	11.5	90.5	5.0	0.0	10.5	9.5
Merged-chr5-142877521-4	chr5	142877399	142877599	+	782.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033312, intron 4 of 4)	intron (NM_001033312, intron 4 of 4)	17739.0	NM_001033312	231863.0	Mm.89753	NM_001033312	ENSMUSG00000066640	Fbxl18	AI427077|B130019G13Rik|C330021B20Rik	F-box and leucine-rich repeat protein 18	protein-coding	8.5	19.0	3.0	65.5	20.5	11.0	14.5	12.5
Merged-chr2-31170486-4	chr2	31170402	31170602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178760, intron 4 of 17)	intron (NM_178760, intron 4 of 17)	18186.0	NM_178760	277463.0	Mm.236074	NM_178760	ENSMUSG00000000194	Gpr107	9930033D15Rik|AI790205|C530034M11|mKIAA1624	G protein-coupled receptor 107	protein-coding	28.5	48.0	31.0	582.5	77.5	10.0	34.0	38.0
Merged-chr13-95868990-4	chr13	95868833	95869033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	intron (NM_027711, intron 1 of 35)	22989.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	62.0	66.5	62.0	1022.5	248.0	74.5	135.0	110.5
Merged-chr13-52035937-4	chr13	52035833	52036033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60808.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	79.0	52.5	97.0	1576.5	136.5	41.5	69.5	54.5
Merged-chr1-174029610-3	chr1	174029448	174029648	+	970.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172648, intron 1 of 6)	intron (NM_172648, intron 1 of 6)	2207.0	NM_172648	226695.0	Mm.425061	NM_172648	ENSMUSG00000054203	Ifi205	D3|D3cDNA|Ifi205a	interferon activated gene 205	protein-coding	16.0	18.5	4.5	134.0	17.0	3.0	6.5	6.5
Merged-chr7-118104900-4	chr7	118104809	118105009	+	846.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_170669, exon 5 of 5)	3' UTR (NM_170669, exon 5 of 5)	11238.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	11.5	17.5	1.0	171.5	20.5	16.0	9.5	20.0
Merged-chr14-45221221-2	chr14	45221121	45221321	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027518, intron 1 of 6)	intron (NM_027518, intron 1 of 6)	1504.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	8.0	5.0	5.0	31.0	19.5	5.0	1.5	3.5
Merged-chr7-68113374-4	chr7	68113274	68113474	+	817.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	AT_rich|Low_complexity|Low_complexity	150859.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	5.0	17.0	10.5	182.0	15.0	4.0	15.5	10.5
Merged-chr1-75479485-4	chr1	75479358	75479558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177056)	promoter-TSS (NM_177056)	13.0	NM_001001566	74241.0	Mm.260577	NM_001001565	ENSMUSG00000032997	Chpf	1700028N03Rik|AI414328|D1Bwg1363e	chondroitin polymerizing factor	protein-coding	64.5	104.0	105.5	1180.0	182.5	91.5	89.5	108.0
Merged-chr9-118486515-3	chr9	118486421	118486621	+	873.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010136)	TTS (NM_010136)	8332.0	NM_010136	13813.0	Mm.200692	NM_010136	ENSMUSG00000032446	Eomes	C77258|TBR-2|Tbr2	eomesodermin	protein-coding	8.0	14.0	1.0	127.0	12.0	8.0	16.5	6.0
Merged-chr15-55550964-4	chr15	55550897	55551097	+	652.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026759, intron 2 of 6)	intron (NM_026759, intron 2 of 6)	6315.0	NM_026759	68537.0	Mm.236795	NM_026759	ENSMUSG00000022370	Mrpl13	1110002D09Rik	mitochondrial ribosomal protein L13	protein-coding	4.0	7.5	8.5	75.5	19.0	6.0	6.5	9.0
Merged-chr12-81927978-3	chr12	81927862	81928062	+	964.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 6 of 35)	intron (NM_018814, intron 6 of 35)	67932.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	10.5	28.5	13.0	374.0	17.0	8.5	14.0	6.0
Merged-chr2-57240038-2	chr2	57239938	57240138	+	572.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 1 of 16)	B2_Mm1t|SINE|B2	1656.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	6.0	0.0	3.0	44.0	5.0	4.5	5.5	5.5
Merged-chr3-32397007-4	chr3	32396929	32397129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-31364.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	249.5	337.5	272.0	4078.0	592.0	232.5	291.0	251.0
Merged-chr13-88810293-3	chr13	88810188	88810388	+	965.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11184.0	NM_010103	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	7.5	1.0	9.0	97.5	40.5	16.0	26.5	15.0
Merged-chr3-79219727-2	chr3	79219627	79219827	+	634.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	MTA_Mm|LTR|ERVL-MaLR	6808.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	5.0	5.0	6.0	26.5	4.5	3.0	3.0	3.0
Merged-chr6-115361115-4	chr6	115361044	115361244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308352)	promoter-TSS (NM_001308352)	0.0	NM_001308352	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	41.5	52.0	37.0	541.0	86.5	26.5	38.0	30.5
Merged-chr10-96623403-4	chr10	96623316	96623516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007569)	TTS (NM_007569)	6415.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	22.0	39.5	21.5	318.5	78.5	16.5	34.5	21.5
Merged-chr19-42099621-4	chr19	42099528	42099728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145501, intron 1 of 8)	L2|LINE|L2	9193.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	86.5	134.5	60.0	1032.0	83.0	32.0	53.5	35.5
Merged-chr19-45236728-4	chr19	45236644	45236844	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1508.0	NM_010691	16814.0	Mm.116815	NM_010691	ENSMUSG00000025216	Lbx1	Lbx1h	ladybird homeobox 1	protein-coding	23.0	63.0	25.0	208.5	25.5	24.0	30.0	16.5
Merged-chr19-24336601-3	chr19	24336491	24336691	+	961.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008846, intron 13 of 14)	intron (NM_008846, intron 13 of 14)	-56005.0	NM_008044	14297.0	Mm.7319	NM_008044	ENSMUSG00000059363	Fxn	FA|FARR|Frda|X25	frataxin	protein-coding	3.5	10.0	15.0	123.0	9.0	7.5	6.5	4.5
Merged-chr3-121171690-4	chr3	121171580	121171780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025637)	promoter-TSS (NM_025637)	15.0	NM_028456	66568.0	Mm.263163	NM_025637	ENSMUSG00000028133	Rwdd3	2510027J23Rik|3110037C01Rik|AI035684|AI662458|Rsume|X2CR1	RWD domain containing 3	protein-coding	118.5	159.5	191.0	1767.0	261.5	85.5	122.5	92.5
Merged-chr1-164075442-3	chr1	164075347	164075547	+	939.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164059, intron 6 of 7)	intron (NM_001164059, intron 6 of 7)	13371.0	NM_011346	20343.0	Mm.1461	NM_011346	ENSMUSG00000026581	Sell	AI528707|CD62L|L-selectin|LECAM-1|Lnhr|Ly-22|Ly-m22|Lyam-1|Lyam1	selectin, lymphocyte	protein-coding	11.0	6.0	12.5	150.0	19.0	5.0	4.5	5.0
Merged-chr7-106240703-1	chr7	106240603	106240803	+	577.333313	f0_balb.idr	Intergenic	RLTR13B2|LTR|ERVK	-25363.0	NM_029000	74558.0	Mm.458429	NM_029000	ENSMUSG00000045868	Gvin1	9130002C22Rik|9830104F22Rik|Iigs1|VLIG|VLIG-1	GTPase, very large interferon inducible 1	protein-coding	9.0	15.0	5.5	89.5	15.5	5.5	5.5	9.5
Merged-chr3-105789989-4	chr3	105789880	105790080	+	965.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145541, intron 1 of 7)	MTD|LTR|ERVL-MaLR	11401.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	12.0	34.0	17.0	344.5	42.0	22.5	43.0	35.5
Merged-chr19-37419748-4	chr19	37419647	37419847	+	821.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010615, intron 21 of 21)	intron (NM_010615, intron 21 of 21)	-15094.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	14.5	17.5	7.5	92.5	18.0	9.0	17.5	16.0
Merged-chr5-150836967-4	chr5	150836859	150837059	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-115648.0	NM_013823	16591.0	Mm.6500	NM_013823	ENSMUSG00000058488	Kl	alpha-kl	klotho	protein-coding	16.0	18.5	33.0	494.5	57.5	15.0	38.0	30.5
Merged-chr4-136886287-4	chr4	136886186	136886386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009777)	promoter-TSS (NM_009777)	-109.0	NM_009777	12260.0	Mm.2570	NM_009777	ENSMUSG00000036905	C1qb	-	complement component 1, q subcomponent, beta polypeptide	protein-coding	220.5	275.5	226.0	2202.0	608.5	283.5	255.0	276.0
Merged-chr3-96227582-4	chr3	96227481	96227681	+	975.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR18D_MM|LTR|ERVK	6509.0	NM_178214	319190.0	Mm.439791	NM_178214	ENSMUSG00000068854	Hist2h2be	AV127319|H2b-613|T25626	histone cluster 2, H2be	protein-coding	14.5	19.5	8.0	188.5	36.5	15.0	10.0	24.0
Merged-chr16-17558151-3	chr16	17558038	17558238	+	947.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145435, intron 4 of 7)	intron (NM_001145435, intron 4 of 7)	3109.0	NM_029053	74685.0	Mm.38634	NM_029053	ENSMUSG00000022759	Lrrc74b	4930451C15Rik|mCG12354|mCP17390	leucine rich repeat containing 74B	protein-coding	13.0	12.0	4.0	170.5	39.0	4.5	4.5	8.0
Merged-chr11-68030839-3	chr11	68030741	68030941	+	724.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018768, intron 6 of 7)	HAL1ME|LINE|L1	64383.0	NM_018768	55943.0	Mm.3973	NM_018768	ENSMUSG00000020903	Stx8	0610007H08Rik|1110002H11Rik|4930571E13Rik|CARB	syntaxin 8	protein-coding	2.0	9.0	1.0	117.5	4.5	8.5	6.5	7.0
Merged-chr15-79028436-4	chr15	79028327	79028527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008197, exon 1 of 1)	5' UTR (NM_008197, exon 1 of 1)	215.0	NM_008197	14958.0	Mm.24350	NM_008197	ENSMUSG00000096210	H1f0	D130017D06Rik|H1(0)|H1fv	H1 histone family, member 0	protein-coding	24.5	32.5	19.0	338.5	88.5	28.0	36.0	31.5
Merged-chr11-4714945-3	chr11	4714846	4715046	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026015, intron 1 of 5)	intron (NM_026015, intron 1 of 5)	10290.0	NM_001356390	67178.0	Mm.271056	NM_026015	ENSMUSG00000009076	Zmat5	2610510L01Rik|D11Bwg0572e|D11Bwg1548e	zinc finger, matrin type 5	protein-coding	7.0	4.5	3.0	83.5	69.0	19.0	40.5	42.5
Merged-chr4-34388808-4	chr4	34388738	34388938	+	870.625	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	-161777.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	10.5	8.0	5.5	168.0	6.5	4.0	2.5	3.0
Merged-chr5-76175234-4	chr5	76175135	76175335	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB3_1-I_MM-int|LTR|ERVK	-8645.0	NM_011626	21982.0	Mm.790	NM_011626	ENSMUSG00000029234	Tmem165	AV026557|Tpardl|Tparl|pFT27	transmembrane protein 165	protein-coding	24.0	54.0	69.5	620.0	50.5	5.5	18.5	19.5
Merged-chr6-118128200-4	chr6	118128107	118128307	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362149, intron 2 of 7)	intron (NM_001362149, intron 2 of 7)	10623.0	NM_001362149	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	19.0	27.5	36.5	599.5	28.5	16.0	21.5	26.5
Merged-chr2-157079289-4	chr2	157079182	157079382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164663)	promoter-TSS (NM_001164663)	-17.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	38.5	64.5	28.0	441.5	71.5	25.0	29.0	22.0
Merged-chr11-26637258-4	chr11	26637117	26637317	+	977.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-43297.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	4.5	11.0	15.0	147.0	48.5	11.5	18.5	26.5
Merged-chr4-151842141-5	chr4	151842007	151842207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081557, intron 1 of 23)	intron (NM_001081557, intron 1 of 23)	19661.0	NM_001081557	100072.0	Mm.318846	NM_001081557	ENSMUSG00000014592	Camta1	1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833	calmodulin binding transcription activator 1	protein-coding	7.5	10.0	19.0	137.0	20.5	4.0	9.0	20.0
Merged-chr10-127619377-4	chr10	127619286	127619486	+	926.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 1 of 88)	intron (NM_008512, intron 1 of 88)	1762.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	9.5	21.5	52.5	443.0	24.5	10.0	27.0	20.0
Merged-chr5-114926385-4	chr5	114926299	114926499	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359946, intron 1 of 4)	intron (NM_001359946, intron 1 of 4)	3159.0	NM_001359945	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	8.0	28.5	7.0	152.5	48.5	15.5	4.0	5.5
Merged-chr19-26607967-3	chr19	26607847	26608047	+	899.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011416, intron 1 of 32)	intron (NM_011416, intron 1 of 32)	2787.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	6.0	10.5	11.5	95.5	10.0	7.0	11.5	9.0
Merged-chr17-35969887-4	chr17	35969805	35970005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013854)	promoter-TSS (NM_013854)	-155.0	NM_013854	224742.0	Mm.329022	NM_013854	ENSMUSG00000038762	Abcf1	AU041969|Abc50|D17Wsu166e|GCN20	ATP-binding cassette, sub-family F (GCN20), member 1	protein-coding	243.5	445.5	209.0	2542.0	550.0	227.0	221.0	227.5
Merged-chr13-37965527-5	chr13	37965345	37965545	+	951.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28763.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	30.5	37.5	42.0	462.0	30.5	10.0	18.5	18.5
Merged-chr14-14905061-4	chr14	14904923	14905123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 22 of 34)	intron (NM_001195229, intron 22 of 34)	84208.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	26.0	54.0	65.5	748.0	80.5	28.5	25.5	38.5
Merged-chr8-85082286-4	chr8	85082178	85082378	+	935.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010764)	promoter-TSS (NM_010764)	-991.0	NM_010764	17159.0	Mm.4219	NM_010764	ENSMUSG00000005142	Man2b1	AW107687|LAMAN	mannosidase 2, alpha B1	protein-coding	25.5	18.0	10.0	223.0	39.0	11.0	10.0	12.0
Merged-chr6-127267033-4	chr6	127266938	127267138	+	799.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	40929.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	14.0	20.0	9.0	86.5	48.5	16.5	13.0	10.5
Merged-chr17-65680302-4	chr17	65680187	65680387	+	884.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 5 of 6)	intron (NM_133685, intron 5 of 6)	-38083.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	18.5	14.5	5.0	231.0	32.0	8.0	24.5	15.0
Merged-chr8-81341790-3	chr8	81341655	81341855	+	704.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001297591)	promoter-TSS (NM_001297591)	-807.0	NM_001024617	234515.0	Mm.324468	NM_001024617	ENSMUSG00000037940	Inpp4b	E130107I17Rik	inositol polyphosphate-4-phosphatase, type II	protein-coding	14.0	17.0	12.0	103.0	13.0	2.5	8.5	5.5
Merged-chr6-129211559-3	chr6	129211475	129211675	+	926.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26470.0	NR_040265	76432.0	Mm.261738	NR_040265	ENSMUSG00000097354	2310001H17Rik	AI646108	RIKEN cDNA 2310001H17 gene	ncRNA	6.0	7.0	3.0	195.0	41.5	11.0	19.5	8.0
Merged-chr1-92179843-4	chr1	92179753	92179953	+	931.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207225, intron 1 of 26)	CpG	488.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	22.5	18.0	6.5	210.5	26.0	6.5	21.5	11.0
Merged-chr3-16210761-4	chr3	16210655	16210855	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172677, intron 5 of 5)	MLT1F2|LTR|ERVL-MaLR	27590.0	NM_172677	229096.0	Mm.23834	NM_172677	ENSMUSG00000047213	Ythdf3	9130022A11Rik	YTH domain family 3	protein-coding	28.0	23.5	24.0	524.5	27.5	11.5	25.5	23.0
Merged-chr1-77741493-4	chr1	77741397	77741597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20A|LTR|ERVK	-226409.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	54.0	67.5	75.5	2102.5	194.5	67.5	144.5	107.5
Merged-chr8-108730108-4	chr8	108729998	108730198	+	886.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	15454.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	26.0	11.0	9.0	248.5	43.0	12.5	14.0	18.5
Merged-chr15-58829038-4	chr15	58828923	58829123	+	977.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-5596.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	28.0	59.5	22.0	507.0	75.5	27.5	32.0	16.5
Merged-chr14-19968906-4	chr14	19968805	19969005	+	986.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285908, intron 1 of 3)	B1F|SINE|Alu	7788.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	17.5	15.5	35.5	359.5	55.5	31.0	15.0	23.5
Merged-chr9-110893724-4	chr9	110893697	110893897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153354, intron 17 of 25)	intron (NR_153354, intron 17 of 25)	13475.0	NM_001146060	235633.0	Mm.86338	NM_146228	ENSMUSG00000044037	Als2cl	79H19D|79H19E|BC022645|D930044G19Rik|mRn.49018	ALS2 C-terminal like	protein-coding	9.0	12.5	14.0	218.0	26.0	5.0	9.0	11.5
Merged-chr4-102808441-4	chr4	102808342	102808542	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144906, intron 1 of 23)	MTD|LTR|ERVL-MaLR	48307.0	NM_001285859	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	10.5	6.0	13.0	268.0	19.5	9.5	11.5	12.5
Merged-chr12-98320210-4	chr12	98320086	98320286	+	836.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51551.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	11.0	11.0	20.5	387.0	20.5	9.0	16.0	12.5
Merged-chr7-101352640-3	chr7	101352533	101352733	+	936.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	4564.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	9.5	11.0	11.5	202.0	10.5	5.5	10.5	3.0
Merged-chr9-111118354-8	chr9	111118278	111118478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164838, exon 1 of 15)	5' UTR (NM_001164838, exon 1 of 15)	267.0	NM_001164838	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	23.5	44.5	40.5	337.0	84.5	36.5	21.5	39.5
Merged-chr16-87625531-4	chr16	87625430	87625630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72200.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	241.5	337.0	258.0	3345.5	602.0	244.0	270.5	186.5
Merged-chr8-13596172-5	chr8	13595970	13596170	+	909.9428710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 5 of 23)	intron (NM_009025, intron 5 of 23)	-33609.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	6.0	6.0	9.5	42.5	30.5	4.5	7.0	11.5
Merged-chr8-71610231-3	chr8	71610138	71610338	+	693.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146211)	promoter-TSS (NM_146211)	-786.0	NM_146211	234407.0	Mm.240885	NM_146211	ENSMUSG00000034807	Colgalt1	2810024B22Rik|Glt25d1	collagen beta(1-O)galactosyltransferase 1	protein-coding	7.0	10.0	6.5	67.0	10.5	5.0	1.0	8.5
Merged-chr16-94617514-6	chr16	94617436	94617636	+	999.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 2 of 11)	intron (NM_001113389, intron 2 of 11)	6117.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	35.0	19.0	19.0	172.5	30.5	7.0	23.5	10.5
Merged-chr11-97999385-4	chr11	97999260	97999460	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3187.0	NR_152188	217151.0	Mm.277896	NM_207231	ENSMUSG00000038352	Arl5c	Arl12|BC065791	ADP-ribosylation factor-like 5C	protein-coding	15.0	90.0	21.5	146.0	145.0	40.5	42.5	38.0
Merged-chr17-12741359-4	chr17	12741344	12741544	+	812.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027773, intron 1 of 2)	CpG	133.0	NR_027784	104103.0	Mm.26553	NR_002853	ENSMUSG00000078247	Airn	2810051F02Rik|2810434M15Rik|AI256653|AI597500|AW049873|Air|B930018I07Rik|D17Ertd663e|IGF2RAS	antisense Igf2r RNA	ncRNA	4.5	8.5	4.0	57.5	21.0	9.0	8.0	11.5
Merged-chr10-120209596-6	chr10	120209531	120209731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026617, intron 1 of 6)	L1MB2|LINE|L1	805.0	NM_026617	68212.0	Mm.157426	NM_026617	ENSMUSG00000020225	Tmbim4	0610007H07Rik|AU022431	transmembrane BAX inhibitor motif containing 4	protein-coding	30.0	25.5	9.0	247.0	79.5	18.5	21.5	22.0
Merged-chr9-99563853-4	chr9	99563746	99563946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028768, intron 1 of 21)	intron (NM_028768, intron 1 of 21)	5053.0	NM_001166138	74125.0	Mm.234823	NM_028768	ENSMUSG00000032468	Armc8	1200015K23Rik|Gid5|HSPC056	armadillo repeat containing 8	protein-coding	29.0	39.0	40.5	689.0	126.5	37.5	52.0	51.5
Merged-chr11-26637886-4	chr11	26637806	26638006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43986.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	35.5	58.5	20.0	338.5	103.0	34.0	22.0	12.0
Merged-chr1-174354857-4	chr1	174354733	174354933	+	837.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14086.0	NM_207137	258238.0	Mm.377274	NM_207137	ENSMUSG00000066672	Olfr417	GA_x5J8B7W3B3M-312879-313274|GA_x6K02T2P20D-20787051-20786119|MOR267-11	olfactory receptor 417	protein-coding	8.5	9.5	7.0	143.5	38.0	9.0	10.5	20.5
Merged-chr2-163760766-3	chr2	163760620	163760820	+	875.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10481.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	21.5	14.0	16.0	421.5	31.0	3.0	6.0	8.5
Merged-chr16-5254497-4	chr16	5254386	5254586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027446, intron 1 of 7)	intron (NM_027446, intron 1 of 7)	1470.0	NM_027446	70511.0	Mm.45780	NM_027446	ENSMUSG00000022544	Eef2kmt	5730409G15Rik|Fam86|Fam86a|eEF2-KMT	eukaryotic elongation factor 2 lysine methyltransferase	protein-coding	125.5	143.0	86.0	1911.0	275.5	120.0	143.5	107.0
Merged-chr4-53124853-4	chr4	53124744	53124944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	L3|LINE|CR1	35051.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	118.5	129.0	86.5	1329.0	164.5	88.5	128.5	60.0
Merged-chr19-40661282-4	chr19	40661183	40661383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	1513.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	61.0	74.5	63.0	741.0	101.0	49.0	48.0	70.5
Merged-chr16-21411891-4	chr16	21411772	21411972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11246.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	37.5	50.0	37.5	454.5	83.5	24.5	27.5	25.5
Merged-chr4-89458786-4	chr4	89458667	89458867	+	958.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132431, intron 7 of 9)	intron (NR_132431, intron 7 of 9)	-147735.0	NM_007670	12579.0	Mm.423094	NM_007670	ENSMUSG00000073802	Cdkn2b	AV083695|INK4b|MTS2|p15|p15(INK4b)|p15INK4b	cyclin dependent kinase inhibitor 2B	protein-coding	16.5	22.0	20.5	549.0	38.0	8.0	21.5	16.5
Merged-chr5-123025434-4	chr5	123025332	123025532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175423, intron 1 of 1)	intron (NM_175423, intron 1 of 1)	10358.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	88.5	122.0	103.5	1422.5	146.5	47.0	73.0	93.0
Merged-chr14-118820257-3	chr14	118820125	118820325	+	846.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160097, intron 1 of 3)	intron (NM_001160097, intron 1 of 3)	32354.0	NM_001160097	58187.0	Mm.390755	NM_021386	ENSMUSG00000022132	Cldn10	6720456I16Rik|Cldn10a|Cldn10b|D14Ertd728e	claudin 10	protein-coding	20.5	9.5	16.0	206.5	16.0	2.0	2.5	9.0
Merged-chr7-30282946-4	chr7	30282803	30283003	+	969.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_144498, intron 2 of 2)	RMER19B|LTR|ERVK	-2482.0	NM_146186	233064.0	Mm.271677	NM_146186	ENSMUSG00000037020	Wdr62	2310038K02Rik|b2b1508Clo	WD repeat domain 62	protein-coding	89.0	136.5	75.5	897.0	37.0	9.5	16.5	28.0
Merged-chr5-113777060-4	chr5	113776983	113777183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025526, intron 4 of 4)	intron (NM_025526, intron 4 of 4)	4271.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	116.5	150.0	123.0	1741.0	243.5	74.0	141.0	129.0
Merged-chr7-6359364-3	chr7	6359264	6359464	+	946.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3944.0	NM_001025163	330463.0	Mm.136456	NM_177888	ENSMUSG00000055150	Zfp78	A330079D15|KRAB12|Zfp77	zinc finger protein 78	protein-coding	5.0	7.0	2.5	130.5	41.5	12.5	7.0	9.5
Merged-chr12-55485953-4	chr12	55485843	55486043	+	944.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	6704.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	19.5	44.5	19.0	127.5	60.5	18.5	16.0	22.0
Merged-chr13-111808403-8	chr13	111808230	111808430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	CpG	663.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	17.5	35.0	23.5	274.5	60.5	21.5	16.5	31.0
Merged-chr15-59077345-3	chr15	59077234	59077434	+	633.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 1 of 14)	intron (NM_144800, intron 1 of 14)	4692.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	16.5	6.0	6.5	83.5	6.0	2.0	2.0	5.5
Merged-chr19-5457546-4	chr19	5457433	5457633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243307)	promoter-TSS (NM_001243307)	30.0	NM_198616	240514.0	Mm.329657	NM_198616	ENSMUSG00000095098	Ccdc85b	AI842788|BB115872	coiled-coil domain containing 85B	protein-coding	52.0	90.0	62.0	820.0	128.5	47.5	54.0	40.5
Merged-chr7-93093933-1	chr7	93093833	93094033	+	559.0	f0_balb.idr	Intergenic	Intergenic	14054.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	5.5	8.5	4.5	49.5	4.0	3.5	5.5	3.0
Merged-chr12-72761781-4	chr12	72761670	72761870	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008910, intron 1 of 5)	CpG	559.0	NM_008910	19042.0	Mm.261045	NM_008910	ENSMUSG00000021096	Ppm1a	2310003C21Rik|2900017D14Rik|AI427932|AU017636|MMPa-2|MPPa-1	protein phosphatase 1A, magnesium dependent, alpha isoform	protein-coding	22.0	18.0	20.5	240.5	62.5	24.0	27.5	25.0
Merged-chr3-14893923-4	chr3	14893818	14894018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357334, intron 3 of 7)	intron (NM_001357334, intron 3 of 7)	7630.0	NM_009801	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	57.5	49.5	50.5	861.5	107.5	34.5	28.5	35.5
Merged-chr19-11813340-4	chr19	11813254	11813454	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	6049.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	20.0	50.0	10.0	126.0	55.0	21.0	1.0	7.0
Merged-chr1-78507396-4	chr1	78507275	78507475	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3685.0	NM_026713	68393.0	Mm.41325	NM_026713	ENSMUSG00000012187	Mogat1	0610030A14Rik|1110064N14Rik|Dgat2l|Dgat2l1|MGAT1|WI1-2612I11.1|mDC2	monoacylglycerol O-acyltransferase 1	protein-coding	14.5	7.5	20.0	293.5	40.0	3.5	24.5	17.0
Merged-chr13-19377392-4	chr13	19377302	19377502	+	853.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347485, intron 1 of 7)	intron (NM_001347485, intron 1 of 7)	18411.0	NM_024270	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	8.0	12.0	8.5	131.0	51.0	15.5	19.0	9.0
Merged-chr19-46369365-4	chr19	46369268	46369468	+	895.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029186, intron 6 of 8)	intron (NM_029186, intron 6 of 8)	12488.0	NM_029186	75146.0	Mm.159290	NM_029186	ENSMUSG00000025227	Mfsd13a	4930449A08Rik|4930538D17Rik|Tmem180	major facilitator superfamily domain containing 13a	protein-coding	17.0	19.5	11.5	269.0	25.5	4.5	12.0	20.5
Merged-chr9-107644788-4	chr9	107644678	107644878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9436.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	30.5	57.5	13.0	476.0	103.0	35.5	51.5	43.5
Merged-chr13-64308194-4	chr13	64308108	64308308	+	944.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025370, intron 4 of 5)	MTD|LTR|ERVL-MaLR	4502.0	NM_025370	66129.0	Mm.491110	NM_025370	ENSMUSG00000021482	Aaed1	1110018J18Rik|AI849003	AhpC/TSA antioxidant enzyme domain containing 1	protein-coding	64.5	99.0	93.0	1505.0	26.0	10.0	25.0	27.5
Merged-chr13-81104038-1	chr13	81103938	81104138	+	632.0	f0_balb.idr	intron (NM_054053, intron 88 of 89)	intron (NM_054053, intron 88 of 89)	139964.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	8.5	8.0	5.5	117.0	13.0	2.5	13.5	8.0
Merged-chr18-54937920-3	chr18	54937829	54938029	+	947.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	52251.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	23.5	16.0	13.5	244.0	14.0	2.5	4.5	6.5
Merged-chr1-152810839-4	chr1	152810786	152810986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 2 of 15)	intron (NM_010877, intron 2 of 15)	10733.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	56.5	90.0	57.5	775.0	76.0	48.5	33.5	80.0
Merged-chr10-75764363-4	chr10	75764267	75764467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172549)	promoter-TSS (NM_172549)	-10.0	NM_172549	104248.0	Mm.257404	NM_172549	ENSMUSG00000020196	Cabin1	A330070M20Rik|Cain|Ppp3in	calcineurin binding protein 1	protein-coding	226.0	291.5	198.0	3881.0	651.5	208.5	292.0	251.5
Merged-chr7-127904114-4	chr7	127904027	127904227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009739)	promoter-TSS (NM_009739)	54.0	NM_009739	12041.0	Mm.425495	NM_009739	ENSMUSG00000030802	Bckdk	AI327402	branched chain ketoacid dehydrogenase kinase	protein-coding	39.0	29.0	62.0	373.5	57.0	14.5	24.5	28.0
Merged-chr10-75744223-4	chr10	75744108	75744308	+	825.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 10 of 36)	intron (NM_172549, intron 10 of 36)	20149.0	NM_172549	104248.0	Mm.257404	NM_172549	ENSMUSG00000020196	Cabin1	A330070M20Rik|Cain|Ppp3in	calcineurin binding protein 1	protein-coding	8.5	17.5	9.0	120.0	44.0	6.5	9.0	17.0
Merged-chr12-113141527-4	chr12	113141417	113141617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347443, intron 1 of 6)	intron (NM_001347443, intron 1 of 6)	912.0	NM_001347443	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	25.5	50.5	41.5	613.0	62.0	21.0	64.5	31.5
Merged-chr4-45949306-4	chr4	45949193	45949393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198660, intron 36 of 37)	intron (NM_198660, intron 36 of 37)	-16042.0	NM_001290475	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	59.0	76.0	54.0	936.5	182.0	41.0	58.0	56.0
Merged-chr15-62043948-4	chr15	62043862	62044062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132746, intron 1 of 6)	intron (NR_132746, intron 1 of 6)	4705.0	NR_132746	19296.0	Mm.4608	NM_011222	ENSMUSG00000097039	Pvt1	Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1	Pvt1 oncogene	ncRNA	37.5	27.5	41.0	489.5	92.0	33.5	54.0	41.5
Merged-chr6-114838111-4	chr6	114838021	114838221	+	952.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 19 of 19)	MTD|LTR|ERVL-MaLR	83700.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	15.0	20.5	9.5	149.5	34.0	18.5	23.5	20.5
Merged-chr7-83884383-4	chr7	83884260	83884460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030705)	promoter-TSS (NM_030705)	-19.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	109.5	152.0	144.0	2013.5	321.0	147.5	163.0	139.0
Merged-chr8-94195067-4	chr8	94194984	94195184	+	949.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	15995.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	15.0	19.5	14.0	103.5	61.5	9.5	24.0	18.5
Merged-chr3-90245466-4	chr3	90245373	90245573	+	953.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1961.0	NM_030080	78284.0	Mm.299952	NM_030080	ENSMUSG00000027938	Creb3l4	1700012K17Rik|5330432F22Rik|AIBZIP|AV040530|AV258827|CREB4|JAL|TISP40|acre1	cAMP responsive element binding protein 3-like 4	protein-coding	13.5	26.5	7.0	233.0	66.0	18.0	18.0	23.5
Merged-chr17-14826912-4	chr17	14826802	14827002	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175173, intron 24 of 24)	intron (NM_175173, intron 24 of 24)	116222.0	NM_175173	71682.0	Mm.122698	NM_175173	ENSMUSG00000046991	Wdr27	0610012K18Rik	WD repeat domain 27	protein-coding	22.0	28.5	20.0	164.5	157.0	67.5	63.0	54.5
Merged-chr2-167761007-3	chr2	167760930	167761130	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69853.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	12.5	13.0	10.5	120.5	13.5	10.5	6.0	10.0
Merged-chr7-6383295-4	chr7	6383183	6383383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175247)	promoter-TSS (NM_175247)	-35.0	NM_175247	22690.0	Mm.127014	NM_175247	ENSMUSG00000062861	Zfp28	2810438M17Rik|Zfp-28|mkr-5	zinc finger protein 28	protein-coding	92.5	136.5	112.0	1975.0	274.0	111.0	143.5	82.5
Merged-chr9-83593073-3	chr9	83592970	83593170	+	910.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 2 of 3)	intron (NM_172507, intron 2 of 3)	44732.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	5.0	25.0	17.5	218.5	23.0	5.0	7.0	2.0
Merged-chr12-26460270-4	chr12	26460153	26460353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3801.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	118.0	210.5	69.0	1760.0	253.5	110.0	126.0	112.0
Merged-chr3-144693290-4	chr3	144693172	144693372	+	970.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 9 of 10)	intron (NM_001282037, intron 9 of 10)	27063.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	18.5	16.5	25.5	423.5	46.0	21.5	27.5	28.0
Merged-chr10-7792874-4	chr10	7792758	7792958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026141)	promoter-TSS (NM_026141)	-36.0	NM_026141	67418.0	Mm.38927	NM_026141	ENSMUSG00000015757	Ppil4	3732410E19Rik|3830425H19Rik|AI788954|AW146233|PPIase	peptidylprolyl isomerase (cyclophilin)-like 4	protein-coding	67.0	97.5	30.5	826.0	202.5	83.0	65.0	92.0
Merged-chr1-153553716-4	chr1	153553622	153553822	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4008.0	NM_028749	74091.0	Mm.24887	NM_028749	ENSMUSG00000042684	Npl	0610033B02Rik	N-acetylneuraminate pyruvate lyase	protein-coding	21.0	31.0	14.5	60.5	51.5	21.5	19.0	19.0
Merged-chr16-23279970-4	chr16	23279876	23280076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	intron (NM_001252505, intron 2 of 7)	-10494.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	104.0	100.0	105.5	1434.5	171.5	58.0	93.5	91.0
Merged-chr18-4790510-4	chr18	4790436	4790636	+	834.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus4|LINE|L1	-21950.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	6.0	16.0	13.0	152.5	16.0	3.5	6.5	13.0
Merged-chr15-66816655-4	chr15	66816558	66816758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	15171.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	123.0	181.0	131.0	1560.0	219.0	109.5	94.5	80.5
Merged-chr3-41038689-4	chr3	41038568	41038768	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44378.0	NM_027558	70804.0	Mm.40321	NM_027558	ENSMUSG00000049940	Pgrmc2	4631434O19Rik|5730409G06Rik|DG6|PMBP	progesterone receptor membrane component 2	protein-coding	19.0	9.0	9.0	156.5	39.5	7.0	19.5	20.0
Merged-chr11-29694270-4	chr11	29694125	29694325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194051, intron 1 of 8)	intron (NM_194051, intron 1 of 8)	451.0	NM_194051	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	43.5	57.0	35.5	550.5	95.5	28.0	43.0	24.0
Merged-chr16-12471746-4	chr16	12471633	12471833	+	927.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-339657.0	NR_040507	75493.0	Mm.396146	NR_040507	ENSMUSG00000101565	1700003L19Rik	-	RIKEN cDNA 1700003L19 gene	ncRNA	26.0	36.0	4.0	406.0	38.0	17.0	9.0	11.0
Merged-chr9-7873025-4	chr9	7872918	7873118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007464, exon 1 of 9)	5' UTR (NM_007464, exon 1 of 9)	152.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	326.5	590.0	314.0	3382.5	942.0	348.5	439.0	302.0
Merged-chr2-167680160-4	chr2	167680071	167680271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8744.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	37.0	61.5	21.0	559.0	90.0	39.5	35.0	35.5
Merged-chr5-137883112-4	chr5	137883017	137883217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11359.0	NM_001024932	545812.0	Mm.332769	NM_001024932	ENSMUSG00000066682	Pilrb2	EG545812	paired immunoglobin-like type 2 receptor beta 2	protein-coding	49.0	64.0	63.0	760.5	97.0	41.0	45.5	39.5
Merged-chr5-121848257-4	chr5	121848168	121848368	+	811.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359949)	promoter-TSS (NM_001359949)	-729.0	NM_175474	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	10.5	28.5	15.5	176.5	15.5	10.0	11.5	12.0
Merged-chr9-44083975-3	chr9	44083867	44084067	+	879.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198091)	promoter-TSS (NM_198091)	-953.0	NM_198091	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	9.0	8.5	15.5	179.0	18.5	7.0	4.5	10.5
Merged-chr5-123136604-4	chr5	123136518	123136718	+	976.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3989.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	17.0	39.0	23.5	208.5	51.5	13.5	23.5	26.0
Merged-chr2-34776065-4	chr2	34775977	34776177	+	846.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022310, exon 8 of 8)	exon (NM_022310, exon 8 of 8)	3987.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	13.0	12.0	4.5	105.5	28.0	12.5	13.0	12.0
Merged-chr13-112344623-4	chr13	112344511	112344711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001168405)	TTS (NM_001168405)	56093.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	101.0	122.5	167.5	1540.5	165.5	64.5	96.0	72.0
Merged-chr1-72307536-4	chr1	72307448	72307648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009533, exon 1 of 21)	exon (NM_009533, exon 1 of 21)	127.0	NM_001357519	22596.0	Mm.246952	NM_009533	ENSMUSG00000026187	Xrcc5	AI314015|CTC85|CTCBF|Ku80|Ku86	X-ray repair complementing defective repair in Chinese hamster cells 5	protein-coding	35.5	60.0	64.0	797.0	114.0	45.0	59.0	57.0
Merged-chr15-100085114-4	chr15	100085017	100085217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 2 of 3)	B1_Mur2|SINE|Alu	46453.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	43.0	60.5	60.5	788.0	61.5	35.5	47.0	48.0
Merged-chr1-151958672-4	chr1	151958571	151958771	+	971.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	L1M3|LINE|L1	131649.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	27.5	24.5	10.5	479.5	65.5	30.5	24.5	34.5
Merged-chr9-58248976-4	chr9	58248890	58249090	+	930.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008884, intron 1 of 7)	intron (NM_008884, intron 1 of 7)	796.0	NM_008884	18854.0	Mm.392123	NM_008884	ENSMUSG00000036986	Pml	1200009E24Rik|AI661194|Trim19	promyelocytic leukemia	protein-coding	17.0	25.0	12.5	237.0	35.0	13.5	14.5	11.0
Merged-chr12-73765314-3	chr12	73765205	73765405	+	822.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 12 of 13)	intron (NM_008856, intron 12 of 13)	-136019.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	10.0	25.0	9.5	171.0	15.0	6.5	7.5	8.5
Merged-chr18-23819365-3	chr18	23819266	23819466	+	847.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	15396.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	16.5	14.0	15.5	85.0	27.0	5.0	8.5	0.5
Merged-chr8-108737393-3	chr8	108737312	108737512	+	661.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	22768.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	6.5	1.0	5.0	42.5	28.0	9.5	6.0	9.0
Merged-chr5-139017609-1	chr5	139017509	139017709	+	963.0	f0_c57.idr	3' UTR (NM_001253890, exon 11 of 11)	3' UTR (NM_001253890, exon 11 of 11)	-22656.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	16.0	20.5	12.5	147.5	35.5	18.5	22.0	20.5
Merged-chr9-120054999-4	chr9	120054915	120055115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009987, intron 1 of 1)	intron (NM_009987, intron 1 of 1)	13281.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	40.5	63.5	49.0	459.0	107.5	39.5	22.0	43.5
Merged-chr11-106815600-4	chr11	106815482	106815682	+	975.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177088, exon 15 of 20)	exon (NM_177088, exon 15 of 20)	26330.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	38.5	104.5	23.0	287.0	116.5	26.5	31.5	17.0
Merged-chr14-65593064-4	chr14	65592990	65593190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253812)	promoter-TSS (NM_001253812)	22.0	NM_001253812	74195.0	Mm.29719	NM_028811	ENSMUSG00000022031	Elp3	2610507P14Rik|KAT9	elongator acetyltransferase complex subunit 3	protein-coding	69.5	111.0	56.5	774.5	201.0	63.0	82.0	76.0
Merged-chr2-167932289-4	chr2	167932209	167932409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011201)	promoter-TSS (NM_011201)	-18.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	173.5	253.5	163.5	2101.5	352.5	170.0	181.5	159.5
Merged-chr7-100952213-4	chr7	100952095	100952295	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	12171.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	18.0	20.5	18.0	307.0	46.0	5.0	25.5	10.0
Merged-chr16-21909114-3	chr16	21909001	21909201	+	856.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172821, intron 7 of 12)	intron (NM_172821, intron 7 of 12)	17132.0	NM_172821	71751.0	Mm.420837	NM_172821	ENSMUSG00000033618	Map3k13	C130026N12Rik|LZK	mitogen-activated protein kinase kinase kinase 13	protein-coding	7.5	9.5	6.0	199.5	9.5	7.5	6.0	3.0
Merged-chr12-101082479-1	chr12	101082379	101082579	+	674.0	f0_balb.idr	promoter-TSS (NR_038047)	promoter-TSS (NR_038047)	28.0	NR_038049	319760.0	Mm.440198	NM_176997	ENSMUSG00000097121	D130020L05Rik	9430007L23Rik	RIKEN cDNA D130020L05 gene	ncRNA	13.0	14.0	2.0	76.0	24.5	12.0	12.0	15.5
Merged-chr2-70986967-4	chr2	70986865	70987065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 3 of 9)	(CA)n|Simple_repeat|Simple_repeat	31409.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	22.5	26.0	25.0	308.5	72.5	34.5	28.0	35.5
Merged-chr7-6127261-4	chr7	6127157	6127357	+	942.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28714.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	25.5	33.5	10.0	386.0	77.0	19.5	16.5	16.5
Merged-chr17-88528011-3	chr17	88527908	88528108	+	865.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2116.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	11.5	5.0	8.5	111.0	27.0	9.0	8.0	6.5
Merged-chr11-84141927-3	chr11	84141835	84142035	+	903.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12367.0	NM_172562	217031.0	Mm.45159	NM_172562	ENSMUSG00000018651	Tada2a	AV319371|D030022J10Rik|Tada2l	transcriptional adaptor 2A	protein-coding	11.5	29.0	14.5	46.5	28.5	20.5	10.0	10.0
Merged-chr2-50842087-4	chr2	50841960	50842160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67624.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	168.5	230.0	165.5	3068.0	399.5	133.5	192.0	182.0
Merged-chr15-59653063-4	chr15	59652969	59653169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144549, intron 2 of 2)	intron (NM_144549, intron 2 of 2)	4415.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	75.5	151.0	79.5	1171.5	196.0	80.5	68.5	66.0
Merged-chr7-44816855-3	chr7	44816765	44816965	+	913.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033136)	promoter-TSS (NR_033136)	-207.0	NR_033136	107503.0	Mm.389890	NM_030693	ENSMUSG00000038539	Atf5	AFTA|Atf7|Atfx|ODA-10	activating transcription factor 5	protein-coding	6.5	7.5	4.5	151.5	23.5	5.0	10.5	10.5
Merged-chr2-164834643-4	chr2	164834494	164834694	+	823.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082974)	promoter-TSS (NM_001082974)	821.0	NM_008906	19025.0	Mm.359633	NM_008906	ENSMUSG00000017760	Ctsa	AU019505|PPCA|Ppgb	cathepsin A	protein-coding	6.5	5.0	14.5	138.5	21.0	10.5	10.5	11.5
Merged-chr1-59912924-4	chr1	59912821	59913021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037725)	promoter-TSS (NM_001037725)	-85.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	146.5	202.5	135.5	2376.0	479.0	163.0	246.5	187.5
Merged-chr4-149792443-4	chr4	149792328	149792528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18161.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	210.0	322.5	210.0	3268.5	484.0	180.5	248.0	238.0
Merged-chr7-81859093-4	chr7	81859011	81859211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_111910, exon 1 of 8)	non-coding (NR_111910, exon 1 of 8)	110.0	NM_145375	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	43.5	44.5	33.0	444.5	46.0	25.5	35.5	28.0
Merged-chr8-117069876-4	chr8	117069767	117069967	+	931.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029686, intron 5 of 42)	intron (NM_029686, intron 5 of 42)	12582.0	NM_029686	76645.0	Mm.159753	NM_029686	ENSMUSG00000034416	Pkd1l2	1700126L06Rik	polycystic kidney disease 1 like 2	protein-coding	12.5	9.0	4.5	216.5	23.0	8.5	13.5	20.0
Merged-chr2-75792915-4	chr2	75792794	75792994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39283.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	36.5	43.0	38.5	605.0	95.5	27.0	29.5	50.5
Merged-chr1-136683942-4	chr1	136683850	136684050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045325, intron 1 of 2)	intron (NR_045325, intron 1 of 2)	321.0	NR_045325	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	121.0	126.0	139.5	1729.0	253.0	77.5	99.0	77.0
Merged-chr2-90559111-4	chr2	90559020	90559220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	21527.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	66.5	103.5	45.5	638.0	133.0	66.0	62.0	51.0
Merged-chr19-29464193-3	chr19	29464085	29464285	+	859.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	B2_Mm2|SINE|B2	53266.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	14.5	13.5	12.0	91.0	27.0	2.5	22.0	14.0
Merged-chr9-50775405-4	chr9	50775393	50775593	+	972.0595089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133981, exon 1 of 15)	exon (NM_133981, exon 1 of 15)	268.0	NR_045601	102580.0	Mm.160035	NM_133981	ENSMUSG00000032059	Alg9	8230402H15Rik|AI747665|B430313H07Rik|Dibd1	asparagine-linked glycosylation 9 (alpha 1,2 mannosyltransferase)	protein-coding	15.5	18.5	17.0	94.0	21.5	5.0	11.0	15.0
Merged-chr10-79533838-4	chr10	79533760	79533960	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302442)	promoter-TSS (NM_001302442)	-73.0	NM_001302389	50784.0	Mm.28873	NM_015817	ENSMUSG00000052151	Plpp2	Lpp2|PAP2-G|PAP2-gamma|PAP2c|Ppap2c	phospholipid phosphatase 2	protein-coding	21.0	22.0	11.5	158.0	30.5	12.0	14.5	10.0
Merged-chr11-109377537-4	chr11	109377414	109377614	+	795.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010303, intron 2 of 3)	MTD|LTR|ERVL-MaLR	-13860.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	7.0	8.5	3.0	123.5	25.0	11.0	5.5	8.0
Merged-chr5-135489252-4	chr5	135489156	135489356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	CpG	55866.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	62.0	106.5	64.5	714.5	184.5	37.0	55.0	52.0
Merged-chr4-57959419-4	chr4	57959320	57959520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3009.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	62.5	68.5	84.0	1506.0	170.5	67.5	109.5	74.5
Merged-chr5-123128594-4	chr5	123128530	123128730	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175092, intron 2 of 4)	intron (NM_175092, intron 2 of 4)	3999.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	27.5	29.0	7.0	225.5	32.5	19.5	16.5	17.5
Merged-chr15-39659657-4	chr15	39659505	39659705	+	746.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256384)	promoter-TSS (NM_001256384)	94.0	NM_001256384	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	2.0	9.0	12.0	137.0	20.0	6.5	8.0	19.5
Merged-chr1-7824211-3	chr1	7824114	7824314	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	735294.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	27.0	41.0	39.5	793.0	10.0	3.0	7.5	2.5
Merged-chr18-67699752-4	chr18	67699660	67699860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008977, intron 2 of 9)	intron (NM_008977, intron 2 of 9)	24861.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	38.5	51.5	27.5	622.0	105.0	49.0	62.5	30.0
Merged-chr14-67188506-4	chr14	67188414	67188614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44778.0	NM_010095	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	56.5	84.5	39.5	518.5	104.0	42.5	49.0	39.5
Merged-chr2-18992749-3	chr2	18992647	18992847	+	937.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	RLTR12G|LTR|ERVK	5374.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	16.0	30.5	6.5	130.0	15.5	6.5	5.5	9.5
Merged-chr6-29540498-4	chr6	29540398	29540598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347079)	TTS (NM_001347079)	11216.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	49.5	69.0	55.0	868.0	88.0	33.0	73.5	50.0
Merged-chr9-31151304-3	chr9	31151220	31151420	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357698, intron 17 of 17)	intron (NM_001357698, intron 17 of 17)	-19521.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	8.5	6.5	2.0	74.0	11.5	5.0	5.0	7.0
Merged-chr9-31009479-4	chr9	31009374	31009574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-21170.0	NM_001115130	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	56.0	84.0	39.5	478.5	157.5	38.0	43.0	35.0
Merged-chr15-76246806-4	chr15	76246724	76246924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023168)	promoter-TSS (NM_023168)	17.0	NM_023168	66168.0	Mm.41665	NM_023168	ENSMUSG00000022564	Grina	1110025J15Rik|Lag|Tmbim3	glutamate receptor, ionotropic, N-methyl D-aspartate-associated protein 1 (glutamate binding)	protein-coding	31.5	76.5	44.0	536.0	123.5	51.5	44.0	45.0
Merged-chr11-54885091-4	chr11	54885011	54885211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17743.0	NM_001329860	14778.0	Mm.200916	NM_008161	ENSMUSG00000018339	Gpx3	AA960521|EGPx|GPx|GSHPx-3|GSHPx-P	glutathione peroxidase 3	protein-coding	103.0	117.0	93.5	1627.5	149.0	66.5	88.5	71.0
Merged-chr15-6554806-4	chr15	6554732	6554932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25015.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	33.0	34.5	27.0	346.5	39.0	23.5	23.0	18.0
Merged-chr4-150545010-4	chr4	150544887	150545087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	107187.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	92.0	140.5	86.5	1448.0	125.5	56.5	57.5	70.0
Merged-chr7-109463028-3	chr7	109462936	109463136	+	889.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170913, intron 10 of 19)	intron (NM_001170913, intron 10 of 19)	-23983.0	NM_054103	117229.0	Mm.389950	NM_054103	ENSMUSG00000031027	Stk33	4921505G21Rik|AW061264	serine/threonine kinase 33	protein-coding	13.5	5.5	9.0	109.0	10.5	4.5	13.0	5.5
Merged-chr12-3310051-4	chr12	3309946	3310146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016676)	promoter-TSS (NM_016676)	-77.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	288.0	433.0	284.5	3975.0	668.0	247.5	380.5	254.0
Merged-chr10-68193056-3	chr10	68192878	68193078	+	981.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	85748.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	23.5	17.5	9.0	271.0	5.0	1.0	4.0	2.0
Merged-chr1-182528720-4	chr1	182528611	182528811	+	908.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-11101.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	29.5	33.0	10.0	249.5	51.0	12.0	13.0	32.5
Merged-chr10-118609295-4	chr10	118609177	118609377	+	830.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52752.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	11.5	14.5	6.0	214.0	19.0	6.0	8.5	5.5
Merged-chr10-17947772-2	chr10	17947672	17947872	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001033432, exon 1 of 4)	exon (NM_001033432, exon 1 of 4)	295.0	NM_001033432	380629.0	Mm.276430	NM_001033432	ENSMUSG00000039879	Heca	Gm869|HDC|HDCL	hdc homolog, cell cycle regulator	protein-coding	17.5	17.0	12.5	199.5	41.5	15.5	11.0	18.0
Merged-chr12-34142967-4	chr12	34142856	34143056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 24 of 27)	intron (NM_001271386, intron 24 of 27)	185285.0	NM_011658	22160.0	Mm.3280	NM_011658	ENSMUSG00000035799	Twist1	M-Twist|Pde|Ska10|Ska<m10Jus>|Twist|bHLHa38|pdt	twist basic helix-loop-helix transcription factor 1	protein-coding	45.5	61.0	40.5	592.5	82.5	23.5	32.5	30.5
Merged-chr18-23887529-3	chr18	23887444	23887644	+	824.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 7 of 7)	L2c|LINE|L2	-67144.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	12.0	12.5	22.0	269.5	5.0	1.0	2.5	9.5
Merged-chr11-20149791-4	chr11	20149695	20149895	+	732.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-36844.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	14.0	18.5	9.0	33.0	34.5	4.5	5.5	16.5
Merged-chr10-57835283-4	chr10	57835212	57835412	+	912.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40768.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	14.5	35.0	47.5	591.5	23.0	8.5	14.5	17.0
Merged-chr14-30764606-3	chr14	30764503	30764703	+	813.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166531, intron 2 of 21)	intron (NM_001166531, intron 2 of 21)	48988.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	13.5	15.0	4.0	88.5	19.0	12.0	5.5	13.5
Merged-chr8-36130384-3	chr8	36130260	36130460	+	940.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172911, intron 4 of 5)	intron (NM_172911, intron 4 of 5)	-25650.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	7.5	7.0	8.0	112.0	2.5	3.0	1.0	4.0
Merged-chr3-107099761-4	chr3	107099678	107099878	+	783.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-1789.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	6.5	10.5	9.5	179.5	35.5	12.0	9.5	11.0
Merged-chr19-47449080-4	chr19	47448960	47449160	+	795.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	MIR|SINE|MIR	15351.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	8.0	13.0	5.0	60.5	40.5	8.5	11.0	6.5
Merged-chr11-120555062-4	chr11	120554957	120555157	+	903.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3925.0	NM_026814	68701.0	Mm.46477	NM_026814	ENSMUSG00000025129	Ppp1r27	1110033I14Rik|Dysfip1|toonin	protein phosphatase 1, regulatory subunit 27	protein-coding	22.0	17.0	14.5	315.0	45.0	16.5	15.0	17.0
Merged-chr3-60408937-5	chr3	60408791	60408991	+	906.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63939.0	NM_001253713	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	8.0	6.5	12.0	132.5	36.5	11.0	12.5	20.5
Merged-chr12-85602046-3	chr12	85601921	85602121	+	860.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205053, intron 1 of 3)	intron (NM_001205053, intron 1 of 3)	2003.0	NM_001205053	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	8.0	14.5	12.0	82.0	12.5	8.5	4.5	10.5
Merged-chr15-101317971-3	chr15	101317866	101318066	+	734.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	24754.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	10.5	15.5	2.5	92.0	15.5	8.5	7.0	13.5
Merged-chr17-46874268-4	chr17	46874162	46874362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16359.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	50.5	75.5	35.0	618.5	132.5	55.5	49.0	45.5
Merged-chr17-32284056-4	chr17	32283953	32284153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198094)	promoter-TSS (NM_198094)	70.0	NM_198094	57261.0	Mm.253518	NM_020508	ENSMUSG00000024002	Brd4	Brd5|HUNK1|MCAP|WI-11513	bromodomain containing 4	protein-coding	96.0	114.0	81.5	1313.0	159.0	77.0	81.5	62.5
Merged-chr4-130914164-4	chr4	130914072	130914272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	L3b|LINE|CR1	838.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	126.0	183.5	145.5	2354.5	346.0	111.5	155.5	129.5
Merged-chr4-145258228-4	chr4	145258132	145258332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11362.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	202.0	260.0	145.5	1595.0	332.0	115.0	127.0	116.5
Merged-chr6-115539137-4	chr6	115539041	115539241	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5563.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	22.5	31.5	14.5	234.0	45.0	17.5	17.0	17.5
Merged-chr2-128122557-3	chr2	128122433	128122633	+	743.955566	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028765, intron 17 of 17)	intron (NM_028765, intron 17 of 17)	-3505.0	NM_207681	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	12.0	15.5	2.5	113.5	19.5	4.5	6.0	8.0
Merged-chr14-31206762-4	chr14	31206649	31206849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022656)	promoter-TSS (NM_022656)	77.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	59.5	74.0	33.5	765.0	103.5	42.0	37.5	39.5
Merged-chr13-4771639-4	chr13	4771525	4771725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162461.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	314.0	390.0	298.5	4949.5	871.0	352.5	423.0	342.0
Merged-chr17-27857756-4	chr17	27857646	27857846	+	758.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080769, intron 1 of 20)	intron (NM_001080769, intron 1 of 20)	1239.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	12.0	5.0	9.0	66.0	11.5	12.5	3.5	9.0
Merged-chr8-86807859-4	chr8	86807675	86807875	+	636.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61769.0	NM_009172	20437.0	Mm.324553	NM_009172	ENSMUSG00000036840	Siah1a	AA982064|AI853500|Sinh1a	siah E3 ubiquitin protein ligase 1A	protein-coding	8.5	9.5	9.5	179.5	7.0	4.5	3.0	10.0
Merged-chr2-129380385-4	chr2	129380296	129380496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR18D_MM|LTR|ERVK	-9257.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	59.5	115.5	74.5	1083.0	197.5	71.5	77.5	71.5
Merged-chr11-80383279-4	chr11	80383221	80383421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011751)	promoter-TSS (NM_011751)	42.0	NM_001130171	22680.0	Mm.401332	NM_011751	ENSMUSG00000017421	Zfp207	8430401D15Rik|BuGZ|Zep|Znf207	zinc finger protein 207	protein-coding	45.5	72.0	32.5	527.0	122.5	47.0	48.0	30.5
Merged-chr5-72262166-4	chr5	72262065	72262265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 11 of 22)	intron (NR_003966, intron 11 of 22)	58822.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	99.0	123.5	87.0	1980.5	219.0	85.5	107.0	116.5
Merged-chr9-113793324-4	chr9	113793265	113793465	+	902.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286603)	promoter-TSS (NM_001286603)	35.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	18.0	12.0	10.0	179.5	23.5	4.5	13.5	13.5
Merged-chr6-35148193-3	chr6	35148095	35148295	+	659.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-14458.0	NM_001164414	53621.0	Mm.214525	NM_016877	ENSMUSG00000038784	Cnot4	Not4|Not4h|Not4hp	CCR4-NOT transcription complex, subunit 4	protein-coding	6.0	2.0	6.5	80.5	12.5	5.5	8.0	9.5
Merged-chr18-67500743-3	chr18	67500647	67500847	+	701.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176832, intron 9 of 13)	intron (NM_176832, intron 9 of 13)	35898.0	NM_144867	225655.0	Mm.221420	NM_144867	ENSMUSG00000024530	Prelid3a	A230074A19Rik|BC019561|Slmo1	PRELI domain containing 3A	protein-coding	9.0	13.0	12.0	190.5	6.5	4.5	0.5	5.0
Merged-chr19-5846766-4	chr19	5846635	5846835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1255.0	NR_003513	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	167.0	329.0	138.0	2642.5	428.5	162.0	189.0	178.0
Merged-chr5-72270160-1	chr5	72270060	72270260	+	1000.0	f0_balb.idr	intron (NR_003966, intron 15 of 22)	intron (NR_003966, intron 15 of 22)	66817.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	12.0	5.5	7.5	184.0	23.0	6.5	6.0	17.0
Merged-chr10-99204721-4	chr10	99204595	99204795	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58536.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	32.0	28.5	13.5	189.5	29.0	13.5	22.5	23.5
Merged-chr5-115560531-2	chr5	115560448	115560648	+	890.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_007475, intron 2 of 6)	intron (NM_007475, intron 2 of 6)	1081.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	4.5	8.0	6.5	34.0	2.5	1.0	5.0	3.5
Merged-chr17-71184035-3	chr17	71183933	71184133	+	863.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022882)	promoter-TSS (NM_022882)	55.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	7.0	12.5	11.5	91.0	28.0	15.5	11.0	14.0
Merged-chr7-29518652-4	chr7	29518538	29518738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-13178.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	276.5	374.5	306.5	4300.5	456.5	182.5	313.0	223.0
Merged-chr19-43674996-4	chr19	43674869	43675069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145156)	promoter-TSS (NM_145156)	-88.0	NM_001356944	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	285.5	387.5	269.5	4250.0	666.0	278.5	316.5	256.0
Merged-chr14-99046280-4	chr14	99046192	99046392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175245)	promoter-TSS (NM_175245)	-85.0	NR_153765	77744.0	Mm.23503	NM_175265	ENSMUSG00000022070	Bora	6720463M24Rik|AI317232	bora, aurora kinase A activator	protein-coding	263.5	447.5	307.0	4655.5	642.5	181.5	337.5	231.0
Merged-chr9-124071704-4	chr9	124071608	124071808	+	990.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30475.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	28.0	37.0	47.0	516.5	34.5	29.0	32.5	40.0
Merged-chr17-46453529-3	chr17	46453424	46453624	+	894.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162864, intron 13 of 14)	intron (NM_001162864, intron 13 of 14)	-15047.0	NM_144856	108114.0	Mm.387538	NM_144856	ENSMUSG00000067144	Slc22a7	NLT|OAT2	solute carrier family 22 (organic anion transporter), member 7	protein-coding	2.5	12.0	11.5	120.5	16.5	7.0	10.5	7.5
Merged-chr4-132732545-4	chr4	132732444	132732644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201368)	promoter-TSS (NM_201368)	2.0	NM_201368	381560.0	Mm.44558	NM_201368	ENSMUSG00000037752	Xkr8	4931440N07Rik|AI597014|Gm1031|XRG8|mXkr8	X-linked Kx blood group related 8	protein-coding	150.0	162.5	115.0	1781.5	281.5	113.5	108.5	116.0
Merged-chr12-24735321-3	chr12	24735236	24735436	+	794.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	27082.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	5.0	13.5	12.0	233.5	10.5	4.5	10.0	2.5
Merged-chr6-82769917-4	chr6	82769813	82770013	+	934.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	intron (NM_013820, intron 1 of 17)	4541.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	13.5	23.5	8.0	138.5	75.0	12.5	16.5	17.0
Merged-chr13-103505214-3	chr13	103505120	103505320	+	768.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-170728.0	NM_175171	328329.0	Mm.202606	NM_175171	ENSMUSG00000034751	Mast4	4930420O11Rik|AI642422|mKIAA0303	microtubule associated serine/threonine kinase family member 4	protein-coding	8.0	18.0	13.5	148.5	10.5	1.0	7.5	4.5
Merged-chr15-103514825-2	chr15	103514725	103514925	+	867.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285890)	promoter-TSS (NM_001285890)	-152.0	NM_001285890	18574.0	Mm.390792	NM_008800	ENSMUSG00000022489	Pde1b	Pde1b1	phosphodiesterase 1B, Ca2+-calmodulin dependent	protein-coding	6.5	4.5	5.5	25.5	5.5	3.5	3.5	2.5
Merged-chr7-75848268-4	chr7	75848163	75848363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182782)	promoter-TSS (NM_182782)	-75.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	152.0	212.5	127.0	3009.5	339.0	147.5	211.0	115.0
Merged-chr4-48051927-5	chr4	48051929	48052129	+	716.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001307989, exon 1 of 3)	exon (NM_001307989, exon 1 of 3)	783.0	NM_001307989	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	6.5	6.5	5.5	68.5	7.0	6.5	2.5	11.0
Merged-chr13-64398277-4	chr13	64398187	64398387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27767.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	54.5	70.0	43.5	881.5	40.0	27.5	23.5	19.5
Merged-chr16-56037790-4	chr16	56037690	56037890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029092)	promoter-TSS (NM_029092)	-16.0	NM_029092	52575.0	Mm.288742	NM_029092	ENSMUSG00000044763	Trmt10c	1300018J16Rik|D16Ertd454e|Rg9mtd1|Rnmtd1	tRNA methyltransferase 10C	protein-coding	147.0	237.5	113.5	2123.5	337.5	129.0	189.0	160.5
Merged-chr9-21136590-4	chr9	21136520	21136720	+	963.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5345.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	18.5	33.5	27.5	204.5	93.5	13.5	28.5	18.0
Merged-chr12-116442797-4	chr12	116442697	116442897	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133762, intron 23 of 28)	intron (NM_133762, intron 23 of 28)	37395.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	13.5	3.5	33.0	545.0	89.5	30.0	44.0	29.5
Merged-chr10-84622294-4	chr10	84622212	84622412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027423)	promoter-TSS (NM_027423)	-125.0	NM_027423	70428.0	Mm.335007	NM_027423	ENSMUSG00000034453	Polr3b	2700078H01Rik|A330032P03Rik|C85372|RPC2	polymerase (RNA) III (DNA directed) polypeptide B	protein-coding	35.5	53.0	35.5	812.0	125.0	33.0	50.0	33.5
Merged-chr1-134344800-2	chr1	134344700	134344900	+	962.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-11872.0	NM_001144855	68507.0	Mm.295105	NM_001144855	ENSMUSG00000026458	Ppfia4	100042382|1110008G13Rik|AI448359|AI852265|C81506|Gm3812	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 4	protein-coding	8.5	12.0	6.5	46.5	19.0	6.5	7.0	9.0
Merged-chr2-170206492-1	chr2	170206392	170206592	+	646.0	f0_balb.idr	Intergenic	Intergenic	-63817.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	5.0	14.0	11.0	101.0	10.0	8.0	10.0	16.5
Merged-chr19-45812302-4	chr19	45812174	45812374	+	818.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276358)	promoter-TSS (NM_001276358)	17.0	NM_001276358	80906.0	Mm.213204	NM_030716	ENSMUSG00000025221	Kcnip2	KChIP2	Kv channel-interacting protein 2	protein-coding	9.5	14.5	2.0	104.0	21.5	4.5	12.5	8.0
Merged-chr15-99825180-3	chr15	99825070	99825270	+	794.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113545, intron 3 of 10)	ID_B1|SINE|B4	-5021.0	NM_023063	65970.0	Mm.33207	NM_023063	ENSMUSG00000023022	Lima1	Eplin	LIM domain and actin binding 1	protein-coding	7.5	6.5	1.0	89.0	8.0	6.5	6.0	10.0
Merged-chr14-70403163-3	chr14	70403057	70403257	+	691.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021308, intron 10 of 22)	intron (NM_021308, intron 10 of 22)	25937.0	NM_021308	57746.0	Mm.85253	NM_021308	ENSMUSG00000033644	Piwil2	Piwil1l|mili	piwi-like RNA-mediated gene silencing 2	protein-coding	8.0	4.0	2.0	101.0	10.5	5.0	5.0	11.5
Merged-chr4-132963681-4	chr4	132963596	132963796	+	961.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10399.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	25.0	51.0	24.5	186.0	51.5	20.0	17.5	9.5
Merged-chr17-65886313-5	chr17	65886164	65886364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009067)	promoter-TSS (NM_009067)	-509.0	NM_009067	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	21.0	22.0	40.5	453.0	53.5	16.0	28.0	21.5
Merged-chr11-3193184-4	chr11	3193200	3193400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 1 of 32)	CpG	163.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	363.0	338.0	560.5	5393.5	155.0	86.5	79.5	114.5
Merged-chr6-100370506-4	chr6	100370413	100370613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC1|LINE|L1	-83155.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	42.5	49.0	25.5	377.0	101.5	55.0	40.5	31.5
Merged-chr5-144126182-4	chr5	144126087	144126287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081109, intron 1 of 13)	intron (NM_001081109, intron 1 of 13)	25751.0	NM_001081109	231876.0	Mm.288726	NM_001081109	ENSMUSG00000038970	Lmtk2	2900041G10Rik|A330101P12Rik|BREK|KPI-2|KPI2|aatyk2|cprk	lemur tyrosine kinase 2	protein-coding	53.5	70.5	54.0	609.5	113.0	63.5	34.0	40.5
Merged-chr9-119937592-4	chr9	119937489	119937689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028976)	promoter-TSS (NM_028976)	-17.0	NM_028735	74052.0	Mm.189573	NM_028735	ENSMUSG00000032514	Ttc21a	4921538N17Rik|AA387572|Thm2	tetratricopeptide repeat domain 21A	protein-coding	95.5	148.0	58.0	1102.0	298.0	111.0	109.5	85.0
Merged-chr1-87659423-4	chr1	87659313	87659513	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	intron (NM_001110192, intron 2 of 26)	39101.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	113.5	167.0	87.0	1224.0	196.5	56.0	89.0	97.5
Merged-chr6-91683420-4	chr6	91683322	91683522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009320)	promoter-TSS (NM_009320)	-645.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	146.5	177.5	200.5	2684.5	329.5	143.5	154.0	135.5
Merged-chr1-43735530-4	chr1	43735420	43735620	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024283, intron 1 of 3)	MTD|LTR|ERVL-MaLR	4918.0	NM_024283	78896.0	Mm.50109	NM_024283	ENSMUSG00000026051	1500015O10Rik	Ecrg4	RIKEN cDNA 1500015O10 gene	protein-coding	16.5	21.0	15.0	198.0	32.0	7.5	20.5	13.0
Merged-chr12-102346642-2	chr12	102346556	102346756	+	768.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 3 of 9)	B3|SINE|B2	63015.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	10.0	9.0	8.0	63.0	23.0	1.0	6.5	3.0
Merged-chr5-21654514-3	chr5	21654403	21654603	+	861.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026034, intron 4 of 5)	intron (NM_026034, intron 4 of 5)	8519.0	NM_026034	67211.0	Mm.260782	NM_026034	ENSMUSG00000038525	Armc10	2810037C14Rik|Svh	armadillo repeat containing 10	protein-coding	9.5	8.5	3.5	104.0	18.5	6.0	5.0	6.5
Merged-chr10-117710763-4	chr10	117710661	117710861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001288586)	promoter-TSS (NM_001288586)	-3.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	136.0	239.5	165.5	2202.0	385.5	156.5	197.0	168.5
Merged-chr18-6240848-3	chr18	6240760	6240960	+	988.388855	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_008448, intron 1 of 25)	CpG	664.0	NM_008448	16573.0	Mm.223744	NM_008448	ENSMUSG00000006740	Kif5b	AL022807|Khc|Khcs|Kns1|Ukhc	kinesin family member 5B	protein-coding	14.5	41.5	18.0	342.5	31.5	15.0	21.0	10.5
Merged-chr1-37013181-4	chr1	37013056	37013256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73629.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	46.5	118.0	57.5	666.0	184.0	66.5	63.5	30.5
Merged-chr7-102338015-4	chr7	102337907	102338107	+	887.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 1 of 11)	intron (NM_009287, intron 1 of 11)	70183.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	26.5	21.0	11.0	217.5	59.5	13.5	14.0	22.5
Merged-chr2-12301947-4	chr2	12301838	12302038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_138462)	promoter-TSS (NR_138462)	6.0	NR_138462	241226.0	Mm.329997	NM_001001309	ENSMUSG00000026768	Itga8	AI447669	integrin alpha 8	protein-coding	33.5	31.5	50.0	592.5	51.0	21.5	27.5	22.5
Merged-chr14-75790551-4	chr14	75790449	75790649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-3512.0	NM_026232	67554.0	Mm.46067	NM_026232	ENSMUSG00000022003	Slc25a30	4933433D23Rik|AV025504|AV221431|AW319655|KMCP1	solute carrier family 25, member 30	protein-coding	42.5	42.0	43.5	737.5	72.0	15.0	52.0	38.5
Merged-chr8-10835279-4	chr8	10835223	10835423	+	952.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47131.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	11.5	22.5	6.0	253.0	23.5	10.5	26.0	6.5
Merged-chr17-35193182-4	chr17	35193086	35193286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1321.0	NM_008518	16994.0	Mm.1715	NM_008518	ENSMUSG00000024399	Ltb	AI662801|LTbeta|Tnfc|Tnfsf3|Tnlg1c|p33	lymphotoxin B	protein-coding	69.0	81.5	64.5	593.5	70.5	39.0	22.5	27.0
Merged-chr18-23566389-4	chr18	23566314	23566514	+	892.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361215, intron 3 of 19)	intron (NM_001361215, intron 3 of 19)	68932.0	NM_001285810	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	20.0	20.5	22.0	468.0	22.5	11.0	7.5	13.5
Merged-chr3-88579644-4	chr3	88579543	88579743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356316)	promoter-TSS (NM_001356316)	35.0	NM_025448	66256.0	Mm.7091	NM_025448	ENSMUSG00000041355	Ssr2	1500032E05Rik|AI315033|AU020133|SSR-beta|TLAP|TRAPB|TRAPbeta	signal sequence receptor, beta	protein-coding	42.5	39.0	39.0	456.5	69.0	23.5	24.5	41.5
Merged-chr14-69136044-4	chr14	69135937	69136137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35765.0	NM_010920	18092.0	Mm.390691	NM_010920	ENSMUSG00000044186	Nkx2-6	AV044928|Nkx-2.6|Nkx2.6|Tix|tinman	NK2 homeobox 6	protein-coding	32.5	72.5	34.0	381.0	95.5	38.5	44.0	37.5
Merged-chr15-58343346-3	chr15	58343242	58343442	+	890.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027211, intron 8 of 8)	intron (NM_027211, intron 8 of 8)	-19173.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	7.5	8.0	11.0	81.5	18.0	4.0	5.5	14.0
Merged-chr11-101087295-4	chr11	101087182	101087382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011550)	promoter-TSS (NM_011550)	-8.0	NM_011550	21428.0	Mm.628	NM_011550	ENSMUSG00000017801	Mlx	Tcfl4|Tf4|bHLHd13	MAX-like protein X	protein-coding	45.0	64.0	21.0	638.5	157.5	39.0	55.0	36.0
Merged-chr1-183804018-4	chr1	183803900	183804100	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151520, intron 2 of 2)	intron (NR_151520, intron 2 of 2)	55023.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	12.0	24.5	25.5	296.0	51.5	20.0	24.5	17.0
Merged-chr2-121179058-4	chr2	121178969	121179169	+	983.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110985, intron 6 of 18)	L1_Mur3|LINE|L1	7901.0	NM_001290824	51885.0	Mm.383499	NM_153387	ENSMUSG00000027263	Tubgcp4	4932441P04Rik|76p|D2Ertd435e|GCP-4	tubulin, gamma complex associated protein 4	protein-coding	20.0	27.0	4.0	428.5	47.0	12.0	19.5	24.0
Merged-chr14-45318712-4	chr14	45318601	45318801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015774)	promoter-TSS (NM_015774)	-129.0	NM_015774	50527.0	Mm.387108	NM_015774	ENSMUSG00000021831	Ero1l	ERO1-L|Ero1a	ERO1-like (S. cerevisiae)	protein-coding	89.5	203.5	170.5	1736.5	183.5	75.0	99.0	106.5
Merged-chr11-70468816-4	chr11	70468727	70468927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8843.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	29.5	39.0	32.5	370.5	76.5	36.5	26.0	41.5
Merged-chr17-46858410-4	chr17	46858290	46858490	+	817.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26977.0	NM_001100452	210982.0	Mm.37642	NM_001100452	ENSMUSG00000036568	Bicral	Gltscr1l|mKIAA0240	BRD4 interacting chromatin remodeling complex associated protein like	protein-coding	5.5	12.5	4.5	76.0	26.0	10.0	13.0	9.5
Merged-chr8-34149754-4	chr8	34149678	34149878	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-3039.0	NM_026609	68192.0	Mm.34212	NM_026609	ENSMUSG00000031513	Leprotl1	1110067H13Rik|1520402O14Rik|AI854296	leptin receptor overlapping transcript-like 1	protein-coding	15.5	7.5	17.5	95.0	15.0	4.5	8.0	19.5
Merged-chr17-27910896-4	chr17	27910839	27911039	+	941.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	B4A|SINE|B4	1633.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	8.0	20.0	7.5	111.5	26.5	12.5	13.0	18.0
Merged-chr11-21549958-4	chr11	21549862	21550062	+	983.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21972.0	NM_008618	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	23.5	18.5	15.0	374.5	56.0	24.5	15.0	39.0
Merged-chr11-111101932-4	chr11	111101874	111102074	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	35810.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	25.5	34.5	14.0	294.0	18.5	12.5	1.5	4.0
Merged-chr11-22872037-4	chr11	22871929	22872129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11693.0	NM_001169114	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	36.0	81.5	56.0	1026.0	116.5	38.0	27.0	31.5
Merged-chr17-88064714-4	chr17	88064623	88064823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001348248, exon 1 of 23)	5' UTR (NM_001348248, exon 1 of 23)	209.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	46.0	110.0	46.5	436.5	146.0	53.5	39.0	46.0
Merged-chr17-71300078-4	chr17	71299971	71300171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	10940.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	122.5	166.5	123.5	1754.0	185.5	91.5	130.5	95.0
Merged-chr6-29529548-1	chr6	29529448	29529648	+	1000.0	f0_c57.idr	intron (NM_001252382, intron 1 of 8)	intron (NM_001252382, intron 1 of 8)	266.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	19.0	21.5	17.5	321.0	36.0	18.0	19.5	22.5
Merged-chr10-128409922-4	chr10	128409831	128410031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358973)	promoter-TSS (NM_001358973)	-81.0	NM_027257	69917.0	Mm.46614	NM_027257	ENSMUSG00000025374	Nabp2	2610036N15Rik|Obfc2b|SSB1	nucleic acid binding protein 2	protein-coding	211.0	294.0	190.0	3175.5	484.0	193.5	218.0	180.5
Merged-chr10-7211622-4	chr10	7211530	7211730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 1 of 12)	CpG	607.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	41.5	105.5	94.0	879.0	97.5	36.5	58.0	41.5
Merged-chr15-82016268-4	chr15	82016164	82016364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134095)	promoter-TSS (NM_134095)	-44.0	NM_001356541	28075.0	Mm.474453	NM_134095	ENSMUSG00000022472	Desi1	AI427858|AI850401|D15Wsu75e|DeSI-1|Fam152b|Pppde2	desumoylating isopeptidase 1	protein-coding	148.0	227.5	96.0	1925.0	415.0	177.0	138.0	140.5
Merged-chr2-145371008-4	chr2	145370911	145371111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053195, intron 2 of 16)	intron (NM_053195, intron 2 of 16)	128400.0	NM_053195	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	18.5	48.5	26.5	500.5	56.0	14.5	30.5	25.5
Merged-chr7-63755009-3	chr7	63754929	63755129	+	761.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130880, intron 13 of 13)	intron (NM_130880, intron 13 of 13)	-161828.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	7.0	4.5	5.5	33.0	12.5	1.5	1.5	10.5
Merged-chr18-50036836-4	chr18	50036743	50036943	+	758.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360935, intron 1 of 1)	intron (NM_001360935, intron 1 of 1)	5859.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	20.0	27.5	24.0	256.5	38.0	6.0	11.0	5.0
Merged-chr2-91526725-4	chr2	91526629	91526829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001165989)	promoter-TSS (NM_001165989)	-33.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	65.5	142.0	51.0	1011.0	186.5	60.5	67.5	78.0
Merged-chr10-127058412-4	chr10	127058323	127058523	+	977.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033262, intron 1 of 3)	intron (NM_001033262, intron 1 of 3)	1761.0	NM_001033262	216438.0	Mm.37892	NM_001033262	ENSMUSG00000040502	March9	AI608492|BC019560	membrane-associated ring finger (C3HC4) 9	protein-coding	14.0	28.5	12.0	190.5	39.5	17.0	18.5	31.0
Merged-chr9-124257635-3	chr9	124257550	124257750	+	818.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55044.0	NM_001243118	630836.0	Mm.458553	NM_001243117	ENSMUSG00000074829	2010315B03Rik	BC029716	RIKEN cDNA 2010315B03 gene	protein-coding	3.5	5.5	7.5	187.0	15.5	9.0	7.0	12.5
Merged-chr15-94566065-4	chr15	94565960	94566160	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029926, intron 10 of 11)	ORR1D2|LTR|ERVL-MaLR	22400.0	NM_029926	266632.0	Mm.422858	NM_029926	ENSMUSG00000059883	Irak4	8430405M07Rik|9330209D03Rik|IRAK-4|NY-REN-64	interleukin-1 receptor-associated kinase 4	protein-coding	19.0	29.0	18.0	336.0	49.5	16.0	28.0	21.0
Merged-chr5-3512771-3	chr5	3512654	3512854	+	650.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-31079.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	10.5	8.0	7.0	116.0	18.0	4.5	11.0	5.5
Merged-chr11-63014850-4	chr11	63014752	63014952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-10718.0	NR_126547	74884.0	Mm.363520	NR_126547	ENSMUSG00000087604	Cdrt4os1	4930452L02Rik	CMT1A duplicated region transcript 4, opposite strand 1	ncRNA	28.5	42.5	22.5	531.0	95.0	36.0	61.0	49.5
Merged-chr8-92881443-4	chr8	92881324	92881524	+	978.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357375, intron 7 of 12)	intron (NM_001357375, intron 7 of 12)	-19971.0	NM_027112	69543.0	Mm.440514	NM_027112	ENSMUSG00000078144	Capns2	2310005G05Rik|30K-2	calpain, small subunit 2	protein-coding	6.0	24.5	5.5	159.0	108.5	38.0	29.5	15.5
Merged-chr7-114461819-6	chr7	114461718	114461918	+	980.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011055, intron 1 of 15)	intron (NM_011055, intron 1 of 15)	46564.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	8.5	11.5	18.0	208.5	47.5	20.5	23.0	34.5
Merged-chr19-21284941-1	chr19	21284841	21285041	+	549.0	f1_c57bl6.idr	3' UTR (NM_009551, exon 6 of 6)	3' UTR (NM_009551, exon 6 of 6)	12663.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	8.0	30.0	4.5	7.5	12.5	4.5	1.0	3.5
Merged-chr1-107381644-4	chr1	107381542	107381742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2D|LTR|ERVL	19328.0	NM_025867	66957.0	Mm.12638	NM_025867	ENSMUSG00000026327	Serpinb11	2310046M08Rik|AU015399	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 11	protein-coding	37.5	45.0	45.0	617.0	77.5	18.5	22.5	22.0
Merged-chr7-55962454-4	chr7	55962386	55962586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023647)	promoter-TSS (NM_023647)	7.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	80.0	107.0	52.5	1181.0	323.0	145.5	119.5	109.5
Merged-chr10-5823348-2	chr10	5823281	5823481	+	851.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175374, intron 1 of 6)	intron (NM_175374, intron 1 of 6)	562.0	NM_175374	108853.0	Mm.55082	NM_175374	ENSMUSG00000019774	Mtrf1l	9130004K12Rik	mitochondrial translational release factor 1-like	protein-coding	3.5	3.0	6.5	67.5	20.5	9.5	8.0	10.5
Merged-chr4-127243724-4	chr4	127243636	127243836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030252)	promoter-TSS (NM_030252)	-48.0	NM_030252	80284.0	Mm.139607	NM_030252	ENSMUSG00000042380	Smim12	BC003266	small integral membrane protein 12	protein-coding	85.5	140.0	63.5	1230.5	285.0	83.0	129.0	118.0
Merged-chr10-79960032-4	chr10	79959942	79960142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175450)	promoter-TSS (NM_175450)	-110.0	NM_175450	216156.0	Mm.35828	NM_175450	ENSMUSG00000035754	Wdr18	2310012I10Rik|AU044733|AW122032	WD repeat domain 18	protein-coding	240.0	415.5	169.0	3130.0	575.5	245.0	240.0	252.0
Merged-chr13-108329963-3	chr13	108329905	108330105	+	688.022217	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178683, intron 2 of 10)	intron (NM_178683, intron 2 of 10)	13668.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	6.0	9.5	4.5	44.5	16.0	4.5	4.0	4.0
Merged-chr10-85968251-4	chr10	85968195	85968395	+	736.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177772, intron 12 of 15)	intron (NM_177772, intron 12 of 15)	-10502.0	NM_145422	28088.0	Mm.9257	NM_145422	ENSMUSG00000001783	Rtcb	AI255213|AI463255|D10Wsu52e|FAAP|HSPC117	RNA 2',3'-cyclic phosphate and 5'-OH ligase	protein-coding	9.0	14.5	6.0	95.5	14.5	5.0	12.5	12.0
Merged-chr13-60698193-3	chr13	60698092	60698292	+	917.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 3 of 26)	L1M5|LINE|L1	88172.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	11.5	9.5	5.0	125.0	22.5	1.5	4.0	2.5
Merged-chr5-142478970-3	chr5	142478870	142479070	+	789.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172725)	TTS (NM_172725)	15039.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	1.5	4.0	1.5	80.0	24.5	11.5	4.5	8.0
Merged-chr2-38797287-4	chr2	38797196	38797396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010264, intron 3 of 10)	intron (NM_010264, intron 3 of 10)	-12781.0	NM_001159549	14536.0	Mm.439703	NM_010264	ENSMUSG00000063972	Nr6a1	1700113M01Rik|Gcnf|NCNF|RTR	nuclear receptor subfamily 6, group A, member 1	protein-coding	23.0	30.5	21.5	460.0	97.0	31.0	48.5	37.0
Merged-chr9-48580988-3	chr9	48580846	48581046	+	646.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	24177.0	NM_010924	18113.0	Mm.8362	NM_010924	ENSMUSG00000032271	Nnmt	-	nicotinamide N-methyltransferase	protein-coding	1.0	12.5	3.0	42.5	4.5	5.0	11.0	8.5
Merged-chr7-19253887-4	chr7	19253783	19253983	+	890.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17971.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	13.0	13.0	10.5	139.5	37.0	7.5	12.0	28.0
Merged-chr2-11490782-3	chr2	11490686	11490886	+	760.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133232, intron 3 of 14)	ID4|SINE|ID	11304.0	NM_001177754	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	0.0	6.0	7.0	165.0	15.5	7.0	8.5	13.5
Merged-chr17-86300838-4	chr17	86300718	86300918	+	802.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	-13640.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	12.0	12.5	11.0	99.5	14.5	7.0	10.5	12.5
Merged-chr12-100022724-4	chr12	100022614	100022814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	58215.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	71.5	81.5	70.5	1114.0	135.0	42.0	55.0	48.0
Merged-chr5-52190590-4	chr5	52190488	52190688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007839)	promoter-TSS (NM_007839)	-42.0	NM_001042620	13204.0	Mm.993	NM_007839	ENSMUSG00000029169	Dhx15	DBP1|DEAH9|Ddx15|HRH2|mDEAH9	DEAH (Asp-Glu-Ala-His) box polypeptide 15	protein-coding	145.5	215.0	123.0	2428.5	391.0	120.5	230.0	164.0
Merged-chr3-8098530-3	chr3	8098401	8098601	+	589.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-143614.0	NR_040587	75476.0	Mm.491752	NR_040587	ENSMUSG00000100010	1700010I02Rik	-	RIKEN cDNA 1700010I02 gene	ncRNA	5.5	8.0	5.5	83.5	6.5	6.0	8.0	8.0
Merged-chr17-4996515-4	chr17	4996462	4996662	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 1 of 19)	CpG-5917	1488.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	7.5	13.5	5.5	206.0	36.0	10.0	10.0	18.0
Merged-chr5-125270799-3	chr5	125270694	125270894	+	831.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70300.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	12.0	7.0	9.0	66.0	29.0	17.5	8.5	9.0
Merged-chr2-72476176-4	chr2	72476053	72476253	+	974.044067	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025866)	promoter-TSS (NM_025866)	-66.0	NM_025866	66953.0	Mm.270676	NM_025866	ENSMUSG00000055612	Cdca7	2310021G01Rik|AU044109|JPO1	cell division cycle associated 7	protein-coding	18.5	19.0	16.0	120.0	38.0	15.0	19.5	20.5
Merged-chr6-113978463-4	chr6	113978378	113978578	+	990.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009723, intron 2 of 21)	intron (NM_009723, intron 2 of 21)	-43797.0	NM_001347365	11941.0	Mm.321755	NM_009723	ENSMUSG00000030302	Atp2b2	D6Abb2e|Gena300|PMCA2|Tmy|dfw|jog|wms|wri	ATPase, Ca++ transporting, plasma membrane 2	protein-coding	17.5	95.5	47.5	704.5	59.0	19.0	22.5	33.5
Merged-chr15-94589188-2	chr15	94589088	94589288	+	863.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008971, intron 1 of 8)	intron (NM_008971, intron 1 of 8)	636.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	3.0	5.0	7.0	57.5	11.5	4.5	6.5	8.5
Merged-chr4-141871166-4	chr4	141871055	141871255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	3765.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	117.0	179.5	77.0	1536.0	331.0	133.5	173.5	174.0
Merged-chr11-57644586-4	chr11	57644507	57644707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134189)	promoter-TSS (NM_134189)	-835.0	NM_134189	171212.0	Mm.271670	NM_134189	ENSMUSG00000020520	Galnt10	AU018154|C330012K04Rik|GalNAc-T10|GalNAc-T9|Galnt9|ppGaNTase	polypeptide N-acetylgalactosaminyltransferase 10	protein-coding	22.5	32.0	31.0	461.5	109.0	35.0	64.5	59.0
Merged-chr16-33937034-4	chr16	33936934	33937134	+	909.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	30004.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	16.5	21.5	25.0	299.5	17.5	16.0	11.0	12.5
Merged-chr5-72182944-4	chr5	72182834	72183034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14745.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	30.0	56.5	31.0	858.5	61.0	29.5	53.0	34.5
Merged-chr14-70860786-4	chr14	70860697	70860897	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045939, intron 2 of 3)	MTD|LTR|ERVL-MaLR	7864.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	41.5	40.5	68.0	860.0	29.0	8.0	18.0	10.0
Merged-chr13-113601303-4	chr13	113601204	113601404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	17260.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	195.5	270.0	179.0	2158.0	267.5	129.5	141.5	98.0
Merged-chr3-88504542-4	chr3	88504452	88504652	+	968.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1200.0	NM_001002011	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	21.0	42.5	15.5	197.5	67.5	37.0	34.5	19.5
Merged-chr3-60538728-4	chr3	60538622	60538822	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	37543.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	15.0	18.5	11.5	181.5	70.0	33.0	25.5	23.5
Merged-chr8-106198971-3	chr8	106198873	106199073	+	848.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357382)	TTS (NM_001357382)	11960.0	NM_001007567	66432.0	Mm.269029	NM_001007567	ENSMUSG00000033106	Slc7a6os	2010007L18Rik|2400002F02Rik	solute carrier family 7, member 6 opposite strand	protein-coding	13.5	10.0	7.5	100.5	15.0	8.5	5.0	5.5
Merged-chr5-65486029-4	chr5	65485977	65486177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	intron (NM_133697, intron 1 of 4)	6758.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	54.0	161.5	78.0	631.5	103.0	44.5	52.0	50.0
Merged-chr4-59871102-4	chr4	59871069	59871269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 3 of 8)	intron (NM_172468, intron 3 of 8)	43887.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	61.0	72.5	41.5	737.5	120.5	27.5	57.5	48.5
Merged-chr3-135438220-4	chr3	135438156	135438356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025356)	promoter-TSS (NM_025356)	24.0	NM_001356594	66105.0	Mm.49884	NM_025356	ENSMUSG00000078578	Ube2d3	1100001F19Rik|9430029A22Rik|AA414951	ubiquitin-conjugating enzyme E2D 3	protein-coding	290.0	460.5	287.0	3007.5	825.5	368.0	343.0	291.5
Merged-chr13-58512195-4	chr13	58512104	58512304	+	978.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A2|LTR|ERVK	98673.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	13.0	27.0	15.0	307.0	67.5	15.0	29.0	30.5
Merged-chr16-13820071-2	chr16	13819971	13820171	+	994.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346109, intron 1 of 7)	intron (NM_001346109, intron 1 of 7)	820.0	NM_001346111	18203.0	Mm.380410	NM_010946	ENSMUSG00000022681	Ntan1	PNAA|PNAD	N-terminal Asn amidase	protein-coding	6.0	4.5	6.0	34.0	18.0	2.5	6.5	7.5
Merged-chr11-87764503-2	chr11	87764428	87764628	+	968.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_172449, intron 5 of 31)	CpG-2413	3987.0	NM_172449	207777.0	Mm.342019	NM_172449	ENSMUSG00000034156	Tspoap1	Bzrap1|D230016K05|PRAX-1|mKIAA0612	TSPO associated protein 1	protein-coding	16.0	14.0	4.5	41.0	16.5	3.0	2.0	3.5
Merged-chr16-8674344-4	chr16	8674256	8674456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2203.0	NM_025821	52502.0	Mm.142095	NM_025821	ENSMUSG00000008393	Carhsp1	1200011K09Rik|Crhsp-24|D16Ertd465e	calcium regulated heat stable protein 1	protein-coding	51.0	84.5	52.0	936.5	167.0	62.5	64.0	68.0
Merged-chr9-4376377-4	chr9	4376276	4376476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145609)	promoter-TSS (NM_145609)	-176.0	NM_145609	78100.0	Mm.206549	NM_145609	ENSMUSG00000041124	Msantd4	8430410K20Rik|Mysantd4	Myb/SANT-like DNA-binding domain containing 4 with coiled-coils	protein-coding	376.0	596.5	560.5	8797.0	1196.5	449.0	615.0	469.5
Merged-chr2-170119441-4	chr2	170119345	170119545	+	819.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159683, exon 3 of 7)	exon (NM_001159683, exon 3 of 7)	11775.0	NM_001033299	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	14.5	19.5	10.5	125.0	53.5	24.0	18.5	3.5
Merged-chr4-139196700-4	chr4	139196590	139196790	+	922.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	2579.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	14.0	13.5	10.0	292.5	36.0	6.5	9.5	16.5
Merged-chr10-37203961-4	chr10	37203863	37204063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65037.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	120.5	125.5	156.5	1913.0	169.0	45.5	85.0	76.5
Merged-chr5-18007253-4	chr5	18007146	18007346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 5 of 7)	intron (NM_001081143, intron 5 of 7)	44676.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	70.0	83.5	99.0	1511.5	178.5	48.0	90.0	85.5
Merged-chr13-114953619-4	chr13	114953511	114953711	+	966.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-21511.0	NM_008396	16398.0	Mm.5007	NM_008396	ENSMUSG00000015533	Itga2	CD49B|DX5|GPIa	integrin alpha 2	protein-coding	26.0	14.0	21.5	463.0	51.0	22.0	24.0	19.5
Merged-chr10-88350036-4	chr10	88349945	88350145	+	946.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 1 of 6)	intron (NM_027878, intron 1 of 6)	7030.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	23.0	20.5	22.0	382.5	40.0	11.0	23.5	13.5
Merged-chr1-87637678-4	chr1	87637569	87637769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 2 of 26)	MLT1M|LTR|ERVL-MaLR	17357.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	44.0	71.5	56.5	690.5	125.5	77.0	72.0	63.0
Merged-chr11-77028788-3	chr11	77028684	77028884	+	872.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010484, intron 13 of 13)	intron (NM_010484, intron 13 of 13)	30187.0	NM_010484	15567.0	Mm.300318	NM_010484	ENSMUSG00000020838	Slc6a4	5-HTT|AI323329|Htt|Sert	solute carrier family 6 (neurotransmitter transporter, serotonin), member 4	protein-coding	5.5	12.5	8.0	100.5	8.0	3.0	4.0	9.5
Merged-chr5-69554335-2	chr5	69554235	69554435	+	864.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2589.0	NM_172711	231279.0	Mm.21105	NM_172711	ENSMUSG00000029208	Guf1	4631409J12|AA407526|EF-4	GUF1 homolog, GTPase	protein-coding	4.5	0.5	3.5	48.5	13.0	4.5	8.0	6.5
Merged-chr7-49251193-4	chr7	49251083	49251283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 1 of 37)	(T)n|Simple_repeat|Simple_repeat	4994.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	61.5	38.5	34.5	764.0	94.0	43.5	30.5	46.5
Merged-chr13-90923502-1	chr13	90923402	90923602	+	1000.0	f1_c57bl6.idr	intron (NM_024175, intron 1 of 3)	CpG	380.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	19.0	35.0	45.5	358.0	86.0	40.0	33.5	39.5
Merged-chr2-150921852-4	chr2	150921744	150921944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027014, intron 4 of 6)	intron (NM_027014, intron 4 of 6)	12250.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	95.0	111.0	98.5	1456.0	180.5	73.0	86.0	82.5
Merged-chr6-11926247-4	chr6	11926122	11926322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029404, exon 1 of 17)	5' UTR (NM_029404, exon 1 of 17)	341.0	NM_001168382	75725.0	Mm.212411	NM_029404	ENSMUSG00000029629	Phf14	1110001C23Rik|4932409F11Rik|5730446A07Rik|AA623952|AV297001|mKIAA0783	PHD finger protein 14	protein-coding	18.5	31.0	35.5	355.5	49.5	23.5	32.5	29.5
Merged-chr2-90939955-4	chr2	90939870	90940070	+	974.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017368)	promoter-TSS (NM_017368)	-427.0	NM_198683	13046.0	Mm.29495	NM_017368	ENSMUSG00000005506	Celf1	1600010O03Rik|AA407467|Brunol2|CUG-BP|CUG-BP1|CUGBP|Cugbp1|D2Wsu101e|HNAB50|NAB50	CUGBP, Elav-like family member 1	protein-coding	14.0	40.5	28.5	334.0	52.5	23.5	28.0	20.5
Merged-chr6-72535350-4	chr6	72535253	72535453	+	832.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9038.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	12.0	16.5	7.0	134.5	20.5	5.5	11.0	15.0
Merged-chr1-179517172-4	chr1	179517086	179517286	+	922.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 1 of 11)	intron (NM_027188, intron 1 of 11)	855.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	19.0	34.0	14.5	227.5	36.0	8.5	18.0	10.5
Merged-chr13-23551647-4	chr13	23551529	23551729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175655)	promoter-TSS (NM_175655)	14.0	NM_175655	319157.0	Mm.442307	NM_175655	ENSMUSG00000069274	Hist1h4f	-	histone cluster 1, H4f	protein-coding	49.5	91.5	77.5	914.5	130.0	63.5	89.5	62.0
Merged-chr3-89727246-4	chr3	89727156	89727356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357958, intron 1 of 14)	intron (NM_001357958, intron 1 of 14)	-3462.0	NM_001146296	56417.0	Mm.316628	NM_019655	ENSMUSG00000027951	Adar	AV242451|Adar1|Adar1p110|Adar1p150|DRADA|mZaADAR	adenosine deaminase, RNA-specific	protein-coding	31.0	38.0	21.5	374.0	76.5	24.0	46.0	21.0
Merged-chr1-176818341-4	chr1	176818234	176818434	+	963.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357390, intron 1 of 18)	intron (NM_001357390, intron 1 of 18)	3674.0	NM_029756	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	25.0	39.5	17.0	571.5	82.0	10.0	31.5	15.5
Merged-chr11-107011846-4	chr11	107011745	107011945	+	860.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-12320.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	15.5	16.5	6.5	109.5	50.5	10.0	5.5	12.0
Merged-chr16-67621060-3	chr16	67620999	67621199	+	780.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145977)	promoter-TSS (NM_001145977)	-191.0	NM_178721	239857.0	Mm.394300	NM_178721	ENSMUSG00000064115	Cadm2	2900078E11Rik|9330131D06|A830029E02Rik|Igdf4d|Igsf4d|NECL3|SynCAM 2|SynCAM2	cell adhesion molecule 2	protein-coding	15.0	23.5	25.0	294.0	8.0	4.0	6.0	4.5
Merged-chr11-43451493-4	chr11	43451386	43451586	+	882.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11A|LTR|ERVK	17755.0	NM_198936	193116.0	Mm.28200	NM_148673	ENSMUSG00000020409	Slu7	AU018913|D11Ertd730e|D3Bwg0878e	SLU7 splicing factor homolog (S. cerevisiae)	protein-coding	8.5	17.5	10.5	244.5	20.5	8.5	12.0	12.5
Merged-chr17-3205133-3	chr17	3205034	3205234	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90162.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	12.0	18.5	20.5	354.0	19.5	8.0	5.0	3.5
Merged-chr11-69408746-4	chr11	69408652	69408852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001017426, exon 2 of 23)	5' UTR (NM_001017426, exon 2 of 23)	4923.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	171.5	327.0	247.5	2649.0	518.5	181.0	209.0	170.0
Merged-chr8-123028531-2	chr8	123028431	123028631	+	617.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	13753.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	10.0	10.0	3.0	63.5	14.5	5.5	8.5	13.5
Merged-chr8-22858966-2	chr8	22858866	22859066	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081149)	promoter-TSS (NM_001081149)	-573.0	NM_001081149	244349.0	Mm.182776	NM_001081149	ENSMUSG00000031540	Kat6a	1500036M03|9930021N24Rik|MOZ|Myst3|Zfp220	K(lysine) acetyltransferase 6A	protein-coding	45.5	81.5	63.5	841.5	107.5	46.0	58.0	57.5
Merged-chr3-95229994-4	chr3	95229928	95230128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038708, intron 1 of 4)	intron (NM_001038708, intron 1 of 4)	1085.0	NM_001038708	57912.0	Mm.28189	NM_172395	ENSMUSG00000046722	Cdc42se1	1300002M12Rik|AW558204|Cdcse1|SCIP1|Spec1	CDC42 small effector 1	protein-coding	13.5	32.0	18.0	381.0	48.5	21.5	21.5	22.0
Merged-chr6-89257651-3	chr6	89257525	89257725	+	915.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie8|DNA|hAT-Charlie	28100.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	9.0	10.5	8.5	107.0	14.5	6.0	8.0	18.0
Merged-chr7-126135113-4	chr7	126134993	126135193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 9 of 23)	intron (NM_028816, intron 9 of 23)	-52682.0	NM_001358885	269994.0	Mm.39599	NM_001101488	ENSMUSG00000046182	Gsg1l	AI852434|C230098I05Rik|G630023A01Rik|Gm637|g1l	GSG1-like	protein-coding	116.0	155.5	110.5	1469.5	234.0	90.5	125.5	108.0
Merged-chr14-14346245-4	chr14	14346153	14346353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008369)	promoter-TSS (NM_008369)	-242.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	167.5	239.5	139.0	1746.5	661.5	180.5	203.0	222.5
Merged-chr6-87255886-4	chr6	87255780	87255980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_054041, exon 10 of 18)	exon (NM_054041, exon 10 of 18)	79895.0	NM_054041	69538.0	Mm.232525	NM_054041	ENSMUSG00000033420	Antxr1	2310008J16Rik|2810405N18Rik|Antrx1|Tem8	anthrax toxin receptor 1	protein-coding	26.0	50.5	32.0	494.0	111.0	26.0	47.5	42.0
Merged-chr10-70199980-4	chr10	70199882	70200082	+	887.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-4682.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	12.5	14.5	10.0	226.5	28.5	10.5	8.0	13.5
Merged-chr6-136904448-1	chr6	136904348	136904548	+	919.0	f0_c57.idr	Intergenic	Intergenic	17732.0	NM_026983	69187.0	Mm.33692	NM_026983	ENSMUSG00000030219	Erp27	1810033M07Rik|1810047B09Rik	endoplasmic reticulum protein 27	protein-coding	0.5	0.0	1.5	7.0	43.5	7.0	4.5	15.5
Merged-chr17-8749584-3	chr17	8749500	8749700	+	711.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290707, intron 1 of 22)	intron (NM_001290707, intron 1 of 22)	-52145.0	NM_011866	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	12.0	10.0	7.0	97.0	6.5	3.0	2.5	4.5
Merged-chr3-104780907-6	chr3	104780784	104780984	+	827.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027982)	promoter-TSS (NM_027982)	-172.0	NM_027982	71887.0	Mm.379204	NM_027982	ENSMUSG00000002228	Ppm1j	2310008J22Rik|PP2Czeta|Ppp2cz	protein phosphatase 1J	protein-coding	20.5	11.0	6.0	160.0	16.0	10.5	4.0	4.5
Merged-chr6-5110582-4	chr6	5110482	5110682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 7 of 15)	intron (NM_181595, intron 7 of 15)	83364.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	40.0	75.5	24.0	692.5	99.5	46.5	54.0	35.5
Merged-chr4-129788901-4	chr4	129788811	129789011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31568.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	40.5	77.0	49.0	658.5	171.5	56.5	69.0	63.0
Merged-chr1-106901618-4	chr1	106901510	106901710	+	958.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32839.0	NM_027971	71869.0	Mm.321740	NM_027971	ENSMUSG00000059956	Serpinb12	2300003F07Rik|4833409F13Rik	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 12	protein-coding	18.5	25.0	31.5	180.0	26.0	9.0	15.0	16.5
Merged-chr17-55952632-4	chr17	55952517	55952717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015766)	promoter-TSS (NM_015766)	-6.0	NM_015766	50498.0	Mm.256798	NM_015766	ENSMUSG00000003206	Ebi3	EBI-3|IL-27	Epstein-Barr virus induced gene 3	protein-coding	113.5	188.5	83.5	932.0	287.5	111.5	124.5	99.5
Merged-chr9-54560241-4	chr9	54560121	54560321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019686)	promoter-TSS (NM_019686)	-142.0	NM_019686	56506.0	Mm.42192	NM_019686	ENSMUSG00000037493	Cib2	2810434I23Rik|AI449053	calcium and integrin binding family member 2	protein-coding	126.5	147.0	122.5	2129.0	232.5	64.5	121.0	101.0
Merged-chr19-4269212-3	chr19	4269128	4269328	+	983.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356620)	promoter-TSS (NM_001356620)	5.0	NM_001356620	245857.0	Mm.248388	NM_198113	ENSMUSG00000034616	Ssh3	SSH-3|SSH-3L	slingshot protein phosphatase 3	protein-coding	36.5	20.0	10.5	247.5	20.0	11.5	8.0	3.0
Merged-chr19-11060572-4	chr19	11060463	11060663	+	845.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9997.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	12.0	25.0	6.5	93.0	45.5	15.0	3.5	1.5
Merged-chr4-56685344-4	chr4	56685223	56685423	+	892.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56102.0	NM_025271	11471.0	Mm.251434	NM_025271	ENSMUSG00000070980	Actl7b	Gm26657|Tact1	actin-like 7b	protein-coding	10.0	32.5	20.0	328.5	26.0	7.5	13.5	13.5
Merged-chr2-125625220-4	chr2	125625123	125625323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081091)	promoter-TSS (NM_001081091)	-110.0	NM_001081091	99100.0	Mm.330545	NM_001081091	ENSMUSG00000068394	Cep152	AI851464|mKIAA0912	centrosomal protein 152	protein-coding	232.0	310.5	228.5	3756.0	448.5	197.5	268.5	188.0
Merged-chr5-137828890-4	chr5	137828795	137828995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153510, intron 3 of 6)	intron (NM_153510, intron 3 of 6)	7383.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	125.0	207.5	129.5	2125.5	270.5	118.0	136.0	123.0
Merged-chr8-70754597-4	chr8	70754493	70754693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009001)	promoter-TSS (NM_009001)	-86.0	NM_001328047	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	286.0	378.0	282.5	4460.0	548.0	182.5	265.0	199.0
Merged-chr8-108320641-4	chr8	108320553	108320753	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	264024.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	4.5	14.0	9.0	89.0	29.5	8.5	12.0	5.0
Merged-chr8-83593667-2	chr8	83593566	83593766	+	624.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_134118, intron 1 of 12)	intron (NM_134118, intron 1 of 12)	825.0	NM_027179	106529.0	Mm.352239	NM_027179	ENSMUSG00000031708	Tecr	2410016D23Rik|A230102P12Rik|AI173355|D17Ertd178e|Gpsn2|SC2	trans-2,3-enoyl-CoA reductase	protein-coding	5.0	6.0	2.5	33.0	27.0	8.5	8.0	5.5
Merged-chr19-55544604-4	chr19	55544514	55544714	+	936.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	L1MB8|LINE|L1	157590.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	22.0	33.5	26.5	353.0	41.0	9.5	13.5	15.5
Merged-chr8-90857092-4	chr8	90857006	90857206	+	866.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	28271.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	24.5	23.0	29.5	466.5	28.0	8.0	11.0	16.5
Merged-chr3-69156159-4	chr3	69156055	69156255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126533, intron 2 of 2)	B4A|SINE|B4	24922.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	38.5	41.0	93.0	943.5	219.0	78.0	90.0	103.0
Merged-chr11-3451313-2	chr11	3451213	3451413	+	840.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_145355, intron 1 of 7)	L3|LINE|CR1	-1124.0	NR_028317	71523.0	Mm.72795	NM_027820	ENSMUSG00000034587	8430429K09Rik	-	RIKEN cDNA 8430429K09 gene	ncRNA	3.0	3.0	4.0	19.0	8.5	7.0	5.0	5.0
Merged-chr4-33073164-4	chr4	33073059	33073259	+	993.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008076, intron 2 of 8)	B2_Mm2|SINE|B2	10047.0	NM_008076	14409.0	Mm.6227	NM_008076	ENSMUSG00000023267	Gabrr2	-	gamma-aminobutyric acid (GABA) C receptor, subunit rho 2	protein-coding	21.5	85.0	27.5	362.0	66.0	36.0	41.0	20.0
Merged-chr5-92487451-4	chr5	92487356	92487556	+	969.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007644, intron 1 of 11)	intron (NM_007644, intron 1 of 11)	18201.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	20.0	18.0	25.5	575.5	68.0	21.5	28.0	36.0
Merged-chr1-87857023-4	chr1	87856926	87857126	+	827.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177646, intron 1 of 29)	L1MB7|LINE|L1	-2727.0	NR_136921	100503175.0	Mm.426422	NR_136921	ENSMUSG00000101942	Gm19582	-	predicted gene, 19582	ncRNA	12.0	37.0	15.0	273.0	26.0	7.5	13.5	13.0
Merged-chr9-61907057-4	chr9	61906875	61907075	+	837.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7535.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	2.0	14.0	4.5	81.0	14.0	9.5	4.5	12.0
Merged-chr5-123893727-4	chr5	123893632	123893832	+	929.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	-13543.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	27.5	50.5	22.5	192.0	48.5	19.0	14.5	13.0
Merged-chr6-124888154-3	chr6	124888081	124888281	+	652.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013488)	promoter-TSS (NM_013488)	19.0	NM_013488	12504.0	Mm.2209	NM_013488	ENSMUSG00000023274	Cd4	L3T4|Ly-4	CD4 antigen	protein-coding	5.0	5.0	7.0	38.5	0.5	2.5	2.5	1.5
Merged-chr19-53390692-4	chr19	53390588	53390788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356986)	promoter-TSS (NM_001356986)	-54.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	301.0	526.5	212.0	3701.5	820.5	302.5	348.0	285.5
Merged-chr19-36818951-3	chr19	36818843	36819043	+	942.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15289.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	11.0	15.0	15.0	247.0	13.5	3.0	5.0	15.5
Merged-chr2-51094881-4	chr2	51094782	51094982	+	921.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTTG)n|Simple_repeat|Simple_repeat	54229.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	11.5	11.5	14.5	372.0	52.5	26.5	33.0	16.0
Merged-chr7-130547858-3	chr7	130547737	130547937	+	789.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162855)	promoter-TSS (NM_001162855)	-456.0	NM_001162855	67872.0	Mm.21714	NM_001162855	ENSMUSG00000040331	Nsmce4a	2410003A14Rik	NSE4 homolog A, SMC5-SMC6 complex component	protein-coding	13.0	11.0	2.0	155.0	19.0	6.5	5.0	12.5
Merged-chr6-7753357-4	chr6	7753243	7753443	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60161.0	NM_012055	27053.0	Mm.2942	NM_012055	ENSMUSG00000029752	Asns	-	asparagine synthetase	protein-coding	31.5	29.5	33.5	591.0	59.0	19.5	15.5	15.5
Merged-chr10-57731822-4	chr10	57731722	57731922	+	965.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039050, intron 4 of 4)	intron (NM_001039050, intron 4 of 4)	-53101.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	17.5	18.0	10.5	336.0	31.0	4.5	12.5	9.5
Merged-chr16-24433616-4	chr16	24433509	24433709	+	939.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 1 of 12)	intron (NM_178665, intron 1 of 12)	-14482.0	NM_001145952	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	23.0	47.5	37.5	506.5	29.0	11.5	9.0	2.0
Merged-chr19-44107454-4	chr19	44107303	44107503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007700)	promoter-TSS (NM_007700)	74.0	NM_007700	12675.0	Mm.3996	NM_007700	ENSMUSG00000025199	Chuk	AI256658|Chuk1|Fbx24|Fbxo24|IKBKA|IKK alpha|IKK1|Ikka|NFKBIKA	conserved helix-loop-helix ubiquitous kinase	protein-coding	95.5	135.5	79.0	1090.0	164.0	67.0	81.0	57.5
Merged-chr4-43563282-4	chr4	43563180	43563380	+	914.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011602)	promoter-TSS (NM_011602)	646.0	NM_013497	12913.0	Mm.12407	NM_013497	ENSMUSG00000028466	Creb3	AU044960|AW538053|C80076|LZIP|LZIP-1|LZIP-2|Luman	cAMP responsive element binding protein 3	protein-coding	10.0	12.0	16.0	113.5	39.5	8.5	10.0	14.0
Merged-chr1-80641454-4	chr1	80641357	80641557	+	946.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	23895.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	13.5	32.0	12.5	213.5	55.0	14.5	17.0	8.5
Merged-chr7-120102368-4	chr7	120102262	120102462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145586)	promoter-TSS (NM_145586)	-64.0	NM_145586	233806.0	Mm.257952	NM_145586	ENSMUSG00000030917	Tmem159	8430420C20Rik	transmembrane protein 159	protein-coding	112.5	143.5	105.5	1978.0	225.5	86.5	135.5	88.5
Merged-chr11-95828320-4	chr11	95828195	95828395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153104, intron 1 of 2)	MIRb|SINE|MIR	3795.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	21.5	32.5	31.0	268.0	42.5	14.5	23.5	24.0
Merged-chr2-117852634-4	chr2	117852535	117852735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040631, intron 2 of 5)	intron (NR_040631, intron 2 of 5)	30707.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	48.5	80.0	45.5	839.5	145.0	34.5	104.0	44.5
Merged-chr4-139602846-4	chr4	139602755	139602955	+	858.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205173, intron 1 of 8)	intron (NM_001205173, intron 1 of 8)	-20039.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	12.0	14.5	7.5	80.5	32.5	16.0	10.5	22.0
Merged-chr14-70520142-2	chr14	70520042	70520242	+	745.666626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_011359)	TTS (NM_011359)	118.0	NM_009755	12153.0	Mm.27757	NM_009755	ENSMUSG00000022098	Bmp1	Pcp|Tld	bone morphogenetic protein 1	protein-coding	1.5	12.0	12.0	138.5	9.0	10.5	6.5	8.5
Merged-chr13-91697163-4	chr13	91696997	91697197	+	944.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 15 of 15)	intron (NM_001360776, intron 15 of 15)	-44424.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	17.0	17.0	17.0	230.0	24.0	7.5	14.5	17.0
Merged-chr11-69045618-4	chr11	69045515	69045715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011496)	promoter-TSS (NM_011496)	-22.0	NM_011496	20877.0	Mm.3488	NM_011496	ENSMUSG00000020897	Aurkb	AIM-1|AIRK2|AL022959|Aik2|Aim1|Ark2|AurB|IPL1|STK-1|Stk12|Stk5	aurora kinase B	protein-coding	37.0	49.5	20.5	290.5	104.5	45.5	37.0	32.5
Merged-chr1-74284316-3	chr1	74284217	74284417	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025580)	promoter-TSS (NM_025580)	421.0	NM_001190444	227290.0	Mm.379371	NM_146110	ENSMUSG00000006299	Aamp	AU040907|Aamp-rs	angio-associated migratory protein	protein-coding	12.5	19.5	28.0	182.5	65.5	21.5	23.0	22.5
Merged-chr18-82912274-4	chr18	82912169	82912369	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183033, intron 1 of 5)	intron (NM_183033, intron 1 of 5)	1390.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	21.0	23.0	15.0	172.5	53.5	19.5	30.5	21.5
Merged-chr5-21017323-4	chr5	21017227	21017427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 4 of 17)	Lx5|LINE|L1	17920.0	NM_001356592	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	33.0	84.5	51.5	424.5	117.5	48.0	55.0	25.5
Merged-chr10-128695831-3	chr10	128695741	128695941	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177411, intron 1 of 5)	intron (NM_177411, intron 1 of 5)	427.0	NM_177411	19344.0	Mm.12815	NM_011229	ENSMUSG00000000711	Rab5b	C030027M18Rik	RAB5B, member RAS oncogene family	protein-coding	31.5	61.5	42.0	439.5	75.5	29.0	33.0	31.5
Merged-chr15-27856398-7	chr15	27856312	27856512	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 11 of 56)	intron (NM_001081302, intron 11 of 56)	169436.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	9.0	15.5	14.0	393.0	17.0	16.5	13.0	17.5
Merged-chr8-26687222-4	chr8	26687132	26687332	+	940.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	137191.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	17.0	21.5	10.0	225.5	61.5	16.5	14.0	7.5
Merged-chr5-52168669-4	chr5	52168561	52168761	+	906.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042620, intron 5 of 11)	intron (NM_001042620, intron 5 of 11)	21885.0	NR_104311	13204.0	Mm.993	NM_007839	ENSMUSG00000029169	Dhx15	DBP1|DEAH9|Ddx15|HRH2|mDEAH9	DEAH (Asp-Glu-Ala-His) box polypeptide 15	protein-coding	13.0	25.5	19.0	189.0	14.0	13.0	12.0	5.0
Merged-chr17-27553103-3	chr17	27553003	27553203	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3471.0	NM_001166536	15361.0	Mm.4438	NM_016660	ENSMUSG00000046711	Hmga1	AL023995|Hmga1a|Hmga1b|Hmgi|Hmgiy|Hmgy	high mobility group AT-hook 1	protein-coding	7.5	8.0	6.0	87.0	24.5	7.0	4.5	6.0
Merged-chr7-81372529-2	chr7	81372429	81372629	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357107)	promoter-TSS (NM_001357107)	-54.0	NM_001357107	12877.0	Mm.273122	NM_007755	ENSMUSG00000025586	Cpeb1	AU024112|Cpe-bp1|Cpeb|mCPEB|mCpeb-1	cytoplasmic polyadenylation element binding protein 1	protein-coding	2.0	9.5	4.0	92.5	13.5	4.5	5.0	5.0
Merged-chr12-33301854-3	chr12	33301767	33301967	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033436)	promoter-TSS (NM_001033436)	-648.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	9.5	17.5	6.0	54.5	29.0	10.5	7.5	7.5
Merged-chr15-84235869-4	chr15	84235769	84235969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	intron (NM_133167, intron 1 of 12)	3826.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	185.0	235.5	139.0	2824.5	424.0	144.5	210.0	220.0
Merged-chr5-30649478-4	chr5	30649379	30649579	+	817.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175675, intron 1 of 5)	intron (NM_175675, intron 1 of 5)	1540.0	NM_175675	74919.0	Mm.247985	NM_175675	ENSMUSG00000029175	Slc35f6	4930471M23Rik|5730478O19Rik|ANT2BP|P40|Tango9	solute carrier family 35, member F6	protein-coding	9.5	14.0	9.0	148.0	17.0	12.0	11.5	10.0
Merged-chr5-96803264-4	chr5	96803160	96803360	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013470, intron 2 of 12)	intron (NM_013470, intron 2 of 12)	9875.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	14.0	45.0	33.5	294.5	43.5	14.5	29.0	10.0
Merged-chr9-121616590-2	chr9	121616490	121616690	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026915, intron 1 of 5)	intron (NM_026915, intron 1 of 5)	25003.0	NM_026915	69032.0	Mm.33351	NM_026915	ENSMUSG00000032530	Lyzl4	1810009N24Rik|AI504271|Lyc4|Lyza	lysozyme-like 4	protein-coding	3.5	2.0	10.0	81.5	18.5	7.5	9.0	6.5
Merged-chr7-46714669-3	chr7	46714619	46714819	+	751.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011315, intron 2 of 3)	intron (NM_011315, intron 2 of 3)	957.0	NM_011315	20210.0	Mm.14277	NM_011315	ENSMUSG00000040026	Saa3	AV098916|Saa-3|l7R3	serum amyloid A 3	protein-coding	7.0	8.5	7.0	80.0	14.5	8.5	10.5	10.5
Merged-chr18-25168866-4	chr18	25168781	25168981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142698)	promoter-TSS (NM_001142698)	-4.0	NM_001004361	66648.0	Mm.263189	NM_001004361	ENSMUSG00000024269	Tpgs2	5730437P09Rik|5730494M16Rik|AI666318|Pgs2	tubulin polyglutamylase complex subunit 2	protein-coding	135.0	209.5	268.0	3056.5	245.0	133.0	144.0	179.5
Merged-chr11-57801540-4	chr11	57801439	57801639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131042)	promoter-TSS (NR_131042)	-72.0	NR_131042	76516.0	Mm.28485	NR_131042	ENSMUSG00000087165	2010001A14Rik	-	RIKEN cDNA 2010001A14 gene	ncRNA	156.5	180.0	125.0	2387.0	370.0	92.0	124.5	108.5
Merged-chr7-130819022-4	chr7	130818933	130819133	+	941.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081038, exon 12 of 16)	exon (NM_001081038, exon 12 of 16)	44964.0	NM_001081038	330660.0	Mm.271550	NM_001081038	ENSMUSG00000040298	Btbd16	E330040A16Rik	BTB (POZ) domain containing 16	protein-coding	11.5	26.0	14.0	204.0	41.0	2.0	14.0	14.5
Merged-chr11-115189518-4	chr11	115189414	115189614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 2 of 9)	intron (NM_001033393, intron 2 of 9)	2027.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	252.5	389.0	262.0	3590.0	506.0	210.0	221.0	202.5
Merged-chr10-127658288-3	chr10	127658184	127658384	+	721.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009284, intron 17 of 21)	intron (NM_009284, intron 17 of 21)	8419.0	NM_001122895	17937.0	Mm.336898	NM_008668	ENSMUSG00000025402	Nab2	AI451907	Ngfi-A binding protein 2	protein-coding	3.0	5.0	4.5	58.0	21.0	4.5	8.0	14.5
Merged-chr10-53629497-4	chr10	53629422	53629622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027830, intron 2 of 13)	CpG	917.0	NM_027830	71567.0	Mm.278221	NM_027830	ENSMUSG00000058298	Mcm9	9030408O17Rik|Gm235|Mcmdc1	minichromosome maintenance 9 homologous recombination repair factor	protein-coding	61.5	81.0	56.0	966.0	151.0	50.5	92.5	68.0
Merged-chr13-116000291-4	chr13	116000193	116000393	+	995.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	309395.0	NM_021459	16392.0	Mm.42242	NM_021459	ENSMUSG00000042258	Isl1	-	ISL1 transcription factor, LIM/homeodomain	protein-coding	36.5	35.0	27.0	1084.0	101.0	25.0	31.0	16.0
Merged-chr12-86265810-3	chr12	86265713	86265913	+	901.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027405, intron 6 of 9)	RMER10B|LTR|ERVL	23955.0	NM_001324488	70373.0	Mm.252967	NM_027405	ENSMUSG00000021254	Gpatch2l	1700020O03Rik|4732487G21Rik|A630090I05Rik|Kiaa1152	G patch domain containing 2 like	protein-coding	5.5	4.0	4.0	52.0	32.5	6.5	14.0	4.5
Merged-chr16-78182343-4	chr16	78182227	78182427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73127.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	33.5	24.0	24.0	536.0	85.5	27.5	49.5	30.0
Merged-chr16-58408965-3	chr16	58408882	58409082	+	922.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356484, intron 1 of 15)	CpG	447.0	NM_028523	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	19.0	16.0	29.5	231.0	19.0	8.5	10.0	8.5
Merged-chr16-27389906-4	chr16	27389792	27389992	+	869.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025615, intron 1 of 9)	intron (NM_001025615, intron 1 of 9)	936.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	8.0	25.5	13.5	82.5	22.5	13.5	14.0	10.5
Merged-chr5-21045672-4	chr5	21045586	21045786	+	930.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	MTD|LTR|ERVL-MaLR	10225.0	NM_001356591	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	6.5	12.0	22.5	268.0	31.0	19.5	9.0	19.5
Merged-chr8-57541614-4	chr8	57541499	57541699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 6 of 11)	intron (NM_001167981, intron 6 of 11)	29756.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	52.5	58.5	55.5	1022.5	95.5	28.5	58.0	35.5
Merged-chr15-25303228-4	chr15	25303100	25303300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110564.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	73.5	66.0	82.5	862.5	139.0	62.0	62.5	54.5
Merged-chr7-81303932-3	chr7	81303829	81304029	+	895.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 8 of 21)	intron (NM_008803, intron 8 of 21)	41305.0	NM_009092	20068.0	Mm.42767	NM_009092	ENSMUSG00000061787	Rps17	-	ribosomal protein S17	protein-coding	10.0	12.0	4.0	112.5	29.0	10.5	6.5	6.5
Merged-chr10-68239819-4	chr10	68239658	68239858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	38968.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	44.0	99.0	42.0	382.5	141.0	39.5	32.5	28.0
Merged-chr7-143037523-4	chr7	143037421	143037621	+	976.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015529, intron 2 of 3)	ORR1D2|LTR|ERVL-MaLR	-15229.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	26.5	12.0	22.5	306.0	52.0	19.5	24.5	12.0
Merged-chr16-95724379-4	chr16	95724273	95724473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A1|LTR|ERVK	21966.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	163.5	149.5	160.0	3239.5	305.5	96.5	126.5	139.0
Merged-chr19-5232821-4	chr19	5232715	5232915	+	888.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153129, intron 1 of 23)	intron (NM_153129, intron 1 of 23)	40304.0	NM_153129	107975.0	Mm.234923	NM_153129	ENSMUSG00000024855	Pacs1	AI325977	phosphofurin acidic cluster sorting protein 1	protein-coding	7.0	15.0	8.5	191.0	26.0	9.0	15.5	25.0
Merged-chr15-86364049-4	chr15	86363906	86364106	+	965.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358062, intron 6 of 9)	intron (NM_001358062, intron 6 of 9)	86331.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	27.0	28.5	21.0	423.5	28.5	15.5	12.0	24.5
Merged-chr1-54925805-6	chr1	54925724	54925924	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	CpG	563.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	18.0	22.0	21.0	159.0	23.0	11.5	12.0	10.5
Merged-chr3-137997465-3	chr3	137997370	137997570	+	766.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	-15921.0	NM_011932	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	25.5	20.0	15.5	253.5	6.0	1.5	2.5	5.0
Merged-chr4-145200249-4	chr4	145200193	145200393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5288.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	23.5	55.5	55.0	740.0	93.5	27.5	45.5	44.0
Merged-chr15-98985867-4	chr15	98985774	98985974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045991)	promoter-TSS (NR_045991)	-91.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	77.0	193.0	58.5	656.5	304.5	97.5	91.0	83.0
Merged-chr11-114912584-2	chr11	114912484	114912684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21802.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	4.5	7.5	6.0	8.0	6.5	4.5	3.5	2.0
Merged-chr7-43309261-2	chr7	43309161	43309361	+	705.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_027264, intron 2 of 4)	intron (NM_027264, intron 2 of 4)	4039.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	9.0	8.0	5.0	51.5	10.5	2.0	6.5	5.5
Merged-chr14-54686207-2	chr14	54686103	54686303	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_021437)	promoter-TSS (NM_021437)	32.0	NM_021437	58248.0	Mm.197509	NM_021437	ENSMUSG00000040822	1700123O20Rik	MNCb-2990	RIKEN cDNA 1700123O20 gene	protein-coding	38.0	67.0	24.5	525.5	96.5	38.0	30.0	29.5
Merged-chr2-50837803-1	chr2	50837703	50837903	+	985.0	f0_balb.idr	Intergenic	Intergenic	-71881.0	NR_033595	227885.0	Mm.301654	NR_033595	ENSMUSG00000083270	Gm13498	-	heat shock protein 90 alpha (cytosolic), class B member 1 pseudogene	pseudo	17.0	6.5	1.5	155.0	18.0	4.5	5.0	7.0
Merged-chr15-90420953-3	chr15	90420835	90421035	+	785.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	67225.0	NR_155426	102640415.0	Mm.394352	NR_155426	ENSMUSG00000116204	Gm36480	-	predicted gene, 36480	ncRNA	3.0	8.0	3.5	101.0	11.5	5.5	4.5	10.5
Merged-chr11-116306766-4	chr11	116306651	116306851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016857)	promoter-TSS (NM_016857)	-1.0	NM_001347636	53413.0	Mm.22530	NM_016857	ENSMUSG00000020792	Exoc7	Exo70|sec70	exocyst complex component 7	protein-coding	51.5	73.5	24.0	498.5	123.5	39.5	32.5	54.5
Merged-chr7-19338231-4	chr7	19338117	19338317	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6854.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	17.5	31.5	20.5	258.5	82.0	24.0	46.0	44.0
Merged-chr7-107595070-4	chr7	107594969	107595169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008905)	promoter-TSS (NM_008905)	18.0	NM_008905	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	227.5	384.5	252.0	4023.0	621.0	264.0	336.5	177.5
Merged-chr4-136206280-4	chr4	136206196	136206396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355698)	promoter-TSS (NM_001355698)	-69.0	NM_001008232	230837.0	Mm.77788	NM_001008232	ENSMUSG00000036995	Asap3	9430088F20Rik|Ddefl1|Gm140|UPLC1	ArfGAP with SH3 domain, ankyrin repeat and PH domain 3	protein-coding	38.5	54.5	28.5	433.0	38.0	27.5	23.5	20.5
Merged-chr13-56014206-2	chr13	56014106	56014306	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	121344.0	NM_012015	26914.0	Mm.283802	NM_012015	ENSMUSG00000015937	H2afy	H2AF12M|mH2a1|macroH2A1	H2A histone family, member Y	protein-coding	4.5	28.5	6.0	96.5	17.0	5.5	3.5	8.5
Merged-chr10-58529483-4	chr10	58529363	58529563	+	970.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162956, intron 10 of 15)	MTD|LTR|ERVL-MaLR	31526.0	NM_001162956	76138.0	Mm.211744	NM_001162956	ENSMUSG00000038010	Ccdc138	6230424H07Rik|BC042726	coiled-coil domain containing 138	protein-coding	11.0	22.5	7.5	207.0	85.0	22.0	26.0	21.5
Merged-chr9-14641871-4	chr9	14641748	14641948	+	960.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21174.0	NR_152172	665374.0	Mm.387249	NR_152172	ENSMUSG00000111085	Gm7607	EG665374	predicted gene 7607	ncRNA	8.5	47.0	26.0	242.5	47.0	20.5	36.5	16.0
Merged-chr6-120085235-4	chr6	120085141	120085341	+	934.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-8139.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	24.5	23.0	11.5	393.5	73.0	12.5	14.5	18.0
Merged-chr8-88697549-3	chr8	88697440	88697640	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128170, intron 1 of 17)	intron (NM_001128170, intron 1 of 17)	512.0	NM_001128171	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	24.0	38.0	29.5	282.5	49.0	19.0	26.5	25.0
Merged-chr1-59764707-6	chr1	59764602	59764802	+	868.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007561, exon 1 of 13)	exon (NM_007561, exon 1 of 13)	423.0	NM_007561	12168.0	Mm.7106	NM_007561	ENSMUSG00000067336	Bmpr2	2610024H22Rik|AL117858|AW546137|BB189135|BMP-2|BMPR-2|BMPR-II|BMPRII|BRK-3|Gm20272	bone morphogenetic protein receptor, type II (serine/threonine kinase)	protein-coding	8.5	10.5	5.5	121.5	15.0	9.5	8.5	10.0
Merged-chr15-41612421-4	chr15	41612317	41612517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	MIR3|SINE|MIR	163314.0	NM_001358977	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	295.5	341.0	293.0	4604.0	665.0	268.0	306.0	234.5
Merged-chr4-125085146-4	chr4	125085082	125085282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290701)	promoter-TSS (NM_001290701)	48.0	NR_151472	70088.0	Mm.291214	NM_027310	ENSMUSG00000028863	Meaf6	2310005N01Rik|2810036M01Rik	MYST/Esa1-associated factor 6	protein-coding	90.0	109.0	76.0	1001.5	159.5	75.5	70.5	60.0
Merged-chr6-38360243-4	chr6	38360127	38360327	+	930.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5624.0	NM_028864	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	10.5	10.5	11.0	176.0	44.0	13.5	18.5	9.5
Merged-chr7-16619049-3	chr7	16618904	16619104	+	890.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136929, intron 1 of 2)	CpG	-4011.0	NM_172739	232906.0	Mm.28646	NM_172739	ENSMUSG00000058230	Arhgap35	6430596G11Rik|AI841135|Grlf1|mKIAA1722|p190A|p190RhoGAP	Rho GTPase activating protein 35	protein-coding	5.0	7.5	6.0	102.5	13.5	3.5	11.0	6.0
Merged-chr13-100195651-4	chr13	100195541	100195741	+	925.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 2 of 15)	intron (NM_001126182, intron 2 of 15)	6481.0	NM_001126182	17948.0	Mm.89961	NM_010872	ENSMUSG00000078945	Naip2	Birc1b|Naip-rs6	NLR family, apoptosis inhibitory protein 2	protein-coding	18.5	19.0	9.5	278.0	25.0	15.5	30.0	18.5
Merged-chr5-9104134-4	chr5	9104040	9104240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 2 of 4)	intron (NM_001081029, intron 2 of 4)	3403.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	35.0	30.5	30.5	522.0	67.0	19.5	34.0	25.0
Merged-chr10-80955830-4	chr10	80955737	80955937	+	880.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	25746.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	7.5	28.0	8.5	199.0	41.5	21.5	14.0	13.0
Merged-chr10-60757221-3	chr10	60757123	60757323	+	862.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4441.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	15.5	19.0	7.5	113.0	23.5	7.5	8.5	10.5
Merged-chr11-76590024-4	chr11	76589902	76590102	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12263.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	25.0	44.5	17.5	215.0	103.0	30.5	23.0	26.0
Merged-chr16-85305206-3	chr16	85305093	85305293	+	851.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-131486.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	3.0	0.0	2.5	62.0	17.5	9.5	22.5	15.0
Merged-chr6-135951837-1	chr6	135951737	135951937	+	841.6666869999999	f0_c57.idr	intron (NM_008171, intron 4 of 14)	intron (NM_008171, intron 4 of 14)	221674.0	NM_008171	14812.0	Mm.436649	NM_008171	ENSMUSG00000030209	Grin2b	AW490526|GluN2B|NR2B|Nmdar2b	glutamate receptor, ionotropic, NMDA2B (epsilon 2)	protein-coding	1.0	1.0	2.5	49.0	42.5	9.0	13.0	15.5
Merged-chr2-91950424-4	chr2	91950325	91950525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166597)	promoter-TSS (NM_001166597)	-77.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	40.5	43.0	36.5	683.0	102.0	20.5	28.5	44.0
Merged-chr2-159587293-4	chr2	159587193	159587393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-360048.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	37.5	70.5	37.5	500.5	83.5	40.5	62.5	11.0
Merged-chr11-108425685-3	chr11	108425599	108425799	+	794.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029606, intron 1 of 27)	CpG	433.0	NM_029606	76380.0	Mm.344071	NM_029586	ENSMUSG00000020728	Cep112	1700001M19Rik|1700029K01Rik|8430407H02Rik|AV043680|AV207351|Ccdc46|Macoco	centrosomal protein 112	protein-coding	9.0	6.5	3.5	113.0	20.5	9.0	10.5	7.0
Merged-chr7-80095886-3	chr7	80095816	80096016	+	720.285706	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173011, intron 8 of 10)	intron (NM_173011, intron 8 of 10)	19434.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	6.0	1.5	5.5	41.5	12.5	13.5	7.5	12.0
Merged-chr14-75175153-5	chr14	75174916	75175116	+	844.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	38591.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	13.5	6.5	9.0	134.0	12.5	7.5	3.5	10.5
Merged-chr11-87448895-4	chr11	87448782	87448982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	21291.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	51.5	132.0	67.0	621.0	110.0	42.0	45.0	62.5
Merged-chr7-16257454-3	chr7	16257341	16257541	+	917.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	B2_Mm2|SINE|B2	1897.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	6.5	22.0	8.0	38.0	35.5	19.5	5.5	11.0
Merged-chr13-49196623-3	chr13	49196517	49196717	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013610)	TTS (NM_013610)	9070.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	45.5	85.5	35.0	421.0	102.5	45.0	27.0	24.5
Merged-chr13-9330853-3	chr13	9330743	9330943	+	957.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	54318.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	13.0	14.0	6.0	205.0	18.0	8.0	5.0	12.5
Merged-chr16-45090327-6	chr16	45090227	45090427	+	883.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3684.0	NM_026439	67896.0	Mm.181074	NM_026439	ENSMUSG00000022665	Ccdc80	2610001E17Rik|DRO1|Ssg1|Urb	coiled-coil domain containing 80	protein-coding	13.5	18.5	15.5	288.5	17.0	7.5	12.0	12.0
Merged-chr2-5710137-3	chr2	5710026	5710226	+	696.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	4636.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	21.5	19.5	13.0	158.0	23.0	4.5	4.5	2.5
Merged-chr2-152669459-4	chr2	152669398	152669598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159553)	promoter-TSS (NM_001159553)	37.0	NM_001159552	14950.0	Mm.277327	NM_010376	ENSMUSG00000019188	H13	1200006O09Rik|4930443L17Rik|5031424B04Rik|AV020344|H-13|Hm13|PSL3|Spp	histocompatibility 13	protein-coding	73.5	98.5	55.0	673.5	179.5	78.5	61.5	61.0
Merged-chr10-34307264-4	chr10	34307175	34307375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176968, intron 11 of 11)	intron (NM_176968, intron 11 of 11)	9854.0	NM_030203	72480.0	Mm.21485	NM_030203	ENSMUSG00000039485	Tspyl4	2610102M01Rik|B230210I21Rik|D10Bwg0791e	TSPY-like 4	protein-coding	24.5	48.0	19.0	490.0	71.5	59.5	31.0	35.0
Merged-chr4-133519261-5	chr4	133519097	133519297	+	724.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083916, intron 1 of 3)	CpG	234.0	NM_133707	69073.0	Mm.299081	NM_133707	ENSMUSG00000037600	Kdf1	1810019J16Rik	keratinocyte differentiation factor 1	protein-coding	10.5	11.0	3.5	38.5	21.5	17.0	9.5	13.0
Merged-chr19-15984989-4	chr19	15984875	15985075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045355)	promoter-TSS (NR_045355)	14.0	NM_198019	208518.0	Mm.105652	NM_198019	ENSMUSG00000041491	Cep78	5730599I05Rik|D030027P05	centrosomal protein 78	protein-coding	97.5	101.0	72.5	1279.5	165.5	51.0	68.0	62.5
Merged-chr11-75659450-4	chr11	75659307	75659507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080774, intron 5 of 31)	L2a|LINE|L2	3392.0	NM_001080775	17913.0	Mm.234502	NM_008659	ENSMUSG00000017774	Myo1c	C80397|MMIb|MYO1E|NMI|mm1beta|myr2	myosin IC	protein-coding	23.0	23.0	23.0	383.5	53.5	13.0	25.0	31.0
Merged-chr15-79343015-4	chr15	79342930	79343130	+	922.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3591.0	NM_001304830	17133.0	Mm.86646	NM_010755	ENSMUSG00000042622	Maff	-	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein F (avian)	protein-coding	5.0	16.5	9.0	71.5	40.0	8.0	17.0	20.0
Merged-chr11-121745691-4	chr11	121745554	121745754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43227.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	30.0	50.0	29.0	379.5	76.0	28.0	33.5	28.0
Merged-chr11-117810147-4	chr11	117810040	117810240	+	882.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009304, intron 1 of 3)	CpG	473.0	NM_009304	20973.0	Mm.468228	NM_009304	ENSMUSG00000048277	Syngr2	Clast2|cellugyrin	synaptogyrin 2	protein-coding	10.0	33.5	8.5	56.0	35.0	10.5	15.5	11.0
Merged-chr9-69949199-1	chr9	69949099	69949299	+	612.0	f0_c57.idr	Intergenic	B4|SINE|B4	-40267.0	NM_016787	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	3.5	3.5	2.5	85.5	26.0	9.5	8.5	6.5
Merged-chr9-40710222-3	chr9	40710184	40710384	+	977.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	B3A|SINE|B2	24320.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	30.0	37.0	27.0	480.5	1.0	0.5	1.5	2.5
Merged-chr15-19857449-3	chr15	19857362	19857562	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	672089.0	NR_155419	102639102.0	Mm.463245	NR_155419	ENSMUSG00000115803	Gm35496	-	predicted gene, 35496	ncRNA	0.0	0.0	0.0	0.5	333.5	136.5	149.5	109.0
Merged-chr4-120825784-4	chr4	120825681	120825881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277095)	promoter-TSS (NM_001277095)	-40.0	NM_008692	18046.0	Mm.318389	NM_008692	ENSMUSG00000032897	Nfyc	-	nuclear transcription factor-Y gamma	protein-coding	133.5	193.5	98.0	1291.0	354.5	146.5	167.5	153.0
Merged-chr1-193876553-4	chr1	193876439	193876639	+	841.337524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	346220.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	6.5	17.5	24.5	374.0	24.5	7.5	15.0	16.5
Merged-chr2-52523290-4	chr2	52523216	52523416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	MLT1B|LTR|ERVL-MaLR	35295.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	79.5	129.5	136.0	1680.0	213.0	69.5	80.5	70.5
Merged-chr10-44997746-2	chr10	44997646	44997846	+	582.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69468.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	10.0	8.0	8.0	69.5	23.5	8.5	4.5	5.0
Merged-chr14-79532554-4	chr14	79532463	79532663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286411, intron 1 of 8)	intron (NM_001286411, intron 1 of 8)	16889.0	NM_001286411	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	48.5	67.5	37.5	757.5	117.5	38.5	51.0	53.5
Merged-chr10-128035497-4	chr10	128035384	128035584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001113199, exon 1 of 9)	5' UTR (NM_001113199, exon 1 of 9)	138.0	NM_001113199	17938.0	Mm.3746	NM_013608	ENSMUSG00000061315	Naca	AL022831|AL024382|Gm1878|mKIAA0363|skNAC	nascent polypeptide-associated complex alpha polypeptide	protein-coding	180.5	271.0	189.0	2472.5	377.0	143.0	200.5	156.0
Merged-chr3-15332307-3	chr3	15332215	15332415	+	913.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001076679)	promoter-TSS (NM_001076679)	-13.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	24.5	14.0	21.5	323.5	14.0	13.0	10.0	6.5
Merged-chr15-76247396-4	chr15	76247275	76247475	+	833.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105918)	promoter-TSS (NR_105918)	568.0	NM_023168	66168.0	Mm.41665	NM_023168	ENSMUSG00000022564	Grina	1110025J15Rik|Lag|Tmbim3	glutamate receptor, ionotropic, N-methyl D-aspartate-associated protein 1 (glutamate binding)	protein-coding	5.5	27.0	11.0	37.0	33.0	9.5	12.5	6.0
Merged-chr8-26966674-4	chr8	26966549	26966749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10687.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	35.0	63.0	48.0	616.5	109.5	27.0	46.0	34.5
Merged-chr9-59749719-4	chr9	59749577	59749777	+	970.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172069, intron 1 of 2)	intron (NM_001172069, intron 1 of 2)	972.0	NM_001172069	71599.0	Mm.279070	NM_027838	ENSMUSG00000051705	Senp8	9130010J17Rik|AU020827|Den1|Nedp1|Prsc2	SUMO/sentrin specific peptidase 8	protein-coding	22.0	26.5	10.5	272.5	42.0	7.0	14.0	24.0
Merged-chr2-32130641-3	chr2	32130550	32130750	+	589.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20498.0	NM_172661	227723.0	Mm.25504	NM_172661	ENSMUSG00000039262	Prrc2b	5830434P21Rik|AI173903|Bat2l|Bat2l1|D430039P21|mKIAA0515	proline-rich coiled-coil 2B	protein-coding	4.0	7.0	3.0	79.0	10.0	4.5	8.5	9.0
Merged-chr8-105991021-4	chr8	105990935	105991135	+	838.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176913, intron 1 of 11)	intron (NM_176913, intron 1 of 11)	738.0	NM_001301204	319446.0	Mm.248357	NM_176913	ENSMUSG00000053687	Dpep2	F630103D06Rik|MBD-2	dipeptidase 2	protein-coding	8.0	12.0	12.0	118.0	28.0	11.5	10.0	29.0
Merged-chr5-139380956-1	chr5	139380856	139381056	+	1000.0	f0_c57.idr	TTS (NR_033147)	TTS (NR_033147)	317.0	NM_030258	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	52.0	68.0	59.5	709.0	96.0	36.0	50.0	71.5
Merged-chr11-69920582-2	chr11	69920482	69920682	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166590)	promoter-TSS (NM_001166590)	48.0	NM_001166590	276770.0	Mm.18026	NM_181582	ENSMUSG00000078812	Eif5a	AA410058|D19Wsu54e|Eif4d|Eif5a1|eIF-4D|eIF-5A|eIF-5A-1|eIF-5A1	eukaryotic translation initiation factor 5A	protein-coding	8.5	21.5	21.0	178.5	42.0	16.0	23.0	18.5
Merged-chr4-128756308-4	chr4	128756197	128756397	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2961.0	NM_001009819	215493.0	Mm.300900	NM_001009819	ENSMUSG00000028794	A3galt2	Gm433|iGb3|iGb3S	alpha 1,3-galactosyltransferase 2 (isoglobotriaosylceramide synthase)	protein-coding	11.5	7.5	4.5	117.5	36.0	6.0	18.5	6.0
Merged-chr6-114404346-4	chr6	114404222	114404422	+	893.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252642, intron 1 of 1)	intron (NM_001252642, intron 1 of 1)	656.0	NM_001252643	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	10.0	20.5	18.5	303.0	26.0	5.5	11.5	14.0
Merged-chr2-168128673-2	chr2	168128573	168128773	+	778.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25840.0	NR_040327	77017.0	Mm.407822	NR_040327	ENSMUSG00000087648	E130018N17Rik	-	RIKEN cDNA E130018N17 gene	ncRNA	5.5	6.5	2.5	43.0	28.5	5.5	4.5	7.0
Merged-chr1-144265828-4	chr1	144265725	144265925	+	750.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16721.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	12.0	10.5	3.0	138.0	23.0	10.5	11.0	5.0
Merged-chr17-67345380-4	chr17	67345277	67345477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	MTD|LTR|ERVL-MaLR	9082.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	176.5	232.5	221.5	3237.0	452.0	161.0	186.0	119.0
Merged-chr18-35119005-4	chr18	35118948	35119148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009818, intron 1 of 17)	CpG	136.0	NM_009818	12385.0	Mm.18962	NM_009818	ENSMUSG00000037815	Ctnna1	2010010M04Rik|AA517462|AI988031|Catna1	catenin (cadherin associated protein), alpha 1	protein-coding	25.0	36.5	49.0	373.5	61.0	33.5	45.0	51.5
Merged-chr4-145300340-4	chr4	145300256	145300456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009401, intron 2 of 12)	intron (NM_009401, intron 2 of 12)	14791.0	NM_009401	21941.0	Mm.12810	NM_009401	ENSMUSG00000028602	Tnfrsf8	Cd30|D1S166E|Ki|Ki-1	tumor necrosis factor receptor superfamily, member 8	protein-coding	28.0	137.5	40.0	332.5	128.5	27.5	30.0	26.0
Merged-chr2-164746018-4	chr2	164745943	164746143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133763)	promoter-TSS (NM_133763)	28.0	NM_133763	76233.0	Mm.440009	NM_133763	ENSMUSG00000017299	Dnttip1	6430706C13Rik	deoxynucleotidyltransferase, terminal, interacting protein 1	protein-coding	41.5	70.0	54.0	349.5	130.0	43.0	30.0	21.5
Merged-chr5-135118635-4	chr5	135118535	135118735	+	865.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152882, intron 2 of 16)	intron (NR_152882, intron 2 of 16)	11744.0	NR_152882	58805.0	Mm.34213	NM_021455	ENSMUSG00000005373	Mlxipl	ChREBP|Mlx|WS-bHLH|Wbscr14|bHLHd14	MLX interacting protein-like	protein-coding	9.5	10.5	4.0	71.5	33.5	7.5	14.0	15.0
Merged-chr11-68475846-4	chr11	68475748	68475948	+	985.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 3 of 18)	intron (NM_177320, intron 3 of 18)	-27171.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	30.5	52.0	25.5	258.0	53.5	24.5	24.0	15.5
Merged-chr3-144580185-6	chr3	144580094	144580294	+	842.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053102, intron 2 of 4)	B1F1|SINE|Alu	9767.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	5.0	10.5	7.5	114.0	23.5	9.5	10.5	18.5
Merged-chr5-112972481-4	chr5	112972383	112972583	+	994.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 3 of 20)	intron (NM_001285806, intron 3 of 20)	43055.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	33.0	22.5	24.0	636.5	53.0	23.0	20.0	23.0
Merged-chr10-41831089-2	chr10	41830989	41831189	+	896.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	20515.0	NM_001162908	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	4.5	11.0	2.0	91.0	26.5	5.0	7.0	9.0
Merged-chr13-112004330-4	chr13	112004235	112004435	+	935.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136399.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	19.0	28.0	14.0	359.0	39.0	11.5	16.5	19.5
Merged-chr7-34133314-4	chr7	34133214	34133414	+	983.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207212)	promoter-TSS (NM_207212)	-46.0	NM_207212	101543.0	Mm.422738	NM_207212	ENSMUSG00000036459	Wtip	-	WT1-interacting protein	protein-coding	29.5	23.5	35.0	532.5	55.5	25.5	32.5	13.5
Merged-chr13-55437406-4	chr13	55437314	55437514	+	837.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY5_I-int|LTR|ERVK	-7658.0	NM_001286063	26385.0	Mm.10193	NM_011938	ENSMUSG00000074886	Grk6	Gprk6	G protein-coupled receptor kinase 6	protein-coding	8.5	21.5	16.5	111.5	39.0	11.5	11.5	31.0
Merged-chr17-30005740-4	chr17	30005614	30005814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151443, intron 1 of 4)	intron (NR_151443, intron 1 of 4)	675.0	NM_001356265	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	36.5	109.5	41.0	422.0	136.5	71.5	58.5	48.0
Merged-chr10-98780289-4	chr10	98780191	98780391	+	757.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134351.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	4.5	15.5	9.0	125.5	31.0	6.5	10.0	8.5
Merged-chr15-41639057-1	chr15	41638957	41639157	+	612.333313	f0_balb.idr	intron (NR_152565, intron 2 of 17)	intron (NR_152565, intron 2 of 17)	-149938.0	NM_001358976	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	8.5	9.0	10.0	88.5	11.5	1.0	8.0	7.5
Merged-chr18-88952904-4	chr18	88952811	88953011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-18879.0	NM_175542	246102.0	Mm.772	NM_175542	ENSMUSG00000023066	Rttn	4921538A15Rik|AI666264|C530033I08Rik|D230040K24	rotatin	protein-coding	32.5	23.0	43.0	673.5	65.0	21.0	24.5	32.0
Merged-chr9-22313454-4	chr9	22313358	22313558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5820.0	NM_145612	235050.0	Mm.306038	NM_145612	ENSMUSG00000066829	Zfp810	BC005471	zinc finger protein 810	protein-coding	101.5	216.5	127.5	2151.5	329.0	80.5	136.5	117.5
Merged-chr3-152346464-4	chr3	152346350	152346550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252486)	promoter-TSS (NM_001252486)	-28.0	NM_133247	170822.0	Mm.258320	NM_133247	ENSMUSG00000025437	Usp33	9830169D19Rik|AA409780|Vdu1	ubiquitin specific peptidase 33	protein-coding	139.5	217.5	119.0	2708.5	366.5	138.0	156.0	121.5
Merged-chr9-35421456-4	chr9	35421363	35421563	+	980.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-30613.0	NM_021339	57810.0	Mm.80509	NM_021339	ENSMUSG00000038119	Cdon	CDO|Cd0|Orcam	cell adhesion molecule-related/down-regulated by oncogenes	protein-coding	47.5	78.5	45.0	1083.0	44.5	10.0	18.5	14.5
Merged-chr13-49381422-4	chr13	49381323	49381523	+	926.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039179, intron 6 of 6)	intron (NM_001039179, intron 6 of 6)	-39800.0	NR_075085	75678.0	Mm.390586	NM_199056	ENSMUSG00000021385	Ippk	1810043M15Rik|InsP6	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	protein-coding	14.0	27.5	9.5	290.5	44.0	14.0	16.5	39.0
Merged-chr18-32361594-4	chr18	32361470	32361670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045403, intron 2 of 2)	intron (NR_045403, intron 2 of 2)	-15647.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	70.0	123.5	87.5	1468.5	225.5	60.5	87.0	70.5
Merged-chr3-41552973-3	chr3	41552873	41553073	+	986.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2761.0	NM_001130184	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	15.5	14.5	14.0	298.0	11.0	6.0	9.0	9.5
Merged-chr1-79776083-4	chr1	79775998	79776198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081210)	promoter-TSS (NM_001081210)	80.0	NM_001081210	69163.0	Mm.238455	NM_001081210	ENSMUSG00000026248	Mrpl44	1810030E18Rik|5730593H20Rik|AI463302	mitochondrial ribosomal protein L44	protein-coding	74.0	85.0	62.5	1035.5	326.5	139.5	170.0	146.0
Merged-chr9-116088071-4	chr9	116087979	116088179	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009371, exon 8 of 8)	3' UTR (NM_009371, exon 8 of 8)	87284.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	28.5	28.5	18.0	247.5	83.0	26.5	29.5	25.5
Merged-chr2-93646091-2	chr2	93645996	93646196	+	687.5	f0_balb.idr|f0_c57.idr	intron (NM_007442, intron 1 of 3)	CpG	3662.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	4.0	5.5	7.5	134.0	22.5	6.0	8.5	12.5
Merged-chr12-111678061-4	chr12	111677964	111678164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099792)	promoter-TSS (NM_001099792)	-41.0	NM_001099792	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	64.0	86.0	50.5	866.5	161.5	42.5	76.0	50.0
Merged-chr9-61627997-3	chr9	61627879	61628079	+	853.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	255613.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	10.5	10.0	16.5	160.0	16.5	0.0	4.0	9.0
Merged-chr7-16120064-4	chr7	16119892	16120092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133727, exon 1 of 12)	exon (NM_133727, exon 1 of 12)	116.0	NM_133727	70394.0	Mm.41101	NM_133727	ENSMUSG00000006021	Kptn	2310042D10Rik|2E4|C030013F01Rik	kaptin	protein-coding	22.5	57.0	30.0	411.0	99.5	61.5	47.0	45.5
Merged-chr8-35639218-3	chr8	35639122	35639322	+	920.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	MLT1A|LTR|ERVL-MaLR	-50202.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	0.0	0.0	0.0	0.0	99.5	28.0	75.0	50.0
Merged-chr7-110919924-2	chr7	110919824	110920024	+	738.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_194464, intron 10 of 20)	L1MB3|LINE|L1	14939.0	NR_045267	100504184.0	Mm.441327	NR_045267	ENSMUSG00000087160	Gm16336	-	predicted gene 16336	ncRNA	2.5	9.0	5.0	83.0	18.0	8.0	5.5	7.0
Merged-chr15-57976087-4	chr15	57975978	57976178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9825.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	42.5	64.0	42.0	496.5	148.5	61.0	57.0	48.0
Merged-chr17-34972299-5	chr17	34972157	34972357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013558)	promoter-TSS (NM_013558)	-101.0	NM_010479	193740.0	Mm.6388	NM_010479	ENSMUSG00000091971	Hspa1a	Hsp70-3|Hsp70.3|Hsp72|hsp68|hsp70A1	heat shock protein 1A	protein-coding	117.0	246.0	146.5	646.5	268.0	140.0	129.5	141.0
Merged-chr4-126412735-4	chr4	126412636	126412836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153402, intron 2 of 18)	RMER19B|LTR|ERVK	16806.0	NM_153402	214150.0	Mm.440915	NM_153402	ENSMUSG00000028842	Ago3	AW048688|C130014L07Rik|Eif2c3	argonaute RISC catalytic subunit 3	protein-coding	34.5	64.5	74.0	603.5	60.5	26.0	26.5	27.0
Merged-chr9-57466311-4	chr9	57466207	57466407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301635, intron 1 of 5)	intron (NM_001301635, intron 1 of 5)	1753.0	NM_001301634	56807.0	Mm.102278	NM_020270	ENSMUSG00000040722	Scamp5	Sc5	secretory carrier membrane protein 5	protein-coding	27.5	30.0	31.5	474.5	48.0	22.5	31.0	38.0
Merged-chr2-33426143-4	chr2	33426041	33426241	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276332, intron 1 of 1)	intron (NM_001276332, intron 1 of 1)	5183.0	NM_001085507	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	8.5	19.5	18.5	223.0	30.5	4.5	6.5	19.5
Merged-chr2-52931583-4	chr2	52931480	52931680	+	903.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	ORR1B2|LTR|ERVL-MaLR	73712.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	5.0	18.5	6.5	182.5	37.0	5.0	22.0	12.5
Merged-chr4-114917290-4	chr4	114917208	114917408	+	782.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030721, intron 3 of 3)	intron (NR_030721, intron 3 of 3)	8019.0	NR_030721	100040736.0	Mm.231287	NR_030721	ENSMUSG00000085399	Foxd2os	9130206I24Rik	forkhead box D2, opposite strand	ncRNA	6.5	8.5	6.0	118.0	22.0	7.0	4.0	4.0
Merged-chr3-137952418-4	chr3	137952303	137952503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 3 of 8)	intron (NM_011932, intron 3 of 8)	29146.0	NM_001310753	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	191.0	275.5	221.5	2472.5	241.0	132.5	107.0	106.5
Merged-chr2-90650175-4	chr2	90650058	90650258	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27057.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	34.0	37.5	29.5	793.5	55.5	15.5	42.0	41.0
Merged-chr1-173740805-5	chr1	173740698	173740898	+	772.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204910, intron 1 of 7)	intron (NM_001204910, intron 1 of 7)	1011.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	8.5	19.5	4.5	171.5	31.5	14.0	17.0	10.0
Merged-chr18-82862343-4	chr18	82862252	82862452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	6455.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	43.0	59.0	40.5	591.5	137.0	41.0	52.0	36.0
Merged-chr8-25982357-4	chr8	25982246	25982446	+	919.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029037, exon 5 of 5)	3' UTR (NM_029037, exon 5 of 5)	-5602.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	8.0	7.5	11.0	116.0	13.0	8.0	4.5	14.0
Merged-chr5-130044304-4	chr5	130044182	130044382	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007761, intron 4 of 5)	intron (NM_007761, intron 4 of 5)	14976.0	NM_007761	12909.0	Mm.18072	NM_007761	ENSMUSG00000025532	Crcp	AL022669	calcitonin gene-related peptide-receptor component protein	protein-coding	3.0	14.5	6.0	187.0	50.5	24.5	16.5	20.0
Merged-chr15-58872622-4	chr15	58872550	58872750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026642)	promoter-TSS (NM_026642)	1.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	36.5	58.0	17.5	455.5	73.5	28.0	38.0	37.0
Merged-chr7-102018266-4	chr7	102018175	102018375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010531)	promoter-TSS (NM_010531)	-120.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	65.5	123.5	89.0	945.0	181.0	52.5	89.0	50.5
Merged-chr1-91412649-2	chr1	91412549	91412749	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360900, intron 3 of 3)	CpG	573.0	NM_019479	55927.0	Mm.280029	NM_019479	ENSMUSG00000067071	Hes6	AI326893|bHLHb41	hairy and enhancer of split 6	protein-coding	7.0	10.0	10.0	100.5	11.0	3.5	6.5	4.5
Merged-chr5-135064142-4	chr5	135064029	135064229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025362)	promoter-TSS (NM_025362)	-77.0	NM_025362	66114.0	Mm.178012	NM_025362	ENSMUSG00000061118	Dnajc30	1300007M11Rik|Wbscr18	DnaJ heat shock protein family (Hsp40) member C30	protein-coding	109.5	140.5	51.5	1099.5	244.0	98.5	83.0	80.5
Merged-chr6-83693989-4	chr6	83693881	83694081	+	867.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_002871, intron 5 of 5)	intron (NR_002871, intron 5 of 5)	-16124.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	15.0	17.5	4.5	146.0	20.0	13.0	12.0	13.0
Merged-chr4-55364099-3	chr4	55363999	55364199	+	856.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	MIRc|SINE|MIR	14057.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	24.5	15.5	6.5	319.0	9.5	5.0	8.0	13.5
Merged-chr13-40953416-4	chr13	40953314	40953514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	MER20|DNA|hAT-Charlie	35780.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	46.5	76.5	36.5	754.0	107.5	45.5	31.5	27.5
Merged-chr9-110841052-3	chr9	110840936	110841136	+	758.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153172, exon 6 of 6)	exon (NM_153172, exon 6 of 6)	-3470.0	NM_183103	74306.0	Mm.87419	NM_183103	ENSMUSG00000049719	Prss46	1700112C13Rik|79H19B|Tessp6	protease, serine 46	protein-coding	3.0	8.5	7.5	68.0	16.0	6.5	4.5	7.0
Merged-chr9-57073601-4	chr9	57073503	57073703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110351, intron 1 of 21)	intron (NM_001110351, intron 1 of 21)	1563.0	NM_001110351	20466.0	Mm.15755	NM_011378	ENSMUSG00000042557	Sin3a	AW553200|Sin3|mKIAA4126|mSin3A	transcriptional regulator, SIN3A (yeast)	protein-coding	277.5	408.0	273.0	3364.5	635.0	290.0	261.5	250.0
Merged-chr12-38844211-4	chr12	38844094	38844294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347379, intron 7 of 11)	intron (NM_001347379, intron 7 of 11)	60483.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	34.0	27.5	33.5	832.5	52.0	18.5	29.5	22.5
Merged-chr5-31288387-3	chr5	31288304	31288504	+	766.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026298, intron 1 of 47)	intron (NM_026298, intron 1 of 47)	2710.0	NM_026298	67661.0	Mm.293023	NM_026298	ENSMUSG00000038564	Ift172	4930553F24Rik|Slb|avc1|wim	intraflagellar transport 172	protein-coding	6.5	11.5	5.5	166.5	12.5	2.0	1.5	4.0
Merged-chr6-73210620-4	chr6	73210523	73210723	+	958.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164669, intron 2 of 76)	ORR1D1|LTR|ERVL-MaLR	11008.0	NM_001164669	330355.0	Mm.333166	NM_001164669	ENSMUSG00000052861	Dnah6	9830168K20|A730004I20Rik|Dnahc6|mKIAA1697|mdhc6	dynein, axonemal, heavy chain 6	protein-coding	22.0	13.0	9.5	264.0	86.5	36.0	31.0	33.5
Merged-chr12-40520037-4	chr12	40519934	40520134	+	859.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	73981.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	19.5	21.0	27.5	228.0	42.0	13.5	15.0	15.5
Merged-chr2-59395526-8	chr2	59395420	59395620	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C1|LTR|ERVK	-8838.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	16.5	27.5	23.5	120.0	51.0	25.5	20.0	24.0
Merged-chr9-60688077-4	chr9	60687976	60688176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145616)	promoter-TSS (NM_145616)	58.0	NM_001146046	102747.0	Mm.269413	NM_145616	ENSMUSG00000047766	Lrrc49	AI430817|AW050057|D430025H09Rik|PGs4|p79	leucine rich repeat containing 49	protein-coding	124.0	207.0	72.0	1598.5	314.0	128.0	107.5	85.0
Merged-chr1-132317592-4	chr1	132317497	132317697	+	964.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195025, intron 1 of 7)	intron (NM_001195025, intron 1 of 7)	1472.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	14.0	24.5	14.0	224.5	42.5	10.0	13.5	19.0
Merged-chr7-79884133-4	chr7	79884041	79884241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009682, intron 4 of 5)	L1MB2|LINE|L1	-35931.0	NM_008486	16790.0	Mm.4487	NM_008486	ENSMUSG00000039062	Anpep	AP-M|AP-N|Apn|Cd13|P150	alanyl (membrane) aminopeptidase	protein-coding	48.5	101.0	72.0	739.0	193.5	53.5	73.0	41.5
Merged-chr4-66793614-4	chr4	66793505	66793705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-33946.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	51.5	64.0	37.0	788.5	73.0	24.5	25.0	17.5
Merged-chr5-102055872-8	chr5	102055793	102055993	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	14028.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	10.0	11.0	13.0	92.0	25.5	6.0	8.0	20.0
Merged-chr8-128680138-3	chr8	128679994	128680194	+	922.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5560.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	5.0	14.0	6.0	85.5	17.0	4.0	6.5	1.5
Merged-chr8-115311132-4	chr8	115311020	115311220	+	847.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 8 of 8)	intron (NM_019573, intron 8 of 8)	395774.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	20.0	12.0	12.0	125.5	30.5	17.0	8.5	10.5
Merged-chr7-35027196-4	chr7	35027109	35027309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 11 of 14)	intron (NM_008820, intron 11 of 14)	29357.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	194.5	199.0	164.5	2577.5	356.5	105.5	133.0	192.0
Merged-chr10-51451743-4	chr10	51451647	51451847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28865.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	35.0	30.5	38.5	543.0	78.0	39.0	24.0	23.5
Merged-chr18-62980643-3	chr18	62980539	62980739	+	769.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028017, intron 2 of 11)	intron (NM_028017, intron 2 of 11)	2723.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	1.5	10.5	4.0	64.5	20.5	10.5	8.0	13.0
Merged-chr5-147431163-4	chr5	147431081	147431281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 1 of 18)	CpG	1025.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	45.5	55.5	41.0	473.0	119.0	64.5	41.0	51.5
Merged-chr15-76607658-4	chr15	76607571	76607771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164173)	promoter-TSS (NM_001164173)	-80.0	NM_001164173	94230.0	Mm.45141	NM_053193	ENSMUSG00000034022	Cpsf1	CPSF160	cleavage and polyadenylation specific factor 1	protein-coding	90.5	154.5	63.5	853.0	227.0	78.5	93.0	105.5
Merged-chr4-136016036-3	chr4	136015945	136016145	+	885.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013736, intron 1 of 10)	intron (NM_013736, intron 1 of 10)	5604.0	NM_013736	27224.0	Mm.27663	NM_013736	ENSMUSG00000028668	Eloa	110kDa|AA408125|Tceb3|Tceb3a	elongin A	protein-coding	8.0	7.5	9.0	88.0	9.0	6.0	6.0	11.5
Merged-chr1-161443883-4	chr1	161443752	161443952	+	952.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48414.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	22.5	29.5	35.5	746.5	30.0	19.0	21.0	12.5
Merged-chr5-122652667-3	chr5	122652565	122652765	+	931.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284402, intron 1 of 12)	intron (NM_001284402, intron 1 of 12)	2241.0	NM_001284402	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	14.0	12.0	12.0	191.5	12.5	4.0	7.0	6.0
Merged-chr14-40937777-3	chr14	40937687	40937887	+	927.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	intron (NM_145928, intron 1 of 8)	10422.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	14.5	9.5	7.0	172.5	11.0	6.0	5.5	16.0
Merged-chr13-98968195-2	chr13	98968090	98968290	+	600.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	16375.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	7.5	10.5	12.5	81.0	14.0	12.5	3.5	5.5
Merged-chr10-57712832-4	chr10	57712712	57712912	+	959.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	intron (NM_008863, intron 4 of 5)	61831.0	NM_001190402	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	17.5	12.0	15.5	219.0	37.0	4.0	11.0	8.0
Merged-chr6-88842215-4	chr6	88842120	88842320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030251)	promoter-TSS (NM_030251)	-285.0	NR_155424	80283.0	Mm.166858	NM_030251	ENSMUSG00000030083	Abtb1	AI847549|BC003234|BPOZ|EF1ABP	ankyrin repeat and BTB (POZ) domain containing 1	protein-coding	234.0	437.5	304.0	3349.5	677.0	350.5	318.5	259.0
Merged-chr15-80011985-3	chr15	80011959	80012159	+	970.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011057, intron 1 of 6)	intron (NM_011057, intron 1 of 6)	2749.0	NM_011057	18591.0	Mm.144089	NM_011057	ENSMUSG00000000489	Pdgfb	PDGF-B|Sis	platelet derived growth factor, B polypeptide	protein-coding	17.0	13.0	7.5	171.5	17.5	7.5	4.0	7.5
Merged-chr6-99785414-4	chr6	99785300	99785500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59008.0	NM_001037539	50501.0	Mm.87365	NM_015768	ENSMUSG00000030069	Prok2	Bv8|PK2|Prok1	prokineticin 2	protein-coding	33.5	48.5	45.5	581.0	78.0	23.0	30.5	21.5
Merged-chr2-132221741-4	chr2	132221669	132221869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26019.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	60.0	95.5	89.5	1210.5	169.0	53.5	69.5	75.0
Merged-chr2-153240862-5	chr2	153240754	153240954	+	890.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080463)	promoter-TSS (NM_080463)	504.0	NM_018807	54711.0	Mm.103199	NM_018807	ENSMUSG00000051413	Plagl2	AU018672|AW552839|mKIAA0198	pleiomorphic adenoma gene-like 2	protein-coding	11.5	8.0	7.0	204.0	26.5	7.0	9.0	9.5
Merged-chr2-180582681-4	chr2	180582557	180582757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151482, exon 2 of 5)	non-coding (NR_151482, exon 2 of 5)	1435.0	NR_151482	73247.0	Mm.426558	NM_028479	ENSMUSG00000027569	Mrgbp	1600027N09Rik|AW060503|C80444	MRG/MORF4L binding protein	protein-coding	105.0	147.0	129.0	1547.5	319.5	127.5	102.0	85.0
Merged-chr11-4536826-4	chr11	4536743	4536943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 1 of 17)	PB1D10|SINE|Alu	57972.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	32.5	24.0	30.0	368.0	62.0	19.5	24.5	32.0
Merged-chr5-125333216-4	chr5	125333114	125333314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	7880.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	36.5	43.0	54.5	646.5	81.0	28.0	43.0	34.5
Merged-chr6-116670292-6	chr6	116670209	116670409	+	895.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	intron (NM_178045, intron 1 of 10)	3527.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	6.0	13.0	7.5	39.0	45.5	13.5	12.5	12.0
Merged-chr11-120518823-2	chr11	120518723	120518923	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-11904.0	NM_008101	14527.0	Mm.22329	NM_008101	ENSMUSG00000025127	Gcgr	GR	glucagon receptor	protein-coding	5.5	6.0	4.5	74.0	20.0	7.5	1.5	7.0
Merged-chr6-110080927-4	chr6	110080807	110081007	+	796.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-564605.0	NM_001346640	108073.0	Mm.240881	NM_177328	ENSMUSG00000056755	Grm7	6330570A01Rik|BB176677|C030018L03|E130018M02Rik|Gpr1g|Gprc1g|SMN2|Tg(SMN2)89Ahmb|mGluR7	glutamate receptor, metabotropic 7	protein-coding	7.5	5.5	7.5	235.5	20.5	6.5	9.0	5.0
Merged-chr8-123005245-3	chr8	123005149	123005349	+	944.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	37035.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	12.0	4.0	2.0	116.0	30.5	8.0	6.5	11.0
Merged-chr17-27851331-4	chr17	27851217	27851417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011432, intron 5 of 5)	intron (NM_011432, intron 5 of 5)	-5190.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	92.0	157.0	64.0	1157.5	203.5	97.5	82.5	58.5
Merged-chr5-22550382-4	chr5	22550287	22550487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102315)	promoter-TSS (NR_102315)	-26.0	NR_102315	320719.0	Mm.459265	NR_102315	ENSMUSG00000097207	6030443J06Rik	1700030G06Rik	RIKEN cDNA 6030443J06 gene	ncRNA	145.0	250.5	164.5	3179.0	418.5	172.0	230.0	210.0
Merged-chr17-55722456-4	chr17	55722357	55722557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR25C|LTR|ERVK	-9821.0	NR_151542	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	29.5	39.5	57.5	503.5	65.5	30.0	53.5	29.0
Merged-chr10-14054435-3	chr10	14054334	14054534	+	893.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	88055.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	11.0	20.0	8.0	110.5	18.0	3.0	6.0	8.0
Merged-chr11-101646273-4	chr11	101646195	101646395	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18346.0	NM_025654	66599.0	Mm.41449	NM_025654	ENSMUSG00000010362	Rdm1	2410008M22Rik|AW212028|Rad52b	RAD52 motif 1	protein-coding	16.5	18.0	17.5	92.0	36.0	9.5	13.5	8.0
Merged-chr3-18641883-4	chr3	18641794	18641994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-161417.0	NR_040544	73959.0	Mm.60616	NR_040544	ENSMUSG00000102699	4930433B08Rik	-	RIKEN cDNA 4930433B08 gene	ncRNA	45.0	41.0	71.5	1533.0	112.5	31.0	67.0	59.5
Merged-chr13-94358973-4	chr13	94358862	94359062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009680)	promoter-TSS (NM_009680)	2.0	NM_009680	11774.0	Mm.21185	NM_009680	ENSMUSG00000021686	Ap3b1	AP-3|AU015684|C78395|Hps2|beta3A|pe|pearl|rim2	adaptor-related protein complex 3, beta 1 subunit	protein-coding	59.5	103.0	62.0	1037.0	178.5	42.0	68.5	51.5
Merged-chr5-21113700-6	chr5	21113627	21113827	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-57816.0	NM_011203	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	7.5	9.0	16.5	120.0	20.5	6.0	7.0	10.0
Merged-chr10-40258161-4	chr10	40258062	40258262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026113)	promoter-TSS (NM_026113)	-450.0	NM_001359492	67371.0	Mm.64104	NM_026113	ENSMUSG00000019837	Gtf3c6	2410016F19Rik|AU019813	general transcription factor IIIC, polypeptide 6, alpha	protein-coding	34.5	39.5	32.5	383.0	71.5	32.5	48.5	23.0
Merged-chr9-110656559-4	chr9	110656474	110656674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028312)	promoter-TSS (NM_028312)	71.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	78.0	132.0	123.5	949.0	203.0	97.0	88.5	83.5
Merged-chr11-110537820-3	chr11	110537706	110537906	+	826.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58466.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	11.0	6.5	1.5	68.5	28.5	10.0	7.5	7.5
Merged-chr5-145208148-2	chr5	145208048	145208248	+	647.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359192, intron 2 of 3)	intron (NM_001359192, intron 2 of 3)	3589.0	NM_001359188	22757.0	Mm.332842	NM_016683	ENSMUSG00000055991	Zkscan5	AI132486|AI326970|Zfp95|hKraba1	zinc finger with KRAB and SCAN domains 5	protein-coding	6.0	2.0	5.0	67.0	15.5	9.0	4.5	9.5
Merged-chr12-85375004-4	chr12	85374804	85375004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026775)	promoter-TSS (NM_026775)	-187.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	43.0	67.0	41.5	387.0	101.5	67.5	39.5	57.5
Merged-chr15-84923787-3	chr15	84923761	84923961	+	987.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016714, intron 1 of 7)	CpG	433.0	NM_016714	18141.0	Mm.28379	NM_016714	ENSMUSG00000016619	Nup50	1700030K07Rik|AI413123|Npap60	nucleoporin 50	protein-coding	10.0	19.5	18.0	153.0	52.0	29.0	19.0	23.5
Merged-chr16-97480991-4	chr16	97480887	97481087	+	859.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020622, intron 3 of 7)	MTE2b|LTR|ERVL-MaLR	-18081.0	NR_003520	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	22.5	12.5	12.0	360.5	70.0	14.0	17.0	24.0
Merged-chr9-44767809-4	chr9	44767688	44767888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145985)	promoter-TSS (NM_145985)	20.0	NM_145985	213827.0	Mm.371682	NM_145985	ENSMUSG00000032096	Arcn1	4632432M07Rik|nur17	archain 1	protein-coding	44.5	57.5	47.5	456.0	101.5	58.0	41.0	57.5
Merged-chr1-191950468-4	chr1	191950361	191950561	+	883.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26909.0	NM_001177900	74023.0	Mm.274393	NM_023727	ENSMUSG00000049353	Rd3	3322402L07Rik|rd-3|rd3	retinal degeneration 3	protein-coding	10.0	16.5	16.0	219.5	31.0	9.5	23.0	14.0
Merged-chr5-65764308-8	chr5	65764184	65764384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024917, intron 1 of 19)	CpG	763.0	NM_001024917	333789.0	Mm.332398	NM_001024917	ENSMUSG00000037795	N4bp2	B3bp|E430014I16|Gm1791|Gm868	NEDD4 binding protein 2	protein-coding	4.5	39.0	22.0	246.5	35.5	20.0	24.5	16.0
Merged-chr1-154256982-4	chr1	154256874	154257074	+	832.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040629)	promoter-TSS (NR_040629)	-68.0	NR_040629	78112.0	Mm.401935	NR_040629	ENSMUSG00000099933	4930452N14Rik	-	RIKEN cDNA 4930452N14 gene	ncRNA	12.5	23.0	23.0	354.5	16.5	4.0	11.0	7.0
Merged-chr5-49090381-1	chr5	49090281	49090481	+	561.0	f0_balb.idr	intron (NM_001199244, intron 1 of 7)	intron (NM_001199244, intron 1 of 7)	195278.0	NM_001199244	80334.0	Mm.160172	NM_030265	ENSMUSG00000029088	Kcnip4	AV032399|Calp|Calp250|KChIP4|KChIP4a	Kv channel interacting protein 4	protein-coding	6.5	12.0	11.0	63.0	17.5	5.5	2.5	6.5
Merged-chr14-105779478-3	chr14	105779368	105779568	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117351.0	NM_011897	24064.0	Mm.89982	NM_011897	ENSMUSG00000022114	Spry2	sprouty2	sprouty RTK signaling antagonist 2	protein-coding	18.0	24.5	20.5	330.0	14.0	4.0	10.5	6.0
Merged-chr6-148990069-4	chr6	148989969	148990169	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177192, exon 21 of 21)	3' UTR (NM_177192, exon 21 of 21)	-43599.0	NM_001361398	56306.0	Mm.18637	NM_019643	ENSMUSG00000039985	Fam60a	Ppcs1|Pptcs1|Sinhcaf|Tera	family with sequence similarity 60, member A	protein-coding	21.0	36.0	16.5	213.5	81.0	25.0	33.0	31.5
Merged-chr7-82867133-4	chr7	82867048	82867248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175366)	promoter-TSS (NM_175366)	-185.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	76.0	98.0	67.5	1927.5	331.0	95.5	191.5	127.5
Merged-chr1-55023891-4	chr1	55023779	55023979	+	772.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031179, intron 1 of 24)	(GGAA)n|Simple_repeat|Simple_repeat	3599.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	13.0	14.0	9.5	144.0	37.0	10.0	0.5	6.0
Merged-chr5-99578908-4	chr5	99578805	99579005	+	940.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 1 of 3)	intron (NR_030692, intron 1 of 3)	150155.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	18.5	27.0	8.0	176.0	42.5	20.5	16.5	17.5
Merged-chr10-119080733-2	chr10	119080633	119080833	+	812.416687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12172.0	NR_045348	73400.0	Mm.416864	NR_045348	ENSMUSG00000100681	1700064J06Rik	-	RIKEN cDNA 1700064J06 gene	ncRNA	1.0	7.5	5.0	110.5	12.5	4.5	8.0	11.0
Merged-chr10-52256040-3	chr10	52255950	52256150	+	891.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347444, intron 1 of 9)	intron (NM_001347444, intron 1 of 9)	22431.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	10.5	10.0	5.5	194.5	19.5	7.0	9.0	9.0
Merged-chr9-123957022-4	chr9	123956912	123957112	+	925.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11680.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	19.5	34.0	10.0	77.0	43.0	18.5	18.0	6.0
Merged-chr3-104442176-4	chr3	104442105	104442305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69713.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	124.0	175.0	65.5	1397.5	168.0	63.0	89.0	57.5
Merged-chr10-37339797-4	chr10	37339698	37339898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-200872.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	70.0	148.0	49.0	764.5	201.0	68.0	55.5	33.5
Merged-chr1-36547323-4	chr1	36547220	36547420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132321)	promoter-TSS (NR_132321)	-68.0	NR_132321	109346.0	Mm.247537	NM_026241	ENSMUSG00000079610	Ankrd39	9130416N05Rik|C030004B10Rik	ankyrin repeat domain 39	protein-coding	128.0	241.5	110.0	2139.0	363.0	146.0	197.5	126.0
Merged-chr5-8355785-3	chr5	8355686	8355886	+	827.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 2 of 28)	RSINE1|SINE|B4	12374.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	3.0	4.5	9.5	122.0	18.5	7.5	7.5	7.5
Merged-chr2-52500069-4	chr2	52499972	52500172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	58539.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	23.5	45.5	15.0	456.5	75.0	28.5	27.5	28.0
Merged-chr14-31413397-4	chr14	31413291	31413491	+	886.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	4286.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	19.5	18.5	8.0	128.0	36.5	9.0	4.0	15.0
Merged-chr17-94749996-4	chr17	94749898	94750098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024720)	promoter-TSS (NR_024720)	21.0	NM_001357136	76781.0	Mm.139146	NM_176917	ENSMUSG00000055660	Mettl4	2410198H06Rik|A730091E08Rik|AV296509|HsT661	methyltransferase like 4	protein-coding	318.5	445.0	341.0	4740.5	829.0	258.0	449.5	287.0
Merged-chr7-6154282-4	chr7	6154171	6154371	+	989.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013012, intron 1 of 2)	intron (NM_001013012, intron 1 of 2)	1700.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	31.0	16.5	32.5	507.5	73.0	19.0	34.5	36.0
Merged-chr17-78201443-4	chr17	78201293	78201493	+	932.1845089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 1 of 16)	CpG	1145.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	11.5	13.0	26.0	248.5	25.0	16.0	12.5	29.0
Merged-chr12-40626694-4	chr12	40626591	40626791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 4 of 52)	intron (NM_172803, intron 4 of 52)	180638.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	109.5	174.0	164.0	2251.5	276.5	103.5	98.0	111.0
Merged-chr3-127896078-8	chr3	127895980	127896180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027482, exon 1 of 2)	exon (NM_027482, exon 1 of 2)	243.0	NM_027482	70617.0	Mm.317049	NM_027482	ENSMUSG00000050549	Fam241a	2700063A17Rik|5730508B09Rik|C80506	family with sequence similarity 241, member A	protein-coding	30.0	36.5	20.5	335.5	67.0	26.0	33.0	48.5
Merged-chr1-75190056-4	chr1	75189981	75190181	+	994.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003917, intron 4 of 15)	intron (NM_001003917, intron 4 of 15)	1929.0	NM_001003917	245860.0	Mm.238266	NM_001003917	ENSMUSG00000033124	Atg9a	AU019532|Apg9l1|Atg9|Atg9l1	autophagy related 9A	protein-coding	20.0	33.0	18.0	247.5	32.0	18.5	13.0	16.5
Merged-chr12-30597134-4	chr12	30597028	30597228	+	971.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12685.0	NM_172049	211986.0	Mm.34035	NM_172049	ENSMUSG00000043061	Tmem18	BC024093	transmembrane protein 18	protein-coding	18.0	17.5	19.5	390.0	28.0	6.5	17.0	8.0
Merged-chr17-24667655-3	chr17	24667499	24667699	+	914.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2088.0	NM_001348231	213753.0	Mm.219581	NM_183149	ENSMUSG00000041130	Zfp598	BC023040|Ntrap|Znf598	zinc finger protein 598	protein-coding	11.0	6.5	7.0	141.5	17.5	10.0	6.0	3.0
Merged-chr12-14152128-4	chr12	14152020	14152220	+	873.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029007)	promoter-TSS (NM_029007)	-82.0	NM_029007	105005.0	Mm.227253	NM_029007	ENSMUSG00000020607	Fam84a	2310003N02Rik|4731402F03Rik|AW125753|Nse1	family with sequence similarity 84, member A	protein-coding	12.0	10.5	11.0	145.0	29.5	11.0	20.0	14.5
Merged-chr17-6781329-5	chr17	6781122	6781322	+	854.896667	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 1 of 12)	intron (NM_009510, intron 1 of 12)	1558.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	17.0	18.0	4.5	211.0	23.5	6.0	9.0	12.5
Merged-chr9-23601709-3	chr9	23601602	23601802	+	721.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	378626.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	9.5	8.0	10.5	119.5	14.0	2.0	3.5	1.5
Merged-chr16-55778714-3	chr16	55778608	55778808	+	847.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	43430.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	4.0	17.5	7.5	37.5	19.0	15.5	8.0	4.5
Merged-chr5-140992461-4	chr5	140992367	140992567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175362, intron 1 of 24)	L1ME3|LINE|L1	8129.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	28.0	16.5	22.0	412.5	65.0	14.0	25.5	19.0
Merged-chr14-99298585-4	chr14	99298485	99298685	+	890.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009769)	promoter-TSS (NM_009769)	-106.0	NM_009769	12224.0	Mm.30262	NM_009769	ENSMUSG00000005148	Klf5	4930520J07Rik|Bteb2|CKLF|IKLF	Kruppel-like factor 5	protein-coding	23.5	37.0	44.5	866.0	35.5	5.5	11.0	10.5
Merged-chr2-112240464-4	chr2	112240391	112240591	+	856.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207206, intron 1 of 13)	intron (NM_207206, intron 1 of 13)	650.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	7.0	14.5	6.5	143.0	22.5	11.5	9.0	16.5
Merged-chr5-77358536-3	chr5	77358432	77358632	+	821.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008048, intron 1 of 4)	intron (NM_008048, intron 1 of 4)	48048.0	NM_153798	231329.0	Mm.273217	NM_153798	ENSMUSG00000029250	Polr2b	Pol2rb|Rpb140|Rpb2	polymerase (RNA) II (DNA directed) polypeptide B	protein-coding	0.5	12.5	14.5	169.5	17.5	5.0	6.0	4.5
Merged-chr9-88720372-5	chr9	88720205	88720405	+	903.0399779999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128601)	promoter-TSS (NM_001128601)	-507.0	NM_001128601	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	8.5	17.5	44.0	6.0	58.0	19.0	36.5	23.0
Merged-chr11-9337332-4	chr11	9337178	9337378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 27 of 61)	intron (NM_178259, intron 27 of 61)	145336.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	28.0	39.5	26.0	420.5	90.0	33.0	33.0	44.0
Merged-chr5-3474135-1	chr5	3474035	3474235	+	770.5	f0_balb.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-69698.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	7.0	5.5	11.5	145.0	6.0	1.5	7.5	4.5
Merged-chr7-101871534-4	chr7	101871459	101871659	+	980.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008034)	promoter-TSS (NM_008034)	-771.0	NM_001252552	14275.0	Mm.2135	NM_008034	ENSMUSG00000001827	Folr1	FBP1|Folbp-1|Folbp1	folate receptor 1 (adult)	protein-coding	26.5	13.5	23.5	377.0	61.0	26.5	16.5	26.5
Merged-chr2-79696155-4	chr2	79696054	79696254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11626.0	NM_172420	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	174.0	180.5	116.5	1880.0	301.0	103.0	154.5	103.5
Merged-chr2-36236603-4	chr2	36236507	36236707	+	918.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 2 of 10)	intron (NM_008969, intron 2 of 10)	6181.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	23.5	10.5	22.5	250.5	45.5	14.5	18.0	13.5
Merged-chr16-25038199-2	chr16	25038099	25038299	+	804.083313	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B2|LTR|ERVK	-21440.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	7.0	9.0	6.0	23.5	15.0	6.0	3.0	5.5
Merged-chr19-17335048-4	chr19	17334972	17335172	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	4433.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	10.5	10.5	2.5	177.0	77.0	26.0	28.5	21.5
Merged-chr8-57541137-4	chr8	57541027	57541227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 6 of 11)	intron (NM_001167981, intron 6 of 11)	29284.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	80.0	122.0	59.0	1148.0	182.0	50.0	63.0	51.5
Merged-chr9-116063262-4	chr9	116063178	116063378	+	916.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028638, intron 14 of 14)	ORR1E|LTR|ERVL-MaLR	112085.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	8.5	20.5	31.0	415.0	38.0	6.5	11.0	18.0
Merged-chr7-92977637-4	chr7	92977558	92977758	+	783.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102221.0	NM_021427	58238.0	Mm.113787	NM_021427	ENSMUSG00000051515	Fam181b	A830059I20Rik|AB041569	family with sequence similarity 181, member B	protein-coding	11.0	7.0	13.5	256.5	24.0	7.0	8.0	13.0
Merged-chr11-108225440-4	chr11	108225347	108225547	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	B4|SINE|B4	118441.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	16.5	19.0	7.5	196.0	108.5	17.5	37.0	21.5
Merged-chr12-31954425-4	chr12	31954333	31954533	+	951.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4188.0	NM_001361928	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	6.0	13.5	13.0	160.0	82.5	22.5	29.5	21.5
Merged-chr17-15715400-4	chr17	15715312	15715512	+	845.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007690, intron 2 of 35)	B3|SINE|B2	10445.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	10.5	4.5	8.5	105.0	20.5	7.0	16.0	18.0
Merged-chr17-23841428-2	chr17	23841342	23841542	+	672.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_027644, intron 5 of 6)	intron (NM_027644, intron 5 of 6)	2714.0	NM_027644	71003.0	Mm.328839	NM_027644	ENSMUSG00000024114	Prss41	4931440B09Rik|Tessp-1|Tessp1	protease, serine 41	protein-coding	4.5	8.5	5.5	18.5	14.5	7.5	5.5	1.5
Merged-chr1-180423478-4	chr1	180423430	180423630	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081175, exon 8 of 8)	3' UTR (NM_001081175, exon 8 of 8)	59974.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	16.0	20.0	28.5	244.0	30.5	21.5	12.5	11.5
Merged-chr11-75169776-2	chr11	75169676	75169876	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010430, exon 1 of 2)	5' UTR (NM_010430, exon 1 of 2)	479.0	NM_010430	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	3.0	5.5	3.0	58.5	13.0	6.5	5.5	6.0
Merged-chr4-88343518-1	chr4	88343418	88343618	+	756.0	f0_balb.idr	intron (NM_001081184, intron 26 of 43)	intron (NM_001081184, intron 26 of 43)	95408.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	3.0	5.0	15.5	130.0	6.0	8.0	6.0	5.0
Merged-chr6-114921878-4	chr6	114921779	114921979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177683)	promoter-TSS (NM_177683)	-58.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	86.0	146.5	75.0	1351.5	187.0	45.0	92.0	67.5
Merged-chr2-167823593-4	chr2	167823465	167823665	+	795.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108762.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	4.0	8.5	7.5	109.5	18.0	8.0	7.0	6.0
Merged-chr1-184589507-1	chr1	184589407	184589607	+	647.0	f0_balb.idr	Intergenic	Intergenic	-31816.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	7.0	9.0	4.5	96.0	6.5	9.0	6.0	10.0
Merged-chr15-102150896-4	chr15	102150807	102151007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146064, intron 1 of 14)	intron (NM_146064, intron 1 of 14)	332.0	NM_146064	223920.0	Mm.358862	NM_146064	ENSMUSG00000023045	Soat2	ACAT2|D15Wsu97e	sterol O-acyltransferase 2	protein-coding	134.0	108.0	109.0	1899.5	197.5	89.0	83.0	108.5
Merged-chr1-66816128-4	chr1	66816019	66816219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357156, intron 1 of 14)	MIR|SINE|MIR	1476.0	NM_177645	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	86.5	147.5	123.5	1640.5	316.0	115.0	135.0	122.0
Merged-chr11-119034401-4	chr11	119034315	119034515	+	969.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	6498.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	25.5	81.0	15.5	254.5	62.0	13.0	17.0	16.0
Merged-chr4-117892019-4	chr4	117891902	117892102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026344)	promoter-TSS (NM_026344)	1.0	NM_026344	67728.0	Mm.13823	NM_026344	ENSMUSG00000028540	Dph2	9130020C19Rik|AI467389|Dph2l2	DPH2 homolog	protein-coding	39.5	50.0	42.5	631.5	116.0	41.5	57.0	34.5
Merged-chr5-123721043-4	chr5	123720933	123721133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027494)	promoter-TSS (NM_027494)	11.0	NM_027494	70650.0	Mm.279427	NM_027494	ENSMUSG00000029427	Zcchc8	5730565F05Rik	zinc finger, CCHC domain containing 8	protein-coding	136.0	168.0	84.0	1279.0	273.5	111.0	122.5	98.0
Merged-chr1-33908399-2	chr1	33908299	33908499	+	938.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310484)	promoter-TSS (NM_001310484)	174.0	NM_001276764	13518.0	Mm.336625	NM_010081	ENSMUSG00000026131	Dst	2310001O04Rik|A830042E19Rik|AW554249|BP230|BPAG1-n|Bpag|Bpag1|Macf2|ah|athetoid|dt|mKIAA0728|nmf203|nmf339	dystonin	protein-coding	6.0	7.0	6.5	35.0	10.5	4.5	10.0	6.0
Merged-chr7-90140454-4	chr7	90140344	90140544	+	964.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360867, intron 1 of 19)	intron (NM_001360867, intron 1 of 19)	10231.0	NM_001252520	233489.0	Mm.235175	NM_146194	ENSMUSG00000039361	Picalm	CALM|CLTH|PAP180|fit-1|fit1|mKIAA4114	phosphatidylinositol binding clathrin assembly protein	protein-coding	12.5	30.0	20.5	108.0	69.5	12.0	21.5	14.0
Merged-chr7-25436377-4	chr7	25436276	25436476	+	986.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015569, intron 4 of 6)	intron (NR_015569, intron 4 of 6)	-23490.0	NM_153576	232983.0	Mm.10545	NM_153576	ENSMUSG00000060188	Cxcl17	VCC-1|Vcc1	chemokine (C-X-C motif) ligand 17	protein-coding	20.0	77.5	18.0	369.0	45.0	16.0	16.5	9.0
Merged-chr8-125533935-2	chr8	125533835	125534035	+	707.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	intron (NM_001357372, intron 1 of 21)	35928.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	3.0	6.5	13.0	115.5	12.0	10.5	9.0	10.0
Merged-chr2-165992615-4	chr2	165992487	165992687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008679)	promoter-TSS (NM_008679)	-50.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	72.5	86.0	58.0	1070.0	254.5	101.5	97.5	98.5
Merged-chr2-167269977-3	chr2	167269897	167270097	+	602.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-29460.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	7.0	6.5	4.5	71.5	17.5	6.0	8.5	5.0
Merged-chr17-83485471-4	chr17	83485365	83485565	+	863.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28868.0	NM_009187	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	3.5	10.0	9.5	92.0	30.5	5.5	11.0	10.0
Merged-chr18-23844764-4	chr18	23844658	23844858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 3 of 7)	intron (NM_001162941, intron 3 of 7)	40788.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	20.0	34.0	46.5	701.0	121.0	39.0	44.0	33.0
Merged-chr1-180290026-6	chr1	180289944	180290144	+	918.477783	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33744.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	14.5	11.0	17.5	137.5	34.0	5.5	13.0	11.0
Merged-chr2-91182345-7	chr2	91182191	91182391	+	895.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177719, intron 1 of 34)	intron (NM_001177719, intron 1 of 34)	756.0	NM_001177719	228355.0	Mm.36410	NM_145527	ENSMUSG00000040687	Madd	9630059K23Rik|IG20	MAP-kinase activating death domain	protein-coding	6.0	9.5	13.5	106.0	26.5	6.5	12.5	9.0
Merged-chr16-92944045-4	chr16	92943933	92944133	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117959.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	5.5	15.0	5.5	174.0	12.5	9.5	5.0	10.5
Merged-chr18-25679320-5	chr18	25679230	25679430	+	931.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146295, exon 2 of 2)	exon (NM_001146295, exon 2 of 2)	418.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	27.0	31.0	26.0	305.5	11.5	7.0	7.5	21.5
Merged-chr10-128037015-4	chr10	128036926	128037126	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282976, intron 2 of 7)	intron (NM_001282976, intron 2 of 7)	1680.0	NM_001113199	17938.0	Mm.3746	NM_013608	ENSMUSG00000061315	Naca	AL022831|AL024382|Gm1878|mKIAA0363|skNAC	nascent polypeptide-associated complex alpha polypeptide	protein-coding	33.5	55.0	21.5	318.0	72.0	32.0	16.5	17.5
Merged-chr16-81330752-4	chr16	81330652	81330852	+	862.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113208, intron 1 of 17)	intron (NM_001113208, intron 1 of 17)	130055.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	11.0	10.0	3.5	150.0	28.5	8.5	12.0	6.5
Merged-chr4-141957931-4	chr4	141957815	141958015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 9 of 31)	intron (NM_177868, intron 9 of 31)	-25077.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	22.5	33.5	23.0	337.0	71.5	39.5	32.0	45.0
Merged-chr8-70839056-1	chr8	70838956	70839156	+	1000.0	f1_c57bl6.idr	intron (NM_027560, intron 1 of 7)	CpG	664.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	8.5	16.5	25.0	200.0	27.0	19.0	12.5	15.5
Merged-chr17-35838329-4	chr17	35838229	35838429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011655)	promoter-TSS (NM_011655)	-28.0	NM_011655	22154.0	Mm.273538	NM_011655	ENSMUSG00000001525	Tubb5	AA408537|AI596182|B130022C14Rik|M(beta)5	tubulin, beta 5 class I	protein-coding	116.0	158.5	79.5	1194.5	254.0	85.5	115.0	86.0
Merged-chr13-115163117-4	chr13	115163001	115163201	+	967.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61137.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	13.5	24.0	24.5	352.5	35.5	15.5	11.5	13.0
Merged-chr8-125640331-4	chr8	125640243	125640443	+	784.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-29475.0	NM_028908	74393.0	Mm.41709	NM_028908	ENSMUSG00000050930	Map10	4933403G14Rik|AI835009|mKIAA1383	microtubule-associated protein 10	protein-coding	9.5	16.0	7.0	87.5	23.0	9.0	12.0	11.0
Merged-chr1-75219906-2	chr1	75219806	75220006	+	834.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009447)	promoter-TSS (NM_009447)	-612.0	NM_001313724	22145.0	Mm.1155	NM_009447	ENSMUSG00000026202	Tuba4a	M[a]4|Tuba4	tubulin, alpha 4A	protein-coding	8.5	2.0	1.0	55.5	10.5	5.0	7.5	5.5
Merged-chr1-70180546-2	chr1	70180446	70180646	+	892.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_025728, intron 2 of 7)	intron (NM_025728, intron 2 of 7)	228931.0	NM_025728	66722.0	Mm.440554	NM_025728	ENSMUSG00000053153	Spag16	4921511D23Rik|4930524F24Rik|4930585K05Rik|AV261009|Pf20|Wdr29	sperm associated antigen 16	protein-coding	5.0	6.5	5.0	227.5	8.0	4.0	13.5	10.0
Merged-chr14-52267536-3	chr14	52267443	52267643	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172601, intron 5 of 7)	L1MB3|LINE|L1	-11603.0	NM_023434	268741.0	Mm.246237	NM_023434	ENSMUSG00000016831	Tox4	5730589K01Rik|A630040M18|AA410149|LCP1	TOX high mobility group box family member 4	protein-coding	0.0	0.0	0.0	0.0	73.5	36.0	49.5	38.5
Merged-chr8-40961916-4	chr8	40961803	40962003	+	983.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026840, intron 2 of 5)	intron (NM_026840, intron 2 of 5)	35670.0	NM_026840	68797.0	Mm.284246	NM_026840	ENSMUSG00000031595	Pdgfrl	1110039P19Rik|AV013190	platelet-derived growth factor receptor-like	protein-coding	30.5	28.5	25.0	424.0	49.5	16.5	25.5	21.5
Merged-chr1-35860892-4	chr1	35860755	35860955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-207545.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	22.0	46.0	39.0	693.0	88.5	24.5	28.0	48.0
Merged-chr19-44343681-2	chr19	44343578	44343778	+	758.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_183216, intron 5 of 5)	intron (NM_183216, intron 5 of 5)	10352.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	5.5	5.5	5.5	26.0	12.0	2.0	2.5	2.0
Merged-chr16-90044270-4	chr16	90044168	90044368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69569.0	NM_001145886	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	144.0	112.5	152.5	2332.5	288.0	84.0	123.0	127.5
Merged-chr4-40772994-4	chr4	40772894	40773094	+	908.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15109.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	18.0	24.0	13.0	102.5	29.0	8.5	14.5	21.0
Merged-chr4-132463975-4	chr4	132463878	132464078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026039)	promoter-TSS (NM_026039)	-57.0	NM_026039	67219.0	Mm.45929	NM_026039	ENSMUSG00000066042	Med18	2810046C01Rik	mediator complex subunit 18	protein-coding	33.0	41.5	23.0	341.5	96.0	40.0	31.0	42.5
Merged-chr10-61694993-1	chr10	61694893	61695093	+	568.5	f0_c57.idr	promoter-TSS (NM_001272090)	promoter-TSS (NM_001272090)	-521.0	NM_001272090	71767.0	Mm.71514	NM_027912	ENSMUSG00000020087	Tysnd1	1300019N10Rik	trypsin domain containing 1	protein-coding	6.0	9.5	6.0	85.5	35.5	8.5	14.0	8.5
Merged-chr7-43883797-3	chr7	43883707	43883907	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019928, intron 3 of 5)	intron (NM_019928, intron 3 of 5)	2635.0	NM_019928	56640.0	Mm.42080	NM_019928	ENSMUSG00000006948	Klk4	ESMP1|KLK-L1|PSTS|Prss17	kallikrein related-peptidase 4 (prostase, enamel matrix, prostate)	protein-coding	3.5	11.5	4.0	113.5	18.5	8.5	15.5	11.5
Merged-chr15-36500000-4	chr15	36499895	36500095	+	860.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3204.0	NM_175134	68839.0	Mm.396537	NM_175134	ENSMUSG00000048307	Ankrd46	1110054N06Rik|AI314978|AI987733	ankyrin repeat domain 46	protein-coding	24.0	23.0	11.0	145.0	27.0	17.5	8.0	15.5
Merged-chr7-128225361-3	chr7	128225248	128225448	+	922.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-12009.0	NM_146205	233912.0	Mm.475117	NM_146205	ENSMUSG00000042178	Armc5	AW049683|BC032200	armadillo repeat containing 5	protein-coding	15.0	8.5	8.5	228.5	12.0	5.5	13.0	6.0
Merged-chr14-10535033-3	chr14	10534934	10535134	+	728.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 4 of 9)	RMER10A|LTR|ERVL	-81576.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	10.0	19.0	5.5	217.5	18.0	23.0	10.5	7.0
Merged-chr18-11351863-3	chr18	11351773	11351973	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-281403.0	NM_001252495	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	26.0	41.5	43.5	338.0	19.0	9.5	3.0	3.0
Merged-chr10-128535363-4	chr10	128535265	128535465	+	849.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-9506.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	13.0	24.5	7.5	120.0	40.5	8.0	10.5	15.0
Merged-chr14-104467978-3	chr14	104467881	104468081	+	762.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011143)	promoter-TSS (NM_011143)	18.0	NM_011143	18996.0	Mm.246550	NM_011143	ENSMUSG00000048349	Pou4f1	Brn-3|Brn-3.0|Brn3|Brn3.0|Brn3a|E130119J07Rik	POU domain, class 4, transcription factor 1	protein-coding	8.0	8.5	14.0	111.0	9.5	5.5	5.0	4.5
Merged-chr11-78037933-4	chr11	78037818	78038018	+	847.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040403)	promoter-TSS (NM_001040403)	-23.0	NM_001040403	14252.0	Mm.130227	NM_008028	ENSMUSG00000061981	Flot2	AI573412|Esa|reggie-2	flotillin 2	protein-coding	19.5	17.0	9.0	112.5	23.0	7.5	7.0	10.5
Merged-chr3-87227055-4	chr3	87226963	87227163	+	644.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	36461.0	NM_030707	80891.0	Mm.45173	NM_030707	ENSMUSG00000015852	Fcrls	2810439C17Rik|9330158F12|FcRH2sc|Fcrh2|IFGP2|IgSR|MMAN-g|Msr2|moFcRH2sc	Fc receptor-like S, scavenger receptor	protein-coding	3.0	11.0	6.0	62.5	17.5	6.0	10.5	7.5
Merged-chr3-104501852-2	chr3	104501752	104501952	+	924.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001025067, intron 1 of 17)	ORR1E|LTR|ERVL-MaLR	10066.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	3.0	5.5	5.5	57.5	20.5	7.0	7.0	10.5
Merged-chr17-65772661-4	chr17	65772592	65772792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133685)	promoter-TSS (NM_133685)	60.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	39.0	64.5	40.5	921.0	108.5	44.0	75.5	59.0
Merged-chr2-122148730-4	chr2	122148636	122148836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009735, intron 1 of 3)	intron (NM_009735, intron 1 of 3)	1049.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	56.0	71.5	55.0	638.5	174.5	63.0	90.5	54.5
Merged-chr11-96822836-3	chr11	96822724	96822924	+	743.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008686, intron 2 of 4)	intron (NM_008686, intron 2 of 4)	1107.0	NM_001361682	18023.0	Mm.6743	NM_008686	ENSMUSG00000038615	Nfe2l1	AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11	nuclear factor, erythroid derived 2,-like 1	protein-coding	2.0	12.5	1.0	47.5	24.5	17.0	11.5	12.5
Merged-chr19-34633649-4	chr19	34633550	34633750	+	938.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053217, intron 1 of 2)	intron (NM_053217, intron 1 of 2)	-3839.0	NM_001362130	112419.0	Mm.440727	NM_053217	ENSMUSG00000067297	Ifit1bl2	2010002M12Rik|AW412491|Ifit1b	interferon induced protein with tetratricopeptide repeats 1B like 2	protein-coding	21.0	20.5	31.0	434.5	32.0	12.5	12.5	19.5
Merged-chr12-30266025-3	chr12	30265919	30266119	+	695.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324520, intron 8 of 16)	intron (NM_001324520, intron 8 of 16)	107356.0	NM_172951	268534.0	Mm.279765	NM_172951	ENSMUSG00000020672	Sntg2	2210008K22Rik|9530013L23|BB121248|G2syn|Syn5	syntrophin, gamma 2	protein-coding	6.0	10.5	14.5	229.5	11.0	4.5	2.5	7.0
Merged-chr12-4494363-3	chr12	4494244	4494444	+	714.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17162.0	NM_010881	17977.0	Mm.301039	NM_010881	ENSMUSG00000020647	Ncoa1	KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1	nuclear receptor coactivator 1	protein-coding	4.5	17.5	10.5	309.5	8.0	5.5	3.5	7.0
Merged-chr1-167266620-4	chr1	167266513	167266713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030724, intron 1 of 6)	MER21B|LTR|ERVL	18514.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	26.5	48.5	23.0	738.5	77.0	25.0	28.0	24.5
Merged-chr1-180858938-1	chr1	180858838	180859038	+	629.833313	f0_c57.idr	intron (NM_145943, intron 3 of 6)	ORR1B1|LTR|ERVL-MaLR	7787.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	2.0	15.0	4.5	44.5	24.5	13.0	10.0	11.5
Merged-chr2-27593497-4	chr2	27593407	27593607	+	936.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78360.0	NM_080848	140858.0	Mm.28265	NM_080848	ENSMUSG00000026917	Wdr5	2410008O07Rik|AA408785|AA960360|Big|Big-3	WD repeat domain 5	protein-coding	22.5	15.0	21.5	250.0	35.5	14.0	9.0	17.5
Merged-chr5-140765011-4	chr5	140764914	140765114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 2 of 3)	PB1D10|SINE|Alu	40887.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	81.0	99.5	73.0	1539.0	121.0	49.5	72.0	63.5
Merged-chr7-59229195-4	chr7	59229144	59229344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173010, exon 1 of 9)	5' UTR (NM_173010, exon 1 of 9)	494.0	NM_173010	22215.0	Mm.9002	NM_011668	ENSMUSG00000025326	Ube3a	4732496B02|5830462N02Rik|A130086L21Rik|Hpve6a	ubiquitin protein ligase E3A	protein-coding	39.0	78.0	81.5	939.5	115.0	41.5	55.5	88.5
Merged-chr15-103255381-4	chr15	103255257	103255457	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008685)	promoter-TSS (NM_008685)	82.0	NM_008685	18022.0	Mm.457989	NM_008685	ENSMUSG00000058794	Nfe2	NF-E2|NF-E2/P45|p45|p45NFE2|p45nf-e2	nuclear factor, erythroid derived 2	protein-coding	20.0	23.0	13.0	203.5	42.0	12.5	19.0	10.5
Merged-chr9-56506549-4	chr9	56506435	56506635	+	849.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87916.0	NM_025812	66867.0	Mm.150856	NM_025812	ENSMUSG00000032329	Hmg20a	1200004E06Rik|5730490E10Rik|Hmgxb1|Ibraf	high mobility group 20A	protein-coding	9.0	12.5	7.5	126.5	17.5	9.5	5.0	11.0
Merged-chr12-85385898-4	chr12	85385797	85385997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11180.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	189.5	245.0	185.5	2454.5	286.0	87.5	166.5	112.0
Merged-chr5-99381161-4	chr5	99381057	99381257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	RMER1B|Other|Other	-128230.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	36.0	67.5	23.5	512.5	78.0	37.0	42.5	26.0
Merged-chr11-84879876-4	chr11	84879819	84880019	+	892.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025414)	promoter-TSS (NM_025414)	276.0	NM_027388	70325.0	Mm.390414	NM_027388	ENSMUSG00000045140	Pigw	2610044A17Rik|Gwt1	phosphatidylinositol glycan anchor biosynthesis, class W	protein-coding	8.0	22.0	15.0	172.0	28.0	10.0	12.0	14.0
Merged-chr12-55863182-3	chr12	55863064	55863264	+	914.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001037756, exon 8 of 10)	exon (NM_001037756, exon 8 of 10)	26798.0	NR_155205	52592.0	Mm.24761	NM_027867	ENSMUSG00000012076	Brms1l	0710008O11Rik|AI159718|BRMS1|D12Ertd407e	breast cancer metastasis-suppressor 1-like	protein-coding	12.0	14.5	5.5	101.0	22.0	4.0	2.0	3.5
Merged-chr2-167377911-4	chr2	167377798	167377998	+	964.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28720.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	33.0	29.5	30.5	472.5	78.5	17.5	38.5	36.0
Merged-chr12-112581289-4	chr12	112581177	112581377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7507.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	87.5	125.5	115.0	1497.5	218.0	75.0	93.0	81.0
Merged-chr9-13827061-4	chr9	13826963	13827163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310721)	promoter-TSS (NM_001310721)	-10.0	NR_037622	74360.0	Mm.157212	NM_026665	ENSMUSG00000031922	Cep57	3110002L15Rik|4921510P06Rik|4931428M20Rik|AI467480|Tsp57|mKIAA0092	centrosomal protein 57	protein-coding	257.5	334.5	240.0	3605.5	562.5	211.0	259.5	185.0
Merged-chr7-19302691-4	chr7	19302579	19302779	+	923.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008036)	TTS (NM_008036)	7366.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	21.5	35.5	5.0	15.5	66.5	30.5	2.0	15.0
Merged-chr6-127268222-4	chr6	127268093	127268293	+	697.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39774.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	7.0	11.5	5.0	77.5	22.5	12.5	8.0	11.5
Merged-chr4-86683482-4	chr4	86683379	86683579	+	866.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-13420.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	14.5	16.0	3.5	77.0	34.0	13.5	20.5	17.0
Merged-chr17-17394184-3	chr17	17394081	17394281	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025934, exon 10 of 10)	3' UTR (NM_025934, exon 10 of 10)	-8505.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	28.0	50.0	32.5	606.5	71.0	25.0	36.5	16.5
Merged-chr4-9676443-4	chr4	9676341	9676541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7097.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	130.5	168.5	135.5	2052.0	244.0	100.5	115.0	133.5
Merged-chr6-17734254-4	chr6	17734149	17734349	+	939.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289624, intron 1 of 15)	RMER1C|Other|Other	-9343.0	NM_001289627	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	25.5	19.0	32.0	241.0	34.5	15.5	18.0	15.0
Merged-chr3-59309869-3	chr3	59309780	59309980	+	723.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 42 of 43)	MLT1C|LTR|ERVL-MaLR	34376.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	5.0	6.0	9.0	105.0	3.0	2.5	6.0	2.0
Merged-chr1-132341911-4	chr1	132341810	132342010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25785.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	110.5	203.5	127.0	2079.5	245.5	93.5	125.0	92.5
Merged-chr5-115559415-4	chr5	115559297	115559497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007475)	promoter-TSS (NM_007475)	-70.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	229.5	400.5	219.0	2604.5	509.5	213.0	223.5	166.5
Merged-chr6-5208009-4	chr6	5207918	5208118	+	990.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14072.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	54.0	54.5	51.0	981.0	26.5	18.5	22.5	23.0
Merged-chr7-27508181-4	chr7	27508086	27508286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019412, intron 5 of 5)	CpG-12884	8862.0	NM_019412	19153.0	Mm.10119	NM_019412	ENSMUSG00000053198	Prx	L-Periaxin	periaxin	protein-coding	114.5	162.0	92.0	1396.5	285.0	126.0	127.0	89.5
Merged-chr15-73726172-4	chr15	73726013	73726213	+	980.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166388, intron 1 of 5)	intron (NM_001166388, intron 1 of 5)	1183.0	NM_001166388	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	18.0	13.5	15.5	212.0	32.0	11.0	20.0	13.0
Merged-chr6-72159947-4	chr6	72159852	72160052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36755.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	57.5	82.5	73.5	828.0	78.0	44.5	54.5	34.5
Merged-chr9-21011177-4	chr9	21011066	21011266	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-4774.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	20.5	19.0	5.0	73.5	45.0	20.0	24.0	17.5
Merged-chr17-28522700-4	chr17	28522622	28522822	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8139.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	25.5	15.5	11.0	167.0	43.0	21.5	18.0	23.0
Merged-chr16-92880911-2	chr16	92880811	92881011	+	902.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54837.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	17.0	8.5	8.5	62.0	4.5	2.5	2.5	8.0
Merged-chr14-66282815-4	chr14	66282708	66282908	+	852.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1756.0	NM_001162365	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	12.0	17.0	9.5	145.0	32.0	9.0	11.0	10.5
Merged-chr1-135789969-1	chr1	135789869	135790069	+	609.5	f0_balb.idr	Intergenic	Intergenic	-9452.0	NM_021467	21952.0	Mm.44379	NM_021467	ENSMUSG00000026418	Tnni1	2700018B22Rik|AI747285|ssTnI	troponin I, skeletal, slow 1	protein-coding	4.0	9.0	11.5	96.0	22.5	5.0	6.5	6.0
Merged-chr12-102283100-4	chr12	102282929	102283129	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161365)	promoter-TSS (NM_001161365)	-45.0	NM_177620	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	24.0	26.0	30.5	394.0	45.0	20.0	10.5	8.0
Merged-chr7-141469146-2	chr7	141469046	141469246	+	584.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111050, intron 1 of 6)	intron (NM_001111050, intron 1 of 6)	357.0	NM_001111050	12476.0	Mm.30246	NM_009842	ENSMUSG00000025510	Cd151	PETA-3|SFA-1|Tspan24	CD151 antigen	protein-coding	1.5	4.0	6.5	56.5	14.0	6.0	8.0	5.5
Merged-chr11-69100037-4	chr11	69099932	69100132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159367)	promoter-TSS (NM_001159367)	-120.0	NM_001159367	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	103.5	147.5	104.5	1138.0	278.0	78.5	103.0	118.5
Merged-chr9-66060122-4	chr9	66060005	66060205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011149)	promoter-TSS (NM_011149)	-64.0	NM_011149	19035.0	Mm.335249	NM_011149	ENSMUSG00000032383	Ppib	AA408962|AA553318|AI844835|Cphn-2|Cphn2|CyP-20b	peptidylprolyl isomerase B	protein-coding	151.0	267.5	155.5	2131.5	319.5	126.5	182.0	137.5
Merged-chr11-29548213-4	chr11	29548097	29548297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024277)	promoter-TSS (NM_024277)	-157.0	NM_001033865	78294.0	Mm.180003	NM_024277	ENSMUSG00000020460	Rps27a	0610006J14Rik|Uba52|Ubb|Ubc	ribosomal protein S27A	protein-coding	50.0	59.0	42.5	622.5	138.5	38.0	64.0	52.5
Merged-chr1-143789098-2	chr1	143788998	143789198	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019562, intron 3 of 10)	B3|SINE|B2	11820.0	NM_019562	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	7.5	7.0	6.5	44.5	16.5	0.5	5.0	4.5
Merged-chr17-65766086-4	chr17	65765988	65766188	+	951.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	MTD|LTR|ERVL-MaLR	6664.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	15.0	19.5	12.0	134.5	102.5	25.0	33.5	40.0
Merged-chr16-30065315-4	chr16	30065239	30065439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008235)	promoter-TSS (NM_008235)	-18.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	151.5	230.5	145.5	2038.0	350.0	157.0	128.0	142.0
Merged-chr17-48275095-4	chr17	48274973	48275173	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172623, exon 6 of 6)	3' UTR (NM_172623, exon 6 of 6)	10778.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	30.0	46.0	13.0	178.5	114.0	39.5	32.5	26.0
Merged-chr6-120454845-4	chr6	120454742	120454942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	-8355.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	95.5	173.5	119.5	1714.5	266.5	122.0	107.0	94.0
Merged-chr4-119976790-5	chr4	119976741	119976941	+	964.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	(TC)n|Simple_repeat|Simple_repeat	162163.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	17.0	38.5	16.5	118.5	41.5	21.0	15.5	7.0
Merged-chr18-70644544-4	chr18	70644468	70644668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76276.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	64.5	63.0	51.5	910.5	160.5	65.5	77.0	62.5
Merged-chr7-35269851-4	chr7	35269719	35269919	+	960.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20B2|LTR|ERVK	48621.0	NM_026181	67471.0	Mm.358705	NM_026181	ENSMUSG00000063808	Gpatch1	1300003A17Rik|ECGP|Gpatc1	G patch domain containing 1	protein-coding	11.5	17.0	11.5	192.0	26.5	24.5	28.0	25.5
Merged-chr2-6220320-4	chr2	6220216	6220416	+	772.450012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 1 of 6)	intron (NR_040333, intron 1 of 6)	-7322.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	2.5	7.5	3.5	78.5	25.0	11.5	13.0	7.5
Merged-chr4-122835839-4	chr4	122835750	122835950	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008917)	promoter-TSS (NM_008917)	-377.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	9.0	20.0	5.5	119.5	25.5	14.5	11.0	7.0
Merged-chr10-70297010-4	chr10	70296931	70297131	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51755.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	22.0	35.0	13.5	571.0	69.0	17.5	22.0	24.5
Merged-chr7-16299801-4	chr7	16299694	16299894	+	963.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9789.0	NM_133234	170770.0	Mm.7660	NM_133234	ENSMUSG00000002083	Bbc3	PUMA|PUMA/JFY1	BCL2 binding component 3	protein-coding	11.0	22.0	14.0	270.5	58.5	24.5	42.5	28.5
Merged-chr8-11098596-4	chr8	11098499	11098699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90169.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	177.5	288.0	177.0	2443.0	288.5	85.5	108.0	79.5
Merged-chr9-107640358-4	chr9	107640286	107640486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5044.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	120.5	133.5	99.0	2042.5	282.5	100.5	136.5	122.0
Merged-chr10-96171767-3	chr10	96171674	96171874	+	825.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-54433.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	7.5	9.0	11.0	167.5	10.5	7.5	7.5	3.0
Merged-chr4-115640777-4	chr4	115640688	115640888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007823, intron 3 of 11)	intron (NM_007823, intron 3 of 11)	6917.0	NM_007823	13120.0	Mm.1840	NM_007823	ENSMUSG00000028713	Cyp4b1	-	cytochrome P450, family 4, subfamily b, polypeptide 1	protein-coding	59.5	36.5	42.5	625.5	153.0	37.0	76.5	56.0
Merged-chr11-58214897-4	chr11	58214785	58214985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019440)	promoter-TSS (NM_019440)	-92.0	NM_019440	54396.0	Mm.458517	NM_019440	ENSMUSG00000069874	Irgm2	AI481100|GTPI|Ifggd2|Iigp2	immunity-related GTPase family M member 2	protein-coding	111.0	135.5	85.0	1019.0	154.5	74.0	88.5	85.0
Merged-chr11-116131135-4	chr11	116131041	116131241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178802)	promoter-TSS (NM_178802)	-13.0	NM_178802	338364.0	Mm.439976	NM_178802	ENSMUSG00000054517	Trim65	4732463G12Rik	tripartite motif-containing 65	protein-coding	58.0	66.5	54.0	1142.5	138.5	83.0	85.0	86.5
Merged-chr9-92207541-4	chr9	92207451	92207651	+	880.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195693, intron 5 of 6)	intron (NM_001195693, intron 5 of 6)	14615.0	NM_001195693	100504689.0	Mm.464262	NM_001195693	ENSMUSG00000095654	Plscr5	331000	phospholipid scramblase family, member 5	protein-coding	6.0	12.0	12.5	175.0	16.5	15.0	17.0	11.5
Merged-chr1-165661379-1	chr1	165661279	165661479	+	718.0	f0_balb.idr	intron (NM_001038846, intron 2 of 5)	intron (NM_001038846, intron 2 of 5)	-26838.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	3.5	8.0	15.5	100.0	11.5	5.0	4.5	6.0
Merged-chr4-121009339-4	chr4	121009234	121009434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133716, intron 1 of 9)	intron (NM_133716, intron 1 of 9)	7913.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	70.0	71.0	39.5	772.5	146.5	48.5	54.0	59.0
Merged-chr6-57711966-2	chr6	57711866	57712066	+	552.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	intron (NM_133737, intron 1 of 8)	9511.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	6.0	7.5	4.5	27.0	13.0	3.5	8.0	7.0
Merged-chr18-31701394-4	chr18	31701284	31701484	+	887.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172965, intron 16 of 20)	RMER3D-int|LTR|ERVK	-58440.0	NM_153515	225339.0	Mm.290804	NM_153515	ENSMUSG00000041915	Ammecr1l	5430429D03Rik|AU022236|AU040755|AW111353|E230022H04Rik	AMME chromosomal region gene 1-like	protein-coding	5.5	17.0	6.0	238.0	33.5	8.5	15.0	17.5
Merged-chr4-59806728-4	chr4	59806616	59806816	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	intron (NM_172468, intron 1 of 8)	1066.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	39.5	31.0	22.5	355.5	58.0	18.0	15.0	25.0
Merged-chr3-104403863-4	chr3	104403771	104403971	+	818.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108047.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	14.0	16.5	8.0	208.5	19.0	13.5	9.0	22.5
Merged-chr6-86418872-3	chr6	86418776	86418976	+	788.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164078, intron 3 of 11)	intron (NM_001164078, intron 3 of 11)	14657.0	NM_001164078	21841.0	Mm.333219	NM_011585	ENSMUSG00000071337	Tia1	2310050N03Rik|AI256674|TIA-1|mTIA-1	cytotoxic granule-associated RNA binding protein 1	protein-coding	11.0	6.5	7.5	88.5	8.5	13.5	5.0	11.5
Merged-chr14-31017822-5	chr14	31017763	31017963	+	830.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153547, exon 2 of 15)	exon (NM_153547, exon 2 of 15)	1268.0	NM_153547	30877.0	Mm.88512	NM_153547	ENSMUSG00000042354	Gnl3	Ns	guanine nucleotide binding protein-like 3 (nucleolar)	protein-coding	7.0	1.0	5.5	34.5	13.0	5.0	5.5	11.5
Merged-chr5-129725038-4	chr5	129724984	129725184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008095)	promoter-TSS (NM_008095)	9.0	NM_008095	14467.0	Mm.12468	NM_008095	ENSMUSG00000029432	Nipsnap2	AV006093|Gbas	nipsnap homolog 2	protein-coding	86.0	139.0	57.5	1106.0	184.5	95.0	83.5	108.5
Merged-chr7-67958240-4	chr7	67958144	67958344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 1 of 20)	intron (NM_010513, intron 1 of 20)	5987.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	100.5	157.0	100.0	2000.5	136.0	57.0	87.0	71.5
Merged-chr8-36267447-4	chr8	36267334	36267534	+	719.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-17918.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	16.0	10.5	18.0	147.0	27.5	0.5	5.5	6.5
Merged-chr11-88059260-4	chr11	88059160	88059360	+	918.5458369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9019.0	NM_016686	22344.0	Mm.46628	NM_016686	ENSMUSG00000018377	Vezf1	AI848691|AW046909|db1	vascular endothelial zinc finger 1	protein-coding	18.0	31.0	6.5	132.0	38.0	23.5	28.0	18.0
Merged-chr5-151210558-4	chr5	151210480	151210680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20387.0	NR_153382	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	28.0	30.0	19.0	493.0	88.0	26.5	37.5	45.0
Merged-chr14-118910644-5	chr14	118910537	118910737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360412, intron 8 of 22)	L1MC3|LINE|L1	12154.0	NM_001360413	66573.0	Mm.87456	NM_025943	ENSMUSG00000042156	Dzip1	2510025K24Rik|2810422M04Rik	DAZ interacting protein 1	protein-coding	26.5	33.5	32.5	427.5	41.0	10.0	24.5	17.0
Merged-chr6-34709482-4	chr6	34709390	34709590	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145575)	promoter-TSS (NM_145575)	46.0	NM_145575	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	11.0	53.0	16.5	333.0	38.0	19.0	26.5	39.5
Merged-chr19-5085611-1	chr19	5085511	5085711	+	599.0	f0_balb.idr	promoter-TSS (NM_001001885)	promoter-TSS (NM_001001885)	-134.0	NM_001001885	381199.0	Mm.329663	NM_001001885	ENSMUSG00000061451	Tmem151a	AW125688|Gm961|Tmem151	transmembrane protein 151A	protein-coding	7.5	7.5	4.5	115.0	21.5	2.5	7.0	7.0
Merged-chr1-59237813-3	chr1	59237706	59237906	+	944.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028717)	promoter-TSS (NM_028717)	-575.0	NM_028717	74018.0	Mm.272078	NM_028717	ENSMUSG00000026024	Als2	3222402C23Rik|9430073A21Rik|Als2cr6|Alsin|mKIAA1563	alsin Rho guanine nucleotide exchange factor	protein-coding	5.0	5.5	8.0	109.5	21.5	11.0	12.5	8.0
Merged-chr11-121804840-1	chr11	121804740	121804940	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-25378.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	19.0	31.5	6.5	266.0	27.0	15.5	7.5	13.5
Merged-chr10-69252952-4	chr10	69252852	69253052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	intron (NM_001252637, intron 4 of 10)	39758.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	69.0	89.0	94.5	1039.0	195.0	61.5	72.0	97.0
Merged-chr16-97954448-4	chr16	97954368	97954568	+	935.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001320385, intron 1 of 2)	intron (NM_001320385, intron 1 of 2)	8154.0	NM_001081685	114565.0	Mm.474489	NM_175428	ENSMUSG00000046962	Zbtb21	5430437K12Rik|B430213I24Rik|Zfp295|Znf295|mKIAA1227	zinc finger and BTB domain containing 21	protein-coding	7.0	27.5	23.5	412.0	44.0	12.0	16.5	10.5
Merged-chr1-84318789-4	chr1	84318698	84318898	+	902.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34153.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	18.5	13.5	7.0	255.0	19.5	8.0	11.0	25.0
Merged-chr18-60209266-4	chr18	60209183	60209383	+	877.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-2794.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	14.5	13.0	18.5	95.0	40.5	11.0	12.0	21.5
Merged-chr3-88296979-4	chr3	88296862	88297062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009836)	promoter-TSS (NM_009836)	37.0	NM_001357024	76927.0	Mm.273330	NM_029801	ENSMUSG00000010538	Tsacc	1700021C14Rik|SIP	TSSK6 activating co-chaperone	protein-coding	160.0	250.0	117.5	1982.5	395.0	163.5	167.5	175.5
Merged-chr10-44529534-4	chr10	44529431	44529631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-70783.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	58.5	73.5	47.0	895.5	217.5	52.5	78.5	90.5
Merged-chr17-26503142-4	chr17	26503034	26503234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5338.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	176.5	241.5	96.5	1822.5	472.5	145.0	132.5	146.5
Merged-chr3-89160172-4	chr3	89160066	89160266	+	966.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008227)	promoter-TSS (NM_008227)	-9.0	NM_008227	15168.0	Mm.389461	NM_008227	ENSMUSG00000028051	Hcn3	BCNG-4|Bcng4|Hac3|Hcn4	hyperpolarization-activated, cyclic nucleotide-gated K+ 3	protein-coding	15.0	22.0	7.5	219.5	54.5	17.5	18.5	15.5
Merged-chr9-83538365-4	chr9	83538277	83538477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-9961.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	127.0	121.5	136.5	2038.5	236.5	84.5	113.0	78.0
Merged-chr10-4334468-4	chr10	4334362	4334562	+	989.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031185, intron 2 of 3)	intron (NM_031185, intron 2 of 3)	53013.0	NM_001359811	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	43.0	65.5	18.0	639.0	37.5	5.5	23.0	19.5
Merged-chr2-144204888-4	chr2	144204802	144205002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15612.0	NR_136884	433481.0	Mm.330630	NR_136884	ENSMUSG00000074758	Gm5535	EG433481	predicted gene 5535	ncRNA	30.5	48.0	42.0	855.5	88.0	33.5	34.0	45.5
Merged-chr5-142448252-4	chr5	142448159	142448359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 2 of 8)	intron (NM_199068, intron 2 of 8)	-15672.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	49.5	95.0	47.5	876.0	92.5	27.0	37.5	31.5
Merged-chr8-35658447-3	chr8	35658350	35658550	+	857.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	ORR1E|LTR|ERVL-MaLR	-69430.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	10.5	14.5	4.5	230.5	12.0	2.0	6.5	2.0
Merged-chr8-85512457-3	chr8	85512353	85512553	+	844.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173866, intron 6 of 11)	intron (NM_173866, intron 6 of 11)	19836.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	12.0	15.5	3.5	112.0	26.5	5.0	11.0	7.0
Merged-chr13-97441357-4	chr13	97441202	97441402	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110432, intron 1 of 1)	MLT1D|LTR|ERVL-MaLR	6332.0	NR_110432	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	12.5	19.0	16.0	246.0	33.5	7.5	17.0	15.0
Merged-chr11-77508270-4	chr11	77508163	77508363	+	955.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001004144)	TTS (NM_001004144)	5010.0	NM_001024920	216964.0	Mm.341211	NM_001024920	ENSMUSG00000044328	Trp53i13	2410019G02Rik|Tp53i13	transformation related protein 53 inducible protein 13	protein-coding	20.5	24.0	3.5	269.0	48.5	16.5	18.0	17.0
Merged-chr13-59875861-4	chr13	59875757	59875957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52710.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	207.5	316.5	270.0	3519.5	606.0	295.0	325.0	293.5
Merged-chr15-25910292-4	chr15	25910165	25910365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 3 of 8)	intron (NM_001034851, intron 3 of 8)	-23287.0	NM_001277318	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	83.0	61.0	73.5	1392.5	94.0	47.5	73.5	51.5
Merged-chr3-88624324-3	chr3	88624259	88624459	+	968.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	2965.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	10.0	7.0	14.0	90.0	12.5	3.0	4.5	4.5
Merged-chr13-5605077-4	chr13	5604975	5605175	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	253017.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	21.0	24.0	20.0	369.0	36.0	10.0	22.5	12.0
Merged-chr11-109585202-3	chr11	109585105	109585305	+	832.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145940, intron 4 of 12)	intron (NM_145940, intron 4 of 12)	26184.0	NM_145940	52639.0	Mm.35817	NM_145940	ENSMUSG00000041895	Wipi1	4930533H01Rik|AW411817|D11Ertd498e	WD repeat domain, phosphoinositide interacting 1	protein-coding	4.5	9.0	7.0	105.5	20.0	0.5	6.5	4.0
Merged-chr1-180889977-4	chr1	180889864	180890064	+	966.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3144.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	29.0	25.5	19.5	157.0	39.5	15.0	14.0	31.0
Merged-chr1-24633876-3	chr1	24633768	24633968	+	806.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44676.0	NM_026719	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	8.0	15.0	6.5	221.5	14.0	8.0	9.5	6.0
Merged-chr3-75751064-2	chr3	75750964	75751164	+	633.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95333.0	NR_040539	69193.0	Mm.374088	NR_040539	ENSMUSG00000099370	Platr10	2410007B07Rik	pluripotency associated transcript 10	ncRNA	10.0	10.5	6.5	238.0	18.0	8.0	9.5	15.0
Merged-chr4-63815868-4	chr4	63815776	63815976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	45408.0	NM_009403	21949.0	Mm.4664	NM_009403	ENSMUSG00000028362	Tnfsf8	CD153|CD30LG|Cd30l|Tnlg3a	tumor necrosis factor (ligand) superfamily, member 8	protein-coding	42.0	37.5	39.0	824.5	105.5	46.0	39.5	77.0
Merged-chr3-88072022-4	chr3	88071915	88072115	+	816.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172526, intron 6 of 9)	intron (NM_172526, intron 6 of 9)	6289.0	NM_172526	214191.0	Mm.229191	NM_172526	ENSMUSG00000051036	Ttc24	A430025D11Rik	tetratricopeptide repeat domain 24	protein-coding	12.0	17.5	2.0	128.0	33.0	8.5	5.0	17.5
Merged-chr2-146512189-4	chr2	146512082	146512282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033348)	promoter-TSS (NM_001033348)	-178.0	NM_001033348	241694.0	Mm.222310	NM_001033348	ENSMUSG00000037110	Ralgapa2	A230067G21Rik|AS250|BC053994|RGC2|pp250	Ral GTPase activating protein, alpha subunit 2 (catalytic)	protein-coding	488.0	753.0	535.5	8574.0	1101.5	459.0	644.0	475.5
Merged-chr1-78488785-4	chr1	78488694	78488894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_102757, exon 1 of 17)	non-coding (NR_102757, exon 1 of 17)	103.0	NR_102758	23874.0	Mm.17898	NM_011811	ENSMUSG00000026245	Farsb	C76708|Farsa|Farsl|Farslb|Frsb	phenylalanyl-tRNA synthetase, beta subunit	protein-coding	81.5	162.5	127.0	1276.5	168.0	66.0	93.5	63.0
Merged-chr4-34882966-4	chr4	34882808	34883008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013889)	promoter-TSS (NM_013889)	40.0	NM_013889	30046.0	Mm.38193	NM_013889	ENSMUSG00000039967	Zfp292	5730450D02Rik|5830493J20Rik|9430062L07Rik|AI449016|Krox-10|Zfp-15|Zfp15|Zn-15|Zn-16|mKIAA0530	zinc finger protein 292	protein-coding	82.0	91.0	80.5	1265.0	132.5	65.0	48.5	45.5
Merged-chr6-146172444-4	chr6	146172318	146172518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 50 of 56)	intron (NM_019923, intron 50 of 56)	238296.0	NM_010656	16651.0	Mm.49689	NM_010656	ENSMUSG00000030255	Sspn	Krag	sarcospan	protein-coding	15.0	32.5	33.0	808.5	71.0	17.5	27.5	38.5
Merged-chr14-27183831-2	chr14	27183731	27183931	+	871.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 2 of 12)	intron (NM_001289686, intron 2 of 12)	39838.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	14.5	5.0	6.5	53.5	20.5	8.0	6.5	2.5
Merged-chr16-58690579-4	chr16	58690453	58690653	+	838.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20345.0	NM_007757	12892.0	Mm.291519	NM_007757	ENSMUSG00000022742	Cpox	CPX|Cpo|HCP|cac|nct	coproporphyrinogen oxidase	protein-coding	16.0	10.0	16.5	229.0	13.0	8.0	7.5	8.5
Merged-chr16-92411583-2	chr16	92411492	92411692	+	692.166626	f0_balb.idr|f1_balb.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-11514.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	9.0	8.0	7.0	123.5	12.5	0.0	4.0	5.5
Merged-chr13-37600979-1	chr13	37600879	37601079	+	565.5	f0_balb.idr	Intergenic	Intergenic	-225059.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	8.0	7.0	7.0	86.0	8.5	3.0	7.5	2.0
Merged-chr17-84238385-3	chr17	84238287	84238487	+	991.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 31 of 37)	intron (NM_183021, intron 31 of 37)	-50440.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	13.0	29.5	26.0	388.0	14.0	6.5	12.5	10.0
Merged-chr1-74763255-4	chr1	74763176	74763376	+	796.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8616.0	NM_009526	22420.0	Mm.268282	NM_009526	ENSMUSG00000033227	Wnt6	AA409270|Wnt-6	wingless-type MMTV integration site family, member 6	protein-coding	11.0	21.0	5.0	94.0	15.5	9.0	13.5	9.5
Merged-chr9-63737616-4	chr9	63737526	63737726	+	834.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	20368.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	8.5	14.5	12.5	141.0	19.0	2.0	7.0	9.5
Merged-chr2-132007590-3	chr2	132007459	132007659	+	903.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 3 of 10)	intron (NM_175445, intron 3 of 10)	22429.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	8.5	15.5	10.0	67.5	16.5	7.0	4.5	3.5
Merged-chr4-135193038-4	chr4	135192939	135193139	+	877.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72394.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	23.5	33.0	33.5	469.0	24.0	14.5	10.5	21.0
Merged-chr8-70630901-4	chr8	70630813	70631013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011819, intron 1 of 1)	intron (NM_011819, intron 1 of 1)	1182.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	54.5	75.0	81.0	1149.0	214.5	79.0	108.0	96.5
Merged-chr1-92652705-4	chr1	92652583	92652783	+	963.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3842.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	11.5	26.0	25.5	480.0	26.0	19.0	15.0	33.0
Merged-chr19-55708116-4	chr19	55707994	55708194	+	924.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5890.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	15.5	29.0	30.0	457.0	25.0	11.5	25.5	21.0
Merged-chr1-185363764-4	chr1	185363670	185363870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357474, intron 1 of 32)	intron (NM_001357474, intron 1 of 32)	726.0	NM_001357474	107508.0	Mm.154511	NM_029735	ENSMUSG00000026615	Eprs	2410081F06Rik|3010002K18Rik|C79379|Qprs	glutamyl-prolyl-tRNA synthetase	protein-coding	27.0	64.0	42.0	387.5	93.5	30.5	55.0	43.5
Merged-chr13-81371278-4	chr13	81371162	81371362	+	921.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	Lx6|LINE|L1	261882.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	17.5	19.0	23.5	362.0	44.5	21.5	14.0	13.0
Merged-chr2-70509389-2	chr2	70509280	70509480	+	869.25	f0_balb.idr|f1_balb.idr	exon (NM_025744, exon 1 of 13)	exon (NM_025744, exon 1 of 13)	561.0	NM_025744	66748.0	Mm.423014	NM_025744	ENSMUSG00000075302	Erich2	4933404M02Rik	glutamate rich 2	protein-coding	15.5	16.5	26.0	191.5	15.5	3.5	7.0	4.0
Merged-chr15-98877502-3	chr15	98877409	98877609	+	857.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026967)	TTS (NM_026967)	3905.0	NM_026967	69159.0	Mm.259708	NM_026967	ENSMUSG00000023755	Rhebl1	1810036J22Rik|Rheb2	Ras homolog enriched in brain like 1	protein-coding	11.5	19.5	5.5	72.5	17.5	8.0	6.0	6.0
Merged-chr7-119720291-1	chr7	119720191	119720391	+	848.0	f0_balb.idr	intron (NM_145585, intron 2 of 4)	CpG	3328.0	NM_145585	233802.0	Mm.26392	NM_145585	ENSMUSG00000030942	Thumpd1	6330575P11Rik	THUMP domain containing 1	protein-coding	5.5	12.0	17.0	216.0	24.5	7.0	8.5	11.5
Merged-chr10-18195262-3	chr10	18195205	18195405	+	823.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195036, intron 3 of 20)	intron (NM_001195036, intron 3 of 20)	15585.0	NM_001195036	100045792.0	Mm.380617	NM_001195036	ENSMUSG00000071392	Ect2l	C330021H03Rik|Gm10331	epithelial cell transforming sequence 2 oncogene-like	protein-coding	6.5	7.5	9.0	158.0	15.5	4.5	3.0	4.0
Merged-chr17-33759922-4	chr17	33759822	33760022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008997, intron 1 of 4)	CpG	564.0	NM_008997	19326.0	Mm.387587	NM_008997	ENSMUSG00000077450	Rab11b	A730055L17Rik	RAB11B, member RAS oncogene family	protein-coding	79.0	117.0	68.5	1042.0	200.5	100.0	80.5	97.0
Merged-chr7-127449194-4	chr7	127449117	127449317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175163)	promoter-TSS (NM_175163)	-59.0	NM_175163	71131.0	Mm.474533	NM_175163	ENSMUSG00000048921	Zfp689	4933416E05Rik|Znf689	zinc finger protein 689	protein-coding	29.0	67.0	28.5	349.5	103.5	46.0	38.5	37.5
Merged-chr19-53496810-3	chr19	53496706	53496906	+	977.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-32010.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	5.0	16.0	15.5	154.5	6.0	1.0	2.5	0.0
Merged-chr10-67743083-3	chr10	67742985	67743185	+	839.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	169577.0	NM_178679	216049.0	Mm.268346	NM_178679	ENSMUSG00000037855	Zfp365	AI839779|AV340892|DBZ|Su48|Znf365|talanin	zinc finger protein 365	protein-coding	8.0	9.5	5.5	109.5	12.5	8.0	2.0	9.5
Merged-chr19-23085829-1	chr19	23085729	23085929	+	758.799988	f0_c57.idr	Intergenic	Intergenic	-55397.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	0.0	2.0	0.0	2.5	21.5	15.5	16.0	16.5
Merged-chr1-86154115-3	chr1	86154057	86154257	+	848.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310702)	promoter-TSS (NM_001310702)	-623.0	NM_030184	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	10.5	11.0	5.0	45.5	14.0	6.5	4.5	7.5
Merged-chr8-70791579-4	chr8	70791474	70791674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199308, intron 1 of 25)	intron (NM_199308, intron 1 of 25)	859.0	NM_199308	546071.0	Mm.250731	NM_199308	ENSMUSG00000031833	Mast3	BC024265|mKIAA0561	microtubule associated serine/threonine kinase 3	protein-coding	57.0	63.5	56.5	993.0	116.5	33.5	71.5	27.0
Merged-chr7-105751641-4	chr7	105751554	105751754	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009906, exon 3 of 13)	exon (NM_009906, exon 3 of 13)	581.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	21.5	25.0	11.5	308.0	44.0	22.5	25.5	12.5
Merged-chr15-101174425-2	chr15	101174325	101174525	+	697.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007395, intron 1 of 8)	CpG	353.0	NM_007395	11479.0	Mm.308467	NM_007395	ENSMUSG00000000532	Acvr1b	6820432J04|ALK-4|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2	activin A receptor, type 1B	protein-coding	5.0	11.5	4.0	106.0	23.0	5.0	10.5	9.0
Merged-chr2-128796669-4	chr2	128796552	128796752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 18 of 18)	intron (NM_008587, intron 18 of 18)	-21651.0	NM_001355628	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	57.5	94.5	65.5	1177.5	67.0	23.0	39.0	33.0
Merged-chr17-5211046-4	chr17	5210950	5211150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	207717.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	47.0	91.0	67.0	1006.0	81.5	29.0	31.5	24.5
Merged-chr8-36993575-4	chr8	36993459	36993659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039220)	promoter-TSS (NM_001039220)	-16.0	NM_001039220	621080.0	Mm.373292	NM_001039220	ENSMUSG00000074384	AI429214	-	expressed sequence AI429214	protein-coding	71.0	95.5	58.0	1112.0	208.5	56.5	83.0	74.0
Merged-chr11-51264638-4	chr11	51264550	51264750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358281)	promoter-TSS (NM_001358281)	-988.0	NM_001358281	193286.0	Mm.80975	NM_177567	ENSMUSG00000045942	BC049762	4930503F14	cDNA sequence BC049762	protein-coding	38.5	46.0	21.5	492.5	128.5	43.0	36.0	41.5
Merged-chr16-90743864-4	chr16	90743753	90743953	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029844, intron 1 of 2)	intron (NM_029844, intron 1 of 2)	5529.0	NM_029844	77037.0	Mm.22455	NM_029844	ENSMUSG00000039956	Mrap	1110025G12Rik|C21ORF61|Falp|ORF61	melanocortin 2 receptor accessory protein	protein-coding	47.5	15.0	48.0	557.5	32.0	8.5	19.5	24.5
Merged-chr7-72166455-3	chr7	72166307	72166507	+	944.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024703, intron 14 of 22)	intron (NM_001024703, intron 14 of 22)	140188.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	26.0	22.5	27.0	148.0	5.5	3.0	1.5	4.0
Merged-chr6-17409881-4	chr6	17409790	17409990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54067.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	148.0	258.5	140.0	2134.5	464.5	182.5	179.0	140.5
Merged-chr1-138962600-7	chr1	138962510	138962710	+	998.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1099.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	11.5	22.0	19.5	223.0	45.5	17.5	6.5	8.5
Merged-chr4-152178077-4	chr4	152177968	152178168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133348)	promoter-TSS (NM_133348)	-32.0	NM_133348	70025.0	Mm.296191	NM_133348	ENSMUSG00000028937	Acot7	2410041A17Rik|Ach1|Act|Bach|CTE-IIa|Cte-II|Lach1	acyl-CoA thioesterase 7	protein-coding	143.0	168.5	129.0	1775.5	303.5	100.5	160.0	113.0
Merged-chr7-126861883-4	chr7	126861792	126861992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172746)	promoter-TSS (NM_172746)	-80.0	NM_172746	233876.0	Mm.363427	NM_172746	ENSMUSG00000042606	Hirip3	B130036O03|C86302	HIRA interacting protein 3	protein-coding	28.0	56.5	34.0	520.0	101.0	37.0	40.5	65.0
Merged-chr13-21974324-4	chr13	21974227	21974427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6854.0	NM_001162928	195236.0	Mm.204664	NM_001162928	ENSMUSG00000016982	Pom121l2	Gm24	POM121 membrane glycoprotein-like 2 (rat)	protein-coding	33.5	41.0	18.5	499.0	73.0	37.5	33.0	54.0
Merged-chr1-150377469-4	chr1	150377378	150377578	+	995.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357579, intron 9 of 13)	L1_Mus2|LINE|L1	-15360.0	NM_133780	108989.0	Mm.174256	NM_133780	ENSMUSG00000006005	Tpr	2610029M07Rik|C77892	translocated promoter region, nuclear basket protein	protein-coding	17.0	28.0	23.0	203.0	42.5	26.5	23.5	21.0
Merged-chr7-120871544-3	chr7	120871441	120871641	+	810.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 2 of 17)	MLT1A|LTR|ERVL-MaLR	20352.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	10.0	6.5	4.0	122.5	9.5	4.5	9.0	18.5
Merged-chr11-103364380-4	chr11	103364274	103364474	+	895.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183288)	promoter-TSS (NM_183288)	-682.0	NM_001205236	544817.0	Mm.259113	NM_133715	ENSMUSG00000034255	Arhgap27	2310069I04Rik|5730442P18Rik|Gm21552|Sh3d20	Rho GTPase activating protein 27	protein-coding	16.0	25.5	9.0	133.5	22.5	8.5	10.5	9.5
Merged-chr18-60891381-4	chr18	60891287	60891487	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20853.0	NM_001038499	545260.0	Mm.20147	NM_001038499	ENSMUSG00000036412	Arsi	BC020108	arylsulfatase i	protein-coding	26.5	35.0	22.5	360.5	37.5	12.0	34.0	25.5
Merged-chr8-46595799-4	chr8	46595697	46595897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001184, intron 6 of 14)	intron (NM_001001184, intron 6 of 14)	21430.0	NM_001001184	408022.0	Mm.217385	NM_001001184	ENSMUSG00000038225	Primpol	BC065112|Ccdc111	primase and polymerase (DNA-directed)	protein-coding	90.0	152.0	132.5	2187.5	268.0	92.5	120.0	114.0
Merged-chr17-48247690-4	chr17	48247586	48247786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021407)	promoter-TSS (NM_021407)	-43.0	NM_021407	58218.0	Mm.302438	NM_021407	ENSMUSG00000041754	Trem3	BB134760	triggering receptor expressed on myeloid cells 3	protein-coding	80.0	130.0	71.5	1230.5	160.0	69.0	78.0	60.5
Merged-chr14-64876786-4	chr14	64876674	64876874	+	962.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177338, intron 4 of 9)	Lx5c|LINE|L1	73083.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	20.0	36.0	16.5	172.5	38.5	10.5	13.0	10.0
Merged-chr15-85131999-4	chr15	85131913	85132113	+	966.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080470)	promoter-TSS (NM_080470)	-56.0	NM_080470	140557.0	Mm.182737	NM_080470	ENSMUSG00000022432	Smc1b	SMC-1B|SMC1beta|Smc1l2	structural maintenance of chromosomes 1B	protein-coding	35.5	25.5	29.5	210.0	64.0	20.0	17.5	31.5
Merged-chr13-75832909-2	chr13	75832809	75833009	+	667.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6976.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	0.0	2.0	0.0	9.5	23.0	7.5	5.5	10.0
Merged-chr17-83335360-4	chr17	83335259	83335459	+	931.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15572.0	NM_001114361	78798.0	Mm.295565	NM_199466	ENSMUSG00000032624	Eml4	4930443C24Rik|AI644019	echinoderm microtubule associated protein like 4	protein-coding	13.0	27.5	26.0	252.5	25.5	12.0	11.5	18.5
Merged-chr7-64001776-4	chr7	64001672	64001872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62857.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	87.5	94.5	53.0	1359.0	210.5	63.0	91.0	70.0
Merged-chr16-91726435-4	chr16	91726402	91726602	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026994, intron 1 of 11)	intron (NM_026994, intron 1 of 11)	2300.0	NM_026994	66609.0	Mm.109823	NM_026994	ENSMUSG00000058240	Cryzl1	2210407J23Rik|2410006O11Rik|QOH-1	crystallin, zeta (quinone reductase)-like 1	protein-coding	13.0	14.0	25.5	224.0	36.0	12.5	20.0	21.5
Merged-chr18-50024196-4	chr18	50024115	50024315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	-6769.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	176.5	245.0	176.0	2267.5	409.5	158.5	204.0	153.5
Merged-chr2-129602068-4	chr2	129601960	129602160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	6598.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	24.0	32.0	37.5	330.5	82.0	31.5	42.5	35.0
Merged-chr10-80881472-3	chr10	80881379	80881579	+	855.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081688, intron 1 of 17)	B3|SINE|B2	1663.0	NM_001081688	432478.0	Mm.235302	NM_001081688	ENSMUSG00000059406	Tmprss9	Serase-1B	transmembrane protease, serine 9	protein-coding	4.5	17.0	6.5	30.0	30.5	5.5	3.0	8.5
Merged-chr11-69664811-4	chr11	69664753	69664953	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001291058, exon 5 of 6)	exon (NM_001291058, exon 5 of 6)	1317.0	NM_001291058	12514.0	Mm.15819	NM_009853	ENSMUSG00000018774	Cd68	Lamp4|Scard1|gp110	CD68 antigen	protein-coding	7.0	23.0	6.0	141.0	33.0	6.5	11.5	23.0
Merged-chr9-42471398-4	chr9	42471296	42471496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173038, intron 1 of 7)	intron (NM_173038, intron 1 of 7)	862.0	NM_173038	272589.0	Mm.34483	NM_173038	ENSMUSG00000037287	Tbcel	D330014K23|E130107N23Rik|Lrrc35	tubulin folding cofactor E-like	protein-coding	31.5	41.0	14.5	602.5	65.5	20.0	39.0	39.0
Merged-chr7-5061402-7	chr7	5061288	5061488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133671)	promoter-TSS (NM_133671)	-755.0	NM_133671	22185.0	Mm.360389	NM_133671	ENSMUSG00000030435	U2af2	65kDa	U2 small nuclear ribonucleoprotein auxiliary factor (U2AF) 2	protein-coding	61.0	72.5	40.0	424.0	110.5	51.0	42.0	50.0
Merged-chr18-80497066-3	chr18	80496946	80497146	+	686.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27379.0	NM_026295	67655.0	Mm.312893	NM_026295	ENSMUSG00000033323	Ctdp1	4930563P03Rik|AW553592	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	protein-coding	4.5	4.5	10.5	130.5	7.5	4.0	3.0	3.5
Merged-chr3-69756699-4	chr3	69756594	69756794	+	896.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34639.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	5.5	19.0	9.0	140.5	31.5	15.5	19.0	7.5
Merged-chr15-97361177-4	chr15	97361086	97361286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	intron (NM_172293, intron 3 of 5)	-113899.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	88.5	135.5	79.0	1627.0	182.0	52.0	94.0	53.0
Merged-chr19-12006202-6	chr19	12006077	12006277	+	996.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30563.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	9.0	8.0	4.0	112.0	11.0	4.5	8.0	15.0
Merged-chr19-29708255-4	chr19	29708166	29708366	+	931.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029993)	TTS (NM_029993)	10325.0	NM_029993	77836.0	Mm.138437	NM_029993	ENSMUSG00000024806	Mlana	A930034P04Rik|Mart1	melan-A	protein-coding	7.5	48.0	14.0	166.0	28.5	12.0	12.5	8.5
Merged-chr2-165948232-4	chr2	165948158	165948358	+	952.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44379.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	14.0	24.5	15.5	340.0	27.0	9.0	15.5	34.5
Merged-chr9-80081158-4	chr9	80081056	80081256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311110, intron 1 of 23)	ORR1E|LTR|ERVL-MaLR	14253.0	NM_146003	215351.0	Mm.28232	NM_146003	ENSMUSG00000034252	Senp6	2810017C20Rik|E130319N12Rik|Susp1|mKIAA0797	SUMO/sentrin specific peptidase 6	protein-coding	51.5	41.0	31.5	727.5	80.0	25.5	56.5	51.0
Merged-chr8-122564704-6	chr8	122564589	122564789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-3326.0	NM_026014	67177.0	Mm.21873	NM_026014	ENSMUSG00000006585	Cdt1	2610318F11Rik|AW545653|C76791|Ris2	chromatin licensing and DNA replication factor 1	protein-coding	56.0	59.0	35.0	611.0	102.5	48.0	28.5	43.5
Merged-chr10-37235720-3	chr10	37235616	37235816	+	849.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96790.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	9.0	5.0	4.5	69.5	11.0	3.0	6.5	3.5
Merged-chr9-66919769-4	chr9	66919693	66919893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173413)	promoter-TSS (NM_173413)	-88.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	97.0	210.5	105.5	1580.0	287.0	128.5	150.5	115.5
Merged-chr16-44172394-4	chr16	44172306	44172506	+	886.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029889)	promoter-TSS (NM_001029889)	-991.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	22.0	14.0	2.0	104.0	24.5	12.5	11.5	19.5
Merged-chr2-160152329-4	chr2	160152209	160152409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	135656.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	151.5	194.0	171.0	2537.0	273.0	108.5	130.5	112.0
Merged-chr1-132135801-3	chr1	132135708	132135908	+	899.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008795, intron 1 of 15)	intron (NM_008795, intron 1 of 15)	3877.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	14.0	29.0	13.5	322.5	20.0	12.0	7.0	14.5
Merged-chr1-166380144-4	chr1	166380044	166380244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030245, intron 1 of 7)	intron (NM_030245, intron 1 of 7)	977.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	59.0	100.5	72.5	1028.5	170.0	49.5	65.5	54.5
Merged-chr2-133458900-4	chr2	133458788	133458988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93271.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	78.5	168.0	114.0	1454.5	224.0	83.5	106.5	69.0
Merged-chr10-21997859-1	chr10	21997759	21997959	+	576.0	f0_c57.idr	intron (NM_011361, intron 9 of 11)	intron (NM_011361, intron 9 of 11)	3193.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	2.0	6.5	5.0	46.5	16.5	9.0	8.5	5.5
Merged-chr7-75575504-4	chr7	75575397	75575597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 3 of 36)	intron (NM_029332, intron 3 of 36)	119963.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	59.0	60.0	30.0	805.0	90.0	37.5	51.0	52.0
Merged-chr7-73546721-3	chr7	73546621	73546821	+	800.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037569, intron 4 of 4)	intron (NR_037569, intron 4 of 4)	-4975.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	11.5	9.5	9.0	171.0	14.0	5.0	8.0	7.0
Merged-chr2-167349360-4	chr2	167349277	167349477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019835)	promoter-TSS (NM_019835)	-199.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	156.0	275.0	154.0	2174.5	477.5	198.5	227.5	176.0
Merged-chr1-131702612-3	chr1	131702467	131702667	+	730.799988	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311096, intron 4 of 4)	intron (NM_001311096, intron 4 of 4)	13872.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	1.0	8.0	2.5	93.5	25.5	15.0	10.5	15.5
Merged-chr3-130060840-4	chr3	130060746	130060946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207209)	promoter-TSS (NM_207209)	61.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	85.0	135.5	167.5	1498.5	206.0	92.0	121.5	94.0
Merged-chr15-67174163-4	chr15	67174070	67174270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 1 of 8)	intron (NM_009177, intron 1 of 8)	2712.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	59.5	95.0	40.5	920.0	128.0	75.0	67.0	49.0
Merged-chr2-164486411-5	chr2	164486316	164486516	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026797)	promoter-TSS (NM_026797)	-39.0	NM_026797	52840.0	Mm.256927	NM_026797	ENSMUSG00000017734	Dbndd2	1110017A21Rik|2900022J10Rik|AU041050|AW048677|D2Bwg0891e|Nkip|R74724	dysbindin (dystrobrevin binding protein 1) domain containing 2	protein-coding	22.0	29.5	16.0	284.0	27.5	17.0	9.0	20.5
Merged-chr5-93266322-4	chr5	93266232	93266432	+	943.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1241.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	15.5	31.0	5.0	132.0	57.0	20.5	8.5	6.5
Merged-chr1-191821447-4	chr1	191821344	191821544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010892)	promoter-TSS (NM_010892)	-29.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	100.0	110.0	59.0	1328.5	272.0	121.0	119.5	111.5
Merged-chr10-25298397-4	chr10	25298297	25298497	+	896.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	Lx5c|LINE|L1	766.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	17.0	8.5	15.0	224.0	23.5	11.5	5.5	14.0
Merged-chr10-75677044-4	chr10	75676948	75677148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172549, intron 29 of 36)	intron (NM_172549, intron 29 of 36)	-33040.0	NM_027890	71733.0	Mm.247956	NM_027890	ENSMUSG00000006342	Susd2	1200011D11Rik	sushi domain containing 2	protein-coding	73.0	99.5	56.0	1111.0	120.0	56.5	55.5	64.0
Merged-chr18-34596002-4	chr18	34595893	34596093	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177773, exon 1 of 6)	exon (NM_177773, exon 1 of 6)	1475.0	NM_177773	271508.0	Mm.417609	NM_177773	ENSMUSG00000049357	4933408B17Rik	-	RIKEN cDNA 4933408B17 gene	protein-coding	8.0	10.0	13.0	173.0	26.0	21.5	15.5	6.0
Merged-chr5-45923191-5	chr5	45923076	45923276	+	862.56665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9233.0	NR_110478	78106.0	Mm.243807	NR_110478	ENSMUSG00000106602	4930405L22Rik	-	RIKEN cDNA 4930405L22 gene	ncRNA	3.0	3.5	11.0	20.0	29.5	9.0	14.5	12.5
Merged-chr14-103719035-4	chr14	103718941	103719141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19609.0	NR_045148	70898.0	Mm.27548	NR_045148	ENSMUSG00000089707	Slain1os	4921525B02Rik	SLAIN motif family, member 1, opposite strand	ncRNA	35.0	43.0	34.0	565.5	77.5	32.5	35.5	41.0
Merged-chr11-82007930-4	chr11	82007797	82007997	+	763.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17D|LTR|ERVK	-27680.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	8.5	8.0	12.5	120.0	18.5	3.5	6.0	11.5
Merged-chr17-74853881-3	chr17	74853791	74853991	+	881.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 16 of 19)	intron (NM_152817, intron 16 of 19)	136141.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	7.5	6.5	2.5	171.0	24.0	7.0	20.5	14.5
Merged-chr3-96066223-3	chr3	96066077	96066277	+	667.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-7722.0	NM_013841	22365.0	Mm.263185	NM_013841	ENSMUSG00000015747	Vps45	AI462172|AW554165|mVps45	vacuolar protein sorting 45	protein-coding	7.5	12.0	1.0	116.0	20.0	7.0	7.0	7.5
Merged-chr7-141269068-4	chr7	141268998	141269198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028069)	TTS (NM_028069)	-2674.0	NM_001252600	54123.0	Mm.3233	NM_016850	ENSMUSG00000025498	Irf7	-	interferon regulatory factor 7	protein-coding	90.5	81.0	82.0	1234.5	168.5	70.5	113.5	84.5
Merged-chr16-92826898-3	chr16	92826807	92827007	+	921.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111021)	promoter-TSS (NM_001111021)	-833.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	9.5	13.0	13.0	104.5	13.5	0.5	7.0	9.5
Merged-chr8-56896533-3	chr8	56896434	56896634	+	815.211121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	345400.0	NM_015791	50753.0	Mm.251174	NM_015791	ENSMUSG00000038206	Fbxo8	Fbx8	F-box protein 8	protein-coding	19.5	18.5	20.0	264.0	5.5	3.0	3.0	3.0
Merged-chr11-3182575-2	chr11	3182496	3182696	+	995.125	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 4 of 32)	MTD|LTR|ERVL-MaLR	10867.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	28.5	12.5	34.0	200.0	0.0	0.0	0.0	0.0
Merged-chr8-84745758-4	chr8	84745641	84745841	+	923.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081982, intron 2 of 9)	intron (NM_001081982, intron 2 of 9)	28628.0	NM_001081981	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	10.0	22.0	33.0	312.0	36.0	10.0	16.5	19.5
Merged-chr1-138835550-4	chr1	138835443	138835643	+	896.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025565, intron 3 of 4)	intron (NM_001025565, intron 3 of 4)	6901.0	NM_001042577	16876.0	Mm.250732	NM_010714	ENSMUSG00000019230	Lhx9	3110009O07Rik|BB104635|LH2B	LIM homeobox protein 9	protein-coding	18.5	18.5	9.5	277.5	45.0	12.0	8.5	7.5
Merged-chr9-123968756-4	chr9	123968654	123968854	+	892.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009912)	promoter-TSS (NM_009912)	-62.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	13.5	18.0	15.5	175.0	22.5	7.0	13.5	17.5
Merged-chr1-192981955-2	chr1	192981828	192982028	+	962.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301370, intron 3 of 8)	intron (NM_001301370, intron 3 of 8)	53847.0	NM_001301370	329324.0	Mm.76710	NM_181546	ENSMUSG00000016200	Syt14	B230320I09Rik|sytXIV	synaptotagmin XIV	protein-coding	0.0	0.0	0.0	11.0	21.5	6.5	13.5	12.5
Merged-chr7-67442523-4	chr7	67442428	67442628	+	998.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-69670.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	50.0	43.0	13.0	392.0	92.0	38.0	33.5	25.5
Merged-chr6-113650288-4	chr6	113650178	113650378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	11811.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	65.0	64.5	57.0	813.5	96.0	24.5	41.0	34.0
Merged-chr10-94082491-4	chr10	94082384	94082584	+	917.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 3 of 20)	LTR48|LTR|ERV1	46483.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	2.0	22.0	9.5	148.0	81.0	10.0	36.0	24.5
Merged-chr10-44069301-4	chr10	44069200	44069400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64454.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	31.0	52.5	38.0	571.5	90.0	26.0	40.0	46.0
Merged-chr2-90533229-2	chr2	90533111	90533311	+	690.5	f0_c57.idr|f1_balb.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	47436.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	0.5	3.0	4.0	31.0	29.0	13.5	8.5	8.0
Merged-chr16-10521343-4	chr16	10521212	10521412	+	923.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007575, intron 15 of 18)	intron (NM_007575, intron 15 of 18)	21742.0	NM_021428	58239.0	Mm.353006	NM_021428	ENSMUSG00000038055	Dexi	1810029J14Rik|AI836170|AW413143|D16Bwg0586e|Myle	dexamethasone-induced transcript	protein-coding	17.0	38.5	10.5	176.0	24.0	8.5	11.5	7.5
Merged-chr18-30087456-3	chr18	30087347	30087547	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-185418.0	NM_181414	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	53.5	56.5	61.0	1120.0	11.0	4.5	5.0	5.0
Merged-chr7-66661772-4	chr7	66661686	66661886	+	837.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080443, intron 4 of 5)	B3A|SINE|B2	27775.0	NM_080443	117589.0	Mm.34785	NM_080443	ENSMUSG00000030509	Asb7	AI449039|Asb-7|D030055C23Rik	ankyrin repeat and SOCS box-containing 7	protein-coding	7.0	17.5	13.5	159.5	23.5	13.5	2.5	8.0
Merged-chr5-34236248-3	chr5	34236152	34236352	+	858.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015039, intron 2 of 12)	intron (NM_001015039, intron 2 of 12)	-48542.0	NM_010753	17122.0	Mm.259260	NM_010753	ENSMUSG00000037235	Mxd4	2810410A03Rik|Mad4|bHLHc12	Max dimerization protein 4	protein-coding	9.5	5.0	10.5	133.0	12.5	8.0	10.5	4.5
Merged-chr2-144555383-2	chr2	144555283	144555483	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019787)	promoter-TSS (NM_019787)	-846.0	NM_001252544	27054.0	Mm.248492	NM_019787	ENSMUSG00000027429	Sec23b	-	SEC23 homolog B, COPII coat complex component	protein-coding	5.0	12.0	5.0	23.0	18.5	6.5	4.0	7.0
Merged-chr1-172314284-4	chr1	172314197	172314397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080419, intron 1 of 6)	intron (NM_080419, intron 1 of 6)	1930.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	107.5	306.5	161.5	1648.5	315.0	82.5	81.5	70.0
Merged-chr13-24338457-4	chr13	24338343	24338543	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284519, intron 2 of 17)	MTEa|LTR|ERVL-MaLR	11039.0	NM_001111110	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	21.0	19.0	24.5	407.0	19.5	20.0	21.5	29.5
Merged-chr6-122742646-3	chr6	122742561	122742761	+	815.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011401)	promoter-TSS (NM_011401)	84.0	NM_011401	20527.0	Mm.395108	NM_011401	ENSMUSG00000003153	Slc2a3	AA408729|AL023014|AL024341|AU040424|C78366|Glut-3|Glut3	solute carrier family 2 (facilitated glucose transporter), member 3	protein-coding	8.0	14.0	10.0	71.5	17.5	2.5	7.0	18.0
Merged-chr8-91312523-4	chr8	91312459	91312659	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011936)	promoter-TSS (NM_011936)	663.0	NM_173431	244585.0	Mm.324592	NM_173431	ENSMUSG00000033282	Rpgrip1l	1700047E16Rik|4931437C01|Ftm|Nphp8	Rpgrip1-like	protein-coding	2.5	9.5	3.0	102.0	41.0	14.0	15.5	13.5
Merged-chr8-72272610-4	chr8	72272509	72272709	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32591.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	41.5	41.0	49.5	690.0	48.5	18.0	17.0	20.0
Merged-chr11-46810715-4	chr11	46810603	46810803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178759)	promoter-TSS (NM_178759)	-96.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	96.5	137.0	83.0	1496.5	209.5	88.5	106.5	80.0
Merged-chr17-25834189-2	chr17	25834089	25834289	+	960.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019719)	promoter-TSS (NM_019719)	-828.0	NM_019719	56424.0	Mm.277599	NM_019719	ENSMUSG00000039615	Stub1	0610033N24Rik|2210017D18Rik|2310040B03Rik|AW046544|Chip	STIP1 homology and U-Box containing protein 1	protein-coding	3.0	1.5	2.5	2.0	7.0	7.0	5.0	7.5
Merged-chr14-79034722-3	chr14	79034604	79034804	+	961.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027906, intron 20 of 44)	intron (NM_027906, intron 20 of 44)	164486.0	NR_152203	100043765.0	Mm.435553	NR_152203	ENSMUSG00000115111	Gm4632	-	predicted gene 4632	ncRNA	10.0	12.5	19.0	226.0	1.0	0.5	2.5	6.5
Merged-chr7-79780945-7	chr7	79780833	79781033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037927, intron 17 of 17)	intron (NM_001037927, intron 17 of 17)	12657.0	NM_008588	17292.0	Mm.1404	NM_008588	ENSMUSG00000030544	Mesp1	bHLHc5	mesoderm posterior 1	protein-coding	11.5	14.5	21.0	164.5	48.5	31.0	12.0	15.5
Merged-chr4-133632216-3	chr4	133632120	133632320	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 1 of 7)	intron (NM_001017968, intron 1 of 7)	1209.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	6.0	20.0	13.0	206.0	5.5	4.0	5.0	3.5
Merged-chr18-3282473-3	chr18	3282375	3282575	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110855)	promoter-TSS (NM_001110855)	-728.0	NM_001110855	12916.0	Mm.5244	NM_013498	ENSMUSG00000063889	Crem	ICER|ICERI	cAMP responsive element modulator	protein-coding	10.5	5.0	4.5	142.5	17.0	9.0	7.0	1.0
Merged-chr6-119444327-4	chr6	119444230	119444430	+	961.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 3 of 4)	intron (NM_009525, intron 3 of 4)	5056.0	NM_001271757	22419.0	Mm.321818	NM_009525	ENSMUSG00000030170	Wnt5b	AW545702|Wnt-5b	wingless-type MMTV integration site family, member 5B	protein-coding	23.0	32.0	13.5	489.0	44.0	17.0	31.0	27.0
Merged-chr8-76900473-7	chr8	76900416	76900616	+	905.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028579, exon 1 of 2)	non-coding (NR_028579, exon 1 of 2)	105.0	NR_028579	102640923.0	Mm.367571	NR_028579	ENSMUSG00000074235	Gm10649	-	predicted gene 10649	ncRNA	5.0	12.5	18.0	148.0	17.5	13.5	11.0	15.5
Merged-chr3-107334020-4	chr3	107333917	107334117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045807)	promoter-TSS (NM_001045807)	-728.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	185.5	332.0	169.5	3166.5	581.5	206.0	321.5	211.0
Merged-chr11-62280783-4	chr11	62280669	62280869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029704)	promoter-TSS (NM_029704)	626.0	NM_027198	69747.0	Mm.141150	NM_027198	ENSMUSG00000014243	Zswim7	2410012H22Rik	zinc finger SWIM-type containing 7	protein-coding	36.5	50.5	21.5	310.0	82.5	31.5	26.5	25.5
Merged-chr16-45561925-3	chr16	45561832	45562032	+	938.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198106, intron 13 of 27)	intron (NM_198106, intron 13 of 27)	26666.0	NM_198106	208169.0	Mm.277437	NM_198106	ENSMUSG00000033210	Slc9c1	Gm610|NHE-10|Slc9a10|sNHE|spermNHE	solute carrier family 9, subfamily C (Na+-transporting carboxylic acid decarboxylase), member 1	protein-coding	0.0	0.0	1.0	0.0	80.5	28.5	41.5	29.0
Merged-chr14-74646330-3	chr14	74646240	74646440	+	943.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172812, intron 2 of 2)	intron (NM_172812, intron 2 of 2)	5466.0	NM_172812	15558.0	Mm.214351	NM_172812	ENSMUSG00000034997	Htr2a	5-HT-2|5-HT-2A|E030013E04|Htr-2|Htr2	5-hydroxytryptamine (serotonin) receptor 2A	protein-coding	13.5	19.5	11.5	173.0	23.5	1.0	3.5	5.5
Merged-chr10-17613464-4	chr10	17613368	17613568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63B|DNA|hAT-Blackjack	-109760.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	44.5	49.0	25.0	487.5	111.5	34.0	36.0	29.5
Merged-chr6-28215477-7	chr6	28215373	28215573	+	971.619019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	46128.0	NM_001081678	627049.0	Mm.84441	NM_001081678	ENSMUSG00000039841	Zfp800	AA407452|Znf800	zinc finger protein 800	protein-coding	7.0	28.0	19.5	138.0	42.5	10.5	20.5	18.0
Merged-chr9-50554856-4	chr9	50554740	50554940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357222, exon 1 of 6)	5' UTR (NM_001357222, exon 1 of 6)	140.0	NM_001357222	16173.0	Mm.1410	NM_008360	ENSMUSG00000039217	Il18	Igif|Il-18	interleukin 18	protein-coding	47.0	90.5	51.0	623.0	127.0	56.5	78.0	31.5
Merged-chr4-57954668-4	chr4	57954568	57954768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 1 of 4)	intron (NM_011660, intron 1 of 4)	1743.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	46.0	58.0	60.5	946.0	203.5	65.5	79.5	71.0
Merged-chr9-40264090-3	chr9	40263989	40264189	+	696.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5127.0	NM_001083917	235281.0	Mm.290083	NM_153522	ENSMUSG00000049281	Scn3b	1110001K16Rik|4833414B02Rik|Scnb3	sodium channel, voltage-gated, type III, beta	protein-coding	1.0	4.0	3.5	24.0	31.5	11.0	8.5	5.0
Merged-chr5-122392278-4	chr5	122392210	122392410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 1 of 6)	intron (NM_019824, intron 1 of 6)	432.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	24.0	42.0	26.0	251.5	67.0	26.5	29.5	32.0
Merged-chr14-79562730-8	chr14	79562622	79562822	+	920.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286412, intron 3 of 7)	intron (NM_001286412, intron 3 of 7)	-24938.0	NM_026474	67955.0	Mm.18972	NM_026474	ENSMUSG00000022024	Sugt1	2410174K12Rik|SGT1	SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae)	protein-coding	4.0	9.5	9.0	96.0	18.0	10.5	9.5	16.5
Merged-chr12-117765027-4	chr12	117764924	117765124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78837.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	39.0	57.0	34.5	626.5	86.0	48.0	36.5	45.5
Merged-chr19-46670874-2	chr19	46670774	46670974	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007809, intron 2 of 7)	intron (NM_007809, intron 2 of 7)	2126.0	NM_007809	13074.0	Mm.1262	NM_007809	ENSMUSG00000003555	Cyp17a1	Cyp17|p450c17	cytochrome P450, family 17, subfamily a, polypeptide 1	protein-coding	7.5	7.0	7.5	42.0	17.0	7.0	4.0	6.5
Merged-chr5-65092140-4	chr5	65092042	65092242	+	885.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15426.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	19.0	14.0	15.0	130.5	46.0	11.0	7.5	14.5
Merged-chr2-124712998-4	chr2	124712890	124713090	+	832.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	59409.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	13.5	11.5	12.5	51.5	33.5	15.0	12.0	7.0
Merged-chr2-45239932-3	chr2	45239815	45240015	+	889.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122473.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	7.0	12.0	5.0	35.0	13.0	9.0	5.5	9.5
Merged-chr10-34132148-6	chr10	34132035	34132235	+	744.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4163.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	10.0	19.0	5.0	43.5	24.5	5.0	7.0	5.0
Merged-chr7-67952277-2	chr7	67952177	67952377	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010513)	promoter-TSS (NM_010513)	20.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	11.5	16.0	15.0	298.0	24.0	8.0	9.0	19.5
Merged-chr19-3321777-4	chr19	3321674	3321874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1527.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	45.5	53.0	31.5	640.5	65.5	31.0	35.0	32.5
Merged-chr11-88204342-4	chr11	88204242	88204442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_111902)	promoter-TSS (NR_111902)	-46.0	NM_024174	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	68.5	119.0	44.5	677.5	241.0	85.0	85.0	75.5
Merged-chr15-3583448-4	chr15	3583326	3583526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010284)	promoter-TSS (NM_010284)	-74.0	NM_010284	14600.0	Mm.3986	NM_010284	ENSMUSG00000055737	Ghr	GHBP|GHR/BP	growth hormone receptor	protein-coding	30.0	32.0	35.0	385.5	37.5	19.5	25.5	21.0
Merged-chr2-25365652-4	chr2	25365563	25365763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033293)	promoter-TSS (NM_001033293)	0.0	NR_149315	227620.0	Mm.33797	NM_001033293	ENSMUSG00000026956	Uap1l1	5730445F03Rik	UDP-N-acteylglucosamine pyrophosphorylase 1-like 1	protein-coding	46.5	65.5	35.5	460.0	99.0	44.0	47.5	71.5
Merged-chr5-140722377-3	chr5	140722278	140722478	+	957.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1749.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	14.0	23.5	25.5	254.5	16.0	6.0	8.5	14.5
Merged-chr7-100868737-4	chr7	100868640	100868840	+	905.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5327.0	NM_177073	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	13.0	12.0	22.5	265.0	21.0	12.0	17.0	16.5
Merged-chr10-60260309-4	chr10	60260216	60260416	+	988.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17312.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	15.5	6.5	28.0	250.0	32.0	15.0	28.0	32.0
Merged-chr12-99563615-4	chr12	99563517	99563717	+	989.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_136760)	promoter-TSS (NR_136760)	-224.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	14.5	27.5	16.5	176.0	45.5	15.5	30.0	18.5
Merged-chr13-37890350-4	chr13	37890248	37890448	+	962.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 2 of 9)	intron (NM_001039188, intron 2 of 9)	1477.0	NM_001177869	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	24.0	43.5	45.5	700.5	32.0	15.0	23.0	22.5
Merged-chr5-117355985-3	chr5	117355908	117356108	+	664.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1297.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	9.0	11.5	14.0	43.0	25.5	6.0	3.5	8.5
Merged-chr3-30968946-3	chr3	30968871	30969071	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165954, intron 1 of 14)	CpG	444.0	NM_001165954	241915.0	Mm.233173	NM_153421	ENSMUSG00000037652	Phc3	E030046K01Rik|Edr3|Hph3	polyhomeotic 3	protein-coding	19.5	22.0	31.0	253.5	60.5	16.0	26.0	25.0
Merged-chr9-21168438-4	chr9	21168336	21168536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	intron (NM_183408, intron 1 of 14)	2722.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	113.5	220.5	100.5	1524.0	286.0	106.0	122.0	105.0
Merged-chr4-55532593-4	chr4	55532481	55532681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010637)	promoter-TSS (NM_010637)	-106.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	193.5	375.0	230.5	2843.5	533.0	214.0	187.5	218.5
Merged-chr7-80998090-7	chr7	80998008	80998208	+	963.619019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178707, intron 1 of 9)	intron (NM_178707, intron 1 of 9)	4424.0	NM_178707	233410.0	Mm.29525	NM_178707	ENSMUSG00000005621	Zfp592	A730014M16Rik|Znf592	zinc finger protein 592	protein-coding	8.0	8.0	11.0	155.5	27.5	12.0	15.5	16.5
Merged-chr16-91045738-2	chr16	91045638	91045838	+	984.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1359.0	NR_152264	67367.0	Mm.347	NM_026110	ENSMUSG00000022974	Paxbp1	1810007M14Rik|C21orf66|Gcfc|Gcfc1|Pax3/7bp	PAX3 and PAX7 binding protein 1	protein-coding	4.0	10.0	5.0	64.0	10.5	4.5	9.5	5.5
Merged-chr14-105285403-3	chr14	105285293	105285493	+	886.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 1 of 7)	Lx8|LINE|L1	26720.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	0.0	6.0	9.0	123.0	14.5	4.5	6.5	4.5
Merged-chr12-52503824-4	chr12	52503757	52503957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-12220.0	NM_009706	11855.0	Mm.35059	NM_009706	ENSMUSG00000035133	Arhgap5	p190-B|p190B	Rho GTPase activating protein 5	protein-coding	103.0	98.5	67.5	1241.0	196.5	97.0	89.5	60.5
Merged-chr2-154990558-3	chr2	154990403	154990603	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-23067.0	NM_015770	50518.0	Mm.315593	NM_015770	ENSMUSG00000027596	a	A<y>|ASIP|ASP|As	nonagouti	protein-coding	18.0	30.0	35.0	355.5	1.0	0.5	1.0	0.5
Merged-chr17-74508818-4	chr17	74508712	74508912	+	734.354187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	19319.0	NM_026417	67864.0	Mm.41891	NM_026417	ENSMUSG00000024072	Yipf4	2310034L04Rik	Yip1 domain family, member 4	protein-coding	21.0	16.0	11.0	118.5	19.0	11.0	17.0	6.0
Merged-chr13-97240518-4	chr13	97240441	97240641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007930)	promoter-TSS (NM_007930)	-564.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	12.5	25.0	27.0	346.0	42.0	17.0	19.5	22.0
Merged-chr2-69719564-4	chr2	69719464	69719664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-3524.0	NM_001081086	228005.0	Mm.11815	NM_001081086	ENSMUSG00000042133	Ppig	AU019516|AU022200|B230312B02Rik|CYP|SRCyp	peptidyl-prolyl isomerase G (cyclophilin G)	protein-coding	81.0	157.5	81.0	717.5	240.5	100.0	74.0	63.0
Merged-chr19-42019043-4	chr19	42018953	42019153	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	RLTR34B_MM|LTR|ERVK	-16985.0	NM_020033	56642.0	Mm.143737	NM_020033	ENSMUSG00000025172	Ankrd2	Arpp|mArpp	ankyrin repeat domain 2 (stretch responsive muscle)	protein-coding	38.5	63.5	32.5	600.0	29.5	16.0	25.0	11.0
Merged-chr14-55918844-4	chr14	55918751	55918951	+	805.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18619.0	NM_001082975	654795.0	Mm.486218	NM_001082975	ENSMUSG00000022223	Sdr39u1	2310014G06Rik	short chain dehydrogenase/reductase family 39U, member 1	protein-coding	9.5	12.5	6.0	158.5	38.0	5.0	9.0	22.0
Merged-chr8-64847414-3	chr8	64847316	64847516	+	791.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178633, intron 1 of 14)	intron (NM_178633, intron 1 of 14)	2508.0	NM_178633	77113.0	Mm.350347	NM_178633	ENSMUSG00000031605	Klhl2	6030411N21Rik|8530402H02Rik|ABP-KELCH|AU020744|Mav	kelch-like 2, Mayven	protein-coding	1.0	6.5	9.5	138.5	5.5	8.5	4.5	4.5
Merged-chr17-64602899-4	chr17	64602800	64603000	+	898.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008549, intron 1 of 21)	intron (NM_008549, intron 1 of 21)	1251.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	15.0	17.5	13.0	273.5	35.5	8.0	10.0	15.5
Merged-chr2-102850025-3	chr2	102849937	102850137	+	737.81665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009851, intron 5 of 18)	intron (NM_009851, intron 5 of 18)	51628.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	13.5	11.0	11.5	413.5	14.0	7.5	2.5	2.0
Merged-chr4-137724962-4	chr4	137724855	137725055	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081155, intron 19 of 24)	intron (NM_001081155, intron 19 of 24)	494.0	NR_138592	110351.0	Mm.180763	NM_029563	ENSMUSG00000041351	Rap1gap	1300019I11Rik|2310004O14Rik|AI427470|ARPP-90|Gap|Rap1GAP1|Rap1ga1	Rap1 GTPase-activating protein	protein-coding	24.0	55.0	24.5	416.5	156.0	14.0	46.0	49.0
Merged-chr13-110896085-4	chr13	110895971	110896171	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131194, intron 2 of 2)	intron (NR_131194, intron 2 of 2)	-7428.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	28.5	13.0	37.0	519.5	73.5	14.5	24.5	32.0
Merged-chr16-65567452-3	chr16	65567309	65567509	+	882.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-4712.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	4.5	3.5	1.5	107.0	17.0	7.0	12.0	5.5
Merged-chr4-114665879-3	chr4	114665766	114665966	+	711.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-155854.0	NR_033617	433746.0	Mm.388908	NR_033617	ENSMUSG00000055198	Gm12830	-	predicted gene 12830	ncRNA	2.5	5.5	4.0	84.0	30.0	18.5	13.5	7.5
Merged-chr15-59480823-3	chr15	59480733	59480933	+	816.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	106635.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	14.5	23.5	12.0	123.5	8.0	3.0	4.0	6.0
Merged-chr4-6441996-4	chr4	6441934	6442134	+	679.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	intron (NM_010945, intron 1 of 30)	12237.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	13.0	3.0	2.0	114.0	28.5	7.0	8.0	9.5
Merged-chr1-171713582-4	chr1	171713439	171713639	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31547.0	NM_001360767	12506.0	Mm.1738	NM_007649	ENSMUSG00000015355	Cd48	AI449234|AW610730|BCM1|BLAST|BLAST-1|BLAST1|Bcm-1|MEM-102|SLAMF2|Sgp-60	CD48 antigen	protein-coding	46.0	29.0	33.0	405.5	58.0	16.0	20.5	22.0
Merged-chr5-21036301-4	chr5	21036201	21036401	+	949.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011203, intron 1 of 17)	RSINE1|SINE|B4	-1054.0	NM_001356590	19248.0	Mm.319117	NM_011203	ENSMUSG00000028771	Ptpn12	P19-PTP|PTP-P19|PTP-PEST|PTPG1	protein tyrosine phosphatase, non-receptor type 12	protein-coding	19.0	40.5	11.5	316.0	66.5	19.0	48.0	13.5
Merged-chr14-121422114-4	chr14	121422024	121422224	+	944.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42894.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	17.5	9.5	21.5	352.5	36.0	4.5	14.5	9.0
Merged-chr2-122151364-3	chr2	122151257	122151457	+	761.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009735, intron 2 of 3)	intron (NM_009735, intron 2 of 3)	3670.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	12.5	7.5	6.5	43.0	23.5	5.0	8.5	5.5
Merged-chr13-52596889-4	chr13	52596791	52596991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011518)	promoter-TSS (NM_011518)	9.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	68.0	62.0	49.0	677.0	106.5	54.5	49.0	56.0
Merged-chr12-77288703-4	chr12	77288621	77288821	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252614, intron 3 of 12)	intron (NM_001252614, intron 3 of 12)	49982.0	NR_045554	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	28.5	15.5	27.0	481.0	40.5	7.5	25.5	42.0
Merged-chr10-68134735-4	chr10	68134646	68134846	+	953.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 5 of 9)	intron (NM_023598, intron 5 of 9)	143980.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	12.0	7.5	16.0	277.0	27.0	17.5	23.5	7.5
Merged-chr15-98977503-4	chr15	98977416	98977616	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8449.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	18.5	39.0	17.5	204.5	40.5	16.0	10.5	11.0
Merged-chr12-75856551-2	chr12	75856451	75856651	+	788.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 2 of 115)	intron (NM_001005510, intron 2 of 115)	38233.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	4.5	7.5	8.5	15.0	5.0	3.0	3.0	6.5
Merged-chr10-41490406-4	chr10	41490308	41490508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009213)	promoter-TSS (NM_009213)	-31.0	NM_028430	73075.0	Mm.359762	NM_028430	ENSMUSG00000078451	Ppil6	2900084F20Rik	peptidylprolyl isomerase (cyclophilin)-like 6	protein-coding	134.0	146.0	76.5	1544.5	236.0	113.0	154.0	99.0
Merged-chr7-135602464-4	chr7	135602343	135602543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316680, intron 2 of 20)	intron (NM_001316680, intron 2 of 20)	-3385.0	NM_001316679	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	34.5	44.0	22.5	534.0	29.5	4.5	19.5	19.0
Merged-chr10-44539136-4	chr10	44538995	44539195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80347.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	42.5	83.0	50.5	442.0	93.0	46.0	32.5	38.0
Merged-chr13-33935783-5	chr13	33935709	33935909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040707)	promoter-TSS (NR_040707)	-223.0	NR_040707	68808.0	Mm.443347	NR_040707	ENSMUSG00000085457	1110046J04Rik	-	RIKEN cDNA 1110046J04 gene	ncRNA	22.5	17.5	24.5	208.0	86.0	23.5	45.5	46.0
Merged-chr7-46987111-3	chr7	46986993	46987193	+	918.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033461, intron 4 of 4)	intron (NR_033461, intron 4 of 4)	10461.0	NR_033461	629141.0	Mm.229259	NR_033461	ENSMUSG00000056509	Gm9999	-	predicted gene 9999	ncRNA	10.5	8.0	17.5	163.0	14.5	6.0	3.5	13.5
Merged-chr9-96438047-6	chr9	96437928	96438128	+	951.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40647.0	NM_011279	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	18.5	28.5	33.0	321.5	39.0	8.0	21.0	22.0
Merged-chr17-12991305-4	chr17	12991203	12991403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175394, intron 1 of 5)	intron (NM_175394, intron 1 of 5)	956.0	NM_001113533	60532.0	Mm.275521	NM_175394	ENSMUSG00000060475	Wtap	2810408K05Rik|9430038B09Rik	Wilms tumour 1-associating protein	protein-coding	20.0	48.5	31.0	548.5	84.5	32.0	52.5	55.5
Merged-chr9-20998511-4	chr9	20998364	20998564	+	956.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-4273.0	NM_023167	66163.0	Mm.427576	NM_023167	ENSMUSG00000003299	Mrpl4	1110017G11Rik	mitochondrial ribosomal protein L4	protein-coding	13.0	14.5	24.0	85.5	25.5	11.0	11.5	15.0
Merged-chr6-87810934-4	chr6	87810828	87811028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	intron (NR_104478, intron 1 of 2)	851.0	NM_001039394	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	86.5	146.5	65.5	1348.0	316.5	115.5	127.0	130.5
Merged-chr12-78861676-4	chr12	78861589	78861789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026114)	promoter-TSS (NM_026114)	-51.0	NM_023721	73834.0	Mm.311549	NM_023721	ENSMUSG00000021114	Atp6v1d	1110004P10Rik|Atp6m|VATD|Vma8	ATPase, H+ transporting, lysosomal V1 subunit D	protein-coding	172.0	310.0	216.0	2954.5	520.0	242.0	268.5	215.5
Merged-chr2-39005110-4	chr2	39004989	39005189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025592)	promoter-TSS (NM_025592)	42.0	NM_025592	66489.0	Mm.345333	NM_025592	ENSMUSG00000062997	Rpl35	2410039E09Rik	ribosomal protein L35	protein-coding	114.0	128.5	175.5	1253.5	266.0	75.0	100.0	86.5
Merged-chr1-85895698-4	chr1	85895610	85895810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022417, intron 1 of 5)	intron (NM_022417, intron 1 of 5)	1200.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	240.5	354.5	270.0	3337.5	573.0	211.5	208.0	206.5
Merged-chr17-45585031-3	chr17	45584941	45585141	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199116)	TTS (NM_001199116)	7352.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	13.0	19.0	18.5	238.5	70.5	19.5	32.0	28.5
Merged-chr15-57793182-4	chr15	57793022	57793222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 2 of 3)	intron (NM_199449, intron 2 of 3)	98455.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	19.5	42.5	31.0	591.0	95.0	33.5	37.0	38.0
Merged-chr1-139007709-4	chr1	139007617	139007817	+	743.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	30060.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	12.0	13.0	15.5	206.0	22.5	11.5	10.0	4.0
Merged-chr1-173411195-2	chr1	173411073	173411273	+	611.25	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9431.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	11.5	18.0	8.0	64.0	14.0	6.0	3.5	3.5
Merged-chr7-98838057-4	chr7	98837960	98838160	+	798.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285795)	promoter-TSS (NM_001285795)	-785.0	NM_009519	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	4.5	11.5	4.0	105.0	28.5	7.5	13.5	17.5
Merged-chr11-95712827-4	chr11	95712744	95712944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045780)	promoter-TSS (NR_045780)	-90.0	NR_045780	432396.0	Mm.426849	NR_045780	ENSMUSG00000086191	Zfp652os	1110035M17Rik	zinc finger protein 652, opposite strand	ncRNA	38.0	32.5	24.0	203.5	112.0	34.0	33.5	44.5
Merged-chr3-95662095-4	chr3	95661997	95662197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008562, exon 3 of 3)	3' UTR (NM_008562, exon 3 of 3)	3376.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	25.0	42.5	22.5	550.5	77.5	35.0	56.0	33.0
Merged-chr9-26806521-4	chr9	26806412	26806612	+	977.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310768)	promoter-TSS (NM_001310768)	-44.0	NM_153803	244757.0	Mm.293696	NM_153803	ENSMUSG00000036395	Glb1l2	-	galactosidase, beta 1-like 2	protein-coding	30.5	43.5	36.0	496.5	64.5	13.5	33.0	30.0
Merged-chr14-75057067-4	chr14	75056962	75057162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 2 of 3)	intron (NR_030568, intron 2 of 3)	41035.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	103.0	194.0	85.0	1672.0	213.0	113.0	111.0	79.0
Merged-chr5-21328752-3	chr5	21328656	21328856	+	880.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 4 of 18)	intron (NM_029195, intron 4 of 18)	-43917.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	9.0	6.5	2.0	101.5	20.5	5.5	7.0	11.0
Merged-chr7-110613784-4	chr7	110613659	110613859	+	795.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 1 of 40)	intron (NM_177324, intron 1 of 40)	1161.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	9.5	10.5	13.5	190.5	22.0	10.0	15.0	9.0
Merged-chr16-21640994-7	chr16	21640860	21641060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 46 of 46)	intron (NM_001081366, intron 46 of 46)	53705.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	34.5	51.0	47.0	898.5	73.0	38.5	42.5	39.0
Merged-chr17-47760205-4	chr17	47760108	47760308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	22277.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	55.0	54.0	86.0	1497.5	136.0	39.0	65.0	77.5
Merged-chr3-81101579-4	chr3	81101492	81101692	+	916.0125119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	B1F|SINE|Alu	65176.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	7.0	1.5	5.5	197.5	31.0	5.5	8.5	5.5
Merged-chr1-55088194-4	chr1	55088094	55088294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008303)	promoter-TSS (NM_008303)	46.0	NM_008303	15528.0	Mm.215667	NM_008303	ENSMUSG00000073676	Hspe1	10kDa|Hsp10|mt-cpn10	heat shock protein 1 (chaperonin 10)	protein-coding	252.5	463.5	249.0	3704.0	768.5	311.5	292.0	272.0
Merged-chr16-4886142-4	chr16	4886089	4886289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357061)	promoter-TSS (NM_001357061)	89.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	74.5	108.5	40.5	786.0	212.0	77.5	74.0	73.5
Merged-chr5-134233358-4	chr5	134233276	134233476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3751.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	32.5	39.5	35.5	542.0	66.5	18.5	30.5	29.0
Merged-chr4-6365939-4	chr4	6365832	6366032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	CpG	252.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	149.0	263.5	148.5	1751.5	552.5	196.5	188.5	143.5
Merged-chr15-88146268-1	chr15	88146168	88146368	+	819.25	f0_balb.idr	Intergenic	Intergenic	-168606.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	11.0	7.5	11.5	178.0	0.0	0.5	1.5	3.0
Merged-chr1-51493731-1	chr1	51493631	51493831	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-15332.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	15.5	28.0	7.0	128.0	22.5	11.0	7.0	5.5
Merged-chr3-20057759-4	chr3	20057667	20057867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009210)	promoter-TSS (NM_009210)	-44.0	NM_009210	20585.0	Mm.209650	NM_009210	ENSMUSG00000002428	Hltf	AF010600|BC057116|P113|Smarca3|Snf2l3	helicase-like transcription factor	protein-coding	151.0	178.0	112.5	2183.5	431.5	128.5	192.5	153.0
Merged-chr8-119438976-4	chr8	119438885	119439085	+	762.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027950, intron 1 of 5)	intron (NM_027950, intron 1 of 5)	1823.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	5.0	7.5	9.5	81.0	24.5	4.0	2.0	10.0
Merged-chr11-117779092-4	chr11	117778985	117779185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145439, intron 2 of 19)	intron (NM_145439, intron 2 of 19)	563.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	39.5	62.0	52.5	675.0	70.5	25.5	44.0	39.5
Merged-chr1-64121721-4	chr1	64121636	64121836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033563)	promoter-TSS (NM_033563)	-347.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	320.0	513.0	366.5	5025.5	817.0	308.5	435.0	348.5
Merged-chr12-104225109-4	chr12	104224993	104225193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009251, intron 3 of 6)	intron (NM_009251, intron 3 of 6)	10460.0	NM_001033335	238393.0	Mm.483584	NM_001033335	ENSMUSG00000066363	Serpina3f	2A1|BC049975	serine (or cysteine) peptidase inhibitor, clade A, member 3F	protein-coding	44.5	79.5	50.0	579.0	118.5	26.5	39.5	26.0
Merged-chr12-44858309-4	chr12	44858202	44858402	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 5 of 5)	intron (NM_144552, intron 5 of 5)	216181.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	13.0	18.5	25.0	484.5	47.0	18.0	41.0	22.5
Merged-chr13-33964596-4	chr13	33964458	33964658	+	974.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163241)	promoter-TSS (NM_001163241)	-101.0	NM_001163239	18105.0	Mm.264036	NM_020282	ENSMUSG00000046949	Nqo2	NMO2|Nmor2|Ox2	N-ribosyldihydronicotinamide quinone reductase 2	protein-coding	11.0	33.5	14.5	320.5	30.5	23.5	13.0	15.0
Merged-chr4-53352889-3	chr4	53352793	53352993	+	893.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12E|LTR|ERVK	-82661.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	5.0	10.5	5.5	148.5	16.5	4.5	1.0	14.0
Merged-chr1-172313206-5	chr1	172313168	172313368	+	998.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080419, intron 1 of 6)	intron (NM_080419, intron 1 of 6)	901.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	18.0	36.0	12.5	177.5	29.0	14.5	15.0	16.5
Merged-chr18-58555691-4	chr18	58555588	58555788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081072)	promoter-TSS (NM_001081072)	-552.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	50.0	93.0	64.5	983.5	81.0	32.5	36.0	42.0
Merged-chr5-92675385-4	chr5	92675306	92675506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177230)	promoter-TSS (NM_177230)	-135.0	NM_001360019	320696.0	Mm.209991	NM_177230	ENSMUSG00000050050	Ccdc158	4932413O14Rik	coiled-coil domain containing 158	protein-coding	61.0	72.5	50.0	546.5	156.0	74.5	77.5	58.5
Merged-chr16-35869322-4	chr16	35869240	35869440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039530, intron 1 of 16)	intron (NM_001039530, intron 1 of 16)	2042.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	109.5	223.5	68.0	831.5	267.0	134.0	72.0	76.5
Merged-chr1-152618073-4	chr1	152617960	152618160	+	860.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	7157.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	5.0	9.0	29.0	283.0	22.0	7.0	9.0	3.5
Merged-chr2-79757233-3	chr2	79757120	79757320	+	660.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290743, intron 3 of 4)	ORR1A4|LTR|ERVL-MaLR	49440.0	NM_001290743	75276.0	Mm.257373	NM_172420	ENSMUSG00000034683	Ppp1r1c	4930565M23Rik|4930579P15Rik	protein phosphatase 1, regulatory (inhibitor) subunit 1C	protein-coding	5.0	7.5	7.0	75.5	30.5	8.5	20.5	10.0
Merged-chr19-46987857-2	chr19	46987757	46987957	+	802.75	f0_c57.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	intron (NM_001164363, intron 1 of 17)	-18290.0	NM_001164365	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	0.0	0.5	0.0	15.0	37.5	10.5	21.0	15.0
Merged-chr4-21727000-3	chr4	21726880	21727080	+	748.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290420)	promoter-TSS (NM_001290420)	-721.0	NM_001290422	51813.0	Mm.278584	NM_016746	ENSMUSG00000028252	Ccnc	AI451004|AU020987|CG1C	cyclin C	protein-coding	11.5	14.5	11.0	63.5	26.0	1.5	5.0	8.5
Merged-chr8-122459401-2	chr8	122459301	122459501	+	836.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_013914, intron 1 of 2)	intron (NM_013914, intron 1 of 2)	1291.0	NM_013914	30927.0	Mm.103673	NM_013914	ENSMUSG00000006587	Snai3	AI643946|Smuc|Zfp293	snail family zinc finger 3	protein-coding	8.0	12.5	8.0	32.5	5.0	1.0	8.5	7.0
Merged-chr6-114742409-4	chr6	114742308	114742508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 18 of 19)	intron (NM_001253718, intron 18 of 19)	99311.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	35.0	58.0	31.5	583.0	97.0	23.5	54.5	55.0
Merged-chr13-23778482-3	chr13	23778386	23778586	+	943.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-4055.0	NM_001029935	214158.0	Mm.314151	NM_001029935	ENSMUSG00000064140	Trim38	Gm23	tripartite motif-containing 38	protein-coding	22.5	12.5	11.5	198.5	16.0	3.0	5.5	4.0
Merged-chr14-70064457-2	chr14	70064357	70064557	+	984.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12988.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	3.0	6.5	3.0	54.5	13.5	4.5	4.5	8.0
Merged-chr8-125083985-4	chr8	125083946	125084146	+	716.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 1 of 12)	intron (NM_174854, intron 1 of 12)	29851.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	3.0	3.5	5.0	54.0	19.5	6.5	5.5	6.5
Merged-chr11-50025030-4	chr11	50024941	50025141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290749)	promoter-TSS (NM_001290749)	-290.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	82.5	152.5	104.5	1139.5	209.5	89.0	78.0	99.0
Merged-chr12-75817714-3	chr12	75817601	75817801	+	985.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005510)	promoter-TSS (NM_001005510)	-617.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	1.0	30.0	7.5	55.5	33.5	15.0	8.0	5.0
Merged-chr8-24419959-3	chr8	24419870	24420070	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18976.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	21.0	24.5	19.0	301.5	37.0	20.0	14.5	23.0
Merged-chr5-113999594-4	chr5	113999502	113999702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-4133.0	NM_010018	13142.0	Mm.20115	NM_010018	ENSMUSG00000042096	Dao	AI987963|DAAO|DAMOX|Dao-1|Dao1	D-amino acid oxidase	protein-coding	70.5	82.5	62.0	1502.0	158.5	35.5	84.0	76.5
Merged-chr2-75832222-4	chr2	75832109	75832309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172666)	promoter-TSS (NM_172666)	32.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	105.0	149.0	82.0	1682.0	202.5	97.0	95.5	73.0
Merged-chr1-54250673-4	chr1	54250547	54250747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030025)	promoter-TSS (NM_030025)	-36.0	NM_030025	78016.0	Mm.67455	NM_030025	ENSMUSG00000025983	Ccdc150	4930511H11Rik	coiled-coil domain containing 150	protein-coding	120.0	172.0	142.5	2018.0	193.0	100.5	144.5	122.5
Merged-chr12-85468876-4	chr12	85468757	85468957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5033.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	189.5	262.5	181.0	2975.0	357.5	142.0	189.5	168.0
Merged-chr14-19759939-3	chr14	19759841	19760041	+	680.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008695, intron 2 of 20)	intron (NM_008695, intron 2 of 20)	8684.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	13.0	7.5	22.0	151.0	16.0	1.5	6.5	3.5
Merged-chr6-31318672-4	chr6	31318573	31318773	+	941.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040261, intron 3 of 4)	intron (NR_040261, intron 3 of 4)	80100.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	9.5	19.5	18.0	223.0	34.0	4.5	14.5	7.0
Merged-chr8-71611011-4	chr8	71610916	71611116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146211)	promoter-TSS (NM_146211)	-8.0	NM_146211	234407.0	Mm.240885	NM_146211	ENSMUSG00000034807	Colgalt1	2810024B22Rik|Glt25d1	collagen beta(1-O)galactosyltransferase 1	protein-coding	387.5	581.5	410.5	4374.0	722.0	348.5	343.5	299.0
Merged-chr17-43038912-4	chr17	43038807	43039007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 2 of 5)	intron (NM_178589, intron 2 of 5)	22352.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	68.0	91.5	70.0	1248.5	190.0	55.0	88.0	80.5
Merged-chr17-56613439-4	chr17	56613371	56613571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018730)	promoter-TSS (NM_018730)	76.0	NM_018730	54217.0	Mm.11376	NM_018730	ENSMUSG00000057863	Rpl36	-	ribosomal protein L36	protein-coding	57.0	105.5	97.5	692.5	123.5	77.5	59.5	73.5
Merged-chr1-163758015-4	chr1	163757916	163758116	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21567.0	NM_001305643	16579.0	Mm.4651	NM_010629	ENSMUSG00000026585	Kifap3	KAP-3|KAP3|SMAP	kinesin-associated protein 3	protein-coding	18.5	28.0	16.0	271.5	82.5	7.0	24.5	10.5
Merged-chr17-72798025-4	chr17	72797920	72798120	+	880.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38608.0	NM_027166	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	12.5	9.0	13.0	125.0	34.0	6.0	14.0	4.0
Merged-chr12-73901296-4	chr12	73901186	73901386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313920)	promoter-TSS (NM_001313920)	-38.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	62.0	80.5	53.5	731.5	116.0	42.0	49.0	43.0
Merged-chr10-25359803-4	chr10	25359722	25359922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358755)	promoter-TSS (NM_001358755)	24.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	134.5	205.5	113.5	1344.0	415.5	115.5	153.0	133.5
Merged-chr4-134307745-4	chr4	134307630	134307830	+	965.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7390.0	NM_001039048	433766.0	Mm.331961	NM_001039048	ENSMUSG00000028834	Trim63	MuRF1|RF1|Rnf28	tripartite motif-containing 63	protein-coding	27.5	31.5	21.0	469.0	36.5	14.0	18.0	20.0
Merged-chr5-64425038-3	chr5	64424978	64425178	+	793.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0-int|LTR|ERVL-MaLR	42864.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	6.0	4.5	6.0	96.5	10.0	4.5	5.5	5.5
Merged-chr7-18892407-4	chr7	18892322	18892522	+	821.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033314, intron 10 of 13)	CpG	7732.0	NM_009402	21946.0	Mm.21855	NM_009402	ENSMUSG00000030413	Pglyrp1	PGRP|PGRP-S|Pglyrp|Tag7|Tasg7|Tnfsf3l	peptidoglycan recognition protein 1	protein-coding	6.5	13.0	9.0	133.0	29.0	4.0	7.0	6.0
Merged-chr15-100443704-3	chr15	100443604	100443804	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	20511.0	NR_040351	432982.0	Mm.234608	NM_001034883	ENSMUSG00000087444	Gm5475	EG432982	predicted gene 5475	ncRNA	2.5	7.5	4.5	10.0	104.0	47.5	62.5	46.0
Merged-chr11-69008453-4	chr11	69008319	69008519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159519)	promoter-TSS (NM_001159519)	41.0	NM_001159519	237823.0	Mm.340288	NM_001159519	ENSMUSG00000020899	Pfas	4432409B16Rik|FGAMS|FGAR-AT|FGARAT|Gm18|PURL|Sofa	phosphoribosylformylglycinamidine synthase (FGAR amidotransferase)	protein-coding	32.0	59.5	14.0	311.5	56.0	23.0	19.5	36.0
Merged-chr3-100162450-4	chr3	100162352	100162552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175552)	promoter-TSS (NM_175552)	-11.0	NM_010269	14547.0	Mm.279228	NM_010269	ENSMUSG00000027865	Gdap2	C77050|D3Ertd801e	ganglioside-induced differentiation-associated-protein 2	protein-coding	112.0	150.5	139.5	2445.5	354.0	130.5	160.5	156.0
Merged-chr9-44235012-4	chr9	44234900	44235100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007619)	promoter-TSS (NM_007619)	-954.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	59.5	102.0	39.0	635.0	154.5	54.5	45.5	70.0
Merged-chr11-94474430-4	chr11	94474329	94474529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001112813)	promoter-TSS (NM_001112813)	-231.0	NM_001112813	12291.0	Mm.29585	NM_009783	ENSMUSG00000020866	Cacna1g	Cav3.1d|[a]1G|a1G|alpha-1G|mKIAA1123	calcium channel, voltage-dependent, T type, alpha 1G subunit	protein-coding	15.0	41.5	21.5	427.0	60.0	21.0	35.0	27.0
Merged-chr13-104287052-4	chr13	104286964	104287164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081020)	promoter-TSS (NM_001081020)	-771.0	NR_136938	108154.0	Mm.208125	NM_175496	ENSMUSG00000046169	Adamts6	A930019D11Rik|ADAM-TS6|b2b1879.1Clo|b2b2029Clo|b2b2182Clo|b2b2187.1Clo|b2b2228Clo	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	protein-coding	75.5	104.0	87.5	1572.0	261.0	70.0	110.5	133.0
Merged-chr19-32787569-4	chr19	32787457	32787657	+	972.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 2 of 8)	MTC|LTR|ERVL-MaLR	29980.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	16.0	11.5	27.5	259.5	58.0	19.5	25.5	26.5
Merged-chr13-103893225-4	chr13	103893122	103893322	+	966.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	intron (NM_001005868, intron 1 of 26)	27364.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	20.5	19.5	12.5	291.0	53.0	17.0	14.5	14.5
Merged-chr6-54780753-4	chr6	54780639	54780839	+	959.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36177.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	11.5	23.5	11.5	254.5	69.0	15.5	31.0	32.0
Merged-chr16-50763343-4	chr16	50763254	50763454	+	911.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-20055.0	NR_131006	78639.0	Mm.160109	NR_131005	ENSMUSG00000092276	1700116B05Rik	-	RIKEN cDNA 1700116B05 gene	ncRNA	12.5	17.0	9.5	207.0	55.5	5.5	18.5	5.0
Merged-chr3-154842487-3	chr3	154842411	154842611	+	851.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177066, intron 21 of 24)	intron (NM_177066, intron 21 of 24)	131378.0	NM_175176	209601.0	Mm.331454	NM_175176	ENSMUSG00000078161	Erich3	1700013E18Rik|4922501L14Rik|5031409G23Rik|AI596448|Gm133	glutamate rich 3	protein-coding	3.0	3.5	1.5	23.5	19.5	15.5	16.5	12.5
Merged-chr15-50888612-4	chr15	50888504	50888704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_035444)	TTS (NR_035444)	445.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	62.5	90.0	51.5	1066.0	157.5	49.0	68.0	53.5
Merged-chr5-108447206-4	chr5	108447110	108447310	+	968.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172883, intron 1 of 9)	intron (NM_172883, intron 1 of 9)	1890.0	NM_001359977	243197.0	Mm.106818	NM_172883	ENSMUSG00000029490	Mfsd7a	4732482E20Rik|Mfsd7|Slc49a3	major facilitator superfamily domain containing 7A	protein-coding	13.0	97.0	25.0	171.0	54.5	18.5	18.0	6.0
Merged-chr8-106153695-2	chr8	106153595	106153795	+	599.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357319, intron 1 of 5)	intron (NM_001357319, intron 1 of 5)	3341.0	NM_001357319	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	2.0	6.0	0.0	53.5	12.0	9.5	7.5	10.0
Merged-chr11-118349080-4	chr11	118348985	118349185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011594, intron 1 of 4)	intron (NM_011594, intron 1 of 4)	6326.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	44.0	42.0	35.5	807.0	75.0	18.5	34.5	44.5
Merged-chr1-171057515-4	chr1	171057419	171057619	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356511, intron 3 of 4)	intron (NM_001356511, intron 3 of 4)	1875.0	NM_001356511	14131.0	Mm.22119	NM_010188	ENSMUSG00000059498	Fcgr3	CD16	Fc receptor, IgG, low affinity III	protein-coding	47.5	45.0	44.5	829.0	102.5	16.5	50.0	39.0
Merged-chr14-31440906-4	chr14	31440784	31440984	+	922.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-4784.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	23.0	19.0	13.0	254.5	33.5	11.5	13.0	11.0
Merged-chr13-62653255-4	chr13	62653206	62653406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29124.0	NM_173381	211378.0	Mm.247448	NM_173381	ENSMUSG00000072066	6720489N17Rik	9330128I06	RIKEN cDNA 6720489N17 gene	protein-coding	47.5	78.0	73.5	1222.0	140.5	57.5	86.5	82.0
Merged-chr13-78236768-4	chr13	78236603	78236803	+	972.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045195)	TTS (NR_045195)	-37830.0	NM_010151	13865.0	Mm.439653	NM_010151	ENSMUSG00000069171	Nr2f1	COUP-TF1|COUP-TFI|COUPTFA|EAR-3|EAR3|Erbal3|SVP44|Tcfcoup1	nuclear receptor subfamily 2, group F, member 1	protein-coding	13.5	8.0	10.0	92.5	22.0	12.0	5.5	16.5
Merged-chr1-86344521-4	chr1	86344422	86344622	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010880)	TTS (NM_010880)	6763.0	NR_028478	100303740.0	Mm.154378	NR_028478	ENSMUSG00000064837	Snora75	MBI-55	small nucleolar RNA, H/ACA box 75	snoRNA	23.0	27.0	18.5	377.0	47.0	16.5	26.0	16.5
Merged-chr4-62349622-4	chr4	62349540	62349740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 2 of 27)	intron (NM_001355385, intron 2 of 27)	10956.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	69.0	120.5	62.0	1104.5	134.0	63.5	48.0	43.0
Merged-chr5-64070308-2	chr5	64070208	64070408	+	824.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22631.0	NM_025700	66681.0	Mm.2325	NM_025700	ENSMUSG00000029171	Pgm1	3230402E02Rik|Pgm-1|Pgm2	phosphoglucomutase 1	protein-coding	1.5	6.0	6.5	79.0	18.0	4.5	6.5	4.5
Merged-chr10-81551721-4	chr10	81551587	81551787	+	997.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6641.0	NM_010301	14672.0	Mm.260925	NM_010301	ENSMUSG00000034781	Gna11	Dsk7|E430025L19	guanine nucleotide binding protein, alpha 11	protein-coding	19.5	46.0	18.5	348.0	66.5	21.0	21.5	20.0
Merged-chr6-121110360-4	chr6	121110225	121110425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270475, intron 1 of 31)	intron (NM_001270475, intron 1 of 31)	20697.0	NM_001270475	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	82.5	110.5	101.5	777.5	168.5	101.0	60.5	74.0
Merged-chr10-28414209-3	chr10	28414120	28414320	+	970.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 7 of 30)	intron (NM_001359356, intron 7 of 30)	-254140.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	12.0	18.0	18.5	415.5	10.0	1.5	7.5	5.0
Merged-chr2-103971111-3	chr2	103970976	103971176	+	792.0476070000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142336, intron 2 of 3)	intron (NM_001142336, intron 2 of 3)	789.0	NM_001142335	16909.0	Mm.29266	NM_008505	ENSMUSG00000032698	Lmo2	Rbtn-2|Rbtn2|Rhom-2|Ttg2	LIM domain only 2	protein-coding	3.0	3.5	5.5	62.0	9.0	6.5	6.5	7.0
Merged-chr11-58225890-4	chr11	58225796	58225996	+	846.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10919.0	NM_019440	54396.0	Mm.458517	NM_019440	ENSMUSG00000069874	Irgm2	AI481100|GTPI|Ifggd2|Iigp2	immunity-related GTPase family M member 2	protein-coding	15.5	15.5	5.5	93.5	19.5	2.5	7.5	8.0
Merged-chr5-72511366-2	chr5	72511266	72511466	+	575.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6826.0	NM_001122756	53419.0	Mm.332425	NM_016869	ENSMUSG00000005220	Corin	AV273130|Lrp4	corin	protein-coding	5.0	2.5	13.0	62.0	15.5	6.0	5.5	16.0
Merged-chr4-97772783-4	chr4	97772653	97772853	+	958.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-4873.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	18.5	22.0	7.0	213.5	33.0	14.5	13.0	19.5
Merged-chr5-66174727-3	chr5	66174642	66174842	+	801.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040695, intron 2 of 2)	intron (NR_040695, intron 2 of 2)	16593.0	NR_040695	73639.0	Mm.48851	NR_040695	ENSMUSG00000107014	1700126H18Rik	-	RIKEN cDNA 1700126H18 gene	ncRNA	11.5	15.0	7.5	209.5	6.0	2.0	4.0	3.5
Merged-chr16-45738083-4	chr16	45737957	45738157	+	848.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073572, intron 1 of 4)	intron (NR_073572, intron 1 of 4)	4898.0	NM_001272070	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	10.5	21.5	21.0	379.0	22.5	4.0	11.0	7.5
Merged-chr17-81064435-4	chr17	81064385	81064585	+	855.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028138, intron 1 of 9)	intron (NM_028138, intron 1 of 9)	600.0	NM_028138	72167.0	Mm.273257	NM_028138	ENSMUSG00000024246	Thumpd2	2810025A12Rik	THUMP domain containing 2	protein-coding	15.0	15.0	15.0	145.5	36.5	10.5	11.0	10.5
Merged-chr1-5083170-4	chr1	5083077	5083277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310442)	promoter-TSS (NM_001310442)	91.0	NM_001310442	108664.0	Mm.27082	NM_133826	ENSMUSG00000033793	Atp6v1h	0710001F19Rik|AU022349|CGI-11|SFD|SFDalpha|SFDbeta|VMA13	ATPase, H+ transporting, lysosomal V1 subunit H	protein-coding	108.0	167.5	187.0	1881.5	208.5	92.5	112.0	132.0
Merged-chr7-16990252-3	chr7	16990174	16990374	+	827.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4314.0	NM_001101535	434130.0	Mm.459162	NM_001101535	ENSMUSG00000041117	Ccdc8	-	coiled-coil domain containing 8	protein-coding	6.0	13.5	9.0	210.5	17.0	7.5	8.5	7.5
Merged-chr19-4000274-4	chr19	4000193	4000393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025529)	promoter-TSS (NM_025529)	-287.0	NM_025529	66387.0	Mm.259222	NM_025529	ENSMUSG00000110949	Nudt8	2310039H17Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 8	protein-coding	111.5	191.0	84.0	1229.0	188.0	93.5	74.5	98.5
Merged-chr8-125783606-3	chr8	125783505	125783705	+	722.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175561, intron 25 of 33)	intron (NM_175561, intron 25 of 33)	49402.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	7.0	10.5	12.5	91.5	14.0	4.5	5.5	8.5
Merged-chr14-103898804-4	chr14	103898687	103898887	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54311.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	25.0	28.0	26.0	791.5	54.0	21.0	29.5	21.0
Merged-chr11-75178879-4	chr11	75178780	75178980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027136)	promoter-TSS (NM_027136)	-72.0	NM_027136	246257.0	Mm.41496	NM_027136	ENSMUSG00000038268	Ovca2	9030414M07Rik	candidate tumor suppressor in ovarian cancer 2	protein-coding	59.0	86.5	44.0	514.5	100.5	44.5	48.0	41.5
Merged-chr2-156720920-4	chr2	156720839	156721039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040505)	promoter-TSS (NR_040505)	-26.0	NM_001042488	228836.0	Mm.22094	NM_146128	ENSMUSG00000061689	Dlgap4	AI225853|BC024558|DAP-4|DAP4|SAPAP-4|Sapap4|WBP16	DLG associated protein 4	protein-coding	135.5	223.0	85.0	1239.5	364.0	147.0	120.0	96.5
Merged-chr18-32408042-4	chr18	32407952	32408152	+	896.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 2 of 17)	intron (NM_001360876, intron 2 of 17)	-29768.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	11.5	4.5	10.0	116.5	26.5	9.0	18.0	13.5
Merged-chr1-151345257-4	chr1	151345155	151345355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039511, intron 1 of 7)	CpG	757.0	NM_001039511	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	48.0	66.0	44.5	618.5	101.0	37.5	57.0	32.5
Merged-chr4-34550448-4	chr4	34550330	34550530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007589)	promoter-TSS (NM_001007589)	-185.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	277.0	426.5	353.0	5510.0	818.5	277.5	387.5	324.5
Merged-chr11-54630323-5	chr11	54630205	54630405	+	922.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252494, intron 11 of 28)	(TG)n|Simple_repeat|Simple_repeat	34159.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	9.0	10.0	4.0	90.0	13.0	7.5	7.5	16.5
Merged-chr1-172470194-3	chr1	172470088	172470288	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-5172.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	0.5	0.0	1.0	0.0	84.0	44.0	46.5	48.0
Merged-chr4-150523558-2	chr4	150523447	150523647	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 10 of 22)	intron (NM_001085492, intron 10 of 22)	128627.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	7.5	8.5	5.0	66.0	6.0	0.0	4.5	0.5
Merged-chr10-8974164-4	chr10	8974077	8974277	+	839.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-88107.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	10.5	9.5	5.5	163.0	32.0	7.5	14.5	11.0
Merged-chr7-118243239-2	chr7	118243139	118243339	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027879)	promoter-TSS (NR_027879)	398.0	NM_001031814	233789.0	Mm.309053	NM_177180	ENSMUSG00000030655	Smg1	2610207I05Rik|5430435M13Rik|C130002K18Rik|mKIAA0421	SMG1 homolog, phosphatidylinositol 3-kinase-related kinase (C. elegans)	protein-coding	40.5	94.0	94.5	685.5	106.0	51.0	56.5	58.5
Merged-chr14-70022401-4	chr14	70022307	70022507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 4 of 6)	intron (NM_028560, intron 4 of 6)	-55038.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	38.0	61.0	56.0	569.0	82.5	27.0	35.5	39.0
Merged-chr16-91731269-4	chr16	91731168	91731368	+	886.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	1897.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	23.5	13.0	28.0	464.5	35.0	3.5	17.0	28.5
Merged-chr11-16978149-2	chr11	16978049	16978249	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 9 of 9)	intron (NM_019549, intron 9 of 9)	26739.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	8.5	9.5	10.5	341.5	18.0	9.5	11.0	4.0
Merged-chr10-123085491-4	chr10	123085386	123085586	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8981.0	NM_001163025	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	28.0	22.0	47.0	577.0	32.0	3.0	24.5	16.0
Merged-chr9-66856753-4	chr9	66856687	66856887	+	740.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 3 of 7)	B1_Mur1|SINE|Alu	-22081.0	NM_026674	68318.0	Mm.284229	NM_026674	ENSMUSG00000053040	Aph1c	0610008A10Rik|APH-1b|Aph1b	aph1 homolog C, gamma secretase subunit	protein-coding	7.0	4.5	4.5	103.5	16.0	1.5	9.0	3.5
Merged-chr3-88144729-4	chr3	88144681	88144881	+	843.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310593, intron 1 of 10)	intron (NM_001310593, intron 1 of 10)	2409.0	NM_133665	17261.0	Mm.28184	NM_133665	ENSMUSG00000001419	Mef2d	C80750	myocyte enhancer factor 2D	protein-coding	5.5	22.5	5.0	61.0	22.0	9.0	4.0	10.0
Merged-chr1-105996274-4	chr1	105996203	105996403	+	831.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	5897.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	10.5	18.5	15.5	86.0	30.0	6.5	8.5	3.0
Merged-chr4-107923625-4	chr4	107923501	107923701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009949)	promoter-TSS (NM_009949)	-12.0	NM_009949	12896.0	Mm.307620	NM_009949	ENSMUSG00000028607	Cpt2	AI323697|CPTII	carnitine palmitoyltransferase 2	protein-coding	243.5	372.5	204.5	2632.0	448.0	191.0	238.0	160.0
Merged-chr2-18064577-4	chr2	18064485	18064685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045539)	promoter-TSS (NR_045539)	0.0	NM_001252560	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	89.0	128.0	90.5	1590.5	246.5	98.0	141.5	110.5
Merged-chr12-69513386-4	chr12	69513270	69513470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37820.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	25.5	55.0	29.0	483.0	119.0	26.5	33.5	41.0
Merged-chr11-51821002-4	chr11	51820886	51821086	+	844.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 11 of 12)	intron (NM_001357588, intron 11 of 12)	36495.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	11.5	11.5	6.5	164.0	29.5	8.0	4.0	6.0
Merged-chr5-149692663-3	chr5	149692546	149692746	+	992.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081204, intron 1 of 14)	intron (NM_001081204, intron 1 of 14)	14389.0	NM_001081204	381694.0	Mm.45060	NM_001081204	ENSMUSG00000051950	B3glct	B3galtl|Gm1057	beta-3-glucosyltransferase	protein-coding	15.5	27.0	21.0	270.5	0.0	2.0	0.0	0.0
Merged-chr2-160627362-4	chr2	160627359	160627559	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18438.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	17.5	17.0	23.0	244.5	26.5	13.5	12.0	14.5
Merged-chr13-31801403-4	chr13	31801300	31801500	+	772.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5246.0	NM_008592	17300.0	Mm.12949	NM_008592	ENSMUSG00000050295	Foxc1	FREAC3|Fkh1|Mf1|Mf4|ch|fkh-1|frkhda	forkhead box C1	protein-coding	10.0	13.5	10.0	136.5	19.0	4.5	11.0	9.0
Merged-chr4-108579342-4	chr4	108579252	108579452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172697)	promoter-TSS (NM_172697)	-16.0	NM_172697	230596.0	Mm.157534	NM_172697	ENSMUSG00000063800	Prpf38a	2410002M20Rik	PRP38 pre-mRNA processing factor 38 (yeast) domain containing A	protein-coding	131.5	232.0	95.0	1568.5	328.5	133.5	139.5	127.0
Merged-chr18-25548585-4	chr18	25548465	25548665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 2 of 12)	intron (NM_001362322, intron 2 of 12)	131183.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	30.0	40.5	38.5	580.5	78.5	30.5	32.5	36.0
Merged-chr13-74640079-6	chr13	74639975	74640175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030711, intron 1 of 18)	CpG	222.0	NM_030711	80898.0	Mm.83526	NM_030711	ENSMUSG00000021583	Erap1	A-LAP|ARTS-1|Arts1|ERAAP|PILSA|PILSAP	endoplasmic reticulum aminopeptidase 1	protein-coding	68.5	81.0	115.5	1000.0	126.5	77.5	59.0	72.0
Merged-chr18-69585403-3	chr18	69585300	69585500	+	892.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	239240.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	6.5	6.5	7.0	183.5	13.0	8.0	12.5	14.5
Merged-chr6-113680198-4	chr6	113680122	113680322	+	975.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 8 of 11)	intron (NM_001113553, intron 8 of 11)	-16828.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	27.5	49.0	86.0	1740.5	57.5	12.0	38.0	21.5
Merged-chr11-97041518-4	chr11	97041432	97041632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357808)	promoter-TSS (NM_001357808)	-28.0	NM_001357807	107732.0	Mm.208946	NM_026154	ENSMUSG00000001445	Mrpl10	0610040E02Rik|C78440|MRP-L8|Rpml8	mitochondrial ribosomal protein L10	protein-coding	56.0	102.0	42.5	575.5	180.5	56.5	35.0	57.5
Merged-chr10-117081954-4	chr10	117081820	117082020	+	741.674988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 5 of 9)	B1_Mm|SINE|Alu	-18068.0	NM_007636	12461.0	Mm.247788	NM_007636	ENSMUSG00000034024	Cct2	Cctb	chaperonin containing Tcp1, subunit 2 (beta)	protein-coding	13.5	10.0	7.0	75.0	25.0	7.0	9.0	11.5
Merged-chr3-84843800-3	chr3	84843699	84843899	+	692.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177773, intron 1 of 13)	intron (NM_001177773, intron 1 of 13)	-20346.0	NM_001177774	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	11.5	2.5	3.0	139.0	12.5	8.5	6.5	11.0
Merged-chr4-135433869-4	chr4	135433787	135433987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022980)	promoter-TSS (NM_022980)	-82.0	NM_022980	53902.0	Mm.331970	NM_022980	ENSMUSG00000059713	Rcan3	AU041093|Csp3|Dscr1l2	regulator of calcineurin 3	protein-coding	87.5	141.5	75.5	1116.0	225.5	61.5	86.5	110.5
Merged-chr19-36822663-4	chr19	36822566	36822766	+	849.029175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A1|LTR|ERVL-MaLR	-11566.0	NM_001163635	74493.0	Mm.249310	NM_001163635	ENSMUSG00000024811	Tnks2	5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2	protein-coding	8.0	22.5	20.0	151.5	20.0	9.0	17.5	11.0
Merged-chr10-117412840-4	chr10	117412748	117412948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	34587.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	73.5	108.5	73.0	1170.0	245.0	71.5	110.5	88.5
Merged-chr16-94236917-4	chr16	94236824	94237024	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	intron (NM_001360045, intron 5 of 10)	53367.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	60.0	40.0	7.5	392.5	76.5	30.5	27.5	25.0
Merged-chr6-129423880-4	chr6	129423778	129423978	+	956.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172732, exon 6 of 6)	3' UTR (NM_172732, exon 6 of 6)	15016.0	NM_001205364	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	15.5	28.5	10.0	264.0	52.0	21.0	18.5	28.0
Merged-chr2-32757156-4	chr2	32757038	32757238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045485)	promoter-TSS (NR_045485)	-96.0	NR_045485	30933.0	Mm.200695	NM_152800	ENSMUSG00000009563	Tor2a	Prosalusin	torsin family 2, member A	protein-coding	111.0	207.5	85.5	1298.5	375.5	152.5	134.5	114.0
Merged-chr12-40681315-4	chr12	40681201	40681401	+	956.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 12 of 52)	intron (NM_172803, intron 12 of 52)	235248.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	15.5	23.5	12.0	271.0	41.0	16.5	12.0	8.0
Merged-chr14-106668377-4	chr14	106668276	106668476	+	919.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-181856.0	NR_045938	73631.0	Mm.48862	NR_045938	ENSMUSG00000099794	1700128A07Rik	-	RIKEN cDNA 1700128A07 gene	ncRNA	17.0	19.0	20.5	219.0	48.0	10.0	13.0	15.5
Merged-chr13-37515134-2	chr13	37515035	37515235	+	902.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57C2|LTR|ERV1	169790.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	7.0	3.0	5.0	104.5	18.0	5.0	21.5	8.5
Merged-chr14-61309778-4	chr14	61309684	61309884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177337)	promoter-TSS (NM_177337)	31.0	NM_177337	219144.0	Mm.206566	NM_177337	ENSMUSG00000043157	Arl11	ARLTS1|C730007L20Rik	ADP-ribosylation factor-like 11	protein-coding	90.5	154.0	77.5	1156.5	182.5	69.0	81.5	63.0
Merged-chr19-58980009-4	chr19	58979906	58980106	+	921.271423	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175172, intron 14 of 14)	intron (NM_175172, intron 14 of 14)	-36334.0	NM_001327998	73442.0	Mm.39739	NM_175199	ENSMUSG00000025092	Hspa12a	1700063D12Rik|AI118035|AI840429|AW048913|AW556406|D5Mgi40|Gm19925|mKIAA0417	heat shock protein 12A	protein-coding	14.0	18.5	13.0	117.5	30.5	9.5	10.0	12.0
Merged-chr17-78402068-4	chr17	78401967	78402167	+	878.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360407, intron 4 of 9)	intron (NM_001360407, intron 4 of 9)	16085.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	12.0	17.5	19.0	324.0	20.5	10.0	15.5	3.5
Merged-chr19-32646177-4	chr19	32646072	32646272	+	749.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360403, intron 7 of 11)	intron (NM_001360403, intron 7 of 11)	26167.0	NM_011864	23972.0	Mm.203916	NM_011864	ENSMUSG00000024899	Papss2	1810018P12Rik|AI159688|AtpsU2|Atpsk2|Sk2|bm	3'-phosphoadenosine 5'-phosphosulfate synthase 2	protein-coding	10.0	16.0	13.0	334.5	18.5	8.0	6.5	11.5
Merged-chr2-104494277-2	chr2	104494177	104494377	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001145824, exon 1 of 16)	5' UTR (NM_001145824, exon 1 of 16)	212.0	NM_010434	15259.0	Mm.257925	NM_010434	ENSMUSG00000027177	Hipk3	DYRK6|FIST3|PKY|mir-1902	homeodomain interacting protein kinase 3	protein-coding	23.0	44.5	35.0	515.0	73.5	36.5	27.0	39.5
Merged-chr2-4919012-4	chr2	4918902	4919102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010726)	promoter-TSS (NM_010726)	6.0	NM_010726	16922.0	Mm.391704	NM_010726	ENSMUSG00000026664	Phyh	AI256161|AI265699|Lnap1|PAHX	phytanoyl-CoA hydroxylase	protein-coding	51.5	89.5	55.5	790.5	102.5	48.0	71.0	49.5
Merged-chr12-8327007-4	chr12	8326892	8327092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021429, intron 4 of 6)	intron (NM_021429, intron 4 of 6)	13559.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	7.5	43.5	27.5	379.5	45.5	16.0	37.5	15.0
Merged-chr10-77253011-3	chr10	77252911	77253111	+	965.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6212.0	NR_026944	100169878.0	Mm.420901	NR_026944	ENSMUSG00000078444	Gm10941	-	predicted gene 10941	ncRNA	13.0	17.0	6.5	168.0	22.0	11.5	9.0	7.5
Merged-chr18-58160709-4	chr18	58160624	58160824	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010181, intron 5 of 64)	intron (NM_010181, intron 5 of 64)	49202.0	NM_010181	14119.0	Mm.20271	NM_010181	ENSMUSG00000024598	Fbn2	BC063774|Fib-2|mKIAA4226|sne|sy	fibrillin 2	protein-coding	18.5	37.0	19.0	292.0	30.5	5.0	13.0	14.0
Merged-chr18-75506139-2	chr18	75506037	75506237	+	715.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 9 of 11)	intron (NM_201354, intron 9 of 11)	-8508.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	7.5	5.0	12.0	50.0	16.5	4.5	5.5	8.0
Merged-chr4-95050104-4	chr4	95050010	95050210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010591, exon 1 of 1)	3' UTR (NM_010591, exon 1 of 1)	2112.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	59.0	77.0	47.5	979.0	138.5	48.5	107.5	61.5
Merged-chr18-23873366-4	chr18	23873272	23873472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 5 of 7)	intron (NM_001162941, intron 5 of 7)	69402.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	57.5	52.0	93.0	1046.5	123.0	47.5	42.5	58.0
Merged-chr2-25272444-4	chr2	25272342	25272542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023464)	promoter-TSS (NM_023464)	-24.0	NM_023464	68475.0	Mm.21444	NM_023464	ENSMUSG00000026966	Ssna1	1110003H09Rik|1190004J23Rik|AA934184|N14|NA14	SS nuclear autoantigen 1	protein-coding	116.0	144.5	80.5	1189.0	345.5	95.5	97.0	116.5
Merged-chr12-113216097-3	chr12	113215983	113216183	+	717.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30180.0	NM_153776	69195.0	Mm.313244	NM_153776	ENSMUSG00000049036	Tmem121	2410008J05Rik|Hole	transmembrane protein 121	protein-coding	13.5	24.5	14.5	272.5	14.5	8.0	10.5	4.5
Merged-chr1-166793280-3	chr1	166793178	166793378	+	577.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-111433.0	NM_001347135	240894.0	Mm.246610	NM_172844	ENSMUSG00000026560	Fmo9	4831428F09Rik	flavin containing monooxygenase 9	protein-coding	8.5	7.5	4.5	132.0	4.5	1.5	5.0	5.5
Merged-chr4-83266151-4	chr4	83266051	83266251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 3 of 19)	intron (NM_027238, intron 3 of 19)	58038.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	89.0	107.0	63.0	1240.5	232.5	54.0	94.5	36.0
Merged-chr2-45104025-2	chr2	45103925	45104125	+	918.666626	f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	(GA)n|Simple_repeat|Simple_repeat	6252.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	4.5	8.5	5.0	8.0	10.0	2.5	2.0	3.0
Merged-chr13-96670956-4	chr13	96670871	96671071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008255)	promoter-TSS (NM_008255)	-35.0	NM_008255	15357.0	Mm.316652	NM_008255	ENSMUSG00000021670	Hmgcr	HMG-CoAR|Red	3-hydroxy-3-methylglutaryl-Coenzyme A reductase	protein-coding	350.5	468.0	356.5	5659.0	809.5	332.0	470.5	316.5
Merged-chr1-171607353-4	chr1	171607255	171607455	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102726)	promoter-TSS (NR_102726)	-21.0	NR_102726	17085.0	Mm.560	NM_008534	ENSMUSG00000004707	Ly9	AI893573|CD229|Lgp100|Ly-9|SLAMF3|T100	lymphocyte antigen 9	protein-coding	22.5	19.0	18.5	201.0	58.5	29.0	16.0	15.5
Merged-chr13-58273911-7	chr13	58273789	58273989	+	874.738098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019832, intron 1 of 11)	CpG	299.0	NM_019832	56278.0	Mm.296625	NM_019832	ENSMUSG00000021552	Gkap1	42kDa|4933400B15Rik|D13Ertd340e|Gkap42	G kinase anchoring protein 1	protein-coding	8.0	8.5	6.5	109.0	7.0	8.5	10.5	15.5
Merged-chr4-62519072-2	chr4	62518972	62519172	+	863.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008525, intron 1 of 11)	intron (NM_008525, intron 1 of 11)	837.0	NM_001276446	17025.0	Mm.6988	NM_008525	ENSMUSG00000028393	Alad	ALADH|Lv	aminolevulinate, delta-, dehydratase	protein-coding	9.5	9.0	5.5	50.0	0.5	1.5	1.0	3.0
Merged-chr1-138134421-3	chr1	138134312	138134512	+	854.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	40714.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	10.0	8.5	8.0	146.0	17.5	10.5	3.0	9.0
Merged-chr14-77848583-3	chr14	77848484	77848684	+	739.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 3 of 5)	ORR1B2|LTR|ERVL-MaLR	26333.0	NM_025384	66148.0	Mm.248046	NM_025384	ENSMUSG00000022013	Dnajc15	1110003P16Rik|Dnajd1	DnaJ heat shock protein family (Hsp40) member C15	protein-coding	4.0	7.5	5.0	48.5	25.0	10.0	22.5	6.5
Merged-chr10-121459270-4	chr10	121459184	121459384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	16966.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	40.0	46.0	34.5	638.0	71.5	23.5	34.0	43.5
Merged-chr11-80043064-4	chr11	80043028	80043228	+	772.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	37863.0	NM_001277106	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	11.5	13.0	5.0	37.0	35.0	12.0	8.5	8.0
Merged-chr7-92653517-4	chr7	92653415	92653615	+	961.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029078, intron 8 of 15)	B1_Mus1|SINE|Alu	-16373.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	14.0	31.5	16.5	302.5	55.5	19.0	18.0	13.0
Merged-chr19-59072048-4	chr19	59071945	59072145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 1 of 16)	intron (NM_001114312, intron 1 of 16)	4024.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	65.0	63.0	36.5	691.5	123.0	47.5	28.0	28.0
Merged-chr16-10993162-4	chr16	10993056	10993256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019980)	promoter-TSS (NM_019980)	-35.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	197.5	319.5	269.5	2947.0	578.0	204.5	315.0	231.5
Merged-chr7-141467787-4	chr7	141467694	141467894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111050)	promoter-TSS (NM_001111050)	-23.0	NR_152219	100126795.0	Mm.386851	NR_152219	ENSMUSG00000073787	Gm10575	-	predicted gene 10575	ncRNA	67.0	86.5	34.0	632.0	120.5	34.5	40.0	36.5
Merged-chr2-167631293-4	chr2	167631264	167631464	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311131, intron 1 of 4)	CpG	641.0	NM_001311146	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	8.0	7.5	14.5	96.5	32.0	5.0	15.0	28.0
Merged-chr7-105766871-2	chr7	105766771	105766971	+	974.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001162943, intron 2 of 20)	Tigger17a|DNA|TcMar-Tigger	-14636.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	7.5	6.5	4.5	60.0	9.5	9.0	6.5	6.0
Merged-chr4-115850160-4	chr4	115850059	115850259	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355174, intron 2 of 11)	intron (NM_001355174, intron 2 of 11)	10961.0	NM_001355174	17346.0	Mm.209327	NM_021461	ENSMUSG00000028708	Mknk1	2410048M24Rik|Mnk1	MAP kinase-interacting serine/threonine kinase 1	protein-coding	33.0	16.0	16.5	451.5	44.0	16.0	17.0	24.0
Merged-chr3-127792362-4	chr3	127792259	127792459	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356430, intron 2 of 2)	intron (NM_001356430, intron 2 of 2)	1702.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	21.0	15.0	10.5	228.0	44.0	10.5	8.0	9.0
Merged-chr4-83266572-4	chr4	83266486	83266686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 3 of 19)	B4|SINE|B4	57603.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	50.5	60.0	40.0	686.5	112.0	32.5	39.0	39.5
Merged-chr5-105292423-3	chr5	105292322	105292522	+	750.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194336, intron 1 of 10)	intron (NM_194336, intron 1 of 10)	1277.0	NM_194336	100702.0	Mm.491210	NM_194336	ENSMUSG00000104713	Gbp6	AI595338|Mpa2l	guanylate binding protein 6	protein-coding	6.0	7.5	10.0	93.0	35.0	3.5	4.5	5.0
Merged-chr5-23616144-3	chr5	23616039	23616239	+	790.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152854, intron 2 of 14)	intron (NR_152854, intron 2 of 14)	432.0	NM_001359175	20817.0	Mm.288728	NM_009274	ENSMUSG00000062604	Srpk2	AW226533|AW492537|AW547358|Wbp6|mSRPK2	serine/arginine-rich protein specific kinase 2	protein-coding	7.0	5.5	5.5	77.0	19.5	3.0	4.0	8.0
Merged-chr3-127492811-3	chr3	127492681	127492881	+	847.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	MLT1G1|LTR|ERVL-MaLR	6334.0	NM_001327938	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	0.0	2.0	5.5	68.0	20.0	22.5	18.0
Merged-chr8-120668222-4	chr8	120668135	120668335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293559)	promoter-TSS (NM_001293559)	10.0	NM_009941	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	145.0	167.5	96.5	1421.0	391.0	187.0	169.5	156.5
Merged-chr5-114461426-2	chr5	114461326	114461526	+	772.333374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_023556)	TTS (NM_023556)	17157.0	NM_023556	17855.0	Mm.28088	NM_023556	ENSMUSG00000041939	Mvk	2310010A05Rik|AI256848|AI414037|MK	mevalonate kinase	protein-coding	4.5	9.5	4.0	64.5	10.0	15.0	10.5	10.0
Merged-chr5-117313602-4	chr5	117313506	117313706	+	766.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5660.0	NM_001033311	231668.0	Mm.298603	NM_001033311	ENSMUSG00000066894	Vsig10	-	V-set and immunoglobulin domain containing 10	protein-coding	9.0	11.5	7.5	182.0	26.0	14.5	10.5	8.5
Merged-chr11-43682556-4	chr11	43682480	43682680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164231, exon 1 of 4)	exon (NM_001164231, exon 1 of 4)	582.0	NM_001164231	70802.0	Mm.397449	NM_027557	ENSMUSG00000044950	Pwwp2a	4631424J17Rik|AI891583|AU024105|D930040F23Rik	PWWP domain containing 2A	protein-coding	23.0	22.0	42.5	416.0	44.0	34.0	37.5	30.5
Merged-chr5-140830606-4	chr5	140830510	140830710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010302)	promoter-TSS (NM_010302)	-179.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	283.5	500.5	260.5	3623.0	640.5	271.5	273.5	262.5
Merged-chr13-81760557-3	chr13	81760469	81760669	+	862.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22678.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	5.0	11.0	7.5	72.5	8.5	7.0	8.0	5.5
Merged-chr6-90575595-4	chr6	90575521	90575721	+	888.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356412, intron 12 of 22)	intron (NM_001356412, intron 12 of 22)	24828.0	NM_027406	107747.0	Mm.30035	NM_027406	ENSMUSG00000030088	Aldh1l1	1810048F20Rik|FDH|Fthfd|Neut2	aldehyde dehydrogenase 1 family, member L1	protein-coding	5.0	13.0	9.5	158.0	23.5	8.5	3.0	11.0
Merged-chr6-38346018-4	chr6	38345892	38346092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	intron (NM_028864, intron 1 of 8)	8611.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	42.5	108.0	29.0	532.0	129.5	48.0	40.5	33.5
Merged-chr10-68541860-4	chr10	68541782	68541982	+	884.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028491)	promoter-TSS (NM_028491)	-7.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	16.0	10.0	24.5	273.5	22.5	10.0	20.0	15.5
Merged-chr1-84407093-4	chr1	84406982	84407182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 9 of 12)	intron (NM_152915, intron 9 of 12)	-122437.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	150.0	155.0	107.0	1837.0	257.5	128.5	137.5	99.0
Merged-chr8-117263566-2	chr8	117263466	117263666	+	887.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	6547.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	5.5	5.5	6.0	33.5	9.0	4.5	4.0	2.0
Merged-chr15-7942791-2	chr15	7942691	7942891	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081402, intron 10 of 17)	MusHAL1|LINE|L1	127241.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	6.0	8.5	11.5	46.5	16.0	2.0	6.0	4.0
Merged-chr13-56354020-1	chr13	56353920	56354120	+	784.5	f0_balb.idr	Intergenic	Intergenic	-8880.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	7.0	7.0	19.0	225.0	2.0	5.0	0.5	7.0
Merged-chr9-106308763-4	chr9	106308646	106308846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 9 of 10)	intron (NM_027354, intron 9 of 10)	27685.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	44.0	30.5	30.5	426.0	115.5	54.5	52.5	50.5
Merged-chr2-26930603-4	chr2	26930517	26930717	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011512, intron 1 of 5)	intron (NM_011512, intron 1 of 5)	2894.0	NM_011512	20932.0	Mm.300594	NM_011512	ENSMUSG00000014867	Surf4	AL033340|AL033373|Surf-4	surfeit gene 4	protein-coding	23.5	37.0	16.0	267.5	63.5	23.0	24.5	14.5
Merged-chr6-50132846-3	chr6	50132744	50132944	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 1 of 13)	intron (NM_001361248, intron 1 of 13)	21984.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	24.0	40.0	38.5	543.5	40.0	7.5	10.5	11.0
Merged-chr15-84995284-4	chr15	84995168	84995368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7297.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	74.0	87.0	58.5	991.5	163.0	52.5	66.0	97.5
Merged-chr12-26366117-3	chr12	26365999	26366199	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130981, intron 3 of 4)	intron (NR_130981, intron 3 of 4)	19389.0	NR_130981	75243.0	Mm.444753	NR_130981	ENSMUSG00000114048	4930549C15Rik	-	RIKEN cDNA 4930549C15 gene	ncRNA	8.5	15.5	12.5	150.5	7.0	1.5	2.0	4.0
Merged-chr9-63803237-4	chr9	63803134	63803334	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45240.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	33.5	63.0	26.0	228.0	55.5	16.5	13.0	6.5
Merged-chr6-86586192-4	chr6	86586153	86586353	+	810.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41921.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	10.0	15.5	16.0	74.5	22.5	8.0	7.0	6.0
Merged-chr5-122284351-4	chr5	122284259	122284459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177242)	promoter-TSS (NM_177242)	-39.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	53.5	79.5	42.5	814.0	141.5	70.0	70.0	58.0
Merged-chr15-79328287-4	chr15	79328205	79328405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199024)	promoter-TSS (NM_001199024)	66.0	NM_016915	53357.0	Mm.155620	NM_016915	ENSMUSG00000042632	Pla2g6	BB112799|PNPLA9|iPLA(2)beta|iPLA2|iPLA2beta	phospholipase A2, group VI	protein-coding	277.0	464.5	214.5	3147.0	666.0	253.5	270.5	232.5
Merged-chr4-8290087-2	chr4	8289987	8290187	+	556.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51046.0	NM_007592	12319.0	Mm.119320	NM_007592	ENSMUSG00000041261	Car8	AW546993|Ca8|Cals|Cals1|Carp|wdl	carbonic anhydrase 8	protein-coding	10.5	7.0	15.0	18.0	16.5	4.5	9.5	5.0
Merged-chr10-8535649-4	chr10	8535560	8535760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16835.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	38.0	65.5	23.5	606.5	67.0	15.0	29.0	27.5
Merged-chr16-30550545-4	chr16	30550444	30550644	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172614)	promoter-TSS (NM_172614)	34.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	21.5	35.5	35.5	382.5	47.0	18.5	16.0	27.5
Merged-chr15-101053199-2	chr15	101053099	101053299	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001214911, exon 1 of 1)	exon (NM_001214911, exon 1 of 1)	1200.0	NM_001214911	668225.0	Mm.385011	NM_001214911	ENSMUSG00000095440	Fignl2	EG668225	fidgetin-like 2	protein-coding	3.5	5.0	5.5	63.0	8.0	5.0	7.5	6.5
Merged-chr13-3665548-4	chr13	3665453	3665653	+	954.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31521.0	NM_001267724	142688.0	Mm.253061	NM_178283	ENSMUSG00000033781	Asb13	2210015B19Rik|6430573K02Rik|Asb-13|C85285	ankyrin repeat and SOCS box-containing 13	protein-coding	18.5	23.0	17.5	294.5	31.0	16.5	20.5	14.0
Merged-chr5-134704363-3	chr5	134704251	134704451	+	812.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007925, intron 36 of 36)	intron (NM_007925, intron 36 of 36)	-15761.0	NM_010717	16885.0	Mm.15409	NM_010717	ENSMUSG00000029674	Limk1	KIZ-1|LIMK-1|Limk	LIM-domain containing, protein kinase	protein-coding	4.0	14.5	6.0	93.0	19.0	6.0	4.5	9.0
Merged-chr13-107756482-4	chr13	107756397	107756597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 5 of 14)	intron (NM_145456, intron 5 of 14)	69100.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	142.5	197.5	249.5	3078.0	253.5	117.5	141.5	107.5
Merged-chr9-57854468-4	chr9	57854371	57854571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20237.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	33.0	34.5	28.5	339.0	84.0	26.5	23.5	24.0
Merged-chr4-129623938-4	chr4	129623849	129624049	+	955.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025455)	promoter-TSS (NM_025455)	-41.0	NM_025455	66264.0	Mm.383215	NM_025455	ENSMUSG00000028795	Ccdc28b	1110002E08Rik|1810010N17Rik	coiled coil domain containing 28B	protein-coding	20.0	18.0	18.0	288.0	36.0	10.5	26.0	20.0
Merged-chr5-110449309-4	chr5	110449198	110449398	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142642)	promoter-TSS (NM_001142642)	-795.0	NM_001142642	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	16.0	17.5	14.5	261.0	38.5	25.0	13.0	16.5
Merged-chr9-44479821-4	chr9	44479726	44479926	+	862.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2999.0	NM_001357490	80288.0	Mm.370270	NM_030256	ENSMUSG00000063382	Bcl9l	B9L|BC003321|BCL9-2|DLNB11	B cell CLL/lymphoma 9-like	protein-coding	9.5	17.5	3.5	94.0	36.0	20.5	15.0	10.5
Merged-chr4-138012291-2	chr4	138012169	138012369	+	976.25	f0_balb.idr|f1_balb.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	14444.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	19.5	21.5	24.5	611.0	1.0	0.0	2.0	1.0
Merged-chr15-74921475-3	chr15	74921401	74921601	+	810.444458	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33550.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	6.0	5.0	0.5	74.0	17.5	6.5	6.0	4.5
Merged-chr17-87378523-3	chr17	87378431	87378631	+	847.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 19 of 19)	intron (NM_028639, intron 19 of 19)	49210.0	NM_029298	75467.0	Mm.50108	NM_029298	ENSMUSG00000036557	Stpg4	1700011E24Rik|GSE	sperm tail PG rich repeat containing 4	protein-coding	9.5	6.0	14.0	155.0	9.0	3.0	4.5	19.5
Merged-chr11-70786096-4	chr11	70786011	70786211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21664.0	NM_177565	193043.0	Mm.40966	NM_177565	ENSMUSG00000043602	Zfp3	AI854635|B230309J24|Fnp-1|Zfp-3	zinc finger protein 3	protein-coding	77.0	123.5	38.5	884.5	170.0	73.0	71.5	59.5
Merged-chr1-120093719-4	chr1	120093621	120093821	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19941.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	16.5	17.0	10.0	264.0	65.0	28.5	34.0	44.5
Merged-chr11-59230477-4	chr11	59230362	59230562	+	902.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2195.0	NM_007476	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	17.5	21.5	17.0	144.0	25.0	15.5	7.0	7.5
Merged-chr12-8313405-4	chr12	8313294	8313494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021429)	promoter-TSS (NM_021429)	-39.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	55.0	112.5	62.5	872.5	174.0	78.0	85.5	63.0
Merged-chr4-102609855-3	chr4	102609767	102609967	+	788.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	20024.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	17.5	14.0	9.0	49.5	11.5	2.5	3.5	3.0
Merged-chr11-35694897-4	chr11	35694795	35694995	+	907.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011412, intron 32 of 35)	ORR1G|LTR|ERVL-MaLR	-74600.0	NM_145962	211347.0	Mm.255044	NM_145962	ENSMUSG00000018846	Pank3	-	pantothenate kinase 3	protein-coding	10.0	6.0	14.0	200.0	59.0	16.0	33.0	23.5
Merged-chr11-32643685-2	chr11	32643585	32643785	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	1130.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	1.5	11.0	21.0	53.0	14.0	7.0	6.0	15.0
Merged-chr14-70994539-4	chr14	70994425	70994625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104418.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	37.0	64.5	59.5	489.0	47.0	25.0	28.0	21.0
Merged-chr8-125531844-4	chr8	125531739	125531939	+	928.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 1 of 21)	ORR1E|LTR|ERVL-MaLR	38024.0	NM_001357372	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	15.0	32.5	16.5	265.5	30.0	15.0	13.0	11.5
Merged-chr11-71251506-3	chr11	71251420	71251620	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027858, intron 8 of 12)	RMER21A|LTR|ERV1	-20787.0	NM_001040696	637515.0	Mm.390402	NM_001039680	ENSMUSG00000070390	Nlrp1b	Nalp1b	NLR family, pyrin domain containing 1B	protein-coding	0.0	0.0	0.0	0.0	384.0	165.5	195.5	166.5
Merged-chr19-5841705-6	chr19	5841627	5841827	+	959.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_003513)	TTS (NR_003513)	3751.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	9.0	19.5	18.5	94.0	23.5	17.0	19.5	10.5
Merged-chr4-44169327-4	chr4	44169216	44169416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1033.0	NM_001038993	73469.0	Mm.262859	NM_175201	ENSMUSG00000035696	Rnf38	1700065B19Rik|2610202O07Rik|AA673263|Oip1	ring finger protein 38	protein-coding	62.0	60.0	33.0	904.0	114.5	38.0	44.5	54.5
Merged-chr7-27526677-4	chr7	27526579	27526779	+	761.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033315, intron 1 of 3)	intron (NM_001033315, intron 1 of 3)	3418.0	NM_001033315	233020.0	Mm.429716	NM_001033315	ENSMUSG00000040424	Hipk4	Gm162	homeodomain interacting protein kinase 4	protein-coding	13.5	17.5	14.0	114.0	29.0	15.0	11.5	23.0
Merged-chr1-16093172-3	chr1	16093066	16093266	+	910.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001243238, exon 1 of 5)	5' UTR (NM_001243238, exon 1 of 5)	159.0	NM_001243238	75799.0	Mm.78557	NM_001243238	ENSMUSG00000067795	4930444P10Rik	-	RIKEN cDNA 4930444P10 gene	protein-coding	10.0	6.0	11.0	124.0	13.0	8.5	8.0	14.0
Merged-chr2-12934118-4	chr2	12934010	12934210	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008961, intron 1 of 4)	intron (NM_008961, intron 1 of 4)	10069.0	NM_001305437	19212.0	Mm.229322	NM_008961	ENSMUSG00000026730	Pter	AI790318|Mpr56-1	phosphotriesterase related	protein-coding	13.5	24.0	15.5	357.0	73.0	15.5	36.5	36.5
Merged-chr3-100734765-4	chr3	100734670	100734870	+	959.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-49297.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	7.0	5.0	9.0	268.5	40.0	13.5	14.5	25.5
Merged-chr8-22698215-4	chr8	22698096	22698296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159774, intron 2 of 21)	intron (NM_001159774, intron 2 of 21)	8387.0	NM_010546	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	63.5	108.5	63.0	929.0	113.5	51.0	60.5	42.0
Merged-chr14-121865281-4	chr14	121865108	121865308	+	815.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F3|LINE|L1	13062.0	NR_131002	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	8.0	8.0	7.5	53.0	2.5	3.5	3.0	5.5
Merged-chr2-129549940-4	chr2	129549852	129550052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13350.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	52.5	127.0	59.5	643.5	92.0	42.0	56.0	34.0
Merged-chr5-101997523-4	chr5	101997437	101997637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	72384.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	35.0	61.0	24.0	238.5	65.5	29.0	22.5	19.5
Merged-chr13-36534342-4	chr13	36534254	36534454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039189, intron 5 of 5)	intron (NM_001039189, intron 5 of 5)	200123.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	117.5	214.0	125.5	2086.0	347.5	163.5	169.5	147.0
Merged-chr2-91096244-2	chr2	91096144	91096344	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011355)	promoter-TSS (NM_011355)	-434.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	8.0	6.0	6.0	56.5	15.0	2.5	2.0	6.5
Merged-chr11-3161399-3	chr11	3161265	3161465	+	929.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 9 of 32)	intron (NM_030207, intron 9 of 32)	32098.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	63.0	45.5	58.5	760.5	7.0	4.0	3.0	3.5
Merged-chr2-24311405-4	chr2	24311305	24311505	+	919.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20209.0	NM_153077	215274.0	Mm.218750	NM_153077	ENSMUSG00000046845	Il1f10	-	interleukin 1 family, member 10	protein-coding	12.0	13.0	9.0	248.5	43.0	9.0	9.0	12.5
Merged-chr11-75415292-4	chr11	75415100	75415300	+	692.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011340, intron 4 of 7)	intron (NM_011340, intron 4 of 7)	7423.0	NM_011340	20317.0	Mm.2044	NM_011340	ENSMUSG00000000753	Serpinf1	AI195227|EPC-1|Pedf|Pedfl|Sdf3	serine (or cysteine) peptidase inhibitor, clade F, member 1	protein-coding	5.0	8.0	4.5	58.0	10.5	3.0	4.5	10.0
Merged-chr2-148857153-4	chr2	148857056	148857256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6222.0	NM_029960	77705.0	Mm.159975	NM_029960	ENSMUSG00000027446	9230104L09Rik	mCST E2	RIKEN cDNA 9230104L09 gene	protein-coding	36.5	55.5	45.0	924.5	75.5	29.0	34.5	33.0
Merged-chr11-115367742-3	chr11	115367646	115367846	+	808.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346774)	promoter-TSS (NM_001346774)	10.0	NM_001346774	217310.0	Mm.205707	NM_175454	ENSMUSG00000034586	Hid1	C630004H02Rik	HID1 domain containing	protein-coding	6.5	14.0	4.0	74.5	57.0	18.5	14.5	14.0
Merged-chr13-48962772-4	chr13	48962680	48962880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033268, intron 1 of 17)	intron (NM_001033268, intron 1 of 17)	5048.0	NM_001033268	218236.0	Mm.426571	NM_001033268	ENSMUSG00000038014	Fam120a	C9orf10|Ossa	family with sequence similarity 120, member A	protein-coding	109.0	130.0	241.5	3199.5	229.5	87.5	178.0	155.5
Merged-chr11-47199262-4	chr11	47199156	47199356	+	869.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 2 of 7)	intron (NM_011891, intron 2 of 7)	180046.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	14.5	18.5	8.5	264.5	32.0	11.0	11.0	14.0
Merged-chr1-64737858-4	chr1	64737746	64737946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022721)	promoter-TSS (NM_022721)	-96.0	NM_022721	14367.0	Mm.150813	NM_022721	ENSMUSG00000045005	Fzd5	5330434N09Rik|AI427138|Fz-5|Fz5|mFz5	frizzled class receptor 5	protein-coding	284.0	344.0	293.0	4073.5	646.0	191.0	319.5	254.5
Merged-chr10-127632123-4	chr10	127632009	127632209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10877.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	191.5	237.0	181.5	2217.5	318.0	120.0	169.0	101.0
Merged-chr4-144906659-4	chr4	144906560	144906760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	13523.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	42.5	73.5	91.5	1517.5	64.5	25.0	35.5	46.5
Merged-chr7-98355462-4	chr7	98355359	98355559	+	920.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168541, intron 2 of 3)	intron (NM_001168541, intron 2 of 3)	5829.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	18.0	11.0	17.0	239.5	25.5	7.0	12.5	13.5
Merged-chr12-3807615-5	chr12	3807467	3807667	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	407.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	8.0	6.0	12.0	146.5	12.5	4.0	9.0	6.0
Merged-chr15-6733227-4	chr15	6733180	6733380	+	882.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030168, intron 2 of 37)	intron (NM_030168, intron 2 of 37)	24899.0	NM_030168	78757.0	Mm.275811	NM_030168	ENSMUSG00000050310	Rictor	4921505C17Rik|6030405M08Rik|AVO3|AW492497|D530039E11Rik	RPTOR independent companion of MTOR, complex 2	protein-coding	6.5	20.0	15.5	308.0	29.5	6.5	5.5	11.0
Merged-chr9-65551199-4	chr9	65551106	65551306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28881.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	94.5	199.0	124.5	1171.5	189.5	88.5	134.5	81.0
Merged-chr17-26676446-4	chr17	26676407	26676607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025272, exon 1 of 4)	exon (NM_025272, exon 1 of 4)	111.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	30.5	57.5	49.5	364.5	91.5	29.5	30.5	44.5
Merged-chr10-70224803-4	chr10	70224727	70224927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20163.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	29.0	46.0	57.0	741.0	77.0	38.5	37.5	40.0
Merged-chr8-59234646-3	chr8	59234547	59234747	+	989.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	322892.0	NM_173411	234290.0	Mm.39244	NM_173411	ENSMUSG00000049946	BC030500	-	cDNA sequence BC030500	protein-coding	20.0	7.0	19.5	269.5	18.5	7.0	16.5	8.5
Merged-chr2-35437962-1	chr2	35437862	35438062	+	657.666687	f0_balb.idr	intron (NM_010283, intron 1 of 8)	MIRb|SINE|MIR	23487.0	NM_001308299	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	10.5	18.5	10.0	11.5	25.5	1.5	9.0	2.5
Merged-chr5-121452490-4	chr5	121452383	121452583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026129)	promoter-TSS (NM_026129)	-9.0	NM_026129	67397.0	Mm.154570	NM_026129	ENSMUSG00000029616	Erp29	1200015M03Rik|2810446M09Rik|AW209030|Erp28|Erp31|PDI-Db	endoplasmic reticulum protein 29	protein-coding	143.5	264.5	136.0	1592.5	379.0	169.0	169.0	154.0
Merged-chr13-17804397-5	chr13	17804326	17804526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081058, exon 1 of 14)	exon (NM_001081058, exon 1 of 14)	671.0	NM_001081058	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	9.0	28.5	25.0	207.0	53.0	14.0	19.5	31.5
Merged-chr17-34301409-2	chr17	34301329	34301529	+	883.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4438.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	12.0	35.5	4.5	48.0	22.0	2.5	4.5	3.0
Merged-chr12-72490219-4	chr12	72490115	72490315	+	887.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030070, intron 23 of 24)	RLTR19|LTR|ERVK	-46142.0	NM_026327	67708.0	Mm.11233	NM_026327	ENSMUSG00000034501	Pcnx4	1810048J11Rik|4932413O10|AU017192|Pcnxl4	pecanex homolog 4	protein-coding	17.0	15.0	23.0	271.5	28.5	5.5	18.5	7.0
Merged-chr10-89599886-1	chr10	89599786	89599986	+	816.0	f1_balb.idr	promoter-TSS (NM_001310710)	promoter-TSS (NM_001310710)	-71.0	NM_001310710	216227.0	Mm.233921	NM_182959	ENSMUSG00000019935	Slc17a8	BC042593|Vglut3	solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 8	protein-coding	5.5	7.0	5.5	73.0	36.0	11.0	14.0	18.0
Merged-chr19-42092107-2	chr19	42092023	42092223	+	635.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_145501, intron 1 of 8)	B1_Mur3|SINE|Alu	1688.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	9.0	5.0	5.0	53.5	7.5	2.5	4.5	6.0
Merged-chr2-170154374-4	chr2	170154246	170154446	+	728.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11671.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	9.0	2.0	2.5	71.5	34.5	11.0	16.0	6.5
Merged-chr19-3905566-7	chr19	3905472	3905672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016921)	promoter-TSS (NM_016921)	-342.0	NM_016921	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	31.0	56.0	52.0	330.5	69.5	28.5	35.0	36.0
Merged-chr17-6782791-4	chr17	6782684	6782884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009510)	promoter-TSS (NM_009510)	-4.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	73.5	138.0	66.5	1018.5	197.0	77.5	109.5	55.0
Merged-chr5-33822655-4	chr5	33822553	33822753	+	757.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20459.0	NM_175231	107823.0	Mm.19892	NM_175231	ENSMUSG00000057406	Nsd2	5830445G22Rik|9430010A17Rik|AW555663|C130020C13Rik|D030027O06Rik|D930023B08Rik|MMSET|Whsc1|Whsc1l|mKIAA1090	nuclear receptor binding SET domain protein 2	protein-coding	12.0	17.0	10.0	160.0	21.0	11.0	12.0	15.0
Merged-chr6-73726678-3	chr6	73726596	73726796	+	640.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-255675.0	NR_108032	73408.0	Mm.233629	NR_108032	ENSMUSG00000107408	1700065L07Rik	-	RIKEN cDNA 1700065L07 gene	ncRNA	8.5	5.0	5.0	247.5	10.0	2.0	0.5	0.0
Merged-chr10-36892493-3	chr10	36892384	36892584	+	731.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-82060.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	9.0	16.5	18.0	73.0	9.0	2.0	9.5	11.0
Merged-chr5-21138845-5	chr5	21138731	21138931	+	695.719971	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37448.0	NR_153366	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	6.5	7.0	16.5	72.0	9.5	3.0	2.0	9.0
Merged-chr8-104369781-1	chr8	104369681	104369881	+	546.0	f0_balb.idr	intron (NM_153582, intron 1 of 3)	L1MC4|LINE|L1	26026.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	6.5	5.5	6.0	103.0	3.0	1.5	5.0	9.5
Merged-chr11-55100088-3	chr11	55099990	55100190	+	916.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010299, intron 1 of 3)	MIRb|SINE|MIR	2105.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	9.5	2.5	6.5	162.5	14.5	5.5	8.0	6.0
Merged-chr13-98814169-4	chr13	98814074	98814274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	L1MB7|LINE|L1	1275.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	48.0	88.0	34.5	535.5	76.5	22.5	36.5	30.0
Merged-chr5-62889519-1	chr5	62889419	62889619	+	774.666687	f0_balb.idr	Intergenic	Intergenic	75696.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	11.0	8.0	20.5	143.5	29.0	9.5	3.0	8.5
Merged-chr16-29606842-3	chr16	29606727	29606927	+	845.3444820000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133752, intron 7 of 28)	intron (NM_133752, intron 7 of 28)	27493.0	NM_001199177	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	19.5	17.0	14.5	437.5	14.5	5.0	11.5	6.0
Merged-chr19-17276708-3	chr19	17276622	17276822	+	923.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62783.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	0.0	0.0	1.0	0.0	72.0	20.0	11.0	21.0
Merged-chr19-43723624-4	chr19	43723533	43723733	+	968.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053103, intron 9 of 12)	intron (NM_053103, intron 9 of 12)	29367.0	NM_144874	226139.0	Mm.248237	NM_144874	ENSMUSG00000040018	Cox15	2900026G05Rik	cytochrome c oxidase assembly protein 15	protein-coding	12.0	17.0	11.5	198.0	52.0	5.0	28.0	19.0
Merged-chr14-48138053-1	chr14	48137953	48138153	+	931.6666869999999	f0_balb.idr	intron (NM_033602, intron 1 of 5)	intron (NM_033602, intron 1 of 5)	17184.0	NM_033602	93834.0	Mm.296457	NM_033602	ENSMUSG00000021846	Peli2	AW047589|BB129927	pellino 2	protein-coding	16.0	8.5	12.5	267.5	0.0	1.5	0.0	2.0
Merged-chr11-74523768-4	chr11	74523673	74523873	+	880.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	66385.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	4.5	12.5	5.5	115.5	32.0	8.0	14.0	9.5
Merged-chr10-79958323-4	chr10	79958226	79958426	+	996.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 3 of 4)	intron (NR_038088, intron 3 of 4)	-1826.0	NM_175450	216156.0	Mm.35828	NM_175450	ENSMUSG00000035754	Wdr18	2310012I10Rik|AU044733|AW122032	WD repeat domain 18	protein-coding	26.5	18.0	15.5	257.0	34.5	17.0	9.5	22.0
Merged-chr1-92992446-4	chr1	92992338	92992538	+	908.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	13535.0	NM_022320	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	14.5	17.0	12.5	375.5	26.5	5.0	15.0	20.5
Merged-chr12-111165303-4	chr12	111165197	111165397	+	911.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130987, intron 2 of 3)	intron (NR_130987, intron 2 of 3)	-1073.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	7.0	23.0	6.0	105.5	34.0	12.5	27.0	18.0
Merged-chr12-21315830-3	chr12	21315756	21315956	+	881.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026347)	promoter-TSS (NM_026347)	-536.0	NM_026347	67732.0	Mm.335830	NM_026347	ENSMUSG00000062054	Iah1	1500019E20Rik|4833421E05Rik	isoamyl acetate-hydrolyzing esterase 1 homolog	protein-coding	30.0	54.5	30.5	605.0	5.5	4.0	0.0	5.5
Merged-chr12-102414668-3	chr12	102414569	102414769	+	946.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 2 of 13)	intron (NM_011175, intron 2 of 13)	25144.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	15.0	7.0	28.0	373.5	13.0	1.5	3.0	13.5
Merged-chr7-123371177-4	chr7	123371072	123371272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1257.0	NM_001316713	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	106.0	155.5	137.5	1913.0	234.5	78.0	114.0	110.5
Merged-chr14-20824762-4	chr14	20824656	20824856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-11906.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	28.5	29.0	20.0	335.5	82.5	20.5	32.0	34.5
Merged-chr16-76265952-2	chr16	76265852	76266052	+	762.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	107097.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	0.0	5.0	6.0	74.5	8.5	6.0	7.0	8.0
Merged-chr3-81127267-3	chr3	81127172	81127372	+	654.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019971, intron 1 of 5)	intron (NM_019971, intron 1 of 5)	90856.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	6.0	8.0	2.0	97.0	16.5	5.0	6.5	7.0
Merged-chr9-108002058-4	chr9	108001979	108002179	+	966.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013785)	promoter-TSS (NM_013785)	-569.0	NM_013785	27399.0	Mm.276155	NM_013785	ENSMUSG00000032594	Ip6k1	1200016D08Rik|AU022776|Ihpk1|InsP6|InsP6k1|Itpk6	inositol hexaphosphate kinase 1	protein-coding	11.0	22.5	15.5	289.5	45.5	25.5	26.5	23.0
Merged-chr17-35919492-1	chr17	35919392	35919592	+	701.0	f0_balb.idr	5' UTR (NM_001357740, exon 1 of 19)	5' UTR (NM_001357740, exon 1 of 19)	220.0	NM_001357740	52040.0	Mm.29385	NM_175934	ENSMUSG00000039220	Ppp1r10	2610025H06Rik|Cat53|D17Ertd808e|Fb19|Pnuts	protein phosphatase 1, regulatory subunit 10	protein-coding	10.0	15.0	6.5	90.5	12.5	7.0	6.0	12.0
Merged-chr14-26994425-4	chr14	26994367	26994567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5895.0	NM_010420	15209.0	Mm.4802	NM_010420	ENSMUSG00000040726	Hesx1	HES-1|Rpx	homeobox gene expressed in ES cells	protein-coding	22.0	17.5	25.0	346.5	49.5	13.0	22.0	24.0
Merged-chr1-40081231-4	chr1	40081123	40081323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037980, intron 3 of 3)	MTC|LTR|ERVL-MaLR	-3491.0	NM_010555	16178.0	Mm.1349	NM_010555	ENSMUSG00000026073	Il1r2	CD121b|Il1r-2	interleukin 1 receptor, type II	protein-coding	34.0	38.0	31.5	640.0	85.0	24.5	36.5	26.5
Merged-chr11-115599344-2	chr11	115599255	115599455	+	818.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_173048, intron 1 of 16)	intron (NM_173048, intron 1 of 16)	4561.0	NM_001252067	260302.0	Mm.119479	NM_173048	ENSMUSG00000020740	Gga3	C230037M19Rik|mKIAA0154	golgi associated, gamma adaptin ear containing, ARF binding protein 3	protein-coding	6.0	3.0	5.5	47.0	15.5	5.5	8.5	7.5
Merged-chr14-55823574-4	chr14	55823454	55823654	+	871.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1241.0	NM_001168346	73181.0	Mm.27908	NM_023699	ENSMUSG00000023411	Nfatc4	3110041H08Rik|AW107667|AW546455|Nfat3	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 4	protein-coding	11.0	14.5	12.5	83.0	26.0	7.5	2.0	6.5
Merged-chr5-139042543-3	chr5	139042447	139042647	+	774.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359099, intron 7 of 10)	intron (NM_001359099, intron 7 of 10)	-47594.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	13.0	10.5	9.5	78.5	6.5	2.0	3.0	6.0
Merged-chr19-55232388-4	chr19	55232279	55232479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 4 of 20)	intron (NM_001081076, intron 4 of 20)	8857.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	314.5	569.0	388.5	4529.0	887.0	364.0	406.5	298.0
Merged-chr13-34162967-4	chr13	34162805	34163005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001101430)	promoter-TSS (NM_001101430)	-59.0	NM_001101430	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	76.0	107.5	63.5	771.5	136.5	70.5	67.5	68.5
Merged-chr7-135767673-4	chr7	135767571	135767771	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51292.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	19.0	25.0	23.0	268.0	62.0	16.0	19.0	17.0
Merged-chr11-78345975-4	chr11	78345875	78346075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313987)	promoter-TSS (NM_001313987)	391.0	NM_001313988	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	62.5	86.5	47.5	666.0	121.5	59.5	57.5	52.5
Merged-chr19-29503977-2	chr19	29503877	29504077	+	750.333374	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015567, exon 4 of 4)	non-coding (NR_015567, exon 4 of 4)	18010.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	6.0	8.5	2.0	132.5	6.0	7.5	7.0	20.5
Merged-chr4-114973403-4	chr4	114973321	114973521	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025647, intron 1 of 5)	intron (NM_025647, intron 1 of 5)	13807.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	13.5	14.5	9.0	230.0	49.0	27.0	20.0	28.0
Merged-chr6-83657283-3	chr6	83657176	83657376	+	959.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-1160.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	12.0	7.0	29.5	450.0	15.5	2.0	9.5	21.5
Merged-chr6-29522990-4	chr6	29522883	29523083	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3642.0	NM_001311083	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	31.5	34.0	41.5	533.5	59.5	18.0	21.5	23.0
Merged-chr5-34487981-2	chr5	34487881	34488081	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25998.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	17.5	15.5	12.5	304.0	53.5	25.5	27.0	38.5
Merged-chr5-5336719-1	chr5	5336619	5336819	+	631.0	f0_c57.idr	intron (NM_011074, intron 2 of 14)	L1MB8|LINE|L1	43532.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	6.0	6.5	11.0	77.0	22.5	11.5	5.5	10.5
Merged-chr1-153895182-4	chr1	153895093	153895293	+	743.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3547.0	NM_178244	240819.0	Mm.453236	NM_178244	ENSMUSG00000047053	Teddm1a	Epdd1|Teddm1|e9-1	transmembrane epididymal protein 1A	protein-coding	16.5	10.5	1.5	109.5	28.0	7.5	7.5	15.5
Merged-chr3-109267164-4	chr3	109267074	109267274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73509.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	107.0	95.5	70.0	926.0	91.0	40.5	38.0	38.0
Merged-chr6-29528755-2	chr6	29528655	29528855	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252382)	promoter-TSS (NM_001252382)	-527.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	10.0	8.5	8.5	99.5	26.0	15.5	14.0	13.5
Merged-chr7-19180930-4	chr7	19180821	19181021	+	970.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162996)	promoter-TSS (NM_001162996)	-249.0	NM_001162996	72205.0	Mm.154121	NM_028153	ENSMUSG00000040811	Eml2	1600029N02Rik|EMAP-2	echinoderm microtubule associated protein like 2	protein-coding	18.0	23.0	19.0	256.5	47.5	13.0	15.5	28.5
Merged-chr15-94688664-4	chr15	94688572	94688772	+	999.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178789, intron 2 of 7)	intron (NM_178789, intron 2 of 7)	59487.0	NM_178789	320709.0	Mm.74873	NM_178789	ENSMUSG00000063296	Tmem117	B930062P21Rik	transmembrane protein 117	protein-coding	16.5	9.5	19.5	280.5	47.5	17.0	37.0	25.0
Merged-chr17-29434799-4	chr17	29434694	29434894	+	907.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56251.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	13.0	10.5	7.0	147.0	52.0	16.5	15.0	13.5
Merged-chr19-18615995-3	chr19	18615895	18616095	+	709.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017375, intron 1 of 9)	B3A|SINE|B2	15818.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	3.5	5.5	12.0	97.0	18.0	4.5	6.5	7.5
Merged-chr11-57820269-3	chr11	57820147	57820347	+	673.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11900.0	NM_008213	15110.0	Mm.4746	NM_008213	ENSMUSG00000037335	Hand1	Ehand1|Hxt|Th1|Thing1|bHLHa27|eHAND	heart and neural crest derivatives expressed 1	protein-coding	14.0	5.5	7.5	130.5	7.5	3.0	5.0	3.0
Merged-chr13-55024421-4	chr13	55024305	55024505	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3020.0	NM_001033245	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	27.0	37.5	17.0	479.0	79.5	11.0	38.0	34.5
Merged-chr8-46791979-5	chr8	46791876	46792076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	52231.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	29.0	16.0	41.5	366.0	34.5	15.0	18.0	16.0
Merged-chr11-32881790-3	chr11	32881691	32881891	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57197.0	NM_027050	69351.0	Mm.65488	NM_027050	ENSMUSG00000020270	Smim23	1700008A04Rik	small integral membrane protein 23	protein-coding	12.5	9.0	6.0	277.0	1.5	1.0	0.5	0.5
Merged-chr19-32758994-4	chr19	32758899	32759099	+	826.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 1 of 8)	intron (NM_008960, intron 1 of 8)	1422.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	10.0	9.0	6.5	140.5	21.0	15.0	6.5	12.0
Merged-chr11-70497895-4	chr11	70497784	70497984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7390.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	64.0	87.0	57.5	768.0	113.0	28.5	60.5	42.5
Merged-chr2-73529397-4	chr2	73529309	73529509	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153138)	promoter-TSS (NM_153138)	78.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	20.5	28.5	32.0	409.5	29.5	21.0	18.0	26.0
Merged-chr9-89874737-3	chr9	89874661	89874861	+	846.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2B1|LTR|ERVL	-35014.0	NM_001357744	19417.0	Mm.44561	NM_011245	ENSMUSG00000032356	Rasgrf1	AI844718|CDC25|CDC25Mm|Gnrp|Grf1|Grfbeta|P190-A|Ras-GRF1|p190|p190RhoGEF	RAS protein-specific guanine nucleotide-releasing factor 1	protein-coding	2.0	6.0	1.5	17.0	15.0	10.0	14.0	10.0
Merged-chr1-74601403-4	chr1	74601322	74601522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305230)	promoter-TSS (NM_001305230)	-25.0	NM_001305230	57751.0	Mm.280920	NM_021313	ENSMUSG00000026171	Rnf25	0610009H16Rik|AO7	ring finger protein 25	protein-coding	68.5	63.0	52.5	889.5	154.0	55.5	63.5	62.0
Merged-chr16-55892637-4	chr16	55892550	55892750	+	737.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134457, intron 1 of 5)	intron (NM_001134457, intron 1 of 5)	2629.0	NM_001134457	385658.0	Mm.310635	NM_001134457	ENSMUSG00000075033	Nxpe3	Fam55c|Gm1752|Gm611	neurexophilin and PC-esterase domain family, member 3	protein-coding	7.5	7.5	12.5	192.5	30.0	8.5	7.0	21.5
Merged-chr11-63922417-4	chr11	63922322	63922522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018805)	promoter-TSS (NM_018805)	-138.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	86.0	139.5	91.5	1601.5	446.0	168.0	250.5	235.0
Merged-chr1-65186585-4	chr1	65186505	65186705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111320)	promoter-TSS (NM_001111320)	-80.0	NM_001310624	18711.0	Mm.38370	NM_011086	ENSMUSG00000025949	Pikfyve	5230400C17Rik|Pip5k|Pip5k3|Pipk5k3|PipkIII|p235	phosphoinositide kinase, FYVE type zinc finger containing	protein-coding	218.5	372.5	221.0	3150.0	586.5	213.5	279.0	259.5
Merged-chr11-110980448-3	chr11	110980336	110980536	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010604, intron 1 of 1)	intron (NM_010604, intron 1 of 1)	12403.0	NM_001252207	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	20.5	22.0	27.5	527.5	19.0	7.0	14.5	9.5
Merged-chr6-72154169-4	chr6	72154045	72154245	+	955.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011375, exon 7 of 7)	3' UTR (NM_011375, exon 7 of 7)	-30948.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	12.5	12.0	28.0	285.5	34.0	18.5	19.5	24.5
Merged-chr5-29378446-4	chr5	29378326	29378526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020295)	promoter-TSS (NM_020295)	-36.0	NM_020295	56873.0	Mm.41572	NM_020295	ENSMUSG00000010721	Lmbr1	1110048D14Rik|AU017641	limb region 1	protein-coding	90.5	144.5	105.5	1435.5	278.0	111.5	157.0	96.0
Merged-chr11-4199029-4	chr11	4198954	4199154	+	904.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	MIRc|SINE|MIR	12221.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	8.0	8.5	13.0	166.5	34.0	13.0	16.0	21.0
Merged-chr2-164084196-4	chr2	164084089	164084289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021420, intron 3 of 10)	intron (NM_021420, intron 3 of 10)	10011.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	65.5	54.5	34.0	877.5	128.0	32.5	55.5	49.5
Merged-chr17-24285898-3	chr17	24285790	24285990	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001031621, intron 21 of 29)	intron (NM_001031621, intron 21 of 29)	-34481.0	NM_007634	12449.0	Mm.77695	NM_007634	ENSMUSG00000072082	Ccnf	CycF|Fbxo1	cyclin F	protein-coding	29.0	58.0	37.5	320.5	9.5	2.0	4.5	0.5
Merged-chr4-43460860-4	chr4	43460754	43460954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4-int|LTR|ERVK	-6228.0	NM_007654	12517.0	Mm.188157	NM_007654	ENSMUSG00000028459	Cd72	CD72c|Ly-19|Ly-32|Ly-m19|Lyb-2	CD72 antigen	protein-coding	25.5	31.0	29.0	595.0	76.5	27.0	39.0	36.5
Merged-chr3-116598233-4	chr3	116598181	116598381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030016, intron 1 of 11)	intron (NM_030016, intron 1 of 11)	3323.0	NM_001289571	72776.0	Mm.440836	NM_028349	ENSMUSG00000027959	Sass6	2810453L12Rik	SAS-6 centriolar assembly protein	protein-coding	14.0	14.5	11.5	277.5	27.0	13.5	17.0	19.0
Merged-chr11-116077631-4	chr11	116077550	116077750	+	984.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001347642)	TTS (NM_001347642)	311.0	NM_001009573	70450.0	Mm.259460	NM_001009573	ENSMUSG00000057948	Unc13d	2610108D09Rik|Jinx|Munc13-4|mFLJ00067	unc-13 homolog D (C. elegans)	protein-coding	20.0	36.0	9.5	263.5	77.0	18.0	37.0	25.0
Merged-chr13-96437156-1	chr13	96437056	96437256	+	892.0	f0_balb.idr	intron (NM_001042714, intron 7 of 13)	MLT1H1|LTR|ERVL-MaLR	34004.0	NM_001042714	271144.0	Mm.470057	NM_001042714	ENSMUSG00000047117	Ankdd1b	9330128J19Rik	ankyrin repeat and death domain containing 1B	protein-coding	13.5	5.0	7.0	155.0	2.5	2.0	4.5	6.0
Merged-chr9-63124329-4	chr9	63124235	63124435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22645.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	61.5	106.5	57.0	832.0	165.5	66.5	66.5	74.0
Merged-chr16-90747193-4	chr16	90747032	90747232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029844, intron 1 of 2)	intron (NM_029844, intron 1 of 2)	8808.0	NM_029844	77037.0	Mm.22455	NM_029844	ENSMUSG00000039956	Mrap	1110025G12Rik|C21ORF61|Falp|ORF61	melanocortin 2 receptor accessory protein	protein-coding	13.5	7.5	16.5	111.5	42.5	12.5	14.5	19.5
Merged-chr13-21169841-4	chr13	21169740	21169940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10091.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	43.5	46.5	40.0	479.0	85.5	25.5	21.0	30.5
Merged-chr5-121382938-4	chr5	121382853	121383053	+	934.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359947, intron 2 of 11)	intron (NM_001359947, intron 2 of 11)	2456.0	NM_001359947	231712.0	Mm.20488	NM_172275	ENSMUSG00000042726	Trafd1	1110008K06Rik|Fln29	TRAF type zinc finger domain containing 1	protein-coding	20.0	14.0	7.5	202.5	53.0	11.0	9.0	25.0
Merged-chr7-100943489-4	chr7	100943377	100943577	+	925.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	LTR108c_Mam|LTR|ERVL	-11316.0	NM_001081116	207212.0	Mm.29954	NM_001081116	ENSMUSG00000032875	Arhgef17	8030463K16|AI428794|AW558066|BC035332|mKIAA0337	Rho guanine nucleotide exchange factor (GEF) 17	protein-coding	9.0	21.0	9.0	248.0	39.5	25.5	17.0	12.0
Merged-chr5-77172682-3	chr5	77172583	77172783	+	898.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38522.0	NM_001289767	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	4.0	3.0	2.0	36.5	40.5	9.5	12.0	23.0
Merged-chr8-84953031-2	chr8	84952932	84953132	+	624.0	f0_c57.idr|f1_balb.idr	intron (NM_001357328, intron 5 of 6)	intron (NM_001357328, intron 5 of 6)	5042.0	NM_001357328	234542.0	Mm.461701	NM_144929	ENSMUSG00000048617	Rtbdn	A330096I21Rik|BC022744|Rtbnd	retbindin	protein-coding	1.0	4.0	3.0	36.0	19.5	11.0	10.0	16.0
Merged-chr10-41839114-3	chr10	41839014	41839214	+	808.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	28540.0	NM_001162908	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	13.0	21.0	11.5	92.5	14.0	1.0	3.5	2.5
Merged-chr3-105811299-3	chr3	105811185	105811385	+	714.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4282.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	7.0	10.5	7.0	87.0	12.5	4.5	6.0	6.0
Merged-chr1-36244271-4	chr1	36244173	36244373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198899)	promoter-TSS (NM_198899)	29.0	NM_198899	320011.0	Mm.261022	NM_198899	ENSMUSG00000037470	Uggt1	0910001L17Rik|A930007H10Rik|AA589501|AI414429|AI448372|C820010P03Rik|GT|UGT1|Ugcgl1	UDP-glucose glycoprotein glucosyltransferase 1	protein-coding	154.5	233.0	139.0	2380.0	421.0	121.0	103.0	107.0
Merged-chr3-83859254-4	chr3	83859156	83859356	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17648.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	40.0	54.5	29.0	342.0	65.5	31.5	36.5	27.0
Merged-chr7-30216983-4	chr7	30216878	30217078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14413.0	NM_001360648	66411.0	Mm.27947	NM_025548	ENSMUSG00000006095	Tbcb	2410007D12Rik|AU041393|CG22|CKAPI|Ckap1	tubulin folding cofactor B	protein-coding	38.5	49.0	23.0	333.0	70.0	24.5	52.5	35.0
Merged-chr11-69914073-4	chr11	69913994	69914194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357906)	promoter-TSS (NM_001357906)	60.0	NM_019726	56310.0	Mm.477738	NM_019726	ENSMUSG00000023170	Gps2	AI505953|GPS-2	G protein pathway suppressor 2	protein-coding	64.5	72.0	63.0	444.0	145.5	55.0	38.5	55.5
Merged-chr18-11822518-4	chr18	11822416	11822616	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045421, intron 3 of 3)	intron (NR_045421, intron 3 of 3)	-16758.0	NM_001146287	63955.0	Mm.40717	NM_022021	ENSMUSG00000040957	Cables1	Cables|ik3-1	CDK5 and Abl enzyme substrate 1	protein-coding	21.5	29.0	26.0	400.5	78.5	17.5	35.0	22.5
Merged-chr2-152335487-4	chr2	152335387	152335587	+	976.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17A2|LTR|ERVK	-2848.0	NM_019705	24105.0	Mm.182145	NM_019705	ENSMUSG00000027466	Rbck1	AL033326|HOIL-1|HOIL-1L|UIP28|Ubce7ip3	RanBP-type and C3HC4-type zinc finger containing 1	protein-coding	21.0	9.0	17.0	185.0	37.0	6.0	22.5	9.5
Merged-chr12-73123794-4	chr12	73123694	73123894	+	946.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008612)	promoter-TSS (NM_008612)	77.0	NM_008612	17420.0	Mm.246750	NM_008612	ENSMUSG00000021103	Mnat1	E130115E11Rik|MAT1|P36	menage a trois 1	protein-coding	13.5	14.5	13.0	273.0	22.5	7.0	14.5	18.5
Merged-chr10-75222782-4	chr10	75222686	75222886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145826, intron 2 of 18)	intron (NM_001145826, intron 2 of 18)	10396.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	312.5	573.5	379.0	4858.0	988.0	439.5	442.0	389.0
Merged-chr12-110608966-4	chr12	110608897	110609097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030238, intron 1 of 76)	intron (NM_030238, intron 1 of 76)	7602.0	NM_030238	13424.0	Mm.181430	NM_030238	ENSMUSG00000018707	Dync1h1	9930018I23Rik|AI894280|DHC1|DHC1a|DNCL|Dnchc1|Dnec1|Dnecl|Loa|MAP1C|P22|Swl|mKIAA0325	dynein cytoplasmic 1 heavy chain 1	protein-coding	45.0	44.5	31.0	498.5	79.0	23.5	54.0	38.0
Merged-chr1-176068127-4	chr1	176068046	176068246	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357846, intron 3 of 8)	ORR1F|LTR|ERVL-MaLR	145796.0	NM_001357845	319455.0	Mm.338001	NM_176916	ENSMUSG00000055214	Pld5	B230365F16Rik	phospholipase D family, member 5	protein-coding	12.0	28.0	44.0	774.5	51.0	10.0	35.0	15.0
Merged-chr14-32931904-4	chr14	32931818	32932018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178791, intron 7 of 7)	intron (NM_178791, intron 7 of 7)	-59464.0	NM_001146021	67580.0	Mm.46115	NM_026253	ENSMUSG00000041673	Lrrc18	4930442L21Rik|MTLR1	leucine rich repeat containing 18	protein-coding	58.5	122.5	74.0	900.0	157.0	64.5	66.5	63.0
Merged-chr18-57965632-2	chr18	57965532	57965732	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86954.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	6.5	11.0	6.0	60.0	6.0	1.0	5.0	4.0
Merged-chr5-124492765-4	chr5	124492667	124492867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021430)	TTS (NM_021430)	9612.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	112.5	253.0	153.0	2452.5	410.0	130.5	208.0	185.5
Merged-chr7-44998665-4	chr7	44998489	44998689	+	990.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045611, intron 1 of 7)	intron (NR_045611, intron 1 of 7)	941.0	NM_016849	54131.0	Mm.3960	NM_016849	ENSMUSG00000003184	Irf3	C920001K05Rik|IRF-3	interferon regulatory factor 3	protein-coding	12.0	30.0	14.5	131.5	60.5	21.0	10.5	8.0
Merged-chr2-90515119-4	chr2	90515003	90515203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	-35929.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	44.0	101.5	58.5	559.0	84.5	41.0	42.0	36.0
Merged-chr13-21179556-2	chr13	21179456	21179656	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009054)	promoter-TSS (NM_009054)	-375.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	13.0	6.5	7.5	127.5	23.0	5.5	8.5	22.0
Merged-chr5-3343867-4	chr5	3343799	3343999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009873)	promoter-TSS (NM_009873)	6.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	39.5	54.0	34.5	413.5	89.0	30.0	42.5	45.0
Merged-chr6-66952002-4	chr6	66951917	66952117	+	941.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177560, intron 3 of 4)	ORR1D1|LTR|ERVL-MaLR	55126.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	23.0	16.5	14.0	424.5	54.5	10.5	27.0	15.5
Merged-chr11-68483373-4	chr11	68483276	68483476	+	901.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 5 of 18)	intron (NM_177320, intron 5 of 18)	-19643.0	NM_001004435	104709.0	Mm.234573	NM_001004435	ENSMUSG00000046207	Pik3r6	BB220380|p84|p84 PIKAP|p87(PIKAP)|p87PIKAP	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	30.5	23.5	8.0	182.0	18.5	12.0	14.0	5.5
Merged-chr5-138731989-1	chr5	138731889	138732089	+	643.0	f1_balb.idr	Intergenic	RMER6BA|LTR|ERVK	-23092.0	NM_030565	80752.0	Mm.320355	NM_030565	ENSMUSG00000025854	Fam20c	C76981|DMP-4|DMP4|GEF-CK|mKIAA4081	family with sequence similarity 20, member C	protein-coding	6.5	12.5	15.5	42.0	0.0	0.0	0.0	2.0
Merged-chr15-57907610-2	chr15	57907510	57907710	+	880.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-4589.0	NM_001081396	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	4.5	4.5	4.5	56.5	4.5	3.0	5.0	10.5
Merged-chr13-43560280-4	chr13	43560173	43560373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081059)	promoter-TSS (NM_001081059)	-82.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	166.5	333.0	181.5	2562.0	386.0	138.5	232.0	152.5
Merged-chr7-101863669-3	chr7	101863569	101863769	+	877.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252552, intron 4 of 6)	intron (NM_001252552, intron 4 of 6)	-6479.0	NM_001303239	14276.0	Mm.439666	NM_008035	ENSMUSG00000032725	Folr2	FBP2|FR-P3|FR-beta|Folbp-2|Folbp2	folate receptor 2 (fetal)	protein-coding	7.5	5.5	9.5	119.5	17.5	9.5	7.5	9.5
Merged-chr11-74828563-4	chr11	74828484	74828684	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2340.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	36.5	63.5	38.0	573.0	103.5	24.0	37.5	29.5
Merged-chr5-52833996-4	chr5	52833894	52834094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024213)	promoter-TSS (NM_024213)	-141.0	NM_024213	52206.0	Mm.272568	NM_024213	ENSMUSG00000029176	Anapc4	2610306D21Rik|APC4|D5Ertd249e	anaphase promoting complex subunit 4	protein-coding	395.5	631.0	449.5	6916.5	832.0	302.5	434.5	348.5
Merged-chr2-120111050-4	chr2	120110958	120111158	+	908.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 3 of 5)	MIR|SINE|MIR	43517.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	14.5	28.5	11.5	354.0	16.0	17.0	15.5	16.0
Merged-chr2-139919073-4	chr2	139918978	139919178	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110352, intron 9 of 12)	Lx8|LINE|L1	147727.0	NM_001159640	75812.0	Mm.293449	NM_175225	ENSMUSG00000039033	Tasp1	4930485D02Rik|AW986064	taspase, threonine aspartase 1	protein-coding	18.0	30.5	16.0	272.0	58.0	13.0	20.5	13.5
Merged-chr10-91182769-3	chr10	91182645	91182845	+	787.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11126.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	11.5	6.5	13.0	113.0	12.0	4.5	8.5	15.5
Merged-chr6-90550716-4	chr6	90550612	90550812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027406)	promoter-TSS (NM_027406)	-81.0	NM_001356412	107747.0	Mm.30035	NM_027406	ENSMUSG00000030088	Aldh1l1	1810048F20Rik|FDH|Fthfd|Neut2	aldehyde dehydrogenase 1 family, member L1	protein-coding	54.5	73.0	52.5	1200.5	155.0	42.0	75.0	39.5
Merged-chr19-8518443-4	chr19	8518344	8518544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	-72810.0	NM_001164634	19879.0	Mm.285294	NM_031194	ENSMUSG00000063796	Slc22a8	Oat3|Roct	solute carrier family 22 (organic anion transporter), member 8	protein-coding	128.0	156.0	101.0	1556.0	261.0	89.0	108.5	112.5
Merged-chr18-9486131-4	chr18	9486061	9486261	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36007.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	41.5	23.5	26.0	516.0	51.5	12.5	17.0	18.0
Merged-chr5-99364679-3	chr5	99364567	99364767	+	960.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-111740.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	17.0	11.0	14.0	256.5	15.0	3.0	9.5	10.0
Merged-chr18-67769843-4	chr18	67769737	67769937	+	935.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	-5039.0	NM_001360934	72124.0	Mm.307315	NM_028112	ENSMUSG00000079614	Seh1l	2610007A16Rik|AW540070|SEC13L|SEH1A|SEH1B|Seh1	SEH1-like (S. cerevisiae	protein-coding	19.5	30.0	16.0	82.5	86.5	27.0	20.5	27.0
Merged-chr2-90744598-3	chr2	90744544	90744744	+	848.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018828)	promoter-TSS (NM_018828)	-726.0	NM_018828	55935.0	Mm.489638	NM_018828	ENSMUSG00000008200	Fnbp4	FBP30|Fnbp30|mKIAA1014	formin binding protein 4	protein-coding	3.5	3.5	4.0	20.5	9.5	5.0	5.0	10.0
Merged-chr13-81783774-4	chr13	81783689	81783889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007684, intron 1 of 4)	CpG	542.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	233.0	335.5	257.0	3796.5	696.0	234.0	354.0	269.0
Merged-chr13-5874932-4	chr13	5874844	5875044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13455.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	39.5	92.0	38.0	614.0	117.0	49.0	34.5	26.5
Merged-chr16-30600633-4	chr16	30600545	30600745	+	874.220215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177632, exon 1 of 1)	exon (NM_177632, exon 1 of 1)	922.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	12.0	25.5	18.0	98.5	29.0	14.0	12.5	14.5
Merged-chr5-30232521-4	chr5	30232420	30232620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_137634)	promoter-TSS (NR_137634)	-61.0	NM_027652	28042.0	Mm.168854	NM_027652	ENSMUSG00000075703	Selenoi	4933402G07Rik|AI448296|AI452230|C79563|D5Wsu178e|Ept1|SELI|mKIAA1724	selenoprotein I	protein-coding	246.5	312.5	212.0	3341.0	402.5	180.5	168.0	157.0
Merged-chr11-72689971-4	chr11	72689845	72690045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009671)	promoter-TSS (NM_009671)	-57.0	NM_009671	11736.0	Mm.10313	NM_009671	ENSMUSG00000020790	Ankfy1	Ankhzn|ZFYVE14|mKIAA1255	ankyrin repeat and FYVE domain containing 1	protein-coding	73.0	69.0	53.0	496.5	171.0	76.5	73.0	57.5
Merged-chr3-146779108-3	chr3	146779009	146779209	+	870.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011100, intron 1 of 9)	intron (NM_011100, intron 1 of 9)	2307.0	NM_001164200	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	11.0	8.5	21.0	137.0	14.5	8.5	7.0	2.0
Merged-chr12-111538733-4	chr12	111538637	111538837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178041, intron 2 of 11)	CpG-3539	636.0	NM_173363	217869.0	Mm.271222	NM_173363	ENSMUSG00000021282	Eif5	2810011H21Rik|D12Ertd549e	eukaryotic translation initiation factor 5	protein-coding	110.5	145.5	103.0	1267.5	251.5	96.0	136.0	94.5
Merged-chr13-45977100-4	chr13	45977020	45977220	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12129.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	17.5	29.5	1.5	188.5	50.0	8.0	14.0	14.0
Merged-chr17-72967142-4	chr17	72967043	72967243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48838.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	44.5	55.0	38.0	900.5	136.0	35.0	52.5	37.5
Merged-chr19-41263448-4	chr19	41263364	41263564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133352, intron 1 of 14)	CpG	540.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	52.5	68.5	71.0	527.5	118.5	65.0	58.5	50.0
Merged-chr12-117478220-4	chr12	117478188	117478388	+	810.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-38191.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	3.5	8.5	4.5	52.0	10.0	8.5	7.5	5.5
Merged-chr12-81484962-4	chr12	81484876	81485076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_132134)	promoter-TSS (NR_132134)	-125.0	NR_132134	66272.0	Mm.439970	NM_025461	ENSMUSG00000091803	Cox16	1810020G14Rik|1810055I05Rik|BB388670	cytochrome c oxidase assembly protein 16	protein-coding	78.0	110.5	147.0	1272.0	176.5	86.5	89.0	78.0
Merged-chr13-54475929-4	chr13	54475817	54476017	+	879.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	-7077.0	NM_028597	73666.0	Mm.292487	NM_028597	ENSMUSG00000025872	Thoc3	2410044K02Rik|AL033344	THO complex 3	protein-coding	5.5	9.0	6.0	104.5	42.5	17.0	22.0	22.0
Merged-chr12-32820996-6	chr12	32820833	32821033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021524, intron 1 of 10)	CpG	598.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	43.5	78.0	44.0	483.0	151.0	57.5	39.5	45.5
Merged-chr5-115845133-4	chr5	115845048	115845248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007708)	promoter-TSS (NM_007708)	-508.0	NM_007708	12704.0	Mm.8321	NM_007708	ENSMUSG00000029516	Cit	C030025P15Rik|CRIK|CRIK-SK|Cit-k	citron	protein-coding	64.0	72.5	51.5	971.0	164.5	54.5	63.5	67.5
Merged-chr17-29360893-4	chr17	29360806	29361006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013710)	promoter-TSS (NM_013710)	-8.0	NM_013710	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	70.5	118.5	50.5	910.5	171.0	57.5	64.0	43.5
Merged-chr10-111439678-3	chr10	111439591	111439791	+	915.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BC1_Mm|scRNA|scRNA	-33536.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	5.5	6.0	7.0	222.5	13.5	11.0	7.5	8.5
Merged-chr5-73647581-4	chr5	73647507	73647707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011890, intron 1 of 5)	CpG	124.0	NM_011890	24051.0	Mm.89310	NM_011890	ENSMUSG00000029156	Sgcb	43kDa|AI747103|AI844814|beta-SG	sarcoglycan, beta (dystrophin-associated glycoprotein)	protein-coding	56.0	48.5	72.0	775.5	79.0	39.0	53.5	46.0
Merged-chr15-5738323-4	chr15	5738227	5738427	+	741.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1VL1|LINE|L1	242009.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	9.0	15.5	14.5	112.0	24.5	5.0	13.0	23.0
Merged-chr10-13968101-4	chr10	13967954	13968154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	1675.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	24.5	35.5	46.5	450.0	57.5	18.0	23.5	31.0
Merged-chr5-99543719-2	chr5	99543619	99543819	+	612.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	MLT1K|LTR|ERVL-MaLR	185341.0	NR_030692	319818.0	Mm.295233	NR_030692	ENSMUSG00000089809	A930011G23Rik	-	RIKEN cDNA A930011G23 gene	ncRNA	10.0	9.0	5.5	25.0	13.0	2.5	4.0	4.0
Merged-chr9-108827635-3	chr9	108827536	108827736	+	807.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359573, exon 1 of 36)	exon (NM_001359573, exon 1 of 36)	1591.0	NM_001359572	107934.0	Mm.39945	NM_080437	ENSMUSG00000023473	Celsr3	Adgrc3|Fmi1|flamingo|mKIAA0812	cadherin, EGF LAG seven-pass G-type receptor 3	protein-coding	8.0	10.0	1.5	76.5	20.0	5.5	5.5	9.0
Merged-chr4-97777755-4	chr4	97777665	97777865	+	996.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001122953, exon 1 of 10)	5' UTR (NM_001122953, exon 1 of 10)	139.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	30.0	34.0	50.5	508.0	54.0	16.0	25.5	24.0
Merged-chr14-70784256-3	chr14	70784135	70784335	+	706.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9854.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	13.0	20.5	10.0	120.5	11.5	5.0	5.0	10.5
Merged-chr5-64380513-2	chr5	64380413	64380613	+	880.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87429.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	9.5	26.0	17.0	91.5	31.5	7.0	6.5	13.0
Merged-chr14-31955153-4	chr14	31955032	31955232	+	813.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73971.0	NM_030166	78754.0	Mm.40681	NM_030166	ENSMUSG00000021903	Galnt15	4631401E18Rik|Galntl2|mpp-GalNAc-T15	polypeptide N-acetylgalactosaminyltransferase 15	protein-coding	12.5	16.5	2.0	116.0	21.0	10.0	17.0	10.5
Merged-chr16-64851863-4	chr16	64851738	64851938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347245)	promoter-TSS (NM_001347245)	-115.0	NM_001347245	72020.0	Mm.25960	NM_028059	ENSMUSG00000047141	Zfp654	1600021C16Rik|1810008K20Rik|433036|Gm5488|Znf654	zinc finger protein 654	protein-coding	464.5	657.0	535.5	8627.0	1231.5	425.0	608.5	447.5
Merged-chr7-12803620-4	chr7	12803514	12803714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026046)	TTS (NM_026046)	15246.0	NM_026046	67230.0	Mm.333574	NM_026046	ENSMUSG00000057894	Zfp329	2810439M05Rik|4632409L22Rik|ZNF329	zinc finger protein 329	protein-coding	29.0	59.0	59.5	856.5	90.0	43.5	36.5	38.0
Merged-chr6-42227470-1	chr6	42227370	42227570	+	555.0	f0_balb.idr	Intergenic	Intergenic	12142.0	NM_001001453	387515.0	Mm.377922	NM_001001453	ENSMUSG00000051917	Tas2r144	Tas2r40|Tas2r44|mt2r33	taste receptor, type 2, member 144	protein-coding	7.5	8.0	2.5	62.5	13.0	6.5	5.5	5.0
Merged-chr10-34199784-3	chr10	34199685	34199885	+	635.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 1 of 5)	intron (NM_172508, intron 1 of 5)	7766.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	13.5	13.5	11.0	106.5	23.0	1.5	5.5	12.5
Merged-chr10-7211090-2	chr10	7210990	7211190	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 1 of 12)	intron (NM_172546, intron 1 of 12)	1147.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	9.5	5.5	15.5	113.0	21.0	6.0	4.0	18.5
Merged-chr19-6910502-1	chr19	6910402	6910602	+	1000.0	f0_balb.idr	promoter-TSS (NM_001358444)	promoter-TSS (NM_001358444)	-396.0	NM_001358444	54683.0	Mm.279782	NM_012021	ENSMUSG00000024953	Prdx5	AOEB166|AOPP|PLP|Pmp20|Prdx6|PrxV	peroxiredoxin 5	protein-coding	26.0	54.5	24.5	214.5	68.0	26.0	29.5	31.5
Merged-chr9-60991721-4	chr9	60991635	60991835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25334.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	111.5	141.0	85.5	1290.5	174.0	62.0	107.0	76.0
Merged-chr2-154677200-4	chr2	154677118	154677318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029362, intron 1 of 4)	intron (NM_029362, intron 1 of 4)	20192.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	49.5	92.0	53.5	726.5	172.0	78.0	53.5	81.5
Merged-chr4-11965890-2	chr4	11965790	11965990	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040577)	promoter-TSS (NR_040577)	91.0	NM_001290387	381511.0	Mm.331489	NM_001033453	ENSMUSG00000049225	Pdp1	Gm1024|Ppm2c	pyruvate dehyrogenase phosphatase catalytic subunit 1	protein-coding	10.0	24.0	23.5	292.0	44.5	20.0	16.0	22.5
Merged-chr15-84845055-4	chr15	84844927	84845127	+	820.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356573, intron 2 of 12)	intron (NM_001356573, intron 2 of 12)	10072.0	NM_001356573	271305.0	Mm.101022	NM_001081166	ENSMUSG00000016624	Phf21b	A730032D07Rik	PHD finger protein 21B	protein-coding	10.5	11.5	2.5	106.0	21.5	9.0	9.0	7.5
Merged-chr3-146157036-4	chr3	146156942	146157142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005846, intron 1 of 13)	intron (NM_001005846, intron 1 of 13)	6868.0	NM_001005846	68279.0	Mm.116862	NM_026656	ENSMUSG00000011008	Mcoln2	3300002C04Rik|AI549968|C86638|TRPML2	mucolipin 2	protein-coding	28.0	58.0	29.0	374.0	125.0	31.0	33.5	19.5
Merged-chr1-184444356-4	chr1	184444224	184444424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113367.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	31.5	30.5	27.0	695.5	33.0	17.0	26.0	25.5
Merged-chr5-148550568-4	chr5	148550454	148550654	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	1119.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	18.0	27.5	15.5	433.0	54.0	22.0	30.5	26.0
Merged-chr13-56279618-2	chr13	56279518	56279718	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16933.0	NM_019568	57266.0	Mm.30211	NM_019568	ENSMUSG00000021508	Cxcl14	1110031L23Rik|1200006I23Rik|AI414372|BMAC|BRAK|KS1|Kec|MIP-2g|MIP2gamma|NJAC|Scyb14|bolekine	chemokine (C-X-C motif) ligand 14	protein-coding	13.5	11.0	2.5	57.0	26.5	4.5	11.5	7.0
Merged-chr13-21935479-3	chr13	21935369	21935569	+	939.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9625.0	NM_183014	193452.0	Mm.187446	NM_183014	ENSMUSG00000006720	Zfp184	4930500C15Rik	zinc finger protein 184 (Kruppel-like)	protein-coding	16.0	18.5	20.0	114.0	28.5	2.5	3.5	5.0
Merged-chr10-39770772-3	chr10	39770679	39770879	+	896.4166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011264, intron 1 of 31)	B2_Mm1a|SINE|B2	38619.0	NM_011264	19714.0	Mm.439723	NM_011264	ENSMUSG00000019841	Rev3l	Rev|Rev3|Sez4	REV3 like, DNA directed polymerase zeta catalytic subunit	protein-coding	14.5	6.0	4.5	40.5	20.5	11.0	8.0	19.5
Merged-chr17-29414778-4	chr17	29414677	29414877	+	905.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD3|LINE|L1	53863.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	13.0	31.5	7.0	130.5	61.0	15.5	33.5	11.0
Merged-chr17-35240632-4	chr17	35240545	35240745	+	852.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1101.0	NM_019693	53817.0	Mm.439827	NM_019693	ENSMUSG00000019432	Ddx39b	0610030D10Rik|AI428441|Bat-1|Bat1|Bat1a|D17H6S81E|D17H6S81E-1|D6S81Eh	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B	protein-coding	10.5	17.0	5.0	63.0	26.5	11.0	5.0	10.0
Merged-chr4-55350554-3	chr4	55350451	55350651	+	971.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009011, intron 1 of 9)	CpG	509.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	21.0	33.5	26.0	339.5	52.0	15.5	20.5	40.0
Merged-chr7-81572386-4	chr7	81572376	81572576	+	988.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004185, intron 1 of 9)	intron (NM_001004185, intron 1 of 9)	1184.0	NM_001004185	434204.0	Mm.181641	NM_001004185	ENSMUSG00000045795	Whamm	BB081391|Whdc1|mKIAA1971	WAS protein homolog associated with actin, golgi membranes and microtubules	protein-coding	1.5	3.5	1.5	35.5	18.0	10.0	5.0	9.0
Merged-chr7-142457787-2	chr7	142457696	142457896	+	728.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-3016.0	NM_001271510	16985.0	Mm.234003	NM_019391	ENSMUSG00000018819	Lsp1	Lsp-1|WP34|p50|pp52	lymphocyte specific 1	protein-coding	1.0	4.0	0.5	31.0	31.0	15.5	8.0	10.0
Merged-chr4-119195795-2	chr4	119195695	119195895	+	795.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001038998, intron 1 of 2)	MIR3|SINE|MIR	270.0	NM_001038998	69216.0	Mm.36697	NM_024462	ENSMUSG00000028643	Svbp	2410005K17Rik|AI851162|Ccdc23	small vasohibin binding protein	protein-coding	2.5	8.5	4.5	39.0	15.5	7.5	4.5	13.5
Merged-chr3-88464604-4	chr3	88464511	88464711	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-3429.0	NM_001163489	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	18.5	29.5	14.0	218.0	32.5	18.5	18.0	21.5
Merged-chr15-53139053-4	chr15	53138957	53139157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	207126.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	131.0	307.5	233.0	2723.5	371.5	113.0	152.5	106.0
Merged-chr11-85131791-4	chr11	85131678	85131878	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029934, intron 1 of 33)	intron (NM_001029934, intron 1 of 33)	8177.0	NM_001029934	237898.0	Mm.178524	NM_001029934	ENSMUSG00000000804	Usp32	2900074J03Rik|6430526O11Rik|AW045245	ubiquitin specific peptidase 32	protein-coding	24.5	34.0	20.5	318.5	50.5	24.5	21.0	19.5
Merged-chr7-126773496-3	chr7	126773408	126773608	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024228, intron 9 of 9)	ORR1A4|LTR|ERVL-MaLR	-3467.0	NM_026875	66090.0	Mm.27114	NM_025347	ENSMUSG00000042675	Ypel3	0610043B10Rik|1190001G19Rik|Suap	yippee like 3	protein-coding	18.5	65.0	21.0	396.5	4.5	1.0	1.0	3.5
Merged-chr2-174171280-4	chr2	174171180	174171380	+	935.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040530, intron 1 of 3)	Lx8|LINE|L1	12638.0	NR_040530	100038374.0	Mm.127249	NR_040530	ENSMUSG00000074555	Gm10714	-	predicted gene 10714	ncRNA	8.5	26.5	19.0	267.5	67.0	18.5	25.0	15.0
Merged-chr14-59555195-4	chr14	59555084	59555284	+	932.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	42775.0	NM_001168537	71891.0	Mm.439850	NM_027986	ENSMUSG00000021982	Cdadc1	2310010M10Rik|AI449174|AI463398|BB130816|NYD-SP15	cytidine and dCMP deaminase domain containing 1	protein-coding	19.0	18.0	31.0	418.5	46.5	8.0	25.0	16.0
Merged-chr2-167225152-4	chr2	167225034	167225234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008968, intron 3 of 9)	MTC|LTR|ERVL-MaLR	15403.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	103.0	120.5	104.5	1730.5	210.0	80.0	96.0	117.5
Merged-chr15-86191629-4	chr15	86191523	86191723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-5482.0	NM_145475	223753.0	Mm.222685	NM_145475	ENSMUSG00000035891	Cerk	AI848610|D330016D08Rik|mKIAA1646	ceramide kinase	protein-coding	161.5	245.5	233.5	2872.0	319.5	115.5	162.0	159.0
Merged-chr5-140381326-4	chr5	140381222	140381422	+	953.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 1 of 10)	intron (NM_172277, intron 1 of 10)	7986.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	21.0	19.5	22.0	366.5	50.0	16.5	10.0	15.0
Merged-chr5-54005688-3	chr5	54005572	54005772	+	856.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	7149.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	10.5	9.5	9.0	126.0	12.5	6.0	9.5	14.0
Merged-chr7-99164053-3	chr7	99163962	99164162	+	872.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026384, intron 4 of 7)	intron (NM_026384, intron 4 of 7)	18651.0	NM_026384	67800.0	Mm.180189	NM_026384	ENSMUSG00000030747	Dgat2	0610010B06Rik|ARAT|DGAT-2	diacylglycerol O-acyltransferase 2	protein-coding	9.0	16.0	17.0	173.0	15.0	3.0	8.5	12.0
Merged-chr3-97232532-4	chr3	97232414	97232614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5150.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	117.0	161.0	74.5	1277.5	239.5	97.5	127.0	88.0
Merged-chr12-112675459-4	chr12	112675363	112675563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331107)	promoter-TSS (NM_001331107)	-579.0	NM_001331107	11651.0	Mm.6645	NM_009652	ENSMUSG00000001729	Akt1	Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac	thymoma viral proto-oncogene 1	protein-coding	31.0	61.5	16.5	590.5	77.5	37.5	38.5	38.5
Merged-chr9-95540652-4	chr9	95540572	95540772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19145.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	51.0	90.0	46.5	501.0	201.5	64.5	91.5	84.0
Merged-chr11-86487082-4	chr11	86486965	86487165	+	894.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029788, intron 3 of 8)	intron (NM_029788, intron 3 of 8)	2408.0	NM_029788	76892.0	Mm.262707	NM_029788	ENSMUSG00000020521	Rnft1	0610013E23Rik|AV007605	ring finger protein, transmembrane 1	protein-coding	13.0	29.5	8.5	168.0	21.0	9.0	10.5	10.5
Merged-chr18-84809165-4	chr18	84809072	84809272	+	874.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42166.0	NM_025797	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	21.5	12.5	9.0	185.0	41.0	11.5	20.5	18.0
Merged-chr7-98341576-4	chr7	98341484	98341684	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19704.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	24.0	32.0	11.5	191.0	66.0	24.5	26.0	27.5
Merged-chr9-45282686-4	chr9	45282594	45282794	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13545.0	NM_001324486	16154.0	Mm.379327	NM_008348	ENSMUSG00000032089	Il10ra	AW553859|CDw210|CDw210a|IL-10R1|IL-10RA|Il10r|mIL-10R	interleukin 10 receptor, alpha	protein-coding	38.0	48.5	30.0	686.0	60.0	21.5	19.0	19.5
Merged-chr6-120493811-6	chr6	120493669	120493869	+	793.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033567)	promoter-TSS (NM_033567)	38.0	NM_033567	94047.0	Mm.23088	NM_033567	ENSMUSG00000094626	Tmem121b	AW048664|Cecr6	transmembrane protein 121B	protein-coding	7.5	6.0	5.5	36.0	8.5	5.0	1.5	3.0
Merged-chr10-53346769-3	chr10	53346687	53346887	+	607.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001141927)	TTS (NM_001141927)	9101.0	NM_001141927	18821.0	Mm.34145	NM_023129	ENSMUSG00000038583	Pln	Plb	phospholamban	protein-coding	6.0	4.5	0.5	86.5	6.0	7.5	6.0	7.5
Merged-chr13-49102390-3	chr13	49102301	49102501	+	789.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290313, intron 3 of 29)	RMER16_Mm|LTR|ERVK	45927.0	NM_029361	75607.0	Mm.342723	NM_029361	ENSMUSG00000037989	Wnk2	1810073P09Rik|AW122246|ESTM15|X83337|mKIAA1760	WNK lysine deficient protein kinase 2	protein-coding	9.0	10.0	12.0	64.5	15.0	15.5	2.5	10.0
Merged-chr4-53196175-4	chr4	53196095	53196295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36300.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	41.5	53.0	29.0	514.0	104.5	60.0	55.0	41.5
Merged-chr10-117953112-4	chr10	117953008	117953208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27649.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	63.5	81.0	50.5	833.5	127.0	51.0	46.5	59.0
Merged-chr8-119824999-4	chr8	119824895	119825095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	15584.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	76.5	65.5	96.0	1627.5	158.0	46.5	68.5	74.0
Merged-chr14-31189542-4	chr14	31189417	31189617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347583, intron 7 of 13)	intron (NM_001347583, intron 7 of 13)	17309.0	NM_022656	64652.0	Mm.298728	NM_022656	ENSMUSG00000021910	Nisch	1200007D05Rik|3202002H23Rik|AW494485|I-1|edsn	nischarin	protein-coding	51.5	53.5	30.5	716.0	70.5	41.5	37.0	46.0
Merged-chr3-105850278-3	chr3	105850192	105850392	+	945.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20566.0	NM_027025	69296.0	Mm.235024	NM_027025	ENSMUSG00000000562	Tmigd3	1700001d09rik|4930578J19Rik|Tg(H2-K-CALR*)del52Shmd	transmembrane and immunoglobulin domain containing 3	protein-coding	3.0	2.5	3.5	63.0	49.5	4.5	15.0	10.0
Merged-chr8-60993089-5	chr8	60992976	60993176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293637)	promoter-TSS (NM_001293637)	-117.0	NM_001293637	18004.0	Mm.486881	NM_175089	ENSMUSG00000031644	Nek1	D8Ertd790e|kat	NIMA (never in mitosis gene a)-related expressed kinase 1	protein-coding	150.0	250.5	153.0	2202.0	499.0	187.0	253.0	141.5
Merged-chr16-38758693-4	chr16	38758588	38758788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152434, intron 4 of 6)	intron (NR_152434, intron 4 of 6)	16429.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	112.0	122.5	106.5	2343.0	247.0	85.0	135.0	116.0
Merged-chr4-126153063-4	chr4	126152969	126153169	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025856, intron 6 of 11)	intron (NM_025856, intron 6 of 11)	5066.0	NM_172145	230752.0	Mm.41569	NM_172145	ENSMUSG00000050212	Eva1b	2610027C15Rik|Fam176b	eva-1 homolog B (C. elegans)	protein-coding	17.0	34.0	32.5	480.0	53.5	13.0	35.5	51.5
Merged-chr2-19059487-4	chr2	19059386	19059586	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	61167.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	28.5	27.0	22.5	351.5	43.0	15.0	24.0	28.0
Merged-chr2-60076952-3	chr2	60076854	60077054	+	944.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	48786.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	12.5	28.5	18.0	299.0	12.0	8.0	21.0	7.0
Merged-chr2-60175341-3	chr2	60175244	60175444	+	833.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34592.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	14.0	15.0	18.5	161.5	20.5	9.0	7.0	12.5
Merged-chr4-149403182-2	chr4	149403082	149403282	+	813.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_022022, intron 1 of 26)	intron (NM_022022, intron 1 of 26)	23449.0	NM_022022	63958.0	Mm.415260	NM_022022	ENSMUSG00000028960	Ube4b	4930551I19Rik|4933406G05Rik|AU014668|D4Bwg0973e|UFD2|UFD2a|Ufd2p|mKIAA0684	ubiquitination factor E4B	protein-coding	7.0	13.0	8.5	40.0	12.5	0.0	1.0	1.5
Merged-chr11-29704765-2	chr11	29704665	29704865	+	789.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_194051, intron 1 of 8)	MLT1A|LTR|ERVL-MaLR	10991.0	NM_194051	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	1.0	2.5	1.0	82.0	10.5	4.5	6.0	8.0
Merged-chr10-36970941-3	chr10	36970814	36971014	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3630.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	3.5	3.5	5.5	106.5	25.5	6.5	7.0	5.0
Merged-chr7-118279711-4	chr7	118279625	118279825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35818.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	34.5	54.0	20.0	511.5	100.5	41.5	42.5	52.0
Merged-chr9-108079318-4	chr9	108079219	108079419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032543)	promoter-TSS (NM_032543)	-18.0	NM_001311152	84585.0	Mm.379272	NM_032543	ENSMUSG00000041528	Rnf123	BC003945|Kpc1	ring finger protein 123	protein-coding	29.0	67.5	20.5	350.5	84.5	33.0	33.0	40.0
Merged-chr8-108721035-4	chr8	108720918	108721118	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	6374.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	19.5	15.0	20.0	422.0	59.0	18.0	21.5	33.0
Merged-chr14-27336627-7	chr14	27336563	27336763	+	915.8214109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	626.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	8.0	15.0	8.5	67.5	26.0	6.5	4.5	12.5
Merged-chr7-100862075-3	chr7	100861982	100862182	+	633.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	1331.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	1.0	5.0	2.5	29.0	7.0	10.5	4.5	4.5
Merged-chr9-124015548-3	chr9	124015397	124015597	+	912.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-6474.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	7.0	7.0	10.5	144.5	9.0	0.0	5.5	3.5
Merged-chr6-4904217-3	chr6	4904113	4904313	+	929.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 1 of 15)	intron (NM_181595, intron 1 of 15)	893.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	8.0	14.0	11.0	267.5	23.5	9.5	10.0	5.0
Merged-chr3-146685234-4	chr3	146685105	146685305	+	880.761902	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-33888.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	8.5	6.0	2.5	85.5	19.0	10.0	8.0	7.5
Merged-chr11-116020235-4	chr11	116020092	116020292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4312.0	NM_008211	15081.0	Mm.18516	NM_008211	ENSMUSG00000016559	H3f3b	9430068D06Rik|H3.3B	H3 histone, family 3B	protein-coding	17.5	29.0	23.0	116.5	64.5	16.0	20.0	23.0
Merged-chr4-141871638-4	chr4	141871558	141871758	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	MIR3|SINE|MIR	3262.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	18.0	16.0	6.5	126.5	74.5	23.0	32.5	22.0
Merged-chr7-80026644-2	chr7	80026544	80026744	+	866.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	416.0	NM_175433	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	4.0	3.5	5.0	132.0	10.5	8.0	5.5	12.5
Merged-chr2-94406545-4	chr2	94406434	94406634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027831)	promoter-TSS (NR_027831)	155.0	NM_183106	74569.0	Mm.248504	NM_183106	ENSMUSG00000027194	Ttc17	9130020K17Rik|D2Bwg1005e	tetratricopeptide repeat domain 17	protein-coding	62.0	134.5	106.0	801.0	156.0	75.5	48.0	74.0
Merged-chr19-41775978-4	chr19	41775893	41776093	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027667, intron 9 of 11)	L1MB2|LINE|L1	26091.0	NM_001163495	71085.0	Mm.21646	NM_027667	ENSMUSG00000025154	Arhgap19	4933411B03Rik|AI120128|AW546831|mFLJ00368	Rho GTPase activating protein 19	protein-coding	18.5	14.0	17.0	280.0	51.0	17.0	23.5	44.5
Merged-chr5-102046874-4	chr5	102046775	102046975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	23046.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	30.5	49.5	57.5	920.5	64.0	26.0	64.5	43.0
Merged-chr5-66070067-4	chr5	66069983	66070183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	28096.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	67.0	69.5	41.0	1386.5	148.0	59.0	62.0	56.5
Merged-chr6-145121770-4	chr6	145121661	145121861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008511)	promoter-TSS (NM_008511)	22.0	NM_008511	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	145.5	188.5	181.5	1920.5	338.5	121.5	167.0	116.5
Merged-chr7-4203996-4	chr7	4203918	4204118	+	951.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33736.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	23.0	15.0	21.5	382.5	59.0	19.0	15.0	13.5
Merged-chr15-25858728-4	chr15	25858625	25858825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034851, intron 1 of 8)	intron (NM_001034851, intron 1 of 8)	15427.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	28.5	45.0	29.0	835.0	93.0	30.0	39.0	41.5
Merged-chr7-4501014-4	chr7	4500916	4501116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029834, intron 1 of 21)	intron (NM_029834, intron 1 of 21)	664.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	72.5	127.0	96.5	1184.5	202.5	55.5	90.5	69.5
Merged-chr1-171735117-4	chr1	171735009	171735209	+	895.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32023.0	NM_013730	27218.0	Mm.103648	NM_013730	ENSMUSG00000015316	Slamf1	4933415F16|AA177906|CD150|CDw150|ESTM51|IPO-3|Slam	signaling lymphocytic activation molecule family member 1	protein-coding	10.0	29.0	15.0	38.0	46.0	18.0	18.5	9.0
Merged-chr2-27043668-2	chr2	27043568	27043768	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15670.0	NM_001177627	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	9.0	11.0	4.5	49.0	5.5	5.0	11.0	10.5
Merged-chr11-109365053-4	chr11	109364967	109365167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359034, intron 1 of 2)	intron (NM_001359034, intron 1 of 2)	-1413.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	35.5	60.5	72.5	1070.5	99.0	29.5	52.5	42.5
Merged-chr7-19399977-2	chr7	19399877	19400077	+	701.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286038)	promoter-TSS (NM_001286038)	-56.0	NM_146182	232943.0	Mm.213403	NM_146182	ENSMUSG00000040714	Klc3	BC017147|Klct	kinesin light chain 3	protein-coding	5.0	7.0	9.5	56.5	20.5	9.0	8.0	8.0
Merged-chr2-91537763-4	chr2	91537658	91537858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165989, intron 1 of 43)	intron (NM_001165989, intron 1 of 43)	-8564.0	NM_029437	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	44.5	49.0	51.0	667.5	97.0	38.0	55.0	50.0
Merged-chr12-80113818-3	chr12	80113709	80113909	+	925.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007564)	promoter-TSS (NM_007564)	-796.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	21.5	14.0	14.5	135.0	19.0	8.0	9.5	16.0
Merged-chr19-10023385-4	chr19	10023251	10023451	+	925.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153790, intron 1 of 10)	intron (NR_153790, intron 1 of 10)	5157.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	8.5	13.0	10.0	127.5	25.0	5.5	8.0	11.0
Merged-chr7-80831681-4	chr7	80831588	80831788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19-int|LTR|ERVK	-28357.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	39.5	46.0	33.0	592.5	103.5	19.5	29.0	31.0
Merged-chr6-71272505-2	chr6	71272380	71272580	+	644.0	f0_balb.idr|f0_c57.idr	TTS (NR_106192)	TTS (NR_106192)	461.0	NM_145568	57896.0	Mm.250569	NM_145568	ENSMUSG00000053012	Krcc1	AA792894	lysine-rich coiled-coil 1	protein-coding	4.5	12.0	14.5	102.5	33.0	7.0	13.0	11.0
Merged-chr5-74632606-3	chr5	74632530	74632730	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159577, intron 2 of 10)	Kanga1c|DNA|TcMar-Tc2	45242.0	NM_001159580	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	37.0	59.5	27.5	458.5	29.5	3.5	4.0	9.0
Merged-chr7-122231359-4	chr7	122231267	122231467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HERVL74-int|LTR|ERVL	11871.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	78.0	124.5	107.0	1613.0	183.5	51.0	87.0	99.5
Merged-chr18-35664765-2	chr18	35664665	35664865	+	922.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21A|LTR|ERV1	-2579.0	NM_029485	71242.0	Mm.151498	NM_027733	ENSMUSG00000024352	Spata24	2700012K08Rik|4930583E11Rik|5133400G04Rik|AU016220|TIPT|TIPT2	spermatogenesis associated 24	protein-coding	9.0	5.5	10.0	60.5	5.5	3.0	3.0	8.0
Merged-chr2-170170391-4	chr2	170170291	170170491	+	878.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27716.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	12.5	22.5	16.5	185.5	43.5	23.5	19.5	14.5
Merged-chr6-113646024-2	chr6	113645924	113646124	+	758.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 1 of 11)	intron (NM_001113553, intron 1 of 11)	7557.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	7.0	6.0	5.0	48.5	7.0	3.5	3.0	5.0
Merged-chr11-69901684-4	chr11	69901595	69901795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316696)	promoter-TSS (NM_001316696)	-121.0	NM_001291118	216860.0	Mm.268347	NM_001013414	ENSMUSG00000047284	Neurl4	-	neuralized E3 ubiquitin protein ligase 4	protein-coding	62.0	111.0	53.0	550.0	190.5	82.5	67.5	82.0
Merged-chr2-132224483-4	chr2	132224381	132224581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23307.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	96.0	190.0	100.0	1497.5	231.5	77.5	113.5	101.0
Merged-chr12-101083672-4	chr12	101083616	101083816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_211355)	promoter-TSS (NM_211355)	-14.0	NM_001160214	68734.0	Mm.87077	NM_211355	ENSMUSG00000041846	Ppp4r3a	1110034C04Rik|BC064465|Smek1|mKIAA2010	protein phosphatase 4 regulatory subunit 3A	protein-coding	103.0	105.5	41.5	1341.0	247.5	103.0	104.5	130.0
Merged-chr7-30121860-4	chr7	30121783	30121983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081007)	promoter-TSS (NM_001081007)	-49.0	NM_001081007	233060.0	Mm.443484	NM_001081007	ENSMUSG00000074220	Zfp382	4930428B01Rik|5930415A09Rik|KS1|Znf382	zinc finger protein 382	protein-coding	66.5	63.0	43.5	1015.0	89.0	33.5	66.0	51.5
Merged-chr17-73027300-4	chr17	73027200	73027400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80685.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	61.0	67.5	81.5	1220.0	140.0	30.0	50.5	48.5
Merged-chr13-111725527-4	chr13	111725457	111725657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	39379.0	NM_172593	218613.0	Mm.31012	NM_172593	ENSMUSG00000032727	Mier3	5730509D14|AU015422|D130064H19Rik	MIER family member 3	protein-coding	105.0	176.0	124.0	1821.5	404.5	149.5	276.0	214.5
Merged-chr13-3771659-4	chr13	3771557	3771757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32661.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	23.0	38.0	29.5	291.0	44.5	4.0	13.0	11.5
Merged-chr13-60710154-3	chr13	60710053	60710253	+	995.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 3 of 26)	RSINE1|SINE|B4	76211.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	21.5	36.5	18.0	319.5	7.5	6.0	10.0	6.0
Merged-chr2-116971825-3	chr2	116971732	116971932	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71680.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	24.5	16.5	20.5	250.0	50.0	24.5	27.0	16.5
Merged-chr11-87987575-4	chr11	87987454	87987654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168472)	promoter-TSS (NM_001168472)	-21.0	NM_026556	68097.0	Mm.246436	NM_026556	ENSMUSG00000020483	Dynll2	1700064A15Rik|6720463E02Rik|C87222|DLC8|DLC8b|Dlc2	dynein light chain LC8-type 2	protein-coding	107.0	127.5	58.5	989.5	183.0	53.5	82.5	89.5
Merged-chr7-80371411-4	chr7	80371330	80371530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172903)	promoter-TSS (NM_172903)	-55.0	NM_172903	140481.0	Mm.269245	NM_172903	ENSMUSG00000038886	Man2a2	1700052O22Rik|4931438M07Rik|AI480988|MX|Man IIx	mannosidase 2, alpha 2	protein-coding	35.5	49.5	14.0	293.5	41.0	22.0	22.5	17.0
Merged-chr1-167618547-3	chr1	167618435	167618635	+	776.833374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159731, intron 1 of 8)	intron (NM_001159731, intron 1 of 8)	270.0	NM_001159731	20183.0	Mm.3475	NM_009107	ENSMUSG00000015843	Rxrg	Nr2b3	retinoid X receptor gamma	protein-coding	10.5	18.0	32.5	244.5	3.5	3.5	0.5	5.5
Merged-chr19-53807498-2	chr19	53807398	53807598	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 1 of 13)	MLT1D|LTR|ERVL-MaLR	-84733.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	0.0	2.0	1.0	55.5	11.0	6.5	6.5	10.5
Merged-chr11-72795688-4	chr11	72795579	72795779	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045536)	promoter-TSS (NM_001045536)	160.0	NM_001024926	192986.0	Mm.194755	NM_001024926	ENSMUSG00000057778	Cyb5d2	9330151E16Rik|Gm2	cytochrome b5 domain containing 2	protein-coding	15.0	28.0	32.0	310.5	36.5	13.5	17.5	23.0
Merged-chr14-32163618-2	chr14	32163518	32163718	+	939.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033988, intron 1 of 9)	URR1B|DNA|hAT-Charlie	-1968.0	NM_001284319	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	6.0	13.0	5.5	71.0	17.0	5.5	5.0	5.0
Merged-chr17-29514605-4	chr17	29514492	29514692	+	846.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23547.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	15.0	12.5	10.5	87.0	27.0	10.5	7.5	9.0
Merged-chr7-16149406-3	chr7	16149304	16149504	+	800.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347561, intron 4 of 8)	intron (NM_001347561, intron 4 of 8)	19578.0	NM_148946	110891.0	Mm.241147	NM_148946	ENSMUSG00000030376	Slc8a2	Ncx2	solute carrier family 8 (sodium/calcium exchanger), member 2	protein-coding	8.5	13.5	5.0	156.0	11.5	13.0	6.5	22.5
Merged-chr10-40529884-3	chr10	40529788	40529988	+	657.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-40474.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	10.5	13.5	8.0	59.0	21.0	4.5	8.5	7.5
Merged-chr18-79622468-4	chr18	79622374	79622574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-424421.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	27.0	34.5	46.5	705.5	72.5	23.0	44.0	42.5
Merged-chr1-144006707-4	chr1	144006615	144006815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2566.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	128.0	178.0	130.5	2144.0	311.5	132.0	106.0	103.5
Merged-chr6-94700209-3	chr6	94700077	94700277	+	966.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008377)	promoter-TSS (NM_008377)	-32.0	NM_008377	16206.0	Mm.245210	NM_008377	ENSMUSG00000030029	Lrig1	D6Bwg0781e|Img|LIG-1	leucine-rich repeats and immunoglobulin-like domains 1	protein-coding	10.0	6.0	10.5	173.5	7.5	3.0	4.5	2.5
Merged-chr17-73927156-4	chr17	73926990	73927190	+	945.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 6 of 35)	intron (NM_011723, intron 6 of 35)	23106.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	6.0	6.0	6.5	180.5	21.0	1.0	15.5	7.5
Merged-chr9-85748905-4	chr9	85748814	85749014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175371, intron 1 of 27)	CpG	420.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	40.0	60.5	46.0	672.0	118.0	45.5	62.5	60.5
Merged-chr10-81649041-4	chr10	81648934	81649134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142963)	promoter-TSS (NM_001142963)	-35.0	NM_001142963	100233208.0	Mm.327168	NM_001142963	ENSMUSG00000096856	Gm10778	-	predicted gene 10778	protein-coding	86.0	131.5	72.5	849.5	229.0	99.0	120.0	72.0
Merged-chr19-10295377-4	chr19	10295260	10295460	+	868.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198114, intron 1 of 19)	intron (NM_198114, intron 1 of 19)	9517.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	17.0	12.0	7.0	211.0	19.5	7.0	11.0	10.5
Merged-chr9-123953779-4	chr9	123953699	123953899	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	14893.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	24.0	31.5	38.0	518.0	33.5	13.5	12.5	23.0
Merged-chr11-70130116-3	chr11	70130021	70130221	+	847.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145137)	promoter-TSS (NM_145137)	-236.0	NM_145137	216864.0	Mm.222465	NM_145137	ENSMUSG00000040950	Mgl2	CD301b	macrophage galactose N-acetyl-galactosamine specific lectin 2	protein-coding	18.0	6.5	7.5	104.5	19.0	5.5	7.0	11.0
Merged-chr11-3539333-4	chr11	3539255	3539455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284429)	promoter-TSS (NM_001284429)	-63.0	NM_001284428	29856.0	Mm.188516	NM_013870	ENSMUSG00000020439	Smtn	smsmo	smoothelin	protein-coding	115.5	138.0	86.5	1680.0	189.5	49.5	122.0	88.0
Merged-chr2-157069653-4	chr2	157069558	157069758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	9607.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	45.0	64.5	62.0	734.0	62.0	19.0	27.0	23.5
Merged-chr15-64186038-4	chr15	64185963	64186163	+	965.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	-125615.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	17.5	26.0	32.0	343.0	50.5	12.5	24.5	19.0
Merged-chr9-13555834-4	chr9	13555710	13555910	+	964.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64179.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	23.0	33.0	9.5	243.0	41.5	13.5	14.0	15.5
Merged-chr1-36918136-3	chr1	36918022	36918222	+	804.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	intron (NM_018872, intron 1 of 40)	21405.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	10.5	18.5	4.5	109.5	19.0	5.0	6.5	5.5
Merged-chr10-62509370-4	chr10	62509289	62509489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 1 of 3)	MTE2a|LTR|ERVL-MaLR	-1632.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	112.0	127.0	137.0	1936.0	188.0	69.0	102.5	92.0
Merged-chr3-104865071-4	chr3	104864978	104865178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355044)	promoter-TSS (NM_001355044)	572.0	NM_001253702	229681.0	Mm.206379	NM_153091	ENSMUSG00000045576	St7l	St7r	suppression of tumorigenicity 7-like	protein-coding	25.5	46.0	58.0	280.0	73.5	29.5	35.5	38.0
Merged-chr2-146099969-3	chr2	146099895	146100095	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122002.0	NM_016889	53626.0	Mm.379070	NM_016889	ENSMUSG00000068154	Insm1	IA-1	insulinoma-associated 1	protein-coding	30.5	25.5	61.5	376.5	14.5	9.0	6.0	7.0
Merged-chr2-35496106-4	chr2	35496003	35496203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34654.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	54.5	51.0	47.5	782.5	102.5	38.0	41.5	46.0
Merged-chr2-52891318-4	chr2	52891225	52891425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	MLT1F|LTR|ERVL-MaLR	33457.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	48.5	40.0	55.5	863.0	60.0	23.0	25.0	29.0
Merged-chr17-15830902-4	chr17	15830813	15831013	+	961.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-4327.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	21.5	16.0	10.0	232.5	43.5	11.5	10.5	18.5
Merged-chr14-121346732-4	chr14	121346619	121346819	+	905.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 1 of 10)	intron (NM_145465, intron 1 of 10)	32511.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	12.5	32.0	31.5	212.5	35.0	11.0	12.0	7.5
Merged-chr1-152573865-4	chr1	152573762	152573962	+	890.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 3 of 17)	intron (NM_016846, intron 3 of 17)	51355.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	22.0	31.5	10.5	362.0	29.0	9.0	9.5	15.0
Merged-chr11-31870762-4	chr11	31870562	31870762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290676)	promoter-TSS (NM_001290676)	-278.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	93.5	153.0	116.5	1344.5	281.5	151.0	191.0	140.5
Merged-chr7-88259859-4	chr7	88259760	88259960	+	863.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-18225.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	9.0	17.5	10.0	153.5	16.5	13.5	14.5	12.0
Merged-chr13-60744289-4	chr13	60744177	60744377	+	860.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 19 of 26)	intron (NM_134062, intron 19 of 26)	42087.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	11.5	18.5	10.0	108.5	33.0	9.0	11.0	16.0
Merged-chr19-41337046-4	chr19	41336925	41337125	+	841.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	48045.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	8.5	12.5	12.0	158.5	25.0	10.5	15.0	21.5
Merged-chr17-84334464-4	chr17	84334357	84334557	+	979.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 27 of 37)	intron (NM_183021, intron 27 of 37)	131751.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	15.5	19.5	19.0	214.5	38.0	16.0	26.5	22.5
Merged-chr16-77019709-1	chr16	77019609	77019809	+	622.5	f0_balb.idr	intron (NM_013918, intron 1 of 23)	intron (NM_013918, intron 1 of 23)	5640.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	6.0	4.5	5.0	93.5	11.5	4.5	1.5	6.5
Merged-chr4-43476910-2	chr4	43476834	43477034	+	892.125	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6775.0	NM_019436	54390.0	Mm.31775	NM_019436	ENSMUSG00000028460	Sit1	Sit	suppression inducing transmembrane adaptor 1	protein-coding	3.5	2.0	3.0	111.0	13.5	7.0	9.5	5.0
Merged-chr14-50930476-4	chr14	50930423	50930623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310507, intron 1 of 5)	CpG	326.0	NM_001310506	219024.0	Mm.239117	NM_001033271	ENSMUSG00000035953	Tmem55b	BC039161|Pip4p1	transmembrane protein 55b	protein-coding	39.0	84.5	50.5	904.0	89.0	40.0	33.0	50.5
Merged-chr10-127420793-4	chr10	127420707	127420907	+	965.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168293)	promoter-TSS (NM_001168293)	-60.0	NM_027900	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	36.0	96.0	11.5	147.5	95.5	42.5	34.0	27.5
Merged-chr4-88094584-4	chr4	88094502	88094702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081184)	promoter-TSS (NM_001081184)	-28.0	NM_001081184	230393.0	Mm.287210	NM_001081184	ENSMUSG00000038368	Focad	-	focadhesin	protein-coding	271.0	379.0	289.5	4925.0	645.0	211.5	370.0	252.5
Merged-chr2-127335418-4	chr2	127335282	127335482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010090)	promoter-TSS (NM_010090)	-777.0	NM_010090	13537.0	Mm.4729	NM_010090	ENSMUSG00000027368	Dusp2	PAC1	dual specificity phosphatase 2	protein-coding	80.5	165.0	90.5	732.5	263.0	139.0	100.5	101.5
Merged-chr4-95307302-4	chr4	95307200	95307400	+	983.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-250207.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	25.0	14.0	26.0	430.0	76.0	11.0	44.5	31.5
Merged-chr10-81525238-3	chr10	81525127	81525327	+	860.833374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1002.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	6.5	7.0	3.5	79.0	16.5	8.5	10.5	8.5
Merged-chr10-127676898-4	chr10	127676777	127676977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113211)	promoter-TSS (NM_001113211)	-188.0	NM_173732	210035.0	Mm.251075	NM_173732	ENSMUSG00000040195	Nemp1	Tmem194|Tmem194a	nuclear envelope integral membrane protein 1	protein-coding	219.0	278.0	175.0	2436.0	586.0	238.5	243.5	189.5
Merged-chr10-17629920-4	chr10	17629822	17630022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-93306.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	35.0	50.5	41.0	637.0	85.5	20.5	45.0	25.5
Merged-chr18-88924507-3	chr18	88924388	88924588	+	972.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30281.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	17.0	11.0	21.0	454.0	15.0	2.5	5.5	9.0
Merged-chr17-8149603-4	chr17	8149513	8149713	+	822.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1781.0	NM_026611	68195.0	Mm.181237	NM_026611	ENSMUSG00000094724	Rnaset2b	0610007O07Rik|4833423A10Rik|4930532K22Rik|C79750|RNASE6PL|Rnaset2	ribonuclease T2B	protein-coding	11.0	25.5	15.5	86.5	30.0	5.0	3.5	21.0
Merged-chr3-69156642-4	chr3	69156531	69156731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126533, intron 2 of 2)	intron (NR_126533, intron 2 of 2)	25398.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	124.0	208.0	94.5	1963.5	306.5	95.0	216.0	121.5
Merged-chr14-19777618-4	chr14	19777519	19777719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008695, intron 4 of 20)	intron (NM_008695, intron 4 of 20)	26362.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	73.5	106.0	83.0	1121.0	136.0	40.0	43.5	33.0
Merged-chr11-101708641-4	chr11	101708530	101708730	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24326.0	NM_144831	217207.0	Mm.28186	NM_144831	ENSMUSG00000034931	Dhx8	Ddx8|mDEAH6|mKIAA4096	DEAH (Asp-Glu-Ala-His) box polypeptide 8	protein-coding	23.5	19.5	19.0	380.5	60.0	12.5	30.5	24.0
Merged-chr10-75935816-4	chr10	75935732	75935932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175329, exon 2 of 5)	5' UTR (NM_175329, exon 2 of 5)	2702.0	NM_175329	103172.0	Mm.333849	NM_175329	ENSMUSG00000049422	Chchd10	1620401E04Rik|AI267078|Ndg2	coiled-coil-helix-coiled-coil-helix domain containing 10	protein-coding	70.5	98.5	64.0	1187.5	150.0	58.0	68.0	68.0
Merged-chr5-99235656-3	chr5	99235572	99235772	+	789.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145839, intron 4 of 13)	intron (NM_145839, intron 4 of 13)	17255.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	8.5	14.0	5.5	15.5	13.0	7.5	6.0	2.0
Merged-chr6-136659456-4	chr6	136659354	136659554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	2439.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	78.0	127.5	60.0	1149.5	213.5	63.0	69.5	87.0
Merged-chr2-140066796-4	chr2	140066687	140066887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110350)	promoter-TSS (NR_110350)	18.0	NM_001159640	75812.0	Mm.293449	NM_175225	ENSMUSG00000039033	Tasp1	4930485D02Rik|AW986064	taspase, threonine aspartase 1	protein-coding	299.0	473.0	330.5	5812.0	747.0	302.0	471.5	306.0
Merged-chr3-104791030-4	chr3	104790939	104791139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291859, intron 1 of 4)	intron (NM_001291859, intron 1 of 4)	2005.0	NM_001291859	11853.0	Mm.262	NM_007484	ENSMUSG00000002233	Rhoc	AI324259|Arh9|Arhc	ras homolog family member C	protein-coding	46.5	112.0	104.5	988.0	68.5	35.0	22.5	45.0
Merged-chr12-99965798-4	chr12	99965724	99965924	+	969.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_146037, exon 2 of 3)	5' UTR (NM_146037, exon 2 of 3)	1325.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	20.5	25.0	36.0	376.5	33.5	11.5	28.5	27.0
Merged-chr1-82291579-4	chr1	82291500	82291700	+	954.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010570)	promoter-TSS (NM_010570)	-161.0	NM_010570	16367.0	Mm.4952	NM_010570	ENSMUSG00000055980	Irs1	G972R|IRS-1	insulin receptor substrate 1	protein-coding	17.0	26.5	18.0	281.5	41.5	10.5	15.0	25.0
Merged-chr2-102825045-1	chr2	102824945	102825145	+	573.0	f0_c57.idr	intron (NM_001039150, intron 11 of 13)	MTD|LTR|ERVL-MaLR	76620.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	5.0	1.0	1.5	11.0	28.0	6.0	9.0	4.5
Merged-chr11-97394349-3	chr11	97394258	97394458	+	905.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_138657, exon 10 of 10)	3' UTR (NM_138657, exon 10 of 10)	31807.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	10.0	15.5	11.0	130.5	16.0	6.0	9.0	6.0
Merged-chr1-106020043-3	chr1	106019941	106020141	+	863.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 8 of 12)	intron (NM_001122675, intron 8 of 12)	29635.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	10.0	13.5	7.0	90.0	11.0	12.0	6.0	11.5
Merged-chr2-119478047-4	chr2	119478034	119478234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026574)	promoter-TSS (NM_026574)	-505.0	NM_026574	68142.0	Mm.330496	NM_026574	ENSMUSG00000034154	Ino80	2310079N15Rik|4632409L19Rik|Inoc1	INO80 complex subunit	protein-coding	67.0	132.0	62.0	533.0	156.5	61.5	37.0	58.5
Merged-chr5-20934793-4	chr5	20934709	20934909	+	904.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080977, intron 1 of 7)	intron (NM_001080977, intron 1 of 7)	-16180.0	NR_030699	320770.0	Mm.491217	NR_030699	ENSMUSG00000101013	A630072M18Rik	Aptr	RIKEN cDNA A630072M18 gene	ncRNA	15.5	13.0	19.0	264.0	28.0	15.5	4.0	8.0
Merged-chr3-65518034-4	chr3	65517933	65518133	+	961.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-10414.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	14.5	32.0	18.5	278.5	39.5	16.5	17.5	11.0
Merged-chr1-155076129-4	chr1	155076025	155076225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 3 of 6)	intron (NR_151545, intron 3 of 6)	7139.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	66.0	73.5	91.0	1111.5	155.0	31.5	68.5	79.0
Merged-chr14-120394978-4	chr14	120394856	120395056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360379, intron 5 of 6)	intron (NM_001360379, intron 5 of 6)	-83505.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	23.0	48.5	46.5	633.0	89.5	23.0	45.0	29.0
Merged-chr2-167375331-4	chr2	167375235	167375435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26157.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	231.5	416.5	236.0	3336.0	547.5	262.0	226.0	263.0
Merged-chr7-44835612-4	chr7	44835507	44835707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010215)	promoter-TSS (NM_010215)	-681.0	NM_010215	14204.0	Mm.2565	NM_010215	ENSMUSG00000074141	Il4i1	Fig1|Fig1-ps|LAAO|LAO	interleukin 4 induced 1	protein-coding	40.5	143.5	40.5	93.0	94.5	40.0	22.0	9.5
Merged-chr3-96578346-4	chr3	96578248	96578448	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001293701, exon 7 of 7)	3' UTR (NM_001293701, exon 7 of 7)	-11547.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	20.5	31.5	5.0	47.0	63.0	12.0	10.0	9.0
Merged-chr13-111936583-2	chr13	111936483	111936683	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LFSINE_Vert|SINE|tRNA	68647.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	13.0	11.0	16.5	333.0	36.0	11.5	10.0	19.5
Merged-chr5-139388345-4	chr5	139388238	139388438	+	949.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030258, intron 1 of 1)	intron (NM_030258, intron 1 of 1)	-1566.0	NM_001038703	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	20.5	19.5	20.0	358.0	43.0	10.5	13.0	17.0
Merged-chr11-80508664-4	chr11	80508538	80508738	+	837.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126552, exon 1 of 3)	non-coding (NR_126552, exon 1 of 3)	468.0	NR_126552	77417.0	Mm.437510	NR_126552	ENSMUSG00000085078	C030013C21Rik	-	RIKEN cDNA C030013C21 gene	ncRNA	11.5	16.0	6.5	87.5	27.5	7.5	7.5	5.5
Merged-chr12-76473868-1	chr12	76473768	76473968	+	714.0	f0_balb.idr	Intergenic	Intergenic	29371.0	NR_028520	100041694.0	Mm.259350	NR_028520	ENSMUSG00000073000	Gm10451	-	predicted gene 10451	ncRNA	7.5	11.0	8.5	91.5	8.5	10.5	3.5	5.5
Merged-chr17-21474875-4	chr17	21474779	21474979	+	869.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-14109.0	NM_013843	24132.0	Mm.42140	NM_013843	ENSMUSG00000057409	Zfp53	D030067O06Rik|KRAZ1|Zfp-53|Zfp118|zfas8	zinc finger protein 53	protein-coding	11.5	20.0	15.0	54.0	42.5	7.0	9.5	19.0
Merged-chr9-101074527-4	chr9	101074435	101074635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001100451)	promoter-TSS (NM_001100451)	-227.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	85.5	138.5	79.0	1352.0	266.5	120.0	189.5	105.0
Merged-chr2-132169367-4	chr2	132169288	132169488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-24068.0	NM_001355430	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	128.0	232.5	133.0	1958.0	300.0	117.0	160.5	144.0
Merged-chr5-117373619-4	chr5	117373503	117373703	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 4 of 8)	intron (NM_021539, intron 4 of 8)	15420.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	41.5	41.5	61.0	456.5	77.0	15.0	18.0	12.0
Merged-chr13-52100245-4	chr13	52100173	52100373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045061, intron 3 of 7)	intron (NR_045061, intron 3 of 7)	3532.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	81.5	129.5	113.5	1409.5	188.0	62.5	80.5	75.5
Merged-chr11-107012390-4	chr11	107012283	107012483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12858.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	58.0	104.0	30.5	585.5	103.0	33.5	38.0	31.5
Merged-chr16-33347339-4	chr16	33347221	33347421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33415.0	NR_045709	100502742.0	Mm.217880	NR_045709	ENSMUSG00000097318	1700007L15Rik	linc-Iqcg|linc1609	RIKEN cDNA 1700007L15 gene	ncRNA	48.0	64.0	31.0	425.0	97.0	40.5	54.0	43.0
Merged-chr17-32788355-4	chr17	32788274	32788474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346705)	promoter-TSS (NM_001346705)	-87.0	NM_172458	208292.0	Mm.38813	NM_172458	ENSMUSG00000024298	Zfp871	4732483N19|9030612M13Rik|AI118577|AI265322|mKIAA3006	zinc finger protein 871	protein-coding	53.0	88.5	57.5	825.5	144.0	81.0	64.5	72.5
Merged-chr19-6933983-4	chr19	6933905	6934105	+	805.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008431, intron 1 of 6)	CpG	510.0	NM_008431	16528.0	Mm.12894	NM_008431	ENSMUSG00000024957	Kcnk4	Catsperz|MLZ-622|TRAAK|TRAAKt|Tex40	potassium channel, subfamily K, member 4	protein-coding	5.0	7.5	3.5	109.5	24.5	6.0	9.5	13.5
Merged-chr1-16657101-4	chr1	16656997	16657197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037998)	promoter-TSS (NR_037998)	22.0	NM_001310470	67923.0	Mm.289248	NM_026456	ENSMUSG00000079658	Eloc	2610043E24Rik|2610301I15Rik|AA407206|AI987979|AW049146|Tceb1	elongin C	protein-coding	181.0	289.0	209.0	3469.5	538.5	208.0	239.0	193.5
Merged-chr1-54910063-4	chr1	54909949	54910149	+	841.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	16338.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	9.5	12.0	10.5	246.0	26.0	25.0	15.5	13.5
Merged-chr12-72084374-4	chr12	72084267	72084467	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026038, intron 1 of 4)	intron (NM_026038, intron 1 of 4)	946.0	NM_026038	67217.0	Mm.286120	NM_026038	ENSMUSG00000019718	L3hypdh	2810055F11Rik	L-3-hydroxyproline dehydratase (trans-)	protein-coding	9.0	19.5	14.0	305.0	26.0	7.5	23.0	28.5
Merged-chr11-70945467-4	chr11	70945355	70945555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083331, intron 10 of 16)	intron (NM_001083331, intron 10 of 16)	24518.0	NM_172394	19069.0	Mm.288962	NM_172394	ENSMUSG00000040667	Nup88	Nup84|Prei2	nucleoporin 88	protein-coding	23.5	41.0	32.0	629.0	39.0	19.0	30.0	21.5
Merged-chr10-25297132-4	chr10	25297051	25297251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	CpG	2012.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	68.5	100.0	37.5	793.0	136.5	35.5	68.0	39.0
Merged-chr7-73535610-2	chr7	73535510	73535710	+	864.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	intron (NM_001081345, intron 2 of 38)	6136.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	4.5	8.5	6.0	15.5	10.0	1.5	5.0	6.0
Merged-chr11-114229965-4	chr11	114229882	114230082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_A_Mam|LINE|RTE-X	31724.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	32.5	37.5	45.5	344.5	175.0	20.0	55.5	67.5
Merged-chr11-46811629-4	chr11	46811516	46811716	+	910.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178759, intron 1 of 8)	intron (NM_178759, intron 1 of 8)	817.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	11.0	25.0	14.0	142.0	31.5	8.5	12.0	12.0
Merged-chr15-58140968-1	chr15	58140868	58141068	+	1000.0	f0_balb.idr	promoter-TSS (NM_001326599)	promoter-TSS (NM_001326599)	-398.0	NM_001326602	76773.0	Mm.26771	NM_029734	ENSMUSG00000022359	Wdyhv1	2410187C16Rik|AU014961|AW550036|Ntaq1	WDYHV motif containing 1	protein-coding	20.0	21.5	21.0	294.5	19.0	13.5	9.5	29.5
Merged-chr16-57534557-4	chr16	57534440	57534640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-14702.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	26.0	33.0	40.5	620.5	78.0	17.5	24.5	32.5
Merged-chr17-56033070-4	chr17	56032969	56033169	+	892.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013664, intron 1 of 9)	intron (NM_013664, intron 1 of 9)	3568.0	NM_013664	20405.0	Mm.1773	NM_013664	ENSMUSG00000003200	Sh3gl1	C77078|EEN|SH3P8|Sh3d2b	SH3-domain GRB2-like 1	protein-coding	18.0	13.0	19.0	280.0	23.5	7.5	11.5	9.5
Merged-chr3-28171973-2	chr3	28171873	28172073	+	596.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91241.0	NM_001163007	665113.0	Mm.126193	NM_026910	ENSMUSG00000027692	Tnik	1500031A17Rik|4831440I19Rik|AI451411|C530008O15Rik|C630040K21Rik	TRAF2 and NCK interacting kinase	protein-coding	5.5	6.5	6.0	40.5	15.5	4.0	5.0	8.0
Merged-chr5-115236028-4	chr5	115235935	115236135	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026398, intron 1 of 5)	intron (NM_026398, intron 1 of 5)	184.0	NM_026398	117109.0	Mm.24636	NM_026398	ENSMUSG00000060152	Pop5	1500019J17Rik|2700077E03Rik|AW049989|Rnasep3	processing of precursor 5, ribonuclease P/MRP family (S. cerevisiae)	protein-coding	15.5	35.0	21.0	210.5	48.0	26.5	26.0	19.0
Merged-chr11-69654690-3	chr11	69654632	69654832	+	930.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009235)	promoter-TSS (NM_009235)	-305.0	NM_009235	20670.0	Mm.347499	NM_009235	ENSMUSG00000041287	Sox15	-	SRY (sex determining region Y)-box 15	protein-coding	7.5	5.0	13.0	109.5	8.0	5.0	5.5	5.5
Merged-chr4-132532814-4	chr4	132532771	132532971	+	799.7559809999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007512, intron 3 of 3)	intron (NM_007512, intron 3 of 3)	2543.0	NM_007512	11983.0	Mm.2171	NM_007512	ENSMUSG00000054428	Atpif1	Atpi|IF(1)|If1	ATPase inhibitory factor 1	protein-coding	6.5	5.5	6.5	74.0	17.5	6.0	0.0	6.0
Merged-chr5-144931993-4	chr5	144931883	144932083	+	938.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038627, intron 1 of 17)	intron (NM_001038627, intron 1 of 17)	33847.0	NM_001038627	75788.0	Mm.27735	NM_029438	ENSMUSG00000038780	Smurf1	4930431E10Rik|mKIAA1625	SMAD specific E3 ubiquitin protein ligase 1	protein-coding	14.5	18.5	18.5	301.0	36.5	7.0	15.0	17.5
Merged-chr8-13106434-2	chr8	13106334	13106534	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146207, intron 2 of 19)	intron (NM_146207, intron 2 of 19)	713.0	NM_146207	99375.0	Mm.212861	NM_146207	ENSMUSG00000031446	Cul4a	2810470J21Rik|AW495282	cullin 4A	protein-coding	11.5	11.0	18.5	157.5	23.5	16.5	19.5	26.5
Merged-chr18-42009875-1	chr18	42009775	42009975	+	868.0	f0_balb.idr	Intergenic	MER20B|DNA|hAT-Charlie	-10826.0	NM_001033426	332309.0	Mm.240520	NM_001033426	ENSMUSG00000073574	Grxcr2	Gm851	glutaredoxin, cysteine rich 2	protein-coding	8.5	9.5	8.5	196.5	9.5	3.5	8.5	9.0
Merged-chr15-81027806-4	chr15	81027673	81027873	+	882.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 3 of 13)	intron (NM_001082536, intron 3 of 13)	50008.0	NM_134091	105835.0	Mm.274943	NM_134091	ENSMUSG00000042303	Sgsm3	1810012I01Rik|AI428557|BB175482|Cip85|R75178|RUSC3|Rutbc3	small G protein signaling modulator 3	protein-coding	6.0	12.0	3.5	139.5	29.5	4.5	8.0	6.5
Merged-chr10-43703250-5	chr10	43703153	43703353	+	973.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A2|LTR|ERVK	-42905.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	10.0	20.0	16.5	215.5	59.0	13.0	17.5	16.0
Merged-chr12-3297806-4	chr12	3297666	3297866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	B1_Mm|SINE|Alu	12203.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	55.5	105.5	86.5	475.0	167.5	69.0	90.5	52.5
Merged-chr3-61412736-4	chr3	61412710	61412910	+	709.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48303.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	10.5	8.0	5.0	100.0	9.5	7.0	5.5	3.5
Merged-chr2-117404722-4	chr2	117404631	117404831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61854.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	25.5	48.5	45.0	531.0	90.0	31.0	37.0	18.5
Merged-chr17-66112470-3	chr17	66112351	66112551	+	854.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037757, intron 1 of 10)	RMER15|LTR|ERVL	806.0	NM_001037757	68767.0	Mm.296545	NM_026833	ENSMUSG00000024101	Washc1	1110049F14Rik|ORF19|Wash|Wash1	WASH complex subunit 1	protein-coding	10.5	29.5	10.5	55.5	22.0	12.5	6.0	3.0
Merged-chr16-36639984-4	chr16	36639900	36640100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	26077.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	69.0	116.5	107.5	1282.5	197.0	64.0	105.0	75.0
Merged-chr1-125459301-4	chr1	125459176	125459376	+	854.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-23549.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	14.0	5.0	6.0	160.5	25.5	6.5	15.0	10.0
Merged-chr5-134231647-4	chr5	134231524	134231724	+	966.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1999.0	NR_104383	17969.0	Mm.425296	NM_010876	ENSMUSG00000015950	Ncf1	NCF-47K|NOXO2|Ncf-1|p47-phox|p47<phox>|p47phox	neutrophil cytosolic factor 1	protein-coding	27.5	37.5	36.0	587.5	41.5	11.5	23.5	13.0
Merged-chr13-97241099-4	chr13	97240978	97241178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007930)	promoter-TSS (NM_007930)	-27.0	NM_007930	13803.0	Mm.241073	NM_007930	ENSMUSG00000041773	Enc1	Nrpb|PIG10	ectodermal-neural cortex 1	protein-coding	168.0	204.0	140.0	2821.0	366.5	94.5	182.5	126.0
Merged-chr11-63078195-4	chr11	63078091	63078291	+	934.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027660, intron 4 of 7)	intron (NM_027660, intron 4 of 7)	16532.0	NM_027660	71062.0	Mm.23534	NM_027660	ENSMUSG00000042189	Tekt3	4933407G07Rik	tektin 3	protein-coding	11.5	13.5	29.0	280.0	12.5	4.5	18.5	16.5
Merged-chr6-29484845-4	chr6	29484706	29484906	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029985, intron 34 of 37)	intron (NM_001029985, intron 34 of 37)	13369.0	NM_001145360	668210.0	Mm.420607	NM_001145360	ENSMUSG00000090685	Gm9047	EG668210	predicted gene 9047	protein-coding	28.0	23.5	15.0	218.0	51.0	14.5	26.5	15.0
Merged-chr2-4401314-3	chr2	4401234	4401434	+	693.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001177843, exon 1 of 24)	5' UTR (NM_001177843, exon 1 of 24)	358.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	4.0	0.5	8.0	81.0	17.5	10.5	7.5	12.5
Merged-chr9-62363838-3	chr9	62363750	62363950	+	991.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	CpG	22507.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	20.0	29.0	13.0	341.5	11.0	3.5	2.0	5.0
Merged-chr7-66839593-4	chr7	66839495	66839695	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033877)	promoter-TSS (NM_001033877)	-140.0	NM_001033877	233332.0	Mm.445763	NM_001033877	ENSMUSG00000058145	Adamts17	AU023434	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 17	protein-coding	30.0	56.0	15.5	467.5	38.5	13.0	24.0	17.0
Merged-chr5-93206483-4	chr5	93206398	93206598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017367)	promoter-TSS (NM_017367)	-3.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	89.5	106.0	49.5	835.0	238.5	86.5	123.5	78.5
Merged-chr17-74123185-4	chr17	74123098	74123298	+	925.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75282.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	10.0	30.0	7.0	309.5	50.5	12.5	18.0	35.5
Merged-chr1-16295009-3	chr1	16294898	16295098	+	819.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111272, intron 11 of 12)	intron (NM_001111272, intron 11 of 12)	189116.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	8.5	24.5	10.5	210.0	9.5	2.0	3.5	13.0
Merged-chr5-34538105-4	chr5	34538006	34538206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	-5259.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	39.0	42.0	37.5	481.0	36.5	14.0	24.5	21.5
Merged-chr7-100493331-4	chr7	100493211	100493411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011671)	promoter-TSS (NM_011671)	-47.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	117.5	154.0	85.0	1130.0	237.0	106.0	89.0	69.0
Merged-chr2-24316985-4	chr2	24316872	24317072	+	730.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-19888.0	NM_031167	16181.0	Mm.882	NM_031167	ENSMUSG00000026981	Il1rn	F630041P17Rik|IL-1ra	interleukin 1 receptor antagonist	protein-coding	2.5	20.0	10.0	112.0	28.5	6.0	15.0	12.5
Merged-chr13-54789912-2	chr13	54789796	54789996	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028841, intron 1 of 7)	CpG	491.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	6.5	11.0	6.5	104.0	20.5	7.5	4.5	5.0
Merged-chr10-9882030-4	chr10	9881922	9882122	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	MTB_Mm|LTR|ERVL-MaLR	19018.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	19.5	19.0	19.0	199.0	59.5	9.5	8.5	28.0
Merged-chr7-44528151-4	chr7	44528049	44528249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019866, exon 6 of 6)	exon (NM_019866, exon 6 of 6)	-3480.0	NM_146189	233199.0	Mm.358888	NM_146189	ENSMUSG00000038670	Mybpc2	-	myosin binding protein C, fast-type	protein-coding	53.0	61.0	31.5	881.5	63.5	23.0	42.0	40.5
Merged-chr13-69545188-3	chr13	69545087	69545287	+	880.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11323.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	9.0	8.5	3.5	120.0	20.0	7.5	7.5	8.5
Merged-chr14-34549503-4	chr14	34549392	34549592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039071, intron 8 of 12)	CpG	-26691.0	NM_030062	78243.0	Mm.117483	NM_030062	ENSMUSG00000021797	9230112D13Rik	-	RIKEN cDNA 9230112D13 gene	protein-coding	20.5	42.0	61.5	505.0	51.0	24.0	29.0	24.5
Merged-chr4-101302274-4	chr4	101302160	101302360	+	931.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36978.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	12.5	6.5	13.5	155.5	29.5	8.5	12.5	12.0
Merged-chr6-31385780-4	chr6	31385679	31385879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040300, intron 2 of 2)	intron (NR_040300, intron 2 of 2)	12994.0	NR_040300	100503869.0	Mm.370532	NR_040300	ENSMUSG00000086212	Mkln1os	Gm13845	muskelin 1, intracellular mediator containing kelch motifs, opposite strand	ncRNA	52.0	55.5	40.0	984.5	110.0	48.0	80.0	70.0
Merged-chr8-106011444-4	chr8	106011362	106011562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025518)	promoter-TSS (NM_025518)	-16.0	NM_025518	66369.0	Mm.287500	NM_025518	ENSMUSG00000031901	Dus2	2310016K04Rik|Dus2l	dihydrouridine synthase 2	protein-coding	40.0	47.0	25.5	565.0	117.5	52.5	45.0	56.5
Merged-chr12-108914212-3	chr12	108914139	108914339	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 2 of 6)	intron (NM_177602, intron 2 of 6)	19967.0	NM_177602	212198.0	Mm.342082	NM_177602	ENSMUSG00000040877	Wdr25	B930090D16Rik	WD repeat domain 25	protein-coding	24.0	34.0	19.5	290.0	19.5	9.0	9.0	10.0
Merged-chr19-29241727-4	chr19	29241620	29241820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10083.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	69.5	95.5	55.5	710.0	169.5	68.0	73.0	63.0
Merged-chr7-110616452-3	chr7	110616345	110616545	+	868.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-1525.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	4.5	7.5	13.0	35.0	19.0	4.0	11.0	8.0
Merged-chr3-21955866-4	chr3	21955776	21955976	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120776.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	25.5	20.5	26.0	568.5	42.0	27.0	34.0	18.0
Merged-chr19-8820548-2	chr19	8820448	8820648	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001081196, exon 1 of 14)	exon (NM_001081196, exon 1 of 14)	1147.0	NM_001081196	68693.0	Mm.476519	NM_001081196	ENSMUSG00000071659	Hnrnpul2	1110031M08Rik|AI465155|Hnrpul2	heterogeneous nuclear ribonucleoprotein U-like 2	protein-coding	21.0	33.0	29.0	244.5	62.5	22.5	15.5	26.5
Merged-chr8-69749699-4	chr8	69749593	69749793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001200023, intron 1 of 3)	CpG	269.0	NM_001200023	620419.0	Mm.460423	NM_001200023	ENSMUSG00000092260	Zfp963	-	zinc finger protein 963	protein-coding	103.0	132.5	86.5	1477.0	309.0	130.0	162.0	137.5
Merged-chr9-42126882-4	chr9	42126779	42126979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2582.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	19.5	28.5	16.5	363.0	57.5	34.0	35.0	29.5
Merged-chr17-24220793-4	chr17	24220694	24220894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028056)	promoter-TSS (NM_028056)	57.0	NM_028056	72016.0	Mm.23881	NM_028056	ENSMUSG00000024118	Tedc2	1600002H07Rik	tubulin epsilon and delta complex 2	protein-coding	144.0	179.0	78.0	1731.5	235.5	78.0	121.0	83.0
Merged-chr10-15262545-4	chr10	15262471	15262671	+	965.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB2_1A-I_MM-int|LTR|ERVK	502282.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	44.0	60.0	61.0	882.5	46.5	21.5	19.5	13.5
Merged-chr4-150909900-4	chr4	150909793	150909993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020569)	promoter-TSS (NM_020569)	28.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	162.5	194.0	111.0	1756.5	413.0	176.0	130.5	128.0
Merged-chr6-142508868-4	chr6	142508762	142508962	+	984.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302765)	promoter-TSS (NM_001302765)	-905.0	NM_001316322	16832.0	Mm.9745	NM_008492	ENSMUSG00000030246	Ldhb	AI790582|H-Ldh|LDH-B|LDH-H|Ldh-2|Ldh2	lactate dehydrogenase B	protein-coding	19.0	38.5	22.0	686.0	47.5	11.0	28.5	24.0
Merged-chr15-53216596-3	chr15	53216507	53216707	+	956.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	129576.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.0	16.0	17.5	180.5	13.5	8.5	6.5	6.0
Merged-chr1-37300852-4	chr1	37300768	37300968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	1030.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	53.5	110.5	38.0	1221.5	104.5	65.5	40.0	41.0
Merged-chr8-69012803-4	chr8	69012725	69012925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75911.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	100.0	169.0	147.5	1565.0	225.5	102.5	121.0	90.0
Merged-chr10-12867742-3	chr10	12867573	12867773	+	942.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5938.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	11.5	7.0	8.5	95.0	12.0	8.5	3.0	9.5
Merged-chr10-77969424-2	chr10	77969324	77969524	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_138301, intron 1 of 33)	intron (NM_138301, intron 1 of 33)	448.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	4.0	9.0	3.5	77.0	12.5	6.0	5.5	13.0
Merged-chr5-64803216-4	chr5	64803146	64803346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008453)	promoter-TSS (NM_008453)	-277.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	160.5	227.0	185.0	2267.0	330.5	138.0	166.5	121.0
Merged-chr6-116006952-4	chr6	116006851	116007051	+	961.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11946.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	17.5	38.5	21.0	267.5	48.0	12.5	16.0	15.5
Merged-chr7-126429062-4	chr7	126428944	126429144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030566, exon 1 of 13)	5' UTR (NM_030566, exon 1 of 13)	277.0	NM_030566	70314.0	Mm.35467	NM_030566	ENSMUSG00000030727	Rabep2	2610011A08Rik|AI462746|Fra	rabaptin, RAB GTPase binding effector protein 2	protein-coding	39.0	63.0	20.0	751.0	146.5	61.0	74.0	75.5
Merged-chr16-91475926-3	chr16	91475835	91476035	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	-9280.0	NM_010508	15975.0	Mm.502	NM_010508	ENSMUSG00000022967	Ifnar1	Ifar|Ifnar|Ifrc|Infar	interferon (alpha and beta) receptor 1	protein-coding	134.5	185.5	98.0	2025.5	9.0	2.5	7.0	5.0
Merged-chr1-80613581-4	chr1	80613475	80613675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 4 of 55)	intron (NM_175291, intron 4 of 55)	51777.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	31.0	51.0	45.0	434.0	62.0	32.0	21.5	30.5
Merged-chr6-88446512-4	chr6	88446417	88446617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023060)	promoter-TSS (NM_023060)	22.0	NM_023060	65967.0	Mm.333237	NM_023060	ENSMUSG00000033216	Eefsec	Selb|mSelB|sec	eukaryotic elongation factor, selenocysteine-tRNA-specific	protein-coding	26.0	49.5	18.5	414.5	85.5	25.5	35.0	25.0
Merged-chr6-83349453-4	chr6	83349346	83349546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175277)	promoter-TSS (NM_175277)	-38.0	NM_175277	78653.0	Mm.391470	NM_175277	ENSMUSG00000045160	Bola3	1810056O20Rik	bolA-like 3 (E. coli)	protein-coding	47.0	76.0	47.0	465.0	130.0	34.0	62.5	50.0
Merged-chr6-35538917-2	chr6	35538817	35539017	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008098, intron 1 of 3)	intron (NM_008098, intron 1 of 3)	971.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	5.0	5.5	7.5	68.0	12.0	7.5	6.5	3.5
Merged-chr18-9538794-4	chr18	9538708	9538908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80661.0	NM_007593	26369.0	Mm.195831	NM_007593	ENSMUSG00000050996	Cetn1	caltractin	centrin 1	protein-coding	21.5	30.0	37.0	911.5	52.0	22.0	40.0	34.0
Merged-chr2-165977015-4	chr2	165976932	165977132	+	875.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15605.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	5.5	10.0	7.0	106.5	31.0	3.0	13.5	13.5
Merged-chr2-35327077-4	chr2	35326970	35327170	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013515, intron 1 of 6)	intron (NM_013515, intron 1 of 6)	9939.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	17.0	38.0	27.0	400.0	58.0	12.0	23.5	24.0
Merged-chr7-67551437-4	chr7	67551334	67551534	+	920.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028144, intron 5 of 8)	intron (NR_028144, intron 5 of 8)	93802.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	24.5	31.5	22.5	436.0	29.0	4.0	12.5	14.5
Merged-chr16-33830167-4	chr16	33830095	33830295	+	862.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	CpG	530.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	18.0	13.0	7.0	161.5	28.0	10.5	19.5	16.0
Merged-chr6-31221720-4	chr6	31221627	31221827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040260, intron 1 of 5)	intron (NR_040260, intron 1 of 5)	1376.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	28.0	62.0	22.5	534.5	72.5	24.5	23.5	33.5
Merged-chr6-146762488-4	chr6	146762364	146762564	+	825.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172734, intron 3 of 13)	MER102b|DNA|hAT-Charlie	37534.0	NM_172734	232533.0	Mm.322121	NM_172734	ENSMUSG00000001630	Stk38l	4930473A22Rik|Ndr2|Ndr54	serine/threonine kinase 38 like	protein-coding	12.0	25.5	11.5	90.0	12.0	4.0	7.0	10.5
Merged-chr5-38561750-4	chr5	38561639	38561839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011715)	promoter-TSS (NM_011715)	-144.0	NM_011715	22388.0	Mm.2654	NM_011715	ENSMUSG00000005103	Wdr1	Aip1|D5Wsu185e|rede	WD repeat domain 1	protein-coding	272.0	473.5	276.0	3800.0	785.0	299.5	352.0	286.5
Merged-chr5-105559331-4	chr5	105559245	105559445	+	825.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	L1MA5|LINE|L1	39874.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	10.0	12.0	12.5	74.0	31.0	12.0	17.0	13.0
Merged-chr5-100498603-4	chr5	100498496	100498696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001115010)	promoter-TSS (NM_001115010)	-23.0	NM_001115010	231506.0	Mm.212568	NM_172714	ENSMUSG00000035310	Lin54	AI461788	lin-54 homolog (C. elegans)	protein-coding	69.5	137.5	68.0	983.0	204.0	86.0	117.0	89.5
Merged-chr13-100108086-4	chr13	100108002	100108202	+	983.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011353)	promoter-TSS (NM_011353)	83.0	NM_011353	20365.0	Mm.286177	NM_011353	ENSMUSG00000021643	Serf1	4F5|Msmac1|m4F5	small EDRK-rich factor 1	protein-coding	33.0	37.5	24.5	393.5	37.0	21.0	21.5	14.0
Merged-chr3-10419105-4	chr3	10418972	10419172	+	950.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029068, exon 8 of 8)	3' UTR (NM_029068, exon 8 of 8)	21058.0	NM_029068	74718.0	Mm.440548	NM_029068	ENSMUSG00000027534	Snx16	4930522N22Rik|AI117577|AI747675	sorting nexin 16	protein-coding	19.0	26.0	27.0	499.5	35.0	9.5	10.5	14.0
Merged-chr17-83253286-4	chr17	83253199	83253399	+	885.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38016.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	13.5	9.5	12.5	131.0	24.5	4.5	6.0	9.5
Merged-chr9-70261867-3	chr9	70261758	70261958	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	54508.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	30.5	36.5	15.0	367.5	19.0	3.0	7.0	8.0
Merged-chr5-65335712-4	chr5	65335629	65335829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347358)	promoter-TSS (NM_001347358)	-90.0	NM_001347358	19687.0	Mm.148877	NM_011258	ENSMUSG00000029191	Rfc1	140kDa|Alp145|RFC140|Recc1	replication factor C (activator 1) 1	protein-coding	78.0	82.5	39.0	1096.0	119.5	54.0	55.0	54.5
Merged-chr10-67004937-4	chr10	67004839	67005039	+	836.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110511)	promoter-TSS (NR_110511)	-136.0	NR_110511	102634101.0	Mm.445258	NR_110511	ENSMUSG00000112925	Gm31763	-	predicted gene, 31763	ncRNA	14.5	23.5	8.0	145.0	21.5	14.5	9.5	10.5
Merged-chr5-100663200-4	chr5	100663109	100663309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027978, intron 3 of 6)	intron (NM_027978, intron 3 of 6)	11047.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	108.5	168.0	120.5	2004.0	212.0	98.0	122.0	115.0
Merged-chr5-9101624-3	chr5	9101522	9101722	+	968.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 2 of 4)	intron (NM_001081029, intron 2 of 4)	885.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	8.5	27.5	10.5	56.0	49.0	28.5	13.5	3.0
Merged-chr4-116788202-4	chr4	116788081	116788281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146151, intron 4 of 10)	intron (NM_146151, intron 4 of 10)	19378.0	NM_026654	68276.0	Mm.30534	NM_026654	ENSMUSG00000028688	Toe1	4930584N22Rik|4933424D16Rik|AI413517	target of EGR1, member 1 (nuclear)	protein-coding	66.0	65.5	82.0	905.0	90.5	17.0	42.0	57.5
Merged-chr8-79448791-3	chr8	79448718	79448918	+	922.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-49350.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	14.5	16.5	9.0	121.5	18.5	5.5	8.5	3.5
Merged-chr7-34407722-4	chr7	34407661	34407861	+	887.162476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18056.0	NM_025948	67070.0	Mm.276503	NM_025948	ENSMUSG00000066568	Lsm14a	2700023B17Rik|AA407828|AU017544|Tral|mRAP55A	LSM14A mRNA processing body assembly factor	protein-coding	14.5	21.0	9.5	199.5	47.0	7.5	11.5	13.0
Merged-chr4-133005444-4	chr4	133005333	133005533	+	738.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6073.0	NM_146155	230793.0	Mm.31816	NM_146155	ENSMUSG00000037692	Ahdc1	D030015G18Rik	AT hook, DNA binding motif, containing 1	protein-coding	13.0	16.0	5.5	96.0	32.5	25.5	16.5	19.0
Merged-chr16-49818136-1	chr16	49818036	49818236	+	715.0	f0_balb.idr	Intergenic	MER21B|LTR|ERVL	-37518.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	6.5	4.5	4.5	126.0	18.0	2.5	2.5	3.0
Merged-chr2-181930874-4	chr2	181930761	181930961	+	958.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-60365.0	NM_001205282	672125.0	Mm.489571	NM_001205282	ENSMUSG00000098505	Gm14496	-	predicted gene 14496	protein-coding	45.0	43.5	61.5	271.5	49.5	25.0	29.0	94.0
Merged-chr18-35745930-4	chr18	35745853	35746053	+	847.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5399.0	NM_001289592	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	10.0	13.0	5.5	130.5	30.0	9.0	10.0	17.0
Merged-chr19-11411744-3	chr19	11411651	11411851	+	875.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029499, intron 1 of 6)	intron (NM_029499, intron 1 of 6)	4090.0	NM_029499	64380.0	Mm.440715	NM_029499	ENSMUSG00000024675	Ms4a4c	5830413L19Rik|AI449185|Ms4a9	membrane-spanning 4-domains, subfamily A, member 4C	protein-coding	10.0	9.0	13.0	103.0	8.0	7.5	6.5	11.0
Merged-chr15-77523419-2	chr15	77523319	77523519	+	863.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9896.0	NM_175391	108956.0	Mm.86391	NM_175391	ENSMUSG00000044309	Apol7c	2210421G13Rik	apolipoprotein L 7c	protein-coding	0.0	0.0	0.0	0.0	13.5	7.5	7.5	16.0
Merged-chr18-42589683-4	chr18	42589616	42589816	+	765.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10064.0	NM_181543	240239.0	Mm.186779	NM_181543	ENSMUSG00000042816	Gpr151	C130082O03Rik|GalRL|PGR7|nGPCR-2037	G protein-coupled receptor 151	protein-coding	4.5	5.0	2.0	88.5	19.5	12.0	8.5	12.5
Merged-chr5-122989272-4	chr5	122989159	122989359	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045820)	promoter-TSS (NR_045820)	-95.0	NR_045820	109202.0	Mm.30769	NM_175405	ENSMUSG00000056735	A930024E05Rik	-	RIKEN cDNA A930024E05 gene	ncRNA	10.0	18.0	13.5	119.5	29.0	12.5	4.5	12.5
Merged-chr14-65167065-1	chr14	65166965	65167165	+	550.0	f0_balb.idr	Intergenic	Intergenic	-68959.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	11.5	13.0	8.5	73.0	11.5	1.0	2.0	7.0
Merged-chr10-128565393-4	chr10	128565322	128565522	+	975.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011119, intron 1 of 11)	CpG	512.0	NM_011119	18813.0	Mm.4742	NM_011119	ENSMUSG00000025364	Pa2g4	38kDa|AA672939|Ebp1|Plfap	proliferation-associated 2G4	protein-coding	17.5	34.0	42.5	265.5	51.0	14.5	12.0	26.0
Merged-chr11-70608777-3	chr11	70608669	70608869	+	812.133362	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045964, intron 18 of 32)	intron (NM_001045964, intron 18 of 32)	-7125.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	4.0	2.5	8.5	57.5	14.5	6.0	7.0	6.0
Merged-chr15-74957086-4	chr15	74956940	74957140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008529, intron 1 of 3)	intron (NM_008529, intron 1 of 3)	1934.0	NM_001164040	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	34.5	42.5	40.5	878.0	96.0	18.5	66.0	41.5
Merged-chr10-122447498-3	chr10	122447399	122447599	+	628.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016847)	promoter-TSS (NM_016847)	-1000.0	NM_016847	54140.0	Mm.4351	NM_016847	ENSMUSG00000020123	Avpr1a	AVPR|Avpr1|V1a|V1aR	arginine vasopressin receptor 1A	protein-coding	5.5	7.0	7.0	71.5	10.0	1.5	3.0	8.5
Merged-chr8-68914753-4	chr8	68914801	68915001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	34346.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	20.5	29.5	26.0	336.5	57.0	18.5	24.0	33.0
Merged-chr18-32187428-4	chr18	32187321	32187521	+	788.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011946, intron 1 of 16)	intron (NM_011946, intron 1 of 16)	24332.0	NM_011946	26405.0	Mm.211762	NM_011946	ENSMUSG00000024383	Map3k2	9630061B06Rik|AI585793|Mekk2|Mekk2b	mitogen-activated protein kinase kinase kinase 2	protein-coding	12.0	16.0	8.5	127.0	27.0	4.5	5.0	10.0
Merged-chr3-59153582-4	chr3	59153482	59153682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287119)	promoter-TSS (NM_001287119)	46.0	NR_045641	320463.0	Mm.484506	NR_045641	ENSMUSG00000036381	F630111L10Rik	-	RIKEN cDNA F630111L10 gene	ncRNA	80.5	80.0	80.5	1360.0	215.0	69.0	106.5	82.5
Merged-chr4-95053973-4	chr4	95053840	95054040	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1718.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	12.5	20.0	12.5	256.0	105.5	28.0	52.0	46.5
Merged-chr9-86631317-4	chr9	86631208	86631408	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008615, intron 6 of 13)	intron (NM_008615, intron 6 of 13)	55969.0	NM_001198933	17436.0	Mm.148155	NM_008615	ENSMUSG00000032418	Me1	D9Ertd267e|Mdh-1|Mod-1|Mod1	malic enzyme 1, NADP(+)-dependent, cytosolic	protein-coding	10.5	16.0	13.0	250.5	43.0	9.0	21.5	17.0
Merged-chr4-34797754-3	chr4	34797658	34797858	+	776.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19392.0	NM_025471	66291.0	Mm.28071	NM_025471	ENSMUSG00000028295	Smim8	1810030N24Rik|2810406B13Rik	small integral membrane protein 8	protein-coding	4.5	8.0	14.5	139.0	30.5	1.0	7.5	11.0
Merged-chr5-66015189-4	chr5	66015097	66015297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10912.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	35.0	41.0	31.5	540.0	105.0	31.5	53.0	29.5
Merged-chr2-164492938-4	chr2	164492829	164493029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026797, exon 4 of 4)	3' UTR (NM_026797, exon 4 of 4)	-4596.0	NM_133779	78928.0	Mm.28228	NM_133779	ENSMUSG00000017721	Pigt	2510012P17Rik|4930534E15Rik|CGI-06|NDAP|Ndap7	phosphatidylinositol glycan anchor biosynthesis, class T	protein-coding	42.5	61.0	39.0	543.5	68.5	21.5	25.0	25.5
Merged-chr14-54398909-6	chr14	54398815	54399015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	intron (NM_011405, intron 4 of 11)	10557.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	38.0	51.0	87.0	973.0	37.5	14.0	21.0	15.0
Merged-chr6-146578233-3	chr6	146578100	146578300	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138757)	promoter-TSS (NM_138757)	289.0	NM_026218	67529.0	Mm.333499	NM_026218	ENSMUSG00000040242	Fgfr1op2	1500031J01Rik	FGFR1 oncogene partner 2	protein-coding	34.0	66.5	53.0	691.5	130.0	64.5	92.0	64.5
Merged-chr8-85408298-4	chr8	85408185	85408385	+	966.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025722)	TTS (NM_025722)	24556.0	NR_033144	66714.0	Mm.272748	NM_025722	ENSMUSG00000036934	4921524J17Rik	-	RIKEN cDNA 4921524J17 gene	protein-coding	36.0	24.0	24.0	252.0	53.5	23.0	14.5	30.0
Merged-chr19-21778334-4	chr19	21778249	21778449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031997)	promoter-TSS (NM_031997)	9.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	206.5	321.5	249.0	3434.5	408.5	148.0	193.0	169.0
Merged-chr17-78200805-4	chr17	78200670	78200870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015800, exon 1 of 17)	exon (NM_015800, exon 1 of 17)	522.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	33.5	46.0	29.5	377.5	49.0	32.5	29.0	23.5
Merged-chr1-184729961-4	chr1	184729858	184730058	+	884.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008250, exon 3 of 4)	exon (NM_008250, exon 3 of 4)	2535.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	7.5	10.0	7.5	148.0	31.0	11.0	9.5	17.5
Merged-chr7-63905962-2	chr7	63905862	63906062	+	614.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	L1MC3|LINE|L1	-10895.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	7.5	10.5	1.0	57.5	9.5	6.5	6.0	4.5
Merged-chr5-146784833-3	chr5	146784742	146784942	+	788.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	MLT1E2|LTR|ERVL-MaLR	10114.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	7.5	6.5	10.5	48.0	19.0	7.0	7.5	4.0
Merged-chr5-142319551-3	chr5	142319435	142319635	+	831.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81962.0	NM_199068	17425.0	Mm.24214	NM_010812	ENSMUSG00000056493	Foxk1	A630048H08Rik|AI463295|Gm10868|Mnf	forkhead box K1	protein-coding	6.5	14.0	3.5	91.0	22.0	8.5	8.5	6.5
Merged-chr1-57394173-4	chr1	57394073	57394273	+	961.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037742, intron 3 of 7)	intron (NM_001037742, intron 3 of 7)	-12375.0	NM_001081181	68115.0	Mm.275428	NM_001081181	ENSMUSG00000025971	Maip1	9430016H08Rik|AA409999|C78988	matrix AAA peptidase interacting protein 1	protein-coding	13.0	35.5	8.0	201.5	50.5	17.0	10.0	17.0
Merged-chr17-34837071-4	chr17	34836972	34837172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163770)	promoter-TSS (NM_001163770)	53.0	NM_001163770	112403.0	Mm.275309	NM_033613	ENSMUSG00000040482	Dxo	Dom3z|NG6	decapping exoribonuclease	protein-coding	78.5	156.5	60.0	802.0	321.5	105.0	132.5	86.0
Merged-chr6-42397431-4	chr6	42397324	42397524	+	947.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2814.0	NM_001001452	387514.0	Mm.377921	NM_001001452	ENSMUSG00000046652	Tas2r143	Gm1404|Tas2r43|mt2r36	taste receptor, type 2, member 143	protein-coding	34.0	27.5	10.0	481.0	46.0	16.5	13.0	20.0
Merged-chr11-5735108-4	chr11	5734978	5735178	+	916.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	intron (NM_001361588, intron 1 of 6)	6098.0	NM_001361590	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	7.5	11.5	7.0	127.0	29.5	5.0	10.5	24.0
Merged-chr6-49236527-3	chr6	49236427	49236627	+	900.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-21573.0	NM_023670	140488.0	Mm.281018	NM_023670	ENSMUSG00000029814	Igf2bp3	2610101N11Rik|AA522010|AL022933|AU045931|IMP-3|IMP3|Koc13|Neilsen|mimp3	insulin-like growth factor 2 mRNA binding protein 3	protein-coding	4.0	16.0	5.0	95.5	27.0	10.0	25.5	20.5
Merged-chr15-63614345-4	chr15	63614299	63614499	+	816.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134791.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	13.5	7.5	23.0	358.5	7.5	1.0	4.5	8.5
Merged-chr6-97486994-3	chr6	97486899	97487099	+	909.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	821.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	3.0	6.0	10.0	52.5	22.5	9.0	4.5	13.5
Merged-chr19-47138309-4	chr19	47138208	47138408	+	969.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133746)	promoter-TSS (NM_133746)	-14.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	18.0	25.5	14.0	334.5	35.5	22.5	31.5	14.5
Merged-chr9-107291110-4	chr9	107291078	107291278	+	925.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1301.0	NM_178907	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	15.0	17.0	3.5	146.5	46.5	12.5	11.5	16.0
Merged-chr19-32388551-4	chr19	32388456	32388656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033198)	promoter-TSS (NR_033198)	-44.0	NM_144792	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	113.5	180.0	112.0	1593.5	337.0	100.0	146.0	125.5
Merged-chr1-87853980-5	chr1	87853890	87854090	+	737.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_136921, exon 1 of 2)	non-coding (NR_136921, exon 1 of 2)	309.0	NR_136921	100503175.0	Mm.426422	NR_136921	ENSMUSG00000101942	Gm19582	-	predicted gene, 19582	ncRNA	6.0	4.5	8.0	71.0	15.5	4.0	5.5	10.0
Merged-chr1-191193807-4	chr1	191193661	191193861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10428.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	69.5	102.0	22.5	656.5	137.0	50.5	50.5	38.0
Merged-chr11-46848444-6	chr11	46848397	46848597	+	832.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37698.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	6.5	9.0	6.0	75.0	18.5	4.5	11.0	4.0
Merged-chr14-18239241-4	chr14	18239106	18239306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011584)	promoter-TSS (NM_011584)	-100.0	NM_011584	353187.0	Mm.26587	NM_011584	ENSMUSG00000021775	Nr1d2	RVR|Rev-erb	nuclear receptor subfamily 1, group D, member 2	protein-coding	222.5	500.0	364.0	3747.0	575.5	229.0	253.5	211.5
Merged-chr16-94246150-4	chr16	94246038	94246238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	ORR1D2|LTR|ERVL-MaLR	44153.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	61.5	88.5	32.5	742.5	124.0	50.5	65.5	51.0
Merged-chr16-10992245-4	chr16	10992150	10992350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	871.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	157.5	344.0	186.5	2304.0	389.5	177.5	219.0	165.5
Merged-chr17-57409883-4	chr17	57409762	57409962	+	979.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355722, intron 7 of 22)	intron (NM_001355722, intron 7 of 22)	51176.0	NM_010130	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	36.0	18.5	14.0	379.0	44.0	24.0	35.5	19.0
Merged-chr6-129682924-2	chr6	129682826	129683026	+	598.5	f0_c57.idr|f1_balb.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	-3953.0	NM_010652	16641.0	Mm.56899	NM_010652	ENSMUSG00000030167	Klrc1	CD159a|NKG2A|NKG2B	killer cell lectin-like receptor subfamily C, member 1	protein-coding	6.0	1.5	6.5	75.0	21.0	10.0	4.5	9.5
Merged-chr1-172490453-4	chr1	172490354	172490554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033608, intron 5 of 20)	intron (NM_033608, intron 5 of 20)	8137.0	NM_033608	93842.0	Mm.214530	NM_033608	ENSMUSG00000037995	Igsf9	644ETD8|Dasm1|Kiaa1355-hp|NRT1|Ncaml|mKIAA1355	immunoglobulin superfamily, member 9	protein-coding	43.0	91.0	43.0	487.5	194.0	54.0	38.5	36.0
Merged-chr16-21499333-3	chr16	21499216	21499416	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 21 of 46)	intron (NM_001081366, intron 21 of 46)	76198.0	NM_001285894	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	8.5	24.5	16.5	491.5	13.5	2.0	7.0	6.0
Merged-chr17-71096706-4	chr17	71096604	71096804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 21 of 36)	intron (NM_001083934, intron 21 of 36)	77147.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	44.5	38.0	33.0	566.5	82.0	28.5	31.0	24.5
Merged-chr13-58274469-4	chr13	58274379	58274579	+	931.8875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019832)	promoter-TSS (NM_019832)	-291.0	NM_019832	56278.0	Mm.296625	NM_019832	ENSMUSG00000021552	Gkap1	42kDa|4933400B15Rik|D13Ertd340e|Gkap42	G kinase anchoring protein 1	protein-coding	14.0	18.0	11.0	220.5	39.0	15.0	15.0	17.0
Merged-chr9-90216560-4	chr9	90216472	90216672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 9 of 12)	intron (NM_194334, intron 9 of 12)	53594.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	89.0	65.0	126.0	1634.5	113.0	50.0	67.5	59.5
Merged-chr16-49857723-4	chr16	49857648	49857848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 1 of 9)	intron (NM_010581, intron 1 of 9)	2094.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	35.0	62.0	83.5	881.5	75.5	28.5	65.5	31.0
Merged-chr7-125594059-4	chr7	125593938	125594138	+	932.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9391.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	8.0	14.5	8.5	168.5	34.0	14.5	21.5	21.5
Merged-chr3-89436931-4	chr3	89436785	89436985	+	974.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146131, intron 1 of 10)	intron (NM_146131, intron 1 of 10)	181.0	NM_146131	229534.0	Mm.65906	NM_146131	ENSMUSG00000042613	Pbxip1	4732463H20Rik	pre B cell leukemia transcription factor interacting protein 1	protein-coding	12.0	25.0	26.5	173.5	36.5	11.0	10.5	14.0
Merged-chr12-79092746-4	chr12	79092625	79092825	+	892.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110486, intron 2 of 2)	L1MDa|LINE|L1	-3055.0	NM_029988	110417.0	Mm.268317	NM_029988	ENSMUSG00000021120	Pigh	2210416H01Rik|A930028P05Rik	phosphatidylinositol glycan anchor biosynthesis, class H	protein-coding	14.0	10.5	10.5	233.5	19.0	19.0	14.0	10.5
Merged-chr3-20035197-4	chr3	20035090	20035290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001146324, exon 1 of 9)	exon (NM_001146324, exon 1 of 9)	120.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	88.5	150.5	218.0	1776.5	130.5	74.0	59.5	106.0
Merged-chr17-34124808-4	chr17	34124698	34124898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360530)	promoter-TSS (NM_001360530)	-720.0	NM_001360530	14998.0	Mm.16373	NM_010386	ENSMUSG00000037649	H2-DMa	H-2Ma|H2-Ma	histocompatibility 2, class II, locus DMa	protein-coding	42.0	78.0	29.5	397.0	92.5	23.5	33.5	27.0
Merged-chr6-87597638-1	chr6	87597538	87597738	+	804.333313	f0_balb.idr	Intergenic	Intergenic	-6895.0	NM_021381	58182.0	Mm.333226	NM_021381	ENSMUSG00000049409	Prokr1	EG-VEGFR1|Gpr73|Pk-r1|Pkr1	prokineticin receptor 1	protein-coding	10.0	17.0	13.0	183.5	7.5	5.0	8.5	2.0
Merged-chr1-51934727-4	chr1	51934617	51934817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18739.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	152.5	211.5	191.0	2499.5	361.0	113.0	146.0	130.5
Merged-chr16-22439812-4	chr16	22439712	22439912	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023794)	promoter-TSS (NM_023794)	-242.0	NM_023794	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	294.5	520.0	354.0	4358.0	808.5	302.0	383.0	318.0
Merged-chr19-6067956-4	chr19	6067855	6068055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028454)	promoter-TSS (NM_028454)	-105.0	NM_028454	73166.0	Mm.489613	NM_028454	ENSMUSG00000024799	Tm7sf2	3110041O18Rik|ANG1|C14SR|Dhcr14	transmembrane 7 superfamily member 2	protein-coding	89.0	79.0	55.0	1049.0	182.0	55.0	66.5	60.0
Merged-chr8-19601778-4	chr8	19601657	19601857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106660.0	NM_139220	246080.0	Mm.207067	NM_139220	ENSMUSG00000037790	Defb7	BD-7|Defb15	defensin beta 7	protein-coding	30.0	56.5	52.0	383.5	75.0	22.5	27.0	45.5
Merged-chr13-49652920-4	chr13	49652813	49653013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073167)	promoter-TSS (NR_073167)	-165.0	NM_001271397	70930.0	Mm.258915	NM_001081350	ENSMUSG00000021392	Nol8	4921532D18Rik|5730412B09Rik	nucleolar protein 8	protein-coding	257.0	395.5	230.0	3240.5	813.0	268.5	326.5	280.5
Merged-chr17-35194445-3	chr17	35194356	35194556	+	778.1904910000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105939)	promoter-TSS (NR_105939)	-51.0	NM_008518	16994.0	Mm.1715	NM_008518	ENSMUSG00000024399	Ltb	AI662801|LTbeta|Tnfc|Tnfsf3|Tnlg1c|p33	lymphotoxin B	protein-coding	7.5	13.5	6.0	80.5	8.5	2.5	4.5	1.0
Merged-chr9-80164977-4	chr9	80164911	80165111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039546)	promoter-TSS (NM_001039546)	-23.0	NM_001039546	17920.0	Mm.4040	NM_008662	ENSMUSG00000033577	Myo6	BC029719|Tlc|sv	myosin VI	protein-coding	132.0	197.5	100.0	1790.0	455.0	191.5	230.5	186.5
Merged-chr7-84669936-2	chr7	84669836	84670036	+	644.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360577, intron 1 of 7)	intron (NM_001360577, intron 1 of 7)	9460.0	NM_022985	65098.0	Mm.209349	NM_022985	ENSMUSG00000030629	Zfand6	3110005P07Rik|Awp1|Za20d3	zinc finger, AN1-type domain 6	protein-coding	9.0	6.5	5.5	54.0	15.0	8.0	3.0	13.0
Merged-chr6-123229822-4	chr6	123229718	123229918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020001)	promoter-TSS (NM_020001)	-25.0	NM_001190320	56620.0	Mm.271782	NM_020001	ENSMUSG00000023349	Clec4n	Clec6a|Clecsf10|Nkcl	C-type lectin domain family 4, member n	protein-coding	43.0	46.0	27.5	714.0	78.5	33.5	50.5	33.5
Merged-chr18-38940671-2	chr18	38940571	38940771	+	741.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033789, intron 4 of 4)	intron (NM_001033789, intron 4 of 4)	-21972.0	NM_010197	14164.0	Mm.241282	NM_010197	ENSMUSG00000036585	Fgf1	Dffrx|Fam|Fgf-1|Fgfa	fibroblast growth factor 1	protein-coding	4.5	7.5	5.5	66.0	8.5	4.5	11.5	4.0
Merged-chr17-21516480-4	chr17	21516367	21516567	+	878.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19072.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	12.0	8.0	12.5	106.5	26.0	11.5	11.5	16.0
Merged-chr19-43753212-8	chr19	43753107	43753307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144874)	promoter-TSS (NM_144874)	184.0	NM_025530	66388.0	Mm.20257	NM_025530	ENSMUSG00000025193	Cutc	2310039I18Rik|AI326282|CGI-32	cutC copper transporter	protein-coding	33.0	49.0	39.0	446.0	122.5	52.0	45.0	38.0
Merged-chr10-122039774-4	chr10	122039699	122039899	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	L1M5|LINE|L1	7516.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	25.5	35.0	43.5	717.5	80.5	16.5	22.5	26.5
Merged-chr11-77688002-3	chr11	77687893	77688093	+	949.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024205, intron 1 of 3)	intron (NM_001024205, intron 1 of 3)	1854.0	NM_001024205	68564.0	Mm.428996	NM_001024205	ENSMUSG00000037857	Nufip2	1110001M19Rik|9530056D24Rik|AI256692|AI461731|PIG1|mKIAA1321	nuclear fragile X mental retardation protein interacting protein 2	protein-coding	6.0	12.5	3.5	128.0	33.5	11.5	6.5	5.5
Merged-chr17-6742301-4	chr17	6742206	6742406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 9 of 12)	intron (NM_009510, intron 9 of 12)	36476.0	NM_183368	83672.0	Mm.442201	NM_031395	ENSMUSG00000041831	Sytl3	A430092N21|Slp3|Slp3-a|Slp3-b|mFLJ00307	synaptotagmin-like 3	protein-coding	104.5	112.5	89.5	1729.5	205.0	49.5	90.5	81.0
Merged-chr3-15590901-4	chr3	15590798	15590998	+	865.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15833.0	NM_001173460	668101.0	Mm.423523	NM_001173460	ENSMUSG00000095028	Sirpb1b	-	signal-regulatory protein beta 1B	protein-coding	28.5	55.5	39.0	453.5	44.5	11.0	10.0	7.5
Merged-chr7-35555958-4	chr7	35555843	35556043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033080)	promoter-TSS (NM_033080)	-15.0	NM_033080	110959.0	Mm.410206	NM_033080	ENSMUSG00000034875	Nudt19	D7Rp2|D7Rp2-r|D7Rp2-s|D7Rp2e|RP2-r|RP2-s	nudix (nucleoside diphosphate linked moiety X)-type motif 19	protein-coding	26.5	36.0	39.0	340.5	82.5	29.0	45.0	35.5
Merged-chr18-34338872-3	chr18	34338775	34338975	+	649.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	7730.0	NM_025527	66384.0	Mm.29452	NM_025527	ENSMUSG00000014504	Srp19	2310020D23Rik	signal recognition particle 19	protein-coding	9.0	5.0	10.5	94.0	6.0	11.5	6.0	8.5
Merged-chr12-110888311-4	chr12	110888209	110888409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081057)	promoter-TSS (NM_001081057)	836.0	NM_027223	67236.0	Mm.287157	NM_026048	ENSMUSG00000021276	Cinp	1810047K05Rik|2810452K22Rik	cyclin-dependent kinase 2 interacting protein	protein-coding	45.5	55.5	39.0	624.5	93.0	49.0	33.0	40.5
Merged-chr1-171551655-3	chr1	171551578	171551778	+	678.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7515.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	31.5	32.0	10.5	325.5	4.0	0.0	0.0	0.5
Merged-chr13-62929417-4	chr13	62929351	62929551	+	917.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-35442.0	NM_001289926	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	8.0	4.5	17.0	118.0	27.0	3.0	16.0	21.5
Merged-chr4-148742863-4	chr4	148742777	148742977	+	894.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-61515.0	NM_001159344	69743.0	Mm.233879	NM_027195	ENSMUSG00000028977	Casz1	2410019P08Rik|AV096627|BC040081|Cst|D4Ertd432e	castor zinc finger 1	protein-coding	16.5	14.0	5.5	123.5	35.0	11.0	13.0	13.5
Merged-chr4-154933630-3	chr4	154933550	154933750	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5573.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	5.0	8.5	11.5	10.0	82.0	17.0	24.5	23.0
Merged-chr8-83109966-4	chr8	83109874	83110074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55378.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	68.0	100.0	70.5	894.0	116.5	44.0	56.0	60.5
Merged-chr6-28486606-4	chr6	28486520	28486720	+	916.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 1 of 23)	intron (NM_019776, intron 1 of 23)	6272.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	11.0	13.0	2.5	159.5	29.5	12.5	12.5	25.0
Merged-chr1-58503993-2	chr1	58503893	58504093	+	763.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_008765, intron 1 of 17)	B4A|SINE|B4	1116.0	NM_001271526	18393.0	Mm.3411	NM_008765	ENSMUSG00000026037	Orc2	AU041563|Orc2l	origin recognition complex, subunit 2	protein-coding	1.0	7.0	9.0	68.0	30.0	5.0	7.0	8.0
Merged-chr13-31228089-3	chr13	31227992	31228192	+	648.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045957, intron 1 of 2)	intron (NR_045957, intron 1 of 2)	12994.0	NR_045957	73924.0	Mm.417825	NR_045957	ENSMUSG00000087460	4930401O12Rik	-	RIKEN cDNA 4930401O12 gene	ncRNA	6.0	9.0	10.0	178.5	6.0	0.0	0.0	0.0
Merged-chr11-77686051-4	chr11	77685961	77686161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024205)	promoter-TSS (NM_001024205)	-78.0	NM_001024205	68564.0	Mm.428996	NM_001024205	ENSMUSG00000037857	Nufip2	1110001M19Rik|9530056D24Rik|AI256692|AI461731|PIG1|mKIAA1321	nuclear fragile X mental retardation protein interacting protein 2	protein-coding	181.0	277.5	196.5	2286.0	505.5	181.0	197.0	173.0
Merged-chr1-184478185-4	chr1	184478097	184478297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79494.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	113.0	168.0	108.0	1997.0	283.0	113.5	134.5	114.0
Merged-chr4-130809246-2	chr4	130809146	130809346	+	671.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	16709.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	6.5	1.0	4.0	10.5	4.5	5.0	6.0	4.5
Merged-chr5-44284569-3	chr5	44284448	44284648	+	680.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57942.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	6.0	6.5	6.0	108.0	14.0	1.0	4.0	9.5
Merged-chr5-99218465-9	chr5	99218401	99218601	+	887.1851810000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145839, exon 14 of 14)	3' UTR (NM_145839, exon 14 of 14)	34426.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	17.5	31.5	6.0	62.0	56.0	27.5	13.5	4.0
Merged-chr14-73257532-3	chr14	73257434	73257634	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	19643.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	5.5	8.0	14.5	139.0	14.0	5.5	7.0	2.5
Merged-chr12-85078030-3	chr12	85077938	85078138	+	797.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17577.0	NM_001361239	73422.0	Mm.311944	NM_175198	ENSMUSG00000042320	Prox2	1700058C01Rik	prospero homeobox 2	protein-coding	10.0	14.5	13.5	61.0	10.5	0.5	2.5	3.5
Merged-chr6-94269380-1	chr6	94269280	94269480	+	808.0	f0_balb.idr	intron (NM_001029850, intron 1 of 23)	MTC|LTR|ERVL-MaLR	14537.0	NM_010367	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	7.0	10.5	23.0	363.5	2.0	1.0	2.5	5.0
Merged-chr7-38228027-4	chr7	38227930	38228130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024413)	promoter-TSS (NM_024413)	-36.0	NM_024413	72287.0	Mm.333798	NM_024413	ENSMUSG00000074170	Plekhf1	1810013P09Rik|APPD|LAPF|PHAFIN1|ZFYVE15	pleckstrin homology domain containing, family F (with FYVE domain) member 1	protein-coding	95.5	101.0	92.5	1787.5	263.0	71.0	118.0	94.5
Merged-chr4-49567820-4	chr4	49567714	49567914	+	965.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18268.0	NM_144903	230163.0	Mm.482116	NM_144903	ENSMUSG00000028307	Aldob	Aldo-2|Aldo2|BC016435	aldolase B, fructose-bisphosphate	protein-coding	27.5	26.5	14.0	341.5	80.0	19.5	31.0	17.0
Merged-chr15-61986176-4	chr15	61986076	61986276	+	945.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177353, intron 1 of 2)	CpG	835.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	5.0	34.5	27.5	144.5	35.0	9.5	20.5	10.5
Merged-chr3-126597124-5	chr3	126596974	126597174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001293665, exon 1 of 20)	5' UTR (NM_001293665, exon 1 of 20)	123.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	66.0	70.5	82.5	723.0	128.5	40.5	53.0	70.0
Merged-chr19-8941886-4	chr19	8941789	8941989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011842)	promoter-TSS (NM_011842)	-31.0	NM_011842	23942.0	Mm.25339	NM_011842	ENSMUSG00000071646	Mta2	AW550797|Mata1l1|Mta1l1|mmta2	metastasis-associated gene family, member 2	protein-coding	118.0	177.5	79.5	1294.0	318.0	75.5	92.5	81.0
Merged-chr4-134677015-3	chr4	134676937	134677137	+	879.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207237, intron 1 of 11)	intron (NM_207237, intron 1 of 11)	27253.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	6.5	8.0	10.0	102.0	10.5	6.5	3.0	4.5
Merged-chr9-48532903-4	chr9	48532789	48532989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	37546.0	NM_001004191	434402.0	Mm.386950	NM_001004191	ENSMUSG00000042293	Gm5617	EG434402	predicted gene 5617	protein-coding	65.0	62.0	46.0	834.0	140.5	42.5	86.0	67.0
Merged-chr2-37757193-3	chr2	37757076	37757276	+	837.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19073.0	NM_001163566	241324.0	Mm.392369	NM_001163566	ENSMUSG00000035403	Crb2	5930402A21|BC043114	crumbs family member 2	protein-coding	5.0	9.5	6.0	151.5	11.0	2.5	8.5	3.0
Merged-chr14-61689560-4	chr14	61689454	61689654	+	937.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7181.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	32.0	79.5	27.5	350.0	41.5	12.5	11.5	16.0
Merged-chr13-34078878-6	chr13	34078870	34079070	+	872.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009450)	promoter-TSS (NM_009450)	-962.0	NM_009450	22151.0	Mm.422827	NM_009450	ENSMUSG00000058672	Tubb2a	M(beta)2|Tubb2	tubulin, beta 2A class IIA	protein-coding	11.0	21.0	6.0	163.0	20.0	10.5	10.0	10.0
Merged-chr18-67116105-4	chr18	67116000	67116200	+	820.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177137, intron 1 of 11)	intron (NM_177137, intron 1 of 11)	-17460.0	NM_010307	14680.0	Mm.440746	NM_010307	ENSMUSG00000024524	Gnal	2610011C15Rik|9630020G10Rik|Galphaolf|Gna10|Golf	guanine nucleotide binding protein, alpha stimulating, olfactory type	protein-coding	11.5	8.0	9.5	161.0	33.5	18.0	18.5	15.0
Merged-chr7-43660880-4	chr7	43660790	43660990	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031181)	promoter-TSS (NM_031181)	-729.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	26.5	15.0	8.5	217.0	39.0	23.0	20.0	16.0
Merged-chr7-116336371-4	chr7	116336259	116336459	+	961.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011083)	TTS (NM_011083)	-2169.0	NM_026533	68052.0	Mm.14798	NM_026533	ENSMUSG00000090862	Rps13	2700063M04Rik	ribosomal protein S13	protein-coding	15.0	35.0	13.0	198.5	61.0	27.0	23.5	30.5
Merged-chr8-91112311-3	chr8	91112203	91112403	+	982.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001302337, exon 10 of 10)	3' UTR (NM_001302337, exon 10 of 10)	21436.0	NM_001358938	14339.0	Mm.324588	NM_010241	ENSMUSG00000031667	Aktip	AL023020|Fif|Ft|Ft1|Fts	thymoma viral proto-oncogene 1 interacting protein	protein-coding	7.5	5.5	14.0	304.5	9.0	2.5	4.5	7.5
Merged-chr12-17770750-4	chr12	17770645	17770845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361645, intron 2 of 4)	intron (NM_001361645, intron 2 of 4)	79936.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	30.0	28.5	19.5	400.5	55.0	18.0	24.0	25.5
Merged-chr17-31067245-4	chr17	31067121	31067321	+	912.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	9527.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	28.5	33.0	19.0	225.5	23.0	16.5	10.5	11.5
Merged-chr17-15704735-4	chr17	15704631	15704831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007690)	promoter-TSS (NM_007690)	-236.0	NM_007690	12648.0	Mm.8137	NM_007690	ENSMUSG00000023852	Chd1	4930525N21Rik|AI851787|AW555109	chromodomain helicase DNA binding protein 1	protein-coding	178.5	252.0	303.5	2445.0	329.5	156.0	173.5	177.0
Merged-chr2-91730330-7	chr2	91730235	91730435	+	997.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172669, exon 1 of 18)	5' UTR (NM_172669, exon 1 of 18)	197.0	NM_001080754	228361.0	Mm.436667	NM_172669	ENSMUSG00000040506	Ambra1	2310079H06Rik|A130023A14|AA474864|AV021921|D030051N19Rik|mKIAA1736	autophagy/beclin 1 regulator 1	protein-coding	13.0	30.5	17.0	114.5	67.5	23.0	13.0	20.5
Merged-chr4-142153725-3	chr4	142153584	142153784	+	838.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109684, intron 3 of 6)	intron (NM_001109684, intron 3 of 6)	56524.0	NM_144531	71529.0	Mm.255986	NM_144531	ENSMUSG00000040606	Kazn	2310007B04Rik|9030409G11Rik|AI256607|AI666764|AW061099|Kaz|Kazrin	kazrin, periplakin interacting protein	protein-coding	5.5	5.0	0.0	65.0	39.0	21.5	11.5	6.0
Merged-chr6-100211399-4	chr6	100211280	100211480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75978.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	29.5	32.0	44.5	855.0	87.5	27.5	39.5	46.0
Merged-chr3-28039975-2	chr3	28039875	28040075	+	644.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 7 of 25)	intron (NM_008875, intron 7 of 25)	55804.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	4.0	4.5	2.5	58.5	14.0	9.5	7.0	7.5
Merged-chr6-113850023-4	chr6	113849915	113850115	+	930.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009723, intron 3 of 21)	intron (NM_009723, intron 3 of 21)	41524.0	NM_001036684	11941.0	Mm.321755	NM_009723	ENSMUSG00000030302	Atp2b2	D6Abb2e|Gena300|PMCA2|Tmy|dfw|jog|wms|wri	ATPase, Ca++ transporting, plasma membrane 2	protein-coding	15.5	24.0	19.5	344.5	47.0	8.0	16.0	23.0
Merged-chr17-73936780-4	chr17	73936687	73936887	+	938.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 4 of 35)	intron (NM_011723, intron 4 of 35)	13409.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	20.0	31.5	18.5	297.5	19.5	18.0	14.5	15.5
Merged-chr16-22461181-4	chr16	22461077	22461277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21607.0	NM_023794	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	44.0	28.5	30.5	397.0	50.0	34.5	32.5	26.0
Merged-chr1-106678396-4	chr1	106678272	106678472	+	967.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009741, intron 1 of 1)	L1MB3|LINE|L1	35918.0	NM_009741	12043.0	Mm.257460	NM_009741	ENSMUSG00000057329	Bcl2	AW986256|Bcl-2|C430015F12Rik|D630044D05Rik|D830018M01Rik	B cell leukemia/lymphoma 2	protein-coding	21.5	38.0	44.5	764.0	56.0	9.0	19.0	19.5
Merged-chr1-92697047-4	chr1	92696952	92697152	+	840.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48211.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	7.0	7.5	7.0	106.5	33.5	11.0	13.5	11.5
Merged-chr10-20893564-4	chr10	20893485	20893685	+	943.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58962.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	13.5	14.0	12.0	202.5	44.0	14.0	43.5	27.5
Merged-chr5-33630250-1	chr5	33630150	33630350	+	630.0	f0_balb.idr	promoter-TSS (NM_178390)	promoter-TSS (NM_178390)	-615.0	NM_001359463	74504.0	Mm.294695	NM_178390	ENSMUSG00000037339	Fam53a	2410018C17Rik|5430419M09Rik|Dntnp	family with sequence similarity 53, member A	protein-coding	12.0	8.0	7.0	98.0	23.5	7.0	1.0	3.5
Merged-chr11-3913934-4	chr11	3913836	3914036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153142, exon 1 of 2)	5' UTR (NM_153142, exon 1 of 2)	728.0	NM_153142	103710.0	Mm.171514	NM_153142	ENSMUSG00000048807	Slc35e4	A330108F03Rik|AI414849|AI536442	solute carrier family 35, member E4	protein-coding	95.5	106.0	80.5	1214.0	171.0	40.0	77.0	69.5
Merged-chr11-69931162-4	chr11	69931050	69931250	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4749.0	NM_016875	53422.0	Mm.29286	NM_016875	ENSMUSG00000018554	Ybx2	Msy2	Y box protein 2	protein-coding	41.5	33.5	22.0	308.0	58.5	24.0	17.5	26.5
Merged-chr5-123720553-3	chr5	123720451	123720651	+	899.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027494, intron 1 of 13)	CpG	493.0	NM_027494	70650.0	Mm.279427	NM_027494	ENSMUSG00000029427	Zcchc8	5730565F05Rik	zinc finger, CCHC domain containing 8	protein-coding	5.5	16.0	5.5	10.0	18.5	4.5	12.0	7.0
Merged-chr10-119056724-4	chr10	119056616	119056816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6217.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	38.0	47.5	30.5	809.0	89.0	38.5	45.0	31.5
Merged-chr17-34261660-4	chr17	34261510	34261710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1617.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	145.0	244.0	112.5	1357.5	370.5	133.5	133.5	198.0
Merged-chr11-50275075-3	chr11	50274925	50275125	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	intron (NM_175334, intron 1 of 4)	17311.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	11.5	6.5	4.5	94.5	14.5	2.5	0.5	4.5
Merged-chr15-27725198-4	chr15	27725105	27725305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43663.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	54.0	52.5	51.0	837.0	131.5	46.0	64.0	50.0
Merged-chr14-33245092-4	chr14	33244997	33245197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	28274.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	52.0	65.5	42.5	816.0	90.5	34.0	32.5	32.0
Merged-chr6-92940337-1	chr6	92940237	92940437	+	669.0	f0_balb.idr	promoter-TSS (NR_015530)	promoter-TSS (NR_015530)	-245.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	4.5	6.0	5.5	101.5	0.5	0.0	0.0	0.5
Merged-chr13-37776932-4	chr13	37776838	37777038	+	975.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49100.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	28.0	30.0	30.5	328.0	58.5	24.5	15.0	25.5
Merged-chr10-99194831-4	chr10	99194725	99194925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 12 of 12)	intron (NR_153333, intron 12 of 12)	-68406.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	35.0	52.5	50.5	673.5	107.5	38.0	33.5	49.5
Merged-chr2-165857717-4	chr2	165857650	165857850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 2 of 11)	intron (NM_001252587, intron 2 of 11)	423.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	44.5	71.0	34.5	640.5	60.0	30.5	28.5	38.0
Merged-chr4-35063123-4	chr4	35063029	35063229	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 2 of 3)	intron (NM_178061, intron 2 of 3)	-88926.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	33.5	67.0	39.5	398.5	61.5	14.0	13.5	18.0
Merged-chr4-133874702-4	chr4	133874604	133874804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285506)	promoter-TSS (NM_001285506)	27.0	NM_001285506	20111.0	Mm.301827	NM_009097	ENSMUSG00000003644	Rps6ka1	Mapkapk-1a|Rsk|Rsk-1|Rsk1|S6K-alpha-1|p90-Rsk1|p90Rsk1|p90S6K|p90rsk	ribosomal protein S6 kinase polypeptide 1	protein-coding	58.5	72.0	30.5	545.0	85.0	27.0	24.5	39.5
Merged-chr10-100016623-3	chr10	100016523	100016723	+	901.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347156, intron 1 of 8)	CpG	802.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	13.5	12.0	11.0	113.0	27.0	2.0	9.5	8.5
Merged-chr13-94976384-4	chr13	94976309	94976509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172590)	promoter-TSS (NM_172590)	65.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	103.0	171.5	103.5	1171.5	209.5	57.5	74.5	81.5
Merged-chr8-14851438-4	chr8	14851345	14851545	+	900.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37091.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	15.5	20.0	19.0	317.5	67.0	6.5	12.5	15.0
Merged-chr10-57836279-3	chr10	57836189	57836389	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	41745.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	13.0	25.5	61.5	581.0	12.0	6.5	7.5	10.5
Merged-chr10-68085778-4	chr10	68085670	68085870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106200.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	59.0	74.0	75.0	1022.5	123.5	52.5	54.5	67.0
Merged-chr18-38354341-6	chr18	38354227	38354427	+	940.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15334.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	21.0	12.5	13.0	190.0	17.0	10.0	9.0	16.0
Merged-chr5-29434702-4	chr5	29434594	29434794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033457)	promoter-TSS (NM_001033457)	27.0	NM_001033457	433864.0	Mm.262815	NM_001033457	ENSMUSG00000001569	Nom1	D5Kng1|Gm1040	nucleolar protein with MIF4G domain 1	protein-coding	64.0	103.5	57.5	1209.5	123.5	44.0	72.5	77.5
Merged-chr2-5713452-4	chr2	5713349	5713549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	1313.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	117.0	189.0	84.0	1966.5	200.0	66.0	92.5	127.0
Merged-chr2-124620661-4	chr2	124620547	124620747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	10351.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	84.5	124.0	82.0	1700.0	182.5	64.5	89.0	66.0
Merged-chr11-83058936-4	chr11	83058824	83059024	+	960.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-6188.0	NM_011408	20556.0	Mm.278689	NM_011408	ENSMUSG00000072620	Slfn2	Shlf2	schlafen 2	protein-coding	18.0	38.0	13.0	92.0	35.0	14.5	12.0	18.5
Merged-chr16-10979591-4	chr16	10979501	10979701	+	913.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	MLT-int|LTR|ERVL-MaLR	13520.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	13.0	14.0	18.5	147.0	18.5	6.5	5.5	10.0
Merged-chr14-77524535-2	chr14	77524492	77524692	+	910.333374	f0_c57.idr|f1_balb.idr	intron (NM_001253759, intron 7 of 19)	intron (NM_001253759, intron 7 of 19)	-17724.0	NR_033141	629678.0	Mm.390721	NM_001037935	ENSMUSG00000067973	Gm6994	EG629678	predicted gene 6994	ncRNA	0.0	0.0	0.0	1.0	24.0	6.5	13.0	10.5
Merged-chr6-113664512-3	chr6	113664402	113664602	+	896.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	26035.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	3.5	6.0	2.0	131.0	28.0	9.5	5.0	4.5
Merged-chr15-6555735-4	chr15	6555618	6555818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24129.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	82.0	157.5	94.5	1238.5	203.0	83.0	59.0	52.5
Merged-chr15-12371371-4	chr15	12371246	12371446	+	965.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081064, intron 20 of 23)	intron (NM_001081064, intron 20 of 23)	49850.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	6.5	32.5	27.5	309.5	41.0	12.0	29.0	24.0
Merged-chr15-18823613-4	chr15	18823515	18823715	+	865.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009865, intron 1 of 11)	intron (NM_009865, intron 1 of 11)	3286.0	NM_009865	320873.0	Mm.117794	NM_009865	ENSMUSG00000022321	Cdh10	A830016G23Rik|C030003B10Rik|C030011H18Rik	cadherin 10	protein-coding	12.0	15.0	12.0	331.5	32.0	15.0	15.0	8.5
Merged-chr2-163939815-3	chr2	163939721	163939921	+	985.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21138.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	30.5	18.0	25.0	643.5	6.5	3.0	5.0	0.5
Merged-chr3-7502907-4	chr3	7502805	7503005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173181)	promoter-TSS (NM_173181)	-521.0	NM_173181	67306.0	Mm.332366	NM_173181	ENSMUSG00000043542	Zc2hc1a	3110050N22Rik|AI790358|AU023959|Fam164a	zinc finger, C2HC-type containing 1A	protein-coding	33.5	25.5	46.0	634.0	87.5	37.0	44.5	27.5
Merged-chr5-88565821-4	chr5	88565708	88565908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289774, intron 1 of 17)	CpG	768.0	NM_001289775	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	57.0	92.5	109.0	1090.0	117.5	63.5	72.0	83.0
Merged-chr5-72723596-4	chr5	72723484	72723684	+	951.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289494, intron 5 of 13)	intron (NM_001289494, intron 5 of 13)	13018.0	NM_013698	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	11.0	26.5	25.5	281.0	34.5	13.5	25.5	20.5
Merged-chr1-138328042-3	chr1	138327929	138328129	+	848.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54291.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	9.5	8.5	5.0	116.5	18.0	3.0	9.0	8.0
Merged-chr8-94811952-4	chr8	94811835	94812035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011332, exon 3 of 3)	3' UTR (NM_011332, exon 3 of 3)	1482.0	NM_011332	20295.0	Mm.41988	NM_011332	ENSMUSG00000031780	Ccl17	Abcd-2|Scya17|Scya17l|Tarc	chemokine (C-C motif) ligand 17	protein-coding	28.5	54.0	51.5	902.0	125.5	39.5	51.5	44.5
Merged-chr16-96126825-3	chr16	96126719	96126919	+	833.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008251, intron 4 of 5)	B3A|SINE|B2	906.0	NM_008251	15312.0	Mm.2756	NM_008251	ENSMUSG00000040681	Hmgn1	HMG-14|Hmg14	high mobility group nucleosomal binding domain 1	protein-coding	6.5	6.5	9.0	104.5	15.5	4.0	6.5	6.0
Merged-chr10-127586378-3	chr10	127586284	127586484	+	852.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 15 of 88)	intron (NM_008512, intron 15 of 88)	34764.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	19.5	15.5	13.5	220.0	8.5	5.5	9.0	8.0
Merged-chr2-128943917-5	chr2	128943812	128944012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020594, exon 1 of 9)	exon (NM_020594, exon 1 of 9)	108.0	NM_020594	57432.0	Mm.11675	NM_020594	ENSMUSG00000027387	Zc3h8	AU020882|E130108N08Rik|Fliz1|Zc3hdc8	zinc finger CCCH type containing 8	protein-coding	56.0	102.5	75.5	488.5	104.0	36.0	49.5	73.5
Merged-chr16-20316978-4	chr16	20316863	20317063	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183158, intron 2 of 8)	intron (NM_183158, intron 2 of 8)	8441.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	66.0	36.0	56.5	796.0	66.0	15.5	34.0	18.5
Merged-chr1-152832532-4	chr1	152832419	152832619	+	987.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 11 of 15)	RSINE1|SINE|B4	32366.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	32.5	34.0	49.0	688.5	41.5	14.5	53.0	26.0
Merged-chr6-17787899-2	chr6	17787799	17787999	+	822.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	L2b|LINE|L2	38729.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	7.0	5.5	11.0	77.0	10.0	8.0	5.0	1.5
Merged-chr18-21300326-4	chr18	21300200	21300400	+	951.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033445)	promoter-TSS (NM_001033445)	-161.0	NM_001033445	381126.0	Mm.312276	NM_001033445	ENSMUSG00000042680	Garem1	C86169|Fam59a|Garem|Gm944|mKIAA4238	GRB2 associated regulator of MAPK1 subtype 1	protein-coding	98.5	125.0	78.0	1215.0	30.0	10.5	14.5	14.0
Merged-chr4-34614904-4	chr4	34614809	34615009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015824)	promoter-TSS (NM_015824)	33.0	NM_001159563	50793.0	Mm.399624	NM_015824	ENSMUSG00000040044	Orc3	Orc3l	origin recognition complex, subunit 3	protein-coding	151.5	176.0	113.5	2582.0	337.0	103.5	174.0	125.5
Merged-chr2-173275720-5	chr2	173275551	173275751	+	873.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022995, intron 1 of 3)	intron (NM_022995, intron 1 of 3)	882.0	NM_022995	65112.0	Mm.73682	NM_022995	ENSMUSG00000038400	Pmepa1	2210418I02Rik|AW455466|Erg1.2|N4wbp4|Stag1|Tmepai	prostate transmembrane protein, androgen induced 1	protein-coding	7.5	10.0	8.5	178.5	11.5	4.0	9.5	6.0
Merged-chr5-24597550-4	chr5	24597450	24597650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025891, intron 2 of 12)	intron (NM_025891, intron 2 of 12)	4452.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	25.0	44.0	16.5	394.0	77.0	24.0	38.5	40.0
Merged-chr13-30750671-4	chr13	30750587	30750787	+	940.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013674, exon 2 of 9)	exon (NM_013674, exon 2 of 9)	1454.0	NM_013674	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	20.5	51.0	17.5	208.0	50.5	15.5	14.0	12.5
Merged-chr4-3647752-4	chr4	3647631	3647831	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8775.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	17.5	11.0	22.5	333.5	34.5	8.0	29.5	30.5
Merged-chr4-95867295-3	chr4	95867183	95867383	+	882.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	MIRb|SINE|MIR	99752.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	18.0	13.5	13.0	201.0	19.5	7.5	11.5	22.5
Merged-chr19-56547610-1	chr19	56547510	56547710	+	742.0	f0_balb.idr	promoter-TSS (NM_025811)	promoter-TSS (NM_025811)	512.0	NM_001360437	55947.0	Mm.2805	NM_018831	ENSMUSG00000025077	Dclre1a	2810043H12Rik|AU022226|Pso2|Smn1a|Snm1|mKIAA0086	DNA cross-link repair 1A	protein-coding	5.0	9.0	2.5	124.5	10.0	5.0	7.5	7.0
Merged-chr11-69995618-4	chr11	69995522	69995722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291125)	promoter-TSS (NM_001291125)	-144.0	NM_001291125	78246.0	Mm.20805	NM_030064	ENSMUSG00000018572	Phf23	JUNE-1	PHD finger protein 23	protein-coding	164.5	297.0	149.0	2155.0	542.0	234.0	189.5	211.5
Merged-chr14-19968475-4	chr14	19968389	19968589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285908, intron 1 of 3)	intron (NM_001285908, intron 1 of 3)	8204.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	45.0	52.0	20.5	325.5	87.5	37.5	31.5	24.0
Merged-chr19-7064784-4	chr19	7064688	7064888	+	862.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134147, intron 1 of 10)	intron (NM_134147, intron 1 of 10)	8020.0	NM_134147	107227.0	Mm.439977	NM_134147	ENSMUSG00000036278	Macrod1	AI604841|AW743046|D930010J01Rik|Lrp16	MACRO domain containing 1	protein-coding	12.5	20.0	9.5	94.5	29.5	8.0	15.0	14.5
Merged-chr4-36094327-3	chr4	36094224	36094424	+	983.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165999, intron 5 of 7)	intron (NM_001165999, intron 5 of 7)	-249120.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	14.5	6.0	16.5	332.5	9.5	10.5	3.0	9.5
Merged-chr14-31380464-4	chr14	31380351	31380551	+	993.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 3 of 7)	intron (NM_001347585, intron 3 of 7)	37226.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	18.5	16.5	22.0	407.5	64.5	9.5	30.5	35.0
Merged-chr10-44635448-4	chr10	44635416	44635616	+	926.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-176768.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	4.5	12.0	18.5	124.5	13.0	7.5	6.0	7.5
Merged-chr7-43659293-3	chr7	43659160	43659360	+	812.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_031181, exon 2 of 7)	exon (NM_031181, exon 2 of 7)	901.0	NM_031181	83382.0	Mm.157702	NM_031181	ENSMUSG00000030474	Siglece	Cd170|Siglec12|Siglec5|Siglec9|Siglecl1|mSiglec-E	sialic acid binding Ig-like lectin E	protein-coding	10.0	3.0	6.0	27.5	14.5	10.0	14.0	10.0
Merged-chr3-41412885-4	chr3	41412785	41412985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80314.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	47.5	46.5	51.0	1116.0	92.5	25.0	65.5	60.5
Merged-chr10-83648746-4	chr10	83648596	83648796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145220)	promoter-TSS (NM_145220)	-32.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	88.0	105.0	70.5	1527.5	223.5	78.0	112.0	98.5
Merged-chr5-88595684-4	chr5	88595521	88595721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359208, intron 2 of 13)	intron (NM_001359208, intron 2 of 13)	12108.0	NM_001359209	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	139.5	225.0	164.5	1740.5	354.5	133.0	145.5	130.5
Merged-chr13-58458996-4	chr13	58458904	58459104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55661.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	112.0	86.0	90.5	1235.5	161.5	55.5	52.0	78.0
Merged-chr13-23430932-4	chr13	23430826	23431026	+	985.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015492)	promoter-TSS (NR_015492)	91.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	16.5	42.0	23.5	242.5	45.5	20.5	22.5	27.0
Merged-chr7-139974529-3	chr7	139974440	139974640	+	974.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347613, intron 5 of 5)	intron (NM_001347613, intron 5 of 5)	4215.0	NM_001347614	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	22.0	19.5	22.5	326.0	12.0	4.0	12.5	10.5
Merged-chr6-120159337-4	chr6	120159221	120159421	+	930.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-34502.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	28.5	18.5	30.0	332.5	25.5	8.5	10.0	17.0
Merged-chr15-6389648-3	chr15	6389577	6389777	+	939.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037905, intron 1 of 13)	intron (NM_001037905, intron 1 of 13)	2929.0	NM_001310446	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	8.5	8.0	6.0	120.5	10.0	4.5	2.5	5.0
Merged-chr6-34607978-4	chr6	34607877	34608077	+	982.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 1 of 13)	intron (NM_001347100, intron 1 of 13)	9473.0	NM_001347100	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	4.0	24.0	15.0	144.5	35.5	16.5	18.0	17.0
Merged-chr12-69332299-4	chr12	69332153	69332353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025441, intron 16 of 32)	PB1D9|SINE|Alu	24923.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	15.5	21.0	20.0	285.5	32.5	7.5	11.5	22.5
Merged-chr1-171017945-4	chr1	171017776	171017976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1050.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	31.5	53.5	52.5	695.0	105.5	40.5	31.0	66.0
Merged-chr5-63859011-3	chr5	63858918	63859118	+	813.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029554, intron 1 of 3)	intron (NM_029554, intron 1 of 3)	46523.0	NM_029554	76261.0	Mm.38143	NM_029554	ENSMUSG00000060512	0610040J01Rik	AI662686	RIKEN cDNA 0610040J01 gene	protein-coding	9.5	15.5	8.0	185.0	13.0	4.5	9.0	3.5
Merged-chr4-128957379-4	chr4	128957267	128957467	+	917.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301841, intron 2 of 8)	intron (NM_001301841, intron 2 of 8)	5088.0	NM_172875	242669.0	Mm.215814	NM_172875	ENSMUSG00000028789	Azin2	4933429I20Rik|Adc|Azi2|B930082O19|ODC-p|Odcp	antizyme inhibitor 2	protein-coding	8.5	17.5	12.0	157.5	21.5	14.5	12.5	14.0
Merged-chr13-75820130-4	chr13	75820030	75820230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19755.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	42.0	61.0	47.0	746.5	103.0	39.5	41.5	45.5
Merged-chr5-66151774-6	chr5	66151655	66151855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291226)	promoter-TSS (NM_001291226)	199.0	NM_001127382	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	25.0	40.0	30.5	324.5	65.0	36.5	30.0	38.5
Merged-chr9-40455606-7	chr9	40455512	40455712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172768, exon 1 of 20)	exon (NM_172768, exon 1 of 20)	152.0	NM_172768	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	16.5	16.5	18.0	209.0	27.5	12.5	9.5	19.0
Merged-chr11-97987272-2	chr11	97987172	97987372	+	790.400024	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028199)	promoter-TSS (NM_028199)	-826.0	NM_001163608	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	6.5	7.5	5.5	49.0	12.0	2.5	1.0	4.5
Merged-chr3-105825836-4	chr3	105825722	105825922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10255.0	NR_045845	433637.0	Mm.331285	NR_045845	ENSMUSG00000104835	Gm5547	EG433637	predicted gene 5547	ncRNA	83.0	130.0	113.5	1641.0	253.0	84.0	106.5	130.5
Merged-chr13-3539075-3	chr13	3538954	3539154	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008112, intron 1 of 10)	intron (NM_008112, intron 1 of 10)	979.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	11.5	21.0	29.5	603.0	31.5	20.5	19.0	22.0
Merged-chr13-34253776-4	chr13	34253646	34253846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	90782.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	71.5	60.5	100.0	1112.5	95.5	21.0	49.5	48.0
Merged-chr14-73168789-4	chr14	73168705	73168905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134083, intron 10 of 14)	intron (NM_134083, intron 10 of 14)	26020.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	100.0	179.0	117.0	1445.5	252.0	115.5	84.0	89.5
Merged-chr2-3519993-4	chr2	3519892	3520092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177647, intron 2 of 3)	RMER10A|LTR|ERVL	6927.0	NM_177647	227526.0	Mm.211455	NM_177647	ENSMUSG00000039496	Cdnf	9330140G23|Armetl1	cerebral dopamine neurotrophic factor	protein-coding	24.5	42.5	28.0	473.0	93.0	31.0	30.5	27.0
Merged-chr1-134435629-4	chr1	134435534	134435734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-19897.0	NM_153128	240756.0	Mm.87398	NM_153128	ENSMUSG00000026455	Klhl12	C3ip1	kelch-like 12	protein-coding	24.0	37.0	19.0	423.5	88.0	16.0	25.5	27.5
Merged-chr8-60978705-4	chr8	60978610	60978810	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173873, intron 1 of 12)	intron (NM_173873, intron 1 of 12)	4601.0	NM_173873	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	29.5	35.0	21.5	417.0	76.5	20.5	23.5	15.0
Merged-chr1-72105650-4	chr1	72105530	72105730	+	888.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100435.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	8.0	9.0	7.0	154.5	20.0	4.5	10.5	10.0
Merged-chr2-58198714-4	chr2	58198616	58198816	+	768.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34742.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	13.0	11.5	7.5	159.0	17.0	5.0	12.5	12.0
Merged-chr12-82189979-4	chr12	82189875	82190075	+	858.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 1 of 23)	intron (NM_001167983, intron 1 of 23)	19959.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	15.5	11.5	5.5	162.5	25.0	17.5	12.5	13.5
Merged-chr15-50705452-4	chr15	50705351	50705551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	B3A|SINE|B2	183598.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	37.0	47.0	42.0	571.5	82.0	16.0	30.5	25.5
Merged-chr14-27412896-4	chr14	27412794	27412994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC|LINE|L1	-15940.0	NM_028945	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	21.0	21.5	18.0	699.0	94.5	30.0	35.0	45.5
Merged-chr18-53266544-4	chr18	53266442	53266642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	20880.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	241.0	341.0	293.5	4125.0	536.5	201.5	280.0	235.0
Merged-chr2-90395166-4	chr2	90395066	90395266	+	926.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_F3|LINE|L1	-5474.0	NM_146263	258330.0	Mm.330392	NM_146263	ENSMUSG00000082980	Olfr1274-ps	GA_x5J8B7W2BV0-3116-4045|MOR228-4|MOR228-5|Olfr1274	olfactory receptor 1274, pseudogene	protein-coding	21.0	40.0	46.0	592.0	57.5	35.5	29.0	60.5
Merged-chr19-46962390-4	chr19	46962284	46962484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028353)	promoter-TSS (NR_028353)	-33.0	NR_028353	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	52.5	88.5	33.0	437.5	107.0	51.5	34.5	35.5
Merged-chr11-98959664-4	chr11	98959574	98959774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001176528)	promoter-TSS (NM_001176528)	-797.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	131.0	189.5	163.0	2121.0	297.5	125.0	179.5	153.5
Merged-chr4-131916608-4	chr4	131916495	131916695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102394, intron 1 of 2)	intron (NR_102394, intron 1 of 2)	3434.0	NR_102394	545681.0	Mm.2478	NR_102393	ENSMUSG00000085667	Gm12992	-	predicted gene 12992	ncRNA	47.0	65.0	30.0	709.5	62.0	12.5	26.5	30.5
Merged-chr10-87858214-4	chr10	87858133	87858333	+	877.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010512)	promoter-TSS (NM_010512)	-32.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	6.0	17.0	14.5	166.5	29.0	13.0	10.0	9.0
Merged-chr5-114924851-8	chr5	114924487	114924687	+	864.59375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359946, intron 1 of 4)	intron (NM_001359946, intron 1 of 4)	1347.0	NM_001359945	231655.0	Mm.95479	NM_145209	ENSMUSG00000041827	Oasl1	7530414C13Rik|oasl9	2'-5' oligoadenylate synthetase-like 1	protein-coding	3.5	15.0	6.5	68.5	25.5	10.0	9.0	8.5
Merged-chr16-4626711-4	chr16	4626614	4626814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030205)	TTS (NM_030205)	-1768.0	NM_025571	66449.0	Mm.354760	NM_025571	ENSMUSG00000014301	Pam16	2010110I09Rik|AV006767|CGI-136|Magmas|Tim16|Timm16	presequence translocase-asssociated motor 16 homolog (S. cerevisiae)	protein-coding	40.0	26.0	58.0	740.0	89.5	33.0	50.0	48.5
Merged-chr2-103059419-3	chr2	103059326	103059526	+	604.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175094, intron 1 of 10)	intron (NM_175094, intron 1 of 10)	14087.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	6.5	7.5	8.5	88.5	18.5	2.0	18.5	5.0
Merged-chr11-102429305-6	chr11	102429220	102429420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-1002.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	15.5	36.0	29.0	488.5	112.0	50.0	40.0	41.5
Merged-chr1-152597089-4	chr1	152596993	152597193	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	28124.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	51.5	38.5	18.5	389.5	34.5	17.0	11.5	25.0
Merged-chr6-83681774-4	chr6	83681683	83681883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAA)n|Simple_repeat|Simple_repeat	-3926.0	NM_144943	246278.0	Mm.136079	NM_144943	ENSMUSG00000034783	Cd207	-	CD207 antigen	protein-coding	28.0	29.5	28.5	423.0	68.0	38.0	32.5	40.0
Merged-chr15-68259729-4	chr15	68259651	68259851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145888)	promoter-TSS (NM_001145888)	-895.0	NM_198644	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	35.0	34.5	22.0	353.0	51.5	16.5	30.0	21.5
Merged-chr5-105053755-5	chr5	105053714	105053914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029509)	promoter-TSS (NM_029509)	-253.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	10.5	9.5	12.5	96.0	84.0	26.5	24.0	28.5
Merged-chr11-117308094-4	chr11	117307999	117308199	+	920.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-23616.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	21.0	9.0	12.5	218.0	22.5	5.0	14.0	8.0
Merged-chr8-120471332-4	chr8	120471207	120471407	+	770.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17559.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	0.5	8.5	4.5	106.0	18.5	5.5	12.0	7.5
Merged-chr8-70543239-3	chr8	70543117	70543317	+	774.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	3542.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	4.5	11.0	8.0	67.5	9.0	7.5	5.5	8.5
Merged-chr14-20655041-5	chr14	20654954	20655154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021508, intron 2 of 5)	intron (NM_021508, intron 2 of 5)	1486.0	NM_021508	59011.0	Mm.439911	NM_021508	ENSMUSG00000068697	Myoz1	2310001N11Rik|AV090278|FATZ|Myoz	myozenin 1	protein-coding	26.5	47.5	35.0	265.0	90.5	59.0	51.5	46.5
Merged-chr9-85458562-4	chr9	85458435	85458635	+	921.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131385.0	NM_001160379	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	4.0	16.0	13.5	135.0	45.5	6.5	22.5	17.0
Merged-chr5-38500093-3	chr5	38500000	38500200	+	768.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145559, intron 1 of 10)	RMER19C|LTR|ERVK	2052.0	NM_145559	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	2.0	1.0	2.5	34.5	25.0	11.5	10.5	16.0
Merged-chr3-40705244-4	chr3	40705132	40705332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175515)	TTS (NM_175515)	-3639.0	NM_178386	73333.0	Mm.78691	NM_178386	ENSMUSG00000069041	Slc25a31	1700034J06Rik|Ant4|Sfec	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 31	protein-coding	72.5	53.5	150.5	2429.0	141.0	39.5	85.5	87.5
Merged-chr5-21387582-4	chr5	21387484	21387684	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	14911.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	10.5	13.0	5.5	211.5	31.0	7.5	12.0	9.5
Merged-chr2-118540429-4	chr2	118540316	118540516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 3 of 3)	intron (NM_001331221, intron 3 of 3)	4171.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	83.5	96.0	71.5	890.5	264.5	83.5	88.0	96.0
Merged-chr19-40649163-1	chr19	40649063	40649263	+	590.0	f1_balb.idr	intron (NM_001304721, intron 1 of 9)	intron (NM_001304721, intron 1 of 9)	-10607.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	10.5	4.5	6.0	36.5	15.5	1.5	2.5	3.0
Merged-chr10-26791994-4	chr10	26791895	26792095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	19483.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	27.5	50.0	43.0	671.0	81.5	6.5	25.5	19.0
Merged-chr3-131237928-4	chr3	131237843	131238043	+	793.979187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008212, intron 6 of 7)	intron (NM_008212, intron 6 of 7)	34158.0	NM_008212	15107.0	Mm.260164	NM_008212	ENSMUSG00000027984	Hadh	AA409008|AU019341|AW742602|HCDH|Hadhsc|Schad	hydroxyacyl-Coenzyme A dehydrogenase	protein-coding	5.0	13.5	6.5	122.0	20.5	7.5	9.0	6.5
Merged-chr5-123684684-7	chr5	123684824	123685024	+	831.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291229)	promoter-TSS (NM_001291229)	-563.0	NM_001359222	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	9.0	16.0	12.5	32.5	23.5	5.5	5.5	16.0
Merged-chr6-57773995-4	chr6	57773914	57774114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 3 of 4)	intron (NM_146168, intron 3 of 4)	51111.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	110.5	106.5	90.5	1392.5	229.0	68.5	97.0	118.0
Merged-chr7-144940365-4	chr7	144940242	144940442	+	990.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007631)	promoter-TSS (NM_007631)	-417.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	15.0	26.0	13.0	232.5	46.0	14.0	23.0	19.0
Merged-chr11-63098830-4	chr11	63098716	63098916	+	948.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30166.0	NM_001302258	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	10.0	20.5	19.5	117.5	52.5	17.0	25.0	7.5
Merged-chr11-47276871-4	chr11	47276783	47276983	+	919.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 2 of 7)	intron (NM_011891, intron 2 of 7)	102419.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	10.5	23.0	23.0	445.5	34.0	9.0	41.0	16.0
Merged-chr1-24698644-3	chr1	24698564	24698764	+	908.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 3 of 15)	intron (NM_026719, intron 3 of 15)	19746.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	8.0	6.5	4.5	121.0	11.0	1.5	1.0	4.5
Merged-chr9-56075438-4	chr9	56075343	56075543	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14533.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	21.0	25.0	6.5	192.5	44.0	11.0	13.5	15.0
Merged-chr2-26493128-4	chr2	26493029	26493229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008714, intron 2 of 33)	intron (NM_008714, intron 2 of 33)	10693.0	NM_008714	18128.0	Mm.290610	NM_008714	ENSMUSG00000026923	Notch1	9930111A19Rik|Mis6|N1|Tan1|lin-12	notch 1	protein-coding	66.5	49.5	51.5	679.0	110.5	52.5	64.0	49.5
Merged-chr19-44562810-4	chr19	44562748	44562948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176958)	promoter-TSS (NM_176958)	-6.0	NM_176958	319594.0	Mm.145278	NM_176958	ENSMUSG00000036450	Hif1an	2310046M24Rik|A830014H24Rik|FIH|FIH1	hypoxia-inducible factor 1, alpha subunit inhibitor	protein-coding	48.5	89.0	54.0	911.0	151.5	56.0	74.0	63.5
Merged-chr10-68268857-3	chr10	68268775	68268975	+	813.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	9851.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	11.0	12.0	7.0	65.5	12.5	6.0	9.5	7.0
Merged-chr15-96564036-4	chr15	96563939	96564139	+	957.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR28|LTR|ERVL	77923.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	24.5	16.0	26.0	303.0	49.0	7.0	14.0	21.0
Merged-chr12-108991622-3	chr12	108991530	108991730	+	669.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 3 of 6)	intron (NM_177602, intron 3 of 6)	76587.0	NM_001163175	380785.0	Mm.342085	NM_001163175	ENSMUSG00000040867	Begain	BM948371|Gm897	brain-enriched guanylate kinase-associated	protein-coding	7.5	5.5	5.5	103.0	3.5	2.0	3.0	7.5
Merged-chr3-89394211-2	chr3	89394122	89394322	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NR_040404)	promoter-TSS (NR_040404)	-68.0	NR_040404	545539.0	Mm.393389	NR_040403	ENSMUSG00000074466	Gm15417	-	predicted gene 15417	ncRNA	26.5	35.0	30.0	237.5	64.0	24.0	18.5	22.5
Merged-chr1-33739434-4	chr1	33739321	33739521	+	809.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008999, exon 8 of 8)	3' UTR (NM_008999, exon 8 of 8)	18329.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	6.0	14.0	12.5	122.5	20.0	5.5	5.5	19.5
Merged-chr10-80115649-4	chr10	80115535	80115735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011492)	promoter-TSS (NM_011492)	-168.0	NM_001301853	20869.0	Mm.44231	NM_011492	ENSMUSG00000003068	Stk11	AA408040|Lkb1|Par-4|R75140	serine/threonine kinase 11	protein-coding	304.0	502.0	333.0	4141.0	791.5	349.0	373.0	292.5
Merged-chr4-134289029-4	chr4	134288929	134289129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1183.0	NM_146156	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	46.5	55.0	52.0	632.0	77.0	36.0	39.5	38.5
Merged-chr13-43789200-4	chr13	43789106	43789306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009856, intron 2 of 4)	intron (NM_009856, intron 2 of 4)	4094.0	NM_001289915	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	174.0	281.5	195.5	2674.5	410.5	143.0	197.0	206.5
Merged-chr8-36172452-3	chr8	36172359	36172559	+	835.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16449.0	NR_151736	330738.0	Mm.128075	NR_151736	ENSMUSG00000109704	Gm38414	A230084N10|Gm45568	predicted gene, 38414	ncRNA	20.0	22.0	18.5	219.0	9.0	4.0	2.0	1.5
Merged-chr2-151979953-7	chr2	151979849	151980049	+	962.507935	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146127, intron 1 of 1)	CpG	270.0	NM_146127	73847.0	Mm.272444	NM_028666	ENSMUSG00000027459	Fam110a	1700008J10Rik|5430432M24Rik|AI747080	family with sequence similarity 110, member A	protein-coding	12.0	9.5	10.5	145.5	19.5	16.0	10.5	11.0
Merged-chr7-84150846-4	chr7	84150765	84150965	+	872.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133722, intron 1 of 2)	intron (NM_133722, intron 1 of 2)	1028.0	NM_133722	70178.0	Mm.23914	NM_133722	ENSMUSG00000038459	Abhd17c	2210412D01Rik|AL023007|Fam108c|Fam108c1	abhydrolase domain containing 17C	protein-coding	10.0	16.5	11.5	121.5	24.0	11.0	8.0	23.5
Merged-chr6-52672796-4	chr6	52672706	52672906	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER45B|DNA|hAT-Tip100	-32506.0	NM_145567	58875.0	Mm.286458	NM_145567	ENSMUSG00000029776	Hibadh	6430402H10Rik|AI265272	3-hydroxyisobutyrate dehydrogenase	protein-coding	35.5	65.5	37.0	429.0	108.0	39.0	35.0	12.5
Merged-chr3-95632452-4	chr3	95632370	95632570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019561)	TTS (NM_019561)	7490.0	NM_001026212	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	32.0	23.5	58.5	420.5	66.0	21.0	27.5	39.5
Merged-chr17-21534659-4	chr17	21534592	21534792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144515)	promoter-TSS (NM_144515)	-847.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	44.0	62.5	32.5	777.0	108.0	32.0	36.0	47.0
Merged-chr19-3935969-4	chr19	3935882	3936082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019449, intron 2 of 10)	intron (NM_019449, intron 2 of 10)	796.0	NM_001161428	54445.0	Mm.262094	NM_019449	ENSMUSG00000036908	Unc93b1	Unc-93B1|Unc93b	unc-93 homolog B1 (C. elegans)	protein-coding	60.0	61.0	43.5	453.0	132.5	40.0	45.0	53.5
Merged-chr2-25181135-1	chr2	25181035	25181235	+	650.0	f0_balb.idr	exon (NM_025980, exon 1 of 1)	exon (NM_025980, exon 1 of 1)	377.0	NM_025980	67122.0	Mm.46539	NM_025980	ENSMUSG00000078202	Nrarp	2700054M22Rik	Notch-regulated ankyrin repeat protein	protein-coding	2.0	16.0	14.0	75.0	29.5	9.0	8.5	5.5
Merged-chr2-32381972-4	chr2	32381866	32382066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198001)	promoter-TSS (NM_198001)	-51.0	NM_198001	73737.0	Mm.27608	NM_198001	ENSMUSG00000039195	1110008P14Rik	C79326	RIKEN cDNA 1110008P14 gene	protein-coding	92.5	108.5	48.5	933.0	226.0	58.0	87.5	60.0
Merged-chr10-4093008-4	chr10	4092901	4093101	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 24 of 27)	intron (NM_001170785, intron 24 of 27)	119926.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	37.5	33.5	63.0	1225.0	29.5	12.5	13.5	7.5
Merged-chr7-31177356-4	chr7	31177247	31177447	+	917.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14989.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	13.0	17.0	9.5	128.0	37.5	7.5	24.5	10.0
Merged-chr12-83771072-3	chr12	83770972	83771172	+	787.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205343, intron 3 of 27)	intron (NM_001205343, intron 3 of 27)	7438.0	NM_130887	170721.0	Mm.133443	NM_130887	ENSMUSG00000021223	Papln	E030033C16Rik	papilin, proteoglycan-like sulfated glycoprotein	protein-coding	6.0	15.0	5.0	82.5	16.5	9.5	9.5	7.5
Merged-chr1-60016369-4	chr1	60016266	60016466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357296, intron 3 of 10)	intron (NM_001357296, intron 3 of 10)	26756.0	NM_001357296	70375.0	Mm.17834	NM_027407	ENSMUSG00000026018	Ica1l	1700030B17Rik|Als2cr15|b2b3465Clo	islet cell autoantigen 1-like	protein-coding	36.0	31.0	39.5	601.5	39.0	9.0	14.0	22.0
Merged-chr10-88802445-4	chr10	88802337	88802537	+	974.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175158, intron 18 of 61)	MIR|SINE|MIR	24377.0	NM_175158	70683.0	Mm.29631	NM_175158	ENSMUSG00000004356	Utp20	3830408P06Rik|AA617408|Drim|mDRIM|mDRIN	UTP20 small subunit processome component	protein-coding	27.0	24.0	10.5	280.0	57.5	19.0	29.5	17.5
Merged-chr7-29953975-4	chr7	29953811	29954011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178384, exon 1 of 6)	5' UTR (NM_178384, exon 1 of 6)	154.0	NM_178384	72723.0	Mm.371648	NM_178384	ENSMUSG00000059975	Zfp74	2810054M15Rik|KRAB8|Zfp66|Znf569|mszf21|mszf77|zfp-74	zinc finger protein 74	protein-coding	32.0	62.5	38.5	497.0	45.5	25.0	40.5	36.5
Merged-chr3-51518627-4	chr3	51518516	51518716	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_080793, exon 8 of 8)	3' UTR (NM_080793, exon 8 of 8)	34650.0	NM_016858	19338.0	Mm.1664	NM_016858	ENSMUSG00000027739	Rab33b	-	RAB33B, member RAS oncogene family	protein-coding	28.5	49.0	32.0	562.5	33.0	16.5	18.0	22.5
Merged-chr9-32680317-4	chr9	32680194	32680394	+	977.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-15748.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	37.0	33.5	35.0	632.0	46.0	15.0	21.0	30.5
Merged-chr8-3441848-3	chr8	3441745	3441945	+	904.8666380000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133962, intron 9 of 19)	intron (NM_133962, intron 9 of 19)	25803.0	NM_026951	69129.0	Mm.45279	NM_026951	ENSMUSG00000069633	Pex11g	1810022F11Rik|1810049N02Rik|Pex11c|Pex11gamma	peroxisomal biogenesis factor 11 gamma	protein-coding	3.0	13.5	6.5	80.5	13.0	6.5	14.0	11.5
Merged-chr3-130059781-2	chr3	130059681	130059881	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207209, intron 1 of 23)	intron (NM_207209, intron 1 of 23)	1126.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	5.5	4.5	7.5	64.0	16.5	2.5	3.0	7.5
Merged-chr6-113660636-4	chr6	113660556	113660756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	ORR1D2|LTR|ERVL-MaLR	22189.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	129.0	163.0	143.0	1815.5	298.0	112.5	157.0	96.0
Merged-chr5-139791930-3	chr5	139791821	139792021	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010757, intron 1 of 2)	CpG	385.0	NM_010757	17135.0	Mm.157313	NM_010757	ENSMUSG00000018143	Mafk	AW061068|NF-E2|Nfe2u	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein K (avian)	protein-coding	49.5	74.0	52.5	655.5	94.5	30.5	38.0	35.0
Merged-chr7-99976537-4	chr7	99976444	99976644	+	972.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175388, intron 1 of 5)	intron (NM_175388, intron 1 of 5)	3914.0	NM_175388	108937.0	Mm.323087	NM_175388	ENSMUSG00000058761	Rnf169	2900057K09Rik	ring finger protein 169	protein-coding	31.5	39.0	28.0	485.0	44.0	14.5	17.5	18.0
Merged-chr8-128680777-4	chr8	128680702	128680902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4852.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	73.0	177.0	95.5	1129.0	280.5	93.5	62.5	69.0
Merged-chr3-31109305-4	chr3	31109194	31109394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039090, intron 2 of 6)	intron (NM_001039090, intron 2 of 6)	14236.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	32.5	85.0	44.0	598.0	104.5	43.5	40.5	49.5
Merged-chr19-55312011-4	chr19	55311916	55312116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025883, intron 3 of 10)	intron (NM_025883, intron 3 of 10)	4020.0	NM_001360595	66980.0	Mm.386789	NM_025883	ENSMUSG00000024982	Zdhhc6	2400007G07Rik|5930409M18Rik|AI462345|C77369|DHHC-6	zinc finger, DHHC domain containing 6	protein-coding	17.5	46.5	26.5	448.5	74.5	18.0	37.5	47.5
Merged-chr9-22390131-2	chr9	22390031	22390231	+	956.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028390)	promoter-TSS (NM_028390)	-925.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	8.5	11.0	5.5	64.0	18.0	8.5	2.0	9.5
Merged-chr12-4544589-4	chr12	4544485	4544685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	20472.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	62.0	44.0	47.5	639.5	98.0	36.0	48.0	24.5
Merged-chr9-59767125-4	chr9	59767054	59767254	+	736.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173018, intron 1 of 43)	intron (NM_173018, intron 1 of 43)	15980.0	NM_173018	270163.0	Mm.249545	NM_173018	ENSMUSG00000039585	Myo9a	4732465J09Rik|C130068I12Rik|C230003M11	myosin IXa	protein-coding	6.0	12.0	5.0	92.0	15.0	9.0	9.5	8.5
Merged-chr6-108659819-3	chr6	108659725	108659925	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011498)	promoter-TSS (NM_011498)	-804.0	NM_011498	20893.0	Mm.2436	NM_011498	ENSMUSG00000030103	Bhlhe40	Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14	basic helix-loop-helix family, member e40	protein-coding	109.0	153.0	156.0	1693.5	243.5	95.5	97.0	124.0
Merged-chr4-40174459-4	chr4	40174368	40174568	+	988.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007386, intron 4 of 20)	intron (NM_007386, intron 4 of 20)	31203.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	35.5	58.0	60.0	728.0	33.0	13.5	21.5	25.5
Merged-chr18-23813578-4	chr18	23813492	23813692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	L1ME1|LINE|L1	9622.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	66.0	142.0	43.5	994.5	163.0	76.0	70.0	44.5
Merged-chr14-87452248-3	chr14	87452147	87452347	+	880.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253755, intron 1 of 11)	intron (NM_001253755, intron 1 of 11)	35664.0	NM_001253755	219249.0	Mm.35168	NM_172605	ENSMUSG00000022019	Tdrd3	4732418C03Rik|6720468N18	tudor domain containing 3	protein-coding	13.5	15.0	7.5	202.5	22.0	2.0	2.0	3.0
Merged-chr14-32192599-4	chr14	32192502	32192702	+	892.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016897, intron 4 of 6)	intron (NM_016897, intron 4 of 6)	9289.0	NM_016897	53600.0	Mm.303703	NM_016897	ENSMUSG00000013701	Timm23	Tim23	translocase of inner mitochondrial membrane 23	protein-coding	11.5	17.0	2.0	119.0	38.5	9.0	13.0	9.0
Merged-chr15-57926571-3	chr15	57926476	57926676	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356310, intron 3 of 19)	intron (NM_001356310, intron 3 of 19)	14377.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	3.0	8.0	4.5	57.0	21.5	4.5	7.5	4.5
Merged-chr17-46523261-4	chr17	46523149	46523349	+	888.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081335, intron 17 of 40)	intron (NM_001081335, intron 17 of 40)	23139.0	NM_001081335	78309.0	Mm.329076	NM_001081335	ENSMUSG00000040327	Cul9	1810035I07Rik|Cul-9|Parc|mKIAA0708	cullin 9	protein-coding	9.5	18.0	18.0	141.0	10.5	7.0	15.5	13.0
Merged-chr10-44511227-3	chr10	44511132	44511332	+	915.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52484.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	10.0	16.0	3.0	133.5	12.5	7.5	4.5	8.5
Merged-chr13-46735448-4	chr13	46735349	46735549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7600.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	17.5	38.5	23.0	411.0	70.0	18.0	31.5	32.5
Merged-chr10-127288846-4	chr10	127288759	127288959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033072, exon 1 of 13)	5' UTR (NM_033072, exon 1 of 13)	159.0	NM_001347171	110962.0	Mm.372826	NM_033072	ENSMUSG00000025409	Mbd6	D10Wsu93e	methyl-CpG binding domain protein 6	protein-coding	70.0	99.0	38.5	632.5	160.0	74.5	62.5	96.5
Merged-chr1-60745840-3	chr1	60745769	60745969	+	801.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007642)	promoter-TSS (NM_007642)	-519.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	4.0	5.5	3.0	90.5	12.0	5.0	4.5	9.0
Merged-chr7-19629497-4	chr7	19629348	19629548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009046)	promoter-TSS (NM_009046)	-10.0	NM_009046	19698.0	Mm.1741	NM_009046	ENSMUSG00000002983	Relb	shep	avian reticuloendotheliosis viral (v-rel) oncogene related B	protein-coding	88.5	121.5	53.5	953.0	180.5	93.5	83.0	75.5
Merged-chr1-131671307-4	chr1	131671195	131671395	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007799, intron 7 of 9)	intron (NM_007799, intron 7 of 9)	-17400.0	NM_001311096	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	13.5	18.0	6.0	281.5	120.0	37.5	69.0	54.0
Merged-chr4-59366348-4	chr4	59366205	59366405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 9 of 16)	intron (NM_001163288, intron 9 of 16)	72328.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	115.0	77.0	85.5	1405.0	121.0	46.0	61.5	48.5
Merged-chr10-37138933-4	chr10	37138805	37139005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008538)	promoter-TSS (NM_008538)	21.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	106.0	148.0	76.5	1442.5	260.0	83.0	115.5	65.0
Merged-chr10-117148021-2	chr10	117147937	117148137	+	901.75	f0_balb.idr|f0_c57.idr	intron (NM_177798, intron 1 of 9)	CpG	437.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	8.0	15.0	17.5	197.5	34.5	17.0	20.0	22.0
Merged-chr13-23424706-4	chr13	23424626	23424826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013924)	promoter-TSS (NM_013924)	-860.0	NM_013924	30946.0	Mm.292094	NM_013924	ENSMUSG00000036376	Abt1	-	activator of basal transcription 1	protein-coding	59.5	88.0	68.5	972.0	156.0	49.0	89.0	50.0
Merged-chr8-10170116-3	chr8	10170012	10170212	+	770.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001319151, intron 1 of 34)	intron (NM_001319151, intron 1 of 34)	16201.0	NM_001319151	244281.0	Mm.422761	NM_001081397	ENSMUSG00000039057	Myo16	BM140241|C230040D10Rik|Gm1105|NYAP3|mKIAA0865	myosin XVI	protein-coding	5.5	4.0	6.0	96.0	19.5	6.5	7.5	9.5
Merged-chr11-79224682-4	chr11	79224588	79224788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18336.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	34.5	62.0	26.5	304.0	84.5	30.0	39.0	44.0
Merged-chr14-17435613-4	chr14	17435521	17435721	+	842.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D11|SINE|Alu	-225339.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	14.0	9.0	10.5	169.5	32.5	14.0	16.0	9.0
Merged-chr10-88351880-4	chr10	88351783	88351983	+	821.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 1 of 6)	intron (NM_027878, intron 1 of 6)	5192.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	12.5	15.5	10.5	194.0	27.5	13.0	12.5	15.5
Merged-chr5-96161653-6	chr5	96161554	96161754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285511)	promoter-TSS (NM_001285511)	101.0	NM_178854	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	24.5	18.0	20.0	239.5	52.5	13.5	15.0	21.0
Merged-chr1-35951245-3	chr1	35951147	35951347	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117153.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	8.5	17.5	9.5	183.0	20.5	6.5	6.5	3.5
Merged-chr19-32224918-4	chr19	32224822	32225022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 4 of 9)	Lx9|LINE|L1	-13909.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	71.5	121.5	61.0	930.0	115.0	45.0	61.0	36.5
Merged-chr6-57535647-4	chr6	57535550	57535750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175523)	promoter-TSS (NM_175523)	-224.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	498.0	688.5	671.5	8961.5	1236.5	513.5	569.0	505.0
Merged-chr2-29655676-4	chr2	29655592	29655792	+	903.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	35972.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	6.5	10.5	4.0	96.5	28.5	6.0	15.0	15.0
Merged-chr2-166662978-4	chr2	166662896	166663096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	50836.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	39.0	66.0	66.0	747.5	142.0	31.5	62.0	62.0
Merged-chr10-118736284-4	chr10	118736189	118736389	+	976.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	132614.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	9.0	32.5	24.0	354.5	136.5	24.5	51.5	39.5
Merged-chr18-75696998-4	chr18	75696931	75697131	+	962.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 1 of 11)	CpG	665.0	NM_201354	269037.0	Mm.36745	NM_201354	ENSMUSG00000052928	Ctif	Gm672	CBP80/20-dependent translation initiation factor	protein-coding	10.5	24.5	30.5	286.5	42.5	19.0	14.5	30.0
Merged-chr7-139979600-4	chr7	139979496	139979696	+	867.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347613)	promoter-TSS (NM_001347613)	-841.0	NM_001347613	381933.0	Mm.440431	NM_001033465	ENSMUSG00000073795	6430531B16Rik	Gm1093	RIKEN cDNA 6430531B16 gene	protein-coding	9.5	14.5	9.0	268.5	24.0	8.0	15.0	11.0
Merged-chr11-21031992-4	chr11	21031891	21032091	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59333.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	45.0	162.0	30.5	357.5	189.5	39.0	55.5	30.5
Merged-chr1-95657408-4	chr1	95657291	95657491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 2 of 3)	intron (NM_001159745, intron 2 of 3)	10203.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	138.0	142.5	181.0	2401.5	287.5	94.0	142.5	121.0
Merged-chr17-34264869-7	chr17	34264813	34265013	+	948.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207105, exon 2 of 6)	exon (NM_207105, exon 2 of 6)	1686.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	26.0	36.5	21.0	134.5	28.0	11.0	11.0	22.0
Merged-chr14-60269346-4	chr14	60269296	60269496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144843, intron 1 of 13)	intron (NM_144843, intron 1 of 13)	4191.0	NM_144843	219135.0	Mm.247007	NM_144843	ENSMUSG00000021987	Mtmr6	4022440C11Rik|AI428804|AU041072	myotubularin related protein 6	protein-coding	71.5	138.5	62.0	410.0	157.0	58.0	31.5	38.5
Merged-chr8-26023910-4	chr8	26023838	26024038	+	927.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_207659, exon 22 of 22)	3' UTR (NM_207659, exon 22 of 22)	-8337.0	NM_008033	14272.0	Mm.3496	NM_008033	ENSMUSG00000015994	Fnta	FTA	farnesyltransferase, CAAX box, alpha	protein-coding	36.0	38.5	39.0	624.0	26.0	8.0	9.5	15.0
Merged-chr15-58344096-4	chr15	58344030	58344230	+	910.179199	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027211, intron 8 of 8)	intron (NM_027211, intron 8 of 8)	-19961.0	NM_177755	268807.0	Mm.124498	NM_177755	ENSMUSG00000022357	Klhl38	8230402K04Rik	kelch-like 38	protein-coding	18.5	12.0	32.5	256.0	27.5	20.5	23.5	23.0
Merged-chr4-145295842-4	chr4	145295772	145295972	+	796.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009401, intron 4 of 12)	intron (NM_009401, intron 4 of 12)	19275.0	NM_009401	21941.0	Mm.12810	NM_009401	ENSMUSG00000028602	Tnfrsf8	Cd30|D1S166E|Ki|Ki-1	tumor necrosis factor receptor superfamily, member 8	protein-coding	12.0	18.0	7.5	94.5	25.0	9.5	12.0	10.5
Merged-chr17-28707461-4	chr17	28707346	28707546	+	905.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	14878.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	17.5	18.0	30.5	256.0	18.5	9.5	14.0	11.0
Merged-chr1-88745431-4	chr1	88745335	88745535	+	782.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9455.0	NR_040493	78650.0	Mm.243767	NR_040493	ENSMUSG00000097398	Platr5	2410088K16Rik	pluripotency associated transcript 5	ncRNA	14.0	16.0	12.0	132.5	20.0	9.5	12.5	11.0
Merged-chr3-67583341-2	chr3	67583233	67583433	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025813, intron 1 of 15)	intron (NM_025813, intron 1 of 15)	565.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	5.5	22.0	16.5	101.5	18.5	19.5	5.0	13.5
Merged-chr1-150335333-3	chr1	150335233	150335433	+	756.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040603, intron 2 of 3)	intron (NR_040603, intron 2 of 3)	11438.0	NR_040603	75584.0	Mm.47709	NR_040603	ENSMUSG00000099447	2310030A07Rik	-	RIKEN cDNA 2310030A07 gene	ncRNA	5.0	16.5	2.5	118.5	17.5	5.5	8.0	10.0
Merged-chr3-103737935-3	chr3	103737824	103738024	+	859.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133859)	promoter-TSS (NM_133859)	77.0	NM_133859	99543.0	Mm.211535	NM_133859	ENSMUSG00000027848	Olfml3	2810002E22Rik|AI115209|AW550633|HNOEL-iso|ONT3|mONT3	olfactomedin-like 3	protein-coding	3.5	5.0	4.5	149.0	23.0	5.5	6.0	10.0
Merged-chr5-17878652-3	chr5	17878527	17878727	+	925.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	10332.0	NM_001159558	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	9.5	9.0	14.5	148.5	28.5	3.0	6.5	9.5
Merged-chr9-83807771-3	chr9	83807670	83807870	+	753.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1465.0	NM_148941	83603.0	Mm.83949	NM_148941	ENSMUSG00000032262	Elovl4	-	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 4	protein-coding	4.5	0.0	8.0	91.5	13.5	5.0	6.5	6.5
Merged-chr11-95520912-4	chr11	95520814	95521014	+	957.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6349.0	NM_130858	104079.0	Mm.22970	NM_130858	ENSMUSG00000046719	Nxph3	-	neurexophilin 3	protein-coding	17.0	14.0	9.0	172.0	38.5	15.0	17.5	8.5
Merged-chr1-153918696-4	chr1	153918597	153918797	+	981.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18768.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	15.5	20.0	14.0	241.5	50.0	19.5	20.0	23.0
Merged-chr5-34549401-4	chr5	34549277	34549477	+	578.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145859)	promoter-TSS (NM_001145859)	-199.0	NM_001145859	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	11.0	6.5	1.0	81.0	32.0	8.0	8.5	14.5
Merged-chr4-126968261-4	chr4	126968172	126968372	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357201)	promoter-TSS (NM_001357201)	-349.0	NM_001114399	67785.0	Mm.165401	NM_001114399	ENSMUSG00000042446	Zmym4	6330503C17Rik|AI480785|AW493829|CDIR|D630001M21|MYM|Zfp262|Znf262|mKIAA0425	zinc finger, MYM-type 4	protein-coding	22.0	56.5	32.0	205.0	76.5	29.5	32.0	16.5
Merged-chr11-53769937-4	chr11	53769834	53770034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159396)	promoter-TSS (NM_001159396)	-80.0	NM_001159393	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	242.0	425.0	193.0	2080.5	561.0	221.5	169.5	150.0
Merged-chr6-82902767-1	chr6	82902667	82902867	+	643.0	f0_balb.idr	Intergenic	L1MC4a|LINE|L1	-20914.0	NR_040520	69652.0	Mm.96357	NR_040520	ENSMUSG00000100291	2310069B03Rik	-	RIKEN cDNA 2310069B03 gene	ncRNA	7.0	7.5	9.0	92.5	6.0	2.0	5.5	2.5
Merged-chr16-13372150-4	chr16	13372075	13372275	+	991.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153588, intron 1 of 14)	intron (NM_153588, intron 1 of 14)	13754.0	NM_153588	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	28.5	30.5	31.0	426.5	43.0	17.0	22.5	16.5
Merged-chr3-115818905-4	chr3	115818821	115819021	+	968.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69138.0	NR_027894	68161.0	Mm.392043	NR_015487	ENSMUSG00000054426	A930005H10Rik	-	RIKEN cDNA A930005H10 gene	ncRNA	32.5	33.5	18.5	531.0	60.0	13.5	40.5	23.5
Merged-chr6-145116471-3	chr6	145116380	145116580	+	833.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281980, intron 1 of 18)	intron (NM_001281980, intron 1 of 18)	844.0	NM_001281981	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	10.0	12.5	5.0	55.0	25.0	7.5	5.5	15.5
Merged-chr1-181170447-4	chr1	181170334	181170534	+	999.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19503.0	NM_030131	98417.0	Mm.38229	NM_030131	ENSMUSG00000062169	Cnih4	AI647760|AW050376|CNIH-4|D530030D03Rik|E430023H19Rik|HSPC163	cornichon family AMPA receptor auxiliary protein 4	protein-coding	16.5	30.5	49.5	279.5	25.5	16.5	13.0	13.5
Merged-chr2-154943271-2	chr2	154943176	154943376	+	697.049988	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-50370.0	NM_026030	67204.0	Mm.377134	NM_026030	ENSMUSG00000074656	Eif2s2	2810026E11Rik|38kDa|AA408636|AA571381|AA986487|AW822225|D2Ertd303e|EIF2|EIF2B	eukaryotic translation initiation factor 2, subunit 2 (beta)	protein-coding	10.5	12.5	7.5	100.5	8.0	4.5	7.0	8.0
Merged-chr14-31423282-4	chr14	31423180	31423380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	-5603.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	103.0	97.5	103.5	1595.0	221.5	71.0	79.5	77.5
Merged-chr3-38144301-4	chr3	38144199	38144399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63820.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	28.0	40.0	26.5	485.5	83.5	31.0	44.5	30.5
Merged-chr6-129369919-4	chr6	129369832	129370032	+	941.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	15571.0	NM_027709	71183.0	Mm.79402	NM_027709	ENSMUSG00000030158	Clec12b	4933425B16Rik	C-type lectin domain family 12, member B	protein-coding	26.0	24.5	17.5	300.0	38.5	16.5	15.5	13.0
Merged-chr10-60362337-4	chr10	60362229	60362429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 3 of 6)	intron (NM_028732, intron 3 of 6)	15478.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	39.5	32.0	105.0	1508.0	82.0	16.5	45.5	63.0
Merged-chr6-33884327-4	chr6	33884213	33884413	+	906.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 14 of 17)	intron (NM_009148, intron 14 of 17)	-145135.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	6.5	23.0	15.0	278.5	21.0	14.5	15.0	14.5
Merged-chr6-42351620-2	chr6	42351520	42351720	+	984.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_011777, exon 5 of 10)	exon (NM_011777, exon 5 of 10)	1792.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	5.5	11.0	6.0	80.5	14.0	3.5	8.0	14.5
Merged-chr13-12569921-4	chr13	12569812	12570012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026184, intron 1 of 15)	intron (NM_026184, intron 1 of 15)	4029.0	NM_026184	67475.0	Mm.358706	NM_026184	ENSMUSG00000057069	Ero1lb	1300013B24Rik|1700065B09Rik|AI447560|Ero1b|ero1-beta	ERO1-like beta (S. cerevisiae)	protein-coding	64.0	77.5	79.0	1210.5	173.5	57.0	75.0	89.0
Merged-chr4-41314353-4	chr4	41314294	41314494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026893, intron 1 of 8)	CpG	507.0	NM_026893	68970.0	Mm.28891	NM_026893	ENSMUSG00000028436	Dcaf12	1500001L20Rik|5830424K06Rik|AA420338|AI851081|Wdr40a	DDB1 and CUL4 associated factor 12	protein-coding	36.0	65.5	66.0	564.5	85.0	30.5	63.5	61.0
Merged-chr2-27237523-2	chr2	27237423	27237623	+	842.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_138665, intron 6 of 20)	intron (NM_138665, intron 6 of 20)	9780.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	10.0	8.0	10.0	46.0	21.5	2.5	6.0	9.5
Merged-chr3-95494525-3	chr3	95494410	95494610	+	862.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009709, exon 20 of 21)	exon (NM_009709, exon 20 of 21)	-4700.0	NM_007802	13038.0	Mm.272085	NM_007802	ENSMUSG00000028111	Ctsk	AI323530|MMS10-Q|Ms10q|catK	cathepsin K	protein-coding	6.5	13.0	5.5	84.5	19.5	8.5	9.0	3.5
Merged-chr5-66088886-4	chr5	66088793	66088993	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	9286.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	30.5	84.0	20.0	252.5	115.5	61.0	46.0	24.0
Merged-chr19-45585042-3	chr19	45584940	45585140	+	929.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 6 of 8)	intron (NM_013907, intron 6 of 8)	24455.0	NM_172639	226162.0	Mm.21978	NM_172639	ENSMUSG00000041035	Dpcd	Ndac	deleted in primary ciliary dyskinesia	protein-coding	9.0	11.5	6.0	181.0	29.0	5.0	21.5	6.5
Merged-chr5-31908202-3	chr5	31908099	31908299	+	898.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 7 of 11)	intron (NM_144541, intron 7 of 11)	210149.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	11.5	12.5	16.0	156.5	18.5	13.0	10.0	8.5
Merged-chr16-44190294-4	chr16	44190213	44190413	+	879.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029889, intron 1 of 7)	intron (NM_001029889, intron 1 of 7)	16916.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	16.0	12.5	11.5	243.0	53.0	4.0	11.5	15.5
Merged-chr17-53690143-4	chr17	53690056	53690256	+	968.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028232)	promoter-TSS (NM_028232)	-841.0	NM_028232	72415.0	Mm.153202	NM_028232	ENSMUSG00000023940	Sgo1	3300001M08Rik|C81037|Sgol1	shugoshin 1	protein-coding	17.5	14.0	15.5	440.0	48.0	12.5	28.0	20.5
Merged-chr5-143056719-4	chr5	143056611	143056811	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	56309.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	31.0	32.5	35.5	510.0	61.0	15.0	15.0	29.0
Merged-chr5-101239539-4	chr5	101239452	101239652	+	886.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	393323.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	7.5	11.5	5.5	108.0	31.5	8.5	6.0	6.5
Merged-chr7-138840884-4	chr7	138840795	138840995	+	781.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045483, intron 1 of 1)	intron (NM_001045483, intron 1 of 1)	5372.0	NM_001045483	69546.0	Mm.31598	NM_027115	ENSMUSG00000041775	Mapk1ip1	2310009E07Rik|AU043776|MISS	mitogen-activated protein kinase 1 interacting protein 1	protein-coding	6.5	12.5	9.5	113.0	22.5	8.0	19.0	9.5
Merged-chr16-37871404-4	chr16	37871282	37871482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177093, intron 1 of 3)	intron (NM_177093, intron 1 of 3)	2982.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	39.0	32.5	18.5	383.0	59.0	17.0	30.5	24.5
Merged-chr1-33813361-4	chr1	33813267	33813467	+	894.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359274, intron 2 of 13)	intron (NM_001359274, intron 2 of 13)	1228.0	NM_133817	98403.0	Mm.289103	NM_133817	ENSMUSG00000042197	Zfp451	4930515K21Rik|4933435G09Rik|AI596398|COASTER|Kiaa0576-hp|Znf451|mKIAA1702	zinc finger protein 451	protein-coding	6.0	15.5	9.5	184.0	46.5	6.5	12.0	13.0
Merged-chr14-121907455-4	chr14	121907368	121907568	+	942.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 3 of 8)	intron (NM_026861, intron 3 of 8)	8306.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	22.0	20.0	22.0	429.5	39.5	13.5	26.0	9.5
Merged-chr18-63709296-4	chr18	63709186	63709386	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014981, intron 1 of 27)	intron (NM_001014981, intron 1 of 27)	591.0	NM_001014981	104082.0	Mm.30850	NM_001014981	ENSMUSG00000040560	Wdr7	AI462727|TRAG|mKIAA0541	WD repeat domain 7	protein-coding	14.0	16.5	12.5	202.0	53.5	12.0	22.5	12.5
Merged-chr6-88068955-4	chr6	88068851	88069051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-15522.0	NM_133933	103963.0	Mm.188544	NM_133933	ENSMUSG00000030062	Rpn1	AU018702|D6Wsu137e|Rpn-1	ribophorin I	protein-coding	26.5	44.5	28.0	667.5	72.5	27.0	31.0	29.0
Merged-chr5-24674423-4	chr5	24674315	24674515	+	943.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERGLN-int|LTR|ERV1	-11400.0	NM_016736	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	21.0	31.0	6.5	254.0	57.0	9.0	21.5	13.0
Merged-chr12-117385895-4	chr12	117385793	117385993	+	875.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48881.0	NR_044987	432713.0	Mm.459210	NR_044987	ENSMUSG00000101930	Gm5441	-	predicted gene 5441	ncRNA	19.5	14.5	14.5	315.0	28.0	3.5	16.0	9.5
Merged-chr13-113618507-4	chr13	113618414	113618614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130796)	promoter-TSS (NM_130796)	50.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	162.0	279.0	184.5	2014.0	488.5	194.0	231.0	165.5
Merged-chr12-108179490-4	chr12	108179364	108179564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028262)	promoter-TSS (NM_028262)	-180.0	NM_028262	52690.0	Mm.159185	NM_028262	ENSMUSG00000056770	Setd3	2610102I01Rik|2610305M23Rik|6030490B17Rik|D12Ertd771e	SET domain containing 3	protein-coding	358.5	570.0	392.5	5580.0	816.5	352.5	412.0	340.0
Merged-chr12-3904113-4	chr12	3904022	3904222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153743, intron 14 of 17)	intron (NM_153743, intron 14 of 17)	12378.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	49.0	85.5	90.0	1302.0	130.5	50.0	94.5	82.0
Merged-chr9-14758787-4	chr9	14758685	14758885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029306, intron 3 of 3)	intron (NM_029306, intron 3 of 3)	-6663.0	NM_010242	14345.0	Mm.63450	NM_010242	ENSMUSG00000049307	Fut4	AI451562|CD15|FAL|FucT-IV|LeX|SSEA-1|Ssea1	fucosyltransferase 4	protein-coding	64.0	106.0	73.5	1222.5	127.0	52.5	87.5	78.5
Merged-chr17-34606458-4	chr17	34606338	34606538	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163379, intron 1 of 6)	intron (NM_001163379, intron 1 of 6)	577.0	NM_001163379	55979.0	Mm.8684	NM_018862	ENSMUSG00000034254	Agpat1	1-AGP|1-AGPAT|AW047140	1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha)	protein-coding	33.0	83.0	27.5	150.5	123.5	51.0	28.0	20.5
Merged-chr13-111977960-4	chr13	111977894	111978094	+	913.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	110058.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	23.5	25.5	37.0	478.5	12.5	3.0	14.5	15.0
Merged-chr19-3322745-1	chr19	3322645	3322845	+	850.0	f0_c57.idr	promoter-TSS (NM_013495)	promoter-TSS (NM_013495)	-556.0	NM_013495	12894.0	Mm.18522	NM_013495	ENSMUSG00000024900	Cpt1a	C730027G07|CPTI|Cpt1	carnitine palmitoyltransferase 1a, liver	protein-coding	11.0	11.5	5.0	97.5	33.5	7.0	11.0	8.5
Merged-chr15-73078791-8	chr15	73078695	73078895	+	910.2728880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-11617.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	4.0	7.5	12.0	69.0	11.0	10.0	6.5	12.0
Merged-chr3-108200568-4	chr3	108200582	108200782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081320, exon 1 of 3)	exon (NM_001081320, exon 1 of 3)	152.0	NM_028061	72023.0	Mm.246391	NM_028061	ENSMUSG00000048796	Cyb561d1	1600010M23Rik|AI605489|AW457162	cytochrome b-561 domain containing 1	protein-coding	72.0	127.5	136.0	1304.5	200.5	85.5	106.5	110.5
Merged-chr2-19528987-4	chr2	19528880	19529080	+	631.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027600, intron 4 of 16)	intron (NM_027600, intron 4 of 16)	24930.0	NM_027600	70909.0	Mm.158488	NM_027600	ENSMUSG00000026734	4921504E06Rik	4921522E24Rik	RIKEN cDNA 4921504E06 gene	protein-coding	6.0	10.0	2.0	90.5	24.0	14.5	9.5	4.5
Merged-chr9-40319808-2	chr9	40319708	40319908	+	653.299988	f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	1515.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	5.0	6.0	6.0	61.5	9.5	7.0	0.0	6.5
Merged-chr12-111574439-4	chr12	111574349	111574549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045295)	promoter-TSS (NR_045295)	-47.0	NR_045295	100504687.0	Mm.26072	NR_045295	ENSMUSG00000096995	2810029C07Rik	AU017849	RIKEN cDNA 2810029C07 gene	ncRNA	142.5	183.0	83.0	1655.5	332.5	121.5	114.5	113.5
Merged-chr18-38212857-4	chr18	38212763	38212963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3101.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	62.0	67.0	20.0	886.5	128.5	46.5	55.0	60.0
Merged-chr11-70789479-4	chr11	70789372	70789572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23089.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	42.5	62.5	25.0	374.0	117.0	36.0	39.5	35.0
Merged-chr5-105623034-4	chr5	105622978	105623178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76891.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	92.5	103.5	70.0	1208.5	177.0	55.5	74.0	68.5
Merged-chr18-62044329-4	chr18	62044260	62044460	+	921.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	91285.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	9.0	7.5	9.0	183.0	25.0	4.0	15.0	16.5
Merged-chr2-73054253-4	chr2	73054153	73054353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73807.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	146.0	171.0	184.0	2217.0	337.0	98.0	174.0	136.5
Merged-chr6-31525739-2	chr6	31525639	31525839	+	993.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_013723, intron 4 of 7)	intron (NM_013723, intron 4 of 7)	38198.0	NM_013723	27205.0	Mm.89918	NM_013723	ENSMUSG00000025608	Podxl	AW121214|Ly102|PC|PCLP-1|Pclp1|Podxl1	podocalyxin-like	protein-coding	5.5	15.0	6.5	52.5	7.5	5.5	3.5	6.0
Merged-chr4-141147914-4	chr4	141147799	141147999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172518)	promoter-TSS (NM_172518)	-23.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	42.5	93.0	28.5	500.5	183.0	67.0	81.0	81.0
Merged-chr5-73255988-5	chr5	73255840	73256040	+	864.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028194, intron 1 of 62)	CpG	678.0	NM_028194	72313.0	Mm.260594	NM_028194	ENSMUSG00000070733	Fryl	2010313D22Rik|2310004H21Rik|2510002A14Rik|9030227G01Rik|mKIAA0826	FRY like transcription coactivator	protein-coding	24.0	15.5	11.0	164.0	39.0	8.5	20.5	18.5
Merged-chr10-52376688-3	chr10	52376585	52376785	+	857.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053187, intron 1 of 7)	intron (NM_053187, intron 1 of 7)	5439.0	NM_053187	94221.0	Mm.390258	NM_053187	ENSMUSG00000019861	Gopc	2210402P09Rik|AI844555|CAL|FIG|GOPC1|PIST	golgi associated PDZ and coiled-coil motif containing	protein-coding	7.5	14.0	8.0	95.0	41.0	5.5	9.5	8.0
Merged-chr11-6033329-2	chr11	6033229	6033429	+	875.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001174054, intron 1 of 20)	intron (NM_001174054, intron 1 of 20)	32419.0	NM_001174054	12323.0	Mm.439733	NM_007595	ENSMUSG00000057897	Camk2b	CaMKII	calcium/calmodulin-dependent protein kinase II, beta	protein-coding	5.0	5.0	5.0	39.0	17.0	5.5	2.0	6.0
Merged-chr2-132575935-2	chr2	132575835	132576035	+	921.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355651, intron 1 of 19)	intron (NM_001355651, intron 1 of 19)	2313.0	NM_001291050	74182.0	Mm.211211	NM_027096	ENSMUSG00000027346	Gpcpd1	2310004G06Rik|2310032D16Rik|AU015213|Gde5|Prei4|mKIAA1434	glycerophosphocholine phosphodiesterase 1	protein-coding	5.5	2.5	1.0	157.5	11.0	10.5	10.0	8.0
Merged-chr19-28964403-2	chr19	28964323	28964523	+	772.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_198651)	promoter-TSS (NM_198651)	-269.0	NM_198651	381218.0	Mm.280653	NM_198651	ENSMUSG00000064202	4430402I18Rik	AW122618|Spata6l	RIKEN cDNA 4430402I18 gene	protein-coding	14.5	19.0	9.5	148.5	25.5	7.0	12.5	10.0
Merged-chr7-36698011-4	chr7	36697929	36698129	+	935.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172298)	promoter-TSS (NM_172298)	-89.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	10.5	11.5	16.0	87.5	41.0	20.5	15.5	11.0
Merged-chr11-18871845-1	chr11	18871745	18871945	+	724.0	f0_balb.idr	Intergenic	CpG	147124.0	NM_001193271	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	4.5	9.0	13.5	74.5	9.5	1.5	1.0	4.0
Merged-chr8-109682317-4	chr8	109682223	109682423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155034, intron 3 of 10)	intron (NR_155034, intron 3 of 10)	10971.0	NR_155034	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	50.0	76.5	71.0	807.5	177.0	60.0	69.0	64.0
Merged-chr5-125434145-4	chr5	125434046	125434246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_203319)	promoter-TSS (NM_203319)	-98.0	NM_203319	208144.0	Mm.296385	NM_203319	ENSMUSG00000029480	Dhx37	Gm1050|Gm451|mKIAA1517	DEAH (Asp-Glu-Ala-His) box polypeptide 37	protein-coding	233.0	326.0	186.0	2843.5	543.5	233.5	234.5	232.5
Merged-chr10-30789779-4	chr10	30789714	30789914	+	765.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	13512.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	4.5	8.5	5.0	35.0	14.0	7.0	5.5	4.0
Merged-chr10-21918860-4	chr10	21918769	21918969	+	762.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 1 of 13)	intron (NM_001161845, intron 1 of 13)	36685.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	19.5	30.5	18.5	296.5	34.5	18.0	10.0	9.5
Merged-chr6-108783045-4	chr6	108782930	108783130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026011)	promoter-TSS (NM_026011)	-29.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	116.5	164.5	117.5	1402.5	380.0	147.5	181.5	138.5
Merged-chr1-159225651-4	chr1	159225546	159225746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6554.0	NM_001360878	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	34.0	40.0	32.5	718.5	66.0	41.5	37.0	30.0
Merged-chr6-82772841-3	chr6	82772743	82772943	+	899.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013820, intron 1 of 17)	intron (NM_013820, intron 1 of 17)	1611.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	6.5	15.5	4.5	92.5	22.5	10.0	6.5	4.5
Merged-chr13-76760120-1	chr13	76760020	76760220	+	652.0	f1_balb.idr	intron (NM_030174, intron 8 of 20)	intron (NM_030174, intron 8 of 20)	375159.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	2.0	7.0	1.0	36.5	15.5	7.0	8.0	5.0
Merged-chr1-144309481-3	chr1	144309381	144309581	+	872.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-60377.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	12.0	15.0	3.0	127.0	27.5	13.5	9.0	7.5
Merged-chr4-46458632-3	chr4	46458524	46458724	+	780.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130889, intron 1 of 6)	intron (NM_130889, intron 1 of 6)	7698.0	NM_130889	67628.0	Mm.263913	NM_130889	ENSMUSG00000028333	Anp32b	2410015B15Rik|PAL31|PHAPI2a|Ssp29	acidic (leucine-rich) nuclear phosphoprotein 32 family, member B	protein-coding	3.5	15.0	7.5	101.0	9.0	7.5	6.0	5.0
Merged-chr10-12592171-3	chr10	12592061	12592261	+	733.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 50 of 73)	MTD|LTR|ERVL-MaLR	269574.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	0.0	7.0	3.5	131.0	21.0	9.5	17.0	6.0
Merged-chr11-80168788-4	chr11	80168730	80168930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 6 of 10)	intron (NM_172133, intron 6 of 10)	14668.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	43.0	51.5	42.5	398.0	84.0	29.0	46.5	45.0
Merged-chr2-160353956-4	chr2	160353837	160354037	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13128.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	37.5	44.5	17.5	424.5	50.0	15.0	18.0	24.5
Merged-chr6-39222720-4	chr6	39222609	39222809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-15936.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	89.0	68.5	69.5	1370.5	142.0	62.0	62.0	63.5
Merged-chr11-60305788-3	chr11	60305681	60305881	+	893.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359810, intron 1 of 12)	intron (NM_001359810, intron 1 of 12)	47124.0	NM_153080	216810.0	Mm.218875	NM_153080	ENSMUSG00000000538	Tom1l2	2900016I08Rik|A730055F12Rik|AU042072|Srebf1	target of myb1-like 2 (chicken)	protein-coding	10.0	10.0	7.0	116.0	22.5	1.5	4.5	10.0
Merged-chr5-148486364-4	chr5	148486275	148486475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65298.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	181.5	231.0	168.0	3204.5	340.5	96.0	174.5	148.5
Merged-chr6-70769027-3	chr6	70768937	70769137	+	936.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009075, intron 8 of 8)	intron (NM_009075, intron 8 of 8)	23138.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	7.0	13.5	13.5	174.0	16.5	3.5	4.0	9.5
Merged-chr10-26890772-4	chr10	26890661	26890861	+	885.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 12 of 14)	intron (NM_176837, intron 12 of 14)	118249.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	9.5	13.5	13.0	212.5	40.0	13.0	18.0	9.0
Merged-chr10-87862210-4	chr10	87862113	87862313	+	774.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111274, intron 1 of 4)	intron (NM_001111274, intron 1 of 4)	1102.0	NM_001111276	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	4.5	5.5	8.5	89.5	19.0	7.5	6.5	14.0
Merged-chr11-44529474-4	chr11	44529308	44529508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 2 of 5)	intron (NM_001166553, intron 2 of 5)	10031.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	47.0	55.0	36.0	426.0	87.5	44.5	44.5	37.0
Merged-chr7-4237676-4	chr7	4237605	4237805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081239)	promoter-TSS (NM_001081239)	-49.0	NM_001081239	232801.0	Mm.258061	NM_001081239	ENSMUSG00000070873	Lilra5	E030017K20|EG232801|Gm4878|Lilrc1	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	protein-coding	24.5	34.5	39.5	416.5	64.5	22.5	30.5	30.5
Merged-chr14-70351445-4	chr14	70351364	70351564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135151)	promoter-TSS (NM_001135151)	-40.0	NM_001135151	213053.0	Mm.270647	NM_144808	ENSMUSG00000022094	Slc39a14	FAD-123|ZIP-14|Zip14|fad123	solute carrier family 39 (zinc transporter), member 14	protein-coding	98.0	110.0	57.5	977.5	229.5	63.5	113.0	83.0
Merged-chr3-142496794-4	chr3	142496695	142496895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153564)	promoter-TSS (NM_153564)	-139.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	70.0	166.0	61.5	383.5	148.5	63.0	48.0	24.0
Merged-chr10-43575176-3	chr10	43575081	43575281	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3988.0	NM_009846	12484.0	Mm.29742	NM_009846	ENSMUSG00000047139	Cd24a	Cd24|HSA|Ly-52|nectadrin	CD24a antigen	protein-coding	11.0	15.0	11.0	177.5	11.5	3.5	9.0	5.5
Merged-chr14-14013501-1	chr14	14013401	14013601	+	1000.0	f0_c57.idr	intron (NM_139227, intron 2 of 11)	CpG	1010.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	16.5	17.5	30.5	310.0	46.5	8.5	28.0	36.5
Merged-chr10-40057773-4	chr10	40057627	40057827	+	819.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 3 of 5)	intron (NM_001114332, intron 3 of 5)	-32459.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	7.0	2.5	10.5	94.0	19.5	5.0	11.5	5.0
Merged-chr3-61367248-3	chr3	61367145	61367345	+	953.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028712, exon 1 of 1)	3' UTR (NM_028712, exon 1 of 1)	2738.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	6.5	14.5	11.0	143.5	15.5	3.0	4.0	5.0
Merged-chr1-9806093-4	chr1	9805997	9806197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177547, intron 1 of 16)	intron (NM_177547, intron 1 of 16)	7967.0	NM_177547	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	41.0	45.5	29.0	709.0	126.0	44.0	44.5	43.5
Merged-chr1-155025970-3	chr1	155025872	155026072	+	749.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57292.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	7.0	8.5	3.5	52.0	24.0	5.0	9.5	8.0
Merged-chr6-5050042-4	chr6	5049932	5050132	+	887.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 3 of 15)	CT-rich|Low_complexity|Low_complexity	143914.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	11.5	9.5	17.0	239.0	30.5	4.5	11.0	20.5
Merged-chr11-118981167-4	chr11	118980989	118981189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7092.0	NM_001359574	238011.0	Mm.244114	NM_001030291	ENSMUSG00000046697	Enpp7	Alk-SMase|Gm254	ectonucleotide pyrophosphatase/phosphodiesterase 7	protein-coding	12.0	16.0	11.0	166.5	46.0	10.0	21.0	26.5
Merged-chr14-26626805-4	chr14	26626711	26626911	+	984.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285467, intron 16 of 19)	intron (NM_001285467, intron 16 of 19)	-11323.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	23.0	35.0	36.0	600.5	52.5	19.5	21.5	15.0
Merged-chr9-45388822-4	chr9	45388723	45388923	+	892.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022004, intron 1 of 7)	intron (NM_022004, intron 1 of 7)	-10886.0	NR_028499	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	15.0	14.0	7.5	153.5	46.0	13.5	21.0	12.0
Merged-chr19-18639158-3	chr19	18639053	18639253	+	850.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145497, intron 2 of 8)	intron (NM_145497, intron 2 of 8)	7137.0	NM_145497	225994.0	Mm.211595	NM_145497	ENSMUSG00000037847	Nmrk1	AA408380|D630020N23Rik|Nrk1	nicotinamide riboside kinase 1	protein-coding	19.0	12.5	20.0	612.0	14.5	3.0	10.5	11.0
Merged-chr11-89081413-4	chr11	89081310	89081510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033266, intron 2 of 3)	L2|LINE|L2	7569.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	26.0	58.0	21.0	494.5	117.0	21.0	43.0	43.0
Merged-chr11-76497898-4	chr11	76497815	76498015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198018, intron 1 of 21)	intron (NM_198018, intron 1 of 21)	-3420.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	57.5	147.5	33.5	325.5	100.0	67.0	37.5	22.0
Merged-chr5-104946835-4	chr5	104946733	104946933	+	748.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030239, intron 13 of 15)	Lx8b|LINE|L1	35884.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	10.0	15.5	7.0	57.5	54.0	27.5	12.5	9.5
Merged-chr5-34501785-4	chr5	34501704	34501904	+	985.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139064, intron 2 of 5)	intron (NM_139064, intron 2 of 5)	12175.0	NM_139064	231130.0	Mm.28615	NM_139064	ENSMUSG00000059866	Tnip2	1810020H16Rik|ABIN-2|AI428870	TNFAIP3 interacting protein 2	protein-coding	15.0	39.0	15.0	173.5	48.5	32.0	35.5	28.0
Merged-chr3-104432016-3	chr3	104431988	104432188	+	880.366699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79830.0	NM_001025067	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	4.5	10.0	4.5	60.5	10.5	4.0	3.5	5.5
Merged-chr18-53153372-1	chr18	53153272	53153472	+	743.0	f0_c57.idr	Intergenic	Lx7|LINE|L1	-22920.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	4.5	5.5	0.0	13.0	26.5	9.0	14.5	11.0
Merged-chr1-166844763-3	chr1	166844641	166844841	+	683.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154989.0	NR_037988	100503962.0	Mm.216842	NR_037988	ENSMUSG00000102548	Gm16701	-	predicted gene, 16701	ncRNA	6.5	7.0	4.5	97.0	19.0	4.0	10.0	1.5
Merged-chr7-143046486-4	chr7	143046375	143046575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 1 of 4)	intron (NR_110355, intron 1 of 4)	-6275.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	73.5	101.5	74.0	1004.0	159.0	83.0	85.0	74.5
Merged-chr2-69077432-4	chr2	69077326	69077526	+	934.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 8 of 10)	intron (NM_001347161, intron 8 of 10)	-58374.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	18.5	15.5	21.5	366.0	37.0	13.5	22.5	23.5
Merged-chr15-99370544-4	chr15	99370439	99370639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011711)	promoter-TSS (NM_011711)	-57.0	NM_001310622	22379.0	Mm.29043	NM_011711	ENSMUSG00000023008	Fmnl3	2700073B04Rik|FBP11|Wbp3|mKIAA2014	formin-like 3	protein-coding	118.0	158.5	86.0	1130.0	236.5	112.5	84.5	97.5
Merged-chr6-91156717-4	chr6	91156590	91156790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144919)	promoter-TSS (NM_144919)	-125.0	NM_144919	232232.0	Mm.206218	NM_144919	ENSMUSG00000034245	Hdac11	-	histone deacetylase 11	protein-coding	109.5	155.5	89.0	1967.5	219.0	65.0	140.5	91.5
Merged-chr17-87530646-4	chr17	87530659	87530859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83824.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	5.0	14.5	8.0	41.5	62.0	20.5	19.5	12.5
Merged-chr8-109536945-2	chr8	109536845	109537045	+	730.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019938, intron 16 of 20)	intron (NM_019938, intron 16 of 20)	28916.0	NR_151644	64340.0	Mm.23705	NM_178380	ENSMUSG00000037993	Dhx38	5730550P09Rik|AI325984|AW540902|Ddx38|KIAA0224|Prp16	DEAH (Asp-Glu-Ala-His) box polypeptide 38	protein-coding	10.0	11.5	2.0	40.5	12.0	6.5	9.0	4.5
Merged-chr2-73567202-4	chr2	73567103	73567303	+	970.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007389, intron 7 of 8)	intron (NM_007389, intron 7 of 8)	13135.0	NM_007389	11435.0	Mm.4583	NM_007389	ENSMUSG00000027107	Chrna1	AI385656|AI608266|Achr-1|Acra	cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle)	protein-coding	13.5	20.5	14.5	202.0	41.0	20.5	20.5	23.5
Merged-chr16-57121623-5	chr16	57121489	57121689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138599)	promoter-TSS (NM_138599)	-125.0	NM_138599	28185.0	Mm.196933	NM_138599	ENSMUSG00000022752	Tomm70a	2610044B22Rik|D16Ium22|D16Ium22e|D16Wsu109e|Tom70|Tomm70|mKIAA0719	translocase of outer mitochondrial membrane 70A	protein-coding	114.0	166.0	202.5	1662.0	245.5	110.0	122.0	132.5
Merged-chr11-59191103-4	chr11	59191007	59191207	+	936.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008193, intron 1 of 7)	intron (NM_008193, intron 1 of 7)	845.0	NM_008193	14923.0	Mm.3624	NM_008193	ENSMUSG00000020444	Guk1	AA409738|AL033299|AL033300|AV026611|Gmk|Guk-1	guanylate kinase 1	protein-coding	14.5	25.0	13.0	181.5	33.0	17.5	14.0	15.5
Merged-chr8-70614625-4	chr8	70614517	70614717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2227.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	57.5	47.5	50.0	1089.0	104.0	28.0	55.0	58.5
Merged-chr8-73234182-4	chr8	73234085	73234285	+	987.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	intron (NM_010687, intron 1 of 14)	119355.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	27.0	22.5	31.5	558.0	61.5	22.0	33.0	19.0
Merged-chr8-35556270-4	chr8	35556172	35556372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_C_Mam|LINE|RTE-X	-31526.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	66.5	63.0	77.5	1370.0	238.5	91.5	164.0	121.0
Merged-chr6-126849136-4	chr6	126849053	126849253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025358)	promoter-TSS (NM_025358)	-9.0	NM_025358	66108.0	Mm.29939	NM_025358	ENSMUSG00000000399	Ndufa9	1010001N11Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 9	protein-coding	44.0	65.5	43.5	669.5	156.0	49.0	45.0	66.0
Merged-chr12-26068475-4	chr12	26068405	26068605	+	970.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142000.0	NR_131149	629481.0	Mm.390460	NR_131149	ENSMUSG00000113550	Gm29687	-	predicted gene, 29687	ncRNA	15.5	13.0	38.0	427.0	39.0	8.0	23.0	18.0
Merged-chr19-5751922-4	chr19	5751812	5752012	+	921.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008520, intron 16 of 27)	intron (NM_008520, intron 16 of 27)	11008.0	NM_008520	16998.0	Mm.182396	NM_008520	ENSMUSG00000024940	Ltbp3	Ltbp2|mFLJ00070	latent transforming growth factor beta binding protein 3	protein-coding	18.5	27.5	12.0	166.0	26.5	15.5	13.5	13.5
Merged-chr3-145670942-4	chr3	145670839	145671039	+	869.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	-20954.0	NM_010516	16007.0	Mm.1231	NM_010516	ENSMUSG00000028195	Cyr61	AI325051|CCN1|Igfbp10	cysteine rich protein 61	protein-coding	6.5	8.5	4.5	167.5	44.0	10.0	11.0	15.0
Merged-chr13-34277883-4	chr13	34277812	34278012	+	893.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	67270.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	23.5	17.0	13.5	165.5	40.0	9.0	4.0	6.5
Merged-chr16-33191814-3	chr16	33191687	33191887	+	875.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176840, intron 1 of 12)	LTR40a|LTR|ERVL	6716.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	11.5	14.5	8.0	53.0	13.0	7.5	2.0	6.5
Merged-chr8-71433116-2	chr8	71433012	71433212	+	809.75	f0_c57.idr|f1_c57bl6.idr	Intergenic	(TTAGGG)n|Simple_repeat|Simple_repeat	27100.0	NM_172756	234396.0	Mm.216549	NM_172756	ENSMUSG00000046295	Ankle1	8430438L13Rik|Ankrd41|C430003I23|Lem3	ankyrin repeat and LEM domain containing 1	protein-coding	0.0	0.0	0.0	0.0	61.5	22.0	11.0	27.0
Merged-chr1-172206728-4	chr1	172206631	172206831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001329869)	promoter-TSS (NM_001329869)	73.0	NM_001329871	18611.0	Mm.544	NM_011063	ENSMUSG00000013698	Pea15a	Mat1|PEA-15|Pea15|Pkcs15	phosphoprotein enriched in astrocytes 15A	protein-coding	36.5	65.0	25.5	324.5	129.5	34.5	43.5	51.5
Merged-chr14-121426030-2	chr14	121425930	121426130	+	916.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-46800.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	6.5	7.0	6.0	65.5	7.5	5.0	6.5	6.5
Merged-chr5-101763632-3	chr5	101763524	101763724	+	811.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1506.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	4.5	10.0	6.0	87.0	13.0	4.0	3.0	8.0
Merged-chr19-10486574-3	chr19	10486473	10486673	+	780.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3676.0	NM_133689	67752.0	Mm.25939	NM_133689	ENSMUSG00000035179	Ppp1r32	4930579J09Rik|AU015816|IIIG9|IIIG9L|IIIG9S	protein phosphatase 1, regulatory subunit 32	protein-coding	1.5	6.0	6.5	86.5	13.5	9.0	15.5	5.0
Merged-chr7-45526944-4	chr7	45526873	45527073	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008654)	promoter-TSS (NM_008654)	643.0	NM_148927	69217.0	Mm.274158	NM_148927	ENSMUSG00000040428	Plekha4	2410005C22Rik|C88169|Pepp1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4	protein-coding	16.5	21.5	7.5	116.0	42.5	13.5	22.0	20.5
Merged-chr15-77236194-3	chr15	77236090	77236290	+	791.700012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053104, intron 1 of 13)	intron (NM_053104, intron 1 of 13)	9418.0	NM_001358772	93686.0	Mm.202774	NM_053104	ENSMUSG00000033565	Rbfox2	Fbm2|Fxh|Hrnbp2|Rbm9	RNA binding protein, fox-1 homolog (C. elegans) 2	protein-coding	8.0	17.0	6.0	155.0	19.5	1.5	5.5	5.5
Merged-chr5-115631864-4	chr5	115631776	115631976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027810)	promoter-TSS (NR_027810)	-60.0	NR_027810	66123.0	Mm.133063	NM_021417	ENSMUSG00000107121	1110006O24Rik	-	RIKEN cDNA 1110006O24 gene	ncRNA	62.5	129.0	60.5	821.5	216.5	77.0	83.0	88.0
Merged-chr13-81350355-4	chr13	81350243	81350443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	intron (NM_054053, intron 83 of 89)	282801.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	35.0	34.5	49.0	1040.5	93.5	24.0	25.5	26.5
Merged-chr16-45657804-3	chr16	45657680	45657880	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172455, intron 17 of 17)	intron (NM_172455, intron 17 of 17)	-3662.0	NM_145389	212998.0	Mm.97511	NM_145389	ENSMUSG00000033187	BC016579	-	cDNA sequence, BC016579	protein-coding	8.5	5.0	8.0	66.0	223.0	98.0	143.0	109.5
Merged-chr10-19012838-5	chr10	19012827	19013027	+	879.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166402)	promoter-TSS (NM_001166402)	-964.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	5.5	6.0	5.5	61.0	29.5	5.0	10.0	7.0
Merged-chr10-44460295-4	chr10	44460202	44460402	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1554.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	10.5	28.0	6.0	280.5	84.5	15.5	9.5	28.5
Merged-chr2-112490308-3	chr2	112490212	112490412	+	950.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2652.0	NM_028844	74268.0	Mm.315125	NM_028844	ENSMUSG00000003604	Aven	1700013A01Rik|1700056A21Rik|mAven-L|mAven-S	apoptosis, caspase activation inhibitor	protein-coding	19.0	20.0	8.0	129.0	19.0	8.5	2.0	11.0
Merged-chr13-23739764-4	chr13	23739654	23739854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_015786)	TTS (NM_015786)	947.0	NM_015786	50708.0	Mm.193539	NM_015786	ENSMUSG00000036181	Hist1h1c	0610008C09Rik|H1.2|H1c|H1f2|H1var1|His1a	histone cluster 1, H1c	protein-coding	124.0	162.0	155.5	2149.5	269.5	97.0	181.5	147.5
Merged-chr10-80073873-3	chr10	80073789	80073989	+	917.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359635, intron 4 of 31)	intron (NM_001359635, intron 4 of 31)	1550.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	6.5	10.5	18.5	110.0	18.0	4.5	7.0	10.0
Merged-chr3-126945055-3	chr3	126944952	126945152	+	993.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001327939, exon 37 of 46)	exon (NM_001327939, exon 37 of 46)	-1666.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	0.0	5.0	0.0	16.0	75.5	14.0	36.0	21.0
Merged-chr1-144299350-4	chr1	144299230	144299430	+	986.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67B|LTR|ERV1	-50226.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	12.0	26.0	19.0	440.5	61.0	5.5	16.0	16.5
Merged-chr3-10249582-4	chr3	10249478	10249678	+	867.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357159, intron 3 of 4)	IAPEY4_LTR|LTR|ERVK	4647.0	NM_001357161	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	26.0	17.0	12.5	155.5	36.5	11.5	19.0	10.5
Merged-chr16-91891189-3	chr16	91891093	91891293	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010587, intron 30 of 38)	intron (NM_010587, intron 30 of 38)	40437.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	1.0	0.5	0.0	5.5	63.5	15.5	25.5	22.0
Merged-chr6-116673872-4	chr6	116673800	116674000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178045)	promoter-TSS (NM_178045)	-64.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	98.5	128.5	55.0	749.0	219.5	112.5	125.5	99.0
Merged-chr4-63409493-4	chr4	63409390	63409590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6045.0	NM_001045514	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	53.0	233.5	65.5	596.0	233.0	85.5	72.5	45.5
Merged-chr14-62231233-4	chr14	62231134	62231334	+	911.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61745.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	18.5	18.0	24.5	357.0	34.0	18.0	29.0	11.0
Merged-chr1-51478465-4	chr1	51478374	51478574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310549)	promoter-TSS (NM_001310549)	-75.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	298.5	489.0	322.5	4837.5	802.0	326.5	370.5	291.0
Merged-chr8-71307501-1	chr8	71307401	71307601	+	545.5	f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	MTD|LTR|ERVL-MaLR	34787.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	11.5	2.0	1.5	24.5	17.5	8.0	5.0	5.5
Merged-chr15-94688283-4	chr15	94688201	94688401	+	836.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178789, intron 2 of 7)	intron (NM_178789, intron 2 of 7)	59116.0	NM_178789	320709.0	Mm.74873	NM_178789	ENSMUSG00000063296	Tmem117	B930062P21Rik	transmembrane protein 117	protein-coding	6.5	11.5	5.0	173.5	30.0	9.5	7.5	20.5
Merged-chr5-99328516-3	chr5	99328411	99328611	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	MTE2a|LTR|ERVL-MaLR	-75584.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	1.0	8.0	11.5	109.5	15.0	6.5	8.5	6.5
Merged-chr10-86886611-4	chr10	86886536	86886736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 42 of 68)	intron (NM_138673, intron 42 of 68)	107631.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	62.0	110.5	74.0	1564.0	211.5	66.5	72.5	99.5
Merged-chr18-34651800-4	chr18	34651709	34651909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178347)	promoter-TSS (NM_178347)	-73.0	NM_178347	52563.0	Mm.196638	NM_178347	ENSMUSG00000024370	Cdc23	6030435O18|D18Ertd243e	CDC23 cell division cycle 23	protein-coding	95.5	131.0	97.0	1537.0	214.5	94.5	90.0	84.5
Merged-chr3-69667552-4	chr3	69667469	69667669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-54486.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	38.5	50.5	18.5	656.0	81.0	26.5	50.0	38.5
Merged-chr3-59265054-4	chr3	59264958	59265158	+	969.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177855, exon 36 of 44)	exon (NM_177855, exon 36 of 44)	-2073.0	NM_001357010	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	18.5	32.0	20.0	260.5	43.5	12.5	29.5	21.0
Merged-chr14-26765085-4	chr14	26764981	26765181	+	923.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR50A|LTR|ERVK	-95235.0	NM_178668	211948.0	Mm.290758	NM_178668	ENSMUSG00000043702	Pde12	2'-PDE|E430028B21Rik	phosphodiesterase 12	protein-coding	12.5	30.0	19.5	137.5	28.0	27.0	22.0	21.0
Merged-chr6-24647357-4	chr6	24647251	24647451	+	691.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028459, intron 1 of 10)	intron (NM_028459, intron 1 of 10)	17644.0	NM_001167745	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	5.5	9.0	5.0	128.0	29.5	8.0	6.5	8.0
Merged-chr4-102658754-4	chr4	102658645	102658845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68902.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	33.5	32.0	32.5	230.0	96.5	38.0	46.5	37.5
Merged-chr7-106711631-4	chr7	106711524	106711724	+	921.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB7_1-LTR_MM|LTR|ERVK	4721.0	NM_146598	258591.0	Mm.223117	NM_146598	ENSMUSG00000108948	Olfr695	MOR283-6	olfactory receptor 695	protein-coding	18.5	18.5	23.5	351.5	37.0	10.0	39.0	10.5
Merged-chr12-100277051-3	chr12	100276962	100277162	+	652.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045741, intron 1 of 3)	intron (NR_045741, intron 1 of 3)	453.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	8.5	9.0	5.5	76.5	5.0	5.5	4.0	7.5
Merged-chr11-69099356-4	chr11	69099259	69099459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159367)	promoter-TSS (NM_001159367)	410.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	49.5	44.0	36.5	316.5	49.0	32.0	30.0	40.5
Merged-chr4-129785383-4	chr4	129785265	129785465	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35114.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	15.5	20.5	12.0	276.0	72.0	28.0	20.5	31.0
Merged-chr2-124703551-4	chr2	124703470	124703670	+	979.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	49989.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	15.5	49.5	31.0	227.5	108.5	20.0	48.0	35.0
Merged-chr4-59033576-1	chr4	59033476	59033676	+	839.5	f0_balb.idr	Intergenic	Intergenic	-1580.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	10.5	10.5	5.0	136.5	1.0	0.0	0.0	1.5
Merged-chr10-68013340-4	chr10	68013215	68013415	+	767.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359319, intron 6 of 11)	intron (NM_001359319, intron 6 of 11)	33745.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	8.5	15.5	7.0	106.5	36.0	10.0	13.0	10.0
Merged-chr11-11540739-3	chr11	11540646	11540846	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51480.0	NM_028669	73862.0	Mm.159077	NM_028669	ENSMUSG00000020191	Spata48	4930415F15Rik	spermatogenesis associated 48	protein-coding	2.5	6.5	11.0	40.0	53.0	9.0	14.5	12.0
Merged-chr13-51742986-4	chr13	51742887	51743087	+	856.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281880, intron 2 of 16)	intron (NM_001281880, intron 2 of 16)	50760.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	7.0	13.5	26.5	71.5	32.0	5.5	13.0	15.5
Merged-chr4-129803584-4	chr4	129803492	129803692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16887.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	77.5	106.5	49.0	876.0	172.5	72.0	71.5	67.5
Merged-chr3-87909648-4	chr3	87909558	87909758	+	855.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331051, intron 1 of 6)	intron (NM_001331051, intron 1 of 6)	2808.0	NM_001331052	15191.0	Mm.292208	NM_008231	ENSMUSG00000004897	Hdgf	AI118077|D3Ertd299e	hepatoma-derived growth factor	protein-coding	14.5	25.5	4.5	73.5	31.0	14.5	14.0	15.0
Merged-chr2-145870398-1	chr2	145870298	145870498	+	799.25	f0_balb.idr	intron (NM_028724, intron 9 of 12)	intron (NM_028724, intron 9 of 12)	-32843.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	9.5	17.0	7.5	211.0	4.0	0.0	4.0	8.0
Merged-chr5-72219819-4	chr5	72219713	72219913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	16470.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	187.5	309.0	269.0	3016.0	421.5	195.0	254.5	175.0
Merged-chr10-44777408-4	chr10	44777305	44777505	+	719.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-289809.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	4.5	14.5	5.5	101.0	31.0	3.5	4.0	16.0
Merged-chr15-78580603-3	chr15	78580514	78580714	+	970.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155437, intron 1 of 1)	intron (NR_155437, intron 1 of 1)	975.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	17.0	10.0	28.5	390.0	13.5	4.5	7.0	1.0
Merged-chr11-100527210-3	chr11	100527154	100527354	+	949.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134037, intron 1 of 27)	CpG	746.0	NM_134037	104112.0	Mm.282039	NM_134037	ENSMUSG00000020917	Acly	A730098H14Rik|AW538652	ATP citrate lyase	protein-coding	12.5	8.5	12.5	138.0	13.5	11.0	7.5	6.0
Merged-chr19-9898799-5	chr19	9898683	9898883	+	883.5200199999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016692, intron 1 of 17)	intron (NM_016692, intron 1 of 17)	750.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	22.5	16.0	20.0	303.5	21.5	7.0	7.5	30.0
Merged-chr2-131233992-4	chr2	131233892	131234092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001206385)	promoter-TSS (NM_001206385)	-71.0	NM_001206383	228607.0	Mm.287226	NM_144888	ENSMUSG00000037523	Mavs	D430028G21Rik|IPS-1|Visa|cardif	mitochondrial antiviral signaling protein	protein-coding	146.5	186.5	143.0	2551.5	363.0	100.5	165.0	121.5
Merged-chr12-91849262-4	chr12	91849141	91849341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011344)	promoter-TSS (NM_011344)	-84.0	NM_011344	20338.0	Mm.250605	NM_011344	ENSMUSG00000020964	Sel1l	AW493766|Sel1h|mKIAA4137	sel-1 suppressor of lin-12-like (C. elegans)	protein-coding	380.5	541.0	389.0	6766.0	917.5	321.0	514.0	426.0
Merged-chr4-148075541-4	chr4	148075432	148075632	+	931.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12532.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	22.0	14.5	12.0	190.0	41.0	14.5	13.5	23.5
Merged-chr2-153121943-6	chr2	153121842	153122042	+	898.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	intron (NM_001172117, intron 1 of 12)	13474.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	3.5	5.0	2.5	144.0	20.0	13.5	9.5	6.0
Merged-chr11-121229151-4	chr11	121229052	121229252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254735)	promoter-TSS (NM_001254735)	157.0	NM_144832	217370.0	Mm.27182	NM_144832	ENSMUSG00000039294	BC017643	-	cDNA sequence BC017643	protein-coding	31.5	33.0	52.5	449.0	88.0	33.0	34.0	39.5
Merged-chr11-117325736-4	chr11	117325660	117325860	+	973.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-5955.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	24.5	26.5	12.0	256.5	73.5	16.5	30.5	17.5
Merged-chr19-11263747-4	chr19	11263678	11263878	+	931.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007641, intron 1 of 6)	intron (NM_007641, intron 1 of 6)	2373.0	NM_007641	12482.0	Mm.4046	NM_007641	ENSMUSG00000024673	Ms4a1	AA960661|Cd20|Ly-44|Ms4a2	membrane-spanning 4-domains, subfamily A, member 1	protein-coding	22.5	19.5	17.5	243.5	33.5	12.5	11.0	14.0
Merged-chr7-98671636-4	chr7	98671518	98671718	+	704.270874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15049.0	NM_172280	233545.0	Mm.387819	NM_172280	ENSMUSG00000035401	Emsy	2210018M11Rik|2310016L09Rik|AU019521|AU019557	EMSY, BRCA2-interacting transcriptional repressor	protein-coding	10.5	10.0	18.0	116.0	15.0	9.0	5.0	7.0
Merged-chr16-36665980-4	chr16	36665888	36666088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019388)	promoter-TSS (NM_019388)	89.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	85.5	281.0	94.5	990.0	314.5	128.0	160.0	90.5
Merged-chr2-164857537-5	chr2	164857459	164857659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011125, intron 1 of 15)	CpG-8831	149.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	14.5	22.5	39.0	354.0	53.5	24.5	22.0	25.5
Merged-chr2-68843535-4	chr2	68843429	68843629	+	803.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17912.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	17.5	17.0	12.5	231.0	27.0	7.0	24.0	14.5
Merged-chr1-165718532-4	chr1	165718414	165718614	+	938.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10420.0	NM_178593	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	14.5	18.5	21.0	331.5	38.5	12.0	20.0	10.5
Merged-chr16-20425936-4	chr16	20425844	20426044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 1 of 6)	CpG	450.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	37.0	86.0	62.5	547.0	116.0	49.5	59.5	55.5
Merged-chr1-64367792-4	chr1	64367682	64367882	+	987.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-165022.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	41.0	41.5	57.5	1036.5	97.0	14.5	43.5	47.0
Merged-chr6-100439292-3	chr6	100439196	100439396	+	710.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-88104.0	NR_040525	73395.0	Mm.69413	NR_040525	ENSMUSG00000101553	1700049E22Rik	-	RIKEN cDNA 1700049E22 gene	ncRNA	9.0	8.5	7.5	121.5	14.0	7.0	10.0	12.5
Merged-chr19-10520602-4	chr19	10520502	10520702	+	782.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025333, intron 1 of 3)	B2_Mm2|SINE|B2	4607.0	NM_025333	66072.0	Mm.180063	NM_025333	ENSMUSG00000024668	Sdhaf2	0610038F07Rik|AA407634|AW049997	succinate dehydrogenase complex assembly factor 2	protein-coding	12.0	16.5	5.0	58.0	23.5	13.5	9.5	10.5
Merged-chr3-108591303-4	chr3	108591184	108591384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358055)	promoter-TSS (NM_001358055)	6.0	NM_001358054	99512.0	Mm.285968	NM_181400	ENSMUSG00000040389	Wdr47	1810073M12Rik|AA552998|mKIAA0893	WD repeat domain 47	protein-coding	154.0	217.0	163.5	2481.5	274.5	131.5	180.5	117.5
Merged-chr16-4370250-4	chr16	4370187	4370387	+	966.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009624, intron 2 of 10)	intron (NM_009624, intron 2 of 10)	50211.0	NM_001291910	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	50.5	50.5	49.0	961.5	36.0	7.0	17.0	31.5
Merged-chr3-135694476-2	chr3	135694376	135694576	+	661.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2929.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	7.0	11.0	4.5	48.0	12.5	5.0	9.0	5.5
Merged-chr11-17001137-4	chr11	17001036	17001236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	RMER19C|LTR|ERVK	7582.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	74.5	84.5	76.0	1052.5	158.0	52.5	59.0	45.5
Merged-chr6-42645417-3	chr6	42645333	42645533	+	885.822205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146174)	promoter-TSS (NM_146174)	-392.0	NM_146174	232748.0	Mm.279659	NM_146174	ENSMUSG00000029851	Tcaf2	Fam115c	TRPM8 channel-associated factor 2	protein-coding	12.0	9.5	11.0	185.5	17.5	6.5	4.0	8.0
Merged-chr8-35428300-4	chr8	35428206	35428406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52565.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	62.0	112.0	93.0	1293.0	105.5	41.5	70.0	59.5
Merged-chr17-25117427-3	chr17	25117330	25117530	+	832.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1463.0	NM_001163661	71718.0	Mm.288702	NM_027880	ENSMUSG00000024170	Telo2	1200003M09Rik|AI415602|Tel2|mKIAA0683	telomere maintenance 2	protein-coding	15.0	42.0	9.0	120.5	20.0	9.0	4.0	3.0
Merged-chr11-97533256-4	chr11	97533153	97533353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018873, intron 10 of 19)	intron (NM_018873, intron 10 of 19)	-32913.0	NM_001289118	100141474.0	Mm.482426	NM_001289118	ENSMUSG00000047988	4933428G20Rik	-	RIKEN cDNA 4933428G20 gene	protein-coding	46.5	59.0	30.0	562.0	130.5	34.5	23.5	37.0
Merged-chr16-17201197-7	chr16	17201072	17201272	+	990.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009456, intron 1 of 3)	CpG	320.0	NM_009456	22195.0	Mm.3074	NM_009456	ENSMUSG00000038965	Ube2l3	C79827|UbcM4|Ubce7	ubiquitin-conjugating enzyme E2L 3	protein-coding	19.5	17.5	24.5	190.5	37.5	13.5	20.0	35.0
Merged-chr16-10945949-4	chr16	10945851	10946051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31154.0	NR_131135	545180.0	Mm.373756	NR_131135	ENSMUSG00000095369	Gm21859	-	predicted gene, 21859	ncRNA	30.5	41.5	34.0	535.0	72.0	25.0	49.5	37.0
Merged-chr16-8739750-4	chr16	8739667	8739867	+	814.145874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1425.0	NM_001003918	252870.0	Mm.295330	NM_001003918	ENSMUSG00000022710	Usp7	2210010O09Rik|AA409944|AA617399|AU019296|AW548146|C80752|Hausp	ubiquitin specific peptidase 7	protein-coding	13.5	8.5	9.5	167.5	18.0	5.0	9.5	13.5
Merged-chr10-67052607-3	chr10	67052530	67052730	+	734.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178606, intron 2 of 7)	intron (NM_178606, intron 2 of 7)	44358.0	NM_001204915	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	7.0	3.0	7.5	132.5	16.5	4.5	5.5	6.0
Merged-chr10-82863453-4	chr10	82863349	82863549	+	690.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042513, intron 2 of 14)	intron (NM_001042513, intron 2 of 14)	3108.0	NM_001042514	50493.0	Mm.210155	NM_015762	ENSMUSG00000020250	Txnrd1	TR|TR1|TrxR1	thioredoxin reductase 1	protein-coding	0.5	8.5	9.5	94.0	17.0	9.0	13.5	12.0
Merged-chr12-105684544-4	chr12	105684447	105684647	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178613)	promoter-TSS (NM_178613)	694.0	NM_029654	76559.0	Mm.114362	NM_029654	ENSMUSG00000041341	Atg2b	2410024A21Rik|AI047755|AI503411|AW558123|C030004M05Rik|C630028L02Rik|mKIAA4067	autophagy related 2B	protein-coding	22.0	29.5	34.0	322.0	60.5	16.5	17.5	24.0
Merged-chr4-155564081-3	chr4	155563975	155564175	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355599, intron 1 of 10)	CpG	260.0	NM_001355599	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	100.5	123.5	64.5	1256.5	254.5	104.5	103.5	130.0
Merged-chr17-15829371-1	chr17	15829271	15829471	+	564.0	f0_balb.idr	Intergenic	Intergenic	-2785.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	5.5	6.5	7.0	71.5	16.0	0.5	7.0	8.0
Merged-chr4-138001904-2	chr4	138001795	138001995	+	712.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_001355699, intron 1 of 32)	intron (NM_001355699, intron 1 of 32)	4070.0	NM_001355700	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	2.5	3.0	0.0	3.0	16.5	10.5	9.5	15.0
Merged-chr11-45945016-4	chr11	45944919	45945119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028185)	promoter-TSS (NM_028185)	-84.0	NM_028185	72290.0	Mm.249827	NM_028185	ENSMUSG00000044847	Lsm11	2210404M20Rik|AV079530	U7 snRNP-specific Sm-like protein LSM11	protein-coding	160.5	281.0	180.0	2409.5	490.5	176.5	226.5	168.0
Merged-chr7-113369361-4	chr7	113369260	113369460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133700)	promoter-TSS (NM_133700)	-21.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	133.5	217.0	123.5	2105.5	440.5	160.5	211.5	155.5
Merged-chr10-60282828-4	chr10	60282738	60282938	+	991.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	intron (NM_011179, intron 1 of 14)	-1623.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	39.0	25.0	71.0	900.0	132.5	24.5	59.0	65.5
Merged-chr3-93506090-4	chr3	93505974	93506174	+	953.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14422.0	NM_016740	20195.0	Mm.280038	NM_016740	ENSMUSG00000027907	S100a11	EMAPI|Emap1|S100a14|S100c|cal	S100 calcium binding protein A11	protein-coding	10.5	17.5	20.5	279.0	27.0	6.5	10.0	16.5
Merged-chr10-4414578-2	chr10	4414443	4414643	+	846.333374	f0_c57.idr|f1_c57bl6.idr	non-coding (NR_002891, exon 6 of 12)	non-coding (NR_002891, exon 6 of 12)	14623.0	NR_002891	433224.0	Mm.153111	NR_002891	ENSMUSG00000112693	Gm5512	EG433224	required for meiotic nuclear division 1 pseudogene	pseudo	3.0	0.5	3.5	28.5	20.5	8.5	6.5	8.0
Merged-chr7-19228195-4	chr7	19228113	19228313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207525)	promoter-TSS (NM_207525)	-176.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	320.5	595.0	373.5	3889.5	971.0	435.0	407.0	378.5
Merged-chr14-67933768-3	chr14	67933658	67933858	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177780)	promoter-TSS (NM_177780)	-186.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	25.0	21.5	21.0	204.5	43.0	10.5	11.0	14.0
Merged-chr10-80692966-4	chr10	80692831	80693031	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	intron (NM_172457, intron 1 of 3)	8889.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	33.5	35.5	22.0	322.5	44.0	21.5	13.5	31.0
Merged-chr14-61744135-3	chr14	61744022	61744222	+	983.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-61749.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	25.0	38.5	23.5	298.5	13.5	5.0	5.5	2.5
Merged-chr19-5724747-4	chr19	5724639	5724839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 1 of 17)	intron (NM_001114595, intron 1 of 17)	1578.0	NM_001114595	114601.0	Mm.210447	NM_053252	ENSMUSG00000024937	Ehbp1l1	G430002G23Rik	EH domain binding protein 1-like 1	protein-coding	149.5	240.0	139.5	1630.0	255.5	140.0	126.5	101.5
Merged-chr12-46818843-7	chr12	46818717	46818917	+	967.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021361)	promoter-TSS (NM_021361)	-42.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	12.5	11.0	18.5	202.5	45.5	15.5	9.5	10.5
Merged-chr7-25267508-4	chr7	25267417	25267617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302811)	promoter-TSS (NM_001302811)	-182.0	NM_001302811	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	309.0	472.5	322.0	4321.0	757.5	244.0	293.5	246.5
Merged-chr10-81296230-2	chr10	81296130	81296330	+	862.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 1 of 17)	intron (NM_001293647, intron 1 of 17)	3267.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	0.0	2.5	0.5	19.5	10.5	6.5	4.5	6.0
Merged-chr18-73746700-4	chr18	73746587	73746787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053255, intron 2 of 3)	intron (NM_053255, intron 2 of 3)	7792.0	NM_053255	114615.0	Mm.50642	NM_053255	ENSMUSG00000036941	Elac1	2610018O07Rik|8430417G19Rik	elaC ribonuclease Z 1	protein-coding	26.5	21.0	33.0	640.5	51.0	27.5	26.5	32.5
Merged-chr10-34208358-4	chr10	34208261	34208461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172508)	promoter-TSS (NM_172508)	-810.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	41.5	71.0	53.5	522.0	94.5	32.0	23.5	29.0
Merged-chr15-94591541-4	chr15	94591455	94591655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1731.0	NM_008971	19230.0	Mm.490250	NM_008971	ENSMUSG00000022451	Twf1	A6|Ptk9|twinfilin	twinfilin actin binding protein 1	protein-coding	43.5	102.0	72.0	766.5	114.5	42.0	45.0	39.0
Merged-chr7-116603356-4	chr7	116603247	116603447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17C-int|LTR|ERVK	98978.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	34.0	86.5	46.5	1005.0	98.5	41.5	53.5	35.5
Merged-chr18-82910605-4	chr18	82910511	82910711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183033)	promoter-TSS (NM_183033)	-268.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	55.0	125.5	75.0	1080.5	169.0	74.5	80.5	54.0
Merged-chr10-67302539-4	chr10	67302431	67302631	+	923.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17250.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	14.5	21.5	21.0	259.0	23.5	5.0	10.0	19.0
Merged-chr5-136248311-4	chr5	136248208	136248408	+	903.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291240, exon 23 of 23)	3' UTR (NM_001291240, exon 23 of 23)	-3368.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	12.0	21.5	8.0	222.5	23.5	13.5	22.5	32.0
Merged-chr16-43335712-3	chr16	43335614	43335814	+	886.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	84482.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	10.0	5.5	7.5	122.0	8.5	4.0	3.0	7.0
Merged-chr1-161479999-3	chr1	161479911	161480111	+	922.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14646.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	10.5	16.5	12.5	236.0	14.5	7.0	5.0	10.0
Merged-chr1-160246142-3	chr1	160246014	160246214	+	956.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038621, intron 4 of 8)	intron (NM_001038621, intron 4 of 8)	-33222.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	30.0	10.0	12.5	331.0	16.5	5.0	6.5	9.0
Merged-chr6-128837685-4	chr6	128837567	128837767	+	868.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-11352.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	5.5	8.0	8.5	78.0	20.0	3.5	8.0	13.0
Merged-chr14-120477581-4	chr14	120477473	120477673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029519)	promoter-TSS (NM_029519)	-888.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	407.0	616.0	404.5	6786.0	963.5	422.0	635.5	404.0
Merged-chr7-24903335-2	chr7	24903235	24903435	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001130151, intron 1 of 29)	PB1D10|SINE|Alu	349.0	NM_001130151	16801.0	Mm.3181	NM_008488	ENSMUSG00000040940	Arhgef1	Lbcl2|Lsc	Rho guanine nucleotide exchange factor (GEF) 1	protein-coding	10.0	15.5	8.0	106.5	15.5	5.5	6.0	7.0
Merged-chr7-141168834-4	chr7	141168727	141168927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172101)	promoter-TSS (NM_001172101)	109.0	NM_145135	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	106.5	146.5	87.5	1695.5	179.0	78.0	108.5	112.0
Merged-chr2-122147593-4	chr2	122147501	122147701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009735)	promoter-TSS (NM_009735)	-86.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	232.0	309.0	164.0	2616.0	558.5	192.0	188.5	185.5
Merged-chr14-99099800-4	chr14	99099692	99099892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028315)	promoter-TSS (NM_028315)	-22.0	NR_153390	72662.0	Mm.163339	NM_028315	ENSMUSG00000033166	Dis3	2810028N01Rik	DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease	protein-coding	287.0	323.5	145.0	3398.0	568.0	193.0	317.5	212.5
Merged-chr3-87907463-4	chr3	87907430	87907630	+	806.8690190000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331051, intron 1 of 6)	intron (NM_001331051, intron 1 of 6)	680.0	NM_001331052	15191.0	Mm.292208	NM_008231	ENSMUSG00000004897	Hdgf	AI118077|D3Ertd299e	hepatoma-derived growth factor	protein-coding	3.0	15.5	11.5	103.0	18.5	7.0	7.5	7.5
Merged-chr11-70021596-4	chr11	70021506	70021706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007864, intron 1 of 19)	CpG	3001.0	NM_007864	13385.0	Mm.27256	NM_007864	ENSMUSG00000020886	Dlg4	Dlgh4|PSD-95|PSD95|SAP90|SAP90A	discs large MAGUK scaffold protein 4	protein-coding	92.0	120.5	62.0	918.5	260.5	127.5	109.0	89.5
Merged-chr16-22265426-4	chr16	22265329	22265529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330555, intron 1 of 9)	CpG	576.0	NM_001330554	20462.0	Mm.210352	NM_009186	ENSMUSG00000022858	Tra2b	5730405G21Rik|D16Ertd266e|SIG-41|Sfrs10|Silg41|TRA2beta	transformer 2 beta	protein-coding	60.5	81.0	65.5	595.5	197.5	73.0	74.0	104.0
Merged-chr11-3172506-7	chr11	3172385	3172585	+	984.228577	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 6 of 32)	B3|SINE|B2	20978.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	32.5	16.5	22.5	390.0	15.5	14.5	8.5	13.0
Merged-chr5-38580937-3	chr5	38580796	38580996	+	784.833313	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19301.0	NM_011715	22388.0	Mm.2654	NM_011715	ENSMUSG00000005103	Wdr1	Aip1|D5Wsu185e|rede	WD repeat domain 1	protein-coding	4.0	19.5	10.5	110.5	9.5	5.0	7.5	6.5
Merged-chr14-66872771-4	chr14	66872678	66872878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3928.0	NM_001034881	432870.0	Mm.425890	NM_001034881	ENSMUSG00000075553	Gm5464	EG432870	predicted gene 5464	protein-coding	91.0	118.5	91.0	1695.5	183.5	52.0	92.0	83.0
Merged-chr12-111413521-4	chr12	111413428	111413628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3902.0	NM_001289487	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	30.0	69.5	36.5	502.5	107.5	33.0	39.5	32.5
Merged-chr2-140671527-4	chr2	140671427	140671627	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178382)	promoter-TSS (NM_178382)	-51.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	35.0	40.5	28.5	488.5	43.5	22.0	25.5	15.0
Merged-chr7-113688871-2	chr7	113688771	113688971	+	814.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77127.0	NM_145584	233744.0	Mm.334160	NM_145584	ENSMUSG00000038156	Spon1	AI666765|AW455831|BC020531|D330035F22Rik|FSP	spondin 1, (f-spondin) extracellular matrix protein	protein-coding	5.5	6.5	5.0	150.0	20.5	2.5	14.5	10.0
Merged-chr8-115614338-4	chr8	115614244	115614444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92550.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	109.5	104.0	86.0	1408.5	196.5	64.0	98.5	80.0
Merged-chr2-58732464-3	chr2	58732333	58732533	+	625.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289660, intron 1 of 7)	intron (NM_001289660, intron 1 of 7)	-22751.0	NM_001289659	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	1.0	3.5	3.5	55.0	19.5	5.0	9.0	7.0
Merged-chr10-99262423-1	chr10	99262323	99262523	+	1000.0	f0_balb.idr	promoter-TSS (NM_026268)	promoter-TSS (NM_026268)	-808.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	14.0	22.0	31.0	329.0	50.5	29.0	21.5	21.0
Merged-chr11-111954947-1	chr11	111954847	111955047	+	663.0	f0_balb.idr	Intergenic	Intergenic	756409.0	NR_024085	217294.0	Mm.297761	NM_146031	ENSMUSG00000041674	BC006965	-	cDNA sequence BC006965	ncRNA	7.0	11.0	4.5	94.5	0.0	0.0	0.0	0.0
Merged-chr5-66111102-2	chr5	66111002	66111202	+	811.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-12923.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	3.0	5.0	6.0	131.0	12.0	5.5	15.0	6.0
Merged-chr6-52471764-4	chr6	52471645	52471845	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20706.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	16.0	29.5	19.5	277.5	43.5	13.0	14.5	7.5
Merged-chr3-37313624-4	chr3	37313537	37313737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001255992, intron 1 of 1)	L2|LINE|L2	1083.0	NM_001008502	241950.0	Mm.32171	NM_001008502	ENSMUSG00000051444	Bbs12	Gm1805|Gm407|Gm721	Bardet-Biedl syndrome 12 (human)	protein-coding	27.5	42.0	55.5	630.5	79.5	33.0	34.5	35.5
Merged-chr5-72812843-4	chr5	72812734	72812934	+	933.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	55614.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	23.0	23.5	19.0	354.0	38.0	12.5	21.5	15.0
Merged-chr4-134913617-3	chr4	134913520	134913720	+	916.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027935, intron 1 of 6)	B2_Mm2|SINE|B2	1296.0	NM_027935	71817.0	Mm.88349	NM_027935	ENSMUSG00000028822	Tmem50a	3200001F09Rik|CAM|Smp1	transmembrane protein 50A	protein-coding	7.0	8.5	7.0	45.0	33.5	12.0	10.5	9.5
Merged-chr2-93129395-4	chr2	93129264	93129464	+	912.0750119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58184.0	NM_001356536	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	10.5	13.0	11.5	127.5	29.5	8.5	9.5	24.5
Merged-chr2-118554888-1	chr2	118554788	118554988	+	1000.0	f0_c57.idr	Intergenic	IAPLTR2_Mm|LTR|ERVK	-5202.0	NM_138313	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	0.0	0.0	0.0	0.0	42.5	17.5	32.5	22.5
Merged-chr11-80290329-1	chr11	80290229	80290429	+	547.0	f1_balb.idr	Intergenic	Intergenic	-10583.0	NM_139228	246104.0	Mm.194148	NM_139228	ENSMUSG00000017692	Rhbdl3	AI847581|Rhbdl4|Rhomr1|Vrho	rhomboid like 3	protein-coding	7.5	14.0	10.5	52.5	14.5	7.5	11.0	10.0
Merged-chr4-48279688-4	chr4	48279624	48279824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010569)	promoter-TSS (NM_010569)	-36.0	NM_010569	16348.0	Mm.317706	NM_010569	ENSMUSG00000028344	Invs	Nphp2|inv	inversin	protein-coding	264.5	479.0	364.0	5815.0	706.0	275.5	436.5	308.0
Merged-chr17-35673801-4	chr17	35673678	35673878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010364)	promoter-TSS (NM_010364)	-35.0	NM_010364	14885.0	Mm.10182	NM_010364	ENSMUSG00000001524	Gtf2h4	AW545633|BTF2 p52|p52	general transcription factor II H, polypeptide 4	protein-coding	54.0	62.0	29.5	663.5	149.5	50.0	66.5	63.0
Merged-chr12-8901259-4	chr12	8901124	8901324	+	938.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20083.0	NM_008640	17775.0	Mm.30071	NM_008640	ENSMUSG00000020585	Laptm4a	AA286466|LAPTM4|MTP|Mtrp|mKIAA0108	lysosomal-associated protein transmembrane 4A	protein-coding	8.0	13.5	21.5	105.5	14.5	6.0	14.0	14.0
Merged-chr13-80963427-2	chr13	80963327	80963527	+	868.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015587)	promoter-TSS (NR_015587)	-647.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	5.5	18.0	5.0	140.5	5.5	4.0	1.5	4.5
Merged-chr7-109986390-4	chr7	109986255	109986455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153525)	promoter-TSS (NM_153525)	-125.0	NM_153525	233724.0	Mm.43212	NM_153525	ENSMUSG00000047554	Tmem41b	1500015G02Rik|1500031M19Rik|AU018901|D7Ertd70e|D7Ertd743e	transmembrane protein 41B	protein-coding	214.0	280.0	186.0	2325.5	537.5	222.5	220.5	170.0
Merged-chr10-125274555-3	chr10	125274464	125274664	+	851.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	intron (NM_001358496, intron 3 of 5)	34252.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	8.5	11.0	12.5	255.0	16.0	2.5	5.5	5.5
Merged-chr9-43034492-4	chr9	43034392	43034592	+	713.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359232, intron 4 of 40)	intron (NM_001359232, intron 4 of 40)	71226.0	NM_001359232	69632.0	Mm.275266	NM_027144	ENSMUSG00000059495	Arhgef12	2310014B11Rik|AU019857|Larg|mKIAA0382	Rho guanine nucleotide exchange factor (GEF) 12	protein-coding	18.5	7.0	9.0	179.5	21.0	5.5	9.0	14.5
Merged-chr6-86654696-4	chr6	86654583	86654783	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010751, intron 3 of 5)	intron (NM_010751, intron 3 of 5)	14476.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	19.0	35.0	22.0	407.5	23.5	12.0	13.0	10.5
Merged-chr1-184020709-1	chr1	184020609	184020809	+	759.0	f0_balb.idr	Intergenic	Intergenic	13289.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	7.5	7.0	6.0	181.0	1.5	2.5	1.0	4.5
Merged-chr16-31274820-1	chr16	31274720	31274920	+	1000.0	f0_balb.idr	intron (NM_025800, intron 1 of 5)	CpG	457.0	NM_025800	66849.0	Mm.291593	NM_025800	ENSMUSG00000047714	Ppp1r2	0610025N14Rik|2310007G06Rik|4930440J04Rik|5430408E15Rik|D16Ertd248e|I-2|IPP-2	protein phosphatase 1, regulatory (inhibitor) subunit 2	protein-coding	23.0	35.0	43.0	266.0	56.5	19.0	21.5	25.0
Merged-chr2-156312587-4	chr2	156312486	156312686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001316755, exon 1 of 10)	exon (NM_001316755, exon 1 of 10)	113.0	NM_001316755	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	61.0	168.5	63.0	927.5	231.5	93.5	73.5	82.5
Merged-chr6-108751536-3	chr6	108751439	108751639	+	661.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31520.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	5.0	10.5	8.0	96.5	21.0	2.0	13.5	6.0
Merged-chr2-77280810-4	chr2	77280711	77280911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175465)	promoter-TSS (NM_175465)	-219.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	38.5	79.5	30.0	527.0	139.5	52.5	70.5	42.5
Merged-chr2-151542524-4	chr2	151542421	151542621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302078)	promoter-TSS (NM_001302078)	38.0	NM_001302078	14225.0	Mm.278458	NM_008019	ENSMUSG00000032966	Fkbp1a	FKBP12|Fkbp|Fkbp1	FK506 binding protein 1a	protein-coding	79.5	77.0	45.0	1191.5	139.5	47.5	96.5	43.0
Merged-chr4-133666362-3	chr4	133666243	133666443	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356466, intron 2 of 3)	B1_Mur3|SINE|Alu	6304.0	NM_001145955	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	23.0	24.0	17.0	295.5	16.5	5.0	5.0	9.0
Merged-chr15-97580929-4	chr15	97580818	97581018	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	124904.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	30.0	20.0	59.0	538.0	58.0	16.0	48.5	25.5
Merged-chr12-55490445-5	chr12	55490381	55490581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010907, exon 5 of 6)	exon (NM_010907, exon 5 of 6)	2166.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	31.0	51.5	35.0	219.5	103.5	44.0	23.0	22.5
Merged-chr15-74970587-4	chr15	74970492	74970692	+	891.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12838.0	NM_001358005	57248.0	Mm.358339	NM_020498	ENSMUSG00000022586	Ly6i	AI789751|Ly-6I|Ly-6M	lymphocyte antigen 6 complex, locus I	protein-coding	12.5	27.5	9.0	164.5	37.5	10.0	12.5	13.0
Merged-chr9-20978997-4	chr9	20978943	20979143	+	865.2062380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2250.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	8.5	9.0	9.5	86.5	22.0	1.0	6.5	8.5
Merged-chr2-11589595-4	chr2	11589508	11589708	+	930.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 7 of 11)	intron (NM_152824, intron 7 of 11)	13591.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	2.0	8.5	17.0	332.0	27.0	8.5	12.0	9.5
Merged-chr10-95532417-4	chr10	95532292	95532492	+	951.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	intron (NM_080560, intron 1 of 3)	17230.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	10.5	30.0	17.0	319.0	33.5	18.0	24.0	20.5
Merged-chr2-22752707-4	chr2	22752603	22752803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21624.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	36.5	77.5	43.5	708.0	103.0	54.0	65.0	55.5
Merged-chr6-140609759-4	chr6	140609645	140609845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14_RN|LTR|ERV1	-12918.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	33.5	26.5	25.0	501.0	79.0	22.5	37.0	27.5
Merged-chr16-32115371-4	chr16	32115256	32115456	+	986.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15554.0	NM_025892	66994.0	Mm.22990	NM_025892	ENSMUSG00000035790	Cep19	1500031L02Rik|AI428934|AL022620	centrosomal protein 19	protein-coding	32.0	47.5	28.5	422.0	38.5	34.5	25.5	25.0
Merged-chr2-14165802-4	chr2	14165674	14165874	+	839.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-8750.0	NM_001081310	625286.0	Mm.158781	NM_001081310	ENSMUSG00000061531	Tmem236	2010003H20Rik|Fam23a|Gm613	transmembrane protein 236	protein-coding	17.0	19.5	20.0	147.5	23.0	8.0	10.5	15.5
Merged-chr4-149770796-2	chr4	149770702	149770902	+	759.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027460, intron 1 of 6)	intron (NM_027460, intron 1 of 6)	3465.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	5.5	6.0	5.5	51.0	14.5	4.0	3.0	4.0
Merged-chr1-173682438-4	chr1	173682337	173682537	+	910.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162938, intron 3 of 6)	intron (NM_001162938, intron 3 of 6)	8757.0	NM_001162938	100033459.0	Mm.303377	NM_001162938	ENSMUSG00000066677	Ifi208	9830148g24rik|E430029J22Rik|NG2creBAC|Pydc3|Pyr-rv1|Tg(Cspg4-cre)1Akik	interferon activated gene 208	protein-coding	5.0	8.0	9.5	112.0	57.5	24.5	37.0	21.5
Merged-chr1-86339603-3	chr1	86339492	86339692	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11693.0	NR_028478	100303740.0	Mm.154378	NR_028478	ENSMUSG00000064837	Snora75	MBI-55	small nucleolar RNA, H/ACA box 75	snoRNA	10.0	10.5	7.5	105.0	25.0	6.5	7.5	4.0
Merged-chr1-131613536-4	chr1	131613456	131613656	+	693.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14442.0	NM_011924	26361.0	Mm.89986	NM_011924	ENSMUSG00000026432	Avpr1b	AVPR3|V3/V1b|VIBR|VPR3	arginine vasopressin receptor 1B	protein-coding	5.5	12.0	5.0	135.5	36.0	13.0	15.5	10.0
Merged-chr16-31029924-4	chr16	31029822	31030022	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198626, intron 2 of 3)	intron (NM_198626, intron 2 of 3)	51510.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	73.5	96.5	65.0	810.5	80.0	18.5	83.5	56.0
Merged-chr18-9377538-4	chr18	9377401	9377601	+	910.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026484, intron 3 of 9)	intron (NM_026484, intron 3 of 9)	72653.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	14.0	17.5	18.0	175.0	50.0	9.5	16.5	12.5
Merged-chr2-167570074-4	chr2	167569978	167570178	+	815.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31883.0	NM_011427	20613.0	Mm.2093	NM_011427	ENSMUSG00000042821	Snai1	Sna|Sna1|Snail|Snail1	snail family zinc finger 1	protein-coding	17.5	25.0	18.5	212.0	25.0	16.0	4.0	11.0
Merged-chr14-74919332-4	chr14	74919238	74919438	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	28539.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	11.0	32.5	5.5	161.5	61.5	15.0	7.0	13.0
Merged-chr13-67637782-4	chr13	67637683	67637883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183146)	promoter-TSS (NM_183146)	-30.0	NM_183146	212281.0	Mm.342918	NM_183146	ENSMUSG00000021510	Zfp729a	A530054K11Rik|Rslcan3	zinc finger protein 729a	protein-coding	84.5	150.5	104.5	1096.5	219.0	90.0	107.0	65.5
Merged-chr3-127020258-4	chr3	127020088	127020288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 14 of 47)	intron (NM_001327938, intron 14 of 47)	-21736.0	NM_178655	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	3.5	4.5	10.5	170.0	27.5	4.5	11.0	11.5
Merged-chr14-120453277-4	chr14	120453162	120453362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-25199.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	49.5	73.0	45.0	381.5	88.5	24.0	51.0	23.0
Merged-chr11-70434603-4	chr11	70434511	70434711	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145429, intron 1 of 14)	intron (NM_145429, intron 1 of 14)	2031.0	NM_001271358	216869.0	Mm.203747	NM_145429	ENSMUSG00000060216	Arrb2	AI326910|AW122872|Arr3	arrestin, beta 2	protein-coding	12.5	37.5	12.5	110.0	31.0	10.0	19.5	10.0
Merged-chr1-170992767-3	chr1	170992634	170992834	+	863.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-16663.0	NM_001077189	14130.0	Mm.425062	NM_010187	ENSMUSG00000026656	Fcgr2b	AI528646|CD32|F630109E10Rik|Fc[g]RII|FcgRII|Fcgr2|Fcgr2a|Fcr-2|Fcr-3|Ly-17|Ly-m20|LyM-1|Lym-1|fcRII	Fc receptor, IgG, low affinity IIb	protein-coding	7.5	9.5	5.0	86.0	9.5	6.0	6.0	7.0
Merged-chr4-35980800-1	chr4	35980700	35980900	+	903.0	f0_balb.idr	intron (NM_001166000, intron 7 of 8)	intron (NM_001166000, intron 7 of 8)	-135596.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	11.5	5.0	17.5	262.5	14.0	3.0	3.5	6.0
Merged-chr2-166301412-3	chr2	166301312	166301512	+	906.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27504.0	NR_033467	670775.0	Mm.384326	NR_033467	ENSMUSG00000084840	Gm11468	-	predicted gene 11468	ncRNA	2.5	3.0	8.5	45.5	38.0	22.5	33.0	18.0
Merged-chr19-18664084-3	chr19	18663989	18664189	+	637.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-6691.0	NM_026120	67383.0	Mm.306602	NM_026120	ENSMUSG00000024726	Carnmt1	2410127L17Rik	carnosine N-methyltransferase 1	protein-coding	12.0	8.5	7.0	92.0	14.5	4.0	12.5	3.5
Merged-chr19-29496390-4	chr19	29496277	29496477	+	844.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25610.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	13.5	11.0	15.0	301.0	42.0	7.5	13.5	12.5
Merged-chr4-120523312-3	chr4	120523193	120523393	+	925.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355424, intron 12 of 14)	intron (NM_001355424, intron 12 of 14)	-8938.0	NM_177570	194219.0	Mm.29788	NM_177570	ENSMUSG00000047518	Slfnl1	4933406A14Rik	schlafen like 1	protein-coding	12.5	7.0	5.0	58.0	36.0	12.0	17.5	13.0
Merged-chr2-30604992-4	chr2	30604925	30605125	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030137, intron 1 of 1)	intron (NM_030137, intron 1 of 1)	9981.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	26.0	63.5	24.5	298.5	105.5	36.5	21.0	21.0
Merged-chr8-128551568-4	chr8	128551484	128551684	+	706.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-134070.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	11.5	17.0	5.0	218.5	29.0	10.0	8.5	10.5
Merged-chr12-65037714-4	chr12	65037600	65037800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177806, intron 1 of 13)	intron (NM_177806, intron 1 of 13)	1366.0	NM_177806	328110.0	Mm.283339	NM_177806	ENSMUSG00000035597	Prpf39	Srcs1	pre-mRNA processing factor 39	protein-coding	30.5	63.5	33.5	423.5	74.0	27.5	27.5	37.5
Merged-chr6-83598205-4	chr6	83598095	83598295	+	989.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25691.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	30.0	95.5	50.0	378.5	81.5	26.5	41.0	13.0
Merged-chr10-117393025-2	chr10	117392925	117393125	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16052.0	NM_001310609	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	4.0	6.0	3.5	114.0	20.5	8.5	11.0	8.0
Merged-chr13-81072468-4	chr13	81072375	81072575	+	947.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	ERVB5_1-I_MM-int|LTR|ERVK	108401.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	16.0	22.0	24.5	448.5	53.5	9.5	15.5	15.0
Merged-chr17-5814048-4	chr17	5813947	5814147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14557.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	77.5	70.5	84.0	1178.0	118.5	38.5	35.0	53.5
Merged-chr10-61146957-4	chr10	61146899	61147099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316674, intron 1 of 14)	(CAGCT)n|Simple_repeat|Simple_repeat	685.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	29.5	38.5	50.0	377.0	59.0	16.5	38.5	45.5
Merged-chr1-165739278-4	chr1	165739088	165739288	+	891.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24570.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	5.0	7.5	7.0	52.5	19.5	4.5	3.0	7.0
Merged-chr4-95637271-1	chr4	95637171	95637371	+	749.0	f0_balb.idr	intron (NM_029347, intron 5 of 10)	intron (NM_029347, intron 5 of 10)	57850.0	NM_029347	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	7.5	11.0	12.0	143.0	2.0	1.0	0.5	0.5
Merged-chr9-42472237-4	chr9	42472159	42472359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173038)	promoter-TSS (NM_173038)	-1.0	NM_173038	272589.0	Mm.34483	NM_173038	ENSMUSG00000037287	Tbcel	D330014K23|E130107N23Rik|Lrrc35	tubulin folding cofactor E-like	protein-coding	43.0	76.0	31.0	572.0	173.0	65.5	75.0	83.5
Merged-chr5-146805185-4	chr5	146805094	146805294	+	971.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10238.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	56.5	29.5	54.0	861.0	42.0	9.5	8.0	20.5
Merged-chr7-31053183-1	chr7	31053083	31053283	+	762.25	f0_balb.idr	intron (NM_194321, intron 4 of 7)	G-rich|Low_complexity|Low_complexity	1670.0	NM_052991	56188.0	Mm.1491	NM_019503	ENSMUSG00000036570	Fxyd1	0610012C17Rik|1110006M24Rik|Plm|Pml	FXYD domain-containing ion transport regulator 1	protein-coding	4.5	11.0	16.0	106.5	11.0	2.5	4.0	8.0
Merged-chr15-50819617-2	chr15	50819517	50819717	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	69432.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	14.0	9.5	1.5	92.0	24.5	10.5	8.5	9.0
Merged-chr4-86689871-3	chr4	86689773	86689973	+	896.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19814.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	9.5	25.0	3.5	121.5	16.5	8.5	8.5	8.5
Merged-chr5-121204680-6	chr5	121204631	121204831	+	923.638916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011290, intron 1 of 6)	CpG	230.0	NM_011290	19988.0	Mm.262021	NM_011290	ENSMUSG00000029614	Rpl6	Taxreb107	ribosomal protein L6	protein-coding	13.5	24.0	29.5	165.5	29.0	9.5	8.0	22.0
Merged-chr14-14985439-4	chr14	14985343	14985543	+	885.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 30 of 34)	intron (NM_001195229, intron 30 of 34)	164628.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	19.0	15.0	14.0	179.0	39.5	12.0	17.5	22.5
Merged-chr1-175693581-4	chr1	175693488	175693688	+	950.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010098)	promoter-TSS (NM_010098)	-956.0	NM_010098	13603.0	Mm.32744	NM_010098	ENSMUSG00000026525	Opn3	ERO|Ecpn	opsin 3	protein-coding	12.5	13.0	21.0	313.0	34.0	20.5	27.0	19.0
Merged-chr10-7210513-2	chr10	7210416	7210616	+	696.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172546, intron 1 of 12)	intron (NM_172546, intron 1 of 12)	1721.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	5.0	6.0	6.5	35.5	6.5	0.0	5.5	2.0
Merged-chr1-181257074-5	chr1	181256986	181257186	+	971.914307	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45108.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	13.0	18.0	19.5	330.5	31.0	5.0	23.5	29.5
Merged-chr12-110764743-4	chr12	110764645	110764845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	intron (NM_001347428, intron 1 of 2)	26813.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	30.0	58.0	57.5	910.0	96.5	19.5	27.0	41.0
Merged-chr13-4759815-2	chr13	4759712	4759912	+	616.5	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-150648.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	15.5	7.5	4.5	123.0	6.5	2.0	0.5	4.0
Merged-chr16-45757627-4	chr16	45757529	45757729	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357078, intron 13 of 16)	intron (NM_001357078, intron 13 of 16)	-14674.0	NM_172511	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	11.5	32.5	21.5	262.5	81.0	27.0	34.0	23.5
Merged-chr7-107610989-3	chr7	107610878	107611078	+	913.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163557, intron 1 of 25)	RMER19B|LTR|ERVK	4134.0	NM_001163557	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	9.0	3.5	11.0	108.5	14.0	6.0	6.0	7.0
Merged-chr12-99480564-4	chr12	99480495	99480695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-30521.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	31.0	59.0	14.0	235.5	80.0	26.0	28.5	22.0
Merged-chr18-35772137-4	chr18	35772033	35772233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019912, intron 1 of 6)	CpG	574.0	NM_019912	56550.0	Mm.180052	NM_019912	ENSMUSG00000091896	Ube2d2a	1500034D03Rik|Ubc2e|Ube2d2|ubc4	ubiquitin-conjugating enzyme E2D 2A	protein-coding	48.0	43.5	22.5	395.5	139.5	40.0	57.5	48.0
Merged-chr16-65406129-4	chr16	65406092	65406292	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114437.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	42.5	13.5	19.5	457.5	31.5	11.5	12.5	12.0
Merged-chr9-7836411-1	chr9	7836311	7836511	+	621.0	f0_balb.idr	intron (NM_007465, intron 1 of 7)	intron (NM_007465, intron 1 of 7)	395.0	NM_001291503	11797.0	Mm.335659	NM_007465	ENSMUSG00000057367	Birc2	AW146227|Api1|Api2|Birc3|C-IAP1|C330006D17Rik|HIAP1|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF48|cIAP1|cIAP2|mcIAP1	baculoviral IAP repeat-containing 2	protein-coding	15.0	12.0	12.5	105.5	27.5	6.0	10.0	8.0
Merged-chr1-39522769-3	chr1	39522687	39522887	+	892.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12914.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	3.5	13.0	8.5	100.5	21.5	10.5	5.0	4.5
Merged-chr10-80798541-4	chr10	80798396	80798596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013651)	promoter-TSS (NM_013651)	130.0	NM_023900	78670.0	Mm.41479	NM_023900	ENSMUSG00000035278	Plekhj1	9530063M10Rik	pleckstrin homology domain containing, family J member 1	protein-coding	76.5	115.0	76.5	786.5	208.0	77.5	80.0	83.5
Merged-chr10-80033734-3	chr10	80033645	80033845	+	927.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	5914.0	NM_025554	66420.0	Mm.18579	NM_025554	ENSMUSG00000004667	Polr2e	2410021N14Rik|25kDa|AW208866|RPB5|XAP4	polymerase (RNA) II (DNA directed) polypeptide E	protein-coding	7.0	12.0	13.5	178.5	19.0	7.5	5.5	9.5
Merged-chr17-88439772-3	chr17	88439659	88439859	+	754.633362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355743)	promoter-TSS (NM_001355743)	-945.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	6.5	3.0	2.5	96.5	13.0	16.0	5.0	7.5
Merged-chr13-41788251-3	chr13	41788144	41788344	+	775.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145875, intron 4 of 6)	intron (NM_001145875, intron 4 of 6)	59244.0	NM_175417	109254.0	Mm.25195	NM_175417	ENSMUSG00000058022	Adtrp	9530008L14Rik	androgen dependent TFPI regulating protein	protein-coding	10.0	21.5	5.0	52.5	18.5	11.0	3.5	3.0
Merged-chr14-32086447-2	chr14	32086347	32086547	+	729.166626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104303)	promoter-TSS (NR_104303)	719.0	NM_145460	218885.0	Mm.202257	NM_145460	ENSMUSG00000021906	Oxnad1	2410002F01Rik|AW492292|BC019806	oxidoreductase NAD-binding domain containing 1	protein-coding	5.5	4.5	13.0	91.0	9.0	5.0	6.0	8.0
Merged-chr1-134703687-3	chr1	134703576	134703776	+	794.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009307, intron 2 of 9)	intron (NM_009307, intron 2 of 9)	-5624.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	7.5	13.5	12.5	268.5	10.5	0.5	10.0	16.5
Merged-chr8-125359682-3	chr8	125359573	125359773	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	133160.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	39.5	29.5	45.0	734.5	6.0	1.0	3.0	5.0
Merged-chr5-44127694-3	chr5	44127578	44127778	+	749.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25942.0	NM_001163577	19126.0	Mm.6250	NM_008935	ENSMUSG00000029086	Prom1	4932416E19Rik|AC133|CD133|Prom|Prom-1|Proml1	prominin 1	protein-coding	5.5	7.5	5.0	176.5	30.0	4.5	14.0	5.5
Merged-chr14-8111756-4	chr14	8111659	8111859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	13548.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	58.0	85.0	83.5	1475.5	192.0	80.0	137.5	106.0
Merged-chr9-13716519-4	chr9	13716427	13716627	+	912.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32654.0	NR_024025	77116.0	Mm.210405	NM_023858	ENSMUSG00000031918	Mtmr2	6030445P13Rik	myotubularin related protein 2	protein-coding	13.0	15.5	8.5	225.5	30.5	12.0	17.0	15.0
Merged-chr3-142594749-4	chr3	142594644	142594844	+	988.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010259)	promoter-TSS (NM_010259)	-103.0	NM_010259	14468.0	Mm.457978	NM_010259	ENSMUSG00000040264	Gbp2b	Gbp-1|Gbp1|Mag-1|Mpa-1|Mpa1	guanylate binding protein 2b	protein-coding	11.0	22.0	30.0	389.5	64.0	32.5	37.5	39.5
Merged-chr17-47757289-4	chr17	47757192	47757392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	19361.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	95.0	144.0	103.0	1314.0	314.5	66.5	57.5	67.0
Merged-chr16-43979831-6	chr16	43979692	43979892	+	955.634277	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007460)	promoter-TSS (NM_001007460)	-742.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	22.5	18.0	14.5	221.5	25.5	16.5	22.0	10.0
Merged-chr8-90965726-8	chr8	90965592	90965792	+	954.3035890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 4 of 39)	L1MC4a|LINE|L1	33443.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	19.5	18.5	26.0	265.0	31.5	25.5	18.5	17.0
Merged-chr9-69994878-3	chr9	69994790	69994990	+	920.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008238, intron 1 of 9)	intron (NM_001008238, intron 1 of 9)	5424.0	NM_001008238	12175.0	Mm.159777	NM_016787	ENSMUSG00000011958	Bnip2	5730523P12Rik|BNIP2beta|Nip21	BCL2/adenovirus E1B interacting protein 2	protein-coding	17.0	18.0	8.0	200.0	15.0	4.0	5.0	0.5
Merged-chr1-53791821-4	chr1	53791724	53791924	+	842.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6609.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	11.5	21.5	7.5	96.0	22.0	6.5	4.0	7.5
Merged-chr2-145806485-4	chr2	145806367	145806567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 2 of 12)	intron (NM_028724, intron 2 of 12)	20351.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	75.0	108.0	92.0	887.5	116.0	28.0	37.0	42.0
Merged-chr7-97782019-4	chr7	97781904	97782104	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-6537.0	NM_001357365	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	17.0	18.5	17.0	297.5	56.5	17.0	19.0	22.5
Merged-chr12-52604523-4	chr12	52604428	52604628	+	919.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	U6|snRNA|snRNA	-2206.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	12.0	24.0	20.0	158.5	27.0	26.0	25.5	13.0
Merged-chr2-33909197-3	chr2	33909096	33909296	+	902.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-21250.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	5.5	8.0	9.5	127.5	19.5	5.0	7.0	8.5
Merged-chr13-113355129-1	chr13	113355029	113355229	+	544.0	f1_balb.idr	Intergenic	Intergenic	145470.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	0.0	14.0	9.0	45.0	16.0	7.0	7.5	7.5
Merged-chr9-54586405-4	chr9	54586309	54586509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029573)	promoter-TSS (NM_029573)	-102.0	NM_029573	67834.0	Mm.279195	NM_029573	ENSMUSG00000032279	Idh3a	1110003P10Rik|1500012E04Rik|AA407078|AI316514	isocitrate dehydrogenase 3 (NAD+) alpha	protein-coding	217.0	359.5	213.0	3290.0	478.0	173.0	270.0	178.5
Merged-chr7-104352857-4	chr7	104352719	104352919	+	909.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175677, intron 1 of 7)	URR1A|DNA|hAT-Charlie	530.0	NM_175677	319236.0	Mm.425502	NM_175677	ENSMUSG00000057143	Trim12c	9230105E10Rik|Trim12-2	tripartite motif-containing 12C	protein-coding	7.0	7.5	14.5	209.5	34.0	8.0	7.5	7.0
Merged-chr11-58108230-3	chr11	58108009	58108209	+	840.0476070000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356477, intron 1 of 6)	intron (NM_001356477, intron 1 of 6)	3880.0	NM_001356477	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	10.5	8.0	7.5	145.5	4.0	0.5	0.0	1.0
Merged-chr7-90043654-4	chr7	90043575	90043775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110364, intron 5 of 5)	intron (NR_110364, intron 5 of 5)	14516.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	86.5	85.0	136.0	1762.0	234.5	70.0	113.0	89.5
Merged-chr3-100530385-7	chr3	100530280	100530480	+	985.253967	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41188.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	11.5	9.5	20.0	248.5	56.5	20.0	27.5	42.0
Merged-chr11-49984134-4	chr11	49984049	49984249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-41182.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	45.5	81.0	48.0	150.0	146.5	55.5	22.0	31.0
Merged-chr15-6304010-4	chr15	6303911	6304111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008702, intron 1 of 13)	intron (NM_001008702, intron 1 of 13)	4222.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	60.5	92.0	69.5	927.5	105.5	54.0	45.0	40.5
Merged-chr1-70858753-3	chr1	70858675	70858875	+	895.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177164, intron 3 of 3)	RMER15|LTR|ERVL	133060.0	NM_177164	320460.0	Mm.360649	NM_177164	ENSMUSG00000045648	Vwc2l	A830006F12Rik|Brl	von Willebrand factor C domain-containing protein 2-like	protein-coding	8.5	5.5	8.5	175.5	19.5	3.0	12.0	6.5
Merged-chr6-108662820-5	chr6	108662727	108662927	+	620.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011498, intron 4 of 4)	intron (NM_011498, intron 4 of 4)	-1893.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	6.0	6.0	6.5	61.5	2.0	0.0	1.0	4.5
Merged-chr10-84829238-3	chr10	84829140	84829340	+	932.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024918, intron 4 of 17)	ORR1E|LTR|ERVL-MaLR	-8908.0	NM_027689	71137.0	Mm.79070	NM_027689	ENSMUSG00000020037	Rfx4	4933412G19Rik|NYD-sp10	regulatory factor X, 4 (influences HLA class II expression)	protein-coding	10.5	7.5	18.5	185.0	10.5	3.5	3.5	2.0
Merged-chr4-45972256-4	chr4	45972154	45972354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146142)	promoter-TSS (NM_146142)	-43.0	NM_146142	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	220.0	302.5	195.5	3189.5	577.0	219.0	273.5	221.0
Merged-chr3-144719256-4	chr3	144719133	144719333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 1 of 10)	intron (NM_001282037, intron 1 of 10)	1102.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	149.0	217.5	217.0	2604.5	389.5	163.5	228.5	188.0
Merged-chr7-19147819-2	chr7	19147719	19147919	+	884.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_026111, intron 2 of 6)	intron (NM_026111, intron 2 of 6)	1377.0	NM_026111	67369.0	Mm.234876	NM_026111	ENSMUSG00000030407	Qpctl	1810019P04Rik|BB101812|gQC	glutaminyl-peptide cyclotransferase-like	protein-coding	3.0	6.5	2.5	53.0	14.0	5.5	12.0	4.5
Merged-chr2-166181134-6	chr2	166181003	166181203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25420.0	NM_028072	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	66.5	67.0	63.0	757.0	82.5	46.0	25.0	38.0
Merged-chr18-20743565-2	chr18	20743465	20743665	+	987.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	RSINE1|SINE|B4	2839.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	5.5	3.5	9.0	47.5	7.0	9.5	5.0	5.0
Merged-chr6-129171841-4	chr6	129171756	129171956	+	930.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8759.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	5.5	21.5	4.0	136.5	91.5	20.5	15.0	13.0
Merged-chr3-30823667-3	chr3	30823573	30823773	+	955.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	30797.0	NM_001357528	69276.0	Mm.26017	NM_027016	ENSMUSG00000027706	Sec62	3100002M17Rik|AI844545|AW545092|Dtrp1|HTP1|Tloc1	SEC62 homolog (S. cerevisiae)	protein-coding	5.0	6.5	11.5	178.0	8.5	3.5	8.5	29.0
Merged-chr7-145283232-4	chr7	145283132	145283332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132643, intron 1 of 22)	intron (NR_132643, intron 1 of 22)	779.0	NR_132644	233979.0	Mm.102235	NM_146206	ENSMUSG00000048677	Tpcn2	D830047E22Rik|Gm35086	two pore segment channel 2	protein-coding	172.0	207.5	234.0	3553.0	344.5	151.5	192.0	157.5
Merged-chr1-184738087-4	chr1	184737985	184738185	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5592.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	14.5	30.0	17.0	263.0	41.5	14.5	20.0	28.0
Merged-chr9-40766978-2	chr9	40766901	40767101	+	885.5	f0_balb.idr|f1_balb.idr	intron (NM_133733, intron 2 of 6)	LTR37A|LTR|ERV1	-34272.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	29.0	5.5	4.5	173.0	11.0	0.0	2.0	2.5
Merged-chr7-101419735-3	chr7	101419642	101419842	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1949.0	NM_001008548	207728.0	Mm.247564	NM_001008548	ENSMUSG00000030653	Pde2a	CGS-PDE|cGSPDE	phosphodiesterase 2A, cGMP-stimulated	protein-coding	3.5	12.5	6.0	41.0	13.0	8.0	5.5	6.5
Merged-chr7-43465557-4	chr7	43465461	43465661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290316, intron 4 of 9)	intron (NM_001290316, intron 4 of 9)	2328.0	NM_001290316	75690.0	Mm.30200	NM_001290316	ENSMUSG00000070604	Vsig10l	-	V-set and immunoglobulin domain containing 10 like	protein-coding	145.0	206.0	168.0	2068.5	328.5	122.0	172.0	118.5
Merged-chr11-71285358-3	chr11	71285255	71285455	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027858)	promoter-TSS (NR_027858)	-123.0	NR_027858	627984.0	Mm.390378	NM_001039234	ENSMUSG00000092528	Nlrp1c-ps	Nalp1c|Nlrp1c	NLR family, pyrin domain containing 1C, pseudogene	pseudo	0.0	0.0	0.0	0.0	58.0	22.0	27.5	34.0
Merged-chr10-13686267-4	chr10	13686185	13686385	+	914.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 4 of 5)	intron (NM_025446, intron 4 of 5)	-133143.0	NM_001347361	56535.0	Mm.282711	NM_019961	ENSMUSG00000019809	Pex3	1700014F15Rik|2810027F19Rik|2900010N04Rik	peroxisomal biogenesis factor 3	protein-coding	18.5	24.5	47.0	515.5	28.5	3.0	7.0	15.0
Merged-chr4-101223297-4	chr4	101223199	101223399	+	877.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	intron (NM_146145, intron 1 of 24)	41983.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	10.5	18.0	14.0	142.0	38.5	19.0	12.5	7.5
Merged-chr1-134361953-4	chr1	134361876	134362076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020588)	promoter-TSS (NM_020588)	23.0	NM_020588	57439.0	Mm.393140	NM_020588	ENSMUSG00000042305	Tmem183a	1300007B12Rik|1700020N19Rik|Tmem183	transmembrane protein 183A	protein-coding	126.5	150.5	70.5	1374.0	249.5	119.0	129.5	102.0
Merged-chr8-108749221-3	chr8	108749109	108749309	+	948.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	34565.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	16.0	22.5	23.5	266.0	17.5	2.0	4.5	3.5
Merged-chr16-5202809-4	chr16	5202718	5202918	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027804, intron 1 of 8)	intron (NR_027804, intron 1 of 8)	1194.0	NM_013796	27426.0	Mm.215641	NM_013796	ENSMUSG00000023143	Nagpa	AI596180|UCE	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase	protein-coding	20.5	52.0	19.0	199.5	62.0	26.0	33.5	19.0
Merged-chr15-86189272-4	chr15	86189168	86189368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3127.0	NM_145475	223753.0	Mm.222685	NM_145475	ENSMUSG00000035891	Cerk	AI848610|D330016D08Rik|mKIAA1646	ceramide kinase	protein-coding	34.0	30.5	29.0	802.5	55.5	19.0	34.0	29.5
Merged-chr5-113854738-3	chr5	113854622	113854822	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 3 of 10)	intron (NM_011779, intron 3 of 10)	-24221.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	23.0	20.0	5.0	306.0	18.0	6.5	16.5	12.5
Merged-chr13-81155547-3	chr13	81155455	81155655	+	835.0888669999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 86 of 89)	intron (NM_054053, intron 86 of 89)	191481.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	5.0	11.0	0.5	59.0	38.5	10.5	16.5	17.0
Merged-chr11-82045527-4	chr11	82045445	82045645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013654)	promoter-TSS (NM_013654)	-167.0	NM_013654	20306.0	Mm.341574	NM_013654	ENSMUSG00000035373	Ccl7	MCP-3|Scya7|fic|marc|mcp3	chemokine (C-C motif) ligand 7	protein-coding	25.0	50.5	38.5	466.5	82.5	22.5	32.5	28.0
Merged-chr18-38250378-4	chr18	38250370	38250570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015475)	promoter-TSS (NR_015475)	95.0	NR_027904	73516.0	Mm.48776	NR_015475	ENSMUSG00000097080	1700086O06Rik	-	RIKEN cDNA 1700086O06 gene	ncRNA	90.5	112.5	124.0	1135.5	141.5	92.5	97.5	78.5
Merged-chr1-144239328-2	chr1	144239204	144239404	+	849.333374	f0_balb.idr|f0_c57.idr	Intergenic	Lx8b|LINE|L1	9800.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	19.0	23.0	1.5	101.5	20.5	14.0	9.0	9.0
Merged-chr3-121953199-4	chr3	121953108	121953308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172525)	promoter-TSS (NM_172525)	-21.0	NM_172525	214137.0	Mm.229287	NM_172525	ENSMUSG00000039831	Arhgap29	6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1	Rho GTPase activating protein 29	protein-coding	71.5	72.0	43.5	992.0	176.5	52.0	95.0	44.5
Merged-chr7-16274099-2	chr7	16273999	16274199	+	999.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136270)	promoter-TSS (NM_001136270)	-407.0	NM_001136270	66300.0	Mm.218698	NM_001136270	ENSMUSG00000091811	Inafm1	2610014I16Rik|Prr24	InaF motif containing 1	protein-coding	4.5	5.0	4.5	46.5	15.0	2.5	4.5	7.0
Merged-chr19-12818666-4	chr19	12818561	12818761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134152, intron 3 of 8)	L1MA9|LINE|L1	20082.0	NM_134152	107321.0	Mm.313136	NM_134152	ENSMUSG00000024696	Lpxn	4933402K05Rik|A530083L21Rik|AV278559|LDPL	leupaxin	protein-coding	32.5	30.5	27.0	428.5	50.0	12.5	8.5	8.0
Merged-chr2-157566802-4	chr2	157566709	157566909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016916)	promoter-TSS (NM_016916)	-448.0	NM_016916	53619.0	Mm.480461	NM_016916	ENSMUSG00000067787	Blcap	AI462828|Bc10	bladder cancer associated protein	protein-coding	90.5	164.5	79.0	1064.0	183.5	82.5	76.5	75.5
Merged-chr1-182909290-3	chr1	182909160	182909360	+	851.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45528.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	5.0	8.0	7.0	36.0	10.0	7.0	4.5	7.5
Merged-chr11-44468554-4	chr11	44468466	44468666	+	886.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024475, intron 1 of 10)	intron (NM_024475, intron 1 of 10)	1982.0	NM_024475	79560.0	Mm.338784	NM_024475	ENSMUSG00000041231	Ublcp1	4930527B16Rik|8430435I17Rik|BC002236	ubiquitin-like domain containing CTD phosphatase 1	protein-coding	16.5	20.5	7.5	122.0	31.0	12.0	18.5	18.0
Merged-chr5-43877592-4	chr5	43877470	43877670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	8761.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	98.0	116.0	141.0	1932.5	169.0	62.5	83.0	72.0
Merged-chr6-114892270-4	chr6	114892153	114892353	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	29568.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	15.5	31.5	17.5	315.0	15.5	8.5	8.0	17.0
Merged-chr5-43355377-4	chr5	43355264	43355464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120010.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	106.5	141.0	138.0	2045.5	380.0	154.5	196.5	130.5
Merged-chr11-20743535-3	chr11	20743440	20743640	+	811.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1984.0	NM_181411	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	9.5	21.0	5.0	79.0	50.5	9.5	1.5	5.5
Merged-chr13-51397971-4	chr13	51397842	51398042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10676.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	33.5	59.0	65.5	923.5	104.5	39.5	68.5	56.5
Merged-chr5-115187393-4	chr5	115187281	115187481	+	991.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310712, intron 1 of 5)	intron (NM_001310712, intron 1 of 5)	-1260.0	NM_001310715	29867.0	Mm.38551	NM_013879	ENSMUSG00000029544	Cabp1	caldendrin	calcium binding protein 1	protein-coding	18.0	20.0	8.5	176.5	75.5	37.0	25.0	30.5
Merged-chr2-27693907-3	chr2	27693744	27693944	+	943.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	-15448.0	NM_001290481	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	6.5	9.5	10.5	160.5	17.5	1.5	3.5	13.5
Merged-chr5-72559774-4	chr5	72559680	72559880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133921)	promoter-TSS (NM_133921)	-135.0	NM_133921	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	260.5	354.5	253.0	3346.0	621.0	276.5	237.0	279.5
Merged-chr11-6627980-4	chr11	6627853	6628053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-1886.0	NM_134011	21379.0	Mm.247761	NM_134011	ENSMUSG00000000384	Tbrg4	2310042P22Rik|AA120735|AA408001|AI527316|Cpr2|R74877|Tb-12|mKIAA0948	transforming growth factor beta regulated gene 4	protein-coding	16.0	25.5	30.0	420.5	46.5	21.0	41.5	33.0
Merged-chr3-9002725-4	chr3	9002631	9002831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	1473.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	19.0	41.0	31.0	475.0	47.0	17.0	31.0	39.0
Merged-chr5-3493275-4	chr5	3493184	3493384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-50549.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	69.0	119.0	63.5	691.0	188.5	64.0	62.5	47.0
Merged-chr12-70968634-4	chr12	70968556	70968756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5967.0	NM_001310595	19167.0	Mm.296338	NM_011184	ENSMUSG00000060073	Psma3	Lmpc8	proteasome (prosome, macropain) subunit, alpha type 3	protein-coding	71.5	80.0	55.5	771.0	167.0	78.0	56.0	60.5
Merged-chr7-45461007-4	chr7	45460909	45461109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007527)	TTS (NM_007527)	-1123.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	42.5	88.0	103.0	996.5	145.5	44.0	51.0	66.0
Merged-chr3-96197615-4	chr3	96197518	96197718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026975)	promoter-TSS (NM_026975)	-32.0	NM_026975	69168.0	Mm.104531	NM_026975	ENSMUSG00000015943	Bola1	1810037G04Rik	bolA-like 1 (E. coli)	protein-coding	44.0	45.5	26.5	440.0	82.0	51.0	44.0	45.0
Merged-chr18-12230163-4	chr18	12230042	12230242	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008720, intron 1 of 24)	intron (NM_008720, intron 1 of 24)	6244.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	94.0	98.0	78.0	2039.5	46.5	10.5	17.0	18.5
Merged-chr4-129884270-3	chr4	129884187	129884387	+	751.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21939.0	NR_045190	319894.0	Mm.59196	NR_045190	ENSMUSG00000086369	E330017L17Rik	-	RIKEN cDNA E330017L17 gene	ncRNA	14.0	12.0	10.0	84.0	19.5	9.5	9.0	9.5
Merged-chr13-9180463-4	chr13	9180344	9180544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	86563.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	73.5	92.0	65.0	719.5	186.0	61.0	72.5	50.0
Merged-chr1-60652765-4	chr1	60652699	60652899	+	920.9464109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86034.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	6.5	10.0	27.0	109.0	14.0	9.0	6.0	6.0
Merged-chr2-121413125-3	chr2	121413017	121413217	+	826.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007952)	promoter-TSS (NM_007952)	675.0	NM_153075	212670.0	Mm.384318	NM_153075	ENSMUSG00000033486	Catsper2	-	cation channel, sperm associated 2	protein-coding	7.5	4.5	10.0	134.5	27.0	7.0	12.0	14.5
Merged-chr11-53788496-3	chr11	53788391	53788591	+	849.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	18018.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	5.0	5.5	3.0	34.5	14.0	5.0	14.5	20.5
Merged-chr11-101119982-4	chr11	101119889	101120089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134024)	promoter-TSS (NM_134024)	-142.0	NM_134024	103733.0	Mm.479145	NM_134024	ENSMUSG00000035198	Tubg1	1500010O08Rik|AI451582|AI503389|Tubg	tubulin, gamma 1	protein-coding	214.0	319.5	144.0	2414.0	431.5	186.0	137.5	155.0
Merged-chr11-107342595-4	chr11	107342516	107342716	+	967.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	MTC|LTR|ERVL-MaLR	128104.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	25.0	16.0	41.5	398.5	39.5	18.0	40.0	32.5
Merged-chr13-41883894-4	chr13	41883836	41884036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033545, exon 2 of 7)	non-coding (NR_033545, exon 2 of 7)	18021.0	NR_033545	100038577.0	Mm.387093	NR_033545	ENSMUSG00000113856	Gm10790	-	predicted gene 10790	ncRNA	40.0	44.0	68.0	707.0	56.0	24.5	28.5	26.0
Merged-chr10-120363556-3	chr10	120363446	120363646	+	743.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010441, exon 5 of 5)	3' UTR (NM_010441, exon 5 of 5)	-25977.0	NR_040626	320626.0	Mm.446091	NR_040626	ENSMUSG00000090191	9230105E05Rik	-	RIKEN cDNA 9230105E05 gene	ncRNA	6.0	8.0	6.0	177.0	22.0	4.0	6.5	4.0
Merged-chr4-135987254-4	chr4	135987158	135987358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025411)	promoter-TSS (NM_025411)	-14.0	NM_025411	66193.0	Mm.29131	NM_025411	ENSMUSG00000028669	Pithd1	1110049F12Rik|AA408179|Trp26	PITH (C-terminal proteasome-interacting domain of thioredoxin-like) domain containing 1	protein-coding	82.5	132.5	59.0	1152.5	250.0	71.5	99.5	92.0
Merged-chr10-96910110-4	chr10	96910008	96910208	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-125660.0	NR_045358	75301.0	Mm.108650	NR_045358	ENSMUSG00000111924	4930556N09Rik	-	RIKEN cDNA 4930556N09 gene	ncRNA	21.5	30.0	13.5	336.5	56.0	15.0	18.0	6.0
Merged-chr11-29375874-3	chr11	29375754	29375954	+	790.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176841, intron 2 of 31)	MTD|LTR|ERVL-MaLR	1682.0	NM_176841	108686.0	Mm.338284	NM_176841	ENSMUSG00000032740	Ccdc88a	A430106J12Rik|AI848406|Ape|C130096N06Rik|C330012F17Rik|D130005J21Rik|Girdin|Giv|Grdn|Hkrp1	coiled coil domain containing 88A	protein-coding	10.5	10.5	5.5	82.0	6.0	6.5	2.0	1.0
Merged-chr5-118650937-4	chr5	118650850	118651050	+	915.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	90231.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	14.5	36.5	48.5	404.0	29.0	11.0	15.0	14.5
Merged-chr14-47241679-2	chr14	47241560	47241760	+	777.5	f0_balb.idr|f1_balb.idr	exon (NM_172598, exon 25 of 25)	exon (NM_172598, exon 25 of 25)	35197.0	NM_001360532	218973.0	Mm.265615	NM_172598	ENSMUSG00000037572	Wdhd1	A630092E18|AND-1|D630024B06Rik	WD repeat and HMG-box DNA binding protein 1	protein-coding	9.5	8.5	14.0	167.0	1.0	1.5	6.0	4.0
Merged-chr6-137411137-2	chr6	137411037	137411237	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 13 of 26)	intron (NM_011216, intron 13 of 26)	416.0	NM_001164403	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	3.0	16.0	12.0	61.0	17.0	11.0	10.0	9.0
Merged-chr2-144600032-4	chr2	144599910	144600110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025314)	promoter-TSS (NM_025314)	57.0	NM_025314	66044.0	Mm.28109	NM_025314	ENSMUSG00000027430	Dtd1	0610006H08Rik|DTD|DUE-B|Hars2	D-tyrosyl-tRNA deacylase 1	protein-coding	102.5	165.0	93.5	1704.0	263.5	107.0	161.5	152.0
Merged-chr14-66235773-4	chr14	66235701	66235901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-21977.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	75.0	57.5	56.5	885.0	98.5	52.0	67.0	57.5
Merged-chr2-154436763-4	chr2	154436648	154436848	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172860, intron 1 of 10)	CpG	264.0	NM_009823	12396.0	Mm.29914	NM_009823	ENSMUSG00000038533	Cbfa2t2	A430091M07|C330013D05Rik|Cbfa2t2h|MTGR1	core-binding factor, runt domain, alpha subunit 2, translocated to, 2 (human)	protein-coding	13.5	8.5	30.0	272.0	41.5	17.5	24.5	28.5
Merged-chr11-114853291-4	chr11	114853179	114853379	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147217, intron 1 of 3)	intron (NM_147217, intron 1 of 3)	1249.0	NM_147217	70355.0	Mm.242413	NM_147217	ENSMUSG00000051043	Gprc5c	1110028I06Rik|3200002M13Rik|Raig3	G protein-coupled receptor, family C, group 5, member C	protein-coding	25.5	26.5	20.5	258.0	47.0	11.5	17.0	22.5
Merged-chr6-116439711-3	chr6	116439617	116439817	+	896.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 3 of 13)	intron (NM_009662, intron 3 of 13)	21461.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	13.5	13.0	16.5	165.5	29.5	4.0	6.0	7.5
Merged-chr6-146410398-4	chr6	146410282	146410482	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 9 of 56)	intron (NM_019923, intron 9 of 56)	91841.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	15.0	18.5	18.5	124.5	75.0	16.5	30.5	32.0
Merged-chr15-68134822-3	chr15	68134731	68134931	+	994.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152182, intron 9 of 13)	intron (NR_152182, intron 9 of 13)	124025.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	15.0	29.5	48.5	774.0	18.0	3.5	12.0	21.5
Merged-chr12-69448586-2	chr12	69448486	69448686	+	973.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26964.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	5.0	8.5	10.0	34.0	11.5	8.5	12.0	9.5
Merged-chr2-156420867-6	chr2	156420817	156421017	+	912.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013510)	promoter-TSS (NM_013510)	8.0	NM_001291123	13821.0	Mm.20852	NM_013510	ENSMUSG00000027624	Epb41l1	4.1N|Epb4.1l1|NBL1|mKIAA0338	erythrocyte membrane protein band 4.1 like 1	protein-coding	14.5	9.5	14.5	115.0	32.0	13.5	11.0	22.5
Merged-chr7-110386503-4	chr7	110386407	110386607	+	905.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	intron (NM_177324, intron 17 of 40)	164804.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	13.5	13.5	17.0	205.5	29.5	6.0	6.0	12.0
Merged-chr15-57975645-1	chr15	57975545	57975745	+	828.333313	f0_balb.idr	Intergenic	Intergenic	-10258.0	NM_173862	239463.0	Mm.221241	NM_173862	ENSMUSG00000051225	Fam83a	-	family with sequence similarity 83, member A	protein-coding	15.0	18.0	8.0	153.0	32.0	8.0	15.5	14.0
Merged-chr16-94521223-2	chr16	94521123	94521323	+	752.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_007834, intron 1 of 7)	intron (NM_007834, intron 1 of 7)	5406.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	7.0	5.5	4.5	76.0	12.5	1.0	6.5	12.0
Merged-chr6-118134867-3	chr6	118134788	118134988	+	976.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030165, intron 1 of 7)	intron (NM_030165, intron 1 of 7)	3942.0	NM_001362149	78752.0	Mm.300317	NM_030165	ENSMUSG00000042042	Csgalnact2	4632415D10Rik|Galnact2	chondroitin sulfate N-acetylgalactosaminyltransferase 2	protein-coding	7.0	11.0	2.5	153.0	25.5	6.5	7.0	9.0
Merged-chr16-37814439-3	chr16	37814342	37814542	+	826.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008047, intron 2 of 10)	intron (NM_008047, intron 2 of 10)	37387.0	NM_008047	14314.0	Mm.182434	NM_008047	ENSMUSG00000022816	Fstl1	AI316791|AW107808|Fstl|TSC-36	follistatin-like 1	protein-coding	12.5	32.0	7.0	180.5	11.5	4.0	9.5	6.5
Merged-chr4-45530861-4	chr4	45530765	45530965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033306)	promoter-TSS (NM_001033306)	-37.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	130.0	153.5	128.5	2272.0	393.0	160.5	176.5	166.0
Merged-chr1-54443808-4	chr1	54443708	54443908	+	866.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4782.0	NM_001033194	98488.0	Mm.25856	NM_001033194	ENSMUSG00000041303	Gtf3c3	TF3C-gamma|TFIIIC102	general transcription factor IIIC, polypeptide 3	protein-coding	3.5	10.0	9.0	231.0	27.5	15.5	16.0	13.5
Merged-chr1-93727148-3	chr1	93727058	93727258	+	702.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025920, intron 2 of 5)	intron (NM_025920, intron 2 of 5)	4768.0	NM_001310761	67026.0	Mm.272356	NM_025920	ENSMUSG00000026279	Thap4	2010320B01Rik	THAP domain containing 4	protein-coding	1.5	12.5	3.5	104.0	13.0	7.0	9.5	11.0
Merged-chr13-24463941-4	chr13	24463821	24464021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111110, intron 13 of 16)	intron (NM_001111110, intron 13 of 16)	48799.0	NM_001284520	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	48.5	83.0	54.0	1098.0	221.5	62.0	88.5	57.5
Merged-chr6-145792618-3	chr6	145792521	145792721	+	982.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15762.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	9.5	21.0	37.5	434.0	13.0	6.0	7.5	2.5
Merged-chr14-10453527-3	chr14	10453400	10453600	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308286)	promoter-TSS (NM_001308286)	-42.0	NM_001308286	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	32.0	38.0	25.0	386.0	84.5	33.5	41.5	28.0
Merged-chr16-90677435-4	chr16	90677393	90677593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49878.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	105.5	117.5	103.0	1801.5	169.0	62.5	87.0	57.5
Merged-chr1-171390312-4	chr1	171390172	171390372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005508, intron 1 of 11)	intron (NM_001005508, intron 1 of 11)	1312.0	NM_001005508	226652.0	Mm.251048	NM_001005508	ENSMUSG00000048865	Arhgap30	6030405P05Rik|Gm102|mFLJ00267	Rho GTPase activating protein 30	protein-coding	123.0	215.5	108.0	1518.0	219.5	86.5	104.5	78.5
Merged-chr11-94506144-4	chr11	94506042	94506242	+	889.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170671, intron 13 of 18)	intron (NM_170671, intron 13 of 18)	-6168.0	NM_027984	71889.0	Mm.248620	NM_027984	ENSMUSG00000010080	Epn3	2310022G12Rik	epsin 3	protein-coding	13.0	10.5	8.0	171.5	19.5	10.0	7.5	14.5
Merged-chr1-7842659-3	chr1	7842557	7842757	+	869.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	753737.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	14.0	40.0	20.0	504.0	4.0	3.0	7.0	0.0
Merged-chr9-108306174-4	chr9	108306072	108306272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313961)	promoter-TSS (NM_001313961)	12.0	NM_016802	11848.0	Mm.757	NM_016802	ENSMUSG00000007815	Rhoa	Arha|Arha1|Arha2	ras homolog family member A	protein-coding	229.5	414.5	193.0	2734.5	679.0	334.5	243.0	252.5
Merged-chr11-108248513-4	chr11	108248405	108248605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	95383.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	18.5	44.0	23.0	376.0	66.5	23.0	23.5	27.5
Merged-chr6-113333852-2	chr6	113333752	113333952	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_133926)	TTS (NM_133926)	6876.0	NM_010957	18294.0	Mm.43612	NM_010957	ENSMUSG00000030271	Ogg1	Mmh	8-oxoguanine DNA-glycosylase 1	protein-coding	1.0	5.0	1.0	58.5	12.0	6.5	5.5	9.5
Merged-chr14-103929593-4	chr14	103929489	103929689	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-85113.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	15.5	15.5	24.0	412.0	39.5	6.5	17.0	11.0
Merged-chr8-117328905-3	chr8	117328801	117329001	+	865.31665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-20269.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	11.0	12.0	8.5	135.5	21.0	5.0	6.5	6.5
Merged-chr11-90220237-4	chr11	90220197	90220397	+	934.25415	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29179.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	8.5	25.0	23.5	166.0	20.0	6.5	8.0	13.0
Merged-chr2-34963359-7	chr2	34963279	34963479	+	868.628601	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1607.0	NM_001326601	22029.0	Mm.239514	NM_009421	ENSMUSG00000026875	Traf1	4732496E14Rik	TNF receptor-associated factor 1	protein-coding	4.0	8.0	6.5	52.5	11.5	7.0	8.0	6.5
Merged-chr8-123034812-1	chr8	123034712	123034912	+	555.0	f0_balb.idr	intron (NM_001081379, intron 1 of 12)	B3A|SINE|B2	7472.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	6.0	7.0	7.0	72.0	23.0	4.5	2.5	1.0
Merged-chr5-105005241-4	chr5	105005133	105005333	+	861.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22516.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	13.0	12.5	6.5	108.0	29.5	9.0	10.5	4.0
Merged-chr17-27027602-4	chr17	27027505	27027705	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149749, intron 1 of 6)	intron (NR_149749, intron 1 of 6)	1022.0	NM_007523	12018.0	Mm.2443	NM_007523	ENSMUSG00000057789	Bak1	Bak|N-BAK1|N-Bak	BCL2-antagonist/killer 1	protein-coding	18.0	52.5	23.5	491.5	85.5	28.0	20.0	33.0
Merged-chr11-95117200-2	chr11	95117100	95117300	+	864.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2917.0	NM_010055	13393.0	Mm.5194	NM_010055	ENSMUSG00000001510	Dlx3	AV237891|Dlx-3	distal-less homeobox 3	protein-coding	7.5	9.0	7.0	47.5	23.5	5.0	1.5	6.5
Merged-chr10-96080715-3	chr10	96080633	96080833	+	800.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	140070.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	4.5	12.0	8.5	67.0	8.0	4.5	4.0	5.0
Merged-chr17-87282848-4	chr17	87282822	87283022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015506)	promoter-TSS (NR_015506)	36.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	89.5	152.0	87.0	1560.5	226.0	87.0	104.5	86.5
Merged-chr8-6572438-2	chr8	6572338	6572538	+	788.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1467151.0	NM_011388	20494.0	Mm.3500	NM_011388	ENSMUSG00000023073	Slc10a2	9130221J18Rik|AI605518|ASBT|IBAT|ISBT	solute carrier family 10, member 2	protein-coding	3.5	9.0	5.0	132.0	23.0	15.0	11.0	10.5
Merged-chr1-135685154-4	chr1	135685041	135685241	+	823.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34922.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	16.5	18.0	12.5	136.0	23.5	10.0	6.0	7.5
Merged-chr6-4811408-3	chr6	4811312	4811512	+	780.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64106.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	4.0	6.5	9.0	76.0	9.5	4.5	5.0	13.5
Merged-chr17-5566251-4	chr17	5566149	5566349	+	960.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	MTE2a|LTR|ERVL-MaLR	73649.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	17.5	16.0	24.5	386.5	35.5	13.5	17.5	15.5
Merged-chr17-81703944-3	chr17	81703840	81704040	+	983.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	34447.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	6.5	25.5	7.0	197.0	46.0	17.0	15.5	8.0
Merged-chr12-85992204-4	chr12	85992104	85992304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	86837.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	51.0	56.0	44.5	1077.5	157.0	56.0	71.0	52.0
Merged-chr13-43547054-4	chr13	43546933	43547133	+	930.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081059, intron 6 of 8)	intron (NM_001081059, intron 6 of 8)	13158.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	21.0	32.0	7.0	105.5	18.5	19.0	7.0	18.0
Merged-chr15-81021609-4	chr15	81021505	81021705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 6 of 13)	intron (NM_001082536, intron 6 of 13)	43840.0	NM_134091	105835.0	Mm.274943	NM_134091	ENSMUSG00000042303	Sgsm3	1810012I01Rik|AI428557|BB175482|Cip85|R75178|RUSC3|Rutbc3	small G protein signaling modulator 3	protein-coding	104.0	155.0	112.0	1334.0	194.0	60.5	94.5	66.5
Merged-chr8-74972526-3	chr8	74972443	74972643	+	623.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-21107.0	NM_001316753	70823.0	Mm.261739	NM_178017	ENSMUSG00000034518	Hmgxb4	4733401K04Rik|AI316803|Hmgb2l1	HMG box domain containing 4	protein-coding	4.5	7.0	11.0	90.5	15.5	3.5	3.0	9.5
Merged-chr2-32631889-4	chr2	32631788	32631988	+	914.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198791, intron 5 of 6)	intron (NM_001198791, intron 5 of 6)	2388.0	NM_021515	11636.0	Mm.29189	NM_021515	ENSMUSG00000026817	Ak1	Ak-1|B430205N08Rik	adenylate kinase 1	protein-coding	23.0	44.0	7.0	120.5	26.5	11.0	25.5	19.5
Merged-chr19-17359660-5	chr19	17359519	17359719	+	909.4933470000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010265, intron 1 of 2)	intron (NM_010265, intron 1 of 2)	-2952.0	NM_173442	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	20.0	19.5	37.0	346.0	34.0	10.0	12.5	18.5
Merged-chr4-59459493-4	chr4	59459411	59459611	+	937.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Zaphod|DNA|hAT-Tip100	-20878.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	13.0	13.5	11.5	131.5	41.5	24.0	34.5	35.5
Merged-chr11-68897299-2	chr11	68897210	68897410	+	619.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4256.0	NM_009080	19941.0	Mm.3229	NM_009080	ENSMUSG00000060938	Rpl26	SIG-20	ribosomal protein L26	protein-coding	3.0	6.0	2.0	19.5	31.0	4.5	7.0	15.5
Merged-chr19-37439457-3	chr19	37439362	37439562	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008245, intron 3 of 3)	intron (NM_008245, intron 3 of 3)	4621.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	33.5	33.0	40.5	464.0	26.0	0.0	2.0	7.5
Merged-chr15-58214995-4	chr15	58214882	58215082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026346)	promoter-TSS (NM_026346)	-90.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	53.5	69.0	57.5	1114.5	107.5	47.5	58.0	96.5
Merged-chr16-96145328-4	chr16	96145215	96145415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207301)	promoter-TSS (NM_207301)	-104.0	NM_207301	71446.0	Mm.255063	NM_207301	ENSMUSG00000023147	Wrb	5530402J05Rik|C030018G21Rik|Chd5	tryptophan rich basic protein	protein-coding	306.0	405.0	365.0	5055.5	712.5	297.0	414.0	241.5
Merged-chr15-97821070-4	chr15	97820978	97821178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	URR1B|DNA|hAT-Charlie	-6215.0	NM_001204281	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	46.5	69.5	32.0	387.5	72.5	15.5	34.0	27.0
Merged-chr17-35165807-3	chr17	35165707	35165907	+	958.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020027)	promoter-TSS (NM_020027)	-930.0	NM_020027	53761.0	Mm.272462	NM_020027	ENSMUSG00000024393	Prrc2a	3110039B05Rik|Bat-2|Bat2|D17H6S51E|G2|Wbp12|mKIAA4178	proline-rich coiled-coil 2A	protein-coding	11.5	17.0	13.5	110.0	43.5	12.0	10.5	13.0
Merged-chr7-43668334-4	chr7	43668211	43668411	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-3720.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	15.5	24.0	11.0	44.0	39.5	8.0	11.0	6.5
Merged-chr19-3699660-4	chr19	3699544	3699744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8649.0	NM_001358256	72056.0	Mm.23780	NM_028077	ENSMUSG00000035372	1810055G02Rik	AI256204	RIKEN cDNA 1810055G02 gene	protein-coding	32.5	41.0	23.0	316.0	52.5	23.0	29.0	42.0
Merged-chr10-110727936-3	chr10	110727857	110728057	+	900.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17482.0	NM_001358560	52679.0	Mm.11747	NM_178609	ENSMUSG00000020185	E2f7	A630014C11Rik|D10Ertd739e|E2F-7	E2F transcription factor 7	protein-coding	5.0	7.5	6.0	152.5	19.0	2.5	8.5	8.0
Merged-chr14-30609502-4	chr14	30609410	30609610	+	813.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011103, intron 2 of 17)	intron (NM_011103, intron 2 of 17)	800.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	14.0	14.0	5.0	96.5	17.0	14.5	11.5	10.0
Merged-chr18-32857361-1	chr18	32857261	32857461	+	945.0	f0_balb.idr	intron (NM_001110015, intron 16 of 22)	intron (NM_001110015, intron 16 of 22)	-20074.0	NR_045381	75795.0	Mm.382634	NR_045381	ENSMUSG00000097553	4930455D15Rik	-	RIKEN cDNA 4930455D15 gene	ncRNA	27.0	23.5	21.5	499.5	31.5	9.5	22.0	8.0
Merged-chr15-76343499-4	chr15	76343365	76343565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025567)	promoter-TSS (NM_025567)	-58.0	NM_025567	66445.0	Mm.29196	NM_025567	ENSMUSG00000022551	Cyc1	2610002H19Rik|AA408921|Cyct1	cytochrome c-1	protein-coding	65.0	64.5	44.5	576.0	141.5	41.0	68.5	26.0
Merged-chr3-41743714-4	chr3	41743608	41743808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291048, intron 1 of 4)	intron (NM_001291048, intron 1 of 4)	1090.0	NM_027271	73852.0	Mm.29006	NM_027271	ENSMUSG00000025766	D3Ertd751e	2810009O15Rik|4930415G15Rik	DNA segment, Chr 3, ERATO Doi 751, expressed	protein-coding	12.5	22.0	20.0	199.5	29.5	21.0	22.5	37.0
Merged-chr14-25493722-4	chr14	25493640	25493840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	34555.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	61.0	149.5	67.5	1353.5	151.0	40.0	51.0	56.5
Merged-chr16-18248096-3	chr16	18247990	18248190	+	871.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080999)	promoter-TSS (NM_001080999)	604.0	NM_011239	19385.0	Mm.235287	NM_011239	ENSMUSG00000005732	Ranbp1	Htf9a	RAN binding protein 1	protein-coding	10.0	7.5	9.5	145.0	16.0	10.0	11.0	13.5
Merged-chr5-45493363-4	chr5	45493256	45493456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024434)	promoter-TSS (NM_024434)	-18.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	270.5	397.0	323.5	3754.5	891.5	324.0	471.0	327.5
Merged-chr7-67360057-3	chr7	67359974	67360174	+	771.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357324, intron 1 of 11)	L1MC4|LINE|L1	12784.0	NM_001291192	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	5.0	7.0	5.5	76.0	26.0	6.0	3.5	3.5
Merged-chr12-102439829-4	chr12	102439717	102439917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011175)	promoter-TSS (NM_011175)	-4.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	264.0	392.5	282.5	3843.5	594.0	273.5	325.0	281.5
Merged-chr11-117828420-4	chr11	117828322	117828522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027827, intron 2 of 10)	URR1B|DNA|hAT-Charlie	-2408.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	79.5	127.5	54.0	613.5	243.0	66.0	83.5	52.0
Merged-chr6-124732041-1	chr6	124731941	124732141	+	670.0	f0_balb.idr	intron (NM_001077705, intron 3 of 15)	intron (NM_001077705, intron 3 of 15)	1113.0	NM_013545	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	18.5	2.0	9.0	78.5	13.5	5.5	7.0	7.5
Merged-chr4-11022982-4	chr4	11022886	11023086	+	965.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15367.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	13.5	12.5	20.5	403.0	37.0	21.0	18.5	29.5
Merged-chr6-97788748-4	chr6	97788654	97788854	+	876.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A|LTR|ERVL	-18304.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	17.0	14.0	16.0	195.0	18.5	10.0	8.5	12.5
Merged-chr10-59943749-3	chr10	59943643	59943843	+	693.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	8027.0	NM_029083	74747.0	Mm.21697	NM_029083	ENSMUSG00000020108	Ddit4	5830413E08Rik|AA415483|REDD1|Rtp801|dig2	DNA-damage-inducible transcript 4	protein-coding	4.0	9.5	2.0	61.0	13.0	13.5	5.5	7.0
Merged-chr5-150117018-4	chr5	150116991	150117191	+	650.643738	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	98416.0	NM_001289566	140498.0	Mm.444643	NM_080468	ENSMUSG00000053368	Rxfp2	Gpr106|Great|Lgr8	relaxin/insulin-like family peptide receptor 2	protein-coding	0.0	1.0	1.0	32.5	11.0	7.5	8.0	5.5
Merged-chr10-62920120-2	chr10	62920020	62920220	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175194)	promoter-TSS (NM_175194)	-513.0	NM_175194	73132.0	Mm.37457	NM_175194	ENSMUSG00000071253	Slc25a16	3110021G18Rik|GDA|GDC|HGT.1|ML7	solute carrier family 25 (mitochondrial carrier, Graves disease autoantigen), member 16	protein-coding	7.5	8.5	5.0	52.5	6.5	4.5	6.0	7.5
Merged-chr10-94518358-3	chr10	94518251	94518451	+	904.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172051, intron 1 of 3)	RLTR11A2|LTR|ERVK	3494.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	10.5	12.0	15.0	283.5	16.0	9.5	9.0	14.5
Merged-chr10-82969788-2	chr10	82969693	82969893	+	640.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3A|LINE|L1	-15704.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	12.5	6.0	10.0	74.0	7.0	1.0	5.5	3.5
Merged-chr12-4211267-4	chr12	4211171	4211371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 19 of 21)	intron (NM_001159537, intron 19 of 21)	22694.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	195.0	283.0	139.5	2382.0	388.0	134.5	166.0	141.0
Merged-chr15-97952619-2	chr15	97952519	97952719	+	932.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11610.0	NM_001356508	380967.0	Mm.196630	NM_201359	ENSMUSG00000052369	Tmem106c	AI046681|BC046621|D15Ertd405e	transmembrane protein 106C	protein-coding	3.0	7.5	0.0	46.0	22.0	6.0	7.0	11.5
Merged-chr16-32972686-4	chr16	32972595	32972795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081255, intron 6 of 20)	intron (NM_001081255, intron 6 of 20)	58595.0	NM_001310672	70144.0	Mm.491178	NM_001081255	ENSMUSG00000022801	Lrch3	2210409B11Rik|AW215594|Gm1742	leucine-rich repeats and calponin homology (CH) domain containing 3	protein-coding	75.5	81.5	48.5	1300.0	112.5	24.5	52.0	65.0
Merged-chr8-105937106-4	chr8	105936996	105937196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013640, intron 4 of 7)	intron (NM_013640, intron 4 of 7)	1296.0	NM_013640	19171.0	Mm.787	NM_013640	ENSMUSG00000031897	Psmb10	Mecl-1|Mecl1	proteasome (prosome, macropain) subunit, beta type 10	protein-coding	45.0	42.0	27.0	344.5	96.5	45.0	52.5	39.0
Merged-chr5-4530892-4	chr5	4530810	4531010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227306.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	46.5	53.5	47.0	666.0	122.0	53.0	50.5	47.0
Merged-chr3-100489381-4	chr3	100489269	100489469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142952)	promoter-TSS (NM_001142952)	-177.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	182.5	262.5	151.0	2499.5	497.5	182.5	226.5	153.0
Merged-chr9-13442477-3	chr9	13442386	13442586	+	814.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11125.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	6.5	15.0	5.0	155.5	10.5	5.0	3.0	0.0
Merged-chr1-60899362-3	chr1	60899229	60899429	+	975.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9696.0	NM_009843	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	0.0	3.0	4.5	18.5	37.5	9.0	32.0	26.0
Merged-chr2-117405635-4	chr2	117405526	117405726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEd|LINE|L1	-62749.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	30.0	55.5	21.5	515.5	75.5	18.5	40.0	29.0
Merged-chr12-117466139-4	chr12	117466036	117466236	+	891.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50343.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	11.0	10.0	9.5	469.0	50.5	12.5	17.5	15.0
Merged-chr8-107324321-3	chr8	107324222	107324422	+	909.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018823, intron 2 of 14)	intron (NM_018823, intron 2 of 14)	30852.0	NM_133957	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	6.5	11.0	2.5	164.5	23.0	6.5	6.0	7.5
Merged-chr17-69145979-4	chr17	69145889	69146089	+	904.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	-10755.0	NM_013813	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	1.0	17.0	12.0	212.0	24.0	15.0	9.5	16.0
Merged-chr10-13299361-4	chr10	13299261	13299461	+	962.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	24928.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	12.5	28.0	14.0	168.5	45.5	20.5	3.5	12.0
Merged-chr15-58797464-4	chr15	58797371	58797571	+	929.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175212, intron 1 of 6)	intron (NM_175212, intron 1 of 6)	25956.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	10.0	19.0	8.5	195.5	38.0	11.5	12.5	38.0
Merged-chr2-156312152-3	chr2	156312068	156312268	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316755)	promoter-TSS (NM_001316755)	-305.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	22.5	31.0	20.0	188.5	91.5	18.5	25.5	44.5
Merged-chr1-24677814-3	chr1	24677753	24677953	+	815.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026719)	promoter-TSS (NM_026719)	-691.0	NM_026719	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	4.5	9.0	14.5	144.5	14.5	4.0	6.5	10.5
Merged-chr4-141953046-4	chr4	141952946	141953146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 12 of 31)	MER2|DNA|TcMar-Tigger	-29946.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	118.0	163.0	96.0	1421.5	291.0	107.5	119.5	96.5
Merged-chr4-71431660-1	chr4	71431560	71431760	+	551.0	f1_balb.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	769233.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	9.5	4.5	5.5	69.5	14.0	2.5	7.0	0.5
Merged-chr10-123076447-4	chr10	123076340	123076540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153395)	promoter-TSS (NM_153395)	65.0	NM_001163024	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	163.0	221.0	138.0	2689.0	487.5	192.0	312.5	191.5
Merged-chr13-21161367-4	chr13	21161273	21161473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18318.0	NM_146534	258527.0	Mm.271440	NM_146534	ENSMUSG00000045474	Olfr1368	MOR256-15	olfactory receptor 1368	protein-coding	27.5	39.0	25.0	338.5	80.5	24.0	21.5	30.0
Merged-chr19-21495955-2	chr19	21495858	21496058	+	892.25	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23297.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	8.5	8.5	40.5	204.0	12.0	3.0	15.0	9.0
Merged-chr19-29047950-4	chr19	29047861	29048061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021299)	promoter-TSS (NM_021299)	-59.0	NM_021299	56248.0	Mm.196067	NM_021299	ENSMUSG00000024782	Ak3	AA407498|AI506714|AK-3|Ak3l|Ak3l1|Akl3l	adenylate kinase 3	protein-coding	24.5	47.5	33.5	404.5	31.5	20.0	21.5	20.0
Merged-chr7-19094017-4	chr7	19093904	19094104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011383)	promoter-TSS (NM_011383)	-540.0	NM_011383	20475.0	Mm.3410	NM_011383	ENSMUSG00000040841	Six5	Dmahp|MDMAHP|TrexBF	sine oculis-related homeobox 5	protein-coding	82.0	162.5	78.0	1296.0	263.5	97.5	122.5	85.5
Merged-chr18-61099164-4	chr18	61099049	61099249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6423.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	63.0	101.0	53.5	1254.5	163.5	80.0	109.0	53.5
Merged-chr4-132884479-4	chr4	132884382	132884582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133887)	promoter-TSS (NM_133887)	-24.0	NM_133887	100226.0	Mm.28237	NM_133887	ENSMUSG00000028879	Stx12	AI850350|AU041521|Stx13	syntaxin 12	protein-coding	50.5	34.5	34.5	511.0	83.5	31.0	36.0	60.0
Merged-chr16-38460299-4	chr16	38460180	38460380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359898, intron 1 of 5)	intron (NM_001359898, intron 1 of 5)	1347.0	NM_009855	12519.0	Mm.89474	NM_009855	ENSMUSG00000075122	Cd80	B71|Cd28l|Ly-53|Ly53|MIC17|TSA1	CD80 antigen	protein-coding	33.5	42.0	31.5	310.5	37.5	26.0	32.0	41.0
Merged-chr4-48124486-3	chr4	48124375	48124575	+	946.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026343)	promoter-TSS (NM_026343)	-444.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	8.0	21.5	17.5	166.0	17.0	7.5	10.5	6.0
Merged-chr3-38102672-4	chr3	38102554	38102754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105465.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	63.5	119.0	90.5	606.0	119.5	66.5	41.0	49.0
Merged-chr11-104382095-4	chr11	104381994	104382194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 3 of 14)	B1_Mur2|SINE|Alu	60197.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	42.0	64.5	19.0	492.0	93.0	36.0	25.5	31.5
Merged-chr10-82623062-8	chr10	82622908	82623108	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001135567, exon 1 of 3)	5' UTR (NM_001135567, exon 1 of 3)	220.0	NM_001135569	544717.0	Mm.334867	NM_001135567	ENSMUSG00000063320	1190007I07Rik	-	RIKEN cDNA 1190007I07 gene	protein-coding	28.0	50.0	55.0	515.0	81.0	40.0	39.5	37.0
Merged-chr2-145889431-4	chr2	145889299	145889499	+	948.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13842.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	11.0	14.5	8.5	183.0	50.0	12.0	26.5	19.0
Merged-chr9-22388725-2	chr9	22388625	22388825	+	903.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028390, intron 1 of 23)	intron (NM_028390, intron 1 of 23)	481.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	4.5	8.5	5.5	60.0	24.5	3.5	7.5	7.0
Merged-chr10-41883087-4	chr10	41883013	41883213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162908, intron 1 of 9)	intron (NM_001162908, intron 1 of 9)	-4326.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	44.5	84.0	58.5	610.0	169.5	34.0	31.5	20.0
Merged-chr12-81971158-6	chr12	81971008	81971208	+	995.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 19 of 35)	intron (NM_018814, intron 19 of 35)	111078.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	26.5	11.5	15.0	413.5	41.5	13.5	9.5	32.5
Merged-chr12-84846813-4	chr12	84846713	84846913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 3 of 34)	intron (NM_013589, intron 3 of 34)	-28989.0	NR_028577	100303738.0	Mm.479389	NR_028577	ENSMUSG00000092130	D030025P21Rik	-	RIKEN cDNA D030025P21 gene	ncRNA	32.5	81.0	63.0	562.0	79.5	28.0	30.5	22.0
Merged-chr8-34805140-6	chr8	34804914	34805114	+	969.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2596.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	10.0	12.0	15.0	57.5	23.0	7.0	3.5	21.0
Merged-chr10-81494812-4	chr10	81494737	81494937	+	866.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134009, intron 1 of 13)	intron (NM_134009, intron 1 of 13)	1526.0	NM_134009	103425.0	Mm.302791	NM_134009	ENSMUSG00000020238	Ncln	3100002P13Rik|AW120537	nicalin	protein-coding	14.0	34.0	8.5	155.5	25.0	11.0	9.0	9.0
Merged-chr10-7598346-3	chr10	7598254	7598454	+	824.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172784, intron 2 of 6)	L3b|LINE|CR1	8554.0	NM_001359743	237253.0	Mm.206759	NM_172784	ENSMUSG00000019796	Lrp11	1700034J19Rik|6330533B21|9830160H19Rik	low density lipoprotein receptor-related protein 11	protein-coding	9.0	13.0	10.0	149.5	10.0	7.0	11.5	9.0
Merged-chr2-30408570-3	chr2	30408462	30408662	+	910.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007760, intron 4 of 13)	intron (NM_007760, intron 4 of 13)	7186.0	NM_007760	12908.0	Mm.20396	NM_007760	ENSMUSG00000026853	Crat	AW107812|CARAT	carnitine acetyltransferase	protein-coding	7.0	13.0	4.0	70.0	22.0	8.0	11.5	9.5
Merged-chr11-120713811-4	chr11	120713696	120713896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016665)	promoter-TSS (NM_016665)	12.0	NM_001347611	20892.0	Mm.259716	NM_016665	ENSMUSG00000025144	Cenpx	Stra13	centromere protein X	protein-coding	196.0	282.5	183.5	2389.5	382.5	146.5	222.0	154.0
Merged-chr11-78710140-3	chr11	78710053	78710253	+	666.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12728.0	NM_008702	18099.0	Mm.9001	NM_008702	ENSMUSG00000017376	Nlk	AI194375	nemo like kinase	protein-coding	4.0	4.0	5.0	94.0	29.0	6.5	12.0	5.0
Merged-chr1-92215435-3	chr1	92215336	92215536	+	668.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35095.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	5.5	6.0	10.5	85.5	16.5	2.5	6.0	4.5
Merged-chr16-93042098-2	chr16	93041998	93042198	+	948.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-216024.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	3.0	4.0	3.5	54.5	8.0	4.5	4.5	12.0
Merged-chr13-97511034-5	chr13	97510952	97511152	+	983.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28351.0	NR_110431	100039691.0	Mm.219358	NR_110430	ENSMUSG00000078952	Lncenc1	Gm11019|Gm2373|Lincenc1|Platr18|linc-Enc1	long non-coding RNA, embryonic stem cells expressed 1	ncRNA	18.5	30.0	36.5	110.0	11.5	4.5	6.5	5.0
Merged-chr17-46266068-2	chr17	46265968	46266168	+	891.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252475, intron 1 of 8)	intron (NM_001252475, intron 1 of 8)	11903.0	NM_001111142	224813.0	Mm.70999	NM_001111142	ENSMUSG00000071073	Lrrc73	Gm88	leucine rich repeat containing 73	protein-coding	7.5	9.0	6.0	53.0	30.0	5.0	9.5	4.5
Merged-chr18-38422479-3	chr18	38422359	38422559	+	772.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	3552.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	3.0	2.0	3.0	38.0	13.5	6.0	5.0	6.0
Merged-chr8-4105843-2	chr8	4105734	4105934	+	662.583374	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_026956)	promoter-TSS (NM_026956)	-70.0	NM_026956	69142.0	Mm.171061	NM_026956	ENSMUSG00000051906	Cd209f	1810029C22Rik|AI647041|SIGNR8	CD209f antigen	protein-coding	12.0	14.0	11.0	118.5	3.0	4.0	2.0	3.0
Merged-chr5-81076577-4	chr5	81076491	81076691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 2 of 27)	intron (NM_198702, intron 2 of 27)	54998.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	23.0	22.5	21.5	521.5	39.0	3.0	21.0	8.5
Merged-chr11-58010406-4	chr11	58010344	58010544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028451, intron 1 of 18)	intron (NM_028451, intron 1 of 18)	1380.0	NM_028451	73158.0	Mm.248843	NM_028451	ENSMUSG00000037331	Larp1	1810024J12Rik|3110040D16Rik|Larp|mKIAA0731	La ribonucleoprotein domain family, member 1	protein-coding	83.5	98.0	61.0	1023.5	204.5	80.0	80.0	46.0
Merged-chr15-100041768-4	chr15	100041638	100041838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	3074.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	20.0	26.0	33.5	388.5	46.0	21.0	28.5	26.0
Merged-chr17-84187198-4	chr17	84187102	84187302	+	878.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001806, intron 1 of 1)	CpG	745.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	16.0	19.5	8.5	199.0	19.5	9.5	5.5	13.5
Merged-chr1-172481323-4	chr1	172481208	172481408	+	692.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145800)	promoter-TSS (NM_001145800)	-905.0	NM_001145800	93842.0	Mm.214530	NM_033608	ENSMUSG00000037995	Igsf9	644ETD8|Dasm1|Kiaa1355-hp|NRT1|Ncaml|mKIAA1355	immunoglobulin superfamily, member 9	protein-coding	4.5	13.0	10.5	123.5	28.5	5.0	12.0	12.5
Merged-chr17-63500545-4	chr17	63500477	63500677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015794)	promoter-TSS (NM_015794)	3.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	70.0	111.0	97.5	1725.5	152.5	60.5	73.5	53.5
Merged-chr7-100845621-4	chr7	100845524	100845724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177073)	TTS (NM_177073)	17789.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	106.0	161.5	122.5	1534.5	206.0	71.5	121.5	97.5
Merged-chr16-90283744-4	chr16	90283645	90283845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 1 of 19)	CpG	741.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	25.0	47.5	47.5	306.0	88.0	19.0	46.5	61.0
Merged-chr15-81011369-6	chr15	81011145	81011345	+	835.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_134091, exon 20 of 22)	exon (NM_134091, exon 20 of 22)	33480.0	NM_134091	105835.0	Mm.274943	NM_134091	ENSMUSG00000042303	Sgsm3	1810012I01Rik|AI428557|BB175482|Cip85|R75178|RUSC3|Rutbc3	small G protein signaling modulator 3	protein-coding	2.5	6.0	6.5	46.5	26.0	5.0	9.0	7.0
Merged-chr11-37079645-4	chr11	37079556	37079756	+	895.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-135415.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	12.5	31.0	13.5	271.0	32.0	11.5	3.0	6.5
Merged-chr1-40085962-4	chr1	40085861	40086061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037980)	promoter-TSS (NR_037980)	-110.0	NR_037980	100047133.0	Mm.447052	NR_037980	ENSMUSG00000097899	Gm16894	-	predicted gene, 16894	ncRNA	32.5	81.0	44.5	464.0	159.5	36.0	49.5	43.5
Merged-chr12-100110691-2	chr12	100110591	100110791	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1640.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	7.5	12.0	17.5	134.0	34.5	7.5	13.5	13.5
Merged-chr8-84976584-4	chr8	84976505	84976705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008416)	TTS (NM_008416)	2143.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	223.0	417.0	342.5	3026.0	618.0	284.0	276.5	296.5
Merged-chr15-98804313-4	chr15	98804250	98804450	+	816.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001013741, exon 2 of 2)	3' UTR (NM_001013741, exon 2 of 2)	3575.0	NM_001013741	13199.0	Mm.390810	NM_001013741	ENSMUSG00000059213	Ddn	Gm748	dendrin	protein-coding	11.0	16.0	4.5	59.0	23.5	8.0	15.0	8.0
Merged-chr8-4524630-4	chr8	4524508	4524708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026058, exon 11 of 11)	3' UTR (NM_026058, exon 11 of 11)	31203.0	NM_026058	67260.0	Mm.35511	NM_026058	ENSMUSG00000008206	Cers4	2900019C14Rik|Lass4|Trh1	ceramide synthase 4	protein-coding	45.0	23.5	48.0	607.0	46.0	18.0	24.5	37.5
Merged-chr18-61074818-4	chr18	61074734	61074934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008809, intron 14 of 22)	Charlie15b|DNA|hAT-Charlie	29684.0	NM_008809	18596.0	Mm.4146	NM_008809	ENSMUSG00000024620	Pdgfrb	AI528809|CD140b|PDGFR-1|Pdgfr	platelet derived growth factor receptor, beta polypeptide	protein-coding	59.0	83.0	34.5	304.0	380.0	147.0	127.0	103.0
Merged-chr14-29960382-4	chr14	29960275	29960475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A1-int|LTR|ERVL-MaLR	-8005.0	NM_019979	80795.0	Mm.104491	NM_019979	ENSMUSG00000042682	Selenok	1110001C03Rik|AA673253|HSPC030|Hsp30|Selk	selenoprotein K	protein-coding	45.0	60.0	41.5	368.5	116.0	46.5	46.0	63.0
Merged-chr14-66225785-3	chr14	66225725	66225925	+	847.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-12001.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	7.0	9.0	5.5	90.0	21.5	7.5	6.5	11.5
Merged-chr15-84996076-4	chr15	84995992	84996192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8121.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	35.0	62.5	58.0	623.0	161.0	53.0	48.5	49.5
Merged-chr9-40802254-3	chr9	40802153	40802353	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031165, intron 2 of 8)	intron (NM_031165, intron 2 of 8)	980.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	39.5	109.0	5.5	230.5	69.0	54.5	13.0	17.0
Merged-chr7-43313257-4	chr7	43313151	43313351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357811)	promoter-TSS (NM_001357811)	49.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	195.0	258.0	178.5	2458.0	386.0	166.0	173.0	124.5
Merged-chr12-52603881-4	chr12	52603778	52603978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	U6|snRNA|snRNA	-1556.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	37.0	58.0	58.5	315.0	135.5	69.5	60.0	79.5
Merged-chr1-191199241-3	chr1	191199125	191199325	+	939.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15892.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	9.0	19.0	17.5	178.5	19.0	4.5	8.0	7.0
Merged-chr10-81402324-1	chr10	81402224	81402424	+	1000.0	f0_balb.idr	intron (NM_026756, intron 8 of 8)	intron (NM_026756, intron 8 of 8)	-7251.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	25.0	14.0	36.5	526.0	39.5	12.5	20.5	29.5
Merged-chr19-12024351-4	chr19	12024240	12024440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12400.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	49.5	49.0	37.0	753.0	114.0	37.0	69.5	44.0
Merged-chr2-71866064-4	chr2	71865969	71866169	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 3 of 3).2	(T)n|Simple_repeat|Simple_repeat	-7155.0	NM_172665	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	40.5	60.0	51.0	871.0	73.5	14.5	22.5	25.0
Merged-chr1-185332123-4	chr1	185332037	185332237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011794)	promoter-TSS (NM_011794)	-22.0	NM_011794	23827.0	Mm.227549	NM_011794	ENSMUSG00000026617	Bpnt1	BPntase	bisphosphate 3'-nucleotidase 1	protein-coding	134.0	189.5	120.5	2085.5	380.0	130.0	155.0	143.5
Merged-chr17-26231233-4	chr17	26231123	26231323	+	968.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	13019.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	16.0	28.0	12.0	264.5	60.0	19.5	20.0	33.0
Merged-chr1-150015556-3	chr1	150015472	150015672	+	735.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-54282.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	6.0	13.0	4.0	29.5	20.5	10.5	6.5	8.0
Merged-chr6-108065786-2	chr6	108065686	108065886	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178391, intron 1 of 1)	intron (NM_178391, intron 1 of 1)	741.0	NM_178391	74729.0	Mm.56539	NM_178391	ENSMUSG00000034639	Setmar	5830404F24Rik|Etet2	SET domain without mariner transposase fusion	protein-coding	20.5	28.5	22.5	296.5	52.0	22.0	34.5	22.0
Merged-chr11-100841016-4	chr11	100840885	100841085	+	687.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 1 of 18)	intron (NM_001113563, intron 1 of 18)	9600.0	NM_001113563	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	4.0	6.5	2.0	64.0	22.5	4.5	6.0	15.5
Merged-chr1-175639980-3	chr1	175639880	175640080	+	785.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133809, intron 4 of 14)	intron (NM_133809, intron 4 of 14)	7787.0	NM_133809	98256.0	Mm.27217	NM_133809	ENSMUSG00000039783	Kmo	AI046660	kynurenine 3-monooxygenase (kynurenine 3-hydroxylase)	protein-coding	9.5	5.5	13.0	95.5	16.0	4.5	7.5	7.0
Merged-chr7-114254489-8	chr7	114254411	114254611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033370, intron 1 of 21)	CpG	169.0	NM_033370	70349.0	Mm.277024	NM_033370	ENSMUSG00000030754	Copb1	2610019B04Rik	coatomer protein complex, subunit beta 1	protein-coding	32.5	43.0	49.0	584.0	113.0	31.0	49.5	70.0
Merged-chr12-35799448-4	chr12	35799363	35799563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104345.0	NR_045050	71581.0	Mm.100110	NR_045050	ENSMUSG00000113985	9130015A21Rik	100043575|Gm4527	RIKEN cDNA 9130015A21 gene	ncRNA	51.5	119.0	147.5	962.0	90.5	39.0	40.5	38.0
Merged-chr4-108847911-4	chr4	108847870	108848070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029571, exon 1 of 1)	exon (NM_029571, exon 1 of 1)	113.0	NM_029571	100087.0	Mm.440007	NM_029571	ENSMUSG00000073775	Kti12	1110001A12Rik|AI326810|AU014758	KTI12 homolog, chromatin associated	protein-coding	27.0	32.5	61.0	344.0	54.5	28.5	26.0	14.5
Merged-chr13-59976135-2	chr13	59976060	59976260	+	905.875	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53551.0	NR_046142	328263.0	Mm.123405	NR_046142	ENSMUSG00000114531	A530065N20Rik	A530065N20	RIKEN cDNA A530046M15 gene	ncRNA	5.0	9.5	7.0	80.5	6.0	5.0	2.0	2.5
Merged-chr9-65202117-3	chr9	65202001	65202201	+	928.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12589.0	NM_177460	214424.0	Mm.31129	NM_177460	ENSMUSG00000032392	Parp16	ARTD15|BC055447|C79952|PARP-16	poly (ADP-ribose) polymerase family, member 16	protein-coding	14.0	15.5	7.0	133.0	17.5	10.0	9.5	5.5
Merged-chr17-47851073-2	chr17	47850973	47851173	+	960.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16382.0	NM_001109973	17240.0	Mm.329100	NM_010783	ENSMUSG00000032717	Mdfi	I-mf|I-mfa	MyoD family inhibitor	protein-coding	5.0	4.0	2.0	67.0	13.5	9.0	4.5	7.0
Merged-chr1-184235788-4	chr1	184235687	184235887	+	965.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	201406.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	20.0	23.0	13.0	87.5	47.0	10.0	15.5	10.0
Merged-chr4-120868985-3	chr4	120868882	120869082	+	764.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 1 of 7)	L2b|LINE|L2	14183.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	13.0	10.0	7.5	141.5	20.5	10.5	9.5	7.0
Merged-chr10-57714445-4	chr10	57714370	57714570	+	801.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	intron (NM_008863, intron 4 of 5)	63489.0	NM_001190402	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	3.0	18.0	6.0	115.5	15.0	8.0	12.5	5.0
Merged-chr1-95314909-4	chr1	95314817	95315017	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026321, intron 1 of 2)	intron (NM_026321, intron 1 of 2)	1289.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	15.5	32.5	29.0	501.0	50.0	17.0	26.5	18.5
Merged-chr9-37257753-4	chr9	37257652	37257852	+	939.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2014.0	NM_001145960	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	32.0	29.5	15.5	469.5	35.0	5.0	12.0	14.0
Merged-chr10-95298620-4	chr10	95298494	95298694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	25115.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	16.5	38.5	17.5	197.5	62.5	13.0	17.5	22.0
Merged-chr6-97487935-4	chr6	97487826	97488026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346637)	promoter-TSS (NM_001346637)	-106.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	87.0	114.0	101.5	1418.5	195.0	70.0	108.0	118.0
Merged-chr10-128821777-4	chr10	128821685	128821885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153109)	promoter-TSS (NR_153109)	21.0	NR_153109	66118.0	Mm.235562	NM_025364	ENSMUSG00000078427	Sarnp	1110005A23Rik|Cip29	SAP domain containing ribonucleoprotein	protein-coding	311.5	487.5	310.5	4443.0	733.0	316.5	325.5	319.0
Merged-chr6-137473124-4	chr6	137473039	137473239	+	927.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	46756.0	NM_001271589	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	14.0	24.5	28.0	403.0	29.5	11.0	19.0	24.5
Merged-chr17-35059788-4	chr17	35059688	35059888	+	913.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016765, intron 1 of 6)	intron (NM_016765, intron 1 of 6)	753.0	NM_016765	51793.0	Mm.1457	NM_016765	ENSMUSG00000007039	Ddah2	1110003M04Rik|AU019324|AW413173|DDAH-2|DDAHII|Ddah|G6a|NG30	dimethylarginine dimethylaminohydrolase 2	protein-coding	16.5	25.0	8.5	109.0	63.0	17.5	14.0	14.5
Merged-chr17-86677551-4	chr17	86677431	86677631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-76333.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	39.5	42.5	57.5	618.5	44.0	20.0	21.5	7.5
Merged-chr6-57756880-4	chr6	57756778	57756978	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 4 of 4)	intron (NM_146168, intron 4 of 4)	54423.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	13.0	6.0	17.5	283.0	33.0	4.0	14.0	16.0
Merged-chr16-95708836-4	chr16	95708747	95708947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 2 of 9)	intron (NM_011809, intron 2 of 9)	6440.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	133.0	211.0	177.5	1864.0	295.5	132.0	130.5	87.0
Merged-chr17-62784121-4	chr17	62783989	62784189	+	906.837524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010109, intron 1 of 3)	intron (NM_010109, intron 1 of 3)	97228.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	13.0	10.0	8.0	207.0	46.0	18.5	13.0	12.5
Merged-chr14-31669998-4	chr14	31669908	31670108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28951.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	41.0	68.0	54.5	621.5	116.5	40.5	39.0	31.5
Merged-chr2-133443634-4	chr2	133443522	133443722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-108537.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	55.0	54.0	64.0	780.5	70.0	28.5	32.0	23.0
Merged-chr6-148322772-4	chr6	148322681	148322881	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198967, intron 8 of 19)	intron (NM_198967, intron 8 of 19)	-31875.0	NR_003634	66184.0	Mm.391542	NM_025405	ENSMUSG00000063171	Rps4l	1110033J19Rik|AA407494|Rps4y2	ribosomal protein S4-like	pseudo	18.5	10.5	6.0	235.5	21.0	8.0	16.0	15.0
Merged-chr14-31402839-4	chr14	31402671	31402871	+	965.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	MTD|LTR|ERVL-MaLR	14906.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	26.0	18.0	23.0	328.5	47.5	17.0	17.0	18.0
Merged-chr1-178242336-4	chr1	178242237	178242437	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024282, intron 2 of 4)	B2_Mm2|SINE|B2	54920.0	NM_024282	78825.0	Mm.440132	NM_024282	ENSMUSG00000026502	Desi2	5830417C01Rik|DeSI-2|Fam152a|Pppde1	desumoylating isopeptidase 2	protein-coding	15.0	45.0	30.0	296.5	72.5	43.0	27.5	49.0
Merged-chr6-146675304-4	chr6	146675225	146675425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18107.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	197.5	331.0	270.5	3972.0	701.0	246.5	296.5	344.5
Merged-chr3-79629506-2	chr3	79629396	79629596	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_025794)	promoter-TSS (NM_025794)	417.0	NM_029482	75939.0	Mm.221520	NM_029482	ENSMUSG00000027811	4930579G24Rik	-	RIKEN cDNA 4930579G24 gene	protein-coding	23.0	30.5	21.5	226.0	51.0	14.0	27.5	25.0
Merged-chr10-77566899-4	chr10	77566825	77567025	+	810.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14730.0	NM_145925	108705.0	Mm.28853	NM_145925	ENSMUSG00000009291	Pttg1ip	1810010L20Rik|AI314311|AU018448|C79540|PBF	pituitary tumor-transforming 1 interacting protein	protein-coding	8.0	31.5	7.5	85.5	49.0	15.5	8.0	19.0
Merged-chr4-141538854-4	chr4	141538751	141538951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019763)	promoter-TSS (NM_019763)	-254.0	NM_019763	56381.0	Mm.299906	NM_019763	ENSMUSG00000040761	Spen	Mint|mKIAA0929	spen family transcription repressor	protein-coding	180.0	389.0	222.0	2720.0	576.5	208.5	288.5	202.5
Merged-chr10-35348930-3	chr10	35348824	35349024	+	947.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	865524.0	NM_010237	14302.0	Mm.332432	NM_010237	ENSMUSG00000019779	Frk	BSK|BSK/IYK|C85044|GTK|RAK	fyn-related kinase	protein-coding	5.5	10.0	13.0	192.5	18.5	4.0	10.0	4.5
Merged-chr6-112759084-4	chr6	112758982	112759182	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 11 of 21)	intron (NM_080448, intron 11 of 21)	-62412.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	20.0	25.5	18.5	341.0	41.0	11.0	16.0	24.5
Merged-chr5-145114763-4	chr5	145114673	145114873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023142, intron 1 of 9)	CpG	517.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	65.0	73.5	76.5	836.5	132.0	64.5	99.0	86.5
Merged-chr19-57611775-4	chr19	57611705	57611905	+	962.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181415, intron 1 of 28)	CpG	771.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	15.5	26.5	27.5	164.0	37.0	14.0	14.5	13.5
Merged-chr4-128839935-4	chr4	128839833	128840033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33821.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	66.5	103.0	58.5	1105.0	201.0	79.5	76.5	73.0
Merged-chr4-154142364-4	chr4	154142257	154142457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021499)	promoter-TSS (NM_021499)	-15.0	NM_021499	59002.0	Mm.46508	NM_021499	ENSMUSG00000029029	Wrap73	2610044M17Rik|5330425N03Rik|Dd57|Wdr8	WD repeat containing, antisense to Trp73	protein-coding	108.5	104.5	65.5	1306.0	246.5	102.0	110.5	85.5
Merged-chr5-72601254-4	chr5	72601163	72601363	+	935.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31_Mur|LTR|ERVK	-13713.0	NM_001024147	545758.0	Mm.332426	NM_001024147	ENSMUSG00000060204	Gm5868	EG545758	predicted gene 5868	protein-coding	19.0	35.5	22.5	318.0	44.5	12.0	11.5	22.5
Merged-chr4-34561170-2	chr4	34561070	34561270	+	665.416626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001007589, intron 1 of 4)	B3|SINE|B2	10555.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	7.5	1.0	5.5	44.5	18.0	5.0	19.0	7.0
Merged-chr13-40921486-4	chr13	40921397	40921597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133219, intron 1 of 2)	intron (NM_133219, intron 1 of 2)	3863.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	97.0	209.5	130.0	1994.0	258.0	96.5	117.0	101.5
Merged-chr17-23676765-4	chr17	23676650	23676850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013749, intron 1 of 3)	CpG	699.0	NM_001161746	27279.0	Mm.28518	NM_013749	ENSMUSG00000023905	Tnfrsf12a	AI255180|C87282|Fn14|HPIP|TWEAK-R|TweakR	tumor necrosis factor receptor superfamily, member 12a	protein-coding	17.5	30.0	8.0	163.0	52.0	17.0	11.0	12.0
Merged-chr14-103795805-3	chr14	103795692	103795892	+	849.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47909.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	13.5	11.5	11.5	196.0	22.5	7.5	7.0	2.0
Merged-chr4-53384949-4	chr4	53384833	53385033	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55480.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	55.5	100.0	69.0	713.0	115.5	50.0	46.0	52.0
Merged-chr19-47882697-4	chr19	47882596	47882796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030051, intron 7 of 8)	intron (NM_030051, intron 7 of 8)	16902.0	NM_026619	68214.0	Mm.63791	NM_026619	ENSMUSG00000025069	Gsto2	1700020F09Rik|4930425C18Rik|GSTO 2-2	glutathione S-transferase omega 2	protein-coding	33.0	39.5	20.0	462.0	98.0	35.0	65.5	27.5
Merged-chr13-46062941-4	chr13	46062846	46063046	+	884.854126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97955.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	14.5	9.0	11.5	155.0	22.5	7.0	13.0	15.0
Merged-chr1-37639320-4	chr1	37639209	37639409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028096, intron 2 of 9)	intron (NM_028096, intron 2 of 9)	80502.0	NM_028096	72097.0	Mm.142607	NM_028096	ENSMUSG00000026090	2010300C02Rik	-	RIKEN cDNA 2010300C02 gene	protein-coding	36.5	49.0	22.0	323.5	88.5	21.0	29.0	30.5
Merged-chr13-37620739-4	chr13	37620620	37620820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-205318.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	20.5	21.5	66.0	553.5	26.0	20.5	23.0	26.0
Merged-chr13-101879906-4	chr13	101879799	101879999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111682.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	66.5	101.5	135.0	818.5	165.5	97.0	105.0	87.0
Merged-chr5-105157777-2	chr5	105157677	105157877	+	648.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18191.0	NM_001359080	17472.0	Mm.440525	NM_008620	ENSMUSG00000079363	Gbp4	AW228052|Mag-2|Mpa-2|Mpa2	guanylate binding protein 4	protein-coding	5.0	4.5	10.5	61.0	11.0	3.0	2.0	1.5
Merged-chr17-69181421-4	chr17	69181322	69181522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	22066.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	188.0	337.0	203.5	3142.0	488.0	149.5	194.0	173.0
Merged-chr6-28487046-4	chr6	28486948	28487148	+	954.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 1 of 23)	intron (NM_019776, intron 1 of 23)	6700.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	13.5	21.0	13.5	150.5	61.0	20.0	7.5	20.5
Merged-chr14-118664433-4	chr14	118664324	118664524	+	901.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033336, intron 3 of 30)	MTC|LTR|ERVL-MaLR	12507.0	NM_001163675	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	5.0	6.5	13.5	185.0	26.0	2.5	14.5	11.0
Merged-chr16-32698762-4	chr16	32698649	32698849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25595.0	NM_001289443	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	35.5	66.0	47.5	820.0	66.5	21.0	39.5	34.0
Merged-chr2-145754144-4	chr2	145754043	145754243	+	930.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033220)	TTS (NR_033220)	-31973.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	15.0	20.0	32.0	255.0	30.5	17.5	16.5	11.5
Merged-chr3-14912184-3	chr3	14912091	14912291	+	855.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25903.0	NM_009801	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	10.0	7.5	28.5	378.5	24.5	1.5	7.5	14.0
Merged-chr8-90938622-4	chr8	90938520	90938720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 3 of 39)	intron (NM_177224, intron 3 of 39)	6371.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	49.5	99.5	81.0	1158.0	88.5	22.5	35.5	41.5
Merged-chr2-57331436-4	chr2	57331348	57331548	+	822.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 6 of 16)	RSINE1|SINE|B4	93066.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	15.5	11.0	11.5	209.5	24.5	7.0	14.0	10.0
Merged-chr8-82399160-3	chr8	82399015	82399215	+	802.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	3471.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	9.5	8.5	8.5	84.0	20.5	8.5	6.5	4.5
Merged-chr1-10039744-4	chr1	10039638	10039838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026493, intron 1 of 29)	GC_rich|Low_complexity|Low_complexity	1520.0	NM_026493	211660.0	Mm.244046	NM_026493	ENSMUSG00000056763	Cspp1	2310020J12Rik|4930413O22Rik|AA387550|BC055915|Cspp2|Cspp3	centrosome and spindle pole associated protein 1	protein-coding	114.5	134.5	94.0	1386.0	263.0	104.5	141.5	107.5
Merged-chr18-20741683-4	chr18	20741584	20741784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	intron (NM_019737, intron 1 of 8)	4720.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	59.5	124.5	80.0	1019.0	89.5	38.0	56.0	27.5
Merged-chr12-54791245-3	chr12	54791161	54791361	+	751.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026998, intron 2 of 13)	RMER17D|LTR|ERVK	4401.0	NM_026998	72183.0	Mm.28240	NM_026998	ENSMUSG00000005656	Snx6	2010006G21Rik|2610032J07Rik|2810425K19Rik|AU018928|C85963	sorting nexin 6	protein-coding	13.5	17.5	17.0	210.5	12.5	4.5	5.0	14.5
Merged-chr9-98958003-4	chr9	98957904	98958104	+	740.670837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_012020, exon 1 of 1)	3' UTR (NM_012020, exon 1 of 1)	2397.0	NM_012020	26927.0	Mm.151239	NM_012020	ENSMUSG00000050397	Foxl2	AU045128|BPES|PINTO|Pfrk	forkhead box L2	protein-coding	9.0	22.0	5.5	116.5	34.5	12.5	22.5	11.0
Merged-chr15-7863740-4	chr15	7863628	7863828	+	955.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48178.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	23.5	33.0	21.0	311.0	24.0	21.0	19.0	4.5
Merged-chr6-91679206-4	chr6	91679115	91679315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4852.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	50.0	120.0	61.0	1240.5	127.0	45.5	67.0	68.0
Merged-chr5-92083083-4	chr5	92082993	92083193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080797)	promoter-TSS (NM_001080797)	-176.0	NM_001080797	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	31.5	34.5	36.0	475.0	48.0	23.5	33.0	35.5
Merged-chr11-107318745-4	chr11	107318630	107318830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 4 of 9)	B1_Mur1|SINE|Alu	-129349.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	49.5	42.0	79.5	633.5	198.0	58.0	104.0	79.0
Merged-chr5-135616234-4	chr5	135616153	135616353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16401.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	20.0	39.0	18.0	379.0	52.5	14.0	19.5	28.5
Merged-chr3-84069523-3	chr3	84069427	84069627	+	994.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29366.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	21.0	36.0	17.5	162.0	47.0	8.0	8.5	10.0
Merged-chr2-18939066-3	chr2	18938971	18939171	+	900.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	intron (NM_008845, intron 1 of 9)	59050.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	14.5	15.0	12.5	228.0	10.0	6.5	2.0	10.0
Merged-chr6-33060349-4	chr6	33060236	33060436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025336)	promoter-TSS (NM_025336)	-76.0	NM_025336	66075.0	Mm.21501	NM_025336	ENSMUSG00000053768	Chchd3	0610041L09Rik|1700039J09Rik|AW558177	coiled-coil-helix-coiled-coil-helix domain containing 3	protein-coding	228.0	312.0	243.5	4198.5	515.5	200.5	274.5	239.0
Merged-chr1-58723829-1	chr1	58723729	58723929	+	880.3333130000001	f0_balb.idr	intron (NM_001355056, intron 1 of 8)	intron (NM_001355056, intron 1 of 8)	-6723.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	23.0	61.5	11.0	101.5	27.5	18.0	12.5	9.0
Merged-chr12-84189267-4	chr12	84189173	84189373	+	930.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 1 of 12)	intron (NM_001163501, intron 1 of 12)	4742.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	21.5	36.0	14.5	137.5	68.0	16.5	13.5	14.0
Merged-chr1-191906678-4	chr1	191906572	191906772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009579)	promoter-TSS (NM_009579)	-109.0	NM_009579	22782.0	Mm.9024	NM_009579	ENSMUSG00000037434	Slc30a1	AI839647|C130040I11Rik|Znt1	solute carrier family 30 (zinc transporter), member 1	protein-coding	168.5	253.0	199.5	2892.0	456.5	142.0	232.5	197.0
Merged-chr8-79501425-4	chr8	79501314	79501514	+	924.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101946.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	12.0	24.5	20.5	247.5	32.5	12.0	12.0	18.0
Merged-chr15-89075990-4	chr15	89075896	89076096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040417)	promoter-TSS (NR_040417)	-68.0	NM_026485	67976.0	Mm.284710	NM_026485	ENSMUSG00000015363	Trabd	5730502D15Rik|AL023039	TraB domain containing	protein-coding	135.5	210.5	103.0	1326.5	314.0	103.0	206.0	104.0
Merged-chr11-115496751-3	chr11	115496615	115496815	+	705.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008258)	TTS (NM_008258)	-4901.0	NM_015807	50773.0	Mm.390379	NM_015807	ENSMUSG00000020736	Nt5c	Dnt|Dnt1|Umph-2|Umph2	5',3'-nucleotidase, cytosolic	protein-coding	14.5	12.0	7.0	81.5	16.5	5.0	5.5	7.0
Merged-chr12-44265982-4	chr12	44265869	44266069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-3185.0	NM_026164	67452.0	Mm.54126	NM_026164	ENSMUSG00000036257	Pnpla8	1200006O19Rik|AI467579|Ipla2(gamma)	patatin-like phospholipase domain containing 8	protein-coding	54.0	67.0	62.0	904.0	167.0	46.0	65.5	42.0
Merged-chr3-154881746-2	chr3	154881627	154881827	+	820.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177066, intron 17 of 24)	ORR1D2|LTR|ERVL-MaLR	170594.0	NM_175176	209601.0	Mm.331454	NM_175176	ENSMUSG00000078161	Erich3	1700013E18Rik|4922501L14Rik|5031409G23Rik|AI596448|Gm133	glutamate rich 3	protein-coding	0.0	0.0	0.0	6.5	13.5	7.5	9.5	7.0
Merged-chr1-80716200-4	chr1	80716100	80716300	+	982.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	42353.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	24.0	22.5	29.0	385.0	53.5	19.5	8.5	13.5
Merged-chr11-54727566-4	chr11	54727473	54727673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 3 of 5)	intron (NM_178626, intron 3 of 5)	60130.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	38.0	42.0	17.5	282.5	92.0	29.0	39.0	21.0
Merged-chr13-59510153-4	chr13	59510064	59510264	+	906.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048008, intron 11 of 17)	intron (NM_001048008, intron 11 of 17)	34287.0	NM_001284221	67269.0	Mm.153008	NM_023328	ENSMUSG00000021557	Agtpbp1	1700020N17Rik|2310001G17Rik|2900054O13Rik|4930445M19Rik|5730402G09Rik|CCP1|Nna1|nmf243|pcd	ATP/GTP binding protein 1	protein-coding	13.0	9.5	4.0	192.0	41.0	16.5	13.0	13.5
Merged-chr2-116894786-4	chr2	116894684	116894884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5368.0	NR_040336	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	43.0	47.5	44.5	684.0	75.0	20.5	29.5	28.0
Merged-chr4-117254124-4	chr4	117254027	117254227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029589, intron 2 of 3)	intron (NM_029589, intron 2 of 3)	1787.0	NM_029589	68777.0	Mm.331805	NM_026837	ENSMUSG00000048772	Tmem53	1110038M16Rik|1500001P22Rik|1700012A05Rik	transmembrane protein 53	protein-coding	29.5	51.0	54.5	596.5	61.5	24.5	32.5	26.5
Merged-chr6-84061491-4	chr6	84061406	84061606	+	763.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 4 of 54)	intron (NM_001077694, intron 4 of 54)	42120.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	6.0	7.5	2.5	116.0	23.5	7.0	10.5	6.5
Merged-chr17-32040476-4	chr17	32040383	32040583	+	976.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028244, intron 1 of 15)	RSINE1|SINE|B4	4321.0	NM_028244	72462.0	Mm.102761	NM_028244	ENSMUSG00000058392	Rrp1b	2600005C20Rik|D030064A17|Kiaa0179|mKIAA0179	ribosomal RNA processing 1 homolog B (S. cerevisiae)	protein-coding	31.0	16.0	28.0	459.0	38.5	13.5	34.5	32.5
Merged-chr8-75076473-4	chr8	75076330	75076530	+	860.7583619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17188.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	9.5	4.5	9.5	76.5	23.0	8.5	9.5	13.0
Merged-chr2-73553588-4	chr2	73553485	73553685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24098.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	29.5	26.0	25.0	242.5	46.5	18.5	6.5	21.5
Merged-chr3-139205722-4	chr3	139205644	139205844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198659)	promoter-TSS (NM_198659)	-149.0	NM_198659	381476.0	Mm.188334	NM_198659	ENSMUSG00000047940	Stpg2	B930007M17Rik|Gm1017	sperm tail PG rich repeat containing 2	protein-coding	60.0	63.0	103.5	917.5	155.5	96.5	85.0	100.5
Merged-chr10-118857240-3	chr10	118857148	118857348	+	967.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11655.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	15.5	45.5	18.0	273.0	6.5	4.5	11.0	3.5
Merged-chr2-70871018-4	chr2	70870920	70871120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45540.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	51.0	52.5	45.5	609.0	114.0	32.0	60.5	55.0
Merged-chr14-64185585-3	chr14	64185488	64185688	+	815.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 4 of 4)	intron (NM_001253715, intron 4 of 4)	81265.0	NM_028525	73382.0	Mm.481055	NM_028525	ENSMUSG00000021966	Prss52	1700049K14Rik|Tesp3	protease, serine 52	protein-coding	12.0	7.5	6.0	137.0	14.5	5.0	4.0	13.0
Merged-chr3-130058647-4	chr3	130058569	130058769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207209, intron 1 of 23)	intron (NM_207209, intron 1 of 23)	2238.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	33.5	46.0	29.0	632.0	97.5	43.5	61.0	44.0
Merged-chr5-121215553-3	chr5	121215443	121215643	+	884.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4676.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	7.0	16.0	3.0	16.5	31.0	14.5	7.0	7.5
Merged-chr19-4120651-2	chr19	4120551	4120751	+	847.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016666, intron 2 of 6)	intron (NM_016666, intron 2 of 6)	924.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	0.5	3.5	5.0	52.5	18.0	6.0	7.0	9.5
Merged-chr13-81358965-2	chr13	81358865	81359065	+	777.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 83 of 89)	intron (NM_054053, intron 83 of 89)	274179.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	7.5	10.5	3.0	64.5	18.0	15.0	6.5	8.5
Merged-chr15-73422989-8	chr15	73422901	73423101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358046, intron 1 of 34)	CpG	190.0	NM_007982	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	25.5	33.0	21.5	201.0	59.0	15.5	21.5	22.0
Merged-chr6-125192153-4	chr6	125192062	125192262	+	998.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025595)	promoter-TSS (NM_025595)	-38.0	NM_025595	66493.0	Mm.138749	NM_025595	ENSMUSG00000030335	Mrpl51	2610511M02Rik|CDA09|HSPC241|Mrp64	mitochondrial ribosomal protein L51	protein-coding	23.0	36.5	12.0	378.5	80.0	18.5	21.5	32.5
Merged-chr3-90255097-4	chr3	90255036	90255236	+	948.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357152, intron 1 of 9)	intron (NM_001357152, intron 1 of 9)	1278.0	NM_001357152	74343.0	Mm.35627	NM_028881	ENSMUSG00000027936	Crtc2	4632407F12Rik|Torc2	CREB regulated transcription coactivator 2	protein-coding	5.0	36.5	8.0	112.5	52.5	17.0	13.0	21.0
Merged-chr12-28675375-4	chr12	28675297	28675497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134052, intron 1 of 3)	CpG	190.0	NM_134052	104923.0	Mm.291504	NM_134052	ENSMUSG00000020629	Adi1	AL024210|Fe-ARD|MTCBP-1|Ni-ARD	acireductone dioxygenase 1	protein-coding	21.5	37.0	46.5	616.0	119.0	30.0	46.0	49.0
Merged-chr2-116065763-2	chr2	116065666	116065866	+	683.75	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001159568)	promoter-TSS (NM_001159568)	-708.0	NM_010825	17536.0	Mm.247566	NM_010825	ENSMUSG00000027210	Meis2	A430109D20Rik|Mrg1|Stra10	Meis homeobox 2	protein-coding	4.5	12.0	6.0	126.5	25.5	10.0	7.5	9.5
Merged-chr4-155178469-4	chr4	155178357	155178557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	44078.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	32.5	38.5	41.0	685.5	116.0	38.0	67.0	62.5
Merged-chr4-32359352-3	chr4	32359259	32359459	+	989.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58076.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	20.5	22.5	16.5	414.5	17.0	3.0	7.0	6.5
Merged-chr4-139232627-4	chr4	139232522	139232722	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	38511.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	16.5	18.0	8.5	285.0	29.5	9.5	18.0	13.0
Merged-chr11-116844130-2	chr11	116844030	116844230	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033398)	promoter-TSS (NM_033398)	615.0	NM_028865	74319.0	Mm.429312	NM_028865	ENSMUSG00000090266	Mettl23	1110005A03Rik|1500035B17Rik|4933424L15Rik	methyltransferase like 23	protein-coding	7.5	19.0	3.0	83.0	14.0	4.5	6.0	8.5
Merged-chr9-100876150-4	chr9	100876061	100876261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 14 of 33)	intron (NM_009282, intron 14 of 33)	158723.0	NM_001311149	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	31.5	27.5	43.5	717.0	41.0	20.5	21.0	28.5
Merged-chr10-81016851-4	chr10	81016764	81016964	+	836.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1939.0	NM_010319	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	13.5	14.0	5.5	110.0	20.5	8.5	8.0	17.5
Merged-chr18-39490283-2	chr18	39490183	39490383	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3038.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	36.5	50.0	42.5	517.0	95.0	32.0	37.5	55.0
Merged-chr5-24030785-4	chr5	24030680	24030880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053090)	promoter-TSS (NM_053090)	-90.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	220.5	306.0	244.0	3562.0	533.0	194.5	229.5	180.5
Merged-chr4-88439872-4	chr4	88439783	88439983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025760)	promoter-TSS (NM_025760)	-957.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	110.0	212.0	165.5	2502.5	321.5	104.5	178.5	127.5
Merged-chr7-98656738-4	chr7	98656639	98656839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172280)	promoter-TSS (NM_172280)	-170.0	NM_172280	233545.0	Mm.387819	NM_172280	ENSMUSG00000035401	Emsy	2210018M11Rik|2310016L09Rik|AU019521|AU019557	EMSY, BRCA2-interacting transcriptional repressor	protein-coding	193.5	338.5	191.0	2401.5	384.5	190.0	162.0	196.5
Merged-chr19-41278721-3	chr19	41278619	41278819	+	934.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 16 of 16)	intron (NM_031376, intron 16 of 16)	-14715.0	NM_133352	107358.0	Mm.246440	NM_133352	ENSMUSG00000025016	Tm9sf3	1810073M23Rik|2810031D16Rik|AI115521|AI413748|AW146116|AW549777|Smbp|mKIAA4036	transmembrane 9 superfamily member 3	protein-coding	5.0	7.5	15.5	131.5	6.0	1.5	7.0	4.5
Merged-chr9-78358277-2	chr9	78358121	78358321	+	608.666626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	9978.0	NM_025274	434423.0	Mm.139314	NM_025274	ENSMUSG00000060461	Dppa5a	AA536857|Dppa5|Esg1|ecat2	developmental pluripotency associated 5A	protein-coding	5.0	5.5	1.0	103.5	10.0	5.5	5.0	5.5
Merged-chr17-26531757-4	chr17	26531629	26531829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23257.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	58.0	75.0	86.0	1163.5	148.0	26.0	68.0	63.5
Merged-chr6-98332896-4	chr6	98332772	98332972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128092, intron 2 of 3)	intron (NM_001128092, intron 2 of 3)	9882.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	57.0	117.0	76.0	1558.5	216.0	83.0	141.5	111.5
Merged-chr7-43607140-4	chr7	43607051	43607251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028913)	promoter-TSS (NM_028913)	-18.0	NM_001355131	74400.0	Mm.159188	NM_028913	ENSMUSG00000055102	Zfp819	4930427I11Rik|4933405K07Rik	zinc finger protein 819	protein-coding	46.5	89.5	27.0	472.5	142.0	42.0	62.5	25.0
Merged-chr1-9547991-4	chr1	9547880	9548080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175236)	promoter-TSS (NM_175236)	32.0	NM_001357376	76187.0	Mm.28514	NM_175236	ENSMUSG00000025911	Adhfe1	6330565B14Rik|AI043035|Adh8|HOT	alcohol dehydrogenase, iron containing, 1	protein-coding	121.0	186.5	112.0	1397.0	319.0	118.0	102.0	55.0
Merged-chr15-66813085-4	chr15	66812971	66813171	+	959.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	18758.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	18.5	13.5	7.5	164.5	47.0	6.0	24.0	20.5
Merged-chr1-57393077-3	chr1	57392986	57393186	+	924.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037742, intron 5 of 7)	intron (NM_001037742, intron 5 of 7)	-13462.0	NM_001081181	68115.0	Mm.275428	NM_001081181	ENSMUSG00000025971	Maip1	9430016H08Rik|AA409999|C78988	matrix AAA peptidase interacting protein 1	protein-coding	0.0	13.0	8.5	115.5	16.5	7.5	9.0	8.0
Merged-chr1-93444924-3	chr1	93444825	93445025	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133808, intron 1 of 27)	intron (NM_133808, intron 1 of 27)	776.0	NM_001301364	110611.0	Mm.30012	NM_133808	ENSMUSG00000034088	Hdlbp	1110005P14Rik|AA960365|AI118566|D1Ertd101e	high density lipoprotein (HDL) binding protein	protein-coding	42.5	66.5	32.0	807.0	128.0	46.5	63.0	55.5
Merged-chr16-78235917-4	chr16	78235814	78236014	+	997.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	19540.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	19.5	56.0	15.5	355.0	77.0	29.0	23.5	10.0
Merged-chr17-17837976-1	chr17	17837876	17838076	+	1000.0	f0_c57.idr	intron (NM_001162909, intron 6 of 8)	intron (NM_001162909, intron 6 of 8)	7001.0	NM_001162909	75202.0	Mm.227456	NM_029205	ENSMUSG00000080316	Spaca6	4930546H06Rik|9530079D04Rik|B230206P06Rik|Ncrna00085|SPACA6A|let-7e|mir-125a|mir-99b	sperm acrosome associated 6	protein-coding	87.5	207.5	82.5	1017.5	274.0	141.0	138.5	81.5
Merged-chr7-128089346-4	chr7	128089238	128089438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008401, intron 12 of 29)	L1M2|LINE|L1	26698.0	NM_008401	16409.0	Mm.262106	NM_008401	ENSMUSG00000030786	Itgam	CD11b/CD18|CR3|CR3A|Cd11b|F730045J24Rik|Ly-40|MAC1|Mac-1|Mac-1a	integrin alpha M	protein-coding	56.5	65.5	37.5	571.5	112.5	34.0	60.5	46.0
Merged-chr18-38159413-2	chr18	38159305	38159505	+	709.666626	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	50357.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	4.0	5.5	5.5	91.5	32.5	11.5	14.5	9.0
Merged-chr17-34657500-4	chr17	34657394	34657594	+	899.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10348.0	NM_017406	12915.0	Mm.4068	NM_017406	ENSMUSG00000015461	Atf6b	AA617266|ATF6beta|Creb-rp|Crebl1	activating transcription factor 6 beta	protein-coding	4.0	10.0	9.5	151.5	29.0	7.0	14.0	11.5
Merged-chr6-100272195-4	chr6	100272119	100272319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019743, intron 2 of 4)	intron (NM_019743, intron 2 of 4)	15139.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	20.0	56.5	41.0	866.5	98.0	25.0	47.0	54.0
Merged-chr5-121842864-4	chr5	121842763	121842963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6004.0	NM_008507	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	80.0	126.0	68.0	838.5	153.5	55.0	39.0	42.0
Merged-chr14-99045584-2	chr14	99045484	99045684	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175265)	promoter-TSS (NM_175265)	552.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	9.5	21.5	21.0	244.5	33.0	2.5	7.0	13.5
Merged-chr7-67951780-4	chr7	67951654	67951854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010513)	promoter-TSS (NM_010513)	-503.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	118.0	149.0	93.0	1530.0	185.5	60.0	96.5	71.5
Merged-chr19-43571182-4	chr19	43571102	43571302	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41123.0	NM_008699	18089.0	Mm.56994	NM_008699	ENSMUSG00000044220	Nkx2-3	Nkx-2.3|Nkx2.3|tinman	NK2 homeobox 3	protein-coding	26.5	35.0	22.5	383.0	101.5	15.5	46.5	27.0
Merged-chr9-25152761-4	chr9	25152669	25152869	+	732.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020586)	promoter-TSS (NM_020586)	-988.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	3.5	12.5	10.5	80.5	30.0	9.5	4.5	5.5
Merged-chr11-3504777-3	chr11	3504659	3504859	+	804.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172439)	promoter-TSS (NM_172439)	62.0	NM_172439	170835.0	Mm.24313	NM_172439	ENSMUSG00000034570	Inpp5j	Pib5pa|Pipp	inositol polyphosphate 5-phosphatase J	protein-coding	6.5	9.0	5.5	122.5	2.0	0.5	1.5	2.5
Merged-chr8-105500081-4	chr8	105499965	105500165	+	933.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-3163.0	NM_175160	70796.0	Mm.100917	NM_175160	ENSMUSG00000039199	Zdhhc1	4432412D04Rik|DHHC-1	zinc finger, DHHC domain containing 1	protein-coding	18.5	16.0	6.5	217.0	41.0	14.0	16.5	13.5
Merged-chr2-112284533-4	chr2	112284407	112284607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133648)	promoter-TSS (NM_133648)	-181.0	NM_133648	107723.0	Mm.491155	NM_133648	ENSMUSG00000027130	Slc12a6	9530023I19Rik|KCC3|gaxp	solute carrier family 12, member 6	protein-coding	17.5	31.0	25.5	378.0	51.0	18.5	29.0	25.0
Merged-chr5-65326846-4	chr5	65326731	65326931	+	685.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011258, intron 1 of 24)	intron (NM_011258, intron 1 of 24)	8808.0	NM_011258	19687.0	Mm.148877	NM_011258	ENSMUSG00000029191	Rfc1	140kDa|Alp145|RFC140|Recc1	replication factor C (activator 1) 1	protein-coding	6.5	17.0	7.0	72.5	23.0	7.0	3.5	12.0
Merged-chr14-79301599-4	chr14	79301512	79301712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025427)	promoter-TSS (NM_025427)	23.0	NM_025427	66214.0	Mm.29811	NM_025427	ENSMUSG00000022018	Rgcc	1190002H23Rik|Rgc-32|Rgc32	regulator of cell cycle	protein-coding	17.5	69.5	43.5	563.5	73.0	16.5	34.0	46.0
Merged-chr5-72204733-4	chr5	72204648	72204848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	1405.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	15.5	85.0	31.0	359.5	77.5	23.0	20.5	24.5
Merged-chr11-117824732-4	chr11	117824641	117824841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009387, exon 3 of 7)	exon (NM_009387, exon 3 of 7)	-1178.0	NM_027827	71562.0	Mm.273958	NM_027827	ENSMUSG00000017718	Afmid	9030621K19Rik|Ammd|FKF|KFA|Kf|formylase	arylformamidase	protein-coding	65.5	106.0	61.0	669.0	148.5	32.5	96.5	58.5
Merged-chr10-95514994-4	chr10	95514897	95515097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080560)	promoter-TSS (NM_080560)	-165.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	298.5	360.0	270.0	3818.5	490.5	238.0	232.5	237.5
Merged-chr13-81230332-4	chr13	81230234	81230434	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	intron (NM_054053, intron 85 of 89)	266260.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	34.0	35.5	57.0	919.0	32.5	18.5	21.5	15.5
Merged-chr5-24602216-3	chr5	24602139	24602339	+	850.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025891)	promoter-TSS (NM_025891)	-237.0	NM_025891	66993.0	Mm.436539	NM_025891	ENSMUSG00000028949	Smarcd3	1500001J14Rik|2210409C08Rik|BAF60C	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3	protein-coding	6.5	7.0	4.5	118.5	13.5	4.0	8.5	3.5
Merged-chr6-124966132-4	chr6	124966019	124966219	+	885.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164089)	promoter-TSS (NM_001164089)	-581.0	NM_001164089	26894.0	Mm.244536	NM_012003	ENSMUSG00000030127	Cops7a	D6Ertd35e|SGN7a	COP9 signalosome subunit 7A	protein-coding	14.5	11.0	4.0	51.0	25.5	6.0	18.5	20.0
Merged-chr12-32818361-4	chr12	32818255	32818455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-1980.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	24.0	37.0	36.0	285.0	52.5	31.0	23.5	39.0
Merged-chr1-45824625-4	chr1	45824544	45824744	+	840.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	29478.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	21.5	10.5	9.5	469.5	19.0	5.5	15.0	8.5
Merged-chr9-87027819-3	chr9	87027745	87027945	+	798.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359962, intron 2 of 14)	intron (NM_001359962, intron 2 of 14)	5816.0	NM_001359962	266690.0	Mm.30166	NM_024195	ENSMUSG00000032872	Cyb5r4	2810034J18Rik|B5+B5R|C79736|Cb5cb5r|Ncb5or|b5/b5r|b5b5r	cytochrome b5 reductase 4	protein-coding	5.5	8.5	6.0	88.5	17.0	3.5	9.5	6.5
Merged-chr1-139065425-4	chr1	139065323	139065523	+	957.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166501, intron 9 of 21)	intron (NM_001166501, intron 9 of 21)	87766.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	15.5	20.0	20.5	609.5	29.0	15.0	12.0	24.0
Merged-chr2-148500570-5	chr2	148500477	148500677	+	900.8466800000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57042.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	7.5	2.0	14.5	190.5	22.0	8.0	11.0	7.0
Merged-chr7-15948552-4	chr7	15948461	15948661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153068)	TTS (NM_153068)	-2453.0	NM_133831	68077.0	Mm.277634	NM_133831	ENSMUSG00000041560	Nop53	5330430H08Rik|9430097C02Rik|AU041936|AW536441|Gltscr2|PICT-1|R74911	NOP53 ribosome biogenesis factor	protein-coding	38.0	48.0	27.5	486.0	66.5	35.0	31.0	30.5
Merged-chr12-87147127-4	chr12	87147034	87147234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010363)	promoter-TSS (NM_010363)	-31.0	NM_001252555	14874.0	Mm.29652	NM_010363	ENSMUSG00000021033	Gstz1	MAAI	glutathione transferase zeta 1 (maleylacetoacetate isomerase)	protein-coding	35.0	36.0	19.5	460.5	84.5	24.5	44.5	53.0
Merged-chr19-16015868-4	chr19	16015791	16015991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30816.0	NR_045355	100502653.0	Mm.149980	NR_045355	ENSMUSG00000097557	C130060C02Rik	-	RIKEN cDNA C130060C02 gene	ncRNA	65.0	76.5	81.0	1121.5	158.0	51.5	71.0	44.5
Merged-chr10-81524443-4	chr10	81524277	81524477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010304)	promoter-TSS (NM_010304)	-152.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	100.0	106.0	117.0	1691.5	190.0	65.0	81.0	68.5
Merged-chr4-132474800-4	chr4	132474696	132474896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10875.0	NM_026039	67219.0	Mm.45929	NM_026039	ENSMUSG00000066042	Med18	2810046C01Rik	mediator complex subunit 18	protein-coding	62.5	41.0	38.0	702.5	70.5	28.5	47.5	39.0
Merged-chr19-9984708-13	chr19	9984558	9984758	+	884.8012699999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011913)	TTS (NM_011913)	2012.0	NM_010239	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	9.5	10.5	6.5	88.0	12.5	11.5	3.5	5.0
Merged-chr15-93298392-4	chr15	93298316	93298516	+	797.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024189, intron 2 of 3)	intron (NM_024189, intron 2 of 3)	-23237.0	NM_001346785	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	6.5	16.0	13.5	155.5	18.0	4.5	5.0	14.0
Merged-chr13-21172372-4	chr13	21172287	21172487	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Gln-CAG|tRNA|tRNA	-7544.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	16.0	48.5	11.0	188.0	51.5	19.0	21.0	22.5
Merged-chr6-32328243-3	chr6	32328047	32328247	+	779.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-182994.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	6.5	10.0	5.5	45.0	11.5	4.0	4.5	6.0
Merged-chr10-34112477-3	chr10	34112371	34112571	+	730.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	15501.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	5.5	8.0	10.0	173.5	9.5	2.5	4.0	4.5
Merged-chr19-34248783-4	chr19	34248680	34248880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007392, intron 3 of 8)	intron (NM_007392, intron 3 of 8)	6593.0	NM_007392	11475.0	Mm.213025	NM_007392	ENSMUSG00000035783	Acta2	0610041G09Rik|Actvs|SMAalpha|SMalphaA|a-SMA|alphaSMA	actin, alpha 2, smooth muscle, aorta	protein-coding	35.5	58.0	38.5	722.5	152.5	78.0	46.0	72.0
Merged-chr13-111933727-4	chr13	111933619	111933819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65783.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	53.0	77.0	60.0	1026.0	115.5	44.0	55.5	68.5
Merged-chr13-113920158-3	chr13	113920050	113920250	+	938.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	125642.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	0.0	3.0	4.0	182.0	36.0	7.5	20.0	18.0
Merged-chr8-119813187-4	chr8	119813089	119813289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 3 of 3)	intron (NM_028071, intron 3 of 3)	27390.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	225.5	296.5	275.5	3641.5	492.0	191.5	268.5	232.0
Merged-chr11-102430381-4	chr11	102430285	102430485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008175)	promoter-TSS (NM_008175)	63.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	206.0	318.5	128.0	2157.0	463.5	200.0	140.5	132.0
Merged-chr5-77267228-4	chr5	77267132	77267332	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011263, intron 1 of 3)	intron (NM_011263, intron 1 of 3)	1738.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	31.0	56.5	41.5	483.0	102.5	47.0	30.5	24.0
Merged-chr2-93976643-6	chr2	93976491	93976691	+	893.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3443.0	NR_045827	70852.0	Mm.437014	NR_045827	ENSMUSG00000027196	Alkbh3os1	4921507L20Rik	alkB homolog 3, opposite strand 1	ncRNA	8.0	12.0	13.0	144.5	19.0	8.0	8.5	11.5
Merged-chr9-63092148-4	chr9	63092095	63092295	+	903.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54785.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	24.0	10.5	13.5	178.5	33.0	11.0	15.0	13.5
Merged-chr9-78477392-3	chr9	78477322	78477522	+	894.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4302.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	9.0	16.5	6.0	101.5	20.5	3.5	4.0	4.5
Merged-chr11-63138918-4	chr11	63138827	63139027	+	797.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302255, intron 3 of 4)	intron (NM_001302255, intron 3 of 4)	6124.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	11.0	17.0	10.0	277.5	35.5	7.5	11.0	12.5
Merged-chr15-63611343-4	chr15	63611240	63611440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131732.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	23.0	50.5	38.5	743.0	84.0	29.5	30.5	41.5
Merged-chr9-53764900-3	chr9	53764803	53765003	+	686.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G3|LTR|ERVL-MaLR	-6632.0	NM_028060	72022.0	Mm.26159	NM_028060	ENSMUSG00000042195	Slc35f2	1500009K05Rik|AU019213	solute carrier family 35, member F2	protein-coding	10.0	4.0	3.5	204.0	22.0	8.5	5.0	8.0
Merged-chr7-111026666-3	chr7	111026561	111026761	+	669.472229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2290.0	NM_009431	22083.0	Mm.255858	NM_009431	ENSMUSG00000005609	Ctr9	AA409336|Sh2bp1|Tsbp|Tsp|mKIAA0155	CTR9 homolog, Paf1/RNA polymerase II complex component	protein-coding	3.0	10.0	6.5	39.0	19.5	6.5	6.5	16.0
Merged-chr7-91457402-3	chr7	91457305	91457505	+	958.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011807, intron 2 of 22)	intron (NM_011807, intron 2 of 22)	366619.0	NM_011807	23859.0	Mm.147213	NM_011807	ENSMUSG00000052572	Dlg2	A330103J02Rik|B230218P12Rik|B330007M19Rik|Dlgh2|Gm1197|Gm21505|PSD93	discs large MAGUK scaffold protein 2	protein-coding	20.5	21.0	12.5	253.0	19.0	9.5	10.0	3.0
Merged-chr6-116197729-2	chr6	116197629	116197829	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-4355.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	7.5	19.0	11.0	144.5	27.0	6.0	9.0	10.0
Merged-chr8-79028098-4	chr8	79027995	79028195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178267)	promoter-TSS (NM_178267)	-342.0	NM_001294279	622675.0	Mm.48724	NM_178267	ENSMUSG00000071064	Zfp827	2810449M09Rik|D630040G17Rik|Znf827	zinc finger protein 827	protein-coding	39.5	39.5	38.5	868.0	89.0	23.5	24.5	27.0
Merged-chr10-88795432-3	chr10	88795337	88795537	+	927.255554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175158, exon 22 of 62)	exon (NM_175158, exon 22 of 62)	31377.0	NM_175158	70683.0	Mm.29631	NM_175158	ENSMUSG00000004356	Utp20	3830408P06Rik|AA617408|Drim|mDRIM|mDRIN	UTP20 small subunit processome component	protein-coding	10.5	10.5	13.5	198.5	14.5	2.5	6.0	9.0
Merged-chr8-70585455-4	chr8	70585342	70585542	+	879.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 7 of 11)	intron (NM_007924, intron 7 of 11)	-9039.0	NM_023627	71780.0	Mm.29357	NM_023627	ENSMUSG00000019139	Isyna1	1300017C10Rik|AU018670	myo-inositol 1-phosphate synthase A1	protein-coding	11.5	9.5	9.5	158.0	47.5	11.5	14.0	15.0
Merged-chr1-55239409-3	chr1	55239324	55239524	+	909.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175439, exon 1 of 1)	3' UTR (NM_175439, exon 1 of 1)	2247.0	NM_175439	212679.0	Mm.19223	NM_175439	ENSMUSG00000046994	Mars2	C730026E21Rik|MetRS	methionine-tRNA synthetase 2 (mitochondrial)	protein-coding	8.5	7.0	8.0	104.0	33.0	3.0	10.0	7.0
Merged-chr5-135369962-4	chr5	135369859	135370059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145414)	promoter-TSS (NM_145414)	6.0	NM_145414	100609.0	Mm.281189	NM_145414	ENSMUSG00000000916	Nsun5	9830109N13Rik|AI326939|Nol1r|Wbscr20|Wbscr20a	NOL1/NOP2/Sun domain family, member 5	protein-coding	37.0	48.0	32.5	444.5	124.5	55.0	40.5	27.5
Merged-chr2-102161424-1	chr2	102161324	102161524	+	668.0	f0_balb.idr	intron (NM_178886, intron 1 of 5)	intron (NM_178886, intron 1 of 5)	25036.0	NM_178886	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	9.0	9.5	4.5	158.0	13.0	0.5	8.0	7.5
Merged-chr12-34779529-3	chr12	34779438	34779638	+	771.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	intron (NM_001271386, intron 3 of 27)	137557.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	3.5	8.0	5.5	174.0	17.5	6.5	6.0	10.0
Merged-chr12-111843060-6	chr12	111842926	111843126	+	907.2777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011625, intron 7 of 16)	intron (NM_011625, intron 7 of 16)	28856.0	NM_026752	68520.0	Mm.390497	NM_026752	ENSMUSG00000021286	Zfyve21	1110013H04Rik|AW558780|C85416	zinc finger, FYVE domain containing 21	protein-coding	6.0	15.5	13.5	56.0	22.5	2.5	6.0	13.5
Merged-chr19-42001801-4	chr19	42001717	42001917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	intron (NM_145500, intron 1 of 2)	20054.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	56.0	107.0	53.5	713.0	140.0	48.0	60.5	52.5
Merged-chr17-86964211-1	chr17	86964111	86964311	+	685.166687	f0_balb.idr	intron (NM_145491, intron 1 of 4)	intron (NM_145491, intron 1 of 4)	1100.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	12.5	16.0	14.0	95.0	21.5	7.5	7.0	5.0
Merged-chr8-43351163-4	chr8	43351062	43351262	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44153.0	NM_009556	22702.0	Mm.285848	NM_009556	ENSMUSG00000051176	Zfp42	Rex-1|Rex1|Zfp-42	zinc finger protein 42	protein-coding	11.0	8.0	7.0	318.5	41.5	9.5	15.5	21.0
Merged-chr6-8427834-4	chr6	8427667	8427867	+	990.892822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001302353, exon 5 of 5)	3' UTR (NM_001302353, exon 5 of 5)	81394.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	5.5	25.0	30.0	270.5	25.0	8.5	9.0	16.0
Merged-chr18-55238322-4	chr18	55238206	55238406	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-245715.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	19.0	18.5	21.5	268.5	22.0	18.0	27.0	15.5
Merged-chr17-78373399-4	chr17	78373312	78373512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 16 of 16)	intron (NM_015800, intron 16 of 16)	44740.0	NM_001285949	225020.0	Mm.236835	NM_199448	ENSMUSG00000056121	Fez2	9030616F16|D17Ertd315e	fasciculation and elongation protein zeta 2 (zygin II)	protein-coding	24.5	47.5	41.5	792.0	83.0	24.5	43.5	30.5
Merged-chr15-76350174-3	chr15	76350063	76350263	+	907.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025340, exon 2 of 9)	exon (NM_025340, exon 2 of 9)	947.0	NM_025340	106025.0	Mm.41463	NM_025340	ENSMUSG00000022552	Sharpin	0610041B22Rik|AW121341|RBCKL1|SIPL1|cpdm	SHANK-associated RH domain interacting protein	protein-coding	4.5	8.0	7.0	113.5	20.5	7.0	7.5	9.0
Merged-chr2-124671684-4	chr2	124671598	124671798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	18117.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	27.5	28.5	37.5	451.0	38.0	22.5	37.5	21.0
Merged-chr13-76633906-3	chr13	76633805	76634005	+	881.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 1 of 20)	intron (NM_030174, intron 1 of 20)	248944.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	2.0	2.0	4.0	29.5	39.0	6.5	24.5	14.0
Merged-chr19-33589762-4	chr19	33589672	33589872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013770, intron 1 of 10)	intron (NM_001013770, intron 1 of 10)	539.0	NM_001013770	381236.0	Mm.491242	NM_001013770	ENSMUSG00000024766	Lipo3	AI747699|Lipo1	lipase, member O3	protein-coding	18.0	53.5	47.0	353.5	47.5	25.5	27.0	24.0
Merged-chr8-104341420-4	chr8	104341315	104341515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024217, intron 1 of 4)	intron (NM_024217, intron 1 of 4)	821.0	NM_024217	68119.0	Mm.390108	NM_024217	ENSMUSG00000031875	Cmtm3	9430096L06Rik|AI413895|BNAS2|Cklfsf3	CKLF-like MARVEL transmembrane domain containing 3	protein-coding	97.5	100.5	127.0	1509.5	231.5	68.0	97.5	113.5
Merged-chr16-33921656-4	chr16	33921569	33921769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	45369.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	16.0	30.5	24.0	431.5	37.0	28.5	35.5	20.5
Merged-chr18-6516137-4	chr18	6515997	6516197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007935)	promoter-TSS (NM_007935)	11.0	NM_007935	13831.0	Mm.312133	NM_007935	ENSMUSG00000024240	Epc1	2400007E14Rik|5730566F07Rik|A930032N02Rik|mir-1893	enhancer of polycomb homolog 1	protein-coding	80.5	174.0	114.5	1309.0	274.0	80.5	121.5	122.5
Merged-chr2-32380271-3	chr2	32380147	32380347	+	725.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198001, intron 1 of 1)	intron (NM_198001, intron 1 of 1)	1668.0	NM_198001	73737.0	Mm.27608	NM_198001	ENSMUSG00000039195	1110008P14Rik	C79326	RIKEN cDNA 1110008P14 gene	protein-coding	6.0	5.0	5.0	151.0	19.0	2.0	10.5	12.5
Merged-chr3-130730379-4	chr3	130730278	130730478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026724)	promoter-TSS (NM_026724)	20.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	206.5	278.5	162.0	2411.5	608.0	218.0	291.0	257.0
Merged-chr7-145029811-4	chr7	145029723	145029923	+	899.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89898.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	11.0	13.0	12.5	200.0	36.0	13.0	7.5	17.0
Merged-chr2-93477703-3	chr2	93477597	93477797	+	863.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14747.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	8.0	6.5	11.0	70.5	17.0	3.0	9.0	3.5
Merged-chr7-128247660-4	chr7	128247575	128247775	+	831.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289553, intron 1 of 9)	intron (NM_001289553, intron 1 of 9)	863.0	NM_001289552	21804.0	Mm.3248	NM_009365	ENSMUSG00000030782	Tgfb1i1	ARA55|Hic5|TSC-5|hic-5	transforming growth factor beta 1 induced transcript 1	protein-coding	5.0	6.0	6.0	147.0	35.0	11.5	10.0	9.5
Merged-chr10-115328781-4	chr10	115328691	115328891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER70B|LTR|ERVL	-13200.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	41.0	42.5	38.5	617.0	110.5	32.5	51.0	42.0
Merged-chr11-70015374-4	chr11	70015270	70015470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017366)	promoter-TSS (NM_017366)	58.0	NM_017366	11370.0	Mm.18630	NM_017366	ENSMUSG00000018574	Acadvl	vlcad	acyl-Coenzyme A dehydrogenase, very long chain	protein-coding	23.5	44.5	21.0	283.5	57.0	27.5	30.5	18.5
Merged-chr7-98717659-3	chr7	98717561	98717761	+	758.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028410, exon 5 of 5)	3' UTR (NM_028410, exon 5 of 5)	14414.0	NM_028410	72981.0	Mm.4428	NM_028410	ENSMUSG00000030753	Thap12	2900052B10Rik|Dap4|Prkrir|Rpkrir	THAP domain containing 12	protein-coding	9.0	15.0	10.0	264.5	6.5	3.5	6.5	7.0
Merged-chr12-69733693-4	chr12	69733589	69733789	+	827.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361691, intron 1 of 4)	intron (NM_001361691, intron 1 of 4)	8744.0	NM_001361690	68055.0	Mm.27844	NM_026536	ENSMUSG00000054894	Atp5s	1110015E18Rik|ATPW	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit S	protein-coding	13.5	12.0	5.0	126.0	35.0	12.0	18.0	17.0
Merged-chr15-81856273-4	chr15	81856175	81856375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020507, intron 1 of 1)	CpG	2051.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	79.0	153.0	73.5	1060.0	234.5	80.5	150.0	94.0
Merged-chr1-93174583-4	chr1	93174459	93174659	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310428, intron 1 of 31)	intron (NM_001310428, intron 1 of 31)	6136.0	NM_001310428	381284.0	Mm.193346	NM_001310428	ENSMUSG00000084989	Crocc2	E030010N08Rik|Gm976	ciliary rootlet coiled-coil, rootletin family member 2	protein-coding	8.0	8.5	7.5	132.0	29.0	9.5	8.5	15.0
Merged-chr16-58017553-3	chr16	58017445	58017645	+	915.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-262808.0	NM_007739	12837.0	Mm.130388	NM_007739	ENSMUSG00000068196	Col8a1	Col8a-1	collagen, type VIII, alpha 1	protein-coding	24.5	30.5	26.0	543.5	2.0	0.0	1.0	0.0
Merged-chr18-80712545-4	chr18	80712439	80712639	+	849.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	CpG	532.0	NM_001164109	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	11.5	11.0	9.0	134.0	21.5	3.0	12.5	5.0
Merged-chr4-109670405-2	chr4	109670305	109670505	+	758.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3649.0	NM_001301368	12580.0	Mm.1912	NM_007671	ENSMUSG00000028551	Cdkn2c	C77269|INK4c|p18|p18-INK4c|p18-INK6|p18INK4c	cyclin dependent kinase inhibitor 2C	protein-coding	6.0	5.0	5.0	56.0	7.5	4.0	8.0	8.5
Merged-chr18-5945180-4	chr18	5945065	5945265	+	951.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	190933.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	78.5	98.0	74.0	1278.5	17.5	14.0	16.0	12.0
Merged-chr2-181334231-3	chr2	181334132	181334332	+	851.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001882, intron 8 of 33)	B3|SINE|B2	13426.0	NR_030710	269400.0	Mm.11333	NM_001001882	ENSMUSG00000038685	Rtel1	AI451565|AW540478|Rtel	regulator of telomere elongation helicase 1	protein-coding	3.0	15.5	5.5	73.5	25.0	10.5	12.0	8.5
Merged-chr11-96400925-4	chr11	96400821	96401021	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35163.0	NM_008266	15407.0	Mm.890	NM_008266	ENSMUSG00000018973	Hoxb1	Hox-2.9	homeobox B1	protein-coding	30.0	67.0	46.5	406.0	28.5	32.5	12.0	20.0
Merged-chr12-80853824-4	chr12	80853700	80853900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 3 of 6)	intron (NM_001242419, intron 3 of 6)	63268.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	53.5	88.5	57.5	754.5	145.5	48.5	59.0	55.0
Merged-chr4-88805974-3	chr4	88805884	88806084	+	735.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243155).3	promoter-TSS (NM_001243155).3	-42.0	NM_001243165	545647.0	Mm.380019	NM_001243165	ENSMUSG00000096582	Gm13289	-	predicted gene 13289	protein-coding	0.0	0.0	0.0	1.5	39.0	6.5	24.5	19.0
Merged-chr13-55754444-3	chr13	55754344	55754544	+	965.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028281, intron 2 of 3)	intron (NM_028281, intron 2 of 3)	27076.0	NM_028281	72562.0	Mm.28145	NM_028281	ENSMUSG00000021496	Pcbd2	2700061N24Rik|Dcoh2|Dcohm	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 2	protein-coding	12.0	18.5	9.0	210.0	8.0	6.5	2.0	13.5
Merged-chr10-88357166-4	chr10	88357058	88357258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027878)	promoter-TSS (NM_027878)	-83.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	149.0	241.0	162.0	2094.5	357.5	119.0	161.5	120.0
Merged-chr18-34196069-4	chr18	34195963	34196163	+	906.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24921.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	20.0	12.0	12.0	375.5	29.0	16.0	11.0	19.5
Merged-chr6-72402051-4	chr6	72401954	72402154	+	975.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-11387.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	31.0	37.0	25.5	380.5	57.5	18.5	27.0	13.0
Merged-chr15-99421360-4	chr15	99421228	99421428	+	944.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001001884)	TTS (NM_001001884)	28109.0	NM_001171035	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	26.0	38.5	12.5	242.0	37.5	20.5	14.0	18.0
Merged-chr16-10412125-4	chr16	10412041	10412241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011955, exon 2 of 11)	exon (NM_011955, exon 2 of 11)	203.0	NM_011955	26425.0	Mm.29037	NM_011955	ENSMUSG00000022503	Nubp1	-	nucleotide binding protein 1	protein-coding	66.5	129.0	95.0	1194.0	160.0	78.0	82.5	81.0
Merged-chr2-104888176-4	chr2	104888097	104888297	+	965.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177600, intron 1 of 17)	MIRb|SINE|MIR	1873.0	NM_177600	211936.0	Mm.416538	NM_177600	ENSMUSG00000045106	Ccdc73	2210415I11Rik|4931417A20|AV080665|BC095976	coiled-coil domain containing 73	protein-coding	21.5	21.0	28.5	346.5	32.0	13.5	16.0	8.0
Merged-chr5-64718997-4	chr5	64718888	64719088	+	875.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84535.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	9.0	8.5	19.5	433.5	32.0	15.5	13.5	12.0
Merged-chr11-100713905-4	chr11	100713837	100714037	+	863.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029307)	promoter-TSS (NM_029307)	87.0	NM_029307	75482.0	Mm.46175	NM_029307	ENSMUSG00000017832	Hspb9	1700007H20Rik	heat shock protein, alpha-crystallin-related, B9	protein-coding	14.0	9.0	8.0	184.0	15.5	9.0	7.5	14.0
Merged-chr2-33098023-3	chr2	33097947	33098147	+	861.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355201, intron 2 of 29)	intron (NM_001355201, intron 2 of 29)	-10794.0	NM_178888	99326.0	Mm.41290	NM_178888	ENSMUSG00000038860	Garnl3	AW120551	GTPase activating RANGAP domain-like 3	protein-coding	9.5	5.5	7.5	81.0	15.5	1.0	4.5	12.0
Merged-chr5-77245676-4	chr5	77245555	77245755	+	828.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19839.0	NM_011263	19712.0	Mm.28840	NM_011263	ENSMUSG00000029249	Rest	2610008J04Rik|AA407358|NRSF|REST4	RE1-silencing transcription factor	protein-coding	9.0	6.5	1.5	85.5	32.0	4.5	9.5	10.0
Merged-chr5-134531843-4	chr5	134531748	134531948	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 2 of 15)	intron (NM_001039162, intron 2 of 15)	20586.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	13.5	24.5	16.5	284.5	37.5	16.0	16.0	23.5
Merged-chr5-64382604-4	chr5	64382491	64382691	+	996.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85351.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	17.5	26.0	17.0	185.5	43.5	16.0	25.5	15.0
Merged-chr7-3720475-3	chr7	3720374	3720574	+	706.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011095)	promoter-TSS (NM_011095)	-92.0	NM_011095	18733.0	Mm.326531	NM_011095	ENSMUSG00000058818	Pirb	Gp91|LIR-3|Lilrb3|PIR-B	paired Ig-like receptor B	protein-coding	0.0	0.0	0.0	0.0	39.0	15.5	23.0	16.0
Merged-chr7-81235299-3	chr7	81235202	81235402	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008803, intron 1 of 21)	intron (NM_008803, intron 1 of 21)	21498.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	12.5	8.0	9.5	125.5	22.5	9.0	7.0	1.5
Merged-chr11-4803581-3	chr11	4803494	4803694	+	933.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010898, intron 7 of 15)	intron (NM_010898, intron 7 of 15)	29541.0	NM_001252253	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	4.5	1.5	9.0	130.0	15.0	10.5	8.5	9.0
Merged-chr11-121234107-3	chr11	121234027	121234227	+	869.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3109.0	NM_026272	67608.0	Mm.291832	NM_026272	ENSMUSG00000000056	Narf	4430402O11Rik	nuclear prelamin A recognition factor	protein-coding	3.0	9.0	5.5	76.0	15.5	5.5	5.5	6.0
Merged-chr2-32607846-4	chr2	32607749	32607949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025310, intron 1 of 5)	intron (NM_001025310, intron 1 of 5)	864.0	NR_110347	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	40.5	73.5	42.0	576.0	137.0	59.5	54.0	66.0
Merged-chr18-42792227-4	chr18	42792135	42792335	+	884.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028392, intron 1 of 8)	intron (NM_028392, intron 1 of 8)	107271.0	NR_073583	72930.0	Mm.26134	NM_027531	ENSMUSG00000024500	Ppp2r2b	2900026H06Rik|6330404L05Rik|E130009M08Rik|PP2A-PR55B|PR55-BETA|SCA12	protein phosphatase 2, regulatory subunit B, beta	protein-coding	23.5	27.0	20.5	535.5	25.5	11.5	27.0	15.0
Merged-chr11-118236724-4	chr11	118236612	118236812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	11880.0	NM_001112699	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	47.5	93.5	90.5	1117.5	161.5	47.0	106.0	87.5
Merged-chr10-53509318-4	chr10	53509213	53509413	+	996.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037973, intron 3 of 3)	intron (NR_037973, intron 3 of 3)	9676.0	NR_037973	100502868.0	Mm.297722	NR_037973	ENSMUSG00000112739	Gm20597	B230314j19	predicted gene, 20597	ncRNA	20.5	35.0	16.5	222.0	42.0	24.0	19.0	15.5
Merged-chr13-58534723-3	chr13	58534604	58534804	+	637.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76173.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	16.0	11.0	13.0	67.0	16.5	5.0	3.0	3.0
Merged-chr5-67394134-3	chr5	67394037	67394237	+	783.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164806, exon 5 of 5)	3' UTR (NM_001164806, exon 5 of 5)	33662.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	4.0	8.0	14.5	103.5	14.5	4.5	9.0	9.5
Merged-chr11-22809581-4	chr11	22809489	22809689	+	972.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50146.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	14.0	24.5	27.0	383.0	29.0	15.0	31.0	34.5
Merged-chr16-33886803-4	chr16	33886698	33886898	+	922.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 5 of 14)	intron (NM_001145884, intron 5 of 14)	57133.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	7.5	17.0	14.5	309.0	30.5	5.0	13.0	8.5
Merged-chr13-23709959-4	chr13	23709865	23710065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010424, intron 1 of 5)	MLTR14|LTR|ERV1	889.0	NM_001347493	15216.0	Mm.2681	NM_010424	ENSMUSG00000006611	Hfe	MR2	hemochromatosis	protein-coding	32.0	44.5	37.0	502.0	70.0	21.5	44.5	45.5
Merged-chr1-10268563-1	chr1	10268463	10268663	+	565.0	f0_balb.idr	Intergenic	Intergenic	-35893.0	NM_001102430	211673.0	Mm.229141	NM_001102430	ENSMUSG00000067851	Arfgef1	ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200	ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited)	protein-coding	4.5	9.0	7.0	102.0	16.0	5.5	5.5	4.0
Merged-chr11-94405465-3	chr11	94405369	94405569	+	957.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12493.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	26.0	11.5	38.5	382.0	19.5	4.0	12.5	8.0
Merged-chr16-85114881-3	chr16	85114780	85114980	+	951.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 2 of 15)	intron (NM_001198825, intron 2 of 15)	58827.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	10.0	15.0	15.0	371.5	22.0	6.5	6.0	12.5
Merged-chr8-25694854-4	chr8	25694766	25694966	+	901.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081269, intron 15 of 22)	intron (NM_001081269, intron 15 of 22)	-25182.0	NR_121642	71910.0	Mm.385055	NM_028000	ENSMUSG00000031570	Plpp5	1810019D05Rik|2310022A04Rik|AW045471|Ppapdc1|Ppapdc1b	phospholipid phosphatase 5	protein-coding	20.5	30.0	46.0	669.0	20.5	10.5	10.0	7.0
Merged-chr12-108170664-4	chr12	108170569	108170769	+	852.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028262, intron 1 of 12)	intron (NM_028262, intron 1 of 12)	8615.0	NM_028262	52690.0	Mm.159185	NM_028262	ENSMUSG00000056770	Setd3	2610102I01Rik|2610305M23Rik|6030490B17Rik|D12Ertd771e	SET domain containing 3	protein-coding	14.5	7.5	8.5	201.5	22.5	5.5	11.0	16.0
Merged-chr8-10145232-2	chr8	10145132	10145332	+	717.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8679.0	NM_001319151	244281.0	Mm.422761	NM_001081397	ENSMUSG00000039057	Myo16	BM140241|C230040D10Rik|Gm1105|NYAP3|mKIAA0865	myosin XVI	protein-coding	4.0	8.5	4.0	156.0	10.0	7.5	8.0	4.5
Merged-chr18-13787108-4	chr18	13786918	13787118	+	799.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360804, intron 5 of 7)	intron (NM_001360804, intron 5 of 7)	185715.0	NM_001360804	225207.0	Mm.40325	NM_145492	ENSMUSG00000024420	Zfp521	B930086A16Rik|Evi3|Znf521	zinc finger protein 521	protein-coding	14.0	5.0	13.5	105.5	15.5	5.0	7.0	2.0
Merged-chr16-11034587-4	chr16	11034487	11034687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25689.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	120.5	119.5	95.0	1466.5	178.0	83.0	94.5	80.0
Merged-chr8-14813512-4	chr8	14813421	14813621	+	930.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 9 of 15)	intron (NM_172910, intron 9 of 15)	-75015.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	15.0	21.0	18.5	508.0	33.0	14.0	19.5	14.0
Merged-chr17-45734121-4	chr17	45734045	45734245	+	878.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028164)	promoter-TSS (NM_028164)	-301.0	NM_028164	72240.0	Mm.482897	NM_028164	ENSMUSG00000094690	1600014C23Rik	-	RIKEN cDNA 1600014C23 gene	protein-coding	6.5	17.5	19.5	167.0	23.0	9.5	11.0	13.5
Merged-chr13-21167551-4	chr13	21167426	21167626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12405.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	10.5	13.5	6.5	224.5	38.0	5.0	14.0	13.0
Merged-chr11-17000577-4	chr11	17000457	17000657	+	926.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	8161.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	11.5	20.0	7.0	317.5	61.0	8.0	14.5	21.0
Merged-chr18-66468052-4	chr18	66467965	66468165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9461.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	130.0	215.5	155.5	2444.0	407.5	142.5	192.0	158.0
Merged-chr11-95514695-4	chr11	95514594	95514794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130858)	promoter-TSS (NM_130858)	-129.0	NM_130858	104079.0	Mm.22970	NM_130858	ENSMUSG00000046719	Nxph3	-	neurexophilin 3	protein-coding	37.0	40.0	13.0	402.5	55.5	22.5	24.5	24.0
Merged-chr9-90303357-4	chr9	90303246	90303446	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-32577.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	19.0	37.5	19.5	287.5	47.5	27.5	23.5	22.0
Merged-chr16-17405903-4	chr16	17405791	17405991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023348)	promoter-TSS (NM_023348)	-109.0	NM_023348	67474.0	Mm.271992	NM_023348	ENSMUSG00000022765	Snap29	1300018G05Rik|AI891940|AU020222|BB131856|Gs32	synaptosomal-associated protein 29	protein-coding	229.0	310.5	195.0	3202.5	614.0	251.0	282.5	241.0
Merged-chr14-36864254-4	chr14	36864137	36864337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55298.0	NM_001347503	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	77.5	126.5	85.5	1570.5	148.0	48.0	57.0	65.0
Merged-chr2-156201658-4	chr2	156201569	156201769	+	954.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 1 of 17)	B3|SINE|B2	5022.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	23.0	28.0	10.5	203.5	38.5	11.0	9.5	13.5
Merged-chr18-24652789-4	chr18	24652698	24652898	+	839.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026779)	promoter-TSS (NM_026779)	-893.0	NM_026779	68591.0	Mm.28252	NM_026779	ENSMUSG00000039616	Mocos	1110018O12Rik|HMCS|MCS|MOS	molybdenum cofactor sulfurase	protein-coding	9.5	18.5	5.5	70.5	24.0	8.0	11.0	12.5
Merged-chr1-188980273-2	chr1	188980192	188980392	+	647.75	f0_balb.idr|f0_c57.idr	intron (NR_153196, intron 13 of 17)	intron (NR_153196, intron 13 of 17)	27548.0	NM_001359577	226823.0	Mm.209880	NM_172650	ENSMUSG00000026608	Kctd3	4930438A20Rik|9330185B06|E330032J19Rik|NY-REN-45	potassium channel tetramerisation domain containing 3	protein-coding	5.0	11.0	5.5	107.0	22.5	13.5	12.0	7.5
Merged-chr7-24395065-3	chr7	24394877	24395077	+	903.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4651.0	NM_028047	71997.0	Mm.150977	NM_028047	ENSMUSG00000002210	Smg9	1500002O20Rik|AI429693|N28092	smg-9 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	0.5	0.0	6.0	25.5	12.0	6.0	5.5	4.5
Merged-chr4-55645102-4	chr4	55644992	55645192	+	956.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112617.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	8.5	27.5	23.5	338.0	28.5	10.0	29.5	34.0
Merged-chr11-120631351-4	chr11	120631266	120631466	+	975.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010756, intron 1 of 2)	intron (NM_010756, intron 1 of 2)	2181.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	29.0	35.5	21.5	309.0	47.5	23.0	13.0	13.0
Merged-chr10-82699105-4	chr10	82699001	82699201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081218)	promoter-TSS (NM_001081218)	94.0	NM_001081218	67933.0	Mm.127405	NM_026462	ENSMUSG00000020246	Hcfc2	1700129L13Rik|AU019838|fkls	host cell factor C2	protein-coding	70.0	129.0	79.0	1012.0	206.5	87.0	114.5	72.0
Merged-chr11-34776190-4	chr11	34776085	34776285	+	931.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	7720.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	13.5	38.0	18.5	205.5	51.0	21.5	30.0	13.0
Merged-chr13-114885360-3	chr13	114885256	114885456	+	983.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008396, intron 3 of 29)	intron (NM_008396, intron 3 of 29)	46744.0	NM_008396	16398.0	Mm.5007	NM_008396	ENSMUSG00000015533	Itga2	CD49B|DX5|GPIa	integrin alpha 2	protein-coding	16.5	19.5	34.0	420.0	17.5	5.5	9.5	10.0
Merged-chr5-113830463-4	chr5	113830365	113830565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009151)	promoter-TSS (NM_009151)	36.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	39.5	67.0	19.0	426.5	94.5	34.5	29.5	45.5
Merged-chr2-120362877-4	chr2	120362763	120362963	+	925.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173734, intron 17 of 19)	intron (NM_173734, intron 17 of 19)	-9726.0	NM_147153	269338.0	Mm.246131	NM_147153	ENSMUSG00000027291	Vps39	A230065P22Rik|AW743070|Vam6|Vam6P|mVam6	VPS39 HOPS complex subunit	protein-coding	16.0	4.5	7.5	223.5	33.0	4.5	12.0	9.5
Merged-chr5-33954589-4	chr5	33954485	33954685	+	860.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B|LTR|ERVK	-18327.0	NM_011914	24116.0	Mm.332320	NM_011914	ENSMUSG00000029111	Nelfa	Whsc2|Whsc2h	negative elongation factor complex member A, Whsc2	protein-coding	12.5	10.5	14.0	237.0	43.0	20.5	12.0	16.5
Merged-chr10-24643031-4	chr10	24642921	24643121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308329, intron 24 of 24)	intron (NM_001308329, intron 24 of 24)	47579.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	116.0	124.0	146.5	2197.0	223.0	62.5	91.5	65.0
Merged-chr6-8663138-3	chr6	8663026	8663226	+	778.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252266, intron 7 of 11)	intron (NM_001252266, intron 7 of 11)	95332.0	NM_001252266	15893.0	Mm.275683	NM_010492	ENSMUSG00000062995	Ica1	69kDa|ICA69	islet cell autoantigen 1	protein-coding	7.5	17.5	11.5	217.5	11.0	9.5	4.5	4.5
Merged-chr7-81523459-4	chr7	81523362	81523562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045299)	promoter-TSS (NR_045299)	-88.0	NR_045299	100504421.0	Mm.217071	NR_045299	ENSMUSG00000097277	2900076A07Rik	WI1-1616M8.2	RIKEN cDNA 2900076A07 gene	ncRNA	56.5	87.0	39.5	695.0	193.0	56.5	79.0	74.5
Merged-chr12-116281138-4	chr12	116281016	116281216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028731)	promoter-TSS (NM_028731)	-106.0	NM_028731	52635.0	Mm.273755	NM_028731	ENSMUSG00000021171	Esyt2	2410017M09Rik|4921504I16Rik|CHR2SYT|D12Ertd551e|Fam62b	extended synaptotagmin-like protein 2	protein-coding	209.0	265.0	222.5	3150.5	560.0	213.0	274.5	241.5
Merged-chr17-46302093-4	chr17	46301991	46302191	+	898.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286013, intron 5 of 5)	intron (NM_001286013, intron 5 of 5)	4163.0	NM_001286013	106565.0	Mm.23633	NM_134120	ENSMUSG00000047428	Dlk2	AI413481|DLK-2|Egfl9	delta like non-canonical Notch ligand 2	protein-coding	12.0	15.5	14.5	84.5	18.5	8.0	18.0	20.5
Merged-chr8-14823385-3	chr8	14823294	14823494	+	733.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 10 of 15)	intron (NM_172910, intron 10 of 15)	-65142.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	1.5	1.0	1.0	75.0	22.0	7.0	14.5	6.0
Merged-chr16-92423594-4	chr16	92423493	92423693	+	902.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-23515.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	9.5	17.5	9.5	221.5	32.0	8.0	18.0	10.0
Merged-chr2-142611342-4	chr2	142611241	142611441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR50|LTR|ERVL	290123.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	124.5	134.5	160.5	2880.0	283.5	105.5	176.5	99.5
Merged-chr17-37044869-4	chr17	37044818	37045018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20B|DNA|hAT-Charlie	-1048.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	28.5	53.5	37.5	605.0	94.5	28.5	39.0	36.5
Merged-chr1-162563433-4	chr1	162563345	162563545	+	987.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7070.0	NM_001356527	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	14.0	25.0	35.5	665.5	145.5	30.0	74.0	56.0
Merged-chr3-88237617-2	chr3	88237517	88237717	+	874.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17067.0	NM_021375	58176.0	Mm.103777	NM_021375	ENSMUSG00000104445	Rhbg	-	Rhesus blood group-associated B glycoprotein	protein-coding	3.0	5.0	1.5	17.0	12.0	7.0	4.5	5.0
Merged-chr6-17800936-4	chr6	17800836	17801036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	51766.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	52.5	67.0	50.5	782.5	129.0	62.5	76.0	62.0
Merged-chr1-185350528-2	chr1	185350426	185350626	+	799.0	f0_balb.idr|f1_balb.idr	intron (NM_001347210, intron 7 of 9)	intron (NM_001347210, intron 7 of 9)	-12518.0	NM_029735	107508.0	Mm.154511	NM_029735	ENSMUSG00000026615	Eprs	2410081F06Rik|3010002K18Rik|C79379|Qprs	glutamyl-prolyl-tRNA synthetase	protein-coding	8.0	4.5	8.0	147.5	3.0	0.0	0.0	1.0
Merged-chr10-18056102-3	chr10	18055997	18056197	+	891.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001111065, exon 1 of 19)	exon (NM_001111065, exon 1 of 19)	157.0	NM_001111065	19707.0	Mm.4479	NM_009048	ENSMUSG00000019854	Reps1	BB161292	RalBP1 associated Eps domain containing protein	protein-coding	11.0	11.0	18.0	229.0	20.5	16.5	7.5	16.0
Merged-chr8-41373932-4	chr8	41373842	41374042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019734, intron 1 of 13)	intron (NM_019734, intron 1 of 13)	755.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	36.5	56.0	57.0	1115.5	100.5	38.0	61.0	42.0
Merged-chr8-104219992-4	chr8	104219874	104220074	+	865.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001141922)	TTS (NM_001141922)	28584.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	6.0	27.0	5.0	185.0	41.0	8.5	17.0	14.0
Merged-chr5-146221040-4	chr5	146220929	146221129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256086)	promoter-TSS (NM_001256086)	-58.0	NM_001256086	74132.0	Mm.26696	NM_028774	ENSMUSG00000029634	Rnf6	1200013I08Rik|5730419H05Rik|AA537053	ring finger protein (C3H2C3 type) 6	protein-coding	103.0	160.0	72.0	1476.5	317.5	116.0	149.0	104.5
Merged-chr8-39006771-1	chr8	39006671	39006871	+	696.0	f0_balb.idr	intron (NM_001357305, intron 1 of 8)	intron (NM_001357305, intron 1 of 8)	926.0	NM_001357306	80286.0	Mm.272722	NM_030254	ENSMUSG00000039530	Tusc3	AU022242|BC003311|N33	tumor suppressor candidate 3	protein-coding	6.0	3.0	6.5	127.0	13.5	7.5	7.5	4.5
Merged-chr13-113605602-3	chr13	113605525	113605725	+	856.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	12939.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	11.5	28.5	6.5	56.0	3.5	5.5	4.0	2.5
Merged-chr11-29887431-2	chr11	29887331	29887531	+	682.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 5 of 41)	L1_Mus2|LINE|L1	-61763.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	10.0	4.5	7.0	36.5	13.5	4.5	2.0	3.0
Merged-chr13-94177338-2	chr13	94177238	94177438	+	594.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 3 of 3)	intron (NM_172589, intron 3 of 3)	107943.0	NM_029153	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	12.5	8.0	4.0	45.5	5.0	10.5	9.0	9.5
Merged-chr4-99937451-3	chr4	99937364	99937564	+	954.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028132, intron 1 of 10)	intron (NM_028132, intron 1 of 10)	8013.0	NM_028132	72157.0	Mm.217764	NM_028132	ENSMUSG00000025791	Pgm2	2610020G18Rik|AA407108|AI098105|Pgm-2|Pgm1	phosphoglucomutase 2	protein-coding	16.0	12.5	17.0	235.5	10.5	3.5	9.5	6.0
Merged-chr9-13581445-3	chr9	13581402	13581602	+	902.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-38487.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	9.0	9.0	5.0	139.5	9.0	4.0	4.5	3.0
Merged-chr3-95674381-4	chr3	95674290	95674490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13527.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	94.0	114.0	85.0	1121.5	196.0	76.5	127.5	85.0
Merged-chr4-129861571-3	chr4	129861449	129861649	+	924.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40841.0	NM_001164745	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	0.0	0.0	1.0	0.0	57.0	11.0	13.5	22.5
Merged-chr7-27342765-3	chr7	27342694	27342894	+	913.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138676, intron 16 of 17)	intron (NM_138676, intron 16 of 17)	-5182.0	NM_175641	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	4.0	3.0	0.0	16.5	45.0	32.0	21.5	17.0
Merged-chr2-172393624-4	chr2	172393533	172393733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276423)	promoter-TSS (NM_001276423)	-161.0	NM_001080820	320664.0	Mm.210195	NM_001033538	ENSMUSG00000074570	Cass4	F730031O20Rik	Cas scaffolding protein family member 4	protein-coding	94.0	157.5	103.5	1728.5	239.0	102.5	99.5	86.0
Merged-chr3-104794132-4	chr3	104794041	104794241	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008619)	TTS (NM_008619)	5107.0	NM_001291859	11853.0	Mm.262	NM_007484	ENSMUSG00000002233	Rhoc	AI324259|Arh9|Arhc	ras homolog family member C	protein-coding	39.5	71.0	44.5	450.0	69.0	35.0	26.5	19.0
Merged-chr17-63896060-4	chr17	63895967	63896167	+	941.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001286415, exon 2 of 18)	5' UTR (NM_001286415, exon 2 of 18)	18001.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	14.5	17.5	23.0	389.0	21.0	17.0	15.5	7.0
Merged-chr5-92093899-4	chr5	92093808	92094008	+	953.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-10164.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	16.0	14.0	9.0	231.5	41.5	9.5	10.0	19.5
Merged-chr19-43673787-4	chr19	43673697	43673897	+	791.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145156, intron 1 of 3)	intron (NM_145156, intron 1 of 3)	1084.0	NM_145156	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	7.5	5.0	8.5	141.0	30.5	4.5	6.5	10.5
Merged-chr12-111166126-4	chr12	111166007	111166207	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286122)	promoter-TSS (NM_001286122)	-263.0	NM_001286122	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	35.0	34.5	14.0	277.0	115.0	47.5	27.5	46.5
Merged-chr9-66601200-4	chr9	66601097	66601297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8082.0	NM_001302116	235441.0	Mm.32465	NM_144937	ENSMUSG00000032376	Usp3	AA409661|BC017156	ubiquitin specific peptidase 3	protein-coding	27.0	54.5	6.0	194.0	58.0	21.0	27.5	20.5
Merged-chr10-7045839-4	chr10	7045739	7045939	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-22654.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	28.5	29.0	24.0	77.5	28.0	15.0	14.0	0.5
Merged-chr10-14959612-3	chr10	14959520	14959720	+	983.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	199331.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	19.0	15.5	27.5	215.5	10.0	3.0	6.5	4.5
Merged-chr2-91696393-4	chr2	91696299	91696499	+	916.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355416, intron 1 of 17)	B4A|SINE|B4	14193.0	NM_145528	51897.0	Mm.28492	NM_145528	ENSMUSG00000027244	Atg13	1110053A20Rik|D2Ertd391e|Harbi1	autophagy related 13	protein-coding	31.0	35.0	13.5	249.5	33.5	9.0	17.0	12.5
Merged-chr3-95624904-4	chr3	95624842	95625042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019561)	promoter-TSS (NM_019561)	-38.0	NM_019561	56205.0	Mm.241365	NM_019561	ENSMUSG00000038619	Ensa	1700020C18Rik|2610007F17Rik|AI451924	endosulfine alpha	protein-coding	173.5	252.5	188.5	2435.5	435.0	188.0	183.5	129.0
Merged-chr6-33835423-4	chr6	33835316	33835516	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 12 of 17)	intron (NM_009148, intron 12 of 17)	-194032.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	14.5	39.0	37.0	895.5	114.5	30.0	59.5	55.5
Merged-chr9-103241896-4	chr9	103241858	103242058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11672.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	14.5	2.0	18.5	225.5	27.5	5.0	14.5	23.0
Merged-chr12-111933491-4	chr12	111933384	111933584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10998.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	51.5	57.5	43.0	606.5	103.5	54.0	48.0	42.5
Merged-chr8-40995071-4	chr8	40994983	40995183	+	915.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 12 of 13)	G-rich|Low_complexity|Low_complexity	-22385.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	18.0	15.5	15.0	237.5	23.5	12.0	10.0	19.5
Merged-chr11-107469122-4	chr11	107469083	107469283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	CpG	1537.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	108.5	106.0	152.0	1587.5	317.0	101.0	162.5	103.0
Merged-chr18-70568930-4	chr18	70568822	70569022	+	961.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001311071, exon 1 of 3)	exon (NM_001311071, exon 1 of 3)	630.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	25.0	26.0	24.0	221.0	39.0	21.5	25.5	16.5
Merged-chr15-75894428-4	chr15	75894347	75894547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172607)	promoter-TSS (NM_172607)	34.0	NM_172607	223646.0	Mm.288368	NM_172607	ENSMUSG00000022574	Naprt	9130210N20Rik|Naprt1	nicotinate phosphoribosyltransferase	protein-coding	27.5	40.5	20.0	281.0	57.5	12.5	16.0	17.5
Merged-chr1-166379136-4	chr1	166379048	166379248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030245)	promoter-TSS (NM_030245)	-19.0	NM_030245	27878.0	Mm.100665	NM_030245	ENSMUSG00000026563	Tada1	2900026B15Rik|D1Ertd251e|Staf42|Tada1l	transcriptional adaptor 1	protein-coding	207.5	314.5	206.0	2421.0	511.5	190.0	199.5	154.0
Merged-chr2-103655828-4	chr2	103655710	103655910	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	89500.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	20.5	33.0	21.5	420.5	32.5	6.5	18.0	12.5
Merged-chr5-117888293-4	chr5	117888198	117888398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	intron (NM_008712, intron 2 of 27)	21459.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	121.5	188.0	206.5	1955.5	225.5	110.0	133.0	66.5
Merged-chr1-164248156-4	chr1	164248041	164248241	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054087)	promoter-TSS (NM_054087)	-905.0	NM_001276455	116914.0	Mm.35444	NM_054087	ENSMUSG00000040918	Slc19a2	AV276020|AW322295|DDA1|THTR1|TRMA|ThTr-1	solute carrier family 19 (thiamine transporter), member 2	protein-coding	8.5	15.0	17.5	140.0	28.0	8.0	17.0	7.0
Merged-chr6-42349120-4	chr6	42349024	42349224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011777)	promoter-TSS (NM_011777)	-704.0	NM_001289619	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	48.5	52.5	56.0	652.5	170.0	52.0	71.0	48.0
Merged-chr8-104099179-4	chr8	104099069	104099269	+	872.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131138, intron 1 of 2)	B3|SINE|B2	-2456.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	5.0	7.0	12.5	145.5	56.0	8.0	13.0	9.0
Merged-chr2-27758544-4	chr2	27758472	27758672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 9 of 9)	intron (NM_001290481, intron 9 of 9)	47989.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	57.0	42.0	66.0	1412.0	106.0	35.5	55.5	43.0
Merged-chr9-47653501-2	chr9	47653424	47653624	+	611.0	f0_balb.idr|f1_balb.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	123172.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	8.5	18.0	9.5	78.0	3.5	0.5	0.0	0.0
Merged-chr2-5714613-7	chr2	5714551	5714751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177343, exon 1 of 11)	5' UTR (NM_177343, exon 1 of 11)	111.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	33.0	66.0	55.5	494.0	62.5	24.0	39.5	42.0
Merged-chr19-3377120-4	chr19	3377000	3377200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 14 of 18)	intron (NM_013495, intron 14 of 18)	-11757.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	117.0	151.0	90.0	1726.0	188.5	109.5	84.5	98.5
Merged-chr3-108047138-4	chr3	108047044	108047244	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2285.0	NM_001160411	14865.0	Mm.31203	NM_026764	ENSMUSG00000027890	Gstm4	1110004G14Rik|GSTM7-7|Gstb-4|Gstb4	glutathione S-transferase, mu 4	protein-coding	21.0	33.0	3.0	104.0	31.5	18.0	10.0	27.0
Merged-chr19-12464346-4	chr19	12464260	12464460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010821, exon 2 of 2)	3' UTR (NM_010821, exon 2 of 2)	3581.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	54.0	100.5	96.0	1217.5	153.5	56.5	57.5	46.5
Merged-chr19-9943238-7	chr19	9943207	9943407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37293.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	20.0	43.0	30.0	424.0	74.5	21.5	22.0	37.5
Merged-chr10-120140417-4	chr10	120140320	120140520	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27455.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	17.0	17.0	13.0	225.0	42.0	12.5	29.0	12.0
Merged-chr11-119909637-3	chr11	119909528	119909728	+	828.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 2)	LTR41B|LTR|ERVL	-4182.0	NM_001085498	208092.0	Mm.306673	NM_001085498	ENSMUSG00000025371	Chmp6	2400004G01Rik	charged multivesicular body protein 6	protein-coding	6.5	10.5	6.5	52.0	28.0	7.0	4.5	13.0
Merged-chr19-10979361-4	chr19	10979302	10979502	+	923.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034898, intron 6 of 6)	intron (NM_001034898, intron 6 of 6)	-4732.0	NM_023529	69826.0	Mm.273404	NM_023529	ENSMUSG00000024731	Ms4a10	2010001N17Rik	membrane-spanning 4-domains, subfamily A, member 10	protein-coding	20.0	22.5	12.0	133.0	39.0	13.0	5.5	22.0
Merged-chr16-44833344-3	chr16	44833230	44833430	+	870.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207244, exon 4 of 6)	exon (NM_207244, exon 4 of 6)	12602.0	NM_207244	239849.0	Mm.445045	NM_207244	ENSMUSG00000062082	Cd200r4	F630107N04Rik|MCD200RLa	CD200 receptor 4	protein-coding	4.0	4.0	5.0	46.0	39.5	9.0	6.5	12.0
Merged-chr16-91415743-7	chr16	91415633	91415833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008349, intron 4 of 6)	intron (NM_008349, intron 4 of 6)	9498.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	34.5	75.5	32.5	407.5	138.5	59.5	54.0	79.0
Merged-chr15-53414998-4	chr15	53414878	53415078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-68795.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	129.0	134.0	123.5	2212.0	269.0	97.0	143.0	107.5
Merged-chr16-92301226-4	chr16	92301130	92301330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138743)	promoter-TSS (NM_138743)	-73.0	NM_138743	68936.0	Mm.21698	NM_138743	ENSMUSG00000051989	Smim11	1190017O12Rik|C21orf51|Fam165b|Smim11a	small integral membrane protein 11	protein-coding	67.5	82.0	37.0	747.5	178.5	51.5	56.5	61.5
Merged-chr1-45894380-3	chr1	45894300	45894500	+	993.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31194.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	15.0	24.0	34.0	373.5	17.5	4.5	9.5	17.5
Merged-chr9-106236285-3	chr9	106236193	106236393	+	914.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020559, intron 9 of 10)	intron (NM_020559, intron 9 of 10)	11437.0	NM_001291835	11655.0	Mm.290578	NM_020559	ENSMUSG00000032786	Alas1	ALAS|ALAS-N|Alas-1|Alas-h	aminolevulinic acid synthase 1	protein-coding	8.5	10.5	11.5	275.0	18.5	3.0	1.5	2.0
Merged-chr6-84017610-4	chr6	84017540	84017740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077694, intron 1 of 54)	intron (NM_001077694, intron 1 of 54)	-1746.0	NM_001310152	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	44.5	53.5	40.5	818.5	89.0	25.5	60.5	40.0
Merged-chr11-5100055-4	chr11	5099962	5100162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001283063)	promoter-TSS (NM_001283063)	-103.0	NM_001290493	279766.0	Mm.260866	NM_177370	ENSMUSG00000034175	Rhbdd3	Ptag	rhomboid domain containing 3	protein-coding	37.0	41.5	15.5	353.0	59.0	34.5	32.5	29.0
Merged-chr2-103761294-4	chr2	103761186	103761386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153126)	promoter-TSS (NM_153126)	-16.0	NM_153126	98956.0	Mm.288005	NM_153126	ENSMUSG00000027185	Nat10	AI429152	N-acetyltransferase 10	protein-coding	169.5	250.5	155.0	2456.5	474.5	175.5	190.0	220.5
Merged-chr5-122089084-4	chr5	122088991	122089191	+	896.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11860.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	21.0	16.0	7.5	168.5	25.5	11.5	17.0	10.5
Merged-chr11-100814704-4	chr11	100814600	100814800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113563, intron 1 of 18)	intron (NM_001113563, intron 1 of 18)	7870.0	NM_011489	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	36.5	69.5	40.0	677.0	119.5	32.0	35.0	57.5
Merged-chr7-49000994-4	chr7	49000882	49001082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	41909.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	63.0	99.0	102.0	1468.5	194.0	44.0	87.5	78.0
Merged-chr3-116450907-4	chr3	116450798	116450998	+	733.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26866.0	NM_001173553	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	5.0	10.0	16.5	100.5	20.0	7.5	26.0	9.0
Merged-chr14-52195840-3	chr14	52195728	52195928	+	811.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033618, intron 1 of 25)	B3|SINE|B2	1411.0	NM_033618	114741.0	Mm.21662	NM_033618	ENSMUSG00000035726	Supt16	Cdc68|Fact140|Spt16|Supt16h	suppressor of Ty 16	protein-coding	7.0	10.5	3.0	113.0	27.5	9.0	5.5	5.5
Merged-chr5-110815645-4	chr5	110815527	110815727	+	945.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-5546.0	NM_001347394	22241.0	Mm.271898	NM_009469	ENSMUSG00000029512	Ulk1	AU041434|Unc51.1|mKIAA0722	unc-51 like kinase 1	protein-coding	17.5	22.0	15.0	275.5	49.0	20.0	16.0	12.0
Merged-chr12-99550876-2	chr12	99550776	99550976	+	817.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12965.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	7.5	4.5	7.5	50.5	20.5	2.5	7.5	8.0
Merged-chr7-16880874-3	chr7	16880766	16880966	+	815.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081655, intron 1 of 3)	intron (NM_001081655, intron 1 of 3)	5549.0	NM_001081655	629378.0	Mm.491123	NM_001081655	ENSMUSG00000078794	Dact3	EG666671|naa-3	dishevelled-binding antagonist of beta-catenin 3	protein-coding	8.5	14.5	9.0	80.5	21.0	4.5	19.0	6.0
Merged-chr8-25609205-4	chr8	25609112	25609312	+	947.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001735, intron 1 of 9)	intron (NM_001001735, intron 1 of 9)	6928.0	NM_001308482	234135.0	Mm.217337	NM_001001735	ENSMUSG00000054823	Nsd3	6720429E03|A530023P05|AI528490|WHISTLE|Whsc1l1	nuclear receptor binding SET domain protein 3	protein-coding	10.5	20.0	4.0	217.0	70.0	13.5	19.0	14.0
Merged-chr9-108936683-4	chr9	108936577	108936777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025407)	promoter-TSS (NM_025407)	29.0	NM_025407	22273.0	Mm.335460	NM_025407	ENSMUSG00000025651	Uqcrc1	1110032G10Rik	ubiquinol-cytochrome c reductase core protein 1	protein-coding	66.0	87.0	33.0	719.0	177.5	43.5	72.0	48.0
Merged-chr15-77846459-4	chr15	77846363	77846563	+	926.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-4288.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	17.0	21.0	6.0	138.5	36.0	28.5	3.5	19.0
Merged-chr9-15029226-3	chr9	15029141	15029341	+	695.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019482, intron 1 of 4)	intron (NM_019482, intron 1 of 4)	16237.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	6.0	5.5	7.5	62.5	24.0	7.0	6.5	10.5
Merged-chr13-41709664-2	chr13	41709564	41709764	+	617.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103448.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	3.0	2.0	5.0	78.0	12.0	5.0	5.5	7.0
Merged-chr11-31732443-3	chr11	31732318	31732518	+	964.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60556.0	NM_001024919	69556.0	Mm.34183	NM_001024919	ENSMUSG00000044502	Bod1	2310022M17Rik|BOD2.1|Fam44b	biorientation of chromosomes in cell division 1	protein-coding	1.5	1.5	0.5	54.0	41.0	14.0	17.5	22.0
Merged-chr10-122604239-4	chr10	122604137	122604337	+	919.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34346.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	2.5	8.0	8.5	189.0	21.0	20.0	21.0	10.0
Merged-chr6-49073860-4	chr6	49073794	49073994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029353)	promoter-TSS (NM_029353)	99.0	NM_029353	75593.0	Mm.439947	NM_029353	ENSMUSG00000029815	Malsu1	2410003K15Rik|Matsu1	mitochondrial assembly of ribosomal large subunit 1	protein-coding	73.5	116.5	155.0	1384.0	147.0	66.0	79.5	105.0
Merged-chr13-42073461-4	chr13	42073339	42073539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 2 of 8)	intron (NM_007772, intron 2 of 8)	21418.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	61.5	87.0	66.5	966.5	174.5	58.5	72.5	57.0
Merged-chr6-128760178-4	chr6	128760052	128760252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	28489.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	34.5	57.5	22.0	297.0	98.5	35.0	52.5	56.5
Merged-chr10-127737183-4	chr10	127737078	127737278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2360.0	NM_198035	320080.0	Mm.27258	NM_198035	ENSMUSG00000044617	Zbtb39	7030401O21Rik|mKIAA0352	zinc finger and BTB domain containing 39	protein-coding	78.0	135.5	88.0	995.5	192.5	55.5	73.5	99.5
Merged-chr5-122054658-4	chr5	122054558	122054758	+	998.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-4807.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	20.0	35.0	16.5	430.5	73.0	16.5	25.0	30.5
Merged-chr19-29498104-4	chr19	29497996	29498196	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	23891.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	27.5	21.0	19.0	342.0	39.0	19.0	26.0	22.0
Merged-chr6-48840489-4	chr6	48840372	48840572	+	982.857178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023056, exon 1 of 7)	5' UTR (NM_023056, exon 1 of 7)	516.0	NM_023056	65963.0	Mm.28385	NM_023056	ENSMUSG00000029810	Tmem176b	1810009M01Rik|Clast1|Lr8	transmembrane protein 176B	protein-coding	10.5	5.5	15.0	145.0	15.0	7.5	11.0	10.0
Merged-chr7-114020853-4	chr7	114020750	114020950	+	922.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145584, intron 7 of 15)	intron (NM_145584, intron 7 of 15)	96931.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	4.0	26.0	15.0	250.5	23.5	14.5	8.5	21.0
Merged-chr8-94171593-6	chr8	94171464	94171664	+	913.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1054.0	NM_008630	17750.0	Mm.147226	NM_008630	ENSMUSG00000031762	Mt2	AA409533|MT-II|Mt-2	metallothionein 2	protein-coding	13.0	18.5	2.5	62.0	16.0	7.0	6.5	9.0
Merged-chr6-135184003-4	chr6	135183899	135184099	+	951.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	-4481.0	NR_040296	100502888.0	Mm.437844	NR_040296	ENSMUSG00000108239	Gm19434	-	predicted gene, 19434	ncRNA	8.0	19.0	9.0	153.0	276.0	84.0	103.5	74.5
Merged-chr7-64391628-2	chr7	64391528	64391728	+	924.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355124)	promoter-TSS (NM_001355124)	608.0	NM_026483	67973.0	Mm.26973	NM_026483	ENSMUSG00000030521	Mphosph10	2810453H10Rik|5730405D16Rik|AI326008	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	protein-coding	9.5	6.5	1.5	62.5	16.0	10.0	10.0	12.0
Merged-chr17-63499117-3	chr17	63498975	63499175	+	898.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_015794, exon 1 of 9)	exon (NM_015794, exon 1 of 9)	1505.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	5.0	7.5	18.5	119.5	22.5	4.0	6.5	22.5
Merged-chr10-127340098-3	chr10	127339987	127340187	+	710.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010296, intron 2 of 12)	intron (NM_010296, intron 2 of 12)	1492.0	NM_010296	14632.0	Mm.391450	NM_010296	ENSMUSG00000025407	Gli1	AV235269|Zfp-5|Zfp5	GLI-Kruppel family member GLI1	protein-coding	2.5	14.0	6.5	145.5	9.5	6.0	11.0	5.0
Merged-chr16-35938947-4	chr16	35938856	35939056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013371)	promoter-TSS (NM_001013371)	71.0	NM_001013371	209200.0	Mm.390852	NM_001013371	ENSMUSG00000049502	Dtx3l	AU042200|BC023741	deltex 3-like, E3 ubiquitin ligase	protein-coding	34.0	45.5	22.0	452.5	90.0	17.5	40.5	30.5
Merged-chr1-170939470-4	chr1	170939389	170939589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11906.0	NM_001160215	98752.0	Mm.1850	NM_145141	ENSMUSG00000038421	Fcrla	BB219290|FCRL|FCRL1|FREB|Fcrlm1|Fcrx|Freb1|mFREB|mFcrX	Fc receptor-like A	protein-coding	82.0	84.0	77.0	1312.0	160.0	54.5	59.0	71.5
Merged-chr2-155404837-4	chr2	155404730	155404930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242558, intron 9 of 12)	MIRb|SINE|MIR	22974.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	69.0	139.5	87.5	1217.5	178.5	73.5	82.0	67.5
Merged-chr1-87555216-4	chr1	87555090	87555290	+	993.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111314, intron 1 of 14)	MTE2a|LTR|ERVL-MaLR	18680.0	NM_001111314	53972.0	Mm.435439	NM_019867	ENSMUSG00000026259	Ngef	Tims2|ephexin	neuronal guanine nucleotide exchange factor	protein-coding	29.0	35.5	32.0	478.0	96.0	14.0	43.5	33.0
Merged-chr16-85134390-4	chr16	85134292	85134492	+	860.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	39315.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	10.5	19.5	8.5	133.5	30.0	12.0	7.5	13.0
Merged-chr3-27449609-4	chr3	27449494	27449694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 23 of 26)	intron (NM_001356953, intron 23 of 26)	78243.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	56.5	96.0	81.0	1653.0	92.0	23.5	55.0	41.0
Merged-chr4-16196839-4	chr4	16196739	16196939	+	920.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 2 of 6)	intron (NR_045765, intron 2 of 6)	32729.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	14.0	16.0	10.5	302.5	54.5	10.5	39.0	16.0
Merged-chr1-180725984-4	chr1	180725894	180726094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133225)	promoter-TSS (NM_133225)	-49.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	67.0	119.5	66.5	1220.0	183.0	80.5	104.5	78.0
Merged-chr1-36922270-4	chr1	36922184	36922384	+	965.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	intron (NM_018872, intron 1 of 40)	17243.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	28.0	37.5	11.0	258.5	44.0	12.5	17.0	18.0
Merged-chr5-140332274-4	chr5	140332169	140332369	+	859.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026510)	promoter-TSS (NM_026510)	313.0	NM_001356584	17766.0	Mm.118846	NM_008637	ENSMUSG00000036639	Nudt1	Mth1	nudix (nucleoside diphosphate linked moiety X)-type motif 1	protein-coding	9.5	28.5	7.0	162.0	28.0	10.0	9.0	4.5
Merged-chr1-78709333-1	chr1	78709233	78709433	+	794.75	f0_balb.idr	Intergenic	Intergenic	50893.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	7.5	13.0	17.0	136.0	3.5	3.0	2.5	3.5
Merged-chr14-75006091-4	chr14	75005988	75006188	+	874.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030568, intron 3 of 3)	intron (NR_030568, intron 3 of 3)	-9939.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	11.0	17.0	18.0	485.0	28.0	7.0	17.5	10.0
Merged-chr7-128739722-4	chr7	128739631	128739831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145955, intron 1 of 15)	intron (NM_145955, intron 1 of 15)	698.0	NM_145955	210711.0	Mm.58882	NM_145955	ENSMUSG00000048170	Mcmbp	1110007A13Rik|AU017382|BC025641|MCM-BP	minichromosome maintenance complex binding protein	protein-coding	47.0	76.5	40.0	691.5	81.5	34.0	47.0	22.0
Merged-chr8-109693369-4	chr8	109693275	109693475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028018)	promoter-TSS (NM_028018)	-81.0	NM_001361562	71955.0	Mm.290036	NM_028018	ENSMUSG00000031729	Ist1	2400003C14Rik|AW536298|mKIAA0174	increased sodium tolerance 1 homolog (yeast)	protein-coding	143.5	207.5	121.0	1936.0	390.0	157.5	171.0	161.5
Merged-chr2-70978486-4	chr2	70978392	70978592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 5 of 9)	intron (NM_145524, intron 5 of 9)	39882.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	123.0	184.5	141.5	1894.5	317.5	134.0	146.5	158.0
Merged-chr10-68204064-3	chr10	68203975	68204175	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 3 of 9)	intron (NM_023598, intron 3 of 9)	74651.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	24.0	41.0	26.0	718.5	4.0	4.5	7.0	6.0
Merged-chr8-103970180-3	chr8	103970094	103970294	+	968.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131431.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	15.5	17.5	36.5	408.5	20.0	5.5	11.0	11.5
Merged-chr2-75776745-3	chr2	75776642	75776842	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55435.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	15.5	7.0	9.0	117.0	24.0	19.0	15.0	9.5
Merged-chr7-48882493-4	chr7	48882454	48882654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360812)	promoter-TSS (NM_001360812)	-958.0	NM_001360812	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	63.0	85.5	127.5	1542.0	175.0	51.0	79.0	82.5
Merged-chr15-100423106-4	chr15	100423009	100423209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356952)	promoter-TSS (NM_001356952)	-54.0	NM_008732	18174.0	Mm.234608	NM_008732	ENSMUSG00000023030	Slc11a2	DCT1|DMT1|Nramp2|mk|van	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 2	protein-coding	159.0	226.0	113.0	1605.0	466.0	165.0	162.0	134.0
Merged-chr16-11461723-4	chr16	11461618	11461818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 13 of 20)	intron (NM_028964, intron 13 of 20)	56070.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	112.5	152.0	72.5	1664.0	250.0	100.5	92.5	97.0
Merged-chr10-75217984-1	chr10	75217884	75218084	+	595.0	f0_balb.idr	intron (NM_001145826, intron 1 of 18)	ORR1B1|LTR|ERVL-MaLR	5594.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	4.0	9.0	4.0	106.0	30.0	6.5	6.0	10.5
Merged-chr2-158413453-4	chr2	158413351	158413551	+	932.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291137, intron 1 of 30)	intron (NM_001291137, intron 1 of 30)	3598.0	NM_001291138	228850.0	Mm.398185	NM_177227	ENSMUSG00000027652	Ralgapb	AI507211|B230339M05Rik|p170	Ral GTPase activating protein, beta subunit (non-catalytic)	protein-coding	12.0	21.5	10.5	295.0	25.0	14.0	17.0	28.5
Merged-chr7-80123852-3	chr7	80123739	80123939	+	799.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8489.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	9.5	12.0	6.5	104.5	18.0	8.0	5.5	4.5
Merged-chr7-114079493-4	chr7	114079362	114079562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	38319.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	35.0	37.5	45.0	600.5	64.5	26.5	44.5	41.0
Merged-chr6-47621203-4	chr6	47621097	47621297	+	970.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26167.0	NM_007971	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	17.0	54.0	23.5	498.5	38.5	21.5	15.0	36.5
Merged-chr18-76933503-4	chr18	76933391	76933591	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025409, intron 1 of 2)	LTR10_RN|LTR|ERVK	3464.0	NM_025409	66191.0	Mm.28593	NM_025409	ENSMUSG00000090000	Ier3ip1	1110057H19Rik|AI644142|AL022842|AL022863|AV026606	immediate early response 3 interacting protein 1	protein-coding	17.5	36.0	22.5	488.0	51.0	18.0	30.5	21.0
Merged-chr12-40788970-4	chr12	40788873	40789073	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 31 of 52)	intron (NM_172803, intron 31 of 52)	-235117.0	NM_053122	93757.0	Mm.363813	NM_053122	ENSMUSG00000056899	Immp2l	AI853880|IMP2|Tg(HLA-A/H2-D)2Enge	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	protein-coding	32.5	25.0	35.5	681.0	85.5	20.5	31.0	20.0
Merged-chr16-21636346-4	chr16	21636254	21636454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	intron (NM_001081366, intron 45 of 46)	58311.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	50.0	88.5	66.5	1056.5	135.0	48.5	84.0	38.0
Merged-chr6-148539033-4	chr6	148538917	148539117	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75292.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	46.5	28.0	32.5	751.5	67.0	21.5	38.5	17.5
Merged-chr18-9958054-4	chr18	9957958	9958158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153552)	promoter-TSS (NM_153552)	-122.0	NM_153552	225160.0	Mm.219648	NM_153552	ENSMUSG00000024287	Thoc1	3110002N20Rik|AW107452|NMP-84	THO complex 1	protein-coding	79.0	149.5	118.0	1390.5	172.5	81.0	97.5	99.0
Merged-chr14-74904624-3	chr14	74904540	74904740	+	766.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 1 of 19)	intron (NM_001033439, intron 1 of 19)	43237.0	NM_001252132	380916.0	Mm.288868	NM_001033439	ENSMUSG00000068015	Lrch1	4832412D13Rik|AI552548|AW215503|Chdc1|mKIAA1016	leucine-rich repeats and calponin homology (CH) domain containing 1	protein-coding	7.0	5.5	11.5	84.0	23.0	2.0	6.5	10.5
Merged-chr17-47395643-5	chr17	47395504	47395704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008189, exon 2 of 4)	exon (NM_008189, exon 2 of 4)	5002.0	NM_008189	14913.0	Mm.16224	NM_008189	ENSMUSG00000023982	Guca1a	GC-A|Gcap1|Guca1|mGCAP1	guanylate cyclase activator 1a (retina)	protein-coding	26.0	27.0	14.5	208.0	115.5	53.5	49.5	65.5
Merged-chr19-10845640-4	chr19	10845543	10845743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023044, intron 1 of 7)	intron (NM_023044, intron 1 of 7)	3099.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	39.5	102.5	57.0	644.5	213.5	58.5	84.5	86.0
Merged-chr8-105374812-4	chr8	105374735	105374935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081333)	promoter-TSS (NM_001081333)	-546.0	NM_001081333	102075.0	Mm.32034	NM_175321	ENSMUSG00000014782	Plekhg4	4931414L13Rik|AI448583|mFLJ00068	pleckstrin homology domain containing, family G (with RhoGef domain) member 4	protein-coding	36.0	65.5	37.5	474.5	100.0	35.5	56.5	55.0
Merged-chr18-14682982-5	chr18	14682898	14683098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161369)	promoter-TSS (NM_001161369)	-84.0	NM_001161371	268996.0	Mm.31761	NM_009280	ENSMUSG00000037013	Ss18	D130059H17|Ssxt|Syt	SS18, nBAF chromatin remodeling complex subunit	protein-coding	109.5	148.0	199.5	1539.0	228.5	110.5	99.0	131.0
Merged-chr10-125371623-4	chr10	125371509	125371709	+	917.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42646.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	6.0	11.0	10.5	268.0	21.0	14.0	17.0	4.5
Merged-chr4-133615687-3	chr4	133615580	133615780	+	921.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 2 of 7)	intron (NM_001017968, intron 2 of 7)	-13512.0	NM_018754	55948.0	Mm.44482	NM_018754	ENSMUSG00000047281	Sfn	Er|Mme1|Ywhas	stratifin	protein-coding	36.0	24.5	62.5	887.5	1.5	3.0	3.0	1.0
Merged-chr17-36161332-4	chr17	36161236	36161436	+	898.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033517, exon 4 of 4)	non-coding (NR_033517, exon 4 of 4)	7201.0	NM_001081032	667977.0	Mm.441651	NM_001081032	ENSMUSG00000073402	Gm8909	EG667977|H2-Tw5l|H2-gs17	predicted gene 8909	protein-coding	9.0	16.5	14.0	198.5	43.0	11.5	14.5	12.0
Merged-chr17-35381024-3	chr17	35380924	35381124	+	849.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143689, intron 3 of 5)	intron (NM_001143689, intron 3 of 5)	1407.0	NM_001143689	15015.0	Mm.464284	NM_001143689	ENSMUSG00000035929	H2-Q4	H-2Q4|H2-Gs10|Qa-4|Qa4|Qat-4|Qb-1|Qb1	histocompatibility 2, Q region locus 4	protein-coding	11.5	18.0	7.0	37.5	18.0	7.5	1.5	9.5
Merged-chr8-70761075-4	chr8	70760988	70761188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183170)	promoter-TSS (NM_183170)	-167.0	NM_183170	234384.0	Mm.213010	NM_183170	ENSMUSG00000035559	Mpv17l2	Fksg24	MPV17 mitochondrial membrane protein-like 2	protein-coding	346.5	496.5	336.5	4867.5	833.5	361.0	357.5	412.0
Merged-chr8-82398317-4	chr8	82398218	82398418	+	800.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	4268.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	15.0	9.5	15.0	142.5	17.5	3.5	6.5	10.5
Merged-chr9-88406065-4	chr9	88405986	88406186	+	679.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359958, intron 8 of 28)	MER5A1|DNA|hAT-Charlie	32865.0	NM_001359958	244962.0	Mm.439873	NM_172926	ENSMUSG00000032422	Snx14	B830022K16|C330035N22Rik|YR-14	sorting nexin 14	protein-coding	4.5	7.5	8.5	229.0	24.0	9.0	14.0	14.0
Merged-chr10-39771844-3	chr10	39771750	39771950	+	900.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011264, intron 1 of 31)	intron (NM_011264, intron 1 of 31)	39690.0	NM_011264	19714.0	Mm.439723	NM_011264	ENSMUSG00000019841	Rev3l	Rev|Rev3|Sez4	REV3 like, DNA directed polymerase zeta catalytic subunit	protein-coding	3.0	5.0	8.5	102.5	21.5	4.5	6.0	20.0
Merged-chr3-137833306-4	chr3	137833204	137833404	+	983.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31183.0	NM_001316995	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	24.5	62.5	38.0	249.5	84.5	36.5	20.0	18.5
Merged-chr12-70156282-3	chr12	70156213	70156413	+	840.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195033, intron 1 of 12)	intron (NM_001195033, intron 1 of 12)	2142.0	NM_001195033	100504285.0	Mm.291105	NM_001195033	ENSMUSG00000090121	Abhd12b	Gm804	abhydrolase domain containing 12B	protein-coding	6.0	13.5	16.5	111.5	15.5	8.5	2.0	11.5
Merged-chr1-119498893-5	chr1	119498802	119499002	+	916.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022327, intron 1 of 4)	ID_B1|SINE|B4	5880.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	18.5	15.0	26.5	189.5	18.5	15.5	11.5	11.0
Merged-chr4-137953602-4	chr4	137953568	137953768	+	892.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 15 of 19)	intron (NM_199307, intron 15 of 19)	-39788.0	NM_001256198	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	7.5	6.0	1.5	122.0	15.0	4.5	11.5	14.0
Merged-chr9-74905072-4	chr9	74904948	74905148	+	938.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43127.0	NM_008262	15379.0	Mm.303355	NM_008262	ENSMUSG00000043013	Onecut1	D9Ertd423e|HNF-6|Hfh12|Hnf6|Hnf6b|OC-1|Oc1	one cut domain, family member 1	protein-coding	8.5	16.5	15.0	222.5	39.0	21.5	22.5	18.5
Merged-chr7-118484207-4	chr7	118484108	118484308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033380)	TTS (NM_001033380)	7767.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	90.0	218.0	110.0	2052.0	256.0	100.0	127.0	96.0
Merged-chr3-84040682-4	chr3	84040604	84040804	+	887.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172681)	promoter-TSS (NM_172681)	-543.0	NM_172681	229473.0	Mm.28838	NM_172681	ENSMUSG00000033767	Tmem131l	D930015E06Rik|Kiaa0922|mKIAA0922	transmembrane 131 like	protein-coding	14.5	10.0	15.5	146.0	34.5	14.5	12.5	11.5
Merged-chr8-120537893-7	chr8	120537797	120537997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_106159)	promoter-TSS (NR_106159)	-171.0	NR_151732	74227.0	Mm.334856	NR_151732	ENSMUSG00000102737	1700016A09Rik	-	RIKEN cDNA 1700016A09 gene	ncRNA	17.0	19.0	27.0	363.5	39.5	16.5	21.5	31.0
Merged-chr7-75669601-4	chr7	75669463	75669663	+	963.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 10 of 36)	intron (NM_029332, intron 10 of 36)	-178775.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	44.0	41.5	26.0	377.0	48.5	24.0	13.5	17.0
Merged-chr16-14164130-3	chr16	14164036	14164236	+	787.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114085, intron 1 of 8)	intron (NM_001114085, intron 1 of 8)	861.0	NM_001114085	67203.0	Mm.24105	NM_023317	ENSMUSG00000022678	Nde1	2810027M15Rik|AU042936|AW822251|Nude|mNudE	nudE neurodevelopment protein 1	protein-coding	4.5	12.0	5.0	166.5	23.5	5.0	9.0	5.0
Merged-chr4-126741663-4	chr4	126741563	126741763	+	766.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5394.0	NM_198960	332937.0	Mm.331881	NM_198960	ENSMUSG00000042477	Tfap2e	AI505200|AP-2e|Tcfap2e	transcription factor AP-2, epsilon	protein-coding	8.0	18.5	9.0	142.0	23.0	11.0	16.5	11.0
Merged-chr11-100695142-3	chr11	100695054	100695254	+	810.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_030150, exon 13 of 13)	3' UTR (NM_030150, exon 13 of 13)	9117.0	NM_030150	80861.0	Mm.271830	NM_030150	ENSMUSG00000017830	Dhx58	B430001I08Rik|D11Lgp2e|LPG2|Lgp2|RLR-3	DEXH (Asp-Glu-X-His) box polypeptide 58	protein-coding	5.0	13.5	4.0	74.0	25.5	6.0	12.0	8.0
Merged-chr7-122261756-3	chr7	122261654	122261854	+	805.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27371.0	NM_001316672	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	32.0	12.0	19.0	165.0	19.5	12.0	8.5	13.0
Merged-chr12-85477471-4	chr12	85477350	85477550	+	964.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010234)	TTS (NM_010234)	3560.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	43.5	28.5	11.0	151.0	60.0	39.5	12.0	14.0
Merged-chr2-165987141-1	chr2	165987041	165987241	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-5496.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	3.0	12.5	4.0	48.5	36.5	19.0	6.5	15.5
Merged-chr13-97146036-2	chr13	97145936	97146136	+	845.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271465, intron 4 of 20)	intron (NM_001271465, intron 4 of 20)	8099.0	NM_001271464	320806.0	Mm.219675	NM_177266	ENSMUSG00000021666	Gfm2	6530419G12Rik|A930009M04Rik|EF-G2mt|EFG2|MST027|RRF2mt	G elongation factor, mitochondrial 2	protein-coding	7.5	7.5	3.5	110.5	19.0	4.5	7.5	5.5
Merged-chr11-5758006-4	chr11	5757916	5758116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	RMER16_Mm|LTR|ERVK	-4134.0	NR_015577	76508.0	Mm.260203	NR_015577	ENSMUSG00000083844	Ube2d-ps	1600028I17Rik|2210015D19Rik|AI596465	ubiquitin-conjugating enzyme E2D, pseudogene	ncRNA	42.5	53.5	43.5	636.5	68.5	29.5	44.5	39.5
Merged-chr5-114604495-3	chr5	114604393	114604593	+	736.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004180, intron 2 of 2)	intron (NM_001004180, intron 2 of 2)	36242.0	NM_001004180	433940.0	Mm.194212	NM_001004180	ENSMUSG00000041930	Fam222a	-	family with sequence similarity 222, member A	protein-coding	17.0	11.0	10.0	196.5	15.5	5.5	13.0	6.0
Merged-chr4-126104913-4	chr4	126104777	126104977	+	931.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028800, intron 1 of 10)	intron (NM_028800, intron 1 of 10)	920.0	NM_001145827	74178.0	Mm.440269	NM_028800	ENSMUSG00000042608	Stk40	2310004N11Rik|AI428792	serine/threonine kinase 40	protein-coding	10.5	18.5	24.0	143.0	49.0	15.0	15.5	13.0
Merged-chr11-61684323-4	chr11	61684211	61684411	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178618)	promoter-TSS (NM_178618)	-99.0	NM_178618	69640.0	Mm.458559	NM_178618	ENSMUSG00000042377	Fam83g	2310040C09Rik|AI506990|wly	family with sequence similarity 83, member G	protein-coding	19.0	28.0	20.5	193.5	46.0	20.5	19.0	24.0
Merged-chr9-83536755-4	chr9	83536630	83536830	+	847.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-11608.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	17.0	11.0	14.0	161.5	40.0	10.5	5.0	8.0
Merged-chr8-84420722-3	chr8	84420611	84420811	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252060, intron 1 of 47)	L1ME1|LINE|L1	5347.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	124.0	181.5	96.0	1449.5	0.5	1.0	1.0	2.0
Merged-chr2-73487082-4	chr2	73486977	73487177	+	894.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-1324.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	23.5	18.0	22.5	410.5	27.0	7.0	15.5	15.0
Merged-chr5-146785570-4	chr5	146785461	146785661	+	846.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	(GGA)n|Simple_repeat|Simple_repeat	9395.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	18.0	8.5	8.0	167.0	61.0	8.5	15.0	10.5
Merged-chr5-102032942-4	chr5	102032844	102033044	+	900.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	36977.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	21.5	22.5	30.0	310.0	17.0	6.5	10.5	13.0
Merged-chr3-146813060-4	chr3	146812965	146813165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011100)	promoter-TSS (NM_011100)	-119.0	NM_011100	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	62.0	80.5	119.0	772.5	141.0	59.5	67.0	70.0
Merged-chr15-79038053-4	chr15	79037945	79038145	+	940.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013847, exon 9 of 9)	3' UTR (NM_013847, exon 9 of 9)	-3840.0	NM_015738	14429.0	Mm.390805	NM_015738	ENSMUSG00000114755	Galr3	Galnr3	galanin receptor 3	protein-coding	22.0	38.0	8.0	251.0	32.5	13.5	18.5	16.0
Merged-chr6-97853659-3	chr6	97853546	97853746	+	835.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	46588.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	11.0	9.0	25.0	79.0	18.5	1.5	6.5	8.5
Merged-chr2-32089790-4	chr2	32089667	32089867	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5098.0	NR_151493	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	34.0	27.0	19.5	308.0	84.0	36.5	27.5	32.0
Merged-chr11-3177400-2	chr11	3177278	3177478	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 6 of 32)	intron (NM_030207, intron 6 of 32)	16085.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	44.5	63.5	69.0	530.0	0.5	0.0	0.0	1.0
Merged-chr6-141075462-4	chr6	141075355	141075555	+	861.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-173814.0	NM_018779	54611.0	Mm.103728	NM_018779	ENSMUSG00000041741	Pde3a	A930022O17Rik|C87899	phosphodiesterase 3A, cGMP inhibited	protein-coding	19.5	17.0	20.0	120.5	22.0	10.5	8.5	14.0
Merged-chr6-29998969-4	chr6	29998874	29999074	+	922.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	13645.0	NR_040263	76419.0	Mm.84522	NR_040263	ENSMUSG00000045709	Smkr-ps	1700023L04Rik	smal lysine rich protein 1, pseudogene	ncRNA	33.5	28.0	20.0	370.5	32.0	9.5	26.0	11.5
Merged-chr3-38571330-3	chr3	38571226	38571426	+	727.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-86510.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	4.0	15.0	12.0	39.5	11.5	8.0	8.5	11.0
Merged-chr1-182045373-4	chr1	182045288	182045488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25408.0	NM_001083120	13800.0	Mm.87759	NM_008680	ENSMUSG00000022995	Enah	Mena|NDPP-1|Ndpp1|WBP8	ENAH actin regulator	protein-coding	27.0	44.0	35.5	434.0	81.5	20.0	49.5	46.5
Merged-chr8-70562000-3	chr8	70561905	70562105	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	22330.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	24.0	58.5	32.5	481.5	16.0	8.0	8.0	12.0
Merged-chr1-172331775-4	chr1	172331669	172331869	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2447.0	NM_001360808	16524.0	Mm.261168	NM_008429	ENSMUSG00000038026	Kcnj9	1700085N21Rik|Girk3|Kir3.3|mbGIRK3	potassium inwardly-rectifying channel, subfamily J, member 9	protein-coding	19.5	31.0	34.0	494.5	30.0	5.0	11.0	11.0
Merged-chr13-70643846-4	chr13	70643733	70643933	+	861.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6199.0	NM_144837	218333.0	Mm.139738	NM_144837	ENSMUSG00000034525	Ice1	C77245|mKIAA0947	interactor of little elongation complex ELL subunit 1	protein-coding	9.0	14.5	8.5	185.0	21.0	17.5	7.0	12.0
Merged-chr2-154892850-4	chr2	154892665	154892865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026030, exon 1 of 9)	5' UTR (NM_026030, exon 1 of 9)	141.0	NM_026030	67204.0	Mm.377134	NM_026030	ENSMUSG00000074656	Eif2s2	2810026E11Rik|38kDa|AA408636|AA571381|AA986487|AW822225|D2Ertd303e|EIF2|EIF2B	eukaryotic translation initiation factor 2, subunit 2 (beta)	protein-coding	83.5	112.5	76.5	388.5	212.0	93.5	87.5	104.0
Merged-chr10-118866679-4	chr10	118866586	118866786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014390, intron 2 of 2)	intron (NM_001014390, intron 2 of 2)	2217.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	45.5	95.5	65.5	410.0	105.0	46.0	36.0	20.0
Merged-chr10-8196490-3	chr10	8196395	8196595	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-240372.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	7.0	10.0	3.5	117.5	25.0	5.0	4.5	5.5
Merged-chr11-51856483-9	chr11	51856434	51856634	+	989.858032	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 1 of 12)	CpG	947.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	18.0	18.0	32.0	183.5	34.5	12.0	14.5	21.0
Merged-chr15-30617073-4	chr15	30616984	30617184	+	984.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	MLT1B|LTR|ERVL-MaLR	-422042.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	21.0	25.0	17.0	396.5	43.0	11.0	17.0	18.5
Merged-chr2-49453004-4	chr2	49452920	49453120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172663, intron 1 of 13)	intron (NM_172663, intron 1 of 13)	1534.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	91.0	122.5	79.5	1456.5	338.0	114.0	132.0	99.0
Merged-chr6-98959504-3	chr6	98959410	98959610	+	966.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 10 of 17)	intron (NM_001197321, intron 10 of 17)	68788.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	17.0	19.5	22.0	398.5	5.5	3.5	3.0	14.5
Merged-chr4-137909641-4	chr4	137909528	137909728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 2 of 19)	intron (NM_199307, intron 2 of 19)	47391.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	47.0	48.5	29.5	534.0	102.5	24.0	32.5	24.0
Merged-chr18-12154302-4	chr18	12154214	12154414	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024182, intron 12 of 12)	intron (NM_024182, intron 12 of 12)	-14416.0	NM_029623	76482.0	Mm.196596	NM_029623	ENSMUSG00000024410	3110002H16Rik	2400010D15Rik|Mic-1|Mic1|Rmc1|Wdr98	RIKEN cDNA 3110002H16 gene	protein-coding	21.5	10.5	7.0	200.5	52.5	11.0	16.5	16.0
Merged-chr8-108393067-4	chr8	108392963	108393163	+	807.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	191614.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	11.0	11.0	8.5	109.0	27.5	13.0	19.0	12.0
Merged-chr6-134152142-4	chr6	134152032	134152232	+	980.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 3 of 8)	intron (NM_001303102, intron 3 of 8)	116432.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	39.0	92.5	21.0	383.5	96.0	43.0	44.0	15.0
Merged-chr3-105704675-4	chr3	105704626	105704826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163356)	promoter-TSS (NM_001163356)	127.0	NM_175398	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	32.5	37.5	32.0	245.0	21.5	15.5	14.5	10.5
Merged-chr11-6519806-4	chr11	6519697	6519897	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178440, intron 1 of 21)	intron (NM_178440, intron 1 of 21)	1161.0	NM_178440	246177.0	Mm.239554	NM_178440	ENSMUSG00000020437	Myo1g	E430002D17Rik	myosin IG	protein-coding	33.5	30.5	24.0	314.0	37.5	12.0	33.0	17.5
Merged-chr10-57532493-4	chr10	57532394	57532594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019760)	promoter-TSS (NM_019760)	35.0	NM_019760	56442.0	Mm.29344	NM_019760	ENSMUSG00000019877	Serinc1	1500011D18Rik|AI315070|AIGP-2|TMS-2|Tde1l|Tde2|Tms2|mKIAA1253	serine incorporator 1	protein-coding	151.0	183.5	93.0	1852.5	338.5	121.5	148.5	140.0
Merged-chr15-83145723-4	chr15	83145615	83145815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347082, intron 1 of 7)	intron (NM_001347082, intron 1 of 7)	3663.0	NM_178627	73826.0	Mm.23758	NM_178627	ENSMUSG00000041815	Poldip3	1110008P04Rik|AA408269|AL022852|C77954|PDIP46|SKAR|mKIAA1649	polymerase (DNA-directed), delta interacting protein 3	protein-coding	26.5	54.5	22.5	413.5	99.5	32.0	41.5	29.0
Merged-chr4-86428336-4	chr4	86428273	86428473	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029967)	TTS (NM_029967)	129930.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	4.0	4.0	11.5	96.5	9.5	10.5	4.5	6.0
Merged-chr19-60861441-4	chr19	60861341	60861541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362384)	promoter-TSS (NM_001362384)	-13.0	NM_053198	94281.0	Mm.48179	NM_053198	ENSMUSG00000063698	Sfxn4	-	sideroflexin 4	protein-coding	108.0	134.5	99.5	2086.5	237.0	84.0	148.5	125.5
Merged-chr7-30287246-3	chr7	30287143	30287343	+	815.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_144498, intron 2 of 2)	intron (NR_144498, intron 2 of 2)	-4452.0	NM_001360763	76686.0	Mm.159258	NM_001081114	ENSMUSG00000013921	Clip3	1500005P14Rik|AI844915|Clipr-59	CAP-GLY domain containing linker protein 3	protein-coding	7.0	12.0	16.0	95.5	15.0	2.5	6.0	11.5
Merged-chr12-70010548-4	chr12	70010441	70010641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081453)	TTS (NM_001081453)	-23539.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	23.0	20.0	22.0	503.5	69.5	22.5	30.0	23.5
Merged-chr3-21997542-4	chr3	21997415	21997615	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-79137.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	33.5	15.0	31.5	462.0	49.0	21.0	28.0	22.5
Merged-chr17-17878674-4	chr17	17878570	17878770	+	990.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013521, intron 1 of 1)	L1_Mus4|LINE|L1	5269.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	37.5	47.5	26.5	272.5	57.5	28.0	45.0	19.5
Merged-chr12-85704783-4	chr12	85704707	85704907	+	907.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016767, intron 2 of 2)	intron (NM_016767, intron 2 of 2)	18087.0	NM_016767	53314.0	Mm.6672	NM_016767	ENSMUSG00000034266	Batf	B-ATF|SFA-2	basic leucine zipper transcription factor, ATF-like	protein-coding	11.0	28.0	14.5	91.5	32.0	11.0	3.5	21.0
Merged-chr8-117280588-4	chr8	117280496	117280696	+	999.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	23577.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	27.0	35.0	17.5	389.5	47.5	17.0	34.0	36.0
Merged-chr4-62275037-4	chr4	62274924	62275124	+	861.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-11405.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	9.0	11.5	15.0	135.0	30.5	9.0	14.0	12.0
Merged-chr9-47589989-4	chr9	47589856	47590056	+	920.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	MIRb|SINE|MIR	59604.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	25.5	35.5	16.0	410.0	34.0	12.0	6.0	17.5
Merged-chr1-130918787-3	chr1	130918667	130918867	+	669.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7471.0	NM_021380	58181.0	Mm.103794	NM_021380	ENSMUSG00000026416	Il20	Zcyto10	interleukin 20	protein-coding	11.0	14.0	8.5	93.0	13.5	5.5	24.0	7.0
Merged-chr1-60973768-3	chr1	60973655	60973855	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4159.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	35.0	25.5	33.5	602.5	23.0	4.0	4.5	18.5
Merged-chr5-135614794-4	chr5	135614610	135614810	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17944.0	NM_001357037	215160.0	Mm.295438	NM_031398	ENSMUSG00000039917	Rhbdd2	0610011L13Rik|AI480532|Rhbdl7|Usmg1	rhomboid domain containing 2	protein-coding	18.0	13.0	18.5	197.0	19.0	10.5	10.0	6.5
Merged-chr16-14123372-3	chr16	14123307	14123507	+	844.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 21 of 26)	intron (NM_001081154, intron 21 of 26)	35867.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	5.0	10.0	6.5	140.0	5.0	0.0	4.5	2.0
Merged-chr2-93162156-4	chr2	93162068	93162268	+	886.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-25380.0	NM_001356536	277414.0	Mm.41033	NM_001025246	ENSMUSG00000068735	Trp53i11	Tp53i11	transformation related protein 53 inducible protein 11	protein-coding	6.0	11.5	16.0	242.5	22.5	12.5	25.5	13.5
Merged-chr5-122103273-4	chr5	122103149	122103349	+	806.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010861, intron 3 of 6)	intron (NM_010861, intron 3 of 6)	2298.0	NM_010861	17906.0	Mm.1529	NM_010861	ENSMUSG00000013936	Myl2	MLC-2|MLC-2s/v|MLC-2v|Mlc2v|Mylpc	myosin, light polypeptide 2, regulatory, cardiac, slow	protein-coding	26.5	29.5	6.0	157.5	25.0	8.0	6.0	11.0
Merged-chr16-65469900-2	chr16	65469820	65470020	+	748.833374	f0_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-50709.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	8.0	7.0	12.0	84.0	13.0	0.5	1.5	12.5
Merged-chr18-46525115-4	chr18	46525017	46525217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173423, intron 1 of 2)	intron (NM_173423, intron 1 of 2)	854.0	NM_173423	240263.0	Mm.38249	NM_173423	ENSMUSG00000033319	Fem1c	2610312A07Rik|3632443A22Rik|AI646567	fem-1 homolog c (C.elegans)	protein-coding	178.5	257.5	182.5	2976.0	417.5	167.0	201.5	167.0
Merged-chr12-82448317-4	chr12	82448222	82448422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 22 of 23)	intron (NM_001167983, intron 22 of 23)	136973.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	33.5	83.5	52.5	819.0	168.0	52.5	89.0	88.5
Merged-chr11-84880320-4	chr11	84880215	84880415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025414)	promoter-TSS (NM_025414)	-30.0	NM_001077636	70325.0	Mm.390414	NM_027388	ENSMUSG00000045140	Pigw	2610044A17Rik|Gwt1	phosphatidylinositol glycan anchor biosynthesis, class W	protein-coding	40.0	39.5	21.5	437.0	98.5	40.0	34.5	26.5
Merged-chr7-140125620-4	chr7	140125503	140125703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346725)	promoter-TSS (NM_001346725)	-54.0	NM_001346725	212503.0	Mm.486735	NM_153783	ENSMUSG00000025464	Paox	2410012F02Rik|AI118225|Pao	polyamine oxidase (exo-N4-amino)	protein-coding	110.0	128.0	99.0	1446.0	249.5	78.5	100.0	67.0
Merged-chr15-75695887-4	chr15	75695791	75695991	+	928.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8397.0	NM_001163465	14787.0	Mm.57052	NM_008164	ENSMUSG00000022580	Rhpn1	BB023497|Grbp|Rhophilin|mKIAA1929	rhophilin, Rho GTPase binding protein 1	protein-coding	8.0	17.5	9.0	172.5	40.0	10.0	23.0	18.0
Merged-chr13-96107808-1	chr13	96107708	96107908	+	549.0	f0_c57.idr	intron (NM_029210, intron 1 of 12)	intron (NM_029210, intron 1 of 12)	24769.0	NM_029210	75209.0	Mm.40436	NM_029210	ENSMUSG00000051111	Sv2c	4930527L09Rik|AI841971	synaptic vesicle glycoprotein 2c	protein-coding	0.0	8.0	2.5	6.0	25.5	5.0	9.0	5.0
Merged-chr8-22708732-3	chr8	22708635	22708835	+	987.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-2152.0	NM_001159774	16150.0	Mm.277886	NM_010546	ENSMUSG00000031537	Ikbkb	AI132552|IKK-2|IKK-beta|IKK2|IKK[b]|IKKbeta	inhibitor of kappaB kinase beta	protein-coding	17.0	19.5	5.5	150.0	32.5	8.0	8.0	3.5
Merged-chr13-51996412-4	chr13	51996314	51996514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-100327.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	40.5	39.5	21.0	494.5	89.5	27.0	40.0	20.5
Merged-chr11-5542883-4	chr11	5542771	5542971	+	929.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134033)	promoter-TSS (NM_134033)	-654.0	NM_134033	104479.0	Mm.210403	NM_134033	ENSMUSG00000020482	Ccdc117	1110004K02Rik|1700026O03Rik|AU018638|AU042822|AV173073|BC018601	coiled-coil domain containing 117	protein-coding	25.5	30.5	9.0	101.0	70.5	19.5	18.5	20.0
Merged-chr6-115505138-4	chr6	115505025	115505225	+	976.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39579.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	41.0	29.0	32.0	720.5	88.0	9.5	22.0	38.5
Merged-chr11-19026822-3	chr11	19026709	19026909	+	626.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7840.0	NM_010789	17268.0	Mm.356578	NM_010789	ENSMUSG00000020160	Meis1	C530044H18Rik|Evi8	Meis homeobox 1	protein-coding	8.0	6.5	10.0	93.5	5.0	5.0	7.5	5.5
Merged-chr13-37557914-4	chr13	37557825	37558025	+	892.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	212580.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	15.5	10.5	7.5	185.0	29.0	5.5	12.0	8.0
Merged-chr10-57747253-4	chr10	57747129	57747329	+	839.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-37694.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	9.0	17.5	14.0	185.5	27.0	7.5	11.5	6.5
Merged-chr2-61577804-4	chr2	61577726	61577926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011529)	promoter-TSS (NM_011529)	-760.0	NM_011529	21353.0	Mm.244393	NM_011529	ENSMUSG00000064289	Tank	C86182|E430026L09Rik|I-TRAF	TRAF family member-associated Nf-kappa B activator	protein-coding	23.5	53.0	37.5	273.0	158.0	42.0	78.5	33.0
Merged-chr16-37869789-4	chr16	37869653	37869853	+	995.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177093, intron 1 of 3)	intron (NM_177093, intron 1 of 3)	1353.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	21.5	25.0	18.5	280.0	63.0	15.5	17.5	17.0
Merged-chr7-30508251-4	chr7	30508148	30508348	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019546, intron 7 of 9)	intron (NM_019546, intron 7 of 9)	-6874.0	NR_036630	100504207.0	Mm.297831	NM_001004161	ENSMUSG00000062132	Arhgap33os	Gm1082	Rho GTPase activating protein 33, opposite strand	ncRNA	5.5	8.5	4.5	127.5	61.0	22.0	35.0	36.0
Merged-chr3-116836170-4	chr3	116836043	116836243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23424.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	25.0	22.0	28.5	325.5	30.0	13.5	18.0	26.0
Merged-chr17-87746449-4	chr17	87746366	87746566	+	989.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_199251, exon 2 of 2)	exon (NM_199251, exon 2 of 2)	51528.0	NM_199251	210741.0	Mm.312046	NM_199251	ENSMUSG00000050138	Kcnk12	mntk1	potassium channel, subfamily K, member 12	protein-coding	12.0	25.0	7.0	197.5	35.5	19.5	4.5	8.0
Merged-chr13-51846170-1	chr13	51846070	51846270	+	1000.0	f0_c57.idr	promoter-TSS (NM_011817)	promoter-TSS (NM_011817)	-505.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	9.5	23.0	14.5	120.0	66.0	18.5	24.0	18.0
Merged-chr5-35551950-3	chr5	35551838	35552038	+	898.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23132.0	NM_030208	78890.0	Mm.98522	NM_030208	ENSMUSG00000029097	Trmt44	2310079F23Rik|Mettl19	tRNA methyltransferase 44	protein-coding	5.5	9.0	13.0	116.0	6.0	6.5	3.0	7.0
Merged-chr5-112266391-7	chr5	112266308	112266508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312893, intron 4 of 5)	intron (NM_001312893, intron 4 of 5)	-10283.0	NM_001326590	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	17.0	38.5	40.0	342.5	70.0	31.5	27.0	36.5
Merged-chr2-52885114-6	chr2	52884997	52885197	+	869.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	27229.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	18.0	6.5	12.0	246.5	38.0	12.0	6.0	13.0
Merged-chr14-121879440-2	chr14	121879340	121879540	+	839.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131000)	promoter-TSS (NR_131000)	-32.0	NR_130999	78312.0	Mm.188743	NR_130999	ENSMUSG00000102112	1810041H14Rik	-	RIKEN cDNA 1810041H14 gene	ncRNA	5.0	5.5	9.0	33.5	25.5	4.0	2.5	4.0
Merged-chr11-62539040-7	chr11	62538894	62539094	+	938.0476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028448, exon 1 of 5)	exon (NM_028448, exon 1 of 5)	267.0	NM_028448	73139.0	Mm.390409	NM_028448	ENSMUSG00000018509	Cenpv	3110013H01Rik|AA671303|Prr6	centromere protein V	protein-coding	8.5	16.5	8.0	131.0	23.5	7.0	12.5	12.5
Merged-chr6-129876758-4	chr6	129876644	129876844	+	826.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133203)	promoter-TSS (NM_133203)	-72.0	NM_133203	170733.0	Mm.155514	NM_133203	ENSMUSG00000014543	Klra17	Ly49q|Ly49q1	killer cell lectin-like receptor, subfamily A, member 17	protein-coding	4.0	11.0	9.0	230.5	33.0	9.5	15.5	17.0
Merged-chr2-166204366-4	chr2	166204283	166204483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48700.0	NM_028072	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	60.5	81.5	80.5	1073.5	142.0	39.0	83.5	72.0
Merged-chr7-141455405-1	chr7	141455305	141455505	+	1000.0	f0_c57.idr	exon (NM_001163689, exon 1 of 9)	exon (NM_001163689, exon 1 of 9)	217.0	NM_001163689	66853.0	Mm.29998	NM_025802	ENSMUSG00000025509	Pnpla2	0610039C21Rik|1110001C14Rik|Atgl|TTS-2.2	patatin-like phospholipase domain containing 2	protein-coding	47.0	71.5	22.5	414.5	109.5	39.5	43.5	43.0
Merged-chr4-59450407-4	chr4	59450303	59450503	+	876.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11770.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	12.5	21.0	5.5	176.0	25.5	9.0	6.5	15.0
Merged-chr10-61114370-4	chr10	61114271	61114471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 4 of 14)	intron (NM_009163, intron 4 of 14)	25040.0	NM_025273	13180.0	Mm.39473	NM_025273	ENSMUSG00000020098	Pcbd1	Dcoh|Pcbd|Pcd|Phs	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 1	protein-coding	117.0	177.5	130.5	2236.5	281.0	99.0	144.5	150.0
Merged-chr1-105993951-4	chr1	105993855	105994055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	CpG	3549.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	70.5	122.0	76.0	1038.5	119.0	62.5	73.0	53.5
Merged-chr12-116425601-1	chr12	116425501	116425701	+	668.0	f0_balb.idr	intron (NM_133762, intron 11 of 28)	RSINE1|SINE|B4	20199.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	6.0	6.5	8.5	105.5	1.0	0.5	0.0	2.0
Merged-chr16-75874716-4	chr16	75874620	75874820	+	901.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023380, intron 5 of 7)	intron (NM_023380, intron 5 of 7)	34546.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	9.5	27.0	41.0	361.0	27.5	10.5	18.5	11.0
Merged-chr9-21760425-4	chr9	21760351	21760551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026282)	promoter-TSS (NM_026282)	-148.0	NM_001357331	67629.0	Mm.295642	NM_026282	ENSMUSG00000074476	Spc24	2410030K01Rik|AV109292|Spbc24	SPC24, NDC80 kinetochore complex component, homolog (S. cerevisiae)	protein-coding	71.0	99.0	73.0	1135.0	139.5	64.5	69.5	38.0
Merged-chr17-37017702-2	chr17	37017602	37017802	+	732.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010814, intron 2 of 7)	intron (NM_010814, intron 2 of 7)	5696.0	NM_010814	17441.0	Mm.210857	NM_010814	ENSMUSG00000076439	Mog	B230317G11Rik	myelin oligodendrocyte glycoprotein	protein-coding	7.5	5.0	4.5	120.5	7.0	2.5	2.5	5.5
Merged-chr2-19055647-4	chr2	19055553	19055753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57334.0	NR_024323	74629.0	Mm.117687	NR_024323	ENSMUSG00000026736	4930426L09Rik	-	RIKEN cDNA 4930426L09 gene	ncRNA	20.5	44.5	23.0	410.5	100.5	38.5	23.0	24.0
Merged-chr18-82526052-4	chr18	82525971	82526171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025245, intron 3 of 3)	intron (NM_001025245, intron 3 of 3)	-28392.0	NM_001025258	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	151.0	186.5	143.0	2534.5	308.0	136.5	201.0	147.0
Merged-chr17-51209751-4	chr17	51209661	51209861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30409.0	NM_001285991	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	17.0	26.5	21.5	561.0	93.0	23.5	25.0	29.0
Merged-chr18-57085205-3	chr18	57085105	57085305	+	961.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47885.0	NM_001001979	70417.0	Mm.297863	NM_001001979	ENSMUSG00000024593	Megf10	3000002B06Rik|Gm331	multiple EGF-like-domains 10	protein-coding	20.5	21.0	12.0	315.0	24.5	6.0	9.0	7.5
Merged-chr3-9886255-4	chr3	9886161	9886361	+	895.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52582.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	8.5	17.5	11.0	149.0	39.0	10.0	21.0	10.0
Merged-chr2-73206169-3	chr2	73206071	73206271	+	816.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030091, intron 2 of 7)	intron (NM_030091, intron 2 of 7)	8276.0	NM_030091	67059.0	Mm.22661	NM_025942	ENSMUSG00000027108	Ola1	2510025G09Rik|2810405J23Rik|2810409H07Rik|Gtpbp9|PTD004	Obg-like ATPase 1	protein-coding	5.5	11.0	8.0	126.0	17.5	6.0	8.0	10.0
Merged-chr4-32486026-3	chr4	32485924	32486124	+	689.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109661, intron 1 of 4)	intron (NM_001109661, intron 1 of 4)	68589.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	6.5	7.5	8.0	126.5	11.0	1.0	2.0	3.5
Merged-chr7-112299877-3	chr7	112299790	112299990	+	972.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001193305, intron 3 of 25)	intron (NM_001193305, intron 3 of 25)	-68418.0	NM_027587	100504195.0	Mm.291129	NM_027587	ENSMUSG00000030771	Micalcl	4921517J23Rik	MICAL C-terminal like	protein-coding	24.5	33.5	28.0	376.0	11.5	4.0	4.5	4.0
Merged-chr2-76610878-4	chr2	76610778	76610978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37116.0	NM_011871	23992.0	Mm.277250	NM_011871	ENSMUSG00000002731	Prkra	AV120107|PRK|Pact|RAX|lear	protein kinase, interferon inducible double stranded RNA dependent activator	protein-coding	85.0	117.5	117.5	1832.5	204.0	76.5	83.0	93.0
Merged-chr13-63256959-4	chr13	63256845	63257045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	16916.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	71.5	76.0	81.5	1144.0	238.0	85.5	152.5	113.0
Merged-chr2-32712363-4	chr2	32712316	32712516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_037217)	TTS (NR_037217)	368.0	NM_130860	107951.0	Mm.27557	NM_130860	ENSMUSG00000009555	Cdk9	PITALRE	cyclin-dependent kinase 9 (CDC2-related kinase)	protein-coding	23.0	24.5	22.0	218.5	55.5	19.5	26.5	22.0
Merged-chr5-30897966-3	chr5	30897877	30898077	+	988.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001048192, intron 12 of 16)	intron (NM_001048192, intron 12 of 16)	8643.0	NM_001294262	231093.0	Mm.440364	NM_174849	ENSMUSG00000029165	Agbl5	9430057O19Rik|CCP5	ATP/GTP binding protein-like 5	protein-coding	5.0	3.0	10.0	179.0	10.5	9.5	6.5	8.5
Merged-chr13-49326876-2	chr13	49326776	49326976	+	645.383301	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14673.0	NM_001039179	76895.0	Mm.197387	NM_029791	ENSMUSG00000037933	Bicd2	-	BICD cargo adaptor 2	protein-coding	3.5	6.0	2.0	45.0	10.5	6.5	7.0	9.0
Merged-chr2-11333084-4	chr2	11332964	11333164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6425.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	27.5	26.5	29.0	334.5	62.0	22.5	25.0	43.0
Merged-chr14-45049844-4	chr14	45049703	45049903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61692.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	69.0	99.5	80.5	1168.5	155.5	50.5	52.0	49.5
Merged-chr11-117195740-4	chr11	117195629	117195829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3932.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	33.5	59.0	19.5	449.5	62.5	21.0	23.0	26.0
Merged-chr10-40499501-4	chr10	40499382	40499582	+	976.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70880.0	NM_027572	70840.0	Mm.332570	NM_027572	ENSMUSG00000019834	Slc22a16	4921504E14Rik|CT2|FLIPT2|OCT6|OKB1	solute carrier family 22 (organic cation transporter), member 16	protein-coding	23.5	36.0	31.0	221.0	43.0	13.5	6.5	19.5
Merged-chr11-118443350-4	chr11	118443209	118443409	+	762.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204130)	promoter-TSS (NM_001204130)	-225.0	NM_001204130	56745.0	Mm.23845	NM_019959	ENSMUSG00000017446	C1qtnf1	1600017K21Rik|CTRP1|Zsig37	C1q and tumor necrosis factor related protein 1	protein-coding	3.5	7.0	1.0	94.0	11.0	6.0	6.5	7.5
Merged-chr9-121719041-4	chr9	121718944	121719144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010918)	promoter-TSS (NM_010918)	-137.0	NM_010918	18087.0	Mm.32842	NM_010918	ENSMUSG00000032525	Nktr	5330401F18Rik|D9Wsu172e	natural killer tumor recognition sequence	protein-coding	293.0	524.5	241.5	3162.5	925.0	338.5	366.5	279.5
Merged-chr10-127076291-4	chr10	127076185	127076385	+	656.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2622.0	NM_001301014	216439.0	Mm.336761	NM_001033263	ENSMUSG00000025422	Agap2	AGAP-2|Centg1|PIKE|cnt-g1|mKIAA0167	ArfGAP with GTPase domain, ankyrin repeat and PH domain 2	protein-coding	5.0	7.0	5.5	58.0	30.5	6.5	12.0	6.5
Merged-chr3-151746205-2	chr3	151746098	151746298	+	892.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_133871, intron 3 of 7)	ORR1E|LTR|ERVL-MaLR	3761.0	NM_133871	99899.0	Mm.30756	NM_133871	ENSMUSG00000028037	Ifi44	A430056A10Rik|AW261460|MTAP44|p44	interferon-induced protein 44	protein-coding	2.0	1.0	0.0	14.5	37.5	14.0	22.5	9.0
Merged-chr11-34012180-4	chr11	34012064	34012264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-18971.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	71.5	133.0	100.0	1036.0	190.5	77.5	82.5	90.0
Merged-chr8-84068836-4	chr8	84068730	84068930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	intron (NM_009055, intron 1 of 20)	1994.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	24.0	39.5	14.0	468.0	65.0	24.0	27.0	25.0
Merged-chr9-36768248-1	chr9	36768148	36768348	+	825.0	f0_c57.idr	promoter-TSS (NM_008408)	promoter-TSS (NM_008408)	-670.0	NM_008408	16430.0	Mm.2863	NM_008408	ENSMUSG00000032116	Stt3a	AA408947|BB081708|Itm1	STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae)	protein-coding	6.0	11.0	9.5	121.5	27.5	31.5	19.5	29.0
Merged-chr7-28932679-4	chr7	28932590	28932790	+	916.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021895, intron 1 of 20)	intron (NM_021895, intron 1 of 20)	29642.0	NM_001360549	60595.0	Mm.81144	NM_021895	ENSMUSG00000054808	Actn4	C77391	actinin alpha 4	protein-coding	10.0	18.5	21.0	193.0	18.5	10.5	16.5	20.5
Merged-chr9-46009851-4	chr9	46009736	46009936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357241, intron 1 of 5)	MIR|SINE|MIR	2854.0	NM_001357241	18475.0	Mm.200859	NM_008775	ENSMUSG00000003131	Pafah1b2	2610005M20Rik|AI747451|AU021353|Pafahb|mus[b]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 2	protein-coding	71.0	56.0	25.0	528.0	160.0	31.0	74.5	46.5
Merged-chr12-79136059-4	chr12	79135943	79136143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009705, intron 2 of 7)	intron (NM_009705, intron 2 of 7)	5255.0	NM_009705	11847.0	Mm.3506	NM_009705	ENSMUSG00000021125	Arg2	AII|AU022422	arginase type II	protein-coding	105.0	110.5	120.0	1828.0	148.5	57.0	58.5	44.5
Merged-chr13-24781299-4	chr13	24781172	24781372	+	934.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19335.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	5.0	7.0	13.5	166.0	38.0	6.0	10.0	7.0
Merged-chr2-153208323-4	chr2	153208223	153208423	+	927.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 17 of 17)	MTC|LTR|ERVL-MaLR	17118.0	NM_198617	241732.0	Mm.277243	NM_198617	ENSMUSG00000074671	Tspyl3	AW212607|Gm36	TSPY-like 3	protein-coding	5.5	16.5	17.0	148.0	35.5	7.5	20.5	8.0
Merged-chr9-32516129-2	chr9	32516029	32516229	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	25323.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	4.5	13.5	10.5	132.0	13.5	6.0	8.5	7.0
Merged-chr7-19940023-4	chr7	19939905	19940105	+	842.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027308, intron 3 of 4)	RLTR26B_MM|LTR|ERVK	10738.0	NM_027308	70080.0	Mm.98583	NM_027308	ENSMUSG00000040498	Igsf23	2210010C17Rik	immunoglobulin superfamily, member 23	protein-coding	13.0	6.5	5.5	131.5	21.5	7.5	13.0	6.5
Merged-chr6-125572671-4	chr6	125572585	125572785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 6 of 51)	MTD|LTR|ERVL-MaLR	19737.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	125.5	126.0	178.0	1923.0	302.5	113.0	178.5	143.0
Merged-chr11-63230960-4	chr11	63230862	63231062	+	936.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57D|LTR|ERV1	98159.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	8.0	17.0	4.0	160.0	40.0	8.5	18.5	29.0
Merged-chr4-44012605-4	chr4	44012510	44012710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290470)	promoter-TSS (NM_001290470)	-33.0	NM_016760	12757.0	Mm.298875	NM_016760	ENSMUSG00000028478	Clta	AV026556|Lca	clathrin, light polypeptide (Lca)	protein-coding	83.5	106.5	66.5	1133.5	204.5	70.0	118.5	83.0
Merged-chr12-73611009-4	chr12	73610893	73611093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	intron (NM_001313977, intron 2 of 14)	26197.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	61.0	101.5	47.5	600.0	114.5	42.5	59.5	33.5
Merged-chr13-98956466-4	chr13	98956385	98956585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D11|SINE|Alu	28080.0	NM_027064	69382.0	Mm.45466	NM_027064	ENSMUSG00000045022	1700024P04Rik	H2bl1|Subh2bv	RIKEN cDNA 1700024P04 gene	protein-coding	42.5	76.0	61.0	814.0	127.0	42.0	61.5	63.5
Merged-chr10-51520197-4	chr10	51520089	51520289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	29291.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	56.5	91.0	39.0	1016.5	158.0	42.5	70.0	56.5
Merged-chr14-27038959-4	chr14	27038851	27039051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134437)	promoter-TSS (NM_134437)	-50.0	NM_134437	171463.0	Mm.206726	NM_027265	ENSMUSG00000040717	Il17rd	2810004A10Rik|AI428510|Sef|Sef-S	interleukin 17 receptor D	protein-coding	59.0	96.5	58.5	927.5	127.5	42.0	64.5	47.0
Merged-chr2-167798129-4	chr2	167798021	167798221	+	884.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106944.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	7.5	8.0	11.5	120.0	15.0	4.5	9.5	12.0
Merged-chr10-67505557-2	chr10	67505457	67505657	+	909.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32312.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	5.0	11.0	5.0	134.5	4.0	0.0	3.5	6.0
Merged-chr15-25341870-3	chr15	25341770	25341970	+	828.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	71894.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	10.0	8.0	6.5	107.0	12.0	4.0	2.5	9.5
Merged-chr12-76536924-4	chr12	76536788	76536988	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	3328.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	3.5	16.0	15.0	57.5	41.0	14.0	8.5	6.5
Merged-chr1-61373866-2	chr1	61373766	61373966	+	631.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4566.0	NR_040483	77341.0	Mm.402964	NR_040483	ENSMUSG00000085447	9530026F06Rik	-	RIKEN cDNA 9530026F06 gene	ncRNA	6.0	0.5	4.0	154.0	8.0	8.5	4.5	7.0
Merged-chr11-51650901-4	chr11	51650796	51650996	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027958)	promoter-TSS (NR_027958)	-58.0	NR_027958	97775.0	Mm.220299	NM_175289	ENSMUSG00000052563	D930048N14Rik	AI315703|R75254	RIKEN cDNA D930048N14 gene	ncRNA	22.0	37.5	15.5	166.0	49.0	29.5	21.0	11.5
Merged-chr8-119841199-3	chr8	119841136	119841336	+	944.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028071)	promoter-TSS (NM_028071)	-657.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	13.5	14.5	10.5	155.0	18.5	7.5	4.5	13.0
Merged-chr18-44380394-4	chr18	44380282	44380482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027490)	promoter-TSS (NM_027490)	-118.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	292.5	542.0	369.0	4875.5	751.0	264.5	355.5	309.5
Merged-chr5-31291175-4	chr5	31291085	31291285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026298)	promoter-TSS (NM_026298)	-71.0	NM_026298	67661.0	Mm.293023	NM_026298	ENSMUSG00000038564	Ift172	4930553F24Rik|Slb|avc1|wim	intraflagellar transport 172	protein-coding	139.5	214.5	112.0	2013.0	444.0	170.5	163.0	173.5
Merged-chr12-46819514-4	chr12	46819415	46819615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021361)	promoter-TSS (NM_021361)	-740.0	NM_021361	664883.0	Mm.247195	NM_021361	ENSMUSG00000021047	Nova1	9430099M15Rik|G630039L02|Nova-1	neuro-oncological ventral antigen 1	protein-coding	146.0	190.0	138.5	2282.5	196.0	79.5	108.0	58.0
Merged-chr5-108131954-4	chr5	108131859	108132059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028481)	promoter-TSS (NM_028481)	661.0	NM_001347383	73130.0	Mm.363960	NM_028876	ENSMUSG00000063406	Tmed5	3110020O18Rik|4432412D15Rik|p24gamma2	transmembrane p24 trafficking protein 5	protein-coding	73.0	97.5	61.0	1456.5	225.5	70.5	95.5	93.0
Merged-chr15-101077763-4	chr15	101077621	101077821	+	878.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23322.0	NM_001214911	668225.0	Mm.385011	NM_001214911	ENSMUSG00000095440	Fignl2	EG668225	fidgetin-like 2	protein-coding	7.0	29.0	11.0	97.0	20.0	5.5	9.0	5.5
Merged-chr9-15034204-8	chr9	15034079	15034279	+	874.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019482, intron 1 of 4)	intron (NM_019482, intron 1 of 4)	11299.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	11.0	25.0	15.5	118.0	21.0	9.0	4.5	17.0
Merged-chr8-4616251-3	chr8	4616169	4616369	+	781.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145591, intron 1 of 3)	intron (NM_145591, intron 1 of 3)	3099.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	4.5	14.5	5.5	117.0	8.5	1.5	12.0	4.5
Merged-chr6-86671027-4	chr6	86670908	86671108	+	927.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1849.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	25.0	19.0	5.5	242.0	39.0	17.0	9.5	13.5
Merged-chr1-10089777-3	chr1	10089664	10089864	+	648.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026493, intron 14 of 29)	B4|SINE|B4	51546.0	NM_026493	211660.0	Mm.244046	NM_026493	ENSMUSG00000056763	Cspp1	2310020J12Rik|4930413O22Rik|AA387550|BC055915|Cspp2|Cspp3	centrosome and spindle pole associated protein 1	protein-coding	4.5	4.5	7.5	42.5	9.0	4.0	8.5	5.5
Merged-chr17-10740346-4	chr17	10740233	10740433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	intron (NM_027032, intron 2 of 4)	99858.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	23.5	44.0	34.0	610.5	84.0	22.5	42.5	20.0
Merged-chr4-129033292-4	chr4	129033185	129033385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24986.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	128.0	234.0	79.0	1163.5	305.0	123.5	96.0	118.0
Merged-chr18-60911960-4	chr18	60911859	60912059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038499)	promoter-TSS (NM_001038499)	-281.0	NM_001038499	545260.0	Mm.20147	NM_001038499	ENSMUSG00000036412	Arsi	BC020108	arylsulfatase i	protein-coding	35.5	36.5	29.5	366.0	62.0	24.5	38.0	25.0
Merged-chr7-118275403-4	chr7	118275308	118275508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	31501.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	35.0	39.5	29.0	287.5	44.5	27.5	30.5	36.0
Merged-chr9-37656537-3	chr9	37656446	37656646	+	861.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025289, intron 1 of 8)	intron (NM_025289, intron 1 of 8)	766.0	NM_025289	21376.0	Mm.28689	NM_025289	ENSMUSG00000011114	Tbrg1	AA408552|AA409675|Niam|Tb-5|mFLJ00213	transforming growth factor beta regulated gene 1	protein-coding	12.0	2.0	10.0	90.0	5.0	5.5	6.5	17.0
Merged-chr18-56675216-3	chr18	56675124	56675324	+	610.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32589.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	2.0	3.0	2.0	13.5	23.0	7.0	9.0	9.5
Merged-chr5-53590449-4	chr5	53590374	53590574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080927)	promoter-TSS (NM_001080927)	-12.0	NM_001359152	19664.0	Mm.209292	NM_009035	ENSMUSG00000039191	Rbpj	AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh	recombination signal binding protein for immunoglobulin kappa J region	protein-coding	102.5	148.5	123.5	1558.0	203.5	116.0	108.0	86.0
Merged-chr13-45571876-3	chr13	45571782	45571982	+	681.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 5 of 6)	intron (NM_001199304, intron 5 of 6)	64438.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	4.5	8.0	6.0	132.5	7.5	11.5	5.5	12.0
Merged-chr15-39777339-7	chr15	39777196	39777396	+	952.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022722, intron 9 of 9)	intron (NM_022722, intron 9 of 9)	-19749.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	9.5	13.5	32.5	298.5	63.0	21.0	37.5	27.5
Merged-chr11-102431186-4	chr11	102431108	102431308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008175, intron 1 of 12)	intron (NM_008175, intron 1 of 12)	886.0	NM_008175	14824.0	Mm.1568	NM_008175	ENSMUSG00000034708	Grn	Pgrn|epithelin	granulin	protein-coding	18.5	48.0	7.5	171.5	53.0	34.5	19.5	24.0
Merged-chr17-27033008-4	chr17	27032918	27033118	+	932.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027544, intron 4 of 5)	intron (NM_027544, intron 4 of 5)	3759.0	NM_027544	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	7.5	14.0	6.0	109.0	51.0	15.0	11.0	6.5
Merged-chr6-127542166-3	chr6	127542074	127542274	+	875.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35801.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	4.0	7.0	2.5	134.0	27.0	5.0	5.0	16.0
Merged-chr9-110783805-4	chr9	110783685	110783885	+	833.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14400.0	NM_153099	235628.0	Mm.292285	NM_153099	ENSMUSG00000044664	Prss42	Tessp2	protease, serine 42	protein-coding	14.5	22.0	10.5	236.5	35.0	7.0	15.5	6.0
Merged-chr8-127440734-4	chr8	127440639	127440839	+	891.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033620, intron 20 of 24)	intron (NM_033620, intron 20 of 24)	141087.0	NM_001013580	93742.0	Mm.299254	NM_033620	ENSMUSG00000025812	Pard3	AA960621|AI256638|Asip|D8Ertd580e|Par-3|Par3|Pard-3|Pard3a|Phip	par-3 family cell polarity regulator	protein-coding	0.0	9.5	2.0	71.0	91.0	20.5	35.5	26.5
Merged-chr16-92433646-4	chr16	92433499	92433699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	32570.0	NM_001081549	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	15.5	62.0	29.0	306.5	46.5	32.0	23.5	16.5
Merged-chr2-121413807-4	chr2	121413722	121413922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007952)	promoter-TSS (NM_007952)	-30.0	NM_153075	212670.0	Mm.384318	NM_153075	ENSMUSG00000033486	Catsper2	-	cation channel, sperm associated 2	protein-coding	321.0	431.0	359.5	4961.0	892.5	332.0	395.5	332.5
Merged-chr6-54058941-4	chr6	54058860	54059060	+	988.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	19028.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	28.5	22.0	21.5	511.5	59.5	16.0	21.5	18.5
Merged-chr6-88893712-2	chr6	88893612	88893812	+	850.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008564, intron 2 of 15)	intron (NM_008564, intron 2 of 15)	5068.0	NM_008564	17216.0	Mm.16711	NM_008564	ENSMUSG00000002870	Mcm2	AA959861|AW476101|BM28|CDCL1|Mcmd2|mKIAA0030	minichromosome maintenance complex component 2	protein-coding	5.5	6.0	4.5	38.5	6.5	3.5	3.5	8.0
Merged-chr18-39359548-2	chr18	39359448	39359648	+	780.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175164, intron 21 of 22)	intron (NM_175164, intron 21 of 22)	127697.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	5.5	3.0	0.5	36.5	20.0	6.5	8.5	6.0
Merged-chr6-55203357-4	chr6	55203273	55203473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177883)	promoter-TSS (NM_177883)	-10.0	NM_177883	330323.0	Mm.268997	NM_177883	ENSMUSG00000038022	Mindy4	C330043M08Rik|Fam188b|Gm1406	MINDY lysine 48 deubiquitinase 4	protein-coding	48.5	36.0	44.5	574.0	91.0	42.0	65.5	45.5
Merged-chr4-83288798-3	chr4	83288676	83288876	+	719.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 2 of 19)	ORR1D2|LTR|ERVL-MaLR	35413.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	7.0	9.0	5.5	77.0	6.0	3.5	4.0	2.5
Merged-chr1-39493831-4	chr1	39493729	39493929	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-15074.0	NM_001357521	54610.0	Mm.387293	NM_018775	ENSMUSG00000003134	Tbc1d8	AD3|HBLP1|VRP	TBC1 domain family, member 8	protein-coding	24.5	36.5	17.0	443.0	59.5	7.5	9.5	30.0
Merged-chr11-82924089-2	chr11	82923989	82924189	+	725.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_178680, intron 9 of 19)	B2_Mm1t|SINE|B2	12836.0	NM_178680	217012.0	Mm.295205	NM_178680	ENSMUSG00000018845	Unc45b	AA445617|Cmya4|D230041A13Rik|Unc45	unc-45 myosin chaperone B	protein-coding	9.5	5.5	6.5	53.0	19.5	1.0	1.0	5.0
Merged-chr15-95828209-4	chr15	95828116	95828316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	intron (NR_155276, intron 1 of 1)	1856.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	77.0	88.0	90.0	1442.0	175.0	76.5	67.0	90.0
Merged-chr11-106289649-3	chr11	106289545	106289745	+	888.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12251.0	NM_008117	14599.0	Mm.343934	NM_008117	ENSMUSG00000020713	Gh	Gh1|Ghb1	growth hormone	protein-coding	6.0	5.0	11.0	147.0	29.0	2.5	7.0	6.0
Merged-chr16-23108132-7	chr16	23108042	23108242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030705)	promoter-TSS (NR_030705)	674.0	NM_001347179	13682.0	Mm.260084	NM_013506	ENSMUSG00000022884	Eif4a2	4833432N07Rik|BM-010|Ddx2b|Eif4|eIF-4A-II|eIF4A-II	eukaryotic translation initiation factor 4A2	protein-coding	39.5	74.0	43.5	389.0	102.5	55.0	36.0	56.0
Merged-chr12-110601387-4	chr12	110601274	110601474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030238)	promoter-TSS (NM_030238)	-21.0	NM_030238	13424.0	Mm.181430	NM_030238	ENSMUSG00000018707	Dync1h1	9930018I23Rik|AI894280|DHC1|DHC1a|DNCL|Dnchc1|Dnec1|Dnecl|Loa|MAP1C|P22|Swl|mKIAA0325	dynein cytoplasmic 1 heavy chain 1	protein-coding	111.0	195.0	78.5	1541.0	300.5	105.0	125.5	105.5
Merged-chr3-103872752-4	chr3	103872642	103872842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104070, intron 3 of 22)	intron (NR_104070, intron 3 of 22)	12465.0	NM_008979	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	41.5	38.0	37.5	729.0	103.0	34.0	40.0	53.5
Merged-chr3-81983326-4	chr3	81983213	81983413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7585.0	NM_019911	56720.0	Mm.258622	NM_019911	ENSMUSG00000028011	Tdo2	AA407491|TDO|TO|chky	tryptophan 2,3-dioxygenase	protein-coding	34.0	37.0	33.5	674.5	92.5	35.0	35.5	45.5
Merged-chr12-69987163-4	chr12	69987056	69987256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022028)	promoter-TSS (NM_022028)	-154.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	142.0	275.5	123.5	1953.0	361.5	179.0	146.5	92.5
Merged-chr5-66015728-4	chr5	66015642	66015842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001127382)	TTS (NM_001127382)	-11457.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	73.0	129.5	70.5	1011.5	176.5	94.0	72.0	52.5
Merged-chr11-60209343-3	chr11	60209219	60209419	+	838.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358315, intron 1 of 18)	intron (NM_001358315, intron 1 of 18)	1152.0	NM_001358314	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	8.0	6.0	4.5	86.5	6.0	0.5	4.0	6.5
Merged-chr17-24736517-4	chr17	24736422	24736622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346668)	promoter-TSS (NM_001346668)	-71.0	NM_013759	27361.0	Mm.28212	NM_013759	ENSMUSG00000075705	Msrb1	D17Wsu82e|SELX|SelR|Sepr|Sepx1	methionine sulfoxide reductase B1	protein-coding	200.0	346.5	166.0	2124.5	428.5	174.0	226.5	156.0
Merged-chr10-80676050-4	chr10	80675956	80676156	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021462, intron 1 of 13)	CpG-1308	237.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	63.5	183.5	30.5	202.5	326.5	160.0	42.5	44.5
Merged-chr2-51372931-4	chr2	51372835	51373035	+	974.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64965.0	NR_130155	73375.0	Mm.396227	NR_130155	ENSMUSG00000086007	1700057H21Rik	-	RIKEN cDNA 1700057H21 gene	ncRNA	42.5	44.5	37.5	633.0	53.5	21.0	29.0	13.0
Merged-chr5-123039199-4	chr5	123039070	123039270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029112, intron 3 of 4)	intron (NM_029112, intron 3 of 4)	7846.0	NM_029112	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	30.0	37.0	21.0	265.5	93.5	18.0	23.0	24.5
Merged-chr3-127355434-4	chr3	127355336	127355536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327939, intron 1 of 45)	intron (NM_001327939, intron 1 of 45)	53622.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	43.5	55.0	51.5	1046.0	470.0	167.0	279.5	187.5
Merged-chr3-103852724-4	chr3	103852623	103852823	+	872.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142960, intron 3 of 3)	intron (NM_001142960, intron 3 of 3)	-7072.0	NR_104070	19260.0	Mm.395	NM_008979	ENSMUSG00000027843	Ptpn22	70zpep|PEP|Ptpn8	protein tyrosine phosphatase, non-receptor type 22 (lymphoid)	protein-coding	6.5	23.5	11.5	152.0	87.0	22.0	25.5	23.5
Merged-chr2-32744827-4	chr2	32744752	32744952	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001252547, exon 3 of 11)	exon (NM_001252547, exon 3 of 11)	-3836.0	NM_027529	70730.0	Mm.401360	NM_027529	ENSMUSG00000009551	6330409D20Rik	AA517851	RIKEN cDNA 6330409D20 gene	protein-coding	13.0	13.5	7.0	240.5	11.0	1.5	19.5	14.0
Merged-chr7-75681284-4	chr7	75681176	75681376	+	919.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 12 of 36)	intron (NM_029332, intron 12 of 36)	-167062.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	10.0	11.0	16.0	222.5	40.5	4.5	13.0	1.5
Merged-chr2-168541390-4	chr2	168541198	168541398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	intron (NM_001037177, intron 3 of 6)	49067.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	32.0	41.0	29.5	611.5	30.0	11.0	20.0	26.5
Merged-chr11-85250511-4	chr11	85250391	85250591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	15325.0	NR_028329	654810.0	Mm.209580	NR_028329	ENSMUSG00000085628	Appbp2os	D630032N06Rik	amyloid beta precursor protein (cytoplasmic tail) binding protein 2, opposite strand	ncRNA	43.5	52.0	70.0	587.5	61.5	39.0	23.5	29.5
Merged-chr16-22009340-4	chr16	22009252	22009452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357424)	promoter-TSS (NM_001357424)	-132.0	NM_029457	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	234.5	451.5	209.5	3089.0	690.5	249.5	277.5	269.5
Merged-chr8-14888061-2	chr8	14887961	14888161	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012000)	promoter-TSS (NM_012000)	-475.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	15.0	9.5	5.0	189.5	20.0	7.0	10.5	6.5
Merged-chr15-89067890-2	chr15	89067790	89067990	+	852.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001002005, exon 2 of 3)	exon (NM_001002005, exon 2 of 3)	7964.0	NR_040417	69120.0	Mm.276391	NR_040417	ENSMUSG00000087331	1810021B22Rik	-	RIKEN cDNA 1810021B22 gene	ncRNA	1.5	9.0	6.0	56.0	14.5	5.0	4.5	5.5
Merged-chr2-153198701-4	chr2	153198618	153198818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 13 of 17)	intron (NM_133847, intron 13 of 17)	26723.0	NM_198617	241732.0	Mm.277243	NM_198617	ENSMUSG00000074671	Tspyl3	AW212607|Gm36	TSPY-like 3	protein-coding	148.0	241.0	192.0	2019.0	420.0	144.5	144.5	158.0
Merged-chr17-69204010-4	chr17	69203911	69204111	+	887.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	44655.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	17.5	12.0	19.5	294.5	33.0	5.0	12.5	11.5
Merged-chr11-67564379-4	chr11	67564273	67564473	+	978.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008088, intron 1 of 13)	intron (NM_008088, intron 1 of 13)	-22127.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	21.0	54.0	30.5	166.5	134.5	45.5	40.5	24.5
Merged-chr12-108760744-4	chr12	108760638	108760838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32573.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	40.5	76.5	22.0	670.0	99.5	40.0	54.0	36.5
Merged-chr16-32814604-4	chr16	32814489	32814689	+	995.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4143.0	NM_001256309	381043.0	Mm.303864	NM_001256309	ENSMUSG00000094430	Smbd1	Gm1743|Gm933	somatomedin B domain containing 1	protein-coding	21.0	56.0	14.5	242.5	63.0	18.5	23.5	28.0
Merged-chr18-83981369-4	chr18	83981273	83981473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	105189.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	63.5	91.5	107.0	1585.5	274.5	74.0	176.5	95.0
Merged-chr3-142394263-4	chr3	142394152	142394352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 1 of 12)	intron (NM_001190854, intron 1 of 12)	1444.0	NM_001190853	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	44.5	61.0	41.5	951.0	117.5	27.0	48.5	58.5
Merged-chr5-142459293-4	chr5	142459201	142459401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_199068, exon 9 of 9)	3' UTR (NM_199068, exon 9 of 9)	-4630.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	73.0	102.0	57.0	1299.0	260.5	64.0	76.0	84.5
Merged-chr9-107602278-4	chr9	107602192	107602392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042779, intron 9 of 19)	intron (NM_001042779, intron 9 of 19)	3110.0	NM_009153	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	36.5	52.0	30.5	759.5	146.0	57.0	34.0	37.0
Merged-chr1-138550412-4	chr1	138550327	138550527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 2 of 9)	RLTR26_Mus|LTR|ERVK	69330.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	30.5	33.0	32.0	569.5	69.0	14.5	27.5	25.5
Merged-chr12-3856230-4	chr12	3856124	3856324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 3 of 22)	intron (NM_007872, intron 3 of 22)	6020.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	93.0	113.0	136.0	1887.0	104.5	60.5	55.0	65.5
Merged-chr11-97985488-4	chr11	97985374	97985574	+	951.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163608, intron 1 of 13)	intron (NM_001163608, intron 1 of 13)	972.0	NM_028199	72324.0	Mm.39617	NM_028199	ENSMUSG00000017417	Plxdc1	2410003I07Rik|AI848450|Tem7	plexin domain containing 1	protein-coding	16.5	11.0	12.5	174.5	36.0	22.0	23.0	12.5
Merged-chr12-100925793-4	chr12	100925681	100925881	+	977.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026681, intron 25 of 29)	intron (NM_026681, intron 25 of 29)	-17583.0	NM_001177673	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	31.5	21.5	20.5	385.5	39.5	16.0	15.5	26.0
Merged-chr17-33943546-5	chr17	33943433	33943633	+	948.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020603, intron 7 of 14)	intron (NM_020603, intron 7 of 14)	2810.0	NM_020603	57315.0	Mm.2437	NM_020603	ENSMUSG00000024312	Wdr46	2310007I04Rik|Bing4|C78447|C78559	WD repeat domain 46	protein-coding	21.5	30.0	24.5	313.0	30.0	11.0	18.5	25.5
Merged-chr11-17003030-4	chr11	17002910	17003110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	5708.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	102.5	217.0	139.0	2144.0	352.5	99.5	180.5	96.5
Merged-chr4-136355162-4	chr4	136355073	136355273	+	930.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43575.0	NM_001355182	74326.0	Mm.31051	NM_028871	ENSMUSG00000066037	Hnrnpr	2610003J05Rik|2610528B01Rik|Hnrpr	heterogeneous nuclear ribonucleoprotein R	protein-coding	11.5	24.5	5.5	153.0	32.0	19.5	13.0	8.5
Merged-chr2-180172347-3	chr2	180172256	180172456	+	877.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019822, intron 2 of 9)	intron (NM_019822, intron 2 of 9)	768.0	NM_019822	56436.0	Mm.316654	NM_019822	ENSMUSG00000039041	Adrm1	1110063P18Rik|2510006J17Rik|AA408205|ARM-1|AU043535|Arm1|Gp110|Rpn13	adhesion regulating molecule 1	protein-coding	3.0	10.0	10.0	92.5	17.0	5.0	8.0	9.0
Merged-chr10-81411823-3	chr10	81411716	81411916	+	910.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152732)	TTS (NR_152732)	2241.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	12.5	15.0	7.5	116.5	20.0	5.5	3.5	6.0
Merged-chr14-50939160-4	chr14	50939067	50939267	+	969.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	-5136.0	NM_013632	18950.0	Mm.17932	NM_013632	ENSMUSG00000115338	Pnp	AL024301|AU015798|Np|Np-1|Np-2|Pnp1	purine-nucleoside phosphorylase	protein-coding	30.0	33.0	12.5	323.5	63.5	24.0	32.0	15.5
Merged-chr7-129301691-4	chr7	129301585	129301785	+	826.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080963, intron 1 of 6)	intron (NM_001080963, intron 1 of 6)	44591.0	NM_001080963	381925.0	Mm.39184	NM_001080963	ENSMUSG00000070366	Plpp4	C030048B12Rik|Gm1090|Ppapdc1a	phospholipid phosphatase 4	protein-coding	9.0	20.0	12.5	234.5	53.5	12.5	10.0	15.5
Merged-chr11-79877368-4	chr11	79877263	79877463	+	887.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	85024.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	20.5	16.0	32.5	363.5	10.0	7.0	12.5	18.5
Merged-chr10-13560453-4	chr10	13560319	13560519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025748, intron 3 of 5)	intron (NM_025748, intron 3 of 5)	-7277.0	NM_001347361	56535.0	Mm.282711	NM_019961	ENSMUSG00000019809	Pex3	1700014F15Rik|2810027F19Rik|2900010N04Rik	peroxisomal biogenesis factor 3	protein-coding	29.5	37.5	31.0	706.5	87.5	20.0	44.5	42.0
Merged-chr3-85604568-4	chr3	85604462	85604662	+	866.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144896, exon 4 of 13)	exon (NM_144896, exon 4 of 13)	30433.0	NM_144896	229487.0	Mm.52275	NM_144896	ENSMUSG00000028085	Gatb	9430026F02Rik|Pet112|Pet112l	glutamyl-tRNA(Gln) amidotransferase, subunit B	protein-coding	6.0	9.0	10.0	207.5	15.5	5.5	15.0	12.0
Merged-chr8-117577189-3	chr8	117577065	117577265	+	822.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 9 of 32)	ORR1E|LTR|ERVL-MaLR	78890.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	8.0	7.0	3.0	66.0	7.5	7.0	5.5	6.5
Merged-chr5-136116642-4	chr5	136116553	136116753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011293)	promoter-TSS (NM_011293)	-38.0	NM_011293	20022.0	Mm.4896	NM_011293	ENSMUSG00000039771	Polr2j	14.5kDa|Polr2i|Rpb11a|Rpo2-4	polymerase (RNA) II (DNA directed) polypeptide J	protein-coding	75.5	168.0	66.5	1115.5	235.5	113.0	85.5	81.0
Merged-chr4-9243683-4	chr4	9243594	9243794	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-25599.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	32.0	35.0	40.5	1063.0	59.0	11.5	37.5	40.0
Merged-chr13-55105368-4	chr13	55105374	55105574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_012017, exon 1 of 7)	exon (NM_012017, exon 1 of 7)	165.0	NM_012017	26919.0	Mm.22795	NM_012017	ENSMUSG00000021481	Zfp346	Jaz|Znf346	zinc finger protein 346	protein-coding	14.5	22.5	19.5	241.0	38.5	17.0	10.0	24.0
Merged-chr4-123904943-4	chr4	123904842	123905042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019660)	promoter-TSS (NM_019660)	-71.0	NM_019660	56309.0	Mm.446553	NM_019660	ENSMUSG00000028647	Mycbp	5730488M09Rik|AW552132|AW742590|Amy-1	MYC binding protein	protein-coding	204.0	218.5	145.5	1986.5	417.0	156.5	204.0	155.0
Merged-chr12-25100355-1	chr12	25100255	25100455	+	691.0	f0_balb.idr	Intergenic	Intergenic	-4263.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	9.0	5.0	15.5	94.5	24.0	6.5	12.5	11.0
Merged-chr1-181228577-4	chr1	181228451	181228651	+	858.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16573.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	21.0	10.0	11.5	164.5	24.0	10.5	10.0	12.0
Merged-chr11-73025292-4	chr11	73025206	73025406	+	685.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018883, intron 1 of 15)	intron (NM_018883, intron 1 of 15)	6298.0	NM_018883	55984.0	Mm.9998	NM_018883	ENSMUSG00000020785	Camkk1	AI846603|CaMKKalpha|Camkk	calcium/calmodulin-dependent protein kinase kinase 1, alpha	protein-coding	6.0	4.5	7.0	119.5	20.0	5.0	5.5	13.0
Merged-chr14-27230219-4	chr14	27230091	27230291	+	793.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289686, intron 3 of 12)	MLT1N2|LTR|ERVL-MaLR	-7819.0	NM_027871	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	0.5	6.0	4.0	58.5	12.5	11.5	11.0	6.5
Merged-chr5-103654345-2	chr5	103654245	103654445	+	583.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028824, intron 2 of 3)	B3|SINE|B2	1379.0	NM_028824	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	0.5	6.5	2.5	62.0	6.5	7.5	6.5	7.5
Merged-chr14-118231167-2	chr14	118231067	118231267	+	828.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5065.0	NR_131969	105245869.0	Mm.460408	NR_131969	ENSMUSG00000090534	LOC105245869	-	uncharacterized LOC105245869	ncRNA	8.5	5.5	10.0	82.0	3.0	4.5	4.0	3.5
Merged-chr19-47531387-3	chr19	47531274	47531474	+	991.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175360, intron 2 of 9)	intron (NM_175360, intron 2 of 9)	5745.0	NM_175360	108689.0	Mm.218048	NM_175360	ENSMUSG00000042694	Stn1	0610009H20Rik|2310057J23Rik|AAF-44|AAF44|AI413458|Obfc1|RPA-32	STN1, CST complex subunit	protein-coding	15.0	31.5	27.0	347.5	16.5	6.5	13.5	7.0
Merged-chr10-128259108-4	chr10	128259013	128259213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	4982.0	NM_133996	28194.0	Mm.439846	NM_133996	ENSMUSG00000051716	Apon	AI195275|D10Ucla2	apolipoprotein N	protein-coding	40.0	48.5	39.5	732.0	60.0	24.0	26.5	27.5
Merged-chr18-68337447-4	chr18	68337350	68337550	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013596)	promoter-TSS (NM_013596)	-153.0	NM_013596	17203.0	Mm.8003	NM_013596	ENSMUSG00000007480	Mc5r	-	melanocortin 5 receptor	protein-coding	17.0	24.5	26.0	200.5	27.0	9.0	15.5	19.0
Merged-chr1-92708410-4	chr1	92708300	92708500	+	924.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59559.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	21.5	19.0	24.0	435.0	33.0	15.0	19.5	11.0
Merged-chr10-98494522-4	chr10	98494414	98494614	+	848.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-142647.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	8.0	7.5	11.0	187.5	25.0	10.5	15.0	9.5
Merged-chr5-96161085-3	chr5	96160982	96161182	+	821.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144910, intron 1 of 11)	CpG	465.0	NM_001285511	231464.0	Mm.28374	NM_144910	ENSMUSG00000034724	Cnot6l	4932442K20Rik	CCR4-NOT transcription complex, subunit 6-like	protein-coding	7.0	13.5	15.5	118.0	21.0	3.0	6.0	12.5
Merged-chr13-94711504-4	chr13	94711409	94711609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	A-rich|Low_complexity|Low_complexity	-77434.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	26.0	40.0	47.0	657.5	56.0	22.5	23.0	39.0
Merged-chr11-46265093-2	chr11	46264993	46265193	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 13 of 30)	MTC|LTR|ERVL-MaLR	29536.0	NM_177075	320116.0	Mm.39600	NM_177075	ENSMUSG00000048721	Fndc9	C030019I05Rik	fibronectin type III domain containing 9	protein-coding	10.0	30.0	16.0	147.0	33.0	12.5	15.5	20.5
Merged-chr12-116462001-4	chr12	116461917	116462117	+	839.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133762, exon 29 of 29)	3' UTR (NM_133762, exon 29 of 29)	-23703.0	NM_011215	19276.0	Mm.206054	NM_011215	ENSMUSG00000056553	Ptprn2	4930425H11Rik|IA2beta|PTP-NP|Phol|mKIAA0387|phogrin	protein tyrosine phosphatase, receptor type, N polypeptide 2	protein-coding	6.0	15.0	16.5	185.0	30.5	2.0	12.5	22.0
Merged-chr4-127124546-2	chr4	127124448	127124648	+	676.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001285885)	TTS (NM_001285885)	-1495.0	NM_001099319	100039968.0	Mm.392655	NM_001099319	ENSMUSG00000070737	Tmem35b	Gm12942|Zmym6nb	transmembrane protein 35B	protein-coding	4.5	18.5	2.5	35.5	27.5	14.0	6.5	5.0
Merged-chr11-53532420-4	chr11	53532331	53532531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252333, intron 2 of 9)	intron (NM_001252333, intron 2 of 9)	12243.0	NM_001361969	20362.0	Mm.274399	NM_033144	ENSMUSG00000018398	Sept8	AW046166|Sepl	septin 8	protein-coding	92.0	102.5	55.0	671.5	205.5	63.0	58.5	67.5
Merged-chr11-3168544-2	chr11	3168433	3168633	+	970.75	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 7 of 32)	(TG)n|Simple_repeat|Simple_repeat	24930.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	12.0	6.5	15.5	126.5	3.5	0.0	1.0	1.5
Merged-chr10-63339070-4	chr10	63338957	63339157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019812)	promoter-TSS (NM_019812)	-22.0	NM_001159589	93759.0	Mm.351459	NM_019812	ENSMUSG00000020063	Sirt1	AA673258|SIR2L1|Sir2|Sir2a|Sir2alpha	sirtuin 1	protein-coding	152.5	217.5	189.5	2246.0	355.0	150.5	129.0	134.5
Merged-chr8-95001855-4	chr8	95001760	95001960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018882, intron 1 of 13)	intron (NM_018882, intron 1 of 13)	-15832.0	NM_173036	54672.0	Mm.27995	NM_173036	ENSMUSG00000060470	Adgrg3	A030001G24Rik|AW214383|Gpr97|Pb1|Pb99	adhesion G protein-coupled receptor G3	protein-coding	36.0	50.0	17.5	337.0	64.0	35.0	27.5	27.5
Merged-chr2-160569710-4	chr2	160569578	160569778	+	959.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76219.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	4.5	9.5	8.5	112.5	21.5	8.0	9.5	12.5
Merged-chr3-130878995-4	chr3	130878896	130879096	+	945.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-148598.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	20.5	16.5	13.0	490.5	56.0	15.0	30.5	19.0
Merged-chr15-25828647-4	chr15	25828528	25828728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14670.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	175.0	249.5	238.5	3852.5	393.5	146.5	231.0	197.5
Merged-chr10-7473684-4	chr10	7473608	7473808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029975)	promoter-TSS (NM_029975)	-231.0	NM_029975	77777.0	Mm.442442	NM_029975	ENSMUSG00000079685	Ulbp1	A430108B07Rik|MULT1	UL16 binding protein 1	protein-coding	41.0	72.5	54.5	974.5	145.5	49.5	49.0	53.0
Merged-chr16-44126647-4	chr16	44126543	44126743	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	12616.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	17.5	4.0	17.5	339.5	48.0	15.5	21.5	22.0
Merged-chr4-43728743-3	chr4	43728662	43728862	+	858.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027511)	TTS (NM_027511)	-1272.0	NM_001348108	71406.0	Mm.33063	NM_027789	ENSMUSG00000028475	Spaar	5430416O09Rik|AI481365|Spar	small regulatory polypeptide of amino acid response	protein-coding	6.5	23.0	5.0	112.0	4.0	2.0	1.0	3.5
Merged-chr8-105858702-4	chr8	105858599	105858799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1834.0	NM_026532	68051.0	Mm.455474	NM_026532	ENSMUSG00000008450	Nutf2	2700067I02Rik|AI115459|AI413596|AW546000|Ntf2|Ntf3|PP15	nuclear transport factor 2	protein-coding	84.0	116.0	41.0	958.0	137.0	49.0	76.0	71.0
Merged-chr9-103108599-1	chr9	103108499	103108699	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-3475.0	NM_173781	270192.0	Mm.490252	NM_173781	ENSMUSG00000032549	Rab6b	9630015C03|AI844641|C330006L04Rik|D9Bwg0185e	RAB6B, member RAS oncogene family	protein-coding	1.0	0.0	0.0	0.0	81.0	24.0	24.0	34.0
Merged-chr7-128032859-2	chr7	128032759	128032959	+	731.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	28481.0	NM_001079932	434246.0	Mm.389924	NM_001079932	ENSMUSG00000042828	Trim72	BC067209|MG53	tripartite motif-containing 72	protein-coding	5.5	5.0	5.5	10.0	12.0	1.5	3.5	4.5
Merged-chr9-21003458-3	chr9	21003373	21003573	+	988.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357899, intron 3 of 8)	intron (NM_001357899, intron 3 of 8)	736.0	NM_001357899	66163.0	Mm.427576	NM_023167	ENSMUSG00000003299	Mrpl4	1110017G11Rik	mitochondrial ribosomal protein L4	protein-coding	12.0	21.0	16.5	216.0	37.5	8.5	6.0	9.0
Merged-chr5-143526898-4	chr5	143526781	143526981	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347530, intron 1 of 6)	intron (NM_001347530, intron 1 of 6)	1112.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	17.0	47.0	22.0	415.0	50.0	20.0	25.5	12.0
Merged-chr12-99225429-4	chr12	99225311	99225511	+	962.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183186, intron 4 of 5)	intron (NM_183186, intron 4 of 5)	-62603.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	31.0	52.0	35.0	644.5	68.5	10.0	33.0	24.5
Merged-chr3-154305613-4	chr3	154305529	154305729	+	875.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010713)	TTS (NM_010713)	24931.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	13.5	14.5	14.0	500.5	32.5	5.5	10.5	8.5
Merged-chr5-143050467-4	chr5	143050382	143050582	+	978.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	PB1D11|SINE|Alu	62538.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	18.0	19.5	14.5	193.0	72.5	21.0	31.5	20.0
Merged-chr7-30917416-4	chr7	30917314	30917514	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-2492.0	NM_010758	17136.0	Mm.241355	NM_010758	ENSMUSG00000036634	Mag	Gma|siglec-4a	myelin-associated glycoprotein	protein-coding	16.5	12.0	11.0	193.0	50.5	8.0	15.0	19.5
Merged-chr18-12236462-4	chr18	12236349	12236549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008720)	promoter-TSS (NM_008720)	-63.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	258.5	373.0	218.5	3227.0	555.0	228.5	319.5	203.0
Merged-chr19-14641930-3	chr19	14641828	14642028	+	890.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43745.0	NM_001302947	21888.0	Mm.103638	NM_011600	ENSMUSG00000024642	Tle4	5730411M05Rik|AA792082|Bce-1|Bce1|ESTM13|ESTM14|Grg4|X83332|X83333|grg-4	transducin-like enhancer of split 4	protein-coding	6.0	8.0	8.5	271.5	14.5	7.5	13.0	4.0
Merged-chr7-90426457-4	chr7	90426359	90426559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027298, exon 1 of 1)	5' UTR (NM_027298, exon 1 of 1)	147.0	NM_027298	70054.0	Mm.307198	NM_027298	ENSMUSG00000044362	Ccdc89	1700019B01Rik|AU022100|BOIP	coiled-coil domain containing 89	protein-coding	166.5	191.0	114.0	2513.0	311.0	92.0	137.5	98.0
Merged-chr15-97175211-4	chr15	97175121	97175321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7977.0	NR_155279	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	60.5	46.0	97.0	1202.5	158.0	46.5	54.0	55.0
Merged-chr5-65491911-4	chr5	65491819	65492019	+	838.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133697, intron 1 of 4)	intron (NM_133697, intron 1 of 4)	916.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	12.0	11.0	10.5	105.0	32.5	6.0	8.0	12.0
Merged-chr2-153338550-3	chr2	153338469	153338669	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7241.0	NR_040318	72326.0	Mm.400102	NR_040318	ENSMUSG00000073236	2500004C02Rik	-	RIKEN cDNA 2500004C02 gene	ncRNA	8.5	7.5	18.0	180.0	4.5	3.0	5.0	5.0
Merged-chr5-67875378-2	chr5	67875278	67875478	+	822.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-27947.0	NM_001038999	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	5.5	8.5	7.5	58.5	15.5	1.0	7.5	5.0
Merged-chr18-67449327-4	chr18	67449225	67449425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027130)	promoter-TSS (NM_027130)	-189.0	NM_027130	69597.0	Mm.426052	NM_027130	ENSMUSG00000024527	Afg3l2	2310036I02Rik|AW260507|Emv66|par	AFG3-like AAA ATPase 2	protein-coding	263.5	389.0	209.0	2180.5	656.5	255.5	238.0	182.5
Merged-chr6-122811884-4	chr6	122811784	122811984	+	994.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8300.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	30.0	44.0	16.5	435.0	96.5	28.0	32.0	33.0
Merged-chr9-107645795-4	chr9	107645743	107645943	+	741.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10501.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	10.0	7.5	7.0	45.5	16.5	6.5	13.5	6.5
Merged-chr11-50291034-4	chr11	50290921	50291121	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 1 of 4)	intron (NM_175334, intron 1 of 4)	1315.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	12.0	40.0	16.5	279.0	75.0	20.5	22.0	22.5
Merged-chr8-8239704-4	chr8	8239595	8239795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	421078.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	57.0	85.0	64.5	1634.0	170.5	64.5	105.5	70.0
Merged-chr10-39387221-3	chr10	39387120	39387320	+	942.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122893, intron 1 of 13)	intron (NM_001122893, intron 1 of 13)	17421.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	7.0	11.5	6.5	177.0	9.5	2.0	1.5	1.0
Merged-chr7-140116483-4	chr7	140116385	140116585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053119)	promoter-TSS (NM_053119)	-62.0	NM_053119	93747.0	Mm.24452	NM_053119	ENSMUSG00000025465	Echs1	C80529	enoyl Coenzyme A hydratase, short chain, 1, mitochondrial	protein-coding	105.5	124.0	89.0	1638.0	305.0	86.0	115.5	99.0
Merged-chr7-98805057-4	chr7	98804958	98805158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30054.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	196.0	183.0	250.0	2712.5	336.5	135.5	195.5	145.0
Merged-chr11-5762275-6	chr11	5762184	5762384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361588)	promoter-TSS (NM_001361588)	92.0	NM_001361588	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	77.5	99.0	109.0	920.0	151.0	105.0	65.0	93.5
Merged-chr4-149774287-4	chr4	149774173	149774373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027460)	promoter-TSS (NM_027460)	-6.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	235.5	373.0	220.5	2645.5	572.0	214.5	275.0	221.0
Merged-chr19-6365121-2	chr19	6365021	6365221	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360393, intron 1 of 11)	intron (NM_001360393, intron 1 of 11)	1431.0	NR_122118	22668.0	Mm.256422	NM_011750	ENSMUSG00000024949	Sf1	BBP|MZFM|WBP4|Zfp162	splicing factor 1	protein-coding	13.5	10.0	10.5	57.5	18.0	6.5	6.0	6.5
Merged-chr5-125364094-4	chr5	125364000	125364200	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23006.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	29.5	23.0	48.5	971.0	33.5	15.5	27.0	27.0
Merged-chr16-33885102-4	chr16	33884988	33885188	+	904.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010580, exon 5 of 15)	exon (NM_010580, exon 5 of 15)	55423.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	11.0	11.0	14.5	212.5	29.0	3.5	12.0	13.5
Merged-chr13-44679421-1	chr13	44679321	44679521	+	703.666687	f0_balb.idr	Intergenic	RLTR45|LTR|ERVK	-51353.0	NM_021878	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	17.5	12.0	13.0	48.0	1.0	1.0	0.0	3.5
Merged-chr18-82872323-3	chr18	82872237	82872437	+	693.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16440.0	NR_125720	73985.0	Mm.399211	NR_125720	ENSMUSG00000097738	4930445N18Rik	3010027C24Rik	RIKEN cDNA 4930445N18 gene	ncRNA	7.5	6.0	5.5	120.0	14.0	2.5	10.0	0.5
Merged-chr3-61416109-4	chr3	61416009	61416209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51602.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	113.5	218.0	166.5	1867.5	390.5	129.5	95.5	108.0
Merged-chr11-73160308-4	chr11	73160204	73160404	+	973.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033321)	promoter-TSS (NM_033321)	-226.0	NM_033321	94045.0	Mm.156893	NM_033321	ENSMUSG00000005950	P2rx5	P2X5	purinergic receptor P2X, ligand-gated ion channel, 5	protein-coding	17.0	29.5	29.0	207.5	76.5	17.5	18.0	20.5
Merged-chr5-3596198-4	chr5	3596096	3596296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172991, exon 1 of 5)	exon (NM_172991, exon 1 of 5)	130.0	NM_001293806	71382.0	Mm.379196	NM_027777	ENSMUSG00000005907	Pex1	5430414H02Rik|E330005K07Rik|ZWS1	peroxisomal biogenesis factor 1	protein-coding	200.0	302.5	202.5	3832.5	623.0	230.0	351.5	237.5
Merged-chr16-23272365-4	chr16	23272267	23272467	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 2 of 7)	intron (NM_001252505, intron 2 of 7)	-18103.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	141.5	188.0	118.0	1692.0	294.5	124.0	116.5	94.5
Merged-chr7-100121556-4	chr7	100121442	100121642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133692)	promoter-TSS (NM_133692)	-42.0	NM_133692	67967.0	Mm.37562	NM_133692	ENSMUSG00000030726	Pold3	2410142G14Rik|C85233|P66|P68	polymerase (DNA-directed), delta 3, accessory subunit	protein-coding	140.5	224.5	76.0	1426.5	391.0	106.5	129.0	123.5
Merged-chr10-89442815-4	chr10	89442707	89442907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079876, intron 1 of 10)	intron (NM_001079876, intron 1 of 10)	1160.0	NM_001284344	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	36.5	53.5	27.5	425.5	145.5	30.5	24.0	40.5
Merged-chr11-78194901-4	chr11	78194798	78194998	+	895.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045516, intron 1 of 3)	intron (NM_001045516, intron 1 of 3)	1506.0	NM_001045516	216974.0	Mm.50974	NM_001045516	ENSMUSG00000044122	Proca1	4933404M19Rik	protein interacting with cyclin A1	protein-coding	15.5	12.0	9.5	150.0	18.0	16.5	4.5	14.0
Merged-chr5-43868879-4	chr5	43868755	43868955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007646)	promoter-TSS (NM_007646)	46.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	75.0	138.0	128.0	1026.5	333.5	160.5	179.0	105.5
Merged-chr16-91352260-4	chr16	91352126	91352326	+	919.787476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20557.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	7.0	27.5	12.0	194.5	35.0	19.5	8.0	18.0
Merged-chr2-12418931-4	chr2	12418838	12419038	+	849.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355537, intron 1 of 13)	CpG	522.0	NM_001355537	66960.0	Mm.34059	NM_024185	ENSMUSG00000026767	Mindy3	1810041E18Rik|2310047O13Rik|5830410F13Rik|AI447827|AW111958|Fam188a	MINDY lysine 48 deubiquitinase 3	protein-coding	13.0	12.0	13.5	195.5	18.5	9.0	9.0	16.0
Merged-chr7-125552242-4	chr7	125552144	125552344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008700)	promoter-TSS (NM_001008700)	-38.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	94.0	143.5	87.5	1151.5	298.5	118.5	134.5	101.0
Merged-chr16-33891768-4	chr16	33891667	33891867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 5 of 14)	intron (NM_001145884, intron 5 of 14)	62102.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	92.5	125.5	89.0	1552.0	204.0	76.0	86.0	83.5
Merged-chr12-116028332-2	chr12	116028211	116028411	+	661.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-19413.0	NM_001004066	56220.0	Mm.254997	NM_019565	ENSMUSG00000042063	Zfp386	Kzf1|mKIAA4205	zinc finger protein 386 (Kruppel-like)	protein-coding	11.5	14.0	5.5	202.0	8.5	7.0	5.0	3.0
Merged-chr7-110389058-4	chr7	110388955	110389155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	intron (NM_177324, intron 17 of 40)	167352.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	18.5	33.5	29.5	329.0	58.0	22.5	23.0	35.0
Merged-chr4-150138267-4	chr4	150138159	150138359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019741, intron 7 of 13)	intron (NM_019741, intron 7 of 13)	-10713.0	NM_001085529	435818.0	Mm.359648	NM_001085529	ENSMUSG00000062064	Slc2a7	-	solute carrier family 2 (facilitated glucose transporter), member 7	protein-coding	28.5	62.5	29.5	446.5	139.0	41.5	34.5	46.0
Merged-chr4-102566628-4	chr4	102566516	102566716	+	966.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-3444.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	51.0	42.0	35.0	611.5	84.0	15.5	42.5	43.5
Merged-chr9-5274542-4	chr9	5274446	5274646	+	830.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-23971.0	NM_009807	12362.0	Mm.1051	NM_009807	ENSMUSG00000025888	Casp1	ICE|Il1bc	caspase 1	protein-coding	2.0	5.0	11.5	106.0	44.0	11.0	7.0	10.0
Merged-chr6-146619680-3	chr6	146619578	146619778	+	997.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026281, intron 5 of 11)	intron (NM_026281, intron 5 of 11)	14914.0	NM_026281	67623.0	Mm.278037	NM_026281	ENSMUSG00000040234	Tm7sf3	2010003B14Rik|NARP1	transmembrane 7 superfamily member 3	protein-coding	13.0	29.0	36.5	429.5	3.0	0.0	2.0	2.0
Merged-chr8-61908651-4	chr8	61908546	61908746	+	987.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5952.0	NM_001293772	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	34.0	27.5	25.0	767.0	53.5	17.5	17.0	19.0
Merged-chr1-36279349-4	chr1	36279257	36279457	+	972.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5932.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	20.0	29.5	15.5	289.5	83.0	20.0	15.5	31.0
Merged-chr2-120404147-4	chr2	120404020	120404220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110496)	promoter-TSS (NM_001110496)	-4.0	NM_001110496	211499.0	Mm.260712	NM_173734	ENSMUSG00000033808	Tmem87a	A930025J12Rik	transmembrane protein 87A	protein-coding	106.5	137.5	49.5	879.0	196.0	84.0	77.0	64.5
Merged-chr11-20333183-3	chr11	20333103	20333303	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018861)	promoter-TSS (NM_018861)	-490.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	29.0	42.5	47.0	581.0	58.0	27.5	26.5	32.0
Merged-chr16-36621247-3	chr16	36621126	36621326	+	990.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 2 of 7)	intron (NM_019388, intron 2 of 7)	44851.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	16.0	17.5	13.5	368.0	17.5	9.0	10.0	8.5
Merged-chr5-143547602-4	chr5	143547511	143547711	+	881.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1095.0	NM_133703	67238.0	Mm.383219	NM_026050	ENSMUSG00000083012	Fam220a	1500026F15Rik|2810453I06Rik|AW047776|Acpin1|Sipar	family with sequence similarity 220, member A	protein-coding	14.0	9.0	7.5	151.0	35.0	14.0	11.0	11.5
Merged-chr17-69223653-4	chr17	69223553	69223753	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 3 of 21)	intron (NM_001355736, intron 3 of 21)	53553.0	NR_045428	69750.0	Mm.439063	NR_045428	ENSMUSG00000100572	2410021H03Rik	-	RIKEN cDNA 2410021H03 gene	ncRNA	24.0	25.5	22.0	451.0	42.5	13.5	20.5	19.0
Merged-chr3-89216022-4	chr3	89215850	89216050	+	946.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_149740)	promoter-TSS (NR_149740)	-638.0	NR_149740	21827.0	Mm.2114	NM_013691	ENSMUSG00000028047	Thbs3	TSP3|Thbs-3	thrombospondin 3	protein-coding	5.0	11.0	11.5	82.0	26.5	8.0	2.5	18.0
Merged-chr10-119051934-4	chr10	119051840	119052040	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1441.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	23.0	17.5	16.5	182.5	18.5	5.0	14.0	15.5
Merged-chr6-38349216-3	chr6	38349103	38349303	+	853.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	B2_Mm1a|SINE|B2	5400.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	7.0	19.5	5.0	60.0	18.5	10.0	7.0	11.0
Merged-chr10-34215848-3	chr10	34215731	34215931	+	825.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8280.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	5.0	7.5	4.5	51.0	22.5	4.5	10.0	10.5
Merged-chr8-61540044-4	chr8	61539929	61540129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081390, intron 10 of 19)	intron (NM_001081390, intron 10 of 19)	51140.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	27.5	49.5	27.0	535.5	110.0	29.0	58.0	26.5
Merged-chr4-58952144-3	chr4	58952040	58952240	+	749.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355408, intron 5 of 6)	intron (NM_001355408, intron 5 of 6)	8512.0	NM_001355408	100041581.0	Mm.463942	NM_001099323	ENSMUSG00000038630	Zkscan16	XM_143800|Zfp483	zinc finger with KRAB and SCAN domains 16	protein-coding	9.0	21.0	5.5	106.5	9.0	3.5	9.0	3.0
Merged-chr2-5605987-1	chr2	5605887	5606087	+	696.0	f0_balb.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	70059.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	12.0	16.0	8.0	94.5	1.0	2.5	2.5	3.5
Merged-chr6-142391166-4	chr6	142391075	142391275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025872, intron 1 of 4)	intron (NM_025872, intron 1 of 4)	3932.0	NM_025872	66964.0	Mm.3676	NM_025872	ENSMUSG00000030245	Golt1b	2310061A22Rik|AA407874|AU024291|CGI-141	golgi transport 1B	protein-coding	25.0	40.0	21.0	443.0	77.0	25.5	39.5	30.0
Merged-chr3-38128690-4	chr3	38128605	38128805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79414.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	28.5	39.5	41.0	639.5	56.0	18.5	30.5	22.0
Merged-chr9-77910732-4	chr9	77910657	77910857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6608.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	293.0	552.5	326.0	5383.0	845.5	283.5	469.5	323.0
Merged-chr2-145859507-4	chr2	145859394	145859594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 8 of 12)	intron (NM_028724, intron 8 of 12)	-43747.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	75.0	92.0	67.5	1226.0	114.5	30.0	56.5	28.0
Merged-chr13-34257128-4	chr13	34257029	34257229	+	868.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	88053.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	7.5	12.0	10.5	188.5	22.0	6.0	12.5	5.5
Merged-chr11-76997482-3	chr11	76997366	76997566	+	793.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1131.0	NM_010484	15567.0	Mm.300318	NM_010484	ENSMUSG00000020838	Slc6a4	5-HTT|AI323329|Htt|Sert	solute carrier family 6 (neurotransmitter transporter, serotonin), member 4	protein-coding	10.0	9.0	11.0	89.5	15.0	12.0	4.5	2.0
Merged-chr3-86998782-4	chr3	86998694	86998894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007639, exon 2 of 6)	exon (NM_007639, exon 2 of 6)	546.0	NM_007639	12479.0	Mm.1894	NM_007639	ENSMUSG00000028076	Cd1d1	AI747460|CD1.1|Cd1a|Cd1d|Ly-38	CD1d1 antigen	protein-coding	36.0	50.5	38.5	375.5	60.5	27.0	24.0	31.0
Merged-chr4-129019044-4	chr4	129018945	129019145	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25821.0	NM_001033966	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	19.5	58.0	24.0	203.5	61.5	22.0	30.0	20.0
Merged-chr11-50208895-2	chr11	50208795	50208995	+	885.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290769, intron 1 of 7)	B3A|SINE|B2	1925.0	NM_001290769	18412.0	Mm.40828	NM_011018	ENSMUSG00000015837	Sqstm1	A170|OSF-6|Osi|STAP|STONE14|p62	sequestosome 1	protein-coding	6.5	16.0	5.5	28.0	16.5	6.0	5.0	4.0
Merged-chr17-86978670-4	chr17	86978581	86978781	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	ORR1A4|LTR|ERVL-MaLR	15570.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	32.5	35.5	23.5	401.5	65.0	13.5	41.5	26.0
Merged-chr7-100855994-4	chr7	100855898	100856098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177073, intron 1 of 10)	intron (NM_177073, intron 1 of 10)	7415.0	NM_001358914	320100.0	Mm.40336	NM_177073	ENSMUSG00000008318	Relt	E430021K24Rik|Tnfrsf19l	RELT tumor necrosis factor receptor	protein-coding	82.0	126.5	83.5	1445.0	260.5	73.0	132.5	100.0
Merged-chr5-138187430-4	chr5	138187316	138187516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178612)	promoter-TSS (NM_178612)	35.0	NM_001356602	21343.0	Mm.248517	NM_009315	ENSMUSG00000036980	Taf6	80kDa|AW549759|TAF(II)80|TAFII70|Taf2e|p80	TATA-box binding protein associated factor 6	protein-coding	18.5	45.0	15.0	252.5	56.0	27.5	21.0	18.5
Merged-chr8-94340995-4	chr8	94340901	94341101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019415, intron 11 of 24)	intron (NM_019415, intron 11 of 24)	11793.0	NM_001205311	20497.0	Mm.25804	NM_019415	ENSMUSG00000031766	Slc12a3	AI035291|NCC|NCCT|TSC	solute carrier family 12, member 3	protein-coding	27.0	51.5	27.0	554.5	84.0	24.5	36.5	39.5
Merged-chr13-51136604-4	chr13	51136503	51136703	+	981.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011462, intron 1 of 3)	intron (NM_011462, intron 1 of 3)	2285.0	NM_011462	20729.0	Mm.188432	NM_011462	ENSMUSG00000021395	Spin1	Spin	spindlin 1	protein-coding	24.0	21.0	10.5	535.5	44.0	19.0	22.5	17.5
Merged-chr11-79340228-4	chr11	79340124	79340324	+	896.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010897, intron 1 of 57)	CpG	332.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	8.5	18.5	4.5	99.0	45.0	17.5	15.0	19.5
Merged-chr2-24587956-4	chr2	24587833	24588033	+	843.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112334.0	NM_011040	18510.0	Mm.2533	NM_011040	ENSMUSG00000026976	Pax8	Pax-8	paired box 8	protein-coding	10.0	8.0	8.0	133.0	16.5	2.0	9.0	12.5
Merged-chr19-32361455-3	chr19	32361360	32361560	+	849.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 1 of 9)	ORR1E-int|LTR|ERVL-MaLR	-12144.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	12.5	10.0	6.0	125.5	14.5	2.0	11.5	7.0
Merged-chr7-25178390-3	chr7	25178296	25178496	+	754.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23327.0	NR_045848	434147.0	Mm.59171	NM_001033781	ENSMUSG00000074274	D930028M14Rik	EG434147	RIKEN cDNA D930028M14 gene	ncRNA	3.0	12.5	7.5	20.0	13.0	6.0	4.5	6.5
Merged-chr2-160212539-4	chr2	160212458	160212658	+	911.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114936.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	15.0	33.5	18.5	504.0	36.0	23.5	10.0	16.5
Merged-chr9-108566954-4	chr9	108566854	108567054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_023247, exon 1 of 5)	5' UTR (NM_023247, exon 1 of 5)	388.0	NM_023247	66706.0	Mm.29471	NM_023247	ENSMUSG00000070283	Ndufaf3	4733401H18Rik	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3	protein-coding	35.0	47.0	26.5	408.5	117.0	42.5	53.0	58.0
Merged-chr12-84038344-4	chr12	84038247	84038447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134247)	promoter-TSS (NM_134247)	-32.0	NM_134247	171282.0	Mm.482217	NM_134247	ENSMUSG00000052392	Acot4	B430212I04Rik|PTE-Ib|Pte1b|Pte2b	acyl-CoA thioesterase 4	protein-coding	27.0	43.0	29.5	420.5	73.0	34.0	33.0	35.5
Merged-chr3-59055014-3	chr3	59054898	59055098	+	787.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 4 of 43)	intron (NM_177855, intron 4 of 43)	46823.0	NM_173398	229323.0	Mm.123648	NM_173398	ENSMUSG00000050075	Gpr171	A630006E05|F730001G15Rik|H963	G protein-coupled receptor 171	protein-coding	4.5	8.5	13.5	182.5	1.0	0.5	2.5	9.0
Merged-chr5-8622483-6	chr5	8622384	8622584	+	909.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011076, intron 2 of 29)	CpG	468.0	NM_001347311	242819.0	Mm.332192	NM_198620	ENSMUSG00000040570	Rundc3b	Gm440	RUN domain containing 3B	protein-coding	24.0	16.0	22.0	269.0	25.0	5.0	8.0	13.0
Merged-chr9-120127668-4	chr9	120127564	120127764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011029)	promoter-TSS (NM_011029)	-102.0	NM_011029	16785.0	Mm.4071	NM_011029	ENSMUSG00000032518	Rpsa	67kDa|67lr|AL022858|Lamr|Lamr1|Lamrl1|MLR|P40|P40-3|P40-8	ribosomal protein SA	protein-coding	177.5	340.5	208.0	2282.0	697.0	258.0	273.5	260.5
Merged-chr11-72458151-4	chr11	72458037	72458237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153060, intron 5 of 12)	intron (NM_153060, intron 5 of 12)	16810.0	NM_016776	18432.0	Mm.147946	NM_016776	ENSMUSG00000040463	Mybbp1a	AL024407|AU019902|P160|p160MBP|p67MBP	MYB binding protein (P160) 1a	protein-coding	100.0	205.5	152.0	781.5	154.5	89.0	81.0	46.0
Merged-chr8-10026398-3	chr8	10026295	10026495	+	736.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033622, intron 4 of 6)	L1M4|LINE|L1	19762.0	NM_033622	24099.0	Mm.28835	NM_033622	ENSMUSG00000031497	Tnfsf13b	BAFF|BLyS|D8Ertd387e|TALL-1|TALL1|THANK|TNFSF20|Tnlg7a|zTNF4	tumor necrosis factor (ligand) superfamily, member 13b	protein-coding	1.0	6.0	8.0	66.0	5.5	4.5	11.5	7.0
Merged-chr15-100757678-4	chr15	100757580	100757780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4067.0	NM_021530	59033.0	Mm.209856	NM_021530	ENSMUSG00000023032	Slc4a8	AW493845|C230026C11|NDCBE|kNBC-3	solute carrier family 4 (anion exchanger), member 8	protein-coding	29.5	46.5	22.5	351.5	52.0	27.5	16.5	25.0
Merged-chr6-108742255-4	chr6	108742116	108742316	+	686.483337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-40843.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	8.5	14.0	18.0	185.0	12.0	10.5	4.0	15.5
Merged-chr10-61366133-1	chr10	61366033	61366233	+	550.0	f1_balb.idr	intron (NM_013753, intron 1 of 19)	intron (NM_013753, intron 1 of 19)	17390.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	2.5	6.5	7.0	41.0	4.5	6.0	4.5	4.5
Merged-chr11-83541156-4	chr11	83541050	83541250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10632.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	56.0	114.5	37.0	503.0	187.0	63.0	38.0	38.5
Merged-chr15-78244088-3	chr15	78243972	78244172	+	684.027771	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_008677)	promoter-TSS (NM_008677)	-739.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	13.0	17.5	6.5	114.0	20.5	14.0	9.5	9.0
Merged-chr4-124714753-4	chr4	124714661	124714861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029157)	promoter-TSS (NM_029157)	-100.0	NM_029157	75062.0	Mm.25779	NM_029157	ENSMUSG00000028902	Sf3a3	4930512K19Rik|60kDa	splicing factor 3a, subunit 3	protein-coding	96.0	132.5	61.5	920.0	183.0	56.5	97.5	77.5
Merged-chr4-3975208-4	chr4	3975108	3975308	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35784.0	NR_104356	66433.0	Mm.27406	NM_181391	ENSMUSG00000042198	Chchd7	1810049H20Rik	coiled-coil-helix-coiled-coil-helix domain containing 7	protein-coding	8.0	14.0	3.0	170.5	21.5	6.5	18.0	13.0
Merged-chr13-9882502-4	chr13	9882382	9882582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 4 of 4)	intron (NM_033269, intron 4 of 4)	-117161.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	41.0	72.0	39.0	761.0	130.0	37.0	58.0	49.5
Merged-chr10-44599687-6	chr10	44599551	44599751	+	972.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140903.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	10.0	26.0	14.0	167.0	33.0	16.5	6.0	19.5
Merged-chr18-5805777-4	chr18	5805657	5805857	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AmnSINE2|SINE|Deu	213110.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	24.0	25.0	41.5	280.0	35.5	8.5	15.5	13.5
Merged-chr11-98767500-4	chr11	98767396	98767596	+	807.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145434)	TTS (NM_145434)	7881.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	12.5	13.5	2.5	51.0	43.0	11.0	10.0	11.5
Merged-chr10-44004452-4	chr10	44004353	44004553	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172393, exon 1 of 20)	5' UTR (NM_172393, exon 1 of 20)	393.0	NM_172393	11630.0	Mm.292082	NM_172393	ENSMUSG00000019866	Crybg1	AI462491|AI463325|Aim1	crystallin beta-gamma domain containing 1	protein-coding	5.0	16.0	17.0	44.5	16.0	9.0	19.5	15.0
Merged-chr17-35774084-2	chr17	35773984	35774184	+	633.75	f1_balb.idr|f1_c57bl6.idr	intron (NR_045459, intron 1 of 2)	intron (NR_045459, intron 1 of 2)	1634.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	2.0	11.0	3.0	31.0	9.0	5.0	4.5	9.5
Merged-chr6-128798420-4	chr6	128798321	128798521	+	877.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9780.0	NM_008527	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	12.5	21.0	15.5	279.5	27.5	6.0	8.0	10.5
Merged-chr10-67536179-4	chr10	67536083	67536283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1686.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	32.0	44.0	25.5	589.0	91.0	54.5	40.5	55.5
Merged-chr5-90903229-2	chr5	90903127	90903327	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_009140)	promoter-TSS (NM_009140)	-672.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	91.0	143.0	93.5	1049.5	132.5	69.5	68.5	30.5
Merged-chr11-61764959-3	chr11	61764853	61765053	+	890.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-2865.0	NM_001164243	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	4.5	14.0	9.5	150.0	17.0	1.5	5.0	5.0
Merged-chr3-88939955-4	chr3	88939861	88940061	+	829.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164533, intron 2 of 11)	B3|SINE|B2	10321.0	NM_022994	65111.0	Mm.29028	NM_022994	ENSMUSG00000068921	Dap3	4921514D13Rik|DAP-3|MRP-S29|S29mt	death associated protein 3	protein-coding	6.0	11.0	0.0	212.0	26.5	9.0	9.0	20.0
Merged-chr13-54206446-3	chr13	54206328	54206528	+	965.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153432, intron 1 of 3)	intron (NR_153432, intron 1 of 3)	14295.0	NR_153432	15466.0	Mm.57243	NM_008286	ENSMUSG00000034987	Hrh2	H2R|HH2R	histamine receptor H2	protein-coding	7.0	39.5	9.5	241.0	32.5	3.0	10.5	6.5
Merged-chr14-103048505-4	chr14	103048402	103048602	+	838.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008392, intron 1 of 4)	intron (NM_008392, intron 1 of 4)	1490.0	NM_008392	16365.0	Mm.4662	NM_008392	ENSMUSG00000022126	Acod1	AI323667|CAD|Irg1	aconitate decarboxylase 1	protein-coding	4.5	18.5	9.0	111.5	64.5	8.5	13.0	14.0
Merged-chr9-44515379-6	chr9	44515265	44515465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007551, intron 1 of 1)	intron (NM_007551, intron 1 of 1)	11056.0	NM_007551	12145.0	Mm.6246	NM_007551	ENSMUSG00000047880	Cxcr5	Blr1|CXC-R5|CXCR-5|Gpcr6|MDR15	chemokine (C-X-C motif) receptor 5	protein-coding	41.0	33.5	30.0	401.5	80.0	32.5	34.0	46.0
Merged-chr5-10682955-4	chr5	10682874	10683074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV16_I-int|LTR|ERVK	-182055.0	NR_003596	623849.0	Mm.335888	NR_003596	ENSMUSG00000091422	Gm6455	EG623849	predicted gene 6455	pseudo	64.0	40.0	64.5	1049.5	53.0	25.0	34.0	24.0
Merged-chr9-110525910-4	chr9	110525817	110526017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010628)	TTS (NM_010628)	-6680.0	NM_001081340	235626.0	Mm.288949	NM_001081340	ENSMUSG00000044791	Setd2	4921524K10Rik|BC031601|KMT3A	SET domain containing 2	protein-coding	39.5	71.0	45.5	887.5	102.0	57.0	62.0	60.0
Merged-chr4-150569426-6	chr4	150569262	150569462	+	991.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	CpG	82812.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	12.5	22.5	34.5	162.5	40.0	22.5	16.5	22.5
Merged-chr2-109932358-3	chr2	109932244	109932444	+	816.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172671, intron 1 of 17)	intron (NM_172671, intron 1 of 17)	14697.0	NM_172671	107515.0	Mm.277351	NM_172671	ENSMUSG00000050199	Lgr4	9130225G07|A330106J01Rik|A930009A08Rik|Gpr48	leucine-rich repeat-containing G protein-coupled receptor 4	protein-coding	8.5	12.0	5.0	105.0	6.0	6.0	2.0	9.0
Merged-chr19-55791004-3	chr19	55790895	55791095	+	787.166687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	49185.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	6.0	5.0	6.0	69.5	6.0	2.5	4.5	5.0
Merged-chr13-67779673-4	chr13	67779575	67779775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028402)	promoter-TSS (NM_028402)	-18.0	NM_028402	72958.0	Mm.53849	NM_028402	ENSMUSG00000090659	Zfp493	2900054J07Rik|Rslcan12	zinc finger protein 493	protein-coding	103.5	140.0	118.0	1711.0	338.5	101.0	126.5	97.5
Merged-chr3-10466087-4	chr3	10466000	10466200	+	880.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25970.0	NM_001127191	74718.0	Mm.440548	NM_029068	ENSMUSG00000027534	Snx16	4930522N22Rik|AI117577|AI747675	sorting nexin 16	protein-coding	10.5	17.0	20.0	199.5	61.5	10.5	12.0	17.5
Merged-chr2-102878220-4	chr2	102878111	102878311	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	23454.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	16.5	23.0	22.0	286.5	30.5	5.5	10.5	16.0
Merged-chr11-25358269-1	chr11	25358169	25358369	+	789.0	f0_balb.idr	intron (NR_045853, intron 5 of 7)	intron (NR_045853, intron 5 of 7)	32162.0	NR_045853	71234.0	Mm.158627	NR_045853	ENSMUSG00000033015	4933427E13Rik	-	RIKEN cDNA 4933427E13 gene	ncRNA	7.0	6.0	9.0	133.5	0.5	0.0	2.0	1.0
Merged-chr9-75404919-4	chr9	75404845	75405045	+	842.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015806, intron 1 of 5)	MTD|LTR|ERVL-MaLR	4414.0	NM_027418	50772.0	Mm.480076	NM_015806	ENSMUSG00000042688	Mapk6	2610021I23Rik|D130053K17Rik|Erk3|Mapk4|Mapk63|Prkm4|Prkm6	mitogen-activated protein kinase 6	protein-coding	10.0	8.5	6.5	141.5	25.0	11.0	16.5	9.5
Merged-chr12-105972518-3	chr12	105972392	105972592	+	741.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-37771.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	3.0	2.0	2.0	77.0	40.5	11.0	14.5	11.0
Merged-chr16-93005690-4	chr16	93005576	93005776	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179602.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	9.5	15.5	11.5	173.0	34.0	4.5	16.0	7.5
Merged-chr11-119228495-4	chr11	119228390	119228590	+	991.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172443)	promoter-TSS (NM_172443)	9.0	NM_001347625	207592.0	Mm.205263	NM_172443	ENSMUSG00000039976	Tbc1d16	B930087K01|BC026530|Tcd1d16	TBC1 domain family, member 16	protein-coding	14.5	27.0	16.0	215.0	60.5	17.5	32.5	23.0
Merged-chr5-112907569-1	chr5	112907469	112907669	+	572.0	f0_balb.idr	Intergenic	Intergenic	-11207.0	NM_028901	74376.0	Mm.441903	NM_028901	ENSMUSG00000072720	Myo18b	4932408L24Rik|4933411E19Rik|Gm448	myosin XVIIIb	protein-coding	10.5	7.0	4.5	73.5	10.5	0.5	7.0	2.5
Merged-chr11-59561945-4	chr11	59561836	59562036	+	869.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 7 of 9)	intron (NR_153314, intron 7 of 9)	9802.0	NM_001011789	257962.0	Mm.377316	NM_001011789	ENSMUSG00000059610	Olfr222	MOR256-45P	olfactory receptor 222	protein-coding	18.0	16.5	6.0	188.0	18.0	7.5	16.0	14.0
Merged-chr13-113617433-4	chr13	113617324	113617524	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_130796, exon 1 of 2)	exon (NM_130796, exon 1 of 2)	1140.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	15.0	50.5	46.0	406.0	100.5	43.5	53.0	52.5
Merged-chr11-76456405-3	chr11	76456310	76456510	+	904.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 10 of 21)	intron (NM_001346670, intron 10 of 21)	12055.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	4.5	17.5	0.0	50.5	26.0	7.0	7.5	13.0
Merged-chr2-59343013-4	chr2	59342908	59343108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 16 of 20)	intron (NM_175464, intron 16 of 20)	43674.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	48.0	79.5	58.0	800.0	112.0	36.5	41.0	53.0
Merged-chr13-52061639-4	chr13	52061532	52061732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35109.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	61.0	71.0	89.0	1220.0	165.0	59.0	103.5	77.5
Merged-chr5-91962917-4	chr5	91962817	91963017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073442)	promoter-TSS (NR_073442)	35.0	NR_028429	381650.0	Mm.159453	NR_028429	ENSMUSG00000102644	Thap6	4930534K21Rik|AI448650	THAP domain containing 6	pseudo	84.0	175.0	151.5	1310.5	293.5	114.5	149.5	138.0
Merged-chr1-54888696-4	chr1	54888558	54888758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	MLT1J|LTR|ERVL-MaLR	37729.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	48.5	55.5	82.5	777.0	55.5	17.0	30.0	30.0
Merged-chr15-75727807-4	chr15	75727707	75727907	+	878.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20115.0	NM_194350	378435.0	Mm.309589	NM_194350	ENSMUSG00000047591	Mafa	RIPE3b1	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein A (avian)	protein-coding	6.0	13.5	10.5	204.0	35.5	10.5	11.0	13.5
Merged-chr18-4634934-2	chr18	4634850	4635050	+	878.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001081963)	promoter-TSS (NM_001081963)	21.0	NM_001081963	240185.0	Mm.33179	NM_001081963	ENSMUSG00000033960	Jcad	1110056P05Rik|9430020K01Rik|Gm328|mKIAA1462	junctional cadherin 5 associated	protein-coding	11.0	22.0	20.0	179.5	25.5	9.0	5.5	15.0
Merged-chr16-94312787-4	chr16	94312683	94312883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139145, intron 1 of 10)	intron (NM_139145, intron 1 of 10)	780.0	NM_139145	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	73.5	91.0	67.5	706.5	178.5	62.0	90.0	61.0
Merged-chr17-47408498-4	chr17	47408428	47408628	+	978.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6183.0	NM_001172091	75462.0	Mm.46129	NM_029296	ENSMUSG00000047150	1700001C19Rik	-	RIKEN cDNA 1700001C19 gene	protein-coding	10.0	26.5	14.5	164.5	42.5	21.0	14.0	28.0
Merged-chr10-67378000-3	chr10	67377891	67378091	+	897.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92710.0	NM_001036293	641340.0	Mm.136223	NM_001036293	ENSMUSG00000075000	Nrbf2	NRBF-2	nuclear receptor binding factor 2	protein-coding	8.5	11.0	8.0	48.0	35.0	16.5	7.5	7.0
Merged-chr2-181410869-4	chr2	181410764	181410964	+	882.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028125, exon 3 of 3)	3' UTR (NM_028125, exon 3 of 3)	13524.0	NM_027656	72147.0	Mm.486504	NM_027656	ENSMUSG00000027583	Zbtb46	2610019F01Rik|4933406L05Rik|BZEL|Btbd4	zinc finger and BTB domain containing 46	protein-coding	16.5	27.0	31.0	261.0	46.0	10.0	15.5	25.5
Merged-chr4-95924923-4	chr4	95924814	95925014	+	915.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 15 of 15)	L1_Mus1|LINE|L1	42121.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	8.5	13.0	12.5	196.5	37.0	7.5	12.5	14.5
Merged-chr10-80756390-6	chr10	80756268	80756468	+	942.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199322, intron 1 of 27)	intron (NM_199322, intron 1 of 27)	1165.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	14.0	19.5	14.0	66.5	32.0	15.5	12.5	12.5
Merged-chr17-69076472-4	chr17	69076410	69076610	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	CpG	833.0	NM_001355732	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	8.0	9.0	6.5	103.5	24.5	5.0	7.5	5.5
Merged-chr3-87910785-4	chr3	87910737	87910937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331051, intron 1 of 6)	intron (NM_001331051, intron 1 of 6)	3987.0	NM_001331052	15191.0	Mm.292208	NM_008231	ENSMUSG00000004897	Hdgf	AI118077|D3Ertd299e	hepatoma-derived growth factor	protein-coding	48.0	69.5	35.5	681.0	133.0	46.5	85.5	58.0
Merged-chr14-21832238-4	chr14	21832116	21832316	+	985.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011695, intron 2 of 9)	intron (NM_011695, intron 2 of 9)	655.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	13.5	18.5	30.5	266.5	74.0	25.0	34.0	19.5
Merged-chr11-98673331-4	chr11	98673209	98673409	+	910.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021347, intron 9 of 11)	intron (NM_021347, intron 9 of 11)	8958.0	NM_021347	57911.0	Mm.458085	NM_021347	ENSMUSG00000017204	Gsdma	BB149167|Gsdm|Gsdm1|Gsdma1|H312E	gasdermin A	protein-coding	12.5	19.5	5.5	184.0	37.0	8.5	12.5	13.0
Merged-chr5-140617956-4	chr5	140617836	140618036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10595.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	267.5	339.0	281.5	3584.0	447.0	170.0	229.5	207.0
Merged-chr18-66478318-4	chr18	66478239	66478439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19735.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	123.0	226.5	163.0	1938.5	363.5	178.5	176.5	159.0
Merged-chr13-64408322-4	chr13	64408258	64408458	+	896.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24195.0	NM_053180	105278.0	Mm.74982	NM_053180	ENSMUSG00000021483	Cdk20	4932702G04Rik|AU019450|AW558027|CDCH|Ccrk|PNQLARE|p42	cyclin-dependent kinase 20	protein-coding	9.0	8.5	9.5	124.5	23.0	6.0	6.0	8.5
Merged-chr2-4617007-4	chr2	4616923	4617123	+	957.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35112.0	NM_026045	67229.0	Mm.38529	NM_026045	ENSMUSG00000039449	Prpf18	2810441A10Rik	pre-mRNA processing factor 18	protein-coding	8.0	21.5	28.0	199.0	41.0	28.5	12.0	12.5
Merged-chr4-148088073-4	chr4	148087956	148088156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301281)	promoter-TSS (NM_001301281)	8.0	NM_009642	11610.0	Mm.46247	NM_009642	ENSMUSG00000029007	Agtrap	3300002E14Rik|AT1R|Atrap|D4Wsu124e	angiotensin II, type I receptor-associated protein	protein-coding	70.5	113.0	43.5	1097.0	303.0	113.0	96.0	108.5
Merged-chr11-103412699-4	chr11	103412560	103412760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183034)	promoter-TSS (NM_183034)	4.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	76.0	112.5	85.0	889.0	201.0	64.5	74.0	75.5
Merged-chr5-115011765-6	chr5	115011663	115011863	+	897.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029012, intron 1 of 10)	CpG	239.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	19.5	16.0	18.5	169.0	33.0	9.5	13.0	15.0
Merged-chr6-21973658-4	chr6	21973582	21973782	+	939.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023626, exon 12 of 12)	exon (NM_023626, exon 12 of 12)	-12228.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	5.5	10.5	8.0	302.0	9.5	2.5	22.0	19.0
Merged-chr7-133048283-4	chr7	133048143	133048343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	-32996.0	NM_001170744	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	35.5	27.5	47.5	620.0	98.5	27.0	47.5	37.5
Merged-chr7-90370448-4	chr7	90370376	90370576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040085, intron 4 of 18)	intron (NM_001040085, intron 4 of 18)	-16505.0	NM_001040087	83671.0	Mm.26751	NM_031394	ENSMUSG00000030616	Sytl2	AI266830|Slp2|mKIAA1597	synaptotagmin-like 2	protein-coding	79.5	87.5	88.5	1589.0	207.0	49.5	95.0	98.0
Merged-chr7-25790801-4	chr7	25790710	25790910	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2077.0	NM_001190975	26362.0	Mm.4128	NM_009465	ENSMUSG00000002602	Axl	AI323647|Ark|Tyro7|Ufo	AXL receptor tyrosine kinase	protein-coding	12.5	35.0	26.0	383.5	49.0	8.5	20.0	11.0
Merged-chr13-20209066-4	chr13	20208978	20209178	+	877.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 3 of 21)	intron (NM_080288, intron 3 of 21)	118571.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	15.0	11.5	18.5	292.0	18.5	19.0	16.5	13.0
Merged-chr2-22795214-2	chr2	22795135	22795335	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	20908.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	10.5	26.0	14.5	229.0	39.0	13.5	19.5	6.0
Merged-chr1-136573686-3	chr1	136573591	136573791	+	804.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51210.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	4.5	8.0	6.5	53.0	13.5	2.0	18.5	10.0
Merged-chr1-75425914-3	chr1	75425811	75426011	+	700.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085370, intron 29 of 38)	intron (NM_001085370, intron 29 of 38)	-10025.0	NM_133708	69080.0	Mm.23951	NM_133708	ENSMUSG00000033021	Gmppa	1810012N01Rik	GDP-mannose pyrophosphorylase A	protein-coding	6.5	5.0	7.5	72.5	12.0	4.5	0.0	5.0
Merged-chr8-41073977-3	chr8	41073883	41074083	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 3 of 13)	intron (NM_001005863, intron 3 of 13)	-19187.0	NM_001005864	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	0.0	4.5	6.5	43.5	136.5	37.5	71.0	54.0
Merged-chr17-24526586-1	chr17	24526486	24526686	+	756.666687	f0_balb.idr	intron (NM_001172113, intron 1 of 20)	intron (NM_001172113, intron 1 of 20)	1352.0	NM_153792	224619.0	Mm.275150	NM_153792	ENSMUSG00000052752	Traf7	RFWD1	TNF receptor-associated factor 7	protein-coding	8.0	13.0	7.0	158.5	4.5	0.0	0.5	1.5
Merged-chr5-92083837-4	chr5	92083734	92083934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080795)	promoter-TSS (NM_001080795)	-90.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	307.5	464.5	291.5	4800.0	694.5	323.0	352.5	260.5
Merged-chr3-30992339-4	chr3	30992247	30992447	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3424.0	NM_008857	18759.0	Mm.291554	NM_008857	ENSMUSG00000037643	Prkci	2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165	protein kinase C, iota	protein-coding	55.5	41.0	35.5	789.5	85.5	23.0	31.5	40.0
Merged-chr2-23015039-3	chr2	23014945	23015145	+	870.6555179999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 1 of 10)	RMER17B|LTR|ERVK	25196.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	6.0	7.0	9.0	51.0	29.5	15.0	16.5	16.0
Merged-chr1-36591586-4	chr1	36591489	36591689	+	853.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126046, intron 10 of 14)	intron (NM_001126046, intron 10 of 14)	1743.0	NM_027957	381337.0	Mm.17413	NM_027957	ENSMUSG00000046337	Fam178b	1700024G10Rik|Gm990	family with sequence similarity 178, member B	protein-coding	4.5	12.0	4.0	99.0	24.0	7.5	12.5	9.0
Merged-chr3-8735043-3	chr3	8734930	8735130	+	571.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67992.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	8.0	5.0	5.0	110.0	5.0	2.5	3.0	6.0
Merged-chr13-38658592-4	chr13	38658526	38658726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025380, intron 1 of 3)	CpG	402.0	NM_025380	66143.0	Mm.490319	NM_025380	ENSMUSG00000001707	Eef1e1	1110003A02Rik	eukaryotic translation elongation factor 1 epsilon 1	protein-coding	32.5	49.5	61.5	442.5	61.0	33.0	58.5	44.5
Merged-chr11-94211310-4	chr11	94211216	94211416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009427)	promoter-TSS (NM_009427)	-138.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	221.0	349.5	197.0	2219.5	652.0	241.5	229.0	227.5
Merged-chr5-3386672-2	chr5	3386572	3386772	+	851.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	intron (NM_009873, intron 2 of 7)	42779.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	8.5	7.0	5.0	36.5	7.5	3.5	2.0	1.0
Merged-chr7-83616439-4	chr7	83616333	83616533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177695, intron 18 of 22)	intron (NM_177695, intron 18 of 22)	-15584.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	98.5	131.0	126.0	2211.0	206.5	64.5	112.0	66.5
Merged-chr7-6282977-4	chr7	6282863	6283063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3617.0	NM_001024928	384763.0	Mm.276279	NM_001024928	ENSMUSG00000054893	Zfp667	A830025F02Rik|Mip1|ZNF667	zinc finger protein 667	protein-coding	17.5	35.5	28.5	345.5	109.0	24.0	22.5	28.0
Merged-chr10-95679006-4	chr10	95678922	95679122	+	943.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-114876.0	NM_001358996	71207.0	Mm.24397	NM_027722	ENSMUSG00000020029	Nudt4	4933436C10Rik|DIPP-2|DIPP2|DIPP2alpha|DIPP2beta|HDCMB47P	nudix (nucleoside diphosphate linked moiety X)-type motif 4	protein-coding	28.0	12.5	26.5	243.0	38.0	14.0	15.0	20.5
Merged-chr3-27210429-4	chr3	27210332	27210532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	27428.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	59.5	85.5	48.0	829.0	151.0	78.0	64.5	67.5
Merged-chr4-10973785-4	chr4	10973687	10973887	+	658.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	33832.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	11.0	10.5	8.0	85.5	26.0	3.5	8.0	7.5
Merged-chr7-12780488-7	chr7	12780356	12780556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4798.0	NM_001017955	232875.0	Mm.333573	NM_001017955	ENSMUSG00000070822	Zscan18	EG232875	zinc finger and SCAN domain containing 18	protein-coding	17.5	19.5	31.5	191.5	27.0	27.0	15.5	25.0
Merged-chr4-134095136-4	chr4	134095055	134095255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013706)	promoter-TSS (NM_013706)	-82.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	31.0	45.5	23.0	292.0	154.5	49.5	56.5	57.5
Merged-chr8-72584468-3	chr8	72584374	72584574	+	703.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357280, intron 4 of 4)	intron (NM_001357280, intron 4 of 4)	12651.0	NM_001357279	74166.0	Mm.212927	NM_144534	ENSMUSG00000031791	Tmem38a	1110001E17Rik|AI413399|SPR-27|TRIC-A|mg33a	transmembrane protein 38A	protein-coding	0.5	1.0	0.0	13.5	19.0	9.5	11.0	13.5
Merged-chr14-31160686-4	chr14	31160594	31160794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138672, intron 11 of 68)	intron (NM_138672, intron 11 of 68)	7947.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	147.0	248.5	159.0	1991.5	334.5	109.0	173.5	104.0
Merged-chr4-55811840-4	chr4	55811746	55811946	+	837.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-279371.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	6.5	10.0	11.5	244.5	22.5	6.0	11.5	9.5
Merged-chr11-97489777-3	chr11	97489679	97489879	+	813.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021493, intron 15 of 18)	intron (NM_021493, intron 15 of 18)	10561.0	NM_001289118	100141474.0	Mm.482426	NM_001289118	ENSMUSG00000047988	4933428G20Rik	-	RIKEN cDNA 4933428G20 gene	protein-coding	9.0	8.0	7.0	58.5	19.0	3.0	2.5	12.5
Merged-chr18-65691602-4	chr18	65691500	65691700	+	963.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6668.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	26.5	27.0	36.5	938.0	25.5	10.0	17.5	15.5
Merged-chr9-64703060-4	chr9	64702915	64703115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 23 of 24)	intron (NM_001134399, intron 23 of 24)	34741.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	114.5	195.0	116.5	1481.5	230.5	105.0	93.5	82.5
Merged-chr12-71137186-4	chr12	71137111	71137311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286203)	promoter-TSS (NM_001286203)	363.0	NM_001163378	76967.0	Mm.87290	NM_029818	ENSMUSG00000034601	2700049A03Rik	Ta3|Talpid3|mKIAA0586	RIKEN cDNA 2700049A03 gene	protein-coding	36.0	41.5	34.5	452.0	72.0	35.0	16.5	31.0
Merged-chr17-31558194-4	chr17	31558135	31558335	+	897.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-6538.0	NR_027493	18771.0	Mm.259295	NM_016670	ENSMUSG00000006705	Pknox1	D17Wsu76e|PREP1	Pbx/knotted 1 homeobox	protein-coding	14.5	7.5	16.5	151.5	24.5	13.5	3.5	10.5
Merged-chr4-150237867-4	chr4	150237735	150237935	+	739.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023119, intron 1 of 11)	intron (NM_023119, intron 1 of 11)	511.0	NM_001025388	433182.0	Mm.70666	NM_001025388	ENSMUSG00000059040	Eno1b	EG433182|Eno1|Gm5506	enolase 1B, retrotransposed	protein-coding	8.0	10.5	12.5	120.0	23.0	10.0	6.5	11.5
Merged-chr9-100866215-4	chr9	100866117	100866317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009282, intron 14 of 33)	intron (NM_009282, intron 14 of 33)	168667.0	NM_001311149	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	59.5	116.0	92.0	1209.0	165.5	55.5	88.0	51.0
Merged-chr17-26639989-3	chr17	26639898	26640098	+	932.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 8 of 9)	intron (NM_026170, intron 8 of 9)	-36398.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	13.0	6.0	10.5	236.0	15.5	1.5	6.5	10.5
Merged-chr15-8636208-4	chr15	8636132	8636332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_148938, exon 10 of 10)	exon (NM_148938, exon 10 of 10)	74575.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	105.5	172.0	113.5	1663.0	292.0	107.5	150.0	101.5
Merged-chr18-38311463-2	chr18	38311363	38311563	+	654.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001361268, intron 8 of 10)	B3A|SINE|B2	14658.0	NM_001164621	56736.0	Mm.228903	NM_020012	ENSMUSG00000060450	Rnf14	2310075C09Rik|2610005D23Rik|AA986456|AU041447|D18Ertd188e|D7Bwg0165e|Triad2	ring finger protein 14	protein-coding	4.0	11.5	7.0	0.5	16.0	4.5	9.5	5.0
Merged-chr11-87736848-4	chr11	87736742	87736942	+	762.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009296)	promoter-TSS (NM_009296)	-709.0	NM_001355753	20922.0	Mm.622	NM_009296	ENSMUSG00000020485	Supt4a	AL022777|Supt4h|Supt4h1|Supt4h1a	suppressor of Ty 4A	protein-coding	21.5	8.5	2.0	65.0	18.5	13.0	5.0	10.5
Merged-chr15-75923453-4	chr15	75923360	75923560	+	925.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	-1900.0	NM_025412	66194.0	Mm.250599	NM_025412	ENSMUSG00000022571	Pycrl	1110058B13Rik|2700073G24Rik|Pycr3	pyrroline-5-carboxylate reductase-like	protein-coding	17.5	17.0	2.5	164.5	26.5	14.0	16.0	18.0
Merged-chr16-50409568-4	chr16	50409465	50409665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	intron (NM_027444, intron 2 of 16)	22824.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	27.0	43.0	43.0	673.0	111.0	34.5	49.5	39.5
Merged-chr2-5769880-4	chr2	5769797	5769997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55135.0	NM_177343	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	38.0	50.5	24.0	748.5	104.5	35.5	50.0	53.0
Merged-chr11-75584880-3	chr11	75584785	75584985	+	741.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3194.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	8.0	4.0	3.5	51.5	32.5	11.0	11.0	23.0
Merged-chr6-13677567-4	chr6	13677450	13677650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175312, intron 1 of 4)	CpG	416.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	26.5	65.5	50.0	548.0	119.5	35.0	58.5	51.0
Merged-chr8-115420308-4	chr8	115420208	115420408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	286586.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	23.0	28.0	19.5	306.0	70.5	23.0	20.5	32.0
Merged-chr9-57638080-4	chr9	57637974	57638174	+	945.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 2 of 14)	intron (NM_001304761, intron 2 of 14)	7579.0	NM_007783	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	30.5	21.5	28.5	445.5	56.0	12.0	14.0	29.5
Merged-chr11-68555505-3	chr11	68555401	68555601	+	947.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146004)	promoter-TSS (NM_146004)	-685.0	NM_146004	215723.0	Mm.131205	NM_146004	ENSMUSG00000048329	Mfsd6l	-	major facilitator superfamily domain containing 6-like	protein-coding	10.5	17.5	12.5	178.0	14.0	3.0	5.0	17.0
Merged-chr1-89555566-4	chr1	89555469	89555669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037136, intron 1 of 16)	intron (NM_001037136, intron 1 of 16)	100758.0	NM_001037136	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	96.5	179.0	94.0	1027.5	236.5	121.5	104.5	69.5
Merged-chr4-125015937-4	chr4	125015849	125016049	+	908.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14065.0	NM_145552	230737.0	Mm.90760	NM_145552	ENSMUSG00000028869	Gnl2	BC003262|HUMAUANTIG|Ngp-1	guanine nucleotide binding protein-like 2 (nucleolar)	protein-coding	15.5	27.0	10.0	146.5	64.5	13.5	10.0	22.5
Merged-chr5-34762342-4	chr5	34762257	34762457	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010414, intron 1 of 66)	intron (NM_010414, intron 1 of 66)	617.0	NM_010414	15194.0	Mm.209071	NM_010414	ENSMUSG00000029104	Htt	AI256365|C430023I11Rik|Hd|Hdh|IT15	huntingtin	protein-coding	13.5	29.0	8.5	206.0	27.5	15.5	16.5	19.0
Merged-chr12-117831436-3	chr12	117831341	117831541	+	839.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12420.0	NM_146040	217946.0	Mm.281149	NM_146040	ENSMUSG00000021175	Cdca7l	BC006933|JPO2	cell division cycle associated 7 like	protein-coding	16.0	26.5	12.5	39.0	13.0	3.0	8.0	10.0
Merged-chr17-84185141-3	chr17	84185085	84185285	+	760.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001001806, exon 2 of 2)	3' UTR (NM_001001806, exon 2 of 2)	2762.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	7.0	12.0	6.5	56.0	5.0	0.5	1.5	5.5
Merged-chr1-131690014-4	chr1	131689977	131690177	+	815.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145509, intron 1 of 5)	intron (NM_145509, intron 1 of 5)	1382.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	3.5	7.0	5.5	105.5	15.0	8.0	8.5	11.0
Merged-chr4-46575040-4	chr4	46574938	46575138	+	989.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 1 of 11)	intron (NM_001164804, intron 1 of 11)	-8598.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	18.5	27.0	19.0	344.5	47.5	16.0	18.5	21.5
Merged-chr6-97148784-6	chr6	97148649	97148849	+	892.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175313, intron 1 of 17)	CpG	134.0	NM_175313	101351.0	Mm.116802	NM_175313	ENSMUSG00000035245	Eogt	A130022J15Rik|AI447490|AW214473|AW259391|Aer61	EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase	protein-coding	7.5	13.5	16.5	221.0	23.0	10.0	6.0	22.5
Merged-chr18-44400611-3	chr18	44400516	44400716	+	718.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027490, intron 4 of 10)	B3|SINE|B2	20116.0	NM_027490	70640.0	Mm.87629	NM_027490	ENSMUSG00000024472	Dcp2	2410015D23Rik|5730537H01Rik|AL118268	decapping mRNA 2	protein-coding	5.5	5.0	10.0	89.5	12.5	3.5	6.5	6.5
Merged-chr11-87591206-3	chr11	87591095	87591295	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357901)	promoter-TSS (NM_001357901)	-971.0	NM_001357901	170749.0	Mm.399376	NM_133215	ENSMUSG00000018401	Mtmr4	AA596759|ESTM44|FYVE-DSP2|ZFYVE11|mKIAA0647	myotubularin related protein 4	protein-coding	4.0	4.0	9.5	40.0	16.5	7.0	5.0	13.0
Merged-chr16-15985025-3	chr16	15984920	15985120	+	789.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 7 of 18)	intron (NM_001355731, intron 7 of 18)	97734.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	5.5	9.0	4.5	77.5	19.0	7.0	6.5	7.0
Merged-chr6-54039549-3	chr6	54039465	54039665	+	969.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163640)	promoter-TSS (NM_001163640)	-367.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	14.5	16.0	16.0	147.5	24.5	10.0	12.0	6.5
Merged-chr2-93599948-4	chr2	93599851	93600051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42483.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	97.5	136.5	110.5	1965.0	326.5	100.5	140.5	96.0
Merged-chr13-45115123-4	chr13	45115037	45115237	+	749.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-113041.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	9.0	10.0	7.0	217.0	24.0	12.0	12.5	17.0
Merged-chr13-91387980-3	chr13	91387882	91388082	+	859.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045161, exon 1 of 3)	non-coding (NR_045161, exon 1 of 3)	103.0	NR_045161	320297.0	Mm.375866	NR_045161	ENSMUSG00000097182	A830009L08Rik	-	RIKEN cDNA A830009L08 gene	ncRNA	1.5	18.0	1.0	122.0	5.0	5.5	7.0	6.5
Merged-chr5-135689828-4	chr5	135689743	135689943	+	794.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008898, intron 1 of 15)	intron (NM_008898, intron 1 of 15)	698.0	NM_008898	18984.0	Mm.3863	NM_008898	ENSMUSG00000005514	Por	4933424M13Rik|CPR|CYPOR|P450R	P450 (cytochrome) oxidoreductase	protein-coding	9.5	6.0	11.0	75.0	16.5	8.5	2.0	11.0
Merged-chr7-34230324-4	chr7	34230200	34230400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008155)	promoter-TSS (NM_008155)	36.0	NM_008155	14751.0	Mm.589	NM_008155	ENSMUSG00000036427	Gpi1	Amf|Gpi|Gpi-1|Gpi-1r|Gpi-1s|Gpi-1t|Gpi1-r|Gpi1-s|Gpi1-t|Gpi1s|MF|NK|NK/GPI|Nlk|Org|Pgi|Phi	glucose phosphate isomerase 1	protein-coding	145.5	192.5	137.5	2334.0	261.0	92.5	150.0	117.5
Merged-chr11-23696063-4	chr11	23695954	23696154	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033654, intron 4 of 17)	intron (NM_001033654, intron 4 of 17)	30078.0	NM_028304	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	33.0	26.0	27.0	479.0	83.5	21.0	32.5	37.5
Merged-chr2-90572303-4	chr2	90572219	90572419	+	828.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	8328.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	9.0	18.5	2.0	63.0	23.5	15.0	6.0	17.0
Merged-chr15-58034178-5	chr15	58034058	58034258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029418, exon 1 of 6)	exon (NM_029418, exon 1 of 6)	136.0	NM_029418	75758.0	Mm.455792	NM_029418	ENSMUSG00000101892	9130401M01Rik	AI849328	RIKEN cDNA 9130401M01 gene	protein-coding	39.5	80.5	52.0	454.5	101.0	66.0	43.5	76.0
Merged-chr5-121733995-4	chr5	121733913	121734113	+	892.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	intron (NM_009125, intron 1 of 24)	-4519.0	NM_001359153	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	7.5	14.0	3.0	239.0	21.5	7.0	11.0	9.5
Merged-chr7-101547902-4	chr7	101547778	101547978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	7924.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	103.5	223.0	79.5	408.0	386.0	177.0	123.5	111.0
Merged-chr2-45106629-6	chr2	45106565	45106765	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	3612.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	6.0	29.0	5.0	64.0	15.5	9.5	15.0	5.5
Merged-chr17-7939853-4	chr17	7939746	7939946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5768.0	NM_025789	66832.0	Mm.29830	NM_025789	ENSMUSG00000073471	Rsph3a	1700012G05Rik|4930524H12Rik|R74860|Rshl2|Rshl2a	radial spoke 3A homolog (Chlamydomonas)	protein-coding	40.0	72.0	21.5	543.5	105.0	28.0	29.0	43.0
Merged-chr12-104315779-3	chr12	104315675	104315875	+	923.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101472, intron 1 of 3)	intron (NM_001101472, intron 1 of 3)	1205.0	NM_001101472	238395.0	Mm.436975	NM_001101472	ENSMUSG00000079013	Serpina3j	AI506554|EG238395|Gm4931	serine (or cysteine) peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 3J	protein-coding	19.0	23.0	10.5	339.0	16.0	2.5	9.0	4.5
Merged-chr3-97876264-4	chr3	97876169	97876369	+	903.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 1 of 46)	intron (NM_001039376, intron 1 of 46)	12438.0	NM_001289702	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	0.0	12.5	11.0	276.5	36.0	6.5	9.5	14.5
Merged-chr3-52066461-1	chr3	52066361	52066561	+	681.0	f0_balb.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	38545.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	7.5	7.0	15.5	123.0	8.5	7.5	3.5	2.5
Merged-chr10-115250564-4	chr10	115250461	115250661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025706, intron 1 of 16)	intron (NM_025706, intron 1 of 16)	932.0	NM_025706	66687.0	Mm.22252	NM_025706	ENSMUSG00000020130	Tbc1d15	4432405K22Rik|AU022358|AU023730|AW557774|Ly6dl|Rab7-GAP	TBC1 domain family, member 15	protein-coding	47.0	59.0	33.0	825.5	80.5	36.5	51.5	57.5
Merged-chr11-67526744-4	chr11	67526641	67526841	+	993.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6257.0	NM_008088	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	21.0	23.5	20.0	221.0	95.0	31.5	39.0	37.0
Merged-chr2-92183848-4	chr2	92183776	92183976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346704)	promoter-TSS (NM_001346704)	-306.0	NM_138755	192285.0	Mm.330408	NM_138755	ENSMUSG00000058318	Phf21a	80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1	PHD finger protein 21A	protein-coding	31.5	39.5	34.5	380.5	96.0	31.0	25.0	27.5
Merged-chr16-57347906-4	chr16	57347798	57347998	+	928.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025599, intron 1 of 9)	intron (NM_025599, intron 1 of 9)	-5379.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	12.0	8.5	8.5	167.5	46.5	15.5	15.0	10.5
Merged-chr4-57953979-3	chr4	57953868	57954068	+	798.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 1 of 4)	intron (NM_011660, intron 1 of 4)	2443.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	1.0	4.0	1.5	88.5	23.5	17.0	8.5	14.0
Merged-chr2-51147948-6	chr2	51147849	51148049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028810, intron 2 of 4)	CpG	1162.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	31.0	37.5	41.5	372.0	64.0	28.0	33.5	30.0
Merged-chr19-11293109-4	chr19	11293027	11293227	+	954.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045317, intron 2 of 2)	intron (NR_045317, intron 2 of 2)	-9314.0	NM_183190	269063.0	Mm.268940	NM_183190	ENSMUSG00000054523	Ms4a5	-	membrane-spanning 4-domains, subfamily A, member 5	protein-coding	26.0	41.0	7.5	165.0	44.0	14.5	14.5	10.0
Merged-chr10-68264082-4	chr10	68263982	68264182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	14644.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	25.5	28.5	33.5	329.0	54.5	19.0	22.5	27.0
Merged-chr15-25550471-4	chr15	25550376	25550576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72074.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	26.0	33.5	15.5	288.0	68.0	22.5	36.0	20.5
Merged-chr8-39642758-4	chr8	39642665	39642865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031195)	promoter-TSS (NM_031195)	-87.0	NM_001113326	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	73.0	123.5	98.0	1956.5	97.5	48.5	70.0	44.0
Merged-chr7-24638268-4	chr7	24638168	24638368	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133743, intron 2 of 4)	intron (NM_133743, intron 2 of 4)	1698.0	NM_133743	72434.0	Mm.281093	NM_133743	ENSMUSG00000057454	Lypd3	2310061G07Rik|C4.4a	Ly6/Plaur domain containing 3	protein-coding	12.0	28.0	8.5	186.5	26.5	9.5	14.0	13.5
Merged-chr17-29848962-4	chr17	29848888	29849088	+	950.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081160, intron 6 of 15)	intron (NM_001081160, intron 6 of 15)	38894.0	NM_001081160	74762.0	Mm.40901	NM_001081160	ENSMUSG00000043557	Mdga1	1200011I03Rik|GPIM|Mamdc3	MAM domain containing glycosylphosphatidylinositol anchor 1	protein-coding	22.0	27.0	7.0	292.0	45.5	16.5	18.0	14.5
Merged-chr6-55017115-4	chr6	55017006	55017206	+	917.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20895.0	NM_180678	353172.0	Mm.250004	NM_180678	ENSMUSG00000029777	Gars	GENA202|Gena201|Nmf249|Sgrp23	glycyl-tRNA synthetase	protein-coding	27.0	19.0	14.0	211.0	29.0	10.0	14.5	13.0
Merged-chr6-120083182-4	chr6	120083077	120083277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10203.0	NM_016718	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	74.5	102.0	88.5	1290.0	198.0	50.5	49.0	44.5
Merged-chr17-72834797-4	chr17	72834736	72834936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1792.0	NM_027166	383295.0	Mm.277533	NM_027166	ENSMUSG00000039770	Ypel5	2310076K21Rik|CGI-127	yippee like 5	protein-coding	21.5	19.0	27.0	363.0	39.0	18.0	14.5	28.5
Merged-chr6-22325834-4	chr6	22325707	22325907	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138587, intron 5 of 9)	intron (NM_138587, intron 5 of 9)	30274.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	9.0	20.5	10.5	188.0	23.5	8.0	17.5	6.0
Merged-chr1-151250909-4	chr1	151250781	151250981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-93605.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	76.5	127.0	104.0	1413.5	232.5	80.5	97.0	69.5
Merged-chr14-65150045-4	chr14	65149955	65150155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-51949.0	NM_001360385	54616.0	Mm.103748	NM_018788	ENSMUSG00000021978	Extl3	2900009G18Rik|AU040105|Ext1l|mKIAA0519	exostoses (multiple)-like 3	protein-coding	177.0	300.0	165.5	1818.0	494.0	217.5	219.0	160.0
Merged-chr12-80463174-4	chr12	80463129	80463329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_133798, exon 1 of 9)	5' UTR (NM_133798, exon 1 of 9)	134.0	NM_133798	97827.0	Mm.206631	NM_133798	ENSMUSG00000032705	Exd2	4930539P14Rik|C85658|Exdl2	exonuclease 3'-5' domain containing 2	protein-coding	14.5	25.5	28.0	251.0	37.0	20.5	20.5	24.5
Merged-chr3-50406951-4	chr3	50406848	50407048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011990, intron 6 of 11)	intron (NM_011990, intron 6 of 11)	36665.0	NM_011990	26570.0	Mm.260988	NM_011990	ENSMUSG00000027737	Slc7a11	9930009M05Rik|AI451155|sut|xCT	solute carrier family 7 (cationic amino acid transporter, y+ system), member 11	protein-coding	71.5	69.5	106.5	1375.0	69.5	24.0	50.5	41.0
Merged-chr10-111506440-4	chr10	111506322	111506522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009344, exon 1 of 2)	exon (NM_009344, exon 1 of 2)	136.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	185.5	432.0	210.0	2648.0	631.5	266.0	325.5	144.5
Merged-chr2-129182884-4	chr2	129182798	129182998	+	888.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2225.0	NR_045264	100048701.0	Mm.428544	NR_045264	ENSMUSG00000084826	AI847159	-	expressed sequence AI847159	ncRNA	20.0	48.0	15.5	246.0	83.5	15.0	20.0	16.5
Merged-chr2-48615924-4	chr2	48615816	48616016	+	812.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198193.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	6.5	22.0	16.5	81.0	21.5	11.5	13.0	11.0
Merged-chr12-30282709-2	chr12	30282565	30282765	+	940.375	f0_balb.idr|f1_balb.idr	intron (NM_001324521, intron 6 of 15)	intron (NM_001324521, intron 6 of 15)	90710.0	NM_172951	268534.0	Mm.279765	NM_172951	ENSMUSG00000020672	Sntg2	2210008K22Rik|9530013L23|BB121248|G2syn|Syn5	syntrophin, gamma 2	protein-coding	21.5	10.5	8.5	194.5	2.0	1.0	2.5	3.0
Merged-chr10-60289410-4	chr10	60289341	60289541	+	860.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146124, intron 1 of 13)	intron (NM_001146124, intron 1 of 13)	4980.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	2.0	11.0	9.0	290.0	27.5	7.5	6.0	13.0
Merged-chr8-71288691-4	chr8	71288531	71288731	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 1 of 39)	B3|SINE|B2	15917.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	7.5	14.5	3.5	33.0	23.5	5.0	7.0	10.0
Merged-chr19-29420177-4	chr19	29420079	29420279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 1 of 5)	L1MB7|LINE|L1	9260.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	70.5	114.5	100.0	1127.5	188.5	59.5	72.0	55.0
Merged-chr8-120619799-7	chr8	120619710	120619910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308449, intron 2 of 3)	intron (NM_001308449, intron 2 of 3)	14572.0	NM_197988	68918.0	Mm.473736	NM_197988	ENSMUSG00000043687	1190005I06Rik	-	RIKEN cDNA 1190005I06 gene	protein-coding	33.5	73.0	83.0	592.0	107.5	37.5	36.5	65.5
Merged-chr18-34928148-2	chr18	34928048	34928248	+	658.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144866, intron 2 of 10)	intron (NM_144866, intron 2 of 10)	3855.0	NM_144866	225363.0	Mm.329353	NM_144866	ENSMUSG00000024360	Etf1	AI463371|D6Ertd109e|ERF|ERF1|SUP45L1|TB3-1	eukaryotic translation termination factor 1	protein-coding	7.5	5.5	7.0	43.5	6.0	3.0	2.0	1.5
Merged-chr12-3098379-2	chr12	3098279	3098479	+	768.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137412.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	7.0	13.0	7.5	50.5	14.5	6.0	10.0	5.5
Merged-chr7-5125943-4	chr7	5125837	5126037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009028)	promoter-TSS (NM_009028)	13.0	NM_009028	19428.0	Mm.322186	NM_009028	ENSMUSG00000083649	Rasl2-9	M2|Ran|Ran/M2|Rasl2-9-ps	RAS-like, family 2, locus 9	protein-coding	30.5	53.5	29.0	508.5	106.5	32.5	39.5	43.5
Merged-chr15-100612061-4	chr15	100611947	100612147	+	805.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3063.0	NR_045701	78445.0	Mm.44383	NR_045701	ENSMUSG00000097093	C330013E15Rik	-	RIKEN cDNA C330013E15 gene	ncRNA	5.0	6.5	10.5	150.0	14.5	10.0	7.0	13.5
Merged-chr5-92511450-4	chr5	92511332	92511532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A3|LTR|ERVL-MaLR	-5775.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	26.0	31.5	30.0	297.0	62.0	23.5	23.0	26.0
Merged-chr1-77515204-4	chr1	77515108	77515308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007936)	promoter-TSS (NM_007936)	-120.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	49.0	68.0	72.0	841.0	70.5	31.0	62.0	30.5
Merged-chr8-122454568-4	chr8	122454432	122454632	+	853.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013914, exon 3 of 3)	3' UTR (NM_013914, exon 3 of 3)	-3210.0	NR_015497	319574.0	Mm.271989	NR_015497	ENSMUSG00000110656	Gm20735	-	predicted gene, 20735	ncRNA	8.0	6.5	4.5	77.5	15.0	4.0	7.0	7.5
Merged-chr11-95417501-4	chr11	95417405	95417605	+	876.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359107, intron 1 of 9)	intron (NM_001359107, intron 1 of 9)	3422.0	NM_001359107	20747.0	Mm.285454	NM_025287	ENSMUSG00000057522	Spop	AI315626|Pcif1|TEF2	speckle-type POZ protein	protein-coding	13.5	17.5	1.5	143.0	17.5	15.0	10.0	19.5
Merged-chr12-32339965-4	chr12	32339877	32340077	+	976.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-38812.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	13.0	4.5	12.5	178.5	48.5	8.5	18.5	10.0
Merged-chr10-117910056-6	chr10	117909948	117910148	+	899.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15411.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	13.0	12.5	8.0	134.5	23.0	6.5	5.5	8.5
Merged-chr6-29246763-4	chr6	29246651	29246851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25737.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	47.5	62.5	68.0	1097.0	139.0	49.5	61.5	42.0
Merged-chr18-80220604-3	chr18	80220504	80220704	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025299, intron 3 of 3)	MLT1C-int|LTR|ERVL-MaLR	13737.0	NM_001042408	27366.0	Mm.172411	NM_025299	ENSMUSG00000057130	Txnl4a	D18Wsu98e|Dim1|Txnl4|U5-15kD|U5-15kDa	thioredoxin-like 4A	protein-coding	4.5	6.5	9.5	245.0	2.0	0.0	0.0	0.5
Merged-chr17-56074665-4	chr17	56074567	56074767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024432, intron 2 of 11)	CpG	4666.0	NM_024432	66530.0	Mm.28000	NM_024432	ENSMUSG00000019578	Ubxn6	1200008L11Rik|2210415J11Rik|AU040909|Ubxd1|Ubxdc2	UBX domain protein 6	protein-coding	73.5	118.5	60.5	849.0	202.5	89.0	107.0	81.0
Merged-chr16-43379500-2	chr16	43379400	43379600	+	804.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	L1_Mus3|LINE|L1	40696.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	7.0	12.5	6.0	81.0	15.5	5.0	6.5	9.0
Merged-chr16-95703417-3	chr16	95703338	95703538	+	996.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 1 of 9)	intron (NM_011809, intron 1 of 9)	1031.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	10.0	31.5	11.5	133.5	25.0	17.0	12.0	9.5
Merged-chr8-26681326-4	chr8	26681201	26681401	+	643.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143122.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	6.0	6.0	11.5	92.5	19.0	4.0	8.0	11.5
Merged-chr2-14233136-4	chr2	14233023	14233223	+	954.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 1 of 29)	L2c|LINE|L2	3709.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	15.5	31.5	26.0	511.5	98.0	15.5	11.5	23.5
Merged-chr19-18631895-4	chr19	18631814	18632014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145497)	promoter-TSS (NM_145497)	-101.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	197.0	288.5	181.5	2721.0	417.0	156.0	242.5	174.0
Merged-chr2-167254397-4	chr2	167254300	167254500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13863.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	19.5	23.0	35.0	1147.0	89.5	24.0	35.5	44.0
Merged-chr11-35178781-2	chr11	35178620	35178820	+	742.625	f0_c57.idr|f1_c57bl6.idr	intron (NM_011412, intron 3 of 35)	intron (NM_011412, intron 3 of 35)	57264.0	NM_011412	20564.0	Mm.478604	NM_011412	ENSMUSG00000056427	Slit3	Slil2|Slit1|b2b2362.1Clo	slit guidance ligand 3	protein-coding	0.5	0.0	0.0	5.5	18.0	13.5	8.0	15.5
Merged-chr14-52279106-1	chr14	52279006	52279206	+	1000.0	f0_c57.idr	promoter-TSS (NM_023434)	promoter-TSS (NM_023434)	-40.0	NM_023434	268741.0	Mm.246237	NM_023434	ENSMUSG00000016831	Tox4	5730589K01Rik|A630040M18|AA410149|LCP1	TOX high mobility group box family member 4	protein-coding	95.5	98.0	50.5	759.5	255.5	75.5	113.5	101.5
Merged-chr17-6317482-4	chr17	6317389	6317589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166629)	promoter-TSS (NM_001166629)	-15.0	NM_001166629	100310872.0	Mm.381893	NM_001166629	ENSMUSG00000092074	Dynlt1a	-	dynein light chain Tctex-type 1A	protein-coding	69.0	82.0	97.5	627.5	219.5	80.5	96.5	57.5
Merged-chr6-72023829-3	chr6	72023745	72023945	+	808.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046180, intron 1 of 2)	intron (NR_046180, intron 1 of 2)	18683.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	5.0	9.5	8.5	44.5	34.5	11.0	4.0	5.5
Merged-chr5-21564150-4	chr5	21564071	21564271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028977, intron 2 of 3)	intron (NM_028977, intron 2 of 3)	20644.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	109.0	165.0	121.5	1588.0	241.5	86.0	91.5	98.0
Merged-chr10-118596157-4	chr10	118596045	118596245	+	961.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39620.0	NR_104123	103214.0	Mm.30529	NR_104123	ENSMUSG00000112230	Ifngas1	AI447422|Tmevpg1	Ifng antisense RNA 1	ncRNA	33.0	33.5	14.0	261.0	80.0	12.5	39.5	24.0
Merged-chr18-64921074-4	chr18	64920991	64921191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	33335.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	53.0	37.0	30.0	593.0	95.5	23.5	35.5	26.5
Merged-chr13-44800228-4	chr13	44800120	44800320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 1 of 17)	intron (NM_001205043, intron 1 of 17)	68949.0	NM_001205043	16468.0	Mm.25059	NM_021878	ENSMUSG00000038518	Jarid2	Jmj|jumonji	jumonji, AT rich interactive domain 2	protein-coding	33.0	74.0	55.5	625.0	134.5	38.0	49.0	57.0
Merged-chr18-58660046-4	chr18	58659972	58660172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025478, intron 1 of 4)	intron (NM_025478, intron 1 of 4)	590.0	NM_025478	66307.0	Mm.182574	NM_025478	ENSMUSG00000024601	Isoc1	2610034N03Rik	isochorismatase domain containing 1	protein-coding	27.5	57.5	45.0	697.5	101.0	42.0	50.5	31.0
Merged-chr11-116390871-3	chr11	116390772	116390972	+	663.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 2 of 18)	IAPEz-int|LTR|ERVK	22160.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	0.0	13.0	5.0	13.5	25.5	5.5	13.0	10.5
Merged-chr17-25941883-4	chr17	25941744	25941944	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001039038)	TTS (NM_001039038)	145.0	NM_001357592	14755.0	Mm.362054	NM_011822	ENSMUSG00000025728	Pigq	Gpi1|Gpi1h|Gpi1p|Gpih	phosphatidylinositol glycan anchor biosynthesis, class Q	protein-coding	20.0	17.0	10.5	141.5	18.5	10.0	4.0	17.5
Merged-chr12-32640851-4	chr12	32640764	32640964	+	890.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179471.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	8.5	22.5	13.0	238.5	39.5	9.5	15.0	11.0
Merged-chr11-21036371-4	chr11	21036288	21036488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54936.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	30.0	76.5	20.5	280.5	100.0	30.5	36.0	33.0
Merged-chr6-17065585-4	chr6	17065485	17065685	+	938.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207176, intron 1 of 6)	intron (NM_207176, intron 1 of 6)	436.0	NM_207176	21753.0	Mm.436548	NM_011570	ENSMUSG00000029552	Tes	D6Ertd352e|TESS|Tes1|Tes2|testin2	testis derived transcript	protein-coding	21.0	7.0	14.0	193.5	24.0	5.5	6.5	14.0
Merged-chr6-72152822-4	chr6	72152684	72152884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035228, intron 6 of 6)	intron (NM_001035228, intron 6 of 6)	-29587.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	65.0	56.5	130.5	1957.0	83.5	27.5	64.5	45.0
Merged-chr10-69218597-4	chr10	69218479	69218679	+	796.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252638, intron 2 of 11)	intron (NM_001252638, intron 2 of 11)	5385.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	6.0	5.0	7.0	141.0	14.5	5.5	8.0	14.0
Merged-chr7-67230953-2	chr7	67230853	67231053	+	818.333374	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001291191)	TTS (NM_001291191)	8337.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	1.5	6.5	5.5	80.0	12.5	5.5	5.0	5.5
Merged-chr6-57034798-3	chr6	57034697	57034897	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-1116.0	NM_134187	171205.0	Mm.222638	NM_134187	ENSMUSG00000061208	Vmn1r8	V1rc32	vomeronasal 1 receptor 8	protein-coding	22.0	44.0	29.0	710.0	24.0	11.5	3.5	12.5
Merged-chr1-134053384-4	chr1	134053292	134053492	+	845.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16138.0	NM_021355	14264.0	Mm.287146	NM_021355	ENSMUSG00000041559	Fmod	AI131919|AU041740|FM|SLRR2E	fibromodulin	protein-coding	7.0	12.0	5.5	128.5	48.0	13.5	12.5	5.5
Merged-chr2-167240576-4	chr2	167240476	167240676	+	788.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008968)	promoter-TSS (NM_008968)	-39.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	7.0	8.0	9.5	90.0	15.5	9.5	10.0	13.5
Merged-chr10-89599507-4	chr10	89599435	89599635	+	967.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182959, intron 3 of 11)	intron (NM_182959, intron 3 of 11)	280.0	NM_001310710	216227.0	Mm.233921	NM_182959	ENSMUSG00000019935	Slc17a8	BC042593|Vglut3	solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 8	protein-coding	16.5	17.5	28.0	108.0	57.0	33.0	19.5	27.0
Merged-chr11-109468373-4	chr11	109468271	109468471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029842, intron 1 of 5)	intron (NM_001029842, intron 1 of 5)	4858.0	NM_134038	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	15.0	24.0	30.5	405.5	55.0	16.0	24.5	21.0
Merged-chr13-91908389-4	chr13	91908299	91908499	+	777.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009027, intron 6 of 14)	intron (NM_009027, intron 6 of 14)	-31514.0	NM_198415	76722.0	Mm.316438	NM_198415	ENSMUSG00000021622	Ckmt2	2300008A19Rik|ScCKmit	creatine kinase, mitochondrial 2	protein-coding	12.5	20.0	17.5	233.5	24.0	4.5	9.5	12.0
Merged-chr18-12221827-1	chr18	12221727	12221927	+	934.0	f1_balb.idr	exon (NM_008720, exon 3 of 25)	exon (NM_008720, exon 3 of 25)	14559.0	NM_008720	18145.0	Mm.3484	NM_008720	ENSMUSG00000024413	Npc1	A430089E03Rik|C85354|D18Ertd139e|D18Ertd723e|lcsd|nmf164|spm	NPC intracellular cholesterol transporter 1	protein-coding	1.0	1.0	0.0	46.5	4.5	6.0	6.5	4.5
Merged-chr5-102057226-3	chr5	102057129	102057329	+	895.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	12692.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	10.5	9.0	13.5	151.5	20.0	2.5	12.5	4.0
Merged-chr11-62820373-3	chr11	62820269	62820469	+	911.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_053169, exon 1 of 6)	5' UTR (NM_053169, exon 1 of 6)	116.0	NM_053169	94092.0	Mm.117087	NM_053169	ENSMUSG00000047821	Trim16	9130006M08Rik|AI482483|EBBP	tripartite motif-containing 16	protein-coding	10.5	14.0	10.5	149.0	12.5	8.0	8.5	4.5
Merged-chr11-58199498-4	chr11	58199398	58199598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018738)	promoter-TSS (NM_018738)	-58.0	NM_018738	16145.0	Mm.33902	NM_018738	ENSMUSG00000078853	Igtp	AW558444|Irgm3	interferon gamma induced GTPase	protein-coding	83.0	61.0	29.0	463.0	121.5	29.5	46.5	39.5
Merged-chr2-76071047-4	chr2	76070950	76071150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 12 of 19)	intron (NM_001081033, intron 12 of 19)	-89083.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	54.5	52.0	34.0	693.5	96.0	25.5	47.0	37.5
Merged-chr2-156200042-3	chr2	156199941	156200141	+	842.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 1 of 17)	intron (NM_172674, intron 1 of 17)	3394.0	NM_172674	228829.0	Mm.427078	NM_172674	ENSMUSG00000038116	Phf20	6820402O20Rik	PHD finger protein 20	protein-coding	5.0	7.5	4.5	27.0	51.0	13.0	13.5	20.0
Merged-chr18-10726973-3	chr18	10726872	10727072	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144860, intron 1 of 20)	intron (NM_144860, intron 1 of 20)	1347.0	NM_144860	225164.0	Mm.21500	NM_144860	ENSMUSG00000024294	Mib1	DIP-1|E430019M12Rik|Mib|mKIAA1323	mindbomb E3 ubiquitin protein ligase 1	protein-coding	2.0	6.0	14.5	88.5	13.5	9.0	8.5	11.5
Merged-chr2-163645815-5	chr2	163645660	163645860	+	972.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012032)	promoter-TSS (NM_012032)	-617.0	NM_012032	26943.0	Mm.218473	NM_012032	ENSMUSG00000017707	Serinc3	AA959945|AA960047|AIGP1|DIFF33|TMS-1|Tde1	serine incorporator 3	protein-coding	12.5	14.5	13.5	173.0	34.5	16.0	10.0	31.0
Merged-chr10-19063572-4	chr10	19063486	19063686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-48176.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	46.5	54.0	21.5	270.0	89.5	48.5	39.5	34.5
Merged-chr5-130081432-4	chr5	130081328	130081528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001130476, intron 1 of 5)	intron (NM_001130476, intron 1 of 5)	2058.0	NM_001130476	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	37.0	77.5	28.5	713.5	106.0	37.5	67.0	49.0
Merged-chr17-81703127-1	chr17	81703027	81703227	+	1000.0	f0_balb.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	35260.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	23.0	13.0	25.0	270.0	30.5	6.0	8.0	17.0
Merged-chr10-51597446-4	chr10	51597331	51597531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-6971.0	NM_029894	77296.0	Mm.30588	NM_029894	ENSMUSG00000019909	Fam162b	9430073N08Rik	family with sequence similarity 162, member B	protein-coding	61.0	88.0	78.5	1137.5	101.0	29.0	68.0	63.5
Merged-chr5-17999860-4	chr5	17999760	17999960	+	981.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081143, intron 4 of 7)	intron (NM_001081143, intron 4 of 7)	37290.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	19.5	6.5	20.5	386.0	40.5	20.5	15.5	19.0
Merged-chr16-33745614-4	chr16	33745490	33745690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 10 of 14)	intron (NM_175256, intron 10 of 14)	-48447.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	68.0	75.5	88.5	1085.5	156.0	39.5	67.5	62.0
Merged-chr3-41452239-3	chr3	41452127	41452327	+	672.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR37B|LTR|ERV1	40972.0	NR_040385	78706.0	Mm.366094	NR_040385	ENSMUSG00000097639	Platr4	C430002E04Rik	pluripotency associated transcript 4	ncRNA	8.5	7.0	6.0	157.0	6.5	0.5	1.0	0.5
Merged-chr11-23565926-3	chr11	23565825	23566025	+	640.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-7083.0	NR_004857	100134990.0	Mm.247328	NR_004857	ENSMUSG00000085415	Selenok-ps1	Gm12060	selenoprotein K, pseudogene 1	pseudo	3.5	6.5	5.0	89.5	13.0	5.0	5.0	4.5
Merged-chr1-185238639-4	chr1	185238501	185238701	+	970.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163754, intron 7 of 34)	intron (NM_001163754, intron 7 of 34)	-4325.0	NR_034044	100217449.0	Mm.429560	NR_034044	ENSMUSG00000077571	Snora36b	MBI-87	small nucleolar RNA, H/ACA box 36B	snoRNA	9.5	29.0	18.0	426.0	35.0	14.5	9.5	13.5
Merged-chr18-67289864-6	chr18	67289767	67289967	+	727.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053261, intron 1 of 7)	intron (NM_053261, intron 1 of 7)	644.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	9.5	11.5	6.0	108.0	5.5	5.5	11.5	12.0
Merged-chr6-97278127-4	chr6	97278020	97278220	+	983.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25340.0	NM_001081157	320502.0	Mm.68163	NM_001081157	ENSMUSG00000044086	Lmod3	5430424A14Rik	leiomodin 3 (fetal)	protein-coding	18.5	31.0	13.5	229.0	46.5	20.5	17.5	17.5
Merged-chr14-120407024-4	chr14	120406913	120407113	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 8 of 8)	intron (NM_001360376, intron 8 of 8)	-71448.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	27.0	21.0	24.0	599.5	33.0	15.5	26.5	23.0
Merged-chr4-97885740-3	chr4	97885646	97885846	+	822.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	108120.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	5.5	11.0	10.0	194.0	7.0	1.0	4.0	4.0
Merged-chr7-110003232-4	chr7	110003086	110003286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037959, intron 2 of 2)	intron (NR_037959, intron 2 of 2)	3460.0	NR_037959	69781.0	Mm.440728	NR_037959	ENSMUSG00000101585	1600010M07Rik	-	RIKEN cDNA 1600010M07 gene	ncRNA	49.5	70.0	39.0	844.0	108.5	55.0	53.0	47.0
Merged-chr15-5143802-6	chr15	5143707	5143907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355640)	promoter-TSS (NM_001355640)	-54.0	NM_001013367	105787.0	Mm.207004	NM_001013367	ENSMUSG00000050697	Prkaa1	AI194361|AI450832|AL024255|AMPKalpha1|C130083N04Rik	protein kinase, AMP-activated, alpha 1 catalytic subunit	protein-coding	57.0	59.5	32.0	392.0	102.5	38.5	54.0	27.5
Merged-chr12-73671719-4	chr12	73671602	73671802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	AmnSINE1|SINE|Deu	86906.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	47.0	50.5	53.0	784.5	99.0	36.0	44.0	30.0
Merged-chr12-35392369-4	chr12	35392273	35392473	+	911.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	142616.0	NM_013464	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	13.5	6.0	16.5	299.0	29.5	6.0	15.5	9.0
Merged-chr19-43674428-2	chr19	43674328	43674528	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045645)	promoter-TSS (NR_045645)	453.0	NM_145156	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	18.5	7.5	16.0	98.5	25.5	9.0	7.0	19.5
Merged-chr1-43910846-3	chr1	43910767	43910967	+	904.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MusHAL1|LINE|L1	-23127.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	10.5	5.5	17.5	159.5	33.0	4.5	7.0	2.5
Merged-chr1-151572868-4	chr1	151572816	151573016	+	817.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	Lx4A|LINE|L1	1543.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	6.5	8.5	9.0	85.5	17.5	9.0	8.5	8.0
Merged-chr13-112666828-4	chr13	112666699	112666899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 1 of 14)	intron (NM_178746, intron 1 of 14)	6033.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	95.0	83.0	49.0	936.0	180.5	40.5	83.5	68.5
Merged-chr11-98355927-3	chr11	98355832	98356032	+	713.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313970, intron 5 of 6)	intron (NM_001313970, intron 5 of 6)	2351.0	NR_045477	69338.0	Mm.398308	NR_045477	ENSMUSG00000085944	1700003D09Rik	-	RIKEN cDNA 1700003D09 gene	ncRNA	8.5	9.0	5.5	66.5	19.5	4.0	5.0	7.0
Merged-chr13-90360111-2	chr13	90360020	90360220	+	695.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	270453.0	NM_025335	66074.0	Mm.241387	NM_025335	ENSMUSG00000012422	Tmem167	0610041E09Rik|5730424F14Rik|AU041184|AW537806|Gm10085|Tmem167a	transmembrane protein 167	protein-coding	1.5	0.0	0.0	19.0	24.0	8.0	6.5	13.0
Merged-chr18-20648613-4	chr18	20648512	20648712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155534, intron 1 of 2)	MTE2a|LTR|ERVL-MaLR	-16638.0	NM_013697	22139.0	Mm.2108	NM_013697	ENSMUSG00000061808	Ttr	AA408768|AI787086|D17860|prealbumin	transthyretin	protein-coding	169.0	203.5	154.5	1902.5	366.0	106.0	140.0	126.0
Merged-chr16-91044547-4	chr16	91044434	91044634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026110)	promoter-TSS (NM_026110)	-155.0	NR_152264	67367.0	Mm.347	NM_026110	ENSMUSG00000022974	Paxbp1	1810007M14Rik|C21orf66|Gcfc|Gcfc1|Pax3/7bp	PAX3 and PAX7 binding protein 1	protein-coding	129.5	156.5	91.0	1412.5	322.5	107.0	130.5	138.5
Merged-chr17-29601569-4	chr17	29601465	29601665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198647, intron 12 of 12)	intron (NM_198647, intron 12 of 12)	-5260.0	NR_045447	74092.0	Mm.396264	NR_045447	ENSMUSG00000089900	Tbc1d22bos	0610038L08Rik	TBC1 domain family, member 22B, opposite strand	ncRNA	40.0	65.0	28.5	551.0	63.0	24.0	41.0	36.5
Merged-chr5-66067338-4	chr5	66067251	66067451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	intron (NM_139065, intron 2 of 6)	30828.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	82.5	87.0	147.5	2030.5	205.0	92.0	90.0	132.0
Merged-chr1-127850257-1	chr1	127850157	127850357	+	587.0	f0_balb.idr	Intergenic	Intergenic	-9967.0	NM_011737	22625.0	Mm.246566	NM_011737	ENSMUSG00000051590	Map3k19	Ysk4	mitogen-activated protein kinase kinase kinase 19	protein-coding	7.5	8.5	8.5	151.0	22.0	10.5	8.0	8.5
Merged-chr14-54412982-2	chr14	54412882	54413082	+	943.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001253679, intron 2 of 10)	intron (NM_001253679, intron 2 of 10)	-3510.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	2.0	10.0	10.5	88.0	14.0	6.0	5.0	8.5
Merged-chr19-56530415-2	chr19	56530327	56530527	+	977.916626	f0_balb.idr|f1_balb.idr	intron (NR_153440, intron 9 of 9)	intron (NR_153440, intron 9 of 9)	17695.0	NM_001360437	55947.0	Mm.2805	NM_018831	ENSMUSG00000025077	Dclre1a	2810043H12Rik|AU022226|Pso2|Smn1a|Snm1|mKIAA0086	DNA cross-link repair 1A	protein-coding	13.5	24.0	14.5	267.0	0.0	0.0	0.0	0.0
Merged-chr13-69392375-4	chr13	69392243	69392443	+	940.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141521.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	14.0	11.0	13.5	88.5	75.5	16.0	22.5	18.5
Merged-chr3-7613799-4	chr3	7613721	7613921	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008371)	promoter-TSS (NM_008371)	-61.0	NM_001313888	16196.0	Mm.3825	NM_008371	ENSMUSG00000040329	Il7	A630026I06Rik|Il-7|hlb368	interleukin 7	protein-coding	5.0	14.0	4.0	89.5	29.0	12.0	13.0	25.0
Merged-chr9-40117038-4	chr9	40116931	40117131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11008.0	NM_146855	258854.0	Mm.377722	NM_146855	ENSMUSG00000049073	Olfr985	MOR171-4	olfactory receptor 985	protein-coding	27.0	24.0	42.0	629.0	55.0	20.0	32.5	25.5
Merged-chr9-82888881-4	chr9	82888781	82888981	+	942.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081216, intron 29 of 39)	intron (NM_001081216, intron 29 of 39)	59075.0	NM_001168240	65099.0	Mm.41415	NM_022986	ENSMUSG00000032251	Irak1bp1	4921528N06Rik|AI851240|Aabp3|Aip70|Simpl	interleukin-1 receptor-associated kinase 1 binding protein 1	protein-coding	17.5	18.0	12.0	544.5	78.0	20.0	22.5	28.5
Merged-chr2-150829960-5	chr2	150829817	150830017	+	778.299988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153781, intron 19 of 19)	intron (NM_153781, intron 19 of 19)	12653.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	3.5	12.0	8.5	131.5	15.0	4.5	6.5	10.0
Merged-chr13-101914284-4	chr13	101914130	101914330	+	853.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-146013.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	14.0	15.0	24.0	269.0	14.5	9.5	13.5	11.0
Merged-chr6-39573942-4	chr6	39573876	39574076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178873)	promoter-TSS (NM_178873)	100.0	NM_178873	57869.0	Mm.247957	NM_178873	ENSMUSG00000046947	Adck2	AA408112|BB006057	aarF domain containing kinase 2	protein-coding	42.0	56.0	53.5	669.5	53.5	22.5	33.5	46.5
Merged-chr6-123170390-4	chr6	123170296	123170496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-2627.0	NM_001004159	381809.0	Mm.333372	NM_001004159	ENSMUSG00000067767	Clec4b2	Aplra1|F830043G12Rik|mDCAR1	C-type lectin domain family 4, member b2	protein-coding	57.5	64.0	55.0	679.5	115.5	66.5	50.5	44.5
Merged-chr6-94163256-5	chr6	94163143	94163343	+	884.5499880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130996, intron 1 of 1)	intron (NR_130996, intron 1 of 1)	74199.0	NR_130996	78178.0	Mm.452749	NR_130996	ENSMUSG00000045095	4930511A08Rik	-	RIKEN cDNA 4930511A08 gene	ncRNA	4.5	13.0	24.5	122.0	2.5	1.5	3.5	2.0
Merged-chr11-67052592-4	chr11	67052472	67052672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025510)	promoter-TSS (NM_025510)	46.0	NM_025510	66358.0	Mm.22511	NM_025510	ENSMUSG00000020910	Adprm	2310004I24Rik|MDS006	ADP-ribose/CDP-alcohol diphosphatase, manganese dependent	protein-coding	56.5	54.0	62.5	785.5	99.5	32.5	43.5	44.5
Merged-chr13-43725892-3	chr13	43725797	43725997	+	657.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9106.0	NR_046022	622552.0	Mm.375036	NR_046022	ENSMUSG00000110016	Gm20751	-	predicted gene, 20751	ncRNA	9.5	13.0	12.0	49.0	10.5	10.5	5.0	8.5
Merged-chr8-13339159-4	chr8	13339106	13339306	+	834.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358991, intron 1 of 12)	CpG	402.0	NM_009361	21781.0	Mm.925	NM_009361	ENSMUSG00000038482	Tfdp1	Dp1|Drtf1	transcription factor Dp 1	protein-coding	3.5	12.0	7.0	77.5	16.0	17.5	8.0	12.0
Merged-chr1-165763030-4	chr1	165762932	165763132	+	891.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011804)	promoter-TSS (NM_011804)	-726.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	14.0	19.5	8.5	115.5	26.0	6.5	10.5	18.5
Merged-chr2-126682452-4	chr2	126682342	126682542	+	939.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-6105.0	NM_001271470	14391.0	Mm.293266	NM_010249	ENSMUSG00000027361	Gabpb1	BABPB2|E4TF1|E4TF1-47|E4TF1-53|E4Tf1B|GABPB|GABPB-1|GABPB-2|GABPB1-1|GABPB1-2|NRF2B1|NRF2B2	GA repeat binding protein, beta 1	protein-coding	8.0	20.5	17.0	232.5	24.5	9.0	22.0	21.0
Merged-chr9-32138817-4	chr9	32138712	32138912	+	822.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195632, intron 2 of 21)	L2a|LINE|L2	22676.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	7.0	8.0	6.5	316.5	27.5	9.5	7.5	10.0
Merged-chr7-27606382-3	chr7	27606254	27606454	+	929.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331109)	promoter-TSS (NM_001331109)	557.0	NM_007434	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	5.0	6.5	6.0	20.0	36.0	15.0	10.0	13.5
Merged-chr16-32194956-4	chr16	32194850	32195050	+	800.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15150.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	21.0	32.0	16.0	140.0	19.5	14.5	8.5	10.0
Merged-chr3-95655751-4	chr3	95655666	95655866	+	963.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2955.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	21.0	19.5	9.5	283.5	48.0	22.0	33.5	30.0
Merged-chr11-79584367-2	chr11	79584267	79584467	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6845.0	NM_175543	268451.0	Mm.130656	NM_175543	ENSMUSG00000017639	Rab11fip4	A730072L08Rik|RAB11-FIP4|mKIAA1821	RAB11 family interacting protein 4 (class II)	protein-coding	12.5	4.5	3.5	94.5	25.0	4.5	5.0	10.0
Merged-chr3-103913484-4	chr3	103913381	103913581	+	907.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356556)	promoter-TSS (NM_001356556)	-639.0	NM_001356557	229675.0	Mm.29366	NM_172684	ENSMUSG00000044098	Rsbn1	C230004D03Rik|E330004N01|KDM9|Rosbin|Rsbn|Rsbp|mKIAA3002	rosbin, round spermatid basic protein 1	protein-coding	21.0	22.5	10.5	342.0	35.0	12.0	13.5	15.5
Merged-chr16-17686785-3	chr16	17686706	17686906	+	898.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358404, intron 2 of 16)	intron (NM_001358404, intron 2 of 16)	36094.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	9.0	9.5	14.0	194.0	6.5	1.0	5.5	5.0
Merged-chr8-127330344-3	chr8	127330223	127330423	+	964.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013580, intron 3 of 13)	intron (NM_001013580, intron 3 of 13)	30671.0	NM_001013580	93742.0	Mm.299254	NM_033620	ENSMUSG00000025812	Pard3	AA960621|AI256638|Asip|D8Ertd580e|Par-3|Par3|Pard-3|Pard3a|Phip	par-3 family cell polarity regulator	protein-coding	15.0	6.5	18.0	152.0	13.5	2.5	5.5	11.5
Merged-chr9-121536300-4	chr9	121536207	121536407	+	789.516663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2-int|LTR|ERVL-MaLR	-40613.0	NM_031161	12424.0	Mm.2619	NM_031161	ENSMUSG00000032532	Cck	-	cholecystokinin	protein-coding	14.5	10.0	5.0	125.0	44.0	21.5	11.5	9.0
Merged-chr1-136580412-2	chr1	136580312	136580512	+	597.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44489.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	5.5	5.0	8.0	59.5	11.5	5.0	8.5	9.5
Merged-chr13-113556699-4	chr13	113556603	113556803	+	947.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-53859.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	14.0	16.0	31.5	129.5	26.5	8.0	29.5	28.0
Merged-chr9-90198825-6	chr9	90198822	90199022	+	909.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003911, intron 23 of 23)	intron (NM_001003911, intron 23 of 23)	35944.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	18.5	19.0	14.5	35.5	23.5	5.5	8.0	18.0
Merged-chr5-125307797-4	chr5	125307729	125307929	+	904.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	33265.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	9.5	9.5	18.5	201.5	29.5	7.5	14.5	17.0
Merged-chr11-106778793-3	chr11	106778652	106778852	+	989.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_148430, exon 1 of 8)	non-coding (NR_148430, exon 1 of 8)	714.0	NM_001353435	50776.0	Mm.859	NM_015810	ENSMUSG00000020718	Polg2	mtPolB|p55|polG-beta	polymerase (DNA directed), gamma 2, accessory subunit	protein-coding	16.0	18.5	7.0	85.0	30.5	13.0	6.5	7.5
Merged-chr3-9783335-3	chr3	9783256	9783456	+	766.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 1 of 7)	intron (NM_053182, intron 1 of 7)	50323.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	11.0	5.0	12.5	116.0	7.5	3.0	4.0	2.5
Merged-chr19-55236235-4	chr19	55236124	55236324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 2 of 20)	intron (NM_001081076, intron 2 of 20)	5012.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	48.5	41.5	90.0	1160.5	72.5	23.0	53.5	46.0
Merged-chr7-19692711-4	chr7	19692627	19692827	+	939.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007469)	promoter-TSS (NM_007469)	-68.0	NM_007469	11812.0	Mm.182440	NM_007469	ENSMUSG00000040564	Apoc1	Apo-CIB|ApoC-IB|apo-CI|apoC-I	apolipoprotein C-I	protein-coding	13.0	9.0	17.5	249.0	35.5	12.5	15.0	20.0
Merged-chr9-111563491-4	chr9	111563426	111563626	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016853, intron 10 of 10)	intron (NM_016853, intron 10 of 10)	124445.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	27.5	29.5	28.0	256.0	41.5	18.5	12.5	11.0
Merged-chr5-100608086-4	chr5	100607983	100608183	+	962.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35878.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	17.0	16.5	17.0	299.5	49.0	7.5	13.5	15.0
Merged-chr7-16875130-4	chr7	16875030	16875230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081655)	promoter-TSS (NM_001081655)	-187.0	NM_001081655	629378.0	Mm.491123	NM_001081655	ENSMUSG00000078794	Dact3	EG666671|naa-3	dishevelled-binding antagonist of beta-catenin 3	protein-coding	419.5	743.0	492.5	6057.5	1160.0	519.0	584.5	449.0
Merged-chr2-140790561-4	chr2	140790465	140790665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	intron (NM_001013802, intron 3 of 18)	-119089.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	36.5	65.0	24.0	481.0	80.0	42.0	41.5	25.5
Merged-chr7-132308032-3	chr7	132307935	132308135	+	839.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029935, intron 1 of 7)	MER34A1|LTR|ERV1	-7629.0	NR_028578	100043682.0	Mm.482794	NR_028578	ENSMUSG00000109270	Gm10584	-	predicted gene 10584	ncRNA	6.5	5.0	11.5	151.5	15.0	7.5	6.0	9.0
Merged-chr2-167660800-6	chr2	167660711	167660911	+	942.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145538, intron 1 of 5)	intron (NM_145538, intron 1 of 5)	733.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	9.0	22.5	27.5	159.0	30.0	7.5	5.5	11.5
Merged-chr19-23142881-4	chr19	23142799	23142999	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010638, intron 1 of 1)	intron (NM_010638, intron 1 of 1)	1673.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	16.5	19.0	23.0	235.0	28.5	12.5	12.0	11.5
Merged-chr14-54239243-2	chr14	54239139	54239339	+	822.5	f0_balb.idr|f1_balb.idr	TTS (NM_010015)	TTS (NM_010015)	14690.0	NM_001113358	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	9.0	14.5	5.0	106.5	18.5	4.0	9.5	8.5
Merged-chr1-58697836-2	chr1	58697732	58697932	+	603.833374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-1843.0	NM_175370	108812.0	Mm.442063	NM_175370	ENSMUSG00000047528	Als2cr12	4933405P16Rik|4933425F06Rik	amyotrophic lateral sclerosis 2 chromosome region 12	protein-coding	5.5	7.5	7.0	137.5	10.5	2.0	5.0	5.5
Merged-chr8-66486574-4	chr8	66486457	66486657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025465)	promoter-TSS (NM_025465)	-27.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	59.5	70.5	56.5	781.0	160.5	48.5	63.5	74.0
Merged-chr13-74807984-4	chr13	74807894	74808094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009817)	promoter-TSS (NM_009817)	-34.0	NM_009817	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	36.0	43.5	34.0	689.5	110.5	30.5	90.0	31.5
Merged-chr1-156467824-4	chr1	156467734	156467934	+	961.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	intron (NM_009230, intron 1 of 15)	6494.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	33.0	14.5	24.0	396.0	68.0	16.5	15.0	23.0
Merged-chr2-84494296-3	chr2	84494205	84494405	+	737.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	12568.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	5.0	5.5	13.5	65.0	10.0	1.0	10.0	10.5
Merged-chr10-111673039-9	chr10	111672963	111673163	+	978.607422	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78790.0	NR_045344	71321.0	Mm.410785	NR_045344	ENSMUSG00000097082	4933440J02Rik	-	RIKEN cDNA 4933440J02 gene	ncRNA	10.0	9.0	8.0	161.0	36.5	10.0	13.0	12.5
Merged-chr9-31018367-4	chr9	31018246	31018446	+	946.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-12298.0	NM_001115130	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	9.0	23.0	16.0	138.5	32.5	13.0	20.5	20.0
Merged-chr6-39372940-4	chr6	39372819	39373019	+	946.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001361617, exon 2 of 17)	5' UTR (NM_001361617, exon 2 of 17)	4516.0	NR_155076	72144.0	Mm.482167	NM_028123	ENSMUSG00000029924	Slc37a3	2610507O21Rik|AU044904	solute carrier family 37 (glycerol-3-phosphate transporter), member 3	protein-coding	35.0	23.5	27.5	359.0	37.5	9.5	21.5	11.0
Merged-chr4-114947564-4	chr4	114947485	114947685	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21572.0	NM_015758	30923.0	Mm.377122	NM_015758	ENSMUSG00000044518	Foxe3	FREAC8|dyl|rct	forkhead box E3	protein-coding	18.0	20.5	21.0	433.0	42.5	28.5	27.5	24.5
Merged-chr18-39623366-4	chr18	39623278	39623478	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-136133.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	19.0	21.5	14.0	188.5	72.5	15.0	10.5	12.5
Merged-chr6-108719027-4	chr6	108718935	108719135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58101.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	77.5	137.0	84.0	1571.5	236.5	86.5	116.5	106.5
Merged-chr6-125481239-4	chr6	125481128	125481328	+	764.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007657, intron 1 of 7)	intron (NM_007657, intron 1 of 7)	13532.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	6.5	9.0	3.5	133.0	26.5	7.5	8.0	8.5
Merged-chr10-7780239-3	chr10	7780154	7780354	+	812.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145418, intron 1 of 7)	intron (NM_145418, intron 1 of 7)	663.0	NM_145418	215751.0	Mm.471825	NM_145418	ENSMUSG00000040006	Ginm1	AA589616	glycoprotein integral membrane 1	protein-coding	3.0	4.0	12.0	63.5	16.0	5.0	6.5	5.5
Merged-chr5-140806492-3	chr5	140806385	140806585	+	949.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	intron (NM_010302, intron 1 of 3)	23946.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	17.0	11.0	7.0	209.5	26.0	9.5	9.0	7.0
Merged-chr3-79153133-4	chr3	79153054	79153254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7279.0	NM_001099624	76089.0	Mm.31220	NM_001099624	ENSMUSG00000062232	Rapgef2	5830453M24Rik|CNRasGEF|Pdzgef1|RA-GEF-1|mKIAA0313|nRapGEP	Rap guanine nucleotide exchange factor (GEF) 2	protein-coding	151.0	303.5	182.5	2008.0	322.0	160.5	145.0	124.0
Merged-chr4-62630165-4	chr4	62630042	62630242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019492, intron 14 of 19)	intron (NM_019492, intron 14 of 19)	10470.0	NM_134257	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	39.5	60.0	29.0	718.0	78.5	29.0	32.5	36.5
Merged-chr10-116581519-11	chr10	116581442	116581642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028082)	promoter-TSS (NM_028082)	-31.0	NM_001359249	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	70.0	73.5	56.5	607.5	146.0	77.5	64.5	68.5
Merged-chr2-66170555-3	chr2	66170438	66170638	+	884.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45745.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	10.0	11.0	13.5	301.5	15.0	5.0	11.5	7.5
Merged-chr16-25022738-4	chr16	25022653	25022853	+	953.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36886.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	16.5	16.5	29.5	475.0	35.5	10.0	22.0	13.5
Merged-chr13-43481295-7	chr13	43481177	43481377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019930)	promoter-TSS (NM_019930)	-304.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	27.0	38.0	19.5	288.0	51.5	33.5	23.5	20.5
Merged-chr9-124282219-4	chr9	124282113	124282313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30481.0	NM_001243118	630836.0	Mm.458553	NM_001243117	ENSMUSG00000074829	2010315B03Rik	BC029716	RIKEN cDNA 2010315B03 gene	protein-coding	60.5	51.5	32.0	651.0	143.0	52.0	71.5	55.5
Merged-chr1-186855729-3	chr1	186855615	186855815	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106357.0	NM_026041	67223.0	Mm.289841	NM_026041	ENSMUSG00000001305	Rrp15	2810430M08Rik|5430437H21Rik	ribosomal RNA processing 15 homolog (S. cerevisiae)	protein-coding	1.5	4.0	7.0	122.5	167.0	51.0	78.0	81.0
Merged-chr2-71027097-4	chr2	71026994	71027194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145524, intron 1 of 9)	RLTR30B_MM|LTR|ERV1	-8720.0	NM_001110512	228019.0	Mm.490343	NM_145524	ENSMUSG00000041975	Mettl8	BC004636|Tip	methyltransferase like 8	protein-coding	61.0	102.0	58.0	1280.5	125.0	50.0	87.0	46.5
Merged-chr10-80152770-5	chr10	80152615	80152815	+	929.5599980000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347117, intron 4 of 7)	intron (NM_001347117, intron 4 of 7)	3033.0	NM_001305799	59090.0	Mm.143813	NM_021565	ENSMUSG00000035621	Midn	3000003C15Rik	midnolin	protein-coding	31.5	19.5	6.5	88.5	41.5	13.0	5.0	6.0
Merged-chr2-155930137-4	chr2	155930052	155930252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_018888, exon 1 of 10)	5' UTR (NM_018888, exon 1 of 10)	158.0	NM_001355443	56046.0	Mm.158827	NM_018888	ENSMUSG00000005882	Uqcc1	2310079L17Rik|2410003P15Rik|3110038N19Rik|Bfzb|Bfzp|Cbp3|Uqcc	ubiquinol-cytochrome c reductase complex assembly factor 1	protein-coding	46.5	43.0	41.0	632.5	62.5	16.5	26.5	40.0
Merged-chr10-89444411-4	chr10	89444309	89444509	+	986.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284344)	promoter-TSS (NM_001284344)	-442.0	NM_001033331	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	29.0	20.0	27.0	456.5	78.5	15.5	20.5	28.5
Merged-chr10-89436054-3	chr10	89435932	89436132	+	746.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079876, intron 2 of 10)	intron (NM_001079876, intron 2 of 10)	7935.0	NM_001284344	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	5.5	7.0	6.5	146.5	11.5	1.0	4.0	3.5
Merged-chr19-25138364-4	chr19	25138240	25138440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 23 of 47)	B1_Mur2|SINE|Alu	-98635.0	NM_181404	107351.0	Mm.260722	NM_181404	ENSMUSG00000032702	Kank1	A930031B09Rik|AU015049|AW121052|Ankrd15|D330024H06Rik|mKIAA0172	KN motif and ankyrin repeat domains 1	protein-coding	87.0	96.5	79.0	1246.5	207.0	94.5	140.0	79.5
Merged-chr5-137624246-4	chr5	137624133	137624333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027708, exon 3 of 10)	exon (NM_027708, exon 3 of 10)	845.0	NM_027708	71176.0	Mm.474695	NM_027708	ENSMUSG00000089984	Fbxo24	4933422D21Rik|Fbx24	F-box protein 24	protein-coding	29.5	44.5	24.5	524.0	46.0	20.0	24.5	23.0
Merged-chr13-43561246-4	chr13	43561153	43561353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-1062.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	54.0	136.0	34.0	198.0	140.0	53.0	41.5	27.0
Merged-chr6-86401268-4	chr6	86401171	86401371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2948.0	NM_001164079	21841.0	Mm.333219	NM_011585	ENSMUSG00000071337	Tia1	2310050N03Rik|AI256674|TIA-1|mTIA-1	cytotoxic granule-associated RNA binding protein 1	protein-coding	36.0	24.5	24.5	397.0	85.0	30.0	48.0	28.5
Merged-chr13-64181123-3	chr13	64181052	64181252	+	939.2000119999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019986, intron 5 of 7)	intron (NM_019986, intron 5 of 7)	19286.0	NM_019986	56541.0	Mm.40989	NM_019986	ENSMUSG00000021476	Habp4	4933413D03Rik|4933428J01Rik	hyaluronic acid binding protein 4	protein-coding	6.0	13.0	3.5	78.0	23.5	12.5	17.5	20.0
Merged-chr2-167702315-3	chr2	167702211	167702411	+	636.133301	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11134.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	7.5	1.0	2.0	66.0	12.5	6.0	5.5	8.5
Merged-chr13-44480334-4	chr13	44480239	44480439	+	863.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40612.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	9.5	8.0	8.5	109.0	39.0	11.5	25.0	17.0
Merged-chr7-17058524-4	chr7	17058403	17058603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162950, intron 1 of 14)	intron (NM_001162950, intron 1 of 14)	-1824.0	NM_016868	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	50.0	72.5	67.5	777.0	110.0	43.5	64.5	70.0
Merged-chr13-80886128-4	chr13	80886031	80886231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153411)	promoter-TSS (NR_153411)	36.0	NR_153411	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	277.0	350.0	275.5	4084.0	596.0	219.5	229.5	214.5
Merged-chr2-127337415-6	chr2	127337354	127337554	+	731.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010090, exon 3 of 4)	exon (NM_010090, exon 3 of 4)	-1185.0	NM_172539	215095.0	Mm.31313	NM_172539	ENSMUSG00000050468	Astl	7420700F21|C87576|Sas1b	astacin-like metalloendopeptidase (M12 family)	protein-coding	7.0	16.5	3.0	59.0	20.0	8.0	5.5	8.0
Merged-chr7-66689765-4	chr7	66689672	66689872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003961)	promoter-TSS (NR_003961)	-117.0	NM_152815	72635.0	Mm.289796	NM_152815	ENSMUSG00000053091	Lins1	2700083B01Rik|AW547219|Lins|Lins2|Wins2	lines homolog 1	protein-coding	282.5	434.5	300.0	3937.0	636.0	265.5	326.0	231.5
Merged-chr11-70633008-3	chr11	70632932	70633132	+	917.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MDa|LINE|L1	-6090.0	NM_010326	14723.0	Mm.377085	NM_010326	ENSMUSG00000050675	Gp1ba	GP-Ib alpha|GPIba|GPIbalpha	glycoprotein 1b, alpha polypeptide	protein-coding	11.5	9.5	19.0	91.5	15.0	4.0	3.0	5.5
Merged-chr10-53877443-3	chr10	53877346	53877546	+	883.966675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126537.0	NM_001081428	75906.0	Mm.436785	NM_001081428	ENSMUSG00000019856	Fam184a	3110012E06Rik|4930438C08Rik|4930589M24Rik	family with sequence similarity 184, member A	protein-coding	17.5	19.0	12.0	187.5	20.0	3.0	11.0	5.0
Merged-chr16-24919900-4	chr16	24919801	24920001	+	963.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-139738.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	29.0	27.0	5.0	231.0	63.0	26.5	17.5	10.5
Merged-chr18-38436500-3	chr18	38436397	38436597	+	758.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	L1M4|LINE|L1	17590.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	4.5	8.5	14.0	165.0	24.0	2.5	6.5	4.5
Merged-chr13-98868724-3	chr13	98868619	98868819	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 7 of 23)	intron (NM_178716, intron 7 of 23)	22323.0	NM_001048267	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	24.0	40.5	23.5	533.5	0.5	0.0	0.0	4.0
Merged-chr1-88653764-4	chr1	88653656	88653856	+	910.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48435.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	11.5	23.5	14.0	247.0	25.0	23.0	9.0	10.0
Merged-chr11-104231332-4	chr11	104231230	104231430	+	990.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010838)	promoter-TSS (NM_010838)	-106.0	NM_001038609	17762.0	Mm.1287	NM_010838	ENSMUSG00000018411	Mapt	AI413597|AW045860|Mtapt|Tau	microtubule-associated protein tau	protein-coding	24.5	52.0	30.0	477.5	72.0	26.5	18.5	24.5
Merged-chr9-66124246-4	chr9	66124159	66124359	+	928.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019727, intron 1 of 14)	intron (NM_019727, intron 1 of 14)	627.0	NM_019727	56440.0	Mm.271891	NM_019727	ENSMUSG00000032382	Snx1	-	sorting nexin 1	protein-coding	6.5	12.0	9.0	135.0	37.0	6.5	13.5	10.5
Merged-chr18-68160048-4	chr18	68159918	68160118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	Tigger6a|DNA|TcMar-Tigger	-67928.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	109.5	149.5	147.0	1313.5	214.5	74.0	82.0	69.0
Merged-chr10-80677328-4	chr10	80677231	80677431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-1038.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	51.5	53.5	43.0	645.5	118.0	43.0	56.5	43.0
Merged-chr17-86337284-4	chr17	86337220	86337420	+	893.695801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	intron (NM_011104, intron 1 of 14)	-50142.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	5.5	15.0	15.0	207.0	17.5	4.5	20.5	12.5
Merged-chr9-24503294-4	chr9	24503196	24503396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172920)	promoter-TSS (NM_172920)	-156.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	158.0	293.0	165.0	1953.5	447.0	187.0	246.0	122.5
Merged-chr13-51401363-4	chr13	51401260	51401460	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7258.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	15.5	39.5	32.5	617.5	62.0	32.0	40.5	32.5
Merged-chr13-45267560-4	chr13	45267463	45267663	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	-122179.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	71.5	42.0	101.0	1655.0	36.0	6.0	15.0	28.5
Merged-chr2-130295690-3	chr2	130295570	130295770	+	983.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110513)	promoter-TSS (NM_001110513)	-269.0	NM_001110513	228598.0	Mm.32582	NM_152993	ENSMUSG00000053552	Ebf4	Ebf3|O/E-4|Olf-1	early B cell factor 4	protein-coding	16.0	13.0	7.0	165.0	26.5	8.5	4.0	14.0
Merged-chr8-83081259-3	chr8	83081174	83081374	+	919.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 6 of 6)	intron (NM_177378, intron 6 of 6)	-84078.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	10.0	8.0	8.0	166.5	13.5	8.0	4.5	5.0
Merged-chr3-95657326-4	chr3	95657218	95657418	+	831.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1403.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	12.0	18.0	5.5	110.5	26.5	8.5	12.0	12.0
Merged-chr19-43885269-4	chr19	43885178	43885378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028029, intron 4 of 15)	intron (NM_028029, intron 4 of 15)	-5510.0	NM_001306088	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	29.5	27.0	41.5	564.0	61.5	16.5	20.5	24.5
Merged-chr3-79237830-4	chr3	79237747	79237947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	ORR1A4|LTR|ERVL-MaLR	24928.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	148.0	185.5	120.0	1901.5	305.5	109.0	177.5	118.0
Merged-chr19-47137368-4	chr19	47137274	47137474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133746, intron 1 of 2)	intron (NM_133746, intron 1 of 2)	920.0	NM_133746	72691.0	Mm.31663	NM_133746	ENSMUSG00000033033	Calhm2	2810048G17Rik|Fam26b	calcium homeostasis modulator 2	protein-coding	42.0	67.0	55.0	982.0	110.0	53.0	61.0	55.5
Merged-chr18-50016920-4	chr18	50016740	50016940	+	908.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	-14144.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	6.5	7.5	13.0	178.5	25.5	8.0	5.5	14.0
Merged-chr12-12231800-4	chr12	12231694	12231894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30345.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	30.0	47.0	31.5	470.0	104.0	39.0	39.0	27.5
Merged-chr11-118739042-3	chr11	118738962	118739162	+	846.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024931, intron 2 of 14)	intron (NM_001024931, intron 2 of 14)	21979.0	NM_001285438	52897.0	Mm.341103	NM_001024931	ENSMUSG00000025576	Rbfox3	Fox-3|Hrnbp3|NeuN|Neuna60	RNA binding protein, fox-1 homolog (C. elegans) 3	protein-coding	4.0	2.0	2.0	41.0	16.0	12.0	11.5	6.0
Merged-chr2-163929743-4	chr2	163929633	163929833	+	942.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11050.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	29.5	55.5	77.5	928.0	30.5	6.5	10.5	13.5
Merged-chr14-55577994-2	chr14	55577898	55578098	+	737.583374	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_011189)	promoter-TSS (NM_011189)	-496.0	NM_011189	19186.0	Mm.830	NM_011189	ENSMUSG00000022216	Psme1	AW413925|PA28a	proteasome (prosome, macropain) activator subunit 1 (PA28 alpha)	protein-coding	14.0	19.0	13.0	235.5	18.0	11.0	6.0	11.5
Merged-chr2-24367141-4	chr2	24367045	24367245	+	979.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355231)	promoter-TSS (NM_001355231)	-530.0	NM_001355231	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	16.0	34.5	12.0	238.5	80.5	20.0	23.5	31.5
Merged-chr9-44267084-4	chr9	44266998	44267198	+	901.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163742, intron 1 of 9)	intron (NM_001163742, intron 1 of 9)	1089.0	NM_001163743	270151.0	Mm.3957	NM_178420	ENSMUSG00000032109	Nlrx1	BC034204|NOD9	NLR family member X1	protein-coding	12.5	14.0	15.5	231.5	23.0	6.5	15.0	22.0
Merged-chr16-33180125-4	chr16	33179999	33180199	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4972.0	NM_176840	106326.0	Mm.486405	NM_176840	ENSMUSG00000022807	Osbpl11	9430097N02Rik|AI132306|AU019795|ORP-11	oxysterol binding protein-like 11	protein-coding	25.0	22.5	26.5	483.5	41.5	13.5	20.0	33.5
Merged-chr9-122805581-4	chr9	122805521	122805721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013405)	promoter-TSS (NM_001013405)	74.0	NM_001013405	382117.0	Mm.215892	NM_001013405	ENSMUSG00000046603	Tcaim	D9Ertd402e|Gm1129|TOAG-1	T cell activation inhibitor, mitochondrial	protein-coding	78.0	119.5	101.5	951.5	175.0	75.0	83.0	87.0
Merged-chr2-27030822-4	chr2	27030720	27030920	+	771.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2822.0	NM_001177627	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	1.5	21.0	9.5	42.0	16.0	5.5	12.5	12.0
Merged-chr1-151625915-4	chr1	151625801	151626001	+	796.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	L1MD|LINE|L1	54528.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	10.0	20.5	10.5	199.0	22.0	9.0	9.0	16.0
Merged-chr10-96625320-1	chr10	96625220	96625420	+	558.0	f0_balb.idr	Intergenic	Intergenic	8319.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	7.5	18.0	1.0	44.0	5.5	6.5	4.5	6.5
Merged-chr14-32184286-4	chr14	32184219	32184419	+	970.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016897, intron 6 of 6)	intron (NM_016897, intron 6 of 6)	17572.0	NM_016897	53600.0	Mm.303703	NM_016897	ENSMUSG00000013701	Timm23	Tim23	translocase of inner mitochondrial membrane 23	protein-coding	20.0	38.5	25.5	260.0	47.0	10.5	19.5	14.0
Merged-chr16-94602778-3	chr16	94602681	94602881	+	942.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	-8638.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	10.5	9.0	10.5	173.0	7.5	2.0	10.5	12.0
Merged-chr6-34690988-4	chr6	34690895	34691095	+	829.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347100, intron 3 of 13)	intron (NM_001347100, intron 3 of 13)	-18449.0	NM_145575	109624.0	Mm.308134	NM_145575	ENSMUSG00000029761	Cald1	4833423D12Rik|AI195384|AV071549|AW536160|C920027I18Rik	caldesmon 1	protein-coding	4.0	11.5	6.0	129.5	21.0	8.5	9.0	12.5
Merged-chr10-68277853-4	chr10	68277760	68277960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	866.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	50.5	50.5	33.0	461.5	84.0	57.5	46.5	33.0
Merged-chr19-16130879-4	chr19	16130795	16130995	+	738.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1936.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	3.5	3.5	8.0	117.5	22.5	8.0	5.0	10.0
Merged-chr2-73513896-3	chr2	73513812	73514012	+	630.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	15575.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	5.5	8.0	5.5	117.0	11.5	4.0	1.0	1.5
Merged-chr11-113648358-4	chr11	113648224	113648424	+	950.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1205.0	NM_013581	16834.0	Mm.261620	NM_013581	ENSMUSG00000018661	Cog1	6030445I15|Ldlb|mKIAA1381	component of oligomeric golgi complex 1	protein-coding	15.5	19.5	10.0	178.5	35.0	12.5	8.5	11.5
Merged-chr2-79865493-4	chr2	79865399	79865599	+	887.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009978, intron 11 of 12)	intron (NM_001009978, intron 11 of 12)	42900.0	NM_001009979	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	26.5	14.5	11.5	313.5	37.5	21.0	12.5	5.0
Merged-chr10-80054699-4	chr10	80054601	80054801	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008162, exon 3 of 7)	exon (NM_008162, exon 3 of 7)	682.0	NM_001037741	625249.0	Mm.332810	NM_008162	ENSMUSG00000075706	Gpx4	GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx	glutathione peroxidase 4	protein-coding	17.0	32.5	27.0	137.0	65.5	22.0	27.0	15.0
Merged-chr4-93598686-2	chr4	93598583	93598783	+	552.0	f0_balb.idr|f1_balb.idr	Intergenic	L1MEc|LINE|L1	-263172.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	4.5	7.0	14.5	91.0	10.5	1.5	3.0	3.0
Merged-chr6-49263435-5	chr6	49263350	49263550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362188, intron 1 of 8)	CpG	602.0	NM_001347209	101214.0	Mm.196598	NM_198102	ENSMUSG00000029817	Tra2a	1500010G04Rik|AL022798|G430041M01Rik|mAWMS1	transformer 2 alpha	protein-coding	28.0	56.0	41.5	412.5	81.0	29.5	42.5	63.5
Merged-chr8-121934648-3	chr8	121934568	121934768	+	822.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007608, intron 2 of 6)	intron (NM_007608, intron 2 of 6)	10244.0	NM_007608	12352.0	Mm.116761	NM_007608	ENSMUSG00000025317	Car5a	CAV|Ca5a|Car5	carbonic anhydrase 5a, mitochondrial	protein-coding	7.5	17.5	9.0	102.0	15.0	4.5	10.5	17.0
Merged-chr6-97175927-4	chr6	97175846	97176046	+	945.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081111, exon 2 of 17)	exon (NM_001081111, exon 2 of 17)	3178.0	NM_001081111	232286.0	Mm.30893	NM_001081111	ENSMUSG00000030059	Tmf1	7030402D04Rik|Gm153|Tmf1`	TATA element modulatory factor 1	protein-coding	23.5	16.0	21.5	477.0	54.0	10.5	19.0	17.5
Merged-chr7-142373876-3	chr7	142373779	142373979	+	947.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347541)	promoter-TSS (NM_001347541)	-133.0	NM_001347541	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	10.0	1.0	9.0	69.5	48.5	18.0	18.5	12.5
Merged-chr1-132157487-4	chr1	132157345	132157545	+	793.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17760.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	3.0	9.0	2.5	62.0	11.5	5.0	4.5	8.5
Merged-chr8-10834312-3	chr8	10834214	10834414	+	601.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTG)n|Simple_repeat|Simple_repeat	48140.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	12.0	12.5	4.0	123.5	11.0	7.5	5.0	6.5
Merged-chr4-135352655-4	chr4	135352530	135352730	+	941.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016799, intron 1 of 17)	CpG	584.0	NM_016799	51796.0	Mm.1963	NM_016799	ENSMUSG00000028809	Srrm1	AA407769|POP101|Srm160	serine/arginine repetitive matrix 1	protein-coding	8.0	11.0	8.0	101.0	23.0	13.0	11.5	22.0
Merged-chr6-113751323-4	chr6	113751226	113751426	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 19 of 19)	A-rich|Low_complexity|Low_complexity	-10645.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	17.0	9.0	15.5	177.5	29.5	4.0	15.0	17.5
Merged-chr11-100555752-4	chr11	100555670	100555870	+	869.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028918, intron 7 of 11)	ORR1E|LTR|ERVL-MaLR	10138.0	NM_028918	74407.0	Mm.31590	NM_028918	ENSMUSG00000006784	Ttc25	4933404O19Rik	tetratricopeptide repeat domain 25	protein-coding	21.0	22.0	8.0	148.5	47.0	11.5	25.0	13.5
Merged-chr11-106751202-4	chr11	106751098	106751298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271372)	promoter-TSS (NM_001271372)	-28.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	30.5	35.5	32.0	351.0	88.0	32.0	41.5	26.0
Merged-chr17-36958585-4	chr17	36958503	36958703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029602)	promoter-TSS (NM_029602)	11.0	NM_029602	76416.0	Mm.26684	NM_029602	ENSMUSG00000036214	Znrd1as	1700022C21Rik|AI746295|Znrd1-as	zinc ribbon domain containing 1, antisense	protein-coding	176.0	296.5	147.5	2452.0	512.0	168.5	223.5	167.0
Merged-chr18-4799376-1	chr18	4799276	4799476	+	833.0	f0_balb.idr	Intergenic	MLTR14|LTR|ERV1	-13110.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	10.5	6.5	6.5	131.0	6.5	3.5	8.0	1.5
Merged-chr19-4098586-4	chr19	4098466	4098666	+	994.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026373, exon 4 of 4)	3' UTR (NM_026373, exon 4 of 4)	1215.0	NM_026373	52004.0	Mm.29609	NM_026373	ENSMUSG00000024856	Cdk2ap2	5830466O21Rik|D19Ertd144e|Doc-1r	CDK2-associated protein 2	protein-coding	22.0	13.5	21.5	243.5	33.0	8.5	9.5	14.0
Merged-chr15-68060445-2	chr15	68060348	68060548	+	685.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	198408.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	13.5	22.0	8.5	106.5	27.5	11.0	16.0	8.5
Merged-chr19-34562670-4	chr19	34562559	34562759	+	679.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355262, intron 1 of 2)	intron (NM_001355262, intron 1 of 2)	11571.0	NM_001355262	15958.0	Mm.2036	NM_008332	ENSMUSG00000045932	Ifit2	AV302338|Ifi54|P54	interferon-induced protein with tetratricopeptide repeats 2	protein-coding	8.0	12.0	9.0	145.0	31.0	11.0	8.0	10.5
Merged-chr9-118887335-3	chr9	118887228	118887428	+	891.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 12 of 13)	ORR1B2|LTR|ERVL-MaLR	-39208.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	6.5	15.0	13.5	91.0	13.0	18.0	11.5	7.5
Merged-chr1-51805305-4	chr1	51805214	51805414	+	849.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010863, intron 7 of 29)	intron (NM_010863, intron 7 of 29)	110664.0	NM_001161817	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	5.5	12.0	12.0	201.0	12.0	11.5	10.0	11.5
Merged-chr7-141070263-4	chr7	141070162	141070362	+	777.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177897, intron 14 of 19)	intron (NM_177897, intron 14 of 19)	-7967.0	NM_001162924	56460.0	Mm.350037	NM_019762	ENSMUSG00000054065	Pkp3	2310056L12Rik	plakophilin 3	protein-coding	5.5	15.5	6.5	107.0	17.5	7.0	8.0	12.5
Merged-chr1-160906849-1	chr1	160906749	160906949	+	1000.0	f0_c57.idr	intron (NM_001024952, intron 1 of 19)	CpG	438.0	NM_001024952	381305.0	Mm.329667	NM_001024952	ENSMUSG00000040423	Rc3h1	5730557L09Rik|Gm551|N28103|mKIAA2025	RING CCCH (C3H) domains 1	protein-coding	28.0	37.0	44.0	286.5	58.5	27.5	42.5	51.5
Merged-chr12-73584750-4	chr12	73584655	73584855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313977)	promoter-TSS (NM_001313977)	-41.0	NM_001313977	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	57.0	68.0	53.5	895.5	132.0	48.5	66.0	49.5
Merged-chr8-126591699-4	chr8	126591605	126591805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164598, exon 2 of 2)	exon (NM_001164598, exon 2 of 2)	1731.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	84.5	140.0	76.5	1222.5	191.0	72.5	110.0	76.0
Merged-chr15-97373378-4	chr15	97373317	97373517	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 4 of 5)	intron (NM_172293, intron 4 of 5)	-126130.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	5.5	10.5	7.0	129.0	43.5	16.5	12.0	14.0
Merged-chr13-40940256-1	chr13	40940156	40940356	+	738.0	f0_balb.idr	intron (NM_133219, intron 1 of 2)	intron (NM_133219, intron 1 of 2)	22622.0	NM_133219	14538.0	Mm.314757	NM_008105	ENSMUSG00000021360	Gcnt2	5330430K10Rik|IGnT|IGnTA|IGnTB|IGnTC	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme	protein-coding	5.5	10.0	8.5	158.5	2.5	0.0	1.0	5.0
Merged-chr17-56277595-3	chr17	56277532	56277732	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174989)	promoter-TSS (NM_174989)	-865.0	NM_174989	106759.0	Mm.203952	NM_174989	ENSMUSG00000047123	Ticam1	AW046014|AW547018|TICAM-1|TRIF	toll-like receptor adaptor molecule 1	protein-coding	14.0	13.0	3.0	147.0	16.5	11.5	6.0	6.0
Merged-chr4-102656731-4	chr4	102656623	102656823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66880.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	24.0	35.5	43.0	342.5	85.0	17.0	45.0	48.5
Merged-chr4-128728610-4	chr4	128728500	128728700	+	954.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	intron (NM_001195083, intron 1 of 6)	1029.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	17.0	14.5	6.5	187.5	71.5	17.0	36.0	23.0
Merged-chr17-8214140-1	chr17	8214040	8214240	+	593.0	f0_balb.idr	Intergenic	Intergenic	-21903.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	6.0	8.0	9.5	74.5	13.0	1.5	2.5	5.5
Merged-chr5-122422339-6	chr5	122422253	122422453	+	917.0972289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019805)	promoter-TSS (NM_019805)	-91.0	NM_019805	56317.0	Mm.37341	NM_019805	ENSMUSG00000029466	Anapc7	APC7|AW545589	anaphase promoting complex subunit 7	protein-coding	9.5	8.5	12.5	79.5	32.0	8.5	7.0	19.0
Merged-chr14-59185921-2	chr14	59185821	59186021	+	944.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-7172.0	NM_001004158	380907.0	Mm.81009	NM_001004158	ENSMUSG00000053868	Gm5142	EG380907	predicted gene 5142	protein-coding	7.0	8.0	1.5	54.0	14.0	6.5	8.0	10.5
Merged-chr14-66846606-4	chr14	66846514	66846714	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	21986.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	61.0	47.5	21.5	386.5	165.5	80.5	105.0	43.0
Merged-chr11-116616974-4	chr11	116616876	116617076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	7276.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	80.0	107.0	43.0	791.5	152.0	77.0	55.5	66.0
Merged-chr9-77688962-4	chr9	77688863	77689063	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52231.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	27.5	22.0	36.5	449.0	46.0	13.0	20.5	2.0
Merged-chr13-17982858-4	chr13	17982763	17982963	+	972.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10488.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	16.5	16.0	44.5	343.5	47.0	23.0	23.5	21.0
Merged-chr14-103481764-4	chr14	103481659	103481859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31582.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	79.5	107.0	116.5	1971.5	162.0	56.5	81.5	91.5
Merged-chr13-119790874-4	chr13	119790765	119790965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028245)	promoter-TSS (NM_028245)	-59.0	NM_001302549	72465.0	Mm.139115	NM_028245	ENSMUSG00000094870	Zfp131	2610109I01Rik|AW558871|Znf131	zinc finger protein 131	protein-coding	118.5	194.5	128.0	1943.0	429.5	141.0	257.0	179.5
Merged-chr2-36203593-3	chr2	36203487	36203687	+	639.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26839.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	2.0	5.0	7.0	89.0	11.5	10.5	7.5	8.0
Merged-chr7-80688914-7	chr7	80688815	80689015	+	942.828552	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173863)	promoter-TSS (NM_173863)	-38.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	12.0	22.5	6.5	113.5	31.0	14.0	22.5	18.0
Merged-chr19-12592102-4	chr19	12591984	12592184	+	982.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015503, intron 1 of 1)	intron (NR_015503, intron 1 of 1)	4482.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	17.5	32.5	23.5	201.5	26.5	13.5	21.0	22.0
Merged-chr10-41930077-3	chr10	41929957	41930157	+	956.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 12 of 17)	RSINE1|SINE|B4	42618.0	NM_001013370	140742.0	Mm.139418	NM_001013370	ENSMUSG00000038332	Sesn1	1110002G11Rik|AU044290|Pa26|Sest1	sestrin 1	protein-coding	6.0	12.0	17.0	172.5	6.5	4.5	2.5	9.5
Merged-chr3-84570632-3	chr3	84570542	84570742	+	729.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293801, intron 1 of 7)	intron (NM_001293801, intron 1 of 7)	11983.0	NM_001293801	99889.0	Mm.316536	NM_001081093	ENSMUSG00000074513	Arfip1	2310030I10Rik|Arfaptin|D3Ertd598e	ADP-ribosylation factor interacting protein 1	protein-coding	6.0	4.5	7.0	50.5	40.5	5.5	20.5	13.5
Merged-chr3-103738431-4	chr3	103738333	103738533	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133859)	promoter-TSS (NM_133859)	-432.0	NM_133859	99543.0	Mm.211535	NM_133859	ENSMUSG00000027848	Olfml3	2810002E22Rik|AI115209|AW550633|HNOEL-iso|ONT3|mONT3	olfactomedin-like 3	protein-coding	11.0	19.0	14.5	184.0	47.0	19.0	14.5	14.5
Merged-chr15-53399307-4	chr15	53399224	53399424	+	786.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-53141.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	5.5	6.5	6.5	161.5	14.0	3.0	9.0	5.5
Merged-chr2-112239721-4	chr2	112239628	112239828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207206)	promoter-TSS (NM_207206)	-113.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	43.5	62.5	57.5	498.0	92.0	46.5	53.0	57.0
Merged-chr4-148586812-3	chr4	148586707	148586907	+	993.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16C|LTR|ERVK	-4706.0	NM_009272	20810.0	Mm.10	NM_009272	ENSMUSG00000006442	Srm	AA407669|SpdST|SpdSy	spermidine synthase	protein-coding	17.0	27.0	31.5	321.0	6.5	5.0	4.0	6.5
Merged-chr8-34904285-4	chr8	34904200	34904400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175091, intron 3 of 26)	MER90a|LTR|ERV1	61390.0	NM_175091	21951.0	Mm.88364	NM_175091	ENSMUSG00000031529	Tnks	4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1	tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase	protein-coding	87.5	86.0	124.0	1864.0	171.0	62.5	102.5	74.5
Merged-chr5-120130365-3	chr5	120130272	120130472	+	759.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028762, intron 11 of 23)	ORR1D1|LTR|ERVL-MaLR	8891.0	NR_045793	100503427.0	Mm.446834	NR_045793	ENSMUSG00000097368	Gm10390	-	predicted gene 10390	ncRNA	13.0	10.5	3.0	62.5	17.5	4.5	5.0	7.5
Merged-chr15-4026119-2	chr15	4026019	4026219	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024188)	promoter-TSS (NM_024188)	-309.0	NM_024188	67041.0	Mm.13445	NM_024188	ENSMUSG00000022186	Oxct1	2610008O03Rik|Oxct|Oxct2a|Scot-s	3-oxoacid CoA transferase 1	protein-coding	9.0	22.0	3.5	196.0	18.0	4.5	8.0	11.0
Merged-chr9-94512461-4	chr9	94512377	94512577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25604.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	51.0	95.5	54.0	1065.5	237.0	88.0	87.5	49.5
Merged-chr11-75255533-4	chr11	75255435	75255635	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177708, intron 1 of 1)	intron (NM_177708, intron 1 of 1)	61542.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	30.0	56.0	15.0	183.5	79.5	20.5	37.5	18.5
Merged-chr4-148644091-5	chr4	148644047	148644247	+	904.0300289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085505, intron 1 of 10)	intron (NM_001085505, intron 1 of 10)	830.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	11.5	10.0	8.5	37.0	5.5	3.0	4.0	9.5
Merged-chr9-53700638-4	chr9	53700534	53700734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	intron (NM_175562, intron 1 of 1)	5598.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	53.5	91.5	32.0	878.5	128.5	51.5	84.0	45.0
Merged-chr12-102440318-3	chr12	102440222	102440422	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011175)	promoter-TSS (NM_011175)	-509.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	49.5	43.0	49.0	913.5	88.0	42.0	50.0	60.0
Merged-chr11-106480725-4	chr11	106480624	106480824	+	906.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 1 of 21)	intron (NM_023913, intron 1 of 21)	7072.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	16.0	29.0	20.5	251.5	30.0	16.5	14.0	8.5
Merged-chr17-51785101-4	chr17	51784990	51785190	+	957.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357637, intron 6 of 10)	intron (NM_001357637, intron 6 of 10)	26964.0	NM_001163630	20230.0	Mm.311655	NM_009122	ENSMUSG00000023927	Satb1	2610306G12Rik|AW413156	special AT-rich sequence binding protein 1	protein-coding	11.0	24.0	10.0	336.0	46.5	13.0	16.5	9.5
Merged-chr16-59583753-4	chr16	59583649	59583849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-27997.0	NM_174848	224273.0	Mm.246424	NM_174848	ENSMUSG00000022723	Crybg3	5031404N19|AU022790|Gm9581	beta-gamma crystallin domain containing 3	protein-coding	37.0	43.5	60.0	727.0	106.0	25.0	39.5	50.0
Merged-chr11-114694172-4	chr11	114694032	114694232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 3 of 13)	intron (NM_053273, intron 3 of 13)	18664.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	65.0	70.5	27.5	683.5	150.5	32.0	55.0	52.0
Merged-chr4-127045656-4	chr4	127045568	127045768	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15486.0	NM_026670	68310.0	Mm.273806	NM_026670	ENSMUSG00000043872	Zmym1	5830412B09Rik|AW209050	zinc finger, MYM domain containing 1	protein-coding	40.5	50.5	71.0	769.5	138.5	52.0	56.5	56.0
Merged-chr2-112448276-4	chr2	112448173	112448373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-6752.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	57.0	51.5	48.5	643.5	101.0	37.0	62.0	33.0
Merged-chr6-38433782-4	chr6	38433695	38433895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177185)	promoter-TSS (NM_177185)	-130.0	NM_177185	320538.0	Mm.302831	NM_177185	ENSMUSG00000038538	Ubn2	2900060J04Rik|6030408G03Rik|BC060116|D130059P03Rik|mKIAA2030	ubinuclein 2	protein-coding	226.5	369.0	209.5	3439.5	576.0	225.0	216.5	209.0
Merged-chr1-131287056-4	chr1	131286963	131287163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081011, exon 23 of 23)	3' UTR (NM_001081011, exon 23 of 23)	-7500.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	33.0	127.0	39.5	413.0	62.0	45.0	49.5	40.5
Merged-chr4-141874349-4	chr4	141874250	141874450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	570.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	25.5	67.5	43.0	238.0	192.5	61.0	46.5	66.5
Merged-chr4-132382515-4	chr4	132382407	132382607	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161797, intron 3 of 12)	intron (NM_001161797, intron 3 of 12)	-28821.0	NR_003270	399101.0	Mm.486919	NR_002904	ENSMUSG00000085241	Snhg3	Rnu17d|U17HG	small nucleolar RNA host gene 3	ncRNA	36.5	34.5	33.5	465.0	75.5	21.5	15.0	17.5
Merged-chr9-95853101-4	chr9	95853002	95853202	+	882.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4415.0	NR_073361	73410.0	Mm.443314	NM_028533	ENSMUSG00000096655	1700065D16Rik	-	RIKEN cDNA 1700065D16 gene	protein-coding	11.0	19.5	7.5	127.0	35.5	10.5	11.0	16.0
Merged-chr9-95640169-4	chr9	95640154	95640354	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 2 of 8)	intron (NM_029620, intron 2 of 8)	2626.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	15.0	15.5	16.5	101.5	22.0	20.5	13.5	23.0
Merged-chr11-65794999-3	chr11	65794897	65795097	+	771.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-6638.0	NM_001316367	26398.0	Mm.412922	NM_009157	ENSMUSG00000033352	Map2k4	JNKK1|MEK4|MKK4|PRKMK4|Sek1|Serk1	mitogen-activated protein kinase kinase 4	protein-coding	8.0	5.0	4.5	86.0	25.5	5.0	3.5	4.5
Merged-chr3-69171334-4	chr3	69171203	69171403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40070.0	NR_126533	381452.0	Mm.331067	NM_001243000	ENSMUSG00000094763	Gm1647	-	predicted gene 1647	ncRNA	9.5	27.5	23.0	310.5	40.5	19.0	16.0	19.0
Merged-chr17-46283036-4	chr17	46282922	46283122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252473)	promoter-TSS (NM_001252473)	4.0	NM_001252475	74094.0	Mm.284594	NM_028751	ENSMUSG00000012296	Tjap1	0610041D19Rik|AI415281|AW121008|Pilt|Tjp4	tight junction associated protein 1	protein-coding	68.0	128.5	52.0	498.0	171.0	64.5	79.5	49.5
Merged-chr3-126629714-2	chr3	126629614	126629814	+	766.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	32763.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	2.5	5.0	9.0	44.5	33.0	4.5	6.5	11.5
Merged-chr6-128764273-4	chr6	128764168	128764368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24373.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	156.0	251.5	141.0	2228.0	465.0	186.0	170.0	261.0
Merged-chr6-72165893-3	chr6	72165797	72165997	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-42700.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	10.0	4.0	7.0	141.0	21.0	6.5	8.0	14.5
Merged-chr2-61712782-3	chr2	61712669	61712869	+	786.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021526, intron 1 of 11)	ORR1B2|LTR|ERVL-MaLR	1075.0	NM_021526	59029.0	Mm.218198	NM_021526	ENSMUSG00000026914	Psmd14	2610312C03Rik|3200001M20Rik|AA986732|Pad1|Poh1|rpm11	proteasome (prosome, macropain) 26S subunit, non-ATPase, 14	protein-coding	8.0	9.0	11.5	63.0	26.0	4.0	7.0	8.5
Merged-chr2-30077615-4	chr2	30077512	30077712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1086.0	NM_153805	263803.0	Mm.233843	NM_153805	ENSMUSG00000026785	Pkn3	AW209115|BC034126	protein kinase N3	protein-coding	37.0	60.0	42.0	424.0	95.5	45.0	33.5	43.5
Merged-chr1-149892487-3	chr1	149892395	149892595	+	776.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 5 of 17)	intron (NM_008869, intron 5 of 17)	29944.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	6.5	7.0	5.0	118.5	7.5	5.0	4.0	8.0
Merged-chr12-100849573-4	chr12	100849450	100849650	+	815.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145448, intron 7 of 12)	intron (NM_145448, intron 7 of 12)	49974.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	16.0	9.5	4.0	137.0	14.0	9.0	8.0	18.0
Merged-chr3-8767707-4	chr3	8767635	8767835	+	855.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-100697.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	13.5	14.0	16.0	117.5	24.5	10.0	7.0	14.5
Merged-chr2-129490085-4	chr2	129489970	129490170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177653, intron 1 of 6)	intron (NM_177653, intron 1 of 6)	46532.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	71.0	136.0	63.0	649.0	219.0	83.5	50.5	63.0
Merged-chr13-20398581-3	chr13	20398487	20398687	+	972.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 15 of 21)	intron (NM_080288, intron 15 of 21)	-74403.0	NM_198093	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	15.0	23.0	18.5	170.5	15.5	4.5	9.5	6.0
Merged-chr3-79864974-4	chr3	79864873	79865073	+	968.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20957.0	NM_133187	68659.0	Mm.427274	NM_133187	ENSMUSG00000027955	Fam198b	1110032E23Rik|2210419I08Rik|AV011458|Ened	family with sequence similarity 198, member B	protein-coding	10.5	8.0	11.0	269.5	74.0	19.5	53.5	38.5
Merged-chr11-83649532-4	chr11	83649430	83649630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011337)	promoter-TSS (NM_011337)	-152.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	108.5	237.5	130.0	2039.0	295.0	131.5	143.0	142.0
Merged-chr18-36287612-4	chr18	36287502	36287702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008989, exon 2 of 2)	exon (NM_008989, exon 2 of 2)	6440.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	33.5	51.0	23.0	460.5	73.0	26.5	27.5	59.0
Merged-chr2-27691187-7	chr2	27691045	27691245	+	949.9904789999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	13944.0	NM_011305	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	19.0	14.0	14.5	159.5	37.0	20.0	9.0	17.0
Merged-chr3-146946090-4	chr3	146945994	146946194	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302957, intron 18 of 21)	intron (NM_001302957, intron 18 of 21)	93727.0	NM_001302957	70892.0	Mm.187793	NM_027594	ENSMUSG00000036745	Ttll7	1110049N09Rik|4921517B04Rik|C630030B20|mTTLL7	tubulin tyrosine ligase-like family, member 7	protein-coding	5.5	19.0	19.5	247.0	25.0	12.0	6.0	20.5
Merged-chr8-91425592-4	chr8	91425491	91425691	+	870.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011936, intron 3 of 8)	MTD|LTR|ERVL-MaLR	112066.0	NM_011936	26383.0	Mm.4375	NM_011936	ENSMUSG00000055932	Fto	AW743446|mKIAA1752	fat mass and obesity associated	protein-coding	11.0	24.5	16.0	308.5	51.0	9.0	19.5	16.5
Merged-chr17-5626511-4	chr17	5626410	5626610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	133910.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	91.0	90.0	147.5	2217.5	268.5	113.0	120.5	134.5
Merged-chr9-118662696-4	chr9	118662605	118662805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 7 of 27)	intron (NM_133721, intron 7 of 27)	-48987.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	294.5	467.5	336.0	4785.0	586.0	252.5	347.5	282.0
Merged-chr2-118490359-4	chr2	118490252	118490452	+	892.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10656.0	NM_009273	20813.0	Mm.363404	NM_009273	ENSMUSG00000009549	Srp14	14kDa|AW536328	signal recognition particle 14	protein-coding	12.0	25.0	7.0	175.5	39.5	26.5	14.0	18.5
Merged-chr2-152951633-3	chr2	152951509	152951709	+	829.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145744)	promoter-TSS (NM_145744)	-27.0	NM_001159376	252864.0	Mm.330671	NM_145744	ENSMUSG00000042662	Dusp15	AI851682|LMW-DSP10|T-DSP10	dual specificity phosphatase-like 15	protein-coding	6.0	17.5	4.0	105.5	17.5	7.5	6.0	8.0
Merged-chr5-117114807-1	chr5	117114707	117114907	+	1000.0	f1_c57bl6.idr	intron (NM_001122666, intron 1 of 12)	intron (NM_001122666, intron 1 of 12)	1186.0	NM_001122666	71954.0	Mm.34456	NM_178622	ENSMUSG00000066900	Suds3	2400003N08Rik|2410008L21Rik|AU067672|mSds3	suppressor of defective silencing 3 homolog (S. cerevisiae)	protein-coding	4.5	4.5	6.0	60.0	18.0	6.0	7.0	4.0
Merged-chr15-59648499-4	chr15	59648368	59648568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144549)	promoter-TSS (NM_144549)	-186.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	215.0	267.0	210.5	2496.0	460.0	209.0	197.5	177.5
Merged-chr19-40663921-4	chr19	40663802	40664002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	4132.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	55.0	89.0	49.0	538.5	122.5	37.0	54.0	35.5
Merged-chr2-119799573-6	chr2	119799514	119799714	+	847.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019392)	promoter-TSS (NM_019392)	100.0	NM_019392	22174.0	Mm.2901	NM_019392	ENSMUSG00000027298	Tyro3	AI323366|Brt|Dtk|Etk-2|Rse|Sky|TK19-2|Tif|etk2/tyro3|tk19-1	TYRO3 protein tyrosine kinase 3	protein-coding	4.0	9.0	7.0	43.0	14.5	6.5	4.5	12.5
Merged-chr11-97436104-4	chr11	97436052	97436252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14008.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	45.5	64.0	52.5	711.0	80.5	48.0	28.0	25.0
Merged-chr3-14578663-4	chr3	14578581	14578781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007892)	promoter-TSS (NM_007892)	10.0	NM_007892	13559.0	Mm.153415	NM_007892	ENSMUSG00000027552	E2f5	AU024671|E2F-5	E2F transcription factor 5	protein-coding	185.5	310.0	386.0	3394.5	447.0	209.0	225.5	182.0
Merged-chr12-85424051-4	chr12	85423944	85424144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49327.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	43.0	94.0	16.5	319.0	163.5	47.0	43.0	45.0
Merged-chr1-170589822-4	chr1	170589734	170589934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109985)	promoter-TSS (NM_001109985)	15.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	36.0	64.5	38.0	480.5	60.0	40.5	46.5	21.0
Merged-chr19-10842454-4	chr19	10842349	10842549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023044)	promoter-TSS (NM_023044)	-95.0	NM_023044	65221.0	Mm.27387	NM_023044	ENSMUSG00000024737	Slc15a3	Ci1|cI-1	solute carrier family 15, member 3	protein-coding	222.5	346.5	208.0	2209.0	497.5	191.5	198.0	193.0
Merged-chr15-38650545-4	chr15	38650443	38650643	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11361.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	15.5	22.5	24.0	472.5	32.0	20.0	13.5	17.5
Merged-chr6-38381443-4	chr6	38381323	38381523	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153600)	promoter-TSS (NM_153600)	-101.0	NM_153600	264134.0	Mm.253446	NM_153600	ENSMUSG00000056832	Ttc26	9330141E21Rik|9430097H08Rik|Ift56|hop|hpy	tetratricopeptide repeat domain 26	protein-coding	15.0	15.0	21.5	272.5	30.0	15.0	18.0	10.0
Merged-chr4-44013086-4	chr4	44013001	44013201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080384, intron 2 of 5)	CpG	451.0	NM_001290470	12757.0	Mm.298875	NM_016760	ENSMUSG00000028478	Clta	AV026556|Lca	clathrin, light polypeptide (Lca)	protein-coding	56.0	49.0	32.5	574.5	85.0	43.5	39.5	50.5
Merged-chr14-14971251-4	chr14	14971159	14971359	+	979.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195229, intron 29 of 34)	intron (NM_001195229, intron 29 of 34)	150444.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	53.5	88.5	67.5	925.0	46.0	15.5	24.0	13.5
Merged-chr7-126554201-4	chr7	126554108	126554308	+	956.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146200, intron 15 of 20)	RSINE1|SINE|B4	12158.0	NM_146200	56347.0	Mm.22776	NM_146200	ENSMUSG00000030738	Eif3c	110kDa|3230401O13Rik|Eif3s8|NIPIL(A3)|NipilA3|Xs|Xsl	eukaryotic translation initiation factor 3, subunit C	protein-coding	27.5	37.5	14.0	325.5	29.0	10.0	24.5	31.5
Merged-chr8-119778486-4	chr8	119778362	119778562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028883)	promoter-TSS (NM_028883)	-46.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	223.5	249.0	190.5	3320.5	439.5	185.0	215.0	170.0
Merged-chr3-95154094-3	chr3	95154032	95154232	+	774.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-6288.0	NR_073550	20360.0	Mm.23662	NM_011351	ENSMUSG00000038777	Sema6c	Semay|mKIAA1869	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C	protein-coding	10.5	12.0	2.0	126.0	15.5	5.0	12.0	4.5
Merged-chr17-78200172-4	chr17	78200006	78200206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015800)	promoter-TSS (NM_015800)	-142.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	78.5	96.5	85.5	1365.0	178.5	85.0	100.0	87.0
Merged-chr6-137649299-4	chr6	137649202	137649402	+	866.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271588)	promoter-TSS (NM_001271588)	-17.0	NM_007945	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	13.5	19.0	9.5	225.0	16.5	6.5	16.0	13.0
Merged-chr10-61474484-4	chr10	61474387	61474587	+	790.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-1346.0	NM_153542	216011.0	Mm.136116	NM_153542	ENSMUSG00000037151	Lrrc20	BC036304	leucine rich repeat containing 20	protein-coding	8.0	18.0	6.5	78.5	30.0	8.0	8.5	20.5
Merged-chr11-111327086-4	chr11	111326998	111327198	+	711.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	260934.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	7.0	6.0	9.5	115.5	13.0	8.0	11.5	10.5
Merged-chr9-96669988-4	chr9	96669884	96670084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38481.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	94.0	150.0	89.5	1191.5	182.5	70.5	89.0	69.0
Merged-chr13-74245682-4	chr13	74245579	74245779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317351, intron 3 of 9)	intron (NM_001317351, intron 3 of 9)	-36979.0	NM_177333	211446.0	Mm.261859	NM_177333	ENSMUSG00000034152	Exoc3	2810050O03Rik|E430013E20Rik|Sec6|Sec6l1	exocyst complex component 3	protein-coding	123.0	89.0	90.0	2064.5	288.0	93.5	150.0	102.5
Merged-chr7-102223791-6	chr7	102223665	102223865	+	739.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111938, intron 2 of 4)	PB1D10|SINE|Alu	737.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	2.0	6.5	1.0	54.0	9.0	14.5	4.5	7.0
Merged-chr1-151820722-3	chr1	151820638	151820838	+	883.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001311166, exon 20 of 20)	3' UTR (NM_001311166, exon 20 of 20)	65364.0	NM_001311166	66967.0	Mm.337691	NM_001039644	ENSMUSG00000043019	Edem3	2310050N11Rik	ER degradation enhancer, mannosidase alpha-like 3	protein-coding	7.0	10.5	6.5	100.0	16.0	3.0	4.5	5.0
Merged-chr19-46708082-3	chr19	46707986	46708186	+	650.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020577, exon 3 of 11)	exon (NM_020577, exon 3 of 11)	643.0	NM_020577	57344.0	Mm.28566	NM_020577	ENSMUSG00000003559	As3mt	2310045H08Rik|Cyt19	arsenic (+3 oxidation state) methyltransferase	protein-coding	6.5	10.5	15.5	78.0	9.5	13.0	3.0	5.0
Merged-chr12-70110931-3	chr12	70110890	70111090	+	958.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286079, intron 1 of 28)	intron (NM_001286079, intron 1 of 28)	639.0	NR_104398	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	4.5	14.5	6.0	75.5	6.0	4.5	4.0	18.0
Merged-chr15-60854384-4	chr15	60854286	60854486	+	938.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29306.0	NM_001162926	399603.0	Mm.411968	NM_207269	ENSMUSG00000072568	Fam84b	BF642811|D330050I23Rik	family with sequence similarity 84, member B	protein-coding	19.5	21.0	29.0	449.5	51.0	10.0	17.5	19.5
Merged-chr5-43808185-4	chr5	43808075	43808275	+	989.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10718.0	NM_009763	12182.0	Mm.246332	NM_009763	ENSMUSG00000029082	Bst1	114/A10|A530073F09|BP-3|Bp3|Bsta1|CD157|Ly65	bone marrow stromal cell antigen 1	protein-coding	14.5	40.0	21.5	512.0	65.0	22.0	47.5	28.5
Merged-chr5-124900021-4	chr5	124899924	124900124	+	876.479126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37319.0	NM_001081750	269704.0	Mm.138617	NM_001081750	ENSMUSG00000079215	Zfp664	AW060232|D930038J03Rik|ZFOC1|Znf664	zinc finger protein 664	protein-coding	16.0	17.0	9.5	113.0	24.0	18.0	8.0	14.0
Merged-chr14-75164549-4	chr14	75164472	75164672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	28147.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	72.5	113.5	57.0	1002.0	198.0	75.0	91.0	63.0
Merged-chr7-43579530-4	chr7	43579390	43579590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172482)	promoter-TSS (NM_172482)	-96.0	NM_172482	210105.0	Mm.234422	NM_172482	ENSMUSG00000030469	Zfp719	8030458J18|9430094P17Rik|C630016O21Rik|mszf6	zinc finger protein 719	protein-coding	154.0	294.5	153.5	2329.0	488.5	170.5	186.0	179.5
Merged-chr10-34283958-2	chr10	34283856	34284056	+	712.166626	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009433, exon 1 of 1)	3' UTR (NM_009433, exon 1 of 1)	1766.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	4.5	10.0	6.0	42.5	7.0	6.0	3.0	9.0
Merged-chr11-68063409-3	chr11	68063294	68063494	+	735.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018768, intron 6 of 7)	intron (NM_018768, intron 6 of 7)	96936.0	NM_018768	55943.0	Mm.3973	NM_018768	ENSMUSG00000020903	Stx8	0610007H08Rik|1110002H11Rik|4930571E13Rik|CARB	syntaxin 8	protein-coding	4.5	10.5	7.0	199.5	11.5	0.5	5.5	5.0
Merged-chr16-81200654-6	chr16	81200484	81200684	+	941.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010954)	promoter-TSS (NM_010954)	-113.0	NM_001113208	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	11.5	10.0	17.0	206.0	37.5	17.0	23.0	16.5
Merged-chr16-43889762-4	chr16	43889684	43889884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356328)	promoter-TSS (NM_001356328)	-108.0	NM_001356328	106248.0	Mm.275354	NM_029128	ENSMUSG00000022704	Qtrt2	3110012M05Rik|4930470H18Rik|AI648807|Qrtr2|Qtrtd1	queuine tRNA-ribosyltransferase accessory subunit 2	protein-coding	249.0	414.0	282.5	4564.0	596.0	216.5	280.5	260.0
Merged-chr13-17977041-4	chr13	17976938	17977138	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16313.0	NM_025904	67008.0	Mm.252918	NM_025904	ENSMUSG00000075054	Yae1d1	1600012F09Rik	Yae1 domain containing 1	protein-coding	36.0	38.5	25.5	436.5	63.0	9.0	24.0	39.5
Merged-chr17-88581726-4	chr17	88581648	88581848	+	933.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 19 of 21)	intron (NM_028658, intron 19 of 21)	-44807.0	NM_029858	77057.0	Mm.482203	NM_029858	ENSMUSG00000033855	Ston1	4921524J06Rik|C86231|Salf|Sblf	stonin 1	protein-coding	18.0	10.5	9.0	137.0	29.5	10.5	5.5	11.5
Merged-chr13-24776407-4	chr13	24776294	24776494	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-14457.0	NM_020567	57441.0	Mm.12239	NM_020567	ENSMUSG00000006715	Gmnn	AW546347|Gem	geminin	protein-coding	16.5	31.5	13.0	200.0	55.5	36.5	21.0	36.5
Merged-chr17-66514541-4	chr17	66514412	66514612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024448, intron 1 of 5)	intron (NM_024448, intron 1 of 5)	5158.0	NM_024448	19328.0	Mm.248313	NM_024448	ENSMUSG00000023460	Rab12	2900054P15Rik|AW555448|C77700	RAB12, member RAS oncogene family	protein-coding	25.5	46.0	13.0	262.0	65.0	23.0	29.5	25.0
Merged-chr5-143472205-4	chr5	143472079	143472279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 2 of 14)	intron (NM_144915, intron 2 of 14)	7686.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	36.0	29.0	22.0	464.0	56.0	27.0	18.0	27.0
Merged-chr1-97676358-4	chr1	97676265	97676465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-14347.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	46.0	51.0	43.5	922.0	138.5	58.0	47.0	38.5
Merged-chr2-157078182-1	chr2	157078082	157078282	+	1000.0	f0_c57.idr	intron (NM_001164663, intron 1 of 14)	intron (NM_001164663, intron 1 of 14)	1083.0	NM_001164663	320706.0	Mm.79466	NM_001164663	ENSMUSG00000055485	Soga1	9830001H06Rik|AI426038|D430036N24Rik|Soga	suppressor of glucose, autophagy associated 1	protein-coding	7.0	6.5	5.0	48.0	28.5	4.5	2.0	11.0
Merged-chr3-107330806-3	chr3	107330668	107330868	+	739.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001045807, exon 1 of 2)	exon (NM_001045807, exon 1 of 2)	2521.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	5.5	11.5	5.0	82.5	20.5	2.5	4.0	5.0
Merged-chr5-104509638-4	chr5	104509529	104509729	+	742.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166581, intron 1 of 1)	URR1B|DNA|hAT-Charlie	1277.0	NM_001166581	100042165.0	Mm.482189	NM_001166581	ENSMUSG00000079065	BC005561	-	cDNA sequence BC005561	protein-coding	7.0	13.0	8.0	108.5	40.5	11.0	20.5	17.0
Merged-chr2-11113446-3	chr2	11113341	11113541	+	730.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58941.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	6.0	4.5	8.5	89.5	13.5	3.5	6.0	8.0
Merged-chr12-36029500-4	chr12	36029439	36029639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025359, intron 1 of 5)	intron (NM_025359, intron 1 of 5)	12939.0	NM_025359	66109.0	Mm.254663	NM_025359	ENSMUSG00000020577	Tspan13	1100001I23Rik|NET-6|Tm4sf13	tetraspanin 13	protein-coding	49.5	89.5	38.0	903.0	107.5	18.5	39.0	44.0
Merged-chr11-70848645-4	chr11	70848525	70848725	+	863.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291143, intron 2 of 18)	B1_Mus2|SINE|Alu	3864.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	8.5	18.5	8.5	74.5	24.0	14.0	8.5	15.0
Merged-chr7-44985677-4	chr7	44985585	44985785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045521, intron 1 of 11)	intron (NR_045521, intron 1 of 11)	735.0	NM_001252476	15469.0	Mm.27545	NM_019830	ENSMUSG00000109324	Prmt1	6720434D09Rik|AW214366|Hrmt1l2|Mrmt1	protein arginine N-methyltransferase 1	protein-coding	29.5	62.0	38.5	290.5	93.0	25.0	36.5	32.5
Merged-chr17-21566399-4	chr17	21566294	21566494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357347)	promoter-TSS (NM_001357347)	-584.0	NM_001002008	381066.0	Mm.441097	NM_001002008	ENSMUSG00000067931	Zfp948	-	zinc finger protein 948	protein-coding	35.0	63.5	37.0	600.0	307.0	107.5	93.0	92.0
Merged-chr3-8929962-4	chr3	8929856	8930056	+	916.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001025261, exon 8 of 8)	3' UTR (NM_001025261, exon 8 of 8)	-6099.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	17.0	23.5	26.5	221.0	29.5	8.5	14.5	14.5
Merged-chr6-50223213-3	chr6	50223100	50223300	+	686.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018769, intron 5 of 9)	ORR1E|LTR|ERVL-MaLR	38569.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	8.5	8.0	10.0	93.0	9.5	1.5	10.5	7.5
Merged-chr1-161728784-4	chr1	161728681	161728881	+	917.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59714.0	NM_001205243	14103.0	Mm.3355	NM_010177	ENSMUSG00000000817	Fasl	APT1LG1|CD178|CD95-L|CD95L|Fas-L|Faslg|Tnfsf6|Tnlg1a|gld	Fas ligand (TNF superfamily, member 6)	protein-coding	11.5	9.0	13.5	123.5	71.5	9.5	29.0	16.0
Merged-chr12-3236459-3	chr12	3236352	3236552	+	850.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015551, intron 1 of 6)	intron (NR_015551, intron 1 of 6)	661.0	NR_015551	74173.0	Mm.309774	NM_028796	ENSMUSG00000079179	Rab10os	1700012B15Rik|1810036A22Rik	RAB10, member RAS oncogene family, opposite strand	ncRNA	6.0	16.5	3.0	63.5	35.0	5.0	11.0	9.0
Merged-chr10-6753581-4	chr10	6753473	6753673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RCHARR1|DNA|hAT-Charlie	-5020.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	21.5	42.0	25.5	539.5	53.0	11.5	17.0	11.5
Merged-chr16-91852964-4	chr16	91852866	91853066	+	957.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 21 of 28)	L2b|LINE|L2	78664.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	15.5	23.5	21.5	477.0	24.0	15.0	20.0	16.0
Merged-chr9-3258860-4	chr9	3258760	3258960	+	929.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-59047.0	NR_027988	114673.0	Mm.422774	NM_053265	ENSMUSG00000042360	4930433N12Rik	-	RIKEN cDNA 4930433N12 gene	ncRNA	23.5	48.0	27.5	256.0	43.5	21.0	36.5	69.0
Merged-chr7-64285767-4	chr7	64285665	64285865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1905.0	NM_172742	233315.0	Mm.214959	NM_172742	ENSMUSG00000030522	Mtmr10	BB128963|C79734	myotubularin related protein 10	protein-coding	40.5	51.5	30.0	760.5	117.5	34.5	29.0	28.0
Merged-chr11-73193306-4	chr11	73193216	73193416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357891, intron 3 of 11)	intron (NM_001357891, intron 3 of 11)	5703.0	NM_031251	83429.0	Mm.259852	NM_031251	ENSMUSG00000005949	Ctns	AI195360|AW049661	cystinosis, nephropathic	protein-coding	42.0	79.5	48.0	982.5	118.5	26.0	63.5	33.0
Merged-chr16-94590478-4	chr16	94590375	94590575	+	964.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	19568.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	17.0	30.5	20.0	411.0	31.5	11.5	16.0	23.0
Merged-chr8-46628868-4	chr8	46628762	46628962	+	876.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284409, intron 1 of 6)	intron (NM_001284409, intron 1 of 6)	11571.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	23.5	24.5	15.5	318.0	25.5	13.5	8.5	15.5
Merged-chr18-12644379-4	chr18	12644275	12644475	+	839.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028341, intron 1 of 13)	CpG	842.0	NM_028341	72747.0	Mm.52526	NM_028341	ENSMUSG00000024424	Ttc39c	1700008N02Rik|2810439F02Rik	tetratricopeptide repeat domain 39C	protein-coding	4.0	10.5	10.5	96.0	25.5	5.0	5.5	14.0
Merged-chr4-134653072-4	chr4	134652957	134653157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207237, intron 1 of 11)	L2b|LINE|L2	51233.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	37.0	44.0	32.5	609.0	60.0	17.5	30.0	42.5
Merged-chr3-107102058-4	chr3	107102062	107102262	+	943.435425	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008417, intron 1 of 2)	CpG	595.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	7.5	5.0	16.0	108.0	27.5	13.0	8.5	8.0
Merged-chr2-101762640-4	chr2	101762547	101762747	+	775.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 3 of 8)	intron (NM_001355625, intron 3 of 8)	35060.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	10.0	20.5	10.0	181.0	24.0	7.5	6.5	8.5
Merged-chr18-34887536-4	chr18	34887436	34887636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	26329.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	173.5	324.0	141.0	2212.5	475.5	160.0	244.5	159.0
Merged-chr5-65107966-3	chr5	65107876	65108076	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347355, intron 1 of 10)	CpG	408.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	9.5	20.5	28.0	173.5	50.0	19.5	8.5	24.0
Merged-chr3-116845027-4	chr3	116844921	116845121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14546.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	60.0	72.0	47.5	556.5	111.5	50.0	45.5	53.0
Merged-chr1-74715717-4	chr1	74715620	74715820	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024264, intron 1 of 8)	intron (NM_024264, intron 1 of 8)	2185.0	NM_024264	104086.0	Mm.85083	NM_024264	ENSMUSG00000026170	Cyp27a1	1300013A03Rik|Cyp27	cytochrome P450, family 27, subfamily a, polypeptide 1	protein-coding	29.0	34.0	17.5	586.0	66.0	16.5	30.5	28.5
Merged-chr3-152800239-3	chr3	152800144	152800344	+	969.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86144.0	NM_025662	329777.0	Mm.331447	NM_025662	ENSMUSG00000039047	Pigk	3000001O05Rik|Gm38470|PIG-K	phosphatidylinositol glycan anchor biosynthesis, class K	protein-coding	13.0	25.0	14.0	304.0	18.5	0.5	11.5	8.0
Merged-chr10-40244721-4	chr10	40244621	40244821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023323, intron 1 of 9)	intron (NM_023323, intron 1 of 9)	2258.0	NM_001042556	67239.0	Mm.11480	NM_023323	ENSMUSG00000038510	Rpf2	2810470K21Rik|AU040229|AU043242|Bxdc1	ribosome production factor 2 homolog	protein-coding	47.0	45.5	30.0	719.0	102.5	28.0	26.5	42.0
Merged-chr4-133674189-4	chr4	133674075	133674275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1009.0	NM_001356466	230801.0	Mm.217004	NM_178698	ENSMUSG00000043257	Pigv	B330013B03|D430024F16Rik	phosphatidylinositol glycan anchor biosynthesis, class V	protein-coding	41.5	62.0	30.0	384.0	81.0	35.5	31.0	38.0
Merged-chr16-93607869-4	chr16	93607785	93607985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007620)	promoter-TSS (NM_007620)	48.0	NM_007620	12408.0	Mm.26940	NM_007620	ENSMUSG00000051483	Cbr1	AW261796|CR|Cbr	carbonyl reductase 1	protein-coding	31.0	65.0	40.0	594.5	90.5	23.5	36.0	27.0
Merged-chr5-8056537-4	chr5	8056460	8056660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080974)	promoter-TSS (NM_001080974)	18.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	81.0	94.0	73.5	1180.0	119.0	56.0	91.5	68.5
Merged-chr14-70159521-4	chr14	70159408	70159608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004155)	promoter-TSS (NM_001004155)	-6.0	NM_001004155	268759.0	Mm.12148	NM_001004155	ENSMUSG00000044551	9930012K11Rik	-	RIKEN cDNA 9930012K11 gene	protein-coding	31.0	37.5	24.0	467.5	93.0	41.0	33.5	26.5
Merged-chr11-84880699-4	chr11	84880606	84880806	+	984.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077636)	promoter-TSS (NM_001077636)	-421.0	NM_001077636	70325.0	Mm.390414	NM_027388	ENSMUSG00000045140	Pigw	2610044A17Rik|Gwt1	phosphatidylinositol glycan anchor biosynthesis, class W	protein-coding	26.5	52.0	17.0	273.0	48.0	21.0	10.5	28.5
Merged-chr15-58822526-1	chr15	58822426	58822626	+	679.5	f0_balb.idr	intron (NM_175212, intron 1 of 6)	intron (NM_175212, intron 1 of 6)	901.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	6.0	13.0	7.5	90.0	9.5	7.0	2.0	8.0
Merged-chr11-121421339-4	chr11	121421252	121421452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181420)	promoter-TSS (NM_181420)	-21.0	NM_181420	238024.0	Mm.117394	NM_181420	ENSMUSG00000039253	Fn3krp	FN3K-RP	fructosamine 3 kinase related protein	protein-coding	127.0	212.0	92.5	1480.0	245.5	89.0	136.0	93.5
Merged-chr11-97229673-3	chr11	97229579	97229779	+	853.666626	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008942, intron 14 of 22)	A-rich|Low_complexity|Low_complexity	-41787.0	NM_008379	16211.0	Mm.251013	NM_008379	ENSMUSG00000001440	Kpnb1	AA409963|IPOB|Impnb	karyopherin (importin) beta 1	protein-coding	3.0	0.0	0.0	6.5	51.0	13.0	7.5	12.5
Merged-chr18-57957751-3	chr18	57957606	57957806	+	680.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79028.0	NM_009194	20496.0	Mm.399997	NM_009194	ENSMUSG00000024597	Slc12a2	9330166H04Rik|Nkcc1|mBSC2|sy-ns	solute carrier family 12, member 2	protein-coding	4.5	4.0	2.0	73.0	10.0	6.5	7.5	5.0
Merged-chr6-87537046-4	chr6	87536916	87537116	+	964.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3757.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	14.5	15.5	13.0	205.0	29.0	12.5	14.0	14.5
Merged-chr7-110710761-4	chr7	110710648	110710848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-57458.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	88.5	144.0	90.0	1232.5	295.5	101.5	121.5	123.5
Merged-chr15-34453197-3	chr15	34453105	34453305	+	798.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173421)	promoter-TSS (NM_173421)	-107.0	NM_173421	239368.0	Mm.211977	NM_173421	ENSMUSG00000044726	Erich5	-	glutamate rich 5	protein-coding	15.0	7.0	5.5	140.5	8.5	2.0	3.0	7.5
Merged-chr6-22122207-3	chr6	22122135	22122335	+	717.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081351, intron 8 of 21)	intron (NM_001081351, intron 8 of 21)	136325.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	6.0	13.0	6.0	130.5	8.0	6.0	1.5	5.5
Merged-chr6-5508064-4	chr6	5507930	5508130	+	890.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11752.0	NM_013743	27273.0	Mm.235547	NM_013743	ENSMUSG00000019577	Pdk4	AV005916	pyruvate dehydrogenase kinase, isoenzyme 4	protein-coding	13.5	9.5	51.0	1051.0	28.5	9.0	18.5	17.0
Merged-chr5-64221200-2	chr5	64221100	64221300	+	932.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 2 of 19)	RLTR11B|LTR|ERVK	-9157.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	7.5	3.0	5.0	9.0	6.5	5.0	7.0	10.5
Merged-chr2-156542944-4	chr2	156542836	156543036	+	864.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013510, exon 22 of 22)	3' UTR (NM_013510, exon 22 of 22)	-4640.0	NM_026661	68295.0	Mm.253648	NM_026661	ENSMUSG00000027628	Aar2	0610011L14Rik	AAR2 splicing factor homolog	protein-coding	9.0	10.5	7.5	121.5	35.5	4.0	6.5	11.5
Merged-chr19-28677617-4	chr19	28677520	28677720	+	973.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045330)	promoter-TSS (NR_045330)	-604.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	19.0	56.0	24.0	384.5	37.0	17.0	19.0	10.0
Merged-chr2-169780131-1	chr2	169780031	169780231	+	600.333313	f0_c57.idr	intron (NM_080455, intron 1 of 1)	intron (NM_080455, intron 1 of 1)	146485.0	NM_080455	228911.0	Mm.315789	NM_080455	ENSMUSG00000047907	Tshz2	2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2	teashirt zinc finger family member 2	protein-coding	0.0	0.0	0.0	8.5	21.0	10.0	11.5	12.5
Merged-chr15-88515253-4	chr15	88515153	88515353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-85049.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	61.5	101.0	88.5	1629.5	218.0	57.5	107.5	118.0
Merged-chr11-120582155-4	chr11	120582050	120582250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133796)	promoter-TSS (NM_133796)	-530.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	50.5	94.5	33.0	601.0	161.5	39.0	47.5	37.5
Merged-chr16-30722531-4	chr16	30722430	30722630	+	922.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122807.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	15.0	13.0	18.5	362.5	24.5	12.5	16.0	6.5
Merged-chr13-46929499-3	chr13	46929382	46929582	+	742.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 1 of 37)	CpG	236.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	13.0	6.0	31.0	122.0	15.0	5.0	6.0	4.0
Merged-chr10-62782071-4	chr10	62781963	62782163	+	733.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026201, intron 5 of 24)	B2_Mm1a|SINE|B2	10305.0	NM_026201	67500.0	Mm.196371	NM_026201	ENSMUSG00000020074	Ccar1	2610511G16Rik|9430036H15Rik|Carp1	cell division cycle and apoptosis regulator 1	protein-coding	16.5	6.0	8.5	108.0	25.5	2.5	8.5	15.0
Merged-chr2-93458861-4	chr2	93458762	93458962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040532, intron 2 of 4)	intron (NR_040532, intron 2 of 4)	2989.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	90.5	191.5	155.5	898.0	333.5	98.0	92.5	64.5
Merged-chr3-121852211-1	chr3	121852111	121852311	+	820.0	f0_balb.idr	Intergenic	Intergenic	-36909.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	7.0	4.0	15.5	126.5	10.5	6.0	10.0	10.5
Merged-chr17-34264166-4	chr17	34264083	34264283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207105, intron 1 of 5)	intron (NM_207105, intron 1 of 5)	956.0	NM_207105	14961.0	Mm.254067	NM_207105	ENSMUSG00000073421	H2-Ab1	AI845868|Abeta|H-2Ab|H2-Ab|I-Abeta|IAb|Ia-2|Ia2|Rmcs1	histocompatibility 2, class II antigen A, beta 1	protein-coding	26.0	54.5	32.5	299.0	140.5	32.5	46.0	52.0
Merged-chr15-85037000-4	chr15	85036886	85037086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133750)	promoter-TSS (NM_133750)	-76.0	NM_001356617	73225.0	Mm.247535	NM_133750	ENSMUSG00000022434	Fam118a	-	family with sequence similarity 118, member A	protein-coding	285.0	332.0	224.5	3268.5	535.5	215.5	220.0	201.5
Merged-chr7-15946016-4	chr7	15945922	15946122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133831)	promoter-TSS (NM_133831)	86.0	NM_133831	68077.0	Mm.277634	NM_133831	ENSMUSG00000041560	Nop53	5330430H08Rik|9430097C02Rik|AU041936|AW536441|Gltscr2|PICT-1|R74911	NOP53 ribosome biogenesis factor	protein-coding	55.0	95.0	123.5	740.5	135.5	56.5	53.0	77.0
Merged-chr2-29346728-4	chr2	29346613	29346813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026896)	promoter-TSS (NM_026896)	-97.0	NM_026896	68975.0	Mm.330109	NM_026896	ENSMUSG00000026799	Med27	1500015J03Rik|2310042P07Rik|AA682045|Crsp8|D2Ertd434e	mediator complex subunit 27	protein-coding	50.0	69.5	50.0	520.0	83.0	35.0	40.5	29.0
Merged-chr17-87283997-4	chr17	87283875	87284075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 1 of 19)	intron (NM_028639, intron 1 of 19)	1089.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	58.5	110.0	48.0	791.0	146.5	48.5	73.0	55.5
Merged-chr3-118044453-3	chr3	118044356	118044556	+	956.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175520.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	13.5	10.0	17.5	202.5	15.0	10.0	5.5	9.5
Merged-chr5-115635706-4	chr5	115635600	115635800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198163, intron 1 of 5)	intron (NM_198163, intron 1 of 5)	3713.0	NM_198163	77407.0	Mm.27553	NM_198163	ENSMUSG00000029518	Rab35	9530019H02Rik|AU040256|H-ray|RAB1C|RAY	RAB35, member RAS oncogene family	protein-coding	81.0	104.0	72.0	1264.5	102.0	58.0	75.5	43.0
Merged-chr8-105605760-3	chr8	105605652	105605852	+	875.533325	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081241, intron 1 of 21)	intron (NM_001081241, intron 1 of 21)	523.0	NM_001081241	75687.0	Mm.41261	NM_001081241	ENSMUSG00000038604	Ripor1	2310066E14Rik|AI837433|Fam65a	RHO family interacting cell polarization regulator 1	protein-coding	5.0	11.5	7.0	91.5	10.5	7.0	5.0	10.5
Merged-chr2-117272196-3	chr2	117272094	117272294	+	730.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026620)	TTS (NM_026620)	22455.0	NM_026620	68215.0	Mm.219389	NM_026620	ENSMUSG00000027349	Fam98b	2610510H03Rik	family with sequence similarity 98, member B	protein-coding	5.0	14.0	10.0	49.0	34.5	11.5	1.5	4.0
Merged-chr3-135439354-4	chr3	135439254	135439454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030689)	promoter-TSS (NR_030689)	228.0	NM_001356597	66105.0	Mm.49884	NM_025356	ENSMUSG00000078578	Ube2d3	1100001F19Rik|9430029A22Rik|AA414951	ubiquitin-conjugating enzyme E2D 3	protein-coding	179.0	265.5	214.0	3097.5	528.5	165.0	316.5	215.5
Merged-chr8-3288675-4	chr8	3288528	3288728	+	894.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	-9011.0	NM_001330056	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	3.5	9.0	14.5	98.5	11.0	6.5	8.0	6.0
Merged-chr10-39267155-4	chr10	39267032	39267232	+	980.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102667.0	NM_001122892	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	29.0	36.0	26.0	441.5	32.5	9.0	20.5	13.5
Merged-chr10-80696674-3	chr10	80696560	80696760	+	847.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172457, intron 1 of 3)	LTR33A|LTR|ERVL	5160.0	NM_172457	208228.0	Mm.49309	NM_172457	ENSMUSG00000003348	Mob3a	5330417K06Rik|A630029F06|AV218468|Mobkl2a	MOB kinase activator 3A	protein-coding	7.5	3.0	4.0	105.0	14.0	8.5	6.5	5.5
Merged-chr6-145248053-2	chr6	145247989	145248189	+	757.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_021284, intron 1 of 4)	intron (NM_021284, intron 1 of 4)	2142.0	NM_021284	16653.0	Mm.383182	NM_021284	ENSMUSG00000030265	Kras	AI929937|K-Ras|K-Ras 2|K-ras|Ki-ras|Kras-2|Kras2|c-K-ras|c-Ki-ras|p21B|ras	Kirsten rat sarcoma viral oncogene homolog	protein-coding	2.5	1.0	9.0	38.0	8.5	5.0	4.5	10.5
Merged-chr1-92180440-4	chr1	92180274	92180474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207225)	promoter-TSS (NM_207225)	-33.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	381.5	605.5	468.5	6189.0	953.0	351.0	447.0	417.5
Merged-chr5-92934424-4	chr5	92934306	92934506	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077596, intron 3 of 9)	MIR|SINE|MIR	36413.0	NM_001077596	27428.0	Mm.46014	NM_015756	ENSMUSG00000029381	Shroom3	AL022960|D5Ertd287e|Shrm|Shrm3	shroom family member 3	protein-coding	5.0	10.0	4.5	97.0	143.5	35.5	68.5	67.0
Merged-chr9-61022011-4	chr9	61021911	61022111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	4942.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	42.5	77.0	32.5	710.0	77.5	33.0	41.0	40.5
Merged-chr1-88701710-2	chr1	88701610	88701810	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177305, exon 1 of 1)	5' UTR (NM_177305, exon 1 of 1)	481.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	15.5	42.0	15.5	310.0	39.5	20.5	31.5	31.5
Merged-chr1-161492253-3	chr1	161492147	161492347	+	991.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2410.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	9.5	10.0	33.0	381.5	22.0	2.0	3.0	11.5
Merged-chr12-3282692-4	chr12	3282591	3282791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	Charlie1a|DNA|hAT-Charlie	27278.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	38.0	82.5	48.5	405.5	136.0	33.0	34.5	33.0
Merged-chr4-137879788-4	chr4	137879645	137879845	+	966.9166869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	17508.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	0.0	0.5	1.0	21.0	49.5	28.0	22.5	34.0
Merged-chr19-29522962-4	chr19	29522844	29523044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015567)	promoter-TSS (NR_015567)	662.0	NM_001081319	226089.0	Mm.353838	NM_177641	ENSMUSG00000038658	Ric1	C030046E11Rik|C130057E09Rik|Kiaa1432	RAB6A GEF complex partner 1	protein-coding	18.5	37.5	35.5	356.0	50.5	37.5	27.0	46.5
Merged-chr1-33907614-4	chr1	33907508	33907708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276764)	promoter-TSS (NM_001276764)	13.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	31.0	77.0	32.5	524.5	89.0	41.0	38.5	26.0
Merged-chr7-43604692-4	chr7	43604570	43604770	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	-2499.0	NM_001355131	74400.0	Mm.159188	NM_028913	ENSMUSG00000055102	Zfp819	4930427I11Rik|4933405K07Rik	zinc finger protein 819	protein-coding	18.5	5.5	8.5	144.5	30.5	9.0	13.0	7.5
Merged-chr4-136172192-4	chr4	136172095	136172295	+	899.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177733)	promoter-TSS (NM_177733)	-79.0	NM_177733	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	19.0	23.5	14.0	120.5	41.0	10.0	10.5	14.5
Merged-chr5-115535842-4	chr5	115535738	115535938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	-23629.0	NM_007475	11837.0	Mm.5286	NM_007475	ENSMUSG00000067274	Rplp0	36B4|Arbp|L10E	ribosomal protein, large, P0	protein-coding	64.5	74.0	59.0	1094.5	135.5	44.5	70.5	58.5
Merged-chr15-96709220-4	chr15	96709128	96709328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9500.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	20.0	39.0	19.5	207.0	57.0	15.5	21.0	25.5
Merged-chr8-83144406-2	chr8	83144298	83144498	+	1000.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-20954.0	NM_001111304	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	21.0	21.5	22.5	381.5	5.0	2.0	1.5	7.0
Merged-chr8-70700073-4	chr8	70699984	70700184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010592, exon 1 of 1)	3' UTR (NM_010592, exon 1 of 1)	2345.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	76.5	103.5	44.5	425.5	167.5	59.0	68.0	61.0
Merged-chr2-163743459-4	chr2	163743371	163743571	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001272052, intron 1 of 11)	intron (NM_001272052, intron 1 of 11)	6768.0	NM_007398	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	14.5	31.0	33.5	337.5	28.0	6.5	15.5	19.5
Merged-chr4-123283795-4	chr4	123283570	123283770	+	957.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356377, exon 1 of 14)	exon (NM_001356377, exon 1 of 14)	759.0	NM_130881	230721.0	Mm.277091	NM_130881	ENSMUSG00000011257	Pabpc4	-	poly(A) binding protein, cytoplasmic 4	protein-coding	0.5	11.0	6.0	37.5	21.0	5.5	13.0	14.0
Merged-chr15-80257110-2	chr15	80257010	80257210	+	863.0833130000001	f1_balb.idr|f1_c57bl6.idr	exon (NM_001287180, exon 4 of 4)	exon (NM_001287180, exon 4 of 4)	1926.0	NM_009716	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	2.5	2.5	4.5	52.5	6.5	8.5	4.5	8.0
Merged-chr4-123957387-4	chr4	123957279	123957479	+	959.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39946.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	8.0	29.5	18.0	273.5	36.0	16.0	14.5	27.5
Merged-chr11-70669353-4	chr11	70669258	70669458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172561)	promoter-TSS (NM_172561)	58.0	NM_172561	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	88.0	118.5	55.0	899.0	222.0	101.5	84.5	87.5
Merged-chr7-72162482-1	chr7	72162382	72162582	+	766.75	f0_balb.idr	intron (NM_001024703, intron 16 of 22)	intron (NM_001024703, intron 16 of 22)	144113.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	10.5	14.0	16.0	170.5	2.5	3.0	0.0	0.0
Merged-chr11-94707835-4	chr11	94707746	94707946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-3347.0	NM_001007584	432589.0	Mm.342314	NM_001007584	ENSMUSG00000056008	Gm11541	-	predicted gene 11541	protein-coding	72.0	118.5	77.5	1078.0	173.0	70.5	79.5	84.0
Merged-chr12-86825277-6	chr12	86825330	86825530	+	901.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	59384.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	6.0	9.0	5.5	114.5	16.0	4.0	5.5	4.0
Merged-chr9-123523852-4	chr9	123523755	123523955	+	786.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-5898.0	NM_001357485	83493.0	Mm.273671	NM_030692	ENSMUSG00000025240	Sacm1l	SAC1|Sac1p|mKIAA0851	SAC1 suppressor of actin mutations 1-like (yeast)	protein-coding	7.0	7.5	4.5	83.5	21.0	5.5	10.5	3.5
Merged-chr4-129625299-5	chr4	129625257	129625457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001199695)	TTS (NM_001199695)	-1449.0	NM_025455	66264.0	Mm.383215	NM_025455	ENSMUSG00000028795	Ccdc28b	1110002E08Rik|1810010N17Rik	coiled coil domain containing 28B	protein-coding	13.0	35.0	21.0	195.0	61.5	29.5	20.5	26.0
Merged-chr16-91597802-4	chr16	91597705	91597905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030018)	promoter-TSS (NM_030018)	-125.0	NM_030018	77975.0	Mm.290341	NM_030018	ENSMUSG00000022964	Tmem50b	AU015466|AU019872|B230114J08Rik	transmembrane protein 50B	protein-coding	185.0	308.5	149.5	2413.0	460.5	171.5	201.0	156.5
Merged-chr19-7241203-4	chr19	7241093	7241293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027643)	promoter-TSS (NM_027643)	29.0	NM_027643	70999.0	Mm.329605	NM_027643	ENSMUSG00000024764	Naa40	4931433E08Rik|AU023197|Nat11|NatD	N(alpha)-acetyltransferase 40, NatD catalytic subunit	protein-coding	130.5	213.5	115.5	1419.0	300.0	107.0	99.0	99.5
Merged-chr6-115315974-3	chr6	115315885	115316085	+	695.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Tigger7|DNA|TcMar-Tigger	-44966.0	NM_001127330	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	8.0	5.5	4.0	78.0	5.0	5.5	6.5	6.0
Merged-chr9-24499710-4	chr9	24499607	24499807	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359948, intron 1 of 22)	MTE2a|LTR|ERVL-MaLR	3433.0	NM_001359948	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	19.0	13.5	22.0	410.0	42.5	15.5	20.5	27.5
Merged-chr17-47909415-4	chr17	47909320	47909520	+	907.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028767, intron 1 of 16)	intron (NM_028767, intron 1 of 16)	15212.0	NM_028767	74123.0	Mm.240062	NM_028767	ENSMUSG00000023991	Foxp4	1200010K03Rik|2310007G05Rik|mFKHLA	forkhead box P4	protein-coding	19.0	17.5	2.0	180.0	30.5	11.5	11.5	6.5
Merged-chr5-5365554-3	chr5	5365425	5365625	+	805.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	14726.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	0.0	0.0	0.0	0.0	45.0	14.5	12.5	15.0
Merged-chr4-154864407-4	chr4	154864302	154864502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_154548, exon 5 of 5)	non-coding (NR_154548, exon 5 of 5)	-5183.0	NM_013783	27390.0	Mm.116944	NM_013783	ENSMUSG00000058183	Mmel1	Mell1|NEP2|NEPII|Nl1|SEP	membrane metallo-endopeptidase-like 1	protein-coding	34.5	68.0	25.0	575.0	81.0	40.0	44.0	43.0
Merged-chr4-120881233-4	chr4	120881141	120881341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 3 of 7)	intron (NM_182929, intron 3 of 7)	26442.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	57.0	82.5	51.5	702.5	145.5	49.5	56.0	48.0
Merged-chr1-152797490-4	chr1	152797388	152797588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2665.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	30.0	51.0	19.5	312.5	70.5	24.5	14.5	17.0
Merged-chr1-161594828-4	chr1	161594732	161594932	+	985.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	100175.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	21.0	33.0	53.0	415.5	42.5	24.5	25.0	12.5
Merged-chr4-117787172-3	chr4	117787096	117787296	+	893.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21530.0	NM_029416	75753.0	Mm.3848	NM_029416	ENSMUSG00000048626	Klf17	7420700M05Rik|AA420409|AU043468|C85123|D4Ertd561e|Gzf|Zfp393	Kruppel-like factor 17	protein-coding	11.5	19.5	9.0	203.5	14.0	8.0	7.0	4.0
Merged-chr5-64229739-2	chr5	64229639	64229839	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289514)	promoter-TSS (NM_001289514)	-618.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	3.5	6.0	11.0	135.5	17.0	7.0	9.5	15.0
Merged-chr7-114081739-1	chr7	114081639	114081839	+	681.0	f0_c57.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	36042.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	5.0	14.0	5.0	68.5	23.0	5.5	10.0	11.5
Merged-chr2-73548733-4	chr2	73548580	73548780	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19193.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	23.5	9.5	10.0	374.5	32.0	5.0	13.0	17.0
Merged-chr9-40782195-4	chr9	40782076	40782276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 6 of 6)	intron (NM_133733, intron 6 of 6)	-19097.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	72.5	84.0	61.0	888.5	170.5	58.0	97.0	77.0
Merged-chr2-35507335-4	chr2	35507228	35507428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-45879.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	50.0	36.5	54.0	803.5	98.0	28.0	46.5	32.0
Merged-chr18-35752275-4	chr18	35752166	35752366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11712.0	NM_001289592	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	47.5	68.5	20.0	585.5	136.5	41.0	51.5	42.0
Merged-chr15-100681972-4	chr15	100681861	100682061	+	879.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 5 of 7)	B1_Mur2|SINE|Alu	5959.0	NM_033612	109901.0	Mm.2131	NM_033612	ENSMUSG00000023031	Cela1	1810009A17Rik|1810062B19Rik|Ela-1|Ela1|PC-TsF	chymotrypsin-like elastase family, member 1	protein-coding	13.0	13.0	16.5	207.0	21.5	10.0	15.0	15.0
Merged-chr19-42004601-3	chr19	42004484	42004684	+	809.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	MTC|LTR|ERVL-MaLR	22821.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	5.0	8.0	6.5	90.0	11.5	2.0	6.5	10.0
Merged-chr4-59455677-4	chr4	59455571	59455771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17038.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	88.0	123.0	152.5	1892.5	121.5	55.0	57.0	58.0
Merged-chr6-114842040-4	chr6	114841945	114842145	+	664.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 19 of 19)	intron (NM_001253718, intron 19 of 19)	79776.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	11.0	16.5	5.5	34.5	19.5	4.0	3.0	12.5
Merged-chr8-124663351-4	chr8	124663213	124663413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175149)	promoter-TSS (NM_175149)	56.0	NM_175149	69551.0	Mm.261920	NM_175149	ENSMUSG00000031983	2310022B05Rik	-	RIKEN cDNA 2310022B05 gene	protein-coding	45.5	64.5	49.0	636.5	128.0	67.0	94.5	66.5
Merged-chr16-76283507-4	chr16	76283407	76283607	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	89542.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	7.5	15.0	13.5	178.0	32.5	4.5	17.0	7.0
Merged-chr4-63562036-4	chr4	63561954	63562154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144905, intron 2 of 9)	intron (NM_144905, intron 2 of 9)	1827.0	NM_144905	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	58.0	72.0	44.5	966.5	117.0	38.5	70.0	33.0
Merged-chr1-161035059-4	chr1	161034966	161035166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151478)	promoter-TSS (NR_151478)	150.0	NR_153812	14455.0	Mm.270065	NR_002840	ENSMUSG00000053332	Gas5	Gas-5|Mir5117|Snhg2	growth arrest specific 5	ncRNA	152.0	294.0	179.5	2490.5	476.0	190.0	206.0	177.5
Merged-chr15-50698669-1	chr15	50698569	50698769	+	1000.0	f0_balb.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	190380.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	14.0	21.5	7.0	197.5	26.5	20.0	7.0	4.5
Merged-chr3-21806652-4	chr3	21806555	21806755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-269997.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	63.5	56.0	51.0	834.0	100.5	28.0	35.5	41.5
Merged-chr16-44016386-4	chr16	44016286	44016486	+	958.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153528)	promoter-TSS (NM_153528)	50.0	NM_153528	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	17.5	17.5	39.5	399.0	33.5	18.0	18.0	17.0
Merged-chr4-139130345-4	chr4	139130256	139130456	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163006, intron 1 of 3)	CpG	681.0	NR_033745	433771.0	Mm.305990	NM_001163006	ENSMUSG00000050608	Minos1	2310028O11Rik	mitochondrial inner membrane organizing system 1	protein-coding	11.5	14.0	16.0	135.5	51.0	12.0	14.0	23.5
Merged-chr7-141414195-4	chr7	141414098	141414298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172116)	promoter-TSS (NM_172116)	-73.0	NM_172116	213350.0	Mm.290953	NM_172116	ENSMUSG00000051007	Gatd1	BC023835|D230016J19Rik|Pddc1	glutamine amidotransferase like class 1 domain containing 1	protein-coding	194.0	356.5	156.5	2596.5	514.0	210.0	196.0	171.0
Merged-chr10-88504654-4	chr10	88504545	88504745	+	882.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146690)	promoter-TSS (NM_001146690)	-675.0	NM_001146690	212862.0	Mm.288897	NM_144807	ENSMUSG00000060002	Chpt1	-	choline phosphotransferase 1	protein-coding	10.0	33.5	12.0	189.0	26.5	8.0	4.5	10.0
Merged-chr6-5425654-4	chr6	5425520	5425720	+	894.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355662, intron 3 of 4)	intron (NM_001355662, intron 3 of 4)	35210.0	NM_001355662	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	7.5	13.5	12.5	252.0	21.5	6.0	10.5	19.0
Merged-chr12-100024065-3	chr12	100023949	100024149	+	871.488892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	59550.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	14.0	5.5	10.0	280.0	2.5	2.0	1.5	3.0
Merged-chr2-166977745-4	chr2	166977669	166977869	+	816.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	intron (NM_001109905, intron 1 of 11)	-13052.0	NR_111895	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	5.5	16.5	5.5	109.0	18.5	6.5	5.0	12.0
Merged-chr16-33833918-4	chr16	33833831	33834031	+	725.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	intron (NM_001145884, intron 1 of 14)	4266.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	16.5	14.5	11.0	130.0	26.0	9.5	14.5	16.5
Merged-chr8-70616067-4	chr8	70615965	70616165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153074)	promoter-TSS (NM_153074)	-779.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	93.5	132.0	116.0	1803.5	182.0	68.5	104.5	82.0
Merged-chr8-40644999-2	chr8	40644893	40645093	+	824.833374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-10201.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	0.0	0.0	0.0	0.0	62.0	20.0	30.5	28.0
Merged-chr12-8260468-3	chr12	8260371	8260571	+	975.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172401, intron 4 of 6)	intron (NM_172401, intron 4 of 6)	41483.0	NM_001312876	238057.0	Mm.271308	NM_013527	ENSMUSG00000037660	Gdf7	BMP12	growth differentiation factor 7	protein-coding	20.0	17.5	14.5	250.0	18.5	6.0	17.5	9.0
Merged-chr8-22808622-4	chr8	22808518	22808718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2964.0	NM_001122820	64933.0	Mm.390023	NM_029505	ENSMUSG00000031539	Ap3m2	5830445E16Rik|AP-3B	adaptor-related protein complex 3, mu 2 subunit	protein-coding	64.0	95.0	64.5	881.5	226.0	72.5	65.5	65.0
Merged-chr6-3399543-4	chr6	3399428	3399628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010156)	promoter-TSS (NM_010156)	43.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	92.0	106.5	81.0	700.0	160.0	53.0	42.0	38.5
Merged-chr19-45060356-4	chr19	45060257	45060457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25A|LTR|ERVK	12781.0	NM_001362381	94280.0	Mm.36169	NM_053197	ENSMUSG00000025212	Sfxn3	-	sideroflexin 3	protein-coding	40.5	90.5	34.5	691.0	76.5	38.0	20.5	43.5
Merged-chr8-107403201-4	chr8	107403099	107403299	+	898.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008706)	promoter-TSS (NM_008706)	6.0	NM_008706	18104.0	Mm.252	NM_008706	ENSMUSG00000003849	Nqo1	AV001255|Dia4|Dtd|Nmo-1|Nmo1|Nmor1|Ox-1|Ox1|Qr1	NAD(P)H dehydrogenase, quinone 1	protein-coding	9.5	19.0	24.0	300.5	28.0	11.0	17.5	18.5
Merged-chr12-103341368-4	chr12	103341251	103341451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 2 of 9)	intron (NM_023049, intron 2 of 9)	14650.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	199.5	287.5	187.0	2489.5	451.5	164.0	229.0	170.0
Merged-chr12-84803867-4	chr12	84803764	84803964	+	833.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 16 of 34)	intron (NM_013589, intron 16 of 34)	30594.0	NM_028863	74316.0	Mm.25719	NM_028863	ENSMUSG00000021241	Isca2	0710001C05Rik|5730594E03Rik|Hbld1	iron-sulfur cluster assembly 2	protein-coding	12.5	34.5	12.0	117.5	22.0	7.5	14.0	16.5
Merged-chr4-136146168-8	chr4	136146039	136146239	+	996.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008321)	TTS (NM_008321)	2317.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	26.5	34.5	34.0	507.5	87.0	19.5	23.0	29.0
Merged-chr18-64936226-3	chr18	64936092	64936292	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	48436.0	NM_001114386	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	8.0	12.5	7.0	106.0	9.5	3.0	3.0	4.0
Merged-chr18-12947345-4	chr18	12947234	12947434	+	847.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5493.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	5.0	9.5	9.5	148.0	22.5	3.0	13.0	3.5
Merged-chr3-27182870-4	chr3	27182747	27182947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178772)	promoter-TSS (NM_178772)	-157.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	146.5	183.0	152.5	1925.0	398.0	131.0	198.5	162.0
Merged-chr10-96266389-4	chr10	96266300	96266500	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40193.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	25.0	24.0	21.5	215.5	45.0	7.0	14.0	17.0
Merged-chr16-3884580-4	chr16	3884482	3884682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029090)	promoter-TSS (NM_029090)	-37.0	NM_029090	74763.0	Mm.28403	NM_029090	ENSMUSG00000005982	Naa60	1200013P24Rik|AI315146|HAT4|Nat15|NatF	N(alpha)-acetyltransferase 60, NatF catalytic subunit	protein-coding	154.0	170.0	110.0	1995.5	296.5	121.5	161.0	110.5
Merged-chr18-4873220-4	chr18	4873133	4873333	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	60747.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	37.0	32.0	32.5	689.5	27.5	6.0	23.5	21.5
Merged-chr18-5834624-4	chr18	5834532	5834732	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	241985.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	22.0	14.5	16.5	167.5	39.0	16.5	14.5	11.0
Merged-chr7-67227361-9	chr7	67227276	67227476	+	786.037048	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175215, exon 3 of 3)	3' UTR (NM_175215, exon 3 of 3)	4760.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	5.5	5.5	10.5	77.0	20.5	3.5	4.5	9.5
Merged-chr1-166921164-4	chr1	166921052	166921252	+	978.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78578.0	NR_037988	100503962.0	Mm.216842	NR_037988	ENSMUSG00000102548	Gm16701	-	predicted gene, 16701	ncRNA	1.0	13.0	16.0	329.5	63.5	10.5	22.0	5.5
Merged-chr19-16107890-3	chr19	16107798	16107998	+	761.527771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24933.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	5.5	3.5	1.5	35.5	41.0	17.0	13.0	9.5
Merged-chr8-3631107-4	chr8	3631014	3631214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011503)	promoter-TSS (NM_011503)	5.0	NM_011503	20911.0	Mm.7247	NM_011503	ENSMUSG00000004626	Stxbp2	C79054|Munc-18-2|Munc-18b|Munc18b|Sxtbp2|Sxtp2|Unc18-2|Unc18b|muSec1	syntaxin binding protein 2	protein-coding	61.0	50.5	41.5	647.0	144.0	56.0	67.5	49.5
Merged-chr11-53819013-4	chr11	53818892	53819092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 2 of 3)	intron (NR_033332, intron 2 of 3)	40264.0	NR_033332	622459.0	Mm.479656	NR_033332	ENSMUSG00000081769	Gm12216	602-19-115	predicted gene 12216	ncRNA	26.5	103.5	32.0	375.0	150.0	49.5	63.5	34.0
Merged-chr11-54787713-4	chr11	54787596	54787796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178626)	promoter-TSS (NM_178626)	7.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	139.5	185.0	106.5	1426.0	300.0	119.0	121.0	147.0
Merged-chr7-71876286-3	chr7	71876184	71876384	+	911.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33411.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	16.5	15.0	11.0	152.0	10.5	11.0	2.5	4.0
Merged-chr2-61734425-3	chr2	61734318	61734518	+	755.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021526, intron 3 of 11)	intron (NM_021526, intron 3 of 11)	22724.0	NM_021526	59029.0	Mm.218198	NM_021526	ENSMUSG00000026914	Psmd14	2610312C03Rik|3200001M20Rik|AA986732|Pad1|Poh1|rpm11	proteasome (prosome, macropain) 26S subunit, non-ATPase, 14	protein-coding	5.0	14.5	4.5	63.5	22.5	12.0	10.0	3.0
Merged-chr1-120120565-1	chr1	120120465	120120665	+	1000.0	f1_c57bl6.idr	promoter-TSS (NM_001172074)	promoter-TSS (NM_001172074)	354.0	NM_001037999	13167.0	Mm.2785	NM_007830	ENSMUSG00000026385	Dbi	ACBD1|Acbp|EP|endozepine	diazepam binding inhibitor	protein-coding	5.0	6.5	12.0	125.5	24.5	16.0	4.5	7.0
Merged-chr5-45677861-4	chr5	45677762	45677962	+	836.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019438, intron 7 of 20)	MTD|LTR|ERVL-MaLR	7937.0	NM_019438	54392.0	Mm.32012	NM_019438	ENSMUSG00000015880	Ncapg	5730507H05Rik|Hcapg|MFT.M05.13	non-SMC condensin I complex, subunit G	protein-coding	10.5	15.0	14.5	264.5	16.5	11.5	6.0	12.5
Merged-chr11-101582256-4	chr11	101582164	101582364	+	979.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144830)	promoter-TSS (NM_144830)	22.0	NM_144830	217203.0	Mm.280559	NM_144830	ENSMUSG00000034947	Tmem106a	0610008L10Rik|AI043106|BC022145	transmembrane protein 106A	protein-coding	22.0	18.5	12.0	186.5	46.0	22.0	8.0	23.0
Merged-chr5-125106428-3	chr5	125106357	125106557	+	967.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011424, intron 5 of 46)	intron (NM_011424, intron 5 of 46)	72757.0	NM_001253905	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	20.0	24.5	12.0	379.5	10.5	8.0	5.5	8.0
Merged-chr14-31392983-4	chr14	31392882	31393082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	24695.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	188.0	244.0	170.5	2784.5	360.5	117.0	141.5	158.0
Merged-chr15-38691490-4	chr15	38691399	38691599	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025494, intron 12 of 12)	intron (NM_025494, intron 12 of 12)	29595.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	5.5	8.5	10.5	196.0	31.5	6.5	9.5	6.5
Merged-chr11-74831388-4	chr11	74831303	74831503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010813, intron 1 of 5)	CpG-2219	479.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	14.5	36.5	16.5	233.0	45.5	13.5	31.0	19.5
Merged-chr4-8822721-4	chr4	8822604	8822804	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 7 of 36)	intron (NM_001355382, intron 7 of 36)	71380.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	13.0	24.0	24.5	500.0	33.0	16.5	17.5	21.5
Merged-chr13-117222086-3	chr13	117221980	117222180	+	731.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010330, intron 1 of 8)	intron (NM_010330, intron 1 of 8)	1507.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	10.5	6.5	8.0	231.0	18.5	6.5	4.5	7.0
Merged-chr11-119728373-2	chr11	119728273	119728473	+	934.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_028898, intron 4 of 33)	RLTR11D|LTR|ERVK	105992.0	NR_045313	319454.0	Mm.442144	NR_045312	ENSMUSG00000085081	Rptoros	A430071A18Rik	regulatory associated protein of MTOR, complex 1, opposite strand	ncRNA	10.0	6.0	6.0	68.5	17.0	3.0	2.5	7.5
Merged-chr16-95932379-4	chr16	95932273	95932473	+	856.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-3296.0	NR_040484	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	14.5	13.0	13.5	231.0	16.0	6.0	11.0	26.5
Merged-chr12-16894766-7	chr12	16894659	16894859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009072)	promoter-TSS (NM_009072)	-219.0	NM_009072	19878.0	Mm.276024	NM_009072	ENSMUSG00000020580	Rock2	B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619	Rho-associated coiled-coil containing protein kinase 2	protein-coding	80.0	129.0	50.5	720.5	192.5	90.0	117.0	89.5
Merged-chr19-34464641-4	chr19	34464558	34464758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	10477.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	59.0	58.5	44.5	772.0	103.0	36.0	47.5	30.5
Merged-chr1-52817338-4	chr1	52817223	52817423	+	850.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008384, intron 1 of 5)	CpG	365.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	13.5	20.0	14.5	142.0	21.0	7.0	8.0	11.0
Merged-chr3-96278188-4	chr3	96278095	96278295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	8495.0	NM_175666	319189.0	Mm.297655	NM_175666	ENSMUSG00000105827	Hist2h2bb	H2b-616	histone cluster 2, H2bb	protein-coding	49.5	68.0	38.0	612.5	81.5	43.0	59.0	32.0
Merged-chr19-37548178-3	chr19	37548084	37548284	+	912.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2234.0	NM_175353	107371.0	Mm.24865	NM_175353	ENSMUSG00000053799	Exoc6	4833405E05Rik|AW413330|C430002C19|Sec15|Sec15l1|hbd|msec15	exocyst complex component 6	protein-coding	14.0	12.0	13.5	116.0	27.5	8.5	6.0	4.0
Merged-chr11-23821850-4	chr11	23821749	23821949	+	956.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50879.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	63.0	73.0	76.0	756.5	98.5	25.0	27.5	12.5
Merged-chr9-122117325-4	chr9	122117250	122117450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164572)	promoter-TSS (NM_001164572)	84.0	NM_001357774	20623.0	Mm.257989	NM_133741	ENSMUSG00000038145	Snrk	2010012F07Rik|AI448042|AW547029|E030034B15|R74830|mKIAA0096	SNF related kinase	protein-coding	61.0	79.0	56.0	902.0	143.5	64.0	70.5	55.0
Merged-chr17-50110742-1	chr17	50110642	50110842	+	596.5	f0_balb.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	79755.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	6.0	11.5	4.5	67.5	4.5	2.5	0.5	5.0
Merged-chr2-61137654-3	chr2	61137547	61137747	+	955.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162496.0	NR_045335	100038493.0	Mm.388076	NR_045335	ENSMUSG00000075325	Gm13582	-	predicted gene 13582	ncRNA	10.5	16.0	19.0	319.0	9.5	4.0	9.5	10.5
Merged-chr15-41447378-4	chr15	41447267	41447467	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358978)	promoter-TSS (NM_001358978)	-115.0	NR_152565	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	62.5	63.0	53.0	1149.5	28.0	12.5	7.0	5.0
Merged-chr18-39319421-3	chr18	39319295	39319495	+	698.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 20 of 21)	intron (NM_001361073, intron 20 of 21)	167850.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	5.5	4.5	0.0	32.5	21.5	16.0	5.0	10.0
Merged-chr7-68748483-4	chr7	68748469	68748669	+	992.142822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042592, intron 1 of 7)	intron (NM_001042592, intron 1 of 7)	669.0	NM_001042592	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	9.5	14.0	24.0	153.0	33.5	18.5	15.5	23.5
Merged-chr4-116076530-5	chr4	116076495	116076695	+	946.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153521, intron 1 of 9)	CpG	1326.0	NM_153521	230654.0	Mm.3655	NM_153521	ENSMUSG00000028703	Lrrc41	AA409966|AW555107|D630045E04Rik|D730026A16Rik|MUF1	leucine rich repeat containing 41	protein-coding	11.0	16.5	20.0	87.0	18.5	18.5	15.0	32.5
Merged-chr5-31526966-6	chr5	31526822	31527022	+	888.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009206)	promoter-TSS (NM_009206)	-73.0	NM_001359154	20534.0	Mm.352407	NM_009206	ENSMUSG00000029141	Slc4a1ap	kanadaptin	solute carrier family 4 (anion exchanger), member 1, adaptor protein	protein-coding	10.5	13.0	7.0	85.0	13.5	8.5	1.5	12.0
Merged-chr13-112137773-4	chr13	112137646	112137846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-150705.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	22.0	39.5	20.0	253.5	74.5	21.5	33.5	23.5
Merged-chr2-84653556-3	chr2	84653458	84653658	+	801.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 1 of 18)	B2_Mm2|SINE|B2	-2818.0	NM_001355066	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	14.5	10.5	5.5	25.0	18.0	14.0	20.5	6.5
Merged-chr15-73612236-4	chr15	73612129	73612329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033219, intron 1 of 7)	intron (NM_001033219, intron 1 of 7)	5095.0	NM_001357747	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	56.5	86.0	67.0	957.0	124.0	41.0	34.0	56.0
Merged-chr6-134021013-4	chr6	134020901	134021101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14699.0	NM_001303102	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	62.0	122.5	49.0	723.5	207.5	69.0	71.0	57.0
Merged-chr4-11254232-4	chr4	11254137	11254337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178112)	promoter-TSS (NM_178112)	22.0	NM_178112	72656.0	Mm.246713	NM_178112	ENSMUSG00000040738	Ints8	2810013E07Rik|AV063769|D130008D20Rik	integrator complex subunit 8	protein-coding	137.5	198.5	157.0	2509.5	298.0	118.5	159.0	120.0
Merged-chr13-119453409-2	chr13	119453309	119453509	+	937.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_145457, intron 9 of 10)	B1_Mus1|SINE|Alu	-9350.0	NR_153825	67392.0	Mm.390641	NM_026127	ENSMUSG00000062822	4833420G17Rik	2210017J06Rik|5730533D17Rik|AW107518|C85193	RIKEN cDNA 4833420G17 gene	protein-coding	7.0	11.5	5.5	37.0	9.0	1.5	0.0	3.5
Merged-chr13-45288638-4	chr13	45288540	45288740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101102.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	29.0	86.5	34.0	348.0	97.5	24.0	29.5	23.0
Merged-chr19-5274312-4	chr19	5274223	5274423	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_030109, exon 21 of 21)	3' UTR (NM_030109, exon 21 of 21)	-1204.0	NM_153129	107975.0	Mm.234923	NM_153129	ENSMUSG00000024855	Pacs1	AI325977	phosphofurin acidic cluster sorting protein 1	protein-coding	20.5	24.5	14.0	254.0	50.5	20.0	28.0	30.5
Merged-chr16-91741124-3	chr16	91741049	91741249	+	650.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	intron (NM_001110276, intron 1 of 15)	11778.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	5.5	5.5	7.0	64.0	12.0	2.0	7.0	7.0
Merged-chr12-86887770-4	chr12	86887665	86887865	+	960.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2951.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	23.0	38.0	8.5	185.5	53.5	32.0	20.5	36.0
Merged-chr12-72070430-4	chr12	72070331	72070531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181752, exon 1 of 1)	exon (NM_181752, exon 1 of 1)	560.0	NM_181752	238252.0	Mm.390508	NM_181752	ENSMUSG00000043398	Gpr135	PAFR	G protein-coupled receptor 135	protein-coding	57.0	57.5	41.5	809.5	119.0	33.5	50.5	47.0
Merged-chr7-30393264-5	chr7	30393124	30393324	+	902.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-20564.0	NM_011662	22177.0	Mm.46301	NM_011662	ENSMUSG00000030579	Tyrobp	DAP12|KARAP|Ly83	TYRO protein tyrosine kinase binding protein	protein-coding	7.0	11.0	15.0	120.5	38.0	15.5	21.0	15.5
Merged-chr8-19561428-1	chr8	19561328	19561528	+	648.75	f0_balb.idr	Intergenic	Intergenic	66331.0	NM_139220	246080.0	Mm.207067	NM_139220	ENSMUSG00000037790	Defb7	BD-7|Defb15	defensin beta 7	protein-coding	7.0	13.0	11.0	91.0	8.0	4.5	2.5	1.0
Merged-chr16-50299232-4	chr16	50299117	50299317	+	928.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 3 of 16)	intron (NM_027444, intron 3 of 16)	133172.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	16.5	32.0	19.5	262.0	26.5	14.5	12.0	12.5
Merged-chr2-131492816-3	chr2	131492732	131492932	+	685.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 1 of 3)	intron (NM_001177840, intron 1 of 3)	970.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	9.0	7.5	7.5	95.5	8.0	2.5	8.0	5.5
Merged-chr1-71100332-4	chr1	71100148	71100348	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007525, intron 1 of 10)	intron (NM_007525, intron 1 of 10)	2724.0	NM_007525	12021.0	Mm.10764	NM_007525	ENSMUSG00000026196	Bard1	-	BRCA1 associated RING domain 1	protein-coding	7.5	12.0	9.0	114.5	17.0	4.5	10.5	15.5
Merged-chr13-112801516-3	chr13	112801420	112801620	+	868.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008903, intron 1 of 5)	intron (NM_008903, intron 1 of 5)	743.0	NM_008247	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	6.0	5.5	10.0	137.5	24.0	11.0	7.5	17.0
Merged-chr7-135768387-3	chr7	135768295	135768495	+	865.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52016.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	12.5	23.0	8.0	96.0	38.0	19.5	12.0	10.5
Merged-chr9-119401337-4	chr9	119401159	119401359	+	917.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313757)	promoter-TSS (NM_001313757)	-919.0	NM_007397	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	7.0	3.5	6.0	92.0	31.0	12.0	15.5	9.5
Merged-chr11-78792742-4	chr11	78792657	78792857	+	851.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33838.0	NM_001076681	66274.0	Mm.258932	NM_001076681	ENSMUSG00000072640	Lyrm9	1810012P15Rik	LYR motif containing 9	protein-coding	16.0	17.0	13.5	167.0	28.5	6.5	9.5	11.5
Merged-chr8-80793977-3	chr8	80793852	80794052	+	775.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021356, intron 2 of 9)	intron (NM_021356, intron 2 of 9)	-54493.0	NM_053124	93762.0	Mm.246803	NM_053124	ENSMUSG00000031715	Smarca5	4933427E24Rik|D030040M08Rik|D330027N15Rik|MommeD4|Snf2h	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	protein-coding	7.0	10.0	8.5	152.5	15.5	1.0	6.5	5.0
Merged-chr4-107935429-4	chr4	107935322	107935522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-11833.0	NM_009949	12896.0	Mm.307620	NM_009949	ENSMUSG00000028607	Cpt2	AI323697|CPTII	carnitine palmitoyltransferase 2	protein-coding	31.0	54.5	46.5	781.5	84.5	21.5	38.5	30.5
Merged-chr7-141475381-6	chr7	141475299	141475499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252588)	promoter-TSS (NM_001252588)	163.0	NM_053082	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	23.5	35.5	17.0	190.5	65.5	33.5	31.0	48.0
Merged-chr2-11278988-4	chr2	11278928	11279128	+	858.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 13 of 17)	intron (NM_008859, intron 13 of 17)	-60461.0	NR_040369	100503147.0	Mm.91961	NR_040369	ENSMUSG00000086006	Gm13293	-	predicted gene 13293	ncRNA	10.0	3.0	14.0	95.5	24.5	5.5	4.5	11.0
Merged-chr1-180945498-3	chr1	180945396	180945596	+	832.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144794, intron 1 of 22)	intron (NM_144794, intron 1 of 22)	2978.0	NM_144794	208795.0	Mm.185518	NM_144794	ENSMUSG00000026519	Tmem63a	BC014795|Tmem64a	transmembrane protein 63a	protein-coding	11.0	24.0	11.0	174.0	11.0	7.0	3.0	18.0
Merged-chr13-113572207-4	chr13	113572108	113572308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46356.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	29.0	46.5	19.0	510.5	110.5	30.5	39.5	36.5
Merged-chr5-100039953-4	chr5	100039868	100040068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026421)	promoter-TSS (NM_026421)	-26.0	NM_026421	67870.0	Mm.11311	NM_026421	ENSMUSG00000029326	Enoph1	2310057D15Rik|BB183658|C81437	enolase-phosphatase 1	protein-coding	112.0	159.5	85.5	1293.5	299.5	132.5	136.0	164.5
Merged-chr6-83502850-4	chr6	83502768	83502968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149734, intron 1 of 6)	intron (NR_149734, intron 1 of 6)	4101.0	NM_013764	27369.0	Mm.42234	NM_013764	ENSMUSG00000014554	Dguok	dGK|dGK1|dGK2|dGK3	deoxyguanosine kinase	protein-coding	33.0	45.0	35.5	650.0	74.0	46.5	48.5	60.0
Merged-chr18-65502978-4	chr18	65502866	65503066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	RLTR19-int|LTR|ERVK	71969.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	62.0	123.5	108.0	1258.0	68.5	22.0	39.0	39.0
Merged-chr6-72107976-4	chr6	72107889	72108089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011375, intron 1 of 6)	intron (NM_011375, intron 1 of 6)	10381.0	NM_011375	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	28.5	26.0	32.0	641.0	68.5	17.5	37.0	23.5
Merged-chr16-57607231-3	chr16	57607144	57607344	+	706.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025599)	promoter-TSS (NM_025599)	-377.0	NM_025599	66497.0	Mm.425976	NM_025599	ENSMUSG00000022748	Cmss1	1110001A06Rik|2610528E23Rik|4930572F24Rik|AV099812|AV122629	cms small ribosomal subunit 1	protein-coding	12.5	16.5	12.5	98.5	12.5	7.5	3.0	5.5
Merged-chr13-45623975-3	chr13	45623882	45624082	+	864.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 5 of 6)	(ATG)n|Simple_repeat|Simple_repeat	116538.0	NM_025508	66355.0	Mm.290802	NM_025508	ENSMUSG00000000253	Gmpr	2310004P21Rik|AV028449|GMPR 1	guanosine monophosphate reductase	protein-coding	12.5	22.5	11.5	13.5	16.5	16.5	3.0	9.0
Merged-chr1-131976763-4	chr1	131976679	131976879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145977, exon 2 of 5)	5' UTR (NM_145977, exon 2 of 5)	6170.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	114.0	146.0	133.0	2691.5	238.0	93.0	139.5	128.5
Merged-chr6-89580042-3	chr6	89579939	89580139	+	885.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 1 of 6)	intron (NM_001167736, intron 1 of 6)	15613.0	NM_025351	66098.0	Mm.20313	NM_025351	ENSMUSG00000030086	Chchd6	0710001P09Rik|1700021B03Rik	coiled-coil-helix-coiled-coil-helix domain containing 6	protein-coding	7.0	17.5	10.0	115.5	8.0	3.0	8.5	5.0
Merged-chr5-103628688-3	chr5	103628579	103628779	+	846.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029415, intron 1 of 5)	intron (NM_029415, intron 1 of 5)	724.0	NM_029415	75750.0	Mm.7446	NM_029415	ENSMUSG00000029321	Slc10a6	8430417G17Rik|C78479|Soat	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	protein-coding	10.5	9.5	7.5	157.0	8.0	1.0	5.0	3.5
Merged-chr3-153566307-4	chr3	153566201	153566401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 1 of 4)	Lx8b|LINE|L1	158832.0	NM_011372	20447.0	Mm.296453	NM_011372	ENSMUSG00000052544	St6galnac3	Siat7c	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 3	protein-coding	68.0	80.5	45.5	1328.0	154.0	49.0	77.0	67.0
Merged-chr17-36058499-1	chr17	36058399	36058599	+	820.75	f0_balb.idr	promoter-TSS (NM_001199967)	promoter-TSS (NM_001199967)	-128.0	NM_001199967	100529082.0	Mm.484641	NM_001199967	ENSMUSG00000079492	Gm11127	-	predicted gene 11127	protein-coding	18.5	13.0	13.5	275.0	8.0	0.0	0.0	4.0
Merged-chr4-130838115-4	chr4	130838017	130838217	+	779.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45580.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	19.5	15.5	9.5	234.5	21.5	4.5	10.5	6.0
Merged-chr7-126792544-4	chr7	126792455	126792655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360464)	promoter-TSS (NM_001360464)	-8.0	NM_019674	56420.0	Mm.41998	NM_019674	ENSMUSG00000030697	Ppp4c	1110002D08Rik|AU016079|PP-X|PP4C|Ppx|pp4	protein phosphatase 4, catalytic subunit	protein-coding	144.5	192.0	87.0	1321.0	308.0	144.0	138.0	110.0
Merged-chr9-57764500-4	chr9	57764386	57764586	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007713, intron 1 of 12)	CpG	1374.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	11.0	20.0	11.5	135.0	51.5	20.5	13.0	16.0
Merged-chr2-128687375-4	chr2	128687268	128687468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008569)	promoter-TSS (NM_008569)	27.0	NM_008569	17222.0	Mm.277408	NM_008569	ENSMUSG00000014355	Anapc1	2610021O03Rik|AI047775|AI853536|AW547281|Apc1|Mcpr|tsg24	anaphase promoting complex subunit 1	protein-coding	25.0	49.0	15.0	412.0	83.0	35.0	26.0	26.0
Merged-chr5-65089818-4	chr5	65089739	65089939	+	639.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17729.0	NM_001347355	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	2.5	10.0	4.0	96.0	17.0	6.5	12.0	6.0
Merged-chr4-141076829-4	chr4	141076755	141076955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149724, intron 1 of 8)	intron (NR_149724, intron 1 of 8)	1502.0	NR_149724	66147.0	Mm.21187	NM_025383	ENSMUSG00000028923	Necap2	1110005F07Rik|AA409105|C78898|NECAP-2	NECAP endocytosis associated 2	protein-coding	45.0	104.0	57.5	818.0	115.0	43.5	61.0	49.5
Merged-chr6-118179762-4	chr6	118179673	118179873	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080780, intron 4 of 18)	intron (NM_001080780, intron 4 of 18)	17971.0	NM_009050	19713.0	Mm.57199	NM_009050	ENSMUSG00000030110	Ret	PTC|RET51|RET9|c-Ret	ret proto-oncogene	protein-coding	24.5	43.0	30.5	520.0	52.5	13.0	21.5	30.5
Merged-chr10-40448187-3	chr10	40448084	40448284	+	760.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291817, intron 4 of 11)	intron (NM_001291817, intron 4 of 11)	98876.0	NM_001291816	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	8.5	4.5	2.0	92.0	9.5	5.0	6.0	8.0
Merged-chr19-34192268-4	chr19	34192172	34192372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360716)	promoter-TSS (NM_001360716)	43.0	NM_029682	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	42.5	63.5	56.0	585.0	119.0	50.5	40.5	47.5
Merged-chr18-67366028-3	chr18	67365928	67366128	+	755.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007702, intron 3 of 4)	L2|LINE|L2	-21925.0	NR_033214	338360.0	Mm.441590	NR_033214	ENSMUSG00000046415	B430212C06Rik	-	RIKEN cDNA B430212C06 gene	ncRNA	9.0	10.5	11.5	150.5	13.5	1.0	6.5	8.0
Merged-chr17-87449055-3	chr17	87448959	87449159	+	874.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2124.0	NM_007589	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	9.5	8.0	8.0	178.0	18.5	0.5	4.0	6.5
Merged-chr17-15812596-4	chr17	15812483	15812683	+	906.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178615, intron 2 of 2)	intron (NM_178615, intron 2 of 2)	14003.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	18.5	12.0	24.5	458.0	51.5	14.5	12.0	10.5
Merged-chr1-9893318-4	chr1	9893218	9893418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133220, intron 17 of 17)	intron (NM_133220, intron 17 of 17)	-15320.0	NM_177722	240697.0	Mm.259800	NM_177722	ENSMUSG00000046101	Mcmdc2	6030422M02Rik	minichromosome maintenance domain containing 2	protein-coding	125.5	201.5	149.5	2906.0	238.5	92.0	103.0	100.0
Merged-chr14-31129051-4	chr14	31128958	31129158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308464)	promoter-TSS (NM_001308464)	-128.0	NM_001308464	66487.0	Mm.379116	NM_001308091	ENSMUSG00000058351	Smim4	2010107H07Rik|Gm41122	small integral membrane protein 4	protein-coding	236.0	328.0	176.0	3067.5	500.5	217.5	220.0	212.0
Merged-chr14-36952376-4	chr14	36952312	36952512	+	832.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027045, intron 1 of 10)	intron (NM_027045, intron 1 of 10)	-11148.0	NM_001347502	72972.0	Mm.27621	NM_027045	ENSMUSG00000058690	Ccser2	1700012P13Rik|2900054P12Rik|AI035535|AW108503|Fam190b|Gcap14	coiled-coil serine rich 2	protein-coding	10.0	13.0	13.0	114.0	24.0	10.0	11.5	11.5
Merged-chr2-11602646-3	chr2	11602543	11602743	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152824, intron 1 of 11)	intron (NM_152824, intron 1 of 11)	556.0	NM_152824	76938.0	Mm.182769	NM_152824	ENSMUSG00000037197	Rbm17	2700027J02Rik	RNA binding motif protein 17	protein-coding	3.5	7.5	28.5	287.5	23.0	10.5	10.5	14.0
Merged-chr12-85394217-4	chr12	85394122	85394322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19505.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	67.0	60.5	57.0	1045.0	107.0	39.5	52.5	59.0
Merged-chr2-32881880-4	chr2	32881718	32881918	+	929.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146119, intron 1 of 13)	intron (NM_146119, intron 1 of 13)	5684.0	NM_146119	227737.0	Mm.301646	NM_146119	ENSMUSG00000026796	Fam129b	9130404D14Rik	family with sequence similarity 129, member B	protein-coding	14.0	15.0	13.0	206.0	16.5	2.5	4.0	10.5
Merged-chr13-23531731-4	chr13	23531626	23531826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153173)	TTS (NM_153173)	682.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	41.0	71.5	63.5	885.0	169.0	42.5	106.5	60.0
Merged-chr9-47651617-4	chr9	47651526	47651726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	121274.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	74.0	124.0	109.0	1685.5	146.5	53.5	79.0	81.0
Merged-chr5-146819628-7	chr5	146819523	146819723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13267.0	NM_019647	19933.0	Mm.316592	NM_019647	ENSMUSG00000041453	Rpl21	8430440E03Rik|L21	ribosomal protein L21	protein-coding	31.5	51.5	38.5	709.0	59.0	25.5	37.0	41.5
Merged-chr11-48817282-6	chr11	48817151	48817351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145377, exon 1 of 6)	5' UTR (NM_145377, exon 1 of 6)	140.0	NM_145377	211007.0	Mm.794	NM_145377	ENSMUSG00000040365	Trim41	AW552703|BC020156|R75223|RINCK	tripartite motif-containing 41	protein-coding	131.0	187.5	189.0	1555.5	215.5	119.5	106.5	146.0
Merged-chr11-105901710-4	chr11	105901601	105901801	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181071, intron 17 of 25)	intron (NM_181071, intron 17 of 25)	42786.0	NM_007805	13056.0	Mm.149403	NM_007805	ENSMUSG00000019590	Cyb561	-	cytochrome b-561	protein-coding	27.5	45.5	24.0	411.5	28.0	2.5	16.0	5.5
Merged-chr16-10991177-4	chr16	10991086	10991286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	1935.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	26.5	41.5	35.5	609.0	105.5	12.5	46.0	29.5
Merged-chr13-107784181-3	chr13	107784086	107784286	+	775.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 3 of 14)	intron (NM_145456, intron 3 of 14)	96789.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	7.0	5.5	8.5	134.0	9.5	3.0	9.0	3.0
Merged-chr3-144568965-4	chr3	144568882	144569082	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355234, intron 1 of 6)	intron (NM_001355234, intron 1 of 6)	1234.0	NM_011828	23908.0	Mm.12863	NM_011828	ENSMUSG00000040151	Hs2st1	2OST|AW214369|Hs2st|mKIAA0448	heparan sulfate 2-O-sulfotransferase 1	protein-coding	11.5	3.0	9.0	138.5	25.5	11.0	12.0	11.0
Merged-chr7-27860585-4	chr7	27860492	27860692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024726)	promoter-TSS (NM_001024726)	7.0	NM_001024726	545938.0	Mm.458180	NM_001024726	ENSMUSG00000020420	Zfp607a	4732475C15Rik|Zfp607	zinc finger protein 607A	protein-coding	52.5	56.0	74.0	732.5	104.0	44.0	67.5	39.0
Merged-chr18-23989566-4	chr18	23989439	23989639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011755)	promoter-TSS (NM_011755)	-95.0	NM_011755	22694.0	Mm.290596	NM_011755	ENSMUSG00000063281	Zfp35	Zfp-35|Znf271|mszf13|mszf20-1|mszf28|mszf68	zinc finger protein 35	protein-coding	59.0	106.0	75.5	1015.0	136.0	59.5	71.0	80.0
Merged-chr2-90522107-4	chr2	90521996	90522196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	MIRb|SINE|MIR	-42922.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	74.0	58.5	53.5	816.5	89.5	37.5	32.5	26.5
Merged-chr15-3995925-4	chr15	3995822	3996022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145930)	promoter-TSS (NM_145930)	-117.0	NR_045740	328489.0	Mm.447020	NR_045740	ENSMUSG00000097662	Gm2093	100039196|A630020A06	predicted gene 2093	ncRNA	380.0	608.5	467.5	5667.0	1165.5	507.5	566.5	417.0
Merged-chr9-62968545-4	chr9	62968449	62968649	+	595.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 1 of 13)	Charlie1a|DNA|hAT-Charlie	12330.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	7.0	14.0	7.5	126.0	23.5	7.5	6.5	11.0
Merged-chr12-100277758-4	chr12	100277666	100277866	+	907.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045741, intron 1 of 3)	intron (NR_045741, intron 1 of 3)	1157.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	6.0	46.0	11.5	262.5	30.5	7.5	10.5	9.5
Merged-chr3-30647848-4	chr3	30647749	30647949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027941)	promoter-TSS (NM_027941)	-31.0	NM_027941	71827.0	Mm.45373	NM_027941	ENSMUSG00000027702	Lrrc34	1700007J06Rik|SPATA34	leucine rich repeat containing 34	protein-coding	34.0	30.5	22.0	359.0	68.5	26.0	32.5	29.5
Merged-chr7-7278300-4	chr7	7278186	7278386	+	973.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003555)	promoter-TSS (NR_003555)	3.0	NR_003555	76229.0	Mm.387947	NM_001113468	ENSMUSG00000095730	Vmn2r29	6430701C03Rik	vomeronasal 2, receptor 29	protein-coding	11.0	20.0	23.0	32.0	76.0	51.0	30.0	50.0
Merged-chr10-86781220-4	chr10	86781138	86781338	+	853.758301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175331, intron 1 of 13)	intron (NM_175331, intron 1 of 13)	2233.0	NM_175331	103466.0	Mm.200446	NM_175331	ENSMUSG00000054027	Nt5dc3	AU040402|AW540062|C630002B14Rik|TU12B1-TY	5'-nucleotidase domain containing 3	protein-coding	12.0	14.5	10.5	273.0	16.5	7.5	14.5	14.0
Merged-chr6-97807472-2	chr6	97807372	97807572	+	934.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	414.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	6.0	13.0	8.0	5.5	25.0	3.5	2.5	5.0
Merged-chr17-74395553-4	chr17	74395437	74395637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144798)	promoter-TSS (NM_144798)	-71.0	NM_001252478	210148.0	Mm.243943	NM_144798	ENSMUSG00000024069	Slc30a6	9530029F08Rik|ZnT6	solute carrier family 30 (zinc transporter), member 6	protein-coding	220.0	234.5	133.5	2585.5	396.0	134.5	166.5	142.5
Merged-chr3-8756619-2	chr3	8756519	8756719	+	956.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89581.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	6.0	5.5	5.5	99.5	9.5	4.5	5.0	11.0
Merged-chr16-38239945-4	chr16	38239840	38240040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347232, intron 11 of 11)	intron (NM_001347232, intron 11 of 11)	54884.0	NM_010936	18171.0	Mm.8509	NM_010936	ENSMUSG00000022809	Nr1i2	PXR|PXR.1|PXR.2|PXR1|SXR|mPXR	nuclear receptor subfamily 1, group I, member 2	protein-coding	35.5	52.5	39.0	951.5	84.5	36.0	31.0	41.0
Merged-chr16-58462095-4	chr16	58462004	58462204	+	775.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356484, intron 13 of 15)	B2_Mm2|SINE|B2	53569.0	NM_028523	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	9.0	6.0	8.0	100.0	26.5	7.0	10.0	5.5
Merged-chr4-136907229-1	chr4	136907129	136907329	+	550.0	f0_balb.idr	Intergenic	Intergenic	-8385.0	NM_007572	12259.0	Mm.439957	NM_007572	ENSMUSG00000036887	C1qa	AI255395|C1q	complement component 1, q subcomponent, alpha polypeptide	protein-coding	7.0	10.0	2.5	76.0	32.5	6.5	6.0	5.0
Merged-chr7-43643319-4	chr7	43643218	43643418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028236, intron 4 of 5)	intron (NM_028236, intron 4 of 5)	8579.0	NM_028236	72431.0	Mm.158821	NM_028236	ENSMUSG00000030472	Ceacam18	2010110O04Rik	carcinoembryonic antigen-related cell adhesion molecule 18	protein-coding	101.0	205.0	132.5	1064.0	336.5	147.5	141.5	113.0
Merged-chr6-54057191-4	chr6	54057054	54057254	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	MIR3|SINE|MIR	17222.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	13.0	9.0	10.5	227.0	30.0	12.5	6.0	8.5
Merged-chr15-98506421-4	chr15	98506336	98506536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8962.0	NM_001001807	258502.0	Mm.377539	NM_001001807	ENSMUSG00000054036	Olfr279	MOR122-1|Olfr234|Olfr234-ps1|Olfr279-ps1	olfactory receptor 279	protein-coding	101.5	106.5	75.5	1212.0	210.5	57.0	101.5	91.5
Merged-chr13-30744664-3	chr13	30744578	30744778	+	900.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4555.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	16.5	9.5	4.5	140.5	14.0	8.5	3.5	11.5
Merged-chr18-35919783-2	chr18	35919683	35919883	+	877.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45047.0	NM_001289602	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	9.5	4.5	5.0	26.0	11.5	8.5	3.5	5.5
Merged-chr13-99093513-4	chr13	99093408	99093608	+	801.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5587.0	NR_045495	69603.0	Mm.390632	NR_045495	ENSMUSG00000100410	2310020H05Rik	-	RIKEN cDNA 2310020H05 gene	ncRNA	7.5	17.0	7.5	108.5	37.0	14.0	17.5	12.5
Merged-chr17-71474801-1	chr17	71474701	71474901	+	949.0	f0_balb.idr	intron (NM_028887, intron 1 of 47)	CpG	542.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	12.5	23.5	13.0	172.5	21.5	15.5	23.5	22.5
Merged-chr11-95347720-3	chr11	95347593	95347793	+	782.650024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172543, intron 1 of 7)	intron (NM_172543, intron 1 of 7)	10675.0	NM_172543	215512.0	Mm.262113	NM_172543	ENSMUSG00000038893	Fam117a	5730593F17Rik|AW548096	family with sequence similarity 117, member A	protein-coding	7.0	10.5	6.0	95.0	9.5	6.5	4.0	12.5
Merged-chr9-35166331-4	chr9	35166233	35166433	+	644.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027030, intron 2 of 5)	intron (NM_027030, intron 2 of 5)	9654.0	NM_027030	69305.0	Mm.229110	NM_027030	ENSMUSG00000032040	Dcps	1700001E16Rik|AA408441	decapping enzyme, scavenger	protein-coding	7.5	13.5	3.0	101.5	24.0	8.5	13.0	5.5
Merged-chr6-54971825-3	chr6	54971689	54971889	+	851.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001171007)	promoter-TSS (NM_001171007)	-128.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	11.0	3.5	2.0	42.0	13.0	4.5	6.5	10.5
Merged-chr3-96239133-4	chr3	96239020	96239220	+	927.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178216)	promoter-TSS (NM_178216)	7.0	NM_054045	97114.0	Mm.358797	NM_054045	ENSMUSG00000081058	Hist2h3c2	H3-614|H3.2-614|Hist2h3c2-ps|Hist2h3ca1|M32461	histone cluster 2, H3c2	protein-coding	49.5	101.5	33.0	268.5	59.0	28.5	26.5	11.5
Merged-chr19-61265510-4	chr19	61265418	61265618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37100.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	139.0	158.0	91.0	1833.0	267.5	76.0	120.0	95.0
Merged-chr2-180920096-4	chr2	180919963	180920163	+	858.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173761, intron 2 of 4)	intron (NM_173761, intron 2 of 4)	873.0	NM_173761	228994.0	Mm.30205	NM_173761	ENSMUSG00000038848	Ythdf1	2210410K23Rik|8030473O16	YTH domain family 1	protein-coding	10.5	9.5	14.5	171.5	28.5	11.5	9.0	10.5
Merged-chr3-126663589-4	chr3	126663461	126663661	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	66610.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	29.5	17.0	37.0	651.0	34.0	15.0	13.5	21.0
Merged-chr1-120121191-4	chr1	120121121	120121321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172074)	promoter-TSS (NM_001172074)	34.0	NM_001172074	73103.0	Mm.271602	NM_028439	ENSMUSG00000026388	3110009E18Rik	-	RIKEN cDNA 3110009E18 gene	protein-coding	110.0	181.0	135.0	1924.0	385.0	146.0	189.5	126.0
Merged-chr14-54518756-4	chr14	54518653	54518853	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1283.0	NM_001313907	27374.0	Mm.196585	NM_013768	ENSMUSG00000023110	Prmt5	Jbp1|Skb1	protein arginine N-methyltransferase 5	protein-coding	26.0	40.0	25.5	859.5	61.5	16.5	29.0	23.5
Merged-chr9-103996699-4	chr9	103996616	103996816	+	742.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5828.0	NM_028721	74025.0	Mm.479273	NM_028721	ENSMUSG00000032558	Nphp3	3632410F03Rik|AI550417|C230078J01|D330020E01Rik|pcy	nephronophthisis 3 (adolescent)	protein-coding	7.0	13.5	7.0	107.0	33.0	8.5	14.5	17.0
Merged-chr2-29054036-7	chr2	29053941	29054141	+	905.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166705, intron 1 of 5)	intron (NM_001166705, intron 1 of 5)	1025.0	NM_001166705	329375.0	Mm.425079	NM_001085514	ENSMUSG00000079502	Cfap77	1700101E01Rik|Gm823	cilia and flagella associated protein 77	protein-coding	12.0	4.0	1.0	53.0	20.5	6.0	12.5	5.0
Merged-chr6-119401715-4	chr6	119401640	119401840	+	762.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197985, intron 1 of 7)	MTD|LTR|ERVL-MaLR	-13006.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	13.0	18.0	14.0	142.0	31.5	5.5	10.5	7.5
Merged-chr18-5740605-4	chr18	5740462	5740662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360982, intron 2 of 7)	L1MD2|LINE|L1	147915.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	62.5	163.5	82.0	592.5	200.5	58.0	120.0	66.0
Merged-chr1-61181288-3	chr1	61181190	61181390	+	807.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-197142.0	NR_040483	77341.0	Mm.402964	NR_040483	ENSMUSG00000085447	9530026F06Rik	-	RIKEN cDNA 9530026F06 gene	ncRNA	11.0	19.0	9.0	224.0	19.0	9.5	5.5	8.5
Merged-chr10-14178936-1	chr10	14178836	14179036	+	910.0	f0_balb.idr	Intergenic	Intergenic	212557.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	12.5	7.5	17.0	188.0	6.0	3.0	1.0	5.5
Merged-chr8-57433024-4	chr8	57432917	57433117	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22906.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	20.5	28.0	29.5	421.0	28.0	14.0	30.5	24.0
Merged-chr1-186182750-3	chr1	186182645	186182845	+	958.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65435.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	17.5	13.5	15.0	173.0	6.0	1.0	1.0	3.0
Merged-chr13-113610347-3	chr13	113610233	113610433	+	726.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	MTEa|LTR|ERVL-MaLR	8231.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	9.5	20.0	6.5	75.5	18.5	10.5	6.0	2.0
Merged-chr4-151934496-2	chr4	151934396	151934596	+	733.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172704, intron 1 of 15)	CpG	776.0	NM_172704	230935.0	Mm.21353	NM_172704	ENSMUSG00000039768	Dnajc11	E030019A03Rik	DnaJ heat shock protein family (Hsp40) member C11	protein-coding	5.0	3.0	6.5	100.0	11.5	4.5	9.5	9.0
Merged-chr11-11668497-4	chr11	11668397	11668597	+	950.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17428.0	NM_009578	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	12.5	17.0	20.0	280.0	36.5	10.0	20.5	16.5
Merged-chr10-39613175-4	chr10	39613127	39613327	+	976.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_134000, exon 1 of 9)	5' UTR (NM_134000, exon 1 of 9)	293.0	NM_134000	103213.0	Mm.436686	NM_134000	ENSMUSG00000019842	Traf3ip2	AI429613|Act1|CIKS	TRAF3 interacting protein 2	protein-coding	15.5	23.5	21.0	212.0	25.0	12.0	18.0	21.0
Merged-chr1-91414230-5	chr1	91414166	91414366	+	833.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360900)	promoter-TSS (NM_001360900)	-228.0	NM_001360900	55927.0	Mm.280029	NM_019479	ENSMUSG00000067071	Hes6	AI326893|bHLHb41	hairy and enhancer of split 6	protein-coding	6.0	4.5	5.5	126.0	10.0	3.0	8.0	9.5
Merged-chr3-148867776-1	chr3	148867676	148867876	+	765.0	f0_balb.idr	intron (NM_001081298, intron 2 of 23)	intron (NM_001081298, intron 2 of 23)	86859.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	2.0	11.5	8.5	119.5	7.5	5.0	6.5	8.5
Merged-chr2-118601431-3	chr2	118601321	118601521	+	766.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009773, intron 2 of 22)	intron (NM_009773, intron 2 of 22)	3210.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	3.0	3.5	10.0	13.0	34.5	13.5	14.0	8.0
Merged-chr13-34991696-4	chr13	34991597	34991797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110331, intron 2 of 9)	MER77B|LTR|ERVL	2447.0	NM_011868	23986.0	Mm.491141	NM_011868	ENSMUSG00000021417	Eci2	Acbd2|Drs1|Hca88|Peci	enoyl-Coenzyme A delta isomerase 2	protein-coding	26.0	58.5	15.0	448.0	122.5	33.5	39.0	38.5
Merged-chr2-32570853-4	chr2	32570767	32570967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010073)	promoter-TSS (NM_010073)	9.0	NM_010073	13481.0	Mm.22001	NM_010073	ENSMUSG00000026810	Dpm2	AW557993|R75484	dolichol-phosphate (beta-D) mannosyltransferase 2	protein-coding	82.5	98.0	47.0	783.0	167.0	69.0	65.5	60.5
Merged-chr13-110394434-4	chr13	110394360	110394560	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152804)	promoter-TSS (NM_152804)	-584.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	46.0	72.0	67.0	770.0	126.5	62.0	70.0	64.0
Merged-chr2-73892143-4	chr2	73892045	73892245	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025093, intron 1 of 14)	CpG	494.0	NM_001284371	11909.0	Mm.209903	NM_009715	ENSMUSG00000027104	Atf2	Atf-2|CRE-BP|Creb2|D130078H02Rik|D18875|Tg(Gzma-Klra1)7Wum|mXBP	activating transcription factor 2	protein-coding	7.0	12.0	15.0	125.0	36.0	5.0	15.5	24.0
Merged-chr6-71632286-3	chr6	71632186	71632386	+	954.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362200, intron 1 of 25)	CpG	400.0	NM_173001	104263.0	Mm.260479	NM_173001	ENSMUSG00000053470	Kdm3a	1700105C21Rik|C230043E16Rik|JHDM2a|Jmjd1|Jmjd1a|KDM2A|TGSA|Tsga	lysine (K)-specific demethylase 3A	protein-coding	13.5	16.0	29.5	278.5	35.5	9.5	18.0	15.0
Merged-chr16-37868329-4	chr16	37868234	37868434	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177093)	promoter-TSS (NM_177093)	-66.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	71.0	123.0	44.0	975.0	252.5	105.0	107.5	103.5
Merged-chr4-95250303-4	chr4	95250220	95250420	+	891.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-198098.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	8.0	11.0	8.5	185.5	11.0	4.5	16.0	22.0
Merged-chr14-73445677-4	chr14	73445594	73445794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60405.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	98.5	204.0	122.5	1211.0	240.5	61.5	102.0	49.0
Merged-chr11-17005707-4	chr11	17005608	17005808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	intron (NM_019549, intron 1 of 9)	3010.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	24.0	25.0	23.0	308.5	50.0	25.0	19.5	34.0
Merged-chr15-31530557-1	chr15	31530457	31530657	+	1000.0	f0_balb.idr	intron (NM_172606, intron 1 of 25)	CpG	480.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	18.0	28.0	14.0	271.5	40.0	13.0	14.0	24.5
Merged-chr9-116175774-4	chr9	116175669	116175869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009371)	promoter-TSS (NM_009371)	-406.0	NM_029575	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	21.5	20.5	31.5	410.0	43.0	14.0	18.5	24.0
Merged-chr12-85534456-6	chr12	85534355	85534555	+	822.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60565.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	6.5	3.0	14.0	150.5	27.0	9.5	7.0	5.5
Merged-chr13-49188123-4	chr13	49188030	49188230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	583.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	219.0	458.0	297.5	3573.0	642.5	279.0	325.5	257.5
Merged-chr2-170164329-4	chr2	170164203	170164403	+	943.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21628.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	7.5	10.5	7.0	103.0	39.5	16.0	8.0	13.5
Merged-chr6-118455187-4	chr6	118455081	118455281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361901, intron 1 of 5)	CpG	325.0	NM_028335	72720.0	Mm.212572	NM_028335	ENSMUSG00000030145	Zfp248	2810037F07Rik|E130106N01Rik	zinc finger protein 248	protein-coding	47.5	80.0	38.0	757.5	73.0	32.5	43.5	28.5
Merged-chr3-152895144-4	chr3	152895031	152895231	+	938.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012028, intron 2 of 4)	intron (NM_012028, intron 2 of 4)	87076.0	NM_012028	26938.0	Mm.40915	NM_012028	ENSMUSG00000039037	St6galnac5	AI851940|Siat7e	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	protein-coding	17.5	18.0	17.0	222.5	40.5	18.5	20.0	25.0
Merged-chr8-70682951-4	chr8	70682859	70683059	+	851.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9728.0	NM_015816	50783.0	Mm.248188	NM_015816	ENSMUSG00000031848	Lsm4	-	LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	13.5	9.5	10.5	115.5	26.5	8.0	16.5	7.5
Merged-chr14-21757008-1	chr14	21756908	21757108	+	571.0	f0_c57.idr	intron (NM_001359953, intron 1 of 5)	B4A|SINE|B4	5456.0	NM_001359953	67630.0	Mm.102765	NM_026283	ENSMUSG00000021770	Samd8	1110053F04Rik|1700010P07Rik|SMSr	sterile alpha motif domain containing 8	protein-coding	1.0	0.0	1.0	0.5	17.5	6.5	5.0	11.5
Merged-chr2-18202050-1	chr2	18201950	18202150	+	561.0	f0_balb.idr	intron (NM_010804, intron 16 of 22)	intron (NM_010804, intron 16 of 22)	137465.0	NM_001252561	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	5.0	6.5	8.5	73.5	9.5	6.5	8.5	1.0
Merged-chr14-120262928-4	chr14	120262843	120263043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-12726.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	59.5	150.0	98.5	962.5	218.5	64.0	63.0	60.5
Merged-chr18-34506892-4	chr18	34506787	34506987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146084)	promoter-TSS (NM_146084)	-64.0	NM_146084	225358.0	Mm.226899	NM_146084	ENSMUSG00000036501	Fam13b	2610024E20Rik|AW060714|AW546153	family with sequence similarity 13, member B	protein-coding	120.5	169.5	68.5	1645.5	250.0	106.0	167.5	100.5
Merged-chr12-110447014-4	chr12	110446939	110447139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135001)	promoter-TSS (NM_001135001)	-140.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	121.0	163.5	58.5	1050.0	314.5	99.5	153.0	81.5
Merged-chr10-88334132-4	chr10	88334034	88334234	+	958.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 4 of 6)	intron (NM_027878, intron 4 of 6)	22941.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	14.0	20.0	7.0	257.0	54.0	14.5	18.0	14.0
Merged-chr17-69384030-11	chr17	69383933	69384133	+	999.4545289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009547, exon 1 of 3)	5' UTR (NM_009547, exon 1 of 3)	229.0	NM_009547	22666.0	Mm.29434	NM_009547	ENSMUSG00000049672	Zbtb14	ZF5|Zfp161|b2b1982Clo	zinc finger and BTB domain containing 14	protein-coding	30.5	36.0	46.5	420.0	62.0	26.5	13.0	28.5
Merged-chr18-46298840-4	chr18	46298736	46298936	+	953.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160399, intron 2 of 9)	Lx8|LINE|L1	13092.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	16.5	15.0	7.5	277.5	38.5	26.5	19.5	18.0
Merged-chr14-55590194-4	chr14	55590099	55590299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029855, intron 2 of 10)	MIR3|SINE|MIR	822.0	NM_011190	19188.0	Mm.371573	NM_011190	ENSMUSG00000079197	Psme2	AA589371|AI788882|PA28b	proteasome (prosome, macropain) activator subunit 2 (PA28 beta)	protein-coding	24.0	35.0	21.0	173.0	79.5	25.0	24.0	26.0
Merged-chr8-124290990-1	chr8	124290890	124291090	+	798.5	f0_balb.idr	intron (NM_139272, intron 1 of 15)	intron (NM_139272, intron 1 of 15)	59596.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	7.5	6.0	17.5	172.5	0.0	0.0	0.0	2.5
Merged-chr5-64806305-4	chr5	64806194	64806394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	2771.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	100.0	142.5	102.5	1973.0	177.0	82.0	79.0	84.0
Merged-chr9-21510193-4	chr9	21510158	21510358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001324510)	promoter-TSS (NM_001324510)	-24.0	NR_136911	17083.0	Mm.196618	NM_010744	ENSMUSG00000032180	Tmed1	Il1rl1l|Ly84l|St2l	transmembrane p24 trafficking protein 1	protein-coding	99.5	165.5	73.5	1129.0	220.5	100.5	125.5	88.0
Merged-chr15-28159111-4	chr15	28158991	28159191	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44675.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	39.0	31.5	28.5	460.5	41.0	14.5	40.5	20.0
Merged-chr3-65002784-1	chr3	65002684	65002884	+	543.0	f0_balb.idr	intron (NM_001357358, intron 1 of 13)	intron (NM_001357358, intron 1 of 13)	53572.0	NM_001357358	16497.0	Mm.316402	NM_010597	ENSMUSG00000027827	Kcnab1	Akr8a8|Kvbeta1.1|mKv(beta)1	potassium voltage-gated channel, shaker-related subfamily, beta member 1	protein-coding	4.5	8.0	8.0	70.5	5.0	2.0	5.0	9.0
Merged-chr7-83858162-4	chr7	83858040	83858240	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3A|LINE|L1	26201.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	30.0	51.0	47.5	831.0	89.0	25.0	52.5	45.5
Merged-chr16-11455925-4	chr16	11455857	11456057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 13 of 20)	intron (NM_028964, intron 13 of 20)	50309.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	61.0	50.5	66.5	1078.0	146.0	81.0	80.0	61.0
Merged-chr4-41563566-3	chr4	41563455	41563655	+	996.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027993, intron 1 of 5)	intron (NM_027993, intron 1 of 5)	5972.0	NM_001159583	71901.0	Mm.39215	NM_027993	ENSMUSG00000028439	Fam219a	2310028H24Rik	family with sequence similarity 219, member A	protein-coding	0.0	2.0	3.0	49.0	55.0	21.5	17.0	20.5
Merged-chr19-46304647-4	chr19	46304516	46304716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177369)	promoter-TSS (NM_001177369)	-121.0	NM_001177369	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	239.0	427.5	269.5	2663.5	533.0	249.5	230.0	239.5
Merged-chr7-116607073-8	chr7	116606969	116607169	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	102700.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	7.0	7.0	3.5	66.0	12.0	7.5	7.0	18.0
Merged-chr2-3414435-2	chr2	3414335	3414535	+	928.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355205, intron 1 of 3)	B3A|SINE|B2	4162.0	NM_001355210	104362.0	Mm.2688	NM_008579	ENSMUSG00000026650	Meig1	MLZ-278|Meg1	meiosis expressed gene 1	protein-coding	7.5	3.0	4.0	20.5	7.5	6.5	6.5	6.5
Merged-chr12-88361335-4	chr12	88361233	88361433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361598, intron 1 of 9)	MER5A|DNA|hAT-Charlie	551.0	NM_001361598	72113.0	Mm.181387	NM_028105	ENSMUSG00000021044	Adck1	2610005A10Rik	aarF domain containing kinase 1	protein-coding	31.5	35.0	39.0	650.5	73.0	29.5	28.0	48.0
Merged-chr16-91851835-7	chr16	91851715	91851915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 21 of 28)	intron (NM_001110275, intron 21 of 28)	79815.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	34.5	32.5	41.5	466.0	46.5	24.0	25.0	54.5
Merged-chr1-128713052-4	chr1	128712952	128713152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120753.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	165.5	274.5	197.5	3360.0	423.5	141.5	164.5	134.5
Merged-chr4-143210901-3	chr4	143210795	143210995	+	686.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001256380, intron 1 of 7)	intron (NM_001256380, intron 1 of 7)	1814.0	NM_001081355	110593.0	Mm.332020	NM_001081355	ENSMUSG00000057637	Prdm2	4833427P12Rik|E330024L24Rik|Gm1033|Gm19732|KMT8|Riz|Riz1|Znfpr1c1	PR domain containing 2, with ZNF domain	protein-coding	3.0	10.5	3.0	91.5	13.5	4.5	5.5	4.5
Merged-chr9-36797356-4	chr9	36797259	36797459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199494)	promoter-TSS (NM_001199494)	34.0	NM_001199494	13663.0	Mm.4337	NM_007915	ENSMUSG00000062762	Ei24	AA536736|AI115355|PIG8	etoposide induced 2.4 mRNA	protein-coding	88.5	86.5	85.0	1142.5	163.0	50.5	100.0	79.5
Merged-chr6-140594072-4	chr6	140593976	140594176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_144920, exon 31 of 31)	3' UTR (NM_144920, exon 31 of 31)	-28587.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	23.5	22.5	24.5	370.5	53.5	22.5	31.0	27.0
Merged-chr7-88207612-4	chr7	88207504	88207704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70481.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	42.5	51.0	77.0	1079.5	144.5	33.0	40.0	34.5
Merged-chr4-111720517-4	chr4	111720403	111720603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026470, intron 1 of 12)	intron (NM_026470, intron 1 of 12)	493.0	NM_026470	67946.0	Mm.275526	NM_026470	ENSMUSG00000034401	Spata6	1700062C23Rik|AI790763|Hash|KRP|Mash	spermatogenesis associated 6	protein-coding	91.0	104.5	98.0	1218.0	248.0	110.5	120.0	82.0
Merged-chr6-35133829-4	chr6	35133733	35133933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164411)	promoter-TSS (NM_001164411)	-96.0	NM_001164414	53621.0	Mm.214525	NM_016877	ENSMUSG00000038784	Cnot4	Not4|Not4h|Not4hp	CCR4-NOT transcription complex, subunit 4	protein-coding	422.5	515.5	379.0	6017.0	774.5	329.0	404.0	325.5
Merged-chr15-84184181-4	chr15	84184065	84184265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054088, intron 7 of 7)	intron (NM_054088, intron 7 of 7)	-8068.0	NM_178614	68653.0	Mm.290725	NM_178614	ENSMUSG00000022437	Samm50	1110030L07Rik	SAMM50 sorting and assembly machinery component	protein-coding	19.5	28.5	38.0	453.5	74.5	29.0	51.0	33.0
Merged-chr4-126255641-4	chr4	126255552	126255752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145970, intron 1 of 16)	intron (NM_001145970, intron 1 of 16)	667.0	NM_144941	245877.0	Mm.266716	NM_144941	ENSMUSG00000028849	Map7d1	AV028413|BC019977|Mtap7d1|Parcc1|Rprc1|mKIAA1187	MAP7 domain containing 1	protein-coding	15.5	44.0	20.0	178.0	74.0	24.5	24.5	34.5
Merged-chr11-116643440-4	chr11	116643326	116643526	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10887.0	NM_030206	114886.0	Mm.34598	NM_030206	ENSMUSG00000020810	Cygb	3110001K20Rik|HGb|Staap	cytoglobin	protein-coding	18.5	27.0	7.0	146.5	46.5	9.0	15.0	22.0
Merged-chr18-83815820-4	chr18	83815728	83815928	+	919.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	270734.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	12.0	8.0	14.0	197.5	41.0	7.5	13.0	5.5
Merged-chr1-74258837-3	chr1	74258740	74258940	+	873.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 7 of 10)	U6|snRNA|snRNA	-19760.0	NM_174985	227289.0	Mm.246587	NM_174985	ENSMUSG00000064272	Gpbar1	BG37|GPCR|GPR131|M-BAR|TGR5	G protein-coupled bile acid receptor 1	protein-coding	3.0	6.0	15.0	140.0	19.5	7.0	9.5	9.5
Merged-chr7-122705997-4	chr7	122705904	122706104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019430, intron 1 of 3)	L1M2|LINE|L1	34260.0	NM_019430	54376.0	Mm.444212	NM_019430	ENSMUSG00000066189	Cacng3	-	calcium channel, voltage-dependent, gamma subunit 3	protein-coding	30.0	35.0	24.0	445.0	71.0	22.0	47.0	35.0
Merged-chr7-112225798-4	chr7	112225721	112225921	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177282)	promoter-TSS (NM_177282)	-15.0	NM_177282	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	117.5	165.0	111.5	2171.5	112.5	44.0	74.5	55.0
Merged-chr2-133499051-4	chr2	133498939	133499139	+	874.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53120.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	5.5	10.0	3.0	144.0	20.5	5.0	11.5	9.5
Merged-chr2-11535585-4	chr2	11535471	11535671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	CpG	18358.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	138.0	196.5	112.5	2055.5	314.5	120.5	152.5	154.5
Merged-chr7-28436489-4	chr7	28436407	28436607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022024)	promoter-TSS (NM_022024)	-316.0	NM_175021	233033.0	Mm.54120	NM_175021	ENSMUSG00000109336	Samd4b	BC042901	sterile alpha motif domain containing 4B	protein-coding	403.5	605.0	344.0	5286.0	982.0	402.5	560.5	387.0
Merged-chr10-17215209-4	chr10	17215105	17215305	+	953.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119423.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	29.0	17.0	17.0	397.5	50.5	14.5	29.0	25.0
Merged-chr4-107277079-4	chr4	107276956	107277156	+	851.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355460, intron 4 of 5)	intron (NM_001355460, intron 4 of 5)	23153.0	NM_028394	72938.0	Mm.21787	NM_028394	ENSMUSG00000063172	Hspb11	2900042B11Rik|IFT25|PP25	heat shock protein family B (small), member 11	protein-coding	17.5	10.5	9.0	158.5	19.5	6.5	9.5	8.0
Merged-chr5-24077494-4	chr5	24077405	24077605	+	797.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23085.0	NM_026448	52323.0	Mm.273768	NM_026448	ENSMUSG00000028986	Klhl7	2700038B03Rik|D5Ertd363e|SBBI26	kelch-like 7	protein-coding	11.5	12.0	6.5	127.0	29.0	5.0	17.0	9.5
Merged-chr18-69365359-4	chr18	69365250	69365450	+	660.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 3 of 19)	(T)n|Simple_repeat|Simple_repeat	19190.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	7.5	6.5	7.5	228.0	12.0	10.0	16.0	4.5
Merged-chr6-90604788-4	chr6	90604682	90604882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027868)	promoter-TSS (NM_027868)	-98.0	NM_027868	71699.0	Mm.272633	NM_027868	ENSMUSG00000030089	Slc41a3	1010001P06Rik|AI480742|SLC41A1-L2	solute carrier family 41, member 3	protein-coding	151.0	293.0	241.5	2575.5	535.0	219.5	280.0	224.0
Merged-chr1-180924906-2	chr1	180924806	180925006	+	605.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10116.0	NM_010094	13590.0	Mm.378911	NM_010094	ENSMUSG00000038793	Lefty1	AI450052|Ebaf|Leftb|Stra3|Tgfb4|lefty|lefty-1	left right determination factor 1	protein-coding	3.0	3.0	2.5	31.5	15.5	9.5	8.5	8.5
Merged-chr5-135149137-2	chr5	135149037	135149237	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_013763)	promoter-TSS (NM_013763)	-574.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	169.0	288.0	117.0	1937.5	418.5	181.5	189.5	159.0
Merged-chr12-76191166-4	chr12	76191070	76191270	+	891.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13911.0	NR_104386	13983.0	Mm.2561	NM_010157	ENSMUSG00000021055	Esr2	ER[b]|ERbeta|Estrb	estrogen receptor 2 (beta)	protein-coding	10.0	25.5	8.0	197.0	32.5	11.0	14.0	16.5
Merged-chr15-90680160-4	chr15	90680054	90680254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025815)	promoter-TSS (NM_025815)	-766.0	NM_001357979	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	53.5	87.0	35.5	562.0	123.5	30.0	49.0	42.5
Merged-chr8-34065453-3	chr8	34065351	34065551	+	948.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	42363.0	NM_001293758	22428.0	Mm.150373	NM_011722	ENSMUSG00000031516	Dctn6	AU044699|WS-3|p27	dynactin 6	protein-coding	13.0	22.0	17.0	420.0	17.0	3.5	10.5	3.0
Merged-chr9-56417661-4	chr9	56417556	56417756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025812)	promoter-TSS (NM_025812)	394.0	NM_172924	244895.0	Mm.490331	NM_172924	ENSMUSG00000074305	Peak1	1110049L02Rik|9530046P14|AA690169|BE132841|C230081A13Rik|SGK269|mKIAA2002	pseudopodium-enriched atypical kinase 1	protein-coding	46.0	83.5	31.0	500.5	106.0	59.0	53.0	44.0
Merged-chr3-109273276-4	chr3	109273196	109273396	+	766.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67387.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	13.0	10.5	4.5	108.0	30.0	13.5	5.0	12.0
Merged-chr1-189675572-3	chr1	189675487	189675687	+	730.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081363, intron 7 of 17)	intron (NM_001081363, intron 7 of 17)	12499.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	4.5	8.0	7.5	80.0	9.5	4.0	2.0	1.5
Merged-chr1-131360954-4	chr1	131360851	131361051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 5 of 22)	intron (NM_001081011, intron 5 of 22)	-81388.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	60.0	109.0	58.0	1020.0	91.0	22.5	24.0	33.0
Merged-chr7-130621420-4	chr7	130621310	130621510	+	831.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_206856, intron 2 of 20)	B4|SINE|B4	43926.0	NM_206856	57752.0	Mm.86322	NM_021314	ENSMUSG00000030852	Tacc2	mKIAA4180	transforming, acidic coiled-coil containing protein 2	protein-coding	3.0	22.0	11.0	78.0	20.0	7.5	9.0	7.5
Merged-chr19-17130628-3	chr19	17130548	17130748	+	720.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	intron (NM_181348, intron 9 of 19)	174530.0	NM_181348	353211.0	Mm.257354	NM_181348	ENSMUSG00000039126	Prune2	6330414G02Rik|A230083H22Rik|A330102H22Rik|Bmcc1|mKIAA0367	prune homolog 2	protein-coding	10.0	5.0	6.0	112.0	13.5	4.0	5.5	8.5
Merged-chr10-59268258-4	chr10	59268151	59268351	+	986.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	46329.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	19.5	32.0	18.0	199.0	73.5	15.0	24.0	20.0
Merged-chr2-6335537-4	chr2	6335441	6335641	+	977.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080548, intron 1 of 14)	intron (NM_001080548, intron 1 of 14)	12784.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	24.5	18.0	26.0	603.0	56.0	17.5	24.0	20.0
Merged-chr3-97238683-4	chr3	97238575	97238775	+	951.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-11311.0	NM_029933	77578.0	Mm.226175	NM_029933	ENSMUSG00000038256	Bcl9	2610202E01Rik|8030475K17Rik|A330041G23Rik|Gm130	B cell CLL/lymphoma 9	protein-coding	12.0	19.0	12.0	250.5	42.0	19.0	15.5	28.5
Merged-chr3-59212558-4	chr3	59212503	59212703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	-1721.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	56.5	83.5	29.0	775.0	134.5	44.5	47.0	34.0
Merged-chr13-69655569-1	chr13	69655469	69655669	+	552.0	f0_balb.idr	Intergenic	Lx6|LINE|L1	43553.0	NM_145354	28114.0	Mm.260009	NM_145354	ENSMUSG00000021595	Nsun2	D13Wsu123e|Misu	NOL1/NOP2/Sun domain family member 2	protein-coding	8.5	5.0	6.0	74.0	3.0	1.5	5.5	5.0
Merged-chr12-64967378-1	chr12	64967278	64967478	+	549.0	f0_balb.idr	exon (NM_177805, exon 1 of 20)	exon (NM_177805, exon 1 of 20)	1636.0	NM_177805	328108.0	Mm.138465	NM_177805	ENSMUSG00000035614	Togaram1	A430041B07Rik|BC062107|C130034K06|Fam179b|mKIAA0423	TOG array regulator of axonemal microtubules 1	protein-coding	4.5	10.5	16.5	72.5	17.5	5.5	3.5	6.0
Merged-chr10-115314507-4	chr10	115314414	115314614	+	833.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024454, intron 1 of 6)	intron (NM_024454, intron 1 of 6)	1077.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	1.5	8.5	11.0	159.5	20.0	9.5	9.5	17.5
Merged-chr9-78176645-4	chr9	78176544	78176744	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040401, exon 2 of 4)	non-coding (NR_040401, exon 2 of 4)	730.0	NR_040401	320295.0	Mm.131285	NR_040401	ENSMUSG00000097574	C920006O11Rik	-	RIKEN cDNA C920006O11 gene	ncRNA	12.5	17.5	13.0	274.5	84.5	28.0	34.5	25.5
Merged-chr8-122830587-4	chr8	122830492	122830692	+	867.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17782.0	NM_007662	12555.0	Mm.1976	NM_007662	ENSMUSG00000031962	Cdh15	AI323380|Cdh14|Mcad	cadherin 15	protein-coding	7.5	10.5	0.5	157.5	30.0	18.5	13.0	29.5
Merged-chr14-120342127-3	chr14	120342030	120342230	+	760.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	intron (NM_001360376, intron 2 of 8)	35678.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	7.0	10.5	10.0	133.5	18.5	8.0	18.0	6.0
Merged-chr2-91183307-4	chr2	91183211	91183411	+	950.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145527)	promoter-TSS (NM_145527)	-264.0	NM_145527	228355.0	Mm.36410	NM_145527	ENSMUSG00000040687	Madd	9630059K23Rik|IG20	MAP-kinase activating death domain	protein-coding	18.5	25.0	15.5	223.0	31.5	10.5	26.0	23.0
Merged-chr11-118360784-3	chr11	118360688	118360888	+	797.488892	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5377.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	10.0	11.5	12.0	141.5	15.5	0.5	5.5	5.0
Merged-chr17-48185436-4	chr17	48185335	48185535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-18178.0	NM_178796	328830.0	Mm.470939	NM_178796	ENSMUSG00000043939	A530064D06Rik	Trem4|pdctrem	RIKEN cDNA A530064D06 gene	protein-coding	111.0	146.0	103.5	1335.0	232.0	108.5	125.5	75.5
Merged-chr14-31394149-4	chr14	31394042	31394242	+	918.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	23535.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	12.5	10.5	23.5	287.5	29.5	15.0	13.0	12.0
Merged-chr7-114072146-4	chr7	114072078	114072278	+	783.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	45603.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	8.0	9.0	2.5	65.0	35.0	13.0	8.0	5.0
Merged-chr15-77839672-6	chr15	77839598	77839798	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 1 of 40)	intron (NM_022410, intron 1 of 40)	2477.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	5.0	6.5	7.5	132.5	37.5	9.0	8.0	14.0
Merged-chr11-75510805-4	chr11	75510725	75510925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001029938, exon 4 of 8)	exon (NM_001029938, exon 4 of 8)	731.0	NM_001029938	280408.0	Mm.41416	NM_001029938	ENSMUSG00000038195	Rilp	AI835553|Gm857	Rab interacting lysosomal protein	protein-coding	93.0	117.0	50.5	767.0	177.0	85.0	79.0	119.5
Merged-chr2-49472874-3	chr2	49472769	49472969	+	909.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172663, intron 1 of 13)	ORR1D2|LTR|ERVL-MaLR	21383.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	9.5	13.0	7.0	104.5	28.5	1.5	6.5	7.0
Merged-chr17-69157548-4	chr17	69157421	69157621	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013813, intron 1 of 21)	CpG	777.0	NM_013813	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	14.5	33.0	34.0	382.5	41.5	13.0	13.0	24.5
Merged-chr2-33887257-4	chr2	33887152	33887352	+	902.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175184, intron 1 of 9)	CpG	694.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	10.0	14.5	15.5	159.5	21.0	18.0	12.0	14.5
Merged-chr14-93697867-4	chr14	93697791	93697991	+	842.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081377, intron 2 of 4)	intron (NM_001081377, intron 2 of 4)	192778.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	13.0	17.0	30.5	465.5	21.0	11.0	5.5	1.5
Merged-chr15-83561306-4	chr15	83561231	83561431	+	954.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-2242.0	NM_009775	12257.0	Mm.1508	NM_009775	ENSMUSG00000041736	Tspo	Bzrp|IBP|PBR|Tspo1	translocator protein	protein-coding	22.5	32.5	17.5	369.0	31.5	22.0	16.5	20.0
Merged-chr6-116227878-4	chr6	116227783	116227983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026585, intron 15 of 30)	intron (NM_026585, intron 15 of 30)	19850.0	NM_026585	28006.0	Mm.28524	NM_026585	ENSMUSG00000024104	Washc2	A130095H06|C530005J20Rik|D6Wsu116e|Fam21	WASH complex subunit 2	protein-coding	57.5	87.0	47.0	949.5	101.0	32.5	59.0	41.5
Merged-chr9-65533081-4	chr9	65532936	65533136	+	997.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47051.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	12.5	21.5	19.0	207.0	110.0	21.5	19.0	25.5
Merged-chr13-97607332-4	chr13	97607234	97607434	+	982.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47334.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	18.0	21.0	20.5	341.0	68.5	25.0	31.0	20.5
Merged-chr19-29487549-5	chr19	29487433	29487633	+	943.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34454.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	5.5	5.5	5.0	119.5	15.5	8.0	8.0	1.5
Merged-chr10-10132766-4	chr10	10132676	10132876	+	887.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-231736.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	39.0	21.5	38.0	685.0	28.0	10.0	18.0	7.5
Merged-chr4-99100918-4	chr4	99100800	99101000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026082, intron 1 of 47)	intron (NM_026082, intron 1 of 47)	20015.0	NM_001290636	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	22.0	29.0	23.5	538.0	64.0	17.0	21.5	26.0
Merged-chr9-113783919-4	chr9	113783826	113784026	+	820.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 6 of 39)	intron (NM_001114347, intron 6 of 39)	-9404.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	14.5	16.0	8.0	165.0	30.5	8.5	16.0	14.5
Merged-chr2-35979833-4	chr2	35979735	35979935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029774)	promoter-TSS (NM_029774)	-211.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	54.5	97.5	78.0	1072.5	240.5	96.5	96.0	75.0
Merged-chr3-57673729-4	chr3	57673585	57673785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033349, intron 2 of 3)	intron (NM_001033349, intron 2 of 3)	18852.0	NM_001033349	242037.0	Mm.291091	NM_001033349	ENSMUSG00000074591	Ankub1	Gm410	ankrin repeat and ubiquitin domain containing 1	protein-coding	43.5	35.0	66.0	965.5	104.5	28.0	35.5	42.0
Merged-chr14-73451827-3	chr14	73451722	73451922	+	661.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58227.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	9.0	17.0	5.5	56.5	24.5	9.0	10.5	1.5
Merged-chr1-63730618-4	chr1	63730528	63730728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172422)	promoter-TSS (NM_172422)	3.0	NM_172422	75619.0	Mm.30965	NM_172422	ENSMUSG00000025962	Fastkd2	2810421I24Rik	FAST kinase domains 2	protein-coding	43.5	77.0	26.0	433.0	173.0	54.5	66.5	75.0
Merged-chr9-106258010-2	chr9	106257910	106258110	+	913.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	MLT2C1|LTR|ERVL	-10056.0	NM_020559	11655.0	Mm.290578	NM_020559	ENSMUSG00000032786	Alas1	ALAS|ALAS-N|Alas-1|Alas-h	aminolevulinic acid synthase 1	protein-coding	1.5	1.0	2.0	4.5	76.5	23.5	30.0	28.5
Merged-chr4-136450519-3	chr4	136450423	136450623	+	953.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19238.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	9.5	5.0	19.0	217.5	13.5	2.5	4.0	7.5
Merged-chr4-63372127-4	chr4	63372013	63372213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 18 of 21)	intron (NM_001045514, intron 18 of 21)	9664.0	NM_011016	18406.0	Mm.14173	NM_011016	ENSMUSG00000061540	Orm2	Agp1|Orm-2	orosomucoid 2	protein-coding	24.0	57.0	28.0	578.5	53.5	17.0	28.5	35.5
Merged-chr18-34538349-4	chr18	34538244	34538444	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3984.0	NM_009290	20890.0	Mm.558	NM_009290	ENSMUSG00000012282	Wnt8a	Stra11|Wnt-8A|Wnt-8D|Wnt8d	wingless-type MMTV integration site family, member 8A	protein-coding	17.0	29.0	2.5	230.5	60.5	21.0	30.5	18.5
Merged-chr2-91083088-4	chr2	91082983	91083183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12768.0	NM_001290765	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	102.5	160.0	126.5	1990.5	340.0	69.0	143.0	101.0
Merged-chr17-57290385-5	chr17	57290293	57290493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163816, intron 1 of 25)	intron (NM_001163816, intron 1 of 25)	11293.0	NM_001163815	22324.0	Mm.248172	NM_011691	ENSMUSG00000034116	Vav1	Vav|vav-T	vav 1 oncogene	protein-coding	27.0	37.5	44.0	392.5	74.0	32.0	20.0	23.5
Merged-chr6-122653874-4	chr6	122653769	122653969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27445.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	16.5	17.0	7.5	138.5	78.0	28.0	20.5	20.5
Merged-chr2-157131208-4	chr2	157131103	157131303	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139520, intron 1 of 16)	intron (NM_001139520, intron 1 of 16)	4019.0	NM_001139520	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	14.0	6.0	6.5	71.0	17.0	4.5	5.5	13.5
Merged-chr2-75638341-4	chr2	75638242	75638442	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR6_Mm|LTR|ERV1	-20917.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	26.5	34.0	21.0	151.5	143.0	40.5	35.0	51.0
Merged-chr3-100534576-4	chr3	100534487	100534687	+	936.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-45395.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	11.5	10.0	33.0	494.5	42.5	13.0	36.0	35.0
Merged-chr1-24378695-1	chr1	24378595	24378795	+	794.0	f0_balb.idr	intron (NM_007733, intron 15 of 50)	intron (NM_007733, intron 15 of 50)	183492.0	NM_001290691	12839.0	Mm.154662	NM_007740	ENSMUSG00000026147	Col9a1	Col9a-1	collagen, type IX, alpha 1	protein-coding	2.0	2.5	9.0	146.5	6.5	4.5	12.5	7.0
Merged-chr1-13648069-4	chr1	13648014	13648214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145381, intron 2 of 6)	intron (NM_145381, intron 2 of 6)	12395.0	NM_145381	212442.0	Mm.89572	NM_145381	ENSMUSG00000025937	Lactb2	Cgi-83|E430032H21Rik	lactamase, beta 2	protein-coding	107.0	116.0	113.5	2503.5	161.5	59.0	75.5	83.5
Merged-chr17-37045603-3	chr17	37045506	37045706	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019439)	promoter-TSS (NM_019439)	-360.0	NM_019439	54393.0	Mm.32191	NM_019439	ENSMUSG00000024462	Gabbr1	GABAB1|GABAbR1|bM573K1.1	gamma-aminobutyric acid (GABA) B receptor, 1	protein-coding	22.5	25.0	11.5	196.0	36.5	16.0	20.0	16.5
Merged-chr4-62357914-4	chr4	62357820	62358020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 1 of 27)	intron (NM_001355385, intron 1 of 27)	2676.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	41.0	72.0	58.5	883.0	145.5	47.0	68.0	73.0
Merged-chr13-51696701-3	chr13	51696592	51696792	+	760.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44984.0	NM_029279	75420.0	Mm.275981	NM_029279	ENSMUSG00000035139	Secisbp2	2210413N07Rik|2810012K13Rik|SBP2	SECIS binding protein 2	protein-coding	11.5	20.0	12.0	186.0	18.0	8.0	4.5	8.5
Merged-chr1-162040721-3	chr1	162040601	162040801	+	918.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172646, intron 16 of 19)	L1MC4|LINE|L1	35732.0	NR_040562	72753.0	Mm.452125	NR_040562	ENSMUSG00000090260	2810442N19Rik	-	RIKEN cDNA 2810442N19 gene	ncRNA	6.0	17.5	6.0	139.5	16.0	9.5	3.0	7.0
Merged-chr10-26772415-4	chr10	26772337	26772537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176837)	promoter-TSS (NM_176837)	-75.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	132.0	209.0	112.0	2125.0	328.5	121.5	171.0	100.5
Merged-chr3-138118570-4	chr3	138118481	138118681	+	987.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355052, intron 7 of 21)	intron (NM_001355052, intron 7 of 21)	13072.0	NM_008642	17777.0	Mm.2941	NM_008642	ENSMUSG00000028158	Mttp	1810043K16Rik|MTP	microsomal triglyceride transfer protein	protein-coding	33.5	33.5	28.0	437.0	47.5	26.0	16.0	19.0
Merged-chr2-119787534-4	chr2	119787412	119787612	+	916.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163701)	promoter-TSS (NM_001163701)	25.0	NM_177294	68925.0	Mm.30496	NM_177294	ENSMUSG00000034032	Rpap1	1190005L06Rik|A730023M06Rik|AU041788|AW107702|mKIAA1403	RNA polymerase II associated protein 1	protein-coding	24.0	16.5	18.5	213.5	48.5	15.5	14.5	24.5
Merged-chr6-87521425-4	chr6	87521289	87521489	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	ORR1F|LTR|ERVL-MaLR	11870.0	NM_001037727	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	18.5	21.5	20.0	296.0	33.5	6.5	21.5	15.5
Merged-chr15-9131180-4	chr15	9131061	9131261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 2 of 9)	intron (NM_013787, intron 2 of 9)	9293.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	96.5	177.5	155.5	1955.5	414.0	122.0	161.0	150.5
Merged-chr2-36049351-4	chr2	36049242	36049442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029309)	promoter-TSS (NM_029309)	-50.0	NM_026703	68375.0	Mm.19834	NM_026703	ENSMUSG00000026895	Ndufa8	0610033L03Rik|AW261656	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 8	protein-coding	78.5	129.5	54.0	1247.0	264.5	100.5	119.5	125.0
Merged-chr10-4079392-3	chr10	4079299	4079499	+	953.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 20 of 27)	intron (NM_001170785, intron 20 of 27)	106324.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	7.0	8.5	7.0	179.5	15.0	7.0	9.5	5.0
Merged-chr14-51250504-3	chr14	51250408	51250608	+	942.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5604.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	12.0	9.0	11.5	233.5	9.5	1.0	4.5	3.0
Merged-chr9-100455251-3	chr9	100455108	100455308	+	717.8555299999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31265.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	10.0	11.0	10.0	124.5	7.0	3.0	4.0	7.5
Merged-chr14-120478883-3	chr14	120478742	120478942	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029519, exon 1 of 2)	exon (NM_029519, exon 1 of 2)	381.0	NM_029519	76108.0	Mm.261448	NM_029519	ENSMUSG00000051615	Rap2a	5830461H18Rik	RAS related protein 2a	protein-coding	11.5	19.5	18.5	189.0	20.5	11.5	13.5	25.5
Merged-chr7-19318740-5	chr7	19318629	19318829	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-8684.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	18.0	37.5	34.0	327.5	42.0	14.5	16.0	38.5
Merged-chr12-71968802-4	chr12	71968699	71968899	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 17 of 25)	intron (NM_026102, intron 17 of 25)	79256.0	NM_001286452	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	8.5	18.0	8.5	109.5	81.5	31.0	49.5	33.5
Merged-chr14-50931829-4	chr14	50931736	50931936	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310505)	promoter-TSS (NM_001310505)	-987.0	NM_001310507	219024.0	Mm.239117	NM_001033271	ENSMUSG00000035953	Tmem55b	BC039161|Pip4p1	transmembrane protein 55b	protein-coding	14.5	19.5	10.0	321.5	19.5	12.0	20.5	18.5
Merged-chr12-113124955-4	chr12	113124880	113125080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346696, intron 7 of 19)	intron (NM_001346696, intron 7 of 19)	-15256.0	NM_024223	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	74.0	117.5	90.0	1296.5	182.5	59.0	117.5	113.0
Merged-chr5-130129578-4	chr5	130129458	130129658	+	889.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013837, exon 4 of 6)	exon (NM_013837, exon 4 of 6)	-15330.0	NM_172509	212919.0	Mm.55812	NM_172509	ENSMUSG00000034110	Kctd7	4932409E18|9430010P06Rik	potassium channel tetramerisation domain containing 7	protein-coding	17.5	49.5	12.5	155.5	66.5	18.0	13.0	18.0
Merged-chr9-65525894-6	chr9	65525825	65526025	+	860.1555179999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54162.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	5.0	25.0	9.5	13.0	23.0	8.5	3.5	9.5
Merged-chr9-123717672-4	chr9	123717602	123717802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033322)	promoter-TSS (NM_033322)	-77.0	NR_151689	93730.0	Mm.378263	NM_033322	ENSMUSG00000025245	Lztfl1	5530402H04Rik|6130400H19Rik|AI414725|AW048545	leucine zipper transcription factor-like 1	protein-coding	147.0	241.0	105.5	1605.0	505.5	187.5	173.5	157.5
Merged-chr7-101378078-4	chr7	101377980	101378180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001040112)	promoter-TSS (NM_001040112)	-42.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	146.0	224.0	165.5	1933.5	340.0	111.0	149.5	89.5
Merged-chr10-36975267-2	chr10	36975167	36975367	+	847.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008229, intron 1 of 13)	intron (NM_008229, intron 1 of 13)	723.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	9.0	8.0	8.0	150.0	35.0	11.0	7.0	16.0
Merged-chr6-66535272-4	chr6	66535174	66535374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019499)	promoter-TSS (NM_019499)	53.0	NM_001355624	56150.0	Mm.489653	NM_019499	ENSMUSG00000029910	Mad2l1	AA673185|MAD2	MAD2 mitotic arrest deficient-like 1	protein-coding	381.0	570.5	399.5	6394.0	1032.0	365.5	487.0	399.0
Merged-chr19-61084259-4	chr19	61084164	61084364	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 12 of 15)	intron (NM_018869, intron 12 of 15)	56576.0	NR_131956	414758.0	Mm.100056	NM_001001737	ENSMUSG00000074733	Zfp950	5830428H23Rik|AU016073|BC055757|Gm34518|Zfp826|mszf84	zinc finger protein 950	protein-coding	16.0	29.5	24.5	337.5	24.0	17.0	19.0	28.0
Merged-chr1-92906138-4	chr1	92906026	92906226	+	779.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175118)	promoter-TSS (NM_175118)	-863.0	NM_175118	67446.0	Mm.46179	NM_175118	ENSMUSG00000047067	Dusp28	0710001B24Rik|AV005521	dual specificity phosphatase 28	protein-coding	5.0	9.5	2.0	97.5	27.0	5.0	14.0	11.0
Merged-chr3-68732094-2	chr3	68732033	68732233	+	677.75	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29362.0	NR_153374	102639225.0	Mm.109095	NR_153374	ENSMUSG00000102936	Gm35584	-	predicted gene, 35584	ncRNA	10.0	9.0	6.0	217.0	2.5	1.5	0.0	0.0
Merged-chr14-50898186-4	chr14	50898088	50898288	+	960.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4933.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	32.0	21.5	16.0	228.0	49.5	14.0	15.5	23.0
Merged-chr16-44138353-4	chr16	44138253	44138453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007508, intron 1 of 14)	intron (NM_007508, intron 1 of 14)	906.0	NM_001358203	11964.0	Mm.217787	NM_007508	ENSMUSG00000052459	Atp6v1a	AI647066|Atp6a1|Atp6a2|Atp6v1a1|VA68|VPP2	ATPase, H+ transporting, lysosomal V1 subunit A	protein-coding	23.5	73.0	38.0	412.5	119.5	44.5	31.0	42.0
Merged-chr1-191333120-4	chr1	191333012	191333212	+	933.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025864, intron 2 of 7)	L1M2|LINE|L1	7147.0	NM_025864	66950.0	Mm.236300	NM_025864	ENSMUSG00000026627	Tmem206	2310028N02Rik|AI118576	transmembrane protein 206	protein-coding	14.0	19.5	10.5	202.0	24.5	15.0	16.5	17.0
Merged-chr10-53616110-4	chr10	53616032	53616232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027830, intron 5 of 13)	intron (NM_027830, intron 5 of 13)	14307.0	NM_027830	71567.0	Mm.278221	NM_027830	ENSMUSG00000058298	Mcm9	9030408O17Rik|Gm235|Mcmdc1	minichromosome maintenance 9 homologous recombination repair factor	protein-coding	45.0	78.0	38.0	856.5	132.0	39.5	49.5	47.5
Merged-chr12-116047672-4	chr12	116047572	116047772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004066)	promoter-TSS (NM_001004066)	-52.0	NM_001004066	56220.0	Mm.254997	NM_019565	ENSMUSG00000042063	Zfp386	Kzf1|mKIAA4205	zinc finger protein 386 (Kruppel-like)	protein-coding	251.5	392.5	274.0	4088.5	669.0	237.5	311.0	250.5
Merged-chr7-90055007-4	chr7	90054916	90055116	+	981.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25857.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	13.5	22.0	15.5	323.5	46.0	8.0	17.0	22.5
Merged-chr15-99121053-4	chr15	99120949	99121149	+	863.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17D2|LTR|ERVK	-5796.0	NM_139140	72572.0	Mm.276650	NM_139140	ENSMUSG00000051934	Spats2	2700012F11Rik|59kDa|Scr59|p59	spermatogenesis associated, serine-rich 2	protein-coding	16.0	17.5	6.0	117.5	11.0	11.0	18.5	10.5
Merged-chr4-56222619-4	chr4	56222521	56222721	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	518804.0	NM_025271	11471.0	Mm.251434	NM_025271	ENSMUSG00000070980	Actl7b	Gm26657|Tact1	actin-like 7b	protein-coding	38.0	35.5	11.0	279.0	59.0	26.5	34.5	41.5
Merged-chr8-129234309-4	chr8	129234249	129234449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153780)	promoter-TSS (NM_153780)	-303.0	NM_153780	72139.0	Mm.426514	NM_153780	ENSMUSG00000071302	2610044O15Rik8	2610044O15Rik	RIKEN cDNA 2610044O15 gene	protein-coding	51.0	82.0	56.5	643.5	132.5	61.0	104.5	99.5
Merged-chr2-167717891-3	chr2	167717809	167718009	+	841.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26732.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	8.0	5.0	6.0	74.5	11.5	2.5	6.0	8.0
Merged-chr11-102925189-4	chr11	102925086	102925286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197959)	promoter-TSS (NM_197959)	-62.0	NM_197959	70218.0	Mm.32084	NM_197959	ENSMUSG00000051378	Kif18b	3000004C01Rik	kinesin family member 18B	protein-coding	49.5	58.5	30.5	295.0	76.0	19.5	26.0	37.0
Merged-chr14-30713933-4	chr14	30713837	30714037	+	994.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019460)	promoter-TSS (NM_019460)	-912.0	NM_019460	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	20.5	50.5	10.0	213.5	65.5	32.5	7.0	9.0
Merged-chr10-58323399-4	chr10	58323300	58323500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359115)	promoter-TSS (NM_001359115)	-147.0	NM_001359115	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	390.0	649.0	499.5	6213.5	1017.5	401.0	498.0	400.5
Merged-chr5-105545204-4	chr5	105545087	105545287	+	966.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	RLTR17|LTR|ERVK	25716.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	15.0	37.5	12.5	164.5	76.5	23.5	29.5	20.0
Merged-chr1-74368470-4	chr1	74368365	74368565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033345, exon 10 of 10)	exon (NM_001033345, exon 10 of 10)	6357.0	NM_001033345	241112.0	Mm.310460	NM_001033345	ENSMUSG00000073650	Catip	Gm216	ciliogenesis associated TTC17 interacting protein	protein-coding	92.0	172.5	139.5	2104.0	309.5	108.0	200.5	145.5
Merged-chr10-117792796-4	chr10	117792683	117792883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134010)	promoter-TSS (NM_134010)	-78.0	NM_134010	103468.0	Mm.12568	NM_134010	ENSMUSG00000052798	Nup107	AW541137|C76801	nucleoporin 107	protein-coding	189.5	339.5	165.0	2264.5	588.0	248.5	235.0	239.0
Merged-chr15-63625010-4	chr15	63624928	63625128	+	933.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-145420.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	21.0	20.0	20.5	338.5	32.0	13.0	20.0	13.0
Merged-chr11-58096311-4	chr11	58096182	58096382	+	946.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-7688.0	NM_026949	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	18.5	43.5	18.5	327.5	26.5	9.5	9.0	12.5
Merged-chr1-193201583-4	chr1	193201483	193201683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153137)	promoter-TSS (NM_153137)	-37.0	NM_153137	215243.0	Mm.261259	NM_153137	ENSMUSG00000037318	Traf3ip3	6030423D04Rik|AI115021|T3jam	TRAF3 interacting protein 3	protein-coding	79.5	103.5	86.0	1661.0	157.5	49.0	93.5	71.5
Merged-chr2-128734845-2	chr2	128734745	128734945	+	653.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 2 of 18)	intron (NM_008587, intron 2 of 18)	35930.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	7.0	7.5	7.0	91.0	9.0	1.0	2.0	6.0
Merged-chr6-17629937-4	chr6	17629850	17630050	+	904.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7060.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	17.0	16.5	3.5	102.5	53.5	14.0	21.5	9.5
Merged-chr2-109917577-4	chr2	109917475	109917675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172671)	promoter-TSS (NM_172671)	-72.0	NM_172671	107515.0	Mm.277351	NM_172671	ENSMUSG00000050199	Lgr4	9130225G07|A330106J01Rik|A930009A08Rik|Gpr48	leucine-rich repeat-containing G protein-coupled receptor 4	protein-coding	221.5	256.0	218.5	4350.5	487.5	115.0	245.5	151.5
Merged-chr19-5117997-2	chr19	5117897	5118097	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045528, intron 1 of 15)	CpG	411.0	NR_045528	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	11.5	14.5	26.5	128.0	45.0	9.0	9.5	7.5
Merged-chr10-85183874-4	chr10	85183778	85183978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007771, intron 1 of 12)	intron (NM_007771, intron 1 of 12)	1176.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	40.0	37.0	33.5	309.5	81.0	27.5	36.5	41.0
Merged-chr18-60894373-4	chr18	60894280	60894480	+	873.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1O|LTR|ERVL-MaLR	-17860.0	NM_001038499	545260.0	Mm.20147	NM_001038499	ENSMUSG00000036412	Arsi	BC020108	arylsulfatase i	protein-coding	4.0	11.5	15.0	105.5	38.0	6.5	17.0	19.5
Merged-chr13-23702891-4	chr13	23702787	23702987	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010424, exon 6 of 6)	3' UTR (NM_010424, exon 6 of 6)	-4429.0	NM_178208	319155.0	Mm.261662	NM_178208	ENSMUSG00000060678	Hist1h4c	-	histone cluster 1, H4c	protein-coding	23.5	21.0	34.0	215.5	45.5	16.0	23.5	23.5
Merged-chr15-59263666-3	chr15	59263539	59263739	+	936.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43309.0	NR_045613	100416830.0	Mm.490788	NR_045613	ENSMUSG00000098528	Zfp572	4930472F24Rik	zinc finger protein 572	pseudo	11.0	13.5	10.5	211.5	14.0	6.0	9.0	11.0
Merged-chr3-142497438-4	chr3	142497347	142497547	+	847.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153564, intron 1 of 10)	intron (NM_153564, intron 1 of 10)	513.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	12.5	26.0	20.0	151.5	20.0	12.0	7.0	11.0
Merged-chr15-103250319-4	chr15	103250208	103250408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302338, intron 2 of 2)	intron (NM_001302338, intron 2 of 2)	1368.0	NM_001302338	18022.0	Mm.457989	NM_008685	ENSMUSG00000058794	Nfe2	NF-E2|NF-E2/P45|p45|p45NFE2|p45nf-e2	nuclear factor, erythroid derived 2	protein-coding	30.5	59.0	27.5	534.5	101.0	33.0	45.5	28.0
Merged-chr3-87337271-4	chr3	87337187	87337387	+	953.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-20594.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	6.5	14.5	12.5	224.5	76.5	23.5	34.0	32.5
Merged-chr7-19687365-2	chr7	19687265	19687465	+	838.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR1B|LTR|ERV1	5294.0	NM_001110009	11812.0	Mm.182440	NM_007469	ENSMUSG00000040564	Apoc1	Apo-CIB|ApoC-IB|apo-CI|apoC-I	apolipoprotein C-I	protein-coding	11.0	7.0	4.5	17.0	8.5	7.5	6.5	6.5
Merged-chr3-97991632-4	chr3	97991512	97991712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21926.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	23.0	55.0	44.5	662.0	65.5	22.5	25.0	22.0
Merged-chr16-94239334-4	chr16	94239243	94239443	+	977.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	intron (NM_001360045, intron 5 of 10)	50948.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	4.0	19.5	4.5	154.5	32.0	15.5	17.5	16.0
Merged-chr11-100626375-4	chr11	100626282	100626482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028024, exon 4 of 4)	3' UTR (NM_028024, exon 4 of 4)	3427.0	NM_028024	71966.0	Mm.274734	NM_028024	ENSMUSG00000017837	Nkiras2	2410003M04Rik|4930527H08Rik|D630018G21Rik|KBRAS2	NFKB inhibitor interacting Ras-like protein 2	protein-coding	5.5	8.5	23.0	261.5	84.5	4.0	26.0	22.5
Merged-chr6-125218761-1	chr6	125218661	125218861	+	563.666687	f0_c57.idr	intron (NM_001080557, intron 2 of 3)	intron (NM_001080557, intron 2 of 3)	3180.0	NM_009496	22317.0	Mm.32321	NM_009496	ENSMUSG00000030337	Vamp1	Syb-1|Syb1|VAMP-1|lew	vesicle-associated membrane protein 1	protein-coding	5.5	14.5	3.0	73.5	22.0	8.0	11.5	14.0
Merged-chr15-99484479-2	chr15	99484410	99484610	+	609.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9780.0	NM_029236	75284.0	Mm.32826	NM_029236	ENSMUSG00000037525	Bcdin3d	4930556P03Rik|AV138748	BCDIN3 domain containing	protein-coding	5.0	10.5	5.0	90.0	0.0	0.0	3.5	3.0
Merged-chr12-12320896-4	chr12	12320803	12321003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 2 of 11)	intron (NM_001146119, intron 2 of 11)	58764.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	130.0	144.0	119.5	2535.5	201.0	51.0	103.0	93.0
Merged-chr9-61982082-4	chr9	61981996	61982196	+	926.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 2 of 7)	intron (NM_028748, intron 2 of 7)	-35297.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	11.0	17.5	8.0	278.0	32.5	16.0	8.5	12.0
Merged-chr13-58688427-4	chr13	58688340	58688540	+	991.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73871.0	NR_045469	67585.0	Mm.84751	NR_045469	ENSMUSG00000114384	4930455J16Rik	-	RIKEN cDNA 4930455J16 gene	ncRNA	19.5	19.5	20.5	394.5	58.5	14.0	20.0	20.0
Merged-chr6-49258024-2	chr6	49257929	49258129	+	740.666626	f0_c57.idr|f1_c57bl6.idr	intron (NM_001362188, intron 1 of 8)	intron (NM_001362188, intron 1 of 8)	6023.0	NM_001347209	101214.0	Mm.196598	NM_198102	ENSMUSG00000029817	Tra2a	1500010G04Rik|AL022798|G430041M01Rik|mAWMS1	transformer 2 alpha	protein-coding	0.0	0.0	0.0	6.0	24.5	5.5	16.0	9.0
Merged-chr17-67346589-2	chr17	67346489	67346689	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	7870.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	5.0	6.5	4.0	53.5	15.0	6.5	8.0	6.5
Merged-chr9-20643312-4	chr9	20643235	20643435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013911)	promoter-TSS (NM_013911)	-1.0	NM_025401	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	82.0	131.0	50.0	913.5	199.0	54.5	122.0	68.5
Merged-chr11-61529526-4	chr11	61529390	61529590	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252188, intron 7 of 10)	intron (NM_001252188, intron 7 of 10)	24346.0	NM_001330781	27078.0	Mm.261226	NM_013717	ENSMUSG00000001039	B9d1	AW045994|B9|Eppb9	B9 protein domain 1	protein-coding	7.0	12.5	11.5	256.5	43.5	4.0	12.0	15.0
Merged-chr2-59438094-4	chr2	59438006	59438206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46547.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	21.5	19.0	19.5	336.0	55.0	15.0	18.0	25.5
Merged-chr4-59467307-1	chr4	59467207	59467407	+	676.0	f0_balb.idr	Intergenic	Intergenic	-28674.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	7.0	8.5	11.5	73.5	10.5	1.5	8.0	4.0
Merged-chr8-45439394-4	chr8	45439311	45439511	+	935.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28792.0	NM_126166	142980.0	Mm.33874	NM_126166	ENSMUSG00000031639	Tlr3	AI957183	toll-like receptor 3	protein-coding	20.5	28.5	11.0	265.5	56.0	15.0	10.0	20.0
Merged-chr17-28233192-1	chr17	28233092	28233292	+	1000.0	f0_balb.idr	intron (NM_011145, intron 1 of 7)	intron (NM_011145, intron 1 of 7)	438.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	10.0	25.5	19.0	140.0	31.0	16.0	11.5	18.5
Merged-chr8-46756021-4	chr8	46755913	46756113	+	749.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	A-rich|Low_complexity|Low_complexity	16268.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	6.5	4.5	4.5	105.0	41.5	2.5	13.5	11.0
Merged-chr19-41900706-4	chr19	41900610	41900810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4557.0	NM_199447	107094.0	Mm.276044	NM_199447	ENSMUSG00000035049	Rrp12	AA408556|AA536972|mKIAA0690	ribosomal RNA processing 12 homolog (S. cerevisiae)	protein-coding	74.0	73.5	74.0	1010.0	109.5	47.5	52.5	60.0
Merged-chr16-10984844-4	chr16	10984748	10984948	+	864.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019980, intron 1 of 3)	intron (NM_019980, intron 1 of 3)	8273.0	NM_019980	56722.0	Mm.294753	NM_019980	ENSMUSG00000022500	Litaf	3222402J11Rik|C85531|N4WBP3|TBX1	LPS-induced TN factor	protein-coding	12.0	12.0	10.0	258.5	30.0	5.0	6.0	11.0
Merged-chr17-80693018-4	chr17	80692917	80693117	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360278, intron 1 of 33)	intron (NM_001360278, intron 1 of 33)	35008.0	NM_001360278	225028.0	Mm.311948	NM_001081357	ENSMUSG00000024242	Map4k3	4833416M01Rik|4833416M07Rik|9530052P13Rik|Glk|MAPKKKK3|MEKKK 3|MEKKK3|RAB8IPL1	mitogen-activated protein kinase kinase kinase kinase 3	protein-coding	16.0	32.0	12.5	172.5	36.5	12.0	11.0	6.5
Merged-chr4-124693614-4	chr4	124693488	124693688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026031)	promoter-TSS (NM_026031)	-34.0	NM_026031	67205.0	Mm.259121	NM_026031	ENSMUSG00000028907	Utp11	2700082D03Rik|CGI-94|Cgi94|Utp11l	UTP11 small subunit processome component	protein-coding	58.5	94.5	45.5	894.5	130.0	51.5	86.5	71.0
Merged-chr10-75499506-4	chr10	75499410	75499610	+	860.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17871.0	NM_175133	68778.0	Mm.29382	NM_175133	ENSMUSG00000033416	Gucd1	1110038D17Rik	guanylyl cyclase domain containing 1	protein-coding	10.5	10.5	20.0	91.0	27.0	7.0	15.0	9.0
Merged-chr11-99189358-4	chr11	99189253	99189453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34276.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	74.0	154.0	66.0	610.5	257.0	86.5	92.5	80.0
Merged-chr3-8974012-4	chr3	8973923	8974123	+	960.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-9877.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	9.5	8.0	11.5	168.5	79.0	10.0	37.5	52.5
Merged-chr1-131357911-4	chr1	131357817	131358017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 5 of 22)	intron (NM_001081011, intron 5 of 22)	-78354.0	NM_019777	56489.0	Mm.386783	NM_019777	ENSMUSG00000042349	Ikbke	AW558201|IKK-E|IKK-i|IKKepsilon|Ikki	inhibitor of kappaB kinase epsilon	protein-coding	74.0	183.0	86.5	591.0	129.5	81.0	60.0	32.0
Merged-chr6-116416386-3	chr6	116416283	116416483	+	970.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009662, intron 7 of 13)	ORR1E|LTR|ERVL-MaLR	44795.0	NM_009662	11689.0	Mm.41072	NM_009662	ENSMUSG00000025701	Alox5	5-LO|5-LOX|5LO|5LX|AI850497|F730011J02	arachidonate 5-lipoxygenase	protein-coding	1.0	14.0	6.5	191.5	12.0	10.0	11.5	20.5
Merged-chr8-70003266-4	chr8	70003170	70003370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6886.0	NM_145596	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	90.5	121.0	74.0	1111.0	317.0	99.0	91.0	82.5
Merged-chr5-149284934-4	chr5	149284816	149285016	+	909.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009663, intron 3 of 4)	MTD|LTR|ERVL-MaLR	19912.0	NM_009663	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	20.5	21.5	18.0	166.0	25.0	7.0	8.5	17.0
Merged-chr5-30839990-4	chr5	30839895	30840095	+	820.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133350, intron 1 of 6)	intron (NM_133350, intron 1 of 6)	-21812.0	NM_001310516	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	10.5	30.5	13.0	201.5	16.5	11.5	13.5	14.0
Merged-chr1-173741831-4	chr1	173741727	173741927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001204910)	promoter-TSS (NM_001204910)	-18.0	NM_001204910	226691.0	Mm.440876	NM_001204910	ENSMUSG00000073490	Ifi207	AI607873|Pyhin-A|pyhinA	interferon activated gene 207	protein-coding	135.5	252.0	105.5	2047.5	402.5	146.5	167.0	160.5
Merged-chr10-127062671-4	chr10	127062570	127062770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009870)	promoter-TSS (NM_009870)	-865.0	NM_009870	12567.0	Mm.6839	NM_009870	ENSMUSG00000006728	Cdk4	Crk3	cyclin-dependent kinase 4	protein-coding	56.0	61.5	26.0	672.0	78.0	38.0	40.0	43.5
Merged-chr11-55013063-4	chr11	55012940	55013140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 3 of 24)	intron (NR_138556, intron 3 of 24)	20431.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	95.0	110.5	84.0	1169.5	159.5	56.5	92.5	71.0
Merged-chr11-48926445-2	chr11	48926345	48926545	+	619.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001045540, intron 1 of 2)	L1_Rod|LINE|L1	737.0	NM_001045540	620913.0	Mm.452174	NM_001045540	ENSMUSG00000048852	Gm12185	Irgb2b1	predicted gene 12185	protein-coding	1.0	6.5	2.5	16.0	6.5	6.5	4.5	9.0
Merged-chr1-132318665-4	chr1	132318567	132318767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195025, intron 1 of 7)	intron (NM_001195025, intron 1 of 7)	2542.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	87.5	92.0	126.5	2129.5	210.0	74.0	72.5	65.5
Merged-chr10-121263674-3	chr10	121263579	121263779	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_029057)	TTS (NM_029057)	47717.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	27.0	45.5	24.5	480.5	18.0	14.5	8.0	7.0
Merged-chr15-76199465-4	chr15	76199365	76199565	+	944.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201392)	promoter-TSS (NM_201392)	-59.0	NM_201392	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	10.5	32.0	16.5	177.5	43.0	15.5	14.0	15.5
Merged-chr19-4123255-4	chr19	4123157	4123357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016666, intron 1 of 6)	L1MB2|LINE|L1	-1682.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	49.0	93.0	58.5	764.0	149.0	47.0	49.0	73.5
Merged-chr11-51578594-3	chr11	51578503	51578703	+	667.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153393, intron 27 of 28)	intron (NM_153393, intron 27 of 28)	-6154.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	0.0	12.5	5.5	11.0	32.5	16.5	11.5	7.5
Merged-chr18-38993038-4	chr18	38992942	38993142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175164)	promoter-TSS (NM_175164)	-103.0	NM_001361073	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	258.5	337.5	249.0	4508.0	508.0	163.5	324.5	190.5
Merged-chr4-88544057-4	chr4	88543961	88544161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14184.0	NM_206870	242517.0	Mm.377261	NM_206870	ENSMUSG00000096011	Ifna15	Gm12597|Ifnaa|MuIFN-alpha-A	interferon alpha 15	protein-coding	29.5	44.0	18.5	505.5	85.5	49.0	45.0	29.0
Merged-chr5-101827116-4	chr5	101827004	101827204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61974.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	31.5	146.0	40.5	268.5	115.5	48.5	40.0	28.5
Merged-chr17-25837223-3	chr17	25837108	25837308	+	788.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144816)	promoter-TSS (NM_144816)	-81.0	NM_144816	214951.0	Mm.490018	NM_144816	ENSMUSG00000025735	Rhbdl1	Rhbdl	rhomboid like 1	protein-coding	4.5	7.5	8.5	82.0	13.0	5.5	6.0	11.0
Merged-chr17-51221302-4	chr17	51221215	51221415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41963.0	NM_001285991	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	38.0	95.5	40.0	877.5	142.0	72.5	64.0	55.5
Merged-chr2-35271960-4	chr2	35271879	35272079	+	879.5791630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206367, intron 2 of 17)	intron (NM_001206367, intron 2 of 17)	5235.0	NM_001206369	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	19.5	33.5	16.5	132.5	37.0	12.5	17.5	6.5
Merged-chr1-131698968-4	chr1	131698882	131699082	+	958.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311096, intron 4 of 4)	intron (NM_001311096, intron 4 of 4)	10287.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	10.5	12.0	7.0	358.0	81.0	33.0	41.0	46.0
Merged-chr10-111576186-3	chr10	111576068	111576268	+	826.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18105.0	NR_045344	71321.0	Mm.410785	NR_045344	ENSMUSG00000097082	4933440J02Rik	-	RIKEN cDNA 4933440J02 gene	ncRNA	6.5	6.0	11.0	88.0	16.0	8.5	4.0	6.5
Merged-chr2-4447489-3	chr2	4447379	4447579	+	774.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	46503.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	5.0	5.5	8.0	87.5	21.0	8.0	6.0	6.0
Merged-chr18-36720110-4	chr18	36719997	36720197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6718.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	100.5	108.5	131.0	1583.5	151.5	61.5	59.5	57.0
Merged-chr18-67205367-4	chr18	67205280	67205480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024190)	promoter-TSS (NM_024190)	21.0	NM_024190	67064.0	Mm.73777	NM_024190	ENSMUSG00000109901	Chmp1b	2810405I11Rik|Chmp1b1	charged multivesicular body protein 1B	protein-coding	88.0	127.0	54.0	1108.5	344.0	132.0	130.0	131.0
Merged-chr13-41596890-4	chr13	41596805	41597005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9311.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	31.0	35.5	44.0	564.5	44.0	22.5	39.0	32.5
Merged-chr2-129595790-1	chr2	129595690	129595890	+	1000.0	f0_balb.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	328.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	79.5	98.5	104.5	1102.5	186.5	109.0	88.5	108.0
Merged-chr8-69985347-4	chr8	69985229	69985429	+	694.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286450, intron 1 of 12)	intron (NM_001286450, intron 1 of 12)	-10946.0	NM_001113346	234366.0	Mm.270044	NM_145596	ENSMUSG00000036180	Gatad2a	1110066C11Rik|BC031407|C80248	GATA zinc finger domain containing 2A	protein-coding	9.5	10.0	8.0	96.5	21.0	10.5	12.5	4.5
Merged-chr19-32884664-3	chr19	32884559	32884759	+	987.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	127082.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	8.0	25.0	21.5	286.0	17.0	4.5	7.0	2.5
Merged-chr7-34234140-4	chr7	34233992	34234192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3756.0	NM_008155	14751.0	Mm.589	NM_008155	ENSMUSG00000036427	Gpi1	Amf|Gpi|Gpi-1|Gpi-1r|Gpi-1s|Gpi-1t|Gpi1-r|Gpi1-s|Gpi1-t|Gpi1s|MF|NK|NK/GPI|Nlk|Org|Pgi|Phi	glucose phosphate isomerase 1	protein-coding	124.5	140.5	108.0	1592.0	185.5	86.5	116.0	91.5
Merged-chr11-37077465-4	chr11	37077350	37077550	+	942.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-133209.0	NM_011856	23964.0	Mm.439889	NM_011856	ENSMUSG00000049336	Tenm2	Odz2|Odz3|Ten-2|Ten-m2	teneurin transmembrane protein 2	protein-coding	14.0	15.0	15.0	586.5	56.5	14.5	27.0	14.5
Merged-chr6-90713321-4	chr6	90713232	90713432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	intron (NM_001356440, intron 1 of 13)	3197.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	174.5	214.0	214.5	3907.0	430.0	157.5	203.0	195.0
Merged-chr8-84981758-3	chr8	84981685	84981885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3037.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	18.5	15.0	7.0	117.5	29.5	10.5	17.5	12.5
Merged-chr15-97673066-4	chr15	97672950	97673150	+	997.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32772.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	30.5	49.0	31.0	483.0	50.0	14.5	26.0	20.0
Merged-chr8-60964149-4	chr8	60964050	60964250	+	916.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007711, intron 1 of 11)	intron (NM_007711, intron 1 of 11)	-9351.0	NM_173876	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	14.0	21.5	4.5	235.0	42.5	5.0	19.5	11.5
Merged-chr12-84855299-4	chr12	84855213	84855413	+	938.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 2 of 34)	intron (NM_013589, intron 2 of 34)	-20489.0	NR_028577	100303738.0	Mm.479389	NR_028577	ENSMUSG00000092130	D030025P21Rik	-	RIKEN cDNA D030025P21 gene	ncRNA	39.0	37.0	97.0	728.0	27.5	12.0	36.0	20.0
Merged-chr4-59352348-7	chr4	59352307	59352507	+	852.738098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 10 of 16)	intron (NM_001163288, intron 10 of 16)	86226.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	5.0	7.0	12.5	105.5	14.0	2.0	5.0	6.0
Merged-chr3-52756402-4	chr3	52756283	52756483	+	970.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038079, intron 1 of 3)	intron (NR_038079, intron 1 of 3)	16659.0	NR_038079	329639.0	Mm.131245	NR_038079	ENSMUSG00000102785	Gm2447	100039832|A530017F20	predicted gene 2447	ncRNA	9.5	35.0	18.0	259.0	74.5	28.0	44.5	47.5
Merged-chr10-58350829-4	chr10	58350768	58350968	+	961.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026148, intron 1 of 9)	intron (NM_026148, intron 1 of 9)	-1095.0	NM_001359116	110829.0	Mm.57734	NM_026148	ENSMUSG00000019920	Lims1	2310016J22Rik|4921524A02Rik|AI507642|AU021743|AW551584|C430041B13Rik|Lims1l|PINCH|PINCH1	LIM and senescent cell antigen-like domains 1	protein-coding	7.0	14.0	30.5	279.5	31.5	16.0	14.0	15.0
Merged-chr7-82811752-4	chr7	82811660	82811860	+	951.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-55573.0	NM_175366	108797.0	Mm.306789	NM_175366	ENSMUSG00000057706	Mex3b	4931439A04Rik|M-04814|Rkhd3|mKIAA2009	mex3 RNA binding family member B	protein-coding	11.0	13.0	24.0	339.5	42.5	25.0	33.5	24.5
Merged-chr11-97884192-4	chr11	97884073	97884273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081435)	promoter-TSS (NM_001081435)	-19.0	NM_001081435	72973.0	Mm.245939	NM_001081435	ENSMUSG00000070336	Fbxo47	2900052P03Rik|Gm1562	F-box protein 47	protein-coding	123.0	179.0	85.0	1235.0	320.0	99.5	118.5	96.0
Merged-chr5-43248020-4	chr5	43247918	43248118	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177379, intron 3 of 10)	L3|LINE|CR1	-12664.0	NR_028417	665934.0	Mm.381491	NR_028417	ENSMUSG00000085720	Gm7854	EG665934	predicted gene 7854	ncRNA	7.0	16.0	16.0	569.0	21.5	3.5	15.0	21.5
Merged-chr3-79238329-2	chr3	79238229	79238429	+	959.333374	f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	25410.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	5.5	10.5	5.0	46.5	35.5	3.0	6.5	19.0
Merged-chr1-181126928-4	chr1	181126801	181127001	+	861.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026171, intron 10 of 22)	intron (NM_026171, intron 10 of 22)	17303.0	NM_026171	67459.0	Mm.263464	NM_026171	ENSMUSG00000026516	Nvl	1200009I24Rik	nuclear VCP-like	protein-coding	6.5	20.0	7.5	112.5	15.0	7.5	6.0	7.5
Merged-chr8-53434449-4	chr8	53434376	53434576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-77226.0	NM_001205054	11593.0	Mm.334535	NM_001005847	ENSMUSG00000031521	Aga	AW060726	aspartylglucosaminidase	protein-coding	39.0	32.0	39.5	907.5	83.0	39.5	33.5	33.0
Merged-chr3-27236996-4	chr3	27236874	27237074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	MTC|LTR|ERVL-MaLR	53970.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	77.0	116.5	74.5	1246.5	218.0	55.5	89.0	102.0
Merged-chr14-55194029-4	chr14	55193941	55194141	+	839.020874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27966.0	NM_027790	71412.0	Mm.85484	NM_027790	ENSMUSG00000022209	Dhrs2	5430405K24Rik|Hep27	dehydrogenase/reductase member 2	protein-coding	10.5	6.0	15.5	190.0	35.0	10.0	9.0	30.0
Merged-chr2-35232913-4	chr2	35232836	35233036	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4_|SINE|ID	-23423.0	NM_001206367	227753.0	Mm.443	NM_146120	ENSMUSG00000026879	Gsn	ADF	gelsolin	protein-coding	15.5	12.0	12.5	166.5	24.5	10.0	10.0	11.0
Merged-chr17-35897406-4	chr17	35897315	35897515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033630)	promoter-TSS (NM_001033630)	-37.0	NM_001033630	69662.0	Mm.260159	NM_001033630	ENSMUSG00000050705	2310061I04Rik	-	RIKEN cDNA 2310061I04 gene	protein-coding	28.5	62.5	30.0	387.0	117.5	34.0	35.5	38.0
Merged-chr9-16215540-4	chr9	16215438	16215638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	intron (NM_001080814, intron 2 of 24)	162693.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	150.0	221.5	155.5	3856.0	502.5	169.0	284.0	222.0
Merged-chr11-95309730-4	chr11	95309622	95309822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155298)	promoter-TSS (NR_155298)	524.0	NM_001195004	217127.0	Mm.90213	NM_177619	ENSMUSG00000038909	Kat7	Hbo1|Hboa|Myst2	K(lysine) acetyltransferase 7	protein-coding	191.0	327.0	184.5	2384.0	426.0	151.5	199.0	182.0
Merged-chr15-77799647-4	chr15	77799555	77799755	+	773.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 3 of 40)	intron (NM_022410, intron 3 of 40)	42520.0	NM_022410	17886.0	Mm.29677	NM_022410	ENSMUSG00000022443	Myh9	Fltn|Myhn-1|Myhn1|NMHCIIA|NMMHC-A|NMMHC-IIA|TU72.6	myosin, heavy polypeptide 9, non-muscle	protein-coding	14.5	5.5	3.0	97.5	26.5	7.5	8.5	11.5
Merged-chr13-19794672-1	chr13	19794572	19794772	+	989.0	f0_balb.idr	intron (NM_181754, intron 2 of 4)	ORR1B1|LTR|ERVL-MaLR	29585.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	6.0	5.0	12.0	149.5	4.5	0.0	2.0	0.5
Merged-chr18-75171443-4	chr18	75171342	75171542	+	939.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027727, intron 13 of 16)	intron (NM_027727, intron 13 of 16)	125875.0	NR_045394	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	24.5	29.5	44.5	772.5	23.5	4.5	15.5	22.0
Merged-chr5-92106465-4	chr5	92106360	92106560	+	923.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-22716.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	20.5	17.0	12.0	329.5	48.0	11.5	20.0	24.5
Merged-chr11-70468092-4	chr11	70467989	70468189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8105.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	118.0	267.5	133.5	1277.0	285.5	143.0	88.0	93.0
Merged-chr4-142021870-4	chr4	142021769	142021969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131014, intron 1 of 1)	ORR1D2|LTR|ERVL-MaLR	3971.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	19.5	26.5	15.0	398.0	53.0	15.5	40.0	33.5
Merged-chr10-8683174-4	chr10	8683070	8683270	+	925.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-164345.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	18.0	11.5	5.0	206.0	33.5	6.0	14.0	13.0
Merged-chr5-54045744-4	chr5	54045654	54045854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081103, intron 1 of 11)	intron (NM_001081103, intron 1 of 11)	47231.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	55.5	62.5	41.5	890.5	68.0	29.0	58.0	47.0
Merged-chr3-97609367-3	chr3	97609271	97609471	+	726.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026539, intron 1 of 22)	intron (NM_026539, intron 1 of 22)	819.0	NM_026539	68058.0	Mm.31761	NM_026539	ENSMUSG00000028089	Chd1l	4432404A22Rik|Alc1|Snf2p	chromodomain helicase DNA binding protein 1-like	protein-coding	9.5	8.0	16.0	39.0	13.0	5.5	7.5	4.0
Merged-chr15-35326691-4	chr15	35326544	35326744	+	829.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045280, intron 1 of 2)	CpG	1891.0	NR_045280	100126269.0	Mm.247402	NR_045280	ENSMUSG00000115453	BC048602	-	cDNA sequence BC048602	ncRNA	11.5	11.5	12.0	175.5	26.5	7.0	5.0	15.0
Merged-chr13-66933056-7	chr13	66932933	66933133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025547)	promoter-TSS (NM_025547)	39.0	NM_025547	66410.0	Mm.347939	NM_025547	ENSMUSG00000021519	Mterf3	2410017I18Rik|Mterfd1	mitochondrial transcription termination factor 3	protein-coding	105.5	146.0	170.0	1742.0	297.5	141.5	154.5	144.0
Merged-chr3-98844090-3	chr3	98843973	98844173	+	820.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15721.0	NM_001304800	15492.0	Mm.140811	NM_008293	ENSMUSG00000027871	Hsd3b1	3-beta-HSD I|D3Ertd383e	hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 1	protein-coding	8.0	6.5	35.5	246.5	20.0	11.0	4.5	7.5
Merged-chr9-105122963-4	chr9	105122867	105123067	+	979.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8838.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	25.5	21.5	9.0	184.0	97.5	33.0	39.5	21.5
Merged-chr5-114647470-3	chr5	114647365	114647565	+	854.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022017, intron 1 of 15)	intron (NM_022017, intron 1 of 15)	10956.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	8.5	12.0	7.0	45.0	6.5	5.0	1.0	1.0
Merged-chr1-106759749-4	chr1	106759642	106759842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316750)	promoter-TSS (NM_001316750)	0.0	NM_027534	70750.0	Mm.458911	NM_027534	ENSMUSG00000009905	Kdsr	6330410P18Rik|9430079B08Rik|Fvt1	3-ketodihydrosphingosine reductase	protein-coding	225.0	373.0	267.0	4446.5	660.0	220.0	336.0	220.5
Merged-chr2-158498428-4	chr2	158498329	158498529	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291138, exon 30 of 30)	3' UTR (NM_001291138, exon 30 of 30)	-4183.0	NM_145635	246747.0	Mm.28800	NM_145635	ENSMUSG00000044405	Adig	SMAF-1|Smaf1	adipogenin	protein-coding	56.0	43.0	37.5	518.5	74.5	25.0	34.0	38.5
Merged-chr2-116952913-4	chr2	116952814	116953014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER21B|LTR|ERV1	52762.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	20.5	38.5	23.5	84.5	66.0	22.0	20.5	6.5
Merged-chr7-46639817-4	chr7	46639716	46639916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013789)	promoter-TSS (NM_013789)	-9.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	109.0	136.0	94.5	1969.0	192.5	73.0	81.5	76.0
Merged-chr10-61068590-2	chr10	61068490	61068690	+	952.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20741.0	NM_025273	13180.0	Mm.39473	NM_025273	ENSMUSG00000020098	Pcbd1	Dcoh|Pcbd|Pcd|Phs	pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 1	protein-coding	8.5	7.5	4.5	56.5	30.0	5.0	5.5	4.0
Merged-chr19-29228285-4	chr19	29228185	29228385	+	854.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23518.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	17.5	22.0	18.0	253.0	28.5	8.0	7.0	8.0
Merged-chr13-60620768-4	chr13	60620670	60620870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	18559.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	125.0	292.0	142.5	1537.0	209.0	72.5	75.5	86.5
Merged-chr6-39778677-4	chr6	39778589	39778789	+	987.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32247.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	50.0	31.5	29.0	869.0	32.5	18.5	17.0	27.0
Merged-chr11-114995024-3	chr11	114994932	114995132	+	826.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	-5146.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	5.0	19.0	17.0	95.0	2.5	10.0	8.0	4.0
Merged-chr11-101642091-4	chr11	101642031	101642231	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14182.0	NM_025654	66599.0	Mm.41449	NM_025654	ENSMUSG00000010362	Rdm1	2410008M22Rik|AW212028|Rad52b	RAD52 motif 1	protein-coding	26.0	56.0	26.5	242.5	39.5	14.5	15.5	21.0
Merged-chr13-75824796-4	chr13	75824714	75824914	+	971.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15071.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	23.5	27.5	16.5	430.0	47.5	17.5	44.0	29.5
Merged-chr18-80932752-4	chr18	80932656	80932856	+	897.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015805, intron 1 of 28)	MIR|SINE|MIR	1302.0	NM_001201569	50771.0	Mm.247138	NM_015805	ENSMUSG00000024566	Atp9b	AA934181|Atpc2b|IIb|MMR	ATPase, class II, type 9B	protein-coding	13.0	38.5	15.0	152.5	54.0	9.5	23.0	9.5
Merged-chr10-50740275-4	chr10	50740171	50740371	+	813.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 30 of 41)	intron (NM_198007, intron 30 of 41)	147602.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	17.0	15.0	17.5	138.0	19.0	11.5	11.5	10.5
Merged-chr3-89266570-4	chr3	89266458	89266658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026767)	promoter-TSS (NM_026767)	97.0	NM_026767	68563.0	Mm.272927	NM_026767	ENSMUSG00000042737	Dpm3	1110001H19Rik|AV117483	dolichyl-phosphate mannosyltransferase polypeptide 3	protein-coding	27.5	38.5	18.0	292.0	63.0	28.5	32.5	30.5
Merged-chr5-105052302-4	chr5	105052204	105052404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029509, intron 1 of 9)	intron (NM_029509, intron 1 of 9)	1257.0	NM_029509	76074.0	Mm.458519	NM_029509	ENSMUSG00000034438	Gbp8	5830443L24Rik|mGBP8	guanylate-binding protein 8	protein-coding	39.5	56.0	19.0	556.0	97.5	43.5	37.5	37.5
Merged-chr1-152555217-4	chr1	152555112	152555312	+	897.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 5 of 17)	intron (NM_016846, intron 5 of 17)	70005.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	7.5	18.5	8.5	304.0	30.0	14.5	24.0	15.0
Merged-chr5-150594599-4	chr5	150594515	150594715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133898)	promoter-TSS (NM_133898)	-90.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	70.5	157.0	153.0	1210.0	153.5	74.5	89.0	50.5
Merged-chr2-79056285-4	chr2	79056184	79056384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	186606.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	52.5	58.0	35.5	916.5	91.0	40.5	37.5	36.5
Merged-chr6-84019304-4	chr6	84019226	84019426	+	869.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021469)	promoter-TSS (NM_021469)	-60.0	NM_001310152	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	11.0	21.5	21.5	180.0	23.5	7.5	16.0	14.0
Merged-chr9-40638609-5	chr9	40638531	40638731	+	806.700012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47333.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	1.5	6.0	11.0	25.0	17.5	13.0	7.0	9.5
Merged-chr13-64266309-4	chr13	64266189	64266389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045798, intron 1 of 2)	intron (NR_045798, intron 1 of 2)	8699.0	NM_172587	218294.0	Mm.25335	NM_172587	ENSMUSG00000033102	Cdc14b	2810432N10Rik|A530086E13Rik|AA472821|CDC14B3|Cdc14B1	CDC14 cell division cycle 14B	protein-coding	54.5	90.5	25.0	774.0	81.0	18.5	37.0	25.5
Merged-chr5-88399982-4	chr5	88399900	88400100	+	957.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23892.0	NM_027793	71421.0	Mm.79700	NM_027793	ENSMUSG00000029282	Amtn	5430427O21Rik	amelotin	protein-coding	16.5	29.5	26.0	465.0	74.0	20.0	30.0	14.0
Merged-chr10-77624579-2	chr10	77624479	77624679	+	943.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_019803, intron 1 of 5)	MLT1C|LTR|ERVL-MaLR	2258.0	NM_019803	22213.0	Mm.458125	NM_019803	ENSMUSG00000009293	Ube2g2	1110003O05Rik|D10Xrf369|UBC7|Ubc7p	ubiquitin-conjugating enzyme E2G 2	protein-coding	6.0	5.5	6.0	78.0	3.5	2.0	5.5	9.0
Merged-chr7-135793112-4	chr7	135793056	135793256	+	818.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76777.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	7.0	10.0	5.0	115.0	17.5	13.5	8.0	7.0
Merged-chr1-172078158-1	chr1	172078058	172078258	+	696.0	f0_balb.idr	intron (NM_021607, intron 2 of 16)	intron (NM_021607, intron 2 of 16)	-4371.0	NM_009938	12847.0	Mm.30041	NM_009938	ENSMUSG00000026553	Copa	AU040324|xenin	coatomer protein complex subunit alpha	protein-coding	10.0	9.5	10.0	120.0	5.0	0.0	2.5	2.0
Merged-chr4-145246365-3	chr4	145246229	145246429	+	988.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	541.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	13.5	25.5	26.5	248.0	34.5	12.5	18.5	21.0
Merged-chr12-112875762-4	chr12	112875671	112875871	+	952.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14855.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	11.0	30.0	9.0	294.5	56.5	18.5	24.0	20.0
Merged-chr8-27086718-3	chr8	27086657	27086857	+	679.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054044, intron 1 of 18)	intron (NM_054044, intron 1 of 18)	916.0	NM_054044	78560.0	Mm.87046	NM_054044	ENSMUSG00000031486	Adgra2	8430414O08Rik|9530074E10Rik|Gpr124|Tem5|mKIAA1531	adhesion G protein-coupled receptor A2	protein-coding	5.0	4.5	4.5	40.5	5.0	1.5	3.5	6.0
Merged-chr15-101141325-4	chr15	101141218	101141418	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277255, intron 11 of 11)	(CTGGGG)n|Simple_repeat|Simple_repeat	12796.0	NM_001277257	11482.0	Mm.279542	NM_009612	ENSMUSG00000000530	Acvrl1	AI115505|AI427544|Acvrlk1|Alk1	activin A receptor, type II-like 1	protein-coding	7.0	10.0	6.5	177.5	77.0	19.5	26.0	14.5
Merged-chr2-181739511-4	chr2	181739419	181739619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-23813.0	NM_001171615	17932.0	Mm.458718	NM_008665	ENSMUSG00000010505	Myt1	Nzf2|Nzf2a|Nzf2b|Nztf2	myelin transcription factor 1	protein-coding	31.0	51.5	26.0	313.5	108.0	24.5	33.0	31.5
Merged-chr4-66768928-3	chr4	66768824	66769024	+	899.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58627.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	7.0	7.0	4.0	249.5	21.0	10.5	14.5	10.0
Merged-chr6-124916507-2	chr6	124916407	124916607	+	782.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152158)	promoter-TSS (NR_152158)	-356.0	NR_152158	442825.0	Mm.446713	NR_152158	ENSMUSG00000055818	A230083G16Rik	-	RIKEN cDNA A230083G16 gene	ncRNA	9.0	5.0	3.0	25.5	6.5	4.5	6.5	10.0
Merged-chr1-156030011-4	chr1	156029926	156030126	+	879.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144791, intron 4 of 6)	intron (NM_144791, intron 4 of 6)	4791.0	NM_001160019	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	15.5	5.0	13.5	157.5	32.5	6.5	17.0	6.5
Merged-chr7-28338315-2	chr7	28338215	28338415	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013676, intron 2 of 29)	CpG	404.0	NM_013676	20924.0	Mm.285906	NM_013676	ENSMUSG00000003435	Supt5	AL033283|AL033321|AU019549|Spt5|Supt5h	suppressor of Ty 5	protein-coding	7.0	10.0	6.5	63.5	14.0	9.5	13.0	18.5
Merged-chr14-20370976-4	chr14	20370885	20371085	+	876.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024512, intron 7 of 13)	PB1D10|SINE|Alu	17925.0	NM_134081	108671.0	Mm.2871	NM_134081	ENSMUSG00000021811	Dnajc9	5330419I01Rik|AU020082	DnaJ heat shock protein family (Hsp40) member C9	protein-coding	10.0	22.0	20.0	362.5	18.0	5.0	14.5	7.5
Merged-chr13-45889152-3	chr13	45889051	45889251	+	927.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	(CA)n|Simple_repeat|Simple_repeat	75840.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	10.5	17.5	7.5	138.0	17.5	2.5	12.0	8.0
Merged-chr13-76024842-4	chr13	76024719	76024919	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6107.0	NM_001131069	218341.0	Mm.266515	NM_178916	ENSMUSG00000043190	Rfesd	AI256775|D030068K09	Rieske (Fe-S) domain containing	protein-coding	29.0	18.0	23.0	539.0	73.5	22.5	22.0	20.0
Merged-chr6-129033621-4	chr6	129033520	129033720	+	720.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12281.0	NR_024263	232408.0	Mm.259262	NM_153094	ENSMUSG00000030154	Klrb1f	A630024B12Rik|Nkr-p1f|Nkrp1-f|Nkrp1f	killer cell lectin-like receptor subfamily B member 1F	protein-coding	8.0	10.5	6.0	97.0	18.5	3.5	14.0	2.5
Merged-chr10-45000988-4	chr10	45000797	45000997	+	923.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66317.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	8.0	12.5	8.5	133.0	26.5	8.0	4.0	11.0
Merged-chr8-35205970-1	chr8	35205870	35206070	+	689.0	f1_c57bl6.idr	Intergenic	Intergenic	-169771.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	5.0	2.5	2.5	29.0	7.5	6.5	5.0	4.5
Merged-chr5-135994838-4	chr5	135994733	135994933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023742)	promoter-TSS (NM_023742)	33.0	NM_001256098	74198.0	Mm.275574	NM_023742	ENSMUSG00000004947	Dtx2	2610524D08Rik|AA408415|AU022494|Deltex2	deltex 2, E3 ubiquitin ligase	protein-coding	39.5	76.5	33.5	561.0	107.0	37.0	63.0	33.5
Merged-chr1-162739487-4	chr1	162739387	162739587	+	929.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081290, intron 1 of 34)	intron (NM_001081290, intron 1 of 34)	1069.0	NM_001081290	226562.0	Mm.245446	NM_001081290	ENSMUSG00000040225	Prrc2c	1810043M20Rik|9630039I18Rik|A630006J20|Bat2d|Bat2d1|Bat2l2|E130112L15Rik|Prrc3|mKIAA1096	proline-rich coiled-coil 2C	protein-coding	18.5	57.0	13.5	201.5	71.5	28.5	23.5	15.5
Merged-chr5-117377964-3	chr5	117377864	117378064	+	872.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021539, exon 9 of 9)	3' UTR (NM_021539, exon 9 of 9)	11059.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	8.5	11.5	6.0	132.5	25.5	3.5	1.5	2.0
Merged-chr11-4849582-4	chr11	4849472	4849672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361676)	promoter-TSS (NM_001361676)	-28.0	NM_010898	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	257.5	331.5	235.0	3208.5	600.0	234.5	277.5	217.5
Merged-chr6-39562855-4	chr6	39562784	39562984	+	955.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5050.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	17.0	16.0	16.5	245.5	30.5	14.5	10.0	19.0
Merged-chr8-120790883-4	chr8	120790765	120790965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52226.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	42.5	51.5	62.0	1230.0	77.5	11.5	39.0	36.5
Merged-chr15-50803639-3	chr15	50803539	50803739	+	943.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310485, intron 5 of 7)	intron (NM_001310485, intron 5 of 7)	85410.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	14.5	15.0	13.0	173.5	17.5	6.0	16.0	6.5
Merged-chr2-157597371-4	chr2	157597275	157597475	+	752.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-31014.0	NM_016916	53619.0	Mm.480461	NM_016916	ENSMUSG00000067787	Blcap	AI462828|Bc10	bladder cancer associated protein	protein-coding	4.0	5.5	11.5	115.5	26.0	9.5	19.0	7.0
Merged-chr5-16541954-4	chr5	16541840	16542040	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11555.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	22.5	68.5	66.5	746.5	56.5	30.5	26.0	18.0
Merged-chr3-65974848-4	chr3	65974732	65974932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16583.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	271.5	362.0	264.0	3457.0	665.5	308.0	343.5	250.5
Merged-chr13-43482008-4	chr13	43481908	43482108	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1035.0	NM_019930	56705.0	Mm.148781	NM_019930	ENSMUSG00000038546	Ranbp9	IBAP-1|Ibap1|RanBPM	RAN binding protein 9	protein-coding	31.0	44.5	28.0	502.0	52.0	16.0	17.0	31.5
Merged-chr13-52079414-4	chr13	52079309	52079509	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17332.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	14.0	23.0	18.5	255.0	67.0	14.0	16.0	14.5
Merged-chr11-115699463-4	chr11	115699367	115699567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313937)	promoter-TSS (NM_001313937)	67.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	192.5	226.5	234.5	2388.5	366.0	131.0	189.0	181.5
Merged-chr11-88242010-2	chr11	88241954	88242154	+	987.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	37666.0	NM_001291271	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	17.5	19.5	26.5	268.0	6.0	0.0	1.0	2.5
Merged-chr17-63422110-4	chr17	63422002	63422202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 4 of 8)	intron (NM_015794, intron 4 of 8)	78478.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	46.5	32.5	43.0	665.5	107.0	46.5	44.5	44.0
Merged-chr4-62266287-4	chr4	62266188	62266388	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS_Mus|LTR|ERV1	-20141.0	NM_025286	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	5.5	48.0	35.5	37.0	95.5	24.5	36.0	34.5
Merged-chr17-7398465-4	chr17	7398393	7398593	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13188.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	11.5	21.0	29.5	278.5	131.0	52.0	63.5	67.0
Merged-chr3-108259571-2	chr3	108259471	108259671	+	886.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011967, intron 1 of 8)	intron (NM_011967, intron 1 of 8)	2645.0	NM_011967	26442.0	Mm.208883	NM_011967	ENSMUSG00000068749	Psma5	ZETA	proteasome (prosome, macropain) subunit, alpha type 5	protein-coding	1.5	3.0	2.0	26.5	14.5	10.0	4.5	6.0
Merged-chr1-151599056-4	chr1	151598960	151599160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	27687.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	49.0	46.0	21.0	606.0	89.0	34.5	24.0	30.5
Merged-chr3-146656062-1	chr3	146655962	146656162	+	589.0	f0_balb.idr	Intergenic	Intergenic	-4745.0	NM_029144	75015.0	Mm.250432	NM_029144	ENSMUSG00000048652	4930503B20Rik	1700013A07Rik|1700095G21Rik|4930483N21Rik|Gm1652|Samd13	RIKEN cDNA 4930503B20 gene	protein-coding	5.0	8.0	1.0	83.0	10.5	6.0	10.5	9.0
Merged-chr16-91734965-4	chr16	91734861	91735061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	Lx8|LINE|L1	5590.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	42.0	51.5	25.5	557.5	46.5	7.0	40.5	35.5
Merged-chr14-27115259-1	chr14	27115159	27115359	+	620.0	f1_c57bl6.idr	Intergenic	Intergenic	-28734.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	6.5	11.0	4.5	90.0	15.5	3.5	6.5	2.5
Merged-chr5-90689946-4	chr5	90689849	90690049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49422.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	195.5	255.0	296.0	2259.5	320.0	120.5	164.0	185.0
Merged-chr9-88733334-2	chr9	88733234	88733434	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B2|LTR|ERVL	-1484.0	NM_007536	12047.0	Mm.378888	NM_007536	ENSMUSG00000099974	Bcl2a1d	A1-d	B cell leukemia/lymphoma 2 related protein A1d	protein-coding	4.5	9.0	8.0	48.0	15.5	5.5	7.0	7.5
Merged-chr7-89419127-1	chr7	89419027	89419227	+	783.0	f0_balb.idr	Intergenic	Intergenic	-7179.0	NR_102276	101521.0	Mm.26902	NR_102276	ENSMUSG00000109311	AI314278	-	expressed sequence AI314278	ncRNA	3.5	11.0	4.5	151.5	14.0	6.0	8.5	8.5
Merged-chr1-120057231-4	chr1	120057121	120057321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012322, intron 12 of 13)	HAL1|LINE|L1	16559.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	36.0	58.5	67.5	758.0	142.0	58.0	47.0	57.5
Merged-chr5-143048392-4	chr5	143048287	143048487	+	979.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	64633.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	29.5	29.5	34.5	508.0	38.5	16.5	28.0	12.5
Merged-chr10-7781010-4	chr10	7780902	7781102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346750)	promoter-TSS (NM_001346750)	-85.0	NM_001346750	215751.0	Mm.471825	NM_145418	ENSMUSG00000040006	Ginm1	AA589616	glycoprotein integral membrane 1	protein-coding	141.0	234.0	105.0	1621.5	362.0	130.0	150.5	106.0
Merged-chr19-9110411-4	chr19	9110342	9110542	+	943.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22486.0	NM_011681	22287.0	Mm.2258	NM_011681	ENSMUSG00000024653	Scgb1a1	CC10|CC16|CCSP|PCB-BP|UG|UGB|Utg	secretoglobin, family 1A, member 1 (uteroglobin)	protein-coding	11.0	21.5	14.5	186.5	37.5	3.0	19.5	9.0
Merged-chr12-32138530-3	chr12	32138446	32138646	+	695.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69792.0	NM_001146201	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	16.0	17.0	12.0	249.0	23.5	4.0	7.5	3.0
Merged-chr6-13838014-3	chr6	13837923	13838123	+	864.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001330666, exon 3 of 4)	5' UTR (NM_001330666, exon 3 of 4)	1919.0	NM_001330666	64450.0	Mm.167625	NM_145066	ENSMUSG00000048216	Gpr85	2900026B03Rik	G protein-coupled receptor 85	protein-coding	8.5	10.0	3.0	53.0	19.5	9.0	5.0	13.0
Merged-chr7-99380975-4	chr7	99380882	99381082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362166)	promoter-TSS (NM_001362166)	-536.0	NM_001362168	233552.0	Mm.286317	NM_201352	ENSMUSG00000035314	Gdpd5	BC024955|Gde2	glycerophosphodiester phosphodiesterase domain containing 5	protein-coding	70.5	139.0	72.0	1261.5	184.0	69.0	86.0	85.0
Merged-chr19-46698353-4	chr19	46698258	46698458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025563, intron 1 of 4)	intron (NM_025563, intron 1 of 4)	8452.0	NM_025563	66439.0	Mm.87163	NM_025563	ENSMUSG00000062376	Borcs7	2010012O05Rik|4930569L17Rik|AI413851|AI467257	BLOC-1 related complex subunit 7	protein-coding	43.0	63.0	19.0	368.5	52.5	26.5	21.5	24.0
Merged-chr2-129360317-4	chr2	129360219	129360419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9583.0	NR_015474	329514.0	Mm.207315	NM_177848	ENSMUSG00000074805	Il1bos	9430083I22|Gm14047	interleukin 1 beta, opposite strand	ncRNA	78.0	100.5	77.0	1149.5	155.0	46.0	50.5	54.0
Merged-chr15-28413735-4	chr15	28413625	28413825	+	977.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133365, intron 65 of 78)	intron (NM_133365, intron 65 of 78)	209959.0	NM_133365	110082.0	Mm.248464	NM_133365	ENSMUSG00000022262	Dnah5	AU022615|Dnahc5|Mdnah5|b2b1134Clo|b2b1154Clo|b2b1537Clo|b2b1565Clo|b2b3491Clo|b2b601Clo|mKIAA1603	dynein, axonemal, heavy chain 5	protein-coding	12.0	25.0	20.0	233.0	37.0	15.0	14.5	8.0
Merged-chr6-124898124-3	chr6	124898022	124898222	+	866.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER102a|DNA|hAT-Charlie	-9922.0	NM_013488	12504.0	Mm.2209	NM_013488	ENSMUSG00000023274	Cd4	L3T4|Ly-4	CD4 antigen	protein-coding	7.5	14.5	10.5	82.0	30.0	8.5	12.5	7.0
Merged-chr19-53399296-3	chr19	53399201	53399401	+	871.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8667.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	7.5	4.0	3.5	64.0	14.5	5.0	9.0	9.0
Merged-chr11-95858781-4	chr11	95858685	95858885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045187)	promoter-TSS (NR_045187)	-32.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	229.0	288.5	183.0	2398.5	548.0	229.0	295.5	204.5
Merged-chr9-13443686-4	chr9	13443584	13443784	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12323.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	25.0	40.0	24.5	790.5	21.5	14.0	21.5	17.0
Merged-chr4-59575726-4	chr4	59575623	59575823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-5840.0	NM_001301367	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	26.5	46.5	34.0	463.0	58.5	27.0	25.0	27.0
Merged-chr4-135942370-4	chr4	135942284	135942484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-4064.0	NM_008254	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	79.5	146.5	77.5	1143.5	154.0	77.5	43.5	63.5
Merged-chr13-47228445-4	chr13	47228361	47228561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	intron (NM_146042, intron 3 of 7)	34458.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	93.5	141.5	76.5	1551.0	203.0	92.5	131.5	129.0
Merged-chr12-35573998-4	chr12	35573910	35574110	+	953.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39021.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	33.0	21.0	50.5	845.5	47.0	12.5	9.0	13.5
Merged-chr9-90113121-4	chr9	90113049	90113249	+	923.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 1 of 12)	intron (NM_001039147, intron 1 of 12)	1671.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	9.0	6.5	12.5	117.0	25.0	9.5	13.0	17.0
Merged-chr10-21696873-4	chr10	21696754	21696954	+	967.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6009.0	NR_045843	432436.0	Mm.244553	NM_001004162	ENSMUSG00000056716	Gm5420	EG432436	predicted gene 5420	ncRNA	14.5	5.5	12.5	188.0	45.5	5.0	18.0	18.5
Merged-chr12-103345241-4	chr12	103345161	103345361	+	940.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 2 of 9)	intron (NM_023049, intron 2 of 9)	10740.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	11.0	11.5	14.0	208.5	41.5	12.5	15.5	26.5
Merged-chr19-32681099-4	chr19	32680999	32681199	+	889.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026487, intron 8 of 9)	intron (NM_026487, intron 8 of 9)	31199.0	NM_026487	67979.0	Mm.27123	NM_026487	ENSMUSG00000013662	Atad1	4921525H23Rik|AW107648|Thorase	ATPase family, AAA domain containing 1	protein-coding	13.0	30.0	11.0	139.0	46.5	15.0	16.0	9.0
Merged-chr19-37689666-4	chr19	37689555	37689755	+	963.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001105201, intron 4 of 5)	intron (NM_001105201, intron 4 of 5)	3975.0	NM_001105201	546726.0	Mm.457750	NM_001105201	ENSMUSG00000062432	Cyp26c1	EG546726	cytochrome P450, family 26, subfamily c, polypeptide 1	protein-coding	27.5	23.5	26.5	431.0	62.0	25.0	19.0	10.0
Merged-chr4-150281538-4	chr4	150281425	150281625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085492)	promoter-TSS (NM_001085492)	-391.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	81.0	123.5	60.0	848.0	220.0	66.5	128.0	59.0
Merged-chr11-75531612-4	chr11	75531519	75531719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173388)	promoter-TSS (NM_173388)	-75.0	NM_001199284	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	55.0	73.0	66.0	820.5	124.0	54.5	35.5	44.0
Merged-chr17-71012132-3	chr17	71012030	71012230	+	650.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-7427.0	NM_010867	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	5.0	6.0	6.5	101.0	13.0	8.0	19.5	4.0
Merged-chr10-44602294-4	chr10	44602198	44602398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143550.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	60.0	78.0	57.0	967.5	127.0	39.0	44.0	47.0
Merged-chr1-186705363-4	chr1	186705268	186705468	+	934.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001329107, exon 1 of 8)	5' UTR (NM_001329107, exon 1 of 8)	621.0	NM_009367	21808.0	Mm.18213	NM_009367	ENSMUSG00000039239	Tgfb2	BB105277|Tgf-beta2|Tgfb-2	transforming growth factor, beta 2	protein-coding	31.5	27.5	26.0	461.0	39.0	13.5	26.0	28.0
Merged-chr11-80378022-4	chr11	80377923	80378123	+	766.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027472)	promoter-TSS (NM_027472)	-8.0	NM_027472	70591.0	Mm.86860	NM_027472	ENSMUSG00000057181	5730455P16Rik	-	RIKEN cDNA 5730455P16 gene	protein-coding	11.5	19.0	4.0	53.0	21.5	16.0	7.5	10.0
Merged-chr2-132570987-3	chr2	132570889	132571089	+	745.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355651, intron 2 of 19)	B2_Mm2|SINE|B2	7259.0	NM_001291050	74182.0	Mm.211211	NM_027096	ENSMUSG00000027346	Gpcpd1	2310004G06Rik|2310032D16Rik|AU015213|Gde5|Prei4|mKIAA1434	glycerophosphocholine phosphodiesterase 1	protein-coding	2.0	5.0	5.0	161.5	34.0	7.0	6.0	10.5
Merged-chr2-152115597-4	chr2	152115496	152115696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10072.0	NM_029688	76650.0	Mm.218639	NM_029688	ENSMUSG00000032802	Srxn1	1700127B04Rik|AI854065|AW488194|Npn3|Srx|Srx1|TX01	sulfiredoxin 1 homolog (S. cerevisiae)	protein-coding	37.5	80.5	41.0	499.5	77.0	39.0	47.0	23.5
Merged-chr7-100706412-7	chr7	100706326	100706526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362169)	promoter-TSS (NM_001362169)	-209.0	NM_001362169	319604.0	Mm.260362	NM_178764	ENSMUSG00000029461	Fam168a	2610030B18Rik|B930006L02Rik|mKIAA0280	family with sequence similarity 168, member A	protein-coding	57.0	101.5	72.5	818.5	148.0	81.5	71.5	104.5
Merged-chr8-82370839-4	chr8	82370728	82370928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	intron (NM_008357, intron 2 of 7)	31758.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	54.0	83.5	40.0	761.5	87.5	33.5	33.0	34.5
Merged-chr10-117867486-4	chr10	117867374	117867574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21500.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	43.5	91.0	39.0	194.5	159.0	56.0	45.0	28.0
Merged-chr12-117517440-4	chr12	117517338	117517538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 1 of 27)	MLT1B|LTR|ERVL-MaLR	959.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	36.0	77.0	38.5	593.0	166.5	47.0	100.5	64.5
Merged-chr2-126466857-3	chr2	126466691	126466891	+	903.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 3 of 27)	intron (NM_001359975, intron 3 of 27)	24762.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	8.0	14.0	14.0	59.5	3.5	0.0	2.0	5.5
Merged-chr2-135488499-3	chr2	135488400	135488600	+	829.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94720.0	NR_015544	320684.0	Mm.421433	NR_015544	ENSMUSG00000085631	9630028H03Rik	-	RIKEN cDNA 9630028H03 gene	ncRNA	6.0	5.0	4.0	114.0	29.5	11.5	7.5	12.0
Merged-chr1-53774206-4	chr1	53774125	53774325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133810, intron 2 of 7)	intron (NM_133810, intron 2 of 7)	10990.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	61.0	85.0	41.0	980.5	151.5	45.0	64.5	63.5
Merged-chr7-88303697-4	chr7	88303592	88303792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 5 of 6)	intron (NM_009982, intron 5 of 6)	25607.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	72.5	85.5	94.0	1370.0	83.5	30.0	24.0	30.0
Merged-chr9-51008036-2	chr9	51007936	51008136	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 1 of 15)	intron (NM_178710, intron 1 of 15)	1037.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	8.0	4.0	4.0	37.5	6.5	15.0	6.0	16.5
Merged-chr2-125775143-4	chr2	125775043	125775243	+	876.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177608, intron 2 of 17)	intron (NM_177608, intron 2 of 17)	7727.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	14.5	8.5	15.0	254.5	12.0	6.5	10.5	16.0
Merged-chr8-95428357-4	chr8	95428258	95428458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008187, intron 1 of 5)	intron (NM_008187, intron 1 of 5)	6511.0	NM_008187	14894.0	Mm.2080	NM_008187	ENSMUSG00000031796	Cfap20	2600014O15Rik|AL024127|Gtl3|T10-2A2	cilia and flagella associated protein 20	protein-coding	30.5	25.5	22.5	661.5	81.5	18.5	32.0	29.0
Merged-chr11-97415460-4	chr11	97415334	97415534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34726.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	39.5	60.5	26.5	502.0	142.5	37.0	32.5	21.5
Merged-chr13-9082356-4	chr13	9082269	9082469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11512.0	NM_001311117	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	86.0	130.0	73.0	1320.0	242.5	79.5	88.5	70.0
Merged-chr17-10572741-3	chr17	10572605	10572805	+	615.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 4 of 4)	intron (NM_027032, intron 4 of 4)	116489.0	NR_077238	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	6.0	7.5	6.5	71.5	1.0	2.5	2.0	2.0
Merged-chr6-87672283-4	chr6	87672193	87672393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170489)	promoter-TSS (NM_001170489)	-125.0	NM_001170489	72103.0	Mm.31770	NM_024251	ENSMUSG00000030051	Aplf	2010301N04Rik|AI452191	aprataxin and PNKP like factor	protein-coding	283.5	353.5	256.0	3746.5	624.5	199.5	286.5	241.5
Merged-chr15-81802574-4	chr15	81802471	81802671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153484)	promoter-TSS (NM_153484)	42.0	NR_155271	100504312.0	Mm.384036	NR_155271	ENSMUSG00000097613	Gm17597	-	predicted gene, 17597	ncRNA	171.0	208.5	176.5	2288.5	323.5	133.5	151.5	138.0
Merged-chr12-79626887-4	chr12	79626783	79626983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	297850.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	36.5	31.0	17.5	167.0	43.0	18.5	21.5	11.0
Merged-chr4-132030208-4	chr4	132030061	132030261	+	956.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	L1MC5|LINE|L1	18917.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	14.5	9.0	12.0	164.5	17.5	1.0	13.0	14.0
Merged-chr3-90432866-5	chr3	90432733	90432933	+	928.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145540, exon 1 of 30)	exon (NM_145540, exon 1 of 30)	803.0	NM_145540	229543.0	Mm.268564	NM_145540	ENSMUSG00000027933	Ints3	C77668	integrator complex subunit 3	protein-coding	8.5	8.0	12.5	66.5	4.5	3.0	4.0	10.0
Merged-chr2-167320559-2	chr2	167320459	167320659	+	986.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_019835, intron 1 of 8)	intron (NM_019835, intron 1 of 8)	28619.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	1.0	7.5	2.5	62.0	17.0	7.5	5.0	6.5
Merged-chr5-34544333-4	chr5	34544239	34544439	+	835.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145858, intron 1 of 12)	intron (NM_001145858, intron 1 of 12)	974.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	11.0	3.0	11.0	163.5	30.0	7.0	9.5	12.5
Merged-chr6-72753037-4	chr6	72752945	72753145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079822, intron 3 of 12)	intron (NM_001079822, intron 3 of 12)	36000.0	NM_001079822	21415.0	Mm.440067	NM_009332	ENSMUSG00000055799	Tcf7l1	Tcf-3|Tcf3|bHLHb21	transcription factor 7 like 1 (T cell specific, HMG box)	protein-coding	53.5	64.5	66.0	1263.5	110.5	40.5	72.5	62.5
Merged-chr14-77794659-4	chr14	77794573	77794773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033440, exon 3 of 3)	3' UTR (NM_001033440, exon 3 of 3)	4295.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	52.5	45.0	62.5	604.0	140.5	74.5	49.5	55.5
Merged-chr7-24530534-4	chr7	24530447	24530647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153134)	promoter-TSS (NM_153134)	-101.0	NM_153134	210146.0	Mm.41108	NM_153134	ENSMUSG00000041037	Irgq	AF322649|FKSG27|Irgq1	immunity-related GTPase family, Q	protein-coding	103.5	204.0	112.5	1792.0	383.0	116.0	150.5	158.0
Merged-chr18-23843537-4	chr18	23843444	23843644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 3 of 7)	intron (NM_001162941, intron 3 of 7)	39574.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	44.0	60.5	36.5	792.5	88.5	44.5	73.0	49.5
Merged-chr2-23156014-4	chr2	23155908	23156108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025979)	promoter-TSS (NM_025979)	16.0	NM_025979	67121.0	Mm.253721	NM_025979	ENSMUSG00000026779	Mastl	2700091H24Rik|C88295|GW|GWL|MAST-L|THC2	microtubule associated serine/threonine kinase-like	protein-coding	238.5	402.5	222.0	3485.0	660.0	245.0	305.0	268.0
Merged-chr3-15285107-4	chr3	15285060	15285260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47142.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	111.0	167.0	91.5	1947.0	207.0	86.0	162.5	106.5
Merged-chr17-64600111-4	chr17	64600009	64600209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-1540.0	NM_008549	17158.0	Mm.2433	NM_008549	ENSMUSG00000024085	Man2a1	Mana-2|Mana2|Map-2	mannosidase 2, alpha 1	protein-coding	23.0	4.5	29.0	273.5	47.0	27.0	27.5	33.0
Merged-chr12-110979121-4	chr12	110978996	110979196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361917)	promoter-TSS (NM_001361917)	-56.0	NM_001361916	74251.0	Mm.250989	NM_175207	ENSMUSG00000037904	Ankrd9	2500003O20Rik	ankyrin repeat domain 9	protein-coding	126.5	178.0	128.0	1915.0	277.5	100.5	124.0	102.0
Merged-chr16-38562802-4	chr16	38562718	38562918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205287)	promoter-TSS (NM_001205287)	4.0	NM_026407	67846.0	Mm.310476	NM_026407	ENSMUSG00000002845	Tmem39a	2610033C09Rik	transmembrane protein 39a	protein-coding	82.5	111.0	46.0	991.5	200.0	88.5	107.5	77.5
Merged-chr1-155006747-4	chr1	155006647	155006847	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76517.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	25.0	54.0	21.5	262.5	75.0	18.0	31.0	23.5
Merged-chr2-155443536-4	chr2	155443500	155443700	+	926.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-2817.0	NM_019825	56406.0	Mm.27592	NM_019825	ENSMUSG00000038369	Ncoa6	AIB3|ASC-2|ASC2|NRC|Ncoa7|PRIP|RAP250|mKIAA0181	nuclear receptor coactivator 6	protein-coding	6.5	1.0	4.5	76.5	31.5	5.5	12.0	17.0
Merged-chr19-32757510-4	chr19	32757422	32757622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008960)	promoter-TSS (NM_008960)	-55.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	216.5	289.5	199.0	2513.5	488.0	193.0	196.5	154.5
Merged-chr14-12993836-3	chr14	12993741	12993941	+	864.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-170762.0	NM_001359919	27062.0	Mm.260881	NM_012061	ENSMUSG00000054423	Cadps	AU067781|CAPS|CAPS1|mKIAA1121	Ca2+-dependent secretion activator	protein-coding	16.0	15.5	11.5	296.0	43.5	8.5	6.5	1.5
Merged-chr17-33678975-3	chr17	33678878	33679078	+	741.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109913, intron 1 of 16)	intron (NM_001109913, intron 1 of 16)	6480.0	NM_001109913	76936.0	Mm.311439	NM_029804	ENSMUSG00000059208	Hnrnpm	2610023M21Rik|AA409009|Hnrpm|mKIAA4193	heterogeneous nuclear ribonucleoprotein M	protein-coding	14.0	19.5	3.5	126.5	29.0	5.5	8.0	5.0
Merged-chr14-77790965-1	chr14	77790865	77791065	+	845.0	f0_balb.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	8003.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	9.0	11.0	19.5	200.5	9.5	1.0	0.0	2.5
Merged-chr16-14132041-4	chr16	14131934	14132134	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 15 of 26)	intron (NM_001081154, intron 15 of 26)	27240.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	53.0	31.0	39.0	629.0	56.5	13.5	23.0	25.0
Merged-chr18-49982681-4	chr18	49982584	49982784	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	3257.0	NM_001177759	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	38.0	42.0	25.5	456.5	49.0	7.5	20.0	21.0
Merged-chr16-84955631-4	chr16	84955521	84955721	+	959.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 15 of 15)	intron (NM_001198825, intron 15 of 15)	-16590.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	12.5	12.5	12.0	167.5	46.5	16.0	44.0	21.5
Merged-chr8-3284249-3	chr8	3284149	3284349	+	813.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4632.0	NM_001330056	16337.0	Mm.268003	NM_010568	ENSMUSG00000005534	Insr	4932439J01Rik|CD220|D630014A15Rik|IR|IR-A|IR-B	insulin receptor	protein-coding	10.5	10.5	8.5	106.5	5.0	3.5	6.5	4.0
Merged-chr3-108416036-4	chr3	108415937	108416137	+	854.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017392)	promoter-TSS (NM_017392)	-543.0	NM_001004177	53883.0	Mm.39728	NM_017392	ENSMUSG00000068740	Celsr2	Adgrc2|EGFL2|Flamingo1|flamingo|mKIAA0279|mfmi1	cadherin, EGF LAG seven-pass G-type receptor 2	protein-coding	15.0	17.0	13.5	117.0	31.0	5.0	12.0	16.5
Merged-chr10-38623639-2	chr10	38623539	38623739	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	198140.0	NM_001177783	215919.0	Mm.294313	NM_001177783	ENSMUSG00000094311	Rfpl4b	100040915|Gm3037|Gm62	ret finger protein-like 4B	protein-coding	9.5	5.5	18.0	65.5	14.0	2.5	7.5	12.5
Merged-chr6-134433464-4	chr6	134433380	134433580	+	868.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355686, intron 5 of 5)	intron (NM_001355686, intron 5 of 5)	19052.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	8.0	9.0	1.0	159.0	35.0	7.5	23.5	24.0
Merged-chr2-27762711-4	chr2	27762612	27762812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011305, exon 10 of 10)	3' UTR (NM_011305, exon 10 of 10)	52129.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	177.5	235.5	218.0	2525.5	339.5	134.5	206.5	128.5
Merged-chr19-55709998-4	chr19	55709916	55710116	+	930.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7812.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	19.5	41.5	18.5	224.5	38.0	31.0	8.0	12.0
Merged-chr12-8502616-4	chr12	8502501	8502701	+	924.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2592.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	7.5	14.5	13.0	164.0	22.5	22.0	9.0	16.5
Merged-chr7-126097708-4	chr7	126097601	126097801	+	878.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15290.0	NM_001358885	269994.0	Mm.39599	NM_001101488	ENSMUSG00000046182	Gsg1l	AI852434|C230098I05Rik|G630023A01Rik|Gm637|g1l	GSG1-like	protein-coding	23.0	44.5	15.0	331.0	19.0	9.0	10.0	8.5
Merged-chr2-150894751-4	chr2	150894626	150894826	+	832.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	intron (NR_151505, intron 1 of 12)	10005.0	NM_024465	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	10.5	8.0	6.0	105.0	47.5	9.5	6.5	11.5
Merged-chr17-35001946-5	chr17	35001829	35002029	+	936.2999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011690, intron 2 of 29)	intron (NM_011690, intron 2 of 29)	1022.0	NM_011690	22321.0	Mm.28420	NM_011690	ENSMUSG00000007029	Vars	Bat6|D17H6S56E|G7a|Vars2	valyl-tRNA synthetase	protein-coding	5.0	3.5	4.0	104.0	22.0	6.0	5.0	5.5
Merged-chr9-56418209-4	chr9	56418100	56418300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025812)	promoter-TSS (NM_025812)	-150.0	NM_172924	244895.0	Mm.490331	NM_172924	ENSMUSG00000074305	Peak1	1110049L02Rik|9530046P14|AA690169|BE132841|C230081A13Rik|SGK269|mKIAA2002	pseudopodium-enriched atypical kinase 1	protein-coding	251.5	423.5	238.0	3302.0	680.5	263.0	307.0	280.0
Merged-chr4-66827614-4	chr4	66827516	66827716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021297)	promoter-TSS (NM_021297)	65.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	290.5	345.0	278.5	4340.0	545.0	216.0	269.5	229.5
Merged-chr2-30955050-2	chr2	30954950	30955150	+	827.083313	f1_balb.idr|f1_c57bl6.idr	intron (NM_133673, intron 2 of 4)	intron (NM_133673, intron 2 of 4)	2049.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	5.5	11.0	7.0	53.0	16.5	4.0	7.0	7.5
Merged-chr14-26442806-4	chr14	26442636	26442836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347494, intron 10 of 19)	intron (NM_001347494, intron 10 of 19)	85189.0	NR_038005	71106.0	Mm.158564	NR_038005	ENSMUSG00000021874	4933413J09Rik	GCSE	RIKEN cDNA 4933413J09 gene	ncRNA	21.5	44.5	17.5	377.5	45.0	20.5	30.0	18.5
Merged-chr8-125224618-4	chr8	125224534	125224734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 10 of 12)	intron (NM_174854, intron 10 of 12)	170439.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	32.5	54.0	37.5	756.5	74.5	28.5	53.0	37.0
Merged-chr3-95281386-2	chr3	95281286	95281486	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173347, intron 1 of 7)	CpG	690.0	NM_173347	229589.0	Mm.14155	NM_173347	ENSMUSG00000015711	Prune1	9230112O05Rik|C130058A12|DRES-17|HTCD37|PRUNEM1|Prune|Prune-M1	prune exopolyphosphatase	protein-coding	5.0	6.5	6.5	73.0	22.5	8.0	11.0	9.5
Merged-chr1-168431565-4	chr1	168431518	168431718	+	764.720825	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291509, exon 1 of 7)	5' UTR (NM_001291509, exon 1 of 7)	551.0	NM_001291509	18514.0	Mm.43358	NM_008783	ENSMUSG00000052534	Pbx1	2310056B04Rik|D230003C07Rik|Pbx-1	pre B cell leukemia homeobox 1	protein-coding	15.0	5.5	11.5	71.0	28.5	12.5	6.5	9.5
Merged-chr2-128704505-8	chr2	128704365	128704565	+	962.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	B2_Mm2|SINE|B2	5550.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	10.5	5.5	22.5	242.5	14.0	6.0	12.5	15.5
Merged-chr10-71383751-3	chr10	71383655	71383855	+	945.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347191, exon 6 of 6)	3' UTR (NM_001347191, exon 6 of 6)	35992.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	10.5	13.0	25.5	249.5	8.0	2.0	2.5	8.0
Merged-chr9-14846891-4	chr9	14846765	14846965	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13345.0	NM_001310734	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	7.5	10.5	18.5	214.5	36.5	19.5	21.5	17.5
Merged-chr5-125405141-4	chr5	125405043	125405243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15126.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	35.0	47.5	47.5	582.5	128.0	27.5	52.0	65.5
Merged-chr6-39778141-3	chr6	39778014	39778214	+	680.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32822.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	6.0	11.5	11.0	111.0	12.5	4.0	5.0	9.5
Merged-chr2-5797946-1	chr2	5797846	5798046	+	879.5	f0_balb.idr	intron (NM_133837, intron 11 of 12)	intron (NM_133837, intron 11 of 12)	-47088.0	NM_016918	53893.0	Mm.251904	NM_016918	ENSMUSG00000025817	Nudt5	-	nudix (nucleoside diphosphate linked moiety X)-type motif 5	protein-coding	11.5	13.5	20.0	221.5	4.5	3.5	3.0	9.0
Merged-chr12-41484348-3	chr12	41484233	41484433	+	834.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271708, intron 1 of 2)	intron (NM_001271708, intron 1 of 2)	1724.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	12.0	14.5	5.0	160.5	18.5	7.5	5.0	8.5
Merged-chr1-82927330-4	chr1	82927239	82927439	+	843.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16|LTR|ERVK	87879.0	NM_001347077	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	4.0	18.0	14.5	127.0	23.0	10.0	13.5	15.0
Merged-chr16-92416664-3	chr16	92416549	92416749	+	915.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-16571.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	2.5	10.5	7.5	122.0	20.5	5.5	5.5	5.0
Merged-chr12-91666817-4	chr12	91666701	91666901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	-76314.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	47.0	61.0	48.0	982.5	106.0	39.5	54.0	48.5
Merged-chr9-32562621-4	chr9	32562539	32562739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21187.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	38.0	58.5	46.5	728.0	81.0	15.0	34.0	38.0
Merged-chr9-103337157-4	chr9	103337057	103337257	+	966.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176979, intron 19 of 27)	intron (NM_176979, intron 19 of 27)	27822.0	NM_001134427	321022.0	Mm.261025	NM_175565	ENSMUSG00000032803	Cdv3	2510010F10Rik|C230084J24Rik|C79446|TPP36	carnitine deficiency-associated gene expressed in ventricle 3	protein-coding	13.5	17.5	12.5	249.0	79.5	20.0	29.0	37.5
Merged-chr5-115262084-4	chr5	115262003	115262203	+	929.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302449, intron 1 of 16)	intron (NM_001302449, intron 1 of 16)	10792.0	NM_001302448	50849.0	Mm.30051	NM_016698	ENSMUSG00000041740	Rnf10	AA675014|RIE2|mKIAA0262	ring finger protein 10	protein-coding	4.5	26.5	22.0	204.0	33.5	14.5	11.0	10.0
Merged-chr13-3742583-6	chr13	3742507	3742707	+	835.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GA)n|Simple_repeat|Simple_repeat	61711.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	14.0	5.5	14.5	239.0	32.0	6.5	15.0	13.5
Merged-chr5-103914553-2	chr5	103914453	103914653	+	895.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3294.0	NM_001359986	246293.0	Mm.179871	NM_178741	ENSMUSG00000029312	Klhl8	2310001P09Rik|D5Ertd431e	kelch-like 8	protein-coding	4.0	20.0	4.0	11.5	19.5	8.5	14.0	4.5
Merged-chr15-88128622-3	chr15	88128541	88128741	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186233.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	214.5	220.5	233.0	3620.0	2.0	0.0	0.5	0.5
Merged-chr7-25084821-4	chr7	25084701	25084901	+	754.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7994.0	NM_175477	232976.0	Mm.41568	NM_175477	ENSMUSG00000045252	Zfp574	A630056B21Rik|Znf574	zinc finger protein 574	protein-coding	4.0	25.5	11.0	130.5	30.5	6.5	11.0	11.5
Merged-chr10-118370646-4	chr10	118370543	118370743	+	970.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70403.0	NM_008337	15978.0	Mm.240327	NM_008337	ENSMUSG00000055170	Ifng	IFN-g|Ifg	interferon gamma	protein-coding	32.5	28.0	14.0	302.5	87.0	16.0	38.0	27.0
Merged-chr16-37575528-2	chr16	37575428	37575628	+	860.0833130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4625.0	NR_027778	15233.0	Mm.157442	NM_013547	ENSMUSG00000022821	Hgd	Hgo|aku	homogentisate 1, 2-dioxygenase	protein-coding	6.0	4.0	2.5	79.0	25.0	5.5	5.0	9.5
Merged-chr9-108847709-4	chr9	108847573	108847773	+	806.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359573, exon 34 of 36)	exon (NM_001359573, exon 34 of 36)	-6370.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	6.5	10.5	20.5	97.0	19.0	9.5	9.5	8.5
Merged-chr15-86274364-3	chr15	86274263	86274463	+	897.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 4 of 12)	intron (NM_145476, intron 4 of 12)	-3312.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	8.5	7.5	10.5	137.0	11.0	4.0	4.0	7.5
Merged-chr13-31225667-3	chr13	31225564	31225764	+	946.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045957, intron 1 of 2)	L1MA5A|LINE|L1	15422.0	NR_045957	73924.0	Mm.417825	NR_045957	ENSMUSG00000087460	4930401O12Rik	-	RIKEN cDNA 4930401O12 gene	ncRNA	10.5	21.0	9.0	239.5	4.0	1.0	3.5	3.0
Merged-chr10-68248832-4	chr10	68248709	68248909	+	918.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	29917.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	15.5	9.5	21.5	220.5	27.0	8.0	7.0	15.0
Merged-chr10-31445930-4	chr10	31445808	31446008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009413)	promoter-TSS (NM_009413)	50.0	NM_001359365	21987.0	Mm.439966	NM_009413	ENSMUSG00000000296	Tpd52l1	D53	tumor protein D52-like 1	protein-coding	35.5	36.0	33.0	598.5	40.5	7.5	24.5	32.0
Merged-chr11-97900012-4	chr11	97899902	97900102	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15848.0	NM_001081435	72973.0	Mm.245939	NM_001081435	ENSMUSG00000070336	Fbxo47	2900052P03Rik|Gm1562	F-box protein 47	protein-coding	8.0	23.0	7.5	156.0	50.0	7.5	11.0	23.5
Merged-chr15-98631667-4	chr15	98631554	98631754	+	942.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001044741)	promoter-TSS (NM_001044741)	-674.0	NM_001044741	12297.0	Mm.3544	NM_007581	ENSMUSG00000003352	Cacnb3	Beta3|CAB3|Ca(v)beta3|Cchb3	calcium channel, voltage-dependent, beta 3 subunit	protein-coding	26.0	33.0	12.5	198.0	25.0	23.5	26.5	19.5
Merged-chr16-16574676-4	chr16	16574560	16574760	+	981.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	-14441.0	NM_139232	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	20.5	27.0	13.0	265.5	49.5	14.0	9.0	17.0
Merged-chr14-70119581-3	chr14	70119467	70119667	+	918.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360404, intron 2 of 7)	intron (NM_001360404, intron 2 of 7)	19474.0	NM_001360404	57784.0	Mm.24186	NM_021328	ENSMUSG00000022089	Bin3	1700015F07Rik	bridging integrator 3	protein-coding	8.0	23.0	5.5	229.0	17.5	7.5	13.5	12.5
Merged-chr10-93079629-1	chr10	93079529	93079729	+	950.5	f0_c57.idr	intron (NM_001347060, intron 1 of 67)	MTD|LTR|ERVL-MaLR	1967.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	0.0	0.0	0.0	0.0	40.0	21.5	20.0	18.0
Merged-chr3-19199287-4	chr3	19199208	19199408	+	960.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356295, intron 1 of 7)	intron (NM_001356295, intron 1 of 7)	11013.0	NM_001356295	67472.0	Mm.45125	NM_026182	ENSMUSG00000027601	Mtfr1	1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2	mitochondrial fission regulator 1	protein-coding	16.5	13.5	12.5	208.0	60.5	27.0	19.0	34.5
Merged-chr3-138012580-4	chr3	138012484	138012684	+	805.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-31035.0	NM_011932	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	11.0	16.0	11.0	142.5	25.5	18.5	12.0	13.5
Merged-chr9-53673775-3	chr9	53673671	53673871	+	788.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6264.0	NM_027807	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	10.5	15.0	13.0	107.0	22.5	5.0	9.0	6.5
Merged-chr2-118976489-4	chr2	118976386	118976586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	49989.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	39.0	83.0	32.5	737.5	70.5	25.5	34.0	53.5
Merged-chr11-54092398-3	chr11	54092293	54092493	+	964.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8531.0	NM_001136076	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	7.5	15.0	7.0	170.0	18.0	15.0	10.5	15.5
Merged-chr10-19992032-2	chr10	19991945	19992145	+	728.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	57519.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	10.5	10.5	3.0	107.5	21.5	10.0	7.0	7.5
Merged-chr9-22117172-4	chr9	22117081	22117281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357309)	promoter-TSS (NM_001357309)	14.0	NM_001357311	66126.0	Mm.29801	NM_170777	ENSMUSG00000013822	Elof1	1110011K10Rik	ELF1 homolog, elongation factor 1	protein-coding	75.0	114.0	53.5	1174.0	214.0	69.0	63.0	76.5
Merged-chr11-116671609-4	chr11	116671501	116671701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027819)	promoter-TSS (NR_027819)	-59.0	NR_027821	66293.0	Mm.432051	NM_025472	ENSMUSG00000020812	1810032O08Rik	-	RIKEN cDNA 1810032O08 gene	ncRNA	97.5	159.0	67.5	1135.5	262.5	98.5	76.0	99.0
Merged-chr17-86495056-4	chr17	86494957	86495157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 9 of 14)	intron (NM_011104, intron 9 of 14)	-207879.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	70.0	97.0	75.5	1050.0	60.0	37.0	48.5	29.5
Merged-chr7-81860261-4	chr7	81860147	81860347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_111910, intron 1 of 7)	intron (NR_111910, intron 1 of 7)	1246.0	NM_145375	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	109.0	84.5	102.0	1660.5	106.5	38.0	76.5	68.0
Merged-chr2-48924967-4	chr2	48924876	48925076	+	990.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149356, intron 8 of 13)	intron (NR_149356, intron 8 of 13)	24291.0	NM_001177313	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	22.5	31.5	23.0	543.5	63.5	16.0	21.5	43.0
Merged-chr7-101379856-4	chr7	101379681	101379881	+	970.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	1659.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	6.5	20.5	13.0	216.0	26.0	17.0	10.0	13.5
Merged-chr17-87331294-4	chr17	87331188	87331388	+	852.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 10 of 19)	intron (NM_028639, intron 10 of 19)	48402.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	12.0	9.5	11.0	284.5	20.0	4.0	13.0	12.5
Merged-chr10-7271626-4	chr10	7271572	7271772	+	937.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59435.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	14.0	18.5	34.0	474.5	16.5	5.0	14.5	7.0
Merged-chr13-3526452-4	chr13	3526358	3526558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11617.0	NM_008112	14569.0	Mm.153226	NM_008112	ENSMUSG00000021218	Gdi2	GDI-B|GDIB|Gdi3	guanosine diphosphate (GDP) dissociation inhibitor 2	protein-coding	69.5	84.5	87.5	1849.0	190.0	63.0	76.5	70.0
Merged-chr16-90459215-4	chr16	90459119	90459319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 4 of 10)	intron (NM_015755, intron 4 of 10)	72822.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	72.5	101.5	49.0	941.0	167.5	90.5	64.5	41.5
Merged-chr19-45544331-4	chr19	45544260	45544460	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16204.0	NM_001330506	56626.0	Mm.46509	NM_020032	ENSMUSG00000025218	Poll	1110003P06Rik|AV007317	polymerase (DNA directed), lambda	protein-coding	8.5	17.0	7.5	101.5	18.5	9.5	7.0	16.5
Merged-chr11-72961904-3	chr11	72961818	72962018	+	828.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016745, intron 1 of 21)	intron (NM_016745, intron 1 of 21)	749.0	NM_001163337	53313.0	Mm.6306	NM_016745	ENSMUSG00000020788	Atp2a3	SERCA3b|Serca3	ATPase, Ca++ transporting, ubiquitous	protein-coding	6.5	5.5	2.5	91.0	9.0	8.0	5.5	8.0
Merged-chr11-34066819-4	chr11	34066716	34066916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	ORR1F|LTR|ERVL-MaLR	19888.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	19.5	21.0	23.5	464.5	42.0	16.5	19.0	29.5
Merged-chr19-41829847-4	chr19	41829709	41829909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008043)	promoter-TSS (NM_008043)	-161.0	NM_008043	14296.0	Mm.4573	NM_008043	ENSMUSG00000067199	Frat1	AW060382	frequently rearranged in advanced T cell lymphomas	protein-coding	38.0	38.0	50.5	407.5	150.5	68.5	55.0	67.0
Merged-chr3-65956617-3	chr3	65956512	65956712	+	876.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355433, intron 3 of 11)	intron (NM_001355433, intron 3 of 11)	1637.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	4.5	12.5	5.0	107.0	12.0	7.0	14.0	11.0
Merged-chr2-109281134-3	chr2	109281038	109281238	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139303, intron 1 of 16)	intron (NM_139303, intron 1 of 16)	400.0	NM_139303	228421.0	Mm.274086	NM_139303	ENSMUSG00000027115	Kif18a	AU024633|B130001M12Rik|gcd2	kinesin family member 18A	protein-coding	46.0	64.5	52.5	582.0	80.0	47.0	45.0	44.0
Merged-chr17-24360104-2	chr17	24359999	24360199	+	586.0	f0_balb.idr|f1_balb.idr	intron (NM_013855, intron 2 of 32)	intron (NM_013855, intron 2 of 32)	8076.0	NM_001039581	27410.0	Mm.239470	NM_013855	ENSMUSG00000024130	Abca3	1810036E22Rik|ABC-C|Abc3	ATP-binding cassette, sub-family A (ABC1), member 3	protein-coding	7.5	8.0	7.0	78.5	9.0	2.5	7.5	6.5
Merged-chr4-84360187-2	chr4	84360087	84360287	+	692.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172870, intron 4 of 5)	intron (NM_172870, intron 4 of 5)	314899.0	NM_172870	242509.0	Mm.190774	NM_172870	ENSMUSG00000028487	Bnc2	5031434M05Rik|8430420F16Rik	basonuclin 2	protein-coding	1.5	3.5	8.0	38.5	23.5	7.5	18.5	9.0
Merged-chr13-52589248-4	chr13	52589145	52589345	+	996.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198977, intron 1 of 13)	intron (NM_001198977, intron 1 of 13)	5808.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	35.0	47.5	34.0	862.5	58.0	13.5	36.0	22.0
Merged-chr10-81627351-1	chr10	81627251	81627451	+	1000.0	f0_c57.idr	promoter-TSS (NM_001163430)	promoter-TSS (NM_001163430)	-29.0	NM_001163430	50721.0	Mm.25643	NM_181586	ENSMUSG00000034748	Sirt6	2810449N18Rik|AI043036|Sir2l6	sirtuin 6	protein-coding	32.0	57.5	25.5	366.5	78.0	39.5	52.5	46.5
Merged-chr11-20917747-1	chr11	20917647	20917847	+	561.5	f0_balb.idr	Intergenic	Intergenic	-86639.0	NM_173752	216551.0	Mm.76694	NM_173752	ENSMUSG00000042363	Lgalsl	1110067D22Rik|A530071M23|Grpa|Hspc159|Lgalsla	lectin, galactoside binding-like	protein-coding	8.5	4.5	7.5	83.5	0.0	0.0	0.5	2.5
Merged-chr14-63117207-4	chr14	63117114	63117314	+	914.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5248.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	7.0	23.0	10.0	178.0	23.0	10.5	10.0	8.5
Merged-chr9-21357535-3	chr9	21357442	21357642	+	857.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10329.0	NM_001042708	16201.0	Mm.440026	NM_010561	ENSMUSG00000032178	Ilf3	MBII-26|MPHOSPH4|NF90|NFAR	interleukin enhancer binding factor 3	protein-coding	11.0	20.0	6.0	38.5	22.0	8.5	7.5	5.5
Merged-chr2-155402154-3	chr2	155402016	155402216	+	865.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019825, intron 11 of 13)	intron (NM_019825, intron 11 of 13)	20260.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	25.0	17.0	14.0	351.5	12.5	7.5	2.5	6.0
Merged-chr6-47561014-4	chr6	47560917	47561117	+	975.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146689, intron 3 of 19)	intron (NM_001146689, intron 3 of 19)	34013.0	NM_001146689	14056.0	Mm.246688	NM_007971	ENSMUSG00000029687	Ezh2	Enx-1|Enx1h|KMT6|mKIAA4065	enhancer of zeste 2 polycomb repressive complex 2 subunit	protein-coding	12.0	42.5	18.0	224.0	57.0	16.5	17.5	3.0
Merged-chr13-9380932-4	chr13	9380841	9381041	+	921.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	104416.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	11.5	20.5	10.5	223.0	63.5	15.0	13.5	17.5
Merged-chr7-16052039-4	chr7	16051964	16052164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19781.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	25.0	41.5	25.0	464.5	65.5	42.5	43.0	33.5
Merged-chr14-55815546-4	chr14	55815453	55815653	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-9242.0	NM_001168346	73181.0	Mm.27908	NM_023699	ENSMUSG00000023411	Nfatc4	3110041H08Rik|AW107667|AW546455|Nfat3	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 4	protein-coding	42.0	78.5	37.5	665.0	81.5	35.0	17.0	35.5
Merged-chr17-80560962-4	chr17	80560865	80561065	+	971.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360144, intron 1 of 9)	intron (NM_001360144, intron 1 of 9)	2869.0	NM_001033443	381113.0	Mm.329216	NM_001033443	ENSMUSG00000033966	Cdkl4	AU067824|Gm942	cyclin-dependent kinase-like 4	protein-coding	28.0	17.5	11.0	330.5	63.0	24.0	18.5	24.0
Merged-chr13-19874982-1	chr13	19874882	19875082	+	903.6666869999999	f0_balb.idr	Intergenic	Lx8b|LINE|L1	-50725.0	NM_181754	353346.0	Mm.239268	NM_181754	ENSMUSG00000053101	Gpr141	PGR13	G protein-coupled receptor 141	protein-coding	11.5	30.5	11.5	185.5	3.5	1.0	2.5	2.5
Merged-chr4-16119605-4	chr4	16119503	16119703	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44040.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	21.0	24.0	29.5	534.0	57.0	24.0	28.5	19.0
Merged-chr6-55056237-3	chr6	55056125	55056325	+	885.211121	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_180678, intron 7 of 16)	MER3|DNA|hAT-Charlie	18224.0	NM_180678	353172.0	Mm.250004	NM_180678	ENSMUSG00000029777	Gars	GENA202|Gena201|Nmf249|Sgrp23	glycyl-tRNA synthetase	protein-coding	2.5	1.0	1.0	16.5	41.0	9.0	15.0	21.0
Merged-chr16-81202178-4	chr16	81202077	81202277	+	798.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113208, intron 1 of 17)	intron (NM_001113208, intron 1 of 17)	1480.0	NM_010954	17968.0	Mm.433941	NM_010954	ENSMUSG00000022762	Ncam2	Ncam-2|Ocam|RNCAM	neural cell adhesion molecule 2	protein-coding	4.0	18.5	7.5	185.5	33.0	5.0	12.0	12.0
Merged-chr13-32338739-4	chr13	32338629	32338829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146041)	promoter-TSS (NM_146041)	-185.0	NM_146041	218138.0	Mm.247143	NM_146041	ENSMUSG00000038372	Gmds	BC031788|C87208	GDP-mannose 4, 6-dehydratase	protein-coding	317.0	498.5	396.5	5139.0	795.5	341.5	463.0	363.5
Merged-chr19-34519827-4	chr19	34519718	34519918	+	951.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	7656.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	18.5	35.5	8.5	215.0	25.5	15.5	9.0	16.0
Merged-chr12-111401648-3	chr12	111401546	111401746	+	953.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5163.0	NM_001101503	380787.0	Mm.125602	NM_001101503	ENSMUSG00000087075	Lbhd2	A230065H16Rik|Gm898|Lbh2	LBH domain containing 2	protein-coding	2.5	16.0	2.5	63.0	36.5	6.0	15.0	19.5
Merged-chr5-30888528-4	chr5	30888435	30888635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001294262)	promoter-TSS (NM_001294262)	-317.0	NM_174849	231093.0	Mm.440364	NM_174849	ENSMUSG00000029165	Agbl5	9430057O19Rik|CCP5	ATP/GTP binding protein-like 5	protein-coding	36.0	39.0	15.0	346.5	74.5	34.5	29.0	31.5
Merged-chr4-9605629-4	chr4	9605533	9605733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177854, intron 3 of 11)	Tigger7|DNA|TcMar-Tigger	38084.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	188.0	205.5	157.0	2687.5	332.5	120.5	117.5	144.5
Merged-chr15-102326147-4	chr15	102326027	102326227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027044)	promoter-TSS (NM_027044)	11.0	NM_027044	56612.0	Mm.158264	NM_020031	ENSMUSG00000001289	Pfdn5	1190001O17Rik|1700010A06Rik|D15Ertd697e|Eig1|MM-1	prefoldin 5	protein-coding	29.0	28.0	14.5	229.5	60.5	22.5	27.5	27.5
Merged-chr5-148536360-3	chr5	148536256	148536456	+	767.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 3 of 6)	intron (NM_001359199, intron 3 of 6)	15317.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	5.0	11.0	1.0	73.5	5.5	6.0	10.0	8.5
Merged-chr4-53337763-3	chr4	53337677	53337877	+	818.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67545.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	7.5	12.0	11.5	256.0	8.0	2.5	4.5	4.0
Merged-chr2-146834982-2	chr2	146834868	146835068	+	656.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20921.0	NM_001033298	228730.0	Mm.292352	NM_001033298	ENSMUSG00000074749	Kiz	Gm114|Ncrna00153|Plk1s1	kizuna centrosomal protein	protein-coding	13.5	14.0	6.5	131.0	8.5	9.5	2.0	12.0
Merged-chr17-31082559-3	chr17	31082534	31082734	+	891.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	MTD|LTR|ERVL-MaLR	24940.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	16.0	7.5	13.5	94.0	12.0	7.5	7.0	5.5
Merged-chr3-61413410-4	chr3	61413278	61413478	+	817.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48871.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	7.0	13.5	12.5	147.0	15.5	8.0	14.5	7.5
Merged-chr1-170806369-4	chr1	170806276	170806476	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081304, intron 9 of 15)	intron (NM_001081304, intron 9 of 15)	61395.0	NM_001081304	226641.0	Mm.377046	NM_001081304	ENSMUSG00000026663	Atf6	9130025P16Rik|9630036G24|AA789574|Atf6alpha|ESTM49	activating transcription factor 6	protein-coding	42.5	26.0	28.0	455.5	42.0	17.5	33.5	19.0
Merged-chr11-43492895-4	chr11	43492802	43493002	+	768.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18596.0	NM_026979	69183.0	Mm.390374	NM_026979	ENSMUSG00000046491	C1qtnf2	1810033K05Rik|CTRP2	C1q and tumor necrosis factor related protein 2	protein-coding	11.5	6.0	6.5	132.0	22.5	9.0	10.0	9.5
Merged-chr1-167339546-4	chr1	167339413	167339613	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-10478.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	23.0	33.0	40.5	485.0	42.5	6.0	15.0	28.5
Merged-chr5-36830668-4	chr5	36830547	36830747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008550)	promoter-TSS (NM_008550)	2.0	NM_008550	17160.0	Mm.761	NM_008550	ENSMUSG00000029119	Man2b2	mKIAA0935	mannosidase 2, alpha B2	protein-coding	80.5	78.5	64.5	921.5	145.5	59.0	79.0	65.5
Merged-chr13-37462289-4	chr13	37462171	37462371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116926.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	53.5	57.0	66.5	980.5	59.0	34.5	39.5	42.0
Merged-chr11-58928484-4	chr11	58928394	58928594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10412.0	NM_022423	108660.0	Mm.249986	NM_022423	ENSMUSG00000020496	Rnf187	2410016F01Rik|AB030190|RACO-1	ring finger protein 187	protein-coding	77.5	93.5	78.5	759.0	278.0	76.5	103.5	79.0
Merged-chr2-164936134-4	chr2	164935999	164936199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	-12120.0	NM_013599	17395.0	Mm.4406	NM_013599	ENSMUSG00000017737	Mmp9	AW743869|B/MMP9|Clg4b|Gel B|MMP-9|pro-MMP-9	matrix metallopeptidase 9	protein-coding	65.0	68.5	86.0	988.5	144.0	47.5	58.0	57.5
Merged-chr14-118700180-4	chr14	118700063	118700263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163676, intron 1 of 29)	MTC|LTR|ERVL-MaLR	6056.0	NM_001163676	239273.0	Mm.40537	NM_001033336	ENSMUSG00000032849	Abcc4	ABCC4-N1|D630049P08Rik|MOATB|MRP4	ATP-binding cassette, sub-family C (CFTR/MRP), member 4	protein-coding	28.5	35.5	24.5	389.5	130.0	38.0	63.0	49.0
Merged-chr15-97422764-4	chr15	97422678	97422878	+	840.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175491.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	13.5	12.5	12.5	113.0	34.0	2.5	9.0	16.5
Merged-chr3-109335674-4	chr3	109335597	109335797	+	935.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-4986.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	13.5	24.5	12.5	457.0	57.0	11.5	20.5	32.0
Merged-chr2-3622424-4	chr2	3622310	3622510	+	945.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-91048.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	24.0	21.5	9.5	157.0	39.5	27.5	16.0	11.5
Merged-chr1-43903019-3	chr1	43902915	43903115	+	903.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30979.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	7.0	12.5	6.5	90.0	14.0	8.0	4.0	3.5
Merged-chr11-70653325-4	chr11	70653215	70653415	+	958.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011072, intron 1 of 2)	G-rich|Low_complexity|Low_complexity	1335.0	NM_011072	18643.0	Mm.2647	NM_011072	ENSMUSG00000018293	Pfn1	Pfn	profilin 1	protein-coding	12.0	26.5	11.5	114.0	49.5	20.0	23.5	25.0
Merged-chr7-97751546-4	chr7	97751501	97751701	+	687.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-13354.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	3.5	10.0	6.5	94.5	19.5	6.0	6.0	12.5
Merged-chr19-53330269-4	chr19	53330182	53330382	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008543)	promoter-TSS (NM_001008543)	-126.0	NM_001008543	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	15.5	23.0	44.5	543.5	37.0	17.5	28.5	25.0
Merged-chr3-9027521-4	chr3	9027423	9027623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22800.0	NM_001357075	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	167.5	276.0	197.0	2723.5	259.5	86.0	112.0	103.0
Merged-chr1-66649990-8	chr1	66649905	66650105	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175510, intron 47 of 64)	intron (NM_175510, intron 47 of 64)	-50826.0	NM_025683	66646.0	Mm.240912	NM_025683	ENSMUSG00000026005	Rpe	2810429B02Rik|5730518J08Rik	ribulose-5-phosphate-3-epimerase	protein-coding	6.0	10.0	9.5	73.5	15.0	9.5	4.5	5.5
Merged-chr13-64048700-4	chr13	64048606	64048806	+	958.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40495.0	NM_008291	15487.0	Mm.5109	NM_008291	ENSMUSG00000033122	Hsd17b3	-	hydroxysteroid (17-beta) dehydrogenase 3	protein-coding	29.0	21.5	26.5	421.0	36.0	8.0	15.0	22.0
Merged-chr19-12000887-3	chr19	12000788	12000988	+	934.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35044.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	10.5	16.5	8.5	128.0	14.0	3.5	6.5	18.0
Merged-chr16-90710498-3	chr16	90710412	90710612	+	680.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16859.0	NM_025642	66578.0	Mm.180363	NM_025642	ENSMUSG00000022978	Mis18a	2610039C10Rik|2810018N07Rik	MIS18 kinetochore protein A	protein-coding	6.0	7.0	11.0	89.0	11.5	4.5	5.0	3.5
Merged-chr4-59806308-1	chr4	59806208	59806408	+	921.6666869999999	f0_balb.idr	intron (NM_172468, intron 1 of 8)	CpG	658.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	16.0	14.5	13.0	202.0	17.5	13.0	6.5	17.5
Merged-chr9-108691562-4	chr9	108691454	108691654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008924)	promoter-TSS (NM_008924)	-589.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	115.5	109.0	126.0	1358.5	179.5	43.0	117.0	90.0
Merged-chr16-3895678-4	chr16	3895590	3895790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153801, intron 3 of 3)	ORR1E|LTR|ERVL-MaLR	11071.0	NM_001290689	74763.0	Mm.28403	NM_029090	ENSMUSG00000005982	Naa60	1200013P24Rik|AI315146|HAT4|Nat15|NatF	N(alpha)-acetyltransferase 60, NatF catalytic subunit	protein-coding	103.5	121.0	80.0	1412.5	132.5	62.0	80.0	66.5
Merged-chr5-121593634-4	chr5	121593539	121593739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001308450, exon 1 of 11)	5' UTR (NM_001308450, exon 1 of 11)	185.0	NM_009656	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	52.0	29.0	47.5	649.5	83.5	29.0	44.5	33.0
Merged-chr17-8284544-3	chr17	8284444	8284644	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018819, intron 1 of 3)	CpG	731.0	NM_018819	55951.0	Mm.288510	NM_018819	ENSMUSG00000023861	Mpc1	0610006G08Rik|3830411I18Rik|Brp44l	mitochondrial pyruvate carrier 1	protein-coding	13.0	10.5	17.0	109.5	34.5	15.0	20.0	13.5
Merged-chr13-21453054-2	chr13	21452954	21453154	+	774.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347491, intron 1 of 5)	L2a|LINE|L2	673.0	NM_001013786	432731.0	Mm.390557	NM_001013786	ENSMUSG00000022228	Zscan26	BC068174|Zfp187|Znf187	zinc finger and SCAN domain containing 26	protein-coding	5.0	8.5	8.0	80.5	8.0	3.0	4.5	5.5
Merged-chr15-39616894-4	chr15	39616766	39616966	+	915.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053271, intron 22 of 26)	intron (NM_053271, intron 22 of 26)	-42645.0	NM_001256384	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	3.5	12.5	11.0	296.0	22.0	7.5	13.0	6.5
Merged-chr2-157129987-4	chr2	157129861	157130061	+	882.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139520, intron 1 of 16)	intron (NM_001139520, intron 1 of 16)	5261.0	NM_001139520	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	9.5	14.0	8.5	97.5	27.5	7.5	6.5	8.5
Merged-chr2-154687752-3	chr2	154687646	154687846	+	640.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029362, intron 1 of 4)	intron (NM_029362, intron 1 of 4)	30720.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	5.0	4.5	6.5	82.5	5.0	3.0	2.0	12.0
Merged-chr8-104099519-4	chr8	104099432	104099632	+	835.741638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131138, intron 1 of 2)	intron (NR_131138, intron 1 of 2)	-2093.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	14.5	21.0	7.0	166.0	21.5	12.5	14.0	13.5
Merged-chr13-94298629-4	chr13	94298504	94298704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER77B|LTR|ERVL	-12773.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	63.0	96.0	67.5	1416.0	152.0	53.0	60.5	74.5
Merged-chr6-94509457-4	chr6	94509338	94509538	+	961.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026255, intron 2 of 9)	intron (NM_026255, intron 2 of 9)	9124.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	68.0	105.0	85.0	1242.0	72.0	18.0	26.5	16.0
Merged-chr17-5206972-4	chr17	5206866	5207066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	211801.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	66.5	90.5	51.5	1182.0	136.5	76.5	62.5	82.5
Merged-chr8-69902430-3	chr8	69902329	69902529	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_032004, exon 1 of 1)	exon (NM_032004, exon 1 of 1)	129.0	NM_023312	67184.0	Mm.21162	NM_023312	ENSMUSG00000036199	Ndufa13	2700054G14Rik|AU022060|CDA016|CGI-39|GRIM-19|Grim19	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13	protein-coding	12.0	19.0	6.0	147.5	17.0	8.0	14.0	23.5
Merged-chr15-86228399-4	chr15	86228312	86228512	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145476, intron 1 of 12)	Tigger5b|DNA|TcMar-Tigger	13953.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	19.5	26.0	16.0	195.5	40.5	12.5	13.0	15.5
Merged-chr11-63020841-4	chr11	63020749	63020949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16715.0	NR_126547	74884.0	Mm.363520	NR_126547	ENSMUSG00000087604	Cdrt4os1	4930452L02Rik	CMT1A duplicated region transcript 4, opposite strand 1	ncRNA	36.0	38.0	42.0	706.5	81.0	30.5	45.5	16.5
Merged-chr8-120486596-4	chr8	120486525	120486725	+	814.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2241.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	7.0	12.5	11.5	81.5	24.5	11.5	16.0	6.0
Merged-chr18-5101533-4	chr18	5101456	5101656	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347449, intron 22 of 30)	MRLTR33|LTR|ERVK	54967.0	NM_001347449	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	23.5	70.5	51.5	816.5	46.0	9.0	14.0	15.0
Merged-chr8-53607665-2	chr8	53607568	53607768	+	818.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_146208, intron 4 of 9)	MTB|LTR|ERVL-MaLR	31397.0	NM_146208	234258.0	Mm.281749	NM_146208	ENSMUSG00000039396	Neil3	AI449477|BC034753|C85903	nei like 3 (E. coli)	protein-coding	12.0	9.0	6.0	40.5	15.0	6.5	9.0	7.0
Merged-chr11-98203698-3	chr11	98203634	98203834	+	996.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001109626, exon 1 of 14)	exon (NM_001109626, exon 1 of 14)	429.0	NM_001109626	69131.0	Mm.260516	NM_026952	ENSMUSG00000003119	Cdk12	1810022J16Rik|AI646528|Crk7|Crkrs|D11Ertd752e|Pksc	cyclin-dependent kinase 12	protein-coding	15.0	21.5	6.0	250.0	54.5	17.5	7.0	17.5
Merged-chr10-78134594-4	chr10	78134490	78134690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35178.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	45.5	61.5	45.5	494.5	130.5	41.5	53.5	35.5
Merged-chr4-134734634-7	chr4	134734544	134734744	+	906.88092	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30354.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	13.0	15.0	12.5	220.0	26.0	11.5	15.5	15.5
Merged-chr14-65389888-4	chr14	65389794	65389994	+	875.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199029, intron 4 of 9)	intron (NM_199029, intron 4 of 9)	31218.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	7.0	17.0	7.5	220.0	37.5	5.0	12.0	12.0
Merged-chr14-54442728-4	chr14	54442604	54442804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008608)	TTS (NM_008608)	11106.0	NM_008608	17387.0	Mm.280175	NM_008608	ENSMUSG00000000957	Mmp14	AI325305|MMP-X1|MT-MMP-1|MT1-MMP|sabe	matrix metallopeptidase 14 (membrane-inserted)	protein-coding	84.0	200.5	104.5	552.5	270.0	109.0	92.0	55.5
Merged-chr16-29607294-4	chr16	29607209	29607409	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133752, intron 7 of 28)	intron (NM_133752, intron 7 of 28)	27975.0	NM_001199177	74143.0	Mm.274285	NM_133752	ENSMUSG00000038084	Opa1	1200011N24Rik|AI225888|AI847218|lilr3|mKIAA0567	OPA1, mitochondrial dynamin like GTPase	protein-coding	32.0	49.5	18.5	531.5	18.0	12.5	22.0	9.0
Merged-chr1-151817075-4	chr1	151816962	151817162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311165, intron 20 of 20)	intron (NM_001311165, intron 20 of 20)	61688.0	NM_001311166	66967.0	Mm.337691	NM_001039644	ENSMUSG00000043019	Edem3	2310050N11Rik	ER degradation enhancer, mannosidase alpha-like 3	protein-coding	33.5	63.0	55.0	595.5	97.0	26.5	59.5	50.5
Merged-chr7-66136437-1	chr7	66136337	66136537	+	764.0	f0_balb.idr	intron (NM_001081163, intron 2 of 2)	intron (NM_001081163, intron 2 of 2)	26922.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	12.5	10.0	10.0	262.5	9.0	10.5	10.0	9.0
Merged-chr8-71603164-3	chr8	71603083	71603283	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166213, intron 8 of 14)	intron (NM_001166213, intron 8 of 14)	5537.0	NM_001166213	100037278.0	Mm.482159	NM_001166213	ENSMUSG00000043243	Fam129c	Bcnp1	family with sequence similarity 129, member C	protein-coding	8.5	11.0	6.5	47.5	334.5	145.0	118.5	56.0
Merged-chr7-83802724-4	chr7	83802625	83802825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7886.0	NM_029335	75556.0	Mm.17649	NM_029335	ENSMUSG00000011154	Cfap161	1700026D08Rik|AW047638|AW551802	cilia and flagella associated protein 161	protein-coding	77.5	76.5	65.0	1275.5	135.5	53.0	66.0	81.5
Merged-chr13-20185307-4	chr13	20185189	20185389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	94782.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	35.0	48.0	22.5	500.0	186.0	58.0	44.5	41.0
Merged-chr3-115924545-3	chr3	115924446	115924646	+	954.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027193, intron 5 of 7)	intron (NM_027193, intron 5 of 7)	36363.0	NM_027193	69740.0	Mm.5915	NM_027193	ENSMUSG00000033554	Dph5	2410012M04Rik|AU045680|C80186	diphthamide biosynthesis 5	protein-coding	23.0	13.0	26.5	477.0	3.0	0.0	2.0	0.0
Merged-chr15-58888999-4	chr15	58888885	58889085	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175226)	promoter-TSS (NM_175226)	-244.0	NM_175226	75841.0	Mm.4537	NM_175226	ENSMUSG00000037075	Rnf139	4930555P18Rik	ring finger protein 139	protein-coding	140.0	225.0	144.5	1649.0	381.0	161.0	159.5	141.0
Merged-chr5-24578793-4	chr5	24578687	24578887	+	948.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1320.0	NM_001190443	27407.0	Mm.21629	NM_013853	ENSMUSG00000028953	Abcf2	0710005O05Rik|Drr3|E430001O06	ATP-binding cassette, sub-family F (GCN20), member 2	protein-coding	16.5	24.0	8.5	236.0	65.0	14.5	18.0	29.5
Merged-chr15-103333889-4	chr15	103333777	103333977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013866, intron 1 of 7)	intron (NM_013866, intron 1 of 7)	461.0	NM_001356627	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	38.5	63.5	20.5	604.5	82.0	31.5	41.0	38.0
Merged-chr3-81134949-4	chr3	81134849	81135049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357746, intron 2 of 6)	intron (NM_001357746, intron 2 of 6)	98533.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	40.0	78.0	88.5	1073.0	148.0	51.0	69.0	36.0
Merged-chr2-84387523-4	chr2	84387422	84387622	+	945.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018782, intron 2 of 15)	intron (NM_018782, intron 2 of 15)	37744.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	5.5	20.0	13.5	211.0	97.0	12.5	29.0	20.0
Merged-chr13-105310947-8	chr13	105310845	105311045	+	892.2177730000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-16460.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	21.5	25.5	15.5	371.5	35.5	16.5	15.5	7.5
Merged-chr2-167351097-4	chr2	167350996	167351196	+	975.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1918.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	24.0	40.0	16.0	448.0	66.0	8.5	22.0	31.5
Merged-chr17-28308944-4	chr17	28308848	28309048	+	779.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4582.0	NR_028297	72775.0	Mm.201859	NM_028348	ENSMUSG00000007570	Fance	2810451D06Rik|AI415634|AW209126	Fanconi anemia, complementation group E	protein-coding	16.5	16.0	8.5	121.0	23.0	8.0	8.5	8.0
Merged-chr19-21644185-3	chr19	21644113	21644313	+	811.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025423, intron 1 of 3)	intron (NM_025423, intron 1 of 3)	8578.0	NM_025423	66206.0	Mm.272430	NM_025423	ENSMUSG00000035171	1110059E24Rik	-	RIKEN cDNA 1110059E24 gene	protein-coding	6.0	4.5	1.5	90.5	11.5	6.5	5.0	14.5
Merged-chr15-36695742-4	chr15	36695636	36695836	+	975.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-86763.0	NM_008774	18458.0	Mm.371570	NM_008774	ENSMUSG00000022283	Pabpc1	PABP|Pabp1|PabpI|Pabpl1|ePAB	poly(A) binding protein, cytoplasmic 1	protein-coding	25.0	10.0	16.0	323.0	74.5	27.5	28.5	20.0
Merged-chr12-82170054-4	chr12	82169912	82170112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167983)	promoter-TSS (NM_001167983)	-4.0	NM_001167983	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	23.5	26.5	10.0	227.0	72.0	30.5	22.5	28.0
Merged-chr7-28050157-4	chr7	28050059	28050259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011874)	promoter-TSS (NM_011874)	-67.0	NM_011874	23996.0	Mm.29582	NM_011874	ENSMUSG00000030603	Psmc4	CIP21|MIP224	proteasome (prosome, macropain) 26S subunit, ATPase, 4	protein-coding	293.0	480.0	261.5	4968.0	606.0	240.0	278.5	219.0
Merged-chr5-64795938-4	chr5	64795854	64796054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7569.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	138.5	251.5	163.0	2505.5	330.0	162.5	156.0	143.0
Merged-chr11-73133223-4	chr11	73133109	73133309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361245, intron 24 of 30)	intron (NM_001361245, intron 24 of 30)	5085.0	NM_010353	14841.0	Mm.42045	NM_010353	ENSMUSG00000050107	Haspin	Gsg2	histone H3 associated protein kinase	protein-coding	35.0	69.0	18.5	666.5	129.5	38.0	25.5	52.0
Merged-chr6-51567465-3	chr6	51567357	51567557	+	857.2333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 2 of 6)	intron (NM_001361577, intron 2 of 6)	22164.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	21.0	29.0	9.0	180.0	16.0	5.5	5.0	1.0
Merged-chr9-48745175-4	chr9	48745083	48745283	+	927.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033324, intron 2 of 6)	intron (NM_001033324, intron 2 of 6)	90762.0	NM_001033324	235320.0	Mm.457803	NM_001033324	ENSMUSG00000066687	Zbtb16	AI467657|PLZF|Zfp145|lu	zinc finger and BTB domain containing 16	protein-coding	11.0	5.0	15.0	136.0	29.0	20.5	15.0	33.0
Merged-chr7-142373480-2	chr7	142373404	142373604	+	559.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347541, intron 1 of 2)	intron (NM_001347541, intron 1 of 2)	242.0	NM_001347541	320802.0	Mm.154486	NM_177265	ENSMUSG00000045777	Ifitm10	6330512M04Rik|AI848576|DSPA3	interferon induced transmembrane protein 10	protein-coding	1.5	0.5	0.0	40.5	11.0	4.5	5.0	9.5
Merged-chr5-64381770-4	chr5	64381664	64381864	+	933.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86178.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	18.5	12.0	9.5	160.5	36.0	14.0	9.0	18.0
Merged-chr5-30073549-3	chr5	30073443	30073643	+	926.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033402)	promoter-TSS (NR_033402)	82.0	NR_033402	22171.0	Mm.268395	NM_021288	ENSMUSG00000025747	Tyms	Ts	thymidylate synthase	protein-coding	7.5	3.5	7.0	142.5	14.0	8.5	5.5	7.5
Merged-chr11-55033416-4	chr11	55033285	55033485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110211)	promoter-TSS (NM_001110211)	86.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	64.0	105.5	41.0	597.5	151.0	50.5	45.5	33.0
Merged-chr9-123058891-4	chr9	123058777	123058977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177911, intron 10 of 13)	L1M4|LINE|L1	24136.0	NM_177911	331046.0	Mm.195309	NM_177911	ENSMUSG00000025787	Tgm4	9530008N10Rik|Eapa1|TGP	transglutaminase 4 (prostate)	protein-coding	22.5	58.5	60.5	643.0	115.5	41.0	71.0	54.0
Merged-chr6-97149906-4	chr6	97149802	97150002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-1019.0	NM_175313	101351.0	Mm.116802	NM_175313	ENSMUSG00000035245	Eogt	A130022J15Rik|AI447490|AW214473|AW259391|Aer61	EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase	protein-coding	73.5	107.5	99.0	1728.0	166.0	63.5	72.0	107.0
Merged-chr7-141491105-4	chr7	141491002	141491202	+	979.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252588, intron 4 of 7)	intron (NM_001252588, intron 4 of 7)	14722.0	NM_001252588	64540.0	Mm.489619	NM_053082	ENSMUSG00000025511	Tspan4	AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4	tetraspanin 4	protein-coding	49.5	41.0	34.5	513.0	65.0	18.5	42.5	27.5
Merged-chr3-94581416-3	chr3	94581317	94581517	+	868.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082484, intron 1 of 11)	intron (NM_001082484, intron 1 of 11)	1299.0	NM_001082484	76742.0	Mm.28160	NM_029721	ENSMUSG00000028136	Snx27	5730552M22Rik|ESTM45|ESTM47|R75405	sorting nexin family member 27	protein-coding	6.5	7.5	7.0	133.5	16.5	6.0	0.0	4.0
Merged-chr8-33931773-4	chr8	33931671	33931871	+	803.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1908.0	NM_001042675	19663.0	Mm.323997	NM_019733	ENSMUSG00000031586	Rbpms	2010300K22Rik|2700019M19Rik|AU017537|RBP-MS|hermes	RNA binding protein gene with multiple splicing	protein-coding	3.5	10.0	10.0	65.0	27.5	11.5	10.0	8.0
Merged-chr1-134302929-4	chr1	134302823	134303023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144855, intron 25 of 28)	intron (NM_001144855, intron 25 of 28)	12919.0	NM_031189	17928.0	Mm.16528	NM_031189	ENSMUSG00000026459	Myog	MYF4|bHLHc3|myo	myogenin	protein-coding	59.0	94.0	64.0	915.5	111.5	42.5	55.0	61.0
Merged-chr6-131281667-3	chr6	131281551	131281751	+	907.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	11593.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	1.0	3.0	6.0	42.5	44.5	15.5	21.5	13.0
Merged-chr14-54377327-4	chr14	54377208	54377408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 6 of 11)	intron (NM_011405, intron 6 of 11)	16467.0	NM_026936	69089.0	Mm.182340	NM_026936	ENSMUSG00000000959	Oxa1l	1810020M02Rik|AI894287	oxidase assembly 1-like	protein-coding	85.5	114.0	93.5	1075.5	77.5	29.0	28.0	27.0
Merged-chr5-63971264-3	chr5	63971169	63971369	+	848.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2372.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	9.0	8.5	3.5	99.5	15.0	6.5	9.0	6.0
Merged-chr1-152903322-4	chr1	152903225	152903425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359257)	promoter-TSS (NM_001359257)	-679.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	202.5	282.0	126.5	2177.0	474.0	208.5	173.5	214.5
Merged-chr8-35466895-3	chr8	35466773	35466973	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026067, exon 7 of 7)	3' UTR (NM_026067, exon 7 of 7)	28660.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	75.0	85.0	121.0	1467.0	24.0	2.0	2.5	6.5
Merged-chr7-123170547-7	chr7	123170430	123170630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144925, exon 6 of 24)	exon (NM_144925, exon 6 of 24)	-44336.0	NM_146198	233836.0	Mm.211838	NM_146198	ENSMUSG00000030769	Slc5a11	2010013B02Rik|Kst1|RKST2|SMIT2|Slc5a10	solute carrier family 5 (sodium/glucose cotransporter), member 11	protein-coding	18.0	55.0	46.0	339.0	32.0	28.0	20.0	22.0
Merged-chr7-90129472-4	chr7	90129367	90129567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146194)	promoter-TSS (NM_146194)	7.0	NR_046006	78329.0	Mm.389940	NR_046006	ENSMUSG00000097162	2310010J17Rik	-	RIKEN cDNA 2310010J17 gene	ncRNA	184.5	313.0	190.5	2704.5	363.5	170.5	209.0	152.0
Merged-chr17-33780719-4	chr17	33780614	33780814	+	946.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020581, intron 2 of 6)	intron (NM_020581, intron 2 of 6)	861.0	NM_020581	57875.0	Mm.196189	NM_020581	ENSMUSG00000002289	Angptl4	Arp4|Bk89|Fiaf|Hfarp|Ng27|Pgar|Pgarg|Pp1158	angiopoietin-like 4	protein-coding	13.5	25.5	21.0	234.5	81.0	30.5	18.0	13.5
Merged-chr7-43351368-3	chr7	43351271	43351471	+	897.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271019)	promoter-TSS (NM_001271019)	30.0	NM_145581	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	9.0	16.0	6.5	128.0	15.5	9.5	8.0	11.0
Merged-chr11-46793077-4	chr11	46792983	46793183	+	953.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	-17716.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	20.0	32.5	35.5	443.0	63.5	16.0	13.0	35.0
Merged-chr12-81591626-4	chr12	81591511	81591711	+	946.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347384, intron 1 of 7)	intron (NM_001347384, intron 1 of 7)	3397.0	NM_001347385	69792.0	Mm.279993	NM_027213	ENSMUSG00000002679	Med6	1500012F11Rik|AU019660|AV213303	mediator complex subunit 6	protein-coding	8.0	50.5	21.0	292.5	58.5	18.5	12.0	15.5
Merged-chr15-64001629-4	chr15	64001518	64001718	+	902.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144846, intron 1 of 11)	intron (NM_144846, intron 1 of 11)	-3552.0	NM_001360035	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	12.5	31.5	12.5	265.0	21.5	14.5	18.5	9.5
Merged-chr10-128057913-4	chr10	128057812	128058012	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1070.0	NM_019766	56351.0	Mm.305816	NM_019766	ENSMUSG00000071072	Ptges3	5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177	prostaglandin E synthase 3	protein-coding	21.5	33.5	11.5	246.5	56.0	13.0	7.5	12.0
Merged-chr13-52618758-4	chr13	52618662	52618862	+	844.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011518, intron 3 of 13)	intron (NM_011518, intron 3 of 13)	21880.0	NM_011518	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	16.0	9.0	9.5	166.5	27.5	5.5	5.5	17.5
Merged-chr11-29879880-3	chr11	29879783	29879983	+	957.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 7 of 41)	intron (NM_146016, intron 7 of 41)	-54215.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	7.0	10.0	16.0	274.0	16.0	4.0	6.0	11.0
Merged-chr17-84935797-2	chr17	84935700	84935900	+	677.200012	f0_balb.idr|f0_c57.idr	intron (NR_027929, intron 2 of 3)	intron (NR_027929, intron 2 of 3)	-20941.0	NM_001159497	19043.0	Mm.249695	NM_011151	ENSMUSG00000061130	Ppm1b	PP2CB	protein phosphatase 1B, magnesium dependent, beta isoform	protein-coding	6.0	9.0	5.0	381.0	21.0	10.0	12.0	13.0
Merged-chr14-14600057-5	chr14	14599859	14600059	+	994.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103066.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	23.0	7.5	27.0	235.0	24.0	8.0	16.0	18.0
Merged-chr6-136714328-4	chr6	136714213	136714413	+	956.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145067, intron 19 of 25)	MIR3|SINE|MIR	-52420.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	29.0	20.0	21.5	394.0	46.0	11.0	21.5	15.0
Merged-chr11-23305839-4	chr11	23305705	23305905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1090.0	NM_001190401	17847.0	Mm.119155	NM_001190401	ENSMUSG00000056342	Usp34	A530081C03Rik|Murr2	ubiquitin specific peptidase 34	protein-coding	16.5	44.0	27.0	421.0	92.0	18.0	28.0	26.0
Merged-chr19-46488740-3	chr19	46488623	46488823	+	811.972229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_015752)	TTS (NM_015752)	-12925.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	15.0	11.0	10.5	159.0	32.0	6.0	1.5	8.5
Merged-chr3-123508440-4	chr3	123508359	123508559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028574)	promoter-TSS (NR_028574)	-123.0	NR_028574	69895.0	Mm.260791	NR_028574	ENSMUSG00000104960	Snhg8	1110065M07Rik|2010109N14Rik	small nucleolar RNA host gene 8	ncRNA	405.0	578.5	404.5	4359.5	982.0	400.0	406.0	338.5
Merged-chr12-26465769-4	chr12	26465664	26465864	+	863.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-3451.0	NM_020557	22169.0	Mm.271839	NM_020557	ENSMUSG00000020638	Cmpk2	1200004E04Rik|TDKI|Tyki	cytidine monophosphate (UMP-CMP) kinase 2, mitochondrial	protein-coding	26.0	22.0	12.0	255.0	63.5	8.5	12.0	5.5
Merged-chr15-8442986-4	chr15	8442876	8443076	+	853.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 1 of 45)	intron (NM_201232, intron 1 of 45)	1487.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	10.0	3.5	6.0	171.5	25.5	33.0	19.5	12.5
Merged-chr5-32734144-2	chr5	32734036	32734236	+	907.099976	f0_balb.idr|f1_balb.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	12206.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	8.0	10.5	10.0	283.0	1.5	0.5	1.0	4.5
Merged-chr6-39228815-4	chr6	39228712	39228912	+	853.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22039.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	14.5	13.5	12.5	441.0	20.0	5.5	6.0	8.5
Merged-chr2-163602882-4	chr2	163602770	163602970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131225, intron 1 of 3)	intron (NR_131225, intron 1 of 3)	556.0	NR_131225	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	103.5	151.5	104.5	1444.0	216.0	87.5	101.0	88.5
Merged-chr17-45591872-3	chr17	45591778	45591978	+	812.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199113, intron 3 of 13)	intron (NM_001199113, intron 3 of 13)	515.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	3.5	6.0	7.5	136.5	14.0	5.0	7.0	5.0
Merged-chr2-84455385-4	chr2	84455301	84455501	+	977.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355271, intron 3 of 8)	intron (NM_001355271, intron 3 of 8)	18773.0	NM_011576	21788.0	Mm.124316	NM_011576	ENSMUSG00000027082	Tfpi	A630013F22Rik|AW552122|EPI|LACI	tissue factor pathway inhibitor	protein-coding	20.0	17.5	4.5	303.0	72.5	7.0	11.5	18.0
Merged-chr10-75222086-4	chr10	75221995	75222195	+	929.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001145826, exon 2 of 19)	5' UTR (NM_001145826, exon 2 of 19)	9705.0	NM_001145826	74392.0	Mm.27716	NM_153406	ENSMUSG00000033444	Specc1l	4930470P14Rik|4932439K10Rik|9530057A13Rik|AI317249|Cytsa|mKIAA0376	sperm antigen with calponin homology and coiled-coil domains 1-like	protein-coding	13.5	22.0	12.0	139.5	45.0	20.0	17.5	18.0
Merged-chr19-31950985-4	chr19	31950887	31951087	+	976.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82226.0	NM_001081074	69865.0	Mm.87538	NM_001081074	ENSMUSG00000052595	A1cf	1810073H04Rik|ACF64|ACF65|ASP|Acf|MCM|MerCreMer|Tg(Myh6-cre/Esr1*)1Jmk|mer	APOBEC1 complementation factor	protein-coding	9.0	16.5	21.0	405.5	47.0	6.5	16.5	9.5
Merged-chr7-3715455-4	chr7	3715361	3715561	+	878.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357394, intron 9 of 14)	intron (NM_001357394, intron 9 of 14)	4921.0	NM_001357394	18733.0	Mm.326531	NM_011095	ENSMUSG00000058818	Pirb	Gp91|LIR-3|Lilrb3|PIR-B	paired Ig-like receptor B	protein-coding	23.5	13.0	8.0	139.0	54.5	24.0	12.0	13.5
Merged-chr7-28375697-4	chr7	28375603	28375803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-3041.0	NM_001083912	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	172.0	223.5	234.5	2879.0	440.0	144.5	246.0	167.0
Merged-chr10-130247233-3	chr10	130247121	130247321	+	851.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	32917.0	NM_001329489	11923.0	Mm.10695	NM_007501	ENSMUSG00000048015	Neurod4	AI846749|ATH-3|Atoh3|MATH-3|Math3|bHLHa4	neurogenic differentiation 4	protein-coding	17.5	16.0	21.5	187.0	21.0	6.0	3.5	13.5
Merged-chr5-140609759-4	chr5	140609674	140609874	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008494, intron 1 of 7)	intron (NM_008494, intron 1 of 7)	2433.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	19.0	26.0	24.0	434.5	29.5	15.5	8.0	13.5
Merged-chr6-18845847-5	chr6	18845763	18845963	+	765.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-2772.0	NM_133939	76522.0	Mm.275158	NM_133939	ENSMUSG00000044155	Lsm8	2010003I05Rik|AW214405|Naa38	LSM8 homolog, U6 small nuclear RNA associated	protein-coding	32.0	20.5	38.0	33.0	13.0	13.5	14.0	16.0
Merged-chr1-161251576-2	chr1	161251470	161251670	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_007453)	promoter-TSS (NM_007453)	-360.0	NM_001303408	11758.0	Mm.186185	NM_007453	ENSMUSG00000026701	Prdx6	1-Cys Prx|1-cysPrx|9430088D19Rik|AA690119|Aop2|Brp-12|CP-3|GPx|Ltw-4|Ltw4|Lvtw-4|NSGPx|ORF06|Prdx5|aiPLA2	peroxiredoxin 6	protein-coding	20.0	38.0	12.5	315.0	108.0	33.0	47.5	31.0
Merged-chr12-3861890-4	chr12	3861787	3861987	+	951.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045884, exon 2 of 4)	non-coding (NR_045884, exon 2 of 4)	357.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	16.5	19.0	25.0	333.5	71.5	11.0	19.5	14.0
Merged-chr2-167685370-4	chr2	167685276	167685476	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3539.0	NM_009883	12608.0	Mm.439656	NM_009883	ENSMUSG00000056501	Cebpb	C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6	CCAAT/enhancer binding protein (C/EBP), beta	protein-coding	14.5	31.5	15.0	257.5	31.0	9.5	14.0	18.5
Merged-chr1-88705966-4	chr1	88705866	88706066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3775.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	66.0	83.5	38.5	750.5	171.0	65.5	79.5	67.5
Merged-chr12-76405480-5	chr12	76405294	76405494	+	881.783325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008301, exon 1 of 1)	exon (NM_008301, exon 1 of 1)	1024.0	NM_008301	15512.0	Mm.296181	NM_008301	ENSMUSG00000059970	Hspa2	70kDa|HSP70.2|HSP70A2|Hsp70-2	heat shock protein 2	protein-coding	6.5	9.0	13.0	98.5	12.5	14.0	5.0	8.5
Merged-chr4-118992014-4	chr4	118991924	118992124	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30057.0	NM_133892	100470.0	Mm.26698	NM_133892	ENSMUSG00000024903	Lao1	AW990848	L-amino acid oxidase 1	protein-coding	15.5	20.5	3.0	108.5	48.5	15.5	7.5	21.0
Merged-chr14-66242915-4	chr14	66242834	66243034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-29110.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	35.5	35.5	31.0	596.0	83.0	30.5	31.5	28.5
Merged-chr7-98338483-3	chr7	98338376	98338576	+	925.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17268.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	8.0	12.0	12.5	186.5	13.5	3.0	7.0	13.0
Merged-chr12-73723234-4	chr12	73723129	73723329	+	973.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 10 of 13)	ORR1D1|LTR|ERVL-MaLR	138433.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	18.0	33.5	23.0	162.0	45.0	17.5	21.0	16.0
Merged-chr1-106200060-6	chr1	106199971	106200171	+	821.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	28202.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	11.5	17.0	15.5	154.0	20.0	12.0	9.5	13.0
Merged-chr13-85596822-1	chr13	85596722	85596922	+	953.0	f0_balb.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-307336.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	4.5	2.5	12.5	183.0	14.0	4.5	10.5	5.5
Merged-chr8-77443298-4	chr8	77443232	77443432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 3 of 22)	intron (NM_030113, intron 3 of 22)	-73724.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	65.5	63.5	67.5	756.5	207.0	60.5	68.0	67.0
Merged-chr6-114894667-4	chr6	114894558	114894758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 2 of 5)	intron (NM_001356371, intron 2 of 5)	27163.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	39.5	55.5	50.5	999.0	81.0	33.0	51.5	43.5
Merged-chr19-56422985-6	chr19	56422826	56423026	+	914.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007611, intron 2 of 6)	intron (NM_007611, intron 2 of 6)	25797.0	NM_007611	12369.0	Mm.35687	NM_007611	ENSMUSG00000025076	Casp7	AI314680|CMH-1|ICE-IAP3|Mch3|caspase-7|mCASP-7	caspase 7	protein-coding	6.5	8.0	5.0	131.5	12.5	1.5	6.0	14.0
Merged-chr15-103183387-4	chr15	103183305	103183505	+	883.62085	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20121.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	15.5	29.5	12.5	163.0	31.0	8.0	15.5	14.5
Merged-chr5-86172079-1	chr5	86171979	86172179	+	763.0	f0_balb.idr	intron (NM_172712, intron 1 of 32)	intron (NM_172712, intron 1 of 32)	664.0	NM_172712	231380.0	Mm.34012	NM_172712	ENSMUSG00000035898	Uba6	4930542H01|5730469D23Rik|AU021846|AW124799|E1-L2|Ube1l2	ubiquitin-like modifier activating enzyme 6	protein-coding	6.5	22.0	12.0	82.5	31.0	13.5	5.0	4.5
Merged-chr11-117882010-4	chr11	117881938	117882138	+	899.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8512.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	16.0	21.0	21.0	386.0	44.5	11.5	11.0	10.5
Merged-chr4-152136738-4	chr4	152136652	152136852	+	836.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207691)	promoter-TSS (NM_207691)	-427.0	NM_207690	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	10.5	16.0	2.5	91.0	20.5	10.0	11.5	9.5
Merged-chr4-9650889-4	chr4	9650786	9650986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290367, intron 1 of 22)	MTB_Mm|LTR|ERVL-MaLR	-7169.0	NM_001177852	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	26.0	32.0	18.0	201.5	93.5	37.5	47.0	38.5
Merged-chr18-65430815-4	chr18	65430691	65430891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172833)	promoter-TSS (NM_172833)	-206.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	247.0	501.5	292.5	4127.0	748.0	336.0	421.5	333.0
Merged-chr2-150749002-4	chr2	150748881	150749081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172117)	promoter-TSS (NM_172117)	-100.0	NM_001355068	12497.0	Mm.275524	NM_172117	ENSMUSG00000033068	Entpd6	2700026H11Rik|Cd39l2|NTPDase-6	ectonucleoside triphosphate diphosphohydrolase 6	protein-coding	158.5	256.0	164.0	2413.5	467.5	144.5	204.0	234.5
Merged-chr8-80996789-2	chr8	80996689	80996889	+	894.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_027554, intron 4 of 9)	(A)n|Simple_repeat|Simple_repeat	18117.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	2.0	3.0	1.0	56.5	25.0	5.0	4.5	5.0
Merged-chr19-45651687-3	chr19	45651583	45651783	+	839.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 1 of 8)	intron (NM_013907, intron 1 of 8)	8510.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	10.0	20.5	14.5	183.5	26.0	7.5	20.5	6.0
Merged-chr9-65562323-4	chr9	65562212	65562412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 3 of 5)	intron (NM_153119, intron 3 of 5)	17775.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	97.0	134.0	180.0	1392.5	215.5	92.0	56.5	56.0
Merged-chr3-94838261-4	chr3	94838163	94838363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001165948, intron 1 of 18)	CpG	696.0	NM_172683	229584.0	Mm.274787	NM_172683	ENSMUSG00000038902	Pogz	9530006B08Rik	pogo transposable element with ZNF domain	protein-coding	58.5	122.0	60.5	837.0	194.0	101.0	95.0	84.0
Merged-chr2-157407786-4	chr2	157407675	157407875	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16518.0	NM_009271	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	14.5	65.0	7.0	125.0	31.0	7.5	15.5	3.5
Merged-chr3-96256097-4	chr3	96255999	96256199	+	959.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7218.0	NM_033596	97122.0	Mm.227295	NM_033596	ENSMUSG00000091405	Hist2h4	H4|X04652	histone cluster 2, H4	protein-coding	14.0	26.0	7.0	263.5	50.5	15.0	20.5	29.5
Merged-chr12-84876974-4	chr12	84876879	84877079	+	975.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013589)	promoter-TSS (NM_013589)	-484.0	NM_013589	16997.0	Mm.3900	NM_013589	ENSMUSG00000002020	Ltbp2	AW208642	latent transforming growth factor beta binding protein 2	protein-coding	42.0	68.0	15.0	557.5	90.5	35.5	35.5	30.0
Merged-chr8-46140503-4	chr8	46140398	46140598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16352.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	72.0	86.5	73.0	1315.0	136.0	78.0	80.0	69.0
Merged-chr7-78864602-4	chr7	78864511	78864711	+	893.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17400.0	NM_029585	76375.0	Mm.250541	NM_029585	ENSMUSG00000030610	Det1	2610034H20Rik	de-etiolated homolog 1 (Arabidopsis)	protein-coding	9.5	20.0	22.0	226.5	36.0	16.5	13.0	22.0
Merged-chr2-118011914-4	chr2	118011826	118012026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	99276.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	37.5	25.0	30.5	422.0	59.0	23.5	33.0	32.5
Merged-chr3-159839638-4	chr3	159839497	159839697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026582)	promoter-TSS (NM_026582)	-53.0	NM_026582	68151.0	Mm.6766	NM_026582	ENSMUSG00000028173	Wls	5031439A09Rik|AI173978|AI987742|EVI|Gpr177	wntless WNT ligand secretion mediator	protein-coding	28.0	42.0	23.5	368.5	43.5	14.0	13.5	15.0
Merged-chr17-67348750-4	chr17	67348635	67348835	+	867.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	MER5A|DNA|hAT-Charlie	5724.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	7.0	13.5	7.0	82.0	23.5	4.5	6.0	5.5
Merged-chr13-107781969-4	chr13	107781866	107782066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145456, intron 3 of 14)	intron (NM_145456, intron 3 of 14)	94569.0	NR_045900	72257.0	Mm.234155	NR_045900	ENSMUSG00000102000	1700006H21Rik	-	RIKEN cDNA 1700006H21 gene	ncRNA	25.0	42.5	18.5	422.5	64.5	20.0	26.5	31.5
Merged-chr9-22165021-4	chr9	22164902	22165102	+	941.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	8156.0	NM_001082532	66268.0	Mm.28924	NM_025457	ENSMUSG00000010607	Pigyl	1810008A14Rik|PIG-Y|Pigy	phosphatidylinositol glycan anchor biosynthesis, class Y-like	protein-coding	11.5	30.0	29.0	365.0	36.5	11.0	20.0	25.5
Merged-chr6-114782146-4	chr6	114782029	114782229	+	815.770813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253718, intron 19 of 19)	intron (NM_001253718, intron 19 of 19)	139032.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	14.0	27.0	14.0	186.0	18.0	9.0	4.0	9.0
Merged-chr3-89773402-4	chr3	89773302	89773502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027315)	promoter-TSS (NM_027315)	-2.0	NR_130957	74034.0	Mm.386816	NR_130957	ENSMUSG00000042579	4632404H12Rik	-	RIKEN cDNA 4632404H12 gene	ncRNA	127.0	212.0	131.5	1712.0	379.5	138.0	158.5	139.5
Merged-chr3-156561796-3	chr3	156561682	156561882	+	677.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040399)	promoter-TSS (NR_040399)	-12.0	NM_177274	320840.0	Mm.317293	NM_177274	ENSMUSG00000040037	Negr1	5330422G01Rik|KILON|Ntra	neuronal growth regulator 1	protein-coding	4.0	6.5	1.5	134.0	36.0	6.5	11.0	17.0
Merged-chr13-119444435-3	chr13	119444340	119444540	+	920.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145457, intron 4 of 10)	intron (NM_145457, intron 4 of 10)	15538.0	NM_145457	218693.0	Mm.490243	NM_145457	ENSMUSG00000025451	Paip1	PAIP-1	polyadenylate binding protein-interacting protein 1	protein-coding	12.5	10.0	13.5	167.0	9.5	12.5	8.0	6.0
Merged-chr13-34193543-4	chr13	34193439	34193639	+	799.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 7 of 10)	intron (NM_001033167, intron 7 of 10)	30575.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	8.5	16.5	18.5	182.0	19.0	11.0	21.0	17.0
Merged-chr16-5011827-4	chr16	5011745	5011945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133185, intron 4 of 10)	intron (NM_133185, intron 4 of 10)	1708.0	NM_133185	66049.0	Mm.27792	NM_133185	ENSMUSG00000022540	Rogdi	0610011C19Rik|AU020118|C76152|Lzf	rogdi homolog	protein-coding	56.5	72.5	63.5	1078.5	159.0	50.5	46.0	68.5
Merged-chr8-75196300-3	chr8	75196190	75196390	+	791.583313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17654.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	9.5	8.5	7.5	169.0	19.0	11.0	9.5	8.0
Merged-chr2-158175193-4	chr2	158175111	158175311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16797.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	78.5	87.0	98.0	913.5	137.5	35.0	84.5	80.0
Merged-chr6-30337097-4	chr6	30337034	30337234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32595.0	NM_001169576	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	51.0	78.0	45.0	1105.5	140.5	43.0	52.0	68.0
Merged-chr11-43600094-4	chr11	43599976	43600176	+	899.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008375, intron 1 of 3)	intron (NM_008375, intron 1 of 3)	1486.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	5.5	7.0	12.0	238.5	39.0	10.0	10.5	20.5
Merged-chr1-58696261-4	chr1	58696142	58696342	+	747.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175370)	promoter-TSS (NM_175370)	-253.0	NM_175370	108812.0	Mm.442063	NM_175370	ENSMUSG00000047528	Als2cr12	4933405P16Rik|4933425F06Rik	amyotrophic lateral sclerosis 2 chromosome region 12	protein-coding	5.0	7.5	5.5	159.5	33.0	6.5	12.5	10.0
Merged-chr8-122430083-1	chr8	122429983	122430183	+	1000.0	f0_c57.idr	intron (NM_001301284, intron 1 of 4)	intron (NM_001301284, intron 1 of 4)	2857.0	NM_001301284	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	82.5	96.5	81.5	843.5	159.0	47.0	70.5	63.0
Merged-chr2-58480944-4	chr2	58480834	58481034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355048, intron 3 of 10)	intron (NM_001355048, intron 3 of 10)	80476.0	NM_001355049	11477.0	Mm.689	NM_007394	ENSMUSG00000026836	Acvr1	ALK2|ActR-I|ActRIA|Acvr|Acvrlk2|Alk-2|Alk8|D330013D15Rik|SKR1|Tsk7L	activin A receptor, type 1	protein-coding	50.5	74.5	54.5	986.0	120.5	59.5	62.5	63.5
Merged-chr2-165956490-4	chr2	165956390	165956590	+	896.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36147.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	11.5	8.0	17.0	265.0	50.0	12.0	15.5	20.5
Merged-chr13-81439521-4	chr13	81439429	81439629	+	798.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_054053, exon 67 of 90)	exon (NM_054053, exon 67 of 90)	193615.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	5.0	12.5	3.0	84.5	22.0	9.5	11.0	18.0
Merged-chr2-101922470-1	chr2	101922370	101922570	+	865.6666869999999	f0_balb.idr	Intergenic	Intergenic	36208.0	NM_029635	76501.0	Mm.330424	NM_029635	ENSMUSG00000027163	Commd9	1810029F08Rik|AA409293	COMM domain containing 9	protein-coding	10.0	16.5	12.0	244.0	4.0	0.0	2.0	2.0
Merged-chr2-159557710-4	chr2	159557619	159557819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-389622.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	49.0	88.0	30.5	959.0	121.0	55.5	54.0	50.5
Merged-chr5-123427766-4	chr5	123427644	123427844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133917, intron 1 of 16)	intron (NM_133917, intron 1 of 16)	32946.0	NM_177582	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	72.5	104.5	91.5	1438.5	154.0	50.0	67.0	71.5
Merged-chr2-167381827-4	chr2	167381716	167381916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32638.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	58.5	104.0	61.5	747.0	143.5	41.0	55.5	45.5
Merged-chr4-34510574-4	chr4	34510473	34510673	+	915.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-40042.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	12.0	26.5	17.5	176.0	34.5	15.0	16.5	6.5
Merged-chr1-91091715-1	chr1	91091615	91091815	+	648.0	f0_balb.idr	intron (NM_008515, intron 9 of 22)	intron (NM_008515, intron 9 of 22)	38271.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	6.0	15.5	11.5	43.0	18.0	4.5	4.0	1.5
Merged-chr4-109476263-2	chr4	109476163	109476363	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013876, exon 1 of 3)	5' UTR (NM_013876, exon 1 of 3)	242.0	NM_013876	29864.0	Mm.392580	NM_013876	ENSMUSG00000028557	Rnf11	-	ring finger protein 11	protein-coding	9.0	14.0	25.5	209.0	54.0	17.5	18.0	42.5
Merged-chr17-34972673-2	chr17	34972560	34972760	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_013558)	promoter-TSS (NM_013558)	-43.0	NM_013558	15482.0	Mm.14287	NM_013558	ENSMUSG00000007033	Hspa1l	Hsc70t|Msh5	heat shock protein 1-like	protein-coding	61.0	89.0	34.5	537.0	147.0	61.0	66.5	54.5
Merged-chr14-45291842-4	chr14	45291721	45291921	+	975.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015774, intron 13 of 15)	intron (NM_015774, intron 13 of 15)	26751.0	NM_015774	50527.0	Mm.387108	NM_015774	ENSMUSG00000021831	Ero1l	ERO1-L|Ero1a	ERO1-like (S. cerevisiae)	protein-coding	19.0	41.5	24.5	357.0	53.5	13.5	28.0	23.0
Merged-chr17-33890788-4	chr17	33890701	33890901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195298)	promoter-TSS (NM_001195298)	-168.0	NM_001195298	100502766.0	Mm.335713	NM_001195298	ENSMUSG00000079553	Kifc1	100042970|Gm4137|HSET|KNSL2|Kifc5a|Knsl2a|Tctex-7|Tctex-7A|Tctex7|Tctex7a	kinesin family member C1	protein-coding	264.0	404.0	183.0	2029.5	757.5	326.5	282.0	256.0
Merged-chr9-97106691-3	chr9	97106590	97106790	+	839.9722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138756, intron 1 of 6)	intron (NM_138756, intron 1 of 6)	4351.0	NM_138756	192287.0	Mm.228067	NM_138756	ENSMUSG00000032449	Slc25a36	C330005L02Rik	solute carrier family 25, member 36	protein-coding	19.5	12.5	10.5	237.0	16.5	4.0	8.5	16.5
Merged-chr7-126770987-4	chr7	126770893	126771093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024228, exon 8 of 10)	exon (NM_024228, exon 8 of 10)	4579.0	NM_024228	68616.0	Mm.246881	NM_024228	ENSMUSG00000030703	Gdpd3	1110015E22Rik	glycerophosphodiester phosphodiesterase domain containing 3	protein-coding	77.0	135.5	58.0	745.5	88.5	28.5	42.5	50.5
Merged-chr8-72492045-8	chr8	72491980	72492180	+	821.03125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177766, intron 1 of 5)	CpG	534.0	NM_177766	270066.0	Mm.291461	NM_177766	ENSMUSG00000019731	Slc35e1	6030458H05|AA408278	solute carrier family 35, member E1	protein-coding	3.5	7.5	14.0	80.5	19.0	9.5	9.0	12.0
Merged-chr15-82338049-4	chr15	82337947	82338147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355546, intron 2 of 8)	intron (NM_001355546, intron 2 of 8)	779.0	NM_001355546	17939.0	Mm.20325	NM_008669	ENSMUSG00000022453	Naga	-	N-acetyl galactosaminidase, alpha	protein-coding	36.5	41.0	20.5	470.5	99.5	27.0	24.5	36.5
Merged-chr17-29034391-2	chr17	29034291	29034491	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_036613, intron 1 of 6)	ID4|SINE|ID	1731.0	NR_036613	20383.0	Mm.6787	NM_013663	ENSMUSG00000071172	Srsf3	AL024116|Sfrs3|X16	serine/arginine-rich splicing factor 3	protein-coding	10.0	11.5	11.0	38.0	8.5	3.0	5.0	5.5
Merged-chr5-64298441-4	chr5	64298349	64298549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	intron (NM_001289514, intron 11 of 18)	68092.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	26.5	39.0	25.0	447.5	140.0	59.5	38.5	50.0
Merged-chr7-107620295-4	chr7	107620160	107620360	+	912.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163557, intron 1 of 25)	MLT1-int|LTR|ERVL-MaLR	13416.0	NM_001163557	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	12.5	10.0	6.0	180.0	43.5	15.5	6.5	4.5
Merged-chr6-127359512-4	chr6	127359445	127359645	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51578.0	NR_073373	232386.0	Mm.257367	NR_073373	ENSMUSG00000107153	Gm38404	D130058E03	predicted gene, 38404	ncRNA	9.5	17.0	12.0	226.0	15.0	8.0	13.0	15.5
Merged-chr19-44410773-2	chr19	44410673	44410873	+	884.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3064.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	5.0	7.0	5.0	72.0	23.0	4.0	3.5	4.0
Merged-chr7-89445362-3	chr7	89445265	89445465	+	837.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	19059.0	NR_102276	101521.0	Mm.26902	NR_102276	ENSMUSG00000109311	AI314278	-	expressed sequence AI314278	ncRNA	33.0	50.5	49.5	500.5	8.0	2.5	3.0	11.0
Merged-chr14-48422183-3	chr14	48422100	48422300	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23923.0	NM_001310584	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	10.0	9.5	7.0	31.5	91.0	27.5	41.5	39.0
Merged-chr17-56507827-4	chr17	56507730	56507930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4653.0	NM_011483	20834.0	Mm.76862	NM_011483	ENSMUSG00000044526	Znrf4	1700094M01Rik|Ssrzf1|spzn	zinc and ring finger 4	protein-coding	136.0	165.0	84.5	1193.5	200.5	86.5	102.0	75.5
Merged-chr17-74431711-4	chr17	74431591	74431791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 8 of 8)	MTE2b|LTR|ERVL-MaLR	27417.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	154.0	186.0	156.0	1849.0	331.5	134.0	173.5	98.5
Merged-chr10-85928607-4	chr10	85928505	85928705	+	869.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163614, exon 1 of 1)	exon (NM_001163614, exon 1 of 1)	114.0	NM_001163614	67341.0	Mm.382315	NM_001163614	ENSMUSG00000085111	Ascl4	1700054F16Rik|bHLHa44	achaete-scute family bHLH transcription factor 4	protein-coding	12.5	16.0	5.0	105.5	23.5	5.5	17.0	6.5
Merged-chr19-6870968-4	chr19	6870870	6871070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4A|LTR|ERVK	-12759.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	35.0	113.5	35.0	78.5	141.0	52.0	25.5	16.5
Merged-chr1-173673683-3	chr1	173673572	173673772	+	665.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162938)	promoter-TSS (NM_001162938)	-8.0	NM_001162938	100033459.0	Mm.303377	NM_001162938	ENSMUSG00000066677	Ifi208	9830148g24rik|E430029J22Rik|NG2creBAC|Pydc3|Pyr-rv1|Tg(Cspg4-cre)1Akik	interferon activated gene 208	protein-coding	4.0	4.0	4.0	39.0	16.0	5.0	9.5	11.5
Merged-chr13-93300783-4	chr13	93300706	93300906	+	947.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2951.0	NM_147176	26556.0	Mm.37533	NM_011982	ENSMUSG00000007617	Homer1	PSD-Zip45|SYN47|Ves-1|homer-1|vesl-1	homer scaffolding protein 1	protein-coding	17.0	20.5	23.0	368.5	36.5	14.5	16.0	11.0
Merged-chr2-119277149-1	chr2	119277049	119277249	+	727.75	f0_balb.idr	Intergenic	Intergenic	-5923.0	NM_145530	228543.0	Mm.120274	NM_145530	ENSMUSG00000034226	Rhov	A030005A06Rik|Arhv	ras homolog family member V	protein-coding	10.0	14.5	6.5	150.5	5.5	0.0	0.0	1.5
Merged-chr2-137119036-3	chr2	137118938	137119138	+	977.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2518.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	11.5	33.5	25.0	233.0	12.0	9.0	7.0	10.5
Merged-chr18-56699197-4	chr18	56699097	56699297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8616.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	24.0	33.0	30.0	618.5	182.5	49.5	107.5	98.5
Merged-chr9-65827757-4	chr9	65827678	65827878	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172536)	promoter-TSS (NM_172536)	-214.0	NM_172536	214812.0	Mm.139231	NM_172536	ENSMUSG00000040524	Zfp609	9830165N24|BC016271|Znf609|mKIAA0295	zinc finger protein 609	protein-coding	43.5	52.0	34.0	369.5	101.0	44.5	19.0	15.5
Merged-chr3-89385244-3	chr3	89385142	89385342	+	862.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009565, intron 1 of 2)	intron (NM_009565, intron 1 of 2)	2429.0	NM_001355212	22724.0	Mm.262184	NM_009565	ENSMUSG00000028042	Zbtb7b	Thpok|Zfp67|c-Krox	zinc finger and BTB domain containing 7B	protein-coding	6.5	8.5	6.5	90.0	18.5	5.0	6.5	15.0
Merged-chr12-100505631-4	chr12	100505523	100505723	+	943.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 1 of 19)	intron (NM_001033213, intron 1 of 19)	15199.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	39.0	31.0	22.0	536.5	43.0	9.5	33.0	14.0
Merged-chr4-105248209-7	chr4	105248112	105248312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90865.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	26.0	68.0	53.0	352.5	99.5	42.0	40.0	54.5
Merged-chr11-32619682-4	chr11	32619588	32619788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 18 of 18)	intron (NM_009288, intron 18 of 18)	-22867.0	NM_001271348	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	19.0	67.0	31.5	604.0	97.5	27.0	42.0	41.0
Merged-chr7-45523972-4	chr7	45523879	45524079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008654, exon 2 of 3)	exon (NM_008654, exon 2 of 3)	2289.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	30.0	31.5	34.5	382.0	87.5	21.5	42.0	39.5
Merged-chr5-139325621-4	chr5	139325518	139325718	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172723)	promoter-TSS (NM_172723)	-154.0	NM_172723	231821.0	Mm.297819	NM_172723	ENSMUSG00000056413	Adap1	4930431P11Rik|Centa1|GC1L|p42IP4	ArfGAP with dual PH domains 1	protein-coding	28.0	42.0	15.0	341.0	65.5	29.0	36.5	23.5
Merged-chr7-116490723-4	chr7	116490633	116490833	+	751.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID|SINE|ID	-13636.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	7.5	7.5	11.0	164.5	24.0	4.0	15.0	14.5
Merged-chr1-125430976-3	chr1	125430882	125431082	+	931.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205386, intron 2 of 12)	B1F1|SINE|Alu	4745.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	4.0	18.0	7.5	46.5	28.0	15.0	14.5	10.0
Merged-chr10-25366907-4	chr10	25366807	25367007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	intron (NM_001358754, intron 1 of 16)	7109.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	149.0	256.5	147.5	2815.0	380.0	129.0	188.5	127.0
Merged-chr4-97751229-4	chr4	97751126	97751326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122952, intron 1 of 10)	intron (NM_001122952, intron 1 of 10)	-26400.0	NM_001122953	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	121.5	164.0	144.0	2287.0	294.5	101.5	153.0	126.5
Merged-chr16-10543123-4	chr16	10543010	10543210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021428)	promoter-TSS (NM_021428)	-56.0	NM_021428	58239.0	Mm.353006	NM_021428	ENSMUSG00000038055	Dexi	1810029J14Rik|AI836170|AW413143|D16Bwg0586e|Myle	dexamethasone-induced transcript	protein-coding	208.0	268.0	181.0	3514.5	399.5	142.0	245.5	143.5
Merged-chr14-22913102-4	chr14	22912993	22913193	+	993.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 6 of 6)	intron (NM_028275, intron 6 of 6)	181478.0	NR_033550	791307.0	Mm.364384	NR_033550	ENSMUSG00000068680	Gm10248	-	predicted gene 10248	ncRNA	17.0	43.0	38.5	383.5	72.0	20.0	18.0	19.0
Merged-chr2-122771196-4	chr2	122771086	122771286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027888)	promoter-TSS (NR_027888)	-527.0	NR_027888	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	123.5	232.0	138.5	1862.5	299.5	107.0	159.5	84.0
Merged-chr3-67463824-4	chr3	67463712	67463912	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016753)	promoter-TSS (NM_016753)	95.0	NM_016753	17035.0	Mm.2632	NM_016753	ENSMUSG00000047557	Lxn	-	latexin	protein-coding	14.0	34.0	26.5	328.5	35.0	18.5	18.5	23.0
Merged-chr14-75283842-2	chr14	75283742	75283942	+	983.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026083)	promoter-TSS (NM_026083)	-524.0	NM_001359875	67302.0	Mm.74704	NM_026083	ENSMUSG00000022000	Zc3h13	2600010B19Rik|3110050K21Rik|4930570G11Rik|C87618	zinc finger CCCH type containing 13	protein-coding	6.0	5.0	6.0	54.0	14.0	2.5	6.5	3.5
Merged-chr13-99238904-4	chr13	99238804	99239004	+	824.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 3 of 4)	intron (NM_001004149, intron 3 of 4)	54081.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	13.0	13.0	21.5	184.5	33.5	4.0	11.5	11.0
Merged-chr6-116136368-4	chr6	116136258	116136458	+	934.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 2 of 5)	intron (NM_177412, intron 2 of 5)	57016.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	10.5	20.5	13.5	387.0	56.0	9.5	12.0	20.0
Merged-chr8-77451638-4	chr8	77451550	77451750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-65406.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	61.5	65.5	61.0	985.0	168.0	56.0	64.5	32.5
Merged-chr12-52396550-3	chr12	52396446	52396646	+	988.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84063.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	17.0	20.0	21.0	399.5	35.5	7.0	8.0	6.5
Merged-chr10-118716523-4	chr10	118716418	118716618	+	886.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152385.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	13.0	41.5	15.5	139.5	30.0	14.5	7.0	5.0
Merged-chr12-31921227-4	chr12	31921103	31921303	+	970.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163126, intron 21 of 22)	intron (NM_001163126, intron 21 of 22)	29042.0	NM_177993	73389.0	Mm.390461	NM_153198	ENSMUSG00000002996	Hbp1	1700058O05Rik|BE629963|C330012F01Rik|C86454	high mobility group box transcription factor 1	protein-coding	19.5	15.5	13.5	268.0	36.0	15.5	33.5	27.5
Merged-chr19-5273134-4	chr19	5273056	5273256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153129)	promoter-TSS (NM_153129)	-37.0	NM_153129	107975.0	Mm.234923	NM_153129	ENSMUSG00000024855	Pacs1	AI325977	phosphofurin acidic cluster sorting protein 1	protein-coding	63.0	101.5	37.5	644.0	148.5	50.0	63.0	52.5
Merged-chr11-40733546-4	chr11	40733430	40733630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013552)	promoter-TSS (NM_013552)	-93.0	NM_013552	15366.0	Mm.116997	NM_013552	ENSMUSG00000020330	Hmmr	AA386826|CD168|Rhamm	hyaluronan mediated motility receptor (RHAMM)	protein-coding	206.0	293.0	204.5	3083.0	573.0	224.0	256.0	166.5
Merged-chr10-93549327-3	chr10	93549252	93549452	+	784.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175488, intron 3 of 15)	intron (NM_175488, intron 3 of 15)	-5529.0	NM_001359749	237465.0	Mm.477086	NM_175488	ENSMUSG00000036168	Ccdc38	4933417K05Rik	coiled-coil domain containing 38	protein-coding	7.5	9.5	16.0	88.0	11.5	1.5	3.0	5.0
Merged-chr16-21996849-3	chr16	21996744	21996944	+	736.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1302.0	NM_001289581	239759.0	Mm.33192	NM_153404	ENSMUSG00000044626	Liph	C130037N08Rik|D16Wsu119e|H06|Lpdlr|P3|PLA1B|lpd1|lpd2|mPA-PLA1	lipase, member H	protein-coding	5.0	11.0	5.0	57.5	12.5	6.0	4.5	6.0
Merged-chr4-45799052-4	chr4	45798944	45799144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028270)	promoter-TSS (NM_028270)	22.0	NM_028270	72535.0	Mm.331583	NM_028270	ENSMUSG00000035561	Aldh1b1	2700007F14Rik	aldehyde dehydrogenase 1 family, member B1	protein-coding	31.0	48.5	33.0	484.5	107.0	36.0	61.0	34.5
Merged-chr9-90233969-4	chr9	90233864	90234064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 3 of 12)	intron (NM_194334, intron 3 of 12)	36805.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	33.5	22.5	29.0	282.0	40.5	25.0	24.5	23.0
Merged-chr5-44226616-4	chr5	44226485	44226685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173764)	promoter-TSS (NM_173764)	21.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	65.5	53.5	64.5	590.0	112.0	30.0	51.5	21.5
Merged-chr9-108809442-4	chr9	108809340	108809540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030729, intron 1 of 12)	ERVB4_1C-LTR_Mm|LTR|ERVK	1060.0	NM_030729	80987.0	Mm.192416	NM_030729	ENSMUSG00000032598	Nckipsd	AF3P21|DIP1|ORF1|SPIN90|WASLBP|WISH|Wasbp	NCK interacting protein with SH3 domain	protein-coding	20.0	33.5	45.0	401.5	64.0	27.0	37.0	34.0
Merged-chr14-14702823-4	chr14	14702736	14702936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360516)	promoter-TSS (NM_001360516)	-189.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	257.5	302.5	249.5	3509.0	661.0	212.0	353.5	249.0
Merged-chr4-14864227-4	chr4	14864109	14864309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028264)	promoter-TSS (NM_028264)	-10.0	NM_028264	72519.0	Mm.279158	NM_028264	ENSMUSG00000028221	Tmem55a	2610319K07Rik|AI315591|AV001360|Pip4p2	transmembrane protein 55A	protein-coding	114.0	124.0	86.5	1482.5	236.5	88.0	143.0	87.0
Merged-chr11-87967870-4	chr11	87967779	87967979	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18706.0	NM_001168472	68097.0	Mm.246436	NM_026556	ENSMUSG00000020483	Dynll2	1700064A15Rik|6720463E02Rik|C87222|DLC8|DLC8b|Dlc2	dynein light chain LC8-type 2	protein-coding	8.0	11.0	6.5	98.0	48.5	7.5	15.5	4.0
Merged-chr7-102223071-4	chr7	102223000	102223200	+	980.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145583)	promoter-TSS (NM_145583)	72.0	NR_111937	233575.0	Mm.302013	NM_145583	ENSMUSG00000030990	Pgap2	1810006G21Rik|C76649|Frag1	post-GPI attachment to proteins 2	protein-coding	20.5	27.0	24.5	233.0	45.0	17.0	22.0	13.0
Merged-chr11-118474068-4	chr11	118473967	118474167	+	966.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII|LTR|ERVK	-2765.0	NM_172573	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	17.5	23.0	8.5	206.5	74.0	16.5	28.5	20.0
Merged-chr18-10533772-4	chr18	10533680	10533880	+	800.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083628, intron 19 of 32)	intron (NM_001083628, intron 19 of 32)	76572.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	15.5	10.0	10.0	84.0	23.5	7.0	6.5	9.0
Merged-chr2-11771921-4	chr2	11771820	11772020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348235, intron 1 of 20)	intron (NM_001348235, intron 1 of 20)	5665.0	NM_001348234	50755.0	Mm.24088	NM_015792	ENSMUSG00000058594	Fbxo18	AU015756|Fbh1|Fbx18	F-box protein 18	protein-coding	25.5	31.0	31.5	573.5	77.0	19.0	35.0	28.5
Merged-chr17-34249966-4	chr17	34249867	34250067	+	944.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11062.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	23.0	60.5	14.0	94.0	83.0	17.5	24.0	28.0
Merged-chr5-125475816-4	chr5	125475745	125475945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030210)	promoter-TSS (NM_030210)	-28.0	NM_030210	78894.0	Mm.431573	NM_030210	ENSMUSG00000029482	Aacs	2210408B16Rik|SUR5	acetoacetyl-CoA synthetase	protein-coding	57.5	76.5	31.5	587.5	181.0	55.5	59.5	48.0
Merged-chr12-100022250-4	chr12	100022152	100022352	+	862.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	ID2|SINE|ID	57753.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	18.5	13.5	8.5	94.5	39.0	9.5	13.5	7.5
Merged-chr8-121751654-2	chr8	121751554	121751754	+	551.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_020605, intron 1 of 4)	B3|SINE|B2	21095.0	NM_020605	57340.0	Mm.306870	NM_020605	ENSMUSG00000025318	Jph3	JP-3|Jp3	junctophilin 3	protein-coding	8.0	7.0	3.0	68.0	24.0	8.0	8.5	6.0
Merged-chr8-119843625-3	chr8	119843507	119843707	+	942.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3028.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	19.5	9.0	11.0	162.0	23.5	3.5	8.5	3.5
Merged-chr3-79542741-4	chr3	79542650	79542850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	24929.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	36.0	68.0	57.5	897.0	128.5	42.5	42.0	41.5
Merged-chr4-136897362-3	chr4	136897288	136897488	+	931.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007572, intron 2 of 2)	MIRc|SINE|MIR	1456.0	NM_007572	12259.0	Mm.439957	NM_007572	ENSMUSG00000036887	C1qa	AI255395|C1q	complement component 1, q subcomponent, alpha polypeptide	protein-coding	9.0	5.5	10.0	33.5	22.5	12.5	11.5	8.5
Merged-chr1-58652745-4	chr1	58652695	58652895	+	972.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045007, intron 1 of 1)	intron (NR_045007, intron 1 of 1)	154.0	NR_045007	100504501.0	Mm.440933	NR_045007	ENSMUSG00000102059	Gm20257	-	caspase 8 pseudogene	pseudo	13.5	19.5	23.0	135.0	33.0	11.0	15.0	17.0
Merged-chr9-26962437-3	chr9	26962334	26962534	+	658.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37115.0	NM_025862	66948.0	Mm.289244	NM_025862	ENSMUSG00000031969	Acad8	2310016C19Rik|AI786953	acyl-Coenzyme A dehydrogenase family, member 8	protein-coding	4.5	7.5	12.5	81.5	5.5	2.5	3.5	2.0
Merged-chr10-85161909-1	chr10	85161809	85162009	+	557.0	f0_balb.idr	intron (NM_007771, intron 1 of 12)	intron (NM_007771, intron 1 of 12)	23145.0	NM_007771	12952.0	Mm.26237	NM_007771	ENSMUSG00000020038	Cry1	AU020726|AU021000|Phll1	cryptochrome 1 (photolyase-like)	protein-coding	6.0	4.5	6.5	117.5	6.5	3.0	2.0	1.0
Merged-chr8-13155529-4	chr8	13155382	13155582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3679.0	NM_001317353	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	75.5	102.0	73.5	777.5	147.5	53.0	57.5	72.5
Merged-chr2-38486116-4	chr2	38486013	38486213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25584.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	34.5	55.0	26.5	553.0	89.5	39.5	30.0	41.5
Merged-chr5-137645311-3	chr5	137645202	137645402	+	930.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010571, exon 1 of 2)	exon (NM_010571, exon 1 of 2)	412.0	NM_010571	16369.0	Mm.24486	NM_010571	ENSMUSG00000047182	Irs3	AA408304	insulin receptor substrate 3	protein-coding	8.5	17.5	6.0	67.0	28.0	11.5	7.5	5.5
Merged-chr4-9074584-4	chr4	9074471	9074671	+	980.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-194722.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	22.0	41.5	36.0	410.5	56.0	17.0	27.0	14.0
Merged-chr1-177188938-3	chr1	177188836	177189036	+	888.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	intron (NM_011785, intron 1 of 12)	59831.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	5.0	15.0	9.0	181.5	18.0	6.0	23.5	4.5
Merged-chr16-33685457-3	chr16	33685372	33685572	+	847.3999630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 1 of 14)	intron (NM_175256, intron 1 of 14)	1006.0	NM_175256	77446.0	Mm.245741	NM_172934	ENSMUSG00000075254	Heg1	4632417D23Rik|5530401I02Rik|9530025L16Rik|BC038614|Gm629	heart development protein with EGF-like domains 1	protein-coding	5.5	13.0	7.5	120.5	13.0	2.5	5.0	4.0
Merged-chr11-98975459-3	chr11	98975358	98975558	+	752.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177303)	TTS (NM_001177303)	7558.0	NM_178596	353155.0	Mm.453253	NM_178596	ENSMUSG00000047197	Gjd3	Gja11|Gjc1|cx30.2	gap junction protein, delta 3	protein-coding	12.5	10.5	5.0	107.0	13.5	6.0	2.5	7.0
Merged-chr6-124425839-3	chr6	124425754	124425954	+	719.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9999.0	NM_001360570	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	6.0	5.0	15.5	67.5	15.5	3.5	4.0	1.0
Merged-chr12-87267334-2	chr12	87267234	87267434	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146036, intron 1 of 8)	intron (NM_146036, intron 1 of 8)	606.0	NM_146036	217737.0	Mm.22626	NM_146036	ENSMUSG00000021037	Ahsa1	BC023857|p38	AHA1, activator of heat shock protein ATPase 1	protein-coding	6.0	13.0	5.5	138.0	4.0	2.5	6.0	6.5
Merged-chr19-55766137-3	chr19	55766037	55766237	+	707.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	24327.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	10.5	28.0	11.0	57.0	23.0	6.5	8.0	4.0
Merged-chr2-29053119-4	chr2	29053012	29053212	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166705, intron 1 of 5)	intron (NM_001166705, intron 1 of 5)	1954.0	NM_001166705	329375.0	Mm.425079	NM_001085514	ENSMUSG00000079502	Cfap77	1700101E01Rik|Gm823	cilia and flagella associated protein 77	protein-coding	27.0	30.0	28.5	156.5	71.5	15.0	28.5	15.0
Merged-chr1-39525967-4	chr1	39525870	39526070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9731.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	85.5	124.0	92.0	1903.5	145.0	58.5	72.0	87.0
Merged-chr3-59312778-4	chr3	59312671	59312871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 42 of 43)	intron (NM_177855, intron 42 of 43)	31485.0	NM_001162884	242050.0	Mm.228086	NM_001162884	ENSMUSG00000036334	Igsf10	6530405F15Rik|9030224D03|AA409708|AA536958|AI414626|Adlican2|CMF608	immunoglobulin superfamily, member 10	protein-coding	102.5	55.5	66.5	1263.5	118.0	45.0	41.5	51.5
Merged-chr6-122600365-4	chr6	122600276	122600476	+	948.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134391, intron 1 of 7)	MRLTR33|LTR|ERVK	2068.0	NM_031159	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	20.0	44.5	14.0	153.0	26.0	10.0	8.0	15.0
Merged-chr2-29739624-4	chr2	29739518	29739718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001039087, exon 26 of 26)	3' UTR (NM_001039087, exon 26 of 26)	-21910.0	NM_001177392	433416.0	Mm.330112	NM_001034887	ENSMUSG00000075425	Gm13547	-	predicted gene 13547	protein-coding	48.0	102.0	49.0	919.5	98.5	33.5	41.0	55.0
Merged-chr5-66363505-4	chr5	66363431	66363631	+	927.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310626, intron 9 of 15)	intron (NM_001310626, intron 9 of 15)	-25866.0	NM_001201416	11787.0	Mm.5159	NM_009686	ENSMUSG00000029207	Apbb2	2310007D03Rik|FE65L1|Rirl1|TR2L|Zfra	amyloid beta (A4) precursor protein-binding, family B, member 2	protein-coding	13.5	4.0	8.5	113.5	27.5	5.0	14.0	7.0
Merged-chr5-117976777-4	chr5	117976692	117976892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145564)	promoter-TSS (NM_145564)	22.0	NM_001346588	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	40.0	45.5	44.0	485.5	61.0	25.5	38.0	38.5
Merged-chr1-161735000-4	chr1	161734871	161735071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53524.0	NM_001205243	14103.0	Mm.3355	NM_010177	ENSMUSG00000000817	Fasl	APT1LG1|CD178|CD95-L|CD95L|Fas-L|Faslg|Tnfsf6|Tnlg1a|gld	Fas ligand (TNF superfamily, member 6)	protein-coding	36.0	46.5	44.5	676.0	90.5	20.0	48.5	33.5
Merged-chr10-88346110-4	chr10	88345990	88346190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027878, intron 1 of 6)	intron (NM_027878, intron 1 of 6)	10985.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	53.5	111.5	79.0	778.0	88.0	38.5	51.0	48.5
Merged-chr19-12794840-4	chr19	12794729	12794929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053009, intron 1 of 10)	CpG	1294.0	NR_024093	664779.0	Mm.290924	NM_001039718	ENSMUSG00000024695	Gm44505	Zfp91-Cntf|Zfp91Cntf	predicted readthrough transcript (NMD candidate), 44505	ncRNA	89.0	150.0	91.5	1176.0	217.0	79.5	112.0	100.0
Merged-chr9-66980645-4	chr9	66980541	66980741	+	752.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5157.0	NM_030717	80907.0	Mm.157882	NM_030717	ENSMUSG00000032370	Lactb	LACT-1|Lact1|Mrpl56	lactamase, beta	protein-coding	8.0	19.5	6.0	114.0	29.0	5.0	9.0	15.0
Merged-chr15-76232578-4	chr15	76232455	76232655	+	914.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001163575)	TTS (NM_001163575)	-1177.0	NM_011117	18810.0	Mm.234912	NM_011117	ENSMUSG00000022565	Plec	AA591047|AU042537|EBS1|PCN|PLTN|Plec1	plectin	protein-coding	16.0	25.0	19.0	153.0	28.0	11.5	7.0	9.5
Merged-chr1-86531077-3	chr1	86530983	86531183	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360831)	TTS (NM_001360831)	4526.0	NM_001360830	19231.0	Mm.19187	NM_008972	ENSMUSG00000026238	Ptma	Thym	prothymosin alpha	protein-coding	8.5	3.0	1.0	3.5	12.0	8.0	7.0	5.5
Merged-chr16-10784654-3	chr16	10784575	10784775	+	920.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271603, exon 2 of 2)	exon (NM_001271603, exon 2 of 2)	861.0	NM_009896	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	8.0	14.5	11.5	127.5	27.0	3.0	6.5	17.0
Merged-chr5-108449013-5	chr5	108448906	108449106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172883)	promoter-TSS (NM_172883)	94.0	NM_001359977	243197.0	Mm.106818	NM_172883	ENSMUSG00000029490	Mfsd7a	4732482E20Rik|Mfsd7|Slc49a3	major facilitator superfamily domain containing 7A	protein-coding	19.5	32.5	20.5	298.5	54.0	16.0	21.0	21.5
Merged-chr10-117145825-8	chr10	117145760	117145960	+	902.9345089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177798, intron 1 of 9)	intron (NM_177798, intron 1 of 9)	2614.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	11.0	15.5	11.5	140.5	26.0	13.5	15.0	12.5
Merged-chr12-102443788-4	chr12	102443648	102443848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3935.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	28.5	40.5	38.0	700.5	81.0	42.0	52.5	63.0
Merged-chr16-49792688-4	chr16	49792611	49792811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62943.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	84.0	168.5	125.0	1439.5	243.5	94.0	103.0	63.0
Merged-chr7-64356772-4	chr7	64356677	64356877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177893, intron 8 of 13)	intron (NM_177893, intron 8 of 13)	17318.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	86.5	77.0	184.5	2707.5	167.0	58.5	110.5	91.0
Merged-chr10-80932383-4	chr10	80932295	80932495	+	960.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008655)	TTS (NM_008655)	2304.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	13.5	36.0	19.0	133.5	47.5	23.0	19.5	20.5
Merged-chr2-153791605-4	chr2	153791512	153791712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036629, intron 5 of 7)	intron (NR_036629, intron 5 of 7)	10733.0	NR_036629	100504221.0	Mm.246778	NM_177849	ENSMUSG00000044083	Efcab8	A630008I04|EG329541	EF-hand calcium binding domain 8	ncRNA	45.5	88.5	53.0	930.0	97.5	20.5	50.5	47.5
Merged-chr1-152674032-4	chr1	152673935	152674135	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346118, intron 2 of 18)	intron (NM_001346118, intron 2 of 18)	-48818.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	5.0	15.5	29.0	539.0	20.0	3.5	11.5	19.5
Merged-chr6-128765425-2	chr6	128765325	128765525	+	663.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	23216.0	NM_001159904	17059.0	Mm.480764	NM_008527	ENSMUSG00000030325	Klrb1c	AI462337|CD161|Klrb1b|Ly-59|Ly55c|Ly59|NK-RP1|NK1.1|NKR-P1.9|NKRP1|NKRP140|Nk-1|Nk-1.2|Nk1|Nk1.2|Nkrp1b|Nkrp1c|ly-55c	killer cell lectin-like receptor subfamily B member 1C	protein-coding	10.0	5.0	8.0	38.0	11.5	1.5	3.0	1.0
Merged-chr17-32965818-4	chr17	32965711	32965911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033585)	promoter-TSS (NR_033585)	-20.0	NM_153063	224691.0	Mm.328953	NM_153063	ENSMUSG00000053600	Zfp472	KRIM-1|Krim-1A|Krim-1B|Krim1	zinc finger protein 472	protein-coding	56.0	69.0	44.5	651.0	144.0	46.5	48.0	60.5
Merged-chr2-60315983-3	chr2	60315890	60316090	+	962.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013825, intron 27 of 34)	intron (NM_013825, intron 27 of 34)	-31506.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	17.5	22.0	10.5	393.0	33.0	5.0	9.5	9.5
Merged-chr7-92878813-4	chr7	92878777	92878977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028243, intron 1 of 8)	intron (NM_028243, intron 1 of 8)	3624.0	NM_028243	72461.0	Mm.389969	NM_028243	ENSMUSG00000061119	Prcp	2510048K03Rik|2610104A14Rik|AI451719|HUMPCP|PCP	prolylcarboxypeptidase (angiotensinase C)	protein-coding	71.5	110.0	115.5	1632.5	210.0	69.5	82.5	110.0
Merged-chr2-93566359-4	chr2	93566215	93566415	+	956.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-76119.0	NM_007442	11695.0	Mm.389389	NM_007442	ENSMUSG00000040310	Alx4	lst	aristaless-like homeobox 4	protein-coding	7.0	13.0	8.5	158.0	53.0	11.0	17.0	20.0
Merged-chr15-78860707-4	chr15	78860621	78860821	+	866.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-5192.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	26.5	43.5	19.0	439.5	37.5	9.5	7.5	14.0
Merged-chr7-3948388-1	chr7	3948288	3948488	+	802.5	f0_balb.idr	Intergenic	Intergenic	-32887.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	12.5	12.0	8.5	206.5	9.5	6.5	9.5	6.5
Merged-chr11-116427685-3	chr11	116427561	116427761	+	742.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-6433.0	NM_176902	319370.0	Mm.258466	NM_176902	ENSMUSG00000050628	Ubald2	1110014K08Rik|D030012E24Rik|Fam100b	UBA-like domain containing 2	protein-coding	6.5	8.5	10.5	74.0	11.5	0.0	4.5	4.5
Merged-chr15-78895872-4	chr15	78895777	78895977	+	923.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3891.0	NR_133564	20401.0	Mm.4462	NM_009164	ENSMUSG00000022436	Sh3bp1	3BP-1	SH3-domain binding protein 1	protein-coding	21.0	37.0	10.0	72.5	70.0	12.5	17.0	17.0
Merged-chr5-104938706-2	chr5	104938576	104938776	+	663.5	f0_balb.idr|f1_balb.idr	intron (NM_030239, intron 14 of 15)	intron (NM_030239, intron 14 of 15)	44041.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	9.0	6.5	10.0	206.0	2.0	0.0	0.5	0.0
Merged-chr3-152152158-2	chr3	152152058	152152258	+	859.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 1 of 5)	intron (NM_016867, intron 1 of 5)	13742.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	2.0	6.5	6.5	83.0	13.0	6.0	5.5	4.5
Merged-chr15-77752718-4	chr15	77752615	77752815	+	829.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357895, intron 3 of 3)	intron (NM_001357895, intron 3 of 3)	2558.0	NM_001357896	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	5.5	10.5	7.5	112.0	25.5	6.5	9.5	12.0
Merged-chr16-57354598-4	chr16	57354500	57354700	+	880.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	1323.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	3.5	23.5	13.0	115.0	29.0	11.5	10.5	8.0
Merged-chr1-88698493-4	chr1	88698372	88698572	+	955.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177305, exon 1 of 1)	3' UTR (NM_177305, exon 1 of 1)	3719.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	15.5	26.0	14.5	175.0	29.0	13.0	21.0	12.0
Merged-chr10-111164689-4	chr10	111164588	111164788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175489)	promoter-TSS (NM_175489)	-114.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	295.5	436.5	342.5	4263.5	852.0	311.5	425.0	276.0
Merged-chr5-113735707-4	chr5	113735616	113735816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001010825)	promoter-TSS (NM_001010825)	-66.0	NM_001010825	231630.0	Mm.21926	NM_001010825	ENSMUSG00000053334	Ficd	D5Ertd40e|Hype	FIC domain containing	protein-coding	172.5	199.0	125.5	1674.5	353.5	121.5	154.0	146.0
Merged-chr16-31663970-7	chr16	31663886	31664086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252434)	promoter-TSS (NM_001252434)	51.0	NM_001252434	13383.0	Mm.382	NM_007862	ENSMUSG00000022770	Dlg1	B130052P05Rik|Dlgh1|E-dlg/SAP97|SAP-97|SAP97|mKIAA4187	discs large MAGUK scaffold protein 1	protein-coding	47.5	73.0	64.5	343.0	44.0	23.0	20.5	14.0
Merged-chr17-13850362-4	chr17	13850256	13850456	+	865.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 17 of 33)	B3A|SINE|B2	-88962.0	NM_022311	21646.0	Mm.486358	NM_022311	ENSMUSG00000038347	Tcte2	AI429268|Tcte-2	t-complex-associated testis expressed 2	protein-coding	11.0	19.5	15.0	190.5	21.0	11.0	8.5	5.5
Merged-chr12-110776217-4	chr12	110776116	110776316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	intron (NM_001347428, intron 1 of 2)	38284.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	74.0	132.5	101.5	1896.0	201.5	44.0	129.0	83.5
Merged-chr1-191131491-3	chr1	191131407	191131607	+	721.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33093.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	10.0	23.0	5.5	98.0	3.5	2.0	4.0	12.5
Merged-chr5-105568272-4	chr5	105568187	105568387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	intron (NM_133897, intron 2 of 3)	48816.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	53.0	54.0	56.0	761.0	144.5	29.0	53.0	40.5
Merged-chr10-127576516-4	chr10	127576409	127576609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008512, exon 24 of 89)	exon (NM_008512, exon 24 of 89)	-41950.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	40.0	82.0	31.0	471.5	96.0	39.0	38.0	38.5
Merged-chr18-64957673-4	chr18	64957532	64957732	+	998.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-65895.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	15.5	23.5	9.0	297.5	132.0	38.5	60.0	60.0
Merged-chr16-95902441-4	chr16	95902378	95902578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040484, intron 1 of 3)	B4A|SINE|B4	-3765.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	11.5	54.0	26.5	200.0	89.5	39.5	40.0	28.0
Merged-chr18-84294309-4	chr18	84294180	84294380	+	755.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 8 of 8)	intron (NM_001033341, intron 8 of 8)	206122.0	NM_146090	225791.0	Mm.147052	NM_146090	ENSMUSG00000049090	Zadh2	C530046K17Rik|PTGR-3|Pthr3	zinc binding alcohol dehydrogenase, domain containing 2	protein-coding	6.0	10.0	8.0	76.5	20.5	7.0	9.0	4.0
Merged-chr12-17881767-4	chr12	17881627	17881827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	190918.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	117.5	161.0	118.5	1542.5	231.5	87.5	164.0	108.5
Merged-chr2-164359896-4	chr2	164359809	164360009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3402.0	NM_011414	20568.0	Mm.371583	NM_011414	ENSMUSG00000017002	Slpi	ALP	secretory leukocyte peptidase inhibitor	protein-coding	43.0	59.5	22.0	376.5	102.5	28.5	26.5	19.5
Merged-chr7-44553500-4	chr7	44553387	44553587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009473, intron 2 of 9)	intron (NM_009473, intron 2 of 9)	478.0	NM_009473	22260.0	Mm.968	NM_009473	ENSMUSG00000060601	Nr1h2	AI194859|LXR|LXRB|LXRBSV|LXRbeta|NER1|OR-1|RIP15|UR|Unr|Unr2	nuclear receptor subfamily 1, group H, member 2	protein-coding	54.0	110.5	64.5	804.0	185.5	51.0	81.0	44.5
Merged-chr8-105345237-4	chr8	105345134	105345334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	2736.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	80.0	156.0	76.5	1219.5	222.5	73.5	132.5	72.5
Merged-chr14-20307789-3	chr14	20307684	20307884	+	954.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359868, exon 6 of 10)	exon (NM_001359868, exon 6 of 10)	13094.0	NR_153364	67725.0	Mm.317636	NM_026341	ENSMUSG00000021809	Nudt13	4933433B15Rik	nudix (nucleoside diphosphate linked moiety X)-type motif 13	protein-coding	4.5	7.0	8.0	127.0	23.5	4.5	5.5	4.5
Merged-chr1-171839709-4	chr1	171839598	171839798	+	875.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252472)	promoter-TSS (NM_001252472)	1.0	NM_013489	12523.0	Mm.259115	NM_013489	ENSMUSG00000038147	Cd84	A130013D22Rik|CDw84|SLAMF5	CD84 antigen	protein-coding	10.5	13.0	9.5	115.5	36.0	13.5	12.5	21.5
Merged-chr2-32437240-2	chr2	32437140	32437340	+	856.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146118, intron 1 of 10)	L1MEc|LINE|L1	-6089.0	NM_001164358	227731.0	Mm.37395	NM_146118	ENSMUSG00000026819	Slc25a25	1110030N17Rik|MCSC|mKIAA1896	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 25	protein-coding	8.0	8.0	6.5	70.0	2.0	3.5	3.5	3.0
Merged-chr8-107116204-4	chr8	107116099	107116299	+	769.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19654.0	NR_104410	21750.0	Mm.6402	NM_009353	ENSMUSG00000031921	Terf2	TRF2	telomeric repeat binding factor 2	protein-coding	8.5	11.0	15.0	125.0	27.5	13.5	15.5	2.5
Merged-chr4-124663224-4	chr4	124663148	124663348	+	854.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5602.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	3.0	6.5	6.5	90.5	24.5	8.0	14.0	7.5
Merged-chr7-27244228-2	chr7	27244128	27244328	+	759.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_133770, intron 10 of 14)	intron (NM_133770, intron 10 of 14)	11215.0	NM_133770	76889.0	Mm.124728	NM_133770	ENSMUSG00000003762	Coq8b	0610012P18Rik|Adck4	coenzyme Q8B	protein-coding	7.5	7.5	10.0	32.0	18.5	5.0	9.5	5.5
Merged-chr4-150556540-4	chr4	150556444	150556644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	95630.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	40.0	39.0	36.0	830.5	114.5	35.0	53.5	61.0
Merged-chr3-101948638-1	chr3	101948538	101948738	+	565.0	f1_c57bl6.idr	Intergenic	L1MEg|LINE|L1	-24185.0	NM_001039371	242126.0	Mm.90204	NM_001039371	ENSMUSG00000033147	Slc22a15	2610034P21Rik|4930477M19|A530052I06Rik|BB219042	solute carrier family 22 (organic anion/cation transporter), member 15	protein-coding	2.0	1.0	0.0	3.0	14.5	7.0	6.5	9.5
Merged-chr7-19405601-4	chr7	19405506	19405706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-1502.0	NM_001286039	232943.0	Mm.213403	NM_146182	ENSMUSG00000040714	Klc3	BC017147|Klct	kinesin light chain 3	protein-coding	36.5	68.0	31.0	594.5	73.5	33.0	31.0	27.0
Merged-chr15-34181823-4	chr15	34181717	34181917	+	961.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56209.0	NM_033521	114128.0	Mm.197518	NM_033521	ENSMUSG00000022257	Laptm4b	C330023P13Rik|LAPTM4beta	lysosomal-associated protein transmembrane 4B	protein-coding	17.5	31.5	13.0	248.5	55.0	11.0	17.5	26.5
Merged-chr4-135921587-3	chr4	135921499	135921699	+	858.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024243, intron 1 of 7)	intron (NM_024243, intron 1 of 7)	873.0	NM_024243	71665.0	Mm.439940	NM_024243	ENSMUSG00000028673	Fuca1	0610006A03Rik|9530055J05Rik|Afuc|Fuca	fucosidase, alpha-L- 1, tissue	protein-coding	13.5	8.0	7.5	101.5	20.0	3.0	7.5	11.0
Merged-chr13-64375888-4	chr13	64375792	64375992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5372.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	35.5	69.5	53.0	312.5	75.0	30.0	45.5	22.0
Merged-chr18-82569051-4	chr18	82568956	82569156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025251, intron 2 of 6)	intron (NM_001025251, intron 2 of 6)	14548.0	NM_001025254	17196.0	Mm.252063	NM_010777	ENSMUSG00000041607	Mbp	C76307|Hmbpr|R75289|golli-mbp|jve|mld|shi	myelin basic protein	protein-coding	35.0	33.5	21.0	395.0	60.0	21.5	29.5	28.5
Merged-chr14-101503753-3	chr14	101503667	101503867	+	928.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 3 of 18)	intron (NM_001081278, intron 3 of 18)	105424.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	15.5	12.5	14.0	211.0	26.5	8.5	4.0	6.0
Merged-chr8-83773326-3	chr8	83773219	83773419	+	940.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-32008.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	15.0	14.0	6.0	156.0	11.0	6.0	4.5	4.0
Merged-chr5-143711532-2	chr5	143711432	143711632	+	856.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_029749, intron 17 of 17)	intron (NM_029749, intron 17 of 17)	20748.0	NM_029749	76800.0	Mm.259620	NM_029749	ENSMUSG00000051306	Usp42	2410140K03Rik|3110031A07Rik|A630018G05Rik|D5Ertd591e	ubiquitin specific peptidase 42	protein-coding	6.0	4.5	6.5	43.0	16.0	2.5	5.5	7.0
Merged-chr9-101552962-4	chr9	101552853	101553053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	210759.0	NR_110509	102633035.0	Mm.411422	NR_110509	ENSMUSG00000101941	Gm28979	-	predicted gene 28979	ncRNA	60.0	83.0	66.0	1298.0	215.5	50.5	107.5	97.0
Merged-chr5-114783856-4	chr5	114783748	114783948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026718, intron 1 of 14)	Tigger7|DNA|TcMar-Tigger	8708.0	NM_026718	68420.0	Mm.275554	NM_026718	ENSMUSG00000041870	Ankrd13a	1100001D10Rik|ANKRD13|AU046136	ankyrin repeat domain 13a	protein-coding	14.0	89.5	18.5	189.5	161.5	56.0	57.0	32.0
Merged-chr13-49298644-4	chr13	49298538	49298738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	10570.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	84.0	72.0	71.5	1425.0	117.5	40.0	64.0	71.5
Merged-chr8-40862456-5	chr8	40862412	40862612	+	975.900024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001044740, exon 1 of 12)	5' UTR (NM_001044740, exon 1 of 12)	145.0	NM_001044740	11988.0	Mm.4676	NM_007514	ENSMUSG00000031596	Slc7a2	20.5|AI158848|Atrc2|CAT-2|Cat2|Tea	solute carrier family 7 (cationic amino acid transporter, y+ system), member 2	protein-coding	3.5	7.0	4.5	21.5	47.5	15.5	16.5	20.5
Merged-chr12-79638134-3	chr12	79638028	79638228	+	754.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	286605.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	12.0	8.0	2.0	50.0	30.0	6.0	11.0	5.5
Merged-chr1-136170289-4	chr1	136170187	136170387	+	959.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 30 of 34)	intron (NM_001039472, intron 30 of 34)	38897.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	8.0	25.0	16.0	290.0	46.0	17.0	29.5	15.5
Merged-chr2-102885532-4	chr2	102885442	102885642	+	834.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	16123.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	12.0	21.0	16.5	312.0	30.5	9.0	15.0	9.5
Merged-chr19-45176486-3	chr19	45176390	45176590	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25775.0	NM_021901	21908.0	Mm.391203	NM_021901	ENSMUSG00000025215	Tlx1	Hox-11|Hox11|Tlx-1	T cell leukemia, homeobox 1	protein-coding	7.0	9.5	8.0	6.5	101.5	40.5	44.0	44.5
Merged-chr12-110695954-3	chr12	110695868	110696068	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010480, intron 1 of 10)	CpG	427.0	NM_010480	15519.0	Mm.1843	NM_010480	ENSMUSG00000021270	Hsp90aa1	86kDa|89kDa|AL024080|AL024147|Hsp86-1|Hsp89|Hsp90|Hspca|hsp4	heat shock protein 90, alpha (cytosolic), class A member 1	protein-coding	41.5	97.0	48.0	636.5	171.5	66.0	58.5	59.5
Merged-chr13-13968976-4	chr13	13968875	13969075	+	733.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362405, intron 2 of 12)	intron (NM_001362405, intron 2 of 12)	14301.0	NM_178640	97884.0	Mm.21686	NM_178640	ENSMUSG00000039242	B3galnt2	A930105D20Rik|C80633|D230016N13Rik	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2	protein-coding	6.5	12.5	10.0	173.5	25.5	15.5	8.0	11.0
Merged-chr1-39368842-3	chr1	39368750	39368950	+	815.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252219, intron 2 of 4)	intron (NM_001252219, intron 2 of 4)	999.0	NM_001252218	114641.0	Mm.379302	NM_053257	ENSMUSG00000073702	Rpl31	Dts	ribosomal protein L31	protein-coding	2.5	7.0	8.0	81.5	11.0	9.0	5.5	19.0
Merged-chr9-35063230-4	chr9	35063100	35063300	+	770.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	MYSERV6-int|LTR|ERVK	-53528.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	4.5	7.0	1.0	106.5	25.0	10.5	5.5	8.0
Merged-chr11-53350762-4	chr11	53350655	53350855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033565)	promoter-TSS (NM_033565)	-12.0	NM_033565	93736.0	Mm.395281	NM_033565	ENSMUSG00000049470	Aff4	AF5Q31|Alf4|Laf4l|MCEF	AF4/FMR2 family, member 4	protein-coding	92.0	164.0	98.5	1230.5	290.0	120.5	112.0	126.0
Merged-chr11-22842591-1	chr11	22842491	22842691	+	762.5	f0_balb.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	17144.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	13.5	14.5	17.0	122.5	23.5	8.0	2.5	5.5
Merged-chr3-132747223-2	chr3	132747123	132747323	+	899.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163455, intron 20 of 25)	intron (NM_001163455, intron 20 of 25)	63079.0	NM_001163455	271981.0	Mm.257864	NM_173032	ENSMUSG00000028030	Tbck	1700120J03Rik|9430001M19|A630047E20Rik|C030007I09Rik|Tbckl	TBC1 domain containing kinase	protein-coding	4.5	7.0	3.5	163.0	23.5	5.5	6.0	5.5
Merged-chr8-112012069-3	chr8	112012008	112012208	+	947.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130868)	promoter-TSS (NM_001130868)	749.0	NM_020584	57321.0	Mm.213064	NM_020584	ENSMUSG00000033430	Terf2ip	Rap1	telomeric repeat binding factor 2, interacting protein	protein-coding	5.0	9.5	12.5	96.5	3.0	6.0	6.5	12.5
Merged-chr5-102046178-4	chr5	102046073	102046273	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	23748.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	25.5	27.5	35.0	397.5	67.0	13.5	27.5	46.5
Merged-chr2-167260607-4	chr2	167260506	167260706	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20069.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	62.0	56.5	137.5	1779.0	102.5	22.0	53.5	48.5
Merged-chr5-77463776-3	chr5	77463674	77463874	+	878.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1714.0	NR_131050	69370.0	Mm.426881	NR_131050	ENSMUSG00000107232	1700017L05Rik	-	RIKEN cDNA 1700017L05 gene	ncRNA	9.0	7.0	9.0	217.0	4.0	11.0	6.0	9.0
Merged-chr16-31938965-4	chr16	31938839	31939039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172822, intron 1 of 2)	MTE2b|LTR|ERVL-MaLR	5088.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	49.0	61.5	38.0	607.5	106.5	38.0	58.5	49.0
Merged-chr2-144011398-4	chr2	144011298	144011498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024281)	promoter-TSS (NM_024281)	-135.0	NM_024281	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	387.0	703.5	551.0	6781.5	1067.5	435.0	525.5	454.0
Merged-chr12-54927651-3	chr12	54927560	54927760	+	640.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013815, exon 12 of 27)	exon (NM_013815, exon 12 of 27)	58676.0	NM_013815	217578.0	Mm.479583	NM_013815	ENSMUSG00000035021	Baz1a	Acf1|B930060C03|BC065123|Gtl5|Wcrf180|cbp146	bromodomain adjacent to zinc finger domain 1A	protein-coding	5.0	4.5	8.5	155.5	6.0	1.5	6.5	6.0
Merged-chr4-6369179-4	chr4	6369077	6369277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	3497.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	29.0	28.5	36.5	600.5	55.0	23.0	36.5	27.5
Merged-chr2-84252275-4	chr2	84252173	84252373	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	172993.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	25.5	17.0	15.5	290.5	72.0	15.0	30.5	14.5
Merged-chr2-132121306-4	chr2	132121198	132121398	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	B3|SINE|B2	23810.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	7.0	33.0	18.0	124.0	46.0	9.0	14.5	8.0
Merged-chr9-103175001-1	chr9	103174901	103175101	+	658.0	f0_balb.idr	intron (NM_173781, intron 7 of 7)	intron (NM_173781, intron 7 of 7)	27064.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	8.0	15.5	1.5	111.0	17.5	8.5	14.5	13.5
Merged-chr3-83053950-4	chr3	83053882	83054082	+	573.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1556.0	NM_016784	53317.0	Mm.286349	NM_016784	ENSMUSG00000027998	Plrg1	AA958940|C80566|Tango4	pleiotropic regulator 1	protein-coding	3.0	6.0	3.5	120.5	18.0	6.0	8.5	6.5
Merged-chr2-34914255-4	chr2	34914165	34914365	+	933.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028716)	promoter-TSS (NM_028716)	-289.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	23.5	40.0	14.5	316.0	44.5	18.5	18.5	14.0
Merged-chr5-136171687-4	chr5	136171592	136171792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1036.0	NM_178751	269717.0	Mm.308396	NM_178751	ENSMUSG00000039747	Orai2	A730041O15Rik|Tmem142b	ORAI calcium release-activated calcium modulator 2	protein-coding	105.0	252.5	122.5	942.0	351.5	115.0	115.0	66.5
Merged-chr11-80144345-1	chr11	80144245	80144445	+	669.0	f0_balb.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-2192.0	NM_183275	68550.0	Mm.18466	NM_183275	ENSMUSG00000046909	Tefm	1110002N22Rik	transcription elongation factor, mitochondrial	protein-coding	13.5	8.0	13.0	119.5	13.5	6.0	5.0	2.5
Merged-chr9-95571683-4	chr9	95571566	95571766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	11849.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	40.0	50.0	76.0	1174.5	91.0	34.0	46.0	27.5
Merged-chr17-26242216-4	chr17	26242120	26242320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	intron (NM_001206335, intron 1 of 12)	2022.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	32.0	77.5	25.5	379.0	103.5	31.0	28.0	28.5
Merged-chr17-87313523-4	chr17	87313399	87313599	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 5 of 19)	intron (NM_028639, intron 5 of 19)	30613.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	40.5	40.5	63.0	989.5	69.5	13.0	20.0	33.0
Merged-chr4-148583526-3	chr4	148583440	148583640	+	992.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-7973.0	NM_009272	20810.0	Mm.10	NM_009272	ENSMUSG00000006442	Srm	AA407669|SpdST|SpdSy	spermidine synthase	protein-coding	45.0	74.5	36.0	868.5	5.5	4.5	1.5	2.5
Merged-chr2-11500755-4	chr2	11500661	11500861	+	889.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	1329.0	NM_001177754	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	13.5	16.0	17.0	222.0	23.5	7.0	12.0	10.5
Merged-chr15-73185372-4	chr15	73185233	73185433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153178)	promoter-TSS (NM_153178)	-386.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	69.5	97.0	53.5	802.5	137.5	65.5	70.0	65.5
Merged-chr16-64852695-4	chr16	64852586	64852786	+	922.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347245)	promoter-TSS (NM_001347245)	685.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	14.5	18.0	24.5	246.0	41.5	10.0	20.5	13.0
Merged-chr18-55517055-3	chr18	55516956	55517156	+	757.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-524465.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	12.0	6.0	16.5	233.5	24.0	5.5	4.5	7.0
Merged-chr12-102339328-3	chr12	102339234	102339434	+	725.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 3 of 9)	MLT1H|LTR|ERVL-MaLR	55693.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	10.5	20.5	15.0	190.0	4.5	2.0	2.5	10.5
Merged-chr12-3804139-4	chr12	3804044	3804244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-2836.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	41.0	74.5	22.5	457.5	101.0	30.5	54.5	42.0
Merged-chr13-49242904-4	chr13	49242791	49242991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028340, intron 1 of 4)	intron (NM_028340, intron 1 of 4)	5403.0	NM_001360772	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	62.0	111.0	46.0	705.5	113.5	34.0	31.5	30.0
Merged-chr7-118849147-3	chr7	118849023	118849223	+	785.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168219, intron 2 of 3)	intron (NM_001168219, intron 2 of 3)	6490.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	10.5	11.0	7.0	105.0	22.0	3.5	5.5	3.0
Merged-chr16-92714985-4	chr16	92714884	92715084	+	963.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 2 of 6)	intron (NM_001111022, intron 2 of 6)	-17655.0	NM_009821	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	11.5	16.5	17.0	189.5	43.0	16.0	11.0	26.0
Merged-chr1-174031870-4	chr1	174031768	174031968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172648)	promoter-TSS (NM_172648)	-113.0	NM_172648	226695.0	Mm.425061	NM_172648	ENSMUSG00000054203	Ifi205	D3|D3cDNA|Ifi205a	interferon activated gene 205	protein-coding	28.0	49.5	25.5	379.5	103.0	54.0	29.5	31.5
Merged-chr11-5109912-4	chr11	5109787	5109987	+	771.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080595, intron 14 of 14)	intron (NM_080595, intron 14 of 14)	9722.0	NM_001290493	279766.0	Mm.260866	NM_177370	ENSMUSG00000034175	Rhbdd3	Ptag	rhomboid domain containing 3	protein-coding	6.5	7.0	6.5	131.0	16.0	9.0	8.0	3.0
Merged-chr10-26322865-4	chr10	26322767	26322967	+	855.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359255, intron 12 of 21)	intron (NM_001359255, intron 12 of 21)	51205.0	NM_001359255	237339.0	Mm.338439	NM_172787	ENSMUSG00000039089	L3mbtl3	AI481284|MBT-1	L3MBTL3 histone methyl-lysine binding protein	protein-coding	9.0	13.5	11.0	280.0	25.0	6.0	16.5	17.5
Merged-chr4-123952236-4	chr4	123952113	123952313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34780.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	46.5	65.5	35.0	489.0	90.0	34.5	42.0	27.0
Merged-chr14-46821514-4	chr14	46821410	46821610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022023, intron 1 of 6)	intron (NM_022023, intron 1 of 6)	732.0	NM_022023	63985.0	Mm.87312	NM_022023	ENSMUSG00000062014	Gmfb	3110001H22Rik|3110001O16Rik|AI851627|C79176|D14Ertd630e	glia maturation factor, beta	protein-coding	35.5	65.5	25.0	804.5	93.5	32.0	44.0	28.0
Merged-chr10-5317724-2	chr10	5317624	5317824	+	642.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347711, intron 43 of 145)	intron (NM_001347711, intron 43 of 145)	-123017.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	5.0	7.5	13.0	67.5	4.5	3.5	1.0	5.5
Merged-chr19-6067166-4	chr19	6067062	6067262	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081041)	TTS (NM_001081041)	688.0	NM_028454	73166.0	Mm.489613	NM_028454	ENSMUSG00000024799	Tm7sf2	3110041O18Rik|ANG1|C14SR|Dhcr14	transmembrane 7 superfamily member 2	protein-coding	23.0	29.5	8.0	98.5	36.5	7.0	21.5	26.5
Merged-chr13-42282748-3	chr13	42282648	42282848	+	933.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18728.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	10.0	14.0	5.0	132.5	6.5	4.5	5.0	8.0
Merged-chr7-127471376-4	chr7	127471274	127471474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145589)	promoter-TSS (NM_145589)	-240.0	NM_145589	233895.0	Mm.44183	NM_145589	ENSMUSG00000030822	Prr14	BC006909	proline rich 14	protein-coding	107.0	197.5	90.0	1297.0	287.0	84.5	93.5	93.5
Merged-chr3-47885655-3	chr3	47885555	47885755	+	981.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141104.0	NR_040408	666202.0	Mm.465057	NR_040408	ENSMUSG00000103257	Gm7977	EG666202	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide pseudogene	pseudo	16.5	6.0	29.5	244.0	13.0	5.5	0.0	9.0
Merged-chr1-175936615-4	chr1	175936536	175936736	+	715.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16307.0	NM_001290692	226720.0	Mm.11282	NM_001290692	ENSMUSG00000104158	Becn2	Beclin-2|Gm104	beclin 2	protein-coding	10.5	10.5	8.0	165.5	22.0	6.0	11.5	14.5
Merged-chr14-64633590-4	chr14	64633490	64633690	+	933.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18941.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	14.5	12.5	1.5	139.0	44.0	16.0	13.5	22.5
Merged-chr10-68104763-3	chr10	68104653	68104853	+	897.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 8 of 9)	intron (NM_023598, intron 8 of 9)	125183.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	13.0	9.5	10.0	111.5	15.5	2.5	8.5	6.0
Merged-chr16-20097517-4	chr16	20097420	20097620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029436)	promoter-TSS (NM_029436)	-34.0	NM_029436	75785.0	Mm.392450	NM_029436	ENSMUSG00000062901	Klhl24	1110046J11Rik|4930429H24Rik|6530402O20Rik|C85082	kelch-like 24	protein-coding	83.5	177.5	114.5	1505.5	276.5	117.5	160.0	134.5
Merged-chr7-126725325-4	chr7	126725202	126725402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-20486.0	NM_009898	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	48.0	78.5	61.5	396.5	120.0	41.5	34.0	43.0
Merged-chr5-115327678-4	chr5	115327526	115327726	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036616, intron 1 of 4)	CpG	449.0	NR_036616	108014.0	Mm.287826	NM_025573	ENSMUSG00000029538	Srsf9	25kDa|2610029M16Rik|SRp30c|Sfrs9	serine/arginine-rich splicing factor 9	protein-coding	25.0	34.5	17.0	207.5	64.5	17.5	20.5	16.5
Merged-chr14-75131657-4	chr14	75131546	75131746	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027581)	promoter-TSS (NM_027581)	523.0	NM_001247984	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	12.0	76.5	26.5	93.0	77.5	39.5	13.0	7.0
Merged-chr6-17749190-4	chr6	17749099	17749299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001083315)	promoter-TSS (NM_001083315)	29.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	19.0	46.5	32.5	434.5	94.0	29.0	57.0	32.5
Merged-chr6-134268216-3	chr6	134268122	134268322	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007961, exon 8 of 8)	3' UTR (NM_007961, exon 8 of 8)	-128107.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	65.5	151.5	128.0	1470.5	15.0	2.0	7.0	2.0
Merged-chr11-71863335-3	chr11	71863239	71863439	+	934.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	76783.0	NR_045942	73816.0	Mm.390391	NR_045942	ENSMUSG00000085528	4930401O10Rik	-	RIKEN cDNA 4930401O10 gene	ncRNA	11.5	14.5	6.5	223.0	19.0	7.0	18.5	6.0
Merged-chr3-151294180-3	chr3	151294077	151294277	+	830.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143705.0	NM_133222	170757.0	Mm.317261	NM_133222	ENSMUSG00000039167	Adgrl4	1110033N21Rik|ETL1|Eltd1|Etl	adhesion G protein-coupled receptor L4	protein-coding	10.5	8.5	13.0	141.0	10.5	5.5	8.0	2.0
Merged-chr11-69919882-4	chr11	69919761	69919961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166593, intron 1 of 6)	intron (NM_001166593, intron 1 of 6)	769.0	NM_001166590	276770.0	Mm.18026	NM_181582	ENSMUSG00000078812	Eif5a	AA410058|D19Wsu54e|Eif4d|Eif5a1|eIF-4D|eIF-5A|eIF-5A-1|eIF-5A1	eukaryotic translation initiation factor 5A	protein-coding	61.5	113.5	62.0	523.5	173.0	72.0	65.5	62.0
Merged-chr8-48009223-1	chr8	48009123	48009323	+	628.5	f0_balb.idr	Intergenic	RCHARR1|DNA|hAT-Charlie	-18672.0	NM_133791	52357.0	Mm.235074	NM_133791	ENSMUSG00000031563	Wwc2	5330431C14Rik|AU022508|C85457|D8Ertd594e	WW, C2 and coiled-coil domain containing 2	protein-coding	4.5	10.0	11.5	87.5	3.0	2.5	5.5	0.0
Merged-chr17-31018467-4	chr17	31018372	31018572	+	857.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39222.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	10.0	22.5	11.5	138.5	24.0	6.0	14.5	8.0
Merged-chr2-160732126-1	chr2	160732026	160732226	+	607.0	f0_c57.idr	intron (NM_021280, intron 2 of 33)	CpG-8784	816.0	NM_021280	18803.0	Mm.44463	NM_021280	ENSMUSG00000016933	Plcg1	AI894140|Cded|Plc-1|Plc-gamma1|Plcg-1	phospholipase C, gamma 1	protein-coding	6.0	6.5	12.0	93.0	35.5	7.5	8.5	10.5
Merged-chr11-31902466-4	chr11	31902384	31902584	+	971.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290678, intron 2 of 7)	intron (NM_001290678, intron 2 of 7)	31544.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	22.0	31.5	14.5	284.5	72.5	12.0	30.0	17.5
Merged-chr5-115007206-4	chr5	115007117	115007317	+	880.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4307.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	7.0	9.5	10.0	159.5	29.0	9.5	14.0	15.5
Merged-chr4-86690392-4	chr4	86690295	86690495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20336.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	196.0	286.5	188.0	2591.0	420.5	185.0	201.0	193.5
Merged-chr13-105224164-3	chr13	105224089	105224289	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360891, intron 5 of 7)	intron (NM_001360891, intron 5 of 7)	68825.0	NM_027934	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	9.5	3.0	8.0	84.5	15.0	6.5	7.0	10.0
Merged-chr5-92435277-4	chr5	92435175	92435375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183392)	promoter-TSS (NM_183392)	-76.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	314.5	469.5	356.5	4405.0	701.0	335.0	374.0	300.0
Merged-chr1-43502017-7	chr1	43501923	43502123	+	992.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	56272.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	8.0	24.5	23.0	204.0	31.0	7.5	16.5	12.0
Merged-chr1-181232470-4	chr1	181232359	181232559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20481.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	27.5	34.0	37.5	491.0	54.5	37.5	24.0	23.5
Merged-chr5-114127583-4	chr5	114127512	114127712	+	987.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359940, exon 2 of 4)	exon (NM_001359940, exon 2 of 4)	606.0	NM_001359940	231642.0	Mm.332593	NM_175016	ENSMUSG00000044339	Alkbh2	9530023G02|AU016977|Abh2|mABH2	alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase	protein-coding	16.0	17.0	11.5	323.5	38.0	19.5	4.0	18.0
Merged-chr1-152809572-2	chr1	152809472	152809672	+	962.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 2 of 15)	MTA_Mm|LTR|ERVL-MaLR	9419.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	7.5	12.5	4.5	44.5	19.5	9.0	7.0	7.5
Merged-chr4-40285803-3	chr4	40285679	40285879	+	627.200012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6358.0	NM_001033305	230075.0	Mm.1103	NM_001033305	ENSMUSG00000071014	Ndufb6	CI-B17|Gm137	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6	protein-coding	8.0	4.0	5.0	63.0	24.5	8.0	5.5	10.5
Merged-chr6-122607999-3	chr6	122607917	122608117	+	712.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008108, intron 1 of 1)	intron (NM_008108, intron 1 of 1)	2070.0	NM_008108	14562.0	Mm.299742	NM_008108	ENSMUSG00000030117	Gdf3	C78318|Gdf-3|Vgr-2|Vgr2|ecat9	growth differentiation factor 3	protein-coding	10.5	12.5	2.0	46.5	12.0	8.0	5.5	14.5
Merged-chr7-27178564-2	chr7	27178464	27178664	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_029391, intron 1 of 7)	intron (NM_029391, intron 1 of 7)	319.0	NM_029391	19342.0	Mm.482114	NM_029391	ENSMUSG00000053291	Rab4b	1500031G17Rik	RAB4B, member RAS oncogene family	protein-coding	120.0	155.5	121.5	1515.5	284.5	98.5	136.5	96.5
Merged-chr17-45691714-4	chr17	45691605	45691805	+	650.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026732, intron 1 of 2)	intron (NM_026732, intron 1 of 2)	5356.0	NM_026732	68463.0	Mm.379158	NM_026732	ENSMUSG00000023939	Mrpl14	1110006I11Rik|AI846816|MRP-L32|Rpml32	mitochondrial ribosomal protein L14	protein-coding	3.0	10.5	3.0	68.5	27.0	14.0	8.5	4.5
Merged-chr10-13553148-4	chr10	13553051	13553251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347361)	promoter-TSS (NM_001347361)	-9.0	NM_001347361	56535.0	Mm.282711	NM_019961	ENSMUSG00000019809	Pex3	1700014F15Rik|2810027F19Rik|2900010N04Rik	peroxisomal biogenesis factor 3	protein-coding	73.0	117.5	58.5	1175.5	181.0	64.0	106.0	71.0
Merged-chr6-72092882-3	chr6	72092805	72093005	+	675.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4703.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	6.0	8.0	9.0	76.0	2.5	4.5	1.5	3.0
Merged-chr2-163675902-2	chr2	163675802	163676002	+	754.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039390, intron 2 of 4)	intron (NM_001039390, intron 2 of 4)	17444.0	NM_001164053	18769.0	Mm.10091	NM_011106	ENSMUSG00000035268	Pkig	PKIgamma	protein kinase inhibitor, gamma	protein-coding	6.0	8.0	4.0	135.0	22.0	12.5	7.0	8.5
Merged-chr5-21188612-4	chr5	21188497	21188697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 1 of 26)	intron (NR_153365, intron 1 of 26)	2330.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	143.5	215.5	112.0	2209.0	245.5	110.5	126.0	94.5
Merged-chr2-71873922-7	chr2	71873821	71874021	+	984.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360002)	promoter-TSS (NM_001360002)	697.0	NM_172665	228026.0	Mm.34411	NM_172665	ENSMUSG00000006494	Pdk1	B830012B01|D530020C15Rik	pyruvate dehydrogenase kinase, isoenzyme 1	protein-coding	6.5	10.0	5.0	94.0	23.5	12.5	8.5	13.5
Merged-chr10-21827100-4	chr10	21826980	21827180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55104.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	33.0	26.5	38.5	502.5	100.5	28.5	30.0	28.0
Merged-chr2-91483668-4	chr2	91483553	91483753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172668, intron 16 of 37)	B3|SINE|B2	26122.0	NM_001145857	228357.0	Mm.275149	NM_172668	ENSMUSG00000027253	Lrp4	6430526J12Rik|D230026E03|Megf7|mdig	low density lipoprotein receptor-related protein 4	protein-coding	33.0	29.0	19.5	406.5	80.5	18.5	29.0	21.5
Merged-chr6-16738116-3	chr6	16738004	16738204	+	969.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	160337.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	10.0	16.5	17.5	230.5	21.0	4.5	20.5	10.5
Merged-chr17-24658286-4	chr17	24658181	24658381	+	718.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001099664, exon 1 of 2)	exon (NM_001099664, exon 1 of 2)	144.0	NM_001099664	381073.0	Mm.291772	NM_001099664	ENSMUSG00000071230	Npw	Gm935	neuropeptide W	protein-coding	6.0	14.5	8.0	86.5	21.0	6.5	13.0	12.5
Merged-chr17-6655372-4	chr17	6655242	6655442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166630, intron 1 of 4).2	CpG	489.0	NM_001166630	100040563.0	Mm.457381	NM_001166630	ENSMUSG00000000579	Dynlt1c	100040603|Dynlt1d	dynein light chain Tctex-type 1C	protein-coding	55.5	69.5	48.5	358.5	108.0	41.0	64.5	38.5
Merged-chr9-110449060-4	chr9	110448947	110449147	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360306, intron 3 of 9)	intron (NM_001360306, intron 3 of 9)	27647.0	NM_001360306	270201.0	Mm.41744	NM_177771	ENSMUSG00000054792	Klhl18	A930041K15|AW545966	kelch-like 18	protein-coding	28.0	26.5	8.0	194.0	45.0	18.0	13.0	16.5
Merged-chr10-77543352-4	chr10	77543259	77543459	+	935.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008404, intron 3 of 15)	MTE2b|LTR|ERVL-MaLR	13011.0	NM_008404	16414.0	Mm.1137	NM_008404	ENSMUSG00000000290	Itgb2	2E6|AI528527|Cd18|LAD|LCAMB|Lfa1|MF17	integrin beta 2	protein-coding	15.5	21.0	10.5	273.0	29.5	11.5	14.0	11.0
Merged-chr6-40430371-3	chr6	40430274	40430474	+	638.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356375, intron 1 of 8)	intron (NM_001356375, intron 1 of 8)	5761.0	NM_001356375	243780.0	Mm.333006	NM_175528	ENSMUSG00000037172	E330009J07Rik	AI841796|Lchn|mKIAA1147	RIKEN cDNA E330009J07 gene	protein-coding	8.5	17.0	0.5	100.0	15.0	4.5	5.5	6.5
Merged-chr9-118150158-4	chr9	118150058	118150258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026442)	promoter-TSS (NM_026442)	38.0	NM_026442	67899.0	Mm.9953	NM_026442	ENSMUSG00000039163	Cmc1	2010110K16Rik|2010312P05Rik|AI596001	COX assembly mitochondrial protein 1	protein-coding	66.5	112.0	63.5	878.5	177.0	70.0	114.5	60.0
Merged-chr7-80187050-4	chr7	80186883	80187083	+	874.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013659, exon 1 of 15)	5' UTR (NM_013659, exon 1 of 15)	142.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	11.5	11.5	14.0	109.0	19.0	14.5	7.5	15.5
Merged-chr16-17205182-4	chr16	17205087	17205287	+	861.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-2948.0	NM_001033338	239731.0	Mm.86671	NM_001033338	ENSMUSG00000071636	Rimbp3	Gm1759|Gm603|RIM-BP3|mKIAA1666	RIMS binding protein 3	protein-coding	13.0	11.5	5.0	89.5	66.5	8.0	12.5	19.5
Merged-chr12-73889764-4	chr12	73889678	73889878	+	889.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11546.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	11.5	19.5	23.5	552.5	35.0	9.0	16.5	12.0
Merged-chr3-61363276-3	chr3	61363153	61363353	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1254.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	18.5	41.0	32.0	335.5	49.0	23.5	15.5	16.5
Merged-chr3-88716864-4	chr3	88716746	88716946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009069)	promoter-TSS (NM_009069)	-8.0	NM_001163310	19769.0	Mm.4009	NM_009069	ENSMUSG00000028057	Rit1	RIBB|ROC1|Rit	Ras-like without CAAX 1	protein-coding	52.5	40.0	14.5	390.0	82.5	26.0	41.0	42.0
Merged-chr16-91562184-4	chr16	91562076	91562276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008338, intron 6 of 6)	intron (NM_008338, intron 6 of 6)	15082.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	52.5	78.0	31.0	885.5	156.0	64.5	52.5	64.0
Merged-chr13-9409215-4	chr13	9409109	9409309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	132684.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	67.0	111.5	86.0	1266.5	115.5	51.0	41.0	30.5
Merged-chr11-119943899-3	chr11	119943762	119943962	+	959.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037754, intron 1 of 13)	intron (NM_001037754, intron 1 of 13)	770.0	NM_130862	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	14.0	13.0	17.5	117.0	34.5	13.0	11.5	8.0
Merged-chr7-64392295-4	chr7	64392182	64392382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026483)	promoter-TSS (NM_026483)	-46.0	NM_026483	67973.0	Mm.26973	NM_026483	ENSMUSG00000030521	Mphosph10	2810453H10Rik|5730405D16Rik|AI326008	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	protein-coding	114.0	211.0	130.0	2103.0	414.5	152.0	209.0	155.0
Merged-chr10-122038767-3	chr10	122038671	122038871	+	939.1333619999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081037, intron 1 of 21)	MLT1J|LTR|ERVL-MaLR	8544.0	NM_001242411	117600.0	Mm.288698	NM_001081037	ENSMUSG00000020121	Srgap1	4930572H05Rik|Arhgap13	SLIT-ROBO Rho GTPase activating protein 1	protein-coding	8.0	7.5	8.5	53.5	32.0	18.5	19.0	15.0
Merged-chr2-157371611-7	chr2	157371458	157371658	+	899.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026968, intron 1 of 2)	ID_B1|SINE|B4	3964.0	NM_026968	69161.0	Mm.228619	NM_026968	ENSMUSG00000063019	Manbal	1810024K12Rik|AI836500	mannosidase, beta A, lysosomal-like	protein-coding	5.5	8.5	8.0	156.5	10.0	5.0	8.0	17.0
Merged-chr1-182292239-4	chr1	182292149	182292349	+	821.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2-int|LTR|ERVL-MaLR	-8585.0	NR_015458	67330.0	Mm.331019	NR_015458	ENSMUSG00000100147	1700047M11Rik	-	RIKEN cDNA 1700047M11 gene	ncRNA	14.5	11.0	18.5	302.0	14.0	3.0	14.5	21.5
Merged-chr17-25045104-2	chr17	25045012	25045212	+	965.8333130000001	f1_balb.idr|f1_c57bl6.idr	exon (NM_134126, exon 13 of 30)	exon (NM_134126, exon 13 of 30)	29026.0	NM_134126	106633.0	Mm.32802	NM_134126	ENSMUSG00000024169	Ift140	AI661311|Tce5|Wdtc2|mKIAA0590	intraflagellar transport 140	protein-coding	5.0	9.0	0.0	6.5	20.5	25.5	7.5	6.5
Merged-chr17-28327722-3	chr17	28327665	28327865	+	945.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011287)	promoter-TSS (NM_011287)	-706.0	NM_011287	19896.0	Mm.336955	NM_011287	ENSMUSG00000037805	Rpl10a	CsA-19|Nedd6	ribosomal protein L10A	protein-coding	9.0	5.5	15.5	79.0	15.5	5.5	4.5	2.5
Merged-chr7-29856499-2	chr7	29856406	29856606	+	710.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MERVL_2A-int|LTR|ERVL	-2858.0	NM_173738	233057.0	Mm.296864	NM_173738	ENSMUSG00000050855	Zfp940	-	zinc finger protein 940	protein-coding	2.0	5.0	2.0	31.5	13.5	5.0	14.0	6.5
Merged-chr14-27351198-3	chr14	27351103	27351303	+	939.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	-10186.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	16.0	9.0	21.0	186.5	15.0	7.5	9.5	6.0
Merged-chr5-105567106-4	chr5	105566993	105567193	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	intron (NM_133897, intron 2 of 3)	47622.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	78.5	206.5	96.0	618.5	274.5	94.5	103.5	73.5
Merged-chr3-36066089-4	chr3	36066016	36066216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172678, exon 1 of 18)	exon (NM_172678, exon 1 of 18)	137.0	NM_172678	229211.0	Mm.260997	NM_172678	ENSMUSG00000027710	Acad9	2600017P15Rik|4732402K02|C630012L17Rik|NPD002	acyl-Coenzyme A dehydrogenase family, member 9	protein-coding	68.5	121.5	105.5	1304.5	162.5	57.0	83.0	68.5
Merged-chr2-30415589-4	chr2	30415494	30415694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138748)	promoter-TSS (NM_138748)	154.0	NM_007760	12908.0	Mm.20396	NM_007760	ENSMUSG00000026853	Crat	AW107812|CARAT	carnitine acetyltransferase	protein-coding	117.0	168.5	83.5	1144.0	237.5	94.0	136.0	108.5
Merged-chr18-4333837-3	chr18	4333726	4333926	+	726.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007746, exon 7 of 8)	exon (NM_007746, exon 7 of 8)	19127.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	9.0	7.5	10.0	247.5	14.0	10.0	4.5	12.0
Merged-chr3-100176200-4	chr3	100176106	100176306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104341, intron 3 of 13)	intron (NR_104341, intron 3 of 13)	13743.0	NR_104341	14547.0	Mm.279228	NM_010269	ENSMUSG00000027865	Gdap2	C77050|D3Ertd801e	ganglioside-induced differentiation-associated-protein 2	protein-coding	58.5	60.5	57.5	930.0	86.0	33.5	41.0	45.0
Merged-chr14-56042353-4	chr14	56042279	56042479	+	890.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008571, intron 1 of 4)	intron (NM_008571, intron 1 of 4)	256.0	NM_008571	17225.0	Mm.4409	NM_008571	ENSMUSG00000022226	Mcpt2	MMCP-2|Mcp-2	mast cell protease 2	protein-coding	15.0	16.0	23.0	243.0	23.5	14.5	14.0	12.0
Merged-chr1-95468337-4	chr1	95468255	95468455	+	726.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154727.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	9.5	11.5	12.0	114.5	30.5	14.5	5.5	3.5
Merged-chr11-46798492-4	chr11	46798367	46798567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12332.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	64.0	146.0	91.5	640.0	164.5	59.5	41.5	19.5
Merged-chr17-34561417-4	chr17	34561322	34561522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2873.0	NM_010929	18132.0	Mm.173813	NM_010929	ENSMUSG00000015468	Notch4	Int-3|Int3|N4	notch 4	protein-coding	61.0	101.0	49.0	673.5	207.0	77.5	68.0	74.0
Merged-chr9-97115708-4	chr9	97115616	97115816	+	955.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4675.0	NM_138756	192287.0	Mm.228067	NM_138756	ENSMUSG00000032449	Slc25a36	C330005L02Rik	solute carrier family 25, member 36	protein-coding	15.5	23.0	26.0	215.0	33.5	18.5	17.0	18.5
Merged-chr9-21431199-3	chr9	21431102	21431302	+	901.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357721, intron 1 of 19)	(TC)n|Simple_repeat|Simple_repeat	6294.0	NM_001357719	13430.0	Mm.433257	NM_007871	ENSMUSG00000033335	Dnm2	Dyn2|Udnm|b2b2159Clo	dynamin 2	protein-coding	6.0	12.0	9.0	132.5	16.0	4.5	13.0	9.0
Merged-chr4-150488918-3	chr4	150488814	150489014	+	868.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 7 of 22)	intron (NM_001085492, intron 7 of 22)	163260.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	7.5	5.0	9.0	84.0	7.0	5.0	6.5	11.5
Merged-chr3-59205301-4	chr3	59205193	59205393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	5589.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	29.0	53.0	34.5	648.0	96.0	38.0	38.0	26.5
Merged-chr6-11907740-4	chr6	11907561	11907761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010886)	promoter-TSS (NM_010886)	-168.0	NM_001362123	75725.0	Mm.212411	NM_029404	ENSMUSG00000029629	Phf14	1110001C23Rik|4932409F11Rik|5730446A07Rik|AA623952|AV297001|mKIAA0783	PHD finger protein 14	protein-coding	63.0	143.5	129.0	969.5	187.5	101.5	95.5	82.5
Merged-chr10-77972352-3	chr10	77972243	77972443	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2471.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	9.5	31.0	8.0	322.0	46.5	23.0	26.0	28.5
Merged-chr4-63399309-7	chr4	63399180	63399380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045514, intron 1 of 21)	intron (NM_001045514, intron 1 of 21)	-1040.0	NM_001305432	100182.0	Mm.387725	NM_001045514	ENSMUSG00000039158	Akna	AI597013	AT-hook transcription factor	protein-coding	82.5	142.5	136.0	1025.0	141.5	53.5	63.0	55.5
Merged-chr5-45491595-4	chr5	45491486	45491686	+	877.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	-1788.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	11.5	27.5	11.5	223.5	19.5	14.5	24.0	14.5
Merged-chr9-105034640-3	chr9	105034581	105034781	+	819.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001357439)	TTS (NM_001357439)	-18587.0	NM_053159	94062.0	Mm.29746	NM_053159	ENSMUSG00000032563	Mrpl3	2010320L16Rik|5930422H18Rik|AA407889	mitochondrial ribosomal protein L3	protein-coding	11.5	18.0	5.5	285.5	1.5	1.0	1.5	1.5
Merged-chr2-126167361-2	chr2	126167261	126167461	+	565.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15220.0	NM_026981	69185.0	Mm.29019	NM_026981	ENSMUSG00000023330	Dtwd1	1810033A06Rik	DTW domain containing 1	protein-coding	5.5	8.0	6.0	100.0	13.0	5.0	8.5	9.0
Merged-chr15-64132143-2	chr15	64132043	64132243	+	719.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 15 of 28)	intron (NM_001276461, intron 15 of 28)	-71695.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	2.0	5.0	2.5	63.0	5.5	8.0	5.0	6.5
Merged-chr11-107547795-6	chr11	107547736	107547936	+	862.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198298)	promoter-TSS (NM_198298)	-124.0	NM_198298	78455.0	Mm.272047	NM_198298	ENSMUSG00000020721	Helz	3110078M01Rik|9430093I07Rik|9630002H22Rik|AI851979|DRHC	helicase with zinc finger domain	protein-coding	13.5	17.0	13.0	206.0	24.0	16.0	10.5	6.0
Merged-chr18-23942391-4	chr18	23942320	23942520	+	877.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12268.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	6.5	15.5	14.0	204.5	23.0	9.5	11.0	9.0
Merged-chr15-37305550-4	chr15	37305450	37305650	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026496, intron 7 of 15)	intron (NM_026496, intron 7 of 15)	-72391.0	NR_155442	105245924.0	Mm.391911	NR_155441	ENSMUSG00000089804	Gm16136	-	predicted gene 16136	ncRNA	30.5	38.5	38.5	634.5	94.0	18.0	44.5	17.0
Merged-chr4-109413976-3	chr4	109413904	109414104	+	891.2333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153392, intron 1 of 17)	ORR1E|LTR|ERVL-MaLR	-1643.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	20.5	43.0	22.0	232.0	9.0	3.5	6.0	6.5
Merged-chr1-79684241-4	chr1	79684152	79684352	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-12280.0	NM_183027	252903.0	Mm.32409	NM_183027	ENSMUSG00000054702	Ap1s3	1190009B22|Jr2|[s]3A	adaptor-related protein complex AP-1, sigma 3	protein-coding	17.5	23.0	40.5	779.5	82.0	26.5	40.5	29.5
Merged-chr10-91702007-4	chr10	91701904	91702104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186825.0	NR_152729	102633867.0	Mm.351514	NR_152729	ENSMUSG00000111657	Gm31592	-	predicted gene, 31592	ncRNA	32.0	34.5	39.0	1347.0	53.0	20.0	34.5	31.0
Merged-chr7-130009241-3	chr7	130009147	130009347	+	836.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47082.0	NR_046077	100043150.0	Mm.334264	NR_046077	ENSMUSG00000108504	Gm4265	-	predicted gene 4265	ncRNA	8.0	6.0	4.5	127.5	4.5	10.0	9.5	13.5
Merged-chr11-50131366-4	chr11	50131243	50131443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290759)	promoter-TSS (NM_001290759)	-17.0	NM_001290759	76795.0	Mm.290975	NM_029745	ENSMUSG00000036644	Tbc1d9b	-	TBC1 domain family, member 9B	protein-coding	86.0	86.0	61.5	787.5	247.5	103.5	111.0	98.0
Merged-chr8-121861488-3	chr8	121861394	121861594	+	917.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31925.0	NM_145605	234825.0	Mm.209329	NM_145605	ENSMUSG00000040263	Klhdc4	AA408426|AV352552|BC012312|G430025P05Rik	kelch domain containing 4	protein-coding	3.0	7.5	3.5	128.0	28.0	7.5	12.0	8.0
Merged-chr13-73331063-4	chr13	73330970	73331170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053163)	promoter-TSS (NM_053163)	61.0	NM_053163	94066.0	Mm.26775	NM_053163	ENSMUSG00000021607	Mrpl36	AI646041	mitochondrial ribosomal protein L36	protein-coding	41.5	58.0	89.5	642.0	122.5	37.0	36.5	54.5
Merged-chr17-65740507-4	chr17	65740412	65740612	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	intron (NM_133685, intron 1 of 6)	32240.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	17.5	28.5	30.0	411.5	40.5	12.0	39.5	11.0
Merged-chr5-66016325-4	chr5	66016209	66016409	+	894.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001127382)	TTS (NM_001127382)	-12024.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	13.0	12.5	4.5	99.5	36.5	8.0	14.0	16.5
Merged-chr5-67764973-1	chr5	67764873	67765073	+	661.5	f0_balb.idr	exon (NM_009727, exon 12 of 36)	exon (NM_009727, exon 12 of 36)	82458.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	9.5	6.5	6.0	100.5	20.0	6.0	7.0	7.5
Merged-chr1-131972710-4	chr1	131972594	131972794	+	971.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145977, intron 1 of 4)	intron (NM_145977, intron 1 of 4)	2085.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	13.5	24.0	26.0	563.5	42.5	12.0	23.0	33.5
Merged-chr17-26616935-3	chr17	26616817	26617017	+	907.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 3 of 9)	intron (NM_026170, intron 3 of 9)	55405.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	11.0	6.5	15.5	103.5	21.5	2.5	3.0	14.0
Merged-chr7-134566569-2	chr7	134566469	134566669	+	671.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104118.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	3.5	4.0	2.5	49.5	13.0	5.5	5.5	7.5
Merged-chr1-55529132-6	chr1	55529035	55529235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	123189.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	16.5	16.5	44.0	407.5	37.0	14.0	19.0	31.5
Merged-chr2-4573874-3	chr2	4573787	4573987	+	954.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177844, intron 3 of 11)	intron (NM_001177844, intron 3 of 11)	14133.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	10.5	7.5	6.0	198.0	19.5	5.5	15.5	11.5
Merged-chr6-17643014-4	chr6	17642934	17643134	+	938.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007604, intron 1 of 9)	intron (NM_007604, intron 1 of 9)	6024.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	17.0	21.5	14.0	216.5	66.5	15.5	14.5	17.0
Merged-chr10-13833986-4	chr10	13833947	13834147	+	958.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025446, intron 1 of 5)	intron (NM_025446, intron 1 of 5)	34910.0	NM_025446	66253.0	Mm.45755	NM_025446	ENSMUSG00000019806	Aig1	1500031O19Rik|AV064870|AW413422|CGI-103	androgen-induced 1	protein-coding	4.5	9.5	9.0	154.5	44.0	14.5	14.0	14.0
Merged-chr8-25044298-4	chr8	25044190	25044390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 10 of 11)	intron (NM_031257, intron 10 of 11)	-5328.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	15.0	36.0	26.5	482.0	67.0	21.0	24.5	32.0
Merged-chr2-113431059-4	chr2	113430979	113431179	+	945.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010230, intron 3 of 19)	intron (NM_010230, intron 3 of 19)	-9985.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	12.5	17.0	8.0	244.0	55.5	17.0	30.5	18.0
Merged-chr18-82906380-4	chr18	82906348	82906548	+	733.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4431.0	NM_183033	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	5.0	4.5	9.5	48.5	14.5	6.5	4.0	5.5
Merged-chr12-79628195-2	chr12	79628097	79628297	+	705.0	f0_balb.idr|f0_c57.idr	intron (NM_009014, intron 7 of 10)	intron (NM_009014, intron 7 of 10)	296536.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	6.5	13.0	6.0	107.5	18.5	3.5	4.0	13.5
Merged-chr4-141845510-1	chr4	141845410	141845610	+	586.5	f0_c57.idr	intron (NM_001033875, intron 1 of 8)	intron (NM_001033875, intron 1 of 8)	849.0	NM_001033875	76701.0	Mm.489680	NM_001033875	ENSMUSG00000062478	Ctrc	1810044E12Rik	chymotrypsin C (caldecrin)	protein-coding	4.5	13.0	2.0	33.0	18.0	5.5	10.5	12.5
Merged-chr11-85942071-2	chr11	85941971	85942171	+	718.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45306.0	NM_172798	21387.0	Mm.275336	NM_011536	ENSMUSG00000000094	Tbx4	3930401C23	T-box 4	protein-coding	7.5	9.5	5.5	36.0	2.5	1.5	2.0	1.5
Merged-chr5-115359046-4	chr5	115358972	115359172	+	889.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10117.0	NM_007748	12861.0	Mm.43415	NM_007748	ENSMUSG00000041697	Cox6a1	VIaL	cytochrome c oxidase subunit VIa polypeptide 1	protein-coding	11.5	24.0	2.0	142.5	31.0	20.5	20.5	17.0
Merged-chr9-61985290-4	chr9	61985165	61985365	+	687.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 2 of 7)	intron (NM_028748, intron 2 of 7)	-38466.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	13.5	14.0	8.0	78.0	19.0	8.5	3.5	12.5
Merged-chr16-89848770-4	chr16	89848677	89848877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 12 of 27)	intron (NM_009384, intron 12 of 27)	-30425.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	146.0	165.0	144.5	2065.0	260.0	94.0	131.0	85.5
Merged-chr17-32608275-4	chr17	32608159	32608359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13060.0	NM_001100187	677156.0	Mm.484117	NM_001100187	ENSMUSG00000062464	Cyp4f37	Gm9705	cytochrome P450, family 4, subfamily f, polypeptide 37	protein-coding	70.0	56.5	52.5	1042.5	124.0	41.0	65.0	65.5
Merged-chr9-115310572-4	chr9	115310502	115310702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024222)	promoter-TSS (NM_024222)	-181.0	NM_024222	68292.0	Mm.296158	NM_024222	ENSMUSG00000032437	Stt3b	1300006C19Rik|Simp	STT3, subunit of the oligosaccharyltransferase complex, homolog B (S. cerevisiae)	protein-coding	251.0	429.0	220.0	3645.5	766.5	297.0	436.0	325.0
Merged-chr4-141147132-4	chr4	141147019	141147219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172518)	promoter-TSS (NM_172518)	-803.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	35.5	32.0	19.5	473.5	55.5	25.5	28.0	33.0
Merged-chr17-5260021-4	chr17	5259937	5260137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 5 of 19)	L1MD3|LINE|L1	158730.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	25.0	46.0	21.0	617.0	108.0	33.0	58.5	42.0
Merged-chr3-144719706-2	chr3	144719606	144719806	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001282037, intron 1 of 10)	CpG	629.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	42.0	107.0	72.5	878.5	208.0	48.0	77.0	80.0
Merged-chr3-9347072-3	chr3	9346983	9347183	+	844.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55995.0	NR_015499	320088.0	Mm.212908	NR_015499	ENSMUSG00000097365	C030034L19Rik	A130044O20Rik	RIKEN cDNA C030034L19 gene	ncRNA	28.0	19.5	10.5	228.0	7.5	7.0	5.0	12.5
Merged-chr6-47911809-4	chr6	47911694	47911894	+	853.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR85c|LTR|Gypsy?	-8774.0	NM_145576	232784.0	Mm.196782	NM_145576	ENSMUSG00000052763	Zfp212	Znf212|mKIAA3011	Zinc finger protein 212	protein-coding	4.0	14.0	6.5	158.5	24.5	12.5	12.5	15.5
Merged-chr9-37093167-3	chr9	37093065	37093265	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	intron (NM_001029838, intron 1 of 12)	54157.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	53.5	85.0	40.5	878.0	32.5	2.5	4.5	7.0
Merged-chr17-35380340-4	chr17	35380323	35380523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001143689, exon 3 of 6)	exon (NM_001143689, exon 3 of 6)	806.0	NM_001143689	15015.0	Mm.464284	NM_001143689	ENSMUSG00000035929	H2-Q4	H-2Q4|H2-Gs10|Qa-4|Qa4|Qat-4|Qb-1|Qb1	histocompatibility 2, Q region locus 4	protein-coding	58.0	107.0	62.0	627.0	77.5	22.0	24.5	24.0
Merged-chr11-94410078-3	chr11	94409975	94410175	+	749.333374	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009783, intron 35 of 35)	intron (NM_009783, intron 35 of 35)	-17099.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	4.5	9.0	8.0	101.5	6.5	6.0	3.5	10.5
Merged-chr2-11239732-3	chr2	11239632	11239832	+	975.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008859, intron 4 of 17)	intron (NM_008859, intron 4 of 17)	67350.0	NM_008859	18761.0	Mm.329993	NM_008859	ENSMUSG00000026778	Prkcq	A130035A12Rik|AW494342|PKC-0|PKC-theta|PKCtheta|Pkcq	protein kinase C, theta	protein-coding	5.0	18.5	15.5	261.5	19.0	11.5	9.5	14.0
Merged-chr17-85023705-4	chr17	85023608	85023808	+	815.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159497, exon 6 of 6)	exon (NM_001159497, exon 6 of 6)	-4639.0	NM_009205	20532.0	Mm.227176	NM_009205	ENSMUSG00000024131	Slc3a1	D2H|NBAT|NTAA|RBAT	solute carrier family 3, member 1	protein-coding	8.5	12.0	7.0	125.5	27.5	18.5	7.5	18.5
Merged-chr4-132074712-4	chr4	132074587	132074787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128607, intron 1 of 17)	CpG	626.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	45.5	60.0	50.0	952.0	97.5	26.0	47.5	51.0
Merged-chr10-39369676-4	chr10	39369562	39369762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122892)	promoter-TSS (NM_001122892)	-137.0	NM_001122892	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	138.5	160.5	149.0	2789.5	232.0	70.5	142.5	146.0
Merged-chr17-46747426-4	chr17	46747327	46747527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001305988, exon 2 of 5)	exon (NM_001305988, exon 2 of 5)	4787.0	NM_001305989	72029.0	Mm.240325	NM_028065	ENSMUSG00000023973	Cnpy3	1600025D17Rik|2410050O22Rik|AI413153|CAG4A|ERDA5|PRAT4A|Tnrc5	canopy FGF signaling regulator 3	protein-coding	57.5	63.0	53.5	551.0	65.5	37.5	36.0	21.0
Merged-chr5-105531157-3	chr5	105531063	105531263	+	781.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 1 of 3)	intron (NM_133897, intron 1 of 3)	11692.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	13.0	28.0	18.5	71.5	10.5	3.0	5.5	4.0
Merged-chr9-7336933-4	chr9	7336854	7337054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7443.0	NM_001320077	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	52.5	61.5	43.5	782.0	87.5	47.5	35.0	31.0
Merged-chr9-118926271-6	chr9	118926132	118926332	+	818.422241	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133710)	promoter-TSS (NM_133710)	-304.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	10.5	12.0	14.0	57.0	28.0	6.0	5.0	16.5
Merged-chr11-31900761-4	chr11	31900714	31900914	+	738.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290678, intron 2 of 7)	intron (NM_001290678, intron 2 of 7)	29874.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	3.0	9.5	6.0	58.0	32.0	14.0	5.0	11.5
Merged-chr15-25830637-4	chr15	25830550	25830750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12648.0	NM_001034851	66270.0	Mm.25311	NM_025459	ENSMUSG00000022270	Retreg1	1810015C04Rik|AU015349|Fam134b|Retreg1d	reticulophagy regulator 1	protein-coding	101.0	145.5	151.0	1629.0	282.5	91.0	131.0	96.5
Merged-chr9-88705474-4	chr9	88705401	88705601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359992, intron 2 of 2)	intron (NM_001359992, intron 2 of 2)	14086.0	NM_001359992	100039707.0	Mm.347377	NM_001128601	ENSMUSG00000079427	Mthfsl	Gm2382	5, 10-methenyltetrahydrofolate synthetase-like	protein-coding	187.0	418.0	172.5	2360.5	552.0	229.5	245.0	219.5
Merged-chr3-88491368-4	chr3	88491280	88491480	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002011, intron 1 of 11)	intron (NM_001002011, intron 1 of 11)	1932.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	37.0	37.5	41.0	425.0	58.0	16.5	33.5	19.5
Merged-chr5-139200568-4	chr5	139200493	139200693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024451)	promoter-TSS (NM_024451)	-44.0	NM_001256115	77053.0	Mm.210845	NM_024451	ENSMUSG00000036817	Sun1	4632417G13Rik|5730434D03Rik|Unc84a|mKIAA0810	Sad1 and UNC84 domain containing 1	protein-coding	182.0	262.0	205.0	2650.5	490.5	199.0	223.0	204.0
Merged-chr2-113440874-4	chr2	113440767	113440967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285459)	promoter-TSS (NM_001285459)	-197.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	91.0	106.5	86.0	1311.0	283.5	97.0	126.0	135.0
Merged-chr4-145774488-4	chr4	145774384	145774584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-7059.0	NM_001083918	666532.0	Mm.392861	NM_001083918	ENSMUSG00000067916	Zfp991	Gm13139	zinc finger protein 991	protein-coding	24.0	31.0	36.5	13.5	86.5	34.0	44.5	36.5
Merged-chr13-33084365-4	chr13	33084227	33084427	+	812.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173052, intron 1 of 6)	intron (NM_173052, intron 1 of 6)	224.0	NM_173052	282663.0	Mm.314490	NM_173052	ENSMUSG00000051029	Serpinb1b	6330533H24Rik|EIB|Serpin1b1|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1b	protein-coding	6.0	4.5	4.0	85.0	24.5	9.0	11.5	8.5
Merged-chr8-88647211-4	chr8	88647080	88647280	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145857)	promoter-TSS (NM_145857)	-167.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	60.5	78.5	65.0	625.0	59.0	21.0	35.5	29.5
Merged-chr11-76493942-3	chr11	76493825	76494025	+	790.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198018, intron 1 of 21)	intron (NM_198018, intron 1 of 21)	570.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	10.0	27.0	8.5	97.5	18.5	7.0	1.0	1.5
Merged-chr4-152153973-4	chr4	152153874	152154074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1767.0	NM_207687	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	96.0	134.5	111.5	1689.0	201.5	75.0	134.5	102.5
Merged-chr4-150513548-2	chr4	150513448	150513648	+	717.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 10 of 22)	RSINE1|SINE|B4	138626.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	6.0	9.0	5.5	184.5	5.0	0.0	2.0	2.0
Merged-chr11-110972798-1	chr11	110972698	110972898	+	555.0	f1_c57bl6.idr	intron (NM_010604, intron 1 of 1)	MTA_Mm|LTR|ERVL-MaLR	4765.0	NM_001252207	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	0.5	1.0	0.0	8.0	25.0	7.0	5.0	9.5
Merged-chr18-4836991-4	chr18	4836884	4837084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045881, intron 5 of 9)	intron (NR_045881, intron 5 of 9)	24498.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	32.0	21.5	21.5	448.5	51.0	21.5	29.5	27.0
Merged-chr9-107338409-4	chr9	107338315	107338515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133984)	promoter-TSS (NM_133984)	-65.0	NM_133984	69536.0	Mm.259467	NM_133984	ENSMUSG00000032579	Hemk1	2310008M14Rik|AW049265	HemK methyltransferase family member 1	protein-coding	46.0	54.5	24.5	310.0	113.5	34.0	61.5	43.5
Merged-chr13-100786625-4	chr13	100786534	100786734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172301)	promoter-TSS (NM_172301)	-148.0	NM_172301	268697.0	Mm.260114	NM_172301	ENSMUSG00000041431	Ccnb1	Ccnb1-rs1|Ccnb1-rs13|CycB1|Cycb-4|Cycb-5|Cycb1-rs1	cyclin B1	protein-coding	236.5	297.5	199.0	2730.5	424.5	180.0	184.0	151.5
Merged-chr15-50761760-4	chr15	50761660	50761860	+	940.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	127289.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	13.0	13.5	19.0	158.5	58.5	20.5	43.0	13.0
Merged-chr3-108382526-4	chr3	108382401	108382601	+	871.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040560, exon 2 of 3)	non-coding (NR_040560, exon 2 of 3)	1240.0	NR_040560	100038453.0	Mm.214328	NR_040560	ENSMUSG00000074281	Gm12522	-	predicted gene 12522	ncRNA	5.5	20.5	10.0	54.0	26.5	11.0	8.5	9.0
Merged-chr9-47628302-1	chr9	47628202	47628402	+	582.333313	f0_c57.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	97950.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	1.5	0.0	1.0	0.5	23.5	13.5	6.0	14.0
Merged-chr16-92400206-4	chr16	92400101	92400301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019466)	promoter-TSS (NM_019466)	-123.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	174.5	303.0	255.5	3226.0	400.5	202.0	187.5	154.5
Merged-chr15-98683936-4	chr15	98683838	98684038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6477.0	NM_172612	223881.0	Mm.274010	NM_172612	ENSMUSG00000054855	Rnd1	A830014L09Rik|Arhs	Rho family GTPase 1	protein-coding	32.0	34.5	15.0	296.0	80.5	37.0	40.0	36.5
Merged-chr11-103267578-4	chr11	103267490	103267690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016896)	promoter-TSS (NM_016896)	-189.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	305.5	570.0	280.0	3325.0	785.5	398.0	376.5	297.0
Merged-chr10-68105416-4	chr10	68105302	68105502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 8 of 9)	(T)n|Simple_repeat|Simple_repeat	125832.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	62.5	90.5	69.0	1769.0	135.0	49.0	57.5	66.5
Merged-chr13-37506267-4	chr13	37506188	37506388	+	995.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	160943.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	49.0	157.0	60.0	497.0	74.5	22.0	17.0	18.5
Merged-chr17-26438100-4	chr17	26437999	26438199	+	822.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081656, intron 2 of 4)	intron (NM_001081656, intron 2 of 4)	23134.0	NM_001081656	240055.0	Mm.133211	NM_001081656	ENSMUSG00000034413	Neurl1b	C230078M08Rik|EG240055	neuralized E3 ubiquitin protein ligase 1B	protein-coding	9.5	12.0	2.5	162.0	46.5	31.5	21.0	18.5
Merged-chr5-146791543-2	chr5	146791443	146791643	+	797.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	3413.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	6.0	6.0	1.5	88.5	18.5	4.5	10.5	6.0
Merged-chr1-37486623-4	chr1	37486499	37486699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024017, exon 1 of 1)	non-coding (NR_024017, exon 1 of 1)	2006.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	82.0	118.5	75.5	1327.5	198.5	63.0	73.5	80.0
Merged-chr10-60305419-4	chr10	60305315	60305515	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 65 of 68)	intron (NM_001252635, intron 65 of 68)	20954.0	NM_001146124	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	48.5	21.5	27.5	500.5	66.0	29.0	30.0	38.0
Merged-chr5-114823401-4	chr5	114823291	114823491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181075)	promoter-TSS (NM_181075)	77.0	NM_181075	330173.0	Mm.482205	NM_181075	ENSMUSG00000092486	2610524H06Rik	-	RIKEN cDNA 2610524H06 gene	protein-coding	14.5	29.5	21.0	191.0	36.5	19.5	29.0	18.5
Merged-chr9-100570121-4	chr9	100570009	100570209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101483, intron 1 of 1)	intron (NM_001101483, intron 1 of 1)	976.0	NM_001101483	245020.0	Mm.236289	NM_001101483	ENSMUSG00000070287	Slc35g2	Gm519|Tmem22	solute carrier family 35, member G2	protein-coding	34.5	55.0	52.5	917.5	102.5	17.5	65.5	32.0
Merged-chr7-30094934-7	chr7	30094828	30095028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011981)	promoter-TSS (NM_011981)	-148.0	NM_011981	26466.0	Mm.195092	NM_011981	ENSMUSG00000049421	Zfp260	AI480997|Ozrf1|PEX1|Zfp63|Znf260	zinc finger protein 260	protein-coding	14.0	30.0	33.5	239.5	62.5	22.0	28.5	54.0
Merged-chr9-86583894-4	chr9	86583786	86583986	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008615, intron 13 of 13)	intron (NM_008615, intron 13 of 13)	11833.0	NM_027100	69519.0	Mm.272517	NM_027100	ENSMUSG00000032417	Rwdd2a	1700030C20Rik|AI848608|Rwdd2	RWD domain containing 2A	protein-coding	17.0	17.5	12.5	331.5	47.5	17.5	15.0	19.0
Merged-chr19-5956882-4	chr19	5956779	5956979	+	765.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 4 of 17)	intron (NM_001164057, intron 4 of 17)	7327.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	15.5	20.5	7.0	135.0	22.5	6.0	7.0	15.0
Merged-chr15-102392590-4	chr15	102392501	102392701	+	804.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-13715.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	31.0	9.0	7.0	127.5	12.5	10.5	7.5	11.5
Merged-chr10-128083812-1	chr10	128083712	128083912	+	543.0	f0_balb.idr	intron (NM_016774, intron 1 of 9)	CpG	505.0	NM_016774	11947.0	Mm.238973	NM_016774	ENSMUSG00000025393	Atp5b	Atp5f1b	ATP synthase, H+ transporting mitochondrial F1 complex, beta subunit	protein-coding	13.5	6.0	10.0	49.0	7.0	2.0	0.5	8.0
Merged-chr7-28601189-3	chr7	28601086	28601286	+	726.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3002.0	NM_027470	70584.0	Mm.21876	NM_027470	ENSMUSG00000030602	Pak4	5730488L07Rik|AW555722|mKIAA1142	p21 (RAC1) activated kinase 4	protein-coding	6.5	12.5	7.0	70.0	18.5	0.5	6.5	10.0
Merged-chr9-63556530-4	chr9	63556429	63556629	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030068, intron 5 of 21)	intron (NM_030068, intron 5 of 21)	45964.0	NM_030068	78250.0	Mm.444612	NM_030068	ENSMUSG00000037801	Iqch	4921504K03Rik	IQ motif containing H	protein-coding	6.5	9.5	3.5	134.5	24.5	6.5	7.0	13.0
Merged-chr19-29201873-2	chr19	29201773	29201973	+	671.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49930.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	6.5	10.0	8.5	69.5	15.0	9.5	1.5	5.5
Merged-chr17-5936444-4	chr17	5936352	5936552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J|LTR|ERVL-MaLR	-4828.0	NM_001113353	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	99.0	159.0	150.5	1845.0	245.0	66.5	125.0	88.5
Merged-chr5-136170714-4	chr5	136170645	136170845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178751)	promoter-TSS (NM_178751)	-89.0	NM_178751	269717.0	Mm.308396	NM_178751	ENSMUSG00000039747	Orai2	A730041O15Rik|Tmem142b	ORAI calcium release-activated calcium modulator 2	protein-coding	36.5	85.5	46.0	385.0	128.5	39.0	39.0	29.5
Merged-chr13-107168867-4	chr13	107168781	107168981	+	978.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146311.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	20.0	21.5	15.0	418.5	32.5	14.0	22.5	15.5
Merged-chr2-73462546-3	chr2	73462457	73462657	+	973.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-8668.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	7.5	7.5	5.5	154.0	25.5	8.5	11.0	10.5
Merged-chr10-75883373-4	chr10	75883283	75883483	+	830.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10015.0	NR_152573	70377.0	Mm.275878	NM_024440	ENSMUSG00000009092	Derl3	1810006I20Rik|1810063P04Rik|IZP6|derlin-3	Der1-like domain family, member 3	protein-coding	7.0	19.5	3.0	129.5	31.5	6.5	8.5	13.0
Merged-chr13-92354057-4	chr13	92353969	92354169	+	827.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010049)	promoter-TSS (NM_010049)	-714.0	NM_010049	13361.0	Mm.23695	NM_010049	ENSMUSG00000021707	Dhfr	8430436I03Rik|AA607882|AI662710|AW555094	dihydrofolate reductase	protein-coding	12.5	6.5	14.5	132.5	28.0	17.0	4.5	20.0
Merged-chr17-7897319-4	chr17	7897131	7897331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28769.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	40.0	55.0	32.0	502.5	133.0	41.5	45.0	45.5
Merged-chr8-104111354-3	chr8	104111251	104111451	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 1 of 11)	intron (NM_009868, intron 1 of 11)	-5478.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	19.5	87.5	60.0	784.5	148.5	40.0	86.5	51.5
Merged-chr6-38941203-4	chr6	38941099	38941299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	intron (NM_011539, intron 1 of 12)	22213.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	116.0	126.0	148.5	2331.5	200.0	78.0	128.5	111.5
Merged-chr17-43230068-4	chr17	43229952	43230152	+	957.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40295.0	NM_133776	77596.0	Mm.159950	NM_133776	ENSMUSG00000041293	Adgrf1	5031409J19Rik|Gpr110|KPG_009	adhesion G protein-coupled receptor F1	protein-coding	17.5	16.0	9.0	282.5	54.0	10.0	17.5	22.0
Merged-chr8-126572495-4	chr8	126572376	126572576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20960.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	63.5	118.0	63.5	835.0	111.0	76.0	57.5	61.5
Merged-chr2-167692152-5	chr2	167692144	167692344	+	935.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015500, intron 1 of 1)	intron (NR_015500, intron 1 of 1)	1067.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	15.5	7.0	51.0	460.0	39.0	10.5	24.5	46.5
Merged-chr13-47226077-4	chr13	47225997	47226197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	MER54A|LTR|ERVL	32094.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	166.0	219.5	168.5	2488.0	253.5	100.5	120.0	133.5
Merged-chr3-88325020-4	chr3	88324908	88325108	+	897.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020003)	promoter-TSS (NM_020003)	-15.0	NM_020003	56700.0	Mm.439922	NM_020003	ENSMUSG00000001418	Glmp	0610031J06Rik|AB027141|NCU-G1	glycosylated lysosomal membrane protein	protein-coding	14.5	18.0	9.5	199.0	40.0	8.0	12.5	24.5
Merged-chr5-5360061-4	chr5	5359973	5360173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	20178.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	82.0	98.5	118.5	2132.5	119.5	33.0	42.5	50.0
Merged-chr8-82846251-1	chr8	82846151	82846351	+	879.3333130000001	f0_balb.idr	Intergenic	Intergenic	-17105.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	13.0	12.0	6.5	194.5	18.0	2.0	6.5	10.0
Merged-chr3-89317007-4	chr3	89316892	89317092	+	777.670837	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010108, intron 1 of 4)	intron (NM_010108, intron 1 of 4)	5887.0	NM_010108	13638.0	Mm.331159	NM_010108	ENSMUSG00000028039	Efna3	AW494418|EFL-2|Ehk1-L|Epl3|LERK-3	ephrin A3	protein-coding	15.5	24.0	6.0	89.0	36.0	14.5	12.5	11.5
Merged-chr6-31176551-4	chr6	31176447	31176647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110470, intron 2 of 2)	intron (NR_110470, intron 2 of 2)	41927.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	30.5	50.5	23.5	433.5	85.5	22.0	27.5	38.0
Merged-chr1-105993399-4	chr1	105993312	105993512	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	3006.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	33.0	50.5	20.0	577.0	75.5	16.5	35.0	51.0
Merged-chr9-56258583-4	chr9	56258453	56258653	+	817.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172924, exon 4 of 7)	exon (NM_172924, exon 4 of 7)	-97483.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	6.5	22.0	5.5	87.5	24.5	6.5	12.5	3.5
Merged-chr2-167250900-3	chr2	167250819	167251019	+	808.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10382.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	9.0	4.5	8.0	40.0	5.0	3.5	2.5	10.5
Merged-chr5-38479171-3	chr5	38479094	38479294	+	834.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145559, intron 2 of 10)	intron (NM_145559, intron 2 of 10)	1112.0	NM_001102414	117591.0	Mm.260137	NM_145559	ENSMUSG00000005107	Slc2a9	Glut9|SLC2A9B|SLC2a9A	solute carrier family 2 (facilitated glucose transporter), member 9	protein-coding	12.5	16.5	10.0	116.5	14.5	5.5	16.0	5.5
Merged-chr2-165056611-5	chr2	165056568	165056768	+	833.862854	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027852, intron 1 of 7)	intron (NR_027852, intron 1 of 7)	1032.0	NM_011611	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	2.5	12.5	1.5	21.0	48.0	11.0	8.0	16.5
Merged-chr3-51270615-4	chr3	51270518	51270718	+	959.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 4 of 9)	intron (NM_023502, intron 4 of 9)	-6143.0	NR_073429	67746.0	Mm.441177	NR_073429	ENSMUSG00000087440	4930577N17Rik	-	RIKEN cDNA 4930577N17 gene	ncRNA	15.0	16.5	17.0	180.0	44.5	9.0	18.5	16.0
Merged-chr19-55806930-3	chr19	55806833	55807033	+	612.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331146, intron 4 of 14)	intron (NM_001331146, intron 4 of 14)	65123.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	8.0	8.0	6.5	150.0	11.0	3.0	4.0	9.5
Merged-chr8-25077955-3	chr8	25077834	25078034	+	828.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 2 of 11)	intron (NM_031257, intron 2 of 11)	23877.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	7.0	5.5	4.5	131.0	15.0	6.0	4.0	4.0
Merged-chr2-145857963-2	chr2	145857863	145858063	+	870.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 7 of 12)	intron (NM_028724, intron 7 of 12)	-45278.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	5.5	8.0	8.0	63.0	16.0	1.0	3.0	12.0
Merged-chr4-95048855-4	chr4	95048748	95048948	+	848.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010591)	TTS (NM_010591)	3374.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	6.5	22.0	14.0	203.0	28.0	13.0	8.5	12.5
Merged-chr14-73172703-4	chr14	73172587	73172787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134083, intron 10 of 14)	intron (NM_134083, intron 10 of 14)	29902.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	227.0	249.5	315.5	3782.0	337.0	163.5	206.5	156.5
Merged-chr8-123102357-4	chr8	123102275	123102475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016738)	promoter-TSS (NM_016738)	25.0	NM_016738	270106.0	Mm.319719	NM_016738	ENSMUSG00000000740	Rpl13	A52|L13	ribosomal protein L13	protein-coding	106.5	125.0	73.5	1096.5	258.5	87.5	88.5	70.5
Merged-chr4-41640292-4	chr4	41640204	41640404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027147)	promoter-TSS (NM_027147)	-2.0	NM_027147	69638.0	Mm.372459	NM_027147	ENSMUSG00000028445	Enho	1110065P19Rik|2310040A07Rik	energy homeostasis associated	protein-coding	109.0	156.0	164.5	1560.5	357.0	133.0	149.0	108.0
Merged-chr19-11336161-4	chr19	11336108	11336308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025610)	promoter-TSS (NM_001025610)	-62.0	NM_027836	109225.0	Mm.491251	NM_027836	ENSMUSG00000024672	Ms4a7	9130422I10Rik|A430103C15Rik|CD20l4|CFFMA	membrane-spanning 4-domains, subfamily A, member 7	protein-coding	67.5	67.5	44.5	486.5	90.5	55.5	44.0	45.0
Merged-chr17-40873694-4	chr17	40873574	40873774	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6884.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	18.0	6.0	19.5	362.5	34.0	19.5	22.0	18.0
Merged-chr2-131505910-4	chr2	131505805	131506005	+	879.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177840, intron 1 of 3)	intron (NM_001177840, intron 1 of 3)	14043.0	NM_001177838	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	16.5	9.5	5.0	249.0	30.5	2.5	8.0	21.5
Merged-chr3-9753846-3	chr3	9753738	9753938	+	873.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 1 of 7)	intron (NM_053182, intron 1 of 7)	79841.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	11.5	9.5	10.0	210.0	12.5	2.0	10.0	9.0
Merged-chr16-57559540-3	chr16	57559472	57559672	+	685.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177871, intron 1 of 1)	MIRb|SINE|MIR	10330.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	12.0	18.5	11.5	128.0	4.5	3.0	8.0	7.0
Merged-chr7-142386835-4	chr7	142386737	142386937	+	915.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009983, intron 1 of 8)	intron (NM_009983, intron 1 of 8)	1033.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	3.0	4.5	21.5	111.5	21.0	9.0	10.0	20.0
Merged-chr2-44873904-2	chr2	44873804	44874004	+	883.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-12282.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	1.0	8.0	2.5	83.0	23.0	12.5	7.5	5.0
Merged-chr3-109357863-4	chr3	109357766	109357966	+	969.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	intron (NM_020505, intron 1 of 26)	17183.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	29.0	21.5	19.5	186.0	32.5	18.0	15.0	15.0
Merged-chr11-32300061-2	chr11	32299961	32300161	+	748.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175000)	promoter-TSS (NM_175000)	-8.0	NM_175000	216635.0	Mm.338482	NM_175000	ENSMUSG00000020295	Hbq1a	A230090E05Rik|Gm876|Hbq1|Hbqt2	hemoglobin, theta 1A	protein-coding	4.0	8.0	4.0	30.5	8.5	6.5	7.0	6.0
Merged-chr6-56901221-7	chr6	56900967	56901167	+	874.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360963, intron 1 of 9)	intron (NM_001360963, intron 1 of 9)	819.0	NM_001252374	107569.0	Mm.158936	NM_026004	ENSMUSG00000029780	Nt5c3	1600024P05Rik|2610206B05Rik|3110004A18Rik|AI842776|Nt5c3a|Nt5y|P5'N-1|P5N-1|PN-1|PN-I|PSN1|UMPH|Umph-1|Umph1|cN-III|lupin|p36	5'-nucleotidase, cytosolic III	protein-coding	3.0	1.5	5.5	82.0	12.5	4.5	7.5	10.0
Merged-chr5-76183885-4	chr5	76183792	76183992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011626)	promoter-TSS (NM_011626)	12.0	NM_011626	21982.0	Mm.790	NM_011626	ENSMUSG00000029234	Tmem165	AV026557|Tpardl|Tparl|pFT27	transmembrane protein 165	protein-coding	81.5	114.5	90.5	1460.5	230.0	95.0	136.0	90.5
Merged-chr4-6453952-5	chr4	6453835	6454035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	CpG	336.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	22.0	41.5	14.5	373.5	83.0	18.5	38.0	37.5
Merged-chr12-111695045-2	chr12	111694945	111695145	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16940.0	NM_177374	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	5.0	5.0	2.5	71.5	19.5	8.0	12.0	8.5
Merged-chr12-110778012-4	chr12	110777919	110778119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347428, intron 1 of 2)	intron (NM_001347428, intron 1 of 2)	40087.0	NM_001347428	69641.0	Mm.475762	NM_027149	ENSMUSG00000037957	Wdr20	2310040A13Rik|AI549910|Wdr20a	WD repeat domain 20	protein-coding	60.5	52.0	32.5	715.5	84.0	16.0	39.5	28.5
Merged-chr5-97055819-4	chr5	97055699	97055899	+	965.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 9 of 15)	intron (NM_080708, intron 9 of 15)	55797.0	NM_001359910	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	15.5	29.0	10.5	287.0	67.0	27.5	6.5	12.0
Merged-chr17-25985255-1	chr17	25985155	25985355	+	637.333313	f0_balb.idr	intron (NM_001347334, intron 1 of 11)	CpG	541.0	NR_151779	50817.0	Mm.216072	NM_015830	ENSMUSG00000037326	Capn15	Solh	calpain 15	protein-coding	8.0	18.5	11.0	86.0	18.5	7.5	5.0	7.5
Merged-chr9-107313412-3	chr9	107313318	107313518	+	966.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16759.0	NM_001317354	12700.0	Mm.4592	NM_009895	ENSMUSG00000032578	Cish	CIS-1|CIS1|Cis|F17|F23|SOCS	cytokine inducible SH2-containing protein	protein-coding	7.0	6.5	1.0	51.5	42.0	11.0	20.5	18.5
Merged-chr8-22757584-4	chr8	22757496	22757696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008872)	promoter-TSS (NM_008872)	-126.0	NM_008872	18791.0	Mm.154660	NM_008872	ENSMUSG00000031538	Plat	AU020998|AW212668|D8Ertd2e|tPA	plasminogen activator, tissue	protein-coding	77.5	93.5	70.0	1023.5	115.5	47.0	50.5	49.5
Merged-chr10-81519759-4	chr10	81519645	81519845	+	943.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010304, intron 1 of 6)	intron (NM_010304, intron 1 of 6)	4480.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	15.0	17.0	14.5	299.0	43.5	15.5	13.0	16.0
Merged-chr11-81973834-4	chr11	81973731	81973931	+	987.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5435.0	NM_001034013	11418.0	Mm.234998	NM_007384	ENSMUSG00000020704	Asic2	ACIC2|Accn1|BNC1|BNaC1|BNaC1a|Mdeg	acid-sensing (proton-gated) ion channel 2	protein-coding	14.0	74.5	27.5	333.0	82.0	34.5	22.5	39.5
Merged-chr11-11781930-4	chr11	11781848	11782048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27014.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	39.5	75.0	37.5	946.0	92.5	42.0	37.5	46.5
Merged-chr4-59888189-4	chr4	59888065	59888265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 6 of 8)	intron (NM_172468, intron 6 of 8)	26891.0	NM_021053	30936.0	Mm.284433	NM_021053	ENSMUSG00000028386	Slc46a2	5430429N04Rik|Ly110|TSO-1C12|Tscot	solute carrier family 46, member 2	protein-coding	67.5	63.0	69.5	1203.5	80.5	36.0	37.5	46.5
Merged-chr3-38202053-4	chr3	38201954	38202154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6065.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	23.0	40.5	64.5	958.5	84.5	27.0	38.0	40.0
Merged-chr10-77713947-3	chr10	77713833	77714033	+	814.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287074, intron 1 of 11)	intron (NM_001287074, intron 1 of 11)	-1874.0	NM_001205035	100502921.0	Mm.486156	NM_001205035	ENSMUSG00000094146	Gm10142	-	predicted gene 10142	protein-coding	8.0	17.0	9.0	174.0	6.0	3.5	11.0	9.5
Merged-chr10-40229956-4	chr10	40229862	40230062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042556, intron 7 of 9)	intron (NM_001042556, intron 7 of 9)	17017.0	NM_001042556	67239.0	Mm.11480	NM_023323	ENSMUSG00000038510	Rpf2	2810470K21Rik|AU040229|AU043242|Bxdc1	ribosome production factor 2 homolog	protein-coding	34.5	40.0	35.0	699.0	85.0	28.5	21.5	28.0
Merged-chr16-44724406-4	chr16	44724302	44724502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145972, exon 1 of 9)	exon (NM_145972, exon 1 of 9)	101.0	NM_145972	212547.0	Mm.310573	NM_145972	ENSMUSG00000036208	Nepro	-	nucleolus and neural progenitor protein	protein-coding	180.0	282.5	325.5	2844.0	325.5	138.5	187.5	176.0
Merged-chr5-121596346-4	chr5	121596241	121596441	+	995.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2517.0	NM_001308450	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	14.5	47.0	17.0	239.0	41.0	18.5	19.5	19.0
Merged-chr14-122068093-4	chr14	122067991	122068191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33417.0	NM_001037744	223262.0	Mm.297637	NM_001037744	ENSMUSG00000071229	Timm8a2	-	translocase of inner mitochondrial membrane 8A2	protein-coding	27.5	57.0	21.0	295.5	118.0	29.0	32.0	26.5
Merged-chr10-125370293-4	chr10	125370199	125370399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-41336.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	132.0	255.5	251.0	2710.5	414.5	142.5	190.0	178.5
Merged-chr3-84774455-1	chr3	84774355	84774555	+	622.0	f0_balb.idr	Intergenic	Intergenic	-41122.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	5.0	6.5	8.5	118.5	10.5	3.0	0.5	4.5
Merged-chr7-17059042-3	chr7	17058996	17059196	+	916.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162950, intron 1 of 14)	(TG)n|Simple_repeat|Simple_repeat	-2417.0	NM_016868	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	3.5	9.5	2.0	109.0	36.0	15.0	14.0	17.0
Merged-chr8-35725378-2	chr8	35725288	35725488	+	721.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	101171.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	3.5	1.0	2.5	39.0	36.5	6.5	12.0	8.5
Merged-chr19-55719917-3	chr19	55719827	55720027	+	666.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17723.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	6.0	6.0	16.5	97.5	15.0	0.0	1.5	4.0
Merged-chr4-134731619-4	chr4	134731510	134731710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27320.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	24.5	40.0	31.0	659.0	54.5	27.5	28.5	40.0
Merged-chr13-69534826-4	chr13	69534735	69534935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001169131)	promoter-TSS (NM_001169131)	-971.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	273.0	320.5	225.5	3768.0	672.0	241.5	299.5	265.5
Merged-chr17-48324476-4	chr17	48324384	48324584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177083, exon 6 of 6)	3' UTR (NM_177083, exon 6 of 6)	8322.0	NM_177083	320148.0	Mm.123455	NM_177083	ENSMUSG00000043740	B430306N03Rik	Treml6	RIKEN cDNA B430306N03 gene	protein-coding	112.0	165.5	206.5	2170.0	266.5	115.5	169.0	125.5
Merged-chr1-170215365-4	chr1	170215279	170215479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360809)	promoter-TSS (NM_001360809)	28.0	NM_010633	16589.0	Mm.209150	NM_010633	ENSMUSG00000026667	Uhmk1	4732477C12Rik|4930500M09Rik|AA673513|AI449218|AU021979|C820018A03Rik|KIS|Kist|P-CIP2	U2AF homology motif (UHM) kinase 1	protein-coding	89.0	107.5	58.5	906.5	136.5	60.5	115.5	81.0
Merged-chr11-84555025-4	chr11	84554924	84555124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	29364.0	NR_038057	78365.0	Mm.260345	NR_038057	ENSMUSG00000087211	Lhx1os	1500016L03Rik|Lhx1as	LIM homeobox 1, opposite strand	ncRNA	71.0	103.5	60.5	992.5	176.5	76.0	59.5	87.0
Merged-chr15-101266015-4	chr15	101265918	101266118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010444)	promoter-TSS (NM_010444)	-828.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	61.5	108.0	60.5	691.5	177.0	67.5	57.0	74.5
Merged-chr16-16104476-4	chr16	16104381	16104581	+	965.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 5 of 18)	RMER1B|Other|Other	42370.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	15.0	29.0	6.5	119.0	35.0	28.5	22.5	24.0
Merged-chr4-152165434-8	chr4	152165349	152165549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6582.0	NM_008236	15206.0	Mm.57038	NM_008236	ENSMUSG00000028940	Hes2	HES-2	hes family bHLH transcription factor 2	protein-coding	15.5	25.0	11.0	244.5	44.5	24.5	28.5	25.0
Merged-chr16-93543892-4	chr16	93543776	93543976	+	815.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59939.0	NM_145482	224440.0	Mm.10628	NM_145482	ENSMUSG00000022948	Setd4	AY037804|C21orf18|ORF21	SET domain containing 4	protein-coding	7.0	11.0	12.5	109.0	16.5	2.5	14.0	13.5
Merged-chr5-137107224-2	chr5	137107124	137107324	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8983.0	NM_201373	384309.0	Mm.100647	NM_201373	ENSMUSG00000043279	Trim56	A130009K11Rik|Gm452|RNF109	tripartite motif-containing 56	protein-coding	5.5	7.5	2.0	129.5	21.5	10.0	5.5	10.0
Merged-chr2-52943455-2	chr2	52943346	52943546	+	627.5	f0_balb.idr|f0_c57.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	85578.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	12.0	12.0	10.0	67.0	24.0	10.0	3.0	11.5
Merged-chr9-106306908-4	chr9	106306812	106307012	+	896.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027354, intron 8 of 10)	intron (NM_027354, intron 8 of 10)	25851.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	21.5	23.0	4.0	259.5	40.5	12.5	24.5	10.5
Merged-chr4-142019437-4	chr4	142019366	142019566	+	863.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131014, intron 1 of 1)	MLT1K|LTR|ERVL-MaLR	1568.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	13.0	9.5	13.0	340.5	33.5	5.0	13.0	10.0
Merged-chr4-115052835-4	chr4	115052744	115052944	+	976.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3582.0	NM_011527	21349.0	Mm.239869	NM_011527	ENSMUSG00000028717	Tal1	Hpt|SCL/tal-1|Scl|bHLHa17|tal-1	T cell acute lymphocytic leukemia 1	protein-coding	14.5	19.5	35.0	359.0	48.5	16.0	29.5	20.5
Merged-chr6-38352147-4	chr6	38352025	38352225	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028864, intron 1 of 8)	intron (NM_028864, intron 1 of 8)	2478.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	26.5	63.5	14.0	350.0	86.0	29.0	19.5	18.0
Merged-chr1-85840544-4	chr1	85840460	85840660	+	756.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355046, intron 5 of 9)	intron (NM_001355046, intron 5 of 9)	46543.0	NM_001355047	12283.0	Mm.26135	NM_133781	ENSMUSG00000036707	Cab39	AA408805|AA960512|C78372|MO25|MO25alpha	calcium binding protein 39	protein-coding	13.5	13.0	8.0	67.5	31.0	7.0	10.5	10.0
Merged-chr8-115307634-4	chr8	115307536	115307736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019573, intron 8 of 8)	intron (NM_019573, intron 8 of 8)	399258.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	36.5	81.0	29.5	231.5	78.0	44.0	29.0	28.5
Merged-chr9-21073550-4	chr9	21073449	21073649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039824)	promoter-TSS (NM_001039824)	-35.0	NM_001039824	68165.0	Mm.490294	NM_001039824	ENSMUSG00000079677	Fdx1l	B230118G17Rik|Fdx2	ferredoxin 1-like	protein-coding	68.0	90.5	60.0	878.5	209.5	79.0	82.5	90.0
Merged-chr7-89423336-3	chr7	89423230	89423430	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2976.0	NR_102276	101521.0	Mm.26902	NR_102276	ENSMUSG00000109311	AI314278	-	expressed sequence AI314278	ncRNA	50.5	41.0	37.5	629.5	7.0	6.0	3.0	5.0
Merged-chr7-126704274-4	chr7	126704177	126704377	+	847.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301374)	promoter-TSS (NM_001301374)	-57.0	NM_001301374	12721.0	Mm.290482	NM_009898	ENSMUSG00000030707	Coro1a	Clabp|Lmb3|TACO|p57	coronin, actin binding protein 1A	protein-coding	12.5	13.5	7.0	75.5	30.0	9.0	13.0	15.0
Merged-chr4-148607965-3	chr4	148607858	148608058	+	675.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr	exon (NM_001003893, exon 7 of 11)	exon (NM_001003893, exon 7 of 11)	5414.0	NM_001003893	17175.0	Mm.378962	NM_010767	ENSMUSG00000028979	Masp2	MASP-2|MAp19	mannan-binding lectin serine peptidase 2	protein-coding	6.0	8.5	4.5	126.0	30.5	5.0	9.0	12.5
Merged-chr4-128668117-3	chr4	128668020	128668220	+	873.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	13418.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	7.0	4.5	14.5	89.5	6.0	1.5	6.0	5.5
Merged-chr5-102640012-3	chr5	102639908	102640108	+	645.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029270, intron 2 of 9)	intron (NM_029270, intron 2 of 9)	-128802.0	NM_001286468	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	5.0	9.0	8.5	116.0	12.5	8.5	6.0	4.5
Merged-chr11-70805238-11	chr11	70805157	70805357	+	962.0575560000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 1 of 4)	intron (NM_001045526, intron 1 of 4)	7304.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	13.5	22.0	7.0	156.0	19.0	13.0	12.5	23.0
Merged-chr11-22851535-1	chr11	22851435	22851635	+	661.0	f0_balb.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	8200.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	6.0	15.5	4.5	86.5	20.5	5.0	10.0	4.0
Merged-chr1-173511814-4	chr1	173511714	173511914	+	747.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	24143.0	NM_001024721	545384.0	Mm.371698	NM_001024721	ENSMUSG00000070501	Ifi214	Pyhin-B|p214	interferon activated gene 214	protein-coding	9.5	18.0	19.5	75.0	22.5	16.0	9.0	20.0
Merged-chr8-90828794-4	chr8	90828702	90828902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177224)	promoter-TSS (NM_177224)	-33.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	81.5	123.0	56.5	1352.5	185.0	58.0	80.5	83.0
Merged-chr11-77622160-4	chr11	77622073	77622273	+	924.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14358.0	NM_144825	216965.0	Mm.340436	NM_144825	ENSMUSG00000017291	Taok1	2810468K05Rik|AU020252|D130018F14Rik|Map3k16|Markk|Psk2|mKIAA1361	TAO kinase 1	protein-coding	4.5	18.5	13.5	166.5	34.0	11.0	5.0	12.5
Merged-chr6-73221766-4	chr6	73221671	73221871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164669)	promoter-TSS (NM_001164669)	-140.0	NM_001164669	330355.0	Mm.333166	NM_001164669	ENSMUSG00000052861	Dnah6	9830168K20|A730004I20Rik|Dnahc6|mKIAA1697|mdhc6	dynein, axonemal, heavy chain 6	protein-coding	87.5	148.5	62.5	1230.5	216.5	58.0	93.0	79.0
Merged-chr1-150405638-3	chr1	150405544	150405744	+	764.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133780, intron 7 of 51)	intron (NM_133780, intron 7 of 51)	-12564.0	NM_001357579	226499.0	Mm.222093	NM_145511	ENSMUSG00000006010	BC003331	1810053E15Rik|Odr4|odr-4	cDNA sequence BC003331	protein-coding	6.0	8.5	1.5	163.0	13.0	5.0	20.5	6.5
Merged-chr12-59078649-4	chr12	59078552	59078752	+	848.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	11733.0	NM_008891	18949.0	Mm.22347	NM_008891	ENSMUSG00000020994	Pnn	AU045199|D12Ertd512e	pinin	protein-coding	8.0	7.0	8.0	112.0	24.5	5.5	9.0	16.0
Merged-chr16-4847258-3	chr16	4847159	4847359	+	976.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030192, intron 1 of 15)	intron (NM_030192, intron 1 of 15)	11843.0	NM_030192	78809.0	Mm.325551	NM_030192	ENSMUSG00000022518	4930562C15Rik	-	RIKEN cDNA 4930562C15 gene	protein-coding	12.0	3.5	15.0	302.5	17.0	9.5	23.5	13.0
Merged-chr9-106370087-3	chr9	106369929	106370129	+	856.711121	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153459, intron 1 of 2)	intron (NM_153459, intron 1 of 2)	1397.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	5.0	5.5	6.0	39.5	15.5	15.5	7.0	6.0
Merged-chr12-55459115-3	chr12	55459033	55459233	+	810.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33514.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	9.5	4.5	8.5	84.5	9.0	7.5	3.5	2.5
Merged-chr8-120041042-3	chr8	120040948	120041148	+	940.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310635, intron 14 of 14)	intron (NM_001310635, intron 14 of 14)	48610.0	NM_001310635	78892.0	Mm.264680	NM_030209	ENSMUSG00000031825	Crispld2	1810049K24Rik|Lcrisp2|Lgl1|coffeecrisp	cysteine-rich secretory protein LCCL domain containing 2	protein-coding	14.0	10.5	14.0	131.5	17.5	4.5	11.0	9.0
Merged-chr17-46202708-4	chr17	46202626	46202826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030715)	promoter-TSS (NM_030715)	-101.0	NM_030715	80905.0	Mm.311585	NM_030715	ENSMUSG00000023953	Polh	RAD30A|XPV	polymerase (DNA directed), eta (RAD 30 related)	protein-coding	112.5	178.0	79.0	1245.5	264.0	123.5	120.5	127.0
Merged-chr9-95688285-3	chr9	95688178	95688378	+	825.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 6 of 8)	intron (NM_029620, intron 6 of 8)	50650.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	5.0	14.0	5.0	50.0	43.5	7.5	8.0	10.0
Merged-chr7-143287463-4	chr7	143287373	143287573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_001461, exon 1 of 1)	non-coding (NR_001461, exon 1 of 1)	9074.0	NR_001461	63830.0	Mm.356096	NR_001461	ENSMUSG00000101609	Kcnq1ot1	Kvlqt1-as|Lit1|Tssc8	KCNQ1 overlapping transcript 1	ncRNA	20.0	31.0	25.5	667.5	93.0	21.0	42.5	49.5
Merged-chr1-167340525-5	chr1	167340390	167340590	+	870.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-9501.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	11.5	12.0	9.0	55.0	16.5	6.0	1.0	14.0
Merged-chr16-19983115-4	chr16	19983010	19983210	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183390)	promoter-TSS (NM_183390)	-61.0	NM_183390	239743.0	Mm.86699	NM_183390	ENSMUSG00000043008	Klhl6	-	kelch-like 6	protein-coding	21.5	15.0	17.5	416.0	29.5	18.0	21.0	18.0
Merged-chr11-82004995-4	chr11	82004866	82005066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30611.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	100.5	182.0	164.0	1356.0	289.5	107.0	122.0	126.0
Merged-chr3-103207652-4	chr3	103207548	103207748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35993.0	NM_001356331	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	74.0	94.0	70.0	923.5	173.0	53.0	94.0	43.5
Merged-chr14-75845849-4	chr14	75845720	75845920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045294)	promoter-TSS (NR_045294)	564.0	NM_009429	22070.0	Mm.297482	NM_009429	ENSMUSG00000060126	Tpt1	TCTP|Trt|p21|p23	tumor protein, translationally-controlled 1	protein-coding	93.0	161.5	111.5	1539.0	295.5	125.0	116.5	131.0
Merged-chr8-14884520-4	chr8	14884417	14884617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4019.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	31.5	51.0	33.0	607.0	150.5	71.0	71.0	111.5
Merged-chr9-56947659-3	chr9	56947563	56947763	+	866.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3261.0	NM_178374	66069.0	Mm.220984	NM_178374	ENSMUSG00000055334	Snupn	0610031A09Rik|Rnut1|Snupn1	snurportin 1	protein-coding	7.0	17.0	2.5	63.5	39.5	4.5	6.5	11.5
Merged-chr7-130533505-4	chr7	130533384	130533584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162855, intron 10 of 10)	intron (NM_001162855, intron 10 of 10)	-13115.0	NM_001271343	11907.0	Mm.216321	NM_013799	ENSMUSG00000030850	Ate1	AI225793|AW547406	arginyltransferase 1	protein-coding	52.5	124.0	48.5	1002.0	202.5	82.0	78.0	71.5
Merged-chr11-104315931-2	chr11	104315831	104316031	+	643.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001285454, intron 6 of 9)	intron (NM_001285454, intron 6 of 9)	84495.0	NM_001285454	17762.0	Mm.1287	NM_010838	ENSMUSG00000018411	Mapt	AI413597|AW045860|Mtapt|Tau	microtubule-associated protein tau	protein-coding	6.0	3.0	3.5	81.0	10.5	7.5	6.0	8.5
Merged-chr4-134286809-2	chr4	134286709	134286909	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_146156, intron 1 of 2)	CpG	444.0	NM_001163794	230809.0	Mm.22778	NM_146156	ENSMUSG00000050890	Pdik1l	BC027088|stk35l2	PDLIM1 interacting kinase 1 like	protein-coding	4.5	10.0	6.5	77.5	16.0	4.5	5.5	10.0
Merged-chr13-100449667-4	chr13	100449558	100449758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008670, intron 1 of 15)	Lx8|LINE|L1	3206.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	25.5	71.0	66.0	518.0	137.5	49.0	70.0	110.0
Merged-chr8-84501765-4	chr8	84501656	84501856	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252060, intron 3 of 47)	intron (NM_001252060, intron 3 of 47)	86392.0	NM_001252061	12286.0	Mm.334658	NM_007578	ENSMUSG00000034656	Cacna1a	APCA|BI|Caca1a|Cacnl1a4|Cav2.1|Ccha1a|EA2|FHM|HPCA|MHP|MHP1|SCA6|alpha1A|la|nmf352|rkr|smrl|tg	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	protein-coding	61.0	70.0	56.5	1044.0	17.5	18.5	10.5	27.5
Merged-chr9-70257670-4	chr9	70257565	70257765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181072, intron 1 of 27)	intron (NM_181072, intron 1 of 27)	50315.0	NM_181072	71602.0	Mm.249311	NM_181072	ENSMUSG00000032220	Myo1e	2310020N23Rik|9130023P14Rik|AA407778|myosin-1e|myr 3	myosin IE	protein-coding	38.5	43.0	37.0	465.0	77.0	26.5	34.0	37.0
Merged-chr15-39778292-4	chr15	39778187	39778387	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022722, intron 9 of 9)	intron (NM_022722, intron 9 of 9)	-18758.0	NR_045788	100503072.0	Mm.446661	NR_045788	ENSMUSG00000087695	Gm16291	-	predicted gene 16291	ncRNA	11.5	14.5	12.5	240.0	32.5	15.5	19.5	13.5
Merged-chr5-25010558-4	chr5	25010450	25010650	+	988.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 3 of 15)	intron (NM_145401, intron 3 of 15)	-14797.0	NM_001310480	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	29.5	38.5	8.5	381.5	44.0	24.5	24.0	37.5
Merged-chr2-91922971-2	chr2	91922871	91923071	+	859.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007699, intron 1 of 1)	intron (NM_007699, intron 1 of 1)	782.0	NM_007699	12672.0	Mm.330405	NM_007699	ENSMUSG00000040495	Chrm4	Chrm-4|M4	cholinergic receptor, muscarinic 4	protein-coding	0.5	1.5	4.5	54.0	16.5	8.0	4.5	11.0
Merged-chr19-37435482-4	chr19	37435386	37435586	+	957.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008245, intron 1 of 3)	CpG	645.0	NM_008245	15242.0	Mm.33896	NM_008245	ENSMUSG00000024986	Hhex	Hex|Hex1|Hhex-rs2|Prh|Prhx	hematopoietically expressed homeobox	protein-coding	10.5	5.0	23.0	222.5	28.5	5.0	14.5	17.5
Merged-chr19-41830388-4	chr19	41830340	41830540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008043, exon 1 of 1)	exon (NM_008043, exon 1 of 1)	470.0	NM_008043	14296.0	Mm.4573	NM_008043	ENSMUSG00000067199	Frat1	AW060382	frequently rearranged in advanced T cell lymphomas	protein-coding	11.5	9.0	13.5	118.5	32.0	19.0	7.5	23.0
Merged-chr3-116594910-4	chr3	116594799	116594999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289571)	promoter-TSS (NM_001289571)	-12.0	NR_152258	229780.0	Mm.259648	NM_030016	ENSMUSG00000033439	Trmt13	4631408H19Rik|A330067P21|A930028L21Rik|Ccdc76	tRNA methyltransferase 13	protein-coding	122.5	144.5	114.0	1540.5	275.5	102.0	111.0	83.5
Merged-chr9-99587831-2	chr9	99587738	99587938	+	747.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12039.0	NM_031403	83703.0	Mm.31324	NM_031403	ENSMUSG00000032469	Dbr1	AW018415	debranching RNA lariats 1	protein-coding	8.0	12.0	10.0	41.0	7.5	3.5	6.5	5.5
Merged-chr19-55649564-4	chr19	55649459	55649659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045318, intron 2 of 3)	intron (NR_045318, intron 2 of 3)	52645.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	227.0	318.0	181.0	2232.5	405.0	224.0	220.0	164.0
Merged-chr15-11966494-3	chr15	11966391	11966591	+	652.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040447)	promoter-TSS (NR_040447)	-571.0	NR_040447	73339.0	Mm.231975	NR_040447	ENSMUSG00000099349	1700047G03Rik	-	RIKEN cDNA 1700047G03 gene	ncRNA	9.0	7.0	4.5	113.0	9.0	4.0	4.0	6.0
Merged-chr9-55153074-4	chr9	55152968	55153168	+	917.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346658, intron 1 of 12)	intron (NM_001346658, intron 1 of 12)	2985.0	NM_001346658	109161.0	Mm.207894	NM_180600	ENSMUSG00000032307	Ube2q2	3010021M21Rik	ubiquitin-conjugating enzyme E2Q family member 2	protein-coding	12.5	26.5	15.5	157.0	18.5	14.5	10.0	16.0
Merged-chr10-13965708-4	chr10	13965659	13965859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010437)	promoter-TSS (NM_010437)	-316.0	NM_001358783	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	100.5	183.0	159.0	2066.5	396.5	131.0	174.5	162.0
Merged-chr5-140607249-4	chr5	140607164	140607364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008494)	promoter-TSS (NM_008494)	-77.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	148.5	251.0	192.0	2853.5	330.0	125.5	146.0	121.5
Merged-chr13-5802400-4	chr13	5802264	5802464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55728.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	122.0	145.0	68.0	1151.0	131.0	55.0	36.0	35.0
Merged-chr1-189707284-4	chr1	189707186	189707386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19200.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	38.5	27.5	31.5	748.5	119.5	34.0	41.5	31.0
Merged-chr13-46906141-4	chr13	46906053	46906253	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 2 of 37)	intron (NM_010617, intron 2 of 37)	23565.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	13.0	20.0	21.0	145.0	85.5	19.0	31.0	30.0
Merged-chr4-70536059-4	chr4	70535940	70536140	+	933.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1112.0	NM_172694	230316.0	Mm.251188	NM_172694	ENSMUSG00000039270	Megf9	4933405H16Rik|9630025C07|Egfl5|mKIAA0818	multiple EGF-like-domains 9	protein-coding	15.5	12.0	15.5	138.0	26.5	12.0	20.0	16.0
Merged-chr18-84859622-4	chr18	84859527	84859727	+	917.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348159, intron 1 of 5)	(CCCCCA)n|Simple_repeat|Simple_repeat	8289.0	NM_001348159	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	15.0	27.0	17.5	223.0	30.0	10.0	7.5	8.5
Merged-chr2-78915105-4	chr2	78915020	78915220	+	766.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356395, intron 4 of 5)	intron (NM_001356395, intron 4 of 5)	45442.0	NR_151457	22193.0	Mm.1485	NM_009454	ENSMUSG00000027011	Ube2e3	Ubce4|ubcM2	ubiquitin-conjugating enzyme E2E 3	protein-coding	10.5	19.0	7.0	127.0	20.0	9.0	10.5	12.5
Merged-chr9-99122933-4	chr9	99122823	99123023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 1 of 23)	intron (NM_029094, intron 1 of 23)	17288.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	20.5	42.0	35.5	714.0	182.5	46.5	73.0	99.5
Merged-chr3-127791002-4	chr3	127790919	127791119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356430, intron 1 of 2)	intron (NM_001356430, intron 1 of 2)	362.0	NM_001356430	211550.0	Mm.31852	NM_145133	ENSMUSG00000046688	Tifa	T2bp	TRAF-interacting protein with forkhead-associated domain	protein-coding	152.0	275.5	236.0	2267.0	264.5	108.0	108.5	75.5
Merged-chr11-58103973-4	chr11	58103874	58104074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356477)	promoter-TSS (NM_001356477)	4.0	NM_026949	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	155.5	188.0	155.0	1466.5	294.5	120.0	181.5	157.5
Merged-chr4-33289597-4	chr4	33289485	33289685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20726.0	NM_011884	24018.0	Mm.240024	NM_011884	ENSMUSG00000028274	Rngtt	AU020997|HCE|MCE1	RNA guanylyltransferase and 5'-phosphatase	protein-coding	36.5	39.5	41.5	560.0	87.0	28.5	33.5	30.0
Merged-chr2-34826213-4	chr2	34826120	34826320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013890)	promoter-TSS (NM_013890)	15.0	NM_001164770	30050.0	Mm.4465	NM_013890	ENSMUSG00000035949	Fbxw2	2700071L08Rik|FBW2|Fwd2|MD6	F-box and WD-40 domain protein 2	protein-coding	48.0	104.0	56.0	889.5	231.0	69.5	77.0	69.0
Merged-chr12-36364523-4	chr12	36364425	36364625	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16925.0	NM_001289504	75847.0	Mm.261764	NM_178629	ENSMUSG00000043153	Ispd	4930579E17Rik|AV040780	isoprenoid synthase domain containing	protein-coding	20.5	21.5	20.5	354.5	61.0	9.5	34.5	23.5
Merged-chr17-46650493-4	chr17	46650403	46650603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001316742)	TTS (NM_001316742)	165.0	NM_025611	66515.0	Mm.329078	NM_025611	ENSMUSG00000038545	Cul7	2510004L20Rik|AA409809|C230011P08Rik|p185|p193	cullin 7	protein-coding	46.0	66.5	49.0	486.0	79.0	32.5	35.5	26.5
Merged-chr13-63140005-4	chr13	63139909	63140109	+	929.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 5 of 15)	intron (NM_001289926, intron 5 of 15)	-100020.0	NR_110520	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	17.5	14.5	17.5	309.5	30.0	7.5	12.0	17.0
Merged-chr11-120949016-4	chr11	120948918	120949118	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038654)	promoter-TSS (NM_001038654)	-49.0	NM_001038653	80879.0	Mm.28632	NM_030696	ENSMUSG00000025161	Slc16a3	Mct3|Mct4	solute carrier family 16 (monocarboxylic acid transporters), member 3	protein-coding	16.5	17.5	9.5	178.5	16.0	6.0	13.0	11.0
Merged-chr18-52559074-4	chr18	52558991	52559191	+	830.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29224.0	NM_001286182	16948.0	Mm.172	NM_010728	ENSMUSG00000024529	Lox	AI893619|TSC-160|rrg	lysyl oxidase	protein-coding	7.0	17.5	7.0	130.5	31.5	19.5	19.5	14.0
Merged-chr14-118423741-3	chr14	118423574	118423774	+	720.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	57796.0	NR_045624	73306.0	Mm.362328	NR_045624	ENSMUSG00000099911	1700044C05Rik	-	RIKEN cDNA 1700044C05 gene	ncRNA	9.5	6.0	8.5	46.0	2.0	8.5	3.0	0.5
Merged-chr19-59020997-4	chr19	59020873	59021073	+	888.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114312, intron 9 of 16)	intron (NM_001114312, intron 9 of 16)	55096.0	NM_175172	71653.0	Mm.37338	NM_175172	ENSMUSG00000041362	Shtn1	4930506M07Rik|Shootin1|mKIAA1598	shootin 1	protein-coding	8.5	2.5	11.0	192.5	32.5	12.5	8.0	13.5
Merged-chr4-132334959-4	chr4	132334860	132335060	+	946.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133878, intron 6 of 9)	intron (NM_133878, intron 6 of 9)	-5422.0	NM_027925	71787.0	Mm.239183	NM_027925	ENSMUSG00000028898	Trnau1ap	1110007F05Rik|AA387999|Secp43|Trspap1|WI1-2643G14.2	tRNA selenocysteine 1 associated protein 1	protein-coding	17.0	21.5	9.5	77.5	184.0	82.0	89.0	42.5
Merged-chr3-95739559-4	chr3	95739470	95739670	+	963.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252653)	promoter-TSS (NM_001252653)	-1.0	NM_001252653	13601.0	Mm.3433	NM_007899	ENSMUSG00000028108	Ecm1	AI663821|p85	extracellular matrix protein 1	protein-coding	23.0	28.0	25.5	287.5	32.0	11.0	26.0	9.5
Merged-chr12-73445314-3	chr12	73445207	73445407	+	943.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35744.0	NR_046013	380765.0	Mm.490476	NR_046013	ENSMUSG00000056359	D830013O20Rik	Gm891	RIKEN cDNA D830013O20 gene	ncRNA	9.0	6.5	12.0	199.0	15.5	3.0	6.0	5.0
Merged-chr10-117983508-3	chr10	117983410	117983610	+	898.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	58051.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	9.5	18.0	7.0	173.5	15.5	2.0	11.0	8.0
Merged-chr11-101673370-4	chr11	101673268	101673468	+	883.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7827.0	NM_025404	80981.0	Mm.266840	NM_025404	ENSMUSG00000034936	Arl4d	1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5	ADP-ribosylation factor-like 4D	protein-coding	18.0	10.0	13.5	157.0	21.5	5.0	15.0	7.0
Merged-chr11-23770320-4	chr11	23770235	23770435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009044, intron 1 of 9)	intron (NM_009044, intron 1 of 9)	635.0	NM_009044	19696.0	Mm.4869	NM_009044	ENSMUSG00000020275	Rel	c-Rel	reticuloendotheliosis oncogene	protein-coding	32.5	82.5	40.5	754.0	134.5	44.0	51.0	62.0
Merged-chr8-13890333-4	chr8	13890208	13890408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025556)	promoter-TSS (NM_025556)	-37.0	NM_025556	66423.0	Mm.29063	NM_025556	ENSMUSG00000031458	Coprs	1700029I03Rik|2410022L05Rik|AA409325|AI256813|C85432|Copr5	coordinator of PRMT5, differentiation stimulator	protein-coding	92.0	154.0	98.5	1630.0	263.0	96.0	149.0	87.5
Merged-chr3-121570879-4	chr3	121570740	121570940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38496.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	105.0	178.0	92.0	979.0	251.0	133.0	96.5	96.5
Merged-chr16-33829565-4	chr16	33829430	33829630	+	938.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010580)	promoter-TSS (NM_010580)	-135.0	NM_010580	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	17.5	16.0	14.0	156.5	23.0	16.5	11.5	14.0
Merged-chr2-118025986-4	chr2	118025884	118026084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	Tigger6a|DNA|TcMar-Tigger	85218.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	76.5	109.0	79.5	1167.0	68.5	33.5	32.0	57.5
Merged-chr7-6241034-3	chr7	6240940	6241140	+	862.6166380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11670.0	NM_001177416	627821.0	Mm.99441	NM_001177416	ENSMUSG00000053367	Epp13	EG627821|Eddm13|Gm6792	epididymal protein 13	protein-coding	11.5	16.5	5.0	138.0	13.0	1.5	14.0	9.0
Merged-chr8-85083665-4	chr8	85083570	85083770	+	985.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010764, intron 1 of 23)	intron (NM_010764, intron 1 of 23)	401.0	NM_010764	17159.0	Mm.4219	NM_010764	ENSMUSG00000005142	Man2b1	AW107687|LAMAN	mannosidase 2, alpha B1	protein-coding	12.5	36.0	16.5	285.0	63.5	24.0	20.0	32.5
Merged-chr6-90477307-3	chr6	90477228	90477428	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001355668, exon 3 of 3)	3' UTR (NM_001355668, exon 3 of 3)	14752.0	NM_023184	66277.0	Mm.38343	NM_023184	ENSMUSG00000030087	Klf15	1810013I09Rik|AV048136|AW494632|CKLF|KKLF	Kruppel-like factor 15	protein-coding	6.5	22.5	18.5	327.0	18.5	11.5	11.0	10.0
Merged-chr19-45117057-3	chr19	45116968	45117168	+	785.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33647.0	NM_021901	21908.0	Mm.391203	NM_021901	ENSMUSG00000025215	Tlx1	Hox-11|Hox11|Tlx-1	T cell leukemia, homeobox 1	protein-coding	11.0	10.5	5.0	147.5	21.0	5.5	7.5	8.0
Merged-chr6-124682430-4	chr6	124682342	124682542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149320, intron 1 of 11)	intron (NR_149320, intron 1 of 11)	19338.0	NM_145130	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	29.5	43.0	34.0	369.5	91.0	28.0	30.0	22.0
Merged-chr9-57708573-4	chr9	57708480	57708680	+	904.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153799)	promoter-TSS (NM_153799)	11.0	NM_153799	353190.0	Mm.268104	NM_153799	ENSMUSG00000038957	Edc3	AA517853|Lsm16|Yjdc	enhancer of mRNA decapping 3	protein-coding	12.0	24.5	8.5	232.5	31.5	20.0	13.5	27.5
Merged-chr11-120151360-4	chr11	120151268	120151468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164799)	promoter-TSS (NM_001164799)	-17.0	NM_001164798	72055.0	Mm.253403	NM_024249	ENSMUSG00000061306	Slc38a10	1810073N04Rik	solute carrier family 38, member 10	protein-coding	227.0	311.5	162.0	2275.5	445.5	220.5	203.0	157.5
Merged-chr5-74957862-4	chr5	74957764	74957964	+	847.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045866, intron 2 of 4)	intron (NR_045866, intron 2 of 4)	8670.0	NR_045866	619945.0	Mm.359372	NM_001037908	ENSMUSG00000072874	Gm6116	EG619945	predicted gene 6116	ncRNA	9.0	9.0	21.0	125.0	28.0	12.5	11.0	8.5
Merged-chr7-34168526-4	chr7	34168419	34168619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016682)	promoter-TSS (NM_016682)	10.0	NM_016682	50995.0	Mm.27560	NM_016682	ENSMUSG00000052997	Uba2	AA986091|Arx|Sae2|UBA1|Ubl1a2|Uble1b	ubiquitin-like modifier activating enzyme 2	protein-coding	51.0	103.0	67.0	1072.5	156.5	73.5	57.5	60.5
Merged-chr17-34120491-4	chr17	34120383	34120583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037970)	promoter-TSS (NR_037970)	-583.0	NR_037970	14312.0	Mm.3444	NM_010238	ENSMUSG00000024335	Brd2	AW228947|D17H6S113E|Frg-1|Fsrg-1|Fsrg1|Nat|Ring3|Rnf3|mKIAA4005	bromodomain containing 2	protein-coding	56.0	95.5	61.0	777.0	226.5	88.5	92.0	75.5
Merged-chr18-43374761-1	chr18	43374661	43374861	+	691.333313	f0_balb.idr	intron (NM_001291455, intron 1 of 13)	LTR33|LTR|ERVL	-1489.0	NM_001136086	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	5.0	9.5	12.5	84.0	0.0	0.0	1.0	0.0
Merged-chr5-24752184-4	chr5	24752060	24752260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153076, intron 3 of 3)	(AGGGGG)n|Simple_repeat|Simple_repeat	5683.0	NM_153076	214301.0	Mm.63484	NM_153076	ENSMUSG00000038135	Crygn	-	crystallin, gamma N	protein-coding	24.0	27.5	29.5	402.5	71.0	34.5	44.0	44.5
Merged-chr9-85577970-4	chr9	85577853	85578053	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	171381.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	13.5	9.0	10.0	129.0	21.5	8.5	8.0	13.0
Merged-chr9-21265213-4	chr9	21265138	21265338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153583)	promoter-TSS (NM_153583)	-47.0	NM_153583	235040.0	Mm.440165	NM_153583	ENSMUSG00000002820	Atg4d	9830134P12Rik|APG4-D|Apg4d|Atg4dl|Autl4	autophagy related 4D, cysteine peptidase	protein-coding	123.5	210.5	139.0	1896.0	337.0	107.0	131.5	127.5
Merged-chr10-127594694-4	chr10	127594603	127594803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 8 of 88)	MIRc|SINE|MIR	26445.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	139.5	226.5	206.5	2491.0	219.5	121.5	144.0	135.5
Merged-chr17-87025415-4	chr17	87025283	87025483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008838)	promoter-TSS (NM_008838)	18.0	NM_008838	18701.0	Mm.219685	NM_008838	ENSMUSG00000024145	Pigf	-	phosphatidylinositol glycan anchor biosynthesis, class F	protein-coding	139.0	150.0	120.5	1994.0	396.5	166.0	160.0	133.0
Merged-chr12-83730397-1	chr12	83730297	83730497	+	543.5	f0_balb.idr	intron (NM_001362271, intron 9 of 11)	intron (NM_001362271, intron 9 of 11)	-33237.0	NM_001205343	170721.0	Mm.133443	NM_130887	ENSMUSG00000021223	Papln	E030033C16Rik	papilin, proteoglycan-like sulfated glycoprotein	protein-coding	9.0	9.0	8.0	78.0	8.0	0.5	1.0	4.0
Merged-chr6-134469418-4	chr6	134469313	134469513	+	848.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 13 of 22)	intron (NM_008514, intron 13 of 22)	54985.0	NM_001355686	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	7.0	14.5	14.0	116.0	28.5	5.0	23.0	12.5
Merged-chr15-8629444-4	chr15	8629389	8629589	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81318.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	14.5	19.0	29.0	267.0	37.0	14.0	32.0	15.0
Merged-chr6-99490050-4	chr6	99489950	99490150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347345, intron 1 of 19)	intron (NM_001347345, intron 1 of 19)	30943.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	99.5	119.0	98.0	1531.5	183.5	62.0	87.5	90.5
Merged-chr11-94198963-4	chr11	94198864	94199064	+	894.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12490.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	9.0	12.5	7.5	146.5	29.0	12.5	18.5	17.0
Merged-chr5-147532095-4	chr5	147532006	147532206	+	906.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028291, intron 13 of 18)	intron (NM_028291, intron 13 of 18)	101950.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	13.0	13.5	36.5	693.5	8.0	6.5	19.5	14.5
Merged-chr6-98499951-4	chr6	98499858	98500058	+	770.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157204.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	8.5	4.0	11.0	298.0	6.5	9.5	12.5	6.0
Merged-chr3-88023033-4	chr3	88022956	88023156	+	982.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022031, intron 6 of 6)	CpG	4455.0	NM_022031	73940.0	Mm.294467	NM_022031	ENSMUSG00000004894	Hapln2	4930401E20Rik|Bral1	hyaluronan and proteoglycan link protein 2	protein-coding	25.0	24.0	9.5	350.0	59.5	19.0	27.5	23.0
Merged-chr2-75936820-3	chr2	75936727	75936927	+	859.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028235, exon 1 of 1)	exon (NM_028235, exon 1 of 1)	1635.0	NM_028235	72421.0	Mm.275109	NM_028235	ENSMUSG00000075273	Ttc30b	2510042P03Rik|Tcc30b	tetratricopeptide repeat domain 30B	protein-coding	10.5	21.5	10.0	110.5	20.0	11.5	4.5	8.0
Merged-chr19-11910685-5	chr19	11910559	11910759	+	909.4799800000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-1740.0	NM_172635	225929.0	Mm.42711	NM_172635	ENSMUSG00000046139	Patl1	AV312086|Pat1b	protein associated with topoisomerase II homolog 1 (yeast)	protein-coding	10.5	23.5	9.0	164.5	11.5	0.5	1.0	5.5
Merged-chr6-100100868-4	chr6	100100757	100100957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	186501.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	59.0	70.0	51.5	1004.0	131.5	54.5	50.0	58.0
Merged-chr1-149923842-3	chr1	149923752	149923952	+	743.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 2 of 17)	intron (NM_008869, intron 2 of 17)	-1413.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	9.5	7.5	10.5	173.5	12.5	5.5	8.5	3.5
Merged-chr19-11404665-4	chr19	11404555	11404755	+	827.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3006.0	NM_029499	64380.0	Mm.440715	NM_029499	ENSMUSG00000024675	Ms4a4c	5830413L19Rik|AI449185|Ms4a9	membrane-spanning 4-domains, subfamily A, member 4C	protein-coding	11.0	12.0	6.0	130.5	27.5	6.0	7.0	9.5
Merged-chr7-83566236-4	chr7	83566122	83566322	+	962.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18709.0	NM_177695	233424.0	Mm.486619	NM_177695	ENSMUSG00000038540	Tmc3	9030203A06	transmembrane channel-like gene family 3	protein-coding	11.0	7.0	30.0	473.0	43.0	16.5	28.0	28.5
Merged-chr15-58133903-4	chr15	58133811	58134011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027435, intron 1 of 27)	intron (NM_027435, intron 1 of 27)	1171.0	NM_027435	70472.0	Mm.221758	NM_027435	ENSMUSG00000022360	Atad2	2610509G12Rik	ATPase family, AAA domain containing 2	protein-coding	19.5	26.5	17.5	320.0	63.5	18.0	26.0	28.0
Merged-chr2-104507257-4	chr2	104507155	104507355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-12766.0	NM_001145824	15259.0	Mm.257925	NM_010434	ENSMUSG00000027177	Hipk3	DYRK6|FIST3|PKY|mir-1902	homeodomain interacting protein kinase 3	protein-coding	25.5	28.5	16.5	332.5	42.5	13.5	21.0	40.0
Merged-chr4-41465027-4	chr4	41464946	41465146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025539)	promoter-TSS (NM_025539)	-102.0	NM_025539	66401.0	Mm.28574	NM_025539	ENSMUSG00000028443	Nudt2	2310051L06Rik|AA939917|APAH1	nudix (nucleoside diphosphate linked moiety X)-type motif 2	protein-coding	332.0	463.5	327.0	5051.5	752.0	365.5	362.5	341.0
Merged-chr8-40580505-4	chr8	40580426	40580626	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040699, intron 7 of 13)	intron (NM_001040699, intron 7 of 13)	54266.0	NM_001040699	54384.0	Mm.294871	NM_019433	ENSMUSG00000039431	Mtmr7	-	myotubularin related protein 7	protein-coding	32.5	30.5	42.5	708.0	64.5	17.0	29.0	26.5
Merged-chr14-70823284-4	chr14	70823186	70823386	+	925.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29647.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	32.0	32.5	24.0	565.5	44.0	13.0	15.5	8.0
Merged-chr3-108346069-3	chr3	108345935	108346135	+	932.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019972, intron 13 of 19)	intron (NM_019972, intron 13 of 19)	-18876.0	NM_026831	68753.0	Mm.75201	NM_026831	ENSMUSG00000068745	Mybphl	1110037P11Rik	myosin binding protein H-like	protein-coding	9.0	17.0	12.5	292.5	24.0	12.5	8.0	4.0
Merged-chr2-174077349-4	chr2	174077233	174077433	+	941.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102423, intron 1 of 7)	intron (NM_001102423, intron 1 of 7)	282.0	NM_001102423	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	10.5	20.0	12.5	269.0	56.0	10.5	17.5	26.0
Merged-chr14-120323214-4	chr14	120323042	120323242	+	822.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 1 of 8)	intron (NM_001360376, intron 1 of 8)	16690.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	4.5	3.5	1.5	106.5	22.5	8.0	6.0	10.5
Merged-chr4-150798948-4	chr4	150798834	150799034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54862.0	NM_001356323	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	137.0	146.0	118.0	1811.0	191.0	80.0	88.0	114.5
Merged-chr7-105750824-4	chr7	105750706	105750906	+	874.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009906, intron 3 of 12)	intron (NM_009906, intron 3 of 12)	1429.0	NM_009906	12751.0	Mm.20837	NM_009906	ENSMUSG00000030894	Tpp1	Cln2|LPIC|TPP-1|TPP-I	tripeptidyl peptidase I	protein-coding	3.0	7.0	3.5	83.0	17.5	7.0	5.0	9.0
Merged-chr4-45520601-4	chr4	45520503	45520703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	10225.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	55.5	62.0	43.0	598.5	97.5	45.5	32.0	46.5
Merged-chr3-116482917-4	chr3	116482815	116483015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25260.0	NM_025517	66368.0	Mm.251228	NM_025517	ENSMUSG00000000339	Rtca	2310009A18Rik|AI450277|RPC|Rtcd1	RNA 3'-terminal phosphate cyclase	protein-coding	26.0	62.0	28.5	580.5	99.5	35.5	36.0	43.0
Merged-chr6-106800046-4	chr6	106799920	106800120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175357)	promoter-TSS (NM_175357)	67.0	NM_021449	58799.0	Mm.290085	NM_021449	ENSMUSG00000005362	Crbn	2610203G15Rik|2900045O07Rik|AF229032|AW108261|piL	cereblon	protein-coding	141.0	188.0	174.5	1560.5	352.5	165.0	169.5	112.0
Merged-chr3-133650254-2	chr3	133650154	133650354	+	773.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105864.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	8.5	10.0	9.0	54.5	19.0	1.0	9.0	2.5
Merged-chr3-107931828-4	chr3	107931730	107931930	+	999.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026672)	promoter-TSS (NM_026672)	-13.0	NM_026672	68312.0	Mm.458189	NM_026672	ENSMUSG00000004035	Gstm7	0610005A07Rik|AI894236|Cd203c	glutathione S-transferase, mu 7	protein-coding	17.5	32.0	32.0	523.0	43.5	15.5	34.5	19.0
Merged-chr6-116628834-4	chr6	116628685	116628885	+	832.762512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302440)	promoter-TSS (NM_001302440)	-84.0	NM_001302440	67255.0	Mm.18810	NM_026057	ENSMUSG00000059878	Zfp422	2900028O21Rik|AU041373|KOX15|Krox-25-2|Krox-26|Krox25|Krox26|Znf22	zinc finger protein 422	protein-coding	4.0	9.0	13.5	43.0	18.5	8.5	6.0	6.5
Merged-chr12-91668730-4	chr12	91668659	91668859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	-78272.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	165.5	239.5	204.0	2515.5	283.5	89.5	142.5	92.0
Merged-chr6-145142572-4	chr6	145142460	145142660	+	750.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008511, intron 3 of 18)	intron (NM_008511, intron 3 of 18)	-2915.0	NM_001361633	16970.0	Mm.843	NM_008511	ENSMUSG00000030263	Lrmp	D6Int3|D6Int4|D6Int5|D6Int7|D6Int8|Jaw1	lymphoid-restricted membrane protein	protein-coding	10.0	3.5	6.5	147.0	25.5	4.5	12.0	5.0
Merged-chr4-129134935-3	chr4	129134833	129135033	+	659.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2066.0	NM_027402	384061.0	Mm.44075	NM_027402	ENSMUSG00000001334	Fndc5	1500001L03Rik|AI836596|C87088|PeP|Pxp	fibronectin type III domain containing 5	protein-coding	5.0	4.0	2.0	63.0	17.0	5.0	4.5	7.5
Merged-chr14-11162094-4	chr14	11161990	11162190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308285)	promoter-TSS (NM_001308285)	-55.0	NM_001308285	14198.0	Mm.397619	NM_010210	ENSMUSG00000060579	Fhit	AW045638|Fra14A2	fragile histidine triad gene	protein-coding	48.0	36.5	49.0	1175.5	45.0	22.0	24.0	24.5
Merged-chr14-17743857-4	chr14	17743746	17743946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 1 of 9)	intron (NM_001113417, intron 1 of 9)	82886.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	33.0	55.0	56.0	1032.0	103.5	38.5	41.5	45.0
Merged-chr17-55718864-4	chr17	55718704	55718904	+	941.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-6168.0	NR_151542	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	20.5	27.0	31.5	350.0	38.0	4.5	7.5	9.0
Merged-chr3-20423086-4	chr3	20422973	20423173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55896.0	NM_175086	11608.0	Mm.134863	NM_175086	ENSMUSG00000054988	Agtr1b	AT1B|AT2R1B|Agtr-1b|Angtr-1b	angiotensin II receptor, type 1b	protein-coding	84.5	134.5	165.5	2116.5	154.5	87.0	104.0	89.5
Merged-chr2-167777690-8	chr2	167777537	167777737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	86460.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	163.5	307.5	176.0	1352.5	390.0	210.5	149.0	137.0
Merged-chr16-31124481-3	chr16	31124370	31124570	+	735.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030138, intron 10 of 22)	intron (NM_030138, intron 10 of 22)	-43038.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	9.0	8.5	10.5	75.0	9.0	3.5	4.0	2.5
Merged-chr12-51865971-4	chr12	51865874	51866074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36438.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	203.0	243.5	214.5	3876.5	271.0	113.5	129.5	121.0
Merged-chr6-148405867-3	chr6	148405765	148405965	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198967, intron 5 of 19)	intron (NM_198967, intron 5 of 19)	38487.0	NM_198967	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	4.0	3.0	3.0	45.5	63.5	25.0	36.0	36.0
Merged-chr10-14189295-4	chr10	14189194	14189394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	222915.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	68.5	114.0	91.5	996.0	186.5	55.0	65.0	38.0
Merged-chr18-61400020-11	chr18	61399956	61400156	+	998.3485109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133249, intron 1 of 11)	CpG	375.0	NM_133249	170826.0	Mm.415302	NM_133249	ENSMUSG00000033871	Ppargc1b	4631412G21Rik|Perc	peroxisome proliferative activated receptor, gamma, coactivator 1 beta	protein-coding	13.5	15.0	18.5	39.5	25.5	12.0	8.0	21.0
Merged-chr10-25318575-4	chr10	25318450	25318650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19387.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	97.0	192.0	121.0	2251.5	341.0	101.0	133.0	103.5
Merged-chr3-81983790-4	chr3	81983703	81983903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-8075.0	NM_019911	56720.0	Mm.258622	NM_019911	ENSMUSG00000028011	Tdo2	AA407491|TDO|TO|chky	tryptophan 2,3-dioxygenase	protein-coding	56.5	63.5	71.0	704.5	137.0	40.5	47.0	50.0
Merged-chr4-32800343-4	chr4	32800243	32800443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175364)	promoter-TSS (NM_175364)	84.0	NM_175364	108755.0	Mm.1182	NM_175364	ENSMUSG00000045854	Lyrm2	2610208E05Rik	LYR motif containing 2	protein-coding	42.0	109.5	116.0	843.0	100.5	32.5	48.0	48.5
Merged-chr15-66846120-4	chr15	66846013	66846213	+	952.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009375, intron 45 of 47)	intron (NM_009375, intron 45 of 47)	-14284.0	NM_009192	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	8.0	18.5	43.5	250.5	46.0	5.5	28.5	6.5
Merged-chr19-32077597-4	chr19	32077496	32077696	+	908.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018830, intron 2 of 23)	L1_Mur3|LINE|L1	25544.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	4.5	28.5	15.5	107.5	35.0	12.5	6.5	8.0
Merged-chr17-84186414-8	chr17	84186230	84186430	+	824.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001001806, exon 2 of 2)	exon (NM_001001806, exon 2 of 2)	1617.0	NM_001001806	12193.0	Mm.259321	NM_001001806	ENSMUSG00000045817	Zfp36l2	Brf2|ERF2|Tis11d	zinc finger protein 36, C3H type-like 2	protein-coding	13.5	9.0	10.0	63.0	19.5	12.5	5.0	5.0
Merged-chr16-24778577-4	chr16	24778477	24778677	+	768.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 8 of 12)	intron (NM_178665, intron 8 of 12)	56722.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	7.0	10.5	3.0	127.0	28.0	7.0	5.5	12.5
Merged-chr4-145276756-4	chr4	145276648	145276848	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009401, intron 11 of 12)	intron (NM_009401, intron 11 of 12)	-29878.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	77.5	99.0	64.0	897.5	145.5	70.5	63.5	58.5
Merged-chr6-125426593-4	chr6	125426508	125426708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46104.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	55.5	79.0	46.5	821.0	161.0	51.5	60.5	59.5
Merged-chr10-121488836-4	chr10	121488731	121488931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12581.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	236.0	290.0	258.5	3674.0	334.5	129.5	221.0	165.5
Merged-chr15-7906676-4	chr15	7906561	7906761	+	937.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081402, intron 13 of 17)	intron (NM_001081402, intron 13 of 17)	91111.0	NM_001301357	14573.0	Mm.4679	NM_010275	ENSMUSG00000022144	Gdnf	AI385739|ATF	glial cell line derived neurotrophic factor	protein-coding	10.0	9.0	35.0	531.0	32.5	11.5	18.5	9.5
Merged-chr2-91723215-4	chr2	91723103	91723303	+	959.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6935.0	NM_172669	228361.0	Mm.436667	NM_172669	ENSMUSG00000040506	Ambra1	2310079H06Rik|A130023A14|AA474864|AV021921|D030051N19Rik|mKIAA1736	autophagy/beclin 1 regulator 1	protein-coding	18.5	23.0	20.0	227.0	31.5	8.0	2.5	13.5
Merged-chr3-104518616-3	chr3	104518516	104518716	+	809.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6698.0	NM_001310698	269473.0	Mm.34855	NM_001025067	ENSMUSG00000032913	Lrig2	4632419I10Rik|BB096938|LIG-2	leucine-rich repeats and immunoglobulin-like domains 2	protein-coding	8.5	19.5	11.5	235.0	10.5	5.5	11.5	6.5
Merged-chr9-61702618-4	chr9	61702469	61702669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	211941.0	NM_018853	56040.0	Mm.3158	NM_018853	ENSMUSG00000007892	Rplp1	2410042H16Rik|Arpp1|C430017H15Rik	ribosomal protein, large, P1	protein-coding	139.5	276.5	174.5	1702.5	386.5	136.5	179.5	109.0
Merged-chr18-60211995-4	chr18	60211864	60212064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033767)	promoter-TSS (NM_001033767)	-113.0	NM_001033767	240327.0	Mm.357104	NM_001033767	ENSMUSG00000073555	Gm4951	EG240327|Ifgga2	predicted gene 4951	protein-coding	30.0	42.0	28.5	476.5	93.5	33.0	41.5	37.0
Merged-chr11-103406026-4	chr11	103405916	103406116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183034, intron 1 of 11)	intron (NM_183034, intron 1 of 11)	6648.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	26.5	29.0	25.5	368.5	84.5	26.0	27.5	30.5
Merged-chr16-11006230-4	chr16	11006131	11006331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2667.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	203.0	288.0	351.5	4421.5	380.5	133.5	209.5	211.0
Merged-chr14-75179805-4	chr14	75179708	75179908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	43383.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	114.5	193.5	98.0	1483.5	328.5	118.0	122.5	156.0
Merged-chr2-12160737-2	chr2	12160637	12160837	+	931.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001309, intron 23 of 29)	intron (NM_001001309, intron 23 of 29)	-140509.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	4.0	4.0	4.0	36.5	17.0	12.5	9.5	7.0
Merged-chr2-167942972-4	chr2	167942878	167943078	+	916.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	10651.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	17.5	28.0	19.0	204.0	29.0	18.0	12.0	11.0
Merged-chr6-39781526-4	chr6	39781418	39781618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29418.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	19.5	28.5	30.5	180.0	73.0	36.5	32.0	31.0
Merged-chr2-52950376-4	chr2	52950262	52950462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	92494.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	42.0	51.5	67.0	1162.5	88.5	16.0	54.0	28.5
Merged-chr8-122550979-2	chr8	122550879	122551079	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001357349, exon 1 of 51)	exon (NM_001357349, exon 1 of 51)	350.0	NM_001037298	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	9.5	14.5	22.5	255.5	44.0	14.0	20.0	28.0
Merged-chr2-12318902-3	chr2	12318824	12319024	+	967.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16980.0	NM_001001309	241226.0	Mm.329997	NM_001001309	ENSMUSG00000026768	Itga8	AI447669	integrin alpha 8	protein-coding	11.0	2.5	14.5	197.0	27.0	6.0	6.0	9.0
Merged-chr6-65165188-4	chr6	65165090	65165290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20460.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	54.0	56.0	62.5	975.0	114.0	37.5	69.0	63.5
Merged-chr9-44640346-2	chr9	44640246	44640446	+	674.166687	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_181324, exon 14 of 14)	3' UTR (NM_181324, exon 14 of 14)	-32887.0	NM_001277851	58866.0	Mm.45380	NM_021481	ENSMUSG00000032098	Treh	2210412M19Rik	trehalase (brush-border membrane glycoprotein)	protein-coding	5.5	7.5	6.5	89.5	6.5	0.5	3.5	4.0
Merged-chr2-92065476-4	chr2	92065403	92065603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41333.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	65.5	143.0	58.0	630.0	192.0	74.5	70.5	67.0
Merged-chr2-148597172-3	chr2	148597075	148597275	+	635.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-75440.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	3.0	9.0	9.5	94.5	11.0	11.5	13.0	8.0
Merged-chr7-35119767-2	chr7	35119667	35119867	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001287515, exon 1 of 1)	exon (NM_001287515, exon 1 of 1)	474.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	35.5	43.0	36.0	483.0	43.5	27.0	25.0	44.5
Merged-chr13-55202200-4	chr13	55202098	55202298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-7584.0	NM_008739	18193.0	Mm.168965	NM_008739	ENSMUSG00000021488	Nsd1	AI528500|KMT3B	nuclear receptor-binding SET-domain protein 1	protein-coding	31.0	47.0	22.5	399.0	43.0	19.0	28.5	21.0
Merged-chr8-13156049-3	chr8	13155948	13156148	+	957.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3113.0	NM_001317353	16783.0	Mm.16716	NM_010684	ENSMUSG00000031447	Lamp1	CD107a|LGP-120|LGP-A|Lamp-1|P2B|Perk	lysosomal-associated membrane protein 1	protein-coding	9.5	8.5	6.0	50.0	35.5	12.5	1.0	9.5
Merged-chr19-32470227-6	chr19	32470120	32470320	+	938.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15549.0	NM_010799	17330.0	Mm.255116	NM_010799	ENSMUSG00000024896	Minpp1	AA408516	multiple inositol polyphosphate histidine phosphatase 1	protein-coding	6.0	10.5	10.0	194.0	36.5	14.0	11.0	8.5
Merged-chr18-23869143-4	chr18	23869053	23869253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 5 of 7)	intron (NM_001162941, intron 5 of 7)	65183.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	127.0	169.5	104.5	1401.0	186.0	122.5	72.0	58.0
Merged-chr9-78073943-4	chr9	78073835	78074035	+	813.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	21977.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	6.5	12.0	6.0	152.0	13.5	9.5	12.5	3.0
Merged-chr8-85482024-4	chr8	85481921	85482121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10596.0	NM_173866	108682.0	Mm.200423	NM_173866	ENSMUSG00000031700	Gpt2	4631422C05Rik|ALT2|AU014768|AU041193|C87201	glutamic pyruvate transaminase (alanine aminotransferase) 2	protein-coding	37.5	73.0	31.5	641.5	124.0	27.5	46.0	42.0
Merged-chr4-132555147-4	chr4	132555053	132555253	+	973.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8914.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	23.5	43.0	12.5	245.0	32.0	22.0	14.0	14.0
Merged-chr12-12176393-4	chr12	12176241	12176441	+	944.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85798.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	11.5	8.0	7.5	141.0	23.5	4.0	7.5	10.0
Merged-chr7-112023499-7	chr7	112023418	112023618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177249)	promoter-TSS (NM_177249)	12.0	NM_177249	74996.0	Mm.16974	NM_133758	ENSMUSG00000059263	Usp47	4930502N04Rik|A630020C16Rik	ubiquitin specific peptidase 47	protein-coding	31.5	52.0	30.0	421.0	89.0	45.5	42.0	41.0
Merged-chr10-117216264-4	chr10	117216180	117216380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026570, intron 6 of 6)	intron (NM_026570, intron 6 of 6)	8227.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	73.5	78.0	61.5	1357.0	180.0	49.5	116.0	78.0
Merged-chr1-33757084-2	chr1	33757019	33757219	+	604.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_145392, intron 1 of 2)	intron (NM_145392, intron 1 of 2)	631.0	NM_145392	213539.0	Mm.247037	NM_145392	ENSMUSG00000042215	Bag2	2610042A13Rik|BC016230	BCL2-associated athanogene 2	protein-coding	1.5	4.0	2.5	45.0	11.5	6.0	7.0	4.5
Merged-chr2-127792476-4	chr2	127792387	127792587	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015476)	promoter-TSS (NR_015476)	1.0	NR_015476	67885.0	Mm.27359	NM_175125	ENSMUSG00000051319	1500011K16Rik	-	RIKEN cDNA 1500011K16 gene	ncRNA	33.0	57.0	32.0	466.5	66.0	20.5	17.0	19.5
Merged-chr8-60982772-3	chr8	60982652	60982852	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173873, intron 1 of 12)	CpG	559.0	NM_173873	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	16.0	5.5	12.0	175.0	26.5	13.0	10.0	15.0
Merged-chr8-125278461-1	chr8	125278361	125278561	+	812.333313	f0_balb.idr	Intergenic	Intergenic	214372.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	19.0	32.0	16.0	117.5	2.0	0.5	1.0	1.0
Merged-chr10-117682716-4	chr10	117682611	117682811	+	940.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027468, intron 8 of 8)	B3|SINE|B2	28047.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	22.0	27.5	11.0	175.5	56.5	23.5	17.0	13.5
Merged-chr5-146750022-4	chr5	146749940	146750140	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 6 of 8)	intron (NM_011669, intron 6 of 8)	44916.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	20.0	17.5	24.0	456.0	33.0	16.5	32.5	27.5
Merged-chr14-31685762-4	chr14	31685631	31685831	+	844.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44B|DNA|TcMar-Tigger	44674.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	5.0	9.0	8.0	53.0	7.5	7.5	12.5	9.5
Merged-chr16-36987695-4	chr16	36987585	36987785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358217, intron 1 of 3)	intron (NM_001358217, intron 1 of 3)	2782.0	NM_001358217	207215.0	Mm.211899	NM_001037321	ENSMUSG00000047746	Fbxo40	9830003A13Rik|mKIAA1195	F-box protein 40	protein-coding	42.5	109.0	32.0	320.0	155.0	59.5	47.0	58.0
Merged-chr4-132533665-4	chr4	132533558	132533758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007512, exon 2 of 4)	5' UTR (NM_007512, exon 2 of 4)	1756.0	NM_007512	11983.0	Mm.2171	NM_007512	ENSMUSG00000054428	Atpif1	Atpi|IF(1)|If1	ATPase inhibitory factor 1	protein-coding	61.5	78.0	42.5	886.0	143.0	40.5	60.0	42.0
Merged-chr19-56455906-4	chr19	56455765	56455965	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5772.0	NM_001164263	226245.0	Mm.156742	NM_172641	ENSMUSG00000035818	Plekhs1	9930023K05Rik	pleckstrin homology domain containing, family S member 1	protein-coding	18.0	22.5	17.0	197.5	36.5	11.0	13.0	10.0
Merged-chr12-37241312-4	chr12	37241202	37241402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178767)	promoter-TSS (NM_178767)	-337.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	47.5	50.0	40.5	679.5	95.0	32.0	40.0	35.0
Merged-chr19-34445789-4	chr19	34445614	34445814	+	845.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29421.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	14.5	13.5	6.5	132.0	14.0	2.5	7.5	5.0
Merged-chr7-55847823-4	chr7	55847718	55847918	+	925.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	intron (NM_011370, intron 1 of 30)	5747.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	6.5	19.5	10.0	189.0	27.0	7.5	13.5	7.0
Merged-chr12-79023093-1	chr12	79022993	79023193	+	653.0	f1_c57bl6.idr	Intergenic	Intergenic	-6070.0	NM_181073	211945.0	Mm.478321	NM_181073	ENSMUSG00000060716	Plekhh1	AV308913|C77772|D630024D12Rik|mKIAA1200	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	protein-coding	7.5	5.0	7.0	41.5	3.5	2.0	9.0	6.0
Merged-chr12-21373641-4	chr12	21373565	21373765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277266)	promoter-TSS (NM_001277266)	-33.0	NM_009615	11491.0	Mm.27681	NM_009615	ENSMUSG00000052593	Adam17	CD156b|Tace	a disintegrin and metallopeptidase domain 17	protein-coding	199.5	297.0	204.5	3101.0	522.0	199.5	288.0	162.0
Merged-chr1-177139820-4	chr1	177139714	177139914	+	942.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	RMER19B|LTR|ERVK	108953.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	21.5	18.0	10.0	481.0	57.0	10.5	14.0	21.0
Merged-chr1-179760795-4	chr1	179760708	179760908	+	663.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026375, intron 29 of 35)	B1_Mus1|SINE|Alu	43207.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	11.5	6.5	5.5	206.0	17.5	4.0	6.5	10.5
Merged-chr13-92611012-4	chr13	92610915	92611115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172588)	promoter-TSS (NM_172588)	-123.0	NM_172588	218442.0	Mm.297970	NM_172588	ENSMUSG00000021703	Serinc5	A130038L21Rik|AIGP3|C86123|TPO1	serine incorporator 5	protein-coding	267.0	283.5	195.5	3828.5	488.0	148.5	248.5	187.5
Merged-chr13-101842096-4	chr13	101841954	101842154	+	878.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73837.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	9.0	10.5	13.5	48.0	11.0	0.5	7.0	4.0
Merged-chr14-61678300-4	chr14	61678196	61678396	+	852.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	4077.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	9.5	26.0	9.5	188.5	37.5	6.5	15.0	12.5
Merged-chr13-37946979-4	chr13	37946875	37947075	+	814.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033615, exon 9 of 10)	non-coding (NR_033615, exon 9 of 10)	47233.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	10.0	10.0	9.5	135.0	17.0	4.5	14.0	19.0
Merged-chr2-172440024-2	chr2	172439924	172440124	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025542)	promoter-TSS (NM_025542)	-554.0	NM_025542	66404.0	Mm.25157	NM_025542	ENSMUSG00000027502	Rtf2	1700067C04Rik|2410001C21Rik|5730427M17Rik|AA589417|Rtfdc1	replication termination factor 2	protein-coding	18.0	32.5	17.5	62.5	26.0	14.0	10.0	14.5
Merged-chr15-75929826-4	chr15	75929733	75929933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031201)	promoter-TSS (NM_031201)	-15.0	NM_001357005	22122.0	Mm.22596	NM_031201	ENSMUSG00000022570	Tsta3	AI256181|FX|Tstap35b	tissue specific transplantation antigen P35B	protein-coding	39.5	42.5	30.0	672.5	95.5	50.5	50.0	60.0
Merged-chr9-107872843-4	chr9	107872750	107872950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011251)	promoter-TSS (NM_011251)	-31.0	NM_029169	19654.0	Mm.139926	NM_011251	ENSMUSG00000032582	Rbm6	4930506F14Rik|Def-3|NY-LU-12|g16|mKIAA4015	RNA binding motif protein 6	protein-coding	139.0	223.0	116.0	1966.5	324.0	118.0	187.0	118.5
Merged-chr8-11341341-4	chr8	11341245	11341445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009932, intron 3 of 47)	intron (NM_009932, intron 3 of 47)	-28519.0	NM_009931	12826.0	Mm.738	NM_009931	ENSMUSG00000031502	Col4a1	Bru|Col4a-1|Raw|Svc	collagen, type IV, alpha 1	protein-coding	78.0	102.5	68.5	1323.5	170.0	70.5	79.0	78.5
Merged-chr14-8215371-4	chr14	8215284	8215484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305937)	promoter-TSS (NM_001305937)	-864.0	NM_001305937	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	49.5	66.0	31.5	767.5	116.0	48.0	29.5	52.5
Merged-chr5-110808222-4	chr5	110808137	110808337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347394, intron 3 of 27)	intron (NM_001347394, intron 3 of 27)	1844.0	NM_009469	22241.0	Mm.271898	NM_009469	ENSMUSG00000029512	Ulk1	AU041434|Unc51.1|mKIAA0722	unc-51 like kinase 1	protein-coding	105.0	148.5	62.0	1222.5	276.0	120.0	123.5	106.5
Merged-chr6-71235337-4	chr6	71235222	71235422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009762, intron 4 of 8)	intron (NM_009762, intron 4 of 8)	26959.0	NM_001160127	12180.0	Mm.234274	NM_009762	ENSMUSG00000055027	Smyd1	4632404M21Rik|Bop|C78565|Zmynd18	SET and MYND domain containing 1	protein-coding	23.5	19.0	34.0	678.5	55.0	7.5	20.0	36.0
Merged-chr16-13863642-4	chr16	13863517	13863717	+	772.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039533, intron 8 of 22)	intron (NM_001039533, intron 8 of 22)	39528.0	NM_001039533	94184.0	Mm.171484	NM_053181	ENSMUSG00000022680	Pdxdc1	2210010A19Rik|AA415817|Kiaa0251-hp	pyridoxal-dependent decarboxylase domain containing 1	protein-coding	13.5	5.0	14.5	194.0	25.0	9.5	12.5	15.0
Merged-chr8-4252296-3	chr8	4252148	4252348	+	601.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133968)	promoter-TSS (NM_133968)	-854.0	NM_133968	102209.0	Mm.28452	NM_133968	ENSMUSG00000011837	Snapc2	0610007H10Rik|AU015675	small nuclear RNA activating complex, polypeptide 2	protein-coding	9.5	14.5	6.0	99.5	10.5	6.5	11.5	6.5
Merged-chr12-99641132-4	chr12	99641005	99641205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13131.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	21.0	10.5	29.5	584.5	56.0	28.5	41.5	31.0
Merged-chr9-52168763-5	chr9	52168588	52168788	+	860.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162921)	promoter-TSS (NM_001162921)	-577.0	NM_001162921	244871.0	Mm.295686	NM_001162921	ENSMUSG00000035164	Zc3h12c	A230108E06|C230027N18Rik|mKIAA1726	zinc finger CCCH type containing 12C	protein-coding	6.0	13.0	6.0	111.0	8.0	7.0	4.0	2.5
Merged-chr10-120702038-4	chr10	120701944	120702144	+	906.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63688.0	NR_038000	70874.0	Mm.427286	NR_038000	ENSMUSG00000044544	4921513I03Rik	-	RIKEN cDNA 4921513I03 gene	ncRNA	15.5	11.5	7.0	139.5	33.0	6.0	18.5	12.5
Merged-chr17-26886234-4	chr17	26886124	26886324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-30867.0	NM_053173	16580.0	Mm.491138	NM_016761	ENSMUSG00000024301	Kifc5b	Hset|KNSL2|Kifc5a	kinesin family member C5B	protein-coding	37.0	96.0	30.5	681.5	137.5	32.5	44.0	32.5
Merged-chr4-102511123-4	chr4	102511042	102511242	+	947.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-58918.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	20.0	13.5	8.5	291.5	50.0	9.0	27.5	12.5
Merged-chr4-48585435-6	chr4	48585382	48585582	+	724.694458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001356272, exon 1 of 10)	exon (NM_001356272, exon 1 of 10)	308.0	NM_021436	230157.0	Mm.422686	NM_021436	ENSMUSG00000028347	Tmeff1	A830033E11|M7365|TR-1|Tr1	transmembrane protein with EGF-like and two follistatin-like domains 1	protein-coding	5.5	16.0	11.5	252.5	24.5	7.5	10.0	14.5
Merged-chr14-61681406-4	chr14	61681253	61681453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028264, intron 1 of 6)	intron (NR_028264, intron 1 of 6)	1020.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	100.0	227.0	102.5	1333.0	302.0	113.0	109.5	116.5
Merged-chr10-19551797-4	chr10	19551689	19551889	+	824.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40160.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	20.5	20.5	14.5	290.5	39.5	13.0	12.5	12.0
Merged-chr17-56274711-4	chr17	56274644	56274844	+	810.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174989, intron 1 of 1)	ID_B1|SINE|B4	2023.0	NM_174989	106759.0	Mm.203952	NM_174989	ENSMUSG00000047123	Ticam1	AW046014|AW547018|TICAM-1|TRIF	toll-like receptor adaptor molecule 1	protein-coding	6.5	13.0	8.5	70.5	38.0	12.5	12.5	7.0
Merged-chr11-62756965-4	chr11	62756859	62757059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-27866.0	NM_133208	170740.0	Mm.339982	NM_133208	ENSMUSG00000005267	Zfp287	B230333C16Rik|SKAT-2|Skat2|Znf287|mszf16|mszf74	zinc finger protein 287	protein-coding	53.0	82.0	56.5	841.5	98.5	35.0	51.0	48.5
Merged-chr11-118355339-4	chr11	118355238	118355438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011594)	promoter-TSS (NM_011594)	73.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	38.5	73.0	46.0	464.5	104.0	27.0	37.0	34.5
Merged-chr2-144337931-4	chr2	144337811	144338011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5831.0	NM_026924	107586.0	Mm.252750	NM_026924	ENSMUSG00000037279	Ovol2	1700108N11Rik|1810007D21Rik|M-OVO|M-OVO-A|M-OVO-B|MOVO|Ovo2|Zfp339|movo2	ovo like zinc finger 2	protein-coding	35.0	33.5	22.0	446.5	59.0	24.5	24.5	21.0
Merged-chr6-108570539-4	chr6	108570426	108570626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52641.0	NR_040757	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	66.0	56.0	77.0	1279.5	82.0	28.5	42.0	47.0
Merged-chr17-55945335-4	chr17	55945233	55945433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146249)	promoter-TSS (NM_146249)	-74.0	NM_146249	240120.0	Mm.441018	NM_146249	ENSMUSG00000062101	Zfp119b	-	zinc finger protein 119b	protein-coding	55.5	83.5	61.0	517.5	145.5	73.0	60.5	75.5
Merged-chr9-43239803-5	chr9	43239710	43239910	+	887.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178644)	promoter-TSS (NM_178644)	6.0	NM_178644	102644.0	Mm.246479	NM_178644	ENSMUSG00000032014	Oaf	AL024221|D130038B21Rik|D9Ucla1	out at first homolog	protein-coding	15.5	11.5	8.5	123.0	9.5	2.0	5.5	6.5
Merged-chr5-92444306-4	chr5	92444174	92444374	+	796.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007644, exon 12 of 12)	exon (NM_007644, exon 12 of 12)	-9075.0	NM_183392	269113.0	Mm.275289	NM_183392	ENSMUSG00000034826	Nup54	3110079L04Rik|54kDa	nucleoporin 54	protein-coding	7.0	5.5	7.0	123.0	12.0	3.5	8.5	7.5
Merged-chr9-113729161-4	chr9	113729050	113729250	+	835.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12323.0	NM_001286599	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	8.0	14.0	8.0	189.5	51.5	10.5	18.5	17.5
Merged-chr8-11452211-4	chr8	11452110	11452310	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25719.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	39.5	43.0	24.5	378.0	63.0	27.5	17.5	29.0
Merged-chr14-52133814-4	chr14	52133706	52133906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_023879, exon 10 of 25)	exon (NM_023879, exon 10 of 25)	22903.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	45.5	71.0	37.5	865.0	108.0	43.0	47.5	32.0
Merged-chr18-58660615-1	chr18	58660515	58660715	+	644.0	f1_balb.idr	intron (NM_025478, intron 1 of 4)	intron (NM_025478, intron 1 of 4)	1133.0	NM_025478	66307.0	Mm.182574	NM_025478	ENSMUSG00000024601	Isoc1	2610034N03Rik	isochorismatase domain containing 1	protein-coding	4.0	11.0	2.5	23.0	5.5	5.0	6.0	6.5
Merged-chr1-184590844-4	chr1	184590755	184590955	+	980.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33164.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	21.5	26.0	37.0	441.5	33.0	12.0	25.5	17.5
Merged-chr9-94691947-4	chr9	94691844	94692044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 2 of 15)	intron (NM_177909, intron 2 of 15)	22052.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	148.0	248.5	187.0	3111.0	426.0	132.5	212.0	182.0
Merged-chr17-78939194-4	chr17	78939094	78939294	+	950.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028611, intron 3 of 9)	intron (NM_028611, intron 3 of 9)	2059.0	NM_028611	73694.0	Mm.104959	NM_028611	ENSMUSG00000024082	Ndufaf7	2410091C18Rik|AL033374|PRO1853	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex assembly factor 7	protein-coding	13.0	16.0	8.0	335.5	174.5	97.0	94.0	73.5
Merged-chr2-3659698-3	chr2	3659580	3659780	+	637.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53778.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	7.0	10.0	8.0	60.0	18.5	8.5	5.5	7.0
Merged-chr11-80081170-4	chr11	80081119	80081319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277106)	promoter-TSS (NM_001277106)	-228.0	NM_018776	54394.0	Mm.272093	NM_018776	ENSMUSG00000017561	Crlf3	BB164954|Creme9|Cytor4	cytokine receptor-like factor 3	protein-coding	110.0	157.5	85.0	1944.5	302.5	103.5	126.5	110.0
Merged-chr1-191850334-3	chr1	191850242	191850442	+	919.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28869.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	11.5	7.5	9.5	325.5	38.0	3.0	3.0	8.0
Merged-chr2-32982141-4	chr2	32982033	32982233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019488)	promoter-TSS (NM_019488)	-50.0	NR_151460	56017.0	Mm.305754	NM_019488	ENSMUSG00000026791	Slc2a8	D2Ertd44e|GLUT8|GlutX1	solute carrier family 2, (facilitated glucose transporter), member 8	protein-coding	131.0	253.5	138.0	2407.0	361.0	126.5	187.0	172.5
Merged-chr17-72918280-4	chr17	72918193	72918393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029999)	promoter-TSS (NM_029999)	-12.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	141.0	227.0	132.5	1983.5	363.0	117.5	142.0	161.5
Merged-chr7-36697488-3	chr7	36697361	36697561	+	869.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172298)	promoter-TSS (NM_172298)	-657.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	5.0	10.5	1.0	60.0	30.0	11.0	11.5	8.0
Merged-chr6-26404061-3	chr6	26403973	26404173	+	798.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-int|LTR|ERVL	472647.0	NR_040771	626904.0	Mm.126787	NR_040771	ENSMUSG00000106799	Gm20756	-	predicted gene, 20756	ncRNA	11.5	15.5	10.0	323.0	18.0	7.5	6.0	12.0
Merged-chr5-137785747-2	chr5	137785647	137785847	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_144913, exon 1 of 4)	exon (NM_144913, exon 1 of 4)	954.0	NM_144913	231803.0	Mm.61193	NM_144913	ENSMUSG00000029726	Mepce	Bcdin3|D5Wsu46e	methylphosphate capping enzyme	protein-coding	13.0	30.5	9.5	115.5	30.0	10.0	5.0	17.0
Merged-chr8-117482478-4	chr8	117482374	117482574	+	963.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-15801.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	21.0	24.5	9.5	248.0	63.0	17.5	22.0	17.0
Merged-chr6-86600176-4	chr6	86600112	86600312	+	891.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27962.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	6.5	13.0	8.5	173.5	11.5	10.5	12.0	14.5
Merged-chr18-62972947-4	chr18	62972842	62973042	+	904.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4974.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	22.5	28.5	11.0	182.5	27.5	9.0	16.0	21.0
Merged-chr7-98311582-3	chr7	98311502	98311702	+	668.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360615, intron 1 of 10)	B4|SINE|B4	-2060.0	NM_025408	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	8.0	4.5	8.0	71.0	13.5	2.0	3.5	6.5
Merged-chr6-125219159-4	chr6	125219060	125219260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080557, intron 3 of 3)	intron (NM_001080557, intron 3 of 3)	3579.0	NM_009496	22317.0	Mm.32321	NM_009496	ENSMUSG00000030337	Vamp1	Syb-1|Syb1|VAMP-1|lew	vesicle-associated membrane protein 1	protein-coding	44.5	37.0	22.5	376.0	59.5	19.0	32.5	28.5
Merged-chr15-25364250-7	chr15	25364143	25364343	+	879.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027395, exon 2 of 2)	exon (NM_027395, exon 2 of 2)	49521.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	8.5	11.5	12.0	104.0	17.5	9.0	11.5	8.5
Merged-chr5-35362037-3	chr5	35361928	35362128	+	732.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_046060, exon 1 of 4)	non-coding (NR_046060, exon 1 of 4)	475.0	NR_046060	74429.0	Mm.399502	NR_046060	ENSMUSG00000106762	4930478P22Rik	4933405A14Rik	RIKEN cDNA 4930478P22 gene	ncRNA	0.0	2.5	3.0	85.0	26.5	4.5	7.0	19.5
Merged-chr13-111944315-4	chr13	111944223	111944423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76387.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	75.0	52.0	62.0	1036.0	93.5	30.5	40.5	45.0
Merged-chr11-11689095-4	chr11	11688995	11689195	+	968.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025597, intron 1 of 7)	intron (NM_001025597, intron 1 of 7)	-1082.0	NM_001301865	22778.0	Mm.103545	NM_009578	ENSMUSG00000018654	Ikzf1	5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227	IKAROS family zinc finger 1	protein-coding	30.0	24.0	24.0	437.5	42.5	9.5	19.5	16.0
Merged-chr1-191313362-2	chr1	191313284	191313484	+	933.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025424, intron 1 of 3)	intron (NM_025424, intron 1 of 3)	4734.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	6.0	9.5	5.5	59.0	16.5	2.0	5.0	11.0
Merged-chr7-132575841-4	chr7	132575734	132575934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016978, intron 1 of 9)	intron (NM_016978, intron 1 of 9)	564.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	164.5	278.0	142.5	2559.5	487.0	176.0	233.5	197.5
Merged-chr12-108627585-4	chr12	108627473	108627673	+	958.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163395, intron 1 of 12)	intron (NM_001163395, intron 1 of 12)	-8180.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	24.5	21.5	29.0	249.0	30.0	13.5	15.5	15.5
Merged-chr6-32588169-4	chr6	32588056	32588256	+	954.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175750)	promoter-TSS (NM_175750)	36.0	NM_175750	243743.0	Mm.444029	NM_175750	ENSMUSG00000029765	Plxna4	9330117B14|Plxa4|mKIAA1550	plexin A4	protein-coding	20.5	28.5	35.5	296.5	33.0	19.5	15.0	13.5
Merged-chr10-82866512-4	chr10	82866426	82866626	+	975.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025499)	promoter-TSS (NM_025499)	-100.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	9.5	17.5	20.5	324.5	49.0	14.0	41.0	31.0
Merged-chr9-111554788-4	chr9	111554680	111554880	+	975.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	115699.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	13.0	28.5	27.0	336.5	140.5	34.5	58.0	40.0
Merged-chr2-103569955-4	chr2	103569876	103570076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	3666.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	38.0	50.5	24.0	235.0	168.0	61.0	49.5	47.5
Merged-chr1-10038063-4	chr1	10037971	10038171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026493)	promoter-TSS (NM_026493)	88.0	NR_102282	26754.0	Mm.402384	NM_013715	ENSMUSG00000025917	Cops5	AI303502|CSN5|Jab1|Mov34|Sgn5	COP9 signalosome subunit 5	protein-coding	83.5	180.0	192.5	1484.0	190.5	62.0	75.5	111.5
Merged-chr6-123185049-4	chr6	123184951	123185151	+	719.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004159, intron 3 of 5)	Lx8|LINE|L1	12028.0	NM_001004159	381809.0	Mm.333372	NM_001004159	ENSMUSG00000067767	Clec4b2	Aplra1|F830043G12Rik|mDCAR1	C-type lectin domain family 4, member b2	protein-coding	5.0	11.5	12.0	88.5	22.0	3.0	11.5	3.0
Merged-chr11-119363763-4	chr11	119363663	119363863	+	858.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178743, intron 6 of 16)	intron (NM_178743, intron 6 of 16)	8206.0	NM_178743	268512.0	Mm.31869	NM_178743	ENSMUSG00000039908	Slc26a11	F630021I08Rik	solute carrier family 26, member 11	protein-coding	9.5	17.0	11.5	82.5	26.5	9.5	8.0	7.0
Merged-chr10-29361367-4	chr10	29361263	29361463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110198, intron 1 of 3)	(A)n|Simple_repeat|Simple_repeat	1079.0	NM_026518	68031.0	Mm.28930	NM_026518	ENSMUSG00000038876	Rnf146	2610509H23Rik|Iduna	ring finger protein 146	protein-coding	78.5	95.5	75.5	1038.5	211.0	73.0	90.5	79.5
Merged-chr3-153406398-4	chr3	153406315	153406515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	-107766.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	54.0	76.5	92.0	1536.5	109.0	41.5	65.5	61.0
Merged-chr13-101694791-3	chr13	101694676	101694876	+	908.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 7 of 15)	intron (NM_001077495, intron 7 of 15)	-2146.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	2.5	7.5	4.5	95.0	14.0	7.0	6.5	7.5
Merged-chr11-109621369-3	chr11	109621263	109621463	+	682.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9974.0	NM_145940	52639.0	Mm.35817	NM_145940	ENSMUSG00000041895	Wipi1	4930533H01Rik|AW411817|D11Ertd498e	WD repeat domain, phosphoinositide interacting 1	protein-coding	6.5	11.5	5.5	87.0	14.5	2.5	5.5	7.5
Merged-chr2-174343696-4	chr2	174343551	174343751	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077507, intron 5 of 10)	intron (NM_001077507, intron 5 of 10)	13562.0	NM_001077510	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	22.5	16.0	10.5	310.5	50.0	16.5	22.5	22.5
Merged-chr11-79527098-4	chr11	79527002	79527202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033711, exon 2 of 2)	3' UTR (NM_001033711, exon 2 of 2)	-3340.0	NM_001077496	216984.0	Mm.439665	NM_001077496	ENSMUSG00000093938	Evi2b	Evi-2|Evi2	ecotropic viral integration site 2b	protein-coding	84.0	132.0	91.0	1328.5	165.0	69.5	53.0	75.0
Merged-chr3-121693477-4	chr3	121693388	121693588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22725.0	NM_001033814	619318.0	Mm.371258	NM_001033814	ENSMUSG00000074248	4930432M17Rik	-	RIKEN cDNA 4930432M17 gene	protein-coding	48.5	42.5	46.5	751.0	111.5	44.0	41.0	34.5
Merged-chr15-59004273-4	chr15	59004173	59004373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	70463.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	46.0	68.5	36.5	1009.0	72.5	23.0	36.5	50.0
Merged-chr3-87349897-4	chr3	87349807	87350007	+	984.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-7974.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	6.0	15.5	33.5	368.5	36.5	15.5	22.5	26.5
Merged-chr4-141623948-4	chr4	141623831	141624031	+	979.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013780)	promoter-TSS (NM_001013780)	-97.0	NM_001013780	384071.0	Mm.295682	NM_001013780	ENSMUSG00000040740	Slc25a34	Gm1369	solute carrier family 25, member 34	protein-coding	31.5	14.0	23.0	310.5	44.0	17.0	19.5	27.0
Merged-chr13-75845403-4	chr13	75845323	75845523	+	883.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053108, intron 1 of 2)	intron (NM_053108, intron 1 of 2)	5537.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	20.5	16.0	11.5	206.0	45.5	4.0	13.0	6.0
Merged-chr10-127421710-4	chr10	127421608	127421808	+	948.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359246, intron 1 of 23)	intron (NM_001359246, intron 1 of 23)	841.0	NM_001359243	71750.0	Mm.29342	NM_027900	ENSMUSG00000025404	R3hdm2	1300003K24Rik|AU041262|mKIAA1002	R3H domain containing 2	protein-coding	9.5	29.0	6.5	269.5	47.5	20.0	19.0	14.5
Merged-chr11-89977969-2	chr11	89977836	89978036	+	810.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	24958.0	NM_008796	18559.0	Mm.5062	NM_008796	ENSMUSG00000020553	Pctp	PC-TP|StarD2	phosphatidylcholine transfer protein	protein-coding	2.0	0.0	1.0	29.0	11.5	6.0	9.0	11.0
Merged-chr11-63129659-4	chr11	63129549	63129749	+	972.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302261, intron 1 of 3)	intron (NM_001302261, intron 1 of 3)	667.0	NM_001302261	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	19.0	23.5	26.5	397.5	36.5	11.5	32.5	26.0
Merged-chr10-80960985-4	chr10	80960871	80961071	+	852.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	30880.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	6.5	18.5	13.5	204.0	27.5	11.5	15.0	17.0
Merged-chr15-57762381-4	chr15	57762274	57762474	+	871.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 1 of 3)	intron (NM_199449, intron 1 of 3)	67707.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	12.0	10.5	8.0	140.0	24.0	3.5	8.0	15.0
Merged-chr19-5816125-4	chr19	5816023	5816223	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13451.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	99.0	70.5	47.0	996.0	125.5	60.0	38.0	59.0
Merged-chr12-12268283-3	chr12	12268166	12268366	+	727.133362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146119, intron 1 of 11)	intron (NM_001146119, intron 1 of 11)	6127.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	9.0	7.5	11.0	95.0	20.0	4.5	3.5	2.0
Merged-chr10-24142960-4	chr10	24142876	24143076	+	938.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6313.0	NM_001358563	53331.0	Mm.248042	NM_016797	ENSMUSG00000019998	Stx7	AI315064|AI317144|AW107239|Syn7	syntaxin 7	protein-coding	19.0	16.5	19.5	230.0	51.5	5.0	14.5	16.5
Merged-chr3-51183730-4	chr3	51183624	51183824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-40723.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	64.5	61.0	73.5	1023.0	142.0	47.0	83.5	72.0
Merged-chr15-84979478-4	chr15	84979367	84979567	+	927.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	8504.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	13.5	13.5	16.5	249.5	33.0	13.5	22.5	15.5
Merged-chr7-139296778-4	chr7	139296676	139296876	+	887.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48294.0	NM_001098636	101631.0	Mm.334300	NM_001033206	ENSMUSG00000060260	Pwwp2b	AI594893|D7Ertd517e|D930023J19Rik|Pwwp2	PWWP domain containing 2B	protein-coding	12.0	11.5	7.5	260.0	24.0	7.5	20.5	25.5
Merged-chr13-46134818-3	chr13	46134721	46134921	+	976.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138900.0	NM_001005422	380842.0	Mm.188108	NM_001005422	ENSMUSG00000063529	Stmnd1	Gm1574	stathmin domain containing 1	protein-coding	14.5	44.0	18.0	228.5	5.0	0.0	0.0	0.0
Merged-chr15-59392180-3	chr15	59392019	59392219	+	983.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	17921.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	10.5	6.0	17.5	225.5	12.0	8.0	7.5	8.5
Merged-chr1-193060331-4	chr1	193060253	193060453	+	761.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-24578.0	NM_181546	329324.0	Mm.76710	NM_181546	ENSMUSG00000016200	Syt14	B230320I09Rik|sytXIV	synaptotagmin XIV	protein-coding	4.5	14.0	8.0	253.0	5.0	8.0	12.0	17.5
Merged-chr5-77460028-4	chr5	77459914	77460114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5474.0	NR_131050	69370.0	Mm.426881	NR_131050	ENSMUSG00000107232	1700017L05Rik	-	RIKEN cDNA 1700017L05 gene	ncRNA	49.5	80.5	37.0	752.0	126.0	49.5	49.0	45.5
Merged-chr13-24519188-3	chr13	24519086	24519286	+	911.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63003.0	NM_001286100	193385.0	Mm.217319	NM_029679	ENSMUSG00000036006	Ripor2	Fam65b	RHO family interacting cell polarization regulator 2	protein-coding	6.0	21.5	13.5	228.5	36.5	6.5	7.5	8.5
Merged-chr12-55415910-3	chr12	55415805	55416005	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 6 of 6)	intron (NM_001310583, intron 6 of 6)	17080.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	15.5	28.5	21.5	306.5	22.0	5.5	14.0	7.5
Merged-chr11-97408342-5	chr11	97408219	97408419	+	819.806702	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41841.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	7.5	10.5	4.0	68.5	17.0	8.5	4.5	6.5
Merged-chr2-180725250-4	chr2	180725158	180725358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183161)	promoter-TSS (NM_183161)	-81.0	NM_183161	228993.0	Mm.87189	NM_183161	ENSMUSG00000023393	Slc17a9	1700019H03Rik|BC019537|Vnut	solute carrier family 17, member 9	protein-coding	65.5	76.5	54.0	1174.0	110.5	45.0	54.0	43.0
Merged-chr15-82147141-4	chr15	82147053	82147253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033218)	promoter-TSS (NM_033218)	-116.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	184.0	343.0	196.0	2453.0	536.5	238.0	233.0	206.0
Merged-chr17-35896844-3	chr17	35896778	35896978	+	790.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001142744)	TTS (NM_001142744)	500.0	NM_001033630	69662.0	Mm.260159	NM_001033630	ENSMUSG00000050705	2310061I04Rik	-	RIKEN cDNA 2310061I04 gene	protein-coding	7.5	11.5	2.0	122.5	44.0	7.0	9.0	5.5
Merged-chr17-34850304-4	chr17	34850208	34850408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045864)	promoter-TSS (NM_001045864)	-83.0	NM_138580	27632.0	Mm.653	NM_138580	ENSMUSG00000024369	Nelfe	D17H6S45|NELF-E|RD|Rdbp	negative elongation factor complex member E, Rdbp	protein-coding	225.5	345.5	125.0	2259.5	426.5	174.0	166.0	151.0
Merged-chr16-8862483-4	chr16	8862374	8862574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32374.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	46.0	42.5	26.5	498.0	51.0	24.5	20.0	25.5
Merged-chr1-78607967-4	chr1	78607882	78608082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-49843.0	NM_001136222	74205.0	Mm.276016	NM_028817	ENSMUSG00000032883	Acsl3	2610510B12Rik|Acs3|C85929|Facl3|Pro2194	acyl-CoA synthetase long-chain family member 3	protein-coding	54.0	43.0	55.0	691.0	87.0	31.5	36.5	38.5
Merged-chr16-31932967-4	chr16	31932865	31933065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172822)	promoter-TSS (NM_172822)	-886.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	95.0	163.5	94.0	1195.0	285.5	81.5	107.5	77.5
Merged-chr12-35021513-4	chr12	35021363	35021563	+	827.55835	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25726.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	23.5	11.5	14.5	262.5	2.5	3.0	3.0	2.5
Merged-chr5-134458871-4	chr5	134458778	134458978	+	964.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2162.0	NM_001081464	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	13.5	31.5	19.5	477.0	39.5	15.0	15.5	16.5
Merged-chr11-61774962-4	chr11	61774871	61775071	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013881)	TTS (NM_013881)	-12883.0	NM_001164243	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	21.5	25.0	17.0	296.0	42.0	23.5	22.0	18.0
Merged-chr13-117034890-4	chr13	117034804	117035004	+	635.866699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9388.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	14.0	16.5	8.5	73.5	32.0	4.0	11.5	5.5
Merged-chr11-86658041-4	chr11	86657940	86658140	+	901.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356531, intron 5 of 11)	B3|SINE|B2	13235.0	NM_001356531	75909.0	Mm.390398	NM_029478	ENSMUSG00000018171	Vmp1	3110098I04Rik|4930579A11Rik|AI787464|Tango5|Tmem49|mir-21a|ni-2	vacuole membrane protein 1	protein-coding	4.5	17.0	15.5	170.0	19.5	13.5	11.5	9.5
Merged-chr4-35156313-4	chr4	35156224	35156424	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	1160.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	24.0	44.0	42.5	445.0	55.5	22.5	18.5	10.0
Merged-chr5-63969828-3	chr5	63969749	63969949	+	750.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145923)	promoter-TSS (NM_145923)	-952.0	NM_145923	100532.0	Mm.243632	NM_145923	ENSMUSG00000047881	Rell1	AA536743	RELT-like 1	protein-coding	14.5	4.0	1.0	27.5	14.5	5.5	12.5	10.5
Merged-chr18-4350714-5	chr18	4350514	4350714	+	828.357117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 1 of 7)	intron (NM_007746, intron 1 of 7)	2339.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	7.0	15.0	7.5	54.0	21.5	6.0	6.0	11.5
Merged-chr10-42903266-3	chr10	42903145	42903345	+	803.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359265, intron 1 of 6)	intron (NM_001359265, intron 1 of 6)	42733.0	NM_001359264	268297.0	Mm.98731	NM_172938	ENSMUSG00000044770	Scml4	9330161D17|mFLJ00197	Scm polycomb group protein like 4	protein-coding	7.0	10.5	13.0	149.0	9.0	1.0	10.5	6.5
Merged-chr13-45000994-4	chr13	45000888	45001088	+	910.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 1 of 9)	intron (NM_025772, intron 1 of 9)	1108.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	17.0	18.0	13.5	153.5	47.0	6.0	10.0	8.0
Merged-chr17-34397476-2	chr17	34397376	34397576	+	765.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1344.0	NM_001001177	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	10.0	14.0	7.5	87.0	2.0	2.0	2.5	1.0
Merged-chr17-8232260-3	chr17	8232168	8232368	+	830.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3775.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	16.0	13.5	6.5	157.5	5.5	3.0	10.5	7.5
Merged-chr6-51520871-4	chr6	51520758	51520958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	-3045.0	NM_001361582	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	46.5	77.5	65.0	314.0	90.5	34.5	39.5	39.5
Merged-chr6-113039801-1	chr6	113039701	113039901	+	782.0	f0_balb.idr	Intergenic	RLTR1B|LTR|ERV1	-6501.0	NM_001355266	14911.0	Mm.781	NM_008188	ENSMUSG00000030264	Thumpd3	AW556087|Gt(ROSA)26asSor|Gtrosa26as	THUMP domain containing 3	protein-coding	5.0	1.0	11.0	108.5	16.5	7.5	9.0	4.5
Merged-chr10-121369044-4	chr10	121368927	121369127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	intron (NM_029364, intron 1 of 13)	3937.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	37.0	48.5	54.0	698.5	75.5	26.0	31.0	24.0
Merged-chr3-84814437-4	chr3	84814359	84814559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1118.0	NM_001177773	50754.0	Mm.196475	NM_080428	ENSMUSG00000028086	Fbxw7	1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10	F-box and WD-40 domain protein 7	protein-coding	212.5	461.0	329.5	4029.5	729.0	318.0	378.0	343.0
Merged-chr3-90072486-4	chr3	90072411	90072611	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293748)	promoter-TSS (NM_001293748)	-140.0	NM_001293748	59069.0	Mm.240839	NM_022314	ENSMUSG00000027940	Tpm3	TM30nm|TMnm|Tm5NM|Tpm-5|Tpm5|Trop-5|gamma-TM|hTM30nm|hTMnm	tropomyosin 3, gamma	protein-coding	14.0	35.0	29.5	459.5	51.5	17.5	27.5	32.5
Merged-chr3-121721872-4	chr3	121721774	121721974	+	939.4249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1663.0	NM_010171	14066.0	Mm.273188	NM_010171	ENSMUSG00000028128	F3	AA409063|CD142|Cf-3|Cf3|TF	coagulation factor III	protein-coding	11.0	20.0	11.5	167.0	42.0	29.5	17.5	22.0
Merged-chr6-39241780-4	chr6	39241651	39241851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34978.0	NM_001033430	338523.0	Mm.293175	NM_001033430	ENSMUSG00000042599	Kdm7a	A630082K20Rik|BB041802|Jhdm1d|mKIAA1718	lysine (K)-specific demethylase 7A	protein-coding	37.5	33.0	39.0	952.0	95.0	23.5	33.5	59.5
Merged-chr1-13206995-3	chr1	13206865	13207065	+	940.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008678, intron 4 of 22)	intron (NM_008678, intron 4 of 22)	-79802.0	NM_001081209	383491.0	Mm.309380	NM_001081209	ENSMUSG00000042414	Prdm14	-	PR domain containing 14	protein-coding	10.0	8.5	9.0	113.5	5.0	1.5	2.5	1.5
Merged-chr8-117241266-4	chr8	117241175	117241375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1C|LTR|ERVL-MaLR	-15744.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	25.5	40.5	24.0	498.0	59.5	37.0	44.0	37.5
Merged-chr15-59481919-3	chr15	59481817	59482017	+	965.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	intron (NM_026746, intron 4 of 6)	107719.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	25.5	36.0	17.0	166.5	7.0	4.0	2.5	3.5
Merged-chr13-30949412-4	chr13	30949302	30949502	+	930.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360093, intron 1 of 28)	intron (NM_001360093, intron 1 of 28)	896.0	NM_001360093	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	14.5	10.0	15.0	214.5	30.0	6.5	14.5	22.5
Merged-chr7-24316737-4	chr7	24316627	24316827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199321)	promoter-TSS (NM_001199321)	-61.0	NM_001199321	22756.0	Mm.295762	NM_009568	ENSMUSG00000074282	Zfp94	-	zinc finger protein 94	protein-coding	105.0	125.5	90.5	1926.5	273.5	99.5	146.5	124.0
Merged-chr9-95512031-4	chr9	95511939	95512139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001114977)	promoter-TSS (NM_001114977)	-43.0	NM_001357974	67958.0	Mm.292742	NM_026476	ENSMUSG00000032407	U2surp	2610101N10Rik|AU023006|Sr140	U2 snRNP-associated SURP domain containing	protein-coding	174.5	343.5	229.0	2175.0	580.5	244.0	190.0	188.5
Merged-chr19-6061204-4	chr19	6061149	6061349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013859)	promoter-TSS (NM_013859)	42.0	NM_013859	29805.0	Mm.2310	NM_013859	ENSMUSG00000075227	Znhit2	C11orf5|Fon|ORF6|Znhit2-ps	zinc finger, HIT domain containing 2	protein-coding	50.5	95.5	47.0	582.0	137.0	62.0	40.5	48.0
Merged-chr4-135182050-4	chr4	135181973	135182173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61428.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	44.0	117.0	112.0	940.0	101.0	61.5	49.5	85.0
Merged-chr15-102065858-4	chr15	102065763	102065963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7910.0	NM_145625	75705.0	Mm.290022	NM_145625	ENSMUSG00000058655	Eif4b	2310046H11Rik|AL024095|C85189|Eif4a2	eukaryotic translation initiation factor 4B	protein-coding	34.5	41.0	39.5	546.5	129.5	24.5	32.5	39.0
Merged-chr2-52993408-4	chr2	52993318	52993518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	135550.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	77.0	77.0	70.5	1063.0	122.0	37.0	61.5	40.0
Merged-chr6-87743115-4	chr6	87743027	87743227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159697, intron 2 of 7)	intron (NM_001159697, intron 2 of 7)	12258.0	NM_001159697	58229.0	Mm.333229	NM_021418	ENSMUSG00000068263	Efcc1	Ccdc48	EF hand and coiled-coil domain containing 1	protein-coding	71.5	126.0	81.5	1279.5	238.0	65.5	69.5	104.0
Merged-chr4-141425877-3	chr4	141425790	141425990	+	729.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013868)	TTS (NM_013868)	5111.0	NM_013868	29818.0	Mm.46181	NM_013868	ENSMUSG00000006221	Hspb7	27kDa|Hsp25-2|cvHsp	heat shock protein family, member 7 (cardiovascular)	protein-coding	2.0	8.5	5.5	70.0	9.0	7.5	10.5	12.5
Merged-chr8-104108073-5	chr8	104107989	104108189	+	783.82666	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 1 of 11)	(GA)n|Simple_repeat|Simple_repeat	-2216.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	8.5	12.0	7.5	72.0	29.0	3.5	10.5	3.5
Merged-chr10-80747589-4	chr10	80747493	80747693	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5318.0	NM_007460	11776.0	Mm.27082	NM_007460	ENSMUSG00000020198	Ap3d1	AA407035|Ap3d|Bolvr|mBLVR1|mh|mocha	adaptor-related protein complex 3, delta 1 subunit	protein-coding	28.0	35.0	8.5	147.5	35.0	8.5	17.5	13.0
Merged-chr2-27757715-3	chr2	27757624	27757824	+	883.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 8 of 9)	intron (NM_001290481, intron 8 of 9)	47141.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	7.0	9.5	6.5	66.0	8.0	4.0	7.0	8.5
Merged-chr17-35046839-4	chr17	35046717	35046917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146215)	promoter-TSS (NM_001146215)	-72.0	NM_001146215	17687.0	Mm.24192	NM_013600	ENSMUSG00000007035	Msh5	Mut5	mutS homolog 5	protein-coding	129.5	199.5	113.5	1574.0	388.0	152.5	176.0	161.5
Merged-chr5-96921723-4	chr5	96921627	96921827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131152, intron 1 of 2)	intron (NR_131152, intron 1 of 2)	455.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	21.0	28.5	30.5	358.0	68.0	27.5	32.5	27.5
Merged-chr10-71306376-3	chr10	71306278	71306478	+	858.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-4367.0	NR_152791	102637684.0	Mm.338906	NR_152791	ENSMUSG00000093732	Gm20609	-	predicted gene 20609	ncRNA	10.5	7.5	10.0	91.0	37.5	6.5	11.5	10.5
Merged-chr4-57953046-4	chr4	57952964	57953164	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 1 of 4)	intron (NM_011660, intron 1 of 4)	3347.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	22.0	54.0	5.0	139.0	63.0	39.5	21.5	26.0
Merged-chr7-107566012-3	chr7	107565905	107566105	+	630.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-1428.0	NM_172907	244198.0	Mm.77425	NM_172907	ENSMUSG00000051041	Olfml1	6720478C22|AV321997|BC047207|MVAL564|ONT2|mONT2	olfactomedin-like 1	protein-coding	5.5	11.5	7.5	89.5	12.5	1.5	7.0	3.5
Merged-chr15-102462077-3	chr15	102461970	102462170	+	619.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025385, intron 4 of 4)	intron (NM_025385, intron 4 of 4)	2900.0	NM_025385	66151.0	Mm.393955	NM_025385	ENSMUSG00000023048	Prr13	1110020C13Rik|2010324E22Rik	proline rich 13	protein-coding	6.0	8.0	8.0	55.5	3.0	5.0	9.0	6.5
Merged-chr6-31563987-3	chr6	31563886	31564086	+	819.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013723)	promoter-TSS (NM_013723)	-49.0	NM_013723	27205.0	Mm.89918	NM_013723	ENSMUSG00000025608	Podxl	AW121214|Ly102|PC|PCLP-1|Pclp1|Podxl1	podocalyxin-like	protein-coding	14.5	12.0	9.5	124.0	15.0	7.5	6.5	12.0
Merged-chr1-65179231-4	chr1	65179136	65179336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010497)	promoter-TSS (NM_010497)	-94.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	145.0	193.5	146.5	2103.5	335.5	131.0	175.0	137.0
Merged-chr11-95712170-4	chr11	95712024	95712224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045780, intron 1 of 1)	intron (NR_045780, intron 1 of 1)	630.0	NR_045780	432396.0	Mm.426849	NR_045780	ENSMUSG00000086191	Zfp652os	1110035M17Rik	zinc finger protein 652, opposite strand	ncRNA	24.0	35.5	13.0	449.0	85.0	25.5	34.0	31.5
Merged-chr16-78217883-4	chr16	78217806	78218006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37548.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	65.0	106.5	69.0	1013.0	192.5	53.5	74.5	46.5
Merged-chr6-145767186-3	chr6	145767107	145767307	+	945.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41176.0	NM_027760	71323.0	Mm.158669	NM_027760	ENSMUSG00000030259	Rassf8	5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1	Ras association (RalGDS/AF-6) domain family (N-terminal) member 8	protein-coding	9.5	6.0	20.5	336.5	9.0	6.5	7.0	9.0
Merged-chr13-34229078-4	chr13	34228990	34229190	+	891.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 3 of 10)	intron (NM_001033167, intron 3 of 10)	66126.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	25.0	31.0	27.0	425.0	24.5	20.0	19.0	15.5
Merged-chr9-96526182-4	chr9	96526076	96526276	+	731.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-47501.0	NM_001311135	19823.0	Mm.28235	NM_011279	ENSMUSG00000051234	Rnf7	Rbx2|SAG	ring finger protein 7	protein-coding	7.0	9.5	4.0	88.5	26.5	7.5	13.0	14.5
Merged-chr16-58453121-3	chr16	58453039	58453239	+	994.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356484, intron 9 of 15)	intron (NM_001356484, intron 9 of 15)	44604.0	NM_028523	73379.0	Mm.373589	NM_028523	ENSMUSG00000035107	Dcbld2	1700055P21Rik|AW146002|CLCP1|Esdn	discoidin, CUB and LCCL domain containing 2	protein-coding	23.0	38.0	77.0	928.0	14.5	0.5	12.5	6.5
Merged-chr4-136132812-3	chr4	136132749	136132949	+	712.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-10973.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	2.0	10.0	2.0	38.5	19.5	9.0	8.5	13.5
Merged-chr17-43568514-4	chr17	43568440	43568640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013737)	promoter-TSS (NM_013737)	89.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	62.0	85.0	60.0	488.0	71.5	47.0	32.0	25.0
Merged-chr1-167337929-4	chr1	167337858	167338058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12033.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	88.5	134.0	105.5	1830.0	236.0	59.5	88.0	122.0
Merged-chr7-16950318-4	chr7	16950240	16950440	+	878.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5658.0	NM_001099636	434128.0	Mm.483018	NM_001099636	ENSMUSG00000070802	Pnmal2	EG434128	PNMA-like 2	protein-coding	12.0	13.0	16.0	164.5	26.5	5.5	21.0	19.0
Merged-chr5-39820222-3	chr5	39820137	39820337	+	927.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-175606.0	NM_010474	15476.0	Mm.12559	NM_010474	ENSMUSG00000051022	Hs3st1	3-Ost|D5Wsu110e|Hsg3ost	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	protein-coding	6.0	2.5	9.0	150.5	11.0	5.5	13.0	10.5
Merged-chr9-98956839-2	chr9	98956739	98956939	+	802.833313	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_012020, exon 1 of 1)	3' UTR (NM_012020, exon 1 of 1)	1232.0	NM_012020	26927.0	Mm.151239	NM_012020	ENSMUSG00000050397	Foxl2	AU045128|BPES|PINTO|Pfrk	forkhead box L2	protein-coding	6.5	1.5	8.0	85.5	7.0	8.0	6.5	6.0
Merged-chr19-10025710-4	chr19	10025625	10025825	+	976.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153790, intron 1 of 10)	intron (NR_153790, intron 1 of 10)	7531.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	26.0	22.5	26.5	456.5	59.0	15.5	28.0	39.0
Merged-chr2-120663911-4	chr2	120663798	120663998	+	931.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54303.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	25.0	20.0	30.0	405.0	37.5	10.0	11.0	18.5
Merged-chr9-114957181-4	chr9	114957084	114957284	+	852.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23197.0	NM_175380	333433.0	Mm.38198	NM_175380	ENSMUSG00000050627	Gpd1l	2210409H23Rik|D9Ertd660e	glycerol-3-phosphate dehydrogenase 1-like	protein-coding	9.0	11.5	1.5	131.0	41.0	11.0	16.0	5.0
Merged-chr5-99283756-3	chr5	99283617	99283817	+	614.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30790.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	6.0	6.0	4.5	21.5	3.5	3.5	2.0	7.0
Merged-chr10-7052891-4	chr10	7052787	7052987	+	949.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29702.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	36.5	25.0	55.5	753.5	30.0	14.0	28.0	19.0
Merged-chr7-135581300-3	chr7	135581195	135581395	+	799.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316678, intron 1 of 19)	intron (NM_001316678, intron 1 of 19)	-12186.0	NM_001316680	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	13.0	21.0	15.0	213.0	9.5	4.0	1.0	3.0
Merged-chr1-132316835-5	chr1	132316670	132316870	+	933.4400019999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195025, intron 1 of 7)	intron (NM_001195025, intron 1 of 7)	645.0	NM_028778	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	11.0	20.5	13.5	127.0	36.0	10.5	12.5	23.5
Merged-chr6-31253371-4	chr6	31253276	31253476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040257, intron 2 of 7)	intron (NR_040257, intron 2 of 7)	33025.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	30.0	68.5	20.5	219.0	99.5	31.0	26.5	24.0
Merged-chr4-105157473-5	chr4	105157331	105157531	+	891.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080555)	promoter-TSS (NM_080555)	84.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	15.0	7.0	10.0	229.5	34.5	8.5	19.0	11.0
Merged-chr11-96775890-4	chr11	96775809	96776009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028965, intron 2 of 8)	intron (NM_028965, intron 2 of 8)	1646.0	NM_028965	74479.0	Mm.270781	NM_028965	ENSMUSG00000020876	Snx11	4933439F10Rik|A930041K09Rik|AI117694	sorting nexin 11	protein-coding	32.5	43.0	33.0	406.5	79.5	28.5	21.0	20.5
Merged-chr3-22076149-4	chr3	22076071	22076271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030732)	promoter-TSS (NM_030732)	-481.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	78.5	102.5	66.5	964.0	195.5	73.5	86.0	99.0
Merged-chr8-13602727-2	chr8	13602597	13602797	+	957.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 4 of 23)	intron (NM_009025, intron 4 of 23)	-40236.0	NM_001080781	66501.0	Mm.46136	NM_025601	ENSMUSG00000031452	1700029H14Rik	-	RIKEN cDNA 1700029H14 gene	protein-coding	3.0	4.0	8.5	16.5	14.5	4.5	5.5	6.0
Merged-chr15-83442651-4	chr15	83442569	83442769	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	intron (NM_001358643, intron 1 of 9)	5211.0	NM_001358644	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	27.0	40.0	29.0	657.0	60.5	15.5	30.0	20.0
Merged-chr4-62322863-4	chr4	62322759	62322959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355385, intron 17 of 27)	ORR1E|LTR|ERVL-MaLR	31312.0	NM_001290518	20530.0	Mm.292539	NM_025286	ENSMUSG00000066152	Slc31a2	AI604396|CTR2	solute carrier family 31, member 2	protein-coding	46.0	71.0	35.0	830.5	106.5	43.0	73.0	34.5
Merged-chr4-53227926-4	chr4	53227794	53227994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18302.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	166.5	232.0	158.5	2116.5	338.5	141.0	163.0	164.0
Merged-chr1-131560863-7	chr1	131560783	131560983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	32980.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	24.0	40.0	13.0	297.0	31.5	18.0	11.0	15.0
Merged-chr17-69079523-4	chr17	69079418	69079618	+	963.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355732, intron 1 of 21)	intron (NM_001355732, intron 1 of 21)	3841.0	NM_001355732	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	24.0	49.0	18.0	319.5	64.0	20.5	23.5	15.0
Merged-chr11-86840711-3	chr11	86840623	86840823	+	923.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33063.0	NM_026191	67487.0	Mm.260627	NM_026191	ENSMUSG00000018425	Dhx40	2410016C14Rik|ARG147|DDX40|PAD	DEAH (Asp-Glu-Ala-His) box polypeptide 40	protein-coding	8.5	11.5	13.0	214.0	13.5	6.0	19.0	10.0
Merged-chr3-107036105-4	chr3	107036024	107036224	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008418)	promoter-TSS (NM_008418)	-38.0	NM_008418	16491.0	Mm.30640	NM_008418	ENSMUSG00000047959	Kcna3	Kca1-3|Kv1.3|Mk-3	potassium voltage-gated channel, shaker-related subfamily, member 3	protein-coding	21.0	11.0	17.5	211.5	26.0	10.5	13.5	9.5
Merged-chr6-67060241-3	chr6	67060152	67060352	+	860.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 1 of 6)	intron (NR_040278, intron 1 of 6)	-22845.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	8.0	14.5	10.5	115.5	22.5	10.0	12.5	8.0
Merged-chr7-68094000-3	chr7	68093907	68094107	+	834.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	141750.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	5.0	8.5	9.5	190.0	10.5	3.0	6.5	6.5
Merged-chr1-131937866-4	chr1	131937788	131937988	+	964.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25027.0	NM_001177628	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	13.0	22.0	9.0	279.5	49.0	16.5	11.0	19.0
Merged-chr19-34043304-4	chr19	34043217	34043417	+	709.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172837, intron 9 of 9)	MIRb|SINE|MIR	-24041.0	NM_027340	70166.0	Mm.75602	NM_027340	ENSMUSG00000024770	Lipn	2210418G03Rik|Lipl4	lipase, family member N	protein-coding	16.5	12.5	10.5	62.5	21.5	13.0	11.5	7.0
Merged-chr15-84891870-3	chr15	84891781	84891981	+	691.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-31547.0	NM_016714	18141.0	Mm.28379	NM_016714	ENSMUSG00000016619	Nup50	1700030K07Rik|AI413123|Npap60	nucleoporin 50	protein-coding	12.5	15.5	3.5	85.5	27.5	6.5	6.5	6.5
Merged-chr11-53898403-4	chr11	53898316	53898516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA6|LINE|L1	-6713.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	32.5	34.5	18.0	280.0	69.0	20.0	24.0	21.5
Merged-chr8-104239738-4	chr8	104239625	104239825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045642, intron 4 of 8)	PB1D10|SINE|Alu	8833.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	101.0	159.0	106.5	2150.0	307.5	88.0	123.0	128.5
Merged-chr7-97356930-4	chr7	97356821	97357021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14696.0	NM_199035	381903.0	Mm.279683	NM_199035	ENSMUSG00000035704	Alg8	AI447372|Gm1089	asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase)	protein-coding	52.0	80.0	51.0	985.0	115.0	36.0	63.5	55.5
Merged-chr16-76309344-4	chr16	76309242	76309442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358238, intron 3 of 3)	intron (NM_001358238, intron 3 of 3)	63707.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	26.5	32.5	42.5	767.5	49.0	6.5	20.0	26.0
Merged-chr4-108328275-4	chr4	108328168	108328368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027250, exon 1 of 3)	exon (NM_027250, exon 1 of 3)	116.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	96.5	161.5	136.5	1256.0	188.0	110.0	84.0	105.0
Merged-chr8-91051807-4	chr8	91051728	91051928	+	664.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310530, exon 38 of 38)	exon (NM_001310530, exon 38 of 38)	-18229.0	NM_001282001	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	6.0	10.0	6.5	129.0	28.0	4.0	11.0	5.5
Merged-chr15-101160150-4	chr15	101160008	101160208	+	824.1875	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13964.0	NM_007395	11479.0	Mm.308467	NM_007395	ENSMUSG00000000532	Acvr1b	6820432J04|ALK-4|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2	activin A receptor, type 1B	protein-coding	3.0	2.0	1.5	15.0	11.0	7.5	7.0	9.5
Merged-chr13-3779965-4	chr13	3779860	3780060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	24358.0	NM_027416	70405.0	Mm.20079	NM_027416	ENSMUSG00000063130	Calml3	2310068O22Rik|AI326174	calmodulin-like 3	protein-coding	72.0	63.0	55.0	1059.5	114.5	55.0	51.0	37.0
Merged-chr8-114439547-4	chr8	114439456	114439656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019573)	promoter-TSS (NM_019573)	-96.0	NM_019573	80707.0	Mm.440420	NM_019573	ENSMUSG00000004637	Wwox	5330426P09Rik|9030416C10Rik|WOX1	WW domain-containing oxidoreductase	protein-coding	241.5	422.5	342.5	3880.5	726.0	317.5	339.5	248.5
Merged-chr19-41987192-4	chr19	41987106	41987306	+	734.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	intron (NM_145500, intron 1 of 2)	5443.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	7.0	11.0	4.5	142.5	22.0	3.5	3.5	8.5
Merged-chr8-11555376-4	chr8	11555280	11555480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302458)	promoter-TSS (NM_001302458)	-382.0	NM_001302458	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	213.0	252.5	154.0	2363.0	418.5	200.5	206.0	158.0
Merged-chr5-108629772-4	chr5	108629655	108629855	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282052)	promoter-TSS (NM_001282052)	22.0	NM_001359924	231580.0	Mm.276647	NM_153569	ENSMUSG00000062234	Gak	D130045N16Rik	cyclin G associated kinase	protein-coding	123.5	150.0	114.5	1737.0	318.5	126.0	136.5	129.0
Merged-chr2-113399115-3	chr2	113399022	113399222	+	846.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285458, intron 2 of 16)	intron (NM_001285458, intron 2 of 16)	-41942.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	4.5	16.0	9.5	108.5	16.0	4.0	12.0	10.0
Merged-chr2-14324839-4	chr2	14324718	14324918	+	966.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 25 of 29)	RLTR16B_MM|LTR|ERVK	-63580.0	NM_001012305	277468.0	Mm.44662	NM_001012305	ENSMUSG00000036949	Slc39a12	AW046938|Gm731	solute carrier family 39 (zinc transporter), member 12	protein-coding	23.5	31.5	9.0	231.5	39.5	16.5	21.0	18.0
Merged-chr10-98831664-4	chr10	98831560	98831760	+	973.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82982.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	9.5	22.0	18.5	414.5	63.0	24.0	27.5	32.0
Merged-chr18-4944613-3	chr18	4944509	4944709	+	942.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101980.0	NM_153153	225115.0	Mm.136791	NM_153153	ENSMUSG00000024236	Svil	AU024053|B430302E16Rik	supervillin	protein-coding	8.0	8.0	21.0	223.5	12.5	0.0	19.0	11.0
Merged-chr16-70353136-5	chr16	70352979	70353179	+	852.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	(GA)n|Simple_repeat|Simple_repeat	39130.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	2.0	1.5	10.0	26.0	13.5	10.0	7.5	12.5
Merged-chr17-86167551-4	chr17	86167454	86167654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011104)	promoter-TSS (NM_011104)	-231.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	102.0	155.0	98.0	1422.0	286.0	105.0	121.0	126.0
Merged-chr7-19699773-4	chr7	19699682	19699882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009696)	promoter-TSS (NM_009696)	-594.0	NM_009696	11816.0	Mm.305152	NM_009696	ENSMUSG00000002985	Apoe	AI255918|Apo-E	apolipoprotein E	protein-coding	74.5	106.5	64.0	1195.5	169.5	77.5	74.0	58.0
Merged-chr7-100434382-4	chr7	100434259	100434459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 23 of 32)	intron (NM_001017985, intron 23 of 32)	-38632.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	42.5	60.5	37.0	362.0	93.5	39.5	28.0	28.0
Merged-chr6-115836076-4	chr6	115835976	115836176	+	748.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110506, intron 1 of 8)	ORR1A3|LTR|ERVL-MaLR	2336.0	NM_001110506	212516.0	Mm.333333	NM_198603	ENSMUSG00000030321	Efcab12	BB124106	EF-hand calcium binding domain 12	protein-coding	8.5	9.5	5.0	112.0	22.0	10.5	4.0	13.5
Merged-chr14-122464746-6	chr14	122464792	122464992	+	882.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022987, exon 1 of 2)	exon (NM_022987, exon 1 of 2)	766.0	NM_022987	65100.0	Mm.390761	NM_022987	ENSMUSG00000041703	Zic5	1700049L20Rik|Opr	zinc finger protein of the cerebellum 5	protein-coding	1.0	10.5	3.5	84.0	26.5	11.0	6.5	5.0
Merged-chr7-16246154-2	chr7	16246024	16246224	+	931.25	f1_balb.idr|f1_c57bl6.idr	TTS (NM_007577)	TTS (NM_007577)	-1970.0	NM_176912	319430.0	Mm.239570	NM_176912	ENSMUSG00000074361	C5ar2	C5L2|E030029A11Rik|Gpr77	complement component 5a receptor 2	protein-coding	3.5	10.5	7.0	50.5	20.0	6.5	8.5	9.0
Merged-chr18-38372171-4	chr18	38372073	38372273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-33180.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	83.0	198.0	90.5	1092.5	188.5	122.0	100.5	78.5
Merged-chr12-33041631-3	chr12	33041519	33041719	+	938.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 15 of 19)	MIRb|SINE|MIR	51256.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	13.5	10.5	12.0	223.0	37.0	3.0	10.5	7.0
Merged-chr3-115695790-4	chr3	115695690	115695890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19265.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	61.5	48.5	73.5	817.5	56.5	27.5	26.5	42.0
Merged-chr9-124312650-4	chr9	124312544	124312744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243117)	promoter-TSS (NM_001243117)	50.0	NM_001243118	630836.0	Mm.458553	NM_001243117	ENSMUSG00000074829	2010315B03Rik	BC029716	RIKEN cDNA 2010315B03 gene	protein-coding	96.5	171.5	85.0	1652.5	233.0	90.5	111.0	78.0
Merged-chr1-191280899-4	chr1	191280810	191281010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37208.0	NM_025424	66208.0	Mm.46444	NM_025424	ENSMUSG00000037499	Nenf	1110060M21Rik|SCIRP10|Spuf	neuron derived neurotrophic factor	protein-coding	128.5	186.5	121.5	1311.5	214.5	77.5	83.5	67.0
Merged-chr6-135161489-4	chr6	135161381	135161581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013546, intron 1 of 3)	MIR3|SINE|MIR	6734.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	45.0	69.5	66.5	966.5	112.5	56.0	70.5	56.5
Merged-chr2-155762056-4	chr2	155761943	155762143	+	959.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10826.0	NM_011171	19124.0	Mm.3243	NM_011171	ENSMUSG00000027611	Procr	AI325044|Ccca|Ccd41|Epcr	protein C receptor, endothelial	protein-coding	4.5	27.0	9.5	25.0	53.0	15.5	14.0	5.0
Merged-chr3-88623548-4	chr3	88623439	88623639	+	859.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	2145.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	21.0	17.0	11.0	302.5	19.0	9.0	7.5	12.0
Merged-chr6-52442259-3	chr6	52442164	52442364	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50187.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	9.5	9.0	4.0	142.0	14.5	9.0	4.5	7.0
Merged-chr14-31401542-4	chr14	31401453	31401653	+	848.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	16124.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	12.0	13.5	8.0	248.5	16.0	3.0	11.0	18.5
Merged-chr10-26751054-3	chr10	26750963	26751163	+	926.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21449.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	12.0	15.0	13.5	244.5	16.0	4.0	6.5	7.5
Merged-chr9-56100178-4	chr9	56100082	56100282	+	863.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 1 of 14)	ORR1F|LTR|ERVL-MaLR	10206.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	23.0	27.5	21.5	258.5	33.0	13.0	11.0	20.0
Merged-chr15-83009743-4	chr15	83009625	83009825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028728, intron 4 of 5)	intron (NM_028728, intron 4 of 5)	13413.0	NM_028728	74039.0	Mm.32584	NM_028728	ENSMUSG00000058099	Nfam1	4921501M20Rik|Cnaip	Nfat activating molecule with ITAM motif 1	protein-coding	171.0	235.0	143.0	2296.0	328.0	155.5	140.0	138.5
Merged-chr1-152623955-3	chr1	152623837	152624037	+	873.7023929999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346118, intron 2 of 18)	LTR78B|LTR|ERV1	1280.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	6.0	14.5	11.0	59.5	13.0	5.0	8.5	6.5
Merged-chr10-20348621-3	chr10	20348513	20348713	+	852.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027930, intron 2 of 6)	intron (NM_027930, intron 2 of 6)	794.0	NM_027930	71804.0	Mm.262151	NM_027930	ENSMUSG00000019992	Mtfr2	2610016C23Rik|4933412C16Rik|Dufd1|Fam54a	mitochondrial fission regulator 2	protein-coding	2.5	11.0	7.5	29.0	17.0	11.0	10.0	24.0
Merged-chr13-52914748-4	chr13	52914663	52914863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016709, intron 3 of 9)	intron (NM_016709, intron 3 of 9)	14914.0	NM_016709	11992.0	Mm.252034	NM_016709	ENSMUSG00000021460	Auh	C77140|W91705	AU RNA binding protein/enoyl-coenzyme A hydratase	protein-coding	90.0	138.0	149.0	967.0	188.0	82.0	88.5	77.5
Merged-chr17-72908973-3	chr17	72908873	72909073	+	920.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAAA)n|Simple_repeat|Simple_repeat	-9332.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	14.5	30.0	22.0	169.5	22.0	7.5	5.0	6.0
Merged-chr1-180314849-4	chr1	180314761	180314961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-15615.0	NM_001081175	320404.0	Mm.132535	NM_001081175	ENSMUSG00000038855	Itpkb	1110033J02Rik|E130307H12Rik	inositol 1,4,5-trisphosphate 3-kinase B	protein-coding	33.5	59.5	21.0	360.5	95.5	28.5	49.5	30.5
Merged-chr15-68077556-3	chr15	68077447	68077647	+	877.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181309.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	9.5	14.5	10.5	76.5	9.0	7.0	9.0	9.0
Merged-chr2-45270764-3	chr2	45270664	45270864	+	875.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-153322.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	8.0	9.0	9.5	107.0	21.0	9.5	5.0	5.5
Merged-chr4-21755243-4	chr4	21755146	21755346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290420, intron 11 of 11)	intron (NM_001290420, intron 11 of 11)	11965.0	NM_029840	77032.0	Mm.87238	NM_029840	ENSMUSG00000028251	Tstd3	2610029I01Rik	thiosulfate sulfurtransferase (rhodanese)-like domain containing 3	protein-coding	18.0	42.0	26.5	356.5	58.5	16.0	33.5	23.0
Merged-chr1-165583735-4	chr1	165583638	165583838	+	987.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50803.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	24.5	34.0	15.0	415.5	57.0	30.0	29.5	30.5
Merged-chr1-161361867-3	chr1	161361772	161361972	+	958.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33566.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	20.0	20.5	12.0	283.5	13.5	3.0	10.0	5.0
Merged-chr3-9896587-3	chr3	9896538	9896738	+	910.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62959.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	16.5	16.0	20.0	333.0	6.0	1.5	3.5	3.0
Merged-chr4-43260380-3	chr4	43260292	43260492	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 37 of 39)	intron (NM_001081413, intron 37 of 39)	-6767.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	19.5	35.0	25.5	573.0	3.0	0.0	0.5	2.0
Merged-chr11-51756564-4	chr11	51756470	51756670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175255, exon 1 of 23)	5' UTR (NM_175255, exon 1 of 23)	264.0	NM_001290785	77371.0	Mm.33878	NM_175255	ENSMUSG00000036391	Sec24a	-	Sec24 related gene family, member A (S. cerevisiae)	protein-coding	230.0	406.0	184.0	2460.0	462.0	183.5	202.0	150.0
Merged-chr14-45676823-4	chr14	45676724	45676924	+	846.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	-18681.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	8.5	17.5	31.5	180.5	29.0	5.5	10.5	7.5
Merged-chr4-141790808-4	chr4	141790724	141790924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172338)	promoter-TSS (NM_172338)	-180.0	NM_172338	214063.0	Mm.39102	NM_172338	ENSMUSG00000040697	Dnajc16	2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962	DnaJ heat shock protein family (Hsp40) member C16	protein-coding	253.5	369.0	201.5	2404.5	592.0	247.5	227.5	176.0
Merged-chr7-139126065-3	chr7	139125967	139126167	+	670.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021302, intron 2 of 11)	intron (NM_021302, intron 2 of 11)	40066.0	NM_011993	26757.0	Mm.250414	NM_011993	ENSMUSG00000025478	Dpysl4	AI173505|CRMP-3|Crmp3|DPY4|Drp-4|Ulip4	dihydropyrimidinase-like 4	protein-coding	11.0	6.5	6.5	87.5	7.5	2.5	3.0	6.5
Merged-chr10-125725599-4	chr10	125725503	125725703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-240616.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	56.5	71.5	81.5	1384.0	122.0	42.5	67.5	36.0
Merged-chr19-60892386-3	chr19	60892264	60892464	+	842.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	intron (NM_018869, intron 1 of 15)	2615.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	9.5	14.5	9.5	52.5	21.5	10.0	8.5	4.0
Merged-chr19-5088020-4	chr19	5087937	5088137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026553)	promoter-TSS (NM_026553)	-501.0	NM_026553	68090.0	Mm.44202	NM_026553	ENSMUSG00000024875	Yif1a	5330422J23Rik|54TM|Yif1|Yif1p	Yip1 interacting factor homolog A (S. cerevisiae)	protein-coding	50.0	93.0	20.5	537.0	127.5	55.0	43.5	59.5
Merged-chr8-126921039-4	chr8	126920930	126921130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24891.0	NM_024214	67952.0	Mm.6932	NM_024214	ENSMUSG00000093904	Tomm20	1810060K07Rik|BB284719|Gm19268|MAS20|MOM19|TOM20|mKIAA0016	translocase of outer mitochondrial membrane 20	protein-coding	52.5	97.5	29.0	428.0	137.5	43.0	63.0	42.0
Merged-chr11-61735512-2	chr11	61735412	61735612	+	800.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_144806, intron 9 of 11)	intron (NM_144806, intron 9 of 11)	-14713.0	NM_001033227	109342.0	Mm.441070	NM_001033227	ENSMUSG00000042371	Slc5a10	C330021F16Rik|SGLT5	solute carrier family 5 (sodium/glucose cotransporter), member 10	protein-coding	10.5	6.5	2.0	68.0	18.5	13.5	6.0	10.0
Merged-chr16-36997857-4	chr16	36997750	36997950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-7383.0	NM_001358217	207215.0	Mm.211899	NM_001037321	ENSMUSG00000047746	Fbxo40	9830003A13Rik|mKIAA1195	F-box protein 40	protein-coding	29.0	75.5	34.5	523.0	102.0	46.0	49.5	36.5
Merged-chr19-10555785-4	chr19	10555697	10555897	+	943.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277861)	promoter-TSS (NM_001277861)	-34.0	NM_001277860	68642.0	Mm.31236	NM_026798	ENSMUSG00000024667	Tmem216	1110017C22Rik|2810441K11Rik|4921533J23Rik|A930021F15Rik|AI482550	transmembrane protein 216	protein-coding	14.0	18.5	18.5	185.0	29.0	17.5	19.5	16.0
Merged-chr14-70850460-3	chr14	70850377	70850577	+	796.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2456.0	NR_045939	73648.0	Mm.410851	NR_045939	ENSMUSG00000099528	2410012E07Rik	-	RIKEN cDNA 2410012E07 gene	ncRNA	9.5	12.0	8.0	149.5	8.0	2.0	0.5	3.5
Merged-chr7-31111780-4	chr7	31111681	31111881	+	880.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276269)	promoter-TSS (NM_001276269)	-784.0	NM_001276269	15451.0	Mm.19182	NM_008281	ENSMUSG00000001249	Hpn	Hlb320	hepsin	protein-coding	8.0	11.5	11.5	102.0	27.0	15.5	14.0	11.0
Merged-chr11-97127771-2	chr11	97127671	97127871	+	615.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12440.0	NM_019507	57765.0	Mm.94519	NM_019507	ENSMUSG00000001444	Tbx21	TBT1|Tbet|Tblym	T-box 21	protein-coding	6.0	10.0	4.5	42.0	5.5	2.5	6.0	4.5
Merged-chr2-160731341-4	chr2	160731304	160731504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021280)	promoter-TSS (NM_021280)	94.0	NM_021280	18803.0	Mm.44463	NM_021280	ENSMUSG00000016933	Plcg1	AI894140|Cded|Plc-1|Plc-gamma1|Plcg-1	phospholipase C, gamma 1	protein-coding	49.0	52.0	91.0	642.0	107.5	49.5	49.0	64.0
Merged-chr17-10319306-4	chr17	10319216	10319416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159517)	promoter-TSS (NM_001159517)	45.0	NM_021881	19317.0	Mm.130694	NM_021881	ENSMUSG00000062078	Qk	1110003F05Rik|1500005P18|QkI|l(17)-1Wis|l17Wis1	quaking	protein-coding	22.5	69.5	18.0	469.0	118.5	34.5	59.5	22.5
Merged-chr4-103123233-4	chr4	103123141	103123341	+	939.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039081, intron 1 of 12)	intron (NM_001039081, intron 1 of 12)	3851.0	NM_001039081	71148.0	Mm.288721	NM_027696	ENSMUSG00000028522	Mier1	4933425I22Rik|5830411K19Rik|er1	MEIR1 treanscription regulator	protein-coding	12.0	19.5	4.0	164.0	34.5	20.0	14.5	14.5
Merged-chr12-102330965-1	chr12	102330865	102331065	+	866.5	f0_balb.idr	intron (NM_177620, intron 3 of 9)	MLT1I|LTR|ERVL-MaLR	47324.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	12.0	4.0	9.0	189.5	8.0	7.5	8.0	7.0
Merged-chr10-10449269-4	chr10	10449189	10449389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 2 of 36)	intron (NM_001127353, intron 2 of 36)	23025.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	89.0	121.5	60.5	871.0	171.0	72.0	77.5	72.5
Merged-chr1-178319468-1	chr1	178319368	178319568	+	1000.0	f0_balb.idr	intron (NM_025511, intron 1 of 3)	PB1D10|SINE|Alu	315.0	NM_025511	66359.0	Mm.489720	NM_025511	ENSMUSG00000026500	Cox20	2310005N03Rik|Fam36a	COX20 Cox2 chaperone	protein-coding	24.0	22.5	21.5	415.5	79.0	18.5	19.0	26.0
Merged-chr6-124496554-2	chr6	124496454	124496654	+	869.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_181344, intron 2 of 5)	MLT1A0|LTR|ERVL-MaLR	3441.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	11.0	19.0	5.0	41.0	17.5	10.5	2.5	5.5
Merged-chr11-69662312-1	chr11	69662212	69662412	+	1000.0	f0_c57.idr	promoter-TSS (NR_035455)	promoter-TSS (NR_035455)	337.0	NR_125917	24070.0	Mm.89579	NM_011900	ENSMUSG00000018761	Mpdu1	LEC35|SL15|Supl15h	mannose-P-dolichol utilization defect 1	protein-coding	32.0	64.0	28.0	484.0	148.5	61.5	39.5	53.0
Merged-chr11-72215628-2	chr11	72215524	72215724	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_026068)	promoter-TSS (NM_026068)	-32.0	NM_026068	67279.0	Mm.159496	NM_026068	ENSMUSG00000020801	Med31	3110004H13Rik|CGI-125|l11Jus15	mediator complex subunit 31	protein-coding	16.5	17.5	6.0	223.0	66.5	19.5	19.0	14.5
Merged-chr3-27298459-4	chr3	27298362	27298562	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18615.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	13.0	12.5	7.5	170.5	89.0	25.0	57.5	25.5
Merged-chr3-84129376-4	chr3	84129331	84129531	+	849.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029797, intron 4 of 7)	intron (NM_029797, intron 4 of 7)	26355.0	NM_029797	76915.0	Mm.274829	NM_029797	ENSMUSG00000033752	Mnd1	2610034E18Rik|AI591601|Gaj	meiotic nuclear divisions 1	protein-coding	7.5	14.5	18.5	312.0	19.0	5.5	11.5	10.0
Merged-chr13-90930079-3	chr13	90929982	90930182	+	881.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6960.0	NM_024175	66475.0	Mm.306302	NM_024175	ENSMUSG00000049517	Rps23	2410044J15Rik	ribosomal protein S23	protein-coding	13.0	3.5	8.0	185.0	13.5	5.0	10.0	10.0
Merged-chr18-23804986-2	chr18	23804920	23805120	+	876.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	1050.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	4.5	8.5	12.0	120.0	11.5	12.0	5.5	9.5
Merged-chr7-4685131-4	chr7	4685020	4685220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360629)	promoter-TSS (NM_001360629)	-139.0	NM_024172	66245.0	Mm.6803	NM_024172	ENSMUSG00000063802	Hspbp1	1500019G21Rik	HSPA (heat shock 70kDa) binding protein, cytoplasmic cochaperone 1	protein-coding	222.0	309.5	189.5	2000.0	566.5	256.5	227.5	200.0
Merged-chr3-13551437-1	chr3	13551337	13551537	+	946.0	f0_balb.idr	intron (NM_001357034, intron 1 of 7)	intron (NM_001357034, intron 1 of 7)	78638.0	NM_001357036	76897.0	Mm.422625	NM_178631	ENSMUSG00000039717	Ralyl	0710005M24Rik	RALY RNA binding protein-like	protein-coding	5.0	5.0	10.5	136.0	16.0	3.0	5.0	5.5
Merged-chr5-43872820-4	chr5	43872719	43872919	+	964.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	MLT1H-int|LTR|ERVL-MaLR	4010.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	26.5	37.0	27.0	346.0	53.5	21.0	17.5	17.0
Merged-chr4-129065910-5	chr4	129065790	129065990	+	864.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	PB1D10|SINE|Alu	7619.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	7.5	23.0	23.5	90.0	19.0	12.0	3.0	14.0
Merged-chr10-117215948-2	chr10	117215848	117216048	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_026570, intron 6 of 6)	intron (NM_026570, intron 6 of 6)	8559.0	NM_026570	64050.0	Mm.233529	NM_026570	ENSMUSG00000020171	Yeats4	4930573H17Rik|B230215M10Rik|GAS41|NuBI-1	YEATS domain containing 4	protein-coding	41.0	55.5	51.0	523.5	82.0	20.5	60.5	42.0
Merged-chr1-57849320-3	chr1	57849223	57849423	+	944.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164566, intron 1 of 11)	MER5A|DNA|hAT-Charlie	3752.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	13.5	45.0	17.0	144.5	10.0	6.0	6.0	1.0
Merged-chr5-123886601-4	chr5	123886499	123886699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6579.0	NM_175520	243270.0	Mm.33362	NM_175520	ENSMUSG00000049241	Hcar1	Gpr81	hydrocarboxylic acid receptor 1	protein-coding	81.0	143.5	32.5	525.0	200.5	75.5	36.0	36.5
Merged-chr3-61364521-4	chr3	61364438	61364638	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028712)	promoter-TSS (NM_028712)	31.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	239.0	348.5	247.5	3703.0	603.5	262.0	308.0	234.5
Merged-chr6-134073135-4	chr6	134073021	134073221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	37421.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	41.0	60.0	27.5	414.0	90.0	20.5	50.5	30.0
Merged-chr7-44987519-2	chr7	44987419	44987619	+	964.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_045266, intron 1 of 1)	RSINE1|SINE|B4	619.0	NR_045266	100502630.0	Mm.490013	NR_045266	ENSMUSG00000087138	Gm15545	-	predicted gene 15545	ncRNA	4.5	4.5	5.0	81.0	12.0	6.0	2.5	5.0
Merged-chr19-40744399-3	chr19	40744312	40744512	+	889.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	84642.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	15.5	17.0	10.0	76.5	9.5	10.5	7.5	5.0
Merged-chr9-119067808-3	chr9	119067708	119067908	+	894.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011700, intron 15 of 18)	intron (NM_011700, intron 15 of 18)	15030.0	NM_001164567	22351.0	Mm.83817	NM_011700	ENSMUSG00000038775	Vill	Villp	villin-like	protein-coding	4.0	10.5	7.0	101.0	15.5	4.5	4.5	7.0
Merged-chr19-60837886-1	chr19	60837786	60837986	+	641.0	f1_balb.idr	3' UTR (NM_001362384, exon 15 of 15)	3' UTR (NM_001362384, exon 15 of 15)	23542.0	NM_001362385	94281.0	Mm.48179	NM_053198	ENSMUSG00000063698	Sfxn4	-	sideroflexin 4	protein-coding	0.0	0.0	0.0	10.5	13.0	13.0	8.5	13.0
Merged-chr1-55473957-4	chr1	55473860	55474060	+	830.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	ORR1E|LTR|ERVL-MaLR	68014.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	7.0	24.0	7.0	102.0	39.5	7.5	19.0	5.5
Merged-chr1-174042717-4	chr1	174042607	174042807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146717, exon 1 of 1)	exon (NM_146717, exon 1 of 1)	774.0	NM_146717	258712.0	Mm.223146	NM_146717	ENSMUSG00000045381	Olfr433	MOR123-1	olfactory receptor 433	protein-coding	27.0	46.5	24.5	241.5	63.0	20.0	49.5	28.5
Merged-chr6-120822826-4	chr6	120822723	120822923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007510)	promoter-TSS (NM_007510)	-125.0	NM_007510	11973.0	Mm.29045	NM_007510	ENSMUSG00000019210	Atp6v1e1	2410029D23Rik|Atp6e|Atp6e2|Atp6v1e|D6Ertd385e|Vma4|p31	ATPase, H+ transporting, lysosomal V1 subunit E1	protein-coding	135.0	200.5	107.0	1386.5	374.5	143.0	125.0	103.5
Merged-chr1-78910526-2	chr1	78910421	78910621	+	791.5	f0_balb.idr|f1_c57bl6.idr	intron (NR_151519, intron 3 of 3)	Lx8|LINE|L1	93610.0	NM_021342	57814.0	Mm.24386	NM_021342	ENSMUSG00000047330	Kcne4	AW487937|MiRP3	potassium voltage-gated channel, Isk-related subfamily, gene 4	protein-coding	10.5	6.5	9.0	157.0	39.0	7.5	5.5	10.5
Merged-chr17-12960634-4	chr17	12960598	12960798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009338)	promoter-TSS (NM_009338)	27.0	NM_009338	110460.0	Mm.439711	NM_009338	ENSMUSG00000023832	Acat2	AW742799|Tcp-1x|Tcp1-rs1	acetyl-Coenzyme A acetyltransferase 2	protein-coding	108.5	187.5	148.0	1935.5	255.5	99.5	114.0	115.0
Merged-chr6-84008593-2	chr6	84008493	84008693	+	886.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001077694)	promoter-TSS (NM_001077694)	-5.0	NM_001077694	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	3.5	7.5	4.0	43.0	18.0	4.5	4.5	9.0
Merged-chr3-109029734-4	chr3	109029627	109029827	+	715.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2120.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	11.0	12.5	8.5	82.0	46.0	14.5	7.0	4.0
Merged-chr11-87759720-4	chr11	87759613	87759813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172449)	promoter-TSS (NM_172449)	-828.0	NM_172449	207777.0	Mm.342019	NM_172449	ENSMUSG00000034156	Tspoap1	Bzrap1|D230016K05|PRAX-1|mKIAA0612	TSPO associated protein 1	protein-coding	46.5	83.0	27.0	451.0	71.0	33.5	44.5	42.5
Merged-chr19-8020112-4	chr19	8020054	8020254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54127.0	NM_001361980	171405.0	Mm.326517	NM_134256	ENSMUSG00000067656	Slc22a27	OAT6-L|OAT6-S|Oat9	solute carrier family 22, member 27	protein-coding	85.0	101.5	78.0	704.0	161.0	80.0	50.0	62.0
Merged-chr2-75763469-4	chr2	75763352	75763552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58789.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	87.5	207.5	103.5	936.5	561.0	237.0	274.0	194.0
Merged-chr3-84598147-4	chr3	84598043	84598243	+	980.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4569.0	NM_207278	403175.0	Mm.83086	NM_207278	ENSMUSG00000047819	Tigd4	C130063O11Rik|Gm418	tigger transposable element derived 4	protein-coding	20.5	35.5	14.0	248.0	37.5	18.5	19.5	25.0
Merged-chr3-51289313-3	chr3	51289211	51289411	+	910.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 4 of 9)	intron (NM_023502, intron 4 of 9)	-11797.0	NM_001291062	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	8.5	15.0	3.5	122.5	13.5	9.5	7.5	10.5
Merged-chr13-58115425-4	chr13	58115330	58115530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1783.0	NM_001362415	100503085.0	Mm.379256	NM_001195075	ENSMUSG00000014164	Klhl3	7530408C15Rik|AI430941|EG627648	kelch-like 3	protein-coding	82.5	63.5	57.0	961.5	162.0	56.0	79.5	69.5
Merged-chr2-116975206-4	chr2	116975132	116975332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75080.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	36.5	87.0	51.0	483.5	94.0	46.0	40.5	32.0
Merged-chr14-63411165-4	chr14	63411057	63411257	+	940.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007549, intron 1 of 12)	intron (NM_007549, intron 1 of 12)	6030.0	NM_007549	12143.0	Mm.3962	NM_007549	ENSMUSG00000014453	Blk	-	B lymphoid kinase	protein-coding	29.5	23.5	52.5	1051.0	30.5	17.0	11.5	16.0
Merged-chr10-67098636-4	chr10	67098536	67098736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1648.0	NM_178606	28193.0	Mm.41272	NM_178606	ENSMUSG00000019873	Reep3	D10Ucla1	receptor accessory protein 3	protein-coding	32.5	40.0	8.5	378.0	71.0	29.5	23.0	10.5
Merged-chr1-45865922-4	chr1	45865827	45866027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59667.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	40.5	47.5	48.0	901.0	47.5	21.0	38.0	25.5
Merged-chr2-130728238-4	chr2	130728117	130728317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 28 of 36)	intron (NM_029432, intron 28 of 36)	-30698.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	38.5	77.5	50.5	684.0	93.0	32.5	34.5	50.0
Merged-chr14-69088659-3	chr14	69088559	69088759	+	812.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	59370.0	NM_009285	20855.0	Mm.20911	NM_009285	ENSMUSG00000014813	Stc1	Stc	stanniocalcin 1	protein-coding	14.5	16.0	11.5	113.0	33.0	2.5	4.0	5.5
Merged-chr18-24653833-4	chr18	24653744	24653944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026779, exon 1 of 15)	5' UTR (NM_026779, exon 1 of 15)	153.0	NM_026779	68591.0	Mm.28252	NM_026779	ENSMUSG00000039616	Mocos	1110018O12Rik|HMCS|MCS|MOS	molybdenum cofactor sulfurase	protein-coding	67.0	82.5	68.5	1313.5	144.5	76.0	112.5	81.0
Merged-chr15-99074961-4	chr15	99074841	99075041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030159)	promoter-TSS (NM_030159)	-32.0	NM_001162506	78733.0	Mm.124905	NM_030159	ENSMUSG00000032783	Troap	AW476063|E130301L11Rik|tastin	trophinin associated protein	protein-coding	135.0	264.0	127.0	1985.5	317.5	138.5	151.5	127.0
Merged-chr12-100026868-4	chr12	100026779	100026979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	62380.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	33.5	52.5	50.5	888.0	101.0	44.0	56.0	47.5
Merged-chr8-94861493-3	chr8	94861391	94861591	+	789.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009090, intron 4 of 8)	intron (NM_009090, intron 4 of 8)	4041.0	NM_009090	20021.0	Mm.292492	NM_009090	ENSMUSG00000031783	Polr2c	33kDa|RPB3|Rpo2-3|mRBP31	polymerase (RNA) II (DNA directed) polypeptide C	protein-coding	8.0	9.0	17.0	133.5	15.5	2.0	11.0	9.0
Merged-chr11-106687536-3	chr11	106687437	106687637	+	760.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 6 of 14)	intron (NM_001305158, intron 6 of 14)	27744.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	4.5	6.5	7.0	94.0	19.0	3.0	5.5	8.5
Merged-chr1-172482105-4	chr1	172482002	172482202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145800)	promoter-TSS (NM_001145800)	-111.0	NM_001145800	93842.0	Mm.214530	NM_033608	ENSMUSG00000037995	Igsf9	644ETD8|Dasm1|Kiaa1355-hp|NRT1|Ncaml|mKIAA1355	immunoglobulin superfamily, member 9	protein-coding	45.5	64.0	71.0	601.5	98.0	49.0	65.0	26.0
Merged-chr3-139074871-4	chr3	139074746	139074946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 1 of 13)	CpG	355.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	26.0	38.5	31.5	247.0	55.0	17.0	29.0	19.5
Merged-chr9-101045934-4	chr9	101045831	101046031	+	964.462524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16B2|LTR|ERVL	-11047.0	NM_025835	66904.0	Mm.335385	NM_025835	ENSMUSG00000032527	Pccb	1300012P06Rik|AI314687|R74805	propionyl Coenzyme A carboxylase, beta polypeptide	protein-coding	8.5	34.0	20.0	246.0	39.5	8.5	20.5	24.0
Merged-chr12-82470778-4	chr12	82470681	82470881	+	966.658325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID|SINE|ID	-146144.0	NM_001310478	50779.0	Mm.126176	NM_015812	ENSMUSG00000021219	Rgs6	-	regulator of G-protein signaling 6	protein-coding	11.5	41.0	24.0	184.0	39.0	21.5	22.0	17.0
Merged-chr7-47051965-4	chr7	47051861	47052061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026436, intron 1 of 2)	intron (NM_026436, intron 1 of 2)	1321.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	124.5	189.5	162.0	2412.5	382.0	128.5	160.0	128.5
Merged-chr15-81860100-4	chr15	81859975	81860175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1749.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	146.5	226.5	108.5	1804.5	366.5	103.5	133.0	150.0
Merged-chr13-36700067-4	chr13	36699951	36700151	+	962.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	34426.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	14.0	19.0	7.5	166.5	42.5	9.5	17.0	27.5
Merged-chr12-112589127-3	chr12	112589030	112589230	+	962.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198411, intron 1 of 22)	intron (NM_198411, intron 1 of 22)	346.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	11.5	24.0	12.5	120.5	37.5	24.0	12.0	5.0
Merged-chr15-59816327-4	chr15	59816223	59816423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-21364.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	33.5	25.5	34.0	720.5	81.0	19.5	28.5	42.5
Merged-chr10-13200637-1	chr10	13200537	13200737	+	829.0	f0_balb.idr	Intergenic	Intergenic	-7500.0	NM_181470	353258.0	Mm.117581	NM_181470	ENSMUSG00000019814	Ltv1	2610020N02Rik	LTV1 ribosome biogenesis factor	protein-coding	15.5	16.5	9.5	240.0	2.5	2.5	0.5	1.5
Merged-chr11-32644240-4	chr11	32644141	32644341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271349, intron 1 of 11)	intron (NM_001271349, intron 1 of 11)	1686.0	NM_001271347	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	60.0	118.5	67.0	1254.0	229.0	66.5	114.5	71.0
Merged-chr4-101699072-2	chr4	101698972	101699172	+	644.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-18335.0	NM_001122899	16847.0	Mm.259282	NM_010704	ENSMUSG00000057722	Lepr	LEPROT|Leprb|Modb1|OB-RGRP|Obr|db|diabetes|obese-like|obl	leptin receptor	protein-coding	4.5	6.0	8.0	70.5	5.0	5.0	6.0	7.0
Merged-chr8-25201665-4	chr8	25201575	25201775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177089)	promoter-TSS (NM_177089)	-133.0	NM_177089	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	173.0	318.0	166.5	2532.5	459.0	171.5	197.0	141.5
Merged-chr10-85952117-7	chr10	85952019	85952219	+	974.3843380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145422, intron 3 of 11)	intron (NM_145422, intron 3 of 11)	5674.0	NM_145422	28088.0	Mm.9257	NM_145422	ENSMUSG00000001783	Rtcb	AI255213|AI463255|D10Wsu52e|FAAP|HSPC117	RNA 2',3'-cyclic phosphate and 5'-OH ligase	protein-coding	15.0	13.5	21.0	236.5	18.5	10.5	8.5	11.5
Merged-chr3-153636644-4	chr3	153636555	153636755	+	864.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 1 of 4)	intron (NM_011372, intron 1 of 4)	88478.0	NM_011372	20447.0	Mm.296453	NM_011372	ENSMUSG00000052544	St6galnac3	Siat7c	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 3	protein-coding	9.5	16.0	8.5	209.5	21.5	11.0	16.5	27.0
Merged-chr2-33432336-3	chr2	33432226	33432426	+	860.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1002.0	NM_001276332	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	4.0	4.0	1.5	104.5	16.0	6.5	16.5	11.5
Merged-chr13-46975152-3	chr13	46975044	46975244	+	890.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12B|LTR|ERVK	39706.0	NM_175340	105193.0	Mm.25593	NM_175340	ENSMUSG00000044231	Nhlrc1	AI505271|B230309E09Rik|EPM2B	NHL repeat containing 1	protein-coding	9.0	5.0	2.0	53.0	52.5	17.5	14.5	19.5
Merged-chr14-54756556-4	chr14	54756413	54756613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	25373.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	47.5	106.0	88.5	1269.5	195.5	54.0	113.5	87.0
Merged-chr12-70831359-3	chr12	70831249	70831449	+	891.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028127, intron 1 of 13)	intron (NM_028127, intron 1 of 13)	5835.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	5.5	7.5	12.0	139.5	10.0	3.0	10.0	9.0
Merged-chr6-34907351-4	chr6	34907268	34907468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013366, intron 3 of 14)	intron (NM_001013366, intron 3 of 14)	3463.0	NM_001013366	101240.0	Mm.152120	NM_001013366	ENSMUSG00000058486	Wdr91	9530020G05Rik|AI987683|AU018665	WD repeat domain 91	protein-coding	92.0	151.0	109.5	1343.0	232.5	62.0	50.0	68.5
Merged-chr2-57108523-3	chr2	57108420	57108620	+	740.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 7 of 7)	intron (NM_001139509, intron 7 of 7)	6518.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	14.5	12.5	4.0	144.5	18.0	4.5	5.5	13.0
Merged-chr2-153492704-4	chr2	153492616	153492816	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134300, intron 1 of 10)	CpG	37255.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	33.5	29.0	29.5	352.0	51.0	16.5	22.0	16.0
Merged-chr8-11168189-3	chr8	11168075	11168275	+	781.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B4|LTR|ERVL	-144630.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	20.5	9.5	16.5	191.0	10.0	6.0	4.5	2.0
Merged-chr4-108318851-4	chr4	108318759	108318959	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9293.0	NM_027250	69893.0	Mm.28354	NM_027250	ENSMUSG00000048351	Coa7	2010305A19Rik|AI451324|D4Ertd796e|Selrc1	cytochrome c oxidase assembly factor 7	protein-coding	25.0	20.0	23.5	373.0	57.5	21.5	20.0	21.5
Merged-chr9-118925444-4	chr9	118925328	118925528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1108.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	106.5	117.5	54.5	913.0	210.5	71.5	75.5	67.5
Merged-chr4-105640971-3	chr4	105640833	105641033	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	483586.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	12.0	19.0	15.0	302.5	12.0	4.5	4.0	4.5
Merged-chr2-25983442-4	chr2	25983334	25983534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276361)	promoter-TSS (NM_001276361)	-152.0	NM_001276361	227634.0	Mm.36834	NM_001115076	ENSMUSG00000026933	Camsap1	9530003A05Rik|C77823|PRO2405	calmodulin regulated spectrin-associated protein 1	protein-coding	171.0	255.5	114.5	1875.5	354.0	160.0	205.0	142.0
Merged-chr7-122405250-2	chr7	122405150	122405350	+	826.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	116125.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	6.0	7.0	4.5	77.0	16.0	4.0	9.0	18.5
Merged-chr9-5300228-4	chr9	5300148	5300348	+	887.3666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009807, intron 3 of 9)	intron (NM_009807, intron 3 of 9)	1731.0	NM_009807	12362.0	Mm.1051	NM_009807	ENSMUSG00000025888	Casp1	ICE|Il1bc	caspase 1	protein-coding	12.0	18.5	19.0	319.0	57.5	10.0	22.5	19.0
Merged-chr17-70979757-4	chr17	70979636	70979836	+	805.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	B4A|SINE|B4	10780.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	7.0	12.0	5.5	100.5	20.0	10.0	5.0	17.0
Merged-chr10-94927059-2	chr10	94926959	94927159	+	747.099976	f1_balb.idr|f1_c57bl6.idr	intron (NM_018797, intron 1 of 30)	intron (NM_018797, intron 1 of 30)	17519.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	10.0	20.0	5.5	21.0	44.0	8.0	9.0	9.0
Merged-chr8-123924945-3	chr8	123924883	123925083	+	721.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172288, intron 12 of 25)	intron (NM_172288, intron 12 of 25)	24282.0	NM_172288	234865.0	Mm.267812	NM_172288	ENSMUSG00000039509	Nup133	mermaid	nucleoporin 133	protein-coding	8.0	12.5	10.5	53.5	17.0	6.0	12.5	9.0
Merged-chr5-65867516-4	chr5	65867392	65867592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081105, intron 1 of 2)	intron (NM_001081105, intron 1 of 2)	3923.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	88.5	71.5	47.5	1097.5	126.0	61.5	57.0	74.0
Merged-chr2-11712918-4	chr2	11712811	11713011	+	902.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271499, intron 1 of 6)	intron (NM_001271499, intron 1 of 6)	7199.0	NM_001271500	16169.0	Mm.200196	NM_008358	ENSMUSG00000023206	Il15ra	AA690181|IL-15RA	interleukin 15 receptor, alpha chain	protein-coding	8.5	40.5	8.5	144.5	57.0	24.0	9.0	9.5
Merged-chr7-113513235-2	chr7	113513135	113513335	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027379)	promoter-TSS (NM_027379)	-599.0	NM_001285831	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	14.5	29.0	17.5	209.0	37.5	21.0	21.0	15.5
Merged-chr13-23684817-4	chr13	23684708	23684908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178189)	promoter-TSS (NM_178189)	609.0	NM_023422	68024.0	Mm.261676	NM_023422	ENSMUSG00000018102	Hist1h2bc	2610022J01Rik|H2bfs|R74621	histone cluster 1, H2bc	protein-coding	23.5	32.5	23.5	351.0	97.0	30.5	31.0	31.0
Merged-chr18-4171889-3	chr18	4171783	4171983	+	830.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026092, intron 3 of 4)	intron (NM_026092, intron 3 of 4)	6051.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	6.5	5.5	11.5	238.0	28.0	4.0	6.5	8.5
Merged-chr8-36094951-5	chr8	36094818	36095018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172911)	promoter-TSS (NM_172911)	90.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	52.0	77.5	126.5	831.5	96.5	50.0	47.0	66.5
Merged-chr1-170555084-4	chr1	170554975	170555175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 1 of 9)	intron (NM_001109985, intron 1 of 9)	2035.0	NM_027528	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	28.0	33.5	31.0	619.0	74.5	28.5	23.0	37.0
Merged-chr16-16303450-4	chr16	16303371	16303571	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_038046, exon 1 of 5)	non-coding (NR_038046, exon 1 of 5)	506.0	NM_198246	70120.0	Mm.37486	NM_198246	ENSMUSG00000022792	Yars2	2210023C10Rik|tyrRS	tyrosyl-tRNA synthetase 2 (mitochondrial)	protein-coding	12.5	9.0	10.5	153.0	23.0	11.0	14.5	19.5
Merged-chr19-41981381-4	chr19	41981259	41981459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145500)	promoter-TSS (NM_145500)	-223.0	NM_028152	72199.0	Mm.218940	NM_028152	ENSMUSG00000025159	Mms19	2410001K24Rik|2610042O15Rik|AI316855|C79368|C86341|Mms19l	MMS19 (MET18 S. cerevisiae)	protein-coding	250.0	378.0	284.0	2774.5	693.0	307.5	311.0	295.5
Merged-chr14-121589617-3	chr14	121589536	121589736	+	871.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081039, intron 38 of 53)	intron (NM_001081039, intron 38 of 53)	-84382.0	NM_053079	56643.0	Mm.155618	NM_053079	ENSMUSG00000025557	Slc15a1	D630032F02|PECT1|PEPT1	solute carrier family 15 (oligopeptide transporter), member 1	protein-coding	9.5	11.5	7.0	123.5	16.0	2.5	1.0	2.5
Merged-chr9-106223241-4	chr9	106223150	106223350	+	940.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031178, intron 1 of 1)	intron (NM_031178, intron 1 of 1)	652.0	NM_031178	81897.0	Mm.44889	NM_031178	ENSMUSG00000045322	Tlr9	-	toll-like receptor 9	protein-coding	18.0	24.5	18.5	250.0	77.5	11.5	24.0	22.5
Merged-chr9-85325678-4	chr9	85325592	85325792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160379, intron 2 of 2)	intron (NM_001160379, intron 2 of 2)	1432.0	NM_001160378	212943.0	Mm.74610	NM_001160378	ENSMUSG00000032265	Fam46a	BAP014|D930050G01Rik	family with sequence similarity 46, member A	protein-coding	25.5	24.5	19.5	378.0	54.5	35.5	35.0	41.5
Merged-chr1-149961071-6	chr1	149960973	149961173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	217.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	26.0	28.0	41.0	315.5	68.0	22.0	26.5	24.0
Merged-chr4-59362806-4	chr4	59362686	59362886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 10 of 16)	intron (NM_001163288, intron 10 of 16)	75847.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	21.0	26.5	13.5	312.5	78.5	28.0	43.5	43.5
Merged-chr16-32866917-4	chr16	32866872	32867072	+	858.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172615, intron 1 of 18)	intron (NM_172615, intron 1 of 18)	1394.0	NM_001200038	100502698.0	Mm.327319	NM_172615	ENSMUSG00000035629	Rubcn	1700021K19Rik|5330403K09|Rubicon|mKIAA0226	RUN domain and cysteine-rich domain containing, Beclin 1-interacting protein	protein-coding	7.5	5.0	10.5	120.0	23.0	6.5	7.5	9.0
Merged-chr7-19872375-2	chr7	19872275	19872475	+	824.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11076.0	NM_001033419	330483.0	Mm.260192	NM_001033419	ENSMUSG00000014686	Ceacam16	Gm769	carcinoembryonic antigen-related cell adhesion molecule 16	protein-coding	4.0	3.5	7.5	32.5	12.0	6.0	5.5	7.0
Merged-chr18-34886153-4	chr18	34886058	34886258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24951.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	29.5	30.0	16.5	341.5	63.0	17.5	23.0	26.5
Merged-chr19-10305810-4	chr19	10305701	10305901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198114)	promoter-TSS (NM_198114)	-924.0	NM_198114	269060.0	Mm.329718	NM_198114	ENSMUSG00000035735	Dagla	Nsddr	diacylglycerol lipase, alpha	protein-coding	66.0	137.0	65.0	1082.5	131.0	43.5	51.5	34.0
Merged-chr19-32181425-4	chr19	32181309	32181509	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	29604.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	123.0	241.0	160.5	1507.0	152.0	64.0	57.0	40.0
Merged-chr10-67126464-4	chr10	67126377	67126577	+	938.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207221)	promoter-TSS (NM_207221)	-781.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	19.0	31.5	23.0	307.5	55.0	13.0	11.0	16.5
Merged-chr6-15753414-2	chr6	15753314	15753514	+	622.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	32753.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	6.5	6.0	9.5	55.0	21.0	1.5	10.0	3.0
Merged-chr8-11475895-4	chr8	11475804	11476004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	intron (NM_011227, intron 1 of 1)	-2025.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	63.5	70.0	59.0	910.5	142.5	48.0	66.5	56.0
Merged-chr11-95843157-4	chr11	95843067	95843267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163464)	promoter-TSS (NM_001163464)	-78.0	NM_001284397	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	91.0	171.0	111.5	1427.0	257.5	105.5	77.5	72.0
Merged-chr19-47399177-4	chr19	47399076	47399276	+	957.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 2 of 14)	intron (NM_008018, intron 2 of 14)	65235.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	26.5	95.0	33.0	482.5	74.5	29.0	14.5	16.0
Merged-chr10-99354093-4	chr10	99353976	99354176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90845.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	61.5	78.5	77.0	800.5	159.5	32.0	67.5	55.0
Merged-chr11-117712309-4	chr11	117712219	117712419	+	928.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 3 of 21)	intron (NM_198022, intron 3 of 21)	58030.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	18.5	16.5	14.0	167.0	35.5	10.5	13.0	15.5
Merged-chr4-138283014-4	chr4	138282924	138283124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190978, intron 6 of 11)	intron (NM_001190978, intron 6 of 11)	20773.0	NM_010623	16559.0	Mm.271936	NM_010623	ENSMUSG00000028758	Kif17	5930435E01Rik|AW492270|Kif17b|mKIAA1405	kinesin family member 17	protein-coding	59.5	112.5	22.5	515.0	141.5	46.0	57.0	42.5
Merged-chr3-142272701-4	chr3	142272537	142272737	+	949.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190854, intron 8 of 12)	PB1D11|SINE|Alu	-103212.0	NM_001277216	12167.0	Mm.39089	NM_007560	ENSMUSG00000052430	Bmpr1b	AI385617|ALK-6|AV355320|Acvrlk6|Alk6|BMPR-1B|BMPR-IB|CFK-43a|SKR6	bone morphogenetic protein receptor, type 1B	protein-coding	6.0	16.0	7.5	173.5	50.5	25.5	15.5	25.5
Merged-chr5-34372723-4	chr5	34372624	34372824	+	844.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243123, intron 1 of 20)	intron (NM_001243123, intron 1 of 20)	2791.0	NM_001243123	231128.0	Mm.286885	NM_001030306	ENSMUSG00000037210	Fam193a	-	family with sequence similarity 193, member A	protein-coding	14.5	24.5	13.0	108.5	38.5	15.0	11.5	11.5
Merged-chr12-17266498-4	chr12	17266427	17266627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027959)	promoter-TSS (NM_027959)	-68.0	NM_027959	71853.0	Mm.222825	NM_027959	ENSMUSG00000020571	Pdia6	1700015E05Rik|AL023058|C77895|CaBP5|P5|Txndc7	protein disulfide isomerase associated 6	protein-coding	204.5	277.5	158.0	3018.5	455.5	159.5	255.5	173.5
Merged-chr12-3874347-4	chr12	3874244	3874444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 6 of 22)	intron (NM_007872, intron 6 of 22)	-12100.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	23.0	36.0	29.0	448.0	72.0	20.0	37.5	17.0
Merged-chr9-58583366-6	chr9	58583263	58583463	+	782.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151824, intron 1 of 7)	intron (NR_151824, intron 1 of 7)	1123.0	NM_001357751	20320.0	Mm.15125	NM_009145	ENSMUSG00000032336	Nptn	AW554172|SDR-1|Sdfr1	neuroplastin	protein-coding	11.0	28.5	9.0	239.0	46.0	13.0	15.5	25.0
Merged-chr10-56163171-3	chr10	56163062	56163262	+	646.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033385, intron 15 of 32)	intron (NM_001033385, intron 15 of 32)	56245.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	2.0	4.5	7.5	83.0	25.0	9.0	14.0	11.0
Merged-chr8-105706076-2	chr8	105705976	105706176	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_198299, intron 4 of 7)	ID_B1|SINE|B4	2092.0	NM_198299	102124.0	Mm.276087	NM_198299	ENSMUSG00000013155	Enkd1	AI606951|E130303B06Rik	enkurin domain containing 1	protein-coding	4.0	3.5	3.0	24.0	14.0	6.0	6.5	11.5
Merged-chr15-78864053-4	chr15	78863949	78864149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-8520.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	40.5	73.5	41.0	492.5	117.5	38.0	44.5	57.0
Merged-chr3-60508189-4	chr3	60508092	60508292	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	MIR|SINE|MIR	7013.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	19.5	32.5	26.5	402.0	43.0	22.5	19.5	31.5
Merged-chr3-19627252-4	chr3	19627158	19627358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17202.0	NM_001081281	381485.0	Mm.35419	NM_001081281	ENSMUSG00000060913	Trim55	D830041C10Rik|Murf2|Rnf29	tripartite motif-containing 55	protein-coding	107.0	131.0	124.5	2029.0	270.5	83.5	97.0	123.5
Merged-chr9-55283749-3	chr9	55283641	55283841	+	783.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_032002)	promoter-TSS (NM_032002)	-116.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	8.5	13.5	8.0	140.5	21.0	10.0	9.0	3.5
Merged-chr10-40882374-6	chr10	40882313	40882513	+	939.154785	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027879, intron 1 of 14)	intron (NM_027879, intron 1 of 14)	730.0	NM_027879	71713.0	Mm.46063	NM_027879	ENSMUSG00000038446	Cdc40	1200003H23Rik|EHB3|PRP17	cell division cycle 40	protein-coding	10.5	16.0	11.0	118.5	21.0	5.0	5.5	9.0
Merged-chr5-62853435-4	chr5	62853350	62853550	+	816.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 7 of 8)	intron (NM_001170705, intron 7 of 8)	39627.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	41.5	44.0	51.5	958.5	21.5	4.5	9.0	7.5
Merged-chr12-55414904-2	chr12	55414804	55415004	+	588.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 6 of 6)	(CAAAA)n|Simple_repeat|Simple_repeat	16079.0	NM_011968	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	6.0	10.0	10.0	46.5	7.0	2.0	1.5	5.5
Merged-chr9-108843141-4	chr9	108843044	108843244	+	893.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359573, exon 25 of 36)	exon (NM_001359573, exon 25 of 36)	-10899.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	9.5	21.5	8.5	193.5	51.5	10.0	34.5	22.0
Merged-chr15-81585254-4	chr15	81585159	81585359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177821)	promoter-TSS (NM_177821)	-955.0	NM_177821	328572.0	Mm.258397	NM_177821	ENSMUSG00000055024	Ep300	A430090G16|A730011L11|KAT3B|p300|p300 HAT	E1A binding protein p300	protein-coding	144.5	250.0	117.5	1822.5	398.0	169.0	165.0	161.5
Merged-chr4-126489934-4	chr4	126489807	126490007	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153177, exon 18 of 18)	3' UTR (NM_153177, exon 18 of 18)	-21324.0	NM_153403	236511.0	Mm.30800	NM_153403	ENSMUSG00000041530	Ago1	Eif2c1	argonaute RISC catalytic subunit 1	protein-coding	17.0	41.0	19.0	359.5	70.5	24.0	18.5	21.0
Merged-chr11-8708841-4	chr11	8708745	8708945	+	966.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44310.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	26.5	18.0	11.5	455.5	66.0	18.0	26.5	35.0
Merged-chr4-129335444-4	chr4	129335366	129335566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025970)	promoter-TSS (NM_025970)	-96.0	NM_009030	19646.0	Mm.12145	NM_009030	ENSMUSG00000057236	Rbbp4	RBAP48|mRbAp48	retinoblastoma binding protein 4, chromatin remodeling factor	protein-coding	215.0	372.0	155.5	2349.5	553.5	256.5	199.0	220.5
Merged-chr17-24895206-4	chr17	24895135	24895335	+	978.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163102)	promoter-TSS (NM_001163102)	115.0	NM_023260	79044.0	Mm.328851	NM_023260	ENSMUSG00000038880	Mrps34	0610007F04Rik|5330430D13Rik|AV001970|Tce2	mitochondrial ribosomal protein S34	protein-coding	9.0	29.0	32.5	288.5	32.0	18.5	14.5	22.5
Merged-chr6-72051947-3	chr6	72051843	72052043	+	915.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9415.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	10.0	14.0	5.0	134.5	17.5	5.0	10.0	15.5
Merged-chr11-53796957-4	chr11	53796855	53797055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	26482.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	70.0	133.5	55.5	544.5	197.0	46.5	60.0	37.0
Merged-chr6-114457539-4	chr6	114457430	114457630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317124)	promoter-TSS (NM_001317124)	-992.0	NM_001317124	15465.0	Mm.333327	NM_008285	ENSMUSG00000053004	Hrh1	Bphs|H1R|HH1R|Hir	histamine receptor H1	protein-coding	86.0	104.0	112.0	1621.5	248.0	72.0	105.5	110.5
Merged-chr7-71379191-3	chr7	71379113	71379313	+	718.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-530482.0	NR_130995	78156.0	Mm.243818	NR_130995	ENSMUSG00000108669	4930441H08Rik	-	RIKEN cDNA 4930441H08 gene	ncRNA	6.5	7.5	11.5	115.5	4.0	1.0	2.0	3.0
Merged-chr2-84429926-3	chr2	84429828	84430028	+	859.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4662.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	8.5	8.0	2.5	113.0	20.5	6.5	8.5	4.5
Merged-chr9-107597689-4	chr9	107597593	107597793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_111986)	TTS (NR_111986)	7709.0	NM_009153	20347.0	Mm.4083	NM_009153	ENSMUSG00000057969	Sema3b	SemA|Semaa|sema5|semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	protein-coding	48.0	53.0	110.0	944.0	100.5	49.5	94.0	53.5
Merged-chr2-50296624-4	chr2	50296540	50296740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040361)	promoter-TSS (NR_040361)	161.0	NM_001348200	109129.0	Mm.29214	NM_133839	ENSMUSG00000026766	Mmadhc	2010311D03Rik|AI314967|CblD	methylmalonic aciduria (cobalamin deficiency) cblD type, with homocystinuria	protein-coding	153.0	251.5	317.0	2208.0	333.0	174.0	187.0	185.0
Merged-chr11-34030690-4	chr11	34030584	34030784	+	890.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-16244.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	11.0	26.0	11.0	309.0	33.5	4.0	12.0	6.0
Merged-chr14-70470424-3	chr14	70470340	70470540	+	781.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12923.0	NM_145981	105653.0	Mm.192598	NM_145981	ENSMUSG00000003469	Phyhip	AW049870|C630010D02Rik|Lnap1ip|PAHX-AP#1|PAHX-AP1	phytanoyl-CoA hydroxylase interacting protein	protein-coding	4.0	8.5	4.0	71.0	17.0	6.5	4.5	5.5
Merged-chr19-29500547-4	chr19	29500449	29500649	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21438.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	18.0	24.5	23.5	334.5	45.0	8.5	9.0	17.0
Merged-chr13-46927029-4	chr13	46926909	46927109	+	835.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010617, intron 2 of 37)	intron (NM_010617, intron 2 of 37)	2709.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	19.5	15.5	10.0	71.5	26.5	3.5	10.0	12.0
Merged-chr6-90653951-2	chr6	90653851	90654051	+	757.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34705.0	NM_001037493	71699.0	Mm.272633	NM_027868	ENSMUSG00000030089	Slc41a3	1010001P06Rik|AI480742|SLC41A1-L2	solute carrier family 41, member 3	protein-coding	3.5	4.5	1.5	21.0	16.0	6.0	5.5	8.5
Merged-chr5-102481578-4	chr5	102481489	102481689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029270, exon 1 of 10)	5' UTR (NM_029270, exon 1 of 10)	198.0	NM_029270	231532.0	Mm.440191	NM_029270	ENSMUSG00000057315	Arhgap24	0610025G21Rik	Rho GTPase activating protein 24	protein-coding	35.0	74.0	47.0	338.0	78.5	26.0	34.0	28.0
Merged-chr9-107563229-4	chr9	107563144	107563344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019742)	promoter-TSS (NM_019742)	-11.0	NM_019742	80385.0	Mm.21739	NM_019742	ENSMUSG00000010054	Tusc2	1190001E22Rik|AA407686|Fus1|Lgcc|PAP|Pdap2	tumor suppressor candidate 2	protein-coding	137.0	145.0	73.5	1643.0	263.5	93.5	172.0	132.5
Merged-chr2-90612368-4	chr2	90612262	90612462	+	921.462524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31715.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	6.5	16.0	15.0	173.0	27.0	18.5	16.5	20.5
Merged-chr5-120116472-4	chr5	120116366	120116566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028762)	promoter-TSS (NM_028762)	-47.0	NM_028762	74111.0	Mm.41022	NM_028762	ENSMUSG00000029594	Rbm19	1200009A02Rik|AV302714|NPO	RNA binding motif protein 19	protein-coding	75.5	94.5	30.0	692.5	205.0	62.0	75.5	68.5
Merged-chr1-189007819-4	chr1	189007724	189007924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172650)	promoter-TSS (NM_172650)	16.0	NM_001359577	226823.0	Mm.209880	NM_172650	ENSMUSG00000026608	Kctd3	4930438A20Rik|9330185B06|E330032J19Rik|NY-REN-45	potassium channel tetramerisation domain containing 3	protein-coding	108.0	133.5	74.5	1334.0	243.0	105.5	76.5	78.0
Merged-chr2-163764014-3	chr2	163763906	163764106	+	835.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13767.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	13.0	22.5	11.0	374.0	3.5	1.5	0.0	2.5
Merged-chr14-73446140-3	chr14	73446044	73446244	+	977.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60855.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	18.5	18.5	13.5	138.0	34.5	16.0	8.0	8.0
Merged-chr9-67043955-4	chr9	67043849	67044049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164254)	promoter-TSS (NM_001164254)	-78.0	NM_001164256	22003.0	Mm.121878	NM_024427	ENSMUSG00000032366	Tpm1	AA986836|AI854628|TM2|TPM1kappa|Tm3|Tmpa|Tpm-1|alpha-TM	tropomyosin 1, alpha	protein-coding	156.0	173.5	92.5	2131.5	142.0	98.0	95.5	64.5
Merged-chr2-91138758-4	chr2	91138675	91138875	+	863.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177719, intron 33 of 34)	intron (NM_001177719, intron 33 of 34)	20631.0	NM_008653	17868.0	Mm.10728	NM_008653	ENSMUSG00000002100	Mybpc3	-	myosin binding protein C, cardiac	protein-coding	11.0	11.0	10.5	155.5	25.5	11.0	15.0	17.5
Merged-chr4-136181655-2	chr4	136181567	136181767	+	616.333374	f0_balb.idr|f1_balb.idr	intron (NM_177733, intron 4 of 6)	intron (NM_177733, intron 4 of 6)	885.0	NM_001305399	242705.0	Mm.307932	NM_177733	ENSMUSG00000018983	E2f2	E2F-2	E2F transcription factor 2	protein-coding	8.0	8.5	8.0	63.0	9.5	2.5	1.5	2.0
Merged-chr9-66158204-4	chr9	66158085	66158285	+	965.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010019)	promoter-TSS (NM_010019)	-41.0	NM_010019	13143.0	Mm.304472	NM_010019	ENSMUSG00000032380	Dapk2	-	death-associated protein kinase 2	protein-coding	11.0	23.5	12.5	314.5	51.5	25.5	31.0	22.5
Merged-chr2-125782785-4	chr2	125782687	125782887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177608)	promoter-TSS (NM_177608)	83.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	75.5	110.0	93.5	1473.0	295.0	92.0	98.5	77.5
Merged-chr4-44973615-4	chr4	44973521	44973721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7773.0	NM_080289	76238.0	Mm.196574	NM_080289	ENSMUSG00000035637	Grhpr	1110059D05Rik|6430629L09Rik|Glxr	glyoxylate reductase/hydroxypyruvate reductase	protein-coding	27.5	47.5	22.5	400.5	40.5	21.5	36.5	27.5
Merged-chr5-125314137-3	chr5	125314040	125314240	+	764.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205083, intron 1 of 10)	intron (NM_001205083, intron 1 of 10)	26954.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	4.5	9.0	5.5	97.5	15.0	5.5	7.0	12.5
Merged-chr9-123113064-6	chr9	123112958	123113158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081188)	promoter-TSS (NM_001081188)	147.0	NM_026917	69035.0	Mm.28300	NM_026917	ENSMUSG00000025786	Zdhhc3	1110020O22Rik|1810006O10Rik|2210017C02Rik|DHHC-3|GODZ|Gramp1|Zfp373	zinc finger, DHHC domain containing 3	protein-coding	36.0	99.0	109.5	640.5	191.0	90.5	96.0	95.5
Merged-chr17-5440547-8	chr17	5440459	5440659	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027457)	promoter-TSS (NM_027457)	-299.0	NM_027457	70544.0	Mm.46654	NM_027457	ENSMUSG00000004945	Tmem242	1110008A10Rik|2310046K16Rik|5730437N04Rik	transmembrane protein 242	protein-coding	18.0	18.0	20.0	185.0	28.5	19.5	20.0	38.0
Merged-chr17-72934314-3	chr17	72934197	72934397	+	768.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029999, intron 2 of 2)	intron (NM_029999, intron 2 of 2)	15992.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	16.0	10.5	11.0	215.0	27.0	6.0	4.0	2.5
Merged-chr1-64305709-4	chr1	64305577	64305777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-184288.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	89.5	221.5	179.0	1722.0	331.0	143.0	106.0	105.0
Merged-chr1-185364192-1	chr1	185364092	185364292	+	740.75	f0_balb.idr	intron (NM_001357474, intron 1 of 32)	intron (NM_001357474, intron 1 of 32)	1148.0	NM_001357474	107508.0	Mm.154511	NM_029735	ENSMUSG00000026615	Eprs	2410081F06Rik|3010002K18Rik|C79379|Qprs	glutamyl-prolyl-tRNA synthetase	protein-coding	9.0	9.0	8.0	165.5	4.5	4.0	3.0	21.0
Merged-chr5-104074524-3	chr5	104074424	104074624	+	691.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163772, intron 4 of 9)	intron (NM_001163772, intron 4 of 9)	3084.0	NM_001163772	100271704.0	Mm.366664	NM_001163772	ENSMUSG00000091034	Gm17660	Scpppq1	predicted gene, 17660	protein-coding	7.0	12.5	5.0	76.0	6.5	1.5	1.5	5.5
Merged-chr12-100684714-4	chr12	100684599	100684799	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 1 of 17)	L1MB2|LINE|L1	40421.0	NM_001330702	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	12.5	25.0	8.0	148.0	17.0	19.5	5.5	10.0
Merged-chr11-48813340-3	chr11	48813264	48813464	+	748.766663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145377, intron 1 of 5)	intron (NM_145377, intron 1 of 5)	4027.0	NM_145377	211007.0	Mm.794	NM_145377	ENSMUSG00000040365	Trim41	AW552703|BC020156|R75223|RINCK	tripartite motif-containing 41	protein-coding	7.5	4.5	11.0	154.0	13.5	3.5	4.5	6.5
Merged-chr5-117363600-1	chr5	117363500	117363700	+	825.0	f1_balb.idr	exon (NM_021539, exon 2 of 9)	exon (NM_021539, exon 2 of 9)	6295.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	7.0	8.5	9.5	110.5	11.0	0.5	0.5	5.5
Merged-chr11-102578875-4	chr11	102578778	102578978	+	977.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040286, exon 2 of 3)	non-coding (NR_040286, exon 2 of 3)	241.0	NR_040286	100040792.0	Mm.277966	NR_040286	ENSMUSG00000078640	Gm11627	-	predicted gene 11627	ncRNA	52.5	40.5	20.0	317.5	90.5	31.0	18.5	21.5
Merged-chr13-17836937-4	chr13	17836850	17837050	+	913.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31853.0	NM_027118	69562.0	Mm.193924	NM_027118	ENSMUSG00000041297	Cdk13	2310015O17Rik|Cdc2l5	cyclin-dependent kinase 13	protein-coding	27.5	24.0	35.5	477.5	42.0	23.0	15.0	21.0
Merged-chr5-117357691-4	chr5	117357594	117357794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 1 of 8)	CpG	389.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	18.0	28.0	45.0	387.0	83.5	27.5	24.5	39.0
Merged-chr7-101538722-4	chr7	101538630	101538830	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17072.0	NM_007490	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	23.0	43.0	15.5	282.5	47.0	31.0	16.5	24.5
Merged-chr2-152741867-4	chr2	152741760	152741960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5609.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	44.5	72.0	52.0	727.5	138.0	57.5	44.5	66.5
Merged-chr11-78177532-4	chr11	78177423	78177623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291235)	promoter-TSS (NM_001291235)	-626.0	NM_001291235	68385.0	Mm.390375	NM_026708	ENSMUSG00000019437	Tlcd1	-	TLC domain containing 1	protein-coding	31.5	30.0	18.0	286.0	61.5	23.0	25.0	21.5
Merged-chr4-132329517-4	chr4	132329422	132329622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027925)	promoter-TSS (NM_027925)	16.0	NM_027925	71787.0	Mm.239183	NM_027925	ENSMUSG00000028898	Trnau1ap	1110007F05Rik|AA387999|Secp43|Trspap1|WI1-2643G14.2	tRNA selenocysteine 1 associated protein 1	protein-coding	90.5	102.5	69.5	982.0	240.5	101.5	112.0	86.5
Merged-chr4-53826001-4	chr4	53825902	53826102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028053)	promoter-TSS (NM_028053)	-43.0	NM_028053	52076.0	Mm.27184	NM_028053	ENSMUSG00000028420	Tmem38b	1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b	transmembrane protein 38B	protein-coding	65.5	141.5	78.0	976.0	174.0	55.5	56.0	49.0
Merged-chr10-117150126-4	chr10	117150072	117150272	+	948.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1698.0	NM_177798	327826.0	Mm.135965	NM_177798	ENSMUSG00000020170	Frs2	4732458E18|C330018A15Rik|Frs2alpha|SNT1	fibroblast growth factor receptor substrate 2	protein-coding	19.5	17.0	12.5	266.5	25.0	13.5	8.0	15.5
Merged-chr9-42945368-4	chr9	42945316	42945516	+	928.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1045.0	NM_175481	110637.0	Mm.370291	NM_175481	ENSMUSG00000032017	Grik4	6330551K01Rik|GluK4|GluRgamma1|KA-1|KA1	glutamate receptor, ionotropic, kainate 4	protein-coding	8.0	14.0	10.0	153.0	28.0	8.5	6.5	23.0
Merged-chr4-95008393-3	chr4	95008297	95008497	+	713.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29297.0	NM_177239	320713.0	Mm.208868	NM_177239	ENSMUSG00000062627	Mysm1	C130067A03Rik|C530050H10Rik	myb-like, SWIRM and MPN domains 1	protein-coding	5.5	11.5	15.5	95.0	16.0	9.0	7.5	11.0
Merged-chr14-33248761-4	chr14	33248673	33248873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	31950.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	32.0	38.0	31.0	714.5	83.5	27.5	27.5	35.5
Merged-chr12-51938142-4	chr12	51938045	51938245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177171, exon 13 of 36)	exon (NM_177171, exon 13 of 36)	33176.0	NM_177171	320487.0	Mm.131941	NM_177171	ENSMUSG00000035181	Heatr5a	C230081H03Rik|D930036F22Rik|mKIAA1316	HEAT repeat containing 5A	protein-coding	86.0	129.0	111.5	2036.0	184.5	52.0	118.0	83.5
Merged-chr4-132974153-4	chr4	132974094	132974294	+	932.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010208)	promoter-TSS (NM_010208)	99.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	40.0	25.5	6.5	167.5	32.0	9.5	11.0	14.0
Merged-chr17-42910628-4	chr17	42910523	42910723	+	958.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-34199.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	17.5	27.0	11.0	171.5	164.5	52.5	41.0	30.0
Merged-chr11-99186310-4	chr11	99186228	99186428	+	894.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31251.0	NM_007719	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	11.0	21.5	13.0	63.5	52.5	11.0	7.5	7.5
Merged-chr1-159187025-4	chr1	159186928	159187128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45172.0	NM_001360878	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	154.0	187.5	208.5	2371.5	236.0	87.5	143.5	110.0
Merged-chr7-127185773-2	chr7	127185673	127185873	+	935.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10304.0	NM_001285907	70233.0	Mm.28050	NM_027353	ENSMUSG00000042502	Cd2bp2	1500011B02Rik|2410024K20Rik|AW048183	CD2 antigen (cytoplasmic tail) binding protein 2	protein-coding	7.0	11.5	1.0	44.5	14.0	6.0	5.0	15.5
Merged-chr1-170176962-4	chr1	170176854	170177054	+	943.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1990.0	NM_001305045	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	19.0	9.5	10.5	158.0	45.0	13.5	23.0	8.5
Merged-chr4-128698559-5	chr4	128698393	128698593	+	795.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018774, intron 1 of 14)	intron (NM_018774, intron 1 of 14)	9755.0	NM_018774	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	5.5	9.5	4.5	49.5	6.5	6.0	1.0	5.5
Merged-chr3-59208190-4	chr3	59208101	59208301	+	905.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028808, exon 2 of 2)	3' UTR (NM_028808, exon 2 of 2)	2681.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	13.5	20.0	23.0	165.0	27.0	14.5	6.0	10.5
Merged-chr15-96474850-4	chr15	96474800	96475000	+	796.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14057.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	2.5	7.5	8.5	86.5	17.0	5.0	8.0	8.0
Merged-chr6-115288424-3	chr6	115288327	115288527	+	711.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-36222.0	NM_001356406	110595.0	Mm.255607	NM_080639	ENSMUSG00000030317	Timp4	Timp-4	tissue inhibitor of metalloproteinase 4	protein-coding	3.0	8.5	3.5	200.5	11.0	9.0	9.0	11.5
Merged-chr17-33799458-4	chr17	33799368	33799568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-11055.0	NM_001357162	80880.0	Mm.196330	NM_030697	ENSMUSG00000042099	Kank3	0610013D04Rik|Ankrd47|D17Ertd288e|NG28	KN motif and ankyrin repeat domains 3	protein-coding	66.0	89.5	49.5	709.0	115.5	36.0	37.5	55.5
Merged-chr7-80696581-1	chr7	80696481	80696681	+	669.0	f0_c57.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-7704.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	6.5	10.5	1.0	12.5	12.0	12.0	4.5	11.0
Merged-chr19-47216923-3	chr19	47216816	47217016	+	844.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021360, intron 1 of 5)	ID_B1|SINE|B4	-11927.0	NM_001163480	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	18.0	17.0	21.5	290.0	7.5	0.5	3.0	5.0
Merged-chr6-48593838-4	chr6	48593741	48593941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001079901)	promoter-TSS (NM_001079901)	-42.0	NM_001079905	58887.0	Mm.219183	NM_175099	ENSMUSG00000052751	Repin1	AI425994|Ap4|E430037F08Rik|Zfp-464|Zfp464	replication initiator 1	protein-coding	74.5	90.0	59.0	993.5	132.5	57.5	77.5	77.5
Merged-chr6-38354477-4	chr6	38354376	38354576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347122, exon 1 of 13)	5' UTR (NM_001347122, exon 1 of 13)	127.0	NM_001347122	78781.0	Mm.25243	NM_028421	ENSMUSG00000029826	Zc3hav1	1200014N16Rik|2900058M19Rik|9130009D18Rik|9830115L13Rik|ARTD13|D6Bwg1452e|ZAP	zinc finger CCCH type, antiviral 1	protein-coding	174.0	389.0	236.0	2027.5	438.0	217.5	189.0	144.5
Merged-chr15-99065848-4	chr15	99065761	99065961	+	959.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	BGLII_B|LTR|ERVK	8808.0	NR_155351	102637490.0	Mm.421289	NR_155351	ENSMUSG00000116371	Gm34284	-	predicted gene, 34284	ncRNA	32.0	109.5	20.0	96.0	95.5	44.5	25.5	18.5
Merged-chr19-4136148-4	chr19	4136121	4136321	+	896.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144532, exon 5 of 6)	exon (NM_144532, exon 5 of 6)	3388.0	NM_144532	73660.0	Mm.379226	NM_144532	ENSMUSG00000024842	Cabp4	2410038D05Rik	calcium binding protein 4	protein-coding	18.0	25.0	10.5	48.0	14.0	7.0	6.5	7.0
Merged-chr11-117968503-5	chr11	117968477	117968677	+	896.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007707, intron 1 of 1)	CpG	789.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	8.5	17.5	15.5	43.5	26.5	10.0	5.0	11.5
Merged-chr10-59748989-1	chr10	59748889	59749089	+	663.0	f0_balb.idr	intron (NM_001359267, intron 4 of 11)	L1MEf|LINE|L1	46426.0	NM_001291443	216001.0	Mm.27199	NM_144822	ENSMUSG00000020111	Micu1	C730016L05Rik|Calc|Cbara1	mitochondrial calcium uptake 1	protein-coding	7.0	5.5	8.0	104.5	7.5	2.0	3.5	3.0
Merged-chr3-86224750-4	chr3	86224612	86224812	+	816.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030695)	promoter-TSS (NM_030695)	22.0	NM_001077688	80877.0	Mm.439825	NM_030695	ENSMUSG00000028080	Lrba	C80285|D3Ertd775e|Lab300|Lba	LPS-responsive beige-like anchor	protein-coding	14.5	14.5	3.5	185.0	22.0	7.5	14.0	18.0
Merged-chr5-90881885-4	chr5	90881790	90881990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9355.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	163.0	159.5	148.0	1572.0	259.5	102.0	116.5	114.0
Merged-chr2-24386483-4	chr2	24386351	24386551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355232)	promoter-TSS (NM_001355232)	-165.0	NM_001355232	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	36.0	40.0	30.5	243.0	67.5	18.5	17.5	23.5
Merged-chr13-6461586-4	chr13	6461481	6461681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86576.0	NM_145131	69617.0	Mm.41933	NM_145131	ENSMUSG00000021193	Pitrm1	2310012C15Rik|AA410010|MP-1|MP1|Ntup1|PreP|mKIAA1104	pitrilysin metallepetidase 1	protein-coding	41.5	68.5	99.0	1088.5	57.5	30.0	45.5	25.5
Merged-chr12-84515710-3	chr12	84515635	84515835	+	889.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173756, intron 5 of 5)	intron (NM_173756, intron 5 of 5)	-54093.0	NM_007701	12677.0	Mm.4405	NM_007701	ENSMUSG00000021239	Vsx2	Chx10|Hox-10|Hox10|or	visual system homeobox 2	protein-coding	12.0	14.0	19.5	131.5	12.5	5.0	6.5	13.0
Merged-chr3-27439859-4	chr3	27439754	27439954	+	996.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356953, intron 24 of 26)	intron (NM_001356953, intron 24 of 26)	68503.0	NM_177330	208188.0	Mm.194721	NM_177330	ENSMUSG00000051136	Ghsr	C530020I22Rik|GHRP|GHS-R|Ghsr1a	growth hormone secretagogue receptor	protein-coding	31.5	42.0	50.5	727.0	60.5	25.0	31.0	17.0
Merged-chr13-34344286-5	chr13	34344171	34344371	+	723.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033167, exon 1 of 11)	exon (NM_001033167, exon 1 of 11)	911.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	7.5	7.0	8.0	67.5	1.0	3.0	4.0	8.0
Merged-chr19-55256456-4	chr19	55256338	55256538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027976, intron 1 of 21)	L1MB5|LINE|L1	3069.0	NM_027976	433256.0	Mm.292056	NM_027976	ENSMUSG00000024981	Acsl5	1700030F05Rik|ACS2|ACS5|Facl5	acyl-CoA synthetase long-chain family member 5	protein-coding	51.0	55.0	55.5	700.5	94.5	21.0	74.5	44.0
Merged-chr16-10500916-4	chr16	10500803	10501003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302619, intron 2 of 19)	MTEb|LTR|ERVL-MaLR	11122.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	32.0	31.0	21.0	323.0	89.0	25.0	40.5	34.0
Merged-chr9-108853081-4	chr9	108852952	108853152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134420)	promoter-TSS (NM_134420)	-991.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	40.5	61.0	47.0	566.5	83.0	38.5	33.0	32.5
Merged-chr19-4304422-4	chr19	4304340	4304540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290818, intron 1 of 20)	intron (NM_001290818, intron 1 of 20)	1782.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	35.0	42.0	35.5	626.0	87.0	33.5	32.5	42.0
Merged-chr8-126474901-6	chr8	126474766	126474966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001159907, exon 1 of 30)	exon (NM_001159907, exon 1 of 30)	199.0	NM_001159907	212728.0	Mm.482479	NM_001159907	ENSMUSG00000090290	Tarbp1	Gm17296|Gm179	TAR RNA binding protein 1	protein-coding	33.0	41.5	45.0	341.0	62.5	25.5	20.0	29.0
Merged-chr9-61374571-4	chr9	61374392	61374592	+	756.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083928, intron 2 of 19)	intron (NM_001083928, intron 2 of 19)	2126.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	8.5	8.0	6.0	62.0	11.5	9.5	6.0	9.5
Merged-chr1-50962775-1	chr1	50962675	50962875	+	606.0	f0_balb.idr	intron (NM_019790, intron 4 of 9)	intron (NM_019790, intron 4 of 9)	35252.0	NM_019790	56363.0	Mm.245154	NM_019790	ENSMUSG00000026109	Tmeff2	4832418D20Rik|7630402F16Rik|TR-2	transmembrane protein with EGF-like and two follistatin-like domains 2	protein-coding	9.0	5.0	9.0	87.5	1.5	2.5	3.0	3.0
Merged-chr4-132959027-2	chr4	132958927	132959127	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15068.0	NM_010208	14191.0	Mm.271665	NM_010208	ENSMUSG00000028874	Fgr	-	FGR proto-oncogene, Src family tyrosine kinase	protein-coding	2.5	9.5	12.0	55.5	14.5	6.5	8.0	10.0
Merged-chr4-83328212-4	chr4	83328132	83328332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4043.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	23.0	29.5	40.0	663.0	123.5	31.0	47.0	44.0
Merged-chr16-57495894-4	chr16	57495781	57495981	+	897.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-53361.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	7.0	18.5	4.0	180.5	12.0	7.5	5.0	13.0
Merged-chr6-97430472-4	chr6	97430389	97430589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	28797.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	48.0	45.5	33.0	408.0	66.5	35.0	21.0	27.5
Merged-chr16-65577432-2	chr16	65577334	65577534	+	809.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14737.0	NM_026879	68942.0	Mm.432944	NM_026879	ENSMUSG00000004843	Chmp2b	1190006E07Rik	charged multivesicular body protein 2B	protein-coding	2.5	0.0	3.5	73.0	20.0	5.0	7.5	5.0
Merged-chr11-87527587-4	chr11	87527481	87527681	+	987.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 18 of 30)	RMER1C|Other|Other	-50808.0	NM_001361936	18952.0	Mm.2214	NM_011129	ENSMUSG00000020486	Sept4	ARTS|Bh5|Pnutl2	septin 4	protein-coding	21.0	22.5	15.5	364.5	59.5	15.5	12.0	25.5
Merged-chr8-10831002-4	chr8	10830882	10831082	+	981.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51472.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	19.0	8.0	11.5	276.5	40.0	14.5	16.5	18.0
Merged-chr12-51692079-4	chr12	51691977	51692177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_052973)	promoter-TSS (NM_052973)	-163.0	NM_052973	94186.0	Mm.65979	NM_052973	ENSMUSG00000020954	Strn3	Gs2na|SG2NA	striatin, calmodulin binding protein 3	protein-coding	174.5	320.0	311.0	3526.5	524.0	215.5	289.0	204.5
Merged-chr17-48230883-4	chr17	48230770	48230970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER54A|LTR|ERVL	-1869.0	NM_001347399	58217.0	Mm.248352	NM_021406	ENSMUSG00000042265	Trem1	-	triggering receptor expressed on myeloid cells 1	protein-coding	26.0	46.5	35.0	543.0	57.5	19.5	54.5	22.5
Merged-chr13-29983728-2	chr13	29983634	29983834	+	890.583374	f0_balb.idr|f0_c57.idr	intron (NM_010093, intron 1 of 6)	intron (NM_010093, intron 1 of 6)	657.0	NM_001289920	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	7.0	7.5	16.0	118.5	42.0	18.0	14.5	22.0
Merged-chr2-173083872-3	chr2	173083764	173083964	+	792.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	35661.0	NM_001081387	664799.0	Mm.389396	NM_001081387	ENSMUSG00000070495	Ctcfl	Boris	CCCTC-binding factor (zinc finger protein)-like	protein-coding	8.0	8.0	8.0	110.0	14.0	0.0	8.0	8.0
Merged-chr1-71102529-4	chr1	71102420	71102620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007525, intron 1 of 10)	CpG	452.0	NM_007525	12021.0	Mm.10764	NM_007525	ENSMUSG00000026196	Bard1	-	BRCA1 associated RING domain 1	protein-coding	47.5	52.5	42.5	629.0	140.5	56.5	74.0	54.0
Merged-chr1-155099650-4	chr1	155099559	155099759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010500)	promoter-TSS (NM_010500)	-23.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	164.0	260.0	146.0	1518.0	468.0	168.0	187.0	186.5
Merged-chr1-85111789-3	chr1	85111691	85111891	+	654.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1938.0	NM_213615	381287.0	Mm.487565	NM_213615	ENSMUSG00000089844	A530032D15Rik	Gm1888	RIKEN cDNA A530032D15Rik gene	protein-coding	15.0	32.5	11.5	116.0	21.0	6.0	5.0	8.5
Merged-chr7-16104144-6	chr7	16104004	16104204	+	874.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025898, intron 1 of 10)	intron (NM_025898, intron 1 of 10)	5524.0	NM_025898	108124.0	Mm.104540	NM_025898	ENSMUSG00000006024	Napa	1500039N14Rik|AW209189|RA81|SNAP-alpha|SNAPA|SNARE|a-SNAP|hyh	N-ethylmaleimide sensitive fusion protein attachment protein alpha	protein-coding	11.0	28.0	10.0	288.0	37.0	11.5	10.0	14.5
Merged-chr9-94668871-4	chr9	94668777	94668977	+	993.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1015.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	27.5	31.0	24.0	556.0	51.0	25.5	25.5	18.0
Merged-chr11-29875009-4	chr11	29874928	29875128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 7 of 41)	RMER16_Mm|LTR|ERVK	-49360.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	59.0	56.0	79.5	696.0	104.0	27.5	53.0	49.0
Merged-chr13-113794410-4	chr13	113794294	113794494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172595)	promoter-TSS (NM_172595)	-114.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	209.5	315.5	243.0	3465.5	599.0	185.5	291.0	201.0
Merged-chr12-35042083-4	chr12	35041968	35042168	+	978.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5121.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	24.0	31.0	16.0	344.5	17.0	7.5	14.0	11.5
Merged-chr7-100952867-4	chr7	100952786	100952986	+	861.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183168, intron 1 of 2)	intron (NM_183168, intron 1 of 2)	11480.0	NM_183168	233571.0	Mm.235193	NM_183168	ENSMUSG00000048779	P2ry6	2010204J23Rik|P2Y6	pyrimidinergic receptor P2Y, G-protein coupled, 6	protein-coding	12.0	13.5	16.0	416.5	17.5	6.0	25.5	13.0
Merged-chr6-49973706-3	chr6	49973606	49973806	+	775.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136535.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	4.5	9.5	7.0	131.0	14.0	4.0	3.0	2.5
Merged-chr17-17887940-4	chr17	17887812	17888012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008039)	promoter-TSS (NM_008039)	88.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	17.5	45.0	18.5	362.0	78.0	25.5	29.5	23.5
Merged-chr5-3360100-4	chr5	3359996	3360196	+	912.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 2 of 7)	MTE2a|LTR|ERVL-MaLR	16203.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	13.5	25.0	15.0	165.5	38.0	12.5	26.5	15.0
Merged-chr4-53353650-4	chr4	53353560	53353760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-83428.0	NR_033139	381524.0	Mm.23351	NM_001033454	ENSMUSG00000086712	AI427809	Gm1659	expressed sequence AI427809	ncRNA	264.5	339.0	294.0	4369.0	583.5	198.0	230.5	243.0
Merged-chr6-83005011-4	chr6	83004879	83005079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033079, intron 5 of 9)	intron (NM_033079, intron 5 of 9)	28492.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	112.5	106.0	78.0	1573.5	234.5	81.5	131.5	134.5
Merged-chr14-19415802-4	chr14	19415708	19415908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GSAT_MM|Satellite|Satellite	186779.0	NM_001024706	432825.0	Mm.327147	NM_001024706	ENSMUSG00000095024	Gm5458	EG432825	predicted gene 5458	protein-coding	168.0	97.5	176.5	4467.0	306.5	120.0	128.0	296.5
Merged-chr15-89211291-4	chr15	89211202	89211402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027805)	promoter-TSS (NM_027805)	-257.0	NM_026813	71474.0	Mm.184055	NM_026813	ENSMUSG00000036561	Ppp6r2	1110033O10Rik|8430411H09Rik|B230107H12Rik|Pp6r2|Saps2	protein phosphatase 6, regulatory subunit 2	protein-coding	38.0	77.0	47.5	448.5	101.0	42.0	35.5	50.5
Merged-chr4-11016721-4	chr4	11016638	11016838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9119.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	67.5	145.0	50.0	1385.5	259.5	99.5	113.0	114.5
Merged-chr10-4120835-3	chr10	4120720	4120920	+	916.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 26 of 27)	intron (NM_001170785, intron 26 of 27)	92300.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	7.0	15.5	11.5	209.5	2.0	4.0	2.5	0.0
Merged-chr14-48457444-4	chr14	48457345	48457545	+	876.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310584, intron 4 of 16)	intron (NM_001310584, intron 4 of 16)	11093.0	NR_132324	218989.0	Mm.85211	NM_172600	ENSMUSG00000036339	Tmem260	5930435P15|6720456H20Rik	transmembrane protein 260	protein-coding	19.0	13.5	13.5	347.5	37.5	11.5	18.5	20.5
Merged-chr9-57468087-4	chr9	57467934	57468134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020270)	promoter-TSS (NM_020270)	26.0	NM_001301634	56807.0	Mm.102278	NM_020270	ENSMUSG00000040722	Scamp5	Sc5	secretory carrier membrane protein 5	protein-coding	54.0	87.0	66.5	410.5	142.5	54.0	30.0	29.5
Merged-chr5-102071388-4	chr5	102071252	102071452	+	882.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1431.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	13.5	14.0	6.5	151.0	25.5	7.5	8.5	10.0
Merged-chr9-78113279-4	chr9	78113175	78113375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019987)	promoter-TSS (NM_019987)	37.0	NM_019987	56542.0	Mm.288719	NM_019987	ENSMUSG00000009828	Ick	2210420N10Rik|AI848300|Mrk	intestinal cell kinase	protein-coding	95.0	112.0	82.0	1521.5	226.0	47.5	92.0	69.5
Merged-chr11-49653023-2	chr11	49652923	49653123	+	763.416626	f1_balb.idr|f1_c57bl6.idr	TTS (NM_008029)	TTS (NM_008029)	-10572.0	NM_054037	68662.0	Mm.22802	NM_054037	ENSMUSG00000064057	Scgb3a1	HIN-1|LuLeu2|Pnsp2|UGRP2|Utgrp2	secretoglobin, family 3A, member 1	protein-coding	7.0	7.0	6.0	57.5	7.5	4.0	9.5	3.0
Merged-chr15-97787859-10	chr15	97787801	97788001	+	985.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026353, intron 1 of 2)	intron (NM_026353, intron 1 of 2)	3536.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	14.5	29.0	20.5	137.0	35.5	21.0	17.5	12.5
Merged-chr6-29940629-4	chr6	29940509	29940709	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037740, intron 16 of 20)	intron (NM_001037740, intron 16 of 20)	23596.0	NM_001037740	320609.0	Mm.56097	NM_177204	ENSMUSG00000039629	Strip2	D330017J20Rik|Fam40b	striatin interacting protein 2	protein-coding	26.5	40.5	25.0	220.5	88.0	28.5	29.5	17.0
Merged-chr9-55285471-1	chr9	55285371	55285571	+	601.75	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-1846.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	11.0	9.0	10.0	93.5	7.0	2.5	0.5	4.5
Merged-chr4-94901859-3	chr4	94901754	94901954	+	617.044434	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26989.0	NM_027089	67753.0	Mm.25097	NM_027089	ENSMUSG00000028575	Eqtn	1700028B15Rik|4930579C15Rik|Afaf|C81058|Eqtl|Eqts	equatorin, sperm acrosome associated	protein-coding	1.5	8.0	2.5	75.0	22.0	5.5	7.5	5.5
Merged-chr1-161463921-3	chr1	161463816	161464016	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30741.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	27.0	22.5	25.5	331.5	31.0	9.0	7.0	4.5
Merged-chr1-144200705-4	chr1	144200609	144200809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23337.0	NM_153171	246709.0	Mm.38271	NM_153171	ENSMUSG00000051079	Rgs13	-	regulator of G-protein signaling 13	protein-coding	146.0	218.0	134.5	2426.5	324.5	115.5	145.5	125.5
Merged-chr9-22230715-4	chr9	22230595	22230795	+	853.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028420, intron 1 of 4)	intron (NR_028420, intron 1 of 4)	4983.0	NM_001164624	235047.0	Mm.290849	NM_172763	ENSMUSG00000057982	Zfp809	BB114266|C330026E23	zinc finger protein 809	protein-coding	5.0	8.5	7.0	144.0	30.0	8.5	5.0	12.0
Merged-chr2-28418257-4	chr2	28418146	28418346	+	715.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29695.0	NM_001005420	241289.0	Mm.330095	NM_001005420	ENSMUSG00000035829	Ppp1r26	Gm347|Kiaa0649|mKIAA0649	protein phosphatase 1, regulatory subunit 26	protein-coding	5.5	14.5	6.5	116.5	29.0	1.5	9.5	13.0
Merged-chr1-136685487-4	chr1	136685405	136685605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045325, intron 1 of 2)	intron (NR_045325, intron 1 of 2)	1876.0	NR_045325	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	143.5	210.0	185.0	2286.0	340.0	124.5	155.0	182.0
Merged-chr12-35824705-4	chr12	35824625	35824825	+	875.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-100896.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	18.0	22.5	7.0	228.0	32.5	3.0	9.0	6.0
Merged-chr7-97748343-4	chr7	97748264	97748464	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10117.0	NM_175105	66333.0	Mm.29756	NM_175105	ENSMUSG00000042797	Aqp11	1700015P13Rik|AI648923|sjds	aquaporin 11	protein-coding	7.0	21.5	17.0	74.0	34.0	10.0	6.0	13.5
Merged-chr9-40701890-3	chr9	40701786	40701986	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133733, intron 1 of 6)	RLTR12D|LTR|ERVK	15922.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	50.0	55.5	57.0	997.5	31.0	1.5	3.5	16.0
Merged-chr10-117848744-3	chr10	117848647	117848847	+	896.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2773.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	7.0	6.5	9.0	32.0	26.0	1.5	10.5	6.0
Merged-chr8-122566838-4	chr8	122566733	122566933	+	885.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1182.0	NM_026014	67177.0	Mm.21873	NM_026014	ENSMUSG00000006585	Cdt1	2610318F11Rik|AW545653|C76791|Ris2	chromatin licensing and DNA replication factor 1	protein-coding	6.5	9.5	4.5	85.5	24.0	9.0	11.5	20.0
Merged-chr3-154288830-4	chr3	154288731	154288931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41729.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	23.0	38.0	22.5	515.5	57.5	21.0	24.0	27.0
Merged-chr13-56181703-4	chr13	56181600	56181800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2815.0	NM_001168615	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	95.0	145.0	125.0	2289.0	254.0	53.5	87.5	81.0
Merged-chr11-115743117-4	chr11	115743013	115743213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22320.0	NM_028014	71947.0	Mm.23168	NM_028014	ENSMUSG00000020747	Tmem94	2310067B10Rik|Kiaa0195|mKIAA0195	transmembrane protein 94	protein-coding	22.5	48.0	30.0	454.5	64.5	26.0	47.0	43.5
Merged-chr6-91685967-5	chr6	91685773	91685973	+	969.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 1 of 14)	MIRb|SINE|MIR	1806.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	7.0	14.0	11.5	252.0	32.0	8.5	9.0	9.5
Merged-chr9-65578113-6	chr9	65577992	65578192	+	995.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 1 of 5)	intron (NM_153119, intron 1 of 5)	1995.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	5.5	7.0	6.0	92.5	10.5	13.5	8.0	7.0
Merged-chr2-23039808-1	chr2	23039708	23039908	+	1000.0	f0_balb.idr	intron (NM_001077190, intron 1 of 10)	CpG	433.0	NM_001077192	11308.0	Mm.205647	NM_007380	ENSMUSG00000058835	Abi1	E3B1|NAP1|Ssh3bp1|abi-1	abl-interactor 1	protein-coding	38.0	75.5	45.0	478.5	160.0	81.5	86.0	70.0
Merged-chr18-82783105-4	chr18	82782988	82783188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24049.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	26.5	68.5	29.5	336.5	97.5	31.0	41.5	30.5
Merged-chr9-57561940-4	chr9	57561841	57562041	+	947.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022813, intron 1 of 8)	intron (NM_022813, intron 1 of 8)	997.0	NM_022813	24044.0	Mm.286069	NM_022813	ENSMUSG00000040188	Scamp2	AI875466|Sc2	secretory carrier membrane protein 2	protein-coding	18.0	27.0	15.5	361.0	47.5	33.0	16.0	31.0
Merged-chr7-135655343-4	chr7	135655236	135655436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316681, intron 3 of 17)	intron (NM_001316681, intron 3 of 17)	-3022.0	NR_015548	67765.0	Mm.445272	NR_015548	ENSMUSG00000097471	5830432E09Rik	-	RIKEN cDNA 5830432E09 gene	ncRNA	101.0	146.0	131.0	2273.0	255.5	85.0	123.5	126.0
Merged-chr16-18858747-4	chr16	18858648	18858848	+	961.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17889.0	NM_010922	18100.0	Mm.20918	NM_010922	ENSMUSG00000022706	Mrpl40	Nlvcf	mitochondrial ribosomal protein L40	protein-coding	24.5	24.5	16.5	251.5	45.5	25.5	17.5	14.0
Merged-chr5-117389078-4	chr5	117388976	117389176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028128)	promoter-TSS (NM_028128)	-53.0	NM_028128	72151.0	Mm.27997	NM_028128	ENSMUSG00000029363	Rfc5	2610020K06Rik|2610209F07Rik|36.5kDa|36kDa|Recc5	replication factor C (activator 1) 5	protein-coding	120.0	186.5	88.5	1707.0	305.5	125.5	154.5	121.0
Merged-chr12-70119789-4	chr12	70119704	70119904	+	796.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A2|LTR|ERVL	-7769.0	NR_104397	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	14.0	13.0	9.5	160.0	24.5	15.0	10.0	16.0
Merged-chr15-38078274-4	chr15	38078157	38078357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112721, intron 1 of 58)	CpG	597.0	NM_001112721	70790.0	Mm.476840	NM_027553	ENSMUSG00000037487	Ubr5	Edd|Edd1	ubiquitin protein ligase E3 component n-recognin 5	protein-coding	42.0	79.5	44.0	702.0	139.0	48.5	50.5	39.0
Merged-chr8-122946020-4	chr8	122945912	122946112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 2 of 12)	intron (NM_001081379, intron 2 of 12)	96272.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	61.0	47.5	26.5	677.5	125.5	39.5	75.5	39.0
Merged-chr6-17779005-4	chr6	17778975	17779175	+	958.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	B3A|SINE|B2	29905.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	5.5	0.0	7.5	95.0	35.0	11.5	15.0	29.0
Merged-chr10-60268962-4	chr10	60268870	60269070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	-8658.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	24.5	44.0	32.0	842.5	105.0	30.5	39.5	32.5
Merged-chr4-142020152-4	chr4	142020041	142020241	+	749.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131014, intron 1 of 1)	B4A|SINE|B4	2243.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	3.0	14.5	10.5	117.5	6.5	5.0	8.0	12.0
Merged-chr2-11532373-3	chr2	11532265	11532465	+	689.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	21564.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	5.5	9.0	6.5	92.0	21.0	4.5	2.0	12.5
Merged-chr10-30777916-4	chr10	30777831	30778031	+	912.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	25395.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	17.5	45.5	29.5	273.0	20.5	12.5	5.5	6.0
Merged-chr1-144406781-4	chr1	144406695	144406895	+	662.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-157691.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	8.0	10.5	10.5	117.5	25.0	14.5	10.5	8.5
Merged-chr2-145885375-3	chr2	145885279	145885479	+	671.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 12 of 12)	intron (NM_028724, intron 12 of 12)	-17862.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	1.5	7.5	6.0	137.5	11.5	5.0	6.0	4.5
Merged-chr8-66323223-4	chr8	66323110	66323310	+	944.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175188, intron 4 of 7)	intron (NM_175188, intron 4 of 7)	-63091.0	NM_001166375	72925.0	Mm.380457	NM_175188	ENSMUSG00000036469	March1	2900024D24Rik|BB085186	membrane-associated ring finger (C3HC4) 1	protein-coding	13.5	25.0	12.5	285.0	39.5	12.0	15.0	20.5
Merged-chr13-101664166-4	chr13	101664055	101664255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28475.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	88.0	122.0	63.0	1296.5	247.5	59.5	126.0	93.0
Merged-chr3-65665778-4	chr3	65665683	65665883	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166659)	promoter-TSS (NM_001166659)	-445.0	NM_001037923	624866.0	Mm.296317	NM_001037923	ENSMUSG00000074579	Lekr1	EG546798|EG624866|Gm6534	leucine, glutamate and lysine rich 1	protein-coding	31.5	47.5	27.5	675.5	110.0	28.5	42.0	45.0
Merged-chr3-146135593-4	chr3	146135502	146135702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134160, intron 8 of 11)	L2a|LINE|L2	13811.0	NM_134160	171166.0	Mm.114683	NM_134160	ENSMUSG00000036853	Mcoln3	6720490O21Rik|TRPML3|Va	mucolipin 3	protein-coding	25.5	39.0	21.5	483.5	68.5	8.0	26.0	26.5
Merged-chr6-129399293-3	chr6	129399213	129399413	+	897.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204253, intron 1 of 3)	RLTR21|LTR|ERVK	2016.0	NM_001204239	56760.0	Mm.30700	NM_019985	ENSMUSG00000030159	Clec1b	1810061I13Rik|Clec-2|Clec2	C-type lectin domain family 1, member b	protein-coding	1.5	1.5	4.0	54.5	22.0	13.0	7.0	9.0
Merged-chr6-119483130-3	chr6	119482974	119483174	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133940, exon 1 of 1)	3' UTR (NM_133940, exon 1 of 1)	3406.0	NM_133940	101358.0	Mm.125477	NM_133940	ENSMUSG00000030019	Fbxl14	AW322056|Fbx14l	F-box and leucine-rich repeat protein 14	protein-coding	6.5	7.0	6.0	85.0	8.0	6.0	7.0	5.5
Merged-chr10-84388861-3	chr10	84388773	84388973	+	980.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004363, intron 4 of 6)	intron (NM_001004363, intron 4 of 6)	51598.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	14.5	17.5	31.0	218.5	23.0	6.0	7.0	6.0
Merged-chr1-55055532-4	chr1	55055477	55055677	+	905.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026424, intron 1 of 3)	intron (NM_026424, intron 1 of 3)	2807.0	NM_001039710	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	3.5	6.0	8.0	144.5	65.0	18.0	23.5	23.5
Merged-chr2-128819180-4	chr2	128819055	128819255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355629, intron 1 of 18)	intron (NM_001355629, intron 1 of 18)	852.0	NM_001355629	72477.0	Mm.259688	NM_028248	ENSMUSG00000014353	Tmem87b	2610301K12Rik|2810431I02Rik|AU014804	transmembrane protein 87B	protein-coding	32.5	37.0	36.5	672.5	64.0	23.0	37.5	33.0
Merged-chr10-24468866-4	chr10	24468766	24468966	+	920.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-126576.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	10.5	21.0	11.5	237.0	48.5	20.0	20.0	17.0
Merged-chr8-40423728-4	chr8	40423628	40423828	+	933.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357249)	promoter-TSS (NM_001357249)	-87.0	NM_178395	70546.0	Mm.34326	NM_178395	ENSMUSG00000039470	Zdhhc2	5730415P04Rik|6430583A19Rik|DHHC-2	zinc finger, DHHC domain containing 2	protein-coding	45.5	70.0	68.0	1006.0	26.0	9.5	15.0	12.0
Merged-chr5-98034464-4	chr5	98034318	98034518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3456.0	NM_133738	71914.0	Mm.24842	NM_133738	ENSMUSG00000029338	Antxr2	2310046B19Rik|AW561899|CMG-2|CMG2|cI-35	anthrax toxin receptor 2	protein-coding	29.5	26.0	50.5	557.0	46.5	19.5	20.0	8.5
Merged-chr12-111930537-4	chr12	111930466	111930666	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13916.0	NR_029464	77675.0	Mm.98331	NR_029464	ENSMUSG00000113769	5033406O09Rik	9130204G15Rik	RIKEN cDNA 5033406O09 gene	ncRNA	34.5	31.5	31.0	232.5	50.0	15.5	35.5	24.0
Merged-chr7-127025357-4	chr7	127025258	127025458	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010772, exon 2 of 5)	exon (NM_010772, exon 2 of 5)	1121.0	NM_010772	17188.0	Mm.378964	NM_010772	ENSMUSG00000030678	Maz	MAZI|PUR1|Pur-1|SAF-1|SAF-2	MYC-associated zinc finger protein (purine-binding transcription factor)	protein-coding	27.0	52.5	25.0	391.0	53.5	16.0	27.0	34.5
Merged-chr13-67780154-4	chr13	67780051	67780251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028402, intron 1 of 3)	intron (NM_028402, intron 1 of 3)	458.0	NM_028402	72958.0	Mm.53849	NM_028402	ENSMUSG00000090659	Zfp493	2900054J07Rik|Rslcan12	zinc finger protein 493	protein-coding	20.5	59.5	19.5	330.5	141.5	50.5	55.0	54.0
Merged-chr4-20033508-4	chr4	20033418	20033618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-8534.0	NM_010281	14590.0	Mm.20461	NM_010281	ENSMUSG00000073987	Ggh	gamma-GH	gamma-glutamyl hydrolase	protein-coding	25.5	55.5	21.5	167.5	91.5	36.0	23.0	32.5
Merged-chr7-126652832-4	chr7	126652716	126652916	+	895.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029339, intron 1 of 9)	intron (NM_029339, intron 1 of 9)	3507.0	NM_029339	75565.0	Mm.45686	NM_029339	ENSMUSG00000030714	Sgf29	1700023O11Rik|9530025I05Rik|Ccdc101	SAGA complex associated factor 29	protein-coding	17.5	41.0	11.5	64.5	26.0	20.5	12.0	15.0
Merged-chr3-116327415-4	chr3	116327283	116327483	+	909.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173553, intron 7 of 13)	intron (NM_001173553, intron 7 of 13)	26861.0	NM_001355646	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	13.0	18.5	11.0	284.5	18.0	7.5	9.5	3.5
Merged-chr8-83169941-4	chr8	83169866	83170066	+	915.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111304, intron 1 of 20)	intron (NM_001111304, intron 1 of 20)	4614.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	3.5	23.0	6.5	143.5	21.5	7.0	8.0	5.0
Merged-chr18-68059232-4	chr18	68059146	68059346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	intron (NM_172631, intron 1 of 5)	126073.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	77.5	128.0	109.5	1501.0	124.0	56.5	53.5	55.0
Merged-chr10-34231905-1	chr10	34231805	34232005	+	560.0	f0_balb.idr	Intergenic	Intergenic	-24354.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	11.0	13.0	2.5	13.0	26.0	5.5	7.0	7.0
Merged-chr16-35902544-4	chr16	35902454	35902654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31172.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	112.5	192.0	101.5	1169.0	223.0	87.0	99.5	70.5
Merged-chr11-52064584-3	chr11	52064473	52064673	+	623.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	B3|SINE|B2	-34251.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	3.5	9.5	5.0	117.5	19.0	5.5	5.0	18.0
Merged-chr11-120580356-4	chr11	120580258	120580458	+	973.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133796, exon 2 of 6)	exon (NM_133796, exon 2 of 6)	1262.0	NM_133796	192662.0	Mm.30016	NM_133796	ENSMUSG00000025132	Arhgdia	5330430M07Rik|Gdi-1|Rho-GDI|RhoDGI|RhoGDI-1	Rho GDP dissociation inhibitor (GDI) alpha	protein-coding	33.5	21.5	19.0	250.0	70.0	7.0	15.5	30.0
Merged-chr19-53476985-3	chr19	53476882	53477082	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12186.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	14.5	23.5	27.5	361.0	5.5	3.5	3.0	3.0
Merged-chr4-118144520-4	chr4	118144414	118144614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161823, intron 16 of 21)	intron (NM_001161823, intron 16 of 21)	-9568.0	NM_001161774	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	93.5	140.5	124.0	1460.5	220.5	68.0	120.5	85.0
Merged-chr6-31219134-4	chr6	31219064	31219264	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110471)	promoter-TSS (NR_110471)	-690.0	NR_110470	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	17.0	17.5	3.5	175.5	20.5	4.5	11.5	10.5
Merged-chr3-117319846-4	chr3	117319749	117319949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177664, exon 7 of 7)	3' UTR (NM_177664, exon 7 of 7)	41027.0	NM_177664	229791.0	Mm.140138	NM_177664	ENSMUSG00000044667	Plppr4	A330086D10|D3Bwg0562e|Lppr4|PRG-1|mKIAA0455	phospholipid phosphatase related 4	protein-coding	75.5	127.0	93.5	1603.0	168.0	43.0	74.5	43.0
Merged-chr11-77446819-4	chr11	77446749	77446949	+	945.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 13 of 14)	intron (NM_177710, intron 13 of 14)	-17064.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	9.5	35.0	16.0	197.0	43.0	18.0	13.0	7.0
Merged-chr11-96910260-4	chr11	96910196	96910396	+	918.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030248, intron 10 of 13)	intron (NM_030248, intron 10 of 13)	6218.0	NM_001308183	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	10.0	19.0	13.5	75.5	27.5	12.5	13.0	16.5
Merged-chr4-150589225-3	chr4	150589139	150589339	+	983.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	62935.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	22.0	31.5	11.0	218.0	33.0	7.5	8.5	6.5
Merged-chr19-11950068-4	chr19	11949963	11950163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-15781.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	22.0	36.5	31.5	430.5	79.5	37.5	45.5	29.0
Merged-chr7-13037536-4	chr7	13037445	13037645	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243968)	promoter-TSS (NM_001243968)	82.0	NM_001243968	22192.0	Mm.196580	NM_145578	ENSMUSG00000005575	Ube2m	2510040H03Rik|UBC12|Ubc-rs2	ubiquitin-conjugating enzyme E2M	protein-coding	18.5	22.0	32.5	228.0	14.5	16.5	14.5	17.0
Merged-chr16-4213316-4	chr16	4213159	4213359	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001025432, exon 1 of 31)	5' UTR (NM_001025432, exon 1 of 31)	145.0	NM_001025432	12914.0	Mm.132238	NM_001025432	ENSMUSG00000022521	Crebbp	AW558298|CBP|CBP/p300|KAT3A|p300/CBP	CREB binding protein	protein-coding	12.5	14.0	14.0	152.5	35.5	13.0	21.5	15.5
Merged-chr8-122548042-4	chr8	122547979	122548179	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037298, intron 1 of 50)	intron (NM_001037298, intron 1 of 50)	3250.0	NM_001037298	234839.0	Mm.37324	NM_001037298	ENSMUSG00000014444	Piezo1	9630020g22|Fam38a|mKIAA0233	piezo-type mechanosensitive ion channel component 1	protein-coding	19.5	22.0	22.0	228.0	52.5	16.5	13.0	21.0
Merged-chr8-71561551-4	chr8	71561385	71561585	+	851.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145598, exon 2 of 2)	3' UTR (NM_145598, exon 2 of 2)	-2614.0	NM_001100462	434325.0	Mm.33613	NM_001100462	ENSMUSG00000043664	Tmem221	-	transmembrane protein 221	protein-coding	13.0	10.5	4.5	123.0	29.0	7.5	6.0	5.5
Merged-chr5-107646137-4	chr5	107646034	107646234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359917, intron 11 of 12)	B1_Mur1|SINE|Alu	-12284.0	NR_046195	78443.0	Mm.490703	NR_046195	ENSMUSG00000085900	A930041C12Rik	-	RIKEN cDNA A930041C12 gene	ncRNA	45.5	59.5	27.0	633.5	61.0	10.0	24.5	24.5
Merged-chr2-22807522-4	chr2	22807426	22807626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	33199.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	51.0	44.5	35.0	547.5	76.0	25.0	40.5	30.0
Merged-chr11-58867260-4	chr11	58867155	58867355	+	871.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172403)	promoter-TSS (NM_172403)	15.0	NM_172403	69944.0	Mm.32118	NM_172403	ENSMUSG00000020491	2810021J22Rik	AI449137	RIKEN cDNA 2810021J22 gene	protein-coding	15.5	19.0	5.0	211.5	17.0	7.0	14.5	5.5
Merged-chr6-39447995-4	chr6	39447877	39448077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	27599.0	NR_152168	621427.0	Mm.389742	NR_152168	ENSMUSG00000068601	Gm10244	Anmkrn1	predicted gene 10244	ncRNA	48.0	46.0	27.0	422.0	95.5	51.5	26.5	39.0
Merged-chr15-59393984-4	chr15	59393878	59394078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	19780.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	58.0	87.0	60.0	1087.5	67.5	46.0	58.0	35.5
Merged-chr18-20888185-3	chr18	20888092	20888292	+	803.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177038, intron 1 of 28)	MTEa-int|LTR|ERVL-MaLR	7886.0	NM_029491	75964.0	Mm.273769	NM_029491	ENSMUSG00000033382	Trappc8	5033403J15Rik|AI845423|D030074E01Rik|Trs85|mKIAA1012	trafficking protein particle complex 8	protein-coding	8.0	5.0	2.5	192.0	16.5	6.5	9.5	11.0
Merged-chr14-27347477-3	chr14	27347383	27347583	+	608.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	intron (NM_001289687, intron 1 of 9)	11446.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	12.5	7.5	10.0	28.5	29.0	7.5	5.5	4.0
Merged-chr11-4873932-4	chr11	4873814	4874014	+	949.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008698)	promoter-TSS (NM_008698)	-37.0	NM_008698	18082.0	Mm.293716	NM_008698	ENSMUSG00000034285	Nipsnap1	-	nipsnap homolog 1	protein-coding	22.5	36.5	12.0	297.5	40.0	13.0	19.5	19.0
Merged-chr2-43761984-4	chr2	43761868	43762068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 1 of 14)	intron (NM_001301831, intron 1 of 14)	13144.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	21.5	31.5	34.0	393.5	47.5	31.0	22.0	13.0
Merged-chr5-90877066-4	chr5	90876986	90877186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Arthur1B|DNA|hAT-Tip100	-14159.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	56.5	47.5	71.5	1055.0	99.5	50.5	70.5	56.5
Merged-chr4-139743767-3	chr4	139743675	139743875	+	918.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011039, intron 8 of 8)	intron (NM_011039, intron 8 of 8)	89193.0	NM_011039	18509.0	Mm.218760	NM_011039	ENSMUSG00000028736	Pax7	Pax-7	paired box 7	protein-coding	3.0	0.0	1.0	0.0	93.0	21.0	26.5	26.5
Merged-chr9-13304237-4	chr9	13304141	13304341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57285.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	70.5	82.0	68.0	1605.5	127.0	43.5	59.0	74.5
Merged-chr5-72230791-4	chr5	72230704	72230904	+	915.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 3 of 22)	intron (NR_003966, intron 3 of 22)	27461.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	17.5	24.5	14.0	502.5	62.5	9.0	20.5	18.0
Merged-chr11-63130719-4	chr11	63130595	63130795	+	855.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008885)	promoter-TSS (NM_008885)	-762.0	NM_008885	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	5.5	8.0	11.0	175.0	10.0	3.5	10.0	12.0
Merged-chr1-191115810-6	chr1	191115681	191115881	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	17367.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	43.5	47.0	18.5	392.5	44.5	19.5	12.0	19.5
Merged-chr10-60260774-4	chr10	60260662	60260862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16866.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	129.0	131.0	125.0	1844.5	230.0	75.0	122.5	95.0
Merged-chr1-127222300-4	chr1	127222255	127222455	+	879.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	17369.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	8.5	11.5	22.0	196.5	34.0	9.0	15.5	8.5
Merged-chr6-115470024-4	chr6	115469916	115470116	+	921.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308354, intron 6 of 7)	intron (NM_001308354, intron 6 of 7)	47950.0	NM_011146	19016.0	Mm.3020	NM_011146	ENSMUSG00000000440	Pparg	Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2	peroxisome proliferator activated receptor gamma	protein-coding	20.5	11.5	21.0	424.5	51.0	11.5	13.0	29.0
Merged-chr11-3371444-4	chr11	3371348	3371548	+	830.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361623)	promoter-TSS (NM_001361623)	-44.0	NM_173053	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	11.5	24.5	12.5	207.0	26.5	6.5	8.0	11.5
Merged-chr8-106585829-4	chr8	106585725	106585925	+	920.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1318.0	NR_045470	68692.0	Mm.416843	NR_045470	ENSMUSG00000099139	1110028F18Rik	-	RIKEN cDNA 1110028F18 gene	ncRNA	21.5	21.0	28.5	246.0	48.5	5.5	19.5	8.5
Merged-chr6-31215724-3	chr6	31215646	31215846	+	884.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110469, intron 1 of 3)	intron (NR_110469, intron 1 of 3)	2728.0	NR_110471	232685.0	Mm.443019	NM_144555	ENSMUSG00000044471	Lncpint	Lincpint|MNCb-1768|Pint|linc-Pint	long non-protein coding RNA, Trp53 induced transcript	ncRNA	6.5	10.5	6.5	109.0	16.5	4.0	3.0	4.0
Merged-chr7-113514440-2	chr7	113514340	113514540	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360668, intron 1 of 12)	intron (NM_001360668, intron 1 of 12)	606.0	NM_001360669	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	9.0	12.0	5.5	158.5	34.0	7.0	13.5	13.5
Merged-chr15-100665139-4	chr15	100665036	100665236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001270537, intron 1 of 10)	intron (NM_001270537, intron 1 of 10)	4364.0	NM_001270537	668218.0	Mm.451225	NM_001270537	ENSMUSG00000098112	Bin2	-	bridging integrator 2	protein-coding	39.5	53.0	18.5	285.5	115.5	50.5	29.0	31.0
Merged-chr1-43471436-4	chr1	43471337	43471537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	25686.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	41.0	113.5	45.0	212.0	161.5	66.5	63.5	16.5
Merged-chr6-47835678-4	chr6	47835556	47835756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027477)	promoter-TSS (NM_027477)	-5.0	NM_027477	272347.0	Mm.169059	NM_027477	ENSMUSG00000062519	Zfp398	5730513I23Rik	zinc finger protein 398	protein-coding	62.5	85.0	55.5	1401.0	167.0	53.5	79.0	80.5
Merged-chr14-67072079-4	chr14	67071968	67072168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360034, intron 1 of 8)	CpG	403.0	NM_001360034	71978.0	Mm.273997	NM_028032	ENSMUSG00000022052	Ppp2r2a	2410004D02Rik|mKIAA1541	protein phosphatase 2, regulatory subunit B, alpha	protein-coding	40.5	89.5	73.5	567.0	93.5	51.5	57.0	62.0
Merged-chr11-32538951-4	chr11	32538859	32539059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 1 of 18)	intron (NM_009288, intron 1 of 18)	5693.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	127.0	147.0	150.5	2627.5	216.5	77.5	109.0	82.0
Merged-chr7-143600156-4	chr7	143600060	143600260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013742)	promoter-TSS (NM_013742)	-70.0	NM_013742	27267.0	Mm.125659	NM_013742	ENSMUSG00000010755	Cars	CA3	cysteinyl-tRNA synthetase	protein-coding	200.5	327.0	161.5	2606.5	481.5	204.0	227.0	214.0
Merged-chr12-40082585-3	chr12	40082477	40082677	+	903.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009132, intron 5 of 13)	intron (NM_009132, intron 5 of 13)	-44590.0	NM_001039515	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	11.0	9.5	7.0	109.5	11.5	7.0	6.0	4.0
Merged-chr8-31113313-4	chr8	31113235	31113435	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175136, intron 1 of 5)	intron (NM_175136, intron 1 of 5)	1489.0	NM_175136	68867.0	Mm.29532	NM_175136	ENSMUSG00000039328	Rnf122	1110063C11Rik	ring finger protein 122	protein-coding	8.0	11.5	27.5	259.5	25.0	8.0	9.0	19.5
Merged-chr15-37786958-3	chr15	37786809	37787009	+	885.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359844, intron 1 of 7)	L1MB3|LINE|L1	5091.0	NM_001170866	52589.0	Mm.283370	NM_134094	ENSMUSG00000051359	Ncald	AI848120|D030020D09Rik|D15Ertd412e	neurocalcin delta	protein-coding	7.5	7.0	7.0	95.0	25.0	2.5	5.5	4.5
Merged-chr12-84803234-3	chr12	84803136	84803336	+	871.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013589, intron 16 of 34)	MTC|LTR|ERVL-MaLR	29966.0	NM_028863	74316.0	Mm.25719	NM_028863	ENSMUSG00000021241	Isca2	0710001C05Rik|5730594E03Rik|Hbld1	iron-sulfur cluster assembly 2	protein-coding	11.0	28.5	8.5	33.5	20.0	11.5	8.5	6.5
Merged-chr15-88760736-3	chr15	88760622	88760822	+	876.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181412, intron 2 of 2)	B2_Mm1a|SINE|B2	9011.0	NM_181412	223773.0	Mm.396622	NM_181412	ENSMUSG00000034333	Zbed4	1700009F06Rik	zinc finger, BED type containing 4	protein-coding	7.0	1.0	5.0	42.0	25.0	6.0	5.5	22.0
Merged-chr2-18800115-2	chr2	18800015	18800215	+	834.0	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131254, exon 1 of 1)	non-coding (NR_131254, exon 1 of 1)	1703.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	3.0	5.0	6.5	20.5	19.0	6.5	6.0	9.5
Merged-chr8-83858081-3	chr8	83857948	83858148	+	683.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2-int|LTR|ERVL-MaLR	-42050.0	NM_181039	330814.0	Mm.260733	NM_181039	ENSMUSG00000013033	Adgrl1	2900070I05Rik|AI182398|CLIBA|Lec2|Lphn1|mKIAA0821	adhesion G protein-coupled receptor L1	protein-coding	0.0	1.0	2.0	37.0	16.5	5.5	11.0	12.0
Merged-chr2-102945284-3	chr2	102945186	102945386	+	848.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43621.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	11.5	5.5	1.5	81.0	11.5	8.0	7.5	13.0
Merged-chr6-28621691-4	chr6	28621597	28621797	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019776, intron 10 of 23)	intron (NM_019776, intron 10 of 23)	141349.0	NM_019776	56463.0	Mm.439987	NM_019776	ENSMUSG00000001424	Snd1	AL033314|Tudor-SN	staphylococcal nuclease and tudor domain containing 1	protein-coding	6.5	9.0	8.0	230.0	15.0	9.5	18.0	25.5
Merged-chr3-36571543-3	chr3	36571445	36571645	+	875.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009828, intron 2 of 8)	CpG	1493.0	NM_009828	12428.0	Mm.4189	NM_009828	ENSMUSG00000027715	Ccna2	AA408589|Ccn-1|Ccn1|Ccna|CycA2|Cyca	cyclin A2	protein-coding	7.5	6.5	9.5	99.0	24.5	4.5	4.0	8.5
Merged-chr16-11066251-4	chr16	11066154	11066354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009223)	promoter-TSS (NM_009223)	-44.0	NM_009223	20621.0	Mm.325800	NM_009223	ENSMUSG00000037972	Snn	2810407J07Rik|AI848521|AW547286	stannin	protein-coding	150.5	211.0	182.0	2614.5	396.5	117.5	238.5	150.5
Merged-chr2-164078112-3	chr2	164077971	164078171	+	914.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021420, intron 1 of 10)	intron (NM_021420, intron 1 of 10)	3893.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	5.5	15.5	20.0	25.0	34.0	4.0	3.5	4.0
Merged-chr17-26513295-4	chr17	26513208	26513408	+	972.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4836.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	16.5	28.5	30.5	370.0	40.0	8.0	20.0	24.0
Merged-chr11-80287362-2	chr11	80287262	80287462	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13550.0	NM_139228	246104.0	Mm.194148	NM_139228	ENSMUSG00000017692	Rhbdl3	AI847581|Rhbdl4|Rhomr1|Vrho	rhomboid like 3	protein-coding	9.0	5.5	8.5	70.5	4.0	3.5	7.5	18.5
Merged-chr16-88478231-4	chr16	88478119	88478319	+	679.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28759.0	NM_181490	239931.0	Mm.126860	NM_181490	ENSMUSG00000055811	Cldn17	-	claudin 17	protein-coding	6.5	31.0	13.5	116.5	21.0	5.0	7.5	7.5
Merged-chr11-101115743-4	chr11	101115618	101115818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155071, intron 1 of 6)	intron (NR_155071, intron 1 of 6)	4123.0	NM_026501	67998.0	Mm.33881	NM_026501	ENSMUSG00000017802	Retreg3	1300010M03Rik|4933404C01Rik|AI551748|Fam134c	reticulophagy regulator family member 3	protein-coding	30.0	20.5	13.5	169.5	56.5	16.0	23.5	36.0
Merged-chr9-83727715-3	chr9	83727617	83727817	+	927.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36242.0	NR_046066	100039222.0	Mm.405596	NR_046066	ENSMUSG00000100155	Gm2109	-	predicted gene 2109	ncRNA	9.0	23.5	19.5	172.5	21.0	7.5	15.5	7.5
Merged-chr6-72438077-7	chr6	72437999	72438199	+	872.6785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046011)	promoter-TSS (NR_046011)	-584.0	NR_046011	78108.0	Mm.440743	NR_046011	ENSMUSG00000108591	Particl	4930414L22Rik|AI449819	promoter of Mat2a antisense radiation induced circulating long non-coding RNA	ncRNA	2.5	6.5	8.0	50.0	20.5	9.0	13.5	15.0
Merged-chr8-106210947-4	chr8	106210847	106211047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001007567)	promoter-TSS (NM_001007567)	-14.0	NR_152744	66432.0	Mm.269029	NM_001007567	ENSMUSG00000033106	Slc7a6os	2010007L18Rik|2400002F02Rik	solute carrier family 7, member 6 opposite strand	protein-coding	143.5	207.5	123.5	1843.0	323.5	103.0	152.0	111.0
Merged-chr1-138964143-3	chr1	138964043	138964243	+	984.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166501, intron 1 of 21)	intron (NM_001166501, intron 1 of 21)	434.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	12.5	11.0	14.5	197.5	47.0	16.5	14.5	10.0
Merged-chr2-52524992-2	chr2	52524892	52525092	+	829.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	33619.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	4.5	10.5	12.0	80.5	8.5	3.0	2.0	5.0
Merged-chr11-16969865-4	chr11	16969729	16969929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	18419.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	76.0	144.5	90.0	1158.5	197.5	61.5	80.0	30.0
Merged-chr13-22044356-4	chr13	22044265	22044465	+	962.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178198)	TTS (NM_178198)	1135.0	NM_178198	319183.0	Mm.371766	NM_178198	ENSMUSG00000069300	Hist1h2bj	-	histone cluster 1, H2bj	protein-coding	12.0	24.0	14.0	204.5	35.0	13.5	18.0	15.0
Merged-chr2-119873064-8	chr2	119872881	119873081	+	976.2604369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-24247.0	NM_001164274	29808.0	Mm.87532	NM_013720	ENSMUSG00000033943	Mga	AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5	MAX gene associated	protein-coding	13.0	17.5	17.5	183.0	14.0	9.0	9.5	17.0
Merged-chr6-16884109-4	chr6	16884011	16884211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031198, intron 1 of 6)	intron (NM_031198, intron 1 of 6)	14330.0	NM_031198	21426.0	Mm.36217	NM_031198	ENSMUSG00000029553	Tfec	BB107417|Tcfec|bHLHe34	transcription factor EC	protein-coding	47.0	52.5	39.5	995.0	89.5	37.5	42.5	33.0
Merged-chr13-91681262-4	chr13	91681160	91681360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 9 of 15)	intron (NM_001360776, intron 9 of 15)	-60261.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	40.5	53.0	45.5	729.5	172.5	60.0	94.0	61.5
Merged-chr4-138262305-4	chr4	138262180	138262380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190978)	promoter-TSS (NM_001190978)	29.0	NM_010623	16559.0	Mm.271936	NM_010623	ENSMUSG00000028758	Kif17	5930435E01Rik|AW492270|Kif17b|mKIAA1405	kinesin family member 17	protein-coding	76.0	157.0	69.5	778.5	134.0	68.5	48.5	67.0
Merged-chr10-39960287-4	chr10	39960193	39960393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001173500)	promoter-TSS (NM_001173500)	-140.0	NM_001173500	100041085.0	Mm.332530	NM_001173500	ENSMUSG00000071335	Mfsd4b3	G630090E17Rik|Naglt1c	major facilitator superfamily domain containing 4B3	protein-coding	130.5	210.0	121.0	1813.0	399.0	113.5	157.0	133.5
Merged-chr6-128134733-4	chr6	128134630	128134830	+	884.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175414, intron 1 of 8)	intron (NM_175414, intron 1 of 8)	8848.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	18.5	18.5	19.0	201.5	23.5	11.5	11.0	10.0
Merged-chr7-98053879-2	chr7	98053779	98053979	+	767.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001256082, exon 46 of 49)	exon (NM_001256082, exon 46 of 49)	55369.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	3.0	8.0	0.0	55.0	18.0	10.0	7.0	12.5
Merged-chr2-117121735-5	chr2	117121684	117121884	+	873.6400150000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277256, intron 1 of 4)	CpG	713.0	NM_033524	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	15.0	35.5	19.5	100.0	26.0	9.0	12.5	14.0
Merged-chr2-147178323-3	chr2	147178274	147178474	+	683.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077632, intron 2 of 2)	intron (NM_001077632, intron 2 of 2)	-5709.0	NR_030769	100313531.0	Mm.405189	NR_030769	ENSMUSG00000086509	Nkx2-2os	Gm14112|Nkx2-2as|Nkx2.2AS	NK2 homeobox 2, opposite strand	ncRNA	9.0	15.5	10.0	45.0	8.5	5.0	11.0	8.5
Merged-chr10-20776840-4	chr10	20776717	20776917	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51739.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	7.0	9.0	12.5	145.0	57.5	4.0	24.5	11.5
Merged-chr3-127633434-4	chr3	127633292	127633492	+	748.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009718, exon 1 of 2)	5' UTR (NM_009718, exon 1 of 2)	256.0	NM_009718	11924.0	Mm.42017	NM_009718	ENSMUSG00000027967	Neurog2	Atoh4|Math4A|bHLHa8|ngn-2|ngn2	neurogenin 2	protein-coding	9.0	9.0	10.0	81.0	20.5	6.5	5.0	10.5
Merged-chr5-135466082-4	chr5	135465982	135466182	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	-71536.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	31.0	28.0	39.5	796.5	42.5	14.5	12.0	28.0
Merged-chr3-20026709-3	chr3	20026585	20026785	+	949.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 4 of 16)	intron (NM_080634, intron 4 of 16)	8625.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	12.0	7.0	10.0	171.0	14.5	12.5	9.5	11.0
Merged-chr15-99032282-7	chr15	99032197	99032397	+	916.857117	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	intron (NM_009448, intron 1 of 3)	2406.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	9.0	16.0	5.5	74.0	16.5	6.0	8.5	9.5
Merged-chr7-111024412-4	chr7	111024309	111024509	+	866.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4542.0	NM_009431	22083.0	Mm.255858	NM_009431	ENSMUSG00000005609	Ctr9	AA409336|Sh2bp1|Tsbp|Tsp|mKIAA0155	CTR9 homolog, Paf1/RNA polymerase II complex component	protein-coding	9.5	12.5	6.5	132.0	38.5	6.5	12.0	12.5
Merged-chr1-72687022-2	chr1	72686922	72687122	+	646.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347063, intron 5 of 23)	L1_Mus3|LINE|L1	13542.0	NM_176980	319695.0	Mm.249056	NM_176980	ENSMUSG00000039342	Ankar	4932422E22Rik	ankyrin and armadillo repeat containing	protein-coding	4.5	5.0	5.0	20.0	3.0	8.5	3.5	5.5
Merged-chr15-96642605-7	chr15	96642574	96642774	+	956.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134086)	promoter-TSS (NM_134086)	239.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	26.5	61.0	38.5	539.0	89.0	31.0	40.0	41.0
Merged-chr2-116923412-3	chr2	116923308	116923508	+	919.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23256.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	9.0	10.5	13.0	106.0	4.5	4.5	5.5	6.0
Merged-chr12-44908235-4	chr12	44908122	44908322	+	855.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	intron (NM_144552, intron 2 of 5)	166261.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	7.0	11.5	11.5	237.0	31.5	18.0	28.5	15.0
Merged-chr14-8115974-4	chr14	8115863	8116063	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	17752.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	15.5	24.0	31.5	340.5	28.5	4.5	15.5	10.5
Merged-chr3-69670414-4	chr3	69670269	69670469	+	758.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR11D|LTR|ERVK	-51686.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	2.5	3.0	7.0	33.0	20.0	9.0	5.5	13.5
Merged-chr7-105628812-4	chr7	105628704	105628904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018880, intron 1 of 11)	intron (NM_018880, intron 1 of 11)	4767.0	NM_018880	55992.0	Mm.29290	NM_018880	ENSMUSG00000036989	Trim3	BERP1|HAC1|Rnf22	tripartite motif-containing 3	protein-coding	81.5	113.5	59.0	922.0	181.0	57.5	93.0	75.5
Merged-chr7-80427899-4	chr7	80427790	80427990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C2_MM|LTR|ERVK	-22454.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	32.0	54.5	30.5	332.0	76.5	35.5	30.0	35.0
Merged-chr9-115309671-3	chr9	115309570	115309770	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024222, intron 1 of 15)	CpG	751.0	NM_024222	68292.0	Mm.296158	NM_024222	ENSMUSG00000032437	Stt3b	1300006C19Rik|Simp	STT3, subunit of the oligosaccharyltransferase complex, homolog B (S. cerevisiae)	protein-coding	23.5	27.5	18.0	235.0	60.5	14.5	25.0	30.5
Merged-chr4-26347435-4	chr4	26347336	26347536	+	831.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172865)	promoter-TSS (NM_172865)	-784.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	8.0	44.0	10.0	95.0	41.0	14.0	15.0	6.5
Merged-chr2-113494887-2	chr2	113494787	113494987	+	796.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001285459, intron 3 of 16)	intron (NM_001285459, intron 3 of 16)	53823.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	4.0	7.0	2.5	116.0	17.0	4.5	8.5	7.5
Merged-chr1-134094028-4	chr1	134093929	134094129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14874.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	175.0	238.0	212.5	2842.0	441.0	151.5	251.0	172.0
Merged-chr4-88395923-4	chr4	88395825	88396025	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 37 of 43)	intron (NM_001081184, intron 37 of 43)	43001.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	38.0	24.0	22.5	440.5	50.5	17.5	24.0	18.5
Merged-chr2-121457104-4	chr2	121457009	121457209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026318)	promoter-TSS (NM_026318)	21.0	NM_026318	67693.0	Mm.330525	NM_026318	ENSMUSG00000027245	Hypk	2310003F16Rik|HSPC136	huntingtin interacting protein K	protein-coding	42.0	43.0	20.0	524.5	69.5	36.0	29.0	34.0
Merged-chr8-56285055-4	chr8	56284959	56285159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-9493.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	42.5	44.5	73.5	1351.5	59.0	39.5	36.5	42.5
Merged-chr15-99001740-4	chr15	99001611	99001811	+	989.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15746.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	13.0	19.0	23.0	97.5	47.0	7.5	15.5	16.5
Merged-chr6-50112957-4	chr6	50112870	50113070	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 1 of 13)	intron (NM_001361248, intron 1 of 13)	2110.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	30.0	28.5	26.0	249.0	46.5	15.0	35.5	14.5
Merged-chr5-140502468-4	chr5	140502353	140502553	+	935.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-3156.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	22.5	17.0	21.5	237.5	30.0	9.5	19.5	11.5
Merged-chr2-105674007-4	chr2	105673930	105674130	+	940.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001244198, intron 1 of 12)	intron (NM_001244198, intron 1 of 12)	-1714.0	NM_001244200	18508.0	Mm.3608	NM_013627	ENSMUSG00000027168	Pax6	1500038E17Rik|AEY11|Dey|Gsfaey11|Pax-6|Sey	paired box 6	protein-coding	14.0	21.0	14.0	334.0	40.0	7.0	14.0	24.0
Merged-chr18-39085919-3	chr18	39085771	39085971	+	795.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361073, intron 1 of 21)	intron (NM_001361073, intron 1 of 21)	92726.0	NM_175164	71302.0	Mm.329396	NM_175164	ENSMUSG00000036452	Arhgap26	1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621	Rho GTPase activating protein 26	protein-coding	6.0	9.5	9.5	130.5	1.0	0.0	0.0	3.5
Merged-chr8-8477716-3	chr8	8477628	8477828	+	865.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	183045.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	12.0	10.5	8.0	140.5	9.0	2.0	7.5	5.0
Merged-chr2-102946232-3	chr2	102946135	102946335	+	738.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44570.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	6.0	16.0	5.0	108.0	19.0	4.5	7.5	7.0
Merged-chr10-52426096-4	chr10	52425995	52426195	+	885.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030250, intron 1 of 4)	MTD|LTR|ERVL-MaLR	8548.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	21.5	16.0	15.0	315.5	35.5	10.0	12.0	12.5
Merged-chr19-6910111-4	chr19	6910001	6910201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358444)	promoter-TSS (NM_001358444)	5.0	NM_012021	54683.0	Mm.279782	NM_012021	ENSMUSG00000024953	Prdx5	AOEB166|AOPP|PLP|Pmp20|Prdx6|PrxV	peroxiredoxin 5	protein-coding	86.5	139.0	63.0	558.0	224.5	76.5	74.0	95.0
Merged-chr17-81706330-4	chr17	81706228	81706428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	32059.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	40.5	26.0	30.5	441.5	79.5	22.5	31.5	32.5
Merged-chr8-106151917-4	chr8	106151718	106151918	+	978.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357319, intron 1 of 5)	intron (NM_001357319, intron 1 of 5)	1464.0	NM_001357319	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	5.5	16.5	28.0	261.5	47.0	14.0	7.0	17.0
Merged-chr10-10733368-3	chr10	10733294	10733494	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114333, intron 6 of 9)	intron (NM_001114333, intron 6 of 9)	-17652.0	NR_046010	78056.0	Mm.271285	NR_046010	ENSMUSG00000112730	4930567K20Rik	1700038H22Rik	RIKEN cDNA 4930567K20 gene	ncRNA	8.5	11.5	7.0	155.0	12.5	7.0	2.5	6.0
Merged-chr15-25272129-4	chr15	25272037	25272237	+	892.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141627.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	7.5	21.0	6.5	154.0	32.0	8.5	12.5	24.0
Merged-chr9-120052444-3	chr9	120052350	120052550	+	731.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009987, intron 1 of 1)	intron (NM_009987, intron 1 of 1)	15846.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	12.0	18.5	19.0	105.5	2.0	0.5	0.0	0.0
Merged-chr10-89547988-1	chr10	89547888	89548088	+	569.0	f0_balb.idr	Intergenic	Intergenic	-14366.0	NM_001163504	20186.0	Mm.3095	NM_009108	ENSMUSG00000047638	Nr1h4	AI957360|Fxr|HRR1|RIP14|Rxrip14	nuclear receptor subfamily 1, group H, member 4	protein-coding	5.0	11.0	7.5	16.0	0.0	0.0	0.0	0.0
Merged-chr4-41569671-4	chr4	41569600	41569800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159583)	promoter-TSS (NM_001159583)	-94.0	NM_175138	68922.0	Mm.79127	NM_175138	ENSMUSG00000061322	Dnaic1	1110066F04Rik|BB124644|Dnai1|b2b1526Clo	dynein, axonemal, intermediate chain 1	protein-coding	267.0	333.0	226.5	2972.0	910.0	364.0	404.5	328.5
Merged-chr11-120573856-2	chr11	120573756	120573956	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011032)	promoter-TSS (NM_011032)	-603.0	NM_011032	18453.0	Mm.16660	NM_011032	ENSMUSG00000025130	P4hb	ERp59|PDI|Pdia1|Thbp	prolyl 4-hydroxylase, beta polypeptide	protein-coding	24.5	29.0	23.5	288.5	32.5	16.0	11.0	17.0
Merged-chr8-57487194-4	chr8	57487148	57487348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126555)	promoter-TSS (NR_126555)	612.0	NM_021788	60406.0	Mm.118	NM_021788	ENSMUSG00000031609	Sap30	30kDa	sin3 associated polypeptide	protein-coding	24.5	33.5	31.0	462.0	48.0	18.0	32.0	33.0
Merged-chr1-86018391-4	chr1	86018290	86018490	+	775.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3552.0	NM_001122732	70060.0	Mm.196313	NM_027029	ENSMUSG00000026226	Spata3	1700011N12Rik|1700029H01Rik|4930424D10Rik|Mtsarg1|Tsarg1	spermatogenesis associated 3	protein-coding	16.0	12.5	8.5	68.0	20.5	9.0	6.0	17.5
Merged-chr9-114727533-4	chr9	114727470	114727670	+	834.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3633.0	NM_026036	67213.0	Mm.28858	NM_026036	ENSMUSG00000032434	Cmtm6	2810051A14Rik|AA536733|Cklfsf6	CKLF-like MARVEL transmembrane domain containing 6	protein-coding	9.5	16.5	4.0	105.5	21.0	8.0	7.0	12.5
Merged-chr19-47580372-4	chr19	47580311	47580511	+	886.473206	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164639, intron 1 of 17)	CpG	392.0	NM_001164639	20874.0	Mm.281011	NM_009289	ENSMUSG00000025060	Slk	9A2|AV021402|AW411554|Etk4|SMAK|Stk2|mKIAA0204|mSLK	STE20-like kinase	protein-coding	12.5	24.0	12.0	166.0	28.5	6.5	9.5	3.5
Merged-chr2-34774245-15	chr2	34774006	34774206	+	943.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022310, exon 5 of 8)	exon (NM_022310, exon 5 of 8)	2016.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	14.5	10.5	8.0	146.0	64.0	15.5	8.5	14.0
Merged-chr8-73314076-4	chr8	73313964	73314164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	intron (NM_010687, intron 1 of 14)	39476.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	55.5	68.5	62.0	676.5	164.5	29.5	56.0	30.0
Merged-chr13-36088399-1	chr13	36088299	36088499	+	627.0	f0_balb.idr	intron (NM_201358, intron 2 of 2)	intron (NM_201358, intron 2 of 2)	28958.0	NM_201358	380840.0	Mm.390576	NM_201358	ENSMUSG00000046573	Lyrm4	BC034664|Gm903	LYR motif containing 4	protein-coding	5.5	7.0	7.0	116.5	10.0	2.5	3.5	5.5
Merged-chr17-25131273-4	chr17	25131152	25131352	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-2139.0	NM_011930	26373.0	Mm.270587	NM_011930	ENSMUSG00000036636	Clcn7	ClC-7|D17Wsu51e	chloride channel, voltage-sensitive 7	protein-coding	12.0	18.5	8.5	124.0	77.5	15.5	7.5	22.5
Merged-chr10-118098155-4	chr10	118098047	118098247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43640.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	181.0	331.0	316.5	3574.5	470.5	167.0	222.5	202.0
Merged-chr17-46773969-2	chr17	46773869	46774069	+	722.6999509999999	f1_balb.idr|f1_c57bl6.idr	TTS (NM_025966)	TTS (NM_025966)	1334.0	NM_025966	67101.0	Mm.358702	NM_025966	ENSMUSG00000062619	2310039H08Rik	-	RIKEN cDNA 2310039H08 gene	protein-coding	2.0	6.0	5.5	26.5	14.5	14.5	7.5	9.0
Merged-chr19-24225001-3	chr19	24224931	24225131	+	726.655579	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360392)	promoter-TSS (NM_001360392)	97.0	NM_011597	21873.0	Mm.104744	NM_011597	ENSMUSG00000024812	Tjp2	ZO-2	tight junction protein 2	protein-coding	6.0	10.0	7.0	128.5	7.5	2.5	2.5	2.0
Merged-chr7-66080373-4	chr7	66080299	66080499	+	766.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024439, exon 2 of 6)	exon (NM_024439, exon 2 of 6)	750.0	NM_024439	109815.0	Mm.482127	NM_024439	ENSMUSG00000075701	Selenos	1500011E07Rik|C78786|H-4|H-47|H4|H47|Sels|Vimp	selenoprotein S	protein-coding	8.5	12.0	10.5	85.5	29.5	5.0	13.5	8.0
Merged-chr6-98091770-4	chr6	98091672	98091872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	99989.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	37.0	72.5	48.5	812.0	131.5	44.5	39.0	49.0
Merged-chr10-123091972-4	chr10	123091884	123092084	+	807.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15479.0	NM_001163025	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	9.0	12.5	4.5	232.0	37.0	5.0	13.5	12.0
Merged-chr13-51424888-4	chr13	51424793	51424993	+	748.820801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16275.0	NM_010101	13610.0	Mm.136736	NM_010101	ENSMUSG00000067586	S1pr3	AI132464|Edg3|Lpb3|S1p3	sphingosine-1-phosphate receptor 3	protein-coding	6.0	12.0	20.0	96.5	39.0	7.5	7.5	10.0
Merged-chr12-69951261-3	chr12	69951165	69951365	+	794.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178628, intron 9 of 14)	Lx7|LINE|L1	-12144.0	NR_036607	100040999.0	Mm.394588	NR_036607	ENSMUSG00000079076	Gm3086	-	RuvB-like protein 1 pseudogene	pseudo	1.0	13.0	3.0	39.0	23.0	8.0	10.5	8.5
Merged-chr5-65136386-4	chr5	65136284	65136484	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359401, intron 1 of 5)	intron (NM_001359401, intron 1 of 5)	5153.0	NM_175174	71778.0	Mm.10281	NM_175174	ENSMUSG00000054920	Klhl5	1300013C10Rik	kelch-like 5	protein-coding	26.0	32.0	25.5	199.0	60.5	15.0	27.0	31.5
Merged-chr17-24470849-1	chr17	24470749	24470949	+	721.0	f0_c57.idr	exon (NM_025954, exon 1 of 2)	exon (NM_025954, exon 1 of 2)	376.0	NM_025954	67078.0	Mm.28541	NM_025954	ENSMUSG00000043445	Pgp	1700012G19Rik|AI481330|AUM|G3PP	phosphoglycolate phosphatase	protein-coding	6.0	14.5	5.5	143.5	31.0	4.5	17.0	17.0
Merged-chr13-19395848-4	chr13	19395742	19395942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024270)	promoter-TSS (NM_024270)	-29.0	NM_001347485	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	223.5	387.5	269.0	4016.0	663.0	239.0	291.5	287.0
Merged-chr9-78073550-3	chr9	78073448	78073648	+	638.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	21590.0	NM_008103	14531.0	Mm.1400	NM_008103	ENSMUSG00000023333	Gcm1	GCMa|Gcm-rs2|Gcm1-rs1|glide	glial cells missing homolog 1	protein-coding	8.0	7.0	18.5	46.0	6.0	10.0	5.0	6.0
Merged-chr15-88523630-4	chr15	88523530	88523730	+	855.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76672.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	10.5	13.0	3.0	197.5	25.0	5.0	14.0	16.0
Merged-chr2-128126602-3	chr2	128126521	128126721	+	953.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284410)	promoter-TSS (NM_001284410)	583.0	NM_009754	12125.0	Mm.141083	NM_009754	ENSMUSG00000027381	Bcl2l11	1500006F24Rik|Bim|Bod|bcl2-L-11	BCL2-like 11 (apoptosis facilitator)	protein-coding	14.0	35.0	14.0	83.5	14.0	19.0	13.0	22.0
Merged-chr6-88242703-3	chr6	88242594	88242794	+	866.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20426.0	NM_019964	56691.0	Mm.272871	NM_019964	ENSMUSG00000048206	Dnajb8	1700016F14Rik|1700031F10Rik|AI326313|mDj6	DnaJ heat shock protein family (Hsp40) member B8	protein-coding	5.5	8.0	6.5	88.5	8.0	2.5	7.5	5.0
Merged-chr7-115019455-6	chr7	115019305	115019505	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a-int|LTR|ERVL-MaLR	68131.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	10.5	10.5	20.0	198.0	28.5	8.0	10.5	4.5
Merged-chr10-117944088-4	chr10	117943983	117944183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045342, intron 3 of 3)	MTC|LTR|ERVL-MaLR	18624.0	NR_045342	71067.0	Mm.410793	NR_045342	ENSMUSG00000112500	4933411E08Rik	-	RIKEN cDNA 4933411E08 gene	ncRNA	12.5	32.5	19.5	348.5	154.5	34.5	57.5	69.0
Merged-chr9-20831112-4	chr9	20830985	20831185	+	695.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12581.0	NM_001030290	235033.0	Mm.297661	NM_001030290	ENSMUSG00000053773	Rdh8	Gm182|prRDH	retinol dehydrogenase 8	protein-coding	8.5	9.5	10.5	74.5	17.0	6.0	2.5	13.0
Merged-chr17-6008801-4	chr17	6008698	6008898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357667, intron 7 of 24)	intron (NM_001357667, intron 7 of 24)	1218.0	NM_001290698	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	99.0	108.5	80.0	1608.0	154.5	59.5	59.0	90.5
Merged-chr5-150601002-4	chr5	150600897	150601097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001362416, exon 8 of 8)	3' UTR (NM_001362416, exon 8 of 8)	-6472.0	NM_133898	100637.0	Mm.279932	NM_133898	ENSMUSG00000041132	N4bp2l1	2410024N18Rik|AI428195|B230342M21Rik	NEDD4 binding protein 2-like 1	protein-coding	45.5	37.5	51.0	871.5	104.5	33.5	42.5	52.5
Merged-chr16-94572653-4	chr16	94572546	94572746	+	929.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	1739.0	NM_001113389	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	7.5	16.5	10.5	174.5	35.5	24.5	8.5	13.0
Merged-chr10-117281682-4	chr10	117281583	117281783	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017372, intron 1 of 3)	intron (NM_017372, intron 1 of 3)	589.0	NM_017372	17105.0	Mm.45436	NM_017372	ENSMUSG00000069516	Lyz2	AI326280|Lys|Lysm|Lyzf2|Lyzs|Lzm|Lzm-s1|Lzp	lysozyme 2	protein-coding	13.5	50.5	14.5	114.0	38.5	14.5	22.0	24.5
Merged-chr3-107631747-4	chr3	107631636	107631836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153563)	promoter-TSS (NM_153563)	-26.0	NM_153563	229707.0	Mm.278643	NM_153563	ENSMUSG00000014601	Strip1	6330569M22Rik|6530401O14Rik|Fam40a	striatin interacting protein 1	protein-coding	96.5	160.0	47.0	1056.5	262.5	90.0	102.0	97.5
Merged-chr19-40708336-4	chr19	40708241	40708441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	48571.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	194.5	246.0	157.5	2764.5	434.0	140.5	188.5	135.5
Merged-chr5-103629634-4	chr5	103629550	103629750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029415)	promoter-TSS (NM_029415)	-247.0	NM_029415	75750.0	Mm.7446	NM_029415	ENSMUSG00000029321	Slc10a6	8430417G17Rik|C78479|Soat	solute carrier family 10 (sodium/bile acid cotransporter family), member 6	protein-coding	58.5	58.0	71.5	1194.5	97.5	41.5	40.5	43.0
Merged-chr10-61648598-4	chr10	61648512	61648712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026438)	promoter-TSS (NM_026438)	-9.0	NM_026438	67895.0	Mm.28897	NM_026438	ENSMUSG00000020089	Ppa1	2010317E03Rik|Pyp	pyrophosphatase (inorganic) 1	protein-coding	100.5	136.0	97.5	1477.0	242.0	98.5	101.5	91.5
Merged-chr16-90259957-4	chr16	90259866	90260066	+	967.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 4 of 19)	intron (NM_001346799, intron 4 of 19)	24520.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	31.0	40.5	36.5	556.5	78.0	14.5	29.0	13.5
Merged-chr4-149806909-3	chr4	149806798	149806998	+	774.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32631.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	6.0	11.5	3.5	57.0	23.5	5.0	17.0	6.5
Merged-chr2-148082488-1	chr2	148082388	148082588	+	711.666687	f0_c57.idr	Intergenic	Intergenic	-35519.0	NM_010446	15376.0	Mm.938	NM_010446	ENSMUSG00000037025	Foxa2	HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b	forkhead box A2	protein-coding	2.0	5.0	3.0	72.5	27.0	13.5	20.0	13.5
Merged-chr4-128839331-4	chr4	128839238	128839438	+	848.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-33226.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	4.0	12.0	6.0	113.5	27.5	5.0	9.5	16.5
Merged-chr11-95805812-3	chr11	95805722	95805922	+	825.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18678.0	NM_153104	237928.0	Mm.133075	NM_153104	ENSMUSG00000050860	Phospho1	D11Moh36|Phospo1	phosphatase, orphan 1	protein-coding	16.0	20.5	8.0	118.5	18.0	4.5	6.0	4.0
Merged-chr13-118387252-4	chr13	118387162	118387362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021556)	promoter-TSS (NM_021556)	-10.0	NM_021556	59054.0	Mm.143810	NM_021556	ENSMUSG00000021731	Mrps30	2610020A16Rik|AA968347|PAP|Pdcd9	mitochondrial ribosomal protein S30	protein-coding	138.5	120.5	96.0	1984.5	349.5	132.0	131.5	135.0
Merged-chr2-33918533-2	chr2	33918433	33918633	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-30587.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	6.0	9.0	3.0	38.5	36.5	6.5	10.5	11.5
Merged-chr16-85173754-4	chr16	85173663	85173863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198824)	promoter-TSS (NM_001198824)	-56.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	60.5	109.5	47.5	1279.5	200.0	62.0	100.5	92.5
Merged-chr10-127668946-4	chr10	127668841	127669041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045171)	TTS (NR_045171)	1818.0	NR_045171	72243.0	Mm.482902	NR_045171	ENSMUSG00000040195	1700012D01Rik	-	RIKEN cDNA 1700012D01 gene	ncRNA	17.0	43.5	9.5	67.5	76.0	24.5	37.0	16.0
Merged-chr1-166137702-4	chr1	166137607	166137807	+	976.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360925, intron 1 of 5)	intron (NM_001360925, intron 1 of 5)	7486.0	NM_001360925	59290.0	Mm.46357	NM_021610	ENSMUSG00000000544	Gpa33	2010310L10Rik|2210401D16Rik|BB116197|mA33	glycoprotein A33 (transmembrane)	protein-coding	45.5	38.0	35.0	699.5	60.5	20.5	13.5	33.0
Merged-chr2-25581860-4	chr2	25581802	25582002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1803.0	NM_001005424	381353.0	Mm.379511	NM_001005424	ENSMUSG00000029419	Gm996	Ajm1	predicted gene 996	protein-coding	22.0	51.5	26.0	235.0	55.5	26.5	17.5	19.5
Merged-chr12-102377926-3	chr12	102377796	102377996	+	709.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 7 of 9)	intron (NM_177620, intron 7 of 9)	61917.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	3.5	5.0	13.0	107.5	15.5	6.0	5.5	5.0
Merged-chr2-101783460-4	chr2	101783349	101783549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	14258.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	66.0	133.0	105.0	1073.0	268.5	104.5	120.0	121.5
Merged-chr6-38535264-4	chr6	38535184	38535384	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025363, intron 1 of 1)	intron (NM_025363, intron 1 of 1)	423.0	NM_025363	66117.0	Mm.158971	NM_025363	ENSMUSG00000019689	Fmc1	1110001J03Rik	formation of mitochondrial complex V assembly factor 1	protein-coding	15.5	19.5	17.5	265.5	42.0	16.0	23.0	35.0
Merged-chr14-104523670-4	chr14	104523579	104523779	+	978.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1013.0	NM_026047	72486.0	Mm.291811	NM_026047	ENSMUSG00000022120	Rnf219	2610206B13Rik|2810449K13Rik|AI451544	ring finger protein 219	protein-coding	22.0	26.5	15.5	344.5	67.5	24.0	29.0	16.0
Merged-chr3-8983266-3	chr3	8983173	8983373	+	870.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	-19127.0	NM_001025261	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	9.5	17.5	9.0	101.0	23.0	3.5	6.5	6.0
Merged-chr8-80952470-4	chr8	80952358	80952558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62448.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	149.0	249.0	151.0	1877.0	395.5	154.0	132.5	149.5
Merged-chr19-53422514-3	chr19	53422427	53422627	+	788.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31893.0	NM_172429	76479.0	Mm.313687	NM_172429	ENSMUSG00000025024	Smndc1	-	survival motor neuron domain containing 1	protein-coding	8.0	6.5	5.0	111.5	8.0	2.5	6.5	2.5
Merged-chr1-135735516-4	chr1	135735419	135735619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007791, intron 1 of 5)	intron (NM_007791, intron 1 of 5)	6352.0	NM_007791	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	21.5	36.0	52.5	605.0	113.0	22.5	39.0	37.0
Merged-chr7-141048434-4	chr7	141048332	141048532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12842.0	NM_177897	330671.0	Mm.133741	NM_177897	ENSMUSG00000055629	B4galnt4	BC038881|Gm1095|beta4GalNAcT4	beta-1,4-N-acetyl-galactosaminyl transferase 4	protein-coding	19.0	74.5	22.0	658.5	86.5	50.0	40.0	28.0
Merged-chr5-114942221-4	chr5	114942122	114942322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028211)	promoter-TSS (NM_028211)	20.0	NM_028211	72357.0	Mm.292672	NM_028211	ENSMUSG00000029559	2210016L21Rik	-	RIKEN cDNA 2210016L21 gene	protein-coding	47.5	65.5	33.0	493.0	136.5	44.0	47.0	52.0
Merged-chr18-39416918-4	chr18	39416817	39417017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 6 of 7)	intron (NM_008173, intron 6 of 7)	70328.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	42.0	61.5	35.0	693.5	64.5	25.5	47.0	35.0
Merged-chr1-139001202-4	chr1	139001072	139001272	+	891.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	23515.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	11.0	12.5	9.5	212.5	35.0	11.0	10.0	4.0
Merged-chr6-97447193-4	chr6	97447083	97447283	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	12103.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	71.5	75.5	51.0	1071.0	103.5	32.5	51.5	38.5
Merged-chr1-148993822-3	chr1	148993716	148993916	+	784.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	928623.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	5.0	6.0	8.0	120.5	21.0	5.5	10.0	4.0
Merged-chr3-15331667-3	chr3	15331552	15331752	+	795.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001076679, intron 1 of 2)	intron (NM_001076679, intron 1 of 2)	650.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	18.0	5.5	23.5	311.5	6.5	3.0	1.5	7.0
Merged-chr11-69966230-2	chr11	69966130	69966330	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001193619, intron 2 of 4)	CpG	809.0	NM_016887	53624.0	Mm.281896	NM_016887	ENSMUSG00000018569	Cldn7	-	claudin 7	protein-coding	3.5	4.5	15.5	20.5	18.0	7.0	8.0	6.5
Merged-chr1-165853888-2	chr1	165853788	165853988	+	695.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113391, intron 1 of 7)	intron (NM_001113391, intron 1 of 7)	65207.0	NM_001113392	12503.0	Mm.217308	NM_031162	ENSMUSG00000005763	Cd247	4930549J05Rik|A430104F18Rik|AW552088|Cd3|Cd3-eta|Cd3-zeta|Cd3h|Cd3z|Cd3zeta|T3z|Tcrk|Tcrz	CD247 antigen	protein-coding	1.5	12.0	7.5	53.0	21.0	7.5	7.0	5.5
Merged-chr12-85123790-4	chr12	85123675	85123875	+	933.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030225, exon 10 of 15)	exon (NM_030225, exon 10 of 15)	12942.0	NM_030225	78920.0	Mm.296221	NM_030225	ENSMUSG00000004789	Dlst	1600017E01Rik|4632413C10Rik|4930529O08Rik|DLTS	dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex)	protein-coding	19.5	41.5	23.0	577.5	52.5	10.5	21.5	13.5
Merged-chr11-32324766-4	chr11	32324626	32324826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23085.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	26.5	25.5	26.0	420.5	59.5	19.0	30.5	30.0
Merged-chr2-62643520-4	chr2	62643415	62643615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164477, intron 1 of 14)	intron (NM_001164477, intron 1 of 14)	2740.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	28.0	36.5	30.5	403.0	57.5	35.0	38.5	26.0
Merged-chr9-32032228-4	chr9	32032103	32032303	+	986.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-83933.0	NM_001195632	330914.0	Mm.46683	NM_177379	ENSMUSG00000041444	Arhgap32	3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap	Rho GTPase activating protein 32	protein-coding	19.5	18.5	20.5	554.5	48.0	14.5	24.5	15.5
Merged-chr18-68189950-4	chr18	68189852	68190052	+	949.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-37994.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	14.5	17.0	16.0	192.0	66.0	17.0	20.5	11.5
Merged-chr1-87184991-4	chr1	87184890	87185090	+	895.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027084, intron 4 of 12)	intron (NM_027084, intron 4 of 12)	1676.0	NM_027084	69453.0	Mm.84618	NM_027084	ENSMUSG00000036480	Prss56	1700027L20Rik	protease, serine 56	protein-coding	9.0	15.5	12.5	176.0	25.0	12.0	17.5	9.0
Merged-chr15-31542125-4	chr15	31542002	31542202	+	950.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11065.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	14.0	12.0	10.5	200.0	42.0	9.0	18.0	7.0
Merged-chr11-116814706-3	chr11	116814597	116814797	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347633, intron 2 of 4)	intron (NM_001347633, intron 2 of 4)	13349.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	54.0	68.5	53.5	1047.0	32.0	2.0	4.0	6.0
Merged-chr14-48896410-1	chr14	48896310	48896510	+	1000.0	f0_balb.idr	Intergenic	LTR33A_|LTR|ERVL	17537.0	NR_033783	66770.0	Mm.136954	NR_033783	ENSMUSG00000115008	4933429O19Rik	1700031B11Rik	RIKEN cDNA 4933429O19 gene	ncRNA	24.5	33.5	31.5	384.0	0.5	1.0	1.5	0.0
Merged-chr4-53133624-4	chr4	53133524	53133724	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 2 of 49)	intron (NM_013454, intron 2 of 49)	26271.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	77.5	98.0	67.5	691.0	102.0	26.0	42.5	36.0
Merged-chr8-119840607-4	chr8	119840494	119840694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028071)	promoter-TSS (NM_028071)	-15.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	177.0	302.5	159.5	2073.0	512.0	176.0	226.0	173.0
Merged-chr19-46315434-3	chr19	46315309	46315509	+	877.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028627, intron 12 of 17)	intron (NM_028627, intron 12 of 17)	9479.0	NM_001177370	18034.0	Mm.102365	NM_019408	ENSMUSG00000025225	Nfkb2	NF-kappaB2|lyt|p49|p49/p100|p50B|p52	nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100	protein-coding	9.0	11.0	13.0	59.5	41.0	6.0	9.5	8.0
Merged-chr2-157135227-4	chr2	157135128	157135328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018851)	promoter-TSS (NM_018851)	-6.0	NM_018851	56045.0	Mm.248478	NM_018851	ENSMUSG00000027639	Samhd1	E330031J07Rik|Mg11	SAM domain and HD domain, 1	protein-coding	87.0	205.0	102.5	1293.0	323.5	94.5	117.5	92.5
Merged-chr17-56757576-4	chr17	56757492	56757692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008738)	promoter-TSS (NM_008738)	-44.0	NM_008738	18188.0	Mm.8074	NM_008738	ENSMUSG00000039481	Nrtn	NTN	neurturin	protein-coding	35.5	43.0	26.5	470.5	67.0	22.5	34.5	34.0
Merged-chr11-5785911-4	chr11	5785804	5786004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2579.0	NM_001146309	13169.0	Mm.256925	NM_013810	ENSMUSG00000020476	Dbnl	Abp1|SH3P7|mAbp1	drebrin-like	protein-coding	54.5	97.0	74.5	1224.0	119.5	46.0	56.5	69.5
Merged-chr13-110363938-4	chr13	110363827	110364027	+	922.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6755.0	NM_177713	238875.0	Mm.30533	NM_177713	ENSMUSG00000046006	Gapt	9830130M13Rik	Grb2-binding adaptor, transmembrane	protein-coding	22.5	28.5	25.5	605.0	33.0	4.5	15.5	11.5
Merged-chr11-34036511-4	chr11	34036399	34036599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-10429.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	72.0	146.0	59.5	720.0	267.0	91.5	85.5	82.0
Merged-chr7-19178930-4	chr7	19178855	19179055	+	885.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347582, intron 1 of 21)	intron (NM_001347582, intron 1 of 21)	-2215.0	NM_001162996	72205.0	Mm.154121	NM_028153	ENSMUSG00000040811	Eml2	1600029N02Rik|EMAP-2	echinoderm microtubule associated protein like 2	protein-coding	9.5	27.5	14.0	109.0	34.5	8.0	11.0	14.0
Merged-chr4-102753551-4	chr4	102753441	102753641	+	942.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6594.0	NM_001285860	73094.0	Mm.54201	NM_144906	ENSMUSG00000028524	Sgip1	3110007P09Rik|SGIP1alpha|gag	SH3-domain GRB2-like (endophilin) interacting protein 1	protein-coding	12.0	16.5	23.5	311.5	49.5	5.5	15.0	17.0
Merged-chr14-74764340-3	chr14	74764256	74764456	+	872.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033439, intron 19 of 19)	intron (NM_001033439, intron 19 of 19)	32059.0	NM_016903	13885.0	Mm.38055	NM_016903	ENSMUSG00000021996	Esd	Es-10|Es10|FGH|sid478	esterase D/formylglutathione hydrolase	protein-coding	8.5	11.0	1.0	97.0	21.5	7.5	5.0	9.5
Merged-chr13-54983240-4	chr13	54983143	54983343	+	871.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153131, intron 1 of 15)	intron (NM_153131, intron 1 of 15)	33832.0	NM_001311128	107448.0	Mm.23573	NM_153131	ENSMUSG00000025876	Unc5a	Unc5h1|mKIAA1976	unc-5 netrin receptor A	protein-coding	7.0	13.5	7.0	146.5	26.5	14.0	17.5	20.5
Merged-chr1-136609032-4	chr1	136608933	136609133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15868.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	28.5	26.5	28.5	439.5	57.0	32.0	35.5	21.5
Merged-chr12-35051182-4	chr12	35051095	35051295	+	787.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014973, intron 1 of 25)	intron (NM_001014973, intron 1 of 25)	4006.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	4.5	14.0	0.0	139.5	24.0	11.0	11.5	6.0
Merged-chr15-27931596-2	chr15	27931496	27931696	+	772.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	B1_Mus2|SINE|Alu	94252.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	6.0	5.5	16.0	24.0	14.5	2.0	3.5	5.5
Merged-chr4-3938244-2	chr4	3938144	3938344	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190322)	promoter-TSS (NM_001190322)	161.0	NM_019969	56711.0	Mm.331467	NM_019969	ENSMUSG00000003282	Plag1	-	pleiomorphic adenoma gene 1	protein-coding	12.5	25.5	20.5	150.0	35.0	17.5	13.0	21.5
Merged-chr2-174077918-4	chr2	174077812	174078012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102423, intron 1 of 7)	intron (NM_001102423, intron 1 of 7)	861.0	NM_001102423	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	51.5	56.5	35.5	687.0	116.0	55.0	48.0	61.5
Merged-chr7-44384631-4	chr7	44384537	44384737	+	793.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016663, intron 1 of 10)	intron (NM_016663, intron 1 of 10)	511.0	NM_016663	20981.0	Mm.4824	NM_016663	ENSMUSG00000030731	Syt3	AI385753|sytIII	synaptotagmin III	protein-coding	9.5	11.0	13.5	47.5	19.0	6.5	18.0	17.5
Merged-chr1-165680556-4	chr1	165680436	165680636	+	982.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	27558.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	71.0	135.0	62.5	849.5	132.5	71.5	39.0	19.0
Merged-chr4-148500344-3	chr4	148500263	148500463	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039554)	promoter-TSS (NM_001039554)	99.0	NM_001039554	654812.0	Mm.388929	NM_001039554	ENSMUSG00000028989	Angptl7	-	angiopoietin-like 7	protein-coding	12.0	20.0	23.0	336.0	15.0	8.0	5.5	5.5
Merged-chr5-90907714-6	chr5	90907559	90907759	+	885.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3760.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	12.0	10.5	5.5	45.5	29.0	13.5	7.5	2.5
Merged-chr4-139201777-5	chr4	139201684	139201884	+	833.919983	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271405, intron 1 of 8)	intron (NM_001271405, intron 1 of 8)	7673.0	NM_001271405	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	2.0	1.5	3.0	39.5	18.5	4.5	10.5	7.0
Merged-chr13-58453227-4	chr13	58453105	58453305	+	978.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49862.0	NM_001301341	15387.0	Mm.142872	NM_025279	ENSMUSG00000021546	Hnrnpk	Hnrpk|KBBP|NOVA	heterogeneous nuclear ribonucleoprotein K	protein-coding	10.0	34.5	8.5	193.5	34.0	17.5	21.0	21.5
Merged-chr1-54944836-1	chr1	54944736	54944936	+	694.0	f0_balb.idr	Intergenic	MER121|DNA|TcMar?	-18449.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	7.5	9.0	19.5	136.5	18.5	1.0	2.0	5.5
Merged-chr11-34771828-4	chr11	34771739	34771939	+	921.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033374, intron 1 of 51)	intron (NM_033374, intron 1 of 51)	12066.0	NM_033374	94176.0	Mm.380679	NM_033374	ENSMUSG00000020143	Dock2	AI662014|AW122239|CED-5|Hch|MBC	dedicator of cyto-kinesis 2	protein-coding	19.0	16.0	3.0	174.0	21.5	10.0	14.0	17.5
Merged-chr3-32529427-4	chr3	32529343	32529543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024200)	promoter-TSS (NM_024200)	-39.0	NM_024200	67414.0	Mm.290414	NM_024200	ENSMUSG00000027668	Mfn1	2310002F04Rik|6330416C07Rik|D3Ertd265e|HR2|mKIAA4032	mitofusin 1	protein-coding	155.5	192.0	148.0	2505.5	320.0	134.5	178.0	145.0
Merged-chr1-55665323-4	chr1	55665204	55665404	+	690.025024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	259358.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	7.5	6.5	3.5	166.5	13.5	4.5	13.0	12.5
Merged-chr8-25976744-4	chr8	25976709	25976909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029884)	promoter-TSS (NM_029884)	-65.0	NM_029884	52120.0	Mm.28326	NM_029884	ENSMUSG00000037260	Hgsnat	9430010M12Rik|AW208455|D8Ertd354e|Tmem76	heparan-alpha-glucosaminide N-acetyltransferase	protein-coding	179.0	259.0	142.5	2032.0	404.0	142.5	206.0	148.5
Merged-chr13-45088006-4	chr13	45087917	45088117	+	991.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-85921.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	9.0	30.0	24.5	211.0	86.0	18.5	26.0	29.5
Merged-chr9-121679708-3	chr9	121679622	121679822	+	773.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178677)	TTS (NM_178677)	25307.0	NM_178677	215474.0	Mm.31421	NM_178677	ENSMUSG00000061536	Sec22c	4932412K21|5930407I15Rik|C530046H07|Sec22l3	SEC22 homolog C, vesicle trafficking protein	protein-coding	2.0	5.5	3.0	35.5	22.5	8.5	6.0	13.5
Merged-chr9-71757078-1	chr9	71756978	71757178	+	656.5	f0_balb.idr	intron (NM_026599, intron 1 of 18)	intron (NM_026599, intron 1 of 18)	14524.0	NM_026599	68178.0	Mm.99961	NM_026599	ENSMUSG00000032232	Cgnl1	4933421H10Rik|9930020M10Rik|AI503810|Jacop	cingulin-like 1	protein-coding	6.0	9.5	7.5	135.0	5.0	2.0	4.5	3.0
Merged-chr7-16924147-4	chr7	16924058	16924258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007590)	promoter-TSS (NM_007590)	-126.0	NM_007590	12315.0	Mm.288630	NM_007590	ENSMUSG00000019370	Calm3	CaMA|Cam3|Camc|R75142	calmodulin 3	protein-coding	262.5	486.5	304.0	4019.0	621.5	233.5	275.0	201.0
Merged-chr1-131446739-4	chr1	131446637	131446837	+	956.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081011, intron 2 of 22)	intron (NM_001081011, intron 2 of 22)	80624.0	NM_001081011	14270.0	Mm.276259	NM_019520	ENSMUSG00000026425	Srgap2	9930124L22Rik|AI448945|FBP2|Fnbp2|srGAP3	SLIT-ROBO Rho GTPase activating protein 2	protein-coding	19.0	16.5	20.5	243.5	35.0	20.0	25.0	10.0
Merged-chr6-85402937-4	chr6	85402842	85403042	+	840.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20944.0	NM_001007472	384452.0	Mm.347883	NM_001007472	ENSMUSG00000068302	Noto	Flh|MmNot|Not|tc	notochord homeobox	protein-coding	7.0	13.5	15.5	227.0	26.5	2.5	15.5	3.5
Merged-chr19-5688938-4	chr19	5688787	5688987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022012)	promoter-TSS (NM_022012)	21.0	NM_144868	104401.0	Mm.329650	NM_144868	ENSMUSG00000054874	Pcnx3	Pcnxl3|mKIAA4073	pecanex homolog 3	protein-coding	140.5	247.5	141.5	1414.5	363.0	177.0	140.0	129.5
Merged-chr8-84665434-2	chr8	84665351	84665551	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2599.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	14.0	32.5	17.0	90.0	15.5	12.0	10.5	24.5
Merged-chr19-12441678-3	chr19	12441586	12441786	+	978.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13781.0	NM_019540	56093.0	Mm.285849	NM_019540	ENSMUSG00000040065	Pfpl	Epcs5|Epcs50	pore forming protein-like	protein-coding	1.5	2.0	1.5	46.5	75.5	29.5	16.5	40.5
Merged-chr8-18950890-5	chr8	18950761	18950961	+	946.909973	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286469)	promoter-TSS (NM_001286469)	10.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	16.0	24.0	6.5	226.0	24.0	5.5	11.5	16.5
Merged-chr9-104272336-4	chr9	104272231	104272431	+	798.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9401.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	11.0	12.0	10.5	110.5	18.5	14.0	14.0	11.0
Merged-chr2-116955114-4	chr2	116955007	116955207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54955.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	60.0	106.5	78.0	643.0	82.5	36.5	45.0	35.0
Merged-chr3-96767251-4	chr3	96767143	96767343	+	947.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026406, intron 3 of 8)	ORR1D1-int|LTR|ERVL-MaLR	39632.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	18.5	35.0	17.5	133.5	62.0	14.0	22.0	24.0
Merged-chr6-115134924-2	chr6	115134824	115135024	+	736.8000490000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013681)	promoter-TSS (NM_013681)	22.0	NM_001111015	20965.0	Mm.441431	NM_013681	ENSMUSG00000009394	Syn2	2900074L19Rik|AI836018|AI841723	synapsin II	protein-coding	10.5	7.5	8.0	36.0	14.5	3.0	6.0	1.5
Merged-chr8-115555654-4	chr8	115555551	115555751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	151243.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	61.5	55.0	64.0	1035.0	115.0	23.0	61.0	60.0
Merged-chr15-99715074-4	chr15	99714964	99715164	+	847.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_155353)	TTS (NR_155353)	-2529.0	NM_010271	14555.0	Mm.252391	NM_010271	ENSMUSG00000023019	Gpd1	AI747587|Gdc-1|Gdc1|mKIAA4010	glycerol-3-phosphate dehydrogenase 1 (soluble)	protein-coding	11.0	16.5	6.5	154.0	52.0	12.5	11.0	17.5
Merged-chr13-44415305-4	chr13	44415260	44415460	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-24367.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	39.0	46.0	43.5	465.5	52.5	14.5	14.0	12.5
Merged-chr13-9884247-2	chr13	9884147	9884347	+	564.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 4 of 4)	L1_Mm|LINE|L1	-118926.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	3.0	3.0	0.5	16.5	12.0	4.5	6.0	8.0
Merged-chr5-12161417-4	chr5	12161311	12161511	+	958.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-221755.0	NM_028882	108151.0	Mm.89313	NM_028882	ENSMUSG00000040254	Sema3d	4631426B19Rik	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	protein-coding	17.5	11.0	8.5	297.5	41.5	7.5	26.0	14.0
Merged-chr10-77591066-3	chr10	77590954	77591154	+	766.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145925, intron 3 of 5)	intron (NM_145925, intron 3 of 5)	9399.0	NM_145925	108705.0	Mm.28853	NM_145925	ENSMUSG00000009291	Pttg1ip	1810010L20Rik|AI314311|AU018448|C79540|PBF	pituitary tumor-transforming 1 interacting protein	protein-coding	10.0	6.5	7.5	100.0	25.0	6.5	6.0	7.0
Merged-chr2-60881082-9	chr2	60880949	60881149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	CpG	389.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	44.5	62.0	36.5	405.5	113.0	39.0	43.0	37.0
Merged-chr6-135166848-4	chr6	135166781	135166981	+	911.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013546, intron 1 of 3)	intron (NM_013546, intron 1 of 3)	1334.0	NM_013546	15199.0	Mm.378937	NM_013546	ENSMUSG00000042770	Hebp1	Hebp|p22HBP	heme binding protein 1	protein-coding	6.0	16.0	6.5	129.5	35.0	17.5	12.5	13.0
Merged-chr9-87043444-4	chr9	87043363	87043563	+	636.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359962, intron 8 of 14)	intron (NM_001359962, intron 8 of 14)	21434.0	NM_001359962	266690.0	Mm.30166	NM_024195	ENSMUSG00000032872	Cyb5r4	2810034J18Rik|B5+B5R|C79736|Cb5cb5r|Ncb5or|b5/b5r|b5b5r	cytochrome b5 reductase 4	protein-coding	3.0	14.5	8.5	87.5	22.0	8.0	9.0	14.5
Merged-chr1-134048943-2	chr1	134048843	134049043	+	853.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_021355)	TTS (NM_021355)	11689.0	NM_021355	14264.0	Mm.287146	NM_021355	ENSMUSG00000041559	Fmod	AI131919|AU041740|FM|SLRR2E	fibromodulin	protein-coding	5.5	7.0	7.0	141.0	18.5	10.0	14.0	7.5
Merged-chr1-75400885-3	chr1	75400803	75401003	+	842.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173477, intron 1 of 4)	intron (NM_001173477, intron 1 of 4)	818.0	NM_001173477	11790.0	Mm.275397	NM_007463	ENSMUSG00000026207	Speg	AW125581|Apeg1|BPEG|D1Bwg1450e|SPEGalpha|SPEGbeta|mKIAA1297	SPEG complex locus	protein-coding	4.0	8.5	3.0	101.5	17.0	5.5	9.0	5.5
Merged-chr8-36238257-4	chr8	36238174	36238374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081150, intron 1 of 11)	intron (NM_001081150, intron 1 of 11)	11242.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	50.5	69.0	60.0	829.0	101.0	25.5	58.5	32.5
Merged-chr15-97162477-4	chr15	97162352	97162552	+	995.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155278, intron 2 of 3)	intron (NR_155278, intron 2 of 3)	4792.0	NR_155278	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	46.0	28.5	23.0	523.0	49.0	20.5	16.0	19.5
Merged-chr12-100841404-4	chr12	100841292	100841492	+	909.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361020, exon 6 of 14)	exon (NM_001361020, exon 6 of 14)	58132.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	14.5	15.0	7.0	203.5	67.0	10.5	18.0	30.5
Merged-chr12-98674869-7	chr12	98674772	98674972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46730.0	NM_001289574	104871.0	Mm.210053	NM_178914	ENSMUSG00000021007	Spata7	AI661438|B230306G18Rik|HSD3	spermatogenesis associated 7	protein-coding	26.5	80.5	49.0	498.0	53.5	14.0	19.0	21.5
Merged-chr11-108235539-3	chr11	108235442	108235642	+	946.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	intron (NM_011101, intron 2 of 16)	108346.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	11.0	21.0	13.5	147.0	13.5	7.5	7.0	15.5
Merged-chr2-128948374-4	chr2	128948282	128948482	+	816.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-4362.0	NM_020594	57432.0	Mm.11675	NM_020594	ENSMUSG00000027387	Zc3h8	AU020882|E130108N08Rik|Fliz1|Zc3hdc8	zinc finger CCCH type containing 8	protein-coding	11.0	19.5	3.0	159.5	23.5	6.0	10.0	16.0
Merged-chr19-42072359-3	chr19	42072257	42072457	+	975.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	14013.0	NM_198108	226123.0	Mm.259441	NM_198108	ENSMUSG00000049670	Morn4	-	MORN repeat containing 4	protein-coding	46.5	48.0	38.0	539.0	1.0	0.5	0.0	4.5
Merged-chr10-128549268-4	chr10	128549171	128549371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018860)	promoter-TSS (NM_018860)	-103.0	NM_018860	67945.0	Mm.290786	NM_018860	ENSMUSG00000093674	Rpl41	1810055P16Rik|2210411K19Rik	ribosomal protein L41	protein-coding	181.5	272.5	158.0	1731.5	329.0	165.5	144.0	124.5
Merged-chr11-95834940-3	chr11	95834830	95835030	+	993.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025659, intron 3 of 7)	intron (NM_025659, intron 3 of 7)	-7365.0	NM_023121	14710.0	Mm.46299	NM_023121	ENSMUSG00000038811	Gngt2	AV096488	guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 2	protein-coding	8.5	29.0	13.0	77.0	50.0	20.0	9.5	19.0
Merged-chr12-34663250-2	chr12	34663147	34663347	+	635.0	f0_balb.idr|f1_balb.idr	intron (NM_001271386, intron 3 of 27)	L1_Mus4|LINE|L1	-134358.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	13.0	10.5	10.5	14.5	16.5	4.0	5.5	5.5
Merged-chr6-97463947-4	chr6	97463832	97464032	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-4646.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	73.5	108.0	164.5	1521.5	198.5	86.0	121.5	102.5
Merged-chr11-76494666-4	chr11	76494567	76494767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346670)	promoter-TSS (NM_001346670)	-172.0	NM_001346670	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	36.5	43.5	35.0	465.0	64.5	30.0	28.0	20.5
Merged-chr1-165766058-4	chr1	165765937	165766137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 2 of 4)	intron (NR_149310, intron 2 of 4)	2279.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	48.0	77.0	56.5	840.0	115.5	54.0	62.5	44.0
Merged-chr7-102496853-3	chr7	102496751	102496951	+	899.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-2078.0	NM_146840	258837.0	Mm.377714	NM_146840	ENSMUSG00000044824	Olfr545	MOR42-1|S50	olfactory receptor 545	protein-coding	9.5	9.0	10.0	144.5	7.5	3.5	9.5	9.0
Merged-chr9-110411707-4	chr9	110411608	110411808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3498.0	NM_001081043	104831.0	Mm.335477	NM_001081043	ENSMUSG00000036057	Ptpn23	AI462446|PTP-TD14	protein tyrosine phosphatase, non-receptor type 23	protein-coding	28.0	45.0	17.0	454.5	71.0	30.5	41.5	25.5
Merged-chr9-61954923-4	chr9	61954819	61955019	+	934.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028748, exon 8 of 8)	3' UTR (NM_028748, exon 8 of 8)	-8120.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	19.0	31.5	20.0	302.5	36.0	14.0	18.0	23.5
Merged-chr14-50936694-6	chr14	50936550	50936750	+	922.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2-int|LTR|ERVL-MaLR	-5801.0	NM_001310507	219024.0	Mm.239117	NM_001033271	ENSMUSG00000035953	Tmem55b	BC039161|Pip4p1	transmembrane protein 55b	protein-coding	2.0	6.5	6.0	54.5	13.5	6.0	6.0	7.0
Merged-chr4-134535324-4	chr4	134535221	134535421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029759)	promoter-TSS (NM_029759)	-53.0	NM_001355187	76824.0	Mm.30153	NM_029759	ENSMUSG00000046671	Mtfr1l	2410166I05Rik|AI480750|Fam54b	mitochondrial fission regulator 1-like	protein-coding	114.0	190.5	103.0	2020.0	362.0	111.5	158.5	119.0
Merged-chr16-49888370-4	chr16	49888281	49888481	+	936.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 4 of 9)	Tigger6a|DNA|TcMar-Tigger	32727.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	33.5	26.0	20.0	558.0	38.0	11.0	14.0	19.5
Merged-chr9-121374606-4	chr9	121374505	121374705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357973, intron 1 of 5)	intron (NM_001357973, intron 1 of 5)	7647.0	NM_175114	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	17.5	28.5	32.5	379.5	96.5	30.5	28.0	49.0
Merged-chr7-30608074-3	chr7	30607963	30608163	+	621.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026815, intron 3 of 7)	intron (NM_026815, intron 3 of 7)	4671.0	NM_026815	109637.0	Mm.25471	NM_026815	ENSMUSG00000006313	Upk1a	1110031P12Rik|AU019298|C87192|Tspan21|Upk1	uroplakin 1A	protein-coding	7.0	13.0	3.0	47.0	21.0	4.5	12.0	8.0
Merged-chr12-110417415-4	chr12	110417268	110417468	+	952.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-29811.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	12.5	17.0	23.5	160.5	25.5	6.5	12.5	12.5
Merged-chr5-139406237-4	chr5	139406135	139406335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177000)	promoter-TSS (NM_177000)	-152.0	NM_177000	319772.0	Mm.440271	NM_177000	ENSMUSG00000044092	C130050O18Rik	-	RIKEN cDNA C130050O18 gene	protein-coding	27.0	29.5	60.0	909.5	67.5	20.5	20.5	16.5
Merged-chr8-122567722-4	chr8	122567622	122567822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026014)	promoter-TSS (NM_026014)	-293.0	NM_026014	67177.0	Mm.21873	NM_026014	ENSMUSG00000006585	Cdt1	2610318F11Rik|AW545653|C76791|Ris2	chromatin licensing and DNA replication factor 1	protein-coding	119.0	217.5	169.5	1888.0	343.0	161.5	122.5	132.0
Merged-chr11-121354429-4	chr11	121354297	121354497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025793)	promoter-TSS (NM_025793)	50.0	NM_025793	66840.0	Mm.103986	NM_025793	ENSMUSG00000025173	Wdr45b	0610008N23Rik|AA408735|D16Bwg0193e|WIPI-3|Wdr45l	WD repeat domain 45B	protein-coding	126.0	251.5	156.0	1583.0	340.5	116.0	101.5	138.5
Merged-chr1-138244116-4	chr1	138244030	138244230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-29608.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	122.0	184.0	114.5	1316.5	267.0	103.5	121.0	88.5
Merged-chr1-151620827-4	chr1	151620719	151620919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	49446.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	102.0	143.0	88.5	1436.5	199.5	88.5	84.0	68.0
Merged-chr9-80066988-4	chr9	80066903	80067103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146003)	promoter-TSS (NM_146003)	100.0	NM_146003	215351.0	Mm.28232	NM_146003	ENSMUSG00000034252	Senp6	2810017C20Rik|E130319N12Rik|Susp1|mKIAA0797	SUMO/sentrin specific peptidase 6	protein-coding	40.0	27.5	46.5	417.0	60.5	27.5	34.0	30.0
Merged-chr5-72796477-4	chr5	72796386	72796586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	-43709.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	61.0	68.0	51.5	1129.5	133.0	57.0	61.0	39.5
Merged-chr13-9125380-4	chr13	9125271	9125471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 3 of 17)	intron (NM_172585, intron 3 of 17)	31490.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	128.0	238.0	123.5	2421.5	357.5	76.5	157.0	125.5
Merged-chr1-85703523-1	chr1	85703423	85703623	+	1000.0	f0_c57.idr	intron (NM_013673, intron 17 of 19)	RLTR53B_Mm|LTR|ERVK	33083.0	NM_177055	319997.0	Mm.116691	NM_177055	ENSMUSG00000052760	A630001G21Rik	-	RIKEN cDNA A630001G21 gene	protein-coding	82.5	135.5	72.5	898.0	147.0	75.5	97.0	106.0
Merged-chr11-62810585-4	chr11	62810480	62810680	+	978.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9673.0	NM_053169	94092.0	Mm.117087	NM_053169	ENSMUSG00000047821	Trim16	9130006M08Rik|AI482483|EBBP	tripartite motif-containing 16	protein-coding	16.5	19.0	9.5	281.5	49.0	8.5	9.0	19.5
Merged-chr3-154177922-3	chr3	154177825	154178025	+	916.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081263, intron 2 of 21)	intron (NM_001081263, intron 2 of 21)	152635.0	NM_010713	16875.0	Mm.15530	NM_010713	ENSMUSG00000096225	Lhx8	L3|Lhx7	LIM homeobox protein 8	protein-coding	16.5	22.0	43.0	467.0	6.0	7.0	2.0	5.0
Merged-chr8-33386277-4	chr8	33386212	33386412	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001098233)	promoter-TSS (NM_001098233)	-13.0	NM_152821	75029.0	Mm.159402	NM_152821	ENSMUSG00000049184	Purg	4930486B15Rik	purine-rich element binding protein G	protein-coding	6.0	6.0	19.0	63.5	20.5	6.5	9.5	8.0
Merged-chr13-23431541-4	chr13	23431461	23431661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015492)	promoter-TSS (NR_015492)	-544.0	NR_015492	320842.0	Mm.487476	NR_015492	ENSMUSG00000085024	C230035I16Rik	-	RIKEN cDNA C230035I16 gene	ncRNA	25.0	47.0	28.5	367.0	54.5	21.0	22.0	33.0
Merged-chr4-95192214-4	chr4	95192111	95192311	+	903.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-139989.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	9.5	12.0	16.5	195.0	30.0	6.0	14.5	15.0
Merged-chr8-25241147-7	chr8	25241030	25241230	+	952.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39588.0	NM_177089	320165.0	Mm.308452	NM_177089	ENSMUSG00000065954	Tacc1	4833447E04Rik|AA960202|B230378H13Rik	transforming, acidic coiled-coil containing protein 1	protein-coding	1.5	3.5	4.5	80.5	5.5	5.5	4.5	7.0
Merged-chr2-24306829-4	chr2	24306723	24306923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15627.0	NM_153077	215274.0	Mm.218750	NM_153077	ENSMUSG00000046845	Il1f10	-	interleukin 1 family, member 10	protein-coding	21.5	38.0	31.0	888.0	79.0	29.0	42.0	55.5
Merged-chr14-25394782-4	chr14	25394680	25394880	+	932.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64405.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	14.0	35.0	20.0	138.0	36.0	14.5	10.0	11.0
Merged-chr17-13659361-4	chr17	13659315	13659515	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	-101126.0	NR_151731	17356.0	Mm.59167	NM_010806	ENSMUSG00000068036	Afdn	5033403D15Rik|AF6|Af-6|Afadin|Gm314|I-afadin|Mllt4|S-afadin	afadin, adherens junction formation factor	protein-coding	11.0	26.0	32.5	218.0	41.0	9.0	11.0	17.5
Merged-chr3-52199164-3	chr3	52199070	52199270	+	745.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69167.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	4.0	4.0	7.0	64.0	15.0	11.5	5.0	14.0
Merged-chr1-144215484-4	chr1	144215382	144215582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33622.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	43.0	65.5	28.0	718.0	105.5	35.5	25.5	23.5
Merged-chr3-21735919-3	chr3	21735813	21736013	+	886.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVB4_2-LTR_MM|LTR|ERVK	-340739.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	14.5	16.5	27.0	268.0	18.5	3.0	9.0	7.5
Merged-chr17-35471044-1	chr17	35470944	35471144	+	761.5	f0_balb.idr	exon (NM_010391, exon 3 of 7)	exon (NM_010391, exon 3 of 7)	955.0	NM_010391	15007.0	Mm.88795	NM_010391	ENSMUSG00000067235	H2-Q10	H-2Q10|Q10|Qa10	histocompatibility 2, Q region locus 10	protein-coding	5.5	14.0	8.0	141.0	6.0	2.5	0.0	1.5
Merged-chr5-136953889-4	chr5	136953794	136953994	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347504, intron 1 of 3)	intron (NM_001347504, intron 1 of 3)	619.0	NM_001347504	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	16.0	37.5	16.5	355.0	60.5	22.0	26.5	27.0
Merged-chr9-99479430-4	chr9	99479351	99479551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028768, exon 22 of 22)	3' UTR (NM_028768, exon 22 of 22)	9030.0	NR_028123	69797.0	Mm.307159	NR_028123	ENSMUSG00000046242	1600029I14Rik	-	RIKEN cDNA 1600029I14 gene	ncRNA	52.5	42.0	44.5	1001.0	92.5	27.0	50.5	55.0
Merged-chr12-40469141-4	chr12	40469028	40469228	+	968.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	23075.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	28.5	35.0	14.5	360.5	63.0	25.0	18.0	14.0
Merged-chr13-60619816-4	chr13	60619725	60619925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	17614.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	47.5	50.5	31.5	455.0	76.5	18.0	21.0	22.0
Merged-chr12-111694533-4	chr12	111694402	111694602	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16397.0	NM_177374	328162.0	Mm.425747	NM_177374	ENSMUSG00000060950	Trmt61a	6720458F09Rik|AI606093|Gcd14|Trm61	tRNA methyltransferase 61A	protein-coding	12.5	21.0	16.5	169.5	21.0	13.0	16.0	27.5
Merged-chr7-27553164-4	chr7	27553047	27553247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011116)	promoter-TSS (NM_011116)	71.0	NM_011116	18807.0	Mm.6483	NM_011116	ENSMUSG00000003363	Pld3	Sam-9	phospholipase D family, member 3	protein-coding	107.5	100.0	66.0	1416.5	126.0	56.5	87.0	74.0
Merged-chr9-75553875-4	chr9	75553768	75553968	+	950.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	5789.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	10.0	18.0	21.5	193.5	32.0	23.5	31.5	23.5
Merged-chr9-60743385-4	chr9	60743299	60743499	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	30278.0	NM_026235	67557.0	Mm.44546	NM_026235	ENSMUSG00000034839	Larp6	5430431G03Rik|AI552438|Achn	La ribonucleoprotein domain family, member 6	protein-coding	29.5	42.5	35.0	536.0	63.0	26.0	22.5	18.0
Merged-chr11-77078481-4	chr11	77078372	77078572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030756)	promoter-TSS (NR_030756)	-35.0	NM_001012309	237859.0	Mm.156195	NM_001012309	ENSMUSG00000037958	Nsrp1	8030451K07|AI851076|AL022898|Ccdc55|NSpr70|NSrp70	nuclear speckle regulatory protein 1	protein-coding	79.5	103.5	37.5	919.0	190.5	51.0	84.5	73.0
Merged-chr4-136148059-1	chr4	136147959	136148159	+	1000.0	f0_balb.idr	Intergenic	CpG	4237.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	112.0	133.0	116.0	1797.0	230.0	77.5	69.5	84.0
Merged-chr2-46251755-4	chr2	46251652	46251852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur1|LINE|L1	555147.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	24.5	25.0	26.0	264.5	50.0	20.5	25.5	27.0
Merged-chr19-10979961-4	chr19	10979855	10980055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034898, intron 6 of 6)	intron (NM_001034898, intron 6 of 6)	-5285.0	NM_023529	69826.0	Mm.273404	NM_023529	ENSMUSG00000024731	Ms4a10	2010001N17Rik	membrane-spanning 4-domains, subfamily A, member 10	protein-coding	87.0	106.0	42.0	902.5	179.0	55.5	59.5	80.5
Merged-chr17-88040961-3	chr17	88040888	88041088	+	949.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	intron (NM_001081034, intron 1 of 22)	23944.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	17.5	20.0	10.0	321.0	43.5	6.5	7.0	9.5
Merged-chr3-137867778-7	chr3	137867644	137867844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033155)	promoter-TSS (NM_001033155)	69.0	NM_001033155	70604.0	Mm.256488	NM_001033155	ENSMUSG00000074212	Dnajb14	5730496F10Rik	DnaJ heat shock protein family (Hsp40) member B14	protein-coding	14.0	39.5	25.0	291.5	104.0	22.0	42.0	21.0
Merged-chr6-117271765-4	chr6	117271627	117271827	+	912.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103192.0	NM_021704	20315.0	Mm.303231	NM_013655	ENSMUSG00000061353	Cxcl12	Pbsf|Scyb12|Sdf1|Tlsf|Tpar1	chemokine (C-X-C motif) ligand 12	protein-coding	12.0	11.5	23.5	292.5	22.5	3.5	11.0	19.5
Merged-chr8-35716678-2	chr8	35716580	35716780	+	1000.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	109879.0	NM_027998	71908.0	Mm.37817	NM_027998	ENSMUSG00000055976	Cldn23	2310014B08Rik	claudin 23	protein-coding	0.0	0.0	1.0	6.5	156.0	55.5	55.0	34.0
Merged-chr6-53592514-4	chr6	53592432	53592632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172728, intron 1 of 6)	intron (NM_172728, intron 1 of 6)	19158.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	165.5	245.0	162.5	1903.0	387.0	198.0	151.0	166.5
Merged-chr8-4678476-4	chr8	4678354	4678554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	65284.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	119.5	200.5	123.5	1127.5	482.0	154.5	170.0	167.0
Merged-chr8-11465440-4	chr8	11465328	11465528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011227, intron 1 of 1)	B2_Mm2|SINE|B2	-12501.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	49.5	96.0	53.0	618.0	93.5	39.5	39.5	60.0
Merged-chr17-24169597-4	chr17	24169497	24169697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361535)	promoter-TSS (NM_001361535)	81.0	NM_001361532	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	74.0	118.5	90.0	828.0	218.5	130.5	70.0	118.5
Merged-chr18-33464091-3	chr18	33463996	33464196	+	989.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045415)	promoter-TSS (NR_045415)	-67.0	NM_001109988	27528.0	Mm.407415	NM_053078	ENSMUSG00000042834	Nrep	AI325076|D0H4S114|Harp|P311|PTZ17|SEZ17	neuronal regeneration related protein	protein-coding	13.5	22.0	11.0	452.5	13.5	6.5	8.0	5.5
Merged-chr18-46273765-4	chr18	46273669	46273869	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172627, intron 2 of 8)	intron (NM_172627, intron 2 of 8)	7081.0	NM_172627	225467.0	Mm.262096	NM_172627	ENSMUSG00000024477	Pggt1b	2010207C17Rik|2610100E13|AI451237|AI551093|BGG1|GGT1	protein geranylgeranyltransferase type I, beta subunit	protein-coding	11.5	19.5	14.0	392.5	109.5	17.0	49.0	43.5
Merged-chr7-100487514-3	chr7	100487416	100487616	+	957.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5842.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	12.5	14.5	14.0	225.0	19.0	1.0	12.5	9.0
Merged-chr10-68373145-3	chr10	68373045	68373245	+	837.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52003.0	NR_045357	75148.0	Mm.23505	NR_045357	ENSMUSG00000112157	4930545H06Rik	-	RIKEN cDNA 4930545H06 gene	ncRNA	4.5	4.0	4.0	115.5	15.5	5.0	13.0	13.0
Merged-chr15-81857157-4	chr15	81857047	81857247	+	872.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020507, intron 1 of 1)	intron (NM_020507, intron 1 of 1)	1179.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	11.5	12.5	7.5	90.0	25.0	11.0	5.5	22.0
Merged-chr12-116141415-3	chr12	116141316	116141516	+	606.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009511, intron 10 of 12)	MTC|LTR|ERVL-MaLR	63690.0	NM_009511	22355.0	Mm.395245	NM_009511	ENSMUSG00000011171	Vipr2	VPAC2|VPAC2R|Vip2	vasoactive intestinal peptide receptor 2	protein-coding	10.0	2.5	9.0	113.0	30.0	7.5	8.0	13.0
Merged-chr16-11036265-4	chr16	11036129	11036329	+	952.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27331.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	9.0	24.5	8.0	142.5	40.0	12.0	16.5	25.0
Merged-chr10-78164113-4	chr10	78164025	78164225	+	884.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138601, intron 5 of 6)	intron (NM_138601, intron 5 of 6)	5643.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	10.5	18.0	11.0	178.5	35.5	6.0	12.0	19.0
Merged-chr5-121848943-4	chr5	121848848	121849048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359949)	promoter-TSS (NM_001359949)	-49.0	NM_175474	231717.0	Mm.12654	NM_175474	ENSMUSG00000044134	Fam109a	A230106M15Rik|AU017694|IPIP27A|Ses1	family with sequence similarity 109, member A	protein-coding	71.0	134.5	29.0	679.5	149.5	62.5	54.0	43.0
Merged-chr15-95805215-4	chr15	95805126	95805326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	14383.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	120.0	233.5	123.0	1461.0	324.5	109.5	86.5	92.0
Merged-chr12-103434185-4	chr12	103434073	103434273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026790)	promoter-TSS (NM_026790)	-16.0	NM_026790	52668.0	Mm.2121	NM_026790	ENSMUSG00000064215	Ifi27	1110013J02Rik|2900026P10Rik|D12Ertd647e|ISG12a|Ifi27l1	interferon, alpha-inducible protein 27	protein-coding	94.5	105.5	37.0	1096.5	211.5	73.0	100.5	86.0
Merged-chr3-145105645-4	chr3	145105553	145105753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6547.0	NM_178697	229933.0	Mm.331420	NM_178697	ENSMUSG00000036960	Clca2	4732440A06|AI586120|Clca5	chloride channel accessory 2	protein-coding	96.0	100.0	95.0	1453.5	201.5	83.5	83.0	78.5
Merged-chr1-97714898-4	chr1	97714803	97715003	+	960.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173760, intron 25 of 27)	intron (NM_173760, intron 25 of 27)	-52885.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	21.0	24.5	18.0	448.5	86.0	20.5	31.5	13.0
Merged-chr2-129393742-1	chr2	129393642	129393842	+	596.0	f0_c57.idr	Intergenic	Intergenic	-22603.0	NM_008361	16176.0	Mm.222830	NM_008361	ENSMUSG00000027398	Il1b	IL-1beta|Il-1b	interleukin 1 beta	protein-coding	5.0	3.5	0.0	19.0	25.5	10.5	12.0	10.5
Merged-chr15-30610832-4	chr15	30610744	30610944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-428282.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	131.5	187.5	154.0	2559.0	488.0	163.0	219.0	220.0
Merged-chr6-136548566-3	chr6	136548464	136548664	+	735.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	29713.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	10.0	9.0	2.0	91.0	19.5	6.0	7.5	12.0
Merged-chr16-87653129-4	chr16	87653031	87653231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45823.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	103.0	182.0	111.5	1891.5	290.0	79.0	103.5	97.5
Merged-chr5-31193176-4	chr5	31193071	31193271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001127355)	promoter-TSS (NM_001127355)	-32.0	NM_010122	13667.0	Mm.29394	NM_010122	ENSMUSG00000029145	Eif2b4	Eif2b	eukaryotic translation initiation factor 2B, subunit 4 delta	protein-coding	210.5	279.5	166.0	2647.5	430.5	166.5	199.5	190.0
Merged-chr15-66476090-4	chr15	66475986	66476186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019457, intron 3 of 11)	intron (NM_019457, intron 3 of 11)	24824.0	NM_019457	54562.0	Mm.244890	NM_019457	ENSMUSG00000022375	Lrrc6	LRTP	leucine rich repeat containing 6 (testis)	protein-coding	43.5	47.5	25.0	689.0	109.0	27.5	47.0	41.5
Merged-chr10-82670430-4	chr10	82670330	82670530	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029102, intron 2 of 9)	intron (NM_029102, intron 2 of 9)	20220.0	NM_029102	74782.0	Mm.191281	NM_029102	ENSMUSG00000020251	Glt8d2	1110021D20Rik	glycosyltransferase 8 domain containing 2	protein-coding	28.0	26.5	26.5	482.5	80.0	15.5	50.0	26.0
Merged-chr13-64364421-4	chr13	64364328	64364528	+	877.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009984, intron 7 of 7)	B4A|SINE|B4	6092.0	NM_009984	13039.0	Mm.930	NM_009984	ENSMUSG00000021477	Ctsl	1190035F06Rik|CatL|Ctsl1|MEP|fs|nkt	cathepsin L	protein-coding	16.0	21.5	9.0	164.0	33.5	18.5	3.0	4.0
Merged-chr7-28339784-1	chr7	28339684	28339884	+	1000.0	f0_balb.idr	Intergenic	B3|SINE|B2	-1065.0	NM_013676	20924.0	Mm.285906	NM_013676	ENSMUSG00000003435	Supt5	AL033283|AL033321|AU019549|Spt5|Supt5h	suppressor of Ty 5	protein-coding	33.5	42.0	19.5	227.5	79.5	30.5	39.0	27.0
Merged-chr1-164336074-4	chr1	164335969	164336169	+	851.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178071, intron 5 of 9)	RLTR12B|LTR|ERVK	28397.0	NM_138314	171567.0	Mm.219428	NM_138314	ENSMUSG00000026575	Nme7	D530024H21Rik|Nm23-M7|Nm23-r7	NME/NM23 family member 7	protein-coding	15.5	17.0	12.5	178.0	34.0	9.5	12.0	10.5
Merged-chr14-46872804-2	chr14	46872716	46872916	+	597.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-10149.0	NM_028966	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	1.0	6.5	1.0	46.0	14.0	11.5	10.0	12.0
Merged-chr18-12731563-4	chr18	12731481	12731681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028341, intron 10 of 13)	intron (NM_028341, intron 10 of 13)	-9774.0	NM_181731	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	44.5	35.0	62.0	751.5	78.0	23.5	84.5	72.0
Merged-chr3-69238672-3	chr3	69238582	69238782	+	721.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16263.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	9.0	11.0	12.0	101.0	9.5	12.0	7.5	7.5
Merged-chr10-61281268-3	chr10	61281173	61281373	+	863.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7835.0	NM_001081127	237360.0	Mm.333252	NM_001081127	ENSMUSG00000059901	Adamts14	Adamts-14|TS14	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 14	protein-coding	6.5	6.5	6.5	86.5	21.0	3.5	10.5	3.5
Merged-chr9-55307756-1	chr9	55307656	55307856	+	703.333313	f0_balb.idr	Intergenic	B3|SINE|B2	-19157.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	13.5	15.0	11.0	106.5	17.0	8.5	5.0	3.0
Merged-chr11-61498916-3	chr11	61498836	61499036	+	929.822205	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-4670.0	NM_001291034	23939.0	Mm.38172	NM_011841	ENSMUSG00000001034	Mapk7	BMK-1|BMK1|ERK-5|ERK5|Erk5-T|PRKM7|b2b2346Clo	mitogen-activated protein kinase 7	protein-coding	13.5	9.5	2.0	54.0	29.0	14.0	18.5	13.0
Merged-chr17-44710069-4	chr17	44709974	44710174	+	969.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271627, intron 4 of 7)	intron (NM_001271627, intron 4 of 7)	26102.0	NR_073425	12393.0	Mm.391013	NM_009820	ENSMUSG00000039153	Runx2	AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a	runt related transcription factor 2	protein-coding	32.5	34.0	38.5	508.5	45.5	11.5	37.0	14.0
Merged-chr1-43913423-4	chr1	43913322	43913522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-20572.0	NM_001310540	22019.0	Mm.401675	NM_009418	ENSMUSG00000041763	Tpp2	TPP-2|TppII	tripeptidyl peptidase II	protein-coding	37.0	67.0	40.5	602.0	73.5	19.0	32.0	29.5
Merged-chr11-50378503-4	chr11	50378397	50378597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347487, intron 2 of 12)	CpG-1904	778.0	NM_001347487	59013.0	Mm.21740	NM_021510	ENSMUSG00000007850	Hnrnph1	AI642080|E430005G16Rik|Hnrnph|Hnrph1	heterogeneous nuclear ribonucleoprotein H1	protein-coding	72.5	122.0	56.5	830.5	195.0	80.0	54.5	65.5
Merged-chr11-120853731-4	chr11	120853652	120853852	+	809.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 18 of 18)	intron (NM_027745, intron 18 of 18)	-29205.0	NM_007988	14104.0	Mm.236443	NM_007988	ENSMUSG00000025153	Fasn	A630082H08Rik|FAS	fatty acid synthase	protein-coding	9.5	21.0	10.5	79.0	30.0	9.0	22.0	15.0
Merged-chr14-73059879-4	chr14	73059807	73060007	+	831.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10793.0	NM_001162412	70086.0	Mm.158324	NM_133720	ENSMUSG00000033470	Cysltr2	2300001H05Rik|CYSLT2R|Cltr2|Cyslt2	cysteinyl leukotriene receptor 2	protein-coding	17.0	12.5	5.5	148.5	28.5	6.0	9.0	6.5
Merged-chr4-8863930-3	chr4	8863844	8864044	+	661.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001277149, exon 36 of 38)	exon (NM_001277149, exon 36 of 38)	112620.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	2.5	3.5	0.0	46.5	36.5	5.5	8.0	14.5
Merged-chr1-165763734-4	chr1	165763635	165763835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011804)	promoter-TSS (NM_011804)	-23.0	NR_149310	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	161.5	229.0	150.0	2487.0	432.0	141.0	188.0	135.0
Merged-chr17-71595230-4	chr17	71595131	71595331	+	826.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027953, intron 1 of 2)	intron (NR_027953, intron 1 of 2)	3050.0	NR_027953	68789.0	Mm.75202	NR_015549	ENSMUSG00000085492	Trmt61b	1110039F03Rik|623451|Gm6431	tRNA methyltransferase 61B	ncRNA	14.0	37.5	8.0	354.5	22.0	19.5	12.5	13.5
Merged-chr17-48264015-7	chr17	48263839	48264039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172623)	promoter-TSS (NM_172623)	-356.0	NM_172623	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	70.5	119.0	54.5	497.0	281.5	103.5	70.5	63.5
Merged-chr18-44780993-4	chr18	44780879	44781079	+	902.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 1 of 18)	intron (NM_001085373, intron 1 of 18)	31203.0	NM_001085373	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	11.5	1.0	11.0	214.5	32.0	9.5	12.5	21.5
Merged-chr19-12501636-4	chr19	12501516	12501716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172442, exon 1 of 9)	5' UTR (NM_172442, exon 1 of 9)	380.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	50.5	58.0	65.5	495.0	78.0	35.0	22.0	27.0
Merged-chr7-46546668-4	chr7	46546589	46546789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013789, intron 9 of 10)	MTE2a|LTR|ERVL-MaLR	93118.0	NM_013789	27414.0	Mm.76659	NM_013789	ENSMUSG00000030839	Sergef	DelGEF|Gef|Gnef|Gnefr	secretion regulating guanine nucleotide exchange factor	protein-coding	43.5	36.5	32.5	654.5	80.5	15.5	46.0	31.5
Merged-chr6-31804589-1	chr6	31804489	31804689	+	1000.0	f0_balb.idr	Intergenic	IAPLTR1_Mm|LTR|ERVK	-138458.0	NR_152155	434003.0	Mm.332979	NR_152155	ENSMUSG00000084973	Gm13848	-	predicted gene 13848	ncRNA	6.5	17.5	18.5	69.0	15.5	0.5	2.0	0.0
Merged-chr11-115474129-2	chr11	115474029	115474229	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001080934, exon 4 of 4)	3' UTR (NM_001080934, exon 4 of 4)	-1538.0	NM_177778	276905.0	Mm.38019	NM_177778	ENSMUSG00000057219	Armc7	A630084C13|BC023126	armadillo repeat containing 7	protein-coding	12.0	9.0	2.0	132.0	29.5	11.5	9.0	9.5
Merged-chr1-74124538-4	chr1	74124457	74124657	+	867.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027884)	promoter-TSS (NM_027884)	-108.0	NM_001289895	21961.0	Mm.309975	NM_027884	ENSMUSG00000055322	Tns1	1110018I21Rik|1200014E20Rik|AI648117|E030018G17Rik|E030037J05Rik|Tns	tensin 1	protein-coding	20.5	7.5	10.0	164.5	25.5	7.0	13.5	10.0
Merged-chr10-10466675-3	chr10	10466591	10466791	+	792.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127353, intron 1 of 36)	LTR101_Mam|LTR|ERVL	5623.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	0.0	1.0	1.0	31.0	32.5	13.0	11.0	18.5
Merged-chr5-43233000-4	chr5	43232893	43233093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175937)	promoter-TSS (NM_175937)	-470.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	166.0	237.0	272.5	2732.0	390.5	191.0	282.5	197.5
Merged-chr4-145218044-4	chr4	145217967	145218167	+	972.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 9 of 9)	intron (NM_011610, intron 9 of 9)	-23062.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	27.5	12.0	68.0	915.0	74.0	18.5	63.0	52.0
Merged-chr17-47842468-4	chr17	47842357	47842557	+	932.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7766.0	NM_001109973	17240.0	Mm.329100	NM_010783	ENSMUSG00000032717	Mdfi	I-mf|I-mfa	MyoD family inhibitor	protein-coding	11.0	23.5	10.5	212.0	42.5	15.0	16.5	12.5
Merged-chr12-91735796-4	chr12	91735688	91735888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 3 of 6)	intron (NM_175367, intron 3 of 6)	50648.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	39.0	37.0	35.0	631.5	76.5	27.0	48.0	35.0
Merged-chr6-83584273-3	chr6	83584161	83584361	+	853.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_078345, intron 7 of 7)	intron (NR_078345, intron 7 of 7)	-11757.0	NM_001362080	70527.0	Mm.32801	NM_024239	ENSMUSG00000006906	Stambp	5330424L14Rik|5730422L11Rik|AW107289|Amsh|mKIAA4198	STAM binding protein	protein-coding	7.0	11.0	10.0	148.5	21.0	7.0	3.0	5.0
Merged-chr8-70839795-4	chr8	70839745	70839945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027560)	promoter-TSS (NM_027560)	-125.0	NM_027560	70807.0	Mm.24215	NM_027560	ENSMUSG00000002910	Arrdc2	4632416I05Rik|Ilad1	arrestin domain containing 2	protein-coding	306.0	466.0	388.0	3599.5	758.5	368.5	343.0	330.0
Merged-chr13-91636993-4	chr13	91636910	91637110	+	936.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360776, intron 4 of 15)	intron (NM_001360776, intron 4 of 15)	-104511.0	NM_028790	74156.0	Mm.275963	NM_028790	ENSMUSG00000021620	Acot12	1300004O04Rik|4930449F15Rik|AV027244|Cach|mCACH-1	acyl-CoA thioesterase 12	protein-coding	27.5	34.0	22.0	397.5	28.5	21.5	15.0	18.5
Merged-chr17-24540559-4	chr17	24540465	24540665	+	837.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6818.0	NM_177375	328778.0	Mm.266033	NM_177375	ENSMUSG00000079657	Rab26	A830020M03Rik	RAB26, member RAS oncogene family	protein-coding	32.0	18.0	10.0	124.0	59.0	16.0	17.5	9.5
Merged-chr12-112631012-3	chr12	112630919	112631119	+	952.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 2 of 12)	MTD|LTR|ERVL-MaLR	10972.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	12.5	13.0	17.5	326.5	16.5	3.5	9.0	12.5
Merged-chr14-78815681-3	chr14	78815596	78815796	+	734.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33482.0	NM_027906	219189.0	Mm.159651	NM_027906	ENSMUSG00000058997	Vwa8	1300010F03Rik|4932416F07Rik|AI957255|Kiaa0564|mKIAA0564	von Willebrand factor A domain containing 8	protein-coding	6.5	9.5	14.0	178.5	3.0	0.0	0.0	2.0
Merged-chr6-72022116-3	chr6	72022012	72022212	+	842.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046180, intron 1 of 2)	Lx3_Mus|LINE|L1	20416.0	NR_046180	330350.0	Mm.246787	NR_046180	ENSMUSG00000108356	9130221F21Rik	9130221F21	RIKEN cDNA 9130221F21 gene	ncRNA	3.0	10.5	2.5	13.5	32.0	11.5	14.0	7.0
Merged-chr14-14068823-4	chr14	14068718	14068918	+	968.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139227, intron 4 of 11)	intron (NM_139227, intron 4 of 11)	52086.0	NM_025550	66413.0	Mm.27591	NM_025550	ENSMUSG00000021737	Psmd6	2400006A19Rik	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6	protein-coding	13.5	14.0	11.5	340.0	45.5	9.0	13.5	10.0
Merged-chr5-143532236-3	chr5	143532149	143532349	+	908.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-4218.0	NM_001347530	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	7.5	12.5	6.0	33.0	38.0	8.5	9.5	13.5
Merged-chr18-84589113-4	chr18	84589013	84589213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 1 of 8)	CpG	391.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	39.0	57.0	63.5	646.0	70.5	30.0	39.5	38.0
Merged-chr18-23987086-4	chr18	23986968	23987168	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2566.0	NM_011755	22694.0	Mm.290596	NM_011755	ENSMUSG00000063281	Zfp35	Zfp-35|Znf271|mszf13|mszf20-1|mszf28|mszf68	zinc finger protein 35	protein-coding	18.5	20.5	30.5	202.0	30.5	14.5	10.0	10.5
Merged-chr10-14179440-4	chr10	14179323	14179523	+	900.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	213044.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	12.5	16.5	30.0	469.0	24.0	25.5	9.5	12.0
Merged-chr5-122965690-3	chr5	122965593	122965793	+	876.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003953, intron 4 of 22)	intron (NM_001003953, intron 4 of 22)	23406.0	NM_001003953	30841.0	Mm.86406	NM_013910	ENSMUSG00000029475	Kdm2b	Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2	lysine (K)-specific demethylase 2B	protein-coding	11.0	9.5	11.0	95.0	9.5	5.0	5.5	10.0
Merged-chr6-6307789-1	chr6	6307689	6307889	+	659.0	f0_balb.idr	intron (NR_136905, intron 1 of 3)	intron (NR_136905, intron 1 of 3)	59130.0	NR_136905	101056138.0	Mm.389085	NR_136904	ENSMUSG00000093482	Gm20619	-	predicted gene 20619	ncRNA	6.0	8.0	10.5	141.0	1.0	3.0	0.0	3.0
Merged-chr11-117946766-4	chr11	117946669	117946869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22597.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	128.5	187.5	101.5	1417.5	180.0	86.0	111.0	89.0
Merged-chr3-69699534-4	chr3	69699433	69699633	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22522.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	14.5	45.5	6.5	183.5	54.0	21.5	14.5	13.5
Merged-chr10-123112943-4	chr10	123112842	123113042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027604, exon 22 of 22)	3' UTR (NM_027604, exon 22 of 22)	-36437.0	NM_001163025	67074.0	Mm.169924	NM_153395	ENSMUSG00000034602	Mon2	2610528O22Rik|AW495628|Sf21|mKIAA1040	MON2 homolog, regulator of endosome to Golgi trafficking	protein-coding	32.5	44.5	23.0	640.0	42.0	18.5	43.0	36.0
Merged-chr12-34725334-4	chr12	34725267	34725467	+	889.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	L2|LINE|L2	191728.0	NM_001271386	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	27.5	18.0	22.5	324.5	30.5	5.0	18.0	10.0
Merged-chr15-8577793-3	chr15	8577665	8577865	+	806.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	133042.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	15.0	7.5	5.0	55.0	11.0	8.0	10.0	4.0
Merged-chr7-45567913-3	chr7	45567797	45567997	+	939.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025330)	TTS (NM_025330)	-2256.0	NM_009737	12036.0	Mm.24210	NM_009737	ENSMUSG00000030826	Bcat2	Bcat(m)|Bcat-2|Eca40	branched chain aminotransferase 2, mitochondrial	protein-coding	5.5	9.5	10.5	140.0	23.5	6.0	11.0	8.5
Merged-chr7-19667640-4	chr7	19667536	19667736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2606.0	NM_019649	56457.0	Mm.290960	NM_019649	ENSMUSG00000002981	Clptm1	HS9|N14	cleft lip and palate associated transmembrane protein 1	protein-coding	53.5	52.5	30.5	759.0	89.0	32.5	41.0	40.5
Merged-chr2-72196731-3	chr2	72196619	72196819	+	944.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 8 of 26)	ID_B1|SINE|B4	-88918.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	0.5	2.5	0.0	1.5	70.0	21.5	35.0	28.0
Merged-chr13-34051813-4	chr13	34051669	34051869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026512, intron 4 of 6)	intron (NM_026512, intron 4 of 6)	14128.0	NM_026512	68021.0	Mm.140243	NM_026512	ENSMUSG00000038286	Bphl	2010012D11Rik|5730533B08Rik|AI115341	biphenyl hydrolase-like (serine hydrolase, breast epithelial mucin-associated antigen)	protein-coding	44.0	54.5	41.5	652.0	82.0	36.5	41.5	48.0
Merged-chr14-70024896-4	chr14	70024796	70024996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 4 of 6)	intron (NM_028560, intron 4 of 6)	-52549.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	129.5	208.0	146.0	1683.0	302.5	120.0	138.5	107.5
Merged-chr10-7816684-3	chr10	7816598	7816798	+	640.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026141, intron 12 of 12)	intron (NM_026141, intron 12 of 12)	-15772.0	NM_172785	237256.0	Mm.140055	NM_172785	ENSMUSG00000039981	Zc3h12d	D730019B10Rik|TFL	zinc finger CCCH type containing 12D	protein-coding	6.0	12.0	5.0	135.5	18.0	6.0	4.0	9.5
Merged-chr4-156252805-1	chr4	156252705	156252905	+	567.0	f0_c57.idr	intron (NM_001355709, intron 2 of 10)	intron (NM_001355709, intron 2 of 10)	2537.0	NM_001355709	231004.0	Mm.406833	NM_173736	ENSMUSG00000096351	Samd11	BC026991|mr-s	sterile alpha motif domain containing 11	protein-coding	7.5	7.5	6.5	62.5	15.5	15.5	12.0	8.0
Merged-chr14-70175444-4	chr14	70175345	70175545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145978, intron 1 of 9)	intron (NM_145978, intron 1 of 9)	1370.0	NM_001253736	213019.0	Mm.283968	NM_145978	ENSMUSG00000022090	Pdlim2	4732462F18Rik|Slim	PDZ and LIM domain 2	protein-coding	152.0	187.0	124.0	1982.0	300.5	99.5	147.0	120.5
Merged-chr16-23245392-4	chr16	23245244	23245444	+	857.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 1 of 7)	intron (NM_001252505, intron 1 of 7)	19323.0	NM_001252505	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	7.0	17.0	10.5	279.0	15.5	5.0	17.0	10.0
Merged-chr16-16073526-4	chr16	16073419	16073619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 5 of 18)	intron (NM_001355731, intron 5 of 18)	73332.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	120.5	176.0	106.0	2129.5	322.0	121.5	126.0	126.5
Merged-chr9-118673867-2	chr9	118673769	118673969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 11 of 27)	RSINE1|SINE|B4	-37823.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	13.5	11.0	4.0	114.5	25.0	10.0	10.5	13.0
Merged-chr12-84766451-4	chr12	84766291	84766491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023409, intron 1 of 3)	RMER13A1|LTR|ERVK	6721.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	34.5	34.0	18.5	356.5	40.0	13.5	31.5	29.5
Merged-chr4-155217583-4	chr4	155217478	155217678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	4957.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	49.0	58.5	40.0	727.5	60.5	33.5	36.5	45.5
Merged-chr4-46650204-4	chr4	46650123	46650323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198664)	promoter-TSS (NM_198664)	-24.0	NM_198664	381605.0	Mm.331595	NM_198664	ENSMUSG00000039813	Tbc1d2	A630005A06Rik|BC022630|Gm1037|PARIS-1|PARIS1	TBC1 domain family, member 2	protein-coding	72.5	99.5	48.0	1001.5	176.0	92.0	81.0	86.0
Merged-chr18-31911229-4	chr18	31911075	31911275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026006, exon 1 of 1)	exon (NM_026006, exon 1 of 1)	728.0	NM_026006	67158.0	Mm.31537	NM_026006	ENSMUSG00000044982	Sft2d3	2610206C24Rik|AI847965|AW046173	SFT2 domain containing 3	protein-coding	81.0	118.5	102.5	1181.0	157.5	76.0	86.0	70.5
Merged-chr16-95707173-6	chr16	95707035	95707235	+	893.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011809, intron 2 of 9)	intron (NM_011809, intron 2 of 9)	4728.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	12.5	15.0	4.0	36.0	30.5	14.0	7.5	4.5
Merged-chr5-137850462-4	chr5	137850378	137850578	+	978.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7571.0	NM_133209	170741.0	Mm.347593	NM_133209	ENSMUSG00000066684	Pilrb1	FDFACT|Fdact|Pilrb	paired immunoglobin-like type 2 receptor beta 1	protein-coding	20.5	34.5	43.5	123.5	36.5	14.0	16.0	19.5
Merged-chr18-67933981-4	chr18	67933860	67934060	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 1 of 5)	CpG	787.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	17.5	30.0	35.5	385.5	32.0	17.5	16.0	17.0
Merged-chr3-109031661-3	chr3	109031542	109031742	+	979.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-4035.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	6.0	4.5	18.0	132.5	5.0	1.5	0.0	8.0
Merged-chr17-35078046-4	chr17	35077931	35078131	+	951.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027366, intron 2 of 2)	intron (NM_027366, intron 2 of 2)	1089.0	NM_027366	70274.0	Mm.250491	NM_027366	ENSMUSG00000013766	Ly6g6e	2310011I02Rik|G6e	lymphocyte antigen 6 complex, locus G6E	protein-coding	14.5	27.0	11.0	168.0	28.5	11.0	16.0	11.5
Merged-chr19-6273971-4	chr19	6273871	6274071	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2925.0	NM_010119	13660.0	Mm.30169	NM_010119	ENSMUSG00000024772	Ehd1	AA409636|Past1|RME-1	EH-domain containing 1	protein-coding	45.5	119.5	32.5	193.5	123.5	54.0	29.5	13.0
Merged-chr4-3835642-4	chr4	3835535	3835735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026147)	promoter-TSS (NM_026147)	20.0	NM_026147	67427.0	Mm.21938	NM_026147	ENSMUSG00000028234	Rps20	4632426K06Rik|Dsk4	ribosomal protein S20	protein-coding	195.5	345.5	218.5	2770.0	447.5	177.5	197.0	201.5
Merged-chr11-75592854-4	chr11	75592767	75592967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008850, intron 2 of 11)	intron (NM_008850, intron 2 of 11)	4788.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	67.0	66.5	31.0	507.5	94.0	33.5	51.5	23.5
Merged-chr12-80816619-4	chr12	80816518	80816718	+	994.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	26086.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	45.0	73.0	16.0	342.5	103.0	57.0	41.0	35.0
Merged-chr6-129363430-4	chr6	129363332	129363532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177686, intron 5 of 5)	Lx7|LINE|L1	13188.0	NM_177686	232413.0	Mm.90241	NM_177686	ENSMUSG00000053063	Clec12a	CLL-1|D230024O04|KLRL1|Micl	C-type lectin domain family 12, member a	protein-coding	55.5	91.0	96.5	791.5	69.0	34.5	18.5	29.0
Merged-chr2-91065774-4	chr2	91065699	91065899	+	973.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290765, intron 3 of 9)	intron (NM_001290765, intron 3 of 9)	4516.0	NM_026721	68427.0	Mm.192375	NM_026721	ENSMUSG00000002105	Slc39a13	1100001L14Rik|AA387663|ZIP-13|ZIP13	solute carrier family 39 (metal ion transporter), member 13	protein-coding	11.5	20.5	12.5	169.0	40.5	7.5	3.5	14.0
Merged-chr11-82845510-4	chr11	82845413	82845613	+	936.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164570, intron 1 of 7)	intron (NM_001164570, intron 1 of 7)	-16470.0	NM_026097	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	22.0	34.0	8.5	166.5	28.5	14.5	16.0	13.5
Merged-chr12-108333211-3	chr12	108333093	108333293	+	880.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1123.0	NM_010010	13116.0	Mm.41911	NM_010010	ENSMUSG00000021259	Cyp46a1	CH24H|Cyp46	cytochrome P450, family 46, subfamily a, polypeptide 1	protein-coding	6.0	24.5	15.5	90.5	14.5	8.5	9.5	11.0
Merged-chr19-10869747-4	chr19	10869600	10869800	+	990.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133804)	promoter-TSS (NM_133804)	79.0	NM_133804	98170.0	Mm.490254	NM_133804	ENSMUSG00000024736	Tmem132a	6720481D13Rik|Hspa5bp1|Orai1|R74613	transmembrane protein 132A	protein-coding	23.0	23.0	18.0	274.0	33.5	19.5	15.5	23.5
Merged-chr7-114168512-4	chr7	114168396	114168596	+	909.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER3|DNA|hAT-Charlie	-50715.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	4.5	7.0	5.5	102.0	100.5	13.5	27.0	26.0
Merged-chr7-45562375-3	chr7	45562274	45562474	+	879.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025330, intron 5 of 8)	intron (NM_025330, intron 5 of 8)	7446.0	NM_025330	66065.0	Mm.285710	NM_025330	ENSMUSG00000030825	Hsd17b14	0610039E24Rik|Dhrs10|retSDR3	hydroxysteroid (17-beta) dehydrogenase 14	protein-coding	16.5	13.0	9.5	111.0	12.5	1.0	7.0	3.0
Merged-chr9-45408531-4	chr9	45408427	45408627	+	830.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_052823, intron 3 of 5)	intron (NM_052823, intron 3 of 5)	2450.0	NM_007503	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	12.0	17.5	7.5	147.0	31.5	12.5	7.0	7.0
Merged-chr5-137820909-4	chr5	137820784	137820984	+	799.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360023, intron 16 of 16)	Lx8b|LINE|L1	15394.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	8.0	12.5	13.5	75.0	27.0	16.0	3.5	2.0
Merged-chr3-95135846-4	chr3	95135761	95135961	+	968.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153121, intron 1 of 2)	intron (NM_153121, intron 1 of 2)	1773.0	NM_153121	217779.0	Mm.341945	NM_153121	ENSMUSG00000053769	Lysmd1	2610022K04Rik|AI415311	LysM, putative peptidoglycan-binding, domain containing 1	protein-coding	17.5	30.0	8.5	224.0	50.5	15.0	19.5	18.0
Merged-chr16-26371883-3	chr16	26371759	26371959	+	768.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016674)	promoter-TSS (NM_016674)	-20.0	NM_016674	12737.0	Mm.289441	NM_016674	ENSMUSG00000022512	Cldn1	AI596271	claudin 1	protein-coding	5.5	10.5	8.0	143.0	13.5	5.5	8.5	3.5
Merged-chr11-40755340-4	chr11	40755228	40755428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009831)	promoter-TSS (NM_009831)	-42.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	236.5	362.5	321.0	4998.0	602.0	187.0	296.0	223.5
Merged-chr4-53051482-2	chr4	53051382	53051582	+	909.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 34 of 49)	B3|SINE|B2	39602.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	0.5	6.5	1.5	92.5	8.5	7.0	5.0	6.5
Merged-chr9-7605798-3	chr9	7605699	7605899	+	769.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22432.0	NM_013903	30800.0	Mm.390121	NM_013903	ENSMUSG00000018620	Mmp20	-	matrix metallopeptidase 20 (enamelysin)	protein-coding	5.0	8.0	9.0	182.5	6.0	5.5	6.0	6.5
Merged-chr6-5362212-4	chr6	5362111	5362311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21175.0	NM_023048	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	115.5	121.0	153.0	2664.0	222.0	83.5	113.0	88.5
Merged-chr6-33962746-3	chr6	33962620	33962820	+	870.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009148, intron 17 of 17)	intron (NM_009148, intron 17 of 17)	-66728.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	1.0	11.0	4.5	140.0	12.5	6.5	5.5	8.0
Merged-chr12-83885227-4	chr12	83885131	83885331	+	942.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073564, intron 1 of 12)	intron (NR_073564, intron 1 of 12)	-8419.0	NM_001272056	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	19.0	26.5	6.0	56.0	25.0	26.5	8.5	17.5
Merged-chr17-32073531-3	chr17	32073417	32073617	+	812.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17906.0	NR_027316	435518.0	Mm.328944	NR_027316	ENSMUSG00000002791	Pdxk-ps	Gm9743	pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene	pseudo	6.0	6.5	2.0	81.5	21.5	8.0	8.0	13.5
Merged-chr18-75901600-4	chr18	75901502	75901702	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	intron (NM_145356, intron 2 of 4)	81424.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	14.5	34.5	25.0	386.0	120.5	54.0	64.5	51.0
Merged-chr1-180826901-6	chr1	180826815	180827015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-13310.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	13.5	34.0	25.0	278.0	51.0	32.0	42.5	46.0
Merged-chr13-23598157-3	chr13	23598043	23598243	+	893.466675	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177653, intron 1 of 1)	intron (NM_001177653, intron 1 of 1)	-12173.0	NM_001290530	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	13.5	19.5	8.5	132.5	20.5	9.0	5.5	8.5
Merged-chr10-81406062-2	chr10	81405962	81406162	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 7 of 8)	intron (NM_026756, intron 7 of 8)	-3513.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	10.5	20.0	8.5	90.0	22.5	6.5	8.0	12.5
Merged-chr16-57571325-4	chr16	57571215	57571415	+	897.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177871, exon 2 of 2)	exon (NM_001177871, exon 2 of 2)	22073.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	18.0	13.0	21.5	307.0	50.5	19.5	11.0	11.5
Merged-chr5-92092745-2	chr5	92092645	92092845	+	956.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	-9001.0	NM_001080795	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	4.5	8.0	12.0	30.5	15.5	2.0	3.0	4.0
Merged-chr8-41006927-4	chr8	41006804	41007004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 7 of 13)	intron (NM_001005863, intron 7 of 13)	-10564.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	63.5	101.0	36.0	839.0	74.5	33.5	50.0	36.5
Merged-chr19-56548044-4	chr19	56547917	56548117	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025811)	promoter-TSS (NM_025811)	105.0	NM_001360437	55947.0	Mm.2805	NM_018831	ENSMUSG00000025077	Dclre1a	2810043H12Rik|AU022226|Pso2|Smn1a|Snm1|mKIAA0086	DNA cross-link repair 1A	protein-coding	12.0	14.0	11.0	79.0	45.5	11.5	17.0	9.5
Merged-chr16-90380028-2	chr16	90379928	90380128	+	936.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-6369.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	9.5	5.5	5.5	30.0	14.0	3.5	4.5	4.5
Merged-chr4-55638577-4	chr4	55638472	55638672	+	785.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106097.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	4.5	17.0	6.5	211.0	14.0	4.0	8.0	9.5
Merged-chr11-115660565-2	chr11	115660465	115660665	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	-32270.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	6.5	4.5	7.0	107.5	11.5	6.5	5.0	7.0
Merged-chr19-34520851-4	chr19	34520776	34520976	+	808.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	6598.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	0.0	10.5	7.5	50.5	25.5	8.5	8.5	12.5
Merged-chr16-18090298-4	chr16	18090173	18090373	+	799.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1083.0	NM_011172	19125.0	Mm.28456	NM_011172	ENSMUSG00000003526	Prodh	Pro-1|Pro1|Ym24d07	proline dehydrogenase	protein-coding	15.5	12.0	7.5	176.0	20.0	8.5	11.0	10.0
Merged-chr1-123606270-3	chr1	123606172	123606372	+	885.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199021, intron 5 of 25)	intron (NM_199021, intron 5 of 25)	439287.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	15.5	16.0	29.0	687.0	0.0	2.0	5.0	0.5
Merged-chr8-46000001-4	chr8	45999905	46000105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039562)	promoter-TSS (NM_001039562)	-155.0	NM_001039562	654824.0	Mm.334517	NM_001039562	ENSMUSG00000050914	Ankrd37	-	ankyrin repeat domain 37	protein-coding	227.5	328.5	241.5	4137.0	526.0	182.5	293.5	190.5
Merged-chr2-59346688-4	chr2	59346571	59346771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 17 of 20)	intron (NM_175464, intron 17 of 20)	40011.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	104.0	114.5	125.5	2277.5	183.5	54.0	101.5	101.0
Merged-chr15-58567621-3	chr15	58567519	58567719	+	839.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	152151.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	5.5	8.0	3.5	131.0	25.0	9.0	7.5	8.0
Merged-chr3-51156814-4	chr3	51156731	51156931	+	899.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67616.0	NM_009834	12457.0	Mm.86541	NM_009834	ENSMUSG00000023087	Noct	AU043840|Ccr4|Ccrn4l	nocturnin	protein-coding	19.0	14.0	9.5	161.0	42.0	17.5	10.5	31.0
Merged-chr17-5527467-3	chr17	5527388	5527588	+	756.416687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	RLTR10D2|LTR|ERVK	34888.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	10.5	6.0	7.5	22.5	21.0	11.5	8.5	15.0
Merged-chr15-58746754-2	chr15	58746654	58746854	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76673.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	14.5	6.5	11.5	172.0	28.0	6.0	12.5	14.0
Merged-chr2-167698118-4	chr2	167698002	167698202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110334)	TTS (NR_110334)	6925.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	148.0	210.0	145.0	2539.0	320.5	138.0	145.0	186.0
Merged-chr4-150210547-1	chr4	150210447	150210647	+	749.0	f0_balb.idr	Intergenic	Intergenic	-9412.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	9.5	14.0	14.0	125.5	4.0	0.0	0.0	8.5
Merged-chr18-60712309-4	chr18	60712207	60712407	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348100, intron 2 of 14)	intron (NM_001348100, intron 2 of 14)	15259.0	NM_001348103	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	20.5	37.5	37.5	625.0	39.0	8.5	22.0	28.5
Merged-chr5-72803043-1	chr5	72802943	72803143	+	865.75	f0_balb.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	-50266.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	18.0	14.5	15.5	199.0	16.0	5.5	2.5	3.0
Merged-chr17-29490527-4	chr17	29490433	29490633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008842)	promoter-TSS (NM_008842)	-512.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	300.5	527.5	289.0	3202.0	834.0	349.0	388.5	279.5
Merged-chr14-17746683-3	chr14	17746561	17746761	+	745.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 1 of 9)	L1MB8|LINE|L1	85701.0	NM_001113417	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	6.5	12.5	8.5	134.0	18.5	8.0	2.5	5.5
Merged-chr18-67873680-3	chr18	67873576	67873776	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027556, intron 41 of 45)	ORR1E|LTR|ERVL-MaLR	-59497.0	NM_172631	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	0.0	3.5	0.0	0.0	76.0	17.5	33.0	30.0
Merged-chr13-74807186-3	chr13	74807079	74807279	+	929.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301153, intron 1 of 31)	intron (NM_001301153, intron 1 of 31)	781.0	NM_009817	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	6.0	14.5	18.5	395.5	4.0	2.5	9.0	19.5
Merged-chr5-142920933-4	chr5	142920844	142921044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14190.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	130.5	190.0	121.5	1660.5	357.5	138.0	184.0	162.0
Merged-chr10-3972417-3	chr10	3972305	3972505	+	651.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172308)	promoter-TSS (NM_172308)	-670.0	NM_001170786	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	5.5	9.5	9.0	121.0	13.0	1.0	10.0	5.0
Merged-chr6-5103973-4	chr6	5103889	5104089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 7 of 15)	intron (NM_181595, intron 7 of 15)	89957.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	62.0	59.0	56.5	1214.5	138.5	31.5	72.5	57.5
Merged-chr2-52942935-3	chr2	52942858	52943058	+	829.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	85090.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	4.0	6.0	7.0	74.0	16.0	7.0	8.5	5.0
Merged-chr5-137294532-4	chr5	137294424	137294624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027356)	promoter-TSS (NM_027356)	-145.0	NM_027356	70240.0	Mm.124666	NM_027356	ENSMUSG00000051502	Ufsp1	2700038N03Rik|D5Ertd655e	UFM1-specific peptidase 1	protein-coding	118.5	196.0	59.0	1423.5	235.5	99.5	136.0	107.5
Merged-chr2-131079092-4	chr2	131079001	131079201	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011426, intron 8 of 20)	intron (NM_011426, intron 8 of 20)	7664.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	4.0	26.0	20.5	243.5	30.0	4.5	13.5	12.0
Merged-chr17-14960979-5	chr17	14960885	14961085	+	778.780029	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024250, intron 1 of 11)	CpG	275.0	NM_001360983	72057.0	Mm.440085	NM_024250	ENSMUSG00000023883	Phf10	1810055P05Rik|AV024533	PHD finger protein 10	protein-coding	3.5	6.5	18.0	27.0	21.0	10.0	6.0	8.5
Merged-chr12-99883511-4	chr12	99883418	99883618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028354)	promoter-TSS (NM_028354)	-76.0	NM_030172	78767.0	Mm.235920	NM_030172	ENSMUSG00000021176	Efcab11	2610021K21Rik|2610110A13Rik	EF-hand calcium binding domain 11	protein-coding	110.0	135.5	62.5	1372.5	267.0	84.0	132.0	65.0
Merged-chr7-135716588-4	chr7	135716488	135716688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081117)	promoter-TSS (NM_001081117)	-209.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	193.0	235.0	164.0	2600.0	451.0	188.0	218.5	165.0
Merged-chr17-70852927-5	chr17	70852790	70852990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164074, intron 1 of 2)	CpG	642.0	NM_001164074	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	139.0	344.5	165.0	1486.5	504.0	237.5	187.0	117.0
Merged-chr6-29828992-4	chr6	29828915	29829115	+	759.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171000, intron 1 of 16)	intron (NM_001171000, intron 1 of 16)	-24726.0	NM_001347084	74340.0	Mm.210899	NM_021414	ENSMUSG00000029772	Ahcyl2	4631427C17Rik|AI227036|Adohcyase3|mKIAA0828	S-adenosylhomocysteine hydrolase-like 2	protein-coding	8.0	17.0	5.5	129.5	24.5	10.0	8.5	11.5
Merged-chr8-22962856-2	chr8	22962756	22962956	+	791.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC5|LINE|L1	-11980.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	0.5	8.5	1.0	53.0	20.5	6.5	5.0	7.5
Merged-chr1-152913848-4	chr1	152913761	152913961	+	883.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11215.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	12.5	8.0	11.5	208.5	49.5	5.0	7.0	18.5
Merged-chr7-99124092-4	chr7	99124001	99124201	+	915.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 1 of 14)	RLTR11A|LTR|ERVK	17043.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	6.0	12.0	6.0	103.5	33.5	7.0	15.0	6.0
Merged-chr10-81198416-3	chr10	81198306	81198506	+	827.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027120, exon 7 of 7)	3' UTR (NM_027120, exon 7 of 7)	3631.0	NM_027120	69564.0	Mm.437211	NM_027120	ENSMUSG00000004939	Nmrk2	2310015C21Rik|Itgb1bp3|Mibp	nicotinamide riboside kinase 2	protein-coding	5.5	4.0	1.0	98.5	18.5	11.0	7.5	7.5
Merged-chr10-125265217-3	chr10	125265133	125265333	+	830.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	B3|SINE|B2	43583.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	7.5	7.5	13.5	126.0	12.0	4.0	17.0	7.0
Merged-chr7-105640413-4	chr7	105640319	105640519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029802)	promoter-TSS (NM_029802)	-3.0	NM_029802	76932.0	Mm.41637	NM_029802	ENSMUSG00000030881	Arfip2	2310002N04Rik|POR|Por1	ADP-ribosylation factor interacting protein 2	protein-coding	223.5	309.5	208.0	3565.5	549.0	207.5	240.0	204.0
Merged-chr1-106232628-3	chr1	106232526	106232726	+	949.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	60757.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	10.5	11.0	43.0	430.0	13.5	4.5	14.0	9.0
Merged-chr18-78830170-2	chr18	78830082	78830282	+	711.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_053099, intron 4 of 5)	Tigger7|DNA|TcMar-Tigger	-233232.0	NM_207651	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	8.5	10.5	8.5	145.5	8.0	0.5	1.5	2.0
Merged-chr11-120951025-4	chr11	120950935	120951135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038654, intron 1 of 4)	CpG	1968.0	NM_001038654	80879.0	Mm.28632	NM_030696	ENSMUSG00000025161	Slc16a3	Mct3|Mct4	solute carrier family 16 (monocarboxylic acid transporters), member 3	protein-coding	28.5	34.5	16.0	374.5	99.5	23.0	40.0	34.0
Merged-chr10-125735946-4	chr10	125735842	125736042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-230277.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	45.5	32.0	34.0	748.0	59.5	25.5	55.5	37.5
Merged-chr11-8575536-4	chr11	8575460	8575660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 4 of 30)	intron (NM_001083587, intron 4 of 30)	88975.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	58.5	99.5	72.0	1278.0	162.5	73.5	40.0	71.5
Merged-chr2-6721686-4	chr2	6721587	6721787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310447)	promoter-TSS (NM_001310447)	-25.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	35.5	59.5	47.0	614.5	120.0	37.0	49.5	59.0
Merged-chr8-83609261-3	chr8	83609146	83609346	+	840.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308227, intron 1 of 2)	intron (NM_001308227, intron 1 of 2)	698.0	NM_001308227	81489.0	Mm.282092	NM_018808	ENSMUSG00000005483	Dnajb1	0610007I11Rik|DjB1|HSPF1|Hdj1|Hsp40	DnaJ heat shock protein family (Hsp40) member B1	protein-coding	11.0	6.0	7.0	70.0	13.5	7.5	3.0	7.0
Merged-chr2-131235115-4	chr2	131235018	131235218	+	972.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144888, intron 1 of 6)	intron (NM_144888, intron 1 of 6)	1055.0	NM_144888	228607.0	Mm.287226	NM_144888	ENSMUSG00000037523	Mavs	D430028G21Rik|IPS-1|Visa|cardif	mitochondrial antiviral signaling protein	protein-coding	30.5	32.0	20.5	632.5	46.0	12.0	26.5	17.5
Merged-chr4-109267566-2	chr4	109267466	109267666	+	766.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD-int|LTR|ERVL-MaLR	-12709.0	NM_007943	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	10.0	15.5	7.5	70.5	12.5	9.5	3.0	1.0
Merged-chr10-125272203-4	chr10	125272121	125272321	+	882.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358496, intron 3 of 5)	intron (NM_001358496, intron 3 of 5)	36595.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	14.5	17.5	20.0	257.5	38.5	13.0	6.5	8.0
Merged-chr11-29864480-4	chr11	29864362	29864562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 7 of 41)	Lx7|LINE|L1	-38794.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	45.5	42.5	34.0	698.5	96.5	23.5	38.5	32.5
Merged-chr1-180256335-4	chr1	180256237	180256437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128605)	promoter-TSS (NM_001128605)	-37.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	140.5	169.0	98.0	1879.5	339.5	100.5	186.5	139.5
Merged-chr6-31427462-4	chr6	31427362	31427562	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 3 of 17)	intron (NM_013791, intron 3 of 17)	28634.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	10.5	29.5	30.0	247.0	19.5	6.5	24.5	21.0
Merged-chr2-75590347-4	chr2	75590241	75590441	+	964.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68918.0	NM_146130	229279.0	Mm.316306	NM_053263	ENSMUSG00000059005	Hnrnpa3	2410013L13Rik|2610209F03Rik|2610510D13Rik|Hnrpa3	heterogeneous nuclear ribonucleoprotein A3	protein-coding	17.0	36.5	19.0	253.5	44.5	16.5	22.5	16.0
Merged-chr19-43880402-1	chr19	43880302	43880502	+	541.0	f0_balb.idr	promoter-TSS (NM_001306088)	promoter-TSS (NM_001306088)	-634.0	NM_001306088	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	11.5	9.0	5.0	60.5	11.0	3.0	7.0	3.5
Merged-chr1-170160742-3	chr1	170160650	170160850	+	842.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133806, intron 3 of 10)	intron (NM_133806, intron 3 of 10)	14214.0	NM_133806	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	6.5	7.0	9.0	88.5	16.0	4.0	4.0	4.0
Merged-chr7-4494309-4	chr7	4494193	4494393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029834, intron 3 of 21)	intron (NM_029834, intron 3 of 21)	7387.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	33.0	44.0	43.5	472.0	61.5	19.0	25.0	31.5
Merged-chr7-131560344-4	chr7	131560241	131560441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009774)	promoter-TSS (NM_009774)	-29.0	NM_009774	12237.0	Mm.927	NM_009774	ENSMUSG00000066979	Bub3	AU019800|AU021329|AU043350|AW146323|C78067	BUB3 mitotic checkpoint protein	protein-coding	96.5	153.5	100.0	1449.0	290.0	110.5	151.5	119.5
Merged-chr16-94504401-4	chr16	94504327	94504527	+	798.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007834, intron 4 of 7)	intron (NM_007834, intron 4 of 7)	22202.0	NM_007834	13185.0	Mm.7472	NM_007834	ENSMUSG00000022898	Dscr3	AW538125|Dcra	DSCR3 arrestin fold containing	protein-coding	14.0	12.5	12.5	338.0	21.5	16.0	3.0	11.5
Merged-chr15-97825194-4	chr15	97825091	97825291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	6576.0	NM_019572	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	121.0	121.0	85.5	1162.5	264.5	88.0	89.5	55.0
Merged-chr4-141637737-3	chr4	141637673	141637873	+	964.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033150, intron 6 of 19)	intron (NM_001033150, intron 6 of 19)	-13939.0	NM_001013780	384071.0	Mm.295682	NM_001013780	ENSMUSG00000040740	Slc25a34	Gm1369	solute carrier family 25, member 34	protein-coding	17.0	7.5	18.5	385.0	13.5	3.5	1.0	5.0
Merged-chr10-60831563-4	chr10	60831461	60831661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359273)	promoter-TSS (NM_001359273)	20.0	NM_029770	107449.0	Mm.290433	NM_029770	ENSMUSG00000020099	Unc5b	6330415E02Rik|A630020F16|D10Bwg0792e|Unc5h2	unc-5 netrin receptor B	protein-coding	142.0	256.5	214.5	2584.5	275.0	120.0	140.5	101.0
Merged-chr19-37208312-4	chr19	37208238	37208438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290828)	promoter-TSS (NM_001290828)	793.0	NM_001164336	69104.0	Mm.175989	NM_027314	ENSMUSG00000023307	March5	1810015H18Rik|2310008I22Rik|2700055A20Rik|5730499H23Rik|E130202O05Rik|MARCH-V|MITOL|Marchv|Rnf153	membrane-associated ring finger (C3HC4) 5	protein-coding	30.0	70.0	19.5	348.5	157.0	43.5	40.0	41.5
Merged-chr10-5806030-4	chr10	5805905	5806105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025995)	promoter-TSS (NM_025995)	-540.0	NM_025995	67141.0	Mm.197520	NM_025995	ENSMUSG00000019773	Fbxo5	2510044I10Rik|C85305|Emi1|Fbxo31	F-box protein 5	protein-coding	307.5	425.5	304.0	4001.0	777.5	273.5	306.0	263.0
Merged-chr11-53783436-4	chr11	53783330	53783530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12957.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	76.5	100.0	67.5	920.5	131.5	56.5	49.0	80.0
Merged-chr7-143706879-4	chr7	143706772	143706972	+	996.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199227, intron 7 of 21)	intron (NM_001199227, intron 7 of 21)	-20997.0	NR_131763	79201.0	Mm.290780	NM_024290	ENSMUSG00000037613	Tnfrsf23	SOB|TNFRSFH23|Tnfrh1|Tnfrsf1al1|mDcTRAILR1|mSOB	tumor necrosis factor receptor superfamily, member 23	protein-coding	36.5	46.5	20.0	400.5	91.0	16.5	42.0	39.5
Merged-chr19-41364709-4	chr19	41364599	41364799	+	866.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	20371.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	20.0	19.0	22.0	244.5	35.5	16.0	15.0	11.5
Merged-chr7-43544621-7	chr7	43544529	43544729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4B|LINE|L1	-11458.0	NM_021293	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	42.5	38.5	50.5	275.5	51.0	35.0	29.0	44.0
Merged-chr10-128374646-3	chr10	128374574	128374774	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2450.0	NM_172790	237615.0	Mm.440177	NM_172790	ENSMUSG00000014498	Ankrd52	6430544C07|G431002C21Rik	ankyrin repeat domain 52	protein-coding	8.5	2.0	5.5	42.0	33.0	17.5	13.5	9.5
Merged-chr3-145192209-2	chr3	145192109	145192309	+	717.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-B4-int|LTR|ERVL	73609.0	NM_025714	52184.0	Mm.259105	NM_025714	ENSMUSG00000028256	Odf2l	4733401D09Rik|9630045K08Rik|D3Ertd250e	outer dense fiber of sperm tails 2-like	protein-coding	5.5	5.0	5.0	52.5	14.0	3.5	8.0	5.0
Merged-chr18-40439862-4	chr18	40439756	40439956	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026135, intron 1 of 1)	intron (NM_026135, intron 1 of 1)	181495.0	NM_026135	383348.0	Mm.76366	NM_026135	ENSMUSG00000051401	Kctd16	4930434H12Rik|Gm1267	potassium channel tetramerisation domain containing 16	protein-coding	3.0	6.0	9.5	214.5	104.0	39.0	53.0	45.0
Merged-chr11-48856971-4	chr11	48856859	48857059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14461.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	21.0	57.5	21.0	333.5	60.0	39.5	23.5	42.5
Merged-chr6-146410027-4	chr6	146409922	146410122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019923, intron 9 of 56)	B3|SINE|B2	92201.0	NM_010586	16439.0	Mm.7800	NM_010586	ENSMUSG00000030287	Itpr2	AI649341|InsP3R-2|InsP3R-5|Ip3r2|Itpr5|insP3R2	inositol 1,4,5-triphosphate receptor 2	protein-coding	45.5	40.5	34.5	499.0	104.5	52.5	56.0	42.0
Merged-chr5-100526340-4	chr5	100526257	100526457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359204, intron 2 of 10)	intron (NM_001359204, intron 2 of 10)	8048.0	NM_001359204	26891.0	Mm.957	NM_012001	ENSMUSG00000035297	Cops4	AW208976|D5Ertd774e|SGN4	COP9 signalosome subunit 4	protein-coding	64.0	131.0	78.0	1006.0	138.5	67.0	80.5	57.0
Merged-chr11-97702606-4	chr11	97702498	97702698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011971)	promoter-TSS (NM_011971)	-836.0	NM_011971	26446.0	Mm.21874	NM_011971	ENSMUSG00000069744	Psmb3	AL033320|C10-II	proteasome (prosome, macropain) subunit, beta type 3	protein-coding	41.0	52.0	22.0	365.0	95.0	36.5	46.0	55.0
Merged-chr10-93889795-4	chr10	93889652	93889852	+	990.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019648, exon 2 of 12)	5' UTR (NM_019648, exon 2 of 12)	1450.0	NM_019648	56307.0	Mm.289329	NM_019648	ENSMUSG00000036112	Metap2	4930584B20Rik|A930035J23Rik|AI047573|AL024412|AU014659|Amp2|Mnpep|p67|p67eIF2	methionine aminopeptidase 2	protein-coding	19.5	18.0	18.5	328.0	42.5	9.5	24.5	11.5
Merged-chr19-4332901-4	chr19	4332798	4332998	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001984, intron 12 of 20)	intron (NM_001001984, intron 12 of 20)	-26676.0	NM_001290818	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	37.5	52.5	20.0	238.0	79.0	28.0	30.5	15.5
Merged-chr5-72235181-3	chr5	72235069	72235269	+	924.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 3 of 22)	intron (NR_003966, intron 3 of 22)	31826.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	8.0	13.0	11.0	208.0	19.0	0.0	4.0	5.5
Merged-chr17-40763845-4	chr17	40763744	40763944	+	858.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009420)	TTS (NM_009420)	30302.0	NM_001204071	22024.0	Mm.1296	NM_009420	ENSMUSG00000023930	Crisp2	CRISP-2|GAPDL5|Tpx-1|Tpx1	cysteine-rich secretory protein 2	protein-coding	11.5	9.5	5.0	114.0	44.5	10.5	20.5	12.5
Merged-chr5-146758119-4	chr5	146758021	146758221	+	932.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 3 of 8)	intron (NM_011669, intron 3 of 8)	36835.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	11.5	14.0	13.0	336.5	29.5	6.0	26.0	24.5
Merged-chr5-130171708-4	chr5	130171609	130171809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199059)	promoter-TSS (NM_001199059)	-110.0	NM_001199059	56715.0	Mm.288639	NM_019983	ENSMUSG00000025340	Rabgef1	Rab5ef|Rabex5|Rin2	RAB guanine nucleotide exchange factor (GEF) 1	protein-coding	382.5	545.0	308.0	4104.5	693.0	309.5	374.5	286.0
Merged-chr13-32802639-4	chr13	32802494	32802694	+	978.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030215, exon 1 of 7)	exon (NM_030215, exon 1 of 7)	564.0	NM_030215	78903.0	Mm.286680	NM_030215	ENSMUSG00000021400	Wrnip1	4833444L21Rik|WHIP|Wrnip	Werner helicase interacting protein 1	protein-coding	21.5	32.5	19.0	242.0	45.5	20.0	12.0	21.0
Merged-chr9-90059522-3	chr9	90059424	90059624	+	748.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312649, intron 1 of 10)	RMER15|LTR|ERVL	5257.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	9.0	10.0	5.5	100.0	15.0	4.5	8.5	8.0
Merged-chr15-102355548-2	chr15	102355448	102355648	+	943.25	f1_balb.idr|f1_c57bl6.idr	TTS (NR_155425)	TTS (NR_155425)	4721.0	NR_155425	102640093.0	Mm.385825	NR_155425	ENSMUSG00000116402	Gm36246	-	predicted gene, 36246	ncRNA	1.0	3.5	4.0	33.5	10.0	5.0	5.0	5.0
Merged-chr7-45023898-1	chr7	45023798	45023998	+	714.666687	f0_c57.idr	Intergenic	B2_Mm1t|SINE|B2	4301.0	NM_001360133	20130.0	Mm.389894	NM_009101	ENSMUSG00000038387	Rras	AI573426	related RAS viral (r-ras) oncogene	protein-coding	0.0	0.5	0.0	0.5	31.5	11.5	11.0	7.0
Merged-chr8-46933861-4	chr8	46933759	46933959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53028.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	35.5	34.5	20.5	403.5	38.5	23.5	25.0	30.0
Merged-chr14-78668516-4	chr14	78668413	78668613	+	900.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081336, intron 2 of 29)	intron (NM_001081336, intron 2 of 29)	-24062.0	NR_104044	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	10.0	9.0	18.5	222.5	24.0	3.5	11.5	9.0
Merged-chr9-60813670-1	chr9	60813570	60813770	+	671.5	f0_balb.idr	intron (NM_001357408, intron 1 of 19)	intron (NM_001357408, intron 1 of 19)	19228.0	NM_001357407	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	10.0	5.0	7.5	74.5	7.0	3.0	2.5	5.5
Merged-chr12-87266739-4	chr12	87266633	87266833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142580)	promoter-TSS (NM_001142580)	5.0	NM_146036	217737.0	Mm.22626	NM_146036	ENSMUSG00000021037	Ahsa1	BC023857|p38	AHA1, activator of heat shock protein ATPase 1	protein-coding	32.5	50.0	37.0	530.5	97.5	34.5	54.0	61.5
Merged-chr13-100403113-4	chr13	100403011	100403211	+	934.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49753.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	18.0	26.0	36.0	191.0	86.5	43.0	30.0	50.0
Merged-chr11-115190561-4	chr11	115190450	115190650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 2 of 9)	RMER17C2|LTR|ERVK	3063.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	43.5	42.5	47.0	452.0	283.0	97.5	128.5	89.0
Merged-chr1-180261129-4	chr1	180261059	180261259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-4859.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	148.0	256.5	135.0	2493.0	378.5	143.0	195.5	161.5
Merged-chr5-124482776-4	chr5	124482627	124482827	+	773.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029532)	promoter-TSS (NM_029532)	-428.0	NM_029532	76167.0	Mm.156035	NM_029532	ENSMUSG00000029402	Snrnp35	6330548G22Rik	small nuclear ribonucleoprotein 35 (U11/U12)	protein-coding	7.0	13.5	2.0	92.5	12.0	5.0	6.5	9.5
Merged-chr16-91739235-4	chr16	91739120	91739320	+	851.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 1 of 15)	B4A|SINE|B4	9849.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	17.5	21.0	13.5	246.5	21.5	14.5	10.5	14.0
Merged-chr11-67604614-4	chr11	67604523	67604723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109657, intron 2 of 13)	intron (NM_001109657, intron 2 of 13)	8068.0	NM_001277079	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	25.0	38.5	47.5	704.0	98.0	22.5	40.0	34.5
Merged-chr9-61389604-4	chr9	61389499	61389699	+	769.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083928, intron 4 of 19)	intron (NM_001083928, intron 4 of 19)	17233.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	14.0	9.5	3.5	161.0	21.0	12.5	6.5	21.5
Merged-chr19-46502251-4	chr19	46502127	46502327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_053100, exon 1 of 6)	5' UTR (NM_053100, exon 1 of 6)	579.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	22.0	31.0	18.0	295.0	52.5	18.0	37.5	51.5
Merged-chr14-118937819-4	chr14	118937719	118937919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008929)	promoter-TSS (NM_008929)	-113.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	369.0	618.5	505.5	6988.5	1111.5	367.0	542.5	453.0
Merged-chr10-99581309-4	chr10	99581197	99581397	+	909.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27874.0	NR_038019	100504202.0	Mm.403801	NR_038019	ENSMUSG00000111962	Gm20110	-	predicted gene, 20110	ncRNA	27.0	28.0	31.0	527.0	25.5	11.5	19.5	11.0
Merged-chr12-21508680-1	chr12	21508580	21508780	+	629.0	f0_balb.idr	Intergenic	MTD|LTR|ERVL-MaLR	-91244.0	NM_011739	22630.0	Mm.289630	NM_011739	ENSMUSG00000076432	Ywhaq	2700028P07Rik|AA409740|AU021156|R74690	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	protein-coding	7.0	14.0	7.5	113.5	0.5	0.0	0.0	0.0
Merged-chr14-40949918-4	chr14	40949830	40950030	+	919.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 1 of 8)	L1MC4|LINE|L1	-1721.0	NM_001316748	52588.0	Mm.28876	NM_145928	ENSMUSG00000037824	Tspan14	AA958793|D14Ertd226e|Tm4sf14|tspan-14	tetraspanin 14	protein-coding	9.5	18.0	5.0	258.5	31.0	10.5	7.5	7.0
Merged-chr6-119449153-4	chr6	119449043	119449243	+	653.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009525, intron 1 of 4)	(CA)n|Simple_repeat|Simple_repeat	243.0	NM_001271757	22419.0	Mm.321818	NM_009525	ENSMUSG00000030170	Wnt5b	AW545702|Wnt-5b	wingless-type MMTV integration site family, member 5B	protein-coding	4.0	9.5	10.0	105.0	20.0	8.0	11.0	10.0
Merged-chr18-38343634-3	chr18	38343538	38343738	+	893.7666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4645.0	NM_011937	26384.0	Mm.22374	NM_011937	ENSMUSG00000052102	Gnpda1	GNPDA|Gnp1|Gnpi|oscillin	glucosamine-6-phosphate deaminase 1	protein-coding	10.0	37.5	26.0	206.5	13.0	2.5	4.0	9.0
Merged-chr3-51270165-4	chr3	51270069	51270269	+	903.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 4 of 9)	intron (NM_023502, intron 4 of 9)	-6592.0	NR_073429	67746.0	Mm.441177	NR_073429	ENSMUSG00000087440	4930577N17Rik	-	RIKEN cDNA 4930577N17 gene	ncRNA	7.0	8.5	12.0	163.0	30.0	9.5	16.5	10.0
Merged-chr19-31082784-4	chr19	31082665	31082865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031249)	promoter-TSS (NM_031249)	-76.0	NM_031249	83410.0	Mm.22031	NM_031249	ENSMUSG00000053536	Cstf2t	64kDa|C77975|tCstF-64|tauCstF-64	cleavage stimulation factor, 3' pre-RNA subunit 2, tau	protein-coding	263.0	462.0	298.5	5168.0	745.5	236.0	359.0	274.5
Merged-chr15-83169876-3	chr15	83169788	83169988	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029787, intron 1 of 8)	intron (NM_029787, intron 1 of 8)	2320.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	8.0	6.5	4.5	93.0	20.0	5.5	7.5	5.5
Merged-chr18-53877634-4	chr18	53877526	53877726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 1 of 12)	intron (NM_152809, intron 1 of 12)	15513.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	57.5	91.0	106.5	1020.5	90.5	38.0	53.0	53.5
Merged-chr5-91302935-2	chr5	91302835	91303035	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19859.0	NR_040428	100503265.0	Mm.125059	NR_040428	ENSMUSG00000107198	Gm19619	-	predicted gene, 19619	ncRNA	9.5	27.5	5.0	55.5	6.0	7.0	3.5	2.0
Merged-chr8-83977021-2	chr8	83976921	83977121	+	713.5	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001277898, exon 1 of 10)	5' UTR (NM_001277898, exon 1 of 10)	138.0	NM_001277898	18747.0	Mm.19111	NM_008854	ENSMUSG00000005469	Prkaca	PKCD|Pkaca	protein kinase, cAMP dependent, catalytic, alpha	protein-coding	5.0	8.0	5.5	20.5	10.5	0.5	0.5	1.5
Merged-chr11-82845903-4	chr11	82845797	82845997	+	976.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164569, intron 1 of 7)	intron (NM_001164569, intron 1 of 7)	-16854.0	NM_026097	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	33.0	54.5	23.5	391.0	97.5	38.0	38.5	20.0
Merged-chr5-148674467-1	chr5	148674367	148674567	+	568.5	f0_c57.idr	Intergenic	Intergenic	-67373.0	NR_028285	70138.0	Mm.417834	NR_028285	ENSMUSG00000086494	2210417A02Rik	AV081004	RIKEN cDNA 2210417A02 gene	ncRNA	1.0	1.0	6.0	8.5	25.5	11.5	11.5	9.5
Merged-chr7-29306804-3	chr7	29306726	29306926	+	855.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013874, intron 1 of 11)	intron (NM_013874, intron 1 of 11)	2821.0	NM_013874	29861.0	Mm.101885	NM_013874	ENSMUSG00000030584	Dpf1	Neud4	D4, zinc and double PHD fingers family 1	protein-coding	5.0	8.0	8.0	125.0	11.0	8.0	3.0	3.5
Merged-chr2-150845871-3	chr2	150845742	150845942	+	847.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 4 of 12)	intron (NR_151505, intron 4 of 12)	-3272.0	NM_001356550	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	6.5	7.5	8.5	58.0	10.0	1.5	2.5	4.5
Merged-chr7-19316538-4	chr7	19316426	19316626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6481.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	206.5	176.5	316.5	4368.5	425.5	138.0	286.0	268.0
Merged-chr1-88285065-4	chr1	88284938	88285138	+	801.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7459.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	8.5	7.5	4.0	115.0	14.5	7.0	10.5	14.0
Merged-chr16-4754295-4	chr16	4754193	4754393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010443, intron 1 of 5)	intron (NM_010443, intron 1 of 5)	-2653.0	NM_001357050	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	34.5	54.0	49.0	655.5	92.5	35.5	39.0	42.5
Merged-chr11-90250487-3	chr11	90250396	90250596	+	919.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026178, intron 1 of 6)	intron (NM_026178, intron 1 of 6)	1020.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	10.5	6.0	4.0	41.0	17.0	5.5	4.5	7.0
Merged-chr11-11820419-4	chr11	11820336	11820536	+	939.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016672, intron 12 of 14)	intron (NM_016672, intron 12 of 14)	-11474.0	NM_001163360	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	16.5	16.5	9.5	254.0	36.5	19.0	16.0	14.0
Merged-chr11-54802428-4	chr11	54802315	54802515	+	984.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14712.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	29.5	30.0	10.0	291.0	42.5	25.5	26.0	15.5
Merged-chr10-94505536-4	chr10	94505468	94505668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 2 of 4)	intron (NM_001359762, intron 2 of 4)	-9289.0	NM_172051	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	32.5	51.5	73.0	790.5	72.0	35.5	37.5	47.5
Merged-chr2-34609689-4	chr2	34609601	34609801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290625, intron 10 of 11)	intron (NM_001290625, intron 10 of 11)	145531.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	54.5	102.0	47.5	650.5	165.5	47.0	58.0	65.5
Merged-chr13-8885765-4	chr13	8885628	8885828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145360, exon 1 of 5)	5' UTR (NM_145360, exon 1 of 5)	122.0	NM_145360	319554.0	Mm.29847	NM_145360	ENSMUSG00000058258	Idi1	4832416K17Rik|IPPI1	isopentenyl-diphosphate delta isomerase	protein-coding	126.0	228.0	247.5	2179.5	300.5	126.5	142.5	169.5
Merged-chr12-52284426-4	chr12	52284323	52284523	+	913.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 7 of 10)	intron (NM_029760, intron 7 of 10)	186677.0	NM_029760	76826.0	Mm.244781	NM_029760	ENSMUSG00000035142	Nubpl	2410170E07Rik	nucleotide binding protein-like	protein-coding	3.5	3.5	15.0	226.5	27.0	9.0	12.0	9.0
Merged-chr5-121838829-4	chr5	121838748	121838948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1989.0	NM_008507	16923.0	Mm.65493	NM_008507	ENSMUSG00000042594	Sh2b3	AI429800|Lnk	SH2B adaptor protein 3	protein-coding	59.5	105.5	85.0	1459.0	174.5	72.5	79.5	93.5
Merged-chr7-113289392-4	chr7	113289283	113289483	+	679.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357070, intron 9 of 19)	L3|LINE|CR1	79956.0	NM_133700	68815.0	Mm.238034	NM_133700	ENSMUSG00000038187	Btbd10	1110056N09Rik|Gmrp1	BTB (POZ) domain containing 10	protein-coding	6.0	9.5	4.5	213.0	20.5	2.5	10.5	14.0
Merged-chr4-108302359-4	chr4	108302283	108302483	+	801.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1293.0	NM_001033634	414872.0	Mm.426241	NM_001033634	ENSMUSG00000034636	Zyg11b	1110046I03Rik|2810482G21Rik|D4Mgi23|Gm431|mKIAA1730	zyg-ll family member B, cell cycle regulator	protein-coding	2.0	6.0	10.0	79.5	17.0	11.0	5.5	8.5
Merged-chr8-74999671-1	chr8	74999571	74999771	+	674.0	f0_balb.idr	exon (NM_178017, exon 3 of 11)	exon (NM_178017, exon 3 of 11)	6021.0	NM_178017	70823.0	Mm.261739	NM_178017	ENSMUSG00000034518	Hmgxb4	4733401K04Rik|AI316803|Hmgb2l1	HMG box domain containing 4	protein-coding	5.0	5.0	9.0	117.0	0.5	2.5	0.0	0.5
Merged-chr7-143549185-4	chr7	143549070	143549270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008672)	promoter-TSS (NM_008672)	-50.0	NM_008672	17955.0	Mm.294625	NM_008672	ENSMUSG00000059119	Nap1l4	2810410H14Rik|AI316776|D7Wsu30e|Nap2	nucleosome assembly protein 1-like 4	protein-coding	237.5	382.5	226.5	3673.0	653.5	303.5	318.5	259.0
Merged-chr7-13009943-4	chr7	13009826	13010026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024699)	promoter-TSS (NM_001024699)	-74.0	NM_001360833	232879.0	Mm.279272	NM_001024699	ENSMUSG00000049600	Zbtb45	BB161562|Gm157|Zfp499	zinc finger and BTB domain containing 45	protein-coding	85.5	116.5	86.0	1373.5	256.0	84.5	95.0	86.0
Merged-chr9-57862056-4	chr9	57861945	57862145	+	933.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27811.0	NM_019689	56380.0	Mm.425588	NM_019689	ENSMUSG00000004661	Arid3b	Bdp|Dri2	AT rich interactive domain 3B (BRIGHT-like)	protein-coding	11.5	25.0	9.0	137.0	38.5	24.0	18.0	21.5
Merged-chr1-167000782-6	chr1	167000649	167000849	+	836.027771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175461)	promoter-TSS (NM_175461)	-668.0	NM_175461	226610.0	Mm.389217	NM_175461	ENSMUSG00000060568	Fam78b	C030014K22Rik|C030020L09Rik	family with sequence similarity 78, member B	protein-coding	6.0	9.5	13.5	85.5	19.5	5.5	13.5	15.0
Merged-chr3-88476620-4	chr3	88476501	88476701	+	808.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15419.0	NM_001163489	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	9.5	8.0	3.5	111.0	18.0	13.5	13.0	9.5
Merged-chr10-81134449-4	chr10	81134340	81134540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1831.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	119.5	192.5	123.5	1805.0	397.0	136.0	165.0	120.5
Merged-chr10-108162075-4	chr10	108161977	108162177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027892)	promoter-TSS (NM_027892)	-323.0	NM_027892	17931.0	Mm.422959	NM_027892	ENSMUSG00000019907	Ppp1r12a	1200015F06Rik|5730577I22Rik|AA792106|AV099298|D10Ertd625e|Mypt1	protein phosphatase 1, regulatory (inhibitor) subunit 12A	protein-coding	181.0	249.0	224.0	3233.0	571.5	216.0	303.5	273.5
Merged-chr1-144249153-4	chr1	144249070	144249270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015811)	promoter-TSS (NM_015811)	-66.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	189.0	221.0	175.5	2650.5	347.0	129.0	167.5	169.5
Merged-chr2-59440658-2	chr2	59440558	59440758	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43995.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	4.5	7.5	5.5	38.0	17.5	1.5	8.5	2.5
Merged-chr1-165134015-4	chr1	165133920	165134120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	26753.0	NM_032005	83993.0	Mm.190649	NM_032005	ENSMUSG00000026572	Tbx19	AU019250|D1Ertd754e|Tpit	T-box 19	protein-coding	35.0	56.0	23.5	757.0	129.5	34.0	70.0	49.5
Merged-chr5-92127450-4	chr5	92127341	92127541	+	881.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359197, intron 1 of 10)	intron (NM_001359197, intron 1 of 10)	10284.0	NM_001359197	23881.0	Mm.290530	NM_011816	ENSMUSG00000029405	G3bp2	AA409541|E430034L04Rik|G3BP|mKIAA0660	GTPase activating protein (SH3 domain) binding protein 2	protein-coding	15.5	11.5	20.0	133.0	19.5	7.0	5.0	12.0
Merged-chr17-5841404-11	chr17	5841257	5841457	+	965.113647	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025664)	promoter-TSS (NM_025664)	-23.0	NM_025664	66616.0	Mm.89515	NM_025664	ENSMUSG00000002365	Snx9	2700073N08Rik|SDP1|SH3PX1	sorting nexin 9	protein-coding	34.5	42.5	41.5	553.0	88.0	38.5	29.5	16.0
Merged-chr19-40994243-4	chr19	40994138	40994338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008528, exon 1 of 17)	5' UTR (NM_008528, exon 1 of 17)	297.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	56.5	65.5	46.0	1094.5	162.0	40.5	55.0	72.5
Merged-chr9-40563578-9	chr9	40563427	40563627	+	950.9111330000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-32144.0	NM_001357617	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	10.0	4.0	8.5	42.5	21.0	13.0	11.5	10.5
Merged-chr13-41819666-4	chr13	41819553	41819753	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145875, intron 2 of 6)	intron (NM_001145875, intron 2 of 6)	27835.0	NM_175417	109254.0	Mm.25195	NM_175417	ENSMUSG00000058022	Adtrp	9530008L14Rik	androgen dependent TFPI regulating protein	protein-coding	36.0	14.0	27.0	425.5	40.5	12.5	21.5	23.5
Merged-chr11-114676585-4	chr11	114676573	114676773	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	1205.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	5.0	4.0	11.0	116.0	27.5	7.5	9.5	13.0
Merged-chr4-41361235-4	chr4	41361131	41361331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355508, intron 1 of 6)	intron (NM_001355508, intron 1 of 6)	9268.0	NM_001355508	67123.0	Mm.289795	NM_023305	ENSMUSG00000028437	Ubap1	2700092A01Rik|NAG20|UBAP-1|Ubap	ubiquitin-associated protein 1	protein-coding	64.5	63.0	48.5	794.0	96.0	47.5	41.0	48.5
Merged-chr13-51847420-3	chr13	51847320	51847520	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011817, exon 2 of 4)	exon (NM_011817, exon 2 of 4)	745.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	18.5	26.0	20.5	348.0	66.0	24.5	33.5	26.0
Merged-chr2-164520964-4	chr2	164520854	164521054	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23429.0	NM_133779	78928.0	Mm.28228	NM_133779	ENSMUSG00000017721	Pigt	2510012P17Rik|4930534E15Rik|CGI-06|NDAP|Ndap7	phosphatidylinositol glycan anchor biosynthesis, class T	protein-coding	29.5	43.0	16.5	265.0	21.5	10.0	17.0	32.5
Merged-chr13-37332854-4	chr13	37332764	37332964	+	942.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12481.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	4.5	11.0	7.0	185.0	24.0	4.0	11.0	10.0
Merged-chr5-134456801-4	chr5	134456707	134456907	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001244936)	promoter-TSS (NM_001244936)	-91.0	NM_001081464	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	16.5	38.0	21.5	353.0	58.0	22.0	19.0	20.0
Merged-chr4-53155687-4	chr4	53155580	53155780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 1 of 49)	intron (NM_013454, intron 1 of 49)	4215.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	255.5	367.0	431.5	4822.5	611.5	251.0	324.0	222.5
Merged-chr17-12991844-4	chr17	12991725	12991925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175394, intron 1 of 5)	CpG	434.0	NM_001113533	60532.0	Mm.275521	NM_175394	ENSMUSG00000060475	Wtap	2810408K05Rik|9430038B09Rik	Wilms tumour 1-associating protein	protein-coding	46.0	61.0	47.5	530.0	122.5	59.5	59.0	54.0
Merged-chr11-58168439-4	chr11	58168308	58168508	+	989.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172558, exon 1 of 28)	exon (NM_172558, exon 1 of 28)	131.0	NM_172558	216766.0	Mm.275349	NM_172558	ENSMUSG00000037275	Gemin5	AA407055|AA407208|AI451603|BB194447|C330013N08	gem nuclear organelle associated protein 5	protein-coding	12.5	29.0	22.0	226.0	48.0	20.0	11.5	18.0
Merged-chr15-3270997-4	chr15	3270886	3271086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009155)	promoter-TSS (NM_009155)	9.0	NM_009155	20363.0	Mm.392203	NM_009155	ENSMUSG00000064373	Selenop	AU018766|D15Ucla1|Se-P|Sepp1|selp	selenoprotein P	protein-coding	35.0	49.5	29.0	379.5	104.5	29.0	44.5	25.0
Merged-chr5-109996441-4	chr5	109996353	109996553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145563)	promoter-TSS (NM_145563)	-74.0	NM_145563	69504.0	Mm.441438	NM_145563	ENSMUSG00000066613	Zfp932	2310001H12Rik|Znf431	zinc finger protein 932	protein-coding	22.5	46.5	29.5	342.5	125.5	38.0	75.0	73.0
Merged-chr3-69223129-4	chr3	69223006	69223206	+	989.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027843, exon 1 of 1)	3' UTR (NM_027843, exon 1 of 1)	687.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	19.5	44.5	25.5	388.0	71.5	30.0	23.0	21.0
Merged-chr10-81409561-4	chr10	81409459	81409659	+	966.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152732)	promoter-TSS (NR_152732)	-16.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	12.5	18.0	2.0	222.0	42.5	16.5	9.0	14.5
Merged-chr1-166409840-4	chr1	166409740	166409940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142948)	promoter-TSS (NM_001142948)	-12.0	NM_175170	71592.0	Mm.192094	NM_175170	ENSMUSG00000040596	Pogk	9130401E23Rik|BASS2|mKIAA1513	pogo transposable element with KRAB domain	protein-coding	80.5	118.0	77.5	1070.5	226.0	78.5	111.5	85.5
Merged-chr16-92398076-6	chr16	92398026	92398226	+	924.9722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	1952.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	14.5	21.0	13.5	97.0	18.5	7.0	4.0	4.5
Merged-chr4-101174553-4	chr4	101174457	101174657	+	779.912476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 9 of 24)	intron (NM_146145, intron 9 of 24)	90725.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	15.0	14.0	11.0	233.5	23.0	6.5	18.5	7.5
Merged-chr7-80207422-4	chr7	80207302	80207502	+	989.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	intron (NM_001360135, intron 1 of 13)	8961.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	18.5	35.0	71.0	728.0	60.5	13.0	27.5	19.0
Merged-chr6-98062038-4	chr6	98061931	98062131	+	998.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70248.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	19.5	46.5	44.0	336.0	78.5	14.0	19.5	23.0
Merged-chr1-144242671-4	chr1	144242559	144242759	+	998.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6445.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	32.0	51.5	13.0	262.0	60.5	19.0	18.5	21.5
Merged-chr11-20202915-4	chr11	20202820	20203020	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 1 of 5)	intron (NM_008996, intron 1 of 5)	1508.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	17.0	20.0	8.5	198.0	33.5	12.5	7.5	18.0
Merged-chr6-116007968-3	chr6	116007902	116008102	+	755.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12997.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	12.0	18.0	9.0	88.5	18.0	14.0	6.5	9.0
Merged-chr2-168583245-4	chr2	168583205	168583405	+	900.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291169, intron 1 of 10)	intron (NM_001291169, intron 1 of 10)	7060.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	15.5	15.0	15.0	192.5	24.0	3.0	17.5	9.5
Merged-chr2-163583974-3	chr2	163583884	163584084	+	845.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18330.0	NM_181734	76080.0	Mm.89828	NM_029512	ENSMUSG00000017679	Ttpal	3110080A02Rik|5830472M02Rik	tocopherol (alpha) transfer protein-like	protein-coding	7.5	20.5	7.5	135.5	13.0	4.5	8.5	4.0
Merged-chr1-16618735-4	chr1	16618631	16618831	+	963.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271016, intron 1 of 6)	CpG	607.0	NM_025773	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	10.0	30.5	19.5	182.5	38.5	22.0	12.0	15.0
Merged-chr11-115081093-4	chr11	115081014	115081214	+	911.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-10317.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	7.5	17.0	5.0	242.0	49.5	7.5	9.5	13.0
Merged-chr5-8312519-3	chr5	8312386	8312586	+	897.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007220, intron 3 of 28)	MIRc|SINE|MIR	55674.0	NM_001007221	11496.0	Mm.275895	NM_001007220	ENSMUSG00000040537	Adam22	2900022I03Rik|AI854032|MDC2	a disintegrin and metallopeptidase domain 22	protein-coding	5.5	9.5	7.5	155.0	9.0	1.0	7.0	4.5
Merged-chr4-26441717-4	chr4	26441593	26441793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95041.0	NM_172865	242362.0	Mm.245602	NM_172865	ENSMUSG00000040520	Manea	4932703L02Rik	mannosidase, endo-alpha	protein-coding	43.0	63.5	34.5	945.0	95.5	44.0	41.5	34.0
Merged-chr6-90369520-4	chr6	90369421	90369621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030260)	promoter-TSS (NM_030260)	27.0	NM_030260	80292.0	Mm.100116	NM_030260	ENSMUSG00000034430	Zxdc	A930012H20|B930086F11Rik|BC003332	ZXD family zinc finger C	protein-coding	145.5	186.5	117.0	2370.5	383.5	101.0	163.5	168.0
Merged-chr14-65343745-4	chr14	65343604	65343804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-14972.0	NM_199029	380912.0	Mm.270087	NM_199029	ENSMUSG00000034522	Zfp395	BC053701|Gm910	zinc finger protein 395	protein-coding	213.0	324.5	288.0	3199.5	436.5	193.5	228.5	185.5
Merged-chr12-40680648-4	chr12	40680506	40680706	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 12 of 52)	L1MC4|LINE|L1	234553.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	7.0	6.5	3.0	52.0	28.5	6.0	8.0	6.0
Merged-chr7-45590039-4	chr7	45589943	45590143	+	817.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009737)	TTS (NM_009737)	-14867.0	NR_038165	71661.0	Mm.439894	NR_038165	ENSMUSG00000109644	0610005C13Rik	AI182092	RIKEN cDNA 0610005C13 gene	ncRNA	8.5	5.5	3.5	93.5	39.0	8.5	6.5	10.0
Merged-chr18-61108680-4	chr18	61108582	61108782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037859, intron 2 of 21)	intron (NM_001037859, intron 2 of 21)	3110.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	174.5	268.5	224.0	3279.0	480.5	206.0	234.5	166.0
Merged-chr8-103580384-3	chr8	103580294	103580494	+	906.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-23405.0	NR_045730	71058.0	Mm.67707	NR_045730	ENSMUSG00000110336	4933400L20Rik	-	RIKEN cDNA 4933400L20 gene	ncRNA	7.5	11.0	6.0	109.5	8.5	9.0	7.5	8.0
Merged-chr16-91647047-4	chr16	91646959	91647159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178880)	promoter-TSS (NM_178880)	-87.0	NM_001357351	14450.0	Mm.4505	NM_010256	ENSMUSG00000022962	Gart	Gaps|Prgs	phosphoribosylglycinamide formyltransferase	protein-coding	97.5	163.5	108.0	1507.0	244.5	96.0	128.0	107.5
Merged-chr4-126820103-4	chr4	126819997	126820197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001035525, intron 5 of 23)	intron (NM_001035525, intron 5 of 23)	66327.0	NM_001035526	100317.0	Mm.206206	NM_133886	ENSMUSG00000028830	AU040320	A730047D20Rik|AAVR|Kiaa0319l	expressed sequence AU040320	protein-coding	35.5	35.5	31.0	422.0	67.5	29.5	20.5	19.0
Merged-chr17-35591024-3	chr17	35590964	35591164	+	857.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23579.0	NM_175148	69542.0	Mm.265291	NM_175148	ENSMUSG00000039269	2300002M23Rik	Stg|emprin	RIKEN cDNA 2300002M23 gene	protein-coding	8.0	21.0	7.5	123.0	8.5	4.5	4.5	5.5
Merged-chr8-11556949-3	chr8	11556924	11557124	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011919, exon 1 of 2)	exon (NM_011919, exon 1 of 2)	567.0	NM_011919	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	7.5	14.5	23.5	155.0	25.5	7.0	12.5	6.5
Merged-chr19-61228474-4	chr19	61228380	61228580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009970)	promoter-TSS (NM_009970)	-62.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	104.0	144.0	104.5	1421.0	238.0	84.5	106.0	69.0
Merged-chr11-94548465-4	chr11	94548367	94548567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013381, intron 2 of 8)	intron (NM_001013381, intron 2 of 8)	740.0	NM_001013381	237926.0	Mm.342275	NM_001013381	ENSMUSG00000039096	Rsad1	B430319G23|BC056485	radical S-adenosyl methionine domain containing 1	protein-coding	37.0	52.0	39.5	321.0	63.5	20.5	27.5	26.0
Merged-chr17-46783121-4	chr17	46782990	46783190	+	865.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025433)	promoter-TSS (NM_025433)	-434.0	NM_025433	66229.0	Mm.218533	NM_025433	ENSMUSG00000063888	Rpl7l1	1500016H10Rik	ribosomal protein L7-like 1	protein-coding	10.5	15.5	6.5	130.5	27.5	5.0	2.0	13.0
Merged-chr6-57514515-3	chr6	57514418	57514618	+	874.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175523, intron 5 of 6)	intron (NM_175523, intron 5 of 6)	20908.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	10.0	14.5	10.5	117.5	6.5	1.0	5.0	1.0
Merged-chr1-177248875-3	chr1	177248736	177248936	+	771.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011785)	promoter-TSS (NM_011785)	-69.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	5.0	13.5	10.5	94.0	26.0	5.0	1.0	7.0
Merged-chr17-34325311-3	chr17	34325224	34325424	+	957.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033978)	promoter-TSS (NM_001033978)	-351.0	NM_001033978	381091.0	Mm.139204	NM_001033978	ENSMUSG00000067341	H2-Eb2	A130038H09Rik|H-2Eb2|Ia-5|Ia5|Iebeta2	histocompatibility 2, class II antigen E beta2	protein-coding	2.5	6.0	1.0	1.0	82.5	26.5	33.5	27.0
Merged-chr15-101327447-4	chr15	101327340	101327540	+	978.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34228.0	NR_033803	77717.0	Mm.391998	NR_033803	ENSMUSG00000075408	6030408B16Rik	AI225877	RIKEN cDNA 6030408B16 gene	ncRNA	14.5	21.5	12.0	316.0	51.5	34.5	26.5	27.0
Merged-chr13-41604362-4	chr13	41604241	41604441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1875.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	40.5	84.0	50.5	523.0	93.5	24.5	35.0	32.0
Merged-chr18-3383130-4	chr18	3383016	3383216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029402)	promoter-TSS (NM_029402)	-109.0	NM_029402	71745.0	Mm.291707	NM_029402	ENSMUSG00000024231	Cul2	1300003D18Rik|4932411N15Rik|AI327301|mKIAA4106	cullin 2	protein-coding	63.5	155.5	163.0	1759.5	153.5	77.0	83.5	95.5
Merged-chr9-90260317-1	chr9	90260217	90260417	+	668.0	f0_balb.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	10452.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	6.5	9.5	5.5	146.5	14.5	1.5	6.0	5.5
Merged-chr15-50402768-3	chr15	50402680	50402880	+	758.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	486269.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	3.0	14.5	11.5	72.5	13.5	5.0	11.0	9.0
Merged-chr4-150008581-4	chr4	150008447	150008647	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173371, intron 1 of 4)	intron (NM_173371, intron 1 of 4)	476.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	53.5	87.5	47.5	597.0	129.0	75.0	74.5	58.5
Merged-chr4-62360528-4	chr4	62360456	62360656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175090)	promoter-TSS (NM_175090)	40.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	340.5	570.0	420.0	5312.0	900.0	378.0	445.5	355.5
Merged-chr15-79400356-4	chr15	79400269	79400469	+	941.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172608, intron 1 of 8)	intron (NM_172608, intron 1 of 8)	2550.0	NM_001253817	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	22.0	25.0	8.5	167.0	31.5	11.0	9.5	15.5
Merged-chr12-3983870-2	chr12	3983770	3983970	+	855.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001082483, intron 6 of 22)	intron (NM_001082483, intron 6 of 22)	28925.0	NM_001278583	18976.0	Mm.277996	NM_008895	ENSMUSG00000020660	Pomc	ACTH|BE|Beta-LPH|Clip|Gamma-LPH|Npp|Pomc-1|Pomc1|alpha-MSH|alphaMSH|beta-MSH|gamma-MSH	pro-opiomelanocortin-alpha	protein-coding	4.5	4.5	8.0	63.5	11.5	5.5	11.0	6.5
Merged-chr9-25541564-4	chr9	25541478	25541678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 2 of 7)	RLTR53_Mm|LTR|ERVK	59981.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	49.5	74.5	46.0	818.0	241.5	78.0	86.5	78.0
Merged-chr10-98946283-4	chr10	98946194	98946394	+	976.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	31142.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	25.5	13.0	30.0	436.0	49.0	16.0	30.0	23.5
Merged-chr13-56197678-4	chr13	56197585	56197785	+	984.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18800.0	NM_001168615	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	31.0	38.5	13.0	322.5	108.5	28.0	30.0	33.5
Merged-chr17-35916632-7	chr17	35916564	35916764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163818)	promoter-TSS (NM_001163818)	-224.0	NM_001361454	66973.0	Mm.29484	NM_025878	ENSMUSG00000024436	Mrps18b	2400002C15Rik|MRP-S18-2|S18mt-b	mitochondrial ribosomal protein S18B	protein-coding	88.0	169.5	86.0	1171.5	200.0	120.0	129.0	132.0
Merged-chr5-136246082-4	chr5	136245974	136246174	+	963.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1134.0	NM_018825	23921.0	Mm.425294	NM_018825	ENSMUSG00000005057	Sh2b2	Aps	SH2B adaptor protein 2	protein-coding	11.0	10.0	26.5	252.0	61.0	19.0	23.0	34.0
Merged-chr10-7470250-4	chr10	7470157	7470357	+	914.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029975, intron 1 of 5)	IAPEY4_LTR|LTR|ERVK	3220.0	NM_029975	77777.0	Mm.442442	NM_029975	ENSMUSG00000079685	Ulbp1	A430108B07Rik|MULT1	UL16 binding protein 1	protein-coding	19.0	25.0	14.5	93.5	34.0	15.5	14.0	6.5
Merged-chr18-80260560-4	chr18	80260482	80260682	+	863.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025861, intron 2 of 5)	intron (NM_025861, intron 2 of 5)	4276.0	NM_025861	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	8.5	5.5	14.5	246.5	22.5	9.0	7.5	6.5
Merged-chr18-34865383-4	chr18	34865341	34865541	+	939.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007913)	TTS (NM_007913)	4234.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	14.5	21.5	2.0	58.5	37.5	17.0	8.0	8.0
Merged-chr1-190910059-4	chr1	190909950	190910150	+	923.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178775, intron 1 of 14)	intron (NM_178775, intron 1 of 14)	1720.0	NM_178775	320119.0	Mm.220912	NM_178775	ENSMUSG00000089872	Rps6kc1	AA682037|B130003F20Rik|C80612|Rpk118	ribosomal protein S6 kinase polypeptide 1	protein-coding	13.5	28.5	14.0	161.0	21.5	5.0	6.5	21.5
Merged-chr7-12881112-4	chr7	12881002	12881202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153802)	promoter-TSS (NM_153802)	-76.0	NM_153802	243833.0	Mm.293823	NM_153802	ENSMUSG00000060397	Zfp128	9630016P15Rik|Znf8|mZnf8	zinc finger protein 128	protein-coding	144.0	162.0	101.0	2632.5	290.5	106.0	190.0	102.0
Merged-chr15-78174297-4	chr15	78174194	78174394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025931)	promoter-TSS (NM_025931)	-186.0	NM_025931	67042.0	Mm.30191	NM_025931	ENSMUSG00000016637	Ift27	2600013G09Rik|Rabl4	intraflagellar transport 27	protein-coding	312.0	462.5	354.5	3997.0	686.0	324.5	341.0	295.0
Merged-chr14-78732271-2	chr14	78732188	78732388	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081336, intron 1 of 29)	CpG	441.0	NM_001081336	380921.0	Mm.89591	NM_001081336	ENSMUSG00000034731	Dgkh	5930402B05Rik|D130015C16|DGK	diacylglycerol kinase, eta	protein-coding	5.5	9.5	8.0	91.0	6.0	7.0	13.0	1.5
Merged-chr13-52085252-4	chr13	52085156	52085356	+	818.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11485.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	8.0	11.5	4.0	115.0	19.5	8.0	16.5	15.0
Merged-chr5-147574709-4	chr5	147574621	147574821	+	894.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010228, intron 25 of 29)	intron (NM_010228, intron 25 of 29)	144565.0	NM_028291	72587.0	Mm.320469	NM_028291	ENSMUSG00000029647	Pan3	2700050F09Rik|A430027N15Rik|AU014670	PAN3 poly(A) specific ribonuclease subunit	protein-coding	10.0	7.5	7.0	188.5	39.0	14.0	20.0	14.5
Merged-chr10-128536478-4	chr10	128536369	128536569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10610.0	NM_011843	23943.0	Mm.66056	NM_011843	ENSMUSG00000025366	Esyt1	Fam62a|Mbc2|vp115	extended synaptotagmin-like protein 1	protein-coding	65.0	97.5	25.0	826.5	166.5	64.5	72.5	68.5
Merged-chr19-5944380-4	chr19	5944282	5944482	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 13 of 17)	intron (NM_001164057, intron 13 of 17)	-19566.0	NM_026772	104252.0	Mm.491103	NM_026772	ENSMUSG00000045664	Cdc42ep2	1110008C05Rik|Borg1|Cep2|D19Bwg1013e	CDC42 effector protein (Rho GTPase binding) 2	protein-coding	42.0	102.5	38.5	873.0	158.0	36.5	24.0	20.0
Merged-chr7-67526083-4	chr7	67525992	67526192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028144, intron 8 of 8)	MER21B|LTR|ERVL	119144.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	74.5	127.0	72.5	1001.0	58.0	19.0	24.0	34.5
Merged-chr6-53455677-3	chr6	53455588	53455788	+	807.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-117686.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	5.0	10.0	13.5	143.5	3.5	3.5	11.5	4.0
Merged-chr16-49855477-4	chr16	49855385	49855585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010581)	promoter-TSS (NM_010581)	-169.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	158.5	204.5	281.5	2527.0	392.5	172.5	228.0	139.5
Merged-chr19-4230613-4	chr19	4230517	4230717	+	935.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132308, intron 2 of 3)	intron (NR_132308, intron 2 of 3)	-1276.0	NM_027196	69745.0	Mm.32518	NM_027196	ENSMUSG00000024854	Pold4	2410012M21Rik|AI463381|AW060307|Polds|p12	polymerase (DNA-directed), delta 4	protein-coding	14.0	11.0	20.5	247.5	30.5	16.0	10.5	14.5
Merged-chr6-116181014-3	chr6	116180918	116181118	+	718.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 1 of 5)	RLTR34D_MM|LTR|ERVK	12356.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	5.5	8.5	6.0	185.5	15.5	5.5	6.0	2.0
Merged-chr1-85601023-4	chr1	85600921	85601121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013817, exon 1 of 17)	5' UTR (NM_001013817, exon 1 of 17)	318.0	NM_001013817	434484.0	Mm.445821	NM_001013817	ENSMUSG00000070031	Sp140	-	Sp140 nuclear body protein	protein-coding	63.5	75.0	28.0	352.0	80.0	35.0	38.5	29.0
Merged-chr15-5518121-2	chr15	5518021	5518221	+	866.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045274, intron 1 of 4)	intron (NR_045274, intron 1 of 4)	21803.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	5.0	24.0	0.0	58.0	36.0	7.0	7.0	7.5
Merged-chr6-115994515-3	chr6	115994456	115994656	+	903.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026376, exon 1 of 36)	exon (NM_026376, exon 1 of 36)	449.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	8.0	6.5	6.5	131.5	15.0	6.0	8.5	11.5
Merged-chr2-129330758-4	chr2	129330670	129330870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20798.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	42.0	57.0	20.5	105.5	95.0	17.5	31.0	13.5
Merged-chr13-119754850-3	chr13	119754775	119754975	+	727.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175538, intron 1 of 3)	intron (NM_175538, intron 1 of 3)	1007.0	NM_175538	245269.0	Mm.403943	NM_175538	ENSMUSG00000095930	Nim1k	E130304F04Rik|Nim1	NIM1 serine/threonine protein kinase	protein-coding	8.0	8.0	2.5	122.5	13.0	5.0	5.0	15.0
Merged-chr1-131963834-4	chr1	131963735	131963935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177628, intron 1 of 4)	intron (NM_001177628, intron 1 of 4)	920.0	NM_001177628	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	61.0	43.0	61.5	1273.5	110.0	35.0	57.0	53.0
Merged-chr2-158179158-4	chr2	158179066	158179266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12842.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	31.5	29.0	57.0	871.0	88.5	20.5	39.5	31.5
Merged-chr3-89520085-4	chr3	89519968	89520168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080466)	promoter-TSS (NM_080466)	-96.0	NM_080466	140493.0	Mm.120250	NM_080466	ENSMUSG00000000794	Kcnn3	KCa2.3|SK3|SKCA3	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	protein-coding	35.0	75.5	43.0	698.5	42.5	20.0	26.0	31.0
Merged-chr13-81225209-4	chr13	81225100	81225300	+	959.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	intron (NM_054053, intron 85 of 89)	261126.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	36.5	29.5	41.5	718.0	47.5	10.0	12.0	30.5
Merged-chr18-67542722-4	chr18	67542634	67542834	+	882.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194355, intron 2 of 14)	intron (NM_194355, intron 2 of 14)	6439.0	NM_176832	68166.0	Mm.208723	NM_176832	ENSMUSG00000024533	Spire1	6030430B19Rik|AI415299|AU022898|AW550622|Spir-1	spire type actin nucleation factor 1	protein-coding	10.5	11.5	7.5	247.5	26.5	5.0	9.0	6.5
Merged-chr11-101448405-4	chr11	101448297	101448497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027320)	promoter-TSS (NM_027320)	-15.0	NM_027320	70110.0	Mm.45558	NM_027320	ENSMUSG00000010358	Ifi35	2010008K16Rik|AW986054|IFP35|ifi-35	interferon-induced protein 35	protein-coding	38.5	81.5	24.5	698.0	159.0	47.5	39.0	49.0
Merged-chr4-125146361-4	chr4	125146260	125146460	+	900.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18479.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	12.0	27.0	19.0	91.5	32.5	19.5	7.5	25.5
Merged-chr5-136519251-3	chr5	136519153	136519353	+	716.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291238, intron 1 of 22)	intron (NM_001291238, intron 1 of 22)	46728.0	NM_001291239	13047.0	Mm.320317	NM_009986	ENSMUSG00000029705	Cux1	CDP|Cutl1|Cux|Cux-1	cut-like homeobox 1	protein-coding	2.5	8.0	2.5	170.5	9.0	9.5	4.5	13.0
Merged-chr17-50509680-5	chr17	50509643	50509843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013880, exon 1 of 6)	exon (NM_013880, exon 1 of 6)	196.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	20.0	69.0	27.0	196.5	79.0	36.0	23.5	40.5
Merged-chr13-95375236-4	chr13	95375048	95375248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025630, exon 1 of 14)	5' UTR (NM_025630, exon 1 of 14)	209.0	NM_025630	66549.0	Mm.36785	NM_025630	ENSMUSG00000021681	Aggf1	2010009L17Rik|2310029P06Rik|AW112072|Peg3|VG5Q	angiogenic factor with G patch and FHA domains 1	protein-coding	63.5	42.5	65.0	698.0	93.0	58.5	37.5	45.0
Merged-chr11-62457398-4	chr11	62457314	62457514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177229)	promoter-TSS (NM_177229)	-82.0	NM_177229	20185.0	Mm.271814	NM_011308	ENSMUSG00000018501	Ncor1	5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047	nuclear receptor co-repressor 1	protein-coding	56.0	89.0	60.0	675.0	125.5	45.5	55.0	44.5
Merged-chr13-29431099-3	chr13	29431014	29431214	+	860.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131896, intron 13 of 16)	intron (NR_131896, intron 13 of 16)	414859.0	NR_045075	77920.0	Mm.197051	NR_045073	ENSMUSG00000086363	A330102I10Rik	-	RIKEN cDNA A330102I10 gene	ncRNA	8.0	17.0	10.5	206.5	26.5	3.0	6.5	7.0
Merged-chr2-167753456-2	chr2	167753356	167753556	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62279.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	12.0	13.0	11.0	63.0	10.0	12.0	10.5	6.0
Merged-chr9-102616432-3	chr9	102616336	102616536	+	883.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081122, intron 5 of 16)	intron (NM_001081122, intron 5 of 16)	9688.0	NM_001301689	28135.0	Mm.38910	NM_001081122	ENSMUSG00000032534	Cep63	4921501M07|AL450317.13gm1|AW107703|CD20R|D9Mgc41|D9Mgc48e|ET2	centrosomal protein 63	protein-coding	3.0	7.0	5.0	66.5	21.5	6.0	10.0	17.5
Merged-chr2-132602005-4	chr2	132601906	132602106	+	969.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 1 of 3)	intron (NR_033469, intron 1 of 3)	3810.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	25.5	15.5	13.5	268.0	48.5	12.0	16.0	10.5
Merged-chr11-70594399-4	chr11	70594289	70594489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016713, intron 1 of 30)	intron (NM_016713, intron 1 of 30)	-21505.0	NM_001145537	668433.0	Mm.425687	NM_001145537	ENSMUSG00000087279	4930544D05Rik	-	RIKEN cDNA 4930544D05 gene	protein-coding	42.0	59.5	24.0	353.5	105.5	38.5	37.5	29.0
Merged-chr6-124916060-4	chr6	124915954	124916154	+	864.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152158)	promoter-TSS (NR_152158)	-809.0	NR_152158	442825.0	Mm.446713	NR_152158	ENSMUSG00000055818	A230083G16Rik	-	RIKEN cDNA A230083G16 gene	ncRNA	26.5	14.5	20.5	279.0	36.5	14.5	11.0	11.5
Merged-chr9-116060833-4	chr9	116060761	116060961	+	840.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028638, intron 14 of 14)	intron (NM_028638, intron 14 of 14)	114502.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	16.5	10.5	13.0	109.5	52.0	5.0	14.0	8.5
Merged-chr14-32786335-2	chr14	32786235	32786435	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163616, intron 1 of 4)	intron (NM_001163616, intron 1 of 4)	372.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	9.5	15.5	17.0	139.5	12.0	11.5	10.0	8.5
Merged-chr11-101587881-4	chr11	101587796	101587996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359325, intron 4 of 7)	RMER19B|LTR|ERVK	5597.0	NM_001359325	217203.0	Mm.280559	NM_144830	ENSMUSG00000034947	Tmem106a	0610008L10Rik|AI043106|BC022145	transmembrane protein 106A	protein-coding	78.0	98.0	31.0	810.0	159.5	38.0	68.5	77.0
Merged-chr1-88005144-4	chr1	88005037	88005237	+	804.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033291, intron 2 of 27)	intron (NM_001033291, intron 2 of 27)	3414.0	NM_001198573	227334.0	Mm.80484	NM_001033291	ENSMUSG00000005501	Usp40	B230215L03Rik|C730029K03	ubiquitin specific peptidase 40	protein-coding	5.5	8.5	8.0	160.0	19.0	2.0	3.5	9.0
Merged-chr4-62330072-1	chr4	62329972	62330172	+	782.0	f0_balb.idr	intron (NM_001355385, intron 12 of 27)	intron (NM_001355385, intron 12 of 27)	30524.0	NM_001355385	338355.0	Mm.357792	NM_001045528	ENSMUSG00000066151	Fkbp15	BB131447|C430014M02Rik|FKBO133|FKBP-133|FKBP-15|FKBP133|mKIAA0674	FK506 binding protein 15	protein-coding	9.5	12.0	4.0	138.0	26.0	10.5	5.5	11.0
Merged-chr16-91596541-4	chr16	91596400	91596600	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030018, intron 1 of 6)	intron (NM_030018, intron 1 of 6)	1180.0	NM_030018	77975.0	Mm.290341	NM_030018	ENSMUSG00000022964	Tmem50b	AU015466|AU019872|B230114J08Rik	transmembrane protein 50B	protein-coding	8.5	9.5	6.0	55.5	24.5	6.5	18.5	13.5
Merged-chr9-107624744-4	chr9	107624638	107624838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008138, intron 1 of 8)	intron (NM_008138, intron 1 of 8)	10604.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	42.5	81.0	27.5	339.5	191.0	75.5	54.5	38.5
Merged-chr11-5099312-4	chr11	5099217	5099417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001283063)	promoter-TSS (NM_001283063)	44.0	NM_177370	279766.0	Mm.260866	NM_177370	ENSMUSG00000034175	Rhbdd3	Ptag	rhomboid domain containing 3	protein-coding	64.0	143.0	101.5	1008.0	212.0	119.5	96.5	98.5
Merged-chr2-5145968-4	chr2	5145869	5146069	+	954.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028804, intron 2 of 2)	MTD|LTR|ERVL-MaLR	8193.0	NM_028804	74186.0	Mm.274715	NM_028804	ENSMUSG00000026676	Ccdc3	2310045O21Rik	coiled-coil domain containing 3	protein-coding	7.5	18.5	18.0	284.0	48.5	12.5	21.5	23.0
Merged-chr3-38371900-4	chr3	38371802	38372002	+	980.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112914.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	16.5	18.5	15.5	219.5	23.5	3.5	20.5	20.5
Merged-chr16-17210199-4	chr16	17210098	17210298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033338, exon 1 of 1)	exon (NM_001033338, exon 1 of 1)	2063.0	NM_001033338	239731.0	Mm.86671	NM_001033338	ENSMUSG00000071636	Rimbp3	Gm1759|Gm603|RIM-BP3|mKIAA1666	RIMS binding protein 3	protein-coding	48.0	48.0	35.5	485.5	109.5	26.5	52.5	26.0
Merged-chr11-54762846-4	chr11	54762766	54762966	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 1 of 5)	intron (NM_178626, intron 1 of 5)	24837.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	22.0	42.5	21.0	269.0	32.0	11.5	8.0	16.5
Merged-chr11-117109345-1	chr11	117109245	117109445	+	614.0	f0_balb.idr	Intergenic	Intergenic	-5827.0	NR_029459	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	12.0	13.0	4.5	68.5	11.5	6.0	5.0	2.0
Merged-chr17-71215378-4	chr17	71215256	71215456	+	952.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357791, intron 2 of 19)	intron (NM_001357791, intron 2 of 19)	10702.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	32.5	36.0	20.5	267.0	64.5	11.0	11.5	24.5
Merged-chr6-38900317-4	chr6	38900235	38900435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-18651.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	71.0	103.0	40.0	1123.5	186.0	84.0	87.0	101.5
Merged-chr10-83646542-4	chr10	83646436	83646636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145220, intron 1 of 20)	Lx8|LINE|L1	2128.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	41.5	32.0	56.0	1086.0	82.5	25.5	30.0	48.5
Merged-chr6-129474718-4	chr6	129474636	129474836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1957.0	NR_132130	56644.0	Mm.239516	NM_020008	ENSMUSG00000079293	Clec7a	BGR|Clecsf12|beta-GR	C-type lectin domain family 7, member a	protein-coding	44.5	55.5	53.0	1251.5	74.0	25.5	46.0	22.0
Merged-chr3-84356802-4	chr3	84356702	84356902	+	766.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040752, intron 3 of 3)	RSINE1|SINE|B4	23119.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	4.5	9.0	12.0	177.0	20.0	1.0	17.5	14.0
Merged-chr7-80947747-4	chr7	80947630	80947830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019951)	promoter-TSS (NM_019951)	-180.0	NM_019951	56529.0	Mm.43760	NM_019951	ENSMUSG00000025724	Sec11a	1810012E07Rik|18kDa|Sec11l1|Sid2895p|Spc18|sid2895	SEC11 homolog A, signal peptidase complex subunit	protein-coding	58.0	90.5	80.0	921.5	123.5	57.0	60.0	57.0
Merged-chr2-129800550-4	chr2	129800434	129800634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183262)	promoter-TSS (NM_183262)	17.0	NM_001038635	67333.0	Mm.389329	NM_183262	ENSMUSG00000037885	Stk35	1700054C12Rik|CLIK1|Stk35l1	serine/threonine kinase 35	protein-coding	82.5	208.5	62.5	640.5	220.0	80.5	72.0	59.0
Merged-chr16-93832200-4	chr16	93832101	93832301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045529)	promoter-TSS (NM_001045529)	80.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	213.5	346.5	195.5	2797.5	669.5	258.5	282.0	220.5
Merged-chr8-36866912-3	chr8	36866796	36866996	+	829.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 2 of 17)	L3|LINE|CR1	85546.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	7.5	9.0	11.5	302.5	15.5	4.0	8.0	1.0
Merged-chr12-69364197-4	chr12	69364106	69364306	+	965.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7030.0	NM_025441	66244.0	Mm.46705	NM_025441	ENSMUSG00000020982	Nemf	1500011I12Rik|4933405E14Rik|Sdccag1	nuclear export mediator factor	protein-coding	30.0	46.5	26.5	202.0	84.5	24.0	18.5	14.0
Merged-chr9-48407733-3	chr9	48407653	48407853	+	802.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	45712.0	NM_172921	244853.0	Mm.325522	NM_172921	ENSMUSG00000044229	Nxpe4	C130036J11|D930028F11Rik|Fam55d	neurexophilin and PC-esterase domain family, member 4	protein-coding	1.0	0.0	0.0	0.0	47.0	21.5	20.0	18.0
Merged-chr15-100552037-4	chr15	100551910	100552110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033476)	promoter-TSS (NM_033476)	-2.0	NM_001289603	21422.0	Mm.219040	NM_033476	ENSMUSG00000009733	Tfcp2	CP-2|CP2|D230015P20Rik|LBP-1c|LBP-1d|LBP1|LSF|Tcfcp2|UBP-1	transcription factor CP2	protein-coding	224.0	323.5	189.0	2467.5	544.0	232.5	186.0	201.0
Merged-chr14-67723377-3	chr14	67723290	67723490	+	680.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111028, intron 1 of 11)	ORR1D1|LTR|ERVL-MaLR	7292.0	NM_001285933	105440.0	Mm.6720	NM_134073	ENSMUSG00000034327	Kctd9	-	potassium channel tetramerisation domain containing 9	protein-coding	7.5	22.5	5.5	48.5	25.5	7.0	4.5	11.0
Merged-chr11-115083572-4	chr11	115083484	115083684	+	866.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7847.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	11.5	18.0	6.5	133.5	24.5	11.0	6.5	12.5
Merged-chr16-10434295-4	chr16	10434216	10434416	+	967.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013778, intron 1 of 6)	intron (NM_001013778, intron 1 of 6)	13046.0	NM_001359069	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	14.0	10.0	15.0	202.5	56.5	20.5	18.5	9.5
Merged-chr2-153784199-4	chr2	153784102	153784302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036629, intron 3 of 7)	MLT1E1A|LTR|ERVL-MaLR	3323.0	NR_036629	100504221.0	Mm.246778	NM_177849	ENSMUSG00000044083	Efcab8	A630008I04|EG329541	EF-hand calcium binding domain 8	ncRNA	35.0	58.5	34.0	624.0	98.5	16.0	36.5	34.5
Merged-chr7-138846666-4	chr7	138846608	138846808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027115)	promoter-TSS (NM_027115)	322.0	NM_026391	52432.0	Mm.258739	NM_026391	ENSMUSG00000041769	Ppp2r2d	1300017E19Rik|D7Ertd753e|MDS026	protein phosphatase 2, regulatory subunit B, delta	protein-coding	30.0	24.5	32.5	264.0	47.0	20.5	12.0	25.0
Merged-chr9-121297841-8	chr9	121297719	121297919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_152160, exon 1 of 18)	non-coding (NR_152160, exon 1 of 18)	317.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	29.0	33.0	20.5	261.5	70.5	40.0	34.0	48.5
Merged-chr19-29251699-4	chr19	29251600	29251800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008413)	promoter-TSS (NM_008413)	-103.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	130.0	212.5	89.0	1789.0	278.5	113.5	162.5	69.5
Merged-chr15-98761320-4	chr15	98761224	98761424	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007478, intron 1 of 4)	intron (NM_007478, intron 1 of 4)	1668.0	NM_001355510	11842.0	Mm.221298	NM_007478	ENSMUSG00000051853	Arf3	5430400P17Rik|AI854770	ADP-ribosylation factor 3	protein-coding	35.0	38.0	21.5	359.5	57.0	14.0	17.5	36.5
Merged-chr16-92696828-4	chr16	92696737	92696937	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009821, exon 1 of 5)	5' UTR (NM_009821, exon 1 of 5)	492.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	15.0	15.0	16.0	239.0	47.5	18.5	12.0	31.0
Merged-chr15-27469374-4	chr15	27469264	27469464	+	917.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020332, intron 1 of 11)	intron (NM_020332, intron 1 of 11)	2687.0	NM_020332	11732.0	Mm.265264	NM_020332	ENSMUSG00000022265	Ank	Ankh|D15Ertd221e|ank|mKIAA1581	progressive ankylosis	protein-coding	21.5	28.0	43.5	685.5	33.0	11.0	12.5	20.5
Merged-chr5-100585691-2	chr5	100585591	100585791	+	868.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	-13486.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	8.0	6.0	8.5	24.0	11.0	2.5	6.0	5.0
Merged-chr11-115538221-2	chr11	115538101	115538301	+	781.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1971.0	NM_133354	170930.0	Mm.29923	NM_133354	ENSMUSG00000020738	Sumo2	SUMO-2|Smt3A|Smt3b|Smt3h2	small ubiquitin-like modifier 2	protein-coding	5.0	11.0	8.5	41.5	13.0	1.5	3.0	4.0
Merged-chr1-152602363-2	chr1	152602263	152602463	+	546.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	22854.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	11.0	12.0	7.0	32.5	16.0	7.0	2.5	1.0
Merged-chr11-106819124-3	chr11	106819028	106819228	+	687.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025481)	TTS (NM_025481)	29876.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	9.5	19.0	6.0	67.5	14.5	3.0	2.5	5.5
Merged-chr11-58171657-4	chr11	58171611	58171811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175001)	promoter-TSS (NM_175001)	57.0	NM_175001	216767.0	Mm.259907	NM_175001	ENSMUSG00000020514	Mrpl22	E030011D16Rik|HSPC158|MRP-L25|Rpml25	mitochondrial ribosomal protein L22	protein-coding	38.0	63.5	29.5	395.0	71.0	28.5	22.5	26.5
Merged-chr10-100032776-4	chr10	100032672	100032872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347156, intron 1 of 8)	intron (NM_001347156, intron 1 of 8)	16951.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	90.5	100.0	68.0	1333.0	225.0	77.0	87.0	81.0
Merged-chr10-117417518-4	chr10	117417392	117417592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29943.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	61.5	111.0	58.0	909.0	152.5	77.5	89.0	90.0
Merged-chr13-95799038-3	chr13	95798883	95799083	+	838.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 2 of 35)	intron (NM_027711, intron 2 of 35)	92939.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	6.0	9.5	9.0	105.5	14.0	6.5	3.0	4.5
Merged-chr4-57952528-4	chr4	57952458	57952658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 1 of 4)	intron (NM_011660, intron 1 of 4)	3853.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	86.0	121.5	80.0	1125.5	223.0	81.0	98.5	66.0
Merged-chr7-30592596-4	chr7	30592511	30592711	+	927.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021397, intron 1 of 5)	intron (NM_021397, intron 1 of 5)	331.0	NM_021397	58206.0	Mm.116789	NM_021397	ENSMUSG00000006310	Zbtb32	4930524C15Rik|FAXF|FAZF|PLZP|Rog|Tzfp	zinc finger and BTB domain containing 32	protein-coding	7.5	16.0	18.0	211.0	36.0	11.5	11.0	20.5
Merged-chr5-135870696-4	chr5	135870592	135870792	+	875.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021403, intron 14 of 14)	URR1A|DNA|hAT-Charlie	-17227.0	NM_013560	15507.0	Mm.13849	NM_013560	ENSMUSG00000004951	Hspb1	27kDa|Hsp25	heat shock protein 1	protein-coding	12.0	28.0	6.5	127.0	42.5	12.5	9.5	29.5
Merged-chr9-20492685-4	chr9	20492587	20492787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110309)	promoter-TSS (NM_001110309)	59.0	NM_146221	235028.0	Mm.297660	NM_146221	ENSMUSG00000059475	Zfp426	2900057C04Rik|KRAB1|Zfo61|Zfp68-rs1|Znf426|mKIAA4237	zinc finger protein 426	protein-coding	61.5	84.5	91.0	908.0	141.0	46.5	62.5	65.0
Merged-chr19-7017832-4	chr19	7017696	7017896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362399, intron 2 of 14)	intron (NM_001362399, intron 2 of 14)	1673.0	NM_153795	108101.0	Mm.157591	NM_153795	ENSMUSG00000024965	Fermt3	C79673|Kindlin3	fermitin family member 3	protein-coding	33.0	50.0	26.5	412.0	71.5	25.0	24.0	46.0
Merged-chr8-109780742-4	chr8	109780638	109780838	+	815.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301211, intron 1 of 22)	intron (NM_001301211, intron 1 of 22)	2155.0	NM_001301211	11765.0	Mm.37210	NM_009677	ENSMUSG00000031731	Ap1g1	AA409002|AU041323|AW551707|Adtg|D8Ertd374e	adaptor protein complex AP-1, gamma 1 subunit	protein-coding	12.0	12.0	16.5	202.0	19.5	8.0	8.0	10.0
Merged-chr3-105898635-4	chr3	105898664	105898864	+	986.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	(TCCC)n|Simple_repeat|Simple_repeat	-5657.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	6.0	5.5	8.0	144.5	15.0	3.5	7.0	12.5
Merged-chr5-143731719-4	chr5	143731635	143731835	+	860.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029749, intron 1 of 17)	CpG	545.0	NM_029749	76800.0	Mm.259620	NM_029749	ENSMUSG00000051306	Usp42	2410140K03Rik|3110031A07Rik|A630018G05Rik|D5Ertd591e	ubiquitin specific peptidase 42	protein-coding	7.5	11.5	12.5	94.5	25.5	9.5	12.0	8.5
Merged-chr2-27428248-4	chr2	27428131	27428331	+	918.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009500)	promoter-TSS (NM_009500)	-623.0	NM_009500	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	20.5	24.0	6.5	112.5	33.0	10.0	13.5	22.0
Merged-chr18-53246625-4	chr18	53246512	53246712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	950.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	105.5	161.5	158.5	1508.5	158.5	36.0	64.5	62.0
Merged-chr11-117830617-4	chr11	117830526	117830726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027827, intron 2 of 10)	intron (NM_027827, intron 2 of 10)	-4612.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	70.5	135.5	70.0	941.5	259.0	79.5	89.5	59.0
Merged-chr8-94179855-2	chr8	94179755	94179955	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_013602, exon 2 of 3)	exon (NM_013602, exon 2 of 3)	766.0	NM_013602	17748.0	Mm.192991	NM_013602	ENSMUSG00000031765	Mt1	MT-I|Mt-1	metallothionein 1	protein-coding	18.5	33.0	41.5	267.5	79.0	18.5	13.5	30.0
Merged-chr15-99029065-4	chr15	99028942	99029142	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009448)	promoter-TSS (NM_009448)	-849.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	49.0	84.5	50.0	627.5	165.0	51.0	76.5	77.0
Merged-chr18-53915194-3	chr18	53915115	53915315	+	774.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 4 of 12)	intron (NM_152809, intron 4 of 12)	53102.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	12.0	11.5	5.5	124.5	1.0	0.0	0.0	1.0
Merged-chr7-99828368-4	chr7	99828278	99828478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016720)	promoter-TSS (NM_016720)	39.0	NM_016720	50877.0	Mm.103703	NM_016720	ENSMUSG00000035239	Neu3	-	neuraminidase 3	protein-coding	45.0	72.0	35.0	350.0	99.0	26.0	41.0	24.0
Merged-chr7-45814448-4	chr7	45814363	45814563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001112701)	promoter-TSS (NM_001112701)	-147.0	NM_001112701	19158.0	Mm.272130	NM_011181	ENSMUSG00000003269	Cyth2	ARNO|CLM2|Pscd2	cytohesin 2	protein-coding	303.0	548.5	283.5	4382.5	883.5	360.5	351.0	287.5
Merged-chr9-45608269-3	chr9	45608168	45608368	+	779.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081270, intron 3 of 32)	intron (NM_001081270, intron 3 of 32)	-177036.0	NR_040732	74602.0	Mm.394117	NR_040732	ENSMUSG00000097074	4833428L15Rik	-	RIKEN cDNA 4833428L15 gene	ncRNA	1.0	0.5	1.0	14.0	34.5	4.5	16.5	10.0
Merged-chr12-102733565-4	chr12	102733470	102733670	+	910.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10091.0	NM_001142937	64113.0	Mm.291222	NM_022323	ENSMUSG00000096458	Moap1	AA987038|Map-1|Pnma4	modulator of apoptosis 1	protein-coding	12.0	13.5	2.5	142.5	29.0	9.0	17.0	8.0
Merged-chr10-52418090-4	chr10	52417986	52418186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030250, exon 1 of 5)	exon (NM_030250, exon 1 of 5)	539.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	34.5	42.0	61.5	460.5	106.5	28.5	51.5	64.5
Merged-chr1-173430538-4	chr1	173430450	173430650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 2 of 8)	ORR1F|LTR|ERVL-MaLR	9946.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	96.0	98.5	60.5	1238.5	262.0	91.0	89.5	75.5
Merged-chr9-110706994-4	chr9	110706897	110707097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 2 of 6)	intron (NM_028312, intron 2 of 6)	35613.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	81.0	120.5	75.5	1199.5	200.5	63.5	70.5	54.5
Merged-chr16-91861527-4	chr16	91861413	91861613	+	981.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 25 of 28)	intron (NM_001110275, intron 25 of 28)	70117.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	40.5	111.5	36.0	259.0	46.0	23.5	16.5	13.5
Merged-chr17-7917403-4	chr17	7917284	7917484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8616.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	52.5	99.0	68.0	964.0	156.0	51.5	66.0	62.0
Merged-chr9-3199771-3	chr9	3199652	3199852	+	821.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027988)	promoter-TSS (NR_027988)	61.0	NR_027988	114673.0	Mm.422774	NM_053265	ENSMUSG00000042360	4930433N12Rik	-	RIKEN cDNA 4930433N12 gene	ncRNA	28.5	44.5	14.0	243.5	6.0	1.5	1.0	5.5
Merged-chr5-142903207-1	chr5	142903107	142903307	+	591.0	f0_c57.idr	TTS (NM_007393)	TTS (NM_007393)	3547.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	4.0	7.0	4.0	8.5	12.5	8.5	4.5	7.0
Merged-chr15-59511695-3	chr15	59511592	59511792	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026746, intron 4 of 6)	L2a|LINE|L2	-136962.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	3.5	3.0	2.0	1.0	154.0	88.0	78.0	89.5
Merged-chr3-98033465-3	chr3	98033379	98033579	+	906.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	intron (NM_010928, intron 1 of 33)	19941.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	13.0	14.5	12.0	241.5	16.0	6.0	15.5	10.5
Merged-chr17-67260188-4	chr17	67260087	67260287	+	955.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	94272.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	18.0	8.5	15.0	199.5	54.5	13.5	28.5	32.0
Merged-chr18-9493448-4	chr18	9493357	9493557	+	865.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43303.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	19.0	13.5	14.0	377.0	32.0	8.5	9.0	12.5
Merged-chr5-137863591-2	chr5	137863489	137863689	+	553.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5540.0	NM_133209	170741.0	Mm.347593	NM_133209	ENSMUSG00000066684	Pilrb1	FDFACT|Fdact|Pilrb	paired immunoglobin-like type 2 receptor beta 1	protein-coding	14.0	13.5	14.0	48.5	15.0	3.0	7.0	0.0
Merged-chr8-41004259-2	chr8	41004159	41004359	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 7 of 13)	intron (NM_001005863, intron 7 of 13)	-13209.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	3.0	2.0	6.0	48.5	16.0	5.5	5.0	11.0
Merged-chr12-119386456-4	chr12	119386357	119386557	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56953.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	27.0	33.5	19.0	309.5	53.5	26.5	16.5	27.5
Merged-chr5-31082561-2	chr5	31082437	31082637	+	722.291626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10990.0	NM_011773	22784.0	Mm.1396	NM_011773	ENSMUSG00000029151	Slc30a3	Znt3	solute carrier family 30 (zinc transporter), member 3	protein-coding	10.0	7.5	2.5	50.0	32.0	4.5	8.5	5.0
Merged-chr2-38926732-4	chr2	38926618	38926818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010264)	promoter-TSS (NM_010264)	-257.0	NM_010264	14536.0	Mm.439703	NM_010264	ENSMUSG00000063972	Nr6a1	1700113M01Rik|Gcnf|NCNF|RTR	nuclear receptor subfamily 6, group A, member 1	protein-coding	60.0	96.0	54.5	634.5	232.5	73.0	112.5	60.0
Merged-chr4-132009962-4	chr4	132009862	132010062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	intron (NM_183428, intron 1 of 20)	39116.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	56.0	48.0	48.5	749.5	118.0	35.5	52.5	47.5
Merged-chr2-32236562-4	chr2	32236445	32236645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145145)	promoter-TSS (NM_145145)	-138.0	NM_145145	99011.0	Mm.31192	NM_145145	ENSMUSG00000039254	Pomt1	AI505244	protein-O-mannosyltransferase 1	protein-coding	81.5	103.0	80.0	854.0	179.5	62.0	55.0	82.0
Merged-chr11-70874319-4	chr11	70874211	70874411	+	934.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291143, intron 2 of 18)	intron (NM_001291143, intron 2 of 18)	29550.0	NM_001291142	54189.0	Mm.7087	NM_019400	ENSMUSG00000020817	Rabep1	Rab5ep|rabaptin-5|rabaptin-5alpha	rabaptin, RAB GTPase binding effector protein 1	protein-coding	38.5	29.0	11.5	335.0	62.5	14.0	18.5	13.5
Merged-chr17-29093728-4	chr17	29093641	29093841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007669)	promoter-TSS (NM_007669)	-28.0	NM_007669	12575.0	Mm.195663	NM_007669	ENSMUSG00000023067	Cdkn1a	CAP20|CDKI|CIP1|Cdkn1|P21|SDI1|Waf1|mda6|p21Cip1|p21WAF	cyclin-dependent kinase inhibitor 1A (P21)	protein-coding	70.5	60.0	43.5	628.0	112.0	38.0	54.0	42.0
Merged-chr10-120149531-2	chr10	120149431	120149631	+	809.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 8 of 11)	intron (NM_001359184, intron 8 of 11)	-36566.0	NM_080446	117599.0	Mm.214703	NM_080446	ENSMUSG00000020228	Helb	AI447783|D10Ertd664e	helicase (DNA) B	protein-coding	11.0	6.0	10.5	66.5	4.0	2.5	6.0	5.0
Merged-chr5-143579954-4	chr5	143579870	143580070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31264.0	NM_026050	67238.0	Mm.383219	NM_026050	ENSMUSG00000083012	Fam220a	1500026F15Rik|2810453I06Rik|AW047776|Acpin1|Sipar	family with sequence similarity 220, member A	protein-coding	95.0	130.0	104.5	1727.5	261.5	83.5	103.5	137.5
Merged-chr1-121334476-4	chr1	121334383	121334583	+	949.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-1894.0	NM_178082	72999.0	Mm.27136	NM_133748	ENSMUSG00000003721	Insig2	2900053I11Rik|C730043J18Rik|Insig-2	insulin induced gene 2	protein-coding	25.5	20.0	28.5	632.5	41.5	10.0	30.5	22.0
Merged-chr15-75062317-4	chr15	75062201	75062401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13464.0	NM_001252056	17067.0	Mm.1583	NM_010741	ENSMUSG00000079018	Ly6c1	AA682074|AA959465|Ly-6C|Ly-6C1|Ly6c	lymphocyte antigen 6 complex, locus C1	protein-coding	29.5	32.5	19.0	88.5	101.0	35.5	45.5	40.0
Merged-chr9-55545733-2	chr9	55545633	55545833	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027397, exon 6 of 6)	3' UTR (NM_027397, exon 6 of 6)	4584.0	NM_027397	104360.0	Mm.273996	NM_027397	ENSMUSG00000032318	Isl2	3110001N10Rik	insulin related protein 2 (islet 2)	protein-coding	4.5	5.0	11.0	52.5	7.5	2.5	0.5	2.0
Merged-chr5-8736591-1	chr5	8736491	8736691	+	744.0	f0_balb.idr	intron (NM_011076, intron 25 of 29)	intron (NM_011076, intron 25 of 29)	-61556.0	NM_011075	18669.0	Mm.146649	NM_011075	ENSMUSG00000028970	Abcb1b	Abcb1|Mdr1|Mdr1b|Pgy-1|Pgy1|mdr	ATP-binding cassette, sub-family B (MDR/TAP), member 1B	protein-coding	10.0	8.0	8.5	152.0	2.5	0.0	3.5	5.0
Merged-chr11-97838426-4	chr11	97838328	97838528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_010688, exon 7 of 7)	3' UTR (NM_010688, exon 7 of 7)	-2352.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	30.0	85.5	35.0	212.0	82.0	23.5	25.0	36.5
Merged-chr11-79368414-3	chr11	79368308	79368508	+	743.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010897, intron 1 of 57)	MLT-int|LTR|ERVL-MaLR	28516.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	12.0	9.0	2.0	106.5	11.5	5.0	11.0	5.5
Merged-chr12-76178072-2	chr12	76177972	76178172	+	720.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104386)	promoter-TSS (NR_104386)	-813.0	NR_104386	13983.0	Mm.2561	NM_010157	ENSMUSG00000021055	Esr2	ER[b]|ERbeta|Estrb	estrogen receptor 2 (beta)	protein-coding	3.5	7.0	4.0	90.0	9.0	8.0	4.5	7.5
Merged-chr4-152297215-4	chr4	152297114	152297314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037908)	promoter-TSS (NR_037908)	0.0	NR_037908	57295.0	Mm.277464	NM_133788	ENSMUSG00000039662	Icmt	1700008E11Rik|C80758|Gm13095|HSTE14|PPMT|STE14|pcCMT	isoprenylcysteine carboxyl methyltransferase	protein-coding	333.5	461.0	260.5	3719.0	655.0	257.0	304.5	279.5
Merged-chr13-104152527-3	chr13	104152438	104152638	+	744.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025879, intron 7 of 12)	intron (NM_025879, intron 7 of 12)	25928.0	NM_025879	66975.0	Mm.272541	NM_025879	ENSMUSG00000021711	Trappc13	2410002O22Rik|2610524F24Rik|AI451892|AU017229	trafficking protein particle complex 13	protein-coding	8.5	16.0	23.0	165.5	3.0	1.5	4.5	1.0
Merged-chr11-19979518-4	chr11	19979424	19979624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	55082.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	34.0	67.5	45.0	453.5	69.0	32.5	40.5	11.5
Merged-chr10-6983043-4	chr10	6982955	6983155	+	911.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039652, intron 4 of 5)	intron (NM_001039652, intron 4 of 5)	-2590.0	NM_001170801	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	26.0	18.5	19.5	487.5	35.0	3.0	17.0	12.0
Merged-chr13-55016694-4	chr13	55016591	55016791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206392, intron 1 of 17)	intron (NM_001206392, intron 1 of 17)	4128.0	NM_001206390	212032.0	Mm.267479	NM_001033245	ENSMUSG00000025877	Hk3	HK III|HK-III	hexokinase 3	protein-coding	29.5	67.5	30.5	426.0	104.5	40.5	20.5	49.5
Merged-chr6-108246511-4	chr6	108246411	108246611	+	881.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	33415.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	7.5	13.0	10.0	302.5	19.5	6.5	9.0	5.0
Merged-chr1-161400349-3	chr1	161400243	161400443	+	668.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009452, intron 1 of 2)	intron (NM_009452, intron 1 of 2)	4905.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	6.5	7.5	2.5	68.5	13.0	4.5	12.5	8.0
Merged-chr8-95832818-4	chr8	95832709	95832909	+	956.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20682.0	NM_172758	234595.0	Mm.29267	NM_172758	ENSMUSG00000036534	Slc38a7	D430050E18	solute carrier family 38, member 7	protein-coding	6.0	17.0	6.5	164.0	49.5	16.5	21.5	28.0
Merged-chr1-56902952-3	chr1	56902834	56903034	+	693.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358580, intron 4 of 11)	intron (NM_001358580, intron 4 of 11)	68400.0	NM_139146	212712.0	Mm.145599	NM_139146	ENSMUSG00000038331	Satb2	mKIAA1034	special AT-rich sequence binding protein 2	protein-coding	9.0	6.0	14.0	163.5	1.0	1.5	3.5	2.0
Merged-chr16-33917244-2	chr16	33917144	33917344	+	553.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 9 of 14)	intron (NM_001145884, intron 9 of 14)	49794.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	5.0	5.0	4.5	50.0	13.5	3.5	3.0	2.5
Merged-chr17-26244301-4	chr17	26244217	26244417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001206335)	promoter-TSS (NM_001206335)	-75.0	NM_001206335	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	157.5	191.5	105.0	1132.0	425.0	179.5	160.0	134.0
Merged-chr8-115414296-4	chr8	115414187	115414387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AmnSINE1|SINE|Deu	292607.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	67.5	69.5	34.0	1044.5	133.0	39.5	47.5	36.5
Merged-chr4-53210875-1	chr4	53210775	53210975	+	796.0	f0_balb.idr	Intergenic	Intergenic	-35321.0	NR_040665	78180.0	Mm.243847	NR_040665	ENSMUSG00000086947	4930522O17Rik	-	RIKEN cDNA 4930522O17 gene	ncRNA	9.5	6.0	6.0	201.0	13.0	0.5	7.5	10.0
Merged-chr6-38695605-4	chr6	38695499	38695699	+	876.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32530.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	5.5	25.0	6.0	123.5	30.0	12.0	9.5	22.0
Merged-chr3-58416508-4	chr3	58416422	58416622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081229, exon 1 of 4)	exon (NM_001081229, exon 1 of 4)	1802.0	NM_001347233	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	56.0	101.5	81.5	974.5	180.0	62.0	98.5	83.5
Merged-chr1-72226377-3	chr1	72226313	72226513	+	932.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	U2|snRNA|snRNA	-14099.0	NM_001357488	381269.0	Mm.422636	NM_001005423	ENSMUSG00000039395	Mreg	Gm974|Wdt2|dsu	melanoregulin	protein-coding	11.5	18.5	14.0	111.5	37.5	5.5	14.5	8.0
Merged-chr17-71704113-3	chr17	71704011	71704211	+	894.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177087, intron 10 of 19)	intron (NM_177087, intron 10 of 19)	30850.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	9.5	20.5	10.5	160.5	21.5	3.0	7.5	13.0
Merged-chr8-111062645-4	chr8	111062543	111062743	+	959.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6304.0	NM_028274	72544.0	Mm.24174	NM_028274	ENSMUSG00000109941	Exosc6	2610510N21Rik|C76919|Mtr3	exosome component 6	protein-coding	8.5	33.5	26.0	301.5	47.0	34.5	27.5	21.0
Merged-chr14-56575570-4	chr14	56575465	56575665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145978)	promoter-TSS (NM_001145978)	-54.0	NM_001145978	328417.0	Mm.379357	NM_001145978	ENSMUSG00000054509	Parp4	Adprtl1|C030027K23Rik|E230037B21Rik|Gm743|PARPL|PH5P|VAULT3|VPARP|p193	poly (ADP-ribose) polymerase family, member 4	protein-coding	103.5	149.5	75.0	1301.5	214.0	66.0	93.5	85.0
Merged-chr10-41968371-4	chr10	41968260	41968460	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034858, intron 8 of 17)	intron (NM_001034858, intron 8 of 17)	50022.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	33.5	33.5	17.5	409.0	73.0	17.0	27.5	24.5
Merged-chr7-28832383-3	chr7	28832281	28832481	+	901.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_016772)	TTS (NM_016772)	-1413.0	NM_010706	16855.0	Mm.210336	NM_010706	ENSMUSG00000053964	Lgals4	gal-4	lectin, galactose binding, soluble 4	protein-coding	7.0	8.0	8.0	146.5	19.0	2.5	7.0	9.5
Merged-chr12-45081787-1	chr12	45081687	45081887	+	898.5	f0_balb.idr	Intergenic	Intergenic	-7304.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	6.5	11.0	12.0	220.5	7.5	0.0	5.0	4.5
Merged-chr11-80523065-4	chr11	80522991	80523191	+	878.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177390, intron 21 of 21)	intron (NM_177390, intron 21 of 21)	-13985.0	NR_126552	77417.0	Mm.437510	NR_126552	ENSMUSG00000085078	C030013C21Rik	-	RIKEN cDNA C030013C21 gene	ncRNA	12.5	16.0	4.5	221.5	27.5	7.5	10.5	10.5
Merged-chr5-31468010-4	chr5	31467903	31468103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360001, intron 5 of 12)	ORR1E|LTR|ERVL-MaLR	15567.0	NM_001360000	269639.0	Mm.259127	NM_172993	ENSMUSG00000062761	Zfp512	2500002M11Rik|AI450173|D230008H22|Znf512	zinc finger protein 512	protein-coding	80.0	88.5	75.5	1510.5	134.5	47.0	89.0	87.0
Merged-chr18-15140464-4	chr18	15140357	15140557	+	944.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134112, intron 1 of 4)	intron (NM_134112, intron 1 of 4)	10989.0	NM_134112	106931.0	Mm.329299	NM_134112	ENSMUSG00000036225	Kctd1	4933402K10Rik|AI661543|AW553000	potassium channel tetramerisation domain containing 1	protein-coding	17.5	9.0	15.5	144.0	43.5	10.5	17.5	23.5
Merged-chr9-60744692-4	chr9	60744582	60744782	+	853.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31561.0	NM_026235	67557.0	Mm.44546	NM_026235	ENSMUSG00000034839	Larp6	5430431G03Rik|AI552438|Achn	La ribonucleoprotein domain family, member 6	protein-coding	4.5	5.5	6.5	79.5	9.5	5.0	2.0	6.5
Merged-chr9-104285099-4	chr9	104284989	104285189	+	849.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22159.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	9.5	15.0	16.0	206.5	37.0	17.5	16.5	11.0
Merged-chr1-193200704-4	chr1	193200615	193200815	+	976.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153137, intron 2 of 15)	intron (NM_153137, intron 2 of 15)	831.0	NM_153137	215243.0	Mm.261259	NM_153137	ENSMUSG00000037318	Traf3ip3	6030423D04Rik|AI115021|T3jam	TRAF3 interacting protein 3	protein-coding	17.5	14.0	15.0	273.0	33.5	10.0	19.5	28.0
Merged-chr15-102471162-4	chr15	102471109	102471309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001174073, intron 1 of 12)	CpG	577.0	NM_001174073	18521.0	Mm.236513	NM_011042	ENSMUSG00000056851	Pcbp2	AW412548|Hnrpx|alphaCP-2	poly(rC) binding protein 2	protein-coding	25.0	52.0	39.0	517.5	97.5	43.0	39.5	47.0
Merged-chr19-24476673-2	chr19	24476573	24476773	+	846.833374	f1_balb.idr|f1_c57bl6.idr	exon (NM_026520, exon 1 of 1)	exon (NM_026520, exon 1 of 1)	801.0	NM_026520	68034.0	Mm.440181	NM_026520	ENSMUSG00000074922	Fam122a	2410124L17Rik|2900009I07Rik|Gm9849	family with sequence similarity 122, member A	protein-coding	8.0	7.0	15.5	58.0	19.5	3.5	7.0	7.0
Merged-chr13-93778349-1	chr13	93778249	93778449	+	726.75	f0_balb.idr	intron (NM_009712, intron 1 of 7)	L1_Mus2|LINE|L1	6670.0	NM_009712	11881.0	Mm.300178	NM_009712	ENSMUSG00000042082	Arsb	1110007C02Rik|AI480648|As-1|As-1r|As-1s|As-1t|As1|As1-r|As1-s|As1-t|Asr-1|Ast-1	arylsulfatase B	protein-coding	16.0	8.0	12.0	141.5	7.0	1.0	3.0	4.5
Merged-chr12-3834652-4	chr12	3834556	3834756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	27496.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	64.5	89.5	66.5	716.0	170.0	45.0	55.5	58.0
Merged-chr15-79757284-4	chr15	79757192	79757392	+	952.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045069, exon 4 of 4)	non-coding (NR_045069, exon 4 of 4)	14594.0	NR_045069	100504191.0	Mm.421420	NR_045069	ENSMUSG00000087543	Gm16576	-	predicted gene 16576	ncRNA	11.5	20.5	11.5	344.5	64.5	21.0	47.0	59.0
Merged-chr15-81663929-4	chr15	81663847	81664047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110362)	promoter-TSS (NR_110362)	58.0	NR_110362	214669.0	Mm.280768	NM_145993	ENSMUSG00000022394	L3mbtl2	4732493N06Rik|M4mbt	L3MBTL2 polycomb repressive complex 1 subunit	protein-coding	77.0	151.5	49.5	1033.5	205.5	68.0	87.5	61.0
Merged-chr6-97487379-1	chr6	97487279	97487479	+	1000.0	f0_balb.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	441.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	19.0	25.5	22.0	111.0	43.5	13.0	31.5	15.0
Merged-chr11-31803628-3	chr11	31803511	31803711	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102312, intron 1 of 4)	intron (NR_102312, intron 1 of 4)	20936.0	NR_102310	414116.0	Mm.150222	NR_102310	ENSMUSG00000085772	D630024D03Rik	-	RIKEN cDNA D630024D03 gene	ncRNA	21.0	27.5	24.5	361.0	14.0	6.5	7.5	8.5
Merged-chr1-52331575-4	chr1	52331462	52331662	+	838.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98330.0	NM_001113383	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	38.0	67.0	35.0	720.0	21.0	2.5	15.5	15.0
Merged-chr9-62366890-1	chr9	62366790	62366990	+	542.0	f0_balb.idr	intron (NM_009672, intron 1 of 6)	intron (NM_009672, intron 1 of 6)	25547.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	7.0	6.0	6.5	87.5	0.0	1.0	4.5	1.0
Merged-chr5-151195526-4	chr5	151195445	151195645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5352.0	NR_153382	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	23.0	28.5	28.5	497.0	92.0	30.5	39.0	31.0
Merged-chr14-7774144-3	chr14	7774069	7774269	+	659.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAG)n|Simple_repeat|Simple_repeat	-43788.0	NM_001081427	286940.0	Mm.489652	NM_134080	ENSMUSG00000025278	Flnb	AL024016|Fln-b	filamin, beta	protein-coding	10.0	8.0	10.5	74.5	17.0	3.0	7.0	11.5
Merged-chr11-116335446-4	chr11	116335339	116335539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008240)	promoter-TSS (NM_008240)	-85.0	NM_008240	15223.0	Mm.378938	NM_008240	ENSMUSG00000034227	Foxj1	FKHL-13|HFH-4|Hfh4	forkhead box J1	protein-coding	69.5	64.0	22.0	397.5	168.5	61.5	58.0	45.0
Merged-chr8-80919279-4	chr8	80919158	80919358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38739.0	NM_001301298	14388.0	Mm.277409	NM_021356	ENSMUSG00000031714	Gab1	AA408973|AW107238	growth factor receptor bound protein 2-associated protein 1	protein-coding	33.5	47.5	53.5	753.0	59.5	23.5	39.0	22.5
Merged-chr16-58523181-4	chr16	58523066	58523266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_018784, exon 1 of 11)	5' UTR (NM_018784, exon 1 of 11)	260.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	28.5	62.0	32.5	487.0	73.5	43.0	41.0	37.0
Merged-chr11-87039478-4	chr11	87039366	87039566	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025638, intron 7 of 9)	B4A|SINE|B4	34671.0	NM_025638	66569.0	Mm.281887	NM_025638	ENSMUSG00000061666	Gdpd1	2610020H15Rik	glycerophosphodiester phosphodiesterase domain containing 1	protein-coding	27.5	29.0	26.0	359.5	42.5	13.0	6.0	25.0
Merged-chr4-151988931-4	chr4	151988801	151989001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145929)	promoter-TSS (NM_001145929)	85.0	NM_175152	69876.0	Mm.226820	NM_175152	ENSMUSG00000039759	Thap3	2010013E08Rik|2210418H06Rik	THAP domain containing, apoptosis associated protein 3	protein-coding	47.0	33.0	37.5	459.0	68.0	23.5	29.5	25.5
Merged-chr6-86666004-4	chr6	86665889	86666089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010751, intron 2 of 5)	intron (NM_010751, intron 2 of 5)	3170.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	40.5	51.5	40.0	677.0	82.0	22.5	48.5	51.5
Merged-chr16-73473772-4	chr16	73473670	73473870	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	810621.0	NM_019413	19876.0	Mm.310772	NM_019413	ENSMUSG00000022883	Robo1	AW494633|AW742721|DUTT1|Gm310	roundabout guidance receptor 1	protein-coding	32.5	39.0	56.5	1509.0	33.5	9.5	36.5	19.0
Merged-chr2-26974159-4	chr2	26974060	26974260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001322, intron 2 of 28)	intron (NM_001001322, intron 2 of 28)	744.0	NM_001290465	279028.0	Mm.330084	NM_001001322	ENSMUSG00000014852	Adamts13	ADAM-TS13|ADAMTS-13|Gm710|vWF-CP	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 13	protein-coding	126.5	274.0	130.0	2000.0	469.5	143.5	179.5	179.5
Merged-chr15-81355585-3	chr15	81355466	81355666	+	731.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011399, intron 1 of 8)	B3|SINE|B2	5199.0	NM_011399	20524.0	Mm.222536	NM_011399	ENSMUSG00000022404	Slc25a17	34kDa|47kDa|PMP34|Pmp47	solute carrier family 25 (mitochondrial carrier, peroxisomal membrane protein), member 17	protein-coding	5.0	2.0	7.0	67.5	19.0	8.5	7.0	11.0
Merged-chr2-170345685-4	chr2	170345576	170345776	+	991.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10685.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	31.0	25.5	26.0	498.0	61.0	17.5	37.5	29.0
Merged-chr6-4054626-4	chr6	4054523	4054723	+	965.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7039.0	NR_131108	78034.0	Mm.243851	NR_131108	ENSMUSG00000107681	4930528H21Rik	Gm43986	RIKEN cDNA 4930528H21 gene	ncRNA	12.5	16.5	7.0	313.0	34.0	17.5	14.5	26.0
Merged-chr17-23742638-3	chr17	23742532	23742732	+	849.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028416, exon 7 of 10)	exon (NM_028416, exon 7 of 10)	-2302.0	NM_023824	76498.0	Mm.491253	NM_023824	ENSMUSG00000023909	Paqr4	1500004C10Rik	progestin and adipoQ receptor family member IV	protein-coding	4.5	1.0	4.5	22.5	22.5	7.5	7.5	5.5
Merged-chr11-98754890-4	chr11	98754801	98755001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178060, intron 2 of 8)	intron (NM_178060, intron 2 of 8)	13116.0	NM_001313983	21833.0	Mm.265917	NM_178060	ENSMUSG00000058756	Thra	6430529J03Rik|AW259572|Erba|Nr1a1|Rvr|T3R[a]|T3Ralpha|Thra1|Thra2|c-erbA-1|c-erbA-alpha|c-erbAalpha	thyroid hormone receptor alpha	protein-coding	48.5	68.0	34.5	236.5	94.5	36.0	28.0	28.0
Merged-chr11-46804627-4	chr11	46804553	46804753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6146.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	60.5	126.0	120.5	1248.5	158.0	42.5	56.5	34.5
Merged-chr12-69296764-4	chr12	69296676	69296876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027117)	promoter-TSS (NM_027117)	95.0	NM_027117	69554.0	Mm.234368	NM_027117	ENSMUSG00000020978	Klhdc2	2310022K15Rik|D12Ertd522e|HCLP-1|LCP	kelch domain containing 2	protein-coding	54.0	74.0	58.5	782.0	105.0	37.0	46.0	45.5
Merged-chr10-44604933-4	chr10	44604771	44604971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146123.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	31.5	32.5	46.5	633.0	58.5	16.5	19.5	20.0
Merged-chr3-100692481-4	chr3	100692373	100692573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7000.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	36.0	54.5	63.0	808.0	176.0	51.5	58.5	55.0
Merged-chr5-21218113-4	chr5	21217992	21218192	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153365, intron 6 of 26)	Tigger17a|DNA|TcMar-Tigger	31825.0	NM_001359877	212167.0	Mm.121705	NM_175437	ENSMUSG00000039934	Gsap	A530088I07Rik|Pion	gamma-secretase activating protein	protein-coding	24.5	25.5	26.0	322.0	47.5	16.5	20.5	13.5
Merged-chr5-145200620-3	chr5	145200536	145200736	+	783.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023322, intron 1 of 2)	B3A|SINE|B2	1246.0	NM_023322	67235.0	Mm.432480	NM_023322	ENSMUSG00000029627	Zkscan14	2310046C23Rik|2810437E14Rik|Zfp99|Znf394	zinc finger with KRAB and SCAN domains 14	protein-coding	7.5	6.5	7.0	126.0	11.0	3.5	7.5	7.5
Merged-chr9-120098904-4	chr9	120098826	120099026	+	831.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6793.0	NM_007720	12776.0	Mm.442098	NM_007720	ENSMUSG00000042262	Ccr8	C-C|C-C CKR-8|CC-CKR-8|CCR-8|CKR-8|Cmkbr8|mCCR8	chemokine (C-C motif) receptor 8	protein-coding	9.0	19.5	4.0	151.5	17.5	12.5	11.0	10.5
Merged-chr1-59883990-4	chr1	59883895	59884095	+	766.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29011.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	4.5	6.0	6.5	73.0	22.5	1.5	5.0	14.5
Merged-chr14-32169063-3	chr14	32168963	32169163	+	925.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019744, intron 1 of 9)	intron (NM_019744, intron 1 of 9)	3274.0	NM_019744	27057.0	Mm.371598	NM_019744	ENSMUSG00000056234	Ncoa4	ARA70|Rfg	nuclear receptor coactivator 4	protein-coding	6.0	4.5	5.5	176.0	16.5	5.0	9.0	2.5
Merged-chr1-164153024-4	chr1	164152924	164153124	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037987)	promoter-TSS (NR_037987)	-807.0	NR_037987	100503816.0	Mm.398579	NR_037987	ENSMUSG00000086593	Gm16548	-	predicted gene 16548	ncRNA	17.0	35.5	31.5	376.0	61.5	16.5	28.0	23.0
Merged-chr15-76657004-4	chr15	76656917	76657117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276321)	promoter-TSS (NM_001276321)	-116.0	NM_001276321	54151.0	Mm.247752	NM_019396	ENSMUSG00000053929	Cyhr1	1110031M01Rik|AU042374|Chrp	cysteine and histidine rich 1	protein-coding	49.5	76.0	42.0	576.5	115.5	53.5	62.5	45.5
Merged-chr1-60941446-4	chr1	60941347	60941547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32422.0	NM_001281976	12477.0	Mm.390	NM_009843	ENSMUSG00000026011	Ctla4	Cd152|Ctla-4|Ly-56	cytotoxic T-lymphocyte-associated protein 4	protein-coding	37.0	52.5	37.0	594.0	103.5	20.0	34.0	30.0
Merged-chr3-88664306-4	chr3	88664191	88664391	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	-11149.0	NM_181817	242093.0	Mm.269130	NM_181817	ENSMUSG00000049741	Rxfp4	GPCR142|Gpr100|Rln3r2|SALPR	relaxin family peptide receptor 4	protein-coding	55.0	114.0	47.5	302.5	31.0	5.5	17.0	11.5
Merged-chr17-81658026-4	chr17	81657939	81658139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	80348.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	32.0	35.5	38.0	595.0	106.0	19.5	19.5	31.0
Merged-chr6-73059936-4	chr6	73059819	73060019	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164669, intron 61 of 76)	MTEa|LTR|ERVL-MaLR	-101171.0	NM_001190327	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	17.5	13.5	7.5	224.5	47.0	16.0	26.5	24.0
Merged-chr4-107082370-4	chr4	107082287	107082487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346552, intron 6 of 6)	MTD|LTR|ERVL-MaLR	-14504.0	NM_172873	242603.0	Mm.257231	NM_172873	ENSMUSG00000047636	Cdcp2	D030010E02Rik	CUB domain containing protein 2	protein-coding	20.5	28.0	29.5	380.0	60.0	8.0	30.0	33.0
Merged-chr13-73603979-4	chr13	73603859	73604059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146047)	promoter-TSS (NM_146047)	-43.0	NM_146047	218335.0	Mm.30099	NM_146047	ENSMUSG00000021610	Clptm1l	C130052I12Rik|Crr9	CLPTM1-like	protein-coding	142.0	196.5	139.5	2259.0	356.0	150.5	207.5	155.0
Merged-chr13-63098266-1	chr13	63098166	63098366	+	893.0	f0_balb.idr	intron (NM_001289926, intron 5 of 15)	intron (NM_001289926, intron 5 of 15)	133373.0	NM_001289924	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	20.5	13.5	21.0	387.5	0.0	0.0	1.5	1.5
Merged-chr12-12230289-4	chr12	12230180	12230380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D-int|LTR|ERVL-MaLR	-31859.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	113.5	232.0	149.0	1460.0	413.5	149.0	146.0	136.0
Merged-chr6-86684515-4	chr6	86684420	86684620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025665)	promoter-TSS (NM_025665)	-29.0	NM_025665	66618.0	Mm.182650	NM_025665	ENSMUSG00000001158	Snrnp27	2610209M04Rik|AI449063|AU022368|Ry1	small nuclear ribonucleoprotein 27 (U4/U6.U5)	protein-coding	67.0	95.0	47.5	797.0	106.5	33.0	55.5	41.5
Merged-chr7-19467782-4	chr7	19467676	19467876	+	950.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID4|SINE|ID	-9282.0	NM_172279	232944.0	Mm.260504	NM_172279	ENSMUSG00000030397	Mark4	2410090P21Rik|C79806|Markl1	MAP/microtubule affinity regulating kinase 4	protein-coding	12.0	22.5	5.5	134.5	47.5	25.5	18.0	17.5
Merged-chr10-99427292-4	chr10	99427178	99427378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	164047.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	22.0	27.0	26.5	356.0	51.5	8.0	18.5	26.0
Merged-chr2-31742336-4	chr2	31742230	31742430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283047, intron 2 of 11)	intron (NM_001283047, intron 2 of 11)	-17609.0	NM_009594	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	30.5	49.0	26.0	324.0	73.5	27.0	30.5	25.0
Merged-chr4-152027725-4	chr4	152027611	152027811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133879)	promoter-TSS (NM_133879)	-40.0	NM_133879	100090.0	Mm.24661	NM_133879	ENSMUSG00000028952	Zbtb48	0610011D15Rik|AI327031|Hkr3|TZAP	zinc finger and BTB domain containing 48	protein-coding	226.0	353.0	206.0	3840.0	584.0	229.0	283.0	217.5
Merged-chr3-121723217-7	chr3	121723107	121723307	+	969.9892580000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010171)	promoter-TSS (NM_010171)	-330.0	NM_010171	14066.0	Mm.273188	NM_010171	ENSMUSG00000028128	F3	AA409063|CD142|Cf-3|Cf3|TF	coagulation factor III	protein-coding	3.0	7.0	19.5	78.0	22.5	13.5	18.5	12.0
Merged-chr11-100893624-4	chr11	100893512	100893712	+	977.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213660, intron 20 of 23)	intron (NM_213660, intron 20 of 23)	33128.0	NM_001164062	20850.0	Mm.277403	NM_011488	ENSMUSG00000004043	Stat5a	AA959963|STAT5	signal transducer and activator of transcription 5A	protein-coding	7.5	19.0	18.5	226.5	65.5	19.5	20.0	20.0
Merged-chr9-63608985-3	chr9	63608895	63609095	+	895.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	6349.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	4.5	6.0	7.5	225.0	20.5	6.5	4.0	3.5
Merged-chr9-7177012-4	chr9	7176909	7177109	+	987.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029851)	promoter-TSS (NM_029851)	37.0	NM_029851	110350.0	Mm.237596	NM_029851	ENSMUSG00000047193	Dync2h1	4432416O06Rik|AI448217|D030010H02Rik|D330044F14Rik|DHC1b|DHC2|Dnchc2|b2b414Clo|mKIAA1997	dynein cytoplasmic 2 heavy chain 1	protein-coding	14.5	17.0	28.5	237.0	55.5	25.0	25.5	25.5
Merged-chr8-25598948-4	chr8	25598830	25599030	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1443.0	NM_173012	270035.0	Mm.268349	NM_173012	ENSMUSG00000037363	Letm2	6030453H13|D030041N04Rik	leucine zipper-EF-hand containing transmembrane protein 2	protein-coding	13.5	23.0	10.0	250.5	49.0	9.0	13.0	12.0
Merged-chr1-7204957-3	chr1	7204874	7205074	+	848.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	116054.0	NM_183028	319263.0	Mm.21539	NM_183028	ENSMUSG00000051285	Pcmtd1	8430411F12Rik|A030012M09Rik	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	protein-coding	6.5	4.5	4.5	83.0	13.5	4.0	7.0	5.0
Merged-chr8-106007342-3	chr8	106007243	106007443	+	732.127747	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19|LTR|ERVK	-4135.0	NM_025518	66369.0	Mm.287500	NM_025518	ENSMUSG00000031901	Dus2	2310016K04Rik|Dus2l	dihydrouridine synthase 2	protein-coding	21.0	24.0	18.5	51.5	7.5	2.5	1.5	8.0
Merged-chr1-93305906-4	chr1	93305804	93306004	+	908.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178051)	promoter-TSS (NM_178051)	-25.0	NM_178051	69821.0	Mm.52809	NM_178051	ENSMUSG00000026273	Mterf4	1810059A23Rik|4933412H03Rik|Mterfd2	mitochondrial transcription termination factor 4	protein-coding	15.0	15.5	14.5	295.5	46.5	16.0	20.0	18.0
Merged-chr1-156420973-7	chr1	156420849	156421049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346967)	promoter-TSS (NM_001346967)	-34.0	NM_001346967	77352.0	Mm.428709	NM_001033180	ENSMUSG00000026601	Axdnd1	9430070O13Rik|Gm979	axonemal dynein light chain domain containing 1	protein-coding	17.5	37.5	23.5	298.5	62.5	30.0	24.0	22.0
Merged-chr2-167754888-3	chr2	167754812	167755012	+	996.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63735.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	24.5	25.5	14.0	246.0	21.0	3.5	6.0	7.5
Merged-chr7-24300258-2	chr7	24300158	24300358	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009561)	promoter-TSS (NM_009561)	-709.0	NM_009561	22719.0	Mm.12832	NM_009561	ENSMUSG00000050605	Zfp61	-	zinc finger protein 61	protein-coding	9.0	7.5	7.0	59.0	16.0	1.0	13.5	7.5
Merged-chr4-136470730-3	chr4	136470633	136470833	+	888.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024452, intron 1 of 4)	CpG	972.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	3.5	9.0	1.0	137.0	12.0	7.5	5.5	9.5
Merged-chr6-97995943-4	chr6	97995846	97996046	+	952.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001178049, intron 4 of 9)	intron (NM_001178049, intron 4 of 9)	4163.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	19.5	30.0	19.0	270.0	42.0	18.5	17.0	12.0
Merged-chr11-72518688-4	chr11	72518592	72518792	+	898.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029932, intron 8 of 11)	MTD|LTR|ERVL-MaLR	-28772.0	NM_153060	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	11.5	48.0	11.5	133.5	62.5	20.0	15.0	10.0
Merged-chr13-34875499-4	chr13	34875376	34875576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013830)	promoter-TSS (NM_013830)	-18.0	NM_013830	19134.0	Mm.10027	NM_013830	ENSMUSG00000021413	Prpf4b	2610037H07|Prp4|Prp4k|Prpk|cbp143	pre-mRNA processing factor 4B	protein-coding	75.5	84.0	45.5	821.5	152.5	51.0	61.0	71.0
Merged-chr1-88695279-4	chr1	88695171	88695371	+	810.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6920.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	12.0	12.0	17.0	207.5	17.5	5.0	8.0	10.5
Merged-chr16-18629908-6	chr16	18629756	18629956	+	908.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_213614)	promoter-TSS (NM_213614)	82.0	NM_213614	18951.0	Mm.20365	NM_213614	ENSMUSG00000072214	Sept5	Cdcrel-1|Cdcrel1|Pnutl1	septin 5	protein-coding	3.5	5.5	4.0	80.0	12.5	6.0	8.0	4.5
Merged-chr11-55147628-4	chr11	55147515	55147715	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172258, intron 3 of 10)	intron (NM_172258, intron 3 of 10)	4091.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	24.0	38.5	18.0	311.5	49.0	21.0	17.5	17.5
Merged-chr12-84752235-4	chr12	84752154	84752354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20858.0	NM_023409	67963.0	Mm.282556	NM_023409	ENSMUSG00000021242	Npc2	2700012J19Rik|AA408070|AU045843|HE1	NPC intracellular cholesterol transporter 2	protein-coding	100.0	118.0	90.5	1598.5	197.5	78.5	74.5	98.0
Merged-chr3-87885010-2	chr3	87884936	87885136	+	959.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_033573, exon 1 of 7)	exon (NM_033573, exon 1 of 7)	526.0	NM_033573	94315.0	Mm.35089	NM_033573	ENSMUSG00000004895	Prcc	-	papillary renal cell carcinoma (translocation-associated)	protein-coding	10.5	10.5	10.5	93.5	18.0	3.0	7.5	13.5
Merged-chr9-55308697-4	chr9	55308612	55308812	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-18201.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	44.5	40.5	36.0	598.5	46.0	19.0	23.0	16.5
Merged-chr2-14204436-4	chr2	14204321	14204521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081310, intron 3 of 3)	intron (NM_001081310, intron 3 of 3)	-24993.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	58.0	34.0	56.0	698.0	44.0	23.0	34.5	48.5
Merged-chr16-4420517-4	chr16	4420415	4420615	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291910)	promoter-TSS (NM_001291910)	-17.0	NM_009624	11515.0	Mm.439750	NM_009624	ENSMUSG00000005580	Adcy9	AC9|ACtp10|AW125421|D16Wsu65e|mKIAA0520	adenylate cyclase 9	protein-coding	61.5	76.0	42.5	952.5	138.0	50.5	79.0	46.5
Merged-chr13-55693015-4	chr13	55692883	55693083	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181278)	promoter-TSS (NM_181278)	-141.0	NM_181278	78521.0	Mm.28449	NM_181278	ENSMUSG00000045767	B230219D22Rik	AA119856|D530037I19Rik	RIKEN cDNA B230219D22 gene	protein-coding	91.0	165.5	58.0	819.5	201.5	89.5	68.5	79.0
Merged-chr3-95142390-4	chr3	95142271	95142471	+	881.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027206)	promoter-TSS (NM_027206)	-11.0	NM_027206	69769.0	Mm.34368	NM_027206	ENSMUSG00000013707	Tnfaip8l2	1810019A08Rik|AW610835|TIPE2	tumor necrosis factor, alpha-induced protein 8-like 2	protein-coding	10.0	28.5	3.0	156.0	23.0	10.0	17.5	12.5
Merged-chr1-180196047-4	chr1	180195916	180196116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359268)	promoter-TSS (NM_001359268)	4.0	NM_023341	67426.0	Mm.38330	NM_023341	ENSMUSG00000026489	Coq8a	4632432J16Rik|AI462003|Adck3|Cabc1|mKIAA0451	coenzyme Q8A	protein-coding	226.5	321.0	243.0	3653.0	574.5	211.5	301.5	212.0
Merged-chr3-95706432-4	chr3	95706326	95706526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-18509.0	NM_001301705	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	51.0	45.0	46.0	1024.0	64.5	28.5	39.0	39.5
Merged-chr18-9841278-3	chr18	9841168	9841368	+	876.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 3 of 9)	intron (NM_130449, intron 3 of 9)	-116912.0	NM_153552	225160.0	Mm.219648	NM_153552	ENSMUSG00000024287	Thoc1	3110002N20Rik|AW107452|NMP-84	THO complex 1	protein-coding	18.0	16.5	14.5	378.5	4.5	0.0	3.0	1.5
Merged-chr5-134907330-3	chr5	134907240	134907440	+	845.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029681)	promoter-TSS (NM_029681)	-607.0	NM_194065	76629.0	Mm.159750	NM_029681	ENSMUSG00000040576	Tmem270	1700111I05Rik|Wbscr28	transmembrane protein 270	protein-coding	5.0	13.5	6.5	175.0	12.0	9.5	7.0	3.5
Merged-chr10-59886684-4	chr10	59886581	59886781	+	997.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019965, intron 1 of 8)	intron (NM_019965, intron 1 of 8)	7090.0	NM_019965	56709.0	Mm.103610	NM_019965	ENSMUSG00000020109	Dnajb12	Dj10|mDj10	DnaJ heat shock protein family (Hsp40) member B12	protein-coding	23.5	54.0	21.0	201.5	41.5	16.5	22.5	22.5
Merged-chr9-7344319-4	chr9	7344220	7344420	+	921.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001320077)	promoter-TSS (NM_001320077)	-77.0	NM_001320077	17381.0	Mm.2055	NM_008605	ENSMUSG00000049723	Mmp12	AV378681|MME|Mmel	matrix metallopeptidase 12	protein-coding	19.5	19.0	12.0	230.5	33.0	14.0	11.0	11.5
Merged-chr9-99580859-4	chr9	99580745	99580945	+	734.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031403, intron 5 of 7)	B2_Mm2|SINE|B2	5046.0	NM_031403	83703.0	Mm.31324	NM_031403	ENSMUSG00000032469	Dbr1	AW018415	debranching RNA lariats 1	protein-coding	10.0	8.0	7.5	88.0	32.5	7.0	8.0	9.0
Merged-chr7-126086367-4	chr7	126086281	126086481	+	943.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3970.0	NM_001358885	269994.0	Mm.39599	NM_001101488	ENSMUSG00000046182	Gsg1l	AI852434|C230098I05Rik|G630023A01Rik|Gm637|g1l	GSG1-like	protein-coding	16.0	38.5	23.0	272.5	65.0	12.5	13.5	9.0
Merged-chr19-46484750-4	chr19	46484653	46484853	+	845.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 11 of 11)	intron (NM_001025391, intron 11 of 11)	-16895.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	9.5	16.5	3.5	91.0	29.5	6.5	10.0	10.0
Merged-chr17-67359786-4	chr17	67359670	67359870	+	967.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5279.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	15.5	27.0	13.0	245.5	36.0	20.0	29.5	17.0
Merged-chr4-133585055-1	chr4	133584955	133585155	+	690.0	f0_balb.idr	TTS (NM_172876)	TTS (NM_172876)	682.0	NM_133884	100210.0	Mm.274001	NM_133884	ENSMUSG00000028848	Gpn2	AI838661|Atpbd1b|R74630	GPN-loop GTPase 2	protein-coding	11.5	35.0	10.0	52.0	13.0	7.0	2.5	3.5
Merged-chr12-40223978-4	chr12	40223879	40224079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013562)	promoter-TSS (NM_013562)	615.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	35.5	69.5	21.5	413.0	83.5	18.0	40.5	35.0
Merged-chr17-71489892-4	chr17	71489815	71490015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-14572.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	26.5	44.0	24.5	414.0	104.0	52.0	66.0	51.5
Merged-chr6-116193543-4	chr6	116193456	116193656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177412)	promoter-TSS (NM_177412)	-182.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	84.0	122.5	51.0	1037.5	242.5	116.5	98.5	82.0
Merged-chr11-72813103-2	chr11	72813003	72813203	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001045536, intron 1 of 54)	intron (NM_001045536, intron 1 of 54)	16877.0	NM_001045536	195018.0	Mm.272030	NM_001045536	ENSMUSG00000055670	Zzef1	8430405D05Rik|BC051585|C130099L13Rik|C85424|NSPA|mKIAA0399	zinc finger, ZZ-type with EF hand domain 1	protein-coding	3.5	5.5	4.0	140.5	15.0	8.0	6.0	5.5
Merged-chr11-46834008-1	chr11	46833908	46834108	+	1000.0	f1_balb.idr	intron (NM_178759, intron 5 of 8)	B4A|SINE|B4	23209.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	2.0	5.5	4.0	83.5	17.5	5.0	18.5	8.0
Merged-chr6-137733058-2	chr6	137732958	137733158	+	643.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2024.0	NM_011499	20901.0	Mm.22584	NM_011499	ENSMUSG00000030224	Strap	AW557906|C78091|C79202|Unrip	serine/threonine kinase receptor associated protein	protein-coding	5.0	6.5	6.0	63.5	23.0	3.0	5.5	8.5
Merged-chr5-123136989-4	chr5	123136888	123137088	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4359.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	24.0	35.0	16.5	353.5	46.0	22.5	31.0	31.0
Merged-chr14-72581225-4	chr14	72581117	72581317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 7 of 25)	intron (NM_207636, intron 7 of 25)	128786.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	66.0	101.0	61.5	1186.0	173.5	59.0	64.0	76.0
Merged-chr12-108990647-4	chr12	108990582	108990782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177602, intron 3 of 6)	intron (NM_177602, intron 3 of 6)	77535.0	NM_001163175	380785.0	Mm.342085	NM_001163175	ENSMUSG00000040867	Begain	BM948371|Gm897	brain-enriched guanylate kinase-associated	protein-coding	113.0	116.5	138.0	2064.5	210.5	77.0	124.5	115.5
Merged-chr13-46724581-2	chr13	46724481	46724681	+	953.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_175749, intron 1 of 21)	intron (NM_175749, intron 1 of 21)	3268.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	6.5	6.0	1.0	30.5	16.0	7.5	5.0	7.0
Merged-chr16-5244671-4	chr16	5244560	5244760	+	921.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_027446, exon 8 of 8)	3' UTR (NM_027446, exon 8 of 8)	11039.0	NM_145362	208211.0	Mm.34581	NM_145362	ENSMUSG00000039427	Alg1	HMAT1|HMT1	asparagine-linked glycosylation 1 (beta-1,4-mannosyltransferase)	protein-coding	6.0	13.5	10.5	179.0	27.0	9.5	16.5	18.0
Merged-chr11-50292475-4	chr11	50292381	50292581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175334)	promoter-TSS (NM_175334)	-145.0	NM_175334	103806.0	Mm.51116	NM_175334	ENSMUSG00000050567	Maml1	AI644666|AW743257|D930008C07Rik|Mam-1|Mam1|mKIAA0200	mastermind like transcriptional coactivator 1	protein-coding	318.5	420.5	251.5	4025.0	720.5	305.0	311.0	278.5
Merged-chr9-114861644-4	chr9	114861563	114861763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	-17511.0	NM_027294	70031.0	Mm.150064	NM_027294	ENSMUSG00000041012	Cmtm8	2700018N07Rik|AA408515|Cklfsf8	CKLF-like MARVEL transmembrane domain containing 8	protein-coding	66.5	84.5	111.5	1530.0	98.5	30.5	70.5	49.0
Merged-chr1-53785204-4	chr1	53785116	53785316	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133810)	promoter-TSS (NM_133810)	-1.0	NM_133810	98267.0	Mm.25559	NM_133810	ENSMUSG00000026094	Stk17b	3110009A03Rik|AI120141|Drak2	serine/threonine kinase 17b (apoptosis-inducing)	protein-coding	137.5	173.0	141.0	2293.5	410.0	155.5	199.5	164.0
Merged-chr3-130709330-4	chr3	130709204	130709404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025509, exon 1 of 4)	exon (NM_025509, exon 1 of 4)	140.0	NM_025509	66357.0	Mm.300697	NM_025509	ENSMUSG00000041084	Ostc	2310008M10Rik|5730557H03Rik	oligosaccharyltransferase complex subunit (non-catalytic)	protein-coding	86.5	91.5	101.0	1289.5	166.0	71.5	67.5	77.5
Merged-chr1-20951541-4	chr1	20951406	20951606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027974)	promoter-TSS (NM_027974)	-120.0	NM_027974	71877.0	Mm.29178	NM_027974	ENSMUSG00000041809	Efhc1	1700029F22Rik|mRib72-1|myoclonin1	EF-hand domain (C-terminal) containing 1	protein-coding	77.5	124.0	108.0	1505.0	32.5	21.0	31.5	25.0
Merged-chr15-76805988-4	chr15	76805885	76806085	+	820.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	L1M4|LINE|L1	12185.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	6.0	13.0	11.5	138.0	24.0	7.0	5.0	8.0
Merged-chr12-27312330-2	chr12	27312214	27312414	+	800.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	30404.0	NM_009234	20666.0	Mm.41702	NM_009234	ENSMUSG00000063632	Sox11	1110038H03Rik|6230403H02Rik|AI836553|end1	SRY (sex determining region Y)-box 11	protein-coding	12.5	21.0	5.5	260.0	6.5	0.5	0.0	0.0
Merged-chr2-45096178-3	chr2	45096083	45096283	+	599.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_149354, exon 3 of 3)	non-coding (NR_149354, exon 3 of 3)	14094.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	7.0	9.0	5.5	93.5	14.5	5.0	3.5	3.0
Merged-chr13-65176352-4	chr13	65176242	65176442	+	870.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175290)	TTS (NM_175290)	24116.0	NM_146819	258816.0	Mm.377705	NM_146819	ENSMUSG00000049806	Olfr466	MOR209-1	olfactory receptor 466	protein-coding	3.0	12.0	4.0	150.5	28.5	14.0	15.5	19.0
Merged-chr4-152447938-3	chr4	152447882	152448082	+	763.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010598, intron 1 of 15)	intron (NM_010598, intron 1 of 15)	873.0	NM_001252655	16498.0	Mm.388924	NM_010598	ENSMUSG00000028931	Kcnab2	F5|I2rf5|Kcnb3|kv-beta-2	potassium voltage-gated channel, shaker-related subfamily, beta member 2	protein-coding	7.0	10.5	12.5	129.0	6.0	6.5	5.0	7.0
Merged-chr2-32981583-3	chr2	32981507	32981707	+	889.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151460, intron 2 of 8)	CpG-8008	476.0	NR_151461	56017.0	Mm.305754	NM_019488	ENSMUSG00000026791	Slc2a8	D2Ertd44e|GLUT8|GlutX1	solute carrier family 2, (facilitated glucose transporter), member 8	protein-coding	10.0	9.5	11.0	44.5	25.0	9.0	5.5	15.0
Merged-chr18-65490636-4	chr18	65490633	65490833	+	971.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	59736.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	11.5	9.5	17.5	138.0	10.0	5.5	4.5	9.5
Merged-chr3-10025973-4	chr3	10025875	10026075	+	962.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13390.0	NM_001272098	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	19.5	13.0	13.5	344.5	82.0	21.5	34.0	21.0
Merged-chr4-134703359-5	chr4	134703262	134703462	+	894.773315	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207237, exon 1 of 12)	exon (NM_207237, exon 1 of 12)	928.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	7.0	23.5	12.0	204.5	30.5	9.5	13.5	19.5
Merged-chr3-115815660-4	chr3	115815573	115815773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72386.0	NR_027894	68161.0	Mm.392043	NR_015487	ENSMUSG00000054426	A930005H10Rik	-	RIKEN cDNA A930005H10 gene	ncRNA	18.5	28.0	26.0	415.0	69.5	16.0	27.5	30.0
Merged-chr16-89844763-4	chr16	89844661	89844861	+	961.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 12 of 27)	intron (NM_009384, intron 12 of 27)	-26409.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	20.5	14.5	16.0	231.5	45.5	9.0	19.5	23.0
Merged-chr16-90259183-4	chr16	90259080	90259280	+	921.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346799, intron 4 of 19)	intron (NM_001346799, intron 4 of 19)	25306.0	NM_001346799	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	14.5	35.5	16.5	320.5	62.0	14.5	13.0	26.0
Merged-chr7-102042399-4	chr7	102042301	102042501	+	838.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029211, intron 2 of 8)	MIR|SINE|MIR	22764.0	NM_029211	75212.0	Mm.101141	NM_029211	ENSMUSG00000070426	Rnf121	4930544L10Rik	ring finger protein 121	protein-coding	5.5	10.0	5.0	107.5	19.5	14.0	13.5	8.5
Merged-chr6-125333661-4	chr6	125333575	125333775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011324, intron 3 of 11)	intron (NM_011324, intron 3 of 11)	12335.0	NM_011324	20276.0	Mm.144114	NM_011324	ENSMUSG00000030340	Scnn1a	ENaC|SCNEA|Scnn1|mENaC	sodium channel, nonvoltage-gated 1 alpha	protein-coding	121.0	165.0	106.5	1889.0	273.5	99.0	154.5	136.5
Merged-chr8-11476956-4	chr8	11476852	11477052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126558)	promoter-TSS (NR_126558)	-977.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	139.5	246.0	264.5	2621.0	488.5	201.0	237.0	242.0
Merged-chr5-93193603-4	chr5	93193503	93193703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017367, intron 2 of 6)	intron (NM_017367, intron 2 of 6)	12892.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	39.5	55.0	42.5	684.5	68.0	34.5	22.5	49.5
Merged-chr3-107134646-4	chr3	107134560	107134760	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	33093.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	41.0	37.0	18.5	195.5	79.0	31.0	40.5	22.0
Merged-chr6-97855763-7	chr6	97855665	97855865	+	993.714294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113198, intron 1 of 9)	intron (NM_001113198, intron 1 of 9)	48707.0	NM_001113198	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	19.0	29.5	26.5	226.0	28.5	10.5	11.5	25.0
Merged-chr8-70172391-4	chr8	70172277	70172477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293797)	promoter-TSS (NM_001293797)	-31.0	NM_145597	234371.0	Mm.23488	NM_145597	ENSMUSG00000002342	Tmem161a	AI428876|BB161850|BC021367	transmembrane protein 161A	protein-coding	138.0	181.5	80.0	1518.5	242.5	93.0	99.0	78.0
Merged-chr11-69368165-4	chr11	69368062	69368262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146019, intron 1 of 39)	intron (NM_146019, intron 1 of 39)	1264.0	NM_146019	216848.0	Mm.178246	NM_146019	ENSMUSG00000018474	Chd3	2600010P09Rik|AF020312|Chd7|Prp7|Prp9-1	chromodomain helicase DNA binding protein 3	protein-coding	48.0	72.5	42.0	714.0	137.5	35.5	31.5	68.5
Merged-chr16-10441516-4	chr16	10441437	10441637	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013778, intron 1 of 6)	L1MB2|LINE|L1	5825.0	NM_001359069	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	25.0	39.0	14.5	606.5	67.5	19.5	21.5	23.0
Merged-chr19-4793990-4	chr19	4793893	4794093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290122)	promoter-TSS (NM_001290122)	16.0	NM_001290124	19653.0	Mm.426069	NM_009032	ENSMUSG00000094936	Rbm4	4921506I22Rik|Lark1|Mlark|Rbm4a|lark	RNA binding motif protein 4	protein-coding	171.5	270.5	169.0	1832.5	409.0	153.0	153.0	126.5
Merged-chr2-11513257-4	chr2	11513172	11513372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	-11182.0	NM_001177757	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	78.0	80.0	83.5	1318.5	139.5	40.0	75.5	59.0
Merged-chr13-107094749-4	chr13	107094663	107094863	+	893.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72193.0	NR_015471	100040322.0	Mm.133867	NR_015471	ENSMUSG00000071181	3830408C21Rik	-	RIKEN cDNA 3830408C21 gene	ncRNA	8.5	13.0	10.5	171.0	27.0	7.0	14.5	19.5
Merged-chr15-37961132-4	chr15	37961026	37961226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199476)	promoter-TSS (NM_199476)	-71.0	NM_199476	382985.0	Mm.24738	NM_199476	ENSMUSG00000022292	Rrm2b	p53R2	ribonucleotide reductase M2 B (TP53 inducible)	protein-coding	329.5	489.5	341.0	4347.0	737.5	247.0	388.5	322.0
Merged-chr7-123123981-4	chr7	123123858	123124058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144925)	promoter-TSS (NM_144925)	73.0	NM_144925	233833.0	Mm.102305	NM_144925	ENSMUSG00000052707	Tnrc6a	2010321I05Rik|3110054G10Rik|AW557223|CAGH26|D130023A07Rik|GW182|Tnrc6	trinucleotide repeat containing 6a	protein-coding	46.5	108.0	118.0	903.0	100.0	53.5	45.0	59.0
Merged-chr14-121937833-4	chr14	121937754	121937954	+	840.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-22080.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	10.0	13.0	18.0	69.0	36.5	6.0	27.0	9.5
Merged-chr3-14881573-4	chr3	14881475	14881675	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44D|DNA|TcMar-Tigger	-4694.0	NM_001357334	12349.0	Mm.1186	NM_009801	ENSMUSG00000027562	Car2	AI131712|CAII|Ca2|Car-2|Ltw-5|Lvtw-5	carbonic anhydrase 2	protein-coding	16.0	55.0	27.0	175.5	115.5	30.0	31.5	15.5
Merged-chr16-23612202-4	chr16	23612120	23612320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023386, intron 1 of 1)	intron (NM_023386, intron 1 of 1)	2301.0	NM_023386	67775.0	Mm.475107	NM_023386	ENSMUSG00000033355	Rtp4	5830458K16Rik|Ifrg28	receptor transporter protein 4	protein-coding	16.5	21.5	23.5	349.0	48.0	18.5	20.5	24.5
Merged-chr9-7714281-3	chr9	7714197	7714397	+	830.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18666.0	NR_126562	102722.0	Mm.334941	NR_126562	ENSMUSG00000086381	AV064505	-	expressed sequence AV064505	ncRNA	6.5	12.5	5.0	94.0	8.0	3.0	3.5	8.5
Merged-chr7-66121223-4	chr7	66121126	66121326	+	807.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 1 of 2)	intron (NM_001081163, intron 1 of 2)	11711.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	16.0	14.5	11.0	110.0	22.5	9.5	9.0	11.0
Merged-chr13-90841157-3	chr13	90841087	90841287	+	819.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64168.0	NM_001145879	435376.0	Mm.292579	NM_001145879	ENSMUSG00000078958	Atp6ap1l	EG435376	ATPase, H+ transporting, lysosomal accessory protein 1-like	protein-coding	8.0	7.5	10.0	128.0	16.5	5.0	4.5	9.0
Merged-chr7-29180691-4	chr7	29180631	29180831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026545)	promoter-TSS (NM_026545)	-58.0	NM_026545	57296.0	Mm.273152	NM_026545	ENSMUSG00000030591	Psmd8	6720456J22Rik|AA407360|AL033291|AL033322|AL033323|C76433	proteasome (prosome, macropain) 26S subunit, non-ATPase, 8	protein-coding	225.0	360.0	223.0	3010.0	477.0	227.5	214.0	178.5
Merged-chr17-56584853-4	chr17	56584749	56584949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355463)	promoter-TSS (NM_001355463)	-133.0	NM_001163300	224903.0	Mm.255066	NM_001163300	ENSMUSG00000071054	Safb	3110021E02Rik|5330423C17Rik|AU018122|D18386|E130307D12|HAP|HET|SAF-B1|SAFB1	scaffold attachment factor B	protein-coding	268.0	475.5	237.0	2716.0	762.0	324.5	326.5	314.5
Merged-chr19-40832509-3	chr19	40832414	40832614	+	993.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172839, intron 2 of 5)	MIR|SINE|MIR	1235.0	NM_172839	240665.0	Mm.309	NM_172839	ENSMUSG00000025010	Ccnj	D430039C20Rik	cyclin J	protein-coding	4.5	5.5	14.5	171.5	22.5	7.0	6.5	12.5
Merged-chr5-66005019-4	chr5	66004909	66005109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027961)	promoter-TSS (NR_027961)	-724.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	33.0	58.0	50.5	593.0	81.5	24.5	36.5	22.0
Merged-chr3-104995898-4	chr3	104995757	104995957	+	858.6458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34148.0	NM_009520	22414.0	Mm.10740	NM_009520	ENSMUSG00000027840	Wnt2b	Wnt13	wingless-type MMTV integration site family, member 2B	protein-coding	15.5	5.5	12.0	114.0	15.5	6.0	10.0	18.0
Merged-chr5-148379683-3	chr5	148379580	148379780	+	940.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007513, intron 1 of 12)	intron (NM_007513, intron 1 of 12)	13135.0	NM_001301424	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	4.5	16.5	0.5	70.0	27.5	10.5	15.0	18.5
Merged-chr15-58592888-4	chr15	58592801	58593001	+	848.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	177433.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	6.0	21.0	5.5	112.5	27.5	6.0	16.5	15.0
Merged-chr13-49252317-4	chr13	49252206	49252406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-3600.0	NM_028340	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	41.5	63.0	52.0	874.5	76.0	32.0	38.0	29.5
Merged-chr13-80862428-4	chr13	80862342	80862542	+	887.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20942.0	NR_153410	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	18.0	15.5	16.0	195.0	46.0	10.0	10.5	21.5
Merged-chr7-63989909-4	chr7	63989818	63990018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-51003.0	NM_021366	50794.0	Mm.240473	NM_021366	ENSMUSG00000052040	Klf13	0610043C13Rik|9430029L20Rik|Bteb3|FKLF-2|FKLF2|NSLP1|RFLAT-1|RFLAT1	Kruppel-like factor 13	protein-coding	28.0	36.5	25.5	497.5	144.0	59.0	87.5	58.0
Merged-chr10-3973118-4	chr10	3973016	3973216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172308)	promoter-TSS (NM_172308)	41.0	NM_172308	270685.0	Mm.184752	NM_172308	ENSMUSG00000040675	Mthfd1l	2410004L15Rik|AI647056|Fthfsdc1	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	protein-coding	71.0	151.5	79.5	1235.5	126.0	61.5	91.0	63.5
Merged-chr9-64447755-4	chr9	64447657	64447857	+	813.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 1 of 24)	intron (NM_001134399, intron 1 of 24)	62131.0	NM_001134399	214058.0	Mm.127721	NM_172522	ENSMUSG00000036466	Megf11	2410080H04Rik|D130061K05	multiple EGF-like-domains 11	protein-coding	17.5	19.5	11.5	220.5	29.0	1.0	7.5	9.5
Merged-chr10-21827628-4	chr10	21827530	21827730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54554.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	53.5	112.5	41.5	448.0	156.5	51.0	55.0	34.0
Merged-chr3-87562551-4	chr3	87562458	87562658	+	876.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36980.0	NM_001359750	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	10.5	24.0	1.5	106.0	33.0	7.5	13.0	19.5
Merged-chr17-70848004-4	chr17	70847879	70848079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164074, intron 1 of 2)	intron (NM_001164074, intron 1 of 2)	-1202.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	19.0	37.0	13.5	144.5	60.5	19.5	10.0	20.0
Merged-chr11-118270442-4	chr11	118270325	118270525	+	944.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033528, intron 13 of 20)	intron (NM_001033528, intron 13 of 20)	19819.0	NM_001033528	72344.0	Mm.232293	NM_001033528	ENSMUSG00000033909	Usp36	2700002L06Rik|mKIAA1453	ubiquitin specific peptidase 36	protein-coding	25.5	38.5	16.5	236.0	44.0	20.0	9.0	13.0
Merged-chr5-65326358-4	chr5	65326255	65326455	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011258, intron 1 of 24)	intron (NM_011258, intron 1 of 24)	9284.0	NM_011258	19687.0	Mm.148877	NM_011258	ENSMUSG00000029191	Rfc1	140kDa|Alp145|RFC140|Recc1	replication factor C (activator 1) 1	protein-coding	22.0	23.5	20.5	337.5	47.0	27.0	24.0	38.5
Merged-chr13-47362408-3	chr13	47362303	47362503	+	756.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168400.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	5.0	6.0	11.0	123.5	15.5	3.5	3.5	3.5
Merged-chr7-123025317-4	chr7	123025204	123025404	+	985.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54740.0	NM_175023	19647.0	Mm.4480	NM_011247	ENSMUSG00000030779	Rbbp6	4933422O15Rik|AI316869|BB233631|C030034J04Rik|C77662|P2P-R|PACT	retinoblastoma binding protein 6, ubiquitin ligase	protein-coding	19.5	26.0	13.5	306.0	58.5	19.5	27.0	27.0
Merged-chr10-127665395-6	chr10	127665267	127665467	+	891.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008668, intron 1 of 6)	intron (NM_008668, intron 1 of 6)	1336.0	NM_001122895	17937.0	Mm.336898	NM_008668	ENSMUSG00000025402	Nab2	AI451907	Ngfi-A binding protein 2	protein-coding	20.5	17.5	14.0	162.0	34.5	13.5	16.0	12.5
Merged-chr18-9494508-4	chr18	9494429	9494629	+	848.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44375.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	12.5	14.0	13.0	269.0	26.0	15.0	4.5	7.0
Merged-chr9-99243364-4	chr9	99243262	99243462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023873)	promoter-TSS (NM_023873)	21.0	NM_023873	68121.0	Mm.288739	NM_023873	ENSMUSG00000056267	Cep70	6720484E09Rik|Bite|C030018L16Rik	centrosomal protein 70	protein-coding	201.0	250.5	118.0	2368.5	498.5	168.0	217.0	171.0
Merged-chr5-118633598-2	chr5	118633498	118633698	+	911.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347445, intron 2 of 30)	intron (NM_001347445, intron 2 of 30)	72879.0	NM_172424	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	7.5	7.0	10.5	261.5	20.5	2.5	8.5	9.0
Merged-chr1-36273493-4	chr1	36273396	36273596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153408)	promoter-TSS (NM_153408)	-71.0	NM_153408	214854.0	Mm.389110	NM_153408	ENSMUSG00000047180	Neurl3	2010300P06Rik|Lincr	neuralized E3 ubiquitin protein ligase 3	protein-coding	193.5	289.0	193.0	2371.5	450.0	191.0	226.0	183.0
Merged-chr17-21909690-4	chr17	21909589	21909789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001256493, exon 1 of 5)	5' UTR (NM_001256493, exon 1 of 5)	237.0	NM_001256493	70081.0	Mm.245648	NM_001256493	ENSMUSG00000078546	Zfp995	2210404O09Rik	zinc finger protein 995	protein-coding	55.5	59.5	44.5	527.5	154.0	57.0	73.5	86.5
Merged-chr18-53179003-4	chr18	53178976	53179176	+	609.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357463, intron 1 of 15)	B1_Mur4|SINE|Alu	2784.0	NM_026386	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	5.0	5.0	13.5	94.5	14.0	3.0	10.0	14.5
Merged-chr7-12910369-4	chr7	12910278	12910478	+	965.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11933.0	NM_009095	20103.0	Mm.5291	NM_009095	ENSMUSG00000012848	Rps5	AA617411	ribosomal protein S5	protein-coding	32.0	16.0	14.5	447.5	63.0	17.0	34.5	24.5
Merged-chr12-110598443-6	chr12	110598307	110598507	+	788.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2988.0	NM_030238	13424.0	Mm.181430	NM_030238	ENSMUSG00000018707	Dync1h1	9930018I23Rik|AI894280|DHC1|DHC1a|DNCL|Dnchc1|Dnec1|Dnecl|Loa|MAP1C|P22|Swl|mKIAA0325	dynein cytoplasmic 1 heavy chain 1	protein-coding	4.5	8.0	8.0	207.0	28.5	9.0	6.5	15.0
Merged-chr14-120279075-4	chr14	120278971	120279171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360380, intron 1 of 7)	intron (NM_001360380, intron 1 of 7)	3402.0	NM_001360380	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	55.5	64.5	60.0	921.0	101.0	47.5	37.5	50.0
Merged-chr11-58307737-4	chr11	58307600	58307800	+	953.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_182996, exon 2 of 12)	exon (NM_182996, exon 2 of 12)	631.0	NM_001040686	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	15.5	11.0	29.0	205.0	47.0	13.0	10.0	21.5
Merged-chr6-124262862-3	chr6	124262771	124262971	+	936.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31087.0	NM_001104642	232367.0	Mm.469872	NM_001104642	ENSMUSG00000072778	Vmn2r27	EG232367	vomeronasal 2, receptor27	protein-coding	2.0	11.0	13.5	175.5	26.0	5.0	10.0	20.5
Merged-chr8-45345204-4	chr8	45345105	45345305	+	907.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153535, intron 8 of 13)	intron (NM_153535, intron 8 of 13)	-12009.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	18.0	14.5	16.5	307.5	25.0	18.5	14.5	18.0
Merged-chr7-16902112-1	chr7	16902012	16902212	+	819.25	f0_balb.idr	Intergenic	Intergenic	-4378.0	NM_008967	19222.0	Mm.287572	NM_008967	ENSMUSG00000043017	Ptgir	IP|PGI2	prostaglandin I receptor (IP)	protein-coding	9.5	10.0	13.0	135.5	5.5	7.0	6.5	8.0
Merged-chr7-128019397-1	chr7	128019297	128019497	+	632.0	f0_balb.idr	Intergenic	Lx8|LINE|L1	15019.0	NM_001079932	434246.0	Mm.389924	NM_001079932	ENSMUSG00000042828	Trim72	BC067209|MG53	tripartite motif-containing 72	protein-coding	9.0	3.0	5.5	97.0	8.0	4.5	6.5	9.0
Merged-chr17-33843201-4	chr17	33843104	33843304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305169)	promoter-TSS (NM_001305169)	113.0	NM_019421	54219.0	Mm.11175	NM_019421	ENSMUSG00000002308	Cd320	425O18-1|8D6|D17Ertd716e|NG29|TCblR|VLDL	CD320 antigen	protein-coding	38.5	90.0	49.5	633.5	122.5	37.0	40.0	52.0
Merged-chr18-32184238-4	chr18	32184136	32184336	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011946, intron 1 of 16)	Lx9|LINE|L1	21147.0	NM_011946	26405.0	Mm.211762	NM_011946	ENSMUSG00000024383	Map3k2	9630061B06Rik|AI585793|Mekk2|Mekk2b	mitogen-activated protein kinase kinase kinase 2	protein-coding	17.5	24.0	30.5	449.0	37.0	10.5	15.0	10.0
Merged-chr2-28619089-3	chr2	28618986	28619186	+	954.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160406, intron 1 of 6)	intron (NM_001160406, intron 1 of 6)	2896.0	NM_008114	14582.0	Mm.373385	NM_008114	ENSMUSG00000026815	Gfi1b	Gfi-1B	growth factor independent 1B	protein-coding	9.0	29.0	11.0	128.5	17.5	5.5	6.5	4.0
Merged-chr18-34247577-4	chr18	34247476	34247676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360979)	promoter-TSS (NM_001360979)	-118.0	NM_001360980	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	30.0	60.5	58.0	457.0	99.5	42.5	49.0	35.0
Merged-chr5-143180777-4	chr5	143180643	143180843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045482)	promoter-TSS (NM_001045482)	32.0	NM_001359235	57782.0	Mm.320419	NM_021326	ENSMUSG00000061898	Rbak	-	RB-associated KRAB zinc finger	protein-coding	55.5	143.5	78.5	982.0	214.5	63.5	67.5	73.0
Merged-chr1-97705497-3	chr1	97705387	97705587	+	772.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_173760)	TTS (NM_173760)	-43469.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	9.0	5.5	8.0	127.0	0.0	2.5	2.5	6.5
Merged-chr7-102567964-3	chr7	102567863	102568063	+	766.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2481.0	NM_009277	20821.0	Mm.321227	NM_009277	ENSMUSG00000030966	Trim21	Ro52|Ssa1	tripartite motif-containing 21	protein-coding	18.0	13.0	8.0	207.0	16.5	5.0	10.0	7.5
Merged-chr16-35056965-4	chr16	35056799	35056999	+	844.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023587, intron 3 of 6)	intron (NM_023587, intron 3 of 6)	34478.0	NM_023587	70757.0	Mm.27286	NM_023587	ENSMUSG00000035376	Hacd2	6330408J20Rik|AI255777|AI481689|Hcad2|Ptplb	3-hydroxyacyl-CoA dehydratase 2	protein-coding	14.0	13.5	6.5	259.5	22.5	2.5	11.0	5.0
Merged-chr8-95887863-2	chr8	95887739	95887939	+	638.833374	f0_balb.idr|f0_c57.idr	intron (NM_010325, intron 1 of 9)	intron (NM_010325, intron 1 of 9)	526.0	NM_010325	14719.0	Mm.230169	NM_010325	ENSMUSG00000031672	Got2	AL022787|FABP-pm|Got-2|Kyat4|mAspAT	glutamatic-oxaloacetic transaminase 2, mitochondrial	protein-coding	10.5	14.0	21.5	95.0	29.0	2.5	11.0	14.0
Merged-chr11-72946155-3	chr11	72946059	72946259	+	837.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15010.0	NM_016745	53313.0	Mm.6306	NM_016745	ENSMUSG00000020788	Atp2a3	SERCA3b|Serca3	ATPase, Ca++ transporting, ubiquitous	protein-coding	21.5	18.0	12.0	97.0	17.5	9.0	9.0	5.0
Merged-chr2-71581052-7	chr2	71580966	71581166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	intron (NR_039557, intron 2 of 3).2	-34312.0	NM_010054	13392.0	Mm.3896	NM_010054	ENSMUSG00000023391	Dlx2	AW121999|Dlx-2|Tes-1	distal-less homeobox 2	protein-coding	23.0	27.5	21.5	412.5	27.0	15.0	25.0	25.5
Merged-chr17-33897288-4	chr17	33897211	33897411	+	835.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-6678.0	NM_001195298	100502766.0	Mm.335713	NM_001195298	ENSMUSG00000079553	Kifc1	100042970|Gm4137|HSET|KNSL2|Kifc5a|Knsl2a|Tctex-7|Tctex-7A|Tctex7|Tctex7a	kinesin family member C1	protein-coding	9.0	19.0	7.0	90.0	29.5	16.0	9.0	21.5
Merged-chr1-157458538-4	chr1	157458495	157458695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356419)	promoter-TSS (NM_001356419)	27.0	NM_001356419	226527.0	Mm.215960	NM_001033284	ENSMUSG00000033488	Cryzl2	-	crystallin zeta like 2	protein-coding	31.0	47.0	28.0	435.0	69.5	20.5	66.0	35.5
Merged-chr9-62344598-8	chr9	62344469	62344669	+	910.444641	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009672, intron 1 of 6)	CpG	3226.0	NM_009672	11737.0	Mm.269088	NM_009672	ENSMUSG00000032249	Anp32a	Anp32|I1PP2A|LANP|PHAP1|W91701|pp32	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	protein-coding	9.5	2.0	15.0	92.5	17.5	7.5	5.5	18.0
Merged-chr14-21101907-1	chr14	21101807	21102007	+	756.599976	f0_balb.idr	intron (NM_134079, intron 2 of 10)	intron (NM_134079, intron 2 of 10)	25755.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	18.0	17.5	7.0	155.5	12.5	2.0	9.5	4.5
Merged-chr7-19503683-4	chr7	19503580	19503780	+	942.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4651.0	NM_177692	232946.0	Mm.64557	NM_177692	ENSMUSG00000057667	Bloc1s3	BC043666|Blos3|E230011O18|rp	biogenesis of lysosomal organelles complex-1, subunit 3	protein-coding	20.0	32.5	9.5	79.5	59.0	23.5	11.0	6.5
Merged-chr2-27716515-4	chr2	27716406	27716606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290482, intron 1 of 9)	intron (NM_001290482, intron 1 of 9)	5923.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	67.0	41.0	102.5	1294.5	88.0	31.0	55.5	48.5
Merged-chr11-55468764-4	chr11	55468643	55468843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1009.0	NM_013716	27041.0	Mm.39631	NM_013716	ENSMUSG00000018583	G3bp1	AI849976|B430204O07|C87777|G3bp|mKIAA4115	GTPase activating protein (SH3 domain) binding protein 1	protein-coding	43.5	69.0	34.5	475.0	121.0	64.0	49.5	49.5
Merged-chr10-118796100-4	chr10	118795980	118796180	+	871.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72823.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	2.0	19.0	10.0	168.5	14.5	7.5	13.0	10.0
Merged-chr11-116619451-6	chr11	116619361	116619561	+	834.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	4791.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	5.5	15.0	24.5	110.0	21.5	6.0	10.5	11.0
Merged-chr8-70816900-4	chr8	70816771	70816971	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008353, intron 11 of 15)	CpG	8422.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	62.5	97.0	47.0	808.5	68.0	22.0	11.0	16.5
Merged-chr5-136953160-4	chr5	136953074	136953274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163243)	promoter-TSS (NM_001163243)	-101.0	NM_001163243	66437.0	Mm.25849	NM_025562	ENSMUSG00000019054	Fis1	2010003O14Rik|Ttc11	fission, mitochondrial 1	protein-coding	139.5	216.5	97.5	1265.5	253.5	116.0	112.5	83.0
Merged-chr2-180954354-1	chr2	180954254	180954454	+	601.0	f0_balb.idr	intron (NM_001141933, intron 1 of 5)	intron (NM_001141933, intron 1 of 5)	345.0	NM_001141933	58237.0	Mm.40361	NM_021426	ENSMUSG00000027574	Nkain4	AB030182|C030019F02Rik	Na+/K+ transporting ATPase interacting 4	protein-coding	6.0	7.0	4.5	33.0	6.0	1.5	4.5	3.5
Merged-chr16-44760358-4	chr16	44760258	44760458	+	952.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5378.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	26.0	26.5	13.5	338.0	27.5	6.5	13.5	16.0
Merged-chr13-30987899-4	chr13	30987783	30987983	+	971.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13836.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	16.0	49.0	38.5	617.5	43.0	19.0	21.0	23.0
Merged-chr10-30550215-3	chr10	30550108	30550308	+	844.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358806, intron 9 of 10)	L1MB7|LINE|L1	50492.0	NM_028604	73681.0	Mm.294503	NM_028604	ENSMUSG00000019792	Trmt11	2410075D05Rik|3110045I18Rik|AW213713	tRNA methyltransferase 11	protein-coding	7.0	9.5	19.0	93.0	30.5	7.0	7.5	3.0
Merged-chr2-153081347-4	chr2	153081235	153081435	+	849.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145536, exon 9 of 9)	3' UTR (NM_145536, exon 9 of 9)	15380.0	NM_145536	228788.0	Mm.299979	NM_145536	ENSMUSG00000027474	Ccm2l	-	cerebral cavernous malformation 2-like	protein-coding	8.0	14.0	9.5	99.5	23.5	4.0	8.0	11.0
Merged-chr4-135856569-4	chr4	135856483	135856683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080387, intron 1 of 5)	CpG	512.0	NM_010178	14105.0	Mm.10229	NM_010178	ENSMUSG00000028676	Srsf10	FUSIP2|Fusip1|NSSR1|NSSR2|Nssr|SRrp40|Sfrs13a|Srsf13a|TASR|TASR1|TASR2	serine/arginine-rich splicing factor 10	protein-coding	38.5	55.0	26.0	359.0	94.0	34.0	30.0	36.0
Merged-chr5-72224641-4	chr5	72224562	72224762	+	954.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_003966, intron 1 of 22)	intron (NR_003966, intron 1 of 22)	21319.0	NM_153389	231287.0	Mm.32775	NM_153389	ENSMUSG00000046808	Atp10d	9830145H18Rik|ATPVD|D5Buc24e	ATPase, class V, type 10D	protein-coding	10.0	22.0	18.0	236.0	23.5	4.5	16.5	10.5
Merged-chr9-54566961-4	chr9	54566861	54567061	+	765.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6882.0	NM_019686	56506.0	Mm.42192	NM_019686	ENSMUSG00000037493	Cib2	2810434I23Rik|AI449053	calcium and integrin binding family member 2	protein-coding	10.0	10.0	9.5	167.5	26.0	16.5	17.0	6.0
Merged-chr1-118569657-1	chr1	118569557	118569757	+	695.0	f0_balb.idr	intron (NM_001359330, intron 33 of 39)	ORR1D2|LTR|ERVL-MaLR	-58288.0	NM_023755	81879.0	Mm.24621	NM_023755	ENSMUSG00000026380	Tfcp2l1	1810030F05Rik|4932442M07Rik|AA575098|Cp2l1|Crtr-1|D930018N21Rik|LBP-9|Tcfcp2l1	transcription factor CP2-like 1	protein-coding	11.5	7.0	6.5	105.5	5.0	0.5	4.5	9.0
Merged-chr6-124911735-3	chr6	124911654	124911854	+	738.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008479)	promoter-TSS (NM_008479)	-49.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	6.5	7.5	5.5	138.5	9.5	5.5	3.5	6.5
Merged-chr11-118148776-9	chr11	118148742	118148942	+	966.0793460000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19623.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	19.5	12.5	10.0	368.0	22.0	6.5	9.5	18.0
Merged-chr2-28441006-4	chr2	28440900	28441100	+	829.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GTTTG)n|Simple_repeat|Simple_repeat	-6941.0	NM_001005420	241289.0	Mm.330095	NM_001005420	ENSMUSG00000035829	Ppp1r26	Gm347|Kiaa0649|mKIAA0649	protein phosphatase 1, regulatory subunit 26	protein-coding	8.5	10.0	6.0	84.0	34.5	8.0	5.0	13.0
Merged-chr9-116145399-4	chr9	116145296	116145496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	29967.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	62.5	89.0	69.0	1340.5	116.5	33.5	47.0	44.0
Merged-chr12-73681389-4	chr12	73681278	73681478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	96582.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	64.0	138.5	71.0	1118.5	159.5	33.5	46.0	74.0
Merged-chr12-86833318-3	chr12	86833228	86833428	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	51486.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	6.5	5.5	4.5	62.5	3.0	4.0	3.0	4.5
Merged-chr7-81851803-3	chr7	81851714	81851914	+	763.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7187.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	7.0	6.0	7.0	62.5	7.5	9.5	7.5	8.5
Merged-chr8-24386649-3	chr8	24386547	24386747	+	870.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52299.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	6.5	11.0	6.5	64.0	6.5	3.0	4.5	9.0
Merged-chr14-54757236-4	chr14	54757132	54757332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 3 of 10)	intron (NM_016972, intron 3 of 10)	24654.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	23.5	27.0	35.5	481.0	128.5	34.0	82.0	69.0
Merged-chr6-34875485-4	chr6	34875395	34875595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_197986)	TTS (NM_197986)	2570.0	NM_199145	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	50.0	68.5	93.5	789.0	109.5	39.5	38.5	62.0
Merged-chr4-46450990-4	chr4	46450889	46451089	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130889)	promoter-TSS (NM_130889)	63.0	NM_130889	67628.0	Mm.263913	NM_130889	ENSMUSG00000028333	Anp32b	2410015B15Rik|PAL31|PHAPI2a|Ssp29	acidic (leucine-rich) nuclear phosphoprotein 32 family, member B	protein-coding	153.0	142.0	131.0	1695.0	354.0	158.0	230.0	157.5
Merged-chr6-125010185-4	chr6	125010059	125010259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347452)	promoter-TSS (NM_001347452)	-222.0	NM_001347452	269800.0	Mm.108677	NM_175557	ENSMUSG00000038346	Zfp384	BB163993|C130073D16Rik|Ciz|NP|Nmp4	zinc finger protein 384	protein-coding	28.0	46.0	40.0	427.5	126.0	29.5	38.5	34.5
Merged-chr4-94557244-1	chr4	94557144	94557344	+	641.0	f1_c57bl6.idr	promoter-TSS (NM_026368)	promoter-TSS (NM_026368)	-448.0	NM_026368	67770.0	Mm.35170	NM_026368	ENSMUSG00000028578	Caap1	5830433M19Rik|AI536248|CAAP	caspase activity and apoptosis inhibitor 1	protein-coding	6.5	9.5	3.0	74.5	10.5	5.0	5.0	6.5
Merged-chr5-5481902-3	chr5	5481810	5482010	+	895.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2767.0	NM_001200025	381716.0	Mm.276086	NM_001200025	ENSMUSG00000079666	1700015F17Rik	Gm1686	RIKEN cDNA 1700015F17 gene	protein-coding	7.5	5.5	14.5	104.0	11.0	3.0	4.0	3.5
Merged-chr15-36782200-4	chr15	36782100	36782300	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356569, intron 3 of 6)	PB1D11|SINE|Alu	8732.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	15.5	15.5	7.0	177.0	36.5	7.0	9.0	20.5
Merged-chr1-95355385-4	chr1	95355279	95355479	+	795.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	41751.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	8.0	8.5	9.0	268.0	29.5	12.0	9.0	12.0
Merged-chr6-30211000-4	chr6	30210903	30211103	+	868.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001169577)	TTS (NM_001169577)	32800.0	NM_001169577	22214.0	Mm.332967	NM_009459	ENSMUSG00000039159	Ube2h	1500009C23Rik|AI181839|AI326965|AI462483|AW227540|E2-20K|Gid3|N28148|Ubc8	ubiquitin-conjugating enzyme E2H	protein-coding	5.5	7.0	6.5	147.0	43.0	7.5	24.0	13.5
Merged-chr7-30472554-2	chr7	30472457	30472657	+	639.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_019459, intron 20 of 29)	B3|SINE|B2	-6966.0	NR_004443	445267.0	Mm.398140	NR_004443	ENSMUSG00000087009	Nphs1os	Nphs1as	nephrosis 1 homolog, nephrin, opposite strand	ncRNA	8.0	7.0	6.0	53.0	4.0	3.5	2.5	3.0
Merged-chr6-87455691-2	chr6	87455591	87455791	+	627.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26697.0	NM_009756	12154.0	Mm.483321	NM_009756	ENSMUSG00000030046	Bmp10	b2b2711Clo	bone morphogenetic protein 10	protein-coding	9.0	6.5	5.0	19.5	10.5	0.5	1.5	8.0
Merged-chr10-14047102-2	chr10	14047008	14047208	+	732.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	B3A|SINE|B2	80729.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	0.5	3.0	3.0	27.0	10.0	7.5	5.0	6.0
Merged-chr4-134920340-4	chr4	134920249	134920449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3276.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	99.5	185.5	103.5	1583.5	228.0	103.5	109.0	111.0
Merged-chr8-79372864-7	chr8	79372792	79372992	+	970.095215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	26576.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	17.5	17.0	13.0	273.0	44.5	9.5	13.5	21.5
Merged-chr2-117444501-3	chr2	117444402	117444602	+	760.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-101625.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	8.0	8.0	9.0	147.5	7.5	6.0	12.0	13.0
Merged-chr2-30624092-4	chr2	30624001	30624201	+	836.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29057.0	NM_030137	78617.0	Mm.40413	NM_030137	ENSMUSG00000047363	Cstad	9530039B02Rik	CSA-conditional, T cell activation-dependent protein	protein-coding	6.5	19.5	8.0	151.5	23.0	4.0	12.5	5.0
Merged-chr1-181017487-4	chr1	181017394	181017594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312918)	promoter-TSS (NM_001312918)	75.0	NM_001312918	13849.0	Mm.9075	NM_010145	ENSMUSG00000038776	Ephx1	EH|Eph-1|Eph1|Epxh1|mEH	epoxide hydrolase 1, microsomal	protein-coding	25.5	58.5	50.0	419.0	81.5	26.5	31.5	31.5
Merged-chr19-55586217-4	chr19	55586126	55586326	+	978.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360431, intron 8 of 8)	Tigger19a|DNA|TcMar-Tigger	115978.0	NR_045318	77594.0	Mm.329924	NR_045318	ENSMUSG00000097632	4930552P12Rik	-	RIKEN cDNA 4930552P12 gene	ncRNA	25.0	32.5	42.0	478.0	51.0	16.5	25.0	19.5
Merged-chr16-32644356-3	chr16	32644266	32644466	+	863.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016788)	promoter-TSS (NM_016788)	-277.0	NM_001110147	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	13.5	10.0	9.5	173.0	22.5	4.0	6.5	7.5
Merged-chr12-100538637-4	chr12	100538531	100538731	+	819.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17809.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	8.5	18.0	4.5	120.0	19.5	18.0	8.5	13.0
Merged-chr2-33429523-4	chr2	33429387	33429587	+	836.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085507, intron 1 of 2)	L2a|LINE|L2	1837.0	NM_001085507	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	9.0	9.0	10.5	186.5	28.0	0.5	9.0	11.0
Merged-chr18-37928040-4	chr18	37927931	37928131	+	884.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305981, intron 1 of 28)	MIR3|SINE|MIR	7445.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	13.5	22.0	13.5	210.0	34.5	26.5	21.5	31.5
Merged-chr4-7313380-3	chr4	7313284	7313484	+	835.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-247304.0	NR_040645	71510.0	Mm.410775	NR_040645	ENSMUSG00000086070	8430436N08Rik	-	RIKEN cDNA 8430436N08 gene	ncRNA	12.0	6.0	7.0	214.0	6.0	5.0	14.5	8.0
Merged-chr13-29986210-4	chr13	29986093	29986293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010093)	promoter-TSS (NM_010093)	-130.0	NM_010093	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	387.5	586.5	405.5	6217.5	1130.5	473.0	618.5	408.0
Merged-chr12-80885519-4	chr12	80885403	80885603	+	906.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38944.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	8.5	29.0	20.5	84.5	45.0	13.5	9.0	13.5
Merged-chr11-28365561-3	chr11	28365482	28365682	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	218742.0	NM_001166661	216613.0	Mm.93759	NM_181577	ENSMUSG00000032878	Ccdc85a	-	coiled-coil domain containing 85A	protein-coding	93.5	114.0	101.5	1643.5	29.0	5.5	4.0	5.5
Merged-chr4-70398294-4	chr4	70398196	70398396	+	792.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145990, intron 3 of 36)	RLTR16B_MM|LTR|ERVK	12139.0	NM_001313762	214444.0	Mm.370777	NM_145990	ENSMUSG00000039298	Cdk5rap2	2900018K03Rik|an|mKIAA1633	CDK5 regulatory subunit associated protein 2	protein-coding	12.0	5.0	6.5	83.5	29.0	8.0	17.5	13.0
Merged-chr18-52571016-4	chr18	52570915	52571115	+	992.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41148.0	NM_001286182	16948.0	Mm.172	NM_010728	ENSMUSG00000024529	Lox	AI893619|TSC-160|rrg	lysyl oxidase	protein-coding	11.5	25.5	14.0	146.0	40.5	25.5	37.0	10.5
Merged-chr8-120599736-4	chr8	120599637	120599837	+	856.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-10662.0	NM_178856	272551.0	Mm.275910	NM_178856	ENSMUSG00000031821	Gins2	2210013I18Rik|4833427B12Rik|AI323585|Pfs2	GINS complex subunit 2 (Psf2 homolog)	protein-coding	12.5	21.0	2.0	116.0	47.0	16.5	12.5	18.0
Merged-chr10-87860284-4	chr10	87860198	87860398	+	867.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111276)	promoter-TSS (NM_001111276)	-813.0	NM_001111274	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	9.0	9.5	5.0	91.5	24.0	10.5	8.5	19.5
Merged-chr2-4504831-4	chr2	4504722	4504922	+	874.208374	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	intron (NM_001177843, intron 5 of 23)	-54932.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	2.0	7.0	5.0	21.0	18.5	6.5	14.5	16.5
Merged-chr11-96977332-3	chr11	96977271	96977471	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030220, intron 1 of 6)	CpG	317.0	NM_030220	78912.0	Mm.491183	NM_030220	ENSMUSG00000018678	Sp2	4930480I16Rik|mKIAA0048	Sp2 transcription factor	protein-coding	45.0	63.0	63.0	629.0	146.0	61.5	66.0	72.5
Merged-chr1-95381214-4	chr1	95381111	95381311	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	UCON29|DNA|PiggyBac?	67583.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	13.0	26.5	37.5	454.5	52.0	13.5	21.5	14.5
Merged-chr8-84659347-2	chr8	84659232	84659432	+	744.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3520.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	9.5	11.0	5.0	51.0	13.5	8.0	3.5	4.5
Merged-chr6-124542613-4	chr6	124542501	124542701	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001097617)	promoter-TSS (NM_001097617)	-242.0	NM_001097617	50908.0	Mm.219527	NM_144938	ENSMUSG00000038521	C1s1	AA959438|AI255193|AI327365|C1s|C1sa	complement component 1, s subcomponent 1	protein-coding	34.0	75.5	29.5	241.0	64.0	35.0	20.5	13.5
Merged-chr7-30431964-4	chr7	30431856	30432056	+	807.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER91B|DNA|hAT-Tip100	8681.0	NM_172142	243910.0	Mm.386878	NM_172142	ENSMUSG00000036931	Nfkbid	I-kappa-B-delta|IkappaBNS|ikB-delta	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, delta	protein-coding	11.0	33.0	7.5	88.5	44.5	10.5	9.5	6.0
Merged-chr7-73537877-4	chr7	73537780	73537980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081345, intron 2 of 38)	CpG	3866.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	357.5	560.5	428.5	4129.0	937.0	418.0	376.5	376.5
Merged-chr7-100494721-4	chr7	100494640	100494840	+	990.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011671, intron 2 of 7)	intron (NM_011671, intron 2 of 7)	1382.0	NM_011671	22228.0	Mm.171378	NM_011671	ENSMUSG00000033685	Ucp2	Slc25a8|UCP 2|UCPH	uncoupling protein 2 (mitochondrial, proton carrier)	protein-coding	33.0	36.5	27.5	370.0	37.0	19.0	16.5	28.5
Merged-chr10-77282986-4	chr10	77282893	77283093	+	879.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23693.0	NM_030262	80294.0	Mm.203556	NM_030262	ENSMUSG00000020260	Pofut2	2310011G23Rik|AI256847|BC003494|C21orf80|FUT13	protein O-fucosyltransferase 2	protein-coding	7.0	15.0	2.0	188.5	34.5	11.5	9.5	9.5
Merged-chr16-92693354-4	chr16	92693254	92693454	+	861.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 3 of 6)	intron (NM_001111022, intron 3 of 6)	3975.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	11.0	13.0	1.5	223.0	24.0	6.5	8.5	12.5
Merged-chr8-125727496-3	chr8	125727403	125727603	+	714.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6700.0	NM_025636	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	9.5	7.0	18.5	109.5	18.5	10.0	4.5	6.5
Merged-chr12-3812813-4	chr12	3812714	3812914	+	942.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	5654.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	12.0	13.5	23.5	372.0	19.5	13.5	20.5	20.5
Merged-chr1-155121576-1	chr1	155121476	155121676	+	557.0	f0_c57.idr	Intergenic	L1_Mus4|LINE|L1	-21940.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	5.0	17.0	1.5	2.0	20.0	5.5	8.5	5.5
Merged-chr1-119913201-4	chr1	119913120	119913320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175106)	promoter-TSS (NM_175106)	-52.0	NM_175106	66343.0	Mm.49942	NM_175106	ENSMUSG00000036975	Tmem177	2300008B03Rik	transmembrane protein 177	protein-coding	111.5	175.5	122.5	2312.0	317.0	110.5	142.0	158.5
Merged-chr19-4065104-4	chr19	4065009	4065209	+	963.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-5662.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	25.0	38.5	7.0	66.0	77.0	28.5	11.5	6.0
Merged-chr9-20459922-4	chr9	20459788	20459988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011753, intron 1 of 9)	CpG	272.0	NM_011753	22688.0	Mm.107441	NM_011753	ENSMUSG00000063108	Zfp26	5033428C05Rik|KRAB15|Zfp-26|Zfp70|Zfp81-rs1|mKIAA4196|mkr-3|mszf14|mszf52	zinc finger protein 26	protein-coding	19.0	41.0	41.0	415.5	46.0	25.5	24.0	21.0
Merged-chr7-68282790-4	chr7	68282682	68282882	+	855.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013811, intron 1 of 8)	intron (NM_001013811, intron 1 of 8)	-6188.0	NR_040340	100504026.0	Mm.426764	NR_040340	ENSMUSG00000086628	Gm16157	-	predicted gene 16157	ncRNA	11.5	20.0	16.0	369.0	25.0	7.5	19.5	8.5
Merged-chr10-10321341-4	chr10	10321231	10321431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	150983.0	NM_001127353	215772.0	Mm.246573	NM_172547	ENSMUSG00000050994	Adgb	9130014G24Rik	androglobin	protein-coding	124.0	229.0	98.0	1931.5	270.5	92.0	121.0	74.0
Merged-chr11-63131494-4	chr11	63131378	63131578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008885)	promoter-TSS (NM_008885)	21.0	NM_001302255	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	70.0	122.0	58.5	1190.0	155.0	62.5	151.5	100.0
Merged-chr1-180835384-4	chr1	180835292	180835492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15759.0	NM_145943	208768.0	Mm.272625	NM_145943	ENSMUSG00000038806	Sde2	-	SDE2 telomere maintenance homolog (S. pombe)	protein-coding	61.5	95.0	65.0	1219.5	185.0	55.0	74.5	53.5
Merged-chr19-32712775-4	chr19	32712688	32712888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026487)	promoter-TSS (NM_026487)	-490.0	NM_026487	67979.0	Mm.27123	NM_026487	ENSMUSG00000013662	Atad1	4921525H23Rik|AW107648|Thorase	ATPase family, AAA domain containing 1	protein-coding	60.0	82.5	38.0	760.0	137.5	58.5	66.0	29.5
Merged-chr12-36360262-4	chr12	36360161	36360361	+	950.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-21189.0	NM_001289504	75847.0	Mm.261764	NM_178629	ENSMUSG00000043153	Ispd	4930579E17Rik|AV040780	isoprenoid synthase domain containing	protein-coding	5.5	6.5	21.5	468.0	59.5	11.5	26.5	24.0
Merged-chr1-89450226-4	chr1	89450133	89450333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4578.0	NM_178119	347722.0	Mm.291135	NM_178119	ENSMUSG00000055013	Agap1	Centg2|Ggap1|R75364|mKIAA1099	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	protein-coding	58.0	87.0	105.0	1692.0	148.5	23.5	36.5	22.0
Merged-chr4-55591661-4	chr4	55591554	55591754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6BA|LTR|ERVK	-59179.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	8.5	30.5	17.0	255.0	60.5	10.0	24.5	20.5
Merged-chr1-134494122-4	chr1	134493996	134494196	+	836.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145510)	promoter-TSS (NM_145510)	-564.0	NM_145510	98710.0	Mm.198119	NM_145510	ENSMUSG00000042229	Rabif	AI842864|AW549708|E130318E12Rik|MSS4|RASGFR3	RAB interacting factor	protein-coding	5.0	14.0	2.5	123.0	17.5	5.0	11.0	9.5
Merged-chr16-28929990-3	chr16	28929897	28930097	+	828.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177718)	promoter-TSS (NM_177718)	-299.0	NM_177718	239796.0	Mm.155887	NM_177718	ENSMUSG00000051065	Mb21d2	1600021P15Rik|A430031N04|C87006	Mab-21 domain containing 2	protein-coding	5.5	11.0	6.0	144.5	8.5	0.0	5.5	4.5
Merged-chr1-43447001-4	chr1	43446915	43447115	+	847.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 1 of 4)	intron (NM_010879, intron 1 of 4)	1264.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	4.5	10.5	9.0	119.0	19.5	5.0	8.0	7.0
Merged-chr2-118660150-4	chr2	118660052	118660252	+	675.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3425.0	NM_001033254	214230.0	Mm.241857	NM_001033254	ENSMUSG00000074923	Pak6	4732456M09	p21 (RAC1) activated kinase 6	protein-coding	10.5	19.5	7.5	134.0	20.0	7.5	2.0	4.5
Merged-chr8-79398090-4	chr8	79397995	79398195	+	832.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 1 of 6)	intron (NM_008539, intron 1 of 6)	1373.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	14.5	11.0	11.5	197.5	17.5	7.5	9.5	10.5
Merged-chr15-89078412-4	chr15	89078309	89078509	+	996.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026485, intron 1 of 9)	intron (NM_026485, intron 1 of 9)	2345.0	NM_001355617	67976.0	Mm.284710	NM_026485	ENSMUSG00000015363	Trabd	5730502D15Rik|AL023039	TraB domain containing	protein-coding	15.5	21.5	16.0	218.5	59.5	23.5	31.5	17.0
Merged-chr15-27621089-3	chr15	27621001	27621201	+	880.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013792, intron 2 of 6)	intron (NM_001013792, intron 2 of 6)	9592.0	NM_001013792	432940.0	Mm.309164	NM_001013792	ENSMUSG00000046034	Otulin	C79097|Fam105b|m3Sapc|m7-1Sapc	OTU deubiquitinase with linear linkage specificity	protein-coding	12.5	10.0	12.0	278.5	18.0	3.5	12.0	7.5
Merged-chr5-93268163-4	chr5	93268051	93268251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007635, intron 1 of 7)	CpG	578.0	NM_007635	12452.0	Mm.3527	NM_007635	ENSMUSG00000029385	Ccng2	-	cyclin G2	protein-coding	41.5	143.5	66.5	671.0	154.5	68.5	55.0	54.5
Merged-chr17-29111494-3	chr17	29111393	29111593	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17724.0	NM_007669	12575.0	Mm.195663	NM_007669	ENSMUSG00000023067	Cdkn1a	CAP20|CDKI|CIP1|Cdkn1|P21|SDI1|Waf1|mda6|p21Cip1|p21WAF	cyclin-dependent kinase inhibitor 1A (P21)	protein-coding	46.0	69.5	45.0	626.0	7.0	1.5	4.5	5.0
Merged-chr6-37431525-4	chr6	37431396	37431596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178661, intron 1 of 11)	(CAGAGA)n|Simple_repeat|Simple_repeat	10652.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	65.0	108.0	44.0	555.0	106.5	55.5	55.5	29.5
Merged-chr8-71747309-3	chr8	71747210	71747410	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21629.0	NM_028715	74015.0	Mm.22025	NM_028715	ENSMUSG00000070000	Fcho1	3322402E17Rik|N28152	FCH domain only 1	protein-coding	5.0	9.0	14.5	74.5	69.0	25.0	40.5	49.0
Merged-chr1-84426809-4	chr1	84426698	84426898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 8 of 12)	intron (NM_152915, intron 8 of 12)	-142153.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	34.5	37.0	44.5	631.5	104.5	28.0	28.5	45.0
Merged-chr9-58249760-4	chr9	58249604	58249804	+	978.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311088)	promoter-TSS (NM_001311088)	82.0	NM_008884	18854.0	Mm.392123	NM_008884	ENSMUSG00000036986	Pml	1200009E24Rik|AI661194|Trim19	promyelocytic leukemia	protein-coding	14.0	32.5	11.5	202.5	28.5	16.5	14.5	14.0
Merged-chr3-61306712-4	chr3	61306608	61306808	+	842.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57799.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	14.0	16.5	8.5	182.0	28.0	7.0	7.0	5.0
Merged-chr12-84698689-4	chr12	84698541	84698741	+	917.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033334, exon 1 of 4)	5' UTR (NM_001033334, exon 1 of 4)	166.0	NM_001033334	627191.0	Mm.152484	NM_001033334	ENSMUSG00000071234	Syndig1l	DSPC1|Gm261|SynDIG2|Tmem90a	synapse differentiation inducing 1 like	protein-coding	8.0	9.5	21.0	155.0	25.0	9.5	14.5	7.5
Merged-chr7-19669589-4	chr7	19669500	19669700	+	955.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4320.0	NM_001309795	11813.0	Mm.28394	NM_001277944	ENSMUSG00000002992	Apoc2	apo-CII|apoC-II	apolipoprotein C-II	protein-coding	23.5	20.0	15.0	325.0	66.0	16.5	20.5	13.5
Merged-chr2-178058411-3	chr2	178058326	178058526	+	867.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19999.0	NM_001162922	353208.0	Mm.381194	NM_001162922	ENSMUSG00000078861	Zfp931	2810021G02Rik	zinc finger protein 931	protein-coding	14.0	3.5	6.0	107.5	24.0	4.5	6.5	11.0
Merged-chr11-20247211-1	chr11	20247111	20247311	+	743.75	f0_balb.idr	intron (NM_172260, intron 1 of 6)	intron (NM_172260, intron 1 of 6)	2213.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	17.5	14.5	7.5	88.0	4.0	1.0	1.0	4.5
Merged-chr4-132611552-4	chr4	132611460	132611660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27486.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	114.5	286.0	98.0	628.0	337.5	132.0	101.0	50.5
Merged-chr2-91272996-4	chr2	91272876	91273076	+	990.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001311144)	TTS (NM_001311144)	7861.0	NM_023854	77038.0	Mm.43636	NM_023854	ENSMUSG00000027255	Arfgap2	2310032E02Rik|Zfp289	ADP-ribosylation factor GTPase activating protein 2	protein-coding	25.5	44.0	13.0	383.0	104.5	24.5	40.0	39.0
Merged-chr4-93334710-4	chr4	93334623	93334823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026954, exon 1 of 1)	3' UTR (NM_026954, exon 1 of 1)	788.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	186.5	200.0	142.0	2365.0	272.5	92.5	185.0	112.5
Merged-chr14-67934225-4	chr14	67934126	67934326	+	850.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177780)	promoter-TSS (NM_177780)	-654.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	10.0	16.0	13.5	208.0	44.0	16.0	18.0	9.0
Merged-chr16-57230975-2	chr16	57230870	57231070	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_026254, intron 1 of 17)	intron (NM_026254, intron 1 of 17)	496.0	NM_026254	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	20.0	37.5	16.0	407.0	77.5	23.5	45.5	39.5
Merged-chr1-191062957-4	chr1	191062874	191063074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163421)	promoter-TSS (NM_001163421)	-42.0	NM_026895	68972.0	Mm.237188	NM_026895	ENSMUSG00000026632	Tatdn3	1500010M24Rik	TatD DNase domain containing 3	protein-coding	20.5	51.0	16.5	447.5	76.0	30.5	42.0	42.0
Merged-chr2-25255438-4	chr2	25255335	25255535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252541)	promoter-TSS (NM_001252541)	-4.0	NM_177344	227615.0	Mm.213925	NM_177344	ENSMUSG00000078201	Tmem203	C730025P13Rik|Hbebp1	transmembrane protein 203	protein-coding	60.5	64.0	31.0	712.0	155.0	69.5	47.5	77.0
Merged-chr7-74962198-2	chr7	74962098	74962298	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-68013.0	NR_131122	75205.0	Mm.399304	NR_131122	ENSMUSG00000108803	4930533N22Rik	Gm44904	RIKEN cDNA 4930533N22 gene	ncRNA	8.0	6.0	9.5	37.5	14.0	1.5	14.0	4.0
Merged-chr3-65528353-4	chr3	65528264	65528464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178892)	promoter-TSS (NM_178892)	-83.0	NM_178892	99929.0	Mm.246398	NM_178892	ENSMUSG00000034640	Tiparp	ARTD14|AW558171|PARP7	TCDD-inducible poly(ADP-ribose) polymerase	protein-coding	178.5	237.5	182.0	2556.0	516.0	183.0	273.0	228.5
Merged-chr6-124759488-4	chr6	124759408	124759608	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001302642)	TTS (NM_001302642)	-3021.0	NM_007881	13498.0	Mm.333380	NM_007881	ENSMUSG00000004263	Atn1	Atr1|Drpla|atrophin-1	atrophin 1	protein-coding	20.5	17.5	13.0	142.5	19.5	5.5	19.0	16.5
Merged-chr8-24400344-4	chr8	24400255	24400455	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38591.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	23.0	30.5	22.0	227.0	64.5	25.0	16.5	27.0
Merged-chr11-79686983-3	chr11	79686889	79687089	+	841.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 10 of 14)	intron (NM_175543, intron 10 of 14)	-11903.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	9.0	12.5	6.5	88.5	16.0	5.5	13.0	2.5
Merged-chr19-16123297-1	chr19	16123197	16123397	+	723.0	f0_c57.idr	Intergenic	Lx8|LINE|L1	-9534.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	2.0	0.5	3.0	2.0	26.0	10.5	8.5	11.5
Merged-chr2-160360154-2	chr2	160360054	160360254	+	892.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6911.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	9.0	15.0	5.0	41.5	12.5	8.5	2.0	5.0
Merged-chr6-33982881-4	chr6	33982786	33982986	+	952.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46562.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	22.5	25.5	20.0	305.0	50.0	11.0	31.0	15.5
Merged-chr8-35366744-1	chr8	35366644	35366844	+	857.3333130000001	f0_balb.idr	Intergenic	Intergenic	-8997.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	23.5	16.5	5.0	180.5	4.5	0.0	2.5	0.5
Merged-chr6-125164810-4	chr6	125164709	125164909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289726, intron 2 of 6)	CpG	964.0	NM_008084	14433.0	Mm.304088	NM_008084	ENSMUSG00000057666	Gapdh	Gapd	glyceraldehyde-3-phosphate dehydrogenase	protein-coding	53.5	101.0	54.5	873.0	187.5	53.0	53.5	60.0
Merged-chr15-58585667-4	chr15	58585544	58585744	+	904.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	170176.0	NM_145959	210998.0	Mm.3224	NM_145959	ENSMUSG00000037119	Fam91a1	AV220772|BC033609|D15Ertd621e|SKIN|mKIAA0493	family with sequence similarity 91, member A1	protein-coding	19.5	17.0	5.0	158.0	19.5	9.5	13.5	15.0
Merged-chr10-83095030-4	chr10	83094929	83095129	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021439, intron 2 of 2)	MIRb|SINE|MIR	109532.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	18.0	41.0	25.0	318.0	28.5	6.5	12.0	14.5
Merged-chr8-46818332-4	chr8	46818221	46818421	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 5 of 7)	intron (NR_152560, intron 5 of 7)	78576.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	47.5	64.0	44.0	768.5	106.0	31.0	43.0	60.0
Merged-chr13-45966197-3	chr13	45966120	45966320	+	900.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1229.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	8.0	10.5	1.0	58.0	10.5	8.5	9.0	7.5
Merged-chr12-3860857-3	chr12	3860743	3860943	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045884, intron 3 of 3)	intron (NR_045884, intron 3 of 3)	1401.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	17.0	23.5	23.0	579.5	25.5	3.0	8.5	19.0
Merged-chr8-11249989-4	chr8	11249872	11250072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009931, intron 2 of 51)	intron (NM_009931, intron 2 of 51)	-62833.0	NM_009932	12827.0	Mm.181021	NM_009932	ENSMUSG00000031503	Col4a2	Col4a-2	collagen, type IV, alpha 2	protein-coding	86.0	113.0	135.5	1787.5	204.0	64.5	88.5	64.0
Merged-chr9-66945989-4	chr9	66945875	66946075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311101)	promoter-TSS (NM_001311101)	-111.0	NM_001311101	67941.0	Mm.30120	NM_026467	ENSMUSG00000036781	Rps27l	1810034D23Rik	ribosomal protein S27-like	protein-coding	86.5	158.0	86.5	1258.5	142.5	74.5	94.0	64.5
Merged-chr9-21167831-4	chr9	21167704	21167904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183408, intron 1 of 14)	intron (NM_183408, intron 1 of 14)	2090.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	62.0	75.0	55.5	898.5	151.5	53.0	45.5	74.0
Merged-chr6-52713721-4	chr6	52713571	52713771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025816)	promoter-TSS (NM_025816)	-58.0	NM_025816	52440.0	Mm.389757	NM_025816	ENSMUSG00000004535	Tax1bp1	1200003J11Rik|1700069J21Rik|AA930106|D6Ertd404e|D6Ertd772e|T6bp|TXBP151	Tax1 (human T cell leukemia virus type I) binding protein 1	protein-coding	66.0	128.5	55.0	1164.0	183.0	67.5	81.0	52.5
Merged-chr9-83568313-4	chr9	83568214	83568414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172507, intron 1 of 3)	intron (NM_172507, intron 1 of 3)	19976.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	25.5	56.0	20.5	441.5	155.0	56.0	74.5	63.0
Merged-chr16-21690573-2	chr16	21690473	21690673	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001881, intron 1 of 1)	intron (NM_001001881, intron 1 of 1)	4092.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	10.0	8.0	5.5	62.5	15.0	4.0	5.0	6.0
Merged-chr16-24629871-2	chr16	24629771	24629971	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-91984.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	14.0	47.0	22.5	261.5	40.5	14.0	13.5	12.5
Merged-chr3-59185799-4	chr3	59185692	59185892	+	957.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302203, intron 1 of 2)	intron (NM_001302203, intron 1 of 2)	9312.0	NM_001302203	84111.0	Mm.60267	NM_032399	ENSMUSG00000051431	Gpr87	-	G protein-coupled receptor 87	protein-coding	11.5	26.5	13.0	130.0	34.5	13.0	21.5	10.5
Merged-chr8-46883437-4	chr8	46883330	46883530	+	939.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103457.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	15.0	18.0	7.0	226.0	28.5	11.0	20.0	22.5
Merged-chr2-91723561-4	chr2	91723468	91723668	+	910.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6570.0	NM_172669	228361.0	Mm.436667	NM_172669	ENSMUSG00000040506	Ambra1	2310079H06Rik|A130023A14|AA474864|AV021921|D030051N19Rik|mKIAA1736	autophagy/beclin 1 regulator 1	protein-coding	17.5	9.0	6.0	188.5	21.5	10.0	7.0	17.0
Merged-chr19-5731774-4	chr19	5731659	5731859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020491)	promoter-TSS (NM_020491)	-27.0	NM_020491	56390.0	Mm.455818	NM_020491	ENSMUSG00000079478	Sssca1	1500016H19Rik|C184L	Sjogren syndrome/scleroderma autoantigen 1	protein-coding	37.5	69.0	32.5	463.0	133.0	48.0	40.5	67.0
Merged-chr16-87689439-4	chr16	87689322	87689522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9532.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	29.0	34.0	24.5	502.5	67.0	18.5	26.5	25.5
Merged-chr11-59637183-4	chr11	59637101	59637301	+	900.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24235.0	NM_001011740	257886.0	Mm.457883	NM_001011740	ENSMUSG00000044061	Olfr225	MOR256-51	olfactory receptor 225	protein-coding	13.0	9.5	6.5	182.5	28.5	13.5	14.0	19.0
Merged-chr17-87282143-4	chr17	87282022	87282222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028639)	promoter-TSS (NM_028639)	692.0	NR_015506	74597.0	Mm.63783	NR_015506	ENSMUSG00000085287	4833418N02Rik	-	RIKEN cDNA 4833418N02 gene	ncRNA	135.0	244.5	119.5	2519.0	420.5	153.5	189.0	137.5
Merged-chr13-37299057-2	chr13	37298965	37299165	+	770.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	(GCTG)n|Simple_repeat|Simple_repeat	-46280.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	0.0	5.0	5.5	64.0	6.5	7.0	5.0	6.0
Merged-chr13-49308476-4	chr13	49308342	49308542	+	907.4874880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	766.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	18.0	13.0	9.5	162.5	23.5	18.0	17.0	17.5
Merged-chr9-35278080-4	chr9	35277978	35278178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-3027.0	NR_040715	71133.0	Mm.158577	NR_040715	ENSMUSG00000111746	4933422A05Rik	-	RIKEN cDNA 4933422A05 gene	ncRNA	24.5	42.5	44.5	606.5	65.5	22.0	29.0	37.0
Merged-chr10-88304510-3	chr10	88304407	88304607	+	810.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52568.0	NM_027878	71712.0	Mm.35450	NM_027878	ENSMUSG00000020057	Dram1	1200002N14Rik|Dram	DNA-damage regulated autophagy modulator 1	protein-coding	9.0	9.5	3.5	233.0	12.5	6.5	11.0	8.0
Merged-chr1-134698719-2	chr1	134698619	134698819	+	722.133301	f1_balb.idr|f1_c57bl6.idr	intron (NM_009307, intron 2 of 9)	intron (NM_009307, intron 2 of 9)	-10581.0	NM_001355726	20980.0	Mm.5102	NM_009307	ENSMUSG00000026452	Syt2	IP4BP|R74640|mKIAA4194|sytII	synaptotagmin II	protein-coding	2.0	10.0	3.5	62.5	8.0	4.5	7.5	10.0
Merged-chr13-54819697-4	chr13	54819683	54819883	+	906.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30378.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	8.0	14.5	14.5	74.5	13.0	6.0	8.0	3.0
Merged-chr15-34587521-3	chr15	34587445	34587645	+	663.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145469, intron 6 of 10)	intron (NM_145469, intron 6 of 10)	-87528.0	NR_045883	71637.0	Mm.410827	NR_045883	ENSMUSG00000115526	4930413F20Rik	-	RIKEN cDNA 4930413F20 gene	ncRNA	0.0	4.0	3.0	9.5	7.0	8.0	6.0	5.0
Merged-chr7-101357024-4	chr7	101356929	101357129	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	8960.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	22.0	22.5	14.5	356.0	37.0	17.0	21.5	17.5
Merged-chr6-128648751-4	chr6	128648702	128648902	+	966.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13583.0	NM_053165	94071.0	Mm.197689	NM_053165	ENSMUSG00000030364	Clec2h	Clrf|clr-f	C-type lectin domain family 2, member h	protein-coding	32.5	29.0	45.0	498.5	46.0	11.0	19.0	10.5
Merged-chr7-18873527-4	chr7	18873433	18873633	+	948.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11157.0	NM_009402	21946.0	Mm.21855	NM_009402	ENSMUSG00000030413	Pglyrp1	PGRP|PGRP-S|Pglyrp|Tag7|Tasg7|Tnfsf3l	peptidoglycan recognition protein 1	protein-coding	15.5	21.0	9.0	273.5	45.5	29.0	18.0	37.5
Merged-chr6-125354977-6	chr6	125354912	125355112	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	5289.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	3.5	11.0	10.5	131.0	25.0	10.5	11.0	25.0
Merged-chr12-70111560-4	chr12	70111442	70111642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_104398)	promoter-TSS (NR_104398)	87.0	NR_104398	18080.0	Mm.244047	NM_008697	ENSMUSG00000021068	Nin	3110068G20Rik|AI385615|AU024711|mKIAA1565	ninein	protein-coding	21.5	21.5	31.5	319.5	52.0	12.0	19.0	17.5
Merged-chr5-59996857-4	chr5	59996729	59996929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10827.0	NR_040682	71057.0	Mm.50817	NR_040682	ENSMUSG00000106013	4933402J10Rik	-	RIKEN cDNA 4933402J10 gene	ncRNA	40.5	59.5	68.0	944.0	136.5	61.0	65.5	46.5
Merged-chr2-129100994-4	chr2	129100919	129101119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009086)	promoter-TSS (NM_009086)	23.0	NM_009086	20017.0	Mm.259078	NM_009086	ENSMUSG00000027395	Polr1b	128kDa|D630020H17Rik|RPA116|RPA135|RPA2|Rpo1-2	polymerase (RNA) I polypeptide B	protein-coding	80.0	117.0	59.0	944.5	178.5	62.0	86.5	74.0
Merged-chr3-87499107-8	chr3	87499022	87499222	+	958.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113238, intron 11 of 11)	intron (NM_001113238, intron 11 of 11)	-26456.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	8.0	5.5	7.5	27.5	15.5	4.0	7.0	18.0
Merged-chr12-80922131-4	chr12	80922035	80922235	+	913.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC-int|LTR|ERVL-MaLR	2312.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	10.0	15.5	17.0	242.0	31.5	16.0	11.0	17.5
Merged-chr10-34418589-4	chr10	34418509	34418709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347463)	promoter-TSS (NM_001347463)	-58.0	NM_001347463	319638.0	Mm.73467	NM_176968	ENSMUSG00000039480	Nt5dc1	6030401B09Rik|AW987726|Nt5c2l1	5'-nucleotidase domain containing 1	protein-coding	190.5	220.5	171.5	3016.5	525.5	159.5	218.5	221.0
Merged-chr16-30502711-4	chr16	30502594	30502794	+	962.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47884.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	18.5	49.5	19.5	345.5	57.0	17.0	13.5	16.5
Merged-chr4-147936702-4	chr4	147936601	147936801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011122)	promoter-TSS (NM_011122)	75.0	NM_011122	18822.0	Mm.23951	NM_011122	ENSMUSG00000019055	Plod1	2410042F05Rik|AI854890|AV007929|Lh1|Plod	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1	protein-coding	37.0	76.0	65.5	715.0	114.0	41.5	48.5	57.5
Merged-chr2-155363624-2	chr2	155363521	155363721	+	725.083374	f0_balb.idr|f1_c57bl6.idr	Intergenic	(TTC)n|Simple_repeat|Simple_repeat	-6197.0	NM_001004721	228812.0	Mm.5434	NM_001004721	ENSMUSG00000038383	Pigu	5430426F17Rik|BC028278|Cdc91l1	phosphatidylinositol glycan anchor biosynthesis, class U	protein-coding	12.0	5.5	8.5	131.5	12.5	11.0	10.0	3.5
Merged-chr15-80091278-4	chr15	80091209	80091409	+	881.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009303)	promoter-TSS (NM_009303)	-25.0	NM_009303	20972.0	Mm.230301	NM_009303	ENSMUSG00000022415	Syngr1	R75468|Syngr1b|p29	synaptogyrin 1	protein-coding	10.5	22.0	18.0	134.5	29.5	8.5	16.0	5.5
Merged-chr17-36431619-4	chr17	36431520	36431720	+	828.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30709.0	NM_177634	224753.0	Mm.246581	NM_177634	ENSMUSG00000048231	H2-M10.4	15H	histocompatibility 2, M region locus 10.4	protein-coding	20.5	18.5	13.0	265.0	19.5	9.0	14.5	21.0
Merged-chr10-80406803-4	chr10	80406669	80406869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025650)	promoter-TSS (NM_025650)	52.0	NM_025650	66594.0	Mm.379119	NM_025650	ENSMUSG00000020163	Uqcr11	0710008D09Rik|AL022707|Uqcr	ubiquinol-cytochrome c reductase, complex III subunit XI	protein-coding	54.5	75.5	55.0	408.5	99.0	34.5	44.0	37.5
Merged-chr10-128008426-3	chr10	128008327	128008527	+	692.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013786)	promoter-TSS (NM_013786)	-816.0	NM_001359377	27400.0	Mm.26719	NM_013786	ENSMUSG00000025396	Hsd17b6	17betaHSD9|Hsd17b9|Rdh8	hydroxysteroid (17-beta) dehydrogenase 6	protein-coding	6.0	14.0	7.5	83.0	16.0	6.0	1.5	9.0
Merged-chr1-128633871-3	chr1	128633774	128633974	+	741.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41575.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	0.0	0.0	2.0	16.0	54.0	14.5	13.0	13.5
Merged-chr3-96284633-3	chr3	96284536	96284736	+	865.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010186, intron 5 of 5)	intron (NM_010186, intron 5 of 5)	9333.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	7.0	12.5	11.5	199.0	32.5	3.5	8.0	7.5
Merged-chr13-6647357-4	chr13	6647248	6647448	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019703, intron 1 of 21)	intron (NM_019703, intron 1 of 21)	1423.0	NM_019703	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	23.0	24.5	30.0	304.0	65.0	19.5	28.0	23.5
Merged-chr7-4134323-4	chr7	4134234	4134434	+	815.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001305822, exon 14 of 14)	3' UTR (NM_001305822, exon 14 of 14)	2592.0	NR_033548	100037396.0	Mm.447887	NR_033548	ENSMUSG00000085886	D030047H15Rik	Gm15924	RIKEN cDNA D030047H15 gene	ncRNA	5.5	16.0	10.0	166.5	22.5	5.5	15.5	5.5
Merged-chr6-108696055-4	chr6	108695959	108696159	+	958.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35125.0	NR_104577	75394.0	Mm.395061	NR_040757	ENSMUSG00000087341	0610040F04Rik	-	RIKEN cDNA 0610040F04 gene	ncRNA	12.0	33.0	16.5	502.0	50.5	9.0	18.0	14.5
Merged-chr7-30321749-4	chr7	30321675	30321875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033140, exon 1 of 1)	3' UTR (NM_001033140, exon 1 of 1)	600.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	39.0	64.0	43.0	338.0	44.5	13.5	22.0	20.5
Merged-chr14-27096951-4	chr14	27096862	27097062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134437, intron 11 of 12)	intron (NM_134437, intron 11 of 12)	-47031.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	22.5	28.5	27.0	306.5	60.0	28.0	33.5	30.0
Merged-chr4-56134562-4	chr4	56134478	56134678	+	899.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-602103.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	13.0	7.0	15.5	135.5	36.5	12.5	20.0	17.0
Merged-chr3-19311485-6	chr3	19311385	19311585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122759)	promoter-TSS (NM_001122759)	-163.0	NM_001122759	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	57.0	50.5	80.0	1217.5	173.5	72.5	81.0	85.0
Merged-chr14-33320239-4	chr14	33320086	33320286	+	963.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153800, intron 4 of 10)	CpG	90838.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	13.5	19.5	22.0	139.5	29.5	15.0	6.0	22.5
Merged-chr11-30900533-3	chr11	30900432	30900632	+	887.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	15174.0	NM_175490	237716.0	Mm.338361	NM_175490	ENSMUSG00000043999	Gpr75	-	G protein-coupled receptor 75	protein-coding	6.0	10.5	14.0	43.0	41.0	7.5	39.5	15.0
Merged-chr10-7264973-3	chr10	7264876	7265076	+	959.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52739.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	21.0	29.0	43.5	609.5	0.5	0.0	1.0	2.0
Merged-chr2-154570019-4	chr2	154569905	154570105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291105)	promoter-TSS (NM_001291105)	-113.0	NM_007891	13555.0	Mm.18036	NM_007891	ENSMUSG00000027490	E2f1	E2F-1|Tg(Wnt1-cre)2Sor|mKIAA4009	E2F transcription factor 1	protein-coding	152.0	283.5	161.5	2456.0	494.0	147.5	239.5	175.5
Merged-chr18-50034157-3	chr18	50034050	50034250	+	937.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360935, intron 1 of 1)	intron (NM_001360935, intron 1 of 1)	3166.0	NM_001360935	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	10.5	11.0	9.5	216.0	21.0	4.5	12.0	1.0
Merged-chr1-134196015-2	chr1	134195915	134196115	+	876.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357515, intron 3 of 10)	intron (NM_001357515, intron 3 of 10)	2567.0	NM_016749	53311.0	Mm.379067	NM_016749	ENSMUSG00000042451	Mybph	AI385643|MyBP-H	myosin binding protein H	protein-coding	4.5	5.0	7.5	71.0	9.5	3.0	7.0	3.0
Merged-chr2-162931332-6	chr2	162931209	162931409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026499)	promoter-TSS (NM_026499)	-199.0	NM_026499	67996.0	Mm.24042	NM_026499	ENSMUSG00000016921	Srsf6	1210001E11Rik|AI314910|AW146126|Sfrs6	serine/arginine-rich splicing factor 6	protein-coding	77.5	126.0	121.0	977.5	169.0	91.5	79.5	84.0
Merged-chr2-68434716-4	chr2	68434613	68434813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	intron (NM_016866, intron 1 of 17)	37268.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	37.5	76.5	42.0	896.5	148.0	32.5	69.5	35.5
Merged-chr13-105316162-4	chr13	105316037	105316237	+	731.174988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21652.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	13.5	14.5	11.0	291.5	19.0	7.5	4.0	8.5
Merged-chr10-44428246-6	chr10	44428181	44428381	+	894.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30467.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	5.0	5.5	9.5	107.0	12.0	2.5	5.5	8.5
Merged-chr10-7589818-4	chr10	7589725	7589925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359742)	promoter-TSS (NM_001359742)	25.0	NM_001359743	237253.0	Mm.206759	NM_172784	ENSMUSG00000019796	Lrp11	1700034J19Rik|6330533B21|9830160H19Rik	low density lipoprotein receptor-related protein 11	protein-coding	139.5	207.5	97.5	1781.5	281.5	106.0	134.5	139.0
Merged-chr9-45306926-4	chr9	45306821	45307021	+	757.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12179.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	14.0	14.0	6.0	128.0	21.0	7.0	6.0	10.0
Merged-chr1-152746675-2	chr1	152746575	152746775	+	982.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-3876.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	6.0	15.0	2.0	34.0	26.0	7.5	4.5	9.5
Merged-chr9-55257306-4	chr9	55257199	55257399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	intron (NM_032002, intron 3 of 7)	26326.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	51.0	39.5	35.0	471.5	76.5	35.5	19.5	34.0
Merged-chr7-81849858-2	chr7	81849739	81849939	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-9162.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	19.5	22.5	19.5	470.0	28.5	17.5	17.0	29.0
Merged-chr14-54764982-1	chr14	54764882	54765082	+	621.0	f0_balb.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	16904.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	6.5	11.0	5.0	89.0	2.5	1.0	1.0	1.0
Merged-chr3-88553660-4	chr3	88553546	88553746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033526)	promoter-TSS (NM_033526)	-70.0	NM_033526	94232.0	Mm.303059	NM_033526	ENSMUSG00000008604	Ubqln4	A1Up|A1u|AI663987|CIP75|UBIN	ubiquilin 4	protein-coding	105.5	195.5	85.0	1544.0	277.5	114.5	158.5	129.5
Merged-chr11-82566268-4	chr11	82566181	82566381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67072.0	NR_033582	791422.0	Mm.341562	NR_033582	ENSMUSG00000069796	Gm11426	-	predicted gene 11426	ncRNA	54.0	69.5	52.5	936.5	122.0	58.5	59.5	74.5
Merged-chr17-23747028-4	chr17	23746936	23747136	+	935.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1207.0	NM_028416	73016.0	Mm.221319	NM_028416	ENSMUSG00000040680	Kremen2	2900054E04Rik|Krm2	kringle containing transmembrane protein 2	protein-coding	23.5	16.0	7.5	266.0	27.5	8.5	14.0	20.5
Merged-chr6-101555409-4	chr6	101555316	101555516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-177519.0	NM_018884	55983.0	Mm.321654	NM_018884	ENSMUSG00000035357	Pdzrn3	1110020C07Rik|AI429718|AL023082|LNX3|SEMACAP3|Semcap3	PDZ domain containing RING finger 3	protein-coding	77.5	106.0	83.0	1141.5	121.0	80.5	67.5	64.0
Merged-chr15-27681597-4	chr15	27681501	27681701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242423)	promoter-TSS (NM_001242423)	-59.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	193.5	236.5	208.5	2868.5	482.5	164.5	240.0	176.5
Merged-chr4-105254508-4	chr4	105254379	105254579	+	908.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97132.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.0	11.0	13.5	127.0	14.5	13.5	15.0	9.5
Merged-chr17-50419057-3	chr17	50418945	50419145	+	904.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS4-int|LTR|ERV1	-90502.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	5.5	2.5	2.0	77.0	37.5	6.5	12.0	9.5
Merged-chr6-76268311-4	chr6	76268209	76268409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-974168.0	NR_155299	74342.0	Mm.292568	NM_028880	ENSMUSG00000060780	Lrrtm1	4632401D06Rik|AW125451	leucine rich repeat transmembrane neuronal 1	protein-coding	34.0	64.0	69.0	1386.0	130.5	63.0	63.0	41.0
Merged-chr6-149126854-2	chr6	149126754	149126954	+	865.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-14659.0	NM_001252096	320204.0	Mm.274099	NM_177101	ENSMUSG00000039958	Etfbkmt	4833442J19Rik|AI256744|ETFB-KMT|Mettl20	electron transfer flavoprotein beta subunit lysine methyltransferase	protein-coding	4.0	1.0	2.5	69.5	15.0	4.5	12.0	5.5
Merged-chr11-97026230-4	chr11	97026117	97026317	+	971.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_133649, exon 1 of 2)	non-coding (NR_133649, exon 1 of 2)	201.0	NR_133649	100127433.0	Mm.156282	NR_133649	ENSMUSG00000087067	Gm11532	Sp6os	predicted gene 11532	ncRNA	26.5	35.5	13.5	334.5	69.5	30.5	14.5	12.5
Merged-chr19-16067402-3	chr19	16067303	16067503	+	846.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65428.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	1.5	3.5	9.5	56.0	9.5	4.5	9.0	10.5
Merged-chr17-7169469-4	chr17	7169394	7169594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011299)	promoter-TSS (NM_011299)	-621.0	NM_011299	20112.0	Mm.268383	NM_011299	ENSMUSG00000023809	Rps6ka2	90kDa|D17Wsu134e|Rps6ka-rs1|Rsk3|p90rsk|pp90rsk	ribosomal protein S6 kinase, polypeptide 2	protein-coding	39.0	60.0	39.5	669.5	98.0	44.0	45.5	51.5
Merged-chr3-95676967-4	chr3	95676888	95677088	+	933.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301705, intron 17 of 17)	intron (NM_001301705, intron 17 of 17)	10929.0	NM_144899	229595.0	Mm.490574	NM_144899	ENSMUSG00000015850	Adamtsl4	ADAMTSL-4|Tsrc1	ADAMTS-like 4	protein-coding	15.5	33.0	11.5	169.0	35.0	12.5	8.0	13.0
Merged-chr16-91826000-4	chr16	91825919	91826119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 14 of 15)	intron (NM_001110276, intron 14 of 15)	96648.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	43.0	72.5	71.5	1318.0	128.5	36.5	64.5	58.0
Merged-chr18-83853985-4	chr18	83853886	83854086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	232576.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	58.5	90.0	62.5	1109.5	130.5	45.0	64.5	52.0
Merged-chr5-140508861-4	chr5	140508759	140508959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021528, intron 1 of 1)	intron (NM_021528, intron 1 of 1)	3250.0	NM_021528	59031.0	Mm.28934	NM_021528	ENSMUSG00000036599	Chst12	AI595374|C4S-2|C4ST2	carbohydrate sulfotransferase 12	protein-coding	39.0	75.5	29.0	608.0	117.0	34.0	42.5	44.0
Merged-chr17-74018443-4	chr17	74018338	74018538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053188, intron 4 of 4)	Lx8|LINE|L1	29478.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	96.0	91.5	84.0	1517.0	173.5	61.5	69.5	106.0
Merged-chr17-35865916-4	chr17	35865780	35865980	+	936.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175242)	promoter-TSS (NM_175242)	-248.0	NM_001146710	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	17.5	50.0	18.0	146.0	46.0	18.0	10.0	7.0
Merged-chr6-39379955-4	chr6	39379808	39380008	+	942.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1445.0	NM_011226	19331.0	Mm.123866	NM_011226	ENSMUSG00000029923	Rab19	-	RAB19, member RAS oncogene family	protein-coding	15.0	16.5	15.0	133.5	36.0	6.5	10.0	12.5
Merged-chr18-62037770-4	chr18	62037675	62037875	+	998.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84700.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	32.5	51.5	29.0	442.5	68.0	14.0	20.5	30.5
Merged-chr19-10818715-4	chr19	10818620	10818820	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009852, intron 1 of 12)	intron (NM_009852, intron 1 of 12)	11338.0	NM_001037801	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	16.5	32.0	9.5	265.5	49.0	22.5	22.0	16.0
Merged-chr13-111687234-9	chr13	111687123	111687323	+	898.009277	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172593, intron 1 of 12)	CpG	1045.0	NM_172593	218613.0	Mm.31012	NM_172593	ENSMUSG00000032727	Mier3	5730509D14|AU015422|D130064H19Rik	MIER family member 3	protein-coding	4.5	7.5	11.0	61.5	15.5	7.0	8.5	14.0
Merged-chr11-46252239-3	chr11	46252149	46252349	+	892.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 19 of 30)	intron (NM_001252459, intron 19 of 30)	16692.0	NM_177075	320116.0	Mm.39600	NM_177075	ENSMUSG00000048721	Fndc9	C030019I05Rik	fibronectin type III domain containing 9	protein-coding	10.5	9.0	5.0	135.0	10.0	5.5	9.0	6.5
Merged-chr4-124741885-4	chr4	124741824	124742024	+	919.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126474)	promoter-TSS (NR_126474)	74.0	NR_126474	16330.0	Mm.296202	NM_008385	ENSMUSG00000028894	Inpp5b	5PTase|AW260155|INPP5P	inositol polyphosphate-5-phosphatase B	protein-coding	6.5	19.5	7.0	122.5	16.0	10.5	11.5	13.0
Merged-chr5-109866622-4	chr5	109866514	109866714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32472.0	NR_027964	667213.0	Mm.454429	NR_027964	ENSMUSG00000105044	Gm10416	EG667213	zinc finger protein pseudogene	pseudo	166.5	215.0	223.0	2421.5	332.0	128.0	211.5	163.5
Merged-chr14-21822945-4	chr14	21822855	21823055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8606.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	64.5	85.0	80.5	1398.0	157.5	49.0	79.5	102.0
Merged-chr2-20899504-4	chr2	20899389	20899589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128084, intron 3 of 24)	intron (NM_001128084, intron 3 of 24)	68232.0	NM_001081364	71435.0	Mm.28507	NM_001081364	ENSMUSG00000036591	Arhgap21	5530401C11Rik|AA416458|ARHGAP10	Rho GTPase activating protein 21	protein-coding	54.5	92.0	41.5	923.0	167.5	53.5	48.5	54.5
Merged-chr5-96804520-4	chr5	96804434	96804634	+	879.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013470, intron 2 of 12)	MER21C|LTR|ERVL	11149.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	10.0	42.0	7.5	82.0	42.5	19.0	9.0	6.5
Merged-chr13-59856927-4	chr13	59856850	59857050	+	963.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33803.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	38.5	50.5	45.0	447.5	35.0	20.5	9.5	21.0
Merged-chr11-86752525-2	chr11	86752425	86752625	+	880.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001003908, intron 1 of 31)	(A)n|Simple_repeat|Simple_repeat	5042.0	NM_001003908	67300.0	Mm.254588	NM_001003908	ENSMUSG00000047126	Cltc	3110065L21Rik|CHC|R74732	clathrin, heavy polypeptide (Hc)	protein-coding	4.5	5.0	0.0	38.5	10.5	8.5	5.0	9.5
Merged-chr13-41600162-4	chr13	41600051	41600251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6065.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	63.0	114.0	29.5	836.0	165.5	51.5	75.0	45.0
Merged-chr1-93165571-3	chr1	93165464	93165664	+	826.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-2859.0	NM_001310428	381284.0	Mm.193346	NM_001310428	ENSMUSG00000084989	Crocc2	E030010N08Rik|Gm976	ciliary rootlet coiled-coil, rootletin family member 2	protein-coding	18.0	31.5	7.0	212.5	17.0	6.0	23.5	5.5
Merged-chr8-88228984-4	chr8	88228888	88229088	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164499, intron 2 of 11)	intron (NM_001164499, intron 2 of 11)	29775.0	NM_001164498	214627.0	Mm.491211	NM_001164497	ENSMUSG00000036779	Papd5	5730445M16Rik|5830428A09	PAP associated domain containing 5	protein-coding	24.0	27.5	18.0	325.5	47.0	13.5	32.0	20.5
Merged-chr16-17132433-4	chr16	17132325	17132525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022324)	promoter-TSS (NM_022324)	-42.0	NM_022324	64136.0	Mm.30222	NM_022324	ENSMUSG00000022769	Sdf2l1	-	stromal cell-derived factor 2-like 1	protein-coding	248.5	382.0	301.0	4520.0	572.5	209.0	281.5	281.0
Merged-chr5-64818570-3	chr5	64818510	64818710	+	886.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 2 of 5)	intron (NM_008453, intron 2 of 5)	15087.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	8.5	8.5	7.5	329.5	7.5	2.5	7.0	3.5
Merged-chr2-44922694-4	chr2	44922593	44922793	+	851.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61071.0	NM_172662	227835.0	Mm.314312	NM_172662	ENSMUSG00000036890	Gtdc1	E330008O22Rik	glycosyltransferase-like domain containing 1	protein-coding	11.5	8.5	12.0	192.0	20.5	4.5	10.5	7.0
Merged-chr13-110602049-4	chr13	110601952	110602152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	207008.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	189.0	227.5	164.0	2919.0	446.0	145.5	142.0	139.0
Merged-chr8-85841587-4	chr8	85841483	85841683	+	953.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028007)	promoter-TSS (NM_028007)	581.0	NM_199446	102093.0	Mm.237296	NM_199446	ENSMUSG00000036879	Phkb	AI463271	phosphorylase kinase beta	protein-coding	17.0	23.0	9.5	286.0	57.5	22.0	23.5	15.5
Merged-chr17-35762816-4	chr17	35762716	35762916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9634.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	35.5	64.5	33.5	447.5	167.5	52.0	69.0	80.0
Merged-chr6-32395587-4	chr6	32395479	32395679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-115562.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	39.0	85.5	63.5	1014.0	91.5	27.5	48.5	54.0
Merged-chr4-140989629-3	chr4	140989492	140989692	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164366, intron 1 of 28)	intron (NM_001164366, intron 1 of 28)	2719.0	NM_001164366	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	5.0	12.5	6.5	178.5	21.5	5.5	5.5	15.0
Merged-chr17-25813763-3	chr17	25813668	25813868	+	960.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164225, intron 1 of 5)	intron (NM_001164225, intron 1 of 5)	4683.0	NM_001164225	214931.0	Mm.152289	NM_001164225	ENSMUSG00000025738	Fbxl16	BC042620|Scirr1	F-box and leucine-rich repeat protein 16	protein-coding	6.0	22.0	13.0	167.0	17.5	7.5	5.0	10.5
Merged-chr3-52844221-4	chr3	52844149	52844349	+	934.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83417.0	NR_040555	622124.0	Mm.389434	NR_040555	ENSMUSG00000104401	Gm20750	-	predicted gene, 20750	ncRNA	12.5	27.0	11.5	199.0	43.0	13.5	20.0	14.5
Merged-chr19-31956587-4	chr19	31956494	31956694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87833.0	NM_001081074	69865.0	Mm.87538	NM_001081074	ENSMUSG00000052595	A1cf	1810073H04Rik|ACF64|ACF65|ASP|Acf|MCM|MerCreMer|Tg(Myh6-cre/Esr1*)1Jmk|mer	APOBEC1 complementation factor	protein-coding	25.5	54.0	22.5	489.0	41.0	9.0	16.5	11.0
Merged-chr2-38286113-4	chr2	38286017	38286217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 1 of 21)	intron (NM_146122, intron 1 of 21)	1267.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	72.5	128.0	136.0	1015.5	164.0	45.0	49.5	57.0
Merged-chr3-34020526-3	chr3	34020442	34020642	+	992.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113189, intron 1 of 16)	CpG	463.0	NM_001113189	14359.0	Mm.259021	NM_008053	ENSMUSG00000027680	Fxr1	1110050J02Rik|9530073J07Rik|AI851072|Fxr1h|Fxr1p	fragile X mental retardation gene 1, autosomal homolog	protein-coding	16.0	21.0	19.0	208.5	58.0	12.0	16.0	15.0
Merged-chr13-81785828-3	chr13	81785779	81785979	+	945.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007684, intron 2 of 4)	intron (NM_007684, intron 2 of 4)	2632.0	NM_007684	12626.0	Mm.12481	NM_007684	ENSMUSG00000021537	Cetn3	MmCEN3	centrin 3	protein-coding	7.5	5.0	10.0	209.0	23.5	7.0	6.5	8.0
Merged-chr11-85506490-4	chr11	85506398	85506598	+	877.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 15 of 25)	B1_Mur4|SINE|Alu	153334.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	14.0	13.5	17.0	227.0	25.5	4.0	6.5	11.0
Merged-chr1-165780693-4	chr1	165780646	165780846	+	830.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7935.0	NM_001113393	12503.0	Mm.217308	NM_031162	ENSMUSG00000005763	Cd247	4930549J05Rik|A430104F18Rik|AW552088|Cd3|Cd3-eta|Cd3-zeta|Cd3h|Cd3z|Cd3zeta|T3z|Tcrk|Tcrz	CD247 antigen	protein-coding	8.0	15.0	9.0	132.5	22.0	7.0	7.0	12.5
Merged-chr4-9097182-4	chr4	9097076	9097276	+	945.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-172117.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	10.5	30.5	19.0	194.5	32.0	10.0	6.0	7.5
Merged-chr15-59106099-1	chr15	59105999	59106199	+	814.5	f0_balb.idr	Intergenic	Intergenic	-24073.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	10.0	23.0	6.0	143.0	8.0	2.5	1.0	0.5
Merged-chr4-45494220-3	chr4	45494127	45494327	+	776.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 1 of 5)	intron (NM_001033306, intron 1 of 5)	36601.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	13.0	10.0	9.0	168.5	10.0	3.0	5.5	8.0
Merged-chr12-37242759-4	chr12	37242680	37242880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178767, intron 1 of 12)	intron (NM_178767, intron 1 of 12)	1141.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	66.0	82.0	38.5	1083.0	221.0	49.0	102.5	59.0
Merged-chr17-43538867-4	chr17	43538765	43538965	+	963.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254953, intron 2 of 2)	intron (NM_001254953, intron 2 of 2)	4774.0	NM_001254953	100043332.0	Mm.17626	NM_001254953	ENSMUSG00000096140	Ankrd66	AU041848|D730048J04Rik|Gm4368	ankyrin repeat domain 66	protein-coding	30.5	53.5	34.0	430.5	33.5	29.0	21.5	7.5
Merged-chr18-55357478-4	chr18	55357375	55357575	+	881.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-364884.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	17.5	33.5	20.5	489.0	31.5	11.0	28.0	13.0
Merged-chr4-126004202-4	chr4	126004089	126004289	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20470.0	NR_045561	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	17.0	23.5	8.5	76.5	56.0	17.5	23.5	7.5
Merged-chr8-71559102-4	chr8	71559000	71559200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001100462)	promoter-TSS (NM_001100462)	-229.0	NM_001100462	434325.0	Mm.33613	NM_001100462	ENSMUSG00000043664	Tmem221	-	transmembrane protein 221	protein-coding	117.5	137.0	108.0	1238.5	309.0	108.0	124.0	82.5
Merged-chr13-112130425-4	chr13	112130294	112130494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER30|DNA|hAT-Charlie	-158057.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	56.0	45.0	48.5	780.5	76.0	41.5	41.5	50.0
Merged-chr14-26637271-2	chr14	26637171	26637371	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007479)	promoter-TSS (NM_007479)	-863.0	NM_007479	11843.0	Mm.297768	NM_007479	ENSMUSG00000021877	Arf4	AA407803	ADP-ribosylation factor 4	protein-coding	4.5	14.5	5.0	67.5	22.0	11.0	6.0	10.5
Merged-chr5-120570428-4	chr5	120570343	120570543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145853, intron 2 of 27)	intron (NM_145853, intron 2 of 27)	18170.0	NM_145853	252972.0	Mm.114054	NM_145853	ENSMUSG00000032741	Tpcn1	5730403B01Rik|Tpc1|mKIAA1169	two pore channel 1	protein-coding	127.5	136.0	98.5	2096.5	204.0	93.0	102.0	118.0
Merged-chr15-27715547-4	chr15	27715454	27715654	+	968.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34012.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	22.0	26.0	14.5	258.0	47.0	15.5	32.0	15.5
Merged-chr16-91841132-4	chr16	91841028	91841228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 18 of 28)	intron (NM_001110275, intron 18 of 28)	90502.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	125.5	196.5	125.0	2275.5	289.5	100.0	145.0	136.0
Merged-chr14-18731220-3	chr14	18731120	18731320	+	858.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360327, intron 3 of 5)	intron (NM_001360327, intron 3 of 5)	162193.0	NM_001360328	218793.0	Mm.23551	NM_144839	ENSMUSG00000058317	Ube2e2	BC016265	ubiquitin-conjugating enzyme E2E 2	protein-coding	12.0	9.5	9.0	87.0	13.5	10.0	8.5	13.0
Merged-chr13-49421634-1	chr13	49421534	49421734	+	611.0	f0_balb.idr	promoter-TSS (NM_001276399)	promoter-TSS (NM_001276399)	20.0	NM_001276399	75678.0	Mm.390586	NM_199056	ENSMUSG00000021385	Ippk	1810043M15Rik|InsP6	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	protein-coding	14.0	11.5	6.0	75.0	11.5	7.5	14.0	4.5
Merged-chr11-60912592-4	chr11	60912505	60912705	+	709.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025294, intron 1 of 2)	intron (NM_025294, intron 1 of 2)	1187.0	NM_025294	24083.0	Mm.22780	NM_025294	ENSMUSG00000018931	Natd1	AI256713|F3-2|Gm16515|Gtlf3b	N-acetyltransferase domain containing 1	protein-coding	7.5	1.0	9.0	108.0	15.5	9.0	4.5	11.5
Merged-chr3-136784000-2	chr3	136783900	136784100	+	967.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	113934.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	4.5	5.5	6.5	214.0	13.5	10.0	9.5	6.5
Merged-chr15-59654657-4	chr15	59654555	59654755	+	965.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144549, exon 3 of 3)	exon (NM_144549, exon 3 of 3)	6001.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	22.0	28.5	20.5	400.0	48.0	11.0	17.5	10.0
Merged-chr1-134098378-5	chr1	134098305	134098505	+	869.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12837.0	NM_001284525	71884.0	Mm.328268	NM_027979	ENSMUSG00000026450	Chit1	2300002L19Rik	chitinase 1 (chitotriosidase)	protein-coding	10.5	7.0	11.5	204.0	18.0	4.0	13.5	19.5
Merged-chr1-181144299-4	chr1	181144203	181144403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026171)	promoter-TSS (NM_026171)	-99.0	NM_026171	67459.0	Mm.263464	NM_026171	ENSMUSG00000026516	Nvl	1200009I24Rik	nuclear VCP-like	protein-coding	62.5	122.0	57.5	1234.0	230.5	87.0	92.5	70.5
Merged-chr2-118536702-2	chr2	118536670	118536870	+	991.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 3 of 3)	intron (NM_001331221, intron 3 of 3)	7817.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	4.5	8.0	4.5	35.5	8.5	1.5	1.0	4.5
Merged-chr9-5298260-2	chr9	5298160	5298360	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009807)	promoter-TSS (NM_009807)	-257.0	NM_009807	12362.0	Mm.1051	NM_009807	ENSMUSG00000025888	Casp1	ICE|Il1bc	caspase 1	protein-coding	6.5	19.5	28.0	272.0	22.5	15.0	13.0	25.5
Merged-chr17-47793520-4	chr17	47793441	47793641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7797.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	100.5	148.0	102.0	1452.0	257.5	112.0	119.5	106.0
Merged-chr11-98438977-4	chr11	98438856	98439056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025559)	promoter-TSS (NM_025559)	32.0	NM_025559	103742.0	Mm.259614	NM_025559	ENSMUSG00000002580	Mien1	1810046J19Rik|AI463380|Rdx12	migration and invasion enhancer 1	protein-coding	52.5	106.0	51.5	877.0	120.0	60.0	55.0	57.5
Merged-chr5-30013065-8	chr5	30012969	30013169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031168)	promoter-TSS (NM_031168)	-45.0	NM_001314054	16193.0	Mm.1019	NM_031168	ENSMUSG00000025746	Il6	Il-6	interleukin 6	protein-coding	26.5	72.5	41.0	267.5	143.5	87.0	51.5	52.5
Merged-chr12-24650594-1	chr12	24650494	24650694	+	846.8333130000001	f1_balb.idr	promoter-TSS (NM_178357)	promoter-TSS (NM_178357)	-777.0	NM_178357	194655.0	Mm.9616	NM_178357	ENSMUSG00000020653	Klf11	9830142A17|D12Ertd427e|Tieg2|Tieg2b|Tieg3	Kruppel-like factor 11	protein-coding	5.5	15.5	4.5	221.0	27.0	13.5	4.5	6.5
Merged-chr15-100040896-4	chr15	100040797	100040997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 1 of 37)	intron (NM_001159361, intron 1 of 37)	2233.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	46.0	39.0	46.5	834.5	117.5	24.0	33.0	47.5
Merged-chr10-81407758-4	chr10	81407661	81407861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026756, intron 5 of 8)	intron (NM_026756, intron 5 of 8)	-1814.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	211.0	266.5	156.0	2643.5	459.0	149.0	206.5	166.5
Merged-chr9-105495155-4	chr9	105495039	105495239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175025)	promoter-TSS (NM_175025)	-6.0	NM_001253836	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	129.0	197.0	110.5	1884.0	479.0	184.5	270.5	165.5
Merged-chr8-4677454-4	chr8	4677376	4677576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	64306.0	NM_145591	233987.0	Mm.102799	NM_145591	ENSMUSG00000058748	Zfp958	-	zinc finger protein 958	protein-coding	174.0	285.0	118.0	1940.0	502.5	177.5	210.5	176.5
Merged-chr10-78373031-7	chr10	78372896	78373096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21296.0	NM_053014	28169.0	Mm.141230	NM_053014	ENSMUSG00000001211	Agpat3	AW061257|AW493985|D10Jhu12e|lpaat3	1-acylglycerol-3-phosphate O-acyltransferase 3	protein-coding	32.5	54.5	40.5	373.0	40.0	36.0	33.5	42.5
Merged-chr13-20133876-4	chr13	20133778	20133978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	43371.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	38.5	57.0	42.0	501.0	71.5	31.0	36.0	34.5
Merged-chr8-13647840-4	chr8	13647765	13647965	+	990.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	29722.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	44.5	34.0	32.5	942.0	59.0	15.5	24.0	33.5
Merged-chr6-90462552-4	chr6	90462443	90462643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023184)	promoter-TSS (NM_023184)	-33.0	NM_001355668	66277.0	Mm.38343	NM_023184	ENSMUSG00000030087	Klf15	1810013I09Rik|AV048136|AW494632|CKLF|KKLF	Kruppel-like factor 15	protein-coding	62.5	81.0	62.0	1168.0	208.0	66.5	83.5	49.5
Merged-chr6-38981522-4	chr6	38981415	38981615	+	980.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	intron (NM_011539, intron 3 of 12)	62529.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	21.0	21.5	12.5	514.0	46.5	15.0	35.5	35.5
Merged-chr8-83607524-2	chr8	83607424	83607624	+	858.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018808)	promoter-TSS (NM_018808)	-651.0	NM_018808	81489.0	Mm.282092	NM_018808	ENSMUSG00000005483	Dnajb1	0610007I11Rik|DjB1|HSPF1|Hdj1|Hsp40	DnaJ heat shock protein family (Hsp40) member B1	protein-coding	8.5	10.5	6.0	71.5	15.5	13.5	4.5	6.0
Merged-chr11-70489415-1	chr11	70489315	70489515	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-15859.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	27.5	35.0	12.5	177.0	49.0	27.0	15.5	11.5
Merged-chr11-83602165-4	chr11	83602096	83602296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 2 of 8)	L2a|LINE|L2	-9109.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	27.0	33.0	26.5	327.5	43.5	20.5	21.0	29.0
Merged-chr17-31295282-4	chr17	31295197	31295397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153062)	promoter-TSS (NM_153062)	-186.0	NM_153062	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	37.0	54.0	33.0	409.0	105.0	29.5	37.5	51.5
Merged-chr9-106453624-4	chr9	106453507	106453707	+	955.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021567)	promoter-TSS (NM_021567)	-231.0	NM_021567	59092.0	Mm.286394	NM_021567	ENSMUSG00000023495	Pcbp4	1200003L19Rik|AlphaCP-4	poly(rC) binding protein 4	protein-coding	13.5	6.0	21.5	146.5	15.5	6.5	9.5	12.5
Merged-chr5-113622347-3	chr5	113622270	113622470	+	879.56665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008153, intron 1 of 2)	intron (NM_008153, intron 1 of 2)	21233.0	NM_001359060	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	9.0	9.5	6.5	193.0	5.5	7.5	8.5	9.0
Merged-chr9-25318293-2	chr9	25318193	25318393	+	671.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65401.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	3.0	6.0	3.0	63.0	14.0	5.0	5.5	11.0
Merged-chr12-98265218-4	chr12	98265105	98265305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-3430.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	27.5	32.5	20.5	604.5	48.5	7.0	27.5	28.5
Merged-chr11-89001827-4	chr11	89001713	89001913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	2410.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	67.0	126.5	96.5	1426.0	122.0	37.5	95.5	84.0
Merged-chr10-98941059-3	chr10	98940938	98941138	+	660.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	25886.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	4.0	7.5	8.5	94.0	18.5	8.0	7.5	6.0
Merged-chr10-80538373-3	chr10	80538255	80538455	+	891.7999880000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026094, intron 1 of 27)	intron (NM_026094, intron 1 of 27)	769.0	NM_026094	67331.0	Mm.52511	NM_026094	ENSMUSG00000003341	Atp8b3	1700042F02Rik|1700056N23Rik|ATPIK|SAPLT	ATPase, class I, type 8B, member 3	protein-coding	5.0	20.5	3.0	60.5	43.0	13.5	12.0	10.0
Merged-chr5-111269860-4	chr5	111269757	111269957	+	750.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267622, intron 13 of 22)	intron (NM_001267622, intron 13 of 22)	-60840.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	10.0	12.5	4.5	103.5	9.5	11.5	15.0	7.5
Merged-chr19-6908395-4	chr19	6908335	6908535	+	870.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012021, intron 1 of 5)	intron (NM_012021, intron 1 of 5)	-1263.0	NM_001166370	67674.0	Mm.318804	NM_026306	ENSMUSG00000038812	Trmt112	0610038D11Rik|Trm112p	tRNA methyltransferase 11-2	protein-coding	6.5	17.0	5.0	31.0	26.5	6.5	7.5	15.0
Merged-chr8-67950438-4	chr8	67950334	67950534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177698, intron 3 of 14)	intron (NM_177698, intron 3 of 14)	24140.0	NM_177698	234353.0	Mm.32525	NM_027626	ENSMUSG00000030465	Psd3	4931420C21Rik|AI661273|BC003498|D430018P08|EFA6D	pleckstrin and Sec7 domain containing 3	protein-coding	50.0	64.5	47.5	677.5	79.5	31.5	36.5	43.0
Merged-chr6-149355979-2	chr6	149355879	149356079	+	579.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR1F_Mm|LTR|ERVK	46565.0	NM_001289662	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	0.0	0.0	0.0	10.0	7.5	5.5	7.0	5.0
Merged-chr17-56132832-4	chr17	56132669	56132869	+	915.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013662, exon 2 of 17)	exon (NM_013662, exon 2 of 17)	1083.0	NM_013662	20359.0	Mm.8029	NM_013662	ENSMUSG00000001227	Sema6b	Sema|Seman|VIb|semaZ	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B	protein-coding	7.5	10.5	5.0	76.0	21.5	4.5	2.5	13.5
Merged-chr15-38285793-4	chr15	38285696	38285896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	14104.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	71.0	125.0	133.0	1005.0	172.0	96.5	108.5	91.5
Merged-chr5-67295824-3	chr5	67295687	67295887	+	857.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-11168.0	NM_178651	109108.0	Mm.234455	NM_178651	ENSMUSG00000029221	Slc30a9	2310024J23Rik|AL024256|GAC63|HUEL|znT-9	solute carrier family 30 (zinc transporter), member 9	protein-coding	4.5	0.0	1.0	50.0	46.5	12.5	26.5	16.0
Merged-chr18-65934993-4	chr18	65934904	65935104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013833, exon 3 of 3)	exon (NM_013833, exon 3 of 3)	4085.0	NM_013833	19434.0	Mm.431047	NM_013833	ENSMUSG00000024518	Rax	7530406A22Rik|E130303K03Rik|Rx|ey-1|ey1	retina and anterior neural fold homeobox	protein-coding	32.5	42.5	44.0	656.5	71.0	18.0	40.0	53.5
Merged-chr2-130293712-4	chr2	130293637	130293837	+	965.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2202.0	NM_001110513	228598.0	Mm.32582	NM_152993	ENSMUSG00000053552	Ebf4	Ebf3|O/E-4|Olf-1	early B cell factor 4	protein-coding	31.0	39.0	28.5	511.5	33.0	10.0	14.0	20.5
Merged-chr14-105898936-4	chr14	105898795	105898995	+	981.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2076.0	NM_011897	24064.0	Mm.89982	NM_011897	ENSMUSG00000022114	Spry2	sprouty2	sprouty RTK signaling antagonist 2	protein-coding	28.0	39.5	37.5	597.5	47.5	10.0	23.0	31.5
Merged-chr10-43910812-3	chr10	43910742	43910942	+	907.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_130892, exon 4 of 9)	exon (NM_130892, exon 4 of 9)	9035.0	NM_130892	170728.0	Mm.390253	NM_130892	ENSMUSG00000019864	Rtn4ip1	D10Ertd690e|NIMP	reticulon 4 interacting protein 1	protein-coding	15.5	11.0	25.0	194.0	18.0	8.5	9.0	13.5
Merged-chr1-179561247-4	chr1	179561165	179561365	+	688.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146105, intron 1 of 10)	intron (NM_146105, intron 1 of 10)	14736.0	NM_146105	226744.0	Mm.87662	NM_146105	ENSMUSG00000038949	Cnst	9630058J23Rik	consortin, connexin sorting protein	protein-coding	8.5	16.5	8.0	165.0	10.0	5.5	11.0	21.0
Merged-chr7-88047560-3	chr7	88047465	88047665	+	672.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081414, intron 8 of 9)	intron (NM_001081414, intron 8 of 9)	-230520.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	3.0	6.0	9.5	86.0	14.5	4.5	6.0	8.0
Merged-chr17-56276921-4	chr17	56276811	56277011	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174989)	promoter-TSS (NM_174989)	-144.0	NM_174989	106759.0	Mm.203952	NM_174989	ENSMUSG00000047123	Ticam1	AW046014|AW547018|TICAM-1|TRIF	toll-like receptor adaptor molecule 1	protein-coding	293.0	461.0	287.5	3424.0	661.5	261.5	276.5	238.5
Merged-chr13-81208227-4	chr13	81208107	81208307	+	964.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 85 of 89)	intron (NM_054053, intron 85 of 89)	244133.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	25.0	8.5	19.0	484.0	41.0	8.5	15.0	18.0
Merged-chr12-80435191-4	chr12	80435106	80435306	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177267, intron 1 of 8)	CpG	1395.0	NM_177267	320808.0	Mm.220310	NM_177267	ENSMUSG00000049106	Dcaf5	9430020B07Rik|AI325023|AI430035|AI848110|AW124614|BCRG2|BCRP2|Wdr22	DDB1 and CUL4 associated factor 5	protein-coding	20.5	47.0	16.0	144.0	87.5	29.0	30.5	33.0
Merged-chr13-20125196-4	chr13	20125077	20125277	+	797.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	34670.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	11.0	9.0	8.5	137.5	18.0	6.5	8.0	5.5
Merged-chr6-116682447-4	chr6	116682343	116682543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8607.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	84.0	93.0	72.5	1126.5	179.0	80.0	102.0	91.0
Merged-chr5-62760404-4	chr5	62760309	62760509	+	945.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 1 of 32)	RSINE1|SINE|B4	5768.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	17.0	17.0	8.5	275.5	46.5	9.5	12.0	17.5
Merged-chr18-68299322-4	chr18	68299221	68299421	+	892.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153794, intron 1 of 3)	intron (NM_153794, intron 1 of 3)	1012.0	NM_153794	108654.0	Mm.125857	NM_153794	ENSMUSG00000038121	Fam210a	4933403F05Rik|AA987140|AV134576|AW491926	family with sequence similarity 210, member A	protein-coding	3.0	13.5	8.5	141.0	36.5	7.0	16.5	13.0
Merged-chr11-88201400-3	chr11	88201299	88201499	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291270, intron 1 of 4)	intron (NM_001291270, intron 1 of 4)	-2989.0	NM_024174	64656.0	Mm.168680	NM_024174	ENSMUSG00000023723	Mrps23	D11Bwg1153e|MRP-S23|Rpms23|S23mt	mitochondrial ribosomal protein S23	protein-coding	8.0	5.5	12.5	237.5	4.0	0.0	0.5	5.0
Merged-chr11-58965687-1	chr11	58965587	58965787	+	584.0	f1_balb.idr	intron (NM_031172, intron 2 of 6)	intron (NM_031172, intron 2 of 6)	1906.0	NM_031172	56631.0	Mm.179733	NM_031172	ENSMUSG00000036964	Trim17	Rnf16|terf	tripartite motif-containing 17	protein-coding	6.5	5.5	11.0	65.0	9.5	3.5	3.0	4.5
Merged-chr13-94721956-2	chr13	94721856	94722056	+	947.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66987.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	5.5	5.0	3.0	29.5	21.5	6.0	8.0	11.5
Merged-chr12-85465094-4	chr12	85464994	85465194	+	960.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8796.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	36.0	8.0	7.5	362.0	35.0	12.5	17.0	16.0
Merged-chr11-109380852-4	chr11	109380741	109380941	+	902.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001359034)	TTS (NM_001359034)	-17187.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	10.0	16.5	4.0	180.0	33.5	19.0	10.0	17.0
Merged-chr12-79298367-2	chr12	79298267	79298467	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252562, intron 1 of 7)	intron (NM_001252562, intron 1 of 7)	1016.0	NM_001252562	19363.0	Mm.341756	NM_009014	ENSMUSG00000059060	Rad51b	AI553500|R51H2|Rad51l1|mREC2	RAD51 paralog B	protein-coding	9.5	18.5	8.5	153.5	40.5	6.0	12.0	11.0
Merged-chr2-117105497-4	chr2	117105392	117105592	+	883.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-15579.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	13.0	11.0	26.5	333.0	28.5	11.0	8.0	15.5
Merged-chr3-52048325-3	chr3	52048239	52048439	+	846.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	56667.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	2.5	4.0	3.0	88.5	17.0	9.0	5.5	18.5
Merged-chr3-130888066-3	chr3	130887964	130888164	+	792.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-157666.0	NM_001005859	68436.0	Mm.140568	NM_026724	ENSMUSG00000062006	Rpl34	1100001I22Rik	ribosomal protein L34	protein-coding	4.5	16.5	3.0	47.0	23.0	7.0	14.0	13.0
Merged-chr6-83637878-4	chr6	83637780	83637980	+	999.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	18236.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	57.5	57.5	112.0	1693.0	98.0	14.5	68.0	67.5
Merged-chr4-119536765-4	chr4	119536673	119536873	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004178, intron 1 of 3)	intron (NM_001004178, intron 1 of 3)	1996.0	NM_001004178	433752.0	Mm.425205	NM_001004178	ENSMUSG00000087385	Frg2f1	AA415398	FSHD region gene 2 family member 1	protein-coding	18.0	31.5	25.5	315.5	62.0	23.0	23.0	19.0
Merged-chr8-95853505-4	chr8	95853409	95853609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172758)	promoter-TSS (NM_172758)	-18.0	NM_172758	234595.0	Mm.29267	NM_172758	ENSMUSG00000036534	Slc38a7	D430050E18	solute carrier family 38, member 7	protein-coding	54.0	75.0	37.0	799.0	153.5	33.5	45.0	49.5
Merged-chr8-31031839-4	chr8	31031746	31031946	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57681.0	NM_025869	66959.0	Mm.23916	NM_025869	ENSMUSG00000039661	Dusp26	2310043K02Rik|Skrp3	dual specificity phosphatase 26 (putative)	protein-coding	8.5	9.0	14.0	215.5	99.5	48.5	32.5	53.5
Merged-chr18-53921169-4	chr18	53921076	53921276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 6 of 12)	intron (NM_152809, intron 6 of 12)	59063.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	33.5	41.0	32.5	748.5	137.0	42.0	66.0	39.5
Merged-chr1-136636894-6	chr1	136636767	136636967	+	770.8229980000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	11966.0	NM_001160251	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	8.5	11.5	7.5	117.0	22.0	6.0	10.5	14.5
Merged-chr2-68888332-4	chr2	68888190	68888390	+	978.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	26849.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	14.0	41.5	29.5	543.0	21.5	12.5	19.0	7.5
Merged-chr19-4037957-4	chr19	4037862	4038062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013541)	promoter-TSS (NM_013541)	-50.0	NM_013541	14870.0	Mm.299292	NM_013541	ENSMUSG00000060803	Gstp1	GstpiB	glutathione S-transferase, pi 1	protein-coding	56.5	48.5	30.0	397.5	75.5	41.5	35.0	48.5
Merged-chr7-112258725-3	chr7	112258620	112258820	+	876.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001193305, intron 2 of 25)	intron (NM_001193305, intron 2 of 25)	32884.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	4.5	14.0	11.0	98.5	2.0	0.0	1.0	0.5
Merged-chr18-39735020-2	chr18	39734920	39735120	+	675.599976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38477.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	9.5	3.5	9.5	53.5	9.5	5.5	9.0	6.5
Merged-chr14-27376272-4	chr14	27376179	27376379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 3 of 10)	intron (NM_027871, intron 3 of 10)	14890.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	70.0	122.0	67.0	780.0	184.5	62.0	69.5	70.5
Merged-chr12-103036845-3	chr12	103036746	103036946	+	796.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081017, intron 7 of 48)	L1MEc|LINE|L1	87987.0	NM_001081017	217843.0	Mm.387073	NM_177621	ENSMUSG00000021198	Unc79	9030205A07Rik|Mlca3	unc-79 homolog (C. elegans)	protein-coding	11.0	8.0	16.5	94.0	12.0	6.0	4.5	3.0
Merged-chr3-148978277-4	chr3	148978177	148978377	+	944.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23642.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	23.5	32.5	26.5	284.0	47.0	12.5	13.5	2.5
Merged-chr8-13964674-4	chr8	13964573	13964773	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361630, intron 2 of 3)	intron (NM_001361630, intron 2 of 3)	10104.0	NM_173744	72148.0	Mm.5727	NM_173744	ENSMUSG00000050052	Tdrp	2610019F03Rik	testis development related protein	protein-coding	18.0	38.0	35.5	370.5	45.0	31.5	46.0	24.5
Merged-chr1-74505924-4	chr1	74505823	74506023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310662)	promoter-TSS (NM_001310662)	-102.0	NM_001310662	319651.0	Mm.66568	NM_176972	ENSMUSG00000033364	Usp37	4932415L06Rik|C330008N13Rik	ubiquitin specific peptidase 37	protein-coding	276.5	374.0	213.0	3082.0	553.0	203.5	250.5	224.0
Merged-chr10-63240979-4	chr10	63240877	63241077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-2820.0	NM_030114	67345.0	Mm.234437	NM_026101	ENSMUSG00000020064	Herc4	1700056O17Rik|4921531D01Rik|9530080M15Rik|mKIAA1593	hect domain and RLD 4	protein-coding	53.5	69.0	28.0	272.0	196.5	52.0	81.5	35.5
Merged-chr7-92636675-1	chr7	92636575	92636775	+	1000.0	f0_balb.idr	5' UTR (NM_028665, exon 1 of 12)	5' UTR (NM_028665, exon 1 of 12)	467.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	11.5	18.0	25.5	298.0	31.0	13.0	25.5	17.5
Merged-chr5-134455629-4	chr5	134455535	134455735	+	949.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081462, intron 1 of 29)	intron (NM_001081462, intron 1 of 29)	627.0	NM_001081465	57080.0	Mm.332735	NM_020331	ENSMUSG00000023079	Gtf2ird1	1700012P16Rik|BEN|Cream1|ESTM9|GTF3|Gtf2il|MusTRD1|Tg(Alb1-Myc)166.8Sst|WBSCR11|X83320	general transcription factor II I repeat domain-containing 1	protein-coding	13.0	23.0	14.5	241.5	28.0	10.0	8.5	20.0
Merged-chr12-112617395-4	chr12	112617311	112617511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2636.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	141.0	209.5	101.5	2141.0	262.5	112.5	136.0	95.0
Merged-chr11-98027045-4	chr11	98026965	98027165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009078, intron 1 of 5)	CpG	141.0	NM_009078	19921.0	Mm.10247	NM_009078	ENSMUSG00000017404	Rpl19	-	ribosomal protein L19	protein-coding	41.5	76.5	47.5	399.5	99.0	47.0	38.0	42.5
Merged-chr19-32223926-4	chr19	32223829	32224029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 4 of 9)	intron (NM_144792, intron 4 of 9)	-12916.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	282.0	480.0	301.5	3313.0	556.5	202.0	199.5	155.0
Merged-chr9-124080644-4	chr9	124080537	124080737	+	937.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEy-int|LTR|ERVK	-21546.0	NM_009915	12772.0	Mm.6272	NM_009915	ENSMUSG00000049103	Ccr2	Cc-ckr-2|Ccr2a|Ccr2b|Ckr2|Ckr2a|Ckr2b|Cmkbr2|mJe-r	chemokine (C-C motif) receptor 2	protein-coding	16.0	23.5	10.5	26.5	57.0	25.5	15.5	21.0
Merged-chr7-110221269-3	chr7	110221179	110221379	+	921.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009302)	promoter-TSS (NM_009302)	-424.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	16.5	15.5	18.5	111.0	33.5	11.0	12.0	8.5
Merged-chr2-34913856-1	chr2	34913756	34913956	+	654.75	f0_balb.idr	intron (NM_028716, intron 1 of 14)	CpG	120.0	NM_028716	74016.0	Mm.65691	NM_028716	ENSMUSG00000026873	Phf19	3110009G19Rik|3321402G02Rik	PHD finger protein 19	protein-coding	10.0	19.0	11.0	111.0	19.5	10.0	2.0	6.0
Merged-chr19-24417848-4	chr19	24417737	24417937	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008846, intron 3 of 14)	intron (NM_008846, intron 3 of 14)	59637.0	NM_026520	68034.0	Mm.440181	NM_026520	ENSMUSG00000074922	Fam122a	2410124L17Rik|2900009I07Rik|Gm9849	family with sequence similarity 122, member A	protein-coding	17.0	20.5	24.5	389.5	103.0	29.5	35.0	36.0
Merged-chr1-138261689-4	chr1	138261554	138261754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12084.0	NM_177397	338375.0	Mm.114424	NM_177397	ENSMUSG00000026394	Atp6v1g3	-	ATPase, H+ transporting, lysosomal V1 subunit G3	protein-coding	75.5	123.0	94.5	1428.0	131.0	55.0	58.0	62.0
Merged-chr18-9494004-3	chr18	9493896	9494096	+	965.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43842.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	24.5	10.5	21.5	340.5	35.5	6.0	5.0	20.0
Merged-chr13-94295093-3	chr13	94294988	94295188	+	785.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-9257.0	NM_001346609	107767.0	Mm.201455	NM_029153	ENSMUSG00000021687	Scamp1	4930505M11Rik|AI415563|AW122395	secretory carrier membrane protein 1	protein-coding	9.5	16.0	10.5	234.0	17.5	3.5	3.0	7.5
Merged-chr2-121271492-4	chr2	121271390	121271590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290830)	promoter-TSS (NM_001290830)	-83.0	NM_013735	27223.0	Mm.215389	NM_013735	ENSMUSG00000043909	Trp53bp1	53BP1|Tp53bp1|m53BP1|p53BP1	transformation related protein 53 binding protein 1	protein-coding	123.5	159.0	86.5	1885.0	319.5	107.0	150.0	116.5
Merged-chr17-6697358-4	chr17	6697255	6697455	+	960.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183370, intron 1 of 12)	intron (NM_183370, intron 1 of 12)	8283.0	NM_183370	83672.0	Mm.442201	NM_031395	ENSMUSG00000041831	Sytl3	A430092N21|Slp3|Slp3-a|Slp3-b|mFLJ00307	synaptotagmin-like 3	protein-coding	24.5	44.5	32.0	192.5	36.5	23.5	17.5	14.5
Merged-chr3-105931315-4	chr3	105931226	105931426	+	807.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033780, intron 1 of 5)	intron (NM_001033780, intron 1 of 5)	1338.0	NM_001033780	433638.0	Mm.239081	NM_001033780	ENSMUSG00000074342	I830077J02Rik	-	RIKEN cDNA I830077J02 gene	protein-coding	13.5	14.0	15.0	382.0	28.5	7.0	11.0	7.0
Merged-chr1-120123192-3	chr1	120123162	120123362	+	984.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172074, intron 1 of 4)	intron (NM_001172074, intron 1 of 4)	2075.0	NM_001172074	73103.0	Mm.271602	NM_028439	ENSMUSG00000026388	3110009E18Rik	-	RIKEN cDNA 3110009E18 gene	protein-coding	8.5	19.0	16.5	149.0	31.0	7.5	6.5	5.5
Merged-chr9-45093023-3	chr9	45092942	45093142	+	774.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 5 of 10)	intron (NM_001005421, intron 5 of 10)	13859.0	NM_001005421	270152.0	Mm.190461	NM_001005421	ENSMUSG00000048534	Jaml	AMICA|Amica1|Crea7|Gm638	junction adhesion molecule like	protein-coding	10.5	11.0	7.0	144.0	1.0	2.0	1.0	0.5
Merged-chr11-44390191-4	chr11	44390101	44390301	+	991.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9862.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	25.5	99.5	41.5	331.5	77.0	52.0	35.5	20.0
Merged-chr7-75370691-1	chr7	75370591	75370791	+	710.666687	f0_balb.idr	Intergenic	Intergenic	-61429.0	NM_153579	64176.0	Mm.273082	NM_153579	ENSMUSG00000053025	Sv2b	A830038F04Rik|AI850768|mKIAA0735	synaptic vesicle glycoprotein 2 b	protein-coding	8.0	16.5	8.5	87.5	4.0	1.0	2.0	3.0
Merged-chr14-25457786-4	chr14	25457705	25457905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1380.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	23.5	58.5	36.0	648.0	85.5	30.5	38.0	27.0
Merged-chr5-121721522-3	chr5	121721416	121721616	+	847.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	ID4|SINE|ID	9907.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	11.0	13.0	7.0	55.5	19.5	6.0	4.0	14.0
Merged-chr11-98889372-3	chr11	98889262	98889462	+	908.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197940, intron 2 of 7)	MTB_Mm|LTR|ERVL-MaLR	-18527.0	NM_001025779	23834.0	Mm.20912	NM_011799	ENSMUSG00000017499	Cdc6	CDC18L	cell division cycle 6	protein-coding	18.5	17.0	7.0	22.0	11.0	13.5	8.0	11.5
Merged-chr3-96223111-4	chr3	96222998	96223198	+	875.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178214, exon 1 of 1)	3' UTR (NM_178214, exon 1 of 1)	2026.0	NM_178214	319190.0	Mm.439791	NM_178214	ENSMUSG00000068854	Hist2h2be	AV127319|H2b-613|T25626	histone cluster 2, H2be	protein-coding	2.0	6.5	9.0	68.5	14.5	13.0	13.0	18.5
Merged-chr5-75151328-3	chr5	75151235	75151435	+	843.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347718)	promoter-TSS (NM_001347718)	-916.0	NR_144636	18595.0	Mm.221403	NM_011058	ENSMUSG00000029231	Pdgfra	AI115593|CD140a|Pdgfr-2	platelet derived growth factor receptor, alpha polypeptide	protein-coding	8.5	12.0	8.0	69.5	15.0	9.5	8.0	6.0
Merged-chr15-78447866-3	chr15	78447763	78447963	+	917.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355601, intron 10 of 17)	intron (NM_001355601, intron 10 of 17)	19299.0	NR_110357	72844.0	Mm.390816	NM_001081367	ENSMUSG00000033287	Kctd17	2900008M13Rik|AA414907|AW742389|N28155	potassium channel tetramerisation domain containing 17	protein-coding	13.0	18.0	4.5	91.5	39.0	6.0	9.5	2.5
Merged-chr4-86676233-3	chr4	86676189	86676389	+	750.766663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR34B_MM|LTR|ERVK	-6230.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	2.0	6.0	6.5	51.0	17.0	12.0	12.5	21.5
Merged-chr1-88008399-4	chr1	88008308	88008508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033291, intron 1 of 27)	CpG	143.0	NM_001198573	227334.0	Mm.80484	NM_001033291	ENSMUSG00000005501	Usp40	B230215L03Rik|C730029K03	ubiquitin specific peptidase 40	protein-coding	17.0	36.0	44.5	323.0	42.0	17.0	18.5	15.5
Merged-chr9-35268494-3	chr9	35268393	35268593	+	949.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175411)	promoter-TSS (NM_175411)	612.0	NM_028040	71989.0	Mm.273515	NM_028040	ENSMUSG00000032044	Rpusd4	2410001E19Rik	RNA pseudouridylate synthase domain containing 4	protein-coding	10.0	12.5	7.5	220.0	14.5	3.0	3.0	8.0
Merged-chr1-71974925-4	chr1	71974825	71975025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040454, intron 1 of 2)	intron (NR_040454, intron 1 of 2)	30270.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	64.0	104.5	98.0	1810.0	138.5	51.0	85.0	61.5
Merged-chr19-34621105-4	chr19	34621020	34621220	+	955.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053217, intron 2 of 2)	MTD|LTR|ERVL-MaLR	8691.0	NM_001362130	112419.0	Mm.440727	NM_053217	ENSMUSG00000067297	Ifit1bl2	2010002M12Rik|AW412491|Ifit1b	interferon induced protein with tetratricopeptide repeats 1B like 2	protein-coding	5.0	19.0	18.5	69.0	46.0	11.5	7.0	6.0
Merged-chr16-75929721-4	chr16	75929609	75929809	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20443.0	NM_023380	67742.0	Mm.131406	NM_023380	ENSMUSG00000022876	Samsn1	4930571B16Rik|930571B16Rik|Hacs1|SLy2	SAM domain, SH3 domain and nuclear localization signals, 1	protein-coding	18.5	28.0	32.5	294.0	26.0	15.0	10.0	17.0
Merged-chr1-106933883-4	chr1	106933781	106933981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027971)	promoter-TSS (NM_027971)	-568.0	NM_027971	71869.0	Mm.321740	NM_027971	ENSMUSG00000059956	Serpinb12	2300003F07Rik|4833409F13Rik	serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 12	protein-coding	23.5	36.5	30.0	448.0	52.5	25.0	30.5	28.5
Merged-chr2-27704045-3	chr2	27703971	27704171	+	677.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011305, intron 1 of 9)	intron (NM_011305, intron 1 of 9)	-5221.0	NM_001290481	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	7.0	5.0	8.0	126.5	9.5	2.5	2.0	4.5
Merged-chr4-6209752-4	chr4	6209644	6209844	+	960.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026534, intron 6 of 7)	L3|LINE|CR1	18639.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	22.0	14.5	12.5	199.5	55.5	30.0	24.0	29.0
Merged-chr11-17002056-2	chr11	17001976	17002176	+	712.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 1 of 9)	L1_Mus1|LINE|L1	6642.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	9.5	8.0	4.0	55.5	9.5	5.0	7.0	6.5
Merged-chr4-129640937-7	chr4	129640823	129641023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005506)	promoter-TSS (NM_001005506)	-118.0	NM_001005506	109658.0	Mm.268863	NM_001005506	ENSMUSG00000053841	Txlna	2600010N21Rik|AI425952|AW209241|Il14|Txln	taxilin alpha	protein-coding	68.0	104.5	87.5	743.5	159.0	72.0	47.0	84.0
Merged-chr11-61855053-4	chr11	61854968	61855168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013881)	promoter-TSS (NM_013881)	24.0	NM_013881	29869.0	Mm.162025	NM_013881	ENSMUSG00000004798	Ulk2	A830085I22Rik|AU015340|Unc51.2|mKIAA0623	unc-51 like kinase 2	protein-coding	31.0	56.0	30.5	351.5	114.0	45.5	30.0	49.0
Merged-chr14-27355255-4	chr14	27355139	27355339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	L1MC4a|LINE|L1	-6150.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	69.0	138.5	70.0	473.0	214.0	77.0	46.5	37.5
Merged-chr2-32859320-3	chr2	32859229	32859429	+	820.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12092.0	NM_001113569	20910.0	Mm.278865	NM_009295	ENSMUSG00000026797	Stxbp1	AI317162|AI326233|MMS10-G|Ms10g|Munc-18a|Munc18-1|N-sec1|Rb-sec1|Sxtbp1|Unc18-1|Unc18h|nsec1	syntaxin binding protein 1	protein-coding	8.0	13.5	10.0	50.0	16.0	5.5	1.5	5.5
Merged-chr5-138227525-4	chr5	138227423	138227623	+	989.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013773, intron 1 of 5)	URR1B|DNA|hAT-Charlie	1619.0	NM_001013773	381680.0	Mm.156846	NM_001013773	ENSMUSG00000047592	Nxpe5	-	neurexophilin and PC-esterase domain family, member 5	protein-coding	71.5	106.5	91.5	928.5	73.5	25.0	15.5	29.0
Merged-chr7-128180272-3	chr7	128180147	128180347	+	920.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029872, intron 5 of 30)	intron (NM_001029872, intron 5 of 30)	6301.0	NM_001029872	381924.0	Mm.334257	NM_001029872	ENSMUSG00000070369	Itgad	Cd11d	integrin, alpha D	protein-coding	10.0	13.5	11.0	107.0	15.0	3.5	7.5	12.0
Merged-chr14-54405441-4	chr14	54405338	54405538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011405, intron 4 of 11)	L1M2|LINE|L1	4034.0	NM_001253680	20540.0	Mm.142455	NM_011405	ENSMUSG00000000958	Slc7a7	AI790233|my+lat1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 7	protein-coding	63.0	64.5	90.0	1092.5	110.5	39.5	23.0	27.5
Merged-chr14-54714289-4	chr14	54714182	54714382	+	956.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2108.0	NM_207131	110794.0	Mm.236223	NM_207131	ENSMUSG00000052435	Cebpe	C/EBPe|C/EBPepsilon|CRP1|Gm294	CCAAT/enhancer binding protein (C/EBP), epsilon	protein-coding	29.5	54.0	29.0	353.0	51.5	13.0	16.5	21.5
Merged-chr10-91182151-3	chr10	91182052	91182252	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Asp-GAY|tRNA|tRNA	-10533.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	32.5	43.5	24.5	473.5	133.5	25.0	58.0	36.5
Merged-chr2-83994119-4	chr2	83994022	83994222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52896.0	NM_027964	71861.0	Mm.116957	NM_027964	ENSMUSG00000034552	Zswim2	1700025P14Rik|4933437F18Rik|MEX	zinc finger SWIM-type containing 2	protein-coding	30.0	26.5	30.0	350.5	55.0	24.5	23.0	26.0
Merged-chr12-83703373-4	chr12	83703269	83703469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362271, intron 3 of 11)	L1ME2|LINE|L1	14806.0	NM_008943	19164.0	Mm.998	NM_008943	ENSMUSG00000019969	Psen1	Ad3h|PS-1|PS1|S182	presenilin 1	protein-coding	15.5	44.5	36.5	454.5	55.5	22.0	24.5	32.5
Merged-chr12-112861008-3	chr12	112860900	112861100	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019925)	promoter-TSS (NM_019925)	-84.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	22.0	21.0	4.5	94.5	30.5	2.0	5.0	12.5
Merged-chr6-42344410-4	chr6	42344376	42344576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5352.0	NM_001289619	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	35.5	37.5	58.5	687.0	65.5	21.0	22.5	16.0
Merged-chr18-24223733-4	chr18	24223664	24223864	+	931.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361200, intron 1 of 12)	intron (NM_001361200, intron 1 of 12)	17770.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	17.5	26.5	27.0	436.5	43.5	8.0	11.0	9.5
Merged-chr8-36093743-3	chr8	36093625	36093825	+	892.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1103.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	6.0	14.0	12.0	178.0	16.5	4.5	5.5	8.5
Merged-chr19-32292700-4	chr19	32292614	32292814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	56602.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	55.0	27.5	42.5	708.0	56.0	20.5	40.5	24.0
Merged-chr8-40408112-3	chr8	40408029	40408229	+	716.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15686.0	NM_178395	70546.0	Mm.34326	NM_178395	ENSMUSG00000039470	Zdhhc2	5730415P04Rik|6430583A19Rik|DHHC-2	zinc finger, DHHC domain containing 2	protein-coding	7.5	14.5	8.0	170.5	4.0	0.0	2.0	4.0
Merged-chr7-80688247-4	chr7	80688106	80688306	+	844.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173863, intron 1 of 14)	CpG	671.0	NM_173863	70461.0	Mm.392175	NM_173863	ENSMUSG00000030527	Crtc3	2610312F20Rik|6332415K15Rik|AI429792|BC011210|TORC3	CREB regulated transcription coactivator 3	protein-coding	14.0	14.5	10.5	72.5	30.0	8.5	12.5	22.5
Merged-chr19-45659739-4	chr19	45659579	45659779	+	886.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013907, intron 1 of 8)	CpG	514.0	NM_013907	30838.0	Mm.254739	NM_013907	ENSMUSG00000040913	Fbxw4	Dac|Fbw4|SHFM3|SHSF3|dactylin|dactylyn	F-box and WD-40 domain protein 4	protein-coding	11.0	18.0	20.5	192.0	50.0	14.5	12.5	16.5
Merged-chr5-96917068-4	chr5	96916966	96917166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4206.0	NR_131152	666266.0	Mm.32442	NR_131152	ENSMUSG00000106357	Gm8013	EG666266	predicted gene 8013	ncRNA	55.5	88.0	27.0	412.0	249.0	79.5	79.0	79.5
Merged-chr2-180256421-3	chr2	180256309	180256509	+	954.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025587)	promoter-TSS (NM_025587)	-970.0	NM_025587	66481.0	Mm.289669	NM_025587	ENSMUSG00000039001	Rps21	1810049N11Rik|2410030A14Rik	ribosomal protein S21	protein-coding	5.0	13.5	10.0	30.5	30.5	9.5	9.5	19.0
Merged-chr2-180710102-4	chr2	180710021	180710221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177852)	promoter-TSS (NM_177852)	-105.0	NM_001289652	76425.0	Mm.41464	NM_029607	ENSMUSG00000027573	Gid8	2310003C23Rik|4833420G11Rik|AI451474|Twa1	GID complex subunit 8	protein-coding	118.5	197.0	106.5	1587.0	355.5	133.5	117.0	127.0
Merged-chr9-64936689-4	chr9	64936593	64936793	+	820.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144813, intron 3 of 9)	intron (NM_144813, intron 3 of 9)	14914.0	NM_144813	214111.0	Mm.156124	NM_144813	ENSMUSG00000034452	Slc24a1	-	solute carrier family 24 (sodium/potassium/calcium exchanger), member 1	protein-coding	12.0	4.5	2.0	64.5	26.5	5.0	13.5	9.5
Merged-chr5-97111740-4	chr5	97111649	97111849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198422)	promoter-TSS (NM_198422)	-153.0	NM_001359913	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	134.5	229.5	161.5	1578.0	308.0	129.0	147.0	114.5
Merged-chr8-35469169-3	chr8	35469064	35469264	+	898.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026067, exon 7 of 7)	exon (NM_026067, exon 7 of 7)	26369.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	16.0	21.5	9.5	254.5	22.0	7.0	3.0	4.5
Merged-chr16-4839810-4	chr16	4839707	4839907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030192, intron 1 of 15)	MIRb|SINE|MIR	4391.0	NM_030192	78809.0	Mm.325551	NM_030192	ENSMUSG00000022518	4930562C15Rik	-	RIKEN cDNA 4930562C15 gene	protein-coding	99.5	65.0	97.0	1814.5	163.0	53.0	100.0	98.0
Merged-chr5-130078294-4	chr5	130078195	130078395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013837, intron 1 of 5)	intron (NM_013837, intron 1 of 5)	-1075.0	NM_001130476	22021.0	Mm.332720	NM_013837	ENSMUSG00000034118	Tpst1	R75054|Tango13a	protein-tyrosine sulfotransferase 1	protein-coding	18.0	30.0	23.0	377.0	43.0	5.0	25.5	19.5
Merged-chr14-14349789-10	chr14	14349731	14349931	+	922.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008369, intron 5 of 11)	intron (NM_008369, intron 5 of 11)	3336.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	10.5	14.0	8.0	131.0	35.5	13.0	9.0	12.5
Merged-chr7-44548896-4	chr7	44548798	44548998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011131)	promoter-TSS (NM_011131)	-83.0	NM_011131	18971.0	Mm.16549	NM_011131	ENSMUSG00000038644	Pold1	125kDa	polymerase (DNA directed), delta 1, catalytic subunit	protein-coding	281.0	411.0	217.5	3393.0	664.0	263.0	317.0	242.0
Merged-chr9-107533991-4	chr9	107533873	107534073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019704)	promoter-TSS (NM_019704)	28.0	NM_019704	56395.0	Mm.260153	NM_019704	ENSMUSG00000010045	Tmem115	C78915|Pl6|Pp6	transmembrane protein 115	protein-coding	129.0	214.5	128.0	2213.5	281.0	90.0	135.5	113.5
Merged-chr9-110685776-4	chr9	110685680	110685880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	intron (NM_028312, intron 1 of 6)	29277.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	26.0	39.5	25.5	469.5	70.0	37.5	32.0	35.5
Merged-chr17-56256056-4	chr17	56255911	56256111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010192)	promoter-TSS (NM_010192)	-782.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	169.0	268.0	130.0	2610.5	396.5	148.0	155.0	139.0
Merged-chr13-111789630-7	chr13	111789523	111789723	+	935.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011945, intron 1 of 19)	intron (NM_011945, intron 1 of 19)	19370.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	10.5	15.5	15.0	207.5	23.5	9.5	11.0	7.0
Merged-chr15-99259763-3	chr15	99259620	99259820	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045627, intron 1 of 2)	intron (NR_045627, intron 1 of 2)	-7759.0	NM_016766	51812.0	Mm.383472	NM_016766	ENSMUSG00000037570	Mcrs1	C78274|ICP22BP|MSP58|P78	microspherule protein 1	protein-coding	19.5	32.0	11.5	266.5	50.0	23.5	21.5	17.0
Merged-chr2-147009995-4	chr2	147009876	147010076	+	709.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3023.0	NM_001356403	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	6.0	12.0	16.0	101.5	24.0	13.5	11.5	10.0
Merged-chr3-89103191-4	chr3	89103085	89103285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1218.0	NM_001253751	110196.0	Mm.39472	NM_134469	ENSMUSG00000059743	Fdps	6030492I17Rik|AI256750|Fdpsl1|mKIAA1293	farnesyl diphosphate synthetase	protein-coding	28.5	35.5	20.0	536.0	84.0	32.0	30.0	43.0
Merged-chr8-72008537-4	chr8	72008445	72008645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024444, intron 2 of 12)	intron (NM_024444, intron 2 of 12)	1081.0	NM_024444	72054.0	Mm.160020	NM_024444	ENSMUSG00000003484	Cyp4f18	1810054N16Rik|Cyp4f3|Cypf18	cytochrome P450, family 4, subfamily f, polypeptide 18	protein-coding	93.0	128.0	106.5	1545.5	221.0	74.5	107.0	91.0
Merged-chr4-149445472-4	chr4	149445379	149445579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	9489.0	NM_022020	63954.0	Mm.46023	NM_022020	ENSMUSG00000028996	Rbp7	1110002J23Rik|CRBP-III	retinol binding protein 7, cellular	protein-coding	135.5	170.5	144.0	2164.0	343.0	96.5	163.5	108.5
Merged-chr13-100451335-4	chr13	100451212	100451412	+	943.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008670, intron 1 of 15)	ID_B1|SINE|B4	1552.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	9.5	46.0	25.5	74.0	105.5	18.5	28.0	21.0
Merged-chr3-86947634-4	chr3	86947521	86947721	+	888.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-26737.0	NM_001195498	70762.0	Mm.44490	NM_027539	ENSMUSG00000028078	Dclk2	6330415M09Rik|AU044875|CL2|CLICK2|Click-II|Dcamkl2	doublecortin-like kinase 2	protein-coding	93.5	137.5	110.0	1747.0	25.5	7.5	8.5	10.5
Merged-chr6-116338040-4	chr6	116337945	116338145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302383)	promoter-TSS (NM_001302383)	23.0	NM_001302383	71779.0	Mm.27064	NM_027920	ENSMUSG00000025702	March8	1300017E09Rik|MARCH-VIII|Mir	membrane-associated ring finger (C3HC4) 8	protein-coding	90.0	137.0	85.5	1336.0	217.0	68.0	67.5	94.5
Merged-chr3-10342721-4	chr3	10342633	10342833	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025512, intron 6 of 7)	RLTR20D|LTR|ERVK	-7077.0	NM_001010834	241877.0	Mm.442146	NM_001010834	ENSMUSG00000058921	Slc10a5	Gm405|mP5	solute carrier family 10 (sodium/bile acid cotransporter family), member 5	protein-coding	102.0	159.0	119.5	1468.0	253.5	80.5	110.5	73.5
Merged-chr9-108692679-6	chr9	108692688	108692888	+	962.305542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008924, intron 1 of 10)	CpG	645.0	NM_008924	19087.0	Mm.253102	NM_008924	ENSMUSG00000032601	Prkar2a	1110061A24Rik|AI317181|AI836829|RII(alpha)	protein kinase, cAMP dependent regulatory, type II alpha	protein-coding	8.5	14.0	7.0	148.5	24.5	16.5	12.5	14.0
Merged-chr11-59228217-4	chr11	59228113	59228313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130408)	promoter-TSS (NM_001130408)	-51.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	86.5	144.0	73.5	913.0	223.0	128.5	119.0	109.0
Merged-chr14-103392575-4	chr14	103392488	103392688	+	873.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45788.0	NM_207215	105689.0	Mm.6478	NM_207215	ENSMUSG00000033004	Mycbp2	AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243	MYC binding protein 2	protein-coding	12.0	12.0	10.0	157.0	27.5	6.0	14.0	3.5
Merged-chr4-133631612-4	chr4	133631498	133631698	+	808.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017968, intron 1 of 7)	intron (NM_001017968, intron 1 of 7)	1831.0	NM_001017968	503610.0	Mm.331948	NM_001017968	ENSMUSG00000037553	Zdhhc18	-	zinc finger, DHHC domain containing 18	protein-coding	6.0	13.0	11.0	138.0	18.0	3.5	10.5	13.5
Merged-chr15-82417727-4	chr15	82417633	82417833	+	811.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10539.0	NM_010005	13101.0	Mm.174372	NM_010005	ENSMUSG00000094806	Cyp2d10	AI303445|Cyp2d|P450-2D	cytochrome P450, family 2, subfamily d, polypeptide 10	protein-coding	9.0	11.5	3.5	134.5	34.0	6.0	12.5	15.0
Merged-chr2-145825410-4	chr2	145825308	145825508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	39292.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	61.5	58.0	100.0	1932.5	116.0	44.5	103.5	72.5
Merged-chr12-83972335-4	chr12	83972231	83972431	+	976.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15530.0	NM_134188	171210.0	Mm.371675	NM_134188	ENSMUSG00000021226	Acot2	AA571646|MTE-I|Mte1	acyl-CoA thioesterase 2	protein-coding	19.0	41.0	14.0	297.0	52.0	18.5	16.5	22.0
Merged-chr15-103453704-4	chr15	103453598	103453798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153505)	promoter-TSS (NM_153505)	-127.0	NM_153505	105855.0	Mm.30805	NM_153505	ENSMUSG00000022488	Nckap1l	4930568P13Rik|AI463083|Hem1|Hemp1	NCK associated protein 1 like	protein-coding	156.5	202.0	147.0	2342.5	341.0	118.0	187.5	141.0
Merged-chr10-62311596-4	chr10	62311513	62311713	+	937.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010438, intron 5 of 21)	intron (NM_010438, intron 5 of 21)	28808.0	NM_001146100	15275.0	Mm.196605	NM_010438	ENSMUSG00000037012	Hk1	BB404130|Hk-1|Hk1-s|dea|mHk1-s	hexokinase 1	protein-coding	17.5	11.5	23.0	398.5	32.5	8.5	29.5	20.5
Merged-chr17-36967021-4	chr17	36966900	36967100	+	921.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8408.0	NM_029602	76416.0	Mm.26684	NM_029602	ENSMUSG00000036214	Znrd1as	1700022C21Rik|AI746295|Znrd1-as	zinc ribbon domain containing 1, antisense	protein-coding	6.5	19.0	14.0	133.5	15.0	2.0	18.0	15.0
Merged-chr14-51989790-4	chr14	51989700	51989900	+	885.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045728)	promoter-TSS (NR_045728)	-971.0	NR_045728	100502764.0	Mm.437219	NR_045728	ENSMUSG00000097633	Gm16617	-	predicted gene, 16617	ncRNA	16.5	18.5	9.5	203.0	15.5	10.0	16.0	12.5
Merged-chr17-36947202-4	chr17	36947040	36947240	+	873.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001099632, exon 4 of 4)	exon (NM_001099632, exon 4 of 4)	4089.0	NM_001099632	386454.0	Mm.105324	NM_001099632	ENSMUSG00000036492	Rnf39	BC038661|Gm1786|Gm1787|Gm320|LIRF	ring finger protein 39	protein-coding	12.0	17.0	8.0	165.0	17.5	11.5	8.0	14.0
Merged-chr8-46551916-4	chr8	46551824	46552024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027973)	promoter-TSS (NM_027973)	-145.0	NM_027973	71876.0	Mm.22108	NM_027973	ENSMUSG00000031629	Cenpu	1700029A22Rik|Mlf1ip	centromere protein U	protein-coding	339.0	526.0	359.5	4968.5	742.0	294.0	337.0	294.0
Merged-chr3-51701573-4	chr3	51701464	51701664	+	844.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	40385.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	19.0	28.5	10.5	237.0	12.5	10.0	7.0	8.5
Merged-chr8-83572631-3	chr8	83572511	83572711	+	827.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025843)	TTS (NM_025843)	5853.0	NM_025843	66916.0	Mm.29683	NM_025843	ENSMUSG00000033938	Ndufb7	1110002H15Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 7	protein-coding	19.5	19.0	8.0	188.5	7.0	5.0	2.0	2.0
Merged-chr2-18087822-4	chr2	18087725	18087925	+	938.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010804, intron 3 of 22)	RMER16_Mm|LTR|ERVK	23240.0	NM_001252561	17354.0	Mm.209175	NM_010804	ENSMUSG00000026743	Mllt10	Af10|B130021D15Rik|D630001B22Rik|mKIAA4140	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 10	protein-coding	4.5	24.0	15.0	56.5	45.0	20.0	10.5	16.5
Merged-chr10-118812143-4	chr10	118812062	118812262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56741.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	47.5	40.5	54.5	636.5	87.0	41.0	48.0	45.0
Merged-chr5-109845107-4	chr5	109844989	109845189	+	964.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10947.0	NR_027964	667213.0	Mm.454429	NR_027964	ENSMUSG00000105044	Gm10416	EG667213	zinc finger protein pseudogene	pseudo	14.5	17.5	19.5	232.0	85.0	53.0	63.5	53.5
Merged-chr15-10470306-4	chr15	10470212	10470412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030046, exon 1 of 12)	exon (NM_030046, exon 1 of 12)	204.0	NM_030046	78244.0	Mm.297862	NM_030046	ENSMUSG00000044224	Dnajc21	4930461P20Rik|9930116P15Rik	DnaJ heat shock protein family (Hsp40) member C21	protein-coding	95.5	113.0	99.0	1798.0	201.5	65.0	134.5	69.0
Merged-chr11-103419821-4	chr11	103419735	103419935	+	918.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7171.0	NM_183034	353047.0	Mm.18556	NM_183034	ENSMUSG00000034247	Plekhm1	AP162|B2|BC038943|D330036J23Rik	pleckstrin homology domain containing, family M (with RUN domain) member 1	protein-coding	10.0	19.0	18.0	151.5	25.0	10.5	12.0	24.0
Merged-chr12-8638895-4	chr12	8638790	8638990	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35244.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	18.0	44.5	18.0	193.5	62.0	20.0	24.5	26.0
Merged-chr10-59328041-4	chr10	59327929	59328129	+	983.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316370, intron 1 of 13)	intron (NM_001316370, intron 1 of 13)	4733.0	NM_001316370	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	24.0	23.5	19.0	426.5	61.0	17.0	27.5	15.0
Merged-chr5-76430116-4	chr5	76429996	76430196	+	927.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53981.0	NR_033501	639545.0	Mm.478255	NR_033501	ENSMUSG00000091204	Gm7271	EG639545	predicted gene 7271	pseudo	11.5	20.0	24.0	574.0	52.0	13.5	19.0	10.5
Merged-chr17-70994806-3	chr17	70994734	70994934	+	868.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026064, intron 3 of 3)	intron (NM_026064, intron 3 of 3)	3178.0	NM_001357820	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	15.5	8.0	17.5	100.0	9.5	8.0	1.0	3.0
Merged-chr17-87446133-4	chr17	87446012	87446212	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007589, intron 1 of 5)	CpG	823.0	NM_001355703	12314.0	Mm.329243	NM_007589	ENSMUSG00000036438	Calm2	1500001E21Rik|AL024017|Cam2|CamC	calmodulin 2	protein-coding	14.5	19.0	22.5	325.0	57.5	15.5	22.0	20.5
Merged-chr7-96213427-3	chr7	96213333	96213533	+	863.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310760, intron 1 of 32)	intron (NM_001310760, intron 1 of 32)	1762.0	NM_001310760	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	17.5	14.5	15.5	92.0	8.0	3.5	1.0	5.0
Merged-chr5-4531255-1	chr5	4531155	4531355	+	1000.0	f0_c57.idr	Intergenic	MLT1J2|LTR|ERVL-MaLR	226961.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	15.5	7.0	4.5	254.0	32.5	7.5	19.5	25.5
Merged-chr7-80993661-6	chr7	80993518	80993718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178707)	promoter-TSS (NM_178707)	-66.0	NM_178707	233410.0	Mm.29525	NM_178707	ENSMUSG00000005621	Zfp592	A730014M16Rik|Znf592	zinc finger protein 592	protein-coding	51.0	46.0	38.0	555.5	82.0	36.5	50.5	28.5
Merged-chr19-43530348-4	chr19	43530253	43530453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5748.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	89.5	156.0	143.0	1462.5	189.5	100.0	111.0	119.0
Merged-chr4-118106904-4	chr4	118106776	118106976	+	939.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285520, intron 2 of 11)	intron (NM_001285520, intron 2 of 11)	28070.0	NM_001285520	20441.0	Mm.251002	NM_009176	ENSMUSG00000028538	St3gal3	ST3GalIII|ST3N|Siat3|Siat6	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	protein-coding	50.5	76.0	39.0	794.0	28.5	13.0	8.0	13.0
Merged-chr4-74362952-4	chr4	74362852	74363052	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 16 of 20)	L1MDa|LINE|L1	111073.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	15.0	10.0	8.5	253.5	34.5	8.5	7.0	17.0
Merged-chr3-108044913-4	chr3	108044799	108044999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026764)	promoter-TSS (NM_026764)	-40.0	NM_001160411	14865.0	Mm.31203	NM_026764	ENSMUSG00000027890	Gstm4	1110004G14Rik|GSTM7-7|Gstb-4|Gstb4	glutathione S-transferase, mu 4	protein-coding	70.5	123.0	63.0	1188.5	172.0	48.5	88.0	49.5
Merged-chr10-88731409-4	chr10	88731302	88731502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025859)	promoter-TSS (NM_025859)	-12.0	NM_025859	104303.0	Mm.291247	NM_025859	ENSMUSG00000060904	Arl1	2310008D22Rik|AU019749	ADP-ribosylation factor-like 1	protein-coding	90.5	102.5	65.5	1184.0	136.0	45.5	97.5	84.0
Merged-chr7-82691624-4	chr7	82691539	82691739	+	954.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175317, intron 12 of 19)	intron (NM_175317, intron 12 of 19)	43025.0	NM_175317	101592.0	Mm.238020	NM_175317	ENSMUSG00000038563	Efl1	4932434J20Rik|6030468D11Rik|AI451340|AU019507|AU022896|D7Ertd791e|Eftud1	elongation factor like GPTase 1	protein-coding	12.5	5.0	12.0	449.5	34.5	11.5	22.5	17.0
Merged-chr12-100680226-1	chr12	100680126	100680326	+	589.0	f0_balb.idr	intron (NM_153587, intron 1 of 17)	RMER10B|LTR|ERVL	44894.0	NM_001330702	73086.0	Mm.220417	NM_153587	ENSMUSG00000021180	Rps6ka5	3110005L17Rik|6330404E13Rik|AI854034|MSK1|MSPK1|RLPK|RLSK|S6K-alpha-5	ribosomal protein S6 kinase, polypeptide 5	protein-coding	4.0	7.5	9.5	91.0	20.0	5.0	5.5	8.0
Merged-chr11-90234672-4	chr11	90234548	90234748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3b|LINE|CR1	-14828.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	63.0	123.5	37.0	718.5	154.0	42.5	54.0	36.0
Merged-chr4-149726083-2	chr4	149725983	149726183	+	625.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177672, exon 6 of 6)	3' UTR (NM_177672, exon 6 of 6)	11687.0	NM_001284273	230917.0	Mm.266704	NM_177672	ENSMUSG00000044700	Tmem201	AV028368|D4Ertd429e|Net5|Samp1	transmembrane protein 201	protein-coding	2.0	5.5	7.0	42.5	10.5	4.5	7.5	7.0
Merged-chr6-136520444-2	chr6	136520343	136520543	+	641.375	f0_c57.idr|f1_balb.idr	intron (NM_019426, intron 1 of 14)	intron (NM_019426, intron 1 of 14)	1592.0	NM_019426	54343.0	Mm.173271	NM_019426	ENSMUSG00000030213	Atf7ip	2610204M12Rik|AM|Mcaf1	activating transcription factor 7 interacting protein	protein-coding	13.5	7.0	0.0	38.5	28.5	14.5	9.5	9.5
Merged-chr9-102354762-2	chr9	102354662	102354862	+	710.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168296)	promoter-TSS (NM_001168296)	-69.0	NM_001168296	270190.0	Mm.22897	NM_173447	ENSMUSG00000032537	Ephb1	9330129L11|AW488255|C130099E04Rik|Cek6|Elk|Elkh|Hek6|Net	Eph receptor B1	protein-coding	4.0	3.0	9.0	30.5	17.0	6.5	12.0	7.0
Merged-chr11-70201854-2	chr11	70201754	70201954	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12056.0	NM_153081	216867.0	Mm.289238	NM_153081	ENSMUSG00000040938	Slc16a11	AB041591|MCT 11|MNCb-2717	solute carrier family 16 (monocarboxylic acid transporters), member 11	protein-coding	7.5	5.5	9.0	60.0	15.5	5.0	2.5	10.5
Merged-chr4-129067756-4	chr4	129067664	129067864	+	784.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	9493.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	9.0	13.5	5.0	94.0	37.0	11.5	6.0	7.0
Merged-chr2-124651312-4	chr2	124651266	124651466	+	829.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	-2215.0	NM_199240	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	21.0	11.5	15.5	145.5	35.0	3.0	7.0	13.0
Merged-chr2-91508610-4	chr2	91508508	91508708	+	986.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172668, exon 37 of 38)	exon (NM_172668, exon 37 of 38)	-18154.0	NM_001165989	75786.0	Mm.168478	NM_029437	ENSMUSG00000040549	Ckap5	3110043H24Rik|4930432B04Rik|D730027C18Rik|T25636|mKIAA0097	cytoskeleton associated protein 5	protein-coding	19.0	58.5	14.5	310.0	94.0	33.0	35.5	24.5
Merged-chr5-139734325-4	chr5	139734249	139734449	+	945.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174850, intron 1 of 16)	intron (NM_174850, intron 1 of 16)	1984.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	22.0	12.5	17.5	393.0	35.5	15.0	35.5	34.0
Merged-chr11-118490935-4	chr11	118490806	118491006	+	848.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001285436, exon 14 of 14)	3' UTR (NM_001285436, exon 14 of 14)	14074.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	21.0	20.0	11.0	97.0	27.0	9.5	7.0	14.0
Merged-chr8-45330475-4	chr8	45330395	45330595	+	826.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133969, intron 1 of 10)	intron (NM_133969, intron 1 of 10)	2701.0	NM_133969	102294.0	Mm.245297	NM_133969	ENSMUSG00000079057	Cyp4v3	AU043077|AW111961|Cyp4v2	cytochrome P450, family 4, subfamily v, polypeptide 3	protein-coding	7.0	24.0	10.5	128.5	37.0	11.0	8.0	14.0
Merged-chr2-93457916-4	chr2	93457806	93458006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040532, intron 2 of 4)	intron (NR_040532, intron 2 of 4)	3945.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	87.5	198.5	138.0	1418.0	227.5	93.0	111.5	67.0
Merged-chr16-55821106-4	chr16	55820990	55821190	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159395, intron 2 of 12)	intron (NM_001159395, intron 2 of 12)	1048.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	14.5	42.0	25.5	338.5	76.0	31.5	28.0	18.5
Merged-chr8-115487016-3	chr8	115486929	115487129	+	852.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57E1|LTR|ERV1	219865.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	6.5	26.5	18.0	57.5	26.0	10.0	7.5	11.5
Merged-chr13-37679010-4	chr13	37678905	37679105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147033.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	168.5	318.0	187.0	2180.0	304.5	164.0	143.5	147.5
Merged-chr17-29082139-4	chr17	29082033	29082233	+	963.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3007.0	NR_036469	100504267.0	Mm.438550	NR_036469	ENSMUSG00000085912	Trp53cor1	Gm16197|linc-p21|lincRNA-p21	tumor protein p53 pathway corepressor 1	ncRNA	27.5	78.0	18.5	336.0	84.0	35.5	14.5	19.0
Merged-chr9-111058068-4	chr9	111057904	111058104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302376)	promoter-TSS (NM_001302376)	-486.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	52.5	104.0	69.0	654.0	209.5	57.0	61.0	50.5
Merged-chr3-15160075-3	chr3	15159974	15160174	+	693.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	172228.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	7.5	6.0	8.5	124.0	8.5	1.5	3.0	4.0
Merged-chr9-41122910-4	chr9	41122797	41122997	+	941.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	MIR3|SINE|MIR	35165.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	17.5	21.0	19.5	242.0	22.5	17.0	17.5	23.5
Merged-chr9-124021887-3	chr9	124021775	124021975	+	908.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009914)	promoter-TSS (NM_009914)	-96.0	NM_009914	12771.0	Mm.57050	NM_009914	ENSMUSG00000035448	Ccr3	CC-CKR3|CKR3|Cmkbr1l2|Cmkbr3	chemokine (C-C motif) receptor 3	protein-coding	17.5	29.0	19.0	171.0	13.0	3.5	2.0	4.5
Merged-chr6-115853498-4	chr6	115853412	115853612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031177)	promoter-TSS (NM_031177)	-16.0	NM_001167763	81896.0	Mm.333335	NM_031177	ENSMUSG00000030323	Ift122	C86139|Wdr10|sopb	intraflagellar transport 122	protein-coding	193.5	289.0	159.5	1944.0	432.5	191.0	193.5	173.5
Merged-chr3-54668926-4	chr3	54668816	54669016	+	972.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23899.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	26.0	38.0	48.0	774.0	47.5	8.5	25.5	35.0
Merged-chr5-107986654-1	chr5	107986554	107986754	+	1000.0	f0_c57.idr	intron (NM_026062, intron 1 of 4)	intron (NM_026062, intron 1 of 4)	423.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	23.0	25.5	30.0	270.5	47.5	27.5	29.0	23.0
Merged-chr7-96914266-4	chr7	96914182	96914382	+	858.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37245.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	8.0	12.5	12.0	136.0	18.0	3.5	8.0	9.5
Merged-chr15-6509049-1	chr15	6508949	6509149	+	725.5	f0_balb.idr	Intergenic	MLT1A0|LTR|ERVL-MaLR	63716.0	NM_013485	12279.0	Mm.29095	NM_013485	ENSMUSG00000022149	C9	-	complement component 9	protein-coding	14.0	5.5	7.5	131.0	15.5	5.0	7.0	0.5
Merged-chr2-35495651-4	chr2	35495551	35495751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E3|LTR|ERVL-MaLR	-34202.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	61.0	79.5	118.0	1261.0	174.0	59.0	46.0	52.5
Merged-chr10-8948459-3	chr10	8948417	8948617	+	774.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62447.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	1.0	0.0	2.5	49.0	21.0	7.0	14.0	12.0
Merged-chr17-24707634-4	chr17	24707549	24707749	+	979.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145396)	promoter-TSS (NM_145396)	4.0	NM_145396	213773.0	Mm.100353	NM_145396	ENSMUSG00000040688	Tbl3	9430070M15Rik	transducin (beta)-like 3	protein-coding	33.5	43.0	11.0	340.0	126.0	50.5	29.5	50.5
Merged-chr10-11350354-3	chr10	11350266	11350466	+	789.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010146, intron 1 of 3)	intron (NM_010146, intron 1 of 3)	6921.0	NM_010146	13853.0	Mm.89946	NM_010146	ENSMUSG00000055493	Epm2a	TG-B|Tg(TcraK,TcrbK)TG-BFlv	epilepsy, progressive myoclonic epilepsy, type 2 gene alpha	protein-coding	8.5	8.5	4.5	137.5	8.5	0.0	1.5	3.5
Merged-chr8-82875411-2	chr8	82875300	82875500	+	714.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_177378, intron 1 of 6)	intron (NM_177378, intron 1 of 6)	12044.0	NM_177378	330812.0	Mm.491438	NM_177378	ENSMUSG00000047747	Rnf150	A630007N06Rik|C030044C12Rik|Greul5|mKIAA1214	ring finger protein 150	protein-coding	2.5	2.5	3.0	109.5	13.5	13.5	7.5	10.5
Merged-chr9-44460788-4	chr9	44460703	44460903	+	939.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6036.0	NM_009476	22269.0	Mm.4453	NM_009476	ENSMUSG00000041523	Upk2	AW491716|UPII	uroplakin 2	protein-coding	10.5	37.5	4.0	169.5	39.5	12.5	20.0	19.5
Merged-chr4-107066878-4	chr4	107066723	107066923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175471)	promoter-TSS (NM_175471)	43.0	NM_025500	56280.0	Mm.29517	NM_025500	ENSMUSG00000028622	Mrpl37	2300004O14Rik|AI132596|MRP-L2|Rpml2	mitochondrial ribosomal protein L37	protein-coding	119.5	143.0	119.0	1682.0	215.5	77.0	110.5	86.0
Merged-chr7-73541196-2	chr7	73541096	73541296	+	996.3333130000001	f1_balb.idr|f1_c57bl6.idr	non-coding (NR_037569, exon 5 of 5)	non-coding (NR_037569, exon 5 of 5)	550.0	NM_001081345	244059.0	Mm.34539	NM_001081345	ENSMUSG00000078671	Chd2	2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2	chromodomain helicase DNA binding protein 2	protein-coding	7.5	14.0	11.0	51.5	32.5	5.0	1.0	11.5
Merged-chr13-114458490-3	chr13	114458401	114458601	+	888.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301375, intron 1 of 5)	intron (NM_001301375, intron 1 of 5)	450.0	NM_001301373	14313.0	Mm.4913	NM_008046	ENSMUSG00000021765	Fst	AL033346|FS	follistatin	protein-coding	8.0	6.5	6.0	121.0	15.5	1.5	6.5	6.0
Merged-chr4-109760746-2	chr4	109760646	109760846	+	856.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007983, intron 7 of 18)	intron (NM_007983, intron 7 of 18)	84119.0	NM_007983	14084.0	Mm.318259	NM_007983	ENSMUSG00000010517	Faf1	AA408698|Dffrx|Fam	Fas-associated factor 1	protein-coding	3.0	5.0	5.0	53.0	12.5	10.0	7.0	12.0
Merged-chr12-99974605-2	chr12	99974497	99974697	+	711.0	f0_balb.idr|f0_c57.idr	intron (NM_001164426, intron 2 of 2)	L1M4|LINE|L1	10098.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	12.0	5.0	9.0	152.5	36.5	4.5	3.0	11.5
Merged-chr13-45889553-2	chr13	45889453	45889653	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199304, intron 2 of 6)	intron (NM_001199304, intron 2 of 6)	75438.0	NM_001199304	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	6.0	7.5	4.5	25.0	6.5	9.5	4.0	8.0
Merged-chr14-14347393-8	chr14	14347261	14347461	+	860.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008369, intron 2 of 11)	intron (NM_008369, intron 2 of 11)	866.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	19.0	18.5	13.0	81.0	27.5	9.0	13.5	26.0
Merged-chr7-122159426-4	chr7	122159398	122159598	+	970.0285640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011121)	promoter-TSS (NM_011121)	63.0	NM_011121	18817.0	Mm.16525	NM_011121	ENSMUSG00000030867	Plk1	Plk|STPK13	polo like kinase 1	protein-coding	12.5	12.5	7.0	139.0	18.5	1.5	9.0	12.0
Merged-chr11-100408263-3	chr11	100408145	100408345	+	720.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_176830)	TTS (NM_176830)	6574.0	NM_176830	66180.0	Mm.4940	NM_176830	ENSMUSG00000006931	P3h4	1110036O03Rik|AI413214|Leprel4|Sc65	prolyl 3-hydroxylase family member 4 (non-enzymatic)	protein-coding	5.0	6.0	2.0	34.0	16.5	17.5	13.0	7.5
Merged-chr7-43273733-4	chr7	43273748	43273948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER54A|LTR|ERVL	39452.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	40.5	18.0	45.0	603.0	95.5	36.0	38.5	42.5
Merged-chr12-73907872-4	chr12	73907756	73907956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010431)	promoter-TSS (NM_010431)	-11.0	NM_010431	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	288.5	292.5	222.0	3289.5	576.0	210.5	247.0	222.5
Merged-chr6-17635664-4	chr6	17635582	17635782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1328.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	106.5	170.5	128.5	1762.5	229.0	76.5	140.5	95.5
Merged-chr9-22051972-4	chr9	22051898	22052098	+	753.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010487)	promoter-TSS (NM_010487)	25.0	NM_010487	15571.0	Mm.390167	NM_010487	ENSMUSG00000003410	Elavl3	2600009P04Rik|Huc|PLE21|mHuC	ELAV like RNA binding protein 3	protein-coding	10.0	9.0	4.0	89.0	13.5	8.0	5.0	14.0
Merged-chr3-115729364-4	chr3	115729277	115729477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14322.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	62.0	123.0	54.0	1205.5	172.0	73.0	70.5	57.0
Merged-chr2-52513856-4	chr2	52513764	52513964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 2 of 13)	intron (NM_001037099, intron 2 of 13)	44747.0	NM_146123	12298.0	Mm.330223	NM_146123	ENSMUSG00000017412	Cacnb4	3110038O15Rik|Cchb4|lh	calcium channel, voltage-dependent, beta 4 subunit	protein-coding	32.5	48.0	48.0	435.0	83.0	27.0	28.5	43.0
Merged-chr4-131855203-4	chr4	131855098	131855298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025297, intron 3 of 9)	intron (NM_025297, intron 3 of 9)	11727.0	NM_025297	26922.0	Mm.192706	NM_025297	ENSMUSG00000028910	Mecr	AI195831|NRBF-1|Nrbf1	mitochondrial trans-2-enoyl-CoA reductase	protein-coding	81.5	186.5	95.5	644.5	237.0	75.5	87.0	60.0
Merged-chr5-105616291-4	chr5	105616120	105616320	+	934.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	-83749.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	10.5	12.5	6.0	85.5	26.5	21.0	3.5	16.5
Merged-chr10-75765252-4	chr10	75765072	75765272	+	995.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172549)	promoter-TSS (NM_172549)	-815.0	NM_172549	104248.0	Mm.257404	NM_172549	ENSMUSG00000020196	Cabin1	A330070M20Rik|Cain|Ppp3in	calcineurin binding protein 1	protein-coding	6.5	6.5	10.5	138.0	18.0	11.5	6.5	10.5
Merged-chr17-26534904-4	chr17	26534785	26534985	+	997.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26413.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	30.0	31.5	55.0	559.5	31.0	15.5	32.5	31.5
Merged-chr7-90026199-4	chr7	90026097	90026297	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2962.0	NR_110365	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	8.0	42.0	18.0	79.5	47.5	13.5	12.0	7.0
Merged-chr12-111437716-4	chr12	111437596	111437796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4965.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	90.5	156.0	106.5	1050.0	305.0	78.5	84.0	64.5
Merged-chr1-52302793-2	chr1	52302693	52302893	+	760.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-69561.0	NM_001113383	14660.0	Mm.398608	NM_001081081	ENSMUSG00000026103	Gls	6330442B14|AI314027|B230365M23Rik	glutaminase	protein-coding	10.0	7.0	6.0	61.0	8.0	0.0	2.0	3.5
Merged-chr6-115764241-6	chr6	115764134	115764334	+	975.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1768.0	NM_001168256	94346.0	Mm.29739	NM_144805	ENSMUSG00000059900	Tmem40	9030407H20Rik|AV091463|W64236	transmembrane protein 40	protein-coding	11.5	13.0	15.5	175.0	40.0	12.0	14.5	16.5
Merged-chr4-33895183-4	chr4	33895092	33895292	+	884.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-29167.0	NM_001355020	12801.0	Mm.7992	NM_007726	ENSMUSG00000044288	Cnr1	CB-R|CB1|CB1R	cannabinoid receptor 1 (brain)	protein-coding	14.5	24.5	26.5	516.5	14.5	9.5	14.0	10.0
Merged-chr4-155249418-4	chr4	155249275	155249475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190445)	promoter-TSS (NM_001190445)	-591.0	NM_001190445	67513.0	Mm.10374	NM_001190445	ENSMUSG00000073684	Faap20	2610002J02Rik	Fanconi anemia core complex associated protein 20	protein-coding	18.0	38.0	15.0	357.5	73.0	29.0	30.5	28.5
Merged-chr12-8500058-4	chr12	8499954	8500154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007483)	promoter-TSS (NM_007483)	-45.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	390.0	665.0	470.0	7272.0	1080.0	450.5	628.5	500.5
Merged-chr4-148444744-4	chr4	148444714	148444914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027873)	promoter-TSS (NM_027873)	-63.0	NM_027873	71707.0	Mm.292503	NM_027873	ENSMUSG00000047719	Ubiad1	1200002M06Rik|AI426463|AW320947|Tere1	UbiA prenyltransferase domain containing 1	protein-coding	26.0	31.0	18.5	171.0	103.5	40.5	54.0	38.5
Merged-chr7-44055679-3	chr7	44055550	44055750	+	843.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020268, exon 3 of 5)	exon (NM_020268, exon 3 of 5)	3360.0	NM_020268	16619.0	Mm.445911	NM_020268	ENSMUSG00000063177	Klk1b27	Gk27|Klk21l|Klk27|mGK-27	kallikrein 1-related peptidase b27	protein-coding	9.5	9.0	24.0	186.5	0.0	0.0	0.0	0.0
Merged-chr15-98978025-3	chr15	98977936	98978136	+	789.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7929.0	NR_045991	75951.0	Mm.441657	NR_045991	ENSMUSG00000097587	4930578M01Rik	3010001K12Rik	RIKEN cDNA 4930578M01 gene	ncRNA	10.5	8.5	5.0	67.5	5.0	4.0	0.5	5.0
Merged-chr1-178338443-4	chr1	178338351	178338551	+	885.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016805)	promoter-TSS (NM_016805)	-636.0	NR_149827	51810.0	Mm.86589	NM_016805	ENSMUSG00000039630	Hnrnpu	AA408410|AI256620|AL024194|AL024437|AW557595|C86794|Hnrpu|SAFA|Sp120|hnRNP U	heterogeneous nuclear ribonucleoprotein U	protein-coding	15.5	8.5	13.0	92.0	33.5	11.0	10.0	6.5
Merged-chr2-59645462-4	chr2	59645360	59645560	+	935.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198294, intron 1 of 26)	intron (NM_198294, intron 1 of 26)	-1309.0	NM_001290659	66860.0	Mm.27917	NM_198294	ENSMUSG00000035168	Tanc1	1200003E16Rik|Tanc|mKIAA1728	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	protein-coding	13.0	13.0	20.0	171.0	50.5	14.0	11.5	18.5
Merged-chr5-139344272-4	chr5	139344208	139344408	+	890.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197980, intron 1 of 2)	intron (NM_197980, intron 1 of 2)	858.0	NM_197980	68033.0	Mm.261064	NM_197980	ENSMUSG00000045438	Cox19	1810074D02Rik|2810437L13Rik	cytochrome c oxidase assembly protein 19	protein-coding	16.0	17.0	9.0	136.0	33.0	9.5	18.5	11.5
Merged-chr2-84715708-4	chr2	84715616	84715816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144887)	promoter-TSS (NM_144887)	-552.0	NM_144887	228136.0	Mm.288508	NM_144887	ENSMUSG00000034075	Zdhhc5	1110032A17Rik|AI451382|Zisp	zinc finger, DHHC domain containing 5	protein-coding	74.5	170.0	86.0	1302.5	276.0	105.0	169.5	115.0
Merged-chr7-141540859-4	chr7	141540736	141540936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142681)	promoter-TSS (NM_001142681)	-979.0	NM_001142681	68038.0	Mm.245355	NM_026522	ENSMUSG00000025512	Chid1	3110023E09Rik|AI841869	chitinase domain containing 1	protein-coding	139.0	158.0	202.0	2283.0	187.5	78.0	99.0	127.5
Merged-chr16-55832243-4	chr16	55832151	55832351	+	935.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030612, intron 2 of 13)	intron (NM_030612, intron 2 of 13)	6390.0	NM_030612	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	20.0	17.0	9.5	147.0	47.5	4.0	12.0	16.0
Merged-chr19-6513971-2	chr19	6513871	6514071	+	868.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 20 of 22)	intron (NM_001205234, intron 20 of 22)	29099.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	2.5	3.0	0.5	13.0	17.5	9.0	4.5	5.5
Merged-chr1-182937853-4	chr1	182937747	182937947	+	914.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16941.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	13.0	32.0	24.0	196.0	21.0	15.0	9.5	3.5
Merged-chr9-45386950-3	chr9	45386847	45387047	+	793.277771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022004, intron 1 of 7)	intron (NM_022004, intron 1 of 7)	-12762.0	NR_028499	11936.0	Mm.22742	NM_007503	ENSMUSG00000059412	Fxyd2	Atp1g1	FXYD domain-containing ion transport regulator 2	protein-coding	4.0	11.0	7.5	65.0	26.0	8.0	5.0	13.0
Merged-chr19-29462662-4	chr19	29462540	29462740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	ORR1E|LTR|ERVL-MaLR	51721.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	60.5	71.0	74.0	1201.0	140.5	28.5	58.5	38.0
Merged-chr5-104860152-3	chr5	104860039	104860239	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039231)	promoter-TSS (NM_001039231)	-71.0	NM_001039231	626391.0	Mm.385405	NM_001039231	ENSMUSG00000072774	Zfp951	C230055K05Rik|Gm38611	zinc finger protein 951	protein-coding	1.0	0.5	0.0	0.0	73.5	29.0	50.5	26.0
Merged-chr7-48881125-4	chr7	48881025	48881225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013368)	promoter-TSS (NM_001013368)	-84.0	NM_001013368	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	193.5	281.5	117.0	2419.0	435.5	174.5	254.5	159.5
Merged-chr6-87451636-3	chr6	87451519	87451719	+	909.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22625.0	NM_009756	12154.0	Mm.483321	NM_009756	ENSMUSG00000030046	Bmp10	b2b2711Clo	bone morphogenetic protein 10	protein-coding	8.5	21.0	13.5	87.0	8.0	9.5	3.0	6.0
Merged-chr11-4194877-4	chr11	4194810	4195010	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	intron (NM_134023, intron 1 of 8)	8077.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	9.0	6.5	4.0	89.0	16.0	12.5	9.5	9.5
Merged-chr6-57812579-4	chr6	57812493	57812693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	L2a|LINE|L2	12532.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	76.0	78.0	63.0	1144.5	217.5	87.5	88.0	82.0
Merged-chr6-116697598-2	chr6	116697498	116697698	+	927.5833130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_178768, intron 3 of 4)	intron (NM_178768, intron 3 of 4)	19160.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	5.0	6.0	4.0	34.5	18.0	6.0	6.0	12.0
Merged-chr17-62527646-4	chr17	62527504	62527704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	353713.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	22.5	72.5	23.5	329.0	83.0	31.5	21.5	37.5
Merged-chr6-76409583-4	chr6	76409487	76409687	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-832890.0	NR_155299	74342.0	Mm.292568	NM_028880	ENSMUSG00000060780	Lrrtm1	4632401D06Rik|AW125451	leucine rich repeat transmembrane neuronal 1	protein-coding	30.0	46.5	31.0	719.0	23.5	15.0	25.5	23.0
Merged-chr14-62354579-4	chr14	62354482	62354682	+	953.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026001, intron 5 of 10)	L1M2|LINE|L1	22514.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	12.5	12.5	16.5	162.0	40.0	6.0	7.5	16.0
Merged-chr12-80109135-4	chr12	80109039	80109239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007564, exon 2 of 2)	3' UTR (NM_007564, exon 2 of 2)	3874.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	76.0	79.0	51.0	430.5	149.5	51.0	38.5	41.0
Merged-chr1-128102759-4	chr1	128102646	128102846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027678)	promoter-TSS (NM_027678)	255.0	NM_001357573	226409.0	Mm.425048	NM_027678	ENSMUSG00000036086	Zranb3	4933425L19Rik|AH2|AI316834|C730006D09	zinc finger, RAN-binding domain containing 3	protein-coding	98.5	166.0	87.0	1959.0	361.5	164.0	130.5	182.0
Merged-chr5-81044077-4	chr5	81043983	81044183	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 1 of 27)	L1MA5|LINE|L1	22490.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	15.0	21.0	17.5	440.0	70.0	29.5	26.5	12.0
Merged-chr11-103223600-4	chr11	103223496	103223696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016896, intron 14 of 15)	intron (NM_016896, intron 14 of 15)	-5164.0	NM_177801	328019.0	Mm.189646	NM_177801	ENSMUSG00000044787	Spata32	4933400C05Rik|VAD1.2	spermatogenesis associated 32	protein-coding	39.5	67.5	34.0	814.5	87.0	46.5	53.0	69.5
Merged-chr1-64374096-4	chr1	64374034	64374234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-158670.0	NM_009952	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	67.5	61.5	54.0	662.5	111.5	42.5	37.0	46.5
Merged-chr16-30066508-4	chr16	30066399	30066599	+	992.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008235, intron 3 of 3)	CpG	1142.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	8.5	26.0	24.0	363.0	34.5	7.5	11.0	20.5
Merged-chr7-132713674-4	chr7	132713622	132713822	+	969.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175268, exon 5 of 5)	3' UTR (NM_175268, exon 5 of 5)	63194.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	18.0	12.0	19.0	216.5	36.5	9.5	9.5	17.5
Merged-chr12-91588498-4	chr12	91588420	91588620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175335, intron 1 of 8)	CpG	1129.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	91.0	202.5	115.5	1409.0	306.5	143.5	132.0	117.5
Merged-chr16-55756917-1	chr16	55756817	55757017	+	1000.0	f0_c57.idr	Intergenic	Intergenic	65221.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	3.5	18.5	8.0	62.5	47.5	19.0	22.5	16.0
Merged-chr1-151614783-4	chr1	151614736	151614936	+	810.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	intron (NM_022018, intron 1 of 13)	43463.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	8.5	6.5	2.5	88.0	32.0	7.0	12.0	10.5
Merged-chr2-181601263-4	chr2	181601167	181601367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133701)	promoter-TSS (NM_133701)	-52.0	NM_133701	68879.0	Mm.292001	NM_133701	ENSMUSG00000002455	Prpf6	1190003A07Rik|2610031L17Rik|ANT-1|U5-102K	pre-mRNA splicing factor 6	protein-coding	116.0	206.0	113.0	1618.0	328.0	101.0	140.5	169.0
Merged-chr5-117938435-4	chr5	117938366	117938566	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 21 of 27)	intron (NM_008712, intron 21 of 27)	-38304.0	NM_145564	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	34.0	34.0	4.0	277.0	31.5	10.0	12.0	14.5
Merged-chr10-42760431-4	chr10	42760321	42760521	+	989.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1075.0	NM_001359283	140740.0	Mm.214344	NM_153055	ENSMUSG00000019802	Sec63	5730478J10Rik|AI649014|AW319215	SEC63-like (S. cerevisiae)	protein-coding	20.0	34.5	19.5	183.0	57.0	14.5	20.0	14.5
Merged-chr4-55814985-4	chr4	55814876	55815076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-282501.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	40.5	51.0	20.5	780.5	101.0	31.5	38.0	50.0
Merged-chr18-80313051-4	chr18	80312952	80313152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190373, intron 3 of 3)	intron (NM_001190373, intron 3 of 3)	51202.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	97.0	116.0	149.5	1617.0	194.5	71.5	97.0	84.5
Merged-chr12-108644694-4	chr12	108644533	108644733	+	724.075012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163396, intron 2 of 14)	intron (NM_001163396, intron 2 of 14)	8880.0	NM_001163396	14026.0	Mm.238841	NM_007965	ENSMUSG00000021262	Evl	AI528774|b2b2600Clo	Ena-vasodilator stimulated phosphoprotein	protein-coding	6.5	11.0	6.0	74.5	17.5	10.5	12.0	8.5
Merged-chr18-84681501-1	chr18	84681401	84681601	+	541.0	f0_balb.idr	intron (NM_023149, intron 2 of 11)	intron (NM_023149, intron 2 of 11)	558.0	NM_001289531	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	9.5	11.0	9.0	34.0	25.0	9.0	8.5	7.0
Merged-chr11-77980839-3	chr11	77980731	77980931	+	987.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1985.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	14.5	7.0	19.5	190.5	11.5	5.0	11.5	5.5
Merged-chr11-88950414-4	chr11	88950310	88950510	+	919.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029023, intron 2 of 12)	intron (NM_029023, intron 2 of 12)	5032.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	15.5	30.0	12.5	188.0	41.0	11.5	7.0	17.5
Merged-chr2-120652998-4	chr2	120652903	120653103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43408.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	48.0	45.0	80.0	1022.5	130.0	40.5	51.5	82.5
Merged-chr2-181273948-4	chr2	181273796	181273996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 2 of 9)	MTA_Mm|LTR|ERVL-MaLR	14070.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	117.0	133.0	127.5	681.0	185.0	86.5	87.0	87.0
Merged-chr19-5877810-4	chr19	5877727	5877927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361973)	promoter-TSS (NM_001361973)	5.0	NM_001361974	107375.0	Mm.5323	NM_134154	ENSMUSG00000024818	Slc25a45	AW491445	solute carrier family 25, member 45	protein-coding	109.0	134.0	52.5	1247.0	151.5	69.5	64.0	77.0
Merged-chr4-155770223-6	chr4	155770096	155770296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_147776, exon 4 of 4)	3' UTR (NM_147776, exon 4 of 4)	4365.0	NM_147776	246228.0	Mm.26515	NM_147776	ENSMUSG00000042116	Vwa1	4932416A11Rik|WARP	von Willebrand factor A domain containing 1	protein-coding	16.5	45.5	28.0	226.5	47.5	32.0	26.5	32.0
Merged-chr4-134552223-4	chr4	134552126	134552326	+	933.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029100)	promoter-TSS (NM_029100)	-60.0	NM_029100	74777.0	Mm.29773	NM_029100	ENSMUSG00000050989	Selenon	1110019I12Rik|AI414492|SelN|Sepn1	selenoprotein N	protein-coding	21.0	26.0	13.0	245.5	21.5	14.5	19.5	11.5
Merged-chr11-55154690-4	chr11	55154559	55154759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-2953.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	20.0	20.5	23.0	150.5	35.0	25.0	19.0	20.0
Merged-chr12-4237632-2	chr12	4237532	4237732	+	763.916626	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001204912, exon 2 of 2)	3' UTR (NM_001204912, exon 2 of 2)	3605.0	NM_001204912	69709.0	Mm.250552	NM_001204912	ENSMUSG00000096199	Ptrhd1	2410017P09Rik	peptidyl-tRNA hydrolase domain containing 1	protein-coding	5.5	13.0	4.5	69.0	22.0	5.5	1.5	9.5
Merged-chr2-43806144-4	chr2	43806022	43806222	+	780.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 2 of 14)	intron (NM_001301831, intron 2 of 14)	57298.0	NM_001301831	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	4.0	16.0	5.0	125.0	27.0	9.5	18.5	14.0
Merged-chr9-77910136-4	chr9	77910031	77910231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7234.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	85.0	141.0	65.5	463.5	151.0	41.0	41.5	36.5
Merged-chr5-43384924-3	chr5	43384803	43385003	+	872.166626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-130666.0	NM_001135172	109323.0	Mm.275553	NM_175425	ENSMUSG00000061535	C1qtnf7	5530401N20Rik|8430425G24Rik|Ctrp7	C1q and tumor necrosis factor related protein 7	protein-coding	7.0	9.5	9.5	155.5	9.0	8.5	9.0	15.0
Merged-chr4-63590634-4	chr4	63590520	63590720	+	915.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	10144.0	NM_001354647	670833.0	Mm.32213	NM_001354647	ENSMUSG00000084782	Gm11213	-	predicted gene 11213	protein-coding	11.0	23.5	7.5	111.5	30.5	15.5	5.0	3.5
Merged-chr11-77028256-2	chr11	77028156	77028356	+	905.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_010484, intron 13 of 13)	intron (NM_010484, intron 13 of 13)	29659.0	NM_010484	15567.0	Mm.300318	NM_010484	ENSMUSG00000020838	Slc6a4	5-HTT|AI323329|Htt|Sert	solute carrier family 6 (neurotransmitter transporter, serotonin), member 4	protein-coding	5.0	7.0	9.5	50.0	6.0	0.0	0.0	5.0
Merged-chr4-32250453-4	chr4	32250347	32250547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-166988.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	173.0	265.0	184.5	2689.0	340.0	148.0	153.0	115.5
Merged-chr5-32930964-4	chr5	32930851	32931051	+	962.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025426, intron 25 of 42)	intron (NM_001025426, intron 25 of 42)	67230.0	NM_001170567	277854.0	Mm.101524	NM_177786	ENSMUSG00000037426	Depdc5	AV016528	DEP domain containing 5	protein-coding	24.5	19.5	6.5	203.5	33.0	24.5	11.0	14.0
Merged-chr8-25440542-3	chr8	25440353	25440553	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78306.0	NM_001079909	14182.0	Mm.265716	NM_010206	ENSMUSG00000031565	Fgfr1	AW208770|Eask|FGFR-I|FLG|Fgfr-1|Flt-2|Hspy|MFR|bFGF-R-1|c-fgr	fibroblast growth factor receptor 1	protein-coding	8.0	4.5	7.5	27.0	1.0	3.0	2.0	6.0
Merged-chr3-58508520-4	chr3	58508414	58508614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-17307.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	75.0	83.5	74.5	1377.5	87.5	44.5	49.5	67.5
Merged-chr5-43870595-9	chr5	43870422	43870622	+	886.992615	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	RSINE1|SINE|B4	1713.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	5.0	1.0	11.0	39.0	11.5	5.0	9.5	11.5
Merged-chr2-60865172-4	chr2	60865066	60865266	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	16272.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	29.5	72.0	27.5	481.5	47.0	25.5	36.0	21.0
Merged-chr7-19749773-4	chr7	19749678	19749878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159724)	promoter-TSS (NM_001159724)	-205.0	NM_001159724	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	138.0	239.0	120.5	1386.5	336.0	148.5	170.5	123.5
Merged-chr2-28495237-4	chr2	28495134	28495334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_I-int|LTR|ERV1	-1657.0	NM_139197	227671.0	Mm.484270	NM_139197	ENSMUSG00000026829	Gbgt1	Fgs|Fs	globoside alpha-1,3-N-acetylgalactosaminyltransferase 1	protein-coding	91.0	126.5	51.5	826.5	221.0	70.0	89.5	70.5
Merged-chr19-55820430-4	chr19	55820322	55820522	+	977.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-74899.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	39.5	45.0	30.0	629.0	42.5	13.5	23.0	22.0
Merged-chr2-59462270-4	chr2	59462152	59462352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B2|LTR|ERVL	-22401.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	37.5	62.5	32.0	619.0	60.5	17.5	30.0	29.5
Merged-chr8-79362583-4	chr8	79362482	79362682	+	899.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008539, intron 2 of 6)	L2c|LINE|L2	36886.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	13.0	12.5	10.0	215.5	38.0	4.0	12.0	20.5
Merged-chr8-83166093-4	chr8	83165978	83166178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027758, exon 1 of 18)	exon (NM_027758, exon 1 of 18)	726.0	NM_027758	71310.0	Mm.24031	NM_027758	ENSMUSG00000031709	Tbc1d9	4933431N12Rik|AI847101|AW490653|C76116	TBC1 domain family, member 9	protein-coding	28.5	57.5	37.0	614.5	90.0	40.5	39.0	50.5
Merged-chr8-126588808-4	chr8	126588724	126588924	+	953.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164598, exon 2 of 2)	3' UTR (NM_001164598, exon 2 of 2)	4612.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	8.5	34.0	23.5	204.0	42.5	10.0	13.5	11.5
Merged-chr11-106666832-4	chr11	106666707	106666907	+	935.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 13 of 14)	intron (NM_001305158, intron 13 of 14)	48474.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	12.0	18.5	14.5	98.5	25.5	8.5	4.5	7.0
Merged-chr15-25370417-4	chr15	25370314	25370514	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027395, intron 1 of 1)	intron (NM_027395, intron 1 of 1)	43350.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	28.5	26.0	41.5	451.5	49.5	13.0	21.5	32.0
Merged-chr18-75598173-2	chr18	75598056	75598256	+	862.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 6 of 11)	intron (NM_201354, intron 6 of 11)	83511.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	4.5	2.5	2.0	85.5	11.0	6.0	14.0	10.5
Merged-chr12-95745255-4	chr12	95745165	95745365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	53039.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	57.5	75.5	71.5	980.0	194.5	59.0	101.0	69.5
Merged-chr12-83999501-4	chr12	83999407	83999607	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9995.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	15.5	32.5	25.0	238.5	32.0	8.0	22.5	25.5
Merged-chr9-105484513-4	chr9	105484427	105484627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253831, intron 1 of 26)	L1MB7|LINE|L1	10606.0	NM_175025	235574.0	Mm.326247	NM_175025	ENSMUSG00000032570	Atp2c1	1700121J11Rik|ATP2C1A|AW061228|BCPM|D930003G21Rik|HHD|SPCA|pmr1	ATPase, Ca++-sequestering	protein-coding	74.0	117.0	54.0	1078.5	271.5	109.0	115.5	80.0
Merged-chr1-77740659-3	chr1	77740560	77740760	+	697.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAAA)n|Simple_repeat|Simple_repeat	-225572.0	NM_007936	13838.0	Mm.400747	NM_007936	ENSMUSG00000026235	Epha4	2900005C20Rik|AI385584|Cek8|Hek8|Sek|Sek1|Tyro1|rb	Eph receptor A4	protein-coding	6.0	17.0	8.5	117.5	2.0	0.0	1.0	1.5
Merged-chr1-61146278-4	chr1	61146193	61146393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	168379.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	36.5	53.0	62.0	996.0	102.0	19.5	64.0	70.0
Merged-chr18-39446818-4	chr18	39446722	39446922	+	947.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008173, intron 1 of 7)	intron (NM_008173, intron 1 of 7)	40423.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	11.0	30.5	17.0	171.0	57.5	14.0	26.5	15.0
Merged-chr2-76675248-4	chr2	76675163	76675363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031256)	promoter-TSS (NM_031256)	-52.0	NM_031256	83435.0	Mm.41636	NM_031256	ENSMUSG00000002733	Plekha3	FAPP1	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 3	protein-coding	88.5	122.0	89.0	1570.5	216.5	62.5	106.5	71.5
Merged-chr13-49186900-2	chr13	49186800	49187000	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013610)	promoter-TSS (NM_013610)	-647.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	6.5	11.0	11.0	144.5	19.5	5.0	15.5	22.5
Merged-chr7-80835480-4	chr7	80835382	80835582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-26626.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	28.5	43.5	53.5	607.5	70.0	25.0	32.0	37.5
Merged-chr9-47625920-7	chr9	47625769	47625969	+	890.119019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	95517.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	8.5	5.5	12.0	56.5	7.5	3.0	3.0	6.0
Merged-chr13-98299252-4	chr13	98299186	98299386	+	909.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17681.0	NM_145455	218490.0	Mm.371688	NM_145455	ENSMUSG00000021660	Btf3	1700054E11Rik	basic transcription factor 3	protein-coding	7.0	24.5	5.0	160.0	33.0	10.0	15.5	9.5
Merged-chr7-80439956-3	chr7	80439854	80440054	+	963.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1b|LINE|L1	-34518.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	7.5	15.5	17.0	244.5	23.5	9.5	15.0	11.5
Merged-chr4-125114857-4	chr4	125114745	125114945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13036.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	17.0	26.5	29.0	484.5	70.0	22.0	44.5	42.5
Merged-chr3-115682539-4	chr3	115682441	115682641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1|SINE|Alu	32514.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	48.0	82.0	48.0	767.0	100.0	40.5	59.5	46.0
Merged-chr10-61122504-4	chr10	61122394	61122594	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009163, intron 3 of 14)	intron (NM_009163, intron 3 of 14)	25190.0	NM_009163	20397.0	Mm.412319	NM_009163	ENSMUSG00000020097	Sgpl1	AI428538|D10Xrf456|S1PL|Spl	sphingosine phosphate lyase 1	protein-coding	35.0	32.0	28.0	400.0	29.0	26.5	13.0	21.5
Merged-chr1-179668216-4	chr1	179668136	179668336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178653)	promoter-TSS (NM_178653)	5.0	NM_178653	109232.0	Mm.136458	NM_178653	ENSMUSG00000038936	Sccpdh	AW214504|C330023F11Rik	saccharopine dehydrogenase (putative)	protein-coding	41.5	51.0	24.0	844.0	84.5	40.5	42.0	37.0
Merged-chr2-24975957-4	chr2	24975853	24976053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146251)	promoter-TSS (NM_146251)	-80.0	NM_146251	241274.0	Mm.389243	NM_146251	ENSMUSG00000036833	Pnpla7	BC027342|E430013P11Rik|Nre	patatin-like phospholipase domain containing 7	protein-coding	186.0	249.5	169.0	2151.5	378.5	120.5	169.0	139.0
Merged-chr4-123951845-4	chr4	123951746	123951946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34413.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	23.5	49.0	53.5	1071.5	86.5	28.0	35.5	38.0
Merged-chr8-46804281-4	chr8	46804175	46804375	+	900.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 2 of 7)	intron (NR_152560, intron 2 of 7)	64530.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	20.0	46.5	10.0	157.0	49.5	13.0	9.5	9.5
Merged-chr7-127479928-3	chr7	127479779	127479979	+	908.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5342.0	NM_010183	14123.0	Mm.323505	NM_010183	ENSMUSG00000042423	Fbrs	Fbs|Fbs1	fibrosin	protein-coding	1.5	12.5	11.0	40.0	18.5	7.5	13.0	12.5
Merged-chr3-109255185-4	chr3	109255075	109255275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85508.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	146.0	161.5	145.0	2126.0	420.5	155.5	178.5	170.5
Merged-chr6-129495096-4	chr6	129494992	129495192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138648, intron 4 of 7)	MT2A|LTR|ERVL	12073.0	NM_138648	108078.0	Mm.293626	NM_138648	ENSMUSG00000030162	Olr1	LOX-1|SR-EI|Scare1	oxidized low density lipoprotein (lectin-like) receptor 1	protein-coding	103.0	162.0	73.0	1378.5	186.0	54.0	62.5	46.5
Merged-chr11-106789205-4	chr11	106789093	106789293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177088)	promoter-TSS (NM_177088)	-8.0	NM_001355677	13207.0	Mm.491096	NM_007840	ENSMUSG00000020719	Ddx5	2600009A06Rik|G17P1|HUMP68|Hlr1|p68	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	protein-coding	112.5	205.5	93.5	1266.0	289.0	116.5	127.0	132.0
Merged-chr11-30954410-4	chr11	30954310	30954510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025745)	promoter-TSS (NM_025745)	12.0	NM_023906	65257.0	Mm.440539	NM_023906	ENSMUSG00000020305	Asb3	2400011J03Rik|Asb-3	ankyrin repeat and SOCS box-containing 3	protein-coding	57.0	83.5	71.5	1209.0	187.5	51.0	96.5	66.0
Merged-chr9-66908184-4	chr9	66908070	66908270	+	984.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	11535.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	21.0	48.0	19.5	299.5	48.5	31.5	9.0	13.5
Merged-chr9-43306022-4	chr9	43305903	43306103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4760.0	NM_023655	72169.0	Mm.273277	NM_023655	ENSMUSG00000032013	Trim29	1110047J21Rik|2810431N19Rik|4732461M22Rik|AI119726	tripartite motif-containing 29	protein-coding	42.5	59.0	64.0	867.0	36.0	21.5	34.5	28.0
Merged-chr6-83868113-4	chr6	83868014	83868214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36373.0	NM_146169	232164.0	Mm.404420	NM_146169	ENSMUSG00000045896	Paip2b	-	poly(A) binding protein interacting protein 2B	protein-coding	25.0	34.0	19.5	256.0	52.0	19.5	20.5	25.5
Merged-chr2-131180161-4	chr2	131180058	131180258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007682)	promoter-TSS (NM_007682)	-91.0	NM_007682	12616.0	Mm.440169	NM_007682	ENSMUSG00000068267	Cenpb	CENP-B	centromere protein B	protein-coding	26.0	45.5	23.5	516.0	95.0	25.5	58.0	31.5
Merged-chr18-36744615-4	chr18	36744507	36744707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011879)	promoter-TSS (NM_011879)	-20.0	NM_010885	17991.0	Mm.29867	NM_010885	ENSMUSG00000014294	Ndufa2	AV000592|B8|C1-B8|CI-B8	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 2	protein-coding	162.0	215.5	138.5	1622.0	329.0	138.5	213.5	123.0
Merged-chr4-154189121-3	chr4	154189026	154189226	+	961.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162977, intron 3 of 36)	intron (NM_001162977, intron 3 of 36)	18413.0	NM_001162977	230971.0	Mm.275216	NM_172273	ENSMUSG00000057751	Megf6	2600001P17Rik|Egfl3	multiple EGF-like-domains 6	protein-coding	15.5	14.5	14.0	270.5	18.5	13.0	10.0	13.5
Merged-chr2-124618736-12	chr2	124618759	124618959	+	892.119446	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	8563.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	8.5	13.5	8.5	73.0	14.5	1.5	0.0	3.0
Merged-chr6-89455569-3	chr6	89455476	89455676	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 4 of 6)	intron (NM_001167736, intron 4 of 6)	-92963.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	6.0	4.0	16.5	166.0	17.0	8.0	4.5	5.5
Merged-chr14-47507455-3	chr14	47507320	47507520	+	785.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_027414, exon 3 of 6)	non-coding (NR_027414, exon 3 of 6)	34859.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	0.0	1.0	0.0	7.0	41.5	7.0	13.5	24.5
Merged-chr15-95800309-4	chr15	95800196	95800396	+	899.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	Lx8|LINE|L1	9453.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	17.0	11.0	10.0	228.5	36.5	12.5	11.0	17.0
Merged-chr8-19161040-3	chr8	19160956	19161156	+	855.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3169.0	NM_153115	78128.0	Mm.229357	NM_153115	ENSMUSG00000079842	Spag11a	9230111C08Rik|Bin1b|EP2Q|EP2e|Spag11	sperm associated antigen 11A	protein-coding	8.0	9.5	9.5	177.5	11.5	3.0	3.0	16.0
Merged-chr8-128941435-3	chr8	128941337	128941537	+	807.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	124055.0	NM_029061	74703.0	Mm.196017	NM_029061	ENSMUSG00000025808	Ccdc7a	4930517G15Rik|4930540C21Rik|Biot2|Ccdc7	coiled-coil domain containing 7A	protein-coding	11.5	5.0	5.0	29.0	31.5	4.0	11.0	10.0
Merged-chr15-80445086-3	chr15	80445008	80445208	+	976.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6505.0	NR_155274	102633578.0	Mm.397484	NR_155274	ENSMUSG00000115888	Gm31369	-	predicted gene, 31369	ncRNA	6.5	4.0	2.5	50.5	74.0	36.5	30.0	29.5
Merged-chr11-118312477-4	chr11	118312400	118312600	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011594, intron 3 of 4)	intron (NM_011594, intron 3 of 4)	-22256.0	NM_001033528	72344.0	Mm.232293	NM_001033528	ENSMUSG00000033909	Usp36	2700002L06Rik|mKIAA1453	ubiquitin specific peptidase 36	protein-coding	26.0	57.0	31.0	346.5	71.5	23.5	15.5	11.5
Merged-chr7-83610170-3	chr7	83610042	83610242	+	802.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177695, intron 14 of 22)	RMER15|LTR|ERVL	-21875.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	2.0	1.0	2.5	61.5	26.0	13.0	13.0	10.0
Merged-chr8-106887952-4	chr8	106887851	106888051	+	903.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145412, intron 1 of 3)	intron (NM_145412, intron 1 of 3)	5642.0	NM_145412	214987.0	Mm.490308	NM_145412	ENSMUSG00000046691	Chtf8	5830457O10Rik|Ctf8|Derpc	CTF8, chromosome transmission fidelity factor 8	protein-coding	15.0	18.0	11.0	233.0	36.5	14.5	23.5	15.5
Merged-chr2-137571080-3	chr2	137570979	137571179	+	861.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-454559.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	11.5	6.0	5.5	238.0	5.5	0.5	5.0	7.0
Merged-chr16-94648125-4	chr16	94648023	94648223	+	981.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 2 of 11)	intron (NM_001113389, intron 2 of 11)	36704.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	27.5	48.0	14.5	182.5	71.0	27.0	29.5	18.0
Merged-chr18-4367331-4	chr18	4367228	4367428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040328, intron 2 of 3)	intron (NR_040328, intron 2 of 3)	-8264.0	NM_001361008	67440.0	Mm.49826	NM_026157	ENSMUSG00000024234	Mtpap	0610027A18Rik|AW551379|Papd1	mitochondrial poly(A) polymerase	protein-coding	79.0	126.5	89.0	1455.0	169.0	70.0	99.5	59.5
Merged-chr8-69791275-4	chr8	69791180	69791380	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133224, exon 1 of 26)	exon (NM_133224, exon 1 of 26)	117.0	NM_133224	170759.0	Mm.186066	NM_133224	ENSMUSG00000031862	Atp13a1	Atp13a|Cgi152|catp	ATPase type 13A1	protein-coding	30.5	43.0	22.0	289.5	69.0	15.0	20.5	22.0
Merged-chr9-110871190-3	chr9	110871054	110871254	+	810.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146260, intron 3 of 5)	intron (NM_146260, intron 3 of 5)	8929.0	NM_146260	20776.0	Mm.390229	NM_146260	ENSMUSG00000049555	Tmie	5131400L21Rik|Mm.87012|sr	transmembrane inner ear	protein-coding	4.5	16.5	8.0	103.0	16.5	2.5	6.0	4.5
Merged-chr16-36645885-4	chr16	36645782	36645982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	intron (NM_019388, intron 1 of 7)	20195.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	22.0	38.5	21.5	273.0	69.0	23.0	33.0	13.0
Merged-chr4-111719942-4	chr4	111719835	111720035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026470)	promoter-TSS (NM_026470)	-75.0	NM_026470	67946.0	Mm.275526	NM_026470	ENSMUSG00000034401	Spata6	1700062C23Rik|AI790763|Hash|KRP|Mash	spermatogenesis associated 6	protein-coding	149.5	196.0	112.5	1485.0	550.0	237.5	327.0	246.0
Merged-chr8-13869711-4	chr8	13869597	13869797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181854)	promoter-TSS (NM_181854)	56.0	NM_181854	101994.0	Mm.289346	NM_181854	ENSMUSG00000047710	Champ1	AA675043|AI116001|D8Ertd457e|D8Ertd569e|Zfp828|Znf828|mKIAA1802	chromosome alignment maintaining phosphoprotein 1	protein-coding	71.5	104.0	81.0	997.0	123.0	56.0	85.5	47.5
Merged-chr7-101381747-4	chr7	101381670	101381870	+	825.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040112, intron 1 of 30)	intron (NM_001040112, intron 1 of 30)	3648.0	NM_001040112	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	9.5	9.0	4.5	124.5	30.0	13.0	10.0	9.5
Merged-chr16-55975104-4	chr16	55975005	55975205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027965)	promoter-TSS (NR_027965)	-488.0	NR_027965	66391.0	Mm.472722	NM_133677	ENSMUSG00000102101	Zbtb11os1	2310061J03Rik	zinc finger and BTB domain containing 11, opposite strand 1	ncRNA	71.5	100.0	67.0	1304.0	194.0	68.0	74.0	64.5
Merged-chr11-106741468-4	chr11	106741358	106741558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR51B_Mm|LTR|ERVK?	-9768.0	NM_001271375	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	128.5	107.5	49.5	1310.5	264.0	78.5	90.5	98.5
Merged-chr6-122604503-4	chr6	122604429	122604629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008108)	TTS (NM_008108)	-2085.0	NM_001134391	11810.0	Mm.3333	NM_031159	ENSMUSG00000040613	Apobec1	Cdar1	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	protein-coding	58.0	73.5	45.0	587.0	173.5	68.5	64.0	66.0
Merged-chr6-38968149-4	chr6	38968074	38968274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 3 of 12)	intron (NM_011539, intron 3 of 12)	49188.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	57.5	63.5	50.5	881.0	123.5	32.0	66.0	53.0
Merged-chr8-84237780-4	chr8	84237649	84237849	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172503)	promoter-TSS (NM_172503)	-707.0	NM_172503	212168.0	Mm.117094	NM_172503	ENSMUSG00000035671	Zswim4	D330002I24|E130119J17Rik	zinc finger SWIM-type containing 4	protein-coding	52.0	88.0	34.0	427.5	141.5	42.5	59.5	35.0
Merged-chr8-111940642-4	chr8	111940547	111940747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026693)	promoter-TSS (NM_026693)	-56.0	NM_026693	93739.0	Mm.371666	NM_026693	ENSMUSG00000031950	Gabarapl2	0610012F20Rik|2900019O08Rik|AI173605|GATE-16|Gef2	gamma-aminobutyric acid (GABA) A receptor-associated protein-like 2	protein-coding	97.0	109.5	73.0	1313.0	239.0	102.5	133.5	111.5
Merged-chr4-105226449-4	chr4	105226347	105226547	+	865.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080555, intron 5 of 5)	intron (NM_080555, intron 5 of 5)	69100.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	13.0	14.5	15.5	219.5	20.0	10.5	16.0	29.5
Merged-chr10-19563544-2	chr10	19563444	19563644	+	932.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28405.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	7.5	5.5	0.5	8.5	18.5	8.5	5.0	5.0
Merged-chr7-33900219-4	chr7	33900116	33900316	+	904.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44769.0	NM_178308	110187.0	Mm.155750	NM_178308	ENSMUSG00000066586	Scgb2b26	Abpbg26|Abpbg4|Abpg|C2d|Scgb2b4	secretoglobin, family 2B, member 26	protein-coding	43.0	38.0	40.5	1003.0	22.5	11.5	21.0	11.5
Merged-chr19-32950409-4	chr19	32950300	32950500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	192823.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	88.5	82.0	73.0	1145.0	172.5	52.5	72.0	44.0
Merged-chr5-31217792-2	chr5	31217690	31217890	+	745.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008014, intron 1 of 9)	intron (NM_008014, intron 1 of 9)	2755.0	NM_008014	14208.0	Mm.14501	NM_008014	ENSMUSG00000029147	Ppm1g	AI385652|Fin13	protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform	protein-coding	5.0	7.0	5.0	54.0	21.0	5.0	1.0	3.0
Merged-chr14-106155408-4	chr14	106155326	106155526	+	958.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49228.0	NR_073203	212085.0	Mm.78128	NM_198601	ENSMUSG00000022113	Trim52	4921513B05Rik	tripartite motif-containing 52	protein-coding	14.5	23.5	17.0	332.5	24.0	13.5	28.5	14.0
Merged-chr8-75095017-6	chr8	75095041	75095241	+	809.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010442, intron 1 of 4)	intron (NM_010442, intron 1 of 4)	1523.0	NM_010442	15368.0	Mm.276389	NM_010442	ENSMUSG00000005413	Hmox1	D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32	heme oxygenase 1	protein-coding	4.5	5.5	8.5	50.5	24.5	11.5	3.5	6.5
Merged-chr17-88435880-4	chr17	88435775	88435975	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4829.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	28.0	46.5	28.5	338.0	53.5	30.0	16.5	20.5
Merged-chr3-107204335-3	chr3	107204266	107204466	+	812.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	17366.0	NM_001111143	229697.0	Mm.297051	NM_001111143	ENSMUSG00000046213	Cym	Gm131	chymosin	protein-coding	21.0	9.5	4.0	143.0	18.0	4.5	18.5	5.5
Merged-chr15-79039107-4	chr15	79039007	79039207	+	967.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013847)	TTS (NM_013847)	-2778.0	NM_015738	14429.0	Mm.390805	NM_015738	ENSMUSG00000114755	Galr3	Galnr3	galanin receptor 3	protein-coding	29.0	39.5	14.0	338.5	35.5	26.0	29.0	18.5
Merged-chr3-89437566-4	chr3	89437445	89437645	+	911.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146131, intron 1 of 10)	intron (NM_146131, intron 1 of 10)	841.0	NM_146131	229534.0	Mm.65906	NM_146131	ENSMUSG00000042613	Pbxip1	4732463H20Rik	pre B cell leukemia transcription factor interacting protein 1	protein-coding	10.0	15.5	5.0	70.0	24.0	13.0	15.5	21.0
Merged-chr2-24367599-4	chr2	24367488	24367688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355231)	promoter-TSS (NM_001355231)	-87.0	NM_001355231	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	73.5	108.5	76.5	1018.0	204.0	71.5	97.0	75.0
Merged-chr11-74371899-3	chr11	74371806	74372006	+	948.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7235.0	NM_001011851	258153.0	Mm.376124	NM_001011851	ENSMUSG00000058275	Olfr412	MOR127-5P	olfactory receptor 412	protein-coding	11.0	25.0	10.0	164.0	11.0	16.5	3.0	9.5
Merged-chr5-32747841-4	chr5	32747730	32747930	+	892.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177298, intron 3 of 7)	LFSINE_Vert|SINE|tRNA	-1488.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	12.0	10.5	1.5	106.0	39.5	15.5	7.5	15.5
Merged-chr8-70821734-4	chr8	70821689	70821889	+	873.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008353)	TTS (NM_008353)	13340.0	NM_008353	16161.0	Mm.731	NM_008353	ENSMUSG00000000791	Il12rb1	CD212|IL-12R[b]	interleukin 12 receptor, beta 1	protein-coding	8.0	12.5	8.0	120.5	14.5	11.0	19.5	10.5
Merged-chr11-97404768-2	chr11	97404668	97404868	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42217.0	NM_138657	192157.0	Mm.34339	NM_138657	ENSMUSG00000038485	Socs7	2310063P06Rik|C85125|Nap4	suppressor of cytokine signaling 7	protein-coding	6.0	7.5	7.0	78.0	10.5	2.5	4.0	7.0
Merged-chr13-108268020-4	chr13	108267915	108268115	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029001, intron 3 of 7)	intron (NM_029001, intron 3 of 7)	-48322.0	NM_178683	218581.0	Mm.32318	NM_178683	ENSMUSG00000021697	Depdc1b	9830132O03|AW260467|XTP1	DEP domain containing 1B	protein-coding	23.0	26.0	15.5	300.0	36.5	27.5	20.5	21.0
Merged-chr17-45595361-6	chr17	45595198	45595398	+	997.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357771, intron 1 of 13)	intron (NM_001357771, intron 1 of 13)	274.0	NM_001199116	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	10.0	11.0	7.5	188.5	50.0	14.5	14.0	14.5
Merged-chr10-52382133-4	chr10	52382047	52382247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199272)	promoter-TSS (NM_001199272)	-23.0	NM_001199272	94221.0	Mm.390258	NM_053187	ENSMUSG00000019861	Gopc	2210402P09Rik|AI844555|CAL|FIG|GOPC1|PIST	golgi associated PDZ and coiled-coil motif containing	protein-coding	253.5	386.0	288.0	4487.0	683.0	194.0	335.0	227.5
Merged-chr18-53250254-4	chr18	53250157	53250357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	4595.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	43.5	70.0	71.0	1242.5	117.5	28.0	63.5	63.0
Merged-chr3-142559757-3	chr3	142559655	142559855	+	922.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018734)	promoter-TSS (NM_018734)	-289.0	NM_001289492	55932.0	Mm.439718	NM_018734	ENSMUSG00000028268	Gbp3	AW228655|GBP-3|GBP-4|Gbp4	guanylate binding protein 3	protein-coding	28.5	13.5	10.5	111.0	30.0	9.5	15.0	7.5
Merged-chr11-117783241-4	chr11	117783118	117783318	+	976.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001195088, exon 2 of 16)	exon (NM_001195088, exon 2 of 16)	560.0	NM_001195088	217356.0	Mm.116675	NM_181856	ENSMUSG00000050106	Tmc8	EVIN2|Ever2|mFLJ00400	transmembrane channel-like gene family 8	protein-coding	9.0	11.0	12.5	148.0	30.5	11.5	15.5	20.5
Merged-chr6-65043294-1	chr6	65043194	65043394	+	744.0	f0_balb.idr	promoter-TSS (NM_001253392)	promoter-TSS (NM_001253392)	88.0	NM_001253392	13990.0	Mm.99113	NM_007958	ENSMUSG00000029920	Smarcad1	AV081750|AW226546|D6Pas1|Etl1|etl-1|mKIAA1122	SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1	protein-coding	8.5	11.5	14.5	282.5	29.5	18.0	12.0	24.5
Merged-chr3-144138804-3	chr3	144138698	144138898	+	862.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20B|DNA|hAT-Charlie	63534.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	5.5	15.5	5.5	58.0	101.0	8.5	21.0	19.5
Merged-chr16-56036102-4	chr16	56036011	56036211	+	741.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029092, intron 1 of 1)	intron (NM_029092, intron 1 of 1)	1663.0	NM_029092	52575.0	Mm.288742	NM_029092	ENSMUSG00000044763	Trmt10c	1300018J16Rik|D16Ertd454e|Rg9mtd1|Rnmtd1	tRNA methyltransferase 10C	protein-coding	8.0	20.5	8.0	109.5	9.5	13.0	12.5	17.5
Merged-chr4-34295863-2	chr4	34295763	34295963	+	604.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-245796.0	NM_026293	67652.0	Mm.55848	NM_026293	ENSMUSG00000028264	Spaca1	1700124L11Rik|4930540L03Rik	sperm acrosome associated 1	protein-coding	7.0	14.5	9.0	48.0	12.0	4.5	3.5	9.0
Merged-chr6-99655799-6	chr6	99655720	99655920	+	979.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025829, intron 1 of 6)	ORR1E|LTR|ERVL-MaLR	10951.0	NM_025829	66892.0	Mm.32889	NM_025829	ENSMUSG00000093661	Eif4e3	1300018P11Rik|AI451927|eIF4E-3	eukaryotic translation initiation factor 4E member 3	protein-coding	12.0	20.0	31.5	349.5	47.5	12.0	19.5	10.5
Merged-chr9-83652942-4	chr9	83652838	83653038	+	893.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38537.0	NR_046066	100039222.0	Mm.405596	NR_046066	ENSMUSG00000100155	Gm2109	-	predicted gene 2109	ncRNA	19.5	17.0	9.5	194.0	27.0	7.5	14.5	2.5
Merged-chr5-140845011-3	chr5	140844902	140845102	+	674.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14571.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	17.0	16.0	6.5	181.5	1.0	2.0	0.0	0.5
Merged-chr9-54963802-3	chr9	54963682	54963882	+	808.027771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-12828.0	NM_145229	246735.0	Mm.473773	NM_145229	ENSMUSG00000044820	AY074887	Mcpr1	cDNA sequence AY074887	protein-coding	3.0	12.5	5.5	44.0	26.5	5.0	15.0	15.0
Merged-chr1-182959355-4	chr1	182959253	182959453	+	944.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016928, intron 1 of 3)	intron (NM_016928, intron 1 of 3)	4565.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	30.5	28.5	18.5	304.0	58.5	10.5	24.0	25.5
Merged-chr1-152720818-4	chr1	152720712	152720912	+	775.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-29739.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	13.0	4.0	10.5	152.5	30.5	5.0	16.5	8.5
Merged-chr2-167950388-4	chr2	167950281	167950481	+	874.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	18054.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	12.0	10.0	18.0	190.0	30.0	1.0	9.5	13.0
Merged-chr9-21237650-4	chr9	21237526	21237726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016679, exon 1 of 5)	exon (NM_016679, exon 1 of 5)	1706.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	48.5	65.5	58.5	513.5	108.0	21.5	35.5	48.5
Merged-chr12-99468215-4	chr12	99468119	99468319	+	826.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18145.0	NM_183186	71375.0	Mm.341972	NM_183186	ENSMUSG00000033713	Foxn3	5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1	forkhead box N3	protein-coding	9.0	21.5	17.5	331.5	20.5	7.5	2.5	9.0
Merged-chr1-128245132-4	chr1	128245054	128245254	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356529, intron 1 of 12)	intron (NM_001356529, intron 1 of 12)	1017.0	NM_001356529	67812.0	Mm.293321	NM_026390	ENSMUSG00000026353	Ubxn4	1300013G12Rik|Ubxd2|mKIAA0242	UBX domain protein 4	protein-coding	13.5	24.5	15.5	221.0	48.0	23.0	21.0	22.5
Merged-chr5-52674921-4	chr5	52674812	52675012	+	948.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-5211.0	NM_172490	211006.0	Mm.244719	NM_172490	ENSMUSG00000029173	Sepsecs	AA986712|D5Ertd135e|SLA|SecS	Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase	protein-coding	24.0	26.5	14.0	376.5	89.5	12.0	26.5	11.5
Merged-chr15-10981796-4	chr15	10981686	10981886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008537)	promoter-TSS (NM_008537)	30.0	NM_008537	17117.0	Mm.2787	NM_008537	ENSMUSG00000022244	Amacr	Macr1	alpha-methylacyl-CoA racemase	protein-coding	152.5	184.0	237.0	2715.5	279.0	144.5	173.5	167.5
Merged-chr4-126227216-4	chr4	126227092	126227292	+	929.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24482.0	NM_146153	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	22.0	24.0	15.0	187.0	26.0	15.0	16.5	9.5
Merged-chr13-98947397-1	chr13	98947297	98947497	+	792.0	f0_balb.idr	Intergenic	Intergenic	-21013.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	7.5	11.0	5.0	170.0	2.0	0.0	0.5	3.0
Merged-chr4-55805493-4	chr4	55805406	55805606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-273031.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	42.5	43.5	30.5	805.5	94.5	26.0	45.5	55.5
Merged-chr14-30715162-2	chr14	30715059	30715259	+	987.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001166532)	promoter-TSS (NM_001166532)	-8.0	NM_001166531	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	24.0	22.0	16.5	223.0	31.5	13.0	17.0	10.0
Merged-chr2-71543140-4	chr2	71543047	71543247	+	957.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010054)	TTS (NM_010054)	3607.0	NM_010054	13392.0	Mm.3896	NM_010054	ENSMUSG00000023391	Dlx2	AW121999|Dlx-2|Tes-1	distal-less homeobox 2	protein-coding	14.5	36.5	21.0	421.0	35.0	21.5	38.0	16.0
Merged-chr2-29889172-3	chr2	29889072	29889272	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177661)	promoter-TSS (NM_001177661)	158.0	NM_001355137	18286.0	Mm.330116	NM_013615	ENSMUSG00000026790	Odf2	AI848335|MMTEST29	outer dense fiber of sperm tails 2	protein-coding	18.0	27.0	7.5	124.5	50.0	12.0	6.5	22.5
Merged-chr17-84354222-4	chr17	84354114	84354314	+	871.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 26 of 37)	L1M4c|LINE|L1	111994.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	6.5	6.0	7.5	108.0	27.0	7.0	17.0	8.0
Merged-chr1-190910462-4	chr1	190910367	190910567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178775, intron 1 of 14)	MIRb|SINE|MIR	1303.0	NM_178775	320119.0	Mm.220912	NM_178775	ENSMUSG00000089872	Rps6kc1	AA682037|B130003F20Rik|C80612|Rpk118	ribosomal protein S6 kinase polypeptide 1	protein-coding	25.5	42.5	19.5	547.5	61.5	21.5	29.0	23.5
Merged-chr2-137869759-3	chr2	137869660	137869860	+	728.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-386824.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	11.5	3.0	4.5	216.0	11.5	5.5	5.0	7.0
Merged-chr10-75893251-4	chr10	75893141	75893341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358985)	promoter-TSS (NM_001358985)	-157.0	NR_152573	70377.0	Mm.275878	NM_024440	ENSMUSG00000009092	Derl3	1810006I20Rik|1810063P04Rik|IZP6|derlin-3	Der1-like domain family, member 3	protein-coding	144.0	266.0	178.0	2618.0	514.0	196.0	239.5	204.0
Merged-chr6-72390202-4	chr6	72390076	72390276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016794, intron 1 of 2)	intron (NM_016794, intron 1 of 2)	491.0	NM_016794	22320.0	Mm.1838	NM_016794	ENSMUSG00000050732	Vamp8	AU041171|Edb|endobrevin	vesicle-associated membrane protein 8	protein-coding	15.5	35.0	42.0	331.5	61.5	41.5	33.0	29.0
Merged-chr18-60626713-2	chr18	60626613	60626813	+	927.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-2408.0	NM_177340	104027.0	Mm.252321	NM_177340	ENSMUSG00000043079	Synpo	9030217H17Rik|9130229N11|9330140I15Rik|AW046661	synaptopodin	protein-coding	2.0	5.5	3.0	67.5	4.5	5.5	4.5	8.5
Merged-chr6-134614938-4	chr6	134614828	134615028	+	793.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026345, intron 3 of 3)	intron (NM_026345, intron 3 of 3)	17560.0	NM_026345	67729.0	Mm.57648	NM_026345	ENSMUSG00000032718	Mansc1	9130403P13Rik	MANSC domain containing 1	protein-coding	15.0	13.5	8.5	164.5	19.5	5.0	12.0	6.0
Merged-chr17-24752965-3	chr17	24752884	24753084	+	628.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357340)	promoter-TSS (NM_001357340)	-4.0	NM_001357342	328779.0	Mm.328848	NM_001012402	ENSMUSG00000039628	Hs3st6	3-OST-6	heparan sulfate (glucosamine) 3-O-sulfotransferase 6	protein-coding	9.0	4.5	3.5	53.5	14.0	12.0	13.0	7.0
Merged-chr16-97478836-4	chr16	97478747	97478947	+	969.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020622, intron 3 of 7)	intron (NM_020622, intron 3 of 7)	-15941.0	NR_003520	17857.0	Mm.33996	NM_010846	ENSMUSG00000000386	Mx1	AI893580|Mx|Mx-1	MX dynamin-like GTPase 1	protein-coding	16.5	26.0	22.0	337.5	58.0	14.0	30.5	14.0
Merged-chr3-86961232-2	chr3	86961160	86961360	+	739.5	f0_balb.idr|f1_balb.idr	Intergenic	RMER4B|LTR|ERVK	-25326.0	NM_001289449	12480.0	Mm.389465	NM_007640	ENSMUSG00000041750	Cd1d2	CD1.2|Cd1b|Ly-38	CD1d2 antigen	protein-coding	6.5	20.5	6.0	44.5	5.5	6.0	1.0	0.5
Merged-chr6-32487566-4	chr6	32487471	32487671	+	948.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-23570.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	22.5	32.5	27.5	331.5	30.5	15.0	9.5	12.5
Merged-chr10-59381819-3	chr10	59381716	59381916	+	971.822205	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR1_Mm|LTR|ERVK	-21869.0	NM_023530	69836.0	Mm.30268	NM_023530	ENSMUSG00000009646	Pla2g12b	2010002E04Rik|Fksg71|Pla2g13|hlb218	phospholipase A2, group XIIB	protein-coding	17.0	27.0	19.0	233.5	1.0	0.5	0.0	0.0
Merged-chr7-113594575-4	chr7	113594475	113594675	+	896.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29588.0	NR_126544	69295.0	Mm.396150	NR_126544	ENSMUSG00000084984	Far1os	1700006P19Rik	fatty acyl CoA reductase 1, opposite strand	ncRNA	14.0	15.5	6.5	323.5	31.5	5.5	19.5	14.0
Merged-chr3-100916997-4	chr3	100916936	100917136	+	905.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5457.0	NM_001165952	229644.0	Mm.189351	NM_194343	ENSMUSG00000033233	Trim45	4921530N01Rik	tripartite motif-containing 45	protein-coding	7.0	13.0	10.5	108.5	22.5	2.5	9.0	12.0
Merged-chr2-160276157-4	chr2	160276071	160276271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51323.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	70.5	110.0	70.0	1458.0	157.5	53.0	99.5	70.0
Merged-chr3-94954020-4	chr3	94953925	94954125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017395)	promoter-TSS (NM_017395)	-83.0	NM_017395	53970.0	Mm.24308	NM_017395	ENSMUSG00000005774	Rfx5	-	regulatory factor X, 5 (influences HLA class II expression)	protein-coding	248.5	381.0	231.0	3648.0	556.5	201.0	247.0	231.0
Merged-chr1-162388727-4	chr1	162388628	162388828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038619, intron 2 of 20)	intron (NM_001038619, intron 2 of 20)	89306.0	NM_172646	103967.0	Mm.441620	NM_172646	ENSMUSG00000040265	Dnm3	9630020E24Rik|AW061159|B230343F03Rik|C530045C17|Dyna III|mKIAA0820	dynamin 3	protein-coding	34.5	108.0	43.0	633.0	139.0	39.0	45.5	28.5
Merged-chr14-27042473-4	chr14	27042373	27042573	+	968.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134437, intron 1 of 12)	intron (NM_134437, intron 1 of 12)	3472.0	NM_134437	171463.0	Mm.206726	NM_027265	ENSMUSG00000040717	Il17rd	2810004A10Rik|AI428510|Sef|Sef-S	interleukin 17 receptor D	protein-coding	10.5	20.0	15.5	286.0	42.0	16.0	29.5	19.0
Merged-chr5-74705268-3	chr5	74705170	74705370	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2367.0	NM_001159577	16924.0	Mm.440403	NM_010727	ENSMUSG00000029228	Lnx1	Lnx	ligand of numb-protein X 1	protein-coding	34.0	68.0	30.5	404.5	12.0	5.0	2.0	5.0
Merged-chr1-51501497-4	chr1	51501394	51501594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23095.0	NM_001310549	109019.0	Mm.196290	NM_028696	ENSMUSG00000026107	Nabp1	4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2	nucleic acid binding protein 1	protein-coding	55.0	58.5	64.0	1285.0	93.0	26.5	41.5	53.0
Merged-chr9-45314170-4	chr9	45314075	45314275	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4925.0	NM_001013373	214531.0	Mm.394987	NM_001013373	ENSMUSG00000037129	Tmprss13	BC010843|Tpmrss13	transmembrane protease, serine 13	protein-coding	13.0	19.0	8.0	215.0	150.5	59.5	54.5	68.5
Merged-chr4-93335497-4	chr4	93335404	93335604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026954)	promoter-TSS (NM_026954)	7.0	NM_026954	69136.0	Mm.171558	NM_026954	ENSMUSG00000054000	Tusc1	2200001D17Rik|TSG-9	tumor suppressor candidate 1	protein-coding	78.0	72.5	119.0	1125.5	129.0	68.5	59.0	61.5
Merged-chr9-31841327-1	chr9	31841227	31841427	+	962.0	f0_balb.idr	Intergenic	Intergenic	71958.0	NM_013800	12023.0	Mm.261044	NM_013800	ENSMUSG00000032033	Barx2	2310006E12Rik|Barx2b	BarH-like homeobox 2	protein-coding	10.0	6.0	6.0	208.5	7.0	2.5	3.0	3.5
Merged-chr3-83855850-4	chr3	83855758	83855958	+	912.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A3_MM|LTR|ERVK	-14250.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	25.0	27.0	15.0	286.0	49.5	18.5	21.0	16.5
Merged-chr12-35036340-4	chr12	35036230	35036430	+	905.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-10859.0	NM_001014973	217463.0	Mm.213991	NM_001014973	ENSMUSG00000020590	Snx13	Rgs-px1|mKIAA0713	sorting nexin 13	protein-coding	16.0	16.0	19.0	151.5	28.5	8.0	13.0	10.5
Merged-chr4-108762189-1	chr4	108762089	108762289	+	732.0	f0_balb.idr	intron (NM_001347163, intron 1 of 18)	intron (NM_001347163, intron 1 of 18)	18899.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	6.5	8.5	10.0	130.0	10.5	3.5	0.5	6.0
Merged-chr19-56748061-4	chr19	56747967	56748167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25695.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	54.0	83.0	153.0	1513.0	71.0	20.5	71.5	38.0
Merged-chr5-3543829-4	chr5	3543744	3543944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042501)	promoter-TSS (NM_001042501)	11.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	117.0	161.0	108.5	1754.5	247.5	83.5	126.5	105.5
Merged-chr15-85832798-2	chr15	85832698	85832898	+	906.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033337, intron 1 of 13)	intron (NM_001033337, intron 1 of 13)	494.0	NM_001033337	239570.0	Mm.151748	NM_001033337	ENSMUSG00000035944	Ttc38	9030019H09	tetratricopeptide repeat domain 38	protein-coding	7.5	5.5	7.0	55.5	9.0	2.5	3.5	3.5
Merged-chr11-48788832-4	chr11	48788734	48788934	+	982.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11526.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	28.0	32.5	13.5	256.5	66.5	21.5	24.0	18.0
Merged-chr15-27724409-11	chr15	27724316	27724516	+	923.242432	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42874.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	6.0	8.5	10.0	141.0	11.5	5.5	5.5	10.5
Merged-chr13-51637295-2	chr13	51637195	51637395	+	686.166687	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	-7937.0	NM_025415	66197.0	Mm.222228	NM_025415	ENSMUSG00000062248	Cks2	1110038L14Rik|CKSHS2	CDC28 protein kinase regulatory subunit 2	protein-coding	5.0	14.5	23.5	23.0	9.0	3.5	7.0	10.5
Merged-chr4-32657069-4	chr4	32656996	32657196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081392)	promoter-TSS (NM_001081392)	-23.0	NM_001081392	100019.0	Mm.24627	NM_133874	ENSMUSG00000058006	Mdn1	4833432B22Rik|A130070M06|AA958993|D4Abb1e|Gm135	midasin AAA ATPase 1	protein-coding	60.0	74.5	34.0	541.0	150.5	52.0	40.0	59.5
Merged-chr2-85560413-4	chr2	85560287	85560487	+	911.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18828.0	NM_146437	258429.0	Mm.377497	NM_146437	ENSMUSG00000111179	Olfr996	MOR175-4	olfactory receptor 996	protein-coding	13.0	13.5	13.5	278.0	45.5	2.5	20.5	24.0
Merged-chr12-74804278-2	chr12	74804176	74804376	+	948.5	f0_balb.idr|f1_balb.idr	Intergenic	GSAT_MM|Satellite|Satellite	373056.0	NM_172805	238271.0	Mm.44465	NM_172805	ENSMUSG00000034402	Kcnh5	Eag2	potassium voltage-gated channel, subfamily H (eag-related), member 5	protein-coding	13.5	5.5	11.5	905.0	7.5	1.0	3.0	2.5
Merged-chr4-16112658-4	chr4	16112547	16112747	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50996.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	16.5	54.0	21.0	228.0	138.5	41.5	39.5	18.0
Merged-chr1-131549207-3	chr1	131549101	131549301	+	941.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21298.0	NM_175382	108900.0	Mm.31278	NM_175382	ENSMUSG00000055184	Fam72a	2700049P18Rik|P17	family with sequence similarity 72, member A	protein-coding	15.0	22.0	8.5	123.5	26.0	0.0	7.0	6.0
Merged-chr4-125102923-4	chr4	125102837	125103037	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290701, exon 5 of 7)	exon (NM_001290701, exon 5 of 7)	17803.0	NR_151472	70088.0	Mm.291214	NM_027310	ENSMUSG00000028863	Meaf6	2310005N01Rik|2810036M01Rik	MYST/Esa1-associated factor 6	protein-coding	10.5	8.5	14.0	198.0	15.0	6.5	13.5	7.0
Merged-chr11-22990525-4	chr11	22990424	22990624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009837)	promoter-TSS (NM_009837)	-69.0	NM_009837	12464.0	Mm.296985	NM_009837	ENSMUSG00000007739	Cct4	2610204B21Rik|A45|C78323|Cctd	chaperonin containing Tcp1, subunit 4 (delta)	protein-coding	195.0	337.5	182.5	2990.0	448.5	184.0	258.0	202.0
Merged-chr2-84895692-4	chr2	84895592	84895792	+	876.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9000.0	NM_199223	269295.0	Mm.86447	NM_199223	ENSMUSG00000050896	Rtn4rl2	Ngr2|Ngrh1|Ngrl3	reticulon 4 receptor-like 2	protein-coding	12.0	7.5	8.0	184.0	41.0	16.0	13.0	17.5
Merged-chr1-64199047-4	chr1	64198937	64199137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77648.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	47.5	46.0	30.0	681.5	110.0	51.0	44.5	51.0
Merged-chr4-123282701-4	chr4	123282617	123282817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356377)	promoter-TSS (NM_001356377)	-194.0	NM_148917	230721.0	Mm.277091	NM_130881	ENSMUSG00000011257	Pabpc4	-	poly(A) binding protein, cytoplasmic 4	protein-coding	62.0	58.5	24.5	369.5	102.5	40.0	34.5	33.5
Merged-chr13-9428135-2	chr13	9428035	9428235	+	967.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	151610.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	4.5	5.5	5.5	54.5	10.0	2.0	4.5	4.5
Merged-chr19-41381885-4	chr19	41381804	41382004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 1 of 16)	intron (NM_031376, intron 1 of 16)	3166.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	73.0	103.5	62.5	959.5	123.5	54.0	46.0	34.5
Merged-chr15-73177336-4	chr15	73177236	73177436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	L3b|LINE|CR1	7611.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	22.5	36.5	26.5	539.0	59.5	25.5	36.5	36.5
Merged-chr9-121313773-4	chr9	121313671	121313871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	RMER17C|LTR|ERVK	16269.0	NR_152160	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	21.0	25.0	10.5	110.0	69.5	22.5	17.5	21.5
Merged-chr11-70562419-4	chr11	70562317	70562517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001045959)	promoter-TSS (NM_001045959)	-464.0	NM_001045964	50932.0	Mm.42967	NM_016713	ENSMUSG00000020827	Mink1	B55|MINK|Map4k6|Ysk2	misshapen-like kinase 1 (zebrafish)	protein-coding	33.0	37.0	17.0	389.5	98.5	17.5	27.5	19.0
Merged-chr5-65832391-4	chr5	65832279	65832479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31190.0	NM_001081105	74734.0	Mm.20323	NM_001081105	ENSMUSG00000029204	Rhoh	5830400A04Rik|AU019774|Arhh	ras homolog family member H	protein-coding	114.0	215.0	111.5	1645.0	303.0	145.0	126.5	138.5
Merged-chr5-143055758-4	chr5	143055645	143055845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359851, intron 12 of 15)	intron (NM_001359851, intron 12 of 15)	57275.0	NM_207110	108086.0	Mm.381440	NM_080561	ENSMUSG00000045078	Rnf216	2810055G22Rik|AI647468|AU019462|C86502|F830018F18Rik|TRIAD3|UIP83|Ubce7ip1	ring finger protein 216	protein-coding	57.0	114.0	71.5	1072.0	177.0	71.0	71.5	87.0
Merged-chr19-12501045-3	chr19	12500932	12501132	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172442, exon 1 of 9)	exon (NM_172442, exon 1 of 9)	964.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	12.0	19.0	17.0	113.5	9.5	7.0	6.0	17.0
Merged-chr11-107327517-4	chr11	107327388	107327588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359616, intron 2 of 8)	intron (NM_001359616, intron 2 of 8)	-138107.0	NM_001161329	68979.0	Mm.294617	NM_133702	ENSMUSG00000018433	Nol11	1500002M01Rik|AU015220|AU019874	nucleolar protein 11	protein-coding	141.0	107.5	116.0	1772.5	232.5	64.5	113.0	104.5
Merged-chr7-114415932-6	chr7	114415882	114416082	+	834.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029437)	promoter-TSS (NR_029437)	728.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	1.5	10.0	7.0	116.5	24.5	7.5	6.5	14.5
Merged-chr11-115048457-4	chr11	115048352	115048552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199201).2	promoter-TSS (NM_199201).2	-157.0	NM_199201	382551.0	Mm.424732	NM_199201	ENSMUSG00000069607	Cd300ld3	AY457049|Cd300lh|Clm3|Lmir7|clm-3	CD300 molecule like family member D3	protein-coding	90.0	160.0	94.5	1234.0	105.5	30.0	34.5	44.0
Merged-chr14-20734576-4	chr14	20734480	20734680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010811)	promoter-TSS (NM_010811)	-18.0	NM_010811	17423.0	Mm.4084	NM_010811	ENSMUSG00000039308	Ndst2	Mndns|NDST-2	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 2	protein-coding	183.5	357.5	207.5	3248.0	441.0	175.5	241.0	184.0
Merged-chr1-79669783-3	chr1	79669666	79669866	+	989.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183027, intron 1 of 4)	intron (NM_183027, intron 1 of 4)	2206.0	NM_183027	252903.0	Mm.32409	NM_183027	ENSMUSG00000054702	Ap1s3	1190009B22|Jr2|[s]3A	adaptor-related protein complex AP-1, sigma 3	protein-coding	15.0	31.0	13.0	311.5	22.0	5.5	8.5	16.5
Merged-chr10-128546485-4	chr10	128546374	128546574	+	954.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134003, intron 2 of 2)	intron (NM_134003, intron 2 of 2)	1270.0	NM_134003	103284.0	Mm.68289	NM_134003	ENSMUSG00000039810	Zc3h10	AI790326	zinc finger CCCH type containing 10	protein-coding	14.5	20.0	5.5	132.0	41.0	12.0	17.0	19.0
Merged-chr9-118705231-2	chr9	118705128	118705328	+	866.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 15 of 27)	intron (NM_133721, intron 15 of 27)	-6464.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	1.0	3.5	3.0	33.0	4.5	8.0	4.5	5.5
Merged-chr5-123376796-4	chr5	123376695	123376895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18003.0	NM_133917	208104.0	Mm.83277	NM_133917	ENSMUSG00000038342	Mlxip	AW228700|Mir|bHLHe36	MLX interacting protein	protein-coding	94.0	146.0	76.5	1041.0	204.5	54.5	57.5	58.5
Merged-chr12-21286841-3	chr12	21286727	21286927	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008403)	promoter-TSS (NM_008403)	530.0	NM_018813	54451.0	Mm.356778	NM_018813	ENSMUSG00000054309	Cpsf3	-	cleavage and polyadenylation specificity factor 3	protein-coding	11.0	15.0	6.0	139.5	12.0	7.5	9.5	9.0
Merged-chr17-28736780-2	chr17	28736680	28736880	+	912.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001168508, intron 8 of 11)	intron (NM_001168508, intron 8 of 11)	-32537.0	NM_011950	26415.0	Mm.27970	NM_011950	ENSMUSG00000004864	Mapk13	SAPK4|Serk4	mitogen-activated protein kinase 13	protein-coding	11.5	6.0	3.5	82.0	13.5	7.5	5.5	4.5
Merged-chr13-46930515-4	chr13	46930411	46930611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010617)	promoter-TSS (NM_010617)	-793.0	NM_010617	16553.0	Mm.342703	NM_010617	ENSMUSG00000021375	Kif13a	4930505I07Rik|mKIAA4109	kinesin family member 13A	protein-coding	32.5	54.0	44.0	690.5	89.5	38.5	73.0	52.5
Merged-chr18-60844586-2	chr18	60844486	60844686	+	898.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_011552, intron 2 of 24)	intron (NM_011552, intron 2 of 24)	4378.0	NM_011552	21453.0	Mm.486251	NM_011552	ENSMUSG00000024613	Tcof1	AA408847|AW209012|treacle	treacle ribosome biogenesis factor 1	protein-coding	3.0	6.5	3.0	20.5	8.0	9.5	6.0	6.0
Merged-chr16-58727926-4	chr16	58727817	58728017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_171826)	promoter-TSS (NM_171826)	7.0	NM_001252451	224250.0	Mm.29482	NM_171826	ENSMUSG00000022744	Cldnd1	1110019C08Rik|AA407103|AI849195|AW489850|Cldn25	claudin domain containing 1	protein-coding	273.0	375.5	249.5	5655.0	619.5	219.5	433.0	245.0
Merged-chr13-93179756-4	chr13	93179641	93179841	+	898.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154997, intron 4 of 15)	intron (NR_154997, intron 4 of 15)	12676.0	NM_001361536	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	13.5	28.0	17.0	189.0	41.0	6.0	17.0	12.0
Merged-chr10-116565094-4	chr10	116565077	116565277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359563, intron 1 of 13)	intron (NM_001359563, intron 1 of 13)	15359.0	NM_001359250	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	24.5	27.0	17.5	217.0	74.0	15.0	36.5	35.0
Merged-chr7-67526370-2	chr7	67526270	67526470	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_028144, intron 8 of 8)	Lx8|LINE|L1	118866.0	NM_175124	67867.0	Mm.31247	NM_027413	ENSMUSG00000030556	Lrrc28	1300004K21Rik|2210012C09Rik|2310058O11Rik	leucine rich repeat containing 28	protein-coding	23.5	44.0	20.0	553.5	30.0	11.0	10.0	14.0
Merged-chr19-7581298-4	chr19	7581204	7581404	+	867.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362425, intron 4 of 4)	MTEa|LTR|ERVL-MaLR	23819.0	NM_001362425	225845.0	Mm.274810	NM_139269	ENSMUSG00000060675	Pla2g16	AdPLA|C78643|HRSL3|Hrasls3|Hrev107|MLP-3	phospholipase A2, group XVI	protein-coding	15.0	26.0	20.0	221.5	19.0	8.0	8.5	13.0
Merged-chr8-106022784-2	chr8	106022684	106022884	+	838.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001301176, intron 2 of 14)	intron (NM_001301176, intron 2 of 14)	-11298.0	NM_028038	71986.0	Mm.307515	NM_028038	ENSMUSG00000045538	Ddx28	2410004K13Rik|AI449652|Mddx28	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	protein-coding	4.5	4.5	7.5	43.5	11.5	7.5	4.0	4.0
Merged-chr14-75195738-4	chr14	75195634	75195834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	-46553.0	NM_019775	56373.0	Mm.24242	NM_019775	ENSMUSG00000021999	Cpb2	1110032P04Rik|4930405E17Rik|AI255929|CPR|Cpu|TAFI	carboxypeptidase B2 (plasma)	protein-coding	90.0	185.0	104.5	1634.0	214.5	86.5	85.0	88.0
Merged-chr4-126086223-4	chr4	126086136	126086336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172701, intron 7 of 9)	intron (NM_172701, intron 7 of 9)	-10417.0	NM_001163266	116748.0	Mm.41865	NM_138721	ENSMUSG00000050188	Lsm10	-	U7 snRNP-specific Sm-like protein LSM10	protein-coding	76.5	185.5	63.5	797.0	206.5	77.5	91.5	59.5
Merged-chr2-90575822-4	chr2	90575698	90575898	+	835.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	4849.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	8.0	14.0	7.5	39.0	39.0	8.0	4.0	4.0
Merged-chr6-13678073-4	chr6	13677962	13678162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175312)	promoter-TSS (NM_175312)	-96.0	NM_175312	101148.0	Mm.354863	NM_175312	ENSMUSG00000042742	Bmt2	AI666701|B630005N14Rik	base methyltransferase of 25S rRNA 2	protein-coding	298.5	401.0	332.5	5391.0	669.5	249.0	357.0	254.5
Merged-chr18-46573045-4	chr18	46572947	46573147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173394, intron 1 of 2)	L2|LINE|L2	1486.0	NM_173394	225471.0	Mm.149280	NM_173394	ENSMUSG00000056130	Ticam2	B430113A10|TICAM-2|TRAM|Tirp|Trif	toll-like receptor adaptor molecule 2	protein-coding	34.0	56.5	40.5	812.0	108.5	30.0	50.5	40.5
Merged-chr17-48410556-2	chr17	48410456	48410656	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010913)	promoter-TSS (NM_010913)	106.0	NM_001357904	106821.0	Mm.203943	NM_207219	ENSMUSG00000040771	Oard1	AI314976|AW558560	O-acyl-ADP-ribose deacylase 1	protein-coding	10.0	12.5	6.5	120.5	18.0	9.5	11.5	9.0
Merged-chr11-114987513-1	chr11	114987413	114987613	+	706.75	f0_c57.idr	exon (NM_145437, exon 2 of 4)	exon (NM_145437, exon 2 of 4)	2373.0	NM_145437	217305.0	Mm.275986	NM_145437	ENSMUSG00000034641	Cd300ld	4732429D16Rik|CLM5|Cd300ld1|LMIR4|MAIR-IV|clm-5	CD300 molecule like family member d	protein-coding	3.5	6.5	10.0	40.5	24.5	8.0	19.5	25.5
Merged-chr4-139289071-5	chr4	139289019	139289219	+	878.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037761, intron 9 of 9)	intron (NM_001037761, intron 9 of 9)	21589.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	13.5	7.5	22.0	91.0	9.0	2.5	2.5	14.0
Merged-chr3-154596695-4	chr3	154596609	154596809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357674)	promoter-TSS (NM_001357674)	-2.0	NM_009968	12972.0	Mm.374855	NM_009968	ENSMUSG00000028199	Cryz	Sez9	crystallin, zeta	protein-coding	80.0	102.5	69.5	1286.5	121.0	67.0	63.0	62.0
Merged-chr11-76088663-4	chr11	76088559	76088759	+	838.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026664, intron 13 of 21)	intron (NM_026664, intron 13 of 21)	-60877.0	NM_029658	76566.0	Mm.34131	NM_029658	ENSMUSG00000020846	Rflnb	1500005K14Rik|Fam101b|RefilinB|cfm	refilin B	protein-coding	11.5	30.0	19.0	97.0	24.5	3.5	13.5	8.0
Merged-chr11-16954285-4	chr11	16954182	16954382	+	811.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176982, exon 4 of 4)	exon (NM_176982, exon 4 of 4)	2872.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	9.0	10.0	6.5	84.5	50.5	12.5	10.0	9.0
Merged-chr11-117655534-3	chr11	117655416	117655616	+	835.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198022, intron 1 of 21)	CpG	1227.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	9.5	16.0	9.0	79.0	16.5	4.5	1.5	8.5
Merged-chr14-14800074-4	chr14	14799966	14800166	+	955.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001360516)	TTS (NM_001360516)	-20749.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	21.5	7.5	17.5	249.5	36.0	14.5	23.5	9.0
Merged-chr11-100612346-4	chr11	100612250	100612450	+	756.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019795, intron 1 of 13)	MLTR14|LTR|ERV1	7818.0	NM_019795	56354.0	Mm.402409	NM_019795	ENSMUSG00000014195	Dnajc7	2010003F24Rik|2010004G07Rik|CCRP|Ttc2|mDj11|mTpr2	DnaJ heat shock protein family (Hsp40) member C7	protein-coding	10.0	10.0	7.5	142.5	17.0	4.0	7.5	13.5
Merged-chr7-110556351-3	chr7	110556259	110556459	+	731.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 2 of 40)	intron (NM_177324, intron 2 of 40)	58561.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	9.0	7.0	5.0	137.0	5.5	5.5	4.0	12.0
Merged-chr13-114834813-4	chr13	114834711	114834911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008396, exon 30 of 30)	3' UTR (NM_008396, exon 30 of 30)	16574.0	NM_001113374	17434.0	Mm.19027	NM_013826	ENSMUSG00000015536	Mocs2	AI415403	molybdenum cofactor synthesis 2	protein-coding	34.0	60.0	55.5	850.0	71.5	27.5	40.5	49.0
Merged-chr8-107291507-4	chr8	107291408	107291608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).3	intron (NR_039557, intron 2 of 3).3	-1962.0	NM_018823	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	67.5	162.0	69.5	570.5	123.5	60.5	50.5	29.0
Merged-chr6-67074079-3	chr6	67073980	67074180	+	847.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 4 of 6)	intron (NR_040278, intron 4 of 6)	-36673.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	13.5	12.5	18.0	217.5	23.5	8.5	8.5	13.5
Merged-chr10-22302547-4	chr10	22302462	22302662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-4158.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	129.5	167.5	116.5	2520.0	142.5	52.5	70.0	47.0
Merged-chr2-6478498-4	chr2	6478394	6478594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125758.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	150.5	174.5	129.5	2472.5	283.5	133.5	180.5	163.5
Merged-chr17-29094628-6	chr17	29094532	29094732	+	993.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007669, intron 1 of 2)	CpG	863.0	NM_007669	12575.0	Mm.195663	NM_007669	ENSMUSG00000023067	Cdkn1a	CAP20|CDKI|CIP1|Cdkn1|P21|SDI1|Waf1|mda6|p21Cip1|p21WAF	cyclin-dependent kinase inhibitor 1A (P21)	protein-coding	43.5	39.5	28.5	360.5	50.5	20.5	13.0	27.0
Merged-chr3-96057916-4	chr3	96057830	96058030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_013841, exon 1 of 15)	5' UTR (NM_013841, exon 1 of 15)	525.0	NM_013841	22365.0	Mm.263185	NM_013841	ENSMUSG00000015747	Vps45	AI462172|AW554165|mVps45	vacuolar protein sorting 45	protein-coding	36.0	53.0	32.0	502.0	72.5	38.5	40.0	47.0
Merged-chr1-131910404-4	chr1	131910308	131910508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175294)	promoter-TSS (NM_175294)	-50.0	NM_001145804	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	136.5	221.5	94.5	1697.0	348.5	135.0	171.5	126.0
Merged-chr6-92101189-4	chr6	92101082	92101282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347342, intron 1 of 14)	intron (NM_001347342, intron 1 of 14)	8749.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	61.5	80.5	68.5	574.0	131.5	63.5	52.0	70.0
Merged-chr15-50841889-3	chr15	50841801	50842001	+	881.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 2 of 5)	intron (NM_001310481, intron 2 of 5)	47148.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	8.5	8.0	7.5	131.0	40.0	4.5	8.0	7.0
Merged-chr11-120630641-4	chr11	120630540	120630740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010756, intron 1 of 2)	intron (NM_010756, intron 1 of 2)	2907.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	93.0	175.0	74.0	900.5	187.5	58.0	77.0	50.5
Merged-chr17-65802511-4	chr17	65802343	65802543	+	918.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152099, intron 2 of 20)	intron (NR_152099, intron 2 of 20)	19088.0	NR_104465	70351.0	Mm.48686	NM_146081	ENSMUSG00000061950	Ppp4r1	3110001J10Rik|Pp4r1	protein phosphatase 4, regulatory subunit 1	protein-coding	4.5	10.5	5.5	198.5	47.5	7.5	13.5	10.0
Merged-chr5-136199094-4	chr5	136199007	136199207	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025774)	promoter-TSS (NM_025774)	-153.0	NM_025774	66801.0	Mm.425295	NM_025774	ENSMUSG00000039737	Prkrip1	8430424D23Rik|C114	Prkr interacting protein 1 (IL11 inducible)	protein-coding	153.5	273.0	138.5	2474.0	432.5	218.5	165.5	185.5
Merged-chr7-16018513-6	chr7	16018351	16018551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB8|LINE|L1	-18956.0	NM_001081418	243842.0	Mm.440249	NM_001081418	ENSMUSG00000070808	Bicra	Gltscr1	BRD4 interacting chromatin remodeling complex associated protein	protein-coding	25.5	48.5	39.0	408.5	60.0	11.0	16.0	22.0
Merged-chr6-5159520-4	chr6	5159424	5159624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 15 of 15)	intron (NM_181595, intron 15 of 15)	34422.0	NM_011134	18979.0	Mm.237657	NM_011134	ENSMUSG00000002588	Pon1	Pon	paraoxonase 1	protein-coding	61.0	63.0	88.0	1398.0	109.5	36.0	55.5	53.5
Merged-chr9-124122257-4	chr9	124122125	124122325	+	993.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009917, intron 1 of 1)	intron (NM_009917, intron 1 of 1)	682.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	14.5	26.0	8.0	266.5	65.5	25.0	37.0	27.5
Merged-chr16-30512589-1	chr16	30512489	30512689	+	564.0	f0_balb.idr	3' UTR (NM_172614, exon 10 of 10)	3' UTR (NM_172614, exon 10 of 10)	37989.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	9.5	5.0	7.0	79.5	11.0	6.5	3.0	5.0
Merged-chr4-101198529-4	chr4	101198441	101198641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	B1F2|SINE|Alu	66741.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	19.0	28.5	19.5	463.0	47.0	11.0	21.0	28.5
Merged-chr8-71702211-10	chr8	71702064	71702264	+	864.156677	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028189)	promoter-TSS (NM_028189)	-364.0	NM_028189	72297.0	Mm.290837	NM_028189	ENSMUSG00000031803	B3gnt3	2210008L19Rik	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 3	protein-coding	22.0	22.5	10.0	143.0	22.0	8.0	11.5	15.5
Merged-chr11-69432270-4	chr11	69432174	69432374	+	939.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081330, intron 73 of 85)	intron (NM_001081330, intron 73 of 85)	-18599.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	13.5	27.0	5.0	158.0	52.5	18.0	12.5	17.5
Merged-chr9-95497104-4	chr9	95496952	95497152	+	874.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357977, intron 2 of 25)	Lx9|LINE|L1	14944.0	NM_001357975	67958.0	Mm.292742	NM_026476	ENSMUSG00000032407	U2surp	2610101N10Rik|AU023006|Sr140	U2 snRNP-associated SURP domain containing	protein-coding	12.0	9.0	19.5	227.0	23.0	7.5	6.0	11.0
Merged-chr7-49751276-4	chr7	49751109	49751309	+	797.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-7897.0	NM_001146053	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	6.0	5.0	5.0	51.5	7.0	2.5	3.0	2.0
Merged-chr10-112060134-4	chr10	112060032	112060232	+	666.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027018)	promoter-TSS (NM_027018)	-57.0	NM_027018	69286.0	Mm.47058	NM_027018	ENSMUSG00000020213	Glipr1l1	1700011E04Rik	GLI pathogenesis-related 1 like 1	protein-coding	10.0	12.5	4.5	107.5	13.5	9.5	15.0	3.0
Merged-chr4-155831550-4	chr4	155831372	155831572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025338, exon 1 of 4)	5' UTR (NM_025338, exon 1 of 4)	203.0	NM_025338	66077.0	Mm.28999	NM_025338	ENSMUSG00000065990	Aurkaip1	0610033H09Rik|Aip|Akip|MRP-S38	aurora kinase A interacting protein 1	protein-coding	49.0	74.0	53.5	670.5	128.0	61.0	64.5	63.5
Merged-chr9-95571144-3	chr9	95571031	95571231	+	718.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	11314.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	8.0	17.5	8.0	132.0	29.0	5.5	9.0	7.0
Merged-chr15-59620107-4	chr15	59620028	59620228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28526.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	19.5	48.0	27.0	237.0	79.5	39.5	21.5	28.5
Merged-chr1-159231651-1	chr1	159231551	159231751	+	1000.0	f0_c57.idr	promoter-TSS (NM_001360878)	promoter-TSS (NM_001360878)	-549.0	NM_001360878	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	10.5	7.5	14.5	71.5	40.5	16.0	12.5	20.5
Merged-chr10-34167182-4	chr10	34167091	34167291	+	964.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 2 of 5)	MLT1C|LTR|ERVL-MaLR	-39219.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	33.0	45.5	27.5	365.5	41.0	30.0	20.0	21.0
Merged-chr1-106174866-3	chr1	106174772	106174972	+	935.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	3003.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	9.0	9.0	17.5	245.0	18.0	7.0	15.0	12.0
Merged-chr11-17280143-4	chr11	17280079	17280279	+	883.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	22491.0	NM_001330649	57316.0	Mm.287982	NM_020558	ENSMUSG00000000581	C1d	1110036E10Rik|AI875855|SUN-CoR	C1D nuclear receptor co-repressor	protein-coding	2.5	6.5	25.0	114.0	18.5	6.5	8.0	15.0
Merged-chr9-118868949-4	chr9	118868839	118869039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 9 of 13)	intron (NM_001113514, intron 9 of 13)	-57597.0	NM_133710	69274.0	Mm.439928	NM_133710	ENSMUSG00000047409	Ctdspl	2810418J22Rik|AI426263|HYA22|SCP3	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	protein-coding	21.0	42.0	42.0	875.0	77.5	20.5	29.0	38.5
Merged-chr13-111809530-8	chr13	111809413	111809613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011945)	promoter-TSS (NM_011945)	-520.0	NM_011945	26401.0	Mm.15918	NM_011945	ENSMUSG00000021754	Map3k1	MAPKKK1|MEKK1|Mekk	mitogen-activated protein kinase kinase kinase 1	protein-coding	12.0	14.0	16.5	248.0	38.0	17.0	11.0	32.0
Merged-chr12-85177311-4	chr12	85177164	85177364	+	972.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008827)	promoter-TSS (NM_008827)	49.0	NM_008827	18654.0	Mm.4809	NM_008827	ENSMUSG00000004791	Pgf	AI854365|PIGF|Plgf	placental growth factor	protein-coding	18.0	71.5	36.5	517.0	29.5	19.0	14.5	25.0
Merged-chr2-4391352-4	chr2	4391249	4391449	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172475, intron 1 of 22)	ORR1F|LTR|ERVL-MaLR	-9627.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	6.5	6.0	13.5	277.5	42.0	15.0	17.0	13.0
Merged-chr2-33430294-3	chr2	33430184	33430384	+	849.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085507, intron 1 of 2)	L2a|LINE|L2	1040.0	NM_001085507	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	6.0	6.5	9.5	103.0	5.5	9.0	8.0	3.5
Merged-chr19-34921358-3	chr19	34921260	34921460	+	861.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362434)	promoter-TSS (NM_001362434)	-998.0	NM_001362434	240641.0	Mm.278471	NM_183046	ENSMUSG00000024795	Kif20b	33cex|C330014J10Rik|MPP1|Mphosph1|magoo	kinesin family member 20B	protein-coding	10.5	12.5	10.5	51.0	9.5	3.5	2.0	5.0
Merged-chr15-4024923-4	chr15	4024824	4025024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028266, intron 1 of 1)	intron (NR_028266, intron 1 of 1)	-1504.0	NM_024188	67041.0	Mm.13445	NM_024188	ENSMUSG00000022186	Oxct1	2610008O03Rik|Oxct|Oxct2a|Scot-s	3-oxoacid CoA transferase 1	protein-coding	70.0	72.5	50.0	872.0	196.5	67.0	75.5	65.0
Merged-chr17-88496525-3	chr17	88496425	88496625	+	977.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33599.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	33.0	35.5	22.0	388.5	2.5	1.0	1.0	3.0
Merged-chr13-54342817-4	chr13	54342672	54342872	+	901.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28577.0	NM_009946	12890.0	Mm.268902	NM_009946	ENSMUSG00000025867	Cplx2	921-L|AI413745|AW492120|Gm34843	complexin 2	protein-coding	9.5	18.5	3.5	61.5	37.5	19.5	12.5	14.5
Merged-chr12-79011186-2	chr12	79011087	79011287	+	671.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-3910.0	NM_178745	268567.0	Mm.341747	NM_178745	ENSMUSG00000046157	Tmem229b	6330442E10Rik|9830138K24|AU019070	transmembrane protein 229B	protein-coding	8.5	10.0	2.0	44.0	15.0	4.5	4.5	8.0
Merged-chr8-105324567-2	chr8	105324467	105324667	+	712.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_177449, intron 1 of 4)	intron (NM_177449, intron 1 of 4)	1709.0	NM_177449	234684.0	Mm.381717	NM_177449	ENSMUSG00000041679	Lrrc29	A630024J02Rik|FBL9|FBXL9	leucine rich repeat containing 29	protein-coding	3.5	8.0	1.5	33.0	7.0	5.5	5.5	8.0
Merged-chr11-57645310-4	chr11	57645215	57645415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134189)	promoter-TSS (NM_134189)	-127.0	NM_134189	171212.0	Mm.271670	NM_134189	ENSMUSG00000020520	Galnt10	AU018154|C330012K04Rik|GalNAc-T10|GalNAc-T9|Galnt9|ppGaNTase	polypeptide N-acetylgalactosaminyltransferase 10	protein-coding	41.5	82.5	64.5	503.0	113.0	47.0	43.0	39.0
Merged-chr14-10134052-4	chr14	10133934	10134134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 5 of 9)	intron (NM_001360141, intron 5 of 9)	249939.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	49.0	76.0	57.5	1104.0	161.0	42.0	77.0	51.0
Merged-chr16-55951734-4	chr16	55951691	55951891	+	970.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14484.0	NM_024218	68193.0	Mm.29221	NM_024218	ENSMUSG00000098274	Rpl24	0610008L05Rik|Bst	ribosomal protein L24	protein-coding	16.0	19.5	15.5	152.0	34.5	13.5	11.5	7.5
Merged-chr5-134102086-4	chr5	134102004	134102204	+	976.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030719, intron 1 of 8)	intron (NM_030719, intron 1 of 8)	2356.0	NM_030719	80909.0	Mm.45218	NM_030719	ENSMUSG00000015944	Gatsl2	7530428J21Rik|AW742413|Castor2|Gats|Gatsl1	GATS protein-like 2	protein-coding	17.5	29.5	25.5	308.5	54.5	15.0	21.0	19.0
Merged-chr12-80436746-4	chr12	80436677	80436877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177267)	promoter-TSS (NM_177267)	-176.0	NM_177267	320808.0	Mm.220310	NM_177267	ENSMUSG00000049106	Dcaf5	9430020B07Rik|AI325023|AI430035|AI848110|AW124614|BCRG2|BCRP2|Wdr22	DDB1 and CUL4 associated factor 5	protein-coding	75.0	75.0	56.0	598.5	65.0	52.0	24.5	41.0
Merged-chr3-69722712-4	chr3	69722632	69722832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133787, intron 2 of 15)	CpG-9222	677.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	23.0	31.0	32.5	282.5	81.5	17.0	35.5	33.5
Merged-chr13-95679974-3	chr13	95679875	95680075	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 17 of 35)	intron (NM_027711, intron 17 of 35)	-16945.0	NM_010170	14064.0	Mm.440952	NM_010170	ENSMUSG00000021675	F2rl2	F730031A08|PAR3	coagulation factor II (thrombin) receptor-like 2	protein-coding	59.0	152.5	101.0	1148.5	2.0	0.0	0.0	2.0
Merged-chr7-25686935-4	chr7	25686905	25687105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011577)	promoter-TSS (NM_011577)	3.0	NM_011577	21803.0	Mm.248380	NM_011577	ENSMUSG00000002603	Tgfb1	TGF-beta1|TGFbeta1|Tgfb|Tgfb-1	transforming growth factor, beta 1	protein-coding	87.5	176.5	63.5	824.0	196.0	104.5	94.0	73.5
Merged-chr10-67490031-4	chr10	67489921	67490121	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47848.0	NM_010118	13654.0	Mm.290421	NM_010118	ENSMUSG00000037868	Egr2	Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6	early growth response 2	protein-coding	17.0	31.0	20.0	527.0	55.5	17.5	27.5	30.0
Merged-chr5-140795420-3	chr5	140795313	140795513	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	intron (NM_010302, intron 1 of 3)	35018.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	25.5	33.5	14.0	324.0	15.5	5.0	5.5	4.5
Merged-chr5-45498377-3	chr5	45498266	45498466	+	835.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024434, intron 4 of 12)	intron (NM_024434, intron 4 of 12)	4992.0	NM_024434	66988.0	Mm.286830	NM_024434	ENSMUSG00000039682	Lap3	2410015L10Rik|AA410100|LAP-3|Lap|Lapep|Pep-7|Pep-S|Pep7|Peps	leucine aminopeptidase 3	protein-coding	8.5	12.5	7.5	159.0	11.0	3.5	8.5	7.5
Merged-chr10-12699134-3	chr10	12699031	12699231	+	744.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 22 of 73)	intron (NM_011682, intron 22 of 73)	162604.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	0.0	3.5	0.0	70.5	14.5	11.0	13.0	9.0
Merged-chr4-122840425-3	chr4	122840331	122840531	+	878.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 1 of 8)	L1MB5|LINE|L1	4204.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	9.0	6.0	15.0	255.0	3.0	2.0	1.5	0.5
Merged-chr12-81746612-4	chr12	81746556	81746756	+	850.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001174107, intron 2 of 10)	L1MB8|LINE|L1	34514.0	NM_177395	338372.0	Mm.35284	NM_177395	ENSMUSG00000042724	Map3k9	E130314H24Rik|Mlk1|Prke1	mitogen-activated protein kinase kinase kinase 9	protein-coding	7.0	8.5	6.5	158.5	11.0	9.0	9.0	13.0
Merged-chr11-120634021-3	chr11	120633892	120634092	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010756)	promoter-TSS (NM_010756)	-445.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	29.0	59.0	23.0	487.0	84.5	23.5	30.5	54.5
Merged-chr2-170307672-4	chr2	170307589	170307789	+	906.2416380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48672.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	18.5	12.5	9.5	247.5	43.5	12.5	20.0	17.0
Merged-chr8-39620493-4	chr8	39620446	39620646	+	967.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113326, intron 4 of 9)	RMER6A|LTR|ERVK	22132.0	NM_031195	20288.0	Mm.239291	NM_031195	ENSMUSG00000025044	Msr1	MRS-A|MSR|MSR-A|SR-AI|SR-AII|Scara1|Scvr	macrophage scavenger receptor 1	protein-coding	14.0	49.5	17.0	191.5	54.0	36.0	29.0	15.5
Merged-chr12-51691190-5	chr12	51691135	51691335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021710, exon 1 of 6)	5' UTR (NM_021710, exon 1 of 6)	269.0	NM_001329698	11782.0	Mm.386749	NM_021710	ENSMUSG00000020955	Ap4s1	AI314282	adaptor-related protein complex AP-4, sigma 1	protein-coding	36.5	35.5	35.5	502.5	100.0	45.0	33.0	58.0
Merged-chr4-132049258-4	chr4	132049182	132049382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128606)	promoter-TSS (NM_001128606)	-204.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	56.0	77.5	62.0	855.0	170.0	51.5	76.0	51.0
Merged-chr11-67636602-4	chr11	67636476	67636676	+	751.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277080, intron 3 of 12)	intron (NM_001277080, intron 3 of 12)	40021.0	NM_001277079	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	6.5	3.5	4.0	57.5	13.5	5.0	6.0	9.0
Merged-chr2-164074667-1	chr2	164074567	164074767	+	573.0	f0_balb.idr	intron (NM_021420, intron 1 of 10)	MIR|SINE|MIR	489.0	NM_021420	58231.0	Mm.234472	NM_021420	ENSMUSG00000018209	Stk4	AI447339|AU020804|Kas-2|Mst1|Ysk3	serine/threonine kinase 4	protein-coding	7.0	8.0	4.5	88.0	15.0	1.0	4.0	5.0
Merged-chr4-6376126-4	chr4	6376023	6376223	+	924.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	10443.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	8.0	14.5	16.0	413.0	25.0	10.0	15.5	16.5
Merged-chr16-57363163-4	chr16	57363060	57363260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	RMER17B2|LTR|ERVK	9883.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	18.5	38.5	18.5	301.5	49.5	20.5	29.0	34.5
Merged-chr14-103048889-3	chr14	103048780	103048980	+	913.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008392, intron 1 of 4)	intron (NM_008392, intron 1 of 4)	1868.0	NM_008392	16365.0	Mm.4662	NM_008392	ENSMUSG00000022126	Acod1	AI323667|CAD|Irg1	aconitate decarboxylase 1	protein-coding	13.5	27.5	8.0	107.0	10.0	7.5	1.0	6.0
Merged-chr8-70538180-4	chr8	70538079	70538279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1496.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	137.5	237.0	130.5	1605.0	351.5	154.0	159.5	128.0
Merged-chr2-66144059-4	chr2	66143978	66144178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19285.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	35.5	56.0	50.5	892.5	95.0	28.0	28.5	42.0
Merged-chr10-83184117-4	chr10	83184019	83184219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021439, intron 2 of 2)	MIR|SINE|MIR	153698.0	NM_177388	338365.0	Mm.67073	NM_177388	ENSMUSG00000034591	Slc41a2	A230035L05Rik|SLC41A1-L1	solute carrier family 41, member 2	protein-coding	38.0	43.0	44.0	613.0	53.0	9.5	21.0	26.0
Merged-chr11-83595917-4	chr11	83595806	83596006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 1 of 8)	MLTR14|LTR|ERV1	-2819.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	42.5	69.0	17.5	506.0	125.5	28.0	49.5	38.0
Merged-chr7-101092846-4	chr7	101092706	101092906	+	885.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15969.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	8.0	13.0	9.5	259.0	29.0	7.0	11.5	17.5
Merged-chr5-31452412-4	chr5	31452340	31452540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172993)	promoter-TSS (NM_172993)	4.0	NM_001360000	269639.0	Mm.259127	NM_172993	ENSMUSG00000062761	Zfp512	2500002M11Rik|AI450173|D230008H22|Znf512	zinc finger protein 512	protein-coding	82.5	149.0	81.5	1252.0	174.5	59.5	68.0	63.5
Merged-chr14-70028529-3	chr14	70028429	70028629	+	789.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 4 of 6)	intron (NM_028560, intron 4 of 6)	-48916.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	4.0	3.0	4.0	24.5	13.5	10.0	8.0	15.5
Merged-chr9-61024917-4	chr9	61024810	61025010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7841.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	26.0	34.5	31.0	367.5	49.5	27.0	33.5	19.5
Merged-chr15-8446605-4	chr15	8446519	8446719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2156.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	37.5	55.0	44.0	565.5	124.5	51.5	38.0	37.0
Merged-chr14-32683384-3	chr14	32683315	32683515	+	928.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195097, intron 1 of 3)	intron (NM_001195097, intron 1 of 3)	1857.0	NM_001195097	100504518.0	Mm.318319	NM_001195097	ENSMUSG00000071540	3425401B19Rik	Cefip	RIKEN cDNA 3425401B19 gene	protein-coding	7.5	17.0	11.5	144.5	7.5	5.5	5.0	4.5
Merged-chr7-120870253-4	chr7	120870126	120870326	+	995.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 2 of 17)	intron (NM_001267710, intron 2 of 17)	19037.0	NM_001267711	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	24.0	20.5	16.0	413.5	32.5	21.0	15.5	17.0
Merged-chr6-47841036-4	chr6	47840929	47841129	+	852.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027477, intron 2 of 5)	intron (NM_027477, intron 2 of 5)	5368.0	NM_173034	272347.0	Mm.169059	NM_027477	ENSMUSG00000062519	Zfp398	5730513I23Rik	zinc finger protein 398	protein-coding	3.5	14.0	6.0	138.5	32.5	8.5	7.5	11.5
Merged-chr11-23357523-4	chr11	23357443	23357643	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190401, intron 10 of 79)	intron (NM_001190401, intron 10 of 79)	50648.0	NM_001190401	17847.0	Mm.119155	NM_001190401	ENSMUSG00000056342	Usp34	A530081C03Rik|Murr2	ubiquitin specific peptidase 34	protein-coding	25.5	24.5	23.5	389.0	46.0	14.0	26.0	28.5
Merged-chr9-65577100-5	chr9	65577034	65577234	+	937.4266359999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153119, intron 1 of 5)	intron (NM_153119, intron 1 of 5)	2953.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	10.0	2.0	11.5	102.0	46.5	11.0	10.5	26.0
Merged-chr19-10949785-4	chr19	10949675	10949875	+	952.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023731)	promoter-TSS (NM_023731)	-509.0	NM_023731	108673.0	Mm.294908	NM_023731	ENSMUSG00000024732	Ccdc86	4933411H20Rik|6720480F16Rik|D19Ertd678e	coiled-coil domain containing 86	protein-coding	11.5	14.5	10.0	196.0	49.5	6.0	9.5	13.5
Merged-chr4-40757850-4	chr4	40757731	40757931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021535)	promoter-TSS (NM_021535)	54.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	78.5	136.5	113.0	1007.0	227.5	90.5	128.0	95.0
Merged-chr6-40479919-4	chr6	40479821	40480021	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212468, intron 6 of 6)	intron (NM_212468, intron 6 of 6)	8453.0	NM_001286663	381760.0	Mm.276356	NM_028358	ENSMUSG00000029911	Ssbp1	2810480P10Rik|G630031O20Rik|MtSSB|mtDBP	single-stranded DNA binding protein 1	protein-coding	5.0	15.0	8.0	149.0	35.5	5.0	10.5	14.5
Merged-chr7-128221154-4	chr7	128221066	128221266	+	962.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14800.0	NM_009943	12862.0	Mm.43824	NM_009943	ENSMUSG00000030785	Cox6a2	CoxVIaH|VIaH	cytochrome c oxidase subunit VIa polypeptide 2	protein-coding	32.0	48.0	44.0	836.5	41.0	16.5	47.5	38.5
Merged-chr8-25083321-4	chr8	25083225	25083425	+	871.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 2 of 11)	intron (NM_031257, intron 2 of 11)	18486.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	13.5	7.0	10.5	180.0	27.5	9.5	15.0	9.0
Merged-chr11-75460188-4	chr11	75460072	75460272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1367.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	22.5	37.0	31.0	404.0	46.5	26.5	29.0	30.5
Merged-chr7-19083950-4	chr7	19083862	19084062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126095, exon 1 of 15)	non-coding (NR_126095, exon 1 of 15)	113.0	NM_001190491	13400.0	Mm.6529	NM_032418	ENSMUSG00000030409	Dmpk	DM|DMK|Dm15|MDPK|MT-PK	dystrophia myotonica-protein kinase	protein-coding	18.5	23.0	27.0	211.5	113.0	24.5	47.0	33.5
Merged-chr19-23142091-4	chr19	23142003	23142203	+	994.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010638, exon 1 of 2)	exon (NM_010638, exon 1 of 2)	877.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	19.0	20.5	23.5	272.0	32.0	23.0	17.0	20.0
Merged-chr6-29216549-7	chr6	29216466	29216666	+	996.6785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302933)	promoter-TSS (NM_001302933)	-202.0	NM_001302934	23917.0	Mm.260707	NM_011829	ENSMUSG00000003500	Impdh1	B930086D20Rik|IMPDH-I	inosine monophosphate dehydrogenase 1	protein-coding	30.5	21.0	45.5	550.5	39.0	28.5	27.0	18.5
Merged-chr14-27378567-4	chr14	27378461	27378661	+	981.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027871, intron 3 of 10)	intron (NM_027871, intron 3 of 10)	17172.0	NM_001289688	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	25.5	58.5	31.5	292.0	34.0	14.5	5.0	5.5
Merged-chr11-46815510-3	chr11	46815398	46815598	+	859.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178759, exon 2 of 9)	exon (NM_178759, exon 2 of 9)	4699.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	8.0	10.0	5.0	62.0	19.0	11.0	6.0	4.5
Merged-chr1-170901332-2	chr1	170901232	170901432	+	814.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	11609.0	NM_001029984	435653.0	Mm.337931	NM_001029984	ENSMUSG00000070524	Fcrlb	FREB-2|FREB2|FcRL2|Fcrlm2|Fcry|mFCRL2	Fc receptor-like B	protein-coding	5.5	7.5	11.0	34.0	13.5	7.0	5.5	4.5
Merged-chr19-6871803-4	chr19	6871702	6871902	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13591.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	16.5	47.5	13.0	181.0	58.0	29.5	16.5	16.5
Merged-chr13-46735975-4	chr13	46735866	46736066	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8117.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	27.5	25.0	15.5	310.5	48.5	14.5	16.0	19.0
Merged-chr14-68593593-4	chr14	68593474	68593674	+	935.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11502.0	NM_021475	58860.0	Mm.36742	NM_021475	ENSMUSG00000022057	Adamdec1	2210414L24Rik|AI574231|Dcsn	ADAM-like, decysin 1	protein-coding	18.5	28.0	32.5	319.5	40.0	12.5	11.5	24.0
Merged-chr6-116654338-4	chr6	116654255	116654455	+	859.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 3 of 10)	intron (NM_178045, intron 3 of 10)	3671.0	NM_001166580	213393.0	Mm.38231	NM_145980	ENSMUSG00000048489	8430408G22Rik	Depp|Depp1|Fseg	RIKEN cDNA 8430408G22 gene	protein-coding	10.5	16.5	9.0	66.0	26.5	17.0	9.5	14.5
Merged-chr13-43557275-3	chr13	43557155	43557355	+	924.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081059, intron 1 of 8)	intron (NM_001081059, intron 1 of 8)	2936.0	NM_001081059	76137.0	Mm.426290	NM_001081059	ENSMUSG00000021371	Mcur1	6230416A05Rik|AU015498|AV136929|AW554392|C88263|Ccdc90a	mitochondrial calcium uniporter regulator 1	protein-coding	12.5	13.0	22.5	201.0	17.0	7.5	10.0	12.5
Merged-chr17-23844073-3	chr17	23843979	23844179	+	997.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027644)	promoter-TSS (NM_027644)	77.0	NM_027644	71003.0	Mm.328839	NM_027644	ENSMUSG00000024114	Prss41	4931440B09Rik|Tessp-1|Tessp1	protease, serine 41	protein-coding	18.5	26.5	11.5	249.5	9.0	8.0	3.0	8.0
Merged-chr15-96599080-3	chr15	96598979	96599179	+	874.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166456, intron 4 of 15)	intron (NM_001166456, intron 4 of 15)	42883.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	7.0	25.5	9.0	153.5	17.0	4.0	9.0	16.5
Merged-chr6-93758291-4	chr6	93758198	93758398	+	984.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029850, intron 8 of 23)	Tigger7|DNA|TcMar-Tigger	154665.0	NR_104594	14924.0	Mm.217216	NM_010367	ENSMUSG00000045095	Magi1	AIP3|BAP1|Baiap1|Gukmi1|MAGI1c|Magi-1|TNRC19|WWP3|mKIAA4129	membrane associated guanylate kinase, WW and PDZ domain containing 1	protein-coding	68.5	114.0	122.0	2290.0	81.0	15.5	51.5	22.0
Merged-chr4-120857199-4	chr4	120857081	120857281	+	867.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 1 of 7)	intron (NM_182929, intron 1 of 7)	2382.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	7.5	5.5	10.5	234.0	30.5	16.0	25.0	21.0
Merged-chr17-8802384-4	chr17	8802277	8802477	+	986.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	CpG	632.0	NM_011866	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	39.0	47.0	38.0	450.5	33.5	16.5	22.5	17.0
Merged-chr19-5041386-4	chr19	5041326	5041526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134155)	promoter-TSS (NM_134155)	72.0	NM_134155	107392.0	Mm.29628	NM_134155	ENSMUSG00000080268	Brms1	AV003220|AW554636	breast cancer metastasis-suppressor 1	protein-coding	52.0	73.0	48.5	570.5	100.0	38.5	33.5	32.5
Merged-chr12-57231193-4	chr12	57231111	57231311	+	918.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164370, intron 1 of 9)	B1_Mm|SINE|Alu	786.0	NM_001164370	73490.0	Mm.268180	NM_001164370	ENSMUSG00000047022	Mipol1	1700081O04Rik|6030439O22Rik|AU021838|AW536152|D12Ertd19e	mirror-image polydactyly 1	protein-coding	14.5	22.0	14.0	155.5	47.5	23.0	14.0	23.0
Merged-chr15-98957386-4	chr15	98957292	98957492	+	913.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3891.0	NM_011653	22142.0	Mm.405359	NM_011653	ENSMUSG00000072235	Tuba1a	Tuba-1|Tuba1	tubulin, alpha 1A	protein-coding	16.5	15.0	19.5	203.5	30.0	5.5	11.5	13.5
Merged-chr1-192136713-4	chr1	192136621	192136821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033536)	promoter-TSS (NR_033536)	-177.0	NR_033536	100038712.0	Mm.474908	NR_033536	ENSMUSG00000097316	Gm10516	-	predicted gene 10516	ncRNA	31.0	36.5	34.5	538.0	59.5	14.0	48.0	27.0
Merged-chr18-49968895-4	chr18	49968790	49968990	+	851.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10537.0	NM_001177760	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	10.5	11.0	13.0	212.0	37.0	13.5	17.5	13.5
Merged-chr15-97520641-1	chr15	97520541	97520741	+	843.0	f0_balb.idr	Intergenic	ORR1E-int|LTR|ERVL-MaLR	185181.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	5.5	13.5	18.5	347.5	18.5	7.0	5.5	11.0
Merged-chr16-4678316-4	chr16	4678227	4678427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030205, intron 1 of 27)	intron (NM_030205, intron 1 of 27)	1393.0	NM_030205	78885.0	Mm.325512	NM_030205	ENSMUSG00000039637	Coro7	0610011B16Rik|AW048373|AW556392	coronin 7	protein-coding	47.5	78.5	52.0	987.0	128.5	50.5	62.0	50.0
Merged-chr3-27192444-4	chr3	27192344	27192544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	9440.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	32.0	53.5	51.5	830.5	83.0	17.5	38.0	27.0
Merged-chr2-157457613-4	chr2	157457487	157457687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 4 of 13)	CpG	33294.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	61.5	88.0	52.5	567.5	81.0	53.0	40.0	42.0
Merged-chr2-103796556-4	chr2	103796510	103796710	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111292, intron 1 of 16)	CpG	468.0	NM_001111290	53872.0	Mm.427589	NM_016739	ENSMUSG00000027184	Caprin1	AL022980|Caprin-1|Gpiap|Gpiap1|Mmgpip137|P137|rng105	cell cycle associated protein 1	protein-coding	19.5	22.0	16.5	176.0	69.0	22.0	29.0	30.0
Merged-chr11-4218163-4	chr11	4218063	4218263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028022)	promoter-TSS (NM_028022)	-88.0	NM_028022	71962.0	Mm.7852	NM_028022	ENSMUSG00000020424	Gatsl3	2410008K03Rik|Castor1	GATS protein-like 3	protein-coding	46.0	66.0	28.5	634.5	70.0	31.5	24.0	40.0
Merged-chr2-127208245-4	chr2	127208117	127208317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198630)	promoter-TSS (NM_198630)	63.0	NM_198630	329509.0	Mm.120738	NM_198630	ENSMUSG00000044145	1810024B03Rik	-	RIKEN cDNA 1810024B03 gene	protein-coding	46.0	75.5	49.5	331.0	170.0	64.5	69.5	56.5
Merged-chr9-106170887-4	chr9	106170812	106171012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029896)	promoter-TSS (NM_029896)	-17.0	NM_029896	77305.0	Mm.265125	NM_029896	ENSMUSG00000020257	Wdr82	9430077D24Rik|CDW5/WDR82	WD repeat domain containing 82	protein-coding	76.0	130.0	43.0	1099.0	239.0	85.5	97.0	101.5
Merged-chr7-100458336-4	chr7	100458248	100458448	+	939.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 31 of 32)	intron (NM_001017985, intron 31 of 32)	-14643.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	52.5	54.0	26.5	614.5	37.5	9.5	34.0	17.0
Merged-chr7-79499965-3	chr7	79499822	79500022	+	803.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040311)	promoter-TSS (NR_040311)	-104.0	NR_040311	101694.0	Mm.41661	NR_040311	ENSMUSG00000097023	Mir9-3hg	AI854517	Mir9-3 host gene	ncRNA	5.5	10.5	6.0	159.0	22.0	7.5	5.0	2.0
Merged-chr3-146422015-4	chr3	146421969	146422169	+	787.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253770, intron 4 of 13)	L1M2|LINE|L1	17427.0	NM_001355661	99167.0	Mm.200783	NM_138744	ENSMUSG00000036825	Ssx2ip	AU014939|AU042321|Adip	synovial sarcoma, X 2 interacting protein	protein-coding	9.5	5.0	11.0	159.5	29.0	4.0	13.0	6.5
Merged-chr7-18840224-2	chr7	18840124	18840324	+	766.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_153760, intron 1 of 4)	RMER10B|LTR|ERVL	258.0	NM_153760	243864.0	Mm.233503	NM_153760	ENSMUSG00000040987	Mill2	Micb	MHC I like leukocyte 2	protein-coding	4.0	2.5	2.0	19.0	12.0	7.0	6.5	8.5
Merged-chr11-4222530-4	chr11	4222416	4222616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028022)	TTS (NM_028022)	4265.0	NM_028022	71962.0	Mm.7852	NM_028022	ENSMUSG00000020424	Gatsl3	2410008K03Rik|Castor1	GATS protein-like 3	protein-coding	63.0	77.5	52.0	798.0	99.5	27.0	36.5	31.5
Merged-chr15-38300903-4	chr15	38300818	38301018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289471)	promoter-TSS (NM_001289471)	-207.0	NM_001289471	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	321.5	534.5	365.5	4222.5	884.5	354.5	404.5	316.5
Merged-chr1-180226017-4	chr1	180225908	180226108	+	922.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011183)	TTS (NM_011183)	19942.0	NM_011183	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	21.0	47.5	15.0	335.5	30.5	15.0	24.0	20.0
Merged-chr11-21015107-4	chr11	21015074	21015274	+	991.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76150.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	25.0	40.0	22.0	304.5	75.5	27.0	19.0	21.0
Merged-chr1-24699522-4	chr1	24699416	24699616	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026719, intron 3 of 15)	intron (NM_026719, intron 3 of 15)	20598.0	NM_001310483	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	123.5	239.5	146.5	3801.0	127.5	30.0	87.5	47.5
Merged-chr11-118353767-4	chr11	118353654	118353854	+	985.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011594, intron 1 of 4)	intron (NM_011594, intron 1 of 4)	1657.0	NM_011594	21858.0	Mm.206505	NM_011594	ENSMUSG00000017466	Timp2	D11Bwg1104e|Timp-2	tissue inhibitor of metalloproteinase 2	protein-coding	26.0	29.0	35.5	410.5	41.0	19.5	16.5	10.5
Merged-chr10-80577640-7	chr10	80577557	80577757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_078477)	promoter-TSS (NM_078477)	-361.0	NM_078477	118445.0	Mm.41513	NM_078477	ENSMUSG00000035397	Klf16	AI843742|BTEB4|DRRF	Kruppel-like factor 16	protein-coding	66.5	101.0	94.0	817.0	143.0	63.0	49.5	78.0
Merged-chr10-8777699-4	chr10	8777608	8777808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	108362.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	61.5	101.5	88.5	973.0	118.5	38.5	66.5	62.5
Merged-chr16-32202826-4	chr16	32202717	32202917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23017.0	NM_001033539	328660.0	Mm.441006	NM_001033539	ENSMUSG00000075269	Bex6	B020003O03Rik	brain expressed family member 6	protein-coding	107.0	201.5	86.5	1305.5	264.0	92.0	111.5	97.5
Merged-chr10-98915650-1	chr10	98915550	98915750	+	1000.0	f0_balb.idr	intron (NM_001359507, intron 1 of 21)	CpG	498.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	20.5	28.5	30.0	350.0	60.5	25.5	22.5	44.5
Merged-chr14-101652630-3	chr14	101652516	101652716	+	906.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1351.0	NM_016723	50933.0	Mm.275970	NM_016723	ENSMUSG00000022111	Uchl3	-	ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase)	protein-coding	6.0	15.5	10.0	144.0	21.5	7.5	2.5	4.5
Merged-chr8-104375435-4	chr8	104375333	104375533	+	978.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153582, intron 1 of 3)	intron (NM_153582, intron 1 of 3)	20374.0	NM_153582	97487.0	Mm.29658	NM_153582	ENSMUSG00000096188	Cmtm4	Cklfsf4|D19397|Gm9853	CKLF-like MARVEL transmembrane domain containing 4	protein-coding	26.0	18.5	27.5	632.0	45.5	18.5	29.0	24.5
Merged-chr15-34047145-4	chr15	34047014	34047214	+	993.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35605.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	27.5	49.0	17.5	180.5	85.0	45.5	27.5	16.5
Merged-chr2-120432181-4	chr2	120432083	120432283	+	925.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172672, intron 10 of 23)	HAL1|LINE|L1	-28067.0	NM_001110496	211499.0	Mm.260712	NM_173734	ENSMUSG00000033808	Tmem87a	A930025J12Rik	transmembrane protein 87A	protein-coding	8.5	26.5	12.5	337.0	53.5	6.0	15.5	29.5
Merged-chr12-111713179-4	chr12	111713064	111713264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027404)	promoter-TSS (NM_027404)	92.0	NM_027404	70369.0	Mm.44239	NM_027404	ENSMUSG00000049792	Bag5	1600025G07Rik|4930405J06Rik|Bag-5	BCL2-associated athanogene 5	protein-coding	81.5	153.0	77.5	1097.0	230.0	80.5	94.0	81.5
Merged-chr18-54992057-4	chr18	54991991	54992191	+	993.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 1 of 8)	intron (NM_001360787, intron 1 of 8)	500.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	24.0	20.5	139.5	30.0	18.0	16.0	19.0
Merged-chr2-159950386-4	chr2	159950282	159950482	+	654.554138	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040498, intron 1 of 6)	intron (NR_040498, intron 1 of 6)	3041.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	16.5	14.5	7.0	99.0	22.0	8.5	11.5	12.0
Merged-chr2-45101985-2	chr2	45101885	45102085	+	821.25	f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	8292.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	6.0	14.0	6.0	34.5	4.0	2.5	8.0	6.0
Merged-chr7-28671357-4	chr7	28671259	28671459	+	980.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-21490.0	NM_207238	233040.0	Mm.116116	NM_207238	ENSMUSG00000037463	Fbxo27	E130008B10Rik|FBG5|Gm161	F-box protein 27	protein-coding	18.5	27.0	15.5	225.0	78.5	24.5	27.5	41.0
Merged-chr8-95204154-4	chr8	95204061	95204261	+	719.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61621.0	NM_001145831	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	4.0	9.0	4.5	143.0	23.5	14.0	7.0	7.5
Merged-chr11-83191246-4	chr11	83191145	83191345	+	834.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011409)	promoter-TSS (NM_011409)	-85.0	NM_011409	20557.0	Mm.290922	NM_011409	ENSMUSG00000018986	Slfn3	-	schlafen 3	protein-coding	25.5	27.5	7.5	70.0	21.5	14.0	10.5	10.0
Merged-chr17-32036406-4	chr17	32036296	32036496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_028244, exon 1 of 16)	5' UTR (NM_028244, exon 1 of 16)	234.0	NM_028244	72462.0	Mm.102761	NM_028244	ENSMUSG00000058392	Rrp1b	2600005C20Rik|D030064A17|Kiaa0179|mKIAA0179	ribosomal RNA processing 1 homolog B (S. cerevisiae)	protein-coding	49.0	48.0	13.5	430.5	89.0	46.5	42.5	32.5
Merged-chr11-67589065-4	chr11	67588948	67589148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109657, intron 1 of 13)	intron (NM_001109657, intron 1 of 13)	2548.0	NM_001109657	14457.0	Mm.40338	NM_008088	ENSMUSG00000033066	Gas7	AW124766|B230343A10Rik|Gas7-cb	growth arrest specific 7	protein-coding	66.5	77.0	47.0	692.5	175.5	52.0	44.5	63.5
Merged-chr2-130954555-4	chr2	130954464	130954664	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009730, intron 6 of 28)	intron (NM_009730, intron 6 of 28)	48069.0	NM_009730	11990.0	Mm.119936	NM_009730	ENSMUSG00000027312	Atrn	AW558010|Mgca|mg	attractin	protein-coding	37.0	29.5	37.5	602.0	60.5	27.0	18.0	36.5
Merged-chr11-20107879-4	chr11	20107780	20107980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146243, intron 1 of 8)	intron (NM_146243, intron 1 of 8)	5071.0	NM_146243	66713.0	Mm.259045	NM_146243	ENSMUSG00000020152	Actr2	4921510D23Rik|AA409782|Arp2|D6Ertd746e	ARP2 actin-related protein 2	protein-coding	46.5	48.5	30.5	783.0	133.5	66.5	67.5	57.0
Merged-chr9-66543016-4	chr9	66542982	66543182	+	811.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144937, intron 6 of 14)	intron (NM_144937, intron 6 of 14)	-28489.0	NM_175206	74165.0	Mm.297998	NM_175206	ENSMUSG00000050503	Fbxl22	1110004B15Rik	F-box and leucine-rich repeat protein 22	protein-coding	4.0	5.5	1.0	99.5	14.0	7.0	4.5	8.5
Merged-chr2-128701922-4	chr2	128701857	128702057	+	903.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	3042.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	12.0	6.5	13.5	231.5	27.5	6.0	13.0	21.5
Merged-chr1-184853466-4	chr1	184853348	184853548	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7601.0	NM_133684	67247.0	Mm.177724	NM_133684	ENSMUSG00000073481	Marc2	2810484M10Rik|Mosc2|mARC1	mitochondrial amidoxime reducing component 2	protein-coding	34.5	43.5	13.0	253.5	77.0	18.0	35.0	27.0
Merged-chr6-124779821-3	chr6	124779706	124779906	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302555)	promoter-TSS (NM_001302555)	-79.0	NM_001302555	16977.0	Mm.3207	NM_013588	ENSMUSG00000030125	Lrrc23	4921537K05Rik|B7|Lrpb7	leucine rich repeat containing 23	protein-coding	14.5	10.0	5.0	88.5	13.0	7.5	5.5	13.0
Merged-chr10-60280517-4	chr10	60280446	60280646	+	765.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011179, intron 1 of 14)	intron (NM_011179, intron 1 of 14)	2918.0	NM_001146121	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	5.5	20.0	4.5	85.5	27.0	5.0	8.0	12.0
Merged-chr2-126658572-4	chr2	126658497	126658697	+	823.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355108, intron 1 of 7)	intron (NM_001355108, intron 1 of 7)	16755.0	NM_001355109	14391.0	Mm.293266	NM_010249	ENSMUSG00000027361	Gabpb1	BABPB2|E4TF1|E4TF1-47|E4TF1-53|E4Tf1B|GABPB|GABPB-1|GABPB-2|GABPB1-1|GABPB1-2|NRF2B1|NRF2B2	GA repeat binding protein, beta 1	protein-coding	2.0	21.5	10.5	57.0	29.0	6.0	10.0	12.0
Merged-chr11-111210716-4	chr11	111210613	111210813	+	959.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144549.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	27.5	28.0	26.0	260.5	31.0	6.0	15.5	15.5
Merged-chr17-66519795-4	chr17	66519725	66519925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024448)	promoter-TSS (NM_024448)	-155.0	NM_024448	19328.0	Mm.248313	NM_024448	ENSMUSG00000023460	Rab12	2900054P15Rik|AW555448|C77700	RAB12, member RAS oncogene family	protein-coding	70.0	111.5	56.5	1210.0	167.5	57.0	81.0	74.5
Merged-chr3-55293210-4	chr3	55293116	55293316	+	673.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357475, intron 3 of 16)	intron (NM_001357475, intron 3 of 16)	50852.0	NM_001357466	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	8.5	11.0	6.5	123.0	24.5	18.5	8.5	14.5
Merged-chr10-40108130-4	chr10	40108010	40108210	+	940.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 1 of 5)	intron (NM_001114332, intron 1 of 5)	34144.0	NM_028247	72472.0	Mm.186778	NM_028247	ENSMUSG00000019838	Slc16a10	2610103N14Rik|9830169E08|Mct10|PRO0813|TAT1	solute carrier family 16 (monocarboxylic acid transporters), member 10	protein-coding	8.0	35.0	13.0	154.0	39.0	10.0	8.5	8.0
Merged-chr9-14276173-4	chr9	14276065	14276265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030261)	promoter-TSS (NM_030261)	-136.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	398.0	593.5	464.5	6773.0	1061.0	371.5	510.0	421.0
Merged-chr5-64377924-4	chr5	64377823	64378023	+	838.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	90019.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	10.5	11.0	9.0	107.5	28.0	10.5	8.0	4.5
Merged-chr4-95341080-4	chr4	95340970	95341170	+	950.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-216437.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	2.0	4.0	8.5	108.0	89.0	30.0	27.0	47.5
Merged-chr6-120822362-2	chr6	120822277	120822477	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_007510, intron 1 of 8)	intron (NM_007510, intron 1 of 8)	321.0	NM_007510	11973.0	Mm.29045	NM_007510	ENSMUSG00000019210	Atp6v1e1	2410029D23Rik|Atp6e|Atp6e2|Atp6v1e|D6Ertd385e|Vma4|p31	ATPase, H+ transporting, lysosomal V1 subunit E1	protein-coding	29.5	105.0	29.5	356.0	196.5	54.5	58.0	44.5
Merged-chr11-55470628-8	chr11	55470489	55470689	+	990.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013716, intron 1 of 11)	intron (NM_013716, intron 1 of 11)	837.0	NM_013716	27041.0	Mm.39631	NM_013716	ENSMUSG00000018583	G3bp1	AI849976|B430204O07|C87777|G3bp|mKIAA4115	GTPase activating protein (SH3 domain) binding protein 1	protein-coding	20.0	52.0	27.0	109.0	56.5	25.0	16.0	28.5
Merged-chr5-118477866-4	chr5	118477756	118477956	+	951.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82863.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	36.0	78.5	20.0	187.0	86.0	38.0	18.5	10.0
Merged-chr17-51044059-3	chr17	51043956	51044156	+	921.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 2 of 21)	intron (NM_028162, intron 2 of 21)	115322.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	7.0	9.0	7.0	316.0	43.0	5.0	12.5	13.0
Merged-chr8-111653693-4	chr8	111653607	111653807	+	783.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358993, intron 1 of 3)	intron (NM_001358993, intron 1 of 3)	10264.0	NM_011742	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	20.0	27.0	6.5	113.0	33.5	9.0	20.5	6.5
Merged-chr1-189867164-3	chr1	189867054	189867254	+	718.027771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008976, intron 18 of 18)	intron (NM_008976, intron 18 of 18)	55137.0	NM_026796	226830.0	Mm.156895	NM_026796	ENSMUSG00000026603	Smyd2	1110020E07Rik|4930402C15|KMT3C|Zmynd14	SET and MYND domain containing 2	protein-coding	8.0	9.5	8.5	72.5	8.5	0.5	3.0	4.5
Merged-chr6-124683825-4	chr6	124683701	124683901	+	838.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149320, intron 1 of 11)	MIR3|SINE|MIR	20697.0	NM_145130	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	7.0	14.5	11.5	128.0	27.5	13.0	18.0	17.0
Merged-chr10-117836562-4	chr10	117836454	117836654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024457, intron 1 of 7)	B3A|SINE|B2	9420.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	45.5	65.0	33.0	498.5	71.5	29.0	43.0	39.0
Merged-chr16-10436457-4	chr16	10436363	10436563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013778, intron 1 of 6)	intron (NM_001013778, intron 1 of 6)	10899.0	NM_001359069	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	70.5	153.5	83.5	1272.0	153.0	53.5	66.5	42.5
Merged-chr5-150673702-4	chr5	150673607	150673807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346503)	promoter-TSS (NM_001346503)	-120.0	NM_175310	100710.0	Mm.32959	NM_175310	ENSMUSG00000034021	Pds5b	AI646570|AS3|AW212954|Aprin|Tg(Wap-ERBB2)229Wzw|WAP-Her-2|mKIAA0979	PDS5 cohesin associated factor B	protein-coding	330.0	535.5	360.0	5426.5	796.5	327.5	430.0	347.0
Merged-chr2-131423770-3	chr2	131423674	131423874	+	809.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-68088.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	23.0	14.5	5.0	139.5	19.0	9.0	5.0	3.5
Merged-chr5-93117806-3	chr5	93117709	93117909	+	737.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 1 of 9)	intron (NM_001009818, intron 1 of 9)	24393.0	NM_001347377	52398.0	Mm.394184	NM_001009818	ENSMUSG00000058013	Sept11	6230410I01Rik|AW548875|D5Ertd606e	septin 11	protein-coding	7.5	7.0	6.0	98.5	7.0	2.5	7.5	2.0
Merged-chr15-25144414-4	chr15	25144307	25144507	+	663.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	269357.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	6.0	17.5	5.0	96.5	23.0	6.5	8.5	10.5
Merged-chr7-24587006-3	chr7	24586902	24587102	+	884.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023154)	promoter-TSS (NM_023154)	-541.0	NM_023154	66071.0	Mm.29553	NM_023154	ENSMUSG00000064254	Ethe1	0610025L15Rik|Hsco	ethylmalonic encephalopathy 1	protein-coding	5.0	8.0	12.0	196.0	20.0	6.0	8.0	7.0
Merged-chr17-74159703-4	chr17	74159616	74159816	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111800.0	NM_053188	94224.0	Mm.38933	NM_053188	ENSMUSG00000038541	Srd5a2	5ART2|S5AR 2	steroid 5 alpha-reductase 2	protein-coding	9.5	12.0	15.0	260.5	32.5	9.0	34.5	20.0
Merged-chr12-86817761-4	chr12	86817649	86817849	+	981.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67065.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	22.5	27.5	13.0	215.5	59.5	19.5	48.5	25.0
Merged-chr16-44243467-4	chr16	44243363	44243563	+	974.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198034, intron 24 of 24)	intron (NM_198034, intron 24 of 24)	70066.0	NM_001029889	207806.0	Mm.310566	NM_001029889	ENSMUSG00000068284	Usf3	5530400K22Rik|Gm1779|Gm608|mKIAA2018	upstream transcription factor family member 3	protein-coding	30.0	18.0	10.5	306.5	53.0	24.5	21.5	17.0
Merged-chr10-22358187-3	chr10	22358084	22358284	+	696.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-3710.0	NM_020030	56554.0	Mm.458004	NM_020030	ENSMUSG00000078452	Raet1d	RAE-1delta	retinoic acid early transcript delta	protein-coding	11.0	5.5	7.0	75.0	10.5	7.5	3.0	3.5
Merged-chr2-181497107-4	chr2	181496999	181497199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291201)	promoter-TSS (NM_001291201)	-43.0	NM_001291203	66314.0	Mm.136648	NM_025482	ENSMUSG00000000827	Tpd52l2	2810411G23Rik|AU016537|C86069|D54	tumor protein D52-like 2	protein-coding	145.0	207.0	138.5	2415.5	361.0	146.0	200.0	191.5
Merged-chr13-76759345-2	chr13	76759251	76759451	+	652.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_030174, intron 7 of 20)	intron (NM_030174, intron 7 of 20)	374390.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	0.5	1.0	1.5	55.0	19.0	11.5	14.0	5.5
Merged-chr2-166786780-4	chr2	166786694	166786894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-6973.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	25.0	54.0	15.5	344.0	78.5	28.0	34.0	34.0
Merged-chr14-54893998-4	chr14	54893893	54894093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019402)	promoter-TSS (NM_019402)	-150.0	NM_019402	54196.0	Mm.7723	NM_019402	ENSMUSG00000022194	Pabpn1	PAB2|Pabp3|mPABII	poly(A) binding protein, nuclear 1	protein-coding	382.5	487.5	378.5	5001.0	724.5	317.0	382.0	336.0
Merged-chr18-75304666-4	chr18	75304571	75304771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7342.0	NR_045393	100503117.0	Mm.250517	NR_045393	ENSMUSG00000102047	2010010A06Rik	5033420E22Rik	RIKEN cDNA 2010010A06 gene	ncRNA	88.0	87.0	80.5	1646.5	186.5	57.0	93.5	74.5
Merged-chr18-4803458-4	chr18	4803305	4803505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9081.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	90.5	114.0	89.0	1212.0	105.0	45.5	88.0	43.5
Merged-chr2-124613635-4	chr2	124613559	124613759	+	989.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	3363.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	16.0	31.0	64.5	667.5	71.5	20.0	46.5	29.5
Merged-chr5-146288177-4	chr5	146288152	146288352	+	979.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359991, intron 6 of 12)	intron (NM_001359991, intron 6 of 12)	57002.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	13.0	6.5	9.5	305.5	13.0	4.0	10.0	15.5
Merged-chr11-106623825-4	chr11	106623737	106623937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H|LTR|ERVL-MaLR	-10907.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	62.5	104.5	87.0	1401.0	144.5	48.0	85.5	77.5
Merged-chr10-80173106-4	chr10	80173027	80173227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_152857)	TTS (NR_152857)	183.0	NM_027207	69770.0	Mm.302754	NM_027207	ENSMUSG00000035595	1600002K03Rik	-	RIKEN cDNA 1600002K03 gene	protein-coding	78.0	99.0	82.0	687.0	220.5	90.5	71.0	84.5
Merged-chr6-53286543-3	chr6	53286432	53286632	+	867.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001327821)	promoter-TSS (NM_001327821)	-771.0	NM_001327821	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	4.5	12.5	6.5	99.5	3.0	12.0	8.5	6.0
Merged-chr13-56611970-4	chr13	56611875	56612075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 1 of 16)	intron (NR_155548, intron 1 of 16)	2389.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	97.0	199.0	100.0	1665.0	251.0	95.0	97.0	83.0
Merged-chr4-137356927-4	chr4	137356819	137357019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009861, intron 1 of 5)	intron (NM_009861, intron 1 of 5)	840.0	NM_009861	12540.0	Mm.1022	NM_009861	ENSMUSG00000006699	Cdc42	AI747189|AU018915	cell division cycle 42	protein-coding	77.5	227.0	108.0	1523.0	283.0	96.0	96.5	87.5
Merged-chr13-35783784-4	chr13	35783678	35783878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123386, intron 1 of 6)	intron (NM_001123386, intron 1 of 6)	42376.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	54.5	80.5	91.0	1299.0	164.0	50.5	68.0	74.0
Merged-chr17-46889721-6	chr17	46889627	46889827	+	996.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178385)	promoter-TSS (NM_178385)	-894.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	23.0	33.0	18.0	264.5	35.0	21.0	17.5	28.5
Merged-chr1-180255689-2	chr1	180255589	180255789	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001128605, intron 1 of 10)	intron (NM_001128605, intron 1 of 10)	611.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	11.5	5.5	11.0	119.0	18.5	9.5	4.0	7.0
Merged-chr9-72970241-3	chr9	72970157	72970357	+	731.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163725, intron 5 of 6)	intron (NM_001163725, intron 5 of 6)	11472.0	NM_001163725	67685.0	Mm.31817	NM_026314	ENSMUSG00000092192	Dyx1c1	1700010I24Rik|Dnaaf4|EKN1|b2b811.1Clo|b2b811Clo	dyslexia susceptibility 1 candidate 1	protein-coding	3.0	3.0	1.0	38.5	7.0	6.0	10.0	6.5
Merged-chr1-58734225-4	chr1	58734137	58734337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355056, intron 4 of 8)	intron (NM_001355056, intron 4 of 8)	3685.0	NM_001293805	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	47.0	72.5	34.5	563.0	105.5	30.5	40.5	32.0
Merged-chr19-28680044-5	chr19	28679928	28680128	+	984.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305671)	promoter-TSS (NM_001305671)	49.0	NM_001305671	226075.0	Mm.223508	NM_175459	ENSMUSG00000052942	Glis3	4833409N03Rik|E330013K21Rik	GLIS family zinc finger 3	protein-coding	18.5	17.0	25.5	321.0	9.5	9.0	12.5	16.0
Merged-chr19-10833828-4	chr19	10833742	10833942	+	857.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-3784.0	NM_009852	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	7.5	18.5	18.0	206.5	35.5	14.0	17.5	13.5
Merged-chr5-123252050-3	chr5	123251951	123252151	+	922.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23861.0	NM_026000	67151.0	Mm.278997	NM_026000	ENSMUSG00000029440	Psmd9	1500011J20Rik|2610202L11Rik|Bridge-1|P27	proteasome (prosome, macropain) 26S subunit, non-ATPase, 9	protein-coding	27.0	42.5	12.0	124.0	41.5	8.0	10.0	9.0
Merged-chr5-92312469-3	chr5	92312357	92312557	+	946.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2433.0	NM_172713	231452.0	Mm.86564	NM_172713	ENSMUSG00000029415	Sdad1	4931421J16|AA591032|AW538460	SDA1 domain containing 1	protein-coding	14.0	12.0	5.5	65.5	64.5	21.5	29.5	28.0
Merged-chr14-99970389-4	chr14	99970282	99970482	+	931.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010636, intron 4 of 6)	intron (NM_010636, intron 4 of 6)	179414.0	NM_010636	16597.0	Mm.396499	NM_010636	ENSMUSG00000072294	Klf12	2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik	Kruppel-like factor 12	protein-coding	14.5	22.5	16.0	357.5	48.0	6.0	24.5	16.5
Merged-chr2-122375609-4	chr2	122375503	122375703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6685.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	198.5	316.0	149.5	1821.0	529.5	205.5	213.0	233.0
Merged-chr10-13967475-4	chr10	13967390	13967590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	CpG-904	1111.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	64.5	97.5	78.0	912.5	148.5	43.0	60.0	45.5
Merged-chr7-110614383-4	chr7	110614283	110614483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 1 of 40)	CpG	537.0	NM_177324	319934.0	Mm.102970	NM_177324	ENSMUSG00000038371	Sbf2	4833411B01Rik|AA414977|AI317167|B430219L04Rik|Mtmr13|mMTMH1	SET binding factor 2	protein-coding	37.5	55.0	85.5	544.0	105.5	48.0	51.5	46.0
Merged-chr1-157013195-4	chr1	157013127	157013327	+	908.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-73601.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	19.5	20.0	21.0	312.5	28.0	5.5	9.0	8.5
Merged-chr3-58507996-1	chr3	58507896	58508096	+	577.0	f1_balb.idr	Intergenic	Intergenic	-17825.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	6.0	4.5	4.5	77.0	4.0	0.0	0.0	2.5
Merged-chr2-22775143-3	chr2	22775035	22775235	+	849.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	808.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	3.5	7.0	11.0	60.0	16.5	10.0	9.0	5.0
Merged-chr13-52115075-2	chr13	52114975	52115175	+	840.416626	f1_balb.idr|f1_c57bl6.idr	intron (NR_045061, intron 3 of 7)	ORR1E|LTR|ERVL-MaLR	18334.0	NR_045061	74050.0	Mm.84860	NR_045061	ENSMUSG00000113211	4921525O09Rik	-	RIKEN cDNA 4921525O09 gene	ncRNA	4.5	8.5	4.0	61.0	23.5	5.5	7.0	11.0
Merged-chr15-89171870-4	chr15	89171774	89171974	+	874.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138749, intron 1 of 37)	intron (NM_138749, intron 1 of 37)	2077.0	NM_001159521	140570.0	Mm.267514	NM_138749	ENSMUSG00000036606	Plxnb2	Debt|plexin-B2	plexin B2	protein-coding	10.5	11.5	13.5	248.0	34.5	8.5	11.5	9.0
Merged-chr1-192138662-3	chr1	192138568	192138768	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144814)	promoter-TSS (NM_144814)	-628.0	NM_001290282	214742.0	Mm.207457	NM_144814	ENSMUSG00000037395	Rcor3	4921514E24Rik|C730034D20Rik|E130101E15Rik	REST corepressor 3	protein-coding	11.0	14.5	19.5	189.0	15.5	13.0	10.5	19.0
Merged-chr11-106561046-4	chr11	106560958	106561158	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198292, intron 2 of 11)	intron (NM_198292, intron 2 of 11)	51872.0	NM_198292	21763.0	Mm.102407	NM_198292	ENSMUSG00000040548	Tex2	4930568E07Rik|AI553404|Def-5|Taz4	testis expressed gene 2	protein-coding	14.5	25.5	13.5	256.0	38.0	3.5	18.0	9.0
Merged-chr19-60999825-3	chr19	60999746	60999946	+	966.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 2 of 15)	intron (NM_018869, intron 2 of 15)	110097.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	21.0	9.0	14.0	293.5	10.5	8.0	9.5	5.0
Merged-chr2-66143465-4	chr2	66143381	66143581	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18688.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	36.5	39.5	23.0	637.5	57.5	24.5	15.5	18.5
Merged-chr7-58658168-4	chr7	58658077	58658277	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009728)	promoter-TSS (NM_009728)	-25.0	NM_009728	11982.0	Mm.135129	NM_009728	ENSMUSG00000025324	Atp10a	Atp10c|pfatp	ATPase, class V, type 10A	protein-coding	9.5	4.0	6.5	164.0	37.5	9.0	14.0	20.0
Merged-chr16-76363207-4	chr16	76363132	76363332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173440, intron 1 of 3)	intron (NM_173440, intron 1 of 3)	9817.0	NM_173440	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	38.0	86.0	54.0	850.5	86.0	21.0	33.0	23.0
Merged-chr5-105557969-4	chr5	105557848	105558048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133897, intron 2 of 3)	intron (NM_133897, intron 2 of 3)	38477.0	NM_133897	100604.0	Mm.319847	NM_133897	ENSMUSG00000054720	Lrrc8c	AD158|AI326115|E430036I04Rik|fad158	leucine rich repeat containing 8 family, member C	protein-coding	274.5	407.0	142.5	3058.5	712.5	244.5	257.5	233.0
Merged-chr13-74759359-4	chr13	74759271	74759471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301153, intron 3 of 31)	intron (NM_001301153, intron 3 of 31)	11365.0	NM_001301156	12380.0	Mm.29163	NM_009817	ENSMUSG00000021585	Cast	-	calpastatin	protein-coding	25.0	39.0	33.5	687.5	106.5	25.0	41.5	62.0
Merged-chr2-126490815-4	chr2	126490734	126490934	+	931.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 1 of 27)	intron (NM_001359975, intron 1 of 27)	719.0	NM_001080944	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	15.0	33.0	21.0	359.0	31.5	14.0	14.5	22.5
Merged-chr8-47676834-2	chr8	47676734	47676934	+	885.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-1675.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	8.0	9.5	7.0	55.5	13.5	1.0	6.5	5.5
Merged-chr17-23804875-4	chr17	23804651	23804851	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175229, intron 1 of 13)	intron (NM_175229, intron 1 of 13)	1564.0	NM_175229	75956.0	Mm.5222	NM_175229	ENSMUSG00000039218	Srrm2	5033413A03Rik|AA410130|SRm300|mKIAA0324	serine/arginine repetitive matrix 2	protein-coding	2.5	6.5	16.0	81.0	25.5	7.0	5.5	14.5
Merged-chr16-55664098-4	chr16	55663996	55664196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158042.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	65.5	47.0	111.5	1067.5	92.5	19.5	33.5	41.0
Merged-chr12-56345878-4	chr12	56345772	56345972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145442)	promoter-TSS (NM_145442)	22.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	110.5	183.0	101.0	1803.5	357.5	154.5	126.0	113.5
Merged-chr18-68196091-4	chr18	68196003	68196203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172631, intron 3 of 5)	intron (NM_172631, intron 3 of 5)	-31843.0	NM_001357444	52662.0	Mm.440183	NM_172631	ENSMUSG00000024544	Ldlrad4	8230401C20Rik|A430083H02|A430108L08Rik|C18orf1|D18Ertd653e|D330030L18Rik	low density lipoprotein receptor class A domain containing 4	protein-coding	73.5	51.5	87.0	1308.0	109.5	36.0	45.0	64.5
Merged-chr6-54948356-1	chr6	54948256	54948456	+	570.0	f0_c57.idr	intron (NM_001171007, intron 2 of 11)	intron (NM_001171007, intron 2 of 11)	23305.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	5.0	16.0	5.5	102.0	9.0	6.5	8.0	20.0
Merged-chr9-107770481-1	chr9	107770381	107770581	+	777.0	f0_balb.idr	non-coding (NR_153190, exon 1 of 24)	non-coding (NR_153190, exon 1 of 24)	521.0	NM_148930	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	5.0	14.5	3.0	115.0	11.5	5.0	7.0	14.5
Merged-chr17-31039822-4	chr17	31039716	31039916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17878.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	125.0	176.5	93.5	1487.5	302.0	89.0	94.5	94.5
Merged-chr17-81703455-4	chr17	81703337	81703537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 1 of 8)	intron (NR_104580, intron 1 of 8)	34950.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	53.0	45.0	91.5	1184.5	132.0	39.5	54.0	56.0
Merged-chr4-142063130-4	chr4	142063022	142063222	+	919.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145402, intron 1 of 2)	intron (NM_145402, intron 1 of 2)	-21176.0	NR_027137	100038693.0	Mm.402714	NR_027137	ENSMUSG00000073728	Tmem51os1	Gm10565|Tmem51as1	Tmem51 opposite strand 1	ncRNA	12.0	35.0	36.5	752.5	76.5	4.0	22.0	27.5
Merged-chr6-87535216-7	chr6	87535113	87535313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1954.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	62.5	79.0	77.0	662.5	87.0	42.5	46.0	58.0
Merged-chr3-148221638-3	chr3	148221527	148221727	+	926.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	733008.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	10.5	10.5	9.0	95.5	8.0	3.0	6.0	6.0
Merged-chr13-93995607-3	chr13	93995524	93995724	+	753.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62172.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	13.0	5.5	21.5	145.5	16.5	4.5	3.0	8.0
Merged-chr10-112991345-2	chr10	112991245	112991445	+	796.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62319.0	NM_001033474	382423.0	Mm.431239	NM_001033474	ENSMUSG00000074748	Atxn7l3b	4921506J03Rik|6230409E21Rik|AI315132	ataxin 7-like 3B	protein-coding	10.0	7.0	9.5	159.5	13.5	3.0	10.0	15.0
Merged-chr5-140392854-4	chr5	140392704	140392904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3496.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	58.0	96.5	79.5	1063.5	188.5	52.0	76.0	67.0
Merged-chr18-4325791-4	chr18	4325689	4325889	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27164.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	7.0	39.0	26.5	109.5	55.5	9.0	28.0	10.5
Merged-chr2-124741113-3	chr2	124741008	124741208	+	961.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87527.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	14.0	14.5	17.5	384.5	19.5	7.5	13.0	8.0
Merged-chr15-84351462-4	chr15	84351340	84351540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25321.0	NM_001162500	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	23.0	19.5	44.5	876.5	71.0	32.5	28.0	40.0
Merged-chr12-41350031-4	chr12	41349939	41350139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	intron (NM_053122, intron 4 of 6)	136018.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	87.5	109.0	93.0	1514.5	219.0	77.5	102.0	80.0
Merged-chr19-26506994-4	chr19	26506906	26507106	+	894.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-98154.0	NM_011416	67155.0	Mm.491146	NM_011416	ENSMUSG00000024921	Smarca2	2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	protein-coding	10.5	7.5	9.5	211.0	55.0	9.5	20.5	17.5
Merged-chr17-36865755-3	chr17	36865663	36865863	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177872, intron 2 of 6)	MTD|LTR|ERVL-MaLR	1424.0	NM_001024134	69097.0	Mm.307027	NM_001024134	ENSMUSG00000050747	Trim15	1810012B10Rik	tripartite motif-containing 15	protein-coding	6.0	5.5	8.5	210.5	5.0	1.0	1.5	8.5
Merged-chr11-11788813-4	chr11	11788679	11788879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20183.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	39.5	77.0	105.5	645.5	97.5	51.0	50.0	51.5
Merged-chr9-119894839-4	chr9	119894766	119894966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026236)	promoter-TSS (NM_026236)	-29.0	NM_026236	67561.0	Mm.104789	NM_026236	ENSMUSG00000032512	Wdr48	8430408H12Rik|Uaf1|mKIAA1449	WD repeat domain 48	protein-coding	70.5	147.0	59.5	1377.5	305.0	89.5	128.5	102.0
Merged-chr9-53248200-4	chr9	53248109	53248309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029936)	promoter-TSS (NM_029936)	-97.0	NM_029936	77591.0	Mm.133560	NM_029936	ENSMUSG00000053289	Ddx10	4632415A01Rik|AI646054	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	protein-coding	202.5	342.5	228.5	3048.5	621.5	211.5	206.0	225.5
Merged-chr11-3671375-4	chr11	3671279	3671479	+	926.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198162, intron 5 of 25)	intron (NM_198162, intron 5 of 25)	12679.0	NM_198162	74522.0	Mm.139127	NM_198162	ENSMUSG00000034543	Morc2a	8430403M08Rik|Zcwcc1	microrchidia 2A	protein-coding	13.0	16.5	22.5	321.5	37.0	16.5	27.5	15.0
Merged-chr17-45581549-5	chr17	45581505	45581705	+	834.676208	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8344.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	12.5	14.5	5.5	86.5	28.5	6.0	8.0	15.0
Merged-chr4-12490633-3	chr4	12490529	12490729	+	823.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-318614.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	11.0	19.5	12.0	236.5	10.5	6.0	1.0	6.5
Merged-chr5-108694171-4	chr5	108694082	108694282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164259)	promoter-TSS (NM_001164259)	-47.0	NM_001164259	116701.0	Mm.35691	NM_054071	ENSMUSG00000008090	Fgfrl1	FGFR5|FGFR5beta|FGFR5gamma	fibroblast growth factor receptor-like 1	protein-coding	173.0	165.0	116.5	2507.5	345.5	120.5	160.5	152.0
Merged-chr11-75268744-4	chr11	75268627	75268827	+	974.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177708)	TTS (NM_177708)	74734.0	NM_177708	237847.0	Mm.82661	NM_177708	ENSMUSG00000045287	Rtn4rl1	Ngr3|Ngrh2|Ngrl2	reticulon 4 receptor-like 1	protein-coding	13.5	41.0	11.0	455.0	40.0	12.0	19.5	21.0
Merged-chr9-31857796-3	chr9	31857679	31857879	+	699.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013800, intron 2 of 3)	intron (NM_013800, intron 2 of 3)	55506.0	NM_013800	12023.0	Mm.261044	NM_013800	ENSMUSG00000032033	Barx2	2310006E12Rik|Barx2b	BarH-like homeobox 2	protein-coding	10.5	12.5	11.0	178.0	3.5	1.5	0.5	1.0
Merged-chr11-106973203-4	chr11	106973103	106973303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26322.0	NM_010655	16647.0	Mm.12508	NM_010655	ENSMUSG00000018362	Kpna2	2410044B12Rik|IPOA1|PTAC58|Rch1	karyopherin (importin) alpha 2	protein-coding	45.5	51.5	20.5	259.0	125.5	55.5	51.5	47.5
Merged-chr4-150117509-3	chr4	150117415	150117615	+	921.744446	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1829.0	NM_019741	56485.0	Mm.260220	NM_019741	ENSMUSG00000028976	Slc2a5	AI526984|Glut5|Slc5a	solute carrier family 2 (facilitated glucose transporter), member 5	protein-coding	0.0	1.0	0.5	24.5	102.0	14.0	37.0	47.5
Merged-chr13-47044444-4	chr13	47044337	47044537	+	804.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172262, intron 1 of 20)	intron (NM_172262, intron 1 of 20)	938.0	NM_172262	218214.0	Mm.31259	NM_172262	ENSMUSG00000038080	Kdm1b	4632428N09Rik|AI482520|Aof1	lysine (K)-specific demethylase 1B	protein-coding	3.0	18.5	5.5	39.5	21.0	12.0	12.5	18.5
Merged-chr6-13609471-4	chr6	13609357	13609557	+	829.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1359.0	NM_028990	101118.0	Mm.254845	NM_028990	ENSMUSG00000029569	Tmem168	5730526F17Rik|8430437G11Rik|AI462344|AI504145	transmembrane protein 168	protein-coding	6.5	8.0	4.0	141.5	27.5	11.0	8.5	13.5
Merged-chr3-40798714-4	chr3	40798610	40798810	+	887.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-1241.0	NM_173169	20873.0	Mm.3794	NM_011495	ENSMUSG00000025758	Plk4	1700028H20|AI385771|Sak|Stk18	polo like kinase 4	protein-coding	13.0	17.0	3.0	148.0	32.0	19.0	21.0	6.5
Merged-chr5-24827351-4	chr5	24827256	24827456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053075, intron 1 of 7)	intron (NM_053075, intron 1 of 7)	15005.0	NM_053075	19744.0	Mm.319175	NM_053075	ENSMUSG00000028945	Rheb	Rheb1	Ras homolog enriched in brain	protein-coding	51.0	53.0	35.5	601.5	125.0	50.0	50.5	61.0
Merged-chr13-58622822-3	chr13	58622716	58622916	+	960.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11939.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	4.5	15.0	5.5	54.0	49.0	14.0	16.5	4.0
Merged-chr6-56798437-2	chr6	56798337	56798537	+	788.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145958)	promoter-TSS (NM_145958)	-624.0	NM_001362213	210973.0	Mm.57295	NM_145958	ENSMUSG00000059486	Kbtbd2	BC022962|Bklhd1|mKIAA1489	kelch repeat and BTB (POZ) domain containing 2	protein-coding	5.0	11.5	4.5	87.0	11.5	4.5	3.5	7.0
Merged-chr12-32786180-4	chr12	32786054	32786254	+	862.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E1A|LTR|ERVL-MaLR	-34181.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	6.0	11.0	6.5	63.5	82.5	12.5	20.0	13.0
Merged-chr8-123855264-4	chr8	123855155	123855355	+	956.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028536, intron 2 of 3)	HAL1|LINE|L1	4954.0	NM_028536	73420.0	Mm.157746	NM_028536	ENSMUSG00000031971	Ccsap	1700054N08Rik|AI853424	centriole, cilia and spindle associated protein	protein-coding	27.0	47.0	20.5	421.5	54.5	10.5	19.0	27.0
Merged-chr2-38536542-4	chr2	38536444	38536644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159631, intron 1 of 9)	intron (NM_001159631, intron 1 of 9)	24668.0	NM_001159631	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	40.5	78.0	47.5	719.5	106.5	40.5	48.5	43.0
Merged-chr11-101551992-4	chr11	101551909	101552109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252223)	promoter-TSS (NM_001252223)	-54.0	NM_009764	12189.0	Mm.244975	NM_009764	ENSMUSG00000017146	Brca1	-	breast cancer 1, early onset	protein-coding	70.5	152.0	57.0	1037.5	288.5	87.5	74.0	108.5
Merged-chr6-99028915-4	chr6	99028796	99028996	+	878.6375119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001197322)	promoter-TSS (NM_001197322)	-598.0	NM_001197322	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	10.5	17.0	9.0	156.0	22.5	7.5	10.0	12.0
Merged-chr13-51853698-6	chr13	51853683	51853883	+	955.255554	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7108.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	6.5	15.0	3.5	80.5	19.5	11.5	5.5	20.0
Merged-chr11-101785360-4	chr11	101785253	101785453	+	966.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316366)	promoter-TSS (NM_001316366)	-43.0	NM_001316365	18612.0	Mm.5025	NM_008815	ENSMUSG00000017724	Etv4	AW414408|Pea-3|Pea3	ets variant 4	protein-coding	17.0	20.5	15.0	243.0	48.0	14.0	19.0	13.0
Merged-chr4-6513105-4	chr4	6512983	6513183	+	872.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58812.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	11.5	11.5	7.5	245.5	15.0	7.5	16.0	23.0
Merged-chr15-101078923-4	chr15	101078873	101079073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-24574.0	NM_001214911	668225.0	Mm.385011	NM_001214911	ENSMUSG00000095440	Fignl2	EG668225	fidgetin-like 2	protein-coding	63.5	76.0	51.0	1044.0	115.0	38.5	49.0	56.5
Merged-chr11-75510123-5	chr11	75510083	75510283	+	814.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029938)	promoter-TSS (NM_001029938)	89.0	NM_001029938	280408.0	Mm.41416	NM_001029938	ENSMUSG00000038195	Rilp	AI835553|Gm857	Rab interacting lysosomal protein	protein-coding	8.0	14.0	6.0	84.5	14.5	12.0	11.0	10.0
Merged-chr10-99169982-4	chr10	99169886	99170086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	61851.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	142.5	144.0	107.0	1886.0	185.0	78.0	111.5	69.5
Merged-chr5-140641012-4	chr5	140640856	140641056	+	884.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308040, intron 1 of 12)	intron (NM_001308040, intron 1 of 12)	8075.0	NM_001308040	78339.0	Mm.28947	NM_175274	ENSMUSG00000036565	Ttyh3	2900029G13Rik|AI414930|TTY3|mTTY3	tweety family member 3	protein-coding	11.5	8.0	6.0	222.5	31.0	9.0	7.0	9.5
Merged-chr13-100730993-4	chr13	100730884	100731084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009874)	promoter-TSS (NM_009874)	-42.0	NM_009874	12572.0	Mm.259718	NM_009874	ENSMUSG00000069089	Cdk7	AI323415|AI528512|C230069N13|Cdkn7|Crk4	cyclin-dependent kinase 7	protein-coding	109.5	138.5	67.5	1779.0	366.5	118.5	122.5	129.5
Merged-chr2-43738676-4	chr2	43738575	43738775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10149.0	NM_001301832	76117.0	Mm.217350	NM_153820	ENSMUSG00000049744	Arhgap15	5830480G12Rik	Rho GTPase activating protein 15	protein-coding	58.5	90.0	93.5	1512.5	180.5	60.0	66.0	92.0
Merged-chr1-184534244-4	chr1	184534129	184534329	+	897.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040472, intron 2 of 5)	intron (NR_040472, intron 2 of 5)	23462.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	14.0	27.0	7.0	198.0	63.5	11.5	11.5	22.0
Merged-chr17-34455886-4	chr17	34455783	34455983	+	844.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163855, intron 22 of 23)	intron (NM_001163855, intron 22 of 23)	20054.0	NM_030746	632126.0	Mm.484958	NM_030746	ENSMUSG00000058435	Btnl4	Btn3a3|EG632126|NG11	butyrophilin-like 4	protein-coding	7.0	14.0	11.0	78.0	40.0	7.0	13.0	14.0
Merged-chr19-37778110-3	chr19	37778017	37778217	+	874.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80309.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	6.0	15.0	20.0	208.5	4.5	2.5	3.5	3.5
Merged-chr12-3823833-4	chr12	3823719	3823919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271753, intron 1 of 22)	intron (NM_001271753, intron 1 of 22)	16659.0	NM_001271753	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	29.5	44.0	19.5	427.5	69.0	28.5	34.5	42.5
Merged-chr5-77357874-4	chr5	77357787	77357987	+	862.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008048, intron 1 of 4)	intron (NM_008048, intron 1 of 4)	47403.0	NM_153798	231329.0	Mm.273217	NM_153798	ENSMUSG00000029250	Polr2b	Pol2rb|Rpb140|Rpb2	polymerase (RNA) II (DNA directed) polypeptide B	protein-coding	10.5	15.0	23.0	163.5	17.0	8.0	16.5	12.0
Merged-chr1-193130243-4	chr1	193130150	193130350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151719)	promoter-TSS (NR_151719)	1.0	NM_145415	215193.0	Mm.173758	NM_145415	ENSMUSG00000016181	Diexf	AA408296|AW045375|Def	digestive organ expansion factor homolog (zebrafish)	protein-coding	93.5	131.0	109.5	1214.0	218.5	92.5	107.0	123.5
Merged-chr12-100168151-2	chr12	100168051	100168251	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8498.0	NM_183155	217827.0	Mm.224076	NM_183155	ENSMUSG00000021179	Nrde2	6720454P05Rik	nrde-2 necessary for RNA interference, domain containing	protein-coding	5.5	30.5	8.0	130.0	30.0	5.0	4.5	7.5
Merged-chr15-90654434-2	chr15	90654338	90654538	+	670.083374	f0_balb.idr|f1_balb.idr	intron (NM_001033851, intron 1 of 3)	intron (NM_001033851, intron 1 of 3)	24950.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	7.5	14.0	16.5	142.5	5.0	0.0	1.0	2.5
Merged-chr3-54735031-4	chr3	54734937	54735137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025442)	promoter-TSS (NM_025442)	327.0	NM_027148	69639.0	Mm.29253	NM_027148	ENSMUSG00000027752	Exosc8	2310032N20Rik|CIP3|mKIAA4013	exosome component 8	protein-coding	151.5	183.0	102.0	1852.0	298.5	123.0	161.5	150.0
Merged-chr13-69526470-5	chr13	69526322	69526522	+	957.23999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198600, intron 1 of 12)	intron (NM_198600, intron 1 of 12)	7442.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	12.0	29.0	11.0	265.0	16.5	18.0	10.5	19.0
Merged-chr2-90477762-2	chr2	90477662	90477862	+	688.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	1412.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	5.0	4.5	5.0	16.0	7.0	5.0	3.5	9.0
Merged-chr1-181545585-3	chr1	181545488	181545688	+	906.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34137.0	NM_207280	403180.0	Mm.220754	NM_207280	ENSMUSG00000050625	Ccdc121	6530421E24Rik|Gm755	coiled-coil domain containing 121	protein-coding	9.0	10.5	3.5	113.5	15.5	5.0	8.0	6.0
Merged-chr15-93358513-3	chr15	93358434	93358634	+	863.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21599.0	NM_024189	67057.0	Mm.4714	NM_024189	ENSMUSG00000022634	Yaf2	2810021M11Rik	YY1 associated factor 2	protein-coding	7.5	13.0	7.5	46.5	12.5	8.0	10.0	13.0
Merged-chr7-120901847-4	chr7	120901746	120901946	+	920.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267710, intron 17 of 17)	ORR1E|LTR|ERVL-MaLR	-15898.0	NM_025298	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	12.5	12.5	26.0	381.0	47.0	12.0	39.0	19.5
Merged-chr12-102395786-4	chr12	102395669	102395869	+	897.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011175, exon 12 of 14)	exon (NM_011175, exon 12 of 14)	44044.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	9.5	16.5	36.5	401.0	31.5	8.0	4.5	27.5
Merged-chr17-35910142-4	chr17	35910049	35910249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142745)	promoter-TSS (NM_001142745)	-74.0	NM_001357865	73242.0	Mm.273155	NM_028476	ENSMUSG00000024426	Atat1	0610011P08Rik|2610008K08Rik|2610110G12Rik|3110080J08Rik|Mec17|TAT	alpha tubulin acetyltransferase 1	protein-coding	168.5	310.5	145.5	1865.0	457.0	153.5	156.0	159.0
Merged-chr1-74713850-7	chr1	74713766	74713966	+	844.6904910000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_024264, exon 1 of 9)	exon (NM_024264, exon 1 of 9)	331.0	NM_024264	104086.0	Mm.85083	NM_024264	ENSMUSG00000026170	Cyp27a1	1300013A03Rik|Cyp27	cytochrome P450, family 27, subfamily a, polypeptide 1	protein-coding	7.0	6.0	4.5	153.0	8.0	7.0	9.0	10.5
Merged-chr6-57803315-4	chr6	57803209	57803409	+	962.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	Lx8|LINE|L1	21816.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	25.5	33.5	26.0	563.0	28.5	14.5	33.5	31.0
Merged-chr6-124415128-4	chr6	124415050	124415250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277330)	promoter-TSS (NM_001277330)	-83.0	NM_175933	19305.0	Mm.22418	NM_008995	ENSMUSG00000005069	Pex5	AW212715|ESTM1|PTS1-BP|PTS1R|PXR1P|Pxr1|X83306	peroxisomal biogenesis factor 5	protein-coding	92.5	163.0	78.5	1474.0	335.5	97.5	142.0	162.5
Merged-chr7-112252358-1	chr7	112252258	112252458	+	776.666687	f0_balb.idr	intron (NM_001193305, intron 2 of 25)	intron (NM_001193305, intron 2 of 25)	26522.0	NM_001193305	320878.0	Mm.52312	NM_177282	ENSMUSG00000038244	Mical2	5330438E18Rik|9530064J02|MICAL-2|mKIAA0750	microtubule associated monooxygenase, calponin and LIM domain containing 2	protein-coding	7.0	13.5	10.5	148.5	1.0	1.5	0.0	1.0
Merged-chr2-31483167-4	chr2	31483062	31483262	+	901.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_002687, intron 5 of 15)	intron (NR_002687, intron 5 of 15)	12854.0	NR_002687	432466.0	Mm.333323	NR_002687	ENSMUSG00000046687	Gm5424	EG432466	argininosuccinate synthase pseudogene	pseudo	11.0	15.0	3.5	169.5	38.0	8.0	15.0	10.5
Merged-chr13-44926477-4	chr13	44926352	44926552	+	749.858337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025772, intron 8 of 9)	Lx7|LINE|L1	75644.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	10.0	15.0	9.0	122.5	25.0	9.0	6.0	10.0
Merged-chr4-6225462-4	chr4	6225360	6225560	+	851.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34355.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	3.5	16.0	6.5	138.5	67.0	11.5	16.0	19.0
Merged-chr12-11217891-3	chr12	11217766	11217966	+	640.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8918.0	NM_019544	56184.0	Mm.117113	NM_019544	ENSMUSG00000047002	Msgn1	Msgn|pMsgn1	mesogenin 1	protein-coding	14.0	8.5	10.0	171.5	7.0	0.0	2.0	3.0
Merged-chr18-60526332-7	chr18	60526239	60526439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357462, exon 1 of 14)	exon (NM_001357462, exon 1 of 14)	185.0	NM_001357462	67665.0	Mm.272801	NM_026302	ENSMUSG00000024603	Dctn4	1110001K06Rik|4930547K17Rik|C130039E17Rik|p62	dynactin 4	protein-coding	74.0	113.5	83.0	1030.5	174.5	79.5	77.0	89.5
Merged-chr19-41982972-4	chr19	41982864	41983064	+	971.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	MIR3|SINE|MIR	1201.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	32.5	43.5	31.5	237.5	51.0	16.5	14.5	20.5
Merged-chr2-71598771-7	chr2	71598610	71598810	+	868.9442140000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	intron (NR_039557, intron 2 of 3).2	-51956.0	NM_010054	13392.0	Mm.3896	NM_010054	ENSMUSG00000023391	Dlx2	AW121999|Dlx-2|Tes-1	distal-less homeobox 2	protein-coding	6.5	5.0	1.0	44.0	21.5	8.0	9.0	12.5
Merged-chr5-96854652-2	chr5	96854540	96854740	+	990.416626	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	61255.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	27.5	50.0	28.5	525.5	4.5	0.5	4.5	1.0
Merged-chr10-96751725-4	chr10	96751610	96751810	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	134709.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	37.5	39.0	32.5	654.5	60.0	17.0	50.5	37.0
Merged-chr1-65178337-4	chr1	65178233	65178433	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111320, intron 1 of 8)	intron (NM_001111320, intron 1 of 8)	809.0	NM_010497	15926.0	Mm.9925	NM_010497	ENSMUSG00000025950	Idh1	AI314845|AI788952|E030024J03Rik|Id-1|Idh-1|Idpc	isocitrate dehydrogenase 1 (NADP+), soluble	protein-coding	207.0	344.5	355.5	4192.0	585.5	203.5	276.5	214.5
Merged-chr11-103269610-4	chr11	103269524	103269724	+	837.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2223.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	14.0	25.5	5.5	91.0	39.0	10.5	7.5	6.5
Merged-chr4-132618025-4	chr4	132617922	132618122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21024.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	119.5	192.0	66.5	1437.5	229.5	95.0	89.0	101.5
Merged-chr2-79253935-2	chr2	79253835	79254035	+	846.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1491.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	9.0	16.0	8.0	68.0	19.5	4.5	6.0	5.5
Merged-chr2-103578995-4	chr2	103578898	103579098	+	928.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	L2b|LINE|L2	12688.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	16.5	13.0	13.5	249.0	26.5	10.0	39.5	29.5
Merged-chr3-30862088-4	chr3	30861982	30862182	+	872.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286994, intron 1 of 3)	intron (NM_001286994, intron 1 of 3)	6132.0	NM_001286994	71862.0	Mm.272019	NM_027965	ENSMUSG00000037661	Gpr160	1700025D19Rik|GPCR150	G protein-coupled receptor 160	protein-coding	14.5	14.5	12.0	334.0	32.5	19.0	11.5	13.5
Merged-chr5-43869390-4	chr5	43869251	43869451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	542.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	74.0	164.5	141.0	1081.0	306.5	134.5	173.5	93.0
Merged-chr4-121017266-4	chr4	121017162	121017362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133716)	promoter-TSS (NM_133716)	-15.0	NM_133716	69780.0	Mm.271819	NM_133716	ENSMUSG00000032870	Smap2	1810031K02Rik|AA408614|Smap1l	small ArfGAP 2	protein-coding	68.5	88.5	66.0	592.0	168.0	83.5	101.5	65.0
Merged-chr10-96686289-4	chr10	96686199	96686399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69298.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	148.5	181.5	132.5	1806.0	295.0	84.5	156.0	134.5
Merged-chr4-88701771-3	chr4	88701680	88701880	+	972.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10512.0	NM_008336	15974.0	Mm.377093	NM_008336	ENSMUSG00000100079	Ifnab	-	interferon alpha B	protein-coding	25.5	12.5	20.5	395.5	22.5	6.0	4.5	10.0
Merged-chr11-8607343-4	chr11	8607242	8607442	+	912.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 2 of 30)	intron (NM_001083587, intron 2 of 30)	57193.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	13.5	16.0	10.5	130.0	34.0	23.5	23.5	15.5
Merged-chr11-5945325-4	chr11	5945207	5945407	+	737.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010292, intron 1 of 9)	intron (NM_010292, intron 1 of 9)	4774.0	NM_010292	103988.0	Mm.220358	NM_010292	ENSMUSG00000041798	Gck	GLK|Gk|Gls006|HK4|HKIV|HXKP|Hlb62|MODY2	glucokinase	protein-coding	3.0	12.5	8.5	127.0	13.5	7.0	21.0	13.5
Merged-chr10-90983225-3	chr10	90983123	90983323	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	99520.0	NM_001042558	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	0.0	0.0	1.0	23.5	60.0	10.5	50.5	42.5
Merged-chr5-64161037-4	chr5	64160997	64161197	+	917.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019636, intron 1 of 19)	intron (NM_019636, intron 1 of 19)	837.0	NM_001310611	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	10.5	3.0	9.5	63.0	22.5	8.5	8.0	6.5
Merged-chr13-77708686-4	chr13	77708587	77708787	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163419)	promoter-TSS (NM_001163419)	-3.0	NM_001163420	68675.0	Mm.343005	NM_138312	ENSMUSG00000064138	Fam172a	1110033M05Rik|2610318O14Rik|53-E6|9430037D06Rik|AF064782|pEN87	family with sequence similarity 172, member A	protein-coding	94.5	109.0	75.5	1195.0	260.0	72.5	110.5	103.5
Merged-chr9-55253648-4	chr9	55253566	55253766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	intron (NM_032002, intron 3 of 7)	29959.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	50.5	98.5	40.5	797.0	64.5	19.5	30.5	31.5
Merged-chr2-119758438-2	chr2	119758338	119758538	+	778.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008523)	promoter-TSS (NM_008523)	87.0	NM_206941	17005.0	Mm.1740	NM_008523	ENSMUSG00000027297	Ltk	-	leukocyte tyrosine kinase	protein-coding	1.5	8.0	2.0	43.5	13.0	10.5	8.0	8.5
Merged-chr11-115476125-2	chr11	115476025	115476225	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001361594, exon 2 of 3)	exon (NM_001361594, exon 2 of 3)	458.0	NM_001361594	276905.0	Mm.38019	NM_177778	ENSMUSG00000057219	Armc7	A630084C13|BC023126	armadillo repeat containing 7	protein-coding	3.5	3.5	4.5	24.0	7.0	4.5	11.0	8.5
Merged-chr3-96293510-3	chr3	96293387	96293587	+	948.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010186, intron 2 of 5)	intron (NM_010186, intron 2 of 5)	482.0	NM_010186	14129.0	Mm.150	NM_010186	ENSMUSG00000015947	Fcgr1	AI323638|AV092959|CD64|FcgammaRI|IGGHAFC	Fc receptor, IgG, high affinity I	protein-coding	11.5	8.0	11.0	166.0	15.5	4.5	12.0	12.0
Merged-chr2-27266093-4	chr2	27266038	27266238	+	992.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 29 of 29)	L1MEg|LINE|L1	-18835.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	13.0	12.0	10.0	104.5	37.0	22.0	22.5	15.5
Merged-chr17-86685420-4	chr17	86685239	86685439	+	740.141663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68525.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	7.5	8.0	5.0	68.5	20.0	12.0	9.5	6.0
Merged-chr2-73004342-5	chr2	73004160	73004360	+	883.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-23814.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	10.0	8.0	6.0	120.5	16.5	8.0	15.5	9.5
Merged-chr6-121179226-4	chr6	121179141	121179341	+	751.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4426.0	NR_130903	74043.0	Mm.491240	NM_028730	ENSMUSG00000067825	Pex26	4632428M11Rik	peroxisomal biogenesis factor 26	protein-coding	11.5	9.0	12.5	79.5	15.5	8.0	5.5	8.5
Merged-chr10-127578243-4	chr10	127578172	127578372	+	968.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 21 of 88)	intron (NM_008512, intron 21 of 88)	42876.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	15.0	9.5	24.0	303.5	29.0	15.0	13.5	33.0
Merged-chr2-167293012-4	chr2	167292907	167293107	+	943.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-52470.0	NM_008968	19223.0	Mm.2339	NM_008968	ENSMUSG00000017969	Ptgis	Cyp8|Cyp8a1|Pgis	prostaglandin I2 (prostacyclin) synthase	protein-coding	22.0	29.0	20.0	476.0	38.0	7.5	17.5	19.0
Merged-chr19-60889748-4	chr19	60889661	60889861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018869)	promoter-TSS (NM_018869)	12.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	61.0	65.5	38.0	645.5	54.0	11.0	24.5	38.0
Merged-chr8-61449033-3	chr8	61448948	61449148	+	939.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-38686.0	NM_145595	234309.0	Mm.29059	NM_145595	ENSMUSG00000031641	Cbr4	A730083J17Rik|BC009118	carbonyl reductase 4	protein-coding	12.0	10.0	9.0	130.5	10.0	8.5	5.0	8.0
Merged-chr4-58563704-4	chr4	58563605	58563805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-10214.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	89.0	90.0	86.0	1708.5	140.0	42.5	70.0	65.0
Merged-chr5-117287659-4	chr5	117287596	117287796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018858)	promoter-TSS (NM_018858)	-132.0	NM_018858	23980.0	Mm.195898	NM_018858	ENSMUSG00000032959	Pebp1	HCNP|Pbp|Pbp1|Pbpr|Rkip	phosphatidylethanolamine binding protein 1	protein-coding	134.0	169.5	107.5	1509.5	315.5	97.0	139.0	131.5
Merged-chr8-107478143-4	chr8	107478030	107478230	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025830, intron 4 of 23)	intron (NM_025830, intron 4 of 23)	41732.0	NM_025830	66894.0	Mm.390058	NM_025830	ENSMUSG00000031930	Wwp2	1300010O06Rik|AA690238|AIP2|AW554328	WW domain containing E3 ubiquitin protein ligase 2	protein-coding	25.5	25.5	12.5	488.0	54.5	15.5	18.0	24.0
Merged-chr1-105866899-4	chr1	105866806	105867006	+	987.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86183.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	50.5	111.5	60.5	496.5	92.5	48.5	45.0	15.5
Merged-chr10-85502410-4	chr10	85502309	85502509	+	904.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028709, intron 1 of 16)	intron (NM_028709, intron 1 of 16)	-96002.0	NM_001017525	74007.0	Mm.36544	NM_028709	ENSMUSG00000020042	Btbd11	6330404E16Rik	BTB (POZ) domain containing 11	protein-coding	13.5	18.0	10.5	90.5	122.0	45.0	41.5	15.5
Merged-chr3-89807349-4	chr3	89807234	89807434	+	933.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-24036.0	NM_172530	214547.0	Mm.225	NM_172530	ENSMUSG00000046280	She	9430022A14	src homology 2 domain-containing transforming protein E	protein-coding	11.5	11.0	10.5	217.5	15.0	4.5	22.5	18.5
Merged-chr2-112449348-4	chr2	112449255	112449455	+	856.091675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5670.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	38.0	27.0	14.5	264.5	20.5	10.5	16.0	15.5
Merged-chr7-16229966-4	chr7	16229899	16230099	+	888.36908	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7967.0	NM_027883	71723.0	Mm.75259	NM_027883	ENSMUSG00000006019	Dhx34	1200013B07Rik|1810012L18Rik|Ddx34|mKIAA0134	DEAH (Asp-Glu-Ala-His) box polypeptide 34	protein-coding	8.5	7.5	6.5	89.5	7.5	4.5	3.5	4.5
Merged-chr14-55039123-4	chr14	55039029	55039229	+	770.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073535, intron 1 of 1)	intron (NR_073535, intron 1 of 1)	667.0	NR_073535	100151693.0	Mm.378403	NR_073535	ENSMUSG00000072492	Gm10364	EG545052	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	9.0	9.0	8.0	131.0	36.5	6.5	8.5	16.5
Merged-chr5-90747351-4	chr5	90747259	90747459	+	884.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11939.0	NM_009141	20311.0	Mm.4660	NM_009141	ENSMUSG00000029371	Cxcl5	AMCF-II|Cxcl6|ENA-78|GCP-2|LIX|Scyb5|Scyb6	chemokine (C-X-C motif) ligand 5	protein-coding	12.5	16.0	18.0	346.0	31.0	15.5	22.0	27.5
Merged-chr9-58401917-4	chr9	58401849	58402049	+	926.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	31445.0	NR_040727	73529.0	Mm.490924	NR_040727	ENSMUSG00000100487	1700072B07Rik	-	RIKEN cDNA 1700072B07 gene	ncRNA	6.0	20.0	8.5	96.0	44.0	8.5	15.5	19.0
Merged-chr14-45220500-7	chr14	45220349	45220549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027518, intron 1 of 6)	CpG	732.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	19.5	24.5	15.0	143.5	29.0	13.0	25.5	29.0
Merged-chr9-66918808-4	chr9	66918698	66918898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173413, intron 1 of 7)	intron (NM_173413, intron 1 of 7)	907.0	NM_173413	235442.0	Mm.260376	NM_173413	ENSMUSG00000036943	Rab8b	5930437D16|D330025I23Rik	RAB8B, member RAS oncogene family	protein-coding	29.5	60.0	28.0	313.0	101.5	31.5	22.5	16.0
Merged-chr11-68899264-4	chr11	68899160	68899360	+	993.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2306.0	NM_009080	19941.0	Mm.3229	NM_009080	ENSMUSG00000060938	Rpl26	SIG-20	ribosomal protein L26	protein-coding	15.5	22.0	16.0	410.0	39.0	15.5	20.0	21.5
Merged-chr7-19562358-4	chr7	19562189	19562389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_199149, exon 1 of 13)	5' UTR (NM_199149, exon 1 of 13)	109.0	NM_199149	232947.0	Mm.219662	NM_199149	ENSMUSG00000051403	Ppp1r37	Gm158|Lrrc68	protein phosphatase 1, regulatory subunit 37	protein-coding	25.0	35.5	43.0	354.0	45.5	34.5	27.0	27.5
Merged-chr1-151344429-4	chr1	151344310	151344510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359262)	promoter-TSS (NM_001359262)	-76.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	139.5	185.5	97.5	1970.5	379.5	137.0	142.0	150.0
Merged-chr15-12206774-4	chr15	12206738	12206938	+	862.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 1 of 15)	intron (NM_001356498, intron 1 of 15)	1810.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	5.5	11.0	12.0	134.5	22.0	6.5	8.0	8.5
Merged-chr17-71002599-4	chr17	71002489	71002689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026064)	promoter-TSS (NM_026064)	-56.0	NM_026064	67268.0	Mm.489605	NM_026064	ENSMUSG00000024048	Myl12a	2900073G15Rik|AI838292|C80200	myosin, light chain 12A, regulatory, non-sarcomeric	protein-coding	234.0	347.5	185.5	2570.0	474.5	232.0	284.0	265.5
Merged-chr1-170365890-4	chr1	170365834	170366034	+	835.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 4 of 9)	MTD|LTR|ERVL-MaLR	57073.0	NM_001039593	76925.0	Mm.33631	NM_001039593	ENSMUSG00000042800	Spata46	1700015E13Rik	spermatogenesis associated 46	protein-coding	4.5	5.0	14.5	67.0	18.5	4.0	7.0	13.5
Merged-chr5-80955530-3	chr5	80955430	80955630	+	798.700012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65041.0	NM_001347367	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	10.0	7.5	6.0	65.0	36.0	19.5	22.0	15.0
Merged-chr11-55078021-1	chr11	55077921	55078121	+	758.0	f0_balb.idr	exon (NM_177471, exon 1 of 7)	exon (NM_177471, exon 1 of 7)	110.0	NM_177471	52570.0	Mm.22361	NM_177471	ENSMUSG00000049588	Ccdc69	2210021E03Rik|D11Ertd461e	coiled-coil domain containing 69	protein-coding	11.0	6.5	18.5	101.5	14.5	3.5	7.5	8.5
Merged-chr8-57512461-3	chr8	57512366	57512566	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008252, intron 1 of 4)	CpG	623.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	15.5	11.0	13.0	243.0	68.0	26.5	16.0	15.5
Merged-chr9-78481766-4	chr9	78481713	78481913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010106)	promoter-TSS (NM_010106)	-89.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	199.5	306.5	195.0	2790.0	644.5	249.0	304.5	221.5
Merged-chr8-120742721-4	chr8	120742610	120742810	+	978.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301811, intron 2 of 8)	intron (NM_001301811, intron 2 of 8)	4071.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	40.0	32.0	51.0	807.5	46.5	14.5	41.0	54.5
Merged-chr9-65587089-4	chr9	65586986	65587186	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357526)	promoter-TSS (NM_001357526)	-74.0	NR_151702	208084.0	Mm.211032	NM_172453	ENSMUSG00000041064	Pif1	4631410M14|AI449441	PIF1 5'-to-3' DNA helicase	protein-coding	41.5	52.5	30.5	488.5	73.5	30.0	21.5	24.5
Merged-chr5-114766692-4	chr5	114766624	114766824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077359, intron 3 of 18)	intron (NM_001077359, intron 3 of 18)	6767.0	NM_019834	26431.0	Mm.195632	NM_019834	ENSMUSG00000041890	Git2	1500036H07Rik|5830420E16Rik|6430510B20Rik|9630056M03Rik|B230104M05Rik|CAT2|mKIAA0148	G protein-coupled receptor kinase-interactor 2	protein-coding	26.0	37.5	17.5	289.5	31.0	18.5	17.5	18.0
Merged-chr3-88685791-4	chr3	88685704	88685904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028814)	promoter-TSS (NM_028814)	17.0	NR_151827	74200.0	Mm.251800	NM_028814	ENSMUSG00000028060	2810403A07Rik	A430106P18Rik|AI256352|AI451678|Blom7|Khdc4|Kiaa0907	RIKEN cDNA 2810403A07 gene	protein-coding	80.0	146.5	73.0	1227.0	238.0	96.0	115.0	95.5
Merged-chr5-3928339-5	chr5	3928308	3928508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_194462, exon 1 of 48)	5' UTR (NM_194462, exon 1 of 48)	222.0	NM_194462	100986.0	Mm.46044	NM_194462	ENSMUSG00000040407	Akap9	5730481H23Rik|AKAP-9|AKAP450|AW545847|C79026|G1-448-15|PRKA9|mKIAA0803|mei2-5|repro12	A kinase (PRKA) anchor protein (yotiao) 9	protein-coding	20.0	18.5	30.5	438.5	38.5	10.0	10.5	20.5
Merged-chr10-8934070-4	chr10	8933961	8934161	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47991.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	18.0	14.0	7.0	121.0	41.0	26.5	21.0	25.5
Merged-chr3-94621906-1	chr3	94621806	94622006	+	554.5	f0_balb.idr	intron (NM_001293728, intron 8 of 11)	intron (NM_001293728, intron 8 of 11)	36966.0	NM_001293728	22156.0	Mm.10214	NM_011656	ENSMUSG00000005968	Tuft1	-	tuftelin 1	protein-coding	6.0	8.5	7.5	68.5	3.0	2.0	0.0	1.5
Merged-chr5-138173337-2	chr5	138173237	138173437	+	843.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_021392, intron 4 of 14)	RLTR49|LTR|ERVK	1316.0	NM_021392	11781.0	Mm.113205	NM_021392	ENSMUSG00000019518	Ap4m1	4930443L05Rik|Ap4m4	adaptor-related protein complex AP-4, mu 1	protein-coding	2.5	5.0	11.0	45.0	12.5	7.0	5.5	5.5
Merged-chr2-124577658-3	chr2	124577562	124577762	+	869.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-32634.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	8.5	14.5	6.5	99.0	21.5	6.0	5.5	4.5
Merged-chr10-49151711-3	chr10	49151616	49151816	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358866, intron 14 of 16)	ERVB4_3-LTR_MM|LTR|ERVK	636221.0	NM_001358866	14806.0	Mm.185993	NM_010349	ENSMUSG00000056073	Grik2	AW124492|C130030K03Rik|GluK2|Glur-6|Glur6|Glurbeta2	glutamate receptor, ionotropic, kainate 2 (beta 2)	protein-coding	50.0	118.5	81.0	804.5	6.0	0.5	1.5	3.5
Merged-chr16-21701994-3	chr16	21701898	21702098	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-7333.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	17.5	31.0	26.0	271.5	29.5	5.0	7.0	9.0
Merged-chr11-102316825-4	chr11	102316724	102316924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011551, intron 1 of 20)	CpG	463.0	NM_001044383	21429.0	Mm.2845	NM_011551	ENSMUSG00000020923	Ubtf	A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1	upstream binding transcription factor, RNA polymerase I	protein-coding	55.0	54.0	43.5	523.0	140.5	63.0	55.5	52.0
Merged-chr2-45088781-2	chr2	45088681	45088881	+	595.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355291, intron 2 of 9)	intron (NM_001355291, intron 2 of 9)	21496.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	12.5	4.5	9.5	17.0	11.0	10.5	7.0	1.0
Merged-chr16-91880693-4	chr16	91880597	91880797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010587, intron 28 of 38)	intron (NM_010587, intron 28 of 38)	50933.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	64.0	110.0	82.0	1493.5	157.5	43.0	115.5	62.5
Merged-chr11-67047362-4	chr11	67047263	67047463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025510, intron 2 of 4)	intron (NM_025510, intron 2 of 4)	5255.0	NM_025510	66358.0	Mm.22511	NM_025510	ENSMUSG00000020910	Adprm	2310004I24Rik|MDS006	ADP-ribose/CDP-alcohol diphosphatase, manganese dependent	protein-coding	27.5	29.5	23.0	310.0	97.5	22.0	31.0	33.5
Merged-chr6-125039705-4	chr6	125039599	125039799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133345)	promoter-TSS (NM_133345)	-149.0	NM_133345	28019.0	Mm.262547	NM_133345	ENSMUSG00000030330	Ing4	D6Wsu147e|D6Xrf92|p29ING4	inhibitor of growth family, member 4	protein-coding	145.5	228.5	101.5	1536.0	410.5	138.0	131.0	156.0
Merged-chr18-11676802-3	chr18	11676711	11676911	+	841.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045527, intron 3 of 17)	PB1D9|SINE|Alu	19462.0	NM_001081223	225182.0	Mm.154275	NM_175458	ENSMUSG00000041238	Rbbp8	9930104E21Rik|CtIP|RBBP-8|RIM|SAE2	retinoblastoma binding protein 8, endonuclease	protein-coding	5.0	8.5	14.5	100.0	14.5	6.5	3.5	9.5
Merged-chr2-48827565-3	chr2	48827463	48827663	+	714.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007396, intron 1 of 10)	intron (NM_007396, intron 1 of 10)	13454.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	9.0	11.0	6.0	106.5	26.0	7.5	6.5	3.5
Merged-chr4-141182126-4	chr4	141181988	141182188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172518, intron 4 of 9)	ORR1C2|LTR|ERVL-MaLR	-31868.0	NM_001081174	76166.0	Mm.271064	NM_001081174	ENSMUSG00000073733	Rsg1	6330545A04Rik|Gm723|b2b2804Clo|b2b2827Clo	REM2 and RAB-like small GTPase 1	protein-coding	42.0	33.0	36.5	549.5	73.5	26.0	33.5	19.0
Merged-chr12-113042067-4	chr12	113041959	113042159	+	891.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081170, intron 1 of 23)	intron (NM_001081170, intron 1 of 23)	27551.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	15.5	6.5	16.0	145.5	12.5	9.0	19.5	14.5
Merged-chr7-118487171-3	chr7	118487107	118487307	+	905.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033380, exon 1 of 1)	3' UTR (NM_001033380, exon 1 of 1)	4768.0	NM_001033380	319622.0	Mm.323386	NM_001033380	ENSMUSG00000095115	Itpripl2	C130081G24|E030018N11Rik	inositol 1,4,5-triphosphate receptor interacting protein-like 2	protein-coding	13.5	13.5	16.5	181.0	17.0	7.0	2.5	14.0
Merged-chr2-57297706-4	chr2	57297594	57297794	+	907.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010274, intron 3 of 16)	intron (NM_010274, intron 3 of 16)	59312.0	NM_010274	14571.0	Mm.3711	NM_010274	ENSMUSG00000026827	Gpd2	AA408484|AI448216|AU021455|AW494132|GPDH|Gdm1|Gpd-m|Gpdh-m|TISP38	glycerol phosphate dehydrogenase 2, mitochondrial	protein-coding	15.5	59.0	17.0	190.5	74.5	20.0	28.0	15.5
Merged-chr7-27592577-3	chr7	27592535	27592735	+	737.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110208, intron 1 of 13)	intron (NM_001110208, intron 1 of 13)	1083.0	NM_001110208	11652.0	Mm.177194	NM_007434	ENSMUSG00000004056	Akt2	2410016A19Rik|AW554154|PKB|PKBbeta	thymoma viral proto-oncogene 2	protein-coding	5.0	9.0	7.5	77.0	25.5	8.5	5.0	7.0
Merged-chr17-70990117-4	chr17	70990012	70990212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	intron (NM_023402, intron 1 of 3)	404.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	42.0	60.5	44.5	819.0	121.0	44.0	58.5	84.5
Merged-chr14-25470393-4	chr14	25470305	25470505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	intron (NM_183208, intron 1 of 23)	11220.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	64.0	61.5	45.5	791.5	131.0	38.0	59.5	51.5
Merged-chr4-97924059-4	chr4	97923956	97924156	+	986.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010905, intron 2 of 10)	intron (NM_010905, intron 2 of 10)	146430.0	NM_010905	18027.0	Mm.31274	NM_010905	ENSMUSG00000028565	Nfia	1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A	nuclear factor I/A	protein-coding	22.0	16.5	30.5	325.0	79.0	19.5	26.5	21.5
Merged-chr11-32558291-4	chr11	32558170	32558370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	MER5A|DNA|hAT-Charlie	25004.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	46.5	119.5	30.0	390.0	107.0	52.5	35.5	21.0
Merged-chr2-12053894-4	chr2	12053776	12053976	+	918.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-247370.0	NR_040353	338535.0	Mm.483275	NR_040353	ENSMUSG00000086843	E030013I19Rik	-	RIKEN cDNA E030013I19 gene	ncRNA	22.5	13.0	12.0	124.0	28.0	19.0	13.0	10.5
Merged-chr13-62684832-4	chr13	62684741	62684941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60659.0	NM_173381	211378.0	Mm.247448	NM_173381	ENSMUSG00000072066	6720489N17Rik	9330128I06	RIKEN cDNA 6720489N17 gene	protein-coding	45.5	82.0	92.5	296.5	122.5	54.5	68.5	68.0
Merged-chr16-57499595-4	chr16	57499473	57499673	+	794.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-49669.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	12.0	17.5	12.5	74.5	30.5	9.0	14.0	15.0
Merged-chr8-122718497-2	chr8	122718397	122718597	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-19388.0	NM_009824	12398.0	Mm.194339	NM_009824	ENSMUSG00000006362	Cbfa2t3	A630044F12Rik|AI465270|AW229127|Cbfa2t3h|ETO-2|Eto2|MTGR2	core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human)	protein-coding	1.5	5.5	3.0	44.5	19.0	6.5	5.5	5.0
Merged-chr9-103230904-2	chr9	103230810	103231010	+	1000.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_133977)	promoter-TSS (NM_133977)	-624.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	24.5	35.5	23.5	682.5	55.0	12.0	26.0	25.0
Merged-chr2-13278286-3	chr2	13278190	13278390	+	736.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 66 of 66)	intron (NM_001081084, intron 66 of 66)	-6875.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	6.5	6.0	9.0	114.5	15.0	8.5	6.0	5.0
Merged-chr12-4545637-4	chr12	4545547	4545747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	21534.0	NR_136891	102634330.0	Mm.402324	NR_136891	ENSMUSG00000112422	Gm31938	-	predicted gene, 31938	ncRNA	90.0	96.5	70.0	1227.0	168.0	53.5	75.0	60.0
Merged-chr9-40392558-4	chr9	40392421	40392621	+	986.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357617, intron 2 of 20)	intron (NM_001357617, intron 2 of 20)	-16104.0	NM_001357621	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	20.5	18.5	35.5	454.5	28.5	10.5	19.0	34.5
Merged-chr2-166805503-4	chr2	166805396	166805596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085495)	promoter-TSS (NM_001085495)	-85.0	NM_001085495	99371.0	Mm.297192	NM_001085495	ENSMUSG00000074582	Arfgef2	AI463430|AW493672|BIG2|E230011G24Rik	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	protein-coding	104.0	164.0	97.5	1183.5	277.0	124.0	116.5	95.0
Merged-chr2-181392756-3	chr2	181392625	181392825	+	831.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027656, intron 3 of 3)	intron (NM_027656, intron 3 of 3)	8475.0	NR_045164	329584.0	Mm.386906	NR_045164	ENSMUSG00000085028	Slc2a4rg-ps	C430010C01|Gm14462	Slc2a4 regulator, pseudogene	pseudo	10.5	10.0	5.0	64.0	24.0	6.0	9.5	17.5
Merged-chr7-45082910-10	chr7	45082819	45083019	+	986.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026555)	TTS (NM_026555)	9294.0	NM_026555	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	11.0	10.0	9.0	142.0	15.0	4.5	8.5	8.0
Merged-chr5-135134317-3	chr5	135134224	135134424	+	710.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152882, intron 14 of 16)	ZP3AR|Satellite|Satellite	-15387.0	NM_013763	27368.0	Mm.36746	NM_013763	ENSMUSG00000005374	Tbl2	C76179|WS-bTRP	transducin (beta)-like 2	protein-coding	6.0	5.5	9.5	181.0	16.5	5.5	6.0	6.5
Merged-chr5-75874732-3	chr5	75874632	75874832	+	937.4722289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103696.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	17.5	10.0	24.5	261.5	0.5	0.0	0.5	4.0
Merged-chr1-161552234-4	chr1	161552119	161552319	+	739.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57562.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	9.5	12.0	17.0	140.0	23.0	10.5	6.0	7.5
Merged-chr17-34143197-4	chr17	34143100	34143300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2216.0	NM_010388	15000.0	Mm.195060	NM_010388	ENSMUSG00000037548	H2-DMb2	H-2Mb2|H2-Mb2	histocompatibility 2, class II, locus Mb2	protein-coding	152.5	212.0	114.5	1614.0	346.0	124.5	137.5	122.5
Merged-chr11-93886062-1	chr11	93885962	93886162	+	1000.0	f0_c57.idr	promoter-TSS (NM_134012)	promoter-TSS (NM_134012)	-145.0	NM_001346525	103537.0	Mm.210334	NM_134012	ENSMUSG00000059474	Mbtd1	AA408199|AI194990|hemp	mbt domain containing 1	protein-coding	62.0	123.0	62.0	828.0	115.0	66.5	75.0	78.5
Merged-chr7-88271691-4	chr7	88271603	88271803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6382.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	174.0	317.5	185.5	2238.0	304.0	129.5	155.0	82.0
Merged-chr17-33562485-4	chr17	33562393	33562593	+	956.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053214, intron 1 of 27)	intron (NM_053214, intron 1 of 27)	6786.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	27.0	13.0	18.0	349.5	45.0	12.0	28.0	34.0
Merged-chr4-95232635-1	chr4	95232535	95232735	+	844.0	f0_balb.idr	Intergenic	Intergenic	-180413.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	22.5	11.5	7.5	131.0	3.0	3.5	1.5	2.5
Merged-chr5-110058128-4	chr5	110058035	110058235	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41834.0	NM_207279	403178.0	Mm.297057	NM_207279	ENSMUSG00000064247	Plcxd1	A330045H12Rik|Gm576	phosphatidylinositol-specific phospholipase C, X domain containing 1	protein-coding	56.5	87.5	72.0	1171.0	144.5	52.5	94.0	79.5
Merged-chr1-57862155-3	chr1	57862050	57862250	+	839.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164566, intron 2 of 11)	intron (NM_001164566, intron 2 of 11)	16579.0	NM_001164566	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	12.0	16.0	6.0	148.5	15.0	2.5	5.0	1.5
Merged-chr2-60874144-4	chr2	60874077	60874277	+	823.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	MTD|LTR|ERVL-MaLR	7261.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	8.5	9.5	7.5	116.5	11.5	8.0	14.0	5.5
Merged-chr15-64256746-3	chr15	64256647	64256847	+	801.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	55926.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	7.5	8.5	10.0	208.5	16.5	14.5	11.5	9.0
Merged-chr14-118986858-4	chr14	118986741	118986941	+	790.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081252, exon 39 of 39)	3' UTR (NM_001081252, exon 39 of 39)	48909.0	NM_008929	100037258.0	Mm.12616	NM_008929	ENSMUSG00000022136	Dnajc3	AA408985|AU067833|Dnajc3a|Dnajc3b|Prkri|mp58|p58|p58IPK	DnaJ heat shock protein family (Hsp40) member C3	protein-coding	8.0	21.5	6.5	108.5	37.5	9.5	6.0	11.5
Merged-chr5-66094079-4	chr5	66093972	66094172	+	900.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	ORR1B1|LTR|ERVL-MaLR	4107.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	3.0	28.0	5.0	120.0	22.0	12.0	16.5	6.5
Merged-chr4-43419230-6	chr4	43419131	43419331	+	804.486084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 2 of 11)	intron (NM_001037709, intron 2 of 11)	9903.0	NM_177377	329831.0	Mm.454466	NM_177377	ENSMUSG00000042788	Fam166b	4833436C18Rik	family with sequence similarity 166, member B	protein-coding	12.5	7.5	27.5	216.0	21.5	11.0	18.0	15.5
Merged-chr4-46305549-1	chr4	46305449	46305649	+	602.0	f0_balb.idr	Intergenic	Intergenic	-38645.0	NM_183298	110805.0	Mm.354634	NM_183298	ENSMUSG00000070990	Foxe1	Titf2	forkhead box E1	protein-coding	5.0	6.5	10.0	72.5	17.0	3.0	5.0	11.0
Merged-chr1-54898837-4	chr1	54898730	54898930	+	893.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	27557.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	19.0	13.5	11.5	316.5	33.0	10.0	7.0	14.5
Merged-chr10-79704897-1	chr10	79704797	79704997	+	912.0	f0_c57.idr	intron (NM_001077184, intron 1 of 6)	intron (NM_001077184, intron 1 of 6)	539.0	NM_009768	12215.0	Mm.726	NM_009768	ENSMUSG00000023175	Bsg	AI115436|AI325119|CD147|EMMPRIN|HT-7	basigin	protein-coding	7.0	12.0	3.0	167.0	35.5	9.0	16.5	19.0
Merged-chr5-147860597-4	chr5	147860507	147860707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025624)	promoter-TSS (NM_025624)	-21.0	NM_025624	66537.0	Mm.332855	NM_025624	ENSMUSG00000029649	Pomp	2510048O06Rik|Ump1	proteasome maturation protein	protein-coding	43.0	54.0	48.0	838.0	135.5	60.5	70.5	67.5
Merged-chr2-69723055-7	chr2	69722981	69723181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081086)	promoter-TSS (NM_001081086)	-7.0	NM_001081086	228005.0	Mm.11815	NM_001081086	ENSMUSG00000042133	Ppig	AU019516|AU022200|B230312B02Rik|CYP|SRCyp	peptidyl-prolyl isomerase G (cyclophilin G)	protein-coding	54.5	55.0	61.5	511.0	103.5	60.5	55.0	44.5
Merged-chr8-104570638-4	chr8	104570532	104570732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20836.0	NM_001024606	382051.0	Mm.290750	NM_001024606	ENSMUSG00000048371	Pdp2	4833426J09Rik|Gm1705|mKIAA1348	pyruvate dehyrogenase phosphatase catalytic subunit 2	protein-coding	17.5	47.0	18.0	452.5	76.5	19.0	34.0	30.0
Merged-chr4-106770976-4	chr4	106770909	106771109	+	952.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025590, intron 2 of 15)	intron (NM_025590, intron 2 of 15)	28822.0	NM_025590	329910.0	Mm.222956	NM_025590	ENSMUSG00000034853	Acot11	1110020M10Rik|2010309H15Rik|AW060409|BFIT|BFIT1|Thea|Them1|mKIAA0707	acyl-CoA thioesterase 11	protein-coding	13.0	16.5	29.5	336.0	47.5	17.0	11.0	17.5
Merged-chr12-102704803-2	chr12	102704703	102704903	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172584)	promoter-TSS (NM_172584)	66.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	18.0	22.0	24.0	238.5	45.5	10.0	19.5	16.5
Merged-chr9-45197245-4	chr9	45197136	45197336	+	907.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198971, intron 1 of 4)	intron (NM_001198971, intron 1 of 4)	1470.0	NM_001198971	408059.0	Mm.249297	NM_001198971	ENSMUSG00000091996	BC049352	SMIM35	cDNA sequence BC049352	protein-coding	14.5	61.0	30.0	199.5	49.5	8.5	16.5	7.0
Merged-chr13-9029905-2	chr13	9029805	9030005	+	717.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-33893.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	5.5	11.0	8.5	29.0	20.0	7.0	7.0	5.5
Merged-chr1-39530422-4	chr1	39530310	39530510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-5291.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	43.0	56.0	27.0	544.0	75.0	19.5	46.5	34.0
Merged-chr2-167802791-4	chr2	167802670	167802870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111593.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	126.0	106.5	157.0	2478.0	218.5	36.0	158.0	115.5
Merged-chr19-53825040-3	chr19	53824953	53825153	+	720.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170847, intron 5 of 13)	intron (NM_001170847, intron 5 of 13)	-67178.0	NM_011050	18569.0	Mm.1605	NM_011050	ENSMUSG00000024975	Pdcd4	D19Ucla1|Ma3|Tis	programmed cell death 4	protein-coding	3.0	6.5	0.5	49.5	50.5	5.0	25.0	17.0
Merged-chr6-108213060-4	chr6	108212959	108213159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010585)	promoter-TSS (NM_010585)	-37.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	202.5	267.0	185.0	4156.5	578.0	180.0	305.5	264.5
Merged-chr3-126923792-4	chr3	126923717	126923917	+	943.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001327939, exon 46 of 46)	3' UTR (NM_001327939, exon 46 of 46)	19569.0	NM_001034168	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	6.5	8.5	12.0	118.5	35.5	4.5	16.5	8.5
Merged-chr7-45510500-4	chr7	45510425	45510625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163662)	promoter-TSS (NM_001163662)	-117.0	NM_001163662	18220.0	Mm.258923	NM_008749	ENSMUSG00000030824	Nucb1	B230337F23Rik|C77483|Calnuc|MTEST82|Nucb	nucleobindin 1	protein-coding	41.5	69.0	38.5	611.0	133.5	74.5	49.0	88.0
Merged-chr5-138158057-4	chr5	138157965	138158165	+	826.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2321.0	NM_019747	56314.0	Mm.19274	NM_019747	ENSMUSG00000037007	Zfp113	4732456B05Rik|mKIAA4229	zinc finger protein 113	protein-coding	6.5	8.0	19.5	188.5	29.0	6.5	11.0	13.5
Merged-chr10-99169177-6	chr10	99169092	99169292	+	963.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 11 of 12)	intron (NR_153333, intron 11 of 12)	61057.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	13.0	11.5	15.0	318.0	35.5	13.0	16.0	9.0
Merged-chr3-28805877-2	chr3	28805777	28805977	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_154889, intron 1 of 3)	intron (NR_154889, intron 1 of 3)	369.0	NM_026517	68028.0	Mm.21724	NM_026517	ENSMUSG00000039221	Rpl22l1	3110001N18Rik|AU041196	ribosomal protein L22 like 1	protein-coding	36.0	89.5	91.0	613.0	134.5	55.0	62.0	55.0
Merged-chr10-100148296-1	chr10	100148196	100148396	+	614.0	f0_c57.idr	Intergenic	Intergenic	132475.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	6.0	6.0	4.5	80.5	24.5	12.0	7.5	7.5
Merged-chr2-21202063-4	chr2	21201957	21202157	+	889.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027728, intron 1 of 4)	intron (NM_027728, intron 1 of 4)	3308.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	15.5	8.0	5.5	167.5	19.5	10.0	11.5	28.0
Merged-chr8-33797576-3	chr8	33797483	33797683	+	777.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286168, intron 5 of 7)	intron (NM_001286168, intron 5 of 7)	-49813.0	NM_001206849	72632.0	Mm.443483	NM_001206849	ENSMUSG00000094500	Smim18	2700090O03Rik|AI835723	small integral membrane protein 18	protein-coding	1.0	4.0	6.0	67.5	14.0	13.0	7.0	15.0
Merged-chr2-32084716-4	chr2	32084547	32084747	+	918.3988039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175511)	promoter-TSS (NM_175511)	22.0	NR_151493	241303.0	Mm.250441	NM_175511	ENSMUSG00000050592	Fam78a	A130092J06Rik	family with sequence similarity 78, member A	protein-coding	9.5	12.5	9.0	123.0	27.0	7.0	10.5	10.5
Merged-chr10-40348735-4	chr10	40348632	40348832	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168304)	promoter-TSS (NM_001168304)	-576.0	NM_001291817	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	166.0	186.0	153.5	2399.0	432.5	169.0	150.0	157.0
Merged-chr11-70237867-4	chr11	70237781	70237981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177603)	promoter-TSS (NM_001177603)	33.0	NM_001177601	104457.0	Mm.30016	NM_026757	ENSMUSG00000020831	0610010K14Rik	1110020A23Rik|AL033328|AU045833|Bap18	RIKEN cDNA 0610010K14 gene	protein-coding	154.0	309.0	166.5	1913.0	516.0	222.0	184.0	163.0
Merged-chr4-19901288-4	chr4	19901189	19901389	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175406, intron 2 of 7)	intron (NM_175406, intron 2 of 7)	21277.0	NM_175406	242341.0	Mm.19298	NM_175406	ENSMUSG00000028238	Atp6v0d2	1620401A02Rik|AI324824|V-ATPase	ATPase, H+ transporting, lysosomal V0 subunit D2	protein-coding	35.5	30.0	14.0	300.5	59.5	26.5	28.5	29.5
Merged-chr2-18608977-4	chr2	18608872	18609072	+	980.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63490.0	NM_147778	12238.0	Mm.249586	NM_147778	ENSMUSG00000051154	Commd3	AW550818|Bup|D2Ertd542e	COMM domain containing 3	protein-coding	20.0	24.5	16.0	242.0	42.0	10.0	24.5	21.5
Merged-chr9-35027870-4	chr9	35027769	35027969	+	876.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190912, intron 12 of 15)	intron (NM_001190912, intron 12 of 15)	-88859.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	20.5	26.5	18.5	159.0	36.5	10.0	11.0	9.0
Merged-chr2-155236509-4	chr2	155236392	155236592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291108)	promoter-TSS (NM_001291108)	-41.0	NR_111891	67068.0	Mm.23693	NM_025947	ENSMUSG00000047459	Dynlrb1	2010012N15Rik|2010320M17Rik|9430076K19Rik|AV124457|DNLC2A|Dncl2a|km23-1	dynein light chain roadblock-type 1	protein-coding	105.0	168.0	79.0	1244.0	244.0	67.5	98.0	65.5
Merged-chr15-98484693-4	chr15	98484595	98484795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2012.0	NM_010679	16770.0	Mm.5074	NM_010679	ENSMUSG00000022991	Lalba	AW208827|Lyzg	lactalbumin, alpha	protein-coding	79.0	93.0	52.5	1063.0	170.5	62.5	64.5	66.5
Merged-chr14-103719431-4	chr14	103719331	103719531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19999.0	NR_045148	70898.0	Mm.27548	NR_045148	ENSMUSG00000089707	Slain1os	4921525B02Rik	SLAIN motif family, member 1, opposite strand	ncRNA	75.5	58.0	57.5	847.5	90.5	32.5	59.5	71.5
Merged-chr16-65201480-4	chr16	65201374	65201574	+	992.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-95690.0	NM_008310	15557.0	Mm.5040	NM_008310	ENSMUSG00000050783	Htr1f	Htr1eb	5-hydroxytryptamine (serotonin) receptor 1F	protein-coding	53.5	61.0	52.5	672.5	72.5	25.5	32.5	16.0
Merged-chr6-113351812-4	chr6	113351700	113351900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7878.0	NM_133926	52163.0	Mm.277373	NM_133926	ENSMUSG00000030272	Camk1	AI505105|CaMKIalpha|D6Ertd263e	calcium/calmodulin-dependent protein kinase I	protein-coding	44.5	58.5	46.0	943.5	90.5	43.0	50.5	56.0
Merged-chr2-122160870-4	chr2	122160775	122160975	+	907.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_080510, exon 1 of 7)	5' UTR (NM_080510, exon 1 of 7)	175.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	13.5	15.0	8.5	201.5	56.5	20.5	20.0	21.0
Merged-chr10-117376501-4	chr10	117376392	117376592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013391, intron 1 of 9)	CpG	481.0	NM_001013391	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	40.5	59.0	44.5	498.5	144.5	51.0	61.0	65.0
Merged-chr10-98609610-4	chr10	98609519	98609719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-257752.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	34.5	55.0	20.0	283.0	103.5	36.0	27.5	26.0
Merged-chr13-91371052-4	chr13	91370934	91371134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045161, exon 3 of 3)	non-coding (NR_045161, exon 3 of 3)	17051.0	NR_045161	320297.0	Mm.375866	NR_045161	ENSMUSG00000097182	A830009L08Rik	-	RIKEN cDNA A830009L08 gene	ncRNA	72.0	101.0	73.5	1175.0	127.5	55.5	60.5	48.5
Merged-chr13-70933666-3	chr13	70933589	70933789	+	783.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50741.0	NM_029873	77166.0	Mm.159859	NM_029873	ENSMUSG00000021600	8030423J24Rik	-	RIKEN cDNA 8030423J24 gene	protein-coding	9.0	6.5	15.0	174.5	15.0	1.5	5.5	5.5
Merged-chr13-100492587-4	chr13	100492479	100492679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153794)	promoter-TSS (NR_153794)	30.0	NM_001360706	23894.0	Mm.272533	NM_022011	ENSMUSG00000021639	Gtf2h2	44kDa|BTF2 p44|BTF2-p44|Btf2p44|p44	general transcription factor II H, polypeptide 2	protein-coding	22.0	31.0	26.0	237.5	42.5	14.0	19.0	17.5
Merged-chr14-65837382-4	chr14	65837323	65837523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145944, exon 1 of 9)	5' UTR (NM_145944, exon 1 of 9)	121.0	NM_145944	67179.0	Mm.214576	NM_145944	ENSMUSG00000022035	Ccdc25	2610528H13Rik|NSrp70	coiled-coil domain containing 25	protein-coding	38.0	46.0	37.0	439.5	58.5	29.0	38.0	34.5
Merged-chr11-32489536-4	chr11	32489430	32489630	+	966.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361561, intron 1 of 1)	B4A|SINE|B4	34160.0	NM_173784	327900.0	Mm.260956	NM_173784	ENSMUSG00000044949	Ubtd2	4930571L24|9630054F20Rik|AI645720	ubiquitin domain containing 2	protein-coding	29.0	45.0	23.0	296.5	94.0	13.5	20.0	17.0
Merged-chr16-4667386-3	chr16	4667293	4667493	+	898.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030205, intron 6 of 27)	intron (NM_030205, intron 6 of 27)	12327.0	NM_030205	78885.0	Mm.325512	NM_030205	ENSMUSG00000039637	Coro7	0610011B16Rik|AW048373|AW556392	coronin 7	protein-coding	4.5	12.5	4.5	92.0	28.5	7.0	6.0	12.5
Merged-chr16-93613830-3	chr16	93613728	93613928	+	915.305542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5991.0	NM_007620	12408.0	Mm.26940	NM_007620	ENSMUSG00000051483	Cbr1	AW261796|CR|Cbr	carbonyl reductase 1	protein-coding	0.0	0.0	0.0	4.5	42.0	5.0	19.0	21.5
Merged-chr2-30266490-4	chr2	30266393	30266593	+	831.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281829)	promoter-TSS (NM_001281829)	-228.0	NM_001281829	227696.0	Mm.297949	NM_172267	ENSMUSG00000079484	Phyhd1	-	phytanoyl-CoA dioxygenase domain containing 1	protein-coding	3.0	26.0	6.5	140.0	34.0	8.5	13.0	14.5
Merged-chr2-151543043-3	chr2	151542961	151543161	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126058, intron 2 of 3)	CpG-8654	578.0	NM_001302078	14225.0	Mm.278458	NM_008019	ENSMUSG00000032966	Fkbp1a	FKBP12|Fkbp|Fkbp1	FK506 binding protein 1a	protein-coding	6.5	10.5	25.5	95.5	23.0	9.5	6.0	9.0
Merged-chr13-20172416-4	chr13	20172328	20172528	+	844.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	MTA_Mm|LTR|ERVL-MaLR	81921.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	13.0	11.5	13.5	122.0	30.0	9.5	6.0	9.5
Merged-chr2-152294683-3	chr2	152294603	152294803	+	687.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024196, intron 1 of 7)	intron (NM_024196, intron 1 of 7)	831.0	NM_024196	67231.0	Mm.288733	NM_024196	ENSMUSG00000027465	Tbc1d20	1110028I04Rik|2810442O16Rik|AI414693|bs	TBC1 domain family, member 20	protein-coding	5.0	13.5	7.5	73.5	20.5	5.5	9.5	9.0
Merged-chr14-47518842-2	chr14	47518742	47518942	+	720.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_027414, intron 4 of 5)	intron (NR_027414, intron 4 of 5)	46281.0	NM_001146085	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	4.0	4.0	3.0	47.5	10.0	7.5	5.0	6.5
Merged-chr11-115765387-4	chr11	115765295	115765495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028014)	promoter-TSS (NM_028014)	-38.0	NM_028014	71947.0	Mm.23168	NM_028014	ENSMUSG00000020747	Tmem94	2310067B10Rik|Kiaa0195|mKIAA0195	transmembrane protein 94	protein-coding	85.0	110.5	62.0	828.0	201.0	111.5	42.5	86.0
Merged-chr12-85342548-4	chr12	85342434	85342634	+	980.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026775, exon 5 of 5)	3' UTR (NM_026775, exon 5 of 5)	-3172.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	15.5	4.5	11.0	156.0	98.0	25.0	63.5	70.0
Merged-chr6-140819616-4	chr6	140819493	140819693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	192708.0	NM_001309436	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	35.0	39.0	44.0	678.5	99.0	27.0	44.0	35.0
Merged-chr9-65294215-4	chr9	65294109	65294309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011802)	promoter-TSS (NM_011802)	-51.0	NM_011802	270166.0	Mm.30088	NM_011802	ENSMUSG00000015357	Clpx	AU014732|E330029I21	caseinolytic mitochondrial matrix peptidase chaperone subunit	protein-coding	105.0	130.5	63.0	884.5	250.0	131.5	117.0	78.5
Merged-chr9-109074153-4	chr9	109074056	109074256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172774)	promoter-TSS (NM_172774)	-32.0	NM_172774	235610.0	Mm.100622	NM_172774	ENSMUSG00000025646	Atrip	6620401K05Rik	ATR interacting protein	protein-coding	67.0	83.0	38.0	691.0	184.0	56.0	62.5	86.5
Merged-chr2-165856215-4	chr2	165856105	165856305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252587, intron 2 of 11)	intron (NM_001252587, intron 2 of 11)	1968.0	NM_001252585	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	44.0	42.0	28.5	647.0	72.0	32.5	41.0	54.0
Merged-chr1-82796294-4	chr1	82796186	82796386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27830.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	31.5	32.5	28.0	352.5	54.5	22.5	39.0	38.5
Merged-chr8-71291059-4	chr8	71290968	71291168	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001142323, exon 2 of 39)	exon (NM_001142323, exon 2 of 39)	18354.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	45.0	63.0	67.0	1067.0	56.5	15.5	25.0	27.5
Merged-chr6-24956164-6	chr6	24956089	24956289	+	886.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177013)	promoter-TSS (NM_177013)	-64.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	18.0	17.5	24.5	148.0	18.5	11.5	5.0	10.0
Merged-chr8-36612705-5	chr8	36612553	36612753	+	873.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 5 of 17)	intron (NM_001194940, intron 5 of 17)	1290.0	NM_015802	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	6.0	10.5	11.5	182.5	21.0	4.5	9.0	7.5
Merged-chr14-50905465-3	chr14	50905357	50905557	+	772.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12202.0	NM_001166651	546611.0	Mm.390692	NM_001166651	ENSMUSG00000090799	Klhl33	EG546611	kelch-like 33	protein-coding	4.0	4.0	2.0	85.0	20.5	4.5	12.5	12.5
Merged-chr6-45026495-3	chr6	45026370	45026570	+	761.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33591.0	NM_001004357	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	3.5	6.5	3.5	74.5	4.5	6.5	4.5	7.0
Merged-chr15-80711872-4	chr15	80711695	80711895	+	885.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144812, intron 1 of 24)	CpG	482.0	NM_144812	213988.0	Mm.131328	NM_144812	ENSMUSG00000047888	Tnrc6b	2700090M07Rik|A730065C02Rik|AI848765|D230019K20Rik	trinucleotide repeat containing 6b	protein-coding	10.0	7.5	9.5	115.5	35.0	13.5	6.0	12.0
Merged-chr7-29767232-4	chr7	29767178	29767378	+	968.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1274.0	NM_023750	74352.0	Mm.251083	NM_023750	ENSMUSG00000046185	Zfp84	2210410P13Rik|4633401C23Rik|AI415447|BB081605|C86188|KRAB18|Zfp69	zinc finger protein 84	protein-coding	14.0	26.0	9.0	275.0	54.5	16.5	21.0	22.5
Merged-chr3-55829018-4	chr3	55828919	55829119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 38 of 57)	intron (NM_030595, intron 38 of 57)	-18086.0	NR_033592	71182.0	Mm.195603	NR_033592	ENSMUSG00000106572	4933417G07Rik	-	SEC13 homolog pseudogene	pseudo	33.5	69.5	42.0	1037.0	112.5	39.0	72.0	57.5
Merged-chr9-101078743-2	chr9	101078643	101078843	+	668.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001100451, intron 1 of 1)	intron (NM_001100451, intron 1 of 1)	3981.0	NM_001100451	77853.0	Mm.326206	NM_001100451	ENSMUSG00000066415	Msl2	E130103E02Rik|Msl2l1|Rnf184	MSL complex subunit 2	protein-coding	3.0	9.0	1.5	41.5	11.0	5.0	7.0	6.5
Merged-chr14-63436493-4	chr14	63436383	63436583	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177628)	promoter-TSS (NM_177628)	89.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	43.0	62.0	33.5	470.5	84.5	38.0	19.5	23.5
Merged-chr13-5592639-4	chr13	5592526	5592726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	265466.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	75.5	68.5	78.0	1438.0	86.0	42.0	56.5	40.0
Merged-chr13-56422503-4	chr13	56422412	56422612	+	788.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15843.0	NM_177809	328258.0	Mm.482177	NM_177809	ENSMUSG00000021509	Slc25a48	AU042651|E230025K15	solute carrier family 25, member 48	protein-coding	11.0	26.0	9.0	91.5	15.5	7.0	11.0	12.0
Merged-chr19-5803227-1	chr19	5803127	5803327	+	1000.0	f0_balb.idr	promoter-TSS (NR_002847)	promoter-TSS (NR_002847)	-555.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	38.5	52.0	58.0	381.5	104.5	38.0	32.0	57.5
Merged-chr12-16580240-3	chr12	16580180	16580380	+	791.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355598, intron 2 of 20)	intron (NM_001355598, intron 2 of 20)	9490.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	17.5	14.0	13.0	173.0	18.0	0.0	3.5	2.0
Merged-chr14-63103228-4	chr14	63103129	63103329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19233.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	134.5	174.0	150.0	2371.5	290.0	108.5	125.0	148.0
Merged-chr6-39462992-4	chr6	39462890	39463090	+	959.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172477, exon 19 of 19)	3' UTR (NM_172477, exon 19 of 19)	42612.0	NR_152168	621427.0	Mm.389742	NR_152168	ENSMUSG00000068601	Gm10244	Anmkrn1	predicted gene 10244	ncRNA	12.5	18.0	16.5	118.0	32.0	14.0	9.5	7.0
Merged-chr12-111599712-3	chr12	111599628	111599828	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021516, intron 2 of 16)	intron (NM_021516, intron 2 of 16)	25218.0	NM_022801	17169.0	Mm.260504	NM_021516	ENSMUSG00000007411	Mark3	1600015G02Rik|A430080F22Rik|C-TAK1|ETK-1|ETK1|Emk2|MPK10	MAP/microtubule affinity regulating kinase 3	protein-coding	7.5	16.5	1.0	16.5	56.0	11.5	7.5	11.5
Merged-chr9-59291522-4	chr9	59291422	59291622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028121)	promoter-TSS (NM_028121)	-50.0	NM_001359282	72141.0	Mm.22456	NM_028121	ENSMUSG00000025236	Adpgk	2610017G09Rik|Adp-gk|C77577	ADP-dependent glucokinase	protein-coding	198.0	288.0	136.0	2001.0	456.5	199.5	175.0	156.5
Merged-chr11-117799412-4	chr11	117799314	117799514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029964, intron 2 of 5)	intron (NM_029964, intron 2 of 5)	1754.0	NM_029964	77727.0	Mm.159981	NM_029964	ENSMUSG00000025573	6030468B19Rik	Il-40	RIKEN cDNA 6030468B19 gene	protein-coding	76.0	133.0	59.0	482.5	166.0	84.5	61.0	69.0
Merged-chr10-118052382-7	chr10	118052273	118052473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-89414.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	54.0	81.5	104.5	1030.0	128.0	58.0	76.5	70.5
Merged-chr1-131975768-4	chr1	131975650	131975850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145977, intron 1 of 4)	intron (NM_145977, intron 1 of 4)	5141.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	125.5	95.0	158.5	2125.5	214.5	44.0	118.5	101.5
Merged-chr4-55776649-2	chr4	55776549	55776749	+	784.666687	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-244174.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	2.5	1.0	4.0	72.5	13.0	4.5	8.5	10.0
Merged-chr16-4878313-10	chr16	4878258	4878458	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145359, intron 1 of 2)	intron (NM_145359, intron 1 of 2)	1493.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	18.0	23.5	15.5	248.0	51.5	16.5	36.0	32.5
Merged-chr13-70038454-3	chr13	70038330	70038530	+	864.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131156, intron 2 of 2)	intron (NR_131156, intron 2 of 2)	-10082.0	NR_045965	74280.0	Mm.273343	NR_045965	ENSMUSG00000099639	1700084F23Rik	1700003E18Rik|4930589D02Rik	RIKEN cDNA 1700084F23 gene	ncRNA	1.0	0.0	0.0	6.5	23.0	8.5	15.5	11.5
Merged-chr9-55296511-4	chr9	55296404	55296604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-12879.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	83.0	185.5	78.5	771.5	164.0	91.5	61.0	62.0
Merged-chr2-160211875-4	chr2	160211794	160211994	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	115600.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	17.5	28.5	27.5	665.5	38.0	8.0	31.0	28.5
Merged-chr1-171111310-5	chr1	171111241	171111441	+	977.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10320.0	NM_001081275	75472.0	Mm.32760	NM_029301	ENSMUSG00000026649	Cfap126	1700009P17Rik|AV282292|Flattop|Fltp	cilia and flagella associated protein 126	protein-coding	15.0	30.5	29.5	214.5	57.0	34.0	19.0	23.5
Merged-chr5-100585238-4	chr5	100585147	100585347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1G|LTR|ERVL-MaLR	-13042.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	43.0	34.5	26.0	552.0	58.0	19.0	25.0	39.0
Merged-chr12-99154381-3	chr12	99154288	99154488	+	935.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8420.0	NR_038130	67639.0	Mm.87374	NR_038130	ENSMUSG00000113210	4930474N09Rik	-	RIKEN cDNA 4930474N09 gene	ncRNA	9.5	11.5	14.0	173.0	15.0	5.0	14.0	5.5
Merged-chr5-24684825-5	chr5	24684725	24684925	+	937.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016736)	promoter-TSS (NM_016736)	-990.0	NM_016736	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	11.5	14.0	11.0	115.0	23.5	10.0	3.0	6.0
Merged-chr5-130255004-2	chr5	130254904	130255104	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178897)	promoter-TSS (NM_178897)	526.0	NM_023248	66711.0	Mm.280484	NM_023248	ENSMUSG00000025337	Sbds	4733401P19Rik|AI836084|CGI-97|SDS	SBDS ribosome maturation factor	protein-coding	4.0	14.0	10.0	90.5	21.5	10.0	10.5	25.5
Merged-chr15-76899862-4	chr15	76899768	76899968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025536)	promoter-TSS (NM_025536)	-73.0	NM_025536	66398.0	Mm.291716	NM_025536	ENSMUSG00000055041	Commd5	2310065H03Rik|AI854466|D15Ertd81e|Hcarg	COMM domain containing 5	protein-coding	41.0	52.0	29.5	383.0	105.0	28.0	45.0	32.0
Merged-chr15-8451240-4	chr15	8451142	8451342	+	987.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6779.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	22.5	38.5	12.0	264.0	68.0	26.5	24.0	20.0
Merged-chr11-75571409-4	chr11	75571324	75571524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 12 of 13)	intron (NM_001199284, intron 12 of 13)	-16655.0	NM_008850	18738.0	Mm.3128	NM_008850	ENSMUSG00000017781	Pitpna	Pitpn|vb|vibrator	phosphatidylinositol transfer protein, alpha	protein-coding	172.0	187.5	143.5	2058.0	325.0	141.0	166.5	139.0
Merged-chr4-126260164-4	chr4	126260067	126260267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2238.0	NM_013718	27096.0	Mm.8392	NM_013718	ENSMUSG00000028847	Trappc3	1110058K12Rik|AI835942|AU019197|Bet3	trafficking protein particle complex 3	protein-coding	133.0	234.0	124.5	1782.0	266.5	103.0	177.5	127.5
Merged-chr3-26932596-4	chr3	26932485	26932685	+	971.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029150, intron 10 of 10)	intron (NM_029150, intron 10 of 10)	221269.0	NM_007900	13605.0	Mm.261453	NM_007900	ENSMUSG00000027699	Ect2	AI528536	ect2 oncogene	protein-coding	13.0	5.0	13.5	168.5	28.5	5.5	20.0	18.5
Merged-chr2-11630175-3	chr2	11630081	11630281	+	811.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12611.0	NM_008367	16184.0	Mm.915	NM_008367	ENSMUSG00000026770	Il2ra	CD25|Il2r|Ly-43	interleukin 2 receptor, alpha chain	protein-coding	6.5	6.0	5.0	140.5	30.5	5.0	15.5	18.5
Merged-chr11-85774904-4	chr11	85774821	85775021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046194, intron 1 of 2)	intron (NR_046194, intron 1 of 2)	759.0	NR_046194	78420.0	Mm.488197	NR_046194	ENSMUSG00000085514	Bcas3os2	9530048J24Rik	breast carcinoma amplified sequence 3 opposite strand 2	ncRNA	51.5	90.0	28.0	811.5	119.0	34.5	36.5	31.0
Merged-chr12-32209122-3	chr12	32209030	32209230	+	869.0	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	promoter-TSS (NM_001146201)	promoter-TSS (NM_001146201)	-481.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	16.0	26.5	11.0	212.5	28.5	15.0	7.5	14.0
Merged-chr18-23868527-4	chr18	23868393	23868593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 5 of 7)	intron (NM_001162941, intron 5 of 7)	64523.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	45.5	54.5	39.0	637.0	95.5	38.0	34.5	37.0
Merged-chr4-136202602-2	chr4	136202502	136202702	+	934.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3763.0	NM_001008232	230837.0	Mm.77788	NM_001008232	ENSMUSG00000036995	Asap3	9430088F20Rik|Ddefl1|Gm140|UPLC1	ArfGAP with SH3 domain, ankyrin repeat and PH domain 3	protein-coding	9.0	4.5	4.5	46.5	10.0	2.5	4.0	4.0
Merged-chr18-44714622-3	chr18	44714532	44714732	+	877.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 3 of 18)	intron (NM_001085373, intron 3 of 18)	-52366.0	NM_001085374	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	17.5	23.0	14.5	195.0	4.5	0.0	1.5	4.0
Merged-chr5-101938743-4	chr5	101938651	101938851	+	887.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 13 of 66)	intron (NM_172882, intron 13 of 66)	131170.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	14.5	15.5	9.0	184.0	22.5	10.0	23.0	10.0
Merged-chr15-78449307-4	chr15	78449160	78449360	+	884.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355601, intron 10 of 17)	intron (NM_001355601, intron 10 of 17)	19374.0	NM_001355601	71753.0	Mm.34056	NM_027902	ENSMUSG00000016942	Tmprss6	1300008A22Rik	transmembrane serine protease 6	protein-coding	8.5	16.5	12.0	127.0	34.0	3.5	8.0	8.5
Merged-chr11-23307243-2	chr11	23307143	23307343	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001190401, intron 1 of 79)	CpG-1781	348.0	NM_001190401	17847.0	Mm.119155	NM_001190401	ENSMUSG00000056342	Usp34	A530081C03Rik|Murr2	ubiquitin specific peptidase 34	protein-coding	19.0	12.5	9.5	68.5	29.5	16.0	9.5	18.0
Merged-chr3-89299559-3	chr3	89299465	89299665	+	777.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEc|LINE|L1	-18614.0	NM_001162425	13636.0	Mm.15675	NM_010107	ENSMUSG00000027954	Efna1	AI325262|B61|Efl1|Epl1|Eplg1|Lerk1	ephrin A1	protein-coding	6.5	12.0	7.5	68.0	19.5	5.0	3.5	7.5
Merged-chr4-19709161-4	chr4	19709046	19709246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276292)	promoter-TSS (NM_001276292)	-142.0	NR_074090	107568.0	Mm.78312	NM_177327	ENSMUSG00000041058	Wwp1	8030445B08Rik|AIP5|SDRP1|Tiul1	WW domain containing E3 ubiquitin protein ligase 1	protein-coding	247.0	367.5	277.0	3976.0	594.0	253.0	348.5	262.5
Merged-chr1-55026863-1	chr1	55026763	55026963	+	1000.0	f1_c57bl6.idr	intron (NM_031179, intron 1 of 24)	intron (NM_031179, intron 1 of 24)	615.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	9.0	30.0	13.5	126.0	38.5	24.0	13.5	16.0
Merged-chr4-133338770-1	chr4	133338670	133338870	+	746.5	f0_balb.idr	intron (NM_199306, intron 1 of 15)	intron (NM_199306, intron 1 of 15)	545.0	NM_199306	230796.0	Mm.226576	NM_199306	ENSMUSG00000037622	Wdtc1	Gm695|adipose|adp	WD and tetratricopeptide repeats 1	protein-coding	10.5	9.0	7.5	91.5	12.0	4.5	8.0	7.0
Merged-chr9-86479274-4	chr9	86479155	86479355	+	894.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 1 of 38)	intron (NM_177208, intron 1 of 38)	12101.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	10.0	19.0	6.0	186.5	27.0	10.0	19.5	12.0
Merged-chr5-5494476-4	chr5	5494379	5494579	+	781.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15336.0	NM_001200025	381716.0	Mm.276086	NM_001200025	ENSMUSG00000079666	1700015F17Rik	Gm1686	RIKEN cDNA 1700015F17 gene	protein-coding	11.5	16.0	11.0	243.0	33.5	11.0	7.5	26.5
Merged-chr5-139470612-4	chr5	139470517	139470717	+	934.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001159908)	TTS (NM_001159908)	-10083.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	20.0	14.5	22.0	232.0	46.0	16.5	13.0	14.0
Merged-chr11-119238302-7	chr11	119238188	119238388	+	930.6785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175430, intron 6 of 18)	(TTTG)n|Simple_repeat|Simple_repeat	9716.0	NM_175430	207607.0	Mm.189885	NM_175430	ENSMUSG00000039963	Ccdc40	B930008I02Rik	coiled-coil domain containing 40	protein-coding	11.0	8.5	7.0	127.5	10.0	8.0	5.0	13.5
Merged-chr10-77033895-4	chr10	77033792	77033992	+	866.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031196, intron 1 of 5)	intron (NM_031196, intron 1 of 5)	680.0	NM_031196	20509.0	Mm.265060	NM_031196	ENSMUSG00000001436	Slc19a1	AI323572|RFC|RFC-1|RFC1	solute carrier family 19 (folate transporter), member 1	protein-coding	10.0	23.0	5.5	143.5	22.0	12.0	5.5	6.5
Merged-chr16-33832846-4	chr16	33832784	33832984	+	861.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 1 of 14)	intron (NM_001145884, intron 1 of 14)	3219.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	11.0	12.5	11.0	92.5	12.5	9.5	10.0	7.5
Merged-chr11-20301563-2	chr11	20301463	20301663	+	983.1666869999999	f1_balb.idr|f1_c57bl6.idr	TTS (NM_018861)	TTS (NM_018861)	31150.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	2.0	6.5	2.5	72.0	12.5	5.5	7.0	6.0
Merged-chr8-119839793-4	chr8	119839709	119839909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	770.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	24.0	89.0	38.0	792.5	225.5	70.0	102.0	76.0
Merged-chr17-83219502-3	chr17	83219397	83219597	+	778.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134117, intron 1 of 6)	intron (NM_134117, intron 1 of 6)	4214.0	NM_134117	106522.0	Mm.311974	NM_134117	ENSMUSG00000024247	Pkdcc	AI115348|AW548124|Adtk1|ESTM17|MAd1|Sgk493|Vlk|X83346	protein kinase domain containing, cytoplasmic	protein-coding	5.5	7.5	8.0	123.5	10.5	0.0	1.5	11.0
Merged-chr1-97662491-4	chr1	97662379	97662579	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133825)	promoter-TSS (NM_133825)	-461.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	21.5	39.5	3.0	244.5	43.5	16.0	25.0	15.0
Merged-chr4-74305912-4	chr4	74305799	74305999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 4 of 20)	URR1B|DNA|hAT-Charlie	54020.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	41.5	54.0	45.5	587.5	60.0	26.0	33.0	32.0
Merged-chr9-77825485-3	chr9	77825382	77825582	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70947.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	6.5	3.5	1.5	83.5	73.0	38.5	30.0	28.5
Merged-chr17-23874116-3	chr17	23874018	23874218	+	655.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6046.0	NM_020487	57256.0	Mm.386785	NM_020487	ENSMUSG00000024116	Prss21	1700023E12Rik|TESP5|mT4|testisin	protease, serine 21	protein-coding	4.0	10.0	3.0	30.5	29.0	8.5	9.0	10.5
Merged-chr3-27213166-4	chr3	27213056	27213256	+	941.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	30152.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	12.0	6.5	22.0	233.5	24.5	8.5	20.0	24.0
Merged-chr12-40447363-3	chr12	40447279	40447479	+	937.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	1326.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	9.0	13.0	3.0	96.5	35.0	9.0	11.0	12.5
Merged-chr9-37094312-3	chr9	37094226	37094426	+	923.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	intron (NM_001029838, intron 1 of 12)	52996.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	23.5	23.5	22.5	298.5	4.0	2.0	0.0	1.0
Merged-chr11-22860526-4	chr11	22860430	22860630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001169114)	promoter-TSS (NM_001169114)	-194.0	NM_001169114	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	27.0	37.5	23.5	259.5	42.5	25.0	13.0	14.5
Merged-chr3-146560617-1	chr3	146560517	146560717	+	750.333313	f0_balb.idr	Intergenic	Intergenic	-36532.0	NM_009474	22262.0	Mm.10865	NM_009474	ENSMUSG00000028186	Uox	AI663847	urate oxidase	protein-coding	7.0	8.5	7.0	163.0	0.0	0.5	0.0	0.0
Merged-chr13-81024743-4	chr13	81024645	81024845	+	957.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015587, intron 1 of 1)	IAPEY3-int|LTR|ERVK	60671.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	11.0	34.0	7.0	29.0	47.5	14.0	15.5	10.0
Merged-chr11-117317158-4	chr11	117317045	117317245	+	899.770874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-14570.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	15.0	28.0	10.0	247.0	50.0	9.5	7.0	20.0
Merged-chr3-69560145-4	chr3	69560061	69560261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38799.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	179.0	181.5	173.0	3018.5	315.5	111.0	161.0	112.0
Merged-chr14-55604115-4	chr14	55604009	55604209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159418)	promoter-TSS (NM_001159418)	124.0	NM_001159417	16391.0	Mm.2032	NM_008394	ENSMUSG00000002325	Irf9	Irf-9|Isgf3g|p48	interferon regulatory factor 9	protein-coding	100.5	118.5	60.5	952.5	171.0	82.5	76.5	83.0
Merged-chr13-117602404-4	chr13	117602318	117602518	+	848.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010408)	promoter-TSS (NM_010408)	98.0	NM_010408	15165.0	Mm.343429	NM_010408	ENSMUSG00000021730	Hcn1	Bcng1|C630013B14Rik|HAC2	hyperpolarization-activated, cyclic nucleotide-gated K+ 1	protein-coding	7.5	11.0	9.0	298.5	23.0	7.5	31.0	13.5
Merged-chr1-39835017-4	chr1	39834937	39835137	+	823.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12293.0	NR_040465	73426.0	Mm.396239	NR_040465	ENSMUSG00000101634	1700066B17Rik	-	RIKEN cDNA 1700066B17 gene	ncRNA	8.5	13.5	13.5	100.5	28.5	2.0	5.5	9.5
Merged-chr4-53117820-4	chr4	53117715	53117915	+	932.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	42080.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	14.0	17.0	7.0	225.0	35.0	11.0	26.0	20.0
Merged-chr15-100081327-4	chr15	100081223	100081423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037311, intron 3 of 3)	intron (NR_037311, intron 3 of 3)	42659.0	NM_001159361	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	50.5	42.0	41.5	814.0	105.0	31.0	34.0	31.0
Merged-chr4-47474477-6	chr4	47474369	47474569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019998)	promoter-TSS (NM_019998)	-102.0	NM_019998	56737.0	Mm.22218	NM_019998	ENSMUSG00000039740	Alg2	1110018A23Rik|1300013N08Rik|ALPG2|CDGIi|MNCb-5081	asparagine-linked glycosylation 2 (alpha-1,3-mannosyltransferase)	protein-coding	39.5	80.0	67.0	544.0	128.0	63.5	44.0	53.5
Merged-chr15-89359805-4	chr15	89359700	89359900	+	831.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001115132, intron 1 of 19)	intron (NM_001115132, intron 1 of 19)	4081.0	NM_001271601	52683.0	Mm.143167	NM_001115132	ENSMUSG00000008690	Ncaph2	-	non-SMC condensin II complex, subunit H2	protein-coding	6.0	15.0	7.5	85.0	31.0	14.0	8.5	8.5
Merged-chr18-77944887-4	chr18	77944788	77944988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 1 of 43)	L1MC4a|LINE|L1	6421.0	NM_001195633	100502841.0	Mm.297782	NM_001195633	ENSMUSG00000039840	Epg5	4732475F16|5430411K18Rik|AI661957|AW456499|mKIAA1632	ectopic P-granules autophagy protein 5 homolog (C. elegans)	protein-coding	32.5	39.5	28.5	330.5	87.5	36.0	55.5	28.5
Merged-chr5-21412259-4	chr5	21412170	21412370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 1 of 18)	intron (NM_029195, intron 1 of 18)	12407.0	NM_029195	75172.0	Mm.426695	NM_029195	ENSMUSG00000064280	Ccdc146	4930528G09Rik|mKIAA1505	coiled-coil domain containing 146	protein-coding	90.0	86.5	81.0	1475.5	222.5	71.0	93.0	67.5
Merged-chr2-73485603-4	chr2	73485510	73485710	+	993.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	143.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	23.5	29.0	28.5	554.0	60.0	16.5	20.5	18.0
Merged-chr4-46591073-3	chr4	46591001	46591201	+	726.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 1 of 11)	intron (NM_001164804, intron 1 of 11)	10828.0	NM_001164804	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	7.0	7.0	7.5	61.5	5.5	2.0	4.0	5.0
Merged-chr6-47455523-4	chr6	47455391	47455591	+	974.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355550, intron 1 of 21)	intron (NM_001355550, intron 1 of 21)	734.0	NM_001355550	26965.0	Mm.87611	NM_012042	ENSMUSG00000029686	Cul1	Cul-1	cullin 1	protein-coding	18.0	15.0	27.0	448.0	45.5	5.0	8.5	24.0
Merged-chr1-173913064-4	chr1	173912947	173913147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301745)	promoter-TSS (NM_001301745)	-1.0	NM_001033450	381308.0	Mm.490248	NM_001033450	ENSMUSG00000026536	Ifi211	A730048F03|Ifi205b|Mnda|ifi-205-B	interferon activated gene 211	protein-coding	129.5	147.0	113.5	1699.0	183.5	56.5	85.0	76.0
Merged-chr10-81129127-4	chr10	81129003	81129203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7168.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	33.5	96.0	26.5	144.5	96.0	50.0	29.5	24.5
Merged-chr2-77309508-4	chr2	77309425	77309625	+	995.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28933.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	44.0	59.0	23.0	460.0	98.5	42.5	38.5	20.5
Merged-chr11-98587259-4	chr11	98587159	98587359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025661)	promoter-TSS (NM_025661)	-14.0	NM_025661	66612.0	Mm.180546	NM_025661	ENSMUSG00000038150	Ormdl3	2810011N17Rik|AI315223	ORM1-like 3 (S. cerevisiae)	protein-coding	75.5	104.5	30.0	942.0	202.0	78.5	81.5	85.5
Merged-chr16-16526888-4	chr16	16526814	16527014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301817, intron 1 of 16)	intron (NM_001301817, intron 1 of 16)	497.0	NM_001301818	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	44.5	75.5	61.0	1108.0	146.5	63.0	52.5	28.0
Merged-chr5-110176875-4	chr5	110176793	110176993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008146)	promoter-TSS (NM_008146)	36.0	NM_008146	269682.0	Mm.9392	NM_008146	ENSMUSG00000029502	Golga3	5330413L04|5430416E01Rik|AI449376|AW490576|G1-499-14|Mea-2|Mea2|Mea2/Golga3|repro27	golgi autoantigen, golgin subfamily a, 3	protein-coding	28.0	34.5	37.0	341.0	92.0	44.5	46.5	40.5
Merged-chr14-21813431-4	chr14	21813340	21813540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18121.0	NM_011695	22334.0	Mm.262327	NM_011695	ENSMUSG00000021771	Vdac2	Vdac6|mVDAC2|mVDAC6	voltage-dependent anion channel 2	protein-coding	21.0	48.5	18.5	461.0	122.0	43.5	54.5	43.0
Merged-chr12-55368620-4	chr12	55368530	55368730	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025373, intron 4 of 6)	intron (NM_025373, intron 4 of 6)	-15592.0	NM_001310583	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	36.5	61.0	56.5	427.5	99.0	24.5	54.5	35.5
Merged-chr3-84348283-4	chr3	84348168	84348368	+	919.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31653.0	NR_040752	75309.0	Mm.159497	NR_040752	ENSMUSG00000104004	4930565D16Rik	-	RIKEN cDNA 4930565D16 gene	ncRNA	13.5	18.0	10.0	230.5	17.0	5.0	14.0	18.5
Merged-chr2-180043879-4	chr2	180043778	180043978	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178750, intron 1 of 10)	intron (NM_178750, intron 1 of 10)	1395.0	NM_178750	269397.0	Mm.63068	NM_178750	ENSMUSG00000039086	Ss18l1	A230053O16Rik|CREST	SS18, nBAF chromatin remodeling complex subunit like 1	protein-coding	25.0	21.5	13.5	229.0	34.0	7.5	14.5	22.0
Merged-chr18-4908344-4	chr18	4908240	4908440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95854.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	72.0	40.0	101.0	1081.0	58.0	19.5	49.0	34.0
Merged-chr2-163401433-4	chr2	163401324	163401524	+	930.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3431.0	NM_001205076	59091.0	Mm.34459	NM_021566	ENSMUSG00000017817	Jph2	1110002E14Rik|JP-2|Jp2	junctophilin 2	protein-coding	6.5	20.5	6.0	134.5	51.0	3.5	18.0	11.0
Merged-chr3-127299595-4	chr3	127299494	127299694	+	978.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327938, intron 1 of 47)	intron (NM_001327938, intron 1 of 47)	109464.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	25.5	20.5	24.5	493.5	58.0	14.5	19.5	38.5
Merged-chr5-146231736-3	chr5	146231643	146231843	+	949.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001359990, exon 1 of 13)	exon (NM_001359990, exon 1 of 13)	493.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	8.0	16.5	22.5	136.5	21.0	13.5	7.5	8.5
Merged-chr9-73044291-4	chr9	73044195	73044395	+	927.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023635)	promoter-TSS (NM_023635)	-515.0	NM_023635	11891.0	Mm.34867	NM_023635	ENSMUSG00000032202	Rab27a	2210402C08Rik|2410003M20Rik|4933437C11Rik|ash	RAB27A, member RAS oncogene family	protein-coding	11.0	14.5	7.0	198.5	44.5	13.5	17.0	20.5
Merged-chr3-105895435-4	chr3	105895341	105895541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-8980.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	111.0	106.5	51.0	854.0	180.5	81.0	84.5	79.5
Merged-chr16-65454029-4	chr16	65453932	65454132	+	880.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-66597.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	8.0	20.5	15.5	68.5	31.0	12.5	22.5	10.5
Merged-chr5-122770984-3	chr5	122770891	122771091	+	948.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199676, intron 1 of 16)	intron (NM_001199676, intron 1 of 16)	8419.0	NM_001199676	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	8.0	15.0	15.0	126.5	16.5	4.0	4.0	7.0
Merged-chr10-13301236-4	chr10	13301143	13301343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	23046.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	123.0	243.0	116.5	1806.0	314.5	113.5	90.5	57.5
Merged-chr2-73561775-4	chr2	73561645	73561845	+	873.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18593.0	NM_007389	11435.0	Mm.4583	NM_007389	ENSMUSG00000027107	Chrna1	AI385656|AI608266|Achr-1|Acra	cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle)	protein-coding	12.0	15.0	3.5	106.0	31.5	14.5	15.0	8.5
Merged-chr1-144319596-4	chr1	144319520	144319720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70516.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	143.5	175.5	152.0	2556.0	222.0	87.0	106.0	114.0
Merged-chr16-33902102-4	chr16	33901999	33902199	+	958.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 7 of 14)	intron (NM_001145884, intron 7 of 14)	64939.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	16.0	8.5	15.5	468.5	33.5	21.0	27.0	19.5
Merged-chr15-101257067-4	chr15	101256988	101257188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9758.0	NM_010444	15370.0	Mm.119	NM_010444	ENSMUSG00000023034	Nr4a1	GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|NUR77-1|NUR77-2|TIS1|TR3|nur77	nuclear receptor subfamily 4, group A, member 1	protein-coding	59.0	105.0	47.5	626.5	131.0	40.0	75.0	33.5
Merged-chr15-97520181-4	chr15	97520057	97520257	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	185665.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	47.5	50.5	99.0	1198.0	48.5	12.5	43.5	33.0
Merged-chr11-94212133-3	chr11	94211997	94212197	+	981.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009427, intron 1 of 1)	intron (NM_009427, intron 1 of 1)	643.0	NM_009427	22057.0	Mm.259673	NM_009427	ENSMUSG00000037573	Tob1	Tob|Trob	transducer of ErbB-2.1	protein-coding	22.0	20.0	14.5	180.0	31.0	16.0	18.0	20.5
Merged-chr13-62383177-4	chr13	62383067	62383267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162910)	promoter-TSS (NM_001162910)	7.0	NM_001162910	100041979.0	Mm.445930	NM_001162910	ENSMUSG00000094942	Gm3604	-	predicted gene 3604	protein-coding	31.5	40.0	47.5	479.0	79.5	44.0	60.0	57.0
Merged-chr13-113515281-4	chr13	113515188	113515388	+	990.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12444.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	18.5	26.5	25.0	469.5	42.0	7.5	21.0	18.5
Merged-chr2-132109599-4	chr2	132109466	132109666	+	969.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355430, intron 1 of 15)	B3A|SINE|B2	35542.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	13.0	17.0	10.5	199.0	36.0	8.5	8.0	12.0
Merged-chr9-40628372-3	chr9	40628286	40628486	+	900.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57578.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	30.0	50.5	19.0	384.5	17.5	9.5	4.0	7.5
Merged-chr6-135295775-3	chr6	135295675	135295875	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14609.0	NM_029595	76400.0	Mm.293018	NM_029595	ENSMUSG00000047104	Pbp2	1700023A18Rik|AI326308|Pebp-2|Pebp2	phosphatidylethanolamine binding protein 2	protein-coding	41.5	67.0	44.5	906.0	16.5	4.0	3.0	5.5
Merged-chr2-148686449-4	chr2	148686349	148686549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355689, intron 2 of 5)	intron (NM_001355689, intron 2 of 5)	5329.0	NM_028986	74533.0	Mm.136913	NM_028986	ENSMUSG00000027439	Gzf1	8430437G08Rik|Zfp336|mGZF1	GDNF-inducible zinc finger protein 1	protein-coding	12.5	47.5	22.0	362.0	44.5	31.0	24.0	31.5
Merged-chr15-99456576-4	chr15	99456484	99456684	+	877.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001884, intron 1 of 12)	intron (NM_001001884, intron 1 of 12)	1164.0	NM_001001884	380969.0	Mm.22915	NM_001001884	ENSMUSG00000023009	Nckap5l	C230021P08Rik|Cep169	NCK-associated protein 5-like	protein-coding	13.5	14.0	15.0	237.0	29.0	10.5	14.0	16.0
Merged-chr4-95215369-4	chr4	95215272	95215472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19C|LTR|ERVK	-163150.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	134.5	131.5	88.0	1515.0	188.5	77.5	68.5	84.0
Merged-chr17-88450714-1	chr17	88450614	88450814	+	694.0	f0_balb.idr	intron (NM_001355742, intron 1 of 5)	MTA_Mm|LTR|ERVL-MaLR	10010.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	6.5	37.0	13.0	23.5	14.5	9.0	3.0	7.0
Merged-chr18-66458148-3	chr18	66458053	66458253	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021451)	promoter-TSS (NM_021451)	-451.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	59.5	96.5	92.5	1082.0	186.5	76.0	93.0	105.5
Merged-chr5-77193441-4	chr5	77193339	77193539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	17766.0	NM_001289767	69982.0	Mm.46106	NM_183284	ENSMUSG00000053030	Spink2	1700007F22Rik|AV038945|HUSI-II	serine peptidase inhibitor, Kazal type 2	protein-coding	19.5	20.0	19.5	271.0	103.5	44.0	60.0	57.5
Merged-chr7-4071279-4	chr7	4071206	4071406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8102.0	NM_001302676	52855.0	Mm.290880	NM_178611	ENSMUSG00000055541	Lair1	5133400O11Rik|BB115266|D7Bwg0421e|Lair-1	leukocyte-associated Ig-like receptor 1	protein-coding	31.0	25.0	26.0	494.0	72.5	17.0	23.5	25.0
Merged-chr9-61242337-4	chr9	61242236	61242436	+	999.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51473.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	29.5	48.0	17.0	317.0	74.0	18.5	26.0	25.5
Merged-chr9-16042861-3	chr9	16042751	16042951	+	901.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 3 of 24)	intron (NM_001080814, intron 3 of 24)	-168295.0	NM_145712	244701.0	Mm.222631	NM_145712	ENSMUSG00000050901	Mtnr1b	Mel-1B-R|Mel1b|Mt2	melatonin receptor 1B	protein-coding	14.5	19.5	25.5	416.5	30.5	6.0	8.0	6.5
Merged-chr7-110863108-4	chr7	110863005	110863205	+	897.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053247)	promoter-TSS (NM_053247)	-152.0	NM_053247	114332.0	Mm.396078	NM_053247	ENSMUSG00000030787	Lyve1	1200012G08Rik|Crsbp-1|Lyve-1|Xlkd1	lymphatic vessel endothelial hyaluronan receptor 1	protein-coding	5.5	21.0	30.5	220.5	26.0	7.5	12.5	9.0
Merged-chr8-46141084-4	chr8	46140985	46141185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16939.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	35.0	35.5	54.0	723.5	64.0	34.0	39.5	53.0
Merged-chr18-46958996-4	chr18	46958909	46959109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178377, intron 1 of 6)	CpG	133.0	NM_178377	69456.0	Mm.210734	NM_178377	ENSMUSG00000042705	Commd10	2310003A05Rik|AU019438|DRWMS2|Tg(Vav1-icre)A2Kio|Vav-cre|Vav-iCre|Vav1-Cre|VavCre	COMM domain containing 10	protein-coding	134.5	210.0	350.0	2109.0	246.5	104.5	107.5	124.5
Merged-chr11-58954590-4	chr11	58954479	58954679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_134309)	promoter-TSS (NR_134309)	-67.0	NR_134309	382522.0	Mm.377898	NR_134309	ENSMUSG00000080712	Hist3h2bb-ps	4930534G10Rik|4933432H21|B2Hist3h2bb|Hist3h2bb|R75370	histone cluster 3, H2bb, pseudogene	pseudo	50.0	96.0	47.5	680.0	224.5	69.5	62.5	62.0
Merged-chr2-120563231-5	chr2	120563168	120563368	+	796.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011743, intron 1 of 21)	intron (NM_011743, intron 1 of 21)	591.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	6.0	9.0	7.5	85.0	23.0	7.0	9.5	11.0
Merged-chr16-28517956-4	chr16	28517883	28518083	+	939.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010199, intron 2 of 5)	intron (NM_010199, intron 2 of 5)	46512.0	NM_001357064	14167.0	Mm.7996	NM_010199	ENSMUSG00000022523	Fgf12	AV114868|B230343J05Rik|FGF-12|FHF-1|Fhf1	fibroblast growth factor 12	protein-coding	54.5	72.0	73.0	793.5	30.0	7.0	5.0	15.5
Merged-chr2-104693438-5	chr2	104693260	104693460	+	853.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177190, intron 5 of 9)	intron (NM_177190, intron 5 of 9)	18802.0	NM_177190	320554.0	Mm.249065	NM_177190	ENSMUSG00000027175	Tcp11l1	C130096D04Rik	t-complex 11 like 1	protein-coding	12.5	3.0	4.5	101.5	7.5	7.5	5.5	4.5
Merged-chr11-69092506-4	chr11	69092404	69092604	+	796.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009497)	TTS (NM_009497)	3976.0	NM_009497	22318.0	Mm.28643	NM_009497	ENSMUSG00000020894	Vamp2	Syb-2|Syb2|Vamp-2|sybII	vesicle-associated membrane protein 2	protein-coding	7.5	6.5	2.5	105.5	27.0	8.5	9.0	7.5
Merged-chr4-16213479-4	chr4	16213375	16213575	+	976.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045765, intron 3 of 6)	Lx8b|LINE|L1	49365.0	NR_045765	100415915.0	Mm.387180	NR_045765	ENSMUSG00000085112	A530072M11Rik	-	RIKEN cDNA gene A530072M11	ncRNA	29.5	11.0	27.5	282.0	45.5	13.5	18.5	13.0
Merged-chr7-128460524-6	chr7	128460472	128460672	+	892.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347641, intron 1 of 12)	CpG	941.0	NM_009383	21843.0	Mm.242072	NM_009383	ENSMUSG00000030846	Tial1	5330433G13Rik|AL033329|TIAR|mTIAR	Tia1 cytotoxic granule-associated RNA binding protein-like 1	protein-coding	5.0	7.0	8.0	72.5	21.5	12.0	9.5	5.5
Merged-chr6-87499999-4	chr6	87499894	87500094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	intron (NM_001037727, intron 1 of 10)	-3667.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	60.0	80.0	52.5	1013.0	94.0	41.0	64.5	46.0
Merged-chr19-12461086-4	chr19	12461000	12461200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010821, exon 2 of 2)	5' UTR (NM_010821, exon 2 of 2)	321.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	60.0	96.5	87.0	847.5	137.5	52.0	57.0	50.5
Merged-chr7-3946322-4	chr7	3946216	3946416	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30815.0	NR_028115	18726.0	Mm.440989	NM_011090	ENSMUSG00000030427	Lilra6	7M1|Pira3	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	protein-coding	19.5	14.5	18.0	273.0	28.5	7.5	14.0	6.5
Merged-chr13-112753535-4	chr13	112753439	112753639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47238.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	39.0	69.5	39.5	838.5	97.5	30.5	51.0	66.0
Merged-chr9-108808378-4	chr9	108808321	108808521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030729)	promoter-TSS (NM_030729)	41.0	NM_030729	80987.0	Mm.192416	NM_030729	ENSMUSG00000032598	Nckipsd	AF3P21|DIP1|ORF1|SPIN90|WASLBP|WISH|Wasbp	NCK interacting protein with SH3 domain	protein-coding	75.0	79.5	64.5	712.5	142.5	68.5	60.0	55.0
Merged-chr16-70329686-4	chr16	70329569	70329769	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028803, intron 1 of 15)	intron (NM_028803, intron 1 of 15)	15720.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	14.5	17.5	43.5	502.5	88.5	36.5	62.0	43.5
Merged-chr6-37223934-4	chr6	37223849	37224049	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	76027.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	5.5	20.0	16.5	200.0	39.0	8.5	7.0	27.0
Merged-chr13-34652645-4	chr13	34652543	34652743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105041)	promoter-TSS (NR_105041)	38.0	NM_025831	66895.0	Mm.28943	NM_025831	ENSMUSG00000021411	Pxdc1	1300014I06Rik	PX domain containing 1	protein-coding	85.5	108.0	85.5	1221.5	75.0	53.0	64.0	56.0
Merged-chr8-116238847-4	chr8	116238737	116238937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-266178.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	44.5	36.5	31.0	638.0	96.5	33.0	25.5	43.5
Merged-chr3-90509145-4	chr3	90509037	90509237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293777, intron 1 of 5)	C-rich|Low_complexity|Low_complexity	361.0	NM_001293776	66511.0	Mm.154136	NM_023215	ENSMUSG00000001017	Chtop	2500003M10Rik|Fop|Srag	chromatin target of PRMT1	protein-coding	43.0	65.0	38.0	397.5	56.0	24.5	33.0	29.0
Merged-chr1-131911070-4	chr1	131910971	131911171	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145804, intron 1 of 6)	CpG	613.0	NM_175294	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	47.5	106.5	67.5	818.5	141.5	37.5	63.5	40.5
Merged-chr10-29313429-4	chr10	29313316	29313516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025855)	promoter-TSS (NM_025855)	-84.0	NM_025855	52665.0	Mm.28930	NM_025855	ENSMUSG00000019883	Echdc1	1700028A24Rik|AI314462|AI930038|D10Ertd667e|MMCD	enoyl Coenzyme A hydratase domain containing 1	protein-coding	158.0	221.5	251.0	2111.0	289.5	132.0	172.5	116.0
Merged-chr8-46869535-4	chr8	46869428	46869628	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117359.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	52.5	78.5	49.5	506.0	62.5	29.0	30.0	20.5
Merged-chr2-25547014-4	chr2	25546914	25547114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290413)	promoter-TSS (NM_001290413)	-74.0	NM_009422	22030.0	Mm.3399	NM_009422	ENSMUSG00000026942	Traf2	AI325259	TNF receptor-associated factor 2	protein-coding	244.5	335.0	238.0	3017.5	612.5	231.5	307.5	254.0
Merged-chr12-26426484-3	chr12	26426369	26426569	+	726.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11207.0	NM_080563	108089.0	Mm.214932	NM_080563	ENSMUSG00000020642	Rnf144a	Rnf144|UIP4|Ubce7ip4	ring finger protein 144A	protein-coding	7.5	20.5	8.0	167.0	14.0	2.5	8.5	6.0
Merged-chr2-122149574-3	chr2	122149473	122149673	+	890.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009735, intron 1 of 3)	RSINE1|SINE|B4	1886.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	8.0	12.5	1.0	66.5	24.0	14.0	9.0	10.5
Merged-chr19-16407912-4	chr19	16407813	16408013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27754.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	65.5	110.5	51.5	1010.0	205.0	63.5	79.5	50.5
Merged-chr17-8283072-4	chr17	8283028	8283228	+	932.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018819)	promoter-TSS (NM_018819)	-685.0	NM_018819	55951.0	Mm.288510	NM_018819	ENSMUSG00000023861	Mpc1	0610006G08Rik|3830411I18Rik|Brp44l	mitochondrial pyruvate carrier 1	protein-coding	14.5	13.5	38.0	137.5	34.5	14.5	9.5	10.5
Merged-chr18-52468277-3	chr18	52468196	52468396	+	956.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026040, intron 1 of 7)	intron (NM_026040, intron 1 of 7)	2603.0	NM_026040	67222.0	Mm.100617	NM_026040	ENSMUSG00000024528	Srfbp1	2810036K01Rik|p49/STRAP	serum response factor binding protein 1	protein-coding	2.0	4.0	2.0	63.0	32.5	31.5	12.0	32.5
Merged-chr15-78406686-4	chr15	78406636	78406836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162493)	promoter-TSS (NM_001162493)	24.0	NM_001162493	246221.0	Mm.294215	NM_138670	ENSMUSG00000071711	Mpst	Mst	mercaptopyruvate sulfurtransferase	protein-coding	39.0	43.0	27.5	478.5	113.5	48.0	49.0	52.0
Merged-chr11-62646363-4	chr11	62646261	62646461	+	971.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198861, intron 1 of 3)	intron (NM_198861, intron 1 of 3)	1688.0	NM_001357955	192976.0	Mm.339972	NM_198861	ENSMUSG00000046417	Lrrc75a	Fam211a	leucine rich repeat containing 75A	protein-coding	33.5	55.0	40.5	344.0	81.5	26.5	30.5	15.5
Merged-chr16-36632350-4	chr16	36632257	36632457	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019388, intron 1 of 7)	L1MB3|LINE|L1	33720.0	NM_019388	12524.0	Mm.1452	NM_019388	ENSMUSG00000022901	Cd86	B7|B7-2|B7.2|B70|CLS1|Cd28l2|ETC-1|Ly-58|Ly58|MB7|MB7-2|TS/A-2	CD86 antigen	protein-coding	134.5	216.0	151.5	1718.0	274.0	116.0	142.5	104.5
Merged-chr12-105033358-4	chr12	105033238	105033438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028419, intron 1 of 1)	intron (NM_028419, intron 1 of 1)	720.0	NM_028419	73046.0	Mm.29128	NM_028419	ENSMUSG00000021102	Glrx5	-	glutaredoxin 5	protein-coding	24.5	43.5	36.0	485.5	48.0	15.0	37.0	33.0
Merged-chr10-94408868-4	chr10	94408767	94408967	+	962.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	96918.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	18.0	25.0	13.0	185.0	54.0	16.5	18.5	11.5
Merged-chr4-126310077-3	chr4	126309976	126310176	+	875.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199473, intron 3 of 3)	intron (NM_199473, intron 3 of 3)	11627.0	NM_133883	100206.0	Mm.11285	NM_133883	ENSMUSG00000042558	Adprhl2	AI836109|Arh3	ADP-ribosylhydrolase like 2	protein-coding	4.5	12.0	9.0	85.0	18.5	13.5	10.5	8.0
Merged-chr6-119388456-2	chr6	119388356	119388556	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_197985, intron 1 of 7)	CpG	278.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	23.0	16.5	13.0	255.0	58.5	24.5	20.5	34.0
Merged-chr11-3186806-4	chr11	3186724	3186924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 3 of 32)	intron (NM_030207, intron 3 of 32)	6639.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	89.0	115.5	62.5	927.5	286.5	96.0	66.0	70.0
Merged-chr12-76950504-4	chr12	76950402	76950602	+	947.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361663, intron 3 of 4)	intron (NM_001361663, intron 3 of 4)	11746.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	18.5	19.5	15.5	275.5	59.5	27.0	17.0	18.5
Merged-chr17-88337856-4	chr17	88337751	88337951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102853.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	66.5	74.0	58.5	1423.5	101.5	51.5	68.5	41.0
Merged-chr3-87508440-4	chr3	87508322	87508522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17156.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	37.0	98.0	30.5	490.0	165.0	62.5	50.0	39.5
Merged-chr11-115188825-4	chr11	115188725	115188925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 2 of 9)	intron (NM_001033393, intron 2 of 9)	1338.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	127.5	178.0	150.0	2039.5	349.0	126.0	125.0	135.0
Merged-chr15-59680842-5	chr15	59680840	59681040	+	992.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32286.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	23.0	32.5	24.0	238.0	35.0	13.5	18.0	21.5
Merged-chr2-77275282-4	chr2	77275180	77275380	+	969.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175465, intron 1 of 17)	intron (NM_175465, intron 1 of 17)	5312.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	17.5	16.5	19.0	252.0	37.0	14.5	21.0	26.5
Merged-chr1-135399682-4	chr1	135399579	135399779	+	951.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357578, intron 15 of 24)	intron (NM_001357578, intron 15 of 24)	-24616.0	NM_175259	77552.0	Mm.41407	NM_175259	ENSMUSG00000041889	Shisa4	9330132O05Rik|Tmem58|mShisa4	shisa family member 4	protein-coding	15.0	17.5	22.0	336.0	36.5	14.5	14.5	7.0
Merged-chr2-3719627-3	chr2	3719540	3719740	+	885.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	L1_Mus3|LINE|L1	6182.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	14.5	17.0	15.5	51.5	35.5	6.5	6.5	8.5
Merged-chr10-69211807-4	chr10	69211719	69211919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081347)	promoter-TSS (NM_001081347)	-838.0	NM_001081347	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	68.5	86.0	82.5	1161.5	96.0	31.5	95.0	72.5
Merged-chr12-21336391-3	chr12	21336283	21336483	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291871, intron 11 of 18)	intron (NM_001291871, intron 11 of 18)	19991.0	NM_026347	67732.0	Mm.335830	NM_026347	ENSMUSG00000062054	Iah1	1500019E20Rik|4833421E05Rik	isoamyl acetate-hydrolyzing esterase 1 homolog	protein-coding	66.0	127.0	47.0	849.5	75.0	31.5	18.5	33.5
Merged-chr2-35337661-4	chr2	35337550	35337750	+	962.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013515)	promoter-TSS (NM_013515)	-641.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	22.0	31.0	41.5	670.0	71.0	17.5	14.5	13.0
Merged-chr15-27884556-4	chr15	27884431	27884631	+	961.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 9 of 56)	intron (NM_001081302, intron 9 of 56)	141317.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	11.5	20.0	9.0	256.5	40.0	12.0	26.5	30.0
Merged-chr11-103987590-4	chr11	103987500	103987700	+	903.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20729.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	17.0	29.0	7.5	121.5	61.5	23.5	17.5	14.0
Merged-chr11-47221685-4	chr11	47221592	47221792	+	926.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 2 of 7)	MTE2b|LTR|ERVL-MaLR	157610.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	17.0	28.0	16.5	278.0	34.0	11.0	15.0	12.0
Merged-chr15-67177959-4	chr15	67177882	67178082	+	921.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1100.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	8.5	19.0	20.5	271.0	19.0	15.5	7.5	13.5
Merged-chr12-40464069-4	chr12	40463981	40464181	+	854.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	18028.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	15.5	25.0	29.0	253.5	40.5	4.0	10.0	12.0
Merged-chr9-94698234-3	chr9	94698085	94698285	+	920.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177909, intron 2 of 15)	intron (NM_177909, intron 2 of 15)	28293.0	NM_177909	331004.0	Mm.326125	NM_177909	ENSMUSG00000031129	Slc9a9	5730527A11Rik|9930105B05|AI854429|Nhe9	solute carrier family 9 (sodium/hydrogen exchanger), member 9	protein-coding	8.5	9.0	8.0	110.5	16.5	2.5	3.5	3.0
Merged-chr11-5065777-4	chr11	5065664	5065864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190406)	promoter-TSS (NM_001190406)	-437.0	NM_001190406	78926.0	Mm.44591	NM_030228	ENSMUSG00000034201	Gas2l1	4930500E24Rik|D0Jmb1|Gar22|TU-71.1	growth arrest-specific 2 like 1	protein-coding	29.0	47.0	28.5	414.0	77.0	13.5	35.0	22.5
Merged-chr12-85142989-3	chr12	85142888	85143088	+	780.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146244, intron 4 of 10)	intron (NM_146244, intron 4 of 10)	8276.0	NM_146244	238323.0	Mm.44829	NM_146244	ENSMUSG00000019235	Rps6kl1	A830084F09Rik|AW046440	ribosomal protein S6 kinase-like 1	protein-coding	3.5	16.0	5.5	82.0	25.0	7.0	10.0	7.5
Merged-chr10-94277932-1	chr10	94277832	94278032	+	611.5	f0_balb.idr	Intergenic	Intergenic	20771.0	NR_033209	215472.0	Mm.255656	NM_174999	ENSMUSG00000053420	Gm4792	E130012K09|EG215472	predicted gene 4792	ncRNA	7.0	10.5	12.5	71.0	1.0	4.5	0.0	0.0
Merged-chr10-20040350-4	chr10	20040258	20040458	+	871.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 7 of 29)	intron (NM_008580, intron 7 of 29)	105832.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	16.5	20.0	16.5	274.5	20.5	14.5	8.5	6.0
Merged-chr2-151533823-4	chr2	151533718	151533918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-8665.0	NR_126058	14225.0	Mm.278458	NM_008019	ENSMUSG00000032966	Fkbp1a	FKBP12|Fkbp|Fkbp1	FK506 binding protein 1a	protein-coding	26.0	50.5	48.5	681.0	111.5	40.5	51.5	57.0
Merged-chr1-153969361-3	chr1	153969264	153969464	+	611.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	69435.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	10.5	10.0	14.5	128.5	3.5	3.0	0.5	6.0
Merged-chr19-55876676-4	chr19	55876592	55876792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	-18629.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	50.0	38.5	72.0	856.0	53.0	27.5	28.5	41.0
Merged-chr3-96240374-4	chr3	96240338	96240538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013549).2	promoter-TSS (NM_013549).2	-64.0	NM_178212	319192.0	Mm.5220	NM_178212	ENSMUSG00000063954	Hist2h2aa2	H2a-614|H2a-615	histone cluster 2, H2aa2	protein-coding	82.0	100.5	64.5	419.5	128.5	35.0	49.0	45.0
Merged-chr2-32606980-4	chr2	32606866	32607066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110347)	promoter-TSS (NR_110347)	-19.0	NM_001289547	50935.0	Mm.88831	NM_016973	ENSMUSG00000026811	St6galnac6	ST6GalNAcVI|Siat7f	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6	protein-coding	37.5	86.5	24.0	444.0	136.5	47.5	76.0	68.5
Merged-chr5-76522640-4	chr5	76522520	76522720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-6687.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	38.0	56.0	49.0	876.5	100.5	30.5	36.5	33.5
Merged-chr12-110682961-3	chr12	110682833	110683033	+	835.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025488)	promoter-TSS (NM_025488)	-314.0	NM_025488	66323.0	Mm.273316	NM_025488	ENSMUSG00000056508	1700001K19Rik	-	RIKEN cDNA 1700001K19 gene	protein-coding	4.5	8.5	5.5	107.5	5.0	2.5	4.0	6.0
Merged-chr7-75653875-3	chr7	75653790	75653990	+	637.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	-194448.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	6.0	12.0	4.5	139.5	18.0	10.5	9.0	2.5
Merged-chr7-35028820-4	chr7	35028715	35028915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 11 of 14)	intron (NM_008820, intron 11 of 14)	27751.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	133.5	180.0	225.5	3374.5	252.5	94.5	181.0	145.0
Merged-chr2-167805158-4	chr2	167805070	167805270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	113993.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	58.0	62.5	59.5	876.5	134.0	56.5	58.0	61.0
Merged-chr12-71831003-4	chr12	71830914	71831114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172464)	promoter-TSS (NM_172464)	-54.0	NM_026102	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	319.0	530.0	346.0	5465.5	840.0	345.0	452.5	288.5
Merged-chr13-45330641-1	chr13	45330541	45330741	+	790.0	f0_balb.idr	Intergenic	Intergenic	-59101.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	4.5	5.0	9.0	144.0	4.5	4.0	1.0	4.0
Merged-chr15-96476575-4	chr15	96476479	96476679	+	906.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15736.0	NM_028148	72193.0	Mm.324474	NM_028148	ENSMUSG00000033228	Scaf11	1110061H03Rik|2610510E10Rik|AI462454|CASP11|SIP1|SRRP129|Sfrs2ip|Srsf2ip|mKIAA3013	SR-related CTD-associated factor 11	protein-coding	15.5	20.5	10.0	198.0	37.5	15.0	18.0	23.0
Merged-chr10-128149805-4	chr10	128149706	128149906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039080, intron 3 of 13)	intron (NM_001039080, intron 3 of 13)	26762.0	NM_019711	56516.0	Mm.42247	NM_019711	ENSMUSG00000040043	Rbms2	2610315E04Rik|Scr3	RNA binding motif, single stranded interacting protein 2	protein-coding	44.0	59.5	62.5	677.5	61.5	21.5	51.0	20.5
Merged-chr1-91019112-2	chr1	91019012	91019212	+	771.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001111312, intron 1 of 12)	intron (NM_001111312, intron 1 of 12)	20385.0	NM_001111312	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	9.0	12.5	9.0	43.5	10.5	3.5	9.0	1.5
Merged-chr17-83631444-4	chr17	83631327	83631527	+	815.729187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153512, exon 1 of 2)	exon (NM_153512, exon 1 of 2)	468.0	NM_153512	225030.0	Mm.223506	NM_153512	ENSMUSG00000045053	Kcng3	KV6.3|Kv10.1a|Kv10.1b	potassium voltage-gated channel, subfamily G, member 3	protein-coding	11.5	12.0	5.5	122.5	29.5	7.5	11.5	8.5
Merged-chr7-133776438-1	chr7	133776338	133776538	+	766.0	f0_balb.idr	promoter-TSS (NM_025850)	promoter-TSS (NM_025850)	365.0	NM_001286032	101437.0	Mm.199223	NM_133941	ENSMUSG00000030986	Dhx32	3110079L04Rik|4732469F02Rik|AA408140|Ddx32|muDDX32	DEAH (Asp-Glu-Ala-His) box polypeptide 32	protein-coding	14.0	14.0	13.5	140.0	29.5	5.0	13.0	26.0
Merged-chr4-7455381-3	chr4	7455258	7455458	+	874.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-105330.0	NR_040645	71510.0	Mm.410775	NR_040645	ENSMUSG00000086070	8430436N08Rik	-	RIKEN cDNA 8430436N08 gene	ncRNA	6.5	7.0	8.5	111.0	17.0	5.5	5.0	4.0
Merged-chr7-80802823-1	chr7	80802723	80802923	+	1000.0	f0_balb.idr	intron (NM_016721, intron 1 of 37)	intron (NM_016721, intron 1 of 37)	508.0	NM_016721	29875.0	Mm.207619	NM_016721	ENSMUSG00000030536	Iqgap1	AA682088|D7Ertd237e|D7Ertd257e|mKIAA0051	IQ motif containing GTPase activating protein 1	protein-coding	40.0	74.0	46.0	398.0	106.0	44.0	54.0	44.0
Merged-chr15-50871416-4	chr15	50871310	50871510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032000, intron 1 of 5)	intron (NM_032000, intron 1 of 5)	17639.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	44.0	42.0	40.5	719.5	96.0	23.0	33.0	22.0
Merged-chr17-67334497-3	chr17	67334395	67334595	+	989.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	19964.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	7.5	7.5	15.0	179.0	6.5	4.5	17.0	10.0
Merged-chr12-87299862-4	chr12	87299847	87300047	+	758.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290302)	promoter-TSS (NM_001290302)	-242.0	NM_001290302	217738.0	Mm.219363	NM_001290302	ENSMUSG00000050671	Ism2	Gm264|Thsd3	isthmin 2	protein-coding	10.5	7.5	5.5	101.0	9.0	9.0	5.5	13.5
Merged-chr10-130322802-3	chr10	130322695	130322895	+	838.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183264)	promoter-TSS (NM_183264)	-57.0	NM_183264	67596.0	Mm.131264	NM_183264	ENSMUSG00000034833	Tespa1	5830405N20Rik|A430001F24Rik|AI450549	thymocyte expressed, positive selection associated 1	protein-coding	12.5	11.0	8.5	257.5	11.5	4.0	7.5	9.0
Merged-chr2-3727823-4	chr2	3727732	3727932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	14374.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	36.5	35.0	40.0	724.5	65.5	22.0	35.0	25.5
Merged-chr15-43282726-4	chr15	43282626	43282826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008388)	promoter-TSS (NM_008388)	10.0	NM_008388	16341.0	Mm.289992	NM_008388	ENSMUSG00000022336	Eif3e	48kDa|Eif3s6|Int6|eIF3-p46|eIF3-p48	eukaryotic translation initiation factor 3, subunit E	protein-coding	129.0	161.5	77.0	2107.0	317.5	87.5	138.5	154.5
Merged-chr6-42354351-5	chr6	42354245	42354445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289618, intron 4 of 9)	intron (NM_001289618, intron 4 of 9)	4517.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	15.5	17.5	22.0	214.5	43.5	14.0	12.0	33.0
Merged-chr7-118114734-3	chr7	118114628	118114828	+	635.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170669, intron 3 of 4)	intron (NM_170669, intron 3 of 4)	1419.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	8.0	13.0	5.0	77.5	14.0	8.0	12.0	7.0
Merged-chr2-34754316-4	chr2	34754213	34754413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151469, exon 2 of 27)	non-coding (NR_151469, exon 2 of 27)	919.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	50.0	93.0	54.5	411.5	107.5	49.0	28.0	39.0
Merged-chr18-54846630-4	chr18	54846522	54846722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143558.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	54.5	85.0	62.0	975.0	150.0	59.0	74.5	57.0
Merged-chr4-74357740-4	chr4	74357640	74357840	+	970.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 15 of 20)	intron (NM_001356561, intron 15 of 20)	105861.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	23.5	28.5	17.5	466.0	37.0	12.5	26.0	22.0
Merged-chr14-33232225-1	chr14	33232125	33232325	+	779.0	f0_balb.idr	intron (NM_153800, intron 2 of 10)	intron (NM_153800, intron 2 of 10)	15402.0	NM_153800	239027.0	Mm.318350	NM_153800	ENSMUSG00000063506	Arhgap22	B230341L19Rik|RHOGAP2|p68RacGAP	Rho GTPase activating protein 22	protein-coding	14.0	5.0	7.0	137.0	10.0	3.5	6.0	7.0
Merged-chr1-173762686-1	chr1	173762586	173762786	+	662.0	f0_c57.idr	intron (NM_008329, intron 1 of 8)	intron (NM_008329, intron 1 of 8)	4233.0	NM_008329	15951.0	Mm.261270	NM_008329	ENSMUSG00000073489	Ifi204	Ifi16|p204	interferon activated gene 204	protein-coding	0.0	0.0	0.0	0.0	21.0	13.0	8.5	12.0
Merged-chr1-107503489-3	chr1	107503401	107503601	+	870.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-7922.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	6.0	13.0	3.0	85.5	30.0	10.0	11.0	10.0
Merged-chr2-162932042-4	chr2	162931907	162932107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026499, exon 2 of 6)	exon (NM_026499, exon 2 of 6)	499.0	NM_026499	67996.0	Mm.24042	NM_026499	ENSMUSG00000016921	Srsf6	1210001E11Rik|AI314910|AW146126|Sfrs6	serine/arginine-rich splicing factor 6	protein-coding	19.0	24.5	44.5	298.5	47.5	27.5	46.5	35.5
Merged-chr5-114697113-3	chr5	114697013	114697213	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-6178.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	63.0	67.5	29.5	823.0	2.5	4.0	0.0	4.0
Merged-chr5-113931068-4	chr5	113930978	113931178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22372.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	39.0	40.0	18.5	368.0	46.0	25.5	41.0	31.5
Merged-chr9-105121384-4	chr9	105121297	105121497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10408.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	49.0	78.0	78.0	818.5	62.5	28.0	29.0	36.5
Merged-chr9-90113827-4	chr9	90113727	90113927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039147, intron 1 of 12)	intron (NM_001039147, intron 1 of 12)	993.0	NM_001039147	21761.0	Mm.426209	NM_024431	ENSMUSG00000062270	Morf4l1	MORFRG15|MRG15|TEG-189|Tex189|mKIAA4002	mortality factor 4 like 1	protein-coding	92.5	212.5	161.5	1797.5	368.5	117.0	178.0	134.5
Merged-chr10-41477892-4	chr10	41477786	41477986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358838)	promoter-TSS (NM_001358838)	-124.0	NM_001358838	171580.0	Mm.290431	NM_138315	ENSMUSG00000019823	Mical1	MICAL|MICAL-1|Nical	microtubule associated monooxygenase, calponin and LIM domain containing 1	protein-coding	51.0	69.5	45.5	725.0	111.0	45.0	38.5	44.0
Merged-chr18-9495166-4	chr18	9495078	9495278	+	999.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-45024.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	34.5	74.5	46.0	368.5	89.5	18.5	30.5	19.5
Merged-chr14-54641647-5	chr14	54641561	54641761	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199470)	promoter-TSS (NM_199470)	-297.0	NM_199470	239096.0	Mm.386871	NM_199470	ENSMUSG00000059674	Cdh24	1700040A22Rik	cadherin-like 24	protein-coding	9.0	18.5	13.5	150.5	33.5	17.0	11.5	22.0
Merged-chr5-62815955-4	chr5	62815863	62816063	+	754.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 1 of 8)	AmnSINE1|SINE|Deu	2140.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	16.0	21.5	8.5	246.0	25.0	11.0	9.5	6.0
Merged-chr10-83634702-4	chr10	83634595	83634795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145220, intron 2 of 20)	intron (NM_145220, intron 2 of 20)	13969.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	26.0	30.0	19.5	348.0	60.0	22.5	46.5	12.0
Merged-chr6-34907978-4	chr6	34907872	34908072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013366, intron 3 of 14)	intron (NM_001013366, intron 3 of 14)	2859.0	NM_001013366	101240.0	Mm.152120	NM_001013366	ENSMUSG00000058486	Wdr91	9530020G05Rik|AI987683|AU018665	WD repeat domain 91	protein-coding	163.5	278.0	240.5	2361.0	383.5	130.0	127.0	126.0
Merged-chr9-89228313-4	chr9	89228201	89228401	+	954.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359993, intron 2 of 2)	L1MB2|LINE|L1	16917.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	15.0	32.0	29.0	331.5	46.5	18.0	17.5	11.5
Merged-chr19-21599153-3	chr19	21599076	21599276	+	950.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025423, intron 2 of 3)	intron (NM_025423, intron 2 of 3)	53615.0	NM_025423	66206.0	Mm.272430	NM_025423	ENSMUSG00000035171	1110059E24Rik	-	RIKEN cDNA 1110059E24 gene	protein-coding	16.5	20.0	15.0	239.5	16.5	6.5	7.0	8.5
Merged-chr19-6242480-4	chr19	6242370	6242570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194348, intron 1 of 39)	intron (NM_194348, intron 1 of 39)	802.0	NM_194348	329015.0	Mm.277384	NM_194348	ENSMUSG00000024773	Atg2a	1810013C15Rik|A830054M12|BC023754|mKIAA0404	autophagy related 2A	protein-coding	136.5	216.5	79.5	1461.5	290.0	120.5	110.0	86.5
Merged-chr1-194992785-4	chr1	194992696	194992896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15837.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	32.5	43.5	39.0	598.5	49.0	18.0	22.5	30.5
Merged-chr15-81077759-4	chr15	81077674	81077874	+	899.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	B3A|SINE|B2	27273.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	8.0	11.5	4.5	90.5	46.5	10.5	16.5	9.5
Merged-chr15-8279489-3	chr15	8279419	8279619	+	767.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110413.0	NM_001162906	73692.0	Mm.164436	NM_001162906	ENSMUSG00000039801	2410089E03Rik	4732468D17Rik|Hug|Jbts17|b2b012Clo	RIKEN cDNA 2410089E03 gene	protein-coding	6.5	6.5	4.5	75.0	13.5	2.0	3.0	3.0
Merged-chr17-67474142-4	chr17	67474052	67474252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119661.0	NM_001357625	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	71.0	117.0	81.0	1467.5	229.5	99.0	122.5	117.5
Merged-chr12-24651232-4	chr12	24651133	24651333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178357)	promoter-TSS (NM_178357)	-138.0	NM_178357	194655.0	Mm.9616	NM_178357	ENSMUSG00000020653	Klf11	9830142A17|D12Ertd427e|Tieg2|Tieg2b|Tieg3	Kruppel-like factor 11	protein-coding	332.5	546.0	444.5	4663.0	928.5	343.5	464.0	342.0
Merged-chr9-25130578-4	chr9	25130459	25130659	+	854.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020586, exon 3 of 8)	exon (NM_020586, exon 3 of 8)	21222.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	21.5	11.0	11.0	256.0	30.5	6.5	17.0	7.0
Merged-chr15-74988733-4	chr15	74988665	74988865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5335.0	NM_020498	57248.0	Mm.358339	NM_020498	ENSMUSG00000022586	Ly6i	AI789751|Ly-6I|Ly-6M	lymphocyte antigen 6 complex, locus I	protein-coding	13.0	21.5	23.0	355.5	45.0	29.0	18.0	19.0
Merged-chr4-86902624-4	chr4	86902512	86902712	+	979.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290543, intron 4 of 5)	intron (NM_001290543, intron 4 of 5)	28198.0	NM_139306	230379.0	Mm.45019	NM_139306	ENSMUSG00000038007	Acer2	2410116I05Rik|Asah3l|CRG-L1|maCER2	alkaline ceramidase 2	protein-coding	60.0	37.5	71.5	1162.5	69.5	13.0	57.5	56.5
Merged-chr6-108736366-4	chr6	108736257	108736457	+	898.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46702.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	15.0	11.0	15.5	249.5	25.5	6.0	12.0	8.0
Merged-chr9-64737714-4	chr9	64737623	64737823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017382)	promoter-TSS (NM_017382)	33.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	60.5	97.0	22.5	484.0	133.5	57.5	67.5	76.5
Merged-chr18-9444976-4	chr18	9444866	9445066	+	797.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026484, intron 1 of 9)	MTC|LTR|ERVL-MaLR	5188.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	4.0	9.0	13.0	145.0	21.0	4.5	14.0	12.5
Merged-chr12-33314211-5	chr12	33314049	33314249	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033436, intron 1 of 7)	intron (NM_001033436, intron 1 of 7)	11634.0	NM_001033436	380753.0	Mm.41540	NM_028139	ENSMUSG00000020564	Atxn7l1	2810423G08Rik|Atxn7l4	ataxin 7-like 1	protein-coding	7.0	61.0	26.0	218.0	45.0	20.0	23.5	16.5
Merged-chr9-110476754-5	chr9	110476670	110476870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010628)	promoter-TSS (NM_010628)	-76.0	NM_177771	270201.0	Mm.41744	NM_177771	ENSMUSG00000054792	Klhl18	A930041K15|AW545966	kelch-like 18	protein-coding	46.0	58.5	37.5	375.5	65.0	30.0	26.5	37.0
Merged-chr6-86772847-4	chr6	86772752	86772952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013471, intron 1 of 12)	intron (NM_013471, intron 1 of 12)	2262.0	NM_001331120	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	38.0	80.5	28.5	760.5	132.0	56.0	48.5	35.0
Merged-chr2-120731545-4	chr2	120731467	120731667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026891)	promoter-TSS (NM_026891)	-50.0	NM_026891	68968.0	Mm.2289	NM_026891	ENSMUSG00000027284	Cdan1	1500015A01Rik|AI448026|AW492297|CDA-I|CDA1|CDAI	congenital dyserythropoietic anemia, type I (human)	protein-coding	92.5	128.5	70.0	1236.0	200.0	78.5	126.0	81.5
Merged-chr17-56612098-4	chr17	56611992	56612192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1303.0	NM_018730	54217.0	Mm.11376	NM_018730	ENSMUSG00000057863	Rpl36	-	ribosomal protein L36	protein-coding	16.5	28.5	20.0	191.5	40.5	23.0	14.0	28.0
Merged-chr8-14642639-4	chr8	14642541	14642741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172910, intron 4 of 15)	intron (NM_172910, intron 4 of 15)	-245895.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	28.5	25.0	29.0	404.5	129.0	30.5	42.0	40.0
Merged-chr18-62180081-4	chr18	62180014	62180214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007420)	promoter-TSS (NM_007420)	14.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	218.5	315.0	182.5	2781.0	499.0	182.5	238.0	191.5
Merged-chr3-51662844-4	chr3	51662750	51662950	+	973.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174995, intron 1 of 4)	intron (NM_174995, intron 1 of 4)	1671.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	24.0	36.0	14.0	426.5	51.5	13.5	21.5	22.5
Merged-chr15-101975623-4	chr15	101975459	101975659	+	896.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21272.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	7.0	7.5	7.5	59.5	15.0	6.0	4.5	7.5
Merged-chr8-116980283-4	chr8	116980193	116980393	+	997.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1334.0	NM_001357255	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	21.5	39.5	14.0	276.0	57.5	14.0	32.5	21.0
Merged-chr11-68973645-6	chr11	68973557	68973757	+	977.5277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001285442, exon 1 of 5)	exon (NM_001285442, exon 1 of 5)	198.0	NM_021329	57785.0	Mm.143774	NM_021329	ENSMUSG00000032892	Rangrf	2400006H24Rik|Mog1|Rangnrf	RAN guanine nucleotide release factor	protein-coding	8.0	19.0	14.0	21.5	17.5	15.0	6.0	16.5
Merged-chr19-58943598-4	chr19	58943483	58943683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001327998)	promoter-TSS (NM_001327998)	89.0	NM_001327998	73442.0	Mm.39739	NM_175199	ENSMUSG00000025092	Hspa12a	1700063D12Rik|AI118035|AI840429|AW048913|AW556406|D5Mgi40|Gm19925|mKIAA0417	heat shock protein 12A	protein-coding	49.5	104.0	82.0	711.5	115.0	46.0	38.0	37.0
Merged-chr4-154856289-4	chr4	154856185	154856385	+	861.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172878)	promoter-TSS (NM_172878)	85.0	NM_172878	242800.0	Mm.72944	NM_172878	ENSMUSG00000046637	Ttc34	4932418L02|B230396O12Rik	tetratricopeptide repeat domain 34	protein-coding	24.5	70.0	37.0	563.5	22.0	4.5	16.0	12.5
Merged-chr2-3660138-3	chr2	3660034	3660234	+	801.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53324.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	9.5	9.0	6.0	94.0	15.0	3.0	7.5	10.5
Merged-chr16-3744038-4	chr16	3743931	3744131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148924)	promoter-TSS (NM_148924)	-68.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	242.0	345.0	213.0	3227.0	602.5	205.0	280.5	188.5
Merged-chr8-126683732-3	chr8	126683631	126683831	+	875.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90295.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	6.0	8.5	5.0	103.5	15.0	4.0	5.0	4.0
Merged-chr11-98790003-3	chr11	98789921	98790121	+	870.611145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-5495.0	NM_001361931	74026.0	Mm.258352	NM_028722	ENSMUSG00000052915	Msl1	2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1	male specific lethal 1	protein-coding	9.5	7.5	7.0	51.5	22.5	8.5	5.5	7.0
Merged-chr6-17749747-3	chr6	17749663	17749863	+	850.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 1 of 15)	intron (NM_022332, intron 1 of 15)	593.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	8.0	4.5	9.0	31.5	30.0	6.0	14.0	11.0
Merged-chr6-95718691-6	chr6	95718427	95718627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011507, intron 1 of 10)	CpG	319.0	NM_011507	20917.0	Mm.371585	NM_011507	ENSMUSG00000061838	Suclg2	AF171077|AW556404|D6Wsu120e|G-SCS|GTPSCS|SCS-betaG	succinate-Coenzyme A ligase, GDP-forming, beta subunit	protein-coding	42.5	30.5	44.0	418.5	58.5	24.5	25.0	37.5
Merged-chr12-3871877-4	chr12	3871769	3871969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007872, intron 4 of 22)	intron (NM_007872, intron 4 of 22)	-9625.0	NR_045884	100038522.0	Mm.417270	NR_045884	ENSMUSG00000073242	Dnmt3aos	Gm10485	DNA methyltransferase 3A, opposite strand	ncRNA	27.5	34.5	35.5	408.0	76.0	24.5	35.5	17.5
Merged-chr6-126910916-4	chr6	126910812	126911012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207210, intron 2 of 14)	intron (NM_207210, intron 2 of 14)	10927.0	NM_207210	101320.0	Mm.44896	NM_207210	ENSMUSG00000030345	Dyrk4	AW049118|Dyrk4a|Dyrk4b	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4	protein-coding	30.5	50.5	33.0	612.0	109.0	30.0	48.5	49.5
Merged-chr6-134027222-4	chr6	134027105	134027305	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-8495.0	NM_001303102	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	17.5	48.5	10.5	294.0	62.0	15.0	21.0	13.5
Merged-chr4-134117179-4	chr4	134117058	134117258	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026257, intron 8 of 14)	intron (NM_026257, intron 8 of 14)	11595.0	NM_080559	73723.0	Mm.22240	NM_080559	ENSMUSG00000028843	Sh3bgrl3	1110004L05Rik|AU022188	SH3 domain binding glutamic acid-rich protein-like 3	protein-coding	15.0	20.5	11.0	211.0	204.5	84.0	73.0	48.5
Merged-chr5-20470649-4	chr5	20470550	20470750	+	863.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 10 of 22)	RMER13A|LTR|ERVK	411474.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	9.5	6.0	7.5	167.5	24.0	13.0	7.5	11.0
Merged-chr2-13407474-1	chr2	13407374	13407574	+	804.0	f0_balb.idr	intron (NM_001081084, intron 27 of 66)	intron (NM_001081084, intron 27 of 66)	84402.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	8.5	13.5	4.0	144.5	12.5	5.5	6.5	16.0
Merged-chr17-35867175-4	chr17	35867073	35867273	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_175242, exon 1 of 3)	5' UTR (NM_175242, exon 1 of 3)	558.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	17.5	20.5	19.5	162.0	42.0	19.0	18.0	15.5
Merged-chr1-64616789-4	chr1	64616641	64616841	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_025964, exon 1 of 3)	5' UTR (NM_025964, exon 1 of 3)	427.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	12.0	26.5	20.5	332.5	55.0	17.0	14.0	28.5
Merged-chr1-66817638-4	chr1	66817431	66817631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122738)	promoter-TSS (NM_001122738)	64.0	NM_177645	68691.0	Mm.240912	NM_177645	ENSMUSG00000026004	Kansl1l	1110028C15Rik|1190030G24|AI427598|C430010P07Rik|mKIAA4189	KAT8 regulatory NSL complex subunit 1-like	protein-coding	87.5	148.5	139.5	1614.5	314.0	151.0	160.5	170.5
Merged-chr17-34312427-4	chr17	34312307	34312507	+	924.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 2 of 5)	intron (NM_010382, intron 2 of 5)	6540.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	6.0	8.5	5.5	63.0	123.0	24.0	35.0	43.0
Merged-chr2-32395923-8	chr2	32395784	32395984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133783)	promoter-TSS (NM_133783)	-6.0	NM_133783	96979.0	Mm.28048	NM_133783	ENSMUSG00000026820	Ptges2	0610038H10Rik|C79137|Gbf1|Mpges2|Pges2	prostaglandin E synthase 2	protein-coding	23.5	45.5	22.0	230.0	73.0	36.5	40.5	46.5
Merged-chr11-116005112-4	chr11	116005011	116005211	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005608, intron 32 of 39)	CpG	7608.0	NM_016905	14635.0	Mm.2820	NM_016905	ENSMUSG00000020766	Galk1	AA409894|GALK|Gk|Glk|Glk1	galactokinase 1	protein-coding	76.5	129.5	65.5	967.5	170.0	66.0	87.0	65.5
Merged-chr9-41135036-4	chr9	41134929	41135129	+	955.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	23033.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	31.5	73.5	32.5	473.5	25.5	15.5	13.0	4.5
Merged-chr2-71662200-4	chr2	71662092	71662292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).2	Arthur1|DNA|hAT-Tip100	-57225.0	NR_037979	381371.0	Mm.330284	NM_201366	ENSMUSG00000064263	Platr26	Gm1631	pluripotency associated transcript 26	ncRNA	40.5	64.5	44.5	662.0	117.0	27.5	47.5	57.5
Merged-chr5-93150769-2	chr5	93150671	93150871	+	786.916626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001009818, intron 3 of 9)	intron (NM_001009818, intron 3 of 9)	55724.0	NM_017367	12453.0	Mm.250419	NM_017367	ENSMUSG00000063015	Ccni	-	cyclin I	protein-coding	1.0	3.0	3.0	19.5	9.5	7.5	12.5	12.0
Merged-chr11-54236827-2	chr11	54236727	54236927	+	895.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13072.0	NM_009969	12981.0	Mm.4922	NM_009969	ENSMUSG00000018916	Csf2	CSF|Csfgm|GMCSF|Gm-CSf|MGI-IGM	colony stimulating factor 2 (granulocyte-macrophage)	protein-coding	9.5	9.0	4.0	73.5	21.5	9.0	4.5	10.0
Merged-chr7-43278096-3	chr7	43277999	43278199	+	849.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35201.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	7.0	42.0	13.0	91.0	17.5	10.0	5.0	3.0
Merged-chr2-158176553-4	chr2	158176469	158176669	+	976.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	-15439.0	NR_036606	73399.0	Mm.416861	NR_036606	ENSMUSG00000078957	1700060C20Rik	-	RIKEN cDNA 1700060C20 gene	ncRNA	20.0	15.0	26.0	249.0	38.5	7.5	17.5	17.5
Merged-chr14-27508457-4	chr14	27508355	27508555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177111)	promoter-TSS (NM_177111)	5.0	NM_177111	320234.0	Mm.247767	NM_177111	ENSMUSG00000046753	Ccdc66	E230015L20Rik	coiled-coil domain containing 66	protein-coding	77.0	63.0	69.5	877.0	86.0	40.5	39.5	39.0
Merged-chr2-165933985-3	chr2	165933898	165934098	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49160.0	NM_001252587	228880.0	Mm.227598	NM_027230	ENSMUSG00000039671	Zmynd8	1110013E22Rik|2010005I16Rik|3632413B07Rik|AI316811|AL024039|Prkcbp1|RACK7	zinc finger, MYND-type containing 8	protein-coding	25.0	27.5	27.0	343.0	3.0	0.0	1.5	4.0
Merged-chr2-35496732-3	chr2	35496630	35496830	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35281.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	5.5	8.5	10.5	207.5	11.5	3.5	6.5	7.0
Merged-chr7-28796034-4	chr7	28795895	28796095	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177158, exon 8 of 12)	exon (NM_177158, exon 8 of 12)	7026.0	NM_177158	320435.0	Mm.74632	NM_177158	ENSMUSG00000051735	Rinl	5830482F20Rik|9930116N10Rik	Ras and Rab interactor-like	protein-coding	17.5	19.0	13.5	266.0	46.0	24.0	29.5	19.5
Merged-chr8-84656947-4	chr8	84656851	84657051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	5901.0	NM_010499	15936.0	Mm.399	NM_010499	ENSMUSG00000053560	Ier2	AI317238|Ch1|Pip92	immediate early response 2	protein-coding	142.0	236.0	137.0	1459.5	244.5	88.0	115.0	79.0
Merged-chr14-46994469-4	chr14	46994382	46994582	+	901.3875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 2 of 12)	intron (NM_001037221, intron 2 of 12)	-6858.0	NM_001163433	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	14.5	26.0	29.0	336.0	45.0	21.5	12.5	13.5
Merged-chr5-134099692-4	chr5	134099606	134099806	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030719)	promoter-TSS (NM_030719)	-42.0	NM_030719	80909.0	Mm.45218	NM_030719	ENSMUSG00000015944	Gatsl2	7530428J21Rik|AW742413|Castor2|Gats|Gatsl1	GATS protein-like 2	protein-coding	82.5	125.0	85.0	949.5	152.5	58.5	97.0	71.0
Merged-chr11-9531848-4	chr11	9531750	9531950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 45 of 61)	intron (NM_178259, intron 45 of 61)	339908.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	51.5	52.5	52.0	734.0	108.0	37.0	63.5	71.0
Merged-chr7-122310388-4	chr7	122310293	122310493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	21268.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	74.5	84.5	65.5	1087.0	145.0	59.5	74.5	52.0
Merged-chr4-137764277-3	chr4	137764166	137764366	+	801.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007431, intron 1 of 11)	intron (NM_007431, intron 1 of 11)	2209.0	NM_001287172	11647.0	Mm.288186	NM_007431	ENSMUSG00000028766	Alpl	ALP|APTNAP|Akp-2|Akp2|TNAP|TNSALP	alkaline phosphatase, liver/bone/kidney	protein-coding	5.0	0.0	1.5	12.5	34.0	7.0	5.0	6.0
Merged-chr16-38341847-4	chr16	38341751	38341951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081025)	promoter-TSS (NM_001081025)	9.0	NM_001081025	320214.0	Mm.294342	NM_177104	ENSMUSG00000022805	Maats1	4932425I24Rik|Aat1|CFAP91|Spata26	MYCBP-associated, testis expressed 1	protein-coding	47.5	62.5	32.0	534.0	134.0	64.5	66.5	45.0
Merged-chr10-119055858-4	chr10	119055753	119055953	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5354.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	31.5	44.0	23.0	460.0	135.0	62.0	61.0	66.5
Merged-chr1-52764240-4	chr1	52764146	52764346	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36888.0	NM_001357464	98682.0	Mm.491173	NM_133829	ENSMUSG00000041439	Mfsd6	2210010L05Rik|9630025I22Rik|AI836200|AW212394|MMR2	major facilitator superfamily domain containing 6	protein-coding	30.5	27.5	39.5	479.0	54.5	10.0	16.5	27.0
Merged-chr1-63111041-3	chr1	63110935	63111135	+	763.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114609, intron 1 of 11)	B3|SINE|B2	3232.0	NM_001081436	227195.0	Mm.74718	NM_001081436	ENSMUSG00000040865	Ino80d	7330405I11|A430093A21Rik|BC010584	INO80 complex subunit D	protein-coding	3.5	19.0	0.0	26.0	24.5	7.0	11.5	13.5
Merged-chr7-44374468-4	chr7	44374357	44374557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027049, exon 2 of 6)	5' UTR (NM_027049, exon 2 of 6)	573.0	NM_027049	69349.0	Mm.358922	NM_027049	ENSMUSG00000008028	1700008O03Rik	-	RIKEN cDNA 1700008O03 gene	protein-coding	75.5	139.5	61.0	1135.0	179.5	63.0	71.5	68.5
Merged-chr5-36530536-4	chr5	36530394	36530594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001113364, exon 1 of 12)	5' UTR (NM_001113364, exon 1 of 12)	129.0	NM_001113364	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	71.0	65.5	44.0	1214.0	60.0	32.5	34.0	45.0
Merged-chr16-32610983-2	chr16	32610883	32611083	+	867.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357298, intron 1 of 18)	intron (NM_001357298, intron 1 of 18)	1861.0	NM_001357298	22042.0	Mm.28683	NM_011638	ENSMUSG00000022797	Tfrc	2610028K12Rik|CD71|E430033M20Rik|Mtvr1|TFR|TFR1|TR|Trfr|p90	transferrin receptor	protein-coding	2.0	5.5	0.0	12.0	5.0	5.5	4.5	5.5
Merged-chr13-74260761-4	chr13	74260646	74260846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317351, intron 2 of 9)	intron (NM_001317351, intron 2 of 9)	31585.0	NM_009644	11624.0	Mm.290446	NM_009644	ENSMUSG00000021575	Ahrr	mKIAA1234	aryl-hydrocarbon receptor repressor	protein-coding	61.0	79.5	87.5	1546.5	201.5	58.0	76.5	98.0
Merged-chr10-81620436-4	chr10	81620336	81620536	+	961.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6886.0	NM_001163430	50721.0	Mm.25643	NM_181586	ENSMUSG00000034748	Sirt6	2810449N18Rik|AI043036|Sir2l6	sirtuin 6	protein-coding	14.0	28.0	15.5	51.5	52.5	37.5	13.5	9.0
Merged-chr19-43496075-4	chr19	43495984	43496184	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_031396, exon 11 of 11)	3' UTR (NM_031396, exon 11 of 11)	28521.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	14.5	15.5	8.5	159.0	78.5	26.5	16.0	13.0
Merged-chr8-82367000-4	chr8	82366927	82367127	+	856.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	L1_Mus3|LINE|L1	35559.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	12.0	8.5	5.0	39.0	21.5	7.5	8.5	7.5
Merged-chr2-129539350-3	chr2	129539260	129539460	+	828.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2758.0	NM_177653	228592.0	Mm.452175	NM_177653	ENSMUSG00000043727	F830045P16Rik	Sirpb3	RIKEN cDNA F830045P16 gene	protein-coding	7.5	11.5	0.0	27.5	20.5	15.0	18.5	18.5
Merged-chr15-60835154-4	chr15	60835083	60835283	+	812.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-10103.0	NM_001162926	399603.0	Mm.411968	NM_207269	ENSMUSG00000072568	Fam84b	BF642811|D330050I23Rik	family with sequence similarity 84, member B	protein-coding	10.0	12.5	1.0	123.5	22.5	6.0	9.5	9.5
Merged-chr2-125795315-2	chr2	125795220	125795420	+	629.0	f0_c57.idr|f1_c57bl6.idr	Intergenic	B1F2|SINE|Alu	-12450.0	NM_177608	70354.0	Mm.138091	NM_133725	ENSMUSG00000035093	Secisbp2l	3110001I20Rik|AI504340|C630011I23	SECIS binding protein 2-like	protein-coding	0.0	0.0	1.5	7.0	45.0	14.5	12.0	12.0
Merged-chr2-76088700-3	chr2	76088596	76088796	+	840.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 10 of 19)	intron (NM_001081033, intron 10 of 19)	-106729.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	8.5	9.0	10.0	118.5	7.0	1.5	7.5	5.0
Merged-chr6-72165045-4	chr6	72164960	72165160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41863.0	NR_045165	71265.0	Mm.442035	NR_045163	ENSMUSG00000108709	4933431G14Rik	4930565C19Rik	RIKEN cDNA 4933431G14 gene	ncRNA	34.0	29.0	23.0	639.5	91.0	46.0	50.5	49.0
Merged-chr12-102379165-4	chr12	102379072	102379272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 7 of 9)	intron (NM_177620, intron 7 of 9)	60641.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	31.5	57.5	20.5	908.5	46.0	27.5	23.0	27.5
Merged-chr10-7232254-2	chr10	7232154	7232354	+	672.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-20017.0	NM_172546	215748.0	Mm.37984	NM_172546	ENSMUSG00000015202	Cnksr3	6820402C05|BC024086|Magi1	Cnksr family member 3	protein-coding	5.0	10.0	13.0	49.0	11.5	5.5	3.0	8.0
Merged-chr1-165606251-3	chr1	165606138	165606338	+	891.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 2 of 5)	intron (NM_001083897, intron 2 of 5)	28303.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	5.0	5.0	9.0	239.5	25.0	3.5	3.0	5.0
Merged-chr5-43232052-3	chr5	43231954	43232154	+	912.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 1 of 7)	intron (NR_028417, intron 1 of 7)	-1409.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	8.0	15.0	6.5	225.0	11.5	8.5	9.5	13.5
Merged-chr8-69037917-4	chr8	69037810	69038010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_153054, exon 17 of 17)	3' UTR (NM_153054, exon 17 of 17)	-50826.0	NM_007509	11966.0	Mm.249096	NM_007509	ENSMUSG00000006273	Atp6v1b2	AI194269|AI790362|Atp6b2|HO57|R74844	ATPase, H+ transporting, lysosomal V1 subunit B2	protein-coding	30.0	74.5	34.0	391.5	91.5	40.0	16.5	26.0
Merged-chr12-111442560-4	chr12	111442463	111442663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009396)	promoter-TSS (NM_009396)	-98.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	382.0	649.0	431.5	4797.5	1076.0	465.0	522.5	369.5
Merged-chr5-96979547-2	chr5	96979447	96979647	+	895.8000490000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18142.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	1.5	5.0	3.5	53.5	6.5	11.0	5.0	5.5
Merged-chr6-113691230-4	chr6	113691121	113691321	+	929.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 11 of 11)	intron (NM_001113553, intron 11 of 11)	-5829.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	21.0	14.0	22.5	392.0	12.0	11.0	6.0	17.5
Merged-chr1-88576379-4	chr1	88576271	88576471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24854.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	19.0	27.5	27.0	403.5	36.5	21.5	30.5	28.0
Merged-chr7-127800552-4	chr7	127800433	127800633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133943)	promoter-TSS (NM_133943)	-76.0	NM_133943	101502.0	Mm.157103	NM_133943	ENSMUSG00000042289	Hsd3b7	AI195443|BB098564	hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 7	protein-coding	37.5	93.0	53.5	981.0	159.5	57.0	86.5	77.0
Merged-chr1-155475177-4	chr1	155475078	155475278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	51933.0	NR_132128	433367.0	Mm.359304	NR_132128	ENSMUSG00000073535	Gm5532	EG433367	predicted gene 5532	ncRNA	27.5	28.5	28.0	529.5	77.5	30.5	37.5	21.5
Merged-chr2-72842037-4	chr2	72841924	72842124	+	901.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28307.0	NR_102349	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	6.5	15.5	8.0	104.5	39.5	9.5	12.5	2.5
Merged-chr8-40994080-4	chr8	40993927	40994127	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 13 of 13)	B1_Mus1|SINE|Alu	-23441.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	43.5	56.5	42.5	606.5	27.0	15.0	17.5	27.0
Merged-chr8-56311238-4	chr8	56311028	56311228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 4 of 6)	intron (NM_008278, intron 4 of 6)	16576.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	28.0	27.0	29.0	329.0	16.5	11.0	7.0	14.5
Merged-chr18-33794840-4	chr18	33794749	33794949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038151)	promoter-TSS (NR_038151)	-43.0	NR_038152	69749.0	Mm.248787	NR_038151	ENSMUSG00000087590	Epb41l4aos	2410004N09Rik|Epb4.1l4aos	erythrocyte membrane protein band 4.1 like 4a, opposite strand	ncRNA	132.0	206.5	127.5	1753.0	227.0	95.0	114.0	98.0
Merged-chr2-48814872-3	chr2	48814765	48814965	+	798.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007396, intron 1 of 10)	CpG	756.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	4.5	4.5	8.0	55.0	32.5	5.5	10.0	11.5
Merged-chr7-144582489-4	chr7	144582375	144582575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010175)	promoter-TSS (NM_010175)	-39.0	NM_010175	14082.0	Mm.5126	NM_010175	ENSMUSG00000031077	Fadd	Mort1/FADD	Fas (TNFRSF6)-associated via death domain	protein-coding	71.0	103.0	55.0	952.0	214.0	80.5	123.5	76.0
Merged-chr18-37765888-2	chr18	37765788	37765988	+	639.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_033595, exon 1 of 4)	5' UTR (NM_033595, exon 1 of 4)	308.0	NM_033595	93724.0	Mm.247203	NM_033595	ENSMUSG00000102428	Pcdhga12	Pcdh13|pc2c	protocadherin gamma subfamily A, 12	protein-coding	3.0	4.5	1.0	76.5	7.5	6.0	8.0	8.5
Merged-chr10-96646292-4	chr10	96646218	96646418	+	984.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29317.0	NM_007569	12226.0	Mm.23811	NM_007569	ENSMUSG00000036478	Btg1	AI426953|AW546738	B cell translocation gene 1, anti-proliferative	protein-coding	18.5	39.5	25.5	376.0	75.0	14.5	20.0	12.0
Merged-chr2-168979927-4	chr2	168979849	168980049	+	838.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	1680.0	NR_040326	75508.0	Mm.271256	NR_040326	ENSMUSG00000086348	1700017J07Rik	-	RIKEN cDNA 1700017J07 gene	ncRNA	7.5	12.0	5.0	95.0	27.5	5.0	11.5	18.0
Merged-chr7-80270075-2	chr7	80269975	80270175	+	981.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_178070, exon 1 of 23)	exon (NM_178070, exon 1 of 23)	420.0	NM_178070	233405.0	Mm.322870	NM_178070	ENSMUSG00000030534	Vps33b	-	vacuolar protein sorting 33B	protein-coding	6.0	9.5	11.0	76.0	17.5	4.5	9.0	4.0
Merged-chr5-32104330-4	chr5	32104244	32104444	+	872.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32128.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	14.5	11.5	15.5	211.5	21.5	9.0	13.5	5.5
Merged-chr4-42961756-4	chr4	42961645	42961845	+	676.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-8201.0	NM_026088	67317.0	Mm.478018	NM_026088	ENSMUSG00000028451	1700022I11Rik	-	RIKEN cDNA 1700022I11 gene	protein-coding	8.0	10.5	4.5	88.0	29.5	10.0	6.0	5.0
Merged-chr13-80960030-4	chr13	80959922	80960122	+	785.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4052.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	12.5	8.5	14.5	208.5	26.5	8.0	5.5	7.0
Merged-chr1-157427119-3	chr1	157427026	157427226	+	929.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14531.0	NM_177644	226525.0	Mm.235028	NM_177644	ENSMUSG00000070565	Rasal2	6530401P13|A330066M24Rik	RAS protein activator like 2	protein-coding	25.5	15.0	22.5	278.5	29.0	9.0	9.5	8.5
Merged-chr2-148375640-4	chr2	148375609	148375809	+	630.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19668.0	NM_009219	20608.0	Mm.35324	NM_009219	ENSMUSG00000037014	Sstr4	Smstr4|sst4	somatostatin receptor 4	protein-coding	5.0	14.0	6.0	68.0	9.0	5.0	11.5	12.5
Merged-chr12-37241761-4	chr12	37241665	37241865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178767, exon 1 of 13)	5' UTR (NM_178767, exon 1 of 13)	126.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	181.0	242.0	131.0	2372.0	486.5	193.5	204.5	179.0
Merged-chr2-129145159-3	chr2	129145049	129145249	+	824.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15449.0	NM_025395	66170.0	Mm.40621	NM_025395	ENSMUSG00000037938	Chchd5	1110027L01Rik|AW045710	coiled-coil-helix-coiled-coil-helix domain containing 5	protein-coding	11.5	9.0	16.5	100.0	12.0	7.0	4.0	9.0
Merged-chr15-59717229-4	chr15	59717124	59717324	+	934.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68570.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	22.0	48.0	18.5	457.0	53.5	20.0	17.0	11.0
Merged-chr2-122450476-4	chr2	122450394	122450594	+	854.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356532, intron 6 of 17)	MTC|LTR|ERVL-MaLR	9674.0	NM_001356532	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	10.5	16.5	10.0	169.0	24.0	7.5	9.5	24.0
Merged-chr17-70851211-4	chr17	70851130	70851330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009372)	promoter-TSS (NM_009372)	-20.0	NM_009372	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	151.0	241.0	158.5	1702.5	427.5	173.5	213.0	141.5
Merged-chr17-34761615-4	chr17	34761517	34761717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ETnERV2-int|LTR|ERVK	-17720.0	NM_009780	12268.0	Mm.477109	NM_009780	ENSMUSG00000073418	C4b	C4|Ss	complement component 4B (Chido blood group)	protein-coding	49.5	68.0	54.0	623.0	208.0	62.0	81.5	108.0
Merged-chr9-41072874-4	chr9	41072748	41072948	+	954.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	6658.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	11.5	12.5	5.5	192.5	63.0	22.0	19.5	30.5
Merged-chr8-124349896-4	chr8	124349749	124349949	+	817.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84087.0	NM_171824	209966.0	Mm.234233	NM_171824	ENSMUSG00000050751	Pgbd5	2900019M05Rik|AI854313	piggyBac transposable element derived 5	protein-coding	1.0	13.0	3.0	49.5	34.0	5.0	6.0	8.0
Merged-chr2-32548145-4	chr2	32548038	32548238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153560, intron 1 of 10)	intron (NM_153560, intron 1 of 10)	12779.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	54.5	48.0	22.5	397.5	116.5	44.5	40.0	31.5
Merged-chr17-36849668-4	chr17	36849579	36849779	+	955.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025599, intron 2 of 9)	intron (NM_001025599, intron 2 of 9)	12533.0	NM_001286726	22670.0	Mm.34587	NM_030698	ENSMUSG00000024457	Trim26	AI462198|Zfp173|Zfp1736	tripartite motif-containing 26	protein-coding	16.5	31.0	16.0	301.0	64.0	13.5	19.5	9.5
Merged-chr14-31397854-3	chr14	31397791	31397991	+	949.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	19786.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	8.0	4.5	13.0	285.5	10.0	1.5	3.5	4.5
Merged-chr10-62504928-3	chr10	62504847	62505047	+	856.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	B1_Mur4|SINE|Alu	2810.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	4.5	6.5	6.5	66.5	9.0	1.5	8.0	4.5
Merged-chr2-124649211-4	chr2	124649115	124649315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	RMER15|LTR|ERVL	-4366.0	NM_199240	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	41.0	69.5	34.0	597.0	118.5	39.0	35.0	29.0
Merged-chr7-16048321-4	chr7	16048202	16048402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23543.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	191.0	300.5	113.0	1767.0	398.0	137.5	145.0	119.0
Merged-chr12-80054499-4	chr12	80054379	80054579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58534.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	74.0	140.5	96.0	1026.5	154.0	65.0	58.0	42.5
Merged-chr4-59575337-3	chr4	59575267	59575467	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER5A|DNA|hAT-Charlie	-6196.0	NM_001301367	72479.0	Mm.272905	NM_024255	ENSMUSG00000028383	Hsdl2	2610207I16Rik	hydroxysteroid dehydrogenase like 2	protein-coding	20.5	20.0	9.5	404.0	30.0	5.5	14.0	27.0
Merged-chr18-84854073-4	chr18	84853919	84854119	+	858.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001348159, intron 1 of 5)	intron (NM_001348159, intron 1 of 5)	2681.0	NM_001348159	109672.0	Mm.31018	NM_025797	ENSMUSG00000024646	Cyb5a	0610009N12Rik|Cyb5	cytochrome b5 type A (microsomal)	protein-coding	9.0	13.5	9.5	121.5	18.5	7.5	1.0	7.5
Merged-chr8-119426618-4	chr8	119426505	119426705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10557.0	NM_027950	71839.0	Mm.272357	NM_027950	ENSMUSG00000074063	Osgin1	1700012B18Rik|Okl38	oxidative stress induced growth inhibitor 1	protein-coding	50.5	39.5	35.5	553.5	122.5	42.5	39.5	63.0
Merged-chr18-6107971-4	chr18	6107859	6108059	+	960.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039692, intron 3 of 18)	intron (NM_001039692, intron 3 of 18)	28139.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	23.0	15.5	38.5	427.5	33.5	15.0	26.0	18.0
Merged-chr10-24640800-6	chr10	24640761	24640961	+	990.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008813, exon 25 of 25)	3' UTR (NM_008813, exon 25 of 25)	45419.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	6.5	5.0	11.0	93.5	11.0	9.5	9.0	7.0
Merged-chr1-195012736-4	chr1	195012644	195012844	+	933.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4655.0	NR_015566	320977.0	Mm.99905	NR_015566	ENSMUSG00000096929	A330023F24Rik	C030002C11Rik	RIKEN cDNA A330023F24 gene	ncRNA	15.0	27.5	19.0	175.0	46.0	19.0	12.5	13.0
Merged-chr15-57921568-4	chr15	57921477	57921677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081396, intron 3 of 20)	Lx9|LINE|L1	9378.0	NM_001356310	210544.0	Mm.390835	NM_199300	ENSMUSG00000022364	Tbc1d31	4B3|D330013L20Rik|Gm85|Wdr67	TBC1 domain family, member 31	protein-coding	55.5	83.5	72.0	867.5	174.5	56.0	85.0	72.5
Merged-chr17-47503262-2	chr17	47503162	47503362	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022015)	promoter-TSS (NM_022015)	-971.0	NM_022015	63856.0	Mm.275901	NM_022015	ENSMUSG00000023980	Taf8	AW260255|Tbn	TATA-box binding protein associated factor 8	protein-coding	4.5	9.0	4.5	24.0	29.0	7.0	3.5	4.0
Merged-chr13-102700358-4	chr13	102700263	102700463	+	990.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360519, intron 1 of 2)	intron (NM_001360519, intron 1 of 2)	6805.0	NM_008533	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	15.0	29.0	21.5	278.5	33.5	15.0	20.0	22.0
Merged-chr7-97944695-4	chr7	97944593	97944793	+	696.737488	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177696, intron 1 of 17)	L1_Mur3|LINE|L1	24735.0	NM_177696	233537.0	Mm.375772	NM_177696	ENSMUSG00000035582	Gdpd4	4921513O04	glycerophosphodiester phosphodiesterase domain containing 4	protein-coding	14.0	11.0	1.5	104.5	29.5	9.0	15.0	7.5
Merged-chr19-29496966-4	chr19	29496919	29497119	+	786.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	24968.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	5.0	7.0	5.5	136.5	5.0	3.5	2.5	10.0
Merged-chr16-58509240-4	chr16	58509126	58509326	+	856.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	intron (NM_001357433, intron 1 of 10)	14200.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	12.0	13.0	8.0	174.0	21.0	8.5	7.5	11.5
Merged-chr2-3723979-4	chr2	3723911	3724111	+	788.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025626, intron 1 of 3)	intron (NM_025626, intron 1 of 3)	10553.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	18.5	12.0	8.0	226.0	27.5	1.0	4.5	13.5
Merged-chr16-35490754-4	chr16	35490615	35490815	+	900.03125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028295, intron 1 of 16)	CpG	158.0	NM_028295	72599.0	Mm.71015	NM_028295	ENSMUSG00000022844	Pdia5	2700053F16Rik|AU015525|Pdir	protein disulfide isomerase associated 5	protein-coding	2.0	4.5	10.5	179.0	22.5	6.0	9.0	15.0
Merged-chr14-70074949-4	chr14	70074836	70075036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2509.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	130.0	272.0	115.5	2208.0	660.0	301.5	292.0	291.0
Merged-chr17-53568398-4	chr17	53568242	53568442	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151733, intron 1 of 16)	intron (NR_151733, intron 1 of 16)	1371.0	NR_151733	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	15.5	20.0	14.5	396.5	34.5	9.0	23.5	12.0
Merged-chr17-5238066-3	chr17	5237989	5238189	+	797.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	180678.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	7.5	10.5	9.0	163.0	15.5	3.0	2.5	6.5
Merged-chr12-55487498-10	chr12	55487432	55487632	+	995.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5115.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	26.0	22.0	38.0	348.0	82.5	25.0	17.5	25.5
Merged-chr4-141139786-4	chr4	141139650	141139850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025608)	promoter-TSS (NM_001025608)	46.0	NR_102344	213491.0	Mm.332006	NM_174996	ENSMUSG00000040842	Szrd1	1110022I03|D4Ertd22e	SUZ RNA binding domain containing 1	protein-coding	92.5	129.0	65.5	790.0	259.5	108.5	85.5	97.0
Merged-chr5-90891188-5	chr5	90891091	90891291	+	980.080017	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008176)	promoter-TSS (NM_008176)	-54.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	96.0	197.5	62.5	356.0	116.5	58.0	35.0	14.5
Merged-chr8-111562620-4	chr8	111562525	111562725	+	979.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168623, intron 1 of 4)	intron (NM_001168623, intron 1 of 4)	24282.0	NM_001168623	170737.0	Mm.271578	NM_133206	ENSMUSG00000033545	Znrf1	B830022L21Rik|Rnf42|Zrfp1|nin283	zinc and ring finger 1	protein-coding	59.0	50.0	15.0	436.0	80.0	17.0	27.5	23.5
Merged-chr2-32361682-4	chr2	32361588	32361788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1322.0	NM_001252538	68379.0	Mm.170508	NM_028412	ENSMUSG00000039205	Ciz1	0610038H21Rik|2900056O04Rik|LSFR1|ZNF356	CDKN1A interacting zinc finger protein 1	protein-coding	27.0	50.0	16.5	230.5	52.5	23.0	23.5	37.0
Merged-chr2-129320175-4	chr2	129320072	129320272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10200.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	136.5	256.0	178.0	2048.5	277.5	88.5	140.5	109.0
Merged-chr18-34163244-3	chr18	34163136	34163336	+	769.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57748.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	4.5	6.5	6.0	108.5	21.0	3.5	7.0	4.5
Merged-chr4-132624412-4	chr4	132624294	132624494	+	731.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-14652.0	NM_210071	14050.0	Mm.227733	NM_010166	ENSMUSG00000028886	Eya3	AI844637	EYA transcriptional coactivator and phosphatase 3	protein-coding	6.5	8.0	8.0	66.5	24.0	14.5	13.5	1.5
Merged-chr15-67312824-1	chr15	67312724	67312924	+	637.0	f0_balb.idr	intron (NR_045140, intron 5 of 8)	intron (NR_045140, intron 5 of 8)	86055.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	5.0	8.5	5.0	149.5	8.5	0.0	1.0	2.5
Merged-chr14-79451821-4	chr14	79451718	79451918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034882)	promoter-TSS (NM_001034882)	-17.0	NM_001034882	432879.0	Mm.308666	NM_001034882	ENSMUSG00000075502	Kbtbd6	EG432879|Gm5465|Zbtbd6	kelch repeat and BTB (POZ) domain containing 6	protein-coding	76.5	68.0	50.0	850.5	131.0	38.5	62.5	48.0
Merged-chr19-34198181-4	chr19	34198082	34198282	+	786.016663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360718, intron 1 of 10)	Lx5c|LINE|L1	5248.0	NM_001360718	76630.0	Mm.130952	NM_029682	ENSMUSG00000024776	Stambpl1	1700095N21Rik|8230401J17Rik|ALMalpha|AMSH-FP	STAM binding protein like 1	protein-coding	21.0	13.0	14.5	145.5	33.5	13.0	8.5	22.0
Merged-chr2-131417433-2	chr2	131417333	131417533	+	701.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64541.0	NM_178607	51902.0	Mm.477523	NM_178607	ENSMUSG00000048911	Rnf24	2810473M14Rik|4930505A13Rik|AI317164|C86507|D2Ertd504e	ring finger protein 24	protein-coding	7.5	3.0	5.0	62.0	8.5	8.5	4.5	6.0
Merged-chr14-103885107-2	chr14	103885007	103885207	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40631.0	NM_001136061	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	4.5	6.0	6.5	163.0	5.5	4.0	5.5	1.0
Merged-chr2-109278219-3	chr2	109278126	109278326	+	923.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029790)	promoter-TSS (NM_029790)	64.0	NM_029790	76894.0	Mm.330451	NM_029790	ENSMUSG00000057234	Mettl15	0610027B03Rik|AI303697|AW049952|Mett5d1	methyltransferase like 15	protein-coding	4.5	17.0	12.5	126.5	7.0	8.0	6.0	6.0
Merged-chr4-148655164-4	chr4	148655078	148655278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085505, intron 3 of 10)	intron (NM_001085505, intron 3 of 10)	11861.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	15.0	31.0	19.0	156.0	118.0	52.5	46.0	34.5
Merged-chr17-48265564-3	chr17	48265469	48265669	+	824.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033922, intron 2 of 5)	intron (NM_001033922, intron 2 of 5)	1274.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	8.0	9.0	9.5	103.5	14.0	4.5	1.5	7.5
Merged-chr7-102636862-4	chr7	102636764	102636964	+	819.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3384.0	NM_146325	258322.0	Mm.377435	NM_146325	ENSMUSG00000073971	Olfr554	MOR25-1	olfactory receptor 554	protein-coding	11.5	5.5	8.5	142.5	30.5	7.5	11.0	16.0
Merged-chr2-72379608-4	chr2	72379508	72379708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 8 of 19)	intron (NM_023057, intron 8 of 19)	93907.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	30.0	36.0	26.0	462.5	54.0	24.0	24.0	41.0
Merged-chr1-165461975-4	chr1	165461863	165462063	+	932.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027430, intron 1 of 4)	intron (NM_027430, intron 1 of 4)	755.0	NM_027430	70456.0	Mm.195625	NM_027430	ENSMUSG00000026568	Mpc2	0610006C01Rik|2010002I07Rik|2610205H19Rik|AA108335|Brp44|ESTM43	mitochondrial pyruvate carrier 2	protein-coding	18.0	9.0	17.5	332.5	48.0	16.5	11.0	13.5
Merged-chr8-40311302-4	chr8	40311192	40311392	+	887.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030110, intron 1 of 14)	ORR1E|LTR|ERVL-MaLR	3241.0	NM_030110	78506.0	Mm.169893	NM_030110	ENSMUSG00000039478	Micu3	2900075B16Rik|Efha2	mitochondrial calcium uptake family, member 3	protein-coding	6.5	12.5	16.0	123.5	44.0	12.5	28.5	11.5
Merged-chr13-42820143-4	chr13	42820061	42820261	+	893.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005740, intron 1 of 12)	intron (NM_001005740, intron 1 of 12)	-46086.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	16.0	17.0	14.5	195.5	30.0	14.5	12.5	8.0
Merged-chr19-47447036-4	chr19	47446946	47447146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	17365.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	39.5	63.0	56.0	703.0	61.0	14.5	29.0	27.5
Merged-chr2-91361439-4	chr2	91361348	91361548	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175123, intron 3 of 8)	intron (NM_175123, intron 3 of 8)	83266.0	NM_001311144	228356.0	Mm.386861	NM_175123	ENSMUSG00000040591	1110051M20Rik	AI586322	RIKEN cDNA 1110051M20 gene	protein-coding	38.0	41.0	26.5	513.0	92.0	15.0	43.0	31.5
Merged-chr9-13245395-2	chr9	13245295	13245495	+	950.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001033181, exon 1 of 1)	exon (NM_001033181, exon 1 of 1)	346.0	NM_001033181	77532.0	Mm.459434	NM_001033181	ENSMUSG00000079083	Jrkl	C030035D04Rik|HHMJG	Jrk-like	protein-coding	7.0	4.5	5.5	70.5	19.5	11.0	6.0	12.5
Merged-chr1-65536469-4	chr1	65536372	65536572	+	867.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	225215.0	NM_139270	213527.0	Mm.294225	NM_139270	ENSMUSG00000025946	Pth2r	Pthr2	parathyroid hormone 2 receptor	protein-coding	8.0	20.5	16.5	256.5	35.0	2.0	21.0	9.5
Merged-chr16-25024819-4	chr16	25024711	25024911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-34828.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	41.0	44.5	21.0	413.5	110.0	40.0	45.5	25.0
Merged-chr10-126928344-3	chr10	126928244	126928444	+	986.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-26973.0	NM_001358970	68876.0	Mm.276769	NM_026858	ENSMUSG00000025436	Atp23	1110068E08Rik|2410012H02Rik|Xrcc6bp1	ATP23 metallopeptidase and ATP synthase assembly factor homolog	protein-coding	16.5	10.0	17.5	227.5	19.5	3.0	3.5	11.5
Merged-chr10-60252753-4	chr10	60252644	60252844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24884.0	NM_001146123	19156.0	Mm.29978	NM_011179	ENSMUSG00000004207	Psap	AI037048|SGP-1	prosaposin	protein-coding	129.0	196.5	169.5	2929.5	448.5	116.5	171.0	182.0
Merged-chr6-57707914-4	chr6	57707815	57708015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133737, intron 1 of 8)	L1_Mur3|LINE|L1	5460.0	NM_133737	71835.0	Mm.274904	NM_133737	ENSMUSG00000062190	Lancl2	1700003F10Rik	LanC (bacterial lantibiotic synthetase component C)-like 2	protein-coding	48.5	57.0	57.0	831.0	115.0	36.0	45.0	37.0
Merged-chr9-104660021-3	chr9	104659940	104660140	+	891.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 1 of 15)	intron (NM_028719, intron 1 of 15)	90557.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	27.0	9.0	27.5	543.0	8.5	3.5	8.0	16.5
Merged-chr16-87695524-3	chr16	87695419	87695619	+	756.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3435.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	6.0	6.5	8.0	138.0	13.0	8.5	16.0	7.5
Merged-chr6-90716487-4	chr6	90716392	90716592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134383)	promoter-TSS (NM_001134383)	37.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	58.5	96.5	98.5	1157.0	156.5	47.0	68.5	88.0
Merged-chr10-82900307-4	chr10	82900199	82900399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	33673.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	64.0	84.0	156.5	1593.5	369.0	107.5	232.0	170.5
Merged-chr14-50871485-1	chr14	50871385	50871585	+	624.0	f1_c57bl6.idr	promoter-TSS (NM_009351)	promoter-TSS (NM_009351)	-931.0	NM_009351	21745.0	Mm.318736	NM_009351	ENSMUSG00000006281	Tep1	Tp1	telomerase associated protein 1	protein-coding	1.0	6.0	2.0	64.5	7.5	5.0	9.5	9.5
Merged-chr3-108444813-2	chr3	108444718	108444918	+	948.75	f0_balb.idr|f0_c57.idr	intron (NM_011319, intron 1 of 11)	CpG	441.0	NM_011319	20226.0	Mm.28688	NM_011319	ENSMUSG00000068739	Sars	Sars1|Strs|serRS	seryl-aminoacyl-tRNA synthetase	protein-coding	18.5	21.0	29.0	209.5	52.5	13.5	28.0	17.0
Merged-chr2-16212965-4	chr2	16212850	16213050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 35 of 38)	intron (NM_001310455, intron 35 of 38)	-143354.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	113.5	200.5	141.0	1434.5	293.5	121.0	150.5	85.5
Merged-chr16-37869388-4	chr16	37869277	37869477	+	938.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177093, intron 1 of 3)	intron (NM_177093, intron 1 of 3)	977.0	NM_177093	320184.0	Mm.390882	NM_177093	ENSMUSG00000034158	Lrrc58	1810012N18Rik|C330018J07Rik	leucine rich repeat containing 58	protein-coding	10.5	24.0	15.0	268.0	34.0	9.5	13.5	24.0
Merged-chr2-127006819-4	chr2	127006701	127006901	+	883.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1910.0	NM_175550	108011.0	Mm.134045	NM_175550	ENSMUSG00000001998	Ap4e1	2310033A20Rik|9930028M04Rik|AV087807	adaptor-related protein complex AP-4, epsilon 1	protein-coding	15.0	13.5	15.0	183.5	37.0	10.5	11.5	20.0
Merged-chr7-83892019-4	chr7	83891922	83892122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023403)	promoter-TSS (NM_023403)	22.0	NM_023403	67943.0	Mm.117365	NM_023403	ENSMUSG00000038503	Mesd	2210015O11Rik|AW537813|Mesdc2|mKIAA0081|mesd|msd	mesoderm development LRP chaperone	protein-coding	238.0	399.5	272.5	3990.0	638.0	244.5	332.0	249.0
Merged-chr9-53603560-4	chr9	53603468	53603668	+	897.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144784, intron 1 of 11)	intron (NM_144784, intron 1 of 11)	6782.0	NM_144784	110446.0	Mm.293233	NM_144784	ENSMUSG00000032047	Acat1	6330585C21Rik|Acat	acetyl-Coenzyme A acetyltransferase 1	protein-coding	16.0	9.0	7.0	205.5	29.5	8.0	12.0	7.5
Merged-chr1-24468601-4	chr1	24468490	24468690	+	741.924988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007733, intron 11 of 50)	intron (NM_007733, intron 11 of 50)	118847.0	NM_007733	12823.0	Mm.329196	NM_007733	ENSMUSG00000026141	Col19a1	-	collagen, type XIX, alpha 1	protein-coding	8.5	19.0	9.0	98.0	29.5	8.5	18.0	9.5
Merged-chr7-67373266-4	chr7	67373161	67373361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291191)	promoter-TSS (NM_001291191)	-403.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	77.5	138.0	70.0	1154.5	232.5	90.0	101.5	54.0
Merged-chr10-17989286-4	chr10	17989198	17989398	+	976.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33792.0	NM_001359560	73112.0	Mm.276041	NM_028440	ENSMUSG00000078453	Abracl	1700028I04Rik|3110003A17Rik	ABRA C-terminal like	protein-coding	23.5	22.5	18.0	359.0	76.0	32.0	32.0	13.5
Merged-chr8-94909087-4	chr8	94908980	94909180	+	814.049988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033533, intron 4 of 8)	intron (NM_001033533, intron 4 of 8)	9018.0	NM_001033533	234582.0	Mm.277871	NM_001033533	ENSMUSG00000063605	Ccdc102a	BC027663|Gm586	coiled-coil domain containing 102A	protein-coding	11.0	14.0	7.5	77.0	16.5	14.5	19.0	16.5
Merged-chr15-74988426-1	chr15	74988326	74988526	+	1000.0	f1_c57bl6.idr	Intergenic	Intergenic	-4996.0	NM_020498	57248.0	Mm.358339	NM_020498	ENSMUSG00000022586	Ly6i	AI789751|Ly-6I|Ly-6M	lymphocyte antigen 6 complex, locus I	protein-coding	8.0	7.0	8.0	105.5	22.5	15.0	6.5	11.5
Merged-chr7-127022227-2	chr7	127022127	127022327	+	868.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_010772)	TTS (NM_010772)	-1016.0	NM_001102563	69017.0	Mm.392047	NM_001102563	ENSMUSG00000045114	Prrt2	1500031I19Rik|AI195361|DSPB3	proline-rich transmembrane protein 2	protein-coding	5.0	4.5	11.5	33.5	14.0	5.5	9.5	4.0
Merged-chr3-152315833-4	chr3	152315691	152315891	+	997.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162375, intron 7 of 13)	intron (NM_001162375, intron 7 of 13)	24616.0	NM_174868	215708.0	Mm.135018	NM_174868	ENSMUSG00000054942	Miga1	A930038D06|AI852168|C030011O14Rik|Fam73a|Mita1	mitoguardin 1	protein-coding	24.0	38.0	17.0	356.5	81.5	23.5	55.5	32.0
Merged-chr4-32229438-3	chr4	32229330	32229530	+	899.744446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-188005.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	10.0	10.0	10.0	124.0	6.0	4.5	4.0	3.0
Merged-chr5-143471729-4	chr5	143471630	143471830	+	763.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144915, intron 2 of 14)	intron (NM_144915, intron 2 of 14)	7237.0	NM_144915	231871.0	Mm.469963	NM_144915	ENSMUSG00000039206	Daglb	E330036I19Rik	diacylglycerol lipase, beta	protein-coding	3.5	15.5	2.0	100.5	17.0	7.0	7.0	5.5
Merged-chr13-19394338-4	chr13	19394227	19394427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347485, intron 1 of 7)	intron (NM_001347485, intron 1 of 7)	1486.0	NM_024270	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	39.5	47.5	24.5	574.0	74.5	22.5	40.0	31.5
Merged-chr1-34851765-4	chr1	34851688	34851888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145516, intron 1 of 7)	intron (NM_145516, intron 1 of 7)	1799.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	40.0	49.0	34.0	581.5	115.0	35.5	43.5	42.5
Merged-chr10-56106838-4	chr10	56106741	56106941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163833)	promoter-TSS (NM_001163833)	-76.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	79.0	162.0	88.0	1688.5	271.0	98.5	87.5	94.5
Merged-chr1-33873772-4	chr1	33873663	33873863	+	983.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 3 of 6)	intron (NM_177235, intron 3 of 6)	33858.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	20.5	16.0	22.0	216.0	28.0	17.0	19.0	20.0
Merged-chr10-116572143-4	chr10	116572029	116572229	+	928.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359563, intron 1 of 13)	intron (NM_001359563, intron 1 of 13)	8407.0	NM_001359250	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	8.0	27.5	7.0	143.5	43.5	13.5	23.5	10.0
Merged-chr7-145030844-4	chr7	145030744	145030944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90919.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	59.0	87.0	74.0	1062.5	135.0	59.5	42.5	84.5
Merged-chr8-120489494-4	chr8	120489361	120489561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198671, intron 1 of 15)	CpG-14576	595.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	45.5	68.5	38.5	562.0	127.5	39.5	42.0	41.0
Merged-chr13-119818029-4	chr13	119817937	119818137	+	983.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	12180.0	NM_001001449	380878.0	Mm.327311	NM_001001449	ENSMUSG00000094237	AF067063	-	cDNA sequence AF067063	protein-coding	29.0	23.5	26.0	368.0	41.5	16.0	20.5	25.0
Merged-chr12-112693635-4	chr12	112693519	112693719	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	14779.0	NM_001100460	382639.0	Mm.11350	NM_001100460	ENSMUSG00000037638	Zbtb42	EG382639|Gm5188|simiRP58	zinc finger and BTB domain containing 42	protein-coding	187.5	250.0	150.5	2306.5	387.0	163.5	159.5	152.5
Merged-chr8-77444887-4	chr8	77444698	77444898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 3 of 22)	intron (NM_030113, intron 3 of 22)	-72258.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	17.0	23.5	43.5	429.5	42.5	24.0	35.0	24.0
Merged-chr14-51063916-4	chr14	51063836	51064036	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Leu-CTY|tRNA|tRNA	-6694.0	NM_001011875	497106.0	Mm.379740	NM_001011875	ENSMUSG00000068407	Rnase12	Rai1	ribonuclease, RNase A family, 12 (non-active)	protein-coding	34.0	53.0	13.5	277.5	100.0	18.5	24.5	22.5
Merged-chr13-63702102-4	chr13	63702047	63702247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126476, intron 4 of 4)	intron (NR_126476, intron 4 of 4)	32151.0	NR_126476	75522.0	Mm.54259	NR_126476	ENSMUSG00000113825	1700024I08Rik	-	RIKEN cDNA 1700024I08 gene	ncRNA	49.5	133.0	62.0	1035.0	254.0	73.5	84.0	83.0
Merged-chr6-112091118-6	chr6	112091054	112091254	+	954.0277710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119554.0	NR_027865	67336.0	Mm.378014	NR_027865	ENSMUSG00000100219	1700054K19Rik	-	RIKEN cDNA 1700054K19 gene	ncRNA	14.0	19.0	18.0	437.5	14.0	6.0	12.5	16.5
Merged-chr9-95548870-2	chr9	95548770	95548970	+	665.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-10947.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	4.5	2.0	1.0	67.5	17.5	4.5	6.5	5.5
Merged-chr16-92670501-3	chr16	92670399	92670599	+	843.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 4 of 6)	intron (NM_001111022, intron 4 of 6)	26830.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	6.0	10.5	4.5	74.0	17.5	5.0	4.5	8.0
Merged-chr11-21011014-1	chr11	21010914	21011114	+	704.0	f0_balb.idr	Intergenic	Intergenic	-80310.0	NM_023324	67245.0	Mm.28957	NM_023324	ENSMUSG00000020134	Peli1	2810468L03Rik|A930031K15Rik|AA409794|AI586297|D11Ertd676e	pellino 1	protein-coding	5.0	8.5	8.0	111.5	8.0	0.5	5.5	3.0
Merged-chr11-116811837-4	chr11	116811719	116811919	+	980.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347633, intron 3 of 4)	intron (NM_001347633, intron 3 of 4)	16227.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	18.0	29.5	8.5	298.5	35.5	21.0	13.5	8.0
Merged-chr4-119968242-7	chr4	119968104	119968304	+	915.9428710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 1 of 8)	intron (NM_010657, intron 1 of 8)	153526.0	NM_010657	16656.0	Mm.302758	NM_010657	ENSMUSG00000028634	Hivep3	2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3	human immunodeficiency virus type I enhancer binding protein 3	protein-coding	10.0	15.5	12.5	91.5	18.0	11.5	8.0	12.0
Merged-chr12-52624856-4	chr12	52624756	52624956	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-22534.0	NR_045910	73278.0	Mm.396209	NR_045910	ENSMUSG00000100315	1700031P21Rik	-	RIKEN cDNA 1700031P21 gene	ncRNA	18.5	18.0	12.0	269.5	97.0	25.5	34.5	47.5
Merged-chr10-19012057-6	chr10	19011803	19012003	+	965.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166402)	promoter-TSS (NM_001166402)	60.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	18.0	30.5	8.0	60.0	46.0	34.0	18.5	19.0
Merged-chr14-122223861-4	chr14	122223759	122223959	+	949.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029556, intron 1 of 7)	intron (NM_029556, intron 1 of 7)	9779.0	NR_015532	68245.0	Mm.443285	NR_015532	ENSMUSG00000100585	1700108J01Rik	-	RIKEN cDNA 1700108J01 gene	ncRNA	17.5	24.5	33.0	254.5	27.0	19.0	24.0	14.5
Merged-chr11-58301221-4	chr11	58301082	58301282	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5887.0	NM_182996	103836.0	Mm.41440	NM_182996	ENSMUSG00000037243	Zfp692	AI746306|AI839920|Zfp692-ps|Znf692	zinc finger protein 692	protein-coding	26.5	46.0	12.0	273.0	9.0	2.0	9.0	8.0
Merged-chr2-90655671-4	chr2	90655564	90655764	+	891.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21551.0	NM_021512	59015.0	Mm.24532	NM_021512	ENSMUSG00000051329	Nup160	160kDa|2810011M03Rik|AA414952|AU020188|Gtl-13|Gtl1-13|Gtl13|mKIAA0197	nucleoporin 160	protein-coding	15.0	19.0	10.0	242.0	21.0	20.0	11.5	19.5
Merged-chr3-88552237-3	chr3	88552141	88552341	+	898.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001362368)	TTS (NM_001362368)	710.0	NR_155543	83409.0	Mm.41680	NM_031248	ENSMUSG00000028062	Lamtor2	2010111E04Rik|AL022628|Mapbpip|P14|Rab25|Robld3	late endosomal/lysosomal adaptor, MAPK and MTOR activator 2	protein-coding	9.0	15.5	7.0	86.0	10.0	1.0	5.5	6.5
Merged-chr9-123366884-4	chr9	123366791	123366991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348167)	promoter-TSS (NM_001348167)	-36.0	NM_001348167	102436.0	Mm.276076	NM_153168	ENSMUSG00000035202	Lars2	AI035546|Kiaa0028|LEURS	leucyl-tRNA synthetase, mitochondrial	protein-coding	80.5	118.0	60.0	1198.5	235.5	83.0	101.5	101.5
Merged-chr5-32112709-4	chr5	32112616	32112816	+	995.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23756.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	17.0	30.0	12.5	165.5	108.5	48.0	62.5	45.5
Merged-chr5-3247495-4	chr5	3247377	3247577	+	893.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96416.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	9.0	9.5	17.5	305.0	37.5	12.5	12.0	7.0
Merged-chr5-115158350-4	chr5	115158290	115158490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175403)	promoter-TSS (NM_175403)	-214.0	NM_175403	109154.0	Mm.153963	NM_175403	ENSMUSG00000048578	Mlec	2410014A08Rik|AI850530|ESTM19|X83352|mKIAA0152	malectin	protein-coding	218.0	392.5	308.0	2665.0	637.0	262.5	296.5	230.5
Merged-chr17-11353000-3	chr17	11352888	11353088	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 4 of 6)	MLTR25A|LTR|ERVK	512629.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	17.0	8.0	23.0	430.0	14.5	1.0	9.5	8.5
Merged-chr1-178492662-3	chr1	178492578	178492778	+	876.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36447.0	NM_001161665	269152.0	Mm.129727	NM_177724	ENSMUSG00000026494	Kif26b	4832420M10|BC056349|D230039L06Rik	kinesin family member 26B	protein-coding	6.5	4.0	10.0	102.5	7.0	8.0	6.0	6.5
Merged-chr8-117345327-4	chr8	117345177	117345377	+	757.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-3893.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	6.0	5.5	5.5	65.5	14.0	6.0	5.0	2.5
Merged-chr13-48625662-4	chr13	48625558	48625758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301781)	promoter-TSS (NM_001301781)	14.0	NM_207232	218232.0	Mm.315089	NM_207232	ENSMUSG00000038042	Ptpdc1	AI843923|AW456874|Naa-1|Ptpcd1	protein tyrosine phosphatase domain containing 1	protein-coding	221.5	290.0	145.5	2386.5	550.5	196.0	244.5	178.5
Merged-chr12-84031080-4	chr12	84030985	84031185	+	995.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7294.0	NM_134247	171282.0	Mm.482217	NM_134247	ENSMUSG00000052392	Acot4	B430212I04Rik|PTE-Ib|Pte1b|Pte2b	acyl-CoA thioesterase 4	protein-coding	28.0	22.0	22.5	224.5	61.5	18.0	21.0	20.5
Merged-chr1-82946130-2	chr1	82946030	82946230	+	890.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92318.0	NM_030556	80721.0	Mm.261542	NM_030556	ENSMUSG00000038496	Slc19a3	A230084E24Rik|AI788884|ThTr2	solute carrier family 19, member 3	protein-coding	5.5	7.5	6.0	21.5	3.5	2.0	2.5	3.0
Merged-chr15-59737397-4	chr15	59737302	59737502	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57557.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	27.5	101.0	24.5	247.0	105.5	32.0	18.0	38.0
Merged-chr10-25410962-4	chr10	25410854	25411054	+	798.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013511, intron 1 of 19)	intron (NM_013511, intron 1 of 19)	2586.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	15.5	10.5	9.5	58.0	33.5	10.5	10.0	6.5
Merged-chr12-8306709-6	chr12	8306666	8306866	+	681.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4812.0	NM_013527	238057.0	Mm.271308	NM_013527	ENSMUSG00000037660	Gdf7	BMP12	growth differentiation factor 7	protein-coding	5.5	10.5	5.0	75.5	22.5	8.0	11.5	6.5
Merged-chr8-109778531-4	chr8	109778429	109778629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009677)	promoter-TSS (NM_009677)	-54.0	NM_009677	11765.0	Mm.37210	NM_009677	ENSMUSG00000031731	Ap1g1	AA409002|AU041323|AW551707|Adtg|D8Ertd374e	adaptor protein complex AP-1, gamma 1 subunit	protein-coding	126.5	220.0	115.5	1990.0	282.5	105.5	174.0	112.0
Merged-chr10-128547847-4	chr10	128547746	128547946	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134003)	promoter-TSS (NM_134003)	-102.0	NM_134003	103284.0	Mm.68289	NM_134003	ENSMUSG00000039810	Zc3h10	AI790326	zinc finger CCCH type containing 10	protein-coding	160.0	274.5	168.5	2522.0	452.5	179.5	210.5	240.0
Merged-chr7-145034207-3	chr7	145034098	145034298	+	868.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR9D|LTR|ERVK	-94273.0	NM_007631	12443.0	Mm.273049	NM_007631	ENSMUSG00000070348	Ccnd1	AI327039|CycD1|Cyl-1|PRAD1|bcl-1|cD1	cyclin D1	protein-coding	9.5	9.0	2.0	117.0	18.5	7.5	6.5	8.5
Merged-chr19-8807032-4	chr19	8806939	8807139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4509.0	NM_001098237	75291.0	Mm.23423	NM_133759	ENSMUSG00000071661	Zbtb3	4930563M09Rik	zinc finger and BTB domain containing 3	protein-coding	35.0	47.0	37.0	594.5	82.5	28.0	43.0	38.0
Merged-chr13-113491109-1	chr13	113491009	113491209	+	604.0	f0_c57.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	11735.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	8.5	7.0	10.0	104.0	36.0	11.5	6.5	7.5
Merged-chr11-54257160-3	chr11	54257067	54257267	+	820.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7268.0	NM_009969	12981.0	Mm.4922	NM_009969	ENSMUSG00000018916	Csf2	CSF|Csfgm|GMCSF|Gm-CSf|MGI-IGM	colony stimulating factor 2 (granulocyte-macrophage)	protein-coding	8.0	13.5	3.0	83.5	18.5	6.0	7.0	7.5
Merged-chr5-67846483-4	chr5	67846341	67846541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038999, intron 1 of 36)	intron (NM_001038999, intron 1 of 36)	990.0	NM_009727	11980.0	Mm.153230	NM_009727	ENSMUSG00000037685	Atp8a1	AI481521|AI853962|APLT|AW743152|AW822227|Atp3a2|B230107D19Rik|ClassI	ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1	protein-coding	30.5	37.5	30.0	448.5	64.0	18.0	33.5	26.0
Merged-chr7-72260981-3	chr7	72260944	72261144	+	829.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024703, intron 1 of 22)	Lx7|LINE|L1	45551.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	18.0	6.0	11.0	168.5	5.0	1.0	1.5	4.0
Merged-chr7-16102681-2	chr7	16102581	16102781	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025898, intron 1 of 10)	intron (NM_025898, intron 1 of 10)	4101.0	NM_025898	108124.0	Mm.104540	NM_025898	ENSMUSG00000006024	Napa	1500039N14Rik|AW209189|RA81|SNAP-alpha|SNAPA|SNARE|a-SNAP|hyh	N-ethylmaleimide sensitive fusion protein attachment protein alpha	protein-coding	5.0	14.5	5.0	34.5	8.0	8.5	2.5	8.0
Merged-chr10-24712053-4	chr10	24711945	24712145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008813, exon 1 of 25)	5' UTR (NM_008813, exon 1 of 25)	114.0	NM_001308327	18605.0	Mm.27254	NM_008813	ENSMUSG00000037370	Enpp1	4833416E15Rik|AI428932|C76301|CD203c|E-NPP 1|E-NPP1|Ly-41|M6S1|NPP1|Npps|PC-1|Pca|Pca-1|Pdnp1|ttw|twy	ectonucleotide pyrophosphatase/phosphodiesterase 1	protein-coding	66.5	74.5	78.5	1175.5	112.0	61.0	53.0	57.0
Merged-chr13-20798689-4	chr13	20798598	20798798	+	784.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012054, intron 1 of 20)	intron (NM_012054, intron 1 of 20)	4585.0	NM_012054	27052.0	Mm.314046	NM_012054	ENSMUSG00000021322	Aoah	4930433E13Rik	acyloxyacyl hydrolase	protein-coding	6.0	5.5	6.0	90.0	40.0	15.0	10.0	10.0
Merged-chr6-114644732-4	chr6	114644623	114644823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028835, intron 1 of 18)	intron (NM_028835, intron 1 of 18)	1626.0	NM_001253718	74244.0	Mm.275332	NM_028835	ENSMUSG00000030314	Atg7	1810013K23Rik|Agp7|Apg7l|Atg7l|Gm21553	autophagy related 7	protein-coding	69.5	104.5	53.0	955.0	175.0	55.0	79.0	65.5
Merged-chr4-152171725-3	chr4	152171627	152171827	+	792.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-6373.0	NM_133348	70025.0	Mm.296191	NM_133348	ENSMUSG00000028937	Acot7	2410041A17Rik|Ach1|Act|Bach|CTE-IIa|Cte-II|Lach1	acyl-CoA thioesterase 7	protein-coding	3.0	14.0	2.5	94.0	10.0	6.0	8.0	7.0
Merged-chr17-88509293-4	chr17	88509203	88509403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20821.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	248.0	414.0	281.0	3617.0	427.0	194.0	209.5	188.5
Merged-chr4-117677076-2	chr4	117676976	117677176	+	778.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_023178, intron 4 of 10)	intron (NM_023178, intron 4 of 10)	5149.0	NM_023178	66233.0	Mm.29142	NM_023178	ENSMUSG00000009640	Dmap1	1500016M21Rik|DNMAP1|DNMTAP1|Dmtap1|mKIAA1425	DNA methyltransferase 1-associated protein 1	protein-coding	3.5	11.5	2.5	38.5	16.5	8.0	12.0	10.0
Merged-chr12-69924243-3	chr12	69924147	69924347	+	708.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178628, intron 2 of 14)	PB1D10|SINE|Alu	-31084.0	NM_201519	399510.0	Mm.291936	NM_201519	ENSMUSG00000034761	Map4k5	4432415E19Rik|GCKR|KHS|MAPKKKK5	mitogen-activated protein kinase kinase kinase kinase 5	protein-coding	9.0	14.0	6.0	51.5	18.5	4.0	12.0	4.0
Merged-chr7-126776883-4	chr7	126776785	126776985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026875)	promoter-TSS (NM_026875)	-90.0	NM_026875	66090.0	Mm.27114	NM_025347	ENSMUSG00000042675	Ypel3	0610043B10Rik|1190001G19Rik|Suap	yippee like 3	protein-coding	145.5	245.5	144.0	2288.0	353.0	129.0	181.5	138.0
Merged-chr3-144825363-4	chr3	144825261	144825461	+	868.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_139148, exon 13 of 14)	exon (NM_139148, exon 13 of 14)	-5867.0	NM_030601	80797.0	Mm.20897	NM_030601	ENSMUSG00000028262	Clca3a2	Clca2	chloride channel accessory 3A2	protein-coding	6.0	21.0	14.5	197.5	23.5	5.0	16.5	9.0
Merged-chr11-34060193-4	chr11	34060082	34060282	+	679.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	intron (NM_010696, intron 3 of 20)	13254.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	8.5	12.5	11.5	79.5	26.5	5.5	10.0	15.5
Merged-chr13-100600568-4	chr13	100600449	100600649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178410, exon 4 of 6)	exon (NM_178410, exon 4 of 6)	16395.0	NM_178410	218518.0	Mm.25300	NM_178410	ENSMUSG00000021636	Marveld2	BC003296|MARVD2|Mrvldc2|Tric|Trica|Tricb|Tricc	MARVEL (membrane-associating) domain containing 2	protein-coding	55.5	29.5	26.5	542.0	101.5	27.0	42.0	36.0
Merged-chr6-57851339-4	chr6	57851224	57851424	+	841.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(GAA)n|Simple_repeat|Simple_repeat	-6867.0	NM_134183	171201.0	Mm.377179	NM_134183	ENSMUSG00000115343	Vmn1r21	V1rc28	vomeronasal 1 receptor 21	protein-coding	8.5	19.0	9.5	103.0	37.5	12.5	5.0	9.5
Merged-chr3-54316977-3	chr3	54316854	54317054	+	819.68335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253682, intron 10 of 11)	intron (NM_001253682, intron 10 of 11)	-44153.0	NM_001198766	50706.0	Mm.236067	NM_015784	ENSMUSG00000027750	Postn	A630052E07Rik|AI747096|OSF-2|Osf2|PLF|PN	periostin, osteoblast specific factor	protein-coding	9.5	17.0	8.0	125.0	13.5	8.0	14.5	9.5
Merged-chr12-85729575-4	chr12	85729479	85729679	+	910.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16960.0	NM_145447	217721.0	Mm.301076	NM_145447	ENSMUSG00000034258	Flvcr2	CCT|Mfsd7c	feline leukemia virus subgroup C cellular receptor 2	protein-coding	15.0	25.0	8.0	168.5	45.0	16.0	10.5	14.0
Merged-chr4-3646228-4	chr4	3646150	3646350	+	861.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-10256.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	8.5	8.0	12.5	142.5	17.5	4.0	8.5	10.0
Merged-chr12-40018284-4	chr12	40018174	40018374	+	999.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TCTCCC)n|Simple_repeat|Simple_repeat	19102.0	NM_007487	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	24.5	35.5	24.0	279.0	76.0	23.0	25.0	14.5
Merged-chr17-5569786-4	chr17	5569706	5569906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	77206.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	50.0	34.5	30.5	501.5	83.0	37.0	34.0	37.0
Merged-chr1-132312303-3	chr1	132312201	132312401	+	901.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3824.0	NM_001195025	74137.0	Mm.100666	NM_028778	ENSMUSG00000009772	Nuak2	1200013B22Rik|Omphk2|Snark|mKIAA0537	NUAK family, SNF1-like kinase, 2	protein-coding	7.5	10.0	11.0	98.0	12.0	2.5	6.0	9.0
Merged-chr17-27857154-4	chr17	27857026	27857226	+	978.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080769, intron 1 of 20)	CpG	619.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	19.5	32.5	21.0	288.5	58.5	19.0	11.5	14.0
Merged-chr17-27908772-6	chr17	27908658	27908858	+	897.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286040)	promoter-TSS (NM_001286040)	484.0	NM_026836	68776.0	Mm.267998	NM_026836	ENSMUSG00000024218	Taf11	1110038O14Rik|AI115401|AL024207|AW552398|PRO214|TAF2I|TAFII28	TATA-box binding protein associated factor 11	protein-coding	10.5	18.5	7.5	148.5	21.5	9.0	5.5	10.5
Merged-chr3-100442680-4	chr3	100442594	100442794	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	16289.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	55.5	56.0	53.5	1142.5	190.5	50.5	75.0	90.0
Merged-chr15-5414602-4	chr15	5414513	5414713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81705.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	75.5	121.0	67.5	1331.0	213.5	62.0	83.0	63.0
Merged-chr11-54972186-2	chr11	54972086	54972286	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9246.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	4.0	18.0	5.5	49.5	18.0	8.0	14.5	8.5
Merged-chr4-155562242-5	chr4	155562075	155562275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138671)	promoter-TSS (NM_138671)	-206.0	NM_138671	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	37.5	73.0	81.0	524.5	170.0	60.5	34.5	84.0
Merged-chr18-34861138-10	chr18	34861005	34861205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007913)	promoter-TSS (NM_007913)	-102.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	176.0	375.0	167.5	1905.5	550.0	307.0	252.5	269.0
Merged-chr13-112012859-3	chr13	112012764	112012964	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	144928.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	42.0	26.5	41.5	810.0	13.5	1.5	3.0	5.0
Merged-chr6-113663500-4	chr6	113663379	113663579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 2 of 11)	intron (NM_001113553, intron 2 of 11)	25012.0	NM_001113553	108960.0	Mm.152142	NM_172161	ENSMUSG00000060477	Irak2	6330415L08Rik|AI649099|IRAK-2	interleukin-1 receptor-associated kinase 2	protein-coding	72.0	111.5	56.0	885.0	173.5	67.0	68.0	69.0
Merged-chr8-22928771-4	chr8	22928647	22928847	+	915.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081149, intron 13 of 17)	intron (NM_001081149, intron 13 of 17)	-46089.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	12.5	11.0	11.5	269.0	18.5	12.0	14.0	13.0
Merged-chr9-21528074-4	chr9	21527964	21528164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198794, intron 1 of 6)	L2b|LINE|L2	1887.0	NM_206536	382062.0	Mm.325205	NM_206536	ENSMUSG00000057191	AB124611	Gm1706	cDNA sequence AB124611	protein-coding	233.0	305.5	194.5	3243.0	351.0	138.0	185.5	146.5
Merged-chr3-107696636-4	chr3	107696554	107696754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357112)	promoter-TSS (NM_001357112)	-94.0	NM_145542	229709.0	Mm.220328	NM_145542	ENSMUSG00000027893	Ahcyl1	1110034F20Rik|AA409031|AA414901|Ahcy-rs3|DCAL|Irbit	S-adenosylhomocysteine hydrolase-like 1	protein-coding	176.0	286.5	173.0	3024.5	522.0	153.5	224.0	240.5
Merged-chr1-16618026-8	chr1	16617925	16618125	+	985.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271016, intron 1 of 6)	intron (NM_001271016, intron 1 of 6)	1313.0	NM_025773	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	18.5	9.5	24.0	186.5	33.5	16.0	12.5	24.0
Merged-chr7-80369182-4	chr7	80369046	80369246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172903, intron 3 of 23)	MER117|DNA|hAT-Charlie	2229.0	NM_172903	140481.0	Mm.269245	NM_172903	ENSMUSG00000038886	Man2a2	1700052O22Rik|4931438M07Rik|AI480988|MX|Man IIx	mannosidase 2, alpha 2	protein-coding	48.0	38.0	55.0	586.5	72.0	25.5	37.0	41.0
Merged-chr2-69861166-4	chr2	69861053	69861253	+	981.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355265)	promoter-TSS (NM_001355265)	-409.0	NM_001110145	20823.0	Mm.10508	NM_009278	ENSMUSG00000068882	Ssb	SS-B	Sjogren syndrome antigen B	protein-coding	27.0	17.0	37.5	430.0	51.0	6.5	26.5	36.0
Merged-chr7-83879535-4	chr7	83879428	83879628	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030705)	TTS (NM_030705)	4813.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	14.5	27.0	33.5	454.5	72.5	32.0	30.0	26.5
Merged-chr5-99361961-4	chr5	99361886	99362086	+	875.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-109059.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	15.5	6.0	8.5	243.5	34.0	7.0	10.0	7.0
Merged-chr17-28702869-4	chr17	28702779	28702979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	10311.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	45.0	56.5	57.0	842.5	54.0	18.5	19.5	29.5
Merged-chr6-86548118-4	chr6	86548000	86548200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037961, intron 3 of 4)	intron (NR_037961, intron 3 of 4)	20699.0	NR_037961	72012.0	Mm.349174	NR_037960	ENSMUSG00000097048	1600020E01Rik	-	RIKEN cDNA 1600020E01 gene	ncRNA	26.5	37.5	23.0	171.0	126.5	33.0	29.0	31.0
Merged-chr2-27426547-3	chr2	27426478	27426678	+	946.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_133905, exon 1 of 30)	non-coding (NR_133905, exon 1 of 30)	1030.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	12.0	27.0	12.0	152.5	34.0	18.5	19.0	13.5
Merged-chr15-25553231-4	chr15	25553114	25553314	+	938.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69336.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	30.5	46.0	42.5	275.5	60.0	16.5	19.5	15.5
Merged-chr9-22394958-4	chr9	22394851	22395051	+	815.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-5745.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	15.5	14.0	17.5	119.5	52.0	13.5	16.0	19.5
Merged-chr9-13495742-3	chr9	13495646	13495846	+	898.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64385.0	NR_028271	18689.0	Mm.41972	NM_008835	ENSMUSG00000031802	Phxr4	Sp5	per-hexamer repeat gene 4	ncRNA	14.5	20.0	18.0	357.0	9.5	7.0	8.0	6.0
Merged-chr7-4151806-2	chr7	4151706	4151906	+	852.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_021454, intron 2 of 2)	intron (NM_021454, intron 2 of 2)	-1934.0	NM_175529	243813.0	Mm.347643	NM_175529	ENSMUSG00000043432	Leng9	9530024C23Rik|F630035L11Rik	leukocyte receptor cluster (LRC) member 9	protein-coding	7.5	2.0	2.0	38.0	12.5	7.0	5.5	8.0
Merged-chr13-46180891-4	chr13	46180798	46180998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92823.0	NM_001005422	380842.0	Mm.188108	NM_001005422	ENSMUSG00000063529	Stmnd1	Gm1574	stathmin domain containing 1	protein-coding	29.5	52.5	26.0	427.5	43.5	14.5	29.0	16.0
Merged-chr6-115668245-4	chr6	115668122	115668322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029780, intron 1 of 16)	ORR1E|LTR|ERVL-MaLR	7666.0	NM_001356334	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	61.0	138.5	58.0	799.5	117.0	61.5	39.0	28.5
Merged-chr15-91290735-3	chr15	91290629	91290829	+	818.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033633, intron 7 of 9)	intron (NM_001033633, intron 7 of 9)	-98722.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	4.5	5.0	7.5	80.0	9.5	9.5	12.0	2.5
Merged-chr3-40531029-4	chr3	40530927	40531127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8115.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	17.0	32.0	30.0	340.5	129.5	62.5	58.5	50.5
Merged-chr11-79253367-4	chr11	79253273	79253473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019653, intron 1 of 8)	intron (NM_019653, intron 1 of 8)	1322.0	NM_019653	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	50.0	99.5	41.0	595.5	166.0	49.5	45.0	44.0
Merged-chr7-88117209-3	chr7	88117123	88117323	+	957.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143834, intron 10 of 10)	intron (NM_001143834, intron 10 of 10)	-160862.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	10.5	18.0	15.0	395.5	17.5	0.5	9.5	14.5
Merged-chr16-24933914-4	chr16	24933814	24934014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 10 of 12)	intron (NM_178665, intron 10 of 12)	-125725.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	89.5	123.5	67.0	883.0	177.5	76.5	93.5	69.0
Merged-chr7-27196329-4	chr7	27196219	27196419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015782)	promoter-TSS (NM_015782)	-48.0	NM_001285825	53607.0	Mm.386890	NM_015782	ENSMUSG00000061479	Snrpa	C430021M15Rik|Rnu1a-1|Rnu1a1|U1-A|U1A	small nuclear ribonucleoprotein polypeptide A	protein-coding	208.5	355.5	248.0	3036.0	609.0	276.0	255.5	236.0
Merged-chr2-22816466-4	chr2	22816358	22816558	+	788.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	ORR1E|LTR|ERVL-MaLR	42131.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	8.0	11.0	5.5	136.5	20.5	11.5	14.5	18.0
Merged-chr9-111074134-4	chr9	111074024	111074224	+	957.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-16606.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	4.0	25.0	7.0	222.5	41.0	13.5	21.0	11.0
Merged-chr1-165663917-4	chr1	165663825	165664025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178593, intron 2 of 6)	intron (NM_178593, intron 2 of 6)	-29384.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	28.5	39.5	30.0	613.5	95.0	37.5	33.0	35.0
Merged-chr19-6126409-2	chr19	6126309	6126509	+	863.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026912, intron 1 of 7)	B3|SINE|B2	1806.0	NM_026912	69024.0	Mm.329629	NM_026912	ENSMUSG00000024787	Snx15	1500032B08Rik|E130013C21Rik	sorting nexin 15	protein-coding	1.0	7.0	3.0	29.0	11.5	4.5	9.0	8.0
Merged-chr2-68796217-4	chr2	68796115	68796315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65226.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	54.0	91.5	56.0	824.0	133.0	48.0	39.5	35.5
Merged-chr10-61706646-4	chr10	61706533	61706733	+	948.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-8630.0	NM_178058	71361.0	Mm.286309	NM_153779	ENSMUSG00000020085	Aifm2	5430437E11Rik|Amid|D730001I10Rik|PRG3	apoptosis-inducing factor, mitochondrion-associated 2	protein-coding	5.5	29.5	19.5	140.5	34.0	9.5	19.5	13.5
Merged-chr15-84988079-4	chr15	84987985	84988185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033273)	promoter-TSS (NM_001033273)	-114.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	164.0	243.5	140.5	1850.0	399.0	137.0	168.0	183.0
Merged-chr12-86884134-4	chr12	86884050	86884250	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145836, exon 1 of 1)	5' UTR (NM_145836, exon 1 of 1)	664.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	11.0	20.0	15.5	169.5	42.0	19.0	15.0	19.0
Merged-chr15-12312070-4	chr15	12311977	12312177	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9419.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	13.5	43.0	15.5	236.5	39.0	11.5	9.5	8.0
Merged-chr10-37259262-4	chr10	37259152	37259352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120326.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	33.0	66.0	44.5	627.0	117.0	36.0	39.0	20.5
Merged-chr5-23415963-4	chr5	23415878	23416078	+	796.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18375.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	9.0	9.0	3.5	122.0	25.0	12.0	15.0	11.0
Merged-chr8-108574333-4	chr8	108574264	108574464	+	844.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_077224, intron 1 of 1)	intron (NR_077224, intron 1 of 1)	10313.0	NR_077224	109215.0	Mm.65282	NR_077224	ENSMUSG00000110613	Lncbate1	3010033K07Rik|Lnc-BATE1	brown adipose tissue enriched long non-coding RNA 1	ncRNA	9.0	10.0	4.5	166.5	22.0	3.5	7.0	12.5
Merged-chr19-56546186-2	chr19	56546086	56546286	+	836.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_153440, intron 2 of 9)	intron (NR_153440, intron 2 of 9)	1936.0	NM_001360437	55947.0	Mm.2805	NM_018831	ENSMUSG00000025077	Dclre1a	2810043H12Rik|AU022226|Pso2|Smn1a|Snm1|mKIAA0086	DNA cross-link repair 1A	protein-coding	5.0	12.0	2.0	49.0	8.0	7.0	5.5	11.0
Merged-chr14-70054349-4	chr14	70054258	70054458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028560, intron 6 of 6)	intron (NM_028560, intron 6 of 6)	-23087.0	NM_018781	13655.0	Mm.103737	NM_018781	ENSMUSG00000033730	Egr3	Pilot	early growth response 3	protein-coding	80.5	158.5	115.5	1190.0	184.0	76.0	110.0	85.0
Merged-chr3-142474624-4	chr3	142474521	142474721	+	840.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22313.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	11.5	11.5	6.0	122.5	21.5	11.5	8.5	8.5
Merged-chr2-124608846-4	chr2	124608761	124608961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 5 of 20)	intron (NM_001290997, intron 5 of 20)	-1435.0	NM_199238	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	100.0	106.0	118.5	1512.0	181.0	57.0	139.5	100.0
Merged-chr13-111655465-4	chr13	111655377	111655577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30701.0	NM_172593	218613.0	Mm.31012	NM_172593	ENSMUSG00000032727	Mier3	5730509D14|AU015422|D130064H19Rik	MIER family member 3	protein-coding	35.5	56.0	51.5	894.0	92.0	26.0	33.5	41.5
Merged-chr14-8080304-4	chr14	8080215	8080415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001348727)	promoter-TSS (NM_001348727)	2.0	NM_025938	67053.0	Mm.210048	NM_025938	ENSMUSG00000023156	Rpp14	2610511E03Rik|AA682089	ribonuclease P 14 subunit	protein-coding	89.0	118.5	73.0	1100.0	184.0	78.5	79.0	83.0
Merged-chr19-24703850-1	chr19	24703750	24703950	+	901.0	f0_balb.idr	intron (NM_175013, intron 10 of 10)	L3b|LINE|CR1	29842.0	NM_183160	226040.0	Mm.391170	NM_183160	ENSMUSG00000048572	Tmem252	E030010A14Rik	transmembrane protein 252	protein-coding	11.5	4.5	14.0	220.5	4.0	0.0	1.0	0.0
Merged-chr1-71730381-3	chr1	71730288	71730488	+	945.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77053.0	NR_040308	100042814.0	Mm.405775	NR_040308	ENSMUSG00000073652	Apol7d	Gm15456	apolipoprotein L 7d	ncRNA	10.0	15.0	12.5	161.0	27.0	10.5	6.0	9.5
Merged-chr7-133047466-4	chr7	133047382	133047582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	-32235.0	NM_001170744	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	31.5	44.5	37.5	672.0	95.5	33.0	82.0	35.5
Merged-chr6-15463590-4	chr6	15463494	15463694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-257067.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	37.0	49.5	20.5	548.0	87.0	28.0	35.5	38.5
Merged-chr4-15945385-4	chr4	15945258	15945458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026172, exon 1 of 10)	5' UTR (NM_026172, exon 1 of 10)	149.0	NM_026172	67460.0	Mm.393293	NM_026172	ENSMUSG00000028223	Decr1	1200012F07Rik|Decr|Nadph	2,4-dienoyl CoA reductase 1, mitochondrial	protein-coding	55.5	74.0	66.5	1226.0	95.0	40.0	64.0	32.5
Merged-chr16-20085433-3	chr16	20085331	20085531	+	654.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12123.0	NM_029436	75785.0	Mm.392450	NM_029436	ENSMUSG00000062901	Klhl24	1110046J11Rik|4930429H24Rik|6530402O20Rik|C85082	kelch-like 24	protein-coding	4.5	7.0	7.5	131.0	7.0	14.0	1.5	7.5
Merged-chr6-65144255-2	chr6	65144155	65144355	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 1 of 5)	(CA)n|Simple_repeat|Simple_repeat	475.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	12.0	10.5	5.5	164.0	31.5	6.0	7.0	17.5
Merged-chr3-96594199-4	chr3	96594101	96594301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293701)	promoter-TSS (NM_001293701)	-20.0	NM_001293701	69870.0	Mm.292739	NM_027241	ENSMUSG00000028104	Polr3gl	2010003I19Rik	polymerase (RNA) III (DNA directed) polypeptide G like	protein-coding	74.5	114.0	47.5	914.0	163.0	65.0	79.0	72.5
Merged-chr16-16042267-4	chr16	16042147	16042347	+	944.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 6 of 18)	Lx2|LINE|L1	104604.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	23.0	39.0	24.5	115.0	65.5	26.5	24.0	16.0
Merged-chr19-56069100-4	chr19	56069001	56069201	+	851.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	173780.0	NM_001142924	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	13.0	12.5	14.0	173.0	27.0	8.5	10.0	8.0
Merged-chr10-80104417-2	chr10	80104317	80104517	+	717.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-1715.0	NM_001359637	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	2.5	4.5	2.0	20.5	14.5	6.0	5.0	12.5
Merged-chr14-26579960-3	chr14	26579857	26580057	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145969, intron 1 of 17)	CpG	407.0	NM_145969	211922.0	Mm.260512	NM_145969	ENSMUSG00000040818	Dennd6a	Fam116a	DENN/MADD domain containing 6A	protein-coding	29.5	53.0	44.5	679.0	115.0	26.5	52.0	68.0
Merged-chr5-137628094-4	chr5	137628014	137628214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1009.0	NM_001168652	231798.0	Mm.200763	NM_146164	ENSMUSG00000093445	Lrch4	2810008P14Rik|2900069C24Rik|AI558103|LRN|LRRN4|SAP25|mFLJ00248	leucine-rich repeats and calponin homology (CH) domain containing 4	protein-coding	42.5	81.5	39.5	438.0	101.5	32.5	34.5	27.0
Merged-chr1-16518878-4	chr1	16518910	16519110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347044, exon 1 of 14)	5' UTR (NM_001347044, exon 1 of 14)	105.0	NM_001347044	29819.0	Mm.216257	NM_025303	ENSMUSG00000025920	Stau2	-	staufen double-stranded RNA binding protein 2	protein-coding	18.5	29.0	27.5	364.0	53.0	20.0	22.0	28.5
Merged-chr7-135871172-4	chr7	135871051	135871251	+	918.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-154772.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	22.0	23.0	15.5	220.0	26.0	8.0	16.5	19.0
Merged-chr9-38718293-4	chr9	38718190	38718390	+	969.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172767)	promoter-TSS (NM_172767)	22.0	NM_172767	67776.0	Mm.290950	NM_172767	ENSMUSG00000023186	Vwa5a	5830475I06Rik|AW552491|BCSC-1|E130119J22|Loh11cr2a	von Willebrand factor A domain containing 5A	protein-coding	13.5	13.5	15.5	346.0	43.0	23.5	29.5	26.0
Merged-chr6-17463719-7	chr6	17463622	17463822	+	908.507935	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008591)	promoter-TSS (NM_008591)	-235.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	14.0	12.0	12.0	174.5	18.5	9.5	7.0	13.5
Merged-chr12-59013452-4	chr12	59013353	59013553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025656)	promoter-TSS (NM_025656)	62.0	NM_025656	66603.0	Mm.35353	NM_025656	ENSMUSG00000060121	Gemin2	Sip1|gemin-2	gem nuclear organelle associated protein 2	protein-coding	90.5	121.5	104.0	1502.5	197.5	57.5	83.5	73.0
Merged-chr11-20740614-4	chr11	20740506	20740706	+	958.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181411, intron 1 of 8)	intron (NM_181411, intron 1 of 8)	950.0	NM_001290545	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	8.0	18.0	12.5	133.0	37.0	8.0	25.0	21.5
Merged-chr2-75702019-4	chr2	75701920	75702120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132727, intron 1 of 1)	intron (NR_132727, intron 1 of 1)	2643.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	28.5	60.0	34.5	443.0	90.0	42.5	64.5	54.5
Merged-chr11-83556492-4	chr11	83556401	83556601	+	891.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22135.0	NM_011338	20308.0	Mm.416125	NM_011338	ENSMUSG00000019122	Ccl9	CCF18|MRP-2|Scya10|Scya9	chemokine (C-C motif) ligand 9	protein-coding	20.5	21.0	19.0	93.5	26.5	13.5	11.0	14.5
Merged-chr11-46779994-3	chr11	46779901	46780101	+	920.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_134248)	TTS (NM_134248)	28833.0	NM_134248	171283.0	Mm.17771	NM_134248	ENSMUSG00000040405	Havcr1	AI503787|KIM-1|TIM-1|Tim1|Timd1	hepatitis A virus cellular receptor 1	protein-coding	9.0	16.5	12.0	142.5	17.0	7.5	14.5	2.0
Merged-chr1-176801097-4	chr1	176800984	176801184	+	979.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099637, intron 1 of 19)	intron (NM_001099637, intron 1 of 19)	6040.0	NM_001099637	545389.0	Mm.269991	NM_001024722	ENSMUSG00000057335	Cep170	4933426L22Rik|A330004A13Rik|AI195353	centrosomal protein 170	protein-coding	23.5	27.0	21.0	570.0	58.0	12.0	25.5	30.5
Merged-chr17-45554601-4	chr17	45554500	45554700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1100.0	NM_008690	18037.0	Mm.57043	NM_008690	ENSMUSG00000023947	Nfkbie	I-kappa-B-epsilon|IKBE|IkB-E|NF-kappa-BIE|ikB-epsilon	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon	protein-coding	27.0	29.5	23.5	189.5	77.5	19.5	29.5	27.5
Merged-chr9-119220405-3	chr9	119220318	119220518	+	729.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_033303)	TTS (NR_033303)	11274.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	15.5	10.0	4.5	188.0	11.0	2.5	5.5	10.0
Merged-chr16-89871664-4	chr16	89871543	89871743	+	968.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 6 of 27)	intron (NM_009384, intron 6 of 27)	-53291.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	21.0	17.0	17.5	424.0	53.0	18.0	20.5	34.0
Merged-chr11-118404658-4	chr11	118404568	118404768	+	868.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2709.0	NM_011150	19039.0	Mm.3152	NM_011150	ENSMUSG00000033880	Lgals3bp	90K|CyCAP|MAC-2BP|Ppicap|Tango10b	lectin, galactoside-binding, soluble, 3 binding protein	protein-coding	7.0	38.0	2.0	85.5	67.0	23.5	16.0	27.5
Merged-chr10-44590389-3	chr10	44590231	44590431	+	723.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131583.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	9.0	8.0	4.0	133.5	12.5	7.5	7.0	12.5
Merged-chr1-69687592-4	chr1	69687497	69687697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCGCG)n|Simple_repeat|Simple_repeat	-1637.0	NM_011770	22779.0	Mm.106343	NM_011770	ENSMUSG00000025997	Ikzf2	A730095J18Rik|Helios|Zfpn1a2|Znfn1a2	IKAROS family zinc finger 2	protein-coding	61.0	55.0	77.0	1025.0	93.5	33.5	44.5	40.5
Merged-chr1-180766851-4	chr1	180766769	180766969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40826.0	NM_133225	170760.0	Mm.272981	NM_133225	ENSMUSG00000026499	Acbd3	60kDa|8430407O11Rik|D1Ertd10e|GCP60|GOLPH1|Gocap1|Pap7	acyl-Coenzyme A binding domain containing 3	protein-coding	58.0	103.5	43.5	447.5	126.0	55.5	62.0	53.0
Merged-chr1-151598043-4	chr1	151597933	151598133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022018, intron 1 of 13)	L3|LINE|CR1	26660.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	160.0	222.5	135.0	1744.0	281.0	141.5	116.5	93.0
Merged-chr7-80846111-4	chr7	80846024	80846224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15984.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	118.5	161.0	72.0	1070.0	215.5	89.0	112.0	90.0
Merged-chr5-88565232-1	chr5	88565132	88565332	+	1000.0	f0_c57.idr	exon (NM_001289775, exon 1 of 13)	exon (NM_001289775, exon 1 of 13)	192.0	NM_001289775	52822.0	Mm.270469	NM_027530	ENSMUSG00000029291	Rufy3	2810428M05Rik|6330416M07Rik|AW455998|AW538594|D5Bwg0860e|Ripx|Rpipx	RUN and FYVE domain containing 3	protein-coding	26.0	41.0	38.5	592.5	60.5	33.5	39.0	29.0
Merged-chr16-31235626-4	chr16	31235520	31235720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34382.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	138.5	144.0	137.5	2525.0	298.0	115.0	166.5	128.5
Merged-chr16-31948435-6	chr16	31948304	31948504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026554)	promoter-TSS (NM_026554)	117.0	NR_027897	106264.0	Mm.347369	NM_025320	ENSMUSG00000107002	0610012G03Rik	AI839730	RIKEN cDNA 0610012G03 gene	ncRNA	43.0	58.0	28.5	524.5	138.5	72.5	48.0	51.5
Merged-chr11-83675912-4	chr11	83675813	83676013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13329.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	30.0	33.5	22.5	426.5	92.0	34.0	26.5	57.0
Merged-chr1-191955354-4	chr1	191955254	191955454	+	997.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22016.0	NM_001177900	74023.0	Mm.274393	NM_023727	ENSMUSG00000049353	Rd3	3322402L07Rik|rd-3|rd3	retinal degeneration 3	protein-coding	25.5	26.5	29.0	455.5	24.0	6.5	16.0	17.0
Merged-chr5-124582735-4	chr5	124582626	124582826	+	980.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181410, intron 2 of 12)	intron (NM_181410, intron 2 of 12)	3578.0	NM_181410	209357.0	Mm.185467	NM_181410	ENSMUSG00000029387	Gtf2h3	34kDa|5033417D07Rik|BTF2|BTF2 p34|C730029A10|D5Ertd679e|TFIIH	general transcription factor IIH, polypeptide 3	protein-coding	20.5	26.5	11.5	370.0	72.0	18.0	35.0	39.0
Merged-chr1-133132160-4	chr1	133132076	133132276	+	965.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133819, exon 1 of 2)	exon (NM_133819, exon 1 of 2)	1010.0	NM_133819	108954.0	Mm.293628	NM_133819	ENSMUSG00000046062	Ppp1r15b	1810033K10Rik|AI606441|C530022L24Rik|CReP	protein phosphatase 1, regulatory (inhibitor) subunit 15b	protein-coding	21.0	21.0	12.0	137.0	28.5	16.5	29.0	18.0
Merged-chr12-100053805-4	chr12	100053711	100053911	+	947.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	ORR1F|LTR|ERVL-MaLR	-58520.0	NM_008947	19179.0	Mm.157105	NM_008947	ENSMUSG00000021178	Psmc1	AI325227|P26s4|Rpt2/S4|S4|rpt2	protease (prosome, macropain) 26S subunit, ATPase 1	protein-coding	16.0	52.0	15.0	263.5	75.0	6.5	19.5	21.5
Merged-chr5-123019501-3	chr5	123019397	123019597	+	780.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175423, intron 1 of 1)	intron (NM_175423, intron 1 of 1)	4423.0	NM_175423	109305.0	Mm.218582	NM_175423	ENSMUSG00000049686	Orai1	D730049H07Rik|Tmem142a|orai-1	ORAI calcium release-activated calcium modulator 1	protein-coding	5.5	13.5	8.0	94.0	16.0	9.5	6.0	5.0
Merged-chr4-72199975-7	chr4	72199940	72200140	+	993.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001285529, exon 1 of 20)	5' UTR (NM_001285529, exon 1 of 20)	853.0	NM_011599	21885.0	Mm.278444	NM_011599	ENSMUSG00000008305	Tle1	C230057C06Rik|Estm14|Grg-1|Grg1|Tle4l	transducin-like enhancer of split 1	protein-coding	18.5	17.0	44.5	440.0	44.5	28.5	26.0	30.5
Merged-chr17-71265828-3	chr17	71265741	71265941	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	45170.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	142.0	228.0	99.5	1667.5	5.0	3.0	3.0	2.5
Merged-chr9-83546508-4	chr9	83546406	83546606	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1832.0	NM_172507	212531.0	Mm.491246	NM_172507	ENSMUSG00000032261	Sh3bgrl2	A930014C21Rik|AA408038|B930089I21	SH3 domain binding glutamic acid-rich protein like 2	protein-coding	50.0	113.0	77.0	1297.5	185.5	46.5	85.5	65.0
Merged-chr10-22141077-4	chr10	22141028	22141228	+	771.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254744, intron 1 of 1)	MuRRS-int|LTR|ERV1	8142.0	NM_001254744	319887.0	Mm.177746	NM_001254744	ENSMUSG00000097327	E030030I06Rik	-	RIKEN cDNA E030030I06 gene	protein-coding	3.5	7.5	5.5	127.5	22.0	21.0	12.5	9.5
Merged-chr19-5912216-4	chr19	5912186	5912386	+	837.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011262, intron 1 of 10)	CpG	585.0	NM_011262	19708.0	Mm.2651	NM_011262	ENSMUSG00000024826	Dpf2	2210010M07Rik|BAF45D|Req|ubi-d4	D4, zinc and double PHD fingers family 2	protein-coding	9.0	13.5	7.0	105.5	15.5	10.5	5.5	15.5
Merged-chr3-7535322-4	chr3	7535204	7535404	+	780.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173181, intron 7 of 8)	intron (NM_173181, intron 7 of 8)	31878.0	NM_173181	67306.0	Mm.332366	NM_173181	ENSMUSG00000043542	Zc2hc1a	3110050N22Rik|AI790358|AU023959|Fam164a	zinc finger, C2HC-type containing 1A	protein-coding	9.0	11.5	12.5	282.5	33.5	8.0	10.5	7.0
Merged-chr3-69185329-3	chr3	69185221	69185421	+	935.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37098.0	NM_027843	71619.0	Mm.98122	NM_027843	ENSMUSG00000098207	Arl14	9130014L17Rik|Arf7	ADP-ribosylation factor-like 14	protein-coding	11.0	14.0	12.5	163.0	9.0	6.5	16.0	9.0
Merged-chr2-142901565-4	chr2	142901473	142901673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081133)	promoter-TSS (NM_001081133)	-109.0	NM_001355123	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	135.0	196.0	111.0	2463.5	364.5	125.5	165.0	145.0
Merged-chr7-126928866-4	chr7	126928754	126928954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172747)	promoter-TSS (NM_172747)	-25.0	NM_172747	233877.0	Mm.245897	NM_172747	ENSMUSG00000030685	Kctd13	1500003N18Rik|AV259508|PDIP1alpha|Pdip1|Poldip1	potassium channel tetramerisation domain containing 13	protein-coding	107.5	157.0	62.5	1036.5	223.5	81.5	96.5	82.5
Merged-chr13-5635192-4	chr13	5635096	5635296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	222896.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	17.5	38.5	32.0	221.0	67.0	28.0	29.0	31.5
Merged-chr2-120309413-4	chr2	120309299	120309499	+	954.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024145, intron 7 of 19)	intron (NM_001024145, intron 7 of 19)	4766.0	NM_001024145	271844.0	Mm.24880	NM_001024145	ENSMUSG00000046971	Pla2g4f	4732472I07Rik|Gm647|Pla2zeta	phospholipase A2, group IVF	protein-coding	21.5	18.0	10.0	331.0	34.0	9.5	25.0	26.0
Merged-chr5-122394092-4	chr5	122393988	122394188	+	892.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 1 of 6)	B3A|SINE|B2	2210.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	14.0	13.0	10.5	201.0	59.0	13.5	17.5	19.0
Merged-chr5-41267958-2	chr5	41267859	41268059	+	711.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	439732.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	0.0	0.0	4.5	5.5	26.5	8.5	22.0	25.0
Merged-chr10-81571765-4	chr10	81571703	81571903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3484.0	NM_019725	21886.0	Mm.38608	NM_019725	ENSMUSG00000034771	Tle2	Grg2|mKIAA4188	transducin-like enhancer of split 2	protein-coding	142.5	148.0	107.0	2031.5	266.5	100.0	110.5	85.0
Merged-chr13-102889109-4	chr13	102889001	102889201	+	955.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	128846.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	13.5	18.5	24.0	379.0	36.5	6.0	13.5	24.5
Merged-chr13-9281475-3	chr13	9281388	9281588	+	716.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081426, intron 1 of 36)	intron (NM_001081426, intron 1 of 36)	4963.0	NM_001081426	208440.0	Mm.217326	NM_172459	ENSMUSG00000048264	Dip2c	2900024P20Rik|9630044M06|mKIAA0934	disco interacting protein 2 homolog C	protein-coding	8.0	8.5	6.0	132.0	12.5	9.5	7.5	2.0
Merged-chr12-85479600-12	chr12	85479470	85479670	+	915.736084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5680.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	37.5	31.0	8.0	154.0	52.0	23.0	14.5	27.0
Merged-chr12-79193669-3	chr12	79193567	79193767	+	812.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MURVY-int|LTR|ERV1	-1812.0	NM_021557	17252.0	Mm.291799	NM_021557	ENSMUSG00000066441	Rdh11	2610319N22Rik|AI428145|AU045252|Arsdr1|C85936|CGI-82|HCBP12|M42C60|Mdt1|Psdr1|SCALD|UBE-1c1|Ube-1c|ralR1	retinol dehydrogenase 11	protein-coding	9.0	4.5	13.0	79.0	14.0	4.0	3.0	4.5
Merged-chr17-22225646-4	chr17	22225575	22225775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205095)	promoter-TSS (NM_001205095)	-61.0	NM_001205095	240038.0	Mm.227945	NM_001205095	ENSMUSG00000096433	Zfp994	EG240038|Gm4944	zinc finger protein 994	protein-coding	35.5	45.0	50.0	412.5	282.0	99.0	122.5	107.0
Merged-chr2-102998542-4	chr2	102998441	102998641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74972.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	67.5	83.5	65.0	995.0	136.0	51.0	72.5	88.0
Merged-chr17-73952382-4	chr17	73952210	73952410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2114.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	46.0	52.0	38.0	437.5	56.0	24.5	28.0	19.0
Merged-chr10-98572982-4	chr10	98572859	98573059	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR78|LTR|ERV1	-221092.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	7.0	9.0	24.0	214.5	45.0	9.0	18.0	21.0
Merged-chr9-118610763-4	chr9	118610656	118610856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	4047.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	15.5	45.0	20.0	283.0	58.0	19.0	39.0	22.0
Merged-chr9-22118271-4	chr9	22118185	22118385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1090.0	NM_001357312	66126.0	Mm.29801	NM_170777	ENSMUSG00000013822	Elof1	1110011K10Rik	ELF1 homolog, elongation factor 1	protein-coding	31.0	31.0	22.0	411.5	85.0	37.0	29.5	37.5
Merged-chr2-31114411-4	chr2	31114304	31114504	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	MT2B|LTR|ERVL	-17904.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	24.5	36.0	15.0	182.0	54.5	19.5	19.5	16.0
Merged-chr8-120537289-4	chr8	120537198	120537398	+	986.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145896)	promoter-TSS (NM_001145896)	-111.0	NM_001145896	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	10.5	17.0	24.5	518.0	66.5	23.0	10.0	23.5
Merged-chr18-5807265-4	chr18	5807139	5807339	+	921.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	214592.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	14.0	34.5	17.5	214.5	26.0	25.0	12.0	3.0
Merged-chr7-16782153-3	chr7	16781981	16782181	+	950.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009201, exon 1 of 9)	exon (NM_009201, exon 1 of 9)	735.0	NM_009201	20514.0	Mm.1056	NM_009201	ENSMUSG00000001918	Slc1a5	AAAT|ASCT2|ATBO|M7V1|M7VS1|R16|RDRC|Slc1a7	solute carrier family 1 (neutral amino acid transporter), member 5	protein-coding	7.5	4.5	16.5	142.0	16.5	3.5	7.5	15.5
Merged-chr4-6416176-4	chr4	6416085	6416285	+	990.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 21 of 30)	intron (NM_010945, intron 21 of 30)	38086.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	33.0	22.5	24.5	411.0	53.5	15.0	21.0	20.5
Merged-chr14-21987895-4	chr14	21987804	21988004	+	632.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145459, exon 2 of 3)	5' UTR (NM_145459, exon 2 of 3)	1697.0	NM_145459	218820.0	Mm.292401	NM_145459	ENSMUSG00000039081	Zfp503	AI181838|B830002A16Rik|Nolz-1|Nolz1|Znf503	zinc finger protein 503	protein-coding	9.5	11.5	6.5	82.0	16.5	2.0	8.5	3.0
Merged-chr10-60738293-4	chr10	60738230	60738430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023596, intron 2 of 5)	B1_Mm|SINE|Alu	14452.0	NM_023596	71279.0	Mm.284462	NM_023596	ENSMUSG00000020100	Slc29a3	4933435C21Rik|AW987637|Ent3	solute carrier family 29 (nucleoside transporters), member 3	protein-coding	28.0	47.0	47.5	126.0	85.0	22.5	31.5	30.5
Merged-chr8-11007270-4	chr8	11007176	11007376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_046017)	promoter-TSS (NR_046017)	-574.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	64.5	82.5	108.5	1226.0	100.0	34.0	40.5	51.5
Merged-chr5-65931467-3	chr5	65931374	65931574	+	935.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35650.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	10.0	10.5	10.0	224.0	13.0	8.5	18.5	7.5
Merged-chr2-167660079-4	chr2	167659920	167660120	+	818.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145538, intron 1 of 5)	intron (NM_145538, intron 1 of 5)	1524.0	NM_145538	407243.0	Mm.4863	NM_145538	ENSMUSG00000090213	Tmem189	AI840826|Kua	transmembrane protein 189	protein-coding	6.0	4.5	18.5	207.5	19.5	4.0	5.0	7.0
Merged-chr18-21122128-4	chr18	21122032	21122232	+	844.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49788.0	NM_008586	17288.0	Mm.2682	NM_008586	ENSMUSG00000024313	Mep1b	Mep-1b	meprin 1 beta	protein-coding	14.5	11.0	13.5	196.5	22.0	3.5	8.5	17.0
Merged-chr9-62847895-3	chr9	62847802	62848002	+	988.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033175, intron 5 of 6)	intron (NM_001033175, intron 5 of 6)	9115.0	NM_001033175	76524.0	Mm.283636	NM_001033175	ENSMUSG00000032245	Cln6	1810065L06Rik|AW743417|D9Bwg1455e|nclf	ceroid-lipofuscinosis, neuronal 6	protein-coding	16.5	25.5	7.0	150.0	20.0	10.5	8.0	18.5
Merged-chr7-140941501-4	chr7	140941409	140941609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_153832, exon 1 of 12)	non-coding (NR_153832, exon 1 of 12)	118.0	NM_145387	212974.0	Mm.260139	NM_145387	ENSMUSG00000062031	Pgghg	5730511L01Rik|Athl1|BC023151	protein glucosylgalactosylhydroxylysine glucosidase	protein-coding	64.0	133.0	88.5	1037.5	234.5	84.0	120.5	100.5
Merged-chr14-24487076-4	chr14	24486984	24487184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081247)	promoter-TSS (NM_001081247)	-26.0	NM_001081247	218832.0	Mm.343610	NM_183157	ENSMUSG00000025280	Polr3a	9330175N20Rik|BC053071|RPC1|RPC155	polymerase (RNA) III (DNA directed) polypeptide A	protein-coding	45.0	64.0	39.5	627.0	132.0	57.5	47.5	44.0
Merged-chr17-55761228-4	chr17	55761122	55761322	+	990.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139138, intron 2 of 16)	MERV1_LTR|LTR|ERV1	11238.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	62.5	147.0	73.0	248.0	101.5	51.5	31.0	21.5
Merged-chr10-34113465-4	chr10	34113357	34113557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	14515.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	58.0	83.5	82.5	595.0	80.5	41.5	41.0	38.0
Merged-chr1-105169880-4	chr1	105169782	105169982	+	955.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-186125.0	NR_151539	100504568.0	Mm.321153	NR_151538	ENSMUSG00000097482	Gm17634	-	predicted gene, 17634	ncRNA	8.0	28.0	18.5	172.5	47.5	19.0	25.0	7.5
Merged-chr10-78429417-3	chr10	78429304	78429504	+	935.177795	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3734.0	NM_007793	13014.0	Mm.6095	NM_007793	ENSMUSG00000005054	Cstb	AA960480|Stfb	cystatin B	protein-coding	8.5	36.5	7.0	52.5	46.5	23.0	15.0	13.0
Merged-chr13-98817443-4	chr13	98817333	98817533	+	915.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-1984.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	18.5	16.5	8.5	78.5	45.5	13.0	20.0	15.5
Merged-chr17-26753708-4	chr17	26753633	26753833	+	914.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029870, intron 4 of 8)	intron (NM_029870, intron 4 of 8)	-27346.0	NM_172149	224630.0	Mm.21795	NM_172149	ENSMUSG00000024191	Bnip1	2010005M06Rik|5930429G21Rik|Sec20	BCL2/adenovirus E1B interacting protein 1	protein-coding	37.0	36.0	15.0	555.0	31.0	11.5	5.5	20.0
Merged-chr6-56714809-4	chr6	56714714	56714914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030235)	promoter-TSS (NM_030235)	-91.0	NM_030235	78937.0	Mm.105343	NM_030235	ENSMUSG00000029787	Avl9	5830411G16Rik|D730049P16Rik|mKIAA0241	AVL9 cell migration associated	protein-coding	323.5	584.5	400.5	6305.0	927.5	329.0	461.5	335.5
Merged-chr5-65515050-4	chr5	65514878	65515078	+	865.261902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22143.0	NM_133697	68552.0	Mm.10709	NM_133697	ENSMUSG00000037822	Smim14	1110003E01Rik|1700127H04Rik|5430439C17Rik|MAd4	small integral membrane protein 14	protein-coding	5.5	10.5	3.5	141.5	10.0	9.0	9.5	5.0
Merged-chr11-44519168-9	chr11	44519198	44519398	+	990.2222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166553)	promoter-TSS (NM_001166553)	-79.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	11.5	22.5	16.0	177.0	50.5	14.5	11.0	11.0
Merged-chr10-93083434-4	chr10	93083337	93083537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1841.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	36.5	52.5	26.5	377.0	105.0	24.5	54.0	44.0
Merged-chr12-100005483-4	chr12	100005387	100005587	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164426, intron 2 of 2)	intron (NM_001164426, intron 2 of 2)	40988.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	80.0	80.0	82.5	1055.0	132.0	38.0	50.0	52.5
Merged-chr1-157248252-4	chr1	157248159	157248359	+	888.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177644, intron 3 of 17)	intron (NM_177644, intron 3 of 17)	-139579.0	NM_001305063	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	17.0	20.0	24.0	428.0	32.0	1.0	11.0	12.0
Merged-chr9-120602119-4	chr9	120602004	120602204	+	890.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24773.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	27.5	33.0	11.0	288.5	19.0	7.0	8.5	9.0
Merged-chr7-63905330-4	chr7	63905250	63905450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021366, intron 1 of 1)	L1MC3|LINE|L1	-11507.0	NM_001256311	381994.0	Mm.425466	NM_001256311	ENSMUSG00000095061	E030018B13Rik	Gm1697	RIKEN cDNA E030018B13 gene	protein-coding	189.5	235.5	123.5	1699.5	319.0	144.0	153.5	93.5
Merged-chr1-63567240-4	chr1	63567138	63567338	+	944.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011780, intron 21 of 25)	intron (NM_011780, intron 21 of 25)	119689.0	NM_001081658	241073.0	Mm.297680	NM_001081658	ENSMUSG00000069085	Dytn	Gm215	dystrotelin	protein-coding	31.0	26.0	21.5	353.0	25.5	13.0	15.5	22.0
Merged-chr4-102624323-4	chr4	102624251	102624451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34508.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	139.0	327.5	131.0	1324.5	453.0	211.5	167.5	138.0
Merged-chr15-37972004-4	chr15	37971897	37972097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112721, intron 56 of 58)	intron (NM_001112721, intron 56 of 58)	-10942.0	NM_199476	382985.0	Mm.24738	NM_199476	ENSMUSG00000022292	Rrm2b	p53R2	ribonucleotide reductase M2 B (TP53 inducible)	protein-coding	112.0	180.5	145.5	2791.0	330.0	98.0	167.0	157.0
Merged-chr1-88700504-7	chr1	88700388	88700588	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177305, exon 1 of 1)	3' UTR (NM_177305, exon 1 of 1)	1703.0	NM_177305	320982.0	Mm.27968	NM_177305	ENSMUSG00000049866	Arl4c	A630084M22Rik|Arl7|LAK	ADP-ribosylation factor-like 4C	protein-coding	10.5	12.5	14.0	130.0	22.0	11.0	11.5	9.5
Merged-chr2-25193597-4	chr2	25193499	25193699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146115, exon 2 of 2)	3' UTR (NM_146115, exon 2 of 2)	3214.0	NM_146115	227612.0	Mm.119747	NM_146115	ENSMUSG00000059555	Tor4a	A830007P12Rik	torsin family 4, member A	protein-coding	43.0	61.0	40.0	509.5	144.0	45.0	49.5	55.5
Merged-chr8-71485953-4	chr8	71485854	71486054	+	873.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164679, exon 1 of 17)	5' UTR (NM_001164679, exon 1 of 17)	113.0	NM_001164679	382014.0	Mm.260360	NM_001164679	ENSMUSG00000034863	Ano8	BC053460|Tmem16h	anoctamin 8	protein-coding	12.0	27.0	13.0	209.5	34.5	10.0	14.0	10.0
Merged-chr9-9237770-4	chr9	9237668	9237868	+	869.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045754, intron 2 of 3)	intron (NR_045754, intron 2 of 3)	1245.0	NM_027823	71544.0	Mm.334955	NM_027823	ENSMUSG00000050730	Arhgap42	9030420J04Rik|BE136619	Rho GTPase activating protein 42	protein-coding	10.5	10.0	9.5	214.5	41.0	8.5	7.5	9.0
Merged-chr3-55112124-4	chr3	55112070	55112270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144895)	promoter-TSS (NM_144895)	4.0	NM_001144987	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	82.0	133.0	146.5	1528.0	229.5	114.0	126.0	83.5
Merged-chr2-152735189-4	chr2	152735096	152735296	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1055.0	NM_010495	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	128.0	134.0	39.5	1236.5	278.5	137.0	153.0	82.5
Merged-chr8-22136736-3	chr8	22136615	22136815	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011848, intron 11 of 15)	RLTR44B|LTR|ERVK	-11648.0	NM_001347318	330721.0	Mm.113940	NM_177898	ENSMUSG00000037738	Nek5	6530411J22|BB049667	NIMA (never in mitosis gene a)-related expressed kinase 5	protein-coding	83.5	107.0	90.0	420.0	2.5	0.5	3.0	2.0
Merged-chr13-5863741-4	chr13	5863623	5863823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 1 of 3)	intron (NM_011803, intron 1 of 3)	2234.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	68.5	104.0	70.0	1108.0	159.0	76.5	69.0	77.5
Merged-chr18-53921624-4	chr18	53921615	53921815	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152809, intron 6 of 12)	intron (NM_152809, intron 6 of 12)	59602.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	7.0	15.5	10.5	238.0	39.5	11.0	27.0	20.0
Merged-chr16-36706651-3	chr16	36706542	36706742	+	889.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285788, intron 1 of 7)	intron (NM_001285788, intron 1 of 7)	12664.0	NM_001285791	106347.0	Mm.17807	NM_134109	ENSMUSG00000022900	Ildr1	AU041483|AU044638	immunoglobulin-like domain containing receptor 1	protein-coding	5.5	15.5	15.5	64.5	8.5	3.0	3.0	7.0
Merged-chr11-115564317-4	chr11	115564248	115564448	+	961.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001002929)	promoter-TSS (NM_001002929)	-96.0	NM_001002929	445007.0	Mm.4379	NM_001002929	ENSMUSG00000020739	Nup85	Pcnt1|frount	nucleoporin 85	protein-coding	22.0	19.0	19.5	176.0	36.0	17.0	12.0	20.5
Merged-chr2-68862270-4	chr2	68862265	68862465	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347161, intron 1 of 10)	intron (NM_001347161, intron 1 of 10)	924.0	NM_001347161	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	7.5	17.5	8.5	73.0	10.5	6.0	7.0	8.5
Merged-chr3-82357980-4	chr3	82357902	82358102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081230)	promoter-TSS (NM_001081230)	-70.0	NM_001081230	213582.0	Mm.271269	NM_001081230	ENSMUSG00000033900	Map9	5033421J10Rik|5330427D05Rik|ASAP|Mtap9	microtubule-associated protein 9	protein-coding	175.0	264.0	161.5	3063.0	166.0	80.0	80.5	77.0
Merged-chr11-109413783-4	chr11	109413665	109413865	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12181.0	NM_025275	13929.0	Mm.211850	NM_025275	ENSMUSG00000020610	Amz2	AA408420|ESTM12|X83328	archaelysin family metallopeptidase 2	protein-coding	73.5	111.5	70.0	719.0	168.0	73.0	49.5	47.0
Merged-chr2-148672562-4	chr2	148672461	148672661	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019761)	promoter-TSS (NM_019761)	-54.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	226.5	326.5	278.5	3839.5	469.5	212.5	332.5	194.0
Merged-chr6-137386532-4	chr6	137386417	137386617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 7 of 26)	intron (NM_011216, intron 7 of 26)	-24204.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	62.0	90.5	80.0	1456.0	237.0	70.0	127.0	89.5
Merged-chr5-124021914-4	chr5	124021823	124022023	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	RSINE1|SINE|B4	10337.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	28.5	23.0	25.0	352.5	90.5	34.5	23.0	49.5
Merged-chr9-15035013-3	chr9	15034916	15035116	+	837.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019482, intron 1 of 4)	intron (NM_019482, intron 1 of 4)	10462.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	9.0	12.5	6.0	90.0	16.0	3.5	4.0	7.5
Merged-chr13-60603472-4	chr13	60603367	60603567	+	855.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	1256.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	14.0	3.5	45.5	420.0	7.5	4.5	12.0	10.5
Merged-chr2-122184080-3	chr2	122184011	122184211	+	889.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026251, intron 1 of 17)	RLTR35B_MM|LTR|ERVL	2078.0	NM_026251	67578.0	Mm.150462	NM_026251	ENSMUSG00000027233	Patl2	4930424G05Rik|Pat1a	protein associated with topoisomerase II homolog 2 (yeast)	protein-coding	19.0	15.5	10.5	220.5	1.5	2.5	1.0	6.5
Merged-chr11-34389717-4	chr11	34389624	34389824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025382, intron 1 of 3)	intron (NM_001025382, intron 1 of 3)	74902.0	NM_001025382	574403.0	Mm.444796	NM_001025382	ENSMUSG00000069911	Fam196b	EG574403|Gm6041	family with sequence similarity 196, member B	protein-coding	62.0	77.0	77.0	1322.0	84.5	24.5	62.5	53.0
Merged-chr13-26234905-4	chr13	26234816	26235016	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77490.0	NR_045933	73576.0	Mm.45473	NR_045933	ENSMUSG00000084811	1700092E19Rik	-	RIKEN cDNA 1700092E19 gene	ncRNA	29.5	27.5	23.5	530.5	42.5	14.5	30.5	19.5
Merged-chr17-43040736-4	chr17	43040642	43040842	+	984.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	RSINE1|SINE|B4	24187.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	22.0	34.5	29.5	390.5	60.0	27.5	32.0	20.5
Merged-chr17-24140996-3	chr17	24140916	24141116	+	851.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286662, intron 1 of 13)	intron (NM_001286662, intron 1 of 13)	578.0	NM_011062	18607.0	Mm.10504	NM_011062	ENSMUSG00000024122	Pdpk1	Pdk1	3-phosphoinositide dependent protein kinase 1	protein-coding	4.5	15.0	4.5	130.5	18.0	9.5	7.5	7.5
Merged-chr9-103181186-4	chr9	103181050	103181250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173781, intron 7 of 7)	intron (NM_173781, intron 7 of 7)	20915.0	NM_009275	20818.0	Mm.273053	NM_009275	ENSMUSG00000032553	Srprb	AA409543	signal recognition particle receptor, B subunit	protein-coding	34.0	73.0	39.0	662.0	102.5	28.0	57.5	31.0
Merged-chr19-40895230-3	chr19	40895157	40895357	+	983.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_106167)	TTS (NR_106167)	552.0	NM_028319	72672.0	Mm.313523	NM_028319	ENSMUSG00000049164	Zfp518a	2810401C22Rik|6330417C12Rik|AI426493|Zfp518|Znf518|Znf518a|mKIAA0335	zinc finger protein 518A	protein-coding	9.5	9.0	15.0	57.5	26.0	16.0	6.5	24.5
Merged-chr18-30160452-3	chr18	30160337	30160537	+	962.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112428.0	NM_181414	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	16.5	15.0	16.0	534.0	11.0	4.0	11.5	7.5
Merged-chr7-19239611-4	chr7	19239499	19239699	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207525, intron 1 of 1)	intron (NM_207525, intron 1 of 1)	11210.0	NM_207525	403187.0	Mm.239583	NM_207525	ENSMUSG00000052214	Opa3	D630048P19Rik|Gm1425|Gm472	optic atrophy 3	protein-coding	17.5	34.0	14.0	128.5	51.0	24.0	16.5	18.0
Merged-chr8-71542824-4	chr8	71542725	71542925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028617)	promoter-TSS (NM_028617)	-105.0	NM_028617	73711.0	Mm.307770	NM_028617	ENSMUSG00000031813	Mvb12a	1110012M11Rik|Fam125a	multivesicular body subunit 12A	protein-coding	190.0	309.0	174.5	2133.5	482.0	192.0	173.0	171.5
Merged-chr14-57910707-4	chr14	57910612	57910812	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20376.0	NM_001360097	75965.0	Mm.29044	NM_029492	ENSMUSG00000021969	Zdhhc20	4930542A17Rik|5033406L14Rik|AI448102|B230110O18Rik|HK11	zinc finger, DHHC domain containing 20	protein-coding	33.0	57.0	33.0	580.0	41.0	19.5	26.5	23.5
Merged-chr12-35579030-4	chr12	35578935	35579135	+	967.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44046.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	27.0	30.5	34.0	421.0	50.5	17.5	15.5	17.5
Merged-chr1-121327884-4	chr1	121327799	121327999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271531)	promoter-TSS (NM_001271531)	125.0	NM_001357251	72999.0	Mm.27136	NM_133748	ENSMUSG00000003721	Insig2	2900053I11Rik|C730043J18Rik|Insig-2	insulin induced gene 2	protein-coding	128.0	185.5	199.0	2083.5	218.5	81.0	128.0	99.0
Merged-chr9-65550387-3	chr9	65550291	65550491	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29696.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	57.5	94.0	57.0	651.5	4.0	15.0	6.5	13.5
Merged-chr2-62645612-4	chr2	62645517	62645717	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027835, exon 1 of 16)	exon (NM_027835, exon 1 of 16)	638.0	NM_027835	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	25.0	66.0	21.5	204.5	44.0	21.5	22.5	18.5
Merged-chr17-50410084-4	chr17	50409987	50410187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99460.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	18.0	35.5	14.5	466.0	101.0	22.5	36.5	39.0
Merged-chr17-46880004-4	chr17	46879898	46880098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-10623.0	NM_178385	72726.0	Mm.33780	NM_178385	ENSMUSG00000036430	Tbcc	2810055C19Rik	tubulin-specific chaperone C	protein-coding	56.5	131.0	102.0	986.5	111.0	60.0	50.0	31.0
Merged-chr3-21951834-4	chr3	21951742	21951942	+	868.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	-124810.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	12.0	10.5	7.0	104.0	27.0	14.5	10.0	10.0
Merged-chr12-4817466-4	chr12	4817348	4817548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025323)	promoter-TSS (NM_025323)	-160.0	NM_025323	66055.0	Mm.102627	NM_025323	ENSMUSG00000037361	Sf3b6	0610009D07Rik|6030419K15Rik|AV001342|Sf3b14	splicing factor 3B, subunit 6	protein-coding	129.5	164.5	94.5	1664.0	278.0	87.0	106.0	94.0
Merged-chr7-67445564-4	chr7	67445443	67445643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72685.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	115.5	120.5	114.0	1699.5	227.5	66.0	96.0	92.0
Merged-chr12-33146149-4	chr12	33146090	33146290	+	809.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015602, intron 1 of 5)	intron (NR_015602, intron 1 of 5)	1396.0	NR_015602	320046.0	Mm.208337	NR_015602	ENSMUSG00000052125	F730043M19Rik	-	RIKEN cDNA F730043M19 gene	ncRNA	8.5	7.0	7.5	91.0	19.0	13.0	10.0	8.5
Merged-chr11-73177713-4	chr11	73177609	73177809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025318)	promoter-TSS (NM_025318)	626.0	NM_029564	76281.0	Mm.371656	NM_029564	ENSMUSG00000040158	Tax1bp3	1300011C24Rik|TIP-1	Tax1 (human T cell leukemia virus type I) binding protein 3	protein-coding	35.0	55.0	37.0	443.5	79.0	34.0	43.5	33.0
Merged-chr1-74808319-4	chr1	74808220	74808420	+	973.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16301.0	NM_009518	22409.0	Mm.5130	NM_009518	ENSMUSG00000026167	Wnt10a	-	wingless-type MMTV integration site family, member 10A	protein-coding	31.5	39.5	13.0	394.5	54.0	26.0	43.5	17.0
Merged-chr15-76303879-4	chr15	76303780	76303980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153122, intron 10 of 26)	RLTR20C2_MM|LTR|ERVK	3365.0	NM_153122	75475.0	Mm.322738	NM_153122	ENSMUSG00000022562	Oplah	1700010G02Rik	5-oxoprolinase (ATP-hydrolysing)	protein-coding	105.5	147.0	87.5	1395.5	272.0	106.0	111.5	96.5
Merged-chr6-88044512-1	chr6	88044412	88044612	+	687.200012	f0_balb.idr	intron (NM_001293652, intron 1 of 7)	MIR|SINE|MIR	505.0	NM_001293653	19349.0	Mm.333233	NM_009005	ENSMUSG00000079477	Rab7	Rab7a	RAB7, member RAS oncogene family	protein-coding	12.0	14.0	13.0	81.5	33.5	6.0	7.0	9.0
Merged-chr3-27291601-4	chr3	27291496	27291696	+	947.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-25481.0	NM_009425	22035.0	Mm.1062	NM_009425	ENSMUSG00000039304	Tnfsf10	A330042I21Rik|AI448571|APO-2L|Ly81|TL2|Tnlg6a|Trail	tumor necrosis factor (ligand) superfamily, member 10	protein-coding	33.0	31.0	12.5	116.5	74.0	28.5	28.0	24.5
Merged-chr16-58482796-4	chr16	58482660	58482860	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	MLT1J|LTR|ERVL-MaLR	40666.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	32.5	44.0	53.5	687.0	76.0	22.5	41.5	32.5
Merged-chr13-106829797-4	chr13	106829695	106829895	+	902.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360897, intron 28 of 30)	intron (NM_001360897, intron 28 of 30)	107163.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	23.5	14.0	6.5	319.0	24.5	3.0	12.0	17.0
Merged-chr2-32708832-3	chr2	32708731	32708931	+	685.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130860, intron 6 of 6)	ORR1F|LTR|ERVL-MaLR	3953.0	NM_130860	107951.0	Mm.27557	NM_130860	ENSMUSG00000009555	Cdk9	PITALRE	cyclin-dependent kinase 9 (CDC2-related kinase)	protein-coding	5.5	19.5	5.5	136.5	20.5	10.5	7.0	8.5
Merged-chr10-39436296-4	chr10	39436191	39436391	+	796.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	66492.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	2.5	8.5	18.5	144.5	26.5	7.5	11.0	4.5
Merged-chr8-26885530-4	chr8	26885433	26885633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61110.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	34.0	55.5	64.5	950.0	73.0	38.5	37.0	26.0
Merged-chr14-18238481-4	chr14	18238395	18238595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011584, intron 1 of 7)	CpG	611.0	NM_011584	353187.0	Mm.26587	NM_011584	ENSMUSG00000021775	Nr1d2	RVR|Rev-erb	nuclear receptor subfamily 1, group D, member 2	protein-coding	310.5	410.0	370.5	4355.5	800.0	323.5	402.0	291.5
Merged-chr5-86920954-4	chr5	86920866	86921066	+	877.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152811, intron 3 of 5)	intron (NM_152811, intron 3 of 5)	5537.0	NM_152811	71773.0	Mm.26741	NM_152811	ENSMUSG00000035836	Ugt2b1	1300012D20Rik	UDP glucuronosyltransferase 2 family, polypeptide B1	protein-coding	13.5	10.5	24.0	373.0	23.5	12.5	17.0	12.0
Merged-chr8-94802540-4	chr8	94802433	94802633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-7920.0	NM_011332	20295.0	Mm.41988	NM_011332	ENSMUSG00000031780	Ccl17	Abcd-2|Scya17|Scya17l|Tarc	chemokine (C-C motif) ligand 17	protein-coding	20.0	33.5	19.5	247.0	53.0	16.0	26.0	31.5
Merged-chr2-38602164-3	chr2	38602065	38602265	+	957.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011187, intron 6 of 7)	intron (NM_011187, intron 6 of 7)	41741.0	NM_011187	19177.0	Mm.389251	NM_011187	ENSMUSG00000026750	Psmb7	AU020723|MC14	proteasome (prosome, macropain) subunit, beta type 7	protein-coding	9.5	2.0	13.0	266.0	19.0	6.5	6.0	12.5
Merged-chr10-44704348-4	chr10	44704265	44704465	+	997.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-245617.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	29.0	37.0	20.5	410.0	90.5	25.0	34.0	29.0
Merged-chr8-72183998-4	chr8	72183908	72184108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5660.0	NM_197944	209488.0	Mm.157431	NM_197944	ENSMUSG00000062007	Hsh2d	ALX|Hsh2	hematopoietic SH2 domain containing	protein-coding	84.5	92.5	74.5	1244.5	111.5	32.0	53.5	56.0
Merged-chr3-90460502-4	chr3	90460413	90460613	+	765.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008727, intron 7 of 21)	intron (NM_008727, intron 7 of 21)	5353.0	NM_008727	18160.0	Mm.4627	NM_008727	ENSMUSG00000027931	Npr1	AI893888|GC-A|NPR-A|NPRA|Pndr	natriuretic peptide receptor 1	protein-coding	10.0	9.5	8.5	216.5	24.0	8.5	8.0	7.0
Merged-chr3-131564677-4	chr3	131564596	131564796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011863)	promoter-TSS (NM_011863)	-72.0	NM_001289479	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	562.5	754.5	756.5	8424.5	1223.0	488.0	707.5	480.5
Merged-chr2-126600683-4	chr2	126600595	126600795	+	931.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008230, intron 9 of 11)	intron (NM_008230, intron 9 of 11)	17983.0	NM_008230	15186.0	Mm.18603	NM_008230	ENSMUSG00000027360	Hdc	AW108189|Hdc-a|Hdc-c|Hdc-e|Hdc-s	histidine decarboxylase	protein-coding	25.5	19.5	33.5	313.0	45.5	9.0	20.0	19.0
Merged-chr12-12148051-4	chr12	12147944	12148144	+	785.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-114095.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	4.0	12.0	21.0	204.0	20.5	12.0	9.5	15.5
Merged-chr14-17912937-3	chr14	17912838	17913038	+	645.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113417, intron 2 of 9)	intron (NM_001113417, intron 2 of 9)	-68706.0	NM_009380	21834.0	Mm.32563	NM_009380	ENSMUSG00000021779	Thrb	Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta	thyroid hormone receptor beta	protein-coding	5.0	3.0	8.0	159.5	19.0	5.5	7.0	5.5
Merged-chr17-23700267-4	chr17	23700155	23700355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16229.0	NM_020293	56863.0	Mm.491368	NM_020293	ENSMUSG00000066720	Cldn9	nmf329	claudin 9	protein-coding	61.0	78.0	48.5	708.5	93.5	32.0	56.5	40.0
Merged-chr9-44228347-4	chr9	44228262	44228462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 1 of 15)	intron (NM_007619, intron 1 of 15)	5684.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	36.0	83.5	67.5	844.0	119.0	49.0	83.5	50.0
Merged-chr12-102878520-4	chr12	102878425	102878625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172806)	promoter-TSS (NM_172806)	-119.0	NM_172806	238386.0	Mm.63456	NM_172806	ENSMUSG00000041702	Btbd7	5730507E09Rik|8030448M07|E130118E17Rik|FUP1|mKIAA1525	BTB (POZ) domain containing 7	protein-coding	132.5	189.5	122.0	2015.5	394.0	146.0	140.0	116.0
Merged-chr5-41707772-4	chr5	41707664	41707864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310592)	promoter-TSS (NM_001310592)	-73.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	30.0	33.5	35.0	408.0	89.5	50.0	40.5	37.5
Merged-chr14-72595491-3	chr14	72595392	72595592	+	870.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 4 of 25)	intron (NM_207636, intron 4 of 25)	114511.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	9.5	15.5	17.5	117.0	15.5	8.5	8.5	4.5
Merged-chr11-8634864-4	chr11	8634752	8634952	+	899.8833619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 1 of 30)	intron (NM_001083587, intron 1 of 30)	29683.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	14.5	23.5	16.0	114.0	29.5	13.0	8.5	6.0
Merged-chr8-22935793-4	chr8	22935675	22935875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081149, exon 17 of 18)	exon (NM_001081149, exon 17 of 18)	-39061.0	NM_001110783	11733.0	Mm.334444	NM_031158	ENSMUSG00000031543	Ank1	Ank-1|nb|pale	ankyrin 1, erythroid	protein-coding	64.0	78.5	67.0	1258.5	105.0	36.0	73.5	47.5
Merged-chr6-86497450-4	chr6	86497355	86497555	+	947.326416	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-9228.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	18.0	35.5	12.0	168.0	37.0	13.5	7.5	13.0
Merged-chr15-38644451-4	chr15	38644341	38644541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17463.0	NM_025494	66335.0	Mm.276618	NM_025494	ENSMUSG00000022295	Atp6v1c1	1700025B18Rik|U13839	ATPase, H+ transporting, lysosomal V1 subunit C1	protein-coding	62.0	74.0	73.0	980.0	170.5	75.0	49.5	60.5
Merged-chr3-109478769-3	chr3	109478652	109478852	+	922.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-95255.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	14.5	14.0	13.0	133.5	38.5	6.5	8.5	5.0
Merged-chr11-50431625-4	chr11	50431501	50431701	+	810.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172557)	promoter-TSS (NM_172557)	-490.0	NM_172557	216724.0	Mm.390400	NM_172557	ENSMUSG00000020375	Rufy1	3000002E04Rik|Rabip4|ZFYVE12	RUN and FYVE domain containing 1	protein-coding	8.5	10.5	15.5	55.5	14.0	4.5	9.0	12.0
Merged-chr13-113611397-4	chr13	113611304	113611504	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130796, intron 1 of 1)	intron (NM_130796, intron 1 of 1)	7160.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	24.5	54.0	29.5	142.5	110.5	36.5	27.0	10.5
Merged-chr5-65309093-4	chr5	65308968	65309168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011258, intron 4 of 24)	MTE2b|LTR|ERVL-MaLR	26571.0	NM_011258	19687.0	Mm.148877	NM_011258	ENSMUSG00000029191	Rfc1	140kDa|Alp145|RFC140|Recc1	replication factor C (activator 1) 1	protein-coding	46.5	66.0	53.0	845.5	103.5	24.0	69.0	47.0
Merged-chr5-72812480-4	chr5	72812378	72812578	+	955.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	intron (NM_013689, intron 3 of 17)	55970.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	21.0	28.5	11.0	391.5	79.5	23.0	17.0	12.0
Merged-chr4-129678065-3	chr4	129677948	129678148	+	780.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356378, intron 9 of 9)	intron (NM_001356378, intron 9 of 9)	-5281.0	NM_008468	16650.0	Mm.202358	NM_008468	ENSMUSG00000003731	Kpna6	IPOA7|Kpna5|NPI-2	karyopherin (importin) alpha 6	protein-coding	10.5	14.5	13.5	139.0	0.5	1.0	0.5	1.0
Merged-chr9-108306842-4	chr9	108306767	108306967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313961)	promoter-TSS (NM_001313961)	70.0	NM_001313962	11848.0	Mm.757	NM_016802	ENSMUSG00000007815	Rhoa	Arha|Arha1|Arha2	ras homolog family member A	protein-coding	58.0	79.5	54.0	868.5	155.0	46.5	119.5	65.5
Merged-chr15-74989479-4	chr15	74989391	74989591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6061.0	NM_020498	57248.0	Mm.358339	NM_020498	ENSMUSG00000022586	Ly6i	AI789751|Ly-6I|Ly-6M	lymphocyte antigen 6 complex, locus I	protein-coding	36.5	34.5	33.0	283.0	103.0	35.0	31.5	41.5
Merged-chr17-26481150-3	chr17	26481030	26481230	+	793.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27342.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	8.0	14.0	1.0	53.5	24.0	11.0	4.5	5.0
Merged-chr13-44536645-3	chr13	44536546	44536746	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	96919.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	6.0	15.5	12.0	123.5	16.0	6.5	1.5	1.0
Merged-chr8-95141875-4	chr8	95141775	95141975	+	982.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010631, intron 1 of 19)	intron (NM_010631, intron 1 of 19)	665.0	NM_010631	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	16.0	18.5	25.5	243.5	30.0	9.0	9.5	18.0
Merged-chr5-142443673-4	chr5	142443555	142443755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 2 of 8)	intron (NM_199068, intron 2 of 8)	-20276.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	112.0	243.5	198.5	1576.0	193.0	71.5	85.0	82.0
Merged-chr7-35124947-4	chr7	35124842	35125042	+	968.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5649.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	21.0	27.5	20.5	232.5	41.5	14.5	19.0	21.5
Merged-chr9-21901656-4	chr9	21901535	21901735	+	991.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16548.0	NM_031874	19340.0	Mm.260157	NM_031874	ENSMUSG00000019066	Rab3d	C130057E11Rik	RAB3D, member RAS oncogene family	protein-coding	17.5	23.5	7.5	290.5	43.5	17.5	23.0	20.5
Merged-chr12-101958299-4	chr12	101958189	101958389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167914)	promoter-TSS (NM_001167914)	-46.0	NM_001167914	110616.0	Mm.271914	NM_029705	ENSMUSG00000021189	Atxn3	2210008M02Rik|AI463012|AI647473|ATX3|MJD1|Mjd|Sca3|ataxin-3	ataxin 3	protein-coding	201.0	265.0	182.0	2194.0	486.0	217.0	183.5	190.0
Merged-chr5-117891289-4	chr5	117891175	117891375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 2 of 27)	MER47A|DNA|TcMar-Tigger	24436.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	22.5	81.5	42.0	381.5	97.0	45.5	37.0	39.5
Merged-chr11-79083730-3	chr11	79083632	79083832	+	901.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	-23896.0	NM_001348207	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	8.0	10.5	15.0	110.0	10.0	2.0	7.0	16.5
Merged-chr8-69209003-4	chr8	69208923	69209123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013379)	promoter-TSS (NM_001013379)	-23.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	76.5	124.5	72.0	1355.0	199.0	90.5	97.5	80.5
Merged-chr2-92485846-4	chr2	92485757	92485957	+	907.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25339.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	11.0	14.0	5.5	122.0	34.0	7.5	12.0	13.0
Merged-chr15-101237032-3	chr15	101236929	101237129	+	884.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11843.0	NR_045328	380977.0	Mm.399924	NR_045326	ENSMUSG00000097915	A330009N23Rik	-	RIKEN cDNA A330009N23 gene	ncRNA	16.5	14.0	4.5	97.0	22.0	7.5	7.0	7.0
Merged-chr14-14603669-4	chr14	14603566	14603766	+	883.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-99359.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	19.5	16.5	17.0	338.5	35.0	13.5	14.5	11.0
Merged-chr6-122739625-3	chr6	122739542	122739742	+	684.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011401, intron 3 of 9)	intron (NM_011401, intron 3 of 9)	3103.0	NM_011401	20527.0	Mm.395108	NM_011401	ENSMUSG00000003153	Slc2a3	AA408729|AL023014|AL024341|AU040424|C78366|Glut-3|Glut3	solute carrier family 2 (facilitated glucose transporter), member 3	protein-coding	13.5	10.0	14.0	61.5	15.0	4.5	9.0	5.0
Merged-chr17-25681827-4	chr17	25681686	25681886	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35386.0	NM_022422	64337.0	Mm.171123	NM_022422	ENSMUSG00000025739	Gng13	1500031D04Rik|AB030194|Ggamma13	guanine nucleotide binding protein (G protein), gamma 13	protein-coding	21.0	20.0	13.0	363.0	40.5	6.0	23.0	2.0
Merged-chr7-110372700-4	chr7	110372619	110372819	+	990.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 19 of 40)	intron (NM_177324, intron 19 of 40)	151016.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	24.5	20.5	31.0	700.5	80.0	17.5	29.5	46.0
Merged-chr2-160068972-4	chr2	160068874	160069074	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52321.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	68.5	101.0	65.5	968.0	98.0	46.0	38.0	51.5
Merged-chr6-50160053-1	chr6	50159953	50160153	+	640.0	f0_balb.idr	intron (NM_001361248, intron 4 of 13)	intron (NM_001361248, intron 4 of 13)	49193.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	7.0	5.0	9.0	92.5	0.5	0.0	0.5	0.0
Merged-chr17-35752785-4	chr17	35752684	35752884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19666.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	91.0	151.0	65.0	703.0	224.0	90.0	91.0	55.0
Merged-chr16-97962295-4	chr16	97962174	97962374	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175428, intron 1 of 2)	CpG	348.0	NM_001081685	114565.0	Mm.474489	NM_175428	ENSMUSG00000046962	Zbtb21	5430437K12Rik|B430213I24Rik|Zfp295|Znf295|mKIAA1227	zinc finger and BTB domain containing 21	protein-coding	233.0	259.5	183.5	3186.5	667.0	200.0	338.0	207.5
Merged-chr3-94413151-4	chr3	94413030	94413230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357713)	promoter-TSS (NM_001357713)	-114.0	NM_001357713	72634.0	Mm.331198	NM_028307	ENSMUSG00000041912	Tdrkh	2700091C21Rik|Tdrd2	tudor and KH domain containing protein	protein-coding	221.5	290.5	218.0	3733.5	564.5	208.0	268.0	214.5
Merged-chr17-43569500-4	chr17	43569391	43569591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013737, intron 1 of 11)	intron (NM_013737, intron 1 of 11)	1040.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	49.5	100.5	76.0	911.0	116.5	35.5	39.0	23.5
Merged-chr13-110357182-4	chr13	110357076	110357276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177713)	promoter-TSS (NM_177713)	-4.0	NM_177713	238875.0	Mm.30533	NM_177713	ENSMUSG00000046006	Gapt	9830130M13Rik	Grb2-binding adaptor, transmembrane	protein-coding	73.5	112.5	86.0	1568.0	170.5	52.0	67.5	41.0
Merged-chr2-130729483-4	chr2	130729367	130729567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 28 of 36)	intron (NM_029432, intron 28 of 36)	-31948.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	62.5	70.5	47.5	801.0	85.5	15.0	34.0	58.5
Merged-chr8-57540382-4	chr8	57540264	57540464	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 6 of 11)	intron (NM_001167981, intron 6 of 11)	28521.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	27.0	25.0	23.0	205.5	35.5	26.0	19.0	22.5
Merged-chr15-75905647-4	chr15	75905560	75905760	+	955.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029663, intron 2 of 9)	intron (NM_029663, intron 2 of 9)	3684.0	NM_001285433	66656.0	Mm.258927	NM_023240	ENSMUSG00000055762	Eef1d	EF-1-delta	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)	protein-coding	10.0	16.5	16.0	161.5	41.0	11.0	23.5	26.0
Merged-chr10-130314296-4	chr10	130314172	130314372	+	902.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8580.0	NM_183264	67596.0	Mm.131264	NM_183264	ENSMUSG00000034833	Tespa1	5830405N20Rik|A430001F24Rik|AI450549	thymocyte expressed, positive selection associated 1	protein-coding	29.0	13.0	18.0	483.0	25.0	11.0	17.0	14.0
Merged-chr10-21908160-7	chr10	21908056	21908256	+	759.464294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161845, intron 1 of 13)	intron (NM_001161845, intron 1 of 13)	25972.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	5.0	4.5	6.0	29.0	16.0	4.0	7.5	4.0
Merged-chr10-20966304-4	chr10	20966199	20966399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358561, intron 6 of 22)	intron (NM_001358561, intron 6 of 22)	13752.0	NM_001358561	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	27.0	27.5	19.5	188.0	47.5	28.0	32.5	19.5
Merged-chr18-36508020-3	chr18	36507918	36508118	+	686.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010415, intron 3 of 5)	intron (NM_010415, intron 3 of 5)	7787.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	11.5	17.0	5.0	47.0	9.5	0.0	1.0	0.0
Merged-chr1-105865099-3	chr1	105864987	105865187	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	84364.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	5.0	14.0	10.5	59.5	9.0	11.0	3.0	5.0
Merged-chr12-84615306-4	chr12	84615185	84615385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008992, intron 2 of 18)	intron (NM_008992, intron 2 of 18)	2181.0	NM_008992	19300.0	Mm.229109	NM_008992	ENSMUSG00000021240	Abcd4	P69r|P70R|Pxmp1l	ATP-binding cassette, sub-family D (ALD), member 4	protein-coding	33.0	113.5	43.5	606.0	85.5	14.5	24.5	23.0
Merged-chr3-96727597-4	chr3	96727507	96727707	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028925)	promoter-TSS (NM_028925)	-4.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	214.5	325.0	185.5	2863.5	430.0	182.5	218.0	140.5
Merged-chr12-91384492-4	chr12	91384396	91384596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181815)	promoter-TSS (NM_181815)	-87.0	NM_181815	75216.0	Mm.312204	NM_181815	ENSMUSG00000061533	Cep128	4930534B04Rik|5430424K18Rik|AI449708|AI480494|E230024F20	centrosomal protein 128	protein-coding	194.5	270.0	196.0	3959.5	528.0	195.5	324.0	221.0
Merged-chr5-115160921-3	chr5	115160830	115161030	+	881.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-2754.0	NM_175403	109154.0	Mm.153963	NM_175403	ENSMUSG00000048578	Mlec	2410014A08Rik|AI850530|ESTM19|X83352|mKIAA0152	malectin	protein-coding	6.0	5.0	14.5	171.0	12.0	9.5	5.5	7.5
Merged-chr10-40347919-3	chr10	40347870	40348070	+	896.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1338.0	NM_001291817	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	11.0	8.0	13.0	76.5	25.0	15.5	6.0	6.5
Merged-chr11-4218564-2	chr11	4218464	4218664	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028022, intron 1 of 8)	CpG	313.0	NM_028022	71962.0	Mm.7852	NM_028022	ENSMUSG00000020424	Gatsl3	2410008K03Rik|Castor1	GATS protein-like 3	protein-coding	5.0	11.0	6.5	44.5	9.0	3.5	1.5	7.5
Merged-chr6-125313142-2	chr6	125313042	125313242	+	750.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_010736, intron 2 of 9)	intron (NM_010736, intron 2 of 9)	743.0	NM_010736	17000.0	Mm.3122	NM_010736	ENSMUSG00000030339	Ltbr	AI256028|LTbetaR|Ltar|TNF-R-III|TNFCR|TNFR-RP|TNFR2-RP|TNFRrp|Tnfbr|Tnfrsf3	lymphotoxin B receptor	protein-coding	4.5	6.0	11.5	36.5	9.0	6.5	2.0	2.5
Merged-chr2-166967143-3	chr2	166967032	166967232	+	959.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109905, intron 1 of 11)	intron (NM_001109905, intron 1 of 11)	-2415.0	NR_111895	20853.0	Mm.73276	NM_011490	ENSMUSG00000039536	Stau1	5830401L18Rik|AW549911|C85792|Stau	staufen double-stranded RNA binding protein 1	protein-coding	10.0	6.5	11.5	181.0	25.0	4.0	7.0	13.5
Merged-chr15-13391103-3	chr15	13390991	13391191	+	628.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-217416.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	8.5	12.5	7.5	68.0	22.0	8.0	3.5	10.0
Merged-chr2-27028048-4	chr2	27027931	27028131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172659)	promoter-TSS (NM_172659)	-33.0	NM_001177627	227659.0	Mm.41203	NM_172659	ENSMUSG00000036067	Slc2a6	A330096C23|F630103L12Rik|Glut6|Glut9	solute carrier family 2 (facilitated glucose transporter), member 6	protein-coding	134.0	281.0	155.5	1603.5	414.0	137.0	187.0	127.5
Merged-chr3-88465277-4	chr3	88465183	88465383	+	974.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4101.0	NM_001163489	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	23.5	35.5	12.5	269.5	90.5	26.5	30.5	23.0
Merged-chr9-116139732-4	chr9	116139629	116139829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029575, intron 1 of 6)	intron (NM_029575, intron 1 of 6)	35634.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	49.0	48.0	44.5	980.0	118.0	33.5	54.0	55.5
Merged-chr17-24804317-4	chr17	24804224	24804424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029197)	promoter-TSS (NM_029197)	-58.0	NM_029197	75178.0	Mm.52592	NM_029197	ENSMUSG00000024155	Meiob	4930528F23Rik|MLZ-675	meiosis specific with OB domains	protein-coding	34.0	47.5	28.5	345.5	55.0	22.5	16.5	31.5
Merged-chr11-120598523-4	chr11	120598427	120598627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011568)	promoter-TSS (NM_011568)	-5.0	NM_001038230	66156.0	Mm.21645	NM_025389	ENSMUSG00000025135	Anapc11	1110011I19Rik|R75218	anaphase promoting complex subunit 11	protein-coding	184.0	352.5	177.5	1765.0	448.0	203.0	189.5	178.0
Merged-chr5-90900935-4	chr5	90900840	90901040	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2959.0	NM_009140	20310.0	Mm.4979	NM_009140	ENSMUSG00000058427	Cxcl2	CINC-2a|GROb|Gro2|MIP-2|MIP-2a|Mgsa-b|Mip2|Scyb|Scyb2	chemokine (C-X-C motif) ligand 2	protein-coding	22.5	32.5	25.5	405.5	30.5	16.0	27.0	14.0
Merged-chr7-115217017-4	chr7	115216950	115217150	+	946.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	265776.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	13.5	26.5	25.5	357.5	48.0	13.5	25.5	15.0
Merged-chr13-23583261-9	chr13	23583234	23583434	+	862.5031130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178194)	TTS (NM_178194)	1732.0	NM_175654	319156.0	Mm.260530	NM_175654	ENSMUSG00000061482	Hist1h4d	-	histone cluster 1, H4d	protein-coding	7.5	33.5	4.5	93.0	18.0	10.0	13.5	18.0
Merged-chr1-151039382-4	chr1	151039288	151039488	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-45953.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	9.5	5.5	10.5	140.5	30.0	9.5	15.0	6.0
Merged-chr4-130805937-4	chr4	130805864	130806064	+	879.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	Tigger7|DNA|TcMar-Tigger	13427.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	13.5	4.5	25.5	198.0	19.0	6.0	9.5	8.0
Merged-chr1-120122372-4	chr1	120122242	120122442	+	867.8916630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172074, intron 1 of 4)	intron (NM_001172074, intron 1 of 4)	1155.0	NM_001172074	73103.0	Mm.271602	NM_028439	ENSMUSG00000026388	3110009E18Rik	-	RIKEN cDNA 3110009E18 gene	protein-coding	12.5	12.0	13.5	227.0	23.0	19.0	8.5	18.5
Merged-chr15-96621894-4	chr15	96621803	96622003	+	814.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166456, intron 2 of 15)	intron (NM_001166456, intron 2 of 15)	20059.0	NM_134086	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	17.0	17.5	14.0	280.5	25.0	10.0	10.0	0.5
Merged-chr13-89834643-3	chr13	89834544	89834744	+	980.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31A_Mm|LTR|ERVK	-92132.0	NM_001134475	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	0.0	0.0	0.0	0.0	81.0	20.5	33.0	15.5
Merged-chr10-117872797-4	chr10	117872709	117872909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26835.0	NM_024457	215449.0	Mm.233009	NM_024457	ENSMUSG00000052681	Rap1b	2810443E11Rik	RAS related protein 1b	protein-coding	29.0	41.0	50.5	638.5	100.0	19.0	26.5	36.5
Merged-chr2-114624817-3	chr2	114624690	114624890	+	942.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025675, intron 3 of 8)	intron (NM_025675, intron 3 of 8)	30174.0	NM_001356438	66632.0	Mm.117809	NM_025675	ENSMUSG00000057147	Dph6	5730421E18Rik|Atpbd4	diphthamine biosynthesis 6	protein-coding	11.0	11.5	13.5	147.0	17.0	7.5	15.5	9.0
Merged-chr18-67606237-4	chr18	67606108	67606308	+	886.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35147.0	NM_001357523	225659.0	Mm.111928	NM_001081073	ENSMUSG00000073542	Cep76	6230425F05Rik|9630013E05	centrosomal protein 76	protein-coding	14.0	17.5	8.0	165.0	23.5	9.0	9.5	7.5
Merged-chr3-9666087-4	chr3	9665977	9666177	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55992.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	20.0	27.0	29.5	368.0	53.0	22.5	31.0	25.5
Merged-chr11-49157628-3	chr11	49157527	49157727	+	787.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2389.0	NM_146276	258273.0	Mm.377407	NM_146276	ENSMUSG00000048378	Olfr1394	MOR280-1	olfactory receptor 1394	protein-coding	6.5	7.0	8.0	141.5	17.5	6.5	2.5	2.5
Merged-chr10-7936720-4	chr10	7936630	7936830	+	955.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138667, intron 1 of 6)	intron (NM_138667, intron 1 of 6)	16335.0	NM_001359534	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	22.5	31.5	14.0	320.0	57.5	7.5	10.5	13.0
Merged-chr2-19371967-4	chr2	19371812	19372012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029619, intron 1 of 4)	CpG	276.0	NM_029619	76467.0	Mm.27166	NM_029619	ENSMUSG00000023094	Msrb2	2310050L06Rik|Mrsb|Msrb|Pilb	methionine sulfoxide reductase B2	protein-coding	22.0	58.0	52.0	483.5	53.0	24.0	32.0	39.0
Merged-chr15-93405737-4	chr15	93405557	93405757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358749, intron 2 of 8)	intron (NM_001358749, intron 2 of 8)	7193.0	NM_001285863	223828.0	Mm.74208	NM_146062	ENSMUSG00000036167	Pphln1	CR|HSPC206|HSPC232	periphilin 1	protein-coding	13.0	40.5	19.5	228.0	62.5	21.5	23.0	19.5
Merged-chr4-132515657-4	chr4	132515556	132515756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5200.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	213.5	304.5	180.5	2768.5	505.5	175.5	204.0	224.0
Merged-chr5-19951931-4	chr5	19951818	19952018	+	910.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015823, intron 1 of 21)	intron (NM_015823, intron 1 of 21)	44400.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	6.5	16.0	17.0	351.5	28.0	9.5	20.0	16.0
Merged-chr15-77775710-3	chr15	77775604	77775804	+	778.266663	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022410, intron 21 of 40)	intron (NM_022410, intron 21 of 40)	-18694.0	NM_001357895	239552.0	Mm.125650	NM_001081970	ENSMUSG00000056656	Apol8	9830006J20Rik|APOL-II|Apol2	apolipoprotein L 8	protein-coding	6.0	7.0	3.5	28.5	14.5	6.0	6.5	8.0
Merged-chr11-83640363-4	chr11	83640249	83640449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9029.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	112.5	120.0	99.5	1391.0	226.0	75.5	69.0	86.0
Merged-chr14-66257826-4	chr14	66257725	66257925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	23227.0	NM_001162366	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	78.5	76.0	64.0	905.5	132.0	73.5	80.5	54.0
Merged-chr7-19676896-4	chr7	19676804	19677004	+	930.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277944, intron 1 of 4)	intron (NM_001277944, intron 1 of 4)	1037.0	NM_001277944	11813.0	Mm.28394	NM_001277944	ENSMUSG00000002992	Apoc2	apo-CII|apoC-II	apolipoprotein C-II	protein-coding	21.5	28.5	26.5	250.5	41.5	13.0	13.0	7.5
Merged-chr9-122337703-3	chr9	122337612	122337812	+	937.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13904.0	NR_152865	67469.0	Mm.280254	NM_026179	ENSMUSG00000032540	Abhd5	1300003D03Rik|2010002J10Rik|CDS|CGI-58|IECN5|NCIE2	abhydrolase domain containing 5	protein-coding	7.5	12.0	12.0	96.0	11.5	5.5	5.0	8.0
Merged-chr5-104958380-4	chr5	104958277	104958477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030239, intron 10 of 15)	intron (NM_030239, intron 10 of 15)	24340.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	123.0	186.0	177.5	1904.5	298.5	151.5	102.0	141.0
Merged-chr15-100304198-4	chr15	100304082	100304282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027334)	promoter-TSS (NM_027334)	-635.0	NM_027334	70152.0	Mm.488086	NM_027334	ENSMUSG00000054619	Mettl7a1	2210414H16Rik|3300001H21Rik|Aam-B|Mettl7a|UbiE1	methyltransferase like 7A1	protein-coding	58.5	55.0	49.0	892.5	143.0	36.5	46.0	85.5
Merged-chr4-155812384-4	chr4	155812280	155812480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207678)	promoter-TSS (NM_207678)	-109.0	NM_207678	56036.0	Mm.23492	NM_018856	ENSMUSG00000029068	Ccnl2	1700010A01Rik|1810019L15Rik|2010319M22Rik|AA409936|AW261738|Ania-6b|HCLA-150|Pcee|SB138	cyclin L2	protein-coding	199.5	307.0	184.0	2545.0	522.0	151.0	270.5	184.0
Merged-chr4-43256365-4	chr4	43256276	43256476	+	955.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081413, intron 29 of 39)	intron (NM_001081413, intron 29 of 39)	-10783.0	NM_177195	320571.0	Mm.74465	NM_177195	ENSMUSG00000028457	Atp8b5	4930417M19Rik|Feta	ATPase, class I, type 8B, member 5	protein-coding	18.5	22.0	15.5	243.0	34.0	12.5	19.0	11.0
Merged-chr18-79271583-3	chr18	79271480	79271680	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-162189.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	4.5	4.5	12.0	112.5	17.0	5.0	12.0	17.0
Merged-chr3-8928965-4	chr3	8928866	8929066	+	859.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001025261, exon 8 of 8)	3' UTR (NM_001025261, exon 8 of 8)	-5109.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	11.5	12.5	8.5	125.5	24.5	3.0	4.5	12.5
Merged-chr17-51813276-6	chr17	51813196	51813396	+	991.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163632, intron 1 of 10)	CpG	-1112.0	NM_001357636	20230.0	Mm.311655	NM_009122	ENSMUSG00000023927	Satb1	2610306G12Rik|AW413156	special AT-rich sequence binding protein 1	protein-coding	20.5	19.5	19.0	286.0	35.5	7.5	19.5	15.5
Merged-chr7-115132555-3	chr7	115132468	115132668	+	721.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	181294.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	13.0	10.5	11.0	170.5	8.0	0.5	2.5	4.5
Merged-chr11-54492253-4	chr11	54492167	54492367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173753, intron 9 of 17)	L1MB3|LINE|L1	-30578.0	NM_001252494	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	52.0	111.5	56.5	627.0	109.5	48.5	38.0	41.5
Merged-chr7-102244057-4	chr7	102243944	102244144	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019566, intron 1 of 1)	intron (NM_019566, intron 1 of 1)	6074.0	NM_019566	56212.0	Mm.259795	NM_019566	ENSMUSG00000073982	Rhog	2810426G09Rik|Arhg|Sid10750	ras homolog family member G	protein-coding	50.0	61.5	32.5	564.5	103.0	33.5	51.5	31.0
Merged-chr6-116266816-4	chr6	116266732	116266932	+	972.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290339, intron 1 of 6)	L1MC1|LINE|L1	300.0	NM_001290339	67492.0	Mm.272772	NM_001081317	ENSMUSG00000042213	Zfand4	Anubl1	zinc finger, AN1-type domain 4	protein-coding	38.0	53.0	18.5	469.0	114.5	35.0	41.0	30.0
Merged-chr12-91710712-4	chr12	91710613	91710813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	L1Md_A|LINE|L1	75723.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	30.5	39.0	58.0	425.0	78.0	27.0	36.0	29.0
Merged-chr1-166430091-4	chr1	166429998	166430198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20270.0	NM_175170	71592.0	Mm.192094	NM_175170	ENSMUSG00000040596	Pogk	9130401E23Rik|BASS2|mKIAA1513	pogo transposable element with KRAB domain	protein-coding	162.0	258.5	195.5	2834.0	369.0	158.0	182.5	153.0
Merged-chr5-134690464-4	chr5	134690373	134690573	+	985.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1883.0	NM_010717	16885.0	Mm.15409	NM_010717	ENSMUSG00000029674	Limk1	KIZ-1|LIMK-1|Limk	LIM-domain containing, protein kinase	protein-coding	14.5	21.5	20.5	192.0	63.0	25.5	30.0	24.0
Merged-chr2-58907013-1	chr2	58906913	58907113	+	638.0	f0_balb.idr	intron (NM_001362394, intron 10 of 13)	intron (NM_001362394, intron 10 of 13)	151829.0	NM_029692	76654.0	Mm.200370	NM_029692	ENSMUSG00000026839	Upp2	1700124F02Rik|AI266885|UDRPASE2|UP2|UPASE2	uridine phosphorylase 2	protein-coding	11.0	3.0	2.5	100.0	31.0	4.5	6.0	5.5
Merged-chr11-4333216-3	chr11	4333117	4333317	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66421.0	NM_001039537	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	30.0	42.0	42.5	472.0	18.5	14.5	9.5	8.5
Merged-chr7-140999032-4	chr7	140998960	140999160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11684.0	NM_025378	66141.0	Mm.141021	NM_025378	ENSMUSG00000025492	Ifitm3	1110004C05Rik|Cd225|Cdw217|DSPA2b|Fgls|IP15|mil-1	interferon induced transmembrane protein 3	protein-coding	24.0	37.0	27.5	556.5	59.5	26.0	21.0	36.0
Merged-chr7-80642082-4	chr7	80641980	80642180	+	818.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040343, exon 5 of 5)	non-coding (NR_040343, exon 5 of 5)	6063.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	11.0	9.5	10.0	124.5	22.5	10.5	12.5	15.5
Merged-chr2-60962423-1	chr2	60962323	60962523	+	665.0	f0_c57.idr	intron (NM_020296, intron 1 of 13)	CpG	781.0	NM_020296	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	6.0	2.0	5.0	91.5	7.0	4.5	5.0	9.0
Merged-chr2-120096409-3	chr2	120096307	120096507	+	913.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133838, intron 5 of 5)	intron (NM_133838, intron 5 of 5)	58168.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	5.0	9.0	12.0	157.0	8.5	3.5	4.5	9.0
Merged-chr7-89335452-4	chr7	89335450	89335650	+	801.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	intron (NM_001360746, intron 2 of 14)	3237.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	4.5	7.5	18.5	105.5	17.5	8.0	6.0	8.0
Merged-chr5-21383687-4	chr5	21383591	21383791	+	903.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	intron (NM_029195, intron 2 of 18)	11018.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	16.5	3.5	9.0	268.5	26.0	15.0	13.5	8.5
Merged-chr16-22438890-3	chr16	22438815	22439015	+	958.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358428)	promoter-TSS (NM_001358428)	-547.0	NM_001358428	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	7.0	5.5	19.0	125.5	11.0	10.0	5.0	14.5
Merged-chr9-119444901-4	chr9	119444744	119444944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172456)	promoter-TSS (NM_172456)	-116.0	NR_153320	208194.0	Mm.101578	NM_172456	ENSMUSG00000042787	Exog	AW557704|ENGL-B|ENGL-a|Endogl1|Endogl2|Engl|Engla|Englb	endo/exonuclease (5'-3'), endonuclease G-like	protein-coding	46.0	95.0	37.5	624.5	104.5	55.5	68.5	36.0
Merged-chr7-126896938-2	chr7	126896838	126897038	+	728.333374	f1_balb.idr|f1_c57bl6.idr	exon (NM_028389, exon 3 of 6)	exon (NM_028389, exon 3 of 6)	1340.0	NM_026827	68742.0	Mm.248646	NM_026827	ENSMUSG00000060538	Tmem219	1110032O16Rik|2900045G02Rik|IGFBP-3R	transmembrane protein 219	protein-coding	4.5	5.0	6.5	14.5	6.5	8.5	0.5	2.0
Merged-chr15-97212769-4	chr15	97212686	97212886	+	959.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34321.0	NM_172293	239647.0	Mm.130036	NM_172293	ENSMUSG00000044250	Pced1b	Fam113b	PC-esterase domain containing 1B	protein-coding	17.5	20.0	8.0	142.5	30.0	8.0	16.5	3.5
Merged-chr13-30972317-4	chr13	30972203	30972403	+	845.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025588, intron 1 of 27)	ORR1E|LTR|ERVL-MaLR	1744.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	11.5	15.0	11.5	138.0	29.5	9.0	6.5	11.5
Merged-chr9-73039637-4	chr9	73039465	73039665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001308425)	promoter-TSS (NM_001308425)	134.0	NM_018889	55981.0	Mm.139905	NM_018889	ENSMUSG00000079469	Pigb	Pig-b	phosphatidylinositol glycan anchor biosynthesis, class B	protein-coding	30.0	10.5	46.0	407.5	66.5	27.5	19.5	27.5
Merged-chr2-18987711-3	chr2	18987630	18987830	+	850.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008845, intron 1 of 9)	RMER4B|LTR|ERVK	10391.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	6.0	6.5	0.5	149.0	6.0	7.5	11.0	9.5
Merged-chr7-97842937-4	chr7	97842858	97843058	+	952.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011035)	promoter-TSS (NM_011035)	19.0	NM_011035	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	22.0	27.0	17.5	130.5	33.0	27.5	25.5	22.0
Merged-chr9-107579561-4	chr9	107579443	107579643	+	884.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008317, exon 4 of 4)	3' UTR (NM_008317, exon 4 of 4)	-1126.0	NM_019750	56441.0	Mm.10305	NM_019750	ENSMUSG00000079334	Nat6	AI225910|Fus2	N-acetyltransferase 6	protein-coding	13.5	19.5	9.0	117.5	32.0	22.0	4.5	9.0
Merged-chr3-87324046-2	chr3	87323947	87324147	+	786.583374	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-33834.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	3.5	6.5	8.0	22.5	9.5	10.0	4.5	5.0
Merged-chr11-120631690-3	chr11	120631597	120631797	+	894.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010756, intron 1 of 2)	intron (NM_010756, intron 1 of 2)	1850.0	NM_010756	17134.0	Mm.268010	NM_010756	ENSMUSG00000051510	Mafg	AA545192|C630022N07Rik	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein G (avian)	protein-coding	8.5	9.5	4.0	82.5	31.0	9.5	10.0	8.0
Merged-chr15-100119581-4	chr15	100119458	100119658	+	989.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 2 of 37)	intron (NM_001159361, intron 2 of 37)	-34838.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	29.5	37.5	21.0	510.0	40.0	20.0	17.0	12.0
Merged-chr2-166826412-2	chr2	166826312	166826512	+	990.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001085495, intron 1 of 38)	MIRb|SINE|MIR	20831.0	NM_001085495	99371.0	Mm.297192	NM_001085495	ENSMUSG00000074582	Arfgef2	AI463430|AW493672|BIG2|E230011G24Rik	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	protein-coding	7.5	17.0	0.0	43.5	25.0	7.0	5.5	10.5
Merged-chr18-39487040-3	chr18	39486904	39487104	+	707.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008173, exon 1 of 8)	exon (NM_008173, exon 1 of 8)	241.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	4.5	6.0	0.5	51.0	7.5	4.5	5.5	8.0
Merged-chr10-94552327-4	chr10	94552222	94552422	+	985.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359760, intron 1 of 3)	intron (NM_001359760, intron 1 of 3)	1402.0	NM_001359760	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	30.0	24.5	27.0	553.0	62.0	12.0	24.5	21.0
Merged-chr15-90678691-4	chr15	90678594	90678794	+	952.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033851, intron 1 of 3)	intron (NM_001033851, intron 1 of 3)	694.0	NM_025815	66871.0	Mm.290991	NM_025815	ENSMUSG00000052560	Cpne8	1200003E11Rik|1500031E20Rik	copine VIII	protein-coding	27.0	30.0	12.0	313.0	33.5	8.0	8.0	18.5
Merged-chr9-41158283-4	chr9	41158158	41158358	+	974.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176860)	promoter-TSS (NM_176860)	-196.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	23.0	16.5	20.0	395.0	60.0	29.0	24.0	18.5
Merged-chr7-141372347-4	chr7	141372240	141372440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7230.0	NR_033532	320871.0	Mm.475463	NM_177280	ENSMUSG00000086844	B230206H07Rik	-	RIKEN cDNA B230206H07 gene	ncRNA	96.5	167.0	136.0	2069.5	261.0	88.0	118.0	107.5
Merged-chr11-4527282-4	chr11	4527181	4527381	+	832.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028860, intron 4 of 17)	intron (NM_028860, intron 4 of 17)	67534.0	NM_028860	74302.0	Mm.425669	NM_028860	ENSMUSG00000034354	Mtmr3	1700092A20Rik|AI255150|AW557713|FYVE-DSP1|ZFYVE10|mKIAA0371	myotubularin related protein 3	protein-coding	20.5	20.0	21.5	410.0	35.5	10.5	16.5	16.0
Merged-chr15-97789182-4	chr15	97789082	97789282	+	860.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026353, intron 1 of 2)	intron (NM_026353, intron 1 of 2)	4817.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	14.5	15.0	13.0	62.0	25.5	5.0	7.5	16.0
Merged-chr10-57448118-3	chr10	57447987	57448187	+	766.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38266.0	NR_045353	74928.0	Mm.416643	NR_045353	ENSMUSG00000097370	4930467K11Rik	-	RIKEN cDNA 4930467K11 gene	ncRNA	8.0	16.0	9.5	77.0	24.5	7.0	5.0	3.0
Merged-chr1-167350619-2	chr1	167350519	167350719	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_019993, intron 1 of 10)	intron (NM_019993, intron 1 of 10)	628.0	NM_019993	56752.0	Mm.292539	NM_019993	ENSMUSG00000026687	Aldh9a1	AA139417|Abaldh|ESTM40|TMABA-DH|Tmabadh	aldehyde dehydrogenase 9, subfamily A1	protein-coding	12.0	13.5	14.0	157.5	22.0	7.5	7.0	10.5
Merged-chr4-59534053-4	chr4	59533943	59534143	+	880.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178164, intron 1 of 13)	intron (NM_178164, intron 1 of 13)	15321.0	NM_178164	230257.0	Mm.331640	NM_144904	ENSMUSG00000028382	Ptbp3	5830471K22Rik|AA407443|AI462022|AW107884|C86549|Rod1	polypyrimidine tract binding protein 3	protein-coding	0.5	13.0	6.5	112.0	38.5	13.5	8.5	20.5
Merged-chr6-145304244-1	chr6	145304144	145304344	+	805.0	f0_c57.idr	Intergenic	RSINE1|SINE|B4	53692.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	5.0	1.5	5.5	76.0	26.0	10.5	14.0	14.5
Merged-chr19-3911892-4	chr19	3911785	3911985	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271443, intron 1 of 6)	intron (NM_001271443, intron 1 of 6)	889.0	NM_144870	225887.0	Mm.44227	NM_144870	ENSMUSG00000059734	Ndufs8	BC021616|CI-23kD|TYKY	NADH dehydrogenase (ubiquinone) Fe-S protein 8	protein-coding	44.5	47.0	21.5	437.5	90.5	31.5	36.0	27.5
Merged-chr13-45311639-3	chr13	45311473	45311673	+	769.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78169.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	0.0	1.5	1.0	33.0	14.5	5.5	6.0	8.0
Merged-chr8-22477790-4	chr8	22477720	22477920	+	663.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001012667)	promoter-TSS (NM_001012667)	-941.0	NM_001146117	102032.0	Mm.378231	NM_001012667	ENSMUSG00000031534	Smim19	AI316807|BG694986|EST-c39	small integral membrane protein 19	protein-coding	6.0	11.0	18.5	103.0	32.0	6.5	14.0	10.5
Merged-chr4-53409718-3	chr4	53409604	53409804	+	585.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30709.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	11.5	16.0	6.5	48.0	11.5	14.0	8.0	1.0
Merged-chr10-57721795-2	chr10	57721695	57721895	+	953.7000119999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_008863, intron 4 of 5)	B1_Mm|SINE|Alu	-63128.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	2.0	2.0	9.0	75.0	17.5	7.5	6.0	5.5
Merged-chr5-24908947-4	chr5	24908838	24909038	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170556)	promoter-TSS (NM_001170556)	-429.0	NM_001170555	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	24.5	42.5	55.5	490.5	48.0	21.5	25.0	29.5
Merged-chr17-26505605-4	chr17	26505542	26505742	+	974.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013642)	TTS (NM_013642)	2830.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	11.0	29.5	16.0	212.5	32.5	28.0	11.0	15.5
Merged-chr1-80758597-4	chr1	80758533	80758733	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175291)	promoter-TSS (NM_175291)	-80.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	33.0	61.5	49.5	618.5	108.0	31.5	49.5	40.0
Merged-chr8-123443076-4	chr8	123442961	123443161	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001281803)	promoter-TSS (NM_001281803)	105.0	NM_054046	23854.0	Mm.275127	NM_054046	ENSMUSG00000001482	Def8	AI449518|D8Ertd713e|DEF-8	differentially expressed in FDCP 8	protein-coding	57.0	54.5	77.5	606.0	66.5	37.0	25.0	54.0
Merged-chr10-4346974-4	chr10	4346881	4347081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031185, intron 2 of 3)	CpG	40494.0	NM_001359811	381990.0	Mm.262466	NM_001033466	ENSMUSG00000075327	Zbtb2	Gm1103	zinc finger and BTB domain containing 2	protein-coding	35.5	40.5	27.0	535.5	95.0	27.5	46.0	30.0
Merged-chr16-31949225-3	chr16	31949158	31949358	+	963.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027897)	promoter-TSS (NR_027897)	712.0	NM_026554	68092.0	Mm.290027	NM_026554	ENSMUSG00000022774	Ncbp2	20kDa|5930413E18Rik|AA536802|AI843301|C79367	nuclear cap binding protein subunit 2	protein-coding	2.5	6.5	9.5	85.5	21.0	5.5	5.0	12.5
Merged-chr2-122166345-2	chr2	122166241	122166441	+	886.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_080510, intron 1 of 6)	L1Md_F2|LINE|L1	5641.0	NM_080510	70928.0	Mm.379188	NM_080510	ENSMUSG00000033368	Trim69	4921519C19Rik|Rnf36|Trif|Trimless	tripartite motif-containing 69	protein-coding	1.0	1.0	5.0	9.5	15.5	7.0	13.0	6.5
Merged-chr8-41011014-2	chr8	41010913	41011113	+	813.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 7 of 13)	intron (NM_001005863, intron 7 of 13)	-6455.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	8.5	7.0	1.0	42.0	5.5	6.5	9.0	11.0
Merged-chr1-135686910-4	chr1	135686802	135687002	+	963.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33161.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	21.0	43.5	22.0	352.5	27.0	10.0	18.0	20.5
Merged-chr9-107629274-4	chr9	107629181	107629381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008138, intron 1 of 8)	CT-rich|Low_complexity|Low_complexity	6061.0	NM_008138	14678.0	Mm.196464	NM_008138	ENSMUSG00000032562	Gnai2	C76432|Galphai2|Gia|Gnai-2	guanine nucleotide binding protein (G protein), alpha inhibiting 2	protein-coding	116.0	108.5	59.0	1089.5	224.5	83.0	92.5	82.5
Merged-chr15-102510799-4	chr15	102510711	102510911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358844)	promoter-TSS (NM_001358844)	-111.0	NM_001358844	26404.0	Mm.172897	NM_009582	ENSMUSG00000023050	Map3k12	DLK|MUK|Zpk	mitogen-activated protein kinase kinase kinase 12	protein-coding	38.0	43.0	27.0	409.5	83.5	53.5	52.0	21.5
Merged-chr7-104447892-4	chr7	104447809	104448009	+	856.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009099, intron 1 of 7)	Lx|LINE|L1	-1784.0	NM_001357467	20128.0	Mm.295578	NM_009099	ENSMUSG00000030921	Trim30a	Rpt-1|Rpt1|Trim30	tripartite motif-containing 30A	protein-coding	15.5	16.5	2.0	167.5	28.0	7.5	8.0	14.5
Merged-chr11-117115056-4	chr11	117114902	117115102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029459)	promoter-TSS (NR_029459)	-170.0	NR_029459	74136.0	Mm.272312	NM_028777	ENSMUSG00000020823	Sec14l1	1200017E04Rik|2810012L19Rik|Naa-35	SEC14-like lipid binding 1	protein-coding	75.0	147.5	65.0	591.0	239.5	87.0	70.0	89.0
Merged-chr17-8836447-4	chr17	8836338	8836538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	-13547.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	31.5	71.0	27.5	257.5	63.0	18.0	23.0	5.0
Merged-chr11-106158309-3	chr11	106158209	106158409	+	862.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001356459, exon 5 of 5)	3' UTR (NM_001356459, exon 5 of 5)	1618.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	3.5	5.5	11.5	35.5	25.0	7.0	7.5	12.5
Merged-chr4-155992511-4	chr4	155992400	155992600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011341)	promoter-TSS (NM_011341)	178.0	NM_080445	117592.0	Mm.440185	NM_080445	ENSMUSG00000050796	B3galt6	BB129894|GalTII	UDP-Gal:betaGal beta 1,3-galactosyltransferase, polypeptide 6	protein-coding	79.5	184.0	88.0	979.5	161.0	90.0	64.5	102.0
Merged-chr12-86824187-4	chr12	86824095	86824295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60619.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	69.5	82.0	59.5	960.0	117.0	51.5	53.5	64.0
Merged-chr3-31403215-3	chr3	31403090	31403290	+	935.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92871.0	NM_172861	241919.0	Mm.285366	NM_172861	ENSMUSG00000069072	Slc7a14	A930013N06|BC061928	solute carrier family 7 (cationic amino acid transporter, y+ system), member 14	protein-coding	10.0	5.0	14.0	410.5	15.0	5.0	5.0	3.0
Merged-chr2-76370103-4	chr2	76370090	76370290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153405, exon 1 of 10)	exon (NM_153405, exon 1 of 10)	206.0	NM_153405	241490.0	Mm.33310	NM_153405	ENSMUSG00000042369	Rbm45	Drb1|Drbp1|G430095G15Rik	RNA binding motif protein 45	protein-coding	18.5	18.5	20.0	231.5	49.0	29.0	19.0	24.0
Merged-chr9-120083321-4	chr9	120083212	120083412	+	916.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-8821.0	NM_007720	12776.0	Mm.442098	NM_007720	ENSMUSG00000042262	Ccr8	C-C|C-C CKR-8|CC-CKR-8|CCR-8|CKR-8|Cmkbr8|mCCR8	chemokine (C-C motif) receptor 8	protein-coding	11.5	26.5	11.0	183.5	40.0	10.0	21.0	18.5
Merged-chr9-50444012-4	chr9	50443915	50444115	+	825.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-50510.0	NM_029639	76509.0	Mm.29959	NM_029639	ENSMUSG00000032068	Plet1	0610037B23Rik|1600029D21Rik|AA407923|AU043048	placenta expressed transcript 1	protein-coding	11.0	11.5	8.5	96.5	12.5	10.5	11.5	10.0
Merged-chr12-106658445-4	chr12	106658352	106658552	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57872.0	NR_015512	71033.0	Mm.159404	NR_015512	ENSMUSG00000085820	4933406K04Rik	4930426M03Rik|4930485I22Rik|4933427G14Rik	RIKEN cDNA 4933406K04 gene	ncRNA	59.5	96.5	94.0	1465.0	43.5	15.5	39.0	22.5
Merged-chr6-51468746-5	chr6	51468653	51468853	+	977.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016806, intron 1 of 10)	intron (NM_016806, intron 1 of 10)	1141.0	NR_104468	53379.0	Mm.155896	NM_016806	ENSMUSG00000004980	Hnrnpa2b1	9130414A06Rik|Hnrpa2|Hnrpa2b1|hnrnp-A	heterogeneous nuclear ribonucleoprotein A2/B1	protein-coding	7.5	13.5	18.5	200.5	29.0	24.5	10.5	23.5
Merged-chr10-8883305-2	chr10	8883205	8883405	+	863.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	2765.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.0	13.5	4.5	50.0	17.0	8.0	10.0	5.0
Merged-chr3-107940090-2	chr3	107939990	107940190	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008184, intron 7 of 7)	intron (NM_008184, intron 7 of 7)	3659.0	NM_008184	14867.0	Mm.458154	NM_008184	ENSMUSG00000068762	Gstm6	-	glutathione S-transferase, mu 6	protein-coding	9.0	1.5	7.0	64.0	5.5	4.5	5.5	6.5
Merged-chr3-96501591-4	chr3	96501498	96501698	+	993.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CGTG)n|Simple_repeat|Simple_repeat	-23587.0	NM_027126	69585.0	Mm.171314	NM_027126	ENSMUSG00000038403	Hfe2	2310035L15Rik|5230400G09Rik|AI414844|AI789733|DL-M|HJV|Rgmc|hemojuvelin	hemochromatosis type 2 (juvenile)	protein-coding	22.0	21.5	12.0	186.0	50.5	11.5	9.0	32.0
Merged-chr14-66845682-4	chr14	66845577	66845777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	22923.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	57.0	70.0	20.5	242.0	155.0	61.5	71.0	49.5
Merged-chr9-78489095-4	chr9	78488981	78489181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7357.0	NM_010106	13627.0	Mm.138471	NM_010106	ENSMUSG00000037742	Eef1a1	-	eukaryotic translation elongation factor 1 alpha 1	protein-coding	14.5	76.0	38.0	379.5	120.0	41.0	44.5	47.5
Merged-chr10-9876026-4	chr10	9875958	9876158	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	MTC|LTR|ERVL-MaLR	24982.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	28.0	22.5	29.5	456.5	55.5	13.5	25.0	24.0
Merged-chr17-5402229-4	chr17	5402129	5402329	+	953.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16538.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	13.5	32.0	18.0	178.0	55.0	13.5	13.5	6.0
Merged-chr1-174043882-4	chr1	174043779	174043979	+	922.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_146717)	TTS (NM_146717)	1946.0	NM_146717	258712.0	Mm.223146	NM_146717	ENSMUSG00000045381	Olfr433	MOR123-1	olfactory receptor 433	protein-coding	10.5	28.5	20.0	129.5	38.0	10.5	18.0	6.0
Merged-chr19-11588344-4	chr19	11588239	11588439	+	800.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026835, intron 5 of 6)	intron (NM_026835, intron 5 of 6)	16465.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	11.5	13.0	7.5	130.0	25.5	7.0	14.0	5.5
Merged-chr1-193894279-4	chr1	193894180	193894380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	328479.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	108.0	110.5	92.0	1635.0	219.5	74.0	85.0	84.0
Merged-chr2-38376152-2	chr2	38376052	38376252	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24844.0	NM_010710	16870.0	Mm.142856	NM_010710	ENSMUSG00000000247	Lhx2	LH2A|Lh-2|Lim2|ap|apterous	LIM homeobox protein 2	protein-coding	3.5	7.5	4.0	46.5	12.0	8.5	8.5	8.5
Merged-chr17-26895778-2	chr17	26895678	26895878	+	950.125	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21313.0	NM_053173	16580.0	Mm.491138	NM_016761	ENSMUSG00000024301	Kifc5b	Hset|KNSL2|Kifc5a	kinesin family member C5B	protein-coding	5.0	2.5	2.0	68.0	20.5	5.0	5.5	6.5
Merged-chr10-57755409-3	chr10	57755305	57755505	+	885.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29518.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	8.5	4.0	4.0	173.0	8.0	5.5	8.5	7.0
Merged-chr4-15080648-3	chr4	15080547	15080747	+	827.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178617, intron 3 of 12)	intron (NM_178617, intron 3 of 12)	68484.0	NM_178617	69352.0	Mm.389031	NM_178617	ENSMUSG00000040536	Necab1	1700003H21Rik|Efcbp1|STIP-1	N-terminal EF-hand calcium binding protein 1	protein-coding	8.0	34.5	20.5	448.5	1.5	4.0	2.5	0.0
Merged-chr1-171442125-4	chr1	171442027	171442227	+	973.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172647, intron 1 of 9)	intron (NM_172647, intron 1 of 9)	4566.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	31.5	34.0	30.5	401.0	64.0	20.5	10.0	37.5
Merged-chr10-76344954-3	chr10	76344844	76345044	+	980.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081419, intron 1 of 37)	CpG	347.0	NM_001081419	64451.0	Mm.33183	NM_001081419	ENSMUSG00000020231	Dip2a	4931420H10Rik|AI426328|Dip2|Kiaa0184-hp|mKIAA0184	disco interacting protein 2 homolog A	protein-coding	12.5	16.5	15.5	146.5	28.5	9.5	11.5	6.5
Merged-chr11-51858820-4	chr11	51858700	51858900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1170.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	22.0	24.0	42.5	375.5	51.0	21.0	20.0	28.0
Merged-chr7-89337988-4	chr7	89337883	89338083	+	969.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 2 of 14)	intron (NM_001360746, intron 2 of 14)	804.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	19.5	25.0	15.5	212.5	44.5	23.0	19.0	13.5
Merged-chr15-64060555-5	chr15	64060487	64060687	+	986.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144846)	promoter-TSS (NM_144846)	-139.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	16.5	19.5	12.0	141.5	38.5	26.0	22.5	9.0
Merged-chr17-86969801-4	chr17	86969746	86969946	+	938.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145491, intron 2 of 4)	intron (NM_145491, intron 2 of 4)	6735.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	30.5	22.5	8.5	363.0	26.0	12.0	18.0	24.0
Merged-chr4-132748932-4	chr4	132748851	132749051	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133888, intron 1 of 7)	intron (NM_133888, intron 1 of 7)	8220.0	NM_133888	100340.0	Mm.287187	NM_133888	ENSMUSG00000028885	Smpdl3b	1110054A24Rik|AU045240|Asml3b	sphingomyelin phosphodiesterase, acid-like 3B	protein-coding	20.0	96.5	23.5	185.0	84.5	25.0	25.0	26.5
Merged-chr7-15921952-4	chr7	15921814	15922014	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009156, intron 1 of 5)	intron (NM_009156, intron 1 of 5)	457.0	NM_009156	20364.0	Mm.42829	NM_009156	ENSMUSG00000041571	Selenow	Sepw1|selW	selenoprotein W	protein-coding	39.0	50.0	38.0	330.5	53.5	22.0	27.0	20.0
Merged-chr2-29200052-4	chr2	29199970	29200170	+	927.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305805, intron 4 of 7)	intron (NM_001305805, intron 4 of 7)	48029.0	NM_001305805	171171.0	Mm.442448	NM_133500	ENSMUSG00000035513	Ntng2	2610016D08Rik|Lmnt2	netrin G2	protein-coding	16.5	17.5	8.5	113.5	23.5	19.0	18.5	10.0
Merged-chr2-24385102-6	chr2	24385072	24385272	+	909.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177611)	promoter-TSS (NM_177611)	-160.0	NM_177611	215632.0	Mm.490434	NM_177611	ENSMUSG00000026979	Psd4	BC046518|EFA6B	pleckstrin and Sec7 domain containing 4	protein-coding	9.0	1.0	10.0	80.5	21.0	6.5	9.5	12.0
Merged-chr7-102687280-4	chr7	102687166	102687366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001307998)	promoter-TSS (NM_001307998)	61.0	NM_198012	101700.0	Mm.39043	NM_198012	ENSMUSG00000073968	Trim68	AI894158|F730114J12Rik|Rnf137|SS-56	tripartite motif-containing 68	protein-coding	89.0	119.0	135.0	1821.5	177.0	56.0	82.0	95.5
Merged-chr11-61174584-4	chr11	61174453	61174653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004143, intron 1 of 12)	CpG	506.0	NM_001004143	216825.0	Mm.30602	NM_001004143	ENSMUSG00000042506	Usp22	AI427806	ubiquitin specific peptidase 22	protein-coding	24.5	28.0	18.0	229.5	53.0	20.5	26.5	26.0
Merged-chr14-54883322-4	chr14	54883235	54883435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007537)	promoter-TSS (NM_007537)	-90.0	NM_007537	12050.0	Mm.6967	NM_007537	ENSMUSG00000089682	Bcl2l2	AW048834|Bcl-w|Gtrgal2|Gtrosa41|bclw|c98	BCL2-like 2	protein-coding	25.5	31.0	9.5	324.5	65.0	28.0	28.5	27.0
Merged-chr15-86278720-4	chr15	86278604	86278804	+	841.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358062, intron 1 of 9)	intron (NM_001358062, intron 1 of 9)	1029.0	NM_001358062	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	11.5	15.5	11.5	234.5	20.0	10.0	6.0	6.5
Merged-chr9-71188795-3	chr9	71188688	71188888	+	923.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110517, intron 5 of 5)	MLT1D|LTR|ERVL-MaLR	20012.0	NR_110517	102635087.0	Mm.444536	NR_110517	ENSMUSG00000111429	Gm32511	-	predicted gene, 32511	ncRNA	4.0	17.0	1.5	69.5	33.5	9.5	9.0	7.0
Merged-chr8-79711745-4	chr8	79711629	79711829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357235)	promoter-TSS (NM_001357235)	11.0	NM_015751	24015.0	Mm.5831	NM_015751	ENSMUSG00000058355	Abce1	C79080|Oabp|RLI|RNS41|RNS4I|Rnaseli	ATP-binding cassette, sub-family E (OABP), member 1	protein-coding	150.0	212.0	146.0	2021.5	376.5	134.5	172.0	143.5
Merged-chr17-25823641-4	chr17	25823542	25823742	+	955.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173741)	promoter-TSS (NM_173741)	15.0	NM_173741	268933.0	Mm.95512	NM_173741	ENSMUSG00000025737	Wdr24	BC037651	WD repeat domain 24	protein-coding	14.5	21.0	12.5	228.5	39.0	18.5	19.0	12.0
Merged-chr13-112667346-4	chr13	112667252	112667452	+	847.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 1 of 14)	intron (NM_178746, intron 1 of 14)	6586.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	14.0	12.0	5.5	207.0	44.0	9.5	17.0	15.5
Merged-chr8-46735731-4	chr8	46735624	46735824	+	824.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045750, intron 2 of 2)	intron (NR_045750, intron 2 of 2)	3791.0	NR_045750	100503498.0	Mm.187358	NR_045750	ENSMUSG00000097534	Gm16675	-	predicted gene, 16675	ncRNA	11.0	15.5	6.5	154.0	23.0	6.0	7.0	8.5
Merged-chr7-120206179-4	chr7	120206061	120206261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026458, intron 1 of 30)	intron (NM_026458, intron 1 of 30)	2197.0	NM_026458	67928.0	Mm.158178	NM_026458	ENSMUSG00000062017	Abca14	1700110B15Rik|4930539G24Rik	ATP-binding cassette, sub-family A (ABC1), member 14	protein-coding	44.5	61.0	50.0	1049.5	95.5	52.0	55.5	46.0
Merged-chr4-117041617-4	chr4	117041525	117041725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111277, intron 3 of 11)	intron (NM_001111277, intron 3 of 11)	22223.0	NM_001111277	108067.0	Mm.34612	NM_175135	ENSMUSG00000028683	Eif2b3	1190002P15Rik	eukaryotic translation initiation factor 2B, subunit 3	protein-coding	56.5	64.5	70.5	812.0	117.0	47.5	57.0	76.5
Merged-chr4-129062904-3	chr4	129062782	129062982	+	946.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029219, intron 1 of 8)	intron (NM_029219, intron 1 of 8)	4611.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	9.5	22.5	6.5	88.0	39.0	22.5	8.5	4.5
Merged-chr10-13470469-4	chr10	13470377	13470577	+	924.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	3919.0	NM_001195065	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	21.5	25.0	14.0	451.5	27.0	5.0	14.0	17.0
Merged-chr4-133469258-3	chr4	133469138	133469338	+	735.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10895.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	9.0	4.5	9.5	80.0	24.5	2.0	3.5	7.5
Merged-chr10-44565321-4	chr10	44565245	44565445	+	905.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-106597.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	13.5	27.5	18.5	335.5	33.0	6.0	7.0	9.0
Merged-chr13-67723968-3	chr13	67723878	67724078	+	943.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145622, intron 1 of 3)	intron (NM_145622, intron 1 of 3)	5195.0	NM_145622	235907.0	Mm.440123	NM_145622	ENSMUSG00000071281	Zfp65	KRAB5|Zfp71-rs1|pz114	zinc finger protein 65	protein-coding	5.5	16.0	17.0	103.5	21.5	9.5	12.5	11.5
Merged-chr6-87542811-4	chr6	87542708	87542908	+	945.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9549.0	NM_001286610	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	7.0	4.0	10.0	245.0	19.5	6.5	14.5	14.5
Merged-chr7-19283183-3	chr7	19283132	19283332	+	900.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013648, intron 1 of 9)	intron (NM_013648, intron 1 of 9)	608.0	NM_013648	20167.0	Mm.24142	NM_013648	ENSMUSG00000030401	Rtn2	MMS10-P|Ms10p|NSPLI|Nspl1	reticulon 2 (Z-band associated protein)	protein-coding	3.0	4.5	7.5	107.0	20.0	7.5	8.0	13.0
Merged-chr3-121815182-5	chr3	121815100	121815300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355756)	promoter-TSS (NM_001355756)	102.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	43.0	57.0	43.5	744.5	95.0	47.5	57.5	53.5
Merged-chr2-131909935-4	chr2	131909852	131910052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011170)	promoter-TSS (NM_011170)	24.0	NM_001278256	19122.0	Mm.648	NM_011170	ENSMUSG00000079037	Prnp	AA960666|AI325101|CD230|PrP|PrP<C>|PrPC|PrPSc|Prn-i|Prn-p|Sinc|prP27-30|prP33-35C	prion protein	protein-coding	85.0	121.0	100.0	778.5	176.5	80.5	98.0	87.5
Merged-chr8-115678374-4	chr8	115678277	115678477	+	993.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	28517.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	19.5	45.0	21.5	538.5	56.0	12.5	21.5	25.0
Merged-chr10-41580032-3	chr10	41579950	41580150	+	924.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 35 of 47)	intron (NM_001358562, intron 35 of 47)	12034.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	6.5	14.5	6.5	145.0	21.5	0.5	16.5	6.5
Merged-chr1-14506642-3	chr1	14506539	14506739	+	897.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-196440.0	NM_010164	14048.0	Mm.250185	NM_010164	ENSMUSG00000025932	Eya1	bor	EYA transcriptional coactivator and phosphatase 1	protein-coding	7.0	17.5	16.5	233.5	7.0	6.0	6.0	11.5
Merged-chr6-29536961-4	chr6	29536878	29537078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_012057, exon 9 of 9)	3' UTR (NM_012057, exon 9 of 9)	7696.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	22.0	41.0	38.0	735.5	89.5	25.5	29.5	31.0
Merged-chr10-19033859-4	chr10	19033774	19033974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-18464.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	80.0	127.5	82.0	957.0	168.5	75.0	67.0	47.0
Merged-chr9-31082421-3	chr9	31082332	31082532	+	889.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49367.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	1.5	5.0	5.0	91.0	27.5	7.0	11.5	11.0
Merged-chr9-120805007-1	chr9	120804907	120805107	+	1000.0	f0_balb.idr	Intergenic	Intergenic	110243.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	5.0	4.5	18.0	158.0	3.0	3.5	0.0	0.0
Merged-chr18-36242298-4	chr18	36242180	36242380	+	799.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38882.0	NM_008989	19290.0	Mm.231802	NM_008989	ENSMUSG00000043991	Pura	CAGER-1|Pur-alpha|ssCRE-BP	purine rich element binding protein A	protein-coding	8.0	11.0	12.5	112.5	25.5	4.0	5.5	13.5
Merged-chr11-70668905-4	chr11	70668802	70669002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178116)	TTS (NM_178116)	514.0	NM_172561	216873.0	Mm.432524	NM_172561	ENSMUSG00000018287	Spag7	5730443G10|ACRP|FSA-1|Fsa1l	sperm associated antigen 7	protein-coding	159.0	265.0	167.0	1847.5	374.5	185.5	181.5	118.5
Merged-chr6-57513858-4	chr6	57513750	57513950	+	683.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175523, intron 6 of 6)	intron (NM_175523, intron 6 of 6)	21576.0	NM_175523	243382.0	Mm.396893	NM_175523	ENSMUSG00000037826	Ppm1k	2900063A19Rik|A930026L03Rik|PP2Cm	protein phosphatase 1K (PP2C domain containing)	protein-coding	9.0	14.5	13.0	58.5	33.5	12.0	6.5	2.0
Merged-chr8-109564086-4	chr8	109563990	109564190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151644, intron 1 of 26)	intron (NR_151644, intron 1 of 26)	1771.0	NR_151644	64340.0	Mm.23705	NM_178380	ENSMUSG00000037993	Dhx38	5730550P09Rik|AI325984|AW540902|Ddx38|KIAA0224|Prp16	DEAH (Asp-Glu-Ala-His) box polypeptide 38	protein-coding	60.5	112.0	38.0	894.5	128.0	58.0	70.0	63.5
Merged-chr9-45102826-3	chr9	45102711	45102911	+	938.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005421, intron 8 of 10)	intron (NM_001005421, intron 8 of 10)	-15065.0	NM_001014761	72821.0	Mm.229373	NM_001014761	ENSMUSG00000070304	Scn2b	2810451E09Rik|AI840361|Gm183	sodium channel, voltage-gated, type II, beta	protein-coding	21.0	20.5	13.5	200.5	4.0	0.5	0.0	3.0
Merged-chr19-3951622-4	chr19	3951547	3951747	+	904.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7161.0	NM_028545	73458.0	Mm.482922	NM_028545	ENSMUSG00000037263	Aldh3b3	1700055N04Rik	aldehyde dehydrogenase 3 family, member B3	protein-coding	12.5	6.0	8.5	193.5	25.5	6.0	15.0	10.0
Merged-chr18-49980378-4	chr18	49980267	49980467	+	869.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177759, intron 1 of 1)	intron (NM_001177759, intron 1 of 1)	940.0	NM_001177759	106869.0	Mm.27740	NM_134131	ENSMUSG00000062210	Tnfaip8	AA987150|E130304C20Rik|Gg2-1|Gm10539|Nded|Ssc-2|Tipe	tumor necrosis factor, alpha-induced protein 8	protein-coding	13.0	16.0	14.5	136.5	28.0	7.0	9.0	12.5
Merged-chr11-98546001-3	chr11	98545908	98546108	+	648.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011771)	promoter-TSS (NM_011771)	23.0	NM_011771	22780.0	Mm.133367	NM_011771	ENSMUSG00000018168	Ikzf3	5830411O07Rik|Aiolos|Zfpn1a3|Znfn1a3	IKAROS family zinc finger 3	protein-coding	10.0	15.0	8.0	59.5	16.0	6.5	2.5	12.0
Merged-chr15-6278740-4	chr15	6278650	6278850	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21039.0	NM_001008702	13132.0	Mm.240830	NM_023118	ENSMUSG00000022150	Dab2	5730435J12Rik|AA960054|AI957090|D15Wsu122e|D630005B22Rik|Doc-2|Doc2|p96	disabled 2, mitogen-responsive phosphoprotein	protein-coding	21.0	22.0	3.5	172.5	52.5	18.0	9.0	5.0
Merged-chr5-134617355-3	chr5	134617264	134617464	+	869.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2339.0	NM_020044	56743.0	Mm.391375	NM_020044	ENSMUSG00000040751	Lat2	AW125574|LAB|NTAL|WSCR5|Wbscr15|Wbscr5	linker for activation of T cells family, member 2	protein-coding	10.0	6.5	10.0	142.5	11.0	2.5	4.0	6.0
Merged-chr19-4943159-4	chr19	4943111	4943311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172835)	promoter-TSS (NM_172835)	-84.0	NM_001347422	240518.0	Mm.277580	NM_172835	ENSMUSG00000024901	Peli3	6030441F14Rik|A930011L17|BC028931	pellino 3	protein-coding	54.5	103.5	83.0	452.0	120.0	65.5	44.5	40.0
Merged-chr17-71087160-1	chr17	71087060	71087260	+	628.0	f1_c57bl6.idr	intron (NM_001083934, intron 18 of 36)	B3|SINE|B2	67603.0	NM_001083934	17929.0	Mm.4103	NM_010867	ENSMUSG00000024049	Myom1	D430047A17Rik	myomesin 1	protein-coding	0.0	1.5	2.0	13.5	18.0	8.0	9.5	8.5
Merged-chr8-90795525-4	chr8	90795405	90795605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33330.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	50.0	49.0	31.0	586.5	86.5	42.0	60.5	47.0
Merged-chr3-84259421-2	chr3	84259321	84259521	+	585.5	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001271727, exon 1 of 12)	5' UTR (NM_001271727, exon 1 of 12)	358.0	NM_001271727	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	5.5	10.5	10.0	119.0	24.5	6.5	10.0	10.0
Merged-chr6-128065568-3	chr6	128065438	128065638	+	894.9833369999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356301, intron 1 of 7)	intron (NM_001356301, intron 1 of 7)	78040.0	NM_175414	109246.0	Mm.21814	NM_175414	ENSMUSG00000030352	Tspan9	6720474K14Rik|9430079M16Rik|AU018597|Tspan-9	tetraspanin 9	protein-coding	4.0	5.0	6.5	60.0	22.0	12.5	17.0	26.0
Merged-chr16-34416980-3	chr16	34416871	34417071	+	849.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177357, intron 1 of 59)	intron (NM_177357, intron 1 of 59)	97056.0	NM_001164268	545156.0	Mm.82274	NM_177357	ENSMUSG00000061751	Kalrn	2210407G14Rik|AV235988|DUET|E530005C20Rik|Gm539|Hapip|TRAD	kalirin, RhoGEF kinase	protein-coding	18.5	7.0	19.0	290.0	8.0	6.0	2.0	1.5
Merged-chr9-106280580-4	chr9	106280475	106280675	+	966.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027354)	promoter-TSS (NM_027354)	-486.0	NM_027354	70235.0	Mm.23054	NM_027354	ENSMUSG00000023345	Poc1a	2510040D07Rik|Wdr51a|cha	POC1 centriolar protein A	protein-coding	13.0	29.0	11.5	270.0	36.0	18.0	19.5	15.0
Merged-chr11-29986451-4	chr11	29986354	29986554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 2 of 41)	RLTR20C|LTR|ERVK	39579.0	NM_146016	237711.0	Mm.445271	NM_146016	ENSMUSG00000044072	Eml6	2900083P10Rik|C230094A16Rik|EMAP-6	echinoderm microtubule associated protein like 6	protein-coding	20.5	30.0	23.0	450.0	62.5	21.0	33.5	18.5
Merged-chr17-17889880-4	chr17	17889775	17889975	+	978.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008039, intron 1 of 1)	intron (NM_008039, intron 1 of 1)	2051.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	27.5	34.0	14.0	278.5	116.5	45.0	32.0	29.5
Merged-chr3-131702094-4	chr3	131701982	131702182	+	918.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136050.0	NM_001289477	23971.0	Mm.244912	NM_011863	ENSMUSG00000028032	Papss1	AI325286|Asapk|SK1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	protein-coding	8.0	18.5	8.0	144.0	65.5	20.5	15.0	16.5
Merged-chr16-50432397-4	chr16	50432295	50432495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347240)	promoter-TSS (NM_001347240)	-6.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	130.0	165.0	96.0	1919.0	265.5	98.0	104.0	128.5
Merged-chr15-58889453-4	chr15	58889391	58889591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_175151)	TTS (NM_175151)	262.0	NM_175226	75841.0	Mm.4537	NM_175226	ENSMUSG00000037075	Rnf139	4930555P18Rik	ring finger protein 139	protein-coding	16.5	35.0	28.0	372.5	51.0	27.5	31.0	45.5
Merged-chr8-107277654-4	chr8	107277560	107277760	+	976.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_039557, intron 2 of 3).3	intron (NR_039557, intron 2 of 3).3	-15810.0	NM_018823	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	11.5	33.5	25.0	369.0	43.0	15.0	25.0	17.0
Merged-chr8-8660006-2	chr8	8659906	8660106	+	614.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_010111, intron 1 of 4)	CpG	767.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	6.5	9.0	4.5	31.5	11.0	4.0	8.0	4.5
Merged-chr5-64265361-1	chr5	64265261	64265461	+	574.0	f0_balb.idr	intron (NM_001289514, intron 5 of 18)	intron (NM_001289514, intron 5 of 18)	35004.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	6.0	4.0	6.5	89.5	16.0	9.5	5.5	5.5
Merged-chr9-113782818-4	chr9	113782719	113782919	+	930.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114347, intron 6 of 39)	L1MB8|LINE|L1	-10511.0	NM_001286603	76499.0	Mm.222272	NM_029633	ENSMUSG00000033392	Clasp2	1500004F14Rik|8030404L10Rik|C77448|CLASP2beta|mKIAA0627	CLIP associating protein 2	protein-coding	29.5	24.0	19.0	295.5	45.0	13.0	9.5	29.5
Merged-chr18-74991254-4	chr18	74991133	74991333	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9244.0	NM_001002239	319195.0	Mm.276337	NM_001002239	ENSMUSG00000062328	Rpl17	-	ribosomal protein L17	protein-coding	4.0	5.0	11.0	75.5	17.5	4.5	7.5	15.0
Merged-chr7-80387944-4	chr7	80387852	80388052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010194)	promoter-TSS (NM_010194)	-6.0	NM_010194	14159.0	Mm.48757	NM_010194	ENSMUSG00000053158	Fes	AI586313|BB137047|FPS|c-fes	feline sarcoma oncogene	protein-coding	84.0	102.0	74.5	1169.5	136.0	54.0	68.0	87.5
Merged-chr4-139178591-3	chr4	139178485	139178685	+	713.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033543, exon 2 of 3)	non-coding (NR_033543, exon 2 of 3)	2070.0	NR_033543	100038595.0	Mm.385206	NR_033543	ENSMUSG00000073739	Gm16287	-	predicted gene 16287	ncRNA	5.0	1.5	0.0	44.0	21.0	6.5	10.0	17.5
Merged-chr8-117362532-4	chr8	117362443	117362643	+	906.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	intron (NM_028941, intron 1 of 20)	13373.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	9.0	23.5	7.5	483.5	41.5	3.5	14.5	23.5
Merged-chr4-12275386-4	chr4	12275245	12275445	+	855.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-103330.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	13.0	10.0	20.5	227.5	36.0	4.0	7.0	10.0
Merged-chr6-54936743-3	chr6	54936642	54936842	+	751.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 7 of 11)	intron (NM_001171007, intron 7 of 11)	34919.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	1.0	4.5	7.0	102.0	21.0	6.0	8.5	7.0
Merged-chr6-98113901-4	chr6	98113806	98114006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	122123.0	NM_008601	17342.0	Mm.333284	NM_008601	ENSMUSG00000035158	Mitf	BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit	melanogenesis associated transcription factor	protein-coding	41.5	69.5	71.0	893.0	97.5	39.0	55.5	50.0
Merged-chr5-41708348-4	chr5	41708246	41708446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310589)	promoter-TSS (NM_001310589)	-167.0	NM_001310590	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	113.5	192.5	167.5	1963.0	334.0	169.0	136.5	139.0
Merged-chr4-96553640-3	chr4	96553541	96553741	+	903.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010008)	promoter-TSS (NM_010008)	10.0	NM_010008	13110.0	Mm.98200	NM_010008	ENSMUSG00000052914	Cyp2j6	-	cytochrome P450, family 2, subfamily j, polypeptide 6	protein-coding	30.0	34.0	25.5	295.0	3.5	1.5	4.0	4.5
Merged-chr15-88539042-3	chr15	88538961	88539161	+	941.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61241.0	NM_027306	70073.0	Mm.45306	NM_027306	ENSMUSG00000054117	Zdhhc25	1700030J15Rik	zinc finger, DHHC domain containing 25	protein-coding	5.0	5.0	4.5	124.5	39.5	3.0	9.5	16.0
Merged-chr15-83149175-4	chr15	83149070	83149270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_004432)	promoter-TSS (NR_004432)	208.0	NM_178627	73826.0	Mm.23758	NM_178627	ENSMUSG00000041815	Poldip3	1110008P04Rik|AA408269|AL022852|C77954|PDIP46|SKAR|mKIAA1649	polymerase (DNA-directed), delta interacting protein 3	protein-coding	54.5	93.5	98.0	560.5	151.5	62.5	61.5	77.0
Merged-chr16-76429611-3	chr16	76429506	76429706	+	868.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55779.0	NM_001358238	268903.0	Mm.74711	NM_173440	ENSMUSG00000048490	Nrip1	6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140	nuclear receptor interacting protein 1	protein-coding	4.5	9.0	13.5	58.0	15.0	3.5	3.0	4.0
Merged-chr1-34439405-12	chr1	34439287	34439487	+	999.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178601)	promoter-TSS (NM_178601)	285.0	NM_027159	69668.0	Mm.379170	NM_027159	ENSMUSG00000042111	Ccdc115	2310061I09Rik|Ccp1	coiled-coil domain containing 115	protein-coding	135.0	219.5	68.0	1492.0	327.5	164.5	167.5	94.0
Merged-chr18-36319057-3	chr18	36318938	36319138	+	756.366638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18937.0	NM_001267796	109169.0	Mm.426423	NM_001267796	ENSMUSG00000110185	Igip	6330403M23Rik	IgA inducing protein	protein-coding	5.5	15.5	5.5	106.0	17.5	7.0	8.5	3.0
Merged-chr15-30646835-4	chr15	30646713	30646913	+	865.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008729, exon 7 of 23)	exon (NM_008729, exon 7 of 23)	-392313.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	8.5	10.5	16.0	252.0	29.5	11.0	8.5	4.5
Merged-chr9-107747540-4	chr9	107747433	107747633	+	994.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153190, intron 16 of 23)	intron (NR_153190, intron 16 of 23)	23469.0	NM_148930	83486.0	Mm.259197	NM_148930	ENSMUSG00000032580	Rbm5	D030069N10Rik	RNA binding motif protein 5	protein-coding	23.5	27.5	15.5	504.5	32.5	7.0	20.0	18.0
Merged-chr17-87107367-4	chr17	87107268	87107468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019654)	promoter-TSS (NM_019654)	-311.0	NM_019654	56468.0	Mm.126885	NM_019654	ENSMUSG00000037104	Socs5	1810018L08Rik|Cish5|mKIAA0671	suppressor of cytokine signaling 5	protein-coding	176.0	335.5	202.0	2883.0	584.0	240.0	315.0	204.5
Merged-chr1-143710596-4	chr1	143710501	143710701	+	974.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11A|LTR|ERVK	-7708.0	NM_145991	214498.0	Mm.156727	NM_145991	ENSMUSG00000026361	Cdc73	8430414L16Rik|C130030P16Rik|C81219|Hrpt2	cell division cycle 73, Paf1/RNA polymerase II complex component	protein-coding	11.5	16.5	18.0	286.5	21.5	11.0	12.0	19.5
Merged-chr5-150118564-4	chr5	150118468	150118668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	99893.0	NM_001289566	140498.0	Mm.444643	NM_080468	ENSMUSG00000053368	Rxfp2	Gpr106|Great|Lgr8	relaxin/insulin-like family peptide receptor 2	protein-coding	140.0	174.5	158.5	2690.0	229.0	89.5	176.0	104.0
Merged-chr17-56075067-4	chr17	56074955	56075155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_024432, exon 2 of 12)	5' UTR (NM_024432, exon 2 of 12)	4278.0	NM_024432	66530.0	Mm.28000	NM_024432	ENSMUSG00000019578	Ubxn6	1200008L11Rik|2210415J11Rik|AU040909|Ubxd1|Ubxdc2	UBX domain protein 6	protein-coding	123.0	182.5	118.0	1713.5	351.0	139.0	143.0	143.0
Merged-chr13-74026484-4	chr13	74026361	74026561	+	866.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182839, intron 2 of 3)	intron (NM_182839, intron 2 of 3)	17042.0	NM_182839	72948.0	Mm.39752	NM_182839	ENSMUSG00000021573	Tppp	2900041A09Rik|AI849835	tubulin polymerization promoting protein	protein-coding	12.0	14.0	8.5	137.0	27.5	7.5	13.5	5.0
Merged-chr2-119351049-3	chr2	119350956	119351156	+	742.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026929)	promoter-TSS (NM_026929)	-186.0	NM_026929	69065.0	Mm.35083	NM_026929	ENSMUSG00000027313	Chac1	1810008K03Rik	ChaC, cation transport regulator 1	protein-coding	6.5	7.0	7.0	81.0	16.0	4.5	5.5	10.5
Merged-chr14-47568478-4	chr14	47568362	47568562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172599)	promoter-TSS (NM_172599)	-28.0	NM_172599	100504663.0	Mm.287279	NM_172599	ENSMUSG00000037526	Atg14	4832427M01|Atg14L|D14Ertd114e|D14Ertd436e	autophagy related 14	protein-coding	75.0	118.0	58.0	1119.0	271.0	113.5	112.0	87.0
Merged-chr11-114892454-4	chr11	114892341	114892541	+	926.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359812, intron 2 of 7)	RLTR12B2|LTR|ERVK	2400.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	12.5	19.5	23.5	283.0	27.0	7.0	27.5	14.0
Merged-chr19-55723970-2	chr19	55723839	55724039	+	759.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20C1_MM|LTR|ERVK	-17871.0	NM_001331147	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	5.5	5.5	8.5	49.5	6.0	2.0	2.0	6.0
Merged-chr10-25296762-4	chr10	25296654	25296854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	CpG	2409.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	35.0	29.0	47.5	540.0	66.5	13.0	24.0	17.0
Merged-chr7-67243376-2	chr7	67243276	67243476	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001291195, intron 8 of 10)	intron (NM_001291195, intron 8 of 10)	20760.0	NM_001191051	75099.0	Mm.121691	NM_175215	ENSMUSG00000043831	Lysmd4	4930506D23Rik	LysM, putative peptidoglycan-binding, domain containing 4	protein-coding	4.0	4.0	6.5	34.5	14.0	5.0	9.0	5.0
Merged-chr14-43921930-4	chr14	43921823	43922023	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053112)	TTS (NM_053112)	1445.0	NM_053112	93725.0	Mm.429087	NM_053112	ENSMUSG00000090166	Ear10	Raf2	eosinophil-associated, ribonuclease A family, member 10	protein-coding	48.0	43.0	42.5	437.5	97.0	31.5	34.0	31.0
Merged-chr6-50385686-4	chr6	50385582	50385782	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163645, intron 2 of 21)	intron (NM_001163645, intron 2 of 21)	-2845.0	NM_027881	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	30.0	38.5	33.0	391.0	86.0	57.0	55.0	26.0
Merged-chr8-110846611-4	chr8	110846512	110846712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310607)	promoter-TSS (NM_001310607)	12.0	NM_001310607	102339.0	Mm.272930	NM_133973	ENSMUSG00000031753	Cog4	AW554810|D8Ertd515e	component of oligomeric golgi complex 4	protein-coding	14.5	30.0	33.0	265.0	39.0	26.0	13.0	24.0
Merged-chr18-32441396-3	chr18	32441285	32441485	+	862.6333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63101.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	8.5	15.5	3.0	145.0	22.0	10.0	4.5	8.5
Merged-chr3-37744089-7	chr3	37743981	37744181	+	961.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19721.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	21.0	48.0	15.5	107.5	31.5	15.5	14.0	18.0
Merged-chr3-69908216-3	chr3	69908126	69908326	+	651.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48332.0	NM_001286959	66183.0	Mm.45481	NM_133675	ENSMUSG00000043461	Sptssb	1110032A04Rik|ADMP|Sssptb	serine palmitoyltransferase, small subunit B	protein-coding	5.0	7.5	6.5	107.5	19.5	4.5	5.5	6.0
Merged-chr16-44140645-4	chr16	44140528	44140728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028108, intron 1 of 4)	intron (NM_028108, intron 1 of 4)	819.0	NM_028108	72117.0	Mm.278726	NM_028108	ENSMUSG00000022698	Naa50	2600005K24Rik|2810441M03Rik|AW112078|Mak3|Mak3p|Nat13|Nat5|San	N(alpha)-acetyltransferase 50, NatE catalytic subunit	protein-coding	158.0	245.0	176.5	2010.0	408.0	168.5	168.5	153.0
Merged-chr8-37049538-3	chr8	37049431	37049631	+	758.244446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4A|LTR|ERVK	-25293.0	NR_126063	414128.0	Mm.450976	NR_126063	ENSMUSG00000110242	G630064G18Rik	-	RIKEN cDNA G630064G18 gene	ncRNA	9.0	13.0	18.0	297.0	13.5	2.0	5.0	5.0
Merged-chr13-58215690-4	chr13	58215589	58215789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_152234)	promoter-TSS (NM_152234)	-36.0	NM_026842	56085.0	Mm.182053	NM_026842	ENSMUSG00000005312	Ubqln1	1110046H03Rik|1810030E05Rik|AU019746|C77538|D13Ertd372e|Da41|Dsk2|Plic-1|Plic1|Xdrp1	ubiquilin 1	protein-coding	75.0	123.0	53.5	829.5	176.0	66.5	89.0	79.0
Merged-chr17-88441547-4	chr17	88441435	88441635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355742, intron 1 of 5)	CpG	831.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	35.5	53.5	55.5	512.0	117.5	41.5	61.5	65.0
Merged-chr12-59130356-4	chr12	59130240	59130440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146034, intron 1 of 24)	intron (NM_146034, intron 1 of 24)	592.0	NM_001165254	338320.0	Mm.213215	NM_146034	ENSMUSG00000021000	Mia2	Ctage5|D12Bwg0579e|Mea6|Mgea|Mgea6	melanoma inhibitory activity 2	protein-coding	98.0	150.0	111.5	1354.5	194.5	107.0	131.5	71.5
Merged-chr16-11001884-4	chr16	11001792	11001992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7006.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	179.0	292.0	244.0	3099.5	425.5	164.0	233.5	178.5
Merged-chr8-85025615-4	chr8	85025497	85025697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357202)	promoter-TSS (NM_001357202)	-310.0	NM_001357202	56495.0	Mm.41475	NM_019652	ENSMUSG00000052456	Asna1	1810048H22Rik|ArsA	arsA arsenite transporter, ATP-binding, homolog 1 (bacterial)	protein-coding	118.5	147.0	77.5	1406.0	310.5	89.5	103.0	82.5
Merged-chr2-13557503-8	chr2	13557402	13557602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12838.0	NM_010067	13434.0	Mm.6979	NM_010067	ENSMUSG00000026723	Trdmt1	Dnmt2|Rnmt2	tRNA aspartic acid methyltransferase 1	protein-coding	15.0	33.5	35.0	356.0	52.5	20.5	26.0	28.0
Merged-chr13-101656018-4	chr13	101655919	101656119	+	970.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	36611.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	11.5	54.5	36.0	84.0	92.5	31.0	30.0	42.0
Merged-chr2-75683095-4	chr2	75682980	75683180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010902, intron 1 of 4)	intron (NM_010902, intron 1 of 4)	21583.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	79.5	176.0	79.5	1389.5	152.5	59.5	65.0	84.0
Merged-chr12-103339858-4	chr12	103339742	103339942	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 2 of 9)	intron (NM_023049, intron 2 of 9)	16159.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	8.0	4.5	10.5	216.5	32.5	6.5	21.5	15.0
Merged-chr7-132786185-1	chr7	132786085	132786285	+	651.0	f0_balb.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	750.0	NM_175268	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	4.5	26.0	8.5	92.0	0.5	0.5	0.0	0.0
Merged-chr8-36812573-4	chr8	36812459	36812659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001194940, intron 4 of 17)	intron (NM_001194940, intron 4 of 17)	-79505.0	NM_001194941	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	70.5	63.5	95.5	1867.0	128.0	55.5	92.5	61.5
Merged-chr2-117374418-4	chr2	117374309	117374509	+	827.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31532.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	5.5	12.0	18.0	157.5	39.5	8.5	8.0	23.5
Merged-chr19-43527304-4	chr19	43527163	43527363	+	915.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2658.0	NM_010324	14718.0	Mm.19039	NM_010324	ENSMUSG00000025190	Got1	AI789014|Got-1|cAspAT|cCAT	glutamic-oxaloacetic transaminase 1, soluble	protein-coding	7.5	12.0	5.0	81.0	25.0	4.5	4.5	13.0
Merged-chr6-34966346-4	chr6	34966247	34966447	+	918.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025573, intron 2 of 7)	intron (NM_001025573, intron 2 of 7)	11652.0	NM_001025573	243753.0	Mm.440221	NM_001025573	ENSMUSG00000029847	Slc23a4	2010107G12Rik|Gm468	solute carrier family 23 member 4	protein-coding	15.5	26.5	13.0	229.0	46.5	6.0	18.5	10.5
Merged-chr12-104418637-4	chr12	104418517	104418717	+	828.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11909.0	NM_009252	20716.0	Mm.482074	NM_009252	ENSMUSG00000021091	Serpina3n	Spi2-2|Spi2.2|Spi2/eb.4	serine (or cysteine) peptidase inhibitor, clade A, member 3N	protein-coding	6.5	6.0	5.5	142.5	24.0	4.5	13.5	9.5
Merged-chr12-40257442-4	chr12	40257336	40257536	+	826.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34072.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	20.0	7.0	12.5	106.0	29.5	6.0	10.0	12.0
Merged-chr12-57546911-1	chr12	57546811	57547011	+	729.25	f0_balb.idr	promoter-TSS (NM_008259)	promoter-TSS (NM_008259)	-800.0	NM_008259	15375.0	Mm.4578	NM_008259	ENSMUSG00000035451	Foxa1	Hnf-3a|Hnf3a|Tcf-3a|Tcf3a	forkhead box A1	protein-coding	9.5	12.0	4.5	114.5	9.0	3.0	1.0	4.0
Merged-chr10-42679460-2	chr10	42679360	42679560	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172416, intron 1 of 5)	intron (NM_172416, intron 1 of 5)	544.0	NM_172416	14628.0	Mm.46636	NM_172416	ENSMUSG00000038280	Ostm1	1200002H13Rik|HSPC019|gl	osteopetrosis associated transmembrane protein 1	protein-coding	10.0	4.5	5.5	121.0	18.0	6.0	4.0	14.5
Merged-chr3-54681777-4	chr3	54681659	54681859	+	992.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-11056.0	NR_152185	56790.0	Mm.486375	NM_019995	ENSMUSG00000027751	Supt20	AA667204|AI450544|D3Ertd300e|Fam48a|Supt20h|p38IP	suppressor of Ty 20	protein-coding	21.5	30.5	26.5	392.0	55.5	24.5	27.5	19.5
Merged-chr8-123343623-4	chr8	123343495	123343695	+	954.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172287, intron 1 of 14)	intron (NM_172287, intron 1 of 14)	10882.0	NM_172287	234857.0	Mm.150200	NM_172287	ENSMUSG00000010154	Spire2	BC026502|Spir-2|Spir2	spire type actin nucleation factor 2	protein-coding	15.5	45.5	11.5	258.0	28.0	19.0	18.5	19.5
Merged-chr12-35553390-4	chr12	35553358	35553558	+	939.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18469.0	NM_001314027	11622.0	Mm.341377	NM_013464	ENSMUSG00000019256	Ahr	Ah|Ahh|Ahre|In|bHLHe76	aryl-hydrocarbon receptor	protein-coding	18.5	25.5	30.5	674.0	38.5	10.0	10.0	12.5
Merged-chr6-50455947-4	chr6	50455884	50456084	+	938.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347213, exon 1 of 24)	5' UTR (NM_001347213, exon 1 of 24)	186.0	NM_001163645	71720.0	Mm.44153	NM_027881	ENSMUSG00000029822	Osbpl3	1200014M06Rik|6720421I08Rik|A530055M08|ORP-3|ORP3|OSBP3	oxysterol binding protein-like 3	protein-coding	12.5	12.5	20.5	212.5	15.5	3.0	8.0	21.5
Merged-chr15-64047219-3	chr15	64047127	64047327	+	920.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	12537.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	12.0	7.5	12.0	137.5	13.0	4.5	5.0	9.0
Merged-chr18-32432518-2	chr18	32432418	32432618	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 17 of 17)	intron (NM_001360876, intron 17 of 17)	-54234.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	3.5	4.5	5.0	93.5	12.5	6.0	11.5	5.5
Merged-chr3-107087575-4	chr3	107087469	107087669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	-13998.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	79.0	84.0	76.5	1358.0	191.5	88.5	98.5	95.5
Merged-chr19-59460839-1	chr19	59460739	59460939	+	544.0	f1_balb.idr	intron (NM_010132, intron 1 of 2)	intron (NM_010132, intron 1 of 2)	2149.0	NM_010132	13797.0	Mm.245394	NM_010132	ENSMUSG00000043969	Emx2	Pdo	empty spiracles homeobox 2	protein-coding	5.5	5.0	5.5	62.5	6.0	0.5	5.5	3.5
Merged-chr15-34096551-3	chr15	34096464	34096664	+	902.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357925, intron 1 of 10)	intron (NM_001357925, intron 1 of 10)	13845.0	NM_001357925	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	11.0	4.0	12.5	191.5	21.5	11.0	7.5	13.5
Merged-chr3-88461647-4	chr3	88461531	88461731	+	780.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163489)	promoter-TSS (NM_001163489)	-449.0	NM_001163489	20351.0	Mm.439752	NM_013658	ENSMUSG00000028064	Sema4a	AI132332|SemB|Semab	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A	protein-coding	9.0	9.0	2.0	32.0	16.0	13.0	11.5	8.5
Merged-chr9-120058840-4	chr9	120058741	120058941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009987, intron 1 of 1)	intron (NM_009987, intron 1 of 1)	9455.0	NM_009987	13051.0	Mm.44065	NM_009987	ENSMUSG00000052336	Cx3cr1	-	chemokine (C-X3-C motif) receptor 1	protein-coding	114.0	159.0	112.5	1357.0	296.0	110.0	96.0	69.0
Merged-chr18-38144855-4	chr18	38144764	38144964	+	930.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64898.0	NM_029357	75599.0	Mm.36560	NM_029357	ENSMUSG00000051375	Pcdh1	2010005A06Rik|AI585920	protocadherin 1	protein-coding	16.0	18.5	12.5	245.5	28.5	17.0	24.5	21.0
Merged-chr6-134659481-4	chr6	134659347	134659547	+	818.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170479, intron 2 of 3)	RSINE1|SINE|B4	18507.0	NM_026371	67774.0	Mm.41892	NM_026371	ENSMUSG00000042992	Borcs5	5830457J20Rik|AW124643|Loh12cr1	BLOC-1 related complex subunit 5	protein-coding	8.0	7.0	9.0	115.0	16.5	7.5	5.0	5.0
Merged-chr18-34222269-4	chr18	34222201	34222401	+	810.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040534)	promoter-TSS (NR_040534)	-529.0	NR_040534	633395.0	Mm.414290	NR_040534	ENSMUSG00000073607	Gm10548	-	ribosomal protein L29 pseudogene	pseudo	8.0	7.5	13.5	132.0	30.5	7.0	7.0	5.5
Merged-chr7-105651340-4	chr7	105651233	105651433	+	977.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153393, intron 4 of 4)	intron (NR_153393, intron 4 of 4)	10888.0	NM_001360054	14356.0	Mm.220330	NM_019502	ENSMUSG00000089847	Timm10b	Fxc1|Tim10b|Tim9b	translocase of inner mitochondrial membrane 10B	protein-coding	15.0	18.0	11.5	169.0	39.0	20.5	19.5	8.5
Merged-chr12-35827082-4	chr12	35826991	35827191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98530.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	31.5	69.5	25.0	402.0	181.0	44.5	55.5	38.0
Merged-chr12-102757881-4	chr12	102757783	102757983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025666)	promoter-TSS (NM_025666)	-73.0	NM_001142938	100233175.0	Mm.291222	NM_001142938	ENSMUSG00000091931	Gon7	-	GON7, KEOPS complex subunit homolog	protein-coding	194.0	306.5	176.5	2940.5	466.5	184.0	199.5	178.0
Merged-chr11-121748130-4	chr11	121748005	121748205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEb|LTR|ERVL-MaLR	45678.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	70.5	114.0	42.0	466.5	72.0	66.5	30.0	18.0
Merged-chr6-113078164-3	chr6	113078053	113078253	+	866.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027008)	promoter-TSS (NR_027008)	514.0	NM_028385	72895.0	Mm.367159	NM_028385	ENSMUSG00000034269	Setd5	2900045N06Rik|C330007C20|C85544|mKIAA1757	SET domain containing 5	protein-coding	7.0	8.5	7.0	62.0	17.5	3.5	4.5	12.0
Merged-chr19-4121570-4	chr19	4121478	4121678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276284)	promoter-TSS (NM_001276284)	-3.0	NM_001276284	11632.0	Mm.10433	NM_016666	ENSMUSG00000024847	Aip	AA408703|AW476050|Ara9|D19Bwg1412e|Fkbp16|Xap2	aryl-hydrocarbon receptor-interacting protein	protein-coding	113.0	218.0	56.5	816.0	269.5	115.5	101.0	93.5
Merged-chr10-19614546-4	chr10	19614440	19614640	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-7488.0	NM_178258	237310.0	Mm.331979	NM_178258	ENSMUSG00000039760	Il22ra2	CRF2-10|CRF2-s1|CRF2X|Il-22bp	interleukin 22 receptor, alpha 2	protein-coding	10.5	34.0	23.5	475.0	55.5	10.5	23.0	16.5
Merged-chr15-5188172-4	chr15	5188071	5188271	+	904.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355621, intron 2 of 5)	intron (NM_001355621, intron 2 of 5)	2611.0	NM_001355621	67515.0	Mm.254979	NM_026213	ENSMUSG00000022151	Ttc33	2410099M07Rik|2900001O04Rik|AI507072|AW538342|Osrf	tetratricopeptide repeat domain 33	protein-coding	22.0	17.5	17.5	298.0	22.0	5.5	13.0	14.5
Merged-chr10-118101304-4	chr10	118101202	118101402	+	888.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40485.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	10.0	18.5	19.0	221.5	46.0	9.5	15.0	10.5
Merged-chr2-57114657-2	chr2	57114557	57114757	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001139509, intron 1 of 7)	CpG	381.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	13.5	28.0	32.0	332.0	60.0	14.0	38.5	49.0
Merged-chr5-92348388-3	chr5	92348283	92348483	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021274, intron 1 of 3)	intron (NM_021274, intron 1 of 3)	506.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	3.5	44.5	7.0	20.5	57.5	30.5	7.5	6.0
Merged-chr17-71125663-4	chr17	71125562	71125762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083934, intron 36 of 36)	intron (NM_001083934, intron 36 of 36)	-57870.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	35.5	52.5	27.0	865.5	97.5	37.0	45.5	51.0
Merged-chr14-51088660-4	chr14	51088469	51088669	+	923.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2508.0	NM_001161731	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	13.5	8.5	16.0	86.5	5.5	8.0	8.0	8.0
Merged-chr9-65021701-4	chr9	65021611	65021811	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021345)	promoter-TSS (NM_021345)	6.0	NM_021345	57874.0	Mm.308180	NM_021345	ENSMUSG00000033629	Hacd3	4930523M17Rik|AW742319|B-ind1|Hcad3|Hspc121|Ptplad1	3-hydroxyacyl-CoA dehydratase 3	protein-coding	44.0	75.5	28.0	559.0	101.0	50.0	47.5	52.5
Merged-chr14-103013330-4	chr14	103013232	103013432	+	825.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045657, intron 2 of 2)	intron (NR_045657, intron 2 of 2)	20471.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	14.0	38.0	9.5	82.5	52.5	13.5	15.5	9.5
Merged-chr14-69776082-2	chr14	69775982	69776182	+	899.166626	f1_balb.idr|f1_c57bl6.idr	exon (NM_020275, exon 5 of 8)	exon (NM_020275, exon 5 of 8)	8610.0	NM_020275	21933.0	Mm.193430	NM_020275	ENSMUSG00000022074	Tnfrsf10b	DR5|KILLER|Ly98|MK|TRAILR2|TRICK2A|TRICK2B|TRICKB	tumor necrosis factor receptor superfamily, member 10b	protein-coding	6.5	6.5	8.0	53.0	5.5	5.0	4.5	2.0
Merged-chr8-68175284-4	chr8	68175199	68175399	+	815.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR25A|LTR|ERVK	-101229.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	27.5	14.0	13.5	450.0	23.5	4.5	10.0	7.0
Merged-chr5-16293434-3	chr5	16293320	16293520	+	826.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110843, intron 10 of 38)	intron (NM_001110843, intron 10 of 38)	-260075.0	NM_001289460	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	5.5	9.0	10.0	101.0	19.0	6.0	6.0	3.5
Merged-chr10-50634391-4	chr10	50634289	50634489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 4 of 41)	L1M4|LINE|L1	41720.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	98.0	113.0	66.5	752.5	202.0	72.0	47.0	33.5
Merged-chr2-38346556-4	chr2	38346470	38346670	+	793.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290646, intron 1 of 4)	intron (NM_001290646, intron 1 of 4)	-4738.0	NM_010710	16870.0	Mm.142856	NM_010710	ENSMUSG00000000247	Lhx2	LH2A|Lh-2|Lim2|ap|apterous	LIM homeobox protein 2	protein-coding	7.5	15.0	6.5	359.5	29.0	5.0	12.0	16.0
Merged-chr13-93718253-3	chr13	93718161	93718361	+	945.6222529999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028772, intron 13 of 15)	MTE2a|LTR|ERVL-MaLR	914.0	NR_045086	105364.0	Mm.443795	NR_045086	ENSMUSG00000087334	AW495222	-	expressed sequence AW495222	ncRNA	0.5	0.0	3.0	7.5	53.0	18.5	21.0	25.5
Merged-chr11-4836933-2	chr11	4836804	4837004	+	866.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_010898, intron 1 of 15)	intron (NM_010898, intron 1 of 15)	-3769.0	NM_001252253	18016.0	Mm.297109	NM_010898	ENSMUSG00000009073	Nf2	merlin	neurofibromin 2	protein-coding	8.5	9.5	6.5	42.0	30.5	4.5	8.0	8.0
Merged-chr8-45934889-4	chr8	45934807	45935007	+	924.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033246, intron 1 of 6)	intron (NM_001033246, intron 1 of 6)	258.0	NM_001033246	212392.0	Mm.296649	NM_001033246	ENSMUSG00000071104	Ccdc110	Gm172	coiled-coil domain containing 110	protein-coding	17.5	22.5	17.5	259.0	26.0	13.0	22.0	14.5
Merged-chr18-53254670-4	chr18	53254541	53254741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	8979.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	129.0	148.5	170.5	2509.5	335.0	98.5	174.0	159.0
Merged-chr2-91729663-2	chr2	91729563	91729763	+	746.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172669)	promoter-TSS (NM_172669)	-475.0	NM_172669	228361.0	Mm.436667	NM_172669	ENSMUSG00000040506	Ambra1	2310079H06Rik|A130023A14|AA474864|AV021921|D030051N19Rik|mKIAA1736	autophagy/beclin 1 regulator 1	protein-coding	3.5	1.0	0.5	31.5	29.5	6.0	6.5	11.0
Merged-chr7-49004537-3	chr7	49004400	49004600	+	917.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	45427.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	11.0	8.5	11.0	247.5	19.5	2.5	14.0	5.0
Merged-chr2-32587913-4	chr2	32587826	32588026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011373, intron 1 of 4)	intron (NM_011373, intron 1 of 4)	848.0	NM_011373	20448.0	Mm.27446	NM_011373	ENSMUSG00000079442	St6galnac4	SIAT7-D|ST6GalNAcIV|Siat7d	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4	protein-coding	57.0	65.5	45.0	771.0	143.5	49.5	72.0	59.5
Merged-chr8-90881040-4	chr8	90880931	90881131	+	929.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	-51218.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	15.0	8.0	11.5	165.5	27.5	12.0	20.5	8.5
Merged-chr16-55863573-4	chr16	55863467	55863667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134457, intron 3 of 5)	intron (NM_001134457, intron 3 of 5)	-24926.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	30.5	53.0	28.0	530.0	96.0	33.0	32.0	36.5
Merged-chr1-170545561-4	chr1	170545457	170545657	+	923.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 1 of 9)	L1MC4|LINE|L1	11553.0	NM_027528	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	13.5	17.0	6.5	144.5	33.5	6.0	19.0	16.0
Merged-chr16-38760920-4	chr16	38760777	38760977	+	934.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152434, intron 4 of 6)	intron (NR_152434, intron 4 of 6)	18618.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	9.5	6.5	15.0	204.5	54.0	20.5	12.0	21.5
Merged-chr4-47255824-4	chr4	47255731	47255931	+	825.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009928, intron 6 of 39)	intron (NM_009928, intron 6 of 39)	47819.0	NM_009928	12819.0	Mm.233547	NM_009928	ENSMUSG00000028339	Col15a1	-	collagen, type XV, alpha 1	protein-coding	4.5	15.0	11.5	136.0	14.0	11.0	14.5	15.0
Merged-chr2-16491545-4	chr2	16491425	16491625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026162, intron 1 of 13)	intron (NM_026162, intron 1 of 13)	135221.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	108.5	127.0	134.5	1398.0	177.0	60.0	103.0	81.0
Merged-chr11-71253560-2	chr11	71253460	71253660	+	984.5	f1_balb.idr|f1_c57bl6.idr	intron (NR_027858, intron 7 of 12)	intron (NR_027858, intron 7 of 12)	-22827.0	NM_001040696	637515.0	Mm.390402	NM_001039680	ENSMUSG00000070390	Nlrp1b	Nalp1b	NLR family, pyrin domain containing 1B	protein-coding	0.0	0.0	0.0	0.0	12.0	10.0	8.5	10.0
Merged-chr4-66852234-4	chr4	66852132	66852332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24681.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	98.5	114.5	122.5	1057.5	91.0	41.0	31.0	29.5
Merged-chr15-79883471-4	chr15	79883356	79883556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8952.0	NM_001160415	80287.0	Mm.284059	NM_030255	ENSMUSG00000009585	Apobec3	Apobec|Arp3|BC003314|Cem15|Gm20117|Rfv3	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3	protein-coding	44.0	79.5	36.5	516.0	74.0	37.5	59.0	39.0
Merged-chr4-152010457-4	chr4	152010364	152010564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033352, intron 1 of 3)	intron (NM_001033352, intron 1 of 3)	1573.0	NM_001033352	242785.0	Mm.22306	NM_001033352	ENSMUSG00000073700	Klhl21	1810045K06Rik|D330008A20|mKIAA0469	kelch-like 21	protein-coding	113.0	107.5	63.0	1711.0	206.0	89.5	78.5	123.5
Merged-chr4-114983340-4	chr4	114983188	114983388	+	871.4833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025647, intron 1 of 5)	intron (NM_025647, intron 1 of 5)	3940.0	NM_025647	66588.0	Mm.294159	NM_025647	ENSMUSG00000028719	Cmpk1	0610011D08Rik|CK|Cmpk|UMP-CMPk	cytidine monophosphate (UMP-CMP) kinase 1	protein-coding	8.5	16.0	12.5	100.0	24.0	5.0	7.5	8.0
Merged-chr8-123949340-4	chr8	123949246	123949446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172288)	promoter-TSS (NM_172288)	-81.0	NM_172288	234865.0	Mm.267812	NM_172288	ENSMUSG00000039509	Nup133	mermaid	nucleoporin 133	protein-coding	78.0	86.0	33.0	669.0	133.0	73.5	42.5	89.5
Merged-chr15-6568005-4	chr15	6567905	6568105	+	991.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-11842.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	35.5	33.0	40.0	524.0	77.0	27.5	35.5	20.0
Merged-chr11-40835824-4	chr11	40835745	40835945	+	980.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-80559.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	19.0	23.5	27.5	611.0	50.5	13.5	24.5	17.0
Merged-chr17-36023771-4	chr17	36023688	36023888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015618, intron 1 of 1)	intron (NR_015618, intron 1 of 1)	-3228.0	NM_008207	15042.0	Mm.439654	NM_008207	ENSMUSG00000053835	H2-T24	H-2T24	histocompatibility 2, T region locus 24	protein-coding	24.5	36.5	15.5	416.0	98.5	19.0	34.5	39.0
Merged-chr9-13554947-4	chr9	13554792	13554992	+	980.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65097.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	15.5	32.5	22.5	253.5	57.0	9.0	17.0	13.5
Merged-chr5-24470746-4	chr5	24470631	24470831	+	770.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359881, intron 1 of 15)	intron (NM_001359881, intron 1 of 15)	18554.0	NM_139153	213990.0	Mm.250703	NM_139153	ENSMUSG00000023353	Agap3	AGAP-3|AV028425|Centg3|Crag|Crag.|MRIP-1|cnt-g3	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	protein-coding	5.0	5.5	9.0	82.5	24.0	8.0	7.0	5.0
Merged-chr15-53415557-4	chr15	53415469	53415669	+	696.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69386.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	3.5	6.5	9.5	110.0	19.0	10.0	7.5	8.0
Merged-chr1-161896256-4	chr1	161896164	161896364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19582.0	NM_001357402	226551.0	Mm.170002	NM_172645	ENSMUSG00000040297	Suco	4732491B11|AI848100|AU016931|Opt	SUN domain containing ossification factor	protein-coding	43.5	39.0	21.5	612.5	138.0	71.0	47.0	48.0
Merged-chr6-90370402-2	chr6	90370302	90370502	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_030260, exon 1 of 6)	exon (NM_030260, exon 1 of 6)	908.0	NM_030260	80292.0	Mm.100116	NM_030260	ENSMUSG00000034430	Zxdc	A930012H20|B930086F11Rik|BC003332	ZXD family zinc finger C	protein-coding	4.0	6.5	4.0	87.0	15.5	8.0	10.0	8.5
Merged-chr5-138280981-2	chr5	138280881	138281081	+	899.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016964, intron 1 of 33)	intron (NM_016964, intron 1 of 33)	472.0	NM_016964	50878.0	Mm.285609	NM_016964	ENSMUSG00000036928	Stag3	SA-2	stromal antigen 3	protein-coding	4.5	4.5	6.0	11.5	3.0	1.5	0.5	6.0
Merged-chr8-117343758-4	chr8	117343682	117343882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-5388.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	40.5	75.5	44.5	586.5	104.0	36.5	54.5	27.5
Merged-chr3-121693213-3	chr3	121693108	121693308	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22445.0	NM_001033814	619318.0	Mm.371258	NM_001033814	ENSMUSG00000074248	4930432M17Rik	-	RIKEN cDNA 4930432M17 gene	protein-coding	20.5	31.0	32.5	378.5	45.5	25.5	25.0	32.5
Merged-chr17-5729964-5	chr17	5729842	5730042	+	933.320007	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 7 of 8)	intron (NM_146073, intron 7 of 8)	-68715.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	7.0	5.5	13.5	78.5	11.0	9.0	4.5	10.5
Merged-chr11-4973441-3	chr11	4973349	4973549	+	844.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 1 of 22)	intron (NM_001243043, intron 1 of 22)	-13375.0	NM_001355659	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	8.5	15.5	15.5	152.5	24.5	6.5	13.5	7.5
Merged-chr4-108780736-4	chr4	108780644	108780844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347163, intron 1 of 18)	CpG	344.0	NM_001347163	230597.0	Mm.196776	NM_183300	ENSMUSG00000034557	Zfyve9	Madhip|NSP|SARA|SMADIP	zinc finger, FYVE domain containing 9	protein-coding	35.0	49.5	33.5	522.0	109.0	24.0	51.5	43.0
Merged-chr17-88511478-4	chr17	88511383	88511583	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18641.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	47.0	51.5	26.5	507.5	95.5	40.5	52.0	53.5
Merged-chr17-35186851-3	chr17	35186739	35186939	+	628.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr	intron (NM_010734, intron 2 of 3)	intron (NM_010734, intron 2 of 3)	1601.0	NM_010734	16988.0	Mm.19379	NM_010734	ENSMUSG00000073412	Lst1	B144	leukocyte specific transcript 1	protein-coding	11.5	15.0	5.5	23.5	23.0	8.5	4.0	4.0
Merged-chr10-89584842-2	chr10	89584724	89584924	+	884.625	f0_c57.idr|f1_c57bl6.idr	intron (NM_001310710, intron 7 of 9)	intron (NM_001310710, intron 7 of 9)	14991.0	NM_001310710	216227.0	Mm.233921	NM_182959	ENSMUSG00000019935	Slc17a8	BC042593|Vglut3	solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 8	protein-coding	1.0	1.0	0.5	38.5	43.5	11.0	28.0	9.0
Merged-chr3-107067426-3	chr3	107067328	107067528	+	717.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27924.0	NR_033498	229694.0	Mm.347584	NM_173787	ENSMUSG00000056145	AI504432	A230102G19	expressed sequence AI504432	ncRNA	4.5	19.0	1.0	112.5	24.5	15.0	10.0	8.0
Merged-chr7-80059341-4	chr7	80059174	80059374	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175433, intron 1 of 4)	intron (NM_175433, intron 1 of 4)	15983.0	NR_045695	100859962.0	Mm.392575	NR_045695	ENSMUSG00000108714	Gm21057	-	predicted gene, 21057	ncRNA	11.5	24.5	12.0	410.0	31.0	6.5	7.5	10.5
Merged-chr1-165689996-1	chr1	165689896	165690096	+	716.0	f0_balb.idr	intron (NM_001038846, intron 1 of 5)	intron (NM_001038846, intron 1 of 5)	18098.0	NM_001038846	226594.0	Mm.265552	NM_178593	ENSMUSG00000040723	Rcsd1	A430105K13Rik|BC025872|CapZIP	RCSD domain containing 1	protein-coding	6.0	11.0	10.5	97.5	16.0	5.5	4.0	0.0
Merged-chr5-151190272-4	chr5	151190190	151190390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163493)	promoter-TSS (NM_001163493)	-97.0	NR_153382	243362.0	Mm.209272	NM_146258	ENSMUSG00000016128	Stard13	DLC2|GT650	StAR-related lipid transfer (START) domain containing 13	protein-coding	43.5	40.5	44.0	893.0	120.0	40.5	106.0	55.5
Merged-chr19-34340557-4	chr19	34340449	34340649	+	874.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	49890.0	NM_001146708	14102.0	Mm.1626	NM_007987	ENSMUSG00000024778	Fas	AI196731|APO1|APT1|CD95|TNFR6|Tnfrsf6|lpr	Fas (TNF receptor superfamily member 6)	protein-coding	9.0	22.0	13.5	142.5	41.0	10.0	19.0	16.5
Merged-chr7-73595389-4	chr7	73595303	73595503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37008.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	123.5	170.0	78.0	1591.5	233.5	86.0	135.5	99.0
Merged-chr4-132063225-3	chr4	132063126	132063326	+	885.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	L2a|LINE|L2	8871.0	NM_183428	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	4.5	7.0	7.0	121.5	9.0	0.5	1.5	2.0
Merged-chr3-97338970-4	chr3	97338849	97339049	+	761.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72230.0	NM_146275	258272.0	Mm.377406	NM_146275	ENSMUSG00000051392	Olfr1402	MOR217-1	olfactory receptor 1402	protein-coding	11.0	9.5	3.5	85.5	9.0	9.5	11.5	7.0
Merged-chr17-29381645-4	chr17	29381546	29381746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20732.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	70.0	97.0	30.0	364.5	246.5	80.5	89.5	57.0
Merged-chr14-54863631-4	chr14	54863547	54863747	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177705, intron 1 of 1)	intron (NM_001177705, intron 1 of 1)	511.0	NM_001177705	239099.0	Mm.280994	NM_183174	ENSMUSG00000057156	Homez	mKIAA1443	homeodomain leucine zipper-encoding gene	protein-coding	16.5	40.5	19.0	73.5	29.0	7.5	12.5	10.0
Merged-chr17-5747611-4	chr17	5747574	5747774	+	945.522217	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 8 of 8)	intron (NM_146073, intron 8 of 8)	-50983.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	7.5	9.0	6.0	137.5	33.0	7.0	12.0	21.0
Merged-chr1-84302992-4	chr1	84302902	84303102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18357.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	65.5	119.5	68.0	732.0	163.5	44.0	51.5	42.0
Merged-chr9-48163228-3	chr9	48163132	48163332	+	652.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	177666.0	NM_030069	78252.0	Mm.31626	NM_030069	ENSMUSG00000032028	Nxpe2	4432416J03Rik|AI323362|Fam55b	neurexophilin and PC-esterase domain family, member 2	protein-coding	7.0	15.0	10.5	99.0	8.5	9.0	6.0	4.0
Merged-chr11-69125378-4	chr11	69125297	69125497	+	974.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011786)	promoter-TSS (NM_011786)	-980.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	19.0	29.5	8.5	239.5	44.0	23.5	10.5	30.5
Merged-chr17-67329617-4	chr17	67329509	67329709	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	24850.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	117.5	238.5	132.5	1619.0	293.0	98.5	100.5	72.0
Merged-chr1-152807801-4	chr1	152807673	152807873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010877, exon 2 of 16)	5' UTR (NM_010877, exon 2 of 16)	7620.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	134.5	176.0	109.0	1772.5	259.5	125.0	112.5	109.5
Merged-chr5-30887458-4	chr5	30887340	30887540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1412.0	NM_174849	231093.0	Mm.440364	NM_174849	ENSMUSG00000029165	Agbl5	9430057O19Rik|CCP5	ATP/GTP binding protein-like 5	protein-coding	37.5	43.0	20.5	490.5	88.5	35.5	50.5	42.5
Merged-chr4-55650390-4	chr4	55650348	55650548	+	719.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117973.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	4.5	1.5	3.5	74.0	17.0	6.0	5.5	5.5
Merged-chr4-136149199-2	chr4	136149099	136149299	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5377.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	15.0	17.5	6.5	134.5	20.0	7.0	9.5	18.5
Merged-chr2-24572155-4	chr2	24572044	24572244	+	806.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-96545.0	NM_011040	18510.0	Mm.2533	NM_011040	ENSMUSG00000026976	Pax8	Pax-8	paired box 8	protein-coding	9.5	14.0	18.5	337.0	21.0	5.0	9.5	13.5
Merged-chr10-60368064-4	chr10	60367946	60368146	+	793.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159572, intron 5 of 6)	intron (NM_001159572, intron 5 of 6)	21195.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	5.0	9.0	9.5	188.0	26.0	3.5	10.0	10.0
Merged-chr17-33940516-6	chr17	33940452	33940652	+	988.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020603)	promoter-TSS (NM_020603)	-171.0	NM_020603	57315.0	Mm.2437	NM_020603	ENSMUSG00000024312	Wdr46	2310007I04Rik|Bing4|C78447|C78559	WD repeat domain 46	protein-coding	12.0	23.5	16.0	139.0	38.5	25.0	14.5	14.5
Merged-chr10-60374329-5	chr10	60374243	60374443	+	778.664978	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 37 of 68)	intron (NM_001252635, intron 37 of 68)	-25383.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	11.5	8.5	8.5	47.5	13.5	7.5	3.0	5.0
Merged-chr7-127118789-4	chr7	127118729	127118929	+	988.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133686, intron 1 of 3)	RSINE1|SINE|B4	3200.0	NM_133686	67375.0	Mm.26928	NM_133686	ENSMUSG00000030674	Qprt	2410027J01Rik|AI647766|QPRTase	quinolinate phosphoribosyltransferase	protein-coding	6.5	9.5	11.0	207.5	43.5	19.0	22.0	27.5
Merged-chr5-8081332-4	chr5	8081219	8081419	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310439, intron 29 of 29)	intron (NM_001310439, intron 29 of 29)	24777.0	NM_001080974	109552.0	Mm.96211	NM_025618	ENSMUSG00000003161	Sri	2210417O06Rik|2900070H08Rik|Sor	sorcin	protein-coding	7.0	17.5	22.0	342.5	20.5	5.0	15.0	10.0
Merged-chr19-46506502-4	chr19	46506407	46506607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053100, intron 1 of 5)	intron (NM_053100, intron 1 of 5)	4859.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	50.5	46.0	41.0	538.5	55.5	16.0	51.0	30.0
Merged-chr11-115187903-4	chr11	115187812	115188012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025400)	promoter-TSS (NM_025400)	425.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	50.5	99.5	51.5	694.5	180.0	63.0	90.0	57.0
Merged-chr2-60269538-4	chr2	60269428	60269628	+	756.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025422, intron 2 of 4)	L2|LINE|L2	14956.0	NM_025422	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	5.5	13.0	16.0	97.0	21.0	5.0	12.0	8.0
Merged-chr7-45095597-4	chr7	45095497	45095697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357117, intron 4 of 6)	intron (NM_001357117, intron 4 of 6)	-3384.0	NM_001355045	52377.0	Mm.29997	NM_026555	ENSMUSG00000019539	Rcn3	6030455P07Rik|D530026G20Rik|D7Ertd671e|RLP49	reticulocalbin 3, EF-hand calcium binding domain	protein-coding	156.0	135.0	177.0	2321.5	165.5	36.5	73.5	64.0
Merged-chr5-138171200-4	chr5	138171098	138171298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021392)	promoter-TSS (NM_021392)	68.0	NM_001356577	17220.0	Mm.378965	NM_008568	ENSMUSG00000029730	Mcm7	AI747533|Mcmd7|mCDC47	minichromosome maintenance complex component 7	protein-coding	80.0	106.5	72.0	852.0	202.0	81.0	69.5	52.0
Merged-chr11-51921569-4	chr11	51921472	51921672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46059.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	90.5	153.0	68.5	1268.5	212.0	72.0	97.0	74.0
Merged-chr12-84009466-4	chr12	84009382	84009582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012006)	promoter-TSS (NM_012006)	-20.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	60.0	123.0	74.0	710.5	105.0	48.5	35.0	33.5
Merged-chr1-155075187-6	chr1	155075097	155075297	+	987.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 3 of 6)	intron (NR_151545, intron 3 of 6)	8067.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	25.0	35.0	19.0	178.5	33.0	25.0	10.5	12.5
Merged-chr19-37693038-2	chr19	37692938	37693138	+	964.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001105201, exon 6 of 6)	exon (NM_001105201, exon 6 of 6)	-4770.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	4.5	5.0	10.5	23.5	2.5	1.5	1.0	2.0
Merged-chr4-139382544-4	chr4	139382456	139382656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160319, intron 1 of 105)	intron (NM_001160319, intron 1 of 105)	1897.0	NM_001160319	69116.0	Mm.271956	NM_001160319	ENSMUSG00000066036	Ubr4	1810009A16Rik|A930005E13Rik|D930005K06Rik|Gm1032|Gm1666|N28143|RBAF600|Zubr1|mKIAA0462|p600	ubiquitin protein ligase E3 component n-recognin 4	protein-coding	18.5	29.0	19.5	401.5	60.5	30.5	23.5	24.5
Merged-chr3-51338413-6	chr3	51338318	51338518	+	938.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023502, intron 1 of 9)	L1MB8|LINE|L1	2226.0	NM_001356358	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	8.0	11.5	15.0	122.0	9.5	9.5	6.5	12.0
Merged-chr13-9011802-1	chr13	9011702	9011902	+	755.666687	f0_balb.idr	Intergenic	Intergenic	-15790.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	42.5	59.5	52.5	589.0	88.0	40.0	43.5	93.0
Merged-chr7-80269644-4	chr7	80269513	80269713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178070)	promoter-TSS (NM_178070)	-42.0	NM_178070	233405.0	Mm.322870	NM_178070	ENSMUSG00000030534	Vps33b	-	vacuolar protein sorting 33B	protein-coding	36.0	57.0	33.0	447.0	105.5	30.5	47.0	29.0
Merged-chr10-63164786-3	chr10	63164679	63164879	+	910.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 4 of 19)	intron (NM_182992, intron 4 of 19)	39173.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	7.5	16.5	14.0	241.0	35.0	7.0	7.0	1.0
Merged-chr11-119249172-4	chr11	119249081	119249281	+	948.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175430, intron 11 of 18)	intron (NM_175430, intron 11 of 18)	-18782.0	NM_001159324	14387.0	Mm.4793	NM_008064	ENSMUSG00000025579	Gaa	E430018M07Rik	glucosidase, alpha, acid	protein-coding	20.5	37.5	8.5	214.0	36.5	10.0	16.0	32.5
Merged-chr9-42306557-4	chr9	42306463	42306663	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42263.0	NM_172769	235293.0	Mm.32700	NM_172769	ENSMUSG00000032018	Sc5d	A830037K02|A830073K23Rik|Sc5dl	sterol-C5-desaturase	protein-coding	17.5	20.5	16.0	128.0	68.0	13.5	34.5	42.5
Merged-chr11-119711003-4	chr11	119710910	119711110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028898, intron 3 of 33)	intron (NM_028898, intron 3 of 33)	108105.0	NM_028898	74370.0	Mm.209933	NM_028898	ENSMUSG00000025583	Rptor	4932417H02Rik|Rap|Raptor|mKIAA1303	regulatory associated protein of MTOR, complex 1	protein-coding	31.0	38.0	31.5	421.0	55.5	9.5	26.5	37.5
Merged-chr1-177703610-4	chr1	177703516	177703716	+	905.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26198.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	13.5	32.5	11.0	232.5	29.5	13.0	11.0	13.0
Merged-chr19-12540153-4	chr19	12540063	12540263	+	954.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33347.0	NM_001346545	107373.0	Mm.1643	NM_026640	ENSMUSG00000024691	Fam111a	4632417K18Rik|AW413625	family with sequence similarity 111, member A	protein-coding	6.5	20.5	10.5	166.5	65.0	15.5	32.5	11.5
Merged-chr6-97421877-3	chr6	97421785	97421985	+	920.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 3 of 23)	intron (NM_145148, intron 3 of 23)	37401.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.5	8.5	13.5	113.0	13.0	6.5	7.5	9.0
Merged-chr5-120888673-1	chr5	120888573	120888773	+	560.0	f1_c57bl6.idr	Intergenic	BGLII_B|LTR|ERVK	-1060.0	NR_126529	23960.0	Mm.389688	NM_011852	ENSMUSG00000066861	Oas1g	AI449562|L2|Mmu-L|Mmu-L2|Oas1b|Oias-1|Oias1	2'-5' oligoadenylate synthetase 1G	protein-coding	6.5	7.5	6.5	61.5	16.0	4.0	1.0	6.0
Merged-chr9-37145300-2	chr9	37145189	37145389	+	769.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_001029838, intron 1 of 12)	CpG	2033.0	NM_148950	208076.0	Mm.260335	NM_148950	ENSMUSG00000035934	Pknox2	D230005H23Rik|Prep2	Pbx/knotted 1 homeobox 2	protein-coding	9.5	10.5	9.5	39.0	10.5	2.0	2.0	7.5
Merged-chr8-71759015-1	chr8	71758915	71759115	+	728.0	f1_c57bl6.idr	Intergenic	Intergenic	-33334.0	NM_028715	74015.0	Mm.22025	NM_028715	ENSMUSG00000070000	Fcho1	3322402E17Rik|N28152	FCH domain only 1	protein-coding	2.5	3.0	2.0	32.5	15.5	7.5	8.0	8.5
Merged-chr18-70436023-3	chr18	70435912	70436112	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-36442.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	12.0	18.5	25.0	195.5	70.5	23.0	48.0	35.0
Merged-chr6-136728406-4	chr6	136728309	136728509	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127318, intron 13 of 26)	intron (NM_001127318, intron 13 of 26)	53333.0	NM_145067	14917.0	Mm.222729	NM_145067	ENSMUSG00000042638	Gucy2c	AI893437|GC-C|Gcc	guanylate cyclase 2c	protein-coding	37.0	38.5	22.5	531.0	24.0	7.5	10.0	18.0
Merged-chr4-135070005-4	chr4	135069910	135070110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50635.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	75.0	126.0	124.0	1165.0	167.5	59.0	97.0	70.0
Merged-chr5-145201504-2	chr5	145201405	145201605	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_023322, exon 1 of 3)	exon (NM_023322, exon 1 of 3)	377.0	NM_023322	67235.0	Mm.432480	NM_023322	ENSMUSG00000029627	Zkscan14	2310046C23Rik|2810437E14Rik|Zfp99|Znf394	zinc finger with KRAB and SCAN domains 14	protein-coding	10.5	25.5	20.5	225.5	61.0	13.5	13.5	24.0
Merged-chr10-57628762-4	chr10	57628650	57628850	+	898.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3231.0	NM_008863	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	9.0	17.5	15.5	369.0	30.5	8.0	15.5	11.5
Merged-chr1-97770065-4	chr1	97769970	97770170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173760)	promoter-TSS (NM_173760)	22.0	NM_173760	227399.0	Mm.220817	NM_173760	ENSMUSG00000040648	Ppip5k2	AW555814|Cfap160|D330021B20|Hisppd1|Vip2|mKIAA0433	diphosphoinositol pentakisphosphate kinase 2	protein-coding	139.0	172.0	114.0	2463.0	346.0	94.0	208.5	106.5
Merged-chr5-121618971-4	chr5	121618880	121619080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178799)	promoter-TSS (NM_178799)	-42.0	NM_178799	338350.0	Mm.482918	NM_178799	ENSMUSG00000042647	Acad12	9330129D05Rik	acyl-Coenzyme A dehydrogenase family, member 12	protein-coding	61.0	95.0	66.0	1160.0	281.0	73.0	92.5	94.5
Merged-chr13-21158986-4	chr13	21158886	21159086	+	878.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15931.0	NM_146534	258527.0	Mm.271440	NM_146534	ENSMUSG00000045474	Olfr1368	MOR256-15	olfactory receptor 1368	protein-coding	9.5	17.0	8.0	294.0	31.0	12.0	22.0	19.0
Merged-chr11-70791780-4	chr11	70791672	70791872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045526, intron 4 of 4)	intron (NM_001045526, intron 4 of 4)	20789.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	70.0	58.0	45.0	502.0	99.0	42.5	35.5	49.0
Merged-chr3-79678814-2	chr3	79678714	79678914	+	887.083374	f1_balb.idr|f1_c57bl6.idr	intron (NM_212452, intron 4 of 17)	intron (NM_212452, intron 4 of 17)	49735.0	NM_029482	75939.0	Mm.221520	NM_029482	ENSMUSG00000027811	4930579G24Rik	-	RIKEN cDNA 4930579G24 gene	protein-coding	7.0	0.5	4.5	108.5	13.5	9.0	17.0	7.0
Merged-chr1-132155972-4	chr1	132155872	132156072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16287.0	NM_008795	18557.0	Mm.28130	NM_008795	ENSMUSG00000026437	Cdk18	AA682070|Ctk18|Pctk3	cyclin-dependent kinase 18	protein-coding	22.0	39.5	26.5	304.5	94.5	34.5	38.0	40.0
Merged-chr12-32123720-4	chr12	32123627	32123827	+	863.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62448.0	NM_011158	19088.0	Mm.25594	NM_011158	ENSMUSG00000002997	Prkar2b	AI451071|AW061005|PKARIIbeta|Pkarb2|RII(beta)	protein kinase, cAMP dependent regulatory, type II beta	protein-coding	13.0	15.5	17.5	271.5	38.5	7.0	17.0	11.0
Merged-chr16-42907553-4	chr16	42907461	42907661	+	861.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285805)	promoter-TSS (NM_001285805)	-84.0	NM_001285805	56490.0	Mm.136238	NM_019778	ENSMUSG00000022708	Zbtb20	1300017A20Rik|7330412A13Rik|A930017C21Rik|D16Wsu73e|DPZF|HOF|J20|ODA-8S|Oda8|Tg(PDGFB-APPSwInd)20Lms|Zfp288	zinc finger and BTB domain containing 20	protein-coding	10.0	15.0	11.5	120.5	22.5	8.0	5.0	15.0
Merged-chr3-95230475-4	chr3	95230377	95230577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038708, intron 1 of 4)	intron (NM_001038708, intron 1 of 4)	1534.0	NM_001038708	57912.0	Mm.28189	NM_172395	ENSMUSG00000046722	Cdc42se1	1300002M12Rik|AW558204|Cdcse1|SCIP1|Spec1	CDC42 small effector 1	protein-coding	43.0	69.5	32.0	571.0	113.0	41.0	42.5	44.0
Merged-chr3-15586785-3	chr3	15586679	15586879	+	660.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-11714.0	NM_001173460	668101.0	Mm.423523	NM_001173460	ENSMUSG00000095028	Sirpb1b	-	signal-regulatory protein beta 1B	protein-coding	0.0	1.0	3.0	7.5	21.5	7.0	4.5	9.0
Merged-chr11-61564824-3	chr11	61564734	61564934	+	969.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252189, intron 1 of 8)	intron (NM_001252189, intron 1 of 8)	14853.0	NM_010148	13855.0	Mm.139695	NM_010148	ENSMUSG00000001036	Epn2	9530051D10Rik|AA536924|Ibp2	epsin 2	protein-coding	16.5	13.5	22.0	214.0	6.5	12.0	8.0	11.0
Merged-chr6-97531236-2	chr6	97531131	97531331	+	726.0	f0_balb.idr|f1_balb.idr	intron (NM_145148, intron 1 of 23)	(CA)n|Simple_repeat|Simple_repeat	-43411.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	5.5	10.0	5.0	110.5	9.0	3.5	8.5	5.5
Merged-chr4-35164478-4	chr4	35164392	35164592	+	791.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7008.0	NM_178061	214944.0	Mm.32968	NM_178061	ENSMUSG00000073910	Mob3b	8430436F23Rik|A430018A01Rik|Mobkl2b	MOB kinase activator 3B	protein-coding	21.5	24.5	11.0	62.5	14.5	10.5	6.5	6.0
Merged-chr9-44418091-4	chr9	44418003	44418203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201372)	promoter-TSS (NM_201372)	-34.0	NM_201372	382073.0	Mm.259573	NM_201372	ENSMUSG00000043923	Ccdc84	D630044F24Rik|Gm1114	coiled-coil domain containing 84	protein-coding	75.5	138.5	62.0	845.5	190.0	84.5	83.0	65.5
Merged-chr12-35641132-4	chr12	35641020	35641220	+	964.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	45184.0	NR_045051	71581.0	Mm.100110	NR_045050	ENSMUSG00000113985	9130015A21Rik	100043575|Gm4527	RIKEN cDNA 9130015A21 gene	ncRNA	35.5	49.0	20.5	270.0	61.5	25.0	14.0	20.5
Merged-chr17-35870409-4	chr17	35870321	35870521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146710, intron 2 of 3)	intron (NM_001146710, intron 2 of 3)	3806.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	92.0	92.0	82.0	1282.5	161.0	58.5	74.0	61.5
Merged-chr3-107939607-4	chr3	107939484	107939684	+	902.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008184, intron 7 of 7)	intron (NM_008184, intron 7 of 7)	4165.0	NM_008184	14867.0	Mm.458154	NM_008184	ENSMUSG00000068762	Gstm6	-	glutathione S-transferase, mu 6	protein-coding	16.0	15.0	22.5	293.0	24.5	16.0	13.5	20.5
Merged-chr11-106818552-4	chr11	106818430	106818630	+	897.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166685, intron 18 of 18)	intron (NM_001166685, intron 18 of 18)	29278.0	NM_001166685	320162.0	Mm.30524	NM_177088	ENSMUSG00000018372	Cep95	4732496G21Rik|AI118346|AI448335|Ccdc45|D330027A14Rik|F630025I20Rik	centrosomal protein 95	protein-coding	23.0	21.5	14.0	251.5	35.0	7.0	11.5	20.0
Merged-chr9-70842719-8	chr9	70842619	70842819	+	950.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001324473, intron 1 of 8)	MIR3|SINE|MIR	92089.0	NM_008280	15450.0	Mm.390187	NM_008280	ENSMUSG00000032207	Lipc	AI256194|HL|Hpl	lipase, hepatic	protein-coding	9.0	18.5	14.5	152.0	33.0	25.0	14.0	15.5
Merged-chr4-86555248-4	chr4	86555141	86555341	+	858.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081096, intron 1 of 3)	intron (NM_001081096, intron 1 of 3)	3062.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	9.0	10.0	4.5	203.0	35.5	11.5	17.0	13.5
Merged-chr6-65150964-3	chr6	65150871	65151071	+	744.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6241.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	5.0	5.0	10.0	93.0	20.5	2.5	8.0	6.0
Merged-chr7-141558389-4	chr7	141558285	141558485	+	966.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-3795.0	NM_001357068	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	30.0	45.0	29.5	464.5	52.5	19.0	23.0	11.5
Merged-chr2-30447423-4	chr2	30447331	30447531	+	844.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_138748, exon 10 of 10)	3' UTR (NM_138748, exon 10 of 10)	26768.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	8.5	18.0	11.5	110.0	24.0	7.0	21.5	13.0
Merged-chr5-105745492-4	chr5	105745327	105745527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122768, intron 2 of 2)	intron (NM_001122768, intron 2 of 2)	44617.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	27.0	31.5	34.5	455.5	90.0	34.0	38.5	35.5
Merged-chr2-91097845-4	chr2	91097713	91097913	+	799.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011355, intron 1 of 4)	intron (NM_011355, intron 1 of 4)	1135.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	3.5	13.5	8.5	66.5	18.5	5.5	5.5	16.5
Merged-chr5-9161722-4	chr5	9161628	9161828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011806)	promoter-TSS (NM_011806)	48.0	NR_152860	23857.0	Mm.22480	NM_011806	ENSMUSG00000042508	Dmtf1	Dimp|Dmp1	cyclin D binding myb-like transcription factor 1	protein-coding	187.0	273.5	261.5	3110.5	546.0	213.0	256.5	184.5
Merged-chr15-97590907-4	chr15	97590809	97591009	+	954.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114913.0	NM_028003	71919.0	Mm.12255	NM_028003	ENSMUSG00000022466	Rpap3	2310042P20Rik|D15Ertd682e	RNA polymerase II associated protein 3	protein-coding	22.5	14.0	31.5	376.0	36.0	13.5	17.5	18.0
Merged-chr4-8690237-4	chr4	8690123	8690323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277149)	promoter-TSS (NM_001277149)	-183.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	42.5	70.5	28.5	477.0	101.0	26.5	46.0	27.0
Merged-chr4-101159599-4	chr4	101159492	101159692	+	860.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 17 of 24)	intron (NM_146145, intron 17 of 24)	90554.0	NM_183024	242570.0	Mm.185636	NM_183024	ENSMUSG00000035275	Raver2	A430091O22Rik	ribonucleoprotein, PTB-binding 2	protein-coding	10.0	8.0	13.5	208.0	29.0	3.0	9.5	14.5
Merged-chr4-130810314-4	chr4	130810216	130810416	+	971.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011520, intron 1 of 4)	intron (NM_011520, intron 1 of 4)	17779.0	NM_011520	20970.0	Mm.206536	NM_011520	ENSMUSG00000025743	Sdc3	Synd3|mKIAA0468|syn-3	syndecan 3	protein-coding	19.0	40.0	19.0	566.0	65.0	13.5	39.0	40.0
Merged-chr2-117304127-4	chr2	117304026	117304226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 3 of 16)	intron (NM_011246, intron 3 of 16)	38751.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	42.0	62.5	37.5	384.0	176.0	54.0	63.0	63.0
Merged-chr17-28251773-3	chr17	28251686	28251886	+	970.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 2 of 7)	intron (NM_011145, intron 2 of 7)	19032.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	10.0	23.0	6.5	120.0	30.0	7.5	6.5	6.0
Merged-chr15-76350637-4	chr15	76350506	76350706	+	965.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164608)	promoter-TSS (NM_001164608)	504.0	NM_025340	106025.0	Mm.41463	NM_025340	ENSMUSG00000022552	Sharpin	0610041B22Rik|AW121341|RBCKL1|SIPL1|cpdm	SHANK-associated RH domain interacting protein	protein-coding	22.5	51.0	35.5	271.0	59.5	21.0	12.5	33.5
Merged-chr11-94404812-4	chr11	94404704	94404904	+	906.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11828.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	23.0	26.0	9.5	181.0	27.5	7.5	10.0	10.0
Merged-chr17-29488707-3	chr17	29488606	29488806	+	966.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2339.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	12.0	32.5	14.5	167.0	21.5	10.0	13.5	9.5
Merged-chr5-123862827-3	chr5	123862726	123862926	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_030701)	TTS (NM_030701)	2690.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	22.0	24.0	9.0	105.5	55.0	19.5	13.0	13.0
Merged-chr7-139434223-4	chr7	139434094	139434294	+	661.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355162, intron 1 of 15)	intron (NM_001355162, intron 1 of 15)	33700.0	NM_001355162	212111.0	Mm.28308	NM_183144	ENSMUSG00000025477	Inpp5a	-	inositol polyphosphate-5-phosphatase A	protein-coding	5.5	13.0	8.0	100.0	13.5	6.5	11.0	11.0
Merged-chr2-122738462-4	chr2	122738322	122738522	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019788)	promoter-TSS (NM_019788)	-83.0	NM_019788	18457.0	Mm.268921	NM_019788	ENSMUSG00000005804	Bloc1s6	BLOC-1|Pldn|Stx13bp1|pa	biogenesis of lysosomal organelles complex-1, subunit 6, pallidin	protein-coding	119.0	165.0	110.0	1259.0	304.0	107.5	163.0	106.5
Merged-chr13-113267420-4	chr13	113267317	113267517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57758.0	NM_023612	71690.0	Mm.38929	NM_023612	ENSMUSG00000042379	Esm1	0610042H23Rik|AV004503|ESM-1	endothelial cell-specific molecule 1	protein-coding	28.0	28.0	20.5	613.0	36.0	22.5	26.5	27.5
Merged-chr13-99205093-3	chr13	99204952	99205152	+	821.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	20229.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	10.5	8.0	0.5	53.0	28.5	6.5	5.5	4.5
Merged-chr11-80171379-4	chr11	80171251	80171451	+	892.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 7 of 10)	MIR3|SINE|MIR	-12521.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	4.0	8.0	2.0	50.5	22.5	6.5	6.0	10.0
Merged-chr2-60810804-4	chr2	60810692	60810892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	70646.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	59.0	67.0	68.5	1409.5	82.0	30.0	71.0	48.5
Merged-chr11-49755433-3	chr11	49755333	49755533	+	964.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38722.0	NM_013529	14584.0	Mm.24402	NM_013529	ENSMUSG00000020363	Gfpt2	AI480523|GFAT2	glutamine fructose-6-phosphate transaminase 2	protein-coding	2.0	14.0	11.0	261.0	16.0	6.5	9.0	8.0
Merged-chr7-96999124-4	chr7	96999017	96999217	+	830.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 5 of 13)	L1Md_F2|LINE|L1	47590.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	12.5	11.5	6.5	187.5	31.5	7.5	12.0	16.0
Merged-chr11-102881079-4	chr11	102880979	102881179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011431)	promoter-TSS (NM_011431)	-104.0	NM_001109995	20624.0	Mm.873	NM_011431	ENSMUSG00000020929	Eftud2	116kDa|Snrp116|U5-116kD	elongation factor Tu GTP binding domain containing 2	protein-coding	19.5	70.5	19.5	242.5	81.0	32.5	26.5	33.0
Merged-chr3-37419756-4	chr3	37419654	37419854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163511)	promoter-TSS (NM_001163511)	-158.0	NM_153561	229228.0	Mm.436967	NM_153561	ENSMUSG00000050174	Nudt6	Asfgf2b	nudix (nucleoside diphosphate linked moiety X)-type motif 6	protein-coding	299.0	557.5	444.0	4583.5	975.5	470.5	514.5	377.5
Merged-chr1-89943408-4	chr1	89943304	89943504	+	770.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12228.0	NM_010262	14472.0	Mm.204730	NM_010262	ENSMUSG00000034486	Gbx2	D130058E05Rik|Gbx-2|MMoxA|Stra7	gastrulation brain homeobox 2	protein-coding	11.5	14.0	14.5	190.0	17.5	12.0	14.0	10.5
Merged-chr13-92986917-3	chr13	92986806	92987006	+	850.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-86398.0	NR_036451	100502942.0	Mm.441946	NM_177623	ENSMUSG00000114382	Gm4814	C920025J10|EG218444	predicted gene 4814	ncRNA	6.0	9.5	6.0	62.5	26.0	7.0	7.5	8.5
Merged-chr14-33393473-4	chr14	33393351	33393551	+	908.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310452, intron 4 of 10)	MTD|LTR|ERVL-MaLR	17573.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	6.5	15.5	14.5	159.5	13.5	3.5	23.5	13.5
Merged-chr18-5832793-4	chr18	5832719	5832919	+	774.674988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	240172.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	8.0	30.0	10.5	104.5	27.0	6.5	13.5	16.0
Merged-chr6-53216861-4	chr6	53216760	53216960	+	744.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4304.0	NR_073371	231989.0	Mm.372520	NR_073371	ENSMUSG00000107935	Gm4872	D430007I03	predicted gene 4872	ncRNA	5.0	12.5	11.5	120.5	23.5	2.0	11.5	10.0
Merged-chr2-148529048-2	chr2	148528948	148529148	+	635.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85513.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	5.0	5.0	6.0	96.0	10.5	9.0	11.5	11.0
Merged-chr2-165288663-3	chr2	165288581	165288781	+	759.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252574)	promoter-TSS (NM_001252574)	-843.0	NR_045544	228875.0	Mm.21184	NM_144893	ENSMUSG00000017664	Slc35c2	C85957|CGI-15|D2Wsu58e|Ovcov1	solute carrier family 35, member C2	protein-coding	11.0	10.5	3.0	91.5	11.0	4.5	7.0	4.5
Merged-chr7-19327322-4	chr7	19327209	19327409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17264.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	164.0	267.0	125.5	2245.5	509.0	155.5	207.0	149.5
Merged-chr10-68443012-3	chr10	68442948	68443148	+	814.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028491, intron 5 of 7)	intron (NM_028491, intron 5 of 7)	98827.0	NM_028491	73287.0	Mm.141830	NM_028491	ENSMUSG00000019945	Cabcoco1	1700040L02Rik	ciliary associated calcium binding coiled-coil 1	protein-coding	4.5	6.0	6.5	15.0	12.5	6.0	5.0	3.5
Merged-chr6-129418134-4	chr6	129418034	129418234	+	742.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205363, intron 4 of 6)	intron (NM_001205363, intron 4 of 6)	9272.0	NM_001205364	232414.0	Mm.391518	NM_172732	ENSMUSG00000046080	Clec9a	9830005G06Rik|DNGR-1	C-type lectin domain family 9, member a	protein-coding	12.0	19.0	4.0	113.0	41.5	17.5	7.0	18.0
Merged-chr9-118669936-4	chr9	118669830	118670030	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 9 of 27)	MER2|DNA|TcMar-Tigger	-41762.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	230.0	260.0	217.5	2849.5	609.0	226.0	388.5	212.5
Merged-chr11-120347963-3	chr11	120347871	120348071	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_105900)	promoter-TSS (NR_105900)	524.0	NM_001313923	11465.0	Mm.196173	NM_009609	ENSMUSG00000062825	Actg1	AL023024|Actg|Actl|E51	actin, gamma, cytoplasmic 1	protein-coding	17.5	88.0	8.0	97.0	174.0	96.0	33.0	50.5
Merged-chr2-33986589-4	chr2	33986487	33986687	+	882.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-98641.0	NM_175184	72543.0	Mm.254914	NM_175184	ENSMUSG00000038740	Mvb12b	2610200O14Rik|2610528K11Rik|AI414895|Fam125b	multivesicular body subunit 12B	protein-coding	14.0	15.0	7.0	124.0	54.0	10.5	28.0	15.0
Merged-chr5-125340923-6	chr5	125340756	125340956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001205082, exon 1 of 12)	exon (NM_001205082, exon 1 of 12)	238.0	NM_016741	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	26.5	46.5	31.5	332.0	63.0	36.0	29.5	45.0
Merged-chr19-5072076-4	chr19	5071951	5072151	+	939.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3973.0	NM_054042	70445.0	Mm.29597	NM_054042	ENSMUSG00000056481	Cd248	2610111G01Rik|AI842296|Cd164l1|Tem1	CD248 antigen, endosialin	protein-coding	20.0	26.5	30.5	217.5	46.0	12.0	10.5	16.5
Merged-chr2-29964529-2	chr2	29964429	29964629	+	859.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1031.0	NM_001177668	20740.0	Mm.204969	NM_001076554	ENSMUSG00000057738	Sptan1	2610027H02Rik|Spna-2|Spna2	spectrin alpha, non-erythrocytic 1	protein-coding	7.5	5.5	6.5	62.0	11.0	1.0	3.5	5.5
Merged-chr15-50363123-3	chr15	50363025	50363225	+	645.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	525924.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	5.0	9.5	5.5	84.0	14.5	4.0	2.5	5.5
Merged-chr10-14148132-4	chr10	14148015	14148215	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 9 of 9)	RLTR17|LTR|ERVK	181736.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	28.0	49.0	39.0	380.0	97.0	21.0	29.0	46.0
Merged-chr13-111944978-4	chr13	111944895	111945095	+	890.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	77059.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	15.5	16.0	8.0	133.5	29.0	9.0	8.0	8.0
Merged-chr1-87181100-4	chr1	87180995	87181195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2219.0	NM_027084	69453.0	Mm.84618	NM_027084	ENSMUSG00000036480	Prss56	1700027L20Rik	protease, serine 56	protein-coding	36.0	52.0	27.0	538.0	61.5	23.0	23.0	29.0
Merged-chr2-30794831-4	chr2	30794724	30794924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_198000)	TTS (NM_198000)	6913.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	28.5	45.5	37.0	410.5	81.5	41.0	31.0	34.5
Merged-chr10-69186451-4	chr10	69186361	69186561	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22091.0	NM_001252636	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	23.0	32.0	32.0	306.5	54.5	22.5	28.5	30.0
Merged-chr6-108740737-4	chr6	108740621	108740821	+	880.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-42338.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	25.5	14.5	30.0	707.5	36.5	6.0	9.0	9.0
Merged-chr11-83737471-4	chr11	83737371	83737571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-9469.0	NM_183249	66107.0	Mm.902	NM_183249	ENSMUSG00000051748	Wfdc21	1100001G20Rik|Wdnm1-like	WAP four-disulfide core domain 21	protein-coding	104.0	190.5	78.0	1123.0	240.0	99.0	91.0	74.5
Merged-chr2-174085197-4	chr2	174085097	174085297	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102424, intron 2 of 8)	intron (NM_001102424, intron 2 of 8)	8146.0	NM_001102423	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	18.5	9.0	18.5	168.0	33.5	5.0	13.5	5.5
Merged-chr10-80999995-4	chr10	80999872	81000072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010319, intron 1 of 3)	intron (NM_010319, intron 1 of 3)	1393.0	NM_001038655	14708.0	Mm.222496	NM_010319	ENSMUSG00000048240	Gng7	AI840417	guanine nucleotide binding protein (G protein), gamma 7	protein-coding	72.0	119.5	41.0	706.0	156.0	47.5	59.0	53.5
Merged-chr9-56419074-4	chr9	56418995	56419195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025812, intron 1 of 9)	intron (NM_025812, intron 1 of 9)	476.0	NM_025812	66867.0	Mm.150856	NM_025812	ENSMUSG00000032329	Hmg20a	1200004E06Rik|5730490E10Rik|Hmgxb1|Ibraf	high mobility group 20A	protein-coding	43.0	76.0	21.0	420.0	133.5	26.5	49.5	35.5
Merged-chr13-58999811-4	chr13	58999720	58999920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025074, intron 13 of 17)	intron (NM_001025074, intron 13 of 17)	192123.0	NM_001025074	18212.0	Mm.130054	NM_008745	ENSMUSG00000055254	Ntrk2	GP145-TrkB/GP95-TrkB|Tkrb|trk-B|trkB	neurotrophic tyrosine kinase, receptor, type 2	protein-coding	124.0	163.5	96.0	1827.5	138.5	73.5	79.5	97.5
Merged-chr17-35980791-3	chr17	35980660	35980860	+	966.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282013)	promoter-TSS (NM_001282013)	805.0	NM_008136	14670.0	Mm.335754	NM_008136	ENSMUSG00000024429	Gnl1	Gna-rs1|Gnal1	guanine nucleotide binding protein-like 1	protein-coding	16.5	14.0	7.5	153.5	21.5	9.5	6.0	10.0
Merged-chr1-171011861-4	chr1	171011761	171011961	+	915.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7065.0	NM_144559	246256.0	Mm.251254	NM_144559	ENSMUSG00000059089	Fcgr4	4833442P21Rik|CD16-2|FcgRIV|FcgammaRIV|Fcgr3a|Fcrl3	Fc receptor, IgG, low affinity IV	protein-coding	25.0	15.0	12.0	241.0	37.5	10.0	20.5	21.5
Merged-chr4-53410902-4	chr4	53410803	53411003	+	869.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29510.0	NM_001159633	100434.0	Mm.482207	NM_133891	ENSMUSG00000028412	Slc44a1	2210409B22Rik|4833416H08Rik|AW547365|CHTL1|CTL1|Cdw92	solute carrier family 44, member 1	protein-coding	20.5	14.5	7.5	365.0	44.5	20.0	20.5	26.5
Merged-chr7-126135614-4	chr7	126135513	126135713	+	737.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028816, intron 9 of 23)	intron (NM_028816, intron 9 of 23)	-53202.0	NM_001358885	269994.0	Mm.39599	NM_001101488	ENSMUSG00000046182	Gsg1l	AI852434|C230098I05Rik|G630023A01Rik|Gm637|g1l	GSG1-like	protein-coding	11.0	14.5	12.5	161.5	35.5	11.5	2.5	11.5
Merged-chr15-13088819-2	chr15	13088724	13088924	+	735.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007666, intron 2 of 11)	MER119|DNA|hAT-Charlie	84851.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	3.0	13.5	2.0	71.5	14.0	5.0	12.0	6.0
Merged-chr17-73263263-4	chr17	73263156	73263356	+	939.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	136040.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	14.0	10.5	8.5	226.0	31.5	7.0	4.0	16.5
Merged-chr6-48445015-3	chr6	48444893	48445093	+	926.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085415)	promoter-TSS (NM_001085415)	97.0	NM_001085415	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	9.0	8.5	24.0	173.5	12.0	13.0	8.5	14.0
Merged-chr5-117140522-3	chr5	117140410	117140610	+	764.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	6922.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	8.0	4.5	6.0	77.0	6.5	3.5	4.0	3.5
Merged-chr4-154925895-4	chr4	154925755	154925955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178931, intron 3 of 7)	intron (NM_178931, intron 3 of 7)	2222.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	9.5	29.0	17.5	112.0	47.0	16.5	22.0	20.5
Merged-chr7-45644652-2	chr7	45644552	45644752	+	923.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_172418, intron 9 of 9)	intron (NM_172418, intron 9 of 9)	4675.0	NM_172418	74490.0	Mm.107442	NM_172418	ENSMUSG00000042918	Mamstr	2810022D01Rik|5430432N15Rik|AW743872|Mastr	MEF2 activating motif and SAP domain containing transcriptional regulator	protein-coding	5.5	5.5	5.0	52.5	8.5	2.5	1.0	4.0
Merged-chr10-17576059-4	chr10	17575960	17576160	+	911.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147168.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	9.5	9.0	21.0	354.0	48.5	15.5	13.5	13.5
Merged-chr12-28635323-1	chr12	28635223	28635423	+	591.0	f0_balb.idr	intron (NM_011300, intron 3 of 6)	intron (NM_011300, intron 3 of 6)	630.0	NM_011300	20115.0	Mm.279839	NM_011300	ENSMUSG00000061477	Rps7	Mtu|Rps7A|S7	ribosomal protein S7	protein-coding	6.5	10.5	4.5	93.5	17.0	2.0	3.0	4.0
Merged-chr14-47276215-4	chr14	47276110	47276310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080843)	promoter-TSS (NM_080843)	647.0	NM_001360532	218973.0	Mm.265615	NM_172598	ENSMUSG00000037572	Wdhd1	A630092E18|AND-1|D630024B06Rik	WD repeat and HMG-box DNA binding protein 1	protein-coding	40.5	44.0	41.0	621.0	82.0	21.0	28.0	31.5
Merged-chr3-136672000-5	chr3	136671954	136672154	+	853.4799800000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	1988.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	11.0	5.5	9.5	131.5	32.5	12.5	10.5	19.0
Merged-chr4-128638683-3	chr4	128638587	128638787	+	920.9722289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16015.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	3.5	1.0	2.0	13.5	68.0	17.5	17.5	35.0
Merged-chr12-91765362-4	chr12	91765269	91765469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 1 of 6)	intron (NM_175367, intron 1 of 6)	21067.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	104.5	187.0	127.0	2006.5	350.5	83.5	110.0	68.5
Merged-chr7-75782656-4	chr7	75782560	75782760	+	926.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65678.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	25.0	34.5	5.5	184.0	81.5	14.5	12.0	22.0
Merged-chr7-135537791-4	chr7	135537743	135537943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316678)	promoter-TSS (NM_001316678)	19.0	NM_001316678	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	36.5	62.0	46.0	640.0	54.5	26.0	44.0	22.5
Merged-chr1-135368389-4	chr1	135368276	135368476	+	994.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_053106)	TTS (NM_053106)	6687.0	NM_175259	77552.0	Mm.41407	NM_175259	ENSMUSG00000041889	Shisa4	9330132O05Rik|Tmem58|mShisa4	shisa family member 4	protein-coding	16.5	28.5	11.0	349.0	104.5	22.0	27.5	40.0
Merged-chr10-118041644-1	chr10	118041544	118041744	+	723.0	f0_balb.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-100143.0	NM_001162904	17245.0	Mm.101191	NM_010785	ENSMUSG00000020212	Mdm1	Arrd2|Mdm-1	transformed mouse 3T3 cell double minute 1	protein-coding	6.5	4.5	8.5	97.5	1.0	0.0	0.5	0.0
Merged-chr12-117481890-4	chr12	117481791	117481991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34588.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	73.5	151.0	133.0	1393.5	294.5	78.0	141.5	116.0
Merged-chr16-10438214-4	chr16	10438117	10438317	+	867.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013778, intron 1 of 6)	intron (NM_001013778, intron 1 of 6)	9145.0	NM_001359069	383103.0	Mm.325732	NM_001013778	ENSMUSG00000050908	Tvp23a	Fam18a	trans-golgi network vesicle protein 23A	protein-coding	12.0	9.5	12.5	324.5	20.0	6.0	1.0	10.0
Merged-chr12-85372517-4	chr12	85372414	85372614	+	906.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 1 of 4)	intron (NM_026775, intron 1 of 4)	2203.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	24.5	27.0	12.0	280.5	41.0	10.5	28.5	17.0
Merged-chr18-61107790-4	chr18	61107716	61107916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037859, intron 2 of 21)	intron (NM_001037859, intron 2 of 21)	2244.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	42.0	69.0	50.0	863.5	107.5	42.0	51.0	89.5
Merged-chr11-51585792-2	chr11	51585692	51585892	+	848.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_028398, intron 2 of 12)	intron (NM_028398, intron 2 of 12)	1035.0	NM_028398	72947.0	Mm.256875	NM_028398	ENSMUSG00000020359	Phykpl	2900006B13Rik|Agxt2l2	5-phosphohydroxy-L-lysine phospholyase	protein-coding	4.0	8.0	4.0	41.5	21.5	5.5	4.5	7.0
Merged-chr13-105054998-1	chr13	105054898	105055098	+	594.0	f0_balb.idr	promoter-TSS (NM_029879)	promoter-TSS (NM_029879)	-68.0	NM_029879	52882.0	Mm.100348	NM_029879	ENSMUSG00000021719	Rgs7bp	A930030I01Rik|AI842293|D13Bwg1146e|R7bp	regulator of G-protein signalling 7 binding protein	protein-coding	8.0	5.5	7.5	114.5	18.5	6.0	2.0	7.0
Merged-chr17-71186866-3	chr17	71186768	71186968	+	855.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022882, intron 1 of 19)	PB1D7|SINE|Alu	2890.0	NM_022882	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	7.0	8.0	7.0	79.0	11.0	4.0	4.0	5.0
Merged-chr1-9850286-1	chr1	9850186	9850386	+	583.0	f0_c57.idr	intron (NM_001037759, intron 1 of 16)	L2a|LINE|L2	2005.0	NM_001037759	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	4.5	8.0	5.5	76.0	35.0	4.0	10.0	4.0
Merged-chr7-132714351-3	chr7	132714252	132714452	+	936.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175268, exon 5 of 5)	3' UTR (NM_175268, exon 5 of 5)	62564.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	13.0	11.5	23.0	356.5	7.0	0.0	6.5	3.5
Merged-chr19-37696671-4	chr19	37696551	37696751	+	658.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1157.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	1.5	4.5	7.0	26.0	8.0	5.0	7.5	10.0
Merged-chr5-122318332-4	chr5	122318238	122318438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177242, intron 4 of 5)	intron (NM_177242, intron 4 of 5)	33940.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	73.5	100.0	36.0	714.5	109.5	32.0	51.5	39.0
Merged-chr14-49065735-4	chr14	49065633	49065833	+	952.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144535)	promoter-TSS (NM_144535)	-816.0	NM_001360070	74385.0	Mm.379235	NM_144535	ENSMUSG00000036291	Ap5m1	4932432K03Rik|Mu5|Mudeng	adaptor-related protein complex 5, mu 1 subunit	protein-coding	5.0	13.5	16.0	137.0	27.5	6.0	7.0	14.5
Merged-chr7-83883853-4	chr7	83883780	83883980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_030705, exon 1 of 1)	5' UTR (NM_030705, exon 1 of 1)	461.0	NM_030705	80889.0	Mm.272998	NM_030705	ENSMUSG00000070462	Tlnrd1	AW061151|Mesdc1	talin rod domain containing 1	protein-coding	66.0	90.5	77.0	859.0	115.0	70.0	71.5	62.0
Merged-chr7-110769417-3	chr7	110769309	110769509	+	928.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276301, intron 1 of 14)	intron (NM_001276301, intron 1 of 14)	1203.0	NM_001276301	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	9.0	14.5	15.5	133.5	13.0	13.0	9.0	4.5
Merged-chr6-146643279-3	chr6	146643123	146643323	+	879.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025315, intron 1 of 3)	intron (NM_025315, intron 1 of 3)	644.0	NM_025315	108098.0	Mm.26212	NM_025315	ENSMUSG00000030291	Med21	0610007L03Rik|AI449604|D19234|D6Ertd782e|Srb7|Surb7	mediator complex subunit 21	protein-coding	7.5	11.0	7.5	136.5	14.0	9.0	10.0	12.0
Merged-chr6-38712986-3	chr6	38712886	38713086	+	727.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010433, intron 12 of 14)	ORR1D2|LTR|ERVL-MaLR	49917.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	4.0	13.0	5.0	71.0	21.0	5.0	10.0	5.5
Merged-chr19-6518782-4	chr19	6518677	6518877	+	961.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 21 of 22)	intron (NM_001205234, intron 21 of 22)	24293.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	12.5	17.0	10.5	181.0	56.5	20.5	23.5	41.0
Merged-chr15-90224236-4	chr15	90224131	90224331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033441)	promoter-TSS (NM_001033441)	-80.0	NM_001033441	380959.0	Mm.17853	NM_001033441	ENSMUSG00000075470	Alg10b	AA469671|AU045404|AW123895|C85569|Deaf1|Gm917|nse5	asparagine-linked glycosylation 10B (alpha-1,2-glucosyltransferase)	protein-coding	212.0	292.5	251.0	4080.5	629.0	174.5	279.5	209.5
Merged-chr16-33416470-4	chr16	33416367	33416567	+	865.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358569, intron 1 of 8)	RLTR40|LTR|ERVK	16022.0	NM_001358569	22661.0	Mm.392667	NM_011749	ENSMUSG00000022811	Zfp148	2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148	zinc finger protein 148	protein-coding	2.5	11.0	21.5	159.5	28.0	10.0	7.5	4.5
Merged-chr2-60905420-4	chr2	60905314	60905514	+	913.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020296, intron 1 of 13)	intron (NM_020296, intron 1 of 13)	-23976.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	13.0	14.5	2.5	159.0	45.5	13.5	16.0	19.0
Merged-chr18-78809017-4	chr18	78808922	78809122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053099, intron 4 of 5)	intron (NM_053099, intron 4 of 5)	-212072.0	NM_207651	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	47.5	75.5	46.5	632.0	172.5	70.0	54.5	31.5
Merged-chr18-53249748-4	chr18	53249600	53249800	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	4038.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	24.0	41.5	44.5	454.5	36.0	11.5	37.5	40.0
Merged-chr3-146812566-2	chr3	146812468	146812668	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_011100, intron 1 of 9)	CpG	378.0	NM_011100	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	25.5	39.0	29.5	517.0	64.0	28.5	44.0	29.0
Merged-chr6-90463665-4	chr6	90463572	90463772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355668, intron 1 of 2)	CpG	1096.0	NM_023184	66277.0	Mm.38343	NM_023184	ENSMUSG00000030087	Klf15	1810013I09Rik|AV048136|AW494632|CKLF|KKLF	Kruppel-like factor 15	protein-coding	18.0	34.0	24.5	575.0	48.0	16.0	26.0	18.5
Merged-chr11-5996098-2	chr11	5995998	5996198	+	768.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001174054, intron 5 of 20)	intron (NM_001174054, intron 5 of 20)	40340.0	NM_019661	56418.0	Mm.294821	NM_019661	ENSMUSG00000002741	Ykt6	0610042I15Rik|1810013M05Rik|AW105923	YKT6 v-SNARE homolog (S. cerevisiae)	protein-coding	5.5	6.0	3.5	89.0	7.5	6.5	6.5	6.5
Merged-chr2-118900467-3	chr2	118900377	118900577	+	777.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1138.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	9.5	12.5	13.5	109.5	16.0	6.5	10.0	11.0
Merged-chr1-156735868-4	chr1	156735757	156735957	+	913.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16947.0	NM_145413	215015.0	Mm.229107	NM_145413	ENSMUSG00000033557	Fam20b	C530043G21Rik|mKIAA0475	family with sequence similarity 20, member B	protein-coding	18.0	45.5	24.5	147.0	13.0	13.0	13.5	11.5
Merged-chr13-36547480-4	chr13	36547379	36547579	+	975.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	186998.0	NM_153529	68404.0	Mm.232930	NM_153529	ENSMUSG00000039114	Nrn1	0710008J23Rik|Cpg15|Nrn	neuritin 1	protein-coding	12.0	18.5	36.5	306.5	100.0	31.0	49.5	35.5
Merged-chr11-76407280-2	chr11	76407180	76407380	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_023355, exon 1 of 3)	exon (NM_023355, exon 1 of 3)	137.0	NM_019818	56322.0	Mm.18803	NM_019818	ENSMUSG00000020843	Timm22	Tim22	translocase of inner mitochondrial membrane 22	protein-coding	17.0	18.0	17.5	163.5	30.0	10.0	9.5	11.0
Merged-chr1-154175551-4	chr1	154175456	154175656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-25631.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	25.5	35.5	27.0	792.5	68.5	7.0	24.0	29.0
Merged-chr2-80168305-4	chr2	80168204	80168404	+	971.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38646.0	NM_001355140	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	9.5	11.5	28.5	394.5	69.5	18.5	33.5	37.5
Merged-chr2-119288636-4	chr2	119288544	119288744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172269)	promoter-TSS (NM_172269)	-98.0	NM_172269	228545.0	Mm.294761	NM_172269	ENSMUSG00000034216	Vps18	9930024E13Rik	VPS18 CORVET/HOPS core subunit	protein-coding	120.5	251.0	161.0	2079.0	362.5	121.5	144.5	146.5
Merged-chr1-135523267-4	chr1	135523152	135523352	+	902.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 3 of 28)	ORR1E|LTR|ERVL-MaLR	62103.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	3.0	12.0	3.5	124.0	35.0	17.5	14.5	16.0
Merged-chr5-8660245-8	chr5	8660129	8660329	+	797.842285	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011076, intron 3 of 29)	intron (NM_011076, intron 3 of 29)	-37277.0	NM_198620	242819.0	Mm.332192	NM_198620	ENSMUSG00000040570	Rundc3b	Gm440	RUN domain containing 3B	protein-coding	4.0	8.5	7.0	181.5	18.5	10.5	10.0	7.5
Merged-chr19-9082690-4	chr19	9082581	9082781	+	994.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011681)	TTS (NM_011681)	5275.0	NM_011681	22287.0	Mm.2258	NM_011681	ENSMUSG00000024653	Scgb1a1	CC10|CC16|CCSP|PCB-BP|UG|UGB|Utg	secretoglobin, family 1A, member 1 (uteroglobin)	protein-coding	24.5	47.5	24.5	359.5	49.5	15.5	32.0	20.0
Merged-chr15-83221915-3	chr15	83221830	83222030	+	884.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29801.0	NM_001170954	239559.0	Mm.323805	NM_001004150	ENSMUSG00000047878	A4galt	-	alpha 1,4-galactosyltransferase	protein-coding	8.5	19.5	7.5	165.5	10.5	4.0	7.0	7.0
Merged-chr16-96345327-4	chr16	96345177	96345377	+	938.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16480.0	NM_001177887	72058.0	Mm.119714	NM_028078	ENSMUSG00000000159	Igsf5	2010003D20Rik|JCAM|Jam4	immunoglobulin superfamily, member 5	protein-coding	5.0	10.0	7.5	245.0	31.5	26.0	20.5	9.5
Merged-chr10-128370803-4	chr10	128370694	128370894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081040)	promoter-TSS (NM_001081040)	-757.0	NM_001081040	210582.0	Mm.296876	NM_001081040	ENSMUSG00000039914	Coq10a	Gm1	coenzyme Q10A	protein-coding	92.5	77.0	68.0	1368.5	164.5	58.5	83.5	73.5
Merged-chr7-49753269-3	chr7	49753191	49753391	+	913.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5815.0	NM_001146053	53415.0	Mm.20801	NM_016865	ENSMUSG00000039745	Htatip2	AW111545|Cc3|Tip30	HIV-1 Tat interactive protein 2	protein-coding	7.0	10.0	7.5	93.0	14.5	4.5	11.0	9.0
Merged-chr10-125213246-3	chr10	125213143	125213343	+	871.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95573.0	NM_001358915	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	11.0	12.5	21.0	333.0	24.0	7.5	2.5	6.0
Merged-chr3-89964518-4	chr3	89964420	89964620	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1188.0	NM_001081182	54667.0	Mm.30455	NM_001081182	ENSMUSG00000060671	Atp8b2	Id	ATPase, class I, type 8B, member 2	protein-coding	12.0	10.0	4.5	151.5	42.5	18.5	8.0	12.5
Merged-chr2-181411269-4	chr2	181411169	181411369	+	899.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028125, exon 3 of 3)	3' UTR (NM_028125, exon 3 of 3)	13119.0	NM_027656	72147.0	Mm.486504	NM_027656	ENSMUSG00000027583	Zbtb46	2610019F01Rik|4933406L05Rik|BZEL|Btbd4	zinc finger and BTB domain containing 46	protein-coding	11.0	20.5	6.0	164.0	26.0	10.0	15.5	20.0
Merged-chr15-59314935-4	chr15	59314820	59315020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009270)	promoter-TSS (NM_009270)	-172.0	NM_009270	20775.0	Mm.296169	NM_009270	ENSMUSG00000022351	Sqle	AI323792	squalene epoxidase	protein-coding	162.0	304.0	202.0	3096.5	422.5	156.5	185.0	167.5
Merged-chr8-70541141-4	chr8	70541053	70541253	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007924, intron 1 of 11)	intron (NM_007924, intron 1 of 11)	1478.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	38.5	28.0	28.0	392.5	44.5	13.0	25.5	33.5
Merged-chr10-44632927-4	chr10	44632789	44632989	+	970.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-174141.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	14.5	17.5	11.0	210.0	29.5	4.0	15.5	17.0
Merged-chr14-51984442-4	chr14	51984336	51984536	+	962.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198249)	promoter-TSS (NM_198249)	-397.0	NM_001145921	268739.0	Mm.9239	NM_198249	ENSMUSG00000004562	Arhgef40	E130112L23Rik|Gm669|Solo	Rho guanine nucleotide exchange factor (GEF) 40	protein-coding	15.0	53.0	28.5	266.0	70.0	24.5	23.5	14.5
Merged-chr19-5800255-7	chr19	5800134	5800334	+	957.5238039999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_002847, exon 1 of 1)	non-coding (NR_002847, exon 1 of 1)	2438.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	22.5	24.0	14.0	145.5	33.5	19.0	16.5	22.0
Merged-chr14-64842676-1	chr14	64842576	64842776	+	636.5	f0_balb.idr	intron (NM_177338, intron 6 of 9)	intron (NM_177338, intron 6 of 9)	107181.0	NM_177338	219150.0	Mm.344074	NM_177338	ENSMUSG00000021972	Hmbox1	AI451877|AI604847|F830020C16Rik	homeobox containing 1	protein-coding	5.5	7.5	5.0	139.0	10.5	1.0	1.5	9.0
Merged-chr7-109210005-4	chr7	109209887	109210087	+	812.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-34780.0	NM_001302205	109594.0	Mm.360145	NM_057173	ENSMUSG00000036111	Lmo1	Rbtn-1|Rbtn1|Ttg1	LIM domain only 1	protein-coding	6.0	13.0	9.0	305.0	21.0	11.0	11.0	25.0
Merged-chr3-10012501-4	chr3	10012408	10012608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272098)	promoter-TSS (NM_001272098)	-77.0	NM_001272097	16592.0	Mm.741	NM_010634	ENSMUSG00000027533	Fabp5	E-FABP|Fabpe|Klbp|PA-FABP|mal1	fatty acid binding protein 5, epidermal	protein-coding	66.0	67.0	65.5	849.5	114.5	49.0	71.0	81.0
Merged-chr3-25721706-3	chr3	25721590	25721790	+	858.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357095, intron 4 of 6)	intron (NM_001357095, intron 4 of 6)	432296.0	NM_001163387	192167.0	Mm.316080	NM_138666	ENSMUSG00000063887	Nlgn1	6330415N05Rik|BB179718|NL1|Nlg1|mKIAA1070	neuroligin 1	protein-coding	6.5	12.5	4.5	247.5	14.5	13.5	4.0	9.5
Merged-chr19-17276209-3	chr19	17276081	17276281	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	63324.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	1.0	1.5	0.5	0.0	251.5	101.5	126.5	139.0
Merged-chr2-124299055-4	chr2	124299004	124299204	+	967.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 3 of 20)	intron (NM_001290997, intron 3 of 20)	-76746.0	NR_040612	75946.0	Mm.415059	NR_040612	ENSMUSG00000086954	4930583P06Rik	-	RIKEN cDNA 4930583P06 gene	ncRNA	15.5	15.0	22.5	368.5	20.5	10.5	7.5	12.5
Merged-chr13-51839448-4	chr13	51839354	51839554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7221.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	31.0	39.5	28.0	597.0	78.0	22.5	43.5	26.0
Merged-chr19-46484294-4	chr19	46484195	46484395	+	958.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 11 of 11)	intron (NM_001025391, intron 11 of 11)	-17353.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	16.0	32.0	14.0	100.5	57.0	18.0	16.5	16.5
Merged-chr5-7960323-4	chr5	7960224	7960424	+	884.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_054098)	promoter-TSS (NM_054098)	-148.0	NM_054098	117167.0	Mm.31403	NM_054098	ENSMUSG00000012428	Steap4	1110021O17Rik|AI481214|Tiarp|Tnfaip9	STEAP family member 4	protein-coding	21.0	25.0	23.0	213.0	16.0	7.0	12.0	5.0
Merged-chr6-48395759-5	chr6	48395633	48395833	+	837.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_152251)	promoter-TSS (NR_152251)	147.0	NM_001362144	77827.0	Mm.107646	NM_133922	ENSMUSG00000042810	Krba1	A930040G15Rik|AI448780	KRAB-A domain containing 1	protein-coding	7.5	6.5	12.5	84.0	17.0	3.0	5.5	5.0
Merged-chr1-14823562-5	chr1	14823541	14823741	+	968.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67675.0	NM_010827	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	2.0	9.5	13.5	98.0	15.5	11.0	5.5	6.0
Merged-chr18-6055826-4	chr18	6055730	6055930	+	933.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029277, intron 7 of 17)	intron (NM_029277, intron 7 of 17)	80268.0	NM_029277	75415.0	Mm.239675	NM_029277	ENSMUSG00000041225	Arhgap12	2810011M08Rik	Rho GTPase activating protein 12	protein-coding	21.0	23.5	6.5	111.5	34.0	6.5	6.5	17.5
Merged-chr17-7945866-4	chr17	7945747	7945947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025789, exon 1 of 8)	exon (NM_025789, exon 1 of 8)	233.0	NM_025789	66832.0	Mm.29830	NM_025789	ENSMUSG00000073471	Rsph3a	1700012G05Rik|4930524H12Rik|R74860|Rshl2|Rshl2a	radial spoke 3A homolog (Chlamydomonas)	protein-coding	64.0	109.0	84.5	719.5	183.5	77.5	84.0	77.5
Merged-chr6-108756125-4	chr6	108756014	108756214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10A|LTR|ERVL	-26945.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	71.0	86.0	47.5	945.5	110.0	18.5	55.5	36.0
Merged-chr1-161500953-4	chr1	161500849	161501049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183391, intron 2 of 2)	intron (NM_183391, intron 2 of 2)	6292.0	NM_183391	240873.0	Mm.276823	NM_183391	ENSMUSG00000066755	Tnfsf18	Gitrl|Tnlg2a	tumor necrosis factor (ligand) superfamily, member 18	protein-coding	92.5	91.0	88.0	1159.5	233.5	84.5	87.5	89.0
Merged-chr18-36691585-4	chr18	36691502	36691702	+	999.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172831, intron 5 of 12)	intron (NM_172831, intron 5 of 12)	4323.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	22.5	30.0	20.0	338.5	56.0	18.0	18.5	30.0
Merged-chr2-27311802-4	chr2	27311718	27311918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_133905, intron 3 of 29)	MIR3|SINE|MIR	-64515.0	NM_138665	192166.0	Mm.278467	NM_138665	ENSMUSG00000009614	Sardh	-	sarcosine dehydrogenase	protein-coding	91.5	104.0	44.5	975.5	158.5	63.0	90.0	67.5
Merged-chr14-120268707-4	chr14	120268596	120268796	+	944.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6973.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	4.0	18.0	5.0	159.0	34.5	19.0	27.5	13.0
Merged-chr13-118767745-3	chr13	118767639	118767839	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008002, intron 1 of 2)	intron (NM_008002, intron 1 of 2)	53040.0	NM_008002	14165.0	Mm.317323	NM_008002	ENSMUSG00000021732	Fgf10	AEY17|BB213776|Fgf-10|Gsfaey17	fibroblast growth factor 10	protein-coding	16.0	17.5	15.0	373.0	6.5	0.5	1.0	0.5
Merged-chr5-72184146-4	chr5	72184045	72184245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15956.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	81.0	120.5	48.5	1014.5	209.0	79.5	85.5	60.0
Merged-chr1-171193817-2	chr1	171193717	171193917	+	595.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_025557, intron 1 of 2)	intron (NM_025557, intron 1 of 2)	2451.0	NM_025557	66425.0	Mm.482117	NM_025557	ENSMUSG00000038370	Pcp4l1	1500036F01Rik	Purkinje cell protein 4-like 1	protein-coding	2.0	2.0	0.0	18.0	6.5	5.0	5.5	5.0
Merged-chr19-56745239-4	chr19	56745160	56745360	+	940.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22888.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	12.0	29.5	14.0	184.0	41.0	14.0	21.0	15.0
Merged-chr1-154062044-3	chr1	154061926	154062126	+	765.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-139161.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	9.0	8.0	7.0	135.5	17.0	7.5	4.0	13.5
Merged-chr6-52586799-4	chr6	52586693	52586893	+	829.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145567, intron 4 of 7)	B1F|SINE|Alu	53507.0	NM_145567	58875.0	Mm.286458	NM_145567	ENSMUSG00000029776	Hibadh	6430402H10Rik|AI265272	3-hydroxyisobutyrate dehydrogenase	protein-coding	8.0	16.5	7.0	143.5	29.5	12.5	14.5	10.5
Merged-chr7-80860419-4	chr7	80860348	80860548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1660.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	47.5	62.5	21.5	474.0	109.0	36.0	42.0	24.0
Merged-chr3-139042168-4	chr3	139042068	139042268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356388, intron 2 of 13)	MTEb|LTR|ERVL-MaLR	33033.0	NM_145544	229877.0	Mm.28893	NM_145544	ENSMUSG00000028149	Rap1gds1	BC011279|GDS1	RAP1, GTP-GDP dissociation stimulator 1	protein-coding	37.5	59.0	53.5	489.5	122.0	33.0	42.5	31.0
Merged-chr9-79816638-3	chr9	79816554	79816754	+	866.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357352, intron 5 of 5)	intron (NM_001357352, intron 5 of 5)	14328.0	NM_001357354	70598.0	Mm.23049	NM_001081243	ENSMUSG00000034898	Filip1	5730485H21Rik|AI843021	filamin A interacting protein 1	protein-coding	9.0	16.5	12.5	256.0	12.0	7.5	16.0	5.5
Merged-chr17-54002391-2	chr17	54002291	54002491	+	677.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11760.0	NM_018751	20888.0	Mm.10108	NM_018751	ENSMUSG00000023943	Sult1c1	(PST)G|P-SULT|ST1C1|Stp2|Sult1a2|mOLFST	sulfotransferase family, cytosolic, 1C, member 1	protein-coding	6.5	4.5	4.5	120.0	8.0	3.5	2.5	2.5
Merged-chr11-69416015-6	chr11	69415930	69416130	+	960.0912480000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2355.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	3.5	12.0	9.5	77.5	18.5	5.5	13.0	28.0
Merged-chr17-71479706-3	chr17	71479601	71479801	+	977.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	-4358.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	3.0	2.0	2.5	3.5	67.5	18.5	14.0	15.5
Merged-chr8-72321495-3	chr8	72321401	72321601	+	860.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008452, exon 3 of 3)	3' UTR (NM_008452, exon 3 of 3)	2439.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	17.5	3.5	7.0	63.0	32.5	6.0	10.0	9.0
Merged-chr1-186834145-2	chr1	186833992	186834192	+	890.43335	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84734.0	NM_026041	67223.0	Mm.289841	NM_026041	ENSMUSG00000001305	Rrp15	2810430M08Rik|5430437H21Rik	ribosomal RNA processing 15 homolog (S. cerevisiae)	protein-coding	0.5	3.0	0.0	6.5	20.0	5.0	8.0	9.0
Merged-chr7-75787566-4	chr7	75787529	75787729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60709.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	45.0	87.0	46.5	982.0	114.0	41.5	46.0	37.0
Merged-chr13-44491078-4	chr13	44490989	44491189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51362.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	30.5	43.5	32.5	444.0	98.5	32.0	47.5	36.0
Merged-chr8-106149185-4	chr8	106149066	106149266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1188.0	NM_133792	192654.0	Mm.284770	NM_133792	ENSMUSG00000031903	Pla2g15	ACS|C87498|LLPL|Lpla2|Lypla3	phospholipase A2, group XV	protein-coding	55.5	96.5	86.5	1041.5	217.0	51.0	90.0	58.5
Merged-chr11-87127125-4	chr11	87127033	87127233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197987)	promoter-TSS (NM_197987)	58.0	NM_197987	68729.0	Mm.17436	NM_197987	ENSMUSG00000018548	Trim37	1110032A10Rik|2810004E07Rik|AI848587|AU043018|MUL|TEF3|mKIAA0898	tripartite motif-containing 37	protein-coding	156.0	284.5	102.5	1834.0	412.5	253.0	154.0	168.0
Merged-chr9-120002211-4	chr9	120002108	120002308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17466.0	NM_153287	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	148.0	304.5	130.5	1293.5	402.0	181.0	138.5	100.0
Merged-chr10-63424644-4	chr10	63424538	63424738	+	986.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-5460.0	NM_177612	216033.0	Mm.444692	NM_177612	ENSMUSG00000060843	Ctnna3	4930429L08Rik|4933408A16|Catna3|Vr22	catenin (cadherin associated protein), alpha 3	protein-coding	29.5	33.0	17.0	324.5	60.0	17.5	35.5	34.5
Merged-chr7-44527701-4	chr7	44527580	44527780	+	932.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019866, exon 6 of 6)	3' UTR (NM_019866, exon 6 of 6)	-3011.0	NM_146189	233199.0	Mm.358888	NM_146189	ENSMUSG00000038670	Mybpc2	-	myosin binding protein C, fast-type	protein-coding	15.0	23.5	7.0	131.0	30.5	15.5	13.0	14.0
Merged-chr11-48871464-4	chr11	48871386	48871586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008326)	promoter-TSS (NM_008326)	-66.0	NM_008326	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	20.0	47.5	20.0	426.0	109.5	24.0	27.5	37.0
Merged-chr9-22308954-4	chr9	22308849	22309049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1311.0	NM_145612	235050.0	Mm.306038	NM_145612	ENSMUSG00000066829	Zfp810	BC005471	zinc finger protein 810	protein-coding	29.0	37.0	24.0	477.5	57.5	24.0	29.0	42.0
Merged-chr4-95716330-4	chr4	95716226	95716426	+	877.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029347, intron 6 of 10)	intron (NM_029347, intron 6 of 10)	136905.0	NM_029347	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	5.0	24.0	26.5	297.5	47.5	15.0	11.5	14.5
Merged-chr12-41484917-3	chr12	41484796	41484996	+	760.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271708, intron 1 of 2)	intron (NM_001271708, intron 1 of 2)	1161.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	9.5	10.5	11.0	159.0	14.0	12.0	6.5	5.0
Merged-chr7-121074587-4	chr7	121074479	121074679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030691)	promoter-TSS (NM_030691)	-49.0	NM_030691	80719.0	Mm.160384	NM_030691	ENSMUSG00000035004	Igsf6	-	immunoglobulin superfamily, member 6	protein-coding	125.0	169.5	122.0	1262.5	294.5	103.0	122.0	99.5
Merged-chr10-119052643-3	chr10	119052559	119052759	+	940.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR81A|LTR|Gypsy	-2160.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	14.0	9.0	4.0	137.5	17.5	12.5	7.0	7.5
Merged-chr9-65908947-4	chr9	65908873	65909073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019797)	promoter-TSS (NM_019797)	-37.0	NM_173185	214897.0	Mm.325816	NM_173185	ENSMUSG00000032384	Csnk1g1	9130020E21Rik	casein kinase 1, gamma 1	protein-coding	108.0	163.5	95.5	1204.0	235.5	98.5	87.0	90.5
Merged-chr17-8901659-4	chr17	8901573	8901773	+	935.7374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 2 of 21)	MTC|LTR|ERVL-MaLR	51688.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	13.5	14.5	24.5	386.0	64.5	11.5	24.5	14.5
Merged-chr2-174464119-4	chr2	174464017	174464217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025983)	promoter-TSS (NM_025983)	-16.0	NM_025983	67126.0	Mm.20841	NM_025983	ENSMUSG00000016252	Atp5e	2410043G19Rik|ATPE|AV000645|Atp5f1e	ATP synthase, H+ transporting, mitochondrial F1 complex, epsilon subunit	protein-coding	89.0	124.0	65.5	1843.0	296.5	85.5	181.0	141.0
Merged-chr8-85007915-4	chr8	85007834	85008034	+	859.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_052011, exon 10 of 10)	non-coding (NR_052011, exon 10 of 10)	6474.0	NM_001130194	212989.0	Mm.215154	NM_001130194	ENSMUSG00000052819	Best2	Vmd2l1	bestrophin 2	protein-coding	14.5	16.5	12.0	93.5	39.0	9.0	3.0	13.0
Merged-chr4-86427565-4	chr4	86427468	86427668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029967, exon 28 of 28)	3' UTR (NM_029967, exon 28 of 28)	130735.0	NM_001081096	75811.0	Mm.56451	NM_001081096	ENSMUSG00000028492	Saxo1	4930500O09Rik|Fam154a	stabilizer of axonemal microtubules 1	protein-coding	21.5	20.5	30.5	349.0	51.5	22.0	24.5	28.0
Merged-chr16-24653264-4	chr16	24653177	24653377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 5 of 12)	intron (NM_178665, intron 5 of 12)	-68578.0	NM_001145954	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	47.0	45.0	32.5	728.0	63.5	29.5	40.0	30.0
Merged-chr2-51073295-3	chr2	51073195	51073395	+	776.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75816.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	7.0	12.0	6.0	98.0	17.5	12.5	4.0	6.5
Merged-chr4-105242649-3	chr4	105242565	105242765	+	924.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	85318.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	1.0	1.0	0.0	6.5	34.5	4.5	15.0	12.0
Merged-chr17-28950961-4	chr17	28950866	28951066	+	861.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1470.0	NM_001356300	66989.0	Mm.435	NM_025888	ENSMUSG00000005936	Kctd20	2410004N11Rik|AI451943|AW541186|D17Ertd562e	potassium channel tetramerisation domain containing 20	protein-coding	7.0	16.5	11.5	238.5	25.5	10.5	8.5	7.5
Merged-chr3-100596499-3	chr3	100596391	100596591	+	838.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010763, intron 8 of 12)	intron (NM_010763, intron 8 of 12)	88982.0	NM_010763	17156.0	Mm.271617	NM_010763	ENSMUSG00000008763	Man1a2	AI428775|AI528764|AI854422|Man1b|PCR2	mannosidase, alpha, class 1A, member 2	protein-coding	5.0	8.0	15.0	156.0	5.5	6.0	7.0	11.5
Merged-chr10-52417464-4	chr10	52417372	52417572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030250)	promoter-TSS (NM_030250)	-75.0	NM_030250	52014.0	Mm.199964	NM_030250	ENSMUSG00000023068	Nus1	1600027K07Rik|AU019165|AW538011|BC003223|D10Ertd438e	NUS1 dehydrodolichyl diphosphate synthase subunit	protein-coding	344.5	378.0	250.0	4841.0	656.0	231.0	353.5	270.5
Merged-chr10-95494426-2	chr10	95494326	95494526	+	738.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026065, intron 3 of 5)	RMER16|LTR|ERVK	7523.0	NM_001359476	67270.0	Mm.30008	NM_026065	ENSMUSG00000062981	Mrpl42	2700009F22Rik|2900055D03Rik|D10Ertd322e|HSPC204|L31mt|L42mt|MRP-L31|MRP-L42|MRP-S32|PTD007|Rpml31|S32mt	mitochondrial ribosomal protein L42	protein-coding	5.5	10.5	6.5	44.0	6.5	2.0	5.5	5.5
Merged-chr1-167554245-3	chr1	167554177	167554377	+	948.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44085.0	NM_009107	20183.0	Mm.3475	NM_009107	ENSMUSG00000015843	Rxrg	Nr2b3	retinoid X receptor gamma	protein-coding	5.5	7.5	23.0	131.0	6.5	2.5	1.0	4.5
Merged-chr3-100999155-3	chr3	100999063	100999263	+	867.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167906, intron 8 of 8)	intron (NM_001167906, intron 8 of 8)	-29500.0	NM_001013026	74044.0	Mm.270961	NM_001013026	ENSMUSG00000033222	Ttf2	4632434F22Rik|8030447N19|AV218430	transcription termination factor, RNA polymerase II	protein-coding	12.0	9.0	7.0	111.5	18.0	10.0	11.0	12.5
Merged-chr15-84984213-2	chr15	84984071	84984271	+	624.133301	f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	3800.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	5.5	4.5	5.5	40.0	6.0	5.5	2.5	6.0
Merged-chr17-42840802-2	chr17	42840709	42840909	+	564.5	f0_balb.idr|f1_balb.idr	intron (NM_009847, intron 3 of 17)	intron (NM_009847, intron 3 of 17)	35615.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	11.0	9.0	5.0	79.5	1.5	0.0	1.0	0.0
Merged-chr9-82980560-4	chr9	82980474	82980674	+	755.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5085.0	NM_001081216	83946.0	Mm.221688	NM_031879	ENSMUSG00000032253	Phip	2810004D21Rik|4632404O06Rik|Ndrp|Wdr11	pleckstrin homology domain interacting protein	protein-coding	9.0	5.0	2.0	88.5	28.5	6.5	7.5	13.0
Merged-chr18-65690823-7	chr18	65690730	65690930	+	994.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7438.0	NM_177028	319888.0	Mm.183576	NM_177028	ENSMUSG00000046610	Oacyl	5330437I02Rik|Acyl3	O-acyltransferase like	protein-coding	11.0	11.0	27.0	226.0	27.5	9.0	9.5	26.0
Merged-chr13-73767349-4	chr13	73767251	73767451	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 1 of 24)	intron (NM_001360694, intron 1 of 24)	3654.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	39.0	51.0	37.0	871.5	105.0	36.0	73.0	63.5
Merged-chr18-75895944-4	chr18	75895854	75896054	+	856.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 1 of 4)	intron (NM_145356, intron 1 of 4)	75776.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	9.5	18.5	18.5	397.0	31.0	10.5	19.0	15.5
Merged-chr8-122160330-1	chr8	122160230	122160430	+	892.0	f0_balb.idr	Intergenic	Intergenic	-121811.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	5.5	6.5	11.0	138.0	1.0	0.0	1.5	3.0
Merged-chr15-103169111-4	chr15	103169003	103169203	+	891.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5819.0	NM_027885	71726.0	Mm.254820	NM_027885	ENSMUSG00000036061	Smug1	1200013B09Rik|A930006H09Rik|C85220	single-strand selective monofunctional uracil DNA glycosylase	protein-coding	10.0	21.0	9.0	131.0	25.0	7.0	8.5	10.5
Merged-chr15-103215319-4	chr15	103215211	103215411	+	878.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110216)	promoter-TSS (NM_001110216)	41.0	NM_007626	12419.0	Mm.262059	NM_007626	ENSMUSG00000009575	Cbx5	2610029O15Rik|C75991|HP1|Hp1a|Hp1alpha	chromobox 5	protein-coding	19.5	20.0	21.0	60.0	34.0	6.5	8.5	11.0
Merged-chr8-110919801-4	chr8	110919691	110919891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009179)	promoter-TSS (NM_009179)	-74.0	NM_009179	20444.0	Mm.200388	NM_009179	ENSMUSG00000031749	St3gal2	AI429591|AW822065|ST3GalII|Siat5	ST3 beta-galactoside alpha-2,3-sialyltransferase 2	protein-coding	37.0	69.0	77.5	736.0	58.0	29.0	46.5	58.0
Merged-chr14-62027898-4	chr14	62027808	62028008	+	887.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	265071.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	20.0	15.0	31.0	294.0	29.5	6.5	11.0	13.5
Merged-chr7-105779120-4	chr7	105779029	105779229	+	853.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162943, intron 1 of 20)	MIRb|SINE|MIR	8421.0	NM_001162943	233651.0	Mm.334108	NM_001162943	ENSMUSG00000036862	Dchs1	3110041P15Rik|C130033F22Rik|CDH25|FIB1|Gm165|PCDH16	dachsous cadherin related 1	protein-coding	9.5	13.0	8.5	217.0	19.5	4.5	12.5	18.0
Merged-chr1-155095442-2	chr1	155095342	155095542	+	748.400024	f1_balb.idr|f1_c57bl6.idr	TTS (NM_010500)	TTS (NM_010500)	4194.0	NM_010500	15939.0	Mm.12246	NM_010500	ENSMUSG00000056708	Ier5	-	immediate early response 5	protein-coding	2.0	7.5	4.0	40.0	9.0	4.5	5.5	5.0
Merged-chr1-179434935-4	chr1	179434809	179435009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027188, intron 1 of 11)	intron (NM_027188, intron 1 of 11)	83132.0	NM_027188	69726.0	Mm.222338	NM_027188	ENSMUSG00000055067	Smyd3	2410008A19Rik|Zmynd1	SET and MYND domain containing 3	protein-coding	54.0	57.5	41.5	682.5	166.0	50.0	63.5	71.5
Merged-chr12-102296604-4	chr12	102296503	102296703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161365, intron 1 of 9)	intron (NM_001161365, intron 1 of 9)	12962.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	74.0	129.5	59.0	709.5	142.0	46.0	34.5	32.0
Merged-chr3-81982730-4	chr3	81982624	81982824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-6996.0	NM_019911	56720.0	Mm.258622	NM_019911	ENSMUSG00000028011	Tdo2	AA407491|TDO|TO|chky	tryptophan 2,3-dioxygenase	protein-coding	55.5	70.0	58.0	1012.5	125.0	36.5	59.5	49.0
Merged-chr15-64191458-4	chr15	64191365	64191565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 5 of 28)	intron (NM_001276461, intron 5 of 28)	121208.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	32.5	43.5	19.0	496.0	81.5	26.0	40.5	47.5
Merged-chr17-27634807-2	chr17	27634707	27634907	+	717.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_025963, intron 1 of 5)	intron (NM_025963, intron 1 of 5)	435.0	NM_025963	67097.0	Mm.275810	NM_025963	ENSMUSG00000052146	Rps10	2210402A09Rik	ribosomal protein S10	protein-coding	8.0	8.0	10.0	54.0	10.5	3.0	3.0	8.5
Merged-chr14-54768528-4	chr14	54768420	54768620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016972, intron 1 of 10)	intron (NM_016972, intron 1 of 10)	13366.0	NM_016972	50934.0	Mm.276831	NM_016972	ENSMUSG00000022180	Slc7a8	AA408822|LAT2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 8	protein-coding	134.0	243.0	178.5	1811.5	316.5	147.5	151.5	93.0
Merged-chr8-70693818-4	chr8	70693719	70693919	+	931.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3920.0	NM_010592	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	23.5	24.0	11.5	351.0	24.0	15.0	26.0	20.5
Merged-chr7-106693145-4	chr7	106693033	106693233	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3404.0	NM_146452	258444.0	Mm.271372	NM_146452	ENSMUSG00000064223	Olfr694	MOR283-9	olfactory receptor 694	protein-coding	38.0	43.0	36.0	757.0	51.5	26.0	37.0	34.5
Merged-chr4-32147679-3	chr4	32147582	32147782	+	976.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	183575.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	19.5	18.5	59.0	479.5	8.0	2.5	6.5	7.5
Merged-chr10-93095380-4	chr10	93095283	93095483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13787.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	34.5	55.0	22.5	275.5	230.0	123.0	122.5	106.5
Merged-chr2-117249775-4	chr2	117249658	117249858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026620)	promoter-TSS (NM_026620)	19.0	NM_026620	68215.0	Mm.219389	NM_026620	ENSMUSG00000027349	Fam98b	2610510H03Rik	family with sequence similarity 98, member B	protein-coding	47.0	85.0	41.0	681.0	132.0	65.5	54.0	59.5
Merged-chr3-126612948-4	chr3	126612867	126613067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	Lx5c|LINE|L1	16016.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	19.5	22.0	18.0	371.0	74.5	35.0	51.5	62.5
Merged-chr9-104764117-3	chr9	104763998	104764198	+	956.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028719, intron 2 of 15)	GA-rich|Low_complexity|Low_complexity	194615.0	NM_028719	74020.0	Mm.326240	NM_028719	ENSMUSG00000032564	Cpne4	3632411M23Rik|4933406O10Rik	copine IV	protein-coding	24.0	17.5	13.0	265.5	4.0	3.0	1.5	1.0
Merged-chr12-105685345-4	chr12	105685245	105685445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178613)	promoter-TSS (NM_178613)	-7.0	NM_178613	66787.0	Mm.248019	NM_178613	ENSMUSG00000044715	Gskip	4933433P14Rik	GSK3B interacting protein	protein-coding	89.5	158.5	73.0	1414.0	306.5	147.0	118.0	121.0
Merged-chr2-11441992-4	chr2	11441882	11442082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43482.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	105.0	206.5	170.5	2217.0	371.0	113.5	132.0	167.5
Merged-chr17-7863921-3	chr17	7863818	7864018	+	797.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58944.0	NM_001081416	68655.0	Mm.379161	NM_001081416	ENSMUSG00000071984	Fndc1	1110027O12Rik|1110051A18Rik|mKIAA1866	fibronectin type III domain containing 1	protein-coding	10.0	10.5	2.0	122.5	23.0	12.5	5.0	10.5
Merged-chr6-148946485-4	chr6	148946374	148946574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019643)	promoter-TSS (NM_019643)	-4.0	NM_001361398	56306.0	Mm.18637	NM_019643	ENSMUSG00000039985	Fam60a	Ppcs1|Pptcs1|Sinhcaf|Tera	family with sequence similarity 60, member A	protein-coding	158.0	237.0	184.5	1800.0	420.5	168.0	193.5	168.0
Merged-chr18-32391596-3	chr18	32391457	32391657	+	884.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	intron (NM_001360876, intron 1 of 17)	-13273.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	15.5	25.0	10.5	99.5	16.5	7.0	10.0	11.5
Merged-chr11-101181054-2	chr11	101180954	101181154	+	880.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_016782, intron 8 of 23)	B3A|SINE|B2	4937.0	NM_016782	53321.0	Mm.474527	NM_016782	ENSMUSG00000017167	Cntnap1	AI841080|Caspr|NCP1|Nrxn4|p190|shm	contactin associated protein-like 1	protein-coding	10.0	6.5	3.0	77.0	24.5	9.0	7.5	12.0
Merged-chr11-74484175-3	chr11	74484087	74484287	+	742.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 3 of 24)	intron (NM_001015046, intron 3 of 24)	105971.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	8.5	7.5	2.0	74.5	29.5	7.5	13.0	9.5
Merged-chr7-111122271-4	chr7	111122191	111122391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015573, intron 1 of 2)	CpG	384.0	NR_015573	75479.0	Mm.381620	NR_015573	ENSMUSG00000110424	1700012D14Rik	-	RIKEN cDNA 1700012D14 gene	ncRNA	50.0	53.5	85.0	629.5	83.0	20.5	39.0	48.5
Merged-chr17-27858276-4	chr17	27858153	27858353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080769, intron 1 of 20)	RSINE1|SINE|B4	1746.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	37.0	57.5	20.0	475.0	85.5	27.5	23.5	33.5
Merged-chr2-69017125-2	chr2	69017020	69017220	+	640.0	f0_balb.idr|f0_c57.idr	intron (NM_001347161, intron 4 of 10)	intron (NM_001347161, intron 4 of 10)	-118680.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	9.5	10.0	9.0	117.0	20.5	6.0	4.5	12.5
Merged-chr12-16216440-1	chr12	16216340	16216540	+	970.8333130000001	f0_balb.idr	Intergenic	Intergenic	373330.0	NM_015763	14245.0	Mm.153625	NM_015763	ENSMUSG00000020593	Lpin1	Lipin1|fld	lipin 1	protein-coding	12.0	37.0	18.0	276.0	2.0	0.0	0.5	0.0
Merged-chr2-78046201-3	chr2	78046103	78046303	+	879.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33A_|LTR|ERVL	-4974.0	NR_108098	78158.0	Mm.78473	NR_108098	ENSMUSG00000085431	4930440I19Rik	-	RIKEN cDNA 4930440I19 gene	ncRNA	3.5	12.5	4.0	137.0	8.0	6.5	5.0	6.0
Merged-chr5-65990256-4	chr5	65990149	65990349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027961, intron 5 of 6)	intron (NR_027961, intron 5 of 6)	14036.0	NR_027961	231253.0	Mm.436542	NM_177679	ENSMUSG00000054598	9130230L23Rik	-	RIKEN cDNA 9130230L23 gene	ncRNA	35.5	72.5	26.0	457.5	78.5	28.5	33.0	35.0
Merged-chr15-64096232-4	chr15	64096130	64096330	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 26 of 28)	MIR|SINE|MIR	-35782.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	21.5	31.0	34.0	397.0	61.0	22.5	9.0	17.5
Merged-chr6-122310524-4	chr6	122310498	122310698	+	934.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010749, intron 1 of 6)	intron (NM_010749, intron 1 of 6)	1878.0	NM_010749	17113.0	Mm.249225	NM_010749	ENSMUSG00000007458	M6pr	CD-MPR|Mpr46	mannose-6-phosphate receptor, cation dependent	protein-coding	11.0	13.5	5.5	109.5	16.5	8.0	8.0	6.0
Merged-chr5-64959232-4	chr5	64959093	64959293	+	956.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359180, intron 1 of 1)	intron (NM_001359180, intron 1 of 1)	903.0	NM_001359180	21899.0	Mm.42146	NM_011604	ENSMUSG00000051498	Tlr6	-	toll-like receptor 6	protein-coding	10.5	16.0	7.0	229.5	42.0	15.5	6.5	18.0
Merged-chr18-66474034-4	chr18	66473921	66474121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15417.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	59.0	92.0	42.0	888.0	153.0	67.5	81.5	61.0
Merged-chr11-32629916-4	chr11	32629821	32630021	+	890.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12634.0	NM_001271348	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	7.0	6.0	12.0	139.5	37.5	13.5	18.0	15.5
Merged-chr8-123653795-4	chr8	123653690	123653890	+	773.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133955)	promoter-TSS (NM_133955)	-139.0	NM_133955	69581.0	Mm.168257	NM_133955	ENSMUSG00000039960	Rhou	2310026M05Rik|AI182090|Arhu|CDC42L1|G28K|WRCH-1|WRCH1|mG28K	ras homolog family member U	protein-coding	15.5	13.0	9.0	105.0	27.5	5.5	12.5	19.5
Merged-chr6-17584159-4	chr6	17584075	17584275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52835.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	24.0	27.5	49.0	479.5	81.5	38.0	53.5	38.0
Merged-chr17-5492562-4	chr17	5492464	5492664	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146073)	promoter-TSS (NM_146073)	-36.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	147.0	165.0	173.5	2861.5	281.0	111.5	232.0	187.5
Merged-chr9-66136152-2	chr9	66136052	66136252	+	888.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026635, intron 3 of 4)	intron (NM_026635, intron 3 of 4)	9541.0	NM_026635	68250.0	Mm.27107	NM_026635	ENSMUSG00000032381	Fam96a	5730536A07Rik	family with sequence similarity 96, member A	protein-coding	4.0	8.0	4.5	48.5	22.5	8.5	8.0	6.5
Merged-chr19-5118365-4	chr19	5118240	5118440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008451)	promoter-TSS (NM_008451)	68.0	NR_045528	16594.0	Mm.271648	NM_008451	ENSMUSG00000024862	Klc2	8030455F02Rik|AW212649|KLC 2|KLC-2	kinesin light chain 2	protein-coding	83.0	142.5	75.0	968.5	134.0	54.0	58.0	44.5
Merged-chr6-29474619-4	chr6	29474502	29474702	+	999.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3165.0	NM_001145360	668210.0	Mm.420607	NM_001145360	ENSMUSG00000090685	Gm9047	EG668210	predicted gene 9047	protein-coding	12.0	26.5	18.0	269.5	28.0	26.5	17.0	32.5
Merged-chr2-71328962-4	chr2	71328887	71329087	+	897.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172436, intron 4 of 17)	intron (NM_172436, intron 4 of 17)	38567.0	NM_172436	78830.0	Mm.30928	NM_172436	ENSMUSG00000027010	Slc25a12	2610002D09Rik|AI839531|B230107K20Rik|BB129864	solute carrier family 25 (mitochondrial carrier, Aralar), member 12	protein-coding	12.0	27.5	10.0	154.0	51.0	13.0	19.0	11.5
Merged-chr2-35200329-3	chr2	35200220	35200420	+	904.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026697, intron 1 of 7)	CpG	800.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	11.0	8.5	13.5	91.0	29.5	13.5	6.0	15.5
Merged-chr4-149701596-4	chr4	149701524	149701724	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029837)	promoter-TSS (NM_001029837)	5.0	NM_001029837	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	8.5	33.0	14.5	246.5	115.5	29.5	48.5	35.5
Merged-chr14-104849438-3	chr14	104849330	104849530	+	763.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015593, intron 2 of 5)	MLTR25C|LTR|ERVK	210283.0	NR_015593	320249.0	Mm.320725	NR_015593	ENSMUSG00000115432	D130009I18Rik	-	RIKEN cDNA D130009I18 gene	ncRNA	8.5	5.0	7.5	163.5	21.0	5.0	3.5	7.0
Merged-chr2-112259668-4	chr2	112259516	112259716	+	901.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172521)	promoter-TSS (NM_172521)	-325.0	NM_172521	213765.0	Mm.78965	NM_172521	ENSMUSG00000041358	Nutm1	4932438M10|Nut	NUT midline carcinoma, family member 1	protein-coding	8.5	7.5	11.0	104.5	14.5	5.5	5.5	2.0
Merged-chr19-43689684-4	chr19	43689586	43689786	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053103)	promoter-TSS (NM_053103)	-3.0	NM_053103	93685.0	Mm.248237	NM_053103	ENSMUSG00000025192	Entpd7	1810012B13Rik|1810020C02Rik|2810003F23Rik|LALP1|Lysal2	ectonucleoside triphosphate diphosphohydrolase 7	protein-coding	350.0	417.5	396.5	5552.0	600.5	282.0	335.0	272.0
Merged-chr5-149229152-4	chr5	149229054	149229254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35850.0	NM_001308462	11690.0	Mm.19844	NM_009663	ENSMUSG00000060063	Alox5ap	Flap	arachidonate 5-lipoxygenase activating protein	protein-coding	168.0	167.0	116.0	1724.5	283.0	149.5	190.0	114.0
Merged-chr10-13987553-4	chr10	13987429	13987629	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	21150.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	16.5	34.0	22.5	428.0	105.0	14.0	32.0	39.0
Merged-chr10-96035250-4	chr10	96035155	96035355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001932, intron 22 of 28)	MTEa|LTR|ERVL-MaLR	94592.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	70.5	134.5	65.0	1410.0	154.0	61.5	72.5	84.5
Merged-chr12-84114311-4	chr12	84114204	84114404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346528)	promoter-TSS (NM_001346528)	-24.0	NM_028821	105000.0	Mm.101525	NM_028821	ENSMUSG00000042523	Dnal1	1700010H15Rik|AW121714|Dnalc1|E330027P08Rik	dynein, axonemal, light chain 1	protein-coding	50.0	43.5	17.5	351.0	71.5	36.0	39.5	27.0
Merged-chr15-25282512-4	chr15	25282413	25282613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	131251.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	62.5	89.0	116.0	1410.5	193.5	60.5	87.5	89.5
Merged-chr4-132039043-4	chr4	132038925	132039125	+	825.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183428, intron 1 of 20)	LTR104_Mam|LTR|Gypsy	10053.0	NM_001128606	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	29.0	7.5	6.0	93.5	15.5	6.0	19.5	4.0
Merged-chr7-114414671-2	chr7	114414571	114414771	+	899.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011055)	promoter-TSS (NM_011055)	490.0	NR_029437	71045.0	Mm.235682	NR_029437	ENSMUSG00000087475	4933406I18Rik	4933403D24Rik	RIKEN cDNA 4933406I18 gene	ncRNA	4.5	4.5	9.0	25.0	4.5	2.0	0.5	6.5
Merged-chr16-10486943-4	chr16	10486837	10487037	+	983.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243760, intron 1 of 18)	intron (NM_001243760, intron 1 of 18)	-1241.0	NM_007575	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	18.0	83.0	20.5	327.5	128.5	35.5	25.5	19.5
Merged-chr3-79299604-1	chr3	79299504	79299704	+	621.5	f0_balb.idr	Intergenic	ID_B1|SINE|B4	-45772.0	NM_001142953	100233207.0	Mm.373801	NM_001142953	ENSMUSG00000091685	Gm17359	-	predicted gene, 17359	protein-coding	8.0	7.5	7.5	199.5	0.0	0.0	0.0	0.0
Merged-chr1-171247665-3	chr1	171247585	171247785	+	997.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153064)	promoter-TSS (NM_153064)	-563.0	NM_153064	226646.0	Mm.21669	NM_153064	ENSMUSG00000013593	Ndufs2	CI-49kD	NADH dehydrogenase (ubiquinone) Fe-S protein 2	protein-coding	23.0	33.0	14.0	185.5	46.5	11.5	10.0	23.5
Merged-chr2-113396107-3	chr2	113395992	113396192	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285458, intron 2 of 16)	intron (NM_001285458, intron 2 of 16)	-44972.0	NM_001285459	14260.0	Mm.4938	NM_010230	ENSMUSG00000044042	Fmn1	Fmn|formin-1|ld	formin 1	protein-coding	17.0	13.5	7.0	303.5	25.0	5.5	7.0	14.0
Merged-chr9-22475710-4	chr9	22475619	22475819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181316)	promoter-TSS (NM_181316)	4.0	NM_181316	319845.0	Mm.176725	NM_178415	ENSMUSG00000035919	Bbs9	E130103I17Rik	Bardet-Biedl syndrome 9 (human)	protein-coding	137.5	155.5	115.5	2368.0	279.5	99.0	129.0	98.5
Merged-chr1-95339820-4	chr1	95339724	95339924	+	985.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	26196.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	24.5	23.5	30.5	616.0	28.5	12.5	27.0	43.0
Merged-chr17-24529323-3	chr17	24529218	24529418	+	865.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045289)	TTS (NR_045289)	1067.0	NR_045289	75614.0	Mm.440235	NR_045289	ENSMUSG00000093565	Rab26os	2610019E17Rik	RAB26, member RAS oncogene family, opposite strand	ncRNA	0.0	13.0	6.0	29.0	26.5	4.5	13.5	7.0
Merged-chr13-23571272-4	chr13	23571170	23571370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178187)	promoter-TSS (NM_178187)	-50.0	NM_178187	319166.0	Mm.261665	NM_178187	ENSMUSG00000069272	Hist1h2ae	1190022L06	histone cluster 1, H2ae	protein-coding	139.0	208.5	172.5	2560.0	465.0	178.5	186.0	185.0
Merged-chr9-65549323-3	chr9	65549221	65549421	+	864.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30766.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	17.5	18.5	13.5	195.5	13.5	2.0	9.5	2.5
Merged-chr8-104293517-1	chr8	104293417	104293617	+	814.333313	f0_balb.idr	promoter-TSS (NM_027022)	promoter-TSS (NM_027022)	-336.0	NM_027022	73381.0	Mm.272746	NM_027022	ENSMUSG00000074127	Cmtm2a	1700001K04Rik|1700041N15Rik|1700063K20Rik|AI449770|ARR19|C32|CKLF3|CKLF4|CKLF5|Cklf|Cklf1|Cklfsf2-1b|Cklfsf2a|UCK-1	CKLF-like MARVEL transmembrane domain containing 2A	protein-coding	10.0	7.0	14.5	148.0	10.5	4.5	2.5	5.5
Merged-chr7-132811103-4	chr7	132810995	132811195	+	982.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	2101.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	43.5	23.5	8.5	425.5	69.0	32.0	44.5	44.0
Merged-chr10-70243299-4	chr10	70243189	70243389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1987.0	NM_025807	66859.0	Mm.19325	NM_025807	ENSMUSG00000037762	Slc16a9	1200003C15Rik|4930425B13Rik|AI552636	solute carrier family 16 (monocarboxylic acid transporters), member 9	protein-coding	92.0	98.5	109.5	1650.0	185.5	89.0	133.0	112.0
Merged-chr9-110982795-4	chr9	110982701	110982901	+	898.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028838, exon 9 of 9)	3' UTR (NM_028838, exon 9 of 9)	-6698.0	NR_152179	791282.0	Mm.406769	NR_152179	ENSMUSG00000057802	Gm10030	-	predicted gene 10030	ncRNA	31.0	44.0	20.0	652.0	25.5	0.5	5.5	10.5
Merged-chr2-51376829-4	chr2	51376739	51376939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61061.0	NR_130155	73375.0	Mm.396227	NR_130155	ENSMUSG00000086007	1700057H21Rik	-	RIKEN cDNA 1700057H21 gene	ncRNA	80.0	123.5	80.5	1353.5	108.0	32.5	48.5	38.0
Merged-chr1-36923209-3	chr1	36923102	36923302	+	838.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 1 of 40)	B3|SINE|B2	16325.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	11.0	14.5	24.5	79.0	13.5	7.5	2.0	3.0
Merged-chr14-55900211-3	chr14	55900094	55900294	+	805.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001082975)	promoter-TSS (NM_001082975)	38.0	NM_001082975	654795.0	Mm.486218	NM_001082975	ENSMUSG00000022223	Sdr39u1	2310014G06Rik	short chain dehydrogenase/reductase family 39U, member 1	protein-coding	9.5	13.0	6.5	59.0	2.0	4.5	6.0	11.5
Merged-chr10-93273581-4	chr10	93273543	93273743	+	913.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001322265, intron 2 of 4)	intron (NM_001322265, intron 2 of 4)	37516.0	NM_001322268	13713.0	Mm.4454	NM_013508	ENSMUSG00000008398	Elk3	D430049E23Rik|Erp|Etrp|Net|Sap-2	ELK3, member of ETS oncogene family	protein-coding	3.0	17.0	17.5	121.0	12.0	5.5	12.0	11.5
Merged-chr14-31608947-4	chr14	31608834	31609034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019975, intron 16 of 16)	intron (NM_019975, intron 16 of 16)	-31551.0	NM_009937	382864.0	Mm.239821	NM_009937	ENSMUSG00000057606	Colq	A130034K24Rik	collagen-like tail subunit (single strand of homotrimer) of asymmetric acetylcholinesterase	protein-coding	26.0	38.0	30.0	392.5	97.5	28.5	35.5	25.5
Merged-chr1-55521291-3	chr1	55521195	55521395	+	650.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	115349.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	1.5	6.0	8.0	108.5	19.5	5.0	4.5	11.0
Merged-chr7-4137141-7	chr7	4137042	4137242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033548)	promoter-TSS (NR_033548)	86.0	NM_172736	232798.0	Mm.22831	NM_172736	ENSMUSG00000035545	Leng8	AW049671	leukocyte receptor cluster (LRC) member 8	protein-coding	109.0	212.5	142.5	1216.0	327.5	105.0	122.5	139.5
Merged-chr10-82814787-4	chr10	82814657	82814857	+	988.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038042, intron 1 of 2)	intron (NR_038042, intron 1 of 2)	2634.0	NR_038042	70003.0	Mm.48789	NR_038042	ENSMUSG00000056821	1700028I16Rik	-	RIKEN cDNA 1700028I16 gene	ncRNA	9.5	23.0	34.5	373.5	85.5	23.5	37.0	25.5
Merged-chr11-79305835-4	chr11	79305719	79305919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34073.0	NM_010897	18015.0	Mm.255596	NM_010897	ENSMUSG00000020716	Nf1	AW494271|Dsk9|E030030H24Rik|Mhdadsk9|Nf-1	neurofibromin 1	protein-coding	66.0	98.5	50.0	854.5	167.0	70.5	42.5	68.0
Merged-chr4-9682723-4	chr4	9682646	9682846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13402.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	81.5	145.0	122.0	2073.5	253.0	112.5	128.5	115.5
Merged-chr9-41185545-4	chr9	41185456	41185656	+	878.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20599.0	NR_040392	78500.0	Mm.275715	NR_040392	ENSMUSG00000100837	1700063D05Rik	-	RIKEN cDNA 1700063D05 gene	ncRNA	5.5	3.0	6.5	121.5	76.0	45.0	43.5	27.0
Merged-chr13-37913292-3	chr13	37913197	37913397	+	961.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 6 of 9)	intron (NM_001039188, intron 6 of 9)	24426.0	NM_001177869	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	5.0	11.0	13.5	138.5	14.0	3.0	9.0	9.0
Merged-chr14-30867219-3	chr14	30867132	30867332	+	756.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028839, intron 4 of 7)	intron (NM_028839, intron 4 of 7)	-12025.0	NM_181390	66175.0	Mm.220895	NM_181390	ENSMUSG00000042485	Mustn1	1110028G01Rik|Mustang	musculoskeletal, embryonic nuclear protein 1	protein-coding	9.5	9.5	4.0	59.5	15.0	5.0	10.0	7.0
Merged-chr8-8334664-4	chr8	8334548	8334748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	326125.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	20.0	26.5	22.5	511.0	60.0	30.0	31.5	30.0
Merged-chr19-7557443-4	chr19	7557352	7557552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139269)	promoter-TSS (NM_139269)	-7.0	NM_139269	225845.0	Mm.274810	NM_139269	ENSMUSG00000060675	Pla2g16	AdPLA|C78643|HRSL3|Hrasls3|Hrev107|MLP-3	phospholipase A2, group XVI	protein-coding	28.0	44.5	36.0	488.5	43.5	26.5	34.0	30.0
Merged-chr9-106203142-4	chr9	106203034	106203234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011876)	promoter-TSS (NM_011876)	26.0	NM_011876	23999.0	Mm.274346	NM_011876	ENSMUSG00000023277	Twf2	A6-related|AU014993|Ptk9l|Ptk9r	twinfilin actin binding protein 2	protein-coding	114.0	118.0	65.5	1383.5	181.0	95.5	96.0	69.5
Merged-chr7-55853561-4	chr7	55853443	55853643	+	992.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	L1ME3G|LINE|L1	11472.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	29.0	35.0	18.0	141.0	102.0	24.5	23.5	24.0
Merged-chr16-21380894-4	chr16	21380807	21381007	+	755.412476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42211.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	10.5	17.0	12.0	43.0	19.5	4.5	12.0	5.5
Merged-chr13-5614392-4	chr13	5614284	5614484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243708.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	178.0	93.0	222.0	2015.5	245.5	82.5	184.0	89.5
Merged-chr4-12460355-3	chr4	12460260	12460460	+	644.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-288345.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	6.0	3.5	5.0	129.5	19.0	5.0	10.5	10.0
Merged-chr18-36792366-3	chr18	36792258	36792458	+	862.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001305627, exon 12 of 12)	3' UTR (NM_001305627, exon 12 of 12)	-1565.0	NM_025594	66492.0	Mm.251155	NM_025594	ENSMUSG00000001383	Zmat2	2610510D14Rik|2900082I05Rik	zinc finger, matrin type 2	protein-coding	16.0	15.0	7.5	203.0	16.0	3.5	4.0	8.0
Merged-chr6-115534797-3	chr6	115534662	115534862	+	919.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9942.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	7.0	7.0	12.5	96.0	10.0	4.5	4.0	6.5
Merged-chr15-73624900-2	chr15	73624800	73625000	+	793.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033219)	promoter-TSS (NM_001033219)	-156.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	8.5	17.0	2.5	23.5	34.0	4.5	7.5	5.5
Merged-chr7-144470790-4	chr7	144470686	144470886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007803, exon 1 of 18)	5' UTR (NM_007803, exon 1 of 18)	149.0	NM_007803	13043.0	Mm.205601	NM_007803	ENSMUSG00000031078	Cttn	1110020L01Rik|Ems1	cortactin	protein-coding	25.5	32.5	24.0	473.5	82.5	25.5	38.0	34.0
Merged-chr10-20003252-4	chr10	20003131	20003331	+	843.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 2 of 29)	intron (NM_008580, intron 2 of 29)	68705.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	6.5	10.0	5.0	115.0	31.0	6.0	13.5	3.5
Merged-chr11-106677898-5	chr11	106677795	106677995	+	808.4400019999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 12 of 14)	intron (NM_001305158, intron 12 of 14)	37386.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	4.5	8.0	11.5	81.5	4.5	2.5	2.5	4.0
Merged-chr5-121453205-2	chr5	121453106	121453306	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026129)	promoter-TSS (NM_026129)	497.0	NM_029912	77462.0	Mm.358781	NM_029912	ENSMUSG00000029452	Tmem116	4930406A18Rik|4930513P12Rik|C030022K24Rik	transmembrane protein 116	protein-coding	5.5	5.0	9.5	37.5	11.5	2.5	3.0	12.5
Merged-chr11-70790033-4	chr11	70789961	70790161	+	937.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001045526)	TTS (NM_001045526)	22500.0	NM_001045526	327957.0	Mm.164325	NM_001045526	ENSMUSG00000057135	Scimp	A430084P05Rik	SLP adaptor and CSK interacting membrane protein	protein-coding	11.0	18.0	8.5	120.5	11.5	14.0	19.5	21.5
Merged-chr9-49051089-3	chr9	49050988	49051188	+	877.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	-4493.0	NM_012039	26951.0	Mm.24791	NM_012039	ENSMUSG00000032264	Zw10	6330566F14Rik|MmZw10	zw10 kinetochore protein	protein-coding	8.5	19.5	17.5	210.0	7.5	1.5	3.5	3.0
Merged-chr7-105744386-4	chr7	105744276	105744476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020024)	promoter-TSS (NM_020024)	-38.0	NM_020024	24075.0	Mm.274846	NM_020024	ENSMUSG00000043866	Taf10	30kDa|AU041226|TAFII30|Taf2h	TATA-box binding protein associated factor 10	protein-coding	105.5	122.5	60.0	1510.5	238.5	95.0	132.0	75.5
Merged-chr10-75105798-3	chr10	75105723	75105923	+	918.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081412, intron 1 of 22)	MER58A|DNA|hAT-Charlie	44927.0	NM_001081412	110279.0	Mm.333722	NM_001081412	ENSMUSG00000009681	Bcr	5133400C09Rik|AI561783|AI853148|mKIAA3017	breakpoint cluster region	protein-coding	6.5	10.0	5.5	348.0	19.0	4.5	14.0	18.0
Merged-chr17-30004813-4	chr17	30004725	30004925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148926)	promoter-TSS (NM_148926)	-214.0	NM_148926	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	82.0	162.0	146.5	1124.5	211.5	110.5	96.0	133.5
Merged-chr18-80373086-4	chr18	80372987	80373187	+	942.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8833.0	NM_001190373	240444.0	Mm.279568	NM_001190373	ENSMUSG00000059852	Kcng2	AA591524	potassium voltage-gated channel, subfamily G, member 2	protein-coding	21.0	11.0	29.5	296.0	26.5	12.0	8.5	8.0
Merged-chr8-3481846-4	chr8	3481719	3481919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029598, intron 4 of 8)	RLTR12A|LTR|ERVK	10957.0	NM_029598	76406.0	Mm.74996	NM_029598	ENSMUSG00000040340	Tex45	1700019B03Rik	testis expressed 45	protein-coding	43.0	64.0	17.5	489.5	89.5	25.5	37.5	25.5
Merged-chr12-102282301-4	chr12	102282219	102282419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177620)	promoter-TSS (NM_177620)	-755.0	NM_177620	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	56.5	133.5	93.5	1390.5	160.0	58.5	67.0	73.0
Merged-chr8-46142877-4	chr8	46142773	46142973	+	912.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18727.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	9.0	7.0	9.0	182.0	36.5	7.5	16.0	4.5
Merged-chr10-86972157-4	chr10	86972054	86972254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138673, intron 6 of 68)	LTR41B|LTR|ERVL	35788.0	NM_138673	192188.0	Mm.279611	NM_138673	ENSMUSG00000035459	Stab2	FEEL-2|FELL|MFEEL-2|STAB-2	stabilin 2	protein-coding	28.5	53.5	22.0	633.5	88.5	22.5	43.5	37.0
Merged-chr5-115059143-4	chr5	115059039	115059239	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029012, intron 1 of 10)	intron (NM_029012, intron 1 of 10)	47615.0	NM_029012	74585.0	Mm.355894	NM_029012	ENSMUSG00000029550	Sppl3	4833416I09Rik|Psl4|Usmg3	signal peptide peptidase 3	protein-coding	46.0	34.0	19.0	636.5	84.0	45.0	35.0	46.5
Merged-chr18-82914994-3	chr18	82914912	82915112	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177464, intron 1 of 5)	intron (NM_001177464, intron 1 of 5)	380.0	NM_001177464	329003.0	Mm.326526	NM_183033	ENSMUSG00000058881	Zfp516	C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222	zinc finger protein 516	protein-coding	17.0	17.0	26.5	216.5	35.0	17.0	24.0	21.5
Merged-chr7-55957999-4	chr7	55957883	55958083	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023647, intron 1 of 6)	intron (NM_023647, intron 1 of 6)	4510.0	NM_001256133	93790.0	Mm.37249	NM_023647	ENSMUSG00000030452	Nipa2	2600017P10Rik|3830408P04Rik|AB041581	non imprinted in Prader-Willi/Angelman syndrome 2 homolog (human)	protein-coding	21.5	25.0	19.0	305.5	67.0	14.5	19.0	15.0
Merged-chr18-82767237-4	chr18	82767129	82767329	+	805.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-8190.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	11.5	16.5	5.5	95.0	20.0	13.0	9.0	13.5
Merged-chr14-31401107-4	chr14	31401004	31401204	+	956.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	intron (NM_001347585, intron 2 of 7)	16573.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	25.0	23.5	12.0	276.0	56.0	13.5	15.0	18.0
Merged-chr9-108346942-2	chr9	108346842	108347042	+	797.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311157)	promoter-TSS (NM_001311157)	-889.0	NM_001311157	22258.0	Mm.3974	NM_011678	ENSMUSG00000032612	Usp4	F730026I20Rik|Unp|mKIAA4155	ubiquitin specific peptidase 4 (proto-oncogene)	protein-coding	2.5	13.0	8.5	17.5	5.0	5.5	6.5	10.0
Merged-chr19-60946806-4	chr19	60946704	60946904	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 1 of 15)	intron (NM_018869, intron 1 of 15)	57055.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	22.0	16.0	39.5	464.5	80.5	33.0	26.0	49.0
Merged-chr6-93127618-4	chr6	93127518	93127718	+	959.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187036.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	90.0	124.5	133.5	1734.0	60.5	10.0	16.5	24.5
Merged-chr14-14552341-4	chr14	14552248	14552448	+	897.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-150677.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	4.0	14.5	30.5	175.5	16.5	5.0	7.5	12.5
Merged-chr12-38781035-4	chr12	38780864	38781064	+	859.0729369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007960, exon 2 of 13)	exon (NM_007960, exon 2 of 13)	882.0	NM_007960	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	3.5	3.5	8.5	38.5	13.0	7.0	10.0	8.0
Merged-chr10-87842685-4	chr10	87842588	87842788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA5|LINE|L1	-15577.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	21.0	47.0	29.0	372.5	78.5	29.0	31.0	42.5
Merged-chr4-150080490-4	chr4	150080402	150080602	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7001.0	NM_177366	269604.0	Mm.219307	NM_177366	ENSMUSG00000047875	Gpr157	F730108M23Rik	G protein-coupled receptor 157	protein-coding	81.0	139.0	109.0	1432.5	216.0	62.0	103.0	83.5
Merged-chr9-18453174-4	chr9	18453106	18453306	+	948.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028935)	TTS (NM_028935)	20353.0	NM_028935	72230.0	Mm.289689	NM_028160	ENSMUSG00000074500	Zfp558	1700007A21Rik|4932704I17Rik|Zfp558-ps	zinc finger protein 558	protein-coding	12.5	18.5	28.5	252.5	37.0	15.0	15.0	10.0
Merged-chr7-66387704-4	chr7	66387576	66387776	+	833.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146191, intron 1 of 33)	CpG	665.0	NM_146191	233328.0	Mm.33284	NM_146191	ENSMUSG00000015133	Lrrk1	AW319595|C230002E15Rik|D130026O16Rik|mKIAA1790	leucine-rich repeat kinase 1	protein-coding	9.5	19.5	6.0	103.5	32.5	7.5	4.5	14.5
Merged-chr6-89045821-3	chr6	89045694	89045894	+	951.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50316.0	NR_134978	232217.0	Mm.281744	NM_175017	ENSMUSG00000055403	4933427D06Rik	-	RIKEN cDNA 4933427D06 gene	ncRNA	11.0	27.0	21.0	709.5	8.5	11.0	7.5	9.5
Merged-chr13-67278531-3	chr13	67278426	67278626	+	900.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033540)	promoter-TSS (NR_033540)	-68.0	NR_033540	100038627.0	Mm.387089	NR_033540	ENSMUSG00000114442	F630042J09Rik	-	RIKEN cDNA F630042J09 gene	ncRNA	9.0	20.5	9.5	287.0	2.5	4.0	1.0	3.5
Merged-chr11-107581439-2	chr11	107581347	107581547	+	598.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_198298, intron 4 of 31)	intron (NM_198298, intron 4 of 31)	33487.0	NM_198298	78455.0	Mm.272047	NM_198298	ENSMUSG00000020721	Helz	3110078M01Rik|9430093I07Rik|9630002H22Rik|AI851979|DRHC	helicase with zinc finger domain	protein-coding	0.5	0.5	0.0	0.0	23.5	5.5	8.5	7.0
Merged-chr12-98265810-4	chr12	98265710	98265910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2825.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	83.5	89.5	107.5	1424.5	165.5	75.0	79.5	70.0
Merged-chr5-104859809-2	chr5	104859708	104859908	+	968.333374	f0_c57.idr|f1_c57bl6.idr	5' UTR (NM_001039231, exon 1 of 5)	5' UTR (NM_001039231, exon 1 of 5)	219.0	NR_155269	626391.0	Mm.385405	NM_001039231	ENSMUSG00000072774	Zfp951	C230055K05Rik|Gm38611	zinc finger protein 951	protein-coding	0.0	0.0	0.0	0.0	48.5	23.5	26.0	17.0
Merged-chr7-133636907-4	chr7	133636808	133637008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178115)	promoter-TSS (NM_178115)	-767.0	NM_178115	214764.0	Mm.174044	NM_145995	ENSMUSG00000039990	Edrf1	2700050L05Rik|AU022667|AW558805	erythroid differentiation regulatory factor 1	protein-coding	23.5	28.5	19.0	339.5	67.5	28.0	49.0	44.0
Merged-chr17-79896107-4	chr17	79895985	79896185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286647)	promoter-TSS (NM_001286647)	38.0	NM_178050	56298.0	Mm.175403	NM_019717	ENSMUSG00000059811	Atl2	2010110I21Rik|AA407293|AV334690|Aip-2|Arl6ip2	atlastin GTPase 2	protein-coding	106.5	193.0	107.5	2080.0	341.0	133.0	165.0	127.5
Merged-chr3-142443539-4	chr3	142443429	142443629	+	846.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47833.0	NM_019808	56376.0	Mm.117709	NM_019808	ENSMUSG00000028273	Pdlim5	1110001A05Rik|AI987914|C87059|Enh|Enh1|Enh2|Enh3|LIM	PDZ and LIM domain 5	protein-coding	11.5	10.5	7.5	233.5	37.0	10.5	13.5	9.0
Merged-chr10-100490962-3	chr10	100490868	100491068	+	677.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146009, intron 4 of 52)	intron (NM_146009, intron 4 of 52)	2679.0	NM_146009	216274.0	Mm.229114	NM_146009	ENSMUSG00000019971	Cep290	BC004690|Nphp6|b2b1454Clo|b2b1752Clo	centrosomal protein 290	protein-coding	1.0	14.0	1.0	98.5	21.0	5.5	19.0	5.0
Merged-chr1-162565175-4	chr1	162565067	162565267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-5348.0	NM_001356527	53330.0	Mm.10699	NM_016796	ENSMUSG00000026696	Vamp4	D1Ertd147e|Vamp-4	vesicle-associated membrane protein 4	protein-coding	216.0	256.0	347.0	4296.5	498.0	177.5	326.0	250.5
Merged-chr12-78225904-3	chr12	78225814	78226014	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145965)	promoter-TSS (NM_145965)	-741.0	NM_172952	268566.0	Mm.341742	NM_145965	ENSMUSG00000047454	Gphn	5730552E08Rik|AI662856|BC027112|C230040D23|GPH|GPHRYN|geph	gephyrin	protein-coding	58.5	98.0	72.5	800.5	150.0	43.5	81.0	44.5
Merged-chr4-141954247-2	chr4	141954147	141954347	+	785.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177868, intron 11 of 31)	intron (NM_177868, intron 11 of 31)	-28745.0	NR_040672	545691.0	Mm.332015	NR_040672	ENSMUSG00000085424	Fhad1os1	Gm13037	forkhead-associated (FHA) phosphopeptide binding domain 1, opposite strand 1	ncRNA	5.5	5.0	12.5	44.0	6.0	1.5	4.0	3.0
Merged-chr14-99044356-2	chr14	99044256	99044456	+	783.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_175245, intron 1 of 2)	intron (NM_175245, intron 1 of 2)	1780.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	3.5	7.5	1.5	77.5	6.0	7.0	8.5	12.0
Merged-chr8-46789612-4	chr8	46789495	46789695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 1 of 7)	intron (NR_152560, intron 1 of 7)	49850.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	84.0	93.5	51.5	1224.5	136.0	53.5	52.0	60.5
Merged-chr10-43833065-4	chr10	43832987	43833187	+	897.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131055, exon 3 of 3)	non-coding (NR_131055, exon 3 of 3)	7180.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	7.5	15.5	18.5	196.5	35.0	5.5	15.5	14.5
Merged-chr10-29445284-4	chr10	29445186	29445386	+	882.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82844.0	NM_001110197	68031.0	Mm.28930	NM_026518	ENSMUSG00000038876	Rnf146	2610509H23Rik|Iduna	ring finger protein 146	protein-coding	8.5	8.5	12.5	201.5	30.5	3.5	8.0	11.0
Merged-chr9-107264050-4	chr9	107263941	107264141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316691, intron 1 of 7)	intron (NM_001316691, intron 1 of 7)	25355.0	NM_001316691	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	48.5	69.5	39.0	508.5	114.0	46.5	52.0	29.0
Merged-chr10-60379760-4	chr10	60379694	60379894	+	869.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 33 of 68)	intron (NM_001252635, intron 33 of 68)	-19932.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	15.0	20.0	19.0	82.5	12.5	9.0	10.5	10.5
Merged-chr19-5690585-2	chr19	5690485	5690685	+	863.75	f1_balb.idr|f1_c57bl6.idr	exon (NM_022012, exon 3 of 12)	exon (NM_022012, exon 3 of 12)	1454.0	NM_022012	26403.0	Mm.185026	NM_022012	ENSMUSG00000004054	Map3k11	2610017K16Rik|Mlk3|PTK1|SPRK	mitogen-activated protein kinase kinase kinase 11	protein-coding	3.0	3.0	0.0	50.5	11.0	6.5	4.5	4.5
Merged-chr6-117905482-4	chr6	117905385	117905585	+	858.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166432, intron 1 of 3)	intron (NM_001166432, intron 1 of 3)	-1297.0	NM_001166430	98758.0	Mm.422979	NM_133834	ENSMUSG00000042079	Hnrnpf	4833420I20Rik|AA407306|Hnrpf	heterogeneous nuclear ribonucleoprotein F	protein-coding	10.5	9.0	11.5	124.5	32.0	11.5	5.0	10.5
Merged-chr11-40763606-4	chr11	40763504	40763704	+	794.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-8318.0	NM_009831	12450.0	Mm.2103	NM_009831	ENSMUSG00000020326	Ccng1	AI314029	cyclin G1	protein-coding	14.0	17.5	16.5	132.5	28.0	5.5	14.0	7.5
Merged-chr9-111057498-4	chr9	111057412	111057612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302376)	promoter-TSS (NM_001302376)	6.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	213.5	375.0	240.0	2234.0	479.0	193.0	212.0	162.0
Merged-chr6-38254177-6	chr6	38254037	38254237	+	786.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194061)	promoter-TSS (NM_194061)	-128.0	NM_194061	330286.0	Mm.277163	NM_194061	ENSMUSG00000063455	D630045J12Rik	Kiaa1549|mKIAA1549	RIKEN cDNA D630045J12 gene	protein-coding	6.0	12.0	6.5	177.5	14.0	6.5	12.5	2.0
Merged-chr19-46459477-3	chr19	46459355	46459555	+	748.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 8 of 11)	intron (NM_001025391, intron 8 of 11)	-42193.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	10.5	6.5	4.5	108.0	9.5	1.5	2.0	2.0
Merged-chr4-148160617-1	chr4	148160517	148160717	+	1000.0	f0_c57.idr	promoter-TSS (NM_176848)	promoter-TSS (NM_176848)	-51.0	NM_176848	230904.0	Mm.262287	NM_176848	ENSMUSG00000041556	Fbxo2	FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4	F-box protein 2	protein-coding	12.5	10.5	11.0	128.5	35.0	12.5	27.0	23.5
Merged-chr4-122922950-4	chr4	122922835	122923035	+	756.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36859.0	NM_001358036	12331.0	Mm.8687	NM_007598	ENSMUSG00000028656	Cap1	-	CAP, adenylate cyclase-associated protein 1 (yeast)	protein-coding	9.5	8.0	16.0	145.5	9.5	7.0	8.0	17.0
Merged-chr7-104353440-4	chr7	104353343	104353543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175677)	promoter-TSS (NM_175677)	-85.0	NM_001146007	319236.0	Mm.425502	NM_175677	ENSMUSG00000057143	Trim12c	9230105E10Rik|Trim12-2	tripartite motif-containing 12C	protein-coding	123.0	166.5	109.5	1464.0	337.5	91.5	185.0	88.5
Merged-chr11-86993329-2	chr11	86993229	86993429	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001005341, intron 1 of 4)	CpG	433.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	11.5	17.5	7.0	168.0	21.0	4.0	10.5	13.0
Merged-chr14-73143336-6	chr14	73143223	73143423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033185, intron 1 of 15)	CpG	538.0	NR_033185	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	137.5	263.5	154.0	1842.0	493.0	219.5	245.0	151.0
Merged-chr1-131700584-4	chr1	131700484	131700684	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311096, intron 4 of 4)	intron (NM_001311096, intron 4 of 4)	11889.0	NM_145509	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	19.0	23.0	13.5	248.0	179.5	41.0	74.5	57.5
Merged-chr2-5702510-4	chr2	5702424	5702624	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	GA-rich|Low_complexity|Low_complexity	12238.0	NM_001290374	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	19.5	32.0	28.0	678.0	70.0	15.0	23.5	21.0
Merged-chr1-161963190-3	chr1	161963088	161963288	+	726.388855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204904, intron 3 of 6)	intron (NM_001204904, intron 3 of 6)	5960.0	NM_001204905	75368.0	Mm.108728	NM_001204904	ENSMUSG00000086277	4930558K02Rik	-	RIKEN cDNA 4930558K02 gene	protein-coding	8.0	4.5	8.0	51.5	26.0	8.0	13.5	4.0
Merged-chr7-38107983-1	chr7	38107883	38108083	+	1000.0	f0_c57.idr	promoter-TSS (NM_007633)	promoter-TSS (NM_007633)	-493.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	74.0	131.0	121.5	1351.5	194.0	89.5	106.5	99.5
Merged-chr12-44355275-3	chr12	44355165	44355365	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146031, intron 1 of 27)	intron (NM_001146031, intron 1 of 27)	26380.0	NM_001146031	319504.0	Mm.208439	NM_176930	ENSMUSG00000020598	Nrcam	Bravo|C030017F07Rik|C130076O07Rik|mKIAA0343	neuronal cell adhesion molecule	protein-coding	83.5	42.0	114.5	1570.5	6.5	0.0	0.0	0.0
Merged-chr18-65534254-3	chr18	65534084	65534284	+	924.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 1 of 6)	intron (NR_105742, intron 1 of 6)	-46046.0	NM_207255	328977.0	Mm.286232	NM_207255	ENSMUSG00000042439	Zfp532	C530030I18Rik|Znf532|mKIAA1629	zinc finger protein 532	protein-coding	2.0	2.0	1.0	72.0	8.0	5.5	14.0	5.5
Merged-chr10-93069455-3	chr10	93069364	93069564	+	886.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347060, intron 2 of 67)	intron (NM_001347060, intron 2 of 67)	12132.0	NM_001347060	380654.0	Mm.34980	NM_001347060	ENSMUSG00000020014	Cfap54	4930485B16Rik|Gm872	cilia and flagella associated protein 54	protein-coding	0.5	4.0	1.5	36.5	36.0	9.5	17.0	12.5
Merged-chr12-116405303-4	chr12	116405223	116405423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028421)	promoter-TSS (NR_028421)	-79.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	264.0	358.5	229.5	3228.0	831.5	313.5	380.0	274.5
Merged-chr15-79932746-4	chr15	79932662	79932862	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144811)	promoter-TSS (NM_144811)	-116.0	NM_144811	52609.0	Mm.323442	NM_144811	ENSMUSG00000053411	Cbx7	1600014J01Rik|AI851678|D15Ertd417e	chromobox 7	protein-coding	57.0	78.5	24.0	506.0	105.0	38.0	33.0	47.0
Merged-chr10-21605160-4	chr10	21605064	21605264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027968, intron 2 of 2)	intron (NR_027968, intron 2 of 2)	12019.0	NR_027968	67692.0	Mm.54306	NM_183266	ENSMUSG00000050844	1700020N01Rik	-	RIKEN cDNA 1700020N01 gene	ncRNA	112.5	131.5	131.5	1541.5	242.5	80.0	109.0	119.0
Merged-chr2-166713051-4	chr2	166712929	166713129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	803.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	54.0	76.5	62.0	723.5	132.5	31.5	63.5	79.0
Merged-chr17-81015990-4	chr17	81015945	81016145	+	842.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49040.0	NM_028138	72167.0	Mm.273257	NM_028138	ENSMUSG00000024246	Thumpd2	2810025A12Rik	THUMP domain containing 2	protein-coding	6.0	8.5	7.5	121.5	27.0	9.5	12.0	10.0
Merged-chr19-46979124-4	chr19	46979010	46979210	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164363, intron 1 of 17)	RSINE1|SINE|B4	-9543.0	NM_001164365	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	17.5	46.5	28.5	424.5	38.5	9.0	17.5	19.5
Merged-chr19-6481602-4	chr19	6481518	6481718	+	894.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205234, intron 10 of 22)	intron (NM_001205234, intron 10 of 22)	61452.0	NM_009203	20521.0	Mm.391146	NM_009203	ENSMUSG00000061742	Slc22a12	AI987855|OAT4L|Rst|Slc22al2|URAT1	solute carrier family 22 (organic anion/cation transporter), member 12	protein-coding	13.5	2.5	15.5	207.0	29.0	4.5	14.0	9.5
Merged-chr15-58978783-3	chr15	58978712	58978912	+	937.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	45002.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	11.5	21.5	7.0	165.0	3.5	1.5	5.0	7.0
Merged-chr8-71882010-4	chr8	71881887	71882087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145624)	promoter-TSS (NM_145624)	-81.0	NM_145624	236193.0	Mm.290790	NM_145624	ENSMUSG00000056019	Zfp709	BC021921|GIOT-4|HIT-40	zinc finger protein 709	protein-coding	71.0	84.5	70.0	856.5	247.0	102.0	115.5	85.0
Merged-chr11-46127993-4	chr11	46127877	46128077	+	956.116699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311209)	promoter-TSS (NM_001311209)	73.0	NM_001311209	11492.0	Mm.89940	NM_009616	ENSMUSG00000011256	Adam19	AL024287|MADDAM|MTLNB|Mltnb	a disintegrin and metallopeptidase domain 19 (meltrin beta)	protein-coding	7.0	11.0	6.0	195.0	53.0	15.5	35.0	40.5
Merged-chr4-56947469-4	chr4	56947350	56947550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175518)	promoter-TSS (NM_175518)	-21.0	NM_175518	242474.0	Mm.296632	NM_175518	ENSMUSG00000055296	Tmem245	A630051L19Rik|AI957324|D730040F13Rik	transmembrane protein 245	protein-coding	97.0	139.0	104.0	1821.0	214.5	87.0	135.5	107.0
Merged-chr16-10489269-4	chr16	10489182	10489382	+	975.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243761)	promoter-TSS (NM_001243761)	-499.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	12.0	20.0	19.5	353.5	60.0	29.0	12.0	18.0
Merged-chr9-58271358-4	chr9	58271253	58271453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18189.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	112.0	125.5	74.0	1119.0	295.5	103.0	76.5	96.5
Merged-chr17-43557315-4	chr17	43557214	43557414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11137.0	NM_013737	27226.0	Mm.9277	NM_013737	ENSMUSG00000023913	Pla2g7	PAF-AH|R75400	phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma)	protein-coding	101.5	210.5	136.5	1304.5	202.0	127.5	117.5	63.5
Merged-chr11-6560642-2	chr11	6560542	6560742	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001190344, intron 1 of 9)	intron (NM_001190344, intron 1 of 9)	459.0	NM_001190344	216527.0	Mm.221271	NM_146014	ENSMUSG00000000378	Ccm2	BC029157	cerebral cavernous malformation 2	protein-coding	7.0	5.0	9.0	94.0	13.5	1.5	1.5	5.5
Merged-chr2-129342258-3	chr2	129342168	129342368	+	774.5	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27634.0	NR_015474	329514.0	Mm.207315	NM_177848	ENSMUSG00000074805	Il1bos	9430083I22|Gm14047	interleukin 1 beta, opposite strand	ncRNA	10.5	10.5	5.0	124.5	61.0	22.0	20.0	29.0
Merged-chr3-157578719-2	chr3	157578619	157578819	+	673.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359745, intron 1 of 3)	MTEb|LTR|ERVL-MaLR	11827.0	NM_011196	19218.0	Mm.30424	NM_011196	ENSMUSG00000040016	Ptger3	EP3|Pgerep3|Ptgerep3	prostaglandin E receptor 3 (subtype EP3)	protein-coding	6.0	5.0	6.5	62.5	18.5	10.5	10.0	8.0
Merged-chr10-94356949-4	chr10	94356873	94357073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	45024.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	92.5	170.5	122.0	1461.5	250.0	105.5	85.5	83.5
Merged-chr16-33923095-4	chr16	33922979	33923179	+	890.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 10 of 14)	intron (NM_001145884, intron 10 of 14)	43959.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	14.0	6.5	9.0	173.0	21.5	7.5	16.5	18.0
Merged-chr10-105508615-3	chr10	105508563	105508763	+	841.744446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177368, intron 1 of 11)	intron (NM_177368, intron 1 of 11)	65816.0	NM_177368	278279.0	Mm.25225	NM_177368	ENSMUSG00000036019	Tmtc2	8430438D04Rik|D330034A10Rik	transmembrane and tetratricopeptide repeat containing 2	protein-coding	5.5	9.5	18.0	185.0	8.0	4.0	7.0	4.0
Merged-chr14-75188673-2	chr14	75188573	75188773	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	52248.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	3.0	10.0	7.5	7.0	17.0	7.0	7.0	6.5
Merged-chr3-60516434-4	chr3	60516338	60516538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	15259.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	18.0	33.5	6.5	323.5	52.0	19.0	19.0	22.5
Merged-chr3-126625308-4	chr3	126625229	126625429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	28378.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	55.5	65.0	52.5	1060.0	206.5	55.5	83.0	86.5
Merged-chr10-88574177-5	chr10	88574077	88574277	+	987.4466550000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252372, intron 2 of 28)	intron (NM_001252372, intron 2 of 28)	30975.0	NM_001252372	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	9.5	17.5	18.0	183.0	32.0	10.0	6.0	14.5
Merged-chr18-12939342-4	chr18	12939246	12939446	+	858.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 1 of 27)	intron (NM_207530, intron 1 of 27)	2495.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	6.5	11.5	8.0	316.5	22.0	5.5	9.5	18.0
Merged-chr8-25018022-4	chr8	25017905	25018105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027194, intron 1 of 3)	intron (NM_027194, intron 1 of 3)	794.0	NM_027194	69742.0	Mm.28626	NM_027194	ENSMUSG00000031556	Tm2d2	2410018G23Rik|Blp1	TM2 domain containing 2	protein-coding	40.0	81.0	42.5	688.0	118.0	39.5	51.0	38.0
Merged-chr17-33564815-4	chr17	33564720	33564920	+	984.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053214, intron 1 of 27)	intron (NM_053214, intron 1 of 27)	9113.0	NM_053214	17916.0	Mm.42019	NM_053214	ENSMUSG00000024300	Myo1f	C330006B10Rik	myosin IF	protein-coding	30.0	22.5	21.5	415.5	46.0	12.5	19.0	20.0
Merged-chr6-125009691-4	chr6	125009629	125009829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347452)	promoter-TSS (NM_001347452)	60.0	NM_175557	269800.0	Mm.108677	NM_175557	ENSMUSG00000038346	Zfp384	BB163993|C130073D16Rik|Ciz|NP|Nmp4	zinc finger protein 384	protein-coding	51.0	103.5	58.0	704.5	157.0	45.0	65.5	62.0
Merged-chr2-120159081-4	chr2	120158988	120159188	+	965.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4513.0	NM_133838	98878.0	Mm.132226	NM_133838	ENSMUSG00000027293	Ehd4	2210022F10Rik|AI197390|AI846352|AV006278|Past2	EH-domain containing 4	protein-coding	18.5	23.0	11.5	207.5	35.5	16.5	20.0	20.0
Merged-chr10-14085997-4	chr10	14085870	14086070	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010437, intron 2 of 8)	intron (NM_010437, intron 2 of 8)	119591.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	7.0	25.5	13.0	213.5	35.5	14.0	10.5	18.0
Merged-chr3-40531630-4	chr3	40531564	40531764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-8752.0	NR_040445	100040882.0	Mm.272869	NR_040445	ENSMUSG00000037884	1700017G19Rik	-	RIKEN cDNA 1700017G19 gene	ncRNA	48.5	71.0	30.0	581.0	120.0	35.0	60.5	43.0
Merged-chr12-41349601-4	chr12	41349518	41349718	+	948.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053122, intron 4 of 6)	L1MA9|LINE|L1	136439.0	NM_001271708	16981.0	Mm.404786	NM_010733	ENSMUSG00000036295	Lrrn3	NLRR-3	leucine rich repeat protein 3, neuronal	protein-coding	13.5	33.5	18.5	215.0	38.5	10.5	18.0	7.5
Merged-chr1-121508535-4	chr1	121508429	121508629	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19936.0	NM_010483	15564.0	Mm.4833	NM_010483	ENSMUSG00000050534	Htr5b	5-Ht5b	5-hydroxytryptamine (serotonin) receptor 5B	protein-coding	6.0	14.0	6.5	117.0	91.0	24.5	48.0	44.5
Merged-chr13-3610612-2	chr13	3610512	3610712	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360838, intron 1 of 19)	CpG	496.0	NM_134063	105203.0	Mm.221609	NM_134063	ENSMUSG00000033799	Fam208b	AI645998|Pap20|mKIAA2006	family with sequence similarity 208, member B	protein-coding	8.5	20.5	8.0	171.5	48.5	18.0	14.5	17.0
Merged-chr4-120061932-4	chr4	120061817	120062017	+	911.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-99289.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	14.0	30.0	8.0	330.0	31.5	17.5	17.0	12.0
Merged-chr17-17394500-4	chr17	17394409	17394609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025934, exon 10 of 10)	3' UTR (NM_025934, exon 10 of 10)	-8177.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	57.0	86.0	65.5	1196.5	171.5	44.0	77.5	51.0
Merged-chr14-22808417-3	chr14	22808294	22808494	+	858.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-265596.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	6.0	7.5	11.0	191.0	19.5	2.5	12.5	6.5
Merged-chr3-37693645-3	chr3	37693519	37693719	+	766.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30741.0	NM_198657	381438.0	Mm.490549	NM_198657	ENSMUSG00000058174	Gm5148	EG381438	predicted gene 5148	protein-coding	12.0	8.5	8.0	141.5	8.0	2.5	12.5	8.0
Merged-chr11-79652469-4	chr11	79652365	79652565	+	989.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 3 of 14)	intron (NM_175543, intron 3 of 14)	22621.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	21.0	32.0	15.0	257.5	66.0	19.5	39.5	34.5
Merged-chr6-108326650-3	chr6	108326568	108326768	+	892.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 4 of 61)	intron (NM_010585, intron 4 of 61)	113572.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	4.5	4.5	8.5	147.5	12.5	4.5	3.5	10.5
Merged-chr6-58772239-3	chr6	58772154	58772354	+	739.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59211.0	NM_001361967	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	5.0	11.0	9.0	101.0	22.5	5.5	7.5	4.0
Merged-chr7-97800331-3	chr7	97800239	97800439	+	781.916687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357364, intron 1 of 14)	RMER15|LTR|ERVL	11798.0	NM_001357364	18479.0	Mm.260227	NM_011035	ENSMUSG00000030774	Pak1	AW045634|PAK-1|Paka	p21 (RAC1) activated kinase 1	protein-coding	3.0	7.0	5.5	28.0	17.5	5.5	15.5	14.5
Merged-chr15-30605899-3	chr15	30605812	30606012	+	761.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-433214.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	4.0	5.0	14.5	122.5	17.5	9.0	7.0	10.5
Merged-chr8-124020545-1	chr8	124020445	124020645	+	758.0	f1_balb.idr	intron (NM_133966, intron 1 of 4)	B1F|SINE|Alu	511.0	NM_001357315	102162.0	Mm.291777	NM_133966	ENSMUSG00000038697	Taf5l	1110005N04Rik|AI849020	TATA-box binding protein associated factor 5 like	protein-coding	6.0	6.5	1.5	58.5	10.0	5.0	7.5	7.5
Merged-chr10-17527545-3	chr10	17527452	17527652	+	967.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-195676.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	22.0	20.5	12.5	148.5	11.0	13.0	9.0	5.0
Merged-chr17-35972294-4	chr17	35972199	35972399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145487)	TTS (NM_145487)	-2549.0	NM_013854	224742.0	Mm.329022	NM_013854	ENSMUSG00000038762	Abcf1	AU041969|Abc50|D17Wsu166e|GCN20	ATP-binding cassette, sub-family F (GCN20), member 1	protein-coding	17.5	54.5	7.5	206.5	74.5	24.0	19.5	19.0
Merged-chr14-54606035-4	chr14	54605937	54606137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028890)	promoter-TSS (NM_028890)	-129.0	NM_028890	74359.0	Mm.79815	NM_028890	ENSMUSG00000022179	4931414P19Rik	Rtfc	RIKEN cDNA 4931414P19 gene	protein-coding	36.0	50.0	34.0	417.0	69.0	39.5	41.5	26.0
Merged-chr2-164917052-4	chr2	164916948	164917148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-5298.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	52.0	61.0	47.5	519.5	118.0	36.5	52.0	61.5
Merged-chr12-26449656-4	chr12	26449564	26449764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021384, intron 3 of 5)	intron (NM_021384, intron 3 of 5)	6788.0	NM_021384	58185.0	Mm.24045	NM_021384	ENSMUSG00000020641	Rsad2	2510004L01Rik|Vig1|cig5	radical S-adenosyl methionine domain containing 2	protein-coding	29.0	51.0	20.5	466.5	56.5	20.0	32.0	41.0
Merged-chr6-71963825-4	chr6	71963725	71963925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009088, exon 22 of 34)	exon (NM_009088, exon 22 of 34)	54772.0	NM_009088	20019.0	Mm.135581	NM_009088	ENSMUSG00000049553	Polr1a	194kDa|2900087K15Rik|3010014K16Rik|RPA194|Rpo1-4|mRPA1	polymerase (RNA) I polypeptide A	protein-coding	75.5	150.0	69.5	656.0	217.0	86.0	101.0	70.5
Merged-chr5-5301202-4	chr5	5301111	5301311	+	871.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	intron (NM_011074, intron 2 of 14)	-35143.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	11.0	13.5	18.0	262.5	24.5	8.0	11.5	11.0
Merged-chr7-128524223-4	chr7	128524081	128524281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013863, intron 1 of 3)	CpG	598.0	NM_013863	29810.0	Mm.84073	NM_013863	ENSMUSG00000030847	Bag3	AA407278|Bis|mg638	BCL2-associated athanogene 3	protein-coding	39.5	127.0	52.0	719.0	133.5	51.0	67.5	67.5
Merged-chr14-45085358-4	chr14	45085263	45085463	+	842.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	97252.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	8.5	17.5	16.5	204.0	17.0	10.0	11.5	7.0
Merged-chr16-56659028-4	chr16	56658921	56659121	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014399, intron 16 of 27)	intron (NM_001014399, intron 16 of 27)	58429.0	NM_001357124	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	50.0	36.0	45.5	633.5	64.5	20.0	37.5	17.5
Merged-chr10-98805246-4	chr10	98805146	98805346	+	967.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109396.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	13.0	24.5	13.5	486.0	27.5	5.5	21.0	25.5
Merged-chr15-66092317-4	chr15	66092216	66092416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152923, intron 1 of 14)	intron (NM_152923, intron 1 of 14)	-115512.0	NM_001145096	654498.0	Mm.364550	NM_001145096	ENSMUSG00000072511	Hhla1	F930104E18Rik	HERV-H LTR-associating 1	protein-coding	95.0	79.5	87.0	1599.0	214.5	50.0	69.0	58.5
Merged-chr5-135191841-4	chr5	135191751	135191951	+	864.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011714, intron 1 of 18)	B3|SINE|B2	4528.0	NM_011714	22385.0	Mm.40331	NM_011714	ENSMUSG00000002748	Baz1b	C87820|WSTF|Wbscr9	bromodomain adjacent to zinc finger domain, 1B	protein-coding	8.0	13.5	4.5	123.5	35.5	5.0	10.0	21.5
Merged-chr4-134929812-4	chr4	134929703	134929903	+	920.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1177.0	NM_026780	68592.0	Mm.29989	NM_026780	ENSMUSG00000028821	Syf2	1110018L13Rik|Cbpin|D4Bwg1551e|Gcipip|Ntc31|mp29|p29	SYF2 homolog, RNA splicing factor (S. cerevisiae)	protein-coding	9.5	23.0	14.5	121.5	26.0	10.5	13.0	15.0
Merged-chr17-27622779-5	chr17	27622686	27622886	+	821.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291046, exon 1 of 5)	5' UTR (NM_001291046, exon 1 of 5)	178.0	NM_001291046	56409.0	Mm.144699	NM_019837	ENSMUSG00000024213	Nudt3	1110011B09Rik|AA960325|Dipp|Dipp1	nudix (nucleotide diphosphate linked moiety X)-type motif 3	protein-coding	8.5	8.5	7.5	71.5	25.5	9.0	11.5	13.5
Merged-chr18-82785370-4	chr18	82785273	82785473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER4B|LTR|ERVK	-26334.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	49.5	54.5	35.0	637.0	140.5	37.5	62.5	63.0
Merged-chr4-108460779-4	chr4	108460661	108460861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175472, intron 2 of 30)	CpG	1335.0	NM_175472	230594.0	Mm.25181	NM_175472	ENSMUSG00000034610	Zcchc11	6030404K05Rik|9230115F04Rik|PPAPD3|mKIAA0191	zinc finger, CCHC domain containing 11	protein-coding	57.5	61.5	49.0	620.5	144.5	36.0	90.0	42.0
Merged-chr2-117312631-4	chr2	117312521	117312721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 2 of 16)	intron (NM_011246, intron 2 of 16)	30256.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	44.5	49.5	20.0	233.5	84.5	24.5	37.0	32.5
Merged-chr17-7897949-4	chr17	7897856	7898056	+	982.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28044.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	22.0	26.5	17.5	326.0	59.0	20.0	15.5	24.0
Merged-chr7-75641959-4	chr7	75641854	75642054	+	888.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	186420.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	25.0	25.5	19.5	456.0	28.0	9.0	10.0	10.0
Merged-chr6-40818664-3	chr6	40818571	40818771	+	906.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68823.0	NM_139296	194357.0	Mm.207087	NM_139296	ENSMUSG00000029885	Moxd2	Dbhl1	monooxygenase, DBH-like 2	protein-coding	6.5	4.0	4.5	238.5	37.5	10.5	12.5	17.0
Merged-chr4-102572264-4	chr4	102572165	102572365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 6 of 14)	intron (NM_019840, intron 6 of 14)	2205.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	126.0	221.0	169.0	1420.5	436.0	144.5	156.0	114.0
Merged-chr14-51095728-6	chr14	51095547	51095747	+	890.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007447)	promoter-TSS (NM_007447)	-353.0	NM_007447	11727.0	Mm.202665	NM_007447	ENSMUSG00000072115	Ang	AI385586|Ang1|Rnase5|Rnase5a	angiogenin, ribonuclease, RNase A family, 5	protein-coding	8.5	10.5	4.5	114.5	18.0	2.5	6.0	4.0
Merged-chr9-7221160-2	chr9	7221060	7221260	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36655.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	6.0	14.5	8.0	185.0	27.5	7.5	19.0	8.0
Merged-chr11-101589537-3	chr11	101589409	101589609	+	864.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359325, intron 6 of 7)	intron (NM_001359325, intron 6 of 7)	7210.0	NM_001359325	217203.0	Mm.280559	NM_144830	ENSMUSG00000034947	Tmem106a	0610008L10Rik|AI043106|BC022145	transmembrane protein 106A	protein-coding	13.0	8.0	5.0	90.0	20.0	6.0	3.5	6.0
Merged-chr5-12160966-4	chr5	12160844	12161044	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-222222.0	NM_028882	108151.0	Mm.89313	NM_028882	ENSMUSG00000040254	Sema3d	4631426B19Rik	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	protein-coding	4.5	9.0	2.0	72.5	19.5	7.5	9.0	6.5
Merged-chr3-65315930-4	chr3	65315810	65316010	+	916.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357358, intron 7 of 13)	(TTTTG)n|Simple_repeat|Simple_repeat	-13225.0	NR_126080	102637797.0	Mm.446731	NR_126080	ENSMUSG00000104093	A330015K06Rik	-	RIKEN cDNA A330015K06 gene	ncRNA	39.5	61.5	46.0	469.0	24.5	11.0	13.0	13.0
Merged-chr1-120073998-6	chr1	120073916	120074116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019432)	promoter-TSS (NM_019432)	-236.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	29.0	60.0	74.5	593.5	127.5	48.5	46.5	66.5
Merged-chr6-122669611-4	chr6	122669523	122669723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37866.0	NM_001289831	71950.0	Mm.6047	NM_028016	ENSMUSG00000012396	Nanog	2410002E02Rik|ENK|ecat4	Nanog homeobox	protein-coding	27.0	44.0	15.0	304.5	54.5	23.0	25.0	33.0
Merged-chr7-100216184-4	chr7	100216090	100216290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11417.0	NM_027629	70974.0	Mm.440524	NM_027629	ENSMUSG00000030729	Pgm2l1	4931406N15Rik|AI553438|BM32A	phosphoglucomutase 2-like 1	protein-coding	58.0	130.5	62.5	823.0	136.0	57.5	33.0	36.5
Merged-chr3-152478146-6	chr3	152478052	152478252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081277, intron 12 of 13)	intron (NM_001081277, intron 12 of 13)	81468.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	28.0	24.0	37.5	579.5	65.5	31.5	31.5	35.0
Merged-chr14-67715864-4	chr14	67715742	67715942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110162)	promoter-TSS (NM_001110162)	-1.0	NM_175384	108912.0	Mm.33831	NM_175384	ENSMUSG00000048922	Cdca2	2610311M19Rik|AI586158	cell division cycle associated 2	protein-coding	490.5	712.5	569.5	8143.5	1240.5	586.5	658.0	492.5
Merged-chr18-30513808-4	chr18	30513697	30513897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	240932.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	55.0	49.0	26.0	449.0	86.0	33.5	62.5	37.5
Merged-chr13-23519654-3	chr13	23519554	23519754	+	981.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Gln-CAA|tRNA|tRNA	-11390.0	NM_153173	69386.0	Mm.158272	NM_153173	ENSMUSG00000060981	Hist1h4h	1700024H08Rik	histone cluster 1, H4h	protein-coding	14.5	23.5	10.5	210.0	15.0	5.5	14.0	10.5
Merged-chr13-73433773-4	chr13	73433676	73433876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33607.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	78.0	63.0	47.0	1045.0	190.0	68.5	73.5	75.5
Merged-chr7-92630362-2	chr7	92630270	92630470	+	682.25	f0_balb.idr|f1_balb.idr	intron (NM_028665, intron 2 of 11)	intron (NM_028665, intron 2 of 11)	6772.0	NM_028665	73845.0	Mm.73248	NM_028665	ENSMUSG00000041343	Ankrd42	4931426M20|4933417L02Rik|Ikbn	ankyrin repeat domain 42	protein-coding	8.0	19.5	9.0	190.5	13.0	6.5	3.0	5.5
Merged-chr14-47541883-4	chr14	47541783	47541983	+	930.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172599, exon 10 of 10)	3' UTR (NM_172599, exon 10 of 10)	26551.0	NM_172599	100504663.0	Mm.287279	NM_172599	ENSMUSG00000037526	Atg14	4832427M01|Atg14L|D14Ertd114e|D14Ertd436e	autophagy related 14	protein-coding	14.0	4.0	10.0	190.0	37.0	4.5	13.5	13.0
Merged-chr19-38836550-4	chr19	38836467	38836667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362424)	promoter-TSS (NM_001362424)	-12.0	NM_145952	209478.0	Mm.391153	NM_145952	ENSMUSG00000048720	Tbc1d12	BC033574	TBC1D12: TBC1 domain family, member 12	protein-coding	114.0	136.5	131.0	1965.5	224.0	70.5	118.0	84.5
Merged-chr18-39489949-4	chr18	39489851	39490051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2706.0	NM_008173	14815.0	Mm.129481	NM_008173	ENSMUSG00000024431	Nr3c1	GR|Grl-1|Grl1	nuclear receptor subfamily 3, group C, member 1	protein-coding	128.5	211.0	101.0	1406.5	355.0	108.0	158.5	84.5
Merged-chr1-9593943-4	chr1	9593835	9594035	+	861.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015470, intron 3 of 4)	intron (NR_015470, intron 3 of 4)	-7332.0	NM_178399	76982.0	Mm.491098	NM_178399	ENSMUSG00000067879	3110035E14Rik	AI415019|AV164974|R75066	RIKEN cDNA 3110035E14 gene	protein-coding	11.0	16.5	23.0	379.5	35.5	10.5	9.5	12.0
Merged-chr11-32358598-4	chr11	32358502	32358702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177364, intron 1 of 12)	MIR|SINE|MIR	10791.0	NM_177364	268396.0	Mm.227616	NM_177364	ENSMUSG00000040711	Sh3pxd2b	G431001E03Rik|TSK4|fad49	SH3 and PX domains 2B	protein-coding	34.0	30.5	20.0	368.0	107.0	40.0	58.0	42.0
Merged-chr4-43973681-4	chr4	43973583	43973783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027450, intron 4 of 4)	intron (NM_027450, intron 4 of 4)	-9821.0	NM_001002787	442829.0	Mm.348215	NM_001002787	ENSMUSG00000070999	Ccin	4933417A14Rik	calicin	protein-coding	221.5	315.5	184.0	3027.0	515.0	186.0	218.5	152.5
Merged-chr7-27685924-4	chr7	27685823	27686023	+	713.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198417, intron 1 of 5)	intron (NM_198417, intron 1 of 5)	-3417.0	NM_001112731	112415.0	Mm.145362	NM_198417	ENSMUSG00000057093	Zfp607b	C030039L03Rik	zinc finger protein 607B	protein-coding	9.0	16.0	9.0	169.0	17.0	4.5	6.0	12.0
Merged-chr10-6418358-3	chr10	6418246	6418446	+	702.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-340247.0	NM_001302794	18390.0	Mm.438000	NM_011013	ENSMUSG00000000766	Oprm1	M-OR-1|MOP-R|MOR-1|MOR-1O|Oprm|mor|muOR	opioid receptor, mu 1	protein-coding	11.0	10.0	14.5	39.5	0.0	0.0	0.0	0.0
Merged-chr10-28425575-3	chr10	28425484	28425684	+	799.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 7 of 30)	MTEa|LTR|ERVL-MaLR	-242776.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	6.0	10.0	10.5	364.5	5.0	1.0	6.0	11.0
Merged-chr12-75720218-3	chr12	75720114	75720314	+	940.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030750, intron 2 of 2)	B1_Mur1|SINE|Alu	15515.0	NM_030750	81535.0	Mm.280199	NM_030750	ENSMUSG00000021054	Sgpp1	AI463453|SPP|SPP1|Spph1	sphingosine-1-phosphate phosphatase 1	protein-coding	12.0	13.0	8.5	236.0	22.5	2.0	4.5	6.0
Merged-chr9-23597483-4	chr9	23597375	23597575	+	826.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	374399.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	8.5	5.5	5.5	122.0	43.0	11.0	12.5	12.0
Merged-chr13-43173441-4	chr13	43173338	43173538	+	858.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1937.0	NM_001252640	67046.0	Mm.269213	NM_025935	ENSMUSG00000021368	Tbc1d7	2610009C09Rik	TBC1 domain family, member 7	protein-coding	5.5	14.5	6.0	117.0	38.0	11.0	5.5	10.5
Merged-chr19-45081497-3	chr19	45081387	45081587	+	859.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5400.0	NM_001362397	107250.0	Mm.24417	NM_178929	ENSMUSG00000025213	Kazald1	AI842353|Bono1|IGFBP-rP10	Kazal-type serine peptidase inhibitor domain 1	protein-coding	8.5	14.0	1.5	71.0	20.0	9.0	8.0	15.0
Merged-chr2-167949393-4	chr2	167949292	167949492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	17065.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	58.0	73.0	117.0	1480.0	101.0	27.0	41.5	56.0
Merged-chr2-126515219-4	chr2	126515113	126515313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	-15366.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	24.5	38.0	38.0	508.0	88.0	17.0	33.0	30.0
Merged-chr5-62846921-4	chr5	62846836	62847036	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 6 of 8)	intron (NM_001170705, intron 6 of 8)	33113.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	87.0	106.0	92.5	1289.5	147.5	39.5	57.5	39.0
Merged-chr6-49107332-4	chr6	49107226	49107426	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023670, intron 8 of 14)	intron (NM_023670, intron 8 of 14)	33531.0	NM_029353	75593.0	Mm.439947	NM_029353	ENSMUSG00000029815	Malsu1	2410003K15Rik|Matsu1	mitochondrial assembly of ribosomal large subunit 1	protein-coding	21.5	41.5	29.0	362.0	54.0	11.0	25.5	20.5
Merged-chr10-82974431-4	chr10	82974306	82974506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1K|LTR|ERVL-MaLR	-11091.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	30.5	114.0	63.0	472.5	57.0	21.5	37.0	15.0
Merged-chr6-82824529-4	chr6	82824449	82824649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50095.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	62.0	74.0	85.0	1119.5	109.0	34.5	54.0	47.5
Merged-chr10-83921419-4	chr10	83921334	83921534	+	911.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	179263.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	8.0	16.0	13.5	253.0	22.5	8.5	19.0	25.0
Merged-chr18-74213962-3	chr18	74213856	74214056	+	919.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-2256.0	NM_028868	74322.0	Mm.17537	NM_028868	ENSMUSG00000024560	Cxxc1	2410002I16Rik|5830420C16Rik|AI426635|Cfp1|Cgbp|PHF18	CXXC finger 1 (PHD domain)	protein-coding	1.5	10.5	6.0	168.0	20.0	9.0	5.5	7.5
Merged-chr11-90225019-4	chr11	90224928	90225128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24448.0	NM_026178	67468.0	Mm.277518	NM_026178	ENSMUSG00000003948	Mmd	1200017E07Rik|1810073C06Rik|AA690185	monocyte to macrophage differentiation-associated	protein-coding	54.5	88.0	81.5	1205.5	195.5	61.0	84.5	59.5
Merged-chr14-8216327-4	chr14	8216218	8216418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305937)	promoter-TSS (NM_001305937)	70.0	NM_001305937	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	54.0	105.0	75.5	1871.0	141.0	46.5	85.0	66.0
Merged-chr10-94312402-5	chr10	94312253	94312453	+	824.493347	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	CpG	404.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	5.5	12.0	9.5	98.0	15.0	6.5	5.5	7.5
Merged-chr8-26696268-1	chr8	26696168	26696368	+	559.0	f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	128155.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	2.5	3.5	1.5	43.0	19.0	5.5	6.5	11.5
Merged-chr5-34536060-4	chr5	34535959	34536159	+	987.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011893, intron 1 of 12)	intron (NM_011893, intron 1 of 12)	-7306.0	NM_001145858	24055.0	Mm.5012	NM_011893	ENSMUSG00000054520	Sh3bp2	3BP2	SH3-domain binding protein 2	protein-coding	34.5	40.0	32.0	232.0	55.0	34.0	21.5	23.0
Merged-chr1-152597639-3	chr1	152597556	152597756	+	899.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346119, intron 2 of 17)	intron (NM_001346119, intron 2 of 17)	27561.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	15.0	18.5	5.5	30.5	9.0	6.5	3.0	2.0
Merged-chr7-98534690-4	chr7	98534603	98534803	+	881.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40481.0	NM_001113379	434215.0	Mm.323057	NM_001113379	ENSMUSG00000090958	Lrrc32	AI426318|D11S833Eh|D7H11S833E|EG434215|Garp	leucine rich repeat containing 32	protein-coding	6.5	38.0	11.5	101.0	75.0	11.5	18.5	12.5
Merged-chr7-19364053-4	chr7	19363947	19364147	+	847.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001010836, intron 1 of 12)	intron (NM_001010836, intron 1 of 12)	2831.0	NM_001010836	333654.0	Mm.333640	NM_001010836	ENSMUSG00000040734	Ppp1r13l	AV260376|IASPP|Nkip1|wa3	protein phosphatase 1, regulatory (inhibitor) subunit 13 like	protein-coding	11.5	23.5	3.5	115.0	34.0	14.5	9.0	9.5
Merged-chr17-34743939-2	chr17	34743839	34744039	+	773.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009780)	promoter-TSS (NM_009780)	-42.0	NM_009780	12268.0	Mm.477109	NM_009780	ENSMUSG00000073418	C4b	C4|Ss	complement component 4B (Chido blood group)	protein-coding	2.0	1.0	4.0	25.5	23.5	7.0	13.0	11.0
Merged-chr7-19157550-3	chr7	19157503	19157703	+	889.166626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080815, intron 13 of 13)	CpG	7765.0	NM_026943	107686.0	Mm.29135	NM_026943	ENSMUSG00000040824	Snrpd2	1810009A06Rik|SMD2	small nuclear ribonucleoprotein D2	protein-coding	14.0	24.5	8.5	38.5	16.5	7.5	17.0	9.5
Merged-chr12-24786092-1	chr12	24785992	24786192	+	833.0	f0_balb.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-45507.0	NM_026037	67216.0	Mm.167671	NM_026037	ENSMUSG00000020646	Mboat2	2810049G06Rik|AU022889|AW547221|LPCAT4|Moact2|Oact2	membrane bound O-acyltransferase domain containing 2	protein-coding	9.5	6.5	4.5	131.5	8.0	1.0	1.0	1.5
Merged-chr10-120208771-4	chr10	120208664	120208864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026617)	promoter-TSS (NM_026617)	-62.0	NM_026617	68212.0	Mm.157426	NM_026617	ENSMUSG00000020225	Tmbim4	0610007H07Rik|AU022431	transmembrane BAX inhibitor motif containing 4	protein-coding	84.5	134.5	77.0	1119.0	270.0	113.5	132.5	102.5
Merged-chr1-35839628-3	chr1	35839509	35839709	+	880.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-228791.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	4.0	7.0	8.0	86.0	14.5	9.5	8.0	8.5
Merged-chr8-57531184-4	chr8	57531082	57531282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167981, intron 11 of 11)	intron (NM_001167981, intron 11 of 11)	19339.0	NM_008252	97165.0	Mm.276881	NM_008252	ENSMUSG00000054717	Hmgb2	C80539|HMG-2|Hmg2	high mobility group box 2	protein-coding	31.0	49.0	39.0	552.5	128.5	41.5	45.5	45.5
Merged-chr5-43799740-4	chr5	43799644	43799844	+	885.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17595.0	NM_178729	242960.0	Mm.25794	NM_178729	ENSMUSG00000039753	Fbxl5	Fbl4|Fir4	F-box and leucine-rich repeat protein 5	protein-coding	29.5	20.5	37.5	378.5	35.0	19.0	9.0	8.5
Merged-chr4-12140873-4	chr4	12140779	12140979	+	757.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028226, intron 1 of 2)	CpG	762.0	NM_028226	72397.0	Mm.430709	NM_028226	ENSMUSG00000046667	Rbm12b1	3000004N20Rik|Rbm12b|Rbm12ba	RNA binding motif protein 12 B1	protein-coding	5.5	10.0	15.5	84.5	13.0	6.0	10.0	17.5
Merged-chr16-7420066-6	chr16	7419947	7420147	+	870.9722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	350212.0	NM_183188	268859.0	Mm.370334	NM_021477	ENSMUSG00000008658	Rbfox1	A2bp|A2bp1|Hrnbp1|fox-1	RNA binding protein, fox-1 homolog (C. elegans) 1	protein-coding	8.0	4.0	8.5	89.5	18.5	16.0	14.0	23.5
Merged-chr12-75819315-3	chr12	75819206	75819406	+	912.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005510, intron 1 of 115)	intron (NM_001005510, intron 1 of 115)	988.0	NM_001005510	319565.0	Mm.26652	NM_001005510	ENSMUSG00000063450	Syne2	6820443O06Rik|AW546258|Cpfl8|D12Ertd777e|KASH2|NUA|Nesp2g|dice|mKIAA1011	spectrin repeat containing, nuclear envelope 2	protein-coding	6.0	2.0	4.0	112.0	8.5	11.0	11.0	7.0
Merged-chr7-138392867-4	chr7	138392750	138392950	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183289, intron 3 of 11)	intron (NM_183289, intron 3 of 11)	4880.0	NM_183289	70571.0	Mm.334297	NM_183289	ENSMUSG00000091002	Tcerg1l	5730476P14Rik	transcription elongation regulator 1-like	protein-coding	19.5	38.5	43.5	500.5	52.0	14.5	18.5	10.5
Merged-chr11-118479755-5	chr11	118479674	118479874	+	986.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153103, intron 3 of 13)	B1_Mus2|SINE|Alu	2942.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	17.5	12.0	8.5	52.0	6.5	0.5	2.0	10.5
Merged-chr2-17989757-2	chr2	17989657	17989857	+	690.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7201.0	NM_026627	68231.0	Mm.23887	NM_026627	ENSMUSG00000062651	H2al2a	1700113O17Rik|H2A.Bbd|H2A.L.2|H2afb1|H2al2|TSEG-1|Tseg1	H2A histone family member L2A	protein-coding	6.5	6.5	4.5	136.5	9.0	3.0	3.0	7.0
Merged-chr5-150178382-4	chr5	150178294	150178494	+	724.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81536.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	2.5	3.0	7.5	99.0	44.5	15.5	12.5	7.0
Merged-chr11-115076814-4	chr11	115076717	115076917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-14614.0	NM_001163753	58222.0	Mm.143789	NM_021411	ENSMUSG00000020732	Rab37	B230331O03Rik|B230354I04Rik	RAB37, member RAS oncogene family	protein-coding	33.5	41.0	57.0	638.0	75.0	8.5	22.0	32.5
Merged-chr9-21136104-4	chr9	21135996	21136196	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4821.0	NM_001205312	54721.0	Mm.20249	NM_018793	ENSMUSG00000032175	Tyk2	JTK1	tyrosine kinase 2	protein-coding	73.5	156.5	31.5	303.5	241.5	69.5	64.5	38.0
Merged-chr13-97561170-4	chr13	97561069	97561269	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046157, intron 1 of 2)	intron (NR_046157, intron 1 of 2)	1169.0	NR_046157	328314.0	Mm.138047	NR_046157	ENSMUSG00000110235	Gm5086	B230311A21|EG328314	predicted gene 5086	ncRNA	64.5	188.0	47.5	528.0	139.5	70.5	25.0	30.0
Merged-chr14-20546212-4	chr14	20546110	20546310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033571)	promoter-TSS (NR_033571)	-83.0	NR_033571	75602.0	Mm.437061	NR_033571	ENSMUSG00000084925	1810062O18Rik	-	RIKEN cDNA 1810062O18 gene	ncRNA	106.0	139.0	117.0	1488.5	233.0	98.0	154.0	109.5
Merged-chr19-32760636-4	chr19	32760552	32760752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 1 of 8)	intron (NM_008960, intron 1 of 8)	3075.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	59.0	108.0	64.0	977.0	198.5	69.0	76.5	66.0
Merged-chr16-4894769-3	chr16	4894667	4894867	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	8667.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	14.0	21.5	23.5	234.0	30.0	7.0	14.0	8.0
Merged-chr5-21351864-4	chr5	21351760	21351960	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029195, intron 2 of 18)	MusHAL1|LINE|L1	-20813.0	NM_008013	14190.0	Mm.292100	NM_008013	ENSMUSG00000039899	Fgl2	AI385601|musfiblp	fibrinogen-like protein 2	protein-coding	16.5	31.0	23.5	307.5	52.0	12.0	17.0	10.5
Merged-chr13-35740334-3	chr13	35740246	35740446	+	680.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009881, intron 3 of 9)	intron (NM_009881, intron 3 of 9)	-1056.0	NM_001123386	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	9.0	15.5	10.5	73.5	30.0	9.5	6.0	7.0
Merged-chr5-108269438-3	chr5	108269328	108269528	+	893.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026106, exon 1 of 3)	5' UTR (NM_026106, exon 1 of 3)	531.0	NM_026106	13486.0	Mm.303534	NM_026106	ENSMUSG00000029265	Dr1	1700121L09Rik|Dr1l|NC2|NC2beta	down-regulator of transcription 1	protein-coding	4.5	14.5	8.0	45.0	21.5	14.5	9.5	8.5
Merged-chr6-125445476-4	chr6	125445363	125445563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR85a|LTR|Gypsy?	49297.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	173.5	284.0	161.5	2431.5	443.5	181.5	235.0	201.0
Merged-chr5-122769003-4	chr5	122768902	122769102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199676, intron 1 of 16)	intron (NM_001199676, intron 1 of 16)	10408.0	NM_001199676	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	23.5	56.0	25.5	285.0	47.0	18.0	21.5	9.0
Merged-chr4-99179670-4	chr4	99179564	99179764	+	908.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14270.0	NM_175029	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	6.0	13.5	10.0	108.0	65.0	23.5	15.0	12.0
Merged-chr1-193931549-2	chr1	193931454	193931654	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	291205.0	NR_040477	74942.0	Mm.60689	NR_040477	ENSMUSG00000103692	4930503O07Rik	-	RIKEN cDNA 4930503O07 gene	ncRNA	0.0	1.0	0.0	0.5	18.0	4.5	8.5	14.5
Merged-chr1-52799614-4	chr1	52799595	52799795	+	996.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008384, intron 1 of 5)	intron (NM_008384, intron 1 of 5)	17993.0	NM_008384	16329.0	Mm.917	NM_008384	ENSMUSG00000026102	Inpp1	2300002C06Rik|AV137389	inositol polyphosphate-1-phosphatase	protein-coding	15.0	23.0	10.0	116.0	52.5	19.0	14.5	17.0
Merged-chr6-58937491-4	chr6	58937383	58937583	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153574, intron 17 of 17)	RLTR40|LTR|ERVK	-30357.0	NM_021432	58243.0	Mm.389747	NM_021432	ENSMUSG00000055430	Nap1l5	1110020M21Rik	nucleosome assembly protein 1-like 5	protein-coding	14.0	30.5	27.0	626.5	36.0	16.5	25.5	26.5
Merged-chr13-30660338-4	chr13	30660214	30660414	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 1 of 7)	intron (NM_134068, intron 1 of 7)	255.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	155.0	205.0	141.5	2455.5	319.5	145.0	196.0	194.5
Merged-chr4-15257003-4	chr4	15256899	15257099	+	903.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8821.0	NM_181401	100201.0	Mm.394111	NM_181401	ENSMUSG00000043252	Tmem64	9630015D15Rik|AI790744|AV300874	transmembrane protein 64	protein-coding	51.5	59.0	53.0	1061.5	22.5	7.0	12.0	26.5
Merged-chr7-46993279-4	chr7	46993142	46993342	+	867.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_175318, exon 6 of 6)	3' UTR (NM_175318, exon 6 of 6)	15172.0	NM_175318	101685.0	Mm.155687	NM_175318	ENSMUSG00000049516	Spty2d1	5830435K17Rik|AI852426|P16H6	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	protein-coding	9.0	13.0	23.0	388.5	17.5	11.5	13.0	9.0
Merged-chr13-41747110-2	chr13	41747010	41747210	+	989.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	100378.0	NM_175417	109254.0	Mm.25195	NM_175417	ENSMUSG00000058022	Adtrp	9530008L14Rik	androgen dependent TFPI regulating protein	protein-coding	2.5	9.0	1.0	36.0	16.0	11.0	6.5	4.5
Merged-chr1-152796981-4	chr1	152796861	152797061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER10B|LTR|ERVL	-3192.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	107.0	191.5	143.0	1570.0	290.5	93.0	127.0	127.0
Merged-chr12-12302015-4	chr12	12301913	12302113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	39874.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	135.0	202.5	166.0	2467.5	345.0	105.5	133.0	127.5
Merged-chr11-89069480-3	chr11	89069376	89069576	+	689.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4365.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	12.5	17.0	5.0	174.5	9.0	1.0	2.5	3.0
Merged-chr7-140036558-6	chr7	140036436	140036636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133755)	promoter-TSS (NM_133755)	138.0	NM_001286007	74237.0	Mm.40888	NM_133755	ENSMUSG00000025474	Tubgcp2	1700022B05Rik	tubulin, gamma complex associated protein 2	protein-coding	74.0	99.0	107.5	830.5	177.0	71.5	76.5	96.5
Merged-chr2-153164631-6	chr2	153164529	153164729	+	817.472229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133847, intron 1 of 17)	intron (NM_133847, intron 1 of 17)	3328.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	20.0	27.0	9.5	113.0	12.5	8.0	11.0	16.5
Merged-chr2-181837886-4	chr2	181837770	181837970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153594)	promoter-TSS (NM_153594)	16.0	NM_001291211	245867.0	Mm.491085	NM_153594	ENSMUSG00000027589	Pcmtd2	5330414D10Rik|AI314201	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2	protein-coding	33.5	52.0	32.0	544.0	72.5	23.0	34.5	36.5
Merged-chr10-23854020-3	chr10	23853879	23854079	+	714.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011979, intron 2 of 6)	intron (NM_011979, intron 2 of 6)	2517.0	NM_011979	26464.0	Mm.27334	NM_011979	ENSMUSG00000020010	Vnn3	-	vanin 3	protein-coding	1.0	0.0	0.0	0.0	10.5	5.5	7.0	9.5
Merged-chr3-9656765-4	chr3	9656662	9656862	+	948.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46677.0	NM_133218	170753.0	Mm.212908	NM_133218	ENSMUSG00000040209	Zfp704	C030026M03|C030034L19Rik|Gig1|Znf704	zinc finger protein 704	protein-coding	10.5	23.5	11.5	204.5	41.5	20.5	13.5	29.0
Merged-chr14-31402212-4	chr14	31402114	31402314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347585, intron 2 of 7)	L1M3|LINE|L1	15463.0	NM_001347585	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	94.0	59.5	83.0	1367.5	128.0	38.0	54.0	55.0
Merged-chr9-61056478-4	chr9	61056379	61056579	+	956.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39410.0	NR_040767	330956.0	Mm.207985	NR_040767	ENSMUSG00000111290	Gm5122	A430102L10	predicted gene 5122	ncRNA	13.5	22.0	21.5	393.0	42.0	14.5	23.5	18.5
Merged-chr6-31809983-4	chr6	31809879	31810079	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143848.0	NR_152155	434003.0	Mm.332979	NR_152155	ENSMUSG00000084973	Gm13848	-	predicted gene 13848	ncRNA	89.0	164.5	79.0	1026.0	164.5	33.0	47.0	41.0
Merged-chr3-89905206-4	chr3	89905122	89905322	+	920.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010559, intron 1 of 9)	intron (NM_010559, intron 1 of 9)	7974.0	NM_001310676	16194.0	Mm.2856	NM_010559	ENSMUSG00000027947	Il6ra	CD126|IL-6R|IL-6R-alpha|IL-6RA|Il6r	interleukin 6 receptor, alpha	protein-coding	11.5	33.5	24.0	233.0	42.0	16.5	29.5	22.0
Merged-chr4-101670025-4	chr4	101669929	101670129	+	756.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22246.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	14.5	14.5	6.5	132.5	17.0	1.5	12.0	12.5
Merged-chr9-119334504-4	chr9	119334395	119334595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5545.0	NM_010851	17874.0	Mm.213003	NM_010851	ENSMUSG00000032508	Myd88	-	myeloid differentiation primary response gene 88	protein-coding	47.5	57.5	52.5	871.5	118.0	53.0	76.0	72.5
Merged-chr6-3386807-4	chr6	3386695	3386895	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010156, intron 1 of 1)	intron (NM_010156, intron 1 of 1)	12776.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	28.0	36.5	12.5	386.0	94.0	28.5	33.5	47.5
Merged-chr4-144890788-4	chr4	144890676	144890876	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2051.0	NM_001172424	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	16.5	25.0	6.0	176.0	59.5	22.5	18.0	22.5
Merged-chr3-38114626-4	chr3	38114510	38114710	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93509.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	30.5	107.5	33.5	250.5	96.5	32.0	28.5	16.5
Merged-chr1-144241164-4	chr1	144241103	144241303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	7901.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	19.5	54.5	14.5	63.5	40.5	21.5	16.5	20.5
Merged-chr7-15912342-4	chr7	15912252	15912452	+	862.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10019.0	NM_009156	20364.0	Mm.42829	NM_009156	ENSMUSG00000041571	Selenow	Sepw1|selW	selenoprotein W	protein-coding	14.0	21.0	8.5	208.0	17.5	7.5	11.5	16.5
Merged-chr14-45219555-4	chr14	45219474	45219674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027518)	promoter-TSS (NM_027518)	-143.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	335.5	502.5	370.0	5091.0	802.5	332.0	429.0	344.0
Merged-chr1-35813846-4	chr1	35813758	35813958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-254542.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	71.0	151.5	101.0	1787.0	220.5	95.0	110.0	99.0
Merged-chr4-43818993-3	chr4	43818904	43819104	+	888.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	2429.0	NM_019474	29846.0	Mm.377121	NM_019474	ENSMUSG00000110970	Olfr156	MOR262-6|OR37B|Olfr37b|mOR37b	olfactory receptor 156	protein-coding	8.5	8.5	7.5	279.0	7.0	3.0	5.5	4.5
Merged-chr17-31047796-3	chr17	31047692	31047892	+	842.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-9902.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	7.5	11.0	5.5	189.0	16.5	8.5	5.5	3.5
Merged-chr12-4236515-4	chr12	4236417	4236617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001204912, exon 2 of 2)	exon (NM_001204912, exon 2 of 2)	2490.0	NM_001204912	69709.0	Mm.250552	NM_001204912	ENSMUSG00000096199	Ptrhd1	2410017P09Rik	peptidyl-tRNA hydrolase domain containing 1	protein-coding	48.0	70.5	51.0	824.0	93.0	26.0	80.5	51.0
Merged-chr16-64865543-4	chr16	64865459	64865659	+	839.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus2|LINE|L1	13558.0	NM_178647	106143.0	Mm.10160	NM_178647	ENSMUSG00000054604	Cggbp1	AA960172|AL023996|AW045841	CGG triplet repeat binding protein 1	protein-coding	7.5	19.5	24.5	117.0	24.0	10.0	11.0	14.5
Merged-chr15-97360712-2	chr15	97360612	97360812	+	731.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172293, intron 3 of 5)	intron (NM_172293, intron 3 of 5)	-113425.0	NM_001164602	105827.0	Mm.24005	NM_178114	ENSMUSG00000048218	Amigo2	AI415330|AMIGO-2|AW208913|Ali1	adhesion molecule with Ig like domain 2	protein-coding	6.0	7.5	10.0	16.5	13.0	4.5	2.0	0.5
Merged-chr17-45585503-4	chr17	45585400	45585600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001199116, exon 13 of 13)	3' UTR (NM_001199116, exon 13 of 13)	6893.0	NM_022880	63959.0	Mm.29744	NM_022880	ENSMUSG00000023942	Slc29a1	1200014D21Rik|AA407560|ENT1	solute carrier family 29 (nucleoside transporters), member 1	protein-coding	60.5	74.5	48.0	1055.5	146.5	54.5	84.5	49.5
Merged-chr13-44484098-4	chr13	44483991	44484191	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	44364.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	9.0	24.0	15.5	132.5	33.0	20.5	9.0	32.0
Merged-chr2-173771908-4	chr2	173771803	173772003	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019806, intron 3 of 5)	intron (NM_019806, intron 3 of 5)	34332.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	31.5	27.5	50.0	739.0	50.0	24.0	34.0	27.5
Merged-chr3-30600853-4	chr3	30600780	30600980	+	964.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1010.0	NM_029690	76652.0	Mm.116928	NM_029690	ENSMUSG00000037737	Actrt3	1700119I24Rik|ARP-T3|Arpm1	actin related protein T3	protein-coding	15.5	11.0	15.0	211.0	34.5	7.5	8.0	23.5
Merged-chr2-157561365-4	chr2	157561250	157561450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010923, intron 2 of 2)	intron (NM_010923, intron 2 of 2)	1272.0	NM_180960	18111.0	Mm.34330	NM_010923	ENSMUSG00000067786	Nnat	5730414I02Rik|AW107673|Peg5	neuronatin	protein-coding	32.0	50.5	34.0	592.0	71.5	21.0	78.5	65.5
Merged-chr17-10764511-4	chr17	10764410	10764610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 2 of 4)	Lx7|LINE|L1	75681.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	40.0	36.5	42.0	796.0	82.0	32.0	45.5	36.5
Merged-chr5-108065625-4	chr5	108065453	108065653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253877)	promoter-TSS (NM_001253877)	-121.0	NM_001359088	17765.0	Mm.257149	NM_013827	ENSMUSG00000029267	Mtf2	9230112N11Rik|AA537621|C76717|M96|Pcl2	metal response element binding transcription factor 2	protein-coding	91.5	140.5	61.5	1349.5	237.0	96.0	81.5	66.0
Merged-chr11-115676933-4	chr11	115676824	115677024	+	935.0125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313936, intron 2 of 5)	intron (NM_001313936, intron 2 of 5)	22610.0	NM_001313937	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	24.0	20.0	8.5	272.5	55.0	19.0	14.5	17.5
Merged-chr11-116628995-4	chr11	116628915	116629115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1996.0	NM_172572	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	29.5	54.0	21.5	378.0	49.5	23.0	9.0	22.5
Merged-chr1-74243019-4	chr1	74242907	74243107	+	877.2374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	ID_B1|SINE|B4	6490.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	14.0	11.0	9.0	189.5	23.5	13.0	10.5	17.0
Merged-chr2-31771396-4	chr2	31771298	31771498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283045, intron 1 of 10)	intron (NM_001283045, intron 1 of 10)	11225.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	118.0	133.0	123.0	1661.5	157.5	65.0	76.0	75.5
Merged-chr4-126197643-4	chr4	126197536	126197736	+	589.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356455, intron 1 of 11)	intron (NM_001356455, intron 1 of 11)	3371.0	NM_001356456	230753.0	Mm.29813	NM_146153	ENSMUSG00000043962	Thrap3	9330151F09Rik|B230333E16Rik|Trap150	thyroid hormone receptor associated protein 3	protein-coding	9.5	11.0	6.5	71.0	21.0	10.5	13.5	11.5
Merged-chr17-29765301-4	chr17	29765198	29765398	+	961.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48281.0	NM_001163741	68597.0	Mm.390979	NM_026782	ENSMUSG00000024018	Ccdc167	1110021J02Rik	coiled-coil domain containing 167	protein-coding	3.0	60.0	6.0	244.0	38.5	18.0	37.5	12.5
Merged-chr1-87960232-4	chr1	87960151	87960351	+	919.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033291, intron 19 of 27)	intron (NM_001033291, intron 19 of 27)	48300.0	NM_001198573	227334.0	Mm.80484	NM_001033291	ENSMUSG00000005501	Usp40	B230215L03Rik|C730029K03	ubiquitin specific peptidase 40	protein-coding	13.5	20.5	13.5	173.5	39.0	11.5	13.0	16.5
Merged-chr7-109562378-2	chr7	109562278	109562478	+	650.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001001326, intron 2 of 19)	intron (NM_001001326, intron 2 of 19)	42246.0	NR_028079	100302499.0	Mm.482651	NR_028079	ENSMUSG00000065016	Snora3	MBI-28	small nucleolar RNA, H/ACA box 3	snoRNA	8.5	2.0	6.5	69.0	7.5	8.0	7.0	9.5
Merged-chr17-36220407-3	chr17	36220329	36220529	+	865.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30278.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	5.0	6.0	6.0	86.0	11.5	4.5	4.5	6.5
Merged-chr6-97445309-4	chr6	97445166	97445366	+	996.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	14020.0	NM_001346639	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.0	14.0	15.5	356.5	53.0	21.0	21.5	23.5
Merged-chr14-61599537-4	chr14	61599422	61599622	+	982.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023233)	promoter-TSS (NM_023233)	10.0	NM_023233	66597.0	Mm.491258	NM_023233	ENSMUSG00000035235	Trim13	3110001L12Rik|CAR|LEU5|RNF77|Rfp2	tripartite motif-containing 13	protein-coding	14.5	65.0	25.5	382.5	52.5	16.0	27.0	24.0
Merged-chr5-30709952-4	chr5	30709852	30710052	+	863.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1612.0	NM_001356949	65254.0	Mm.27732	NM_023047	ENSMUSG00000029168	Dpysl5	CRAM|CRMP-5|Crmp5	dihydropyrimidinase-like 5	protein-coding	9.5	13.5	4.5	158.0	32.5	10.0	12.5	15.0
Merged-chr5-120711668-3	chr5	120711548	120711748	+	859.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008052)	promoter-TSS (NM_008052)	21.0	NM_008052	14357.0	Mm.1645	NM_008052	ENSMUSG00000029603	Dtx1	Fxit1|mKIAA4160	deltex 1, E3 ubiquitin ligase	protein-coding	6.0	11.0	7.0	82.0	9.5	8.5	5.0	3.0
Merged-chr17-30990443-3	chr17	30990350	30990550	+	906.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177465, intron 13 of 21)	intron (NM_177465, intron 13 of 21)	35767.0	NM_177465	52020.0	Mm.25923	NM_177465	ENSMUSG00000054134	Umodl1	D17Ertd488e	uromodulin-like 1	protein-coding	11.0	14.0	5.5	129.0	5.5	2.0	6.0	5.0
Merged-chr17-24654157-4	chr17	24654036	24654236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3831.0	NM_023055	65962.0	Mm.21587	NM_023055	ENSMUSG00000002504	Slc9a3r2	0610011L07Rik|1200011K07Rik|2010007A20Rik|E3karp|NHERF-2|Nherf2|Octs2|Sip-1|Sip1|Sryip1|Tka-1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 2	protein-coding	23.5	34.5	23.0	283.0	76.0	33.0	23.0	30.5
Merged-chr9-114691237-4	chr9	114691113	114691313	+	890.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146229, intron 2 of 12)	intron (NM_146229, intron 2 of 12)	2382.0	NM_146229	235661.0	Mm.128627	NM_146229	ENSMUSG00000032435	Dync1li1	1110053F02Rik|Dnclic1|LIC-1	dynein cytoplasmic 1 light intermediate chain 1	protein-coding	9.5	12.0	7.0	181.0	30.5	6.0	12.0	33.0
Merged-chr12-84252979-2	chr12	84252879	84253079	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16E2|LTR|ERVL	-32317.0	NM_029880	77219.0	Mm.246127	NM_029880	ENSMUSG00000072946	Ptgr2	1810016I24Rik|9130222H03Rik|9630002F03Rik|AI838763|B830026H24Rik|PGR-2|PRG-2|Zadh1	prostaglandin reductase 2	protein-coding	2.0	7.0	4.0	73.0	8.5	9.0	6.5	6.5
Merged-chr5-121660123-1	chr5	121660023	121660223	+	734.5	f0_balb.idr	promoter-TSS (NM_028227)	promoter-TSS (NM_028227)	387.0	NM_028037	71985.0	Mm.45423	NM_028037	ENSMUSG00000029456	Acad10	2410021P16Rik	acyl-Coenzyme A dehydrogenase family, member 10	protein-coding	5.0	16.0	9.0	97.5	17.5	1.5	4.5	7.5
Merged-chr4-155869043-2	chr4	155868941	155869141	+	817.0	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028020)	promoter-TSS (NM_028020)	399.0	NM_024472	79554.0	Mm.25556	NM_024472	ENSMUSG00000029073	Cptp	Gltpd1	ceramide-1-phosphate transfer protein	protein-coding	5.5	9.5	5.5	107.0	13.5	10.0	7.5	9.0
Merged-chr4-135973837-4	chr4	135973710	135973910	+	959.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1216.0	NM_011942	26394.0	Mm.34302	NM_011942	ENSMUSG00000028670	Lypla2	LysoII	lysophospholipase 2	protein-coding	24.0	46.0	15.5	300.5	67.0	23.5	10.0	18.0
Merged-chr4-45012560-4	chr4	45012481	45012681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163284)	promoter-TSS (NM_001163284)	-169.0	NM_173399	230119.0	Mm.44222	NM_173399	ENSMUSG00000049657	Zbtb5	5930421I10|9430083K24Rik|AI646847|mKIAA0354	zinc finger and BTB domain containing 5	protein-coding	452.0	653.0	351.0	5878.0	1009.0	513.0	442.0	391.5
Merged-chr2-29787637-4	chr2	29787524	29787724	+	997.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290496)	promoter-TSS (NM_001290496)	47.0	NM_001290496	227682.0	Mm.245739	NM_145520	ENSMUSG00000039826	Trub2	G430055L02Rik	TruB pseudouridine (psi) synthase family member 2	protein-coding	17.0	32.0	24.0	142.5	58.5	15.5	29.5	16.5
Merged-chr12-36214522-3	chr12	36214426	36214626	+	905.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361098, intron 5 of 8)	intron (NM_001361098, intron 5 of 8)	3692.0	NM_027699	71156.0	Mm.250837	NM_027699	ENSMUSG00000020545	Lrrc72	1700108M19Rik|4933421E18Rik	leucine rich repeat containing 72	protein-coding	10.0	18.0	15.5	264.5	10.5	1.0	6.0	3.0
Merged-chr8-84856978-4	chr8	84856881	84857081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025648)	promoter-TSS (NM_025648)	-5.0	NR_152751	66590.0	Mm.292517	NM_025648	ENSMUSG00000003808	Farsa	0610012A19Rik|Farsla|pheRS	phenylalanyl-tRNA synthetase, alpha subunit	protein-coding	54.5	87.5	48.0	818.0	160.5	44.5	55.0	32.0
Merged-chr11-108261947-4	chr11	108261864	108262064	+	933.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011101, intron 2 of 16)	L1MB2|LINE|L1	81924.0	NM_011101	18750.0	Mm.222178	NM_011101	ENSMUSG00000050965	Prkca	AI875142|Pkca	protein kinase C, alpha	protein-coding	9.0	8.0	12.5	141.0	78.0	16.0	17.0	16.5
Merged-chr16-30364820-3	chr16	30364732	30364932	+	783.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128096, intron 3 of 33)	intron (NM_001128096, intron 3 of 33)	23698.0	NM_001128094	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	15.5	10.0	9.5	72.0	10.0	1.0	3.5	9.0
Merged-chr19-42045989-4	chr19	42045881	42046081	+	910.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020033)	TTS (NM_020033)	130.0	NM_026152	67432.0	Mm.24196	NM_026152	ENSMUSG00000025176	Hoga1	0610010D20Rik|Dhdpsl|Npl2	4-hydroxy-2-oxoglutarate aldolase 1	protein-coding	9.0	12.0	3.0	137.0	9.0	13.0	5.0	15.5
Merged-chr18-69663674-4	chr18	69663559	69663759	+	805.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 15 of 19)	intron (NM_001361128, intron 15 of 19)	-261900.0	NM_201362	381175.0	Mm.266831	NM_201362	ENSMUSG00000038903	Ccdc68	BC046343	coiled-coil domain containing 68	protein-coding	12.0	11.0	2.0	85.0	22.0	6.5	15.5	15.5
Merged-chr18-12132900-4	chr18	12132761	12132961	+	951.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024182, intron 1 of 12)	intron (NM_024182, intron 1 of 12)	4011.0	NM_024182	66878.0	Mm.28551	NM_024182	ENSMUSG00000024404	Riok3	1200013N13Rik|D18Ertd331e|E130306C24Rik|Sudd	RIO kinase 3	protein-coding	10.0	18.5	23.5	248.5	67.0	8.5	18.5	21.0
Merged-chr1-95604037-4	chr1	95603958	95604158	+	847.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009183, intron 4 of 4)	L1_Mus2|LINE|L1	63536.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	11.0	6.5	24.0	113.0	25.5	5.5	6.5	12.0
Merged-chr5-108246522-4	chr5	108246388	108246588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22409.0	NM_026106	13486.0	Mm.303534	NM_026106	ENSMUSG00000029265	Dr1	1700121L09Rik|Dr1l|NC2|NC2beta	down-regulator of transcription 1	protein-coding	55.0	133.0	88.0	943.5	113.0	52.0	58.0	49.0
Merged-chr11-16670478-4	chr11	16670336	16670536	+	896.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81767.0	NM_207655	13649.0	Mm.8534	NM_007912	ENSMUSG00000020122	Egfr	9030024J15Rik|AI552599|Erbb|Errb1|Errp|Wa5|wa-2|wa2	epidermal growth factor receptor	protein-coding	5.5	16.5	11.5	247.5	27.0	9.5	10.5	13.0
Merged-chr10-117746409-4	chr10	117746319	117746519	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029875)	promoter-TSS (NM_029875)	-61.0	NM_029875	215436.0	Mm.256753	NM_029875	ENSMUSG00000060181	Slc35e3	9330166G04Rik|AI481200	solute carrier family 35, member E3	protein-coding	126.0	149.5	113.0	1821.0	395.0	141.0	163.5	119.5
Merged-chr1-140351863-4	chr1	140351755	140351955	+	805.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081027, intron 2 of 27)	Lx8|LINE|L1	105598.0	NM_001081027	240776.0	Mm.483845	NM_001081027	ENSMUSG00000052726	Kcnt2	E330038N15Rik|Slick	potassium channel, subfamily T, member 2	protein-coding	11.5	17.0	10.0	287.0	23.5	2.0	10.5	14.0
Merged-chr3-93375405-3	chr3	93375302	93375502	+	753.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-18297.0	NM_009100	20129.0	Mm.1417	NM_009100	ENSMUSG00000041984	Rptn	-	repetin	protein-coding	8.5	8.0	13.0	163.5	9.0	2.5	3.5	4.0
Merged-chr17-8846675-4	chr17	8846569	8846769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011866, intron 1 of 21)	intron (NM_011866, intron 1 of 21)	-3316.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	45.0	49.0	113.0	1077.5	76.5	26.0	43.5	48.5
Merged-chr16-17554167-4	chr16	17554085	17554285	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145435, intron 4 of 7)	intron (NM_001145435, intron 4 of 7)	7062.0	NM_029053	74685.0	Mm.38634	NM_029053	ENSMUSG00000022759	Lrrc74b	4930451C15Rik|mCG12354|mCP17390	leucine rich repeat containing 74B	protein-coding	34.0	64.0	36.0	513.0	58.5	18.0	16.0	21.5
Merged-chr1-153910607-4	chr1	153910505	153910705	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008131)	TTS (NM_008131)	10676.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	37.0	23.0	28.0	329.0	34.5	13.5	21.0	14.5
Merged-chr10-45018169-4	chr10	45017987	45018187	+	955.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49127.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	27.0	21.0	10.5	206.5	28.0	8.0	5.5	8.5
Merged-chr10-19978995-4	chr10	19978905	19979105	+	857.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	RLTR11B|LTR|ERVK	44479.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	17.0	6.5	20.5	124.5	24.0	15.0	7.5	11.5
Merged-chr11-119955658-4	chr11	119955545	119955745	+	926.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037754, intron 1 of 13)	intron (NM_001037754, intron 1 of 13)	12553.0	NM_130862	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	17.5	22.5	4.0	310.0	29.0	10.0	8.0	14.0
Merged-chr13-18781432-4	chr13	18781336	18781536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172120, intron 4 of 28)	intron (NM_172120, intron 4 of 28)	64144.0	NM_172120	218035.0	Mm.27389	NM_172120	ENSMUSG00000041236	Vps41	AI317346|Vam2|mVam2	VPS41 HOPS complex subunit	protein-coding	41.5	62.0	63.5	1062.5	103.5	45.0	55.0	48.0
Merged-chr1-80615621-4	chr1	80615518	80615718	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 3 of 55)	intron (NM_175291, intron 3 of 55)	49734.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	6.5	7.0	8.5	143.0	39.0	17.0	13.0	6.5
Merged-chr5-124445358-4	chr5	124445268	124445468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310723)	promoter-TSS (NM_001310723)	-131.0	NM_001310723	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	52.5	62.5	38.0	628.5	103.5	35.0	62.5	33.5
Merged-chr14-56811892-4	chr14	56811798	56811998	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253753)	promoter-TSS (NM_001253753)	-91.0	NR_152252	100503842.0	Mm.297636	NR_152252	ENSMUSG00000100017	2410022M11Rik	-	RIKEN cDNA 2410022M11 gene	ncRNA	147.0	218.0	199.5	1083.0	417.5	207.0	198.5	134.5
Merged-chr2-84355457-3	chr2	84355352	84355552	+	808.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018782, intron 9 of 15)	MTB_Mm|LTR|ERVL-MaLR	69814.0	NM_018782	54598.0	Mm.75467	NM_018782	ENSMUSG00000059588	Calcrl	AV071593|CRLR	calcitonin receptor-like	protein-coding	6.0	6.5	9.5	149.5	13.5	2.5	16.0	9.5
Merged-chr7-115034185-3	chr7	115034083	115034283	+	793.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82909.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	8.0	8.5	9.0	107.0	18.5	8.0	8.5	2.0
Merged-chr9-58802496-4	chr9	58802374	58802574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21038.0	NM_001081192	330953.0	Mm.151967	NM_001081192	ENSMUSG00000032338	Hcn4	Bcng3|Hcn3	hyperpolarization-activated, cyclic nucleotide-gated K+ 4	protein-coding	29.5	47.0	24.5	322.5	69.5	21.0	31.0	25.0
Merged-chr12-110447472-3	chr12	110447386	110447586	+	897.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135001, intron 1 of 13)	CpG	307.0	NM_001135001	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	5.5	8.5	9.5	92.5	21.0	13.0	5.0	14.0
Merged-chr7-19306830-10	chr7	19306703	19306903	+	921.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347586, intron 2 of 4)	intron (NM_001347586, intron 2 of 4)	3242.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	11.0	10.0	6.0	53.5	23.0	7.5	9.0	8.0
Merged-chr4-102572836-1	chr4	102572736	102572936	+	1000.0	f1_balb.idr	intron (NM_019840, intron 6 of 14)	intron (NM_019840, intron 6 of 14)	2776.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	9.0	1.5	18.0	83.5	17.0	6.5	8.5	13.5
Merged-chr2-164861645-2	chr2	164861555	164861755	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3947.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	5.0	3.5	4.5	74.5	15.5	4.5	4.5	5.5
Merged-chr19-8735832-4	chr19	8735701	8735901	+	995.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134139)	promoter-TSS (NM_134139)	-38.0	NM_134139	107071.0	Mm.29627	NM_134139	ENSMUSG00000042729	Wdr74	5730436H21Rik|AA407588	WD repeat domain 74	protein-coding	37.0	44.0	13.0	343.5	71.5	38.0	19.0	50.5
Merged-chr8-84067313-4	chr8	84067208	84067408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009055, intron 1 of 20)	CpG	472.0	NM_009055	19724.0	Mm.7892	NM_009055	ENSMUSG00000031706	Rfx1	AI047719|AI385641	regulatory factor X, 1 (influences HLA class II expression)	protein-coding	149.0	234.0	119.5	1580.5	360.5	154.5	155.0	146.5
Merged-chr9-34983605-2	chr9	34983505	34983705	+	763.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001190912, intron 3 of 15)	intron (NM_001190912, intron 3 of 15)	-133123.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	4.5	5.5	4.5	67.0	10.5	2.5	2.5	3.5
Merged-chr3-9826333-4	chr3	9826245	9826445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195031, intron 1 of 8)	intron (NM_001195031, intron 1 of 8)	7334.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	48.0	34.0	16.0	646.0	67.5	17.5	56.0	38.5
Merged-chr11-30755187-3	chr11	30755073	30755273	+	662.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-16602.0	NM_134013	103554.0	Mm.240066	NM_134013	ENSMUSG00000040850	Psme4	AA409398|AU041366|TEMO|mKIAA0077	proteasome (prosome, macropain) activator subunit 4	protein-coding	5.5	5.5	7.0	100.5	18.0	1.5	5.5	7.5
Merged-chr14-19976719-4	chr14	19976604	19976804	+	961.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285911)	promoter-TSS (NM_001285911)	-11.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	30.0	30.0	16.0	188.0	40.0	19.5	14.5	25.0
Merged-chr13-4940046-4	chr13	4939946	4940146	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-330882.0	NM_018859	56043.0	Mm.251908	NM_018859	ENSMUSG00000045410	Akr1e1	1810061I10Rik|Akr1e2	aldo-keto reductase family 1, member E1	protein-coding	21.0	22.5	22.0	425.0	79.5	38.5	33.0	21.0
Merged-chr7-19342809-4	chr7	19342717	19342917	+	896.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2254.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	14.0	19.0	9.0	73.5	70.5	20.0	18.5	17.0
Merged-chr6-120156062-4	chr6	120155956	120156156	+	994.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-37767.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	22.0	29.5	21.0	212.5	46.5	13.5	19.5	16.5
Merged-chr14-61802066-4	chr14	61801948	61802148	+	950.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-119675.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	14.5	19.5	11.5	306.0	44.0	13.0	19.5	31.0
Merged-chr3-95740713-4	chr3	95740613	95740813	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356965, intron 17 of 17)	intron (NM_001356965, intron 17 of 17)	-1144.0	NM_001252653	13601.0	Mm.3433	NM_007899	ENSMUSG00000028108	Ecm1	AI663821|p85	extracellular matrix protein 1	protein-coding	72.0	90.5	49.5	1137.5	213.0	61.0	67.5	79.5
Merged-chr4-10998925-3	chr4	10998821	10999021	+	669.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175175, intron 1 of 1)	intron (NM_175175, intron 1 of 1)	8698.0	NM_175175	71801.0	Mm.34351	NM_175175	ENSMUSG00000049969	Plekhf2	1110070J07Rik|AA673237|ZFYVE18	pleckstrin homology domain containing, family F (with FYVE domain) member 2	protein-coding	5.0	6.5	3.5	103.0	30.5	5.0	9.5	10.5
Merged-chr13-100517921-4	chr13	100517841	100518041	+	894.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360539, intron 2 of 6)	intron (NM_001360539, intron 2 of 6)	-25332.0	NM_022011	23894.0	Mm.272533	NM_022011	ENSMUSG00000021639	Gtf2h2	44kDa|BTF2 p44|BTF2-p44|Btf2p44|p44	general transcription factor II H, polypeptide 2	protein-coding	8.0	9.5	9.0	154.5	56.0	5.0	16.0	11.5
Merged-chr8-128709420-4	chr8	128709316	128709516	+	865.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010578, intron 3 of 15)	B3|SINE|B2	23762.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	9.0	12.0	10.0	104.5	28.5	6.5	17.0	12.0
Merged-chr11-61494416-4	chr11	61494306	61494506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291035)	promoter-TSS (NM_001291035)	-140.0	NM_001291034	23939.0	Mm.38172	NM_011841	ENSMUSG00000001034	Mapk7	BMK-1|BMK1|ERK-5|ERK5|Erk5-T|PRKM7|b2b2346Clo	mitogen-activated protein kinase 7	protein-coding	253.0	393.0	225.5	2682.5	616.5	254.0	226.5	184.0
Merged-chr7-25317468-2	chr7	25317368	25317568	+	959.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001160400, exon 1 of 41)	5' UTR (NM_001160400, exon 1 of 41)	304.0	NM_001160400	269878.0	Mm.38527	NM_001160400	ENSMUSG00000045039	Megf8	AW049492|Egfl4|b2b1702.2Clo|b2b1702Clo|b2b288Clo|m687Ddg|mKIAA0817	multiple EGF-like-domains 8	protein-coding	7.0	5.0	15.5	37.5	5.0	2.5	5.5	5.0
Merged-chr11-115135074-4	chr11	115134953	115135153	+	950.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163753, intron 1 of 8)	intron (NM_001163753, intron 1 of 8)	-1061.0	NM_145634	246746.0	Mm.277387	NM_145634	ENSMUSG00000047798	Cd300lf	CLIM1|CLM-1|CLM1|Digr2|F730004D16Rik|IREM1|IgSF13|LMIR3|Pigr3	CD300 molecule like family member F	protein-coding	7.5	14.0	18.5	313.5	37.0	7.0	15.0	20.0
Merged-chr7-100428525-4	chr7	100428428	100428628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017985, intron 20 of 32)	intron (NM_001017985, intron 20 of 32)	-44463.0	NM_009464	22229.0	Mm.6254	NM_009464	ENSMUSG00000032942	Ucp3	AI645527|Slc25a9|UCP-3	uncoupling protein 3 (mitochondrial, proton carrier)	protein-coding	35.5	57.0	41.0	719.0	67.0	26.0	33.5	46.5
Merged-chr12-40379694-4	chr12	40379590	40379790	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178845, intron 1 of 11)	intron (NM_178845, intron 1 of 11)	66100.0	NM_172575	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	41.5	75.0	26.0	590.0	118.0	34.0	42.0	35.5
Merged-chr1-161035791-5	chr1	161035719	161035919	+	934.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151478)	promoter-TSS (NR_151478)	903.0	NR_153812	14455.0	Mm.270065	NR_002840	ENSMUSG00000053332	Gas5	Gas-5|Mir5117|Snhg2	growth arrest specific 5	ncRNA	5.5	4.5	5.0	79.5	17.5	10.5	8.5	9.0
Merged-chr17-23740411-4	chr17	23740295	23740495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023824)	promoter-TSS (NM_023824)	-65.0	NM_023824	76498.0	Mm.491253	NM_023824	ENSMUSG00000023909	Paqr4	1500004C10Rik	progestin and adipoQ receptor family member IV	protein-coding	68.0	85.0	59.0	1199.5	126.5	61.5	77.0	60.0
Merged-chr7-16891763-4	chr7	16891658	16891858	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010320)	promoter-TSS (NM_010320)	-28.0	NM_010320	14709.0	Mm.103770	NM_010320	ENSMUSG00000063594	Gng8	G(y)8	guanine nucleotide binding protein (G protein), gamma 8	protein-coding	27.0	28.0	28.0	361.0	71.5	12.5	33.0	22.0
Merged-chr19-5705088-4	chr19	5704999	5705199	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010609, intron 1 of 2)	intron (NM_010609, intron 1 of 2)	628.0	NM_010609	16530.0	Mm.440033	NM_010609	ENSMUSG00000024936	Kcnk7	2310014G03Rik|Kcnk6|Kcnk8|Knot|Mlk3	potassium channel, subfamily K, member 7	protein-coding	17.5	24.0	26.0	224.5	37.0	19.0	20.0	13.5
Merged-chr12-77238038-4	chr12	77237949	77238149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016893)	promoter-TSS (NM_016893)	-55.0	NM_001252614	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	56.0	88.0	65.0	906.0	132.0	39.5	69.5	66.5
Merged-chr10-59283378-4	chr10	59283273	59283473	+	915.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-39923.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	24.5	20.0	13.5	255.0	26.0	22.0	14.5	22.0
Merged-chr12-55474034-4	chr12	55473941	55474141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18606.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	96.5	133.0	152.5	1446.0	218.0	94.0	87.5	87.0
Merged-chr15-95797803-4	chr15	95797696	95797896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175344, intron 1 of 19)	intron (NM_175344, intron 1 of 19)	6953.0	NM_001253813	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	27.5	30.5	24.5	394.5	59.0	8.0	28.0	13.5
Merged-chr15-75642455-4	chr15	75642342	75642542	+	939.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	25758.0	NM_011759	22701.0	Mm.87210	NM_011759	ENSMUSG00000047003	Zfp41	CTfin92|Zfp-41	zinc finger protein 41	protein-coding	22.0	12.5	14.0	234.0	33.0	8.5	12.0	16.0
Merged-chr18-80714998-4	chr18	80714915	80715115	+	896.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1944.0	NM_001164110	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	15.5	10.0	19.0	252.0	18.0	12.5	19.0	10.0
Merged-chr4-59058150-1	chr4	59058050	59058250	+	650.0	f0_balb.idr	Intergenic	Intergenic	22994.0	NM_025277	14700.0	Mm.41780	NM_025277	ENSMUSG00000038607	Gng10	AV006524	guanine nucleotide binding protein (G protein), gamma 10	protein-coding	8.5	4.0	12.0	112.5	8.0	4.5	6.0	7.0
Merged-chr9-73113466-4	chr9	73113341	73113541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198609)	promoter-TSS (NM_198609)	-28.0	NM_198609	225215.0	Mm.379366	NM_198609	ENSMUSG00000032215	Rsl24d1	2410159K22Rik	ribosomal L24 domain containing 1	protein-coding	61.0	69.0	36.0	627.0	197.0	70.0	78.5	82.5
Merged-chr5-110396769-2	chr5	110396669	110396869	+	830.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001142642, intron 4 of 18)	intron (NM_001142642, intron 4 of 18)	-9642.0	NM_028596	381668.0	Mm.348782	NM_028596	ENSMUSG00000043323	Fbrsl1	2410025L10Rik|AI467568|Gm1049|Gm29766|mKIAA1545	fibrosin-like 1	protein-coding	2.0	2.0	4.0	79.5	7.0	5.0	5.0	5.0
Merged-chr15-83563566-4	chr15	83563472	83563672	+	889.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009775)	promoter-TSS (NM_009775)	-1.0	NM_009775	12257.0	Mm.1508	NM_009775	ENSMUSG00000041736	Tspo	Bzrp|IBP|PBR|Tspo1	translocator protein	protein-coding	10.5	17.5	9.0	143.0	36.5	12.0	19.0	18.5
Merged-chr10-18237435-3	chr10	18237332	18237532	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2451.0	NM_144820	215814.0	Mm.296565	NM_144820	ENSMUSG00000059554	Ccdc28a	1700009P13Rik|AI480677	coiled-coil domain containing 28A	protein-coding	23.0	33.5	29.0	226.0	28.0	6.5	7.5	6.0
Merged-chr18-10181490-4	chr18	10181386	10181586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009071, exon 1 of 33)	5' UTR (NM_009071, exon 1 of 33)	306.0	NM_009071	19877.0	Mm.6710	NM_009071	ENSMUSG00000024290	Rock1	1110055K06Rik|Rock-I	Rho-associated coiled-coil containing protein kinase 1	protein-coding	35.5	39.5	49.0	343.0	63.5	27.5	21.0	38.0
Merged-chr6-38913103-4	chr6	38913005	38913205	+	983.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5881.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	42.5	18.5	47.0	901.0	50.0	9.5	23.0	32.5
Merged-chr1-138928959-4	chr1	138928858	138929058	+	978.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34751.0	NM_001166501	329260.0	Mm.337604	NM_181347	ENSMUSG00000056268	Dennd1b	4632404N19Rik|4930467M19Rik|6820401H01Rik|F730008N07Rik	DENN/MADD domain containing 1B	protein-coding	35.5	24.5	25.0	358.0	38.0	21.5	20.5	14.0
Merged-chr6-123263382-4	chr6	123263279	123263479	+	748.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163161, intron 1 of 5)	intron (NM_001163161, intron 1 of 5)	1272.0	NM_010819	17474.0	Mm.441101	NM_010819	ENSMUSG00000030144	Clec4d	Clecsf8|Mpcl|mcl	C-type lectin domain family 4, member d	protein-coding	10.0	21.5	8.5	95.0	34.5	17.5	6.5	12.0
Merged-chr2-77288296-3	chr2	77288200	77288400	+	862.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7708.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	13.5	16.5	1.0	81.0	28.0	5.0	5.0	7.0
Merged-chr1-136569736-4	chr1	136569650	136569850	+	982.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55151.0	NM_177643	226442.0	Mm.62521	NM_177643	ENSMUSG00000041483	Zfp281	Znf281	zinc finger protein 281	protein-coding	12.5	28.5	23.5	285.5	30.0	10.0	18.5	25.5
Merged-chr7-115063129-3	chr7	115063019	115063219	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111845.0	NR_040319	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	43.0	46.0	41.5	795.5	9.5	4.5	12.0	6.0
Merged-chr8-18936405-4	chr8	18936311	18936511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176951, intron 6 of 6)	intron (NM_176951, intron 6 of 6)	14460.0	NM_001286469	319581.0	Mm.111354	NM_176951	ENSMUSG00000039814	Xkr5	5430438H03Rik|XRG5	X-linked Kx blood group related 5	protein-coding	173.5	243.5	215.0	3070.5	472.5	179.5	223.5	159.5
Merged-chr15-31418227-4	chr15	31418155	31418355	+	965.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35434.0	NM_145852	252967.0	Mm.436668	NM_145852	ENSMUSG00000022236	Ropn1l	ASP|AV047578|Akapasp	ropporin 1-like	protein-coding	30.5	31.5	26.5	616.5	34.0	19.0	29.5	25.0
Merged-chr11-118275242-4	chr11	118275120	118275320	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033528, intron 9 of 20)	intron (NM_001033528, intron 9 of 20)	15024.0	NM_001033528	72344.0	Mm.232293	NM_001033528	ENSMUSG00000033909	Usp36	2700002L06Rik|mKIAA1453	ubiquitin specific peptidase 36	protein-coding	33.0	46.0	20.0	404.0	52.0	15.0	14.0	36.0
Merged-chr1-88587562-4	chr1	88587463	88587663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36046.0	NR_037971	100503197.0	Mm.99352	NR_037971	ENSMUSG00000100798	Gm19589	-	predicted gene, 19589	ncRNA	397.5	504.0	362.0	5268.5	790.5	311.5	428.0	420.0
Merged-chr19-37375803-2	chr19	37375703	37375903	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010615)	promoter-TSS (NM_010615)	-600.0	NM_010615	16551.0	Mm.42203	NM_010615	ENSMUSG00000012443	Kif11	Eg5|Kif8|Kifl1|Knsl1	kinesin family member 11	protein-coding	6.0	5.0	10.0	46.0	15.0	4.5	7.5	15.5
Merged-chr6-50291896-4	chr6	50291806	50292006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30137.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	22.5	27.5	21.0	436.5	58.0	23.5	35.0	22.5
Merged-chr19-29468842-4	chr19	29468755	29468955	+	976.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	intron (NM_021396, intron 5 of 5)	53132.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	37.0	75.0	29.0	272.0	107.5	37.0	26.5	16.5
Merged-chr17-24937044-4	chr17	24936912	24937112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163447)	promoter-TSS (NM_001163447)	-35.0	NM_013931	30957.0	Mm.43081	NM_013931	ENSMUSG00000024163	Mapk8ip3	BB120594|D17Wsu15e|JIP-3|JSAP1|JSAP1a|JSAP1b|JSAP1c|JSAP1d|Jip3|Syd2|mKIAA1066	mitogen-activated protein kinase 8 interacting protein 3	protein-coding	105.5	182.0	91.5	1819.5	225.5	105.0	107.5	99.0
Merged-chr13-9846974-4	chr13	9846870	9847070	+	850.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81649.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	10.0	5.5	20.0	111.5	30.5	8.0	11.5	12.0
Merged-chr7-132707865-3	chr7	132707770	132707970	+	824.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69046.0	NM_001347630	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	7.0	5.0	7.5	190.0	3.5	3.5	2.0	7.0
Merged-chr8-84928786-4	chr8	84928701	84928901	+	829.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019945, intron 6 of 25)	intron (NM_019945, intron 6 of 25)	8552.0	NM_019945	56527.0	Mm.154614	NM_019945	ENSMUSG00000053693	Mast1	9430008B02Rik|SAST|SAST170	microtubule associated serine/threonine kinase 1	protein-coding	3.5	10.5	5.0	109.0	31.5	9.0	7.5	10.0
Merged-chr11-78751669-4	chr11	78751528	78751728	+	926.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_197989, exon 1 of 1)	exon (NM_197989, exon 1 of 1)	101.0	NM_197989	69109.0	Mm.341420	NM_197989	ENSMUSG00000049489	Fam58b	1810009O10Rik|Ccnq|Fam58a	family with sequence similarity 58, member B	protein-coding	19.0	22.5	16.0	187.5	16.0	9.0	17.5	21.0
Merged-chr4-134160241-1	chr4	134160141	134160341	+	677.5	f0_c57.idr	intron (NM_144527, intron 3 of 13)	RLTR4_MM-int|LTR|ERV1	26844.0	NM_144527	70012.0	Mm.26542	NM_144527	ENSMUSG00000037443	Cep85	2410030J07Rik|AI173272|AI173504|Ccdc21	centrosomal protein 85	protein-coding	0.0	0.0	0.0	0.0	32.5	23.0	11.0	12.5
Merged-chr2-84523638-4	chr2	84523564	84523764	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16791.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	20.5	37.0	15.5	234.5	71.0	18.0	24.0	21.0
Merged-chr9-123021319-4	chr9	123021249	123021449	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025339)	promoter-TSS (NM_025339)	23.0	NM_001164823	66079.0	Mm.482265	NM_025339	ENSMUSG00000066233	Tmem42	0610027O18Rik|4933429E06Rik|AV003444|D9Ertd662e	transmembrane protein 42	protein-coding	50.0	81.5	45.5	1060.5	165.5	80.5	85.5	64.5
Merged-chr11-101982038-4	chr11	101981941	101982141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028207, intron 1 of 2)	intron (NM_028207, intron 1 of 2)	2750.0	NM_028207	72349.0	Mm.196295	NM_028207	ENSMUSG00000003518	Dusp3	2210015O03Rik|5031436O03Rik|T-DSP11|VHR	dual specificity phosphatase 3 (vaccinia virus phosphatase VH1-related)	protein-coding	91.0	168.5	52.0	917.0	348.5	151.0	140.5	140.5
Merged-chr2-69128986-4	chr2	69128881	69129081	+	956.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	AT_rich|Low_complexity|Low_complexity	-6819.0	NM_181547	329416.0	Mm.90047	NM_181547	ENSMUSG00000034738	Nostrin	Daip2|mDaIP2	nitric oxide synthase trafficker	protein-coding	20.0	32.0	14.5	436.0	56.5	14.0	56.0	54.5
Merged-chr2-92434608-3	chr2	92434508	92434708	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009963)	promoter-TSS (NM_009963)	-539.0	NM_009963	12953.0	Mm.254181	NM_009963	ENSMUSG00000068742	Cry2	AV006279|D130054K12Rik	cryptochrome 2 (photolyase-like)	protein-coding	26.5	42.0	16.0	407.0	55.5	32.5	21.5	34.5
Merged-chr17-26487375-4	chr17	26487259	26487459	+	928.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	21113.0	NM_013642	19252.0	Mm.239041	NM_013642	ENSMUSG00000024190	Dusp1	3CH134|MKP1|Ptpn16|U19515|erp|mkp-1	dual specificity phosphatase 1	protein-coding	10.5	20.0	14.5	209.0	36.5	6.0	15.5	16.5
Merged-chr16-10879704-4	chr16	10879594	10879794	+	925.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35103.0	NR_131135	545180.0	Mm.373756	NR_131135	ENSMUSG00000095369	Gm21859	-	predicted gene, 21859	ncRNA	14.0	26.0	6.5	176.5	39.5	5.0	18.0	22.0
Merged-chr9-84466936-3	chr9	84466828	84467028	+	819.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-307470.0	NR_040739	75253.0	Mm.401984	NR_040739	ENSMUSG00000099724	4930554C24Rik	-	RIKEN cDNA 4930554C24 gene	ncRNA	5.0	7.5	3.5	41.0	21.5	13.5	21.0	24.5
Merged-chr11-59544181-4	chr11	59544093	59544293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153314, intron 2 of 9)	intron (NR_153314, intron 2 of 9)	1507.0	NR_153314	216799.0	Mm.54174	NM_145827	ENSMUSG00000032691	Nlrp3	AGTAVPRL|AII/AVP|Cias1|FCAS|FCU|MWS|Mmig1|NALP3|Pypaf1	NLR family, pyrin domain containing 3	protein-coding	97.5	190.0	86.0	695.5	315.0	127.5	69.0	51.5
Merged-chr10-14210246-4	chr10	14210140	14210340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243861.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	43.5	54.0	38.0	631.5	115.0	29.5	41.5	30.5
Merged-chr6-123171770-2	chr6	123171670	123171870	+	961.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1253.0	NM_001004159	381809.0	Mm.333372	NM_001004159	ENSMUSG00000067767	Clec4b2	Aplra1|F830043G12Rik|mDCAR1	C-type lectin domain family 4, member b2	protein-coding	4.5	4.5	5.0	46.0	11.0	3.5	1.0	2.5
Merged-chr18-55548890-2	chr18	55548791	55548991	+	884.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-556300.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	6.0	10.5	5.5	35.0	8.0	4.0	3.0	2.5
Merged-chr16-4731613-2	chr16	4731513	4731713	+	640.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001136066, intron 1 of 5)	ORR1A3|LTR|ERVL-MaLR	5252.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	5.5	14.0	3.0	59.5	6.0	9.0	4.5	5.0
Merged-chr17-29492466-3	chr17	29492315	29492515	+	951.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008842, intron 4 of 5)	intron (NM_008842, intron 4 of 5)	1370.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	8.0	20.0	7.5	94.0	55.0	31.0	24.0	26.5
Merged-chr6-24530344-4	chr6	24530219	24530419	+	905.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080847, intron 1 of 9)	intron (NM_080847, intron 1 of 9)	2175.0	NM_080847	78910.0	Mm.160150	NM_080847	ENSMUSG00000029685	Asb15	4930400E23Rik|Asb-15	ankyrin repeat and SOCS box-containing 15	protein-coding	13.0	26.5	10.5	177.0	18.0	13.0	23.0	9.5
Merged-chr6-99522153-4	chr6	99522052	99522252	+	940.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-12329	-1159.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	12.5	7.0	20.5	207.0	39.5	9.0	12.5	15.5
Merged-chr11-69323282-3	chr11	69323167	69323367	+	860.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024206)	promoter-TSS (NM_001024206)	606.0	NM_172560	216846.0	Mm.28774	NM_172560	ENSMUSG00000032782	Cntrob	9830165K03Rik|Lip8|Nip2	centrobin, centrosomal BRCA2 interacting protein	protein-coding	11.5	6.0	6.5	86.0	17.0	6.0	6.0	10.0
Merged-chr7-90030362-1	chr7	90030262	90030462	+	837.0	f0_balb.idr	intron (NR_110365, intron 1 of 5)	intron (NR_110365, intron 1 of 5)	1203.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	9.0	23.0	13.0	119.5	18.5	10.0	15.0	8.0
Merged-chr7-141020619-3	chr7	141020525	141020725	+	880.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR51A_Mm|LTR|ERVK?	-3733.0	NM_001033632	213002.0	Mm.276440	NM_001033632	ENSMUSG00000059108	Ifitm6	A330075D07|Dspa2f|Fgls5|fragilis5	interferon induced transmembrane protein 6	protein-coding	8.0	6.0	8.5	116.0	10.5	5.0	8.0	4.5
Merged-chr5-113992464-4	chr5	113992352	113992552	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198109, intron 1 of 14)	L1MB8|LINE|L1	1305.0	NM_198109	231637.0	Mm.389682	NM_198109	ENSMUSG00000042121	Ssh1	AW551225|Gm1394|Gm1395|SSH-1|SSH-1L	slingshot protein phosphatase 1	protein-coding	38.0	54.5	26.0	559.0	102.0	32.0	45.5	34.0
Merged-chr1-14596192-4	chr1	14596097	14596297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx6|LINE|L1	159769.0	NM_001360810	17681.0	Mm.5820	NM_010827	ENSMUSG00000025930	Msc	MyoR|bHLHa22	musculin	protein-coding	64.5	81.5	65.0	1583.0	180.5	59.5	74.0	51.0
Merged-chr6-31220837-3	chr6	31220782	31220982	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040260, intron 1 of 5)	intron (NR_040260, intron 1 of 5)	531.0	NR_040259	73652.0	Mm.441297	NR_040257	ENSMUSG00000087380	2210408F21Rik	-	RIKEN cDNA 2210408F21 gene	ncRNA	11.5	18.5	4.0	127.5	27.5	11.5	13.0	13.5
Merged-chr11-50325745-4	chr11	50325629	50325829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007597)	promoter-TSS (NM_007597)	-56.0	NM_001110500	12330.0	Mm.248827	NM_007597	ENSMUSG00000020368	Canx	1110069N15Rik|AI988026|Cnx|D11Ertd153e	calnexin	protein-coding	241.5	400.0	194.0	2410.5	672.0	289.5	270.0	228.0
Merged-chr6-8510408-4	chr6	8510374	8510574	+	805.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133236, intron 1 of 7)	intron (NM_133236, intron 1 of 7)	874.0	NM_133236	170772.0	Mm.210787	NM_133236	ENSMUSG00000029638	Glcci1	2310047L21Rik|A130036A18Rik|Fam117c|Gig18|Tssn1	glucocorticoid induced transcript 1	protein-coding	5.5	10.0	19.0	103.0	19.5	6.5	3.0	7.5
Merged-chr3-55652540-4	chr3	55652442	55652642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 49 of 57)	intron (NM_030595, intron 49 of 57)	-129968.0	NM_010750	17116.0	Mm.440209	NM_010750	ENSMUSG00000056947	Mab21l1	AW047968	mab-21-like 1 (C. elegans)	protein-coding	73.0	91.0	147.5	2465.0	131.0	37.5	102.0	83.0
Merged-chr17-87984654-4	chr17	87984553	87984753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010830, exon 4 of 10)	exon (NM_010830, exon 4 of 10)	9603.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	45.0	52.5	49.5	816.0	89.5	39.5	57.0	33.0
Merged-chr7-143041695-4	chr7	143041610	143041810	+	921.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110355, intron 2 of 4)	intron (NR_110355, intron 2 of 4)	-11040.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	20.5	20.5	14.5	271.0	27.0	14.0	21.5	23.0
Merged-chr13-95845188-4	chr13	95845162	95845362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027711, intron 1 of 35)	PB1D10|SINE|Alu	46660.0	NM_027711	544963.0	Mm.38878	NM_027711	ENSMUSG00000021676	Iqgap2	4933417J23Rik|A630053O10|AI788777	IQ motif containing GTPase activating protein 2	protein-coding	32.5	63.0	20.5	452.5	85.0	36.5	44.0	47.5
Merged-chr11-87595630-3	chr11	87595544	87595744	+	913.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133215, intron 2 of 18)	CpG	3478.0	NM_133215	170749.0	Mm.399376	NM_133215	ENSMUSG00000018401	Mtmr4	AA596759|ESTM44|FYVE-DSP2|ZFYVE11|mKIAA0647	myotubularin related protein 4	protein-coding	9.5	13.0	13.0	115.5	23.5	13.5	8.0	8.5
Merged-chr4-55630909-2	chr4	55630794	55630994	+	668.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-98419.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	4.5	8.5	7.0	112.0	14.0	3.5	2.0	4.0
Merged-chr5-145114300-4	chr5	145114196	145114396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023142)	promoter-TSS (NM_023142)	40.0	NM_023142	11867.0	Mm.30010	NM_023142	ENSMUSG00000029622	Arpc1b	41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC	actin related protein 2/3 complex, subunit 1B	protein-coding	54.0	109.0	78.0	948.0	133.0	66.0	89.5	68.0
Merged-chr15-102617818-4	chr15	102617689	102617889	+	931.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310067, intron 1 of 11)	intron (NM_001310067, intron 1 of 11)	7675.0	NM_001310070	223922.0	Mm.208714	NM_146065	ENSMUSG00000099083	Atf7	1110012F10Rik|9430065F09Rik|AI549878|C130020M04Rik	activating transcription factor 7	protein-coding	9.0	12.5	7.5	202.0	37.0	18.0	8.5	14.0
Merged-chr13-102025879-3	chr13	102025728	102025928	+	750.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-257611.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	2.5	3.5	1.5	89.5	10.0	7.5	5.5	8.0
Merged-chr3-83899786-4	chr3	83899689	83899889	+	871.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172681, intron 33 of 34)	intron (NM_172681, intron 33 of 34)	-58181.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	5.0	19.5	9.0	98.5	23.0	13.5	13.5	17.0
Merged-chr11-46479498-4	chr11	46479397	46479597	+	904.19165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_134250, exon 7 of 7)	3' UTR (NM_134250, exon 7 of 7)	24566.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	18.5	16.0	14.5	423.0	20.0	10.5	19.0	10.0
Merged-chr8-4140259-4	chr8	4140145	4140345	+	864.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5509.0	NM_027343	70192.0	Mm.390006	NM_027343	ENSMUSG00000079168	Cd209g	2310066I10Rik|AI481039|SIGNR7	CD209g antigen	protein-coding	6.5	6.0	7.0	83.5	41.5	19.5	22.5	17.0
Merged-chr3-61416694-4	chr3	61416597	61416797	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52190.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	22.0	27.5	29.5	308.5	45.5	10.5	15.5	19.5
Merged-chr8-125596392-4	chr8	125596294	125596494	+	873.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015535, intron 2 of 2)	intron (NR_015535, intron 2 of 2)	11756.0	NR_015535	75930.0	Mm.195663	NR_015535	ENSMUSG00000110629	4930567H12Rik	4930579P07Rik	RIKEN cDNA 4930567H12 gene	ncRNA	13.5	14.0	14.0	145.0	32.5	22.5	11.0	10.5
Merged-chr17-56754781-4	chr17	56754700	56754900	+	795.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008738, intron 1 of 2)	intron (NM_008738, intron 1 of 2)	2748.0	NM_008738	18188.0	Mm.8074	NM_008738	ENSMUSG00000039481	Nrtn	NTN	neurturin	protein-coding	6.0	9.5	10.0	108.5	8.0	10.5	16.5	10.0
Merged-chr1-152903784-3	chr1	152903702	152903902	+	996.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-603	-1156.0	NM_001005507	226517.0	Mm.270775	NM_001005507	ENSMUSG00000042772	Smg7	9430023P16Rik|mKIAA0250	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	17.0	28.5	12.5	190.0	62.0	15.0	12.5	18.5
Merged-chr16-35898229-3	chr16	35898136	35898336	+	861.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	-26854.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	17.0	25.5	5.0	219.5	12.0	4.0	4.0	9.5
Merged-chr7-98314160-3	chr7	98314062	98314262	+	789.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360615, intron 1 of 10)	intron (NM_001360615, intron 1 of 10)	-4620.0	NM_025408	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	14.5	18.5	14.5	356.5	7.0	1.5	7.5	8.0
Merged-chr2-18677863-3	chr2	18677790	18677990	+	838.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007552, intron 1 of 9)	intron (NM_007552, intron 1 of 9)	872.0	NM_007552	12151.0	Mm.289584	NM_007552	ENSMUSG00000026739	Bmi1	AW546694|Bmi-1|Pcgf4	Bmi1 polycomb ring finger oncogene	protein-coding	4.0	14.0	4.5	83.5	12.5	7.5	6.5	11.5
Merged-chr2-129607101-4	chr2	129606952	129607152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	11590.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	14.0	16.0	20.0	358.5	41.0	13.5	19.5	17.0
Merged-chr5-81058360-4	chr5	81058259	81058459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 1 of 27)	intron (NM_198702, intron 1 of 27)	36766.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	55.0	57.5	81.5	1173.0	152.5	55.5	76.0	72.5
Merged-chr9-35124456-4	chr9	35124340	35124540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_027030)	TTS (NM_027030)	-7576.0	NM_009178	20443.0	Mm.275973	NM_009178	ENSMUSG00000032038	St3gal4	SIAT4-C|ST3Gal IV|ST3GalIV|Siat4c	ST3 beta-galactoside alpha-2,3-sialyltransferase 4	protein-coding	201.0	374.5	174.0	1604.0	329.0	159.5	137.5	90.0
Merged-chr7-122670992-4	chr7	122670882	122671082	+	927.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019430)	promoter-TSS (NM_019430)	-762.0	NM_019430	54376.0	Mm.444212	NM_019430	ENSMUSG00000066189	Cacng3	-	calcium channel, voltage-dependent, gamma subunit 3	protein-coding	10.0	21.5	10.0	209.5	55.5	12.5	27.5	18.0
Merged-chr2-119897528-3	chr2	119897426	119897626	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013720, intron 1 of 23)	CpG	298.0	NM_013720	29808.0	Mm.87532	NM_013720	ENSMUSG00000033943	Mga	AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5	MAX gene associated	protein-coding	58.5	101.5	54.0	730.5	171.5	57.0	68.0	93.0
Merged-chr7-107370613-3	chr7	107370510	107370710	+	724.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021889)	promoter-TSS (NM_021889)	-180.0	NM_021889	60510.0	Mm.302793	NM_021889	ENSMUSG00000062542	Syt9	-	synaptotagmin IX	protein-coding	4.5	11.5	12.0	124.0	1.5	0.0	0.5	1.0
Merged-chr10-127520502-6	chr10	127520367	127520567	+	885.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028230, intron 2 of 11)	intron (NM_028230, intron 2 of 11)	1977.0	NM_001252316	108037.0	Mm.29890	NM_028230	ENSMUSG00000025403	Shmt2	2700043D08Rik|AA408223|AA986903|SHMT	serine hydroxymethyltransferase 2 (mitochondrial)	protein-coding	7.5	12.0	5.0	36.0	21.0	2.0	3.0	1.5
Merged-chr6-99522810-4	chr6	99522709	99522909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG-12329	-1816.0	NM_001347345	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	40.5	58.0	51.5	296.5	73.0	32.5	23.5	22.5
Merged-chr11-79869986-4	chr11	79869880	79870080	+	950.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92407.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	16.0	21.0	22.0	292.5	48.5	8.5	13.5	22.5
Merged-chr11-47776051-1	chr11	47775951	47776151	+	607.0	f0_balb.idr	Intergenic	Intergenic	-396749.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	5.0	9.5	12.5	96.0	16.5	7.5	8.5	2.5
Merged-chr11-119354980-4	chr11	119354886	119355086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178743)	promoter-TSS (NM_178743)	524.0	NM_018822	27029.0	Mm.103788	NM_018822	ENSMUSG00000005043	Sgsh	4632406A19Rik	N-sulfoglucosamine sulfohydrolase (sulfamidase)	protein-coding	49.0	44.0	38.0	509.0	67.5	21.0	23.0	47.0
Merged-chr8-72151890-3	chr8	72151787	72151987	+	645.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001001491, exon 8 of 8)	3' UTR (NM_001001491, exon 8 of 8)	-9313.0	NM_023126	17274.0	Mm.162811	NM_023126	ENSMUSG00000003037	Rab8a	AA409338|Mel	RAB8A, member RAS oncogene family	protein-coding	10.0	13.0	7.5	92.5	17.5	6.0	6.0	6.5
Merged-chr8-117500384-3	chr8	117500264	117500464	+	844.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 1 of 32)	intron (NM_172285, intron 1 of 32)	2089.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	4.0	9.5	6.5	63.0	18.5	6.0	5.0	4.5
Merged-chr11-100931747-4	chr11	100931641	100931841	+	954.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213660, intron 1 of 23)	intron (NM_213660, intron 1 of 23)	7799.0	NM_213660	20848.0	Mm.249934	NM_011486	ENSMUSG00000004040	Stat3	1110034C02Rik|AW109958|Aprf	signal transducer and activator of transcription 3	protein-coding	20.0	20.5	13.5	137.5	54.0	25.0	17.0	17.0
Merged-chr4-101653624-4	chr4	101653536	101653736	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175036, intron 2 of 3)	MTD|LTR|ERVL-MaLR	5853.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	43.5	23.0	51.5	673.0	58.0	20.0	29.0	25.5
Merged-chr17-70985710-4	chr17	70985601	70985801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023402, intron 1 of 3)	intron (NM_023402, intron 1 of 3)	4815.0	NM_023402	67938.0	Mm.261329	NM_023402	ENSMUSG00000034868	Myl12b	1500001M02Rik|C77744|Mylc2b|RLC-B	myosin, light chain 12B, regulatory	protein-coding	24.0	32.0	25.5	328.5	69.5	23.0	37.0	30.0
Merged-chr2-155099641-3	chr2	155099594	155099794	+	649.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040634, intron 1 of 2)	intron (NR_040634, intron 1 of 2)	385.0	NR_040634	100504268.0	Mm.410858	NR_040634	ENSMUSG00000087254	2310005A03Rik	-	RIKEN cDNA 2310005A03 gene	ncRNA	7.5	5.5	6.5	140.0	15.5	4.5	4.0	6.0
Merged-chr4-48042895-4	chr4	48042816	48043016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2389.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	143.5	240.0	191.0	2081.5	585.5	210.5	288.0	230.5
Merged-chr17-66107071-4	chr17	66106992	66107192	+	897.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4454.0	NM_026833	68767.0	Mm.296545	NM_026833	ENSMUSG00000024101	Washc1	1110049F14Rik|ORF19|Wash|Wash1	WASH complex subunit 1	protein-coding	12.5	16.0	14.0	170.0	36.5	10.0	9.0	12.0
Merged-chr7-142098014-4	chr7	142097919	142098119	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2735.0	NM_008748	18218.0	Mm.39725	NM_008748	ENSMUSG00000037887	Dusp8	5530400B01Rik|AI593498|Nttp1	dual specificity phosphatase 8	protein-coding	16.5	20.5	9.5	279.5	39.5	13.5	23.0	12.0
Merged-chr19-11965554-4	chr19	11965445	11965645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033174)	promoter-TSS (NM_001033174)	-299.0	NM_001033174	76303.0	Mm.291279	NM_001033174	ENSMUSG00000024687	Osbp	1110018F06Rik|AW559088|mKIAA4220	oxysterol binding protein	protein-coding	415.0	650.0	457.0	5407.0	908.0	434.0	366.0	337.0
Merged-chr3-86141772-3	chr3	86141699	86141899	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_016959, exon 2 of 6)	exon (NM_016959, exon 2 of 6)	869.0	NM_016959	20091.0	Mm.391785	NM_016959	ENSMUSG00000028081	Rps3a1	Rps3a	ribosomal protein S3A1	protein-coding	2.5	4.0	8.5	58.0	16.5	10.5	5.0	10.5
Merged-chr3-121847287-10	chr3	121847177	121847377	+	740.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5b|LINE|L1	-31975.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	3.5	1.0	8.5	89.5	15.0	5.0	5.0	12.0
Merged-chr8-122431732-4	chr8	122431636	122431836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301284, intron 1 of 4)	intron (NM_001301284, intron 1 of 4)	1204.0	NM_001301284	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	32.0	51.0	25.5	300.0	74.0	16.0	28.5	27.0
Merged-chr13-100197161-4	chr13	100197056	100197256	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001126182, intron 1 of 15)	intron (NM_001126182, intron 1 of 15)	4966.0	NM_001126182	17948.0	Mm.89961	NM_010872	ENSMUSG00000078945	Naip2	Birc1b|Naip-rs6	NLR family, apoptosis inhibitory protein 2	protein-coding	39.0	50.5	29.0	278.5	82.5	19.0	26.5	31.0
Merged-chr1-80339710-1	chr1	80339610	80339810	+	580.0	f0_balb.idr	intron (NM_016716, intron 1 of 15)	intron (NM_016716, intron 1 of 15)	980.0	NM_001313728	26554.0	Mm.12665	NM_016716	ENSMUSG00000004364	Cul3	KIAA0617	cullin 3	protein-coding	10.0	9.5	16.5	66.0	22.0	6.0	4.5	6.0
Merged-chr5-139252234-4	chr5	139252122	139252322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026269)	promoter-TSS (NM_026269)	-102.0	NM_001359238	67604.0	Mm.270137	NM_026269	ENSMUSG00000025858	Get4	1110007L15Rik|AW412535|Cee	golgi to ER traffic protein 4	protein-coding	141.0	234.0	89.0	1145.0	420.5	191.5	133.5	113.0
Merged-chr17-24480666-3	chr17	24480488	24480688	+	773.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1510.0	NM_019988	56716.0	Mm.289516	NM_019988	ENSMUSG00000024142	Mlst8	0610033N12Rik|AA409454|AI505104|AI851821|Gbl	MTOR associated protein, LST8 homolog (S. cerevisiae)	protein-coding	8.0	16.5	5.5	95.5	17.5	1.5	7.5	9.5
Merged-chr3-116808755-4	chr3	116808668	116808868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081326)	promoter-TSS (NM_001081326)	-602.0	NM_001081326	77559.0	Mm.237099	NM_001081326	ENSMUSG00000033400	Agl	1110061O17Rik|9430004C13Rik|9630046L06Rik|AI850929|C77197	amylo-1,6-glucosidase, 4-alpha-glucanotransferase	protein-coding	37.5	51.0	41.0	704.5	132.5	26.0	59.0	42.0
Merged-chr4-3986322-4	chr4	3986226	3986426	+	867.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	33337.0	NM_181989	242285.0	Mm.98096	NM_181989	ENSMUSG00000028236	Sdr16c5	Rdhe2|Scdr9	short chain dehydrogenase/reductase family 16C, member 5	protein-coding	20.0	20.5	19.5	469.0	52.5	7.5	27.5	12.5
Merged-chr9-48984523-3	chr9	48984371	48984571	+	936.977783	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175482)	promoter-TSS (NM_175482)	-914.0	NM_001359739	235323.0	Mm.21630	NM_175482	ENSMUSG00000032267	Usp28	9830148O20Rik|AU022237|mKIAA1515	ubiquitin specific peptidase 28	protein-coding	11.0	24.0	13.5	121.5	16.5	6.0	8.0	11.0
Merged-chr2-73553064-4	chr2	73552970	73553170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23583.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	66.5	101.5	48.0	617.5	116.5	49.5	47.5	35.5
Merged-chr2-155050404-2	chr2	155050304	155050504	+	989.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_015770, intron 3 of 3)	intron (NM_015770, intron 3 of 3)	24093.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	6.0	8.5	6.5	46.0	16.0	4.5	9.0	9.0
Merged-chr6-120056340-4	chr6	120056236	120056436	+	828.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17681.0	NM_001185021	232341.0	Mm.333349	NM_198703	ENSMUSG00000045962	Wnk1	6430573H23Rik|EG406236|Hsn2|Prkwnk1|mKIAA0344	WNK lysine deficient protein kinase 1	protein-coding	13.0	6.0	17.0	119.0	32.5	8.5	11.0	7.5
Merged-chr15-99342820-4	chr15	99342722	99342922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310622, intron 1 of 25)	intron (NM_001310622, intron 1 of 25)	27660.0	NM_001310623	22379.0	Mm.29043	NM_011711	ENSMUSG00000023008	Fmnl3	2700073B04Rik|FBP11|Wbp3|mKIAA2014	formin-like 3	protein-coding	63.0	150.5	39.0	347.5	124.0	39.0	29.5	27.5
Merged-chr2-118567388-4	chr2	118567270	118567470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17684.0	NM_138313	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	59.0	59.0	21.5	592.5	119.5	35.0	49.5	35.0
Merged-chr11-85710365-4	chr11	85710265	85710465	+	967.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045875, intron 1 of 5)	intron (NR_045875, intron 1 of 5)	9379.0	NR_045875	71489.0	Mm.442482	NR_045875	ENSMUSG00000086199	Bcas3os1	8430403D17Rik	breast carcinoma amplified sequence 3, opposite strand 1	ncRNA	15.5	17.5	21.5	735.5	46.0	8.5	26.0	18.0
Merged-chr2-57102706-2	chr2	57102606	57102806	+	895.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	12332.0	NM_013613	18227.0	Mm.3507	NM_013613	ENSMUSG00000026826	Nr4a2	HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR	nuclear receptor subfamily 4, group A, member 2	protein-coding	2.0	13.5	9.0	57.5	10.0	9.0	8.5	7.0
Merged-chr17-40880454-4	chr17	40880343	40880543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027834, exon 1 of 2)	exon (NM_027834, exon 1 of 2)	115.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	26.0	28.5	48.5	385.5	78.0	29.5	41.5	43.0
Merged-chr17-46154523-4	chr17	46154420	46154620	+	921.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025649)	promoter-TSS (NM_025649)	-969.0	NM_025649	66591.0	Mm.272024	NM_025649	ENSMUSG00000034509	Mad2l1bp	0610009D16Rik|2510031P20Rik|AU018945|AW550977|C76045|CMT2A|CMT2B|Mad2lbp|mKIAA0110	MAD2L1 binding protein	protein-coding	10.0	13.0	5.5	123.5	21.0	9.0	18.5	17.5
Merged-chr14-54908845-4	chr14	54908749	54908949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360406, exon 5 of 10)	exon (NM_001360406, exon 5 of 10)	4283.0	NM_001360406	59049.0	Mm.27435	NM_021551	ENSMUSG00000022199	Slc22a17	1700094C23Rik|24p3R|AU041908|AW555662|BOIT|Boct	solute carrier family 22 (organic cation transporter), member 17	protein-coding	53.0	57.5	23.5	460.5	100.5	24.5	39.0	73.5
Merged-chr5-140620225-2	chr5	140620125	140620325	+	814.25	f1_balb.idr|f1_c57bl6.idr	TTS (NM_175274)	TTS (NM_175274)	12884.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	5.5	9.0	4.5	40.5	9.5	3.5	2.5	9.0
Merged-chr18-64510257-4	chr18	64510179	64510379	+	958.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142950, intron 6 of 14)	intron (NM_001142950, intron 6 of 14)	6278.0	NM_027350	70223.0	Mm.29192	NM_027350	ENSMUSG00000024587	Nars	3010001M15Rik|AA960128|ASNRS|C78150	asparaginyl-tRNA synthetase	protein-coding	31.5	23.0	21.0	279.0	19.0	10.5	14.5	21.5
Merged-chr2-102154969-4	chr2	102154876	102155076	+	997.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178886, intron 1 of 5)	Charlie19a|DNA|hAT-Charlie	31484.0	NM_178886	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	28.5	47.5	44.0	417.0	38.5	9.0	17.5	23.0
Merged-chr17-78264594-6	chr17	78264484	78264684	+	953.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015800, intron 2 of 16)	Tigger12A|DNA|TcMar-Tigger	64336.0	NM_015800	50766.0	Mm.311912	NM_015800	ENSMUSG00000024074	Crim1	AU015004	cysteine rich transmembrane BMP regulator 1 (chordin like)	protein-coding	10.0	14.0	10.0	78.0	14.0	8.0	5.0	5.5
Merged-chr7-101563207-3	chr7	101563111	101563311	+	759.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-2346.0	NR_033804	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	0.0	1.0	1.0	8.5	50.0	12.5	11.5	10.0
Merged-chr1-180568913-4	chr1	180568805	180569005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007415)	promoter-TSS (NM_007415)	14.0	NM_007415	11545.0	Mm.277779	NM_007415	ENSMUSG00000026496	Parp1	5830444G22Rik|AI893648|ARTD1|Adprp|Adprt1|C80510|PARP|PPOL|msPARP|parp-1|sPARP-1	poly (ADP-ribose) polymerase family, member 1	protein-coding	87.0	98.0	42.5	958.0	196.5	62.5	100.5	63.5
Merged-chr18-60752183-4	chr18	60752089	60752289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3524.0	NM_008306	15531.0	Mm.181862	NM_008306	ENSMUSG00000054008	Ndst1	1200015G06Rik|HSNST|HSNST 1|Hsst|N-HSST|N-HSST 1|NDST-1|b2b2230Clo	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	protein-coding	51.0	74.0	81.0	1864.0	100.0	32.5	55.5	59.0
Merged-chr4-147938917-3	chr4	147938822	147939022	+	944.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1973.0	NM_029841	77034.0	Mm.183076	NM_029841	ENSMUSG00000044496	2510039O18Rik	Kiaa2013	RIKEN cDNA 2510039O18 gene	protein-coding	11.5	9.5	10.5	128.0	12.0	3.5	6.5	4.5
Merged-chr11-89093314-3	chr11	89093227	89093427	+	858.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001033266)	TTS (NM_001033266)	19486.0	NM_001033266	217071.0	Mm.342127	NM_001033266	ENSMUSG00000072553	Gm525	-	predicted gene 525	protein-coding	12.5	23.5	11.0	168.0	21.5	8.5	6.5	16.0
Merged-chr7-74554268-2	chr7	74554168	74554368	+	616.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001038643, intron 1 of 10)	CpG	512.0	NM_023908	108116.0	Mm.425467	NM_023908	ENSMUSG00000025790	Slco3a1	5830414C08Rik|Anr1|MJAM|OATP-D|R75096|Slc21a11	solute carrier organic anion transporter family, member 3a1	protein-coding	2.5	5.0	2.5	45.0	17.5	5.0	5.0	7.0
Merged-chr12-111438083-1	chr12	111437983	111438183	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-4578.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	28.5	65.0	53.5	661.5	89.5	38.5	46.0	49.5
Merged-chr1-170162005-4	chr1	170161907	170162107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133806, intron 2 of 10)	intron (NM_133806, intron 2 of 10)	12957.0	NM_133806	107652.0	Mm.27969	NM_133806	ENSMUSG00000026670	Uap1	AA420407|AA437972|AGX-1|AGX-2|AGX1|AgX|ESTM38|SPAG2	UDP-N-acetylglucosamine pyrophosphorylase 1	protein-coding	32.0	25.0	28.5	589.5	48.5	21.0	25.5	28.5
Merged-chr2-155050916-4	chr2	155050871	155051071	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_015770)	TTS (NM_015770)	23526.0	NM_016661	269378.0	Mm.330692	NM_016661	ENSMUSG00000027597	Ahcy	AA987153|AL024110|CuBP|SAHH	S-adenosylhomocysteine hydrolase	protein-coding	58.5	68.5	68.5	443.5	63.5	38.5	26.0	67.5
Merged-chr18-84355445-4	chr18	84355342	84355542	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033341, intron 4 of 8)	intron (NM_001033341, intron 4 of 8)	234062.0	NM_001033341	240476.0	Mm.329575	NM_001033341	ENSMUSG00000048410	Zfp407	6430585N13Rik|Gm333|Gm334|Gm948|ZNF407	zinc finger protein 407	protein-coding	55.5	68.5	63.0	982.5	111.0	50.0	71.5	61.5
Merged-chr5-134313658-4	chr5	134313564	134313764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359066, intron 1 of 32)	CpG	1096.0	NM_001359063	14886.0	Mm.261570	NM_010365	ENSMUSG00000060261	Gtf2i	6030441I21Rik|BAP-135|Diws1t|GtfII-I|Spin|TFII-I|WBSCR6	general transcription factor II I	protein-coding	55.0	62.5	46.5	558.5	106.5	33.5	45.5	44.5
Merged-chr4-99194698-4	chr4	99194612	99194812	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 1 of 10)	intron (NM_175029, intron 1 of 10)	565.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	14.5	29.5	26.5	380.0	54.5	14.5	35.0	21.0
Merged-chr7-49007097-4	chr7	49006983	49007183	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	48010.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	35.5	20.0	52.0	634.0	67.0	17.0	32.0	36.5
Merged-chr1-155447480-2	chr1	155447380	155447580	+	822.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30036.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	3.0	4.5	3.0	109.5	13.0	9.5	14.5	8.0
Merged-chr12-119377062-4	chr12	119376913	119377113	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66397.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	9.0	39.0	12.0	192.0	71.5	30.5	22.5	13.5
Merged-chr7-35140054-4	chr7	35139951	35140151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20758.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	31.0	47.0	51.5	1049.0	110.5	35.5	48.0	61.0
Merged-chr13-117034019-7	chr13	117033909	117034109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-8493.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	23.0	23.5	49.0	422.0	55.5	29.5	19.5	34.0
Merged-chr11-103178320-4	chr11	103178204	103178404	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019679, intron 1 of 26)	intron (NM_019679, intron 1 of 26)	7166.0	NM_019679	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	27.0	48.5	34.0	400.5	33.0	18.0	22.0	19.5
Merged-chr6-4808844-4	chr6	4808743	4808943	+	887.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER89-int|LTR|ERV1	61537.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	11.5	22.5	25.0	222.0	33.5	5.5	8.0	11.5
Merged-chr15-31613920-4	chr15	31613802	31614002	+	962.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356313, intron 5 of 5)	intron (NM_001356313, intron 5 of 5)	11786.0	NM_001356313	68073.0	Mm.119185	NM_026546	ENSMUSG00000039065	Fam173b	A930016P21Rik|AA987072	family with sequence similarity 173, member B	protein-coding	20.5	18.5	22.0	282.0	38.5	16.0	24.0	16.0
Merged-chr2-117996894-4	chr2	117996779	117996979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	114323.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	62.5	95.5	63.5	918.0	171.0	64.5	102.5	77.5
Merged-chr2-129183980-4	chr2	129183879	129184079	+	690.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3306.0	NR_045264	100048701.0	Mm.428544	NR_045264	ENSMUSG00000084826	AI847159	-	expressed sequence AI847159	ncRNA	12.5	5.5	11.0	74.5	32.5	6.5	5.0	5.0
Merged-chr7-25719490-4	chr7	25719385	25719585	+	976.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028771)	promoter-TSS (NM_028771)	-432.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	37.5	54.5	11.0	327.5	76.0	33.0	10.5	18.0
Merged-chr16-38712898-4	chr16	38712780	38712980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_020260, exon 1 of 12)	5' UTR (NM_020260, exon 1 of 12)	155.0	NM_020260	12549.0	Mm.370848	NM_020260	ENSMUSG00000022799	Arhgap31	5830477L08Rik|AU041750|Cdgap|D330026I07Rik	Rho GTPase activating protein 31	protein-coding	31.0	57.5	37.5	389.0	144.0	49.0	73.5	61.5
Merged-chr14-57407575-4	chr14	57407480	57407680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9097.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	42.0	89.5	44.0	699.0	75.5	25.5	36.5	35.5
Merged-chr6-88903449-1	chr6	88903349	88903549	+	680.0	f0_balb.idr	intron (NM_011906, intron 1 of 11)	intron (NM_011906, intron 1 of 11)	1198.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	9.0	17.5	4.5	16.0	25.0	7.0	11.5	8.5
Merged-chr1-88284182-6	chr1	88284116	88284316	+	807.273804	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6637.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	8.5	2.0	10.0	108.5	20.5	9.0	7.5	14.5
Merged-chr3-32398608-4	chr3	32398503	32398703	+	957.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32938.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	8.5	33.5	17.5	135.5	42.0	15.5	13.0	22.0
Merged-chr4-32268099-4	chr4	32267998	32268198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149337.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	23.5	42.0	31.5	848.0	78.0	25.0	42.5	30.5
Merged-chr2-92058663-4	chr2	92058580	92058780	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-34510.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	19.5	30.5	10.5	224.0	41.0	24.5	21.5	31.0
Merged-chr14-16457308-3	chr14	16457198	16457398	+	952.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289760, intron 5 of 9)	intron (NM_001289760, intron 5 of 9)	92092.0	NM_009409	21974.0	Mm.130362	NM_009409	ENSMUSG00000017485	Top2b	D230016L12Rik|Top-2	topoisomerase (DNA) II beta	protein-coding	16.5	14.0	15.0	283.5	16.5	8.5	10.5	12.5
Merged-chr17-24758291-1	chr17	24758191	24758391	+	638.5	f0_balb.idr	exon (NM_001357340, exon 3 of 3)	exon (NM_001357340, exon 3 of 3)	5303.0	NM_001357340	328779.0	Mm.328848	NM_001012402	ENSMUSG00000039628	Hs3st6	3-OST-6	heparan sulfate (glucosamine) 3-O-sulfotransferase 6	protein-coding	11.5	7.5	6.0	88.5	3.0	3.0	1.5	1.0
Merged-chr12-83862014-4	chr12	83861896	83862096	+	926.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073564, intron 2 of 12)	intron (NR_073564, intron 2 of 12)	14816.0	NM_001272056	18222.0	Mm.4390	NM_010949	ENSMUSG00000021224	Numb	Nb	NUMB endocytic adaptor protein	protein-coding	5.5	21.5	12.5	171.5	30.5	5.5	5.0	24.0
Merged-chr10-95529671-3	chr10	95529600	95529800	+	811.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080560, intron 1 of 3)	intron (NM_080560, intron 1 of 3)	14538.0	NM_080560	93765.0	Mm.371667	NM_080560	ENSMUSG00000074781	Ube2n	1500026J17Rik|AL022654|BB101821|UBC13	ubiquitin-conjugating enzyme E2N	protein-coding	10.5	4.5	1.5	96.0	10.0	9.5	9.5	6.0
Merged-chr11-85310793-4	chr11	85310697	85310897	+	979.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016910)	promoter-TSS (NM_016910)	-457.0	NM_016910	53892.0	Mm.45609	NM_016910	ENSMUSG00000020525	Ppm1d	AV338790|Wip1	protein phosphatase 1D magnesium-dependent, delta isoform	protein-coding	11.0	37.5	10.5	182.0	39.0	13.0	13.5	24.0
Merged-chr19-11807449-3	chr19	11807347	11807547	+	966.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011502, intron 1 of 10)	intron (NM_011502, intron 1 of 10)	11956.0	NM_001286543	20908.0	Mm.272264	NM_011502	ENSMUSG00000041488	Stx3	Syn-3	syntaxin 3	protein-coding	18.0	16.0	20.5	195.5	12.5	5.0	15.0	13.0
Merged-chr10-20882804-4	chr10	20882711	20882911	+	719.633301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69736.0	NM_026203	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	9.5	10.5	16.0	152.0	26.5	12.0	12.0	8.5
Merged-chr5-92528759-4	chr5	92528658	92528858	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23101.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	34.5	27.5	29.5	561.5	51.0	22.0	26.0	35.0
Merged-chr4-145239444-4	chr4	145239323	145239523	+	893.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	7447.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	10.0	16.5	2.5	143.5	21.0	11.0	6.0	4.5
Merged-chr15-57773384-2	chr15	57773284	57773484	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_199449, intron 2 of 3)	intron (NM_199449, intron 2 of 3)	78717.0	NM_199449	387609.0	Mm.36557	NM_199449	ENSMUSG00000071757	Zhx2	Afr-1|Afr1|Raf|mKIAA0854	zinc fingers and homeoboxes 2	protein-coding	6.0	4.0	3.0	18.5	16.0	6.5	9.0	8.5
Merged-chr13-9181231-4	chr13	9181129	9181329	+	981.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87348.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	8.5	35.0	27.5	301.5	76.0	23.0	20.5	19.5
Merged-chr4-62661717-4	chr4	62661621	62661821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134257, intron 10 of 15)	intron (NM_134257, intron 10 of 15)	-12253.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	85.5	122.0	80.5	1503.5	165.0	43.5	74.0	55.5
Merged-chr1-156002012-4	chr1	156001888	156002088	+	905.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-28733.0	NM_001039184	74081.0	Mm.260247	NM_001039184	ENSMUSG00000033671	Cep350	4933409L06Rik|6430546F08Rik	centrosomal protein 350	protein-coding	11.0	10.5	10.5	128.5	28.0	12.0	11.0	10.5
Merged-chr4-155943167-2	chr4	155943078	155943278	+	772.25	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039157)	promoter-TSS (NM_001039157)	-635.0	NM_001039158	140499.0	Mm.371673	NM_021402	ENSMUSG00000023286	Ube2j2	1200007B18Rik|2400008G19Rik|5730472G04Rik|AL022923|NCUBE-2|Ubc6|Ubc6p	ubiquitin-conjugating enzyme E2J 2	protein-coding	8.5	7.0	4.5	62.0	13.0	3.0	9.0	2.0
Merged-chr9-99180507-4	chr9	99180435	99180635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40324.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	60.0	67.5	58.0	1035.5	135.0	30.5	57.0	47.5
Merged-chr5-112341523-4	chr5	112341422	112341622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153106, intron 1 of 6)	intron (NR_153106, intron 1 of 6)	1518.0	NM_001359388	70118.0	Mm.172947	NM_027323	ENSMUSG00000029346	Srrd	2810002G02Rik|Srr1	SRR1 domain containing	protein-coding	67.5	75.0	60.5	957.5	191.5	54.0	67.5	69.0
Merged-chr6-70824659-4	chr6	70824561	70824761	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19854.0	NM_010121	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	86.0	103.0	76.5	1378.5	179.5	61.0	88.5	45.0
Merged-chr14-103471413-2	chr14	103471313	103471513	+	764.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41928.0	NM_022886	64929.0	Mm.244003	NM_022886	ENSMUSG00000022123	Scel	9230114I02Rik	sciellin	protein-coding	2.0	6.5	2.5	48.5	9.5	6.0	8.0	4.5
Merged-chr2-181864346-4	chr2	181864244	181864444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025901)	promoter-TSS (NM_025901)	-16.0	NM_025901	67005.0	Mm.271986	NM_025901	ENSMUSG00000038628	Polr3k	12.3kDa|1500004O14Rik|AI196849|AU014893|C11|RPC10|RPC11	polymerase (RNA) III (DNA directed) polypeptide K	protein-coding	244.0	327.0	228.5	4043.0	465.0	158.0	233.5	206.5
Merged-chr10-98612115-4	chr10	98611954	98612154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-260187.0	NR_045179	667438.0	Mm.414522	NR_045179	ENSMUSG00000112896	Gm8633	EG667438	predicted gene 8633	ncRNA	49.5	99.5	40.5	388.5	132.5	32.0	31.5	21.5
Merged-chr7-14533664-3	chr7	14533571	14533771	+	926.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045120, intron 12 of 12)	intron (NR_045120, intron 12 of 12)	28500.0	NM_001244031	627280.0	Mm.372763	NM_001039146	ENSMUSG00000100586	Vmn1r90	B430211C08Rik	vomeronasal 1 receptor 90	protein-coding	6.5	13.5	9.5	227.0	41.0	7.0	8.0	8.5
Merged-chr7-96153226-3	chr7	96153138	96153338	+	788.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18006.0	NM_001310762	23966.0	Mm.254610	NM_011858	ENSMUSG00000048078	Tenm4	Doc4|ELM2|Odz4|R75022|Ten-m4|l(7)-3Rn|l7Rn3|mKIAA1302	teneurin transmembrane protein 4	protein-coding	8.5	12.5	17.0	183.0	2.0	1.0	0.5	2.5
Merged-chr4-16162253-5	chr4	16162145	16162345	+	930.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138102, intron 1 of 11)	intron (NR_138102, intron 1 of 11)	1398.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	5.0	14.0	2.5	100.5	21.5	10.0	11.5	12.5
Merged-chr7-28467617-3	chr7	28467538	28467738	+	698.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001141921)	TTS (NM_001141921)	15400.0	NM_001141921	80749.0	Mm.483073	NM_030562	ENSMUSG00000030600	Lrfn1	BC004018|SALM2|Semo1	leucine rich repeat and fibronectin type III domain containing 1	protein-coding	7.5	7.0	3.0	99.0	7.5	6.0	8.0	4.5
Merged-chr16-4757668-4	chr16	4757564	4757764	+	919.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357050, intron 1 of 5)	intron (NM_001357050, intron 1 of 5)	718.0	NM_001357050	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	19.0	13.5	14.0	260.5	43.0	2.5	19.0	13.0
Merged-chr2-101175314-4	chr2	101175212	101175412	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-449436.0	NM_009020	19374.0	Mm.4988	NM_009020	ENSMUSG00000032864	Rag2	Rag-2	recombination activating gene 2	protein-coding	78.0	103.5	75.5	1459.0	137.0	28.5	80.5	61.5
Merged-chr3-30793294-4	chr3	30793213	30793413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_027016, exon 1 of 8)	5' UTR (NM_027016, exon 1 of 8)	437.0	NM_001357528	69276.0	Mm.26017	NM_027016	ENSMUSG00000027706	Sec62	3100002M17Rik|AI844545|AW545092|Dtrp1|HTP1|Tloc1	SEC62 homolog (S. cerevisiae)	protein-coding	68.5	103.5	75.5	1333.5	315.5	119.5	102.0	105.0
Merged-chr5-137531911-4	chr5	137531902	137532102	+	857.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010312, intron 1 of 9)	intron (NM_010312, intron 1 of 9)	1304.0	NM_010312	14693.0	Mm.30141	NM_010312	ENSMUSG00000029713	Gnb2	Gnb-2	guanine nucleotide binding protein (G protein), beta 2	protein-coding	12.5	10.5	5.0	75.0	20.5	11.5	4.5	13.0
Merged-chr14-47393919-3	chr14	47393826	47394026	+	843.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144553, intron 15 of 18)	PB1|SINE|Alu	20066.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	6.0	10.5	15.5	253.5	8.5	1.5	4.5	6.5
Merged-chr19-61004407-3	chr19	61004327	61004527	+	712.972229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018869, intron 2 of 15)	intron (NM_018869, intron 2 of 15)	114678.0	NM_018869	14773.0	Mm.279400	NM_018869	ENSMUSG00000003228	Grk5	Gprk5	G protein-coupled receptor kinase 5	protein-coding	12.5	8.0	11.0	164.5	3.5	1.0	2.5	0.5
Merged-chr5-122268729-3	chr5	122268626	122268826	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4266.0	NM_001039153	654470.0	Mm.28804	NM_001039153	ENSMUSG00000038593	Tctn1	G730031O11Rik|Tect1	tectonic family member 1	protein-coding	9.5	6.5	6.5	91.0	8.0	0.0	7.0	7.0
Merged-chr18-64758812-3	chr18	64758693	64758893	+	651.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-97793.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	5.5	12.5	6.5	55.0	25.5	6.5	7.5	12.0
Merged-chr5-129016629-1	chr5	129016529	129016729	+	598.0	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-3527.0	NM_009391	19384.0	Mm.297440	NM_009391	ENSMUSG00000029430	Ran	-	RAN, member RAS oncogene family	protein-coding	7.0	7.0	5.0	91.0	2.5	1.5	3.0	7.0
Merged-chr10-57794095-2	chr10	57793995	57794195	+	588.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020561)	promoter-TSS (NM_020561)	-449.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	6.5	6.0	5.5	66.0	4.0	6.0	3.0	2.5
Merged-chr10-127577098-2	chr10	127576998	127577198	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 22 of 88)	intron (NM_008512, intron 22 of 88)	-42539.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	2.0	4.0	4.0	73.5	6.0	6.0	10.5	9.5
Merged-chr10-81434132-4	chr10	81434007	81434207	+	895.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-6934.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	8.0	13.5	16.5	270.5	21.0	7.5	12.0	17.0
Merged-chr15-34775927-4	chr15	34775822	34776022	+	904.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61433.0	NM_181317	16539.0	Mm.71045	NM_181317	ENSMUSG00000050963	Kcns2	E130006J24Rik|Kv9.2	K+ voltage-gated channel, subfamily S, 2	protein-coding	8.0	8.5	6.0	193.5	28.5	7.5	16.5	18.0
Merged-chr11-94392931-4	chr11	94392839	94393039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029600)	promoter-TSS (NM_029600)	37.0	NM_029600	76408.0	Mm.23942	NM_029600	ENSMUSG00000020865	Abcc3	1700019L09Rik|ABC31|MLP2|MOAT-D|MRP3	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	protein-coding	43.5	47.5	44.0	674.0	55.0	23.5	30.5	23.0
Merged-chr16-85139472-4	chr16	85139378	85139578	+	936.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	intron (NM_001198825, intron 1 of 15)	34229.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	10.5	28.5	11.0	216.5	76.0	15.5	37.0	15.0
Merged-chr11-21237882-3	chr11	21237754	21237954	+	889.599976	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-1178.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	6.5	4.5	6.0	57.0	26.5	6.5	6.0	13.0
Merged-chr13-19690212-4	chr13	19690108	19690308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181591, exon 7 of 17)	exon (NM_181591, exon 7 of 17)	7552.0	NM_001167909	73412.0	Mm.279939	NM_181591	ENSMUSG00000041138	Nme8	1700056P15Rik|Sptrx-2|Txndc3	NME/NM23 family member 8	protein-coding	58.0	65.5	36.5	619.5	154.5	46.0	44.0	52.0
Merged-chr6-17625202-2	chr6	17625113	17625313	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-11797.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	5.5	11.0	6.0	64.0	6.5	1.0	3.5	6.5
Merged-chr18-46313317-4	chr18	46313228	46313428	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1400.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	45.0	48.0	44.5	644.5	35.5	10.5	14.5	8.5
Merged-chr11-106122158-4	chr11	106122055	106122255	+	831.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 5 of 15)	(TTTTG)n|Simple_repeat|Simple_repeat	37253.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	12.5	11.0	13.0	119.5	26.5	12.0	15.5	9.5
Merged-chr14-25460298-4	chr14	25460207	25460407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183208, intron 1 of 23)	CpG	1122.0	NM_183208	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	49.5	71.5	37.5	515.5	99.0	30.0	42.5	32.0
Merged-chr10-70097988-4	chr10	70097897	70098097	+	823.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111121, intron 1 of 8)	CpG	876.0	NM_001111121	76551.0	Mm.281741	NM_001111121	ENSMUSG00000048701	Ccdc6	2810012H18Rik|AA536681|AA960498|AW061011	coiled-coil domain containing 6	protein-coding	13.5	12.5	19.0	105.0	31.5	11.0	7.5	10.0
Merged-chr13-55696207-3	chr13	55696116	55696316	+	928.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181278, intron 1 of 1)	B4A|SINE|B4	3092.0	NM_181278	78521.0	Mm.28449	NM_181278	ENSMUSG00000045767	B230219D22Rik	AA119856|D530037I19Rik	RIKEN cDNA B230219D22 gene	protein-coding	3.0	8.5	2.0	18.0	39.5	16.0	12.0	11.0
Merged-chr10-127610771-4	chr10	127610661	127610861	+	986.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 2 of 88)	intron (NM_008512, intron 2 of 88)	10387.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	21.0	26.0	24.0	393.5	34.5	6.5	13.0	22.5
Merged-chr19-28917992-4	chr19	28917894	28918094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45926.0	NM_028922	74411.0	Mm.441887	NM_028922	ENSMUSG00000040105	Plpp6	4932443D16Rik|Ppapdc2	phospholipid phosphatase 6	protein-coding	92.0	219.0	116.5	1820.5	503.5	172.5	198.5	143.0
Merged-chr8-66861120-4	chr8	66861022	66861222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163564, intron 1 of 7)	CpG	905.0	NM_001163564	234344.0	Mm.334561	NM_001163564	ENSMUSG00000014907	Naf1	Gm174	nuclear assembly factor 1 ribonucleoprotein	protein-coding	19.0	17.5	28.0	380.0	60.0	26.0	34.0	36.5
Merged-chr19-47465642-4	chr19	47465547	47465747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1236.0	NM_008018	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	66.5	122.5	87.0	1330.5	105.5	24.0	56.5	67.0
Merged-chr12-98283678-4	chr12	98283583	98283783	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15048.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	36.5	40.5	31.0	425.5	84.0	31.5	23.0	25.0
Merged-chr1-144313565-4	chr1	144313471	144313671	+	932.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64467.0	NM_015811	50778.0	Mm.103701	NM_015811	ENSMUSG00000026358	Rgs1	BL34	regulator of G-protein signaling 1	protein-coding	14.5	19.0	13.0	410.5	55.5	12.0	30.5	21.0
Merged-chr11-83224927-3	chr11	83224826	83225026	+	846.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015519, intron 3 of 3)	RMER17C|LTR|ERVK	1350.0	NR_015519	100043636.0	Mm.295569	NR_015519	ENSMUSG00000087107	AI662270	AW496474	expressed sequence AI662270	ncRNA	11.0	9.0	3.0	68.5	21.5	11.5	5.5	4.5
Merged-chr13-43304302-4	chr13	43304202	43304402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033399)	promoter-TSS (NM_001033399)	-130.0	NM_001033399	328232.0	Mm.441399	NM_001033399	ENSMUSG00000051335	Gfod1	9630032O13|AI850995	glucose-fructose oxidoreductase domain containing 1	protein-coding	45.0	72.0	60.0	1128.5	127.5	47.5	81.5	78.0
Merged-chr2-27757242-2	chr2	27757142	27757342	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 8 of 9)	intron (NM_001290481, intron 8 of 9)	46659.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	5.0	9.5	3.5	120.5	10.0	4.5	5.0	8.5
Merged-chr8-86920527-1	chr8	86920427	86920627	+	662.5	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-35269.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	2.5	9.5	14.5	132.0	23.0	6.5	10.5	4.5
Merged-chr1-55026097-4	chr1	55025961	55026161	+	991.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031179, intron 1 of 24)	intron (NM_031179, intron 1 of 24)	1417.0	NM_031179	81898.0	Mm.279736	NM_031179	ENSMUSG00000025982	Sf3b1	155kDa|2810001M05Rik|AA409119|Prp10|SAP155|SF3b155|TA-8|Targ4	splicing factor 3b, subunit 1	protein-coding	40.0	83.5	34.0	406.5	81.0	24.5	31.0	15.0
Merged-chr3-101600051-1	chr3	101599951	101600151	+	860.0	f0_c57.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	4656.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	6.5	7.5	9.5	120.0	45.0	12.0	22.0	14.5
Merged-chr5-103719353-4	chr5	103719248	103719448	+	846.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34814.0	NM_133919	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	11.0	4.0	6.5	130.5	25.0	5.5	22.0	11.0
Merged-chr2-144698193-4	chr2	144698092	144698292	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025314, intron 4 of 5)	intron (NM_025314, intron 4 of 5)	98239.0	NM_025314	66044.0	Mm.28109	NM_025314	ENSMUSG00000027430	Dtd1	0610006H08Rik|DTD|DUE-B|Hars2	D-tyrosyl-tRNA deacylase 1	protein-coding	36.0	44.0	68.5	933.5	31.0	13.5	26.0	30.0
Merged-chr15-78862515-4	chr15	78862399	78862599	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-6970.0	NM_025622	107753.0	Mm.390793	NM_025622	ENSMUSG00000043501	Lgals2	2200008F12Rik|AI324147	lectin, galactose-binding, soluble 2	protein-coding	38.5	97.5	47.0	783.0	109.0	44.5	41.0	38.0
Merged-chr15-101155257-4	chr15	101155171	101155371	+	879.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-18801.0	NM_007395	11479.0	Mm.308467	NM_007395	ENSMUSG00000000532	Acvr1b	6820432J04|ALK-4|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2	activin A receptor, type 1B	protein-coding	10.0	8.0	8.5	27.5	16.0	8.0	5.0	7.5
Merged-chr18-57052320-3	chr18	57052226	57052426	+	944.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76947.0	NM_029909	77422.0	Mm.256874	NM_029909	ENSMUSG00000024592	C330018D20Rik	AU018666	RIKEN cDNA C330018D20 gene	protein-coding	11.0	19.0	11.5	220.5	21.5	4.5	5.5	4.0
Merged-chr16-17276812-3	chr16	17276742	17276942	+	954.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177473, exon 3 of 10)	exon (NM_177473, exon 3 of 10)	542.0	NM_177473	224019.0	Mm.246388	NM_177473	ENSMUSG00000055692	Tmem191c	4933405M22Rik|D16Bwg1494e|MNCb-4137	transmembrane protein 191C	protein-coding	10.5	14.0	9.5	169.0	13.0	9.0	11.0	12.0
Merged-chr18-24020857-4	chr18	24020791	24020991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021559)	promoter-TSS (NM_021559)	-78.0	NM_021559	59057.0	Mm.417427	NM_021559	ENSMUSG00000051469	Zfp24	3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf24	zinc finger protein 24	protein-coding	57.5	62.0	38.0	642.5	143.0	55.0	76.5	66.0
Merged-chr14-19745992-3	chr14	19745893	19746093	+	980.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5264.0	NM_008695	18074.0	Mm.20348	NM_008695	ENSMUSG00000021806	Nid2	AW547149|Ly111|NID-2|entactin-2|nidogen-2	nidogen 2	protein-coding	15.0	4.5	13.0	213.0	20.5	5.0	8.5	8.5
Merged-chr4-155683890-4	chr4	155683788	155683988	+	921.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10454.0	NM_178699	230991.0	Mm.29083	NM_178699	ENSMUSG00000074738	Fndc10	B930041F14Rik|MNCb-3966	fibronectin type III domain containing 10	protein-coding	46.5	87.5	52.0	681.5	27.5	17.5	10.5	8.0
Merged-chr7-48962109-1	chr7	48962009	48962209	+	677.333313	f0_balb.idr	intron (NM_001111016, intron 1 of 38)	intron (NM_001111016, intron 1 of 38)	3036.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	7.0	5.5	6.0	172.5	15.5	1.0	7.0	8.5
Merged-chr14-47647875-2	chr14	47647754	47647954	+	800.333374	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-1457.0	NM_001347527	16709.0	Mm.3110	NM_008477	ENSMUSG00000021843	Ktn1	-	kinectin 1	protein-coding	17.5	13.5	5.0	132.0	13.5	6.5	9.0	6.0
Merged-chr6-81976148-3	chr6	81976055	81976255	+	702.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10206.0	NM_026490	56284.0	Mm.276293	NM_026490	ENSMUSG00000030045	Mrpl19	9030416F12Rik|9130412E02Rik|D6Ertd157e|MRP-L15|RLX1|Rpml15	mitochondrial ribosomal protein L19	protein-coding	8.0	5.5	6.0	75.0	25.5	3.5	7.5	1.0
Merged-chr2-3713398-4	chr2	3713290	3713490	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025626)	promoter-TSS (NM_025626)	-68.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	140.5	228.5	128.0	1725.0	384.5	159.0	148.5	133.5
Merged-chr10-60346829-4	chr10	60346749	60346949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159572)	promoter-TSS (NM_001159572)	-2.0	NM_001159572	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	93.5	142.0	103.5	1222.0	180.5	91.0	78.0	124.0
Merged-chr5-34369781-4	chr5	34369696	34369896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243123)	promoter-TSS (NM_001243123)	-137.0	NM_001243123	231128.0	Mm.286885	NM_001030306	ENSMUSG00000037210	Fam193a	-	family with sequence similarity 193, member A	protein-coding	205.0	319.0	161.5	2437.5	490.5	171.5	252.0	167.0
Merged-chr2-166719509-4	chr2	166719403	166719603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-5671.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	42.5	89.5	35.0	385.0	163.5	63.5	61.0	46.5
Merged-chr3-30993268-4	chr3	30993165	30993365	+	946.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2506.0	NM_008857	18759.0	Mm.291554	NM_008857	ENSMUSG00000037643	Prkci	2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165	protein kinase C, iota	protein-coding	15.5	31.0	8.0	153.0	39.0	16.5	22.5	16.0
Merged-chr2-165062230-4	chr2	165062136	165062336	+	948.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027852, intron 1 of 7)	intron (NR_027852, intron 1 of 7)	6600.0	NM_011611	21939.0	Mm.271833	NM_011611	ENSMUSG00000017652	Cd40	AI326936|Bp50|GP39|HIGM1|IGM|IMD3|T-BAM|TRAP|Tnfrsf5|p50	CD40 antigen	protein-coding	26.5	66.0	12.0	180.5	94.0	41.5	42.5	29.0
Merged-chr2-26578647-2	chr2	26578555	26578755	+	546.0	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-2401.0	NM_178444	353156.0	Mm.268933	NM_178444	ENSMUSG00000026921	Egfl7	VE-statin|Zneu1	EGF-like domain 7	protein-coding	14.0	5.5	5.5	82.5	18.5	4.0	9.0	4.0
Merged-chr1-74240361-4	chr1	74240314	74240514	+	708.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357387, intron 2 of 10)	intron (NM_001357387, intron 2 of 10)	3897.0	NM_029711	76709.0	Mm.337038	NM_029711	ENSMUSG00000006304	Arpc2	2210023N03Rik|34kDa|p34-Arc	actin related protein 2/3 complex, subunit 2	protein-coding	6.0	13.0	15.0	151.5	33.0	11.5	7.5	20.0
Merged-chr11-77462527-4	chr11	77462410	77462610	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1403.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	40.0	92.0	34.5	554.0	92.0	34.5	43.5	26.5
Merged-chr2-93462015-4	chr2	93461920	93462120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271461)	promoter-TSS (NM_001271461)	-169.0	NM_001271461	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	127.5	194.5	123.5	2145.0	351.5	116.0	132.5	107.0
Merged-chr2-144009663-4	chr2	144009567	144009767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133626, intron 1 of 2)	intron (NM_133626, intron 1 of 2)	1596.0	NM_133626	81910.0	Mm.13705	NM_024281	ENSMUSG00000027422	Rrbp1	1700087N07Rik|5730465C04Rik|ES/130|mKIAA1398|mRRp0|mRRp1.8|mRRp10|mRRp15a|mRRp15b|mRRp16.8|mRRp2|mRRp41|mRRp47|mRRp5.4|p180	ribosome binding protein 1	protein-coding	119.0	235.5	167.0	2333.5	499.5	191.0	202.5	182.5
Merged-chr2-132606359-3	chr2	132606279	132606479	+	800.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 2 of 3)	intron (NR_033469, intron 2 of 3)	8183.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	11.0	8.0	6.0	136.0	10.5	2.5	8.0	5.5
Merged-chr5-32192241-4	chr5	32192150	32192350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40458.0	NM_030072	665270.0	Mm.160067	NM_030072	ENSMUSG00000029134	Plb1	4632413E21Rik|4930433E17Rik|4930539A06Rik|BC033606	phospholipase B1	protein-coding	71.0	85.5	61.5	716.5	128.5	65.0	44.0	49.0
Merged-chr11-98810659-4	chr11	98810549	98810749	+	890.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033551)	promoter-TSS (NR_033551)	-560.0	NR_033551	100037262.0	Mm.442062	NR_033551	ENSMUSG00000075576	Gm12359	-	predicted gene 12359	ncRNA	8.0	19.5	5.5	120.0	44.0	9.5	22.0	15.5
Merged-chr2-4290660-2	chr2	4290560	4290760	+	915.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172475, intron 1 of 22)	MTD|LTR|ERVL-MaLR	-110316.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	2.0	1.0	4.0	98.5	15.0	6.0	13.0	11.5
Merged-chr1-192537371-4	chr1	192537291	192537491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144881, intron 11 of 11)	ORR1D2|LTR|ERVL-MaLR	233828.0	NM_144881	226861.0	Mm.145857	NM_144881	ENSMUSG00000037375	Hhat	2810432O22Rik|AI462858|AP-2CRE|Skn|Tg(TFAP2A-cre)1Will	hedgehog acyltransferase	protein-coding	57.5	70.5	83.0	1272.5	81.0	31.5	53.0	47.5
Merged-chr6-6005899-3	chr6	6005803	6006003	+	891.0888669999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010063, intron 14 of 16)	CpG	-28510.0	NR_040255	72249.0	Mm.443268	NR_040255	ENSMUSG00000085416	1700019G24Rik	-	RIKEN cDNA 1700019G24 gene	ncRNA	10.5	16.5	18.5	165.5	9.5	6.5	5.5	4.5
Merged-chr11-97659667-4	chr11	97659575	97659775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3737.0	NM_139311	246198.0	Mm.23685	NM_139311	ENSMUSG00000038437	Mllt6	AI315037|Af17	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 6	protein-coding	175.0	261.0	125.0	1391.5	394.5	135.0	152.0	130.5
Merged-chr5-114824349-4	chr5	114824299	114824499	+	817.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181075)	promoter-TSS (NM_181075)	-931.0	NM_181075	330173.0	Mm.482205	NM_181075	ENSMUSG00000092486	2610524H06Rik	-	RIKEN cDNA 2610524H06 gene	protein-coding	6.0	19.0	5.5	87.5	19.5	9.0	9.0	18.0
Merged-chr7-81842048-1	chr7	81841948	81842148	+	849.0	f0_balb.idr	Intergenic	Intergenic	-12617.0	NM_146193	83962.0	Mm.439893	NM_146193	ENSMUSG00000025103	Btbd1	1190005H08Rik	BTB (POZ) domain containing 1	protein-coding	18.0	5.5	8.0	148.0	2.0	3.0	2.5	3.5
Merged-chr11-51262475-1	chr11	51262375	51262575	+	767.5	f0_balb.idr	promoter-TSS (NM_007714)	promoter-TSS (NM_007714)	582.0	NM_001358282	193286.0	Mm.80975	NM_177567	ENSMUSG00000045942	BC049762	4930503F14	cDNA sequence BC049762	protein-coding	18.0	19.0	14.0	87.0	15.0	14.0	16.0	13.5
Merged-chr17-57400993-2	chr17	57400893	57401093	+	639.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355722, intron 2 of 22)	L1VL2|LINE|L1	42307.0	NM_010130	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	0.0	2.0	1.0	43.0	13.0	7.0	8.0	7.0
Merged-chr11-114973041-2	chr11	114972935	114973135	+	737.625	f0_balb.idr|f1_balb.idr	Intergenic	RLTR44C|LTR|ERVK	-12618.0	NM_199225	387565.0	Mm.351450	NM_199225	ENSMUSG00000058728	Cd300c	Clm6	CD300C molecule	protein-coding	13.0	18.0	8.5	112.5	8.0	0.0	0.5	1.0
Merged-chr11-120086902-4	chr11	120086781	120086981	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009734)	promoter-TSS (NM_009734)	-54.0	NM_009734	12009.0	Mm.2556	NM_009734	ENSMUSG00000039781	Cep131	AZ1|Azi|Azi1	centrosomal protein 131	protein-coding	234.0	340.5	216.5	2312.0	501.0	185.0	233.5	167.5
Merged-chr3-105892617-4	chr3	105892494	105892694	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027025, intron 1 of 6)	intron (NM_027025, intron 1 of 6)	-11827.0	NM_009631	11542.0	Mm.235024	NM_009631	ENSMUSG00000000562	Adora3	A3AR|A3R|AA3R|ARA3|Gpcr2	adenosine A3 receptor	protein-coding	29.0	26.0	28.0	389.5	59.5	28.0	33.0	29.5
Merged-chr2-73037444-3	chr2	73037341	73037541	+	798.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56995.0	NM_001018042	20687.0	Mm.124328	NM_011450	ENSMUSG00000027109	Sp3	D130027J01Rik	trans-acting transcription factor 3	protein-coding	11.5	8.0	10.5	61.0	14.0	4.5	14.0	25.0
Merged-chr16-69667935-4	chr16	69667833	69668033	+	953.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	132448.0	NR_130991	78110.0	Mm.211406	NR_130991	ENSMUSG00000107073	4930428D20Rik	Gm43265	RIKEN cDNA 4930428D20 gene	ncRNA	13.0	20.0	32.5	552.0	38.5	8.5	17.0	18.5
Merged-chr15-81926255-4	chr15	81926104	81926304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030229)	promoter-TSS (NM_030229)	9.0	NM_030229	78929.0	Mm.215115	NM_030229	ENSMUSG00000022476	Polr3h	5031409G22Rik|RPC8	polymerase (RNA) III (DNA directed) polypeptide H	protein-coding	116.0	249.5	115.0	1499.0	457.5	173.0	166.5	170.0
Merged-chr10-116505514-4	chr10	116505416	116505616	+	947.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359253, intron 2 of 11)	intron (NM_001359253, intron 2 of 11)	22433.0	NM_001359253	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	23.0	31.5	22.0	452.0	49.5	18.5	28.0	26.0
Merged-chr8-115711343-4	chr8	115711241	115711441	+	910.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4447.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	10.0	13.0	21.0	338.5	41.0	8.0	23.0	18.0
Merged-chr8-120332843-4	chr8	120332739	120332939	+	882.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104609.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	13.0	13.5	12.0	232.5	23.5	14.0	4.5	10.5
Merged-chr2-76049831-3	chr2	76049749	76049949	+	817.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081033, intron 14 of 19)	intron (NM_001081033, intron 14 of 19)	-67882.0	NM_030188	78802.0	Mm.282339	NM_030188	ENSMUSG00000075271	Ttc30a1	4930506L13Rik	tetratricopeptide repeat domain 30A1	protein-coding	6.0	7.0	10.0	55.0	10.0	4.0	4.0	5.0
Merged-chr2-118545967-4	chr2	118545873	118546073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 2 of 3)	intron (NM_001331221, intron 2 of 3)	-1386.0	NR_138603	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	30.0	32.0	19.5	299.5	48.5	28.0	24.0	33.0
Merged-chr8-46547429-3	chr8	46547311	46547511	+	839.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4658.0	NM_027973	71876.0	Mm.22108	NM_027973	ENSMUSG00000031629	Cenpu	1700029A22Rik|Mlf1ip	centromere protein U	protein-coding	8.5	8.0	6.0	152.5	15.0	3.5	6.5	13.5
Merged-chr10-60245181-4	chr10	60245062	60245262	+	987.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25902.0	NM_016803	53374.0	Mm.12866	NM_016803	ENSMUSG00000057337	Chst3	C6ST|C6ST-1|GST-0	carbohydrate (chondroitin 6/keratan) sulfotransferase 3	protein-coding	17.0	28.0	13.0	207.5	55.0	16.0	9.5	18.0
Merged-chr12-100396867-4	chr12	100396770	100396970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 9 of 19)	L1MB7|LINE|L1	120261.0	NR_045741	100038713.0	Mm.470751	NR_045741	ENSMUSG00000113679	Gm10432	-	predicted gene 10432	ncRNA	47.5	74.5	45.0	826.0	131.0	21.5	57.5	47.0
Merged-chr3-88627733-4	chr3	88627637	88627837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 1 of 21)	intron (NM_001198913, intron 1 of 21)	6343.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	47.5	55.5	40.5	749.5	110.5	41.5	57.5	40.0
Merged-chr7-80640001-4	chr7	80639898	80640098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040343, intron 4 of 4)	intron (NR_040343, intron 4 of 4)	3981.0	NR_040343	100504375.0	Mm.322881	NR_040343	ENSMUSG00000084821	Gm15880	-	predicted gene 15880	ncRNA	93.5	145.0	101.0	1331.5	233.5	101.0	117.0	114.5
Merged-chr11-3998128-4	chr11	3998023	3998223	+	811.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177703, exon 3 of 3)	exon (NM_001177703, exon 3 of 3)	8190.0	NM_001177691	53897.0	Mm.103414	NM_016922	ENSMUSG00000049721	Gal3st1	Cst|Gcst	galactose-3-O-sulfotransferase 1	protein-coding	9.0	11.0	19.5	253.0	17.5	7.5	14.0	12.0
Merged-chr15-12118592-4	chr15	12118472	12118672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358823, intron 2 of 18)	CpG-4794	721.0	NM_001358823	22763.0	Mm.273496	NM_011767	ENSMUSG00000022201	Zfr	C920030H05Rik	zinc finger RNA binding protein	protein-coding	34.0	28.0	37.5	332.5	55.0	23.0	26.0	41.0
Merged-chr12-111420105-2	chr12	111420005	111420205	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289487, intron 2 of 13)	intron (NM_001289487, intron 2 of 13)	2660.0	NM_001289488	74190.0	Mm.248640	NM_028807	ENSMUSG00000021280	Exoc3l4	1200009I06Rik|1600013K19Rik	exocyst complex component 3-like 4	protein-coding	3.0	3.0	6.0	77.0	14.5	7.0	7.0	7.5
Merged-chr13-67109069-1	chr13	67108969	67109169	+	987.0	f1_balb.idr	intron (NM_001256052, intron 2 of 6)	intron (NM_001256052, intron 2 of 6)	4959.0	NM_001256052	432770.0	Mm.124021	NM_001256052	ENSMUSG00000074824	Rslcan18	mszf51	regulator of sex-limitation candidate 18	protein-coding	11.5	23.5	15.0	271.0	17.0	10.5	14.5	14.0
Merged-chr4-43010280-4	chr4	43010151	43010351	+	962.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163233)	promoter-TSS (NM_001163233)	50.0	NM_001163233	60534.0	Mm.23122	NM_053081	ENSMUSG00000028453	Fancg	AU041407|Xrcc9	Fanconi anemia, complementation group G	protein-coding	20.5	20.0	10.0	155.5	31.5	7.5	16.0	7.5
Merged-chr11-75459326-4	chr11	75459244	75459444	+	953.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-2195.0	NR_030711	100042498.0	Mm.482242	NR_030711	ENSMUSG00000085148	Mir22hg	2210403K04Rik|mir-22	Mir22 host gene (non-protein coding)	ncRNA	13.0	28.5	13.5	172.5	58.0	16.5	15.5	12.5
Merged-chr13-42248863-4	chr13	42248752	42248952	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52624.0	NM_010104	13614.0	Mm.14543	NM_010104	ENSMUSG00000021367	Edn1	ET-1|PPET1|preproET	endothelin 1	protein-coding	10.5	15.0	6.5	79.5	41.0	5.0	4.0	13.5
Merged-chr5-139149403-1	chr5	139149303	139149503	+	1000.0	f0_balb.idr	promoter-TSS (NM_001081265)	promoter-TSS (NM_001081265)	598.0	NM_001359098	19085.0	Mm.306163	NM_008923	ENSMUSG00000025855	Prkar1b	AI385716|RIbeta	protein kinase, cAMP dependent regulatory, type I beta	protein-coding	12.0	19.0	7.0	173.5	25.5	14.0	8.0	19.0
Merged-chr5-135914395-4	chr5	135914298	135914498	+	960.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018871, intron 1 of 1)	intron (NM_018871, intron 1 of 1)	20243.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	26.0	55.0	41.0	751.0	40.5	11.5	25.0	25.5
Merged-chr9-59653555-4	chr9	59653448	59653648	+	946.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2820.0	NM_001253883	18746.0	Mm.326167	NM_011099	ENSMUSG00000032294	Pkm	AA414905|AL024370|AL024424|Pk-2|Pk-3|Pk3|Pkm2	pyruvate kinase, muscle	protein-coding	20.5	27.5	15.0	291.5	56.0	26.5	11.5	21.5
Merged-chr14-16256369-4	chr14	16256262	16256462	+	919.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021504, intron 2 of 11)	MTEb|LTR|ERVL-MaLR	-6554.0	NM_027695	71147.0	Mm.197960	NM_027695	ENSMUSG00000021786	Oxsm	4933425A18Rik|C80494	3-oxoacyl-ACP synthase, mitochondrial	protein-coding	14.5	14.0	19.5	241.0	37.5	16.5	13.0	16.5
Merged-chr10-82953633-4	chr10	82953513	82953713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR35B_MM|LTR|ERVL	-31884.0	NM_021439	58250.0	Mm.360747	NM_021439	ENSMUSG00000034612	Chst11	1110020P09Rik|C4ST|C4ST-1|C4ST1|C4s	carbohydrate sulfotransferase 11	protein-coding	57.5	97.5	86.0	1080.0	136.5	72.0	80.0	46.0
Merged-chr13-63564954-4	chr13	63564820	63565020	+	856.279175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001328514, intron 1 of 23)	CpG-3956	815.0	NM_008957	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	7.0	11.0	9.5	114.0	14.0	10.0	9.5	17.0
Merged-chr3-109030817-4	chr3	109030717	109030917	+	974.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3210.0	NM_001163567	329739.0	Mm.69013	NM_001163567	ENSMUSG00000040339	Fam102b	1600010D10Rik|B430201A12Rik	family with sequence similarity 102, member B	protein-coding	16.0	15.5	24.0	444.5	34.0	6.5	19.5	23.0
Merged-chr8-68195603-4	chr8	68195441	68195641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80987.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	13.5	16.5	27.5	393.5	49.5	16.5	29.5	28.5
Merged-chr8-120535184-4	chr8	120535098	120535298	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145897)	promoter-TSS (NM_001145897)	-659.0	NM_001145897	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	22.0	30.0	18.5	270.5	70.5	21.5	34.0	19.5
Merged-chr10-94690558-3	chr10	94690458	94690658	+	636.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029852, intron 1 of 15)	RMER10A|LTR|ERVL	1768.0	NM_029852	77048.0	Mm.296971	NM_029852	ENSMUSG00000020024	Cep83	2600001G24Rik|4921537D05Rik|5730513H21Rik|Ccdc41	centrosomal protein 83	protein-coding	6.5	8.5	7.5	163.5	21.5	7.5	4.0	9.0
Merged-chr5-92368269-8	chr5	92368136	92368336	+	928.8035890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310664, intron 2 of 10)	MTD|LTR|ERVL-MaLR	-4940.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	0.5	9.0	6.0	56.5	19.0	10.0	12.0	4.5
Merged-chr5-9103742-4	chr5	9103667	9103867	+	924.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 2 of 4)	intron (NM_001081029, intron 2 of 4)	3030.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	3.0	17.5	7.0	141.0	25.5	8.0	13.0	9.5
Merged-chr15-8627326-4	chr15	8627209	8627409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	83498.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	55.0	70.0	46.0	746.0	95.0	34.0	43.0	48.5
Merged-chr10-99128018-6	chr10	99127910	99128110	+	895.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 3 of 12)	intron (NR_153333, intron 3 of 12)	19875.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	9.0	13.0	10.5	278.5	11.0	1.5	7.0	10.0
Merged-chr3-95232538-4	chr3	95232458	95232658	+	893.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172395, exon 3 of 5)	exon (NM_172395, exon 3 of 5)	3615.0	NM_001038708	57912.0	Mm.28189	NM_172395	ENSMUSG00000046722	Cdc42se1	1300002M12Rik|AW558204|Cdcse1|SCIP1|Spec1	CDC42 small effector 1	protein-coding	10.5	14.5	10.5	164.0	40.0	4.0	19.0	11.5
Merged-chr4-21776276-4	chr4	21776164	21776364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290425)	promoter-TSS (NM_001290425)	-6.0	NM_001290425	77593.0	Mm.154306	NM_152825	ENSMUSG00000040455	Usp45	3110003C05Rik|4930550B20Rik|AI843191|Gcap7	ubiquitin specific petidase 45	protein-coding	102.5	117.0	85.0	1395.0	241.0	92.5	92.5	101.0
Merged-chr1-58586277-4	chr1	58586184	58586384	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025597)	promoter-TSS (NM_025597)	49.0	NM_001310598	213056.0	Mm.26272	NM_172513	ENSMUSG00000038174	Fam126b	C130065N10Rik|D1Ertd53e|D630010C10	family with sequence similarity 126, member B	protein-coding	31.0	52.0	21.0	369.0	129.5	29.0	44.5	39.5
Merged-chr7-19318325-2	chr7	19318225	19318425	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8280.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	7.0	5.0	5.0	18.0	7.5	1.5	4.5	8.0
Merged-chr2-69647179-4	chr2	69647082	69647282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028284)	promoter-TSS (NM_028284)	-73.0	NM_028284	72569.0	Mm.252136	NM_028284	ENSMUSG00000063145	Bbs5	1700049I01Rik|2700023J09Rik	Bardet-Biedl syndrome 5 (human)	protein-coding	67.0	69.5	99.5	1401.0	208.0	66.5	78.5	65.0
Merged-chr10-88826806-4	chr10	88826702	88826902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175158)	promoter-TSS (NM_175158)	12.0	NM_175158	70683.0	Mm.29631	NM_175158	ENSMUSG00000004356	Utp20	3830408P06Rik|AA617408|Drim|mDRIM|mDRIN	UTP20 small subunit processome component	protein-coding	53.0	64.5	30.0	583.0	147.5	40.5	61.5	57.5
Merged-chr16-75961670-4	chr16	75961550	75961750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39134.0	NR_155447	102632240.0	Mm.417237	NR_155447	ENSMUSG00000087214	Gm15555	-	predicted gene 15555	ncRNA	97.0	206.0	110.5	971.0	250.0	91.5	116.5	57.0
Merged-chr9-21963623-4	chr9	21963577	21963777	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010149)	promoter-TSS (NM_010149)	-101.0	NM_010149	13857.0	Mm.2653	NM_010149	ENSMUSG00000006235	Epor	-	erythropoietin receptor	protein-coding	40.0	34.5	33.0	559.5	59.0	19.5	25.0	16.0
Merged-chr2-92185273-10	chr2	92185149	92185349	+	944.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109691)	promoter-TSS (NM_001109691)	-234.0	NM_001109691	192285.0	Mm.330408	NM_138755	ENSMUSG00000058318	Phf21a	80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1	PHD finger protein 21A	protein-coding	12.5	39.0	12.5	166.0	81.0	15.0	26.0	22.5
Merged-chr3-132064166-4	chr3	132064068	132064268	+	935.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21124.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	12.5	17.0	11.0	500.5	25.0	13.0	16.5	9.0
Merged-chr7-143021538-4	chr7	143021432	143021632	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_110354)	TTS (NR_110354)	15873.0	NM_001128081	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	23.0	87.5	20.0	237.5	113.0	24.5	29.0	30.0
Merged-chr11-21237248-3	chr11	21237165	21237365	+	770.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1767.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	4.5	9.5	9.5	77.5	10.0	8.0	2.5	13.5
Merged-chr14-93199948-3	chr14	93199857	93200057	+	760.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271800, intron 3 of 3)	MIR|SINE|MIR	690712.0	NM_001271800	211712.0	Mm.37126	NM_001081377	ENSMUSG00000055421	Pcdh9	-	protocadherin 9	protein-coding	10.0	16.5	15.0	204.0	4.0	0.0	0.0	5.0
Merged-chr17-50024741-4	chr17	50024634	50024834	+	959.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 7 of 9)	intron (NM_181397, intron 7 of 9)	165763.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	19.5	31.5	7.0	134.5	42.5	12.0	8.0	5.0
Merged-chr12-12289824-4	chr12	12289729	12289929	+	988.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	27690.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	22.5	17.0	27.0	266.5	81.0	20.5	23.0	32.5
Merged-chr14-72689681-4	chr14	72689571	72689771	+	898.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207636, intron 1 of 25)	L1_Mur3|LINE|L1	20332.0	NM_207636	319448.0	Mm.205421	NM_207636	ENSMUSG00000033487	Fndc3a	1700094E19Rik|D14Ertd453e|F730017H24Rik|Fndc3|sys	fibronectin type III domain containing 3A	protein-coding	13.0	32.0	5.0	158.5	41.5	17.0	12.0	8.0
Merged-chr4-35061112-3	chr4	35061001	35061201	+	719.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 2 of 3)	MT2B1|LTR|ERVL	-90954.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	9.0	13.5	7.0	52.0	18.0	15.0	13.0	6.5
Merged-chr15-101081254-3	chr15	101081155	101081355	+	680.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26856.0	NM_001214911	668225.0	Mm.385011	NM_001214911	ENSMUSG00000095440	Fignl2	EG668225	fidgetin-like 2	protein-coding	12.0	12.0	8.5	86.0	17.0	2.5	3.5	8.0
Merged-chr17-29491904-4	chr17	29491785	29491985	+	951.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008842, exon 4 of 6)	exon (NM_008842, exon 4 of 6)	840.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	6.5	17.0	20.5	78.5	34.0	20.5	21.5	23.0
Merged-chr14-77928183-4	chr14	77928074	77928274	+	910.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029495, intron 2 of 11)	intron (NM_029495, intron 2 of 11)	23935.0	NM_029495	108670.0	Mm.68134	NM_029495	ENSMUSG00000022014	Epsti1	2310046K10Rik|5033415K03Rik|BRESI1	epithelial stromal interaction 1 (breast)	protein-coding	19.0	30.0	11.0	284.5	30.5	15.5	12.0	12.0
Merged-chr13-94159700-4	chr13	94159616	94159816	+	883.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172589, intron 2 of 3)	intron (NM_172589, intron 2 of 3)	101920.0	NM_172589	218454.0	Mm.316553	NM_172589	ENSMUSG00000045312	Lhfpl2	6030465B15|AI447312|AW050335|mKIAA0206|vgim	lipoma HMGIC fusion partner-like 2	protein-coding	34.5	18.0	12.0	145.5	28.5	3.5	16.5	5.5
Merged-chr10-7924433-4	chr10	7924320	7924520	+	812.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359534, intron 2 of 6)	intron (NM_001359534, intron 2 of 6)	28645.0	NM_001359534	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	19.5	17.5	11.0	225.5	37.0	19.5	13.5	14.5
Merged-chr1-170703145-3	chr1	170703062	170703262	+	774.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58630.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	13.0	7.5	10.0	111.5	10.0	4.5	6.0	8.5
Merged-chr2-167715233-4	chr2	167715120	167715320	+	950.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24043.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	31.0	22.5	27.5	262.5	34.0	11.0	23.0	35.5
Merged-chr2-165983154-4	chr2	165983048	165983248	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1M|LTR|ERVL-MaLR	-9489.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	128.5	221.0	96.5	1951.5	245.0	110.0	159.5	124.0
Merged-chr8-123040278-4	chr8	123040190	123040390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	1994.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	33.5	45.0	24.0	561.0	89.5	22.0	41.5	27.5
Merged-chr15-96699771-4	chr15	96699670	96699870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175121)	promoter-TSS (NM_175121)	-42.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	49.0	77.5	38.5	540.0	141.5	54.5	51.5	41.5
Merged-chr3-123509385-2	chr3	123509286	123509486	+	811.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1050.0	NR_028574	69895.0	Mm.260791	NR_028574	ENSMUSG00000104960	Snhg8	1110065M07Rik|2010109N14Rik	small nucleolar RNA host gene 8	ncRNA	5.0	11.5	11.0	117.5	9.0	2.5	9.0	11.5
Merged-chr2-71529199-2	chr2	71529099	71529299	+	965.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010053)	promoter-TSS (NM_010053)	-246.0	NM_010053	13390.0	Mm.475101	NM_010053	ENSMUSG00000041911	Dlx1	Dlx|Dlx-1	distal-less homeobox 1	protein-coding	6.0	6.0	11.5	54.5	12.0	5.5	1.5	1.5
Merged-chr5-122146497-4	chr5	122146410	122146610	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8448.0	NM_183307	330188.0	Mm.386907	NM_183307	ENSMUSG00000043036	Ccdc63	4921511C16Rik	coiled-coil domain containing 63	protein-coding	37.5	45.0	29.5	329.5	76.5	34.5	15.0	53.5
Merged-chr9-20892165-4	chr9	20892081	20892281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145610)	TTS (NM_145610)	4006.0	NM_145610	235036.0	Mm.2930	NM_145610	ENSMUSG00000004100	Ppan	A230087P06Rik|SSF1	peter pan homolog	protein-coding	56.0	110.0	82.5	861.5	311.0	90.0	133.0	132.5
Merged-chr3-65973510-4	chr3	65973414	65973614	+	987.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15265.0	NM_001355432	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	17.5	33.5	17.0	286.0	58.5	25.0	26.5	22.5
Merged-chr13-24323593-4	chr13	24323478	24323678	+	935.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3826.0	NM_001284519	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	22.0	22.0	14.0	311.0	39.5	9.5	12.5	26.5
Merged-chr17-35739794-4	chr17	35739697	35739897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32653.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	34.0	115.0	65.0	937.0	118.5	54.5	42.5	38.5
Merged-chr10-80880482-4	chr10	80880355	80880555	+	850.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081688, intron 1 of 17)	intron (NM_001081688, intron 1 of 17)	639.0	NM_001081688	432478.0	Mm.235302	NM_001081688	ENSMUSG00000059406	Tmprss9	Serase-1B	transmembrane protease, serine 9	protein-coding	5.5	13.0	8.0	51.5	20.0	4.5	11.5	6.5
Merged-chr17-53582024-3	chr17	53581925	53582125	+	921.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151733, intron 1 of 16)	intron (NR_151733, intron 1 of 16)	-2101.0	NM_001190846	18519.0	Mm.255025	NM_020005	ENSMUSG00000000708	Kat2b	A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF	K(lysine) acetyltransferase 2B	protein-coding	5.0	0.0	2.5	83.5	29.0	6.0	6.5	14.5
Merged-chr10-12035361-3	chr10	12035263	12035463	+	752.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	426139.0	NM_013898	30058.0	Mm.214504	NM_013898	ENSMUSG00000048007	Timm8a1	DXHXS1274E|Ddp1|Fci-12|Tim8a|Timm8a	translocase of inner mitochondrial membrane 8A1	protein-coding	6.0	16.5	12.5	265.0	2.5	2.0	4.0	4.5
Merged-chr18-84684342-5	chr18	84684325	84684525	+	904.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023149, intron 1 of 11)	intron (NM_023149, intron 1 of 11)	1277.0	NM_023149	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	0.5	1.0	14.0	51.0	22.5	8.0	6.0	19.5
Merged-chr11-115198991-4	chr11	115198824	115199024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033393, intron 3 of 9)	intron (NM_001033393, intron 3 of 9)	11437.0	NM_001033393	320534.0	Mm.260587	NM_001033393	ENSMUSG00000045980	Tmem104	C630005D06Rik|mFLJ00021	transmembrane protein 104	protein-coding	25.0	60.5	26.0	264.0	99.5	43.5	38.5	53.0
Merged-chr5-117842079-3	chr5	117841968	117842168	+	826.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-24771.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	16.0	16.0	10.5	206.0	5.0	12.0	12.5	5.5
Merged-chr1-155814837-3	chr1	155814738	155814938	+	923.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1939.0	NM_001024945	104009.0	Mm.27035	NM_023268	ENSMUSG00000033684	Qsox1	1300003H02Rik|QSOX|Qscn6|SOx|b2b2673Clo	quiescin Q6 sulfhydryl oxidase 1	protein-coding	20.0	26.0	27.5	452.0	2.0	0.0	0.5	1.5
Merged-chr13-69509758-4	chr13	69509662	69509862	+	924.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198600, intron 5 of 12)	B2_Mm2|SINE|B2	24102.0	NM_198600	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	19.0	18.5	12.0	331.5	45.0	14.5	27.5	14.0
Merged-chr8-36746143-2	chr8	36746087	36746287	+	742.799988	f0_balb.idr|f1_balb.idr	intron (NM_001194940, intron 5 of 17)	intron (NM_001194940, intron 5 of 17)	-13133.0	NM_001194941	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	17.0	9.0	17.0	163.5	7.0	1.5	2.0	2.5
Merged-chr8-33668400-2	chr8	33668300	33668500	+	802.666626	f0_c57.idr|f1_c57bl6.idr	intron (NM_010344, intron 1 of 12)	intron (NM_010344, intron 1 of 12)	15162.0	NM_010344	14782.0	Mm.283573	NM_010344	ENSMUSG00000031584	Gsr	AI325518|D8Ertd238e|Gr-1|Gr1	glutathione reductase	protein-coding	1.0	0.0	0.0	1.0	37.0	9.0	15.0	14.5
Merged-chr12-84172454-4	chr12	84172345	84172545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163501, intron 2 of 12)	intron (NM_001163501, intron 2 of 12)	21570.0	NM_001163502	238317.0	Mm.31256	NM_001163501	ENSMUSG00000042507	Elmsan1	9430029N19Rik|C130039O16Rik|Gm260	ELM2 and Myb/SANT-like domain containing 1	protein-coding	35.5	69.0	28.0	574.0	108.5	44.0	33.5	39.5
Merged-chr8-10946204-4	chr8	10946063	10946263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17706.0	NR_135302	665306.0	Mm.358758	NR_030715	ENSMUSG00000038917	3930402G23Rik	-	RIKEN cDNA 3930402G23 gene	ncRNA	61.0	91.0	85.0	1222.0	163.5	35.0	52.5	41.5
Merged-chr9-104140523-4	chr9	104140418	104140618	+	859.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13875.0	NM_145700	252837.0	Mm.269254	NM_145700	ENSMUSG00000079355	Ackr4	A630091E18Rik|CCBP2|CCR11|CCX-CKR|CCX-CKR1|Ccrl1|Cmkbrl1|PPR1|VSHK1	atypical chemokine receptor 4	protein-coding	6.0	10.0	32.5	318.0	25.5	8.5	12.5	13.0
Merged-chr12-12247264-4	chr12	12247201	12247401	+	735.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus1|SINE|Alu	-14838.0	NM_029758	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	4.5	10.0	6.5	106.0	29.5	13.0	10.5	11.5
Merged-chr2-148490768-4	chr2	148490672	148490872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47237.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	21.0	37.0	26.0	483.0	74.0	23.0	34.0	28.0
Merged-chr5-149690532-1	chr5	149690432	149690632	+	801.0	f0_balb.idr	intron (NM_001081204, intron 1 of 14)	intron (NM_001081204, intron 1 of 14)	12275.0	NM_001081204	381694.0	Mm.45060	NM_001081204	ENSMUSG00000051950	B3glct	B3galtl|Gm1057	beta-3-glucosyltransferase	protein-coding	5.5	5.0	6.5	111.5	3.5	0.5	6.5	1.0
Merged-chr7-30683625-3	chr7	30683521	30683721	+	928.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-12016.0	NR_027848	74927.0	Mm.87326	NM_183108	ENSMUSG00000049761	Pmis2	1700071L20Rik|4930479M11Rik	Pmis2, sperm specific protein	ncRNA	8.0	11.0	10.0	170.0	24.0	1.5	15.5	9.5
Merged-chr1-80665349-4	chr1	80665270	80665470	+	998.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285927)	promoter-TSS (NM_001285927)	-18.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	42.0	46.0	37.5	642.5	85.5	21.0	34.0	19.5
Merged-chr2-130750704-4	chr2	130750604	130750804	+	952.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029432, intron 20 of 36)	RMER10A|LTR|ERVL	-53185.0	NM_001081162	269356.0	Mm.441391	NM_001081162	ENSMUSG00000074796	Slc4a11	AI503023|BTR1|NaBC1	solute carrier family 4, sodium bicarbonate transporter-like, member 11	protein-coding	13.0	7.0	15.0	133.5	42.0	7.0	24.0	8.0
Merged-chr18-63691919-3	chr18	63691830	63692030	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016792, intron 1 of 7)	CpG	429.0	NM_016792	53382.0	Mm.19169	NM_016792	ENSMUSG00000024583	Txnl1	32kDa|TRP32|Txnl	thioredoxin-like 1	protein-coding	22.0	33.5	43.0	283.5	59.0	19.5	32.0	37.0
Merged-chr11-85518582-4	chr11	85518458	85518658	+	794.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 16 of 25)	intron (NM_138681, intron 16 of 25)	165394.0	NM_001166643	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	13.0	6.5	9.0	130.5	17.0	3.5	4.0	12.0
Merged-chr16-21477310-3	chr16	21477202	21477402	+	996.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 17 of 46)	intron (NM_001081366, intron 17 of 46)	54184.0	NM_001285894	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	15.0	22.0	25.0	336.0	13.0	7.0	10.5	7.0
Merged-chr19-56566190-4	chr19	56566064	56566264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025811, intron 2 of 10)	intron (NM_025811, intron 2 of 10)	17903.0	NM_025811	66866.0	Mm.46346	NM_025811	ENSMUSG00000025078	Nhlrc2	1200003G01Rik|AI835049|AV002846|AW496455	NHL repeat containing 2	protein-coding	48.0	71.5	46.5	596.5	112.0	25.0	39.0	32.0
Merged-chr10-14042886-4	chr10	14042735	14042935	+	963.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	76456.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	10.0	31.5	29.0	238.5	31.0	13.5	17.5	16.5
Merged-chr9-37530225-4	chr9	37530121	37530321	+	907.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136939, intron 1 of 6)	intron (NR_136939, intron 1 of 6)	2132.0	NM_027102	69524.0	Mm.41751	NM_027102	ENSMUSG00000001946	Esam	2310008D05Rik|Esam1|W117m	endothelial cell-specific adhesion molecule	protein-coding	7.5	15.0	17.0	162.5	37.5	7.5	13.5	14.5
Merged-chr5-115260511-4	chr5	115260412	115260612	+	991.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302449, intron 1 of 16)	intron (NM_001302449, intron 1 of 16)	12383.0	NM_001302448	50849.0	Mm.30051	NM_016698	ENSMUSG00000041740	Rnf10	AA675014|RIE2|mKIAA0262	ring finger protein 10	protein-coding	21.5	41.5	40.0	983.5	38.0	13.0	44.0	26.5
Merged-chr4-34733660-4	chr4	34733543	34733743	+	834.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3437.0	NM_001347062	69329.0	Mm.389548	NM_027041	ENSMUSG00000028294	Cfap206	1700003M02Rik|AU024269	cilia and flagella associated protein 206	protein-coding	6.0	13.5	11.0	181.5	25.0	7.5	17.5	12.0
Merged-chr6-37464121-1	chr6	37464021	37464221	+	1000.0	f0_c57.idr	Intergenic	Lx8|LINE|L1	-21973.0	NM_178661	208647.0	Mm.169929	NM_178661	ENSMUSG00000038648	Creb3l2	BBF2H7|C530025K05Rik|SCIRR69	cAMP responsive element binding protein 3-like 2	protein-coding	0.0	4.0	2.0	0.0	124.0	70.5	69.5	62.5
Merged-chr8-122405263-4	chr8	122405155	122405355	+	896.275024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029993, intron 9 of 18)	intron (NM_001029993, intron 9 of 18)	-16765.0	NM_145834	234836.0	Mm.222808	NM_145834	ENSMUSG00000046108	Il17c	IL-17C	interleukin 17C	protein-coding	6.5	33.0	20.0	162.5	25.5	14.5	24.5	7.5
Merged-chr15-84325296-4	chr15	84325156	84325356	+	866.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001162500)	promoter-TSS (NM_001162500)	536.0	NM_022321	64099.0	Mm.251356	NM_022321	ENSMUSG00000022439	Parvg	AI413459	parvin, gamma	protein-coding	11.0	14.0	11.0	108.0	27.0	10.0	13.5	18.0
Merged-chr13-85207719-3	chr13	85207623	85207823	+	797.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023243, intron 6 of 8)	intron (NM_023243, intron 6 of 8)	18338.0	NM_023243	66671.0	Mm.18474	NM_023243	ENSMUSG00000021548	Ccnh	6330408H09Rik|AI661354|AV102684|AW538719	cyclin H	protein-coding	6.0	12.0	7.5	97.5	18.0	3.0	9.0	10.5
Merged-chr6-67069971-4	chr6	67069902	67070102	+	703.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040278, intron 4 of 6)	intron (NR_040278, intron 4 of 6)	-32595.0	NM_007836	13197.0	Mm.72235	NM_007836	ENSMUSG00000036390	Gadd45a	AA545191|Ddit1|GADD45	growth arrest and DNA-damage-inducible 45 alpha	protein-coding	11.5	12.0	12.5	86.5	12.5	2.5	7.0	8.0
Merged-chr14-26533998-9	chr14	26533826	26534026	+	928.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001347494, exon 1 of 20)	5' UTR (NM_001347494, exon 1 of 20)	698.0	NM_032008	83997.0	Mm.36769	NM_032008	ENSMUSG00000021870	Slmap	D330001L02Rik|Miranda|Slap|mKIAA1601	sarcolemma associated protein	protein-coding	17.0	11.5	7.0	146.5	26.5	8.5	11.0	17.0
Merged-chr11-78535512-4	chr11	78535422	78535622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018854)	promoter-TSS (NM_018854)	738.0	NM_001159392	21927.0	Mm.386774	NM_009395	ENSMUSG00000017615	Tnfaip1	Bacurd2|Edp-1|Edp1|Tnfip1	tumor necrosis factor, alpha-induced protein 1 (endothelial)	protein-coding	44.5	69.0	42.5	761.5	141.5	37.5	46.5	73.5
Merged-chr12-70005310-4	chr12	70005205	70005405	+	853.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-18303.0	NM_022028	64010.0	Mm.390480	NM_022028	ENSMUSG00000021067	Sav1	1700040G09Rik|Salv|Sav|WW45|Wwp3|Wwp4	salvador family WW domain containing 1	protein-coding	7.5	11.5	9.0	173.0	24.0	8.5	21.5	10.5
Merged-chr13-113877609-4	chr13	113877486	113877686	+	891.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172595, intron 1 of 4)	intron (NM_172595, intron 1 of 4)	83078.0	NM_172595	218639.0	Mm.79837	NM_172595	ENSMUSG00000042348	Arl15	A430036I03|Arfrp2|C230032K13Rik	ADP-ribosylation factor-like 15	protein-coding	9.5	8.5	9.5	179.5	36.5	11.5	15.5	14.0
Merged-chr11-74837798-4	chr11	74837616	74837816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010813, exon 4 of 6)	exon (NM_010813, exon 4 of 6)	6792.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	100.5	170.5	98.5	1137.0	185.5	97.5	110.5	112.0
Merged-chr8-61584845-4	chr8	61584753	61584953	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	L2a|LINE|L2	6316.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	66.5	91.0	83.0	1393.0	170.5	51.5	51.5	84.5
Merged-chr4-155221964-8	chr4	155221936	155222136	+	822.473206	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011385, exon 1 of 7)	exon (NM_011385, exon 1 of 7)	499.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	13.5	7.0	13.0	46.0	36.5	10.0	10.0	12.0
Merged-chr17-45703477-3	chr17	45703373	45703573	+	844.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17124.0	NM_026732	68463.0	Mm.379158	NM_026732	ENSMUSG00000023939	Mrpl14	1110006I11Rik|AI846816|MRP-L32|Rpml32	mitochondrial ribosomal protein L14	protein-coding	2.0	1.0	3.0	54.5	21.0	26.5	35.0	14.0
Merged-chr14-30876984-4	chr14	30876890	30877090	+	830.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028839, exon 8 of 8)	3' UTR (NM_028839, exon 8 of 8)	-2267.0	NM_181390	66175.0	Mm.220895	NM_181390	ENSMUSG00000042485	Mustn1	1110028G01Rik|Mustang	musculoskeletal, embryonic nuclear protein 1	protein-coding	10.0	11.0	11.0	191.5	19.5	8.0	9.5	11.0
Merged-chr16-37109415-2	chr16	37109315	37109515	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001114611, exon 26 of 26)	3' UTR (NM_001114611, exon 26 of 26)	97629.0	NM_001159369	77782.0	Mm.259114	NM_029977	ENSMUSG00000034206	Polq	A430110D14Rik	polymerase (DNA directed), theta	protein-coding	0.0	0.0	2.0	41.0	13.0	5.0	7.0	5.5
Merged-chr7-126667701-3	chr7	126667598	126667798	+	768.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029339, intron 4 of 9)	L1MC4|LINE|L1	8720.0	NM_133670	20887.0	Mm.368982	NM_133670	ENSMUSG00000030711	Sult1a1	AI266890|PST|ST1A1|ST1A4|Stp|Stp1|mSTp1	sulfotransferase family 1A, phenol-preferring, member 1	protein-coding	12.5	31.5	9.0	52.0	29.5	6.0	4.5	8.0
Merged-chr16-4077808-4	chr16	4077716	4077916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026508)	promoter-TSS (NM_026508)	-6.0	NM_026508	68015.0	Mm.123366	NM_026508	ENSMUSG00000005981	Trap1	2410002K23Rik|HSP75	TNF receptor-associated protein 1	protein-coding	88.5	118.0	80.0	1001.5	173.0	80.0	75.0	78.0
Merged-chr4-82859658-4	chr4	82859541	82859741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026647)	promoter-TSS (NM_026647)	32.0	NR_149737	68268.0	Mm.32047	NM_026647	ENSMUSG00000028403	Zdhhc21	9130404H11Rik|AL024349|D130004H04Rik|dep	zinc finger, DHHC domain containing 21	protein-coding	38.5	67.5	102.0	788.5	102.0	55.5	45.5	50.0
Merged-chr15-8992362-4	chr15	8992260	8992460	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198024, intron 1 of 13)	MIRb|SINE|MIR	24411.0	NM_198024	223332.0	Mm.321371	NM_198024	ENSMUSG00000048424	Ranbp3l	C130037N17Rik	RAN binding protein 3-like	protein-coding	106.0	104.0	97.0	1783.0	269.5	107.0	143.5	102.5
Merged-chr7-90457225-4	chr7	90457105	90457305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025460)	promoter-TSS (NM_025460)	3.0	NM_025460	66271.0	Mm.28963	NM_025460	ENSMUSG00000030615	Tmem126a	1810020E01Rik	transmembrane protein 126A	protein-coding	119.0	149.0	87.0	1761.5	292.0	84.5	115.5	96.0
Merged-chr2-45112208-4	chr2	45112107	45112307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110571)	promoter-TSS (NR_110571)	-53.0	NR_110571	433424.0	Mm.441408	NR_110571	ENSMUSG00000052248	Zeb2os	Gm13476|Zeb2nat	zinc finger E-box binding homeobox 2, opposite strand	ncRNA	73.0	115.5	43.5	792.5	171.0	66.5	59.0	58.0
Merged-chr5-101766957-4	chr5	101766853	101767053	+	966.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173370, intron 1 of 12)	intron (NM_173370, intron 1 of 12)	1823.0	NM_173370	74596.0	Mm.46764	NM_173370	ENSMUSG00000029330	Cds1	4833409J18Rik|AI314024|AW125888	CDP-diacylglycerol synthase 1	protein-coding	19.5	20.0	32.0	424.5	40.5	11.5	18.5	26.0
Merged-chr11-117827539-2	chr11	117827439	117827639	+	950.944458	f1_balb.idr|f1_c57bl6.idr	intron (NM_027827, intron 1 of 10)	B1_Mur2|SINE|Alu	-1525.0	NM_009387	21877.0	Mm.2661	NM_009387	ENSMUSG00000025574	Tk1	D530002A18Rik|Tk-1|Tk1a|Tk1b	thymidine kinase 1	protein-coding	1.0	2.5	3.5	77.0	7.5	5.5	5.0	5.5
Merged-chr15-100599021-4	chr15	100598913	100599113	+	912.712524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304965, intron 1 of 10)	intron (NM_001304965, intron 1 of 10)	971.0	NM_001304965	19009.0	Mm.28825	NM_010127	ENSMUSG00000009739	Pou6f1	2310038G18Rik|C79593|Emb|cns-1	POU domain, class 6, transcription factor 1	protein-coding	16.0	19.5	11.5	107.5	36.5	9.0	15.5	17.0
Merged-chr17-78604590-2	chr17	78604490	78604690	+	617.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001197028, intron 8 of 12)	intron (NM_001197028, intron 8 of 12)	96527.0	NM_028813	74199.0	Mm.292983	NM_028813	ENSMUSG00000024076	Vit	1700052E02Rik|1700110E08Rik|2810429K11Rik|AKH|akhirin	vitrin	protein-coding	8.0	6.0	5.0	33.0	9.5	3.0	0.0	1.0
Merged-chr8-4250723-4	chr8	4250542	4250742	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195258, intron 5 of 6)	intron (NM_001195258, intron 5 of 6)	2428.0	NM_001195258	100044509.0	Mm.439193	NM_001195258	ENSMUSG00000089736	Tgfbr3l	Gm14378	transforming growth factor, beta receptor III-like	protein-coding	14.0	19.0	21.0	237.5	32.5	17.5	10.0	12.0
Merged-chr11-85324102-3	chr11	85323987	85324187	+	983.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016910, intron 1 of 5)	intron (NM_016910, intron 1 of 5)	12833.0	NM_016910	53892.0	Mm.45609	NM_016910	ENSMUSG00000020525	Ppm1d	AV338790|Wip1	protein phosphatase 1D magnesium-dependent, delta isoform	protein-coding	27.0	17.5	4.5	247.5	14.0	9.0	9.5	3.0
Merged-chr1-37029375-4	chr1	37029317	37029517	+	849.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-89890.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	4.5	9.0	7.0	70.0	25.0	9.5	13.5	8.5
Merged-chr5-64811744-4	chr5	64811681	64811881	+	782.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	8258.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	8.0	21.0	9.5	86.5	22.0	7.5	11.0	20.0
Merged-chr1-172451307-4	chr1	172451176	172451376	+	756.645874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24084.0	NM_029612	98365.0	Mm.150050	NM_029612	ENSMUSG00000026548	Slamf9	2310026I04Rik|AI462096|CD2F-10|CD84-H1|Cd2f10|SF2001	SLAM family member 9	protein-coding	18.0	13.0	22.5	92.5	15.5	15.0	12.0	13.0
Merged-chr11-50227291-4	chr11	50227153	50227353	+	903.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145926, intron 1 of 14)	intron (NM_145926, intron 1 of 14)	1918.0	NM_145926	103534.0	Mm.86759	NM_145926	ENSMUSG00000036620	Mgat4b	AA407995|GnTIVb	mannoside acetylglucosaminyltransferase 4, isoenzyme B	protein-coding	12.5	25.5	12.0	168.5	24.0	10.0	6.0	6.0
Merged-chr2-35680514-3	chr2	35680421	35680621	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290637, intron 3 of 16)	intron (NM_001290637, intron 3 of 16)	-11473.0	NM_001001602	69601.0	Mm.29629	NM_001001602	ENSMUSG00000026883	Dab2ip	2310011D08Rik|AI480459|Aip1|mKIAA1743	disabled 2 interacting protein	protein-coding	29.0	52.5	17.5	544.5	22.0	8.5	28.0	8.5
Merged-chr4-137968404-2	chr4	137968297	137968497	+	768.833374	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-25059.0	NM_001256198	230861.0	Mm.268903	NM_172703	ENSMUSG00000028760	Eif4g3	1500002J22Rik|4930523M17Rik|G1-419-52|eIF4GII|repro8	eukaryotic translation initiation factor 4 gamma, 3	protein-coding	7.5	8.0	4.0	32.0	23.5	11.5	8.0	9.5
Merged-chr10-75951827-4	chr10	75951741	75951941	+	893.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2673.0	NM_198635	333669.0	Mm.31077	NM_198635	ENSMUSG00000033255	Gm5134	EG333669	predicted gene 5134	protein-coding	12.0	15.0	6.5	116.0	28.5	11.0	4.5	12.5
Merged-chr12-87375865-3	chr12	87375771	87375971	+	843.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011479, intron 1 of 11)	B3|SINE|B2	12484.0	NM_011479	20773.0	Mm.565	NM_011479	ENSMUSG00000021036	Sptlc2	LCB2|LCB2a|Spt2	serine palmitoyltransferase, long chain base subunit 2	protein-coding	10.0	9.5	10.0	164.5	24.0	7.0	13.5	7.5
Merged-chr2-69635899-4	chr2	69635754	69635954	+	972.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-11401.0	NM_028284	72569.0	Mm.252136	NM_028284	ENSMUSG00000063145	Bbs5	1700049I01Rik|2700023J09Rik	Bardet-Biedl syndrome 5 (human)	protein-coding	26.0	16.5	36.0	69.5	32.5	15.5	20.0	17.0
Merged-chr5-139826912-4	chr5	139826804	139827004	+	985.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356963)	promoter-TSS (NM_001356963)	-10.0	NM_025604	66506.0	Mm.29070	NM_025604	ENSMUSG00000029551	Psmg3	1810042K04Rik|4930403H09Rik|AI303239	proteasome (prosome, macropain) assembly chaperone 3	protein-coding	27.0	22.0	8.0	349.0	52.5	20.5	24.0	36.5
Merged-chr13-80953113-4	chr13	80953048	80953248	+	679.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10926.0	NR_015587	319983.0	Mm.343027	NR_015587	ENSMUSG00000097098	9330111N05Rik	-	RIKEN cDNA 9330111N05 gene	ncRNA	14.5	12.0	25.5	242.0	22.0	1.5	11.0	4.5
Merged-chr12-30578254-4	chr12	30578161	30578361	+	928.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6182.0	NM_172049	211986.0	Mm.34035	NM_172049	ENSMUSG00000043061	Tmem18	BC024093	transmembrane protein 18	protein-coding	5.5	9.5	14.5	203.0	32.5	14.5	19.0	9.5
Merged-chr2-128699449-3	chr2	128699394	128699594	+	810.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 1 of 18)	intron (NM_008587, intron 1 of 18)	579.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	6.5	20.0	5.0	124.0	9.0	5.0	3.0	4.5
Merged-chr13-23911519-3	chr13	23911420	23911620	+	936.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177016, intron 1 of 11)	Lx8b|LINE|L1	3487.0	NM_177016	319848.0	Mm.97959	NM_177016	ENSMUSG00000021336	Slc17a4	9130214H05Rik	solute carrier family 17 (sodium phosphate), member 4	protein-coding	16.0	24.0	4.5	207.5	18.0	7.5	9.5	9.0
Merged-chr5-146303667-3	chr5	146303571	146303771	+	639.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001359990)	TTS (NM_001359990)	72421.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	1.0	19.5	6.5	82.0	13.5	5.0	16.0	6.0
Merged-chr8-111941361-1	chr8	111941261	111941461	+	788.0	f0_c57.idr	intron (NM_026693, intron 2 of 3)	intron (NM_026693, intron 2 of 3)	658.0	NM_026693	93739.0	Mm.371666	NM_026693	ENSMUSG00000031950	Gabarapl2	0610012F20Rik|2900019O08Rik|AI173605|GATE-16|Gef2	gamma-aminobutyric acid (GABA) A receptor-associated protein-like 2	protein-coding	7.5	5.0	10.0	190.0	39.0	11.0	8.5	12.5
Merged-chr11-93856501-2	chr11	93856401	93856601	+	752.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29265.0	NM_001013375	217109.0	Mm.379350	NM_001013375	ENSMUSG00000054079	Utp18	6230425C22Rik|6430513M13|Wdr50	UTP18 small subunit processome component	protein-coding	5.0	8.0	1.5	34.5	18.5	7.5	4.5	6.0
Merged-chr7-16729666-2	chr7	16729566	16729766	+	925.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTRETN_Mm|LTR|ERVK	7737.0	NM_011927	26368.0	Mm.27096	NM_011927	ENSMUSG00000007209	Ceacam9	AA410097|AW545709|Cea-5|Cea5|mmCGM8	carcinoembryonic antigen-related cell adhesion molecule 9	protein-coding	7.5	5.0	6.0	25.0	5.0	2.0	3.5	5.0
Merged-chr17-32534278-4	chr17	32534178	32534378	+	965.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2279.0	NM_001356302	70101.0	Mm.30504	NM_024442	ENSMUSG00000048440	Cyp4f16	2310021J05Rik|AI746515	cytochrome P450, family 4, subfamily f, polypeptide 16	protein-coding	33.5	33.5	20.0	444.5	63.5	23.0	22.0	15.0
Merged-chr5-146780147-4	chr5	146780011	146780211	+	971.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	B4A|SINE|B4	14845.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	14.5	19.0	15.5	300.0	33.5	16.0	24.0	18.0
Merged-chr1-93235779-4	chr1	93235690	93235890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172463)	promoter-TSS (NM_172463)	-107.0	NM_172463	208777.0	Mm.271897	NM_172463	ENSMUSG00000047793	Sned1	6720455I24Rik|AI197264|AI642697|D430044C15Rik|SST3|Snep	sushi, nidogen and EGF-like domains 1	protein-coding	67.0	84.5	78.0	1212.0	139.5	31.0	59.5	57.5
Merged-chr7-25265931-2	chr7	25265831	25266031	+	772.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	-1768.0	NM_001302811	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	1.0	11.0	11.0	63.5	17.0	4.5	7.0	12.0
Merged-chr16-57483065-4	chr16	57482998	57483198	+	983.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	-66144.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	26.0	32.0	24.0	195.0	48.5	18.0	18.0	21.0
Merged-chr14-63437378-5	chr14	63437298	63437498	+	932.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177628, intron 1 of 3)	intron (NM_177628, intron 1 of 3)	1004.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	8.5	25.5	11.5	109.5	14.5	9.0	7.0	10.0
Merged-chr2-158167855-4	chr2	158167764	158167964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21472.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	85.5	71.0	183.0	1721.0	185.0	46.0	96.0	95.5
Merged-chr13-9182045-4	chr13	9181954	9182154	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88173.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	17.5	36.0	14.0	249.0	66.0	25.0	26.5	24.0
Merged-chr11-3332333-4	chr11	3332209	3332409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178149, intron 3 of 5)	CpG-1656	1578.0	NM_178149	216505.0	Mm.390323	NM_178149	ENSMUSG00000034614	Pik3ip1	1500004A08Rik|5830455E04Rik|Crkd|Hgfl	phosphoinositide-3-kinase interacting protein 1	protein-coding	56.5	88.5	48.0	1153.5	144.0	59.5	63.5	75.0
Merged-chr6-143050393-4	chr6	143050263	143050463	+	931.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362117, intron 11 of 26)	intron (NM_001362117, intron 11 of 26)	49789.0	NM_001362118	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	13.5	29.0	21.5	640.5	44.0	11.0	18.0	20.0
Merged-chr2-145888576-4	chr2	145888475	145888675	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028724)	TTS (NM_028724)	-14666.0	NM_026425	67877.0	Mm.151168	NM_026425	ENSMUSG00000002728	Naa20	1500004D14Rik|2900026I01Rik|AU041458|D2Ertd186e|Nat5	N(alpha)-acetyltransferase 20, NatB catalytic subunit	protein-coding	172.5	205.0	152.0	2566.5	359.0	143.5	157.5	162.5
Merged-chr15-102459644-3	chr15	102459523	102459723	+	881.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025385, intron 2 of 4)	intron (NM_025385, intron 2 of 4)	453.0	NM_025385	66151.0	Mm.393955	NM_025385	ENSMUSG00000023048	Prr13	1110020C13Rik|2010324E22Rik	proline rich 13	protein-coding	7.5	21.5	9.5	110.5	8.5	3.5	3.5	8.5
Merged-chr4-150237134-4	chr4	150237059	150237259	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025388).2	promoter-TSS (NM_001025388).2	-38.0	NM_023119	13806.0	Mm.70666	NM_023119	ENSMUSG00000063524	Eno1	0610008I15|AL022784|Eno-1|MBP-1	enolase 1, alpha non-neuron	protein-coding	137.5	233.0	85.5	1920.0	359.5	163.5	176.0	193.5
Merged-chr2-132262432-2	chr2	132262332	132262532	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138651)	promoter-TSS (NM_138651)	-716.0	NM_001291040	110911.0	Mm.284503	NM_138651	ENSMUSG00000058793	Cds2	5730450N06Rik|5730460C18Rik|AI854580|D2Wsu127e	CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2	protein-coding	8.5	14.0	3.5	21.0	10.5	7.5	8.0	5.0
Merged-chr10-60390822-2	chr10	60390722	60390922	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 30 of 68)	intron (NM_001252635, intron 30 of 68)	-8904.0	NM_001164374	100302688.0	Mm.444135	NM_001164374	ENSMUSG00000090439	Gm17455	-	predicted gene, 17455	protein-coding	6.5	5.5	3.5	107.0	13.0	8.0	5.0	7.5
Merged-chr18-9552699-5	chr18	9552535	9552735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMVL30-int|LTR|ERV1	66834.0	NM_007593	26369.0	Mm.195831	NM_007593	ENSMUSG00000050996	Cetn1	caltractin	centrin 1	protein-coding	32.5	28.5	58.5	241.5	86.0	29.5	29.5	36.0
Merged-chr12-86819389-4	chr12	86819326	86819526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	65388.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	94.0	177.5	80.0	724.0	280.5	107.0	112.5	78.0
Merged-chr19-45333177-1	chr19	45333077	45333277	+	596.0	f0_balb.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-30557.0	NM_001360122	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	15.0	11.0	5.5	82.5	9.5	4.0	8.5	8.0
Merged-chr9-87021953-4	chr9	87021861	87022061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024195)	promoter-TSS (NM_024195)	-68.0	NM_024195	266690.0	Mm.30166	NM_024195	ENSMUSG00000032872	Cyb5r4	2810034J18Rik|B5+B5R|C79736|Cb5cb5r|Ncb5or|b5/b5r|b5b5r	cytochrome b5 reductase 4	protein-coding	185.0	202.5	174.5	2823.0	463.0	159.0	221.0	177.5
Merged-chr14-50830110-4	chr14	50830000	50830200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 45 of 54)	G-rich|Low_complexity|Low_complexity	22184.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	27.5	22.5	27.5	516.5	107.5	38.0	50.0	43.0
Merged-chr7-118584669-3	chr7	118584587	118584787	+	899.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172476)	promoter-TSS (NM_172476)	-1.0	NM_172476	209760.0	Mm.69380	NM_172476	ENSMUSG00000042246	Tmc7	1700030H01Rik|C230064B05|C630024K23Rik	transmembrane channel-like gene family 7	protein-coding	11.5	7.5	8.5	51.5	18.0	2.0	10.0	14.0
Merged-chr17-6779001-4	chr17	6778894	6779094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009510, intron 1 of 12)	intron (NM_009510, intron 1 of 12)	3786.0	NM_009510	22350.0	Mm.277812	NM_009510	ENSMUSG00000052397	Ezr	AW146364|R75297|Vil2|p81	ezrin	protein-coding	43.5	74.5	27.5	432.0	66.5	29.0	29.0	36.0
Merged-chr11-19972604-4	chr11	19972520	19972720	+	816.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	intron (NM_033523, intron 1 of 5)	48178.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	11.0	39.0	10.0	98.5	31.0	10.5	17.0	8.0
Merged-chr9-16381227-1	chr9	16381127	16381327	+	555.0	f0_balb.idr	Intergenic	Intergenic	-2996.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	1.0	2.0	11.0	123.5	7.0	5.0	5.5	12.5
Merged-chr4-118999822-4	chr4	118999715	118999915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37848.0	NM_133892	100470.0	Mm.26698	NM_133892	ENSMUSG00000024903	Lao1	AW990848	L-amino acid oxidase 1	protein-coding	68.5	145.5	52.0	1042.0	315.5	78.0	126.5	109.5
Merged-chr6-124359165-4	chr6	124359064	124359264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2078.0	NM_001177502	76921.0	Mm.425335	NM_001177502	ENSMUSG00000079346	1700013D24Rik	-	RIKEN cDNA 1700013D24 gene	protein-coding	48.5	61.0	50.0	811.0	130.5	41.5	52.0	54.0
Merged-chr18-54963296-6	chr18	54963200	54963400	+	928.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	26880.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	10.5	16.0	10.0	133.0	25.5	11.0	12.0	15.5
Merged-chr15-8446062-4	chr15	8445965	8446165	+	876.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1602.0	NM_201232	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	14.0	14.0	10.0	92.5	28.5	9.0	7.0	16.5
Merged-chr18-62045135-4	chr18	62044987	62045187	+	788.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	92012.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	9.5	16.0	16.5	148.0	11.0	7.0	6.5	14.0
Merged-chr2-75791973-3	chr2	75791812	75792012	+	883.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40265.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	5.0	2.0	8.5	61.0	10.0	5.5	4.5	11.0
Merged-chr1-40306307-3	chr1	40306228	40306428	+	780.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001123382, intron 8 of 10)	RLTR17|LTR|ERVK	-18261.0	NM_001356478	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	2.5	12.0	1.0	82.5	16.5	10.0	10.5	14.0
Merged-chr8-121591507-4	chr8	121591416	121591616	+	945.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026160, intron 1 of 3)	intron (NM_026160, intron 1 of 3)	1048.0	NM_026160	67443.0	Mm.28357	NM_026160	ENSMUSG00000031812	Map1lc3b	1010001C15Rik|Atg8|LC3b|Map1lc3	microtubule-associated protein 1 light chain 3 beta	protein-coding	17.5	25.0	11.5	255.5	54.5	10.5	16.0	33.5
Merged-chr1-132477422-4	chr1	132477331	132477531	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172517)	promoter-TSS (NM_172517)	64.0	NM_172517	213464.0	Mm.132868	NM_172517	ENSMUSG00000026439	Rbbp5	4933411J24Rik|C330016J05	retinoblastoma binding protein 5, histone lysine methyltransferase complex subunit	protein-coding	26.0	33.0	25.5	250.5	47.5	25.0	22.0	18.0
Merged-chr17-65672880-2	chr17	65672780	65672980	+	619.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 5 of 6)	RLTR13D5|LTR|ERVK	-30676.0	NM_001146002	213272.0	Mm.255732	NM_153519	ENSMUSG00000050612	Txndc2	AU021712|Sptrx-1|Sptrx1|Trx4	thioredoxin domain containing 2 (spermatozoa)	protein-coding	8.5	9.0	8.5	56.0	7.5	3.5	6.5	10.5
Merged-chr15-78597973-4	chr15	78597870	78598070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028195, intron 1 of 12)	intron (NM_028195, intron 1 of 12)	923.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	74.5	74.0	83.0	884.0	115.0	57.5	56.5	49.5
Merged-chr12-104752133-4	chr12	104752037	104752237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148948)	promoter-TSS (NM_148948)	-185.0	NM_148948	192119.0	Mm.21135	NM_148948	ENSMUSG00000041415	Dicer1	1110006F08Rik|D12Ertd7e|mKIAA0928	dicer 1, ribonuclease type III	protein-coding	114.5	161.5	109.5	1475.0	290.5	102.5	109.5	79.0
Merged-chr14-103826530-4	chr14	103826431	103826631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276296, intron 1 of 7)	intron (NM_001276296, intron 1 of 7)	17170.0	NM_007904	13618.0	Mm.229532	NM_007904	ENSMUSG00000022122	Ednrb	ET-B|ET-BR|ETR-b|ETb|Sox10m1	endothelin receptor type B	protein-coding	37.5	27.5	23.0	711.5	52.5	25.0	26.0	32.5
Merged-chr10-9897141-4	chr10	9896978	9897178	+	908.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081344, intron 2 of 25)	intron (NM_001081344, intron 2 of 25)	3962.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	4.5	6.5	9.5	95.5	16.0	5.0	9.0	7.5
Merged-chr5-30961060-1	chr5	30960960	30961160	+	1000.0	f0_c57.idr	promoter-TSS (NM_016703)	promoter-TSS (NM_016703)	-733.0	NM_016703	50907.0	Mm.272414	NM_016703	ENSMUSG00000045302	Preb	C85705	prolactin regulatory element binding	protein-coding	10.0	23.0	8.0	146.5	48.0	16.0	27.0	19.0
Merged-chr19-47003903-1	chr19	47003803	47004003	+	970.0	f0_balb.idr	intron (NM_001164363, intron 1 of 17)	Lx8b|LINE|L1	-10795.0	NM_146100	226180.0	Mm.276251	NM_146100	ENSMUSG00000034336	Ina	AV028420|NF-66|NF66	internexin neuronal intermediate filament protein, alpha	protein-coding	4.0	17.5	9.5	190.0	13.5	15.0	9.5	6.5
Merged-chr11-63914518-4	chr11	63914418	63914618	+	938.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018805, intron 1 of 1)	intron (NM_018805, intron 1 of 1)	7766.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	14.5	19.5	14.0	240.0	34.5	17.0	15.0	12.5
Merged-chr4-141670471-4	chr4	141670367	141670567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6352.0	NM_001033150	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	75.5	109.0	53.5	1085.0	208.0	71.0	57.5	86.5
Merged-chr7-122289810-4	chr7	122289672	122289872	+	937.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 1 of 16)	CpG	647.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	20.0	16.5	11.5	203.5	20.5	6.5	10.0	14.0
Merged-chr5-129787213-4	chr5	129787042	129787242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009838)	promoter-TSS (NM_009838)	111.0	NM_133900	100678.0	Mm.271784	NM_133900	ENSMUSG00000029446	Psph	AI480570|PSP|PSPase	phosphoserine phosphatase	protein-coding	109.5	162.0	153.5	1305.5	229.5	121.5	114.5	128.0
Merged-chr2-118158289-4	chr2	118158190	118158390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46414.0	NM_001313914	21825.0	Mm.4159	NM_011580	ENSMUSG00000040152	Thbs1	TSP-1|TSP1|Thbs-1|tbsp1	thrombospondin 1	protein-coding	23.0	43.5	24.5	449.0	54.5	25.5	35.0	25.0
Merged-chr10-76237941-4	chr10	76237852	76238052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126571)	promoter-TSS (NR_126571)	-87.0	NM_133182	15468.0	Mm.32020	NM_133182	ENSMUSG00000020230	Prmt2	AI504737|Hrmt1l1	protein arginine N-methyltransferase 2	protein-coding	74.5	138.0	87.0	1437.0	166.0	63.0	87.0	56.5
Merged-chr15-76332910-3	chr15	76332812	76333012	+	831.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010331, exon 6 of 12)	exon (NM_010331, exon 6 of 12)	1618.0	NM_010331	14731.0	Mm.5903	NM_010331	ENSMUSG00000022561	Gpaa1	C80044|mGAA1	GPI anchor attachment protein 1	protein-coding	2.5	11.0	5.0	94.0	24.0	14.5	9.0	6.0
Merged-chr1-74307653-4	chr1	74307551	74307751	+	953.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039509, intron 2 of 9)	B1_Mur2|SINE|Alu	-3315.0	NM_027154	69660.0	Mm.261182	NM_027154	ENSMUSG00000006301	Tmbim1	2310061B02Rik|AA960455|AU024746|C78899|RECS1|Tmbib1|mKIAA4161	transmembrane BAX inhibitor motif containing 1	protein-coding	18.5	32.0	11.0	244.0	27.0	14.0	19.0	33.5
Merged-chr9-110841586-4	chr9	110841471	110841671	+	837.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153172)	TTS (NM_153172)	-2935.0	NM_183103	74306.0	Mm.87419	NM_183103	ENSMUSG00000049719	Prss46	1700112C13Rik|79H19B|Tessp6	protease, serine 46	protein-coding	15.0	17.0	20.0	213.5	26.5	15.0	6.5	12.5
Merged-chr11-20455220-4	chr11	20455133	20455333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-88020.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	20.5	32.5	30.0	350.5	55.5	21.5	32.5	23.0
Merged-chr6-129713798-4	chr6	129713692	129713892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001012520, intron 1 of 5)	intron (NM_001012520, intron 1 of 5)	3340.0	NM_001012520	503550.0	Mm.376476	NM_001012520	ENSMUSG00000067610	Klri1	-	killer cell lectin-like receptor family I member 1	protein-coding	67.0	46.5	65.5	1015.0	125.5	65.0	79.0	71.0
Merged-chr13-5865465-4	chr13	5865346	5865546	+	935.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011803, intron 2 of 3)	intron (NM_011803, intron 2 of 3)	3957.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	19.5	26.5	15.5	108.0	43.0	11.0	12.0	14.5
Merged-chr11-69411809-4	chr11	69411717	69411917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001017426, intron 1 of 22)	CpG	1858.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	86.5	127.0	63.0	942.5	282.0	75.5	83.0	86.5
Merged-chr2-168556276-4	chr2	168556181	168556381	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	intron (NM_001037177, intron 3 of 6)	34084.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	18.5	35.0	37.0	534.5	47.0	15.5	31.0	18.0
Merged-chr16-45371216-2	chr16	45371117	45371317	+	774.799988	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	37836.0	NM_001358443	17470.0	Mm.245851	NM_010818	ENSMUSG00000022661	Cd200	Mox2|OX2	CD200 antigen	protein-coding	17.5	12.5	14.5	230.0	9.0	0.5	1.0	10.5
Merged-chr12-17239075-3	chr12	17238926	17239126	+	657.722229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27569.0	NM_027959	71853.0	Mm.222825	NM_027959	ENSMUSG00000020571	Pdia6	1700015E05Rik|AL023058|C77895|CaBP5|P5|Txndc7	protein disulfide isomerase associated 6	protein-coding	0.0	4.0	2.0	34.5	58.5	11.0	14.0	14.5
Merged-chr14-10139535-4	chr14	10139466	10139666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360141, intron 5 of 9)	intron (NM_001360141, intron 5 of 9)	255471.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	68.0	97.0	88.0	1281.0	182.5	58.0	72.5	87.0
Merged-chr4-123139953-4	chr4	123139854	123140054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019489)	promoter-TSS (NM_019489)	-13.0	NM_019489	56031.0	Mm.126873	NM_019489	ENSMUSG00000028651	Ppie	2010010D16Rik|Cyp33	peptidylprolyl isomerase E (cyclophilin E)	protein-coding	61.5	90.0	37.0	613.5	167.0	40.5	68.5	68.5
Merged-chr11-114913070-4	chr11	114912958	114913158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21328.0	NM_001347651	217304.0	Mm.185355	NM_199221	ENSMUSG00000063193	Cd300lb	CLM-7|Clm7|Gm253|LMIR5	CD300 molecule like family member B	protein-coding	91.5	140.5	110.5	1417.0	215.0	106.5	84.0	116.0
Merged-chr15-102442717-2	chr15	102442617	102442817	+	830.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2285.0	NM_001356575	110542.0	Mm.60331	NM_144547	ENSMUSG00000023047	Amhr2	Misiir|Misrii|Mrii	anti-Mullerian hormone type 2 receptor	protein-coding	5.5	2.5	3.5	42.0	20.0	6.0	5.0	7.0
Merged-chr5-124579097-4	chr5	124579019	124579219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181410)	promoter-TSS (NM_181410)	12.0	NM_145371	209354.0	Mm.28839	NM_145371	ENSMUSG00000029388	Eif2b1	D5Ertd406e|EIF2BA	eukaryotic translation initiation factor 2B, subunit 1 (alpha)	protein-coding	83.5	91.5	45.5	784.5	143.5	74.0	64.5	72.5
Merged-chr3-38373895-2	chr3	38373795	38373995	+	863.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110921.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	7.5	2.0	3.5	148.5	12.5	5.0	15.5	6.0
Merged-chr6-128408747-4	chr6	128408643	128408843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133927)	TTS (NM_133927)	8977.0	NM_001162858	60345.0	Mm.269883	NM_021717	ENSMUSG00000001520	Nrip2	AW491344|NIX1	nuclear receptor interacting protein 2	protein-coding	44.5	46.0	54.5	982.5	68.5	8.0	36.0	45.5
Merged-chr19-57623872-2	chr19	57623777	57623977	+	936.5	f0_balb.idr|f1_balb.idr	intron (NM_181415, intron 1 of 28)	intron (NM_181415, intron 1 of 28)	12843.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	11.0	15.0	26.0	241.5	7.5	1.5	4.0	3.0
Merged-chr11-61499355-4	chr11	61499263	61499463	+	974.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5097.0	NM_001291034	23939.0	Mm.38172	NM_011841	ENSMUSG00000001034	Mapk7	BMK-1|BMK1|ERK-5|ERK5|Erk5-T|PRKM7|b2b2346Clo	mitogen-activated protein kinase 7	protein-coding	17.5	20.0	17.0	186.0	40.5	10.5	18.0	15.0
Merged-chr16-35022355-4	chr16	35022270	35022470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023587)	promoter-TSS (NM_023587)	-51.0	NM_023587	70757.0	Mm.27286	NM_023587	ENSMUSG00000035376	Hacd2	6330408J20Rik|AI255777|AI481689|Hcad2|Ptplb	3-hydroxyacyl-CoA dehydratase 2	protein-coding	113.5	107.5	68.0	1295.5	197.0	82.5	101.5	89.5
Merged-chr5-92509859-3	chr5	92509770	92509970	+	666.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4213.0	NM_007644	12492.0	Mm.297964	NM_007644	ENSMUSG00000029426	Scarb2	9330185J12Rik|Cd36l2|LGP85|LIMP II|LIMP-2|MLGP85	scavenger receptor class B, member 2	protein-coding	5.0	8.0	15.5	96.5	11.0	7.0	3.5	11.0
Merged-chr8-122428362-3	chr8	122428228	122428428	+	729.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301284, intron 1 of 4)	intron (NM_001301284, intron 1 of 4)	4612.0	NM_001301284	13057.0	Mm.271671	NM_007806	ENSMUSG00000006519	Cyba	b558|nmf333|p22-phox|p22phox	cytochrome b-245, alpha polypeptide	protein-coding	4.5	6.5	6.0	140.5	19.0	2.0	6.5	13.5
Merged-chr12-73585415-3	chr12	73585267	73585467	+	750.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008856, exon 1 of 14)	exon (NM_008856, exon 1 of 14)	571.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	5.0	9.5	6.5	90.5	13.5	3.5	4.5	1.5
Merged-chr1-64533622-4	chr1	64533528	64533728	+	929.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037726, intron 1 of 6)	CpG	824.0	NM_001037726	12912.0	Mm.422634	NM_009952	ENSMUSG00000025958	Creb1	2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1	cAMP responsive element binding protein 1	protein-coding	15.0	26.5	14.5	159.5	43.5	16.0	10.5	12.0
Merged-chr10-28516297-3	chr10	28516188	28516388	+	971.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359356, intron 13 of 30)	intron (NM_001359356, intron 13 of 30)	-152072.0	NM_001305663	210757.0	Mm.123021	NM_178666	ENSMUSG00000049109	Themis	E430004N04Rik|Gasp|Spot|Tsepa|thylex	thymocyte selection associated	protein-coding	4.5	20.5	11.0	226.0	8.0	3.0	8.5	3.0
Merged-chr7-44891733-4	chr7	44891587	44891787	+	852.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331206, intron 3 of 16)	intron (NM_001331206, intron 3 of 16)	737.0	NM_001331208	75613.0	Mm.157778	NM_029365	ENSMUSG00000002968	Med25	2610034E13Rik|2610529E18Rik|ESTM2	mediator complex subunit 25	protein-coding	11.5	21.5	6.0	118.0	28.5	13.5	10.5	26.5
Merged-chr6-136658734-5	chr6	136658596	136658796	+	909.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	RSINE1|SINE|B4	3197.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	11.0	11.5	15.5	185.0	21.0	7.0	5.5	11.0
Merged-chr4-125123020-4	chr4	125122918	125123118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153159, intron 2 of 5)	intron (NM_153159, intron 2 of 5)	4863.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	35.0	49.5	32.0	466.5	65.0	12.0	26.5	16.5
Merged-chr3-81036824-4	chr3	81036728	81036928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019971, exon 1 of 6)	5' UTR (NM_019971, exon 1 of 6)	412.0	NM_001357746	54635.0	Mm.331089	NM_019971	ENSMUSG00000028019	Pdgfc	1110064L01Rik|AI647969|PDGF-C|SCDGF|VEGF-E	platelet-derived growth factor, C polypeptide	protein-coding	23.0	56.5	62.5	601.5	54.5	24.0	30.5	35.0
Merged-chr3-108880666-4	chr3	108880575	108880775	+	828.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177091, intron 4 of 12)	intron (NM_177091, intron 4 of 12)	9333.0	NM_177091	320181.0	Mm.244233	NM_177091	ENSMUSG00000045326	Fndc7	E230011A21Rik	fibronectin type III domain containing 7	protein-coding	14.0	14.5	6.5	82.0	21.0	16.0	13.0	16.0
Merged-chr1-78536917-4	chr1	78536810	78537010	+	735.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026713, intron 6 of 6)	intron (NM_026713, intron 6 of 6)	25850.0	NM_026713	68393.0	Mm.41325	NM_026713	ENSMUSG00000012187	Mogat1	0610030A14Rik|1110064N14Rik|Dgat2l|Dgat2l1|MGAT1|WI1-2612I11.1|mDC2	monoacylglycerol O-acyltransferase 1	protein-coding	17.5	14.5	12.0	164.0	19.5	2.5	17.0	10.5
Merged-chr15-76576509-5	chr15	76576419	76576619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172960, intron 1 of 14)	CpG	160.0	NR_073123	268822.0	Mm.181624	NM_172960	ENSMUSG00000022550	Adck5	A230108P17	aarF domain containing kinase 5	protein-coding	53.5	104.0	117.0	721.0	132.5	67.0	57.0	88.0
Merged-chr17-25318555-3	chr17	25318458	25318658	+	832.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053260)	promoter-TSS (NM_053260)	-96.0	NM_053260	114662.0	Mm.207082	NM_053260	ENSMUSG00000034039	Prss29	D19363|Isp2|mISP-2	protease, serine 29	protein-coding	11.5	11.0	22.5	356.5	16.5	0.5	11.0	14.0
Merged-chr15-73645311-4	chr15	73645175	73645375	+	979.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-20531.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	10.0	18.5	17.0	246.0	42.0	16.0	16.0	16.5
Merged-chr12-69159223-4	chr12	69159125	69159325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009093)	promoter-TSS (NM_009093)	-39.0	NM_009093	20090.0	Mm.379006	NM_009093	ENSMUSG00000034892	Rps29	-	ribosomal protein S29	protein-coding	274.0	411.0	295.5	2865.0	706.5	281.5	262.0	264.5
Merged-chr10-80931927-4	chr10	80931827	80932027	+	873.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008655, exon 4 of 4)	3' UTR (NM_008655, exon 4 of 4)	1836.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	8.5	15.0	18.0	65.0	34.0	8.0	11.5	9.5
Merged-chr3-126624131-8	chr3	126623874	126624074	+	835.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	27023.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	5.5	6.5	8.5	19.0	3.5	9.0	3.5	5.0
Merged-chr18-11773763-2	chr18	11773667	11773867	+	655.0	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65507.0	NM_001146287	63955.0	Mm.40717	NM_022021	ENSMUSG00000040957	Cables1	Cables|ik3-1	CDK5 and Abl enzyme substrate 1	protein-coding	13.0	6.0	4.5	158.0	3.0	2.0	5.5	16.5
Merged-chr13-37964245-3	chr13	37964148	37964348	+	802.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29960.0	NM_025965	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	4.0	9.0	5.0	80.5	6.0	7.5	8.0	12.0
Merged-chr6-29467697-4	chr6	29467592	29467792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025381)	promoter-TSS (NM_025381)	-91.0	NM_025381	66144.0	Mm.371614	NM_025381	ENSMUSG00000004285	Atp6v1f	1110004G16Rik	ATPase, H+ transporting, lysosomal V1 subunit F	protein-coding	84.0	139.0	45.5	883.5	233.5	97.0	80.5	96.0
Merged-chr4-134497573-1	chr4	134497473	134497673	+	785.0	f1_balb.idr	intron (NM_001285849, intron 1 of 2)	intron (NM_001285849, intron 1 of 2)	532.0	NM_001285849	71904.0	Mm.142343	NM_027995	ENSMUSG00000037348	Paqr7	2310021M12Rik|AV001994|BB007237|Mpra|PGLP|mPR	progestin and adipoQ receptor family member VII	protein-coding	5.0	6.0	5.0	54.5	4.5	7.0	6.5	7.0
Merged-chr2-163918667-2	chr2	163918567	163918767	+	980.3333130000001	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183023)	promoter-TSS (NM_183023)	16.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	4.5	7.5	5.5	52.0	17.0	5.0	4.0	5.5
Merged-chr5-130278335-4	chr5	130278236	130278436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153350, intron 8 of 15)	intron (NR_153350, intron 8 of 15)	21299.0	NM_001015876	100929.0	Mm.271296	NM_178897	ENSMUSG00000056310	Tyw1	AW125391|Rsafd1	tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)	protein-coding	26.0	42.5	33.0	666.0	53.5	17.0	30.0	28.0
Merged-chr13-100642645-4	chr13	100642543	100642743	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283011, intron 4 of 17)	B2_Mm2|SINE|B2	8418.0	NM_001044371	19356.0	Mm.248489	NM_011233	ENSMUSG00000021635	Rad17	MmRad24	RAD17 checkpoint clamp loader component	protein-coding	20.5	27.0	5.0	271.5	33.5	15.0	25.5	22.0
Merged-chr7-16052958-4	chr7	16052878	16053078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18867.0	NM_001347559	666528.0	Mm.290718	NM_001099277	ENSMUSG00000078796	Zfp541	EG666528|Znf541	zinc finger protein 541	protein-coding	111.5	135.0	71.5	1428.5	324.0	106.0	128.0	88.5
Merged-chr12-4843955-4	chr12	4843850	4844050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170858, intron 1 of 3)	(TG)n|Simple_repeat|Simple_repeat	647.0	NM_001170858	238037.0	Mm.146087	NM_173416	ENSMUSG00000051721	Wdcp	A430092C04	WD repeat and coiled coil containing	protein-coding	29.5	33.5	25.5	284.5	95.0	16.5	20.0	32.0
Merged-chr13-45392674-3	chr13	45392592	45392792	+	910.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153789, intron 2 of 6)	RSINE1|SINE|B4	2950.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	4.5	14.5	16.5	99.5	11.0	5.5	1.0	3.5
Merged-chr9-16233749-4	chr9	16233626	16233826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 2 of 24)	MTC|LTR|ERVL-MaLR	144505.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	41.5	41.0	41.0	766.5	117.0	23.5	43.5	44.0
Merged-chr1-54449031-4	chr1	54448900	54449100	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9974.0	NM_001033194	98488.0	Mm.25856	NM_001033194	ENSMUSG00000041303	Gtf3c3	TF3C-gamma|TFIIIC102	general transcription factor IIIC, polypeptide 3	protein-coding	15.5	30.0	28.0	308.5	44.5	9.0	15.5	9.0
Merged-chr1-135659251-3	chr1	135659152	135659352	+	913.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60811.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	11.0	15.0	9.5	183.5	11.0	3.5	4.0	3.5
Merged-chr3-66978865-3	chr3	66978785	66978985	+	759.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302358)	promoter-TSS (NM_001302358)	-74.0	NM_001302358	20429.0	Mm.39093	NM_013665	ENSMUSG00000027833	Shox2	6330543G17Rik|OG12|Og12x|Prx3|SHOT	short stature homeobox 2	protein-coding	5.0	10.5	7.0	178.0	12.0	1.5	5.0	6.0
Merged-chr7-101360645-4	chr7	101360551	101360751	+	968.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	12582.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	16.0	36.5	14.5	175.5	44.5	11.0	26.5	25.0
Merged-chr4-132808285-4	chr4	132808204	132808404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11940.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	62.0	81.0	34.5	828.5	138.5	65.5	49.0	64.5
Merged-chr2-52956110-4	chr2	52956010	52956210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	intron (NM_172409, intron 1 of 26)	98242.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	85.0	98.5	102.5	1322.0	166.0	58.0	78.5	63.0
Merged-chr8-109868505-4	chr8	109868423	109868623	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122594)	promoter-TSS (NM_001122594)	-80.0	NM_001122594	244650.0	Mm.23494	NM_001122594	ENSMUSG00000031732	Phlpp2	AI481772|C130044A18Rik|Phlppl	PH domain and leucine rich repeat protein phosphatase 2	protein-coding	152.5	185.5	157.5	2212.0	394.0	134.0	167.5	116.5
Merged-chr3-96160381-4	chr3	96160286	96160486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001025614, exon 12 of 12)	3' UTR (NM_001025614, exon 12 of 12)	-1584.0	NM_181409	194126.0	Mm.268536	NM_181409	ENSMUSG00000045934	Mtmr11	AI035306|BC051083|Cra	myotubularin related protein 11	protein-coding	49.5	84.5	38.0	827.0	99.0	42.0	49.5	53.5
Merged-chr9-78615720-3	chr9	78615646	78615846	+	912.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153098, exon 1 of 33)	5' UTR (NM_153098, exon 1 of 33)	200.0	NM_153098	235505.0	Mm.32955	NM_153098	ENSMUSG00000046186	Cd109	9930012E15Rik|AI480638|GARP	CD109 antigen	protein-coding	4.5	11.0	5.0	86.0	9.0	6.5	7.0	4.0
Merged-chr8-10901151-4	chr8	10901017	10901217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102285, intron 2 of 2)	intron (NR_102285, intron 2 of 2)	1195.0	NR_102285	71624.0	Mm.139075	NR_102285	ENSMUSG00000109089	4833411C07Rik	-	RIKEN cDNA 4833411C07 gene	ncRNA	118.5	142.0	128.5	1256.5	285.5	93.0	90.0	72.0
Merged-chr1-177703079-4	chr1	177703014	177703214	+	881.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26700.0	NM_027077	69428.0	Mm.84467	NM_027077	ENSMUSG00000015962	1700016C15Rik	-	RIKEN cDNA 1700016C15 gene	protein-coding	8.5	19.0	13.5	151.5	35.5	9.5	10.5	7.0
Merged-chr8-116264641-4	chr8	116264545	116264745	+	851.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-240370.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	6.0	9.0	13.5	120.5	37.0	9.0	11.5	11.0
Merged-chr10-62507198-3	chr10	62507082	62507282	+	937.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	ID_B1|SINE|B4	575.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	12.5	30.0	26.5	121.5	45.5	17.5	13.0	13.0
Merged-chr6-115901257-4	chr6	115901141	115901341	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167763, intron 15 of 28)	intron (NM_001167763, intron 15 of 28)	-30686.0	NM_145383	212541.0	Mm.2965	NM_145383	ENSMUSG00000030324	Rho	Noerg1|Opn2|Ops|RP4	rhodopsin	protein-coding	68.0	117.0	76.0	942.5	220.0	54.0	72.5	83.0
Merged-chr10-78159449-3	chr10	78159356	78159556	+	834.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10312.0	NM_138601	28295.0	Mm.268691	NM_138601	ENSMUSG00000053329	D10Jhu81e	C21orf33|ES1	DNA segment, Chr 10, Johns Hopkins University 81 expressed	protein-coding	9.0	7.5	7.5	111.5	24.0	2.5	4.0	6.5
Merged-chr3-121536931-3	chr3	121536821	121537021	+	711.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4577.0	NM_145394	213603.0	Mm.33062	NM_145394	ENSMUSG00000039865	Slc44a3	BC010552	solute carrier family 44, member 3	protein-coding	6.0	7.0	6.5	124.5	3.5	6.0	9.0	7.0
Merged-chr17-88551677-4	chr17	88551566	88551766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 7 of 21)	intron (NM_028658, intron 7 of 21)	21542.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	79.5	109.5	93.0	1200.5	146.5	65.0	101.5	88.0
Merged-chr8-121930201-4	chr8	121930111	121930311	+	816.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007608, intron 2 of 6)	RLTR20C2_MM|LTR|ERVK	14701.0	NM_007608	12352.0	Mm.116761	NM_007608	ENSMUSG00000025317	Car5a	CAV|Ca5a|Car5	carbonic anhydrase 5a, mitochondrial	protein-coding	13.0	25.0	21.5	352.5	22.5	4.0	16.0	11.5
Merged-chr16-50613110-3	chr16	50613021	50613221	+	719.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040566, intron 3 of 4)	intron (NR_040566, intron 3 of 4)	-21967.0	NM_027046	69339.0	Mm.422869	NM_027046	ENSMUSG00000050685	Ccdc54	1700007N18Rik|AI644412|BB013989|NYD-SP17	coiled-coil domain containing 54	protein-coding	6.0	7.5	7.0	153.0	13.0	7.5	4.5	6.5
Merged-chr16-91885213-2	chr16	91885124	91885324	+	881.349976	f0_balb.idr|f1_balb.idr	intron (NM_010587, intron 28 of 38)	intron (NM_010587, intron 28 of 38)	46406.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	24.0	18.0	6.0	196.0	3.0	1.0	1.0	3.0
Merged-chr11-116918803-4	chr11	116918701	116918901	+	819.783325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172948)	promoter-TSS (NM_172948)	-62.0	NM_172948	268510.0	Mm.35141	NM_172948	ENSMUSG00000043857	Mgat5b	C330018B01|GnT-IX|mGnTVB	mannoside acetylglucosaminyltransferase 5, isoenzyme B	protein-coding	17.0	29.5	7.0	142.0	41.0	11.5	15.5	8.5
Merged-chr9-64242504-4	chr9	64242408	64242608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008927, intron 1 of 10)	MTC|LTR|ERVL-MaLR	7307.0	NM_033607	93841.0	Mm.390180	NM_033607	ENSMUSG00000035337	Uchl4	-	ubiquitin carboxyl-terminal esterase L4	protein-coding	24.5	52.5	31.0	271.5	98.5	36.0	33.0	41.0
Merged-chr2-83724923-3	chr2	83724834	83725034	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 1 of 29)	CpG	537.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	16.5	16.5	25.5	282.0	42.5	18.5	31.5	33.0
Merged-chr4-8837666-4	chr4	8837560	8837760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355382, intron 14 of 36)	intron (NM_001355382, intron 14 of 36)	86336.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	75.0	118.0	114.5	1450.5	262.5	83.5	121.5	102.5
Merged-chr1-39916314-4	chr1	39916218	39916418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	ORR1B2-int|LTR|ERVL-MaLR	15405.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	54.0	37.5	74.5	1247.0	147.5	38.5	82.0	69.5
Merged-chr6-24645524-4	chr6	24645428	24645628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028459, intron 1 of 10)	intron (NM_028459, intron 1 of 10)	19467.0	NM_001167745	73178.0	Mm.1574	NM_028459	ENSMUSG00000029684	Wasl	2900021I12Rik|3110031I02Rik|N-WASP	Wiskott-Aldrich syndrome-like (human)	protein-coding	85.0	98.5	80.5	1093.0	136.0	50.5	61.5	53.5
Merged-chr11-106752332-4	chr11	106752233	106752433	+	995.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033435, intron 2 of 6)	intron (NM_001033435, intron 2 of 6)	1107.0	NM_001033435	380732.0	Mm.343952	NM_001033435	ENSMUSG00000040528	Milr1	Allergin-1|Gm885|Mca32	mast cell immunoglobulin like receptor 1	protein-coding	30.0	38.5	40.0	676.5	77.0	20.0	25.0	20.5
Merged-chr17-5765949-4	chr17	5765857	5766057	+	933.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32700.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	21.0	25.0	32.5	729.0	35.0	13.0	46.5	40.5
Merged-chr14-66232722-4	chr14	66232607	66232807	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162366, intron 1 of 30)	intron (NM_001162366, intron 1 of 30)	-18883.0	NM_001360233	19229.0	Mm.21613	NM_172498	ENSMUSG00000059456	Ptk2b	CADTK|CAKB|CAKbeta|E430023O05Rik|FADK2|FAK2|PYK2|Raftk	PTK2 protein tyrosine kinase 2 beta	protein-coding	25.5	61.0	21.5	311.0	63.5	41.5	36.0	27.0
Merged-chr12-85516026-3	chr12	85515946	85516146	+	840.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42156.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	6.0	24.0	7.0	115.5	46.5	4.0	3.5	7.0
Merged-chr11-115163254-4	chr11	115163169	115163369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012030)	promoter-TSS (NM_012030)	-72.0	NM_012030	26941.0	Mm.27842	NM_012030	ENSMUSG00000020733	Slc9a3r1	EBP-50|NHE-RF|NHERF-1|NHERF1	solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1	protein-coding	225.5	361.5	203.0	2836.0	637.0	218.0	283.0	210.0
Merged-chr10-17383162-4	chr10	17383053	17383253	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-287371.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	46.0	58.5	41.0	482.5	106.5	26.0	40.5	25.5
Merged-chr11-116785042-1	chr11	116784942	116785142	+	576.0	f0_balb.idr	Intergenic	RLTR24B_MM|LTR|ERV1	-9535.0	NM_011371	20445.0	Mm.436887	NM_011371	ENSMUSG00000009588	St6galnac1	Siat7a	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1	protein-coding	11.0	7.0	5.0	51.5	4.0	0.5	0.0	0.5
Merged-chr2-14244358-3	chr2	14244264	14244464	+	854.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 3 of 29)	ID4|SINE|ID	14950.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	8.5	10.5	12.0	34.0	16.0	5.5	4.5	8.0
Merged-chr11-105496846-4	chr11	105496728	105496928	+	898.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40093.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	8.5	19.0	8.5	219.0	30.5	14.0	7.5	16.5
Merged-chr4-48045949-4	chr4	48045852	48046052	+	841.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015743, intron 1 of 7)	intron (NM_015743, intron 1 of 7)	647.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	13.0	10.5	6.5	96.0	55.5	8.5	16.5	13.0
Merged-chr1-186261499-1	chr1	186261399	186261599	+	590.0	f0_balb.idr	Intergenic	Intergenic	-144189.0	NM_146106	226791.0	Mm.257116	NM_146106	ENSMUSG00000039246	Lyplal1	BC027340|Q96AVO	lysophospholipase-like 1	protein-coding	4.5	7.5	8.0	263.5	0.0	0.0	0.0	1.5
Merged-chr9-40814228-4	chr9	40814121	40814321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12948.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	36.0	83.0	27.0	606.5	172.5	48.5	58.0	65.0
Merged-chr3-100436859-4	chr3	100436762	100436962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040543, intron 2 of 2)	intron (NR_040543, intron 2 of 2)	10457.0	NR_040543	73806.0	Mm.396549	NR_040543	ENSMUSG00000086923	4930406D18Rik	-	RIKEN cDNA 4930406D18 gene	ncRNA	86.0	141.0	71.5	1016.0	367.5	151.0	118.5	110.5
Merged-chr3-122987109-2	chr3	122987009	122987209	+	606.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2662.0	NM_133857	99526.0	Mm.491248	NM_133857	ENSMUSG00000039701	Usp53	AA939927|Phxr3|Sp6|mKIAA1350|mbo	ubiquitin specific peptidase 53	protein-coding	3.0	5.0	4.5	51.5	26.0	11.0	4.5	4.5
Merged-chr15-97169601-4	chr15	97169561	97169761	+	896.741699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2417.0	NR_155279	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	7.0	10.5	5.5	107.0	7.5	11.0	2.5	7.0
Merged-chr2-138256640-4	chr2	138256541	138256741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025431)	promoter-TSS (NM_001025431)	57.0	NM_001025431	228662.0	Mm.153405	NM_145534	ENSMUSG00000062098	Btbd3	mKIAA0952	BTB (POZ) domain containing 3	protein-coding	45.0	37.0	58.0	659.0	56.0	28.5	34.5	38.5
Merged-chr11-69079047-4	chr11	69078949	69079149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	5623.0	NR_028566	100216530.0	Mm.453052	NR_028566	ENSMUSG00000064899	Snord118	MBI-34	small nucleolar RNA, C/D box 118	snoRNA	104.5	167.0	73.0	1360.0	199.5	81.0	133.0	79.5
Merged-chr18-4921515-4	chr18	4921421	4921621	+	976.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109035.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	42.5	45.0	24.5	406.5	27.5	18.0	31.0	30.5
Merged-chr11-103032646-2	chr11	103032546	103032746	+	648.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_008707, intron 1 of 11)	RSINE1|SINE|B4	4103.0	NM_008707	18107.0	Mm.10265	NM_008707	ENSMUSG00000020936	Nmt1	AW536594	N-myristoyltransferase 1	protein-coding	6.5	22.0	4.5	56.0	16.5	2.0	4.5	3.0
Merged-chr15-66919565-4	chr15	66919451	66919651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018865, exon 5 of 5)	3' UTR (NM_018865, exon 5 of 5)	28158.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	32.0	36.0	32.5	717.0	63.5	28.5	37.5	44.0
Merged-chr4-149586896-5	chr4	149586836	149587036	+	757.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023051, intron 1 of 18)	CpG	468.0	NM_023051	65945.0	Mm.38993	NM_023051	ENSMUSG00000039953	Clstn1	1810034E21Rik|Cst-1|Cstn1	calsyntenin 1	protein-coding	3.5	9.0	2.0	35.0	17.5	4.5	9.0	7.0
Merged-chr16-21403575-5	chr16	21403428	21403628	+	894.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-19590.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	8.5	4.5	16.0	101.5	10.0	3.0	10.5	5.5
Merged-chr5-121721985-4	chr5	121721872	121722072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	Tigger15a|DNA|TcMar-Tigger	10363.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	55.5	104.0	65.0	1149.0	165.0	74.0	67.5	70.0
Merged-chr13-33045863-3	chr13	33045783	33045983	+	611.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18469.0	NM_011452	20706.0	Mm.45371	NM_011452	ENSMUSG00000021403	Serpinb9b	1600019A21Rik|R86|SPI-CI|Spi10|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 9b	protein-coding	5.0	4.5	5.0	38.5	10.0	6.5	5.5	13.5
Merged-chr6-3487570-4	chr6	3487456	3487656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178899, intron 1 of 9)	intron (NM_178899, intron 1 of 9)	6942.0	NM_178899	101202.0	Mm.206911	NM_178899	ENSMUSG00000044156	Hepacam2	AI987662	HEPACAM family member 2	protein-coding	66.5	91.5	87.0	1227.0	200.5	64.0	55.0	68.5
Merged-chr12-40248915-3	chr12	40248822	40249022	+	756.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25558.0	NR_045157	629820.0	Mm.435540	NR_045157	ENSMUSG00000035983	Gm7008	EG629820	predicted gene 7008	ncRNA	6.0	8.5	16.0	131.0	19.5	3.5	6.5	9.0
Merged-chr15-34428923-3	chr15	34428788	34428988	+	879.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358780, intron 14 of 18)	intron (NM_001358780, intron 14 of 18)	14337.0	NM_009083	19946.0	Mm.358632	NM_009083	ENSMUSG00000058600	Rpl30	-	ribosomal protein L30	protein-coding	11.0	9.5	8.5	109.5	9.5	7.5	1.5	2.5
Merged-chr19-5073358-2	chr19	5073258	5073458	+	815.785706	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5280.0	NM_054042	70445.0	Mm.29597	NM_054042	ENSMUSG00000056481	Cd248	2610111G01Rik|AI842296|Cd164l1|Tem1	CD248 antigen, endosialin	protein-coding	4.5	3.0	5.5	26.5	13.5	6.0	8.0	8.0
Merged-chr15-39943144-6	chr15	39943024	39943224	+	996.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172814, intron 1 of 6)	intron (NM_172814, intron 1 of 6)	870.0	NM_001347036	239393.0	Mm.39874	NM_172814	ENSMUSG00000022305	Lrp12	AI848829|C820005L12Rik|LRP-12	low density lipoprotein-related protein 12	protein-coding	14.5	18.0	17.0	192.0	21.0	14.0	15.0	18.0
Merged-chr7-45053836-2	chr7	45053739	45053939	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175022)	promoter-TSS (NM_175022)	-958.0	NM_175022	233210.0	Mm.219137	NM_175022	ENSMUSG00000046574	Prr12	6720469B10|BC058674	proline rich 12	protein-coding	13.0	20.5	9.5	207.5	71.0	22.5	21.5	39.0
Merged-chr2-11394844-4	chr2	11394749	11394949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040615, intron 1 of 2)	intron (NR_040615, intron 1 of 2)	3651.0	NR_040615	77543.0	Mm.490670	NR_040615	ENSMUSG00000102674	8030442B05Rik	-	RIKEN cDNA 8030442B05 gene	ncRNA	29.5	26.0	35.0	363.5	85.0	27.0	23.0	25.0
Merged-chr3-79531869-4	chr3	79531730	79531930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	35849.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	171.0	226.0	210.5	2652.5	299.0	117.5	142.5	150.0
Merged-chr7-101663656-4	chr7	101663570	101663770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009191)	promoter-TSS (NM_009191)	-98.0	NM_009191	20480.0	Mm.3990	NM_009191	ENSMUSG00000001829	Clpb	AL118244|Skd3	ClpB caseinolytic peptidase B	protein-coding	97.0	158.0	51.0	1156.5	263.5	94.0	92.5	59.5
Merged-chr10-18931630-3	chr10	18931495	18931695	+	874.400024	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	80368.0	NM_001166402	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	9.5	6.0	5.0	32.0	21.0	14.5	14.0	12.0
Merged-chr15-80220464-4	chr15	80220360	80220560	+	868.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13620.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	13.5	15.5	8.0	126.5	25.5	14.5	10.5	12.0
Merged-chr17-5582399-4	chr17	5582279	5582479	+	905.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	89779.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	12.0	15.5	15.5	284.0	27.0	15.0	13.5	10.0
Merged-chr5-92349657-6	chr5	92349583	92349783	+	954.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021274)	promoter-TSS (NM_021274)	-794.0	NM_021274	15945.0	Mm.877	NM_021274	ENSMUSG00000034855	Cxcl10	C7|CRG-2|INP10|IP-10|IP10|Ifi10|Scyb10|gIP-10|mob-1	chemokine (C-X-C motif) ligand 10	protein-coding	18.5	30.5	5.5	78.0	49.5	30.0	8.0	25.0
Merged-chr14-75147907-4	chr14	75147813	75148013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	L1_Mus3|LINE|L1	11488.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	55.0	89.5	31.0	208.5	164.5	42.5	34.0	32.0
Merged-chr17-55749971-4	chr17	55749864	55750064	+	997.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139138)	promoter-TSS (NM_139138)	-20.0	NM_139138	52614.0	Mm.210497	NM_139138	ENSMUSG00000032915	Adgre4	D17Ertd479e|Egf-tm7|Emr4|Fire|Gpr127	adhesion G protein-coupled receptor E4	protein-coding	25.5	59.5	61.5	659.0	86.5	13.5	34.0	23.0
Merged-chr13-32908416-4	chr13	32908317	32908517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-10277.0	NM_173051	380839.0	Mm.250802	NM_173051	ENSMUSG00000079049	Serpinb1c	EIC|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1c	protein-coding	65.0	46.5	56.5	992.5	148.5	30.5	43.0	48.0
Merged-chr14-30196487-4	chr14	30196371	30196571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 4 of 46)	intron (NM_001083616, intron 4 of 46)	157015.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	42.5	62.0	25.0	550.0	79.0	24.5	38.5	56.0
Merged-chr12-80839167-4	chr12	80839052	80839252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178682, intron 2 of 5)	ORR1D2|LTR|ERVL-MaLR	48620.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	17.5	20.0	27.0	434.0	72.0	32.5	23.5	28.5
Merged-chr11-50841583-4	chr11	50841496	50841696	+	991.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290779)	promoter-TSS (NM_001290779)	-44.0	NM_173387	214779.0	Mm.191846	NM_173387	ENSMUSG00000044296	Zfp879	Znf879	zinc finger protein 879	protein-coding	34.5	26.5	25.5	596.5	47.0	25.5	25.0	23.5
Merged-chr14-67899010-4	chr14	67898918	67899118	+	956.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177780, intron 1 of 51)	intron (NM_177780, intron 1 of 51)	34554.0	NM_177780	68813.0	Mm.258155	NM_177780	ENSMUSG00000044447	Dock5	1110060D06Rik|AI666732|AI956923|BC016533|E130320D18|lr2|rlc	dedicator of cytokinesis 5	protein-coding	15.0	8.0	12.5	234.5	36.0	8.0	12.0	21.0
Merged-chr8-71988716-3	chr8	71988648	71988848	+	726.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024444, intron 12 of 12)	intron (NM_024444, intron 12 of 12)	20878.0	NM_024444	72054.0	Mm.160020	NM_024444	ENSMUSG00000003484	Cyp4f18	1810054N16Rik|Cyp4f3|Cypf18	cytochrome P450, family 4, subfamily f, polypeptide 18	protein-coding	7.5	6.5	6.0	88.5	11.0	12.0	5.5	10.0
Merged-chr15-80225970-1	chr15	80225870	80226070	+	590.0	f0_balb.idr	Intergenic	B3|SINE|B2	-8110.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	5.5	18.0	9.5	93.5	16.0	8.5	8.0	12.5
Merged-chr17-4994394-4	chr17	4994291	4994491	+	991.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001085355)	promoter-TSS (NM_001085355)	-683.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	18.0	29.5	33.0	335.5	72.0	18.0	15.0	20.0
Merged-chr2-167717010-4	chr2	167716927	167717127	+	985.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25850.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	20.0	54.0	18.5	279.0	54.0	34.5	17.5	27.5
Merged-chr16-12469798-3	chr16	12469694	12469894	+	835.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-341596.0	NR_040507	75493.0	Mm.396146	NR_040507	ENSMUSG00000101565	1700003L19Rik	-	RIKEN cDNA 1700003L19 gene	ncRNA	6.0	9.5	8.5	88.5	14.5	7.5	7.0	5.0
Merged-chr18-64599975-1	chr18	64599875	64600075	+	771.0	f0_balb.idr	intron (NM_001001488, intron 2 of 27)	intron (NM_001001488, intron 2 of 27)	61025.0	NM_001001488	54670.0	Mm.270043	NM_001001488	ENSMUSG00000039529	Atp8b1	AI451886|FIC1|Ic	ATPase, class I, type 8B, member 1	protein-coding	5.0	11.5	6.0	85.5	3.0	1.5	1.0	1.0
Merged-chr16-90386367-4	chr16	90386311	90386511	+	922.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015755)	promoter-TSS (NM_015755)	14.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	3.5	11.5	9.0	200.0	22.5	9.0	12.5	8.5
Merged-chr9-24512106-4	chr9	24512042	24512242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9002.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	42.5	46.0	72.0	1329.0	88.0	21.5	40.0	45.0
Merged-chr16-44762071-4	chr16	44761942	44762142	+	881.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3694.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	13.5	14.5	16.0	162.0	35.5	8.0	19.0	10.5
Merged-chr9-54736518-4	chr9	54736418	54736618	+	874.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1969.0	NM_001025375	66317.0	Mm.28437	NM_023191	ENSMUSG00000061559	Wdr61	2700038L12Rik|2810418I05Rik|REC14	WD repeat domain 61	protein-coding	24.5	24.5	14.0	260.5	25.5	12.5	11.5	14.0
Merged-chr13-63563922-4	chr13	63563813	63564013	+	843.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001328514, intron 1 of 23)	CpG-3956	1822.0	NM_008957	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	8.0	12.0	8.0	106.0	27.5	5.0	12.0	6.5
Merged-chr17-84328659-3	chr17	84328561	84328761	+	951.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183021, intron 28 of 37)	intron (NM_183021, intron 28 of 37)	137547.0	NM_183021	240174.0	Mm.246767	NM_177826	ENSMUSG00000024251	Thada	6530405K19|A930021O22|AU019899|BC052885|GITA	thyroid adenoma associated	protein-coding	9.0	5.5	15.5	280.0	16.5	10.5	15.5	7.0
Merged-chr5-99358186-4	chr5	99358083	99358283	+	984.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 3 of 3)	intron (NR_030692, intron 3 of 3)	-105256.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	34.0	89.5	34.5	362.0	54.5	17.5	20.0	18.5
Merged-chr10-121365999-4	chr10	121365908	121366108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	intron (NM_029364, intron 1 of 13)	918.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	62.5	100.0	122.0	1213.5	623.5	253.5	281.5	269.0
Merged-chr8-124863094-4	chr8	124862981	124863181	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025615)	promoter-TSS (NM_025615)	48.0	NM_010322	14712.0	Mm.29114	NM_010322	ENSMUSG00000031985	Gnpat	AU019525|D1Ertd819e|DHAPAT	glyceronephosphate O-acyltransferase	protein-coding	112.5	180.5	99.0	1435.0	245.0	83.5	108.0	96.0
Merged-chr17-56938972-4	chr17	56938893	56939093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D1|LTR|ERVL-MaLR	-3605.0	NM_022328	64144.0	Mm.148748	NM_022328	ENSMUSG00000024212	Mllt1	AA407901|BAM11|ENL|LTG19	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 1	protein-coding	67.5	97.0	44.5	1124.0	164.0	85.5	63.5	72.0
Merged-chr9-90270603-7	chr9	90270540	90270740	+	970.380981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_194334, exon 1 of 13)	exon (NM_194334, exon 1 of 13)	129.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	6.0	12.0	16.0	169.5	27.5	6.5	13.5	11.0
Merged-chr3-101494036-4	chr3	101493948	101494148	+	920.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110659.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	11.0	18.0	6.0	229.5	32.0	16.0	16.0	16.0
Merged-chr10-93803491-3	chr10	93803415	93803615	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-28040.0	NM_001206851	327799.0	Mm.491598	NM_183199	ENSMUSG00000020020	Usp44	E430004F17Rik	ubiquitin specific peptidase 44	protein-coding	2.0	1.0	5.0	11.0	62.0	20.0	27.5	25.0
Merged-chr4-122838610-4	chr4	122838518	122838718	+	961.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008917, intron 1 of 8)	L2b|LINE|L2	2391.0	NM_008917	19063.0	Mm.277719	NM_008917	ENSMUSG00000028657	Ppt1	9530043G02Rik|AA960502|C77813|CLN1|D4Ertd184e|INCL|PPT	palmitoyl-protein thioesterase 1	protein-coding	19.5	23.5	16.0	327.0	51.5	19.5	17.5	24.5
Merged-chr11-80155827-4	chr11	80155745	80155945	+	998.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 2 of 10)	intron (NM_172133, intron 2 of 10)	1683.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	18.0	33.5	22.5	350.0	53.5	29.0	19.0	24.0
Merged-chr3-116007424-4	chr3	116007339	116007539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023214)	promoter-TSS (NM_023214)	-10.0	NM_021388	58193.0	Mm.41739	NM_021388	ENSMUSG00000027963	Extl2	3000001D04Rik|AW146439	exostoses (multiple)-like 2	protein-coding	91.5	162.5	70.5	926.5	231.0	129.5	112.5	61.5
Merged-chr5-117120012-4	chr5	117119904	117120104	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199685)	promoter-TSS (NM_001199685)	-125.0	NM_001199685	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	213.0	333.0	220.5	2485.0	495.0	215.5	222.0	156.5
Merged-chr16-57391574-4	chr16	57391478	57391678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	LSU-rRNA_Hsa|rRNA|rRNA	38301.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	181.5	223.5	130.0	599.0	447.5	137.0	191.0	354.5
Merged-chr4-148625889-3	chr4	148625789	148625989	+	932.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003898, intron 1 of 6)	intron (NM_001003898, intron 1 of 6)	1107.0	NR_027864	230908.0	Mm.22453	NM_145556	ENSMUSG00000041459	Tardbp	1190002A23Rik|C85084|TDP-43|Tdp43	TAR DNA binding protein	protein-coding	8.5	9.0	13.0	107.5	31.5	3.0	8.5	7.5
Merged-chr17-8868088-4	chr17	8867980	8868180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347321, intron 1 of 21)	intron (NM_001347321, intron 1 of 21)	18095.0	NM_001347321	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	59.5	51.5	46.5	957.0	101.5	19.0	45.5	35.5
Merged-chr7-36717807-2	chr7	36717707	36717907	+	813.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172298, intron 1 of 1)	intron (NM_172298, intron 1 of 1)	19689.0	NM_172298	243931.0	Mm.44141	NM_172298	ENSMUSG00000021217	Tshz3	A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3	teashirt zinc finger family member 3	protein-coding	4.0	6.0	3.0	66.5	31.0	18.5	9.0	8.0
Merged-chr7-110002228-4	chr7	110002127	110002327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037959, intron 2 of 2)	RLTR49|LTR|ERVK	4419.0	NR_037959	69781.0	Mm.440728	NR_037959	ENSMUSG00000101585	1600010M07Rik	-	RIKEN cDNA 1600010M07 gene	ncRNA	23.5	33.5	35.5	609.0	75.5	17.0	30.0	32.5
Merged-chr18-79993663-7	chr18	79993605	79993805	+	957.369019	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53190.0	NM_053117	93737.0	Mm.24678	NM_053117	ENSMUSG00000056214	Pard6g	2410049N21Rik|Par6a	par-6 family cell polarity regulator gamma	protein-coding	10.0	7.5	17.5	287.0	12.0	3.5	3.5	7.0
Merged-chr17-5025584-4	chr17	5025491	5025691	+	936.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 1 of 19)	intron (NM_001085355, intron 1 of 19)	30517.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	4.0	4.0	11.5	155.0	38.0	16.0	10.5	12.0
Merged-chr2-128739547-5	chr2	128739489	128739689	+	821.286682	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008587, intron 4 of 18)	intron (NM_008587, intron 4 of 18)	40674.0	NM_008587	17289.0	Mm.239655	NM_008587	ENSMUSG00000014361	Mertk	Eyk|Mer|Nyk|nmf12	c-mer proto-oncogene tyrosine kinase	protein-coding	12.0	14.5	7.0	190.0	18.5	6.0	4.5	6.0
Merged-chr17-83680433-4	chr17	83680341	83680541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-25722.0	NM_001171054	116871.0	Mm.277668	NM_054082	ENSMUSG00000055817	Mta3	1110002J22Rik|mKIAA1266	metastasis associated 3	protein-coding	34.0	44.0	44.5	743.0	89.5	35.5	34.5	48.5
Merged-chr1-97337108-4	chr1	97337028	97337228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-208825.0	NM_028942	74441.0	Mm.60362	NM_028942	ENSMUSG00000026331	Slco6c1	4933404A18Rik|C79179	solute carrier organic anion transporter family, member 6c1	protein-coding	57.5	47.5	64.0	878.5	64.5	36.5	29.0	39.5
Merged-chr10-44702275-4	chr10	44702177	44702377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-243529.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	66.0	158.5	109.0	1761.0	187.0	66.0	89.0	88.5
Merged-chr1-120293977-4	chr1	120293885	120294085	+	916.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-22903.0	NM_001085409	68428.0	Mm.181033	NM_133186	ENSMUSG00000026389	Steap3	1010001D01Rik|Tsap6|pHyde	STEAP family member 3	protein-coding	11.0	18.0	12.0	345.0	48.0	7.5	19.5	14.0
Merged-chr14-20640201-3	chr14	20640093	20640293	+	699.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	16347.0	NM_021508	59011.0	Mm.439911	NM_021508	ENSMUSG00000068697	Myoz1	2310001N11Rik|AV090278|FATZ|Myoz	myozenin 1	protein-coding	4.5	9.5	4.5	83.0	9.5	6.5	2.5	3.0
Merged-chr9-57646825-4	chr9	57646733	57646933	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304761, intron 2 of 14)	MIR|SINE|MIR	-1180.0	NM_007783	12988.0	Mm.21974	NM_007783	ENSMUSG00000032312	Csk	AW212630|p50CSK	c-src tyrosine kinase	protein-coding	60.0	84.5	59.5	1213.0	99.5	34.5	58.5	81.0
Merged-chr5-137076297-4	chr5	137076207	137076407	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4035.0	NM_008871	18787.0	Mm.250422	NM_008871	ENSMUSG00000037411	Serpine1	PAI-1|PAI1|Planh1	serine (or cysteine) peptidase inhibitor, clade E, member 1	protein-coding	112.0	135.5	99.5	1586.5	174.5	101.5	118.5	86.5
Merged-chr12-73046746-4	chr12	73046658	73046858	+	942.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009189)	promoter-TSS (NM_009189)	-46.0	NM_009189	20471.0	Mm.4645	NM_009189	ENSMUSG00000051367	Six1	BB138287	sine oculis-related homeobox 1	protein-coding	16.0	21.5	25.0	365.0	38.0	16.5	13.5	21.5
Merged-chr3-108113903-4	chr3	108113857	108114057	+	805.142883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010306, intron 5 of 8)	intron (NM_010306, intron 5 of 8)	20891.0	NM_008141	14686.0	Mm.439652	NM_008141	ENSMUSG00000009108	Gnat2	AW490837|Gnat-2|Gt-2|Tcalpha	guanine nucleotide binding protein, alpha transducing 2	protein-coding	18.0	12.5	7.0	147.0	6.5	8.5	4.5	10.5
Merged-chr10-94225573-2	chr10	94225474	94225674	+	933.125	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	26565.0	NM_025551	66414.0	Mm.27886	NM_025551	ENSMUSG00000020022	Ndufa12	2410011G03Rik|AW112974	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12	protein-coding	13.0	46.5	9.0	296.0	0.5	0.5	1.5	4.5
Merged-chr11-55461314-4	chr11	55461202	55461402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009720)	promoter-TSS (NM_009720)	-94.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	298.0	545.0	294.0	3552.0	848.5	344.0	385.5	314.5
Merged-chr15-84896400-3	chr15	84896308	84896508	+	879.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44C|LTR|ERVK	-27020.0	NM_016714	18141.0	Mm.28379	NM_016714	ENSMUSG00000016619	Nup50	1700030K07Rik|AI413123|Npap60	nucleoporin 50	protein-coding	9.5	12.0	8.0	125.5	13.5	7.0	6.0	0.0
Merged-chr17-87246027-4	chr17	87245934	87246134	+	893.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19913.0	NM_176808	193813.0	Mm.30251	NM_139295	ENSMUSG00000024150	Mcfd2	1810021C21Rik|F5f8d|Lman1ip|Sdnsf	multiple coagulation factor deficiency 2	protein-coding	13.0	11.0	20.5	450.0	22.0	1.5	10.0	14.5
Merged-chr7-34229570-4	chr7	34229504	34229704	+	878.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008155, intron 1 of 17)	intron (NM_008155, intron 1 of 17)	732.0	NM_008155	14751.0	Mm.589	NM_008155	ENSMUSG00000036427	Gpi1	Amf|Gpi|Gpi-1|Gpi-1r|Gpi-1s|Gpi-1t|Gpi1-r|Gpi1-s|Gpi1-t|Gpi1s|MF|NK|NK/GPI|Nlk|Org|Pgi|Phi	glucose phosphate isomerase 1	protein-coding	14.0	14.5	10.5	293.0	18.0	7.0	8.0	13.0
Merged-chr10-128805489-4	chr10	128805370	128805570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359824)	promoter-TSS (NM_001359824)	-84.0	NM_001359825	74330.0	Mm.296915	NM_028873	ENSMUSG00000025354	Dnajc14	5730551F12Rik|DNAJ|DRIP78|HDJ3|LIP6	DnaJ heat shock protein family (Hsp40) member C14	protein-coding	255.5	347.0	235.5	3228.5	497.5	224.0	247.5	222.0
Merged-chr15-83171893-4	chr15	83171802	83172002	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029787, intron 1 of 8)	CpG	306.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	103.0	159.0	92.0	1294.5	309.5	110.5	113.5	98.0
Merged-chr6-125422491-4	chr6	125422379	125422579	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-41975.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	32.0	27.0	29.5	262.5	67.0	19.5	27.0	28.0
Merged-chr14-8114344-4	chr14	8114250	8114450	+	928.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360314, intron 1 of 19)	intron (NM_001360314, intron 1 of 19)	16139.0	NM_001360315	218699.0	Mm.29515	NM_145458	ENSMUSG00000033885	Pxk	C230080L11Rik|D14Ertd813e|Monaka|Slob	PX domain containing serine/threonine kinase	protein-coding	11.5	37.0	26.5	199.0	41.5	11.0	15.0	9.0
Merged-chr7-25316710-4	chr7	25316616	25316816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160400)	promoter-TSS (NM_001160400)	-448.0	NM_001160400	269878.0	Mm.38527	NM_001160400	ENSMUSG00000045039	Megf8	AW049492|Egfl4|b2b1702.2Clo|b2b1702Clo|b2b288Clo|m687Ddg|mKIAA0817	multiple EGF-like-domains 8	protein-coding	186.5	258.5	265.0	2994.5	417.0	146.5	196.5	213.0
Merged-chr2-167786079-4	chr2	167785996	167786196	+	987.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	94919.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	28.5	49.0	17.0	302.0	20.5	6.5	16.5	25.5
Merged-chr19-40963200-4	chr19	40963100	40963300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008528, intron 4 of 16)	intron (NM_008528, intron 4 of 16)	31335.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	100.5	131.0	68.0	1548.0	155.5	38.5	53.0	53.0
Merged-chr8-3621418-4	chr8	3621314	3621514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026156)	promoter-TSS (NM_026156)	-118.0	NM_026156	67439.0	Mm.23739	NM_026156	ENSMUSG00000019470	Xab2	0610041O14Rik|AV025587	XPA binding protein 2	protein-coding	298.5	432.5	228.5	3631.0	755.5	265.0	240.0	228.5
Merged-chr7-27325909-4	chr7	27325810	27326010	+	902.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113549, intron 11 of 29)	intron (NM_001113549, intron 11 of 29)	7738.0	NM_001113549	108075.0	Mm.272251	NM_175641	ENSMUSG00000040488	Ltbp4	2310046A13Rik	latent transforming growth factor beta binding protein 4	protein-coding	17.0	33.5	20.0	271.5	24.5	8.5	12.0	10.0
Merged-chr10-127049577-4	chr10	127049484	127049684	+	844.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010009, intron 2 of 8)	intron (NM_010009, intron 2 of 8)	1338.0	NM_010009	13115.0	Mm.6216	NM_010009	ENSMUSG00000006724	Cyp27b1	Cp2b|Cyp1|Cyp27b|Cyp40|P450c1|Pddr|Vdd1|Vddr|VddrI|Vdr	cytochrome P450, family 27, subfamily b, polypeptide 1	protein-coding	3.0	15.5	6.0	162.0	24.0	16.5	11.5	10.5
Merged-chr9-119417368-1	chr9	119417268	119417468	+	580.0	f1_balb.idr	intron (NM_007397, intron 1 of 9)	intron (NM_007397, intron 1 of 9)	15190.0	NM_001313757	11481.0	Mm.8940	NM_007397	ENSMUSG00000061393	Acvr2b	4930516B21Rik|ActRIIB	activin receptor IIB	protein-coding	0.0	1.0	4.0	34.5	10.0	6.0	8.0	5.0
Merged-chr10-60349220-4	chr10	60349115	60349315	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 1 of 6)	intron (NM_028732, intron 1 of 6)	2364.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	120.0	114.5	169.0	2519.0	162.5	56.0	87.5	60.0
Merged-chr1-80757589-4	chr1	80757492	80757692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 1 of 55)	intron (NM_175291, intron 1 of 55)	961.0	NM_175291	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	65.5	132.0	46.0	430.0	195.0	57.5	51.5	30.0
Merged-chr8-11039038-4	chr8	11038950	11039150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 1 of 4)	intron (NR_046017, intron 1 of 4)	-30620.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	124.5	134.0	110.0	2219.0	174.5	85.0	118.5	93.5
Merged-chr7-25248484-6	chr7	25248381	25248581	+	970.888916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010155, intron 1 of 3)	intron (NM_010155, intron 1 of 3)	2277.0	NM_010155	13875.0	Mm.8068	NM_010155	ENSMUSG00000040857	Erf	-	Ets2 repressor factor	protein-coding	13.5	17.0	6.0	189.0	32.5	7.5	14.0	14.5
Merged-chr12-75572476-1	chr12	75572376	75572576	+	622.0	f0_balb.idr	intron (NM_012024, intron 2 of 13)	intron (NM_012024, intron 2 of 13)	23724.0	NM_012024	26932.0	Mm.259626	NM_012024	ENSMUSG00000021051	Ppp2r5e	4633401M22Rik|AI449017|B56beta	protein phosphatase 2, regulatory subunit B', epsilon	protein-coding	5.5	12.5	5.0	104.5	3.5	5.0	2.0	1.0
Merged-chr11-77404186-3	chr11	77404073	77404273	+	719.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177710, intron 4 of 14)	intron (NM_177710, intron 4 of 14)	55893.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	8.5	7.0	17.5	110.0	14.5	7.5	4.0	7.0
Merged-chr19-53332169-4	chr19	53332071	53332271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008543, intron 2 of 5)	intron (NM_001008543, intron 2 of 5)	1763.0	NM_001008543	17859.0	Mm.2154	NM_010847	ENSMUSG00000025025	Mxi1	Gm10197|Mad2|bHLHc11	MAX interactor 1, dimerization protein	protein-coding	139.5	150.0	257.0	2537.0	256.5	114.5	166.5	137.0
Merged-chr5-139668662-4	chr5	139668552	139668752	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67681.0	NM_174850	231830.0	Mm.240510	NM_174850	ENSMUSG00000036718	Micall2	A930021H16Rik|JRAB|MICAL-L2|mFLJ00139	MICAL-like 2	protein-coding	19.5	20.0	4.5	204.5	44.5	18.5	27.5	19.0
Merged-chr11-5020903-2	chr11	5020803	5021003	+	691.666687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001243043, intron 7 of 22)	intron (NM_001243043, intron 7 of 22)	34079.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	7.0	4.5	6.0	178.0	1.0	1.0	1.0	1.5
Merged-chr13-42829719-4	chr13	42829615	42829815	+	770.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005740, intron 1 of 12)	intron (NM_001005740, intron 1 of 12)	-36532.0	NM_001302636	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	6.0	9.5	10.5	41.5	25.0	7.5	8.0	9.0
Merged-chr18-36726700-4	chr18	36726597	36726797	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009841, exon 1 of 2)	5' UTR (NM_009841, exon 1 of 2)	118.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	146.5	177.0	175.0	2735.5	270.5	87.5	149.5	128.0
Merged-chr1-131138900-4	chr1	131138806	131139006	+	823.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145508)	promoter-TSS (NM_145508)	-672.0	NM_145508	226419.0	Mm.39299	NM_145508	ENSMUSG00000016526	Dyrk3	BC006704	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3	protein-coding	6.0	13.0	8.0	118.5	22.0	11.0	11.5	14.0
Merged-chr11-121041402-4	chr11	121041287	121041487	+	727.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1909.0	NM_009854	12516.0	Mm.4100	NM_009854	ENSMUSG00000025163	Cd7	-	CD7 antigen	protein-coding	9.5	9.5	5.5	119.5	21.5	14.5	8.0	12.0
Merged-chr2-153234944-3	chr2	153234840	153235040	+	925.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018807, intron 2 of 2)	Charlie15a|DNA|hAT-Charlie	6418.0	NM_018807	54711.0	Mm.103199	NM_018807	ENSMUSG00000051413	Plagl2	AU018672|AW552839|mKIAA0198	pleiomorphic adenoma gene-like 2	protein-coding	2.0	7.5	6.5	34.5	45.5	12.0	8.0	13.0
Merged-chr2-160010746-5	chr2	160010623	160010823	+	807.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-5930.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	11.0	6.0	8.0	100.0	10.0	2.5	2.0	13.5
Merged-chr10-121739840-4	chr10	121739735	121739935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359720)	promoter-TSS (NM_001359720)	-95.0	NM_001359720	270802.0	Mm.209172	NM_173022	ENSMUSG00000053684	BC048403	E030027L10	cDNA sequence BC048403	protein-coding	102.5	139.0	121.0	1522.0	167.0	73.5	75.5	107.5
Merged-chr19-44422347-6	chr19	44422236	44422436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14627.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	20.0	74.5	85.5	893.5	41.5	19.0	26.0	24.0
Merged-chr8-71294202-4	chr8	71294085	71294285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142322, intron 2 of 39)	intron (NM_001142322, intron 2 of 39)	21471.0	NM_001142323	17925.0	Mm.33779	NM_015742	ENSMUSG00000004677	Myo9b	-	myosin IXb	protein-coding	64.0	81.0	61.5	907.0	91.0	17.0	17.0	34.5
Merged-chr2-80315094-4	chr2	80314978	80315178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024181)	promoter-TSS (NM_024181)	-388.0	NM_024181	66861.0	Mm.21762	NM_024181	ENSMUSG00000027006	Dnajc10	1200006L06Rik|D2Ertd706e|ERdj5|JPDI	DnaJ heat shock protein family (Hsp40) member C10	protein-coding	23.0	46.0	29.0	503.5	91.0	45.5	24.0	35.5
Merged-chr15-13173720-3	chr15	13173631	13173831	+	953.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007666)	promoter-TSS (NM_007666)	-56.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	8.0	14.5	18.0	173.0	8.0	14.5	7.0	5.5
Merged-chr12-44919092-4	chr12	44919000	44919200	+	822.983337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	MLT2B2|LTR|ERVL	155383.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	10.0	9.0	8.5	250.5	30.0	11.0	31.0	14.0
Merged-chr1-93754092-4	chr1	93753989	93754189	+	937.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_174874)	promoter-TSS (NM_174874)	749.0	NM_025920	67026.0	Mm.272356	NM_025920	ENSMUSG00000026279	Thap4	2010320B01Rik	THAP domain containing 4	protein-coding	14.0	10.0	22.0	215.5	23.0	12.5	12.5	19.5
Merged-chr17-17871139-4	chr17	17871087	17871287	+	966.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	12752.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	15.5	21.0	24.0	302.5	51.5	21.0	17.5	16.5
Merged-chr2-6471951-4	chr2	6471877	6472077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	119241.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	51.0	48.0	58.0	943.5	115.0	46.0	68.5	38.0
Merged-chr3-27743504-3	chr3	27743405	27743605	+	766.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33053.0	NM_173182	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	8.0	11.0	9.0	113.5	17.5	5.5	7.0	1.0
Merged-chr4-132535603-4	chr4	132535500	132535700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172400)	promoter-TSS (NM_172400)	41.0	NM_172400	68598.0	Mm.29685	NM_172400	ENSMUSG00000054405	Dnajc8	1110021D09Rik|2010009J04Rik|AL024084|AU019262|AU044514	DnaJ heat shock protein family (Hsp40) member C8	protein-coding	28.5	63.5	35.0	347.0	126.5	35.5	28.0	56.5
Merged-chr5-149184443-4	chr5	149184331	149184531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286825)	promoter-TSS (NM_001286825)	-129.0	NM_001115153	231915.0	Mm.29402	NM_001013378	ENSMUSG00000041264	Uspl1	E430026A01Rik	ubiquitin specific peptidase like 1	protein-coding	282.5	433.0	252.5	3229.5	713.5	302.0	372.5	287.0
Merged-chr11-54787082-4	chr11	54786957	54787157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178626, intron 1 of 5)	CpG	646.0	NM_178626	72729.0	Mm.29476	NM_178626	ENSMUSG00000052298	Cdc42se2	2810404F18Rik|AA408783|AA536669|SPEC2	CDC42 small effector 2	protein-coding	27.5	52.5	28.0	245.0	73.0	29.0	20.0	22.5
Merged-chr7-43466548-4	chr7	43466468	43466668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001290316, exon 5 of 10)	exon (NM_001290316, exon 5 of 10)	3335.0	NM_001290316	75690.0	Mm.30200	NM_001290316	ENSMUSG00000070604	Vsig10l	-	V-set and immunoglobulin domain containing 10 like	protein-coding	46.5	50.5	23.5	450.0	101.5	40.5	45.5	29.5
Merged-chr7-143764049-2	chr7	143763949	143764149	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_203492, exon 2 of 2)	3' UTR (NM_203492, exon 2 of 2)	2944.0	NM_203492	381974.0	Mm.297839	NM_203492	ENSMUSG00000050276	Mrgprg	Gm1098|Mrgg	MAS-related GPR, member G	protein-coding	2.0	6.0	4.5	35.0	21.0	8.0	6.5	7.0
Merged-chr9-49489092-4	chr9	49489006	49489206	+	866.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2881.0	NM_172770	235330.0	Mm.177413	NM_172770	ENSMUSG00000040219	Ttc12	E330017O07Rik	tetratricopeptide repeat domain 12	protein-coding	12.0	16.0	3.0	197.0	36.5	9.0	11.5	12.0
Merged-chr9-110711576-4	chr9	110711473	110711673	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028312)	TTS (NM_028312)	31037.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	6.5	17.5	13.5	115.5	34.5	9.5	8.0	15.5
Merged-chr12-91008398-4	chr12	91008293	91008493	+	972.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181815, intron 25 of 25)	intron (NM_181815, intron 25 of 25)	-37455.0	NR_045858	71349.0	Mm.442093	NR_045858	ENSMUSG00000085004	5430427M07Rik	-	RIKEN cDNA 5430427M07 gene	ncRNA	30.0	32.0	51.5	662.0	55.5	13.5	23.5	21.5
Merged-chr10-41595773-4	chr10	41595645	41595845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 30 of 47)	intron (NM_001358562, intron 30 of 47)	27729.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	91.0	100.0	81.0	1364.0	199.0	88.0	102.5	107.0
Merged-chr12-17748239-4	chr12	17748147	17748347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016677, intron 1 of 3)	intron (NM_016677, intron 1 of 3)	57438.0	NM_016677	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	54.0	69.0	44.0	800.5	78.5	36.0	31.5	28.0
Merged-chr2-181188761-4	chr2	181188655	181188855	+	938.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_151465)	TTS (NR_151465)	1508.0	NM_001356427	66496.0	Mm.213943	NM_025598	ENSMUSG00000016344	Ppdpf	0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik	pancreatic progenitor cell differentiation and proliferation factor	protein-coding	3.0	20.0	11.0	226.5	32.5	11.0	19.0	20.5
Merged-chr16-30070539-9	chr16	30070450	30070650	+	992.607422	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	5193.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	19.5	26.0	10.5	343.5	46.0	23.0	20.0	16.0
Merged-chr10-80668923-3	chr10	80668800	80669000	+	819.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021462, intron 10 of 13)	intron (NM_021462, intron 10 of 13)	7393.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	3.0	11.0	0.0	4.5	33.5	9.0	5.0	6.0
Merged-chr6-83637319-4	chr6	83637183	83637383	+	872.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18833.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	11.5	10.0	22.0	236.0	13.0	4.5	6.5	16.5
Merged-chr11-114793124-4	chr11	114793024	114793224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028055, intron 2 of 2)	intron (NM_028055, intron 2 of 2)	2768.0	NM_028055	72014.0	Mm.38347	NM_028055	ENSMUSG00000000202	Btbd17	1500005I02Rik|Tango10a	BTB (POZ) domain containing 17	protein-coding	45.0	48.5	34.5	695.5	73.0	35.0	21.0	42.0
Merged-chr3-8667183-4	chr3	8667077	8667277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010423)	promoter-TSS (NM_010423)	-139.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	122.5	258.0	193.5	3254.0	430.5	161.0	235.0	175.5
Merged-chr5-20951892-4	chr5	20951784	20951984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080977)	promoter-TSS (NM_001080977)	-62.0	NM_001080977	242860.0	Mm.254286	NM_001080977	ENSMUSG00000039968	Rsbn1l	8430412F05Rik|AI447441|C330002G24Rik	round spermatid basic protein 1-like	protein-coding	176.5	235.0	169.0	2920.0	408.5	182.5	233.0	152.5
Merged-chr3-108186559-4	chr3	108186496	108186696	+	902.662476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001287093, exon 1 of 3)	5' UTR (NM_001287093, exon 1 of 3)	307.0	NM_146137	229715.0	Mm.275752	NM_146137	ENSMUSG00000050947	Amigo1	Amigo|ali2	adhesion molecule with Ig like domain 1	protein-coding	8.5	13.5	7.0	234.0	35.5	16.5	14.5	14.5
Merged-chr6-72375355-2	chr6	72375233	72375433	+	840.0	f0_balb.idr|f0_c57.idr	intron (NM_016872, intron 1 of 2)	MIR|SINE|MIR	5135.0	NM_001080742	53620.0	Mm.440321	NM_016872	ENSMUSG00000073002	Vamp5	AF119384|Camp	vesicle-associated membrane protein 5	protein-coding	21.0	14.0	5.5	168.0	27.5	7.0	9.5	10.5
Merged-chr1-152524533-2	chr1	152524433	152524633	+	911.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 16 of 17)	intron (NM_016846, intron 16 of 17)	100684.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	2.0	0.0	2.0	27.0	8.0	4.5	5.5	14.0
Merged-chr1-4807776-4	chr1	4807670	4807870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008866)	promoter-TSS (NM_008866)	-53.0	NM_001355712	18777.0	Mm.299955	NM_008866	ENSMUSG00000025903	Lypla1	APT-1|Gm39587|LPL-I|Pla1a	lysophospholipase 1	protein-coding	135.0	183.0	173.5	2268.5	329.0	99.0	153.0	114.0
Merged-chr5-146798223-4	chr5	146798125	146798325	+	979.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3269.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	21.0	14.5	45.5	780.0	60.0	24.0	36.0	28.0
Merged-chr8-94012721-4	chr8	94012627	94012827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011787)	promoter-TSS (NM_011787)	-87.0	NM_011787	23802.0	Mm.34641	NM_011787	ENSMUSG00000031751	Amfr	gp78	autocrine motility factor receptor	protein-coding	60.5	95.0	53.5	854.5	132.0	32.5	63.5	46.0
Merged-chr13-45974002-4	chr13	45973926	45974126	+	988.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9035.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	24.0	43.5	24.5	346.5	82.0	37.0	29.0	16.5
Merged-chr10-81427158-3	chr10	81427091	81427291	+	934.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008688)	promoter-TSS (NM_008688)	-18.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	14.5	9.5	8.5	103.0	22.0	9.0	7.5	6.5
Merged-chr6-121109753-2	chr6	121109680	121109880	+	826.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001270475, intron 1 of 31)	CpG	21242.0	NM_001270475	194401.0	Mm.122399	NM_153396	ENSMUSG00000051586	Mical3	C130040D16Rik|Mical-3|mKIAA1364	microtubule associated monooxygenase, calponin and LIM domain containing 3	protein-coding	4.0	5.0	9.0	34.0	16.5	5.5	11.5	7.5
Merged-chr17-35314743-2	chr17	35314643	35314843	+	999.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-5804.0	NM_010390	15006.0	Mm.466882	NM_010390	ENSMUSG00000079507	H2-Q1	H-2Q1|Q1|Q1b|Q1d|Q1k|Qa-1|Qa1|Qed-1	histocompatibility 2, Q region locus 1	protein-coding	5.5	14.5	10.0	77.5	8.5	1.0	2.0	6.0
Merged-chr17-83563991-4	chr17	83563892	83564092	+	998.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49659.0	NM_001159529	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	22.0	36.5	23.5	479.0	36.5	23.0	17.0	27.5
Merged-chr5-3490040-2	chr5	3489940	3490140	+	617.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	L1_Mur3|LINE|L1	-53793.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	6.0	6.5	5.0	95.0	19.0	3.0	2.0	11.5
Merged-chr7-121080197-3	chr7	121080119	121080319	+	732.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3219.0	NM_139310	246190.0	Mm.221073	NM_139310	ENSMUSG00000034990	Otoa	-	otoancorin	protein-coding	9.0	7.0	4.5	85.5	14.5	2.5	4.5	4.0
Merged-chr6-119396418-4	chr6	119396332	119396532	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197985, intron 1 of 7)	intron (NM_197985, intron 1 of 7)	-7698.0	NM_001355692	68465.0	Mm.291826	NM_197985	ENSMUSG00000030168	Adipor2	1110001I14Rik|ADCR2|AI115388|AW554121|D6Ucla1e|Paqr2	adiponectin receptor 2	protein-coding	31.0	42.0	25.5	600.5	44.5	15.0	24.0	18.5
Merged-chr4-102543157-4	chr4	102543037	102543237	+	917.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019840, intron 5 of 14)	intron (NM_019840, intron 5 of 14)	-26923.0	NM_001177980	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	0.5	11.0	25.5	185.0	25.0	11.0	6.5	16.5
Merged-chr2-92484743-4	chr2	92484644	92484844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24226.0	NM_145832	228368.0	Mm.273990	NM_145832	ENSMUSG00000049922	Slc35c1	E430007K15Rik|fuct1	solute carrier family 35, member C1	protein-coding	26.5	24.5	34.0	369.5	57.5	21.0	35.5	18.0
Merged-chr9-20652596-1	chr9	20652496	20652696	+	771.0	f0_balb.idr	intron (NM_023371, intron 1 of 3)	intron (NM_023371, intron 1 of 3)	466.0	NM_023371	23988.0	Mm.7906	NM_023371	ENSMUSG00000032171	Pin1	0610025L01Rik|D9Bwg1161e	protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1	protein-coding	3.0	9.0	9.5	118.0	15.5	9.0	6.5	7.5
Merged-chr10-77607469-4	chr10	77607322	77607522	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301671, intron 1 of 3)	B1_Mur4|SINE|Alu	824.0	NM_001301671	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	11.5	16.0	14.0	134.5	36.5	7.0	11.5	16.0
Merged-chr10-79766700-2	chr10	79766600	79766800	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_027505, intron 1 of 7)	CpG	252.0	NM_144528	70294.0	Mm.466670	NM_144528	ENSMUSG00000035890	Rnf126	2610010O19Rik	ring finger protein 126	protein-coding	7.5	21.0	7.0	179.0	41.0	13.5	17.0	11.5
Merged-chr10-99268925-4	chr10	99268839	99269039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5708.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	177.0	283.5	251.5	3348.0	349.5	155.5	182.0	180.5
Merged-chr19-29478820-4	chr19	29478709	29478909	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43178.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	32.0	20.5	47.0	508.5	59.5	7.5	15.0	30.5
Merged-chr7-118800277-4	chr7	118800196	118800396	+	784.299988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 19 of 30)	intron (NM_027815, intron 19 of 30)	55317.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	16.5	18.5	13.0	181.0	21.0	2.0	9.5	14.5
Merged-chr11-5745110-3	chr11	5745000	5745200	+	761.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	L1MB4|LINE|L1	-3924.0	NM_178623	72046.0	Mm.271657	NM_178623	ENSMUSG00000049680	Urgcp	2010005J08Rik|9130001I21Rik|AW060359|Urg4|mKIAA1507	upregulator of cell proliferation	protein-coding	2.0	8.0	3.0	79.0	48.0	5.0	8.5	11.5
Merged-chr1-153492730-3	chr1	153492650	153492850	+	607.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5090.0	NM_007842	13211.0	Mm.20000	NM_007842	ENSMUSG00000042699	Dhx9	AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5	DEAH (Asp-Glu-Ala-His) box polypeptide 9	protein-coding	14.5	6.0	8.0	98.5	7.0	3.5	2.5	5.5
Merged-chr2-157031044-4	chr2	157030947	157031147	+	741.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164663, intron 7 of 14)	intron (NM_001164663, intron 7 of 14)	-23972.0	NM_025853	66934.0	Mm.25410	NM_025853	ENSMUSG00000027635	Dsn1	1700022L09Rik|AW552447	DSN1 homolog, MIS12 kinetochore complex component	protein-coding	10.5	13.0	6.0	64.5	14.0	11.5	7.0	8.0
Merged-chr5-24750870-4	chr5	24750766	24750966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_153076)	TTS (NM_153076)	6977.0	NM_153076	214301.0	Mm.63484	NM_153076	ENSMUSG00000038135	Crygn	-	crystallin, gamma N	protein-coding	40.5	71.5	42.0	901.5	166.0	57.0	83.5	51.0
Merged-chr3-37639910-4	chr3	37639840	37640040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001305442)	promoter-TSS (NM_001305442)	-7.0	NM_001305441	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	34.5	46.0	30.5	446.0	55.0	19.0	25.5	32.0
Merged-chr2-60113880-4	chr2	60113772	60113972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	L1MA5A|LINE|L1	11868.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	67.5	133.0	41.0	921.5	165.5	55.5	69.0	65.5
Merged-chr8-84800454-4	chr8	84800356	84800556	+	995.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010906)	promoter-TSS (NM_010906)	-118.0	NM_001081982	18032.0	Mm.9394	NM_010906	ENSMUSG00000001911	Nfix	CTF|NF-I/X|NF1-X|NFI-X	nuclear factor I/X	protein-coding	12.0	41.5	25.5	299.0	77.5	29.0	33.0	13.5
Merged-chr7-25386289-4	chr7	25386173	25386373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_073028)	TTS (NR_073028)	3839.0	NM_001039507	16890.0	Mm.158548	NM_010719	ENSMUSG00000003123	Lipe	4933403G17Rik|HSL	lipase, hormone sensitive	protein-coding	31.0	27.5	12.0	479.5	66.0	14.0	23.0	24.0
Merged-chr4-55342001-3	chr4	55341899	55342099	+	901.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6B|LTR|ERVK	-8043.0	NM_009011	19359.0	Mm.196846	NM_009011	ENSMUSG00000028426	Rad23b	0610007D13Rik|AV001138|HR23B|mHR23B|p58	RAD23 homolog B, nucleotide excision repair protein	protein-coding	11.5	11.5	7.0	153.5	10.0	3.0	8.5	16.0
Merged-chr1-143922084-2	chr1	143921982	143922182	+	607.5	f0_balb.idr|f0_c57.idr	Intergenic	B3A|SINE|B2	82067.0	NM_009061	19735.0	Mm.28262	NM_009061	ENSMUSG00000026360	Rgs2	GOS8	regulator of G-protein signaling 2	protein-coding	5.5	8.0	8.0	103.0	27.0	7.0	2.0	7.0
Merged-chr6-89300037-3	chr6	89299886	89300086	+	919.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14261.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	11.0	10.0	4.0	163.5	14.0	9.5	5.0	8.0
Merged-chr3-106873098-2	chr3	106872998	106873198	+	737.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-50541.0	NM_146489	258482.0	Mm.377527	NM_146489	ENSMUSG00000043529	Olfr266	MOR122-2	olfactory receptor 266	protein-coding	4.0	3.0	3.0	76.0	15.0	7.0	5.5	10.5
Merged-chr2-120632189-4	chr2	120632098	120632298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22603.0	NM_001290807	66296.0	Mm.221900	NM_025475	ENSMUSG00000027285	Haus2	1700101G24Rik|2410007P03Rik|AU020217|Cep27	HAUS augmin-like complex, subunit 2	protein-coding	116.0	160.5	138.5	1778.5	231.5	83.0	114.0	86.0
Merged-chr3-107357000-3	chr3	107356924	107357124	+	922.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23735.0	NM_001045807	229700.0	Mm.27966	NM_001045807	ENSMUSG00000048109	Rbm15	C230088J01Rik|mKIAA1438	RNA binding motif protein 15	protein-coding	12.5	15.0	13.5	89.5	29.5	5.5	10.0	17.0
Merged-chr9-46173117-3	chr9	46173033	46173233	+	761.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027498, intron 4 of 24)	B4A|SINE|B4	-55497.0	NM_009692	11806.0	Mm.26743	NM_009692	ENSMUSG00000032083	Apoa1	Alp-1|Apoa-1|Brp-14|Ltw-1|Lvtw-1|Sep-1|Sep-2|Sep2|apo-AI|apoA-I	apolipoprotein A-I	protein-coding	6.5	10.0	4.5	119.0	14.0	6.0	4.0	5.5
Merged-chr18-4920525-4	chr18	4920421	4920621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	108035.0	NR_045881	100038439.0	Mm.387569	NR_045881	ENSMUSG00000097043	Gm10556	-	predicted gene 10556	ncRNA	43.5	34.5	24.5	508.0	64.0	24.0	39.0	46.0
Merged-chr8-125487205-2	chr8	125487128	125487328	+	786.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001357372, intron 3 of 21)	intron (NM_001357372, intron 3 of 21)	5605.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	9.0	5.5	8.5	51.5	8.0	3.0	3.0	2.0
Merged-chr19-53564418-4	chr19	53564321	53564521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35103.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	150.5	116.5	155.0	2187.0	106.0	32.0	33.0	32.5
Merged-chr8-110847093-4	chr8	110847022	110847222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133953)	promoter-TSS (NM_133953)	98.0	NM_133973	102339.0	Mm.272930	NM_133973	ENSMUSG00000031753	Cog4	AW554810|D8Ertd515e	component of oligomeric golgi complex 4	protein-coding	25.0	31.5	20.0	326.0	42.0	18.0	17.5	28.0
Merged-chr4-115000673-4	chr4	115000571	115000771	+	828.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001304551, intron 1 of 15)	intron (NM_001304551, intron 1 of 15)	553.0	NM_001304555	20460.0	Mm.3988	NM_009185	ENSMUSG00000028718	Stil	Sil	Scl/Tal1 interrupting locus	protein-coding	9.0	23.5	10.0	142.5	34.0	6.0	11.0	12.5
Merged-chr7-45456342-9	chr7	45456204	45456404	+	993.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_030678, exon 16 of 16)	3' UTR (NM_030678, exon 16 of 16)	3582.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	16.0	24.0	39.0	467.0	64.5	29.0	41.5	31.0
Merged-chr17-12656012-4	chr17	12655913	12656113	+	817.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009202, intron 8 of 10)	ORR1E|LTR|ERVL-MaLR	19825.0	NM_009202	20517.0	Mm.594	NM_009202	ENSMUSG00000023829	Slc22a1	Lx1|Oct1|Orct|Orct1	solute carrier family 22 (organic cation transporter), member 1	protein-coding	3.5	22.0	15.5	244.0	16.0	8.5	22.0	13.5
Merged-chr2-48816584-4	chr2	48816470	48816670	+	995.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007396, intron 1 of 10)	intron (NM_007396, intron 1 of 10)	2461.0	NM_007396	11480.0	Mm.314338	NM_007396	ENSMUSG00000052155	Acvr2a	ActrIIa|Acvr2|TactrII	activin receptor IIA	protein-coding	14.5	22.0	18.0	454.5	80.5	17.0	42.5	26.5
Merged-chr3-98051919-3	chr3	98051795	98051995	+	951.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 2 of 33)	intron (NM_010928, intron 2 of 33)	38357.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	12.0	20.5	10.0	280.0	9.5	6.0	4.5	11.0
Merged-chr4-99368261-4	chr4	99368166	99368366	+	934.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	174119.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	9.5	13.5	19.5	486.0	62.5	15.5	43.0	51.5
Merged-chr11-78550809-4	chr11	78550717	78550917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133706)	promoter-TSS (NM_133706)	-82.0	NM_133706	69071.0	Mm.29431	NM_133706	ENSMUSG00000037278	Tmem97	1810014L12Rik|AI115531|AL022956|D11Bhm182e	transmembrane protein 97	protein-coding	168.5	231.0	126.5	1843.5	374.0	149.0	157.5	116.0
Merged-chr11-104001705-4	chr11	104001606	104001806	+	920.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34835.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	18.5	13.5	17.0	163.0	33.5	11.0	12.5	18.0
Merged-chr13-34314223-4	chr13	34314123	34314323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 1 of 10)	intron (NM_001033167, intron 1 of 10)	30959.0	NM_001033167	73102.0	Mm.23932	NM_001033167	ENSMUSG00000038267	Slc22a23	3110004L20Rik	solute carrier family 22, member 23	protein-coding	28.0	55.5	21.5	478.0	78.5	27.0	22.5	11.0
Merged-chr5-43801981-3	chr5	43801903	43802103	+	817.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie9|DNA|hAT-Charlie	-16890.0	NM_009763	12182.0	Mm.246332	NM_009763	ENSMUSG00000029082	Bst1	114/A10|A530073F09|BP-3|Bp3|Bsta1|CD157|Ly65	bone marrow stromal cell antigen 1	protein-coding	7.0	10.0	15.0	192.0	9.5	5.0	3.5	7.0
Merged-chr13-25007394-2	chr13	25007294	25007494	+	792.416687	f1_balb.idr|f1_c57bl6.idr	intron (NM_001013389, intron 2 of 10)	intron (NM_001013389, intron 2 of 10)	12923.0	NM_001013389	380836.0	Mm.387097	NM_001013389	ENSMUSG00000021339	Mrs2	Gm902|HPT|Mrs2l|RPT	MRS2 magnesium transporter	protein-coding	10.5	9.0	8.5	55.0	8.0	7.5	11.5	22.5
Merged-chr15-59728331-4	chr15	59728238	59728438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	66621.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	315.5	461.5	346.5	4169.0	715.0	306.5	327.0	291.0
Merged-chr7-12903785-3	chr7	12903688	12903888	+	799.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001001447, exon 2 of 3)	exon (NM_001001447, exon 2 of 3)	5979.0	NM_001290441	232878.0	Mm.40706	NM_001001447	ENSMUSG00000054715	Zscan22	AW227621|D530006B18Rik|Hkr2	zinc finger and SCAN domain containing 22	protein-coding	6.0	9.0	15.5	165.0	12.5	3.0	3.0	3.5
Merged-chr2-25194610-4	chr2	25194512	25194712	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146115, exon 2 of 2)	exon (NM_146115, exon 2 of 2)	2201.0	NM_146115	227612.0	Mm.119747	NM_146115	ENSMUSG00000059555	Tor4a	A830007P12Rik	torsin family 4, member A	protein-coding	38.5	64.5	31.5	560.0	128.5	37.5	36.0	44.5
Merged-chr6-47396136-4	chr6	47396030	47396230	+	741.395874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57602.0	NM_001355551	26965.0	Mm.87611	NM_012042	ENSMUSG00000029686	Cul1	Cul-1	cullin 1	protein-coding	8.0	9.0	8.5	150.0	40.5	14.5	11.0	19.0
Merged-chr10-79975291-4	chr10	79975183	79975383	+	944.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130455, intron 3 of 8)	intron (NM_130455, intron 3 of 8)	4559.0	NM_130455	170483.0	Mm.391566	NM_130455	ENSMUSG00000035745	Grin3b	GluN3B|NR3B	glutamate receptor, ionotropic, NMDA3B	protein-coding	16.0	30.0	29.5	111.5	46.0	15.0	18.0	14.0
Merged-chr6-86447213-6	chr6	86447123	86447323	+	937.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243741, intron 3 of 9)	intron (NM_001243741, intron 3 of 9)	8577.0	NM_001243741	232196.0	Mm.404040	NM_146170	ENSMUSG00000046679	C87436	-	expressed sequence C87436	protein-coding	9.0	25.0	14.5	67.0	20.0	15.0	6.0	5.5
Merged-chr10-59302887-2	chr10	59302787	59302987	+	933.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERVK10C-int|LTR|ERVK	-20409.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	8.0	5.0	9.5	70.0	8.5	2.5	7.0	8.5
Merged-chr11-70239981-4	chr11	70239873	70240073	+	999.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173742)	promoter-TSS (NM_173742)	-121.0	NM_173742	52898.0	Mm.29852	NM_173742	ENSMUSG00000093989	Rnasek	2310033H11Rik|AA571397|D11Bwg0434e	ribonuclease, RNase K	protein-coding	23.0	53.5	38.0	412.5	92.0	40.5	25.0	37.5
Merged-chr2-45110389-4	chr2	45110286	45110486	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110572)	promoter-TSS (NR_110572)	-9.0	NM_001355291	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	49.0	99.0	55.0	518.5	169.5	52.0	64.5	50.0
Merged-chr19-38846630-3	chr19	38846532	38846732	+	808.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145952, intron 1 of 12)	intron (NM_145952, intron 1 of 12)	10053.0	NM_001362424	209478.0	Mm.391153	NM_145952	ENSMUSG00000048720	Tbc1d12	BC033574	TBC1D12: TBC1 domain family, member 12	protein-coding	9.5	19.0	30.0	364.5	15.0	0.5	9.0	3.5
Merged-chr12-111505094-1	chr12	111504994	111505194	+	541.0	f1_c57bl6.idr	Intergenic	Intergenic	-19271.0	NM_001033248	212539.0	Mm.81916	NM_001033248	ENSMUSG00000010529	Gm266	-	predicted gene 266	protein-coding	1.0	6.0	1.5	55.5	17.5	5.5	5.0	6.5
Merged-chr1-134080268-5	chr1	134080185	134080385	+	853.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1130.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	0.5	11.0	9.0	64.0	11.5	5.0	7.5	10.0
Merged-chr11-59662452-4	chr11	59662370	59662570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_012027)	promoter-TSS (NM_012027)	-25.0	NM_201245	26936.0	Mm.2402	NM_012027	ENSMUSG00000005417	Mprip	9530046C02|AA536749|AI647711|C76423|Gm34094|RIP3|Rhoip3|mKIAA0864|p116Rip	myosin phosphatase Rho interacting protein	protein-coding	68.0	65.0	43.5	822.5	171.5	46.5	88.5	48.5
Merged-chr2-90613179-4	chr2	90613071	90613271	+	841.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32524.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	11.0	13.5	0.5	94.5	34.5	11.5	8.0	9.5
Merged-chr6-24963946-3	chr6	24963857	24964057	+	708.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7832.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	10.0	12.0	11.0	133.0	25.0	6.0	4.0	7.0
Merged-chr9-16358019-3	chr9	16357918	16358118	+	955.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	20213.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	7.5	15.0	14.5	184.0	5.5	3.0	2.0	4.5
Merged-chr9-55388335-3	chr9	55388195	55388395	+	922.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172923, intron 3 of 10)	intron (NM_172923, intron 3 of 10)	61382.0	NM_001357568	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	16.0	22.0	23.5	420.5	16.0	5.5	8.5	14.5
Merged-chr11-68871952-4	chr11	68871864	68872064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16589.0	NM_177060	320040.0	Mm.305696	NM_177060	ENSMUSG00000046490	Rnf222	9930039A11Rik	ring finger protein 222	protein-coding	62.0	76.5	59.5	984.0	120.5	52.0	38.0	63.5
Merged-chr6-113469282-4	chr6	113469181	113469381	+	942.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145826, intron 14 of 14)	intron (NM_145826, intron 14 of 14)	-2174.0	NM_178942	171095.0	Mm.213397	NM_134159	ENSMUSG00000030281	Il17rc	1110025H02Rik|Gm19850|IL-17RC|IL17-RC|IL17-RL|Il17rl	interleukin 17 receptor C	protein-coding	27.0	29.0	18.5	308.5	39.5	16.0	14.5	11.5
Merged-chr13-86018769-3	chr13	86018661	86018861	+	756.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28034.0	NM_007749	12867.0	Mm.378898	NM_007749	ENSMUSG00000017778	Cox7c	COXVIIc|Cox7c1	cytochrome c oxidase subunit VIIc	protein-coding	22.0	27.0	9.5	304.5	9.0	0.5	0.5	2.0
Merged-chr2-159555065-3	chr2	159554960	159555160	+	775.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-392281.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	9.0	4.5	8.5	96.0	14.5	4.5	9.0	5.5
Merged-chr8-57468781-3	chr8	57468665	57468865	+	801.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009136, intron 1 of 2)	B4A|SINE|B4	12842.0	NM_009136	20284.0	Mm.12886	NM_009136	ENSMUSG00000031610	Scrg1	AW124307	scrapie responsive gene 1	protein-coding	9.0	16.0	11.0	329.5	15.0	1.0	0.5	2.5
Merged-chr2-28547994-4	chr2	28547916	28548116	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145836, intron 11 of 17)	intron (NM_001145836, intron 11 of 17)	14552.0	NM_001145836	19730.0	Mm.5236	NM_009058	ENSMUSG00000026821	Ralgds	Gnds|Rgds|mKIAA1308	ral guanine nucleotide dissociation stimulator	protein-coding	20.5	24.0	7.5	222.5	58.0	17.5	26.0	18.5
Merged-chr5-143817209-4	chr5	143817098	143817298	+	657.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-54664.0	NM_013557	15467.0	Mm.389709	NM_013557	ENSMUSG00000029613	Eif2ak1	HCR|Hri	eukaryotic translation initiation factor 2 alpha kinase 1	protein-coding	2.0	9.0	7.0	86.5	27.0	8.0	7.5	11.0
Merged-chr9-88481895-4	chr9	88481767	88481967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284328, intron 1 of 11)	CpG	530.0	NM_001311113	56403.0	Mm.260545	NM_019666	ENSMUSG00000032423	Syncrip	2610109K23Rik|4632417O19Rik|GRY-RBP|Nsap1|Nsap1l|hnRNP Q|pp68	synaptotagmin binding, cytoplasmic RNA interacting protein	protein-coding	37.5	59.5	54.0	514.5	82.0	30.0	50.5	45.0
Merged-chr1-86046196-3	chr1	86046019	86046219	+	803.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001144992, exon 1 of 3)	exon (NM_001144992, exon 1 of 3)	256.0	NM_001144992	72792.0	Mm.54981	NM_001144992	ENSMUSG00000026227	2810459M11Rik	-	RIKEN cDNA 2810459M11 gene	protein-coding	11.0	6.0	9.5	48.5	5.5	2.0	6.0	6.0
Merged-chr10-96351526-4	chr10	96351421	96351621	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125314.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	47.5	86.0	66.5	801.5	139.0	53.0	85.0	61.0
Merged-chr15-93399373-3	chr15	93399260	93399460	+	856.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001358749, exon 2 of 9)	5' UTR (NM_001358749, exon 2 of 9)	896.0	NM_001285863	223828.0	Mm.74208	NM_146062	ENSMUSG00000036167	Pphln1	CR|HSPC206|HSPC232	periphilin 1	protein-coding	1.0	4.0	5.5	53.0	17.5	5.0	7.0	15.5
Merged-chr16-34667116-3	chr16	34667062	34667262	+	797.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030744, intron 2 of 5)	intron (NM_030744, intron 2 of 5)	15951.0	NM_030744	76378.0	Mm.23515	NM_030744	ENSMUSG00000022832	Ropn1	1700008N21Rik|ODF6|RHPNAP1|Rppn|ropporin	ropporin, rhophilin associated protein 1	protein-coding	5.5	5.5	6.5	63.0	20.5	3.5	7.5	13.5
Merged-chr5-43848485-4	chr5	43848410	43848610	+	978.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20299.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	23.5	14.0	23.0	474.0	42.5	12.0	17.0	26.5
Merged-chr17-17590633-3	chr17	17590529	17590729	+	639.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	L1MEf|LINE|L1	33860.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	1.0	14.0	11.0	65.5	18.0	6.5	7.5	10.0
Merged-chr7-80919115-4	chr7	80919005	80919205	+	885.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019951, intron 4 of 5)	intron (NM_019951, intron 4 of 5)	-14043.0	NM_001291280	68039.0	Mm.22246	NM_026523	ENSMUSG00000025723	Nmb	3110023K12Rik	neuromedin B	protein-coding	16.0	17.5	9.0	215.0	26.0	9.0	20.0	12.0
Merged-chr11-72940934-4	chr11	72940796	72940996	+	919.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-20273.0	NM_016745	53313.0	Mm.6306	NM_016745	ENSMUSG00000020788	Atp2a3	SERCA3b|Serca3	ATPase, Ca++ transporting, ubiquitous	protein-coding	2.0	12.0	13.5	116.0	20.0	6.5	6.0	14.5
Merged-chr4-36013012-3	chr4	36012917	36013117	+	913.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	intron (NM_001166000, intron 7 of 8)	-167813.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	5.0	14.5	15.0	179.5	18.0	6.0	8.5	8.5
Merged-chr10-128626378-4	chr10	128626266	128626466	+	980.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013765, intron 1 of 3)	CpG	140.0	NM_013765	27370.0	Mm.32118	NM_013765	ENSMUSG00000025362	Rps26	-	ribosomal protein S26	protein-coding	13.5	22.5	46.0	234.0	52.5	21.0	27.0	41.0
Merged-chr1-72107287-4	chr1	72107187	72107387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102092.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	86.5	126.0	76.0	1475.5	169.5	60.5	79.0	87.5
Merged-chr14-46788346-4	chr14	46788223	46788423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009919)	promoter-TSS (NM_009919)	34.0	NM_001355011	12793.0	Mm.3261	NM_009919	ENSMUSG00000015759	Cnih1	0610007J15|CNIH-1|Cnih	cornichon family AMPA receptor auxiliary protein 1	protein-coding	89.5	102.0	94.0	1442.0	164.0	75.5	102.0	78.5
Merged-chr13-52588023-4	chr13	52587912	52588112	+	962.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198977, intron 1 of 13)	MLT1A1|LTR|ERVL-MaLR	4575.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	27.0	41.0	32.0	284.5	31.0	9.5	13.5	18.0
Merged-chr14-47353180-3	chr14	47353181	47353381	+	819.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-20579.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	5.0	5.5	10.5	111.5	9.0	3.0	2.5	11.0
Merged-chr15-25632366-4	chr15	25632292	25632492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019472, intron 1 of 40)	intron (NM_019472, intron 1 of 40)	9842.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	30.5	48.0	53.0	584.0	69.5	29.5	32.5	28.5
Merged-chr2-167735074-4	chr2	167734974	167735174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43897.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	21.5	38.5	40.5	516.5	78.5	27.5	30.5	41.5
Merged-chr11-98400351-4	chr11	98400275	98400475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033537, exon 1 of 8)	exon (NM_001033537, exon 1 of 8)	115.0	NM_001033537	320655.0	Mm.86519	NM_001033537	ENSMUSG00000038208	Pgap3	CAB2|D430035D22Rik|Perld1	post-GPI attachment to proteins 3	protein-coding	43.0	93.5	15.5	413.0	102.0	30.5	26.5	24.5
Merged-chr17-36020900-4	chr17	36020795	36020995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008207)	promoter-TSS (NM_008207)	-335.0	NM_008207	15042.0	Mm.439654	NM_008207	ENSMUSG00000053835	H2-T24	H-2T24	histocompatibility 2, T region locus 24	protein-coding	57.5	73.5	43.5	1017.5	137.5	58.5	66.5	78.0
Merged-chr7-98084852-4	chr7	98084745	98084945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008663, intron 16 of 48)	intron (NM_008663, intron 16 of 48)	24403.0	NM_001256082	17921.0	Mm.1403	NM_008663	ENSMUSG00000030761	Myo7a	Hdb|Myo7|USH1B|nmf371|polka|sh-1|sh1	myosin VIIA	protein-coding	33.0	22.0	33.5	391.0	36.0	22.0	28.0	20.5
Merged-chr11-98937608-4	chr11	98937504	98937704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177302)	promoter-TSS (NM_001177302)	-92.0	NM_009024	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	75.5	104.0	48.0	786.5	191.5	70.0	90.0	88.0
Merged-chr18-80163914-4	chr18	80163807	80164007	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12425.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	25.5	26.0	29.5	219.5	69.5	18.5	32.0	26.0
Merged-chr3-152474783-4	chr3	152474669	152474869	+	867.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081277, intron 12 of 13)	intron (NM_001081277, intron 12 of 13)	78085.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	7.0	12.0	8.0	126.0	40.5	7.0	10.5	23.5
Merged-chr13-76384644-5	chr13	76384455	76384655	+	943.209534	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030174)	promoter-TSS (NM_030174)	-406.0	NM_030174	78771.0	Mm.316249	NM_030174	ENSMUSG00000021596	Mctp1	2810465F10Rik	multiple C2 domains, transmembrane 1	protein-coding	31.5	24.0	34.5	421.0	20.0	13.0	14.5	19.0
Merged-chr7-43349840-4	chr7	43349766	43349966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-1475.0	NM_001271019	233186.0	Mm.290569	NM_145581	ENSMUSG00000039013	Siglecf	Siglec5|mSiglec-F	sialic acid binding Ig-like lectin F	protein-coding	90.5	88.0	91.5	528.0	159.0	48.5	98.0	68.0
Merged-chr3-95136538-4	chr3	95136427	95136627	+	877.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153121, intron 1 of 2)	intron (NM_153121, intron 1 of 2)	2439.0	NM_153121	217779.0	Mm.341945	NM_153121	ENSMUSG00000053769	Lysmd1	2610022K04Rik|AI415311	LysM, putative peptidoglycan-binding, domain containing 1	protein-coding	9.0	3.5	10.5	151.5	43.5	8.0	11.5	16.0
Merged-chr2-173737498-4	chr2	173737418	173737618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019806)	promoter-TSS (NM_019806)	-53.0	NM_019806	56491.0	Mm.260456	NM_019806	ENSMUSG00000054455	Vapb	AI225786|AI840687|AI848259|D2Abb2e|R75548|VAP33b|Vamp33b	vesicle-associated membrane protein, associated protein B and C	protein-coding	263.0	331.5	281.0	3919.0	628.0	243.0	334.5	257.5
Merged-chr11-70254174-4	chr11	70254107	70254307	+	949.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007440, intron 2 of 13)	intron (NM_007440, intron 2 of 13)	1163.0	NM_001331118	11684.0	Mm.12286	NM_007440	ENSMUSG00000000320	Alox12	9930022G08Rik|Alox12p|P-12LO	arachidonate 12-lipoxygenase	protein-coding	9.0	44.0	13.5	158.5	49.0	26.5	11.5	18.5
Merged-chr19-36928174-4	chr19	36928054	36928254	+	941.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080706, intron 1 of 37)	intron (NM_001080706, intron 1 of 37)	2075.0	NM_001080706	107182.0	Mm.295062	NM_001080706	ENSMUSG00000040565	Btaf1	AI414500|AI447930|E430027O22Rik|TAF170	B-TFIID TATA-box binding protein associated factor 1	protein-coding	10.5	16.0	14.5	270.0	46.5	7.0	18.0	16.5
Merged-chr4-134714165-4	chr4	134714057	134714257	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1I|LTR|ERVL-MaLR	-9867.0	NM_207237	230815.0	Mm.18905	NM_207237	ENSMUSG00000037306	Man1c1	AI593348	mannosidase, alpha, class 1C, member 1	protein-coding	24.0	34.0	15.0	281.5	93.5	13.5	29.0	12.0
Merged-chr7-114083918-3	chr7	114083830	114084030	+	921.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	33851.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	7.0	26.0	6.0	32.0	63.5	23.0	18.5	7.0
Merged-chr17-29171259-4	chr17	29171144	29171344	+	934.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360239, intron 13 of 21)	intron (NM_001360239, intron 13 of 21)	36188.0	NM_001002786	442827.0	Mm.440341	NM_001002786	ENSMUSG00000064147	Rab44	9830134C10Rik	RAB44, member RAS oncogene family	protein-coding	36.0	92.0	20.0	264.5	21.0	6.0	8.5	6.5
Merged-chr18-32390228-4	chr18	32390122	32390322	+	868.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 1 of 17)	intron (NM_001360876, intron 1 of 17)	-11938.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	5.5	24.0	12.5	191.5	26.5	9.0	11.0	11.0
Merged-chr11-60932944-4	chr11	60932816	60933016	+	736.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008928, intron 1 of 11)	intron (NM_008928, intron 1 of 11)	859.0	NM_008928	26397.0	Mm.18494	NM_008928	ENSMUSG00000018932	Map2k3	AW212142|MEK3|MKK3|Prkmk3|mMKK3b	mitogen-activated protein kinase kinase 3	protein-coding	12.5	19.5	7.5	81.0	21.0	9.5	7.0	5.5
Merged-chr7-126693433-4	chr7	126693337	126693537	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029420, intron 1 of 5)	B3|SINE|B2	2346.0	NM_029420	75764.0	Mm.280573	NM_029420	ENSMUSG00000059772	Slx1b	1110030E23Rik|2410170E21Rik|4833422P03Rik|AI853643|Giyd1|Giyd2	SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)	protein-coding	13.0	20.5	1.5	137.0	37.5	7.5	14.0	12.5
Merged-chr13-74274498-1	chr13	74274398	74274598	+	551.0	f1_balb.idr	intron (NM_001317351, intron 2 of 9)	intron (NM_001317351, intron 2 of 9)	17833.0	NM_009644	11624.0	Mm.290446	NM_009644	ENSMUSG00000021575	Ahrr	mKIAA1234	aryl-hydrocarbon receptor repressor	protein-coding	2.0	14.0	6.0	8.0	15.0	11.5	5.5	8.5
Merged-chr18-38441853-3	chr18	38441768	38441968	+	688.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355749, intron 1 of 7)	intron (NM_001355749, intron 1 of 7)	22961.0	NM_001355749	65113.0	Mm.102496	NM_022996	ENSMUSG00000024425	Ndfip1	0610010M22Rik|N4wbp5	Nedd4 family interacting protein 1	protein-coding	5.0	8.0	4.5	98.5	12.0	6.5	2.5	7.5
Merged-chr6-99388843-4	chr6	99388758	99388958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053202, intron 1 of 18)	intron (NM_053202, intron 1 of 18)	46487.0	NM_053202	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	39.5	55.5	68.5	1165.5	98.5	29.0	48.0	43.0
Merged-chr4-58506153-4	chr4	58506044	58506244	+	845.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010336, intron 1 of 3)	PB1D11|SINE|Alu	-6741.0	NM_001290486	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	4.0	7.0	5.0	139.0	58.0	7.5	14.0	14.5
Merged-chr16-49905497-7	chr16	49905411	49905611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010581, intron 8 of 9)	intron (NM_010581, intron 8 of 9)	49857.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	16.5	54.0	48.5	504.0	97.0	42.0	43.5	53.5
Merged-chr4-139337226-3	chr4	139337115	139337315	+	719.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15361.0	NM_001290810	69902.0	Mm.27871	NM_023536	ENSMUSG00000028741	Mrto4	2610012O22Rik|Mg684|Mrt4	mRNA turnover 4, ribosome maturation factor	protein-coding	4.5	1.0	0.0	15.0	24.0	6.0	9.0	9.5
Merged-chr2-152742632-4	chr2	152742527	152742727	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6376.0	NM_001355113	15901.0	Mm.444	NM_010495	ENSMUSG00000042745	Id1	AI323524|D2Wsu140e|Idb1|bHLHb24	inhibitor of DNA binding 1	protein-coding	105.5	180.0	28.5	1284.0	153.0	58.0	65.5	61.0
Merged-chr18-61416877-4	chr18	61416747	61416947	+	664.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16416.0	NM_133249	170826.0	Mm.415302	NM_133249	ENSMUSG00000033871	Ppargc1b	4631412G21Rik|Perc	peroxisome proliferative activated receptor, gamma, coactivator 1 beta	protein-coding	6.5	8.5	4.0	94.5	21.0	10.5	6.0	9.0
Merged-chr4-59419347-4	chr4	59419223	59419423	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 3 of 16)	L1MB3|LINE|L1	19310.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	85.0	166.5	129.0	936.0	160.0	56.5	75.5	52.0
Merged-chr8-26896079-3	chr8	26895981	26896181	+	964.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-71658.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	25.0	23.0	13.0	207.5	18.0	2.5	12.0	8.5
Merged-chr3-127553231-6	chr3	127553094	127553294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197997)	promoter-TSS (NM_197997)	155.0	NM_138593	28036.0	Mm.291032	NM_138593	ENSMUSG00000027968	Larp7	C330027G06Rik|D3Wsu161e	La ribonucleoprotein domain family, member 7	protein-coding	107.5	163.5	169.0	1231.5	250.5	124.5	100.0	107.5
Merged-chr4-108623855-3	chr4	108623780	108623980	+	757.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177045, intron 3 of 24)	intron (NM_177045, intron 3 of 24)	3924.0	NM_177045	319965.0	Mm.151129	NM_177045	ENSMUSG00000028582	Cc2d1b	A830039B04Rik|Freud2	coiled-coil and C2 domain containing 1B	protein-coding	5.5	5.5	10.0	150.5	12.5	1.5	3.0	3.0
Merged-chr15-76080942-4	chr15	76080854	76081054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133691)	promoter-TSS (NM_133691)	-8.0	NM_028364	67959.0	Mm.29965	NM_028364	ENSMUSG00000002524	Puf60	2410104I19Rik|2810454F19Rik|SIAHBP1	poly-U binding splicing factor 60	protein-coding	105.0	185.0	54.5	1028.5	298.5	125.0	115.0	126.0
Merged-chr17-88043024-3	chr17	88042922	88043122	+	920.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	intron (NM_001081034, intron 1 of 22)	21910.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	8.0	18.0	10.5	156.0	45.5	7.5	12.5	9.5
Merged-chr2-80080621-4	chr2	80080534	80080734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355141, intron 2 of 15)	intron (NM_001355141, intron 2 of 15)	-41732.0	NM_001355142	18573.0	Mm.40678	NM_016744	ENSMUSG00000059173	Pde1a	AI987702|AW125737	phosphodiesterase 1A, calmodulin-dependent	protein-coding	138.5	212.5	150.0	2482.5	455.5	157.0	174.0	168.5
Merged-chr11-63136393-1	chr11	63136293	63136493	+	791.0	f0_balb.idr	intron (NM_001302255, intron 3 of 4)	intron (NM_001302255, intron 3 of 4)	3590.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	12.0	21.5	7.5	135.5	9.5	7.5	1.5	4.0
Merged-chr4-155529502-4	chr4	155529399	155529599	+	985.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160016, intron 3 of 11)	B1_Mur4|SINE|Alu	-32882.0	NM_138671	192185.0	Mm.28347	NM_138671	ENSMUSG00000029063	Nadk	4432404C02Rik|BC004012	NAD kinase	protein-coding	17.0	41.5	15.0	323.0	74.0	26.0	18.0	23.0
Merged-chr11-83615699-4	chr11	83615602	83615802	+	790.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 5 of 8)	intron (NR_036453, intron 5 of 8)	-22615.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	3.0	19.5	12.0	169.5	13.5	10.0	16.0	11.0
Merged-chr5-35106142-3	chr5	35106068	35106268	+	856.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013587)	promoter-TSS (NM_013587)	-471.0	NM_013587	16976.0	Mm.277661	NM_013587	ENSMUSG00000029103	Lrpap1	AA617339|AI790446|AU042172|C77774|HBP44|RAP	low density lipoprotein receptor-related protein associated protein 1	protein-coding	3.0	10.0	12.5	153.0	20.0	7.0	8.0	7.0
Merged-chr9-100377888-3	chr9	100377771	100377971	+	776.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108602.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	8.0	14.5	10.0	222.0	20.5	5.0	3.5	3.5
Merged-chr9-66131568-6	chr9	66131452	66131652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359210, intron 1 of 3)	intron (NM_001359210, intron 1 of 3)	4941.0	NM_026635	68250.0	Mm.27107	NM_026635	ENSMUSG00000032381	Fam96a	5730536A07Rik	family with sequence similarity 96, member A	protein-coding	23.0	26.5	13.5	658.0	42.0	24.5	28.0	23.0
Merged-chr8-27175725-4	chr8	27175628	27175828	+	996.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1082.0	NM_001080813	75767.0	Mm.205335	NM_029423	ENSMUSG00000031488	Rab11fip1	2010200K21Rik|4833414G05Rik|Rcp	RAB11 family interacting protein 1 (class I)	protein-coding	23.0	28.5	15.0	265.5	48.0	24.0	22.5	32.0
Merged-chr2-59286512-4	chr2	59286336	59286536	+	892.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 3 of 20)	intron (NM_175464, intron 3 of 20)	100246.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	8.5	17.0	27.5	434.5	9.0	4.5	11.0	10.5
Merged-chr12-116432121-1	chr12	116432021	116432221	+	581.666687	f1_c57bl6.idr	intron (NM_133762, intron 16 of 28)	RLTR19-int|LTR|ERVK	26719.0	NM_133762	76044.0	Mm.491196	NM_133762	ENSMUSG00000042029	Ncapg2	5830426I05Rik|Luzp5|Mtb|mCAP-G2	non-SMC condensin II complex, subunit G2	protein-coding	0.0	0.0	0.0	2.5	14.5	6.5	6.5	12.0
Merged-chr1-191085748-4	chr1	191085650	191085850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12664.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	68.5	108.5	98.0	771.0	157.0	64.5	70.5	65.0
Merged-chr8-104534972-4	chr8	104534841	104535041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144931)	promoter-TSS (NM_144931)	241.0	NM_001301164	12354.0	Mm.129265	NM_053070	ENSMUSG00000031883	Car7	AV343731|Ca7	carbonic anhydrase 7	protein-coding	40.5	120.0	55.5	668.0	125.5	57.5	53.0	36.5
Merged-chr11-70213102-3	chr11	70212989	70213189	+	860.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153081)	promoter-TSS (NM_153081)	-821.0	NM_153081	216867.0	Mm.289238	NM_153081	ENSMUSG00000040938	Slc16a11	AB041591|MCT 11|MNCb-2717	solute carrier family 16 (monocarboxylic acid transporters), member 11	protein-coding	11.5	19.0	14.0	131.0	19.0	13.5	8.5	11.0
Merged-chr6-83121539-4	chr6	83121408	83121608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016757)	promoter-TSS (NM_016757)	-47.0	NM_001083922	22377.0	Mm.1109	NM_016757	ENSMUSG00000030035	Wbp1	AI255152	WW domain binding protein 1	protein-coding	252.0	413.0	260.0	4410.0	603.0	224.5	284.5	218.5
Merged-chr9-72791866-4	chr9	72791748	72791948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15426.0	NM_175485	235472.0	Mm.31696	NM_175485	ENSMUSG00000036030	Prtg	A230098A12Rik|Igdcc5	protogenin	protein-coding	56.5	48.0	45.5	708.0	79.0	32.5	27.0	47.5
Merged-chr3-88677535-4	chr3	88677434	88677634	+	897.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	-8253.0	NM_028814	74200.0	Mm.251800	NM_028814	ENSMUSG00000028060	2810403A07Rik	A430106P18Rik|AI256352|AI451678|Blom7|Khdc4|Kiaa0907	RIKEN cDNA 2810403A07 gene	protein-coding	12.5	27.0	8.0	192.5	44.0	14.5	12.5	19.0
Merged-chr14-118431730-3	chr14	118431590	118431790	+	946.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65812.0	NR_045624	73306.0	Mm.362328	NR_045624	ENSMUSG00000099911	1700044C05Rik	-	RIKEN cDNA 1700044C05 gene	ncRNA	10.0	18.5	21.5	236.0	14.5	3.0	2.0	4.0
Merged-chr3-60570869-4	chr3	60570732	60570932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310514, intron 2 of 8)	intron (NM_001310514, intron 2 of 8)	69653.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	40.0	31.5	20.0	473.5	66.0	22.5	24.0	23.0
Merged-chr11-82781335-6	chr11	82781225	82781425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126067)	promoter-TSS (NR_126067)	216.0	NM_010716	16882.0	Mm.277136	NM_010716	ENSMUSG00000020697	Lig3	D11Wsu78e	ligase III, DNA, ATP-dependent	protein-coding	33.5	76.0	60.5	488.0	107.0	46.5	42.0	53.5
Merged-chr7-142737122-3	chr7	142737016	142737216	+	716.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57390.0	NM_001185084	16334.0	Mm.4946	NM_008387	ENSMUSG00000000215	Ins2	AA986540|Ins-2|InsII|Mody|Mody4	insulin II	protein-coding	15.0	10.0	2.5	148.5	13.0	11.0	7.5	5.0
Merged-chr8-10139790-4	chr8	10139684	10139884	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	-14127.0	NM_001319151	244281.0	Mm.422761	NM_001081397	ENSMUSG00000039057	Myo16	BM140241|C230040D10Rik|Gm1105|NYAP3|mKIAA0865	myosin XVI	protein-coding	21.0	24.0	27.0	344.0	61.0	13.5	34.0	21.5
Merged-chr4-88698973-4	chr4	88698898	88699098	+	905.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7730.0	NM_008336	15974.0	Mm.377093	NM_008336	ENSMUSG00000100079	Ifnab	-	interferon alpha B	protein-coding	14.0	9.0	12.0	200.5	46.0	14.0	14.5	16.0
Merged-chr2-174437879-4	chr2	174437784	174437984	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022325, intron 2 of 5)	intron (NM_022325, intron 2 of 5)	1155.0	NM_022325	64138.0	Mm.156919	NM_022325	ENSMUSG00000016256	Ctsz	AI787083|AU019819|CTSX|D2Wsu143e	cathepsin Z	protein-coding	185.5	246.0	174.5	2429.0	563.0	157.0	183.0	176.0
Merged-chr15-9072212-6	chr15	9072031	9072231	+	963.805542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040395, intron 1 of 12)	intron (NM_001040395, intron 1 of 12)	871.0	NM_001040395	68646.0	Mm.244226	NM_001040395	ENSMUSG00000022253	Nadk2	MNADK|Nadkd1	NAD kinase 2, mitochondrial	protein-coding	6.0	8.0	2.0	127.0	27.0	6.5	13.5	17.0
Merged-chr14-70576971-4	chr14	70576875	70577075	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360475)	promoter-TSS (NM_001360475)	-849.0	NM_153136	213484.0	Mm.34191	NM_153136	ENSMUSG00000045211	Nudt18	BC036718	nudix (nucleoside diphosphate linked moiety X)-type motif 18	protein-coding	24.5	53.0	29.0	776.5	67.5	13.0	26.0	26.5
Merged-chr9-116174829-1	chr9	116174729	116174929	+	1000.0	f0_balb.idr	intron (NM_009371, intron 1 of 7)	CpG	534.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	37.5	79.5	32.0	434.5	82.5	55.0	48.0	52.5
Merged-chr7-102028176-4	chr7	102028082	102028282	+	974.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029211, intron 6 of 8)	intron (NM_029211, intron 6 of 8)	-10027.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	26.0	17.0	15.0	403.0	84.0	11.0	26.0	26.5
Merged-chr4-145267900-4	chr4	145267796	145267996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21026.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	76.5	130.0	115.0	730.0	178.5	87.0	61.0	42.0
Merged-chr8-25841449-2	chr8	25841349	25841549	+	809.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011791)	promoter-TSS (NM_011791)	-662.0	NM_011791	23808.0	Mm.27706	NM_011791	ENSMUSG00000031575	Ash2l	-	ASH2 like histone lysine methyltransferase complex subunit	protein-coding	5.5	6.5	9.5	113.0	11.5	2.5	3.0	6.0
Merged-chr2-168553835-3	chr2	168553752	168553952	+	903.9110720000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037177, intron 3 of 6)	intron (NM_001037177, intron 3 of 6)	36513.0	NM_001291178	18019.0	Mm.116802	NM_010899	ENSMUSG00000027544	Nfatc2	AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2	protein-coding	3.5	20.0	14.5	276.0	17.0	5.5	9.0	8.5
Merged-chr1-160212298-2	chr1	160212198	160212398	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009786, intron 1 of 5)	intron (NM_009786, intron 1 of 5)	594.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	19.5	9.0	11.5	144.5	38.0	21.0	9.5	17.5
Merged-chr11-76588248-4	chr11	76588129	76588329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10490.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	140.0	257.0	132.0	1807.0	295.5	130.5	136.0	108.0
Merged-chr14-64657819-3	chr14	64657714	64657914	+	937.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081177, intron 1 of 39)	intron (NM_001081177, intron 1 of 39)	5283.0	NM_001081177	16554.0	Mm.23611	NM_001081177	ENSMUSG00000060012	Kif13b	5330429L19Rik|6030414C01|AI429803|C130021D12Rik|GAKIN	kinesin family member 13B	protein-coding	9.0	15.5	14.0	173.5	19.0	13.5	10.5	6.5
Merged-chr5-139389878-4	chr5	139389798	139389998	+	876.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038703)	promoter-TSS (NM_001038703)	-6.0	NM_001038703	80290.0	Mm.270003	NM_030258	ENSMUSG00000044197	Gpr146	BC003323|D830046C22Rik|PGR8	G protein-coupled receptor 146	protein-coding	14.5	13.0	17.5	330.0	17.0	1.5	11.0	13.0
Merged-chr3-132103588-3	chr3	132103502	132103702	+	878.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020265, intron 1 of 3)	intron (NM_020265, intron 1 of 3)	18310.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	8.5	10.0	13.5	274.5	8.0	7.5	11.5	10.0
Merged-chr5-112991405-4	chr5	112991299	112991499	+	994.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 1 of 20)	intron (NM_001285806, intron 1 of 20)	24139.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	38.5	37.0	32.5	770.5	61.5	10.5	16.5	18.5
Merged-chr5-62711187-4	chr5	62711086	62711286	+	952.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178407, intron 7 of 32)	intron (NM_178407, intron 7 of 32)	54991.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	18.0	11.0	27.5	352.5	36.0	10.0	28.0	27.0
Merged-chr16-49755353-4	chr16	49755232	49755432	+	799.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028680, intron 6 of 10)	URR1A|DNA|hAT-Charlie	56038.0	NM_028680	73916.0	Mm.241276	NM_028680	ENSMUSG00000032965	Ift57	4833420A15Rik|Esrrbl1|Hippi|MHS4R2	intraflagellar transport 57	protein-coding	10.0	7.0	8.0	101.5	7.5	6.5	11.5	6.0
Merged-chr4-40722398-4	chr4	40722300	40722500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_029594)	promoter-TSS (NR_029594)	-68.0	NM_008298	15502.0	Mm.27897	NM_008298	ENSMUSG00000028410	Dnaja1	HSJ-2|Hsj2|Nedd7	DnaJ heat shock protein family (Hsp40) member A1	protein-coding	246.0	451.5	224.5	3471.0	645.5	300.5	287.0	232.5
Merged-chr5-124015974-4	chr5	124015890	124016090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	16270.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	77.5	109.5	66.0	1049.5	188.0	63.0	89.0	56.5
Merged-chr3-10306997-4	chr3	10306890	10307090	+	918.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5807.0	NM_029310	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	11.5	24.5	21.0	119.5	27.5	13.0	18.0	12.5
Merged-chr16-33261798-3	chr16	33261715	33261915	+	823.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080557, intron 1 of 13)	RMER4A|LTR|ERVK	10359.0	NM_080557	69150.0	Mm.28196	NM_080557	ENSMUSG00000022808	Snx4	1810036H14Rik|AI037066	sorting nexin 4	protein-coding	9.0	5.5	10.0	101.5	12.0	6.5	3.0	4.5
Merged-chr9-113928793-4	chr9	113928693	113928893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2141.0	NM_001083319	22221.0	Mm.28052	NM_013699	ENSMUSG00000009741	Ubp1	Cp2b|LBP-1a|LBP-1b|NF2d9	upstream binding protein 1	protein-coding	94.5	138.5	86.0	1330.0	169.5	56.0	109.5	76.5
Merged-chr8-84925753-2	chr8	84925653	84925853	+	922.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_019945, intron 7 of 25)	intron (NM_019945, intron 7 of 25)	11600.0	NM_019945	56527.0	Mm.154614	NM_019945	ENSMUSG00000053693	Mast1	9430008B02Rik|SAST|SAST170	microtubule associated serine/threonine kinase 1	protein-coding	3.5	3.0	3.5	85.0	22.0	5.0	5.5	10.0
Merged-chr13-55067436-4	chr13	55067383	55067583	+	759.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121592, intron 6 of 13)	L1M2|LINE|L1	26923.0	NM_001359757	20184.0	Mm.259301	NM_011307	ENSMUSG00000025878	Uimc1	9430016E08Rik|D330018D10Rik|D630032M02Rik|RIP110|Rxrip110	ubiquitin interaction motif containing 1	protein-coding	3.5	10.0	3.0	58.0	16.5	5.5	7.5	8.0
Merged-chr4-123748166-2	chr4	123748066	123748266	+	667.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_023423, intron 1 of 4)	intron (NM_023423, intron 1 of 4)	2133.0	NM_023423	68050.0	Mm.27903	NM_023423	ENSMUSG00000023075	Akirin1	6330407G11Rik	akirin 1	protein-coding	5.0	8.0	10.5	51.0	4.5	7.5	8.5	10.5
Merged-chr9-119156693-5	chr9	119156615	119156815	+	853.5618900000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146230, intron 1 of 11)	CpG-15481	378.0	NM_146230	235674.0	Mm.379402	NM_146230	ENSMUSG00000010651	Acaa1b	-	acetyl-Coenzyme A acyltransferase 1B	protein-coding	3.0	10.0	12.5	78.5	20.0	5.5	7.5	8.0
Merged-chr13-17028796-1	chr13	17028696	17028896	+	883.75	f0_balb.idr	intron (NM_138654, intron 12 of 13)	ORR1F|LTR|ERVL-MaLR	665969.0	NM_138654	192136.0	Mm.364180	NM_138654	ENSMUSG00000055137	Sugct	5033411D12Rik|D17907	succinyl-CoA glutarate-CoA transferase	protein-coding	19.0	11.0	13.0	281.0	6.5	1.5	3.5	1.5
Merged-chr11-79214212-4	chr11	79214110	79214310	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28814.0	NM_001042565	78889.0	Mm.307022	NM_019653	ENSMUSG00000017677	Wsb1	1110056B13Rik|2700038M07Rik	WD repeat and SOCS box-containing 1	protein-coding	135.0	207.0	123.5	1588.5	261.5	123.0	118.5	75.5
Merged-chr10-43919200-4	chr10	43919068	43919268	+	980.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152603, intron 4 of 7)	intron (NR_152603, intron 4 of 7)	17361.0	NM_130892	170728.0	Mm.390253	NM_130892	ENSMUSG00000019864	Rtn4ip1	D10Ertd690e|NIMP	reticulon 4 interacting protein 1	protein-coding	17.5	46.5	20.0	393.0	36.0	14.5	20.5	15.5
Merged-chr10-111050446-1	chr10	111050346	111050546	+	784.0	f0_balb.idr	Intergenic	G-rich|Low_complexity|Low_complexity	-40380.0	NM_172554	320150.0	Mm.339281	NM_172554	ENSMUSG00000035798	Zdhhc17	A230053P19Rik|BB187739|D130071N24Rik|DHHC-17|Hip14	zinc finger, DHHC domain containing 17	protein-coding	7.0	8.5	8.5	102.0	3.5	2.0	5.5	2.0
Merged-chr14-31215706-2	chr14	31215606	31215806	+	827.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2167.0	NM_001025379	218877.0	Mm.27812	NM_001025379	ENSMUSG00000021904	Sema3g	AK129018	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G	protein-coding	5.5	3.5	2.5	42.0	13.0	6.5	8.0	7.5
Merged-chr17-37618261-4	chr17	37618163	37618363	+	862.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	6370.0	NM_146632	258625.0	Mm.377599	NM_146632	ENSMUSG00000061336	Olfr116	MOR218-2	olfactory receptor 116	protein-coding	16.5	9.5	9.0	219.0	19.5	2.0	10.0	9.5
Merged-chr3-144043335-4	chr3	144043250	144043450	+	821.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158982.0	NM_001161770	16911.0	Mm.29187	NM_010723	ENSMUSG00000028266	Lmo4	A730077C12Rik|Crp3|Etohi4	LIM domain only 4	protein-coding	8.5	23.5	6.0	41.0	40.0	15.5	8.0	3.5
Merged-chr7-67962043-4	chr7	67961969	67962169	+	949.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 1 of 20)	intron (NM_010513, intron 1 of 20)	9812.0	NM_010513	16001.0	Mm.275742	NM_010513	ENSMUSG00000005533	Igf1r	A330103N21Rik|CD221|D930020L01|IGF-1R|hyft	insulin-like growth factor I receptor	protein-coding	26.0	30.5	13.5	476.5	51.0	17.5	24.0	13.0
Merged-chr14-73403556-3	chr14	73403456	73403656	+	677.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-18267.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	9.5	10.5	9.0	131.5	12.0	3.5	23.0	10.5
Merged-chr8-88694450-4	chr8	88694310	88694510	+	978.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2618.0	NM_001128170	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	18.0	22.0	8.0	146.0	53.5	10.5	13.0	11.5
Merged-chr9-77835945-4	chr9	77835844	77836044	+	773.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81409.0	NM_010295	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	7.0	13.5	12.0	195.0	26.0	11.0	20.5	10.5
Merged-chr12-69892659-1	chr12	69892559	69892759	+	982.0	f0_balb.idr	promoter-TSS (NM_178628)	promoter-TSS (NM_178628)	-446.0	NM_178628	73991.0	Mm.474462	NM_178628	ENSMUSG00000021066	Atl1	4930435M24Rik|Adfsp|Fsp1|Spg3|Spg3a	atlastin GTPase 1	protein-coding	8.5	23.5	23.5	133.5	25.0	3.5	3.5	12.5
Merged-chr14-77832581-4	chr14	77832463	77832663	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025384, intron 5 of 5)	RMER6B|LTR|ERVK	-33595.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	8.0	11.0	6.5	79.5	139.5	48.5	52.5	41.0
Merged-chr17-48285807-1	chr17	48285707	48285907	+	758.333313	f0_c57.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	-14231.0	NM_001033405	328833.0	Mm.329104	NM_001033405	ENSMUSG00000071068	Treml2	AW049306|Gm750|Tlt2	triggering receptor expressed on myeloid cells-like 2	protein-coding	0.0	0.0	0.0	0.0	16.5	16.0	14.5	23.5
Merged-chr13-97129313-4	chr13	97129214	97129414	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_021552)	TTS (NM_021552)	8612.0	NM_021552	59050.0	Mm.390634	NM_021552	ENSMUSG00000060739	Nsa2	5730427N09Rik|LNR42|Nsa2p|Tinp1|Yr29	NSA2 ribosome biogenesis homolog	protein-coding	26.0	21.5	19.0	301.5	61.0	16.5	25.0	28.0
Merged-chr16-90830580-4	chr16	90830516	90830716	+	892.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_133572)	promoter-TSS (NR_133572)	-243.0	NR_133572	70967.0	Mm.253077	NM_027627	ENSMUSG00000039903	Eva1c	1700092M14Rik|4931408A02Rik|Fam176c	eva-1 homolog C (C. elegans)	protein-coding	9.0	12.0	17.0	53.0	19.0	4.0	6.0	15.5
Merged-chr13-73718445-4	chr13	73718334	73718534	+	804.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17654.0	NM_028878	74338.0	Mm.271635	NM_028878	ENSMUSG00000021565	Slc6a19	4632401C08Rik|B<0>AT1	solute carrier family 6 (neurotransmitter transporter), member 19	protein-coding	10.0	9.0	5.0	172.5	22.5	6.0	12.5	6.5
Merged-chr2-121807116-4	chr2	121807012	121807212	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172673)	promoter-TSS (NM_172673)	-55.0	NM_172673	228564.0	Mm.121514	NM_172673	ENSMUSG00000027238	Frmd5	1500032A09Rik|A930004K21Rik|R75430	FERM domain containing 5	protein-coding	80.5	95.5	76.0	1479.0	71.0	11.5	36.5	32.0
Merged-chr11-52072055-4	chr11	52071951	52072151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166654, intron 13 of 13)	intron (NM_001166654, intron 13 of 13)	-26773.0	NM_019411	19052.0	Mm.260288	NM_019411	ENSMUSG00000020349	Ppp2ca	PP2A|R75353	protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform	protein-coding	37.5	42.0	33.5	586.0	76.5	19.5	36.0	41.5
Merged-chr2-71453267-4	chr2	71453167	71453367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025633)	promoter-TSS (NM_025633)	-71.0	NM_025633	66559.0	Mm.152796	NM_025633	ENSMUSG00000041921	Metap1d	2310066F24Rik|3110033D18Rik|AV117938|MAP 1D|Map1d|MetAP 1D|Metapl1	methionyl aminopeptidase type 1D (mitochondrial)	protein-coding	86.0	113.5	61.0	1325.5	157.0	45.5	73.0	53.5
Merged-chr6-72938089-4	chr6	72937979	72938179	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20153.0	NM_001039392	19240.0	Mm.3532	NM_025284	ENSMUSG00000079523	Tmsb10	Ptmb10|Tb10	thymosin, beta 10	protein-coding	35.5	73.5	35.0	571.0	165.0	42.0	50.5	50.0
Merged-chr11-32563810-4	chr11	32563701	32563901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009288, intron 2 of 18)	intron (NM_009288, intron 2 of 18)	30535.0	NM_001359177	20868.0	Mm.8235	NM_009288	ENSMUSG00000020272	Stk10	Gek1|Lok|mKIAA4026	serine/threonine kinase 10	protein-coding	93.0	132.0	96.5	1690.0	193.0	68.0	69.5	71.0
Merged-chr4-28424553-4	chr4	28424433	28424633	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-388598.0	NM_001290434	13841.0	Mm.257266	NM_010141	ENSMUSG00000028289	Epha7	Cek11|Ebk|Ehk3|Hek11|Mdk1	Eph receptor A7	protein-coding	36.0	31.5	19.0	551.0	24.0	8.0	7.5	10.5
Merged-chr12-69475569-4	chr12	69475464	69475664	+	832.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038060)	promoter-TSS (NR_038060)	-14.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	10.0	17.5	13.5	219.5	19.0	11.5	7.0	5.0
Merged-chr12-17531059-2	chr12	17530980	17531180	+	852.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13793.0	NM_013614	18263.0	Mm.34102	NM_013614	ENSMUSG00000011179	Odc1	ODC	ornithine decarboxylase, structural 1	protein-coding	2.5	8.5	3.5	33.5	34.5	6.0	7.0	12.0
Merged-chr19-29821152-3	chr19	29821058	29821258	+	743.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8184.0	NM_177721	240614.0	Mm.125503	NM_177721	ENSMUSG00000074909	Ranbp6	C630001B19	RAN binding protein 6	protein-coding	5.5	4.5	7.5	85.0	6.0	2.5	8.5	10.0
Merged-chr6-71196287-4	chr6	71196175	71196375	+	767.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3604.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	9.5	9.0	8.5	117.0	31.0	3.0	17.5	12.5
Merged-chr2-101777008-2	chr2	101776900	101777100	+	941.166626	f0_c57.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	MIRb|SINE|MIR	20707.0	NM_175181	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	0.0	3.0	0.0	19.0	52.5	23.0	28.5	23.5
Merged-chr2-158615591-2	chr2	158615491	158615691	+	710.5	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009508, exon 2 of 2)	3' UTR (NM_009508, exon 2 of 2)	4833.0	NM_009508	22348.0	Mm.143404	NM_009508	ENSMUSG00000037771	Slc32a1	R75019|VGAT|Viaat	solute carrier family 32 (GABA vesicular transporter), member 1	protein-coding	3.0	1.0	2.5	90.5	5.5	9.5	7.0	4.5
Merged-chr4-135948389-4	chr4	135948264	135948464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001357529, exon 1 of 9)	5' UTR (NM_001357529, exon 1 of 9)	958.0	NM_001357530	15356.0	Mm.482102	NM_008254	ENSMUSG00000028672	Hmgcl	AW476067|HL	3-hydroxy-3-methylglutaryl-Coenzyme A lyase	protein-coding	22.0	49.5	19.5	464.0	62.5	24.0	28.5	29.5
Merged-chr18-34378595-3	chr18	34378497	34378697	+	916.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-5182.0	NM_007874	13476.0	Mm.280075	NM_007874	ENSMUSG00000005873	Reep5	AI324241|AU022809|AW495741|DP1/TB2|Dp1|R74856|TB2/DP1	receptor accessory protein 5	protein-coding	10.0	25.0	4.5	159.5	12.0	4.0	8.0	13.0
Merged-chr18-56924952-4	chr18	56924962	56925162	+	912.4285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177115, intron 1 of 4)	CpG	486.0	NM_177115	320253.0	Mm.312623	NM_177115	ENSMUSG00000032656	March3	6330411I15Rik|A530081L18Rik|AI843639|MARCH-III	membrane-associated ring finger (C3HC4) 3	protein-coding	16.0	16.5	16.5	177.0	32.0	6.0	16.0	18.0
Merged-chr6-48444238-4	chr6	48444150	48444350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355746, intron 1 of 4)	intron (NM_001355746, intron 1 of 4)	840.0	NM_001085415	68910.0	Mm.2464	NM_020589	ENSMUSG00000068551	Zfp467	1190001I08Rik|AB041616|AI426952|AV017623|EZI|MNCb-3350|Znf467	zinc finger protein 467	protein-coding	109.5	131.0	105.0	1284.0	259.5	111.0	145.0	89.5
Merged-chr6-65144793-4	chr6	65144680	65144880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019455)	promoter-TSS (NM_019455)	-50.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	147.0	145.5	104.0	2196.5	326.0	104.0	120.5	152.5
Merged-chr10-7833811-4	chr10	7833696	7833896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172785, intron 1 of 5)	intron (NM_172785, intron 1 of 5)	1326.0	NM_172785	237256.0	Mm.140055	NM_172785	ENSMUSG00000039981	Zc3h12d	D730019B10Rik|TFL	zinc finger CCCH type containing 12D	protein-coding	48.5	95.0	55.0	904.5	82.5	31.0	34.0	35.5
Merged-chr1-95323201-4	chr1	95323093	95323293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026321, intron 1 of 2)	intron (NM_026321, intron 1 of 2)	9565.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	105.5	143.0	86.0	2143.0	245.5	91.5	107.5	89.5
Merged-chr2-45108845-4	chr2	45108737	45108937	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	1440.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	22.5	44.0	43.0	221.5	73.0	34.0	35.5	25.5
Merged-chr19-46135435-4	chr19	46135344	46135544	+	918.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008852)	TTS (NM_008852)	3545.0	NM_007703	12686.0	Mm.21806	NM_007703	ENSMUSG00000038754	Elovl3	CIN-2|Cig30	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3	protein-coding	14.5	18.0	3.5	89.5	44.0	8.0	11.5	7.5
Merged-chr11-79993774-3	chr11	79993672	79993872	+	859.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199196, intron 1 of 15)	CpG	666.0	NM_199196	52615.0	Mm.283410	NM_199196	ENSMUSG00000017548	Suz12	2610028O16Rik|AI195385|AU016842|AW536442|D11Ertd530e|mKIAA0160	SUZ12 polycomb repressive complex 2 subunit	protein-coding	9.5	14.0	7.0	28.5	15.5	3.0	3.0	4.5
Merged-chr3-149086717-4	chr3	149086590	149086790	+	823.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132055.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	6.5	5.5	4.5	168.5	24.5	4.5	13.0	14.0
Merged-chr13-41918582-2	chr13	41918482	41918682	+	720.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	52667.0	NR_033545	100038577.0	Mm.387093	NR_033545	ENSMUSG00000113856	Gm10790	-	predicted gene 10790	ncRNA	9.0	37.5	7.0	36.5	15.5	12.0	4.0	2.5
Merged-chr1-135531908-2	chr1	135531808	135532008	+	551.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_173437, intron 3 of 28)	intron (NM_173437, intron 3 of 28)	53447.0	NM_173437	215690.0	Mm.34977	NM_173437	ENSMUSG00000009418	Nav1	9530089B19|9930003A20Rik|C230080M11Rik|Gm38399|Pomfil3|Unc53h1|mKIAA1151|steerin-1	neuron navigator 1	protein-coding	6.5	11.5	9.5	51.5	14.5	3.0	3.5	8.0
Merged-chr1-75251721-4	chr1	75251598	75251798	+	981.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359281, intron 19 of 22)	intron (NM_001359281, intron 19 of 22)	12073.0	NM_001359281	19275.0	Mm.2902	NM_008985	ENSMUSG00000026204	Ptprn	IA-2|mIA-A|mKIAA4064	protein tyrosine phosphatase, receptor type, N	protein-coding	31.0	26.0	18.0	311.0	37.5	25.0	13.5	13.5
Merged-chr8-34124125-4	chr8	34124008	34124208	+	733.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001126314, exon 3 of 3)	exon (NM_001126314, exon 3 of 3)	9078.0	NM_001126314	234155.0	Mm.324008	NM_001126314	ENSMUSG00000071113	Mboat4	GOAT|Gm171	membrane bound O-acyltransferase domain containing 4	protein-coding	9.0	13.0	3.5	127.5	39.0	5.0	12.5	14.0
Merged-chr6-4797009-3	chr6	4796926	4797126	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49720.0	NM_130877	170676.0	Mm.320575	NM_130877	ENSMUSG00000092035	Peg10	AA407948|Edr|HB-1|MEF3L|Mar2|Mart2|MyEF-3|Rtl2	paternally expressed 10	protein-coding	6.5	8.5	7.5	160.5	13.5	6.5	2.0	5.0
Merged-chr4-152152002-2	chr4	152151902	152152102	+	879.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_207687, exon 1 of 16)	exon (NM_207687, exon 1 of 16)	205.0	NM_207687	56226.0	Mm.264215	NM_019585	ENSMUSG00000028943	Espn	je	espin	protein-coding	4.5	14.0	5.0	130.0	21.5	2.5	6.5	11.0
Merged-chr11-79878825-4	chr11	79878700	79878900	+	920.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	83587.0	NM_144826	216987.0	Mm.274961	NM_144826	ENSMUSG00000035575	Utp6	4732497O03Rik|HCA66	UTP6 small subunit processome component	protein-coding	3.5	19.0	8.5	146.0	32.5	8.0	19.0	11.0
Merged-chr13-5868336-2	chr13	5868236	5868436	+	765.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011803, exon 4 of 4)	3' UTR (NM_011803, exon 4 of 4)	6847.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	6.5	21.5	7.5	43.0	14.5	8.0	4.5	5.5
Merged-chr2-112448698-3	chr2	112448595	112448795	+	867.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6330.0	NM_133749	73024.0	Mm.268027	NM_133749	ENSMUSG00000055943	Emc7	2900064A13Rik|AI451465|ORF3|c11orf3	ER membrane protein complex subunit 7	protein-coding	12.5	11.5	10.0	130.0	19.0	6.0	13.0	10.5
Merged-chr3-133626818-4	chr3	133626689	133626889	+	960.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-82399.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	20.0	45.5	16.0	175.0	23.5	11.5	10.5	27.0
Merged-chr9-73044875-4	chr9	73044771	73044971	+	948.979126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023635)	promoter-TSS (NM_023635)	61.0	NM_001301230	11891.0	Mm.34867	NM_023635	ENSMUSG00000032202	Rab27a	2210402C08Rik|2410003M20Rik|4933437C11Rik|ash	RAB27A, member RAS oncogene family	protein-coding	8.0	19.5	18.0	302.0	33.0	5.5	14.5	8.5
Merged-chr17-57358584-4	chr17	57358495	57358695	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355723)	promoter-TSS (NM_001355723)	-91.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	147.5	227.0	127.5	1435.0	356.5	138.5	115.0	78.5
Merged-chr14-45665063-4	chr14	45665034	45665234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-6991.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	41.0	86.0	78.0	812.5	219.0	54.0	59.5	49.0
Merged-chr16-20516970-4	chr16	20516880	20517080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347176)	promoter-TSS (NM_001347176)	-6.0	NM_001347176	13544.0	Mm.247259	NM_007889	ENSMUSG00000003233	Dvl3	b2b2866Clo	dishevelled segment polarity protein 3	protein-coding	119.5	177.0	113.0	2146.0	235.0	63.0	134.5	86.5
Merged-chr8-66495886-4	chr8	66495782	66495982	+	943.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9352.0	NM_001357208	66282.0	Mm.294985	NM_025465	ENSMUSG00000025591	Tma16	1810029B16Rik	translation machinery associated 16	protein-coding	19.5	18.5	7.0	214.5	36.0	15.5	19.0	16.0
Merged-chr13-30714804-4	chr13	30714726	30714926	+	990.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34407.0	NM_001347508	16364.0	Mm.4677	NM_013674	ENSMUSG00000021356	Irf4	AI385587|IRF-4|LSIRF|NF-EM5|Spip	interferon regulatory factor 4	protein-coding	36.0	50.5	47.5	828.5	34.0	19.0	33.5	42.0
Merged-chr8-70131698-4	chr8	70131580	70131780	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011266, exon 9 of 9)	3' UTR (NM_011266, exon 9 of 9)	353.0	NM_001025587	75692.0	Mm.161167	NM_001025586	ENSMUSG00000071078	Nr2c2ap	2310073E15Rik	nuclear receptor 2C2-associated protein	protein-coding	10.5	11.5	15.5	127.5	69.5	19.5	28.0	21.5
Merged-chr11-46457927-4	chr11	46457825	46458025	+	930.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134250, intron 2 of 6)	RMER6B|LTR|ERVK	2994.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	17.0	27.0	13.5	207.5	30.5	11.0	31.0	16.0
Merged-chr7-29522410-4	chr7	29522314	29522514	+	824.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16954.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	10.5	13.5	7.5	165.5	44.0	13.5	18.5	14.0
Merged-chr12-119371511-4	chr12	119371419	119371619	+	978.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71891.0	NM_001163136	238455.0	Mm.31376	NM_001163136	ENSMUSG00000041886	Macc1	4732474O15Rik|Gm267	metastasis associated in colon cancer 1	protein-coding	19.0	51.0	17.0	178.5	56.5	22.0	13.0	7.5
Merged-chr3-90514411-4	chr3	90514325	90514525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011309)	promoter-TSS (NM_011309)	-10.0	NM_009113	20196.0	Mm.6523	NM_009113	ENSMUSG00000042312	S100a13	-	S100 calcium binding protein A13	protein-coding	61.5	55.5	41.5	917.0	130.0	31.0	49.0	41.0
Merged-chr11-80169822-4	chr11	80169731	80169931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 6 of 10)	B3|SINE|B2	-14041.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	93.0	170.5	96.5	889.0	196.0	85.0	81.0	46.0
Merged-chr15-10486008-4	chr15	10485927	10486127	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026396)	promoter-TSS (NM_026396)	9.0	NM_011232	19355.0	Mm.38376	NM_011232	ENSMUSG00000022248	Rad1	mRAD1	RAD1 checkpoint DNA exonuclease	protein-coding	115.5	231.5	125.5	1954.5	347.0	122.0	185.0	115.5
Merged-chr1-98095571-4	chr1	98095458	98095658	+	994.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013626)	promoter-TSS (NM_013626)	74.0	NM_013626	18484.0	Mm.5121	NM_013626	ENSMUSG00000026335	Pam	PHM	peptidylglycine alpha-amidating monooxygenase	protein-coding	37.0	43.0	51.5	1042.5	42.5	15.5	31.5	19.0
Merged-chr8-33733043-6	chr8	33732956	33733156	+	977.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167922, intron 1 of 7)	intron (NM_001167922, intron 1 of 7)	717.0	NM_001167922	68153.0	Mm.286104	NM_026584	ENSMUSG00000031585	Gtf2e2	34kDa|AI462509|C330006J08Rik	general transcription factor II E, polypeptide 2 (beta subunit)	protein-coding	15.5	19.0	20.0	406.0	23.5	15.5	11.0	13.0
Merged-chr13-97205374-6	chr13	97205306	97205506	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7049.0	NM_010422	15212.0	Mm.27816	NM_010422	ENSMUSG00000021665	Hexb	-	hexosaminidase B	protein-coding	16.0	18.0	4.5	173.0	18.5	14.5	19.0	22.0
Merged-chr4-133132257-4	chr4	133132170	133132370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	1637.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	38.0	71.5	38.5	572.5	93.0	31.5	28.0	26.0
Merged-chr17-35978869-2	chr17	35978769	35978969	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001282012, exon 1 of 4)	5' UTR (NM_001282012, exon 1 of 4)	154.0	NM_001282012	75210.0	Mm.40036	NM_145487	ENSMUSG00000038500	Prr3	4930540G07Rik|Cat56	proline-rich polypeptide 3	protein-coding	4.5	6.5	7.0	94.5	17.0	2.5	6.5	6.5
Merged-chr13-9129068-4	chr13	9128956	9129156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 3 of 17)	intron (NM_172585, intron 3 of 17)	35175.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	115.0	224.0	210.5	2507.0	364.5	152.5	130.0	134.5
Merged-chr4-149763530-4	chr4	149763430	149763630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027460, intron 1 of 6)	URR1B|DNA|hAT-Charlie	10737.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	19.0	24.5	31.0	392.5	63.5	28.0	34.0	32.5
Merged-chr10-59369626-3	chr10	59369530	59369730	+	886.138916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001316371, exon 14 of 15)	exon (NM_001316371, exon 14 of 15)	-34055.0	NM_023530	69836.0	Mm.30268	NM_023530	ENSMUSG00000009646	Pla2g12b	2010002E04Rik|Fksg71|Pla2g13|hlb218	phospholipase A2, group XIIB	protein-coding	14.5	17.0	7.5	309.0	24.0	4.0	7.5	6.0
Merged-chr4-120053796-1	chr4	120053696	120053896	+	830.666687	f0_c57.idr	intron (NM_010657, intron 2 of 8)	intron (NM_010657, intron 2 of 8)	-107410.0	NM_007902	13615.0	Mm.284855	NM_007902	ENSMUSG00000028635	Edn2	ET-2|PPET2|VIC	endothelin 2	protein-coding	19.5	18.0	8.0	290.0	48.0	9.5	22.5	18.5
Merged-chr3-60518634-1	chr3	60518534	60518734	+	685.0	f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	17455.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	1.5	3.5	3.0	34.0	30.0	5.5	9.0	8.5
Merged-chr18-52563793-4	chr18	52563698	52563898	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33931.0	NM_001286182	16948.0	Mm.172	NM_010728	ENSMUSG00000024529	Lox	AI893619|TSC-160|rrg	lysyl oxidase	protein-coding	160.0	254.0	147.0	2137.5	271.5	128.5	142.5	112.0
Merged-chr7-28371687-5	chr7	28371642	28371842	+	824.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290542, exon 1 of 19)	5' UTR (NM_001290542, exon 1 of 19)	920.0	NM_138752	101497.0	Mm.235700	NM_138752	ENSMUSG00000037552	Plekhg2	AI194308|Clg|Cslg	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	protein-coding	7.0	15.0	9.0	79.0	14.0	16.5	7.0	12.0
Merged-chr8-35498480-4	chr8	35498372	35498572	+	964.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-2939.0	NM_026067	67276.0	Mm.207534	NM_026067	ENSMUSG00000031527	Eri1	3'hexo|3110010F15Rik|Thex1|eri-1	exoribonuclease 1	protein-coding	28.5	16.0	14.5	183.5	33.5	29.0	33.0	23.5
Merged-chr17-57347941-4	chr17	57347844	57348044	+	812.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10742.0	NM_001355723	13733.0	Mm.2254	NM_010130	ENSMUSG00000004730	Adgre1	DD7A5-7|EGF-TM7|Emr1|F4/80|Gpf480|Ly71|TM7LN3	adhesion G protein-coupled receptor E1	protein-coding	8.0	10.0	11.0	116.5	20.5	11.0	12.0	14.5
Merged-chr16-93288235-2	chr16	93288135	93288335	+	615.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64954.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	7.0	9.5	3.0	85.0	11.5	4.5	5.0	6.5
Merged-chr7-29908648-4	chr7	29908553	29908753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243908, intron 1 of 4)	intron (NM_001243908, intron 1 of 4)	136.0	NM_001243908	73729.0	Mm.333743	NM_001243908	ENSMUSG00000099689	Zfp383	1110003H10Rik	zinc finger protein 383	protein-coding	36.5	50.0	42.5	513.0	48.0	30.5	42.0	41.0
Merged-chr11-82022845-4	chr11	82022722	82022922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12755.0	NM_011333	20296.0	Mm.290320	NM_011333	ENSMUSG00000035385	Ccl2	AI323594|HC11|JE|MCAF|MCP-1|MCP1|SMC-CF|Scya2|Sigje	chemokine (C-C motif) ligand 2	protein-coding	70.5	161.0	67.5	637.0	124.5	58.0	55.5	61.5
Merged-chr6-137471158-6	chr6	137471025	137471225	+	840.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48770.0	NM_001271589	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	9.0	16.0	19.5	130.0	10.5	2.0	7.5	10.0
Merged-chr17-34296849-3	chr17	34296756	34296956	+	920.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9011.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	12.0	14.0	4.5	115.0	56.0	8.0	15.5	10.5
Merged-chr17-48300997-4	chr17	48300920	48301120	+	749.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360121, intron 1 of 4)	intron (NM_001360121, intron 1 of 4)	982.0	NM_001360121	328833.0	Mm.329104	NM_001033405	ENSMUSG00000071068	Treml2	AW049306|Gm750|Tlt2	triggering receptor expressed on myeloid cells-like 2	protein-coding	10.5	7.0	8.5	157.0	31.0	5.5	10.5	14.0
Merged-chr4-133159316-4	chr4	133159210	133159410	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	intron (NM_153423, intron 1 of 8)	28677.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	70.0	125.5	75.0	1156.5	179.5	73.0	94.5	90.0
Merged-chr4-132261595-4	chr4	132261503	132261703	+	969.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020273)	promoter-TSS (NM_020273)	-54.0	NM_001122992	56809.0	Mm.103489	NM_020273	ENSMUSG00000028901	Gmeb1	1110050A04Rik|AI256615|AI481278	glucocorticoid modulatory element binding protein 1	protein-coding	31.5	34.5	10.0	200.5	42.5	16.5	26.5	19.0
Merged-chr10-75593422-3	chr10	75593275	75593475	+	722.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359425, intron 1 of 7)	intron (NM_001359425, intron 1 of 7)	3994.0	NR_153110	23887.0	Mm.257927	NM_011820	ENSMUSG00000006344	Ggt5	AI551243|GGL|GGT-REL|Ggtla1	gamma-glutamyltransferase 5	protein-coding	7.0	15.5	7.5	52.0	15.0	6.5	11.0	3.5
Merged-chr3-144699234-4	chr3	144699149	144699349	+	878.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019464, intron 5 of 8)	intron (NM_019464, intron 5 of 8)	21086.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	10.0	10.5	16.5	105.5	30.5	11.0	7.0	6.5
Merged-chr17-27911919-4	chr17	27911829	27912029	+	823.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181413, intron 1 of 24)	intron (NM_181413, intron 1 of 24)	2623.0	NM_181413	224650.0	Mm.32556	NM_181413	ENSMUSG00000024219	Anks1	Anks1a|mKIAA0229	ankyrin repeat and SAM domain containing 1	protein-coding	10.5	13.5	11.5	186.0	18.0	9.0	4.5	9.5
Merged-chr4-86612142-4	chr4	86612043	86612243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173400)	promoter-TSS (NM_173400)	-88.0	NM_173400	230376.0	Mm.74730	NM_173400	ENSMUSG00000038047	Haus6	6230416J20Rik|9830144E06|D4Ertd27e|mKIAA1574	HAUS augmin-like complex, subunit 6	protein-coding	217.5	403.5	242.5	4163.5	533.0	187.0	304.0	190.5
Merged-chr17-34308300-4	chr17	34308247	34308447	+	968.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 1 of 5)	intron (NM_010382, intron 1 of 5)	2480.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	19.0	33.5	17.0	207.0	56.5	10.0	14.5	20.5
Merged-chr8-119098418-1	chr8	119098318	119098518	+	652.5	f0_balb.idr	intron (NM_019707, intron 7 of 13)	intron (NM_019707, intron 7 of 13)	-246120.0	NM_024219	68196.0	Mm.358714	NM_024219	ENSMUSG00000031839	Hsbp1	0610007A03Rik|AA408769|Hsp25	heat shock factor binding protein 1	protein-coding	4.5	9.5	12.5	90.0	2.0	1.0	3.5	3.0
Merged-chr4-139188122-4	chr4	139188039	139188239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4760.0	NM_009798	12345.0	Mm.2945	NM_009798	ENSMUSG00000028745	Capzb	1700120C01Rik|AI325129|CPB1|CPB2|CPbeat2|CPbeta1|CPbeta2|Cappb1	capping protein (actin filament) muscle Z-line, beta	protein-coding	84.5	76.5	84.5	1155.0	120.5	39.5	45.5	55.0
Merged-chr10-61475715-4	chr10	61475616	61475816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153542)	promoter-TSS (NM_153542)	-117.0	NM_153542	216011.0	Mm.136116	NM_153542	ENSMUSG00000037151	Lrrc20	BC036304	leucine rich repeat containing 20	protein-coding	135.0	211.0	147.5	2328.5	351.0	122.5	207.0	149.0
Merged-chr10-117376984-4	chr10	117376884	117377084	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310609)	promoter-TSS (NM_001310609)	-11.0	NM_001310609	432508.0	Mm.478881	NM_001013391	ENSMUSG00000055531	Cpsf6	4733401N12Rik|AI256641|CFIM|CFIM68|HPBRII-4|HPBRII-7	cleavage and polyadenylation specific factor 6	protein-coding	90.5	177.0	83.0	1750.0	388.5	127.0	142.5	125.0
Merged-chr3-152149508-4	chr3	152149426	152149626	+	907.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016867, intron 1 of 5)	intron (NM_016867, intron 1 of 5)	16374.0	NM_016867	54120.0	Mm.97	NM_016867	ENSMUSG00000039131	Gipc2	2200002N01Rik|AU021850|Semcap2	GIPC PDZ domain containing family, member 2	protein-coding	23.0	16.0	30.5	383.5	26.5	15.5	10.0	9.0
Merged-chr17-71256976-2	chr17	71256865	71257065	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	intron (NM_001357338, intron 4 of 7)	52311.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	47.5	77.0	33.5	601.0	7.5	1.0	1.0	3.5
Merged-chr15-76766879-3	chr15	76766760	76766960	+	893.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	-43015.0	NM_176828	223665.0	Mm.291713	NM_145472	ENSMUSG00000116138	C030006K11Rik	1110033I13Rik	RIKEN cDNA C030006K11 gene	protein-coding	5.0	11.5	6.0	132.5	24.5	5.5	7.5	5.5
Merged-chr17-28909561-3	chr17	28909474	28909674	+	851.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172450, exon 2 of 12)	exon (NM_172450, exon 2 of 12)	4309.0	NR_045457	74179.0	Mm.248931	NR_045457	ENSMUSG00000085333	1700030A11Rik	-	RIKEN cDNA 1700030A11 gene	ncRNA	9.0	12.5	4.5	54.5	12.5	2.0	8.5	5.0
Merged-chr2-129298501-4	chr2	129298489	129298689	+	703.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040371, intron 1 of 4)	RMER15|LTR|ERVL	1219.0	NR_040371	100503468.0	Mm.446943	NR_040371	ENSMUSG00000085498	Gm14023	-	predicted gene 14023	ncRNA	9.5	30.0	9.0	5.0	17.5	8.5	1.5	6.5
Merged-chr14-75176783-4	chr14	75176710	75176910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	40385.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	84.0	150.5	74.0	1184.0	264.0	98.5	94.0	107.5
Merged-chr14-25371157-3	chr14	25371064	25371264	+	632.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88021.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	8.0	7.0	7.0	171.0	8.5	3.0	1.0	2.0
Merged-chr11-96829540-4	chr11	96829449	96829649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130450)	promoter-TSS (NM_001130450)	-47.0	NM_001130450	18023.0	Mm.6743	NM_008686	ENSMUSG00000038615	Nfe2l1	AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11	nuclear factor, erythroid derived 2,-like 1	protein-coding	40.5	61.0	35.0	552.0	106.0	48.5	53.5	51.5
Merged-chr4-59436141-4	chr4	59436051	59436251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 1 of 16)	MTD|LTR|ERVL-MaLR	2482.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	29.5	44.5	34.0	633.0	45.0	21.0	36.5	30.0
Merged-chr4-11628187-4	chr4	11628076	11628276	+	839.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48514.0	NM_001256142	100503583.0	Mm.249437	NM_001256142	ENSMUSG00000094595	Fsbp	-	fibrinogen silencer binding protein	protein-coding	6.0	7.5	7.5	125.5	26.5	6.5	12.5	4.5
Merged-chr3-133545993-1	chr3	133545893	133546093	+	553.0	f0_balb.idr	Intergenic	Intergenic	-1603.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	7.0	7.5	3.5	64.0	19.5	6.0	5.0	13.0
Merged-chr11-89000129-1	chr11	89000029	89000229	+	1000.0	f0_balb.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	726.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	28.5	35.0	20.0	155.5	93.5	36.0	37.0	17.0
Merged-chr13-19430105-4	chr13	19430008	19430208	+	704.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34295.0	NM_001347485	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	4.0	20.0	7.0	88.5	19.5	19.0	9.5	12.5
Merged-chr5-120505516-4	chr5	120505419	120505619	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1896.0	NM_023625	71772.0	Mm.100065	NM_023625	ENSMUSG00000029598	Plbd2	1300012G16Rik|AU019810|P76	phospholipase B domain containing 2	protein-coding	34.0	61.5	36.5	362.0	87.0	35.5	45.5	23.5
Merged-chr2-166639238-4	chr2	166639147	166639347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 3 of 39)	intron (NM_177782, intron 3 of 39)	74585.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	118.5	176.5	95.5	1231.0	248.0	87.0	101.0	64.5
Merged-chr1-36939823-4	chr1	36939706	36939906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018872)	promoter-TSS (NM_018872)	-279.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	79.5	142.5	111.0	836.5	168.0	87.5	46.0	82.5
Merged-chr13-3893596-4	chr13	3893501	3893701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001047159)	promoter-TSS (NM_001047159)	-20.0	NM_001047159	56349.0	Mm.22261	NM_019671	ENSMUSG00000021215	Net1	Net1a|mNET1	neuroepithelial cell transforming gene 1	protein-coding	55.0	62.5	53.0	824.0	110.5	35.0	55.0	57.0
Merged-chr11-109367040-4	chr11	109366938	109367138	+	916.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010303, intron 2 of 3)	intron (NM_010303, intron 2 of 3)	-3384.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	10.5	29.5	7.0	142.0	51.0	24.0	19.0	19.0
Merged-chr1-180888867-4	chr1	180888783	180888983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4225.0	NM_177099	320202.0	Mm.87078	NM_177099	ENSMUSG00000066652	Lefty2	6030463A22Rik|Ebaf|Lefta|Leftb|lefty-2|lefty-B	left-right determination factor 2	protein-coding	90.0	158.5	83.5	988.0	259.5	101.0	94.0	82.0
Merged-chr10-125966180-4	chr10	125966068	125966268	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177152)	promoter-TSS (NM_177152)	-51.0	NM_177152	320398.0	Mm.275586	NM_177152	ENSMUSG00000020105	Lrig3	9030421L11Rik|9130004I02Rik|9430095K15Rik|mKIAA3016	leucine-rich repeats and immunoglobulin-like domains 3	protein-coding	61.5	80.5	101.5	855.5	120.5	49.5	68.5	59.5
Merged-chr13-111461567-3	chr13	111461431	111461631	+	888.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361926, intron 2 of 10)	intron (NM_001361926, intron 2 of 10)	28596.0	NM_028487	73274.0	Mm.57286	NM_028487	ENSMUSG00000032745	Gpbp1	1700034P14Rik|AU019836|D230035M11Rik|Gpbp|mGPBP	GC-rich promoter binding protein 1	protein-coding	14.5	11.0	4.0	114.0	25.5	9.5	8.0	15.5
Merged-chr15-66866148-3	chr15	66866063	66866263	+	776.788879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25230.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	3.5	7.5	10.5	74.0	17.5	8.5	4.5	8.5
Merged-chr15-79723578-1	chr15	79723478	79723678	+	552.0	f1_c57bl6.idr	TTS (NM_001205345)	TTS (NM_001205345)	18958.0	NM_194342	223697.0	Mm.202715	NM_194342	ENSMUSG00000042524	Sun2	B230369L08Rik|C030011B15|Unc84b	Sad1 and UNC84 domain containing 2	protein-coding	1.0	4.5	2.5	48.5	9.5	5.0	6.5	7.0
Merged-chr7-127393744-4	chr7	127393659	127393859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198011)	promoter-TSS (NM_198011)	-138.0	NM_198011	101604.0	Mm.334241	NM_198011	ENSMUSG00000078580	E430018J23Rik	AI480612	RIKEN cDNA E430018J23 gene	protein-coding	104.0	149.5	92.0	1179.5	288.0	103.0	102.5	93.5
Merged-chr8-13675807-3	chr8	13675772	13675972	+	903.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009025, intron 1 of 23)	intron (NM_009025, intron 1 of 23)	1715.0	NM_009025	19414.0	Mm.18517	NM_009025	ENSMUSG00000031453	Rasa3	AI326412|C86362|E130011G04|GAPIII|hlb381|scat	RAS p21 protein activator 3	protein-coding	9.0	5.5	7.0	76.0	10.0	5.0	2.5	7.5
Merged-chr2-9878614-4	chr2	9878516	9878716	+	869.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008091)	promoter-TSS (NM_008091)	-16.0	NM_001355112	14462.0	Mm.313866	NM_008091	ENSMUSG00000015619	Gata3	Gata-3|jal	GATA binding protein 3	protein-coding	11.5	13.0	13.0	121.5	21.5	5.0	7.0	12.0
Merged-chr4-155144451-3	chr4	155144340	155144540	+	850.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081100, intron 13 of 13)	intron (NM_001081100, intron 13 of 13)	57836.0	NM_001356327	76866.0	Mm.200590	NM_001081100	ENSMUSG00000029049	Morn1	2900057D20Rik|4930417P05Rik|AU042805	MORN repeat containing 1	protein-coding	17.5	12.5	7.0	85.0	21.0	12.0	6.0	3.0
Merged-chr12-40430775-4	chr12	40430666	40430866	+	952.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172575, intron 1 of 12)	intron (NM_172575, intron 1 of 12)	15024.0	NM_172575	246196.0	Mm.26852	NM_172575	ENSMUSG00000055917	Zfp277	2410017E24Rik|NIRF4	zinc finger protein 277	protein-coding	12.5	26.0	21.5	530.5	39.5	13.0	37.5	19.5
Merged-chr2-3788570-3	chr2	3788432	3788632	+	726.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75074.0	NM_025626	66540.0	Mm.277864	NM_025626	ENSMUSG00000026655	Fam107b	3110001A13Rik|AA589595|AA959793|AI132312	family with sequence similarity 107, member B	protein-coding	6.5	5.0	8.0	151.0	16.0	0.5	0.0	8.5
Merged-chr4-150570042-4	chr4	150569923	150570123	+	918.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	CpG	82151.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	15.0	8.5	12.5	155.0	17.0	11.0	7.0	15.0
Merged-chr2-80267114-4	chr2	80267016	80267216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25354.0	NM_177256	320769.0	Mm.60992	NM_177256	ENSMUSG00000050114	Prdx6b	1-cysPrx-P1|4930414C22Rik|Aop2-rs1|Prdx5-rs1|Prdx6-ps1|Prdx6-rs1|Prdx6-rs1-ps	peroxiredoxin 6B	protein-coding	41.5	75.0	43.0	1176.5	135.5	69.0	66.5	63.0
Merged-chr8-25016246-3	chr8	25016148	25016348	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027194)	promoter-TSS (NM_027194)	674.0	NM_001270996	11502.0	Mm.28908	NM_007404	ENSMUSG00000031555	Adam9	AU020942|MDC9|Mltng|mKIAA0021	a disintegrin and metallopeptidase domain 9 (meltrin gamma)	protein-coding	6.0	23.5	16.5	210.5	37.0	11.0	8.0	20.5
Merged-chr2-145699853-4	chr2	145699742	145699942	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1353.0	NR_033220	408057.0	Mm.486711	NR_033220	ENSMUSG00000087594	BC039771	-	cDNA sequence BC039771	ncRNA	35.0	48.5	14.5	744.5	80.5	31.0	41.5	33.0
Merged-chr7-30336588-4	chr7	30336497	30336697	+	921.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14222.0	NM_001033140	68332.0	Mm.6844	NM_001033140	ENSMUSG00000074211	Sdhaf1	0610010E21Rik|AI430885|AW490662|Lyrm8	succinate dehydrogenase complex assembly factor 1	protein-coding	11.0	30.5	8.0	241.5	43.5	11.0	16.5	35.0
Merged-chr5-114315287-3	chr5	114315207	114315407	+	815.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164573, intron 1 of 30)	MLT1K|LTR|ERVL-MaLR	366.0	NM_001164573	231646.0	Mm.238285	NM_146163	ENSMUSG00000066952	Myo1h	4631401O15Rik	myosin 1H	protein-coding	9.5	17.5	11.0	194.0	8.0	2.5	7.5	5.5
Merged-chr15-74721043-4	chr15	74720905	74721105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198607)	promoter-TSS (NM_198607)	-229.0	NM_198607	223626.0	Mm.268603	NM_198607	ENSMUSG00000056665	Them6	4930572J05Rik	thioesterase superfamily member 6	protein-coding	118.0	174.5	128.5	2044.5	252.0	104.5	129.0	98.5
Merged-chr1-179832959-4	chr1	179832896	179833096	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-28981.0	NM_026375	226747.0	Mm.128165	NM_026375	ENSMUSG00000026491	Ahctf1	6230412P20Rik|AV011447|Elys	AT hook containing transcription factor 1	protein-coding	5.0	11.5	6.5	106.5	20.0	4.0	6.0	8.5
Merged-chr17-88517749-4	chr17	88517643	88517843	+	969.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-12381.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	22.5	30.0	19.0	423.0	31.0	19.5	39.0	31.0
Merged-chr13-37793127-3	chr13	37793006	37793206	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32932.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	35.5	83.5	22.5	508.5	66.0	7.5	6.0	10.5
Merged-chr13-56711959-4	chr13	56711879	56712079	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164042, intron 1 of 6)	L1MB7|LINE|L1	8311.0	NM_001164042	17129.0	Mm.272920	NM_008541	ENSMUSG00000021540	Smad5	1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP	SMAD family member 5	protein-coding	12.5	33.0	22.0	323.5	83.5	23.0	38.5	42.5
Merged-chr4-109419189-4	chr4	109419085	109419285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145948, intron 2 of 17)	intron (NM_001145948, intron 2 of 17)	3538.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	47.0	57.0	37.0	801.0	88.5	47.0	61.0	30.5
Merged-chr5-122779740-4	chr5	122779635	122779835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145358)	promoter-TSS (NM_145358)	-325.0	NM_145358	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	140.5	282.0	123.0	1492.0	376.0	147.5	135.0	95.5
Merged-chr15-80497918-4	chr15	80497819	80498019	+	937.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163189, intron 4 of 5)	ORR1A2|LTR|ERVL-MaLR	-59316.0	NR_155274	102633578.0	Mm.397484	NR_155274	ENSMUSG00000115888	Gm31369	-	predicted gene, 31369	ncRNA	29.0	68.5	36.0	423.5	35.5	9.0	5.0	23.5
Merged-chr5-31154322-4	chr5	31154213	31154413	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008622)	promoter-TSS (NM_008622)	-62.0	NM_008622	17527.0	Mm.271923	NM_008622	ENSMUSG00000107283	Mpv17	Tg.Mpv17	MpV17 mitochondrial inner membrane protein	protein-coding	23.0	23.0	20.0	236.0	51.0	18.0	18.5	20.0
Merged-chr15-67636444-1	chr15	67636344	67636544	+	809.0	f0_balb.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	409675.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	11.5	20.5	11.0	167.0	16.0	13.0	4.5	2.5
Merged-chr15-89315346-4	chr15	89315259	89315459	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170561)	promoter-TSS (NM_001170561)	-48.0	NM_001170561	77980.0	Mm.35483	NM_030019	ENSMUSG00000036529	Sbf1	2610510A08Rik|B230113C15Rik|Mtmr5|mKIAA3020	SET binding factor 1	protein-coding	187.5	252.5	139.5	2695.0	418.0	133.5	219.0	122.5
Merged-chr14-44986490-4	chr14	44986418	44986618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1593.0	NM_008964	19217.0	Mm.4630	NM_008964	ENSMUSG00000037759	Ptger2	EP2|Ptgerep2	prostaglandin E receptor 2 (subtype EP2)	protein-coding	108.5	162.5	105.5	1373.5	192.0	74.5	69.0	61.0
Merged-chr13-23453564-4	chr13	23453456	23453656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12345.0	NM_013483	12231.0	Mm.1420	NM_013483	ENSMUSG00000000706	Btn1a1	Btn	butyrophilin, subfamily 1, member A1	protein-coding	22.5	32.0	16.5	365.5	75.5	24.0	22.0	45.5
Merged-chr8-124897861-4	chr8	124897770	124897970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001111141)	promoter-TSS (NM_001111141)	-16.0	NM_001111141	244666.0	Mm.482915	NM_001111141	ENSMUSG00000031986	Sprtn	Gm505	SprT-like N-terminal domain	protein-coding	89.0	112.5	67.0	1077.0	215.5	79.5	68.0	78.0
Merged-chr2-155309421-8	chr2	155309329	155309529	+	987.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004721, intron 7 of 11)	intron (NM_001004721, intron 7 of 11)	33065.0	NR_046364	66734.0	Mm.196239	NM_025735	ENSMUSG00000027602	Map1lc3a	1010001H21Rik|4922501H04Rik|LC3|LC3a	microtubule-associated protein 1 light chain 3 alpha	protein-coding	25.5	26.0	7.5	293.0	31.0	16.5	32.0	22.5
Merged-chr10-51553556-4	chr10	51553452	51553652	+	934.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36908.0	NM_029894	77296.0	Mm.30588	NM_029894	ENSMUSG00000019909	Fam162b	9430073N08Rik	family with sequence similarity 162, member B	protein-coding	12.5	19.0	16.0	327.5	53.5	22.0	15.0	15.0
Merged-chr19-32087879-2	chr19	32087787	32087987	+	734.333374	f0_balb.idr|f1_balb.idr	intron (NM_018830, intron 2 of 23)	L1_Mur3|LINE|L1	15253.0	NM_018830	54447.0	Mm.491229	NM_018830	ENSMUSG00000024887	Asah2	AI585898	N-acylsphingosine amidohydrolase 2	protein-coding	7.0	13.0	6.5	160.0	0.0	0.0	0.5	1.5
Merged-chr11-68430686-4	chr11	68430597	68430797	+	960.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1428.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	37.0	74.0	29.5	442.5	67.0	28.0	13.0	20.5
Merged-chr1-40322750-4	chr1	40322652	40322852	+	834.895813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1837.0	NM_001356478	107527.0	Mm.155583	NM_133193	ENSMUSG00000070942	Il1rl2	AI481289|AW551444|IL-1Rrp2	interleukin 1 receptor-like 2	protein-coding	13.0	19.0	9.0	256.5	34.5	12.0	11.0	17.5
Merged-chr9-74953451-3	chr9	74953358	74953558	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113283, intron 1 of 12)	intron (NM_001113283, intron 1 of 12)	405.0	NM_001113283	235493.0	Mm.208955	NM_153584	ENSMUSG00000034858	Fam214a	6330415I01Rik|AI553555|C130047D21Rik|Kiaa1370|mKIAA1370	family with sequence similarity 214, member A	protein-coding	31.0	26.0	19.0	317.0	45.5	15.0	22.5	19.5
Merged-chr19-40818910-4	chr19	40818805	40819005	+	909.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12374.0	NM_172839	240665.0	Mm.309	NM_172839	ENSMUSG00000025010	Ccnj	D430039C20Rik	cyclin J	protein-coding	13.5	26.0	22.5	428.0	34.0	12.0	15.5	29.0
Merged-chr12-70471557-4	chr12	70471471	70471671	+	970.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037248, intron 2 of 4)	intron (NR_037248, intron 2 of 4)	18417.0	NM_028339	72736.0	Mm.204670	NM_028339	ENSMUSG00000021072	Tmx1	2810425A04Rik|AI465319|Txndc1	thioredoxin-related transmembrane protein 1	protein-coding	17.5	33.0	20.5	240.5	68.5	23.5	15.5	31.5
Merged-chr1-95665965-2	chr1	95665865	95666065	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159745, intron 1 of 3)	intron (NM_001159745, intron 1 of 3)	1629.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	6.0	4.5	9.0	123.5	19.5	12.0	6.5	3.5
Merged-chr17-14943814-2	chr17	14943714	14943914	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175173)	promoter-TSS (NM_175173)	630.0	NM_026451	67912.0	Mm.390949	NM_026451	ENSMUSG00000050088	1600012H06Rik	-	RIKEN cDNA 1600012H06 gene	protein-coding	4.5	10.0	17.0	82.5	31.0	5.0	6.0	15.5
Merged-chr11-114168385-3	chr11	114168307	114168507	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29851.0	NR_045930	73536.0	Mm.54275	NR_045930	ENSMUSG00000078600	1700092K14Rik	-	RIKEN cDNA 1700092K14 gene	ncRNA	4.5	17.5	6.0	52.0	148.5	25.0	31.5	43.5
Merged-chr2-148530679-4	chr2	148530593	148530793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-87158.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	115.0	91.5	209.0	2662.0	146.5	68.0	138.0	70.5
Merged-chr8-84979383-2	chr8	84979283	84979483	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008416)	promoter-TSS (NM_008416)	-635.0	NM_008416	16477.0	Mm.1167	NM_008416	ENSMUSG00000052837	Junb	-	jun B proto-oncogene	protein-coding	45.5	65.0	35.0	558.5	90.5	27.0	33.5	37.0
Merged-chr13-9776062-4	chr13	9775954	9776154	+	941.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10733.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	11.0	18.0	6.5	229.5	43.0	12.5	16.0	28.5
Merged-chr15-97064260-3	chr15	97064161	97064361	+	887.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8305.0	NM_027052	69354.0	Mm.250980	NM_027052	ENSMUSG00000022464	Slc38a4	1110012E16Rik|1700012A18Rik|Ata3|mATA3|mNAT3	solute carrier family 38, member 4	protein-coding	9.0	9.5	8.5	144.5	10.5	4.0	14.5	6.5
Merged-chr2-153156263-4	chr2	153156146	153156346	+	795.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5055.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	8.0	10.5	6.5	36.5	24.5	9.5	5.5	5.0
Merged-chr9-67424207-3	chr9	67424151	67424351	+	785.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081242, intron 2 of 57)	intron (NM_001081242, intron 2 of 57)	135452.0	NM_001081242	70549.0	Mm.33645	NM_027458	ENSMUSG00000052698	Tln2	5730421P04Rik|AI507121|AI787438|AL118320|mKIAA0320	talin 2	protein-coding	6.0	26.0	11.0	76.5	3.0	3.0	3.5	3.0
Merged-chr12-111732711-4	chr12	111732641	111732841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163388, intron 4 of 5)	intron (NM_001163388, intron 4 of 5)	19472.0	NM_026511	68020.0	Mm.425762	NM_026511	ENSMUSG00000037787	Apopt1	1700081D05Rik|2810002N01Rik|Apop-1|Apop1	apoptogenic, mitochondrial 1	protein-coding	32.0	34.0	15.0	432.0	115.0	22.0	33.0	29.0
Merged-chr7-101763078-2	chr7	101762978	101763178	+	771.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_009191, intron 6 of 15)	intron (NM_009191, intron 6 of 15)	-55235.0	NM_008887	11859.0	Mm.5028	NM_008887	ENSMUSG00000007946	Phox2a	Arix|Phox2|Pmx2|Pmx2a|Px2a	paired-like homeobox 2a	protein-coding	10.0	25.0	2.5	72.0	11.5	6.5	9.0	6.5
Merged-chr6-71279594-4	chr6	71279490	71279690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145568, intron 1 of 3)	intron (NM_145568, intron 1 of 3)	7571.0	NM_145568	57896.0	Mm.250569	NM_145568	ENSMUSG00000053012	Krcc1	AA792894	lysine-rich coiled-coil 1	protein-coding	41.5	59.0	31.0	488.5	93.5	42.0	36.5	41.5
Merged-chr19-60790735-4	chr19	60790656	60790856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010123)	promoter-TSS (NM_010123)	-63.0	NM_010123	13669.0	Mm.2238	NM_010123	ENSMUSG00000024991	Eif3a	A830012B05Rik|Csma|Eif3|Eif3s10|mKIAA0139	eukaryotic translation initiation factor 3, subunit A	protein-coding	150.5	233.5	127.5	1685.0	304.5	126.5	130.0	76.5
Merged-chr2-170328750-4	chr2	170328673	170328873	+	925.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27588.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	9.0	17.0	7.0	120.0	32.5	13.5	16.0	9.5
Merged-chr11-23124583-4	chr11	23124484	23124684	+	913.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCCCG)n|Simple_repeat|Simple_repeat	-27556.0	NR_131065	76993.0	Mm.59224	NR_131065	ENSMUSG00000086366	1700061J23Rik	-	RIKEN cDNA 1700061J23 gene	ncRNA	11.5	22.5	23.0	203.0	56.0	11.0	12.5	22.0
Merged-chr17-33637901-8	chr17	33637863	33638063	+	876.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028279)	promoter-TSS (NR_028279)	-93.0	NM_001002842	378460.0	Mm.272606	NM_001002842	ENSMUSG00000032739	Pram1	AY665714	PML-RAR alpha-regulated adaptor molecule 1	protein-coding	11.5	8.5	8.0	144.5	26.0	6.0	20.5	8.5
Merged-chr4-6222229-4	chr4	6222137	6222337	+	975.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31132.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	4.5	10.0	19.5	217.0	435.0	141.0	233.0	168.5
Merged-chr4-116822260-2	chr4	116822160	116822360	+	881.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146256)	promoter-TSS (NM_146256)	-752.0	NM_146256	242642.0	Mm.279897	NM_146256	ENSMUSG00000043155	Hpdl	A830048M07Rik|BC034099|Gloxd1	4-hydroxyphenylpyruvate dioxygenase-like	protein-coding	1.0	18.0	2.0	57.5	17.0	4.5	8.0	8.0
Merged-chr8-27174710-4	chr8	27174603	27174803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001080813)	promoter-TSS (NM_001080813)	-57.0	NM_001080813	75767.0	Mm.205335	NM_029423	ENSMUSG00000031488	Rab11fip1	2010200K21Rik|4833414G05Rik|Rcp	RAB11 family interacting protein 1 (class I)	protein-coding	81.0	141.5	82.5	917.0	207.5	68.0	80.0	68.5
Merged-chr10-17788078-4	chr10	17787958	17788158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8161.0	NM_138628	378431.0	Mm.283493	NM_138628	ENSMUSG00000039891	Txlnb	2310001N14Rik|Mdp77	taxilin beta	protein-coding	71.0	114.0	73.0	437.0	257.5	95.5	53.0	45.5
Merged-chr3-135517079-3	chr3	135516971	135517171	+	857.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027288, intron 4 of 16)	MLT1F2|LTR|ERVL-MaLR	31460.0	NM_027288	110173.0	Mm.280536	NM_027288	ENSMUSG00000028164	Manba	2410030O07Rik|B930014J03Rik|Bmn	mannosidase, beta A, lysosomal	protein-coding	39.0	51.0	30.0	512.0	5.0	0.0	2.0	6.5
Merged-chr11-114667819-4	chr11	114667714	114667914	+	810.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023372)	promoter-TSS (NM_023372)	-729.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	6.0	2.0	2.5	59.0	16.0	9.5	7.0	12.5
Merged-chr3-127409051-3	chr3	127408972	127409172	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001327939)	promoter-TSS (NM_001327939)	-14.0	NM_001327939	109676.0	Mm.220242	NM_178655	ENSMUSG00000032826	Ank2	100043364|AI835472|AW491075|Ank-2|Gm4392	ankyrin 2, brain	protein-coding	6.0	7.0	5.5	64.5	177.5	59.5	92.5	69.0
Merged-chr9-25253461-3	chr9	25253360	25253560	+	895.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359738, intron 1 of 12)	intron (NM_001359738, intron 1 of 12)	568.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	8.0	17.0	6.0	180.0	32.5	13.5	7.0	12.0
Merged-chr1-152555578-1	chr1	152555478	152555678	+	652.0	f0_balb.idr	intron (NM_016846, intron 5 of 17)	intron (NM_016846, intron 5 of 17)	69639.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	9.5	9.0	5.0	88.0	16.0	6.5	3.0	5.5
Merged-chr19-29522234-4	chr19	29522128	29522328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015567)	promoter-TSS (NR_015567)	-54.0	NM_001081319	226089.0	Mm.353838	NM_177641	ENSMUSG00000038658	Ric1	C030046E11Rik|C130057E09Rik|Kiaa1432	RAB6A GEF complex partner 1	protein-coding	143.0	203.5	111.5	2188.0	400.0	131.5	183.5	121.5
Merged-chr8-75151487-2	chr8	75151387	75151587	+	981.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41978.0	NM_008566	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	10.5	1.5	4.5	60.5	25.5	6.5	5.5	9.5
Merged-chr10-123196432-4	chr10	123196294	123196494	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301628, intron 1 of 20)	CpG	625.0	NM_027604	14479.0	Mm.244209	NM_027604	ENSMUSG00000020124	Usp15	4921514G19Rik|AI327321|E430033I05Rik|Gcap18	ubiquitin specific peptidase 15	protein-coding	28.5	48.0	49.5	681.5	80.0	39.0	39.5	34.0
Merged-chr17-7396258-3	chr17	7396174	7396374	+	678.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TCCC)n|Simple_repeat|Simple_repeat	-10969.0	NM_001142539	667055.0	Mm.327371	NM_001142539	ENSMUSG00000056133	Gm9992	-	predicted gene 9992	protein-coding	7.0	6.0	11.0	25.5	21.5	6.0	8.5	9.5
Merged-chr4-128733706-4	chr4	128733616	128733816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	intron (NM_001195083, intron 1 of 6)	6145.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	133.5	230.5	168.0	2847.5	287.5	110.0	184.5	150.0
Merged-chr7-128724945-4	chr7	128724830	128725030	+	819.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145955, intron 2 of 15)	intron (NM_145955, intron 2 of 15)	15499.0	NM_145955	210711.0	Mm.58882	NM_145955	ENSMUSG00000048170	Mcmbp	1110007A13Rik|AU017382|BC025641|MCM-BP	minichromosome maintenance complex binding protein	protein-coding	14.5	15.0	11.5	98.5	19.0	8.5	7.5	15.5
Merged-chr12-73968342-3	chr12	73968239	73968439	+	813.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178392, exon 3 of 10)	exon (NM_178392, exon 3 of 10)	3809.0	NM_178392	75627.0	Mm.25937	NM_178392	ENSMUSG00000021113	Snapc1	2700033G17Rik|AU015787	small nuclear RNA activating complex, polypeptide 1	protein-coding	6.5	13.5	11.5	170.5	17.0	8.5	9.0	6.0
Merged-chr3-31130035-2	chr3	31129935	31130135	+	880.333374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19885.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	5.0	5.5	6.5	38.0	12.5	3.5	13.5	5.5
Merged-chr17-73942403-4	chr17	73942316	73942516	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011723, intron 2 of 35)	intron (NM_011723, intron 2 of 35)	7780.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	43.5	40.0	31.5	594.5	76.5	26.5	30.0	59.5
Merged-chr8-120702217-4	chr8	120702116	120702316	+	861.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	33896.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	5.5	13.5	15.0	226.0	19.0	10.0	8.5	10.5
Merged-chr4-34551362-7	chr4	34551272	34551472	+	952.0979609999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001007589, intron 1 of 4)	intron (NM_001007589, intron 1 of 4)	757.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	11.0	7.0	21.0	203.5	30.5	6.5	10.0	13.0
Merged-chr2-173020052-4	chr2	173019970	173020170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1832.0	NM_019547	56190.0	Mm.485782	NM_019547	ENSMUSG00000027510	Rbm38	Rnpc1|Seb4|Seb4l	RNA binding motif protein 38	protein-coding	86.5	92.5	47.0	815.5	142.5	49.5	89.5	60.0
Merged-chr17-5303366-7	chr17	5303293	5303493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 8 of 19)	intron (NM_001085355, intron 8 of 19)	115374.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	18.0	24.0	19.0	273.5	41.0	6.5	23.0	23.5
Merged-chr19-12730629-4	chr19	12730530	12730730	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34840.0	NM_029550	64697.0	Mm.218561	NM_029550	ENSMUSG00000024694	Keg1	0610008P16Rik|AI316519|GS4059	kidney expressed gene 1	protein-coding	21.0	38.0	36.5	498.0	51.5	21.0	18.5	25.5
Merged-chr16-85286602-3	chr16	85286516	85286716	+	823.027771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112909.0	NM_001198826	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	0.0	0.0	0.0	5.5	31.0	9.0	8.0	10.5
Merged-chr1-179960419-3	chr1	179960309	179960509	+	784.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346805)	promoter-TSS (NM_001346805)	-351.0	NM_001359541	226751.0	Mm.259655	NM_001033285	ENSMUSG00000026490	Cdc42bpa	A930014J19Rik|DMPK-like	CDC42 binding protein kinase alpha	protein-coding	15.5	11.5	8.0	187.5	17.0	6.0	4.0	7.0
Merged-chr4-63558681-4	chr4	63558564	63558764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356354)	promoter-TSS (NM_001356354)	-99.0	NM_001356355	230279.0	Mm.41523	NM_144905	ENSMUSG00000045917	Tmem268	6330416G13Rik|AW492431|bM230C2.2	transmembrane protein 268	protein-coding	90.5	123.0	133.5	1639.0	211.0	88.5	80.5	89.0
Merged-chr9-56266688-4	chr9	56266586	56266786	+	970.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 3 of 6)	intron (NM_172924, intron 3 of 6)	-105616.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	24.5	24.5	14.0	341.0	53.0	17.5	20.0	18.0
Merged-chr4-139493821-4	chr4	139493728	139493928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36720.0	NM_183148	212632.0	Mm.30464	NM_183148	ENSMUSG00000041025	Iffo2	C79267	intermediate filament family orphan 2	protein-coding	129.5	210.0	140.0	1341.0	197.5	74.5	94.0	87.0
Merged-chr7-80375604-4	chr7	80375527	80375727	+	881.2666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4252.0	NM_172903	140481.0	Mm.269245	NM_172903	ENSMUSG00000038886	Man2a2	1700052O22Rik|4931438M07Rik|AI480988|MX|Man IIx	mannosidase 2, alpha 2	protein-coding	8.0	6.0	6.0	140.5	30.5	8.0	10.5	11.0
Merged-chr9-111095974-3	chr9	111095901	111096101	+	654.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22110.0	NM_027742	71268.0	Mm.302287	NM_027742	ENSMUSG00000032497	Lrrfip2	5133400F20Rik|AI850587	leucine rich repeat (in FLII) interacting protein 2	protein-coding	5.5	11.5	13.0	50.5	11.0	3.5	6.5	4.5
Merged-chr5-146261150-4	chr5	146261061	146261261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153599, intron 2 of 12)	LSU-rRNA_Hsa|rRNA|rRNA	29911.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	126.5	202.0	161.5	602.5	222.5	96.0	86.0	217.0
Merged-chr10-88409982-4	chr10	88409897	88410097	+	906.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004164, intron 2 of 20)	MLTR25A|LTR|ERVK	30585.0	NM_001004164	432486.0	Mm.335190	NM_001004164	ENSMUSG00000035311	Gnptab	EG432486|mKIAA1208	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	protein-coding	11.5	13.5	13.0	147.5	32.0	6.0	11.5	18.0
Merged-chr1-131072623-3	chr1	131072523	131072723	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	25220.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	81.0	126.0	73.0	981.5	10.0	9.0	5.5	4.0
Merged-chr17-26931941-4	chr17	26931825	26932025	+	873.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053173, intron 10 of 10)	intron (NM_053173, intron 10 of 10)	-1202.0	NM_001302397	21652.0	Mm.258953	NM_009343	ENSMUSG00000024193	Phf1	AW557215|D17Ertd455e|Pcl1|Phf2|Tctex3	PHD finger protein 1	protein-coding	10.5	19.5	9.0	87.0	43.5	12.0	13.5	14.0
Merged-chr6-86806579-2	chr6	86806478	86806678	+	633.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12994.0	NM_013471	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	13.5	6.0	5.0	73.5	14.5	6.0	7.0	1.5
Merged-chr8-22140944-2	chr8	22140811	22141011	+	789.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011848, intron 11 of 15)	RLTR44A|LTR|ERVK	-15844.0	NM_001347318	330721.0	Mm.113940	NM_177898	ENSMUSG00000037738	Nek5	6530411J22|BB049667	NIMA (never in mitosis gene a)-related expressed kinase 5	protein-coding	6.5	7.0	6.0	93.5	0.0	0.0	0.5	0.0
Merged-chr8-72375066-4	chr8	72374970	72375170	+	927.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289859, intron 16 of 21)	PB1D10|SINE|Alu	46404.0	NM_001122832	13859.0	Mm.288894	NM_007944	ENSMUSG00000006276	Eps15l1	9830147J04Rik|AI593686|Eps15-rs|Eps15R	epidermal growth factor receptor pathway substrate 15-like 1	protein-coding	48.0	41.5	36.0	424.0	34.5	11.0	12.0	9.0
Merged-chr4-150855046-4	chr4	150854945	150855145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040649)	promoter-TSS (NR_040649)	-25.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	123.5	217.5	131.0	1629.5	404.5	194.5	142.5	179.0
Merged-chr10-121603705-3	chr10	121603614	121603814	+	872.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359618, intron 17 of 24)	intron (NM_001359618, intron 17 of 24)	-16920.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	4.5	3.0	12.0	123.5	9.5	5.5	6.5	5.5
Merged-chr15-79408901-4	chr15	79408780	79408980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5577.0	NM_172608	223693.0	Mm.323358	NM_172608	ENSMUSG00000009035	Tmem184b	2610507A11|4732495E13Rik	transmembrane protein 184b	protein-coding	53.0	77.0	63.0	851.0	77.0	16.5	21.0	30.0
Merged-chr1-36691455-4	chr1	36691356	36691556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009942)	promoter-TSS (NM_009942)	-31.0	NM_009942	12859.0	Mm.180182	NM_009942	ENSMUSG00000061518	Cox5b	-	cytochrome c oxidase subunit Vb	protein-coding	177.0	328.5	168.5	2461.5	422.0	192.0	200.5	186.5
Merged-chr2-151994997-3	chr2	151994900	151995100	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1511.0	NM_027172	69698.0	Mm.258262	NM_027172	ENSMUSG00000027463	Slc52a3	2310046K01Rik|RFT2	solute carrier protein family 52, member 3	protein-coding	11.5	11.0	6.5	120.0	13.5	10.0	6.5	8.5
Merged-chr7-88226159-6	chr7	88226060	88226260	+	891.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51925.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	7.0	10.5	9.0	162.0	16.0	7.5	13.0	9.5
Merged-chr8-11138457-3	chr8	11138352	11138552	+	963.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-130022.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	7.0	15.5	18.5	402.5	15.0	7.0	8.0	13.5
Merged-chr6-149307965-3	chr6	149307854	149308054	+	801.416687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MERV1_LTR|LTR|ERV1	-1460.0	NM_001289661	67246.0	Mm.333515	NM_026054	ENSMUSG00000032712	2810474O19Rik	6720435I21Rik|AA536804|AU020969|GET|Kiaa1551	RIKEN cDNA 2810474O19 gene	protein-coding	7.0	8.5	6.0	14.0	29.0	14.0	9.5	7.5
Merged-chr2-26603910-4	chr2	26603819	26604019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026212, intron 1 of 5)	CpG	498.0	NM_026212	67512.0	Mm.24244	NM_026212	ENSMUSG00000026922	Agpat2	2510002J07Rik|AV000834|BSCL|BSCL1|LPAAB|LPAAT-beta	1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta)	protein-coding	36.5	63.0	39.5	512.0	65.5	22.0	37.0	33.5
Merged-chr2-103656151-4	chr2	103656048	103656248	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178890, intron 1 of 16)	intron (NM_178890, intron 1 of 16)	89838.0	NM_178890	99382.0	Mm.35850	NM_178890	ENSMUSG00000032724	Abtb2	AW539457|BPOZ-2	ankyrin repeat and BTB (POZ) domain containing 2	protein-coding	12.0	26.0	5.0	139.5	21.0	20.0	14.5	5.0
Merged-chr8-104115709-3	chr8	104115591	104115791	+	853.8666380000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 2 of 11)	MTE-int|LTR|ERVL-MaLR	-9818.0	NR_131138	546096.0	Mm.252264	NR_131138	ENSMUSG00000110053	Gm29682	Gm45664	predicted gene, 29682	ncRNA	2.0	2.5	9.0	43.0	39.5	12.5	22.5	13.0
Merged-chr8-90833122-4	chr8	90832975	90833175	+	995.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 1 of 39)	intron (NM_177224, intron 1 of 39)	4240.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	16.0	12.5	28.0	325.0	38.5	10.0	18.5	23.5
Merged-chr3-132870280-4	chr3	132870173	132870373	+	914.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102297, intron 1 of 3)	intron (NR_102297, intron 1 of 3)	8323.0	NR_102297	101243624.0	Mm.306256	NR_102297	ENSMUSG00000106230	Gm29811	-	predicted gene, 29811	ncRNA	22.0	35.5	27.0	592.5	28.0	10.0	13.0	21.0
Merged-chr1-9815965-4	chr1	9815878	9816078	+	891.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177547, intron 1 of 16)	intron (NM_177547, intron 1 of 16)	17848.0	NM_177547	170755.0	Mm.336410	NM_133220	ENSMUSG00000025915	Sgk3	2510015P22Rik|A330005P07Rik|Cisk|fy|fz	serum/glucocorticoid regulated kinase 3	protein-coding	7.0	13.5	4.5	148.0	34.0	5.0	13.5	11.0
Merged-chr18-53158353-4	chr18	53158223	53158423	+	582.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17969.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	5.0	9.0	6.5	70.5	19.0	3.5	5.0	11.5
Merged-chr18-36733825-5	chr18	36733773	36733973	+	977.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-1197.0	NM_028036	71983.0	Mm.135188	NM_028036	ENSMUSG00000006850	Tmco6	2410015B03Rik	transmembrane and coiled-coil domains 6	protein-coding	34.5	39.5	32.0	144.0	40.5	19.5	14.5	10.0
Merged-chr10-81305012-4	chr10	81304921	81305121	+	904.087524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293647, intron 2 of 17)	intron (NM_001293647, intron 2 of 17)	12058.0	NM_001146687	18717.0	Mm.24222	NM_008844	ENSMUSG00000034902	Pip5k1c	AI115456|AI835305|Pip5kIgamma	phosphatidylinositol-4-phosphate 5-kinase, type 1 gamma	protein-coding	12.0	12.5	7.5	215.5	56.5	25.5	12.0	14.5
Merged-chr2-52084354-2	chr2	52084254	52084454	+	820.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355414, intron 9 of 35)	intron (NM_001355414, intron 9 of 35)	11517.0	NM_175238	51869.0	Mm.254530	NM_175238	ENSMUSG00000036202	Rif1	5730435J01Rik|6530403D07Rik|AU016181|AW549474|D2Ertd145e	replication timing regulatory factor 1	protein-coding	0.0	1.0	2.5	12.0	11.0	5.0	8.5	8.5
Merged-chr11-51858391-1	chr11	51858291	51858491	+	1000.0	f0_balb.idr	promoter-TSS (NM_199299)	promoter-TSS (NM_199299)	-761.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	17.5	17.5	27.5	201.5	27.0	18.0	14.5	30.0
Merged-chr8-75103658-5	chr8	75103550	75103750	+	721.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17A2|LTR|ERVK	-5859.0	NM_001302540	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	12.0	38.5	3.0	63.0	17.0	23.5	4.5	13.0
Merged-chr2-59240174-4	chr2	59240063	59240263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 2 of 20)	intron (NM_175464, intron 2 of 20)	79313.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	176.0	246.5	277.5	4693.5	452.0	110.5	204.0	207.0
Merged-chr1-133613844-4	chr1	133613753	133613953	+	773.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER96|DNA|hAT-Tip100	-3573.0	NM_009227	20643.0	Mm.249110	NM_009227	ENSMUSG00000090553	Snrpe	AL022645|C76690|SME	small nuclear ribonucleoprotein E	protein-coding	8.5	7.5	9.0	126.0	17.0	6.0	15.5	16.0
Merged-chr18-4280010-4	chr18	4279897	4280097	+	802.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	72956.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	14.0	14.5	6.5	105.5	36.5	8.5	9.5	16.5
Merged-chr4-148558584-5	chr4	148558498	148558698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355489)	promoter-TSS (NM_001355489)	-115.0	NM_001355489	50912.0	Mm.266635	NM_016699	ENSMUSG00000017264	Exosc10	PM-Scl|PM/Scl-100|Pmscl2|RRP6|p2|p3|p4	exosome component 10	protein-coding	12.0	20.5	29.0	238.0	63.5	29.5	24.5	43.0
Merged-chr3-149101253-4	chr3	149101163	149101363	+	909.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-146628.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	14.0	23.5	16.5	263.0	30.0	15.0	9.0	4.5
Merged-chr17-12781413-4	chr17	12781297	12781497	+	939.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027784, intron 2 of 2)	intron (NR_027784, intron 2 of 2)	-11691.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	30.5	28.5	30.5	293.0	46.0	10.5	16.0	3.5
Merged-chr7-64342243-3	chr7	64342142	64342342	+	712.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	31853.0	NM_177893	330554.0	Mm.236510	NM_177893	ENSMUSG00000033458	Fan1	6030441H18Rik|Mtmr15|mFAN1	FANCD2/FANCI-associated nuclease 1	protein-coding	12.0	12.5	20.0	86.0	7.0	5.5	15.0	8.5
Merged-chr17-48198602-4	chr17	48198497	48198697	+	819.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31340.0	NM_178796	328830.0	Mm.470939	NM_178796	ENSMUSG00000043939	A530064D06Rik	Trem4|pdctrem	RIKEN cDNA A530064D06 gene	protein-coding	3.5	5.5	16.0	89.0	16.5	26.0	13.0	10.5
Merged-chr19-6364528-4	chr19	6364391	6364591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360393, intron 1 of 11)	CpG	801.0	NR_122118	22668.0	Mm.256422	NM_011750	ENSMUSG00000024949	Sf1	BBP|MZFM|WBP4|Zfp162	splicing factor 1	protein-coding	32.0	79.5	26.5	371.5	140.0	70.5	41.5	79.0
Merged-chr7-19281876-3	chr7	19281773	19281973	+	947.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013648)	promoter-TSS (NM_013648)	-751.0	NM_013648	20167.0	Mm.24142	NM_013648	ENSMUSG00000030401	Rtn2	MMS10-P|Ms10p|NSPLI|Nspl1	reticulon 2 (Z-band associated protein)	protein-coding	12.0	23.0	5.0	74.0	47.0	22.0	14.0	31.5
Merged-chr10-127744742-3	chr10	127744665	127744865	+	907.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_198035, exon 2 of 2)	3' UTR (NM_198035, exon 2 of 2)	5227.0	NM_198035	320080.0	Mm.27258	NM_198035	ENSMUSG00000044617	Zbtb39	7030401O21Rik|mKIAA0352	zinc finger and BTB domain containing 39	protein-coding	6.5	13.5	4.5	72.0	23.5	10.0	12.0	15.0
Merged-chr7-105746619-4	chr7	105746518	105746718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009906, exon 13 of 13)	3' UTR (NM_009906, exon 13 of 13)	-2280.0	NM_020024	24075.0	Mm.274846	NM_020024	ENSMUSG00000043866	Taf10	30kDa|AU041226|TAFII30|Taf2h	TATA-box binding protein associated factor 10	protein-coding	22.5	46.5	22.5	434.0	75.0	20.5	45.0	30.0
Merged-chr2-90847144-4	chr2	90847052	90847252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001317241)	promoter-TSS (NM_001317241)	-3.0	NM_001317241	56428.0	Mm.28023	NM_019758	ENSMUSG00000027282	Mtch2	2310034D24Rik|4930539J07Rik|HSPC032	mitochondrial carrier 2	protein-coding	118.5	326.0	152.5	1697.0	365.0	155.0	168.5	138.5
Merged-chr2-173218558-4	chr2	173218458	173218658	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001139519, intron 1 of 3)	intron (NM_001139519, intron 1 of 3)	364.0	NM_021394	58203.0	Mm.116687	NM_021394	ENSMUSG00000027514	Zbp1	2010010H03Rik|Dai|Dlm1|mZaDLM	Z-DNA binding protein 1	protein-coding	6.0	36.5	8.5	130.5	28.0	5.0	21.5	10.5
Merged-chr13-100744626-4	chr13	100744537	100744737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190264)	promoter-TSS (NM_001190264)	22.0	NM_001190264	66128.0	Mm.306173	NM_025369	ENSMUSG00000061474	Mrps36	1110018B13Rik|S36mt	mitochondrial ribosomal protein S36	protein-coding	71.0	114.0	54.0	973.0	140.5	47.0	81.5	65.0
Merged-chr17-35259436-5	chr17	35259418	35259618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3576.0	NM_010380	14964.0	Mm.439675	NM_010380	ENSMUSG00000073411	H2-D1	H-2D|H2-D	histocompatibility 2, D region locus 1	protein-coding	10.0	24.5	19.0	178.0	20.5	7.5	3.5	6.0
Merged-chr16-44757913-4	chr16	44757815	44758015	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-7821.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	43.0	83.5	41.0	835.0	118.5	34.5	45.5	37.0
Merged-chr1-89070219-4	chr1	89070109	89070309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133816)	promoter-TSS (NM_133816)	-206.0	NM_133816	98402.0	Mm.170983	NM_133816	ENSMUSG00000036206	Sh3bp4	AI594717|AW227605|BOG25	SH3-domain binding protein 4	protein-coding	275.5	479.0	210.5	3546.0	767.5	342.5	381.5	277.0
Merged-chr3-145942163-4	chr3	145942067	145942267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151445, intron 3 of 3)	intron (NR_151445, intron 3 of 3)	4153.0	NR_151446	66421.0	Mm.25137	NM_025555	ENSMUSG00000036873	2410004B18Rik	4930572C24Rik	RIKEN cDNA 2410004B18 gene	protein-coding	37.0	46.5	35.0	773.0	130.0	30.5	47.0	42.5
Merged-chr2-120563803-4	chr2	120563677	120563877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011743)	promoter-TSS (NM_011743)	82.0	NM_011743	20402.0	Mm.485295	NM_011743	ENSMUSG00000027288	Zfp106	Cd-1|D2Dcr28|EyeLinc12|H3a|Sh3bp3|Znf106|sirm|zfp-106	zinc finger protein 106	protein-coding	24.0	45.0	19.0	217.5	78.0	22.5	37.0	36.0
Merged-chr9-21718973-4	chr9	21718867	21719067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-4609.0	NM_001252658	16835.0	Mm.3213	NM_010700	ENSMUSG00000032193	Ldlr	Hlb301	low density lipoprotein receptor	protein-coding	48.0	132.0	57.0	612.5	200.0	88.5	82.0	84.0
Merged-chr16-14135240-4	chr16	14135122	14135322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081154, intron 13 of 26)	ORR1B2|LTR|ERVL-MaLR	24052.0	NM_001081154	223989.0	Mm.85442	NM_001081154	ENSMUSG00000060657	Marf1	4921513D23Rik|BC031575|C87306|E030019O05|Lkap|mKIAA0430	meiosis regulator and mRNA stability 1	protein-coding	39.5	35.0	68.0	961.5	77.5	25.5	43.0	46.5
Merged-chr10-25117779-1	chr10	25117679	25117879	+	846.6666869999999	f0_balb.idr	Intergenic	Intergenic	82391.0	NM_001347460	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	12.5	11.0	16.0	117.5	21.5	7.5	10.0	2.5
Merged-chr2-72788957-3	chr2	72788855	72789055	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102348, intron 2 of 5)	intron (NR_102348, intron 2 of 5)	24762.0	NR_102348	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	4.0	2.0	2.5	30.5	84.5	12.0	34.5	36.5
Merged-chr17-56153914-4	chr17	56153806	56154006	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8585.0	NM_025566	66443.0	Mm.2312	NM_025566	ENSMUSG00000044469	Tnfaip8l1	2600017J23Rik|TIPE1	tumor necrosis factor, alpha-induced protein 8-like 1	protein-coding	23.5	21.0	24.0	380.5	59.5	10.0	27.0	24.5
Merged-chr10-80539216-4	chr10	80539102	80539302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026094)	promoter-TSS (NM_026094)	-78.0	NM_026094	67331.0	Mm.52511	NM_026094	ENSMUSG00000003341	Atp8b3	1700042F02Rik|1700056N23Rik|ATPIK|SAPLT	ATPase, class I, type 8B, member 3	protein-coding	31.0	71.5	32.0	358.5	94.0	28.5	45.0	35.5
Merged-chr5-122702994-4	chr5	122702912	122703112	+	756.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-4532.0	NM_001310720	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	12.5	6.0	9.0	106.5	20.0	7.0	4.5	14.5
Merged-chr3-69598368-5	chr3	69598245	69598445	+	876.6333619999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020026, intron 1 of 2)	intron (NM_020026, intron 1 of 2)	615.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	12.5	12.5	9.5	146.0	6.0	6.0	10.0	14.5
Merged-chr11-72411652-3	chr11	72411590	72411790	+	918.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177776)	promoter-TSS (NM_177776)	23.0	NM_177776	276829.0	Mm.46732	NM_177776	ENSMUSG00000045667	Smtnl2	D130058I21Rik	smoothelin-like 2	protein-coding	8.5	9.0	7.5	136.0	14.0	4.0	6.0	8.5
Merged-chr6-22358167-4	chr6	22358067	22358267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2086.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	21.0	19.0	21.0	368.5	65.5	22.5	32.0	31.0
Merged-chr16-30633458-3	chr16	30633361	30633561	+	586.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	33738.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	4.5	11.5	4.5	75.0	14.0	14.5	6.0	7.0
Merged-chr9-50659598-4	chr9	50659491	50659691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_145614, exon 1 of 14)	5' UTR (NM_145614, exon 1 of 14)	189.0	NM_145614	235339.0	Mm.285076	NM_145614	ENSMUSG00000000168	Dlat	6332404G05Rik|DLTA|PDC-E2	dihydrolipoamide S-acetyltransferase (E2 component of pyruvate dehydrogenase complex)	protein-coding	60.0	77.5	36.5	629.0	141.5	59.0	59.0	52.0
Merged-chr6-85154151-4	chr6	85154052	85154252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16388.0	NM_011467	20751.0	Mm.28393	NM_011467	ENSMUSG00000033735	Spr	AA409688|Gm10328	sepiapterin reductase	protein-coding	26.0	31.0	23.5	338.0	54.5	24.5	33.0	39.0
Merged-chr5-143622463-4	chr5	143622347	143622547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011182)	promoter-TSS (NM_011182)	0.0	NM_011182	19159.0	Mm.281003	NM_011182	ENSMUSG00000018001	Cyth3	AI648983|ARNO3|CLM3|Grp1|Pscd3	cytohesin 3	protein-coding	83.5	100.0	69.5	1099.0	208.0	66.0	72.5	65.0
Merged-chr8-106168844-4	chr8	106168789	106168989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357382)	promoter-TSS (NM_001357382)	-32.0	NM_001357381	330836.0	Mm.46749	NM_178798	ENSMUSG00000031904	Slc7a6	AI643885|LAT-2|LAT3|y+LAT-2	solute carrier family 7 (cationic amino acid transporter, y+ system), member 6	protein-coding	38.5	63.5	53.0	451.5	131.5	44.5	30.5	63.0
Merged-chr3-116437119-4	chr3	116437021	116437221	+	771.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER72|LTR|ERV1	-13089.0	NM_001173553	229776.0	Mm.17647	NM_001080818	ENSMUSG00000033502	Cdc14a	A830059A17Rik|CDC14A2|CDC14a1|Cdc14	CDC14 cell division cycle 14A	protein-coding	9.0	12.5	1.0	174.0	32.0	6.0	6.5	13.5
Merged-chr11-81954558-4	chr11	81954411	81954611	+	886.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034013, intron 1 of 9)	intron (NM_001034013, intron 1 of 9)	13885.0	NM_001034013	11418.0	Mm.234998	NM_007384	ENSMUSG00000020704	Asic2	ACIC2|Accn1|BNC1|BNaC1|BNaC1a|Mdeg	acid-sensing (proton-gated) ion channel 2	protein-coding	7.5	15.5	16.0	76.0	18.0	5.5	7.0	11.0
Merged-chr18-77758535-3	chr18	77758434	77758634	+	859.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357531, intron 9 of 10)	intron (NM_001357531, intron 9 of 10)	9265.0	NM_146089	225745.0	Mm.39293	NM_146089	ENSMUSG00000041840	Haus1	BC024400|Ccdc5|HEI-C	HAUS augmin-like complex, subunit 1	protein-coding	0.0	0.0	1.0	43.5	18.5	5.5	10.0	12.0
Merged-chr11-60727285-4	chr11	60727198	60727398	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302207)	promoter-TSS (NM_001302207)	-35.0	NM_001302207	14248.0	Mm.339755	NM_022009	ENSMUSG00000002812	Flii	3632430F08Rik|Fliih	flightless I actin binding protein	protein-coding	42.0	61.5	23.0	516.5	102.0	46.5	52.0	49.0
Merged-chr11-106674820-4	chr11	106674713	106674913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 12 of 14)	intron (NM_001305158, intron 12 of 14)	40468.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	81.5	90.5	42.5	369.0	149.0	54.5	46.5	47.0
Merged-chr11-114965653-4	chr11	114965555	114965755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5238.0	NM_199225	387565.0	Mm.351450	NM_199225	ENSMUSG00000058728	Cd300c	Clm6	CD300C molecule	protein-coding	103.0	208.0	103.5	1172.0	196.5	71.5	79.5	103.0
Merged-chr14-52020700-4	chr14	52020601	52020801	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253694)	promoter-TSS (NM_001253694)	32.0	NM_001253696	69890.0	Mm.475652	NM_027248	ENSMUSG00000049295	Zfp219	2010302A17Rik|Znf219	zinc finger protein 219	protein-coding	29.5	34.0	17.5	344.0	68.5	24.5	35.5	19.5
Merged-chr14-73433679-4	chr14	73433572	73433772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48383.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	53.0	64.0	46.5	911.0	130.5	48.0	69.0	59.5
Merged-chr10-44631773-4	chr10	44631669	44631869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-173021.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	100.5	147.5	90.0	1530.0	226.5	88.5	90.5	70.5
Merged-chr9-24542098-4	chr9	24541998	24542198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	SYNREP_MM|Satellite|Satellite	-38958.0	NM_172920	244745.0	Mm.38526	NM_172920	ENSMUSG00000043067	Dpy19l1	1100001I19Rik|6030402K12|AI225861|AW558481	dpy-19-like 1 (C. elegans)	protein-coding	303.0	270.0	463.0	3420.5	496.0	203.0	169.0	409.5
Merged-chr4-135820417-4	chr4	135820311	135820511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35660.0	NM_001284196	14105.0	Mm.10229	NM_010178	ENSMUSG00000028676	Srsf10	FUSIP2|Fusip1|NSSR1|NSSR2|Nssr|SRrp40|Sfrs13a|Srsf13a|TASR|TASR1|TASR2	serine/arginine-rich splicing factor 10	protein-coding	19.5	32.5	23.5	373.0	67.0	21.0	21.5	25.0
Merged-chr10-94771613-4	chr10	94771465	94771665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029852, intron 13 of 15)	intron (NM_029852, intron 13 of 15)	82775.0	NM_029852	77048.0	Mm.296971	NM_029852	ENSMUSG00000020024	Cep83	2600001G24Rik|4921537D05Rik|5730513H21Rik|Ccdc41	centrosomal protein 83	protein-coding	18.5	21.0	19.5	164.0	28.0	5.0	19.0	24.0
Merged-chr15-25550866-4	chr15	25550774	25550974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-71676.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	64.0	154.0	113.5	1469.5	226.5	77.5	74.5	55.5
Merged-chr19-37157159-4	chr19	37157060	37157260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198300, intron 2 of 10)	intron (NM_198300, intron 2 of 10)	-16683.0	NR_045329	319931.0	Mm.446730	NR_045329	ENSMUSG00000097591	A330032B11Rik	-	RIKEN cDNA A330032B11 gene	ncRNA	89.5	111.5	72.5	1207.5	194.0	58.0	77.0	54.5
Merged-chr2-45100866-4	chr2	45100772	45100972	+	998.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149354, intron 2 of 2)	intron (NR_149354, intron 2 of 2)	9405.0	NM_001289521	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	24.5	46.5	9.0	216.0	64.0	20.5	19.5	26.5
Merged-chr19-46003475-4	chr19	46003385	46003585	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176785)	promoter-TSS (NM_176785)	7.0	NM_176785	20170.0	Mm.101110	NM_176785	ENSMUSG00000074811	Hps6	5330434M19Rik|BLOC2|ru	HPS6, biogenesis of lysosomal organelles complex 2 subunit 3	protein-coding	97.5	176.0	81.0	1172.5	170.0	71.0	84.0	81.0
Merged-chr7-107259378-3	chr7	107259289	107259489	+	990.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49944.0	NM_029660	76572.0	Mm.128134	NM_029660	ENSMUSG00000073894	Rbmxl2	1700012H05Rik|Hnrnpg-t	RNA binding motif protein, X-linked-like 2	protein-coding	18.0	13.5	36.5	505.0	11.5	2.5	6.0	6.0
Merged-chr1-23383365-4	chr1	23383264	23383464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081079)	promoter-TSS (NM_001081079)	-189.0	NM_001081079	70155.0	Mm.28013	NM_001081079	ENSMUSG00000026158	Ogfrl1	2210417C17Rik	opioid growth factor receptor-like 1	protein-coding	282.5	410.0	353.0	5745.5	754.5	249.0	423.5	298.5
Merged-chr12-56336065-4	chr12	56335940	56336140	+	932.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145442, intron 6 of 8)	intron (NM_145442, intron 6 of 8)	9854.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	17.0	10.5	10.5	193.0	45.5	9.0	18.0	17.0
Merged-chr6-83660521-3	chr6	83660414	83660614	+	915.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4398.0	NM_016751	51811.0	Mm.3115	NM_016751	ENSMUSG00000014542	Clec4f	Clecsf13|D18063|KUCR_MOUSE|Kclr	C-type lectin domain family 4, member f	protein-coding	9.5	9.0	36.0	361.5	4.0	0.0	0.0	0.5
Merged-chr9-108825965-2	chr9	108825869	108826069	+	657.666626	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359573)	promoter-TSS (NM_001359573)	-76.0	NM_001359573	107934.0	Mm.39945	NM_080437	ENSMUSG00000023473	Celsr3	Adgrc3|Fmi1|flamingo|mKIAA0812	cadherin, EGF LAG seven-pass G-type receptor 3	protein-coding	2.0	4.0	0.5	20.0	6.0	4.5	4.5	5.5
Merged-chr8-82374674-4	chr8	82374555	82374755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008357, intron 2 of 7)	intron (NM_008357, intron 2 of 7)	27931.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	81.5	118.0	60.0	1061.0	186.5	65.0	65.0	44.5
Merged-chr7-127345889-8	chr7	127345763	127345963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146202)	promoter-TSS (NM_146202)	-549.0	NM_146202	233890.0	Mm.23031	NM_146202	ENSMUSG00000047371	Zfp768	BC026432|Znf768	zinc finger protein 768	protein-coding	29.5	47.0	54.5	388.0	54.5	33.5	23.0	46.0
Merged-chr14-54448118-3	chr14	54448018	54448218	+	918.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-16029.0	NM_022993	65107.0	Mm.472719	NM_022993	ENSMUSG00000022175	Lrp10	Lrp9	low-density lipoprotein receptor-related protein 10	protein-coding	6.0	16.0	6.0	59.0	36.5	8.5	15.0	13.0
Merged-chr1-64617241-4	chr1	64617135	64617335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025964)	promoter-TSS (NM_025964)	-67.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	52.5	83.0	42.5	804.5	142.0	57.0	93.0	90.0
Merged-chr9-59544923-4	chr9	59544816	59545016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010421, intron 1 of 13)	intron (NM_010421, intron 1 of 13)	5376.0	NM_010421	15211.0	Mm.2284	NM_010421	ENSMUSG00000025232	Hexa	Hex-1	hexosaminidase A	protein-coding	116.0	176.0	156.0	1915.0	307.5	100.0	134.0	108.0
Merged-chr10-4612082-3	chr10	4611997	4612197	+	955.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_126357, exon 1 of 8)	non-coding (NR_126357, exon 1 of 8)	108.0	NM_007956	13982.0	Mm.9213	NM_007956	ENSMUSG00000019768	Esr1	ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1	estrogen receptor 1 (alpha)	protein-coding	12.0	11.5	9.5	86.0	17.0	3.5	8.0	5.0
Merged-chr19-5511338-3	chr19	5511218	5511418	+	869.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024560)	promoter-TSS (NM_001024560)	-801.0	NM_001024560	225861.0	Mm.20071	NM_001024560	ENSMUSG00000056185	Snx32	B930037P14Rik|Snx6b	sorting nexin 32	protein-coding	5.5	8.5	4.0	84.0	10.5	8.0	5.5	16.5
Merged-chr3-137947038-4	chr3	137946914	137947114	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011932, intron 4 of 8)	intron (NM_011932, intron 4 of 8)	28459.0	NM_019920	56692.0	Mm.331392	NM_019920	ENSMUSG00000091512	Lamtor3	AW556229|Map2k1ip1|Mapbp|Mapksp1|Mp1	late endosomal/lysosomal adaptor, MAPK and MTOR activator 3	protein-coding	81.0	108.0	57.0	754.0	106.0	54.0	44.0	33.0
Merged-chr9-45122522-4	chr9	45122457	45122657	+	924.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001014761, intron 1 of 3)	intron (NM_001014761, intron 1 of 3)	4681.0	NM_001014761	72821.0	Mm.229373	NM_001014761	ENSMUSG00000070304	Scn2b	2810451E09Rik|AI840361|Gm183	sodium channel, voltage-gated, type II, beta	protein-coding	13.0	39.0	17.0	180.5	30.5	5.5	9.5	8.5
Merged-chr15-27783276-4	chr15	27783164	27783364	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 34 of 56)	intron (NM_001081302, intron 34 of 56)	-101722.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	104.5	113.0	56.0	1347.0	155.0	43.0	51.5	73.5
Merged-chr18-70643771-4	chr18	70643696	70643896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75504.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	22.0	32.0	21.5	363.5	59.5	30.5	28.0	22.5
Merged-chr6-17542633-3	chr6	17542543	17542743	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008591, intron 12 of 21)	intron (NM_008591, intron 12 of 21)	78686.0	NM_008591	17295.0	Mm.86844	NM_008591	ENSMUSG00000009376	Met	AI838057|HGF|HGFR|Par4|c-Met	met proto-oncogene	protein-coding	24.5	39.5	34.0	808.0	11.5	0.0	5.5	3.5
Merged-chr13-34794010-4	chr13	34793931	34794131	+	990.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	54389.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	32.0	26.0	13.5	318.0	70.0	16.5	26.5	26.0
Merged-chr13-28958659-6	chr13	28958548	28958748	+	877.611084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4949.0	NM_009238	20677.0	Mm.240627	NM_009238	ENSMUSG00000076431	Sox4	AA682046|Sox-4	SRY (sex determining region Y)-box 4	protein-coding	25.0	16.5	23.0	331.5	22.5	7.5	7.5	15.5
Merged-chr16-17694957-4	chr16	17694834	17695034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358404, intron 2 of 16)	intron (NM_001358404, intron 2 of 16)	27966.0	NM_001285886	94112.0	Mm.208970	NM_033609	ENSMUSG00000012114	Med15	A230074L19Rik|AW536074|Pcqap|mPcqap	mediator complex subunit 15	protein-coding	100.0	169.5	118.0	2260.5	180.5	45.0	83.5	90.0
Merged-chr10-62554827-2	chr10	62554727	62554927	+	968.1666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23630.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	5.0	6.0	6.0	50.0	25.0	2.5	3.0	4.0
Merged-chr4-45532499-4	chr4	45532409	45532609	+	870.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1681.0	NM_001033306	230126.0	Mm.251716	NM_001033306	ENSMUSG00000044813	Shb	BC028832	src homology 2 domain-containing transforming protein B	protein-coding	18.5	12.0	10.5	167.0	27.5	11.5	9.0	7.0
Merged-chr8-104534576-4	chr8	104534474	104534674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301164)	promoter-TSS (NM_001301164)	63.0	NM_144931	234664.0	Mm.237670	NM_144931	ENSMUSG00000031878	Nae1	59kDa|Appbp1	NEDD8 activating enzyme E1 subunit 1	protein-coding	84.5	99.5	120.0	1334.0	162.5	64.5	67.0	69.0
Merged-chr7-98334155-4	chr7	98334070	98334270	+	975.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12962.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	44.5	14.5	59.5	877.0	60.0	10.5	35.0	49.0
Merged-chr1-80609859-4	chr1	80609747	80609947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 4 of 55)	L1MA8|LINE|L1	55505.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	35.0	73.5	54.5	709.0	62.5	30.0	36.5	24.0
Merged-chr12-100778486-4	chr12	100778401	100778601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361020)	promoter-TSS (NM_001361020)	-556.0	NM_001361023	217830.0	Mm.218590	NM_145448	ENSMUSG00000021185	Dglucy	9030617O03Rik	D-glutamate cyclase	protein-coding	60.0	117.5	61.5	860.0	117.0	57.5	56.0	27.0
Merged-chr2-84650766-4	chr2	84650668	84650868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007615)	promoter-TSS (NM_007615)	-28.0	NM_001355066	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	61.5	77.0	68.0	467.5	155.0	44.5	73.5	34.5
Merged-chr4-129058084-4	chr4	129057985	129058185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029219)	promoter-TSS (NM_029219)	-186.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	147.0	300.0	104.5	1646.0	389.0	167.0	126.0	138.0
Merged-chr1-13427071-4	chr1	13427021	13427221	+	945.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-53038.0	NM_008678	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	11.0	21.5	11.0	141.5	33.5	12.5	11.5	11.5
Merged-chr1-16228432-4	chr1	16228314	16228514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025303)	TTS (NM_025303)	122532.0	NM_133832	98711.0	Mm.274376	NM_133832	ENSMUSG00000025921	Rdh10	3110069K09Rik|4921506A21Rik|AI875664|AW549993|D1Ertd762e|m366Asp	retinol dehydrogenase 10 (all-trans)	protein-coding	166.0	200.5	135.0	1826.0	384.5	119.5	160.0	122.0
Merged-chr13-69536044-3	chr13	69535914	69536114	+	884.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-2150.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	4.5	9.5	8.0	119.0	7.0	7.0	0.5	5.5
Merged-chr13-117220802-4	chr13	117220743	117220943	+	837.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010330, exon 1 of 9)	5' UTR (NM_010330, exon 1 of 9)	270.0	NM_010330	13723.0	Mm.274926	NM_010330	ENSMUSG00000021728	Emb	AL022799|Gp70	embigin	protein-coding	3.0	12.0	18.5	124.5	14.5	7.5	5.5	7.0
Merged-chr1-80637330-4	chr1	80637220	80637420	+	926.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175291, intron 2 of 55)	intron (NM_175291, intron 2 of 55)	28032.0	NM_001285927	210293.0	Mm.133473	NM_175291	ENSMUSG00000038608	Dock10	9330153B10Rik|A630054M16Rik|Jr4|Jr5|R75174|ZIZ3|Zizimin3|mKIAA0694	dedicator of cytokinesis 10	protein-coding	20.5	14.5	24.5	236.5	23.0	5.5	14.5	15.5
Merged-chr17-56220025-4	chr17	56219929	56220129	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1140.0	NM_172624	224897.0	Mm.205535	NM_172624	ENSMUSG00000001229	Dpp9	6430584G11Rik|A330078I11|DPP IX|DPRP2	dipeptidylpeptidase 9	protein-coding	29.5	37.5	30.0	413.5	63.0	23.0	32.0	29.5
Merged-chr6-89262527-4	chr6	89262452	89262652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23173.0	NR_131021	75131.0	Mm.391482	NR_131021	ENSMUSG00000107622	4930512J16Rik	Gm44205	RIKEN cDNA 4930512J16 gene	ncRNA	27.0	70.5	27.5	789.5	100.5	32.0	65.5	59.5
Merged-chr3-144617241-4	chr3	144617129	144617329	+	915.3541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46802.0	NM_053102	93684.0	Mm.29812	NM_053102	ENSMUSG00000037072	Selenof	9430015P09Rik|Sep15	selenoprotein F	protein-coding	10.0	14.5	11.0	229.5	41.5	13.5	9.5	22.5
Merged-chr3-65538586-3	chr3	65538487	65538687	+	941.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178892, intron 2 of 5)	intron (NM_178892, intron 2 of 5)	-9173.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	6.5	17.0	2.5	170.0	32.0	7.0	10.5	12.0
Merged-chr11-105467403-3	chr11	105467305	105467505	+	731.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10670.0	NM_001039242	632687.0	Mm.121570	NM_172568	ENSMUSG00000078627	March10	4933417C16Rik|AV039223|Rnf190	membrane-associated ring finger (C3HC4) 10	protein-coding	3.0	10.0	12.5	109.0	12.5	9.5	4.5	4.5
Merged-chr7-134689276-4	chr7	134689171	134689371	+	911.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033420, intron 1 of 51)	intron (NM_001033420, intron 1 of 51)	18584.0	NM_001033420	330662.0	Mm.436572	NM_001033420	ENSMUSG00000058325	Dock1	9130006G06Rik|AI854900|D630004B07Rik|b2b3190Clo	dedicator of cytokinesis 1	protein-coding	13.0	24.0	5.0	135.0	49.0	8.5	21.0	19.0
Merged-chr8-68926695-4	chr8	68926562	68926762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46107.0	NM_008509	16956.0	Mm.1514	NM_008509	ENSMUSG00000015568	Lpl	-	lipoprotein lipase	protein-coding	40.5	65.0	33.0	302.5	94.5	31.0	48.5	29.5
Merged-chr3-94975222-4	chr3	94975127	94975327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293716, intron 1 of 9)	intron (NM_001293716, intron 1 of 9)	496.0	NM_001293716	107650.0	Mm.217222	NM_175356	ENSMUSG00000038861	Pi4kb	ESTM41|PI4K-beta|PI4Kbeta|Pik4cb	phosphatidylinositol 4-kinase beta	protein-coding	20.5	31.0	18.0	190.5	48.0	16.5	24.0	27.0
Merged-chr7-120918715-4	chr7	120918635	120918835	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164096, intron 1 of 19)	intron (NM_001164096, intron 1 of 19)	991.0	NM_001164096	26939.0	Mm.193632	NM_025298	ENSMUSG00000030880	Polr3e	RPC5|Sin	polymerase (RNA) III (DNA directed) polypeptide E	protein-coding	68.5	94.0	76.0	1042.5	125.5	31.5	36.5	35.5
Merged-chr7-25283822-4	chr7	25283723	25283923	+	974.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027882, intron 1 of 19)	intron (NM_027882, intron 1 of 19)	1644.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	24.0	30.5	24.5	353.5	41.0	12.5	39.5	16.0
Merged-chr15-59056655-4	chr15	59056551	59056751	+	854.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 2 of 14)	intron (NM_144800, intron 2 of 14)	25375.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	19.5	13.0	23.5	356.5	40.5	10.0	17.0	9.0
Merged-chr4-82876891-1	chr4	82876791	82876991	+	658.0	f0_balb.idr	Intergenic	Intergenic	8260.0	NM_009887	12622.0	Mm.6780	NM_009887	ENSMUSG00000038192	Cer1	Cerl|Cerl1|Cerr1|cer-1	cerberus 1, DAN family BMP antagonist	protein-coding	8.0	5.0	13.0	121.5	2.5	3.0	0.0	1.0
Merged-chr17-57167182-3	chr17	57167080	57167280	+	757.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17403.0	NM_011617	21948.0	Mm.42228	NM_011617	ENSMUSG00000019489	Cd70	CD27LG|Cd27l|Tnfsf7|Tnlg8a	CD70 antigen	protein-coding	5.5	10.5	8.0	91.0	13.0	1.5	6.5	6.5
Merged-chr1-138843567-1	chr1	138843467	138843667	+	579.0	f0_balb.idr	intron (NM_010714, intron 2 of 6)	intron (NM_010714, intron 2 of 6)	-1123.0	NM_001025565	16876.0	Mm.250732	NM_010714	ENSMUSG00000019230	Lhx9	3110009O07Rik|BB104635|LH2B	LIM homeobox protein 9	protein-coding	5.5	8.5	8.5	83.0	7.0	1.5	3.5	1.0
Merged-chr11-32450397-2	chr11	32450312	32450512	+	703.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-4958.0	NM_001361561	327900.0	Mm.260956	NM_173784	ENSMUSG00000044949	Ubtd2	4930571L24|9630054F20Rik|AI645720	ubiquitin domain containing 2	protein-coding	5.5	10.5	7.5	39.0	15.0	6.0	7.0	7.0
Merged-chr9-122115730-2	chr9	122115630	122115830	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1536.0	NM_001164572	20623.0	Mm.257989	NM_133741	ENSMUSG00000038145	Snrk	2010012F07Rik|AI448042|AW547029|E030034B15|R74830|mKIAA0096	SNF related kinase	protein-coding	6.0	8.0	2.0	55.0	16.5	5.5	5.5	4.5
Merged-chr2-144245714-4	chr2	144245627	144245827	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20475.0	NR_030762	100313519.0	Mm.453538	NR_030762	ENSMUSG00000077714	Snord17	MBI-43	small nucleolar RNA, C/D box 17	snoRNA	73.5	75.5	70.0	1390.0	113.5	64.0	82.5	74.5
Merged-chr3-89730697-4	chr3	89730579	89730779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019655)	promoter-TSS (NM_019655)	-39.0	NM_001146296	56417.0	Mm.316628	NM_019655	ENSMUSG00000027951	Adar	AV242451|Adar1|Adar1p110|Adar1p150|DRADA|mZaADAR	adenosine deaminase, RNA-specific	protein-coding	56.5	58.5	38.5	714.5	90.5	45.0	64.0	33.0
Merged-chr15-8444109-1	chr15	8444009	8444209	+	1000.0	f0_balb.idr	intron (NM_201232, intron 1 of 45)	CpG	354.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	33.0	32.0	51.0	322.5	47.5	23.5	22.0	31.5
Merged-chr9-72274892-4	chr9	72274789	72274989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311105)	promoter-TSS (NM_001311105)	1.0	NM_001311105	235469.0	Mm.242791	NM_146224	ENSMUSG00000038535	Zfp280d	A930005F02Rik|BC027163|Suhw4|ZNF634|Znf280d	zinc finger protein 280D	protein-coding	67.0	111.5	53.5	1174.0	164.0	58.0	92.5	72.0
Merged-chr18-34259315-4	chr18	34259230	34259430	+	939.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360979, intron 1 of 15)	B3A|SINE|B2	11636.0	NM_001360979	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	8.5	26.5	7.5	269.0	62.5	12.5	26.5	16.0
Merged-chr8-71370845-3	chr8	71370747	71370947	+	899.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029865)	promoter-TSS (NM_029865)	-451.0	NM_029865	77090.0	Mm.440170	NM_029865	ENSMUSG00000002396	Ocel1	9430098E02Rik|AI326022|AI593544	occludin/ELL domain containing 1	protein-coding	8.0	8.5	2.0	34.5	30.0	13.0	11.5	15.5
Merged-chr16-3929348-4	chr16	3929254	3929454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029738, intron 8 of 11)	intron (NM_029738, intron 8 of 11)	20345.0	NM_029738	76779.0	Mm.458921	NM_029738	ENSMUSG00000014232	Cluap1	2310030D15Rik|2610111M03Rik	clusterin associated protein 1	protein-coding	64.0	70.0	57.5	935.5	92.5	36.5	56.0	49.0
Merged-chr18-61086384-4	chr18	61086290	61086490	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-19182.0	NM_001037859	12978.0	Mm.22574	NM_007779	ENSMUSG00000024621	Csf1r	AI323359|CD115|CSF-1R|Csfmr|Fim-2|Fim2|Fms|M-CSF-R|M-CSFR	colony stimulating factor 1 receptor	protein-coding	19.0	51.0	17.5	136.5	74.0	21.5	22.5	20.5
Merged-chr5-112240877-4	chr5	112240776	112240976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11642.0	NM_001312884	12959.0	Mm.40324	NM_021351	ENSMUSG00000066975	Cryba4	-	crystallin, beta A4	protein-coding	33.0	47.5	29.5	429.0	67.5	18.5	31.0	30.5
Merged-chr6-42299574-4	chr6	42299473	42299673	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013491, exon 10 of 23)	exon (NM_013491, exon 10 of 23)	12888.0	NM_013491	12723.0	Mm.386757	NM_013491	ENSMUSG00000029862	Clcn1	Clc-1|Clc1|SMCC1|adr|mto|myotonia|nmf355	chloride channel, voltage-sensitive 1	protein-coding	38.5	39.0	58.5	857.5	82.5	34.5	44.0	32.5
Merged-chr16-43951813-4	chr16	43951701	43951901	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027801, intron 12 of 15)	intron (NM_027801, intron 12 of 15)	27249.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	81.5	116.5	71.5	1650.0	158.5	69.0	114.0	57.0
Merged-chr16-22436306-4	chr16	22436196	22436396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358428, intron 2 of 12)	intron (NM_001358428, intron 2 of 12)	2072.0	NM_001358428	104156.0	Mm.155708	NM_023794	ENSMUSG00000013089	Etv5	1110005E01Rik|8430401F14Rik|ERM	ets variant 5	protein-coding	101.0	122.0	73.5	1212.5	128.0	71.5	59.0	80.5
Merged-chr4-155235128-4	chr4	155235010	155235210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12575.0	NM_001357191	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	49.0	43.0	35.0	447.5	102.5	35.5	54.0	32.0
Merged-chr1-39576786-4	chr1	39576711	39576911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033135, intron 1 of 6)	CpG	536.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	42.0	61.0	63.0	578.0	158.5	38.0	75.5	53.5
Merged-chr7-127289516-3	chr7	127289415	127289615	+	891.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6745.0	NM_001253873	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	9.0	21.0	3.5	17.0	33.0	10.5	11.5	14.5
Merged-chr13-9878675-4	chr13	9878588	9878788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_033269, exon 5 of 5)	exon (NM_033269, exon 5 of 5)	-113367.0	NM_144516	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	44.0	85.5	77.0	995.5	148.0	79.5	115.0	73.0
Merged-chr17-73882369-4	chr17	73882255	73882455	+	871.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67841.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	9.5	18.0	7.0	172.5	26.5	15.0	10.5	18.0
Merged-chr6-136661231-11	chr6	136661121	136661321	+	884.7045289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025806, intron 1 of 10)	intron (NM_025806, intron 1 of 10)	672.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	8.0	8.5	10.0	162.0	19.0	3.5	7.0	14.0
Merged-chr7-116459297-4	chr7	116459166	116459366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15808.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	68.5	120.0	50.0	1035.0	204.5	83.0	88.5	83.0
Merged-chr7-107683829-4	chr7	107683715	107683915	+	997.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357437, intron 2 of 23)	intron (NM_001357437, intron 2 of 23)	-8028.0	NM_001357438	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	36.0	42.0	43.0	1037.5	68.0	17.0	42.5	35.0
Merged-chr11-59839377-4	chr11	59839278	59839478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011991, intron 1 of 11)	CpG	389.0	NM_011991	26572.0	Mm.40	NM_011991	ENSMUSG00000019373	Cops3	Csn3|Sgn3	COP9 signalosome subunit 3	protein-coding	65.5	107.0	39.5	809.0	227.0	73.5	86.5	95.5
Merged-chr13-45269071-3	chr13	45268957	45269157	+	924.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120685.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	6.0	3.5	7.5	164.0	13.0	5.0	5.0	11.0
Merged-chr9-21017762-3	chr9	21017642	21017842	+	926.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010493, intron 1 of 6)	B1F2|SINE|Alu	1802.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	6.5	22.5	5.0	85.5	38.5	10.5	5.5	15.5
Merged-chr12-102367868-2	chr12	102367768	102367968	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 5 of 9)	intron (NM_177620, intron 5 of 9)	71945.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	5.5	9.0	7.0	94.0	19.0	6.0	7.5	7.0
Merged-chr8-69903270-4	chr8	69903097	69903297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023312)	promoter-TSS (NM_023312)	-639.0	NM_023312	67184.0	Mm.21162	NM_023312	ENSMUSG00000036199	Ndufa13	2700054G14Rik|AU022060|CDA016|CGI-39|GRIM-19|Grim19	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 13	protein-coding	107.0	187.0	86.0	1368.0	333.5	179.5	128.5	145.0
Merged-chr14-120240386-2	chr14	120240286	120240486	+	619.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35283.0	NM_207515	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	4.0	7.0	6.0	72.5	14.0	7.0	4.5	8.0
Merged-chr11-73321283-3	chr11	73321183	73321383	+	971.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023113, intron 2 of 5)	RLTR45|LTR|ERVK	3354.0	NM_023113	11484.0	Mm.293574	NM_023113	ENSMUSG00000020774	Aspa	Acy-2|Acy2|nur7	aspartoacylase	protein-coding	15.0	17.5	14.5	165.0	33.5	9.0	6.5	8.5
Merged-chr17-45471943-2	chr17	45471843	45472043	+	727.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357832, intron 1 of 6)	intron (NM_001357832, intron 1 of 6)	2995.0	NM_027649	71020.0	Mm.44257	NM_027649	ENSMUSG00000023935	Spats1	1700011H05Rik|4933400B06Rik|Ddip|Srsp1	spermatogenesis associated, serine-rich 1	protein-coding	5.0	8.0	5.5	22.0	10.5	4.0	7.5	1.0
Merged-chr4-101675846-4	chr4	101675754	101675954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28071.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	30.0	48.5	44.0	830.5	95.0	29.5	31.5	44.5
Merged-chr17-17448871-4	chr17	17448774	17448974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025681, intron 4 of 5)	intron (NM_025681, intron 4 of 5)	46188.0	NM_025681	66643.0	Mm.268018	NM_025681	ENSMUSG00000047786	Lix1	5730466L18Rik	limb and CNS expressed 1	protein-coding	104.5	182.0	104.0	1957.0	293.5	108.5	183.0	119.5
Merged-chr5-148995262-4	chr5	148995171	148995371	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_102383)	promoter-TSS (NR_102383)	-56.0	NR_102384	319982.0	Mm.33303	NR_102383	ENSMUSG00000106951	5930430L01Rik	-	RIKEN cDNA 5930430L01 gene	ncRNA	22.5	21.5	32.5	492.5	48.0	30.5	26.0	31.0
Merged-chr5-125183763-3	chr5	125183652	125183852	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4538.0	NM_001253904	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	17.5	31.0	19.0	315.0	18.0	3.0	2.5	7.5
Merged-chr3-84325193-4	chr3	84325113	84325313	+	785.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-20438.0	NM_001271726	80890.0	Mm.44876	NM_030706	ENSMUSG00000027993	Trim2	mKIAA0517|narf	tripartite motif-containing 2	protein-coding	5.0	12.0	15.5	189.5	20.0	8.5	13.0	13.5
Merged-chr9-86478541-4	chr9	86478414	86478614	+	962.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177208, intron 1 of 38)	intron (NM_177208, intron 1 of 38)	11360.0	NM_177208	320615.0	Mm.245500	NM_177208	ENSMUSG00000034973	Dopey1	B130005I07Rik|BC035275|C130028L17|D9Ertd809e	dopey family member 1	protein-coding	12.0	10.0	15.5	346.0	41.5	11.0	15.5	24.5
Merged-chr7-68144483-3	chr7	68144372	68144572	+	758.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010513, intron 2 of 20)	intron (NM_010513, intron 2 of 20)	119761.0	NM_030101	78444.0	Mm.425468	NM_030101	ENSMUSG00000030553	Pgpep1l	C330024D12Rik	pyroglutamyl-peptidase I-like	protein-coding	10.0	11.5	4.5	175.0	14.0	1.5	6.0	7.5
Merged-chr12-71342488-1	chr12	71342388	71342588	+	717.333313	f0_balb.idr	Intergenic	Intergenic	32604.0	NM_001190466	59036.0	Mm.46662	NM_021532	ENSMUSG00000044548	Dact1	4921528D17Rik|AI115603|DAPPER|DAPPER1|FRODO|Frd1|Frodo1|MDpr1|MTNG3|THYEX3	dishevelled-binding antagonist of beta-catenin 1	protein-coding	9.5	9.0	15.0	122.5	2.5	6.5	2.5	2.5
Merged-chr16-21635796-2	chr16	21635696	21635896	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081366, intron 45 of 46)	Lx2|LINE|L1	58869.0	NM_001001881	72190.0	Mm.131606	NM_001001881	ENSMUSG00000043391	2510009E07Rik	AI194952	RIKEN cDNA 2510009E07 gene	protein-coding	5.0	3.5	2.0	14.0	7.5	5.5	8.0	10.0
Merged-chr13-110753960-3	chr13	110753877	110754077	+	951.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-149522.0	NR_131193	75139.0	Mm.490931	NR_131193	ENSMUSG00000114472	Gm38397	-	predicted gene, 38397	ncRNA	13.5	16.0	18.0	355.5	1.0	0.5	2.5	0.0
Merged-chr11-118508081-2	chr11	118507981	118508181	+	876.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001024931, intron 5 of 14)	intron (NM_001024931, intron 5 of 14)	31249.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	3.0	5.0	2.0	48.0	13.0	9.5	6.0	6.0
Merged-chr2-132235337-3	chr2	132235263	132235463	+	843.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12425.0	NM_027478	70612.0	Mm.30116	NM_027478	ENSMUSG00000027341	Tmem230	5730494N06Rik|AA407821	transmembrane protein 230	protein-coding	4.0	13.0	7.0	125.0	16.0	4.5	5.0	8.5
Merged-chr1-61690861-3	chr1	61690776	61690976	+	810.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081050, intron 1 of 22)	MIR|SINE|MIR	52052.0	NM_001081050	72823.0	Mm.35153	NM_001081050	ENSMUSG00000052062	Pard3b	1810008K04Rik|2010002N16Rik|2810455B10Rik|Als2cr19|PAR3B|PAR3L|PAR3beta	par-3 family cell polarity regulator beta	protein-coding	20.0	16.0	16.5	207.0	6.5	1.0	2.0	0.5
Merged-chr7-88252236-3	chr7	88252141	88252341	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-25844.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	19.5	27.5	32.5	290.5	41.0	7.5	13.0	5.0
Merged-chr18-62173473-3	chr18	62173404	62173604	+	905.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6477.0	NM_007420	11555.0	Mm.5598	NM_007420	ENSMUSG00000045730	Adrb2	Adrb-2|Badm|Gpcr7	adrenergic receptor, beta 2	protein-coding	5.5	22.5	5.5	90.5	18.0	10.0	4.0	5.5
Merged-chr10-78054823-4	chr10	78054740	78054940	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284199)	promoter-TSS (NM_001284199)	-495.0	NM_001284198	54427.0	Mm.13433	NM_019448	ENSMUSG00000000730	Dnmt3l	D6Ertd14e|ecat7	DNA (cytosine-5-)-methyltransferase 3-like	protein-coding	5.0	12.0	9.0	196.5	26.5	5.5	12.0	11.5
Merged-chr5-33018748-4	chr5	33018653	33018853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011738)	promoter-TSS (NM_011738)	-63.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	196.0	342.5	196.0	2504.0	465.0	241.0	192.0	193.0
Merged-chr1-173427555-4	chr1	173427449	173427649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 1 of 8)	RMER19B|LTR|ERVK	6945.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	88.5	134.5	104.5	1386.5	256.5	89.5	121.5	120.5
Merged-chr2-176708452-2	chr2	176708352	176708552	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099327)	promoter-TSS (NM_001099327)	99.0	NM_001099327	100043387.0	Mm.444048	NM_001099327	ENSMUSG00000078878	Gm14305	-	predicted gene 14305	protein-coding	21.0	18.0	27.5	137.0	13.0	10.5	14.5	14.5
Merged-chr19-29463819-4	chr19	29463743	29463943	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021396, intron 5 of 5)	MTC|LTR|ERVL-MaLR	52924.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	60.5	100.0	69.5	1223.5	153.0	38.5	48.5	48.0
Merged-chr18-5819898-4	chr18	5819787	5819987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	227240.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	43.0	76.0	25.5	271.5	112.0	29.0	48.5	52.5
Merged-chr4-155694266-3	chr4	155694162	155694362	+	942.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178699)	promoter-TSS (NM_178699)	-80.0	NM_178699	230991.0	Mm.29083	NM_178699	ENSMUSG00000074738	Fndc10	B930041F14Rik|MNCb-3966	fibronectin type III domain containing 10	protein-coding	11.5	21.5	12.5	208.0	23.5	4.5	7.5	6.5
Merged-chr3-15575839-3	chr3	15575744	15575944	+	886.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001173460)	promoter-TSS (NM_001173460)	-779.0	NM_001173460	668101.0	Mm.423523	NM_001173460	ENSMUSG00000095028	Sirpb1b	-	signal-regulatory protein beta 1B	protein-coding	7.0	12.0	11.5	146.0	10.5	9.0	0.0	2.0
Merged-chr7-19830928-4	chr7	19830840	19831040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8185.0	NM_033601	12051.0	Mm.439658	NM_033601	ENSMUSG00000053175	Bcl3	AI528691|Bcl-3	B cell leukemia/lymphoma 3	protein-coding	237.5	265.5	262.0	3580.0	441.5	144.0	219.0	203.5
Merged-chr9-44268650-4	chr9	44268531	44268731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163743)	promoter-TSS (NM_001163743)	-32.0	NM_001163742	270151.0	Mm.3957	NM_178420	ENSMUSG00000032109	Nlrx1	BC034204|NOD9	NLR family member X1	protein-coding	49.5	62.5	37.5	533.5	82.5	40.0	21.0	26.0
Merged-chr6-65594383-4	chr6	65594293	65594493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001495, intron 2 of 7)	intron (NM_001001495, intron 2 of 7)	3995.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	88.0	123.5	95.0	1352.5	207.0	87.0	105.0	100.5
Merged-chr4-133205060-4	chr4	133204919	133205119	+	949.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7517.0	NM_008154	14748.0	Mm.4721	NM_008154	ENSMUSG00000049649	Gpr3	Gpcr20|Gpcr21|Gpcr3	G-protein coupled receptor 3	protein-coding	22.5	37.5	16.0	277.0	38.0	7.5	20.5	11.0
Merged-chr14-31374539-4	chr14	31374449	31374649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_011894, exon 9 of 9)	3' UTR (NM_011894, exon 9 of 9)	37911.0	NM_009796	12339.0	Mm.201535	NM_009796	ENSMUSG00000021893	Capn7	AU022319|PalBH	calpain 7	protein-coding	51.5	73.0	49.5	918.5	89.0	22.0	57.5	60.0
Merged-chr14-73227319-3	chr14	73227215	73227415	+	803.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	-10576.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	6.0	7.0	10.5	153.5	5.0	2.5	1.0	9.0
Merged-chr1-74661657-4	chr1	74661562	74661762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014974)	promoter-TSS (NM_001014974)	-92.0	NM_001014974	67534.0	Mm.260714	NM_001014974	ENSMUSG00000033257	Ttll4	4632407P03Rik|AI451681|mKIAA0173	tubulin tyrosine ligase-like family, member 4	protein-coding	106.5	175.5	142.0	2167.5	283.0	101.5	142.5	100.5
Merged-chr7-102017519-7	chr7	102017430	102017630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010531, intron 2 of 6)	intron (NM_010531, intron 2 of 6)	625.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	12.0	29.5	20.5	113.0	31.0	18.5	18.5	23.5
Merged-chr3-95651435-4	chr3	95651340	95651540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7281.0	NM_008562	17210.0	Mm.1639	NM_008562	ENSMUSG00000038612	Mcl1	AW556805|Mcl-1	myeloid cell leukemia sequence 1	protein-coding	46.5	52.0	94.5	868.0	103.5	29.0	45.0	47.0
Merged-chr8-117294125-2	chr8	117294045	117294245	+	545.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	37126.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	7.5	11.5	12.0	36.0	24.0	6.0	8.0	9.5
Merged-chr11-60927445-4	chr11	60927331	60927531	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027800, intron 1 of 1)	intron (NR_027800, intron 1 of 1)	4436.0	NR_027800	24082.0	Mm.46270	NM_025293	ENSMUSG00000042549	Map2k3os	F3-1|Gm16516|Gtlf3a	mitogen-activated protein kinase kinase 3, opposite strand	ncRNA	80.0	105.0	44.0	1072.5	190.5	82.0	66.0	69.0
Merged-chr19-3388806-4	chr19	3388726	3388926	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039658)	promoter-TSS (NM_001039658)	-31.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	120.0	191.5	114.5	1233.5	299.5	123.0	128.0	112.0
Merged-chr4-149665567-3	chr4	149665462	149665662	+	967.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029837, intron 2 of 23)	intron (NM_001029837, intron 2 of 23)	-2246.0	NM_001164052	18707.0	Mm.229108	NM_008840	ENSMUSG00000039936	Pik3cd	2410099E07Rik|2610208K16Rik|AW545373|p110delta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta	protein-coding	14.5	8.0	20.5	121.5	30.0	4.0	4.0	7.5
Merged-chr15-72833728-6	chr15	72833566	72833766	+	864.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	L2|LINE|L2	-23342.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	3.5	8.0	11.5	69.0	24.5	7.0	13.0	14.0
Merged-chr2-122153043-4	chr2	122152942	122153142	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009735)	TTS (NM_009735)	5355.0	NM_009735	12010.0	Mm.163	NM_009735	ENSMUSG00000060802	B2m	Ly-m11|beta2-m|beta2m	beta-2 microglobulin	protein-coding	30.5	24.0	28.5	451.0	77.5	31.0	31.0	28.5
Merged-chr18-61211667-4	chr18	61211600	61211800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007885)	promoter-TSS (NM_007885)	-104.0	NM_007885	13521.0	Mm.24803	NM_007885	ENSMUSG00000034320	Slc26a2	Dtd|ST-OB	solute carrier family 26 (sulfate transporter), member 2	protein-coding	149.0	240.0	154.0	2133.0	363.5	119.5	146.5	152.5
Merged-chr1-85735918-4	chr1	85735810	85736010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177055, intron 1 of 5)	intron (NM_177055, intron 1 of 5)	696.0	NM_177055	319997.0	Mm.116691	NM_177055	ENSMUSG00000052760	A630001G21Rik	-	RIKEN cDNA A630001G21 gene	protein-coding	99.5	85.0	61.5	856.5	183.5	62.5	105.0	74.5
Merged-chr1-173942530-4	chr1	173942450	173942650	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302651)	promoter-TSS (NM_001302651)	-58.0	NM_001302651	15950.0	Mm.463437	NM_008328	ENSMUSG00000039997	Ifi203	Ifi203a|Ifi203b|Mndal	interferon activated gene 203	protein-coding	31.5	24.0	28.5	267.0	63.5	27.5	19.5	29.0
Merged-chr10-20125461-2	chr10	20125361	20125561	+	835.700012	f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 24 of 29)	intron (NM_008580, intron 24 of 29)	-23459.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	6.0	4.5	5.0	48.0	13.5	8.0	3.5	7.0
Merged-chr17-45552239-4	chr17	45552128	45552328	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2551.0	NM_001013749	210573.0	Mm.329064	NM_001013749	ENSMUSG00000096847	Tmem151b	Gm323	transmembrane protein 151B	protein-coding	22.5	30.0	21.0	315.5	49.5	23.5	22.0	22.0
Merged-chr8-25052127-4	chr8	25052016	25052216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 10 of 11)	intron (NM_031257, intron 10 of 11)	-13154.0	NM_001081187	330723.0	Mm.334452	NM_001081187	ENSMUSG00000037406	Htra4	B430206E18Rik	HtrA serine peptidase 4	protein-coding	70.5	102.5	63.0	1366.0	135.5	59.0	64.0	70.5
Merged-chr17-5250083-4	chr17	5249985	5250185	+	849.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 5 of 19)	intron (NM_001085355, intron 5 of 19)	168682.0	NM_175349	106557.0	Mm.432764	NM_175349	ENSMUSG00000101959	Ldhal6b	4933402O15Rik|AI326310|LDHL|Ldhal	lactate dehydrogenase A-like 6B	protein-coding	8.5	10.0	17.0	422.0	24.5	11.0	14.0	9.0
Merged-chr10-8864027-4	chr10	8863926	8864126	+	646.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	22044.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	10.0	5.0	1.0	142.5	24.0	16.0	10.5	6.0
Merged-chr5-113899349-4	chr5	113899263	113899463	+	880.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011779, intron 1 of 10)	intron (NM_011779, intron 1 of 10)	9343.0	NM_011779	23790.0	Mm.260158	NM_011779	ENSMUSG00000004530	Coro1c	AL022675|AW455561|AW548837	coronin, actin binding protein 1C	protein-coding	22.0	19.5	23.0	326.0	28.5	11.5	9.0	11.5
Merged-chr18-65497147-4	chr18	65497037	65497237	+	999.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	66140.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	55.5	56.5	53.5	958.5	61.5	23.5	20.5	41.5
Merged-chr17-34420175-3	chr17	34420077	34420277	+	843.5833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001177, intron 5 of 19)	intron (NM_001001177, intron 5 of 19)	21357.0	NM_001163855	407788.0	Mm.73205	NM_001001177	ENSMUSG00000057246	BC051142	NG8|TSBP|Tesb|Tesbp	cDNA sequence BC051142	protein-coding	1.0	9.5	2.0	20.0	25.0	10.0	13.0	12.5
Merged-chr8-72273975-3	chr8	72273904	72274104	+	835.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33986.0	NM_007456	11767.0	Mm.290086	NM_007456	ENSMUSG00000003033	Ap1m1	AA408894|AP47|Adtm1A|Cltnm|mu1A	adaptor-related protein complex AP-1, mu subunit 1	protein-coding	8.5	10.0	10.0	114.0	5.5	5.5	9.0	6.5
Merged-chr3-59127146-4	chr3	59127052	59127252	+	738.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001287119, intron 1 of 2)	Charlie1|DNA|hAT-Charlie	3610.0	NM_001287124	140795.0	Mm.439021	NM_133200	ENSMUSG00000036381	P2ry14	A330108O13Rik|Gpr105|P2Y14	purinergic receptor P2Y, G-protein coupled, 14	protein-coding	20.0	12.5	12.5	224.0	20.0	1.0	14.5	18.0
Merged-chr8-71568449-4	chr8	71568351	71568551	+	994.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011977)	promoter-TSS (NM_011977)	-420.0	NM_011977	26457.0	Mm.38165	NM_011977	ENSMUSG00000031808	Slc27a1	FATP1|Fatp	solute carrier family 27 (fatty acid transporter), member 1	protein-coding	39.5	30.0	13.5	218.5	44.5	17.5	23.5	19.5
Merged-chr4-40239823-4	chr4	40239735	40239935	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172689)	promoter-TSS (NM_172689)	-10.0	NM_172689	230073.0	Mm.86382	NM_172689	ENSMUSG00000040296	Ddx58	6430573D20Rik|C330021E21|RIG-I|RLR-1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	protein-coding	59.0	103.5	34.0	549.5	227.0	59.0	47.0	41.5
Merged-chr2-152788961-4	chr2	152788882	152789082	+	990.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009743, intron 2 of 2)	intron (NM_009743, intron 2 of 2)	34809.0	NM_053091	84682.0	Mm.196668	NM_053091	ENSMUSG00000009876	Cox4i2	Cox4b|CoxIV-2	cytochrome c oxidase subunit 4I2	protein-coding	38.0	24.5	29.5	456.5	60.5	34.5	26.5	16.5
Merged-chr1-170644502-4	chr1	170644427	170644627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177068)	promoter-TSS (NM_177068)	-5.0	NM_177068	320078.0	Mm.287131	NM_177068	ENSMUSG00000038463	Olfml2b	1110018N05Rik|4832415H08Rik|AI467542	olfactomedin-like 2B	protein-coding	65.0	76.0	72.0	989.5	72.0	26.0	36.5	37.0
Merged-chr13-23571817-4	chr13	23571724	23571924	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178187)	promoter-TSS (NM_178187)	424.0	NM_178196	319181.0	Mm.261673	NM_178196	ENSMUSG00000058385	Hist1h2bg	-	histone cluster 1, H2bg	protein-coding	19.5	17.5	24.5	153.0	49.5	19.0	24.5	24.5
Merged-chr16-30940135-2	chr16	30940035	30940235	+	865.1999509999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141297.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	6.5	11.0	5.0	43.0	20.5	8.5	2.5	5.0
Merged-chr13-55464439-6	chr13	55464411	55464611	+	815.444458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001030296, intron 1 of 2)	CpG	244.0	NM_001030296	432763.0	Mm.315457	NM_001030296	ENSMUSG00000034686	Prr7	XM_484263	proline rich 7 (synaptic)	protein-coding	5.0	7.0	8.5	98.0	19.5	3.0	3.5	10.5
Merged-chr17-15825571-1	chr17	15825471	15825671	+	624.0	f0_c57.idr	intron (NM_178615, intron 1 of 2)	CpG	1015.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	6.0	15.0	18.5	121.5	13.5	1.0	5.0	10.5
Merged-chr7-38085048-4	chr7	38084938	38085138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	22452.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	353.5	529.5	286.0	4278.5	945.5	404.5	496.0	352.5
Merged-chr12-99616372-4	chr12	99616291	99616491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136760, intron 2 of 3)	MLTR14|LTR|ERV1	11583.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	32.0	28.0	33.0	609.0	101.0	35.5	41.5	29.0
Merged-chr7-128302355-4	chr7	128302260	128302460	+	854.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4229.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	9.5	14.5	8.5	137.5	28.0	3.5	9.5	19.5
Merged-chr15-11964258-4	chr15	11964158	11964358	+	797.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2804.0	NR_040447	73339.0	Mm.231975	NR_040447	ENSMUSG00000099349	1700047G03Rik	-	RIKEN cDNA 1700047G03 gene	ncRNA	9.0	22.5	11.5	164.0	6.0	16.0	10.0	16.0
Merged-chr5-64156396-4	chr5	64156292	64156492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3868.0	NM_019636	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	31.5	39.5	22.5	411.5	72.5	21.0	31.0	32.0
Merged-chr15-73457138-2	chr15	73457038	73457238	+	590.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33947.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	7.5	21.0	5.0	69.5	14.0	3.5	2.5	4.0
Merged-chr2-117304505-2	chr2	117304405	117304605	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 3 of 16)	intron (NM_011246, intron 3 of 16)	38372.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	7.5	10.0	3.0	89.0	30.0	8.5	20.0	15.0
Merged-chr9-123863808-4	chr9	123863722	123863922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-1793.0	NM_011798	23832.0	Mm.390241	NM_011798	ENSMUSG00000060509	Xcr1	Ccxcr1|Gpr5|mXcr1	chemokine (C motif) receptor 1	protein-coding	23.5	33.5	25.0	337.5	83.5	34.5	26.5	25.0
Merged-chr9-90077035-4	chr9	90076958	90077158	+	822.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007801)	TTS (NM_007801)	22791.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	8.5	13.0	8.0	92.5	26.0	11.0	9.5	16.0
Merged-chr12-84034259-4	chr12	84034152	84034352	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	T-rich|Low_complexity|Low_complexity	-4127.0	NM_134247	171282.0	Mm.482217	NM_134247	ENSMUSG00000052392	Acot4	B430212I04Rik|PTE-Ib|Pte1b|Pte2b	acyl-CoA thioesterase 4	protein-coding	24.5	64.5	30.5	569.5	64.0	27.5	32.5	37.5
Merged-chr10-57603108-4	chr10	57603019	57603219	+	944.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28862.0	NM_008863	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	16.5	38.5	11.5	242.5	40.5	15.0	16.5	23.0
Merged-chr6-37046392-3	chr6	37046296	37046496	+	730.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 12 of 32)	intron (NM_001347104, intron 12 of 32)	-236217.0	NM_008973	19242.0	Mm.279690	NM_008973	ENSMUSG00000029838	Ptn	HARP|HB-GAM|HBBM|HBBN|HBGF-8|HBNF|OSF|Osf-1|Osf1	pleiotrophin	protein-coding	5.5	9.0	3.0	85.5	21.0	4.5	6.5	6.0
Merged-chr4-107577182-2	chr4	107577082	107577282	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_147221, intron 4 of 10)	intron (NM_147221, intron 4 of 10)	106407.0	NR_151717	56296.0	Mm.141324	NM_019872	ENSMUSG00000028610	Dmrtb1	Dmrt6|Prp13	DMRT-like family B with proline-rich C-terminal, 1	protein-coding	3.0	7.5	3.0	64.0	7.0	5.0	6.0	9.0
Merged-chr11-3185115-4	chr11	3185016	3185216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	8347.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	137.5	197.0	95.0	1353.0	495.0	183.5	227.0	131.5
Merged-chr7-125599775-4	chr7	125599691	125599891	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3638.0	NM_021887	60504.0	Mm.155643	NM_021887	ENSMUSG00000030745	Il21r	NILR	interleukin 21 receptor	protein-coding	7.5	14.5	6.5	380.5	25.5	10.0	11.5	9.0
Merged-chr11-68441156-4	chr11	68441050	68441250	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	intron (NM_177320, intron 1 of 18)	9025.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	24.0	44.5	29.0	217.5	75.5	17.0	24.5	22.0
Merged-chr9-21321588-4	chr9	21321510	21321710	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359227, intron 1 of 22)	intron (NM_001359227, intron 1 of 22)	891.0	NM_001199186	68682.0	Mm.148425	NM_152808	ENSMUSG00000057193	Slc44a2	1110028E10Rik|CTL2	solute carrier family 44, member 2	protein-coding	31.0	45.0	56.5	712.0	74.0	32.5	42.0	39.0
Merged-chr2-164913252-1	chr2	164913152	164913352	+	1000.0	f1_balb.idr	Intergenic	Intergenic	-1502.0	NM_199027	329559.0	Mm.330776	NM_199027	ENSMUSG00000039834	Zfp335	1810045J01Rik|NIF-1|Nif1|Znf335	zinc finger protein 335	protein-coding	10.5	5.0	5.0	134.5	11.5	8.5	6.5	11.5
Merged-chr2-117342876-4	chr2	117342764	117342964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011246)	promoter-TSS (NM_011246)	13.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	42.5	50.5	39.5	505.5	131.0	48.5	46.5	47.0
Merged-chr3-96595435-4	chr3	96595334	96595534	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1202.0	NM_001024851	545554.0	Mm.267664	NM_001024851	ENSMUSG00000049097	Ankrd34a	AW060394|Ankrd34	ankyrin repeat domain 34A	protein-coding	45.0	70.0	50.0	593.0	53.5	33.0	27.5	18.5
Merged-chr2-59465910-4	chr2	59465816	59466016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18737.0	NM_029723	76747.0	Mm.275769	NM_029723	ENSMUSG00000026989	Dapl1	2310032F03Rik|EEDA	death associated protein-like 1	protein-coding	27.0	64.0	35.0	300.5	59.5	33.5	10.0	7.5
Merged-chr6-39781895-4	chr6	39781791	39781991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29045.0	NM_010270	14548.0	Mm.377071	NM_010270	ENSMUSG00000029918	Mrps33	AI841153|CGI-139|Gdap3|MRP-S33|PTD003	mitochondrial ribosomal protein S33	protein-coding	72.0	103.0	84.0	1416.5	203.0	71.0	68.0	67.0
Merged-chr10-77605487-4	chr10	77605385	77605585	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125904)	promoter-TSS (NR_125904)	-612.0	NM_001301672	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	3.0	30.5	7.0	184.0	44.0	16.5	23.5	18.0
Merged-chr2-154687023-4	chr2	154686932	154687132	+	956.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029362, intron 1 of 4)	intron (NM_029362, intron 1 of 4)	30006.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	16.0	21.5	14.0	255.5	48.5	15.0	23.0	18.5
Merged-chr6-134065283-4	chr6	134065185	134065385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007961, intron 1 of 7)	intron (NM_007961, intron 1 of 7)	29585.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	122.5	158.0	128.5	1771.5	241.5	85.5	119.0	125.0
Merged-chr2-119156553-1	chr2	119156453	119156653	+	540.0	f0_balb.idr	intron (NM_001033136, intron 1 of 12)	CpG	481.0	NM_001033136	67809.0	Mm.475909	NM_001033136	ENSMUSG00000070730	Rmdn3	1200015F23Rik|AI131757|Fam82a2|Ptpip51|RMD-3|Rmd3	regulator of microtubule dynamics 3	protein-coding	6.0	5.0	18.0	113.0	18.5	8.5	7.0	16.5
Merged-chr2-36271942-3	chr2	36271861	36272061	+	771.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41535.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	5.5	10.5	7.0	75.0	23.0	5.5	7.5	12.0
Merged-chr16-44765777-4	chr16	44765692	44765892	+	949.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021325)	promoter-TSS (NM_021325)	56.0	NM_021325	57781.0	Mm.416152	NM_021325	ENSMUSG00000022667	Cd200r1	CD200R|Mox2r|OX2R	CD200 receptor 1	protein-coding	16.5	25.5	13.0	277.5	36.5	13.0	9.0	15.5
Merged-chr11-103175219-4	chr11	103175109	103175309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019679, intron 1 of 26)	intron (NM_019679, intron 1 of 26)	4071.0	NM_019679	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	59.5	79.0	28.5	384.0	82.5	35.0	26.0	26.0
Merged-chr2-119336666-3	chr2	119336567	119336767	+	762.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10470.0	NR_030683	100043609.0	Mm.185068	NR_030683	ENSMUSG00000074912	Gm14207	Dll4	predicted gene 14207	ncRNA	9.5	8.5	5.0	119.0	9.5	2.0	8.0	4.0
Merged-chr12-24952356-4	chr12	24952169	24952369	+	781.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026037, intron 9 of 12)	intron (NM_026037, intron 9 of 12)	-22663.0	NM_001081378	77480.0	Mm.250641	NM_001081378	ENSMUSG00000036333	Kidins220	3110039L19Rik|AI194387|AI316525|C330002I19Rik|mKIAA1250	kinase D-interacting substrate 220	protein-coding	5.0	4.5	8.0	26.0	15.0	4.5	5.0	7.0
Merged-chr11-83600783-4	chr11	83600687	83600887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 1 of 8)	intron (NR_036453, intron 1 of 8)	-7700.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	31.5	66.5	55.0	713.0	82.5	24.5	39.0	39.0
Merged-chr16-14378812-4	chr16	14378688	14378888	+	964.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 1 of 30)	intron (NM_008576, intron 1 of 30)	17230.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	14.5	17.5	6.5	174.0	41.5	9.5	15.5	15.0
Merged-chr4-6453053-4	chr4	6452939	6453139	+	937.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	intron (NM_010945, intron 1 of 30)	1232.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	9.0	21.0	14.5	142.0	45.5	16.0	4.5	15.5
Merged-chr12-69683770-4	chr12	69683670	69683870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER102b|DNA|hAT-Charlie	-1918.0	NM_001135559	20663.0	Mm.3770	NM_001135559	ENSMUSG00000034801	Sos2	SOS-2|mSOS-2	SOS Ras/Rho guanine nucleotide exchange factor 2	protein-coding	44.5	49.0	23.0	751.0	75.5	24.5	34.5	31.5
Merged-chr15-76309689-4	chr15	76309599	76309799	+	941.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2454.0	NM_153122	75475.0	Mm.322738	NM_153122	ENSMUSG00000022562	Oplah	1700010G02Rik	5-oxoprolinase (ATP-hydrolysing)	protein-coding	17.5	20.5	11.5	195.0	40.5	17.0	16.0	15.0
Merged-chr9-99139672-4	chr9	99139554	99139754	+	956.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029094, intron 1 of 23)	CpG	557.0	NM_029094	74769.0	Mm.213128	NM_029094	ENSMUSG00000032462	Pik3cb	1110001J02Rik|AI447572|p110beta	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta	protein-coding	11.5	20.0	4.0	108.0	44.5	19.5	12.5	23.5
Merged-chr8-119838970-3	chr8	119838883	119839083	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	1596.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	16.5	26.5	20.5	320.5	93.0	20.5	36.5	50.5
Merged-chr7-46717177-4	chr7	46717058	46717258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1482.0	NM_011315	20210.0	Mm.14277	NM_011315	ENSMUSG00000040026	Saa3	AV098916|Saa-3|l7R3	serum amyloid A 3	protein-coding	16.0	46.5	36.5	407.0	47.5	22.5	30.5	26.0
Merged-chr2-117327123-4	chr2	117327022	117327222	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 2 of 16)	intron (NM_011246, intron 2 of 16)	15755.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	19.5	21.0	10.5	239.0	49.0	19.5	16.5	24.5
Merged-chr11-54390617-2	chr11	54390517	54390717	+	806.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_029105, intron 5 of 13)	intron (NM_029105, intron 5 of 13)	19965.0	NM_029105	74847.0	Mm.486538	NM_029105	ENSMUSG00000020332	Meikin	4930404A10Rik	meiotic kinetochore factor	protein-coding	5.0	6.5	11.0	67.0	19.0	5.5	7.5	2.5
Merged-chr12-112644761-4	chr12	112644678	112644878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001161737)	promoter-TSS (NM_001161737)	-50.0	NM_001161737	30954.0	Mm.289812	NM_013929	ENSMUSG00000064326	Siva1	CD27bp|Siva	SIVA1, apoptosis-inducing factor	protein-coding	292.0	530.0	358.5	5194.0	929.0	370.5	440.0	359.0
Merged-chr14-30631258-4	chr14	30631145	30631345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5037.0	NM_011103	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	43.0	60.0	41.5	625.0	88.5	28.5	41.0	27.0
Merged-chr11-97718042-4	chr11	97718010	97718210	+	897.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_054051, exon 10 of 10)	3' UTR (NM_054051, exon 10 of 10)	14676.0	NM_011971	26446.0	Mm.21874	NM_011971	ENSMUSG00000069744	Psmb3	AL033320|C10-II	proteasome (prosome, macropain) subunit, beta type 3	protein-coding	8.5	9.0	12.0	61.5	19.0	8.5	3.0	6.5
Merged-chr17-34103049-4	chr17	34102962	34103162	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-7753.0	NR_046183	414076.0	Mm.473092	NR_046183	ENSMUSG00000098197	BC051537	-	cDNA sequence BC051537	ncRNA	17.5	19.5	9.0	108.0	62.0	21.0	23.0	12.5
Merged-chr10-22645342-3	chr10	22645257	22645457	+	735.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178934, intron 1 of 4)	CpG	346.0	NM_178934	353169.0	Mm.473705	NM_178934	ENSMUSG00000037490	Slc2a12	GLUT-12|Glut12	solute carrier family 2 (facilitated glucose transporter), member 12	protein-coding	10.5	10.5	9.0	129.5	1.5	1.5	2.5	1.0
Merged-chr9-85588271-4	chr9	85588177	85588377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161057.0	NM_001081282	108837.0	Mm.22315	NM_175371	ENSMUSG00000035941	Ibtk	5430411K16Rik|AA409502|BTKI|mKIAA1417	inhibitor of Bruton agammaglobulinemia tyrosine kinase	protein-coding	49.0	71.5	27.5	685.0	104.5	38.5	46.5	36.0
Merged-chr7-4653990-4	chr7	4653881	4654081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172894, intron 1 of 23)	intron (NM_172894, intron 1 of 23)	4969.0	NM_172894	243819.0	Mm.258670	NM_172894	ENSMUSG00000052296	Ppp6r1	2010309P17Rik|AI836219|B430201G11Rik|D030074N20Rik|Pp6r1|Saps1|mKIAA1115	protein phosphatase 6, regulatory subunit 1	protein-coding	71.0	120.5	75.5	1107.5	130.5	38.0	50.0	62.0
Merged-chr18-80651539-2	chr18	80651461	80651661	+	627.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 7 of 9)	intron (NM_198429, intron 7 of 9)	56612.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	7.0	10.5	4.5	137.5	18.5	3.0	5.0	10.0
Merged-chr16-57545954-4	chr16	57545784	57545984	+	872.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 4 of 4)	intron (NM_001040397, intron 4 of 4)	-3358.0	NM_001177871	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	3.5	3.0	8.5	104.5	12.0	6.0	6.0	6.0
Merged-chr13-41539767-1	chr13	41539667	41539867	+	561.0	f0_balb.idr	Intergenic	Intergenic	-52407.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	6.5	10.0	6.0	92.5	8.0	1.0	6.0	3.0
Merged-chr10-121473839-4	chr10	121473742	121473942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	2408.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	30.0	28.0	19.5	574.0	94.5	19.0	46.5	24.0
Merged-chr6-46450532-4	chr6	46450420	46450620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004357, intron 12 of 23)	intron (NM_001004357, intron 12 of 23)	-793876.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	86.5	58.0	83.0	1957.0	126.0	47.0	84.0	64.5
Merged-chr8-26884590-4	chr8	26884503	26884703	+	936.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60180.0	NR_045904	72316.0	Mm.490534	NR_045904	ENSMUSG00000100335	2310008N11Rik	-	RIKEN cDNA 2310008N11 gene	ncRNA	24.0	19.5	25.0	894.5	41.0	10.5	11.5	22.5
Merged-chr11-77604539-4	chr11	77604448	77604648	+	868.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144825, intron 1 of 19)	intron (NM_144825, intron 1 of 19)	3267.0	NM_144825	216965.0	Mm.340436	NM_144825	ENSMUSG00000017291	Taok1	2810468K05Rik|AU020252|D130018F14Rik|Map3k16|Markk|Psk2|mKIAA1361	TAO kinase 1	protein-coding	11.5	17.0	3.0	43.5	30.5	7.0	15.5	13.0
Merged-chr12-73686966-4	chr12	73686865	73687065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	102169.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	60.0	73.0	39.5	661.5	97.5	32.5	55.0	45.5
Merged-chr10-41523978-4	chr10	41523868	41524068	+	959.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016898, intron 3 of 5)	intron (NM_016898, intron 3 of 5)	4468.0	NM_016898	53599.0	Mm.269815	NM_016898	ENSMUSG00000019818	Cd164	A115|A24|AA589639|AW540279|MGC-24|MSSP	CD164 antigen	protein-coding	20.5	35.0	16.0	399.5	51.0	18.5	18.0	17.0
Merged-chr3-146499780-4	chr3	146499678	146499878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027617)	promoter-TSS (NM_027617)	-25.0	NM_027617	70951.0	Mm.383235	NM_027617	ENSMUSG00000028188	Spata1	4921536I21Rik|AV266943|SP-2	spermatogenesis associated 1	protein-coding	216.0	285.0	161.0	2233.5	483.0	190.5	249.0	181.5
Merged-chr9-63384894-4	chr9	63384782	63384982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7030.0	NM_011840	23938.0	Mm.325746	NM_011840	ENSMUSG00000058444	Map2k5	AI324775|AI428457|MEK5|Mapkk5|Prkmk5	mitogen-activated protein kinase kinase 5	protein-coding	64.5	115.0	41.5	932.0	137.5	49.0	46.5	56.5
Merged-chr10-77902354-4	chr10	77902255	77902455	+	894.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145152, intron 1 of 1)	CpG	181.0	NM_145152	237387.0	Mm.133301	NM_145152	ENSMUSG00000051652	Lrrc3	1300011L04Rik|C21orf102	leucine rich repeat containing 3	protein-coding	16.0	7.0	10.0	125.5	26.0	10.0	12.0	12.5
Merged-chr4-86856908-1	chr4	86856808	86857008	+	1000.0	f1_balb.idr	intron (NM_009096, intron 1 of 4)	CpG	459.0	NM_009096	20104.0	Mm.379007	NM_009096	ENSMUSG00000028495	Rps6	S6R	ribosomal protein S6	protein-coding	9.5	13.0	23.0	270.0	44.0	20.0	21.0	18.0
Merged-chr6-38066369-3	chr6	38066272	38066472	+	764.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080467, intron 14 of 20)	intron (NM_080467, intron 14 of 20)	-19376.0	NM_177200	320590.0	Mm.197449	NM_177200	ENSMUSG00000029830	Svopl	9430071P14Rik	SV2 related protein homolog (rat)-like	protein-coding	11.0	9.5	17.5	88.0	20.0	2.5	7.0	6.0
Merged-chr7-114086290-4	chr7	114086208	114086408	+	891.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025846, intron 1 of 5)	intron (NM_025846, intron 1 of 5)	31473.0	NM_025846	66922.0	Mm.276572	NM_025846	ENSMUSG00000055723	Rras2	2610016H24Rik|C86394|TC21	related RAS viral (r-ras) oncogene 2	protein-coding	8.0	20.0	14.5	223.0	51.5	14.0	11.5	9.5
Merged-chr13-41220481-6	chr13	41220384	41220584	+	934.055542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019423)	promoter-TSS (NM_019423)	-81.0	NM_019423	54326.0	Mm.2567	NM_019423	ENSMUSG00000021364	Elovl2	AI317360|Ssc2	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 2	protein-coding	7.0	11.5	3.5	113.0	20.5	6.0	15.5	5.0
Merged-chr12-102451701-4	chr12	102451593	102451793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11880.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	140.5	205.5	282.5	2544.5	326.0	108.0	195.0	162.5
Merged-chr15-27659784-4	chr15	27659673	27659873	+	999.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 5 of 6)	intron (NM_198301, intron 5 of 6)	21769.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	28.0	40.5	11.5	558.5	47.0	20.5	25.0	29.5
Merged-chr17-85464160-1	chr17	85464060	85464260	+	744.0	f0_balb.idr	Intergenic	Intergenic	154236.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	8.0	15.0	5.5	96.0	10.5	7.0	3.0	7.0
Merged-chr8-117338839-4	chr8	117338719	117338919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	-10351.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	33.5	30.0	56.0	788.0	76.0	26.5	36.5	42.0
Merged-chr10-94960203-4	chr10	94960106	94960306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15628.0	NM_018797	54712.0	Mm.256712	NM_018797	ENSMUSG00000074785	Plxnc1	2510048K12Rik|AW742158|CD232|Vespr	plexin C1	protein-coding	29.5	39.0	26.0	632.0	58.5	19.5	19.0	24.0
Merged-chr4-155163450-3	chr4	155163354	155163554	+	862.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	intron (NM_011385, intron 1 of 6)	59081.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	9.0	13.0	7.5	78.0	13.5	7.0	7.5	12.0
Merged-chr13-99175319-3	chr13	99175209	99175409	+	821.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9514.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	6.5	14.5	9.5	216.5	13.0	3.5	5.5	15.0
Merged-chr15-64085979-4	chr15	64085881	64086081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001276462)	TTS (NM_001276462)	-25533.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	40.0	47.0	31.0	651.0	79.0	31.5	50.0	38.5
Merged-chr10-53348577-4	chr10	53348540	53348740	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001204983, exon 3 of 13)	exon (NM_001204983, exon 3 of 13)	10954.0	NM_001141927	18821.0	Mm.34145	NM_023129	ENSMUSG00000038583	Pln	Plb	phospholamban	protein-coding	17.0	20.0	17.5	205.0	35.5	6.0	28.0	18.5
Merged-chr7-109703697-4	chr7	109703589	109703789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020616)	promoter-TSS (NM_020616)	-48.0	NM_020616	57373.0	Mm.334138	NM_020616	ENSMUSG00000031023	Akip1	BCA3|C11orf17|D7H11orf17|D930014E17Rik|ICRFP703B1614Q5.6|ORF27	A kinase (PRKA) interacting protein 1	protein-coding	106.5	159.5	124.0	1693.5	354.0	118.5	171.0	121.5
Merged-chr12-33045850-4	chr12	33045748	33045948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 13 of 19)	intron (NM_001024478, intron 13 of 19)	47027.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	71.0	112.5	78.0	1371.0	363.0	158.0	154.5	176.5
Merged-chr14-22847487-2	chr14	22847387	22847587	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 6 of 6)	intron (NM_028275, intron 6 of 6)	247084.0	NR_033550	791307.0	Mm.364384	NR_033550	ENSMUSG00000068680	Gm10248	-	predicted gene 10248	ncRNA	12.0	7.0	12.0	119.5	11.5	2.5	13.5	7.5
Merged-chr5-43102203-4	chr5	43102100	43102300	+	971.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-131263.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	22.0	23.5	46.0	743.5	82.0	28.5	41.0	12.5
Merged-chr8-84907743-4	chr8	84907681	84907881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010062)	promoter-TSS (NM_010062)	-843.0	NM_010062	13423.0	Mm.350831	NM_010062	ENSMUSG00000003812	Dnase2a	Dnase2	deoxyribonuclease II alpha	protein-coding	41.5	56.5	56.5	868.5	150.5	44.5	50.0	31.0
Merged-chr8-91082604-2	chr8	91082514	91082714	+	911.0	f0_balb.idr|f1_balb.idr	intron (NM_001282000, intron 4 of 20)	intron (NM_001282000, intron 4 of 20)	12557.0	NM_001282000	19651.0	Mm.235580	NM_011250	ENSMUSG00000031666	Rbl2	PRB2|RBR-2|Rb2|p130	RB transcriptional corepressor like 2	protein-coding	13.0	31.5	26.5	136.5	14.5	3.5	3.0	8.0
Merged-chr3-51396676-4	chr3	51396583	51396783	+	881.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026358)	promoter-TSS (NM_026358)	-136.0	NM_026358	67749.0	Mm.273339	NM_026358	ENSMUSG00000037161	Mgarp	4930583H14Rik|AI195347|CESP-1|HUMMR|Osap|Qsap	mitochondria localized glutamic acid rich protein	protein-coding	11.0	21.5	26.5	196.5	16.5	9.0	13.0	18.0
Merged-chr7-97400451-2	chr7	97400351	97400551	+	732.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_024220, intron 1 of 2)	intron (NM_024220, intron 1 of 2)	448.0	NM_024220	68197.0	Mm.334031	NM_024220	ENSMUSG00000030647	Ndufc2	1810004I06Rik|2010300P09Rik|G1|R75094	NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2	protein-coding	6.0	17.0	1.5	27.5	15.0	8.0	11.0	13.0
Merged-chr19-41402240-4	chr19	41402158	41402358	+	917.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17188.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	14.0	18.5	11.0	242.5	7.0	15.5	9.5	6.5
Merged-chr6-116671538-7	chr6	116671342	116671542	+	887.761902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	intron (NM_178045, intron 1 of 10)	2394.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	7.5	21.0	4.0	127.0	37.5	16.0	13.5	21.0
Merged-chr11-4187707-2	chr11	4187607	4187807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	intron (NM_134023, intron 1 of 8)	874.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	2.5	1.5	14.5	15.5	16.0	9.5	4.5	5.0
Merged-chr4-52439029-4	chr4	52438968	52439168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301412)	promoter-TSS (NM_001301412)	-104.0	NR_045175	72648.0	Mm.391869	NR_045175	ENSMUSG00000085763	Smc2os	2700081L22Rik	structural maintenance of chromosomes 2, opposite strand	ncRNA	100.0	147.5	143.0	1513.5	190.5	85.5	75.5	83.5
Merged-chr16-4879838-4	chr16	4879740	4879940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145359)	promoter-TSS (NM_145359)	11.0	NM_145359	207740.0	Mm.268895	NM_145359	ENSMUSG00000039568	Ubald1	1500031H01Rik|BC013706|Fam100a	UBA-like domain containing 1	protein-coding	59.0	123.0	47.5	960.0	171.0	93.0	89.5	85.0
Merged-chr3-79181851-4	chr3	79181756	79181956	+	985.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31063.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	14.0	25.0	9.5	181.0	63.5	27.0	27.0	42.0
Merged-chr2-125282511-4	chr2	125282394	125282594	+	842.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34979.0	NM_023595	110074.0	Mm.282499	NM_023595	ENSMUSG00000027203	Dut	5031412I06Rik|5133400F09Rik|D2Bwg0749e|Dutp|dUTPase	deoxyuridine triphosphatase	protein-coding	9.0	9.5	17.5	161.5	16.5	4.5	8.0	4.5
Merged-chr17-86167984-3	chr17	86167897	86168097	+	898.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011104, exon 1 of 15)	5' UTR (NM_011104, exon 1 of 15)	212.0	NM_011104	18754.0	Mm.24614	NM_011104	ENSMUSG00000045038	Prkce	5830406C15Rik|PKC[e]|PKCepsilon|Pkce|R75156	protein kinase C, epsilon	protein-coding	12.0	18.0	11.5	132.5	27.0	11.0	15.5	19.0
Merged-chr5-3509688-4	chr5	3509607	3509807	+	789.070801	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 5 of 7)	intron (NM_009873, intron 5 of 7)	-34126.0	NM_001042501	68152.0	Mm.240265	NM_026583	ENSMUSG00000058503	Fam133b	2900022K02Rik|5830415L20Rik	family with sequence similarity 133, member B	protein-coding	13.5	37.0	8.5	114.5	23.5	8.0	17.0	9.0
Merged-chr15-68058827-4	chr15	68058714	68058914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	200042.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	36.5	41.0	68.5	1076.0	92.0	14.0	36.5	30.0
Merged-chr19-10859485-4	chr19	10859372	10859572	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133804, intron 10 of 10)	intron (NM_133804, intron 10 of 10)	10307.0	NM_133804	98170.0	Mm.490254	NM_133804	ENSMUSG00000024736	Tmem132a	6720481D13Rik|Hspa5bp1|Orai1|R74613	transmembrane protein 132A	protein-coding	31.5	42.0	14.5	307.5	74.0	30.5	34.5	24.5
Merged-chr6-71633478-4	chr6	71633374	71633574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173001)	promoter-TSS (NM_173001)	-557.0	NM_001362200	104263.0	Mm.260479	NM_173001	ENSMUSG00000053470	Kdm3a	1700105C21Rik|C230043E16Rik|JHDM2a|Jmjd1|Jmjd1a|KDM2A|TGSA|Tsga	lysine (K)-specific demethylase 3A	protein-coding	182.0	238.0	129.5	1977.5	379.5	165.0	174.0	106.0
Merged-chr1-58505040-4	chr1	58504931	58505131	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271526)	promoter-TSS (NM_001271526)	78.0	NM_001271526	18393.0	Mm.3411	NM_008765	ENSMUSG00000026037	Orc2	AU041563|Orc2l	origin recognition complex, subunit 2	protein-coding	120.0	165.0	89.5	2062.5	276.5	110.0	146.0	121.5
Merged-chr4-150002124-4	chr4	150002026	150002226	+	895.3583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173371, intron 1 of 4)	B3|SINE|B2	1110.0	NM_001291004	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	13.5	24.0	16.0	134.0	22.0	20.5	20.5	24.0
Merged-chr1-191643124-4	chr1	191643028	191643228	+	719.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67492.0	NM_001306204	77065.0	Mm.338175	NM_178632	ENSMUSG00000037461	Ints7	5930412E23Rik|int7	integrator complex subunit 7	protein-coding	10.5	17.0	9.0	134.0	26.5	5.0	9.0	3.5
Merged-chr13-30933174-4	chr13	30933091	30933291	+	794.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025588, intron 4 of 27)	intron (NM_025588, intron 4 of 27)	14570.0	NM_153072	210554.0	Mm.450571	NM_153072	ENSMUSG00000076430	Hus1b	-	HUS1 checkpoint clamp component B	protein-coding	9.5	11.5	2.5	197.0	30.0	6.0	7.5	17.5
Merged-chr10-79555084-4	chr10	79554988	79555188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027422)	promoter-TSS (NM_027422)	40.0	NM_001316699	70427.0	Mm.334193	NM_027422	ENSMUSG00000042570	Mier2	2700087H15Rik|mKIAA1193	MIER family member 2	protein-coding	36.0	41.5	19.5	398.5	67.0	28.0	32.5	26.0
Merged-chr16-52061334-4	chr16	52061230	52061430	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 3 of 17)	intron (NM_001033238, intron 3 of 17)	29781.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	114.0	206.0	159.0	2268.5	324.5	85.5	116.5	99.5
Merged-chr3-96564830-4	chr3	96564705	96564905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040409, intron 1 of 3)	intron (NR_040409, intron 1 of 3)	1996.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	74.5	96.5	43.0	1077.0	125.5	45.5	78.5	66.5
Merged-chr2-165987453-4	chr2	165987345	165987545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5192.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	19.5	69.5	32.0	279.5	84.0	30.0	29.5	32.5
Merged-chr5-137760256-4	chr5	137760161	137760361	+	858.9791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023910)	TTS (NM_023910)	14292.0	NM_029805	78829.0	Mm.286399	NM_023910	ENSMUSG00000029723	Tsc22d4	0610009M14Rik|1700023B23Rik|AI415410|Thg-1pit|Tilz2	TSC22 domain family, member 4	protein-coding	10.0	18.5	8.5	150.0	26.5	8.0	12.5	14.0
Merged-chr5-114014862-2	chr5	114014762	114014962	+	707.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001286397, intron 4 of 9)	MIRc|SINE|MIR	10054.0	NM_001286396	13142.0	Mm.20115	NM_010018	ENSMUSG00000042096	Dao	AI987963|DAAO|DAMOX|Dao-1|Dao1	D-amino acid oxidase	protein-coding	5.5	10.0	4.5	25.0	11.5	1.0	11.0	2.0
Merged-chr7-25220000-4	chr7	25219901	25220101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207677)	promoter-TSS (NM_207677)	-142.0	NM_207677	67379.0	Mm.280594	NM_026117	ENSMUSG00000054499	Dedd2	2410050E11Rik|FLAME-3	death effector domain-containing DNA binding protein 2	protein-coding	158.0	239.5	62.5	1477.5	418.5	135.0	118.0	133.5
Merged-chr16-49783546-4	chr16	49783475	49783675	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72079.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	24.0	35.5	18.5	532.5	57.5	21.0	18.5	18.5
Merged-chr6-124493520-2	chr6	124493420	124493620	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_181344, intron 1 of 5)	intron (NM_181344, intron 1 of 5)	407.0	NM_181344	232371.0	Mm.132974	NM_181344	ENSMUSG00000038527	C1rl	C1r-LP|C1rl1|C1rlp	complement component 1, r subcomponent-like	protein-coding	11.0	3.5	12.5	80.5	24.0	12.0	9.5	18.0
Merged-chr17-5798671-4	chr17	5798562	5798762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045081)	promoter-TSS (NR_045081)	5.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	66.5	102.5	34.0	1185.5	189.0	76.5	34.5	67.0
Merged-chr6-125481903-4	chr6	125481748	125481948	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007657, intron 1 of 7)	intron (NM_007657, intron 1 of 7)	12912.0	NM_007657	12527.0	Mm.210676	NM_007657	ENSMUSG00000030342	Cd9	Tspan29	CD9 antigen	protein-coding	31.5	73.5	43.5	519.5	127.0	56.0	39.0	64.0
Merged-chr6-98302250-2	chr6	98302150	98302350	+	815.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001128092, intron 2 of 3)	MTC|LTR|ERVL-MaLR	40504.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	7.5	21.0	6.5	76.0	13.5	8.0	15.5	6.5
Merged-chr4-58553309-4	chr4	58553219	58553419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172989)	promoter-TSS (NM_172989)	-26.0	NM_172989	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	53.0	70.0	55.5	757.0	126.5	42.0	50.5	38.5
Merged-chr10-71261836-3	chr10	71261723	71261923	+	935.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145420, intron 3 of 6)	intron (NM_145420, intron 3 of 6)	23439.0	NM_145420	216080.0	Mm.270530	NM_145420	ENSMUSG00000019927	Ube2d1	UBCH5	ubiquitin-conjugating enzyme E2D 1	protein-coding	6.0	13.0	19.5	256.5	19.5	8.5	4.0	14.0
Merged-chr4-154942092-2	chr4	154941983	154942183	+	748.0	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	-14006.0	NM_178931	230979.0	Mm.215147	NM_178931	ENSMUSG00000042333	Tnfrsf14	Atar|HveA|Hvem|Tnfrs14	tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator)	protein-coding	10.5	4.5	7.0	125.5	3.5	0.0	0.0	2.5
Merged-chr12-85474029-4	chr12	85473917	85474117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010234, exon 1 of 4)	5' UTR (NM_010234, exon 1 of 4)	127.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	215.5	421.0	194.0	2224.0	655.0	266.0	315.0	268.5
Merged-chr13-37671323-4	chr13	37671226	37671426	+	840.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C2|LTR|ERVL-MaLR	-154712.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	11.5	29.0	11.5	150.0	26.5	13.0	12.5	6.0
Merged-chr11-58224497-4	chr11	58224380	58224580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER17D2|LTR|ERVK	9503.0	NM_019440	54396.0	Mm.458517	NM_019440	ENSMUSG00000069874	Irgm2	AI481100|GTPI|Ifggd2|Iigp2	immunity-related GTPase family M member 2	protein-coding	28.0	48.5	29.5	412.0	101.5	32.5	33.0	33.5
Merged-chr16-14311594-2	chr16	14311494	14311694	+	712.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_025345, intron 2 of 4)	B2_Mm2|SINE|B2	5738.0	NM_025345	66086.0	Mm.42072	NM_025345	ENSMUSG00000022677	Fopnl	0610037P05Rik	Fgfr1op N-terminal like	protein-coding	2.5	5.0	6.0	57.0	15.5	10.5	6.0	6.0
Merged-chr2-73496169-4	chr2	73496066	73496266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-10413.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	175.0	309.0	293.5	3177.5	521.5	194.5	219.5	140.5
Merged-chr7-16581855-4	chr7	16581757	16581957	+	906.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172739, intron 1 of 6)	intron (NM_172739, intron 1 of 6)	-31967.0	NR_136928	102634559.0	Mm.421602	NR_136928	ENSMUSG00000100583	Gm29443	-	predicted gene 29443	ncRNA	13.5	24.0	20.0	262.5	20.5	6.5	17.0	15.0
Merged-chr2-75698249-4	chr2	75698129	75698329	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132727, intron 1 of 1)	intron (NR_132727, intron 1 of 1)	6434.0	NR_132727	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	62.5	64.5	55.5	628.0	151.0	51.5	66.5	55.0
Merged-chr7-38019520-4	chr7	38019418	38019618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011274)	promoter-TSS (NM_011274)	34.0	NM_011274	19777.0	Mm.387220	NM_011274	ENSMUSG00000030421	Uri1	C80913|NNX3|Rmp	URI1, prefoldin-like chaperone	protein-coding	96.0	143.0	81.0	1405.0	173.0	65.5	100.0	87.5
Merged-chr4-55567417-4	chr4	55567286	55567486	+	804.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34911.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	11.0	19.0	9.5	184.5	28.5	5.0	9.5	2.5
Merged-chr10-15297477-4	chr10	15297361	15297561	+	958.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	GA-rich|Low_complexity|Low_complexity	-494316.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	17.5	18.5	15.5	520.0	39.0	13.5	27.5	13.5
Merged-chr2-11553063-4	chr2	11552948	11553148	+	952.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	881.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	14.0	23.5	32.0	228.5	37.5	14.5	14.0	19.5
Merged-chr19-43670766-4	chr19	43670641	43670841	+	994.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145156, intron 1 of 3)	intron (NM_145156, intron 1 of 3)	4140.0	NM_145156	246696.0	Mm.23827	NM_145156	ENSMUSG00000040414	Slc25a28	Mfrn2|Mrs3/4	solute carrier family 25, member 28	protein-coding	8.0	29.5	18.0	168.0	110.5	37.5	57.0	72.5
Merged-chr17-35667579-4	chr17	35667496	35667696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175137)	promoter-TSS (NM_175137)	-4.0	NM_175137	68915.0	Mm.32002	NM_175137	ENSMUSG00000038838	Vars2	1190004I24Rik|Vars2l|mKIAA1885	valyl-tRNA synthetase 2, mitochondrial	protein-coding	61.5	95.5	48.5	794.5	133.0	38.5	61.5	68.0
Merged-chr11-120698169-2	chr11	120698069	120698269	+	696.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026877, intron 7 of 15)	intron (NM_026877, intron 7 of 15)	15598.0	NM_016665	20892.0	Mm.259716	NM_016665	ENSMUSG00000025144	Cenpx	Stra13	centromere protein X	protein-coding	8.0	11.0	5.0	51.5	21.0	6.5	3.0	3.0
Merged-chr16-18289368-4	chr16	18289270	18289470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033324)	promoter-TSS (NM_033324)	-202.0	NM_033324	94223.0	Mm.447352	NM_033324	ENSMUSG00000022718	Dgcr8	D16H22S1742E|D16H22S788E|D16Wis2|Gy1|N41|Vo59c07|mir-1306	DGCR8, microprocessor complex subunit	protein-coding	305.5	453.0	322.5	4281.0	669.5	265.0	391.0	292.5
Merged-chr18-73863613-3	chr18	73863512	73863712	+	946.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360973)	promoter-TSS (NM_001360973)	17.0	NM_001360973	71263.0	Mm.126220	NM_027741	ENSMUSG00000064036	Mro	4930507C04Rik|4933435E20Rik	maestro	protein-coding	15.5	14.0	15.5	193.0	12.0	8.5	10.0	9.0
Merged-chr8-115539766-4	chr8	115539679	115539879	+	923.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	167115.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	15.0	19.5	12.0	221.5	35.0	12.0	15.5	12.5
Merged-chr6-113714507-4	chr6	113714412	113714612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3180.0	NR_138135	58991.0	Mm.379095	NM_021488	ENSMUSG00000064177	Ghrl	2210006E23Rik|Ghr|MTLRP|MTLRPAP|m46	ghrelin	protein-coding	46.5	41.5	40.5	627.0	67.0	30.5	47.0	42.0
Merged-chr9-35183545-4	chr9	35183474	35183674	+	978.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001177847)	TTS (NM_001177847)	-7587.0	NM_027030	69305.0	Mm.229110	NM_027030	ENSMUSG00000032040	Dcps	1700001E16Rik|AA408441	decapping enzyme, scavenger	protein-coding	28.0	46.0	27.5	601.5	53.0	11.0	23.5	23.0
Merged-chr11-69414619-4	chr11	69414500	69414700	+	930.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001017426)	promoter-TSS (NM_001017426)	-925.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	19.0	20.5	23.5	360.5	36.5	17.0	12.5	18.5
Merged-chr5-147747648-1	chr5	147747548	147747748	+	564.0	f1_balb.idr	Intergenic	RSINE1|SINE|B4	-21660.0	NM_010228	14254.0	Mm.389712	NM_010228	ENSMUSG00000029648	Flt1	AI323757|Flt-1|VEGFR-1|VEGFR1|sFlt1	FMS-like tyrosine kinase 1	protein-coding	7.0	5.0	5.0	42.5	2.0	1.5	6.0	7.0
Merged-chr15-73644146-4	chr15	73644052	73644252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19408.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	22.0	49.0	26.5	301.5	58.5	24.5	22.0	25.0
Merged-chr17-36837085-4	chr17	36836973	36837173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286727)	promoter-TSS (NM_001286727)	-73.0	NM_001025599	22670.0	Mm.34587	NM_030698	ENSMUSG00000024457	Trim26	AI462198|Zfp173|Zfp1736	tripartite motif-containing 26	protein-coding	235.0	346.5	207.5	3744.5	555.0	232.0	222.0	217.0
Merged-chr14-57537862-3	chr14	57537778	57537978	+	786.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145837, intron 2 of 2)	intron (NM_145837, intron 2 of 2)	13049.0	NM_145837	239114.0	Mm.390726	NM_145837	ENSMUSG00000050222	Il17d	AI462269|IL-17D	interleukin 17D	protein-coding	3.0	2.0	8.0	104.5	12.0	5.5	5.5	7.0
Merged-chr5-32007018-4	chr5	32006917	32007117	+	872.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 9 of 11)	MIRb|SINE|MIR	-129455.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	7.5	12.5	11.5	179.0	22.0	6.0	9.0	15.0
Merged-chr11-69365104-4	chr11	69365011	69365211	+	952.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146019, intron 1 of 39)	intron (NM_146019, intron 1 of 39)	4315.0	NM_146019	216848.0	Mm.178246	NM_146019	ENSMUSG00000018474	Chd3	2600010P09Rik|AF020312|Chd7|Prp7|Prp9-1	chromodomain helicase DNA binding protein 3	protein-coding	30.0	15.0	12.0	206.5	59.5	13.5	16.0	20.0
Merged-chr13-48639774-2	chr13	48639674	48639874	+	741.166626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14102.0	NM_001301781	218232.0	Mm.315089	NM_207232	ENSMUSG00000038042	Ptpdc1	AI843923|AW456874|Naa-1|Ptpcd1	protein tyrosine phosphatase domain containing 1	protein-coding	5.0	11.0	8.5	41.5	17.5	0.0	5.0	4.0
Merged-chr8-120618278-4	chr8	120618134	120618334	+	985.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308449, intron 2 of 3)	intron (NM_001308449, intron 2 of 3)	16148.0	NM_197988	68918.0	Mm.473736	NM_197988	ENSMUSG00000043687	1190005I06Rik	-	RIKEN cDNA 1190005I06 gene	protein-coding	12.0	30.5	10.5	264.5	54.0	13.0	24.0	30.0
Merged-chr1-165617374-4	chr1	165617253	165617453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	17188.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	57.5	30.5	68.5	1000.0	104.5	30.5	64.0	50.5
Merged-chr19-29364268-4	chr19	29364166	29364366	+	807.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2395.0	NM_026362	67759.0	Mm.275511	NM_026362	ENSMUSG00000016495	Plgrkt	1110007H22Rik|5033414D02Rik|AI852040|Plg-R(KT)|Plg-RKT	plasminogen receptor, C-terminal lysine transmembrane protein	protein-coding	1.5	14.0	5.0	82.5	54.5	10.5	12.0	10.0
Merged-chr13-60666084-3	chr13	60665994	60666194	+	803.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	63883.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	9.0	35.5	10.5	116.0	18.0	3.5	3.0	2.5
Merged-chr15-83173054-1	chr15	83172954	83173154	+	974.0	f0_balb.idr	promoter-TSS (NM_029787)	promoter-TSS (NM_029787)	-846.0	NM_029787	109754.0	Mm.22560	NM_029787	ENSMUSG00000018042	Cyb5r3	0610016L08Rik|2500002N19Rik|C85115|Dia-1|Dia1|WU:AL591952.1-001|WU:AL591952.1-002|WU:AL591952.1-003|WU:Cyb5r3	cytochrome b5 reductase 3	protein-coding	9.5	12.0	12.0	134.5	23.5	5.5	6.5	12.5
Merged-chr19-34288539-2	chr19	34288439	34288639	+	700.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2120.0	NM_007987	14102.0	Mm.1626	NM_007987	ENSMUSG00000024778	Fas	AI196731|APO1|APT1|CD95|TNFR6|Tnfrsf6|lpr	Fas (TNF receptor superfamily member 6)	protein-coding	2.5	6.0	0.5	20.5	18.0	7.0	6.5	7.5
Merged-chr18-61726331-4	chr18	61726217	61726417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021296)	promoter-TSS (NM_021296)	14.0	NM_021296	17714.0	Mm.269657	NM_021296	ENSMUSG00000024580	Grpel2	mt-GrpE#2|mt-Grpel2	GrpE-like 2, mitochondrial	protein-coding	106.0	132.5	74.0	1309.5	257.5	96.5	119.0	96.5
Merged-chr6-129103337-4	chr6	129103250	129103450	+	951.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2447.0	NM_153506	232409.0	Mm.30870	NM_153506	ENSMUSG00000030155	Clec2e	Clra|clr-a	C-type lectin domain family 2, member e	protein-coding	16.5	18.0	15.5	291.0	54.0	15.0	21.5	21.5
Merged-chr1-170573535-4	chr1	170573427	170573627	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001109985, intron 1 of 9)	intron (NM_001109985, intron 1 of 9)	16322.0	NM_001109985	70729.0	Mm.409310	NM_027528	ENSMUSG00000038473	Nos1ap	6330408P19Rik|Capon	nitric oxide synthase 1 (neuronal) adaptor protein	protein-coding	31.5	44.5	31.0	394.5	50.0	26.0	21.5	27.0
Merged-chr12-86079541-4	chr12	86079449	86079649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009368)	promoter-TSS (NM_009368)	-508.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	53.0	62.0	48.5	725.5	139.0	54.5	76.5	52.5
Merged-chr7-118705764-4	chr7	118705666	118705866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019580)	promoter-TSS (NM_019580)	-28.0	NM_019580	56209.0	Mm.273142	NM_019580	ENSMUSG00000033917	Gde1	1200003M13Rik|Mir16|RGS16	glycerophosphodiester phosphodiesterase 1	protein-coding	72.0	104.0	62.5	1021.0	236.5	83.5	98.0	86.5
Merged-chr6-100110175-4	chr6	100110055	100110255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	177203.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	44.5	69.0	79.0	951.0	120.5	44.5	58.5	45.0
Merged-chr12-37255621-4	chr12	37255528	37255728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178767, intron 3 of 12)	intron (NM_178767, intron 3 of 12)	13989.0	NM_178767	319660.0	Mm.485540	NM_178767	ENSMUSG00000050103	Agmo	A530016O06Rik|AI790538|Tmem195	alkylglycerol monooxygenase	protein-coding	29.5	24.0	26.5	372.0	43.5	18.0	30.0	24.0
Merged-chr3-84674905-3	chr3	84674802	84675002	+	972.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177260, intron 1 of 6)	U8|snRNA|snRNA	8710.0	NM_177260	320782.0	Mm.107370	NM_177260	ENSMUSG00000056498	Tmem154	9930117H01Rik	transmembrane protein 154	protein-coding	13.5	18.5	19.5	196.5	16.5	8.5	11.5	20.0
Merged-chr2-148527988-4	chr2	148527938	148528138	+	862.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-84503.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	5.5	9.0	19.5	166.0	13.0	12.0	10.5	11.0
Merged-chr8-120738931-4	chr8	120738810	120739010	+	906.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001301811, exon 1 of 9)	5' UTR (NM_001301811, exon 1 of 9)	271.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	3.5	8.0	35.5	221.0	55.5	7.0	28.5	12.5
Merged-chr11-54089059-4	chr11	54088983	54089183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11841.0	NM_001136076	18452.0	Mm.3705	NM_011031	ENSMUSG00000018906	P4ha2	AA407196|C76437|P4hl	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide	protein-coding	32.5	61.0	22.5	454.5	91.5	46.0	37.0	32.5
Merged-chr7-101884334-4	chr7	101884235	101884435	+	904.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291353, intron 1 of 5)	ORR1E|LTR|ERVL-MaLR	-1525.0	NM_001291352	75430.0	Mm.284491	NM_027532	ENSMUSG00000030649	Anapc15	3200002M19Rik|6330414C15Rik|APC15	anaphase prompoting complex C subunit 15	protein-coding	16.0	17.0	8.0	212.0	37.0	10.5	13.5	15.5
Merged-chr3-97658209-4	chr3	97658107	97658307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182997)	promoter-TSS (NM_182997)	-5.0	NM_182997	108097.0	Mm.31175	NM_182997	ENSMUSG00000038205	Prkab2	5730553K21Rik|AW049591|BB124140	protein kinase, AMP-activated, beta 2 non-catalytic subunit	protein-coding	164.0	209.5	180.5	2380.5	391.5	151.5	169.0	165.5
Merged-chr7-45800690-4	chr7	45800602	45800802	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005511, intron 14 of 15)	intron (NM_001005511, intron 14 of 15)	13614.0	NM_011181	19158.0	Mm.272130	NM_011181	ENSMUSG00000003269	Cyth2	ARNO|CLM2|Pscd2	cytohesin 2	protein-coding	32.0	32.0	23.0	202.5	58.0	10.0	23.5	18.5
Merged-chr1-171561438-4	chr1	171561326	171561526	+	923.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018729, intron 1 of 8)	intron (NM_018729, intron 1 of 8)	2233.0	NM_018729	18106.0	Mm.2299	NM_018729	ENSMUSG00000004709	Cd244	2B4|C9.1|F730046O15Rik|Ly90|NAIL|NKR2B4|Nmrk|SLAMF4	CD244 natural killer cell receptor 2B4	protein-coding	33.0	26.5	31.5	629.5	25.5	9.5	18.0	19.0
Merged-chr8-94584592-4	chr8	94584468	94584668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028221, intron 5 of 7)	intron (NM_028221, intron 5 of 7)	17158.0	NM_028221	102122.0	Mm.250425	NM_028221	ENSMUSG00000031774	Fam192a	1700001O11Rik|2310065K24Rik|AI596259|Nip30	family with sequence similarity 192, member A	protein-coding	40.5	54.0	33.0	621.5	107.0	14.0	40.0	33.5
Merged-chr14-55760315-4	chr14	55760224	55760424	+	877.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-1104.0	NM_020490	57260.0	Mm.159670	NM_020490	ENSMUSG00000040432	Ltb4r2	5830462O07Rik|BLT2|LTB4-R 2|LTB4-R-2|LTB4-R2	leukotriene B4 receptor 2	protein-coding	18.0	19.0	7.5	173.5	45.0	10.5	11.5	12.5
Merged-chr9-53007651-4	chr9	53007537	53007737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44B|LTR|ERVK	240475.0	NM_029936	77591.0	Mm.133560	NM_029936	ENSMUSG00000053289	Ddx10	4632415A01Rik|AI646054	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	protein-coding	42.5	50.0	58.0	369.5	106.0	25.5	48.0	37.0
Merged-chr5-124116197-4	chr5	124116121	124116321	+	990.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025671)	TTS (NM_025671)	113.0	NM_144509	65105.0	Mm.29430	NM_144509	ENSMUSG00000029404	Arl6ip4	AA408210|AA408365|Aip-4|Srp25	ADP-ribosylation factor-like 6 interacting protein 4	protein-coding	22.5	21.5	24.0	282.0	35.0	15.0	11.0	19.0
Merged-chr2-35337076-4	chr2	35336978	35337178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013515)	promoter-TSS (NM_013515)	-69.0	NM_013515	13830.0	Mm.295284	NM_013515	ENSMUSG00000026880	Stom	Epb7.2	stomatin	protein-coding	144.0	239.0	151.5	1668.0	393.0	160.0	170.5	133.0
Merged-chr9-110678200-4	chr9	110678113	110678313	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028312, intron 1 of 6)	RLTR28|LTR|ERVL	21710.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	29.0	37.5	14.0	374.5	70.5	13.0	37.5	28.0
Merged-chr15-73137549-4	chr15	73137473	73137673	+	967.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 3 of 18)	intron (NM_153178, intron 3 of 18)	47161.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	15.0	13.5	17.5	153.5	38.0	11.5	9.0	30.0
Merged-chr17-36187761-4	chr17	36187665	36187865	+	932.883301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008208, intron 3 of 5)	intron (NM_008208, intron 3 of 5)	2386.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	15.5	19.0	10.0	170.0	30.0	3.5	18.5	7.0
Merged-chr10-12929911-3	chr10	12929795	12929995	+	908.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6768.0	NR_038028	320273.0	Mm.417706	NR_038027	ENSMUSG00000097378	B230208H11Rik	-	RIKEN cDNA B230208H11 gene	ncRNA	8.5	21.0	24.0	222.5	9.5	5.5	4.0	1.5
Merged-chr13-93499655-4	chr13	93499553	93499753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_021310, exon 1 of 11)	5' UTR (NM_021310, exon 1 of 11)	155.0	NM_021310	57748.0	Mm.100273	NM_021310	ENSMUSG00000021690	Jmy	-	junction-mediating and regulatory protein	protein-coding	46.0	126.5	100.5	1123.5	153.5	52.5	89.0	83.5
Merged-chr6-134259772-3	chr6	134259674	134259874	+	681.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 6 of 8)	intron (NM_001303102, intron 6 of 8)	-136555.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	21.0	11.0	4.5	134.0	13.0	7.5	5.5	5.0
Merged-chr15-78595001-4	chr15	78594897	78595097	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-2050.0	NM_028195	72318.0	Mm.32911	NM_028195	ENSMUSG00000018008	Cyth4	2510004M07Rik|5830469K17Rik|AI467541|Pscd4|mFLJ00017	cytohesin 4	protein-coding	26.5	25.0	19.0	229.0	50.0	16.0	17.5	19.0
Merged-chr5-23387103-4	chr5	23387001	23387201	+	991.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47252.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	28.5	45.5	35.5	567.0	61.0	17.5	31.5	16.5
Merged-chr3-116651172-3	chr3	116651077	116651277	+	701.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008246, intron 2 of 11)	intron (NM_008246, intron 2 of 11)	11500.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	15.5	32.5	12.0	81.5	17.5	7.0	7.0	4.0
Merged-chr2-119360053-3	chr2	119359941	119360141	+	727.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8799.0	NM_026929	69065.0	Mm.35083	NM_026929	ENSMUSG00000027313	Chac1	1810008K03Rik	ChaC, cation transport regulator 1	protein-coding	9.0	8.5	7.0	186.0	23.0	12.0	10.0	5.5
Merged-chr1-130430011-6	chr1	130429904	130430104	+	865.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151525, intron 2 of 3)	RLTR13D5|LTR|ERVK	-6961.0	NM_001317361	13137.0	Mm.436759	NM_007827	ENSMUSG00000026401	Cd55b	AI323748|Daf|Daf-TM|Daf2|TM-DAF	CD55 molecule, decay accelerating factor for complement B	protein-coding	2.5	15.0	16.0	81.5	32.0	6.0	8.5	12.0
Merged-chr3-60615505-7	chr3	60615405	60615605	+	992.7551269999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 5 of 7)	intron (NM_001253711, intron 5 of 7)	114326.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	12.5	35.5	19.5	109.5	40.0	12.0	10.0	9.5
Merged-chr5-137746540-4	chr5	137746493	137746693	+	921.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023910, intron 1 of 4)	intron (NM_023910, intron 1 of 4)	624.0	NM_029805	78829.0	Mm.286399	NM_023910	ENSMUSG00000029723	Tsc22d4	0610009M14Rik|1700023B23Rik|AI415410|Thg-1pit|Tilz2	TSC22 domain family, member 4	protein-coding	8.5	13.0	18.5	66.5	31.0	7.5	4.5	13.5
Merged-chr10-121446025-4	chr10	121445925	121446125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	30225.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	37.0	77.5	32.0	338.0	64.5	27.0	23.5	22.5
Merged-chr11-107405803-4	chr11	107405699	107405899	+	974.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	RSINE1|SINE|B4	64921.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	41.5	22.5	46.5	1002.0	66.0	12.5	34.0	50.0
Merged-chr1-181256443-4	chr1	181256370	181256570	+	954.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44492.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	11.0	23.5	16.0	178.0	24.0	7.0	16.0	16.0
Merged-chr13-103920500-4	chr13	103920405	103920605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289474)	promoter-TSS (NM_001289474)	81.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	162.0	335.0	211.5	2340.5	562.5	198.5	209.0	161.0
Merged-chr12-111445280-2	chr12	111445180	111445380	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_009396, exon 2 of 12)	exon (NM_009396, exon 2 of 12)	2619.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	6.5	10.5	8.5	39.5	16.0	10.5	6.5	7.0
Merged-chr4-74297113-4	chr4	74296996	74297196	+	953.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 3 of 20)	intron (NM_001356561, intron 3 of 20)	45217.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	23.0	9.0	36.5	547.5	45.0	10.0	18.0	14.5
Merged-chr4-144981317-4	chr4	144981226	144981426	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 68 of 69)	intron (NM_001276465, intron 68 of 69)	88189.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	30.5	50.5	27.0	728.0	103.5	31.0	21.0	32.0
Merged-chr5-66129002-3	chr5	66128913	66129113	+	773.8555299999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	Lx9|LINE|L1	21965.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	0.5	8.5	2.0	14.5	24.5	10.5	9.0	16.0
Merged-chr17-8801124-5	chr17	8801026	8801226	+	859.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011866)	promoter-TSS (NM_011866)	-619.0	NM_011866	23984.0	Mm.87161	NM_011866	ENSMUSG00000023868	Pde10a	-	phosphodiesterase 10A	protein-coding	26.5	36.5	30.5	543.5	25.5	5.5	13.5	15.0
Merged-chr17-48234708-4	chr17	48234574	48234774	+	995.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347399, intron 1 of 2)	intron (NM_001347399, intron 1 of 2)	1935.0	NM_021406	58217.0	Mm.248352	NM_021406	ENSMUSG00000042265	Trem1	-	triggering receptor expressed on myeloid cells 1	protein-coding	48.5	67.5	73.0	568.5	69.0	28.0	41.5	19.5
Merged-chr11-49982533-2	chr11	49982433	49982633	+	948.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-42798.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	4.5	10.5	4.5	28.5	11.0	5.5	1.5	5.0
Merged-chr4-45436829-3	chr4	45436735	45436935	+	819.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033306, intron 5 of 5)	intron (NM_001033306, intron 5 of 5)	-28069.0	NM_001009949	230125.0	Mm.260210	NM_001009949	ENSMUSG00000045973	Slc25a51	9130208E07Rik|D130005A03Rik|Gm138|Mcart1	solute carrier family 25, member 51	protein-coding	7.0	5.0	10.5	204.0	7.5	1.0	8.0	2.0
Merged-chr12-85364700-5	chr12	85364610	85364810	+	846.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026775, intron 1 of 4)	MTD|LTR|ERVL-MaLR	10007.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	7.5	13.5	5.5	70.5	24.5	4.0	10.0	5.0
Merged-chr3-79239382-4	chr3	79239287	79239487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045502, intron 1 of 2)	intron (NR_045502, intron 1 of 2)	26468.0	NR_045502	70924.0	Mm.444622	NR_045502	ENSMUSG00000104585	4921511C10Rik	-	RIKEN cDNA 4921511C10 gene	ncRNA	39.0	45.0	45.0	684.5	148.0	42.5	52.0	45.5
Merged-chr19-5946264-4	chr19	5946159	5946359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164057, intron 13 of 17)	intron (NM_001164057, intron 13 of 17)	17947.0	NM_001164057	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	49.5	59.0	46.5	586.5	127.0	45.5	39.0	56.5
Merged-chr8-61917686-3	chr8	61917598	61917798	+	907.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-10389.0	NM_001293783	234311.0	Mm.275233	NM_144928	ENSMUSG00000037921	Ddx60	9830118M07	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	protein-coding	5.5	5.5	6.5	164.5	16.5	4.0	7.5	6.5
Merged-chr8-125286416-4	chr8	125286336	125286536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206397.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	72.5	133.5	84.5	978.5	134.5	62.5	60.0	76.5
Merged-chr9-96759289-4	chr9	96759189	96759389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6273.0	NR_102295	319707.0	Mm.392191	NR_102293	ENSMUSG00000101581	C430002N11Rik	-	RIKEN cDNA C430002N11 gene	ncRNA	38.0	32.0	14.5	511.5	64.0	28.5	31.0	35.0
Merged-chr15-26360527-4	chr15	26360440	26360640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310774, intron 2 of 2)	intron (NM_001310774, intron 2 of 2)	51492.0	NM_001310774	211147.0	Mm.54257	NM_177597	ENSMUSG00000022269	March11	9630025C22	membrane-associated ring finger (C3HC4) 11	protein-coding	78.0	101.5	79.5	1297.5	205.5	74.5	106.0	68.0
Merged-chr13-20127705-4	chr13	20127589	20127789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	37182.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	65.0	158.0	67.5	989.0	182.0	59.0	66.0	59.0
Merged-chr16-84967229-4	chr16	84967132	84967332	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 13 of 15)	intron (NM_001198825, intron 13 of 15)	-4979.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	212.0	332.0	215.0	3716.5	467.5	169.0	233.5	183.0
Merged-chr3-75910474-3	chr3	75910381	75910581	+	845.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291069, intron 2 of 15)	intron (NM_001291069, intron 2 of 15)	46468.0	NM_175193	73124.0	Mm.249232	NM_175193	ENSMUSG00000034109	Golim4	3110027H23Rik|GIMPC|GPP130|Golph4|P138	golgi integral membrane protein 4	protein-coding	5.0	10.0	7.5	130.0	14.5	3.5	8.0	15.0
Merged-chr19-5840649-4	chr19	5840504	5840704	+	839.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_131212, exon 1 of 1)	non-coding (NR_131212, exon 1 of 1)	4874.0	NR_131212	66961.0	Mm.281895	NR_003513	ENSMUSG00000092274	Neat1	2310043N10Rik|VINC	nuclear paraspeckle assembly transcript 1 (non-protein coding)	ncRNA	13.5	21.0	3.0	179.0	20.5	13.5	4.5	9.5
Merged-chr5-134187558-4	chr5	134187449	134187649	+	802.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359852, intron 1 of 14)	B3|SINE|B2	3511.0	NM_053266	114674.0	Mm.218744	NM_053266	ENSMUSG00000015942	Gtf2ird2	1700012P16Rik	GTF2I repeat domain containing 2	protein-coding	9.5	21.5	5.5	103.0	40.0	10.0	9.5	9.0
Merged-chr10-7076379-4	chr10	7076297	7076497	+	815.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53212.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	10.0	26.5	19.5	258.0	32.5	9.5	18.5	11.0
Merged-chr10-24638514-2	chr10	24638414	24638614	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008813, exon 25 of 25)	3' UTR (NM_008813, exon 25 of 25)	43072.0	NM_010217	14219.0	Mm.390287	NM_010217	ENSMUSG00000019997	Ctgf	Ccn2|Fisp12|Hcs24|fisp-12	connective tissue growth factor	protein-coding	12.0	14.0	10.5	349.0	18.0	2.0	6.5	8.0
Merged-chr10-118407031-4	chr10	118406930	118407130	+	969.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34016.0	NM_008337	15978.0	Mm.240327	NM_008337	ENSMUSG00000055170	Ifng	IFN-g|Ifg	interferon gamma	protein-coding	52.5	99.0	79.5	1023.5	24.5	13.5	30.0	23.0
Merged-chr15-42965446-3	chr15	42965369	42965569	+	756.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B1|LTR|ERVL	205349.0	NM_001357957	239405.0	Mm.193274	NM_172815	ENSMUSG00000051920	Rspo2	2610028F08Rik|AA673245|D430027K22|ftls	R-spondin 2	protein-coding	7.0	10.0	6.0	254.0	2.0	0.0	2.0	3.0
Merged-chr2-60209272-4	chr2	60209187	60209387	+	856.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020575)	promoter-TSS (NM_020575)	-649.0	NM_020575	57438.0	Mm.260635	NM_020575	ENSMUSG00000026977	March7	Axo|Axot|Gtrgeo17	membrane-associated ring finger (C3HC4) 7	protein-coding	6.0	9.5	16.0	127.0	13.5	12.0	10.0	13.0
Merged-chr8-124844681-1	chr8	124844581	124844781	+	549.5	f0_balb.idr	intron (NM_025615, intron 2 of 6)	intron (NM_025615, intron 2 of 6)	18348.0	NM_025615	66523.0	Mm.436864	NM_025615	ENSMUSG00000031984	2810004N23Rik	3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55	RIKEN cDNA 2810004N23 gene	protein-coding	5.0	8.5	6.0	79.5	0.0	2.5	1.5	3.0
Merged-chr4-135875306-4	chr4	135875192	135875392	+	856.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1446.0	NM_026383	52830.0	Mm.29159	NM_026383	ENSMUSG00000028675	Pnrc2	0610011E17Rik|D4Bwg0593e	proline-rich nuclear receptor coactivator 2	protein-coding	6.5	12.0	6.5	124.5	28.0	9.5	8.5	18.0
Merged-chr12-108792333-4	chr12	108792235	108792435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009537)	promoter-TSS (NM_009537)	-976.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	38.5	54.0	58.5	541.0	119.0	40.5	47.0	53.5
Merged-chr19-16382549-2	chr19	16382449	16382649	+	961.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 6 of 6)	MTD|LTR|ERVL-MaLR	-53118.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	6.0	6.5	5.0	73.5	18.0	5.0	4.5	9.5
Merged-chr2-44334218-4	chr2	44334130	44334330	+	948.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301831, intron 13 of 14)	intron (NM_001301831, intron 13 of 14)	-268906.0	NR_040622	320872.0	Mm.445023	NR_040622	ENSMUSG00000085089	Arhgap15os	A430092G05Rik	Rho GTPase activating protein 15, opposite strand	ncRNA	22.5	26.0	28.5	443.0	34.5	9.0	24.5	16.5
Merged-chr3-149110268-3	chr3	149110182	149110382	+	670.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-155647.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	10.0	14.0	20.5	85.0	5.0	3.5	4.5	1.5
Merged-chr11-51809773-4	chr11	51809680	51809880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46117.0	NM_025535	66397.0	Mm.196592	NM_025535	ENSMUSG00000020386	Sar1b	2310075M17Rik|2900019I22Rik|CMRD|Sara1b|Sara2|Sarb	secretion associated Ras related GTPase 1B	protein-coding	48.0	68.0	31.0	394.5	174.5	41.5	38.0	28.0
Merged-chr7-143473675-4	chr7	143473579	143473779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008767)	promoter-TSS (NM_008767)	-76.0	NM_008767	18400.0	Mm.271740	NM_008767	ENSMUSG00000000154	Slc22a18	AW260131|BWR1A|BWSCR1A|HET|ITM|Impt1|Orctl2|Slc22a1l|TSSC5|p45-BWR1A	solute carrier family 22 (organic cation transporter), member 18	protein-coding	49.0	61.5	39.0	787.0	138.0	36.5	61.0	54.5
Merged-chr19-8967029-4	chr19	8966920	8967120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026007)	promoter-TSS (NM_026007)	-21.0	NM_026007	67160.0	Mm.247762	NM_026007	ENSMUSG00000071644	Eef1g	2610301D06Rik|AA407312|EF1G	eukaryotic translation elongation factor 1 gamma	protein-coding	259.5	461.5	214.5	2536.0	625.0	244.0	273.5	233.5
Merged-chr1-95590283-4	chr1	95590178	95590378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009183, exon 5 of 5)	3' UTR (NM_009183, exon 5 of 5)	77316.0	NM_009183	20452.0	Mm.306228	NM_009183	ENSMUSG00000040710	St8sia4	PST|PST-1|SIAT8-D|ST8SiaIV|Siat8d	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4	protein-coding	80.5	152.5	72.5	1647.5	254.5	112.0	101.0	124.0
Merged-chr11-116654487-3	chr11	116654387	116654587	+	990.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030206)	promoter-TSS (NM_030206)	-174.0	NM_030206	114886.0	Mm.34598	NM_030206	ENSMUSG00000020810	Cygb	3110001K20Rik|HGb|Staap	cytoglobin	protein-coding	29.0	27.0	14.0	176.0	43.5	11.0	9.5	9.0
Merged-chr14-103945897-4	chr14	103945812	103946012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	81230.0	NR_045953	73877.0	Mm.399172	NR_045953	ENSMUSG00000115727	4930432J09Rik	-	RIKEN cDNA 4930432J09 gene	ncRNA	54.0	83.5	92.0	1325.0	113.5	27.5	45.5	44.0
Merged-chr1-155483822-4	chr1	155483736	155483936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	43275.0	NR_132128	433367.0	Mm.359304	NR_132128	ENSMUSG00000073535	Gm5532	EG433367	predicted gene 5532	ncRNA	95.0	128.5	117.0	1665.5	189.5	72.5	118.5	93.0
Merged-chr5-53378808-4	chr5	53378710	53378910	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111704.0	NM_001145433	66278.0	Mm.27900	NM_001145433	ENSMUSG00000061461	Smim20	1110067B18Rik|1810013D10Rik|N28078	small integral membrane protein 20	protein-coding	42.5	74.0	73.5	1356.5	165.5	56.5	70.0	77.5
Merged-chr4-151977944-4	chr4	151977840	151978040	+	838.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172704, intron 11 of 15)	intron (NM_172704, intron 11 of 15)	11046.0	NM_175152	69876.0	Mm.226820	NM_175152	ENSMUSG00000039759	Thap3	2010013E08Rik|2210418H06Rik	THAP domain containing, apoptosis associated protein 3	protein-coding	7.0	10.5	8.0	174.0	26.5	7.0	15.0	14.5
Merged-chr1-74390776-4	chr1	74390676	74390876	+	923.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153088)	promoter-TSS (NM_153088)	-833.0	NM_153088	227292.0	Mm.165042	NM_153088	ENSMUSG00000026176	Ctdsp1	GIP|NLIIF|Nif3|SCP1	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1	protein-coding	10.0	18.0	14.0	149.0	45.0	11.5	17.5	16.0
Merged-chr2-18821815-4	chr2	18821686	18821886	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19968.0	NR_131254	66774.0	Mm.87075	NR_131254	ENSMUSG00000097638	Carlr	4933439G12Rik|Carl	cardiac and apoptosis-related long non-coding RNA	ncRNA	49.5	81.0	64.0	952.0	140.5	37.0	66.0	54.5
Merged-chr11-118135429-4	chr11	118135340	118135540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-6221.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	50.5	45.5	33.0	512.5	74.0	14.5	41.5	21.0
Merged-chr4-36038965-4	chr4	36038863	36039063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	intron (NM_001166000, intron 7 of 8)	-193759.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	106.0	94.5	127.5	2113.0	147.5	72.5	63.5	59.5
Merged-chr8-128654942-4	chr8	128654848	128655048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30706.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	57.0	131.0	125.0	1306.5	292.0	141.0	141.5	124.0
Merged-chr5-67608997-3	chr5	67608863	67609063	+	830.744446	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033415, intron 1 of 1)	intron (NM_001033415, intron 1 of 1)	1080.0	NM_001033415	330096.0	Mm.442747	NM_001033415	ENSMUSG00000050010	Shisa3	D830007B15Rik	shisa family member 3	protein-coding	6.0	14.5	9.0	126.5	27.5	8.0	5.5	8.5
Merged-chr6-51532815-4	chr6	51532730	51532930	+	939.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361581, intron 1 of 6)	intron (NM_001361581, intron 1 of 6)	8570.0	NM_001361580	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	17.0	45.5	6.5	141.0	38.0	13.5	9.0	10.0
Merged-chr3-121371630-4	chr3	121371532	121371732	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54909.0	NM_028044	71994.0	Mm.275555	NM_028044	ENSMUSG00000053931	Cnn3	1600014M03Rik|C85854|Calpo3	calponin 3, acidic	protein-coding	16.0	22.5	26.5	244.5	75.0	10.5	25.0	31.0
Merged-chr7-16285535-4	chr7	16285395	16285595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172297)	promoter-TSS (NM_172297)	-836.0	NM_172297	243846.0	Mm.482401	NM_172297	ENSMUSG00000041375	Ccdc9	2600011L02Rik	coiled-coil domain containing 9	protein-coding	29.5	37.5	20.0	304.0	54.0	15.5	16.0	18.5
Merged-chr11-100761838-4	chr11	100761728	100761928	+	957.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010410, exon 2 of 2)	exon (NM_010410, exon 2 of 2)	1103.0	NM_010410	15171.0	Mm.10096	NM_010410	ENSMUSG00000045471	Hcrt	PPOX	hypocretin	protein-coding	9.0	13.5	5.0	115.0	48.0	23.5	13.5	28.0
Merged-chr11-70018537-3	chr11	70018447	70018647	+	907.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001109752)	promoter-TSS (NM_001109752)	-58.0	NM_001109752	13385.0	Mm.27256	NM_007864	ENSMUSG00000020886	Dlg4	Dlgh4|PSD-95|PSD95|SAP90|SAP90A	discs large MAGUK scaffold protein 4	protein-coding	4.5	7.5	4.5	47.0	17.5	6.5	2.0	6.0
Merged-chr8-104233181-4	chr8	104233103	104233303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045642, intron 5 of 8)	intron (NR_045642, intron 5 of 8)	15355.0	NR_045642	57813.0	Mm.183110	NM_021028	ENSMUSG00000035824	Tk2	AU024611|mt-TK	thymidine kinase 2, mitochondrial	protein-coding	53.5	65.0	95.0	1512.0	119.0	34.0	46.5	68.0
Merged-chr18-88805008-3	chr18	88804916	88805116	+	692.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B3|LTR|ERVL	89191.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	8.0	3.0	7.5	94.0	25.0	6.5	7.0	11.0
Merged-chr6-34217013-4	chr6	34216858	34217058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39904.0	NM_021435	58246.0	Mm.245527	NM_021435	ENSMUSG00000018999	Slc35b4	4930474D06Rik|AB041549|AW494345	solute carrier family 35, member B4	protein-coding	11.0	18.0	16.0	268.0	31.5	9.0	12.0	24.0
Merged-chr1-176814200-4	chr1	176814103	176814303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029756)	promoter-TSS (NM_029756)	-457.0	NR_151682	76816.0	Mm.171399	NM_029756	ENSMUSG00000026504	Sdccag8	2700048G21Rik|5730470G24Rik|Cccap	serologically defined colon cancer antigen 8	protein-coding	64.5	88.5	88.0	925.5	159.5	67.5	57.0	79.0
Merged-chr7-127014540-4	chr7	127014428	127014628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080638)	promoter-TSS (NM_080638)	66.0	NM_080638	78388.0	Mm.228797	NM_080638	ENSMUSG00000030681	Mvp	2310009M24Rik|LRP|VAULT1	major vault protein	protein-coding	33.5	50.5	34.5	355.0	79.5	33.5	22.5	33.0
Merged-chr4-129883082-4	chr4	129882907	129883107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-23219.0	NR_045190	319894.0	Mm.59196	NR_045190	ENSMUSG00000086369	E330017L17Rik	-	RIKEN cDNA E330017L17 gene	ncRNA	38.5	43.5	30.0	343.5	78.0	35.5	32.0	38.0
Merged-chr11-78465778-4	chr11	78465747	78465947	+	834.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026740, exon 1 of 5)	exon (NM_026740, exon 1 of 5)	146.0	NM_026740	52466.0	Mm.131618	NM_026740	ENSMUSG00000020829	Slc46a1	1110002C08Rik|D11Ertd18e|HCP1|Pcft	solute carrier family 46, member 1	protein-coding	9.5	12.5	20.0	73.0	10.5	4.5	3.0	3.5
Merged-chr4-150012731-4	chr4	150012642	150012842	+	997.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	-3719.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	17.0	35.0	18.5	251.0	49.0	44.5	16.5	24.5
Merged-chr19-17163647-4	chr19	17163533	17163733	+	972.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	intron (NM_181348, intron 9 of 19)	175872.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	23.0	27.5	17.5	303.5	26.0	18.5	29.0	18.5
Merged-chr10-25362410-4	chr10	25362313	25362513	+	936.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358754, intron 1 of 16)	intron (NM_001358754, intron 1 of 16)	2615.0	NM_001358751	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	17.0	23.0	14.0	192.5	38.5	11.0	22.5	14.0
Merged-chr15-41603498-4	chr15	41603386	41603586	+	967.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152565, intron 2 of 17)	intron (NR_152565, intron 2 of 17)	154383.0	NM_001358977	170719.0	Mm.254267	NM_130885	ENSMUSG00000022307	Oxr1	2210416C20Rik|C7|C7B	oxidation resistance 1	protein-coding	12.5	28.5	34.0	519.0	30.5	22.0	19.0	27.0
Merged-chr9-113026818-4	chr9	113026704	113026904	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	560348.0	NR_040760	102688.0	Mm.394901	NR_040760	ENSMUSG00000109890	AU023762	-	expressed sequence AU023762	ncRNA	26.0	25.5	34.5	696.0	75.0	18.0	15.0	38.0
Merged-chr16-93883842-4	chr16	93883751	93883951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028083)	promoter-TSS (NM_028083)	-50.0	NM_028083	110749.0	Mm.274222	NM_028083	ENSMUSG00000022945	Chaf1b	2600017H24Rik|C76145|CAF-I p60|CAF-Ip60|CAF1|CAF1A|CAF1P60|MPHOSPH7	chromatin assembly factor 1, subunit B (p60)	protein-coding	207.0	282.5	103.0	2053.5	553.0	252.0	225.5	206.0
Merged-chr6-34872041-4	chr6	34871951	34872151	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001347101, exon 4 of 4)	3' UTR (NM_001347101, exon 4 of 4)	6014.0	NM_199145	78412.0	Mm.248440	NM_199145	ENSMUSG00000046806	3110062M04Rik	AL023049|Cyren|Mri	RIKEN cDNA 3110062M04 gene	protein-coding	73.0	71.0	83.5	1524.5	124.5	46.0	68.5	38.5
Merged-chr12-119313604-2	chr12	119313504	119313704	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75328.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	8.0	5.0	5.0	156.0	11.5	5.5	6.5	6.0
Merged-chr1-84467914-4	chr1	84467823	84468023	+	873.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 7 of 12)	intron (NM_152915, intron 7 of 12)	-183278.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	9.5	14.5	28.0	505.0	26.5	9.5	7.5	13.5
Merged-chr1-151927562-3	chr1	151927504	151927704	+	860.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197990, intron 3 of 5)	B1_Mur1|SINE|Alu	162716.0	NM_197990	69399.0	Mm.278031	NM_197990	ENSMUSG00000032666	1700025G04Rik	2610510E02Rik|2900042O04Rik	RIKEN cDNA 1700025G04 gene	protein-coding	6.0	9.5	7.5	91.0	6.5	6.0	2.5	7.5
Merged-chr18-34854648-2	chr18	34854548	34854748	+	874.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6559.0	NM_007913	13653.0	Mm.181959	NM_007913	ENSMUSG00000038418	Egr1	A530045N19Rik|ETR103|Egr-1|Krox-1|Krox-24|Krox24|NGF1-A|NGFI-A|NGFIA|TIS8|Zenk|Zfp-6|Zif268|egr	early growth response 1	protein-coding	1.0	3.0	11.0	18.0	13.5	6.0	7.5	16.0
Merged-chr12-3409206-4	chr12	3409109	3409309	+	847.854126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030694, intron 1 of 2)	intron (NR_030694, intron 1 of 2)	17538.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	6.0	15.5	12.0	104.0	24.5	5.0	15.0	5.0
Merged-chr7-141061029-6	chr7	141060958	141061158	+	721.222229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177897)	promoter-TSS (NM_177897)	-216.0	NM_177897	330671.0	Mm.133741	NM_177897	ENSMUSG00000055629	B4galnt4	BC038881|Gm1095|beta4GalNAcT4	beta-1,4-N-acetyl-galactosaminyl transferase 4	protein-coding	8.0	14.0	8.5	105.0	15.0	5.0	5.0	9.5
Merged-chr15-9123666-2	chr15	9123566	9123766	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 5 of 9)	intron (NM_013787, intron 5 of 9)	16788.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	13.0	6.0	7.5	104.5	4.5	4.5	2.0	6.0
Merged-chr2-144368947-4	chr2	144368878	144369078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164813)	promoter-TSS (NM_001164813)	-5.0	NM_001164813	100048644.0	Mm.227925	NM_001164813	ENSMUSG00000098387	Pet117	Gm20571	PET117 homolog	protein-coding	83.0	85.0	89.0	1055.0	137.0	66.5	69.0	83.5
Merged-chr14-105300755-3	chr14	105300660	105300860	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 5 of 7)	intron (NM_029561, intron 5 of 7)	42087.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	98.0	152.5	138.0	2242.0	1.5	0.0	1.5	0.0
Merged-chr4-132573928-3	chr4	132573864	132574064	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081211, intron 1 of 1)	(TG)n|Simple_repeat|Simple_repeat	9897.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	10.5	11.0	12.0	198.0	33.0	3.0	8.0	8.0
Merged-chr11-80183443-1	chr11	80183343	80183543	+	1000.0	f1_balb.idr	promoter-TSS (NM_028019)	promoter-TSS (NM_028019)	-429.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	5.5	13.0	14.5	23.0	15.5	13.5	5.5	7.0
Merged-chr5-44238401-3	chr5	44238304	44238504	+	676.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11798.0	NM_173764	231225.0	Mm.30688	NM_173764	ENSMUSG00000046985	Tapt1	4932414K18Rik	transmembrane anterior posterior transformation 1	protein-coding	9.5	12.0	17.0	142.0	7.5	4.0	4.5	11.0
Merged-chr11-82099412-3	chr11	82099322	82099522	+	909.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	-2423.0	NM_011331	20293.0	Mm.867	NM_011331	ENSMUSG00000035352	Ccl12	MCP-5|Scya12	chemokine (C-C motif) ligand 12	protein-coding	7.5	19.5	7.5	170.0	45.5	7.0	4.5	5.5
Merged-chr5-67451113-4	chr5	67450980	67451180	+	876.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-12818.0	NR_110363	320479.0	Mm.387187	NR_015582	ENSMUSG00000107385	C330024D21Rik	-	RIKEN cDNA C330024D21 gene	ncRNA	10.5	16.0	13.0	195.0	17.5	11.0	19.5	17.5
Merged-chr15-12668010-3	chr15	12667900	12668100	+	697.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75444.0	NM_001081064	68070.0	Mm.423205	NM_001081064	ENSMUSG00000022197	Pdzd2	4930537L06Rik|A930022H17Rik|Gm21706|Gm82|Pdzk3|mKIAA0300	PDZ domain containing 2	protein-coding	8.5	5.5	11.5	66.5	11.5	1.5	2.0	8.0
Merged-chr9-90043069-4	chr9	90042955	90043155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E2|LTR|ERVL-MaLR	-11212.0	NM_007801	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	86.5	148.0	83.0	1182.5	309.5	132.5	197.0	129.0
Merged-chr17-34072269-4	chr17	34072171	34072371	+	971.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-20108.0	NM_008206	15001.0	Mm.116	NM_008206	ENSMUSG00000024334	H2-Oa	H-2Oa	histocompatibility 2, O region alpha locus	protein-coding	1.0	11.0	20.5	133.0	104.5	36.0	55.0	46.5
Merged-chr14-22102559-4	chr14	22102449	22102649	+	788.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 2 of 6)	BLACKJACK|DNA|hAT-Blackjack	82837.0	NM_028275	76633.0	Mm.489898	NM_028275	ENSMUSG00000063458	Lrmda	1700112E06Rik|2700009F18Rik	leucine rich melanocyte differentiation associated	protein-coding	2.5	9.5	13.5	295.0	10.0	8.5	10.5	10.0
Merged-chr6-53462099-4	chr6	53462047	53462247	+	881.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-111227.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	12.5	14.5	25.0	497.0	24.0	9.5	11.5	8.5
Merged-chr13-76018225-2	chr13	76018125	76018325	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_178916, exon 1 of 4)	5' UTR (NM_178916, exon 1 of 4)	337.0	NM_178916	218341.0	Mm.266515	NM_178916	ENSMUSG00000043190	Rfesd	AI256775|D030068K09	Rieske (Fe-S) domain containing	protein-coding	20.0	29.5	37.5	346.0	73.5	28.5	26.5	33.0
Merged-chr13-66907118-3	chr13	66907011	66907211	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177750, intron 1 of 2)	intron (NM_001177750, intron 1 of 2)	1696.0	NM_001177750	100038538.0	Mm.405005	NM_001177750	ENSMUSG00000074826	Gm10767	-	predicted gene 10767	protein-coding	0.0	1.0	3.0	14.5	108.0	52.5	39.5	45.0
Merged-chr14-27429485-4	chr14	27429364	27429564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028945, intron 1 of 23)	CpG	630.0	NM_001114879	218850.0	Mm.247767	NM_028945	ENSMUSG00000040651	Fam208a	4732418E12|4933409E02Rik|D14Abb1e|MommeD6	family with sequence similarity 208, member A	protein-coding	43.5	46.5	65.0	948.0	147.0	40.0	76.0	57.0
Merged-chr9-25253070-4	chr9	25252989	25253189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359738, exon 1 of 13)	5' UTR (NM_001359738, exon 1 of 13)	197.0	NM_001359738	235072.0	Mm.270259	NM_009859	ENSMUSG00000001833	Sept7	Cdc10|E430034N22	septin 7	protein-coding	16.0	35.0	35.0	259.0	63.5	20.0	25.5	29.0
Merged-chr19-41092095-4	chr19	41091983	41092183	+	933.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011904, intron 17 of 20)	intron (NM_011904, intron 17 of 20)	-14970.0	NM_153520	226115.0	Mm.54119	NM_153520	ENSMUSG00000050121	Opalin	Tmem10|Tmp10	oligodendrocytic myelin paranodal and inner loop protein	protein-coding	9.5	8.0	7.5	276.5	34.0	7.5	16.0	8.5
Merged-chr12-81971976-4	chr12	81971873	81972073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018814, intron 20 of 35)	intron (NM_018814, intron 20 of 35)	111943.0	NM_018814	54604.0	Mm.86584	NM_018814	ENSMUSG00000021140	Pcnx	2900024E21Rik|3526401J03Rik|AF096286|AI327143|AI413187|Pcnx1|Pcnxl1	pecanex homolog	protein-coding	92.0	110.5	89.0	1657.5	175.0	66.5	81.5	77.5
Merged-chr12-85570028-4	chr12	85569960	85570160	+	885.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29045.0	NM_001205052	81703.0	Mm.103560	NM_030887	ENSMUSG00000034271	Jdp2	Jundm2|Jundp2|TIF	Jun dimerization protein 2	protein-coding	16.0	14.0	17.5	264.0	29.5	14.5	9.5	13.5
Merged-chr19-53157389-2	chr19	53157289	53157489	+	796.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_013758, intron 1 of 15)	intron (NM_013758, intron 1 of 15)	13392.0	NM_013758	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	6.5	7.5	4.5	202.5	9.5	5.5	4.0	10.5
Merged-chr2-31460356-6	chr2	31460232	31460432	+	733.222229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9938.0	NM_007494	11898.0	Mm.3217	NM_007494	ENSMUSG00000076441	Ass1	AA408052|ASS|Ass-1|fold	argininosuccinate synthetase 1	protein-coding	5.5	4.5	4.0	66.0	16.0	5.0	7.0	14.0
Merged-chr12-85519748-4	chr12	85519653	85519853	+	986.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45863.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	35.5	32.0	39.0	377.5	59.5	31.5	22.5	17.0
Merged-chr19-46869683-4	chr19	46869588	46869788	+	982.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102471, intron 5 of 6)	intron (NM_001102471, intron 5 of 6)	92663.0	NM_029810	76952.0	Mm.40965	NM_029810	ENSMUSG00000025041	Nt5c2	2010002I23Rik|CnII|Gm9751|Gmp|Nt5b|Pnt5|cN-II	5'-nucleotidase, cytosolic II	protein-coding	32.0	28.0	11.0	430.5	64.5	23.0	20.0	26.5
Merged-chr4-55816017-4	chr4	55815923	55816123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-283548.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	66.5	80.0	67.0	708.5	136.5	64.5	52.5	62.5
Merged-chr2-170221129-4	chr2	170221034	170221234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78459.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	28.0	25.5	25.0	411.5	80.0	31.5	42.5	30.5
Merged-chr8-119792037-4	chr8	119791937	119792137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13621.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	66.5	68.5	75.5	1392.5	127.5	39.0	72.0	72.5
Merged-chr13-115101890-4	chr13	115101734	115101934	+	978.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033228, exon 1 of 29)	5' UTR (NM_001033228, exon 1 of 29)	130.0	NM_001033228	109700.0	Mm.317280	NM_001033228	ENSMUSG00000042284	Itga1	CD49A|E130012M19Rik|Vla1	integrin alpha 1	protein-coding	14.5	4.5	24.0	187.0	31.0	19.0	5.0	14.0
Merged-chr3-136756265-4	chr3	136756151	136756351	+	904.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	86185.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	17.0	27.0	9.0	100.0	50.0	16.5	11.5	6.0
Merged-chr16-94007378-4	chr16	94007257	94007457	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019500, intron 1 of 2)	intron (NM_019500, intron 1 of 2)	1480.0	NM_019500	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	16.5	6.5	20.5	174.0	13.0	7.5	11.5	12.5
Merged-chr17-35736620-3	chr17	35736490	35736690	+	989.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-31991.0	NM_007584	12305.0	Mm.5021	NM_007584	ENSMUSG00000003534	Ddr1	6030432F18|AI323681|CD167a|Cak|Nep|PTK3A	discoidin domain receptor family, member 1	protein-coding	0.0	0.0	0.0	0.0	50.0	14.0	18.5	19.0
Merged-chr18-32162943-4	chr18	32162842	32163042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011946)	promoter-TSS (NM_011946)	-147.0	NM_011946	26405.0	Mm.211762	NM_011946	ENSMUSG00000024383	Map3k2	9630061B06Rik|AI585793|Mekk2|Mekk2b	mitogen-activated protein kinase kinase kinase 2	protein-coding	331.5	562.5	277.5	5411.0	722.5	321.5	372.5	321.0
Merged-chr13-98812439-4	chr13	98812349	98812549	+	941.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 1 of 25)	L1MB7|LINE|L1	3000.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	11.0	16.0	9.5	292.5	35.5	23.0	23.0	23.5
Merged-chr13-100601302-7	chr13	100601220	100601420	+	925.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038602, intron 3 of 6)	intron (NM_001038602, intron 3 of 6)	15624.0	NM_178410	218518.0	Mm.25300	NM_178410	ENSMUSG00000021636	Marveld2	BC003296|MARVD2|Mrvldc2|Tric|Trica|Tricb|Tricc	MARVEL (membrane-associating) domain containing 2	protein-coding	16.5	27.0	21.5	395.5	43.0	8.0	14.5	32.0
Merged-chr1-85687597-2	chr1	85687490	85687690	+	843.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_013673, intron 11 of 19)	intron (NM_013673, intron 11 of 19)	37602.0	NM_001313714	20684.0	Mm.290906	NM_013673	ENSMUSG00000026222	Sp100	A430075G10Rik	nuclear antigen Sp100	protein-coding	12.0	8.5	4.5	68.5	17.0	4.0	8.5	4.5
Merged-chr2-168120924-2	chr2	168120824	168121024	+	675.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33589.0	NR_040327	77017.0	Mm.407822	NR_040327	ENSMUSG00000087648	E130018N17Rik	-	RIKEN cDNA E130018N17 gene	ncRNA	4.0	7.0	5.0	28.0	19.5	5.5	7.5	4.5
Merged-chr11-80176914-3	chr11	80176816	80177016	+	946.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 9 of 10)	intron (NM_172133, intron 9 of 10)	-6956.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	18.5	14.5	11.5	150.0	9.0	13.0	11.5	10.5
Merged-chr6-124834699-4	chr6	124834554	124834754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013538)	TTS (NM_013538)	4478.0	NM_013538	14793.0	Mm.285723	NM_013538	ENSMUSG00000023505	Cdca3	2410005A12Rik|C8|Grcc8|Tome-1	cell division cycle associated 3	protein-coding	94.0	101.0	111.0	1666.5	208.0	78.5	120.0	109.5
Merged-chr17-33951483-4	chr17	33951341	33951541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019420)	promoter-TSS (NM_019420)	47.0	NM_019420	54218.0	Mm.11132	NM_019420	ENSMUSG00000067370	B3galt4	Gal-T2|Galt2	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4	protein-coding	59.5	74.5	67.0	841.0	67.0	35.0	36.5	43.5
Merged-chr5-31049481-4	chr5	31049343	31049543	+	855.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177621)	promoter-TSS (NM_001177621)	-519.0	NM_001177622	330064.0	Mm.205463	NM_177870	ENSMUSG00000006641	Slc5a6	E430023I20	solute carrier family 5 (sodium-dependent vitamin transporter), member 6	protein-coding	15.0	13.0	11.0	112.5	15.0	11.5	7.0	9.0
Merged-chr17-10856867-3	chr17	10856753	10856953	+	644.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	16494.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	5.0	9.5	10.0	90.0	16.0	5.5	8.0	3.5
Merged-chr1-178449294-4	chr1	178449141	178449341	+	942.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026626, intron 2 of 6)	intron (NM_026626, intron 2 of 6)	43223.0	NM_026626	68226.0	Mm.252132	NM_026626	ENSMUSG00000026495	Efcab2	1700073K01Rik|D830011E08Rik	EF-hand calcium binding domain 2	protein-coding	3.0	5.0	7.5	10.5	15.5	11.5	10.5	7.5
Merged-chr15-73423903-4	chr15	73423801	73424001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358045)	promoter-TSS (NM_001358045)	-710.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	44.5	79.0	48.5	774.5	118.5	68.0	53.0	58.0
Merged-chr1-138982450-4	chr1	138982346	138982546	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181347, intron 1 of 20)	intron (NM_181347, intron 1 of 20)	4789.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	47.0	56.0	29.0	731.5	116.0	48.5	48.0	42.5
Merged-chr2-70877906-4	chr2	70877816	70878016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52436.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	25.5	38.5	34.5	620.0	43.5	27.0	41.0	30.5
Merged-chr10-81133864-3	chr10	81133757	81133957	+	901.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	-2414.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	4.0	4.0	4.0	10.0	23.0	6.0	8.0	10.5
Merged-chr4-66828868-4	chr4	66828778	66828978	+	986.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021297, intron 1 of 2)	intron (NM_021297, intron 1 of 2)	1327.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	33.0	29.5	27.0	362.0	82.5	33.0	50.0	26.0
Merged-chr1-60409571-4	chr1	60409474	60409674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198571)	promoter-TSS (NM_001198571)	-45.0	NM_001198571	329165.0	Mm.212066	NM_198127	ENSMUSG00000026782	Abi2	8430425M24Rik|AI839867|C130078H13	abl-interactor 2	protein-coding	39.5	66.5	64.0	591.5	97.5	50.5	57.5	59.5
Merged-chr17-31075643-4	chr17	31075538	31075738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	17944.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	158.0	316.5	211.0	2206.5	215.0	64.5	87.5	97.5
Merged-chr16-78198924-4	chr16	78198802	78199002	+	962.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER119|DNA|hAT-Charlie	56552.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	21.0	36.0	13.0	377.0	42.0	7.5	13.0	29.0
Merged-chr3-88102910-4	chr3	88102799	88102999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033484, intron 19 of 37)	intron (NM_001033484, intron 19 of 37)	20848.0	NM_001033484	404710.0	Mm.331133	NM_001033484	ENSMUSG00000028068	Iqgap3	AI593484|D030034H08	IQ motif containing GTPase activating protein 3	protein-coding	103.5	99.0	96.0	1844.0	144.5	60.5	75.0	112.0
Merged-chr11-98777028-4	chr11	98776919	98777119	+	810.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1642.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	9.0	15.0	5.5	77.0	23.5	11.5	13.0	9.0
Merged-chr15-88732570-4	chr15	88732480	88732680	+	928.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033274, intron 1 of 12)	intron (NM_001033274, intron 1 of 12)	1639.0	NM_001033274	223770.0	Mm.254438	NM_001033274	ENSMUSG00000022387	Brd1	1110059H06Rik|AI316859|mKIAA4191	bromodomain containing 1	protein-coding	13.0	15.0	9.5	200.0	43.0	16.0	18.0	17.5
Merged-chr7-88315089-1	chr7	88314989	88315189	+	1000.0	f0_balb.idr	3' UTR (NM_009982, exon 7 of 7)	3' UTR (NM_009982, exon 7 of 7)	37004.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	6.5	16.0	5.5	194.5	5.0	9.5	3.5	3.0
Merged-chr6-94500330-4	chr6	94500216	94500416	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026255)	promoter-TSS (NM_026255)	2.0	NM_026255	67582.0	Mm.280725	NM_026255	ENSMUSG00000045100	Slc25a26	4930433D19Rik|4933433F13Rik|AW557176|D6Bwg0781e|Slc25a6	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 26	protein-coding	61.5	62.0	33.5	810.5	122.5	55.0	73.0	100.5
Merged-chr10-120231889-4	chr10	120231781	120231981	+	946.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025431, exon 3 of 3)	3' UTR (NM_025431, exon 3 of 3)	4821.0	NM_025431	66225.0	Mm.291755	NM_025431	ENSMUSG00000020224	Llph	1190005P17Rik	LLP homolog, long-term synaptic facilitation (Aplysia)	protein-coding	7.5	18.5	15.5	163.5	26.5	10.0	14.5	10.5
Merged-chr10-69250565-3	chr10	69250466	69250666	+	615.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252637, intron 4 of 10)	intron (NM_001252637, intron 4 of 10)	37372.0	NM_001252638	69288.0	Mm.26659	NM_001081347	ENSMUSG00000019944	Rhobtb1	1700008H16Rik|3110048G13Rik|AI173445|AI573858|AV350930	Rho-related BTB domain containing 1	protein-coding	4.5	9.0	4.0	51.5	49.5	10.0	7.5	6.5
Merged-chr12-105963270-3	chr12	105963206	105963406	+	736.0	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-46957.0	NM_011705	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	3.0	10.5	10.0	100.0	31.0	7.5	15.5	9.5
Merged-chr4-141300399-3	chr4	141300283	141300483	+	893.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010139)	promoter-TSS (NM_010139)	-838.0	NM_010139	13836.0	Mm.2581	NM_010139	ENSMUSG00000006445	Epha2	AW545284|Eck|Myk2|Sek-2|Sek2	Eph receptor A2	protein-coding	7.0	19.0	18.0	220.0	26.0	5.5	4.5	6.0
Merged-chr13-45372406-2	chr13	45372291	45372491	+	603.833374	f0_balb.idr|f1_c57bl6.idr	Intergenic	ORR1G|LTR|ERVL-MaLR	-17351.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	12.0	15.5	6.0	87.5	5.5	2.0	3.0	0.0
Merged-chr13-49421178-4	chr13	49421093	49421293	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199056)	promoter-TSS (NM_199056)	-30.0	NR_075085	75678.0	Mm.390586	NM_199056	ENSMUSG00000021385	Ippk	1810043M15Rik|InsP6	inositol 1,3,4,5,6-pentakisphosphate 2-kinase	protein-coding	136.5	191.5	92.5	2070.0	304.5	117.5	127.0	86.5
Merged-chr7-91506837-3	chr7	91506751	91506951	+	909.2666630000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011807, intron 2 of 22)	intron (NM_011807, intron 2 of 22)	416065.0	NM_011807	23859.0	Mm.147213	NM_011807	ENSMUSG00000052572	Dlg2	A330103J02Rik|B230218P12Rik|B330007M19Rik|Dlgh2|Gm1197|Gm21505|PSD93	discs large MAGUK scaffold protein 2	protein-coding	28.5	22.0	26.5	533.5	5.0	0.5	1.0	4.0
Merged-chr7-116457177-4	chr7	116457087	116457287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L4_A_Mam|LINE|RTE-X	-13729.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	96.0	142.5	95.0	1402.5	268.0	90.5	54.5	97.0
Merged-chr9-16319182-4	chr9	16319080	16319280	+	792.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080814, intron 1 of 24)	intron (NM_001080814, intron 1 of 24)	59051.0	NM_001080814	270120.0	Mm.195010	NM_001080814	ENSMUSG00000074505	Fat3	9430076A06Rik|D430038H04Rik|Gm1132|Gm510|MFAT3F	FAT atypical cadherin 3	protein-coding	7.5	3.0	1.5	117.0	30.5	7.0	10.5	9.5
Merged-chr2-169928777-7	chr2	169928678	169928878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34409.0	NR_131974	446211.0	Mm.266854	NR_131974	ENSMUSG00000103935	AY702102	STDP1	cDNA sequence AY702102	ncRNA	30.0	33.5	37.0	269.5	88.0	35.0	37.5	34.0
Merged-chr9-53703212-4	chr9	53703121	53703321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	PB1D10|SINE|Alu	3011.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	24.5	47.5	20.5	470.0	69.0	18.5	31.0	35.5
Merged-chr2-153139616-2	chr2	153139516	153139716	+	656.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 10 of 12)	(A)n|Simple_repeat|Simple_repeat	-21685.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	1.5	1.0	0.0	59.0	17.0	5.0	8.0	7.0
Merged-chr5-149051865-8	chr5	149051697	149051897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313894)	promoter-TSS (NM_001313894)	-181.0	NM_001313894	15289.0	Mm.207047	NM_010439	ENSMUSG00000066551	Hmgb1	HMG-1|Hmg1|SBP-1|p30	high mobility group box 1	protein-coding	37.5	47.0	48.5	510.0	112.0	53.0	42.0	49.5
Merged-chr6-70792206-4	chr6	70792113	70792313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009075)	promoter-TSS (NM_009075)	-38.0	NM_009075	19895.0	Mm.17905	NM_009075	ENSMUSG00000053604	Rpia	RPI	ribose 5-phosphate isomerase A	protein-coding	303.5	487.0	323.0	5114.5	705.5	280.0	360.5	307.5
Merged-chr5-64677177-4	chr5	64677077	64677277	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66478.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	55.5	80.5	39.5	655.0	82.0	40.0	44.5	51.0
Merged-chr2-52917032-3	chr2	52916939	52917139	+	589.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172409, intron 1 of 26)	MTC|LTR|ERVL-MaLR	59171.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	2.5	24.5	4.0	90.0	25.5	5.5	7.0	6.0
Merged-chr15-44427515-4	chr15	44427425	44427625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175009)	promoter-TSS (NM_175009)	-586.0	NM_175009	223527.0	Mm.291828	NM_175009	ENSMUSG00000022338	Eny2	1810057B09Rik|6720481I12|DC6|Ey2	ENY2 transcription and export complex 2 subunit	protein-coding	40.5	56.5	59.5	685.0	97.5	36.5	40.0	33.5
Merged-chr17-57096281-4	chr17	57096170	57096370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033508, intron 3 of 3)	intron (NR_033508, intron 3 of 3)	-8488.0	NM_009451	22153.0	Mm.7420	NM_009451	ENSMUSG00000062591	Tubb4a	AI325297|M(beta)4|Tubb|Tubb4	tubulin, beta 4A class IVA	protein-coding	92.0	152.5	56.0	868.0	231.5	81.5	76.5	60.5
Merged-chr7-28716783-4	chr7	28716655	28716855	+	890.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015796)	promoter-TSS (NM_015796)	-27.0	NM_001310687	50760.0	Mm.358659	NM_015796	ENSMUSG00000030598	Fbxo17	Fbg4|Fbx17|Fbxo26	F-box protein 17	protein-coding	51.5	58.0	45.5	666.0	23.5	19.5	9.5	8.0
Merged-chr8-107576865-4	chr8	107576750	107576950	+	715.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11632.0	NM_010817	17463.0	Mm.18347	NM_010817	ENSMUSG00000039067	Psmd7	AW107203|Mov-34|Mov34	proteasome (prosome, macropain) 26S subunit, non-ATPase, 7	protein-coding	4.0	9.5	6.0	183.0	17.0	8.0	7.0	6.0
Merged-chr7-116371751-4	chr7	116371651	116371851	+	808.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011083, intron 13 of 32)	intron (NM_011083, intron 13 of 32)	-37561.0	NM_026533	68052.0	Mm.14798	NM_026533	ENSMUSG00000090862	Rps13	2700063M04Rik	ribosomal protein S13	protein-coding	11.0	13.0	6.5	184.5	34.5	8.5	12.5	12.5
Merged-chr17-17583509-4	chr17	17583409	17583609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172827, intron 1 of 17)	ORR1E|LTR|ERVL-MaLR	40980.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	27.5	18.5	18.0	363.0	73.0	18.5	36.5	22.0
Merged-chr12-17689184-2	chr12	17689084	17689284	+	787.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-1625.0	NM_001361645	53602.0	Mm.313619	NM_016677	ENSMUSG00000071379	Hpcal1	NVL-3|NVP-3|Nvp3|VILIP3|Vnsl3|Vsnl3	hippocalcin-like 1	protein-coding	2.5	2.0	5.0	93.5	28.0	5.0	5.5	11.5
Merged-chr12-112688551-4	chr12	112688494	112688694	+	970.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9754.0	NM_001100460	382639.0	Mm.11350	NM_001100460	ENSMUSG00000037638	Zbtb42	EG382639|Gm5188|simiRP58	zinc finger and BTB domain containing 42	protein-coding	26.0	39.5	27.0	412.5	42.5	8.5	21.5	21.0
Merged-chr17-73970557-4	chr17	73970477	73970677	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20381.0	NM_011723	22436.0	Mm.11223	NM_011723	ENSMUSG00000024066	Xdh	XO|Xor|Xox-1|Xox1	xanthine dehydrogenase	protein-coding	65.0	65.0	72.0	1407.0	111.0	41.5	81.5	73.5
Merged-chr6-129088752-4	chr6	129088647	129088847	+	977.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	12156.0	NM_153506	232409.0	Mm.30870	NM_153506	ENSMUSG00000030155	Clec2e	Clra|clr-a	C-type lectin domain family 2, member e	protein-coding	45.0	43.0	37.5	245.0	60.5	25.5	20.5	22.0
Merged-chr1-92972188-4	chr1	92972100	92972300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001104529)	promoter-TSS (NM_001104529)	-919.0	NM_001104529	64095.0	Mm.152780	NM_022320	ENSMUSG00000026271	Gpr35	KPG_007	G protein-coupled receptor 35	protein-coding	212.0	166.0	270.5	3905.5	362.0	118.5	215.0	179.0
Merged-chr7-101608061-4	chr7	101607990	101608190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26929.0	NM_019915	11872.0	Mm.57008	NM_019915	ENSMUSG00000030651	Art2b	ART2.2|ARTC2|Art|Ly92b|Rt-6|Rt6|Rt6-2	ADP-ribosyltransferase 2b	protein-coding	166.0	276.0	157.5	2382.0	395.0	131.0	130.0	138.5
Merged-chr6-142508025-4	chr6	142507951	142508151	+	975.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302765)	promoter-TSS (NM_001302765)	-94.0	NM_001316322	16832.0	Mm.9745	NM_008492	ENSMUSG00000030246	Ldhb	AI790582|H-Ldh|LDH-B|LDH-H|Ldh-2|Ldh2	lactate dehydrogenase B	protein-coding	13.5	54.0	45.5	661.0	30.5	12.5	16.0	15.0
Merged-chr18-43509148-4	chr18	43509034	43509234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70848.0	NM_001291455	22240.0	Mm.8180	NM_009468	ENSMUSG00000024501	Dpysl3	CRMP-4|DRP-3|TUC4|ULIP-1|Ulip|Ulip1	dihydropyrimidinase-like 3	protein-coding	132.0	167.5	149.5	1933.5	277.5	125.0	141.0	89.0
Merged-chr10-79824577-4	chr10	79824458	79824658	+	927.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030218, intron 1 of 4)	intron (NM_030218, intron 1 of 4)	3537.0	NM_030218	78906.0	Mm.33087	NM_030218	ENSMUSG00000035852	Misp	9130017N09Rik	mitotic spindle positioning	protein-coding	20.0	16.5	6.0	191.0	38.5	10.0	18.5	12.0
Merged-chr11-60953955-4	chr11	60953852	60954052	+	907.2374880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21895.0	NM_008928	26397.0	Mm.18494	NM_008928	ENSMUSG00000018932	Map2k3	AW212142|MEK3|MKK3|Prkmk3|mMKK3b	mitogen-activated protein kinase kinase 3	protein-coding	29.5	27.5	9.5	275.0	64.5	21.0	18.0	22.5
Merged-chr1-34831353-4	chr1	34831265	34831465	+	870.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160236, intron 2 of 6)	intron (NM_001160236, intron 2 of 6)	11685.0	NM_174997	214469.0	Mm.120151	NM_174997	ENSMUSG00000037503	Fam168b	Mani|mKIAA4042	family with sequence similarity 168, member B	protein-coding	22.0	17.5	14.5	530.0	20.0	9.5	15.5	25.0
Merged-chr6-116014334-4	chr6	116014236	116014436	+	791.69165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19331.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	9.0	22.5	15.0	147.5	24.5	4.0	9.5	16.5
Merged-chr7-101971259-5	chr7	101971217	101971417	+	918.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133947, intron 1 of 24)	intron (NM_133947, intron 1 of 24)	1474.0	NM_133947	101706.0	Mm.27259	NM_133947	ENSMUSG00000066306	Numa1	6720401E04Rik|AA764025|AL022610|AU014979|NuMA	nuclear mitotic apparatus protein 1	protein-coding	14.0	10.0	8.5	186.5	47.0	6.0	12.5	17.0
Merged-chr5-141018474-4	chr5	141018369	141018569	+	950.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17873.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	12.0	17.5	12.0	188.0	26.0	8.0	8.5	15.0
Merged-chr8-116504938-4	chr8	116504848	116505048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029297)	promoter-TSS (NM_029297)	-67.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	41.5	35.5	14.0	653.5	170.5	32.0	67.0	52.0
Merged-chr11-117824147-2	chr11	117824047	117824247	+	991.1666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_001271729, intron 2 of 5)	intron (NM_001271729, intron 2 of 5)	-1772.0	NM_027827	71562.0	Mm.273958	NM_027827	ENSMUSG00000017718	Afmid	9030621K19Rik|Ammd|FKF|KFA|Kf|formylase	arylformamidase	protein-coding	6.5	4.5	6.5	48.5	11.5	6.5	8.5	6.0
Merged-chr5-32168664-4	chr5	32168576	32168776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32204.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	43.0	97.0	30.0	309.0	138.0	70.5	31.5	32.0
Merged-chr2-45693869-3	chr2	45693775	45693975	+	998.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2730.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	17.0	29.5	21.0	330.5	19.5	2.0	10.0	7.0
Merged-chr5-139832284-3	chr5	139832178	139832378	+	763.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5384.0	NM_025604	66506.0	Mm.29070	NM_025604	ENSMUSG00000029551	Psmg3	1810042K04Rik|4930403H09Rik|AI303239	proteasome (prosome, macropain) assembly chaperone 3	protein-coding	7.0	11.0	12.0	116.0	10.5	1.5	10.0	5.5
Merged-chr11-106702761-4	chr11	106702650	106702850	+	754.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 2 of 14)	intron (NM_001305158, intron 2 of 14)	12531.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	4.0	16.0	0.5	94.5	27.5	10.5	13.5	6.5
Merged-chr5-114444166-4	chr5	114444061	114444261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023556)	promoter-TSS (NM_023556)	-108.0	NM_001306205	17855.0	Mm.28088	NM_023556	ENSMUSG00000041939	Mvk	2310010A05Rik|AI256848|AI414037|MK	mevalonate kinase	protein-coding	211.5	346.5	152.5	2795.0	584.5	208.0	269.0	174.5
Merged-chr11-4260665-4	chr11	4260592	4260792	+	992.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008501, intron 1 of 3)	intron (NM_008501, intron 1 of 3)	3124.0	NM_008501	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	59.5	117.5	44.5	538.5	103.0	49.0	18.0	18.0
Merged-chr2-154569229-4	chr2	154569125	154569325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001291105, exon 1 of 7)	5' UTR (NM_001291105, exon 1 of 7)	201.0	NM_001291105	13555.0	Mm.18036	NM_007891	ENSMUSG00000027490	E2f1	E2F-1|Tg(Wnt1-cre)2Sor|mKIAA4009	E2F transcription factor 1	protein-coding	30.5	46.5	37.5	514.0	116.0	56.5	57.5	66.0
Merged-chr17-34364839-4	chr17	34364749	34364949	+	960.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_079835, intron 6 of 8)	intron (NM_079835, intron 6 of 8)	10027.0	NM_079835	547431.0	Mm.441007	NM_079835	ENSMUSG00000024340	Btnl2	BTL-II|BTLN2|Btl2|Gm315|NG9	butyrophilin-like 2	protein-coding	13.5	23.5	14.5	245.0	63.0	21.0	24.5	22.5
Merged-chr17-67194323-4	chr17	67194243	67194443	+	958.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	160116.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	22.0	53.0	28.5	417.0	40.0	11.5	10.5	12.0
Merged-chr6-99401445-3	chr6	99401344	99401544	+	980.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053202, intron 1 of 18)	intron (NM_053202, intron 1 of 18)	33901.0	NM_053202	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	0.0	2.5	9.0	153.0	17.5	4.5	8.5	6.5
Merged-chr9-100439574-3	chr9	100439479	100439679	+	865.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46894.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	9.5	4.5	4.5	91.5	14.5	3.5	4.0	9.0
Merged-chr11-116671285-2	chr11	116671185	116671385	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027819)	promoter-TSS (NR_027819)	-375.0	NR_027821	66293.0	Mm.432051	NM_025472	ENSMUSG00000020812	1810032O08Rik	-	RIKEN cDNA 1810032O08 gene	ncRNA	34.5	41.0	16.5	244.5	76.0	33.0	16.0	36.0
Merged-chr17-10824769-4	chr17	10824677	10824877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027032, intron 1 of 4)	intron (NM_027032, intron 1 of 4)	15414.0	NM_027032	69310.0	Mm.18889	NM_027032	ENSMUSG00000037196	Pacrg	1700008H23Rik	PARK2 co-regulated	protein-coding	36.0	37.0	29.0	693.0	38.0	14.0	29.0	31.5
Merged-chr7-4498400-4	chr7	4498300	4498500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029834, intron 1 of 21)	intron (NM_029834, intron 1 of 21)	3280.0	NM_029834	232807.0	Mm.360391	NM_029834	ENSMUSG00000019254	Ppp1r12c	2410197A17Rik|AI839747|B430101M08|Mbs85	protein phosphatase 1, regulatory (inhibitor) subunit 12C	protein-coding	38.0	76.5	56.0	656.0	114.0	46.0	71.5	48.5
Merged-chr5-122061100-3	chr5	122060985	122061185	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11234.0	NM_001312908	13048.0	Mm.156172	NM_007804	ENSMUSG00000042589	Cux2	1700051K22Rik|Cutl2|Cux-2	cut-like homeobox 2	protein-coding	6.5	12.0	7.5	108.0	18.0	4.0	8.5	5.0
Merged-chr13-44869625-4	chr13	44869519	44869719	+	990.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205043, intron 3 of 17)	LSU-rRNA_Hsa|rRNA|rRNA	132477.0	NM_025772	94245.0	Mm.352311	NM_025772	ENSMUSG00000057531	Dtnbp1	5430437B18Rik|AW048963|Bloc1s8|dysbindin|sdy	dystrobrevin binding protein 1	protein-coding	23.0	36.0	25.0	126.5	69.0	22.0	18.5	56.5
Merged-chr14-34747193-4	chr14	34747097	34747297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001301330, exon 19 of 19)	3' UTR (NM_001301330, exon 19 of 19)	-72939.0	NM_008166	14803.0	Mm.121569	NM_008166	ENSMUSG00000041078	Grid1	GluD1|GluRdelta1	glutamate receptor, ionotropic, delta 1	protein-coding	34.0	51.0	44.5	873.5	81.0	32.0	47.5	33.5
Merged-chr8-94227486-4	chr8	94227392	94227592	+	882.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172410, intron 2 of 22)	intron (NM_172410, intron 2 of 22)	12928.0	NM_172410	71805.0	Mm.458170	NM_172410	ENSMUSG00000032939	Nup93	2410008G02Rik	nucleoporin 93	protein-coding	13.5	8.5	7.5	182.0	25.0	6.5	9.5	12.5
Merged-chr4-32249127-4	chr4	32249039	32249239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-168296.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	48.5	52.0	66.0	1087.5	73.5	21.0	27.0	25.0
Merged-chr6-146578768-4	chr6	146578661	146578861	+	925.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138757)	promoter-TSS (NM_138757)	850.0	NM_026218	67529.0	Mm.333499	NM_026218	ENSMUSG00000040242	Fgfr1op2	1500031J01Rik	FGFR1 oncogene partner 2	protein-coding	6.0	23.0	8.5	125.5	36.0	4.5	11.0	30.5
Merged-chr5-100635902-4	chr5	100635820	100636020	+	798.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38336.0	NM_027978	71883.0	Mm.260661	NM_027978	ENSMUSG00000029319	Coq2	2310002F18Rik|PHB:PPT	coenzyme Q2 4-hydroxybenzoate polyprenyltransferase	protein-coding	4.0	8.5	6.0	134.5	26.5	6.0	4.5	6.0
Merged-chr2-167886699-4	chr2	167886602	167886802	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45625.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	77.0	91.5	63.5	853.5	169.0	51.5	59.5	58.5
Merged-chr1-178318667-5	chr1	178318557	178318757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025511)	promoter-TSS (NM_025511)	-496.0	NM_025511	66359.0	Mm.489720	NM_025511	ENSMUSG00000026500	Cox20	2310005N03Rik|Fam36a	COX20 Cox2 chaperone	protein-coding	91.0	142.0	121.5	1106.0	190.0	78.0	66.0	70.5
Merged-chr11-76736135-4	chr11	76736018	76736218	+	874.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356321, intron 7 of 8)	intron (NM_001356321, intron 7 of 8)	27460.0	NM_016810	53334.0	Mm.20931	NM_016810	ENSMUSG00000010392	Gosr1	AI414660|AI426320|BB145494|GOS-28|GOSRI|GS28	golgi SNAP receptor complex member 1	protein-coding	18.5	14.5	21.5	381.0	9.0	3.5	9.5	16.5
Merged-chr9-120866899-1	chr9	120866799	120866999	+	1000.0	f0_balb.idr	Intergenic	Intergenic	48351.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	12.0	5.0	5.5	205.0	1.0	0.5	0.5	1.0
Merged-chr17-74808534-4	chr17	74808431	74808631	+	952.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152817, intron 13 of 19)	intron (NM_152817, intron 13 of 19)	90781.0	NM_152817	74196.0	Mm.209503	NM_152817	ENSMUSG00000024078	Ttc27	2610511O17Rik	tetratricopeptide repeat domain 27	protein-coding	8.0	10.5	8.0	247.0	102.0	27.5	50.5	41.0
Merged-chr11-73177110-4	chr11	73177009	73177209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025318)	promoter-TSS (NM_025318)	26.0	NM_029564	76281.0	Mm.371656	NM_029564	ENSMUSG00000040158	Tax1bp3	1300011C24Rik|TIP-1	Tax1 (human T cell leukemia virus type I) binding protein 3	protein-coding	218.5	321.0	186.0	2541.5	506.5	192.5	208.0	191.0
Merged-chr7-16239877-4	chr7	16239760	16239960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176912, intron 1 of 1)	intron (NM_176912, intron 1 of 1)	2471.0	NM_001146005	319430.0	Mm.239570	NM_176912	ENSMUSG00000074361	C5ar2	C5L2|E030029A11Rik|Gpr77	complement component 5a receptor 2	protein-coding	20.0	24.0	24.0	348.5	48.5	15.5	14.0	17.5
Merged-chr11-104361917-3	chr11	104361815	104362015	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 5 of 14)	RLTR19|LTR|ERVK	80376.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	40.5	34.5	31.5	357.5	15.5	5.0	9.0	20.0
Merged-chr11-20477690-4	chr11	20477599	20477799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65554.0	NM_021372	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	60.5	59.0	41.0	776.5	124.5	77.0	75.0	74.0
Merged-chr2-4450060-4	chr2	4449943	4450143	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 2 of 23)	intron (NM_001177843, intron 2 of 23)	49067.0	NM_001177843	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	43.0	78.0	84.0	721.5	174.5	54.0	66.0	54.5
Merged-chr18-54985857-4	chr18	54985778	54985978	+	975.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175751, intron 2 of 9)	intron (NM_175751, intron 2 of 9)	4302.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	57.0	23.0	13.5	386.0	34.5	28.5	30.0	30.5
Merged-chr6-53710829-4	chr6	53710729	53710929	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	109996.0	NM_025817	66873.0	Mm.422727	NM_025817	ENSMUSG00000043496	Tril	1200009O22Rik|AI316813|mKIAA0644	TLR4 interactor with leucine-rich repeats	protein-coding	19.0	54.0	19.5	249.5	101.5	50.5	57.0	47.5
Merged-chr12-86082543-4	chr12	86082454	86082654	+	965.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199843)	promoter-TSS (NM_001199843)	-7.0	NM_029601	76411.0	Mm.292345	NM_029601	ENSMUSG00000007867	Ift43	1700019E19Rik|R75064	intraflagellar transport 43	protein-coding	17.0	22.0	14.5	275.0	61.5	20.5	22.0	13.0
Merged-chr9-94513002-4	chr9	94512887	94513087	+	960.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTA_Mm|LTR|ERVL-MaLR	25094.0	NM_001033145	68861.0	Mm.258746	NM_001033145	ENSMUSG00000045414	1190002N15Rik	GoPro49|HASF	RIKEN cDNA 1190002N15 gene	protein-coding	30.5	39.5	20.5	77.0	34.5	17.5	19.0	9.0
Merged-chr10-80114728-4	chr10	80114623	80114823	+	981.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_038088, intron 1 of 4)	intron (NR_038088, intron 1 of 4)	-1080.0	NM_001301853	20869.0	Mm.44231	NM_011492	ENSMUSG00000003068	Stk11	AA408040|Lkb1|Par-4|R75140	serine/threonine kinase 11	protein-coding	18.5	18.5	16.5	156.5	88.0	26.0	33.5	16.0
Merged-chr9-111035837-4	chr9	111035736	111035936	+	956.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008522, intron 14 of 16)	intron (NM_008522, intron 14 of 16)	16544.0	NM_008522	17002.0	Mm.282359	NM_008522	ENSMUSG00000032496	Ltf	Csp82|Lf|MMS10R|Ms10r	lactotransferrin	protein-coding	28.5	19.0	12.0	238.5	36.5	16.5	20.5	26.0
Merged-chr13-75992876-3	chr13	75992776	75992976	+	999.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029343, intron 3 of 4)	intron (NM_029343, intron 3 of 4)	25137.0	NM_029343	75571.0	Mm.443291	NM_029343	ENSMUSG00000021590	Spata9	1700030K01Rik|4930599C08Rik|A930023H06Rik	spermatogenesis associated 9	protein-coding	1.5	2.5	0.5	75.0	62.5	13.5	23.0	34.5
Merged-chr1-172578274-1	chr1	172578174	172578374	+	916.0	f0_c57.idr	Intergenic	Intergenic	12294.0	NM_029084	74748.0	Mm.179812	NM_029084	ENSMUSG00000053318	Slamf8	5830408F06Rik|Blame|SBBI42	SLAM family member 8	protein-coding	1.5	2.0	0.0	7.0	41.5	12.0	5.0	7.0
Merged-chr1-134955991-4	chr1	134955877	134956077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081307)	promoter-TSS (NM_001081307)	-37.0	NM_001081307	329251.0	Mm.188709	NM_001081307	ENSMUSG00000073557	Ppp1r12b	1810037O03Rik|9530009M10Rik|AI132431|Mypt2	protein phosphatase 1, regulatory (inhibitor) subunit 12B	protein-coding	102.5	178.0	110.0	1748.5	220.5	65.5	123.5	116.0
Merged-chr5-87143314-4	chr5	87143215	87143415	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx4A|LINE|L1	-2975.0	NM_009467	22238.0	Mm.291575	NM_009467	ENSMUSG00000054630	Ugt2b5	AI118071|M-1|Udpgt-3|Udpgt2b5|Ugt2b17	UDP glucuronosyltransferase 2 family, polypeptide B5	protein-coding	9.5	9.0	3.5	168.5	19.0	7.5	16.5	21.5
Merged-chr1-184615522-4	chr1	184615425	184615625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57834.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	27.5	26.0	21.0	376.5	65.0	22.5	27.0	36.0
Merged-chr1-120080886-4	chr1	120080774	120080974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7094.0	NM_019432	170706.0	Mm.24750	NM_019432	ENSMUSG00000050777	Tmem37	AI173373|AW540203|Pr|Pr1	transmembrane protein 37	protein-coding	45.5	72.0	45.5	813.0	146.5	55.0	52.5	59.0
Merged-chr4-49626740-4	chr4	49626607	49626807	+	874.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TCC)n|Simple_repeat|Simple_repeat	-5353.0	NM_001163263	109331.0	Mm.24765	NM_182999	ENSMUSG00000028309	Rnf20	4833430L21Rik|AW540162|C79397|mKIAA4116	ring finger protein 20	protein-coding	7.0	8.0	12.0	193.5	21.5	9.5	7.5	5.0
Merged-chr7-130867440-4	chr7	130867331	130867531	+	899.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133942, intron 1 of 9)	intron (NM_133942, intron 1 of 9)	1707.0	NM_001346515	101476.0	Mm.323554	NM_133942	ENSMUSG00000040268	Plekha1	AA960558|C920009D07Rik|TAPP1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	protein-coding	16.0	16.0	13.0	331.5	32.0	9.0	12.0	12.5
Merged-chr14-47187945-8	chr14	47187819	47188019	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008102, intron 1 of 5)	intron (NM_008102, intron 1 of 5)	1494.0	NM_008102	14528.0	Mm.10651	NM_008102	ENSMUSG00000037580	Gch1	GTP-CH|GTP-CH-I|GTPCH|Gch	GTP cyclohydrolase 1	protein-coding	8.5	7.5	13.5	175.0	39.5	13.0	12.0	23.0
Merged-chr19-34511280-4	chr19	34511201	34511401	+	965.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	16173.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	39.0	33.0	26.0	369.0	33.0	9.5	19.5	18.5
Merged-chr13-24095008-4	chr13	24094916	24095116	+	883.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026825, intron 21 of 37)	MIR|SINE|MIR	-103802.0	NM_145399	214189.0	Mm.255667	NM_145399	ENSMUSG00000021337	Scgn	-	secretagogin, EF-hand calcium binding protein	protein-coding	16.0	27.5	8.5	229.5	44.5	17.0	12.5	12.5
Merged-chr5-66165880-4	chr5	66165762	66165962	+	818.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_040695)	TTS (NR_040695)	-13908.0	NM_001127382	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	6.0	10.0	11.5	90.5	28.5	14.5	16.0	11.0
Merged-chr11-113703892-2	chr11	113703792	113703992	+	934.2999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_029794, intron 3 of 6)	intron (NM_029794, intron 3 of 6)	5634.0	NM_026682	52670.0	Mm.229207	NM_026682	ENSMUSG00000018727	Cpsf4l	0610010C04Rik|1500000C01Rik|D11Ertd636e	cleavage and polyadenylation specific factor 4-like	protein-coding	4.0	4.0	4.5	66.5	9.0	6.5	4.5	6.5
Merged-chr15-93252598-3	chr15	93252480	93252680	+	874.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033275, intron 4 of 7)	intron (NM_001033275, intron 4 of 7)	22599.0	NM_001357006	223827.0	Mm.22819	NM_001033275	ENSMUSG00000036197	Gxylt1	Glt8d3|Gm1228|Gm87	glucoside xylosyltransferase 1	protein-coding	16.5	8.0	10.0	270.5	14.0	2.5	20.0	7.5
Merged-chr2-102189665-1	chr2	102189565	102189765	+	825.333313	f0_balb.idr	Intergenic	Intergenic	-3205.0	NM_001290784	241576.0	Mm.489740	NM_178886	ENSMUSG00000048058	Ldlrad3	6430500P08|AI194318|Lrad3	low density lipoprotein receptor class A domain containing 3	protein-coding	4.0	12.0	9.5	274.0	8.5	7.5	9.0	16.0
Merged-chr9-41105313-4	chr9	41105262	41105462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	-25856.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	23.0	46.5	39.5	647.0	84.0	24.0	51.5	72.5
Merged-chr13-51756775-3	chr13	51756676	51756876	+	860.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281880, intron 2 of 16)	intron (NM_001281880, intron 2 of 16)	36971.0	NM_001281880	20354.0	Mm.33903	NM_013660	ENSMUSG00000021451	Sema4d	CD100|Semacl2|Semaj|Semcl2|coll-4	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	protein-coding	6.0	9.0	26.5	229.0	14.5	2.5	6.5	10.0
Merged-chr9-90206710-4	chr9	90206616	90206816	+	932.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 12 of 12)	intron (NM_194334, intron 12 of 12)	43738.0	NM_001311115	108153.0	Mm.102141	NM_001003911	ENSMUSG00000032363	Adamts7	ADAM-TS7|ADAMTS7B	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 7	protein-coding	9.0	8.0	8.0	287.0	31.0	6.5	27.5	16.0
Merged-chr2-4509963-4	chr2	4509863	4510063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 5 of 23)	intron (NM_001177843, intron 5 of 23)	-49791.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	27.0	34.0	19.5	526.0	67.0	24.5	30.0	36.0
Merged-chr6-84752957-4	chr6	84752850	84753050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177077, intron 19 of 21)	intron (NM_177077, intron 19 of 21)	-159042.0	NM_001177713	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	59.5	56.5	65.0	885.0	121.5	50.5	56.0	74.5
Merged-chr15-73162140-4	chr15	73162042	73162242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 1 of 18)	intron (NM_153178, intron 1 of 18)	22805.0	NM_153178	239528.0	Mm.23095	NM_153178	ENSMUSG00000036698	Ago2	1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|Eif2c2|Gerp95|Gm10365|mKIAA4215	argonaute RISC catalytic subunit 2	protein-coding	49.0	64.0	54.0	427.5	115.0	33.5	58.5	46.0
Merged-chr7-101837899-4	chr7	101837772	101837972	+	987.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122739)	promoter-TSS (NM_001122739)	-48.0	NM_001122739	16332.0	Mm.476000	NM_010567	ENSMUSG00000032737	Inppl1	51C|SHIP2	inositol polyphosphate phosphatase-like 1	protein-coding	32.0	62.0	30.0	522.0	77.0	17.0	16.5	24.0
Merged-chr14-30255943-3	chr14	30255794	30255994	+	800.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 3 of 46)	intron (NM_001083616, intron 3 of 46)	97592.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	4.5	7.0	6.0	37.5	20.5	5.0	1.5	5.5
Merged-chr7-66125601-4	chr7	66125525	66125725	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081163, exon 2 of 3)	exon (NM_001081163, exon 2 of 3)	16110.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	24.0	27.5	17.0	593.5	56.0	16.0	23.0	20.5
Merged-chr10-117724469-3	chr10	117724384	117724584	+	886.75	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-13726.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	3.5	22.5	8.5	59.5	49.5	22.5	16.5	11.0
Merged-chr6-136847990-4	chr6	136847903	136848103	+	846.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026639)	TTS (NM_026639)	9597.0	NM_026639	109978.0	Mm.31840	NM_026639	ENSMUSG00000030217	Art4	4432404K01Rik|ARTC4|DO|DOK1	ADP-ribosyltransferase 4	protein-coding	23.5	17.0	4.0	251.5	33.0	4.5	13.0	13.0
Merged-chr6-33980928-8	chr6	33980844	33981044	+	903.587524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48504.0	NM_028886	74354.0	Mm.127952	NM_028886	ENSMUSG00000056215	Lrguk	4921528H16Rik	leucine-rich repeats and guanylate kinase domain containing	protein-coding	1.5	3.0	7.5	54.5	31.0	8.0	5.0	12.0
Merged-chr2-118546379-4	chr2	118546270	118546470	+	943.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001331221, intron 2 of 3)	intron (NM_001331221, intron 2 of 3)	1229.0	NM_001331221	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	16.0	55.0	5.0	71.0	44.5	26.0	13.0	10.5
Merged-chr2-73512209-4	chr2	73512086	73512286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	17301.0	NM_153138	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	53.0	97.0	77.5	1549.5	147.5	66.5	40.5	63.0
Merged-chr5-72764150-3	chr5	72764079	72764279	+	954.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001113460, exon 14 of 19)	exon (NM_001113460, exon 14 of 19)	-11402.0	NM_001122754	22165.0	Mm.3264	NM_013698	ENSMUSG00000054892	Txk	A130089B16Rik|Btkl|PTK-RL-18|PTK4|Rlk	TXK tyrosine kinase	protein-coding	4.5	4.5	8.5	139.5	18.0	6.0	1.0	6.0
Merged-chr11-109472329-4	chr11	109472277	109472477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028710)	promoter-TSS (NM_028710)	852.0	NM_134038	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	15.0	29.0	33.0	277.0	31.5	20.0	27.0	24.5
Merged-chr7-127016781-4	chr7	127016717	127016917	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001102563)	TTS (NM_001102563)	535.0	NM_030240	67278.0	Mm.345385	NM_030240	ENSMUSG00000107068	Pagr1a	2900092E17Rik|C77040|PA1|PAGR1	PAXIP1 associated glutamate rich protein 1A	protein-coding	28.0	32.0	16.0	271.0	55.0	31.0	25.0	43.0
Merged-chr11-106669911-4	chr11	106669806	106670006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001305158, intron 13 of 14)	intron (NM_001305158, intron 13 of 14)	45375.0	NM_001305158	18613.0	Mm.343951	NM_008816	ENSMUSG00000020717	Pecam1	C85791|Cd31|PECAM-1|Pecam	platelet/endothelial cell adhesion molecule 1	protein-coding	79.5	168.0	80.0	595.5	126.0	46.0	53.0	29.0
Merged-chr13-102895051-4	chr13	102894941	102895141	+	929.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	134786.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	29.5	21.5	13.5	353.5	50.0	20.0	6.5	15.5
Merged-chr18-39666365-3	chr18	39666269	39666469	+	799.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-107128.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	15.0	24.5	23.5	338.0	9.5	2.5	9.5	7.0
Merged-chr5-143270051-4	chr5	143269950	143270150	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017467)	promoter-TSS (NM_017467)	-28.0	NM_017467	54201.0	Mm.6666	NM_017467	ENSMUSG00000046658	Zfp316	Emzf1|Mzf3|Znf316	zinc finger protein 316	protein-coding	17.0	24.0	12.5	198.5	38.5	18.5	12.0	11.0
Merged-chr2-164726140-2	chr2	164726040	164726240	+	885.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10835.0	NM_001040055	641368.0	Mm.422380	NM_001040055	ENSMUSG00000074593	Spint5	Gm14316	serine protease inhibitor, Kunitz type 5	protein-coding	7.5	8.0	4.0	79.0	21.5	5.0	5.5	8.5
Merged-chr6-53045690-4	chr6	53045576	53045776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173406, intron 1 of 4)	intron (NM_173406, intron 1 of 4)	22948.0	NM_173406	231986.0	Mm.386865	NM_173406	ENSMUSG00000063568	Jazf1	AI591476|C820002C15|Jaz1|Tip27	JAZF zinc finger 1	protein-coding	22.5	30.0	32.0	561.5	48.5	17.0	33.5	30.5
Merged-chr1-180434317-4	chr1	180434226	180434426	+	786.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001081227, exon 4 of 4)	3' UTR (NM_001081227, exon 4 of 4)	49178.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	6.0	6.5	5.5	78.0	21.0	10.0	10.5	12.5
Merged-chr17-35865111-4	chr17	35865093	35865293	+	771.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146711)	promoter-TSS (NM_001146711)	-402.0	NM_001146711	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	4.5	5.5	8.5	34.0	8.5	2.5	6.5	0.5
Merged-chr13-24393173-4	chr13	24392923	24393123	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284519, intron 2 of 17)	intron (NM_001284519, intron 2 of 17)	-22099.0	NM_007717	12763.0	Mm.8396	NM_007717	ENSMUSG00000016756	Cmah	-	cytidine monophospho-N-acetylneuraminic acid hydroxylase	protein-coding	4.0	3.0	6.5	39.0	17.5	8.0	12.5	6.5
Merged-chr1-172310224-4	chr1	172310142	172310342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2125.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	36.5	66.0	30.0	223.0	88.5	53.0	35.0	41.0
Merged-chr2-32353339-4	chr2	32353243	32353443	+	979.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_125959)	promoter-TSS (NR_125959)	-14.0	NM_010065	13429.0	Mm.44736	NM_010065	ENSMUSG00000026825	Dnm1	AI838169|Dnm|Ftfl|mKIAA4093	dynamin 1	protein-coding	31.0	47.5	11.0	350.5	95.5	46.0	34.0	33.0
Merged-chr16-10695173-3	chr16	10695073	10695273	+	809.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177562, intron 21 of 22)	intron (NM_177562, intron 21 of 22)	90363.0	NM_009896	12703.0	Mm.130	NM_009896	ENSMUSG00000038037	Socs1	Cish1|Cish7|JAB|SOCS-1|SSI-1	suppressor of cytokine signaling 1	protein-coding	6.0	24.0	14.0	167.5	30.5	4.5	6.0	0.0
Merged-chr6-134225711-4	chr6	134225598	134225798	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 4 of 8)	intron (NM_001303102, intron 4 of 8)	-170631.0	NM_025778	66813.0	Mm.474472	NM_025778	ENSMUSG00000030200	Bcl2l14	4930452K23Rik|4933405K19Rik|9030625M01Rik|AI429211|Bclg	BCL2-like 14 (apoptosis facilitator)	protein-coding	10.5	31.5	7.0	237.0	96.5	13.5	24.5	29.5
Merged-chr5-81156891-4	chr5	81156776	81156976	+	899.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 2 of 27)	intron (NM_198702, intron 2 of 27)	135283.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	6.0	4.0	9.0	128.0	21.5	14.0	23.0	13.0
Merged-chr17-22867220-4	chr17	22867143	22867343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110254)	promoter-TSS (NM_001110254)	-109.0	NM_001110254	240041.0	Mm.328828	NM_177358	ENSMUSG00000059142	Zfp945	A630033E08Rik|C730040L01Rik	zinc finger protein 945	protein-coding	34.0	37.0	30.0	438.0	47.5	17.0	27.0	31.0
Merged-chr4-139296866-3	chr4	139296787	139296987	+	883.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151463, intron 9 of 10)	intron (NR_151463, intron 9 of 10)	13821.0	NR_151463	212555.0	Mm.45131	NM_145384	ENSMUSG00000028744	Pqlc2	BC019216	PQ loop repeat containing 2	protein-coding	9.0	25.5	9.0	49.5	10.5	10.5	8.5	7.5
Merged-chr3-146584221-4	chr3	146584183	146584383	+	939.238098	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019957, intron 6 of 6)	intron (NM_019957, intron 6 of 6)	-12866.0	NM_009474	22262.0	Mm.10865	NM_009474	ENSMUSG00000028186	Uox	AI663847	urate oxidase	protein-coding	13.5	17.0	14.0	222.0	15.5	5.0	13.0	15.5
Merged-chr1-154061515-4	chr1	154061386	154061586	+	998.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mm|SINE|Alu	-139701.0	NM_001204908	100503355.0	Mm.484410	NM_001204908	ENSMUSG00000066797	Zfp648	Gm10178|Gm203	zinc finger protein 648	protein-coding	33.5	54.0	19.0	184.0	55.0	28.5	16.0	25.5
Merged-chr17-24549930-4	chr17	24549810	24550010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013630)	promoter-TSS (NM_013630)	-40.0	NM_013630	18763.0	Mm.30435	NM_013630	ENSMUSG00000032855	Pkd1	PC1|mFLJ00285	polycystin 1, transient receptor poteintial channel interacting	protein-coding	308.0	482.0	233.0	3438.0	607.5	266.0	260.5	221.0
Merged-chr18-46378765-4	chr18	46378666	46378866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66838.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	53.0	55.5	52.0	925.5	88.0	33.0	68.0	52.5
Merged-chr3-107098236-4	chr3	107098124	107098324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3343.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	39.0	94.0	50.0	677.5	144.5	46.5	57.5	40.5
Merged-chr18-70472457-4	chr18	70472355	70472555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289649)	promoter-TSS (NM_001289649)	1.0	NM_029019	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	107.0	183.0	87.5	1577.5	244.5	80.5	124.0	112.5
Merged-chr7-116597118-4	chr7	116597018	116597218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92749.0	NM_001360375	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	31.5	26.5	33.0	628.0	84.0	30.5	41.0	37.5
Merged-chr15-101976168-4	chr15	101976068	101976268	+	997.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21881.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	22.0	58.0	68.0	840.0	71.0	36.5	28.5	22.0
Merged-chr10-23812279-4	chr10	23812223	23812423	+	834.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183116, intron 6 of 13)	intron (NM_183116, intron 6 of 13)	15337.0	NM_001358812	76306.0	Mm.294271	NM_183116	ENSMUSG00000037455	Slc18b1	1110021L09Rik	solute carrier family 18, subfamily B, member 1	protein-coding	9.0	4.5	4.5	108.0	10.0	9.0	14.0	13.5
Merged-chr13-51645667-4	chr13	51645565	51645765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025415, intron 1 of 2)	CpG	433.0	NM_025415	66197.0	Mm.222228	NM_025415	ENSMUSG00000062248	Cks2	1110038L14Rik|CKSHS2	CDC28 protein kinase regulatory subunit 2	protein-coding	32.5	84.5	56.5	357.0	135.0	36.5	37.0	42.5
Merged-chr12-33050553-4	chr12	33050458	33050658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024478, intron 11 of 19)	LTR53B|LTR|ERVL	42317.0	NM_001024478	68764.0	Mm.60083	NM_001024478	ENSMUSG00000035860	Cdhr3	1110049B09Rik|BB172694|Cdh28	cadherin-related family member 3	protein-coding	22.5	70.0	19.0	249.5	110.0	31.0	27.0	23.0
Merged-chr3-116649088-4	chr3	116648980	116649180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008246, intron 2 of 11)	intron (NM_008246, intron 2 of 11)	13597.0	NM_008246	15247.0	Mm.280077	NM_008246	ENSMUSG00000089911	Mfsd14a	Hiat1	major facilitator superfamily domain containing 14A	protein-coding	62.5	57.5	53.0	997.0	84.0	26.5	31.0	68.5
Merged-chr7-19072343-4	chr7	19072239	19072439	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031255, intron 5 of 5)	B1F|SINE|Alu	-3861.0	NM_010058	13401.0	Mm.2852	NM_010058	ENSMUSG00000030410	Dmwd	DMR-N9|Dm9	dystrophia myotonica-containing WD repeat motif	protein-coding	31.0	47.0	37.0	496.0	131.0	54.0	57.0	38.0
Merged-chr4-65565668-4	chr4	65565568	65565768	+	985.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207109, intron 17 of 22)	intron (NM_207109, intron 17 of 22)	-39318.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	19.5	35.0	25.0	491.5	68.5	12.5	38.5	30.5
Merged-chr10-98782187-2	chr10	98782087	98782287	+	924.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132455.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	4.5	14.5	5.5	57.0	1.0	1.5	3.5	4.5
Merged-chr6-86659145-4	chr6	86659041	86659241	+	862.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010751, intron 3 of 5)	intron (NM_010751, intron 3 of 5)	10018.0	NM_010751	17119.0	Mm.279580	NM_010751	ENSMUSG00000001156	Mxd1	AW122478|Mad|Mad1	MAX dimerization protein 1	protein-coding	4.5	11.5	16.0	292.5	16.5	8.5	11.0	10.0
Merged-chr11-116433388-2	chr11	116433288	116433488	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_003376)	promoter-TSS (NR_003376)	-706.0	NM_176902	319370.0	Mm.258466	NM_176902	ENSMUSG00000050628	Ubald2	1110014K08Rik|D030012E24Rik|Fam100b	UBA-like domain containing 2	protein-coding	5.0	6.5	5.0	38.5	10.5	6.0	6.0	16.0
Merged-chr5-146797298-2	chr5	146797211	146797411	+	869.5	f0_c57.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-2355.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	0.0	1.0	0.0	0.0	50.5	16.5	23.0	7.5
Merged-chr10-115184908-1	chr10	115184808	115185008	+	565.0	f0_balb.idr	5' UTR (NM_173391, exon 1 of 11)	5' UTR (NM_173391, exon 1 of 11)	114.0	NM_173391	216343.0	Mm.31597	NM_173391	ENSMUSG00000006764	Tph2	AU043594|Ntph	tryptophan hydroxylase 2	protein-coding	6.5	7.0	6.5	91.0	10.5	2.0	8.5	4.5
Merged-chr10-18928044-1	chr10	18927944	18928144	+	782.0	f1_balb.idr	Intergenic	Intergenic	82973.0	NM_022032	64058.0	Mm.28209	NM_022032	ENSMUSG00000019851	Perp	1110017A08Rik|KCP1|KRTCAP1|PIGPC1|THW	PERP, TP53 apoptosis effector	protein-coding	5.5	3.0	1.0	17.0	6.5	4.5	4.5	7.0
Merged-chr12-72085080-4	chr12	72085043	72085243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205067)	promoter-TSS (NM_001205067)	170.0	NM_026038	67217.0	Mm.286120	NM_026038	ENSMUSG00000019718	L3hypdh	2810055F11Rik	L-3-hydroxyproline dehydratase (trans-)	protein-coding	18.0	16.5	16.0	197.5	49.0	25.0	20.0	31.5
Merged-chr8-86880378-3	chr8	86880276	86880476	+	823.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	4882.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	11.0	24.0	10.5	123.0	19.0	12.0	8.0	8.0
Merged-chr7-102417602-4	chr7	102417505	102417705	+	988.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 6 of 11)	intron (NM_009287, intron 6 of 11)	-24090.0	NM_009103	20133.0	Mm.197486	NM_009103	ENSMUSG00000030978	Rrm1	RnrM1	ribonucleotide reductase M1	protein-coding	25.5	21.0	18.0	225.0	49.0	23.5	19.5	17.5
Merged-chr9-118609497-4	chr9	118609414	118609614	+	911.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	2805.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	1.0	8.0	9.5	111.5	16.5	5.0	12.5	12.0
Merged-chr1-16571142-4	chr1	16571028	16571228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_073122, exon 5 of 5)	non-coding (NR_073122, exon 5 of 5)	48210.0	NM_025773	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	33.5	58.0	57.5	1196.0	145.5	28.5	38.5	49.0
Merged-chr5-90785981-4	chr5	90785865	90786065	+	920.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_203320)	promoter-TSS (NM_203320)	-136.0	NM_203320	330122.0	Mm.244289	NM_203320	ENSMUSG00000029379	Cxcl3	Dcip1|Gm1960	chemokine (C-X-C motif) ligand 3	protein-coding	16.0	23.5	19.5	262.0	26.5	13.5	11.5	12.0
Merged-chr13-114954697-4	chr13	114954608	114954808	+	868.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22608.0	NM_008396	16398.0	Mm.5007	NM_008396	ENSMUSG00000015533	Itga2	CD49B|DX5|GPIa	integrin alpha 2	protein-coding	19.5	13.5	10.5	242.0	23.5	7.0	9.5	13.5
Merged-chr13-85285383-3	chr13	85285286	85285486	+	706.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145452, intron 1 of 24)	PB1|SINE|Alu	4100.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	10.0	3.0	11.5	131.0	10.5	12.0	7.5	12.5
Merged-chr8-74993684-4	chr8	74993605	74993805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316753)	promoter-TSS (NM_001316753)	55.0	NM_178017	70823.0	Mm.261739	NM_178017	ENSMUSG00000034518	Hmgxb4	4733401K04Rik|AI316803|Hmgb2l1	HMG box domain containing 4	protein-coding	47.5	46.0	35.0	424.5	79.0	26.5	52.0	32.0
Merged-chr10-121596752-4	chr10	121596580	121596780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359618, intron 22 of 24)	intron (NM_001359618, intron 22 of 24)	-9886.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	61.5	55.0	57.0	1012.5	127.0	33.0	78.5	38.5
Merged-chr10-19942106-4	chr10	19942024	19942224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	7598.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	80.0	126.5	80.5	1023.0	159.0	77.5	59.0	57.0
Merged-chr16-44349510-3	chr16	44349383	44349583	+	942.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144550, intron 1 of 17)	intron (NM_144550, intron 1 of 17)	2082.0	NM_144550	212514.0	Mm.24035	NM_144550	ENSMUSG00000043065	Spice1	Ccdc52|D16Ertd480e	spindle and centriole associated protein 1	protein-coding	5.0	8.0	9.5	137.0	3.0	7.5	6.0	12.5
Merged-chr16-33080230-4	chr16	33080130	33080330	+	735.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172823, intron 6 of 16)	intron (NM_172823, intron 6 of 16)	17709.0	NM_172823	239833.0	Mm.131951	NM_172823	ENSMUSG00000022802	Lmln	5330415H22Rik|AI465495	leishmanolysin-like (metallopeptidase M8 family)	protein-coding	8.5	5.5	12.5	98.5	27.5	8.5	14.0	7.0
Merged-chr10-127541373-3	chr10	127541275	127541475	+	859.3333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 80 of 88)	intron (NM_008512, intron 80 of 88)	-6816.0	NM_183297	104080.0	Mm.437200	NM_183297	ENSMUSG00000040258	Nxph4	1110036M10Rik|AI851051	neurexophilin 4	protein-coding	5.5	6.5	4.5	6.5	6.5	4.5	4.0	6.5
Merged-chr9-61277815-4	chr9	61277718	61277918	+	765.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045334, intron 3 of 4)	intron (NR_045334, intron 3 of 4)	15991.0	NR_045334	622037.0	Mm.126243	NR_045334	ENSMUSG00000111658	B930092H01Rik	-	RIKEN cDNA B930092H01 gene	ncRNA	4.0	11.5	1.5	112.0	20.0	8.0	15.5	12.0
Merged-chr1-154003873-1	chr1	154003773	154003973	+	630.333313	f0_balb.idr	Intergenic	Intergenic	103944.0	NM_008131	14645.0	Mm.210745	NM_008131	ENSMUSG00000026473	Glul	GS|Glns	glutamate-ammonia ligase (glutamine synthetase)	protein-coding	10.0	6.0	8.0	102.5	19.5	7.5	5.0	6.5
Merged-chr3-58415291-4	chr3	58415187	58415387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081229, exon 1 of 4)	5' UTR (NM_001081229, exon 1 of 4)	567.0	NM_001347233	72033.0	Mm.218409	NM_001081229	ENSMUSG00000027806	Tsc22d2	1810043J12Rik|5530402M19Rik	TSC22 domain family, member 2	protein-coding	58.5	81.5	107.0	1393.5	193.0	68.0	97.5	76.0
Merged-chr4-132310062-4	chr4	132309963	132310163	+	876.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_034046)	promoter-TSS (NR_034046)	110.0	NR_034050	100217418.0	Mm.258912	NR_034050	ENSMUSG00000064604	Snora44	MBI-64	small nucleolar RNA, H/ACA box 44	snoRNA	10.0	11.0	9.0	112.0	43.0	8.0	4.5	15.5
Merged-chr5-121220896-2	chr5	121220796	121220996	+	932.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_181421, intron 1 of 75)	CpG	677.0	NM_181421	269700.0	Mm.184589	NM_181421	ENSMUSG00000042744	Hectd4	A130010L24|AU042671|BC019639|EG545802|Gm15800|mKIAA0614	HECT domain E3 ubiquitin protein ligase 4	protein-coding	4.0	5.0	3.0	28.5	10.5	13.0	7.5	5.0
Merged-chr13-47231277-4	chr13	47231152	47231352	+	965.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 4 of 7)	intron (NM_146042, intron 4 of 7)	37249.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	38.0	68.0	51.5	854.5	34.0	16.0	11.0	30.5
Merged-chr1-135148293-2	chr1	135148193	135148393	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026823, intron 1 of 6)	intron (NM_026823, intron 1 of 6)	1459.0	NM_026823	68724.0	Mm.174998	NM_026823	ENSMUSG00000026426	Arl8a	1110033P22Rik|Arl10b|gie2	ADP-ribosylation factor-like 8A	protein-coding	11.0	4.5	5.0	56.5	8.5	2.5	5.0	4.5
Merged-chr18-75904458-3	chr18	75904341	75904541	+	766.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 2 of 4)	intron (NM_145356, intron 2 of 4)	84263.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	2.0	7.5	0.0	65.0	26.0	7.0	9.5	19.5
Merged-chr2-119189107-1	chr2	119189007	119189207	+	592.0	f1_balb.idr	intron (NM_139139, intron 1 of 10)	B3|SINE|B2	14598.0	NM_001039223	623781.0	Mm.389344	NM_001039223	ENSMUSG00000055926	Gm14137	-	predicted gene 14137	protein-coding	7.0	2.5	5.5	70.0	13.5	9.0	8.5	14.5
Merged-chr4-62780618-4	chr4	62780520	62780720	+	930.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	106646.0	NM_001310706	50780.0	Mm.286753	NM_019492	ENSMUSG00000059810	Rgs3	4930506N09Rik|C2PA-RGS3|C2pa|PDZ-RGS3|RGS3S	regulator of G-protein signaling 3	protein-coding	14.5	17.5	20.0	302.0	34.5	6.5	11.0	16.0
Merged-chr7-16254464-4	chr7	16254366	16254566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	intron (NM_001173550, intron 1 of 1)	4872.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	184.0	297.0	284.0	3088.5	402.0	150.0	187.0	142.5
Merged-chr19-11431402-4	chr19	11431321	11431521	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12137.0	NM_021718	60361.0	Mm.33957	NM_021718	ENSMUSG00000056290	Ms4a4b	AI463180|Chandra|Ly116	membrane-spanning 4-domains, subfamily A, member 4B	protein-coding	54.0	65.5	44.0	279.5	65.0	13.5	21.5	27.0
Merged-chr14-58271536-4	chr14	58271428	58271628	+	943.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	198842.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	12.0	6.0	26.0	462.5	36.5	3.5	28.5	14.5
Merged-chr8-120109356-4	chr8	120109278	120109478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4774.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	68.5	121.0	96.5	1711.0	167.5	75.5	104.5	81.5
Merged-chr11-22928996-4	chr11	22928837	22929037	+	947.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361661, intron 2 of 2)	MTE2b|LTR|ERVL-MaLR	-43068.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	12.5	17.5	33.0	434.0	27.0	9.5	18.0	21.0
Merged-chr9-57504009-3	chr9	57503935	57504135	+	872.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133982)	promoter-TSS (NM_133982)	-67.0	NM_133982	102614.0	Mm.274421	NM_133982	ENSMUSG00000062309	Rpp25	AI851155	ribonuclease P/MRP 25 subunit	protein-coding	5.5	14.0	5.0	119.0	14.5	5.0	3.0	4.5
Merged-chr17-24550435-2	chr17	24550335	24550535	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_013630, exon 1 of 46)	exon (NM_013630, exon 1 of 46)	485.0	NM_013630	18763.0	Mm.30435	NM_013630	ENSMUSG00000032855	Pkd1	PC1|mFLJ00285	polycystin 1, transient receptor poteintial channel interacting	protein-coding	31.5	49.5	34.5	380.0	67.0	30.5	35.0	48.0
Merged-chr3-36064729-4	chr3	36064616	36064816	+	984.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-1263.0	NM_172678	229211.0	Mm.260997	NM_172678	ENSMUSG00000027710	Acad9	2600017P15Rik|4732402K02|C630012L17Rik|NPD002	acyl-Coenzyme A dehydrogenase family, member 9	protein-coding	15.0	38.0	17.0	188.5	47.5	21.5	24.0	18.0
Merged-chr7-102347555-4	chr7	102347460	102347660	+	966.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009287, intron 1 of 11)	intron (NM_009287, intron 1 of 11)	79736.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	23.5	25.5	14.0	339.0	67.5	12.5	33.5	42.5
Merged-chr1-58713200-4	chr1	58713088	58713288	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009805)	promoter-TSS (NM_009805)	-98.0	NM_207653	12633.0	Mm.336848	NM_009805	ENSMUSG00000026031	Cflar	2310024N18Rik|A430105C05Rik|CLARP|Cash|Casper|FLAME|FLAME-1|Flip|Gm9845|I-FLICE|MRIT|c-Flip	CASP8 and FADD-like apoptosis regulator	protein-coding	86.0	138.0	64.5	1032.0	248.0	107.0	91.5	97.5
Merged-chr5-137837299-4	chr5	137837182	137837382	+	817.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1004.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	10.5	10.0	15.0	134.5	18.0	4.0	7.0	9.5
Merged-chr13-94941377-3	chr13	94941276	94941476	+	781.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34968.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	5.0	18.0	7.5	82.0	8.5	4.5	5.5	7.5
Merged-chr10-111473174-4	chr10	111473085	111473285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015781)	promoter-TSS (NM_015781)	-42.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	218.5	340.5	216.5	3287.0	523.5	190.5	260.5	189.5
Merged-chr8-94919666-5	chr8	94919542	94919742	+	816.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1544.0	NM_001033533	234582.0	Mm.277871	NM_001033533	ENSMUSG00000063605	Ccdc102a	BC027663|Gm586	coiled-coil domain containing 102A	protein-coding	3.0	11.0	6.5	113.0	23.0	7.5	7.0	11.0
Merged-chr4-135439447-4	chr4	135439343	135439543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5638.0	NM_022980	53902.0	Mm.331970	NM_022980	ENSMUSG00000059713	Rcan3	AU041093|Csp3|Dscr1l2	regulator of calcineurin 3	protein-coding	85.5	143.5	70.0	1259.5	197.0	81.0	88.5	92.0
Merged-chr10-12842702-4	chr10	12842581	12842781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011682, intron 1 of 73)	intron (NM_011682, intron 1 of 73)	19054.0	NM_011682	22288.0	Mm.331784	NM_011682	ENSMUSG00000019820	Utrn	AA589569|DRP|Dmdl	utrophin	protein-coding	18.5	45.0	52.0	897.5	60.0	15.0	37.0	25.0
Merged-chr11-58094537-3	chr11	58094466	58094666	+	722.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9404.0	NM_026949	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	7.0	9.5	6.5	163.5	16.0	3.0	5.5	12.0
Merged-chr5-146781819-4	chr5	146781658	146781858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	L1M4|LINE|L1	13198.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	105.5	158.0	90.0	1522.5	315.5	119.5	133.0	118.0
Merged-chr8-79210135-3	chr8	79210040	79210240	+	969.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026315)	TTS (NM_026315)	38443.0	NM_026315	67687.0	Mm.178707	NM_026315	ENSMUSG00000031682	1700011L22Rik	-	RIKEN cDNA 1700011L22 gene	protein-coding	18.0	10.5	26.0	307.5	12.5	1.0	19.0	10.0
Merged-chr2-167537631-3	chr2	167537526	167537726	+	895.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011427)	promoter-TSS (NM_011427)	-569.0	NM_011427	20613.0	Mm.2093	NM_011427	ENSMUSG00000042821	Snai1	Sna|Sna1|Snail|Snail1	snail family zinc finger 1	protein-coding	10.5	12.0	5.0	108.0	25.0	6.5	7.5	4.5
Merged-chr15-95790848-4	chr15	95790742	95790942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253813)	promoter-TSS (NM_001253813)	-1.0	NM_175344	105722.0	Mm.38087	NM_175344	ENSMUSG00000064210	Ano6	2900059G15Rik|AA407480|AW554778|F730003B03Rik|Tmem16f	anoctamin 6	protein-coding	116.0	260.0	131.0	2304.0	475.0	154.5	210.5	150.0
Merged-chr16-45786897-4	chr16	45786810	45787010	+	911.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357078, intron 5 of 16)	intron (NM_001357078, intron 5 of 16)	-43955.0	NM_172511	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	11.5	34.5	16.0	203.0	45.0	11.5	16.5	14.0
Merged-chr9-118737348-3	chr9	118737257	118737457	+	882.711121	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113514, intron 1 of 13)	intron (NM_001113514, intron 1 of 13)	25665.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	13.5	10.0	17.0	479.5	4.0	1.5	1.5	6.5
Merged-chr6-71487056-3	chr6	71486957	71487157	+	645.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6820.0	NM_009543	22644.0	Mm.422969	NM_009543	ENSMUSG00000052656	Rnf103	AW146237|AW212918|Zfp103|kf-1	ring finger protein 103	protein-coding	6.0	3.0	5.0	95.0	17.0	5.0	5.0	7.5
Merged-chr16-55754048-4	chr16	55753960	55754160	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	68078.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	12.0	36.5	30.0	270.5	73.5	27.0	34.0	26.5
Merged-chr4-144908946-4	chr4	144908805	144909005	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357274, intron 2 of 6)	intron (NM_001357274, intron 2 of 6)	15768.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	32.5	51.0	47.0	815.0	57.5	22.5	28.5	47.0
Merged-chr10-14053234-4	chr10	14053146	14053346	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358783, intron 2 of 12)	intron (NM_001358783, intron 2 of 12)	86867.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	38.0	82.5	30.5	555.0	114.0	37.5	29.0	17.5
Merged-chr7-135651910-4	chr7	135651795	135651995	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316681)	promoter-TSS (NM_001316681)	-4.0	NM_001316681	19267.0	Mm.945	NM_011212	ENSMUSG00000041836	Ptpre	PTPe|PTPepsilon|RPTPepsilon	protein tyrosine phosphatase, receptor type, E	protein-coding	29.5	35.5	35.5	340.5	125.0	32.5	60.0	44.0
Merged-chr1-64226231-4	chr1	64226118	64226318	+	995.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-104829.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	10.5	41.5	29.5	174.0	57.5	17.0	21.0	9.0
Merged-chr7-121269502-4	chr7	121269392	121269592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-122804.0	NM_001081327	195646.0	Mm.247449	NM_177575	ENSMUSG00000046321	Hs3st2	6430516N12Rik|A830061E14Rik|AW491345	heparan sulfate (glucosamine) 3-O-sulfotransferase 2	protein-coding	99.5	160.0	108.5	1430.0	278.0	97.0	98.5	93.5
Merged-chr6-122638766-5	chr6	122638629	122638829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12305.0	NM_139218	73708.0	Mm.27982	NM_139218	ENSMUSG00000046323	Dppa3	2410075G02Rik|PCG7|PGC7|Stella	developmental pluripotency-associated 3	protein-coding	28.0	41.5	25.5	319.0	77.0	30.5	43.5	45.5
Merged-chr15-98511485-4	chr15	98511392	98511592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8342.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	44.0	63.0	58.5	960.5	122.5	22.5	34.0	40.5
Merged-chr4-141138620-4	chr4	141138516	141138716	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001277195, intron 1 of 3)	intron (NM_001277195, intron 1 of 3)	1180.0	NR_102344	213491.0	Mm.332006	NM_174996	ENSMUSG00000040842	Szrd1	1110022I03|D4Ertd22e	SUZ RNA binding domain containing 1	protein-coding	44.5	66.0	44.0	818.0	119.5	43.5	57.5	51.0
Merged-chr6-17622132-4	chr6	17622042	17622242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14868.0	NM_007604	12343.0	Mm.392504	NM_007604	ENSMUSG00000015733	Capza2	1110053K06Rik|AW208808|Cappa2	capping protein (actin filament) muscle Z-line, alpha 2	protein-coding	57.0	45.5	50.5	777.0	118.0	53.0	47.0	57.0
Merged-chr10-19077916-1	chr10	19077816	19078016	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-62506.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	31.0	100.0	19.0	141.5	69.5	39.0	15.0	15.0
Merged-chr8-106364431-4	chr8	106364329	106364529	+	872.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME1|LINE|L1	-26441.0	NM_021491	58994.0	Mm.23298	NM_021491	ENSMUSG00000031906	Smpd3	4631433G07Rik|AI427456|AW537966|fro|nSMase2	sphingomyelin phosphodiesterase 3, neutral	protein-coding	16.0	13.0	6.0	149.0	29.0	8.5	9.5	11.5
Merged-chr7-30181513-4	chr7	30181407	30181607	+	825.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2664.0	NM_009944	12865.0	Mm.423030	NM_009944	ENSMUSG00000074218	Cox7a1	COX7A|COX7AH|COX7AM	cytochrome c oxidase subunit VIIa 1	protein-coding	7.0	12.0	5.5	66.0	42.0	15.5	18.5	13.5
Merged-chr2-118591189-3	chr2	118591076	118591276	+	895.9722289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7035.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	2.0	25.0	5.0	57.5	39.0	20.0	13.0	11.5
Merged-chr8-70755967-4	chr8	70755856	70756056	+	968.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009001, exon 2 of 5)	exon (NM_009001, exon 2 of 5)	1277.0	NM_001166399	19339.0	Mm.5083	NM_009001	ENSMUSG00000031840	Rab3a	-	RAB3A, member RAS oncogene family	protein-coding	22.5	30.0	42.0	515.5	23.0	7.0	15.5	14.0
Merged-chr2-133430783-4	chr2	133430689	133430889	+	833.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-121370.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	13.5	7.5	16.5	236.0	24.5	5.0	11.0	17.0
Merged-chr10-80305086-4	chr10	80304976	80305176	+	668.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011789, intron 5 of 13)	CpG-1275	3256.0	NM_011789	23805.0	Mm.57247	NM_011789	ENSMUSG00000020135	Apc2	AI852447|APCL|R75424	adenomatosis polyposis coli 2	protein-coding	6.5	16.5	11.5	117.0	30.0	7.5	10.0	6.5
Merged-chr1-97630257-4	chr1	97630161	97630361	+	852.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31415.0	NM_001355074	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	13.0	18.0	11.5	315.5	18.5	2.5	14.0	15.0
Merged-chr18-40219413-4	chr18	40219326	40219526	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023311)	promoter-TSS (NM_023311)	-27.0	NM_023311	67180.0	Mm.270382	NM_023311	ENSMUSG00000024487	Yipf5	2610311I19Rik|AA408236|Yip1a	Yip1 domain family, member 5	protein-coding	338.5	547.5	388.0	5660.5	852.0	290.0	502.0	321.5
Merged-chr6-53566939-4	chr6	53566801	53567001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001327821, intron 5 of 10)	intron (NM_001327821, intron 5 of 10)	-6473.0	NM_172728	231991.0	Mm.227444	NM_172728	ENSMUSG00000053007	Creb5	9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik	cAMP responsive element binding protein 5	protein-coding	20.5	29.0	18.5	199.5	61.5	25.5	27.5	18.0
Merged-chr2-174086533-4	chr2	174086423	174086623	+	954.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001102424, intron 2 of 8)	intron (NM_001102424, intron 2 of 8)	9472.0	NM_001102423	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	18.0	29.5	17.5	365.5	54.0	13.5	13.0	24.5
Merged-chr8-83896047-3	chr8	83895915	83896115	+	821.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4083.0	NM_181039	330814.0	Mm.260733	NM_181039	ENSMUSG00000013033	Adgrl1	2900070I05Rik|AI182398|CLIBA|Lec2|Lphn1|mKIAA0821	adhesion G protein-coupled receptor L1	protein-coding	7.0	11.0	6.0	92.0	22.5	1.0	6.5	8.5
Merged-chr3-96148153-4	chr3	96148045	96148245	+	886.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025613, intron 7 of 12)	intron (NM_001025613, intron 7 of 12)	-13825.0	NM_181409	194126.0	Mm.268536	NM_181409	ENSMUSG00000045934	Mtmr11	AI035306|BC051083|Cra	myotubularin related protein 11	protein-coding	15.0	24.0	3.0	125.0	55.5	10.5	13.0	7.5
Merged-chr5-148493199-4	chr5	148493071	148493271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58502.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	52.5	79.5	67.0	640.0	89.0	30.0	37.0	46.0
Merged-chr8-122611537-4	chr8	122611425	122611625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021502)	promoter-TSS (NM_021502)	-38.0	NM_016722	50917.0	Mm.1786	NM_016722	ENSMUSG00000015027	Galns	mFLJ00319	galactosamine (N-acetyl)-6-sulfate sulfatase	protein-coding	199.5	320.0	178.5	2100.0	342.5	160.0	203.0	141.0
Merged-chr9-58549089-4	chr9	58548988	58549188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8148.0	NM_133983	102657.0	Mm.5356	NM_133983	ENSMUSG00000035914	Cd276	6030411F23Rik|AU016588|B7RP-2|B7h3	CD276 antigen	protein-coding	45.5	142.0	47.0	500.0	81.0	44.5	33.0	28.0
Merged-chr6-47319761-3	chr6	47319657	47319857	+	917.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75361.0	NM_025771	66797.0	Mm.440084	NM_025771	ENSMUSG00000039419	Cntnap2	5430425M22Rik|Caspr2|mKIAA0868	contactin associated protein-like 2	protein-coding	9.5	12.5	16.5	153.5	19.0	4.5	5.5	9.5
Merged-chr17-27850745-5	chr17	27850643	27850843	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011432, intron 5 of 5)	intron (NM_011432, intron 5 of 5)	-5764.0	NM_001080769	224648.0	Mm.291291	NM_001080769	ENSMUSG00000039512	Uhrf1bp1	1110020K19Rik|AA408674|F830021D11Rik|mKIAA4127	UHRF1 (ICBP90) binding protein 1	protein-coding	6.0	18.5	3.5	96.5	18.5	6.5	8.5	14.0
Merged-chr7-122208540-4	chr7	122208462	122208662	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10934.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	85.5	87.0	78.5	1199.5	183.5	66.5	95.0	73.0
Merged-chr8-88655501-4	chr8	88655402	88655602	+	877.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 2 of 12)	intron (NM_145857, intron 2 of 12)	8155.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	9.0	7.5	14.0	219.0	24.0	10.5	10.5	15.5
Merged-chr6-83032893-4	chr6	83032833	83033033	+	910.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001291799, exon 2 of 5)	exon (NM_001291799, exon 2 of 5)	538.0	NM_010070	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	13.5	32.5	10.5	207.5	41.0	13.0	10.5	19.5
Merged-chr8-84990533-4	chr8	84990453	84990653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167991)	promoter-TSS (NM_001167991)	-42.0	NM_133255	170833.0	Mm.247775	NM_133255	ENSMUSG00000052566	Hook2	A630054I03Rik	hook microtubule tethering protein 2	protein-coding	134.0	242.0	157.0	1579.5	344.0	141.5	140.5	135.5
Merged-chr5-77015999-4	chr5	77015882	77016082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027970)	promoter-TSS (NM_027970)	-41.0	NM_027970	71868.0	Mm.151092	NM_027970	ENSMUSG00000029248	Thegl	1700023E05Rik	theg spermatid protein like	protein-coding	52.0	81.0	29.0	790.0	116.5	60.5	68.5	54.5
Merged-chr5-110101319-4	chr5	110101242	110101442	+	725.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281812, intron 2 of 6)	CpG	783.0	NM_001281812	403178.0	Mm.297057	NM_207279	ENSMUSG00000064247	Plcxd1	A330045H12Rik|Gm576	phosphatidylinositol-specific phospholipase C, X domain containing 1	protein-coding	6.0	11.5	10.0	68.5	21.0	10.5	6.0	10.0
Merged-chr11-103173601-3	chr11	103173507	103173707	+	646.899963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019679, intron 1 of 26)	intron (NM_019679, intron 1 of 26)	2469.0	NM_019679	57778.0	Mm.138913	NM_019679	ENSMUSG00000055805	Fmnl1	8030453N10Rik|AI553564|Fmnl|Fnrl|Frls	formin-like 1	protein-coding	5.0	11.0	10.0	52.0	26.0	3.5	6.5	5.0
Merged-chr4-133297861-2	chr4	133297787	133297987	+	688.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_199306, intron 12 of 15)	intron (NM_199306, intron 12 of 15)	-20097.0	NR_110978	52174.0	Mm.244748	NM_025667	ENSMUSG00000028857	Tmem222	5730406H10Rik|AA409341|D4Ertd196e	transmembrane protein 222	protein-coding	2.5	4.5	1.0	45.5	10.5	8.5	8.5	5.5
Merged-chr3-146464970-2	chr3	146464843	146465043	+	675.5	f0_balb.idr|f1_balb.idr	3' UTR (NM_001293672, exon 7 of 7)	3' UTR (NM_001293672, exon 7 of 7)	14476.0	NM_001293672	74245.0	Mm.45396	NM_028836	ENSMUSG00000028189	Ctbs	2210401K11Rik|CTB	chitobiase, di-N-acetyl-	protein-coding	9.0	7.5	5.5	153.0	4.5	0.0	2.0	1.0
Merged-chr10-127667793-4	chr10	127667706	127667906	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045171, intron 1 of 1)	intron (NR_045171, intron 1 of 1)	683.0	NR_045171	72243.0	Mm.482902	NR_045171	ENSMUSG00000040195	1700012D01Rik	-	RIKEN cDNA 1700012D01 gene	ncRNA	110.5	139.5	140.5	1318.5	385.5	165.5	177.0	133.5
Merged-chr14-118181012-4	chr14	118180920	118181120	+	945.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43893.0	NM_021434	58245.0	Mm.275411	NM_021434	ENSMUSG00000022131	Gpr180	AB041545|E130016I23Rik|Itr	G protein-coupled receptor 180	protein-coding	21.0	15.0	7.0	292.0	37.0	11.0	31.5	18.5
Merged-chr16-57902726-4	chr16	57902625	57902825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147988.0	NM_007739	12837.0	Mm.130388	NM_007739	ENSMUSG00000068196	Col8a1	Col8a-1	collagen, type VIII, alpha 1	protein-coding	84.0	105.5	113.0	1450.5	169.0	61.5	104.0	85.0
Merged-chr15-38074328-4	chr15	38074226	38074426	+	897.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001112721, intron 1 of 58)	intron (NM_001112721, intron 1 of 58)	4528.0	NM_001112721	70790.0	Mm.476840	NM_027553	ENSMUSG00000037487	Ubr5	Edd|Edd1	ubiquitin protein ligase E3 component n-recognin 5	protein-coding	5.0	21.5	6.0	270.0	25.5	12.0	8.5	16.5
Merged-chr11-16978493-4	chr11	16978376	16978576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 9 of 9)	intron (NM_019549, intron 9 of 9)	27066.0	NM_176982	319701.0	Mm.120672	NM_176982	ENSMUSG00000044966	Fbxo48	A630050E13Rik	F-box protein 48	protein-coding	40.0	52.0	47.5	724.0	104.5	31.5	45.5	27.5
Merged-chr19-6058432-2	chr19	6058332	6058532	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026246)	promoter-TSS (NM_026246)	465.0	NM_001190436	14109.0	Mm.329631	NM_007990	ENSMUSG00000038274	Fau	MNSFbeta	Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived)	protein-coding	4.0	3.0	7.5	27.5	27.0	8.0	8.0	14.5
Merged-chr4-106865516-4	chr4	106865367	106865567	+	925.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46003.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	9.5	11.0	6.5	153.0	29.0	6.0	8.0	11.5
Merged-chr8-34806449-4	chr8	34806352	34806552	+	895.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1158.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	5.5	7.5	3.0	82.5	48.0	7.0	22.5	15.5
Merged-chr13-48227876-4	chr13	48227774	48227974	+	984.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_102303, intron 1 of 2)	CpG	-33553.0	NM_031166	15904.0	Mm.458006	NM_031166	ENSMUSG00000021379	Id4	Idb4|bHLHb27	inhibitor of DNA binding 4	protein-coding	26.0	45.0	33.0	585.0	56.5	14.0	34.0	25.5
Merged-chr16-55848045-4	chr16	55847958	55848158	+	980.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001134457, intron 5 of 5)	intron (NM_001134457, intron 5 of 5)	-9417.0	NM_001159395	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	14.5	29.5	14.5	283.0	33.0	7.5	16.5	21.5
Merged-chr18-54992600-4	chr18	54992491	54992691	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360787)	promoter-TSS (NM_001360787)	0.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	30.0	37.0	12.5	247.5	63.0	21.0	29.5	27.5
Merged-chr1-189799152-4	chr1	189799051	189799251	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008976, intron 3 of 18)	intron (NM_008976, intron 3 of 18)	70883.0	NM_008976	19250.0	Mm.4498	NM_008976	ENSMUSG00000026604	Ptpn14	C130080N23Rik|PTP36	protein tyrosine phosphatase, non-receptor type 14	protein-coding	37.0	61.0	36.0	1130.5	162.0	50.0	65.5	67.5
Merged-chr5-120522862-3	chr5	120522758	120522958	+	697.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 8 of 13)	intron (NM_001177595, intron 8 of 13)	11666.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	1.5	10.5	3.5	51.5	20.5	6.5	11.0	7.5
Merged-chr13-58552161-4	chr13	58552058	58552258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58719.0	NM_022317	114304.0	Mm.18188	NM_022317	ENSMUSG00000021553	Slc28a3	Cnt3	solute carrier family 28 (sodium-coupled nucleoside transporter), member 3	protein-coding	83.0	156.5	73.0	1166.0	323.5	94.0	95.5	104.5
Merged-chr1-125441866-4	chr1	125441763	125441963	+	994.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6136.0	NM_001205385	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	38.0	49.5	26.0	633.5	62.5	15.5	38.0	49.5
Merged-chr4-6445283-4	chr4	6445188	6445388	+	899.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010945, intron 1 of 30)	intron (NM_010945, intron 1 of 30)	8983.0	NM_010945	18201.0	Mm.3059	NM_010945	ENSMUSG00000028245	Nsmaf	AA959567|C630007J05|Fan	neutral sphingomyelinase (N-SMase) activation associated factor	protein-coding	6.0	11.5	4.0	119.0	33.5	12.0	9.5	10.5
Merged-chr13-49190210-4	chr13	49190113	49190313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	2666.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	112.5	193.5	191.0	2577.5	297.5	111.0	166.5	120.5
Merged-chr18-69346645-4	chr18	69346574	69346774	+	966.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 1 of 19)	intron (NM_001361128, intron 1 of 19)	514.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	17.0	15.0	8.0	146.5	31.5	15.0	18.5	14.5
Merged-chr5-86961984-4	chr5	86961902	86962102	+	945.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35499.0	NM_152811	71773.0	Mm.26741	NM_152811	ENSMUSG00000035836	Ugt2b1	1300012D20Rik	UDP glucuronosyltransferase 2 family, polypeptide B1	protein-coding	14.5	30.0	21.0	262.0	33.0	15.5	10.5	9.0
Merged-chr1-156571674-4	chr1	156571565	156571765	+	833.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	12878.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	2.0	8.5	12.0	123.5	36.0	14.0	10.5	22.5
Merged-chr6-54956568-4	chr6	54956486	54956686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172729, intron 1 of 11)	intron (NM_172729, intron 1 of 11)	15075.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	67.5	81.0	65.5	1029.0	200.5	108.5	87.5	75.5
Merged-chr8-69189105-4	chr8	69189002	69189202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-19944.0	NM_001013379	234358.0	Mm.334577	NM_001013379	ENSMUSG00000059897	Zfp930	-	zinc finger protein 930	protein-coding	19.0	35.5	20.0	270.5	58.0	17.0	30.0	24.5
Merged-chr9-21291358-4	chr9	21291256	21291456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009878)	promoter-TSS (NM_009878)	-147.0	NM_009878	12581.0	Mm.29020	NM_009878	ENSMUSG00000096472	Cdkn2d	INK4d|p19|p19INK4d	cyclin dependent kinase inhibitor 2D	protein-coding	426.0	716.0	475.0	7445.0	940.0	452.0	498.0	397.5
Merged-chr9-100458463-4	chr9	100458371	100458571	+	950.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001033543, exon 7 of 7)	3' UTR (NM_001033543, exon 7 of 7)	28002.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	23.5	51.5	45.5	490.0	56.0	11.5	34.5	19.5
Merged-chr10-67984785-3	chr10	67984675	67984875	+	673.611145	f0_balb.idr|f0_c57.idr|f1_c57bl6.idr	intron (NM_001359319, intron 1 of 11)	intron (NM_001359319, intron 1 of 11)	5205.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	12.5	18.5	6.5	128.5	42.5	14.0	16.5	14.5
Merged-chr1-118311333-4	chr1	118311255	118311455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_153836)	promoter-TSS (NR_153836)	-9.0	NM_011650	22099.0	Mm.426637	NM_011650	ENSMUSG00000026374	Tsn	2610034C24Rik|AU040286|C3PO|TB-RBP	translin	protein-coding	72.0	112.0	88.5	1345.0	206.0	63.5	95.0	83.5
Merged-chr9-104262397-1	chr9	104262297	104262497	+	1000.0	f0_balb.idr	intron (NM_001359740, intron 1 of 56)	CpG	533.0	NM_001359740	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	21.0	30.0	22.0	339.0	55.5	21.0	21.5	26.0
Merged-chr7-38124274-2	chr7	38124173	38124373	+	698.666626	f0_balb.idr|f1_balb.idr	Intergenic	A-rich|Low_complexity|Low_complexity	-16783.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	17.5	12.0	7.5	130.5	3.0	0.5	0.5	0.5
Merged-chr16-10498350-4	chr16	10498261	10498461	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302619, intron 2 of 19)	intron (NM_001302619, intron 2 of 19)	8580.0	NM_001243761	12265.0	Mm.249560	NM_007575	ENSMUSG00000022504	Ciita	C2ta|EG669998|Gm9475|Mhc2ta	class II transactivator	protein-coding	46.0	120.5	52.5	392.0	211.0	75.0	72.5	27.5
Merged-chr11-83753741-4	chr11	83753630	83753830	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145432)	promoter-TSS (NM_145432)	93.0	NM_145432	217026.0	Mm.117874	NM_145432	ENSMUSG00000000976	Heatr6	2700008B19Rik|BB135312|BB249351	HEAT repeat containing 6	protein-coding	31.0	52.5	17.5	453.5	85.5	19.0	36.5	44.5
Merged-chr12-76765650-4	chr12	76765548	76765748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154884, intron 1 of 2)	CpG	110.0	NM_206534	211151.0	Mm.80970	NM_206534	ENSMUSG00000090258	Churc1	1700030P15Rik|My015|chch	churchill domain containing 1	protein-coding	91.0	115.0	130.0	1049.0	219.0	90.5	78.5	89.5
Merged-chr17-48300459-4	chr17	48300418	48300618	+	839.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001033405, exon 1 of 5)	5' UTR (NM_001033405, exon 1 of 5)	480.0	NM_001360121	328833.0	Mm.329104	NM_001033405	ENSMUSG00000071068	Treml2	AW049306|Gm750|Tlt2	triggering receptor expressed on myeloid cells-like 2	protein-coding	8.0	15.5	11.0	91.5	25.5	4.0	6.5	10.5
Merged-chr1-54795461-4	chr1	54795379	54795579	+	987.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 2 of 27)	MTD|LTR|ERVL-MaLR	130908.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	29.5	21.5	13.5	358.0	48.0	8.0	23.0	7.0
Merged-chr1-118559722-4	chr1	118559612	118559812	+	908.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 30 of 39)	intron (NM_001359330, intron 30 of 39)	-68233.0	NM_023755	81879.0	Mm.24621	NM_023755	ENSMUSG00000026380	Tfcp2l1	1810030F05Rik|4932442M07Rik|AA575098|Cp2l1|Crtr-1|D930018N21Rik|LBP-9|Tcfcp2l1	transcription factor CP2-like 1	protein-coding	14.0	16.5	19.5	273.5	18.0	4.5	17.0	10.5
Merged-chr10-20785357-3	chr10	20785260	20785460	+	795.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60282.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	6.0	11.0	10.5	147.0	12.5	4.5	4.5	15.5
Merged-chr1-43521210-4	chr1	43521120	43521320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 2 of 4)	intron (NM_010879, intron 2 of 4)	75469.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	65.5	87.5	74.5	1518.0	186.0	56.5	101.0	63.5
Merged-chr16-92675878-4	chr16	92675772	92675972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111022, intron 4 of 6)	intron (NM_001111022, intron 4 of 6)	21457.0	NM_001111023	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	70.5	101.5	56.5	1210.5	159.0	85.0	78.5	74.0
Merged-chr1-38012781-3	chr1	38012696	38012896	+	849.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198303, intron 1 of 23)	L1MD2|LINE|L1	14786.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	7.0	12.0	5.5	43.5	21.5	5.5	4.5	10.0
Merged-chr5-114379410-4	chr5	114379328	114379528	+	719.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159941, intron 1 of 6)	intron (NM_001159941, intron 1 of 6)	1077.0	NM_001159941	330171.0	Mm.238285	NM_026145	ENSMUSG00000001098	Kctd10	AW536343|C87062|mBACURD3	potassium channel tetramerisation domain containing 10	protein-coding	5.5	6.5	5.0	103.5	16.0	3.0	8.0	14.0
Merged-chr8-27261258-4	chr8	27261166	27261366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007918, intron 1 of 2)	intron (NM_007918, intron 1 of 2)	939.0	NM_007918	13685.0	Mm.6700	NM_007918	ENSMUSG00000031490	Eif4ebp1	4e-bp1|AA959816|PHAS-I	eukaryotic translation initiation factor 4E binding protein 1	protein-coding	242.5	382.0	260.0	3794.5	478.0	194.5	269.0	195.0
Merged-chr8-116975940-4	chr8	116975835	116976035	+	982.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027103, intron 1 of 2)	intron (NM_027103, intron 1 of 2)	2718.0	NM_001357254	69528.0	Mm.272846	NM_027103	ENSMUSG00000031847	1700030J22Rik	-	RIKEN cDNA 1700030J22 gene	protein-coding	34.0	35.0	27.0	495.5	47.5	14.5	18.5	30.0
Merged-chr17-47593436-4	chr17	47593344	47593544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007632)	promoter-TSS (NM_007632)	-23.0	NM_007632	12445.0	Mm.27291	NM_007632	ENSMUSG00000034165	Ccnd3	9230106B05Rik|AA682053|AL024085|AW146355|C78795	cyclin D3	protein-coding	177.0	253.0	117.5	1984.0	373.5	148.5	140.5	122.5
Merged-chr16-91853717-4	chr16	91853570	91853770	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 21 of 28)	intron (NM_001110275, intron 21 of 28)	77960.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	16.0	17.5	12.0	254.0	32.0	11.0	15.5	26.0
Merged-chr5-146824739-4	chr5	146824647	146824847	+	966.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8143.0	NM_019647	19933.0	Mm.316592	NM_019647	ENSMUSG00000041453	Rpl21	8430440E03Rik|L21	ribosomal protein L21	protein-coding	22.5	25.0	20.0	224.0	66.0	23.5	26.0	15.0
Merged-chr9-114527190-3	chr9	114527063	114527263	+	809.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042503, intron 1 of 3)	intron (NM_001042503, intron 1 of 3)	-30619.0	NM_009916	12773.0	Mm.1337	NM_009916	ENSMUSG00000047898	Ccr4	C-C CKR-4|CHEMR1|Cmkbr4|LESTR|Sdf1r	chemokine (C-C motif) receptor 4	protein-coding	5.0	12.5	6.0	78.0	12.5	4.0	0.5	2.5
Merged-chr7-19628738-4	chr7	19628652	19628852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290457, intron 1 of 10)	intron (NM_001290457, intron 1 of 10)	686.0	NM_001290457	19698.0	Mm.1741	NM_009046	ENSMUSG00000002983	Relb	shep	avian reticuloendotheliosis viral (v-rel) oncogene related B	protein-coding	411.0	674.0	447.0	5116.5	1049.5	491.5	489.5	399.5
Merged-chr7-122087291-3	chr7	122087195	122087395	+	981.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028177, exon 5 of 5)	3' UTR (NM_028177, exon 5 of 5)	14553.0	NR_153798	70316.0	Mm.3014	NM_028177	ENSMUSG00000030869	Ndufab1	2210401F17Rik|2310039H15Rik|2610003B19Rik|8kDa|9130423F15Rik|ACP|CI-SDAP|SDAP	NADH dehydrogenase (ubiquinone) 1, alpha/beta subcomplex, 1	protein-coding	12.5	6.5	3.0	139.0	12.0	9.0	9.5	19.5
Merged-chr4-95048248-4	chr4	95048133	95048333	+	871.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010591)	TTS (NM_010591)	3989.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	26.5	37.0	14.0	213.0	27.0	10.5	9.0	10.5
Merged-chr16-18811721-4	chr16	18811614	18811814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028403)	promoter-TSS (NR_028403)	258.0	NM_001161623	12544.0	Mm.1248	NM_009862	ENSMUSG00000000028	Cdc45	Cdc45l	cell division cycle 45	protein-coding	158.5	208.5	137.5	2154.5	408.5	183.0	160.5	115.5
Merged-chr14-63132486-4	chr14	63132377	63132577	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007798, intron 1 of 9)	intron (NM_007798, intron 1 of 9)	10015.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	162.0	231.5	142.0	2154.5	284.5	115.0	87.5	88.5
Merged-chr8-115494578-4	chr8	115494463	115494663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	212331.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	38.0	49.0	65.5	561.5	72.0	29.0	28.0	34.0
Merged-chr4-6367680-4	chr4	6367566	6367766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001098227, intron 1 of 8)	intron (NM_001098227, intron 1 of 8)	1986.0	NM_001098227	53378.0	Mm.247473	NM_016807	ENSMUSG00000028249	Sdcbp	MDA-9|Sycl|syntenin-1	syndecan binding protein	protein-coding	29.5	30.0	50.0	770.0	75.5	29.5	41.0	66.5
Merged-chr1-86234019-4	chr1	86233936	86234136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 19 of 20)	intron (NM_027456, intron 19 of 20)	-69185.0	NM_145222	227327.0	Mm.86467	NM_145222	ENSMUSG00000079445	B3gnt7	C330001H22Rik|beta-3GnT7	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 7	protein-coding	25.0	35.5	34.0	755.0	44.5	15.0	20.0	17.0
Merged-chr14-9468061-4	chr14	9467971	9468171	+	857.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-416024.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	17.5	9.0	6.0	180.0	11.5	9.5	11.5	3.0
Merged-chr1-127827475-3	chr1	127827393	127827593	+	747.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011737, intron 6 of 9)	intron (NM_011737, intron 6 of 9)	12797.0	NM_011737	22625.0	Mm.246566	NM_011737	ENSMUSG00000051590	Map3k19	Ysk4	mitogen-activated protein kinase kinase kinase 19	protein-coding	10.5	10.0	5.0	100.0	24.0	2.5	7.0	7.5
Merged-chr1-34473227-4	chr1	34473159	34473359	+	989.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 13 of 14)	intron (NM_011206, intron 13 of 14)	13513.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	25.0	18.0	18.0	313.0	50.0	28.0	29.5	30.0
Merged-chr16-91785859-4	chr16	91785750	91785950	+	738.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110276, intron 4 of 15)	intron (NM_001110276, intron 4 of 15)	56479.0	NM_010587	16443.0	Mm.40546	NM_010587	ENSMUSG00000022957	Itsn1	AA517634|AA545208|AI316805|AI839402|AI848451|Ehsh1|Ese1|Itsn|Sh3p17	intersectin 1 (SH3 domain protein 1A)	protein-coding	3.0	8.5	5.0	175.0	30.5	10.5	6.5	16.0
Merged-chr2-131211027-4	chr2	131210919	131211119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110992, intron 1 of 1)	intron (NR_110992, intron 1 of 1)	659.0	NR_110992	69596.0	Mm.2937	NM_027129	ENSMUSG00000068264	Ap5s1	0610038L13Rik|2310035K24Rik|AW060727|sigma5	adaptor-related protein 5 complex, sigma 1 subunit	protein-coding	49.0	112.0	62.0	569.5	201.5	63.5	54.0	57.0
Merged-chr10-22390561-3	chr10	22390469	22390669	+	654.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-12244.0	NR_028580	100038752.0	Mm.392859	NR_028580	ENSMUSG00000096937	Gm10825	-	predicted gene 10825	ncRNA	0.5	1.0	0.0	10.0	23.0	4.5	7.5	4.5
Merged-chr8-128654417-7	chr8	128654336	128654536	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31218.0	NM_010578	16412.0	Mm.263396	NM_010578	ENSMUSG00000025809	Itgb1	4633401G24Rik|AA409975|AA960159|CD29|Fnrb|Gm9863|gpIIa	integrin beta 1 (fibronectin receptor beta)	protein-coding	60.0	76.5	98.5	920.0	166.5	80.0	97.5	69.0
Merged-chr14-55722198-4	chr14	55722062	55722262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019519)	promoter-TSS (NM_019519)	40.0	NR_153435	56187.0	Mm.87216	NM_019519	ENSMUSG00000040472	Rabggta	gm	Rab geranylgeranyl transferase, a subunit	protein-coding	27.0	47.5	46.0	420.5	62.5	35.5	28.5	35.0
Merged-chr11-52368454-3	chr11	52368371	52368571	+	876.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011694, intron 1 of 8)	intron (NM_011694, intron 1 of 8)	7609.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	9.0	9.0	8.0	104.5	12.5	7.5	6.5	0.0
Merged-chr10-8010110-4	chr10	8010003	8010203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53980.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	125.5	117.0	136.0	1974.0	158.0	67.5	68.5	72.5
Merged-chr7-122209302-4	chr7	122209200	122209400	+	909.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10196.0	NM_027363	70261.0	Mm.96997	NM_027363	ENSMUSG00000030865	Chp2	2010110P09Rik|Cbhp2	calcineurin-like EF hand protein 2	protein-coding	17.0	28.0	16.5	295.5	23.5	12.5	10.0	31.0
Merged-chr11-6416677-4	chr11	6416575	6416775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008907, intron 1 of 4)	intron (NM_008907, intron 1 of 4)	805.0	NM_008907	268373.0	Mm.5246	NM_008907	ENSMUSG00000071866	Ppia	2700098C05|Cphn|CyP-18|CypA	peptidylprolyl isomerase A	protein-coding	33.5	59.0	26.5	465.0	100.0	26.0	53.0	53.0
Merged-chr7-113518628-4	chr7	113518524	113518724	+	855.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360668, intron 1 of 12)	MIR3|SINE|MIR	4790.0	NM_001360669	67420.0	Mm.206919	NM_026143	ENSMUSG00000030759	Far1	2600011M19Rik|2900034E22Rik|3732409C05Rik|AI850429|Mlstd2	fatty acyl CoA reductase 1	protein-coding	10.0	10.5	5.5	192.0	36.5	8.5	16.5	13.0
Merged-chr19-47455228-2	chr19	47455129	47455329	+	696.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_008018, intron 1 of 14)	intron (NM_008018, intron 1 of 14)	9182.0	NM_001164717	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	4.0	6.5	4.5	46.5	8.0	7.0	7.0	6.0
Merged-chr6-137582405-4	chr6	137582310	137582510	+	988.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271588, intron 1 of 20)	intron (NM_001271588, intron 1 of 20)	-11401.0	NM_001271587	13860.0	Mm.235346	NM_007945	ENSMUSG00000015766	Eps8	AW261790	epidermal growth factor receptor pathway substrate 8	protein-coding	22.5	35.0	31.0	431.0	48.5	19.5	20.0	18.0
Merged-chr2-166657326-3	chr2	166657229	166657429	+	947.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	56503.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	10.5	16.5	10.5	131.5	48.5	8.5	9.0	6.0
Merged-chr8-94373285-4	chr8	94373190	94373390	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-13139.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	19.5	10.0	19.0	273.5	33.0	18.5	22.5	21.0
Merged-chr11-5759125-3	chr11	5759022	5759222	+	701.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361588, intron 1 of 6)	Lx8b|LINE|L1	-3028.0	NR_015577	76508.0	Mm.260203	NR_015577	ENSMUSG00000083844	Ube2d-ps	1600028I17Rik|2210015D19Rik|AI596465	ubiquitin-conjugating enzyme E2D, pseudogene	ncRNA	4.5	4.5	6.5	129.5	8.0	3.5	5.5	5.5
Merged-chr1-82316567-4	chr1	82316474	82316674	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029777)	promoter-TSS (NM_029777)	-5.0	NM_029777	76867.0	Mm.226994	NM_029777	ENSMUSG00000026142	Rhbdd1	4930418P06Rik|RRP4|mRHBDD1	rhomboid domain containing 1	protein-coding	137.0	155.0	174.5	2525.5	273.5	129.0	157.0	186.5
Merged-chr11-51935852-2	chr11	51935752	51935952	+	647.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31779.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	2.5	5.5	4.0	60.0	14.5	7.0	9.5	10.0
Merged-chr16-89872423-6	chr16	89872311	89872511	+	937.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009384, intron 6 of 27)	intron (NM_009384, intron 6 of 27)	-54059.0	NM_001145887	21844.0	Mm.310902	NM_009384	ENSMUSG00000002489	Tiam1	AI847750|D16Ium10|D16Ium10e	T cell lymphoma invasion and metastasis 1	protein-coding	3.5	7.0	13.5	85.5	29.0	11.0	9.5	9.0
Merged-chr1-37314537-3	chr1	37314435	37314635	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	14697.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	8.5	21.5	26.0	356.0	18.0	5.5	20.0	7.0
Merged-chr11-4947170-2	chr11	4947070	4947270	+	723.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243043)	promoter-TSS (NM_001243043)	-351.0	NM_001243043	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	5.0	7.0	7.5	30.0	13.5	1.5	3.0	3.5
Merged-chr2-147036050-2	chr2	147035930	147036130	+	813.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356402, intron 13 of 28)	intron (NM_001356402, intron 13 of 28)	23031.0	NM_001356402	24128.0	Mm.3065	NM_011917	ENSMUSG00000027433	Xrn2	-	5'-3' exoribonuclease 2	protein-coding	1.5	4.5	3.5	99.5	22.0	5.5	5.0	15.5
Merged-chr10-23787277-4	chr10	23787175	23787375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011295)	promoter-TSS (NM_011295)	-66.0	NM_011295	20042.0	Mm.371846	NM_011295	ENSMUSG00000061983	Rps12	-	ribosomal protein S12	protein-coding	204.0	354.5	214.0	2650.5	533.5	180.0	233.0	166.0
Merged-chr7-143073239-4	chr7	143073121	143073321	+	727.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020277, exon 23 of 25)	exon (NM_020277, exon 23 of 25)	3853.0	NM_001115085	56844.0	Mm.139675	NM_020285	ENSMUSG00000045752	Tssc4	AA241958|ESTM671070	tumor-suppressing subchromosomal transferable fragment 4	protein-coding	12.0	18.5	10.5	94.0	24.0	13.0	10.5	9.0
Merged-chr6-6577803-4	chr6	6577711	6577911	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009169, intron 1 of 2)	MIRb|SINE|MIR	847.0	NM_009169	20422.0	Mm.2469	NM_009169	ENSMUSG00000042541	Sem1	DSS1|Shfdg1|Shfg|Shfm1	SEM1, 26S proteasome complex subunit	protein-coding	25.0	55.5	27.0	489.5	93.5	46.0	40.5	41.5
Merged-chr19-41346653-4	chr19	41346551	41346751	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031376, intron 2 of 16)	intron (NM_031376, intron 2 of 16)	38419.0	NM_031376	83490.0	Mm.222266	NM_031376	ENSMUSG00000025017	Pik3ap1	1810044J04Rik|BCAP	phosphoinositide-3-kinase adaptor protein 1	protein-coding	39.0	62.5	50.5	444.0	150.5	33.0	62.5	34.0
Merged-chr18-24215111-4	chr18	24214999	24215199	+	927.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361200, intron 1 of 12)	L1MDa|LINE|L1	9105.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	15.0	18.0	23.0	257.5	31.5	7.0	12.5	5.0
Merged-chr5-114772886-6	chr5	114772759	114772959	+	927.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_027872)	TTS (NR_027872)	632.0	NM_019834	26431.0	Mm.195632	NM_019834	ENSMUSG00000041890	Git2	1500036H07Rik|5830420E16Rik|6430510B20Rik|9630056M03Rik|B230104M05Rik|CAT2|mKIAA0148	G protein-coupled receptor kinase-interactor 2	protein-coding	10.0	25.5	11.0	153.5	66.5	21.0	12.5	15.0
Merged-chr17-5804530-4	chr17	5804439	5804639	+	923.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5049.0	NR_045080	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	12.5	51.5	10.5	327.5	38.5	21.0	5.5	14.5
Merged-chr1-131866562-4	chr1	131866448	131866648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144875)	promoter-TSS (NM_144875)	-729.0	NM_144875	226422.0	Mm.34027	NM_144875	ENSMUSG00000026433	Rab29	Rab7l1	RAB29, member RAS oncogene family	protein-coding	68.0	82.0	70.0	913.5	126.0	40.5	64.5	46.0
Merged-chr3-38143303-4	chr3	38143185	38143385	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64834.0	NR_040541	71342.0	Mm.410782	NR_040541	ENSMUSG00000106002	5430434I15Rik	-	RIKEN cDNA 5430434I15 gene	ncRNA	57.5	48.0	61.5	1050.0	111.5	24.5	65.0	48.5
Merged-chr11-34827129-4	chr11	34827030	34827230	+	989.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027411, intron 2 of 11)	Tigger7|DNA|TcMar-Tigger	6511.0	NM_027411	70385.0	Mm.194368	NM_027411	ENSMUSG00000069910	Spdl1	1700018I02Rik|2600001J17Rik|2810049B11Rik|AA409762|Ccdc99	spindle apparatus coiled-coil protein 1	protein-coding	26.5	32.0	16.0	346.5	64.0	34.5	26.0	31.0
Merged-chr16-84972136-4	chr16	84972031	84972231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045889)	promoter-TSS (NR_045889)	-80.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	65.5	150.5	104.5	1046.5	225.5	68.5	87.0	58.0
Merged-chr9-107289764-7	chr9	107289647	107289847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001316691)	promoter-TSS (NM_001316691)	130.0	NM_178907	102626.0	Mm.222612	NM_178907	ENSMUSG00000032577	Mapkapk3	3PK|AI874665|MAPKAP-K3|MAPKAP3|MK-3|MK3|MapkKapk3	mitogen-activated protein kinase-activated protein kinase 3	protein-coding	64.0	87.5	114.0	844.5	226.0	86.0	106.0	90.0
Merged-chr6-122928869-4	chr6	122928773	122928973	+	777.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199311, intron 3 of 5)	intron (NM_199311, intron 3 of 5)	7025.0	NM_199311	269799.0	Mm.297275	NM_199311	ENSMUSG00000049037	Clec4a1	BC049354|Dcir4	C-type lectin domain family 4, member a1	protein-coding	8.5	16.5	10.0	180.5	22.5	10.5	12.5	7.5
Merged-chr2-131196723-4	chr2	131196595	131196795	+	936.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111075, intron 13 of 14)	intron (NM_001111075, intron 13 of 14)	9747.0	NM_001111075	12531.0	Mm.38444	NM_023117	ENSMUSG00000027330	Cdc25b	AI604853	cell division cycle 25B	protein-coding	13.5	20.0	7.5	152.5	29.0	9.0	16.0	17.5
Merged-chr1-58586773-2	chr1	58586673	58586873	+	779.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172513)	promoter-TSS (NM_172513)	376.0	NM_025597	66495.0	Mm.2033	NM_025597	ENSMUSG00000026032	Ndufb3	2700033I16Rik|CI-B12	NADH dehydrogenase (ubiquinone) 1 beta subcomplex 3	protein-coding	6.0	12.5	11.0	61.5	16.0	8.5	6.5	11.5
Merged-chr4-48492716-3	chr4	48492605	48492805	+	760.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19242.0	NM_001355740	269536.0	Mm.272025	NM_172304	ENSMUSG00000028345	Tex10	2610206N19Rik|2810462N03Rik|BC006867	testis expressed gene 10	protein-coding	3.5	4.0	8.0	72.0	10.0	5.0	6.5	14.5
Merged-chr9-106386570-5	chr9	106386397	106386597	+	824.56665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17865.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	7.0	5.0	7.5	101.5	13.0	12.5	5.0	10.0
Merged-chr11-68904897-1	chr11	68904797	68904997	+	772.5	f1_c57bl6.idr	TTS (NR_003373)	TTS (NR_003373)	3308.0	NR_003373	100034726.0	Mm.3229	NR_003373	ENSMUSG00000062353	Gm15772	-	ribosomal protein L26 pseudogene	pseudo	5.0	2.0	4.0	43.5	12.0	5.0	8.0	6.5
Merged-chr4-109165722-2	chr4	109165622	109165822	+	584.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001346502, intron 2 of 23)	intron (NM_001346502, intron 2 of 23)	-27809.0	NM_001355190	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	2.5	2.5	2.0	41.5	18.5	4.5	5.5	6.5
Merged-chr19-45363641-4	chr19	45363531	45363731	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009771)	promoter-TSS (NM_009771)	-103.0	NM_001360122	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	229.5	414.0	283.0	3239.0	659.0	222.0	248.5	259.5
Merged-chr4-88390131-4	chr4	88389959	88390159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081184, intron 35 of 43)	intron (NM_001081184, intron 35 of 43)	48867.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	22.0	30.0	21.5	206.5	60.5	9.5	13.5	19.0
Merged-chr13-96593761-4	chr13	96593656	96593856	+	883.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023420, intron 3 of 17)	intron (NM_023420, intron 3 of 17)	51021.0	NM_023420	68018.0	Mm.24125	NM_023420	ENSMUSG00000021669	Col4a3bp	2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP	collagen, type IV, alpha 3 (Goodpasture antigen) binding protein	protein-coding	4.5	30.5	17.5	201.5	27.0	5.5	9.5	12.5
Merged-chr14-20707516-4	chr14	20707388	20707588	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252081)	promoter-TSS (NM_001252081)	-64.0	NM_001252081	268721.0	Mm.275082	NM_027996	ENSMUSG00000021819	Zswim8	2310021P13Rik|4832404P21Rik|Kiaa0913|mKIAA0913	zinc finger SWIM-type containing 8	protein-coding	76.5	153.5	91.5	1034.0	198.5	68.0	100.0	110.0
Merged-chr14-61301502-3	chr14	61301404	61301604	+	890.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033788, intron 1 of 2)	RMER4B|LTR|ERVK	3830.0	NR_033788	67355.0	Mm.193728	NR_033788	ENSMUSG00000101505	1700109G14Rik	1700126G13Rik	RIKEN cDNA 1700109G14 gene	ncRNA	11.5	15.0	5.5	92.5	17.0	13.0	12.0	10.0
Merged-chr4-129049216-4	chr4	129049106	129049306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9065.0	NM_029219	75234.0	Mm.259672	NM_029219	ENSMUSG00000028793	Rnf19b	4930534K13Rik|4930555L03Rik|Ibrdc3	ring finger protein 19B	protein-coding	44.5	55.5	55.5	432.5	107.5	51.0	32.5	42.5
Merged-chr16-96358109-3	chr16	96357988	96358188	+	762.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3669.0	NM_001177887	72058.0	Mm.119714	NM_028078	ENSMUSG00000000159	Igsf5	2010003D20Rik|JCAM|Jam4	immunoglobulin superfamily, member 5	protein-coding	2.0	4.0	2.0	106.5	65.5	21.5	25.5	29.0
Merged-chr10-118811290-4	chr10	118811193	118811393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57610.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	97.5	233.0	163.5	1788.0	457.0	164.0	193.5	139.5
Merged-chr9-50528681-4	chr9	50528570	50528770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011220)	promoter-TSS (NM_011220)	-29.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	106.5	147.5	139.0	1620.0	298.5	158.0	133.5	147.0
Merged-chr15-81522261-4	chr15	81522163	81522363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55947.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	68.0	56.0	32.0	743.5	105.5	50.0	62.5	42.0
Merged-chr5-74260562-3	chr5	74260470	74260670	+	994.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114660, intron 5 of 8)	intron (NM_001114660, intron 5 of 8)	65244.0	NM_026878	68939.0	Mm.293316	NM_026878	ENSMUSG00000049907	Rasl11b	1190017B18Rik	RAS-like, family 11, member B	protein-coding	19.0	21.0	35.0	387.5	6.5	0.0	1.0	1.5
Merged-chr8-122269536-4	chr8	122269429	122269629	+	884.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12612.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	17.5	16.5	18.0	110.5	21.5	14.5	9.0	10.0
Merged-chr4-83273099-2	chr4	83272999	83273199	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 2 of 19)	RMER17B|LTR|ERVK	51090.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	8.0	8.0	6.0	43.0	18.5	3.5	3.0	6.0
Merged-chr9-122950958-4	chr9	122950860	122951060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010620)	promoter-TSS (NM_010620)	40.0	NM_025419	66202.0	Mm.268307	NM_025419	ENSMUSG00000032551	1110059G10Rik	-	RIKEN cDNA 1110059G10 gene	protein-coding	60.5	62.5	49.0	697.0	185.0	57.0	49.5	52.5
Merged-chr19-8942439-3	chr19	8942342	8942542	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_144872)	TTS (NM_144872)	522.0	NM_011842	23942.0	Mm.25339	NM_011842	ENSMUSG00000071646	Mta2	AW550797|Mata1l1|Mta1l1|mmta2	metastasis-associated gene family, member 2	protein-coding	9.0	16.0	20.0	145.0	20.0	15.5	12.0	20.5
Merged-chr11-31871438-4	chr11	31871327	31871527	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290676, exon 1 of 9)	5' UTR (NM_001290676, exon 1 of 9)	487.0	NM_026252	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	46.5	106.0	48.5	585.0	84.5	30.5	20.5	37.5
Merged-chr11-106491620-4	chr11	106491513	106491713	+	876.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3817.0	NM_023913	78943.0	Mm.340943	NM_023913	ENSMUSG00000020715	Ern1	9030414B18Rik|AI225830|C85377|Ire1a|Ire1alpha|Ire1p	endoplasmic reticulum (ER) to nucleus signalling 1	protein-coding	8.5	8.5	6.5	119.0	44.0	19.5	14.5	16.0
Merged-chr6-38669732-2	chr6	38669632	38669832	+	789.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001101507, intron 1 of 4)	B3A|SINE|B2	6663.0	NM_001101507	665180.0	Mm.349066	NM_001101507	ENSMUSG00000079598	Clec2l	AI414054|AW122724|Gm1064	C-type lectin domain family 2, member L	protein-coding	11.0	11.0	5.5	55.0	15.5	2.0	4.5	11.0
Merged-chr10-4096492-3	chr10	4096409	4096609	+	703.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 24 of 27)	ID4|SINE|ID	116611.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	5.5	10.5	18.5	139.0	4.5	1.5	2.0	2.0
Merged-chr18-58536236-4	chr18	58536114	58536314	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20026.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	63.5	99.0	68.5	1004.5	87.5	39.5	37.0	44.5
Merged-chr3-79520123-4	chr3	79520049	79520249	+	988.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	47530.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	20.5	17.5	27.5	530.5	51.5	8.5	19.5	22.0
Merged-chr5-100860847-4	chr5	100860747	100860947	+	963.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172715, intron 3 of 12)	intron (NM_172715, intron 3 of 12)	14618.0	NM_172715	231510.0	Mm.271911	NM_172715	ENSMUSG00000029314	Gpat3	1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|Agpat9|GPAT-3|mGPAT3	glycerol-3-phosphate acyltransferase 3	protein-coding	29.5	35.0	45.5	363.0	39.0	12.5	11.0	21.5
Merged-chr9-77961547-4	chr9	77961499	77961699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134255, intron 3 of 7)	intron (NM_134255, intron 3 of 7)	44234.0	NM_134255	68801.0	Mm.430736	NM_134255	ENSMUSG00000032349	Elovl5	1110059L23Rik|AI747313|AU043003|HELO1	ELOVL family member 5, elongation of long chain fatty acids (yeast)	protein-coding	100.0	137.5	128.0	1671.5	237.5	68.5	93.5	70.5
Merged-chr12-69681172-8	chr12	69681110	69681310	+	931.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001135559, intron 1 of 22)	intron (NM_001135559, intron 1 of 22)	642.0	NM_001135559	20663.0	Mm.3770	NM_001135559	ENSMUSG00000034801	Sos2	SOS-2|mSOS-2	SOS Ras/Rho guanine nucleotide exchange factor 2	protein-coding	22.5	11.5	17.0	365.0	23.5	9.5	10.0	20.0
Merged-chr1-55553576-4	chr1	55553466	55553666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	147620.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	47.0	62.5	38.0	1179.5	100.5	18.0	37.0	29.0
Merged-chr5-129586187-4	chr5	129586075	129586275	+	953.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011846, intron 1 of 9)	intron (NM_011846, intron 1 of 9)	2006.0	NM_011846	23948.0	Mm.42047	NM_011846	ENSMUSG00000029436	Mmp17	MT4-MMP|MT4MMP|MTMMP4	matrix metallopeptidase 17	protein-coding	19.5	26.0	23.5	296.5	55.0	13.0	12.5	20.0
Merged-chr5-135935476-2	chr5	135935385	135935585	+	792.5	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_018871)	promoter-TSS (NM_018871)	-844.0	NM_018871	22628.0	Mm.233813	NM_018871	ENSMUSG00000051391	Ywhag	14-3-3gamma|D7Bwg1348e	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	protein-coding	22.0	59.5	17.0	251.0	34.5	21.0	15.5	14.5
Merged-chr17-71286927-3	chr17	71286794	71286994	+	832.305542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357337, intron 2 of 7)	intron (NM_001357337, intron 2 of 7)	24117.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	9.5	12.0	13.0	102.0	15.0	16.0	0.5	4.5
Merged-chr6-91117006-4	chr6	91116918	91117118	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018815)	promoter-TSS (NM_018815)	-192.0	NM_018815	54563.0	Mm.28162	NM_018815	ENSMUSG00000030091	Nup210	9830001L10|AI836801|Pom210|gp190|gp210	nucleoporin 210	protein-coding	63.0	96.5	95.0	1255.5	107.5	42.0	58.0	76.0
Merged-chr2-120977565-4	chr2	120977516	120977716	+	859.089294	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175285, intron 1 of 13)	CpG	554.0	NM_175285	96957.0	Mm.315212	NM_175285	ENSMUSG00000054484	Tmem62	B830009D23Rik|C77355	transmembrane protein 62	protein-coding	14.5	9.5	24.5	223.0	20.5	12.5	13.0	16.5
Merged-chr6-92942153-1	chr6	92942053	92942253	+	853.0	f0_balb.idr	intron (NR_015530, intron 1 of 2)	intron (NR_015530, intron 1 of 2)	1571.0	NR_015530	330385.0	Mm.483472	NR_015530	ENSMUSG00000097462	9530026P05Rik	B430306B02	RIKEN cDNA 9530026P05 gene	ncRNA	8.5	4.5	12.0	142.5	0.0	0.5	0.0	3.0
Merged-chr12-55468935-2	chr12	55468835	55469035	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23712.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	6.5	8.5	9.5	63.5	19.5	0.5	1.5	4.5
Merged-chr15-84987378-5	chr15	84987285	84987485	+	960.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033273, intron 1 of 9)	intron (NM_001033273, intron 1 of 9)	586.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	14.5	24.5	18.0	316.0	52.0	14.5	19.5	18.5
Merged-chr5-115513447-3	chr5	115513355	115513555	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	ID_B1|SINE|B4	6779.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	71.0	104.5	59.5	1006.0	6.5	3.0	2.5	13.0
Merged-chr2-73484808-4	chr2	73484719	73484919	+	888.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	934.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	8.5	13.0	24.5	220.0	22.5	9.0	11.5	14.0
Merged-chr9-40616600-4	chr9	40616503	40616703	+	872.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69361.0	NM_133733	71566.0	Mm.280560	NM_133733	ENSMUSG00000032024	Clmp	9030425E11Rik|ACAM|ASP5|AW557819	CXADR-like membrane protein	protein-coding	10.0	16.0	32.5	231.0	34.5	12.5	16.5	9.0
Merged-chr2-101810814-3	chr2	101810732	101810932	+	846.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355625, intron 1 of 8)	intron (NM_001355625, intron 1 of 8)	-13125.0	NM_001083810	72446.0	Mm.24138	NM_175181	ENSMUSG00000032841	Prr5l	2600010E01Rik|4833411O04Rik|Protor-2|Protor2	proline rich 5 like	protein-coding	2.5	4.0	6.0	99.0	18.0	6.5	8.0	5.0
Merged-chr18-25881896-4	chr18	25881791	25881991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-127734.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	24.0	36.0	49.0	800.0	87.0	26.0	45.0	29.0
Merged-chr2-174335877-4	chr2	174335788	174335988	+	845.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077507, intron 2 of 10)	intron (NM_001077507, intron 2 of 10)	5799.0	NM_001077510	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	8.5	15.0	16.0	237.0	38.5	11.5	10.0	16.5
Merged-chr6-121244607-5	chr6	121244494	121244694	+	615.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1312.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	10.0	4.5	6.0	43.5	19.0	7.0	4.0	9.0
Merged-chr5-74092961-4	chr5	74092854	74093054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_145133)	promoter-TSS (NR_145133)	-106.0	NR_015531	70036.0	Mm.46547	NR_015531	ENSMUSG00000053656	Dancr	2700023E23Rik	differentiation antagonizing non-protein coding RNA	ncRNA	212.5	271.0	256.0	4142.5	440.0	226.0	254.0	193.5
Merged-chr18-35748478-4	chr18	35748392	35748592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L3|LINE|CR1	-7938.0	NM_001289592	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	48.5	60.0	40.0	594.5	83.0	39.5	25.0	48.0
Merged-chr2-167632119-4	chr2	167632022	167632222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311131)	promoter-TSS (NM_001311131)	-117.0	NM_023230	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	203.0	225.5	136.0	1903.0	478.0	178.5	153.5	153.0
Merged-chr14-20181826-3	chr14	20181702	20181902	+	994.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021542)	promoter-TSS (NM_021542)	-20.0	NM_021542	16529.0	Mm.68998	NM_021542	ENSMUSG00000023243	Kcnk5	KCNK5b|TASK-2	potassium channel, subfamily K, member 5	protein-coding	16.0	23.0	24.5	282.5	8.0	1.5	2.5	9.5
Merged-chr12-61994465-4	chr12	61994356	61994556	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPLTR3-int|LTR|ERVK	471289.0	NM_001310586	238205.0	Mm.28802	NM_178714	ENSMUSG00000035653	Lrfn5	AI427653|AI604817|C130061B21|mKIAA4208	leucine rich repeat and fibronectin type III domain containing 5	protein-coding	25.5	73.0	43.0	673.5	30.5	10.0	14.5	7.0
Merged-chr16-95825318-4	chr16	95825201	95825401	+	927.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73412.0	NR_040485	69776.0	Mm.120470	NR_040484	ENSMUSG00000086899	1600002D24Rik	-	RIKEN cDNA 1600002D24 gene	ncRNA	18.5	13.5	15.5	246.5	19.5	14.0	7.5	18.5
Merged-chr3-27192020-4	chr3	27191919	27192119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	intron (NM_178772, intron 1 of 4)	9015.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	48.0	81.5	62.0	1194.5	176.5	49.0	68.0	73.0
Merged-chr7-118646482-4	chr7	118646388	118646588	+	761.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028930, intron 5 of 17)	ORR1G|LTR|ERVL-MaLR	12752.0	NM_028930	74424.0	Mm.11068	NM_028930	ENSMUSG00000030650	Tmc5	4932443L08Rik|AU016085	transmembrane channel-like gene family 5	protein-coding	9.0	10.0	11.5	77.5	25.0	6.5	23.5	24.5
Merged-chr8-68183975-4	chr8	68183873	68184073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92555.0	NM_028182	72281.0	Mm.40974	NM_028182	ENSMUSG00000053886	Sh2d4a	2210402M20Rik|SH2A	SH2 domain containing 4A	protein-coding	68.0	116.5	42.5	842.5	156.0	82.0	70.5	48.5
Merged-chr11-76406854-4	chr11	76406780	76406980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291161)	promoter-TSS (NM_001291161)	-45.0	NM_001291161	56322.0	Mm.18803	NM_019818	ENSMUSG00000020843	Timm22	Tim22	translocase of inner mitochondrial membrane 22	protein-coding	82.0	129.0	50.5	713.0	177.5	81.5	61.0	58.0
Merged-chr12-3305457-2	chr12	3305357	3305557	+	997.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_016676, intron 1 of 5)	B2_Mm2|SINE|B2	4512.0	NM_016676	19325.0	Mm.378993	NM_016676	ENSMUSG00000020671	Rab10	AW107754	RAB10, member RAS oncogene family	protein-coding	6.0	13.0	5.0	29.0	18.5	8.0	12.0	3.5
Merged-chr11-110436307-3	chr11	110436214	110436414	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	MER20|DNA|hAT-Charlie	37212.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	6.5	4.5	4.5	64.0	40.5	13.0	4.0	9.0
Merged-chr1-157008861-3	chr1	157008762	157008962	+	977.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69236.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	31.0	25.5	12.0	255.0	12.0	7.0	14.5	10.5
Merged-chr19-41974261-4	chr19	41974173	41974373	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028152, intron 1 of 30)	intron (NM_028152, intron 1 of 30)	6863.0	NM_028152	72199.0	Mm.218940	NM_028152	ENSMUSG00000025159	Mms19	2410001K24Rik|2610042O15Rik|AI316855|C79368|C86341|Mms19l	MMS19 (MET18 S. cerevisiae)	protein-coding	18.5	24.5	9.0	230.0	45.0	8.5	11.0	13.5
Merged-chr4-89265712-4	chr4	89265586	89265786	+	966.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	16506.0	NM_001040654	12578.0	Mm.4733	NM_009877	ENSMUSG00000044303	Cdkn2a	ARF-INK4a|Arf|INK4a-ARF|Ink4a/Arf|MTS1|Pctr1|p16|p16(INK4a)|p16INK4a|p19<ARF>|p19ARF	cyclin dependent kinase inhibitor 2A	protein-coding	23.0	17.0	7.0	388.0	43.0	13.0	21.5	21.0
Merged-chr11-8545979-4	chr11	8545878	8546078	+	885.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083587, intron 7 of 30)	intron (NM_001083587, intron 7 of 30)	118557.0	NM_001083587	319939.0	Mm.337820	NM_001083587	ENSMUSG00000020422	Tns3	BC023928|F830010I22Rik|TEM6|Tens1	tensin 3	protein-coding	25.5	31.0	11.5	265.0	52.5	12.5	11.5	13.0
Merged-chr2-177464863-3	chr2	177464755	177464955	+	827.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177568, intron 1 of 3)	intron (NM_001177568, intron 1 of 3)	113.0	NM_001177568	628308.0	Mm.460436	NM_001177568	ENSMUSG00000078866	Zfp970	Gm14420	zinc finger protein 970	protein-coding	8.5	10.5	13.0	86.0	17.0	6.0	6.5	17.5
Merged-chr9-61369031-3	chr9	61368926	61369126	+	908.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3340.0	NM_001083928	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	7.5	14.5	4.5	60.5	33.0	10.5	7.5	12.0
Merged-chr14-63967756-3	chr14	63967645	63967845	+	601.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20035.0	NM_026359	67750.0	Mm.33864	NM_026359	ENSMUSG00000021961	4930578I06Rik	AI429111	RIKEN cDNA 4930578I06 gene	protein-coding	12.0	13.0	5.0	52.0	9.0	3.5	3.0	4.0
Merged-chr1-91299189-4	chr1	91299131	91299331	+	849.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016717, intron 1 of 11)	intron (NM_016717, intron 1 of 11)	893.0	NM_016717	50880.0	Mm.25724	NM_016717	ENSMUSG00000026307	Scly	9830169H08|A930015N15Rik|SCL|Scly1|Scly2	selenocysteine lyase	protein-coding	8.5	11.0	19.5	125.5	29.5	10.5	10.0	13.5
Merged-chr6-57823666-4	chr6	57823571	57823771	+	865.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 1 of 4)	intron (NM_146168, intron 1 of 4)	1454.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	12.0	10.0	12.0	181.5	18.0	13.5	7.0	18.0
Merged-chr12-40657236-6	chr12	40657207	40657407	+	853.111084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 8 of 52)	intron (NM_172803, intron 8 of 52)	211254.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	2.0	11.5	5.0	77.0	5.0	7.5	7.0	6.5
Merged-chr14-54576696-3	chr14	54576597	54576797	+	735.6190190000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010590, exon 1 of 8)	exon (NM_010590, exon 1 of 8)	964.0	NM_010590	16475.0	Mm.100253	NM_010590	ENSMUSG00000022178	Ajuba	Jub	ajuba LIM protein	protein-coding	8.0	7.5	3.0	53.5	10.0	11.0	9.0	12.0
Merged-chr10-71362009-4	chr10	71361908	71362108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	intron (NM_027184, intron 1 of 5)	14245.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	45.0	55.5	50.0	834.0	102.5	25.5	32.0	33.5
Merged-chr19-4305785-4	chr19	4305622	4305822	+	775.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130863, intron 1 of 21)	CpG	500.0	NM_130863	110355.0	Mm.254144	NM_130863	ENSMUSG00000024858	Grk2	Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1	G protein-coupled receptor kinase 2	protein-coding	5.5	7.0	11.5	65.0	14.5	5.0	4.5	10.5
Merged-chr16-77443524-3	chr16	77443423	77443623	+	892.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015543, intron 2 of 4)	intron (NR_015543, intron 2 of 4)	114195.0	NR_015543	77994.0	Mm.394688	NR_015543	ENSMUSG00000090386	Mir99ahg	2810055G20Rik|D730043B02Rik	Mir99a and Mirlet7c-1 host gene (non-protein coding)	ncRNA	2.0	9.0	14.0	145.5	14.0	5.0	16.0	6.0
Merged-chr10-58498746-4	chr10	58498642	58498842	+	824.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162956, intron 1 of 15)	intron (NM_001162956, intron 1 of 15)	805.0	NM_001162956	76138.0	Mm.211744	NM_001162956	ENSMUSG00000038010	Ccdc138	6230424H07Rik|BC042726	coiled-coil domain containing 138	protein-coding	3.0	15.0	2.0	99.5	28.0	9.0	8.5	13.5
Merged-chr2-59019195-1	chr2	59019095	59019295	+	581.0	f0_balb.idr	intron (NM_001362394, intron 1 of 13)	intron (NM_001362394, intron 1 of 13)	141488.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	8.0	5.0	12.0	78.5	6.0	2.0	2.5	8.0
Merged-chr11-83536596-4	chr11	83536492	83536692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6074.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	39.5	73.0	45.5	310.0	119.0	24.5	23.0	27.0
Merged-chr3-19163170-4	chr3	19163072	19163272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028840)	promoter-TSS (NM_028840)	-77.0	NM_001357689	74252.0	Mm.200383	NM_028840	ENSMUSG00000027599	Armc1	2310016N05Rik|2900046P06Rik|3110009G21Rik|AA409258|AW048872|Arcp|C330014L16Rik	armadillo repeat containing 1	protein-coding	293.5	434.5	283.5	5295.0	572.5	233.5	297.0	244.5
Merged-chr9-40318321-4	chr9	40318218	40318418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	3005.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	18.0	28.5	29.5	480.0	71.0	23.5	24.5	25.0
Merged-chr15-80225397-4	chr15	80225269	80225469	+	918.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8711.0	NM_001357659	239555.0	Mm.307163	NM_178719	ENSMUSG00000022412	Mief1	A230016E22|AI452372|Smcr7l	mitochondrial elongation factor 1	protein-coding	6.5	22.0	10.0	196.0	45.0	11.5	14.5	17.5
Merged-chr11-4988262-3	chr11	4988163	4988363	+	905.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243044, intron 1 of 21)	intron (NM_001243044, intron 1 of 21)	1439.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	7.5	6.0	4.5	90.0	24.0	8.0	5.5	5.0
Merged-chr17-34239892-4	chr17	34239810	34240010	+	993.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010389, intron 1 of 5)	intron (NM_010389, intron 1 of 5)	1005.0	NM_010389	15002.0	Mm.327358	NM_010389	ENSMUSG00000041538	H2-Ob	A-beta-2|A-beta2|H-2Ab|H-2I|H-2Ob|H2-Ab|H2-Ab2|H2-IAb2|Ob	histocompatibility 2, O region beta locus	protein-coding	13.5	32.5	21.5	232.0	142.0	26.0	48.0	42.0
Merged-chr5-125385363-7	chr5	125385255	125385455	+	870.7041019999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019639)	TTS (NM_019639)	4662.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	12.5	30.0	6.5	35.0	55.0	11.0	10.0	9.0
Merged-chr6-134035254-4	chr6	134035162	134035362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007961)	promoter-TSS (NM_007961)	-438.0	NM_001303102	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	147.0	280.0	153.0	1474.0	298.5	124.0	108.0	74.5
Merged-chr6-113748900-2	chr6	113748800	113749000	+	770.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001036684, intron 19 of 19)	intron (NM_001036684, intron 19 of 19)	-8219.0	NM_024206	110379.0	Mm.29296	NM_024206	ENSMUSG00000030298	Sec13	1110003H02Rik|Sec13l1|Sec13r	SEC13 homolog, nuclear pore and COPII coat complex component	protein-coding	4.5	4.5	4.5	21.0	23.5	7.5	10.0	10.5
Merged-chr12-111653636-3	chr12	111653541	111653741	+	781.866638	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021516, intron 16 of 16)	intron (NM_021516, intron 16 of 16)	18697.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	9.5	18.0	3.5	62.0	36.0	7.5	12.5	17.5
Merged-chr6-47920660-4	chr6	47920584	47920784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001145881, exon 1 of 5)	5' UTR (NM_001145881, exon 1 of 5)	116.0	NM_001145881	232784.0	Mm.196782	NM_145576	ENSMUSG00000052763	Zfp212	Znf212|mKIAA3011	Zinc finger protein 212	protein-coding	56.5	79.0	98.5	905.5	79.0	43.5	35.5	48.0
Merged-chr5-67437665-3	chr5	67437560	67437760	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9861.0	NM_001164806	666938.0	Mm.101339	NM_001164806	ENSMUSG00000092060	Bend4	D330027G24Rik|EG666938	BEN domain containing 4	protein-coding	20.5	30.0	19.0	634.0	11.5	3.0	6.0	4.5
Merged-chr2-118390240-4	chr2	118390162	118390362	+	907.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177806, intron 1 of 37)	MER46C|DNA|TcMar-Tigger	1150.0	NM_001177806	27103.0	Mm.217616	NM_013719	ENSMUSG00000005102	Eif2ak4	2610011M03|GCN2|MGCN2	eukaryotic translation initiation factor 2 alpha kinase 4	protein-coding	11.0	18.0	11.5	237.0	40.5	16.0	24.0	16.5
Merged-chr9-13847800-3	chr9	13847683	13847883	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20067.0	NM_176836	72826.0	Mm.246174	NM_176836	ENSMUSG00000037808	Fam76b	2810485I05Rik|C78303	family with sequence similarity 76, member B	protein-coding	21.0	30.5	50.5	721.5	17.5	3.0	19.5	10.0
Merged-chr8-109019731-4	chr8	109019615	109019815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-55507.0	NR_126329	628686.0	Mm.203332	NR_126329	ENSMUSG00000097393	D030068K23Rik	-	RIKEN cDNA D030068K23 gene	ncRNA	19.5	23.5	28.5	415.0	41.5	29.5	30.0	32.0
Merged-chr2-148599654-4	chr2	148599551	148599751	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72964.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	17.0	24.0	7.0	222.0	19.0	7.0	19.0	13.5
Merged-chr5-121602067-4	chr5	121601960	121602160	+	773.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178799, intron 8 of 10)	intron (NM_178799, intron 8 of 10)	-8236.0	NM_001308450	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	19.5	10.5	5.0	71.5	17.5	8.5	8.5	6.0
Merged-chr10-99267730-3	chr10	99267644	99267844	+	593.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026268)	TTS (NM_026268)	4513.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	8.0	7.5	7.5	51.5	2.5	3.0	3.0	6.5
Merged-chr9-44320314-4	chr9	44320149	44320349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027909)	promoter-TSS (NM_027909)	33.0	NM_001359259	71764.0	Mm.491174	NM_027909	ENSMUSG00000032120	C2cd2l	1300006O23Rik|Tmem24	C2 calcium-dependent domain containing 2-like	protein-coding	71.0	102.5	63.0	983.5	243.0	68.0	80.5	79.0
Merged-chr7-110772724-4	chr7	110772634	110772834	+	982.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009667, exon 1 of 15)	5' UTR (NM_009667, exon 1 of 15)	130.0	NM_009667	11717.0	Mm.3238	NM_009667	ENSMUSG00000005686	Ampd3	-	adenosine monophosphate deaminase 3	protein-coding	34.0	102.0	33.5	153.0	86.0	44.5	32.0	18.5
Merged-chr4-150367019-4	chr4	150366909	150367109	+	861.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 1 of 22)	intron (NM_001085492, intron 1 of 22)	85093.0	NM_001085492	68703.0	Mm.291274	NM_001085492	ENSMUSG00000039852	Rere	1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye<m03Jus>|eyes3|mKIAA0458	arginine glutamic acid dipeptide (RE) repeats	protein-coding	7.5	13.0	6.5	92.0	25.0	6.5	13.0	6.5
Merged-chr3-153262159-4	chr3	153262073	153262273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011372, intron 3 of 4)	intron (NM_011372, intron 3 of 4)	36476.0	NR_126464	75489.0	Mm.443252	NR_126464	ENSMUSG00000105023	1700012D16Rik	-	RIKEN cDNA 1700012D16 gene	ncRNA	34.0	43.0	40.0	651.5	90.5	37.0	36.0	23.0
Merged-chr11-58927851-2	chr11	58927751	58927951	+	583.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_138678)	TTS (NM_138678)	9794.0	NM_138678	192194.0	Mm.22540	NM_138678	ENSMUSG00000020490	Btnl10	BUTR-1|Butr1	butyrophilin-like 10	protein-coding	7.0	4.0	8.5	50.0	19.5	9.0	5.0	6.0
Merged-chr5-112283719-4	chr5	112283635	112283835	+	944.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001326590, intron 1 of 5)	intron (NM_001326590, intron 1 of 5)	7044.0	NM_009419	22022.0	Mm.250631	NM_009419	ENSMUSG00000029344	Tpst2	AI448750|D5Ucla3|Tango13b|grm|grt	protein-tyrosine sulfotransferase 2	protein-coding	16.5	9.0	11.5	154.5	40.0	7.0	16.5	26.5
Merged-chr5-145178736-4	chr5	145178666	145178866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291249, intron 6 of 7)	intron (NM_001291249, intron 6 of 7)	11553.0	NM_001291248	54188.0	Mm.196884	NM_178576	ENSMUSG00000029625	Cpsf4	30kDa|C79664	cleavage and polyadenylation specific factor 4	protein-coding	67.0	82.5	46.5	858.0	128.5	49.5	59.5	64.0
Merged-chr3-59206785-4	chr3	59206608	59206808	+	978.857178	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	4174.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	28.5	76.0	22.5	465.0	64.5	28.0	24.5	12.5
Merged-chr14-19986219-4	chr14	19986124	19986324	+	893.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8975.0	NM_001285909	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	18.5	18.0	7.0	269.0	29.0	9.0	10.5	13.5
Merged-chr1-152288108-4	chr1	152288020	152288220	+	889.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1E3|LTR|ERVL-MaLR	98562.0	NM_025677	66637.0	Mm.379120	NM_025677	ENSMUSG00000014980	Tsen15	5730449L18Rik|AL023077|Sen15	tRNA splicing endonuclease subunit 15	protein-coding	9.0	24.0	8.0	220.0	30.0	11.0	9.5	15.0
Merged-chr9-120012902-4	chr9	120012753	120012953	+	794.99585	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011724)	TTS (NM_011724)	10745.0	NM_011724	22437.0	Mm.10117	NM_011724	ENSMUSG00000079243	Xirp1	AI415219|Cmya1	xin actin-binding repeat containing 1	protein-coding	5.5	6.0	0.5	62.0	14.5	10.0	9.0	5.5
Merged-chr11-114884898-4	chr11	114884812	114885012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5129.0	NM_001347654	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	88.5	116.5	70.5	1059.5	193.0	62.5	72.5	65.0
Merged-chr10-44533503-3	chr10	44533413	44533613	+	720.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-74765.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	10.5	14.0	13.0	46.5	4.0	5.5	3.5	1.0
Merged-chr16-91601962-4	chr16	91601852	91602052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4272.0	NM_030018	77975.0	Mm.290341	NM_030018	ENSMUSG00000022964	Tmem50b	AU015466|AU019872|B230114J08Rik	transmembrane protein 50B	protein-coding	73.5	61.5	70.0	1158.0	136.0	50.0	65.5	80.0
Merged-chr4-16102219-4	chr4	16102131	16102331	+	997.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61412.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	26.5	46.5	68.5	1134.0	65.0	17.5	24.0	38.0
Merged-chr4-9072154-4	chr4	9072043	9072243	+	795.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-197150.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	7.0	11.5	7.0	158.0	14.5	7.0	7.0	7.5
Merged-chr18-12927583-3	chr18	12927444	12927644	+	949.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207530, intron 4 of 27)	intron (NM_207530, intron 4 of 27)	14297.0	NM_207530	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	7.5	13.5	13.0	199.5	10.0	5.5	9.0	9.0
Merged-chr15-4026579-4	chr15	4026488	4026688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_028266, exon 1 of 2)	non-coding (NR_028266, exon 1 of 2)	160.0	NM_024188	67041.0	Mm.13445	NM_024188	ENSMUSG00000022186	Oxct1	2610008O03Rik|Oxct|Oxct2a|Scot-s	3-oxoacid CoA transferase 1	protein-coding	125.5	158.0	141.0	2100.0	232.5	100.0	170.0	131.5
Merged-chr19-34402922-2	chr19	34402829	34403029	+	785.75	f0_balb.idr|f1_balb.idr	Intergenic	Intergenic	72206.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	4.5	20.5	7.0	358.5	16.5	2.0	6.0	5.0
Merged-chr15-50890078-4	chr15	50889994	50890194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_035444)	promoter-TSS (NR_035444)	-53.0	NM_032000	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	30.0	77.0	49.0	683.5	115.0	40.0	59.5	24.0
Merged-chr17-27056384-4	chr17	27056265	27056465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080553)	promoter-TSS (NM_080553)	-939.0	NM_080553	16440.0	Mm.458106	NM_080553	ENSMUSG00000042644	Itpr3	IP3R 3|Ip3r3|Itpr-3|tf	inositol 1,4,5-triphosphate receptor 3	protein-coding	60.0	62.0	40.5	847.5	93.5	43.5	34.5	38.5
Merged-chr19-9916136-4	chr19	9916076	9916276	+	873.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16643.0	NM_016692	16319.0	Mm.29755	NM_016692	ENSMUSG00000024660	Incenp	2700067E22Rik|AU019509|C130081E20|C77457	inner centromere protein	protein-coding	13.5	12.0	4.0	85.5	34.5	10.5	16.5	7.5
Merged-chr5-125189031-4	chr5	125188940	125189140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT2B4|LTR|ERVL	-9826.0	NM_001253904	20602.0	Mm.278646	NM_011424	ENSMUSG00000029478	Ncor2	N-CoR|SMRT|SMRTe	nuclear receptor co-repressor 2	protein-coding	50.0	53.5	36.5	732.0	92.5	25.5	29.5	49.5
Merged-chr3-28171458-4	chr3	28171356	28171556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	-91758.0	NM_001163007	665113.0	Mm.126193	NM_026910	ENSMUSG00000027692	Tnik	1500031A17Rik|4831440I19Rik|AI451411|C530008O15Rik|C630040K21Rik	TRAF2 and NCK interacting kinase	protein-coding	58.5	66.0	43.0	703.5	109.5	43.0	36.5	27.5
Merged-chr8-66862557-4	chr8	66862479	66862679	+	854.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163564, intron 1 of 7)	intron (NM_001163564, intron 1 of 7)	2362.0	NM_001163564	234344.0	Mm.334561	NM_001163564	ENSMUSG00000014907	Naf1	Gm174	nuclear assembly factor 1 ribonucleoprotein	protein-coding	7.0	18.5	10.5	102.5	16.0	15.0	12.0	17.5
Merged-chr7-98779134-4	chr7	98779049	98779249	+	790.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55963.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	8.0	8.0	3.5	82.0	18.0	13.5	10.0	7.0
Merged-chr2-132006726-4	chr2	132006614	132006814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175445, intron 4 of 10)	intron (NM_175445, intron 4 of 10)	23274.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	195.5	271.0	208.5	2810.0	406.0	161.5	201.0	181.5
Merged-chr11-89003391-4	chr11	89003283	89003483	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009546, intron 1 of 8)	intron (NM_009546, intron 1 of 8)	3980.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	24.0	26.5	31.5	377.5	72.5	21.5	38.5	53.0
Merged-chr11-48787956-4	chr11	48787852	48788052	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-12408.0	NM_008143	14694.0	Mm.5305	NM_008143	ENSMUSG00000020372	Rack1	AL033335|GB-like|Gnb2-rs1|Gnb2l1|p205	receptor for activated C kinase 1	protein-coding	112.5	187.0	70.0	1499.0	347.0	97.5	125.5	96.0
Merged-chr11-74634709-4	chr11	74634602	74634802	+	797.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013784, intron 2 of 3)	intron (NM_001013784, intron 2 of 3)	-14793.0	NM_001081158	74148.0	Mm.214574	NM_001081158	ENSMUSG00000020741	Cluh	1300001I01Rik|Kiaa0664|mKIAA0664	clustered mitochondria (cluA/CLU1) homolog	protein-coding	23.0	26.0	11.5	91.5	28.0	9.5	9.0	7.0
Merged-chr3-19084517-4	chr3	19084435	19084635	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78560.0	NM_028840	74252.0	Mm.200383	NM_028840	ENSMUSG00000027599	Armc1	2310016N05Rik|2900046P06Rik|3110009G21Rik|AA409258|AW048872|Arcp|C330014L16Rik	armadillo repeat containing 1	protein-coding	9.0	6.5	22.5	265.5	35.5	6.5	31.0	29.5
Merged-chr4-109475946-2	chr4	109475846	109476046	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013876, intron 1 of 2)	intron (NM_013876, intron 1 of 2)	559.0	NM_013876	29864.0	Mm.392580	NM_013876	ENSMUSG00000028557	Rnf11	-	ring finger protein 11	protein-coding	1.0	15.0	12.5	103.0	33.5	7.0	8.0	22.5
Merged-chr17-86232417-3	chr17	86232319	86232519	+	908.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 1 of 14)	MIR|SINE|MIR	54759.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	9.0	5.0	18.5	245.0	25.5	1.0	6.0	7.5
Merged-chr8-83768749-4	chr8	83768652	83768852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR11B|LTR|ERVK	-27441.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	38.5	43.5	43.0	638.0	76.0	13.0	34.5	37.0
Merged-chr4-66843468-4	chr4	66843382	66843582	+	964.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_021297, exon 3 of 3)	3' UTR (NM_021297, exon 3 of 3)	15931.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	64.0	74.5	41.5	898.5	64.0	16.5	27.0	12.5
Merged-chr2-3475920-3	chr2	3475766	3475966	+	924.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022724)	promoter-TSS (NM_022724)	-880.0	NR_027509	64707.0	Mm.23483	NM_022724	ENSMUSG00000026646	Suv39h2	4930507K23Rik|AA536750|D030054H19Rik|D2Ertd544e|KMT1B	suppressor of variegation 3-9 2	protein-coding	5.5	10.5	16.5	42.0	31.0	8.5	6.5	8.0
Merged-chr11-109369366-4	chr11	109369252	109369452	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010303, intron 2 of 3)	intron (NM_010303, intron 2 of 3)	-5698.0	NR_038097	100036768.0	Mm.467767	NR_038097	ENSMUSG00000056687	Gm11696	-	predicted gene 11696	ncRNA	178.5	264.5	199.5	2913.0	433.0	146.0	183.0	167.5
Merged-chr9-69125459-3	chr9	69125368	69125568	+	623.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013646, intron 1 of 10)	intron (NM_013646, intron 1 of 10)	-164373.0	NM_001289916	19883.0	Mm.378450	NM_013646	ENSMUSG00000032238	Rora	9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26	RAR-related orphan receptor alpha	protein-coding	5.0	5.5	6.0	98.5	2.0	1.5	0.0	1.0
Merged-chr5-20265561-2	chr5	20265461	20265661	+	864.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 6 of 22)	intron (NM_001170746, intron 6 of 22)	358043.0	NM_015823	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	3.0	3.0	7.0	70.0	13.0	5.0	14.5	4.5
Merged-chr11-97428270-4	chr11	97428184	97428384	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21876.0	NM_021493	58996.0	Mm.394118	NM_021493	ENSMUSG00000049807	Arhgap23	A330041B18Rik	Rho GTPase activating protein 23	protein-coding	47.0	53.5	35.0	708.5	73.0	22.5	34.5	16.5
Merged-chr8-91176365-3	chr8	91176260	91176460	+	996.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40866.0	NM_010241	14339.0	Mm.324588	NM_010241	ENSMUSG00000031667	Aktip	AL023020|Fif|Ft|Ft1|Fts	thymoma viral proto-oncogene 1 interacting protein	protein-coding	4.0	2.0	0.0	10.5	78.0	15.0	28.5	22.0
Merged-chr1-191181524-5	chr1	191181419	191181619	+	937.31665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007498, intron 1 of 3)	intron (NM_007498, intron 1 of 3)	1814.0	NM_007498	11910.0	Mm.2706	NM_007498	ENSMUSG00000026628	Atf3	LRG-21	activating transcription factor 3	protein-coding	8.5	20.5	6.0	119.0	23.0	10.0	16.0	11.0
Merged-chr3-138443097-4	chr3	138442995	138443195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007410)	promoter-TSS (NM_007410)	2.0	NM_007410	11532.0	Mm.3874	NM_007410	ENSMUSG00000028138	Adh5	Adh-5|Adh3|GSNOR	alcohol dehydrogenase 5 (class III), chi polypeptide	protein-coding	179.0	261.0	143.0	2743.0	508.5	164.0	276.5	148.0
Merged-chr2-79193998-3	chr2	79193897	79194097	+	846.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61429.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	9.5	10.0	25.0	379.0	12.5	6.5	14.5	6.5
Merged-chr5-143909902-4	chr5	143909822	143910022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008886)	promoter-TSS (NM_008886)	-79.0	NM_008886	18861.0	Mm.2950	NM_008886	ENSMUSG00000075569	Pms2	AW555130|Pmsl2	PMS1 homolog2, mismatch repair system component	protein-coding	144.5	222.0	106.0	1774.5	350.5	115.0	168.0	102.0
Merged-chr2-26315551-4	chr2	26315428	26315628	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001199146)	promoter-TSS (NM_001199146)	-5.0	NM_001199146	67839.0	Mm.266611	NM_153410	ENSMUSG00000026930	Gpsm1	1810037C22Rik|AW107933|Ags3	G-protein signalling modulator 1 (AGS3-like, C. elegans)	protein-coding	37.5	56.0	24.5	362.5	67.5	27.5	34.5	36.0
Merged-chr3-88648308-4	chr3	88648193	88648393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001198911)	TTS (NM_001198911)	4849.0	NM_181817	242093.0	Mm.269130	NM_181817	ENSMUSG00000049741	Rxfp4	GPCR142|Gpr100|Rln3r2|SALPR	relaxin family peptide receptor 4	protein-coding	100.5	144.0	70.5	1137.5	210.0	82.5	89.5	56.5
Merged-chr2-31135775-4	chr2	31135682	31135882	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 1 of 15)	intron (NM_001355105, intron 1 of 15)	6226.0	NM_001355106	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	27.5	42.5	15.5	178.5	47.5	13.5	11.5	8.5
Merged-chr9-95578636-1	chr9	95578536	95578736	+	550.0	f0_balb.idr	Intergenic	Intergenic	18819.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	6.0	6.0	6.5	91.5	13.0	4.5	4.5	3.5
Merged-chr3-38484987-4	chr3	38484902	38485102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167883)	promoter-TSS (NM_001167883)	-186.0	NM_001167883	99696.0	Mm.290937	NM_001033198	ENSMUSG00000044864	Ankrd50	AI662170|E430012K20Rik|mKIAA1223|mKIAA3019	ankyrin repeat domain 50	protein-coding	295.0	535.0	346.5	4794.5	892.0	308.0	424.0	309.5
Merged-chr13-41501030-3	chr13	41500924	41501124	+	753.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13664.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	10.0	25.0	6.0	89.5	14.5	14.5	5.0	6.0
Merged-chr10-116582976-4	chr10	116582859	116583059	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1448.0	NM_001359249	72068.0	Mm.351553	NM_028082	ENSMUSG00000020166	Cnot2	2600016M12Rik|2810470K03Rik|AA537049|AA959607|AW557563|C79650	CCR4-NOT transcription complex, subunit 2	protein-coding	37.5	64.5	41.0	494.5	131.5	29.0	44.0	36.5
Merged-chr3-8984807-3	chr3	8984698	8984898	+	937.5277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	MER5A|DNA|hAT-Charlie	19406.0	NM_001357073	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	12.5	8.0	13.0	149.0	12.0	12.0	6.0	12.0
Merged-chr16-52182223-4	chr16	52182118	52182318	+	956.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033238, intron 13 of 17)	intron (NM_001033238, intron 13 of 17)	150669.0	NM_001033238	208650.0	Mm.328206	NM_001033238	ENSMUSG00000022637	Cblb	AI429560|AI851073|Cbl-b	Casitas B-lineage lymphoma b	protein-coding	18.5	13.0	6.5	196.5	65.5	14.5	20.0	13.5
Merged-chr5-73492557-4	chr5	73492458	73492658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178896, intron 1 of 10)	CpG	1532.0	NM_178896	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	42.5	54.0	52.5	687.0	157.0	45.0	81.5	69.5
Merged-chr15-67414690-4	chr15	67414600	67414800	+	918.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187931.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	19.5	15.5	30.0	329.0	31.5	12.0	10.5	10.5
Merged-chr15-27672347-4	chr15	27672271	27672471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198301, intron 1 of 6)	intron (NM_198301, intron 1 of 6)	9171.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	21.5	27.0	22.5	324.0	53.0	9.5	9.5	20.5
Merged-chr9-21297315-4	chr9	21297223	21297423	+	898.6749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110300, intron 9 of 10)	intron (NM_001110300, intron 9 of 10)	-6114.0	NM_009878	12581.0	Mm.29020	NM_009878	ENSMUSG00000096472	Cdkn2d	INK4d|p19|p19INK4d	cyclin dependent kinase inhibitor 2D	protein-coding	18.5	18.0	9.0	190.0	22.5	13.0	30.0	15.5
Merged-chr9-123951346-4	chr9	123951229	123951429	+	763.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17363.0	NM_009912	12768.0	Mm.274927	NM_009912	ENSMUSG00000025804	Ccr1	Cmkbr1|Mip-1a-R	chemokine (C-C motif) receptor 1	protein-coding	16.5	17.5	8.0	271.0	15.0	5.0	10.0	13.5
Merged-chr16-78452496-4	chr16	78452406	78452606	+	898.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75325.0	NM_001297747	12228.0	Mm.392910	NM_009770	ENSMUSG00000022863	Btg3	ANA|tob5	B cell translocation gene 3	protein-coding	3.5	18.0	4.0	193.0	23.0	6.5	6.0	17.0
Merged-chr3-94974661-4	chr3	94974576	94974776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293716)	promoter-TSS (NM_001293716)	-55.0	NM_001293715	107650.0	Mm.217222	NM_175356	ENSMUSG00000038861	Pi4kb	ESTM41|PI4K-beta|PI4Kbeta|Pik4cb	phosphatidylinositol 4-kinase beta	protein-coding	68.0	110.5	53.5	883.5	201.5	71.5	82.5	82.0
Merged-chr6-127582109-4	chr6	127582032	127582232	+	936.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033464, intron 1 of 6)	intron (NM_001033464, intron 1 of 6)	4157.0	NM_001033464	381812.0	Mm.296093	NM_001033464	ENSMUSG00000061414	Cracr2a	Efcab4b|Gm1073|Gm462	calcium release activated channel regulator 2A	protein-coding	19.5	11.5	7.5	296.5	35.0	8.5	20.5	14.5
Merged-chr2-32441672-3	chr2	32441572	32441772	+	834.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146118, intron 1 of 10)	intron (NM_146118, intron 1 of 10)	-8785.0	NM_194335	71254.0	Mm.102341	NM_194335	ENSMUSG00000039164	Naif1	2310007O20Rik|4933440H19Rik	nuclear apoptosis inducing factor 1	protein-coding	6.0	16.5	3.0	40.5	26.5	16.0	11.0	5.0
Merged-chr2-164442572-2	chr2	164442447	164442647	+	793.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_011521, intron 1 of 4)	intron (NM_011521, intron 1 of 4)	641.0	NM_011521	20971.0	Mm.3815	NM_011521	ENSMUSG00000017009	Sdc4	AA959608|AW108331|S4|Synd4|ryudocan|syndecan-4	syndecan 4	protein-coding	7.5	36.0	2.0	37.0	44.0	25.0	8.0	7.0
Merged-chr15-53416450-4	chr15	53416323	53416523	+	975.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	-70240.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	28.5	17.0	17.5	358.0	62.0	14.5	21.0	13.5
Merged-chr3-109352525-3	chr3	109352413	109352613	+	966.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	MIRc|SINE|MIR	11830.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	11.0	21.0	18.0	148.5	19.0	3.0	9.0	6.0
Merged-chr13-117094953-2	chr13	117094853	117095053	+	857.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-35072.0	NR_046023	623312.0	Mm.131279	NR_046023	ENSMUSG00000114792	Gm6416	-	predicted gene 6416	ncRNA	7.5	11.0	8.5	50.5	15.0	8.0	6.0	7.5
Merged-chr18-11835148-4	chr18	11835040	11835240	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045421, intron 1 of 3)	intron (NR_045421, intron 1 of 3)	-4134.0	NM_001146287	63955.0	Mm.40717	NM_022021	ENSMUSG00000040957	Cables1	Cables|ik3-1	CDK5 and Abl enzyme substrate 1	protein-coding	13.0	8.0	16.5	470.5	30.0	13.5	18.5	18.0
Merged-chr19-29210163-4	chr19	29210063	29210263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41640.0	NM_001048177	16452.0	Mm.275839	NM_008413	ENSMUSG00000024789	Jak2	Fd17	Janus kinase 2	protein-coding	36.5	78.0	51.0	510.0	131.5	44.0	50.5	32.0
Merged-chr13-64040070-3	chr13	64039954	64040154	+	742.011108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49147.0	NM_008291	15487.0	Mm.5109	NM_008291	ENSMUSG00000033122	Hsd17b3	-	hydroxysteroid (17-beta) dehydrogenase 3	protein-coding	14.5	6.5	22.5	221.5	6.5	5.0	6.0	6.0
Merged-chr11-114898247-4	chr11	114898130	114898330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_170758, intron 4 of 6)	intron (NM_170758, intron 4 of 6)	8189.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	131.5	216.5	145.5	1877.5	338.0	169.5	155.5	127.0
Merged-chr6-37615274-4	chr6	37615195	37615395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85122.0	NM_145364	208665.0	Mm.262635	NM_145364	ENSMUSG00000038641	Akr1d1	-	aldo-keto reductase family 1, member D1	protein-coding	39.0	27.5	35.5	837.0	76.0	26.0	50.0	47.5
Merged-chr11-20631909-4	chr11	20631777	20631977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001038625)	promoter-TSS (NM_001038625)	-100.0	NM_001038625	58172.0	Mm.339676	NM_021372	ENSMUSG00000049800	Sertad2	AB041541|AU021878|Kiaa0127|MNCb-1504|SEI-2|Sei2|TRIP-Br2|mKIAA0127	SERTA domain containing 2	protein-coding	203.0	325.0	238.0	2873.5	559.0	215.5	302.0	229.0
Merged-chr7-48913074-3	chr7	48912966	48913166	+	785.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAA)n|Simple_repeat|Simple_repeat	-31470.0	NM_001360812	108961.0	Mm.240566	NM_001013368	ENSMUSG00000046179	E2f8	4432406C08Rik|AA410048	E2F transcription factor 8	protein-coding	8.0	7.0	12.0	45.5	31.5	10.0	8.5	14.0
Merged-chr13-103774385-5	chr13	103774204	103774404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001361085, exon 1 of 12)	exon (NM_001361085, exon 1 of 12)	304.0	NM_001361085	218543.0	Mm.458176	NM_172592	ENSMUSG00000032621	Srek1	8430401B01|AI450757|AI462342|SRrp508|SRrp86|Sfrs12|Srsf12	splicing regulatory glutamine/lysine-rich protein 1	protein-coding	68.5	80.0	95.0	699.0	104.5	65.5	63.0	73.0
Merged-chr1-74775933-4	chr1	74775830	74776030	+	949.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009526, intron 1 of 3)	intron (NM_009526, intron 1 of 3)	4038.0	NM_009526	22420.0	Mm.268282	NM_009526	ENSMUSG00000033227	Wnt6	AA409270|Wnt-6	wingless-type MMTV integration site family, member 6	protein-coding	11.5	60.5	14.0	121.0	97.0	16.0	30.5	14.5
Merged-chr12-111814018-4	chr12	111813902	111814102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028875)	promoter-TSS (NM_028875)	-123.0	NM_028875	74335.0	Mm.19082	NM_028875	ENSMUSG00000021287	Xrcc3	-	X-ray repair complementing defective repair in Chinese hamster cells 3	protein-coding	314.5	513.0	403.0	5215.5	884.0	350.5	429.0	280.0
Merged-chr2-45113702-2	chr2	45113599	45113799	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001355289)	promoter-TSS (NM_001355289)	-420.0	NM_015753	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	11.0	34.5	26.0	126.0	67.0	21.0	30.0	22.0
Merged-chr9-21592846-4	chr9	21592747	21592947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138303)	promoter-TSS (NM_138303)	-16.0	NM_138303	74766.0	Mm.475712	NM_138303	ENSMUSG00000032182	Yipf2	1300010K09Rik	Yip1 domain family, member 2	protein-coding	120.5	189.0	69.0	1652.5	213.0	81.5	81.0	76.5
Merged-chr5-146792347-4	chr5	146792263	146792463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011669, intron 1 of 8)	intron (NM_011669, intron 1 of 8)	2593.0	NM_011669	22217.0	Mm.167971	NM_011669	ENSMUSG00000029640	Usp12	Ubh1	ubiquitin specific peptidase 12	protein-coding	42.5	41.5	27.5	607.5	78.5	27.0	26.0	27.5
Merged-chr2-31069718-4	chr2	31069643	31069843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	MTB_Mm|LTR|ERVL-MaLR	26757.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	41.0	37.5	48.0	548.5	68.0	29.0	42.0	42.0
Merged-chr3-65929984-4	chr3	65929880	65930080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28269.0	NM_019937	56706.0	Mm.175612	NM_019937	ENSMUSG00000027829	Ccnl1	2610030E23Rik|AU018493|Ccnl|ania-6a	cyclin L1	protein-coding	61.0	150.0	94.0	943.5	179.0	96.5	88.0	41.5
Merged-chr8-86884265-4	chr8	86884155	86884355	+	849.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030563, intron 1 of 6)	intron (NM_030563, intron 1 of 6)	1003.0	NM_030563	80750.0	Mm.25117	NM_030563	ENSMUSG00000031652	N4bp1	AI481586|C81621	NEDD4 binding protein 1	protein-coding	14.0	7.0	12.5	79.0	43.0	7.0	15.5	19.5
Merged-chr14-70361646-4	chr14	70361550	70361750	+	991.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-10226.0	NM_001135151	213053.0	Mm.270647	NM_144808	ENSMUSG00000022094	Slc39a14	FAD-123|ZIP-14|Zip14|fad123	solute carrier family 39 (zinc transporter), member 14	protein-coding	21.0	35.5	23.5	191.5	83.0	9.0	28.5	21.5
Merged-chr2-153544052-4	chr2	153543975	153544175	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14104.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	121.5	124.5	70.5	1651.0	232.0	60.5	77.0	86.5
Merged-chr4-57955653-4	chr4	57955548	57955748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 1 of 4)	CpG	763.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	37.5	84.5	47.0	591.5	121.5	61.0	66.0	44.5
Merged-chr11-55097873-4	chr11	55097731	55097931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010299)	promoter-TSS (NM_010299)	-154.0	NM_010299	14667.0	Mm.287807	NM_010299	ENSMUSG00000000594	Gm2a	AA408702|AW215435|GM2-AP|SAP-3	GM2 ganglioside activator protein	protein-coding	245.0	363.5	193.0	2553.5	530.0	250.0	243.5	212.0
Merged-chr4-63745302-4	chr4	63745215	63745415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177371)	promoter-TSS (NM_177371)	-202.0	NM_177371	326623.0	Mm.208152	NM_177371	ENSMUSG00000050395	Tnfsf15	Tl1|Tl1a|Tnlg1b|Vegi	tumor necrosis factor (ligand) superfamily, member 15	protein-coding	54.5	87.0	51.0	625.5	133.5	48.0	38.0	39.0
Merged-chr11-117803453-4	chr11	117803359	117803559	+	995.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029964, intron 3 of 5)	MIRb|SINE|MIR	5799.0	NM_029964	77727.0	Mm.159981	NM_029964	ENSMUSG00000025573	6030468B19Rik	Il-40	RIKEN cDNA 6030468B19 gene	protein-coding	33.0	26.0	14.5	376.5	92.0	26.5	41.0	47.0
Merged-chr5-18037496-2	chr5	18037396	18037596	+	820.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	74926.0	NM_001081143	242851.0	Mm.332230	NM_001081143	ENSMUSG00000028777	Gnat3	Ggust|Gtn	guanine nucleotide binding protein, alpha transducing 3	protein-coding	8.5	4.5	13.5	50.5	14.0	5.0	2.5	1.5
Merged-chr5-120513023-4	chr5	120512911	120513111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177595, intron 1 of 13)	intron (NM_001177595, intron 1 of 13)	1819.0	NM_001177594	170756.0	Mm.291070	NM_133221	ENSMUSG00000032754	Slc8b1	AF261233|NCKX6|NCLX|Slc24a6	solute carrier family 8 (sodium/lithium/calcium exchanger), member B1	protein-coding	29.5	81.5	63.5	874.5	158.5	41.0	50.0	43.5
Merged-chr13-34691260-4	chr13	34691159	34691359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38336.0	NR_105041	101056149.0	Mm.421309	NR_105041	ENSMUSG00000086786	Gm15908	-	predicted gene 15908	ncRNA	100.0	201.0	108.5	1039.0	200.5	83.5	93.0	55.5
Merged-chr14-8214849-4	chr14	8214741	8214941	+	988.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001305936, exon 1 of 3)	5' UTR (NM_001305936, exon 1 of 3)	339.0	NM_001305936	71393.0	Mm.292712	NM_027782	ENSMUSG00000021752	Kctd6	5430433B02Rik|AU044285	potassium channel tetramerisation domain containing 6	protein-coding	22.0	32.5	24.5	519.5	79.0	31.5	20.0	13.0
Merged-chr7-120125008-4	chr7	120124914	120125114	+	842.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20277.0	NM_011775	22787.0	Mm.6510	NM_011775	ENSMUSG00000030911	Zp2	Zp-2	zona pellucida glycoprotein 2	protein-coding	6.5	15.5	13.0	193.5	20.0	8.0	9.5	11.5
Merged-chr10-54059251-4	chr10	54059108	54059308	+	627.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 2 of 12)	intron (NM_008548, intron 2 of 12)	16588.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	4.5	6.0	10.5	33.0	20.5	3.0	3.5	6.5
Merged-chr2-153319419-4	chr2	153319302	153319502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008444, intron 2 of 8)	intron (NM_008444, intron 2 of 8)	26408.0	NR_040318	72326.0	Mm.400102	NR_040318	ENSMUSG00000073236	2500004C02Rik	-	RIKEN cDNA 2500004C02 gene	ncRNA	72.5	83.5	60.0	896.0	122.5	48.5	70.5	93.0
Merged-chr6-58831028-1	chr6	58830928	58831128	+	762.0	f0_balb.idr	promoter-TSS (NM_001361967)	promoter-TSS (NM_001361967)	-437.0	NM_001361967	73998.0	Mm.191892	NM_028705	ENSMUSG00000029804	Herc3	5730409F18Rik|AI646603|mKIAA0032	hect domain and RLD 3	protein-coding	15.0	11.5	9.0	160.5	16.0	4.0	5.5	6.5
Merged-chr8-105349092-7	chr8	105348941	105349141	+	912.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081332, exon 1 of 16)	5' UTR (NM_001081332, exon 1 of 16)	783.0	NM_001081332	277973.0	Mm.334766	NM_001081332	ENSMUSG00000014786	Slc9a5	Gm696	solute carrier family 9 (sodium/hydrogen exchanger), member 5	protein-coding	12.0	7.0	3.0	59.0	20.5	13.5	4.5	9.0
Merged-chr5-122400838-4	chr5	122400741	122400941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019824, intron 2 of 6)	intron (NM_019824, intron 2 of 6)	8963.0	NM_019824	56378.0	Mm.275942	NM_019824	ENSMUSG00000029465	Arpc3	1110006A04Rik|p21-ARC|p21-Ar|p21Arc	actin related protein 2/3 complex, subunit 3	protein-coding	62.0	62.5	58.0	628.5	135.0	37.5	76.5	68.5
Merged-chr6-120179874-4	chr6	120179776	120179976	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016718, intron 1 of 3)	intron (NM_016718, intron 1 of 3)	-13947.0	NM_001347432	29862.0	Mm.103668	NM_016718	ENSMUSG00000041377	Ninj2	-	ninjurin 2	protein-coding	47.0	51.0	37.5	714.5	172.5	57.0	72.0	73.0
Merged-chr11-58323368-4	chr11	58323325	58323525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_028331)	promoter-TSS (NR_028331)	-60.0	NR_028331	319475.0	Mm.72124	NM_178761	ENSMUSG00000049755	Zfp672	4930488P06Rik|4930511N19Rik|Znf672	zinc finger protein 672	protein-coding	148.5	161.5	113.0	1914.0	380.5	178.0	181.5	155.5
Merged-chr13-112752414-4	chr13	112752324	112752524	+	961.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48353.0	NM_008903	19012.0	Mm.291029	NM_008247	ENSMUSG00000021759	Plpp1	Hic53|Hpic53|LPP-1|LPP1|PAP-2a|PAP2-alpha|PAP2a|Ppap2a|mPAP	phospholipid phosphatase 1	protein-coding	18.5	18.0	24.5	224.0	52.0	16.0	22.5	17.0
Merged-chr7-120835605-4	chr7	120835487	120835687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7244.0	NM_007908	13631.0	Mm.25997	NM_007908	ENSMUSG00000035064	Eef2k	C86191|eEF-2K	eukaryotic elongation factor-2 kinase	protein-coding	72.5	128.5	36.5	950.5	316.0	103.0	74.0	116.0
Merged-chr11-40402484-1	chr11	40402384	40402584	+	810.5	f0_balb.idr	Intergenic	Intergenic	290198.0	NM_134017	108645.0	Mm.293771	NM_134017	ENSMUSG00000042032	Mat2b	1110064C04Rik|2410018D16Rik|AI182287|AU022853|MAT-II|MATIIbeta|TGR	methionine adenosyltransferase II, beta	protein-coding	7.5	8.5	7.5	151.5	0.5	0.5	0.5	1.5
Merged-chr3-133585109-4	chr3	133585032	133585232	+	957.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-40742.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	6.5	19.0	22.0	206.5	29.5	23.5	15.0	13.5
Merged-chr11-119944807-4	chr11	119944682	119944882	+	948.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037754, intron 1 of 13)	intron (NM_001037754, intron 1 of 13)	1690.0	NM_130862	108100.0	Mm.197534	NM_130862	ENSMUSG00000025372	Baiap2	IRSp53|R75030	brain-specific angiogenesis inhibitor 1-associated protein 2	protein-coding	22.0	35.0	18.5	461.5	62.0	12.0	18.5	23.5
Merged-chr10-128298961-4	chr10	128298860	128299060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031252)	promoter-TSS (NM_031252)	-876.0	NM_031252	83430.0	Mm.125482	NM_031252	ENSMUSG00000025383	Il23a	IL-23|p19	interleukin 23, alpha subunit p19	protein-coding	52.5	99.0	28.5	426.0	206.0	94.5	46.5	49.0
Merged-chr19-8723315-4	chr19	8723205	8723405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002896)	promoter-TSS (NR_002896)	64.0	NM_001161413	17254.0	Mm.4114	NM_008577	ENSMUSG00000010095	Slc3a2	4F2|4F2HC|AI314110|Cd98|Ly-10|Ly-m10|Ly10|Mdu1|Mgp-2hc|NACAE	solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2	protein-coding	202.5	375.0	193.0	2003.5	556.0	247.5	211.0	169.5
Merged-chr9-44604548-4	chr9	44604436	44604636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181324)	promoter-TSS (NM_181324)	-356.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	34.0	63.0	37.5	485.0	103.0	34.5	36.5	57.0
Merged-chr2-120494839-4	chr2	120494739	120494939	+	883.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177799, exon 10 of 21)	exon (NM_001177799, exon 10 of 21)	17930.0	NM_001109761	12335.0	Mm.458021	NM_007601	ENSMUSG00000079110	Capn3	AI323605|Capa-3|Capa3|Lp82|p94	calpain 3	protein-coding	16.0	36.5	34.5	192.0	48.0	9.5	9.0	5.0
Merged-chr12-83485981-3	chr12	83485896	83486096	+	800.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_058212, intron 1 of 8)	CpG	1740.0	NM_001267626	70127.0	Mm.151308	NM_058212	ENSMUSG00000021221	Dpf3	2810403B03Rik|6530402L11Rik|BAF45C|C78788|CERD4|cer-d4	D4, zinc and double PHD fingers, family 3	protein-coding	7.5	11.0	6.5	114.5	16.5	8.5	13.5	3.0
Merged-chr17-83514457-7	chr17	83514344	83514544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159529)	promoter-TSS (NM_001159529)	-111.0	NM_001159529	20463.0	Mm.30072	NM_009187	ENSMUSG00000024248	Cox7a2l	COX7AR|COX7RP|EB1|SIG-81|SIG81|Silg81	cytochrome c oxidase subunit VIIa polypeptide 2-like	protein-coding	36.0	86.0	68.5	544.0	107.5	43.5	37.0	46.0
Merged-chr15-53283149-3	chr15	53283035	53283235	+	993.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	63048.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	20.5	14.0	13.5	332.0	8.0	6.5	8.0	7.5
Merged-chr1-85897754-4	chr1	85897587	85897787	+	776.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022417, intron 1 of 5)	intron (NM_022417, intron 1 of 5)	3177.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	10.0	15.5	3.5	70.0	15.0	7.0	5.5	6.0
Merged-chr15-75791334-3	chr15	75791228	75791428	+	852.577759	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172121, intron 4 of 11)	intron (NM_172121, intron 4 of 11)	-43406.0	NM_194350	378435.0	Mm.309589	NM_194350	ENSMUSG00000047591	Mafa	RIPE3b1	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein A (avian)	protein-coding	8.5	10.5	29.5	249.5	24.5	3.5	3.0	9.0
Merged-chr18-61895065-3	chr18	61894962	61895162	+	922.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198649, intron 1 of 22)	intron (NM_198649, intron 1 of 22)	16762.0	NM_198649	319713.0	Mm.329478	NM_198649	ENSMUSG00000032735	Ablim3	AW990719|D930036B08Rik	actin binding LIM protein family, member 3	protein-coding	11.0	12.0	12.5	166.0	8.5	9.0	9.0	5.5
Merged-chr7-132932207-4	chr7	132932121	132932321	+	878.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207302, intron 1 of 9)	intron (NM_207302, intron 1 of 9)	1079.0	NM_001362198	360216.0	Mm.389984	NM_207302	ENSMUSG00000030967	Zranb1	9330160G10Rik|D7Wsu87e|Gm1956|Trabid	zinc finger, RAN-binding domain containing 1	protein-coding	12.5	16.0	9.5	173.5	23.0	6.0	13.5	11.5
Merged-chr4-150030789-4	chr4	150030604	150030804	+	964.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21681.0	NM_173371	100198.0	Mm.22183	NM_173371	ENSMUSG00000028980	H6pd	AI785303|G6pd1|Gpd-1|Gpd1	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	protein-coding	16.5	11.0	12.0	257.5	23.0	9.5	13.5	15.0
Merged-chr4-125115792-4	chr4	125115748	125115948	+	827.679138	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12033.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	9.0	12.5	4.5	81.5	32.5	9.0	9.5	11.5
Merged-chr13-9149630-4	chr13	9149546	9149746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 8 of 17)	intron (NM_172585, intron 8 of 17)	55765.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	74.0	96.0	68.5	1600.0	189.0	44.0	100.0	105.5
Merged-chr17-21535676-6	chr17	21535601	21535801	+	953.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_144515, exon 1 of 5)	5' UTR (NM_144515, exon 1 of 5)	162.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	10.5	15.5	16.5	127.5	35.0	10.5	10.0	15.0
Merged-chr13-75844424-4	chr13	75844342	75844542	+	713.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053108, intron 1 of 2)	intron (NM_053108, intron 1 of 2)	4556.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	14.5	15.0	5.0	154.0	28.0	20.5	9.5	13.0
Merged-chr10-17221651-4	chr10	17221553	17221753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D|LTR|ERVL-MaLR	-125871.0	NR_038020	100504235.0	Mm.84044	NR_038020	ENSMUSG00000101969	Gm20125	-	predicted gene, 20125	ncRNA	47.5	62.0	43.0	720.0	94.0	41.0	33.0	34.0
Merged-chr9-111056126-4	chr9	111056028	111056228	+	974.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001302376, exon 3 of 3)	exon (NM_001302376, exon 3 of 3)	1116.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	46.5	103.5	34.5	265.5	67.5	15.5	12.5	22.5
Merged-chr14-54254021-4	chr14	54253921	54254121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113358)	promoter-TSS (NM_001113358)	-92.0	NM_010015	13135.0	Mm.319038	NM_010015	ENSMUSG00000022174	Dad1	AI323713	defender against cell death 1	protein-coding	325.5	484.0	311.0	3825.5	731.5	279.5	336.5	280.0
Merged-chr1-131015564-4	chr1	131015465	131015665	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4280.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	84.5	152.5	66.0	849.0	144.5	61.0	71.5	51.0
Merged-chr5-113842002-4	chr5	113841924	113842124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011779)	TTS (NM_011779)	-11523.0	NM_009151	20345.0	Mm.332590	NM_009151	ENSMUSG00000048163	Selplg	CD162|Psgl-1|Psgl1|Selp1|Selpl	selectin, platelet (p-selectin) ligand	protein-coding	54.0	92.5	41.0	571.5	107.0	40.5	30.5	47.5
Merged-chr17-31305646-4	chr17	31305548	31305748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242427, intron 2 of 19)	intron (NM_001242427, intron 2 of 19)	9424.0	NM_001242427	224674.0	Mm.311395	NM_153062	ENSMUSG00000024036	Slc37a1	G3PP	solute carrier family 37 (glycerol-3-phosphate transporter), member 1	protein-coding	23.5	56.0	31.0	181.5	89.5	34.0	33.0	25.0
Merged-chr13-105300130-4	chr13	105300028	105300228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5643.0	NM_001360891	71816.0	Mm.317015	NM_027934	ENSMUSG00000021720	Rnf180	3110001E11Rik|Rines	ring finger protein 180	protein-coding	88.0	115.5	98.5	1915.5	159.0	53.0	104.0	83.5
Merged-chr9-57765966-4	chr9	57765851	57766051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007713)	promoter-TSS (NM_007713)	-91.0	NM_007713	102414.0	Mm.25720	NM_007713	ENSMUSG00000032316	Clk3	AI256811	CDC-like kinase 3	protein-coding	51.5	124.5	92.5	1001.5	231.5	91.5	85.0	90.0
Merged-chr11-74826343-4	chr11	74826226	74826426	+	986.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4598.0	NM_010813	17428.0	Mm.3759	NM_010813	ENSMUSG00000000282	Mnt	Rox|bHLHd3	max binding protein	protein-coding	50.0	52.5	23.0	510.5	34.5	15.0	17.0	16.0
Merged-chr14-62329737-3	chr14	62329638	62329838	+	794.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2330.0	NM_026001	67153.0	Mm.26040	NM_026001	ENSMUSG00000021932	Rnaseh2b	1110019N06Rik|2610207P08Rik|Dleu8	ribonuclease H2, subunit B	protein-coding	9.0	6.5	4.0	98.5	39.5	7.5	9.0	13.0
Merged-chr2-160367127-4	chr2	160367013	160367213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010658)	promoter-TSS (NM_010658)	-48.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	215.5	329.0	255.5	4211.0	583.5	237.5	266.5	281.5
Merged-chr12-8508472-1	chr12	8508372	8508572	+	541.0	f0_c57.idr	Intergenic	RLTR28|LTR|ERVL	-8463.0	NM_007483	11852.0	Mm.687	NM_007483	ENSMUSG00000054364	Rhob	AA017882|Arh6|Arhb	ras homolog family member B	protein-coding	2.0	4.0	0.5	1.0	23.0	8.0	7.5	7.0
Merged-chr2-142698524-8	chr2	142698418	142698618	+	907.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355123, intron 23 of 26)	intron (NM_001355123, intron 23 of 26)	202946.0	NM_001081133	16558.0	Mm.251934	NM_001081133	ENSMUSG00000038844	Kif16b	8430434E15Rik|AA623607|AI789011|C80253|C80902|mKIAA1590	kinesin family member 16B	protein-coding	9.0	6.5	8.0	78.5	24.0	6.5	12.0	13.0
Merged-chr17-28257020-4	chr17	28256925	28257125	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 2 of 7)	intron (NM_011145, intron 2 of 7)	-14683.0	NR_045427	69050.0	Mm.486938	NR_045427	ENSMUSG00000002250	1810013A23Rik	-	RIKEN cDNA 1810013A23 gene	ncRNA	53.5	78.5	55.0	641.5	126.5	42.5	37.0	38.5
Merged-chr2-132054080-2	chr2	132053980	132054180	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001355430, exon 16 of 16)	3' UTR (NM_001355430, exon 16 of 16)	-24092.0	NM_175445	215653.0	Mm.204737	NM_175445	ENSMUSG00000027339	Rassf2	3830431H01Rik|9030412M04Rik|AI852669|AW495050	Ras association (RalGDS/AF-6) domain family member 2	protein-coding	4.5	6.0	1.0	38.5	16.5	9.5	6.5	5.0
Merged-chr15-59643098-4	chr15	59642990	59643190	+	993.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5564.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	25.0	39.0	18.5	488.5	39.0	15.5	19.5	23.0
Merged-chr11-120098818-4	chr11	120098718	120098918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001110242)	promoter-TSS (NM_001110242)	-87.0	NM_183137	78777.0	Mm.23672	NM_183137	ENSMUSG00000025377	Tepsin	2410002I01Rik|Enthd2	TEPSIN, adaptor related protein complex 4 accessory protein	protein-coding	223.5	352.0	194.5	2727.5	481.5	185.5	182.0	165.5
Merged-chr9-37255325-2	chr9	37255225	37255425	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_020258, exon 1 of 18)	exon (NM_020258, exon 1 of 18)	413.0	NM_020258	56857.0	Mm.440037	NM_020258	ENSMUSG00000032122	Slc37a2	G3PP|Slc37a1|cI-2|ci2	solute carrier family 37 (glycerol-3-phosphate transporter), member 2	protein-coding	26.0	42.0	50.0	573.0	62.0	27.0	25.0	25.5
Merged-chr5-32937110-4	chr5	32936956	32937156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360014, intron 24 of 40)	intron (NM_001360014, intron 24 of 40)	73335.0	NM_001170567	277854.0	Mm.101524	NM_177786	ENSMUSG00000037426	Depdc5	AV016528	DEP domain containing 5	protein-coding	26.0	26.5	37.5	615.5	58.0	23.0	26.5	44.5
Merged-chr10-26779070-4	chr10	26778960	26779160	+	914.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176837, intron 1 of 14)	intron (NM_176837, intron 1 of 14)	6548.0	NM_176837	73910.0	Mm.356496	NM_176837	ENSMUSG00000039031	Arhgap18	4833419J07Rik|AI314906|AI843501	Rho GTPase activating protein 18	protein-coding	23.5	26.0	27.5	481.0	24.5	10.5	14.5	3.5
Merged-chr6-35597255-4	chr6	35597136	35597336	+	880.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57348.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	2.0	22.5	7.0	127.5	28.0	7.5	13.5	5.0
Merged-chr17-24167114-4	chr17	24167018	24167218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361533, intron 1 of 2)	intron (NM_001361533, intron 1 of 2)	1691.0	NM_001361535	11984.0	Mm.30155	NM_009729	ENSMUSG00000024121	Atp6v0c	Atp6c|Atp6c2|Atp6l|Atpl|Atpl-rs1|PL16|VATL|Vma3	ATPase, H+ transporting, lysosomal V0 subunit C	protein-coding	107.0	115.0	90.5	1444.5	244.0	92.5	78.0	90.5
Merged-chr2-164877971-3	chr2	164877884	164878084	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1384.0	NM_146129	228866.0	Mm.241134	NM_146129	ENSMUSG00000039849	Pcif1	2310022K11Rik|C20orf67|F730014I05Rik	PDX1 C-terminal inhibiting factor 1	protein-coding	1.0	0.5	0.0	13.5	100.0	58.5	19.0	44.5
Merged-chr11-100356252-4	chr11	100356164	100356364	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177981)	promoter-TSS (NM_177981)	-123.0	NM_010404	15114.0	Mm.281700	NM_010404	ENSMUSG00000006930	Hap1	HAP-1	huntingtin-associated protein 1	protein-coding	29.0	58.5	32.5	223.5	35.0	20.5	17.5	26.0
Merged-chr14-46882786-4	chr14	46882699	46882899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028966)	promoter-TSS (NM_028966)	-166.0	NM_028966	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	101.5	135.5	108.0	1691.5	193.5	70.5	116.5	106.5
Merged-chr2-77281211-4	chr2	77281139	77281339	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175465)	promoter-TSS (NM_175465)	-647.0	NM_175465	228071.0	Mm.27120	NM_175465	ENSMUSG00000042272	Sestd1	1500031J16Rik|A930010O20|Solo/Trio8	SEC14 and spectrin domains 1	protein-coding	92.0	175.5	96.5	1581.0	315.0	103.0	128.0	120.0
Merged-chr4-135438089-3	chr4	135437979	135438179	+	816.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CTG)n|Simple_repeat|Simple_repeat	-4274.0	NM_022980	53902.0	Mm.331970	NM_022980	ENSMUSG00000059713	Rcan3	AU041093|Csp3|Dscr1l2	regulator of calcineurin 3	protein-coding	6.0	7.5	2.0	92.0	11.5	4.5	9.5	5.5
Merged-chr10-88622781-4	chr10	88622703	88622903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17651.0	NM_175418	109272.0	Mm.147208	NM_175418	ENSMUSG00000020061	Mybpc1	8030451F13Rik	myosin binding protein C, slow-type	protein-coding	41.0	68.0	69.0	908.0	50.0	20.5	32.5	45.5
Merged-chr10-22308342-4	chr10	22308252	22308452	+	996.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015465, intron 2 of 2)	intron (NR_015465, intron 2 of 2)	1632.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	63.0	96.0	38.0	606.5	49.5	17.5	18.0	13.5
Merged-chr9-86016666-1	chr9	86016566	86016766	+	716.666687	f0_balb.idr	Intergenic	Intergenic	173814.0	NM_001164792	21983.0	Mm.20864	NM_011627	ENSMUSG00000035274	Tpbg	5T4|AW495680|WAIF1	trophoblast glycoprotein	protein-coding	11.0	9.0	12.0	104.0	3.5	3.5	0.0	1.5
Merged-chr12-32306591-4	chr12	32306491	32306691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-72198.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	41.5	87.0	44.0	605.0	154.5	33.0	53.5	35.5
Merged-chr19-46478950-4	chr19	46478847	46479047	+	971.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025391, intron 10 of 11)	intron (NM_001025391, intron 10 of 11)	-22701.0	NM_053100	93679.0	Mm.392177	NM_053100	ENSMUSG00000025034	Trim8	AA408830|BB006755|GERP|Rnf27	tripartite motif-containing 8	protein-coding	40.0	55.0	35.0	686.5	56.5	27.5	17.5	11.0
Merged-chr15-76872491-2	chr15	76872351	76872551	+	675.125	f0_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-1016.0	NM_001007568	71591.0	Mm.38195	NM_001007568	ENSMUSG00000022526	Zfp251	9130001M19Rik|AV339307	zinc finger protein 251	protein-coding	10.0	10.5	5.5	103.0	9.5	5.5	1.0	5.0
Merged-chr6-35569000-4	chr6	35568919	35569119	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29131.0	NM_008098	14489.0	Mm.182746	NM_008098	ENSMUSG00000029840	Mtpn	5033418D15Rik|Gcdp|V1	myotrophin	protein-coding	59.0	185.0	73.5	340.5	211.0	86.0	76.0	48.5
Merged-chr4-142021407-4	chr4	142021308	142021508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131014, intron 1 of 1)	intron (NR_131014, intron 1 of 1)	3510.0	NR_131014	78917.0	Mm.139995	NR_131014	ENSMUSG00000085761	4930455G09Rik	-	RIKEN cDNA 4930455G09 gene	ncRNA	66.0	67.5	63.0	1355.5	145.5	43.5	71.5	106.5
Merged-chr17-26781024-4	chr17	26780941	26781141	+	839.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172149)	promoter-TSS (NM_172149)	-38.0	NM_172149	224630.0	Mm.21795	NM_172149	ENSMUSG00000024191	Bnip1	2010005M06Rik|5930429G21Rik|Sec20	BCL2/adenovirus E1B interacting protein 1	protein-coding	11.5	21.0	5.5	135.0	13.5	10.5	5.0	18.0
Merged-chr3-148325142-4	chr3	148325027	148325227	+	994.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	629508.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	26.0	25.0	26.0	518.0	73.0	25.5	29.5	16.0
Merged-chr6-142756664-4	chr6	142756539	142756739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009908)	promoter-TSS (NM_009908)	-47.0	NM_009908	12764.0	Mm.3820	NM_009908	ENSMUSG00000030282	Cmas	AW208911|CMPNeu5Ac|D6Bwg0250e	cytidine monophospho-N-acetylneuraminic acid synthetase	protein-coding	91.0	92.5	57.0	1120.0	205.5	59.5	111.0	92.0
Merged-chr13-91132194-2	chr13	91132094	91132294	+	691.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_025770, intron 3 of 7)	MTB_Mm|LTR|ERVL-MaLR	91793.0	NM_025770	66795.0	Mm.235385	NM_025770	ENSMUSG00000021619	Atg10	5330424L23Rik|5430428K15Rik|AI852123|APG10|Agp10|Apg10l|Apg10p|Atg10l	autophagy related 10	protein-coding	6.0	5.5	5.0	63.5	4.0	2.0	2.0	3.0
Merged-chr17-84957798-4	chr17	84957689	84957889	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159496)	promoter-TSS (NM_001159496)	-79.0	NR_027930	68531.0	Mm.249695	NR_027929	ENSMUSG00000097047	1110020A21Rik	2600015P10Rik	RIKEN cDNA 1110020A21 gene	ncRNA	494.0	724.0	539.0	6948.0	1349.0	542.5	690.5	545.0
Merged-chr6-6216591-3	chr6	6216496	6216696	+	965.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177572, intron 1 of 17)	intron (NM_001177572, intron 1 of 17)	577.0	NM_015829	50799.0	Mm.24513	NM_015829	ENSMUSG00000015112	Slc25a13	AI785475|Ctrn	solute carrier family 25 (mitochondrial carrier, adenine nucleotide translocator), member 13	protein-coding	27.5	18.0	19.0	274.5	19.0	12.0	5.5	11.5
Merged-chr18-56709012-4	chr18	56708913	56709113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010721, intron 1 of 10)	CpG	1200.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	116.0	202.5	154.0	2315.5	366.5	110.0	212.5	152.0
Merged-chr17-12758949-2	chr17	12758849	12759049	+	741.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_010515, intron 1 of 47)	intron (NM_010515, intron 1 of 47)	10757.0	NM_010515	16004.0	Mm.26553	NM_010515	ENSMUSG00000023830	Igf2r	AI661837|CD222|CI-MPR|M6P/IGF2R|Mpr300	insulin-like growth factor 2 receptor	protein-coding	7.0	12.0	6.5	8.0	16.5	6.0	4.5	11.0
Merged-chr1-185362925-4	chr1	185362776	185362976	+	987.6785890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029735)	promoter-TSS (NM_029735)	-168.0	NM_029735	107508.0	Mm.154511	NM_029735	ENSMUSG00000026615	Eprs	2410081F06Rik|3010002K18Rik|C79379|Qprs	glutamyl-prolyl-tRNA synthetase	protein-coding	140.5	229.5	127.0	1704.0	371.0	154.5	196.5	192.0
Merged-chr11-117947162-1	chr11	117947062	117947262	+	1000.0	f0_c57.idr	Intergenic	Intergenic	22204.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	32.0	50.5	11.0	246.0	100.5	35.5	32.5	30.0
Merged-chr6-31471556-3	chr6	31471446	31471646	+	589.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013791, intron 10 of 17)	ORR1F|LTR|ERVL-MaLR	72718.0	NM_013791	27418.0	Mm.238038	NM_013791	ENSMUSG00000025609	Mkln1	A130067F06Rik|AU015903|BB154892	muskelin 1, intracellular mediator containing kelch motifs	protein-coding	7.0	7.0	6.5	101.5	10.0	4.0	3.0	8.5
Merged-chr13-76098690-4	chr13	76098599	76098799	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029847)	promoter-TSS (NM_029847)	-35.0	NM_001081352	218343.0	Mm.277964	NM_001081352	ENSMUSG00000033991	Ttc37	-	tetratricopeptide repeat domain 37	protein-coding	200.0	283.0	219.0	3303.5	482.0	174.0	207.0	219.0
Merged-chr19-41982123-4	chr19	41982043	41982243	+	942.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	CpG	380.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	15.5	22.0	14.5	83.5	27.5	13.0	13.0	12.0
Merged-chr9-108517308-7	chr9	108517224	108517424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175143, intron 1 of 9)	CpG	237.0	NM_175143	69232.0	Mm.335449	NM_175143	ENSMUSG00000006673	Qrich1	2610028H07Rik|b2b2404Clo	glutamine-rich 1	protein-coding	52.0	98.0	25.0	586.5	97.5	54.0	75.5	70.5
Merged-chr6-55037853-6	chr6	55037655	55037855	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_180678)	promoter-TSS (NM_180678)	-246.0	NM_180678	353172.0	Mm.250004	NM_180678	ENSMUSG00000029777	Gars	GENA202|Gena201|Nmf249|Sgrp23	glycyl-tRNA synthetase	protein-coding	9.5	6.5	21.5	226.0	33.5	14.0	12.0	18.5
Merged-chr5-66112239-4	chr5	66112148	66112348	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	-14069.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	195.5	331.5	181.5	3020.0	437.0	181.5	204.5	158.5
Merged-chr11-75538119-3	chr11	75538060	75538260	+	787.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 2 of 13)	intron (NM_001199284, intron 2 of 13)	6048.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	11.0	10.5	10.5	38.5	10.0	6.5	3.5	3.0
Merged-chr17-7931764-4	chr17	7931657	7931857	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145968, intron 8 of 9)	intron (NM_145968, intron 8 of 9)	5757.0	NM_145968	72536.0	Mm.119680	NM_145968	ENSMUSG00000033450	Tagap	2610315E15Rik|TRD|Tcd-1|Tcd1|Tcd1a|tcs-1|tcs1	T cell activation Rho GTPase activating protein	protein-coding	31.0	21.5	20.5	277.0	45.5	10.5	5.5	8.5
Merged-chr5-103680525-4	chr5	103680425	103680625	+	932.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41|LTR|ERVL	-24793.0	NM_001163550	74218.0	Mm.159141	NM_028824	ENSMUSG00000029320	1700016H13Rik	-	RIKEN cDNA 1700016H13 gene	protein-coding	20.5	16.5	9.5	218.5	53.5	19.0	14.5	28.0
Merged-chr13-37658204-4	chr13	37658108	37658308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR20A4|LTR|ERVK	-167830.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	44.0	67.5	35.0	437.0	87.5	42.5	40.0	39.0
Merged-chr7-108934320-4	chr7	108934225	108934425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025344)	promoter-TSS (NM_025344)	-90.0	NM_025344	66085.0	Mm.182962	NM_025344	ENSMUSG00000031029	Eif3f	0610037M02Rik|AA409853|Eif3s5	eukaryotic translation initiation factor 3, subunit F	protein-coding	235.5	478.0	251.0	3906.0	704.5	320.0	286.5	227.0
Merged-chr2-164858327-4	chr2	164858217	164858417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011125)	promoter-TSS (NM_011125)	-609.0	NM_011125	18830.0	Mm.6105	NM_011125	ENSMUSG00000017754	Pltp	Bpife|OD107	phospholipid transfer protein	protein-coding	39.0	41.5	31.5	815.5	74.5	21.0	30.0	36.5
Merged-chr13-12464343-4	chr13	12464237	12464437	+	912.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-2599.0	NM_001291057	56048.0	Mm.474138	NM_018886	ENSMUSG00000057554	Lgals8	1200015E08Rik|AI326142|D13Ertd524e|Lgals-8	lectin, galactose binding, soluble 8	protein-coding	9.0	12.5	16.5	173.0	42.0	8.0	15.5	23.0
Merged-chr6-125145845-5	chr6	125145776	125145976	+	902.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001302779, exon 1 of 9)	exon (NM_001302779, exon 1 of 9)	652.0	NM_001302779	320678.0	Mm.129415	NM_178787	ENSMUSG00000038271	Iffo1	4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo	intermediate filament family orphan 1	protein-coding	5.5	10.0	6.0	75.0	15.0	11.5	8.0	15.0
Merged-chr11-116615350-1	chr11	116615250	116615450	+	704.75	f0_balb.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	8902.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	10.5	13.0	7.0	92.0	25.0	11.5	7.5	8.5
Merged-chr7-128305093-4	chr7	128304980	128305180	+	786.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6949.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	2.5	17.0	14.5	46.5	33.5	4.5	15.5	5.0
Merged-chr13-20090603-4	chr13	20090454	20090654	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080288)	promoter-TSS (NM_080288)	47.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	35.5	68.5	28.5	524.5	120.0	56.0	41.0	52.5
Merged-chr16-13796811-4	chr16	13796722	13796922	+	973.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039521, intron 10 of 17)	intron (NM_001039521, intron 10 of 17)	16123.0	NM_001039521	106298.0	Mm.288606	NM_001039521	ENSMUSG00000022682	Rrn3	AL023001|E130302O19Rik|R75565|TIF-1A|Tif1a	RRN3 RNA polymerase I transcription factor homolog (yeast)	protein-coding	19.0	23.0	16.0	328.5	44.5	11.5	20.5	25.5
Merged-chr3-136347518-4	chr3	136347411	136347611	+	808.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M5|LINE|L1	-21445.0	NM_001033350	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	9.0	18.0	8.0	252.0	54.5	12.5	13.5	14.0
Merged-chr14-73473797-4	chr14	73473685	73473885	+	881.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-36264.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	3.0	6.5	4.5	130.0	28.0	7.0	4.5	13.5
Merged-chr4-126024653-4	chr4	126024574	126024774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045561)	promoter-TSS (NR_045561)	15.0	NM_001252651	12986.0	Mm.271701	NM_007782	ENSMUSG00000028859	Csf3r	Cd114|Csfgr|G-CSF-R|G-CSFR	colony stimulating factor 3 receptor (granulocyte)	protein-coding	46.5	112.0	26.5	574.0	157.5	69.5	60.0	40.0
Merged-chr18-55398478-4	chr18	55398372	55398572	+	666.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34|LTR|ERV1	-405881.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	13.5	14.0	221.5	23.0	1.0	3.0	7.5
Merged-chr11-97839618-3	chr11	97839515	97839715	+	865.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010688)	TTS (NM_010688)	-1165.0	NM_001080935	68127.0	Mm.110270	NM_001080935	ENSMUSG00000050538	B230217C12Rik	AI840637	RIKEN cDNA B230217C12 gene	protein-coding	6.5	19.0	2.0	78.0	33.5	12.0	16.5	21.0
Merged-chr15-64092750-4	chr15	64092644	64092844	+	921.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 27 of 28)	intron (NM_001276461, intron 27 of 28)	-32296.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	54.5	35.5	61.0	573.0	30.5	15.5	9.5	19.0
Merged-chr8-124242382-4	chr8	124242255	124242455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139272, intron 1 of 15)	MIR|SINE|MIR	10961.0	NM_139272	108148.0	Mm.33808	NM_139272	ENSMUSG00000089704	Galnt2	AI480629	polypeptide N-acetylgalactosaminyltransferase 2	protein-coding	125.5	166.5	176.5	2220.5	404.0	167.0	215.0	186.5
Merged-chr2-133554931-3	chr2	133554827	133555027	+	996.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007553, intron 2 of 2)	intron (NM_007553, intron 2 of 2)	2768.0	NM_007553	12156.0	Mm.103205	NM_007553	ENSMUSG00000027358	Bmp2	AI467020|Bmp2a	bone morphogenetic protein 2	protein-coding	28.0	28.5	19.5	195.0	14.5	16.0	10.5	4.0
Merged-chr3-96576381-4	chr3	96576280	96576480	+	946.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9579.0	NR_040409	100038464.0	Mm.475126	NR_040409	ENSMUSG00000074398	Gm15441	-	predicted gene 15441	ncRNA	20.5	53.0	7.5	112.5	45.0	26.0	21.0	18.5
Merged-chr17-5150894-3	chr17	5150795	5150995	+	885.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	155821.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	7.5	12.0	17.0	157.0	5.5	1.5	15.0	7.5
Merged-chr12-111166451-4	chr12	111166358	111166558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286122)	promoter-TSS (NM_001286122)	88.0	NM_011632	22031.0	Mm.27431	NM_011632	ENSMUSG00000021277	Traf3	AI528849|CAP-1|CD40bp|CRAF1|LAP1|T-BAM|amn	TNF receptor-associated factor 3	protein-coding	68.5	159.0	42.0	713.0	183.0	75.5	93.5	48.0
Merged-chr14-120326616-4	chr14	120326544	120326744	+	748.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360376, intron 2 of 8)	B4|SINE|B4	20192.0	NM_001360376	105559.0	Mm.238266	NM_175341	ENSMUSG00000022139	Mbnl2	1110002M11Rik|AI047808|AI837313|AI849185|AL118326|MBLL|R75232|mKIAA4072	muscleblind like splicing factor 2	protein-coding	6.5	8.0	8.5	153.0	24.5	7.0	12.5	6.0
Merged-chr3-110250876-6	chr3	110250708	110250908	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_024139, exon 1 of 2)	non-coding (NR_024139, exon 1 of 2)	191.0	NM_178891	99890.0	Mm.36115	NM_178891	ENSMUSG00000049300	Prmt6	AW124876|BB233495|Hrmt1l6	protein arginine N-methyltransferase 6	protein-coding	15.0	23.5	51.0	367.0	40.5	19.0	21.5	26.0
Merged-chr10-62578490-4	chr10	62578367	62578567	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028197)	promoter-TSS (NM_028197)	-10.0	NM_028197	72320.0	Mm.258955	NM_028197	ENSMUSG00000036955	Kif1bp	0710007C18Rik|2510003E04Rik|KBP|mKIAA1279	KIF1 binding protein	protein-coding	153.5	186.0	97.0	2005.5	360.0	159.5	157.0	144.0
Merged-chr1-55052684-4	chr1	55052584	55052784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026424)	promoter-TSS (NM_026424)	-86.0	NM_026424	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	423.5	656.0	437.0	5410.5	1049.5	418.0	497.5	395.5
Merged-chr11-118222552-4	chr11	118222451	118222651	+	953.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	intron (NM_011180, intron 1 of 12)	-9809.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	24.0	18.5	22.5	445.5	32.0	7.0	12.5	28.0
Merged-chr12-110933035-4	chr12	110932928	110933128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081057, exon 10 of 21)	exon (NM_001081057, exon 10 of 21)	43764.0	NM_001081057	104859.0	Mm.35583	NM_175336	ENSMUSG00000021275	Tecpr2	4930573I19Rik|AI604920|mKIAA0297	tectonin beta-propeller repeat containing 2	protein-coding	44.0	57.5	68.5	1242.5	69.0	29.5	47.5	47.0
Merged-chr4-140987726-4	chr4	140987632	140987832	+	948.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164366, intron 1 of 28)	intron (NM_001164366, intron 1 of 28)	859.0	NM_001164366	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	13.5	5.5	17.0	168.0	27.0	6.5	6.5	17.5
Merged-chr16-4723587-6	chr16	4723491	4723691	+	818.277771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2770.0	NM_001136066	15369.0	Mm.272866	NM_010443	ENSMUSG00000004070	Hmox2	HO-2|HO2	heme oxygenase 2	protein-coding	10.5	5.0	14.5	117.5	21.5	3.0	6.5	10.0
Merged-chr4-141867702-4	chr4	141867601	141867801	+	919.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025994, intron 1 of 3)	intron (NM_025994, intron 1 of 3)	7219.0	NM_025994	27984.0	Mm.395598	NM_025994	ENSMUSG00000040659	Efhd2	2600015J22Rik|AA408606|D4Wsu27e	EF hand domain containing 2	protein-coding	14.0	34.0	10.5	146.5	68.5	25.0	25.5	45.0
Merged-chr3-15156926-4	chr3	15156810	15157010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	175392.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	28.5	35.0	44.0	575.5	69.0	23.5	26.5	33.5
Merged-chr14-54423534-3	chr14	54423452	54423652	+	687.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-3357.0	NM_026851	68836.0	Mm.248163	NM_026851	ENSMUSG00000010406	Mrpl52	1110047B07Rik	mitochondrial ribosomal protein L52	protein-coding	5.5	16.5	3.5	27.5	23.0	7.5	6.5	6.0
Merged-chr2-34778644-4	chr2	34778529	34778729	+	980.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_145522)	TTS (NM_145522)	6539.0	NM_022310	14828.0	Mm.330160	NM_022310	ENSMUSG00000026864	Hspa5	AL022860|AU019543|Bip|D2Wsu141e|D2Wsu17e|Grp78|Hsce70|SEZ-7|Sez7|baffled|mBiP	heat shock protein 5	protein-coding	11.5	38.5	16.5	124.0	73.5	37.0	18.5	18.0
Merged-chr10-45276619-4	chr10	45276478	45276678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12727.0	NM_024286	78977.0	Mm.24748	NM_024286	ENSMUSG00000019848	Popdc3	AA682104|Pop3	popeye domain containing 3	protein-coding	21.0	66.5	33.0	461.5	64.0	19.5	36.5	15.0
Merged-chr8-3664623-4	chr8	3664523	3664723	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1139.0	NM_026985	69189.0	Mm.175176	NM_026985	ENSMUSG00000013974	Mcemp1	1810033B17Rik	mast cell expressed membrane protein 1	protein-coding	131.5	170.5	125.5	1767.5	253.5	112.0	138.5	127.5
Merged-chr14-103037245-4	chr14	103037091	103037291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3388.0	NR_045657	71264.0	Mm.399572	NR_045657	ENSMUSG00000114980	4933432I03Rik	-	RIKEN cDNA 4933432I03 gene	ncRNA	117.5	206.0	163.5	2244.5	332.0	134.5	169.0	128.0
Merged-chr6-94221925-3	chr6	94221811	94222011	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130996, intron 1 of 1)	URR1B|DNA|hAT-Charlie	15531.0	NR_130996	78178.0	Mm.452749	NR_130996	ENSMUSG00000045095	4930511A08Rik	-	RIKEN cDNA 4930511A08 gene	ncRNA	16.5	38.5	21.5	285.0	1.5	2.0	7.0	2.5
Merged-chr5-23999708-2	chr5	23999606	23999806	+	950.5	f0_balb.idr|f1_c57bl6.idr	intron (NM_001310471, intron 2 of 10)	intron (NM_001310471, intron 2 of 10)	30606.0	NM_001310471	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	3.5	7.0	12.0	169.0	15.0	6.0	14.5	10.0
Merged-chr14-57525515-3	chr14	57525376	57525576	+	804.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_145837, exon 2 of 3)	exon (NM_145837, exon 2 of 3)	647.0	NM_145837	239114.0	Mm.390726	NM_145837	ENSMUSG00000050222	Il17d	AI462269|IL-17D	interleukin 17D	protein-coding	7.0	5.5	18.5	83.0	15.0	4.0	4.5	7.5
Merged-chr19-6057897-4	chr19	6057870	6058070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160239)	promoter-TSS (NM_001160239)	3.0	NM_001190436	14109.0	Mm.329631	NM_007990	ENSMUSG00000038274	Fau	MNSFbeta	Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived)	protein-coding	87.0	107.5	50.0	717.0	167.0	79.0	70.5	58.5
Merged-chr4-127043662-4	chr4	127043567	127043767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17487.0	NM_026670	68310.0	Mm.273806	NM_026670	ENSMUSG00000043872	Zmym1	5830412B09Rik|AW209050	zinc finger, MYM domain containing 1	protein-coding	32.0	42.0	26.0	345.5	100.0	40.5	31.0	29.0
Merged-chr5-91402907-3	chr5	91402812	91403012	+	970.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007568)	promoter-TSS (NM_007568)	82.0	NM_007568	12223.0	Mm.2024	NM_007568	ENSMUSG00000082361	Btc	Bcn	betacellulin, epidermal growth factor family member	protein-coding	18.5	20.5	14.5	187.5	8.0	2.5	2.5	5.0
Merged-chr8-122682643-3	chr8	122682525	122682725	+	693.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009824, intron 1 of 11)	intron (NM_009824, intron 1 of 11)	-4450.0	NM_177289	12398.0	Mm.194339	NM_009824	ENSMUSG00000006362	Cbfa2t3	A630044F12Rik|AI465270|AW229127|Cbfa2t3h|ETO-2|Eto2|MTGR2	core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human)	protein-coding	4.0	6.5	3.0	63.5	28.5	11.0	17.5	11.0
Merged-chr8-35387130-4	chr8	35387030	35387230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177741, exon 2 of 2)	3' UTR (NM_177741, exon 2 of 2)	11389.0	NM_177741	244416.0	Mm.247126	NM_177741	ENSMUSG00000046794	Ppp1r3b	6430576E21|AW821953|GL|PTG	protein phosphatase 1, regulatory (inhibitor) subunit 3B	protein-coding	31.0	61.5	55.0	806.5	115.0	40.5	56.0	63.0
Merged-chr13-112999039-3	chr13	112998957	112999157	+	740.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001037914, exon 7 of 7)	exon (NM_001037914, exon 7 of 7)	5189.0	NM_001037914	622408.0	Mm.360976	NM_001037914	ENSMUSG00000074651	Mcidas	EG622408|Gm6320|Idas|Mci|Mcin	multiciliate differentiation and DNA synthesis associated cell cycle protein	protein-coding	8.0	18.0	6.0	66.0	18.5	5.5	5.0	9.0
Merged-chr16-87597724-4	chr16	87597621	87597821	+	941.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	44391.0	NM_144854	224419.0	Mm.194466	NM_144854	ENSMUSG00000025610	Map3k7cl	C21orf7|ORF63|Tak1l	Map3k7 C-terminal like	protein-coding	20.5	29.0	15.0	308.0	48.5	10.0	10.0	28.0
Merged-chr11-117991917-4	chr11	117991813	117992013	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151726, intron 1 of 9)	intron (NR_151726, intron 1 of 9)	5056.0	NR_151726	74451.0	Mm.28864	NM_133757	ENSMUSG00000017715	Pgs1	2610019F11Rik|4933424M23Rik|SAF	phosphatidylglycerophosphate synthase 1	protein-coding	140.5	193.0	117.5	1790.0	251.5	107.5	111.5	93.0
Merged-chr10-70195937-4	chr10	70195843	70196043	+	713.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D9|SINE|Alu	-8721.0	NM_001304739	69563.0	Mm.64672	NM_001304739	ENSMUSG00000019933	Mrln	2310015B20Rik|Linc-RAM|Mln	myoregulin	protein-coding	4.0	7.0	8.0	76.5	32.5	8.5	18.5	11.5
Merged-chr4-141363372-3	chr4	141363298	141363498	+	885.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4794.0	NM_001085513	277743.0	Mm.294614	NM_001085513	ENSMUSG00000006218	Fam131c	Gm693	family with sequence similarity 131, member C	protein-coding	8.5	12.0	4.0	121.0	43.0	10.5	9.5	8.0
Merged-chr13-51843014-4	chr13	51842897	51843097	+	948.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3678.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	12.0	20.5	11.0	254.5	38.0	9.0	13.5	19.5
Merged-chr11-3199713-4	chr11	3199598	3199798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2655.0	NM_001166548	74203.0	Mm.255649	NM_023743	ENSMUSG00000020454	Eif4enif1	2610509L04Rik|A930019J01Rik|AA410001|AU021239|Clast4|D11Ertd166e	eukaryotic translation initiation factor 4E nuclear import factor 1	protein-coding	11.0	14.0	21.0	111.5	25.5	16.5	23.0	32.5
Merged-chr4-137861742-3	chr4	137861633	137861833	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199307)	promoter-TSS (NM_199307)	-504.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	23.5	26.0	28.0	254.0	29.0	5.5	6.0	15.0
Merged-chr10-99349491-3	chr10	99349385	99349585	+	959.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86254.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	20.0	40.5	27.0	130.0	47.0	6.0	12.5	9.5
Merged-chr1-20064443-1	chr1	20064343	20064543	+	1000.0	f0_balb.idr	intron (NM_153179, intron 66 of 66)	intron (NM_153179, intron 66 of 66)	-292011.0	NR_045734	75028.0	Mm.417820	NR_045734	ENSMUSG00000089914	4930486I03Rik	-	RIKEN cDNA 4930486I03 gene	ncRNA	6.0	7.5	15.0	222.0	10.5	3.5	2.0	3.5
Merged-chr5-64676432-4	chr5	64676328	64676528	+	964.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65729.0	NR_045078	100042198.0	Mm.25191	NR_045078	ENSMUSG00000105402	Gm3716	Gm1683	predicted gene 3716	ncRNA	34.0	64.5	36.5	372.0	61.0	31.0	15.0	14.5
Merged-chr19-32186644-4	chr19	32186549	32186749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	24364.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	91.0	170.5	99.0	1162.5	147.0	49.0	45.5	38.0
Merged-chr11-55204307-4	chr11	55204140	55204340	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153139)	promoter-TSS (NM_153139)	-100.0	NM_153139	215335.0	Mm.35732	NM_153139	ENSMUSG00000020261	Slc36a1	5830411H19Rik|AI839897|Pat1	solute carrier family 36 (proton/amino acid symporter), member 1	protein-coding	32.0	47.5	38.5	324.0	81.5	24.0	28.5	25.0
Merged-chr9-41081089-4	chr9	41080966	41081166	+	907.6416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	-1560.0	NM_001357412	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	7.5	19.5	14.5	196.5	37.5	6.5	8.0	13.5
Merged-chr2-140783578-3	chr2	140783483	140783683	+	949.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	intron (NM_001013802, intron 3 of 18)	-112107.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	9.0	14.5	15.5	214.5	12.5	0.5	3.5	6.5
Merged-chr11-82073193-4	chr11	82073106	82073306	+	932.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15374.0	NM_011330	20292.0	Mm.4686	NM_011330	ENSMUSG00000020676	Ccl11	Scya11|eotaxin	chemokine (C-C motif) ligand 11	protein-coding	20.5	24.5	6.0	74.5	36.0	27.5	15.5	15.5
Merged-chr12-108700205-3	chr12	108700036	108700236	+	826.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027299, intron 1 of 2)	intron (NM_027299, intron 1 of 2)	2170.0	NM_001171002	70059.0	Mm.207605	NM_027299	ENSMUSG00000021263	Degs2	2210008A03Rik|AI852933|DES2	delta(4)-desaturase, sphingolipid 2	protein-coding	7.0	10.0	10.5	126.5	18.0	4.5	3.5	11.5
Merged-chr2-71212197-2	chr2	71212097	71212297	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347173, intron 1 of 17)	CpG	251.0	NM_010064	13427.0	Mm.249479	NM_010064	ENSMUSG00000027012	Dync1i2	3110079H08Rik|AW554389|Dncic2	dynein cytoplasmic 1 intermediate chain 2	protein-coding	7.5	6.0	9.5	103.5	15.0	8.0	12.0	18.5
Merged-chr19-29940443-4	chr19	29940298	29940498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360725, intron 2 of 8)	intron (NM_001360725, intron 2 of 8)	-5392.0	NM_001164724	77125.0	Mm.182359	NM_133775	ENSMUSG00000024810	Il33	9230117N10Rik|Il-33|Il1f11|NF-HEV	interleukin 33	protein-coding	197.0	225.0	212.0	3060.0	420.0	146.5	193.0	142.0
Merged-chr10-57799667-4	chr10	57799570	57799770	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020561, intron 1 of 7)	ORR1D2|LTR|ERVL-MaLR	5126.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	26.5	76.5	57.0	856.0	102.5	38.5	45.0	50.5
Merged-chr13-42049617-4	chr13	42049514	42049714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2407.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	45.5	93.5	40.0	383.5	152.5	64.0	79.0	46.5
Merged-chr6-84590459-4	chr6	84590373	84590573	+	972.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175475, intron 1 of 6)	intron (NM_175475, intron 1 of 6)	3337.0	NM_175475	232174.0	Mm.255246	NM_175475	ENSMUSG00000063415	Cyp26b1	CP26|P450RAI-2	cytochrome P450, family 26, subfamily b, polypeptide 1	protein-coding	24.0	35.0	12.5	285.0	55.5	15.5	19.5	17.5
Merged-chr13-89742348-4	chr13	89742210	89742410	+	798.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_019389, exon 1 of 14)	5' UTR (NM_019389, exon 1 of 14)	202.0	NM_001081249	13003.0	Mm.158700	NM_019389	ENSMUSG00000021614	Vcan	5430420N07Rik|9430051N09|Cspg2|DPEAAE|NG2|PG-M|PG-M(V0)|PG-M(V1)|hdf	versican	protein-coding	3.5	8.5	10.5	116.5	18.0	8.5	8.5	19.0
Merged-chr7-89168770-3	chr7	89168676	89168876	+	587.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360746, intron 6 of 14)	intron (NM_001360746, intron 6 of 14)	170011.0	NM_028343	72759.0	Mm.208477	NM_028343	ENSMUSG00000039428	Tmem135	2810439K08Rik|AW319712|PMP52	transmembrane protein 135	protein-coding	3.0	8.0	5.5	100.5	15.5	8.5	10.0	9.0
Merged-chr8-20550224-4	chr8	20550132	20550332	+	991.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-64695.0	NM_001270553	100861668.0	Mm.491087	NM_001270553	ENSMUSG00000095294	Gm21119	-	predicted gene, 21119	protein-coding	117.5	181.0	80.5	807.0	239.5	70.0	156.0	80.0
Merged-chr8-4239549-1	chr8	4239449	4239649	+	745.0	f1_c57bl6.idr	promoter-TSS (NM_001291778)	promoter-TSS (NM_001291778)	-556.0	NM_001291783	26400.0	Mm.3906	NM_011944	ENSMUSG00000002948	Map2k7	5930412N11Rik|JNKK 2|Jnkk2|MAPKK 7|MEK 7|Mapkk7|Mek7|Mkk7|Prkmk7|sek2	mitogen-activated protein kinase kinase 7	protein-coding	4.0	16.5	6.0	129.5	22.5	5.5	10.0	10.0
Merged-chr5-90853375-3	chr5	90853264	90853464	+	915.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37881.0	NM_008176	14825.0	Mm.21013	NM_008176	ENSMUSG00000029380	Cxcl1	Fsp|Gro1|KC|Mgsa|N51|Scyb1|gro	chemokine (C-X-C motif) ligand 1	protein-coding	14.5	27.0	33.5	608.5	17.5	0.0	5.5	8.5
Merged-chr10-80321138-4	chr10	80321090	80321290	+	945.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025521)	promoter-TSS (NM_025521)	-642.0	NM_025521	66374.0	Mm.383824	NM_025521	ENSMUSG00000020133	2310011J03Rik	AI452186|AW545358	RIKEN cDNA 2310011J03 gene	protein-coding	16.5	16.0	13.0	115.0	35.0	7.0	13.5	13.0
Merged-chr13-112100852-3	chr13	112100765	112100965	+	842.644409	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-187586.0	NM_001168403	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	7.0	7.0	13.5	119.5	11.0	7.0	2.5	3.0
Merged-chr14-55585282-4	chr14	55585176	55585376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033146)	promoter-TSS (NM_033146)	-22.0	NM_033146	85308.0	Mm.40667	NM_033146	ENSMUSG00000022217	Emc9	1500005A01Rik|Cgi112|Fam158a	ER membrane protein complex subunit 9	protein-coding	61.0	68.5	37.0	654.5	115.0	24.0	53.0	42.0
Merged-chr2-122418522-4	chr2	122418423	122418623	+	998.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22297.0	NM_172980	269346.0	Mm.29510	NM_172980	ENSMUSG00000027219	Slc28a2	2010208B10Rik|B430217P18|BB152493|Cnt2|SPNT	solute carrier family 28 (sodium-coupled nucleoside transporter), member 2	protein-coding	56.0	109.5	73.0	664.0	42.0	21.5	23.0	21.5
Merged-chr2-132096027-4	chr2	132095924	132096124	+	946.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355431, intron 2 of 6)	Lx8|LINE|L1	49084.0	NM_001355431	54338.0	Mm.103581	NM_018824	ENSMUSG00000027340	Slc23a2	AI844736|NBTL1|SVCT2|Slc23a1|YSPL2|YSPL3|mKIAA0238	solute carrier family 23 (nucleobase transporters), member 2	protein-coding	26.0	25.0	9.5	315.0	40.0	13.5	14.5	26.5
Merged-chr2-4517789-3	chr2	4517690	4517890	+	849.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177843, intron 7 of 23)	intron (NM_001177843, intron 7 of 23)	-41964.0	NM_001177844	209630.0	Mm.37932	NM_172475	ENSMUSG00000026657	Frmd4a	2700017I06Rik|5330420J21|AI594879|C230040M21Rik|Frmd4|Gm13190|mKIAA1294	FERM domain containing 4A	protein-coding	5.5	7.5	7.5	174.0	17.5	5.0	6.0	8.0
Merged-chr13-113490694-4	chr13	113490598	113490798	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 1 of 6)	intron (NR_045501, intron 1 of 6)	12146.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	96.5	110.0	127.0	1515.5	210.5	59.0	128.0	77.0
Merged-chr11-106085216-8	chr11	106085113	106085313	+	998.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 1 of 15)	CpG	311.0	NM_011947	26406.0	Mm.27041	NM_011947	ENSMUSG00000020700	Map3k3	AW548911|MAPKKK3|Mekk3|mKIAA4031	mitogen-activated protein kinase kinase kinase 3	protein-coding	15.5	29.0	14.5	215.0	60.0	25.5	33.5	33.0
Merged-chr8-46842802-4	chr8	46842690	46842890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152560, intron 6 of 7)	intron (NR_152560, intron 6 of 7)	103045.0	NR_152560	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	69.0	96.0	70.5	1143.0	125.0	42.0	70.0	58.5
Merged-chr11-20201852-4	chr11	20201762	20201962	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008996, intron 1 of 5)	CpG	450.0	NM_008996	19324.0	Mm.271944	NM_008996	ENSMUSG00000020149	Rab1a	Gtbp|Rab-1|Rab1|Ypt1|mKIAA3012	RAB1A, member RAS oncogene family	protein-coding	41.0	63.0	46.5	458.0	89.0	43.0	56.5	65.5
Merged-chr13-49371653-4	chr13	49371532	49371732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039179, intron 2 of 6)	intron (NM_001039179, intron 2 of 6)	30083.0	NM_001039180	76895.0	Mm.197387	NM_029791	ENSMUSG00000037933	Bicd2	-	BICD cargo adaptor 2	protein-coding	52.0	53.5	42.0	858.0	85.5	35.5	46.0	49.0
Merged-chr1-138174304-3	chr1	138174211	138174411	+	780.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	815.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	3.0	16.5	1.5	94.5	16.0	8.0	6.0	11.5
Merged-chr2-84505227-3	chr2	84505137	84505337	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046046, intron 1 of 2)	IAPLTR1_Mm|LTR|ERVK	1636.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	0.0	1.0	0.0	0.0	121.0	40.0	69.5	54.5
Merged-chr12-5213885-4	chr12	5213795	5213995	+	896.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164493, intron 2 of 13)	intron (NM_001164493, intron 2 of 13)	161787.0	NM_001164493	208439.0	Mm.388281	NM_001164493	ENSMUSG00000020627	Klhl29	A230106N14Rik|Gm68|Kbtbd9|mKIAA1921	kelch-like 29	protein-coding	17.5	10.0	13.0	448.0	27.0	11.5	16.5	15.5
Merged-chr2-103796007-4	chr2	103795937	103796137	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111292, intron 1 of 16)	intron (NM_001111292, intron 1 of 16)	1041.0	NM_001111290	53872.0	Mm.427589	NM_016739	ENSMUSG00000027184	Caprin1	AL022980|Caprin-1|Gpiap|Gpiap1|Mmgpip137|P137|rng105	cell cycle associated protein 1	protein-coding	31.5	47.5	47.5	433.0	86.5	35.5	52.0	37.0
Merged-chr2-22773678-4	chr2	22773556	22773756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019456)	promoter-TSS (NM_019456)	-671.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	70.0	104.5	67.0	1374.5	148.5	65.0	71.0	68.5
Merged-chr2-120576277-4	chr2	120576199	120576399	+	934.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009222, intron 1 of 7)	Tigger7|DNA|TcMar-Tigger	8628.0	NM_009222	20619.0	Mm.245715	NM_009222	ENSMUSG00000027287	Snap23	23kDa|AA408749|SNAP-23|Sndt|Syndet	synaptosomal-associated protein 23	protein-coding	8.0	21.5	13.0	172.5	38.5	13.5	9.5	11.5
Merged-chr7-19276979-4	chr7	19276877	19277077	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177691, exon 5 of 5)	3' UTR (NM_177691, exon 5 of 5)	3072.0	NM_177691	232941.0	Mm.134068	NM_177691	ENSMUSG00000030402	Ppm1n	A930002H20|C79127	protein phosphatase, Mg2+/Mn2+ dependent, 1N (putative)	protein-coding	75.5	194.5	98.0	568.5	289.5	106.5	85.0	77.0
Merged-chr3-137865208-4	chr3	137865104	137865304	+	999.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001316995, exon 2 of 5)	exon (NM_001316995, exon 2 of 5)	717.0	NM_016750	51788.0	Mm.117541	NM_016750	ENSMUSG00000037894	H2afz	H2A.Z|H2a.z-1	H2A histone family, member Z	protein-coding	17.0	35.5	20.0	225.5	56.5	24.5	25.0	32.5
Merged-chr11-52360996-4	chr11	52360901	52361101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011694, exon 1 of 9)	5' UTR (NM_011694, exon 1 of 9)	139.0	NM_011694	22333.0	Mm.3555	NM_011694	ENSMUSG00000020402	Vdac1	AL033343|Vdac5|mVDAC1|mVDAC5	voltage-dependent anion channel 1	protein-coding	112.5	130.0	108.0	1763.5	255.5	92.0	135.0	112.0
Merged-chr15-25302514-2	chr15	25302414	25302614	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	111250.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	8.0	9.0	8.0	96.0	32.5	10.5	13.5	9.5
Merged-chr9-77750754-4	chr9	77750669	77750869	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-3766.0	NR_151778	14629.0	Mm.89888	NM_010295	ENSMUSG00000032350	Gclc	D9Wsu168e|GLCL-H|Ggcs-hs|Glclc	glutamate-cysteine ligase, catalytic subunit	protein-coding	161.0	207.0	149.0	2005.5	357.5	155.5	190.0	147.0
Merged-chr1-131981795-4	chr1	131981663	131981863	+	982.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_145977, exon 5 of 5)	3' UTR (NM_145977, exon 5 of 5)	11154.0	NM_145977	212980.0	Mm.200307	NM_145977	ENSMUSG00000026435	Slc45a3	2210413P12Rik|AU023994|AU043764|IPCA-6|PRST|Pcanap6	solute carrier family 45, member 3	protein-coding	18.5	43.5	23.5	296.0	39.5	12.5	13.0	18.0
Merged-chr11-87442884-4	chr11	87442793	87442993	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	CpG	15302.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	80.0	120.5	70.0	573.0	168.0	64.5	67.5	57.0
Merged-chr6-32521925-3	chr6	32521836	32522036	+	813.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 1 of 31)	MTD|LTR|ERVL-MaLR	10795.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	2.5	6.5	12.0	128.5	6.0	6.0	6.0	6.5
Merged-chr6-97508713-3	chr6	97508625	97508825	+	825.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-20905.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	3.5	6.5	8.0	15.0	48.5	7.5	13.5	7.0
Merged-chr10-58452460-4	chr10	58452365	58452565	+	757.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011240, intron 2 of 28)	intron (NM_011240, intron 2 of 28)	5613.0	NM_011240	19386.0	Mm.431695	NM_011240	ENSMUSG00000003226	Ranbp2	A430087B05Rik|AI256741|NUP358	RAN binding protein 2	protein-coding	3.5	15.5	1.0	138.5	20.5	7.0	10.5	8.0
Merged-chr4-128883571-4	chr4	128883475	128883675	+	996.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178110)	promoter-TSS (NM_178110)	-565.0	NM_178110	67525.0	Mm.30653	NM_178110	ENSMUSG00000041000	Trim62	6330414G21Rik|AI450348|Dear1	tripartite motif-containing 62	protein-coding	37.5	60.0	33.0	345.0	83.0	14.0	26.0	27.0
Merged-chr7-44306187-2	chr7	44306042	44306242	+	688.25	f1_balb.idr|f1_c57bl6.idr	intron (NM_009131, intron 2 of 3)	intron (NM_009131, intron 2 of 3)	817.0	NM_009131	20256.0	Mm.20428	NM_009131	ENSMUSG00000004473	Clec11a	AW457320|Clecsf3|Scgf	C-type lectin domain family 11, member a	protein-coding	4.5	7.5	4.5	16.5	2.5	2.0	2.0	4.0
Merged-chr16-92058248-4	chr16	92058135	92058335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017391)	promoter-TSS (NM_017391)	-87.0	NM_017391	53881.0	Mm.217354	NM_017391	ENSMUSG00000089774	Slc5a3	AA623876|BF642829|Smit1	solute carrier family 5 (inositol transporters), member 3	protein-coding	82.5	135.5	67.5	1036.0	211.5	119.5	77.0	107.5
Merged-chr15-82148758-3	chr15	82148665	82148865	+	827.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033218, intron 1 of 18)	intron (NM_033218, intron 1 of 18)	1496.0	NM_033218	20788.0	Mm.38016	NM_033218	ENSMUSG00000022463	Srebf2	AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc	sterol regulatory element binding factor 2	protein-coding	7.5	30.5	4.5	28.5	29.0	10.5	13.0	16.0
Merged-chr7-141559826-4	chr7	141559761	141559961	+	800.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur3|SINE|Alu	-2319.0	NM_001357068	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	5.5	11.0	6.0	92.0	20.0	7.5	7.0	9.5
Merged-chr17-67305010-4	chr17	67304909	67305109	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	49450.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	105.5	160.5	144.5	1772.0	417.5	168.5	207.5	164.5
Merged-chr2-60123659-4	chr2	60123572	60123772	+	883.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001182, intron 1 of 35)	intron (NM_001001182, intron 1 of 35)	2068.0	NM_001001182	407823.0	Mm.228071	NM_001001182	ENSMUSG00000026987	Baz2b	5830435C13Rik|BC053917|D2Ertd794e	bromodomain adjacent to zinc finger domain, 2B	protein-coding	4.0	5.5	14.0	223.5	18.5	15.5	16.0	11.0
Merged-chr6-113681531-4	chr6	113681425	113681625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113553, intron 8 of 11)	intron (NM_001113553, intron 8 of 11)	-15525.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	108.0	153.5	83.5	1588.5	190.0	72.5	61.5	61.5
Merged-chr2-130529585-3	chr2	130529505	130529705	+	865.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 7 of 21)	intron (NM_001355161, intron 7 of 21)	34144.0	NR_040348	321014.0	Mm.442588	NR_040348	ENSMUSG00000060029	4930473A02Rik	-	RIKEN cDNA 4930473A02 gene	ncRNA	5.5	15.0	13.0	158.0	7.0	4.0	4.0	9.0
Merged-chr2-58184330-4	chr2	58184212	58184412	+	976.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20338.0	NR_045895	100042926.0	Mm.446515	NR_045895	ENSMUSG00000086862	Gm13546	-	predicted gene 13546	ncRNA	37.5	32.5	12.5	322.0	31.5	17.5	23.0	17.5
Merged-chr14-22817530-3	chr14	22817448	22817648	+	937.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 5 of 6)	intron (NM_028275, intron 5 of 6)	-274750.0	NR_046307	74896.0	Mm.444661	NR_046307	ENSMUSG00000114412	4930405A10Rik	4930456G20Rik	RIKEN cDNA 4930405A10 gene	ncRNA	11.0	28.0	14.5	118.5	11.5	7.0	11.5	5.0
Merged-chr5-124448032-2	chr5	124447932	124448132	+	777.299988	f1_balb.idr|f1_c57bl6.idr	intron (NM_001310725, intron 2 of 6)	intron (NM_001310725, intron 2 of 6)	1328.0	NM_001310727	67956.0	Mm.137966	NM_030241	ENSMUSG00000049327	Kmt5a	2410195B05Rik|AA617402|AW536475|PR-SET7|PR/SET07|Setd8	lysine methyltransferase 5A	protein-coding	2.0	13.0	3.0	60.5	8.5	4.5	4.5	7.5
Merged-chr14-50834675-3	chr14	50834566	50834766	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009351, intron 41 of 54)	RLTR12B|LTR|ERVK	26750.0	NM_009632	11546.0	Mm.281482	NM_009632	ENSMUSG00000036023	Parp2	ADPRT-2|ARTD2|Adprt2|Adprtl2|Aspartl2|C78626|PARP-2|mPARP-2|pADPRT-2	poly (ADP-ribose) polymerase family, member 2	protein-coding	21.5	25.0	20.5	232.5	61.5	27.5	27.5	40.0
Merged-chr2-68782771-4	chr2	68782563	68782763	+	893.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-78778.0	NM_172856	241447.0	Mm.222222	NM_172856	ENSMUSG00000027035	Cers6	4732462C07Rik|AW544719|Lass6|T1L	ceramide synthase 6	protein-coding	5.0	5.5	4.5	68.0	17.5	3.0	6.5	6.5
Merged-chr14-75016641-4	chr14	75016529	75016729	+	861.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198642, intron 1 of 13)	intron (NM_198642, intron 1 of 13)	602.0	NM_198642	271221.0	Mm.320280	NM_198642	ENSMUSG00000034959	Rubcnl	5031414D18Rik|Gm744|Gm911|Kiaa0226l	RUN and cysteine rich domain containing beclin 1 interacting protein like	protein-coding	15.0	17.5	13.5	166.0	30.5	11.0	20.5	21.0
Merged-chr11-80169347-3	chr11	80169251	80169451	+	867.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 6 of 10)	intron (NM_172133, intron 6 of 10)	-14521.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	10.0	7.0	2.0	39.5	18.5	9.5	5.5	15.0
Merged-chr2-38436121-2	chr2	38436021	38436221	+	987.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER77B|LTR|ERVL	-75576.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	4.5	14.5	7.0	70.5	8.0	2.5	4.5	2.0
Merged-chr8-83425458-4	chr8	83425356	83425556	+	925.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009904, intron 13 of 14)	intron (NM_009904, intron 13 of 14)	17206.0	NM_001285992	56367.0	Mm.246911	NM_019708	ENSMUSG00000063253	Scoc	0610011C06Rik|2810002J11Rik|AA415030|SCOCO	short coiled-coil protein	protein-coding	21.5	19.5	28.0	402.5	21.5	14.0	18.0	13.0
Merged-chr2-93518000-2	chr2	93517900	93518100	+	746.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55050.0	NM_001136055	12521.0	Mm.4261	NM_007656	ENSMUSG00000027215	Cd82	AA682076|AL023070|C33|IA4|Kai1|Tspan27	CD82 antigen	protein-coding	6.0	6.0	10.0	141.0	11.0	0.5	2.0	5.5
Merged-chr1-195131624-4	chr1	195131494	195131694	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355061)	promoter-TSS (NM_001355061)	-24.0	NM_001355061	12946.0	Mm.301652	NM_013499	ENSMUSG00000016481	Cr1l	Crry|Mcp|mCRY	complement component (3b/4b) receptor 1-like	protein-coding	12.5	33.5	20.0	355.5	63.5	21.5	22.0	17.5
Merged-chr2-148498019-3	chr2	148497914	148498114	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54479.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	6.0	5.0	25.5	201.5	11.0	4.5	6.0	7.0
Merged-chr7-19747496-4	chr7	19747381	19747581	+	969.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008990, intron 1 of 8)	intron (NM_008990, intron 1 of 8)	2092.0	NM_008990	19294.0	Mm.4341	NM_008990	ENSMUSG00000062300	Nectin2	AI325026|AI987993|Cd112|MPH|Pvr|Pvrl2|Pvs|nectin-2	nectin cell adhesion molecule 2	protein-coding	28.0	67.0	18.5	162.5	113.0	31.5	23.0	19.5
Merged-chr1-128597481-3	chr1	128597424	128597624	+	769.277771	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	-5225.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	7.5	9.0	16.0	283.0	8.5	8.0	6.0	12.0
Merged-chr13-98912805-4	chr13	98912734	98912934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178716, intron 1 of 23)	intron (NM_178716, intron 1 of 23)	13550.0	NM_178716	238799.0	Mm.173286	NM_178716	ENSMUSG00000009470	Tnpo1	AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN	transportin 1	protein-coding	28.5	39.0	14.5	432.0	60.0	32.0	22.5	20.0
Merged-chr2-129604299-4	chr2	129604193	129604393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355160, intron 1 of 7)	intron (NM_001355160, intron 1 of 7)	8831.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	26.0	48.5	22.0	369.0	74.0	28.0	21.5	36.0
Merged-chr3-129831471-4	chr3	129831404	129831604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026578)	promoter-TSS (NM_026578)	-108.0	NM_026578	68147.0	Mm.24873	NM_026578	ENSMUSG00000028010	Gar1	AA409823|AI326794|C430047J18Rik|Nola1	GAR1 ribonucleoprotein	protein-coding	114.5	172.0	103.0	1514.0	244.5	91.0	108.5	92.0
Merged-chr12-99645202-2	chr12	99645102	99645302	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-17228.0	NR_045288	73457.0	Mm.383439	NR_045288	ENSMUSG00000100211	1700064M15Rik	-	RIKEN cDNA 1700064M15 gene	ncRNA	20.0	12.0	17.0	7.0	28.5	7.0	7.0	30.0
Merged-chr9-71162312-3	chr9	71162207	71162407	+	847.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073483, intron 1 of 6)	RSINE1|SINE|B4	326.0	NM_001271843	64008.0	Mm.449427	NM_022026	ENSMUSG00000032204	Aqp9	1700020I22Rik|AI266899|AQP-9	aquaporin 9	protein-coding	9.0	9.5	4.0	15.0	38.5	13.0	6.5	7.5
Merged-chr13-35447879-1	chr13	35447779	35447979	+	577.0	f0_balb.idr	Intergenic	L1MB2|LINE|L1	-211983.0	NM_009881	12593.0	Mm.29002	NM_009881	ENSMUSG00000059288	Cdyl	AI325931	chromodomain protein, Y chromosome-like	protein-coding	6.5	5.5	5.0	75.0	2.0	2.5	0.5	6.0
Merged-chr3-88425216-4	chr3	88425102	88425302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178696)	promoter-TSS (NM_178696)	-61.0	NM_001357749	229517.0	Mm.301740	NM_178696	ENSMUSG00000050144	Slc25a44	6720482A19|B430110G05Rik	solute carrier family 25, member 44	protein-coding	167.0	280.0	151.5	2299.5	383.5	159.0	187.0	139.5
Merged-chr2-150135438-4	chr2	150135359	150135559	+	827.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023266, intron 1 of 2)	intron (NM_023266, intron 1 of 2)	1219.0	NM_023266	104348.0	Mm.485851	NM_023266	ENSMUSG00000068134	Zfp120	AI315103|E030042N05Rik|F80|MZF31|Zfp844	zinc finger protein 120	protein-coding	15.0	11.0	15.0	215.5	22.5	6.0	10.0	12.0
Merged-chr17-13869297-4	chr17	13869267	13869467	+	886.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151731, intron 22 of 33)	MTA_Mm|LTR|ERVL-MaLR	-79006.0	NM_001122977	635895.0	Mm.388844	NM_001122977	ENSMUSG00000067941	Gm7168	EG635895	predicted gene 7168	protein-coding	6.5	6.5	15.0	68.5	32.5	5.0	10.5	16.5
Merged-chr7-109481013-4	chr7	109480908	109481108	+	795.104126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_181853, exon 7 of 20)	exon (NM_181853, exon 7 of 20)	12730.0	NM_001170913	330627.0	Mm.183528	NM_181853	ENSMUSG00000031026	Trim66	Kiaa0298-hp|Tif1d	tripartite motif-containing 66	protein-coding	6.5	11.0	5.5	164.5	38.0	10.0	13.5	24.0
Merged-chr15-102525299-4	chr15	102525231	102525431	+	771.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018787)	promoter-TSS (NM_018787)	-710.0	NM_018787	54615.0	Mm.445915	NM_018787	ENSMUSG00000023052	Npff	-	neuropeptide FF-amide peptide precursor	protein-coding	14.0	18.5	7.0	117.0	37.0	6.5	11.5	5.5
Merged-chr9-44267567-2	chr9	44267467	44267667	+	673.333313	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163742, intron 1 of 9)	intron (NM_001163742, intron 1 of 9)	620.0	NM_001163743	270151.0	Mm.3957	NM_178420	ENSMUSG00000032109	Nlrx1	BC034204|NOD9	NLR family member X1	protein-coding	4.5	9.0	8.5	16.0	5.5	7.0	3.5	5.0
Merged-chr10-84646820-4	chr10	84646725	84646925	+	872.142822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027423, exon 10 of 28)	exon (NM_027423, exon 10 of 28)	24388.0	NM_027423	70428.0	Mm.335007	NM_027423	ENSMUSG00000034453	Polr3b	2700078H01Rik|A330032P03Rik|C85372|RPC2	polymerase (RNA) III (DNA directed) polypeptide B	protein-coding	7.0	6.5	4.5	51.5	18.0	7.5	10.5	11.0
Merged-chr9-111571893-2	chr9	111571797	111571997	+	786.5	f0_balb.idr|f1_balb.idr	intron (NM_016853, intron 10 of 10)	ORR1E|LTR|ERVL-MaLR	118451.0	NM_016853	20840.0	Mm.1414	NM_016853	ENSMUSG00000032502	Stac	-	src homology three (SH3) and cysteine rich domain	protein-coding	19.5	11.5	8.5	174.0	16.5	7.5	8.0	5.5
Merged-chr13-81400907-4	chr13	81400807	81401007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054053, intron 77 of 89)	intron (NM_054053, intron 77 of 89)	232237.0	NM_054053	110789.0	Mm.288694	NM_054053	ENSMUSG00000069170	Adgrv1	Frings|Gpr98|Mass1|Mgr1|VLGR1	adhesion G protein-coupled receptor V1	protein-coding	2.0	4.5	15.0	223.0	31.5	6.0	17.5	8.0
Merged-chr10-51527107-4	chr10	51527046	51527246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MuRRS4-int|LTR|ERV1	36248.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	7.5	33.0	19.0	174.5	44.0	28.0	16.5	23.0
Merged-chr13-98263114-4	chr13	98263039	98263239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178918)	promoter-TSS (NM_178918)	63.0	NM_001271388	68558.0	Mm.209642	NM_023472	ENSMUSG00000021661	Ankra2	1110004M18Rik|Ankra	ankyrin repeat, family A (RFXANK-like), 2	protein-coding	270.5	381.0	294.0	3429.5	626.5	250.5	267.0	285.0
Merged-chr3-90254204-4	chr3	90254121	90254321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_013901)	TTS (NM_013901)	363.0	NM_001357152	74343.0	Mm.35627	NM_028881	ENSMUSG00000027936	Crtc2	4632407F12Rik|Torc2	CREB regulated transcription coactivator 2	protein-coding	108.5	186.0	98.0	1255.5	231.0	114.5	142.0	99.5
Merged-chr2-163017219-4	chr2	163017104	163017304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172150)	promoter-TSS (NM_172150)	-149.0	NM_172150	245866.0	Mm.34034	NM_172150	ENSMUSG00000017858	Ift52	BC037708|NGD5	intraflagellar transport 52	protein-coding	72.5	110.0	53.5	1011.5	146.0	107.5	73.5	96.5
Merged-chr16-30521920-4	chr16	30521815	30522015	+	965.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357415, intron 10 of 11)	intron (NM_001357415, intron 10 of 11)	28663.0	NM_172614	224090.0	Mm.241459	NM_172614	ENSMUSG00000022537	Tmem44	1700007N03Rik|9330161C17Rik|B230220N21	transmembrane protein 44	protein-coding	43.5	28.0	35.5	699.0	27.5	6.0	26.0	20.5
Merged-chr2-170055689-3	chr2	170055587	170055787	+	933.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15091.0	NR_033634	100043910.0	Mm.468546	NR_033632	ENSMUSG00000097065	A630075F10Rik	4831414D02|Gm4722	RIKEN cDNA A630075F10 gene	ncRNA	8.0	16.0	12.0	144.5	11.0	7.5	7.0	6.5
Merged-chr10-83638942-2	chr10	83638842	83639042	+	832.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_145220, intron 2 of 20)	ORR1F|LTR|ERVL-MaLR	9722.0	NM_145220	216190.0	Mm.282985	NM_145220	ENSMUSG00000020263	Appl2	Dip3b	adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 2	protein-coding	8.0	7.0	7.0	48.0	4.0	1.5	2.5	6.0
Merged-chr2-49743788-4	chr2	49743691	49743891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008449, intron 19 of 25)	MTD|LTR|ERVL-MaLR	-43895.0	NM_027990	71897.0	Mm.41381	NM_027990	ENSMUSG00000026765	Lypd6b	2310010M24Rik|AW049525	LY6/PLAUR domain containing 6B	protein-coding	49.5	50.0	50.0	1023.5	145.5	36.0	56.0	77.5
Merged-chr2-170401634-4	chr2	170401544	170401744	+	826.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029815, intron 4 of 12)	intron (NM_029815, intron 4 of 12)	26201.0	NM_001164369	76960.0	Mm.240850	NM_029815	ENSMUSG00000013523	Bcas1	2210416M21Rik|9030223A09Rik|AI841227|NABC1	breast carcinoma amplified sequence 1	protein-coding	10.5	17.0	5.0	128.5	25.5	12.5	3.0	17.0
Merged-chr4-59853337-4	chr4	59853195	59853395	+	854.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	(GA)n|Simple_repeat|Simple_repeat	47645.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	4.0	11.0	3.0	150.0	21.0	6.5	13.5	10.0
Merged-chr11-70038278-4	chr11	70038168	70038368	+	905.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007864, intron 8 of 19)	intron (NM_007864, intron 8 of 19)	-15856.0	NM_001291131	11889.0	Mm.6559	NM_009714	ENSMUSG00000020884	Asgr1	ASGPR1|Asgr|Asgr-1|HL-1	asialoglycoprotein receptor 1	protein-coding	15.5	9.5	3.5	136.0	39.0	11.0	15.0	13.0
Merged-chr11-75533643-2	chr11	75533543	75533743	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199284, intron 2 of 13)	intron (NM_001199284, intron 2 of 13)	1531.0	NM_001199283	215113.0	Mm.11186	NM_173388	ENSMUSG00000038178	Slc43a2	7630402D21Rik|BC042513|Lat4	solute carrier family 43, member 2	protein-coding	7.5	11.0	6.0	68.5	2.5	1.0	1.0	7.0
Merged-chr11-106033543-3	chr11	106033441	106033641	+	942.0833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037712, intron 12 of 12)	IAPLTR1_Mm|LTR|ERVK	-3331.0	NM_027946	71833.0	Mm.307455	NM_027946	ENSMUSG00000049354	Dcaf7	1700012F10Rik|2610037L01Rik|C86529|HAN11|Wdr68	DDB1 and CUL4 associated factor 7	protein-coding	0.0	3.5	3.0	0.0	21.0	32.0	14.0	20.0
Merged-chr15-81080601-4	chr15	81080434	81080634	+	870.535706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 2 of 13)	intron (NM_001082536, intron 2 of 13)	24513.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	6.5	5.0	2.0	91.0	18.0	6.5	6.0	5.0
Merged-chr5-114855404-4	chr5	114855302	114855502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026263, intron 1 of 11)	intron (NM_026263, intron 1 of 11)	1688.0	NM_026263	67593.0	Mm.251409	NM_026263	ENSMUSG00000029564	4930519G04Rik	1700014B12Rik	RIKEN cDNA 4930519G04 gene	protein-coding	50.5	72.5	50.0	831.5	135.0	68.5	81.5	86.0
Merged-chr17-36218918-4	chr17	36218839	36219039	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-28788.0	NM_008208	15043.0	Mm.426002	NM_008208	ENSMUSG00000054128	H2-T3	H-2T3|H2-Tw3|MumuTL|TL	histocompatibility 2, T region locus 3	protein-coding	22.5	34.5	28.0	452.0	61.0	19.0	18.0	32.5
Merged-chr2-130467613-2	chr2	130467513	130467713	+	829.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355161, intron 1 of 21)	MTD|LTR|ERVL-MaLR	17335.0	NM_001355161	19262.0	Mm.224246	NM_008980	ENSMUSG00000027303	Ptpra	Ptpa|Ptpalpha|Rptpalpha|Rptra|Rptralpha	protein tyrosine phosphatase, receptor type, A	protein-coding	0.0	4.0	0.0	25.5	18.5	5.5	10.5	6.0
Merged-chr5-64764621-3	chr5	64764516	64764716	+	743.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38907.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	9.0	15.0	10.0	87.5	7.5	2.5	1.5	4.5
Merged-chr4-155721786-3	chr4	155721706	155721906	+	940.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026899, intron 2 of 4)	B2_Mm2|SINE|B2	-12998.0	NM_001101506	381582.0	Mm.379515	NM_001101506	ENSMUSG00000084845	Tmem240	EG381582|Gm5151	transmembrane protein 240	protein-coding	11.0	21.0	7.0	59.5	42.0	12.0	14.5	11.5
Merged-chr1-182516863-4	chr1	182516651	182516851	+	846.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009794, intron 1 of 20)	intron (NM_009794, intron 1 of 20)	859.0	NM_009794	12334.0	Mm.19306	NM_009794	ENSMUSG00000026509	Capn2	AI326419|CALP80|Capa-2|Capa2|m-calpain|m-calpin	calpain 2	protein-coding	2.5	2.0	7.0	59.0	9.5	7.0	5.5	9.0
Merged-chr6-119809320-4	chr6	119809222	119809422	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155458, intron 2 of 18)	intron (NR_155458, intron 2 of 18)	38828.0	NM_053204	111173.0	Mm.288860	NM_053204	ENSMUSG00000030172	Erc1	4930404L01Rik|5033405M01Rik|9630025C19Rik|B430107L16Rik|CAST2|ELKS|Elks1|RAB6IP2A|RAB6IP2B|Rab6ip2|mKIAA1081	ELKS/RAB6-interacting/CAST family member 1	protein-coding	13.0	38.5	31.0	302.0	45.0	9.0	23.5	21.5
Merged-chr5-137305942-4	chr5	137305847	137306047	+	867.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359602, intron 2 of 19)	intron (NM_001359602, intron 2 of 19)	1727.0	NM_031405	83701.0	Mm.387734	NM_031405	ENSMUSG00000037364	Srrt	2810019G02Rik|ASR2A|ASR2B|ASR2C|ASR2D|Ars2|Asr2	serrate RNA effector molecule homolog (Arabidopsis)	protein-coding	17.0	16.0	9.0	157.0	43.5	14.0	10.0	4.5
Merged-chr9-21014824-4	chr9	21014745	21014945	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2|LINE|L2	-1095.0	NM_010493	15894.0	Mm.435508	NM_010493	ENSMUSG00000037405	Icam1	CD54|Icam-1|Ly-47|MALA-2	intercellular adhesion molecule 1	protein-coding	40.0	90.5	44.0	356.5	100.5	50.5	54.0	29.0
Merged-chr4-59805784-4	chr4	59805684	59805884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172468, exon 1 of 9)	5' UTR (NM_172468, exon 1 of 9)	134.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	79.0	65.0	60.0	811.5	152.0	54.0	87.0	76.0
Merged-chr3-65529484-4	chr3	65529389	65529589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027955)	promoter-TSS (NR_027955)	-75.0	NR_027955	71004.0	Mm.475465	NM_001033527	ENSMUSG00000074580	4931440P22Rik	-	RIKEN cDNA 4931440P22 gene	ncRNA	110.5	136.5	170.5	2519.5	335.5	97.0	152.5	167.0
Merged-chr10-111507152-3	chr10	111507067	111507267	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009344, exon 1 of 2)	exon (NM_009344, exon 1 of 2)	881.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	11.5	15.5	18.5	261.5	26.0	9.5	6.5	22.0
Merged-chr14-70241625-3	chr14	70241548	70241748	+	687.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360229, intron 6 of 12)	RLTR12B|LTR|ERVK	-33977.0	NM_011366	20410.0	Mm.5068	NM_011366	ENSMUSG00000022091	Sorbs3	SCAM-1|SH3P3|Sh3d4|vinexin-g	sorbin and SH3 domain containing 3	protein-coding	7.0	3.0	1.0	129.5	6.0	9.5	10.5	8.5
Merged-chr12-70234580-2	chr12	70234464	70234664	+	792.166687	f0_c57.idr|f1_c57bl6.idr	TTS (NR_045174)	TTS (NR_045174)	6723.0	NR_045174	414124.0	Mm.416164	NR_045174	ENSMUSG00000085298	F730035M05Rik	-	RIKEN cDNA F730035M05 gene	ncRNA	5.5	4.5	6.0	28.5	51.5	11.5	29.5	9.5
Merged-chr5-75929168-2	chr5	75929010	75929210	+	621.166626	f0_balb.idr|f1_balb.idr	Intergenic	L1_Mus3|LINE|L1	49318.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	9.5	9.0	9.0	23.5	1.0	1.0	0.0	0.0
Merged-chr6-91712963-4	chr6	91712860	91713060	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009320, intron 2 of 14)	intron (NM_009320, intron 2 of 14)	28893.0	NM_009320	21366.0	Mm.395650	NM_009320	ENSMUSG00000030096	Slc6a6	AA589629|C80501|Taut	solute carrier family 6 (neurotransmitter transporter, taurine), member 6	protein-coding	264.0	407.5	221.5	3999.5	570.0	226.0	290.0	237.0
Merged-chr10-13983910-4	chr10	13983812	13984012	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	17533.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	117.5	161.0	270.0	2692.0	206.5	76.0	113.5	100.0
Merged-chr16-57423143-4	chr16	57423016	57423216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	PB1D11|SINE|Alu	69839.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	94.0	132.0	109.0	1558.0	208.0	86.5	120.5	115.5
Merged-chr2-101472927-4	chr2	101472810	101473010	+	907.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-151838.0	NM_009020	19374.0	Mm.4988	NM_009020	ENSMUSG00000032864	Rag2	Rag-2	recombination activating gene 2	protein-coding	11.0	18.5	11.5	255.0	31.0	13.5	13.5	4.0
Merged-chr18-88861752-4	chr18	88861632	88861832	+	898.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32475.0	NM_018821	54607.0	Mm.91920	NM_018821	ENSMUSG00000056153	Socs6	1500012M23Rik|5830401B18Rik|AI447482|Cis4|Cish4|HSPC060|SOCS-4|SOCS-6|SSI4|STAI4|STATI4|Socs4	suppressor of cytokine signaling 6	protein-coding	22.5	13.0	17.0	263.0	12.0	11.5	13.0	14.0
Merged-chr19-12537415-4	chr19	12537308	12537508	+	898.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35412.0	NM_172442	207521.0	Mm.247695	NM_172442	ENSMUSG00000039982	Dtx4	AI449438|BC044798|D930042H13|RNF155	deltex 4, E3 ubiquitin ligase	protein-coding	13.0	9.0	6.0	144.5	36.5	11.5	19.5	17.0
Merged-chr1-20890593-3	chr1	20890497	20890697	+	972.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040492)	promoter-TSS (NR_040492)	49.0	NM_028829	74229.0	Mm.40780	NM_028829	ENSMUSG00000025931	Paqr8	1700019B16Rik|3110001D06Rik	progestin and adipoQ receptor family member VIII	protein-coding	10.5	34.0	18.5	403.5	20.0	5.0	5.5	18.0
Merged-chr16-16599938-4	chr16	16599785	16599985	+	797.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001301817)	promoter-TSS (NM_001301817)	93.0	NM_001301817	224014.0	Mm.256131	NM_139232	ENSMUSG00000022788	Fgd4	9030023J02Rik|9330209B17Rik|Frabp|ZFYVE6	FYVE, RhoGEF and PH domain containing 4	protein-coding	17.5	9.5	17.0	102.0	10.0	7.5	4.5	5.5
Merged-chr2-129360870-3	chr2	129360805	129361005	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8997.0	NR_015474	329514.0	Mm.207315	NM_177848	ENSMUSG00000074805	Il1bos	9430083I22|Gm14047	interleukin 1 beta, opposite strand	ncRNA	18.0	16.0	16.5	210.0	22.5	6.0	6.5	18.5
Merged-chr15-89196083-4	chr15	89195967	89196167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027081, intron 1 of 19)	CpG	407.0	NM_027081	69440.0	Mm.482128	NM_027081	ENSMUSG00000015377	Dennd6b	1700027J05Rik|AI414881|Fam116b	DENN/MADD domain containing 6B	protein-coding	28.0	32.5	18.5	394.0	46.0	19.5	34.5	27.0
Merged-chr8-14873960-4	chr8	14873857	14874057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14579.0	NM_012000	26889.0	Mm.254027	NM_012000	ENSMUSG00000026317	Cln8	mnd	ceroid-lipofuscinosis, neuronal 8	protein-coding	40.5	43.0	68.5	1200.0	71.5	20.0	41.0	28.5
Merged-chr4-148626428-4	chr4	148626347	148626547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001003898, intron 1 of 6)	CpG	549.0	NR_027864	230908.0	Mm.22453	NM_145556	ENSMUSG00000041459	Tardbp	1190002A23Rik|C85084|TDP-43|Tdp43	TAR DNA binding protein	protein-coding	18.0	25.5	37.0	253.5	66.5	23.0	50.5	42.0
Merged-chr10-127481450-4	chr10	127481362	127481562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359246, intron 13 of 23)	intron (NM_001359246, intron 13 of 23)	-20224.0	NM_001359751	237611.0	Mm.32087	NM_177707	ENSMUSG00000040287	Stac3	9830125E18	SH3 and cysteine rich domain 3	protein-coding	66.0	152.5	81.0	894.0	165.0	63.0	50.0	89.5
Merged-chr15-27702404-4	chr15	27702295	27702495	+	983.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20853.0	NM_001242423	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	36.0	22.0	31.5	472.0	45.5	15.0	18.5	21.0
Merged-chr15-31315829-4	chr15	31315739	31315939	+	968.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357922, intron 1 of 2)	intron (NM_001357922, intron 1 of 2)	51920.0	NM_001357923	67434.0	Mm.102470	NM_026153	ENSMUSG00000022237	Ankrd33b	0610012A05Rik|3021401C12Rik|5730557B15Rik	ankyrin repeat domain 33B	protein-coding	23.5	33.5	5.5	323.0	43.5	5.5	24.5	7.0
Merged-chr2-156393904-4	chr2	156393807	156394007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024329)	promoter-TSS (NR_024329)	-928.0	NR_024329	347740.0	Mm.324242	NR_024329	ENSMUSG00000102869	2900097C17Rik	1810005K14Rik|4930563C06Rik	RIKEN cDNA 2900097C17 gene	ncRNA	21.0	61.5	22.0	337.5	114.5	40.0	38.0	34.5
Merged-chr13-98803881-4	chr13	98803760	98803960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172591, intron 2 of 25)	intron (NM_172591, intron 2 of 25)	11589.0	NM_172591	218503.0	Mm.23928	NM_172591	ENSMUSG00000041685	Fcho2	5832424M12Rik|AA387320	FCH domain only 2	protein-coding	46.0	62.5	56.5	930.0	101.5	44.0	52.0	54.0
Merged-chr1-191850963-4	chr1	191850879	191851079	+	981.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	29506.0	NM_010892	18005.0	Mm.33773	NM_010892	ENSMUSG00000026622	Nek2	AA617254|C77054	NIMA (never in mitosis gene a)-related expressed kinase 2	protein-coding	11.5	14.5	27.5	334.0	44.0	7.0	26.5	22.5
Merged-chr12-3698205-4	chr12	3698110	3698310	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 9 of 17)	B4|SINE|B4	-108770.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	28.5	35.0	39.5	716.5	64.0	12.0	43.0	38.0
Merged-chr4-136898887-4	chr4	136898810	136899010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007572)	promoter-TSS (NM_007572)	-66.0	NM_007572	12259.0	Mm.439957	NM_007572	ENSMUSG00000036887	C1qa	AI255395|C1q	complement component 1, q subcomponent, alpha polypeptide	protein-coding	207.5	305.5	189.0	2032.5	367.5	147.5	151.5	135.0
Merged-chr13-111967210-4	chr13	111967103	111967303	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	99267.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	35.5	70.0	50.5	1076.5	56.0	12.0	22.5	29.0
Merged-chr10-67123937-4	chr10	67123826	67124026	+	898.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3332.0	NM_207221	108829.0	Mm.23846	NM_207221	ENSMUSG00000037876	Jmjd1c	5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8	jumonji domain containing 1C	protein-coding	21.5	12.0	15.5	387.0	48.0	10.0	13.5	13.5
Merged-chr6-83774994-3	chr6	83774886	83775086	+	893.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009357, intron 2 of 5)	intron (NM_009357, intron 2 of 5)	826.0	NM_009357	21766.0	Mm.28371	NM_009357	ENSMUSG00000014748	Tex261	3110001O07Rik|AA409339|AI480706|AL033351|TEG-261	testis expressed gene 261	protein-coding	11.5	21.0	9.5	135.0	20.5	5.5	5.0	10.5
Merged-chr4-56262226-4	chr4	56262135	56262335	+	763.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	479190.0	NM_025271	11471.0	Mm.251434	NM_025271	ENSMUSG00000070980	Actl7b	Gm26657|Tact1	actin-like 7b	protein-coding	1.0	12.0	5.0	211.0	32.0	12.5	18.0	14.0
Merged-chr7-45563832-3	chr7	45563712	45563912	+	741.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025330, intron 6 of 8)	(TG)n|Simple_repeat|Simple_repeat	-6341.0	NM_009737	12036.0	Mm.24210	NM_009737	ENSMUSG00000030826	Bcat2	Bcat(m)|Bcat-2|Eca40	branched chain aminotransferase 2, mitochondrial	protein-coding	4.5	10.0	8.0	72.0	13.0	2.5	1.0	5.5
Merged-chr7-43667239-5	chr7	43667171	43667371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAT)n|Simple_repeat|Simple_repeat	-4760.0	NM_145582	233189.0	Mm.26514	NM_145582	ENSMUSG00000038888	Ctu1	Atpbd3|BC005752	cytosolic thiouridylase subunit 1	protein-coding	13.5	42.5	49.5	256.0	88.0	22.0	33.5	45.5
Merged-chr16-8470768-4	chr16	8470675	8470875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146247)	promoter-TSS (NM_146247)	-38.0	NM_146247	239706.0	Mm.214953	NM_146247	ENSMUSG00000039345	Mettl22	-	methyltransferase like 22	protein-coding	165.0	233.0	70.5	2014.0	324.0	116.0	164.0	124.0
Merged-chr5-21735794-4	chr5	21735692	21735892	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-1368.0	NM_028431	73078.0	Mm.301655	NM_028431	ENSMUSG00000029017	Pmpcb	3110004O18Rik|MPP11|MPPB|MPPP52	peptidase (mitochondrial processing) beta	protein-coding	22.0	35.5	14.0	379.0	40.0	22.5	9.0	30.0
Merged-chr12-113130311-4	chr12	113130195	113130395	+	992.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346696, intron 11 of 19)	intron (NM_001346696, intron 11 of 19)	-9941.0	NM_024223	68337.0	Mm.133825	NM_024223	ENSMUSG00000006356	Crip2	0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp	cysteine rich protein 2	protein-coding	20.5	37.5	35.0	306.0	49.5	21.0	49.0	44.0
Merged-chr17-21733737-5	chr17	21733649	21733849	+	859.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164676)	promoter-TSS (NM_001164676)	25.0	NM_001164676	381067.0	Mm.482723	NM_001164676	ENSMUSG00000061544	Zfp229	-	zinc finger protein 229	protein-coding	6.0	12.5	18.0	128.0	20.0	7.0	12.0	12.5
Merged-chr11-53771494-6	chr11	53771376	53771576	+	817.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159393, intron 2 of 9)	intron (NM_001159393, intron 2 of 9)	1003.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	11.5	8.5	11.0	81.5	18.0	12.0	10.0	8.0
Merged-chr1-36073825-3	chr1	36073729	36073929	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015818, intron 1 of 1)	intron (NM_015818, intron 1 of 1)	5429.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	18.0	12.0	29.0	227.0	40.5	2.5	10.5	9.0
Merged-chr7-116494832-4	chr7	116494761	116494961	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9508.0	NM_001130479	53322.0	Mm.9901	NM_016773	ENSMUSG00000030659	Nucb2	AI607786|Calnuc|Nefa|Nesfatin-1	nucleobindin 2	protein-coding	73.5	51.5	63.0	851.5	86.0	41.5	33.5	44.0
Merged-chr9-21546627-4	chr9	21546518	21546718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021531)	promoter-TSS (NM_021531)	-276.0	NM_021531	59035.0	Mm.178115	NM_021531	ENSMUSG00000032185	Carm1	Prmt4	coactivator-associated arginine methyltransferase 1	protein-coding	343.0	443.0	269.0	4177.5	724.5	284.5	365.0	308.0
Merged-chr17-17896210-4	chr17	17896127	17896327	+	992.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8403.0	NM_008039	14289.0	Mm.378918	NM_008039	ENSMUSG00000052270	Fpr2	E330010I07Rik|Fpr-rs2	formyl peptide receptor 2	protein-coding	12.0	17.5	14.0	279.0	81.5	28.5	34.0	43.5
Merged-chr3-95996120-4	chr3	95996031	95996231	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023320)	promoter-TSS (NM_023320)	-292.0	NM_023320	67220.0	Mm.458147	NM_023320	ENSMUSG00000015745	Plekho1	2810052M02Rik|CKIP-1|Ckip1|JZA-20|Jza2	pleckstrin homology domain containing, family O member 1	protein-coding	19.0	28.5	17.0	352.5	47.0	16.0	15.5	9.5
Merged-chr9-124146509-4	chr9	124146403	124146603	+	957.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	24960.0	NM_009917	12774.0	Mm.14302	NM_009917	ENSMUSG00000079227	Ccr5	AM4-7|CD195|Cmkbr5	chemokine (C-C motif) receptor 5	protein-coding	11.0	21.5	8.5	267.5	50.0	28.5	15.0	28.5
Merged-chr14-66871705-4	chr14	66871523	66871723	+	929.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001034881)	TTS (NM_001034881)	2773.0	NM_001034881	432870.0	Mm.425890	NM_001034881	ENSMUSG00000075553	Gm5464	EG432870	predicted gene 5464	protein-coding	10.0	9.0	8.0	204.5	30.5	8.5	13.0	15.0
Merged-chr16-33793358-3	chr16	33793241	33793441	+	917.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010739)	promoter-TSS (NM_010739)	-696.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	7.5	6.5	4.0	155.0	15.0	6.5	7.5	9.5
Merged-chr2-5992458-2	chr2	5992358	5992558	+	659.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081132, intron 8 of 21)	(A)n|Simple_repeat|Simple_repeat	40989.0	NM_001081132	326622.0	Mm.31102	NM_001081132	ENSMUSG00000043241	Upf2	-	UPF2 regulator of nonsense transcripts homolog (yeast)	protein-coding	2.0	0.5	3.0	35.5	14.0	5.5	7.5	4.5
Merged-chr3-48101053-4	chr3	48100955	48101155	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-74296.0	NR_040408	666202.0	Mm.465057	NR_040408	ENSMUSG00000103257	Gm7977	EG666202	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide pseudogene	pseudo	64.0	75.5	80.0	1367.5	207.0	47.0	89.0	64.0
Merged-chr3-52105041-4	chr3	52104938	52105138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001004176)	promoter-TSS (NM_001004176)	-32.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	50.5	73.5	44.0	667.0	155.5	51.5	62.5	36.0
Merged-chr4-135307093-4	chr4	135306998	135307198	+	974.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34338.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	30.5	52.0	14.0	209.0	79.0	27.5	30.0	17.5
Merged-chr2-60839007-3	chr2	60838918	60839118	+	775.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	42420.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	8.0	6.0	9.0	198.5	9.0	1.5	7.0	2.5
Merged-chr2-166696815-4	chr2	166696694	166696894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	MTD|LTR|ERVL-MaLR	17038.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	77.5	106.0	63.5	515.0	201.0	57.5	88.5	49.0
Merged-chr12-12279509-4	chr12	12279387	12279587	+	883.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	17348.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	18.5	16.0	20.5	350.5	33.5	5.0	11.0	12.5
Merged-chr3-119806311-4	chr3	119806185	119806385	+	981.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-22897.0	NM_019550	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	36.0	47.5	25.0	640.0	61.0	13.5	46.5	36.5
Merged-chr8-77506721-3	chr8	77506624	77506824	+	854.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030113, intron 1 of 22)	intron (NM_030113, intron 1 of 22)	-10332.0	NR_028125	70345.0	Mm.411813	NR_028125	ENSMUSG00000097882	0610038B21Rik	-	RIKEN cDNA 0610038B21 gene	ncRNA	8.5	9.0	10.0	263.0	30.0	7.5	9.0	8.0
Merged-chr4-98189113-4	chr4	98189003	98189203	+	806.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	194162.0	NM_053157	94043.0	Mm.331719	NM_053157	ENSMUSG00000028563	Tm2d1	2310026L18Rik|AA990549|Bbp	TM2 domain containing 1	protein-coding	6.5	12.0	13.0	220.0	38.5	2.5	11.0	13.0
Merged-chr9-86464734-4	chr9	86464647	86464847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027394, exon 1 of 10)	exon (NM_027394, exon 1 of 10)	169.0	NM_027394	70348.0	Mm.53469	NM_027394	ENSMUSG00000032415	Ube2cbp	2610018I03Rik|Ube3d	ubiquitin-conjugating enzyme E2C binding protein	protein-coding	90.0	136.0	177.0	1539.0	194.0	93.0	88.5	83.5
Merged-chr19-42091096-4	chr19	42091006	42091206	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145501, intron 1 of 8)	intron (NM_145501, intron 1 of 8)	671.0	NM_145501	84095.0	Mm.117037	NM_145501	ENSMUSG00000025178	Pi4k2a	Pi4k2	phosphatidylinositol 4-kinase type 2 alpha	protein-coding	97.0	159.5	92.5	1361.0	184.5	80.0	74.0	83.5
Merged-chr18-37910415-2	chr18	37910315	37910515	+	884.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001305980, intron 1 of 27)	intron (NM_001305980, intron 1 of 27)	25061.0	NM_001305981	13367.0	Mm.195916	NM_007858	ENSMUSG00000024456	Diaph1	D18Wsu154e|Dia1|Diap1|Drf1|p140mDia	diaphanous related formin 1	protein-coding	5.5	3.0	9.0	61.0	19.5	6.0	7.0	11.5
Merged-chr9-41157251-12	chr9	41156898	41157098	+	924.3784789999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	CpG	1064.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	9.5	17.0	11.0	93.0	25.5	6.5	3.5	9.0
Merged-chr10-95357263-3	chr10	95357159	95357359	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045337, intron 1 of 2)	intron (NR_045337, intron 1 of 2)	20983.0	NR_045337	69629.0	Mm.250542	NR_045337	ENSMUSG00000100550	2310039L15Rik	A53T-syn|G2-3|PrPsynA53T|Tg(Prnp-SNCA*A53T)23Mkle	RIKEN cDNA 2310039L15 gene	ncRNA	0.0	6.0	4.5	92.0	50.5	4.5	19.5	23.0
Merged-chr13-38028135-3	chr13	38028031	38028231	+	944.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027724, exon 3 of 13)	exon (NM_027724, exon 3 of 13)	8806.0	NM_027724	71213.0	Mm.314688	NM_027724	ENSMUSG00000044566	Cage1	4933427I01Rik|Ctag3	cancer antigen 1	protein-coding	0.5	0.0	1.0	6.0	71.0	14.0	43.5	53.0
Merged-chr11-46774848-4	chr11	46774750	46774950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166631, intron 6 of 7)	intron (NM_001166631, intron 6 of 7)	23682.0	NM_134248	171283.0	Mm.17771	NM_134248	ENSMUSG00000040405	Havcr1	AI503787|KIM-1|TIM-1|Tim1|Timd1	hepatitis A virus cellular receptor 1	protein-coding	58.0	75.5	47.0	684.5	141.5	37.0	75.5	39.0
Merged-chr3-107760287-4	chr3	107760199	107760399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001113530, exon 1 of 9)	5' UTR (NM_001113530, exon 1 of 9)	170.0	NM_001113530	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	50.5	84.0	79.5	623.0	160.5	72.5	50.5	53.0
Merged-chr8-56304273-3	chr8	56304152	56304352	+	684.8222049999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008278, intron 3 of 6)	L1_Rod|LINE|L1	9700.0	NM_008278	15446.0	Mm.18832	NM_008278	ENSMUSG00000031613	Hpgd	15-PGDH|AV026552	hydroxyprostaglandin dehydrogenase 15 (NAD)	protein-coding	4.5	9.0	1.5	230.0	16.5	5.0	9.0	12.5
Merged-chr11-97315713-4	chr11	97315595	97315795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025927)	promoter-TSS (NM_025927)	-21.0	NM_025927	67036.0	Mm.5381	NM_025927	ENSMUSG00000018882	Mrpl45	2600005P05Rik|AU043542|R75241	mitochondrial ribosomal protein L45	protein-coding	80.5	154.5	51.5	699.5	174.0	80.0	48.0	110.0
Merged-chr13-75871555-3	chr13	75871446	75871646	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028493, exon 12 of 12)	3' UTR (NM_028493, exon 12 of 12)	31660.0	NM_053108	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	12.0	16.0	26.5	126.5	13.0	4.5	6.5	11.0
Merged-chr3-89449687-4	chr3	89449595	89449795	+	859.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_146131, exon 11 of 11)	3' UTR (NM_146131, exon 11 of 11)	-4846.0	NM_001310640	68603.0	Mm.34242	NM_026784	ENSMUSG00000027952	Pmvk	1110011E12Rik|2900002L22Rik|AV001327|PMK|PMKA|PMKASE	phosphomevalonate kinase	protein-coding	11.5	8.5	3.0	137.0	26.5	12.5	12.5	7.5
Merged-chr12-111376266-4	chr12	111376170	111376370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183016, intron 1 of 36)	intron (NM_183016, intron 1 of 36)	1448.0	NM_183016	217866.0	Mm.27397	NM_183016	ENSMUSG00000021279	Cdc42bpb	MRCKb	CDC42 binding protein kinase beta	protein-coding	21.0	36.0	22.0	487.0	52.0	25.0	33.5	28.5
Merged-chr13-64275806-4	chr13	64275672	64275872	+	954.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172587)	promoter-TSS (NM_172587)	-784.0	NM_172587	218294.0	Mm.25335	NM_172587	ENSMUSG00000033102	Cdc14b	2810432N10Rik|A530086E13Rik|AA472821|CDC14B3|Cdc14B1	CDC14 cell division cycle 14B	protein-coding	10.0	20.5	12.5	211.0	43.0	10.5	11.0	6.5
Merged-chr14-73120186-4	chr14	73120090	73120290	+	965.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22320.0	NM_001170694	105670.0	Mm.280068	NM_134083	ENSMUSG00000022106	Rcbtb2	2610028E02Rik|2810420M18Rik|AI448345|AW240694|Chc1l|RC/BTB2	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	protein-coding	13.5	34.5	16.5	204.5	36.5	16.5	15.5	10.0
Merged-chr6-86493596-4	chr6	86493484	86493684	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D7|SINE|Alu	-5357.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	22.0	33.5	20.0	297.0	72.0	16.0	29.0	24.0
Merged-chr11-59902375-4	chr11	59902311	59902511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(A)n|Simple_repeat|Simple_repeat	-19088.0	NR_130986	69854.0	Mm.57859	NR_130986	ENSMUSG00000085551	1810063I02Rik	-	RIKEN cDNA 1810063I02 gene	ncRNA	45.0	41.5	36.5	414.5	38.5	15.0	21.0	27.5
Merged-chr4-46554870-4	chr4	46554777	46554977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164804, intron 2 of 11)	intron (NM_001164804, intron 2 of 11)	11563.0	NM_178893	107684.0	Mm.416311	NM_178893	ENSMUSG00000028337	Coro2a	9030208C03Rik|AI563590|IR10	coronin, actin binding protein 2A	protein-coding	197.0	304.0	242.5	3896.0	474.0	162.0	215.5	204.5
Merged-chr19-60161129-4	chr19	60161030	60161230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_026942, exon 5 of 5)	non-coding (NR_026942, exon 5 of 5)	16455.0	NR_026942	107376.0	Mm.245813	NR_026942	ENSMUSG00000053117	E330013P04Rik	9930018I18Rik|AW492152	RIKEN cDNA E330013P04 gene	ncRNA	55.5	75.0	50.5	967.5	153.5	49.5	79.5	51.0
Merged-chr12-99789788-4	chr12	99789709	99789909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030172, intron 5 of 5)	intron (NM_030172, intron 5 of 5)	93633.0	NM_030172	78767.0	Mm.235920	NM_030172	ENSMUSG00000021176	Efcab11	2610021K21Rik|2610110A13Rik	EF-hand calcium binding domain 11	protein-coding	74.0	58.5	60.0	1063.0	140.5	48.0	54.5	39.5
Merged-chr2-170202168-4	chr2	170202075	170202275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59500.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	63.5	67.0	39.5	739.5	107.0	19.5	41.0	30.5
Merged-chr12-4769133-4	chr12	4769044	4769244	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361147)	promoter-TSS (NM_001361147)	123.0	NM_175431	207921.0	Mm.184898	NM_175431	ENSMUSG00000050545	Fam228b	A830093I24Rik	family with sequence similarity 228, member B	protein-coding	90.0	115.0	181.5	1118.0	154.0	96.0	78.5	98.5
Merged-chr6-114258916-4	chr6	114258834	114259034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23701.0	NM_178703	232333.0	Mm.5260	NM_178703	ENSMUSG00000030310	Slc6a1	A730043E01|GABATHG|GABATR|GAT-1|Gabt|Gabt1|Gat1|XT-1|Xtrp1	solute carrier family 6 (neurotransmitter transporter, GABA), member 1	protein-coding	136.5	169.0	147.0	2073.0	244.5	86.5	129.5	130.0
Merged-chr13-3637051-4	chr13	3636946	3637146	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001267724, intron 1 of 3)	intron (NM_001267724, intron 1 of 3)	3014.0	NM_001267724	142688.0	Mm.253061	NM_178283	ENSMUSG00000033781	Asb13	2210015B19Rik|6430573K02Rik|Asb-13|C85285	ankyrin repeat and SOCS box-containing 13	protein-coding	27.5	16.5	16.5	268.5	63.0	12.0	23.5	24.5
Merged-chr18-83832320-4	chr18	83832225	83832425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	254237.0	NM_001081300	110796.0	Mm.102136	NM_001081300	ENSMUSG00000046982	Tshz1	5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1	teashirt zinc finger family member 1	protein-coding	58.0	104.0	67.5	1074.0	107.0	54.5	45.5	49.5
Merged-chr9-102625581-3	chr9	102625534	102625734	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181394)	promoter-TSS (NM_181394)	490.0	NM_001301689	28135.0	Mm.38910	NM_001081122	ENSMUSG00000032534	Cep63	4921501M07|AL450317.13gm1|AW107703|CD20R|D9Mgc41|D9Mgc48e|ET2	centrosomal protein 63	protein-coding	7.0	25.0	16.5	199.5	51.0	22.5	11.0	19.5
Merged-chr10-111161497-3	chr10	111161415	111161615	+	764.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-3287.0	NM_001003717	237542.0	Mm.220204	NM_175489	ENSMUSG00000020189	Osbpl8	AA536976|AA536995|C730029P18Rik|D330025H14Rik|ORP-8	oxysterol binding protein-like 8	protein-coding	4.5	21.0	7.0	162.0	20.0	2.0	4.5	1.5
Merged-chr10-117675809-3	chr10	117675708	117675908	+	856.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027468, intron 6 of 8)	intron (NM_027468, intron 6 of 8)	34950.0	NM_010786	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	5.0	6.5	3.5	112.5	18.0	12.0	6.0	7.5
Merged-chr4-126536664-4	chr4	126536549	126536749	+	903.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-3191.0	NM_153177	76850.0	Mm.86705	NM_153177	ENSMUSG00000042500	Ago4	5730550L01Rik|AI481660|Eif2c4	argonaute RISC catalytic subunit 4	protein-coding	13.0	15.5	17.0	229.0	30.0	4.0	6.5	18.0
Merged-chr10-17655696-4	chr10	17655604	17655804	+	971.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67524.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	29.5	36.5	9.5	283.5	70.5	18.0	16.0	9.5
Merged-chr4-53083613-2	chr4	53083513	53083713	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 15 of 49)	MIR3|SINE|MIR	71733.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	6.0	6.0	5.0	27.5	16.0	2.0	3.0	6.0
Merged-chr1-45838454-1	chr1	45838354	45838554	+	819.5	f0_balb.idr	Intergenic	Intergenic	43288.0	NM_028599	73674.0	Mm.270376	NM_028599	ENSMUSG00000025995	Wdr75	1300003A18Rik|2410118I19Rik|C77608	WD repeat domain 75	protein-coding	5.0	9.5	10.5	163.0	15.5	3.0	13.5	3.5
Merged-chr3-58520476-4	chr3	58520375	58520575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-5346.0	NM_001005509	229317.0	Mm.21617	NM_001005509	ENSMUSG00000027810	Eif2a	D030048D22|D3Ertd194e	eukaryotic translation initiation factor 2A	protein-coding	76.5	103.0	83.0	1177.5	220.0	65.5	78.0	80.0
Merged-chr17-86962557-4	chr17	86962456	86962656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145491)	promoter-TSS (NM_145491)	-555.0	NM_145491	104215.0	Mm.826	NM_145491	ENSMUSG00000024143	Rhoq	Arhq|TC10A|Tc10	ras homolog family member Q	protein-coding	96.5	119.5	39.5	1066.0	151.5	59.0	60.5	82.0
Merged-chr3-105055135-4	chr3	105055027	105055227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1981.0	NM_030249	80281.0	Mm.200327	NM_030249	ENSMUSG00000062127	Cttnbp2nl	AA552995|AA589392|AU018624|BC003236|mKIAA1433	CTTNBP2 N-terminal like	protein-coding	27.0	23.5	51.0	580.0	61.5	22.0	34.5	35.5
Merged-chr14-79511770-4	chr14	79511676	79511876	+	952.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	ORR1E|LTR|ERVL-MaLR	-3898.0	NM_001286412	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	17.5	23.5	19.0	449.0	41.0	4.5	11.0	12.0
Merged-chr8-69094359-4	chr8	69094294	69094494	+	862.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007509, intron 1 of 13)	intron (NM_007509, intron 1 of 13)	-5172.0	NM_153054	110877.0	Mm.19301	NM_153054	ENSMUSG00000036330	Slc18a1	4832416I10Rik|Vat1|Vmat1	solute carrier family 18 (vesicular monoamine), member 1	protein-coding	12.0	16.0	8.5	174.0	32.5	9.0	9.0	11.5
Merged-chr10-82923705-4	chr10	82923608	82923808	+	998.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	57082.0	NM_025499	66341.0	Mm.443284	NM_025499	ENSMUSG00000109864	Eid3	1700027M21Rik|NS4EB	EP300 interacting inhibitor of differentiation 3	protein-coding	17.0	24.0	24.0	613.0	44.0	11.0	24.0	34.5
Merged-chr6-124661363-4	chr6	124661255	124661455	+	783.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1B|DNA|hAT-Charlie	-1749.0	NR_149320	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	9.5	9.0	7.5	98.0	16.5	13.0	13.0	12.5
Merged-chr10-13474437-4	chr10	13474345	13474545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001195065)	promoter-TSS (NM_001195065)	-49.0	NM_001195065	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	33.0	28.0	24.0	521.5	62.5	20.0	19.5	24.0
Merged-chr10-20662527-4	chr10	20662415	20662615	+	978.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 1 of 12)	RLTR28B|LTR|ERVL	62563.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	25.5	30.5	25.5	387.5	69.0	14.5	14.5	25.0
Merged-chr15-59397456-2	chr15	59397356	59397556	+	855.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	ORR1D2|LTR|ERVL-MaLR	23258.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	4.0	1.0	6.0	61.5	4.5	8.0	6.5	4.5
Merged-chr16-15637890-4	chr16	15637770	15637970	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011159)	promoter-TSS (NM_011159)	4.0	NM_011159	19090.0	Mm.71	NM_011159	ENSMUSG00000022672	Prkdc	AI326420|AU019811|DNA-PKcs|DNAPDcs|DNAPK|DNPK1|DOXNPH|HYRC1|XRCC7|dxnph|p460|scid|slip	protein kinase, DNA activated, catalytic polypeptide	protein-coding	119.5	139.0	134.5	2356.0	342.0	123.0	146.0	124.0
Merged-chr14-55778099-4	chr14	55778012	55778212	+	979.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080435, intron 10 of 25)	intron (NM_080435, intron 10 of 25)	5960.0	NM_080435	104110.0	Mm.287010	NM_080435	ENSMUSG00000022220	Adcy4	mKIAA4004	adenylate cyclase 4	protein-coding	13.5	33.0	13.0	333.0	45.5	14.5	32.0	26.0
Merged-chr2-181680220-4	chr2	181680107	181680307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001356342)	promoter-TSS (NM_001356342)	-90.0	NM_001356343	21400.0	Mm.24245	NM_009326	ENSMUSG00000059540	Tcea2	AI326274|S-II-T1|SII-T1|Tceat	transcription elongation factor A (SII), 2	protein-coding	48.5	59.0	50.5	659.5	66.5	35.0	25.0	41.5
Merged-chr19-32957212-2	chr19	32957112	32957312	+	972.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	199635.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	3.5	5.5	4.5	65.5	17.5	5.5	5.0	12.0
Merged-chr6-134543840-2	chr6	134543740	134543940	+	882.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008514, intron 1 of 22)	intron (NM_008514, intron 1 of 22)	23073.0	NM_008514	16974.0	Mm.321990	NM_008514	ENSMUSG00000030201	Lrp6	C030016K15Rik|Cd|Gw|ska26|ska<m26Jus>|skax26	low density lipoprotein receptor-related protein 6	protein-coding	3.5	4.5	1.5	87.5	22.0	6.5	5.0	8.5
Merged-chr6-54163024-4	chr6	54162938	54163138	+	956.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	-101820.0	NM_001311133	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	26.5	21.0	18.0	445.0	40.5	10.0	17.0	27.0
Merged-chr11-109302496-2	chr11	109302396	109302596	+	722.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4315.0	NM_011268	19739.0	Mm.38548	NM_011268	ENSMUSG00000020599	Rgs9	RGS9-1|Rgs9-2	regulator of G-protein signaling 9	protein-coding	2.5	2.0	2.5	66.5	12.5	5.5	4.5	9.5
Merged-chr15-73637729-3	chr15	73637623	73637823	+	844.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12979.0	NM_001033219	106068.0	Mm.212813	NM_001033219	ENSMUSG00000079020	Slc45a4	9330175B01Rik|AW552276	solute carrier family 45, member 4	protein-coding	4.5	4.5	7.0	108.5	16.5	2.0	14.0	5.5
Merged-chr3-19258761-3	chr3	19258653	19258853	+	582.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122759, intron 2 of 12)	intron (NM_001122759, intron 2 of 12)	6255.0	NM_008802	18583.0	Mm.355614	NM_008802	ENSMUSG00000069094	Pde7a	AU015378|AW047537	phosphodiesterase 7A	protein-coding	7.5	7.0	7.0	100.0	14.5	2.0	9.5	5.5
Merged-chr2-122753932-3	chr2	122753837	122754037	+	684.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11422.0	NM_001162503	59010.0	Mm.28986	NM_021507	ENSMUSG00000005803	Sqor	0610039J17Rik|4930557M22Rik|Sqrdl	sulfide quinone oxidoreductase	protein-coding	8.0	4.5	2.0	140.0	25.5	9.5	8.0	7.0
Merged-chr8-82382486-4	chr8	82382391	82382591	+	999.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001254747, intron 1 of 7)	intron (NM_001254747, intron 1 of 7)	20095.0	NM_001254747	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	29.5	60.0	31.5	655.5	60.0	40.5	21.0	25.0
Merged-chr4-34269320-3	chr4	34269227	34269427	+	946.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-219260.0	NM_026293	67652.0	Mm.55848	NM_026293	ENSMUSG00000028264	Spaca1	1700124L11Rik|4930540L03Rik	sperm acrosome associated 1	protein-coding	8.5	14.0	28.5	322.0	8.0	4.0	7.0	9.5
Merged-chr11-76399134-4	chr11	76399046	76399246	+	996.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008750)	promoter-TSS (NM_008750)	-5.0	NM_008750	18230.0	Mm.27915	NM_008750	ENSMUSG00000020844	Nxn	l11Jus13	nucleoredoxin	protein-coding	24.5	33.5	21.5	312.0	72.0	28.5	31.5	20.0
Merged-chr4-6192197-4	chr4	6192098	6192298	+	886.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026534, intron 1 of 7)	MTC|LTR|ERVL-MaLR	1093.0	NM_026534	68053.0	Mm.404043	NM_026534	ENSMUSG00000028243	Ubxn2b	3110003A22Rik|6430407D20Rik|AI451665|p37	UBX domain protein 2B	protein-coding	6.5	4.5	9.5	119.5	22.0	8.0	13.0	5.0
Merged-chr5-101966997-3	chr5	101966891	101967091	+	795.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 5 of 66)	intron (NM_172882, intron 5 of 66)	102930.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	11.0	14.5	8.5	114.0	8.0	3.5	4.0	7.5
Merged-chr19-18624451-1	chr19	18624351	18624551	+	630.0	f0_balb.idr	intron (NM_017375, intron 1 of 9)	intron (NM_017375, intron 1 of 9)	7362.0	NM_017375	20409.0	Mm.172222	NM_017375	ENSMUSG00000024725	Ostf1	C78236|SH3P2|Sh3d3	osteoclast stimulating factor 1	protein-coding	11.5	31.5	6.5	47.5	17.0	14.5	5.5	9.5
Merged-chr15-8712686-3	chr15	8712574	8712774	+	791.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1867.0	NM_148938	20512.0	Mm.204834	NM_148938	ENSMUSG00000005360	Slc1a3	AI504299|B430115D02Rik|Eaat1|GLAST|GLAST-1|GLU-T|GluT-1|Gmt1|MGluT1	solute carrier family 1 (glial high affinity glutamate transporter), member 3	protein-coding	6.0	8.5	1.5	28.5	44.5	12.5	13.0	6.0
Merged-chr13-29292965-4	chr13	29292847	29293047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131896, intron 15 of 16)	RSINE1|SINE|B4	276692.0	NR_045075	77920.0	Mm.197051	NR_045073	ENSMUSG00000086363	A330102I10Rik	-	RIKEN cDNA A330102I10 gene	ncRNA	25.0	32.5	28.0	553.0	108.0	17.5	33.0	58.5
Merged-chr18-24652173-4	chr18	24652064	24652264	+	942.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1527.0	NM_026779	68591.0	Mm.28252	NM_026779	ENSMUSG00000039616	Mocos	1110018O12Rik|HMCS|MCS|MOS	molybdenum cofactor sulfurase	protein-coding	20.5	21.5	23.5	347.0	45.0	9.5	11.0	15.5
Merged-chr11-55448329-2	chr11	55448224	55448424	+	845.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 3 of 3)	L1Md_F2|LINE|L1	12884.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	12.0	19.0	6.5	39.5	24.0	5.0	6.5	3.5
Merged-chr1-172522716-4	chr1	172522592	172522792	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027972, intron 1 of 11)	intron (NM_027972, intron 1 of 11)	1562.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	27.5	47.5	19.0	542.5	123.5	52.0	53.5	35.0
Merged-chr4-86575700-4	chr4	86575596	86575796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178376)	promoter-TSS (NM_178376)	23.0	NM_178376	68441.0	Mm.31178	NM_178376	ENSMUSG00000070934	Rraga	1300010C19Rik|AI255374|FIP-1|RAGA	Ras-related GTP binding A	protein-coding	84.5	147.0	77.5	1485.0	282.5	108.5	123.0	110.0
Merged-chr18-34410945-2	chr18	34410844	34411044	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_016927, intron 2 of 14)	B3|SINE|B2	1521.0	NM_016927	53871.0	Mm.445792	NM_016927	ENSMUSG00000014503	Pkd2l2	TRPP5	polycystic kidney disease 2-like 2	protein-coding	48.5	85.5	33.0	758.0	2.0	0.5	1.0	0.5
Merged-chr6-100143947-4	chr6	100143858	100144058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	143400.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	30.5	58.0	36.0	451.5	67.0	28.5	22.0	23.0
Merged-chr11-119227673-4	chr11	119227567	119227767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175430)	promoter-TSS (NM_175430)	832.0	NM_001347625	207592.0	Mm.205263	NM_172443	ENSMUSG00000039976	Tbc1d16	B930087K01|BC026530|Tcd1d16	TBC1 domain family, member 16	protein-coding	35.0	58.0	16.5	404.0	65.0	20.0	37.5	25.0
Merged-chr11-104387544-4	chr11	104387439	104387639	+	794.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359634, intron 3 of 14)	intron (NM_001359634, intron 3 of 14)	54752.0	NM_001081045	76719.0	Mm.136418	NM_001081045	ENSMUSG00000018412	Kansl1	1700081L11Rik|9430041J06Rik|mKIAA1267	KAT8 regulatory NSL complex subunit 1	protein-coding	17.0	25.5	8.0	246.0	23.0	12.5	6.5	14.0
Merged-chr3-121597420-4	chr3	121597320	121597520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46065.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	105.5	230.5	122.5	1732.5	372.5	102.0	240.0	138.5
Merged-chr1-174053225-4	chr1	174053142	174053342	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2867.0	NM_146716	258711.0	Mm.377648	NM_146716	ENSMUSG00000047048	Olfr432	MOR123-2	olfactory receptor 432	protein-coding	82.5	228.0	167.0	1109.5	208.5	141.5	68.5	43.5
Merged-chr7-25703969-4	chr7	25703866	25704066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011577, intron 5 of 6)	intron (NM_011577, intron 5 of 6)	15087.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	67.5	116.5	101.0	1256.0	167.0	45.0	100.0	51.0
Merged-chr5-21645858-4	chr5	21645755	21645955	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177076)	promoter-TSS (NM_177076)	-129.0	NM_026034	67211.0	Mm.260782	NM_026034	ENSMUSG00000038525	Armc10	2810037C14Rik|Svh	armadillo repeat containing 10	protein-coding	144.5	234.5	167.5	1816.5	323.0	151.5	195.5	178.0
Merged-chr7-19361942-4	chr7	19361850	19362050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001010836, intron 1 of 12)	intron (NM_001010836, intron 1 of 12)	734.0	NM_001010836	333654.0	Mm.333640	NM_001010836	ENSMUSG00000040734	Ppp1r13l	AV260376|IASPP|Nkip1|wa3	protein phosphatase 1, regulatory (inhibitor) subunit 13 like	protein-coding	30.5	52.0	14.5	205.5	119.5	26.0	38.5	26.0
Merged-chr2-118598208-4	chr2	118598078	118598278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009773)	promoter-TSS (NM_009773)	-33.0	NM_009773	12236.0	Mm.29133	NM_009773	ENSMUSG00000040084	Bub1b	AU045529|BUBR1	BUB1B, mitotic checkpoint serine/threonine kinase	protein-coding	38.5	90.0	29.5	569.5	96.5	43.0	47.5	45.5
Merged-chr12-44919831-4	chr12	44919728	44919928	+	867.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144552, intron 2 of 5)	intron (NM_144552, intron 2 of 5)	154655.0	NM_144552	217517.0	Mm.285400	NM_144552	ENSMUSG00000046314	Stxbp6	BC024598|C85317	syntaxin binding protein 6 (amisyn)	protein-coding	12.5	14.5	31.5	275.0	29.5	10.5	10.0	14.0
Merged-chr14-122814341-4	chr14	122814244	122814444	+	843.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153443, intron 22 of 24)	intron (NR_153443, intron 22 of 24)	-98686.0	NR_155287	105245866.0	Mm.390754	NM_001039531	ENSMUSG00000075463	Gm15735	4930594M22Rik|F930011C10Rik	predicted gene 15735	ncRNA	13.5	21.0	13.0	189.0	24.0	1.0	10.5	4.5
Merged-chr10-80674849-5	chr10	80674777	80674977	+	926.957153	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021462, intron 2 of 13)	intron (NM_021462, intron 2 of 13)	1416.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	10.0	28.0	18.0	56.0	38.0	17.0	3.0	12.0
Merged-chr13-23585971-4	chr13	23585863	23586063	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290530)	promoter-TSS (NM_001290530)	7.0	NM_001290530	319179.0	Mm.440391	NM_178194	ENSMUSG00000047246	Hist1h2be	-	histone cluster 1, H2be	protein-coding	114.5	196.0	87.0	1610.0	296.5	107.5	111.0	118.5
Merged-chr17-81433295-4	chr17	81433202	81433402	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104580, intron 5 of 8)	intron (NR_104580, intron 5 of 8)	305085.0	NM_001286684	20541.0	Mm.265834	NM_011406	ENSMUSG00000054640	Slc8a1	AI852629|AV344025|D930008O12Rik|Ncx1	solute carrier family 8 (sodium/calcium exchanger), member 1	protein-coding	8.5	54.0	20.0	300.0	70.5	18.0	17.5	20.0
Merged-chr4-57947109-3	chr4	57947015	57947215	+	781.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011660, intron 3 of 4)	GC_rich|Low_complexity|Low_complexity	9296.0	NM_011660	22166.0	Mm.260618	NM_011660	ENSMUSG00000028367	Txn1	ADF|AW550880|Trx1|Txn	thioredoxin 1	protein-coding	8.0	23.5	7.5	148.0	17.5	7.0	5.0	10.0
Merged-chr17-25273496-4	chr17	25273405	25273605	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027452)	promoter-TSS (NR_027452)	-74.0	NM_001177610	22196.0	Mm.240044	NM_011665	ENSMUSG00000015120	Ube2i	5830467E05Rik|UBC9|Ubce2i|Ubce9	ubiquitin-conjugating enzyme E2I	protein-coding	71.5	134.0	81.0	939.0	160.5	75.5	48.5	84.5
Merged-chr14-104473237-3	chr14	104473092	104473292	+	751.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5193.0	NM_011143	18996.0	Mm.246550	NM_011143	ENSMUSG00000048349	Pou4f1	Brn-3|Brn-3.0|Brn3|Brn3.0|Brn3a|E130119J07Rik	POU domain, class 4, transcription factor 1	protein-coding	7.0	8.5	12.0	41.0	11.0	7.5	10.0	11.0
Merged-chr4-120926269-4	chr4	120926161	120926361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR14|LTR|ERV1	-1256.0	NM_001160043	73172.0	Mm.151436	NM_028457	ENSMUSG00000028629	Exo5	3110037I16Rik|AV297100|Dem1|Exo V|mExo5	exonuclease 5	protein-coding	28.5	84.5	42.0	472.0	111.5	36.0	24.5	19.5
Merged-chr8-111052379-4	chr8	111052265	111052465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146217, intron 15 of 20)	intron (NM_146217, intron 15 of 20)	-3974.0	NM_028274	72544.0	Mm.24174	NM_028274	ENSMUSG00000109941	Exosc6	2610510N21Rik|C76919|Mtr3	exosome component 6	protein-coding	29.5	44.5	25.0	477.0	71.5	18.5	30.0	26.5
Merged-chr11-32642440-4	chr11	32642347	32642547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271349)	promoter-TSS (NM_001271349)	-108.0	NM_001271348	103583.0	Mm.28017	NM_134015	ENSMUSG00000020271	Fbxw11	2310065A07Rik|AA536858|BTRC2|BTRCP2|Fbxw1b|HOS	F-box and WD-40 domain protein 11	protein-coding	107.5	177.5	74.0	1567.5	328.0	104.5	142.5	138.5
Merged-chr9-14066964-4	chr9	14066868	14067068	+	890.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR44-int|LTR|ERVK	-209333.0	NM_030261	75747.0	Mm.325126	NM_030261	ENSMUSG00000032009	Sesn3	5630400E15Rik|BC003348|SEST3	sestrin 3	protein-coding	27.0	27.5	9.5	65.0	47.5	9.0	10.5	14.5
Merged-chr4-119707998-3	chr4	119707889	119708089	+	878.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49044.0	NM_008191	14916.0	Mm.278	NM_008191	ENSMUSG00000032978	Guca2b	AV066530|Gcap2|Ugn	guanylate cyclase activator 2b (retina)	protein-coding	6.5	11.0	6.0	136.0	4.0	2.0	6.0	8.5
Merged-chr15-96715248-4	chr15	96715133	96715333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-15505.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	40.5	28.5	28.0	470.0	102.5	39.0	32.5	30.5
Merged-chr5-148311039-4	chr5	148310962	148311162	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359511, intron 6 of 6)	MuRRS-int|LTR|ERV1	45845.0	NM_001359505	77521.0	Mm.244177	NM_029920	ENSMUSG00000029651	Mtus2	5730592G18Rik|A730013O20Rik|AU067634|C130038G02Rik|Cazip|Gm763|mKIAA0774	microtubule associated tumor suppressor candidate 2	protein-coding	55.0	56.0	43.5	773.5	116.0	41.5	67.0	66.5
Merged-chr11-46373272-4	chr11	46373176	46373376	+	929.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281966, intron 1 of 16)	Lx8b|LINE|L1	16239.0	NM_001281968	16428.0	Mm.339927	NM_010583	ENSMUSG00000020395	Itk	Emt|Tcsk|Tsk	IL2 inducible T cell kinase	protein-coding	21.5	17.5	9.0	297.5	54.0	10.5	18.5	11.5
Merged-chr6-121341917-4	chr6	121341820	121342020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1156.0	NM_001347433	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	35.0	47.0	58.0	482.5	111.0	43.0	41.0	46.5
Merged-chr8-71382088-4	chr8	71381980	71382180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010150)	promoter-TSS (NM_010150)	-128.0	NM_010150	13864.0	Mm.28989	NM_010150	ENSMUSG00000002393	Nr2f6	AV090102|COUP-TF3|EAR2|Erbal2	nuclear receptor subfamily 2, group F, member 6	protein-coding	80.0	92.5	49.5	559.0	166.5	67.0	82.5	42.0
Merged-chr12-73908512-4	chr12	73908392	73908592	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010431, intron 1 of 14)	CpG	625.0	NM_001313919	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	29.0	35.5	53.5	489.0	96.5	30.0	56.5	26.0
Merged-chr13-41018572-3	chr13	41018482	41018682	+	721.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360770, intron 3 of 4)	intron (NM_001360770, intron 3 of 4)	2332.0	NM_001360770	66154.0	Mm.30005	NM_025387	ENSMUSG00000021361	Tmem14c	1110021D01Rik|AU020193|HSPC194	transmembrane protein 14C	protein-coding	7.5	5.5	5.0	74.5	17.0	3.5	3.5	4.0
Merged-chr18-55125091-3	chr18	55124986	55125186	+	859.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132495.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	8.0	2.0	2.0	40.5	14.5	10.5	12.5	15.0
Merged-chr6-124671119-4	chr6	124671020	124671220	+	983.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149320, intron 1 of 11)	intron (NR_149320, intron 1 of 11)	8016.0	NM_145130	14792.0	Mm.273915	NM_145130	ENSMUSG00000004270	Lpcat3	C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG	lysophosphatidylcholine acyltransferase 3	protein-coding	18.5	47.5	23.5	524.0	37.5	18.0	30.0	20.0
Merged-chr13-99211188-4	chr13	99211067	99211267	+	974.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	26344.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	15.0	22.0	15.0	381.0	62.0	16.5	22.0	30.0
Merged-chr8-90793908-3	chr8	90793817	90794017	+	675.511108	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34918.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	7.0	8.5	9.5	80.0	15.0	3.0	4.5	8.5
Merged-chr1-54913055-2	chr1	54912955	54913155	+	963.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	intron (NM_001081433, intron 1 of 27)	13332.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	7.5	12.0	7.0	51.0	14.5	3.5	6.0	3.0
Merged-chr19-41796965-3	chr19	41796868	41797068	+	736.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027667, intron 1 of 11)	intron (NM_027667, intron 1 of 11)	5116.0	NM_001163495	71085.0	Mm.21646	NM_027667	ENSMUSG00000025154	Arhgap19	4933411B03Rik|AI120128|AW546831|mFLJ00368	Rho GTPase activating protein 19	protein-coding	5.5	5.5	11.5	88.5	8.5	2.0	5.5	5.0
Merged-chr12-24708615-4	chr12	24708488	24708688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009104, exon 2 of 10)	exon (NM_009104, exon 2 of 10)	334.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	28.5	39.0	35.5	491.0	86.5	15.0	42.5	44.5
Merged-chr6-82777066-4	chr6	82776968	82777168	+	846.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2614.0	NM_013820	15277.0	Mm.255848	NM_013820	ENSMUSG00000000628	Hk2	AI642394|HKII	hexokinase 2	protein-coding	12.0	10.0	9.0	97.5	28.0	7.5	4.0	14.0
Merged-chr7-24547036-4	chr7	24546939	24547139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009532, exon 2 of 18)	5' UTR (NM_009532, exon 2 of 18)	340.0	NM_001360170	22594.0	Mm.4347	NM_009532	ENSMUSG00000051768	Xrcc1	Xrcc-1	X-ray repair complementing defective repair in Chinese hamster cells 1	protein-coding	293.5	448.5	242.0	3783.5	675.5	223.0	321.5	208.5
Merged-chr19-56699880-4	chr19	56699783	56699983	+	981.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22489.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	17.5	19.5	12.5	228.5	48.5	11.5	12.5	5.0
Merged-chr16-17182349-4	chr16	17182241	17182441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009456, intron 1 of 3)	ORR1D1|LTR|ERVL-MaLR	19151.0	NM_009456	22195.0	Mm.3074	NM_009456	ENSMUSG00000038965	Ube2l3	C79827|UbcM4|Ubce7	ubiquitin-conjugating enzyme E2L 3	protein-coding	47.0	76.0	34.0	663.0	74.5	30.5	32.5	27.5
Merged-chr2-59207823-4	chr2	59207703	59207903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 1 of 20)	intron (NM_175464, intron 1 of 20)	46953.0	NM_175464	227937.0	Mm.260938	NM_026361	ENSMUSG00000026991	Pkp4	5031422I09Rik|9430019K17Rik|Armrp|p0071	plakophilin 4	protein-coding	90.5	135.5	129.5	1925.5	143.5	52.0	82.5	67.5
Merged-chr7-126260975-2	chr7	126260875	126261075	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001360811, intron 1 of 3)	intron (NM_001360811, intron 1 of 3)	-11521.0	NM_145587	104175.0	Mm.29660	NM_145587	ENSMUSG00000042978	Sbk1	Sbk	SH3-binding kinase 1	protein-coding	8.5	13.5	2.0	77.0	21.0	6.0	8.5	11.5
Merged-chr11-120729738-4	chr11	120729606	120729806	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_007621, exon 8 of 8)	3' UTR (NM_007621, exon 8 of 8)	2315.0	NM_007621	12409.0	Mm.21454	NM_007621	ENSMUSG00000025150	Cbr2	MLCR	carbonyl reductase 2	protein-coding	26.0	39.5	22.5	143.5	40.0	18.5	25.5	10.0
Merged-chr19-55233743-4	chr19	55233669	55233869	+	970.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081076, intron 3 of 20)	intron (NM_001081076, intron 3 of 20)	7467.0	NM_001081076	73707.0	Mm.489987	NM_001081076	ENSMUSG00000055523	Gucy2g	2410077I05Rik|GC-G	guanylate cyclase 2g	protein-coding	19.0	25.5	18.5	203.0	32.5	12.0	11.5	9.0
Merged-chr2-145823863-3	chr2	145823776	145823976	+	856.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028724, intron 4 of 12)	intron (NM_028724, intron 4 of 12)	37760.0	NM_028724	74030.0	Mm.228799	NM_028724	ENSMUSG00000001768	Rin2	2010003K16Rik|4632403N06Rik|AW821980|RASSF4	Ras and Rab interactor 2	protein-coding	8.0	9.0	5.0	126.5	6.0	4.5	7.5	6.0
Merged-chr6-124903796-4	chr6	124903699	124903899	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008479)	TTS (NM_008479)	7906.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	69.0	81.0	38.0	882.5	205.5	71.0	83.0	74.0
Merged-chr1-183978794-4	chr1	183978661	183978861	+	984.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB_Mm|LTR|ERVL-MaLR	55237.0	NM_028516	73363.0	Mm.50115	NM_028516	ENSMUSG00000044854	1700056E22Rik	-	RIKEN cDNA 1700056E22 gene	protein-coding	12.5	18.0	37.5	442.0	69.0	21.5	43.5	42.5
Merged-chr2-18997616-3	chr2	18997527	18997727	+	908.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_024323)	promoter-TSS (NR_024323)	494.0	NM_008845	18718.0	Mm.313977	NM_008845	ENSMUSG00000026737	Pip4k2a	AW742916|Pip5k2a	phosphatidylinositol-5-phosphate 4-kinase, type II, alpha	protein-coding	15.0	13.5	23.0	190.5	35.0	10.0	11.0	12.0
Merged-chr17-80130890-4	chr17	80130787	80130987	+	966.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 1 of 6)	intron (NM_176963, intron 1 of 6)	3416.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	23.5	26.5	21.5	403.5	66.5	12.5	14.5	31.5
Merged-chr2-153032342-3	chr2	153032190	153032390	+	840.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001011732, exon 1 of 3)	exon (NM_001011732, exon 1 of 3)	438.0	NM_001011732	228787.0	Mm.376111	NM_001011732	ENSMUSG00000042631	Xkr7	AY534253	X-linked Kx blood group related 7	protein-coding	1.0	5.0	5.0	57.0	12.0	5.5	4.5	7.5
Merged-chr4-147960381-4	chr4	147960300	147960500	+	990.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19505.0	NM_029841	77034.0	Mm.183076	NM_029841	ENSMUSG00000044496	2510039O18Rik	Kiaa2013	RIKEN cDNA 2510039O18 gene	protein-coding	18.0	28.5	18.5	323.5	48.5	19.0	28.0	20.0
Merged-chr7-46963447-4	chr7	46963347	46963547	+	982.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4929.0	NM_001040695	54122.0	Mm.1999	NM_016855	ENSMUSG00000043262	Uevld	8430408E05Rik|Attp	UEV and lactate/malate dehyrogenase domains	protein-coding	23.5	22.5	9.5	315.5	48.0	23.5	22.5	31.0
Merged-chr18-67249185-4	chr18	67249081	67249281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-3351.0	NM_001357518	225651.0	Mm.235792	NM_172630	ENSMUSG00000062526	Mppe1	Pgap5	metallophosphoesterase 1	protein-coding	64.5	87.0	45.0	957.0	138.5	41.0	63.5	58.5
Merged-chr16-30599622-4	chr16	30599467	30599667	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177632)	promoter-TSS (NM_177632)	-156.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	131.0	205.5	164.5	1652.0	341.0	143.0	151.0	114.0
Merged-chr5-141038561-4	chr5	141038459	141038659	+	861.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37963.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	43.0	29.5	46.5	634.5	26.5	15.5	38.0	31.0
Merged-chr13-113379082-4	chr13	113378997	113379197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	123747.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	77.0	78.0	107.5	1474.5	146.0	63.0	70.5	82.0
Merged-chr3-51353526-2	chr3	51353426	51353626	+	972.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-12882.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	9.5	11.0	7.5	61.5	23.5	11.5	5.5	3.5
Merged-chr15-99033665-4	chr15	99033550	99033750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009448, intron 1 of 3)	(T)n|Simple_repeat|Simple_repeat	3759.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	121.0	164.0	176.5	1663.5	253.0	114.0	116.5	121.0
Merged-chr7-140115772-4	chr7	140115654	140115854	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053119, intron 1 of 7)	intron (NM_053119, intron 1 of 7)	669.0	NM_053119	93747.0	Mm.24452	NM_053119	ENSMUSG00000025465	Echs1	C80529	enoyl Coenzyme A hydratase, short chain, 1, mitochondrial	protein-coding	66.0	60.5	69.0	762.0	117.0	46.0	58.0	35.5
Merged-chr7-75667218-3	chr7	75667113	75667313	+	651.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 10 of 36)	intron (NM_029332, intron 10 of 36)	-181125.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	8.5	12.0	11.5	84.5	14.0	4.5	4.0	8.5
Merged-chr16-32813146-4	chr16	32813048	32813248	+	926.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2702.0	NM_001256309	381043.0	Mm.303864	NM_001256309	ENSMUSG00000094430	Smbd1	Gm1743|Gm933	somatomedin B domain containing 1	protein-coding	13.0	24.5	7.0	141.0	40.5	19.0	14.5	13.5
Merged-chr4-43431879-4	chr4	43431746	43431946	+	919.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2712.0	NM_001162381	329831.0	Mm.454466	NM_177377	ENSMUSG00000042788	Fam166b	4833436C18Rik	family with sequence similarity 166, member B	protein-coding	15.5	13.5	6.5	117.5	32.0	14.0	7.5	14.5
Merged-chr11-77980426-4	chr11	77980331	77980531	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2385.0	NM_174852	268448.0	Mm.274329	NM_174852	ENSMUSG00000037791	Phf12	2410142K10Rik|F630045O13|PF1|mKIAA1523	PHD finger protein 12	protein-coding	14.0	17.5	3.0	84.0	33.0	10.0	10.0	6.0
Merged-chr4-88865392-4	chr4	88865296	88865496	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14805.0	NM_177348	230405.0	Mm.246593	NM_177348	ENSMUSG00000045364	Ifne	Ifn-tau-1|Ifne1|Ifnt1|Infe1	interferon epsilon	protein-coding	59.0	66.0	44.0	941.0	207.5	56.0	51.5	40.0
Merged-chr18-69544047-4	chr18	69543950	69544150	+	893.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 6 of 19)	intron (NM_001361128, intron 6 of 19)	197890.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	7.5	19.5	14.5	289.0	25.5	11.0	13.0	13.5
Merged-chr4-119126076-4	chr4	119125974	119126174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 2 of 9)	intron (NM_011400, intron 2 of 9)	17329.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	50.0	71.0	26.5	572.5	186.5	80.0	61.0	61.0
Merged-chr1-161351144-4	chr1	161351055	161351255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ERVL-int|LTR|ERVL	-44283.0	NM_009452	22164.0	Mm.4994	NM_009452	ENSMUSG00000026700	Tnfsf4	Ath-1|Ath1|CD134L|OX-40L|Ox40l|TXGP1|Tnlg2b|Txgp1l|gp34	tumor necrosis factor (ligand) superfamily, member 4	protein-coding	67.5	72.5	22.0	597.0	133.5	62.5	64.0	49.0
Merged-chr8-46639227-4	chr8	46639153	46639353	+	999.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_009810, exon 7 of 7)	3' UTR (NM_009810, exon 7 of 7)	21962.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	25.0	17.5	28.5	315.5	27.5	5.5	9.0	29.0
Merged-chr17-10390896-4	chr17	10390792	10390992	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65324.0	NR_077239	319750.0	Mm.383485	NR_077237	ENSMUSG00000089633	A230009B12Rik	-	RIKEN cDNA A230009B12 gene	ncRNA	83.0	68.0	124.5	1274.5	165.5	42.5	78.5	67.5
Merged-chr19-47936582-4	chr19	47936499	47936699	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME3G|LINE|L1	-1113.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	28.5	28.5	20.5	419.0	63.0	20.5	28.5	33.5
Merged-chr6-86785013-4	chr6	86784946	86785146	+	872.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013471, intron 1 of 12)	B4A|SINE|B4	8538.0	NM_013471	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	11.5	32.5	13.0	272.0	21.0	8.5	6.0	15.0
Merged-chr14-21273729-4	chr14	21273633	21273833	+	927.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134079, intron 6 of 10)	MIRc|SINE|MIR	197581.0	NM_001243041	11534.0	Mm.188734	NM_134079	ENSMUSG00000039197	Adk	2310026J05Rik|5033405D03Rik|AI255373|AI987814|Ak	adenosine kinase	protein-coding	8.0	13.0	22.0	333.5	36.5	3.0	17.0	14.0
Merged-chr14-77783434-3	chr14	77783338	77783538	+	591.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15530.0	NM_001033440	380920.0	Mm.297771	NM_001033440	ENSMUSG00000075512	Gm1587	-	predicted gene 1587	protein-coding	12.5	6.0	7.0	49.0	22.5	9.0	13.0	10.5
Merged-chr7-47146511-3	chr7	47146417	47146617	+	875.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12833.0	NM_013643	19259.0	Mm.4654	NM_013643	ENSMUSG00000030854	Ptpn5	Step	protein tyrosine phosphatase, non-receptor type 5	protein-coding	5.5	9.0	6.0	148.0	8.5	8.5	6.5	8.5
Merged-chr1-180428527-2	chr1	180428427	180428627	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	54977.0	NM_001081227	381310.0	Mm.44791	NM_001081227	ENSMUSG00000053963	Stum	6330403A02Rik|Gm10001|R75555	mechanosensory transduction mediator	protein-coding	23.0	22.5	17.0	249.0	34.5	24.5	12.0	20.5
Merged-chr9-22388095-3	chr9	22387983	22388183	+	780.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028390, intron 1 of 23)	intron (NM_028390, intron 1 of 23)	1123.0	NM_028390	68743.0	Mm.282751	NM_028390	ENSMUSG00000036777	Anln	1110037A17Rik|2900037I21Rik|C78101|Scraps	anillin, actin binding protein	protein-coding	3.0	9.5	2.5	90.0	21.5	6.5	5.0	6.0
Merged-chr1-4858121-1	chr1	4858021	4858221	+	1000.0	f0_balb.idr	promoter-TSS (NM_001159751)	promoter-TSS (NM_001159751)	-207.0	NM_001159751	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	13.0	31.0	20.5	432.5	60.5	43.5	27.0	44.5
Merged-chr4-149790047-4	chr4	149789949	149790149	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15782.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	53.5	40.0	29.0	450.0	76.0	26.0	39.0	34.5
Merged-chr5-125521375-4	chr5	125521276	125521476	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11042.0	NM_001190352	208151.0	Mm.40397	NM_001190352	ENSMUSG00000070498	Tmem132b	AK220418|mKIAA1786	transmembrane protein 132B	protein-coding	18.0	34.0	19.5	275.0	72.5	19.0	37.5	22.0
Merged-chr2-153292625-6	chr2	153292533	153292733	+	983.508301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008444, intron 1 of 8)	intron (NM_008444, intron 1 of 8)	1217.0	NM_008444	16569.0	Mm.315560	NM_008444	ENSMUSG00000027475	Kif3b	AI854312|AW549267|mKIAA0359	kinesin family member 3B	protein-coding	9.5	30.0	11.0	231.0	36.0	19.5	10.5	10.5
Merged-chr14-9470578-4	chr14	9470473	9470673	+	931.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-413522.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	15.5	20.0	18.0	139.0	54.0	11.0	12.0	5.5
Merged-chr8-115611695-4	chr8	115611614	115611814	+	930.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	95180.0	NM_001025577	17132.0	Mm.275549	NM_001025577	ENSMUSG00000055435	Maf	2810401A20Rik|A230108G15Rik|AW047063|c-maf	avian musculoaponeurotic fibrosarcoma oncogene homolog	protein-coding	12.0	12.5	8.5	152.0	30.0	13.5	16.0	11.5
Merged-chr15-39198213-5	chr15	39198157	39198357	+	796.366638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001256382)	promoter-TSS (NM_001256382)	-29.0	NM_001256382	116838.0	Mm.309296	NM_053271	ENSMUSG00000037386	Rims2	2810036I15Rik|AW048769|RIM2|Rab3ip2|Rim2(+40A)|Rim2(+44A)|Rim2(+4A)|Serg2|Syt3-rs|mKIAA0751	regulating synaptic membrane exocytosis 2	protein-coding	10.0	4.5	7.0	59.0	6.0	1.0	2.0	9.0
Merged-chr7-4099018-3	chr7	4098929	4099129	+	908.7777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033568, intron 5 of 8)	ORR1B1|LTR|ERVL-MaLR	-20501.0	NM_001109765	57776.0	Mm.29729	NM_021324	ENSMUSG00000030428	Ttyh1	4930459B04Rik|6330408P11Rik|TTY1|mTTY1|tty	tweety family member 1	protein-coding	0.0	8.5	2.5	56.5	57.5	25.5	33.0	23.0
Merged-chr4-149307822-4	chr4	149307703	149307903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290995)	promoter-TSS (NM_001290995)	-70.0	NM_001290995	16561.0	Mm.402393	NM_008441	ENSMUSG00000063077	Kif1b	A530096N05Rik|AI448212|AI506502|D4Mil1e|KIF1Bp130|KIF1Bp204	kinesin family member 1B	protein-coding	125.0	178.5	119.5	1668.5	344.5	130.0	169.5	111.5
Merged-chr4-99716101-2	chr4	99716001	99716201	+	973.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001081264, intron 1 of 14)	B1F2|SINE|Alu	471.0	NM_001081264	320438.0	Mm.32408	NM_001081264	ENSMUSG00000073792	Alg6	E230028F23Rik	asparagine-linked glycosylation 6 (alpha-1,3,-glucosyltransferase)	protein-coding	12.5	8.0	12.5	99.5	27.5	10.0	14.0	8.0
Merged-chr10-52309375-4	chr10	52309262	52309462	+	931.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025705, intron 6 of 10)	intron (NM_025705, intron 6 of 10)	72762.0	NM_053187	94221.0	Mm.390258	NM_053187	ENSMUSG00000019861	Gopc	2210402P09Rik|AI844555|CAL|FIG|GOPC1|PIST	golgi associated PDZ and coiled-coil motif containing	protein-coding	37.5	31.0	57.5	805.5	28.0	9.5	18.5	23.0
Merged-chr8-84704538-3	chr8	84704421	84704621	+	751.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001081981)	TTS (NM_001081981)	3064.0	NM_008535	17095.0	Mm.4925	NM_008535	ENSMUSG00000034041	Lyl1	Lyl-1|bHLHa18	lymphoblastomic leukemia 1	protein-coding	6.5	10.0	6.5	82.0	2.5	0.5	1.5	2.5
Merged-chr3-103169970-4	chr3	103169879	103170079	+	915.462524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177857)	TTS (NM_177857)	-1676.0	NM_026602	68183.0	Mm.104919	NM_026602	ENSMUSG00000005687	Bcas2	6430539P16Rik|AI132645|C76366|C80030	breast carcinoma amplified sequence 2	protein-coding	11.0	15.0	5.5	238.5	54.5	24.0	17.5	16.0
Merged-chr15-85879287-4	chr15	85879195	85879395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028063)	promoter-TSS (NM_028063)	-32.0	NM_028063	72026.0	Mm.158211	NM_028063	ENSMUSG00000022386	Trmu	1110005N20Rik|1600025P05Rik|AI314320|Trmt1	tRNA 5-methylaminomethyl-2-thiouridylate methyltransferase	protein-coding	76.0	115.5	113.5	1903.5	244.5	84.0	119.5	82.5
Merged-chr1-37474250-4	chr1	37474135	37474335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173870, intron 5 of 15)	intron (NM_173870, intron 5 of 15)	14370.0	NR_024017	77633.0	Mm.483177	NR_024017	ENSMUSG00000103948	4930594C11Rik	-	G1 to S phase transition pseudogene	pseudo	29.0	51.0	38.0	514.5	94.5	24.5	37.0	42.5
Merged-chr4-43558832-4	chr4	43558755	43558955	+	903.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011602, intron 1 of 56)	intron (NM_011602, intron 1 of 56)	3728.0	NM_011602	21894.0	Mm.208601	NM_011602	ENSMUSG00000028465	Tln1	Tln	talin 1	protein-coding	10.0	24.5	16.5	177.5	17.0	10.5	1.5	8.0
Merged-chr10-68276525-4	chr10	68276425	68276625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	2201.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	34.5	101.5	33.0	374.0	174.5	105.5	73.5	78.5
Merged-chr14-30716268-4	chr14	30716192	30716392	+	992.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166532, intron 1 of 20)	CpG	677.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	18.5	40.5	15.0	250.5	45.0	13.5	13.5	21.5
Merged-chr3-59204335-5	chr3	59204198	59204398	+	720.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	6584.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	7.0	15.5	7.5	55.0	11.0	1.0	3.0	2.0
Merged-chr8-41375689-4	chr8	41375546	41375746	+	775.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019734)	promoter-TSS (NM_019734)	-949.0	NM_019734	11886.0	Mm.22547	NM_019734	ENSMUSG00000031591	Asah1	2310081N20Rik|AC|Asah	N-acylsphingosine amidohydrolase 1	protein-coding	11.5	17.0	10.5	19.5	19.0	3.5	10.0	6.5
Merged-chr8-106935663-4	chr8	106935546	106935746	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009229)	promoter-TSS (NM_009229)	-104.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	66.0	94.0	51.0	834.0	155.5	60.5	45.0	66.0
Merged-chr10-128372772-2	chr10	128372672	128372872	+	918.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-2735.0	NM_001081040	210582.0	Mm.296876	NM_001081040	ENSMUSG00000039914	Coq10a	Gm1	coenzyme Q10A	protein-coding	6.0	17.5	5.0	67.0	10.5	3.5	3.5	6.0
Merged-chr9-59567323-4	chr9	59567211	59567411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11026.0	NM_175235	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	49.0	62.5	34.5	713.5	117.5	45.0	39.5	40.0
Merged-chr16-22027391-4	chr16	22027303	22027503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_027488, intron 7 of 16)	intron (NR_027488, intron 7 of 16)	17919.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	63.0	103.0	56.5	836.5	145.5	74.5	57.5	75.0
Merged-chr7-145122694-4	chr7	145122626	145122826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	85393.0	NR_033626	100040049.0	Mm.102235	NR_033626	ENSMUSG00000109305	1810010D01Rik	Gm2572	RIKEN cDNA 1810010D01 gene	ncRNA	32.0	24.0	58.0	978.5	45.5	4.0	8.5	13.0
Merged-chr1-43561308-4	chr1	43561211	43561411	+	880.2625119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010879, intron 4 of 4)	intron (NM_010879, intron 4 of 4)	115560.0	NM_010879	17974.0	Mm.389903	NM_010879	ENSMUSG00000066877	Nck2	4833426I10Rik|Grb4|NCKbeta|Nck-2	non-catalytic region of tyrosine kinase adaptor protein 2	protein-coding	10.0	22.0	21.0	391.5	33.5	11.0	9.0	13.0
Merged-chr2-155019456-3	chr2	155019373	155019573	+	890.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015770, intron 1 of 3)	ERVB4_1-I_MM-int|LTR|ERVK	5903.0	NM_015770	50518.0	Mm.315593	NM_015770	ENSMUSG00000027596	a	A<y>|ASIP|ASP|As	nonagouti	protein-coding	9.0	10.0	6.5	114.0	33.5	5.5	9.0	9.0
Merged-chr2-154539924-2	chr2	154539824	154540024	+	684.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_009823)	TTS (NM_009823)	-8980.0	NM_029305	75480.0	Mm.440434	NM_029305	ENSMUSG00000038523	1700003F12Rik	-	RIKEN cDNA 1700003F12 gene	protein-coding	6.0	8.0	4.5	70.0	16.5	6.0	13.5	6.5
Merged-chr3-121594797-2	chr3	121594697	121594897	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	48688.0	NR_036456	100503044.0	Mm.65320	NM_176992	ENSMUSG00000044522	A730020M07Rik	-	RIKEN cDNA A730020M07 gene	ncRNA	1.0	10.5	2.5	51.5	7.0	7.5	5.0	9.5
Merged-chr7-16244291-4	chr7	16244204	16244404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176912)	promoter-TSS (NM_176912)	-150.0	NM_176912	319430.0	Mm.239570	NM_176912	ENSMUSG00000074361	C5ar2	C5L2|E030029A11Rik|Gpr77	complement component 5a receptor 2	protein-coding	105.5	141.0	108.0	1425.5	299.0	103.0	98.0	108.5
Merged-chr10-77970647-4	chr10	77970529	77970729	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138301)	promoter-TSS (NM_138301)	-757.0	NM_138301	28240.0	Mm.276762	NM_138301	ENSMUSG00000009292	Trpm2	9830168K16Rik|C79133|LTRPC2|TRPC7|Trp7|Trrp7	transient receptor potential cation channel, subfamily M, member 2	protein-coding	138.0	186.0	228.5	2678.0	282.0	107.0	170.5	133.0
Merged-chr10-79970885-2	chr10	79970785	79970985	+	626.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_130455, exon 1 of 9)	5' UTR (NM_130455, exon 1 of 9)	161.0	NM_130455	170483.0	Mm.391566	NM_130455	ENSMUSG00000035745	Grin3b	GluN3B|NR3B	glutamate receptor, ionotropic, NMDA3B	protein-coding	1.0	8.0	5.5	34.5	5.5	5.0	6.5	11.0
Merged-chr2-46315472-4	chr2	46315390	46315590	+	891.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	618885.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	15.0	10.0	7.0	181.5	30.0	10.5	10.0	7.5
Merged-chr6-143167873-3	chr6	143167765	143167965	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029250, intron 1 of 7)	CpG	635.0	NM_029250	75320.0	Mm.272548	NM_029250	ENSMUSG00000030275	Etnk1	1110061E11Rik|4930555L11Rik|AI195356|AI841245|C80956|D6Ertd3e|EKI1	ethanolamine kinase 1	protein-coding	12.0	16.0	23.5	216.0	39.5	13.5	12.0	16.0
Merged-chr18-60802053-3	chr18	60801949	60802149	+	809.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30|LTR|ERV1	-1800.0	NM_001042605	16149.0	Mm.439737	NM_010545	ENSMUSG00000024610	Cd74	CLIP|DHLAG|HLADG|Ia-GAMMA|Ii	CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)	protein-coding	2.0	16.5	1.0	72.0	43.0	5.0	10.5	8.5
Merged-chr4-152283366-4	chr4	152283263	152283463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_178406, exon 6 of 6)	exon (NM_178406, exon 6 of 6)	8299.0	NM_008237	15207.0	Mm.3516	NM_008237	ENSMUSG00000028946	Hes3	Hes-3|bHLHb43	hes family bHLH transcription factor 3	protein-coding	37.0	41.0	39.0	611.0	92.0	33.5	34.5	41.5
Merged-chr7-99263704-3	chr7	99263602	99263802	+	988.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_103487, exon 3 of 4)	non-coding (NR_103487, exon 3 of 4)	3516.0	NR_103487	381967.0	Mm.261763	NR_103487	ENSMUSG00000097015	Gm26705	-	predicted gene, 26705	ncRNA	7.0	34.0	14.5	161.0	22.0	8.5	8.5	8.0
Merged-chr8-83749975-4	chr8	83749865	83750065	+	794.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-8654.0	NM_001163031	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	8.0	14.5	8.5	68.0	28.5	4.0	7.0	10.0
Merged-chr10-8022195-3	chr10	8022070	8022270	+	730.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15-int|LTR|ERVL	-66047.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	14.5	9.5	16.0	171.0	19.5	6.0	6.5	0.0
Merged-chr17-35780525-4	chr17	35780400	35780600	+	979.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045459, exon 3 of 3)	non-coding (NR_045459, exon 3 of 3)	8050.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	27.0	26.5	40.5	771.0	29.0	10.0	18.5	23.0
Merged-chr2-30967005-4	chr2	30966906	30967106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144884, intron 2 of 4)	intron (NM_144884, intron 2 of 4)	912.0	NM_144884	30931.0	Mm.154994	NM_144884	ENSMUSG00000026849	Tor1a	DQ2|Dyt1|torsinA	torsin family 1, member A (torsin A)	protein-coding	44.5	55.0	28.5	377.0	95.0	35.5	37.5	28.5
Merged-chr6-42860491-4	chr6	42860383	42860583	+	762.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22600.0	NM_147064	259067.0	Mm.451673	NM_147064	ENSMUSG00000049168	Olfr449	GA_x6K02T2P3E9-4722003-4721068|MOR103-1	olfactory receptor 449	protein-coding	9.5	10.0	16.5	75.0	15.5	9.5	4.0	2.0
Merged-chr18-4236433-3	chr18	4236321	4236521	+	849.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70589.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	9.0	14.5	4.0	71.5	17.0	10.5	11.0	6.5
Merged-chr1-152774774-4	chr1	152774672	152774872	+	991.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026369, exon 4 of 4)	3' UTR (NM_026369, exon 4 of 4)	8230.0	NM_026369	67771.0	Mm.288974	NM_026369	ENSMUSG00000008475	Arpc5	5830443F10Rik|p16-Arc	actin related protein 2/3 complex, subunit 5	protein-coding	13.0	43.0	30.0	234.0	37.0	17.0	22.0	22.0
Merged-chr2-170508995-4	chr2	170508894	170509094	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040367, intron 1 of 2)	intron (NR_040367, intron 1 of 2)	-2236.0	NM_001110152	109054.0	Mm.28808	NM_001013369	ENSMUSG00000052033	Pfdn4	0610025M10Rik|1810063B06Rik|C-1|C1|Pfd4	prefoldin 4	protein-coding	32.5	44.0	43.5	665.0	78.0	48.0	32.5	31.5
Merged-chr10-40349278-4	chr10	40349181	40349381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001168304)	promoter-TSS (NM_001168304)	-27.0	NM_001291817	78334.0	Mm.200924	NM_198164	ENSMUSG00000038481	Cdk19	2700084L06Rik|AI845279|AW228747|CDK11|Cdc2l6|mKIAA1028	cyclin-dependent kinase 19	protein-coding	345.0	502.5	396.5	5084.0	827.0	337.5	397.5	288.5
Merged-chr12-105795093-3	chr12	105794990	105795190	+	767.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011112, intron 1 of 21)	intron (NM_011112, intron 1 of 21)	10393.0	NM_001347440	18789.0	Mm.255877	NM_011112	ENSMUSG00000021111	Papola	Pap|PapIII|Plap	poly (A) polymerase alpha	protein-coding	11.5	10.5	5.5	171.5	32.0	4.0	3.0	7.0
Merged-chr17-28260095-4	chr17	28259989	28260189	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011145, intron 2 of 7)	intron (NM_011145, intron 2 of 7)	-11619.0	NR_045427	69050.0	Mm.486938	NR_045427	ENSMUSG00000002250	1810013A23Rik	-	RIKEN cDNA 1810013A23 gene	ncRNA	120.0	189.5	151.0	2024.5	311.5	111.0	129.5	112.0
Merged-chr14-55762561-6	chr14	55762372	55762572	+	943.263916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020490, exon 2 of 2)	exon (NM_020490, exon 2 of 2)	1044.0	NM_020490	57260.0	Mm.159670	NM_020490	ENSMUSG00000040432	Ltb4r2	5830462O07Rik|BLT2|LTB4-R 2|LTB4-R-2|LTB4-R2	leukotriene B4 receptor 2	protein-coding	12.0	12.5	5.0	91.5	22.0	6.5	7.5	24.0
Merged-chr16-20537563-5	chr16	20537546	20537746	+	962.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_009679, exon 2 of 11)	5' UTR (NM_009679, exon 2 of 11)	2166.0	NM_009679	11773.0	Mm.18946	NM_009679	ENSMUSG00000022841	Ap2m1	-	adaptor-related protein complex 2, mu 1 subunit	protein-coding	14.0	33.5	12.5	185.0	35.0	22.0	15.0	15.0
Merged-chr16-18235077-6	chr16	18234904	18235104	+	881.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_172151, exon 1 of 11)	exon (NM_172151, exon 1 of 11)	132.0	NM_172151	27801.0	Mm.326263	NM_172151	ENSMUSG00000060166	Zdhhc8	D16H22S1738E|DHHC-8|E330009O14Rik|Op53c05|ZDHHCL1	zinc finger, DHHC domain containing 8	protein-coding	4.5	5.0	3.0	79.0	10.5	6.0	4.5	5.5
Merged-chr5-117933012-4	chr5	117932885	117933085	+	901.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 19 of 27)	intron (NM_008712, intron 19 of 27)	-43785.0	NM_145564	231670.0	Mm.21912	NM_145564	ENSMUSG00000032898	Fbxo21	2810425J22Rik|AU016673	F-box protein 21	protein-coding	5.5	7.0	14.5	136.0	29.5	11.5	14.0	15.5
Merged-chr13-93187998-4	chr13	93187899	93188099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_154997, intron 1 of 15)	intron (NR_154997, intron 1 of 15)	4418.0	NM_001361536	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	33.5	75.0	40.5	501.0	153.0	54.0	35.0	47.0
Merged-chr14-70977393-1	chr14	70977293	70977493	+	695.0	f0_balb.idr	intron (NM_001302094, intron 7 of 7)	intron (NM_001302094, intron 7 of 7)	87286.0	NM_001302094	14586.0	Mm.32619	NM_008115	ENSMUSG00000022103	Gfra2	-	glial cell line derived neurotrophic factor family receptor alpha 2	protein-coding	10.0	9.5	8.0	138.5	3.0	5.0	3.5	3.0
Merged-chr16-93091062-4	chr16	93090965	93091165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	262124.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	32.0	30.5	48.5	758.5	102.0	22.0	58.5	50.5
Merged-chr4-40142952-4	chr4	40142868	40143068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007386)	promoter-TSS (NM_007386)	-297.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	290.0	406.5	289.0	5066.5	759.0	311.0	397.5	298.5
Merged-chr16-91546623-4	chr16	91546528	91546728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008338)	promoter-TSS (NM_008338)	-466.0	NM_008338	15980.0	Mm.249364	NM_008338	ENSMUSG00000022965	Ifngr2	Ifgr2|Ifgt	interferon gamma receptor 2	protein-coding	83.5	130.0	121.5	1526.0	317.5	111.0	178.0	142.0
Merged-chr9-61590116-1	chr9	61590016	61590216	+	542.0	f0_balb.idr	Intergenic	Intergenic	217750.0	NM_001083927	21887.0	Mm.24255	NM_009389	ENSMUSG00000032280	Tle3	2610103N05Rik|ESG|Grg3a|Grg3b|mKIAA1547	transducin-like enhancer of split 3	protein-coding	8.5	6.0	15.0	77.5	10.5	7.0	5.0	3.5
Merged-chr4-65496693-3	chr4	65496597	65496797	+	939.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207109, intron 19 of 22)	intron (NM_207109, intron 19 of 22)	-108289.0	NM_053084	69807.0	Mm.22786	NM_053084	ENSMUSG00000051675	Trim32	1810045E12Rik|3f3|BBS11|Zfp117	tripartite motif-containing 32	protein-coding	6.0	5.0	8.0	137.5	13.0	11.0	7.5	2.5
Merged-chr3-60511566-3	chr3	60511439	60511639	+	884.7333369999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253711, intron 1 of 7)	intron (NM_001253711, intron 1 of 7)	10360.0	NM_001253708	56758.0	Mm.255723	NM_020007	ENSMUSG00000027763	Mbnl1	Mbnl|mKIAA0428	muscleblind like splicing factor 1	protein-coding	2.0	0.0	1.5	24.0	9.0	5.5	12.5	9.0
Merged-chr2-49349898-4	chr2	49349779	49349979	+	929.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-101607.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	33.5	19.5	41.5	845.0	30.0	14.5	47.5	42.0
Merged-chr11-98361443-4	chr11	98361341	98361541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021547, intron 1 of 14)	intron (NM_021547, intron 1 of 14)	3073.0	NM_021547	59045.0	Mm.265546	NM_021547	ENSMUSG00000018167	Stard3	Mln64|es64	START domain containing 3	protein-coding	74.5	65.0	50.0	1125.0	120.5	37.5	41.0	37.5
Merged-chr9-95674690-3	chr9	95674566	95674766	+	688.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 3 of 8)	MTD|LTR|ERVL-MaLR	37038.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	4.5	6.0	13.5	146.5	11.0	7.0	15.0	7.0
Merged-chr19-47148582-4	chr19	47148466	47148666	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4392.0	NM_001081271	546729.0	Mm.439624	NM_001081271	ENSMUSG00000079258	Calhm1	EG546729	calcium homeostasis modulator 1	protein-coding	64.5	137.5	67.0	880.5	157.5	56.0	54.0	42.5
Merged-chr3-98046579-4	chr3	98046490	98046690	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010928, intron 1 of 33)	MIR3|SINE|MIR	33052.0	NM_010928	18129.0	Mm.485843	NM_010928	ENSMUSG00000027878	Notch2	AI853703|N2	notch 2	protein-coding	99.0	139.5	77.0	1606.0	197.0	75.0	132.0	110.0
Merged-chr17-26233096-3	chr17	26233003	26233203	+	890.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001206335, intron 1 of 12)	B3|SINE|B2	11139.0	NM_207217	106581.0	Mm.28844	NM_207217	ENSMUSG00000024187	Fam234a	Itfg3	family with sequence similarity 234, member A	protein-coding	1.5	6.0	1.5	41.0	27.0	11.0	8.0	11.5
Merged-chr17-65612660-4	chr17	65612553	65612753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355402, intron 1 of 6)	CpG	902.0	NM_001355402	30960.0	Mm.266767	NM_013933	ENSMUSG00000024091	Vapa	33kDa|VAP33	vesicle-associated membrane protein, associated protein A	protein-coding	25.0	20.5	17.5	354.5	61.5	18.5	21.5	33.0
Merged-chr7-98427357-4	chr7	98427262	98427462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-13054.0	NM_001130693	14918.0	Mm.389928	NM_001034890	ENSMUSG00000074003	Gucy2d	-	guanylate cyclase 2d	protein-coding	78.5	112.0	62.5	1237.5	151.5	35.5	50.5	70.5
Merged-chr19-45005659-4	chr19	45005560	45005760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153796)	promoter-TSS (NM_153796)	-3.0	NM_001348254	226153.0	Mm.105585	NM_153796	ENSMUSG00000025209	Twnk	D19Ertd626e|PEO|Peo1|Twinl	twinkle mtDNA helicase	protein-coding	40.5	85.0	27.5	622.0	123.0	47.0	38.5	26.5
Merged-chr2-73463843-6	chr2	73463778	73463978	+	931.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-9989.0	NM_001289722	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	8.5	11.0	36.0	276.0	55.0	13.5	24.0	21.5
Merged-chr5-122702392-4	chr5	122702300	122702500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5144.0	NM_001310720	18438.0	Mm.290884	NM_011026	ENSMUSG00000029470	P2rx4	AI504491|AW555605|D5Ertd444e|P2X4	purinergic receptor P2X, ligand-gated ion channel 4	protein-coding	96.0	121.0	120.5	1514.0	189.0	91.0	91.5	116.5
Merged-chr11-77410074-4	chr11	77409966	77410166	+	976.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291190, intron 4 of 13)	intron (NM_001291190, intron 4 of 13)	-53847.0	NM_139129	216961.0	Mm.33477	NM_139128	ENSMUSG00000020836	Coro6	-	coronin 6	protein-coding	24.5	33.5	21.5	444.5	48.0	27.0	16.5	27.5
Merged-chr6-84020712-4	chr6	84020619	84020819	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310152, intron 1 of 53)	intron (NM_001310152, intron 1 of 53)	1333.0	NM_021469	26903.0	Mm.220982	NM_021469	ENSMUSG00000033788	Dysf	2310004N10Rik|AI604795|D6Pas3	dysferlin	protein-coding	21.0	24.0	34.0	384.0	47.0	16.0	23.5	12.5
Merged-chr4-128727932-4	chr4	128727827	128728027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195083, intron 1 of 6)	CpG	356.0	NM_001195083	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	18.0	32.0	23.0	310.0	52.0	10.0	28.5	16.5
Merged-chr12-73606072-4	chr12	73605982	73606182	+	921.05835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313977, intron 2 of 14)	MTD|LTR|ERVL-MaLR	21286.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	11.0	26.5	17.5	164.0	39.0	9.5	18.0	19.0
Merged-chr9-57234012-4	chr9	57233953	57234153	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2503.0	NM_001014398	541610.0	Mm.378036	NM_001014398	ENSMUSG00000070298	Trcg1	-	taste receptor cell gene 1	protein-coding	55.5	94.0	58.0	780.0	106.5	50.5	36.5	59.0
Merged-chr2-116972754-4	chr2	116972652	116972852	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	72600.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	33.0	73.0	17.5	365.0	92.5	42.0	45.5	23.5
Merged-chr18-36194810-4	chr18	36194700	36194900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167891, intron 1 of 9)	intron (NM_001167891, intron 1 of 9)	2360.0	NM_001167891	100042150.0	Mm.380390	NM_001167891	ENSMUSG00000060275	Nrg2	Don1|NTAK	neuregulin 2	protein-coding	35.5	37.0	28.0	552.5	67.5	14.0	28.5	43.0
Merged-chr12-111302150-3	chr12	111302058	111302258	+	586.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183016, exon 28 of 37)	exon (NM_183016, exon 28 of 37)	31062.0	NM_033603	93835.0	Mm.197639	NM_033603	ENSMUSG00000021278	Amn	-	amnionless	protein-coding	5.0	11.5	2.5	139.0	11.5	9.0	13.0	7.5
Merged-chr6-121227006-4	chr6	121226903	121227103	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_017379)	TTS (NM_017379)	16269.0	NM_017379	53857.0	Mm.32884	NM_017379	ENSMUSG00000030137	Tuba8	-	tubulin, alpha 8	protein-coding	89.5	96.0	70.5	1442.5	257.5	76.5	104.5	97.5
Merged-chr4-122961099-2	chr4	122960999	122961199	+	810.75	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029662)	promoter-TSS (NM_029662)	89.0	NM_029662	76574.0	Mm.331842	NM_029662	ENSMUSG00000028655	Mfsd2a	1700018O18Rik|Mfsd2|NLS1	major facilitator superfamily domain containing 2A	protein-coding	2.0	5.5	6.0	50.0	15.0	14.5	7.0	6.0
Merged-chr1-165187498-5	chr1	165187424	165187624	+	819.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151712, intron 3 of 8)	intron (NR_151712, intron 3 of 8)	6909.0	NM_145512	108735.0	Mm.288369	NM_145512	ENSMUSG00000040848	Sft2d2	2010005O13Rik|AI506168|AW561909|cI-45	SFT2 domain containing 2	protein-coding	6.0	6.0	5.5	55.0	18.0	12.0	13.0	5.5
Merged-chr3-105712054-3	chr3	105711958	105712158	+	649.399963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163356, intron 1 of 1)	intron (NM_001163356, intron 1 of 1)	6600.0	NM_001163356	109050.0	Mm.212591	NM_175398	ENSMUSG00000048458	Fam212b	6530418L21Rik|inka2	family with sequence similarity 212, member B	protein-coding	14.0	3.0	7.0	106.0	17.0	7.0	9.0	17.0
Merged-chr3-142620159-4	chr3	142620071	142620271	+	800.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010260)	promoter-TSS (NM_010260)	-492.0	NM_010260	14469.0	Mm.24038	NM_010260	ENSMUSG00000028270	Gbp2	-	guanylate binding protein 2	protein-coding	18.0	8.0	6.0	189.0	21.5	5.0	9.5	8.0
Merged-chr16-35817489-4	chr16	35817399	35817599	+	866.337524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152314, intron 6 of 8)	intron (NR_152314, intron 6 of 8)	47113.0	NM_175111	66667.0	Mm.45272	NM_175111	ENSMUSG00000022849	Hspbap1	3830421G21Rik	Hspb associated protein 1	protein-coding	11.0	14.5	5.5	221.5	46.0	10.5	13.0	10.5
Merged-chr9-96384235-3	chr9	96384135	96384335	+	869.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-19804.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	11.0	6.0	5.0	133.0	0.0	1.0	0.5	0.0
Merged-chr12-32340654-3	chr12	32340581	32340781	+	751.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38108.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	2.5	1.0	0.5	18.0	22.0	10.0	9.0	6.5
Merged-chr9-104269457-4	chr9	104269354	104269554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6524.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	58.5	105.0	48.0	942.0	231.5	82.5	71.0	80.0
Merged-chr19-11589383-4	chr19	11589292	11589492	+	942.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026835, intron 5 of 6)	intron (NM_026835, intron 5 of 6)	15412.0	NM_026835	68774.0	Mm.290390	NM_026835	ENSMUSG00000024679	Ms4a6d	1110058E16Rik|AI447446|Ms4a11	membrane-spanning 4-domains, subfamily A, member 6D	protein-coding	16.0	24.0	18.0	323.5	28.5	22.5	18.0	25.0
Merged-chr4-124657091-1	chr4	124656991	124657191	+	749.0	f0_balb.idr	promoter-TSS (NM_011141)	promoter-TSS (NM_011141)	-555.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	8.5	9.5	9.0	156.5	20.0	5.5	11.5	7.5
Merged-chr6-92100753-2	chr6	92100653	92100853	+	663.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347342, intron 1 of 14)	intron (NM_001347342, intron 1 of 14)	8320.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	6.5	9.0	7.0	24.0	10.5	4.5	4.5	3.5
Merged-chr8-70700661-4	chr8	70700564	70700764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_010592)	TTS (NM_010592)	2925.0	NM_001286944	16478.0	Mm.419851	NM_010592	ENSMUSG00000071076	Jund	Jund1	jun D proto-oncogene	protein-coding	71.0	98.0	83.0	961.0	166.0	73.0	84.5	86.0
Merged-chr11-76846320-5	chr11	76846234	76846434	+	703.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007754, exon 1 of 21)	exon (NM_007754, exon 1 of 21)	674.0	NM_007754	12874.0	Mm.276736	NM_007754	ENSMUSG00000020841	Cpd	AA960140|AW322530|D830034L15Rik	carboxypeptidase D	protein-coding	7.5	6.5	11.0	24.0	12.0	6.0	2.5	5.5
Merged-chr1-16621357-2	chr1	16621261	16621461	+	639.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-2023.0	NM_001271017	66799.0	Mm.122430	NM_025773	ENSMUSG00000025939	Ube2w	6130401J04Rik	ubiquitin-conjugating enzyme E2W (putative)	protein-coding	12.0	15.0	8.5	136.0	41.0	3.5	7.5	11.5
Merged-chr19-32304270-3	chr19	32304194	32304394	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	45022.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	21.5	20.5	21.0	219.5	11.5	5.5	7.5	9.5
Merged-chr11-69120326-3	chr11	69120220	69120420	+	867.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033041)	promoter-TSS (NM_033041)	-133.0	NM_033041	84653.0	Mm.98505	NM_033041	ENSMUSG00000023781	Hes7	bHLHb37	hes family bHLH transcription factor 7	protein-coding	8.0	9.0	11.0	52.5	30.5	14.5	8.0	26.5
Merged-chr4-80331288-4	chr4	80331185	80331385	+	888.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	-502928.0	NM_031202	22178.0	Mm.30438	NM_031202	ENSMUSG00000005994	Tyrp1	Oca3|TRP-1|TRP1|Tyrp|b|brown|isa	tyrosinase-related protein 1	protein-coding	6.0	9.5	7.0	97.0	37.5	7.5	21.0	20.0
Merged-chr3-57740053-4	chr3	57739954	57740154	+	800.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130743, intron 1 of 9)	intron (NR_130743, intron 1 of 9)	3997.0	NR_130743	24017.0	Mm.274360	NM_011883	ENSMUSG00000036503	Rnf13	2010001H16Rik|Rzf	ring finger protein 13	protein-coding	9.5	10.0	16.0	353.5	35.0	11.5	20.0	6.5
Merged-chr19-6941536-4	chr19	6941502	6941702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007522)	promoter-TSS (NM_007522)	-95.0	NM_001177362	107173.0	Mm.276555	NM_207220	ENSMUSG00000024958	Gpr137	AI428855	G protein-coupled receptor 137	protein-coding	44.0	57.0	23.0	490.5	90.5	50.0	37.0	34.0
Merged-chr13-41583863-4	chr13	41583688	41583888	+	866.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MEb|LINE|L1	-22428.0	NM_001163572	621976.0	Mm.259830	NM_001163572	ENSMUSG00000087370	Tmem170b	EG621976	transmembrane protein 170B	protein-coding	7.0	8.5	7.0	87.5	31.0	9.5	9.5	10.0
Merged-chr2-122570661-4	chr2	122570575	122570775	+	937.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40602.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	39.5	47.5	59.5	1138.0	22.0	7.5	20.0	14.0
Merged-chr7-6285548-4	chr7	6285444	6285644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1036.0	NM_001024928	384763.0	Mm.276279	NM_001024928	ENSMUSG00000054893	Zfp667	A830025F02Rik|Mip1|ZNF667	zinc finger protein 667	protein-coding	84.5	131.0	95.5	1818.0	317.5	92.5	126.0	104.0
Merged-chr5-30920742-4	chr5	30920634	30920834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001349066)	promoter-TSS (NM_001349066)	-825.0	NM_001310525	16548.0	Mm.22451	NM_008439	ENSMUSG00000029162	Khk	-	ketohexokinase	protein-coding	19.5	43.5	21.5	413.5	52.0	19.5	31.5	24.0
Merged-chr10-20595622-3	chr10	20595478	20595678	+	903.0277710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013875, intron 2 of 12)	MER102b|DNA|hAT-Charlie	-47250.0	NM_001347366	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	10.5	9.0	8.0	69.5	6.0	3.0	2.5	7.0
Merged-chr4-128811569-4	chr4	128811458	128811658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-5446.0	NM_001081098	230761.0	Mm.22616	NM_001081098	ENSMUSG00000028799	Zfp362	-	zinc finger protein 362	protein-coding	76.0	123.5	38.5	762.0	171.5	61.5	68.0	48.0
Merged-chr16-3847194-4	chr16	3847104	3847304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081217)	promoter-TSS (NM_001081217)	-19.0	NM_001081217	385674.0	Mm.244261	NM_001081217	ENSMUSG00000054939	Zfp174	Gm1754	zinc finger protein 174	protein-coding	151.0	193.0	149.0	2914.0	319.0	105.0	181.0	139.0
Merged-chr18-5296193-3	chr18	5296088	5296288	+	828.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360447, intron 1 of 4)	intron (NM_001360447, intron 1 of 4)	38251.0	NM_178722	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	8.0	5.0	12.5	99.5	7.5	1.0	9.5	3.5
Merged-chr9-39629297-1	chr9	39629197	39629397	+	582.5	f0_c57.idr	Intergenic	Intergenic	6172.0	NM_146279	258276.0	Mm.390137	NM_146279	ENSMUSG00000059867	Olfr960	MOR224-12	olfactory receptor 960	protein-coding	0.5	1.0	2.0	34.0	27.5	10.0	6.0	11.5
Merged-chr7-4659088-4	chr7	4658973	4659173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172894)	promoter-TSS (NM_172894)	-123.0	NM_172894	243819.0	Mm.258670	NM_172894	ENSMUSG00000052296	Ppp6r1	2010309P17Rik|AI836219|B430201G11Rik|D030074N20Rik|Pp6r1|Saps1|mKIAA1115	protein phosphatase 6, regulatory subunit 1	protein-coding	159.5	193.5	128.0	2181.5	348.0	124.5	191.5	153.0
Merged-chr10-91188136-3	chr10	91188030	91188230	+	959.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16511.0	NM_001080130	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	17.5	24.0	4.0	167.0	45.5	8.0	9.5	11.0
Merged-chr11-29692233-4	chr11	29692115	29692315	+	990.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194053)	promoter-TSS (NM_194053)	-683.0	NM_194053	68585.0	Mm.192580	NM_024226	ENSMUSG00000020458	Rtn4	1110020G17Rik|AA407876|AA409940|AA960376|ASY|C130026I10Rik|NOGO|NSP-CL|NgA|Nogo-A|Nogo-B|Nogo-C|mKIAA0886|mKIAA4153	reticulon 4	protein-coding	73.0	77.0	66.5	700.0	74.0	51.5	17.5	40.5
Merged-chr6-92092809-1	chr6	92092709	92092909	+	982.0	f0_balb.idr	5' UTR (NM_001347342, exon 1 of 15)	5' UTR (NM_001347342, exon 1 of 15)	376.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	13.0	14.5	8.5	161.0	31.5	9.0	18.5	10.0
Merged-chr8-88696881-4	chr8	88696759	88696959	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173369)	promoter-TSS (NM_173369)	-169.0	NM_001128170	74256.0	Mm.490395	NM_173369	ENSMUSG00000036712	Cyld	2010013M14Rik|2900009M21Rik|C130039D01Rik|CDMT|CYLD1|EAC|mKIAA0849	CYLD lysine 63 deubiquitinase	protein-coding	298.0	492.5	305.0	4327.5	674.0	304.0	348.5	220.5
Merged-chr8-70616860-4	chr8	70616769	70616969	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153074)	promoter-TSS (NM_153074)	25.0	NM_153074	211228.0	Mm.132939	NM_153074	ENSMUSG00000049988	Lrrc25	Mapa	leucine rich repeat containing 25	protein-coding	75.5	116.5	104.0	1236.0	228.5	82.5	126.0	93.0
Merged-chr3-108958124-4	chr3	108958025	108958225	+	990.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001078646, intron 6 of 7)	intron (NM_001078646, intron 6 of 7)	17568.0	NM_001078646	66715.0	Mm.158124	NM_025723	ENSMUSG00000045662	Henmt1	4921515J06Rik|Hen1|mHEN1	HEN1 methyltransferase homolog 1 (Arabidopsis)	protein-coding	17.0	35.5	24.0	376.0	68.0	13.5	27.0	11.5
Merged-chr6-56569145-4	chr6	56569036	56569236	+	920.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	135563.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	19.0	16.5	18.0	531.5	37.0	9.5	17.5	12.0
Merged-chr7-19701206-4	chr7	19701105	19701305	+	885.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_016871)	TTS (NM_016871)	-2017.0	NM_009696	11816.0	Mm.305152	NM_009696	ENSMUSG00000002985	Apoe	AI255918|Apo-E	apolipoprotein E	protein-coding	16.0	15.0	13.5	167.5	30.5	9.0	13.0	6.0
Merged-chr13-73445672-4	chr13	73445549	73445749	+	801.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER13A2|LTR|ERVK	-21734.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	11.5	17.0	5.0	86.5	17.0	6.5	9.5	3.0
Merged-chr9-42094891-4	chr9	42094796	42094996	+	995.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011436, intron 3 of 47)	intron (NM_011436, intron 3 of 47)	-17683.0	NM_001357261	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	29.5	41.5	28.0	326.5	116.5	67.0	47.5	17.0
Merged-chr7-80299724-4	chr7	80299619	80299819	+	882.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145150, intron 1 of 13)	intron (NM_145150, intron 1 of 13)	5268.0	NM_001285998	233406.0	Mm.227274	NM_145150	ENSMUSG00000038943	Prc1	D7Ertd348e	protein regulator of cytokinesis 1	protein-coding	14.5	5.0	7.0	129.0	23.5	7.5	7.0	20.5
Merged-chr2-170321640-4	chr2	170321538	170321738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34723.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	33.5	29.5	19.0	410.0	64.0	20.5	40.5	26.5
Merged-chr14-55815075-2	chr14	55814975	55815175	+	915.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR17|LTR|ERVK	-9720.0	NM_001168346	73181.0	Mm.27908	NM_023699	ENSMUSG00000023411	Nfatc4	3110041H08Rik|AW107667|AW546455|Nfat3	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 4	protein-coding	10.5	5.5	4.5	54.5	14.0	2.5	1.0	8.5
Merged-chr13-23572499-4	chr13	23572390	23572590	+	878.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178196)	TTS (NM_178196)	1090.0	NM_178196	319181.0	Mm.261673	NM_178196	ENSMUSG00000058385	Hist1h2bg	-	histone cluster 1, H2bg	protein-coding	11.5	7.0	7.0	166.5	16.0	10.0	10.5	11.0
Merged-chr8-104103665-4	chr8	104103558	104103758	+	973.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009868, intron 1 of 11)	intron (NM_009868, intron 1 of 11)	2033.0	NM_009868	12562.0	Mm.21767	NM_009868	ENSMUSG00000031871	Cdh5	7B4|AA408225|Cd144|VE-Cad|VECD|VEcad|Vec	cadherin 5	protein-coding	12.5	32.5	20.5	173.5	34.5	4.0	14.5	16.0
Merged-chr14-61774380-4	chr14	61774277	61774477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-92004.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	41.0	53.0	57.0	764.0	85.0	28.5	33.0	36.5
Merged-chr16-31234208-4	chr16	31234117	31234317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER112|DNA|hAT-Charlie	-32979.0	NM_030138	78618.0	Mm.274646	NM_030138	ENSMUSG00000049076	Acap2	4832442G16|9530039J15Rik|CNT-B2|Centb2|mKIAA0041	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	protein-coding	179.0	276.5	128.5	1797.5	371.5	150.5	114.5	141.0
Merged-chr17-86753565-4	chr17	86753460	86753660	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010137)	promoter-TSS (NM_010137)	-304.0	NM_010137	13819.0	Mm.1415	NM_010137	ENSMUSG00000024140	Epas1	HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73	endothelial PAS domain protein 1	protein-coding	141.0	162.5	149.0	1655.5	250.0	106.5	128.0	101.5
Merged-chr7-30664974-4	chr7	30664810	30665010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027999)	promoter-TSS (NM_027999)	84.0	NM_027999	71909.0	Mm.290410	NM_027999	ENSMUSG00000078762	Haus5	2310022K01Rik	HAUS augmin-like complex, subunit 5	protein-coding	47.5	71.5	19.0	542.5	99.0	39.0	23.5	39.5
Merged-chr18-36513013-4	chr18	36512900	36513100	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010415, intron 2 of 5)	intron (NM_010415, intron 2 of 5)	2805.0	NM_010415	15200.0	Mm.289681	NM_010415	ENSMUSG00000024486	Hbegf	AW047313|Dtr|Dts|Hegfl	heparin-binding EGF-like growth factor	protein-coding	76.0	109.5	116.5	1840.5	223.0	74.5	88.5	90.0
Merged-chr2-30982097-4	chr2	30981988	30982188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144885)	promoter-TSS (NM_144885)	-147.0	NM_144885	227707.0	Mm.235238	NM_144885	ENSMUSG00000026851	BC005624	-	cDNA sequence BC005624	protein-coding	327.5	545.0	287.0	3524.0	759.5	384.5	412.0	333.5
Merged-chr4-155944483-4	chr4	155944388	155944588	+	979.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284312, intron 1 of 7)	intron (NM_001284312, intron 1 of 7)	330.0	NM_001284312	140499.0	Mm.371673	NM_021402	ENSMUSG00000023286	Ube2j2	1200007B18Rik|2400008G19Rik|5730472G04Rik|AL022923|NCUBE-2|Ubc6|Ubc6p	ubiquitin-conjugating enzyme E2J 2	protein-coding	13.5	22.5	18.0	173.5	75.5	32.5	54.5	39.0
Merged-chr1-92693177-4	chr1	92693039	92693239	+	909.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44298.0	NM_153114	260301.0	Mm.219545	NM_153114	ENSMUSG00000044055	Otos	OTOSP	otospiralin	protein-coding	15.0	12.5	31.0	459.5	22.5	10.5	28.0	11.5
Merged-chr11-114577077-2	chr11	114576977	114577177	+	888.083374	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-91466.0	NM_023372	67671.0	Mm.238817	NM_023372	ENSMUSG00000057322	Rpl38	0610025G13Rik|Rbt|Ts|Tss	ribosomal protein L38	protein-coding	5.0	5.5	9.0	13.5	14.0	6.5	7.5	4.5
Merged-chr13-37592274-4	chr13	37592177	37592377	+	913.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-233761.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	12.5	38.0	11.5	179.5	35.0	7.5	21.5	17.5
Merged-chr15-98677589-4	chr15	98677483	98677683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172612)	promoter-TSS (NM_172612)	-122.0	NM_172612	223881.0	Mm.274010	NM_172612	ENSMUSG00000054855	Rnd1	A830014L09Rik|Arhs	Rho family GTPase 1	protein-coding	164.0	279.5	157.0	1575.0	480.5	151.5	182.0	131.5
Merged-chr5-31004384-4	chr5	31004292	31004492	+	905.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35715.0	NM_053085	69852.0	Mm.57874	NM_053085	ENSMUSG00000006642	Tcf23	2010002O16Rik|Out|bHLHa24	transcription factor 23	protein-coding	28.0	30.5	11.0	125.0	40.0	13.5	21.0	20.0
Merged-chr17-73393603-4	chr17	73393523	73393723	+	725.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033444, intron 1 of 22)	intron (NM_001033444, intron 1 of 22)	5673.0	NM_001033444	381122.0	Mm.81496	NM_001033444	ENSMUSG00000043705	Capn13	CANP 13|Gm943	calpain 13	protein-coding	8.5	15.5	14.0	350.5	28.5	1.5	8.5	8.5
Merged-chr15-64059229-4	chr15	64059133	64059333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360037, intron 1 of 11)	intron (NM_001360037, intron 1 of 11)	531.0	NM_001360038	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	82.5	120.5	92.0	1565.5	214.5	83.5	91.5	120.5
Merged-chr8-106972036-4	chr8	106971929	106972129	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009229, intron 1 of 6)	intron (NM_009229, intron 1 of 6)	36279.0	NM_009229	20650.0	Mm.30228	NM_009229	ENSMUSG00000041308	Sntb2	Snt2	syntrophin, basic 2	protein-coding	17.5	24.0	21.0	239.5	43.5	36.0	17.0	18.0
Merged-chr10-121266426-1	chr10	121266326	121266526	+	657.0	f0_balb.idr	3' UTR (NM_029057, exon 12 of 12)	3' UTR (NM_029057, exon 12 of 12)	44970.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	7.0	6.0	9.5	120.5	1.0	3.5	1.5	5.0
Merged-chr8-72492790-4	chr8	72492702	72492902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177766)	promoter-TSS (NM_177766)	-188.0	NM_177766	270066.0	Mm.291461	NM_177766	ENSMUSG00000019731	Slc35e1	6030458H05|AA408278	solute carrier family 35, member E1	protein-coding	408.5	630.5	426.0	5863.0	766.5	357.5	372.0	348.5
Merged-chr12-112865005-4	chr12	112864886	112865086	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4070.0	NM_019925	56696.0	Mm.20455	NM_019925	ENSMUSG00000021298	Gpr132	G2a	G protein-coupled receptor 132	protein-coding	128.0	204.5	87.5	1186.5	248.5	95.5	124.0	64.0
Merged-chr4-155869521-4	chr4	155869417	155869617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028020)	promoter-TSS (NM_028020)	-50.0	NM_028020	71957.0	Mm.475640	NM_028020	ENSMUSG00000029034	Ints11	2410006F12Rik|AU044035|Cpsf3l	integrator complex subunit 11	protein-coding	143.0	180.0	94.0	1511.5	350.0	114.0	114.0	132.5
Merged-chr13-89543196-4	chr13	89543106	89543306	+	830.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013500, intron 1 of 4)	intron (NM_013500, intron 1 of 4)	2570.0	NM_013500	12950.0	Mm.266790	NM_013500	ENSMUSG00000021613	Hapln1	BB099155|CLP|Crtl1|Crtl1l|LP|LP-1	hyaluronan and proteoglycan link protein 1	protein-coding	7.0	18.0	1.5	196.5	31.5	9.0	15.5	17.0
Merged-chr5-3344481-4	chr5	3344359	3344559	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009873, exon 2 of 8)	exon (NM_009873, exon 2 of 8)	566.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	35.0	82.5	47.5	473.5	77.0	51.5	63.5	37.5
Merged-chr3-88835140-3	chr3	88835053	88835253	+	865.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001242372)	promoter-TSS (NM_001242372)	-78.0	NM_027389	76022.0	Mm.126870	NM_027389	ENSMUSG00000054199	Gon4l	1500041I23Rik|2610100B20Rik|3632445O20Rik|5430404N14Rik|AA387005	gon-4-like (C.elegans)	protein-coding	0.0	0.0	0.0	0.0	20.5	15.5	5.5	19.5
Merged-chr6-122863069-4	chr6	122862969	122863169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-6912.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	164.0	277.5	194.5	2817.0	249.0	84.5	104.0	120.5
Merged-chr16-95781879-3	chr16	95781783	95781983	+	716.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	79476.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	8.5	13.0	6.0	166.0	9.0	5.5	8.5	8.5
Merged-chr14-55874097-4	chr14	55874008	55874208	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001040072, exon 8 of 8)	3' UTR (NM_001040072, exon 8 of 8)	10148.0	NM_019820	56410.0	Mm.97163	NM_019820	ENSMUSG00000040380	Cbln3	-	cerebellin 3 precursor protein	protein-coding	18.0	32.5	21.5	305.0	44.0	6.0	14.5	24.0
Merged-chr16-25011146-4	chr16	25011047	25011247	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48492.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	55.5	95.5	59.0	795.0	151.5	50.0	46.0	56.5
Merged-chr6-116073118-4	chr6	116073004	116073204	+	993.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177412, intron 3 of 5)	intron (NM_177412, intron 3 of 5)	-78099.0	NM_026376	67784.0	Mm.3085	NM_026376	ENSMUSG00000030123	Plxnd1	6230425C21Rik|b2b1863Clo|b2b553Clo	plexin D1	protein-coding	52.5	110.5	65.5	633.0	90.0	32.0	30.5	20.0
Merged-chr15-85610775-4	chr15	85610698	85610898	+	735.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28977.0	NM_009528	22422.0	Mm.306946	NM_009528	ENSMUSG00000022382	Wnt7b	Wnt-7b	wingless-type MMTV integration site family, member 7B	protein-coding	11.0	6.0	6.5	98.0	21.0	2.5	6.5	11.0
Merged-chr11-34047130-4	chr11	34047037	34047237	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010696, exon 1 of 21)	5' UTR (NM_010696, exon 1 of 21)	209.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	83.0	163.5	82.0	777.5	247.5	66.0	86.5	74.5
Merged-chr5-41738996-4	chr5	41738912	41739112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25208.0	NM_007524	12020.0	Mm.2530	NM_007524	ENSMUSG00000049691	Nkx3-2	Bapx1|NKX3.2|Nkx-3.2	NK3 homeobox 2	protein-coding	55.5	59.0	57.0	902.5	161.5	45.5	67.0	47.0
Merged-chr3-115692620-4	chr3	115692408	115692608	+	981.011902	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22547.0	NM_007901	13609.0	Mm.982	NM_007901	ENSMUSG00000045092	S1pr1	AI849002|Edg1|Lpb1|S1p|S1p1	sphingosine-1-phosphate receptor 1	protein-coding	9.0	10.5	6.0	148.0	33.5	9.5	21.5	15.5
Merged-chr2-13413708-4	chr2	13413591	13413791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 27 of 66)	intron (NM_001081084, intron 27 of 66)	78185.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	132.0	168.5	105.5	1609.5	177.5	72.0	91.5	72.5
Merged-chr6-4902950-4	chr6	4902874	4903074	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181595)	promoter-TSS (NM_181595)	-346.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	16.0	19.0	25.5	177.0	56.5	21.5	19.5	27.0
Merged-chr1-37317312-4	chr1	37317221	37317421	+	810.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030266, intron 1 of 25)	intron (NM_030266, intron 1 of 25)	17483.0	NM_001290797	269180.0	Mm.5294	NM_030266	ENSMUSG00000026113	Inpp4a	107kDa|9630012D15|D130048C09Rik|R74740	inositol polyphosphate-4-phosphatase, type I	protein-coding	12.0	25.0	16.5	223.5	29.0	6.0	3.5	3.5
Merged-chr18-79284187-4	chr18	79284060	79284260	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-174769.0	NM_053099	240427.0	Mm.312871	NM_053099	ENSMUSG00000024548	Setbp1	C130092E12|Seb|mKIAA0437	SET binding protein 1	protein-coding	22.5	40.0	26.0	305.5	41.5	13.5	18.5	16.0
Merged-chr7-45661002-4	chr7	45660901	45661101	+	971.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271993, intron 1 of 2)	intron (NM_001271993, intron 1 of 2)	5393.0	NM_018876	14344.0	Mm.290046	NM_018876	ENSMUSG00000055978	Fut2	-	fucosyltransferase 2	protein-coding	21.5	36.0	21.5	332.0	47.0	13.0	20.0	37.5
Merged-chr16-18617838-4	chr16	18617742	18617942	+	891.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4561.0	NM_001001999	14724.0	Mm.475622	NM_010327	ENSMUSG00000050761	Gp1bb	-	glycoprotein Ib, beta polypeptide	protein-coding	14.0	20.0	9.5	173.5	27.5	10.5	9.0	14.0
Merged-chr12-70913589-4	chr12	70913489	70913689	+	903.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24268.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	10.5	24.5	2.5	188.5	46.5	10.5	14.0	10.5
Merged-chr5-117136067-3	chr5	117135992	117136192	+	837.9111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	2504.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	8.0	11.5	9.0	200.0	18.5	9.0	7.5	5.5
Merged-chr13-88828500-4	chr13	88828414	88828614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037987, intron 1 of 10)	intron (NM_001037987, intron 1 of 10)	7042.0	NM_001037987	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	30.5	47.5	96.5	1066.0	295.5	88.5	198.5	120.5
Merged-chr4-105239775-3	chr4	105239659	105239859	+	916.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82412.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	7.0	7.0	16.5	127.0	16.5	6.5	14.0	5.0
Merged-chr7-16463374-3	chr7	16463288	16463488	+	753.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008718, exon 6 of 12)	exon (NM_008718, exon 6 of 12)	10609.0	NM_026938	69094.0	Mm.29633	NM_026938	ENSMUSG00000019158	Tmem160	1810008O21Rik	transmembrane protein 160	protein-coding	6.5	9.5	8.0	93.5	25.0	6.5	6.0	5.5
Merged-chr11-3173306-1	chr11	3173206	3173406	+	1000.0	f1_balb.idr	intron (NM_030207, intron 6 of 32)	B1_Mur2|SINE|Alu	20157.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	31.0	24.0	32.0	335.5	2.0	1.0	0.0	3.5
Merged-chr4-9133847-4	chr4	9133747	9133947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-135446.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	21.0	68.5	25.5	253.5	49.0	28.5	36.0	9.5
Merged-chr2-102990902-4	chr2	102990805	102991005	+	995.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	82608.0	NM_175094	27402.0	Mm.315011	NM_175094	ENSMUSG00000010914	Pdhx	AI481367|E3bp|Pdx1	pyruvate dehydrogenase complex, component X	protein-coding	18.0	21.0	20.0	491.5	64.5	16.5	23.0	18.5
Merged-chr2-72838249-4	chr2	72838135	72838335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24518.0	NR_102349	76218.0	Mm.75260	NR_102348	ENSMUSG00000085427	6430710C18Rik	5033406J01Rik	RIKEN cDNA 6430710C18 gene	ncRNA	33.5	86.0	80.5	540.5	230.5	112.5	100.5	84.5
Merged-chr2-22799802-4	chr2	22799697	22799897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	25470.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	85.0	115.5	84.0	1190.0	153.5	61.0	83.5	50.5
Merged-chr19-57358549-4	chr19	57358463	57358663	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040316, intron 1 of 2)	ORR1E|LTR|ERVL-MaLR	2336.0	NR_040316	320879.0	Mm.375089	NR_040316	ENSMUSG00000097785	B230217O12Rik	-	RIKEN cDNA B230217O12 gene	ncRNA	85.0	106.5	64.5	1108.0	148.5	50.0	77.0	64.5
Merged-chr17-71260537-3	chr17	71260429	71260629	+	953.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357338, intron 4 of 7)	B1F|SINE|Alu	50482.0	NM_001357337	246707.0	Mm.23462	NM_145158	ENSMUSG00000024053	Emilin2	FOAP-10	elastin microfibril interfacer 2	protein-coding	14.5	26.0	15.0	208.5	8.0	6.0	4.0	1.5
Merged-chr5-33721888-4	chr5	33721795	33721995	+	830.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163217)	promoter-TSS (NM_001163217)	171.0	NM_001163215	14184.0	Mm.6904	NM_008010	ENSMUSG00000054252	Fgfr3	CD333|FR3|Fgfr-3|Flg-2|HBGFR|Mfr3|sam3	fibroblast growth factor receptor 3	protein-coding	8.5	4.5	5.0	48.5	5.0	4.5	3.0	3.5
Merged-chr7-101066709-4	chr7	101066606	101066806	+	886.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42069.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	10.0	8.5	3.0	38.0	149.0	41.0	54.5	71.5
Merged-chr14-75148435-3	chr14	75148336	75148536	+	704.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 1 of 16)	intron (NM_008879, intron 1 of 16)	12011.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	5.5	13.5	4.5	172.5	13.5	6.0	8.5	12.0
Merged-chr1-164366965-2	chr1	164366865	164367065	+	925.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_138314, intron 9 of 13)	intron (NM_138314, intron 9 of 13)	59293.0	NM_138314	171567.0	Mm.219428	NM_138314	ENSMUSG00000026575	Nme7	D530024H21Rik|Nm23-M7|Nm23-r7	NME/NM23 family member 7	protein-coding	1.5	7.5	3.5	78.5	20.5	5.5	13.5	7.0
Merged-chr7-144447245-4	chr7	144447110	144447310	+	888.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357116, intron 10 of 15)	intron (NM_001357116, intron 10 of 15)	23725.0	NM_007803	13043.0	Mm.205601	NM_007803	ENSMUSG00000031078	Cttn	1110020L01Rik|Ems1	cortactin	protein-coding	12.5	20.5	8.5	189.0	19.5	6.5	10.0	8.5
Merged-chr2-131430259-3	chr2	131430161	131430361	+	581.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61601.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	7.5	4.0	3.0	104.5	5.5	9.5	6.5	8.5
Merged-chr12-69168721-5	chr12	69168668	69168868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081406)	promoter-TSS (NM_001081406)	-46.0	NR_155206	69706.0	Mm.28847	NM_001081406	ENSMUSG00000034883	Lrr1	2410005L11Rik|AU021780|LRR-1|Ppil5	leucine rich repeat protein 1	protein-coding	35.5	47.0	16.0	260.5	63.5	46.0	28.0	51.5
Merged-chr13-52581096-5	chr13	52581010	52581210	+	830.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2327.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	13.5	11.0	11.0	144.0	16.5	6.0	9.5	3.5
Merged-chr3-157925179-4	chr3	157925090	157925290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145953)	promoter-TSS (NM_145953)	-127.0	NM_145953	107869.0	Mm.28301	NM_145953	ENSMUSG00000028179	Cth	0610010I13Rik|AI314617|BC019483|CSE|Cys3	cystathionase (cystathionine gamma-lyase)	protein-coding	32.5	60.5	60.0	887.5	98.0	22.0	45.0	37.5
Merged-chr13-51908355-4	chr13	51908267	51908467	+	882.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	61692.0	NM_011817	23882.0	Mm.281298	NM_011817	ENSMUSG00000021453	Gadd45g	AI327420|C86281|CR6|DDIT2|OIG37	growth arrest and DNA-damage-inducible 45 gamma	protein-coding	8.5	20.0	11.5	242.5	18.0	8.0	13.5	15.5
Merged-chr7-4866267-4	chr7	4866173	4866373	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026158)	promoter-TSS (NM_026158)	-94.0	NM_026158	67441.0	Mm.41385	NM_026158	ENSMUSG00000052605	Isoc2b	0610042E07Rik|AI553388|Isoc2	isochorismatase domain containing 2b	protein-coding	53.5	72.5	41.0	1480.5	532.5	188.0	278.5	183.5
Merged-chr15-103305821-2	chr15	103305721	103305921	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4617.0	NM_030720	80910.0	Mm.160369	NM_030720	ENSMUSG00000063234	Gpr84	EX33	G protein-coupled receptor 84	protein-coding	11.5	9.0	8.0	207.5	29.5	17.0	13.5	23.5
Merged-chr19-44332456-4	chr19	44332340	44332540	+	978.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183216)	promoter-TSS (NM_183216)	-886.0	NM_183216	329065.0	Mm.313583	NM_183216	ENSMUSG00000050195	Scd4	ACOD4	stearoyl-coenzyme A desaturase 4	protein-coding	16.5	22.5	27.5	199.0	64.5	16.0	16.5	29.0
Merged-chr11-117783851-4	chr11	117783716	117783916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001195088, exon 4 of 16)	exon (NM_001195088, exon 4 of 16)	1158.0	NM_001195088	217356.0	Mm.116675	NM_181856	ENSMUSG00000050106	Tmc8	EVIN2|Ever2|mFLJ00400	transmembrane channel-like gene family 8	protein-coding	37.5	57.5	23.5	574.0	73.0	19.5	25.5	35.5
Merged-chr15-84254341-6	chr15	84254250	84254450	+	958.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	Tigger17c|DNA|TcMar-Tigger	22307.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	23.0	19.5	10.5	265.5	35.0	14.5	17.5	35.0
Merged-chr3-109196330-4	chr3	109196220	109196420	+	892.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	73171.0	NM_172685	229731.0	Mm.33574	NM_172685	ENSMUSG00000040322	Slc25a24	2610016M12Rik	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 24	protein-coding	5.0	17.0	7.5	85.5	31.5	14.5	8.5	11.0
Merged-chr1-165765295-7	chr1	165765118	165765318	+	876.397949	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 2 of 4)	B4|SINE|B4	1460.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	11.0	17.5	19.5	170.0	34.5	6.5	12.0	15.0
Merged-chr13-38528897-3	chr13	38528800	38529000	+	872.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145367)	promoter-TSS (NM_145367)	-76.0	NM_001289598	105245.0	Mm.28622	NM_145367	ENSMUSG00000038991	Txndc5	AL022641|ERp46|PC-TRP	thioredoxin domain containing 5	protein-coding	9.5	16.0	12.0	234.5	17.5	1.0	9.0	10.5
Merged-chr17-22410944-4	chr17	22410829	22411029	+	843.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-13273.0	NM_001331197	74149.0	Mm.30767	NM_198003	ENSMUSG00000071266	Zfp946	1300003B13Rik	zinc finger protein 946	protein-coding	8.0	11.0	6.0	121.0	9.5	11.5	16.5	14.5
Merged-chr7-143059645-4	chr7	143059543	143059743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133655, intron 1 of 7)	intron (NM_133655, intron 1 of 7)	-5957.0	NR_110354	97423.0	Mm.5250	NM_133790	ENSMUSG00000059277	R74862	-	expressed sequence R74862	ncRNA	62.5	117.0	57.0	1170.0	266.5	101.5	105.0	115.0
Merged-chr5-64381017-4	chr5	64380936	64381136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TC)n|Simple_repeat|Simple_repeat	86906.0	NR_040681	69999.0	Mm.261413	NR_040681	ENSMUSG00000100911	1700027F09Rik	-	RIKEN cDNA 1700027F09 gene	ncRNA	128.0	193.0	125.5	1523.0	194.5	81.0	86.0	71.0
Merged-chr13-99187672-4	chr13	99187562	99187762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004149, intron 1 of 4)	intron (NM_001004149, intron 1 of 4)	2839.0	NM_001004149	238803.0	Mm.343207	NM_001004149	ENSMUSG00000050919	Zfp366	DC-SCRIPT|Znf366	zinc finger protein 366	protein-coding	43.0	38.0	37.0	844.0	88.0	35.0	33.0	35.5
Merged-chr9-121348235-4	chr9	121348142	121348342	+	774.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152160, intron 1 of 17)	intron (NR_152160, intron 1 of 17)	-18716.0	NM_001357973	67095.0	Mm.491112	NM_175114	ENSMUSG00000032536	Trak1	2310001H13Rik|AI413908|AI467545|hyrt|mKIAA1042	trafficking protein, kinesin binding 1	protein-coding	5.0	16.5	14.0	155.5	21.0	9.5	10.0	11.5
Merged-chr19-29512215-7	chr19	29512104	29512304	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015567, intron 2 of 3)	(GGGAGA)n|Simple_repeat|Simple_repeat	9783.0	NR_015567	77779.0	Mm.458738	NR_015567	ENSMUSG00000097855	A930007I19Rik	-	RIKEN cDNA A930007I19 gene	ncRNA	27.0	26.5	23.5	284.5	51.0	20.0	19.0	20.5
Merged-chr6-32479331-4	chr6	32479246	32479446	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-31795.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	62.5	85.0	48.5	881.5	53.0	35.5	30.5	23.5
Merged-chr11-54691411-4	chr11	54691323	54691523	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175258, exon 26 of 28)	exon (NM_175258, exon 26 of 28)	95277.0	NM_001252497	192786.0	Mm.254404	NM_175258	ENSMUSG00000037533	Rapgef6	A530068K01|AI844632|BB085664|C030018K18Rik|PDZ-GEF2|Pdzgef2|RA-GEF-2|Ragef2|mKIAA4052	Rap guanine nucleotide exchange factor (GEF) 6	protein-coding	129.0	151.5	136.5	1707.0	250.5	112.0	107.0	114.5
Merged-chr7-25680265-4	chr7	25680147	25680347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001362154)	promoter-TSS (NM_001362154)	-533.0	NM_001362154	232987.0	Mm.22849	NM_172148	ENSMUSG00000063439	B9d2	stumpy	B9 protein domain 2	protein-coding	48.0	103.5	65.5	856.5	136.5	65.5	68.5	60.0
Merged-chr11-115814871-4	chr11	115814765	115814965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029557, intron 1 of 10)	CpG	126.0	NM_029557	76265.0	Mm.275438	NM_029557	ENSMUSG00000020781	Tsen54	0610034P02Rik	tRNA splicing endonuclease subunit 54	protein-coding	22.5	65.0	39.0	254.5	64.0	32.5	25.0	47.0
Merged-chr9-78588055-5	chr9	78587899	78588099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276452)	promoter-TSS (NM_001276452)	46.0	NM_172773	235504.0	Mm.46932	NM_172773	ENSMUSG00000049624	Slc17a5	4631416G20Rik|4732491M05|AST|ISSD|NSD|SD|SIALIN|SIASD|SLD	solute carrier family 17 (anion/sugar transporter), member 5	protein-coding	118.5	185.0	157.0	2206.5	370.0	141.0	166.5	178.0
Merged-chr5-127610966-4	chr5	127610854	127611054	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133895, intron 1 of 7)	intron (NM_133895, intron 1 of 7)	6438.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	51.0	62.5	56.5	663.5	121.0	29.0	33.0	52.0
Merged-chr2-51149189-4	chr2	51149078	51149278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028810)	promoter-TSS (NM_028810)	-67.0	NM_028810	74194.0	Mm.46497	NM_028810	ENSMUSG00000017144	Rnd3	2610017M01Rik|AI661404|Arhe|Rhoe	Rho family GTPase 3	protein-coding	79.0	144.0	47.0	1287.0	182.0	78.0	93.5	45.0
Merged-chr14-27341649-4	chr14	27341550	27341750	+	932.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289687, intron 1 of 9)	MIRb|SINE|MIR	5613.0	NM_001289687	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	20.0	51.5	16.5	138.0	85.5	34.0	28.0	8.5
Merged-chr8-120114023-4	chr8	120113921	120114121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163762)	promoter-TSS (NM_001163762)	-131.0	NM_001163762	234797.0	Mm.101958	NM_172286	ENSMUSG00000031824	6430548M08Rik	AW049007|Kiaa0513|mKIAA0513	RIKEN cDNA 6430548M08 gene	protein-coding	238.0	384.0	245.5	2725.0	484.5	213.0	224.0	170.5
Merged-chr5-107949833-4	chr5	107949734	107949934	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 1 of 4)	MTE2a|LTR|ERVL-MaLR	37243.0	NM_026062	67266.0	Mm.277897	NM_026062	ENSMUSG00000029270	Fam69a	2900024C23Rik|AI315274	family with sequence similarity 69, member A	protein-coding	75.5	78.0	84.5	1121.0	166.5	49.5	66.0	51.0
Merged-chr4-136894121-4	chr4	136894012	136894212	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1198.0	NM_007574	12262.0	Mm.439732	NM_007574	ENSMUSG00000036896	C1qc	AI385742|C1qg|Ciqc	complement component 1, q subcomponent, C chain	protein-coding	24.0	30.5	16.5	225.0	47.5	23.0	20.0	28.0
Merged-chr1-60961232-4	chr1	60961129	60961329	+	977.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16685.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	27.5	28.0	16.5	201.0	44.5	13.5	18.0	11.0
Merged-chr1-180222240-3	chr1	180222119	180222319	+	973.2666630000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB2|LINE|L1	23731.0	NM_011183	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	5.0	13.5	11.5	50.0	51.0	12.5	9.0	9.5
Merged-chr9-59760746-4	chr9	59760663	59760863	+	943.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173018, intron 1 of 43)	intron (NM_173018, intron 1 of 43)	9589.0	NM_173018	270163.0	Mm.249545	NM_173018	ENSMUSG00000039585	Myo9a	4732465J09Rik|C130068I12Rik|C230003M11	myosin IXa	protein-coding	14.0	31.5	7.0	109.5	31.0	20.0	9.0	19.5
Merged-chr8-105347190-4	chr8	105347135	105347335	+	890.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177699, intron 1 of 21)	intron (NM_177699, intron 1 of 21)	735.0	NM_177699	234686.0	Mm.87724	NM_177699	ENSMUSG00000014778	Fhod1	BC017144|FHOS|FHOS1	formin homology 2 domain containing 1	protein-coding	18.5	33.5	9.0	99.0	35.0	14.0	12.0	25.5
Merged-chr8-117526343-4	chr8	117526250	117526450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 2 of 32)	intron (NM_172285, intron 2 of 32)	28075.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	86.5	79.0	52.5	1053.5	102.5	32.5	53.5	46.5
Merged-chr8-121931555-3	chr8	121931465	121931665	+	738.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007608, intron 2 of 6)	MTC|LTR|ERVL-MaLR	13347.0	NM_007608	12352.0	Mm.116761	NM_007608	ENSMUSG00000025317	Car5a	CAV|Ca5a|Car5	carbonic anhydrase 5a, mitochondrial	protein-coding	8.0	5.0	7.0	134.5	6.5	0.0	2.5	1.0
Merged-chr12-119207435-6	chr12	119207313	119207513	+	921.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177290, intron 2 of 13)	intron (NM_177290, intron 2 of 13)	30863.0	NM_177290	320910.0	Mm.217000	NM_177290	ENSMUSG00000025321	Itgb8	4832412O06Rik	integrin beta 8	protein-coding	4.0	17.0	9.5	73.0	25.0	9.5	8.0	10.0
Merged-chr1-58029741-2	chr1	58029641	58029841	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009676)	promoter-TSS (NM_009676)	-228.0	NM_009676	11761.0	Mm.26787	NM_009676	ENSMUSG00000063558	Aox1	AI196512|AI255253|Ao|Aox-1|Aox-2|Aox2|Moro|Ro	aldehyde oxidase 1	protein-coding	4.5	6.0	5.0	151.0	5.0	4.0	6.5	3.0
Merged-chr4-116666892-4	chr4	116666768	116666968	+	907.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-15194.0	NM_021473	58810.0	Mm.30085	NM_021473	ENSMUSG00000028692	Akr1a1	2610201A18Rik|Akr1a4	aldo-keto reductase family 1, member A1 (aldehyde reductase)	protein-coding	10.0	19.5	31.0	467.5	26.5	10.5	14.5	12.5
Merged-chr7-97079327-4	chr7	97079211	97079411	+	814.645813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2440.0	NM_001162477	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	10.5	11.5	4.5	135.0	27.5	7.0	6.5	10.5
Merged-chr2-154657612-1	chr2	154657512	154657712	+	656.0	f0_balb.idr	intron (NM_029362, intron 1 of 4)	intron (NM_029362, intron 1 of 4)	586.0	NM_029362	75608.0	Mm.262480	NM_029362	ENSMUSG00000038467	Chmp4b	2010012F05Rik|C76846|Snf7-2	charged multivesicular body protein 4B	protein-coding	13.0	30.0	8.5	157.0	37.0	22.0	10.5	28.5
Merged-chr8-7954205-4	chr8	7954109	7954309	+	923.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	706564.0	NM_010111	13642.0	Mm.209813	NM_010111	ENSMUSG00000001300	Efnb2	ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1	ephrin B2	protein-coding	9.0	9.0	7.0	140.5	36.0	4.5	18.5	9.0
Merged-chr4-87759292-4	chr4	87759181	87759381	+	809.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47042.0	NM_001286158	70122.0	Mm.288898	NM_027326	ENSMUSG00000028496	Mllt3	2210011H10Rik|2610012I03Rik|3830408D16Rik|Af9|D4Ertd321e	myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3	protein-coding	2.5	7.5	8.5	132.5	16.5	4.5	11.0	11.0
Merged-chr1-60627613-4	chr1	60627505	60627705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60840.0	NM_001045513	77300.0	Mm.440325	NM_001045513	ENSMUSG00000026014	Raph1	9430025M21Rik|C730009O10Rik|Lpd	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	protein-coding	58.5	79.5	68.0	1113.0	90.0	26.5	31.5	32.0
Merged-chr11-75163738-4	chr11	75163589	75163789	+	974.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001098203)	TTS (NM_001098203)	4463.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	17.0	53.5	51.0	522.5	52.5	21.0	18.5	12.0
Merged-chr12-3897347-3	chr12	3897261	3897461	+	941.738098	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271753, exon 11 of 23)	exon (NM_001271753, exon 11 of 23)	5617.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	9.5	11.5	22.0	367.5	15.0	4.0	10.0	18.0
Merged-chr3-104758650-4	chr3	104758557	104758757	+	665.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	18890.0	NM_183224	329731.0	Mm.389494	NM_183224	ENSMUSG00000055865	Fam19a3	7530404M11Rik|Sam3|TAFA3|Tafa-3	family with sequence similarity 19, member A3	protein-coding	7.5	12.5	9.5	239.0	24.5	8.5	6.5	11.5
Merged-chr18-12740735-4	chr18	12740640	12740840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181731)	promoter-TSS (NM_181731)	-615.0	NM_181731	71132.0	Mm.179740	NM_027687	ENSMUSG00000024430	Cabyr	1700016C01Rik|4933421A18Rik|CBP86|FSP-2	calcium-binding tyrosine-(Y)-phosphorylation regulated (fibrousheathin 2)	protein-coding	38.5	23.0	41.0	816.0	108.5	51.0	62.0	51.0
Merged-chr10-14459994-2	chr10	14459893	14460093	+	837.25	f0_balb.idr|f0_c57.idr	intron (NM_001002268, intron 4 of 24)	intron (NM_001002268, intron 4 of 24)	85043.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	4.0	27.5	9.0	204.5	32.5	11.0	7.5	11.5
Merged-chr14-51266273-4	chr14	51266186	51266386	+	705.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10174.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	14.0	18.0	4.0	85.0	38.0	10.0	29.0	7.5
Merged-chr2-154549764-4	chr2	154549667	154549867	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029305, exon 3 of 3)	exon (NM_029305, exon 3 of 3)	863.0	NM_029305	75480.0	Mm.440434	NM_029305	ENSMUSG00000038523	1700003F12Rik	-	RIKEN cDNA 1700003F12 gene	protein-coding	31.5	77.5	35.5	559.0	124.5	46.5	68.0	52.5
Merged-chr4-133130480-4	chr4	133130397	133130597	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153423)	promoter-TSS (NM_153423)	-136.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	105.0	134.5	48.5	872.5	228.5	91.0	72.0	77.0
Merged-chr11-53563227-3	chr11	53563127	53563327	+	966.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B2|LTR|ERVK	-4142.0	NM_008443	16568.0	Mm.88694	NM_008443	ENSMUSG00000018395	Kif3a	Kif3|Kifl|Kns3	kinesin family member 3A	protein-coding	21.5	7.5	27.5	220.5	14.0	9.0	3.0	19.0
Merged-chr10-98958940-4	chr10	98958850	98959050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	43798.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	38.0	86.0	30.0	716.0	120.5	63.5	41.5	45.5
Merged-chr5-76139315-4	chr5	76139209	76139409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020611)	promoter-TSS (NM_020611)	-964.0	NM_020611	57357.0	Mm.289446	NM_020611	ENSMUSG00000029233	Srd5a3	1110025P14Rik|A430076C09|AV364670|AW987574|D730040M03Rik|H5ar|S5AR 3|Srd5a2l	steroid 5 alpha-reductase 3	protein-coding	33.0	85.5	30.5	417.5	138.0	42.5	72.5	38.5
Merged-chr7-49396630-1	chr7	49396530	49396730	+	967.0	f0_c57.idr	intron (NM_175272, intron 3 of 37)	B2_Mm2|SINE|B2	150441.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	36.5	21.5	38.0	214.5	29.0	16.0	18.0	22.5
Merged-chr7-120205757-4	chr7	120205641	120205841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026458, intron 1 of 30)	L1MB5|LINE|L1	1777.0	NM_026458	67928.0	Mm.158178	NM_026458	ENSMUSG00000062017	Abca14	1700110B15Rik|4930539G24Rik	ATP-binding cassette, sub-family A (ABC1), member 14	protein-coding	31.5	33.5	38.5	498.5	51.5	15.5	29.0	24.0
Merged-chr7-140857403-4	chr7	140857356	140857556	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053194)	promoter-TSS (NM_053194)	59.0	NM_053194	101489.0	Mm.281916	NM_053194	ENSMUSG00000025485	Ric8a	AI114950|RIC-8|Ric8	RIC8 guanine nucleotide exchange factor A	protein-coding	40.5	53.5	42.0	557.0	122.5	35.5	57.0	38.0
Merged-chr11-59227002-4	chr11	59226911	59227111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007476, intron 1 of 4)	intron (NM_007476, intron 1 of 4)	1151.0	NM_001130408	11840.0	Mm.371546	NM_007476	ENSMUSG00000048076	Arf1	-	ADP-ribosylation factor 1	protein-coding	45.0	86.0	27.0	896.5	100.0	39.5	48.0	28.5
Merged-chr1-72014032-4	chr1	72013914	72014114	+	977.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8819.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	8.5	21.0	27.0	276.0	31.0	19.0	24.5	17.5
Merged-chr8-123024455-3	chr8	123024340	123024540	+	938.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081379, intron 1 of 12)	intron (NM_001081379, intron 1 of 12)	17844.0	NR_037865	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	16.0	23.0	8.0	136.0	23.0	7.0	14.5	8.0
Merged-chr5-120088769-3	chr5	120088680	120088880	+	845.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27733.0	NM_028762	74111.0	Mm.41022	NM_028762	ENSMUSG00000029594	Rbm19	1200009A02Rik|AV302714|NPO	RNA binding motif protein 19	protein-coding	14.5	17.0	4.5	121.5	18.0	8.0	6.0	8.5
Merged-chr5-28294176-4	chr5	28294074	28294274	+	819.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23015.0	NM_028234	381626.0	Mm.304075	NM_028234	ENSMUSG00000048271	Rbm33	3200001K10Rik|6430512A10Rik|AA386890|Prr8	RNA binding motif protein 33	protein-coding	15.5	4.5	6.5	108.5	25.5	7.5	11.5	7.0
Merged-chr13-21234180-1	chr13	21234080	21234280	+	789.0	f0_balb.idr	Intergenic	Intergenic	54249.0	NM_009054	19720.0	Mm.314056	NM_009054	ENSMUSG00000021326	Trim27	AW538890|Gm19403|Rfp	tripartite motif-containing 27	protein-coding	7.0	4.5	7.0	145.0	3.0	0.0	2.5	1.5
Merged-chr9-106437876-4	chr9	106437765	106437965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025371, intron 1 of 14)	MIRb|SINE|MIR	371.0	NM_001276442	109652.0	Mm.7165	NM_025371	ENSMUSG00000023262	Acy1	1110014J22Rik|Acy-1	aminoacylase 1	protein-coding	40.5	58.5	31.5	558.0	86.5	31.5	33.0	17.0
Merged-chr17-28224184-4	chr17	28224091	28224291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027185, intron 7 of 10)	intron (NM_027185, intron 7 of 10)	-8563.0	NM_011145	19015.0	Mm.328914	NM_011145	ENSMUSG00000002250	Ppard	NUC-1|NUC1|Nr1c2|PPAR-beta|PPAR-delta|PPAR[b]|PPARdelta|Pparb|Pparb/d	peroxisome proliferator activator receptor delta	protein-coding	45.0	47.5	29.0	540.5	142.0	26.0	39.0	29.5
Merged-chr1-34479280-6	chr1	34479130	34479330	+	855.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19182.0	NM_009355	21755.0	Mm.10725	NM_009355	ENSMUSG00000026125	Prss39	Tesp1	protease, serine 39	protein-coding	3.5	9.5	10.5	139.5	10.0	7.0	5.5	15.0
Merged-chr14-52124122-4	chr14	52124015	52124215	+	740.733337	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168515, intron 6 of 24)	B3|SINE|B2	13212.0	NM_023879	77945.0	Mm.21662	NM_023879	ENSMUSG00000057132	Rpgrip1	0610005A07Rik|4930401L23Rik|4930505G06Rik|A930002K18Rik|AA415034|nmf247	retinitis pigmentosa GTPase regulator interacting protein 1	protein-coding	6.5	12.5	6.5	136.0	29.5	10.5	10.0	6.5
Merged-chr14-57684810-3	chr14	57684711	57684911	+	738.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-19855.0	NM_020506	57258.0	Mm.202747	NM_020506	ENSMUSG00000021952	Xpo4	B430309A01Rik|mKIAA1721	exportin 4	protein-coding	10.0	8.5	6.0	99.5	24.5	5.5	9.5	9.0
Merged-chr2-68350869-4	chr2	68350762	68350962	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 10 of 17)	intron (NM_016866, intron 10 of 17)	121119.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	27.5	24.5	33.5	461.0	57.5	9.5	29.0	13.0
Merged-chr8-24438969-4	chr8	24438867	24439067	+	962.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026931)	promoter-TSS (NM_026931)	-21.0	NM_026931	69068.0	Mm.25775	NM_026931	ENSMUSG00000056313	Tcim	1110065B09Rik|1810011O10Rik|AW121743|AW321058	transcriptional and immune response regulator	protein-coding	19.0	23.5	10.0	183.0	34.5	19.0	16.5	20.0
Merged-chr13-38296830-3	chr13	38296732	38296932	+	937.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48884.0	NM_007556	12161.0	Mm.385759	NM_007556	ENSMUSG00000039004	Bmp6	D13Wsu115e|Vgr1	bone morphogenetic protein 6	protein-coding	2.5	11.0	4.0	51.0	36.5	12.0	16.0	17.0
Merged-chr14-45687355-4	chr14	45687251	45687451	+	790.700012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29208.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	18.0	9.0	2.0	154.5	27.5	9.0	11.0	9.0
Merged-chr13-80881917-4	chr13	80881809	80882009	+	955.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1475.0	NR_153410	105171.0	Mm.423137	NM_001042591	ENSMUSG00000074794	Arrdc3	AI450344|mKIAA1376	arrestin domain containing 3	protein-coding	9.5	31.0	13.5	288.5	61.0	23.0	24.0	20.0
Merged-chr2-146010937-4	chr2	146010850	146011050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	76166.0	NM_175280	78774.0	Mm.136347	NM_175280	ENSMUSG00000037143	Cfap61	4930529M08Rik|BB178539|BC024760	cilia and flagella associated protein 61	protein-coding	61.5	61.0	79.0	949.5	127.5	43.5	76.5	57.0
Merged-chr10-19958373-4	chr10	19958278	19958478	+	978.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 1 of 29)	intron (NM_008580, intron 1 of 29)	23852.0	NM_008580	26408.0	Mm.6595	NM_008580	ENSMUSG00000071369	Map3k5	7420452D20Rik|ASK|ASK1|MAPKKK5|Mekk5	mitogen-activated protein kinase kinase kinase 5	protein-coding	37.5	48.0	22.5	224.0	33.5	7.0	11.5	5.0
Merged-chr18-13006514-4	chr18	13006427	13006627	+	823.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153087)	promoter-TSS (NM_153087)	-463.0	NM_153087	225192.0	Mm.207073	NM_153087	ENSMUSG00000037346	Hrh4	AXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R	histamine receptor H4	protein-coding	6.0	16.0	7.0	163.5	23.0	13.0	7.5	6.5
Merged-chr6-54934575-3	chr6	54934434	54934634	+	804.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 7 of 11)	intron (NM_001171007, intron 7 of 11)	37127.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	6.5	10.5	4.5	83.0	8.0	6.0	4.0	9.5
Merged-chr3-41563365-4	chr3	41563258	41563458	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172303)	promoter-TSS (NM_172303)	-25.0	NM_172303	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	31.0	30.5	14.0	357.5	63.0	16.0	30.0	27.0
Merged-chr6-21998329-4	chr6	21998201	21998401	+	948.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081351, intron 1 of 21)	intron (NM_001081351, intron 1 of 21)	12391.0	NM_001081351	214642.0	Mm.221404	NM_001081351	ENSMUSG00000062980	Cped1	6720481P07|A430107O13Rik|AI552584	cadherin-like and PC-esterase domain containing 1	protein-coding	7.0	32.0	10.0	183.0	65.0	15.5	18.0	22.5
Merged-chr2-167376344-4	chr2	167376240	167376440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27162.0	NM_019835	56336.0	Mm.200886	NM_019835	ENSMUSG00000017929	B4galt5	9430078I07Rik|AW049941|AW539721	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 5	protein-coding	29.0	82.5	70.0	815.0	110.5	35.0	48.0	53.0
Merged-chr11-34048886-5	chr11	34048891	34049091	+	954.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 1 of 20)	intron (NM_010696, intron 1 of 20)	2063.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	17.0	19.0	7.5	87.0	33.0	8.5	6.0	8.5
Merged-chr18-66436775-4	chr18	66436672	66436872	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21832.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	34.5	41.5	26.5	633.0	89.0	32.5	55.5	35.0
Merged-chr9-63720851-2	chr9	63720751	63720951	+	543.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016769, intron 1 of 8)	intron (NM_016769, intron 1 of 8)	37143.0	NM_016769	17127.0	Mm.7320	NM_016769	ENSMUSG00000032402	Smad3	AU022421|Madh3	SMAD family member 3	protein-coding	7.0	9.5	5.0	37.5	2.5	1.0	4.0	5.0
Merged-chr8-33642464-2	chr8	33642364	33642564	+	707.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178648)	promoter-TSS (NM_178648)	-488.0	NM_178648	108159.0	Mm.29301	NM_178648	ENSMUSG00000052906	Ubxn8	D0H8S2298E|Rep-8|Rep8h|Ubxd6	UBX domain protein 8	protein-coding	4.5	6.0	9.0	84.5	7.5	5.0	4.5	13.0
Merged-chr17-32966241-3	chr17	32966145	32966345	+	984.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033585)	promoter-TSS (NR_033585)	414.0	NM_153063	224691.0	Mm.328953	NM_153063	ENSMUSG00000053600	Zfp472	KRIM-1|Krim-1A|Krim-1B|Krim1	zinc finger protein 472	protein-coding	20.5	14.5	20.0	392.5	42.5	15.0	22.0	20.5
Merged-chr11-120673146-7	chr11	120673183	120673383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026877, intron 1 of 15)	CpG	310.0	NM_026877	68938.0	Mm.294020	NM_026877	ENSMUSG00000025142	Aspscr1	1190006K01Rik|ASPC|ASPCR1|ASPL|ASPS|RCC17|TUG	alveolar soft part sarcoma chromosome region, candidate 1 (human)	protein-coding	80.5	101.0	82.5	972.0	225.5	95.0	78.0	82.0
Merged-chr7-16841713-4	chr7	16841627	16841827	+	822.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133789)	TTS (NM_133789)	-1175.0	NM_001252458	101540.0	Mm.1881	NM_178900	ENSMUSG00000041187	Prkd2	AI325941|PKD2	protein kinase D2	protein-coding	12.0	11.5	12.0	179.5	24.5	5.0	12.5	9.5
Merged-chr2-174674180-4	chr2	174674081	174674281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001099328, intron 3 of 4)	intron (NM_001099328, intron 3 of 4)	30647.0	NM_001099328	100043757.0	Mm.48711	NM_001099328	ENSMUSG00000050600	Zfp831	-	zinc finger protein 831	protein-coding	21.0	34.0	13.5	349.5	48.5	25.5	27.0	28.0
Merged-chr1-46853614-4	chr1	46853505	46853705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172653)	promoter-TSS (NM_172653)	13.0	NM_001356416	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	241.5	323.0	181.5	3552.0	857.0	282.5	317.5	260.5
Merged-chr16-44066584-4	chr16	44066486	44066686	+	965.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-24578.0	NM_001359085	207798.0	Mm.19316	NM_153528	ENSMUSG00000036292	Gramd1c	4921521N14Rik	GRAM domain containing 1C	protein-coding	14.0	23.0	21.0	336.0	33.0	8.0	12.5	16.0
Merged-chr11-103346860-4	chr11	103346764	103346964	+	981.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045346, exon 3 of 4)	non-coding (NR_045346, exon 3 of 4)	2111.0	NR_045346	653030.0	Mm.440684	NR_045346	ENSMUSG00000085887	Arhgap27os3	F830206d12rik|Gm11648	Rho GTPase activating protein 27, opposite strand 3	ncRNA	13.5	35.0	30.0	360.5	49.5	16.0	21.5	18.0
Merged-chr18-65505135-4	chr18	65505016	65505216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_105742, intron 3 of 6)	intron (NR_105742, intron 3 of 6)	74119.0	NM_172833	240354.0	Mm.132613	NM_172833	ENSMUSG00000032688	Malt1	A630046N12|D430033E09Rik|Pcasp1	MALT1 paracaspase	protein-coding	47.5	76.5	40.0	612.0	47.0	31.5	34.0	32.5
Merged-chr5-124021328-4	chr5	124021229	124021429	+	896.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177876, intron 1 of 3)	intron (NM_177876, intron 1 of 3)	10931.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	10.5	14.0	5.5	308.5	31.5	7.0	8.5	12.5
Merged-chr2-159811855-4	chr2	159811741	159811941	+	886.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-135500.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	23.5	17.0	9.5	185.5	35.5	10.5	17.5	8.5
Merged-chr17-28693293-4	chr17	28693202	28693402	+	879.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	734.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	10.0	11.0	10.5	157.0	51.0	15.5	9.0	11.5
Merged-chr2-118546773-3	chr2	118546696	118546896	+	783.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_138313, exon 3 of 5)	exon (NM_138313, exon 3 of 5)	803.0	NM_001331221	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	9.5	15.5	5.0	62.5	23.0	8.5	4.0	10.5
Merged-chr12-102438726-2	chr12	102438610	102438810	+	705.5	f0_balb.idr|f0_c57.idr	intron (NM_011175, intron 1 of 13)	intron (NM_011175, intron 1 of 13)	1103.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	7.5	17.5	17.0	107.0	41.0	9.5	26.0	7.5
Merged-chr11-117385046-4	chr11	117384936	117385136	+	853.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29353.0	NR_132097	105827746.0	Mm.388009	NR_132097	ENSMUSG00000086588	Gm11729	-	predicted gene 11729	ncRNA	6.5	16.5	4.5	105.0	38.0	12.5	4.5	11.5
Merged-chr14-46767534-4	chr14	46767430	46767630	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360041, intron 5 of 7)	intron (NM_001360041, intron 5 of 7)	6989.0	NM_028222	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	50.0	51.5	59.0	1209.5	18.0	3.5	12.5	11.5
Merged-chr12-84004739-4	chr12	84004615	84004815	+	936.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-4787.0	NM_012006	26897.0	Mm.1978	NM_012006	ENSMUSG00000072949	Acot1	ACH2|CTE-1|CTE-I|Cte1|D12Ucla1	acyl-CoA thioesterase 1	protein-coding	17.5	14.0	16.5	336.0	47.0	17.5	11.5	17.5
Merged-chr4-48048990-3	chr4	48048879	48049079	+	871.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_015743, exon 2 of 8)	5' UTR (NM_015743, exon 2 of 8)	-2267.0	NM_001307989	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	14.0	9.0	5.0	51.0	10.0	7.0	3.5	14.0
Merged-chr1-128548418-3	chr1	128548298	128548498	+	967.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43901.0	NM_009911	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	1.5	4.0	4.0	53.5	84.5	29.5	32.0	17.0
Merged-chr19-10880260-4	chr19	10880150	10880350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134142, intron 1 of 3)	intron (NM_134142, intron 1 of 3)	1493.0	NM_134142	68539.0	Mm.251890	NM_134142	ENSMUSG00000034659	Tmem109	1110006I15Rik|AA958958|C77652	transmembrane protein 109	protein-coding	127.5	163.0	122.0	1652.5	231.5	86.0	116.0	95.0
Merged-chr11-118419063-4	chr11	118418935	118419135	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001267592)	promoter-TSS (NM_001267592)	83.0	NM_001025617	76025.0	Mm.177551	NM_029502	ENSMUSG00000025575	Cant1	5830420C20Rik|Apy1h|D11Bwg0554e|Entpd8|SCAN-1|Shapy	calcium activated nucleotidase 1	protein-coding	178.0	257.5	122.0	1536.0	443.5	173.0	157.0	138.5
Merged-chr10-43829158-1	chr10	43829058	43829258	+	661.0	f0_balb.idr	intron (NR_131055, intron 1 of 2)	ORR1D1|LTR|ERVL-MaLR	3251.0	NR_131055	71018.0	Mm.410796	NR_131055	ENSMUSG00000111342	4933404K13Rik	-	RIKEN cDNA 4933404K13 gene	ncRNA	6.5	9.5	21.5	149.5	0.5	0.0	1.0	2.0
Merged-chr12-32344088-2	chr12	32343988	32344188	+	825.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	URR1A|DNA|hAT-Charlie	-34701.0	NM_001162903	72123.0	Mm.341352	NM_028111	ENSMUSG00000090946	Ccdc71l	2010109K11Rik|AV375874	coiled-coil domain containing 71 like	protein-coding	1.0	1.0	6.0	35.0	12.0	6.5	6.0	11.0
Merged-chr9-110676257-1	chr9	110676157	110676357	+	570.0	f0_c57.idr	intron (NM_028312, intron 1 of 6)	ID_B1|SINE|B4	19754.0	NM_028312	72654.0	Mm.249115	NM_028312	ENSMUSG00000019659	Ccdc12	2700094L05Rik|C76605	coiled-coil domain containing 12	protein-coding	4.0	10.0	5.5	26.0	25.0	6.5	16.0	12.0
Merged-chr14-51278653-4	chr14	51278554	51278754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22542.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	52.0	64.5	65.5	621.5	78.5	48.5	53.5	23.5
Merged-chr5-64337279-3	chr5	64337176	64337376	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 16 of 18)	intron (NM_001289514, intron 16 of 18)	106919.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	56.0	9.0	69.0	1133.5	46.5	10.0	14.5	32.5
Merged-chr18-9708710-3	chr18	9708607	9708807	+	945.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_130449, intron 1 of 9)	intron (NM_130449, intron 1 of 9)	1059.0	NM_130449	140792.0	Mm.218571	NM_130449	ENSMUSG00000036103	Colec12	CL-P1|SRCL|Scara4	collectin sub-family member 12	protein-coding	10.0	18.0	19.0	237.5	10.5	7.5	7.0	8.5
Merged-chr16-65423010-1	chr16	65422910	65423110	+	713.0	f0_balb.idr	Intergenic	Intergenic	-97619.0	NM_008849	18736.0	Mm.355440	NM_008849	ENSMUSG00000004842	Pou1f1	GHF-1|Hmp1|Pit-1|Pit1|Pit1-rs1|dw|dwarf	POU domain, class 1, transcription factor 1	protein-coding	13.0	17.0	10.5	113.5	21.5	3.0	4.0	6.5
Merged-chr15-102296215-4	chr15	102296107	102296307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001014976)	promoter-TSS (NM_001014976)	-86.0	NM_001014976	105988.0	Mm.288324	NM_001014976	ENSMUSG00000058290	Espl1	AL024103|AU045071|Cerp|ESP1|PRCE|SSE	extra spindle pole bodies 1, separase	protein-coding	59.0	57.0	22.5	582.5	134.5	51.0	49.0	50.0
Merged-chr2-117328759-4	chr2	117328644	117328844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011246, intron 2 of 16)	intron (NM_011246, intron 2 of 16)	14133.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	49.0	38.5	20.5	277.5	92.5	28.0	29.0	32.0
Merged-chr14-46760464-4	chr14	46760363	46760563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028222)	promoter-TSS (NM_028222)	-78.0	NM_001360041	72391.0	Mm.272394	NM_028222	ENSMUSG00000037628	Cdkn3	2410006H10Rik|KAP	cyclin-dependent kinase inhibitor 3	protein-coding	301.5	486.0	330.0	5307.5	651.5	231.5	329.5	221.5
Merged-chr3-20028350-3	chr3	20028285	20028485	+	784.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080634, intron 4 of 16)	ID_B1|SINE|B4	6925.0	NM_001146324	12807.0	Mm.291533	NM_080634	ENSMUSG00000027615	Hps3	coa	HPS3, biogenesis of lysosomal organelles complex 2 subunit 1	protein-coding	7.5	15.0	16.0	102.5	15.0	3.5	4.5	4.5
Merged-chr15-73687705-3	chr15	73687602	73687802	+	747.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19803.0	NM_173365	239530.0	Mm.122997	NM_173365	ENSMUSG00000045281	Gpr20	A430106B11Rik	G protein-coupled receptor 20	protein-coding	4.5	6.5	8.5	90.5	13.0	1.5	1.0	3.0
Merged-chr19-21276627-3	chr19	21276571	21276771	+	869.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009551, intron 2 of 5)	intron (NM_009551, intron 2 of 5)	4393.0	NM_009551	22682.0	Mm.292405	NM_009551	ENSMUSG00000024750	Zfand5	2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216	zinc finger, AN1-type domain 5	protein-coding	4.5	6.5	11.5	56.0	8.5	3.5	2.5	6.5
Merged-chr6-87804929-4	chr6	87804826	87805026	+	822.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	intron (NR_104478, intron 1 of 2)	4831.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	12.0	15.0	12.5	145.5	29.0	7.0	19.5	19.0
Merged-chr10-8065892-4	chr10	8065804	8066004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-109781.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	77.0	103.0	82.5	1578.0	190.5	57.5	85.0	93.0
Merged-chr7-44304967-3	chr7	44304880	44305080	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009131, exon 4 of 4)	exon (NM_009131, exon 4 of 4)	1979.0	NM_009131	20256.0	Mm.20428	NM_009131	ENSMUSG00000004473	Clec11a	AW457320|Clecsf3|Scgf	C-type lectin domain family 11, member a	protein-coding	121.5	183.5	148.5	1666.0	351.0	169.5	195.0	179.0
Merged-chr2-32395139-2	chr2	32395039	32395239	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133783)	promoter-TSS (NM_133783)	-751.0	NM_133783	96979.0	Mm.28048	NM_133783	ENSMUSG00000026820	Ptges2	0610038H10Rik|C79137|Gbf1|Mpges2|Pges2	prostaglandin E synthase 2	protein-coding	6.5	4.5	5.0	47.5	11.0	3.0	5.0	3.0
Merged-chr13-49273025-3	chr13	49272933	49273133	+	829.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 14 of 17)	intron (NM_015759, intron 14 of 17)	-24327.0	NM_028340	66329.0	Mm.34308	NM_025491	ENSMUSG00000021384	Susd3	1700017I11Rik|2810440J20Rik	sushi domain containing 3	protein-coding	6.0	12.5	5.0	117.5	14.5	2.5	3.5	7.0
Merged-chr1-165766671-4	chr1	165766578	165766778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_149310, intron 2 of 4)	intron (NR_149310, intron 2 of 4)	2920.0	NM_011804	433375.0	Mm.294885	NM_011804	ENSMUSG00000040713	Creg1	AA755314|Creg	cellular repressor of E1A-stimulated genes 1	protein-coding	71.5	101.5	58.0	1118.5	194.0	73.0	67.0	77.5
Merged-chr5-99240754-4	chr5	99240674	99240874	+	970.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145839, intron 4 of 13)	intron (NM_145839, intron 4 of 13)	12153.0	NM_181318	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	19.5	37.0	10.0	219.5	54.0	22.0	17.5	16.5
Merged-chr19-43959342-4	chr19	43959227	43959427	+	896.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030703, intron 8 of 8)	intron (NM_030703, intron 8 of 8)	-19129.0	NM_028029	71972.0	Mm.159024	NM_028029	ENSMUSG00000025195	Dnmbp	2410003L07Rik|2410003M15Rik|TUBA	dynamin binding protein	protein-coding	9.0	15.5	3.5	99.0	26.0	7.0	14.0	7.0
Merged-chr7-10494193-4	chr7	10494089	10494289	+	928.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009577, intron 2 of 3)	intron (NM_009577, intron 2 of 3)	1192.0	NM_009577	22775.0	Mm.49441	NM_009577	ENSMUSG00000030393	Zik1	-	zinc finger protein interacting with K protein 1	protein-coding	7.0	22.5	12.0	265.0	44.5	9.5	12.5	4.5
Merged-chr11-116869857-4	chr11	116869777	116869977	+	966.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178620, intron 10 of 12)	intron (NM_178620, intron 10 of 12)	15877.0	NM_001361586	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	16.5	28.5	15.0	555.5	29.0	23.5	15.5	23.5
Merged-chr10-59252144-3	chr10	59252033	59252233	+	703.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30211.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	7.0	11.5	2.0	82.0	11.0	10.0	7.5	9.0
Merged-chr16-77084287-4	chr16	77084193	77084393	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013918, intron 17 of 23)	intron (NM_013918, intron 17 of 23)	70224.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	132.5	253.5	142.0	2256.0	395.5	149.0	183.5	144.5
Merged-chr16-4719246-4	chr16	4719149	4719349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001290761, exon 1 of 5)	5' UTR (NM_001290761, exon 1 of 5)	107.0	NM_001290763	67824.0	Mm.28451	NM_026393	ENSMUSG00000063445	Nmral1	1110025F24Rik|AI256624	NmrA-like family domain containing 1	protein-coding	42.5	66.0	53.5	376.0	93.0	45.0	26.5	41.0
Merged-chr14-34310511-4	chr14	34310424	34310624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008133)	promoter-TSS (NM_008133)	-7.0	NM_001360074	75698.0	Mm.45406	NM_029389	ENSMUSG00000041471	Fam35a	3110001K24Rik	family with sequence similarity 35, member A	protein-coding	290.0	448.5	343.0	4465.0	682.5	268.5	312.0	240.5
Merged-chr1-149826349-4	chr1	149826261	149826461	+	961.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C1|LTR|ERVK	96078.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	5.0	7.0	13.5	185.5	65.5	31.0	33.0	44.0
Merged-chr7-29983788-4	chr7	29983703	29983903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167873)	promoter-TSS (NM_001167873)	-152.0	NM_001167873	243905.0	Mm.322432	NM_001033355	ENSMUSG00000074221	Zfp568	C80731|Gm1691|Znf568|chato	zinc finger protein 568	protein-coding	173.0	202.0	183.0	3486.5	318.5	121.5	171.5	137.0
Merged-chr16-59491829-1	chr16	59491729	59491929	+	677.0	f0_balb.idr	exon (NM_025910, exon 10 of 10)	exon (NM_025910, exon 10 of 10)	20054.0	NM_025910	67014.0	Mm.289150	NM_025910	ENSMUSG00000022724	Riox2	1810047J07Rik|2410057H13Rik|3830408E23Rik|AI449204|Mina	ribosomal oxygenase 2	protein-coding	6.5	11.0	7.0	207.5	0.5	1.0	0.5	0.0
Merged-chr4-137707519-1	chr4	137707419	137707619	+	578.0	f1_c57bl6.idr	promoter-TSS (NM_001331215)	promoter-TSS (NM_001331215)	14.0	NM_001331215	110351.0	Mm.180763	NM_029563	ENSMUSG00000041351	Rap1gap	1300019I11Rik|2310004O14Rik|AI427470|ARPP-90|Gap|Rap1GAP1|Rap1ga1	Rap1 GTPase-activating protein	protein-coding	7.0	4.5	5.5	35.0	3.0	1.5	5.0	5.5
Merged-chr13-69538474-4	chr13	69538375	69538575	+	972.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4611.0	NM_001169131	210106.0	Mm.315959	NM_198600	ENSMUSG00000034575	Papd7	LAK-1|POLK|Pols|TRF4|TRF4-1	PAP associated domain containing 7	protein-coding	124.0	205.0	190.0	2328.0	56.5	9.0	34.0	19.0
Merged-chr9-50501436-3	chr9	50501338	50501538	+	746.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029639, intron 3 of 3)	intron (NM_029639, intron 3 of 3)	3367.0	NR_040714	69631.0	Mm.414996	NR_040714	ENSMUSG00000101304	Plet1os	2310014F07Rik	placenta expressed transcript 1, opposite strand	ncRNA	7.0	14.5	11.0	151.0	41.0	4.5	8.5	9.5
Merged-chr11-101253770-4	chr11	101253682	101253882	+	983.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284414)	promoter-TSS (NM_001284414)	75.0	NM_026776	28084.0	Mm.301020	NM_026776	ENSMUSG00000078656	Vps25	1110020N13Rik|AW107467|D11Wsu68e	vacuolar protein sorting 25	protein-coding	24.0	36.0	19.5	261.5	56.0	15.0	13.0	15.5
Merged-chr8-125782581-4	chr8	125782452	125782652	+	810.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175561, intron 25 of 33)	intron (NM_175561, intron 25 of 33)	48349.0	NM_001310688	66566.0	Mm.25296	NM_025636	ENSMUSG00000031851	Ntpcr	2310079N02Rik|AI449709	nucleoside-triphosphatase, cancer-related	protein-coding	8.0	4.0	3.0	72.5	7.5	5.0	7.5	14.0
Merged-chr15-83408387-3	chr15	83408264	83408464	+	924.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358643, intron 1 of 9)	MTEb|LTR|ERVL-MaLR	24486.0	NM_011862	23970.0	Mm.23978	NM_011862	ENSMUSG00000016664	Pacsin2	AI197433	protein kinase C and casein kinase substrate in neurons 2	protein-coding	21.5	26.0	20.5	179.5	23.0	5.0	5.5	6.5
Merged-chr11-116012688-4	chr11	116012578	116012778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016905)	promoter-TSS (NM_016905)	41.0	NM_016905	14635.0	Mm.2820	NM_016905	ENSMUSG00000020766	Galk1	AA409894|GALK|Gk|Glk|Glk1	galactokinase 1	protein-coding	52.0	73.0	35.5	488.5	91.5	37.5	41.0	34.5
Merged-chr5-9111937-4	chr5	9111805	9112005	+	999.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081029, intron 2 of 4)	intron (NM_001081029, intron 2 of 4)	11168.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	29.0	42.0	33.0	358.0	37.5	22.5	22.0	26.0
Merged-chr19-21747583-4	chr19	21747479	21747679	+	910.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30761.0	NM_001033759	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	6.5	19.0	17.5	260.5	45.0	11.0	16.5	13.0
Merged-chr1-165660942-3	chr1	165660844	165661044	+	870.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038846, intron 2 of 5)	intron (NM_001038846, intron 2 of 5)	-26403.0	NM_001083897	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	16.0	16.5	11.0	47.0	26.0	7.5	9.5	8.5
Merged-chr13-112361822-4	chr13	112361712	112361912	+	986.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168403, intron 8 of 11)	L1MD3|LINE|L1	73294.0	NM_001168404	77318.0	Mm.159895	NM_029898	ENSMUSG00000049985	Ankrd55	C030011J08Rik	ankyrin repeat domain 55	protein-coding	40.0	36.0	30.0	482.5	68.0	17.5	41.5	15.5
Merged-chr10-34416769-4	chr10	34416680	34416880	+	784.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176968, intron 1 of 11)	intron (NM_176968, intron 1 of 11)	1771.0	NM_176968	319638.0	Mm.73467	NM_176968	ENSMUSG00000039480	Nt5dc1	6030401B09Rik|AW987726|Nt5c2l1	5'-nucleotidase domain containing 1	protein-coding	8.0	14.0	9.5	100.5	25.0	0.5	8.0	11.5
Merged-chr7-25704907-4	chr7	25704818	25705018	+	959.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011577, exon 7 of 7)	exon (NM_011577, exon 7 of 7)	14135.0	NM_028771	52132.0	Mm.278798	NM_028771	ENSMUSG00000002608	Ccdc97	1200014H14Rik|2810446P04Rik|AA545218|D7Ertd462e	coiled-coil domain containing 97	protein-coding	19.5	28.0	21.0	305.0	67.0	12.5	17.5	17.5
Merged-chr9-59598799-4	chr9	59598705	59598905	+	959.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361099, intron 2 of 10)	(TTC)n|Simple_repeat|Simple_repeat	9517.0	NM_001311092	76183.0	Mm.265415	NM_175235	ENSMUSG00000032297	Celf6	6330569O16Rik|Brunol6	CUGBP, Elav-like family member 6	protein-coding	21.0	46.5	26.0	141.5	72.5	11.0	18.5	26.0
Merged-chr10-84335656-4	chr10	84335578	84335778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	104793.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	73.5	114.0	87.5	1082.5	98.0	47.0	53.0	20.5
Merged-chr14-122557545-4	chr14	122557482	122557682	+	844.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144844, intron 1 of 23)	intron (NM_144844, intron 1 of 23)	23254.0	NM_144844	110821.0	Mm.23876	NM_144844	ENSMUSG00000041650	Pcca	C79630	propionyl-Coenzyme A carboxylase, alpha polypeptide	protein-coding	9.5	23.0	10.0	267.5	43.0	8.5	13.0	8.5
Merged-chr16-20549036-2	chr16	20548936	20549136	+	971.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_030670)	promoter-TSS (NR_030670)	433.0	NM_013852	27406.0	Mm.27135	NM_013852	ENSMUSG00000003234	Abcf3	AI326318|AU016058|BB119416	ATP-binding cassette, sub-family F (GCN20), member 3	protein-coding	2.5	6.5	7.0	72.0	17.0	5.0	5.0	8.5
Merged-chr2-11544559-4	chr2	11544465	11544665	+	954.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	9364.0	NM_001177758	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	15.0	15.5	18.0	313.5	44.5	4.5	13.5	17.0
Merged-chr12-77270898-4	chr12	77270789	77270989	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045554, intron 1 of 11)	MTD|LTR|ERVL-MaLR	32150.0	NR_045554	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	36.5	34.5	10.5	480.5	85.0	16.0	41.5	34.0
Merged-chr7-38107651-4	chr7	38107541	38107741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007633)	promoter-TSS (NM_007633)	-151.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	312.5	505.5	305.0	3937.0	693.5	331.5	413.0	268.5
Merged-chr13-102689865-4	chr13	102689749	102689949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3698.0	NM_001360519	17079.0	Mm.373974	NM_008533	ENSMUSG00000021624	Cd180	F630107B15|Ly-78|Ly78|RP105	CD180 antigen	protein-coding	55.0	91.5	88.5	1439.0	155.5	53.0	53.5	59.5
Merged-chr13-110626591-3	chr13	110626451	110626651	+	853.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	231507.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	12.0	19.0	9.5	118.5	13.5	6.5	7.0	8.5
Merged-chr11-69685910-4	chr11	69685790	69685990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023517)	promoter-TSS (NM_023517)	-336.0	NM_023517	69583.0	Mm.8983	NM_023517	ENSMUSG00000089669	Tnfsf13	2310026N09Rik|April|Tall2|Tnlg7b|Trdl1	tumor necrosis factor (ligand) superfamily, member 13	protein-coding	27.5	46.0	28.0	372.5	82.0	39.5	32.5	44.0
Merged-chr15-58988977-4	chr15	58988873	58989073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 3 of 14)	intron (NM_144800, intron 3 of 14)	55163.0	NM_023172	66218.0	Mm.322294	NM_023172	ENSMUSG00000022354	Ndufb9	1190008J14Rik	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 9	protein-coding	94.5	87.0	109.0	1667.0	147.0	78.5	67.5	80.5
Merged-chr11-116842905-4	chr11	116842683	116842883	+	995.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028865)	promoter-TSS (NM_028865)	666.0	NM_033398	107817.0	Mm.481684	NM_033398	ENSMUSG00000056962	Jmjd6	5730436I23Rik|D11Ertd195e|PSR|PtdSerR|Ptdsr|mKIAA0585	jumonji domain containing 6	protein-coding	17.5	9.5	23.0	152.0	39.0	10.5	11.0	19.0
Merged-chr5-3342411-4	chr5	3342308	3342508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1485.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	33.5	55.0	39.0	542.5	87.0	37.0	37.5	59.0
Merged-chr10-80755083-4	chr10	80754980	80755180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199322)	promoter-TSS (NM_199322)	-123.0	NM_199322	208266.0	Mm.152371	NM_199322	ENSMUSG00000061589	Dot1l	A630076O07|AW907654|Dot1|KMT4|mDot1	DOT1-like, histone H3 methyltransferase (S. cerevisiae)	protein-coding	228.0	389.0	239.5	2744.5	559.0	231.0	250.0	192.5
Merged-chr2-174018185-4	chr2	174018079	174018279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58872.0	NM_172675	228960.0	Mm.277977	NM_172675	ENSMUSG00000027522	Stx16	4930401D03|5430410K23Rik|6330500A18Rik|AI648908|AW553605|Syn16	syntaxin 16	protein-coding	81.5	104.5	95.5	1549.0	183.5	78.0	101.0	83.5
Merged-chr6-86579463-4	chr6	86579365	86579565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48709.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	63.5	72.5	48.5	528.5	146.0	33.5	48.0	50.0
Merged-chr4-133465307-4	chr4	133465197	133465397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-14836.0	NM_175307	100342.0	Mm.204656	NM_175307	ENSMUSG00000046694	Fam46b	4732473B16Rik|AU045678|AU046069	family with sequence similarity 46, member B	protein-coding	50.0	80.0	37.5	589.0	93.0	25.0	23.5	29.5
Merged-chr6-125600342-4	chr6	125600243	125600443	+	754.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011708, intron 12 of 51)	intron (NM_011708, intron 12 of 51)	47395.0	NM_011708	22371.0	Mm.22339	NM_011708	ENSMUSG00000001930	Vwf	6820430P06Rik|AI551257|B130011O06Rik|C630030D09|F8VWF|VWD	Von Willebrand factor	protein-coding	10.0	5.0	5.0	111.0	30.0	10.5	8.0	17.5
Merged-chr14-51220222-1	chr14	51220122	51220322	+	816.5	f0_balb.idr	Intergenic	Intergenic	16527.0	NM_017389	503847.0	Mm.377124	NM_017389	ENSMUSG00000050766	Ear14	-	eosinophil-associated, ribonuclease A family, member 14	protein-coding	12.5	9.5	34.0	315.5	0.5	3.0	0.0	3.0
Merged-chr3-136761767-4	chr3	136761632	136761832	+	750.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008913, intron 1 of 13)	intron (NM_008913, intron 1 of 13)	91666.0	NM_001293622	19055.0	Mm.331389	NM_008913	ENSMUSG00000028161	Ppp3ca	2900074D19Rik|CN|Caln|Calna|CnA	protein phosphatase 3, catalytic subunit, alpha isoform	protein-coding	9.0	15.5	7.0	36.5	24.5	10.5	13.0	7.0
Merged-chr14-47445570-3	chr14	47445471	47445671	+	848.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26990.0	NR_027414	78938.0	Mm.11935	NM_030236	ENSMUSG00000037536	Fbxo34	2900057B08Rik|5830426G16Rik	F-box protein 34	protein-coding	6.0	19.0	11.5	171.5	6.5	2.5	8.0	3.5
Merged-chr6-99211870-3	chr6	99211775	99211975	+	708.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001197321, intron 2 of 17)	intron (NM_001197321, intron 2 of 17)	54640.0	NM_001197321	108655.0	Mm.234965	NM_053202	ENSMUSG00000030067	Foxp1	3110052D19Rik|4932443N09Rik|AI461938|AW494214	forkhead box P1	protein-coding	4.5	8.0	17.5	104.0	10.0	3.5	6.5	9.0
Merged-chr2-21200148-3	chr2	21200046	21200246	+	669.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027728, intron 1 of 4)	intron (NM_027728, intron 1 of 4)	5219.0	NM_027728	71233.0	Mm.27658	NM_027728	ENSMUSG00000026679	Enkur	4933434I06Rik|AU016229	enkurin, TRPC channel interacting protein	protein-coding	3.0	11.0	8.0	74.0	18.0	6.5	5.5	6.5
Merged-chr14-118831739-3	chr14	118831661	118831861	+	905.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160097, intron 1 of 3)	intron (NM_001160097, intron 1 of 3)	-23189.0	NM_021386	58187.0	Mm.390755	NM_021386	ENSMUSG00000022132	Cldn10	6720456I16Rik|Cldn10a|Cldn10b|D14Ertd728e	claudin 10	protein-coding	5.0	16.0	20.5	206.0	0.0	1.0	0.0	0.0
Merged-chr6-86494033-4	chr6	86493924	86494124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5797.0	NR_040292	381792.0	Mm.333223	NR_040292	ENSMUSG00000101655	2310040G24Rik	-	RIKEN cDNA 2310040G24 gene	ncRNA	95.5	157.0	60.0	653.0	200.0	80.5	65.0	62.0
Merged-chr1-36003981-4	chr1	36003867	36004067	+	768.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64433.0	NM_015818	50785.0	Mm.213566	NM_015818	ENSMUSG00000045216	Hs6st1	6Ost1	heparan sulfate 6-O-sulfotransferase 1	protein-coding	7.0	11.0	23.0	227.0	22.5	5.5	6.5	8.0
Merged-chr4-147337031-2	chr4	147336931	147337131	+	973.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039209, intron 1 of 2)	L1_Mus1|LINE|L1	161165.0	NM_001039209	195531.0	Mm.270762	NM_001039209	ENSMUSG00000078496	Zfp982	Gm13152	zinc finger protein 982	protein-coding	9.0	1.5	8.5	28.0	5.5	11.0	6.5	10.0
Merged-chr4-138216378-4	chr4	138216276	138216476	+	899.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001122896)	promoter-TSS (NM_001122896)	-236.0	NM_001122896	15441.0	Mm.348429	NM_010470	ENSMUSG00000028759	Hp1bp3	Hp1bp74	heterochromatin protein 1, binding protein 3	protein-coding	25.5	37.0	13.0	206.5	26.0	10.5	23.0	13.5
Merged-chr15-12205605-2	chr15	12205505	12205705	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001356498, intron 1 of 15)	CpG	577.0	NM_172958	268783.0	Mm.54460	NM_172958	ENSMUSG00000039458	Mtmr12	3Pap|4932703C11|C730015A02Rik|Pip3ap|mKIAA1682	myotubularin related protein 12	protein-coding	9.5	29.0	27.0	284.0	56.5	26.5	20.5	23.5
Merged-chr16-90334303-3	chr16	90334206	90334406	+	825.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49803.0	NM_178923	224432.0	Mm.439811	NM_178923	ENSMUSG00000022983	Scaf4	AA517739|Sfrs15|Sra4|Srsf15	SR-related CTD-associated factor 4	protein-coding	8.0	19.0	12.0	120.5	21.5	15.5	8.0	8.0
Merged-chr6-51580495-4	chr6	51580401	51580601	+	862.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 5 of 6)	intron (NM_001361577, intron 5 of 6)	35208.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	15.5	19.5	11.5	202.5	52.5	9.5	24.0	13.0
Merged-chr17-45627008-4	chr17	45626914	45627114	+	961.775024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24912.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	18.5	39.0	10.0	216.5	64.0	22.0	34.0	15.5
Merged-chr12-86888241-4	chr12	86888132	86888332	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3418.0	NM_145836	238330.0	Mm.248358	NM_145836	ENSMUSG00000034168	Irf2bpl	6430527G18Rik|Eap1	interferon regulatory factor 2 binding protein-like	protein-coding	38.0	47.0	19.0	320.0	70.5	42.5	45.5	58.0
Merged-chr3-87500312-4	chr3	87500215	87500415	+	939.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001113238, exon 12 of 12)	3' UTR (NM_001113238, exon 12 of 12)	-25263.0	NM_001083318	27049.0	Mm.219460	NM_012051	ENSMUSG00000003382	Etv3	AI414410|METS|Pe1	ets variant 3	protein-coding	17.5	43.5	38.5	465.5	26.0	7.5	9.0	11.0
Merged-chr17-26576990-4	chr17	26576896	26577096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 1 of 9)	MIRc|SINE|MIR	15484.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	34.0	31.5	35.0	459.5	98.0	22.5	34.5	30.5
Merged-chr17-35353168-3	chr17	35353060	35353260	+	831.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MYSERV6-int|LTR|ERVK	10827.0	NM_010392	15013.0	Mm.427969	NM_010392	ENSMUSG00000091705	H2-Q2	BE136769|Gm11132|H-2Q2|gs14-2	histocompatibility 2, Q region locus 2	protein-coding	27.0	47.5	29.0	480.5	8.5	0.5	1.5	1.0
Merged-chr17-35235860-4	chr17	35235739	35235939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023179)	promoter-TSS (NM_023179)	-24.0	NM_010909	18038.0	Mm.300795	NM_010909	ENSMUSG00000042419	Nfkbil1	Def-7|IKBL	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor like 1	protein-coding	76.5	107.5	45.5	847.0	266.0	78.0	80.0	114.0
Merged-chr13-62856408-4	chr13	62856302	62856502	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007994, intron 1 of 6)	intron (NM_007994, intron 1 of 6)	1968.0	NM_007994	14120.0	Mm.391871	NM_007994	ENSMUSG00000021456	Fbp2	Fbp-1|Fbp1|Rae-30	fructose bisphosphatase 2	protein-coding	35.0	32.5	25.5	431.0	100.0	39.0	48.5	57.5
Merged-chr7-125560733-4	chr7	125560659	125560859	+	789.041687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	PB1D9|SINE|Alu	8477.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	5.5	9.0	17.0	159.0	14.5	9.0	5.5	17.5
Merged-chr7-99432508-3	chr7	99432410	99432610	+	992.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362168, intron 4 of 17)	MIR|SINE|MIR	-33494.0	NM_028145	72184.0	Mm.153585	NM_028145	ENSMUSG00000035298	Klhl35	2810406K13Rik	kelch-like 35	protein-coding	17.0	22.0	9.0	192.5	13.5	4.5	9.5	8.0
Merged-chr1-183264279-4	chr1	183264228	183264428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H2|LTR|ERVL-MaLR	-32732.0	NM_181732	108909.0	Mm.290502	NM_145626	ENSMUSG00000042901	Aida	2610208M17Rik|BC004835	axin interactor, dorsalization associated	protein-coding	47.5	76.5	57.0	911.0	149.0	70.5	65.0	56.5
Merged-chr15-84988648-3	chr15	84988546	84988746	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033273)	promoter-TSS (NM_001033273)	-675.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	19.0	37.0	8.0	252.5	34.5	13.5	19.5	18.5
Merged-chr6-136980523-4	chr6	136980416	136980616	+	941.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25993.0	NM_023898	78600.0	Mm.290622	NM_023898	ENSMUSG00000064330	Pde6h	A930033D18Rik|PDEgamma	phosphodiesterase 6H, cGMP-specific, cone, gamma	protein-coding	8.0	12.5	10.5	213.0	39.5	18.0	16.5	24.0
Merged-chr2-11475208-3	chr2	11475118	11475318	+	846.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177752, intron 13 of 13)	intron (NM_001177752, intron 13 of 13)	26872.0	NM_001177754	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	5.5	8.0	8.0	102.5	12.0	5.5	4.5	11.5
Merged-chr13-100452595-4	chr13	100452517	100452717	+	980.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008670, intron 1 of 15)	intron (NM_008670, intron 1 of 15)	247.0	NM_008670	17940.0	Mm.6898	NM_008670	ENSMUSG00000021640	Naip1	AV364616|Birc1a|D13Lsd1|Naip|Naip-rs1	NLR family, apoptosis inhibitory protein 1	protein-coding	17.0	20.0	29.0	109.5	91.0	34.5	30.5	31.5
Merged-chr2-150909723-4	chr2	150909619	150909819	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163476, exon 1 of 5)	exon (NM_001163476, exon 1 of 5)	125.0	NM_001163476	69270.0	Mm.271603	NM_027014	ENSMUSG00000027454	Gins1	2810418N01Rik|Gins4|PSF1|mKIAA0186	GINS complex subunit 1 (Psf1 homolog)	protein-coding	109.0	222.5	205.5	2362.0	358.5	137.0	180.5	167.5
Merged-chr11-21179247-4	chr11	21179148	21179348	+	628.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34A|LTR|ERV1	-59784.0	NM_139061	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	8.0	2.5	10.5	175.5	25.0	5.0	10.5	4.5
Merged-chr16-20539829-4	chr16	20539740	20539940	+	818.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302970, intron 3 of 10)	intron (NM_001302970, intron 3 of 10)	4360.0	NM_009679	11773.0	Mm.18946	NM_009679	ENSMUSG00000022841	Ap2m1	-	adaptor-related protein complex 2, mu 1 subunit	protein-coding	9.0	14.5	10.0	122.0	14.5	11.5	12.0	7.5
Merged-chr16-85099239-4	chr16	85099131	85099331	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 3 of 15)	intron (NM_001198825, intron 3 of 15)	74476.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	50.5	95.5	68.5	1451.5	106.5	37.0	75.5	67.0
Merged-chr15-99024878-3	chr15	99024776	99024976	+	726.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5015.0	NM_009448	22146.0	Mm.88212	NM_009448	ENSMUSG00000043091	Tuba1c	M[a]6|Tuba6	tubulin, alpha 1C	protein-coding	3.0	2.0	11.0	81.5	16.0	7.0	10.5	10.5
Merged-chr4-32239473-4	chr4	32239349	32239549	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-177986.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	41.0	55.0	81.0	905.5	78.0	24.0	43.5	55.0
Merged-chr2-25228712-4	chr2	25228543	25228743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_080854)	TTS (NM_080854)	-3941.0	NM_146116	227613.0	Mm.227260	NM_146116	ENSMUSG00000036752	Tubb4b	4930542G03Rik|Tubb2c|Tubb2c1	tubulin, beta 4B class IVB	protein-coding	34.0	69.0	44.0	455.0	73.5	37.5	34.5	37.5
Merged-chr15-80256009-4	chr15	80255899	80256099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009716, intron 1 of 2)	CpG	815.0	NM_009716	11911.0	Mm.641	NM_009716	ENSMUSG00000042406	Atf4	Atf-4|C/ATF|CREB2|TAXREB67	activating transcription factor 4	protein-coding	96.5	203.0	97.5	1320.0	280.5	119.0	107.5	100.5
Merged-chr8-75218130-4	chr8	75218028	75218228	+	886.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029182, intron 1 of 2)	intron (NM_029182, intron 1 of 2)	4184.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	16.5	5.0	14.5	331.0	21.0	9.0	18.0	15.5
Merged-chr15-72837558-3	chr15	72837438	72837638	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164641, intron 17 of 17)	intron (NM_001164641, intron 17 of 17)	-27214.0	NR_002864	353342.0	Mm.440245	NR_002864	ENSMUSG00000106847	Peg13	-	paternally expressed 13	ncRNA	25.0	41.5	26.5	300.5	70.5	15.0	22.0	20.0
Merged-chr10-111540180-4	chr10	111540069	111540269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33883.0	NM_009344	21664.0	Mm.3117	NM_009344	ENSMUSG00000020205	Phlda1	DT1P1B11|TDAG51|Tdag	pleckstrin homology like domain, family A, member 1	protein-coding	208.5	374.5	210.5	3509.5	620.5	222.0	232.5	218.0
Merged-chr19-53119457-4	chr19	53119358	53119558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20985.0	NM_001164099	27360.0	Mm.426080	NM_013758	ENSMUSG00000025026	Add3	AI463285|R75380	adducin 3 (gamma)	protein-coding	32.0	39.0	27.5	531.0	93.0	36.0	38.5	55.5
Merged-chr5-139345279-4	chr5	139345176	139345376	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_197980)	promoter-TSS (NM_197980)	-110.0	NM_197980	68033.0	Mm.261064	NM_197980	ENSMUSG00000045438	Cox19	1810074D02Rik|2810437L13Rik	cytochrome c oxidase assembly protein 19	protein-coding	57.5	144.5	63.5	919.0	164.0	61.0	76.5	56.5
Merged-chr17-87949228-4	chr17	87949164	87949364	+	778.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25786.0	NM_010830	17688.0	Mm.18210	NM_010830	ENSMUSG00000005370	Msh6	AU044881|AW550279|GTBP|Gtmbp	mutS homolog 6	protein-coding	10.0	14.0	8.5	65.0	11.0	2.0	5.0	6.5
Merged-chr17-5975843-3	chr17	5975732	5975932	+	984.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001113353, exon 2 of 27)	exon (NM_001113353, exon 2 of 27)	246.0	NM_011523	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	12.5	8.0	7.5	148.0	10.5	0.5	11.5	4.0
Merged-chr12-104836405-4	chr12	104836316	104836516	+	962.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040682, intron 1 of 12)	Lx7|LINE|L1	28660.0	NR_104436	94040.0	Mm.244078	NM_053155	ENSMUSG00000021097	Clmn	9330188N17Rik|AI428889|AI788815|mKIAA1188	calmin	protein-coding	9.5	23.0	21.0	378.0	42.0	4.5	29.5	20.0
Merged-chr5-64780980-4	chr5	64780876	64781076	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22547.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	101.5	59.0	54.0	1029.5	106.0	54.5	60.5	51.5
Merged-chr6-54946738-4	chr6	54946666	54946866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 3 of 11)	ORR1G|LTR|ERVL-MaLR	24895.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	84.5	94.0	75.0	1245.0	190.0	85.0	59.0	47.0
Merged-chr17-63493320-4	chr17	63493219	63493419	+	911.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015794, intron 1 of 8)	intron (NM_015794, intron 1 of 8)	7261.0	NM_015794	50758.0	Mm.136366	NM_015794	ENSMUSG00000023965	Fbxl17	6330576B01Rik|AI452053|BB073797|C130023C01Rik|Fbx13|Fbxo13	F-box and leucine-rich repeat protein 17	protein-coding	21.5	22.0	11.0	250.5	42.0	3.0	20.0	9.0
Merged-chr11-54972575-4	chr11	54972469	54972669	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9629.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	6.0	32.5	7.5	88.5	58.0	25.0	16.5	15.5
Merged-chr13-64257167-1	chr13	64257067	64257267	+	559.0	f0_balb.idr	intron (NR_045798, intron 1 of 2)	ORR1B1|LTR|ERVL-MaLR	8467.0	NR_045798	66503.0	Mm.443331	NR_045798	ENSMUSG00000097101	1810034E14Rik	-	RIKEN cDNA 1810034E14 gene	ncRNA	4.5	6.5	7.0	69.0	1.5	0.5	0.0	4.5
Merged-chr7-118652819-3	chr7	118652681	118652881	+	916.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028930, intron 8 of 17)	intron (NM_028930, intron 8 of 17)	19045.0	NM_028930	74424.0	Mm.11068	NM_028930	ENSMUSG00000030650	Tmc5	4932443L08Rik|AU016085	transmembrane channel-like gene family 5	protein-coding	3.0	8.5	8.5	30.5	17.0	14.0	13.5	10.0
Merged-chr8-83697539-4	chr8	83697434	83697634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177262, intron 1 of 21)	intron (NM_177262, intron 1 of 21)	1645.0	NM_177262	320795.0	Mm.213000	NM_177262	ENSMUSG00000057672	Pkn1	DBK|F730027O18Rik|PAK1|PRK1|Pkn|Prkcl1|Stk3	protein kinase N1	protein-coding	64.0	32.0	27.5	591.0	69.0	30.5	50.0	40.5
Merged-chr7-17024980-4	chr7	17024873	17025073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011155, intron 1 of 12)	intron (NM_011155, intron 1 of 12)	2941.0	NM_011155	19060.0	Mm.3294	NM_011155	ENSMUSG00000003099	Ppp5c	AU020526|PP5	protein phosphatase 5, catalytic subunit	protein-coding	50.0	65.0	68.5	1235.5	177.5	57.5	121.5	52.5
Merged-chr3-96557880-4	chr3	96557799	96557999	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023719)	promoter-TSS (NM_023719)	-58.0	NM_023719	56338.0	Mm.410189	NM_023719	ENSMUSG00000038393	Txnip	1200008J08Rik|AA682105|Hyplip1|THIF|Tbp-2|VDUP1	thioredoxin interacting protein	protein-coding	182.5	337.5	170.0	2198.0	452.0	190.5	202.5	189.0
Merged-chr2-66132104-3	chr2	66131996	66132196	+	961.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7303.0	NM_015736	14425.0	Mm.439760	NM_015736	ENSMUSG00000026994	Galnt3	-	polypeptide N-acetylgalactosaminyltransferase 3	protein-coding	7.0	9.5	29.0	431.0	17.5	8.5	11.0	10.5
Merged-chr4-48043429-4	chr4	48043253	48043453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1952.0	NM_015743	18124.0	Mm.247261	NM_015743	ENSMUSG00000028341	Nr4a3	AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC	nuclear receptor subfamily 4, group A, member 3	protein-coding	386.0	490.0	431.5	5304.0	893.0	363.0	472.5	395.5
Merged-chr5-36757255-4	chr5	36757153	36757353	+	765.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8574.0	NM_133724	117197.0	Mm.46744	NM_133724	ENSMUSG00000060708	Bloc1s4	2610101N07Rik|Blos4|Cno	biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino	protein-coding	7.5	15.5	8.5	93.0	24.0	16.0	8.5	10.5
Merged-chr17-51178738-4	chr17	51178629	51178829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 1 of 21)	CpG	623.0	NM_028162	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	74.5	108.5	96.5	1349.5	214.0	92.0	124.5	68.0
Merged-chr10-80676534-4	chr10	80676378	80676578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021462)	promoter-TSS (NM_021462)	-185.0	NM_021462	17347.0	Mm.42126	NM_021462	ENSMUSG00000020190	Mknk2	2010016G11Rik|Gprk7|Mnk2	MAP kinase-interacting serine/threonine kinase 2	protein-coding	313.0	528.0	200.5	3490.5	825.5	426.0	321.0	356.0
Merged-chr17-24720781-4	chr17	24720695	24720895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027900)	promoter-TSS (NR_027900)	6.0	NR_002897	104366.0	Mm.157452	NR_002897	ENSMUSG00000077709	Snora64	MBI-29|Rnu64	small nucleolar RNA, H/ACA box 64	snoRNA	24.0	38.0	20.5	233.0	48.0	11.0	18.0	8.0
Merged-chr16-56726858-3	chr16	56726773	56726973	+	715.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172825, intron 15 of 15)	L1MEf|LINE|L1	-9423.0	NM_001357126	21787.0	Mm.425970	NM_019678	ENSMUSG00000022757	Tfg	AI173908	Trk-fused gene	protein-coding	7.0	4.5	5.0	128.0	17.5	0.5	7.0	11.0
Merged-chr13-63566368-4	chr13	63566295	63566495	+	980.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008957)	promoter-TSS (NM_008957)	-660.0	NM_008957	19206.0	Mm.228798	NM_008957	ENSMUSG00000021466	Ptch1	A230106A15Rik|Ptc|Ptc1|Ptch|mes|wig	patched 1	protein-coding	15.0	22.5	11.5	380.0	62.0	30.0	21.5	26.5
Merged-chr2-153263233-4	chr2	153263147	153263347	+	848.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080463, intron 6 of 6)	intron (NM_080463, intron 6 of 6)	21715.0	NM_080463	140484.0	Mm.293761	NM_080463	ENSMUSG00000046020	Pofut1	O-FucT-1|mKIAA0180	protein O-fucosyltransferase 1	protein-coding	15.5	28.5	8.5	89.5	22.5	12.0	15.0	10.0
Merged-chr16-93683152-4	chr16	93683029	93683229	+	983.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173047)	promoter-TSS (NM_173047)	-90.0	NM_173047	109857.0	Mm.4512	NM_173047	ENSMUSG00000022947	Cbr3	1110001J05Rik|C81353	carbonyl reductase 3	protein-coding	21.5	39.5	23.5	345.0	48.0	10.5	25.0	28.5
Merged-chr7-24373563-2	chr7	24373474	24373674	+	840.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001163510, intron 1 of 8)	intron (NM_001163510, intron 1 of 8)	3311.0	NM_008433	16534.0	Mm.9911	NM_008433	ENSMUSG00000054342	Kcnn4	IK1|IKCA1|KCA4|KCa3.1|SK4|SKCas|mIKCa1	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	protein-coding	5.0	0.0	6.0	41.0	16.0	9.5	7.0	8.0
Merged-chr17-88066127-4	chr17	88066036	88066236	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081034)	promoter-TSS (NM_001081034)	-845.0	NM_001081034	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	200.0	329.0	226.5	3258.5	593.0	252.5	304.5	237.0
Merged-chr6-124790274-3	chr6	124790176	124790376	+	794.383362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR12BD_Mm|LTR|ERVK	-10549.0	NM_001302555	16977.0	Mm.3207	NM_013588	ENSMUSG00000030125	Lrrc23	4921537K05Rik|B7|Lrpb7	leucine rich repeat containing 23	protein-coding	20.0	16.0	7.0	146.0	24.0	2.0	7.0	5.0
Merged-chr13-106813395-4	chr13	106813408	106813608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360897, intron 29 of 30)	intron (NM_001360897, intron 29 of 30)	123450.0	NM_001360897	76582.0	Mm.132208	NM_029665	ENSMUSG00000042590	Ipo11	1700081H05Rik|2510001A17Rik|AI314624|AW555235|E330021B14Rik|Ranbp11	importin 11	protein-coding	35.5	40.0	40.0	555.0	51.0	25.0	26.0	19.5
Merged-chr6-15764326-4	chr6	15764237	15764437	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	43676.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	6.5	17.0	13.0	203.0	52.5	9.5	17.5	15.5
Merged-chr11-83663200-1	chr11	83663100	83663300	+	564.0	f0_balb.idr	intron (NM_013652, intron 1 of 2)	B2_Mm2|SINE|B2	616.0	NM_013652	20303.0	Mm.244263	NM_013652	ENSMUSG00000018930	Ccl4	AT744.1|Act-2|MIP-1B|Mip1b|Scya4	chemokine (C-C motif) ligand 4	protein-coding	7.0	30.5	15.0	34.0	37.5	7.5	3.5	6.0
Merged-chr10-93791264-3	chr10	93791174	93791374	+	696.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	-40281.0	NM_001206851	327799.0	Mm.491598	NM_183199	ENSMUSG00000020020	Usp44	E430004F17Rik	ubiquitin specific peptidase 44	protein-coding	0.0	0.0	0.0	0.0	23.5	5.0	10.0	22.5
Merged-chr3-96670188-4	chr3	96670076	96670276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081139)	promoter-TSS (NM_001081139)	45.0	NM_001356540	213121.0	Mm.39732	NM_001081139	ENSMUSG00000038354	Ankrd35	4732436F15Rik	ankyrin repeat domain 35	protein-coding	35.5	49.5	26.0	475.0	229.0	74.0	110.0	88.0
Merged-chr6-100214765-4	chr6	100214663	100214863	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	G-rich|Low_complexity|Low_complexity	72595.0	NM_019743	56353.0	Mm.321633	NM_019743	ENSMUSG00000072872	Rybp	2410018J24Rik|DEDAF|YEAF1	RING1 and YY1 binding protein	protein-coding	27.5	28.5	36.0	556.0	67.0	27.5	29.5	41.5
Merged-chr19-32762650-4	chr19	32762528	32762728	+	884.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008960, intron 1 of 8)	intron (NM_008960, intron 1 of 8)	5051.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	8.0	6.0	8.0	169.0	9.5	4.0	15.0	22.0
Merged-chr17-87639450-3	chr17	87639372	87639572	+	818.916687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008532, intron 2 of 9)	intron (NM_008532, intron 2 of 9)	3493.0	NM_008532	17075.0	Mm.4259	NM_008532	ENSMUSG00000045394	Epcam	CD326|EGP|EGP-2|Egp314|Ep-CAM|EpCAM1|GA733-2|Ly74|TROP1|Tacsd1|Tacstd1|gp40	epithelial cell adhesion molecule	protein-coding	11.5	16.0	4.5	126.5	13.0	4.0	6.5	2.5
Merged-chr17-85458226-3	chr17	85458117	85458317	+	791.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028576, exon 11 of 11)	3' UTR (NM_028576, exon 11 of 11)	160179.0	NR_038084	100043902.0	Mm.150838	NR_015385	ENSMUSG00000093460	Six3os1	D17Mgi26|E130112H22Rik|Rncr1|Six3os	SIX homeobox 3, opposite strand 1	ncRNA	19.0	7.5	16.0	209.0	4.5	7.5	3.0	0.5
Merged-chr7-99535652-4	chr7	99535528	99535728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_177231, exon 1 of 16)	5' UTR (NM_177231, exon 1 of 16)	142.0	NM_177231	109689.0	Mm.260193	NM_177231	ENSMUSG00000018909	Arrb1	1200006I17Rik|AW208571|G430100A01Rik	arrestin, beta 1	protein-coding	64.5	113.5	55.5	512.0	148.0	67.5	63.0	64.5
Merged-chr2-129309216-4	chr2	129309111	129309311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010554, intron 1 of 6)	intron (NM_010554, intron 1 of 6)	761.0	NM_010554	16175.0	Mm.15534	NM_010554	ENSMUSG00000027399	Il1a	Il-1a	interleukin 1 alpha	protein-coding	39.0	134.5	49.5	813.5	166.5	69.0	55.0	94.5
Merged-chr3-52179997-3	chr3	52179922	52180122	+	825.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-75016.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	6.0	7.5	13.0	113.0	17.0	2.5	6.0	2.0
Merged-chr19-11045181-4	chr19	11045084	11045284	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5382.0	NR_102366	107350.0	Mm.6381	NM_001177351	ENSMUSG00000075010	AW112010	-	expressed sequence AW112010	ncRNA	50.0	46.0	34.5	471.0	90.0	35.0	62.5	29.5
Merged-chr11-22857287-4	chr11	22857168	22857368	+	989.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001169114, intron 1 of 1)	intron (NM_001169114, intron 1 of 1)	2467.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	20.5	28.5	19.5	557.5	54.5	24.0	27.5	16.0
Merged-chr3-88754468-3	chr3	88754384	88754584	+	903.5833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018804, intron 2 of 3)	B3A|SINE|B2	18115.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	10.0	24.5	6.5	160.0	37.0	6.5	4.0	5.0
Merged-chr15-100678742-4	chr15	100678650	100678850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033612, intron 6 of 7)	intron (NM_033612, intron 6 of 7)	9170.0	NM_033612	109901.0	Mm.2131	NM_033612	ENSMUSG00000023031	Cela1	1810009A17Rik|1810062B19Rik|Ela-1|Ela1|PC-TsF	chymotrypsin-like elastase family, member 1	protein-coding	49.5	64.0	52.0	802.5	141.5	49.5	62.0	57.5
Merged-chr15-59076476-4	chr15	59076369	59076569	+	809.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144800, intron 1 of 14)	intron (NM_144800, intron 1 of 14)	5557.0	NM_001146180	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	12.5	15.0	27.0	426.5	19.0	16.0	8.5	24.0
Merged-chr18-56708347-4	chr18	56708232	56708432	+	978.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010721, exon 1 of 11)	exon (NM_010721, exon 1 of 11)	519.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	12.0	18.0	22.5	169.5	26.5	16.5	22.0	17.5
Merged-chr2-124928559-4	chr2	124928464	124928664	+	960.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139563.0	NM_175034	317750.0	Mm.330538	NM_175034	ENSMUSG00000035183	Slc24a5	F630045L20Rik|JSX|NCKX5|NCX5|Oca6	solute carrier family 24, member 5	protein-coding	14.5	33.5	30.5	254.0	39.5	12.5	12.5	15.0
Merged-chr11-106146503-4	chr11	106146405	106146605	+	807.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011947, intron 8 of 15)	intron (NM_011947, intron 8 of 15)	13422.0	NM_001356459	67803.0	Mm.21687	NM_172397	ENSMUSG00000040699	Limd2	0610025L06Rik|AI413966	LIM domain containing 2	protein-coding	15.5	13.5	3.0	69.0	38.0	6.0	10.5	7.5
Merged-chr12-40486653-4	chr12	40486571	40486771	+	780.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	40618.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	11.0	18.0	8.5	149.0	22.5	16.5	11.5	3.0
Merged-chr6-108783700-4	chr6	108783584	108783784	+	994.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026011, intron 1 of 6)	CpG	625.0	NM_026011	67166.0	Mm.271178	NM_026011	ENSMUSG00000030105	Arl8b	2610313E07Rik|3100002J04Rik|Arl10c|gie1	ADP-ribosylation factor-like 8B	protein-coding	18.0	19.5	28.0	325.5	44.5	18.0	26.5	26.5
Merged-chr15-99973206-1	chr15	99973106	99973306	+	1000.0	f0_balb.idr	promoter-TSS (NR_028124)	promoter-TSS (NR_028124)	81.0	NR_028124	70281.0	Mm.484037	NR_028124	ENSMUSG00000100084	2310068J16Rik	-	RIKEN cDNA 2310068J16 gene	ncRNA	35.5	50.5	52.5	466.0	78.5	38.5	37.5	38.0
Merged-chr10-14131249-4	chr10	14131179	14131379	+	963.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010437, exon 4 of 9)	exon (NM_010437, exon 4 of 9)	164900.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	12.5	22.5	29.0	350.5	32.5	11.0	15.0	18.0
Merged-chr15-36763896-3	chr15	36763796	36763996	+	879.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	27036.0	NM_001253807	22631.0	Mm.3360	NM_011740	ENSMUSG00000022285	Ywhaz	1110013I11Rik|14-3-3zeta|AI596267|AL022924|AU020854	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide	protein-coding	2.0	7.0	3.5	63.0	25.5	6.0	11.5	9.5
Merged-chr17-69177264-4	chr17	69177143	69177343	+	974.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	17887.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	13.0	18.5	21.5	313.5	43.0	12.5	16.5	23.0
Merged-chr18-78021407-4	chr18	78021315	78021515	+	961.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195633, intron 36 of 43)	intron (NM_001195633, intron 36 of 43)	35853.0	NM_001101038	620235.0	Mm.35607	NM_001101038	ENSMUSG00000091055	Siglec15	Cd33l3|EG620235|SIGLEC-I	sialic acid binding Ig-like lectin 15	protein-coding	10.5	24.5	41.5	448.5	62.5	14.5	42.0	38.0
Merged-chr3-14871614-3	chr3	14871520	14871720	+	934.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007606, exon 7 of 7)	exon (NM_007606, exon 7 of 7)	8082.0	NM_007606	12350.0	Mm.300	NM_007606	ENSMUSG00000027559	Car3	BB219044|Ca3|Car-3	carbonic anhydrase 3	protein-coding	9.0	9.5	27.0	234.5	8.0	6.0	0.5	4.5
Merged-chr1-134060993-4	chr1	134060908	134061108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18147.0	NM_007570	12227.0	Mm.392646	NM_007570	ENSMUSG00000020423	Btg2	AA959598|APRO1|Pc3|TIS21	B cell translocation gene 2, anti-proliferative	protein-coding	68.0	55.5	61.5	880.0	123.0	34.0	61.0	34.0
Merged-chr19-53529777-4	chr19	53529650	53529850	+	977.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085390, intron 1 of 3)	intron (NM_001085390, intron 1 of 3)	432.0	NM_001085390	240672.0	Mm.482424	NM_001085390	ENSMUSG00000034765	Dusp5	Gm337	dual specificity phosphatase 5	protein-coding	28.0	40.5	31.5	408.5	31.5	15.0	14.5	16.5
Merged-chr15-25321804-4	chr15	25321715	25321915	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	91949.0	NM_027395	70350.0	Mm.29586	NM_027395	ENSMUSG00000045763	Basp1	2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22	brain abundant, membrane attached signal protein 1	protein-coding	70.5	88.5	73.0	1385.5	178.5	44.5	83.0	66.0
Merged-chr13-63253365-4	chr13	63253255	63253455	+	974.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 13 of 15)	intron (NM_001289926, intron 13 of 15)	13326.0	NR_110521	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	16.0	24.5	19.0	503.0	56.5	18.5	24.0	12.0
Merged-chr5-3224056-3	chr5	3223954	3224154	+	771.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-119839.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	13.0	15.0	7.0	102.0	22.0	7.0	7.5	9.0
Merged-chr14-73222723-4	chr14	73222620	73222820	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 17 of 26)	intron (NM_009029, intron 17 of 26)	-15171.0	NM_175116	67168.0	Mm.390681	NM_175116	ENSMUSG00000033446	Lpar6	2610302I02Rik|P2ry5|P2y5	lysophosphatidic acid receptor 6	protein-coding	142.5	243.5	245.5	2413.5	264.5	109.0	110.5	120.5
Merged-chr7-104369940-4	chr7	104369851	104370051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11305.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	72.5	76.5	60.0	972.5	246.5	59.5	73.5	74.0
Merged-chr3-116251748-4	chr3	116251647	116251847	+	866.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_022427, exon 2 of 2)	exon (NM_022427, exon 2 of 2)	1737.0	NM_022427	64378.0	Mm.40025	NM_022427	ENSMUSG00000068696	Gpr88	AW061286|Strg	G-protein coupled receptor 88	protein-coding	14.0	13.0	12.0	267.5	21.5	4.0	7.0	20.5
Merged-chr9-88548158-5	chr9	88548095	88548295	+	905.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001142943, exon 1 of 6)	5' UTR (NM_001142943, exon 1 of 6)	175.0	NM_001142943	71640.0	Mm.259988	NM_001142943	ENSMUSG00000032425	Zfp949	4930422I07Rik|Nczf	zinc finger protein 949	protein-coding	15.5	19.0	12.5	114.0	23.0	5.0	10.0	6.5
Merged-chr16-12089856-4	chr16	12089752	12089952	+	777.216675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028277, intron 2 of 4)	intron (NM_028277, intron 2 of 4)	105739.0	NM_001174086	72555.0	Mm.310139	NM_028277	ENSMUSG00000022494	Shisa9	2700045P11Rik|Ckamp44	shisa family member 9	protein-coding	9.5	12.0	9.0	127.5	26.0	10.0	14.5	12.0
Merged-chr5-36485449-5	chr5	36485328	36485528	+	846.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025725, exon 1 of 1)	exon (NM_025725, exon 1 of 1)	840.0	NM_025725	66717.0	Mm.42368	NM_025725	ENSMUSG00000050677	Ccdc96	4921513E08Rik	coiled-coil domain containing 96	protein-coding	6.5	5.5	8.5	93.0	21.5	8.0	11.5	21.0
Merged-chr15-51955824-4	chr15	51955731	51955931	+	692.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35929.0	NM_009009	19357.0	Mm.182628	NM_009009	ENSMUSG00000022314	Rad21	SCC1|mKIAA0078	RAD21 cohesin complex component	protein-coding	7.5	4.5	8.5	111.5	20.0	5.0	9.0	15.5
Merged-chr5-77310415-2	chr5	77310322	77310522	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_153798)	promoter-TSS (NM_153798)	-62.0	NM_153798	231329.0	Mm.273217	NM_153798	ENSMUSG00000029250	Polr2b	Pol2rb|Rpb140|Rpb2	polymerase (RNA) II (DNA directed) polypeptide B	protein-coding	80.5	137.0	64.5	1285.5	220.5	108.5	109.5	99.5
Merged-chr4-66816679-4	chr4	66816517	66816717	+	908.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-10934.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	5.5	13.5	15.5	211.5	11.0	10.0	14.0	3.5
Merged-chr19-40671418-3	chr19	40671294	40671494	+	844.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009848, intron 1 of 9)	intron (NM_009848, intron 1 of 9)	11624.0	NM_009848	12495.0	Mm.2824	NM_009848	ENSMUSG00000048120	Entpd1	2610206B08Rik|AA408691|Cd39|NTPDase-1	ectonucleoside triphosphate diphosphohydrolase 1	protein-coding	15.0	7.0	8.0	95.0	16.5	1.0	8.5	4.5
Merged-chr3-123267977-4	chr3	123267892	123268092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027135, intron 1 of 22)	CpG	496.0	NM_027135	69608.0	Mm.29293	NM_027135	ENSMUSG00000039234	Sec24d	2310020L09Rik|Gm1349	Sec24 related gene family, member D (S. cerevisiae)	protein-coding	51.5	45.5	84.0	936.0	99.5	50.0	41.5	66.0
Merged-chr11-20401017-4	chr11	20400901	20401101	+	777.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68288.0	NM_018861	55963.0	Mm.6379	NM_018861	ENSMUSG00000020142	Slc1a4	ASCT-1|ASCT1|AW045657|SATT	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	protein-coding	14.5	11.5	10.5	207.0	22.0	8.0	6.0	7.0
Merged-chr4-135203420-4	chr4	135203328	135203528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	69332.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	74.0	163.0	136.0	1275.0	257.5	69.5	110.5	76.0
Merged-chr5-125388639-3	chr5	125388597	125388797	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019639, intron 1 of 1)	PB1D9|SINE|Alu	1320.0	NM_019639	22190.0	Mm.331	NM_019639	ENSMUSG00000008348	Ubc	2700054O04Rik|AI194771|Rps27a|TI-225|Uba52|Ubb	ubiquitin C	protein-coding	56.5	100.0	39.0	569.0	134.5	66.0	46.5	43.5
Merged-chr4-129818899-4	chr4	129818845	129819045	+	975.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1534.0	NM_008974	19244.0	Mm.193688	NM_008974	ENSMUSG00000028788	Ptp4a2	Prl-2	protein tyrosine phosphatase 4a2	protein-coding	15.5	12.0	17.0	269.0	32.5	4.0	5.0	20.5
Merged-chr11-60900667-3	chr11	60900600	60900800	+	752.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13092.0	NM_025294	24083.0	Mm.22780	NM_025294	ENSMUSG00000018931	Natd1	AI256713|F3-2|Gm16515|Gtlf3b	N-acetyltransferase domain containing 1	protein-coding	5.5	9.0	10.5	180.5	17.5	5.5	7.0	4.0
Merged-chr8-46627542-3	chr8	46627429	46627629	+	795.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001284409, intron 1 of 6)	intron (NM_001284409, intron 1 of 6)	10238.0	NM_009810	12367.0	Mm.34405	NM_009810	ENSMUSG00000031628	Casp3	A830040C14Rik|AC-3|CASP-3|CC3|CPP-32|CPP32|Caspase-3|Lice|SCA-1|Yama|mldy	caspase 3	protein-coding	11.5	12.5	4.0	185.5	9.5	5.5	8.5	5.0
Merged-chr13-112396759-4	chr13	112396642	112396842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-67328.0	NM_010560	16195.0	Mm.4364	NM_010560	ENSMUSG00000021756	Il6st	5133400A03Rik|AA389424|BB405851|CD130|D13Ertd699e|gp130	interleukin 6 signal transducer	protein-coding	27.0	28.5	23.0	272.0	53.5	31.5	20.0	34.5
Merged-chr4-56865296-4	chr4	56865202	56865402	+	866.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018761)	promoter-TSS (NM_018761)	-91.0	NM_018761	54366.0	Mm.218891	NM_018761	ENSMUSG00000038816	Ctnnal1	ACRP|AI616177|AW545119|C86009|Catnal1	catenin (cadherin associated protein), alpha-like 1	protein-coding	8.0	12.5	13.0	235.0	27.0	8.0	15.0	14.5
Merged-chr12-3423892-4	chr12	3423790	3423990	+	798.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030694, intron 1 of 2)	RMER17C2|LTR|ERVK	2857.0	NR_030694	100043040.0	Mm.415417	NR_030694	ENSMUSG00000071456	1110002L01Rik	-	RIKEN cDNA 1110002L01 gene	ncRNA	13.5	22.0	7.5	89.0	24.0	8.0	7.0	8.0
Merged-chr15-81831616-4	chr15	81831518	81831718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20204.0	NM_017376	21685.0	Mm.270278	NM_017376	ENSMUSG00000022389	Tef	2310028D20Rik	thyrotroph embryonic factor	protein-coding	64.0	98.0	37.0	875.5	135.0	56.5	74.0	77.5
Merged-chr5-124112090-7	chr5	124112002	124112202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025671)	promoter-TSS (NM_025671)	-219.0	NM_001361482	66627.0	Mm.7050	NM_025671	ENSMUSG00000023707	Ogfod2	1300006G11Rik|5730405M13Rik|AU041636|AW552395	2-oxoglutarate and iron-dependent oxygenase domain containing 2	protein-coding	63.5	118.5	89.5	703.0	135.0	102.5	74.5	78.5
Merged-chr18-36019068-3	chr18	36018967	36019167	+	807.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167891, intron 9 of 9)	intron (NM_001167891, intron 9 of 9)	54237.0	NR_110349	74002.0	Mm.196944	NM_028707	ENSMUSG00000024347	Psd2	6330404E20Rik|AW125584|EFA6C	pleckstrin and Sec7 domain containing 2	protein-coding	6.5	4.5	6.0	95.5	16.0	8.5	7.5	12.5
Merged-chr11-16986783-5	chr11	16986755	16986955	+	938.042847	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019549, intron 6 of 9)	intron (NM_019549, intron 6 of 9)	21863.0	NM_019549	56193.0	Mm.98232	NM_019549	ENSMUSG00000020120	Plek	2010300B13Rik	pleckstrin	protein-coding	4.5	9.0	8.0	46.0	22.5	9.5	6.0	5.5
Merged-chr10-15294322-3	chr10	15294192	15294392	+	849.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-497485.0	NR_131087	77538.0	Mm.128235	NR_131087	ENSMUSG00000112227	C330004P14Rik	-	RIKEN cDNA C330004P14 gene	ncRNA	8.0	12.5	2.0	63.5	23.5	4.5	6.5	7.0
Merged-chr4-48407496-3	chr4	48407394	48407594	+	784.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001281978, intron 13 of 18)	B1_Mus1|SINE|Alu	65969.0	NM_172304	269536.0	Mm.272025	NM_172304	ENSMUSG00000028345	Tex10	2610206N19Rik|2810462N03Rik|BC006867	testis expressed gene 10	protein-coding	0.5	8.5	10.0	52.5	24.0	4.5	5.0	9.5
Merged-chr3-104856276-1	chr3	104856176	104856376	+	651.0	f0_balb.idr	intron (NM_009797, intron 1 of 9)	ORR1B2|LTR|ERVL-MaLR	8229.0	NM_009797	12340.0	Mm.19142	NM_009797	ENSMUSG00000070372	Capza1	CAPZ|CAZ1|Cappa1|capZ alpha-1	capping protein (actin filament) muscle Z-line, alpha 1	protein-coding	3.5	6.0	6.5	133.0	11.5	6.5	7.0	15.0
Merged-chr11-114745355-4	chr11	114745265	114745465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001034878, intron 8 of 12)	intron (NM_001034878, intron 8 of 12)	17953.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	48.5	61.5	32.5	695.0	135.0	57.5	61.5	41.0
Merged-chr11-43426249-4	chr11	43426166	43426366	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013917)	promoter-TSS (NM_013917)	-18.0	NM_001131054	30939.0	Mm.6856	NM_013917	ENSMUSG00000020415	Pttg1	AW555095|C87862|Pttg|Pttg3	pituitary tumor-transforming gene 1	protein-coding	60.0	61.0	64.5	805.0	190.0	62.0	115.0	64.0
Merged-chr7-75645737-3	chr7	75645683	75645883	+	800.266663	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 8 of 36)	intron (NM_029332, intron 8 of 36)	190249.0	NM_029332	75547.0	Mm.216107	NM_029332	ENSMUSG00000066406	Akap13	1700026G02Rik|5730522G15Rik|5830460E08Rik|AKAP-13|AKAP-Lbc|BRX|Ht31|LBC|PROTO-LB|PROTO-LBC	A kinase (PRKA) anchor protein 13	protein-coding	7.0	15.5	28.5	290.5	8.0	1.0	2.5	2.5
Merged-chr1-24676871-1	chr1	24676771	24676971	+	567.5	f0_balb.idr	Intergenic	Intergenic	-1673.0	NM_026719	68421.0	Mm.336563	NM_026719	ENSMUSG00000073725	Lmbrd1	0910001K20Rik|AV347960	LMBR1 domain containing 1	protein-coding	10.0	8.0	5.0	76.0	14.5	8.0	5.5	9.0
Merged-chr9-75549202-3	chr9	75549093	75549293	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357828, intron 1 of 10)	intron (NM_001357828, intron 1 of 10)	10464.0	NM_016963	50875.0	Mm.38445	NM_016963	ENSMUSG00000058587	Tmod3	U-Tmod|UTMOD	tropomodulin 3	protein-coding	2.5	0.0	1.5	24.5	141.0	55.5	59.0	51.5
Merged-chr11-80183860-4	chr11	80183771	80183971	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028019)	promoter-TSS (NM_028019)	-1.0	NM_028019	71956.0	Mm.22985	NM_028019	ENSMUSG00000020707	Rnf135	0610037N03Rik|2410006N06Rik	ring finger protein 135	protein-coding	56.5	62.5	33.5	473.0	105.5	42.5	53.0	28.0
Merged-chr7-116446886-4	chr7	116446777	116446977	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3419.0	NM_011083	18704.0	Mm.3810	NM_011083	ENSMUSG00000030660	Pik3c2a	Cpk-m|PI3KC2	phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha	protein-coding	161.0	215.5	162.0	2772.5	339.5	139.0	192.5	158.5
Merged-chr16-4630138-4	chr16	4630014	4630214	+	864.404175	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030205, intron 23 of 27)	intron (NM_030205, intron 23 of 27)	-5168.0	NM_025571	66449.0	Mm.354760	NM_025571	ENSMUSG00000014301	Pam16	2010110I09Rik|AV006767|CGI-136|Magmas|Tim16|Timm16	presequence translocase-asssociated motor 16 homolog (S. cerevisiae)	protein-coding	12.5	16.5	10.5	81.5	41.0	10.0	15.5	9.0
Merged-chr3-88335907-1	chr3	88335807	88336007	+	890.6666869999999	f0_balb.idr	promoter-TSS (NM_178246)	promoter-TSS (NM_178246)	-353.0	NM_178246	229512.0	Mm.439830	NM_173188	ENSMUSG00000001415	Smg5	BC024683|mKIAA1089	Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans)	protein-coding	13.0	31.0	9.0	116.0	17.5	10.0	9.5	11.0
Merged-chr2-6284889-4	chr2	6284768	6284968	+	882.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 4 of 6)	intron (NR_040333, intron 4 of 6)	-37889.0	NM_001080548	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	15.5	18.5	29.0	496.0	21.0	10.0	16.0	13.5
Merged-chr13-60627629-1	chr13	60627529	60627729	+	774.0	f0_c57.idr	intron (NM_134062, intron 2 of 26)	B4A|SINE|B4	25418.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	11.5	11.5	5.5	125.0	18.0	13.5	17.5	16.0
Merged-chr4-156067740-4	chr4	156067642	156067842	+	984.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7940.0	NR_132444	100415901.0	Mm.437006	NR_132444	ENSMUSG00000086549	Gm13648	-	predicted gene 13648	ncRNA	16.5	36.5	18.0	166.0	49.0	13.5	16.5	10.0
Merged-chr7-132788003-3	chr7	132787895	132788095	+	846.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	-1060.0	NM_175268	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	4.5	20.5	7.0	159.0	20.5	0.0	3.0	2.5
Merged-chr6-117277040-3	chr6	117276940	117277140	+	854.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108505.0	NM_021704	20315.0	Mm.303231	NM_013655	ENSMUSG00000061353	Cxcl12	Pbsf|Scyb12|Sdf1|Tlsf|Tpar1	chemokine (C-X-C motif) ligand 12	protein-coding	6.0	5.0	7.5	81.0	10.0	1.0	11.5	4.0
Merged-chr3-122498098-3	chr3	122497979	122498179	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355264, intron 1 of 9)	intron (NM_001355264, intron 1 of 9)	14510.0	NM_001355264	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	7.0	16.5	5.5	204.0	11.0	0.5	7.0	7.0
Merged-chr2-32495480-4	chr2	32495378	32495578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39881.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	40.5	36.5	57.5	725.5	123.0	22.5	38.0	56.5
Merged-chr7-72238817-2	chr7	72238717	72238917	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001024703, intron 4 of 22)	intron (NM_001024703, intron 4 of 22)	67778.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	5.0	4.5	7.0	36.0	6.0	0.0	2.5	1.5
Merged-chr13-73765438-4	chr13	73765336	73765536	+	938.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360694, intron 1 of 24)	intron (NM_001360694, intron 1 of 24)	1739.0	NM_011390	20499.0	Mm.275800	NM_011390	ENSMUSG00000017756	Slc12a7	AA408796|D13Ertd261e|Kcc4	solute carrier family 12, member 7	protein-coding	23.5	15.5	10.5	497.5	33.5	12.0	20.0	20.0
Merged-chr14-55105744-4	chr14	55105616	55105816	+	767.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007455, intron 2 of 21)	PB1D9|SINE|Alu	877.0	NM_001303502	11766.0	Mm.238879	NM_007455	ENSMUSG00000040701	Ap1g2	Adtg2|G2ad	adaptor protein complex AP-1, gamma 2 subunit	protein-coding	14.5	13.0	11.0	40.5	29.0	10.5	21.5	7.0
Merged-chr5-137116233-4	chr5	137116144	137116344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_201373)	promoter-TSS (NM_201373)	-37.0	NM_201373	384309.0	Mm.100647	NM_201373	ENSMUSG00000043279	Trim56	A130009K11Rik|Gm452|RNF109	tripartite motif-containing 56	protein-coding	39.0	60.5	26.0	462.5	94.0	30.5	49.0	37.5
Merged-chr12-85532742-4	chr12	85532661	85532861	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58871.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	93.0	115.0	112.5	1410.0	183.0	99.0	108.0	98.5
Merged-chr6-4988784-1	chr6	4988684	4988884	+	592.333313	f0_balb.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	85464.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	5.5	6.0	11.5	73.0	2.5	2.0	5.0	6.0
Merged-chr13-31507021-3	chr13	31506914	31507114	+	916.8777470000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51156.0	NM_008239	15220.0	Mm.44235	NM_008239	ENSMUSG00000038415	Foxq1	HFH-1|Hfh1|Hfh1l|sa	forkhead box Q1	protein-coding	11.5	35.5	18.5	128.5	13.0	7.5	5.5	8.0
Merged-chr13-21721952-4	chr13	21721873	21722073	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178200)	promoter-TSS (NM_178200)	-71.0	NM_178200	319186.0	Mm.277425	NM_178200	ENSMUSG00000114279	Hist1h2bm	H2b-291b	histone cluster 1, H2bm	protein-coding	165.5	168.0	217.0	2818.5	375.0	150.0	176.5	152.0
Merged-chr10-99133482-4	chr10	99133421	99133621	+	868.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153333, intron 4 of 12)	intron (NR_153333, intron 4 of 12)	25386.0	NM_015737	14426.0	Mm.314	NM_015737	ENSMUSG00000090035	Galnt4	AV011803	polypeptide N-acetylgalactosaminyltransferase 4	protein-coding	5.5	14.5	7.0	296.0	21.0	9.0	11.0	12.5
Merged-chr11-69012036-2	chr11	69011936	69012136	+	547.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR19|LTR|ERVK	-3576.0	NM_001159519	237823.0	Mm.340288	NM_001159519	ENSMUSG00000020899	Pfas	4432409B16Rik|FGAMS|FGAR-AT|FGARAT|Gm18|PURL|Sofa	phosphoribosylformylglycinamidine synthase (FGAR amidotransferase)	protein-coding	5.0	5.0	6.0	16.0	2.5	6.0	2.5	4.0
Merged-chr17-5728343-4	chr17	5728237	5728437	+	926.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 7 of 8)	MTC|LTR|ERVL-MaLR	-70320.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	10.5	24.0	24.0	460.0	69.5	12.0	23.5	25.0
Merged-chr10-62886117-4	chr10	62886003	62886203	+	821.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253857, intron 1 of 12)	PB1D9|SINE|Alu	1221.0	NM_001253857	52463.0	Mm.17774	NM_027384	ENSMUSG00000047146	Tet1	2510010B09Rik|AA517754|BB001228|Cxxc6|D10Ertd17e|LCX|mKIAA1676	tet methylcytosine dioxygenase 1	protein-coding	7.5	10.5	10.5	103.5	20.0	10.5	9.5	20.0
Merged-chr3-148982528-4	chr3	148982486	148982686	+	965.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27951.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	28.5	53.0	41.0	809.5	28.0	9.0	14.0	6.5
Merged-chr12-85973733-4	chr12	85973621	85973821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347395, intron 29 of 32)	intron (NM_001347395, intron 29 of 32)	105320.0	NM_009368	21809.0	Mm.3992	NM_009368	ENSMUSG00000021253	Tgfb3	TGF-beta-3|Tgfb-3	transforming growth factor, beta 3	protein-coding	52.0	38.5	79.5	1482.5	66.0	17.5	69.5	50.0
Merged-chr17-21517058-4	chr17	21517112	21517312	+	985.0714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18327.0	NM_144515	22710.0	Mm.296100	NM_144515	ENSMUSG00000051341	Zfp52	KRAB11|Zfp-52|Zfp76|mszf23-2|mszf24|mszf34|mszf75|zfec29	zinc finger protein 52	protein-coding	8.0	5.5	16.0	77.5	17.5	8.0	8.0	7.0
Merged-chr18-66453552-4	chr18	66453429	66453629	+	997.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	-5075.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	11.0	29.0	21.5	339.5	77.5	21.5	35.0	37.5
Merged-chr5-123133574-4	chr5	123133447	123133647	+	922.283325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175092)	promoter-TSS (NM_175092)	-918.0	NM_175092	23912.0	Mm.253876	NM_175092	ENSMUSG00000029449	Rhof	AI845056|AV026554|Arhf|Ifld1|Rif	ras homolog family member F (in filopodia)	protein-coding	14.5	20.5	3.5	94.0	20.5	13.0	9.5	12.5
Merged-chr10-120227051-4	chr10	120226963	120227163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025431)	promoter-TSS (NM_025431)	3.0	NM_025431	66225.0	Mm.291755	NM_025431	ENSMUSG00000020224	Llph	1190005P17Rik	LLP homolog, long-term synaptic facilitation (Aplysia)	protein-coding	74.0	54.0	50.5	411.5	107.0	45.0	58.5	51.0
Merged-chr10-8874179-4	chr10	8874081	8874281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	intron (NM_175155, intron 1 of 19)	11889.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	108.0	174.0	98.0	1545.0	243.0	79.0	84.5	86.5
Merged-chr14-78849213-4	chr14	78849149	78849349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173758)	promoter-TSS (NM_173758)	71.0	NM_173758	219189.0	Mm.159651	NM_027906	ENSMUSG00000058997	Vwa8	1300010F03Rik|4932416F07Rik|AI957255|Kiaa0564|mKIAA0564	von Willebrand factor A domain containing 8	protein-coding	31.5	47.0	46.0	409.0	51.0	14.5	22.0	23.5
Merged-chr3-55549593-3	chr3	55549505	55549705	+	972.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	87877.0	NM_001357476	13175.0	Mm.393242	NM_019978	ENSMUSG00000027797	Dclk1	1700113D08Rik|2810480F11Rik|AI836758|Click-I|Cpg16|Dcamkl1|Dcl|Dclk|mKIAA0369	doublecortin-like kinase 1	protein-coding	13.5	15.5	19.5	432.5	13.0	7.5	8.0	12.0
Merged-chr11-117775729-4	chr11	117775639	117775839	+	996.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_154387, exon 6 of 19)	non-coding (NR_154387, exon 6 of 19)	3909.0	NR_154387	217353.0	Mm.286963	NM_145439	ENSMUSG00000025572	Tmc6	D11Ertd204e|EVER1	transmembrane channel-like gene family 6	protein-coding	39.5	44.0	35.5	677.5	62.0	5.5	20.0	39.0
Merged-chr7-92670081-4	chr7	92669974	92670174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029078)	promoter-TSS (NM_029078)	-162.0	NM_029078	74737.0	Mm.288645	NM_029078	ENSMUSG00000041328	Pcf11	2500001H09Rik|5730417B17Rik|C77803	PCF11 cleavage and polyadenylation factor subunit	protein-coding	435.5	618.0	504.0	6393.5	1015.0	441.0	475.5	377.5
Merged-chr17-48267765-4	chr17	48267662	48267862	+	766.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033922, intron 2 of 5)	intron (NM_001033922, intron 2 of 5)	3467.0	NM_001163796	224840.0	Mm.131234	NM_172623	ENSMUSG00000051682	Treml4	5031403H21Rik|BB137214|IDCP1|TLT-4|TLT4|Treml3	triggering receptor expressed on myeloid cells-like 4	protein-coding	26.5	37.5	8.0	209.5	60.5	18.0	13.0	10.5
Merged-chr1-132008127-4	chr1	132008004	132008204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007923, intron 1 of 4)	CpG	499.0	NM_007923	13714.0	Mm.254233	NM_007923	ENSMUSG00000026436	Elk4	2310011G17Rik|A130026I01Rik|BB162516|SAP-1|Sap1	ELK4, member of ETS oncogene family	protein-coding	44.5	87.0	57.5	855.0	140.0	68.0	69.0	65.5
Merged-chr2-118959880-4	chr2	118959780	118959980	+	906.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33383.0	NM_028117	72136.0	Mm.486238	NM_028117	ENSMUSG00000074916	Chst14	2600016L03Rik|D4ST-1|D4st1	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 14	protein-coding	8.5	5.5	4.0	100.0	226.5	89.0	61.5	94.0
Merged-chr1-165844765-6	chr1	165844677	165844877	+	649.222229	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113391, intron 1 of 7)	intron (NM_001113391, intron 1 of 7)	56096.0	NM_001113392	12503.0	Mm.217308	NM_031162	ENSMUSG00000005763	Cd247	4930549J05Rik|A430104F18Rik|AW552088|Cd3|Cd3-eta|Cd3-zeta|Cd3h|Cd3z|Cd3zeta|T3z|Tcrk|Tcrz	CD247 antigen	protein-coding	5.5	5.0	9.0	83.5	17.5	6.5	12.5	12.0
Merged-chr13-37830906-3	chr13	37830805	37831005	+	955.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039188, intron 1 of 9)	intron (NM_001039188, intron 1 of 9)	3512.0	NM_001039188	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	7.5	6.0	12.0	135.0	16.5	5.5	7.5	7.0
Merged-chr11-69849403-4	chr11	69849323	69849523	+	902.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168497, intron 6 of 7)	intron (NM_001168497, intron 6 of 7)	2779.0	NR_033133	70310.0	Mm.28874	NM_023564	ENSMUSG00000019461	Plscr3	2210403O21Rik|2610037N06Rik|ESTM3|X83310	phospholipid scramblase 3	protein-coding	14.0	30.0	22.5	338.0	23.0	7.0	7.0	12.5
Merged-chr13-110569251-4	chr13	110569130	110569330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	174186.0	NM_152804	20620.0	Mm.380	NM_152804	ENSMUSG00000021701	Plk2	Snk	polo like kinase 2	protein-coding	83.0	126.0	57.0	895.0	314.0	106.5	85.5	90.5
Merged-chr4-117137349-4	chr4	117137241	117137441	+	903.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3378.0	NM_001313916	12795.0	Mm.259022	NM_013807	ENSMUSG00000028680	Plk3	Cnk|Fnk|PLK-3|PRK	polo like kinase 3	protein-coding	18.0	28.5	15.5	19.5	41.0	11.0	11.0	9.0
Merged-chr13-113484324-4	chr13	113484227	113484427	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045501, intron 3 of 6)	intron (NR_045501, intron 3 of 6)	18517.0	NR_045501	70917.0	Mm.491036	NR_045501	ENSMUSG00000114790	4921509O07Rik	-	RIKEN cDNA 4921509O07 gene	ncRNA	54.0	132.0	59.5	769.0	175.5	69.5	85.5	55.5
Merged-chr13-93240929-4	chr13	93240832	93241032	+	839.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48515.0	NM_001361537	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	18.0	14.0	7.5	90.5	29.5	11.0	8.5	9.5
Merged-chr2-30265861-3	chr2	30265764	30265964	+	907.138855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252568)	promoter-TSS (NM_001252568)	-339.0	NM_001252568	227696.0	Mm.297949	NM_172267	ENSMUSG00000079484	Phyhd1	-	phytanoyl-CoA dioxygenase domain containing 1	protein-coding	12.0	16.5	5.5	133.0	38.0	10.0	6.5	6.0
Merged-chr1-170898607-4	chr1	170898501	170898701	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13061.0	NM_023173	80915.0	Mm.34365	NM_023173	ENSMUSG00000026659	Dusp12	1190004O14Rik|AA027408|AW049275|ESTM36|LMW-DSP4|T-DSP4|VH1|mVH1	dual specificity phosphatase 12	protein-coding	50.0	62.0	64.5	1035.5	78.5	28.0	45.5	48.0
Merged-chr3-62507021-4	chr3	62506907	62507107	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028136)	promoter-TSS (NM_028136)	-19.0	NM_028136	72162.0	Mm.224233	NM_028136	ENSMUSG00000027770	Dhx36	2810407E23Rik|AI452301|AU022184|Ddx36|mKIAA1488	DEAH (Asp-Glu-Ala-His) box polypeptide 36	protein-coding	108.5	130.5	96.0	1777.0	258.5	55.5	130.0	82.0
Merged-chr6-112760846-4	chr6	112760740	112760940	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080448, intron 10 of 21)	intron (NM_080448, intron 10 of 21)	-64170.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	51.0	58.5	16.0	332.5	115.5	32.5	35.5	24.0
Merged-chr16-33755520-4	chr16	33755418	33755618	+	937.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175256, intron 12 of 14)	intron (NM_175256, intron 12 of 14)	-38519.0	NM_010739	17063.0	Mm.3177	NM_010739	ENSMUSG00000022824	Muc13	114/A10|14/A10|AI159736|Lrrp|Ly64|NJ-1	mucin 13, epithelial transmembrane	protein-coding	21.0	15.0	16.0	325.5	27.5	20.5	15.5	24.5
Merged-chr2-150675125-4	chr2	150675034	150675234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6894.0	NM_080575	68738.0	Mm.7044	NM_080575	ENSMUSG00000027452	Acss1	1110032O15Rik|AI788978|Acas2|Acas2l|AceCS2	acyl-CoA synthetase short-chain family member 1	protein-coding	26.0	33.0	20.5	342.5	74.5	20.5	21.5	23.5
Merged-chr13-8645465-4	chr13	8645388	8645588	+	954.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110345, intron 3 of 10)	intron (NR_110345, intron 3 of 10)	225556.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	45.0	63.5	41.0	700.5	104.5	15.0	47.5	32.0
Merged-chr4-109418325-4	chr4	109418227	109418427	+	940.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145948, intron 2 of 17)	intron (NM_001145948, intron 2 of 17)	2680.0	NM_001145948	230603.0	Mm.33091	NM_153392	ENSMUSG00000028555	Ttc39a	4922503N01Rik	tetratricopeptide repeat domain 39A	protein-coding	26.0	19.5	27.0	390.5	30.0	9.0	6.0	15.5
Merged-chr2-6366822-4	chr2	6366722	6366922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181399, intron 1 of 13)	intron (NM_181399, intron 1 of 13)	14086.0	NM_181399	98910.0	Mm.40673	NM_181399	ENSMUSG00000039046	Usp6nl	AI316785|RNTRE|TRE2NL|mKIAA0019	USP6 N-terminal like	protein-coding	81.5	88.0	87.5	1510.0	129.0	52.0	68.5	58.5
Merged-chr18-34140082-4	chr18	34139980	34140180	+	953.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	-80904.0	NM_007462	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	17.5	16.0	8.5	288.5	39.0	22.5	21.5	22.5
Merged-chr8-72723279-4	chr8	72723163	72723363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009188)	promoter-TSS (NM_009188)	-7.0	NM_001113248	20467.0	Mm.2137	NM_009188	ENSMUSG00000031622	Sin3b	2810430C10Rik	transcriptional regulator, SIN3B (yeast)	protein-coding	71.0	94.5	55.0	741.0	205.5	64.0	96.5	65.5
Merged-chr3-95315228-4	chr3	95315092	95315292	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029789)	promoter-TSS (NM_029789)	2.0	NM_029789	76893.0	Mm.181009	NM_029789	ENSMUSG00000015714	Cers2	0610013I17Rik|AI225939|Lass2|TRH3	ceramide synthase 2	protein-coding	126.0	116.0	70.5	1700.0	214.0	83.0	115.5	95.0
Merged-chr18-14657587-4	chr18	14657492	14657692	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009280, intron 3 of 10)	intron (NM_009280, intron 3 of 10)	25322.0	NM_001161369	268996.0	Mm.31761	NM_009280	ENSMUSG00000037013	Ss18	D130059H17|Ssxt|Syt	SS18, nBAF chromatin remodeling complex subunit	protein-coding	18.0	40.5	32.5	292.5	47.5	19.0	26.5	28.0
Merged-chr16-18392541-4	chr16	18392446	18392646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001272032)	promoter-TSS (NM_001272032)	-17.0	NM_001272031	11877.0	Mm.293599	NM_033474	ENSMUSG00000000325	Arvcf	-	armadillo repeat gene deleted in velocardiofacial syndrome	protein-coding	48.5	69.0	33.0	940.0	117.5	31.5	64.0	38.5
Merged-chr10-94122278-4	chr10	94122176	94122376	+	960.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053072, intron 9 of 20)	intron (NM_053072, intron 9 of 20)	-25655.0	NM_011629	22025.0	Mm.107483	NM_011629	ENSMUSG00000005897	Nr2c1	4831444H07Rik|80.3|Eenr|TR2|Tr2-11	nuclear receptor subfamily 2, group C, member 1	protein-coding	12.0	16.0	17.5	332.5	77.0	15.0	11.0	29.5
Merged-chr15-101978683-4	chr15	101978593	101978793	+	970.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24406.0	NM_212487	332131.0	Mm.325105	NM_212487	ENSMUSG00000050463	Krt78	2310030B04Rik|Kb40	keratin 78	protein-coding	10.0	33.0	20.5	423.0	66.5	10.5	8.0	22.0
Merged-chr4-134543439-4	chr4	134543344	134543544	+	942.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029100, intron 6 of 11)	intron (NM_029100, intron 6 of 11)	-8057.0	NM_029759	76824.0	Mm.30153	NM_029759	ENSMUSG00000046671	Mtfr1l	2410166I05Rik|AI480750|Fam54b	mitochondrial fission regulator 1-like	protein-coding	28.0	13.5	7.5	286.5	52.0	25.5	25.0	16.0
Merged-chr5-97062305-4	chr5	97062197	97062397	+	984.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080708, intron 11 of 15)	intron (NM_080708, intron 11 of 15)	49299.0	NM_001359910	231474.0	Mm.332505	NM_198422	ENSMUSG00000055725	Paqr3	6330415A20Rik|AY424292|RKTG	progestin and adipoQ receptor family member III	protein-coding	28.5	24.5	21.0	393.5	81.5	14.5	43.5	21.0
Merged-chr7-114415276-4	chr7	114415160	114415360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011055)	promoter-TSS (NM_011055)	6.0	NM_011055	18576.0	Mm.430730	NM_011055	ENSMUSG00000030671	Pde3b	9830102A01Rik|AI847709	phosphodiesterase 3B, cGMP-inhibited	protein-coding	38.0	30.0	31.5	576.0	61.0	19.0	27.0	27.5
Merged-chr10-81526943-4	chr10	81526854	81527054	+	824.325012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2729.0	NM_010304	14676.0	Mm.1546	NM_010304	ENSMUSG00000034792	Gna15	G[a]15|Galpha15	guanine nucleotide binding protein, alpha 15	protein-coding	9.0	16.0	10.0	128.5	20.5	12.0	9.5	7.0
Merged-chr9-31042065-4	chr9	31041948	31042148	+	729.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001115130, intron 1 of 5)	MTE-int|LTR|ERVL-MaLR	11404.0	NM_172765	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	6.0	13.5	4.5	99.5	14.0	4.5	9.0	10.5
Merged-chr11-75348423-4	chr11	75348332	75348532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001102611)	promoter-TSS (NM_001102611)	-1.0	NM_001102611	319822.0	Mm.340377	NM_177009	ENSMUSG00000018809	Smyd4	G430029E23Rik	SET and MYND domain containing 4	protein-coding	141.5	223.5	126.5	2106.5	364.5	151.5	138.5	149.5
Merged-chr8-126688179-4	chr8	126688100	126688300	+	976.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-94764.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	23.5	25.0	21.5	271.0	30.0	12.5	26.0	19.5
Merged-chr13-101761874-4	chr13	101761789	101761989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 1 of 15)	intron (NM_001077495, intron 1 of 15)	6328.0	NM_001077495	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	35.5	50.0	51.0	500.5	91.0	31.5	45.0	29.0
Merged-chr11-51938897-4	chr11	51938810	51939010	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F|LTR|ERVL-MaLR	-28721.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	65.0	56.0	72.0	1157.0	119.0	31.0	59.0	54.0
Merged-chr13-37678148-4	chr13	37678051	37678251	+	921.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-147887.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	15.0	25.0	5.5	246.5	38.0	10.0	12.0	15.0
Merged-chr15-13435408-3	chr15	13435308	13435508	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-261733.0	NM_007666	12563.0	Mm.57048	NM_007666	ENSMUSG00000039385	Cdh6	cad6	cadherin 6	protein-coding	21.0	7.5	17.5	404.0	11.0	7.0	14.5	4.5
Merged-chr1-156674898-4	chr1	156674824	156675024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023141)	promoter-TSS (NM_023141)	-585.0	NM_023141	30935.0	Mm.206737	NM_023141	ENSMUSG00000060519	Tor3a	Adir	torsin family 3, member A	protein-coding	58.5	131.0	78.0	998.0	147.5	72.0	55.5	67.5
Merged-chr11-120039841-4	chr11	120039772	120039972	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198785, intron 1 of 13)	intron (NM_001198785, intron 1 of 13)	1909.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	25.5	28.0	14.5	319.5	32.0	5.5	9.0	26.5
Merged-chr3-55949349-4	chr3	55949265	55949465	+	837.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030595, intron 33 of 57)	intron (NM_030595, intron 33 of 57)	102260.0	NR_033592	71182.0	Mm.195603	NR_033592	ENSMUSG00000106572	4933417G07Rik	-	SEC13 homolog pseudogene	pseudo	9.0	8.5	11.5	247.5	32.0	20.0	12.0	19.0
Merged-chr5-43880767-4	chr5	43880664	43880864	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007646, intron 1 of 7)	intron (NM_007646, intron 1 of 7)	11955.0	NM_007646	12494.0	Mm.249873	NM_007646	ENSMUSG00000029084	Cd38	ADPRC 1|Cd38-rs1|I-19	CD38 antigen	protein-coding	91.0	105.5	156.5	1216.0	180.0	63.0	120.0	78.0
Merged-chr3-122466283-3	chr3	122466196	122466396	+	828.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013867, intron 3 of 11)	intron (NM_013867, intron 3 of 11)	-17273.0	NM_001355264	29815.0	Mm.45815	NM_013867	ENSMUSG00000028121	Bcar3	AI131758|AND-34	breast cancer anti-estrogen resistance 3	protein-coding	5.5	5.5	11.5	105.5	17.0	1.5	7.5	8.5
Merged-chr17-86378795-4	chr17	86378691	86378891	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011104, intron 2 of 14)	intron (NM_011104, intron 2 of 14)	-91613.0	NR_045435	72104.0	Mm.443401	NR_045435	ENSMUSG00000100738	2010106C02Rik	-	RIKEN cDNA 2010106C02 gene	ncRNA	78.5	80.0	94.5	1716.0	175.5	46.0	57.0	103.0
Merged-chr9-21164140-4	chr9	21164004	21164204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1610.0	NM_183408	18577.0	Mm.191749	NM_019798	ENSMUSG00000032177	Pde4a	D9Ertd60e|Dpde2	phosphodiesterase 4A, cAMP specific	protein-coding	26.5	37.5	16.5	160.0	37.0	19.5	19.5	21.0
Merged-chr1-156037395-4	chr1	156037293	156037493	+	919.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001160018)	promoter-TSS (NM_001160018)	-913.0	NM_001160018	208263.0	Mm.211654	NM_144791	ENSMUSG00000026466	Tor1aip1	LAP1|Lap1B	torsin A interacting protein 1	protein-coding	13.5	25.0	24.5	188.0	41.0	8.0	14.0	26.5
Merged-chr10-8884562-4	chr10	8884451	8884651	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 1 of 19)	MIRb|SINE|MIR	1519.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	36.0	67.5	41.5	703.5	92.5	38.5	34.0	38.0
Merged-chr7-84591534-4	chr7	84591433	84591633	+	855.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010176, intron 11 of 13)	L1ME3A|LINE|L1	14409.0	NM_010176	14085.0	Mm.3798	NM_010176	ENSMUSG00000030630	Fah	swst	fumarylacetoacetate hydrolase	protein-coding	18.0	48.0	11.0	89.0	59.0	20.5	17.0	12.5
Merged-chr9-116173899-4	chr9	116173801	116174001	+	822.267822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	1462.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	11.5	18.0	23.0	192.5	25.0	6.5	5.0	13.0
Merged-chr15-55390340-3	chr15	55390236	55390436	+	988.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 14 of 47)	intron (NM_181277, intron 14 of 47)	82586.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	14.5	37.5	25.5	444.5	23.5	7.0	13.5	11.0
Merged-chr17-33992022-4	chr17	33991956	33992156	+	961.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	8277.0	NM_001001892	14972.0	Mm.422886	NM_001001892	ENSMUSG00000061232	H2-K1	H-2K|H-2K(d)|H2-K|K-f	histocompatibility 2, K1, K region	protein-coding	28.0	40.5	14.0	177.5	64.0	15.5	14.5	13.5
Merged-chr2-150779930-2	chr2	150779830	150780030	+	645.333313	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6866.0	NM_153781	110078.0	Mm.222584	NM_153781	ENSMUSG00000033059	Pygb	-	brain glycogen phosphorylase	protein-coding	9.0	9.5	6.0	10.0	20.0	1.0	1.0	3.5
Merged-chr4-54642564-3	chr4	54642460	54642660	+	946.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-305385.0	NM_172867	242466.0	Mm.102904	NM_172867	ENSMUSG00000060206	Zfp462	6030417H05|9430078C22Rik|Gt4-2|Zfpip	zinc finger protein 462	protein-coding	19.0	26.0	18.0	352.5	0.0	1.0	0.0	0.0
Merged-chr2-16356401-6	chr2	16356281	16356481	+	953.2315060000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026162)	promoter-TSS (NM_026162)	77.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	12.0	19.0	45.5	318.0	23.5	6.0	7.0	12.0
Merged-chr4-145037795-4	chr4	145037683	145037883	+	877.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276465, intron 65 of 69)	intron (NM_001276465, intron 65 of 69)	144646.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	12.0	12.0	26.0	377.5	17.0	6.0	14.0	14.5
Merged-chr11-78697535-4	chr11	78697433	78697633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008702)	promoter-TSS (NM_008702)	-108.0	NM_008702	18099.0	Mm.9001	NM_008702	ENSMUSG00000017376	Nlk	AI194375	nemo like kinase	protein-coding	230.5	321.0	153.5	2386.5	442.0	154.0	165.5	152.5
Merged-chr9-13298064-4	chr9	13297948	13298148	+	994.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51092.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	32.5	32.5	19.5	296.5	53.0	24.0	20.0	15.0
Merged-chr11-6292556-4	chr11	6292446	6292646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252288)	promoter-TSS (NM_001252288)	-12.0	NM_001252288	18293.0	Mm.276348	NM_010956	ENSMUSG00000020456	Ogdh	2210403E04Rik|2210412K19Rik|AA409584|d1401|mKIAA4192	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	protein-coding	28.0	41.5	28.5	572.5	120.5	26.0	48.5	57.0
Merged-chr11-115000277-4	chr11	115000142	115000342	+	977.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134158, intron 2 of 3)	intron (NM_134158, intron 2 of 3)	1638.0	NM_134158	140497.0	Mm.2699	NM_134158	ENSMUSG00000044811	Cd300c2	CLM4|Cd300c|Cd300d|DIgR1|Igsf7|Lmir2|MAIR-II	CD300C molecule 2	protein-coding	22.0	23.5	66.5	307.5	52.5	12.0	33.5	33.5
Merged-chr11-5369328-3	chr11	5369235	5369435	+	939.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080924, intron 1 of 8)	intron (NM_001080924, intron 1 of 8)	12405.0	NM_001290501	407821.0	Mm.216313	NM_001080924	ENSMUSG00000041961	Znrf3	Gm1167	zinc and ring finger 3	protein-coding	16.5	9.0	11.0	181.0	18.0	3.0	7.0	11.0
Merged-chr8-46070328-3	chr8	46070227	46070427	+	660.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207213, intron 5 of 17)	B1_Mus2|SINE|Alu	53819.0	NM_207213	102141.0	Mm.267258	NM_207213	ENSMUSG00000038291	Snx25	AI661919|Gm1699|Gm173|Sbbi31	sorting nexin 25	protein-coding	0.0	3.0	9.5	118.5	14.0	5.5	4.5	9.0
Merged-chr14-20836773-4	chr14	20836679	20836879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008873, intron 1 of 10)	intron (NM_008873, intron 1 of 10)	117.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	44.0	132.0	29.0	418.0	72.0	53.0	25.5	43.5
Merged-chr15-74924099-3	chr15	74923990	74924190	+	960.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30961.0	NM_001164039	17069.0	Mm.788	NM_008529	ENSMUSG00000022587	Ly6e	Ly67|RIG-E|Sca-2|TSA-1|Tsa1	lymphocyte antigen 6 complex, locus E	protein-coding	16.0	36.0	14.5	76.0	7.0	2.5	0.0	0.5
Merged-chr5-41740023-4	chr5	41739998	41740198	+	847.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24122.0	NM_007524	12020.0	Mm.2530	NM_007524	ENSMUSG00000049691	Nkx3-2	Bapx1|NKX3.2|Nkx-3.2	NK3 homeobox 2	protein-coding	7.0	11.5	5.0	43.5	50.0	7.0	13.5	19.0
Merged-chr18-67343423-4	chr18	67343397	67343597	+	807.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007702)	promoter-TSS (NM_007702)	-67.0	NM_007702	12683.0	Mm.449	NM_007702	ENSMUSG00000024526	Cidea	AW212747	cell death-inducing DNA fragmentation factor, alpha subunit-like effector A	protein-coding	12.5	25.0	6.5	120.5	15.5	5.0	11.5	11.5
Merged-chr3-129877966-3	chr3	129877907	129878107	+	823.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023196)	promoter-TSS (NM_023196)	-599.0	NR_104611	66350.0	Mm.151951	NM_023196	ENSMUSG00000027999	Pla2g12a	2310004B05Rik|GXII|GXII-1|GXII-1-PLA2|Pla2g12|Rossy|mGXII-1	phospholipase A2, group XIIA	protein-coding	4.5	6.0	9.5	150.5	12.0	4.0	10.5	5.0
Merged-chr9-51990989-1	chr9	51990889	51991089	+	548.0	f1_balb.idr	Intergenic	Intergenic	-27387.0	NM_007996	14148.0	Mm.1061	NM_007996	ENSMUSG00000032051	Fdx1	-	ferredoxin 1	protein-coding	6.5	6.5	4.5	178.0	15.5	7.0	7.0	4.5
Merged-chr3-136326060-4	chr3	136325941	136326141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310749)	promoter-TSS (NM_001310749)	25.0	NM_001310749	242248.0	Mm.30832	NM_001033350	ENSMUSG00000037922	Bank1	A530094C12Rik|AI451642|AVIEF|BANK	B cell scaffold protein with ankyrin repeats 1	protein-coding	70.0	94.0	124.0	1658.0	194.0	51.5	101.0	75.0
Merged-chr12-76710618-2	chr12	76710518	76710718	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013675)	promoter-TSS (NM_013675)	-71.0	NM_013675	20741.0	Mm.32881	NM_013675	ENSMUSG00000021061	Sptb	AI842465|D330027P03Rik|Gm1301|Spnb-1|Spnb1|ja|jaundiced|mKIAA4219	spectrin beta, erythrocytic	protein-coding	11.0	4.0	7.0	98.0	8.5	4.5	5.0	4.5
Merged-chr6-50163031-7	chr6	50162921	50163121	+	904.892883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361248, intron 5 of 13)	intron (NM_001361248, intron 5 of 13)	52161.0	NM_001361248	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	2.0	4.5	3.0	31.5	22.5	11.5	8.0	8.5
Merged-chr12-21111699-3	chr12	21111609	21111809	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001135192)	promoter-TSS (NM_001135192)	-47.0	NM_001004364	211914.0	Mm.358946	NM_001004364	ENSMUSG00000052632	Asap2	6530401G17Rik|Ddef2|Gm1523|Gm592|PAG3|PAP	ArfGAP with SH3 domain, ankyrin repeat and PH domain 2	protein-coding	30.5	28.5	27.5	406.0	13.5	5.0	13.5	11.5
Merged-chr3-69669353-1	chr3	69669253	69669453	+	1000.0	f0_balb.idr	Intergenic	Intergenic	-52702.0	NM_133787	97112.0	Mm.21062	NM_133787	ENSMUSG00000027787	Nmd3	C87860	NMD3 ribosome export adaptor	protein-coding	16.0	6.0	12.0	184.5	14.0	6.0	5.0	6.0
Merged-chr3-98157305-3	chr3	98157190	98157390	+	755.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3344.0	NM_027665	71078.0	Mm.50711	NM_027665	ENSMUSG00000043468	Adam30	4933424D07Rik|svph4	a disintegrin and metallopeptidase domain 30	protein-coding	10.0	14.5	5.5	95.0	16.5	9.5	5.0	10.5
Merged-chr5-113672643-4	chr5	113672559	113672759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22269.0	NM_008153	14747.0	Mm.5196	NM_008153	ENSMUSG00000042190	Cmklr1	ChemR23|DEZ|Gpcr27|mcmklr1	chemokine-like receptor 1	protein-coding	122.5	199.0	129.5	1529.5	227.5	124.5	139.5	82.5
Merged-chr15-59647661-4	chr15	59647554	59647754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144549)	promoter-TSS (NM_144549)	-1000.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	46.0	40.0	40.5	501.0	93.0	35.0	46.5	34.0
Merged-chr7-3693213-4	chr7	3693107	3693307	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164205)	promoter-TSS (NM_001164205)	318.0	NM_029934	77582.0	Mm.397541	NM_029934	ENSMUSG00000035596	Mboat7	5730589L02Rik|BB1|Leng4|Lpiat|Lpiat1|mBB1	membrane bound O-acyltransferase domain containing 7	protein-coding	89.0	185.5	106.5	775.5	323.5	144.5	106.5	110.5
Merged-chr1-136676508-4	chr1	136676414	136676614	+	856.1749880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6882.0	NR_045324	100503460.0	Mm.30630	NR_045324	ENSMUSG00000097113	Gm19705	-	predicted gene, 19705	ncRNA	8.0	18.5	11.5	150.5	21.0	23.0	8.5	13.0
Merged-chr15-50157179-3	chr15	50157065	50157265	+	995.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	731884.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	4.0	0.0	1.0	16.0	82.5	26.5	50.5	18.0
Merged-chr4-103340448-4	chr4	103340331	103340531	+	805.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025909, intron 7 of 8)	intron (NM_025909, intron 7 of 8)	26585.0	NM_025909	67013.0	Mm.30021	NM_025909	ENSMUSG00000035069	Oma1	2010001O09Rik|MPRP-1|ZMPOMA1	OMA1 zinc metallopeptidase	protein-coding	10.5	11.5	2.0	115.5	35.5	6.5	9.0	8.0
Merged-chr7-43407805-3	chr7	43407716	43407916	+	764.06665	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172900)	promoter-TSS (NM_172900)	-464.0	NM_172900	243958.0	Mm.24444	NM_172900	ENSMUSG00000030468	Siglecg	9830164H23|A630096C01Rik|Siglec-G|Siglec10|mSiglec-G	sialic acid binding Ig-like lectin G	protein-coding	4.0	9.5	6.5	26.0	24.5	10.0	10.0	10.5
Merged-chr6-15758677-4	chr6	15758565	15758765	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175088, intron 3 of 4)	intron (NM_175088, intron 3 of 4)	38004.0	NM_175088	16543.0	Mm.1314	NM_175088	ENSMUSG00000041390	Mdfic	Kdt1|Mdfid	MyoD family inhibitor domain containing	protein-coding	207.5	290.0	328.0	3997.0	572.0	191.0	216.5	226.5
Merged-chr7-132812021-3	chr7	132811926	132812126	+	874.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_212473, intron 1 of 4)	intron (NM_212473, intron 1 of 4)	1170.0	NM_212473	77938.0	Mm.225649	NM_175268	ENSMUSG00000030956	Fam53b	A930008G19Rik|mKIAA0140	family with sequence similarity 53, member B	protein-coding	13.5	10.5	11.5	170.5	21.0	2.0	7.0	17.0
Merged-chr10-61374308-4	chr10	61374235	61374435	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013753, intron 1 of 19)	intron (NM_013753, intron 1 of 19)	9188.0	NM_013753	27355.0	Mm.269699	NM_013753	ENSMUSG00000020092	Pald1	MMPAL|Pald|mKIAA1274	phosphatase domain containing, paladin 1	protein-coding	34.5	47.0	26.0	507.5	60.0	26.5	42.0	32.5
Merged-chr18-69627805-4	chr18	69627715	69627915	+	918.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361128, intron 8 of 19)	intron (NM_001361128, intron 8 of 19)	281655.0	NM_001361126	21413.0	Mm.4269	NM_013685	ENSMUSG00000053477	Tcf4	5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19	transcription factor 4	protein-coding	3.0	13.5	3.5	179.0	24.5	6.5	17.0	13.5
Merged-chr11-74494103-2	chr11	74494003	74494203	+	769.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001015046, intron 2 of 24)	intron (NM_001015046, intron 2 of 24)	96055.0	NM_001015046	380711.0	Mm.425690	NM_001015046	ENSMUSG00000038807	Rap1gap2	AU067654|Garnl4|Gm1561|mKIAA1039	RAP1 GTPase activating protein 2	protein-coding	8.5	6.5	3.0	63.5	20.5	6.5	4.5	12.0
Merged-chr5-137684848-4	chr5	137684766	137684966	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303266)	promoter-TSS (NM_001303266)	-113.0	NM_001303266	231801.0	Mm.260869	NM_145566	ENSMUSG00000029722	Agfg2	A630095P14Rik|Hrbl|RAB-R|RABR	ArfGAP with FG repeats 2	protein-coding	193.0	283.0	197.0	2437.0	526.0	181.5	210.5	170.0
Merged-chr4-154904672-4	chr4	154904576	154904776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR16|LTR|ERVK	-5633.0	NM_025582	66469.0	Mm.41868	NM_025582	ENSMUSG00000029059	Fam213b	2810405K02Rik|AI836168|PM/PGFS	family with sequence similarity 213, member B	protein-coding	84.0	85.0	52.0	1060.5	116.5	59.0	76.0	49.0
Merged-chr9-31030380-4	chr9	31030306	31030506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172765)	promoter-TSS (NM_172765)	-238.0	NM_001115130	235132.0	Mm.239355	NM_172765	ENSMUSG00000047412	Zbtb44	6030404E16Rik|Btbd15|E230011F09	zinc finger and BTB domain containing 44	protein-coding	127.0	222.0	223.5	2245.0	292.5	139.5	169.5	151.5
Merged-chr7-116328038-4	chr7	116327934	116328134	+	967.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER63D|DNA|hAT-Blackjack	6156.0	NM_026533	68052.0	Mm.14798	NM_026533	ENSMUSG00000090862	Rps13	2700063M04Rik	ribosomal protein S13	protein-coding	21.5	35.0	13.0	269.0	59.5	16.5	28.5	18.5
Merged-chr18-76326600-3	chr18	76326499	76326699	+	839.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	64154.0	NM_001311070	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	14.0	44.0	16.5	182.0	14.5	1.0	2.5	3.5
Merged-chr3-15264625-3	chr3	15264512	15264712	+	930.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	67690.0	NM_001076679	751864.0	Mm.431296	NM_001076679	ENSMUSG00000078783	Gm9733	-	predicted gene 9733	protein-coding	7.5	12.5	6.0	137.0	23.5	6.0	6.5	3.0
Merged-chr6-39507623-4	chr6	39507511	39507711	+	919.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172477, intron 3 of 18)	intron (NM_172477, intron 3 of 18)	50223.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	23.0	18.5	30.0	619.5	28.0	6.0	19.0	19.5
Merged-chr7-110394169-3	chr7	110394055	110394255	+	724.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177324, intron 17 of 40)	MTC|LTR|ERVL-MaLR	172452.0	NM_009302	20947.0	Mm.334144	NM_009302	ENSMUSG00000031015	Swap70	70kDa|AV235546	SWA-70 protein	protein-coding	7.5	19.0	6.0	81.0	16.5	3.5	6.0	5.5
Merged-chr4-134853409-4	chr4	134853284	134853484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355501)	promoter-TSS (NM_001355501)	-39.0	NM_025382	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	158.0	251.0	136.0	1635.5	409.0	154.5	115.0	148.5
Merged-chr12-98246998-2	chr12	98246898	98247098	+	581.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_008079, intron 5 of 16)	intron (NM_008079, intron 5 of 16)	12461.0	NM_008079	14420.0	Mm.5120	NM_008079	ENSMUSG00000021003	Galc	2310068B06Rik|A930008M05Rik|AW212969|AW413532|Gacy|twi|twitcher	galactosylceramidase	protein-coding	5.0	6.0	2.0	145.0	18.5	5.5	6.0	6.5
Merged-chr3-90117881-3	chr3	90117782	90117982	+	726.888855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029937, intron 3 of 39)	RSINE1|SINE|B4	13750.0	NM_029937	77595.0	Mm.159949	NM_029937	ENSMUSG00000027939	Nup210l	4930548O11Rik|R26-EGFP|Tg(Gt(ROSA)26Sor-EGFP)130910Eps	nucleoporin 210-like	protein-coding	4.5	8.5	5.0	94.5	5.5	3.5	3.5	5.5
Merged-chr18-24227847-4	chr18	24227746	24227946	+	712.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361200, intron 1 of 12)	ORR1B1-int|LTR|ERVL-MaLR	21852.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	13.0	16.5	5.0	87.5	36.0	14.5	3.5	14.0
Merged-chr7-80166923-4	chr7	80166843	80167043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19898.0	NM_013659	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	48.5	114.5	65.0	433.5	105.5	51.0	46.5	30.5
Merged-chr15-55121204-4	chr15	55121118	55121318	+	956.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145470, intron 1 of 8)	intron (NM_145470, intron 1 of 8)	-7636.0	NR_045093	100503794.0	Mm.360519	NR_045093	ENSMUSG00000053749	Gm9920	-	predicted gene 9920	ncRNA	24.0	24.5	20.5	317.5	22.0	15.5	15.0	7.0
Merged-chr8-120683723-3	chr8	120683622	120683822	+	852.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15402.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	17.0	4.5	9.5	106.0	28.0	6.5	8.5	7.5
Merged-chr17-45731427-3	chr17	45731323	45731523	+	786.188904	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2421.0	NM_028164	72240.0	Mm.482897	NM_028164	ENSMUSG00000094690	1600014C23Rik	-	RIKEN cDNA 1600014C23 gene	protein-coding	10.0	10.0	4.5	164.5	27.0	5.0	3.0	3.0
Merged-chr11-94277143-4	chr11	94277039	94277239	+	881.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34560.0	NM_181819	278507.0	Mm.342216	NM_181819	ENSMUSG00000044177	Wfikkn2	2610304F08Rik|AY100450|Gasp1|WFIKKNRP	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2	protein-coding	11.0	12.5	12.5	170.0	23.5	12.5	4.0	10.0
Merged-chr10-127641984-4	chr10	127641896	127642096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009284)	promoter-TSS (NM_009284)	-990.0	NM_009284	20852.0	Mm.121721	NM_009284	ENSMUSG00000002147	Stat6	-	signal transducer and activator of transcription 6	protein-coding	31.5	51.0	28.5	275.0	80.0	27.0	38.5	24.5
Merged-chr3-127762647-4	chr3	127762539	127762739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027808, intron 1 of 13)	intron (NM_027808, intron 1 of 13)	17888.0	NM_027808	71481.0	Mm.158704	NM_027808	ENSMUSG00000028028	Alpk1	8430410J10Rik|LAK	alpha-kinase 1	protein-coding	60.0	58.0	29.0	762.5	47.0	9.0	20.5	28.5
Merged-chr2-158163248-4	chr2	158163157	158163357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR67B|LTR|ERVL	-16865.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	19.0	30.5	28.0	509.5	80.0	21.0	30.0	39.5
Merged-chr8-35588457-3	chr8	35588286	35588486	+	868.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081279, exon 1 of 3)	exon (NM_001081279, exon 1 of 3)	588.0	NM_001081279	52065.0	Mm.103246	NM_001081279	ENSMUSG00000070056	Mfhas1	2310066G09Rik|D8Ertd91e	malignant fibrous histiocytoma amplified sequence 1	protein-coding	13.0	12.5	26.5	101.5	16.5	9.0	6.0	18.5
Merged-chr12-95748961-4	chr12	95748862	95749062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	56736.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	53.0	34.5	27.5	645.0	143.0	29.5	46.5	38.5
Merged-chr7-80535127-4	chr7	80534967	80535167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007550)	promoter-TSS (NM_007550)	52.0	NM_001042527	12144.0	Mm.12932	NM_007550	ENSMUSG00000030528	Blm	-	Bloom syndrome, RecQ like helicase	protein-coding	116.5	164.5	110.0	1474.5	269.0	90.0	127.5	95.5
Merged-chr10-50612206-4	chr10	50612115	50612315	+	980.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198007, intron 3 of 41)	intron (NM_198007, intron 3 of 41)	19546.0	NM_198007	77987.0	Mm.222497	NM_198007	ENSMUSG00000038774	Ascc3	ASC1p200|B630009I04Rik|BC023451|D430001L07Rik|D630041L21|Helic1|RNAH	activating signal cointegrator 1 complex subunit 3	protein-coding	20.5	27.5	27.0	492.5	41.5	26.0	24.5	16.0
Merged-chr16-75766948-4	chr16	75766850	75767050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030201)	promoter-TSS (NM_030201)	-132.0	NM_030201	110920.0	Mm.26704	NM_030201	ENSMUSG00000032932	Hspa13	1600002I10Rik|AV006182|B230217N24Rik|Stch	heat shock protein 70 family, member 13	protein-coding	361.5	607.0	370.0	6200.5	973.5	419.5	459.5	437.5
Merged-chr18-75839503-5	chr18	75839470	75839670	+	957.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145356, intron 1 of 4)	intron (NM_145356, intron 1 of 4)	19392.0	NM_145356	207259.0	Mm.159332	NM_145356	ENSMUSG00000044646	Zbtb7c	B230208J24Rik|Kr-pok|Zbtb36	zinc finger and BTB domain containing 7C	protein-coding	5.0	13.0	10.5	133.5	57.5	17.0	32.5	50.0
Merged-chr16-15890673-4	chr16	15890581	15890781	+	869.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 18 of 18)	intron (NM_001355731, intron 18 of 18)	3395.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	12.0	9.0	14.5	215.0	19.0	10.5	10.0	17.5
Merged-chr17-29416535-3	chr17	29416450	29416650	+	958.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55636.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	2.5	8.0	3.5	175.0	40.0	8.5	19.0	15.0
Merged-chr12-56440595-4	chr12	56440469	56440669	+	958.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88851.0	NR_045082	104798.0	Mm.310950	NR_045082	ENSMUSG00000112343	Sfta3-ps	AI413669|E030019B13Rik|Nanci	surfactant associated 3, pseudogene	ncRNA	16.5	14.0	9.5	235.5	17.0	7.0	19.0	12.5
Merged-chr4-124710002-4	chr4	124709908	124710108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4853.0	NM_029157	75062.0	Mm.25779	NM_029157	ENSMUSG00000028902	Sf3a3	4930512K19Rik|60kDa	splicing factor 3a, subunit 3	protein-coding	48.5	117.0	45.0	499.0	170.5	53.0	31.5	51.0
Merged-chr2-132602816-4	chr2	132602705	132602905	+	841.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 1 of 3)	MTD|LTR|ERVL-MaLR	4609.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	18.0	9.5	10.0	279.0	26.0	4.0	9.0	16.0
Merged-chr16-43448244-1	chr16	43448144	43448344	+	810.333313	f0_balb.idr	intron (NM_181058, intron 2 of 6)	ORR1E|LTR|ERVL-MaLR	-28048.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	5.5	13.5	10.0	140.0	11.5	7.5	7.5	8.0
Merged-chr10-24869892-4	chr10	24869796	24869996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027347)	promoter-TSS (NM_027347)	-90.0	NM_001166416	70208.0	Mm.28020	NM_027347	ENSMUSG00000019984	Med23	130kDa|3000002A17Rik|Crsp3|ESTM7|Sur2|X83317|mKIAA1216	mediator complex subunit 23	protein-coding	279.0	394.5	276.5	4627.5	633.0	225.0	297.5	245.0
Merged-chr18-4349790-4	chr18	4349732	4349932	+	974.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007746, intron 1 of 7)	intron (NM_007746, intron 1 of 7)	3121.0	NM_007746	26410.0	Mm.3275	NM_007746	ENSMUSG00000024235	Map3k8	Cot|Cot/Tpl2|Est|Estf|Tpl-2|Tpl2|c-COT	mitogen-activated protein kinase kinase kinase 8	protein-coding	26.0	20.0	21.0	408.0	31.0	15.0	32.5	15.0
Merged-chr1-74368828-2	chr1	74368728	74368928	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001033345, exon 10 of 10)	exon (NM_001033345, exon 10 of 10)	-6375.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	31.0	69.5	41.5	467.0	148.5	46.5	51.0	69.0
Merged-chr6-147091496-4	chr6	147091407	147091607	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081237, exon 1 of 3)	5' UTR (NM_001081237, exon 1 of 3)	432.0	NM_001081237	232539.0	Mm.491206	NM_001081237	ENSMUSG00000040102	Klhl42	A330079N23Rik|AI450355|C230080I20Rik|Ctb9|Klhdc5|mKIAA1340	kelch-like 42	protein-coding	38.5	50.5	51.5	707.0	114.0	55.5	55.5	58.5
Merged-chr18-46574403-4	chr18	46574312	46574512	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_173394, exon 1 of 3)	5' UTR (NM_173394, exon 1 of 3)	121.0	NM_173394	225471.0	Mm.149280	NM_173394	ENSMUSG00000056130	Ticam2	B430113A10|TICAM-2|TRAM|Tirp|Trif	toll-like receptor adaptor molecule 2	protein-coding	44.5	66.0	56.5	676.0	60.0	19.5	44.0	58.0
Merged-chr5-16973562-6	chr5	16973549	16973749	+	952.4722289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	419748.0	NM_001289461	15234.0	Mm.267078	NM_010427	ENSMUSG00000028864	Hgf	C230052L06Rik|HGF/SF|NK1|NK2|SF|SF/HGF	hepatocyte growth factor	protein-coding	24.0	7.0	11.0	151.0	60.0	22.5	14.0	11.5
Merged-chr4-45108120-4	chr4	45107982	45108182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001134646)	promoter-TSS (NM_001134646)	31.0	NM_001134646	68512.0	Mm.282081	NM_001099675	ENSMUSG00000078713	Tomm5	1110019J04Rik|Tom5	translocase of outer mitochondrial membrane 5	protein-coding	39.5	62.0	51.0	517.5	107.5	45.5	51.5	38.5
Merged-chr12-85444858-4	chr12	85444749	85444949	+	942.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29041.0	NM_010234	14281.0	Mm.246513	NM_010234	ENSMUSG00000021250	Fos	D12Rfj1|c-fos|cFos	FBJ osteosarcoma oncogene	protein-coding	13.0	23.0	17.0	257.0	59.5	23.0	12.5	15.0
Merged-chr3-103802383-4	chr3	103802268	103802468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040412)	promoter-TSS (NR_040412)	-761.0	NR_040412	100503157.0	Mm.445554	NR_040412	ENSMUSG00000084997	Gm15471	-	predicted gene 15471	ncRNA	65.5	91.5	55.5	1068.5	134.5	49.5	67.5	59.0
Merged-chr5-135168414-4	chr5	135168333	135168533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009745)	promoter-TSS (NM_009745)	61.0	NM_009745	12054.0	Mm.405834	NM_009745	ENSMUSG00000029681	Bcl7b	-	B cell CLL/lymphoma 7B	protein-coding	59.0	97.0	43.0	657.5	184.0	73.0	83.5	91.5
Merged-chr14-21621111-1	chr14	21621011	21621211	+	564.5	f0_balb.idr	intron (NM_017479, intron 5 of 16)	intron (NM_017479, intron 5 of 16)	93465.0	NM_001013826	435391.0	Mm.295860	NM_001013826	ENSMUSG00000063821	Dupd1	EG435391	dual specificity phosphatase and pro isomerase domain containing 1	protein-coding	10.0	8.0	6.0	71.5	10.5	2.5	10.5	6.5
Merged-chr17-4922823-4	chr17	4922711	4922911	+	983.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72263.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	25.5	43.5	29.5	387.0	82.0	12.0	28.5	24.0
Merged-chr4-47353127-4	chr4	47353027	47353227	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009370)	promoter-TSS (NM_009370)	-95.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	395.0	491.0	385.5	5530.5	879.0	347.0	501.5	330.0
Merged-chr3-142527634-4	chr3	142527536	142527736	+	971.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2700.0	NM_001083312	229900.0	Mm.45740	NM_145545	ENSMUSG00000040253	Gbp7	9830147J24Rik	guanylate binding protein 7	protein-coding	12.5	20.0	9.5	163.5	71.5	24.5	29.0	19.5
Merged-chr8-106394581-4	chr8	106394490	106394690	+	940.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20749.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	10.0	11.5	32.5	425.0	37.0	8.0	19.5	26.5
Merged-chr7-127164259-2	chr7	127164159	127164359	+	679.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-26436.0	NM_001037810	20737.0	Mm.283714	NM_009259	ENSMUSG00000051457	Spn	A630014B01Rik|Cd43|Galgp|Ly-48|Ly48	sialophorin	protein-coding	9.0	7.5	6.0	6.5	27.5	16.0	7.0	9.5
Merged-chr14-31217846-2	chr14	31217746	31217946	+	765.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025379)	promoter-TSS (NM_001025379)	-27.0	NM_001025379	218877.0	Mm.27812	NM_001025379	ENSMUSG00000021904	Sema3g	AK129018	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G	protein-coding	7.5	5.5	8.0	74.0	16.0	7.0	6.0	5.5
Merged-chr9-13314145-3	chr9	13314041	13314241	+	964.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	67185.0	NM_025534	66396.0	Mm.290620	NM_025534	ENSMUSG00000079084	Ccdc82	2310043N13Rik	coiled-coil domain containing 82	protein-coding	51.0	34.0	43.0	723.5	21.5	10.0	6.0	3.0
Merged-chr17-34640930-4	chr17	34640819	34641019	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3964.0	NM_019873	56299.0	Mm.10025	NM_019873	ENSMUSG00000033739	Fkbpl	DIR1|NG7|Ppiase-X|Wisp39	FK506 binding protein-like	protein-coding	47.0	57.0	34.5	422.0	87.5	49.0	37.0	25.0
Merged-chr10-119040436-4	chr10	119040322	119040522	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152787, intron 3 of 3)	intron (NR_152787, intron 3 of 3)	10077.0	NR_152787	102636674.0	Mm.399320	NR_152787	ENSMUSG00000112778	Gm33677	-	predicted gene, 33677	ncRNA	22.5	21.0	13.0	243.0	54.0	13.5	37.5	17.0
Merged-chr3-123333303-4	chr3	123333196	123333396	+	980.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027135, intron 10 of 22)	intron (NM_027135, intron 10 of 22)	52694.0	NM_201638	210529.0	Mm.260039	NM_201638	ENSMUSG00000028114	Mettl14	G430022H21Rik|mKIAA1627	methyltransferase like 14	protein-coding	20.0	15.0	25.0	551.5	172.5	43.5	86.0	105.5
Merged-chr14-33400184-4	chr14	33400081	33400281	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310452, intron 4 of 10)	MLT1C|LTR|ERVL-MaLR	10843.0	NM_001310452	26419.0	Mm.21495	NM_016700	ENSMUSG00000021936	Mapk8	AI849689|JNK|JNK1|Prkm8|SAPK1	mitogen-activated protein kinase 8	protein-coding	16.0	46.0	43.0	813.0	41.0	7.0	24.0	37.5
Merged-chr4-62369340-3	chr4	62369230	62369430	+	754.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175090, intron 1 of 4)	intron (NM_175090, intron 1 of 4)	8629.0	NM_175090	20529.0	Mm.248637	NM_175090	ENSMUSG00000066150	Slc31a1	4930445G01Rik|AI787263|AU016967|Ctr1	solute carrier family 31, member 1	protein-coding	10.0	4.5	6.5	120.5	27.5	6.0	9.5	10.5
Merged-chr19-37702895-1	chr19	37702795	37702995	+	581.0	f0_balb.idr	Intergenic	Intergenic	5087.0	NM_007811	13082.0	Mm.42230	NM_007811	ENSMUSG00000024987	Cyp26a1	Cyp26|P450RA|P450RAI|RAH	cytochrome P450, family 26, subfamily a, polypeptide 1	protein-coding	12.5	9.5	9.0	89.5	5.5	2.5	1.0	3.0
Merged-chr9-7221646-4	chr9	7221562	7221762	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37157.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	198.0	303.0	225.5	3600.0	535.5	188.5	205.0	170.5
Merged-chr17-71966426-1	chr17	71966326	71966526	+	730.0	f0_balb.idr	intron (NM_007439, intron 9 of 28)	intron (NM_007439, intron 9 of 28)	184479.0	NM_030179	78785.0	Mm.196382	NM_030179	ENSMUSG00000024059	Clip4	1700024K14Rik|1700074B05Rik|4833417L20Rik|5830409B12Rik|Rsnl2	CAP-GLY domain containing linker protein family, member 4	protein-coding	7.0	5.5	5.5	124.0	6.0	0.5	2.0	0.0
Merged-chr6-112752729-2	chr6	112752636	112752836	+	670.125	f0_balb.idr|f0_c57.idr	intron (NM_080448, intron 12 of 21)	intron (NM_080448, intron 12 of 21)	-56066.0	NM_001167730	58186.0	Mm.103812	NM_021385	ENSMUSG00000030254	Rad18	2810024C04Rik|Rad18sc	RAD18 E3 ubiquitin protein ligase	protein-coding	10.0	15.0	8.5	172.5	20.5	12.0	12.0	10.5
Merged-chr19-55741745-4	chr19	55741650	55741850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001331147)	promoter-TSS (NM_001331147)	-60.0	NM_001331147	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	123.0	220.5	135.5	1728.0	407.5	149.0	153.5	125.0
Merged-chr6-37231333-4	chr6	37231229	37231429	+	972.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 1 of 32)	intron (NM_001347104, intron 1 of 32)	68647.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	22.0	16.0	44.5	1061.5	40.0	18.0	33.0	41.0
Merged-chr6-39725554-4	chr6	39725453	39725653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139294)	promoter-TSS (NM_139294)	-90.0	NM_139294	109880.0	Mm.245513	NM_139294	ENSMUSG00000002413	Braf	9930012E13Rik|AA120551|AA387315|AA473386|B-raf|Braf-2|Braf2|C230098H17|C87398|D6Ertd631e	Braf transforming gene	protein-coding	180.5	357.0	214.5	2897.5	549.5	189.0	227.0	198.0
Merged-chr17-34862676-4	chr17	34862573	34862773	+	948.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142706)	promoter-TSS (NM_001142706)	-159.0	NM_008198	14962.0	Mm.653	NM_008198	ENSMUSG00000090231	Cfb	AI195813|AI255840|B|Bf|C2|Fb|H2-Bf	complement factor B	protein-coding	10.0	54.0	13.0	62.5	66.5	44.0	27.0	13.0
Merged-chr16-43390584-3	chr16	43390493	43390693	+	936.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181058, intron 2 of 6)	intron (NM_181058, intron 2 of 6)	29603.0	NR_046026	626693.0	Mm.447083	NR_046026	ENSMUSG00000085499	Gm15713	-	predicted gene 15713	ncRNA	3.0	4.0	15.0	105.5	18.5	6.0	5.5	5.0
Merged-chr3-148336319-4	chr3	148336215	148336415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	618320.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	22.0	27.5	43.5	571.0	46.5	18.5	23.5	23.5
Merged-chr15-88819470-4	chr15	88819339	88819539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145477)	promoter-TSS (NM_145477)	-121.0	NM_145477	223774.0	Mm.41512	NM_145477	ENSMUSG00000035845	Alg12	ECM39	asparagine-linked glycosylation 12 (alpha-1,6-mannosyltransferase)	protein-coding	304.0	547.0	352.5	3671.0	738.5	315.5	359.5	287.5
Merged-chr16-21412804-4	chr16	21412709	21412909	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10309.0	NM_001285893	209018.0	Mm.235683	NM_145948	ENSMUSG00000033653	Vps8	AI315068|AU040738|mKIAA0804	VPS8 CORVET complex subunit	protein-coding	26.0	37.5	20.5	234.5	64.5	13.0	22.5	20.5
Merged-chr13-44532898-4	chr13	44532812	44533012	+	930.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	93185.0	NR_045489	69491.0	Mm.392410	NR_045489	ENSMUSG00000098144	1700029N11Rik	-	RIKEN cDNA 1700029N11 gene	ncRNA	29.5	31.0	23.5	407.5	25.5	21.5	17.0	12.5
Merged-chr8-120620449-4	chr8	120620344	120620544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308449, intron 2 of 3)	intron (NM_001308449, intron 2 of 3)	13938.0	NM_197988	68918.0	Mm.473736	NM_197988	ENSMUSG00000043687	1190005I06Rik	-	RIKEN cDNA 1190005I06 gene	protein-coding	31.5	48.0	49.5	349.5	56.0	14.5	18.0	23.0
Merged-chr17-35824554-4	chr17	35824385	35824585	+	911.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008027, intron 4 of 12)	intron (NM_008027, intron 4 of 12)	1128.0	NM_008027	14251.0	Mm.2931	NM_008027	ENSMUSG00000059714	Flot1	reggie-2	flotillin 1	protein-coding	7.5	22.5	14.5	21.0	27.0	12.5	5.0	10.5
Merged-chr7-101362903-4	chr7	101362807	101363007	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040111, intron 1 of 33)	intron (NM_001040111, intron 1 of 33)	14838.0	NM_001040111	69710.0	Mm.277687	NM_027180	ENSMUSG00000032812	Arap1	2410002L19Rik|Centd2|mKIAA0782	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	protein-coding	209.5	352.0	235.0	2909.0	500.0	171.0	190.5	165.0
Merged-chr18-46601509-3	chr18	46601406	46601606	+	964.388855	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010120, intron 2 of 2)	intron (NM_010120, intron 2 of 2)	3802.0	NM_010120	13664.0	Mm.262037	NM_010120	ENSMUSG00000057561	Eif1a	C76390|Ef1a|Eftu|Eif4c|eIF-1A|eIF-4C	eukaryotic translation initiation factor 1A	protein-coding	11.0	17.0	13.5	179.0	15.0	13.0	8.0	12.0
Merged-chr10-111994431-5	chr10	111994329	111994529	+	941.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028608, intron 1 of 5)	L1MA7|LINE|L1	2835.0	NM_028608	73690.0	Mm.173790	NM_028608	ENSMUSG00000056888	Glipr1	2410114O14Rik|RTVP-1|RTVP1|mRTVP-1	GLI pathogenesis-related 1 (glioma)	protein-coding	26.5	22.0	22.0	484.0	39.0	13.0	27.0	31.0
Merged-chr11-29147272-3	chr11	29147175	29147375	+	716.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027869, intron 15 of 27)	(TG)n|Simple_repeat|Simple_repeat	16524.0	NM_027869	71701.0	Mm.211131	NM_027869	ENSMUSG00000020464	Pnpt1	1200003F12Rik|Old35|PNPase|Pnptl1	polyribonucleotide nucleotidyltransferase 1	protein-coding	4.5	9.0	5.5	49.5	32.5	10.0	8.0	4.5
Merged-chr15-86135507-4	chr15	86135447	86135647	+	921.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001205353, exon 19 of 19)	3' UTR (NM_001205353, exon 19 of 19)	-50181.0	NR_155352	102638208.0	Mm.415090	NR_155352	ENSMUSG00000086424	Gm15569	-	predicted gene 15569	ncRNA	12.5	24.0	6.0	125.0	11.0	15.0	9.5	11.0
Merged-chr3-28057151-4	chr3	28057066	28057266	+	923.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 12 of 25)	intron (NM_008875, intron 12 of 25)	72995.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	15.5	19.0	11.0	366.5	31.5	13.0	21.0	14.5
Merged-chr12-85169591-4	chr12	85169432	85169632	+	916.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001271705, exon 5 of 7)	exon (NM_001271705, exon 5 of 7)	6450.0	NM_001271705	18654.0	Mm.4809	NM_008827	ENSMUSG00000004791	Pgf	AI854365|PIGF|Plgf	placental growth factor	protein-coding	2.5	16.0	24.0	121.5	36.0	20.5	7.5	17.5
Merged-chr13-43122807-4	chr13	43122705	43122905	+	998.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001005748)	promoter-TSS (NM_001005748)	-34.0	NM_001005748	218194.0	Mm.160124	NM_198419	ENSMUSG00000054728	Phactr1	9630030F18Rik|Rpel1	phosphatase and actin regulator 1	protein-coding	49.0	47.5	56.0	932.5	48.5	30.0	33.5	16.0
Merged-chr1-149959954-4	chr1	149959882	149960082	+	898.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008869, intron 1 of 17)	intron (NM_008869, intron 1 of 17)	1308.0	NM_008869	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	5.5	12.0	10.5	131.5	19.0	3.0	11.0	2.0
Merged-chr5-111192109-1	chr5	111192009	111192209	+	900.0	f0_balb.idr	intron (NM_001267622, intron 6 of 22)	intron (NM_001267622, intron 6 of 22)	-138588.0	NM_001301644	56305.0	Mm.200516	NM_019640	ENSMUSG00000050017	Pitpnb	PI-TP-beta	phosphatidylinositol transfer protein, beta	protein-coding	10.5	16.0	15.0	190.5	5.0	0.0	1.0	1.0
Merged-chr6-97107031-4	chr6	97106954	97107154	+	822.799988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41829.0	NM_175313	101351.0	Mm.116802	NM_175313	ENSMUSG00000035245	Eogt	A130022J15Rik|AI447490|AW214473|AW259391|Aer61	EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase	protein-coding	17.0	27.5	7.5	383.5	38.0	4.5	15.0	6.0
Merged-chr9-118082941-4	chr9	118082863	118083063	+	762.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026442, intron 2 of 3)	intron (NM_026442, intron 2 of 3)	42441.0	NM_013727	27215.0	Mm.92705	NM_013727	ENSMUSG00000039285	Azi2	AA410145|AZ2	5-azacytidine induced gene 2	protein-coding	7.5	5.5	7.5	118.0	19.5	4.5	6.0	11.5
Merged-chr12-85397323-4	chr12	85397244	85397444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22627.0	NM_026775	68581.0	Mm.379159	NM_026775	ENSMUSG00000021248	Tmed10	1110014C03Rik|Tmp21|p23|p24delta1	transmembrane p24 trafficking protein 10	protein-coding	23.0	31.5	23.5	328.5	37.0	16.0	10.0	19.0
Merged-chr1-131095812-4	chr1	131095695	131095895	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	2048.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	68.0	92.5	110.5	1258.5	96.0	44.0	56.5	60.5
Merged-chr8-19161737-4	chr8	19161634	19161834	+	972.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	3847.0	NM_153115	78128.0	Mm.229357	NM_153115	ENSMUSG00000079842	Spag11a	9230111C08Rik|Bin1b|EP2Q|EP2e|Spag11	sperm associated antigen 11A	protein-coding	22.0	29.0	24.5	290.0	39.0	17.5	24.0	10.0
Merged-chr6-90736828-4	chr6	90736722	90736922	+	928.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356440, intron 1 of 13)	CpG	-20293.0	NM_001134383	232227.0	Mm.196943	NM_182784	ENSMUSG00000034312	Iqsec1	AW561907|BC026481|BRAG2|D6Ertd349e|cI-43	IQ motif and Sec7 domain 1	protein-coding	19.0	15.0	12.0	191.0	32.0	13.0	16.5	19.0
Merged-chr19-17166609-4	chr19	17166549	17166749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181348, intron 9 of 19)	ORR1F|LTR|ERVL-MaLR	172856.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	76.0	133.0	117.0	1472.0	193.5	77.0	63.0	79.0
Merged-chr12-70991954-4	chr12	70991868	70992068	+	964.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_045055, exon 4 of 4)	non-coding (NR_045055, exon 4 of 4)	17345.0	NM_011184	19167.0	Mm.296338	NM_011184	ENSMUSG00000060073	Psma3	Lmpc8	proteasome (prosome, macropain) subunit, alpha type 3	protein-coding	12.5	10.5	16.0	174.5	49.5	13.5	17.0	29.0
Merged-chr16-18345393-4	chr16	18345286	18345486	+	941.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359110, intron 1 of 9)	intron (NM_001359110, intron 1 of 9)	-1454.0	NM_001359111	27883.0	Mm.265990	NM_138583	ENSMUSG00000013539	Tango2	D16H22S680E|T10	transport and golgi organization 2	protein-coding	16.5	14.0	14.5	269.5	40.5	17.0	12.0	20.0
Merged-chr16-91355876-2	chr16	91355776	91355976	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3A1|LTR|ERVK	-16907.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	6.5	5.5	10.5	121.0	37.0	9.0	9.5	13.5
Merged-chr14-14804973-4	chr14	14804862	14805062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15853.0	NM_001195229	674895.0	Mm.317563	NM_001034865	ENSMUSG00000042567	Nek10	Gm282	NIMA (never in mitosis gene a)- related kinase 10	protein-coding	41.5	49.5	59.0	980.5	73.5	11.5	45.0	38.5
Merged-chr14-30591666-6	chr14	30591629	30591829	+	897.8110960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18581.0	NM_001310682	18753.0	Mm.2314	NM_011103	ENSMUSG00000021948	Prkcd	AI385711|D14Ertd420e|PKC[d]|PKCdelta|Pkcd	protein kinase C, delta	protein-coding	5.5	7.5	10.0	113.5	20.0	6.0	7.0	7.0
Merged-chr6-134079772-4	chr6	134079651	134079851	+	859.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	44051.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	4.5	12.0	6.5	118.5	42.5	18.0	11.0	8.5
Merged-chr18-9451023-3	chr18	9450880	9451080	+	658.9111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026484)	promoter-TSS (NM_026484)	-826.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	5.5	6.5	7.0	87.0	9.0	3.5	5.0	6.0
Merged-chr3-82876576-4	chr3	82876472	82876672	+	819.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001277170)	promoter-TSS (NM_001277170)	-89.0	NM_001146328	633285.0	Mm.265114	NM_001146328	ENSMUSG00000033882	Rbm46	EG633285|Gm761	RNA binding motif protein 46	protein-coding	12.0	4.5	15.5	210.5	9.0	11.0	10.0	3.5
Merged-chr7-92561334-8	chr7	92561238	92561438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001162918, exon 1 of 8)	5' UTR (NM_001162918, exon 1 of 8)	189.0	NM_001162918	66365.0	Mm.21173	NM_025515	ENSMUSG00000030613	Ccdc90b	2310015N07Rik|C86558	coiled-coil domain containing 90B	protein-coding	45.5	70.0	118.0	753.5	115.0	47.0	64.0	54.5
Merged-chr1-136140236-4	chr1	136140170	136140370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039472, intron 1 of 34)	intron (NM_001039472, intron 1 of 34)	8880.0	NR_153829	16565.0	Mm.276135	NM_019962	ENSMUSG00000041642	Kif21b	2610511N21Rik|mKIAA0449	kinesin family member 21B	protein-coding	67.0	110.5	104.5	1149.0	176.5	83.0	72.0	68.0
Merged-chr15-64240924-3	chr15	64240821	64241021	+	904.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	71752.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	9.0	5.0	5.0	130.5	9.5	6.0	9.0	4.5
Merged-chr16-44726057-4	chr16	44725932	44726132	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145972, intron 1 of 8)	intron (NM_145972, intron 1 of 8)	1731.0	NM_145972	212547.0	Mm.310573	NM_145972	ENSMUSG00000036208	Nepro	-	nucleolus and neural progenitor protein	protein-coding	51.5	73.0	40.0	740.0	163.0	50.5	35.0	43.5
Merged-chr5-123903097-4	chr5	123903004	123903204	+	881.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4171.0	NM_026603	68184.0	Mm.28549	NM_026603	ENSMUSG00000023106	Denr	1500003K04Rik	density-regulated protein	protein-coding	8.0	25.0	4.5	161.0	31.5	7.0	14.5	10.5
Merged-chr17-26640441-4	chr17	26640360	26640560	+	825.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026170, intron 8 of 9)	intron (NM_026170, intron 8 of 9)	-35936.0	NM_025272	11974.0	Mm.22602	NM_025272	ENSMUSG00000015575	Atp6v0e	Atp6k|Atp6v0e1|M9.2	ATPase, H+ transporting, lysosomal V0 subunit E	protein-coding	20.0	12.5	26.5	216.0	9.5	10.0	12.5	12.0
Merged-chr8-26123343-3	chr8	26123240	26123440	+	675.200012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357292, intron 2 of 6)	intron (NM_001357292, intron 2 of 6)	3530.0	NM_001357294	77733.0	Mm.291906	NM_029965	ENSMUSG00000013878	Rnf170	6720407G21Rik|AI481227	ring finger protein 170	protein-coding	9.0	6.0	6.0	192.5	25.5	5.0	6.0	17.0
Merged-chr17-35174656-4	chr17	35174553	35174753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019467, intron 1 of 7)	MER21C|LTR|ERVL	1399.0	NM_019467	11629.0	Mm.10747	NM_019467	ENSMUSG00000024397	Aif1	AI607846|AIF-1|D17H6S50E|G1|Iba1	allograft inflammatory factor 1	protein-coding	47.0	116.5	39.0	484.0	170.5	62.5	58.0	42.5
Merged-chr16-18412202-4	chr16	18412102	18412302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007744, intron 1 of 4)	intron (NM_007744, intron 1 of 4)	1292.0	NM_001111063	12846.0	Mm.100940	NM_007744	ENSMUSG00000000326	Comt	Comt1|D16Wsu103e|D330014B15Rik	catechol-O-methyltransferase	protein-coding	44.0	54.5	66.0	854.0	75.0	29.0	36.5	53.5
Merged-chr14-22085586-4	chr14	22085482	22085682	+	967.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028275, intron 2 of 6)	intron (NM_028275, intron 2 of 6)	65870.0	NM_028275	76633.0	Mm.489898	NM_028275	ENSMUSG00000063458	Lrmda	1700112E06Rik|2700009F18Rik	leucine rich melanocyte differentiation associated	protein-coding	12.0	21.5	24.5	381.0	61.0	17.0	38.5	16.5
Merged-chr2-73491721-4	chr2	73491639	73491839	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153138, intron 1 of 7)	intron (NM_153138, intron 1 of 7)	-5986.0	NM_001289723	215280.0	Mm.223504	NM_153138	ENSMUSG00000075284	Wipf1	AI115543|D2Ertd120e|WIP|Waspip	WAS/WASL interacting protein family, member 1	protein-coding	22.0	67.5	51.5	360.0	109.5	40.5	36.0	20.5
Merged-chr18-70622549-4	chr18	70622456	70622656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010773, intron 5 of 6)	intron (NM_010773, intron 5 of 6)	54264.0	NM_010773	17191.0	Mm.322	NM_010773	ENSMUSG00000024513	Mbd2	MBD2a	methyl-CpG binding domain protein 2	protein-coding	161.0	183.5	202.5	2407.5	384.5	158.5	162.0	146.5
Merged-chr7-75700941-4	chr7	75700846	75701046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029332, intron 16 of 36)	intron (NM_029332, intron 16 of 36)	-147392.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	13.5	23.5	17.0	411.5	30.5	20.5	20.0	23.5
Merged-chr11-82871251-4	chr11	82871138	82871338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164571)	promoter-TSS (NM_001164571)	-28.0	NM_001164571	67338.0	Mm.341608	NM_026097	ENSMUSG00000020696	Rffl	1700051E09Rik|4930516L10Rik|BG080975|Carp2	ring finger and FYVE like domain containing protein	protein-coding	158.0	255.5	154.5	1764.0	373.5	148.0	160.5	118.0
Merged-chr1-131679836-4	chr1	131679732	131679932	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8863.0	NM_001311096	226421.0	Mm.44508	NM_145509	ENSMUSG00000052688	Rab7b	5430435G22Rik	RAB7B, member RAS oncogene family	protein-coding	118.0	107.5	73.0	1300.0	232.5	93.0	102.0	114.5
Merged-chr12-102438149-4	chr12	102438058	102438258	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011175, intron 1 of 13)	intron (NM_011175, intron 1 of 13)	1655.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	45.5	69.0	95.5	1277.5	180.0	48.0	126.5	102.5
Merged-chr11-115631161-4	chr11	115631062	115631262	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2867.0	NM_001252395	67283.0	Mm.383426	NM_026071	ENSMUSG00000020744	Slc25a19	2900089E13Rik|DNC|MUP1|TPC	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	protein-coding	145.5	222.5	89.5	1301.5	327.0	134.5	120.0	114.5
Merged-chr11-113747367-4	chr11	113747277	113747477	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163346, intron 1 of 1)	intron (NM_001163346, intron 1 of 1)	3783.0	NM_020006	56699.0	Mm.293378	NM_020006	ENSMUSG00000041598	Cdc42ep4	1500041M20Rik|Borg4|CEP4	CDC42 effector protein (Rho GTPase binding) 4	protein-coding	15.0	32.0	21.5	224.0	59.5	13.0	28.5	30.0
Merged-chr1-75445939-4	chr1	75445825	75446025	+	887.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4585.0	NM_183022	241118.0	Mm.110790	NM_183022	ENSMUSG00000033007	Asic4	Accn4|BNAC4	acid-sensing (proton-gated) ion channel family member 4	protein-coding	9.0	11.0	5.5	183.0	41.5	7.5	12.5	16.0
Merged-chr9-108344956-2	chr9	108344858	108345058	+	796.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-2873.0	NM_001311157	22258.0	Mm.3974	NM_011678	ENSMUSG00000032612	Usp4	F730026I20Rik|Unp|mKIAA4155	ubiquitin specific peptidase 4 (proto-oncogene)	protein-coding	4.5	15.5	3.0	34.5	14.0	7.5	4.5	5.0
Merged-chr11-106428255-4	chr11	106428145	106428345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023913, intron 5 of 21)	intron (NM_023913, intron 5 of 21)	-45464.0	NM_010494	15896.0	Mm.394	NM_010494	ENSMUSG00000001029	Icam2	CD102|Icam-2|Ly-60	intercellular adhesion molecule 2	protein-coding	60.5	98.5	62.0	845.0	131.0	60.5	77.0	44.5
Merged-chr13-32913248-4	chr13	32913165	32913365	+	986.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15125.0	NM_173051	380839.0	Mm.250802	NM_173051	ENSMUSG00000079049	Serpinb1c	EIC|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 1c	protein-coding	16.5	22.0	16.0	342.5	68.0	17.5	34.0	20.0
Merged-chr4-95054703-4	chr4	95054588	95054788	+	910.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2466.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	13.0	11.5	7.5	241.5	61.5	13.0	11.0	15.5
Merged-chr15-78842695-3	chr15	78842636	78842836	+	852.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027219)	promoter-TSS (NM_027219)	89.0	NM_027219	104445.0	Mm.307488	NM_027219	ENSMUSG00000049521	Cdc42ep1	1810058K22Rik|AA980734|Borg5|CEP1|MSE55	CDC42 effector protein (Rho GTPase binding) 1	protein-coding	0.5	8.5	9.5	31.0	14.5	7.0	7.0	4.5
Merged-chr15-82807586-4	chr15	82807481	82807681	+	862.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13336.0	NM_029562	76279.0	Mm.439931	NM_029562	ENSMUSG00000022445	Cyp2d26	1300006E06Rik	cytochrome P450, family 2, subfamily d, polypeptide 26	protein-coding	10.5	14.0	10.0	199.0	25.0	7.5	10.0	11.0
Merged-chr4-47284253-1	chr4	47284153	47284353	+	576.0	f0_c57.idr	intron (NM_009928, intron 20 of 39)	intron (NM_009928, intron 20 of 39)	-68969.0	NM_001312868	21812.0	Mm.197552	NM_009370	ENSMUSG00000007613	Tgfbr1	ALK5|AU017191|Alk-5|ESK2|TGFR-1|TbetaR-I|TbetaRI	transforming growth factor, beta receptor I	protein-coding	6.5	10.5	4.0	48.5	25.5	15.0	10.5	6.5
Merged-chr7-100700015-4	chr7	100699919	100700119	+	772.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6616.0	NM_001362169	319604.0	Mm.260362	NM_178764	ENSMUSG00000029461	Fam168a	2610030B18Rik|B930006L02Rik|mKIAA0280	family with sequence similarity 168, member A	protein-coding	11.0	9.5	2.0	142.5	17.5	4.5	11.0	25.5
Merged-chr11-64718863-4	chr11	64718756	64718956	+	978.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-260179.0	NM_023479	68626.0	Mm.157711	NM_023479	ENSMUSG00000020549	Elac2	1110017O07Rik|D11Wsu80e|Hpc2	elaC ribonuclease Z 2	protein-coding	23.0	33.5	17.5	259.0	61.0	20.5	34.5	14.0
Merged-chr10-127229088-4	chr10	127228985	127229185	+	787.604187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008447)	TTS (NM_008447)	-17463.0	NM_001359280	117150.0	Mm.22682	NM_054097	ENSMUSG00000025417	Pip4k2c	Pip5k2c	phosphatidylinositol-5-phosphate 4-kinase, type II, gamma	protein-coding	5.0	11.5	3.5	107.5	29.5	11.0	10.5	16.0
Merged-chr6-129181834-4	chr6	129181725	129181925	+	902.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053109, intron 1 of 4)	intron (NM_053109, intron 1 of 4)	1210.0	NM_053109	93694.0	Mm.197536	NM_053109	ENSMUSG00000030157	Clec2d	Clr-b|Clrb|Ocil	C-type lectin domain family 2, member d	protein-coding	9.0	18.0	12.0	133.5	33.0	18.0	15.0	12.5
Merged-chr18-60982188-4	chr18	60982107	60982307	+	896.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177407, intron 16 of 17)	intron (NM_177407, intron 16 of 17)	18653.0	NM_001286809	12322.0	Mm.131530	NM_009792	ENSMUSG00000024617	Camk2a	CaMKII|R74975|mKIAA0968	calcium/calmodulin-dependent protein kinase II alpha	protein-coding	8.5	20.0	13.5	119.5	29.5	5.5	12.5	11.0
Merged-chr8-70538856-4	chr8	70538751	70538951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007924)	promoter-TSS (NM_007924)	-824.0	NM_007924	13716.0	Mm.271973	NM_007924	ENSMUSG00000070002	Ell	Ell1|Men	elongation factor RNA polymerase II	protein-coding	122.5	233.0	117.5	1537.0	468.5	198.5	208.5	161.5
Merged-chr13-99337699-4	chr13	99337617	99337817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026873, intron 3 of 9)	MIRb|SINE|MIR	6961.0	NM_026873	68927.0	Mm.276502	NM_026873	ENSMUSG00000021650	Ptcd2	1190005P08Rik	pentatricopeptide repeat domain 2	protein-coding	66.5	85.0	98.0	1439.0	236.5	75.0	114.0	135.5
Merged-chr15-30614589-3	chr15	30614534	30614734	+	765.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355502, intron 3 of 21)	intron (NM_001355502, intron 3 of 21)	-424492.0	NR_045186	73784.0	Mm.66947	NR_045186	ENSMUSG00000115474	4930430F21Rik	-	RIKEN cDNA 4930430F21 gene	ncRNA	18.0	6.5	7.5	329.0	0.5	0.0	1.5	1.0
Merged-chr8-106415999-4	chr8	106415921	106416121	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011764, intron 1 of 3)	intron (NM_011764, intron 1 of 3)	682.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	32.5	26.0	26.5	322.5	50.0	12.5	26.0	14.0
Merged-chr7-26253563-4	chr7	26253476	26253676	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13255.0	NM_001167540	100312477.0	Mm.480246	NM_001167540	ENSMUSG00000046130	Vmn1r184	-	vomeronasal 1 receptor, 184	protein-coding	19.0	52.5	49.5	651.5	43.5	14.0	31.5	15.0
Merged-chr15-59089933-4	chr15	59089825	59090025	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR33|LTR|ERVL	-7899.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	45.0	64.5	48.0	750.5	88.5	28.5	51.5	35.5
Merged-chr6-24160001-3	chr6	24159901	24160101	+	929.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019481, intron 1 of 14)	intron (NM_019481, intron 1 of 14)	8091.0	NM_019481	55961.0	Mm.19299	NM_019481	ENSMUSG00000029700	Slc13a1	AI314066|AI987826|NaSi-1|Nas1	solute carrier family 13 (sodium/sulfate symporters), member 1	protein-coding	6.0	25.5	19.5	143.0	1.5	0.5	1.5	2.5
Merged-chr1-59907183-4	chr1	59907080	59907280	+	957.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-5826.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	21.5	15.5	14.5	317.5	22.0	5.0	13.0	19.5
Merged-chr7-68302791-3	chr7	68302689	68302889	+	732.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013811, intron 2 of 8)	intron (NM_001013811, intron 2 of 8)	-26195.0	NR_040340	100504026.0	Mm.426764	NR_040340	ENSMUSG00000086628	Gm16157	-	predicted gene 16157	ncRNA	11.5	11.5	5.5	76.5	4.5	7.0	13.5	8.0
Merged-chr4-41723231-4	chr4	41723133	41723333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016890)	promoter-TSS (NM_016890)	-70.0	NM_016890	53598.0	Mm.29025	NM_016890	ENSMUSG00000028447	Dctn3	p24	dynactin 3	protein-coding	108.5	121.5	75.5	1047.5	313.5	135.5	125.5	116.5
Merged-chr3-33801065-4	chr3	33800988	33801188	+	854.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290502, intron 2 of 9)	intron (NM_001290502, intron 2 of 9)	905.0	NM_001290500	67120.0	Mm.275710	NM_025978	ENSMUSG00000027677	Ttc14	2700016E08Rik|4930434D01Rik|4931403I22Rik|4933402I15Rik|AI662468|AU014779|AW561908|cI-44|mKIAA1980	tetratricopeptide repeat domain 14	protein-coding	9.5	4.0	8.0	188.5	14.5	8.0	13.0	10.5
Merged-chr18-24208207-4	chr18	24208172	24208372	+	763.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361200, intron 1 of 12)	(TG)n|Simple_repeat|Simple_repeat	2278.0	NM_001160404	14423.0	Mm.30249	NM_013814	ENSMUSG00000000420	Galnt1	-	polypeptide N-acetylgalactosaminyltransferase 1	protein-coding	3.5	10.0	7.5	157.0	13.5	11.5	5.5	11.5
Merged-chr15-74897834-3	chr15	74897724	74897924	+	778.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16120.0	NM_025929	67038.0	Mm.154566	NM_025929	ENSMUSG00000063522	2010109I03Rik	Ly6m	RIKEN cDNA 2010109I03 gene	protein-coding	1.0	2.0	0.0	2.0	21.0	4.5	15.0	9.5
Merged-chr10-14531245-4	chr10	14531122	14531322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002268, intron 2 of 24)	intron (NM_001002268, intron 2 of 24)	13814.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	39.0	58.5	57.0	722.5	114.0	45.5	51.5	32.5
Merged-chr4-49597374-6	chr4	49597224	49597424	+	923.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_149725, exon 1 of 3)	non-coding (NR_149725, exon 1 of 3)	146.0	NR_149725	67063.0	Mm.454013	NM_025944	ENSMUSG00000039611	Tmem246	2810432L12Rik|9330170P15Rik|AI835809	transmembrane protein 246	protein-coding	12.0	7.0	21.0	155.5	20.5	7.5	11.0	10.0
Merged-chr2-60323676-4	chr2	60323644	60323844	+	956.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013825, intron 24 of 34)	intron (NM_013825, intron 24 of 34)	-39260.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	4.5	9.0	5.0	67.0	24.0	6.5	5.5	2.5
Merged-chr11-51820155-3	chr11	51820063	51820263	+	778.5	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357588, intron 11 of 12)	B3|SINE|B2	37318.0	NM_199299	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	6.0	11.0	5.0	53.5	32.0	9.0	3.5	9.5
Merged-chr16-50373821-2	chr16	50373721	50373921	+	860.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 2 of 16)	intron (NM_027444, intron 2 of 16)	58568.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	3.5	8.0	4.0	122.5	20.0	5.5	6.0	5.5
Merged-chr3-59205713-4	chr3	59205626	59205826	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 15 of 43)	intron (NM_177855, intron 15 of 43)	5156.0	NM_028808	74191.0	Mm.90067	NM_028808	ENSMUSG00000036362	P2ry13	2010001L06Rik|GPCR1|GPR94|Gpr86|P2Y13|P2yr13|SP174	purinergic receptor P2Y, G-protein coupled 13	protein-coding	35.5	79.0	15.5	512.5	66.5	32.0	22.0	33.5
Merged-chr14-103186851-4	chr14	103186754	103186954	+	938.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207215, intron 49 of 84)	Lx6|LINE|L1	-87288.0	NM_001360342	50789.0	Mm.214746	NM_015822	ENSMUSG00000022124	Fbxl3	AU041772|AW212966|FBK|Fbl3a|Fbxl3a|Ovtm|Play68	F-box and leucine-rich repeat protein 3	protein-coding	13.5	11.5	19.5	375.5	38.5	20.5	22.5	14.5
Merged-chr6-127142284-3	chr6	127142184	127142384	+	857.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009829, intron 3 of 4)	intron (NM_009829, intron 3 of 4)	-7105.0	NR_040274	77558.0	Mm.358918	NR_040273	ENSMUSG00000097166	9330179D12Rik	-	RIKEN cDNA 9330179D12 gene	ncRNA	12.5	10.0	10.5	49.5	24.5	4.5	7.5	5.5
Merged-chr4-134092643-4	chr4	134092530	134092730	+	957.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001162970)	TTS (NM_001162970)	2443.0	NM_013706	23833.0	Mm.24130	NM_013706	ENSMUSG00000000682	Cd52	AI463198|B7|B7-Ag|CAMPATH-1|CLS1|MB7	CD52 antigen	protein-coding	20.5	18.0	3.0	192.5	43.0	17.0	20.0	15.0
Merged-chr8-111259175-5	chr8	111258998	111259198	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009149, exon 1 of 26)	exon (NM_009149, exon 1 of 26)	104.0	NM_009149	20340.0	Mm.276271	NM_009149	ENSMUSG00000003316	Glg1	AI593353|AW537898|CFR|CFR-1|ESL-1|MG-160|MG160|Selel	golgi apparatus protein 1	protein-coding	31.0	59.5	34.5	550.5	94.5	51.0	43.0	65.0
Merged-chr11-98963862-3	chr11	98963752	98963952	+	902.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001176528, intron 1 of 7)	intron (NM_001176528, intron 1 of 7)	-1020.0	NM_001361954	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	12.0	11.5	11.5	134.0	10.5	6.5	8.5	7.0
Merged-chr13-34002787-4	chr13	34002631	34002831	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009068)	promoter-TSS (NM_009068)	63.0	NM_001243192	20719.0	Mm.252210	NM_009254	ENSMUSG00000060147	Serpinb6a	4930482L21Rik|D330015H01Rik|PI-6|Serpinb6|Spi3|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 6a	protein-coding	46.0	49.5	65.5	579.0	144.5	55.0	42.0	54.5
Merged-chr9-57162639-2	chr9	57162539	57162739	+	951.3333130000001	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4340.0	NM_025417	66199.0	Mm.41687	NM_025417	ENSMUSG00000032299	Commd4	1110039H05Rik	COMM domain containing 4	protein-coding	2.5	12.0	0.5	38.0	6.5	7.0	7.5	5.0
Merged-chr12-79156995-4	chr12	79156882	79157082	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_009705)	TTS (NM_009705)	15476.0	NM_016800	53612.0	Mm.265929	NM_016800	ENSMUSG00000021124	Vti1b	AU015348|GES30|MVti1b|SNARE|Vti1-rp1	vesicle transport through interaction with t-SNAREs 1B	protein-coding	95.0	119.0	92.0	1529.5	74.5	27.5	48.5	44.0
Merged-chr11-94990918-4	chr11	94990816	94991016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172261)	promoter-TSS (NM_172261)	-296.0	NM_172261	217124.0	Mm.229087	NM_172261	ENSMUSG00000038976	Ppp1r9b	SPL|Spn	protein phosphatase 1, regulatory subunit 9B	protein-coding	48.0	73.0	34.0	577.5	138.0	61.5	64.0	63.5
Merged-chr14-122181615-4	chr14	122181508	122181708	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029556)	promoter-TSS (NM_029556)	-86.0	NM_029556	69634.0	Mm.34608	NM_029556	ENSMUSG00000025545	Clybl	0610033J05Rik|2310014M14Rik|AI256068|Clb	citrate lyase beta like	protein-coding	189.0	258.5	212.5	4029.0	433.5	132.5	252.0	125.5
Merged-chr4-150220814-4	chr4	150220712	150220912	+	886.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16385.0	NM_023119	13806.0	Mm.70666	NM_023119	ENSMUSG00000063524	Eno1	0610008I15|AL022784|Eno-1|MBP-1	enolase 1, alpha non-neuron	protein-coding	12.5	17.0	15.5	245.0	24.0	4.5	11.5	11.0
Merged-chr12-80877866-4	chr12	80877788	80877988	+	833.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_178682, exon 6 of 6)	3' UTR (NM_178682, exon 6 of 6)	46559.0	NR_033786	67340.0	Mm.386790	NR_033786	ENSMUSG00000101912	1700052I22Rik	-	RIKEN cDNA 1700052I22 gene	ncRNA	16.5	13.0	9.0	196.5	22.5	17.5	10.5	11.5
Merged-chr2-120291797-4	chr2	120291697	120291897	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-2728.0	NM_001024137	78390.0	Mm.330507	NM_001024137	ENSMUSG00000070719	Pla2g4d	2610311B01Rik|Pla2delta|cPLA2delta	phospholipase A2, group IVD	protein-coding	55.0	54.0	64.5	1202.5	204.5	45.0	92.5	89.0
Merged-chr16-30821342-2	chr16	30821242	30821442	+	929.6666869999999	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	221619.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	13.0	9.5	4.5	21.0	5.5	13.5	2.5	8.5
Merged-chr18-7756982-3	chr18	7756882	7757082	+	810.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-111850.0	NM_001282093	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	4.5	2.5	2.0	75.5	26.0	10.5	8.5	13.5
Merged-chr7-80025203-4	chr7	80025119	80025319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145999, intron 1 of 4)	CpG	405.0	NM_001146000	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	72.5	79.5	46.5	1131.0	123.0	59.0	65.0	79.0
Merged-chr6-135192089-4	chr6	135191967	135192167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040296, exon 4 of 5)	non-coding (NR_040296, exon 4 of 5)	3587.0	NR_040296	100502888.0	Mm.437844	NR_040296	ENSMUSG00000108239	Gm19434	-	predicted gene, 19434	ncRNA	21.5	43.0	29.5	426.5	42.0	16.5	38.0	37.0
Merged-chr6-121247167-4	chr6	121247053	121247253	+	820.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011909, intron 1 of 10)	intron (NM_011909, intron 1 of 10)	1247.0	NM_011909	24110.0	Mm.326911	NM_011909	ENSMUSG00000030107	Usp18	1110058H21Rik|AW047653|UBP43|Ubp15	ubiquitin specific peptidase 18	protein-coding	10.5	8.0	7.0	117.0	26.0	1.5	3.5	8.0
Merged-chr18-68301289-2	chr18	68301189	68301389	+	712.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153794)	promoter-TSS (NM_153794)	869.0	NM_001361003	67897.0	Mm.27544	NM_026440	ENSMUSG00000009535	Rnmt	2610002P10Rik|AI848273|Rg7mt1|mKIAA0398	RNA (guanine-7-) methyltransferase	protein-coding	0.0	6.5	11.0	53.0	12.5	12.5	8.0	7.0
Merged-chr9-44772909-4	chr9	44772820	44773020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023831)	promoter-TSS (NM_023831)	-89.0	NM_023831	76568.0	Mm.278597	NM_023831	ENSMUSG00000002031	Ift46	1500035H01Rik|AA408110|AI663846|R75047|c11orf2	intraflagellar transport 46	protein-coding	104.0	141.0	65.0	764.5	231.5	77.0	104.5	66.5
Merged-chr11-87462541-4	chr11	87462445	87462645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199293, intron 2 of 30)	intron (NM_001199293, intron 2 of 30)	34954.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	28.5	79.5	55.5	277.5	104.0	33.5	45.0	34.0
Merged-chr15-38709697-4	chr15	38709635	38709835	+	893.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18781.0	NR_131206	105463124.0	Mm.432448	NR_131206	ENSMUSG00000115620	Gm45924	Borg	predicted gene, 45924	ncRNA	10.5	10.5	26.0	289.0	10.5	10.0	11.5	18.0
Merged-chr10-80017595-4	chr10	80017499	80017699	+	935.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347074, intron 1 of 22)	intron (NM_001347074, intron 1 of 22)	684.0	NM_001347074	70719.0	Mm.243954	NM_027521	ENSMUSG00000035697	Arhgap45	6330406L22Rik|AW539505|Ha-1|Hmha1	Rho GTPase activating protein 45	protein-coding	22.0	17.5	19.5	241.5	44.5	10.5	10.5	20.5
Merged-chr6-116133969-4	chr6	116133868	116134068	+	906.383301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177412, exon 3 of 6)	exon (NM_177412, exon 3 of 6)	59406.0	NM_177412	330401.0	Mm.425352	NM_177412	ENSMUSG00000030126	Tmcc1	3632431M01Rik|mKIAA0779	transmembrane and coiled coil domains 1	protein-coding	21.5	31.0	11.0	199.5	24.0	6.0	12.5	18.5
Merged-chr16-77128865-4	chr16	77128772	77128972	+	965.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114803.0	NM_013918	30940.0	Mm.40986	NM_013918	ENSMUSG00000022867	Usp25	-	ubiquitin specific peptidase 25	protein-coding	13.5	15.0	18.5	278.5	52.0	5.0	19.5	9.5
Merged-chr8-6144813-3	chr8	6144725	6144925	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1039538.0	NM_011388	20494.0	Mm.3500	NM_011388	ENSMUSG00000023073	Slc10a2	9130221J18Rik|AI605518|ASBT|IBAT|ISBT	solute carrier family 10, member 2	protein-coding	1.0	0.0	0.0	14.0	33.5	7.0	35.0	29.0
Merged-chr10-127678172-4	chr10	127678117	127678317	+	856.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173732, intron 1 of 6)	intron (NM_173732, intron 1 of 6)	1152.0	NM_001113211	210035.0	Mm.251075	NM_173732	ENSMUSG00000040195	Nemp1	Tmem194|Tmem194a	nuclear envelope integral membrane protein 1	protein-coding	7.0	14.5	0.5	62.5	26.0	7.0	10.0	22.5
Merged-chr13-60895530-4	chr13	60895413	60895613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001145801, exon 4 of 4)	3' UTR (NM_001145801, exon 4 of 4)	1934.0	NM_007797	13025.0	Mm.30144	NM_007797	ENSMUSG00000074874	Ctla2b	AW545568|Ctla-2b	cytotoxic T lymphocyte-associated protein 2 beta	protein-coding	16.0	33.5	46.0	792.5	58.5	19.0	54.5	55.5
Merged-chr18-78161563-4	chr18	78161442	78161642	+	793.200012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_207651, intron 13 of 21)	intron (NM_207651, intron 13 of 21)	17630.0	NM_001110273	27411.0	Mm.44158	NM_030683	ENSMUSG00000024552	Slc14a2	UT-A1|UT-A3	solute carrier family 14 (urea transporter), member 2	protein-coding	5.5	15.5	12.5	138.5	27.5	18.5	14.0	12.0
Merged-chr13-34188511-5	chr13	34188452	34188652	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033167, intron 10 of 10)	intron (NM_001033167, intron 10 of 10)	25588.0	NM_001110515	69666.0	Mm.24788	NM_001101430	ENSMUSG00000071451	Psmg4	PAC-4|mPAC4	proteasome (prosome, macropain) assembly chaperone 4	protein-coding	17.5	29.0	30.5	424.0	48.5	16.5	15.0	24.5
Merged-chr3-51709379-4	chr3	51709301	51709501	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	RMER15|LTR|ERVL	48222.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	166.0	257.0	195.5	3280.0	280.0	121.5	123.0	127.0
Merged-chr1-172347605-4	chr1	172347497	172347697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	Charlie1b|DNA|hAT-Charlie	6387.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	58.0	75.5	55.0	849.5	124.0	50.0	60.5	46.5
Merged-chr12-40038068-4	chr12	40037941	40038141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007487)	promoter-TSS (NM_007487)	-54.0	NM_001039515	11861.0	Mm.12723	NM_007487	ENSMUSG00000047446	Arl4a	AI467555|Arl4	ADP-ribosylation factor-like 4A	protein-coding	155.0	221.0	124.0	2481.0	405.0	184.5	225.5	193.5
Merged-chr10-81544576-2	chr10	81544476	81544676	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010301, intron 1 of 6)	CpG	470.0	NM_010301	14672.0	Mm.260925	NM_010301	ENSMUSG00000034781	Gna11	Dsk7|E430025L19	guanine nucleotide binding protein, alpha 11	protein-coding	6.5	3.5	5.0	127.0	29.0	9.0	10.5	10.5
Merged-chr11-77348237-4	chr11	77348126	77348326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291190)	promoter-TSS (NM_001291190)	-54.0	NM_001291190	237860.0	Mm.440381	NM_177710	ENSMUSG00000037926	Ssh2	SSH-2|SSH-2L|mSSH-2L	slingshot protein phosphatase 2	protein-coding	58.5	89.0	42.0	593.5	160.5	79.0	69.5	60.5
Merged-chr19-11324252-4	chr19	11324168	11324368	+	778.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027836, intron 5 of 6)	intron (NM_027836, intron 5 of 6)	10427.0	NM_001276398	109225.0	Mm.491251	NM_027836	ENSMUSG00000024672	Ms4a7	9130422I10Rik|A430103C15Rik|CD20l4|CFFMA	membrane-spanning 4-domains, subfamily A, member 7	protein-coding	6.0	16.0	7.5	155.5	30.0	9.0	3.0	3.5
Merged-chr10-7820378-4	chr10	7820284	7820484	+	908.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026141, intron 12 of 12)	intron (NM_026141, intron 12 of 12)	-12086.0	NM_172785	237256.0	Mm.140055	NM_172785	ENSMUSG00000039981	Zc3h12d	D730019B10Rik|TFL	zinc finger CCCH type containing 12D	protein-coding	10.0	25.5	4.5	192.0	24.5	4.0	14.5	15.0
Merged-chr15-103365607-5	chr15	103365532	103365732	+	854.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001314041, intron 1 of 30)	intron (NM_001314041, intron 1 of 30)	1159.0	NM_010577	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	18.0	18.0	8.5	87.5	27.0	15.0	7.0	11.0
Merged-chr7-90060117-4	chr7	90060017	90060217	+	914.895874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30958.0	NR_110364	319711.0	Mm.31753	NR_015614	ENSMUSG00000097585	E230029C05Rik	AI452102|B230337J15|Gm26529|Gm32094	RIKEN cDNA E230029C05 gene	ncRNA	17.0	15.5	8.0	81.5	39.0	14.5	8.0	5.5
Merged-chr3-96596000-2	chr3	96595900	96596100	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024851)	promoter-TSS (NM_001024851)	-636.0	NM_001024851	545554.0	Mm.267664	NM_001024851	ENSMUSG00000049097	Ankrd34a	AW060394|Ankrd34	ankyrin repeat domain 34A	protein-coding	5.5	6.0	6.5	32.0	4.0	3.0	2.5	7.5
Merged-chr1-105780595-4	chr1	105780488	105780688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009399)	promoter-TSS (NM_009399)	-135.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	27.0	47.5	25.5	439.5	78.5	20.5	24.0	27.0
Merged-chr2-105675466-4	chr2	105675368	105675568	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013627)	promoter-TSS (NM_013627)	-276.0	NM_001244200	18508.0	Mm.3608	NM_013627	ENSMUSG00000027168	Pax6	1500038E17Rik|AEY11|Dey|Gsfaey11|Pax-6|Sey	paired box 6	protein-coding	23.5	35.5	33.5	618.5	18.0	8.0	25.0	25.5
Merged-chr8-119826188-4	chr8	119826086	119826286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	14393.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	92.5	126.0	114.5	1609.5	192.0	87.0	102.0	110.5
Merged-chr5-139456845-4	chr5	139456744	139456944	+	993.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028469, intron 1 of 4)	PB1D10|SINE|Alu	3690.0	NM_028469	73212.0	Mm.84294	NM_028469	ENSMUSG00000053553	3110082I17Rik	AW411904	RIKEN cDNA 3110082I17 gene	protein-coding	27.5	24.5	19.5	484.0	58.0	7.5	30.0	20.0
Merged-chr8-34689912-3	chr8	34689810	34690010	+	995.2777710000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER88|LTR|ERVL	-49594.0	NR_040706	330734.0	Mm.149998	NR_040706	ENSMUSG00000109819	B930018H19Rik	B930018H19	RIKEN cDNA B930018H19 gene	ncRNA	2.0	4.5	3.5	46.5	69.5	23.5	19.5	29.0
Merged-chr9-44074567-2	chr9	44074467	44074667	+	933.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_016808, intron 1 of 12)	intron (NM_016808, intron 1 of 12)	5138.0	NM_016808	53376.0	Mm.272770	NM_016808	ENSMUSG00000032010	Usp2	B930035K21Rik|Ubp41	ubiquitin specific peptidase 2	protein-coding	1.5	8.5	1.0	46.5	12.0	5.5	4.5	5.0
Merged-chr13-59821090-4	chr13	59821009	59821209	+	892.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153538, intron 2 of 27)	C-rich|Low_complexity|Low_complexity	2038.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	26.0	8.0	9.0	202.5	29.0	8.0	17.0	15.0
Merged-chr13-63007651-4	chr13	63007575	63007775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289926, intron 1 of 15)	L1_Mus3|LINE|L1	42782.0	NM_001289924	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	72.0	90.0	59.0	443.0	158.5	49.0	72.5	66.0
Merged-chr14-84454274-4	chr14	84454165	84454365	+	911.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013753, intron 1 of 3)	intron (NM_001013753, intron 1 of 3)	10702.0	NM_001013753	219228.0	Mm.153643	NM_001013753	ENSMUSG00000035566	Pcdh17	C030033F14Rik|Gm78	protocadherin 17	protein-coding	24.0	47.0	43.0	584.5	21.5	10.5	12.0	9.5
Merged-chr4-125066714-4	chr4	125066629	125066829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175246)	promoter-TSS (NM_175246)	57.0	NM_001356560	76793.0	Mm.22548	NM_175246	ENSMUSG00000050213	Snip1	2410133M08Rik	Smad nuclear interacting protein 1	protein-coding	63.5	74.0	62.0	827.5	142.5	59.0	82.5	58.0
Merged-chr14-65834046-4	chr14	65833941	65834141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028039)	promoter-TSS (NM_028039)	-72.0	NM_028039	71988.0	Mm.249280	NM_028039	ENSMUSG00000022034	Esco2	2410004I17Rik|D030072L07Rik	establishment of sister chromatid cohesion N-acetyltransferase 2	protein-coding	281.0	439.5	208.5	3449.5	604.5	228.5	258.0	192.5
Merged-chr19-10022554-6	chr19	10022439	10022639	+	823.4055179999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153790, intron 1 of 10)	intron (NR_153790, intron 1 of 10)	4345.0	NM_001347430	74760.0	Mm.281969	NM_144538	ENSMUSG00000024663	Rab3il1	1200014K04Rik|AI115013|C76746|Rab3ail1	RAB3A interacting protein (rabin3)-like 1	protein-coding	21.0	8.5	6.5	322.5	26.0	17.0	8.0	11.0
Merged-chr5-20847154-1	chr5	20847054	20847254	+	774.5	f0_balb.idr	intron (NM_172992, intron 2 of 17)	intron (NM_172992, intron 2 of 17)	34970.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	6.0	8.5	13.0	118.0	20.0	2.5	6.5	8.0
Merged-chr2-148407378-6	chr2	148407256	148407456	+	942.966675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_009378, exon 1 of 1)	exon (NM_009378, exon 1 of 1)	832.0	NM_009378	21824.0	Mm.24096	NM_009378	ENSMUSG00000074743	Thbd	AI385582|CD141|TM	thrombomodulin	protein-coding	7.5	14.5	16.5	234.5	17.5	9.5	7.0	10.5
Merged-chr9-40192284-4	chr9	40192170	40192370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030713)	promoter-TSS (NM_030713)	-46.0	NR_153114	80902.0	Mm.132196	NM_030713	ENSMUSG00000025602	Zfp202	C130037E22Rik|Znf202	zinc finger protein 202	protein-coding	50.0	63.5	48.0	848.0	118.0	37.5	45.0	40.0
Merged-chr7-83722669-4	chr7	83722548	83722748	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001360087, exon 2 of 19)	exon (NM_001360087, exon 2 of 19)	9750.0	NM_001360087	16170.0	Mm.10137	NM_010551	ENSMUSG00000001741	Il16	mKIAA4048	interleukin 16	protein-coding	60.0	66.0	66.0	1128.0	130.5	41.5	70.5	52.0
Merged-chr2-46185414-3	chr2	46185312	46185512	+	746.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	488807.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	4.0	12.0	18.0	204.0	13.0	6.5	12.0	9.0
Merged-chr11-63908693-4	chr11	63908582	63908782	+	815.991699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018805, intron 1 of 1)	ORR1E|LTR|ERVL-MaLR	13602.0	NM_018805	54710.0	Mm.274426	NM_018805	ENSMUSG00000070407	Hs3st3b1	3-OST-3B|3OST3B1|3Ost3b|AU041882|AW536289|Hs3st3b|m3-OST-3B	heparan sulfate (glucosamine) 3-O-sulfotransferase 3B1	protein-coding	7.0	8.5	10.0	92.0	29.0	20.0	16.5	17.5
Merged-chr10-81550355-4	chr10	81550232	81550432	+	930.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5286.0	NM_010301	14672.0	Mm.260925	NM_010301	ENSMUSG00000034781	Gna11	Dsk7|E430025L19	guanine nucleotide binding protein, alpha 11	protein-coding	19.5	21.5	16.0	134.5	19.5	9.0	11.0	17.5
Merged-chr2-127079281-4	chr2	127079171	127079371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026678, intron 1 of 7)	RLTR28|LTR|ERVL	8614.0	NM_026678	109778.0	Mm.22028	NM_026678	ENSMUSG00000001999	Blvra	0610006A11Rik|2500001N03Rik|Blvr	biliverdin reductase A	protein-coding	29.0	47.0	18.0	279.5	77.5	25.0	35.5	43.5
Merged-chr10-79767054-4	chr10	79766945	79767145	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027505)	promoter-TSS (NR_027505)	-93.0	NR_027505	70294.0	Mm.466670	NM_144528	ENSMUSG00000035890	Rnf126	2610010O19Rik	ring finger protein 126	protein-coding	157.0	210.0	176.5	2171.0	396.0	174.5	199.0	186.5
Merged-chr7-114890293-4	chr7	114890196	114890396	+	981.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58354.0	NR_040317	101786.0	Mm.395157	NR_040317	ENSMUSG00000108379	A730082K24Rik	AU044236	RIKEN cDNA A730082K24 gene	ncRNA	41.0	32.0	21.5	437.0	72.5	11.5	16.0	20.0
Merged-chr11-119086333-4	chr11	119086240	119086440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007625)	promoter-TSS (NM_007625)	-103.0	NM_007625	12418.0	Mm.268070	NM_007625	ENSMUSG00000039989	Cbx4	MPc2|PC2	chromobox 4	protein-coding	141.0	212.0	92.5	1379.5	387.0	136.5	147.5	127.5
Merged-chr9-23594826-4	chr9	23594725	23594925	+	986.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAAA)n|Simple_repeat|Simple_repeat	371749.0	NM_028472	73230.0	Mm.335020	NM_028472	ENSMUSG00000031963	Bmper	3110056H04Rik|CV-2|Crim3|Cv2	BMP-binding endothelial regulator	protein-coding	26.0	41.0	14.0	315.0	70.0	15.0	21.5	16.0
Merged-chr5-137831298-4	chr5	137831221	137831421	+	928.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153510, exon 3 of 7)	exon (NM_153510, exon 3 of 7)	4957.0	NM_153510	231805.0	Mm.379385	NM_153510	ENSMUSG00000046245	Pilra	AV021745|FDF03	paired immunoglobin-like type 2 receptor alpha	protein-coding	29.0	33.5	7.5	291.0	41.0	18.0	25.5	22.0
Merged-chr4-148164264-4	chr4	148164143	148164343	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_176848, exon 2 of 6)	exon (NM_176848, exon 2 of 6)	3575.0	NM_176848	230904.0	Mm.262287	NM_176848	ENSMUSG00000041556	Fbxo2	FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4	F-box protein 2	protein-coding	47.0	45.5	29.0	504.5	45.0	22.0	43.5	32.5
Merged-chr6-54705457-4	chr6	54705376	54705576	+	909.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23852.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	12.0	14.0	15.5	159.5	38.0	11.5	15.0	10.0
Merged-chr9-25561355-4	chr9	25561254	25561454	+	862.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026189, intron 3 of 7)	intron (NM_026189, intron 3 of 7)	79757.0	NM_026189	67484.0	Mm.112977	NM_026189	ENSMUSG00000036611	Eepd1	2310005P05Rik|AI481005	endonuclease/exonuclease/phosphatase family domain containing 1	protein-coding	6.0	16.0	10.5	219.5	30.0	7.0	14.0	13.5
Merged-chr10-71356329-4	chr10	71356200	71356400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027184, intron 1 of 5)	L1MC4|LINE|L1	8537.0	NM_027184	69718.0	Mm.245867	NM_027184	ENSMUSG00000060733	Ipmk	2410017C19Rik|AA408208|Impk	inositol polyphosphate multikinase	protein-coding	27.5	34.5	27.0	581.0	48.5	25.0	26.5	29.5
Merged-chr6-5298332-4	chr6	5298218	5298418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183308)	promoter-TSS (NM_183308)	55.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	95.5	107.0	78.5	1235.5	152.0	61.0	85.5	60.0
Merged-chr1-54903090-4	chr1	54902973	54903173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081433, intron 1 of 27)	RMER19B|LTR|ERVK	23314.0	NM_001081433	329154.0	Mm.397910	NM_001081433	ENSMUSG00000052331	Ankrd44	4930444A19Rik|A130096K20|E130014H08Rik|PP6-ARS-B	ankyrin repeat domain 44	protein-coding	45.0	34.0	41.5	650.5	52.5	16.5	21.0	27.5
Merged-chr6-32511123-4	chr6	32511014	32511214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040277)	promoter-TSS (NR_040277)	-27.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	49.5	52.5	48.5	945.5	84.0	13.0	51.0	39.5
Merged-chr8-119831624-5	chr8	119831515	119831715	+	842.8666380000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028071, intron 2 of 3)	intron (NM_028071, intron 2 of 3)	8964.0	NM_028071	72042.0	Mm.393405	NM_028071	ENSMUSG00000031827	Cotl1	1810074P22Rik|2010004C08Rik|Clp	coactosin-like 1 (Dictyostelium)	protein-coding	12.0	26.0	5.0	76.0	13.0	11.5	7.5	10.5
Merged-chr1-91094475-2	chr1	91094386	91094586	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008515, intron 10 of 22)	intron (NM_008515, intron 10 of 22)	41042.0	NM_001310732	16978.0	Mm.45039	NM_008515	ENSMUSG00000026305	Lrrfip1	AU024550|Fliiap1	leucine rich repeat (in FLII) interacting protein 1	protein-coding	7.5	1.5	4.0	43.5	11.5	6.5	4.5	7.5
Merged-chr7-30956866-4	chr7	30956767	30956967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011680)	promoter-TSS (NM_011680)	-64.0	NM_011680	22282.0	Mm.322453	NM_011680	ENSMUSG00000058239	Usf2	Usf-2|bHLHb12	upstream transcription factor 2	protein-coding	43.5	48.0	15.0	459.0	96.5	37.0	37.5	45.0
Merged-chr14-51164536-4	chr14	51164431	51164631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2271.0	NM_019398	54159.0	Mm.377125	NM_019398	ENSMUSG00000059606	Rnase2b	Ear5|Raf4|mR5	ribonuclease, RNase A family, 2B (liver, eosinophil-derived neurotoxin)	protein-coding	32.5	80.5	49.5	467.0	133.5	38.5	55.5	36.5
Merged-chr12-86772204-4	chr12	86772088	86772288	+	886.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37819.0	NM_001195767	627607.0	Mm.341880	NM_001195767	ENSMUSG00000059114	Lrrc74a	EG627607|Gm6772|Lrrc74	leucine rich repeat containing 74A	protein-coding	6.0	26.5	8.0	184.0	27.0	9.5	16.0	15.5
Merged-chr7-25278993-4	chr7	25278911	25279111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302811, intron 2 of 20)	CpG	-3168.0	NM_027882	71722.0	Mm.28833	NM_027882	ENSMUSG00000005442	Cic	1200010B10Rik|mKIAA0306	capicua transcriptional repressor	protein-coding	64.0	59.0	46.5	595.0	125.5	39.0	59.5	52.5
Merged-chr7-28796818-4	chr7	28796709	28796909	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177158, exon 9 of 12)	exon (NM_177158, exon 9 of 12)	7840.0	NM_177158	320435.0	Mm.74632	NM_177158	ENSMUSG00000051735	Rinl	5830482F20Rik|9930116N10Rik	Ras and Rab interactor-like	protein-coding	86.5	127.0	78.0	1243.5	208.5	83.5	126.0	106.0
Merged-chr10-99268461-1	chr10	99268361	99268561	+	1000.0	f0_balb.idr	TTS (NM_026268)	TTS (NM_026268)	5230.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	31.5	29.0	32.0	594.0	56.5	17.0	29.0	23.5
Merged-chr5-140610502-3	chr5	140610378	140610578	+	855.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008494, intron 1 of 7)	intron (NM_008494, intron 1 of 7)	3137.0	NM_008494	16848.0	Mm.12834	NM_008494	ENSMUSG00000029570	Lfng	AW061165	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	protein-coding	7.5	8.5	19.0	80.5	4.5	4.0	2.5	4.0
Merged-chr7-114577125-3	chr7	114577021	114577221	+	808.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14149.0	NM_177382	244209.0	Mm.108037	NM_177382	ENSMUSG00000030670	Cyp2r1	-	cytochrome P450, family 2, subfamily r, polypeptide 1	protein-coding	7.0	8.0	7.0	144.0	13.0	6.0	10.5	4.5
Merged-chr11-85353072-4	chr11	85352950	85353150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166642)	promoter-TSS (NM_001166642)	-114.0	NM_001166642	192197.0	Mm.209989	NM_138681	ENSMUSG00000059439	Bcas3	1500019F07Rik|2610028P08Rik|AU021018|BC028339|K20D4|rudhira	breast carcinoma amplified sequence 3	protein-coding	174.0	270.0	113.5	2160.0	418.0	139.0	151.5	131.0
Merged-chr11-98813511-3	chr11	98813428	98813628	+	976.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138660, intron 3 of 13)	intron (NM_138660, intron 3 of 13)	-3439.0	NR_033551	100037262.0	Mm.442062	NR_033551	ENSMUSG00000075576	Gm12359	-	predicted gene 12359	ncRNA	6.5	23.0	13.0	149.5	26.0	14.0	6.5	5.5
Merged-chr6-65590346-4	chr6	65590269	65590469	+	969.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001495)	promoter-TSS (NM_001001495)	-29.0	NM_001001495	414084.0	Mm.117558	NM_001001495	ENSMUSG00000044162	Tnip3	9030611K07Rik|ABIN-3|LIND	TNFAIP3 interacting protein 3	protein-coding	11.0	45.0	15.5	133.5	57.0	18.5	13.5	14.5
Merged-chr1-37903298-4	chr1	37903180	37903380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12803.0	NM_027098	107734.0	Mm.26614	NM_027098	ENSMUSG00000026087	Mrpl30	2310001L22Rik|L30mt|MRP-L28|MRP-L30|Rpml28	mitochondrial ribosomal protein L30	protein-coding	18.0	28.5	15.5	169.5	39.5	13.0	14.0	13.5
Merged-chr9-44454325-4	chr9	44454197	44454397	+	842.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009476, intron 1 of 4)	intron (NM_009476, intron 1 of 4)	470.0	NM_009476	22269.0	Mm.4453	NM_009476	ENSMUSG00000041523	Upk2	AW491716|UPII	uroplakin 2	protein-coding	8.0	12.0	6.0	165.5	28.5	12.5	12.5	14.0
Merged-chr12-52372965-3	chr12	52372872	52373072	+	933.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	107637.0	NR_136881	102638611.0	Mm.363799	NR_136881	ENSMUSG00000111982	Gm35135	-	predicted gene, 35135	ncRNA	4.0	3.5	4.0	77.0	34.5	11.0	5.5	8.5
Merged-chr18-12796142-4	chr18	12796038	12796238	+	662.724976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252490, intron 3 of 13)	Lx7|LINE|L1	23769.0	NR_045524	64291.0	Mm.259470	NM_020573	ENSMUSG00000044252	Osbpl1a	G430090F17Rik|Gm753|ORP-1|Osbpl1b	oxysterol binding protein-like 1A	protein-coding	8.5	10.0	4.0	160.5	26.5	4.5	14.0	9.5
Merged-chr5-107611807-4	chr5	107611708	107611908	+	816.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359917, intron 6 of 12)	intron (NM_001359917, intron 6 of 12)	13847.0	NM_001359916	231571.0	Mm.482420	NM_144911	ENSMUSG00000033773	Rpap2	AW060207	RNA polymerase II associated protein 2	protein-coding	4.0	18.0	10.5	193.5	27.0	11.0	19.0	12.5
Merged-chr11-53786453-3	chr11	53786313	53786513	+	850.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	MTD|LTR|ERVL-MaLR	15940.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	2.0	3.0	3.5	48.0	12.0	7.5	6.0	6.5
Merged-chr4-132804643-4	chr4	132804544	132804744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8280.0	NM_001033308	230787.0	Mm.290912	NM_001033308	ENSMUSG00000037731	Themis2	ICB-1	thymocyte selection associated family member 2	protein-coding	119.0	204.0	106.5	1465.5	257.5	84.5	131.5	91.0
Merged-chr8-26977694-3	chr8	26977589	26977789	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001101502, intron 1 of 1)	CpG	353.0	NM_001110508	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	22.5	64.0	24.5	228.0	81.5	32.5	34.5	46.5
Merged-chr4-86657364-4	chr4	86657251	86657451	+	894.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007408, exon 8 of 8)	exon (NM_007408, exon 8 of 8)	12708.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	19.0	23.5	33.5	518.5	23.5	4.5	9.5	14.5
Merged-chr16-23234761-4	chr16	23234649	23234849	+	881.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 1 of 7)	intron (NM_001252505, intron 1 of 7)	8728.0	NM_001252505	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	10.0	11.0	10.5	212.0	27.5	15.0	24.0	12.0
Merged-chr6-115555782-4	chr6	115555674	115555874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199033, intron 4 of 11)	intron (NM_199033, intron 4 of 11)	11070.0	NM_199033	381802.0	Mm.291208	NM_199033	ENSMUSG00000042389	Tsen2	AU067695	tRNA splicing endonuclease subunit 2	protein-coding	45.0	61.0	44.5	632.0	79.5	23.5	20.0	45.5
Merged-chr13-38037194-4	chr13	38037100	38037300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027724)	promoter-TSS (NM_027724)	211.0	NM_024242	71340.0	Mm.297130	NM_024242	ENSMUSG00000021428	Riok1	3110046C13Rik|5430416A05Rik|Ad034	RIO kinase 1	protein-coding	83.5	117.0	49.0	977.5	176.5	92.5	98.5	106.0
Merged-chr14-49172589-4	chr14	49172498	49172698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027492, intron 1 of 4)	CpG	352.0	NM_027492	70646.0	Mm.275688	NM_027492	ENSMUSG00000036282	Naa30	4930487N19Rik|5730533P17Rik|AI447922|AW322455|Nat12	N(alpha)-acetyltransferase 30, NatC catalytic subunit	protein-coding	36.5	36.0	52.5	343.5	62.0	22.5	31.0	20.0
Merged-chr4-129741394-4	chr4	129741307	129741507	+	965.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011317, intron 1 of 8)	CpG	896.0	NM_011317	20218.0	Mm.8256	NM_011317	ENSMUSG00000028790	Khdrbs1	Sam68|p62|p68	KH domain containing, RNA binding, signal transduction associated 1	protein-coding	10.5	8.5	4.0	162.5	38.5	11.5	18.5	22.5
Merged-chr6-29528038-8	chr6	29527967	29528167	+	985.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001311083, intron 1 of 9)	intron (NM_001311083, intron 1 of 9)	-1215.0	NM_001252382	27056.0	Mm.6479	NM_012057	ENSMUSG00000029771	Irf5	AW491843|mirf5	interferon regulatory factor 5	protein-coding	17.0	29.0	14.5	90.0	46.5	17.5	18.5	25.0
Merged-chr15-53196012-1	chr15	53195912	53196112	+	691.0	f0_balb.idr	intron (NM_010162, intron 1 of 10)	intron (NM_010162, intron 1 of 10)	150171.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	12.0	7.5	4.5	163.5	3.5	0.5	2.0	1.5
Merged-chr18-34262983-4	chr18	34262871	34263071	+	929.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360980, intron 2 of 16)	intron (NM_001360980, intron 2 of 16)	15277.0	NM_001360979	11789.0	Mm.384171	NM_007462	ENSMUSG00000005871	Apc	AI047805|AU020952|AW124434|CC1|Min|mAPC	adenomatosis polyposis coli	protein-coding	12.5	28.0	16.0	198.0	41.5	9.5	20.0	14.0
Merged-chr6-37842958-4	chr6	37842880	37843080	+	953.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27831.0	NM_001272064	21848.0	Mm.41063	NM_145076	ENSMUSG00000029833	Trim24	A130082H20Rik|AI447469|D430004I05Rik|TIF1|TIF1-alpha|TIF1alpha|Tif1a	tripartite motif-containing 24	protein-coding	10.5	14.0	17.0	370.0	30.5	15.0	20.5	26.5
Merged-chr16-24282678-4	chr16	24282576	24282776	+	994.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-110674.0	NM_178665	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	10.5	26.0	18.0	350.5	39.0	15.5	25.0	16.5
Merged-chr9-95574106-4	chr9	95573984	95574184	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14267.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	9.0	23.5	13.0	192.0	30.0	11.5	12.0	12.0
Merged-chr13-60707515-4	chr13	60707409	60707609	+	851.291626	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 3 of 26)	intron (NM_134062, intron 3 of 26)	78855.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	7.5	6.5	9.5	83.5	12.5	3.0	2.5	7.0
Merged-chr5-4758136-4	chr5	4758038	4758238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021457)	promoter-TSS (NM_021457)	78.0	NM_021457	14362.0	Mm.246003	NM_021457	ENSMUSG00000044674	Fzd1	AW227548|FZ-1|Fz1	frizzled class receptor 1	protein-coding	44.0	40.5	44.5	943.0	60.5	30.0	42.5	19.5
Merged-chr9-7227491-4	chr9	7227391	7227591	+	834.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	42986.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	15.0	15.0	10.0	61.0	33.0	12.0	13.5	3.5
Merged-chr7-31174702-2	chr7	31174602	31174802	+	832.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	12344.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	5.0	9.0	9.0	50.5	5.5	4.5	3.5	5.5
Merged-chr12-118855336-3	chr12	118855223	118855423	+	641.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	8994.0	NM_177082	320145.0	Mm.51682	NM_177082	ENSMUSG00000048562	Sp8	D930049B17Rik|mBtd	trans-acting transcription factor 8	protein-coding	3.5	13.0	5.0	118.5	5.0	9.0	14.5	9.0
Merged-chr4-88550373-4	chr4	88550266	88550466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7879.0	NM_206870	242517.0	Mm.377261	NM_206870	ENSMUSG00000096011	Ifna15	Gm12597|Ifnaa|MuIFN-alpha-A	interferon alpha 15	protein-coding	81.5	143.0	41.0	1330.0	273.0	77.0	129.0	92.0
Merged-chr6-108213787-4	chr6	108213680	108213880	+	936.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010585, intron 1 of 61)	intron (NM_010585, intron 1 of 61)	684.0	NM_010585	16438.0	Mm.227912	NM_010585	ENSMUSG00000030102	Itpr1	D6Pas2|Gm10429|IP3R 1|IP3R1|InsP3R|Ip3r|Itpr-1|P400|Pcp-1|Pcp1|insP3R1|opt|wblo	inositol 1,4,5-trisphosphate receptor 1	protein-coding	14.0	13.0	5.5	139.0	39.0	11.5	8.0	20.0
Merged-chr1-118448407-3	chr1	118448304	118448504	+	745.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 2 of 39)	intron (NM_001359330, intron 2 of 39)	10861.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	12.0	3.5	1.0	90.0	19.0	7.0	7.5	7.0
Merged-chr1-138506836-3	chr1	138506740	138506940	+	910.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021605, intron 7 of 9)	intron (NM_021605, intron 7 of 9)	112917.0	NM_021605	59125.0	Mm.143817	NM_021605	ENSMUSG00000026393	Nek7	2810460C19Rik|AU020186	NIMA (never in mitosis gene a)-related expressed kinase 7	protein-coding	9.5	22.5	5.0	220.5	21.0	4.5	19.0	8.5
Merged-chr15-97833425-3	chr15	97833335	97833535	+	769.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001204280, intron 1 of 21)	intron (NM_001204280, intron 1 of 21)	-1668.0	NM_001204276	56233.0	Mm.384027	NM_019572	ENSMUSG00000022475	Hdac7	5830434K02Rik|HD7|HD7a|Hdac7a|mFLJ00062	histone deacetylase 7	protein-coding	11.5	14.0	5.5	157.5	4.0	4.5	8.5	8.5
Merged-chr12-3745609-4	chr12	3745512	3745712	+	993.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162465, intron 12 of 17)	intron (NM_001162465, intron 12 of 17)	-61368.0	NM_007872	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	35.0	57.0	25.0	511.5	85.5	19.5	25.5	19.0
Merged-chr2-148489114-4	chr2	148489020	148489220	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-45585.0	NM_010740	17064.0	Mm.681	NM_010740	ENSMUSG00000027435	Cd93	6030404G09Rik|AA145088|AA4.1|AW555904|C1qr1|C1qrp|Ly68	CD93 antigen	protein-coding	83.5	98.0	54.5	1455.0	177.5	57.5	74.0	71.0
Merged-chr5-115565205-4	chr5	115565196	115565396	+	943.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172719)	promoter-TSS (NM_172719)	33.0	NM_172719	231659.0	Mm.153014	NM_172719	ENSMUSG00000041638	Gcn1l1	4932409G22|AL022764|G431004K08Rik|GCN1L|Gcn1|mKIAA0219	GCN1 general control of amino-acid synthesis 1-like 1 (yeast)	protein-coding	13.0	13.0	5.0	211.0	35.0	11.0	17.5	14.0
Merged-chr4-105561003-4	chr4	105560900	105561100	+	910.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	403653.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	15.0	16.5	11.0	163.5	28.5	12.0	17.0	6.0
Merged-chr5-17880064-4	chr5	17879969	17880169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	8890.0	NM_001159558	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	219.5	376.0	315.0	3048.5	456.5	213.0	178.0	165.5
Merged-chr11-60219835-4	chr11	60219749	60219949	+	787.458313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358315, intron 1 of 18)	intron (NM_001358315, intron 1 of 18)	778.0	NM_011480	20787.0	Mm.278701	NM_011480	ENSMUSG00000020538	Srebf1	ADD1|SREBP1|bHLHd1	sterol regulatory element binding transcription factor 1	protein-coding	13.5	29.5	11.0	86.5	34.0	16.5	6.0	10.5
Merged-chr14-27116819-4	chr14	27116726	27116926	+	971.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27167.0	NM_001289686	71704.0	Mm.248606	NM_027871	ENSMUSG00000021895	Arhgef3	1200004I24Rik|9830169H03Rik|C76747|Xpln	Rho guanine nucleotide exchange factor (GEF) 3	protein-coding	37.0	63.0	38.0	486.0	42.5	14.0	20.5	10.0
Merged-chr11-4189307-4	chr11	4189200	4189400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134023, intron 1 of 8)	intron (NM_134023, intron 1 of 8)	2467.0	NM_134023	103724.0	Mm.28140	NM_134023	ENSMUSG00000034412	Tbc1d10a	AI447804|EPI64|Tbc1d10|mFLJ00288	TBC1 domain family, member 10a	protein-coding	42.0	58.5	47.0	708.0	75.0	30.0	43.0	37.5
Merged-chr11-72490047-4	chr11	72489947	72490147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153060)	promoter-TSS (NM_153060)	-127.0	NM_153060	216892.0	Mm.212812	NM_153060	ENSMUSG00000040447	Spns2	-	spinster homolog 2	protein-coding	54.0	69.5	38.5	716.0	131.0	32.0	68.5	39.0
Merged-chr1-182707686-4	chr1	182707586	182707786	+	968.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	41494.0	NM_001033547	433386.0	Mm.338103	NM_001033547	ENSMUSG00000043429	Ccdc185	4922505E12Rik	coiled-coil domain containing 185	protein-coding	9.0	8.5	19.0	211.5	78.0	16.5	19.5	38.5
Merged-chr13-60722893-4	chr13	60722792	60722992	+	964.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 10 of 26)	intron (NM_134062, intron 10 of 26)	63472.0	NM_199148	218275.0	Mm.222427	NM_199148	ENSMUSG00000042243	BC051665	-	cDNA sequence BC051665	protein-coding	33.0	43.0	26.5	537.5	34.5	12.0	24.5	26.0
Merged-chr19-8818692-4	chr19	8818548	8818748	+	847.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081196)	promoter-TSS (NM_001081196)	646.0	NM_027412	70387.0	Mm.261082	NM_027412	ENSMUSG00000071660	Ttc9c	2210019E14Rik|6330408J23Rik	tetratricopeptide repeat domain 9C	protein-coding	5.5	13.0	6.5	99.0	27.5	9.0	5.0	12.5
Merged-chr4-133056717-4	chr4	133056576	133056776	+	786.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146155, intron 3 of 6)	intron (NM_146155, intron 3 of 6)	45170.0	NM_146155	230793.0	Mm.31816	NM_146155	ENSMUSG00000037692	Ahdc1	D030015G18Rik	AT hook, DNA binding motif, containing 1	protein-coding	10.0	20.0	12.5	99.5	17.5	7.5	10.0	10.0
Merged-chr6-66958679-4	chr6	66958582	66958782	+	993.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177560, intron 3 of 4)	intron (NM_001177560, intron 3 of 4)	61791.0	NM_001177558	14701.0	Mm.234342	NM_025278	ENSMUSG00000036402	Gng12	2010305F15Rik|AA536815|AI115529|AI314170|AI842738	guanine nucleotide binding protein (G protein), gamma 12	protein-coding	19.0	27.5	16.5	313.0	50.0	7.0	20.0	13.0
Merged-chr4-118409296-4	chr4	118409191	118409391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020000)	promoter-TSS (NM_020000)	-28.0	NM_198170	230676.0	Mm.415218	NM_198170	ENSMUSG00000033253	Szt2	6430407N22|TIGR	seizure threshold 2	protein-coding	123.5	203.0	81.0	1840.0	324.0	116.5	140.0	135.5
Merged-chr16-17760865-3	chr16	17760769	17760969	+	848.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145479, intron 1 of 6)	intron (NM_145479, intron 1 of 6)	1248.0	NM_001359068	224023.0	Mm.282807	NM_145479	ENSMUSG00000022750	Klhl22	2610318I18Rik|Kelchl	kelch-like 22	protein-coding	1.5	4.0	1.0	15.5	20.0	10.0	12.0	7.0
Merged-chr16-90199220-7	chr16	90199039	90199239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CACG)n|Simple_repeat|Simple_repeat	-21603.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	50.0	60.0	54.5	674.0	109.0	42.0	44.0	41.0
Merged-chr6-22363752-4	chr6	22363633	22363833	+	974.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7652.0	NM_138587	27999.0	Mm.490307	NM_138587	ENSMUSG00000029672	Fam3c	D6Wsu176e|Ilei	family with sequence similarity 3, member C	protein-coding	18.5	20.5	27.5	477.0	49.5	10.0	30.0	16.5
Merged-chr17-56762190-4	chr17	56762065	56762265	+	999.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2586.0	NM_001360405	224907.0	Mm.293973	NM_144858	ENSMUSG00000007603	Dus3l	AI662135|AW557805	dihydrouridine synthase 3-like (S. cerevisiae)	protein-coding	34.0	54.0	14.5	288.5	78.0	23.5	45.5	32.5
Merged-chr4-150568780-4	chr4	150568654	150568854	+	951.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 11 of 22)	intron (NM_001085492, intron 11 of 22)	83420.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	19.0	13.0	16.0	189.0	32.5	9.5	20.0	19.5
Merged-chr10-78574689-7	chr10	78574614	78574814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001359303)	promoter-TSS (NM_001359303)	201.0	NM_001359301	216136.0	Mm.2644	NM_173751	ENSMUSG00000032763	Ilvbl	5830463I21|AI415009	ilvB (bacterial acetolactate synthase)-like	protein-coding	56.0	90.0	62.5	832.0	183.5	81.0	84.0	107.0
Merged-chr9-65588021-5	chr9	65587926	65588126	+	796.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001357526, exon 2 of 13)	exon (NM_001357526, exon 2 of 13)	866.0	NM_001357527	208084.0	Mm.211032	NM_172453	ENSMUSG00000041064	Pif1	4631410M14|AI449441	PIF1 5'-to-3' DNA helicase	protein-coding	3.5	11.0	3.5	119.5	15.0	7.0	6.5	22.0
Merged-chr19-32186997-3	chr19	32186898	32187098	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 5 of 9)	intron (NM_144792, intron 5 of 9)	24015.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	42.5	68.5	16.5	525.0	67.0	40.0	15.0	17.0
Merged-chr2-31162250-3	chr2	31162152	31162352	+	887.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178760, intron 1 of 17)	intron (NM_178760, intron 1 of 17)	9936.0	NM_178760	277463.0	Mm.236074	NM_178760	ENSMUSG00000000194	Gpr107	9930033D15Rik|AI790205|C530034M11|mKIAA1624	G protein-coupled receptor 107	protein-coding	9.0	9.0	6.0	103.5	8.5	2.0	10.0	5.5
Merged-chr1-138138011-3	chr1	138137917	138138117	+	817.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001268286, intron 2 of 28)	intron (NM_001268286, intron 2 of 28)	37109.0	NM_001111316	19264.0	Mm.391573	NM_011210	ENSMUSG00000026395	Ptprc	B220|CD45R|Cd45|L-CA|Ly-5|Lyt-4|T200|loc	protein tyrosine phosphatase, receptor type, C	protein-coding	7.5	16.5	7.5	101.0	27.5	3.5	4.0	7.5
Merged-chr19-38054889-4	chr19	38054789	38054989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360663)	promoter-TSS (NM_001360663)	-95.0	NM_028293	74107.0	Mm.9916	NM_028293	ENSMUSG00000024989	Cep55	1200008O12Rik|2700032M20Rik	centrosomal protein 55	protein-coding	250.0	290.5	148.5	2204.5	491.0	189.0	212.5	147.5
Merged-chr19-10940942-3	chr19	10940838	10941038	+	731.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_023731)	TTS (NM_023731)	3778.0	NM_009962	14764.0	Mm.470721	NM_009962	ENSMUSG00000034117	Ptgdr2	Crth2|Gpr44|Grp45	prostaglandin D2 receptor 2	protein-coding	4.0	7.0	1.0	12.0	24.0	6.0	10.0	9.0
Merged-chr19-34522250-6	chr19	34522153	34522353	+	873.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	5221.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	10.0	13.5	11.0	108.5	20.5	10.5	9.0	17.0
Merged-chr14-61801270-2	chr14	61801170	61801370	+	986.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-118897.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	11.0	9.0	7.0	50.0	13.5	8.5	2.5	5.0
Merged-chr1-140268543-3	chr1	140268427	140268627	+	710.366638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081027, intron 1 of 27)	intron (NM_001081027, intron 1 of 27)	22270.0	NM_001081027	240776.0	Mm.483845	NM_001081027	ENSMUSG00000052726	Kcnt2	E330038N15Rik|Slick	potassium channel, subfamily T, member 2	protein-coding	9.0	6.0	15.5	209.0	13.5	7.5	7.0	6.0
Merged-chr4-116672953-4	chr4	116672864	116673064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12635.0	NM_011034	18477.0	Mm.30929	NM_011034	ENSMUSG00000028691	Prdx1	MSP23|NkefA|OSF-3|OSF3|PAG|Paga|PrdxI|PrxI|TDX2|TPxA|Tdpx2|prx1	peroxiredoxin 1	protein-coding	77.0	131.0	76.0	1652.0	249.0	84.0	120.0	99.5
Merged-chr12-91789955-4	chr12	91789855	91790055	+	946.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3519.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	21.0	20.5	16.0	187.5	40.5	8.0	9.0	16.5
Merged-chr14-9390340-4	chr14	9390246	9390446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-493749.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	102.5	83.0	105.0	1564.0	166.5	58.5	92.0	81.5
Merged-chr8-122561393-4	chr8	122561289	122561489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6626.0	NM_026014	67177.0	Mm.21873	NM_026014	ENSMUSG00000006585	Cdt1	2610318F11Rik|AW545653|C76791|Ris2	chromatin licensing and DNA replication factor 1	protein-coding	57.5	47.5	83.5	1723.0	80.0	24.0	48.5	54.5
Merged-chr8-106388000-1	chr8	106387900	106388100	+	592.333313	f0_balb.idr	Intergenic	Intergenic	-27339.0	NM_011764	22751.0	Mm.295582	NM_011764	ENSMUSG00000031907	Zfp90	6430515L01Rik|KRAB17|NK10|Zfp64|Zfp83|mKIAA1954	zinc finger protein 90	protein-coding	8.5	6.0	10.0	67.5	5.5	4.0	4.0	8.5
Merged-chr2-13170154-3	chr2	13170041	13170241	+	919.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009105, intron 7 of 8)	intron (NM_009105, intron 7 of 8)	101274.0	NM_009105	20163.0	Mm.905	NM_009105	ENSMUSG00000026727	Rsu1	RsuI|rsp-1	Ras suppressor protein 1	protein-coding	5.5	8.5	3.5	238.5	24.0	12.0	18.0	19.0
Merged-chr10-81037349-4	chr10	81037250	81037450	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001358898)	promoter-TSS (NM_001358898)	-19.0	NM_134135	106947.0	Mm.5353	NM_134135	ENSMUSG00000046822	Slc39a3	AI845814|ZIP-3|Zip3	solute carrier family 39 (zinc transporter), member 3	protein-coding	91.0	136.0	86.0	769.0	211.0	89.5	95.5	121.5
Merged-chr5-115158836-4	chr5	115158779	115158979	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175403)	promoter-TSS (NM_175403)	-703.0	NM_175403	109154.0	Mm.153963	NM_175403	ENSMUSG00000048578	Mlec	2410014A08Rik|AI850530|ESTM19|X83352|mKIAA0152	malectin	protein-coding	49.5	60.0	29.0	648.0	80.5	36.0	35.5	45.0
Merged-chr18-76378900-4	chr18	76378787	76378987	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	116442.0	NM_001311070	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	26.0	48.5	30.5	455.5	91.5	18.0	40.0	22.5
Merged-chr10-60817040-4	chr10	60816943	60817143	+	967.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029770, intron 1 of 16)	intron (NM_029770, intron 1 of 16)	14538.0	NM_029770	107449.0	Mm.290433	NM_029770	ENSMUSG00000020099	Unc5b	6330415E02Rik|A630020F16|D10Bwg0792e|Unc5h2	unc-5 netrin receptor B	protein-coding	14.5	40.0	17.0	455.0	36.0	21.0	28.5	18.5
Merged-chr2-166906412-4	chr2	166906307	166906507	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023565, intron 1 of 24)	CpG	311.0	NM_023565	110750.0	Mm.22417	NM_023565	ENSMUSG00000002718	Cse1l	2610100P18Rik|AA407533|Capts|Cas|Xpo2	chromosome segregation 1-like (S. cerevisiae)	protein-coding	118.0	159.0	80.0	1391.5	373.0	150.5	128.0	141.5
Merged-chr6-86583770-4	chr6	86583673	86583873	+	911.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44401.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	3.0	11.0	6.5	230.0	30.0	10.5	21.5	7.5
Merged-chr1-131089916-4	chr1	131089808	131090008	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008551, intron 1 of 9)	intron (NM_008551, intron 1 of 9)	7935.0	NM_008551	17164.0	Mm.221235	NM_008551	ENSMUSG00000016528	Mapkapk2	AA960234|MAPKAP-K2|MK-2|MK2|Rps6kc1	MAP kinase-activated protein kinase 2	protein-coding	25.0	45.5	43.0	496.0	57.0	18.5	26.5	24.5
Merged-chr17-94835370-3	chr17	94835271	94835471	+	730.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045963)	promoter-TSS (NR_045963)	-572.0	NR_045963	100038746.0	Mm.456686	NR_045963	ENSMUSG00000066057	Gm1976	100038868	predicted gene 1976	ncRNA	16.0	17.0	7.0	134.0	26.5	9.0	6.5	12.0
Merged-chr1-157139502-3	chr1	157139368	157139568	+	877.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_177644, exon 18 of 18)	3' UTR (NM_177644, exon 18 of 18)	-30788.0	NM_001305063	73435.0	Mm.116705	NM_028540	ENSMUSG00000026592	Tex35	1700057K13Rik	testis expressed 35	protein-coding	14.0	18.0	12.0	109.0	7.0	5.0	2.5	0.5
Merged-chr10-121374381-4	chr10	121374271	121374471	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029364, exon 3 of 14)	exon (NM_029364, exon 3 of 14)	9281.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	54.0	75.5	28.5	362.5	67.5	23.5	24.5	32.0
Merged-chr10-36916963-4	chr10	36916862	36917062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57582.0	NM_008229	15182.0	Mm.19806	NM_008229	ENSMUSG00000019777	Hdac2	D10Wsu179e|YAF1|Yy1bp|mRPD3	histone deacetylase 2	protein-coding	53.0	52.0	68.0	927.5	74.5	25.0	59.0	54.5
Merged-chr9-55272166-4	chr9	55272083	55272283	+	961.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_032002, intron 3 of 7)	MTD|LTR|ERVL-MaLR	11442.0	NM_032002	83961.0	Mm.443874	NM_032002	ENSMUSG00000032311	Nrg4	AI552600	neuregulin 4	protein-coding	21.0	27.0	26.5	273.5	36.0	22.0	11.5	17.0
Merged-chr13-48967251-8	chr13	48967147	48967347	+	958.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015601)	promoter-TSS (NR_015601)	581.0	NM_001033268	218236.0	Mm.426571	NM_001033268	ENSMUSG00000038014	Fam120a	C9orf10|Ossa	family with sequence similarity 120, member A	protein-coding	9.5	8.5	12.0	170.0	29.0	7.0	19.5	20.5
Merged-chr7-44485313-2	chr7	44485213	44485413	+	851.900024	f1_balb.idr|f1_c57bl6.idr	TTS (NR_131001)	TTS (NR_131001)	796.0	NR_131001	71368.0	Mm.66246	NR_131001	ENSMUSG00000108322	5430431A17Rik	Gm45123	RIKEN cDNA 5430431A17 gene	ncRNA	2.5	3.5	1.5	68.0	22.0	7.5	8.0	7.5
Merged-chr7-101566848-4	chr7	101566754	101566954	+	816.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14-int|LTR|ERV1	-5989.0	NR_033804	11871.0	Mm.439746	NM_007490	ENSMUSG00000092517	Art2a-ps	ARTC2|Art2a|Ly92a|Rt-6|Rt6|Rt6-1	ADP-ribosyltransferase 2a, pseudogene	protein-coding	14.0	31.5	9.0	63.0	27.0	8.5	5.0	8.0
Merged-chr11-72260074-4	chr11	72259968	72260168	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004148, intron 4 of 11)	intron (NM_001004148, intron 4 of 11)	6536.0	NM_001004148	237831.0	Mm.340778	NM_001004148	ENSMUSG00000020805	Slc13a5	Indy|NaC2/NaCT|Nact|mINDY	solute carrier family 13 (sodium-dependent citrate transporter), member 5	protein-coding	12.0	19.5	13.5	274.5	24.5	11.5	22.5	23.0
Merged-chr4-150486333-4	chr4	150486272	150486472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 7 of 22)	intron (NM_001085492, intron 7 of 22)	165802.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	40.0	31.0	32.0	732.5	112.5	20.0	41.0	44.5
Merged-chr16-24979620-2	chr16	24979520	24979720	+	574.25	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001145952, exon 12 of 12)	3' UTR (NM_001145952, exon 12 of 12)	-80019.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	4.5	4.5	5.0	207.0	6.5	1.5	5.5	9.0
Merged-chr15-31530233-4	chr15	31530125	31530325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172606, intron 1 of 25)	intron (NM_172606, intron 1 of 25)	812.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	17.5	30.5	20.5	330.0	53.5	21.0	27.0	15.5
Merged-chr1-119502703-4	chr1	119502603	119502803	+	961.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022327, intron 1 of 4)	RSINE1|SINE|B4	2079.0	NM_022327	64143.0	Mm.27832	NM_022327	ENSMUSG00000004451	Ralb	5730472O18Rik	v-ral simian leukemia viral oncogene B	protein-coding	28.0	36.0	18.5	384.0	84.0	14.5	22.0	21.5
Merged-chr8-60867848-7	chr8	60867730	60867930	+	912.11908	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22563.0	NM_028299	72612.0	Mm.25263	NM_028299	ENSMUSG00000038005	Hpf1	2700029M09Rik|C230006B22Rik|C4orf27	histone PARylation factor 1	protein-coding	11.5	9.5	14.5	155.5	18.0	5.5	5.5	12.0
Merged-chr7-55853011-4	chr7	55852916	55853116	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011370, intron 1 of 30)	intron (NM_011370, intron 1 of 30)	10945.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	117.5	167.0	125.5	1548.5	246.5	118.0	141.0	85.0
Merged-chr8-3926833-3	chr8	3926734	3926934	+	960.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026972)	promoter-TSS (NM_026972)	7.0	NM_001037800	69165.0	Mm.175163	NM_026972	ENSMUSG00000065987	Cd209b	1810030I22Rik|DC-SIGNR1|OtB7|SIGNR1|mSIGNR1	CD209b antigen	protein-coding	19.5	19.5	15.5	394.0	15.5	1.5	10.5	4.5
Merged-chr18-20787240-4	chr18	20787130	20787330	+	934.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40826.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	28.5	43.5	68.5	723.0	25.5	15.0	29.0	19.5
Merged-chr16-43955617-2	chr16	43955541	43955741	+	709.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_027801, intron 12 of 15)	intron (NM_027801, intron 12 of 15)	23409.0	NM_001007460	332175.0	Mm.327852	NM_001007460	ENSMUSG00000036304	Zdhhc23	Gm1751|Gm779|nidd	zinc finger, DHHC domain containing 23	protein-coding	5.5	7.0	9.0	131.5	17.0	3.5	9.0	14.0
Merged-chr13-65279242-2	chr13	65279142	65279342	+	700.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_178364, intron 1 of 7)	intron (NM_178364, intron 1 of 7)	388.0	NM_178364	170936.0	Mm.151546	NM_178364	ENSMUSG00000021514	Zfp369	B930030B22Rik|D230020H11Rik|NRIF2	zinc finger protein 369	protein-coding	8.0	7.0	16.0	111.0	16.0	7.0	10.5	14.5
Merged-chr16-4907628-4	chr16	4907524	4907724	+	904.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 2 of 17)	intron (NM_001357062, intron 2 of 17)	21524.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	15.5	13.0	16.5	187.5	29.5	12.5	16.5	15.5
Merged-chr12-8641078-4	chr12	8641018	8641218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-33016.0	NM_001160221	80913.0	Mm.341243	NM_030723	ENSMUSG00000020594	Pum2	5730503J23Rik|Pumm2	pumilio RNA-binding family member 2	protein-coding	106.5	160.0	85.0	1520.5	293.0	120.5	139.5	78.5
Merged-chr3-100488471-4	chr3	100488371	100488571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001142952, intron 1 of 1)	CpG	721.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	40.5	34.0	35.5	697.0	79.5	22.5	37.5	36.0
Merged-chr11-59809838-4	chr11	59809774	59809974	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045686)	promoter-TSS (NR_045686)	165.0	NM_001271356	216805.0	Mm.339640	NM_146018	ENSMUSG00000032633	Flcn	AU014660|B430214A04Rik|Bhd|FLCL	folliculin	protein-coding	47.0	62.0	40.0	361.5	134.5	45.5	29.0	58.0
Merged-chr7-118703233-4	chr7	118703120	118703320	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019580, intron 1 of 5)	intron (NM_019580, intron 1 of 5)	2518.0	NM_019580	56209.0	Mm.273142	NM_019580	ENSMUSG00000033917	Gde1	1200003M13Rik|Mir16|RGS16	glycerophosphodiester phosphodiesterase 1	protein-coding	168.0	242.5	146.5	2786.5	654.5	271.5	288.0	264.0
Merged-chr11-59216919-4	chr11	59216825	59217025	+	716.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007476, intron 1 of 4)	intron (NM_007476, intron 1 of 4)	8564.0	NM_024210	67862.0	Mm.358708	NM_024210	ENSMUSG00000020441	2310033P09Rik	Mmtag2	RIKEN cDNA 2310033P09 gene	protein-coding	3.5	8.5	7.5	110.0	15.5	4.5	8.0	16.0
Merged-chr2-132710694-4	chr2	132710576	132710776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028637, intron 2 of 2)	intron (NM_028637, intron 2 of 2)	20078.0	NM_028637	73747.0	Mm.284114	NM_028637	ENSMUSG00000044991	1110034G24Rik	-	RIKEN cDNA 1110034G24 gene	protein-coding	42.5	62.5	58.0	842.0	72.5	17.5	30.5	27.0
Merged-chr6-83433812-2	chr6	83433712	83433912	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347313, intron 3 of 11)	intron (NM_001347313, intron 3 of 11)	7866.0	NM_183138	194388.0	Mm.211030	NM_183138	ENSMUSG00000034832	Tet3	B430006D22Rik|BC037432|D230004J03Rik	tet methylcytosine dioxygenase 3	protein-coding	4.5	7.0	8.0	72.5	15.0	2.5	6.0	5.5
Merged-chr6-33256849-3	chr6	33256751	33256951	+	757.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347089, intron 1 of 9)	intron (NM_001347089, intron 1 of 9)	7723.0	NM_001347089	20336.0	Mm.265512	NM_009148	ENSMUSG00000029763	Exoc4	C78892|Sec8|Sec8l1	exocyst complex component 4	protein-coding	8.0	5.0	10.5	127.5	9.0	4.0	7.5	6.5
Merged-chr6-124311696-3	chr6	124311588	124311788	+	848.788879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_053094, exon 5 of 17)	exon (NM_053094, exon 5 of 17)	7037.0	NM_053094	93671.0	Mm.37426	NM_053094	ENSMUSG00000008845	Cd163	CD163v2|CD163v3	CD163 antigen	protein-coding	9.0	10.0	6.5	133.5	10.0	7.5	0.0	4.5
Merged-chr5-120165240-4	chr5	120165126	120165326	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028762, intron 21 of 23)	intron (NM_028762, intron 21 of 23)	-25963.0	NR_045793	100503427.0	Mm.446834	NR_045793	ENSMUSG00000097368	Gm10390	-	predicted gene 10390	ncRNA	78.5	100.5	51.5	1114.0	193.0	48.0	84.5	40.0
Merged-chr6-92422433-2	chr6	92422333	92422533	+	802.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001134460, exon 4 of 8)	exon (NM_001134460, exon 4 of 8)	58959.0	NM_001134460	243548.0	Mm.248820	NM_001081146	ENSMUSG00000030020	Prickle2	6230400G14Rik|6720451F06Rik|mpk2	prickle planar cell polarity protein 2	protein-coding	1.0	0.5	5.0	31.0	18.0	6.5	16.0	4.5
Merged-chr4-95416862-4	chr4	95416760	95416960	+	974.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-140647.0	NM_001113412	75578.0	Mm.276098	NM_029347	ENSMUSG00000028573	Fggy	2310009E04Rik	FGGY carbohydrate kinase domain containing	protein-coding	23.5	21.5	48.0	659.0	68.0	11.0	44.5	47.5
Merged-chr11-79658387-4	chr11	79658288	79658488	+	944.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175543, intron 3 of 14)	MIRb|SINE|MIR	16698.0	NR_045898	72218.0	Mm.443271	NR_045898	ENSMUSG00000086569	Rab11fip4os2	1700020F10Rik|4930542H20Rik|Rab11fib4os2	RAB11 family interacting protein 4 (class II), opposite strand 2	ncRNA	11.5	23.5	10.0	63.0	76.5	27.0	20.0	21.5
Merged-chr3-101836726-4	chr3	101836622	101836822	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172295)	promoter-TSS (NM_172295)	-499.0	NM_172295	242125.0	Mm.32900	NM_172295	ENSMUSG00000044313	Mab21l3	-	mab-21-like 3 (C. elegans)	protein-coding	45.0	68.0	40.5	505.0	106.5	33.0	24.0	36.0
Merged-chr5-9087099-4	chr5	9086988	9087188	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13649.0	NM_001081029	652925.0	Mm.439954	NM_001081029	ENSMUSG00000079659	Tmem243	4930420K17Rik|E030031F02Rik	transmembrane protein 243, mitochondrial	protein-coding	79.5	73.0	63.0	1078.5	120.5	58.5	52.5	46.0
Merged-chr9-90271676-4	chr9	90271594	90271794	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194334)	promoter-TSS (NM_194334)	-925.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	14.0	22.5	17.5	267.0	31.5	18.5	15.0	26.0
Merged-chr5-118413570-4	chr5	118413469	118413669	+	999.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1J1|LTR|ERVL-MaLR	-147150.0	NM_001347445	76199.0	Mm.206238	NM_172424	ENSMUSG00000018076	Med13l	2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025	mediator complex subunit 13-like	protein-coding	24.0	48.0	21.0	373.0	54.5	16.5	21.0	10.5
Merged-chr4-88714370-4	chr4	88714255	88714455	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	8153.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	71.0	41.5	58.5	1625.0	118.5	47.0	69.5	61.5
Merged-chr5-105654832-4	chr5	105654714	105654914	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-45155.0	NM_001122768	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	26.0	41.5	25.0	332.0	45.0	26.5	35.5	24.0
Merged-chr3-61294988-4	chr3	61294869	61295069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69538.0	NM_028712	74012.0	Mm.422674	NM_028712	ENSMUSG00000036894	Rap2b	4021402C18Rik|AA408554	RAP2B, member of RAS oncogene family	protein-coding	68.5	77.5	53.0	1166.5	120.5	51.0	46.0	55.0
Merged-chr9-108854093-4	chr9	108854014	108854214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134420)	promoter-TSS (NM_134420)	71.0	NM_134420	171429.0	Mm.45201	NM_134420	ENSMUSG00000023259	Slc26a6	B930010B04Rik|CFEX|Pat-1|Pat1	solute carrier family 26, member 6	protein-coding	174.0	359.5	125.5	2331.0	428.0	171.0	183.0	174.5
Merged-chr2-181917632-4	chr2	181917578	181917778	+	978.392822	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53318.0	NM_025901	67005.0	Mm.271986	NM_025901	ENSMUSG00000038628	Polr3k	12.3kDa|1500004O14Rik|AI196849|AU014893|C11|RPC10|RPC11	polymerase (RNA) III (DNA directed) polypeptide K	protein-coding	24.5	18.5	20.5	244.5	19.5	18.0	19.0	44.0
Merged-chr18-3890073-4	chr18	3889975	3890175	+	768.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1Md_A|LINE|L1	-275757.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	11.0	22.0	8.5	125.0	45.5	27.5	17.5	11.0
Merged-chr11-116811410-2	chr11	116811291	116811491	+	796.25	f0_balb.idr|f0_c57.idr	intron (NM_001347633, intron 3 of 4)	(CAGAG)n|Simple_repeat|Simple_repeat	16655.0	NM_026280	67622.0	Mm.64962	NM_026280	ENSMUSG00000020814	Mxra7	1810057P16Rik|E130302J09Rik	matrix-remodelling associated 7	protein-coding	20.5	25.5	19.0	221.5	18.5	10.5	13.5	11.0
Merged-chr17-42924965-4	chr17	42924866	42925066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48542.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	98.5	94.0	144.0	1625.5	248.0	67.0	148.0	132.5
Merged-chr14-67234557-4	chr14	67234446	67234646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360202)	promoter-TSS (NM_001360202)	-98.0	NM_001360202	13592.0	Mm.319947	NM_010095	ENSMUSG00000022053	Ebf2	D14Ggc1e|EBF-2|Mmot1|O/E-3|OE-3	early B cell factor 2	protein-coding	33.5	43.5	56.5	769.5	99.5	30.0	36.5	41.5
Merged-chr6-5401564-4	chr6	5401448	5401648	+	914.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355662, intron 2 of 4)	Lx8|LINE|L1	11138.0	NM_001355662	65255.0	Mm.51340	NM_023048	ENSMUSG00000042607	Asb4	8430401O13Rik|AV117194|AW060255	ankyrin repeat and SOCS box-containing 4	protein-coding	13.0	10.0	10.5	193.5	30.5	4.0	12.5	8.0
Merged-chr19-46707532-4	chr19	46707523	46707723	+	880.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020577, intron 1 of 10)	intron (NM_020577, intron 1 of 10)	180.0	NM_020577	57344.0	Mm.28566	NM_020577	ENSMUSG00000003559	As3mt	2310045H08Rik|Cyt19	arsenic (+3 oxidation state) methyltransferase	protein-coding	17.5	13.0	16.0	105.5	14.5	8.5	7.5	4.0
Merged-chr8-120760060-4	chr8	120759971	120760171	+	921.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21432.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	20.0	21.5	19.0	282.0	34.0	15.0	12.0	12.5
Merged-chr5-27995362-4	chr5	27995266	27995466	+	688.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-76046.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	13.0	9.5	11.0	68.5	20.5	15.0	13.5	16.5
Merged-chr6-54941338-4	chr6	54941243	54941443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 4 of 11)	RLTR28|LTR|ERVL	30318.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	48.5	42.0	22.0	720.5	84.5	26.0	29.5	43.5
Merged-chr6-71198109-4	chr6	71198022	71198222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1757.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	36.0	61.0	38.5	810.0	116.5	36.0	46.0	47.0
Merged-chr6-145865539-4	chr6	145865414	145865614	+	981.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024469)	promoter-TSS (NM_024469)	-94.0	NM_001271768	79362.0	Mm.154529	NM_024469	ENSMUSG00000030256	Bhlhe41	6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1	basic helix-loop-helix family, member e41	protein-coding	79.5	95.0	66.0	1510.0	43.0	14.0	25.5	32.5
Merged-chr12-98268295-2	chr12	98268195	98268395	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008152)	promoter-TSS (NM_008152)	-340.0	NM_008152	14744.0	Mm.378924	NM_008152	ENSMUSG00000021886	Gpr65	Dig1|Gpcr25|TDAG8	G-protein coupled receptor 65	protein-coding	14.0	12.0	13.5	269.5	64.5	18.5	28.5	13.5
Merged-chr6-83867190-4	chr6	83867086	83867286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35445.0	NM_146169	232164.0	Mm.404420	NM_146169	ENSMUSG00000045896	Paip2b	-	poly(A) binding protein interacting protein 2B	protein-coding	82.0	129.5	134.5	995.0	147.0	62.0	67.0	98.5
Merged-chr4-40776606-4	chr4	40776514	40776714	+	929.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-18729.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	26.0	19.0	5.0	181.5	30.5	9.0	19.0	13.5
Merged-chr18-40329796-3	chr18	40329713	40329913	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026135, intron 1 of 1)	L1M4c|LINE|L1	71452.0	NM_026135	383348.0	Mm.76366	NM_026135	ENSMUSG00000051401	Kctd16	4930434H12Rik|Gm1267	potassium channel tetramerisation domain containing 16	protein-coding	0.0	0.0	0.0	21.0	54.5	30.0	35.0	44.5
Merged-chr17-29975907-4	chr17	29975815	29976015	+	894.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29124.0	NM_148926	21769.0	Mm.220972	NM_148926	ENSMUSG00000044477	Zfand3	AW539211|TEG-27|Tex27	zinc finger, AN1-type domain 3	protein-coding	12.0	19.0	9.0	151.0	41.5	10.5	18.5	10.5
Merged-chr13-88459693-4	chr13	88459595	88459795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Zaphod|DNA|hAT-Tip100	-361777.0	NM_010103	13612.0	Mm.125580	NM_010103	ENSMUSG00000034488	Edil3	Del-1|Del1|Sox2-cre|Sox2Cre|Tg(Sox2-cre)1Amc	EGF-like repeats and discoidin I-like domains 3	protein-coding	118.5	145.0	85.5	1722.0	312.0	91.0	115.0	107.0
Merged-chr4-141156460-4	chr4	141156351	141156551	+	849.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172518, intron 1 of 9)	RSINE1|SINE|B4	8529.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	6.0	14.0	5.5	176.5	17.5	12.5	12.0	11.0
Merged-chr5-93206836-4	chr5	93206731	93206931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017367)	promoter-TSS (NM_017367)	313.0	NM_029363	75610.0	Mm.175502	NM_029363	ENSMUSG00000029384	2010109A12Rik	-	RIKEN cDNA 2010109A12 gene	protein-coding	41.5	55.0	27.5	351.0	107.0	56.0	57.5	46.5
Merged-chr3-75219403-1	chr3	75219303	75219503	+	556.0	f0_c57.idr	Intergenic	Intergenic	50675.0	NM_026460	67931.0	Mm.259446	NM_026460	ENSMUSG00000034139	Serpini2	Spi14	serine (or cysteine) peptidase inhibitor, clade I, member 2	protein-coding	4.0	7.0	4.0	76.0	25.5	7.0	9.0	6.5
Merged-chr15-78331710-3	chr15	78331616	78331816	+	905.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358854, intron 2 of 14)	intron (NM_001358854, intron 2 of 14)	5726.0	NM_007780	12983.0	Mm.235324	NM_007780	ENSMUSG00000071713	Csf2rb	AI848964|AIC2B|Bc|CDw131|Csf2rb1|Csfgmrb|Il3r|Il3rb|Il3rb1|Il5rb	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	protein-coding	13.0	12.5	12.5	132.0	11.5	8.0	5.5	10.0
Merged-chr2-118053763-1	chr2	118053663	118053863	+	819.0	f0_balb.idr	intron (NR_126479, intron 4 of 9)	LTR41B|LTR|ERVL	57439.0	NR_126479	329496.0	Mm.235844	NR_126479	ENSMUSG00000087203	Gm13986	C230060E24	predicted gene 13986	ncRNA	7.5	14.5	8.5	142.0	6.0	5.5	4.0	11.5
Merged-chr19-12011795-4	chr19	12011717	12011917	+	990.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24923.0	NM_146680	258675.0	Mm.271517	NM_146680	ENSMUSG00000067529	Olfr1423	MOR239-3	olfactory receptor 1423	protein-coding	21.5	49.0	33.0	372.5	40.5	16.0	20.0	22.0
Merged-chr16-3743453-1	chr16	3743353	3743553	+	1000.0	f0_balb.idr	promoter-TSS (NM_148924)	promoter-TSS (NM_148924)	-646.0	NM_148924	74120.0	Mm.29081	NM_148924	ENSMUSG00000022529	Zfp263	1200014J04Rik|AI326880|AU020888|NT2|mFPM315	zinc finger protein 263	protein-coding	30.5	45.0	26.5	615.0	66.0	32.0	21.0	39.0
Merged-chr16-50449305-4	chr16	50449210	50449410	+	942.30835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-16844.0	NM_001347240	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	11.5	21.5	19.0	275.5	46.0	13.5	17.5	13.5
Merged-chr12-98406774-2	chr12	98406674	98406874	+	563.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-117070.0	NR_136759	105245437.0	Mm.446375	NR_136759	ENSMUSG00000113613	Gm40893	-	predicted gene, 40893	ncRNA	9.0	0.5	2.0	52.0	9.0	5.5	4.5	4.5
Merged-chr12-76887008-4	chr12	76886898	76887098	+	934.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145927, intron 4 of 11)	ORR1E|LTR|ERVL-MaLR	49531.0	NM_145927	110606.0	Mm.151174	NM_145927	ENSMUSG00000033373	Fntb	2010013E13Rik|AA409500	farnesyltransferase, CAAX box, beta	protein-coding	13.0	14.5	16.5	291.5	70.0	13.5	25.5	16.5
Merged-chr11-114684751-4	chr11	114684651	114684851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	intron (NM_053273, intron 1 of 13)	9283.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	89.5	127.5	97.0	2023.0	276.0	80.5	109.0	165.0
Merged-chr17-10371597-4	chr17	10371506	10371706	+	939.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47004.0	NR_045461	76634.0	Mm.491052	NR_045461	ENSMUSG00000099384	1700110C19Rik	-	RIKEN cDNA 1700110C19 gene	ncRNA	17.0	33.5	12.0	217.0	41.0	17.0	15.0	12.0
Merged-chr5-100559566-4	chr5	100559469	100559669	+	942.3250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139198, intron 3 of 4)	intron (NM_139198, intron 3 of 4)	12636.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	12.5	12.0	10.0	270.5	91.5	11.5	30.0	32.5
Merged-chr1-155812894-4	chr1	155812789	155812989	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023268)	promoter-TSS (NM_023268)	10.0	NM_023268	104009.0	Mm.27035	NM_023268	ENSMUSG00000033684	Qsox1	1300003H02Rik|QSOX|Qscn6|SOx|b2b2673Clo	quiescin Q6 sulfhydryl oxidase 1	protein-coding	123.0	139.0	88.0	1089.5	127.0	46.0	79.5	61.5
Merged-chr8-125337033-3	chr8	125336932	125337132	+	945.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	155801.0	NM_001081337	244668.0	Mm.271668	NM_001081337	ENSMUSG00000001995	Sipa1l2	BC058408|mKIAA1389	signal-induced proliferation-associated 1 like 2	protein-coding	1.5	2.5	2.0	32.5	32.5	13.5	20.5	20.5
Merged-chr2-119548254-2	chr2	119548161	119548361	+	1000.0	f0_balb.idr|f1_balb.idr	promoter-TSS (NM_172857)	promoter-TSS (NM_172857)	554.0	NM_019769	56398.0	Mm.214765	NM_019769	ENSMUSG00000014077	Chp1	1500003O03Rik|AA960066|AI046351|Cahp|Chp|Sid470p|p24|vac	calcineurin-like EF hand protein 1	protein-coding	27.5	36.0	24.5	376.0	9.0	1.5	1.5	7.5
Merged-chr5-32133730-4	chr5	32133617	32133817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2755.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	54.5	33.0	45.5	474.5	117.0	40.0	67.0	54.5
Merged-chr4-125160494-3	chr4	125160393	125160593	+	874.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32612.0	NM_153159	230738.0	Mm.402	NM_153159	ENSMUSG00000042677	Zc3h12a	BC036563|MCPIP|MCPIP-1|Mcpip1|Reg1	zinc finger CCCH type containing 12A	protein-coding	7.0	26.0	4.0	87.0	14.0	11.5	15.0	7.5
Merged-chr16-94625912-4	chr16	94625801	94626001	+	991.008301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 2 of 11)	intron (NM_001113389, intron 2 of 11)	14482.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	12.0	27.0	25.0	210.0	46.0	11.0	15.5	20.0
Merged-chr6-34371867-4	chr6	34371790	34371990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12357.0	NM_172398	67861.0	Mm.70371	NM_172398	ENSMUSG00000061758	Akr1b10	2310005E10Rik|Akr1b16	aldo-keto reductase family 1, member B10 (aldose reductase)	protein-coding	47.5	74.5	35.5	639.0	103.0	36.0	50.5	37.5
Merged-chr13-74390442-1	chr13	74390342	74390542	+	855.0	f0_balb.idr	Intergenic	Intergenic	-13876.0	NM_001081680	238722.0	Mm.461254	NM_001081680	ENSMUSG00000069184	Zfp72	Zfp74	zinc finger protein 72	protein-coding	4.5	16.0	14.0	93.5	27.5	5.0	8.5	10.5
Merged-chr14-105288732-4	chr14	105288641	105288841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029561, intron 2 of 7)	intron (NM_029561, intron 2 of 7)	30068.0	NM_001190989	76273.0	Mm.290669	NM_029561	ENSMUSG00000053253	Ndfip2	0710001O20Rik|2810436B12Rik|9130207N19Rik|N4wbp5a|mKIAA1165	Nedd4 family interacting protein 2	protein-coding	181.5	296.5	209.5	3514.5	567.0	186.5	259.5	202.0
Merged-chr6-148577866-4	chr6	148577767	148577967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	36442.0	NR_045867	622319.0	Mm.491049	NM_001037912	ENSMUSG00000070995	Gm6313	EG622319	predicted gene 6313	ncRNA	66.0	74.5	61.5	1173.5	174.0	42.5	85.0	70.0
Merged-chr5-32745893-4	chr5	32745801	32746001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347332, intron 1 of 8)	intron (NM_001347332, intron 1 of 8)	441.0	NM_001347332	320951.0	Mm.273765	NM_177298	ENSMUSG00000023452	Pisd	9030221M09Rik	phosphatidylserine decarboxylase	protein-coding	72.5	95.5	53.5	625.5	141.5	67.0	68.0	33.5
Merged-chr11-118998778-3	chr11	118998682	118998882	+	935.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10601.0	NM_001359574	238011.0	Mm.244114	NM_001030291	ENSMUSG00000046697	Enpp7	Alk-SMase|Gm254	ectonucleotide pyrophosphatase/phosphodiesterase 7	protein-coding	15.0	19.0	7.5	58.0	19.0	8.5	5.0	7.0
Merged-chr10-98972555-4	chr10	98972457	98972657	+	927.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 2 of 21)	intron (NM_001359507, intron 2 of 21)	57405.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	16.0	34.5	11.0	279.0	52.0	11.0	18.0	20.0
Merged-chr7-119896029-7	chr7	119895928	119896128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173408)	promoter-TSS (NM_173408)	167.0	NM_001285960	73919.0	Mm.46381	NM_029610	ENSMUSG00000030922	Lyrm1	1110065L10Rik|2310004B22Rik|4930404J24Rik	LYR motif containing 1	protein-coding	57.0	65.5	87.0	773.5	157.0	75.0	69.5	70.5
Merged-chr7-121983251-4	chr7	121983155	121983355	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	PB1D10|SINE|Alu	-1562.0	NM_001033318	233824.0	Mm.442015	NM_001033318	ENSMUSG00000034951	Cog7	5630400E24Rik|Gm167	component of oligomeric golgi complex 7	protein-coding	30.5	30.5	38.5	543.5	74.0	25.0	32.0	60.5
Merged-chr14-46884242-4	chr14	46884130	46884330	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037221, intron 1 of 12)	CpG	1265.0	NM_001037221	74480.0	Mm.214454	NM_028966	ENSMUSG00000021838	Samd4	1700024G08Rik|1700111L17Rik|4933436G17Rik|Samd4a|Smaug|Smaug1|sunk	sterile alpha motif domain containing 4	protein-coding	26.0	36.5	31.5	497.0	100.0	32.5	38.0	33.0
Merged-chr9-48548451-4	chr9	48548353	48548553	+	919.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC2|LINE|L1	53110.0	NM_001004191	434402.0	Mm.386950	NM_001004191	ENSMUSG00000042293	Gm5617	EG434402	predicted gene 5617	protein-coding	18.5	15.0	7.5	289.0	53.0	9.0	14.0	6.0
Merged-chr13-5615068-4	chr13	5614974	5615174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	243018.0	NR_045891	71867.0	Mm.179181	NR_045891	ENSMUSG00000100625	1700016G22Rik	-	RIKEN cDNA 1700016G22 gene	ncRNA	130.5	148.0	121.0	1970.5	250.0	113.0	111.0	78.5
Merged-chr9-56161030-4	chr9	56160905	56161105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019793)	promoter-TSS (NM_019793)	65.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	49.5	62.0	62.5	901.0	81.0	31.5	47.5	36.0
Merged-chr15-34067252-4	chr15	34067171	34067371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR23|LTR|ERV1	-15448.0	NM_001357926	67154.0	Mm.130883	NM_026002	ENSMUSG00000022255	Mtdh	2610103J23Rik|3D3|3D3/Lyric|AEG-1|AV353288|D8Bwg1112e|Lyric	metadherin	protein-coding	25.5	45.0	23.0	252.5	42.5	21.5	23.0	24.5
Merged-chr4-121214705-2	chr4	121214605	121214805	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_001346660, intron 1 of 7)	CpG	379.0	NM_001346660	109263.0	Mm.215745	NM_001081013	ENSMUSG00000049878	Rlf	9230110M18Rik|AI195322|MommeD8	rearranged L-myc fusion sequence	protein-coding	7.5	28.0	27.0	249.5	54.5	26.5	34.0	36.0
Merged-chr7-127207586-3	chr7	127207478	127207678	+	803.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144522, exon 1 of 9)	exon (NM_144522, exon 1 of 9)	890.0	NM_144522	68449.0	Mm.41420	NM_144522	ENSMUSG00000042492	Tbc1d10b	1110003P22Rik|C87963	TBC1 domain family, member 10b	protein-coding	6.0	8.0	5.5	60.5	24.0	6.5	3.0	5.0
Merged-chr11-55164916-2	chr11	55164816	55165016	+	598.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_153170, intron 7 of 9)	B3|SINE|B2	-13210.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	4.5	10.0	1.0	46.5	15.5	6.0	4.5	7.0
Merged-chr14-19971030-4	chr14	19970933	19971133	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285908, intron 1 of 3)	intron (NM_001285908, intron 1 of 3)	5660.0	NM_001285911	14702.0	Mm.41737	NM_010315	ENSMUSG00000043004	Gng2	-	guanine nucleotide binding protein (G protein), gamma 2	protein-coding	50.5	22.0	17.0	622.5	73.0	26.0	37.5	25.0
Merged-chr7-43895029-4	chr7	43894903	43895103	+	896.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	13831.0	NM_019928	56640.0	Mm.42080	NM_019928	ENSMUSG00000006948	Klk4	ESMP1|KLK-L1|PSTS|Prss17	kallikrein related-peptidase 4 (prostase, enamel matrix, prostate)	protein-coding	8.5	10.5	16.5	169.5	32.5	9.0	20.0	7.5
Merged-chr3-79561995-4	chr3	79561902	79562102	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162999, intron 1 of 16)	intron (NM_001162999, intron 1 of 16)	5677.0	NM_001162999	329679.0	Mm.244005	NM_001162999	ENSMUSG00000061175	Fnip2	D630023B12Rik|mKIAA1450	folliculin interacting protein 2	protein-coding	46.0	83.0	46.0	996.5	112.0	35.0	46.0	61.0
Merged-chr11-110166082-4	chr11	110165991	110166191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147220, intron 1 of 38)	intron (NM_147220, intron 1 of 38)	2062.0	NM_147220	217262.0	Mm.291459	NM_147220	ENSMUSG00000041797	Abca9	D630040K07Rik	ATP-binding cassette, sub-family A (ABC1), member 9	protein-coding	96.5	116.0	79.0	1204.0	184.0	70.5	61.5	76.5
Merged-chr12-100878854-3	chr12	100878758	100878958	+	981.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001177673, exon 3 of 3)	exon (NM_001177673, exon 3 of 3)	20666.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	5.0	22.5	30.5	205.0	23.0	5.5	19.5	7.5
Merged-chr4-141656332-4	chr4	141656225	141656425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347237, intron 1 of 18)	intron (NM_001347237, intron 1 of 18)	7790.0	NM_001347237	69582.0	Mm.33220	NM_001033150	ENSMUSG00000028917	Plekhm2	2310034J19Rik|AI854247|mKIAA0842	pleckstrin homology domain containing, family M (with RUN domain) member 2	protein-coding	81.0	76.5	62.0	861.0	111.0	47.5	67.5	55.5
Merged-chr17-5941044-4	chr17	5940901	5941101	+	925.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113353)	promoter-TSS (NM_001113353)	-279.0	NM_001113353	20975.0	Mm.236068	NM_011523	ENSMUSG00000023805	Synj2	AI481647|SJ2|mKIAA0348	synaptojanin 2	protein-coding	12.5	10.5	10.0	92.0	23.5	7.0	11.0	15.0
Merged-chr19-16404573-4	chr19	16404469	16404669	+	981.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-31098.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	14.0	29.5	17.5	346.0	78.5	11.5	22.0	22.0
Merged-chr17-35435002-3	chr17	35434935	35435135	+	854.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4120.0	NM_010394	15018.0	Mm.431282	NM_010394	ENSMUSG00000060550	H2-Q7	H-2Q7|Ped|Q9|Qa-2|Qa-7|Qa7	histocompatibility 2, Q region locus 7	protein-coding	3.0	20.0	1.0	32.0	46.5	11.0	8.0	5.0
Merged-chr1-55576188-3	chr1	55576067	55576267	+	740.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114663, intron 1 of 5)	intron (NM_001114663, intron 1 of 5)	170221.0	NM_001114663	227120.0	Mm.194183	NM_001114663	ENSMUSG00000038349	Plcl1	C230017K02Rik|PLC-L|PLC-L1|PLCE|PLCL|PLDL1|PRIP|PRIP-1	phospholipase C-like 1	protein-coding	7.5	10.0	12.0	279.0	9.5	4.0	3.0	6.5
Merged-chr12-9030148-4	chr12	9030069	9030269	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029321, exon 1 of 3)	exon (NM_029321, exon 1 of 3)	172.0	NM_029321	75516.0	Mm.37581	NM_029321	ENSMUSG00000066637	Ttc32	1700013G20Rik	tetratricopeptide repeat domain 32	protein-coding	160.5	250.5	153.5	2535.5	387.0	169.5	179.5	157.5
Merged-chr6-34906937-4	chr6	34906818	34907018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013366, intron 3 of 14)	intron (NM_001013366, intron 3 of 14)	3913.0	NM_001013366	101240.0	Mm.152120	NM_001013366	ENSMUSG00000058486	Wdr91	9530020G05Rik|AI987683|AU018665	WD repeat domain 91	protein-coding	42.5	44.0	60.5	560.5	91.0	9.5	23.0	24.5
Merged-chr3-51358835-10	chr3	51358696	51358896	+	892.056641	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18152.0	NM_023502	69257.0	Mm.131038	NM_023502	ENSMUSG00000037174	Elf2	2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2	E74-like factor 2	protein-coding	8.5	16.5	12.0	95.0	12.5	4.0	6.0	14.0
Merged-chr2-122376468-4	chr2	122376371	122376571	+	932.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7553.0	NM_001013829	435684.0	Mm.458215	NM_001013829	ENSMUSG00000033256	Shf	-	Src homology 2 domain containing F	protein-coding	12.0	12.5	6.0	130.5	23.0	17.5	18.5	29.5
Merged-chr7-133032714-4	chr7	133032612	133032812	+	860.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009980, intron 2 of 10)	intron (NM_009980, intron 2 of 10)	-17465.0	NM_001170744	13017.0	Mm.246240	NM_009980	ENSMUSG00000030970	Ctbp2	AA407280|D7Ertd45e|Gtrgeo6|Ribeye	C-terminal binding protein 2	protein-coding	10.5	11.5	4.5	146.5	40.0	6.0	16.0	13.0
Merged-chr2-13479808-3	chr2	13479711	13479911	+	838.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081084, intron 6 of 66)	intron (NM_001081084, intron 6 of 66)	12065.0	NM_001081084	65969.0	Mm.313915	NM_001081084	ENSMUSG00000026726	Cubn	AA408369|AL022750|D2Wsu88e	cubilin (intrinsic factor-cobalamin receptor)	protein-coding	8.5	6.0	12.5	174.0	6.5	2.5	1.5	3.0
Merged-chr4-129130307-4	chr4	129130221	129130421	+	726.229187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6678.0	NM_027402	384061.0	Mm.44075	NM_027402	ENSMUSG00000001334	Fndc5	1500001L03Rik|AI836596|C87088|PeP|Pxp	fibronectin type III domain containing 5	protein-coding	11.5	20.5	10.5	70.0	44.0	12.5	18.5	16.0
Merged-chr2-52455780-4	chr2	52455684	52455884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037099, intron 9 of 13)	intron (NM_001037099, intron 9 of 13)	-30910.0	NM_182994	75423.0	Mm.314378	NM_182994	ENSMUSG00000036093	Arl5a	2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534	ADP-ribosylation factor-like 5A	protein-coding	32.5	31.0	40.0	396.5	45.0	20.5	39.0	24.5
Merged-chr18-70476566-4	chr18	70476472	70476672	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289650, intron 5 of 8)	intron (NM_001289650, intron 5 of 8)	3906.0	NM_001289650	170461.0	Mm.83623	NM_029019	ENSMUSG00000079608	Stard6	1700011K09Rik|4833424I06Rik|4933429L05Rik|AI644424	StAR-related lipid transfer (START) domain containing 6	protein-coding	41.5	63.5	41.0	539.5	111.5	50.5	68.5	37.5
Merged-chr16-22010395-4	chr16	22010293	22010493	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357424, intron 1 of 15)	intron (NM_001357424, intron 1 of 15)	909.0	NM_001357424	75826.0	Mm.297431	NM_029457	ENSMUSG00000022855	Senp2	2310007L05Rik|4930538C18Rik|AI646780|AW554757|Smt3ip2|SuPr-1|mKIAA1331	SUMO/sentrin specific peptidase 2	protein-coding	42.5	81.5	52.0	961.0	147.5	43.0	44.0	88.5
Merged-chr3-127837577-4	chr3	127837476	127837676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346718)	promoter-TSS (NM_001346718)	-53.0	NM_145964	211556.0	Mm.403486	NM_145964	ENSMUSG00000074238	Ap1ar	AA407621|C78909|Gadkin	adaptor-related protein complex 1 associated regulatory protein	protein-coding	178.5	235.0	152.5	2567.0	401.5	182.5	220.0	151.5
Merged-chr18-32837233-4	chr18	32837154	32837354	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045381)	promoter-TSS (NR_045381)	29.0	NM_144863	225348.0	Mm.38816	NM_144863	ENSMUSG00000038299	Wdr36	5730444A13Rik|Ta-wdrp	WD repeat domain 36	protein-coding	116.5	158.5	98.0	1554.0	240.0	93.0	117.5	90.5
Merged-chr8-90977062-4	chr8	90976954	90977154	+	961.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310530, exon 4 of 38)	exon (NM_001310530, exon 4 of 38)	44805.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	16.0	11.0	17.0	246.5	15.5	6.0	21.0	16.0
Merged-chr9-50532153-4	chr9	50532047	50532247	+	794.012512	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133217)	TTS (NM_133217)	-3506.0	NM_011220	19286.0	Mm.35856	NM_011220	ENSMUSG00000032067	Pts	PTPS	6-pyruvoyl-tetrahydropterin synthase	protein-coding	14.5	14.5	3.0	115.5	38.5	10.0	12.5	14.5
Merged-chr7-81176610-3	chr7	81176527	81176727	+	754.950012	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1A|LTR|ERVL-MaLR	-37177.0	NM_008803	18584.0	Mm.371577	NM_008803	ENSMUSG00000025584	Pde8a	AI551852|Pde8	phosphodiesterase 8A	protein-coding	13.5	21.5	10.0	127.5	7.5	4.0	16.5	9.5
Merged-chr10-51535502-4	chr10	51535407	51535607	+	891.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	44609.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	20.5	41.5	40.0	153.0	62.5	16.0	15.0	27.5
Merged-chr9-21002833-4	chr9	21002716	21002916	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023167)	promoter-TSS (NM_023167)	79.0	NM_001357899	66163.0	Mm.427576	NM_023167	ENSMUSG00000003299	Mrpl4	1110017G11Rik	mitochondrial ribosomal protein L4	protein-coding	43.0	75.5	42.5	721.5	89.0	40.0	36.0	32.5
Merged-chr17-5784146-4	chr17	5784031	5784231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14526.0	NR_045081	78512.0	Mm.23696	NR_045079	ENSMUSG00000096965	3300005D01Rik	-	RIKEN cDNA 3300005D01 gene	ncRNA	33.0	31.0	28.5	565.5	46.0	27.0	21.0	26.5
Merged-chr11-9338321-3	chr11	9338207	9338407	+	945.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178259, intron 27 of 61)	L5|LINE|RTE-X	146365.0	NM_178259	268379.0	Mm.39270	NM_178259	ENSMUSG00000004668	Abca13	9830132L24|A930002G16Rik|AI956815	ATP-binding cassette, sub-family A (ABC1), member 13	protein-coding	7.0	6.0	8.0	154.0	14.5	4.0	1.5	7.5
Merged-chr4-135762632-4	chr4	135762511	135762711	+	932.44165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085509, exon 2 of 37)	exon (NM_001085509, exon 2 of 37)	2896.0	NM_001085509	242702.0	Mm.318639	NM_001085509	ENSMUSG00000037139	Myom3	8430427K15Rik|Gm434	myomesin family, member 3	protein-coding	30.0	22.5	10.0	216.5	33.5	17.0	10.0	13.0
Merged-chr5-25082733-3	chr5	25082618	25082818	+	684.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145401, intron 1 of 15)	intron (NM_145401, intron 1 of 15)	17924.0	NM_145401	108099.0	Mm.33649	NM_145401	ENSMUSG00000028944	Prkag2	2410051C13Rik|AAKG|AAKG2|AI854673|H91620p|WPWS	protein kinase, AMP-activated, gamma 2 non-catalytic subunit	protein-coding	17.5	8.0	12.5	98.0	12.0	4.5	12.0	7.5
Merged-chr3-138442760-1	chr3	138442660	138442860	+	1000.0	f0_c57.idr	promoter-TSS (NM_007410)	promoter-TSS (NM_007410)	-333.0	NM_007410	11532.0	Mm.3874	NM_007410	ENSMUSG00000028138	Adh5	Adh-5|Adh3|GSNOR	alcohol dehydrogenase 5 (class III), chi polypeptide	protein-coding	55.0	95.0	52.0	551.0	143.5	59.0	64.5	47.0
Merged-chr5-135744272-4	chr5	135744171	135744371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172541)	promoter-TSS (NM_172541)	-99.0	NM_172541	215210.0	Mm.11688	NM_172541	ENSMUSG00000039886	Tmem120a	2010310D06Rik|Tmpit	transmembrane protein 120A	protein-coding	101.5	110.0	95.5	1510.0	282.0	93.0	89.5	83.5
Merged-chr13-43752581-4	chr13	43752442	43752642	+	968.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57D|LTR|ERV1	-32570.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	13.5	11.0	13.5	269.5	41.0	15.5	8.5	20.0
Merged-chr4-106328908-4	chr4	106328810	106329010	+	964.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_183225, intron 1 of 67)	MTEb|LTR|ERVL-MaLR	12697.0	NM_183225	329908.0	Mm.234544	NM_183225	ENSMUSG00000028514	Usp24	2700066K03Rik|2810030C21Rik|AI414051|B130021E18|C79851	ubiquitin specific peptidase 24	protein-coding	23.5	14.5	13.5	481.0	41.0	18.5	14.5	32.0
Merged-chr8-25090579-4	chr8	25090478	25090678	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031257, intron 1 of 11)	intron (NM_031257, intron 1 of 11)	11233.0	NM_031257	83436.0	Mm.261122	NM_031257	ENSMUSG00000031557	Plekha2	6430512N22Rik|AI851530|AU041791|TAPP2|W91773	pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 2	protein-coding	62.0	80.0	79.0	1136.0	177.5	49.0	62.5	78.0
Merged-chr7-98178260-4	chr7	98178136	98178336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007602)	promoter-TSS (NM_007602)	38.0	NM_007602	12337.0	Mm.326847	NM_007602	ENSMUSG00000035547	Capn5	nCL-3	calpain 5	protein-coding	69.0	109.0	52.0	793.0	144.5	65.0	56.5	62.5
Merged-chr18-8376833-4	chr18	8376713	8376913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	507100.0	NM_001360956	225131.0	Mm.204524	NM_153085	ENSMUSG00000024283	Wac	1110067P07Rik|A230035H12Rik|AI256735|AI256776|Wwp4	WW domain containing adaptor with coiled-coil	protein-coding	40.0	34.5	33.5	929.5	88.5	46.5	53.0	39.0
Merged-chr13-9159506-4	chr13	9159382	9159582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172585, intron 13 of 17)	intron (NM_172585, intron 13 of 17)	65601.0	NM_172585	217980.0	Mm.234944	NM_172585	ENSMUSG00000033499	Larp4b	A630096F19|AI256361|D13Wsu64e|Larp5	La ribonucleoprotein domain family, member 4B	protein-coding	62.5	138.5	83.0	1034.5	190.0	63.5	54.0	52.0
Merged-chr7-123465815-4	chr7	123465722	123465922	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007474, intron 4 of 5)	intron (NM_007474, intron 4 of 5)	3528.0	NM_001109045	11833.0	Mm.273175	NM_007474	ENSMUSG00000030762	Aqp8	AI255744|AQP-8	aquaporin 8	protein-coding	27.0	35.5	14.0	230.5	35.5	7.5	17.5	17.0
Merged-chr11-83639853-4	chr11	83639750	83639950	+	892.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9528.0	NM_011337	20302.0	Mm.1282	NM_011337	ENSMUSG00000000982	Ccl3	AI323804|G0S19-1|LD78alpha|MIP-1alpha|MIP1-(a)|MIP1-alpha|Mip1a|Scya3	chemokine (C-C motif) ligand 3	protein-coding	8.5	14.5	10.0	59.5	27.5	13.0	5.0	5.0
Merged-chr3-40799964-4	chr3	40799850	40800050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173169)	promoter-TSS (NM_173169)	-1.0	NM_173169	20873.0	Mm.3794	NM_011495	ENSMUSG00000025758	Plk4	1700028H20|AI385771|Sak|Stk18	polo like kinase 4	protein-coding	128.5	216.0	131.5	2355.0	396.0	168.5	142.5	129.5
Merged-chr8-68348624-4	chr8	68348530	68348730	+	897.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028182)	TTS (NM_028182)	-19829.0	NR_038189	73609.0	Mm.443247	NR_038181	ENSMUSG00000085197	1700125H03Rik	4930510D22Rik	RIKEN cDNA 1700125H03 gene	ncRNA	13.0	9.0	18.5	349.0	34.0	12.5	19.0	23.0
Merged-chr18-20640148-4	chr18	20640042	20640242	+	808.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155534, intron 1 of 2)	intron (NR_155534, intron 1 of 2)	-25108.0	NM_013697	22139.0	Mm.2108	NM_013697	ENSMUSG00000061808	Ttr	AA408768|AI787086|D17860|prealbumin	transthyretin	protein-coding	7.5	11.5	2.0	206.5	18.5	10.0	8.5	14.0
Merged-chr7-84679464-4	chr7	84679373	84679573	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360579)	promoter-TSS (NM_001360579)	-77.0	NM_001360581	65098.0	Mm.209349	NM_022985	ENSMUSG00000030629	Zfand6	3110005P07Rik|Awp1|Za20d3	zinc finger, AN1-type domain 6	protein-coding	63.5	69.0	56.0	1238.5	175.0	44.0	76.0	51.5
Merged-chr19-61227882-4	chr19	61227764	61227964	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009970, intron 1 of 11)	CpG-7695	554.0	NM_009970	12982.0	Mm.287228	NM_009970	ENSMUSG00000059326	Csf2ra	CD116|Csfgmra|GM-CSF-Ra|GM-CSFR	colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage)	protein-coding	85.5	99.0	173.0	1168.5	177.0	53.5	86.5	75.5
Merged-chr15-58746349-4	chr15	58746256	58746456	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	77071.0	NM_175212	74868.0	Mm.293754	NM_175212	ENSMUSG00000062373	Tmem65	2610029O13Rik|4930438D12Rik	transmembrane protein 65	protein-coding	28.0	54.5	52.5	664.0	109.5	47.0	43.0	33.5
Merged-chr5-146675388-4	chr5	146675282	146675482	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-90143.0	NM_001359057	14738.0	Mm.153539	NM_008151	ENSMUSG00000041468	Gpr12	Gpcr01|Gpcr12|Gpcr20|Gpcr21	G-protein coupled receptor 12	protein-coding	14.0	12.5	5.5	149.0	27.5	9.5	22.0	14.5
Merged-chr11-53707311-4	chr11	53707208	53707408	+	989.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009012)	promoter-TSS (NM_009012)	11.0	NM_009012	19360.0	Mm.4888	NM_009012	ENSMUSG00000020380	Rad50	Mrell|Rad50l	RAD50 double strand break repair protein	protein-coding	43.5	31.5	13.5	357.5	50.0	29.5	28.5	32.0
Merged-chr12-84285312-4	chr12	84285200	84285400	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029880)	promoter-TSS (NM_029880)	4.0	NM_001252626	77219.0	Mm.246127	NM_029880	ENSMUSG00000072946	Ptgr2	1810016I24Rik|9130222H03Rik|9630002F03Rik|AI838763|B830026H24Rik|PGR-2|PRG-2|Zadh1	prostaglandin reductase 2	protein-coding	165.5	235.0	92.0	1803.5	348.0	133.5	128.0	172.0
Merged-chr11-116446156-4	chr11	116446074	116446274	+	909.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033267, intron 7 of 13)	intron (NM_001033267, intron 7 of 13)	8173.0	NM_001033267	217341.0	Mm.387352	NM_001033267	ENSMUSG00000070331	Qrich2	Gm66	glutamine rich 2	protein-coding	10.5	15.0	6.5	125.0	51.5	24.5	25.0	18.5
Merged-chr4-8645711-3	chr4	8645613	8645813	+	780.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44693.0	NM_001277149	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	10.0	23.5	19.5	231.5	18.0	14.5	10.5	8.5
Merged-chr1-71988290-4	chr1	71988183	71988383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040454, intron 1 of 2)	intron (NR_040454, intron 1 of 2)	16912.0	NR_040454	71134.0	Mm.370574	NR_040454	ENSMUSG00000101848	4933417E11Rik	-	RIKEN cDNA 4933417E11 gene	ncRNA	65.5	147.0	88.5	1541.5	220.0	75.0	81.5	66.0
Merged-chr8-116268078-3	chr8	116267968	116268168	+	976.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-236947.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	9.5	22.5	2.0	46.5	46.5	16.5	15.0	9.0
Merged-chr16-91862353-3	chr16	91862242	91862442	+	599.861084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 25 of 28)	intron (NM_001110275, intron 25 of 28)	69288.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	6.0	8.5	3.5	125.0	4.5	8.0	7.0	12.5
Merged-chr17-71206259-4	chr17	71206153	71206353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164885, intron 1 of 19)	intron (NM_001164885, intron 1 of 19)	1599.0	NM_001164885	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	28.0	49.5	22.5	374.5	64.0	23.0	17.5	21.0
Merged-chr7-19764134-4	chr7	19764076	19764276	+	906.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_020486, exon 8 of 15)	exon (NM_020486, exon 8 of 15)	6356.0	NM_020486	57278.0	Mm.29236	NM_020486	ENSMUSG00000002980	Bcam	1200005K12Rik|B-CAM|Gplu|Lu	basal cell adhesion molecule	protein-coding	4.5	8.0	9.0	219.0	36.0	6.5	7.0	14.0
Merged-chr7-12897778-4	chr7	12897700	12897900	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001001447)	promoter-TSS (NM_001001447)	-9.0	NM_001290438	232878.0	Mm.40706	NM_001001447	ENSMUSG00000054715	Zscan22	AW227621|D530006B18Rik|Hkr2	zinc finger and SCAN domain containing 22	protein-coding	110.0	143.0	93.0	1813.0	344.0	117.0	216.5	127.0
Merged-chr9-65534740-3	chr9	65534646	65534846	+	926.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45341.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	6.0	18.0	7.0	56.5	23.0	5.5	10.0	15.0
Merged-chr15-67992651-1	chr15	67992551	67992751	+	873.8333130000001	f0_balb.idr	Intergenic	MTB|LTR|ERVL-MaLR	266205.0	NR_152182	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	13.5	24.5	12.0	183.5	0.5	2.0	5.5	2.5
Merged-chr2-79302602-3	chr2	79302498	79302698	+	640.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010576, intron 16 of 27)	intron (NM_010576, intron 16 of 27)	47172.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	7.5	10.5	10.0	142.0	21.5	1.5	8.0	23.0
Merged-chr2-160359095-1	chr2	160358995	160359195	+	590.666687	f0_balb.idr	Intergenic	Intergenic	7970.0	NM_010658	16658.0	Mm.330745	NM_010658	ENSMUSG00000074622	Mafb	Kreisler|Krml|Krml1|kr	v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian)	protein-coding	13.5	25.5	12.5	89.0	14.5	10.0	0.5	3.5
Merged-chr15-25525548-3	chr15	25525447	25525647	+	693.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-97003.0	NM_019472	17909.0	Mm.60590	NM_019472	ENSMUSG00000022272	Myo10	AW048724|D15Ertd600e|mKIAA0799|myosin-X	myosin X	protein-coding	9.0	4.0	5.5	94.5	17.0	13.5	10.5	6.0
Merged-chr7-141369081-4	chr7	141368973	141369173	+	981.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3963.0	NR_033532	320871.0	Mm.475463	NM_177280	ENSMUSG00000086844	B230206H07Rik	-	RIKEN cDNA B230206H07 gene	ncRNA	29.5	20.0	31.0	357.5	30.0	13.5	20.0	10.5
Merged-chr18-23811994-3	chr18	23811944	23812144	+	768.377747	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153058, intron 1 of 6)	intron (NM_153058, intron 1 of 6)	8074.0	NM_153058	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	8.0	9.5	5.0	102.5	7.5	5.5	3.5	10.5
Merged-chr12-108766298-1	chr12	108766198	108766398	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-27013.0	NM_009537	22632.0	Mm.3868	NM_009537	ENSMUSG00000021264	Yy1	AW488674|NF-E1	YY1 transcription factor	protein-coding	25.0	33.0	31.0	240.0	62.0	23.0	24.5	19.0
Merged-chr11-118494758-3	chr11	118494643	118494843	+	803.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024931, intron 13 of 14)	intron (NM_001024931, intron 13 of 14)	17911.0	NM_001359368	217364.0	Mm.473963	NM_172573	ENSMUSG00000033857	Engase	C130099A03|D230014K01Rik	endo-beta-N-acetylglucosaminidase	protein-coding	13.0	12.0	8.0	213.5	19.5	8.5	2.5	8.0
Merged-chr6-52411463-4	chr6	52411369	52411569	+	930.604126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80982.0	NR_046049	74304.0	Mm.490579	NR_046049	ENSMUSG00000107895	1700094M24Rik	-	RIKEN cDNA 1700094M24 gene	ncRNA	8.0	38.0	27.5	247.5	35.5	15.0	12.0	7.0
Merged-chr17-17873643-3	chr17	17873506	17873706	+	803.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	10333.0	NM_013521	14293.0	Mm.56951	NM_013521	ENSMUSG00000045551	Fpr1	FPR|LXA4R|fMLF-R	formyl peptide receptor 1	protein-coding	2.0	3.0	4.0	49.0	27.0	17.5	17.5	10.0
Merged-chr2-156257337-4	chr2	156257245	156257445	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172674, intron 4 of 17)	intron (NM_172674, intron 4 of 17)	-55128.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	44.5	114.0	68.5	266.5	119.0	51.5	35.0	28.5
Merged-chr18-10646687-4	chr18	10646550	10646750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134130, intron 8 of 8)	intron (NM_134130, intron 8 of 8)	28854.0	NM_009226	20641.0	Mm.603	NM_009226	ENSMUSG00000002477	Snrpd1	AA407109|AL023031|SMD1	small nuclear ribonucleoprotein D1	protein-coding	31.5	65.5	45.5	567.5	69.0	28.5	34.5	34.5
Merged-chr7-49046512-4	chr7	49046431	49046631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111016, intron 2 of 38)	intron (NM_001111016, intron 2 of 38)	87458.0	NM_001111016	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	46.5	42.0	50.5	1039.5	110.5	23.5	52.5	58.5
Merged-chr2-35978759-4	chr2	35978670	35978870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029774, intron 1 of 9)	intron (NM_029774, intron 1 of 9)	854.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	40.5	47.5	24.0	345.5	52.5	36.0	23.0	23.0
Merged-chr6-51919193-4	chr6	51919099	51919299	+	875.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018773, intron 6 of 12)	intron (NM_018773, intron 6 of 12)	93350.0	NM_018773	54353.0	Mm.221479	NM_018773	ENSMUSG00000059182	Skap2	2610021A10Rik|AA960083|BB137539|RA70|SKAP-HOM|Saps|Scap2|mSKAP55R	src family associated phosphoprotein 2	protein-coding	6.0	15.5	4.0	66.0	32.0	18.5	12.0	18.0
Merged-chr2-155381806-4	chr2	155381682	155381882	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178111)	promoter-TSS (NM_178111)	-74.0	NM_178111	68728.0	Mm.293605	NM_178111	ENSMUSG00000038375	Trp53inp2	1110029F20Rik|Tp53inp2	transformation related protein 53 inducible nuclear protein 2	protein-coding	72.0	129.0	79.0	929.0	232.0	88.0	75.5	103.0
Merged-chr5-28003982-4	chr5	28003865	28004065	+	928.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-67447.0	NM_153526	231070.0	Mm.30221	NM_153526	ENSMUSG00000045294	Insig1	1810013C12Rik|Insig-1	insulin induced gene 1	protein-coding	31.0	34.5	63.0	702.5	27.5	10.0	9.0	16.5
Merged-chr8-70629940-4	chr8	70629841	70630041	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001330687, exon 3 of 3)	exon (NM_001330687, exon 3 of 3)	2154.0	NM_011819	23886.0	Mm.31325	NM_011819	ENSMUSG00000038508	Gdf15	MIC-1|NAG-1|SBF	growth differentiation factor 15	protein-coding	88.5	81.0	73.5	930.5	275.5	95.5	66.5	95.5
Merged-chr3-95758632-3	chr3	95758528	95758728	+	936.361084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3651.0	NR_151588	71807.0	Mm.271754	NM_027931	ENSMUSG00000028107	Tars2	2610024N01Rik|AI429208|Tarsl1|thrRS	threonyl-tRNA synthetase 2, mitochondrial (putative)	protein-coding	8.0	13.0	21.5	146.0	21.5	8.5	10.0	14.5
Merged-chr16-33875962-4	chr16	33875871	33876071	+	862.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_010580, exon 4 of 15)	exon (NM_010580, exon 4 of 15)	46306.0	NM_001145884	16419.0	Mm.6424	NM_010580	ENSMUSG00000022817	Itgb5	AA475909|AI874634|ESTM23|[b]-5|[b]5|[b]5A|[b]5B|beta-5|beta5	integrin beta 5	protein-coding	12.5	12.5	6.5	189.0	20.0	8.0	10.5	15.0
Merged-chr16-23983391-2	chr16	23983291	23983491	+	924.5833130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_009744, intron 1 of 9)	CpG	-2108.0	NM_001348026	12053.0	Mm.347398	NM_009744	ENSMUSG00000022508	Bcl6	Bcl5	B cell leukemia/lymphoma 6	protein-coding	3.0	5.5	3.5	28.5	10.5	4.5	8.0	14.0
Merged-chr1-143888682-1	chr1	143888582	143888782	+	911.5	f0_balb.idr	Intergenic	Intergenic	111404.0	NM_019562	56207.0	Mm.261004	NM_019562	ENSMUSG00000018189	Uchl5	5830413B11Rik|Uch37	ubiquitin carboxyl-terminal esterase L5	protein-coding	11.5	9.0	8.0	168.5	14.0	4.5	10.0	10.5
Merged-chr8-106339040-4	chr8	106338930	106339130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	-1042.0	NM_021491	58994.0	Mm.23298	NM_021491	ENSMUSG00000031906	Smpd3	4631433G07Rik|AI427456|AW537966|fro|nSMase2	sphingomyelin phosphodiesterase 3, neutral	protein-coding	63.0	119.0	68.5	982.0	149.0	41.5	70.0	81.5
Merged-chr3-126596264-4	chr3	126596127	126596327	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293665)	promoter-TSS (NM_001293665)	-724.0	NM_001346636	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	108.5	127.5	96.5	1141.0	219.0	69.5	59.0	88.0
Merged-chr1-36307247-4	chr1	36307156	36307356	+	971.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_033310)	promoter-TSS (NR_033310)	-477.0	NM_001172206	214855.0	Mm.34316	NM_145996	ENSMUSG00000037447	Arid5a	D430024K22Rik|Mrf1	AT rich interactive domain 5A (MRF1-like)	protein-coding	9.5	24.0	10.5	279.5	71.5	21.5	11.0	20.5
Merged-chr6-50110134-4	chr6	50110025	50110225	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164734)	promoter-TSS (NM_001164734)	-116.0	NM_019939	56524.0	Mm.41288	NM_008016	ENSMUSG00000038388	Mpp6	P55t|Pals2	membrane protein, palmitoylated 6 (MAGUK p55 subfamily member 6)	protein-coding	52.5	68.0	43.5	708.0	130.0	39.5	52.5	39.0
Merged-chr2-155472894-4	chr2	155472797	155472997	+	979.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32114.0	NM_019825	56406.0	Mm.27592	NM_019825	ENSMUSG00000038369	Ncoa6	AIB3|ASC-2|ASC2|NRC|Ncoa7|PRIP|RAP250|mKIAA0181	nuclear receptor coactivator 6	protein-coding	31.5	25.0	17.5	355.0	37.5	17.0	16.5	22.0
Merged-chr2-174327628-7	chr2	174327534	174327734	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310083)	promoter-TSS (NM_001310083)	-134.0	NM_001310083	14683.0	Mm.125770	NM_010309	ENSMUSG00000027523	Gnas	5530400H20Rik|A930027G11Rik|C130027O20Rik|GPSA|GSP|Galphas|Gnas1|Gnasxl|Gs-alpha|Gsa|Nesp|Nesp55|Nespl|Oed-Sml|Oedsml|P1|P2|P3|PHP1A|PHP1B|POH|SCG6	GNAS (guanine nucleotide binding protein, alpha stimulating) complex locus	protein-coding	40.0	60.5	27.0	322.0	79.0	37.5	24.0	40.0
Merged-chr19-8212649-4	chr19	8212552	8212752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172776, intron 2 of 9)	L1_Mus2|LINE|L1	6248.0	NM_172776	236293.0	Mm.440581	NM_172776	ENSMUSG00000075044	Slc22a29	D630002G06Rik	solute carrier family 22. member 29	protein-coding	58.5	90.5	91.0	428.0	103.5	30.5	66.0	47.5
Merged-chr14-45691066-5	chr14	45690948	45691148	+	734.616638	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-32905.0	NM_001042719	114874.0	Mm.121918	NM_176845	ENSMUSG00000037697	Ddhd1	Mir5131|PA-PLA1	DDHD domain containing 1	protein-coding	6.5	10.0	14.5	99.0	21.0	2.0	9.5	6.0
Merged-chr11-88908704-2	chr11	88908604	88908804	+	794.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_045955, intron 2 of 4)	B3|SINE|B2	2776.0	NR_045955	73921.0	Mm.439148	NR_045955	ENSMUSG00000087338	Scpep1os	4930405P13Rik	serine carboxypeptidase 1, opposite strand	ncRNA	2.0	7.5	1.0	59.5	20.0	5.0	9.5	7.5
Merged-chr1-107481618-4	chr1	107481521	107481721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29802.0	NM_001174170	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	40.5	69.5	34.0	570.0	68.5	16.5	29.0	37.5
Merged-chr6-4978432-4	chr6	4978298	4978498	+	968.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181595, intron 2 of 15)	intron (NM_181595, intron 2 of 15)	75078.0	NM_181595	243725.0	Mm.332901	NM_181595	ENSMUSG00000032827	Ppp1r9a	2810430P21Rik|4930518N04Rik|5330407E15|A230094E16Rik|BB181831|NRB|mKIAA1222|neurabin-I	protein phosphatase 1, regulatory (inhibitor) subunit 9A	protein-coding	14.0	7.0	14.5	308.5	43.0	3.0	11.0	12.0
Merged-chr13-59870321-4	chr13	59870203	59870403	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1C1|LTR|ERVL-MaLR	-47156.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	132.5	123.5	115.5	1154.5	252.5	115.5	128.0	135.5
Merged-chr7-27537442-4	chr7	27537354	27537554	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317355, intron 10 of 13)	intron (NM_001317355, intron 10 of 13)	14193.0	NM_001033315	233020.0	Mm.429716	NM_001033315	ENSMUSG00000040424	Hipk4	Gm162	homeodomain interacting protein kinase 4	protein-coding	63.0	100.5	63.5	1085.5	158.0	32.5	65.5	80.5
Merged-chr5-104979342-4	chr5	104979233	104979433	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030239, intron 1 of 15)	intron (NM_030239, intron 1 of 15)	3384.0	NM_030239	27405.0	Mm.389663	NM_030239	ENSMUSG00000029299	Abcg3	Abcp2|Mxr2	ATP binding cassette subfamily G member 3	protein-coding	55.0	29.5	47.0	874.5	63.5	13.5	31.0	30.0
Merged-chr18-26864975-4	chr18	26864862	26865062	+	839.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1110805.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	5.5	4.5	13.5	77.5	28.0	9.0	11.5	12.0
Merged-chr19-60543484-2	chr19	60543384	60543584	+	842.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001172097, intron 4 of 6)	B2_Mm2|SINE|B2	37539.0	NM_001172097	78832.0	Mm.259026	NM_030197	ENSMUSG00000033417	Cacul1	2700078E11Rik|2810417M16Rik|9830127L17Rik|AI450346|D130033C15Rik	CDK2 associated, cullin domain 1	protein-coding	2.0	0.0	0.0	24.5	20.5	6.5	7.0	18.0
Merged-chr6-129462198-4	chr6	129462110	129462310	+	971.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_132130, exon 6 of 6)	non-coding (NR_132130, exon 6 of 6)	-10210.0	NM_175526	243653.0	Mm.131289	NM_175526	ENSMUSG00000033082	Clec1a	5930406N14Rik	C-type lectin domain family 1, member a	protein-coding	33.0	25.0	24.0	368.5	42.0	9.0	14.0	18.0
Merged-chr2-91086538-4	chr2	91086448	91086648	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10130.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	116.5	184.5	137.0	1501.5	244.5	87.0	110.5	99.0
Merged-chr18-12440645-2	chr18	12440551	12440751	+	713.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_010680, intron 13 of 74)	intron (NM_010680, intron 13 of 74)	-63548.0	NM_001347461	16774.0	Mm.42012	NM_010680	ENSMUSG00000024421	Lama3	Lama3B|[a]3B	laminin, alpha 3	protein-coding	3.5	7.0	10.0	53.0	17.5	6.5	20.5	12.0
Merged-chr11-78353286-4	chr11	78353182	78353382	+	832.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6572.0	NM_001313987	22248.0	Mm.284811	NM_011676	ENSMUSG00000002058	Unc119	D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h	unc-119 lipid binding chaperone	protein-coding	15.5	17.5	7.5	102.0	29.5	19.5	7.5	11.0
Merged-chr5-24425827-2	chr5	24425727	24425927	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009207, intron 1 of 22)	intron (NM_009207, intron 1 of 22)	595.0	NM_009207	20535.0	Mm.4580	NM_009207	ENSMUSG00000028962	Slc4a2	Ae2|B3RP	solute carrier family 4 (anion exchanger), member 2	protein-coding	6.0	10.0	10.5	85.5	18.5	8.0	5.5	6.0
Merged-chr18-20750422-3	chr18	20750329	20750529	+	883.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR10_RN|LTR|ERVK	-4025.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	4.5	4.0	15.5	54.5	13.5	7.0	15.5	12.5
Merged-chr13-55430771-4	chr13	55430682	55430882	+	962.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER15|LTR|ERVL	-3978.0	NM_021489	58992.0	Mm.42224	NM_021489	ENSMUSG00000021492	F12	FXII|HAF	coagulation factor XII (Hageman factor)	protein-coding	11.5	18.0	8.5	200.5	51.0	20.0	24.0	25.0
Merged-chr4-101254221-4	chr4	101254130	101254330	+	772.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	intron (NM_146145, intron 1 of 24)	11052.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	7.5	13.5	8.5	282.0	27.0	7.0	10.5	15.5
Merged-chr11-121722684-4	chr11	121722561	121722761	+	975.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20234.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	7.5	36.0	17.0	180.0	46.5	28.0	32.5	17.5
Merged-chr17-45573318-4	chr17	45573197	45573397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008302)	promoter-TSS (NM_008302)	-36.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	107.0	140.0	47.5	853.5	254.0	100.0	99.0	136.0
Merged-chr6-88902883-2	chr6	88902783	88902983	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011906, intron 1 of 11)	intron (NM_011906, intron 1 of 11)	632.0	NM_011906	24100.0	Mm.284480	NM_011906	ENSMUSG00000002871	Tpra1	40kDa|Gpr175|Tpra40	transmembrane protein, adipocyte asscociated 1	protein-coding	12.0	9.5	13.0	101.0	32.5	12.5	6.0	13.5
Merged-chr6-133105447-6	chr6	133105333	133105533	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163445, exon 1 of 1)	exon (NM_001163445, exon 1 of 1)	194.0	NR_073368	381820.0	Mm.291762	NM_001163445	ENSMUSG00000072704	Smim10l1	2700089E24Rik|AI662692	small integral membrane protein 10 like 1	protein-coding	76.0	97.5	115.0	946.5	138.5	60.0	63.5	75.0
Merged-chr3-130065694-3	chr3	130065601	130065801	+	951.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-4794.0	NM_207209	99683.0	Mm.192303	NM_207209	ENSMUSG00000001052	Sec24b	AI605202|SEC24	Sec24 related gene family, member B (S. cerevisiae)	protein-coding	10.0	16.5	18.0	205.0	14.5	9.0	10.5	10.0
Merged-chr10-7041178-4	chr10	7041094	7041294	+	863.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18009.0	NM_001033391	320495.0	Mm.331674	NM_001033391	ENSMUSG00000064065	Ipcef1	A130090K04Rik	interaction protein for cytohesin exchange factors 1	protein-coding	11.5	10.0	21.0	233.5	22.5	4.5	11.0	15.0
Merged-chr2-125660180-3	chr2	125660082	125660282	+	900.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199022, intron 6 of 11)	intron (NM_199022, intron 6 of 11)	-12918.0	NM_025613	58521.0	Mm.425101	NM_025613	ENSMUSG00000091337	Eid1	2610002K20Rik|Cri1|EID-1|ORF12|PNAS-22|PTD014	EP300 interacting inhibitor of differentiation 1	protein-coding	7.5	13.0	2.0	126.5	19.5	5.0	8.0	9.0
Merged-chr6-83033580-4	chr6	83033476	83033676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291799)	promoter-TSS (NM_001291799)	-105.0	NM_001291799	13448.0	Mm.156	NM_010070	ENSMUSG00000068335	Dok1	AW557123|p62DOK	docking protein 1	protein-coding	82.5	96.5	72.5	633.5	133.5	63.5	57.5	70.5
Merged-chr3-35932439-4	chr3	35932345	35932545	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205362)	promoter-TSS (NM_001205362)	-111.0	NM_001205362	114893.0	Mm.374810	NM_033623	ENSMUSG00000027708	Dcun1d1	Rp42|SCCRO|Tes3|pTes3	DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)	protein-coding	28.5	35.0	66.5	391.0	61.0	11.5	33.0	19.5
Merged-chr2-18773253-3	chr2	18773162	18773362	+	885.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12400.0	NR_126079	100041479.0	Mm.393659	NR_126079	ENSMUSG00000092353	Gm3363	-	predicted gene 3363	ncRNA	8.0	5.0	6.5	109.0	16.0	7.5	4.0	12.0
Merged-chr15-101846178-2	chr15	101846078	101846278	+	866.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_008473, exon 9 of 9)	exon (NM_008473, exon 9 of 9)	4608.0	NM_008473	16678.0	Mm.183137	NM_008473	ENSMUSG00000046834	Krt1	Krt-2.1|Krt2-1|Krt86	keratin 1	protein-coding	6.5	8.0	8.0	56.0	17.0	4.0	5.5	4.5
Merged-chr5-64296575-4	chr5	64296450	64296650	+	903.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	intron (NM_001289514, intron 11 of 18)	66193.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	24.5	27.0	34.5	506.5	30.5	8.5	13.0	9.0
Merged-chr10-122528416-3	chr10	122528307	122528507	+	639.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	41484.0	NR_040616	319272.0	Mm.411763	NR_040616	ENSMUSG00000112095	A130077B15Rik	-	RIKEN cDNA A130077B15 gene	ncRNA	2.0	3.5	5.0	66.0	4.5	5.5	5.0	4.5
Merged-chr16-20324132-1	chr16	20324032	20324232	+	551.0	f0_balb.idr	intron (NM_183158, intron 1 of 8)	intron (NM_183158, intron 1 of 8)	1272.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	6.0	7.0	8.0	77.5	0.5	3.0	1.0	7.0
Merged-chr19-12466292-4	chr19	12466192	12466392	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_172442)	TTS (NM_172442)	5513.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	152.0	231.5	132.5	1392.0	176.0	45.5	41.5	45.0
Merged-chr1-4870704-4	chr1	4870625	4870825	+	834.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159750, intron 2 of 9)	MTD|LTR|ERVL-MaLR	12397.0	NM_001159751	21399.0	Mm.207263	NM_011541	ENSMUSG00000033813	Tcea1	S-II	transcription elongation factor A (SII) 1	protein-coding	7.5	11.0	5.5	171.5	36.0	8.5	15.0	16.5
Merged-chr18-8624696-2	chr18	8624596	8624796	+	688.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3b|LINE|L1	-588160.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	1.0	2.0	4.0	61.5	11.0	5.5	17.0	10.0
Merged-chr7-16387827-4	chr7	16387702	16387902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285892)	promoter-TSS (NM_001285892)	94.0	NM_001285892	56459.0	Mm.258530	NM_019748	ENSMUSG00000052833	Sae1	2400010M20Rik|2610044L12Rik|AL033372|AOS1|AW743391|D7Ertd177e|HSPC140|Sua1|Uble1a	SUMO1 activating enzyme subunit 1	protein-coding	92.5	135.5	66.5	1018.0	214.0	82.5	90.5	80.0
Merged-chr11-75165525-4	chr11	75165419	75165619	+	992.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001098203, exon 2 of 2)	exon (NM_001098203, exon 2 of 2)	2633.0	NM_001098203	15248.0	Mm.57250	NM_010430	ENSMUSG00000043099	Hic1	AA408311|HIC-1	hypermethylated in cancer 1	protein-coding	18.0	39.0	23.5	427.5	94.5	15.0	24.0	29.0
Merged-chr9-77596565-4	chr9	77596464	77596664	+	767.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40168.0	NM_172925	244923.0	Mm.138238	NM_172925	ENSMUSG00000044938	Klhl31	9830147P19Rik|D930047P17Rik|Kbtbd1	kelch-like 31	protein-coding	14.0	18.5	5.0	115.5	34.0	7.0	17.0	8.0
Merged-chr8-56439628-4	chr8	56439538	56439738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45330.0	NR_131020	75123.0	Mm.72666	NR_131020	ENSMUSG00000110310	4930518J21Rik	-	RIKEN cDNA 4930518J21 gene	ncRNA	144.0	185.0	137.5	2833.0	353.5	170.5	175.0	135.0
Merged-chr16-49818766-4	chr16	49818675	49818875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-36879.0	NM_010581	16423.0	Mm.31752	NM_010581	ENSMUSG00000055447	Cd47	9130415E20Rik|AA407862|AI848868|AW108519|B430305P08Rik|IAP|Itgp	CD47 antigen (Rh-related antigen, integrin-associated signal transducer)	protein-coding	66.0	66.0	38.5	1113.0	188.0	48.0	82.0	69.5
Merged-chr9-90269538-2	chr9	90269452	90269652	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	1217.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	14.0	15.5	28.0	268.0	34.0	14.0	21.5	29.0
Merged-chr18-60502451-1	chr18	60502351	60502551	+	629.75	f0_balb.idr	promoter-TSS (NM_134133)	promoter-TSS (NM_134133)	-468.0	NM_134133	106878.0	Mm.273197	NM_134133	ENSMUSG00000038059	Smim3	2010002N04Rik|AI195350|AW561905|Nid67|cI-41	small integral membrane protein 3	protein-coding	14.0	11.0	14.5	71.0	3.5	6.0	2.5	3.0
Merged-chr11-107132175-4	chr11	107132038	107132238	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176850)	promoter-TSS (NM_176850)	-216.0	NM_001359590	207165.0	Mm.343986	NM_176850	ENSMUSG00000040481	Bptf	9430093H17Rik|Falz	bromodomain PHD finger transcription factor	protein-coding	40.0	70.0	39.5	590.0	158.5	46.5	68.0	36.0
Merged-chr11-49997430-3	chr11	49997330	49997530	+	960.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-27901.0	NM_021540	59044.0	Mm.359004	NM_021540	ENSMUSG00000020376	Rnf130	2510042A13Rik|G1RZFP|G1rp|GOLIATH|GP	ring finger protein 130	protein-coding	20.0	7.0	6.0	149.0	33.5	7.5	8.0	11.0
Merged-chr3-88553011-4	chr3	88552908	88553108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033526)	promoter-TSS (NM_033526)	-57.0	NR_155541	83409.0	Mm.41680	NM_031248	ENSMUSG00000028062	Lamtor2	2010111E04Rik|AL022628|Mapbpip|P14|Rab25|Robld3	late endosomal/lysosomal adaptor, MAPK and MTOR activator 2	protein-coding	118.5	178.0	76.5	1442.5	289.0	120.0	102.0	115.5
Merged-chr15-66803902-3	chr15	66803798	66803998	+	726.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029841, intron 1 of 7)	intron (NM_001029841, intron 1 of 7)	27931.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	10.0	16.5	6.5	160.0	29.0	2.5	5.0	3.0
Merged-chr8-35643941-4	chr8	35643841	35644041	+	978.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081279, intron 1 of 2)	intron (NM_001081279, intron 1 of 2)	-54921.0	NR_040376	100504714.0	Mm.381744	NR_040376	ENSMUSG00000097357	Gm16793	-	predicted gene, 16793	ncRNA	35.0	41.5	61.5	1097.5	52.0	9.5	28.0	22.5
Merged-chr8-119876809-4	chr8	119876711	119876911	+	956.466675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146219, exon 5 of 5)	exon (NM_146219, exon 5 of 5)	14506.0	NM_146219	234796.0	Mm.86446	NM_146219	ENSMUSG00000031828	Klhl36	-	kelch-like 36	protein-coding	11.0	16.0	13.5	259.0	37.0	6.5	21.5	16.0
Merged-chr11-6415773-4	chr11	6415681	6415881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008907)	promoter-TSS (NM_008907)	-89.0	NM_008907	268373.0	Mm.5246	NM_008907	ENSMUSG00000071866	Ppia	2700098C05|Cphn|CyP-18|CypA	peptidylprolyl isomerase A	protein-coding	155.0	344.0	148.5	1838.5	499.0	226.0	235.5	151.5
Merged-chr2-117403917-4	chr2	117403817	117404017	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61040.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	29.0	36.5	34.5	518.0	103.5	32.5	31.0	35.5
Merged-chr5-134540181-4	chr5	134540095	134540295	+	848.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039162, intron 1 of 15)	intron (NM_001039162, intron 1 of 15)	12239.0	NM_001039162	269713.0	Mm.255138	NM_009990	ENSMUSG00000063146	Clip2	B230327O20|CLIP-115|Clip1|Cyln2|WSCR4|mKIAA0291|wbscr4	CAP-GLY domain containing linker protein 2	protein-coding	10.5	16.0	22.0	118.5	19.0	8.0	15.5	13.5
Merged-chr6-136693501-1	chr6	136693401	136693601	+	847.0	f0_balb.idr	Intergenic	Intergenic	-31608.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	10.5	12.0	23.0	231.5	10.5	8.0	4.5	8.0
Merged-chr19-6046963-4	chr19	6046850	6047050	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164709)	promoter-TSS (NM_001164709)	-195.0	NM_001164709	74126.0	Mm.149870	NM_028769	ENSMUSG00000024807	Syvn1	1200010C09Rik|AW211966|C85322|D530017H19Rik|Hrd1	synovial apoptosis inhibitor 1, synoviolin	protein-coding	44.5	80.0	40.5	501.0	104.5	34.5	32.0	46.5
Merged-chr13-19365834-1	chr13	19365734	19365934	+	700.0	f1_c57bl6.idr	intron (NM_001347485, intron 7 of 7)	intron (NM_001347485, intron 7 of 7)	29979.0	NM_024270	76205.0	Mm.41940	NM_024270	ENSMUSG00000003062	Stard3nl	0610035N01Rik|6530409L22Rik|AW124774|MENTHO	STARD3 N-terminal like	protein-coding	4.0	4.0	3.0	44.5	20.5	9.5	8.5	10.5
Merged-chr5-24685750-4	chr5	24685646	24685846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016736)	promoter-TSS (NM_016736)	-69.0	NM_016736	53312.0	Mm.5856	NM_016736	ENSMUSG00000028954	Nub1	4931404D21Rik|6330412F12Rik|BS4|NY-REN-18	negative regulator of ubiquitin-like proteins 1	protein-coding	372.0	550.5	419.5	4759.0	859.0	394.0	404.0	313.5
Merged-chr11-115603894-4	chr11	115603796	115603996	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025305)	promoter-TSS (NM_025305)	20.0	NM_001252067	260302.0	Mm.119479	NM_173048	ENSMUSG00000020740	Gga3	C230037M19Rik|mKIAA0154	golgi associated, gamma adaptin ear containing, ARF binding protein 3	protein-coding	66.5	116.0	34.5	713.5	173.5	89.5	75.5	76.5
Merged-chr1-91380674-4	chr1	91380580	91380780	+	816.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023343, intron 9 of 11)	intron (NM_023343, intron 9 of 11)	14250.0	NM_173395	227358.0	Mm.389157	NM_173395	ENSMUSG00000047443	Erfe	4832406C22|Fam132b|myonectin	erythroferrone	protein-coding	10.0	14.0	9.0	149.0	37.0	13.0	9.0	14.0
Merged-chr19-46762318-2	chr19	46762218	46762418	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_033569, exon 1 of 8)	exon (NM_033569, exon 1 of 8)	709.0	NM_001102471	94219.0	Mm.306903	NM_033569	ENSMUSG00000064105	Cnnm2	AU015877|AW048635|Acdp2|Clp2	cyclin M2	protein-coding	2.0	8.0	1.5	60.0	10.0	5.5	11.5	7.5
Merged-chr9-88482647-4	chr9	88482552	88482752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019796)	promoter-TSS (NM_019796)	-255.0	NM_001284328	56403.0	Mm.260545	NM_019666	ENSMUSG00000032423	Syncrip	2610109K23Rik|4632417O19Rik|GRY-RBP|Nsap1|Nsap1l|hnRNP Q|pp68	synaptotagmin binding, cytoplasmic RNA interacting protein	protein-coding	268.0	392.0	297.0	4182.0	674.0	299.0	362.0	312.0
Merged-chr11-116622918-2	chr11	116622817	116623017	+	731.0	f0_c57.idr|f1_c57bl6.idr	intron (NM_172572, intron 1 of 18)	intron (NM_172572, intron 1 of 18)	1335.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	6.0	12.0	4.5	57.0	23.0	7.5	4.0	9.0
Merged-chr18-39636745-3	chr18	39636645	39636845	+	694.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136752.0	NM_011033	18459.0	Mm.9493	NM_011033	ENSMUSG00000051732	Pabpc2	Pabp|Pabp+|Pabp2	poly(A) binding protein, cytoplasmic 2	protein-coding	8.0	3.5	11.0	125.5	11.5	9.5	8.0	10.5
Merged-chr13-49307758-4	chr13	49307676	49307876	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	1432.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	26.5	23.5	25.0	246.5	59.0	27.5	28.5	36.0
Merged-chr2-165112306-4	chr2	165112143	165112343	+	993.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_174988, exon 12 of 12)	exon (NM_174988, exon 12 of 12)	-21493.0	NR_033448	72211.0	Mm.482899	NR_033448	ENSMUSG00000078935	1700025C18Rik	-	RIKEN cDNA 1700025C18 gene	ncRNA	11.5	23.5	8.0	199.0	48.0	15.5	21.5	12.5
Merged-chr2-27411868-4	chr2	27411786	27411986	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009500, intron 1 of 27)	intron (NM_009500, intron 1 of 27)	15722.0	NR_133905	22325.0	Mm.179011	NM_009500	ENSMUSG00000009621	Vav2	2810040F13Rik|AI847175|Vav-2	vav 2 oncogene	protein-coding	41.5	34.0	25.5	466.5	85.5	22.5	35.5	23.0
Merged-chr13-48645201-4	chr13	48645108	48645308	+	992.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17828.0	NM_007526	12022.0	Mm.42241	NM_007526	ENSMUSG00000021381	Barx1	-	BarH-like homeobox 1	protein-coding	18.5	22.0	28.5	543.0	46.0	8.5	34.0	25.5
Merged-chr5-31614799-2	chr5	31614699	31614899	+	864.583374	f1_balb.idr|f1_c57bl6.idr	intron (NM_025796, intron 2 of 3)	Tigger5b|DNA|TcMar-Tigger	848.0	NM_025796	66845.0	Mm.120763	NM_025796	ENSMUSG00000106918	Mrpl33	0610009M10Rik|L33mt|MRP-L33	mitochondrial ribosomal protein L33	protein-coding	9.5	8.0	12.0	52.0	11.5	6.0	12.0	10.0
Merged-chr13-13526081-4	chr13	13526001	13526201	+	860.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64308.0	NM_010748	17101.0	Mm.342337	NM_010748	ENSMUSG00000019726	Lyst	D13Sfk13|beige|bg	lysosomal trafficking regulator	protein-coding	6.5	7.5	6.5	99.0	58.0	8.5	25.0	14.0
Merged-chr11-43632764-4	chr11	43632646	43632846	+	952.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31184.0	NM_008375	16204.0	Mm.142716	NM_008375	ENSMUSG00000020405	Fabp6	GT|I-15P|I-BABP|ILBP|ILBP3|Illbp	fatty acid binding protein 6, ileal (gastrotropin)	protein-coding	53.5	52.0	41.0	808.5	29.5	10.5	18.5	15.5
Merged-chr19-23116432-4	chr19	23116326	23116526	+	713.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-24800.0	NM_010638	16601.0	Mm.291595	NM_010638	ENSMUSG00000033863	Klf9	2310051E17Rik|AA589643|BTEB-1|Bteb1|Gm9971	Kruppel-like factor 9	protein-coding	11.0	8.0	8.0	213.5	16.5	10.0	11.5	13.0
Merged-chr11-3194798-4	chr11	3194684	3194884	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1321.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	19.0	5.0	23.5	196.0	21.0	19.5	12.0	27.0
Merged-chr4-101647440-4	chr4	101647381	101647581	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175036)	promoter-TSS (NM_175036)	-302.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	401.0	715.5	477.5	6676.5	995.5	430.5	497.5	362.5
Merged-chr7-28435835-4	chr7	28435759	28435959	+	809.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175021, intron 1 of 12)	CpG	332.0	NM_175021	233033.0	Mm.54120	NM_175021	ENSMUSG00000109336	Samd4b	BC042901	sterile alpha motif domain containing 4B	protein-coding	4.0	10.5	18.5	93.5	26.0	12.0	8.5	25.5
Merged-chr18-67450149-3	chr18	67450017	67450217	+	757.983337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027130)	promoter-TSS (NM_027130)	-981.0	NM_027130	69597.0	Mm.426052	NM_027130	ENSMUSG00000024527	Afg3l2	2310036I02Rik|AW260507|Emv66|par	AFG3-like AAA ATPase 2	protein-coding	2.5	8.5	3.5	49.5	12.5	6.5	9.5	13.0
Merged-chr15-67174727-4	chr15	67174650	67174850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 1 of 8)	intron (NM_009177, intron 1 of 8)	2132.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	46.5	96.0	40.5	880.0	118.5	53.5	66.0	68.0
Merged-chr19-10502763-4	chr19	10502681	10502881	+	806.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_025333, exon 4 of 4)	3' UTR (NM_025333, exon 4 of 4)	-19884.0	NM_133689	67752.0	Mm.25939	NM_133689	ENSMUSG00000035179	Ppp1r32	4930579J09Rik|AU015816|IIIG9|IIIG9L|IIIG9S	protein phosphatase 1, regulatory subunit 32	protein-coding	5.0	8.0	6.5	80.5	26.0	4.5	10.5	12.5
Merged-chr5-75979326-1	chr5	75979226	75979426	+	746.25	f0_balb.idr	promoter-TSS (NM_010612)	promoter-TSS (NM_010612)	-898.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	10.5	15.0	7.5	137.5	3.0	0.0	0.0	2.5
Merged-chr18-8677672-4	chr18	8677580	8677780	+	968.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-535176.0	NM_008058	14370.0	Mm.184289	NM_008058	ENSMUSG00000036904	Fzd8	Fz8	frizzled class receptor 8	protein-coding	9.0	21.5	8.5	177.5	72.0	27.5	40.5	21.5
Merged-chr16-31275253-4	chr16	31275159	31275359	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025800)	promoter-TSS (NM_025800)	18.0	NM_025800	66849.0	Mm.291593	NM_025800	ENSMUSG00000047714	Ppp1r2	0610025N14Rik|2310007G06Rik|4930440J04Rik|5430408E15Rik|D16Ertd248e|I-2|IPP-2	protein phosphatase 1, regulatory (inhibitor) subunit 2	protein-coding	109.0	157.5	93.0	1331.5	270.0	92.0	110.5	90.5
Merged-chr17-71669698-4	chr17	71669603	71669803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3558.0	NM_177087	320159.0	Mm.187372	NM_177087	ENSMUSG00000045761	Togaram2	4632412N22Rik|Fam179a	TOG array regulator of axonemal microtubules 2	protein-coding	27.5	52.0	32.0	585.0	119.0	48.0	56.0	40.0
Merged-chr2-181287667-5	chr2	181287603	181287803	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198169, intron 1 of 9)	CpG	263.0	NM_198169	229004.0	Mm.220423	NM_198169	ENSMUSG00000038705	Gmeb2	AI839884	glucocorticoid modulatory element binding protein 2	protein-coding	35.5	44.0	24.5	305.0	139.5	41.0	63.5	52.5
Merged-chr5-146676689-4	chr5	146676579	146676779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-91440.0	NM_001359057	14738.0	Mm.153539	NM_008151	ENSMUSG00000041468	Gpr12	Gpcr01|Gpcr12|Gpcr20|Gpcr21	G-protein coupled receptor 12	protein-coding	48.0	97.0	48.0	1133.5	150.5	86.0	75.5	78.0
Merged-chr12-69297253-1	chr12	69297153	69297353	+	699.666687	f0_c57.idr	intron (NM_027117, intron 1 of 12)	CpG	572.0	NM_027117	69554.0	Mm.234368	NM_027117	ENSMUSG00000020978	Klhdc2	2310022K15Rik|D12Ertd522e|HCLP-1|LCP	kelch domain containing 2	protein-coding	12.5	13.5	7.0	196.0	34.5	9.0	12.5	11.0
Merged-chr10-63177447-4	chr10	63177341	63177541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182992, intron 2 of 19)	intron (NM_182992, intron 2 of 19)	26511.0	NM_182992	68802.0	Mm.259767	NM_182992	ENSMUSG00000020067	Mypn	1110056A04Rik|9830112J03|AI853556|mKIAA4170	myopalladin	protein-coding	33.5	40.0	32.0	578.5	108.0	31.0	52.0	42.0
Merged-chr18-80704974-4	chr18	80704875	80705075	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198429, intron 1 of 9)	intron (NM_198429, intron 1 of 9)	3198.0	NM_001164111	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	71.0	74.0	38.5	918.0	110.5	38.5	54.5	42.0
Merged-chr1-123919844-4	chr1	123919763	123919963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199021, intron 1 of 25)	intron (NM_199021, intron 1 of 25)	125696.0	NM_199021	269109.0	Mm.417716	NM_199021	ENSMUSG00000036815	Dpp10	6430601K09Rik|DPP X|Dprp3	dipeptidylpeptidase 10	protein-coding	96.5	186.5	135.5	2042.0	323.5	88.5	113.0	71.5
Merged-chr2-173534721-4	chr2	173534573	173534773	+	954.255981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12081.0	NM_028158	72221.0	Mm.46132	NM_028158	ENSMUSG00000027518	1700021F07Rik	-	RIKEN cDNA 1700021F07 gene	protein-coding	8.0	12.5	5.5	213.0	27.0	9.0	15.0	10.5
Merged-chr17-35590621-3	chr17	35590524	35590724	+	760.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23139.0	NM_175148	69542.0	Mm.265291	NM_175148	ENSMUSG00000039269	2300002M23Rik	Stg|emprin	RIKEN cDNA 2300002M23 gene	protein-coding	17.0	32.5	9.5	125.0	8.0	1.0	1.0	1.0
Merged-chr8-117268219-4	chr8	117268119	117268319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	intron (NM_001163262, intron 1 of 20)	11200.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	41.5	45.0	18.5	325.0	96.0	28.0	41.5	30.5
Merged-chr9-13551985-2	chr9	13551885	13552085	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	(TAG)n|Simple_repeat|Simple_repeat	-68004.0	NM_001013813	270118.0	Mm.116898	NM_173776	ENSMUSG00000031925	Maml2	5930431H10|BC032967	mastermind like transcriptional coactivator 2	protein-coding	8.5	5.5	10.0	76.0	13.0	3.5	6.0	3.0
Merged-chr13-60876707-4	chr13	60876591	60876791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RCHARR1|DNA|hAT-Charlie	-12275.0	NM_178098	214639.0	Mm.19839	NM_178098	ENSMUSG00000050345	4930486L24Rik	AW545031	RIKEN cDNA 4930486L24 gene	protein-coding	42.5	51.0	39.0	560.5	85.5	31.5	36.0	30.5
Merged-chr18-3006329-3	chr18	3006228	3006428	+	696.344421	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	117084.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	16.0	15.0	15.5	269.5	16.5	10.0	7.0	18.0
Merged-chr3-137880397-4	chr3	137880314	137880514	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033155, intron 1 of 7)	intron (NM_001033155, intron 1 of 7)	12739.0	NM_001033155	70604.0	Mm.256488	NM_001033155	ENSMUSG00000074212	Dnajb14	5730496F10Rik	DnaJ heat shock protein family (Hsp40) member B14	protein-coding	48.0	53.0	31.5	333.5	77.0	40.0	26.5	22.5
Merged-chr2-32496338-4	chr2	32496242	32496442	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39017.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	60.5	78.5	92.5	1598.5	152.5	46.0	91.0	73.5
Merged-chr17-79955042-4	chr17	79954931	79955131	+	950.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-58908.0	NM_001286647	56298.0	Mm.175403	NM_019717	ENSMUSG00000059811	Atl2	2010110I21Rik|AA407293|AV334690|Aip-2|Arl6ip2	atlastin GTPase 2	protein-coding	8.0	13.0	34.5	251.5	13.0	8.5	25.5	18.0
Merged-chr12-82265737-7	chr12	82265633	82265833	+	853.005981	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167983, intron 2 of 23)	intron (NM_001167983, intron 2 of 23)	-45616.0	NM_172579	217692.0	Mm.261333	NM_172579	ENSMUSG00000042700	Sipa1l1	4931426N11Rik|AW213287|Spar|mKIAA0440	signal-induced proliferation-associated 1 like 1	protein-coding	5.5	11.0	7.5	95.0	29.5	7.0	8.0	7.5
Merged-chr18-53144944-1	chr18	53144844	53145044	+	729.25	f0_c57.idr	Intergenic	B2_Mm2|SINE|B2	-31348.0	NM_001357463	67804.0	Mm.252171	NM_026386	ENSMUSG00000034484	Snx2	0610030A03Rik	sorting nexin 2	protein-coding	7.0	3.5	2.0	55.5	29.5	15.0	17.5	13.0
Merged-chr7-141393032-4	chr7	141392922	141393122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011528, intron 1 of 7)	intron (NM_011528, intron 1 of 7)	862.0	NM_011528	21351.0	Mm.29182	NM_011528	ENSMUSG00000025503	Taldo1	-	transaldolase 1	protein-coding	29.0	44.0	54.5	523.5	60.0	17.5	35.5	32.0
Merged-chr15-85336558-6	chr15	85336491	85336691	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016843, intron 1 of 11)	CpG	210.0	NM_016843	54138.0	Mm.248906	NM_016843	ENSMUSG00000016541	Atxn10	AI325283|C77170|E46|Sca10|TEG-169|Tex169	ataxin 10	protein-coding	25.5	26.5	36.0	420.5	77.5	36.5	34.0	39.5
Merged-chr1-127774063-4	chr1	127773968	127774168	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045298)	promoter-TSS (NR_045298)	-14.0	NR_045298	100502745.0	Mm.440061	NR_045298	ENSMUSG00000102014	2900009J06Rik	-	RIKEN cDNA 2900009J06 gene	ncRNA	397.0	631.5	421.0	4254.5	991.5	403.5	422.0	349.5
Merged-chr2-102979330-4	chr2	102979225	102979425	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77660.0	NM_001039150	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	26.5	109.0	27.0	179.0	102.0	38.0	29.5	18.0
Merged-chr17-32536513-4	chr17	32536404	32536604	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024442)	promoter-TSS (NM_024442)	-53.0	NM_001356302	70101.0	Mm.30504	NM_024442	ENSMUSG00000048440	Cyp4f16	2310021J05Rik|AI746515	cytochrome P450, family 4, subfamily f, polypeptide 16	protein-coding	30.0	32.5	10.5	262.5	67.0	34.0	30.5	38.5
Merged-chr18-54918099-4	chr18	54917995	54918195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360787, intron 2 of 8)	intron (NM_001360787, intron 2 of 8)	72085.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	85.5	81.5	54.5	1202.0	196.0	63.5	115.5	80.0
Merged-chr4-134764468-4	chr4	134764369	134764569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	3535.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	34.0	54.0	57.0	657.0	93.5	26.0	33.0	36.5
Merged-chr3-33800106-4	chr3	33799969	33800169	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025978)	promoter-TSS (NM_025978)	-114.0	NM_027619	67120.0	Mm.275710	NM_025978	ENSMUSG00000027677	Ttc14	2700016E08Rik|4930434D01Rik|4931403I22Rik|4933402I15Rik|AI662468|AU014779|AW561908|cI-44|mKIAA1980	tetratricopeptide repeat domain 14	protein-coding	214.0	323.0	206.0	3636.5	493.0	185.5	244.0	195.0
Merged-chr5-36574772-4	chr5	36574671	36574871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113362, intron 2 of 14)	intron (NM_001113362, intron 2 of 14)	7626.0	NM_133910	100855.0	Mm.486203	NM_133910	ENSMUSG00000029192	Tbc1d14	2810413P16Rik|AU043625|C86258|D5Ertd110e|mKIAA1322	TBC1 domain family, member 14	protein-coding	46.5	75.5	43.5	809.0	90.0	31.5	61.5	48.5
Merged-chr11-61579660-4	chr11	61579493	61579693	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010148)	promoter-TSS (NM_010148)	94.0	NM_010148	13855.0	Mm.139695	NM_010148	ENSMUSG00000001036	Epn2	9530051D10Rik|AA536924|Ibp2	epsin 2	protein-coding	20.0	40.5	38.5	307.5	69.0	35.5	23.0	34.5
Merged-chr11-120902732-3	chr11	120902677	120902877	+	989.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027745, intron 6 of 18)	intron (NM_027745, intron 6 of 18)	30095.0	NM_027745	71276.0	Mm.275751	NM_027745	ENSMUSG00000048445	Ccdc57	4933434G05Rik	coiled-coil domain containing 57	protein-coding	11.5	10.0	4.5	116.0	6.0	4.0	5.5	5.0
Merged-chr12-110486233-4	chr12	110486123	110486323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081457, intron 1 of 12)	intron (NM_001081457, intron 1 of 12)	484.0	NM_012023	26931.0	Mm.240396	NM_012023	ENSMUSG00000017843	Ppp2r5c	2610043M05Rik|2700063L20Rik|AI060890|AW545884|C85228|D12Bwg0916e|mKIAA0044	protein phosphatase 2, regulatory subunit B', gamma	protein-coding	49.5	123.5	45.5	767.0	171.0	74.0	81.0	79.5
Merged-chr11-51857923-4	chr11	51857851	51858051	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_199299)	promoter-TSS (NM_199299)	-321.0	NM_001357588	76901.0	Mm.259996	NM_199299	ENSMUSG00000020387	Jade2	1200017K05Rik|AI480685|Phf15|mKIAA0239	jade family PHD finger 2	protein-coding	29.0	36.5	59.5	530.5	146.0	48.5	64.0	45.5
Merged-chr1-74381642-4	chr1	74381522	74381722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013612, intron 8 of 14)	intron (NM_013612, intron 8 of 14)	6419.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	160.0	190.5	170.0	1850.0	426.0	250.0	213.5	151.0
Merged-chr11-22972400-2	chr11	22972300	22972500	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_011663, exon 1 of 1)	5' UTR (NM_011663, exon 1 of 1)	395.0	NM_011663	22183.0	Mm.29542	NM_011663	ENSMUSG00000044068	Zrsr1	D11Ncvs75|Irlgs2|SP2|U2af1-rs1|U2afbp-rs	zinc finger (CCCH type), RNA binding motif and serine/arginine rich 1	protein-coding	4.5	12.0	5.0	111.5	13.0	12.5	10.5	15.5
Merged-chr7-113770534-4	chr7	113770439	113770639	+	958.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145584, intron 1 of 15)	intron (NM_145584, intron 1 of 15)	4541.0	NM_145584	233744.0	Mm.334160	NM_145584	ENSMUSG00000038156	Spon1	AI666765|AW455831|BC020531|D330035F22Rik|FSP	spondin 1, (f-spondin) extracellular matrix protein	protein-coding	14.0	13.5	22.0	355.0	48.0	7.0	20.0	15.5
Merged-chr1-16798504-4	chr1	16798417	16798617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	110061.0	NM_001159711	17087.0	Mm.116844	NM_016923	ENSMUSG00000025779	Ly96	ESOP-1|MD-2|MD2	lymphocyte antigen 96	protein-coding	45.5	97.0	58.5	2011.5	179.0	42.5	95.5	54.5
Merged-chr7-110920986-4	chr7	110920887	110921087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194464, intron 10 of 20)	intron (NM_194464, intron 10 of 20)	16002.0	NR_045267	100504184.0	Mm.441327	NR_045267	ENSMUSG00000087160	Gm16336	-	predicted gene 16336	ncRNA	64.0	63.5	61.0	1189.5	50.0	20.0	48.5	46.0
Merged-chr3-87356795-4	chr3	87356684	87356884	+	948.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1097.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	7.0	9.5	10.5	108.0	80.5	25.0	37.0	41.0
Merged-chr10-127621802-4	chr10	127621730	127621930	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008512)	promoter-TSS (NM_008512)	-682.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	125.0	125.5	147.0	2237.5	238.5	95.5	113.0	79.5
Merged-chr13-58687838-4	chr13	58687709	58687909	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	74502.0	NR_045469	67585.0	Mm.84751	NR_045469	ENSMUSG00000114384	4930455J16Rik	-	RIKEN cDNA 4930455J16 gene	ncRNA	13.0	18.5	19.5	212.0	34.5	18.0	14.0	16.5
Merged-chr6-29268661-3	chr6	29268569	29268769	+	946.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3819.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	9.5	24.5	17.0	281.0	29.0	5.0	4.0	7.5
Merged-chr2-26021739-4	chr2	26021656	26021856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133835)	promoter-TSS (NM_133835)	4.0	NM_133835	98766.0	Mm.247824	NM_133835	ENSMUSG00000036352	Ubac1	1110033G07Rik|AA407978|GBDR1|Gdbr1|Kpc2|Ubadc1	ubiquitin associated domain containing 1	protein-coding	76.5	114.0	55.5	906.5	194.5	62.0	91.5	74.0
Merged-chr14-32482305-4	chr14	32482192	32482392	+	840.5166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16383.0	NM_009891	12647.0	Mm.442817	NM_009891	ENSMUSG00000021919	Chat	B230380D24Rik|CHOACTase	choline acetyltransferase	protein-coding	8.5	15.5	10.5	228.5	49.0	13.0	12.5	17.0
Merged-chr1-125434729-4	chr1	125434643	125434843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205386, intron 2 of 12)	intron (NM_001205386, intron 2 of 12)	984.0	NM_001205386	74117.0	Mm.183102	NM_023735	ENSMUSG00000026341	Actr3	1200003A09Rik|Arp3	ARP3 actin-related protein 3	protein-coding	85.5	211.5	117.0	945.5	469.5	168.0	152.5	123.5
Merged-chr8-120300973-4	chr8	120300862	120301062	+	797.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-72732.0	NR_110496	434353.0	Mm.411793	NR_110496	ENSMUSG00000097960	A330074K22Rik	-	RIKEN cDNA A330074K22 gene	ncRNA	13.0	10.0	8.0	92.0	10.5	8.0	10.0	6.0
Merged-chr18-5688638-4	chr18	5688471	5688671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360981, intron 2 of 8)	MTD|LTR|ERVL-MaLR	95924.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	65.0	110.5	92.0	1331.0	130.5	41.0	49.0	65.5
Merged-chr16-55747371-4	chr16	55747280	55747480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74758.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	99.0	145.0	114.5	1531.0	268.5	113.0	90.5	90.0
Merged-chr18-75494931-4	chr18	75494857	75495057	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201354, intron 9 of 11)	intron (NM_201354, intron 9 of 11)	-19688.0	NR_045879	100038353.0	Mm.440724	NR_045879	ENSMUSG00000097712	Gm10532	-	predicted gene 10532	ncRNA	39.5	52.5	44.0	499.0	81.5	44.0	38.0	38.5
Merged-chr17-34033092-4	chr17	34032994	34033194	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205214, intron 2 of 9)	intron (NM_001205214, intron 2 of 9)	744.0	NM_001205215	20182.0	Mm.1243	NM_011306	ENSMUSG00000039656	Rxrb	AL023085|H-2RIIBP|Nr2b2|RCoR-1|Rub	retinoid X receptor beta	protein-coding	35.0	39.0	17.0	370.0	65.5	22.5	33.0	28.0
Merged-chr10-121474152-4	chr10	121474052	121474252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138956, intron 1 of 4)	intron (NM_138956, intron 1 of 4)	2098.0	NM_138956	192678.0	Mm.41265	NM_138956	ENSMUSG00000025795	Rassf3	AW212023|AW322379	Ras association (RalGDS/AF-6) domain family member 3	protein-coding	28.5	49.5	20.5	446.0	56.0	21.0	40.5	30.5
Merged-chr9-42141769-4	chr9	42141666	42141866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17469.0	NM_011436	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	29.0	25.0	42.5	505.0	97.0	35.0	30.0	30.5
Merged-chr4-150860716-4	chr4	150860620	150860820	+	969.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133753, intron 1 of 3)	intron (NM_133753, intron 1 of 3)	5650.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	8.0	20.0	17.5	270.5	47.5	27.5	30.0	20.0
Merged-chr8-88272626-4	chr8	88272541	88272741	+	894.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007406, intron 1 of 27)	CpG	238.0	NM_007406	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	12.5	22.5	16.5	174.0	35.5	9.0	9.0	14.5
Merged-chr6-33059769-1	chr6	33059669	33059869	+	1000.0	f1_c57bl6.idr	intron (NM_001355667, intron 1 of 8)	intron (NM_001355667, intron 1 of 8)	491.0	NM_001355667	66075.0	Mm.21501	NM_025336	ENSMUSG00000053768	Chchd3	0610041L09Rik|1700039J09Rik|AW558177	coiled-coil-helix-coiled-coil-helix domain containing 3	protein-coding	5.0	10.0	5.5	74.0	12.5	3.0	7.5	6.5
Merged-chr16-91382574-4	chr16	91382496	91382696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347258, intron 1 of 7)	MTEa-int|LTR|ERVL-MaLR	9813.0	NM_001110498	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	85.5	121.5	88.0	1458.5	183.5	45.0	81.0	69.5
Merged-chr11-19925581-4	chr11	19925482	19925682	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033523, intron 1 of 5)	CpG	1140.0	NM_033523	114716.0	Mm.266627	NM_033523	ENSMUSG00000045671	Spred2	C79158	sprouty-related, EVH1 domain containing 2	protein-coding	80.0	165.5	89.5	952.5	168.5	65.0	80.5	61.0
Merged-chr9-14835519-4	chr9	14835409	14835609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001310728, exon 19 of 19)	3' UTR (NM_001310728, exon 19 of 19)	-24701.0	NM_001310734	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	210.5	278.0	167.5	2786.0	395.0	104.5	139.0	150.0
Merged-chr15-84994635-4	chr15	84994498	84994698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-6627.0	NM_001033273	223739.0	Mm.323925	NM_001033273	ENSMUSG00000036046	5031439G07Rik	AW554572|mKIAA0930	RIKEN cDNA 5031439G07 gene	protein-coding	55.5	62.0	72.0	938.5	151.0	61.0	52.0	74.0
Merged-chr5-66299109-4	chr5	66299006	66299206	+	920.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001201413, exon 17 of 17)	3' UTR (NM_001201413, exon 17 of 17)	38265.0	NM_027602	70918.0	Mm.23166	NM_027602	ENSMUSG00000029206	Nsun7	4921525L17Rik	NOL1/NOP2/Sun domain family, member 7	protein-coding	12.0	9.0	4.5	167.5	31.0	9.5	18.5	28.0
Merged-chr11-115535672-4	chr11	115535552	115535752	+	906.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133354, intron 1 of 3)	CpG	578.0	NM_133354	170930.0	Mm.29923	NM_133354	ENSMUSG00000020738	Sumo2	SUMO-2|Smt3A|Smt3b|Smt3h2	small ubiquitin-like modifier 2	protein-coding	13.5	37.0	27.0	126.5	56.5	24.5	12.0	20.0
Merged-chr1-85894556-4	chr1	85894449	85894649	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022417)	promoter-TSS (NM_022417)	39.0	NM_022417	64294.0	Mm.29870	NM_022417	ENSMUSG00000026223	Itm2c	3110038L02Rik|BRI3|Bricd2c|E25|E25C|ITM3	integral membrane protein 2C	protein-coding	52.5	65.5	51.5	776.5	174.5	55.5	90.0	67.5
Merged-chr8-3661038-4	chr8	3660952	3661152	+	871.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER1B|Other|Other	-4710.0	NM_026985	69189.0	Mm.175176	NM_026985	ENSMUSG00000013974	Mcemp1	1810033B17Rik	mast cell expressed membrane protein 1	protein-coding	3.5	10.0	8.0	103.0	27.5	12.5	11.5	10.0
Merged-chr18-9505183-6	chr18	9505075	9505275	+	984.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-55021.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	47.5	38.0	18.5	527.5	56.0	8.0	15.0	30.5
Merged-chr10-79533395-4	chr10	79533304	79533504	+	991.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302389, intron 1 of 5)	CpG	383.0	NM_001302442	50784.0	Mm.28873	NM_015817	ENSMUSG00000052151	Plpp2	Lpp2|PAP2-G|PAP2-gamma|PAP2c|Ppap2c	phospholipid phosphatase 2	protein-coding	33.0	38.5	53.5	370.0	66.0	27.0	15.0	24.5
Merged-chr5-38307854-4	chr5	38307746	38307946	+	975.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11663.0	NM_013503	13492.0	Mm.167154	NM_013503	ENSMUSG00000039358	Drd5	D5R|Drd-5|Drd1b|Gpcr1	dopamine receptor D5	protein-coding	18.5	21.5	19.5	210.5	31.0	13.0	21.5	21.0
Merged-chr10-26576381-3	chr10	26576281	26576481	+	902.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	98270.0	NR_033633	667572.0	Mm.482728	NR_033633	ENSMUSG00000098179	Gm8709	EG667572	glyceraldehyde-3-phosphate dehydrogenase pseudogene	pseudo	1.0	1.0	5.0	34.0	31.5	8.0	12.5	11.0
Merged-chr5-124470733-4	chr5	124470715	124470915	+	748.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 1 of 3)	intron (NM_030259, intron 1 of 3)	7420.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	6.0	8.5	14.0	124.5	21.5	7.5	2.0	9.5
Merged-chr7-68830090-3	chr7	68829997	68830197	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80859.0	NM_025549	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	5.5	8.0	13.5	150.5	27.0	1.5	6.5	8.0
Merged-chr2-155826082-3	chr2	155825979	155826179	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010579, intron 2 of 5)	intron (NM_010579, intron 2 of 5)	846.0	NM_010579	16418.0	Mm.271674	NM_010579	ENSMUSG00000027613	Eif6	1110004P11|AA408895|CAB|Itgb4bp|eIF-6|imc-415|p27(BBP)|p27BBP	eukaryotic translation initiation factor 6	protein-coding	9.5	23.0	1.5	64.5	34.5	19.5	19.0	10.0
Merged-chr2-118547796-8	chr2	118547688	118547888	+	922.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001311140)	promoter-TSS (NM_001311140)	-189.0	NM_001311140	171543.0	Mm.210125	NM_138313	ENSMUSG00000040093	Bmf	AW260063|AW411872	BCL2 modifying factor	protein-coding	11.5	20.5	12.5	127.0	22.0	11.0	11.5	14.0
Merged-chr12-17000873-3	chr12	17000775	17000975	+	786.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172574)	promoter-TSS (NM_172574)	-757.0	NM_172574	217430.0	Mm.379451	NM_172574	ENSMUSG00000045679	Pqlc3	C78076|E030024M05Rik	PQ loop repeat containing	protein-coding	23.5	14.5	5.5	135.5	22.0	7.0	2.5	8.5
Merged-chr5-92363343-3	chr5	92363234	92363434	+	975.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038116)	promoter-TSS (NR_038116)	-38.0	NR_038116	56066.0	Mm.131723	NM_019494	ENSMUSG00000060183	Cxcl11	Cxc11|H174|I-tac|Ip9|Itac|Scyb11|Scyb9b|b-R1|betaR1	chemokine (C-X-C motif) ligand 11	protein-coding	4.0	22.0	3.5	16.5	33.5	16.5	10.5	10.5
Merged-chr7-123354541-4	chr7	123354425	123354625	+	969.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316713, intron 1 of 19)	intron (NM_001316713, intron 1 of 19)	15390.0	NM_001122643	70497.0	Mm.403318	NM_144529	ENSMUSG00000030766	Arhgap17	5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15	Rho GTPase activating protein 17	protein-coding	27.0	22.0	1.0	160.5	46.5	22.0	15.5	20.0
Merged-chr4-107577641-4	chr4	107577532	107577732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_147221, intron 4 of 10)	intron (NM_147221, intron 4 of 10)	105957.0	NR_151717	56296.0	Mm.141324	NM_019872	ENSMUSG00000028610	Dmrtb1	Dmrt6|Prp13	DMRT-like family B with proline-rich C-terminal, 1	protein-coding	25.5	41.5	29.0	568.5	56.5	31.5	40.0	46.0
Merged-chr10-63236024-4	chr10	63235923	63236123	+	866.8875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-7774.0	NM_030114	67345.0	Mm.234437	NM_026101	ENSMUSG00000020064	Herc4	1700056O17Rik|4921531D01Rik|9530080M15Rik|mKIAA1593	hect domain and RLD 4	protein-coding	16.0	27.0	15.5	94.5	36.5	8.5	12.0	16.5
Merged-chr4-67447994-3	chr4	67447875	67448075	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	620424.0	NM_021297	21898.0	Mm.38049	NM_021297	ENSMUSG00000039005	Tlr4	Lps|Ly87|Ran/M1|Rasl2-8	toll-like receptor 4	protein-coding	36.0	90.5	47.0	920.0	12.5	2.5	3.5	1.0
Merged-chr11-54161023-4	chr11	54160926	54161126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	52262.0	NR_045506	71056.0	Mm.56332	NR_045506	ENSMUSG00000086209	4933405E24Rik	-	RIKEN cDNA 4933405E24 gene	ncRNA	41.0	51.0	25.5	559.0	89.5	29.5	36.0	29.5
Merged-chr18-56562436-4	chr18	56562335	56562535	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138600)	promoter-TSS (NM_138600)	-134.0	NM_001162989	56698.0	Mm.214569	NM_019996	ENSMUSG00000008301	Phax	2810055C14Rik|4933427L19Rik|AU018701|AU018854|D18Ertd65e|Rnuxa|p55	phosphorylated adaptor for RNA export	protein-coding	30.0	43.5	37.0	507.5	59.5	27.5	22.0	23.5
Merged-chr13-76215614-3	chr13	76215527	76215727	+	828.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER20|DNA|hAT-Charlie	116893.0	NM_001081352	218343.0	Mm.277964	NM_001081352	ENSMUSG00000033991	Ttc37	-	tetratricopeptide repeat domain 37	protein-coding	12.5	19.0	12.0	247.5	2.0	0.0	0.5	3.5
Merged-chr8-36249521-4	chr8	36249418	36249618	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081150)	promoter-TSS (NM_001081150)	-2.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	264.5	440.0	305.0	3343.0	829.5	283.5	445.0	270.0
Merged-chr9-120885194-3	chr9	120885099	120885299	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30051.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	33.5	25.5	27.5	544.0	12.5	3.0	6.0	13.5
Merged-chr7-66109385-4	chr7	66109291	66109491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081163)	promoter-TSS (NM_001081163)	-124.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	39.0	86.0	41.0	617.0	156.5	55.0	54.5	51.5
Merged-chr4-140987088-7	chr4	140986974	140987174	+	985.9387820000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029097, exon 1 of 29)	exon (NM_029097, exon 1 of 29)	201.0	NM_001164366	74772.0	Mm.205625	NM_029097	ENSMUSG00000036622	Atp13a2	1110012E06Rik|AA589443	ATPase type 13A2	protein-coding	18.5	20.5	26.0	163.0	52.5	6.5	4.5	29.0
Merged-chr13-111536607-4	chr13	111536507	111536707	+	974.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151444, intron 1 of 1)	intron (NR_151444, intron 1 of 1)	13302.0	NR_151444	102636218.0	Mm.343364	NR_151444	ENSMUSG00000085634	Gm15290	-	predicted gene 15290	ncRNA	16.0	21.5	37.5	153.0	34.5	13.5	20.5	27.5
Merged-chr9-96365606-4	chr9	96365517	96365717	+	966.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1186.0	NM_001357212	11933.0	Mm.424	NM_007502	ENSMUSG00000032412	Atp1b3	AA409958|AI664000|AW212096	ATPase, Na+/K+ transporting, beta 3 polypeptide	protein-coding	6.5	6.5	25.5	244.0	79.0	12.0	23.5	24.5
Merged-chr3-18625690-3	chr3	18625585	18625785	+	952.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-145208.0	NR_040544	73959.0	Mm.60616	NR_040544	ENSMUSG00000102699	4930433B08Rik	-	RIKEN cDNA 4930433B08 gene	ncRNA	12.5	14.0	20.0	148.0	19.5	10.0	10.5	22.5
Merged-chr1-45872389-4	chr1	45872271	45872471	+	768.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53223.0	NM_016917	53945.0	Mm.28756	NM_016917	ENSMUSG00000025993	Slc40a1	Dusg|Fpn1|IREG1|MTP|MTP1|Ol5|Pcm|Slc11a3|Slc39a1	solute carrier family 40 (iron-regulated transporter), member 1	protein-coding	9.0	6.0	4.5	81.0	11.5	4.5	4.5	4.0
Merged-chr4-3664659-1	chr4	3664559	3664759	+	655.0	f0_balb.idr	Intergenic	Intergenic	8153.0	NR_040643	70143.0	Mm.417835	NR_040643	ENSMUSG00000085394	2210414B05Rik	-	RIKEN cDNA 2210414B05 gene	ncRNA	8.5	13.0	8.5	210.5	2.0	0.5	1.5	4.5
Merged-chr13-98693020-7	chr13	98692833	98693033	+	928.9285890000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025606, intron 1 of 3)	intron (NM_001025606, intron 1 of 3)	1898.0	NM_001025606	380863.0	Mm.28264	NM_001025606	ENSMUSG00000052485	Tmem171	Gm905	transmembrane protein 171	protein-coding	7.5	20.5	2.0	81.0	23.5	9.5	4.5	5.5
Merged-chr11-79528849-5	chr11	79528740	79528940	+	886.4400019999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033711, intron 1 of 1)	intron (NM_001033711, intron 1 of 1)	1769.0	NM_146023	101488212.0	Mm.439665	NM_146023	ENSMUSG00000070354	Evi2	Evi2a-evi2b|Gm21975	ecotropic viral integration site 2	protein-coding	11.0	6.5	2.0	100.5	46.0	15.0	12.0	18.0
Merged-chr12-36155283-4	chr12	36155201	36155401	+	794.333313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025840, intron 1 of 11)	intron (NM_025840, intron 1 of 11)	1524.0	NM_025840	66912.0	Mm.288669	NM_025840	ENSMUSG00000020547	Bzw2	1110001I24Rik|Bdm2|HSPC028	basic leucine zipper and W2 domains 2	protein-coding	10.5	15.0	5.0	187.0	21.5	8.5	5.5	8.0
Merged-chr17-3114963-4	chr17	3114840	3115040	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134123)	promoter-TSS (NM_134123)	-32.0	NM_134123	106583.0	Mm.124373	NM_134123	ENSMUSG00000046201	Scaf8	A630086M08Rik|A930036P18Rik|AA408306|AI447644|AI448652|AU015035|Rbm16|mKIAA1116	SR-related CTD-associated factor 8	protein-coding	137.5	216.0	176.0	2769.0	420.0	147.0	212.0	181.0
Merged-chr2-117914101-4	chr2	117914008	117914208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	92180.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	53.5	53.5	59.5	852.0	66.0	10.0	35.5	37.5
Merged-chr1-184502731-1	chr1	184502631	184502831	+	644.0	f0_balb.idr	Intergenic	Intergenic	54960.0	NR_040472	73590.0	Mm.82792	NR_040472	ENSMUSG00000101574	1700112H15Rik	-	RIKEN cDNA 1700112H15 gene	ncRNA	7.0	13.0	4.5	94.5	27.0	3.5	5.0	7.5
Merged-chr9-62936141-3	chr9	62936132	62936332	+	720.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 2 of 13)	RSINE1|SINE|B4	44647.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	0.5	2.5	3.0	47.0	16.0	4.5	6.5	5.0
Merged-chr2-49452108-4	chr2	49452001	49452201	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172663, intron 1 of 13)	CpG	615.0	NM_172663	227867.0	Mm.29167	NM_172663	ENSMUSG00000069495	Epc2	5830499L14|D2Ertd694e	enhancer of polycomb homolog 2	protein-coding	142.0	198.5	132.5	1504.5	475.5	151.0	147.0	144.0
Merged-chr11-120040619-4	chr11	120040517	120040717	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198785, intron 1 of 13)	intron (NM_001198785, intron 1 of 13)	1164.0	NM_001198787	11302.0	Mm.6826	NM_007377	ENSMUSG00000025375	Aatk	AATYK|aatyk1|mKIAA0641	apoptosis-associated tyrosine kinase	protein-coding	56.0	82.0	31.5	931.0	118.5	34.0	31.0	50.5
Merged-chr3-27227572-3	chr3	27227491	27227691	+	886.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	B4A|SINE|B4	44587.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	11.5	15.5	5.0	144.0	9.0	1.5	4.0	9.5
Merged-chr10-62132810-4	chr10	62132717	62132917	+	876.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009719)	promoter-TSS (NM_009719)	-273.0	NM_009719	11925.0	Mm.57236	NM_009719	ENSMUSG00000044312	Neurog3	Atoh5|Math4B|bHLHa7|ngn3	neurogenin 3	protein-coding	13.5	14.5	12.0	273.0	20.0	10.5	21.5	10.0
Merged-chr4-132336055-4	chr4	132335959	132336159	+	959.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133878, intron 4 of 9)	intron (NM_133878, intron 4 of 9)	-6521.0	NM_027925	71787.0	Mm.239183	NM_027925	ENSMUSG00000028898	Trnau1ap	1110007F05Rik|AA387999|Secp43|Trspap1|WI1-2643G14.2	tRNA selenocysteine 1 associated protein 1	protein-coding	16.5	20.0	18.5	138.0	106.5	20.0	28.5	42.5
Merged-chr7-132323610-4	chr7	132323500	132323700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6372.0	NM_029935	77590.0	Mm.213582	NM_029935	ENSMUSG00000030930	Chst15	4631426J05Rik|BRAG|GalNAc4S-6ST|GalNAcS-6ST|MAd5|mKIAA0598	carbohydrate (N-acetylgalactosamine 4-sulfate 6-O) sulfotransferase 15	protein-coding	41.0	75.0	39.5	629.0	159.0	31.0	53.0	41.5
Merged-chr7-25652563-3	chr7	25652462	25652662	+	861.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007533, intron 1 of 8)	intron (NM_007533, intron 1 of 8)	6199.0	NM_007533	12039.0	Mm.25848	NM_007533	ENSMUSG00000060376	Bckdha	-	branched chain ketoacid dehydrogenase E1, alpha polypeptide	protein-coding	5.0	8.0	5.5	110.5	14.5	3.0	3.0	7.5
Merged-chr3-107031712-3	chr3	107031644	107031844	+	819.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4418.0	NM_008418	16491.0	Mm.30640	NM_008418	ENSMUSG00000047959	Kcna3	Kca1-3|Kv1.3|Mk-3	potassium voltage-gated channel, shaker-related subfamily, member 3	protein-coding	9.0	7.0	7.0	129.0	13.0	4.5	7.0	6.0
Merged-chr11-88107548-4	chr11	88107425	88107625	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198013, intron 1 of 10)	intron (NM_198013, intron 1 of 10)	8379.0	NM_198013	103841.0	Mm.374846	NM_198013	ENSMUSG00000018378	Cuedc1	AI841487|C330016O16Rik	CUE domain containing 1	protein-coding	29.0	78.0	51.0	555.5	117.0	40.0	56.0	50.0
Merged-chr19-8252215-4	chr19	8252094	8252294	+	909.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LSU-rRNA_Hsa|rRNA|rRNA	-33294.0	NM_001347426	236293.0	Mm.440581	NM_172776	ENSMUSG00000075044	Slc22a29	D630002G06Rik	solute carrier family 22. member 29	protein-coding	12.5	23.0	14.5	147.0	34.5	9.0	21.0	27.5
Merged-chr11-100927547-3	chr11	100927459	100927659	+	884.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213660, intron 1 of 23)	intron (NM_213660, intron 1 of 23)	11981.0	NM_213660	20848.0	Mm.249934	NM_011486	ENSMUSG00000004040	Stat3	1110034C02Rik|AW109958|Aprf	signal transducer and activator of transcription 3	protein-coding	6.0	10.5	7.5	76.0	31.0	5.5	12.5	12.5
Merged-chr4-21767177-4	chr4	21767072	21767272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029840)	promoter-TSS (NM_029840)	39.0	NM_029840	77032.0	Mm.87238	NM_029840	ENSMUSG00000028251	Tstd3	2610029I01Rik	thiosulfate sulfurtransferase (rhodanese)-like domain containing 3	protein-coding	42.0	64.0	28.0	563.5	116.5	35.0	39.5	35.5
Merged-chr5-26537909-4	chr5	26537823	26538023	+	901.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44609.0	NR_029445	75942.0	Mm.50087	NR_029445	ENSMUSG00000029044	4930584F24Rik	1700001J09Rik|4930522C06Rik	RIKEN cDNA 4930584F24 gene	ncRNA	19.5	20.5	36.5	279.5	25.0	6.0	8.0	6.0
Merged-chr18-27022100-4	chr18	27022014	27022214	+	728.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1267957.0	NM_001362334	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	7.0	11.0	6.0	121.5	20.5	6.5	24.0	8.0
Merged-chr4-120819487-2	chr4	120819387	120819587	+	889.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001048168, intron 1 of 9)	L3|LINE|CR1	-3774.0	NM_001357192	18046.0	Mm.318389	NM_008692	ENSMUSG00000032897	Nfyc	-	nuclear transcription factor-Y gamma	protein-coding	1.5	5.5	3.5	52.5	14.0	5.5	7.0	8.0
Merged-chr8-71596095-4	chr8	71595984	71596184	+	947.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_025396, exon 5 of 5)	exon (NM_025396, exon 5 of 5)	-1562.0	NM_001166213	100037278.0	Mm.482159	NM_001166213	ENSMUSG00000043243	Fam129c	Bcnp1	family with sequence similarity 129, member C	protein-coding	37.0	52.5	10.5	452.0	77.5	20.0	35.5	23.5
Merged-chr12-71051251-4	chr12	71051101	71051301	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081195, intron 11 of 23)	B3|SINE|B2	35234.0	NM_001081195	238247.0	Mm.241601	NM_001081195	ENSMUSG00000048118	Arid4a	A630009N03|A630067N03Rik|Rbbp1	AT rich interactive domain 4A (RBP1-like)	protein-coding	54.5	64.0	48.0	756.5	58.0	22.5	25.5	32.5
Merged-chr10-63347354-4	chr10	63347265	63347465	+	906.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mus2|SINE|Alu	-8330.0	NM_001159589	93759.0	Mm.351459	NM_019812	ENSMUSG00000020063	Sirt1	AA673258|SIR2L1|Sir2|Sir2a|Sir2alpha	sirtuin 1	protein-coding	19.5	11.5	9.0	159.0	30.5	7.5	9.0	16.0
Merged-chr8-73233628-4	chr8	73233518	73233718	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010687, intron 1 of 14)	B4|SINE|B4	119922.0	NM_001317391	16795.0	Mm.324371	NM_010687	ENSMUSG00000004383	Large1	BPFD#36|Gyltl1a|Large|Mbp-1|Mbp1|enr|fg|froggy|myd	LARGE xylosyl- and glucuronyltransferase 1	protein-coding	79.5	127.5	116.0	1845.5	277.0	92.5	139.5	113.5
Merged-chr2-102873581-3	chr2	102873486	102873686	+	789.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	28079.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	12.5	11.5	22.0	283.5	15.5	8.5	6.5	2.5
Merged-chr5-135573171-4	chr5	135573064	135573264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019577)	promoter-TSS (NM_019577)	-115.0	NM_001356630	56221.0	Mm.31505	NM_019577	ENSMUSG00000004814	Ccl24	CKb-6|MPIF-2|Scya24	chemokine (C-C motif) ligand 24	protein-coding	129.5	151.0	177.0	1771.0	231.0	96.0	125.0	95.0
Merged-chr8-46739583-4	chr8	46739554	46739754	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008391)	promoter-TSS (NM_008391)	-91.0	NM_008391	16363.0	Mm.1149	NM_008391	ENSMUSG00000031627	Irf2	9830146E22Rik|AI646973|Irf-2	interferon regulatory factor 2	protein-coding	173.5	267.0	177.5	2629.5	486.0	193.0	248.5	210.0
Merged-chr5-99379751-4	chr5	99379645	99379845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	intron (NR_030692, intron 2 of 3)	-126818.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	147.0	300.0	172.5	2192.5	343.0	130.5	143.5	98.5
Merged-chr5-105718480-4	chr5	105718370	105718570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178701, intron 1 of 2)	intron (NM_178701, intron 1 of 2)	17660.0	NM_178701	231549.0	Mm.23837	NM_178701	ENSMUSG00000046079	Lrrc8d	2810473G09Rik|4930525N13Rik|A930019F03|Lrrc5	leucine rich repeat containing 8D	protein-coding	170.5	226.5	185.5	2756.5	389.5	147.5	209.5	141.5
Merged-chr7-44858103-4	chr7	44858012	44858212	+	965.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290764, intron 2 of 16)	intron (NM_001290764, intron 2 of 16)	709.0	NM_001290767	59047.0	Mm.238254	NM_021549	ENSMUSG00000002963	Pnkp	1810009G08Rik|PNK	polynucleotide kinase 3'- phosphatase	protein-coding	21.5	37.0	14.0	161.5	47.5	12.0	19.0	27.0
Merged-chr12-102320103-4	chr12	102319973	102320173	+	773.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 2 of 9)	ORR1E|LTR|ERVL-MaLR	36432.0	NM_001161365	217835.0	Mm.24145	NM_177620	ENSMUSG00000044456	Rin3	6430500K07|C86933	Ras and Rab interactor 3	protein-coding	9.5	6.5	21.5	196.0	31.0	6.5	7.0	10.0
Merged-chr9-65545804-4	chr9	65545688	65545888	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34299.0	NM_153119	102595.0	Mm.247303	NM_153119	ENSMUSG00000050721	Plekho2	AI840980|Plekhq1	pleckstrin homology domain containing, family O member 2	protein-coding	176.0	226.5	194.5	2388.0	323.5	111.5	181.0	171.5
Merged-chr14-61971651-4	chr14	61971566	61971766	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-289293.0	NR_028264	668253.0	Mm.32886	NR_028264	ENSMUSG00000097589	Dleu2	1810047A16Rik|4932411A06Rik|7730401J12Rik|AI197277|AI788824|Alt1|Gm9069|Leu2	deleted in lymphocytic leukemia, 2	ncRNA	36.5	26.0	31.5	611.5	75.0	19.0	36.5	33.0
Merged-chr11-117955852-3	chr11	117955763	117955963	+	879.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13503.0	NM_007707	12702.0	Mm.3468	NM_007707	ENSMUSG00000053113	Socs3	Cis3|Cish3|EF-10|Ef10|SSI-3|Ssi3	suppressor of cytokine signaling 3	protein-coding	14.5	10.0	10.0	102.5	15.0	8.5	6.0	10.5
Merged-chr2-122572033-4	chr2	122571934	122572134	+	888.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	39243.0	NM_025961	67092.0	Mm.29975	NM_025961	ENSMUSG00000027199	Gatm	1810003P21Rik|AI314789|AT	glycine amidinotransferase (L-arginine:glycine amidinotransferase)	protein-coding	22.0	66.0	14.5	178.0	26.0	8.0	8.0	14.5
Merged-chr9-111033984-4	chr9	111033894	111034094	+	979.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008522, intron 13 of 16)	RSINE1|SINE|B4	14702.0	NM_008522	17002.0	Mm.282359	NM_008522	ENSMUSG00000032496	Ltf	Csp82|Lf|MMS10R|Ms10r	lactotransferrin	protein-coding	14.0	23.5	21.5	224.0	59.5	15.5	12.0	16.0
Merged-chr2-32502064-4	chr2	32501969	32502169	+	824.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-33290.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	10.0	9.5	4.5	128.5	23.5	6.0	12.0	24.0
Merged-chr17-35235100-4	chr17	35235006	35235206	+	978.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347351)	promoter-TSS (NM_001347351)	96.0	NM_001347351	66237.0	Mm.396107	NM_023179	ENSMUSG00000024403	Atp6v1g2	1500002D01Rik|Atp6g2|NG38|VAG2	ATPase, H+ transporting, lysosomal V1 subunit G2	protein-coding	18.0	25.5	17.0	250.5	53.5	19.5	15.5	28.0
Merged-chr12-117586252-4	chr12	117586125	117586325	+	981.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175930, intron 7 of 27)	intron (NM_175930, intron 7 of 27)	69746.0	NM_175930	217944.0	Mm.227642	NM_175930	ENSMUSG00000041992	Rapgef5	4932413M22|C86120|D030051B22Rik|GFR|Mrgef|mKIAA0277|mmr-gef	Rap guanine nucleotide exchange factor (GEF) 5	protein-coding	23.0	26.0	13.0	369.5	39.0	15.5	19.5	11.0
Merged-chr7-45522017-4	chr7	45521933	45522133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008654)	TTS (NM_008654)	4235.0	NM_008654	17872.0	Mm.4048	NM_008654	ENSMUSG00000040435	Ppp1r15a	9630030H21|Gadd34|Myd116	protein phosphatase 1, regulatory (inhibitor) subunit 15A	protein-coding	108.5	172.5	104.5	1699.0	242.5	77.0	144.0	98.0
Merged-chr14-121427243-4	chr14	121427108	121427308	+	990.5714109999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47978.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	7.5	18.0	17.5	28.0	36.0	13.5	11.0	13.5
Merged-chr13-101680040-2	chr13	101679940	101680140	+	953.5	f1_balb.idr|f1_c57bl6.idr	TTS (NM_001077495)	TTS (NM_001077495)	12590.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	1.0	5.5	11.5	49.0	12.0	6.5	11.0	20.0
Merged-chr11-55148962-4	chr11	55148825	55149025	+	879.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172258, intron 2 of 10)	(TG)n|Simple_repeat|Simple_repeat	2781.0	NM_172258	215332.0	Mm.87054	NM_172258	ENSMUSG00000049491	Slc36a3	PAT3|TRAMD2|tramdorin2	solute carrier family 36 (proton/amino acid symporter), member 3	protein-coding	4.0	10.0	10.0	91.0	20.0	6.0	4.5	6.5
Merged-chr2-24919630-4	chr2	24919521	24919721	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172545)	promoter-TSS (NM_172545)	-12.0	NM_001109686	77683.0	Mm.24176	NM_172545	ENSMUSG00000036893	Ehmt1	9230102N17Rik|D330003E03|Eu-HMTase1|GLP|GLP1|KMT1D|mKIAA1876	euchromatic histone methyltransferase 1	protein-coding	123.0	130.0	54.5	910.5	221.0	102.5	118.5	82.5
Merged-chr17-50528170-3	chr17	50528072	50528272	+	834.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013880, intron 1 of 5)	intron (NM_013880, intron 1 of 5)	18625.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	14.0	17.5	15.0	134.5	19.5	6.5	6.0	3.5
Merged-chr1-184733751-3	chr1	184733645	184733845	+	887.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1252.0	NM_008250	15284.0	Mm.1347	NM_008250	ENSMUSG00000039377	Hlx	Hlx1	H2.0-like homeobox	protein-coding	11.0	11.0	6.5	145.0	30.0	18.0	7.0	12.5
Merged-chr17-34142652-3	chr17	34142547	34142747	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2769.0	NM_010388	15000.0	Mm.195060	NM_010388	ENSMUSG00000037548	H2-DMb2	H-2Mb2|H2-Mb2	histocompatibility 2, class II, locus Mb2	protein-coding	12.0	3.0	2.0	66.0	107.0	41.0	35.0	20.5
Merged-chr14-47374550-4	chr14	47374430	47374630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145953, intron 1 of 5)	intron (NM_001145953, intron 1 of 5)	670.0	NM_001145953	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	183.5	265.0	238.0	3147.5	389.5	135.5	171.0	176.5
Merged-chr1-171437517-4	chr1	171437459	171437659	+	868.408325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_151523)	promoter-TSS (NR_151523)	-2.0	NM_172647	16456.0	Mm.294882	NM_172647	ENSMUSG00000038235	F11r	9130004G24|AA638916|ESTM33|JAM|JAM-1|JAM-A|Jcam|Jcam1|Ly106	F11 receptor	protein-coding	25.5	9.5	7.5	182.0	38.0	17.5	8.5	11.0
Merged-chr11-51805398-4	chr11	51805295	51805495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR42|LTR|ERVK	41732.0	NM_025535	66397.0	Mm.196592	NM_025535	ENSMUSG00000020386	Sar1b	2310075M17Rik|2900019I22Rik|CMRD|Sara1b|Sara2|Sarb	secretion associated Ras related GTPase 1B	protein-coding	41.5	59.0	21.0	533.0	79.0	24.5	43.5	24.5
Merged-chr2-51933766-3	chr2	51933615	51933815	+	727.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355607)	promoter-TSS (NM_001355607)	-380.0	NM_001355607	71684.0	Mm.28309	NM_030243	ENSMUSG00000036249	Rbm43	0610033I05Rik	RNA binding motif protein 43	protein-coding	6.5	5.0	11.0	59.0	5.5	2.0	4.5	1.0
Merged-chr7-27486383-2	chr7	27486283	27486483	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018820)	promoter-TSS (NM_018820)	-570.0	NM_018820	55942.0	Mm.153684	NM_018820	ENSMUSG00000008384	Sertad1	1110032C13Rik|AV000455|AW456625|Sei-1|Sei1|TRIP-Br1	SERTA domain containing 1	protein-coding	10.5	8.0	3.0	75.5	14.5	7.5	11.5	6.0
Merged-chr2-116976009-4	chr2	116975880	116976080	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	75828.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	39.0	125.0	55.0	464.5	147.0	59.5	72.0	47.5
Merged-chr12-59579866-1	chr12	59579766	59579966	+	914.0	f0_balb.idr	Intergenic	Intergenic	-360383.0	NM_001033156	70611.0	Mm.311026	NM_001033156	ENSMUSG00000035329	Fbxo33	5730501N20Rik|AI642135	F-box protein 33	protein-coding	5.0	16.5	20.5	218.5	6.0	0.5	6.0	0.5
Merged-chr5-73292751-4	chr5	73292657	73292857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159889)	promoter-TSS (NM_001159889)	-37.0	NM_001159887	68095.0	Mm.247039	NM_023429	ENSMUSG00000029152	Ociad1	6030432N09Rik|AI481327|AW557942|Asrij|B230209J16Rik|BB021357|Emi2|Imi2|OCIA|TPA018	OCIA domain containing 1	protein-coding	217.0	290.0	187.5	2447.0	529.5	212.0	247.5	248.5
Merged-chr3-138537551-2	chr3	138537451	138537651	+	741.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001313980, intron 2 of 7)	intron (NM_001313980, intron 2 of 7)	10283.0	NM_001313980	13684.0	Mm.3941	NM_007917	ENSMUSG00000028156	Eif4e	EG668879|Eif4e-ps|If4e|eIF-4E	eukaryotic translation initiation factor 4E	protein-coding	4.5	4.5	6.5	72.0	12.5	1.0	2.0	9.0
Merged-chr15-102192557-4	chr15	102192457	102192657	+	981.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359128, intron 3 of 15)	L2|LINE|L2	-3514.0	NM_144942	246277.0	Mm.296382	NM_144942	ENSMUSG00000023044	Csad	Csd	cysteine sulfinic acid decarboxylase	protein-coding	13.5	39.0	15.5	389.0	36.0	20.0	22.0	15.5
Merged-chr11-21371304-4	chr11	21371195	21371395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139297)	promoter-TSS (NM_139297)	-28.0	NM_001290634	216558.0	Mm.28877	NM_139297	ENSMUSG00000001891	Ugp2	UDPGP|UGPase	UDP-glucose pyrophosphorylase 2	protein-coding	101.5	156.5	88.5	1778.0	265.0	102.0	134.5	84.0
Merged-chr2-131089832-4	chr2	131089731	131089931	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3066.0	NM_011426	20612.0	Mm.1374	NM_011426	ENSMUSG00000027322	Siglec1	Cd169|Siglec-1|Sn	sialic acid binding Ig-like lectin 1, sialoadhesin	protein-coding	79.0	98.5	70.5	1366.5	142.5	42.5	79.0	55.5
Merged-chr8-82402822-4	chr8	82402716	82402916	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001254747)	promoter-TSS (NM_001254747)	-230.0	NM_008357	16168.0	Mm.4392	NM_008357	ENSMUSG00000031712	Il15	AI503618|IL-15	interleukin 15	protein-coding	48.5	71.5	46.5	284.0	155.5	33.0	28.0	17.0
Merged-chr12-99902223-3	chr12	99902105	99902305	+	624.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028354, intron 5 of 15)	(TTTTG)n|Simple_repeat|Simple_repeat	17690.0	NM_028354	104884.0	Mm.312323	NM_028354	ENSMUSG00000021177	Tdp1	2810481F14Rik|4921509N21Rik|AI838772|AW493413|E430034L06Rik|MLZ-501|SCAN1	tyrosyl-DNA phosphodiesterase 1	protein-coding	2.5	12.0	2.0	49.0	21.5	13.0	14.5	6.5
Merged-chr1-127240138-4	chr1	127240031	127240231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	35145.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	54.0	60.0	30.0	972.5	142.0	40.5	38.0	40.0
Merged-chr19-6335376-2	chr19	6335276	6335476	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168490, exon 1 of 8)	5' UTR (NM_001168490, exon 1 of 8)	337.0	NM_008583	17283.0	Mm.12917	NM_008583	ENSMUSG00000024947	Men1	AW045611	multiple endocrine neoplasia 1	protein-coding	7.0	7.0	9.5	44.0	4.0	6.5	5.0	6.5
Merged-chr3-88244305-3	chr3	88244206	88244406	+	882.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021375, intron 8 of 9)	intron (NM_021375, intron 8 of 9)	10378.0	NM_021375	58176.0	Mm.103777	NM_021375	ENSMUSG00000104445	Rhbg	-	Rhesus blood group-associated B glycoprotein	protein-coding	7.0	11.0	6.5	63.0	21.0	7.5	7.0	11.5
Merged-chr6-29271174-4	chr6	29271076	29271276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1312.0	NM_001190461	69573.0	Mm.45161	NM_023516	ENSMUSG00000043421	Hilpda	2310016C08Rik|AW049004|Hig2	hypoxia inducible lipid droplet associated	protein-coding	257.5	374.0	250.5	3568.0	536.0	245.5	232.0	211.0
Merged-chr16-57259960-4	chr16	57259873	57260073	+	878.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28507.0	NM_001358433	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	11.5	12.0	16.0	229.0	28.5	7.5	8.0	10.5
Merged-chr4-44756221-4	chr4	44756113	44756313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138590)	promoter-TSS (NM_138590)	-346.0	NM_138590	319885.0	Mm.331576	NM_138590	ENSMUSG00000035649	Zcchc7	4930572I07Rik|D4Wsu132e	zinc finger, CCHC domain containing 7	protein-coding	44.0	66.0	39.0	605.5	137.5	30.0	54.0	38.0
Merged-chr10-121367291-4	chr10	121367170	121367370	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029364, intron 1 of 13)	intron (NM_029364, intron 1 of 13)	2180.0	NM_029364	75612.0	Mm.207683	NM_029364	ENSMUSG00000034707	Gns	2610016K11Rik|AU042285|C87209|G6S|N28088	glucosamine (N-acetyl)-6-sulfatase	protein-coding	19.5	28.0	24.0	472.5	50.0	22.0	25.0	17.0
Merged-chr18-62023315-4	chr18	62023207	62023407	+	899.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70232.0	NM_172628	225608.0	Mm.262320	NM_172628	ENSMUSG00000045629	Sh3tc2	D430044G18Rik	SH3 domain and tetratricopeptide repeats 2	protein-coding	7.5	14.0	6.0	145.0	38.5	11.0	5.0	3.0
Merged-chr2-160729961-4	chr2	160729858	160730058	+	906.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1352.0	NM_021280	18803.0	Mm.44463	NM_021280	ENSMUSG00000016933	Plcg1	AI894140|Cded|Plc-1|Plc-gamma1|Plcg-1	phospholipase C, gamma 1	protein-coding	15.0	12.5	11.0	120.0	31.0	20.0	3.0	13.0
Merged-chr7-102266718-4	chr7	102266591	102266791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1133.0	NM_009287	20866.0	Mm.645	NM_009287	ENSMUSG00000030987	Stim1	SIM	stromal interaction molecule 1	protein-coding	32.0	38.5	19.5	386.0	54.0	19.5	26.5	28.0
Merged-chr5-66364093-4	chr5	66364005	66364205	+	858.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310626, intron 9 of 15)	intron (NM_001310626, intron 9 of 15)	-26440.0	NM_001201416	11787.0	Mm.5159	NM_009686	ENSMUSG00000029207	Apbb2	2310007D03Rik|FE65L1|Rirl1|TR2L|Zfra	amyloid beta (A4) precursor protein-binding, family B, member 2	protein-coding	14.5	12.5	10.5	285.5	24.0	8.5	9.0	30.0
Merged-chr8-11005037-3	chr8	11004903	11005103	+	589.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081212, exon 1 of 2)	exon (NM_001081212, exon 1 of 2)	-2847.0	NR_046017	619321.0	Mm.403007	NR_046017	ENSMUSG00000096938	9530052E02Rik	-	RIKEN cDNA 9530052E02 gene	ncRNA	7.5	9.0	4.5	74.5	12.5	3.0	0.5	1.0
Merged-chr13-20114461-3	chr13	20114341	20114541	+	861.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	23934.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	8.0	10.5	3.5	92.0	20.0	5.0	5.5	10.5
Merged-chr2-27740366-4	chr2	27740273	27740473	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290481, intron 2 of 9)	intron (NM_001290481, intron 2 of 9)	29790.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	401.5	634.0	441.0	5898.0	1097.0	441.0	461.5	359.0
Merged-chr16-15887255-4	chr16	15887168	15887368	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007679)	promoter-TSS (NM_007679)	-18.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	88.5	128.0	104.5	1530.0	194.5	90.5	125.5	112.5
Merged-chr2-73313288-4	chr2	73313190	73313390	+	842.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025854)	promoter-TSS (NM_025854)	638.0	NM_001355711	74616.0	Mm.247457	NM_029022	ENSMUSG00000008226	Scrn3	4833415E20Rik|AI427019|AV002033|Ses3	secernin 3	protein-coding	12.0	18.0	7.5	159.0	27.0	17.0	9.0	19.0
Merged-chr18-58567289-4	chr18	58567188	58567388	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081072, intron 1 of 9)	Lx7|LINE|L1	11048.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	9.0	34.0	24.0	260.5	45.0	20.0	20.0	8.0
Merged-chr13-60612353-4	chr13	60612241	60612441	+	931.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134062, intron 2 of 26)	intron (NM_134062, intron 2 of 26)	10130.0	NM_134062	69635.0	Mm.24103	NM_029653	ENSMUSG00000021559	Dapk1	D13Ucla1|DAP-Kinase	death associated protein kinase 1	protein-coding	14.5	28.0	7.5	148.0	33.0	7.5	10.5	18.5
Merged-chr2-163100689-4	chr2	163100583	163100783	+	931.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11082.0	NM_026630	68236.0	Mm.33648	NM_026630	ENSMUSG00000070708	Gtsf1l	2410116G06Rik	gametocyte specific factor 1-like	protein-coding	9.5	14.5	13.5	153.0	15.5	14.0	20.0	10.0
Merged-chr15-8382466-4	chr15	8382392	8382592	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201232, intron 1 of 45)	intron (NM_201232, intron 1 of 45)	61971.0	NM_027707	71175.0	Mm.240329	NM_027707	ENSMUSG00000022141	Nipbl	Idn3	NIPBL cohesin loading factor	protein-coding	18.0	24.0	17.5	395.0	48.0	24.0	18.5	17.0
Merged-chr1-131020648-2	chr1	131020548	131020748	+	690.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_010548, intron 1 of 4)	intron (NM_010548, intron 1 of 4)	803.0	NM_010548	16153.0	Mm.874	NM_010548	ENSMUSG00000016529	Il10	CSIF|Il-10	interleukin 10	protein-coding	4.0	5.5	4.0	40.0	17.5	6.5	4.5	4.5
Merged-chr17-65907184-4	chr17	65907073	65907273	+	947.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-21418.0	NM_009067	19765.0	Mm.17009	NM_009067	ENSMUSG00000024096	Ralbp1	RLIP76|Rip1	ralA binding protein 1	protein-coding	11.0	19.0	24.5	238.0	33.5	17.0	15.0	11.5
Merged-chr6-113697042-4	chr6	113696933	113697133	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033463)	promoter-TSS (NM_001033463)	-17.0	NM_001347356	381801.0	Mm.333322	NM_001033463	ENSMUSG00000056952	Tatdn2	AI646012|mKIAA0218	TatD DNase domain containing 2	protein-coding	293.0	434.0	320.0	4379.0	728.0	377.0	410.0	277.5
Merged-chr6-134072577-4	chr6	134072487	134072687	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001303102, intron 2 of 8)	intron (NM_001303102, intron 2 of 8)	36887.0	NM_007961	14011.0	Mm.269995	NM_007961	ENSMUSG00000030199	Etv6	AW123102|AW557856|Tel	ets variant 6	protein-coding	86.5	134.5	64.5	986.5	142.5	50.5	67.5	55.5
Merged-chr10-125388765-7	chr10	125388668	125388868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59805.0	NM_001358496	20503.0	Mm.29161	NM_011391	ENSMUSG00000020102	Slc16a7	4921534N07Rik|9030411M13Rik|D630004K10Rik|Mct2	solute carrier family 16 (monocarboxylic acid transporters), member 7	protein-coding	11.0	19.0	27.5	244.5	29.0	24.0	11.0	22.5
Merged-chr6-51469983-4	chr6	51469905	51470105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_182650)	promoter-TSS (NM_182650)	-111.0	NM_016806	53379.0	Mm.155896	NM_016806	ENSMUSG00000004980	Hnrnpa2b1	9130414A06Rik|Hnrpa2|Hnrpa2b1|hnrnp-A	heterogeneous nuclear ribonucleoprotein A2/B1	protein-coding	257.5	349.0	274.5	2235.0	499.0	170.0	106.0	153.0
Merged-chr1-180569337-2	chr1	180569237	180569437	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007415, intron 1 of 22)	CpG	446.0	NM_007415	11545.0	Mm.277779	NM_007415	ENSMUSG00000026496	Parp1	5830444G22Rik|AI893648|ARTD1|Adprp|Adprt1|C80510|PARP|PPOL|msPARP|parp-1|sPARP-1	poly (ADP-ribose) polymerase family, member 1	protein-coding	10.0	14.5	5.5	147.5	10.0	6.0	5.5	12.0
Merged-chr10-100059464-4	chr10	100059357	100059557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347156, intron 2 of 8)	intron (NM_001347156, intron 2 of 8)	43636.0	NM_013598	17311.0	Mm.45124	NM_013598	ENSMUSG00000019966	Kitl	Clo|Con|Gb|Kitlg|Mgf|SCF|SF|SLF|Sl|blz|contrasted	kit ligand	protein-coding	112.5	97.0	138.5	3066.0	325.0	117.0	91.5	121.0
Merged-chr15-67414291-4	chr15	67414188	67414388	+	836.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	187519.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	8.0	5.5	15.0	106.0	30.0	8.5	11.0	8.0
Merged-chr7-80294335-4	chr7	80294244	80294444	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001285998)	promoter-TSS (NM_001285998)	-107.0	NM_145150	233406.0	Mm.227274	NM_145150	ENSMUSG00000038943	Prc1	D7Ertd348e	protein regulator of cytokinesis 1	protein-coding	179.0	308.5	116.0	2579.5	477.5	179.0	232.0	156.0
Merged-chr2-32745869-2	chr2	32745769	32745969	+	602.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001252547, exon 4 of 11)	exon (NM_001252547, exon 4 of 11)	-4853.0	NM_027529	70730.0	Mm.401360	NM_027529	ENSMUSG00000009551	6330409D20Rik	AA517851	RIKEN cDNA 6330409D20 gene	protein-coding	5.0	3.0	5.5	43.0	13.0	4.5	5.0	5.0
Merged-chr13-24813658-3	chr13	24813561	24813761	+	769.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_024473)	TTS (NM_024473)	12004.0	NM_024473	79555.0	Mm.266668	NM_024473	ENSMUSG00000019132	BC005537	8030460C05Rik|C78201	cDNA sequence BC005537	protein-coding	11.5	10.0	10.0	80.0	42.5	7.5	9.5	7.5
Merged-chr11-26640660-4	chr11	26640550	26640750	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-46730.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	145.5	255.0	196.5	2035.0	402.5	165.0	171.0	96.5
Merged-chr3-22152925-4	chr3	22152852	22153052	+	939.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 2 of 15)	intron (NM_030732, intron 2 of 15)	76300.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	16.5	16.5	12.0	187.5	35.0	9.5	30.5	9.5
Merged-chr6-42310845-4	chr6	42310729	42310929	+	969.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013491, intron 18 of 22)	intron (NM_013491, intron 18 of 22)	13811.0	NM_001286584	76156.0	Mm.234314	NM_029528	ENSMUSG00000029861	Fam131b	6330503C03Rik|6530406I18Rik|AV277466	family with sequence similarity 131, member B	protein-coding	16.5	44.5	13.5	331.0	29.5	20.5	27.0	24.0
Merged-chr8-47690059-4	chr8	47689959	47690159	+	963.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14900.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	16.5	33.0	19.0	154.5	43.5	21.0	19.0	11.0
Merged-chr17-30570355-4	chr17	30570250	30570450	+	986.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172618, intron 1 of 11)	MTD|LTR|ERVL-MaLR	5937.0	NM_172618	224671.0	Mm.41220	NM_027060	ENSMUSG00000062202	Btbd9	1700023F20Rik|4930402L05|AI464421	BTB (POZ) domain containing 9	protein-coding	22.0	32.0	14.0	320.5	64.0	27.0	28.5	25.0
Merged-chr3-8916497-4	chr3	8916410	8916610	+	997.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025434, intron 1 of 2)	intron (NM_025434, intron 1 of 2)	7347.0	NM_025434	66230.0	Mm.38460	NM_025434	ENSMUSG00000040269	Mrps28	1500012D08Rik|AW061224	mitochondrial ribosomal protein S28	protein-coding	26.5	45.5	21.5	324.0	69.5	36.0	31.0	44.0
Merged-chr15-59082145-4	chr15	59082042	59082242	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146180)	promoter-TSS (NM_001146180)	-116.0	NM_144800	211401.0	Mm.215481	NM_144800	ENSMUSG00000022353	Mtss1	2310003N14Rik|BC024131|D130001D01Rik|Mim|mKIAA0429	metastasis suppressor 1	protein-coding	39.5	53.0	36.0	731.5	152.0	49.0	55.5	31.0
Merged-chr12-77781519-4	chr12	77781426	77781626	+	869.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	371385.0	NM_001252616	53618.0	Mm.35628	NM_016893	ENSMUSG00000021065	Fut8	-	fucosyltransferase 8	protein-coding	12.0	13.5	11.5	163.5	24.0	9.5	8.5	11.5
Merged-chr16-62834143-4	chr16	62834053	62834253	+	859.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026577, intron 1 of 9)	L2a|LINE|L2	12887.0	NM_026577	68146.0	Mm.96833	NM_026577	ENSMUSG00000022911	Arl13b	A530097K21Rik|A930014M17Rik|Arl2l1|C530009C10Rik|hnn	ADP-ribosylation factor-like 13B	protein-coding	3.5	13.5	2.5	131.5	34.5	7.0	14.5	7.0
Merged-chr19-6909653-4	chr19	6909528	6909728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026306)	promoter-TSS (NM_026306)	-70.0	NM_001166370	67674.0	Mm.318804	NM_026306	ENSMUSG00000038812	Trmt112	0610038D11Rik|Trm112p	tRNA methyltransferase 11-2	protein-coding	76.5	135.0	48.0	639.0	165.0	75.0	79.0	60.0
Merged-chr11-62554551-2	chr11	62554451	62554651	+	754.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	2820.0	NM_001313984	22187.0	Mm.371592	NM_011664	ENSMUSG00000019505	Ubb	AL033289|Rps27a|Uba52|Ubb2|Ubc	ubiquitin B	protein-coding	9.0	8.5	5.0	43.0	8.5	7.5	5.5	9.5
Merged-chr5-35582940-4	chr5	35582855	35583055	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357020)	promoter-TSS (NM_001357020)	-79.0	NM_001357020	80911.0	Mm.291503	NM_030721	ENSMUSG00000029098	Acox3	BI685180|EST-s59|PCOX	acyl-Coenzyme A oxidase 3, pristanoyl	protein-coding	77.5	95.5	58.0	1035.0	206.5	74.5	105.0	76.0
Merged-chr11-97241459-4	chr11	97241340	97241540	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008942, intron 8 of 22)	intron (NM_008942, intron 8 of 22)	39136.0	NM_008942	19155.0	Mm.29824	NM_008942	ENSMUSG00000001441	Npepps	AAP-S|MP100|Psa|R74825|goku	aminopeptidase puromycin sensitive	protein-coding	81.5	77.5	42.0	1020.0	105.0	34.0	49.5	33.0
Merged-chr4-136454960-4	chr4	136454850	136455050	+	713.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14811.0	NM_024452	269593.0	Mm.485824	NM_024452	ENSMUSG00000001089	Luzp1	2700072H04Rik|AI266952|Luzp|mFLJ00226	leucine zipper protein 1	protein-coding	12.5	12.0	6.5	111.5	22.5	8.5	2.0	7.5
Merged-chr11-118740136-4	chr11	118740033	118740233	+	812.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024931, intron 2 of 14)	intron (NM_001024931, intron 2 of 14)	20908.0	NM_001285438	52897.0	Mm.341103	NM_001024931	ENSMUSG00000025576	Rbfox3	Fox-3|Hrnbp3|NeuN|Neuna60	RNA binding protein, fox-1 homolog (C. elegans) 3	protein-coding	11.5	2.0	5.0	106.5	31.0	11.5	6.0	13.0
Merged-chr18-12130313-4	chr18	12130225	12130425	+	559.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024182, intron 1 of 12)	intron (NM_024182, intron 1 of 12)	1475.0	NM_024182	66878.0	Mm.28551	NM_024182	ENSMUSG00000024404	Riok3	1200013N13Rik|D18Ertd331e|E130306C24Rik|Sudd	RIO kinase 3	protein-coding	9.0	8.5	3.0	101.5	20.0	9.0	4.5	11.5
Merged-chr2-170209378-4	chr2	170209279	170209479	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-66704.0	NM_001159683	228913.0	Mm.22858	NM_001033299	ENSMUSG00000052056	Zfp217	4933431C08Rik|AW987152|Gm562|ZABC1|Znf217	zinc finger protein 217	protein-coding	35.5	45.0	55.0	742.0	75.0	40.0	49.5	35.5
Merged-chr13-12258192-4	chr13	12258094	12258294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081128)	promoter-TSS (NM_001081128)	-81.0	NM_001081128	238505.0	Mm.40335	NM_001081128	ENSMUSG00000021311	Mtr	AI894170|D830038K18Rik|MS	5-methyltetrahydrofolate-homocysteine methyltransferase	protein-coding	198.5	275.0	224.5	3326.0	520.0	209.5	269.0	217.0
Merged-chr11-70459837-4	chr11	70459742	70459942	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151497, exon 1 of 6)	non-coding (NR_151497, exon 1 of 6)	142.0	NR_151499	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	66.5	228.5	89.5	701.5	246.5	84.0	62.0	39.5
Merged-chr2-154372705-4	chr2	154372614	154372814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025876)	promoter-TSS (NM_025876)	5.0	NM_025876	66971.0	Mm.289427	NM_025876	ENSMUSG00000027487	Cdk5rap1	2310066P17Rik	CDK5 regulatory subunit associated protein 1	protein-coding	42.0	73.0	35.5	548.5	125.5	50.0	36.0	52.5
Merged-chr8-4800811-1	chr8	4800711	4800911	+	940.0	f1_balb.idr	Intergenic	Intergenic	-21244.0	NM_011369	20419.0	Mm.37801	NM_011369	ENSMUSG00000022322	Shcbp1	mPAL	Shc SH2-domain binding protein 1	protein-coding	5.0	4.5	6.0	52.5	10.0	3.0	2.5	6.0
Merged-chr17-6963160-4	chr17	6963063	6963263	+	928.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2007.0	NM_147155	380608.0	Mm.371734	NM_147155	ENSMUSG00000052031	Tagap1	2610315E15Rik|AA415005|FKSG15	T cell activation GTPase activating protein 1	protein-coding	11.0	9.0	14.0	166.0	38.5	19.0	18.0	20.0
Merged-chr13-10107497-4	chr13	10107404	10107604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033269, intron 3 of 4)	MER105|DNA|DNA	253299.0	NM_033269	12671.0	Mm.342315	NM_033269	ENSMUSG00000046159	Chrm3	Chrm-3|M3|M3R	cholinergic receptor, muscarinic 3, cardiac	protein-coding	29.0	37.0	26.5	535.0	66.5	28.5	32.0	38.5
Merged-chr17-63871859-4	chr17	63871732	63871932	+	874.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 1 of 18)	RMER1B|Other|Other	-6234.0	NM_001286415	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	9.0	10.5	10.5	274.0	28.0	10.5	9.5	20.5
Merged-chr5-125341872-4	chr5	125341704	125341904	+	801.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001205082)	promoter-TSS (NM_001205082)	-710.0	NM_001205083	20778.0	Mm.282242	NM_016741	ENSMUSG00000037936	Scarb1	AI120173|CD36|Cd36l1|Chohd1|Cla-1|Cla1|D5Ertd460e|Hdlq1|Hlb398|SR-B1|SR-BI|SRBI|Srb1|mSR-BI	scavenger receptor class B, member 1	protein-coding	6.0	10.5	11.0	107.5	15.5	7.0	3.5	6.0
Merged-chr12-72389056-1	chr12	72388956	72389156	+	771.0	f0_c57.idr	intron (NM_153457, intron 1 of 8)	intron (NM_153457, intron 1 of 8)	19998.0	NM_001286448	104001.0	Mm.221275	NM_153457	ENSMUSG00000021087	Rtn1	Nsp	reticulon 1	protein-coding	0.0	0.0	9.5	55.0	16.5	8.5	13.5	25.5
Merged-chr13-119596955-4	chr13	119596831	119597031	+	913.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177666, intron 2 of 3)	intron (NM_001177666, intron 2 of 3)	-26888.0	NM_020279	56838.0	Mm.143745	NM_020279	ENSMUSG00000074715	Ccl28	CCK1|MEC|Scya28	chemokine (C-C motif) ligand 28	protein-coding	11.0	9.0	16.5	24.0	27.0	7.5	12.0	19.0
Merged-chr17-72939678-4	chr17	72939581	72939781	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_029999, exon 3 of 3)	3' UTR (NM_029999, exon 3 of 3)	21376.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	38.0	37.0	24.5	357.0	46.5	17.5	26.0	24.0
Merged-chr2-170355122-3	chr2	170355024	170355224	+	888.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029815, intron 11 of 12)	MLT1B|LTR|ERVL-MaLR	-1237.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	5.5	5.0	8.5	137.5	15.0	5.0	6.5	4.5
Merged-chr7-90461104-4	chr7	90461002	90461202	+	985.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR26_Mus|LTR|ERVK	-3894.0	NM_025460	66271.0	Mm.28963	NM_025460	ENSMUSG00000030615	Tmem126a	1810020E01Rik	transmembrane protein 126A	protein-coding	17.0	34.0	23.5	424.5	52.0	11.5	52.5	29.5
Merged-chr8-84689226-4	chr8	84689091	84689291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164560)	promoter-TSS (NM_001164560)	-56.0	NM_001164559	212528.0	Mm.275720	NM_198020	ENSMUSG00000001909	Trmt1	6720406L13Rik|6720477L24|D8Ertd812e	tRNA methyltransferase 1	protein-coding	51.0	80.5	29.0	673.5	100.0	36.5	36.5	46.5
Merged-chr10-91141740-4	chr10	91141653	91141853	+	976.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17790.0	NM_133668	18674.0	Mm.298	NM_133668	ENSMUSG00000061904	Slc25a3	5730556H19Rik|PTP|Phc	solute carrier family 25 (mitochondrial carrier, phosphate carrier), member 3	protein-coding	13.0	40.5	40.5	362.0	84.0	36.5	26.0	27.0
Merged-chr5-64812251-3	chr5	64812149	64812349	+	840.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	8726.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	12.0	5.0	11.0	93.5	8.0	3.5	2.0	6.5
Merged-chr16-24434207-4	chr16	24434107	24434307	+	952.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178665, intron 1 of 12)	intron (NM_178665, intron 1 of 12)	-13884.0	NM_001145952	210126.0	Mm.209385	NM_178665	ENSMUSG00000033306	Lpp	9430020K16Rik|AA959454|AU024130|B130055L10Rik|C79715|D630048H16	LIM domain containing preferred translocation partner in lipoma	protein-coding	8.5	7.5	16.0	179.0	36.0	7.0	16.5	18.0
Merged-chr16-91685729-4	chr16	91685618	91685818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021720, intron 3 of 9)	intron (NM_021720, intron 3 of 9)	3010.0	NM_021720	60364.0	Mm.328698	NM_021720	ENSMUSG00000022960	Donson	1110025J21Rik|AI845729|ORF60	downstream neighbor of SON	protein-coding	151.5	208.0	110.5	1539.0	271.0	129.0	131.5	94.0
Merged-chr6-32479873-4	chr6	32479718	32479918	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175750, intron 3 of 31)	intron (NM_175750, intron 3 of 31)	-31323.0	NR_040277	319849.0	Mm.440860	NR_040277	ENSMUSG00000086763	Plxna4os1	B230378P21Rik	plexin A4, opposite strand 1	ncRNA	24.0	23.0	46.0	588.0	46.5	17.0	27.5	19.0
Merged-chr2-153120306-4	chr2	153120197	153120397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	L1MA4|LINE|L1	11829.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	65.0	74.5	50.0	1091.5	105.0	44.5	64.0	49.5
Merged-chr2-127137274-4	chr2	127137172	127137372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3318.0	NM_144818	215387.0	Mm.29786	NM_144818	ENSMUSG00000034906	Ncaph	A730011O11Rik|Brrn1|CAP-H|HCAP-H|mCAP-H	non-SMC condensin I complex, subunit H	protein-coding	48.0	50.0	36.0	569.5	107.5	21.5	31.5	33.5
Merged-chr8-111990118-4	chr8	111990030	111990230	+	979.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357185, intron 2 of 8)	intron (NM_001357185, intron 2 of 8)	2172.0	NM_001357184	30947.0	Mm.282162	NM_013925	ENSMUSG00000031949	Adat1	MMADAT1	adenosine deaminase, tRNA-specific 1	protein-coding	27.0	16.0	6.0	214.5	49.5	23.0	20.5	35.0
Merged-chr18-80119096-4	chr18	80118985	80119185	+	904.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_053117, exon 3 of 3)	3' UTR (NM_053117, exon 3 of 3)	32397.0	NM_175028	240442.0	Mm.26594	NM_175028	ENSMUSG00000053950	Adnp2	8430420L05Rik|BC024969|Kiaa0863|Zfp508|mKIAA0863	ADNP homeobox 2	protein-coding	18.5	7.0	17.0	290.0	27.5	15.0	9.5	19.0
Merged-chr19-34520382-4	chr19	34520280	34520480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111100, intron 3 of 9)	intron (NM_001111100, intron 3 of 9)	7094.0	NM_001111100	16889.0	Mm.157545	NM_021460	ENSMUSG00000024781	Lipa	AA960673|Lal|Lip-1|Lip1	lysosomal acid lipase A	protein-coding	34.5	74.0	48.5	869.5	149.5	43.5	46.5	60.0
Merged-chr2-129614973-1	chr2	129614873	129615073	+	619.5	f0_balb.idr	intron (NM_001177647, intron 2 of 5)	intron (NM_001177647, intron 2 of 5)	19511.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	10.0	4.5	10.0	99.0	13.5	3.0	2.0	5.5
Merged-chr8-25256132-4	chr8	25256008	25256208	+	856.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50162.0	NR_040352	74489.0	Mm.256468	NR_040352	ENSMUSG00000110140	5430421F17Rik	-	RIKEN cDNA 5430421F17 gene	ncRNA	20.5	19.0	4.0	137.0	24.5	9.0	14.0	18.5
Merged-chr8-75108741-4	chr8	75108691	75108891	+	963.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008566)	promoter-TSS (NM_008566)	-718.0	NM_001302540	17218.0	Mm.5048	NM_008566	ENSMUSG00000005410	Mcm5	AA617332|AI324988|AL033333|Cdc46|Mcmd5|P1-CDC46	minichromosome maintenance complex component 5	protein-coding	16.5	31.5	12.0	217.0	40.5	15.0	14.5	13.5
Merged-chr16-92403177-3	chr16	92403076	92403276	+	716.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	-3098.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	11.0	10.0	5.0	135.0	13.0	7.5	8.0	8.0
Merged-chr5-62821011-4	chr5	62820907	62821107	+	885.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170705, intron 2 of 8)	intron (NM_001170705, intron 2 of 8)	7184.0	NM_001170705	100322896.0	Mm.479821	NM_001170705	ENSMUSG00000090326	Dthd1	Gm17384	death domain containing 1	protein-coding	14.5	27.0	17.0	194.5	28.5	9.0	13.0	8.5
Merged-chr17-72919449-7	chr17	72919318	72919518	+	851.5476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029999, intron 1 of 2)	CpG	1113.0	NM_029999	77889.0	Mm.154109	NM_029999	ENSMUSG00000024063	Lbh	1810009F10Rik|6720416L16Rik	limb-bud and heart	protein-coding	20.0	14.5	18.0	231.0	32.0	12.5	17.0	15.0
Merged-chr1-156719124-4	chr1	156719030	156719230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145413)	promoter-TSS (NM_145413)	-220.0	NM_145413	215015.0	Mm.229107	NM_145413	ENSMUSG00000033557	Fam20b	C530043G21Rik|mKIAA0475	family with sequence similarity 20, member B	protein-coding	134.0	222.0	150.5	2204.0	367.0	140.0	210.5	137.5
Merged-chr11-22695219-6	chr11	22695020	22695220	+	869.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	164615.0	NM_016888	53625.0	Mm.395495	NM_016888	ENSMUSG00000051650	B3gnt2	AA408337|AA409404|AW260308|B3Galt6|B3gnt1|BGnT-1|BGnT-2|BGnT1|BGnT2|Beta3gnt	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2	protein-coding	9.0	9.0	12.0	62.5	11.0	8.5	5.5	3.5
Merged-chr11-116146265-4	chr11	116146160	116146360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172571, intron 26 of 30)	intron (NM_172571, intron 26 of 30)	-7392.0	NM_024177	60441.0	Mm.29974	NM_024177	ENSMUSG00000020775	Mrpl38	1110036N21Rik|4733401F03Rik|MRP-L3|R75240|Rpml3	mitochondrial ribosomal protein L38	protein-coding	52.0	58.5	27.5	762.5	83.0	25.0	37.5	44.5
Merged-chr4-40279442-4	chr4	40279334	40279534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033305)	promoter-TSS (NM_001033305)	-13.0	NM_001033305	230075.0	Mm.1103	NM_001033305	ENSMUSG00000071014	Ndufb6	CI-B17|Gm137	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6	protein-coding	79.0	136.5	68.0	1228.0	263.5	120.5	104.0	86.0
Merged-chr5-73557232-4	chr5	73557123	73557323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153313, intron 8 of 9)	intron (NR_153313, intron 8 of 9)	66197.0	NM_178896	100737.0	Mm.220312	NM_178896	ENSMUSG00000051674	Dcun1d4	AI836376	DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)	protein-coding	85.0	94.5	80.0	1633.5	181.5	60.0	83.5	74.0
Merged-chr5-76529277-4	chr5	76529183	76529383	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027270)	promoter-TSS (NM_027270)	-24.0	NM_001359372	69940.0	Mm.403233	NM_027270	ENSMUSG00000036435	Exoc1	2810407P21Rik|A730011E05Rik|SEC3|Sec3l1|Sec3p	exocyst complex component 1	protein-coding	161.0	185.5	159.5	2104.5	336.0	154.5	199.0	178.0
Merged-chr8-84237244-4	chr8	84237145	84237345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172503)	promoter-TSS (NM_172503)	-203.0	NM_172503	212168.0	Mm.117094	NM_172503	ENSMUSG00000035671	Zswim4	D330002I24|E130119J17Rik	zinc finger SWIM-type containing 4	protein-coding	272.5	459.0	238.0	3261.5	654.0	298.5	322.0	261.0
Merged-chr2-150896045-4	chr2	150895926	150896126	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151505, intron 1 of 12)	MLT1A0-int|LTR|ERVL-MaLR	8705.0	NM_024465	76192.0	Mm.112632	NM_024465	ENSMUSG00000032046	Abhd12	1500011G07Rik|6330583M11Rik|AI431047|AW547313	abhydrolase domain containing 12	protein-coding	59.5	80.0	109.0	1790.0	131.0	61.5	80.0	87.5
Merged-chr7-96477425-4	chr7	96477344	96477544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011858, intron 3 of 32)	intron (NM_011858, intron 3 of 32)	-135480.0	NR_046043	670727.0	Mm.421352	NR_046043	ENSMUSG00000085751	Gm15412	-	predicted gene 15412	ncRNA	107.0	103.5	130.0	2147.5	94.0	53.5	76.0	99.5
Merged-chr4-40723206-4	chr4	40723079	40723279	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_077221)	promoter-TSS (NR_077221)	249.0	NM_001164672	15502.0	Mm.27897	NM_008298	ENSMUSG00000028410	Dnaja1	HSJ-2|Hsj2|Nedd7	DnaJ heat shock protein family (Hsp40) member A1	protein-coding	52.5	160.0	66.0	901.0	147.5	56.5	80.0	79.5
Merged-chr15-50745538-4	chr15	50745435	50745635	+	828.520813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 4 of 5)	intron (NM_001310481, intron 4 of 5)	143514.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	12.5	47.5	11.0	110.5	40.5	25.0	8.0	5.0
Merged-chr2-163754491-3	chr2	163754395	163754595	+	949.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4256.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	10.0	9.5	11.0	183.5	11.5	2.0	5.0	8.5
Merged-chr4-137890814-4	chr4	137890742	137890942	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199307, intron 1 of 19)	intron (NM_199307, intron 1 of 19)	28605.0	NM_199307	230857.0	Mm.401062	NM_199307	ENSMUSG00000057530	Ece1	AW322500|ECE-1|ECE-1a|ECE-1b|ECE-1d	endothelin converting enzyme 1	protein-coding	12.5	24.0	17.0	289.0	137.5	61.5	75.0	70.0
Merged-chr11-43729102-4	chr11	43728984	43729184	+	916.1041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_133795)	TTS (NM_133795)	18889.0	NM_133795	66827.0	Mm.271974	NM_133795	ENSMUSG00000041278	Ttc1	4833412C19Rik|C79328|TPR1	tetratricopeptide repeat domain 1	protein-coding	22.5	26.5	27.5	522.5	28.5	14.0	9.5	12.5
Merged-chr4-118360572-3	chr4	118360497	118360697	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026601, intron 3 of 8)	intron (NM_026601, intron 3 of 8)	598.0	NR_003946	68180.0	Mm.193212	NM_026601	ENSMUSG00000006395	Hyi	2700033B16Rik|6430559E15Rik|HT036	hydroxypyruvate isomerase (putative)	protein-coding	16.5	27.0	29.5	288.0	9.5	3.0	8.0	10.5
Merged-chr5-102037705-4	chr5	102037580	102037780	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 2 of 66)	intron (NM_172882, intron 2 of 66)	32241.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	9.5	7.5	15.5	559.0	18.0	4.5	22.0	17.0
Merged-chr19-38043558-3	chr19	38043455	38043655	+	905.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001099634)	promoter-TSS (NM_001099634)	22.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	15.0	13.5	16.0	138.5	23.5	3.5	5.0	4.0
Merged-chr8-121113444-4	chr8	121113332	121113532	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2739.0	NM_013519	14234.0	Mm.14092	NM_013519	ENSMUSG00000046714	Foxc2	Fkh14|Hfhbf3|MFH-1|Mfh1	forkhead box C2	protein-coding	37.5	50.5	28.5	508.0	87.5	44.5	42.5	36.5
Merged-chr11-119677333-4	chr11	119677228	119677428	+	923.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028898, intron 3 of 33)	intron (NM_028898, intron 3 of 33)	74423.0	NM_028898	74370.0	Mm.209933	NM_028898	ENSMUSG00000025583	Rptor	4932417H02Rik|Rap|Raptor|mKIAA1303	regulatory associated protein of MTOR, complex 1	protein-coding	10.5	15.0	12.0	222.5	46.5	13.0	17.0	16.0
Merged-chr2-159843478-4	chr2	159843367	159843567	+	929.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-103874.0	NR_040498	71081.0	Mm.383491	NR_040498	ENSMUSG00000085198	4933416E03Rik	-	RIKEN cDNA 4933416E03 gene	ncRNA	13.0	7.5	4.0	187.5	33.5	7.0	11.0	6.5
Merged-chr15-78589071-4	chr15	78588978	78589178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7489.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	217.5	262.0	291.0	3005.0	400.0	156.5	208.5	155.0
Merged-chr6-90569892-4	chr6	90569779	90569979	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_027406, exon 10 of 23)	exon (NM_027406, exon 10 of 23)	19086.0	NM_027406	107747.0	Mm.30035	NM_027406	ENSMUSG00000030088	Aldh1l1	1810048F20Rik|FDH|Fthfd|Neut2	aldehyde dehydrogenase 1 family, member L1	protein-coding	1.5	6.5	13.5	167.0	19.5	11.5	11.5	7.0
Merged-chr11-83534860-4	chr11	83534765	83534965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4347.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	107.5	201.5	65.5	722.5	338.5	151.0	108.5	90.0
Merged-chr1-191163653-3	chr1	191163543	191163743	+	928.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001109759, exon 1 of 1)	exon (NM_001109759, exon 1 of 1)	1174.0	NM_001109759	619288.0	Mm.61148	NM_001109759	ENSMUSG00000091017	Fam71a	4933417M04Rik|GARI-L4	family with sequence similarity 71, member A	protein-coding	9.5	25.0	13.0	245.5	28.0	6.5	7.5	4.5
Merged-chr11-3649113-4	chr11	3649031	3649231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159288)	promoter-TSS (NM_001159288)	-317.0	NR_002321	544752.0	Mm.390314	NR_002321	ENSMUSG00000056579	Tug1	AI316828	taurine upregulated gene 1	ncRNA	149.5	259.5	162.5	2281.0	466.5	177.5	200.5	176.0
Merged-chr11-48834478-4	chr11	48834386	48834586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053166, intron 1 of 6)	tRNA-Ala-GCG|tRNA|tRNA	-2985.0	NM_001347446	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	46.0	64.5	39.0	428.5	138.5	37.5	30.5	47.0
Merged-chr4-144971220-4	chr4	144971137	144971337	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78100.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	29.5	36.5	18.5	348.5	42.5	20.5	18.5	14.5
Merged-chr4-63216591-2	chr4	63216469	63216669	+	567.75	f0_balb.idr|f1_balb.idr	intron (NM_025685, intron 1 of 60)	intron (NM_025685, intron 1 of 60)	1157.0	NM_025685	373864.0	Mm.194116	NM_025685	ENSMUSG00000045672	Col27a1	5730512J02Rik|AI449266	collagen, type XXVII, alpha 1	protein-coding	2.5	13.0	7.0	88.5	30.5	16.0	7.0	4.5
Merged-chr13-112661247-6	chr13	112661103	112661303	+	829.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178746, intron 1 of 14)	intron (NM_178746, intron 1 of 14)	437.0	NM_178746	268706.0	Mm.40834	NM_175376	ENSMUSG00000047789	Slc38a9	4833412L08Rik|6720411P22Rik|9130023D20Rik|9430067K09Rik|A730092C09	solute carrier family 38, member 9	protein-coding	7.0	7.0	11.5	75.5	23.0	6.0	6.5	21.0
Merged-chr7-12913777-2	chr7	12913677	12913877	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-8534.0	NM_009095	20103.0	Mm.5291	NM_009095	ENSMUSG00000012848	Rps5	AA617411	ribosomal protein S5	protein-coding	2.0	7.5	3.0	56.5	18.5	4.5	6.0	4.5
Merged-chr17-28709204-4	chr17	28709098	28709298	+	946.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168514, intron 2 of 12)	intron (NM_001168514, intron 2 of 12)	16630.0	NM_001357724	26416.0	Mm.311337	NM_011951	ENSMUSG00000053436	Mapk14	CSBP2|Crk1|Csbp1|Mxi2|PRKM14|PRKM15|p38|p38-alpha|p38MAPK|p38a|p38alpha	mitogen-activated protein kinase 14	protein-coding	23.0	29.5	8.5	226.0	27.0	6.0	14.5	9.5
Merged-chr11-63132973-4	chr11	63132867	63133067	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001302260, exon 1 of 5)	5' UTR (NM_001302260, exon 1 of 5)	164.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	22.0	80.5	53.0	783.5	120.0	39.0	76.5	59.5
Merged-chr6-146633801-3	chr6	146633717	146633917	+	755.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026281, intron 1 of 11)	intron (NM_026281, intron 1 of 11)	775.0	NM_026281	67623.0	Mm.278037	NM_026281	ENSMUSG00000040234	Tm7sf3	2010003B14Rik|NARP1	transmembrane 7 superfamily member 3	protein-coding	4.5	9.0	7.5	106.0	13.5	9.5	9.0	7.0
Merged-chr11-110642621-3	chr11	110642498	110642698	+	691.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	163258.0	NM_001356346	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	5.5	3.0	15.5	197.5	7.5	5.5	8.5	5.0
Merged-chr15-81857882-3	chr15	81857778	81857978	+	998.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020507, intron 1 of 1)	CpG	448.0	NM_020507	57259.0	Mm.323595	NM_020507	ENSMUSG00000048546	Tob2	2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663	transducer of ERBB2, 2	protein-coding	26.0	31.5	15.5	147.5	81.0	29.5	25.0	27.0
Merged-chr4-42978267-3	chr4	42978160	42978360	+	623.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	8314.0	NM_026088	67317.0	Mm.478018	NM_026088	ENSMUSG00000028451	1700022I11Rik	-	RIKEN cDNA 1700022I11 gene	protein-coding	11.5	13.0	5.0	36.5	27.5	4.5	2.0	7.0
Merged-chr6-5323540-3	chr6	5323456	5323656	+	872.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13B1|LTR|ERVK	-25183.0	NM_183308	330260.0	Mm.126984	NM_183308	ENSMUSG00000032667	Pon2	6330405I24Rik|AI481612	paraoxonase 2	protein-coding	2.0	1.0	5.0	32.0	53.0	21.5	25.0	13.0
Merged-chr8-105880886-4	chr8	105880797	105880997	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181594)	promoter-TSS (NM_181594)	16.0	NM_181594	234699.0	Mm.28979	NM_181594	ENSMUSG00000036270	Edc4	BC022641	enhancer of mRNA decapping 4	protein-coding	21.5	39.0	13.5	464.5	68.5	19.5	37.0	35.0
Merged-chr18-52750921-3	chr18	52750832	52751032	+	747.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16879.0	NM_026408	67847.0	Mm.292168	NM_026408	ENSMUSG00000024534	Sncaip	2810407O15Rik|4933427B05Rik|BB104594|SYPH1	synuclein, alpha interacting protein (synphilin)	protein-coding	5.0	7.0	10.0	110.0	7.5	3.5	7.0	6.5
Merged-chr18-80280586-4	chr18	80280499	80280699	+	798.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025861, intron 4 of 5)	intron (NM_025861, intron 4 of 5)	24293.0	NM_025861	66943.0	Mm.29247	NM_025861	ENSMUSG00000034006	Pqlc1	2310009N05Rik|4933425L21Rik|5730564E11Rik|C78974	PQ loop repeat containing 1	protein-coding	6.5	12.5	10.5	55.0	26.0	9.5	9.5	8.0
Merged-chr4-130549311-4	chr4	130549219	130549419	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025998, intron 1 of 6)	(A)n|Simple_repeat|Simple_repeat	24717.0	NM_025998	67149.0	Mm.423029	NM_025998	ENSMUSG00000078532	Nkain1	2610200G18Rik|2810426C15Rik	Na+/K+ transporting ATPase interacting 1	protein-coding	11.0	28.5	7.5	153.0	41.5	20.0	12.0	20.0
Merged-chr13-111942099-4	chr13	111942009	111942209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MT2A|LTR|ERVL	74173.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	49.5	95.0	47.5	532.0	93.0	21.5	35.0	25.5
Merged-chr2-38221180-2	chr2	38221080	38221280	+	935.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_146122, intron 2 of 21)	intron (NM_146122, intron 2 of 21)	66204.0	NM_146122	227801.0	Mm.314245	NM_146122	ENSMUSG00000035392	Dennd1a	6030446I19Rik|connecdenn	DENN/MADD domain containing 1A	protein-coding	5.0	6.0	12.5	54.5	19.5	2.5	6.5	5.0
Merged-chr6-86004453-4	chr6	86004314	86004514	+	780.791687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155305)	promoter-TSS (NR_155305)	61.0	NR_155305	75355.0	Mm.142685	NR_155305	ENSMUSG00000106791	4930553P18Rik	-	RIKEN cDNA 4930553P18 gene	ncRNA	5.0	8.0	6.0	131.0	25.0	8.0	13.5	14.0
Merged-chr1-172348256-4	chr1	172348106	172348306	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039484, intron 1 of 1)	intron (NM_001039484, intron 1 of 1)	6996.0	NM_001039484	16513.0	Mm.254563	NM_020269	ENSMUSG00000044708	Kcnj10	BIR10|BIRK-1|Kir1.2|Kir4.1	potassium inwardly-rectifying channel, subfamily J, member 10	protein-coding	21.5	29.0	35.5	483.5	19.5	10.0	14.5	19.0
Merged-chr19-3360097-4	chr19	3360032	3360232	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013495, intron 5 of 18)	PB1D11|SINE|Alu	-28725.0	NM_001039658	17771.0	Mm.209941	NM_010841	ENSMUSG00000024905	Tesmin	Mtl5	testis expressed metallothionein like	protein-coding	61.0	108.0	46.5	543.5	174.5	74.0	29.5	52.0
Merged-chr19-25002308-3	chr19	25002193	25002393	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028785, intron 1 of 47)	MTE2a|LTR|ERVL-MaLR	2764.0	NM_028785	76088.0	Mm.102485	NM_028785	ENSMUSG00000052085	Dock8	1200017A24Rik|5830472H07Rik|A130095G14Rik|AI461977	dedicator of cytokinesis 8	protein-coding	21.0	20.5	35.0	438.5	13.0	5.5	7.5	4.0
Merged-chr9-22411497-4	chr9	22411400	22411600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026739)	promoter-TSS (NM_026739)	-11.0	NM_026739	68283.0	Mm.280669	NM_026739	ENSMUSG00000036411	9530077C05Rik	1110003N12Rik|mKIAA0895	RIKEN cDNA 9530077C05 gene	protein-coding	99.5	165.0	99.0	1626.5	326.5	117.0	135.5	122.0
Merged-chr9-63642449-4	chr9	63642361	63642561	+	942.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151671, exon 10 of 10)	non-coding (NR_151671, exon 10 of 10)	39815.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	42.0	26.0	45.5	512.5	20.0	9.0	20.0	23.5
Merged-chr8-122283554-4	chr8	122283425	122283625	+	944.241699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009569, intron 1 of 9)	intron (NM_009569, intron 1 of 9)	1384.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	20.5	21.0	11.0	204.5	42.0	9.5	24.5	17.0
Merged-chr8-88279766-4	chr8	88279668	88279868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007406, intron 1 of 27)	intron (NM_007406, intron 1 of 27)	-3224.0	NM_001109756	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	33.0	44.5	49.5	689.0	56.5	29.0	31.5	40.0
Merged-chr3-28050232-4	chr3	28050148	28050348	+	841.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 11 of 25)	intron (NM_008875, intron 11 of 25)	66077.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	7.5	12.0	8.0	163.5	38.0	11.5	9.5	11.5
Merged-chr8-120783860-3	chr8	120783763	120783963	+	912.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45224.0	NM_001301811	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	11.0	9.5	10.0	141.5	17.0	5.5	7.5	6.0
Merged-chr17-12307918-4	chr17	12307849	12308049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357722, intron 1 of 25)	intron (NM_001357722, intron 1 of 25)	10711.0	NM_011948	26407.0	Mm.28587	NM_011948	ENSMUSG00000014426	Map3k4	D17Rp17|D17Rp17e|MAPKKK4|MEKK 4|MTK1|Mek4b|Mekk4|RP17|Rp17a|Tas|mKIAA0213	mitogen-activated protein kinase kinase kinase 4	protein-coding	42.5	43.5	40.0	670.0	78.0	27.5	41.5	38.5
Merged-chr14-118854505-4	chr14	118854329	118854529	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021386)	promoter-TSS (NM_021386)	-521.0	NM_021386	58187.0	Mm.390755	NM_021386	ENSMUSG00000022132	Cldn10	6720456I16Rik|Cldn10a|Cldn10b|D14Ertd728e	claudin 10	protein-coding	14.0	11.5	12.0	150.5	14.5	5.0	19.5	3.5
Merged-chr2-26188747-4	chr2	26188642	26188842	+	911.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Rod|LINE|L1	17833.0	NM_001039653	16871.0	Mm.386765	NM_010711	ENSMUSG00000026934	Lhx3	Lim3|P-LIM|mLIM3|mLim-3	LIM homeobox protein 3	protein-coding	16.5	56.5	17.0	201.5	25.0	9.0	17.5	16.5
Merged-chr19-36921844-3	chr19	36921745	36921945	+	850.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2246.0	NM_028263	72514.0	Mm.41674	NM_028263	ENSMUSG00000047632	Fgfbp3	2610306H15Rik|Fgf-bp3	fibroblast growth factor binding protein 3	protein-coding	5.5	4.0	1.0	81.5	35.5	9.5	12.5	10.0
Merged-chr10-20073416-2	chr10	20073316	20073516	+	779.625	f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 11 of 29)	intron (NM_008580, intron 11 of 29)	-75504.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	2.0	1.5	1.5	26.0	19.5	8.5	8.0	5.5
Merged-chr9-106452384-1	chr9	106452284	106452484	+	763.0	f0_balb.idr	3' UTR (NM_029631, exon 4 of 4)	3' UTR (NM_029631, exon 4 of 4)	-1454.0	NM_021567	59092.0	Mm.286394	NM_021567	ENSMUSG00000023495	Pcbp4	1200003L19Rik|AlphaCP-4	poly(rC) binding protein 4	protein-coding	12.5	20.0	7.5	103.0	0.0	0.5	1.0	2.0
Merged-chr1-118389383-4	chr1	118389297	118389497	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001359346, exon 1 of 38)	5' UTR (NM_001359346, exon 1 of 38)	339.0	NM_001359334	76707.0	Mm.138740	NM_029709	ENSMUSG00000064302	Clasp1	1700030C23Rik|5730583A19Rik|B130045P17Rik|CLASP1alpha	CLIP associating protein 1	protein-coding	173.5	221.5	167.5	2775.0	415.0	119.5	161.5	156.0
Merged-chr7-128333115-4	chr7	128333008	128333208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34977.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	71.5	106.0	52.5	906.0	169.5	52.5	59.0	73.5
Merged-chr2-148585305-4	chr2	148585208	148585408	+	848.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-87307.0	NM_019761	56488.0	Mm.34663	NM_019761	ENSMUSG00000036992	Nxt1	1110001N02Rik	NTF2-related export protein 1	protein-coding	8.0	21.5	16.0	126.5	28.5	13.0	13.0	7.5
Merged-chr1-177179850-3	chr1	177179757	177179957	+	695.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011785, intron 1 of 12)	intron (NM_011785, intron 1 of 12)	68910.0	NM_011785	23797.0	Mm.235194	NM_011785	ENSMUSG00000019699	Akt3	AI851531|D930002M15Rik|Nmf350	thymoma viral proto-oncogene 3	protein-coding	5.0	7.0	6.5	47.0	19.0	7.0	6.0	13.0
Merged-chr7-55859665-4	chr7	55859579	55859779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164661, intron 2 of 31)	intron (NM_001164661, intron 2 of 31)	17608.0	NM_001164661	20430.0	Mm.37249	NM_011370	ENSMUSG00000030447	Cyfip1	E030028J09Rik|P140SRA-1|P140sra1|Shyc|Sra-1|Sra1|l(7)1Rl|l71Rl|l7Rl1|mKIAA0068|pl-1	cytoplasmic FMR1 interacting protein 1	protein-coding	31.5	46.0	22.5	433.0	71.5	34.0	73.5	30.5
Merged-chr5-122509820-2	chr5	122509720	122509920	+	759.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7595.0	NR_027838	11938.0	Mm.227583	NM_009722	ENSMUSG00000029467	Atp2a2	9530097L16Rik|D5Wsu150e|SERCA2|SERCA2B|Serca2a|mKIAA4195	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	protein-coding	5.0	12.0	5.0	83.0	3.0	3.0	2.0	3.5
Merged-chr15-50827539-4	chr15	50827445	50827645	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310481, intron 3 of 5)	intron (NM_001310481, intron 3 of 5)	61504.0	NM_001310481	83925.0	Mm.30466	NM_032000	ENSMUSG00000038679	Trps1	AI115454|AI447310|D15Ertd586e	transcriptional repressor GATA binding 1	protein-coding	61.0	56.0	57.0	849.0	183.0	42.5	49.5	26.0
Merged-chr11-69921527-4	chr11	69921422	69921622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166596)	promoter-TSS (NM_001166596)	-136.0	NM_181582	276770.0	Mm.18026	NM_181582	ENSMUSG00000078812	Eif5a	AA410058|D19Wsu54e|Eif4d|Eif5a1|eIF-4D|eIF-5A|eIF-5A-1|eIF-5A1	eukaryotic translation initiation factor 5A	protein-coding	243.5	425.5	239.5	2742.0	788.5	293.5	257.5	292.5
Merged-chr3-107081473-4	chr3	107081380	107081580	+	989.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20087.0	NM_008417	16490.0	Mm.39285	NM_008417	ENSMUSG00000040724	Kcna2	Akr6a4|Gm10672|Kca1-2|Kv1.2|Mk-2	potassium voltage-gated channel, shaker-related subfamily, member 2	protein-coding	15.0	32.5	17.0	308.5	63.0	40.0	23.0	24.5
Merged-chr3-138889418-3	chr3	138889303	138889503	+	906.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_121195, intron 2 of 7)	intron (NR_121195, intron 2 of 7)	147195.0	NM_019571	56224.0	Mm.31927	NM_019571	ENSMUSG00000028152	Tspan5	2810455A09Rik|4930505M03Rik|NET-4|Tm4sf9	tetraspanin 5	protein-coding	12.0	9.5	12.0	144.0	19.5	6.0	9.0	17.5
Merged-chr2-153145516-4	chr2	153145413	153145613	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 11 of 12)	L1MB7|LINE|L1	-15788.0	NM_133847	99237.0	Mm.330674	NM_133847	ENSMUSG00000068040	Tm9sf4	AA986553|AU045326|B930079E06|mKIAA0255	transmembrane 9 superfamily protein member 4	protein-coding	36.5	56.5	37.0	361.0	71.0	31.0	25.0	28.0
Merged-chr8-109706996-4	chr8	109706830	109707030	+	761.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286393, intron 2 of 7)	intron (NM_001286393, intron 2 of 7)	911.0	NM_029468	75871.0	Mm.180410	NM_029468	ENSMUSG00000031728	Zfp821	4930566A11Rik|Znf821	zinc finger protein 821	protein-coding	8.0	7.0	6.0	28.0	9.5	4.0	3.5	1.0
Merged-chr11-34043032-4	chr11	34042926	34043126	+	921.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	A-rich|Low_complexity|Low_complexity	-3902.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	12.0	28.5	18.0	331.0	57.0	13.0	11.0	19.5
Merged-chr17-34959368-4	chr17	34959240	34959440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010478)	promoter-TSS (NM_010478)	-102.0	NM_010478	15511.0	Mm.372314	NM_010478	ENSMUSG00000090877	Hspa1b	Hsp70|Hsp70-1|Hsp70.1|hsp68	heat shock protein 1B	protein-coding	62.0	159.0	143.0	554.0	202.0	83.0	88.0	77.0
Merged-chr1-131188730-4	chr1	131188640	131188840	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018750, intron 2 of 5)	MIR3|SINE|MIR	11445.0	NM_001311094	54354.0	Mm.248291	NM_018750	ENSMUSG00000026430	Rassf5	1300019G20Rik|Maxp1|Nore1|Nore1A|Nore1B|Rapl	Ras association (RalGDS/AF-6) domain family member 5	protein-coding	67.0	82.5	65.0	1103.0	117.5	40.0	60.5	47.5
Merged-chr5-138280194-4	chr5	138280106	138280306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172412)	promoter-TSS (NM_172412)	-269.0	NM_172412	71951.0	Mm.77066	NM_172412	ENSMUSG00000029510	Gpc2	2410016G05Rik	glypican 2 (cerebroglycan)	protein-coding	144.5	314.5	191.5	1749.0	228.0	160.0	118.0	129.0
Merged-chr7-43798076-3	chr7	43797962	43798162	+	944.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008940, exon 1 of 5)	5' UTR (NM_008940, exon 1 of 5)	485.0	NM_008940	259277.0	Mm.458023	NM_008940	ENSMUSG00000064023	Klk8	BSP1|NP|Nrpn|Prss19	kallikrein related-peptidase 8	protein-coding	8.0	17.5	4.0	209.5	22.0	8.0	17.5	13.0
Merged-chr16-20382164-4	chr16	20382081	20382281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 12 of 29)	intron (NM_013790, intron 12 of 29)	44213.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	35.0	72.5	88.0	1035.0	127.5	30.0	51.5	39.0
Merged-chr19-56256966-4	chr19	56256855	56257055	+	920.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-30957.0	NM_001329936	226243.0	Mm.25791	NM_146101	ENSMUSG00000025075	Habp2	AI035669|FSAP|HABP|HGFAL|PHBP	hyaluronic acid binding protein 2	protein-coding	11.0	15.0	10.5	177.0	28.0	4.5	7.0	18.0
Merged-chr3-69633616-4	chr3	69633512	69633712	+	979.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34652.0	NM_020026	26879.0	Mm.153710	NM_020026	ENSMUSG00000043300	B3galnt1	B3galt3|b3GT3	UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1	protein-coding	25.0	39.5	23.5	300.5	37.0	27.0	25.5	8.0
Merged-chr2-144301061-6	chr2	144300970	144301170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1ME4b|LINE|L1	30166.0	NM_001355688	74528.0	Mm.386817	NM_028984	ENSMUSG00000027424	Mgme1	8430406I07Rik|AI426476	mitochondrial genome maintenance exonuclease 1	protein-coding	31.0	32.0	40.5	464.0	38.5	23.5	30.0	30.5
Merged-chr11-3169188-3	chr11	3169074	3169274	+	987.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030207, intron 7 of 32)	B1_Mus1|SINE|Alu	24289.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	28.5	14.0	12.5	226.5	11.5	6.0	1.0	4.5
Merged-chr9-118679038-4	chr9	118678943	118679143	+	994.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 11 of 27)	MTD|LTR|ERVL-MaLR	-32649.0	NM_001113514	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	15.5	28.0	15.5	190.5	69.0	29.5	27.0	18.5
Merged-chr10-117718462-2	chr10	117718362	117718562	+	835.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7704.0	NM_001288586	17246.0	Mm.22670	NM_010786	ENSMUSG00000020184	Mdm2	1700007J15Rik|AA415488|Mdm-2	transformed mouse 3T3 cell double minute 2	protein-coding	8.0	9.5	3.0	22.5	16.5	5.0	6.0	5.0
Merged-chr1-193002501-2	chr1	193002395	193002595	+	788.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_001301370, intron 2 of 8)	intron (NM_001301370, intron 2 of 8)	33280.0	NM_001301370	329324.0	Mm.76710	NM_181546	ENSMUSG00000016200	Syt14	B230320I09Rik|sytXIV	synaptotagmin XIV	protein-coding	0.0	0.0	0.0	0.0	19.5	10.5	17.5	17.5
Merged-chr10-111471334-4	chr10	111471219	111471419	+	966.94165	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-1908.0	NM_001358932	53605.0	Mm.290407	NM_015781	ENSMUSG00000058799	Nap1l1	AA407126|AI256722|D10Ertd68e|NAP-1	nucleosome assembly protein 1-like 1	protein-coding	21.5	19.0	21.5	354.0	42.5	13.0	33.5	20.5
Merged-chr14-30325245-4	chr14	30325172	30325372	+	854.8583369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083616, intron 3 of 46)	MLT1K|LTR|ERVL-MaLR	28214.0	NM_001302637	12289.0	Mm.9772	NM_028981	ENSMUSG00000015968	Cacna1d	8430418G19Rik|C79217|Cach3|Cacn4|Cacnl1a2|Cav1.3|Cchl1a|Cchl1a2|D-LTCC	calcium channel, voltage-dependent, L type, alpha 1D subunit	protein-coding	15.0	16.0	8.5	196.5	29.0	7.5	11.5	11.0
Merged-chr5-117358954-2	chr5	117358837	117359037	+	820.599976	f1_balb.idr|f1_c57bl6.idr	intron (NM_021539, intron 1 of 8)	B3|SINE|B2	1632.0	NM_021539	59043.0	Mm.28489	NM_021539	ENSMUSG00000029364	Wsb2	AA673511|Swip2|WSB-2	WD repeat and SOCS box-containing 2	protein-coding	3.0	10.5	2.0	65.5	27.5	6.5	5.5	5.0
Merged-chr5-140742053-4	chr5	140741974	140742174	+	840.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173405, intron 3 of 7)	intron (NM_173405, intron 3 of 7)	17947.0	NM_173405	231842.0	Mm.491298	NM_173405	ENSMUSG00000050022	Amz1	5330426I05|6530401C20Rik	archaelysin family metallopeptidase 1	protein-coding	12.5	13.5	7.5	102.0	30.5	12.0	13.0	12.5
Merged-chr9-40814852-3	chr9	40814735	40814935	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1a|SINE|B2	13562.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	1.5	3.5	2.5	35.0	61.0	19.5	20.5	45.5
Merged-chr9-120493287-4	chr9	120493148	120493348	+	983.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026892, intron 1 of 3)	intron (NM_026892, intron 1 of 3)	642.0	NM_026892	68969.0	Mm.28753	NM_026892	ENSMUSG00000006941	Eif1b	1500010M16Rik|3110001N14Rik|Gc20	eukaryotic translation initiation factor 1B	protein-coding	11.5	31.0	22.0	176.5	35.0	18.0	22.0	20.5
Merged-chr11-69095871-4	chr11	69095736	69095936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3113.0	NM_011065	18626.0	Mm.7373	NM_011065	ENSMUSG00000020893	Per1	Hftm|Per|m-rigui|mPer1	period circadian clock 1	protein-coding	22.0	20.0	17.0	254.5	53.5	19.5	22.5	31.0
Merged-chr2-16170586-4	chr2	16170476	16170676	+	961.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310455, intron 35 of 38)	intron (NM_001310455, intron 35 of 38)	-185728.0	NM_026162	67448.0	Mm.313938	NM_026162	ENSMUSG00000026748	Plxdc2	1200007L24Rik|5430431D22Rik|AI646728|AU022916|AV231634|Tem7r	plexin domain containing 2	protein-coding	15.0	18.0	13.0	530.0	63.0	16.5	33.0	28.5
Merged-chr3-88492633-1	chr3	88492533	88492733	+	825.0	f0_balb.idr	intron (NM_001002011, intron 1 of 11)	intron (NM_001002011, intron 1 of 11)	679.0	NM_019390	16905.0	Mm.243014	NM_019390	ENSMUSG00000028063	Lmna	Dhe	lamin A	protein-coding	12.5	6.5	17.5	137.5	14.5	9.5	13.0	12.5
Merged-chr7-80457465-4	chr7	80457351	80457551	+	972.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042527, intron 21 of 21)	MIR3|SINE|MIR	-52015.0	NM_001081454	18550.0	Mm.5241	NM_011046	ENSMUSG00000030530	Furin	9130404I01Rik|Fur|PACE|Pcsk3|SPC1	furin (paired basic amino acid cleaving enzyme)	protein-coding	18.0	21.0	8.0	270.5	30.5	15.0	17.5	30.5
Merged-chr7-43546196-4	chr7	43546096	43546296	+	964.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13025.0	NM_021293	12489.0	Mm.140157	NM_021293	ENSMUSG00000004609	Cd33	Siglec-3|gp67	CD33 antigen	protein-coding	20.0	33.0	12.5	140.5	44.0	25.0	7.5	16.5
Merged-chr8-72317258-4	chr8	72317157	72317357	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1805.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	45.0	56.5	67.5	631.0	74.0	32.0	23.5	29.0
Merged-chr3-8685401-4	chr3	8685364	8685564	+	991.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18426.0	NM_010423	15213.0	Mm.29581	NM_010423	ENSMUSG00000040289	Hey1	AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1	hairy/enhancer-of-split related with YRPW motif 1	protein-coding	16.5	36.0	19.5	465.0	42.0	15.0	17.5	11.5
Merged-chr11-98952871-4	chr11	98952767	98952967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009024, intron 2 of 8)	intron (NM_009024, intron 2 of 8)	-7604.0	NM_001176528	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	24.0	49.0	32.0	649.0	54.5	26.0	11.5	19.5
Merged-chr18-9380866-4	chr18	9380745	9380945	+	987.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026484, intron 2 of 9)	intron (NM_026484, intron 2 of 9)	69309.0	NM_026484	67974.0	Mm.86523	NM_026484	ENSMUSG00000024286	Ccny	1700025H17Rik|3110050L10Rik|4631402G10Rik|5730405I09Rik	cyclin Y	protein-coding	26.5	34.5	16.0	315.5	14.5	20.0	27.5	18.0
Merged-chr7-75774727-4	chr7	75774625	75774825	+	893.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR45|LTR|ERVK	-73613.0	NM_001122780	207952.0	Mm.206223	NM_029652	ENSMUSG00000055652	Klhl25	2810402K13Rik|BC027373|Enc-1	kelch-like 25	protein-coding	12.5	22.0	23.0	94.5	15.5	15.0	13.5	8.5
Merged-chr8-3677441-4	chr8	3677338	3677538	+	736.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025701, intron 1 of 1)	MTEb|LTR|ERVL-MaLR	961.0	NM_025701	66682.0	Mm.29090	NM_025701	ENSMUSG00000040236	Trappc5	4021401A16Rik|TRS31	trafficking protein particle complex 5	protein-coding	6.5	9.5	7.5	86.5	24.0	7.0	11.5	7.0
Merged-chr2-124202792-4	chr2	124202677	124202877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290997, intron 2 of 20)	intron (NM_001290997, intron 2 of 20)	19581.0	NR_040612	75946.0	Mm.415059	NR_040612	ENSMUSG00000086954	4930583P06Rik	-	RIKEN cDNA 4930583P06 gene	ncRNA	50.5	44.5	35.0	663.0	56.5	9.0	31.0	42.5
Merged-chr12-100531072-4	chr12	100530955	100531155	+	975.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-10233.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	20.0	35.0	25.0	408.0	52.5	14.5	25.5	18.5
Merged-chr6-71144053-6	chr6	71143951	71144151	+	905.5610960000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178413, intron 1 of 9)	CpG	329.0	NM_001033929	232078.0	Mm.37547	NM_178413	ENSMUSG00000054474	Thnsl2	BC051244|TSH2	threonine synthase-like 2 (bacterial)	protein-coding	6.5	9.5	23.5	131.5	31.5	12.5	12.0	20.0
Merged-chr11-85170240-4	chr11	85170139	85170339	+	910.3125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028589)	promoter-TSS (NM_028589)	-857.0	NM_028589	73634.0	Mm.48850	NM_028589	ENSMUSG00000018479	1700125H20Rik	-	RIKEN cDNA 1700125H20 gene	protein-coding	8.5	11.0	7.0	103.0	37.5	6.5	23.0	18.5
Merged-chr17-35868365-4	chr17	35868251	35868451	+	902.341675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_175242, exon 1 of 3)	exon (NM_175242, exon 1 of 3)	1736.0	NM_175242	76448.0	Mm.359982	NM_175242	ENSMUSG00000034595	Ppp1r18	2310014H01Rik|AA407849|AI450394	protein phosphatase 1, regulatory subunit 18	protein-coding	24.0	36.0	13.0	260.5	76.5	29.5	21.0	11.0
Merged-chr10-68063653-4	chr10	68063575	68063775	+	780.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Charlie2b|DNA|hAT-Charlie	84105.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	3.0	8.0	7.0	178.0	21.0	8.0	19.0	12.5
Merged-chr15-103323577-4	chr15	103323476	103323676	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356627, intron 2 of 7)	CpG	10762.0	NM_001356627	29813.0	Mm.14099	NM_013866	ENSMUSG00000000552	Zfp385a	Hzf|Zfp385|Znf385a	zinc finger protein 385A	protein-coding	29.5	32.5	27.0	382.0	66.0	30.5	41.0	31.5
Merged-chr4-12427762-3	chr4	12427679	12427879	+	833.366638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-255764.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	6.5	9.5	12.5	95.0	15.5	6.0	4.0	8.0
Merged-chr15-15102379-3	chr15	15102281	15102481	+	806.06665	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1675720.0	NM_009869	12565.0	Mm.439758	NM_009869	ENSMUSG00000025370	Cdh9	-	cadherin 9	protein-coding	6.5	9.5	12.5	235.5	12.0	1.0	5.0	8.0
Merged-chr8-46935071-4	chr8	46934964	46935164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51823.0	NM_177304	320981.0	Mm.211429	NM_177304	ENSMUSG00000038173	Enpp6	4833421B01Rik|B830047L21Rik|D8Ertd514e|E-NPP 6|GPC-Cpde|Npp6	ectonucleotide pyrophosphatase/phosphodiesterase 6	protein-coding	37.5	61.5	25.0	424.0	141.0	28.5	52.5	49.5
Merged-chr5-102002848-2	chr5	102002749	102002949	+	565.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 3 of 66)	intron (NM_172882, intron 3 of 66)	67072.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	4.5	6.0	5.0	77.5	12.0	7.5	4.0	12.5
Merged-chr3-127568975-2	chr3	127568871	127569071	+	748.083374	f0_c57.idr|f1_c57bl6.idr	intron (NM_197997, intron 7 of 25)	MTC|LTR|ERVL-MaLR	15482.0	NM_197997	71643.0	Mm.274884	NM_197997	ENSMUSG00000051278	Zgrf1	4930422G04Rik|AI448607	zinc finger, GRF-type containing 1	protein-coding	3.0	1.0	0.0	13.5	43.5	12.0	16.0	21.5
Merged-chr13-73604782-4	chr13	73604674	73604874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146047, intron 1 of 16)	intron (NM_146047, intron 1 of 16)	772.0	NM_146047	218335.0	Mm.30099	NM_146047	ENSMUSG00000021610	Clptm1l	C130052I12Rik|Crr9	CLPTM1-like	protein-coding	30.5	59.5	27.5	313.5	77.0	26.5	37.0	33.0
Merged-chr19-47932446-4	chr19	47932352	47932552	+	826.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5260.0	NM_001163267	381229.0	Mm.300553	NM_001163267	ENSMUSG00000046585	Cfap58	Ccdc147|Gm969	cilia and flagella associated protein 58	protein-coding	10.5	18.0	5.5	119.0	23.5	3.5	7.0	14.0
Merged-chr16-45736913-3	chr16	45736814	45737014	+	821.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001272070, exon 4 of 6)	exon (NM_001272070, exon 4 of 6)	6041.0	NM_001272070	213012.0	Mm.247453	NM_172511	ENSMUSG00000033157	Abhd10	-	abhydrolase domain containing 10	protein-coding	4.5	13.5	4.5	209.0	4.5	5.0	3.0	9.5
Merged-chr5-5214739-4	chr5	5214649	5214849	+	881.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 4 of 14)	intron (NM_011074, intron 4 of 14)	51319.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	5.0	14.5	9.0	92.0	53.0	25.5	13.0	13.5
Merged-chr2-90479337-1	chr2	90479237	90479437	+	843.0	f1_balb.idr	promoter-TSS (NM_001135657)	promoter-TSS (NM_001135657)	-163.0	NM_001135657	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	10.0	5.0	6.0	58.5	9.0	1.5	4.0	5.5
Merged-chr6-86525843-4	chr6	86525713	86525913	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011865, exon 1 of 1)	exon (NM_011865, exon 1 of 1)	376.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	50.5	57.5	70.0	504.5	93.5	45.0	36.0	49.0
Merged-chr12-76943202-4	chr12	76943089	76943289	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361663, intron 3 of 4)	intron (NM_001361663, intron 3 of 4)	19059.0	NM_008558	17187.0	Mm.268548	NM_008558	ENSMUSG00000059436	Max	AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8	Max protein	protein-coding	18.0	23.5	24.5	316.5	41.5	10.5	21.0	16.0
Merged-chr4-40143369-4	chr4	40143269	40143469	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_007386, exon 1 of 21)	5' UTR (NM_007386, exon 1 of 21)	104.0	NM_007386	11428.0	Mm.331547	NM_007386	ENSMUSG00000028405	Aco1	Aco-1|Irebp|Irp1	aconitase 1	protein-coding	277.5	439.0	297.0	4429.0	745.5	285.0	377.0	268.5
Merged-chr12-55388852-3	chr12	55388835	55389035	+	934.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310583, intron 1 of 6)	intron (NM_001310583, intron 1 of 6)	4713.0	NM_001310583	26443.0	Mm.30210	NM_011968	ENSMUSG00000021024	Psma6	IOTA	proteasome (prosome, macropain) subunit, alpha type 6	protein-coding	10.5	8.0	10.0	111.0	19.5	8.0	4.0	7.0
Merged-chr19-3924612-4	chr19	3924515	3924715	+	801.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026316, intron 1 of 9)	intron (NM_026316, intron 1 of 9)	5101.0	NM_026316	67689.0	Mm.109341	NM_026316	ENSMUSG00000024885	Aldh3b1	1700001N19Rik|ALDH4|ALDH7	aldehyde dehydrogenase 3 family, member B1	protein-coding	8.0	13.5	11.0	98.5	26.5	1.0	10.0	14.5
Merged-chr19-32903918-4	chr19	32903820	32904020	+	973.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146343.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	38.0	38.0	23.5	436.5	46.0	12.0	22.0	19.5
Merged-chr2-152671856-4	chr2	152671771	152671971	+	834.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010376, intron 1 of 11)	intron (NM_010376, intron 1 of 11)	2410.0	NM_001159552	14950.0	Mm.277327	NM_010376	ENSMUSG00000019188	H13	1200006O09Rik|4930443L17Rik|5031424B04Rik|AV020344|H-13|Hm13|PSL3|Spp	histocompatibility 13	protein-coding	9.0	13.5	13.0	141.0	38.0	15.0	10.5	14.5
Merged-chr8-36248117-7	chr8	36248009	36248209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081150, intron 1 of 11)	CpG	1407.0	NM_001081150	244421.0	Mm.324032	NM_001081150	ENSMUSG00000039633	Lonrf1	-	LON peptidase N-terminal domain and ring finger 1	protein-coding	46.5	89.0	63.0	730.5	160.5	58.0	60.5	73.5
Merged-chr5-121584330-4	chr5	121584232	121584432	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009656, intron 1 of 12)	intron (NM_009656, intron 1 of 12)	9492.0	NM_009656	11669.0	Mm.284446	NM_009656	ENSMUSG00000029455	Aldh2	AHD-M1|ALDH-E2|ALDHI|Ahd-5|Ahd5	aldehyde dehydrogenase 2, mitochondrial	protein-coding	108.0	129.5	100.5	1583.0	174.5	91.5	105.0	108.5
Merged-chr3-101596344-4	chr3	101596258	101596458	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144900, intron 1 of 22)	intron (NM_144900, intron 1 of 22)	8349.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	22.5	37.5	25.0	682.5	109.5	17.5	35.5	43.5
Merged-chr15-95826617-3	chr15	95826513	95826713	+	955.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155276, intron 1 of 1)	intron (NR_155276, intron 1 of 1)	3459.0	NR_155277	102634389.0	Mm.440563	NR_155276	ENSMUSG00000078648	LOC102634389	-	uncharacterized LOC102634389	ncRNA	12.5	19.0	10.0	193.0	73.5	11.5	8.5	10.5
Merged-chr1-151001565-3	chr1	151001481	151001681	+	729.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8146.0	NM_001024720	545370.0	Mm.379425	NM_001024720	ENSMUSG00000066842	Hmcn1	EG545370|FIBL-6|Gm201	hemicentin 1	protein-coding	7.0	6.0	8.5	127.0	11.0	6.0	4.0	12.5
Merged-chr2-164794489-4	chr2	164794400	164794600	+	920.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133240, intron 5 of 5)	intron (NM_133240, intron 5 of 5)	8479.0	NM_133924	101113.0	Mm.295647	NM_133924	ENSMUSG00000050373	Snx21	5730407K14Rik|AI481716	sorting nexin family member 21	protein-coding	17.5	33.5	13.5	191.5	62.0	8.0	12.0	14.5
Merged-chr8-11558237-4	chr8	11558124	11558324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302459)	promoter-TSS (NM_001302459)	-186.0	NM_001302459	26356.0	Mm.25709	NM_011919	ENSMUSG00000045969	Ing1	2610028J21Rik|AA407184|AI875420|mING1h|p33Ing1|p37Ing1b	inhibitor of growth family, member 1	protein-coding	397.5	583.0	551.0	5832.5	1001.0	403.0	532.0	449.0
Merged-chr14-55578472-4	chr14	55578378	55578578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011189)	promoter-TSS (NM_011189)	-16.0	NM_011189	19186.0	Mm.830	NM_011189	ENSMUSG00000022216	Psme1	AW413925|PA28a	proteasome (prosome, macropain) activator subunit 1 (PA28 alpha)	protein-coding	64.5	73.0	55.5	1037.0	170.0	45.0	84.0	71.5
Merged-chr8-121111343-4	chr8	121111257	121111457	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2a|LTR|ERVL-MaLR	-2978.0	NM_001166482	234814.0	Mm.31690	NM_172761	ENSMUSG00000031816	Mthfsd	AW049977|BC052066|C920004D05	methenyltetrahydrofolate synthetase domain containing	protein-coding	15.0	21.0	11.0	309.5	54.0	11.5	25.5	17.0
Merged-chr5-142441483-3	chr5	142441335	142441535	+	918.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199068, intron 2 of 8)	intron (NM_199068, intron 2 of 8)	-22496.0	NM_172725	231855.0	Mm.78250	NM_172725	ENSMUSG00000039623	Ap5z1	C330006K01Rik	adaptor-related protein complex 5, zeta 1 subunit	protein-coding	7.5	11.0	8.0	115.5	16.5	8.0	5.5	11.5
Merged-chr2-62681173-4	chr2	62681061	62681261	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145523, intron 3 of 7)	HAL1|LINE|L1	16834.0	NM_145523	227960.0	Mm.219877	NM_145523	ENSMUSG00000026893	Gca	5133401E04Rik|AI573844	grancalcin	protein-coding	44.5	73.0	42.5	303.5	136.5	45.0	54.5	30.0
Merged-chr2-162939812-4	chr2	162939721	162939921	+	986.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3644.0	NM_001081338	241764.0	Mm.187086	NM_001081338	ENSMUSG00000035576	L3mbtl1	C630004G01|L3mbtl|mKIAA0681	L3MBTL1 histone methyl-lysine binding protein	protein-coding	33.5	29.5	41.0	492.5	61.5	28.5	14.5	34.0
Merged-chr7-25315492-5	chr7	25315434	25315634	+	917.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_183311, exon 15 of 15)	exon (NM_183311, exon 15 of 15)	-1630.0	NM_001160400	269878.0	Mm.38527	NM_001160400	ENSMUSG00000045039	Megf8	AW049492|Egfl4|b2b1702.2Clo|b2b1702Clo|b2b288Clo|m687Ddg|mKIAA0817	multiple EGF-like-domains 8	protein-coding	6.5	10.0	9.0	30.0	15.5	2.5	3.5	13.0
Merged-chr16-93191471-2	chr16	93191371	93191571	+	571.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161718.0	NR_040486	69857.0	Mm.81192	NR_040486	ENSMUSG00000100277	1810053B23Rik	1810008L18Rik|1810056K14Rik	RIKEN cDNA 1810053B23 gene	ncRNA	9.0	13.0	7.5	53.0	22.5	6.0	2.5	7.5
Merged-chr16-31929077-3	chr16	31928997	31929197	+	924.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4754.0	NM_172822	239827.0	Mm.440388	NM_172822	ENSMUSG00000045625	Pigz	F630022B06Rik	phosphatidylinositol glycan anchor biosynthesis, class Z	protein-coding	6.0	15.5	6.0	117.5	39.0	8.0	9.5	7.5
Merged-chr12-103388685-4	chr12	103388578	103388778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026580)	promoter-TSS (NM_026580)	-3.0	NM_026580	68149.0	Mm.127378	NM_026580	ENSMUSG00000021203	Otub2	2010015L18Rik|4930586I02Rik|AI413508|AW557219|OTB2|OTU2	OTU domain, ubiquitin aldehyde binding 2	protein-coding	95.5	99.0	122.0	1772.5	174.5	66.0	106.0	67.0
Merged-chr16-88372255-4	chr16	88372155	88372355	+	687.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-81990.0	NM_001346964	14805.0	Mm.5134	NM_010348	ENSMUSG00000022935	Grik1	A830007B11Rik|D16Ium24|D16Ium24e|GluK1|GluK5|Glur-5|Glur5|Glurbeta1	glutamate receptor, ionotropic, kainate 1	protein-coding	10.5	13.0	14.5	297.0	28.0	5.0	10.5	12.0
Merged-chr8-94551832-4	chr8	94551739	94551939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153507, intron 4 of 15)	intron (NM_153507, intron 4 of 15)	18811.0	NM_153507	234577.0	Mm.291815	NM_153507	ENSMUSG00000034361	Cpne2	3322401K10Rik	copine II	protein-coding	58.5	42.5	25.0	651.5	79.0	33.5	45.0	29.0
Merged-chr10-81136342-6	chr10	81136177	81136377	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010731)	promoter-TSS (NM_010731)	6.0	NM_010731	16969.0	Mm.20920	NM_010731	ENSMUSG00000035011	Zbtb7a	9030619K07Rik|9130006G12Rik|AI452336|FBI-1|Lrf|Pokemon|Zbtb7	zinc finger and BTB domain containing 7a	protein-coding	35.5	37.5	42.0	412.0	61.0	41.0	31.5	37.0
Merged-chr18-36700605-4	chr18	36700514	36700714	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21-int|LTR|ERVL	-4689.0	NM_172831	240216.0	Mm.252323	NM_172831	ENSMUSG00000044719	E230025N22Rik	EG240216	Riken cDNA E230025N22 gene	protein-coding	86.5	109.5	106.0	1330.0	150.0	58.5	67.0	57.0
Merged-chr2-31076006-3	chr2	31075893	31076093	+	879.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	20507.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	16.5	8.5	15.0	288.0	15.0	3.5	6.5	3.0
Merged-chr10-5826025-3	chr10	5825936	5826136	+	802.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_019958, exon 5 of 5)	3' UTR (NM_019958, exon 5 of 5)	-2093.0	NM_175374	108853.0	Mm.55082	NM_175374	ENSMUSG00000019774	Mtrf1l	9130004K12Rik	mitochondrial translational release factor 1-like	protein-coding	6.0	14.0	7.0	179.0	17.0	5.0	4.0	8.5
Merged-chr2-168205444-4	chr2	168205344	168205544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310086, intron 1 of 4)	intron (NM_001310086, intron 1 of 4)	1668.0	NM_009628	11538.0	Mm.201322	NM_009628	ENSMUSG00000051149	Adnp	AA589558|mKIAA0784	activity-dependent neuroprotective protein	protein-coding	52.0	97.5	53.5	624.5	139.0	53.0	89.0	45.5
Merged-chr16-92398912-4	chr16	92398775	92398975	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081549, intron 1 of 3)	intron (NM_001081549, intron 1 of 3)	1203.0	NM_019466	54720.0	Mm.265744	NM_019466	ENSMUSG00000022951	Rcan1	Adapt78|CALP1L|CSP1|DSC1|Dscr1|MCIP1|RCN1	regulator of calcineurin 1	protein-coding	26.5	66.5	35.0	330.5	40.5	22.5	15.5	15.5
Merged-chr12-4159498-3	chr12	4159408	4159608	+	893.194458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 2 of 21)	intron (NM_001159537, intron 2 of 21)	25355.0	NM_138305	104111.0	Mm.489807	NM_138305	ENSMUSG00000020654	Adcy3	AC3|mKIAA0511	adenylate cyclase 3	protein-coding	22.5	15.0	8.5	107.5	12.0	7.5	4.5	1.0
Merged-chr10-130093015-1	chr10	130092915	130093115	+	615.0	f0_balb.idr	Intergenic	Intergenic	18603.0	NM_146671	258666.0	Mm.377628	NM_146671	ENSMUSG00000058251	Olfr822	MOR113-2	olfactory receptor 822	protein-coding	5.0	8.0	5.0	83.5	10.0	2.5	4.5	1.0
Merged-chr9-40325174-4	chr9	40325064	40325264	+	953.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151734, intron 3 of 18)	intron (NR_151734, intron 3 of 18)	-3841.0	NM_001357622	235283.0	Mm.138434	NM_172768	ENSMUSG00000040111	Gramd1b	3222402H23|A930008A22Rik|AI593249|mKIAA1201	GRAM domain containing 1B	protein-coding	23.0	20.5	14.0	309.0	57.0	14.0	23.0	39.5
Merged-chr9-83806246-4	chr9	83806114	83806314	+	895.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148941)	promoter-TSS (NM_148941)	91.0	NM_148941	83603.0	Mm.83949	NM_148941	ENSMUSG00000032262	Elovl4	-	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 4	protein-coding	8.0	14.5	22.0	264.5	26.5	9.0	10.5	7.0
Merged-chr5-64289425-4	chr5	64289314	64289514	+	983.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289514, intron 11 of 18)	intron (NM_001289514, intron 11 of 18)	59057.0	NM_001289514	57915.0	Mm.286353	NM_019636	ENSMUSG00000029174	Tbc1d1	1110062G02Rik|AI385682|AW555803|Nob1|Nobq1|Tbc1|mKIAA1108	TBC1 domain family, member 1	protein-coding	19.5	25.0	14.0	195.0	52.0	17.0	22.0	21.0
Merged-chr4-134854345-3	chr4	134854243	134854443	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355501)	promoter-TSS (NM_001355501)	-998.0	NM_025382	66146.0	Mm.99793	NM_025382	ENSMUSG00000028826	Tmem57	1110007C24Rik|9230118A01Rik|AI317300|AI606104|C61|Maco1	transmembrane protein 57	protein-coding	35.0	61.0	37.5	393.0	112.0	51.0	43.5	36.5
Merged-chr6-30357976-4	chr6	30357859	30358059	+	914.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33061.0	NM_172735	232679.0	Mm.29780	NM_172735	ENSMUSG00000039130	Zc3hc1	1110054L24Rik|AU018540|AU019789|HSPC216|Nipa	zinc finger, C3HC type 1	protein-coding	7.0	20.5	2.0	118.5	30.5	15.5	10.5	11.0
Merged-chr8-31135823-3	chr8	31135712	31135912	+	755.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14504.0	NM_144927	234138.0	Mm.349800	NM_144927	ENSMUSG00000031577	Tti2	-	TELO2 interacting protein 2	protein-coding	0.0	7.0	1.0	42.5	21.0	9.0	26.5	13.0
Merged-chr9-103234727-4	chr9	103234618	103234818	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4432.0	NM_133977	22041.0	Mm.37214	NM_133977	ENSMUSG00000032554	Trf	AI266983|Cd176|HP|Tf|Tfn|hpx	transferrin	protein-coding	60.0	73.5	69.0	1120.5	100.5	68.0	40.5	66.5
Merged-chr7-127288144-4	chr7	127288034	127288234	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8126.0	NM_001253873	16408.0	Mm.1618	NM_008400	ENSMUSG00000030830	Itgal	(p180)|Cd11a|LFA-1|LFA-1A|Ly-15|Ly-21	integrin alpha L	protein-coding	49.0	89.0	38.0	515.5	112.0	59.0	60.5	43.0
Merged-chr11-3891136-2	chr11	3891036	3891236	+	579.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_026150, intron 1 of 2)	RLTR28|LTR|ERVL	3990.0	NM_026150	67430.0	Mm.347950	NM_026150	ENSMUSG00000020434	4921536K21Rik	AV043724	RIKEN cDNA 4921536K21 gene	protein-coding	4.0	7.5	2.5	61.0	7.5	6.0	7.5	5.0
Merged-chr10-35347575-3	chr10	35347472	35347672	+	926.111145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	864172.0	NM_010237	14302.0	Mm.332432	NM_010237	ENSMUSG00000019779	Frk	BSK|BSK/IYK|C85044|GTK|RAK	fyn-related kinase	protein-coding	13.5	15.5	7.5	263.5	22.0	8.0	11.5	10.0
Merged-chr15-63612287-4	chr15	63612194	63612394	+	923.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-132686.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	17.0	19.5	18.5	475.0	46.5	6.5	10.5	7.0
Merged-chr14-31428366-4	chr14	31428277	31428477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011894, intron 2 of 8)	intron (NM_011894, intron 2 of 8)	7723.0	NM_011894	24056.0	Mm.383198	NM_011894	ENSMUSG00000021892	Sh3bp5	AI606498|SH3BP-5|Sab	SH3-domain binding protein 5 (BTK-associated)	protein-coding	44.0	38.5	60.5	1060.0	62.5	24.5	46.0	43.0
Merged-chr13-49191120-5	chr13	49191028	49191228	+	912.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	3581.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	18.0	48.0	13.5	187.0	48.5	15.5	21.5	11.5
Merged-chr8-111662636-3	chr8	111662545	111662745	+	796.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011742, intron 2 of 3)	MERVL_2A-int|LTR|ERVL	19202.0	NM_011742	22640.0	Mm.4184	NM_011742	ENSMUSG00000055835	Zfp1	Fnp-1|Zfp-1|mkr-1	zinc finger protein 1	protein-coding	3.0	20.0	10.0	103.0	28.5	7.0	8.0	6.5
Merged-chr9-53705709-5	chr9	53705571	53705771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175562, intron 1 of 1)	CpG	561.0	NM_175562	270160.0	Mm.290285	NM_175562	ENSMUSG00000055069	Rab39	C230094F14Rik|Rab39a	RAB39, member RAS oncogene family	protein-coding	14.0	45.5	39.5	275.5	62.5	32.0	25.5	25.5
Merged-chr14-84442701-3	chr14	84442616	84442816	+	554.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013753)	promoter-TSS (NM_001013753)	-847.0	NM_001013753	219228.0	Mm.153643	NM_001013753	ENSMUSG00000035566	Pcdh17	C030033F14Rik|Gm78	protocadherin 17	protein-coding	7.0	7.0	12.0	68.0	10.0	3.0	1.5	0.5
Merged-chr17-71475448-4	chr17	71475348	71475548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028887)	promoter-TSS (NM_028887)	-105.0	NM_028887	74355.0	Mm.194450	NM_028887	ENSMUSG00000024054	Smchd1	4931400A14Rik|AW554188|MommeD1|mKIAA0650	SMC hinge domain containing 1	protein-coding	285.0	314.5	251.0	3479.5	671.5	285.0	343.0	256.5
Merged-chr13-102866240-3	chr13	102866141	102866341	+	848.7222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175171, intron 4 of 28)	intron (NM_175171, intron 4 of 28)	105986.0	NR_130171	76624.0	Mm.426384	NR_130171	ENSMUSG00000091906	1700099I09Rik	-	RIKEN cDNA 1700099I09 gene	ncRNA	3.0	5.5	6.5	336.5	22.5	6.0	8.5	9.0
Merged-chr5-65938162-4	chr5	65938067	65938267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28957.0	NM_001081104	231252.0	Mm.140015	NM_001081104	ENSMUSG00000029205	Chrna9	2410015I05Rik|Acra9|EG666827|Gm8311	cholinergic receptor, nicotinic, alpha polypeptide 9	protein-coding	81.0	132.0	47.0	1068.0	208.5	65.5	85.0	56.0
Merged-chr9-47627035-4	chr9	47626926	47627126	+	857.9249880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	96674.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	17.5	15.0	10.5	179.5	32.5	3.5	7.5	9.0
Merged-chr1-107513656-4	chr1	107513556	107513756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011111, intron 1 of 7)	intron (NM_011111, intron 1 of 7)	2146.0	NM_011111	18788.0	Mm.271870	NM_011111	ENSMUSG00000062345	Serpinb2	PAI-2|Planh2|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 2	protein-coding	55.0	55.5	41.0	774.5	84.0	45.5	25.5	35.5
Merged-chr15-82906192-4	chr15	82906094	82906294	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NR_045068)	TTS (NR_045068)	5940.0	NM_013836	21411.0	Mm.252156	NM_013836	ENSMUSG00000041852	Tcf20	2810438H08Rik|SPBP|mKIAA0292	transcription factor 20	protein-coding	82.5	114.5	80.0	1283.0	151.0	29.0	71.5	54.5
Merged-chr7-132569007-4	chr7	132568918	132569118	+	913.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016978, intron 2 of 9)	intron (NM_016978, intron 2 of 9)	7380.0	NM_016978	18242.0	Mm.13694	NM_016978	ENSMUSG00000030934	Oat	AI194874|rhg	ornithine aminotransferase	protein-coding	10.0	28.0	13.0	192.0	28.0	5.5	9.0	15.5
Merged-chr5-117424251-3	chr5	117424160	117424360	+	698.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001312914, intron 1 of 19)	intron (NM_001312914, intron 1 of 19)	10258.0	NM_001312914	333050.0	Mm.437947	NM_001034873	ENSMUSG00000061578	Ksr2	-	kinase suppressor of ras 2	protein-coding	5.0	11.0	5.0	80.0	16.0	4.0	14.5	6.0
Merged-chr2-119594264-4	chr2	119594180	119594380	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015473)	promoter-TSS (NR_015473)	-16.0	NR_027832	66602.0	Mm.379181	NR_015473	ENSMUSG00000085438	1700020I14Rik	1190006L01Rik|4933437I03Rik|AI451541|AI585852|AW538376|AW558897|Cyrano	RIKEN cDNA 1700020I14 gene	ncRNA	78.5	91.5	52.0	928.0	201.0	85.0	90.0	78.5
Merged-chr17-47768866-4	chr17	47768767	47768967	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	intron (NM_001161723, intron 1 of 8)	-16877.0	NM_011549	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	116.0	156.5	119.5	1670.5	292.5	110.0	132.0	124.5
Merged-chr11-86955885-3	chr11	86955778	86955978	+	984.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005341, intron 2 of 4)	intron (NM_001005341, intron 2 of 4)	37884.0	NM_001005341	77864.0	Mm.191894	NM_001005341	ENSMUSG00000018427	Ypel2	6430570G24|E130113K08Rik	yippee like 2	protein-coding	13.0	7.5	7.0	218.5	2.5	1.0	6.5	11.5
Merged-chr9-100382667-3	chr9	100382567	100382767	+	853.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	103806.0	NM_001033543	213208.0	Mm.242896	NM_001033543	ENSMUSG00000044244	Il20rb	AV228068|Fndc6|Gm186|Il20R2	interleukin 20 receptor beta	protein-coding	5.0	16.5	4.5	163.0	20.5	3.5	14.5	3.0
Merged-chr15-87071107-3	chr15	87071033	87071233	+	677.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-473166.0	NM_001252310	106014.0	Mm.244319	NM_134096	ENSMUSG00000054863	Fam19a5	TAFA5|Tafa-5|Tara-5	family with sequence similarity 19, member A5	protein-coding	4.0	4.0	5.0	76.5	7.5	4.5	6.5	5.5
Merged-chr3-57550658-3	chr3	57550547	57550747	+	831.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133784, intron 2 of 6)	intron (NM_133784, intron 2 of 6)	25229.0	NM_133784	97064.0	Mm.405029	NM_133784	ENSMUSG00000027803	Wwtr1	2310058J06Rik|2610021I22Rik|C78399|Taz	WW domain containing transcription regulator 1	protein-coding	6.5	14.0	7.5	70.0	4.5	2.0	0.0	3.0
Merged-chr1-180293270-4	chr1	180293169	180293369	+	966.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36969.0	NM_001128605	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	16.5	19.0	9.0	224.0	83.0	33.5	23.0	31.5
Merged-chr14-7994285-4	chr14	7994150	7994350	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007870)	promoter-TSS (NM_007870)	-68.0	NM_007870	13421.0	Mm.272258	NM_007870	ENSMUSG00000025279	Dnase1l3	DNasegamma|Dhp2|Lsd	deoxyribonuclease 1-like 3	protein-coding	22.5	27.0	31.5	300.0	45.0	20.5	20.5	38.5
Merged-chr14-95154832-2	chr14	95154732	95154932	+	584.166626	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-726422.0	NM_001358241	66732.0	Mm.75060	NM_025733	ENSMUSG00000034689	4921530L21Rik	-	RIKEN cDNA 4921530L21 gene	protein-coding	0.5	0.0	1.0	8.5	24.5	10.0	8.5	19.5
Merged-chr5-48372383-4	chr5	48372285	48372485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025755)	promoter-TSS (NM_025755)	-7.0	NM_025755	66768.0	Mm.29409	NM_025755	ENSMUSG00000029089	Pacrgl	4933428G09Rik	PARK2 co-regulated-like	protein-coding	123.5	135.5	92.5	1775.0	237.0	103.0	134.5	112.0
Merged-chr10-15215005-3	chr10	15214905	15215105	+	999.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	454716.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	10.5	32.0	19.5	330.0	8.0	4.0	1.5	4.0
Merged-chr17-24686710-2	chr17	24686610	24686810	+	887.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011522, intron 2 of 3)	intron (NM_011522, intron 2 of 3)	3239.0	NM_011522	20974.0	Mm.26032	NM_011522	ENSMUSG00000007021	Syngr3	-	synaptogyrin 3	protein-coding	2.5	7.0	1.5	34.5	12.5	9.5	13.0	5.0
Merged-chr5-129008040-4	chr5	129007972	129008172	+	870.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152615, intron 1 of 11)	intron (NR_152615, intron 1 of 11)	500.0	NR_152615	13852.0	Mm.260716	NM_007941	ENSMUSG00000029428	Stx2	AW538950|Epim|G1-536-1|Syn-2|repro34	syntaxin 2	protein-coding	10.0	8.5	6.5	105.5	20.5	6.0	11.0	11.5
Merged-chr2-112265623-4	chr2	112265526	112265726	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133649)	promoter-TSS (NM_133649)	-688.0	NM_133649	107723.0	Mm.491155	NM_133648	ENSMUSG00000027130	Slc12a6	9530023I19Rik|KCC3|gaxp	solute carrier family 12, member 6	protein-coding	205.0	283.0	222.0	3795.0	455.5	177.5	258.5	187.0
Merged-chr7-97164454-4	chr7	97164359	97164559	+	982.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	82708.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	31.0	19.5	20.0	541.0	46.5	14.5	23.0	24.0
Merged-chr5-102009884-4	chr5	102009770	102009970	+	974.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172882, exon 3 of 67)	5' UTR (NM_172882, exon 3 of 67)	60051.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	14.0	11.0	25.5	287.0	55.0	20.5	20.5	26.5
Merged-chr2-28796517-3	chr2	28796413	28796613	+	905.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033874, intron 11 of 12)	intron (NM_001033874, intron 11 of 12)	43847.0	NM_172977	269252.0	Mm.26043	NM_172977	ENSMUSG00000035666	Gtf3c4	5330400C03|AI426938|AU014771|AU017413|KAT12|TFIIIC90	general transcription factor IIIC, polypeptide 4	protein-coding	26.0	24.5	25.5	276.5	21.0	5.0	7.5	10.0
Merged-chr2-117386703-4	chr2	117386578	117386778	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-43801.0	NM_011246	19419.0	Mm.42150	NM_011246	ENSMUSG00000027347	Rasgrp1	Rasgrp|calDAG-GEFII	RAS guanyl releasing protein 1	protein-coding	31.5	81.5	36.0	539.5	92.5	41.0	39.0	32.5
Merged-chr1-94711573-2	chr1	94711473	94711673	+	820.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-85869.0	NR_040473	74689.0	Mm.399187	NR_040473	ENSMUSG00000100518	4930440C22Rik	-	RIKEN cDNA 4930440C22 gene	ncRNA	5.0	9.5	2.5	78.0	8.5	4.5	10.5	5.5
Merged-chr12-25098915-4	chr12	25098822	25099022	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-2830.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	177.0	309.0	157.5	3592.5	485.5	209.0	232.0	193.5
Merged-chr19-6969802-4	chr19	6969719	6969919	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008874)	promoter-TSS (NM_008874)	-5.0	NM_001290349	18797.0	Mm.273204	NM_008874	ENSMUSG00000024960	Plcb3	mKIAA4098	phospholipase C, beta 3	protein-coding	49.0	74.0	23.0	400.0	98.0	39.5	61.0	41.5
Merged-chr9-22307727-4	chr9	22307608	22307808	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145612)	promoter-TSS (NM_145612)	-70.0	NM_145612	235050.0	Mm.306038	NM_145612	ENSMUSG00000066829	Zfp810	BC005471	zinc finger protein 810	protein-coding	131.0	215.0	111.5	2181.0	299.5	112.0	148.0	129.5
Merged-chr6-72097507-4	chr6	72097422	72097622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011375)	promoter-TSS (NM_011375)	-86.0	NM_001035228	20454.0	Mm.38248	NM_011375	ENSMUSG00000056091	St3gal5	3S-T|Siat9|[a]2	ST3 beta-galactoside alpha-2,3-sialyltransferase 5	protein-coding	131.0	136.0	154.0	2204.5	295.5	124.0	138.0	170.5
Merged-chr10-44596195-4	chr10	44596104	44596304	+	830.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-137456.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	11.0	16.0	15.5	243.0	11.5	12.0	13.0	19.0
Merged-chr7-4966718-3	chr7	4966614	4966814	+	679.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001200041, exon 4 of 4)	3' UTR (NM_001200041, exon 4 of 4)	-2366.0	NM_001146329	381836.0	Mm.297829	NM_001146329	ENSMUSG00000030433	Sbk2	Gm1079|Sgk069	SH3-binding domain kinase family, member 2	protein-coding	8.0	25.5	10.0	32.0	10.5	0.0	9.0	4.0
Merged-chr13-104178381-4	chr13	104178270	104178470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001361539)	promoter-TSS (NM_001361539)	96.0	NM_025879	66975.0	Mm.272541	NM_025879	ENSMUSG00000021711	Trappc13	2410002O22Rik|2610524F24Rik|AI451892|AU017229	trafficking protein particle complex 13	protein-coding	18.5	32.0	26.5	340.0	55.5	11.5	25.5	19.0
Merged-chr1-88277634-4	chr1	88277528	88277728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198652)	promoter-TSS (NM_198652)	-49.0	NM_198652	381280.0	Mm.384762	NM_198652	ENSMUSG00000044783	Hjurp	6430706D22Rik|A730008H23Rik|C330011F01Rik|Gm975|Mfleg1	Holliday junction recognition protein	protein-coding	679.5	839.0	651.0	9832.5	1667.0	587.0	872.5	571.5
Merged-chr15-38278301-4	chr15	38278231	38278431	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	21569.0	NM_001357677	21847.0	Mm.4292	NM_013692	ENSMUSG00000037465	Klf10	AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF	Kruppel-like factor 10	protein-coding	11.5	34.5	35.5	258.5	61.5	18.0	30.0	21.5
Merged-chr15-81511845-3	chr15	81511694	81511894	+	975.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45478.0	NM_019712	56438.0	Mm.29405	NM_019712	ENSMUSG00000022400	Rbx1	1500002P15Rik|AA517855|ROC1	ring-box 1	protein-coding	4.5	4.5	3.5	167.5	18.5	7.0	6.5	12.0
Merged-chr9-44322392-3	chr9	44322293	44322493	+	693.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2111.0	NM_027909	71764.0	Mm.491174	NM_027909	ENSMUSG00000032120	C2cd2l	1300006O23Rik|Tmem24	C2 calcium-dependent domain containing 2-like	protein-coding	7.0	9.5	8.5	102.0	23.0	4.5	15.0	4.0
Merged-chr6-72345186-4	chr6	72345089	72345289	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138592)	promoter-TSS (NM_138592)	-14.0	NM_138592	28035.0	Mm.281900	NM_138592	ENSMUSG00000056305	Usp39	AA408960|AI894154|CGI-21|D6Wsu157e|SAD1	ubiquitin specific peptidase 39	protein-coding	52.0	79.0	32.5	701.0	131.0	55.0	56.5	41.5
Merged-chr4-128618743-4	chr4	128618658	128618858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_205823)	promoter-TSS (NM_205823)	-139.0	NM_205823	384059.0	Mm.331901	NM_205823	ENSMUSG00000062545	Tlr12	Gm1365|Tlr11	toll-like receptor 12	protein-coding	17.0	17.0	27.0	237.5	67.0	14.5	15.0	26.5
Merged-chr8-111095282-3	chr8	111095182	111095382	+	850.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198308, intron 1 of 17)	intron (NM_198308, intron 1 of 17)	537.0	NM_198308	319518.0	Mm.28350	NM_198308	ENSMUSG00000033624	Pdpr	4930402E16Rik|AU018056|mKIAA1990	pyruvate dehydrogenase phosphatase regulatory subunit	protein-coding	6.0	8.5	6.0	61.5	12.0	5.5	5.0	6.0
Merged-chr11-34072493-4	chr11	34072391	34072591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 7 of 20)	intron (NM_010696, intron 7 of 20)	25563.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	154.5	194.5	167.5	2352.0	306.0	126.0	161.0	122.5
Merged-chr8-125184079-3	chr8	125183960	125184160	+	728.733337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174854, intron 9 of 12)	intron (NM_174854, intron 9 of 12)	129865.0	NM_174854	244667.0	Mm.233504	NM_170596	ENSMUSG00000043051	Disc1	-	disrupted in schizophrenia 1	protein-coding	17.0	13.0	12.0	132.0	14.0	9.0	13.0	7.5
Merged-chr10-34158972-4	chr10	34158884	34159084	+	819.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 4 of 5)	ORR1E|LTR|ERVL-MaLR	-31012.0	NM_175449	215900.0	Mm.34479	NM_175449	ENSMUSG00000046031	Fam26f	A630077B13Rik|Calhm6	family with sequence similarity 26, member F	protein-coding	12.5	15.0	3.5	216.5	21.0	6.0	12.0	6.0
Merged-chr2-91096729-4	chr2	91096643	91096843	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011355)	promoter-TSS (NM_011355)	65.0	NM_011355	20375.0	Mm.1302	NM_011355	ENSMUSG00000002111	Spi1	Dis-1|Dis1|PU.1|Sfpi-1|Sfpi1|Spi-1|Tcfpu1|Tfpu.1	spleen focus forming virus (SFFV) proviral integration oncogene	protein-coding	127.0	210.5	148.5	1899.0	334.0	90.0	126.0	116.5
Merged-chr2-119618590-4	chr2	119618488	119618688	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001042653)	promoter-TSS (NM_001042653)	-83.0	NM_001042653	70645.0	Mm.246412	NM_001042653	ENSMUSG00000072980	Oip5	5730547N13Rik|Lint-25|Ms18b	Opa interacting protein 5	protein-coding	135.5	224.5	122.0	1895.0	439.5	167.5	153.0	142.5
Merged-chr1-64122231-4	chr1	64122119	64122319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033563)	promoter-TSS (NM_033563)	-830.0	NM_033563	93691.0	Mm.29466	NM_033563	ENSMUSG00000025959	Klf7	9830124P08Rik	Kruppel-like factor 7 (ubiquitous)	protein-coding	148.0	298.0	154.0	1612.5	402.0	162.5	164.5	135.5
Merged-chr2-35462620-6	chr2	35462472	35462672	+	870.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-1123.0	NM_001145821	14594.0	Mm.281124	NM_010283	ENSMUSG00000035778	Ggta1	AW108479|GALT|Gal|Ggta|Ggta-1|alpha Gal|alpha3GalT	glycoprotein galactosyltransferase alpha 1, 3	protein-coding	6.0	3.5	4.5	141.0	17.5	7.0	6.5	6.5
Merged-chr12-101102885-3	chr12	101102797	101102997	+	814.111084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-19195.0	NM_001160214	68734.0	Mm.87077	NM_211355	ENSMUSG00000041846	Ppp4r3a	1110034C04Rik|BC064465|Smek1|mKIAA2010	protein phosphatase 4 regulatory subunit 3A	protein-coding	2.0	6.5	8.5	76.0	39.5	8.5	9.5	8.0
Merged-chr1-157537875-2	chr1	157537775	157537975	+	626.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001159986, intron 9 of 25)	intron (NM_001159986, intron 9 of 25)	11705.0	NM_001159986	89867.0	Mm.87114	NM_033354	ENSMUSG00000026589	Sec16b	Lztr2|Rgpr|Rgpr-p117	SEC16 homolog B (S. cerevisiae)	protein-coding	1.5	6.5	2.0	29.5	6.5	4.5	8.5	7.5
Merged-chr10-8518605-1	chr10	8518505	8518705	+	1000.0	f1_c57bl6.idr	5' UTR (NM_177387, exon 1 of 8)	5' UTR (NM_177387, exon 1 of 8)	220.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	25.0	27.5	36.5	343.0	35.5	21.5	19.0	28.0
Merged-chr9-58273141-4	chr9	58273034	58273234	+	949.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19970.0	NM_026942	69106.0	Mm.216502	NM_026942	ENSMUSG00000032333	Stoml1	1810015E19Rik|AI847431|SLP1|STORP|UNC24|WPB72	stomatin-like 1	protein-coding	30.5	25.5	13.5	401.0	35.5	13.0	32.0	31.0
Merged-chr12-80815609-4	chr12	80815479	80815679	+	878.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242419, intron 1 of 6)	intron (NM_001242419, intron 1 of 6)	25047.0	NM_001242419	217684.0	Mm.341776	NM_178682	ENSMUSG00000021133	Susd6	4933426M11Rik|mKIAA0247	sushi domain containing 6	protein-coding	9.5	11.5	5.0	82.0	29.5	2.0	5.0	13.5
Merged-chr4-101670600-3	chr4	101670505	101670705	+	634.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR49|LTR|ERVK	22822.0	NM_175036	230514.0	Mm.4756	NM_175036	ENSMUSG00000035212	Leprot	LEPR|OB-RGRP|Obrgrp|VPS55	leptin receptor overlapping transcript	protein-coding	4.5	9.0	6.0	64.0	10.0	1.0	7.5	1.5
Merged-chr3-40739175-3	chr3	40739085	40739285	+	867.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6428.0	NM_011020	18415.0	Mm.39330	NM_011020	ENSMUSG00000025757	Hspa4l	94kDa|AI461691|APG-1|Osp94	heat shock protein 4 like	protein-coding	3.5	3.0	7.5	176.5	24.0	4.5	14.5	9.5
Merged-chr8-122281966-4	chr8	122281862	122282062	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009569)	promoter-TSS (NM_009569)	-179.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	348.0	529.5	279.0	3908.5	804.5	331.0	385.5	301.0
Merged-chr11-84290761-6	chr11	84290707	84290907	+	888.673584	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133360, intron 28 of 53)	intron (NM_133360, intron 28 of 53)	95369.0	NM_133360	107476.0	Mm.31374	NM_133360	ENSMUSG00000020532	Acaca	A530025K05Rik|Acac|Acc1|Gm738	acetyl-Coenzyme A carboxylase alpha	protein-coding	5.0	6.0	6.5	26.0	15.0	7.0	6.0	6.5
Merged-chr10-20772243-4	chr10	20772109	20772309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47131.0	NM_013875	29863.0	Mm.425617	NM_013875	ENSMUSG00000019990	Pde7b	-	phosphodiesterase 7B	protein-coding	69.5	93.5	52.0	948.5	154.5	52.0	46.5	41.5
Merged-chr6-116672568-4	chr6	116672453	116672653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178045, intron 1 of 10)	intron (NM_178045, intron 1 of 10)	1283.0	NM_178045	213391.0	Mm.257931	NM_178045	ENSMUSG00000042129	Rassf4	3830411C14Rik|AD037|AI586137	Ras association (RalGDS/AF-6) domain family member 4	protein-coding	67.0	189.0	60.0	397.5	236.5	99.0	85.0	49.5
Merged-chr3-8964123-4	chr3	8963960	8964160	+	985.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001025261)	promoter-TSS (NM_001025261)	86.0	NM_001025262	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	14.0	10.5	17.5	289.5	13.0	6.0	10.0	9.0
Merged-chr13-64274817-7	chr13	64274703	64274903	+	970.789124	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_172587, exon 1 of 14)	5' UTR (NM_172587, exon 1 of 14)	185.0	NM_172587	218294.0	Mm.25335	NM_172587	ENSMUSG00000033102	Cdc14b	2810432N10Rik|A530086E13Rik|AA472821|CDC14B3|Cdc14B1	CDC14 cell division cycle 14B	protein-coding	12.5	28.0	22.5	263.0	45.5	11.5	16.5	21.5
Merged-chr7-51892805-4	chr7	51892700	51892900	+	802.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330607, intron 2 of 7)	intron (NM_001330607, intron 2 of 7)	13833.0	NM_001330607	14453.0	Mm.207360	NM_008087	ENSMUSG00000030498	Gas2	Gas-2	growth arrest specific 2	protein-coding	4.5	12.5	13.0	258.0	26.0	11.5	25.5	7.5
Merged-chr14-56887120-4	chr14	56886964	56887164	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360643, intron 1 of 24)	CpG-4519	221.0	NM_001360643	76007.0	Mm.31417	NM_029498	ENSMUSG00000021945	Zmym2	5830413P05Rik|FIM|MYM|RAMP|SCLL|Zfp198|Znf198	zinc finger, MYM-type 2	protein-coding	19.0	27.5	23.0	149.5	95.5	26.0	21.5	40.5
Merged-chr12-51768885-4	chr12	51768752	51768952	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_144788, exon 25 of 43)	exon (NM_144788, exon 25 of 43)	60684.0	NM_144788	207304.0	Mm.249391	NM_144788	ENSMUSG00000035247	Hectd1	A630086P08Rik|AI844876|b2b327Clo|opm	HECT domain E3 ubiquitin protein ligase 1	protein-coding	29.5	36.0	27.5	651.0	72.5	19.0	25.5	16.0
Merged-chr6-39415986-4	chr6	39415864	39416064	+	917.2708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018810, intron 1 of 7)	B3|SINE|B2	3812.0	NM_001311109	54484.0	Mm.270484	NM_018810	ENSMUSG00000029922	Mkrn1	RFP	makorin, ring finger protein, 1	protein-coding	13.5	21.0	6.0	171.5	53.0	11.5	17.0	16.5
Merged-chr2-164787206-4	chr2	164787106	164787306	+	892.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133924, intron 2 of 2)	MIR|SINE|MIR	1185.0	NM_133924	101113.0	Mm.295647	NM_133924	ENSMUSG00000050373	Snx21	5730407K14Rik|AI481716	sorting nexin family member 21	protein-coding	21.5	7.5	18.5	314.0	19.5	4.5	10.0	11.5
Merged-chr1-85736618-4	chr1	85736515	85736715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177055)	promoter-TSS (NM_177055)	-9.0	NM_177055	319997.0	Mm.116691	NM_177055	ENSMUSG00000052760	A630001G21Rik	-	RIKEN cDNA A630001G21 gene	protein-coding	37.0	41.5	24.5	517.5	66.0	23.5	26.5	47.0
Merged-chr2-5592630-4	chr2	5592533	5592733	+	831.583374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290374, intron 1 of 9)	intron (NM_001290374, intron 1 of 9)	83413.0	NM_001290376	227541.0	Mm.191949	NM_177343	ENSMUSG00000039145	Camk1d	A630059D12Rik|CKLiK|CaMKIdelta|E030025C11Rik|mCKLiK	calcium/calmodulin-dependent protein kinase ID	protein-coding	22.5	21.0	21.5	306.5	20.5	8.5	5.5	5.0
Merged-chr4-9669812-2	chr4	9669717	9669917	+	672.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023066)	promoter-TSS (NM_023066)	-473.0	NM_001290367	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	7.0	5.5	6.5	125.5	11.0	3.5	6.5	10.0
Merged-chr8-116267260-2	chr8	116267160	116267360	+	667.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1H1|LTR|ERVL-MaLR	-237755.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	1.5	5.5	2.0	59.0	7.0	9.5	8.0	7.5
Merged-chr11-111093163-4	chr11	111093073	111093273	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27009.0	NM_008425	16518.0	Mm.4951	NM_008425	ENSMUSG00000041695	Kcnj2	IRK1|Kcnf1|Kir2.1	potassium inwardly-rectifying channel, subfamily J, member 2	protein-coding	62.0	62.5	40.0	747.5	187.5	58.0	66.5	77.0
Merged-chr4-59626662-1	chr4	59626562	59626762	+	715.333313	f0_c57.idr	intron (NM_001015681, intron 1 of 3)	CpG	451.0	NM_153158	230259.0	Mm.45688	NM_153158	ENSMUSG00000045071	E130308A19Rik	-	RIKEN cDNA E130308A19 gene	protein-coding	11.5	10.5	16.0	104.5	27.0	7.5	12.0	14.5
Merged-chr10-57688181-3	chr10	57688082	57688282	+	878.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039050, intron 2 of 4)	intron (NM_001039050, intron 2 of 4)	37201.0	NM_001190402	18768.0	Mm.262135	NM_008863	ENSMUSG00000019876	Pkib	Pkibeta|Prkacn2	protein kinase inhibitor beta, cAMP dependent, testis specific	protein-coding	7.5	16.0	7.0	235.0	15.0	12.5	10.5	4.5
Merged-chr13-8995392-5	chr13	8995298	8995498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027000, intron 1 of 16)	intron (NM_027000, intron 1 of 16)	614.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	17.0	21.5	8.5	214.0	47.5	19.5	14.5	33.0
Merged-chr14-73449229-2	chr14	73449129	73449329	+	799.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60820.0	NM_026119	67381.0	Mm.282888	NM_026119	ENSMUSG00000022109	Med4	2410046H15Rik|DRIP36|HSPC126|TRAP36|Vdirp|Vdrip	mediator complex subunit 4	protein-coding	1.0	27.0	4.5	39.0	17.0	7.0	6.0	4.5
Merged-chr11-54965398-4	chr11	54965307	54965507	+	973.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRc|SINE|MIR	-2467.0	NM_001271455	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	28.0	37.5	18.0	218.5	71.5	33.5	37.0	12.5
Merged-chr15-6578147-4	chr15	6578024	6578224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1723.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	43.0	65.5	30.0	633.0	92.5	34.5	48.5	20.5
Merged-chr9-90258295-4	chr9	90258190	90258390	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_194334, intron 1 of 12)	intron (NM_194334, intron 1 of 12)	12479.0	NM_194334	67016.0	Mm.335347	NM_194334	ENSMUSG00000037410	Tbc1d2b	1810061M12Rik|AI480956|AV021536|AV023399|AW491493|mKIAA1055	TBC1 domain family, member 2B	protein-coding	88.5	65.0	119.5	1523.5	155.5	52.5	95.5	86.0
Merged-chr1-91494574-4	chr1	91494443	91494643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028718)	promoter-TSS (NM_028718)	-125.0	NM_028718	74019.0	Mm.318430	NM_028718	ENSMUSG00000034292	Traf3ip1	3930402D05Rik|AU041749|MIP-T3	TRAF3 interacting protein 1	protein-coding	52.5	83.0	49.0	1113.5	163.0	42.0	110.5	66.0
Merged-chr1-157285565-4	chr1	157285463	157285663	+	893.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177644, intron 3 of 17)	intron (NM_177644, intron 3 of 17)	-126789.0	NR_027984	69953.0	Mm.286863	NM_027274	ENSMUSG00000049881	2810025M15Rik	AI429618	RIKEN cDNA 2810025M15 gene	ncRNA	17.0	19.5	13.0	394.0	29.0	5.5	12.0	13.0
Merged-chr19-11244420-4	chr19	11244319	11244519	+	958.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045317, intron 1 of 2)	intron (NR_045317, intron 1 of 2)	21732.0	NM_007641	12482.0	Mm.4046	NM_007641	ENSMUSG00000024673	Ms4a1	AA960661|Cd20|Ly-44|Ms4a2	membrane-spanning 4-domains, subfamily A, member 1	protein-coding	41.0	53.0	35.0	565.5	69.5	17.5	34.5	42.0
Merged-chr15-66815589-1	chr15	66815489	66815689	+	541.0	f0_balb.idr	intron (NM_009192, intron 1 of 8)	intron (NM_009192, intron 1 of 8)	16240.0	NM_001029841	20491.0	Mm.7601	NM_009192	ENSMUSG00000022372	Sla	Slap|Slap-1	src-like adaptor	protein-coding	5.5	4.5	5.0	55.0	7.0	4.5	4.0	0.0
Merged-chr4-40757251-2	chr4	40757161	40757361	+	663.5	f0_balb.idr|f0_c57.idr	intron (NM_021535, intron 1 of 11)	intron (NM_021535, intron 1 of 11)	624.0	NM_021535	74255.0	Mm.289929	NM_021535	ENSMUSG00000028409	Smu1	2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	protein-coding	7.5	17.0	8.0	87.0	30.5	8.5	9.0	13.0
Merged-chr3-133545187-4	chr3	133545087	133545287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001346736)	promoter-TSS (NM_001346736)	-797.0	NM_001346736	214133.0	Mm.347816	NM_145989	ENSMUSG00000040943	Tet2	Ayu17-449|E130014J05Rik|mKIAA1546	tet methylcytosine dioxygenase 2	protein-coding	68.5	104.5	105.5	1320.5	168.0	74.5	86.5	107.5
Merged-chr10-96279279-3	chr10	96279166	96279366	+	730.527771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53059.0	NR_110448	74881.0	Mm.410819	NR_110448	ENSMUSG00000112762	4930459C07Rik	-	RIKEN cDNA 4930459C07 gene	ncRNA	9.0	20.5	13.0	89.5	30.5	16.5	6.0	5.0
Merged-chr6-145211727-4	chr6	145211622	145211822	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177222)	promoter-TSS (NM_177222)	575.0	NM_001362057	67636.0	Mm.486359	NM_133688	ENSMUSG00000040370	Etfrf1	4930469P12Rik|AL022899|Ghiso|Lyrm5	electron transfer flavoprotein regulatory factor 1	protein-coding	13.5	19.0	15.5	169.0	33.5	12.5	16.5	25.0
Merged-chr11-69414192-3	chr11	69414113	69414313	+	898.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001017426)	promoter-TSS (NM_001017426)	-538.0	NM_001017426	216850.0	Mm.261201	NM_001017426	ENSMUSG00000018476	Kdm6b	1700064E03Rik|BC038313|Jmjd3|mKIAA0346	KDM1 lysine (K)-specific demethylase 6B	protein-coding	13.0	5.5	6.0	140.0	11.0	7.5	8.5	7.0
Merged-chr8-71381514-4	chr8	71381433	71381633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010150, exon 1 of 4)	5' UTR (NM_010150, exon 1 of 4)	419.0	NM_010150	13864.0	Mm.28989	NM_010150	ENSMUSG00000002393	Nr2f6	AV090102|COUP-TF3|EAR2|Erbal2	nuclear receptor subfamily 2, group F, member 6	protein-coding	45.0	52.0	30.5	286.0	84.5	28.0	43.0	57.5
Merged-chr14-66297518-2	chr14	66297418	66297618	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_038077)	promoter-TSS (NR_038077)	-389.0	NR_038077	69303.0	Mm.352258	NR_038077	ENSMUSG00000085984	1700001G11Rik	-	RIKEN cDNA 1700001G11 gene	ncRNA	7.0	14.5	8.0	95.0	17.0	2.0	6.0	12.5
Merged-chr16-20373000-4	chr16	20372897	20373097	+	974.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013790, intron 16 of 29)	intron (NM_013790, intron 16 of 29)	-47593.0	NM_183158	224044.0	Mm.276400	NM_183158	ENSMUSG00000022818	Cyp2ab1	EG224044|F730023N20	cytochrome P450, family 2, subfamily ab, polypeptide 1	protein-coding	19.5	39.0	39.5	594.5	101.5	32.5	22.0	14.0
Merged-chr16-17807602-4	chr16	17807446	17807646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153790, exon 11 of 11)	exon (NM_153790, exon 11 of 11)	10264.0	NM_153790	224024.0	Mm.194950	NM_153790	ENSMUSG00000012017	Scarf2	NSR1|SREC-II|SRECRP-1|Scatf1|Srec2|SrecII	scavenger receptor class F, member 2	protein-coding	36.5	51.0	52.5	578.0	52.5	28.5	27.0	22.0
Merged-chr9-111086335-3	chr9	111086238	111086438	+	784.472229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28820.0	NM_001302376	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	16.0	26.5	20.0	309.5	4.5	5.0	4.0	4.0
Merged-chr3-126625687-4	chr3	126625596	126625796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	28745.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	60.0	79.5	68.5	1063.0	176.0	51.0	102.0	60.5
Merged-chr5-124050240-4	chr5	124050138	124050338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17978.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	46.5	109.5	73.0	750.0	148.0	42.5	48.5	42.5
Merged-chr5-5184397-4	chr5	5184307	5184507	+	946.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 5 of 14)	L1M4a1|LINE|L1	81661.0	NM_001310448	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	20.5	20.0	33.0	564.0	29.0	12.0	11.5	16.5
Merged-chr2-145391835-3	chr2	145391725	145391925	+	710.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053195, intron 2 of 16)	A-rich|Low_complexity|Low_complexity	149214.0	NM_053195	94249.0	Mm.217171	NM_053195	ENSMUSG00000063873	Slc24a3	NCKX3	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	protein-coding	7.0	8.0	7.0	149.5	7.0	1.5	9.5	9.5
Merged-chr19-56744387-4	chr19	56744298	56744498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22026.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	41.5	58.5	61.0	1056.0	95.5	34.5	63.0	60.0
Merged-chr6-30402280-1	chr6	30402180	30402380	+	984.0	f0_c57.idr	intron (NM_001311087, intron 1 of 8)	CpG	425.0	NM_001311087	76788.0	Mm.277308	NM_029742	ENSMUSG00000029775	Klhdc10	2410127E18Rik|AI593221|mKIAA0265	kelch domain containing 10	protein-coding	15.0	13.5	13.5	138.0	38.0	10.0	22.0	19.0
Merged-chr5-24035118-4	chr5	24034990	24035190	+	947.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4400.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	17.5	16.5	13.5	284.5	44.5	14.0	34.5	12.5
Merged-chr4-147868657-4	chr4	147868544	147868744	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010244)	promoter-TSS (NM_010244)	75.0	NM_001025365	28010.0	Mm.250504	NM_133873	ENSMUSG00000029022	Miip	AA553001|AI853621|D4Wsu114e|IIP45	migration and invasion inhibitory protein	protein-coding	406.5	536.5	441.5	5715.0	972.0	408.0	466.5	397.0
Merged-chr1-36875075-4	chr1	36874997	36875197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018872, intron 3 of 40)	ORR1E|LTR|ERVL-MaLR	64430.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	31.0	59.5	49.0	673.5	85.5	28.5	47.0	33.5
Merged-chr11-73326660-4	chr11	73326556	73326756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2019.0	NM_023113	11484.0	Mm.293574	NM_023113	ENSMUSG00000020774	Aspa	Acy-2|Acy2|nur7	aspartoacylase	protein-coding	194.5	270.0	245.0	2789.0	428.0	143.5	165.5	183.0
Merged-chr7-35056609-4	chr7	35056511	35056711	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009884)	promoter-TSS (NM_009884)	-45.0	NM_009884	12611.0	Mm.273090	NM_009884	ENSMUSG00000056216	Cebpg	C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP	CCAAT/enhancer binding protein (C/EBP), gamma	protein-coding	205.0	267.0	165.5	2458.0	413.5	177.0	213.0	144.5
Merged-chr2-134644191-4	chr2	134644078	134644278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029148)	promoter-TSS (NM_029148)	-57.0	NM_029148	52837.0	Mm.264096	NM_029148	ENSMUSG00000034723	Tmx4	2810417D04Rik|4930500L08Rik|AI843224|AW046784|D2Bwg1356e|Txndc13|mKIAA1162	thioredoxin-related transmembrane protein 4	protein-coding	243.5	348.0	249.0	4524.5	521.5	201.5	273.0	229.5
Merged-chr5-65561294-4	chr5	65561212	65561412	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310618, intron 1 of 4)	RLTR26_Mus|LTR|ERVK	24067.0	NM_001310619	53323.0	Mm.319512	NM_016786	ENSMUSG00000029203	Ube2k	AW492011|D5Ertd601e|E2-25k|HIP-2|Hip2|Hypg|Lig	ubiquitin-conjugating enzyme E2K	protein-coding	24.5	38.0	21.5	560.0	45.0	10.0	20.5	39.0
Merged-chr2-160620228-7	chr2	160620099	160620299	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25698.0	NM_009408	21969.0	Mm.217233	NM_009408	ENSMUSG00000070544	Top1	AI467334|D130064I21Rik|Top-1	topoisomerase (DNA) I	protein-coding	84.5	127.0	97.0	1040.5	203.0	114.5	68.0	111.0
Merged-chr14-30719305-1	chr14	30719205	30719405	+	805.5	f1_balb.idr	intron (NM_001166532, intron 1 of 20)	Lx3A|LINE|L1	3690.0	NM_001166532	54650.0	Mm.294662	NM_019460	ENSMUSG00000006527	Sfmbt1	4930442N21Rik|9330180L21Rik|AA536974|Sfmbt|Smr	Scm-like with four mbt domains 1	protein-coding	7.5	11.0	5.0	57.0	14.0	6.0	6.5	4.0
Merged-chr9-89257208-4	chr9	89257098	89257298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	45814.0	NM_001359993	107885.0	Mm.486274	NM_026829	ENSMUSG00000066442	Mthfs	1110034I12Rik|2310020H23Rik|AI119695	5, 10-methenyltetrahydrofolate synthetase	protein-coding	86.0	146.5	189.5	1588.5	124.5	50.0	64.5	32.0
Merged-chr16-36939321-4	chr16	36939210	36939410	+	994.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008225, intron 3 of 13)	RLTR40|LTR|ERVK	4327.0	NM_008225	15163.0	Mm.4091	NM_008225	ENSMUSG00000022831	Hcls1	AW213261|HS1	hematopoietic cell specific Lyn substrate 1	protein-coding	25.5	32.5	20.5	399.5	44.5	21.0	15.5	16.0
Merged-chr6-128841048-3	chr6	128840961	128841161	+	800.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14746.0	NM_030599	80782.0	Mm.6180	NM_030599	ENSMUSG00000079298	Klrb1b	Klrb1d|Ly55b|Ly55d|NKR-P1B|NKR-P1D|Nkrp1-b|Nkrp1b|Nkrp1d|ly-55b|ly-55d	killer cell lectin-like receptor subfamily B member 1B	protein-coding	4.5	31.5	6.0	24.5	33.0	11.0	5.0	11.5
Merged-chr2-102707522-3	chr2	102707425	102707625	+	796.4111330000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077515, intron 1 of 10)	intron (NM_001077515, intron 1 of 10)	1087.0	NM_001077515	20511.0	Mm.267547	NM_011393	ENSMUSG00000005089	Slc1a2	1700091C19Rik|2900019G14Rik|AI159670|Eaat2|GLT-1|GLT1|MGLT1	solute carrier family 1 (glial high affinity glutamate transporter), member 2	protein-coding	12.0	18.5	8.5	120.0	1.5	2.0	3.5	8.0
Merged-chr3-79591405-4	chr3	79591341	79591541	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026352, exon 1 of 10)	5' UTR (NM_026352, exon 1 of 10)	104.0	NM_026352	67738.0	Mm.295252	NM_026352	ENSMUSG00000027804	Ppid	4930564J03Rik|CYP-40|Ppidl|Ppif	peptidylprolyl isomerase D (cyclophilin D)	protein-coding	65.0	72.5	61.5	720.5	108.5	43.0	45.5	53.5
Merged-chr2-53668789-4	chr2	53668684	53668884	+	891.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx10|LINE|L1	416768.0	NM_023396	67874.0	Mm.27086	NM_023396	ENSMUSG00000075334	Rprm	2410012A13Rik|Reprimo	reprimo, TP53 dependent G2 arrest mediator candidate	protein-coding	17.5	23.0	21.5	463.5	16.5	9.0	15.5	9.5
Merged-chr5-123832474-4	chr5	123832398	123832598	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33018.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	33.0	71.0	53.0	728.0	148.0	78.0	66.5	104.5
Merged-chr1-74379528-10	chr1	74379548	74379748	+	897.133301	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013612, intron 4 of 14)	intron (NM_013612, intron 4 of 14)	4445.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	8.0	2.5	9.0	66.5	33.0	6.5	13.0	9.5
Merged-chr5-112973793-4	chr5	112973697	112973897	+	845.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 2 of 20)	intron (NM_001285806, intron 2 of 20)	41741.0	NM_001285806	320129.0	Mm.285619	NM_177078	ENSMUSG00000042249	Grk3	4833444A01Rik|AI851927|AW551196|Adrbk-2|Adrbk2|Bark-2	G protein-coupled receptor kinase 3	protein-coding	11.5	18.0	11.5	181.5	26.0	8.5	10.0	10.5
Merged-chr9-83441163-4	chr9	83441054	83441254	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027448)	promoter-TSS (NM_027448)	-27.0	NM_029434	75782.0	Mm.199698	NM_027448	ENSMUSG00000032258	Lca5	4930431B11Rik|5730406O13Rik|AV274874|ORF64	Leber congenital amaurosis 5 (human)	protein-coding	169.5	227.5	170.5	3506.5	364.0	141.0	186.0	144.5
Merged-chr2-90542849-4	chr2	90542747	90542947	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008982, intron 1 of 23)	intron (NM_008982, intron 1 of 23)	37800.0	NM_008982	19271.0	Mm.330393	NM_008982	ENSMUSG00000025314	Ptprj	AI450271|BET|Byp|CD148|DEP-1|PTPbeta2|Ptpb2|RPTPJ|Scc-1|Scc1	protein tyrosine phosphatase, receptor type, J	protein-coding	219.0	357.5	187.0	2628.5	437.0	177.5	191.5	159.5
Merged-chr6-42266146-4	chr6	42266032	42266232	+	873.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007610, intron 1 of 10)	intron (NM_007610, intron 1 of 10)	1147.0	NM_007610	12366.0	Mm.3921	NM_007610	ENSMUSG00000029863	Casp2	CASP-2|ICH-1|NEDD-2|Nedd2	caspase 2	protein-coding	10.0	16.0	13.5	305.5	18.5	16.0	6.5	11.5
Merged-chr7-30280912-4	chr7	30280820	30281020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146186)	promoter-TSS (NM_146186)	-499.0	NM_146186	233064.0	Mm.271677	NM_146186	ENSMUSG00000037020	Wdr62	2310038K02Rik|b2b1508Clo	WD repeat domain 62	protein-coding	120.5	162.5	113.0	1401.0	207.5	60.0	67.5	101.5
Merged-chr7-6156183-4	chr7	6156074	6156274	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001013012)	promoter-TSS (NM_001013012)	-203.0	NM_001013012	67109.0	Mm.3254	NM_001013012	ENSMUSG00000046792	Zfp787	2210018M03Rik|Znf787	zinc finger protein 787	protein-coding	181.5	258.0	265.0	2892.5	346.5	156.5	227.5	201.0
Merged-chr8-12756953-4	chr8	12756861	12757061	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001293667)	promoter-TSS (NM_001293667)	-55.0	NM_015804	50770.0	Mm.257837	NM_015804	ENSMUSG00000031441	Atp11a	4930558F19Rik|AU040868|Atpc1h|Ih	ATPase, class VI, type 11A	protein-coding	55.0	67.0	51.5	921.0	105.0	48.0	74.0	40.5
Merged-chr5-138155804-4	chr5	138155703	138155903	+	995.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019747)	promoter-TSS (NM_019747)	-59.0	NM_019747	56314.0	Mm.19274	NM_019747	ENSMUSG00000037007	Zfp113	4732456B05Rik|mKIAA4229	zinc finger protein 113	protein-coding	38.0	28.0	20.0	314.5	51.0	21.5	37.0	15.0
Merged-chr7-135694488-2	chr7	135694388	135694588	+	606.5	f1_balb.idr|f1_c57bl6.idr	exon (NM_001081117, exon 12 of 14)	exon (NM_001081117, exon 12 of 14)	21891.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	4.5	7.5	3.0	36.0	9.0	5.0	5.0	4.5
Merged-chr3-8957031-4	chr3	8956934	8957134	+	997.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009412, intron 1 of 5)	intron (NM_009412, intron 1 of 5)	7112.0	NM_001025262	21985.0	Mm.371590	NM_009412	ENSMUSG00000027506	Tpd52	AI043038|mD52	tumor protein D52	protein-coding	66.0	80.0	65.0	1147.5	106.5	18.0	63.5	40.0
Merged-chr19-3880602-4	chr19	3880498	3880698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271496, intron 3 of 11)	intron (NM_001271496, intron 3 of 11)	24632.0	NM_016921	27060.0	Mm.271689	NM_016921	ENSMUSG00000001750	Tcirg1	ATP6N1C|ATP6a3|Atp6i|OC-116|OPTB1|Stv1|TIRC7|Vph1|oc	T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3	protein-coding	75.0	101.5	66.5	1221.5	183.0	47.0	50.0	63.5
Merged-chr10-112163635-4	chr10	112163486	112163686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310675)	promoter-TSS (NM_001310675)	-35.0	NM_001310675	353025.0	Mm.194428	NM_178278	ENSMUSG00000035694	Caps2	D630005B03Rik	calcyphosphine 2	protein-coding	47.5	36.5	36.0	418.5	34.0	7.0	19.0	18.5
Merged-chr1-173809482-4	chr1	173809388	173809588	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-42569.0	NM_008329	15951.0	Mm.261270	NM_008329	ENSMUSG00000073489	Ifi204	Ifi16|p204	interferon activated gene 204	protein-coding	31.0	62.5	35.5	377.0	31.0	6.5	26.0	14.0
Merged-chr9-14884834-4	chr9	14884755	14884955	+	991.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_176807)	TTS (NM_176807)	19096.0	NM_176807	64931.0	Mm.86738	NM_022888	ENSMUSG00000031933	Izumo1r	0910001L11Rik|C86255|Folbp3|Folr4|Juno	IZUMO1 receptor, JUNO	protein-coding	20.5	18.5	41.5	590.0	50.5	4.5	25.5	35.0
Merged-chr6-113307787-4	chr6	113307684	113307884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001282128, intron 1 of 13)	intron (NM_001282128, intron 1 of 13)	647.0	NM_001282126	78783.0	Mm.356059	NM_030178	ENSMUSG00000001632	Brpf1	4833438B11Rik|4930540D11Rik|Brpf2	bromodomain and PHD finger containing, 1	protein-coding	67.5	113.0	54.5	662.5	154.0	52.0	72.5	57.5
Merged-chr18-20736029-4	chr18	20735948	20736148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019737, intron 1 of 8)	intron (NM_019737, intron 1 of 8)	10356.0	NM_019737	56386.0	Mm.393827	NM_019737	ENSMUSG00000056124	B4galt6	AA536803|AU022389	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6	protein-coding	29.0	64.0	33.5	831.0	127.0	30.0	45.5	48.0
Merged-chr15-96735896-4	chr15	96735832	96736032	+	897.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36204.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	10.5	19.0	13.0	118.0	28.5	12.0	15.0	24.0
Merged-chr17-62576106-4	chr17	62576017	62576217	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	305200.0	NM_207654	13640.0	Mm.7978	NM_010109	ENSMUSG00000048915	Efna5	AL-1|AV158822|EFL-5|Ephrin-A5|Epl7|LERK-7|RAGS	ephrin A5	protein-coding	83.5	106.0	115.5	2036.5	222.0	71.5	121.0	126.5
Merged-chr11-88999430-4	chr11	88999324	88999524	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009546)	promoter-TSS (NM_009546)	21.0	NM_009546	217069.0	Mm.248445	NM_009546	ENSMUSG00000000275	Trim25	AA960166|AL022677|EFP|Zfp147	tripartite motif-containing 25	protein-coding	175.5	287.5	127.5	1985.5	411.5	216.5	198.0	173.5
Merged-chr18-5334394-4	chr18	5334276	5334476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178722)	promoter-TSS (NM_178722)	63.0	NM_178722	240186.0	Mm.118257	NM_178722	ENSMUSG00000050945	Zfp438	9430031G09|9430091M14Rik|B830013J05Rik	zinc finger protein 438	protein-coding	195.5	233.0	174.5	2377.0	545.0	172.0	207.0	179.0
Merged-chr2-132600286-4	chr2	132600181	132600381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033469, intron 1 of 3)	intron (NR_033469, intron 1 of 3)	2085.0	NR_033469	767814.0	Mm.371752	NR_033468	ENSMUSG00000074783	AU019990	-	expressed sequence AU019990	ncRNA	91.0	91.5	33.0	653.5	159.0	31.5	58.0	58.0
Merged-chr1-91250707-2	chr1	91250607	91250807	+	1000.0	f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355764, exon 1 of 11)	5' UTR (NM_001355764, exon 1 of 11)	141.0	NM_001355764	67921.0	Mm.337238	NM_026454	ENSMUSG00000034343	Ube2f	2510010F15Rik|AI851109	ubiquitin-conjugating enzyme E2F (putative)	protein-coding	15.5	44.5	42.5	211.5	61.5	31.5	30.5	33.0
Merged-chr1-175691884-1	chr1	175691784	175691984	+	846.3333130000001	f0_balb.idr	intron (NM_010098, intron 1 of 3)	intron (NM_010098, intron 1 of 3)	748.0	NM_010098	13603.0	Mm.32744	NM_010098	ENSMUSG00000026525	Opn3	ERO|Ecpn	opsin 3	protein-coding	10.0	10.5	11.5	135.5	19.0	5.0	6.0	6.5
Merged-chr3-96938931-4	chr3	96938824	96939024	+	834.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12873.0	NM_008123	14616.0	Mm.258183	NM_008123	ENSMUSG00000049908	Gja8	Aey5|Cnx50|Cx50|Lop10	gap junction protein, alpha 8	protein-coding	7.0	21.0	7.0	91.5	22.0	8.0	6.0	12.5
Merged-chr10-59295804-2	chr10	59295704	59295904	+	800.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27492.0	NM_001316371	18451.0	Mm.2212	NM_011030	ENSMUSG00000019916	P4ha1	AL022634|P4ha	procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha 1 polypeptide	protein-coding	7.0	4.5	1.5	46.5	11.5	7.0	4.5	5.0
Merged-chr11-3182008-1	chr11	3181908	3182108	+	1000.0	f1_balb.idr	intron (NM_030207, intron 4 of 32)	intron (NM_030207, intron 4 of 32)	11455.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	23.5	20.0	58.5	343.5	0.0	0.0	0.5	2.0
Merged-chr11-88949933-2	chr11	88949817	88950017	+	820.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_029023, intron 2 of 12)	intron (NM_029023, intron 2 of 12)	5525.0	NM_029023	74617.0	Mm.34126	NM_029023	ENSMUSG00000000278	Scpep1	2410018F01Rik|4833411K15Rik|AI957256|Risc	serine carboxypeptidase 1	protein-coding	5.0	6.0	0.5	65.0	9.5	5.0	5.5	9.0
Merged-chr8-108704618-7	chr8	108704541	108704741	+	938.8095089999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10003.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	9.0	18.0	16.5	86.5	28.0	7.0	10.0	15.0
Merged-chr7-24175104-4	chr7	24175018	24175218	+	750.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001029933)	promoter-TSS (NM_001029933)	96.0	NM_001029933	232966.0	Mm.435485	NM_001029933	ENSMUSG00000068962	Zfp114	Gm1957|Zfp110	zinc finger protein 114	protein-coding	7.0	13.0	7.0	148.0	9.5	8.5	12.5	10.0
Merged-chr7-80024380-6	chr7	80024284	80024484	+	991.7666630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001146000)	promoter-TSS (NM_001146000)	-430.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	20.0	6.5	14.5	340.5	33.5	17.5	13.0	23.5
Merged-chr10-95279040-3	chr10	95278939	95279139	+	943.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	MTD|LTR|ERVL-MaLR	44670.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	24.0	17.5	14.5	351.5	21.5	3.0	6.5	10.0
Merged-chr12-76551505-3	chr12	76551409	76551609	+	948.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	-3584.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	12.5	25.0	7.5	114.5	28.5	3.0	9.5	22.0
Merged-chr11-113450259-3	chr11	113450154	113450354	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027216, intron 5 of 9)	MTD|LTR|ERVL-MaLR	115561.0	NM_001166503	69806.0	Mm.341021	NM_027216	ENSMUSG00000041654	Slc39a11	1810074D23Rik	solute carrier family 39 (metal ion transporter), member 11	protein-coding	44.5	45.5	40.0	676.5	14.5	5.0	2.0	14.5
Merged-chr1-183803549-4	chr1	183803453	183803653	+	912.908325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151520, intron 2 of 2)	intron (NR_151520, intron 2 of 2)	54576.0	NR_151520	102637191.0	Mm.417076	NR_151520	ENSMUSG00000103305	Gm34068	-	predicted gene, 34068	ncRNA	9.0	21.0	10.5	348.5	81.5	13.5	38.5	36.0
Merged-chr7-45561424-4	chr7	45561333	45561533	+	914.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025330, intron 5 of 8)	B3|SINE|B2	6505.0	NM_025330	66065.0	Mm.285710	NM_025330	ENSMUSG00000030825	Hsd17b14	0610039E24Rik|Dhrs10|retSDR3	hydroxysteroid (17-beta) dehydrogenase 14	protein-coding	10.5	15.0	4.0	154.0	38.0	14.5	12.5	20.0
Merged-chr8-88298164-4	chr8	88298071	88298271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037724, intron 3 of 27)	intron (NM_001037724, intron 3 of 27)	3967.0	NM_001037724	11513.0	Mm.288206	NM_007406	ENSMUSG00000031659	Adcy7	AA407758	adenylate cyclase 7	protein-coding	36.0	62.0	58.0	888.5	85.5	34.0	51.5	46.0
Merged-chr16-38560114-4	chr16	38560019	38560219	+	820.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205286, intron 1 of 8)	ID_B1|SINE|B4	1421.0	NM_001205286	67846.0	Mm.310476	NM_026407	ENSMUSG00000002845	Tmem39a	2610033C09Rik	transmembrane protein 39a	protein-coding	16.0	23.0	9.5	138.5	18.0	11.0	13.0	8.0
Merged-chr1-93013627-3	chr1	93013525	93013725	+	952.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7291.0	NM_177587	208760.0	Mm.235537	NM_177587	ENSMUSG00000045091	Aqp12	AB084104|mAQP12	aquaporin 12	protein-coding	8.0	6.0	10.0	155.0	12.5	5.5	8.5	9.5
Merged-chr8-126695640-4	chr8	126695553	126695753	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-102217.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	32.5	51.5	31.0	246.5	82.0	28.0	29.0	22.0
Merged-chr9-72467720-3	chr9	72467609	72467809	+	919.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009359, intron 10 of 11)	intron (NM_009359, intron 10 of 11)	24250.0	NM_009359	21778.0	Mm.14485	NM_009359	ENSMUSG00000090626	Tex9	Gm19407|tsec-1	testis expressed gene 9	protein-coding	6.5	6.0	4.5	25.0	36.5	10.0	21.5	18.0
Merged-chr4-45940303-6	chr4	45940244	45940444	+	864.819458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198660, intron 30 of 37)	intron (NM_198660, intron 30 of 37)	-24991.0	NM_001290475	100121.0	Mm.275413	NM_146142	ENSMUSG00000035517	Tdrd7	5730495N10Rik|AI447470|PCTAIRE2BP	tudor domain containing 7	protein-coding	7.5	12.0	13.5	44.0	24.5	8.5	10.5	4.5
Merged-chr3-135851796-4	chr3	135851699	135851899	+	888.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026228, intron 3 of 8)	Tigger20a|DNA|TcMar-Tigger	-11530.0	NR_040540	71038.0	Mm.410798	NR_040540	ENSMUSG00000106306	4933401H06Rik	-	RIKEN cDNA 4933401H06 gene	ncRNA	11.0	6.5	5.0	183.5	21.5	3.5	11.0	11.0
Merged-chr2-92059659-4	chr2	92059573	92059773	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-35503.0	NM_011957	26427.0	Mm.10353	NM_011957	ENSMUSG00000027230	Creb3l1	Oasis	cAMP responsive element binding protein 3-like 1	protein-coding	42.0	68.0	40.5	320.0	78.5	32.5	42.5	21.0
Merged-chr13-8985083-4	chr13	8984987	8985187	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027000, intron 10 of 16)	intron (NM_027000, intron 10 of 16)	10925.0	NM_027000	69237.0	Mm.41800	NM_027000	ENSMUSG00000021149	Gtpbp4	2610028C09Rik|Crfg|Gtpbp3|NGB|Nog1	GTP binding protein 4	protein-coding	28.5	36.5	21.0	445.0	121.0	27.5	41.0	46.5
Merged-chr19-47464702-3	chr19	47464621	47464821	+	915.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164717)	promoter-TSS (NM_001164717)	-310.0	NM_008018	14218.0	Mm.127560	NM_008018	ENSMUSG00000053617	Sh3pxd2a	2310014D11Rik|AA589508|AI256723|AI413738|C230050L11|EG329070|Fish|Gm5098|Sh3md1|TSK5|Tks5	SH3 and PX domains 2A	protein-coding	10.5	13.5	23.5	147.5	19.0	7.0	10.0	11.0
Merged-chr19-47651006-1	chr19	47650906	47651106	+	607.0	f0_balb.idr	intron (NM_007732, intron 45 of 52)	intron (NM_007732, intron 45 of 52)	41036.0	NM_007732	12821.0	Mm.1225	NM_007732	ENSMUSG00000025064	Col17a1	BP180|Bpag|Bpag2	collagen, type XVII, alpha 1	protein-coding	7.5	12.5	14.0	12.5	15.5	0.5	3.0	1.0
Merged-chr1-184063182-4	chr1	184063092	184063292	+	716.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022019, intron 2 of 3)	intron (NM_022019, intron 2 of 3)	28811.0	NM_022019	63953.0	Mm.404024	NM_022019	ENSMUSG00000039384	Dusp10	2610306G15Rik|AI158871|MKP-5|MKP5	dual specificity phosphatase 10	protein-coding	10.0	4.5	4.5	128.5	29.5	10.5	4.5	13.0
Merged-chr15-78239657-4	chr15	78239512	78239712	+	877.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5199.0	NM_008677	17972.0	Mm.2068	NM_008677	ENSMUSG00000071715	Ncf4	AI451400|p40phox	neutrophil cytosolic factor 4	protein-coding	15.5	15.0	10.0	160.5	25.5	18.5	7.5	9.5
Merged-chr4-129672617-5	chr4	129672459	129672659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008468, intron 1 of 13)	CpG	208.0	NM_008468	16650.0	Mm.202358	NM_008468	ENSMUSG00000003731	Kpna6	IPOA7|Kpna5|NPI-2	karyopherin (importin) alpha 6	protein-coding	29.0	36.5	50.0	393.0	83.0	20.0	26.5	38.5
Merged-chr4-99120983-4	chr4	99120901	99121101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290636)	promoter-TSS (NM_001290636)	-86.0	NM_026082	67299.0	Mm.260623	NM_026082	ENSMUSG00000028556	Dock7	3110056M06Rik|Gm430	dedicator of cytokinesis 7	protein-coding	86.0	111.5	82.0	1524.0	182.5	60.0	91.0	79.5
Merged-chr2-165453506-4	chr2	165453414	165453614	+	980.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054055, intron 1 of 12)	intron (NM_054055, intron 1 of 12)	19683.0	NM_054055	114644.0	Mm.250738	NM_054055	ENSMUSG00000018459	Slc13a3	NaDC-3|NaDC3|SDCT2	solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 3	protein-coding	35.5	16.5	19.5	403.5	89.0	14.5	36.0	23.0
Merged-chr4-124711088-4	chr4	124710996	124711196	+	950.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-3765.0	NM_029157	75062.0	Mm.25779	NM_029157	ENSMUSG00000028902	Sf3a3	4930512K19Rik|60kDa	splicing factor 3a, subunit 3	protein-coding	22.5	27.0	16.5	206.0	35.0	13.0	12.5	16.5
Merged-chr1-177940660-2	chr1	177940560	177940760	+	552.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-50738.0	NR_155538	545391.0	Mm.442974	NM_001034899	ENSMUSG00000091476	Gm16432	EG545391|EG666250	predicted gene 16432	protein-coding	6.0	4.0	3.0	124.0	10.5	5.0	5.0	8.5
Merged-chr7-34918645-4	chr7	34918538	34918738	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 1 of 14)	intron (NM_008820, intron 1 of 14)	6231.0	NM_008820	18624.0	Mm.69751	NM_008820	ENSMUSG00000063931	Pepd	Pep-4|Pep4|dal	peptidase D	protein-coding	101.5	177.5	107.0	2322.5	236.0	82.5	121.5	80.0
Merged-chr14-62001766-4	chr14	62001657	62001857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	291222.0	NM_173419	239133.0	Mm.127330	NM_173419	ENSMUSG00000048281	Dleu7	BC038059	deleted in lymphocytic leukemia, 7	protein-coding	46.5	55.5	100.0	1399.5	61.0	27.0	36.5	45.0
Merged-chr9-111271736-4	chr9	111271641	111271841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026810)	promoter-TSS (NM_026810)	-104.0	NM_175266	77781.0	Mm.209005	NM_175266	ENSMUSG00000046785	Epm2aip1	A930003G21Rik|mKIAA0766	EPM2A (laforin) interacting protein 1	protein-coding	461.0	796.0	493.0	7386.0	1158.5	497.0	571.0	521.5
Merged-chr7-88279722-4	chr7	88279601	88279801	+	966.491699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009982, intron 1 of 6)	B1_Mus1|SINE|Alu	1616.0	NM_001311790	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	10.5	25.5	17.5	204.5	54.5	12.5	16.5	24.5
Merged-chr9-7914658-1	chr9	7914558	7914758	+	757.0	f0_balb.idr	Intergenic	Intergenic	-41488.0	NM_007464	11796.0	Mm.2026	NM_007464	ENSMUSG00000032000	Birc3	AW107670|Api1|Api2|Birc2|C-IAP2|HIAP2|IAP1|IAP2|MIAP1|MIAP2|MIHB|MIHC|RNF49|cIAP-1|cIAP-2|cIAP1|cIAP2	baculoviral IAP repeat-containing 3	protein-coding	6.0	11.0	11.5	149.5	12.5	5.0	2.0	7.5
Merged-chr8-123805989-3	chr8	123805882	123806082	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009003)	promoter-TSS (NM_009003)	-14.0	NM_009003	19341.0	Mm.9221	NM_009003	ENSMUSG00000019478	Rab4a	AI848268|Rab4	RAB4A, member RAS oncogene family	protein-coding	52.5	38.5	35.5	413.0	6.5	0.5	0.0	1.0
Merged-chr8-24923630-3	chr8	24923518	24923718	+	683.311096	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153397, intron 3 of 21)	intron (NM_153397, intron 3 of 21)	25186.0	NM_001293693	353188.0	Mm.269223	NM_153397	ENSMUSG00000037437	Adam32	-	a disintegrin and metallopeptidase domain 32	protein-coding	7.0	11.5	11.5	124.0	5.0	4.0	6.0	6.5
Merged-chr4-95871366-3	chr4	95871263	95871463	+	745.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113412, intron 14 of 15)	intron (NM_001113412, intron 14 of 15)	95672.0	NR_045777	319247.0	Mm.473527	NM_175680	ENSMUSG00000044125	9530080O11Rik	-	RIKEN cDNA 9530080O11 gene	ncRNA	9.5	7.0	6.5	81.0	29.0	9.0	4.5	8.0
Merged-chr3-52031474-3	chr3	52031382	52031582	+	766.483337	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 1 of 4)	intron (NM_001004176, intron 1 of 4)	73524.0	NM_001004176	433586.0	Mm.234972	NM_001004176	ENSMUSG00000061143	Maml3	AV234550|BC049812|Mam-2|mKIAA1816	mastermind like transcriptional coactivator 3	protein-coding	9.0	9.0	6.0	97.5	13.5	10.0	7.5	6.0
Merged-chr6-54760319-4	chr6	54760195	54760395	+	834.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56621.0	NM_199143	387524.0	Mm.286149	NM_199143	ENSMUSG00000058446	Znrf2	1190002C14Rik|AU044205|D6Ertd365e	zinc and ring finger 2	protein-coding	5.0	14.5	10.0	136.5	22.0	4.0	10.0	12.5
Merged-chr12-69451111-2	chr12	69451001	69451201	+	854.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24449.0	NR_038060	76062.0	Mm.380755	NR_038060	ENSMUSG00000113035	5830428M24Rik	100040862|Gm3007	RIKEN cDNA 5830428M24 gene	ncRNA	0.0	0.5	3.0	0.0	8.0	5.0	6.0	7.0
Merged-chr6-113624048-4	chr6	113623947	113624147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009507)	promoter-TSS (NM_009507)	26.0	NM_009507	22346.0	Mm.29407	NM_009507	ENSMUSG00000033933	Vhl	Vhlh	von Hippel-Lindau tumor suppressor	protein-coding	30.0	82.0	46.5	535.0	137.0	49.0	52.5	36.0
Merged-chr17-15375935-3	chr17	15375795	15375995	+	847.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007865)	promoter-TSS (NM_007865)	-72.0	NM_007865	13388.0	Mm.4875	NM_007865	ENSMUSG00000014773	Dll1	Delta1	delta like canonical Notch ligand 1	protein-coding	5.0	10.0	3.5	48.5	16.0	5.0	8.5	6.0
Merged-chr2-127270173-4	chr2	127270064	127270264	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_139308)	promoter-TSS (NM_139308)	-65.0	NM_139308	99138.0	Mm.41271	NM_139308	ENSMUSG00000027367	Stard7	AI852671|AL022671|AW544915	START domain containing 7	protein-coding	135.0	186.5	104.5	1564.0	285.5	120.5	153.5	130.0
Merged-chr9-32656966-3	chr9	32656850	32657050	+	790.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39092.0	NM_011808	23871.0	Mm.292415	NM_011808	ENSMUSG00000032035	Ets1	AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs	E26 avian leukemia oncogene 1, 5' domain	protein-coding	5.0	15.0	8.0	143.5	8.0	3.0	2.0	3.5
Merged-chr12-80061083-3	chr12	80060988	80061188	+	775.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51925.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	19.0	32.5	6.0	166.0	28.0	11.5	5.0	5.5
Merged-chr3-31100215-4	chr3	31100101	31100301	+	969.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039090, intron 2 of 6)	intron (NM_001039090, intron 2 of 6)	5143.0	NM_001271772	20482.0	Mm.15406	NM_011386	ENSMUSG00000027660	Skil	Skir|SnoN|sno	SKI-like	protein-coding	14.5	70.0	15.5	215.0	71.0	21.5	28.5	27.5
Merged-chr12-112633146-4	chr12	112633065	112633265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 5 of 12)	intron (NM_007421, intron 5 of 12)	-11663.0	NM_001161737	30954.0	Mm.289812	NM_013929	ENSMUSG00000064326	Siva1	CD27bp|Siva	SIVA1, apoptosis-inducing factor	protein-coding	92.5	119.0	72.5	1168.5	166.0	61.5	101.5	62.0
Merged-chr5-130024412-4	chr5	130024318	130024518	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133768)	promoter-TSS (NM_133768)	-37.0	NM_133768	109900.0	Mm.23869	NM_133768	ENSMUSG00000025533	Asl	2510006M18Rik|ASAL	argininosuccinate lyase	protein-coding	115.5	165.0	73.5	1157.0	261.0	116.0	118.0	103.5
Merged-chr1-37998062-4	chr1	37997967	37998167	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198303)	promoter-TSS (NM_198303)	57.0	NM_198303	226982.0	Mm.260943	NM_198303	ENSMUSG00000026083	Eif5b	A030003E17Rik|BC018347|IF2	eukaryotic translation initiation factor 5B	protein-coding	45.0	56.5	40.0	596.0	118.0	31.5	57.5	45.0
Merged-chr1-159201424-4	chr1	159201302	159201502	+	969.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M2|LINE|L1	-30798.0	NM_001360878	26374.0	Mm.328135	NM_011931	ENSMUSG00000040782	Cop1	AI316802|C80879|Rfwd2	COP1, E3 ubiquitin ligase	protein-coding	27.5	25.5	31.0	376.0	41.0	13.5	35.5	20.0
Merged-chr16-23492979-4	chr16	23492874	23493074	+	927.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359083, intron 4 of 10)	MIR3|SINE|MIR	27841.0	NM_008555	17174.0	Mm.1213	NM_008555	ENSMUSG00000022887	Masp1	AW048060|CCPII|Crarf|Masp1/3	mannan-binding lectin serine peptidase 1	protein-coding	19.5	14.5	12.5	273.5	44.5	17.0	15.5	12.0
Merged-chr7-43283380-4	chr7	43283259	43283459	+	893.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29941.0	NM_001357812	69930.0	Mm.45367	NM_027264	ENSMUSG00000012640	Zfp715	2610041B18Rik|mszf15	zinc finger protein 715	protein-coding	14.0	7.0	5.0	149.5	30.5	7.5	17.0	19.0
Merged-chr4-136249944-2	chr4	136249844	136250044	+	854.333374	f1_balb.idr|f1_c57bl6.idr	intron (NM_011542, intron 1 of 10)	intron (NM_011542, intron 1 of 10)	1987.0	NM_011542	21401.0	Mm.112	NM_011542	ENSMUSG00000001604	Tcea3	S-II|SII-K1	transcription elongation factor A (SII), 3	protein-coding	6.0	12.5	2.0	86.0	42.0	6.5	7.5	11.0
Merged-chr18-30365808-4	chr18	30365704	30365904	+	854.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	92939.0	NR_151699	225326.0	Mm.194127	NM_181414	ENSMUSG00000033628	Pik3c3	5330434F23Rik|Vps34	phosphatidylinositol 3-kinase catalytic subunit type 3	protein-coding	12.0	7.0	10.0	301.0	28.0	12.0	20.0	18.0
Merged-chr16-37010556-4	chr16	37010440	37010640	+	970.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1246.0	NM_029977	77782.0	Mm.259114	NM_029977	ENSMUSG00000034206	Polq	A430110D14Rik	polymerase (DNA directed), theta	protein-coding	19.5	19.0	15.5	309.5	40.0	18.0	16.5	33.5
Merged-chr4-132539667-4	chr4	132539577	132539777	+	686.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172400, intron 2 of 8)	intron (NM_172400, intron 2 of 8)	4118.0	NM_172400	68598.0	Mm.29685	NM_172400	ENSMUSG00000054405	Dnajc8	1110021D09Rik|2010009J04Rik|AL024084|AU019262|AU044514	DnaJ heat shock protein family (Hsp40) member C8	protein-coding	6.0	16.5	6.0	95.0	17.0	5.5	8.0	8.0
Merged-chr14-33175332-4	chr14	33175241	33175441	+	995.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 1 of 58)	intron (NM_001146022, intron 1 of 58)	9725.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	28.0	64.5	32.0	526.5	110.0	32.0	21.5	62.0
Merged-chr6-136690246-4	chr6	136690179	136690379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28386.0	NM_025806	66857.0	Mm.3311	NM_025806	ENSMUSG00000030214	Plbd1	1100001H23Rik	phospholipase B domain containing 1	protein-coding	144.0	184.0	146.0	1952.5	343.5	134.5	165.0	140.0
Merged-chr10-9900618-3	chr10	9900527	9900727	+	740.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081344, exon 1 of 26)	exon (NM_001081344, exon 1 of 26)	413.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	6.5	6.0	12.5	172.0	17.0	13.0	15.5	11.0
Merged-chr13-42150097-4	chr13	42150010	42150210	+	947.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007772, intron 3 of 8)	intron (NM_007772, intron 3 of 8)	98089.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	33.0	12.0	52.5	532.5	33.5	18.5	14.5	20.5
Merged-chr2-122234827-4	chr2	122234744	122234944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146126)	promoter-TSS (NM_146126)	5.0	NM_146126	20322.0	Mm.371580	NM_146126	ENSMUSG00000027227	Sord	Sdh-1|Sdh1|Sodh-1	sorbitol dehydrogenase	protein-coding	42.0	40.5	26.5	361.5	73.5	22.0	36.5	33.0
Merged-chr16-13733804-3	chr16	13733688	13733888	+	820.75	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040574, intron 1 of 2)	intron (NR_040574, intron 1 of 2)	-3304.0	NM_011987	26565.0	Mm.4214	NM_011987	ENSMUSG00000022683	Pla2g10	GX sPLA2|PLA2GX|sPLA2-X	phospholipase A2, group X	protein-coding	10.5	6.0	20.0	40.5	8.0	4.0	5.0	5.5
Merged-chr15-64095412-4	chr15	64095293	64095493	+	980.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 26 of 28)	intron (NM_001276461, intron 26 of 28)	-34945.0	NM_001360037	223601.0	Mm.246108	NM_144846	ENSMUSG00000022378	Fam49b	0910001A06Rik|AW122079	family with sequence similarity 49, member B	protein-coding	36.0	24.5	23.0	359.0	51.5	10.5	26.5	28.5
Merged-chr4-129500921-4	chr4	129500821	129501021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	9731.0	NM_001085491	68233.0	Mm.424983	NM_001085491	ENSMUSG00000078554	Fam229a	1700125D06Rik	family with sequence similarity 229, member A	protein-coding	96.0	234.0	106.5	718.0	283.5	125.0	149.0	93.5
Merged-chr19-21785272-4	chr19	21785172	21785372	+	929.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031997, intron 2 of 24)	intron (NM_031997, intron 2 of 24)	6932.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	11.0	19.5	15.5	232.5	33.5	8.5	18.5	17.0
Merged-chr2-166757396-2	chr2	166757296	166757496	+	589.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36371.0	NM_023815	76367.0	Mm.330796	NM_023815	ENSMUSG00000042854	Trp53rkb	2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p	transformation related protein 53 regulating kinase B	protein-coding	5.0	7.5	7.0	72.5	21.5	5.5	1.5	4.5
Merged-chr1-156939866-2	chr1	156939757	156939957	+	899.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001159965)	promoter-TSS (NM_001159965)	-231.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	6.5	10.0	6.5	68.5	16.0	1.5	2.0	11.0
Merged-chr6-92127033-4	chr6	92126901	92127101	+	897.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347342, intron 2 of 14)	intron (NM_001347342, intron 2 of 14)	34568.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	24.5	21.0	5.0	281.0	27.5	4.5	11.5	13.0
Merged-chr11-102408649-4	chr11	102408549	102408749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1132.0	NM_026542	68066.0	Mm.44226	NM_026542	ENSMUSG00000018677	Slc25a39	3010027G13Rik|D11Ertd333e	solute carrier family 25, member 39	protein-coding	196.0	354.5	199.5	2798.5	540.5	216.5	211.5	228.0
Merged-chr7-98360670-1	chr7	98360570	98360770	+	1000.0	f1_balb.idr	intron (NM_001168540, intron 1 of 2)	intron (NM_001168540, intron 1 of 2)	618.0	NM_001168540	244152.0	Mm.25317	NM_001024619	ENSMUSG00000049580	Tsku	9530051K01Rik|E2ig4|Lrrc54|Tsk	tsukushi, small leucine rich proteoglycan	protein-coding	6.5	9.5	14.0	117.0	8.5	8.0	7.0	7.0
Merged-chr2-117959786-2	chr2	117959686	117959886	+	649.666687	f1_balb.idr|f1_c57bl6.idr	intron (NR_126479, intron 8 of 9)	intron (NR_126479, intron 8 of 9)	137858.0	NR_040631	73938.0	Mm.399107	NR_040631	ENSMUSG00000086221	4930412B13Rik	-	RIKEN cDNA 4930412B13 gene	ncRNA	2.0	3.0	1.0	13.5	27.5	7.5	5.0	8.0
Merged-chr2-151563725-3	chr2	151563615	151563815	+	951.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8908.0	NM_145535	228765.0	Mm.32068	NM_145535	ENSMUSG00000027456	Sdcbp2	-	syndecan binding protein (syntenin) 2	protein-coding	15.5	10.5	14.5	258.5	18.0	7.0	1.0	6.5
Merged-chr1-46022459-3	chr1	46022342	46022542	+	904.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_037691, intron 3 of 3)	intron (NR_037691, intron 3 of 3)	7995.0	NR_037690	212225.0	Mm.78540	NM_172504	ENSMUSG00000044457	Stk-ps2	4930509O22|EG212225|Gm4776	serine/threonine kinase 2	pseudo	6.0	14.0	9.5	116.5	13.0	5.0	6.5	12.0
Merged-chr4-53126939-4	chr4	53126834	53127034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 5 of 49)	intron (NM_013454, intron 5 of 49)	32961.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	165.5	313.5	260.0	3147.5	395.0	162.5	187.0	166.5
Merged-chr6-17065101-3	chr6	17065030	17065230	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_207176)	promoter-TSS (NM_207176)	-19.0	NM_207176	21753.0	Mm.436548	NM_011570	ENSMUSG00000029552	Tes	D6Ertd352e|TESS|Tes1|Tes2|testin2	testis derived transcript	protein-coding	8.0	22.0	7.5	307.0	30.0	4.0	8.5	11.5
Merged-chr7-41393399-4	chr7	41393320	41393520	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183167)	promoter-TSS (NM_183167)	-41.0	NM_001199330	233168.0	Mm.379390	NM_183167	ENSMUSG00000056383	AI987944	-	expressed sequence AI987944	protein-coding	96.0	137.0	70.5	1494.0	245.0	91.5	149.5	93.5
Merged-chr19-16457305-2	chr19	16457205	16457405	+	562.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008137, intron 1 of 6)	intron (NM_008137, intron 1 of 6)	21638.0	NM_008137	14675.0	Mm.313181	NM_008137	ENSMUSG00000024697	Gna14	AU023208	guanine nucleotide binding protein, alpha 14	protein-coding	6.0	14.5	6.0	54.0	18.0	1.5	1.5	3.5
Merged-chr19-10577344-4	chr19	10577175	10577375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302218)	promoter-TSS (NM_001302218)	111.0	NM_028411	72982.0	Mm.391194	NM_028411	ENSMUSG00000024666	Tmem138	1700113I01Rik|2900055D14Rik	transmembrane protein 138	protein-coding	29.0	42.0	34.5	298.5	51.0	29.0	23.0	35.5
Merged-chr11-101974344-4	chr11	101974231	101974431	+	782.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028207, exon 3 of 3)	3' UTR (NM_028207, exon 3 of 3)	-7316.0	NM_024449	74499.0	Mm.265602	NM_024449	ENSMUSG00000001494	Sost	5430411E23Rik	sclerostin	protein-coding	10.5	6.0	16.5	290.0	14.5	10.0	9.0	17.0
Merged-chr11-29807572-4	chr11	29807471	29807671	+	872.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146016, intron 17 of 41)	intron (NM_146016, intron 17 of 41)	18097.0	NM_176829	216622.0	Mm.443260	NM_176829	ENSMUSG00000078157	4931440F15Rik	Fem1ab	RIKEN cDNA 4931440F15 gene	protein-coding	11.5	25.0	12.0	250.0	25.5	10.0	9.0	2.5
Merged-chr9-116161148-4	chr9	116161030	116161230	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009371, intron 1 of 7)	intron (NM_009371, intron 1 of 7)	14233.0	NM_009371	21813.0	Mm.172346	NM_009371	ENSMUSG00000032440	Tgfbr2	1110020H15Rik|AU042018|DNIIR|RIIDN|TBR-II|TbetaR-II|TbetaRII	transforming growth factor, beta receptor II	protein-coding	14.0	23.5	27.5	427.0	66.0	21.0	34.0	28.5
Merged-chr16-32798969-4	chr16	32798885	32799085	+	932.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1550.0	NM_001145874	224116.0	Mm.153301	NM_146071	ENSMUSG00000035638	Muc20	BC026367	mucin 20	protein-coding	15.5	36.5	24.0	90.5	45.0	22.0	30.5	14.5
Merged-chr2-153111568-4	chr2	153111489	153111689	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	Tigger7|DNA|TcMar-Tigger	3121.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	75.5	174.0	79.0	761.0	151.0	57.5	65.0	48.5
Merged-chr16-3699484-4	chr16	3699386	3699586	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18638.0	NM_001161790	54483.0	Mm.143718	NM_019453	ENSMUSG00000022534	Mefv	FMF|TRIM20|pyrin	Mediterranean fever	protein-coding	48.5	61.5	46.0	631.5	181.0	65.5	76.5	63.0
Merged-chr12-8313921-4	chr12	8313807	8314007	+	891.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_021429, intron 1 of 6)	intron (NM_021429, intron 1 of 6)	474.0	NM_021429	58240.0	Mm.309954	NM_021429	ENSMUSG00000020605	Hs1bp3	-	HCLS1 binding protein 3	protein-coding	14.5	20.0	18.0	282.5	24.0	10.5	22.5	8.5
Merged-chr13-73459367-4	chr13	73459337	73459537	+	839.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7946.0	NM_145376	210992.0	Mm.284649	NM_145376	ENSMUSG00000021608	Lpcat1	2900035H07Rik|Aytl2|BB137372|BC005662|C87117|LPCAT|rd11	lysophosphatidylcholine acyltransferase 1	protein-coding	15.5	20.5	7.0	250.0	12.5	4.0	10.0	8.0
Merged-chr2-150609391-4	chr2	150609303	150609503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027977)	promoter-TSS (NM_027977)	-836.0	NM_001356492	71881.0	Mm.26599	NM_027977	ENSMUSG00000033096	Apmap	2310001A20Rik|AI314817	adipocyte plasma membrane associated protein	protein-coding	34.0	34.0	23.0	374.5	52.0	18.5	21.0	26.5
Merged-chr4-9099342-4	chr4	9099246	9099446	+	938.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-169947.0	NM_001355183	74438.0	Mm.473368	NM_028940	ENSMUSG00000041216	Clvs1	4933402J24Rik|Clvl1|Rlbp1l1	clavesin 1	protein-coding	7.0	22.5	10.0	146.0	51.0	18.0	8.5	6.5
Merged-chr6-42352864-2	chr6	42352764	42352964	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001289618, intron 4 of 9)	intron (NM_001289618, intron 4 of 9)	3036.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	16.5	9.0	6.5	39.0	9.0	4.5	4.0	14.0
Merged-chr14-55743911-4	chr14	55743820	55744020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026819, intron 2 of 8)	intron (NM_026819, intron 2 of 8)	1764.0	NM_026819	52585.0	Mm.21623	NM_026819	ENSMUSG00000002332	Dhrs1	1110029G07Rik|AW112170|D14Ertd484e	dehydrogenase/reductase (SDR family) member 1	protein-coding	57.5	72.0	35.5	647.0	137.0	56.0	61.5	66.0
Merged-chr9-109055628-3	chr9	109055478	109055678	+	895.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026381, intron 1 of 3)	intron (NM_026381, intron 1 of 3)	712.0	NM_026381	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	8.5	18.0	4.5	32.0	33.5	10.0	9.5	12.5
Merged-chr1-171501634-3	chr1	171501543	171501743	+	865.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1835.0	NM_019484	56009.0	Mm.389208	NM_019484	ENSMUSG00000060244	Alyref2	C130042O11Rik|REF2|Refbp2	Aly/REF export factor 2	protein-coding	7.5	14.5	6.0	61.0	18.0	5.0	3.5	6.0
Merged-chr6-137387130-4	chr6	137387028	137387228	+	946.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011216, intron 7 of 26)	intron (NM_011216, intron 7 of 26)	-23593.0	NM_001164402	19277.0	Mm.186361	NM_011216	ENSMUSG00000030223	Ptpro	D28|GLEPP1|PTPBK|PTPROt|PTPU2|PTPoc|PTPphi|Ptpn15|R-PTP-O	protein tyrosine phosphatase, receptor type, O	protein-coding	18.5	27.0	13.0	174.0	51.5	15.0	37.0	14.5
Merged-chr5-81107621-4	chr5	81107502	81107702	+	909.366699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198702, intron 2 of 27)	intron (NM_198702, intron 2 of 27)	86009.0	NM_198702	319387.0	Mm.273631	NM_198702	ENSMUSG00000037605	Adgrl3	5430402I23Rik|CIRL-3|D130075K09Rik|Gm1379|LEC3|Lphn3|mKIAA0768	adhesion G protein-coupled receptor L3	protein-coding	21.5	16.5	26.0	442.0	49.0	10.0	22.5	13.5
Merged-chr15-96712226-4	chr15	96712100	96712300	+	986.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12472.0	NM_175121	67760.0	Mm.46754	NM_175121	ENSMUSG00000022462	Slc38a2	5033402L14Rik|AI316867|ATA2|SAT2|mKIAA1382	solute carrier family 38, member 2	protein-coding	23.5	39.5	20.5	409.5	83.0	8.0	39.0	28.0
Merged-chr19-5713720-4	chr19	5713624	5713824	+	972.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114595, intron 11 of 17)	intron (NM_001114595, intron 11 of 17)	9253.0	NM_010609	16530.0	Mm.440033	NM_010609	ENSMUSG00000024936	Kcnk7	2310014G03Rik|Kcnk6|Kcnk8|Knot|Mlk3	potassium channel, subfamily K, member 7	protein-coding	24.0	58.0	14.0	184.0	50.5	27.0	15.0	19.0
Merged-chr16-3956635-3	chr16	3956529	3956729	+	767.355591	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081280, intron 7 of 17)	RMER19B|LTR|ERVK	20003.0	NM_175547	268857.0	Mm.215994	NM_175547	ENSMUSG00000049871	Nlrc3	CLR16.2|D230007K08Rik|mFLJ00348	NLR family, CARD domain containing 3	protein-coding	9.0	16.0	11.5	176.0	10.0	3.5	2.5	3.5
Merged-chr3-19522387-3	chr3	19522283	19522483	+	675.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025489, intron 1 of 4)	intron (NM_025489, intron 1 of 4)	-8864.0	NM_001163537	66326.0	Mm.45615	NM_025489	ENSMUSG00000027606	Dnajc5b	1700008A05Rik	DnaJ heat shock protein family (Hsp40) member C5 beta	protein-coding	2.0	2.5	7.0	72.5	11.5	5.0	7.0	6.5
Merged-chr8-72324494-9	chr8	72324304	72324504	+	873.361084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	5342.0	NM_008452	16598.0	Mm.26938	NM_008452	ENSMUSG00000055148	Klf2	Lklf	Kruppel-like factor 2 (lung)	protein-coding	12.5	11.5	5.0	97.5	17.0	6.5	4.5	8.5
Merged-chr2-45653173-4	chr2	45653087	45653287	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5c|LINE|L1	-43418.0	NR_040497	69405.0	Mm.396184	NR_040497	ENSMUSG00000086202	1700019E08Rik	-	RIKEN cDNA 1700019E08 gene	ncRNA	37.0	48.0	30.5	417.5	79.0	26.5	45.0	46.0
Merged-chr7-46838294-4	chr7	46838171	46838371	+	818.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7533.0	NM_010699	16828.0	Mm.29324	NM_010699	ENSMUSG00000063229	Ldha	Ldh1|Ldhm|l7R2	lactate dehydrogenase A	protein-coding	12.0	7.5	8.0	183.0	18.0	12.0	8.0	7.0
Merged-chr7-67425364-4	chr7	67425269	67425469	+	994.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52511.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	26.0	36.5	24.0	409.0	47.5	19.5	18.5	30.5
Merged-chr2-94002517-2	chr2	94002417	94002617	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_026944, intron 6 of 9)	intron (NM_026944, intron 6 of 9)	8213.0	NM_026944	69113.0	Mm.272498	NM_026944	ENSMUSG00000040174	Alkbh3	1700108H04Rik|1810020C19Rik|Abh3|mABH3	alkB homolog 3, alpha-ketoglutarate-dependent dioxygenase	protein-coding	4.0	3.0	4.0	85.0	8.5	5.5	6.0	9.5
Merged-chr13-38659114-4	chr13	38659008	38659208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025380)	promoter-TSS (NM_025380)	-80.0	NM_025380	66143.0	Mm.490319	NM_025380	ENSMUSG00000001707	Eef1e1	1110003A02Rik	eukaryotic translation elongation factor 1 epsilon 1	protein-coding	192.5	251.5	106.5	2321.0	467.0	166.0	243.0	169.5
Merged-chr16-38763701-4	chr16	38763621	38763821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019804, intron 5 of 6)	intron (NM_019804, intron 5 of 6)	21462.0	NM_001285793	56375.0	Mm.182377	NM_019804	ENSMUSG00000022793	B4galt4	9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4	protein-coding	64.0	39.0	71.0	1428.5	120.5	31.5	76.5	52.5
Merged-chr4-139116439-4	chr4	139116343	139116543	+	752.270813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163006, intron 1 of 3)	intron (NM_001163006, intron 1 of 3)	14594.0	NR_033745	433771.0	Mm.305990	NM_001163006	ENSMUSG00000050608	Minos1	2310028O11Rik	mitochondrial inner membrane organizing system 1	protein-coding	7.0	10.5	8.5	112.5	19.0	4.0	12.0	12.5
Merged-chr5-145167112-4	chr5	145166999	145167199	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133735)	promoter-TSS (NM_133735)	5.0	NM_133735	71799.0	Mm.277413	NM_133735	ENSMUSG00000029624	Ptcd1	1110069M14Rik	pentatricopeptide repeat domain 1	protein-coding	119.0	233.5	103.5	1759.0	331.5	134.0	102.5	174.0
Merged-chr19-12460731-3	chr19	12460625	12460825	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010821)	promoter-TSS (NM_010821)	-54.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	20.0	19.0	17.0	361.0	92.0	14.5	28.0	44.5
Merged-chr13-43777544-4	chr13	43777426	43777626	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-7586.0	NM_009856	12522.0	Mm.57175	NM_009856	ENSMUSG00000015396	Cd83	-	CD83 antigen	protein-coding	108.5	110.5	64.0	1042.5	168.0	56.0	65.5	56.5
Merged-chr8-117371442-4	chr8	117371327	117371527	+	856.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028941, intron 1 of 20)	intron (NM_028941, intron 1 of 20)	22257.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	6.5	7.0	13.0	283.0	29.0	4.0	10.5	8.5
Merged-chr1-180811827-4	chr1	180811723	180811923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008210, exon 2 of 4)	exon (NM_008210, exon 2 of 4)	1782.0	NM_008210	15078.0	Mm.138832	NM_008210	ENSMUSG00000060743	H3f3a	EyeLinc14|H3.3A	H3 histone, family 3A	protein-coding	20.0	34.0	30.0	233.0	98.5	40.5	32.5	44.0
Merged-chr4-148688761-2	chr4	148688665	148688865	+	797.5	f0_balb.idr|f1_balb.idr	Intergenic	B1F2|SINE|Alu	45448.0	NM_001085505	230909.0	Mm.332067	NM_001085505	ENSMUSG00000070577	Gm572	b2b1167Clo	predicted gene 572	protein-coding	9.5	18.0	7.5	76.5	3.0	0.0	0.0	1.0
Merged-chr10-40024872-1	chr10	40024772	40024972	+	577.0	f0_balb.idr	intron (NM_144821, intron 1 of 3)	CpG	396.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	5.5	6.5	9.0	102.0	15.5	2.5	5.5	3.5
Merged-chr1-58677824-5	chr1	58677756	58677956	+	816.599976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347056, intron 5 of 13)	intron (NM_001347056, intron 5 of 13)	14589.0	NM_001347056	108812.0	Mm.442063	NM_175370	ENSMUSG00000047528	Als2cr12	4933405P16Rik|4933425F06Rik	amyotrophic lateral sclerosis 2 chromosome region 12	protein-coding	2.0	11.0	1.5	74.0	13.5	6.0	7.0	5.0
Merged-chr2-124612495-4	chr2	124612444	124612644	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	2248.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	52.5	47.5	150.5	1405.5	268.0	38.0	113.5	122.0
Merged-chr13-23423908-4	chr13	23423820	23424020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013924)	promoter-TSS (NM_013924)	-54.0	NM_013924	30946.0	Mm.292094	NM_013924	ENSMUSG00000036376	Abt1	-	activator of basal transcription 1	protein-coding	69.5	98.0	66.5	904.5	205.5	103.5	80.0	89.0
Merged-chr7-45706078-4	chr7	45705979	45706179	+	943.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016974, intron 1 of 3)	intron (NM_016974, intron 1 of 3)	832.0	NM_016974	13170.0	Mm.24222	NM_016974	ENSMUSG00000059824	Dbp	-	D site albumin promoter binding protein	protein-coding	12.5	8.5	15.0	170.5	45.0	15.0	10.0	26.0
Merged-chr11-4422268-1	chr11	4422168	4422368	+	784.0	f0_balb.idr	intron (NM_029458, intron 5 of 10)	intron (NM_029458, intron 5 of 10)	18814.0	NM_029458	75828.0	Mm.159592	NM_029458	ENSMUSG00000020419	Hormad2	4930529M09Rik	HORMA domain containing 2	protein-coding	11.0	22.5	6.5	123.5	9.5	11.0	10.0	14.0
Merged-chr2-60881796-2	chr2	60881696	60881896	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001141931)	promoter-TSS (NM_001141931)	-358.0	NM_001141931	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	6.5	10.5	6.0	109.5	14.5	11.5	5.5	6.5
Merged-chr8-33599568-4	chr8	33599446	33599646	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_017374)	promoter-TSS (NM_017374)	-75.0	NM_017374	19053.0	Mm.29301	NM_017374	ENSMUSG00000009630	Ppp2cb	AI115466|D8Ertd766e|PP2Ac	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	protein-coding	94.0	115.5	102.0	1540.5	203.5	70.0	83.5	95.0
Merged-chr7-141562160-4	chr7	141562031	141562231	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_007459)	promoter-TSS (NM_007459)	-49.0	NM_001357068	11772.0	Mm.253090	NM_007459	ENSMUSG00000002957	Ap2a2	2410074K14Rik|AF006990|AW146353|Adtab|C78001|L25	adaptor-related protein complex 2, alpha 2 subunit	protein-coding	150.5	248.5	161.5	2016.5	336.5	128.5	166.5	127.0
Merged-chr13-103900192-4	chr13	103900098	103900298	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005868, intron 1 of 26)	B4A|SINE|B4	20388.0	NM_001289473	59079.0	Mm.277354	NM_021563	ENSMUSG00000021709	Erbin	1700028E05Rik|Erbb2ip|mKIAA1225	Erbb2 interacting protein	protein-coding	27.0	26.5	34.5	781.5	71.5	19.0	35.0	21.5
Merged-chr13-38010264-4	chr13	38010175	38010375	+	951.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027724, intron 11 of 12)	intron (NM_027724, intron 11 of 12)	-16067.0	NM_001360842	107513.0	Mm.426670	NM_025965	ENSMUSG00000021427	Ssr1	2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA	signal sequence receptor, alpha	protein-coding	8.5	13.0	27.5	219.5	19.5	16.0	29.0	19.0
Merged-chr4-59368318-4	chr4	59368202	59368402	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163288, intron 9 of 16)	intron (NM_001163288, intron 9 of 16)	70331.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	20.5	22.5	31.0	401.5	37.0	17.5	11.0	14.0
Merged-chr3-22090037-3	chr3	22089960	22090160	+	903.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	13408.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	6.0	5.5	7.0	117.0	20.5	6.0	3.0	5.0
Merged-chr17-88064146-4	chr17	88064039	88064239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081034, intron 1 of 22)	intron (NM_001081034, intron 1 of 22)	793.0	NM_001348248	225055.0	Mm.386857	NM_001081034	ENSMUSG00000005371	Fbxo11	C80048|Jf	F-box protein 11	protein-coding	25.0	17.0	21.0	368.0	39.0	18.5	29.5	33.0
Merged-chr10-61452916-4	chr10	61452814	61453014	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010124)	promoter-TSS (NM_010124)	-245.0	NM_010124	13688.0	Mm.259516	NM_010124	ENSMUSG00000020091	Eif4ebp2	2810011I19Rik|4E-BP2|AA792569|BC010348|PHAS-II	eukaryotic translation initiation factor 4E binding protein 2	protein-coding	317.0	430.0	291.5	3603.0	735.0	298.0	319.5	233.0
Merged-chr11-101641474-4	chr11	101641380	101641580	+	844.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	13531.0	NM_025654	66599.0	Mm.41449	NM_025654	ENSMUSG00000010362	Rdm1	2410008M22Rik|AW212028|Rad52b	RAD52 motif 1	protein-coding	5.0	11.0	8.0	36.5	18.5	7.5	15.0	3.0
Merged-chr8-75214452-2	chr8	75214349	75214549	+	572.0	f0_balb.idr|f1_balb.idr	intron (NM_029182, intron 1 of 2)	intron (NM_029182, intron 1 of 2)	505.0	NM_029182	75141.0	Mm.179267	NM_029182	ENSMUSG00000034472	Rasd2	4930526B11Rik|AU045414|Rhes|TEM-2|TEM2	RASD family, member 2	protein-coding	6.0	9.0	11.0	85.5	2.5	0.0	2.0	4.0
Merged-chr17-35779168-3	chr17	35779077	35779277	+	847.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045459, intron 2 of 2)	intron (NR_045459, intron 2 of 2)	6727.0	NR_045459	74601.0	Mm.410840	NR_045459	ENSMUSG00000092171	4833427F10Rik	-	RIKEN cDNA 4833427F10 gene	ncRNA	3.5	0.5	1.5	103.0	23.0	4.5	18.0	10.0
Merged-chr11-49901752-4	chr11	49901637	49901837	+	997.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347462)	promoter-TSS (NM_001347462)	-98.0	NM_029004	74563.0	Mm.258798	NM_029004	ENSMUSG00000020374	Rasgef1c	9130006A14Rik	RasGEF domain family, member 1C	protein-coding	13.5	29.5	17.5	190.5	38.0	15.0	22.5	19.0
Merged-chr12-112588689-4	chr12	112588595	112588795	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198411)	promoter-TSS (NM_198411)	-89.0	NM_198411	70435.0	Mm.250193	NM_198411	ENSMUSG00000037679	Inf2	2610204M08Rik|AA589465|AW125550|EG629699	inverted formin, FH2 and WH2 domain containing	protein-coding	49.0	78.0	46.0	423.5	104.0	48.0	33.0	28.0
Merged-chr10-81320745-4	chr10	81320617	81320817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027381)	promoter-TSS (NM_027381)	-386.0	NM_027381	70312.0	Mm.87628	NM_027381	ENSMUSG00000034889	Cactin	2510012J08Rik	cactin, spliceosome C complex subunit	protein-coding	282.5	487.5	300.5	4401.5	816.0	349.5	453.5	358.5
Merged-chr7-127165801-4	chr7	127165709	127165909	+	904.4791869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27986.0	NM_001037810	20737.0	Mm.283714	NM_009259	ENSMUSG00000051457	Spn	A630014B01Rik|Cd43|Galgp|Ly-48|Ly48	sialophorin	protein-coding	11.5	19.0	11.0	169.0	51.5	19.5	20.5	31.5
Merged-chr16-30943506-4	chr16	30943394	30943594	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	137938.0	NM_198626	268880.0	Mm.286693	NM_198626	ENSMUSG00000047434	Xxylt1	AI480653	xyloside xylosyltransferase 1	protein-coding	17.5	25.5	21.0	331.0	46.5	29.5	19.0	21.0
Merged-chr7-38106884-3	chr7	38106754	38106954	+	883.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007633, intron 1 of 11)	intron (NM_007633, intron 1 of 11)	636.0	NM_007633	12447.0	Mm.16110	NM_007633	ENSMUSG00000002068	Ccne1	AW538188|CycE1	cyclin E1	protein-coding	2.0	6.5	8.5	83.5	22.5	12.0	14.5	12.5
Merged-chr9-56118698-4	chr9	56118575	56118775	+	834.71875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011193, intron 3 of 14)	intron (NM_011193, intron 3 of 14)	28699.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	7.5	16.5	3.0	110.0	37.0	19.0	12.0	13.0
Merged-chr1-156469445-3	chr1	156469343	156469543	+	828.611084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	intron (NM_009230, intron 1 of 15)	4885.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	2.5	2.5	7.0	45.5	21.0	12.0	24.0	21.0
Merged-chr3-88686266-1	chr3	88686166	88686366	+	573.0	f0_c57.idr	intron (NR_151827, intron 1 of 13)	CpG	479.0	NR_151827	74200.0	Mm.251800	NM_028814	ENSMUSG00000028060	2810403A07Rik	A430106P18Rik|AI256352|AI451678|Blom7|Khdc4|Kiaa0907	RIKEN cDNA 2810403A07 gene	protein-coding	14.0	16.0	3.5	155.5	25.0	9.5	8.5	26.5
Merged-chr18-32407483-4	chr18	32407330	32407530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360876, intron 2 of 17)	intron (NM_001360876, intron 2 of 17)	-29146.0	NR_045403	402767.0	Mm.385109	NR_045403	ENSMUSG00000097413	A830052D11Rik	-	RIKEN cDNA A830052D11 gene	ncRNA	136.5	147.5	160.0	2439.5	314.0	120.5	194.5	170.0
Merged-chr12-103347165-1	chr12	103347065	103347265	+	943.0	f0_c57.idr	intron (NM_023049, intron 1 of 9)	intron (NM_023049, intron 1 of 9)	8836.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	27.0	9.0	16.5	367.0	59.0	16.0	23.5	10.0
Merged-chr7-19888037-3	chr7	19887948	19888148	+	785.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177036)	promoter-TSS (NM_177036)	-83.0	NM_177036	319930.0	Mm.215839	NM_177036	ENSMUSG00000049848	Ceacam19	C130022P09Rik|CEAL1	carcinoembryonic antigen-related cell adhesion molecule 19	protein-coding	8.5	15.0	8.5	103.0	13.0	5.5	10.5	8.5
Merged-chr7-28825165-4	chr7	28825039	28825239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016772)	promoter-TSS (NM_016772)	-199.0	NM_016772	51798.0	Mm.291776	NM_016772	ENSMUSG00000053898	Ech1	AA617331	enoyl coenzyme A hydratase 1, peroxisomal	protein-coding	89.5	86.0	80.0	1329.0	120.5	59.5	66.0	62.0
Merged-chr14-75192946-4	chr14	75192839	75193039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	-49348.0	NM_019775	56373.0	Mm.24242	NM_019775	ENSMUSG00000021999	Cpb2	1110032P04Rik|4930405E17Rik|AI255929|CPR|Cpu|TAFI	carboxypeptidase B2 (plasma)	protein-coding	57.5	128.0	38.5	303.0	183.0	36.0	38.0	46.5
Merged-chr10-20104642-4	chr10	20104470	20104670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008580, intron 18 of 29)	intron (NM_008580, intron 18 of 29)	-44350.0	NM_008635	17761.0	Mm.20928	NM_008635	ENSMUSG00000019996	Map7	E-MAP-115|MAP-7|Mtap7|R75000|mshi|mste|ste	microtubule-associated protein 7	protein-coding	190.5	265.5	136.0	2161.0	402.0	177.5	144.5	125.5
Merged-chr2-37431279-4	chr2	37431179	37431379	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146253)	promoter-TSS (NM_146253)	-360.0	NM_146253	241322.0	Mm.330182	NM_146253	ENSMUSG00000066798	Zbtb6	A830092L04Rik|ZID|Zfp482	zinc finger and BTB domain containing 6	protein-coding	38.5	40.0	36.0	387.5	45.0	31.0	24.5	28.0
Merged-chr13-94788983-4	chr13	94788915	94789115	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009321)	promoter-TSS (NM_009321)	72.0	NM_009321	21371.0	Mm.379025	NM_009321	ENSMUSG00000042043	Tbca	Tbca13	tubulin cofactor A	protein-coding	45.5	82.0	82.0	622.5	89.5	46.5	46.5	45.0
Merged-chr1-128832694-4	chr1	128832584	128832784	+	918.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CAAAG)n|Simple_repeat|Simple_repeat	-240385.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	10.5	30.5	6.0	215.5	30.0	10.0	13.5	9.5
Merged-chr6-108876203-4	chr6	108876100	108876300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	47559.0	NM_138677	192193.0	Mm.21596	NM_138677	ENSMUSG00000030104	Edem1	A130059K23Rik|EDEM|mKIAA0212	ER degradation enhancer, mannosidase alpha-like 1	protein-coding	30.0	43.0	20.0	208.0	37.0	7.0	17.0	6.0
Merged-chr6-121336316-2	chr6	121336216	121336416	+	641.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_144512, intron 13 of 14)	intron (NM_144512, intron 13 of 14)	-6760.0	NM_001347433	14411.0	Mm.274506	NM_133661	ENSMUSG00000030109	Slc6a12	BGT1|GAT-2|GAT2|Gabt2	solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12	protein-coding	3.5	2.0	1.5	28.0	19.0	4.5	4.5	9.0
Merged-chr16-90222449-6	chr16	90222362	90222562	+	985.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011434, intron 1 of 4)	intron (NM_011434, intron 1 of 4)	1720.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	18.5	17.0	32.0	365.0	56.5	12.5	28.0	22.5
Merged-chr16-15889683-1	chr16	15889583	15889783	+	546.0	f0_c57.idr	TTS (NM_007679)	TTS (NM_007679)	2397.0	NM_007679	12609.0	Mm.347407	NM_007679	ENSMUSG00000071637	Cebpd	c/EBPdelta	CCAAT/enhancer binding protein (C/EBP), delta	protein-coding	8.5	3.5	9.5	57.0	24.0	8.5	10.0	5.5
Merged-chr5-99977773-9	chr5	99977516	99977716	+	865.074097	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077265, intron 1 of 8)	intron (NM_001077265, intron 1 of 8)	1322.0	NM_001077266	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	8.5	14.5	3.5	59.0	14.0	7.5	6.5	7.5
Merged-chr7-19920617-4	chr7	19920500	19920700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027514, intron 1 of 7)	intron (NM_027514, intron 1 of 7)	543.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	22.5	54.5	23.5	380.0	76.5	31.0	31.5	35.0
Merged-chr12-91676111-4	chr12	91676009	91676209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 4 of 6)	intron (NM_175367, intron 4 of 6)	-85622.0	NM_175335	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	25.5	54.0	36.0	541.0	72.5	23.5	29.0	25.0
Merged-chr13-41248294-2	chr13	41248194	41248394	+	686.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-1550.0	NM_001135577	108934.0	Mm.38578	NM_001135577	ENSMUSG00000091264	Smim13	2900036K02Rik	small integral membrane protein 13	protein-coding	8.5	9.0	10.5	75.0	10.0	3.0	3.5	6.5
Merged-chr15-78900697-4	chr15	78900584	78900784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316685, intron 1 of 17)	intron (NM_001316685, intron 1 of 17)	916.0	NM_009164	20401.0	Mm.4462	NM_009164	ENSMUSG00000022436	Sh3bp1	3BP-1	SH3-domain binding protein 1	protein-coding	29.5	42.0	41.0	374.0	54.0	33.0	21.0	29.5
Merged-chr7-83632440-2	chr7	83632363	83632563	+	984.0	f0_c57.idr|f1_balb.idr	intron (NM_023377, intron 1 of 5)	intron (NM_023377, intron 1 of 5)	446.0	NM_023377	170460.0	Mm.357953	NM_023377	ENSMUSG00000046027	Stard5	2310058G22Rik|AI607880|D7Ertd152e	StAR-related lipid transfer (START) domain containing 5	protein-coding	15.5	14.0	15.0	192.0	28.5	7.0	14.0	7.5
Merged-chr9-120776758-4	chr9	120776638	120776838	+	918.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	138512.0	NR_040742	76402.0	Mm.436588	NR_040742	ENSMUSG00000100146	1700020M21Rik	-	RIKEN cDNA 1700020M21 gene	ncRNA	146.5	188.5	105.0	955.0	45.5	7.5	11.0	13.5
Merged-chr4-150188425-1	chr4	150188325	150188525	+	568.0	f0_balb.idr	intron (NM_009802, intron 7 of 7)	B4A|SINE|B4	12710.0	NM_009802	12353.0	Mm.232523	NM_009802	ENSMUSG00000028972	Car6	Ca6|DOC1	carbonic anhydrase 6	protein-coding	6.0	9.5	8.0	59.5	1.0	0.0	0.0	2.5
Merged-chr16-93914449-4	chr16	93914389	93914589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15078.0	NM_001165925	56173.0	Mm.328716	NM_019500	ENSMUSG00000047109	Cldn14	AI851731	claudin 14	protein-coding	45.5	75.0	30.0	338.5	368.5	101.0	140.0	105.5
Merged-chr5-115272906-4	chr5	115272800	115273000	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016698)	promoter-TSS (NM_016698)	-5.0	NM_001302449	50849.0	Mm.30051	NM_016698	ENSMUSG00000041740	Rnf10	AA675014|RIE2|mKIAA0262	ring finger protein 10	protein-coding	62.5	96.0	45.5	692.0	200.5	86.0	60.5	85.0
Merged-chr17-27038447-4	chr17	27038347	27038547	+	953.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9188.0	NM_027544	70772.0	Mm.440437	NM_027544	ENSMUSG00000048731	Ggnbp1	0610031G08Rik|mdf	gametogenetin binding protein 1	protein-coding	13.0	7.0	11.0	125.0	149.0	65.0	52.0	61.0
Merged-chr14-121378457-4	chr14	121378362	121378562	+	974.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145465, intron 1 of 10)	CpG	768.0	NM_145465	223255.0	Mm.390756	NM_145465	ENSMUSG00000063410	Stk24	1810013H02Rik|C76483|MST-3|Mst3|STE20	serine/threonine kinase 24	protein-coding	23.5	19.5	24.5	247.0	54.0	12.5	33.0	16.0
Merged-chr2-153345674-4	chr2	153345589	153345789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039939)	promoter-TSS (NM_001039939)	121.0	NR_040318	72326.0	Mm.400102	NR_040318	ENSMUSG00000073236	2500004C02Rik	-	RIKEN cDNA 2500004C02 gene	ncRNA	153.0	220.0	132.5	1477.5	394.5	136.5	182.5	151.0
Merged-chr2-79254985-7	chr2	79254917	79255117	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010576)	promoter-TSS (NM_010576)	-409.0	NM_010576	16401.0	Mm.31903	NM_010576	ENSMUSG00000027009	Itga4	CD49D|Itga4B	integrin alpha 4	protein-coding	148.0	199.5	191.5	1670.5	431.0	129.5	167.5	124.5
Merged-chr11-85786501-2	chr11	85786401	85786601	+	700.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_138681, intron 24 of 25)	intron (NM_138681, intron 24 of 25)	-10821.0	NR_046194	78420.0	Mm.488197	NR_046194	ENSMUSG00000085514	Bcas3os2	9530048J24Rik	breast carcinoma amplified sequence 3 opposite strand 2	ncRNA	5.5	6.5	7.5	40.0	1.5	6.0	4.0	2.5
Merged-chr6-54248494-4	chr6	54248400	54248600	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 6 of 12)	L1MB5|LINE|L1	-16358.0	NM_001311133	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	25.5	32.0	30.0	527.0	33.5	22.0	25.5	38.0
Merged-chr19-40998687-4	chr19	40998593	40998793	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4158.0	NM_008528	17060.0	Mm.9749	NM_008528	ENSMUSG00000061132	Blnk	BASH|Bca|Ly-57|Ly57|Lyw-57|SLP-65	B cell linker	protein-coding	82.5	59.5	69.5	1163.5	106.0	21.5	38.0	44.5
Merged-chr2-25429177-2	chr2	25429077	25429277	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007379, intron 1 of 47)	intron (NM_007379, intron 1 of 47)	503.0	NM_007379	11305.0	Mm.2210	NM_007379	ENSMUSG00000026944	Abca2	AI413825|Abc2|D2H0S1474E|mKIAA1062	ATP-binding cassette, sub-family A (ABC1), member 2	protein-coding	11.5	6.5	17.0	46.0	16.5	4.5	2.5	3.5
Merged-chr2-83744507-4	chr2	83744396	83744596	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008402, intron 2 of 29)	intron (NM_008402, intron 2 of 29)	20099.0	NM_008402	16410.0	Mm.227	NM_008402	ENSMUSG00000027087	Itgav	1110004F14Rik|2610028E01Rik|CD51|D430040G12Rik	integrin alpha V	protein-coding	43.0	65.5	79.0	1354.0	99.5	37.5	30.0	36.0
Merged-chr12-4593028-4	chr12	4592946	4593146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198968)	promoter-TSS (NM_001198968)	38.0	NM_001198968	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	19.5	44.0	16.5	347.0	51.0	16.0	15.5	18.5
Merged-chr19-9976392-4	chr19	9976305	9976505	+	963.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4195.0	NR_073181	14319.0	Mm.1776	NM_010239	ENSMUSG00000024661	Fth1	FHC|Fth|HFt|MFH	ferritin heavy polypeptide 1	protein-coding	19.5	32.5	32.0	497.0	55.5	13.5	24.5	13.0
Merged-chr1-6410152-3	chr1	6410046	6410246	+	763.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	50815.0	NM_001195732	620393.0	Mm.388992	NM_001195732	ENSMUSG00000087247	Alkal1	EG620393|Fam150a	ALK and LTK ligand 1	protein-coding	9.0	4.5	9.0	158.0	7.0	3.0	4.0	10.0
Merged-chr8-106820756-3	chr8	106820649	106820849	+	941.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173037, intron 17 of 17)	B3A|SINE|B2	-49493.0	NM_008217	15118.0	Mm.56986	NM_008217	ENSMUSG00000031910	Has3	-	hyaluronan synthase 3	protein-coding	0.0	0.0	1.0	12.0	94.0	17.0	21.5	26.0
Merged-chr1-58770327-4	chr1	58770236	58770436	+	956.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25038.0	NM_009812	12370.0	Mm.336851	NM_009812	ENSMUSG00000026029	Casp8	CASP-8|FLICE|MACH|Mch5	caspase 8	protein-coding	47.0	44.5	20.5	288.0	54.0	22.0	14.5	18.5
Merged-chr7-19320149-4	chr7	19320039	19320239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-10094.0	NM_001347586	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	260.0	405.0	217.0	3058.5	580.5	241.0	275.0	212.5
Merged-chr3-107754846-4	chr3	107754752	107754952	+	885.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007778, intron 3 of 8)	intron (NM_007778, intron 3 of 8)	5617.0	NM_001113530	12977.0	Mm.795	NM_007778	ENSMUSG00000014599	Csf1	C87615|Csfm|MCSF|op	colony stimulating factor 1 (macrophage)	protein-coding	5.0	10.0	14.0	118.0	31.5	15.0	6.0	11.0
Merged-chr13-47224813-3	chr13	47224730	47224930	+	802.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146042, intron 3 of 7)	intron (NM_146042, intron 3 of 7)	30827.0	NM_001170643	218215.0	Mm.287609	NM_146042	ENSMUSG00000038068	Rnf144b	BC025007|E130105P19Rik|Ibrdc2|Pir2	ring finger protein 144B	protein-coding	13.0	17.5	12.5	149.5	23.0	4.0	4.0	7.5
Merged-chr4-126883748-4	chr4	126883636	126883836	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114399, intron 23 of 29)	intron (NM_001114399, intron 23 of 29)	84187.0	NM_001357201	67785.0	Mm.165401	NM_001114399	ENSMUSG00000042446	Zmym4	6330503C17Rik|AI480785|AW493829|CDIR|D630001M21|MYM|Zfp262|Znf262|mKIAA0425	zinc finger, MYM-type 4	protein-coding	13.5	11.0	14.5	233.5	38.0	11.0	18.5	22.0
Merged-chr7-143052784-4	chr7	143052671	143052871	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133655)	promoter-TSS (NM_133655)	21.0	NM_133655	12520.0	Mm.806	NM_133655	ENSMUSG00000037706	Cd81	Tapa-1|Tapa1|Tspan28	CD81 antigen	protein-coding	70.5	143.5	60.0	766.0	218.0	93.0	93.0	86.0
Merged-chr10-8240857-4	chr10	8240765	8240965	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177387, intron 7 of 7)	intron (NM_177387, intron 7 of 7)	277960.0	NM_177387	338362.0	Mm.41163	NM_177387	ENSMUSG00000047712	Ust	D930010O20Rik|UA2OST	uronyl-2-sulfotransferase	protein-coding	109.5	152.0	95.0	1055.0	207.5	95.5	78.5	80.5
Merged-chr5-5860088-1	chr5	5859988	5860188	+	708.5	f0_balb.idr	Intergenic	RLTR28|LTR|ERVL	-110771.0	NM_027399	70358.0	Mm.85429	NM_027399	ENSMUSG00000015652	Steap1	2410007B19Rik|Prss24|Steap	six transmembrane epithelial antigen of the prostate 1	protein-coding	5.0	12.0	7.5	134.0	6.0	5.5	2.0	5.0
Merged-chr17-87299172-4	chr17	87299076	87299276	+	992.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 3 of 19)	intron (NM_028639, intron 3 of 19)	16290.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	37.5	26.5	43.0	568.5	45.0	14.5	19.0	18.0
Merged-chr18-47368930-3	chr18	47368820	47369020	+	993.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018744)	promoter-TSS (NM_018744)	-50.0	NM_001311097	20358.0	Mm.40909	NM_018744	ENSMUSG00000019647	Sema6a	A730020P05Rik|AI851735|Sema6A-1|Semaq|VIa	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	protein-coding	17.0	26.5	17.5	583.5	14.5	4.5	5.5	4.5
Merged-chr1-13531701-4	chr1	13531586	13531786	+	773.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58224.0	NM_028173	72265.0	Mm.28765	NM_028173	ENSMUSG00000025935	Tram1	1810049E02Rik|TRAMP	translocating chain-associating membrane protein 1	protein-coding	11.0	4.5	9.5	148.0	24.0	10.0	17.0	7.0
Merged-chr9-20644053-3	chr9	20643950	20644150	+	887.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310746)	promoter-TSS (NM_001310746)	714.0	NM_025401	66177.0	Mm.390165	NM_025401	ENSMUSG00000084786	Ubl5	1110030M22Rik|beacon	ubiquitin-like 5	protein-coding	7.0	3.5	7.5	121.0	10.0	7.5	6.5	7.5
Merged-chr1-93825403-4	chr1	93825288	93825488	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310767, exon 1 of 10)	5' UTR (NM_001310767, exon 1 of 10)	148.0	NM_001310767	98314.0	Mm.383401	NM_178882	ENSMUSG00000073609	D2hgdh	AA408776|AA408778|AI325464	D-2-hydroxyglutarate dehydrogenase	protein-coding	87.5	153.0	223.5	1727.5	153.5	89.5	78.0	121.0
Merged-chr11-58953988-3	chr11	58953848	58954048	+	825.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178218)	promoter-TSS (NM_178218)	564.0	NR_134309	382522.0	Mm.377898	NR_134309	ENSMUSG00000080712	Hist3h2bb-ps	4930534G10Rik|4933432H21|B2Hist3h2bb|Hist3h2bb|R75370	histone cluster 3, H2bb, pseudogene	pseudo	11.5	9.0	5.5	63.5	28.0	9.5	6.5	18.0
Merged-chr1-38988664-3	chr1	38988544	38988744	+	794.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026850, intron 1 of 5)	intron (NM_026850, intron 1 of 5)	830.0	NM_026850	68833.0	Mm.28121	NM_026850	ENSMUSG00000026078	Pdcl3	1110061A19Rik|C80025|Viaf1	phosducin-like 3	protein-coding	8.0	8.5	5.5	143.0	10.0	1.0	6.5	8.0
Merged-chr19-21472551-4	chr19	21472456	21472656	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010266, exon 1 of 14)	5' UTR (NM_010266, exon 1 of 14)	105.0	NM_010266	14544.0	Mm.45054	NM_010266	ENSMUSG00000058624	Gda	AU015411|AW047581|GAH	guanine deaminase	protein-coding	29.0	48.5	44.0	617.5	53.0	18.0	32.0	24.5
Merged-chr4-44981448-4	chr4	44981353	44981553	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001312880)	promoter-TSS (NM_001312880)	59.0	NM_001312880	76238.0	Mm.196574	NM_080289	ENSMUSG00000035637	Grhpr	1110059D05Rik|6430629L09Rik|Glxr	glyoxylate reductase/hydroxypyruvate reductase	protein-coding	111.5	140.5	126.5	1381.5	169.5	76.0	67.5	68.0
Merged-chr3-22137971-3	chr3	22137878	22138078	+	774.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	61326.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	9.5	12.0	6.0	134.5	11.0	4.0	9.5	11.0
Merged-chr18-55197418-4	chr18	55197315	55197515	+	998.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-204824.0	NM_001360787	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	15.0	30.5	23.5	520.5	31.5	17.5	18.5	24.5
Merged-chr2-84504480-4	chr2	84504391	84504591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046046, intron 1 of 2)	MTEa|LTR|ERVL-MaLR	2382.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	19.5	22.5	15.5	397.5	165.0	55.0	76.0	62.0
Merged-chr15-58249694-2	chr15	58249594	58249794	+	987.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34802.0	NM_026346	67731.0	Mm.25683	NM_026346	ENSMUSG00000022358	Fbxo32	4833442G10Rik|AI430017|ATROGIN1|Gm20361|MAFbx	F-box protein 32	protein-coding	9.0	13.5	4.0	41.0	20.5	7.0	7.0	9.5
Merged-chr11-3409234-4	chr11	3409133	3409333	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010718)	promoter-TSS (NM_010718)	5.0	NM_010718	16886.0	Mm.124176	NM_010718	ENSMUSG00000020451	Limk2	Limk-2|whe	LIM motif-containing protein kinase 2	protein-coding	44.5	58.0	32.0	676.5	97.0	25.5	49.0	24.5
Merged-chr12-99964561-4	chr12	99964469	99964669	+	978.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146037)	promoter-TSS (NM_146037)	70.0	NM_001164427	217826.0	Mm.312335	NM_146037	ENSMUSG00000045404	Kcnk13	BB085247|F730021E22Rik|Gm1570|Gm1685	potassium channel, subfamily K, member 13	protein-coding	32.0	31.5	38.5	422.0	53.0	13.5	27.5	28.5
Merged-chr10-87718782-4	chr10	87718674	87718874	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-139491.0	NM_001314010	16000.0	Mm.268521	NM_010512	ENSMUSG00000020053	Igf1	C730016P09Rik|Igf-1|Igf-I	insulin-like growth factor 1	protein-coding	34.5	46.0	41.5	639.0	97.5	25.0	55.5	28.0
Merged-chr7-106816002-1	chr7	106815902	106816102	+	562.0	f0_balb.idr	intron (NM_028910, intron 2 of 4)	intron (NM_028910, intron 2 of 4)	1873.0	NM_001360747	66786.0	Mm.159186	NM_028910	ENSMUSG00000036744	Olfr701	4932441H21Rik|4933433E02Rik|MOR283-1	olfactory receptor 701	protein-coding	5.5	7.0	2.5	79.0	14.5	4.5	5.5	10.5
Merged-chr10-40066670-4	chr10	40066559	40066759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114332, intron 3 of 5)	intron (NM_001114332, intron 3 of 5)	-41391.0	NM_144821	215929.0	Mm.55513	NM_144821	ENSMUSG00000038522	Mfsd4b1	AI317395|AI482555|Naglt1a	major facilitator superfamily domain containing 4B1	protein-coding	38.0	46.0	33.0	454.5	48.5	31.0	43.5	22.0
Merged-chr2-112216123-4	chr2	112216014	112216214	+	910.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23727.0	NM_207206	99010.0	Mm.33438	NM_207206	ENSMUSG00000027134	Lpcat4	AI505034|Agpat7|Aytl3|LPEAT2	lysophosphatidylcholine acyltransferase 4	protein-coding	12.0	11.5	11.0	186.5	34.5	7.0	6.5	13.5
Merged-chr12-112678684-4	chr12	112678535	112678735	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001100460)	promoter-TSS (NM_001100460)	-205.0	NM_001100460	382639.0	Mm.11350	NM_001100460	ENSMUSG00000037638	Zbtb42	EG382639|Gm5188|simiRP58	zinc finger and BTB domain containing 42	protein-coding	24.5	32.0	19.5	237.0	39.0	15.5	13.5	14.0
Merged-chr19-4099268-4	chr19	4099175	4099375	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_075078)	promoter-TSS (NR_075078)	-723.0	NR_075078	18739.0	Mm.1860	NM_008851	ENSMUSG00000024851	Pitpnm1	DRES9|Mpt-1|Nir-2|PITPnm 1|Pitpnm|R75447|Rd9|RdgB|RdgB1	phosphatidylinositol transfer protein, membrane-associated 1	protein-coding	30.5	69.5	24.5	394.5	87.0	28.0	25.5	39.5
Merged-chr1-87622022-4	chr1	87621901	87622101	+	986.4500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110192, intron 1 of 26)	intron (NM_001110192, intron 1 of 26)	1689.0	NM_010566	16331.0	Mm.15105	NM_010566	ENSMUSG00000026288	Inpp5d	SHIP|SHIP-1|SHIP1|SIP-145|p150Ship|s-SHIP	inositol polyphosphate-5-phosphatase D	protein-coding	23.0	30.0	27.5	79.0	52.0	21.5	18.5	12.5
Merged-chr12-3891506-4	chr12	3891422	3891622	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153743)	promoter-TSS (NM_153743)	-222.0	NM_153743	13435.0	Mm.5001	NM_007872	ENSMUSG00000020661	Dnmt3a	MmuIIIA	DNA methyltransferase 3A	protein-coding	58.5	68.0	35.0	804.0	91.0	41.5	36.5	36.5
Merged-chr9-35099117-4	chr9	35098947	35099147	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-17681.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	40.5	33.5	28.5	624.0	45.0	21.0	19.0	28.0
Merged-chr17-73034199-1	chr17	73034099	73034299	+	706.0	f0_c57.idr	Intergenic	Intergenic	-73786.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	10.5	9.0	9.5	332.5	29.0	7.0	15.5	9.5
Merged-chr11-49846716-4	chr11	49846605	49846805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163672)	promoter-TSS (NM_001163672)	-46.0	NM_001163671	26420.0	Mm.68933	NM_016961	ENSMUSG00000020366	Mapk9	AI851083|JNK2|Prkm9|p54aSAPK	mitogen-activated protein kinase 9	protein-coding	254.5	379.0	261.0	3619.0	609.5	280.5	285.5	275.5
Merged-chr19-57622017-4	chr19	57621923	57622123	+	951.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181415, intron 1 of 28)	L1ME1|LINE|L1	10989.0	NM_181415	226255.0	Mm.245340	NM_181415	ENSMUSG00000054843	Atrnl1	AI504415|AW555641|Alp|Atrnl|Atrnlp	attractin like 1	protein-coding	42.5	63.5	37.0	590.5	43.5	14.0	14.5	15.5
Merged-chr11-34827992-4	chr11	34827904	34828104	+	999.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027411, intron 2 of 11)	Lx7|LINE|L1	5637.0	NM_027411	70385.0	Mm.194368	NM_027411	ENSMUSG00000069910	Spdl1	1700018I02Rik|2600001J17Rik|2810049B11Rik|AA409762|Ccdc99	spindle apparatus coiled-coil protein 1	protein-coding	27.5	28.5	18.0	390.0	82.5	21.5	20.5	31.5
Merged-chr19-55818143-4	chr19	55818050	55818250	+	894.974976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138565, intron 4 of 15)	intron (NR_138565, intron 4 of 15)	76340.0	NM_001142923	21416.0	Mm.139815	NM_009333	ENSMUSG00000024985	Tcf7l2	TCF4B|TCF4E|Tcf-4|Tcf4	transcription factor 7 like 2, T cell specific, HMG box	protein-coding	20.0	19.5	12.5	288.0	32.5	9.5	13.5	8.0
Merged-chr11-105567401-4	chr11	105567271	105567471	+	892.525024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22615.0	NM_181071	77097.0	Mm.22501	NM_175492	ENSMUSG00000053580	Tanc2	3526402J09Rik|5730590C14Rik	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	protein-coding	6.5	13.0	8.5	246.0	6.5	9.5	19.0	9.5
Merged-chr7-45340813-4	chr7	45340707	45340907	+	929.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029741, intron 27 of 29)	intron (NM_029741, intron 27 of 29)	5538.0	NM_010473	15464.0	Mm.39968	NM_010473	ENSMUSG00000038239	Hrc	-	histidine rich calcium binding protein	protein-coding	13.5	13.0	12.5	172.0	34.0	12.5	14.5	7.5
Merged-chr11-34008687-7	chr11	34008630	34008830	+	947.944458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155520, intron 4 of 4)	intron (NR_155520, intron 4 of 4)	-15537.0	NM_001190886	70357.0	Mm.252514	NM_027398	ENSMUSG00000053519	Kcnip1	KCHIP1|Kchip1.2	Kv channel-interacting protein 1	protein-coding	2.5	4.5	5.0	63.0	38.0	10.0	12.5	13.5
Merged-chr7-98771336-3	chr7	98771218	98771418	+	807.866638	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-63794.0	NM_001285794	22411.0	Mm.22182	NM_009519	ENSMUSG00000015957	Wnt11	-	wingless-type MMTV integration site family, member 11	protein-coding	4.0	3.5	1.0	72.0	29.0	8.0	14.5	14.0
Merged-chr9-109832779-6	chr9	109832645	109832845	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_018757)	promoter-TSS (NM_018757)	-49.0	NM_018757	54369.0	Mm.12951	NM_018757	ENSMUSG00000032478	Nme6	nm23-M6	NME/NM23 nucleoside diphosphate kinase 6	protein-coding	28.0	29.0	20.5	407.0	77.5	46.0	35.5	34.0
Merged-chr17-63931780-4	chr17	63931673	63931873	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037997, intron 7 of 18)	Lx10|LINE|L1	-6199.0	NM_008000	14158.0	Mm.23039	NM_008000	ENSMUSG00000000127	Fer	AV082135|C330004K01Rik|Fert|Fert2	fer (fms/fps related) protein kinase	protein-coding	20.5	29.5	45.5	800.0	127.5	39.5	55.5	60.0
Merged-chr9-37545051-3	chr9	37544951	37545151	+	622.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020518)	TTS (NM_020518)	5796.0	NM_020518	57276.0	Mm.27478	NM_020518	ENSMUSG00000001943	Vsig2	1190004B15Rik|2210413P10Rik|AU040484|CTX|Ctm	V-set and immunoglobulin domain containing 2	protein-coding	10.5	8.5	7.0	101.0	14.5	10.0	6.0	8.5
Merged-chr11-98948541-4	chr11	98948438	98948638	+	974.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177302, intron 2 of 9)	L1MB8|LINE|L1	8827.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	23.0	34.5	21.5	281.5	47.5	12.5	21.5	16.5
Merged-chr12-32693993-3	chr12	32693876	32694076	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR33|LTR|ERVK	-126359.0	NM_021524	59027.0	Mm.202727	NM_021524	ENSMUSG00000020572	Nampt	1110035O14Rik|AI314458|AI480535|NAmPRTase|Pbef|Pbef1|Visfatin	nicotinamide phosphoribosyltransferase	protein-coding	18.5	21.5	17.5	153.5	21.5	13.0	12.0	2.0
Merged-chr3-105803820-4	chr3	105803736	105803936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2455.0	NM_145541	109905.0	Mm.101922	NM_145541	ENSMUSG00000068798	Rap1a	AI848598|G-22K|Krev-1|Rap1	RAS-related protein 1a	protein-coding	138.0	163.5	120.5	1354.5	248.5	119.5	135.5	97.0
Merged-chr16-20424318-4	chr16	20424191	20424391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176839, intron 1 of 6)	intron (NM_176839, intron 1 of 6)	2103.0	NM_013790	27416.0	Mm.20845	NM_013790	ENSMUSG00000022822	Abcc5	2900011L11Rik|AI132311|Abcc5a|Abcc5b|Mrp5	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	protein-coding	46.0	77.0	41.0	597.0	111.0	39.5	40.5	31.5
Merged-chr13-24105499-4	chr13	24105391	24105591	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026825, intron 17 of 37)	MTEa|LTR|ERVL-MaLR	-114277.0	NM_145399	214189.0	Mm.255667	NM_145399	ENSMUSG00000021337	Scgn	-	secretagogin, EF-hand calcium binding protein	protein-coding	128.0	222.0	138.0	2276.5	273.0	118.0	116.0	109.5
Merged-chr5-113772734-4	chr5	113772644	113772844	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016926)	promoter-TSS (NM_016926)	-68.0	NM_025526	66383.0	Mm.29497	NM_025526	ENSMUSG00000025825	Iscu	2310020H20Rik|AA407971|Nifu|Nifun	iron-sulfur cluster assembly enzyme	protein-coding	92.0	155.0	70.0	1021.0	328.5	123.0	137.5	99.0
Merged-chr4-132571378-3	chr4	132571263	132571463	+	584.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081211, intron 1 of 1)	intron (NM_001081211, intron 1 of 1)	7296.0	NM_001081211	19204.0	Mm.89389	NM_001081211	ENSMUSG00000056529	Ptafr	PAFR	platelet-activating factor receptor	protein-coding	6.5	6.0	4.5	107.0	13.5	3.5	3.5	12.0
Merged-chr8-41047451-4	chr8	41047355	41047555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001005863, intron 5 of 13)	intron (NM_001005863, intron 5 of 13)	-5524.0	NM_001005865	102103.0	Mm.149438	NM_001005863	ENSMUSG00000045636	Mtus1	AI481402|ATBP135|Atip1|B430010I23Rik|B430305I03Rik|C85752|Cctsg1-440|MD44|MTSG1|mKIAA1288	mitochondrial tumor suppressor 1	protein-coding	31.5	29.0	30.5	670.0	59.5	18.5	30.5	20.0
Merged-chr11-3663606-4	chr11	3663495	3663695	+	719.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159288, intron 4 of 26)	MERVL_2A-int|LTR|ERVL	4895.0	NM_198162	74522.0	Mm.139127	NM_198162	ENSMUSG00000034543	Morc2a	8430403M08Rik|Zcwcc1	microrchidia 2A	protein-coding	8.5	9.0	2.5	125.5	21.5	5.0	13.5	13.5
Merged-chr14-50784556-4	chr14	50784457	50784657	+	828.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360545, intron 1 of 8)	intron (NM_001360545, intron 1 of 8)	963.0	NM_177625	219022.0	Mm.276362	NM_177625	ENSMUSG00000006288	Ttc5	-	tetratricopeptide repeat domain 5	protein-coding	7.5	12.0	8.5	213.0	19.0	6.5	24.0	13.0
Merged-chr2-30965414-2	chr2	30965314	30965514	+	677.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_144884, intron 2 of 4)	intron (NM_144884, intron 2 of 4)	2504.0	NM_144884	30931.0	Mm.154994	NM_144884	ENSMUSG00000026849	Tor1a	DQ2|Dyt1|torsinA	torsin family 1, member A (torsin A)	protein-coding	5.0	3.0	2.0	45.0	13.0	7.5	5.5	14.0
Merged-chr8-70943419-4	chr8	70943312	70943512	+	904.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MurERV4_19-int|LTR|ERVK	12097.0	NM_001357655	665828.0	Mm.482151	NM_001357655	ENSMUSG00000074252	Gm10654	EG665828	predicted gene 10654	protein-coding	16.5	14.0	6.5	196.5	21.0	5.5	15.5	18.0
Merged-chr13-119462757-4	chr13	119462675	119462875	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113550)	promoter-TSS (NM_001113550)	16.0	NM_001360805	67392.0	Mm.390641	NM_026127	ENSMUSG00000062822	4833420G17Rik	2210017J06Rik|5730533D17Rik|AW107518|C85193	RIKEN cDNA 4833420G17 gene	protein-coding	107.5	139.5	97.0	2131.5	246.0	75.5	114.0	120.0
Merged-chr12-80230200-4	chr12	80230119	80230319	+	829.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134156, intron 1 of 20)	intron (NM_134156, intron 1 of 20)	30152.0	NM_134156	109711.0	Mm.253564	NM_134156	ENSMUSG00000015143	Actn1	3110023F10Rik|Actn1a	actinin, alpha 1	protein-coding	8.0	13.5	19.0	325.0	24.0	5.5	5.0	10.5
Merged-chr14-120830479-4	chr14	120830355	120830555	+	721.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80739.0	NM_023579	70572.0	Mm.221452	NM_023579	ENSMUSG00000030662	Ipo5	1110011C18Rik|5730478E03Rik|AA409333|C76941|IMB3|Kpnb3|Ranbp5|imp5	importin 5	protein-coding	10.0	12.5	6.5	72.0	32.0	1.0	6.0	2.5
Merged-chr10-62505543-3	chr10	62505502	62505702	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358965, intron 2 of 3)	intron (NM_001358965, intron 2 of 3)	2155.0	NM_011157	19073.0	Mm.338790	NM_011157	ENSMUSG00000020077	Srgn	Prg|Prg1|Sgc	serglycin	protein-coding	11.0	20.5	16.0	125.0	15.0	9.0	7.5	10.0
Merged-chr15-64263204-3	chr15	64263107	64263307	+	735.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	49466.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	9.5	8.0	3.5	180.0	16.0	9.0	9.5	22.5
Merged-chr9-107231806-4	chr9	107231707	107231907	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_153413, exon 1 of 53)	5' UTR (NM_153413, exon 1 of 53)	102.0	NM_153413	208869.0	Mm.150259	NM_153413	ENSMUSG00000039716	Dock3	MOCA|PBP|mKIAA0299	dedicator of cyto-kinesis 3	protein-coding	8.0	10.0	19.5	182.0	22.5	11.0	8.0	8.5
Merged-chr9-95575793-4	chr9	95575703	95575903	+	868.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	15986.0	NM_198414	75552.0	Mm.151485	NM_198414	ENSMUSG00000064225	Paqr9	1700020G04Rik	progestin and adipoQ receptor family member IX	protein-coding	9.5	23.5	10.5	131.5	31.0	16.0	14.0	11.0
Merged-chr11-114909162-4	chr11	114909058	114909258	+	963.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	19117.0	NM_170758	217303.0	Mm.294439	NM_170758	ENSMUSG00000034652	Cd300a	B230315M08Rik|Clm8|LMIR1|MAIR-1|MAIR-I|MAIR-Ia|MMAC8|Pigr4|mcpir1	CD300A molecule	protein-coding	14.5	18.5	10.0	261.5	41.5	22.5	20.5	21.0
Merged-chr12-84450503-1	chr12	84450403	84450603	+	870.0	f0_balb.idr	intron (NM_134042, intron 1 of 11)	intron (NM_134042, intron 1 of 11)	521.0	NM_134042	104776.0	Mm.247510	NM_134042	ENSMUSG00000021238	Aldh6a1	1110038I05Rik|Mmsdh	aldehyde dehydrogenase family 6, subfamily A1	protein-coding	10.0	13.0	7.0	147.0	14.5	4.5	8.5	11.0
Merged-chr7-102065278-4	chr7	102065204	102065404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001286689)	promoter-TSS (NM_001286689)	-139.0	NM_001360748	75212.0	Mm.101141	NM_029211	ENSMUSG00000070426	Rnf121	4930544L10Rik	ring finger protein 121	protein-coding	42.5	111.5	75.5	488.5	124.5	46.5	39.0	45.0
Merged-chr11-4258929-4	chr11	4258835	4259035	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008501, intron 1 of 3)	intron (NM_008501, intron 1 of 3)	1367.0	NM_008501	16878.0	Mm.4964	NM_008501	ENSMUSG00000034394	Lif	-	leukemia inhibitory factor	protein-coding	45.5	82.5	50.0	581.5	104.0	44.0	39.5	28.5
Merged-chr10-128779092-4	chr10	128778997	128779197	+	955.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11813.0	NM_001164197	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	18.0	10.5	22.5	636.5	64.5	9.5	34.5	24.0
Merged-chr6-39562383-4	chr6	39562288	39562488	+	857.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4554.0	NM_172477	209773.0	Mm.440021	NM_172477	ENSMUSG00000038456	Dennd2a	B930096L08Rik|C130031G22|mKIAA1277	DENN/MADD domain containing 2A	protein-coding	9.5	13.5	7.5	190.5	39.5	5.5	4.5	10.5
Merged-chr9-25076273-3	chr9	25076192	25076392	+	955.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	75489.0	NM_020586	80517.0	Mm.142843	NM_020586	ENSMUSG00000008429	Herpud2	5031400M07Rik|AB041580	HERPUD family member 2	protein-coding	16.0	17.5	19.0	472.0	17.0	4.0	6.5	8.5
Merged-chr4-149836187-4	chr4	149836100	149836300	+	923.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB7|LINE|L1	-61933.0	NM_027460	70556.0	Mm.41877	NM_027460	ENSMUSG00000028982	Slc25a33	5730438N18Rik|Pnc1	solute carrier family 25, member 33	protein-coding	7.5	7.5	5.5	129.5	39.0	6.5	18.0	6.5
Merged-chr2-30473668-2	chr2	30473568	30473768	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_030244, exon 1 of 1)	exon (NM_030244, exon 1 of 1)	531.0	NM_030244	72500.0	Mm.295464	NM_030244	ENSMUSG00000089762	Ier5l	2610524G09Rik	immediate early response 5-like	protein-coding	3.0	6.5	16.0	108.0	12.0	4.5	5.5	9.0
Merged-chr3-89238512-4	chr3	89238411	89238611	+	930.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039466, intron 7 of 8)	intron (NM_001039466, intron 7 of 8)	6502.0	NR_121683	360213.0	Mm.331156	NM_183037	ENSMUSG00000042766	Trim46	TRIFIC	tripartite motif-containing 46	protein-coding	15.0	21.0	3.0	74.5	43.0	8.5	9.0	14.0
Merged-chr5-107923043-4	chr5	107922939	107923139	+	941.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026062, intron 2 of 4)	intron (NM_026062, intron 2 of 4)	22511.0	NM_016980	100503670.0	Mm.277897	NM_016980	ENSMUSG00000058558	Rpl5	U21RNA	ribosomal protein L5	protein-coding	20.0	17.0	10.5	231.0	43.5	10.0	21.0	15.5
Merged-chr7-49396318-4	chr7	49396211	49396411	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 3 of 37)	intron (NM_175272, intron 3 of 37)	150122.0	NM_175272	78286.0	Mm.333881	NM_175272	ENSMUSG00000052512	Nav2	5330421F07Rik|AU067780|BQ960892|HELAD1|POMFIL2|RAINB1|RAINB2|Unc53H2|mKIAA3015	neuron navigator 2	protein-coding	63.0	84.5	65.5	1030.5	57.5	38.0	29.5	46.5
Merged-chr16-58479177-4	chr16	58479106	58479306	+	998.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 6 of 10)	intron (NM_001357433, intron 6 of 10)	44220.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	19.0	19.5	9.5	294.5	48.5	14.0	30.5	26.0
Merged-chr11-98342764-4	chr11	98342668	98342868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5638.0	NM_144828	19049.0	Mm.45372	NM_144828	ENSMUSG00000061718	Ppp1r1b	AU040756|DARPP-32|Darpp32	protein phosphatase 1, regulatory (inhibitor) subunit 1B	protein-coding	65.5	84.5	21.5	540.5	115.5	46.5	42.0	52.5
Merged-chr18-76242216-4	chr18	76242112	76242312	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010754, intron 1 of 10)	G-rich|Low_complexity|Low_complexity	511.0	NM_010754	17126.0	Mm.152699	NM_010754	ENSMUSG00000024563	Smad2	7120426M23Rik|Madh2|Madr2|Smad-2|mMad2	SMAD family member 2	protein-coding	45.0	52.0	51.0	577.0	85.0	26.0	32.0	34.0
Merged-chr9-74871494-4	chr9	74871384	74871584	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008262, intron 1 of 1)	intron (NM_008262, intron 1 of 1)	9563.0	NM_008262	15379.0	Mm.303355	NM_008262	ENSMUSG00000043013	Onecut1	D9Ertd423e|HNF-6|Hfh12|Hnf6|Hnf6b|OC-1|Oc1	one cut domain, family member 1	protein-coding	32.5	25.0	26.0	465.0	61.5	25.0	51.5	32.0
Merged-chr17-50469277-4	chr17	50469192	50469392	+	914.5208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40255.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	14.5	20.5	15.0	261.5	37.0	14.5	12.0	9.0
Merged-chr5-64810692-4	chr5	64810611	64810811	+	907.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008453, intron 1 of 5)	intron (NM_008453, intron 1 of 5)	7188.0	NM_008453	16599.0	Mm.392759	NM_008453	ENSMUSG00000029178	Klf3	9930027G08Rik|AL024007|Bklf|Tef-2	Kruppel-like factor 3 (basic)	protein-coding	11.0	5.0	8.0	116.5	20.5	15.0	2.5	17.0
Merged-chr15-84246414-4	chr15	84246298	84246498	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133167, intron 1 of 12)	intron (NM_133167, intron 1 of 12)	14355.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	55.0	65.0	35.0	594.5	169.5	43.0	56.0	56.5
Merged-chr5-130172941-2	chr5	130172841	130173041	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001359233, intron 1 of 7)	B1_Mur4|SINE|Alu	1122.0	NM_001359233	56715.0	Mm.288639	NM_019983	ENSMUSG00000025340	Rabgef1	Rab5ef|Rabex5|Rin2	RAB guanine nucleotide exchange factor (GEF) 1	protein-coding	3.5	3.5	3.5	55.5	15.0	6.0	9.0	11.5
Merged-chr8-105297669-4	chr8	105297623	105297823	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_148952)	promoter-TSS (NM_148952)	60.0	NM_148952	104394.0	Mm.34554	NM_148952	ENSMUSG00000014859	E2f4	2010111M04Rik|AI427446	E2F transcription factor 4	protein-coding	76.5	119.5	88.5	994.5	168.0	58.5	72.0	66.0
Merged-chr15-81360476-2	chr15	81360365	81360565	+	1000.0	f0_balb.idr|f0_c57.idr	intron (NM_011399, intron 1 of 8)	intron (NM_011399, intron 1 of 8)	300.0	NM_011399	20524.0	Mm.222536	NM_011399	ENSMUSG00000022404	Slc25a17	34kDa|47kDa|PMP34|Pmp47	solute carrier family 25 (mitochondrial carrier, peroxisomal membrane protein), member 17	protein-coding	19.0	27.0	9.0	57.0	43.0	21.5	11.5	9.0
Merged-chr3-145929756-4	chr3	145929679	145929879	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009740, intron 1 of 2)	intron (NM_009740, intron 1 of 2)	5517.0	NM_009740	12042.0	Mm.239141	NM_009740	ENSMUSG00000028191	Bcl10	AI132454|BCL-10|C81403|CARMEN|CIPER|CLAP|ME10|cE10	B cell leukemia/lymphoma 10	protein-coding	30.5	38.5	37.5	391.0	58.0	25.5	23.5	31.0
Merged-chr15-59412874-4	chr15	59412754	59412954	+	827.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 2 of 4)	intron (NM_001164604, intron 2 of 4)	38656.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	18.5	10.0	14.0	119.0	13.5	6.0	12.0	13.5
Merged-chr19-18687747-3	chr19	18687626	18687826	+	816.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026120, intron 3 of 7)	RSINE1|SINE|B4	16946.0	NM_026120	67383.0	Mm.306602	NM_026120	ENSMUSG00000024726	Carnmt1	2410127L17Rik	carnosine N-methyltransferase 1	protein-coding	4.5	8.0	6.5	123.0	12.0	4.0	6.0	6.0
Merged-chr3-109352870-2	chr3	109352770	109352970	+	774.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 1 of 26)	intron (NM_020505, intron 1 of 26)	12187.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	6.0	7.0	0.5	57.0	9.5	7.5	7.0	10.0
Merged-chr8-121580201-4	chr8	121580102	121580302	+	867.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-1396.0	NM_133765	76454.0	Mm.24829	NM_133765	ENSMUSG00000052934	Fbxo31	1110003O08Rik|2310046N15Rik|Fbx14|Fbxo14	F-box protein 31	protein-coding	6.0	11.0	5.5	101.0	33.0	8.0	14.5	6.5
Merged-chr5-136046131-2	chr5	136046031	136046231	+	624.208374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7635.0	NM_175309	100647.0	Mm.3089	NM_175309	ENSMUSG00000042985	Upk3b	AI447729|AI957187|P35|PMS2L14|UpIIIb	uroplakin 3B	protein-coding	5.5	13.0	2.0	35.0	17.5	7.5	8.5	8.5
Merged-chr4-40948423-4	chr4	40948306	40948506	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009736)	promoter-TSS (NM_009736)	-112.0	NM_001171739	12017.0	Mm.688	NM_009736	ENSMUSG00000028416	Bag1	BAG-1|Rap46	BCL2-associated athanogene 1	protein-coding	298.0	433.0	264.5	3925.0	654.0	320.5	283.0	280.0
Merged-chr2-84531466-4	chr2	84531371	84531571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-24598.0	NR_046046	672763.0	Mm.491046	NR_046046	ENSMUSG00000087362	Gm13710	-	predicted gene 13710	ncRNA	66.0	81.0	70.0	1237.0	110.5	41.5	51.5	55.0
Merged-chr7-137420690-4	chr7	137420543	137420743	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER19B|LTR|ERVK	-9887.0	NM_029886	77252.0	Mm.29184	NM_029886	ENSMUSG00000040139	9430038I01Rik	-	RIKEN cDNA 9430038I01 gene	protein-coding	8.0	5.0	5.5	185.5	22.0	4.0	7.5	9.5
Merged-chr2-25356364-4	chr2	25356264	25356464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_031843)	promoter-TSS (NM_031843)	-32.0	NM_031843	83768.0	Mm.21440	NM_031843	ENSMUSG00000026958	Dpp7	DPPII|Dpp2|QPP	dipeptidylpeptidase 7	protein-coding	45.0	48.5	27.5	464.5	131.5	53.5	34.5	27.0
Merged-chr12-73773099-4	chr12	73772996	73773196	+	934.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 12 of 13)	intron (NM_008856, intron 12 of 13)	-128228.0	NM_001313920	15251.0	Mm.3879	NM_010431	ENSMUSG00000021109	Hif1a	AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78	hypoxia inducible factor 1, alpha subunit	protein-coding	12.0	21.0	3.5	152.0	36.5	5.5	24.0	6.5
Merged-chr18-56707710-4	chr18	56707604	56707804	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010721)	promoter-TSS (NM_010721)	-109.0	NM_010721	16906.0	Mm.4105	NM_010721	ENSMUSG00000024590	Lmnb1	-	lamin B1	protein-coding	108.5	144.5	159.5	1990.5	346.0	139.5	161.5	125.0
Merged-chr15-59799438-3	chr15	59799339	59799539	+	967.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4480.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	7.0	10.5	12.5	210.5	9.5	3.5	5.0	5.5
Merged-chr6-128888944-4	chr6	128888842	128889042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289706, intron 2 of 6)	intron (NM_001289706, intron 2 of 6)	1355.0	NM_001289707	93675.0	Mm.391513	NM_020257	ENSMUSG00000030365	Clec2i	Clr-g|Clrg|Dcl1|LCL-1|OCILrP2	C-type lectin domain family 2, member i	protein-coding	150.0	215.5	122.5	1978.5	305.5	93.0	127.5	78.0
Merged-chr6-89415985-4	chr6	89415856	89416056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001167736, intron 5 of 6)	L2b|LINE|L2	-53343.0	NM_008881	18844.0	Mm.3789	NM_008881	ENSMUSG00000030084	Plxna1	2600013D04Rik|NOV|PlexA1|Plxn1|mKIAA4053	plexin A1	protein-coding	22.0	63.5	49.5	579.0	81.5	35.5	34.0	30.0
Merged-chr2-165233653-3	chr2	165233581	165233781	+	831.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_174988, intron 1 of 11)	CpG	1056.0	NM_174988	104010.0	Mm.151819	NM_174988	ENSMUSG00000053166	Cdh22	-	cadherin 22	protein-coding	8.0	7.5	5.0	68.0	6.0	5.0	6.0	8.5
Merged-chr4-101255229-4	chr4	101255132	101255332	+	859.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146145, intron 1 of 24)	B4A|SINE|B4	10050.0	NM_146145	16451.0	Mm.289657	NM_146145	ENSMUSG00000028530	Jak1	AA960307|BAP004|C130039L05Rik	Janus kinase 1	protein-coding	9.5	6.5	17.0	322.5	42.0	9.0	4.5	15.0
Merged-chr3-82793828-4	chr3	82793724	82793924	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	7SK|RNA|RNA	82659.0	NM_001277170	633285.0	Mm.265114	NM_001146328	ENSMUSG00000033882	Rbm46	EG633285|Gm761	RNA binding motif protein 46	protein-coding	70.5	73.5	94.5	1537.5	155.0	56.5	86.5	75.5
Merged-chr17-27702667-3	chr17	27702592	27702792	+	703.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286743, intron 2 of 9)	CpG	17453.0	NM_178365	23969.0	Mm.4926	NM_011861	ENSMUSG00000040276	Pacsin1	A830061D09Rik|H74|mKIAA1379|syndapin	protein kinase C and casein kinase substrate in neurons 1	protein-coding	6.5	14.5	4.5	48.0	24.0	7.0	7.5	5.5
Merged-chr4-120882330-4	chr4	120882229	120882429	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_182929, intron 3 of 7)	intron (NM_182929, intron 3 of 7)	27530.0	NM_182929	242662.0	Mm.192502	NM_182929	ENSMUSG00000032890	Rims3	A730060M23Rik|Nim3|Rim3|mKIAA0237	regulating synaptic membrane exocytosis 3	protein-coding	35.5	85.0	35.5	272.5	128.5	72.5	50.5	23.5
Merged-chr1-135280860-3	chr1	135280744	135280944	+	683.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159624, intron 1 of 9)	MLTR31A_MM|LTR|ERVK	3240.0	NM_145417	215615.0	Mm.291048	NM_145417	ENSMUSG00000041926	Rnpep	-	arginyl aminopeptidase (aminopeptidase B)	protein-coding	7.0	10.5	10.0	187.5	15.5	2.0	9.5	5.0
Merged-chr13-21721428-3	chr13	21721310	21721510	+	667.399963	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178200)	promoter-TSS (NM_178200)	-634.0	NM_178200	319186.0	Mm.277425	NM_178200	ENSMUSG00000114279	Hist1h2bm	H2b-291b	histone cluster 1, H2bm	protein-coding	7.5	8.5	8.0	80.0	12.5	3.5	7.0	9.0
Merged-chr2-155775783-4	chr2	155775677	155775877	+	898.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010808, intron 1 of 8)	CpG	435.0	NM_010808	17391.0	Mm.389325	NM_010808	ENSMUSG00000027612	Mmp24	AU040325|MMP-21|MT5-MMP|MT5MMP|MTMMP5	matrix metallopeptidase 24	protein-coding	9.0	19.0	4.0	123.5	36.5	5.5	11.5	19.5
Merged-chr11-118153169-4	chr11	118153088	118153288	+	994.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-23969.0	NM_001167746	69926.0	Mm.473893	NM_001167746	ENSMUSG00000033987	Dnah17	2810003K23Rik|Dnahc17|Dnahcl1|Gm1178|mKIAA3028	dynein, axonemal, heavy chain 17	protein-coding	79.5	107.5	102.0	1242.5	46.5	17.0	36.0	17.0
Merged-chr18-23753112-6	chr18	23752973	23753173	+	959.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_126066)	promoter-TSS (NR_126066)	-652.0	NM_001162941	212307.0	Mm.132237	NM_153058	ENSMUSG00000024277	Mapre2	AI314113|C820009F03Rik|D18Abb1e|EB1|EB2|RP1	microtubule-associated protein, RP/EB family, member 2	protein-coding	13.5	11.5	10.5	142.5	29.5	19.5	9.0	21.5
Merged-chr11-31868948-4	chr11	31868874	31869074	+	874.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1966.0	NM_001290676	67579.0	Mm.339792	NM_026252	ENSMUSG00000020300	Cpeb4	Cpe-bp4|Cpeb-4|mCPEB-4	cytoplasmic polyadenylation element binding protein 4	protein-coding	7.5	13.0	7.5	72.0	33.0	14.0	13.5	21.5
Merged-chr4-150087295-4	chr4	150087206	150087406	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177366)	promoter-TSS (NM_177366)	-197.0	NM_177366	269604.0	Mm.219307	NM_177366	ENSMUSG00000047875	Gpr157	F730108M23Rik	G protein-coupled receptor 157	protein-coding	169.5	258.0	217.0	3050.0	418.0	185.0	176.0	179.0
Merged-chr6-54110827-2	chr6	54110726	54110926	+	589.0	f0_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	MIR|SINE|MIR	70894.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	11.0	6.5	10.5	74.0	16.0	4.5	0.5	0.5
Merged-chr9-31145710-4	chr9	31145625	31145825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-13926.0	NM_011176	19143.0	Mm.243926	NM_011176	ENSMUSG00000031995	St14	Epithin|MT-SP1|Prss14|Tmprss14|mCAP3|matriptase	suppression of tumorigenicity 14 (colon carcinoma)	protein-coding	50.0	132.5	69.0	939.5	131.5	47.0	61.0	38.0
Merged-chr1-134202229-4	chr1	134202176	134202376	+	844.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001291930, exon 2 of 2)	3' UTR (NM_001291930, exon 2 of 2)	8828.0	NM_016749	53311.0	Mm.379067	NM_016749	ENSMUSG00000042451	Mybph	AI385643|MyBP-H	myosin binding protein H	protein-coding	10.0	16.5	5.0	63.0	30.5	7.5	12.0	10.0
Merged-chr13-67844306-4	chr13	67844217	67844417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	11587.0	NM_001309373	102637366.0	Mm.121460	NM_001015506	ENSMUSG00000058246	Gm10037	EG328280|Rslcan24	predicted gene 10037	protein-coding	37.5	69.5	28.0	620.5	184.0	78.5	90.0	54.5
Merged-chr13-92741031-3	chr13	92740931	92741131	+	565.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	53787.0	NM_011582	21828.0	Mm.20865	NM_011582	ENSMUSG00000021702	Thbs4	TSP4	thrombospondin 4	protein-coding	4.5	13.5	6.5	53.0	19.5	9.0	9.0	14.0
Merged-chr17-45573904-4	chr17	45573818	45574018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008302)	promoter-TSS (NM_008302)	-657.0	NM_008302	15516.0	Mm.2180	NM_008302	ENSMUSG00000023944	Hsp90ab1	90kDa|AL022974|C81438|Hsp84|Hsp84-1|Hsp90|Hspcb	heat shock protein 90 alpha (cytosolic), class B member 1	protein-coding	46.5	74.5	28.0	708.0	211.0	66.0	71.0	78.0
Merged-chr17-47646869-3	chr17	47646791	47646991	+	950.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198421, intron 1 of 6)	B3|SINE|B2	16201.0	NM_198421	224836.0	Mm.59393	NM_198421	ENSMUSG00000090115	Usp49	C330046L10Rik|Gm545	ubiquitin specific peptidase 49	protein-coding	8.5	19.0	5.0	166.0	27.5	4.5	5.0	11.0
Merged-chr11-99132576-4	chr11	99132474	99132674	+	899.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22503.0	NM_001301713	12775.0	Mm.2932	NM_007719	ENSMUSG00000037944	Ccr7	CC-CKR-7|CCR-7|CD197|Cdw197|Cmkbr7|EBI1|Ebi1h	chemokine (C-C motif) receptor 7	protein-coding	9.5	16.0	16.0	56.0	51.0	8.0	20.5	8.5
Merged-chr11-53809041-4	chr11	53808921	53809121	+	812.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_033332, intron 3 of 3)	intron (NR_033332, intron 3 of 3)	38548.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	5.5	9.0	7.0	79.5	16.5	4.5	5.0	11.0
Merged-chr5-66137424-4	chr5	66137359	66137559	+	994.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001127382, intron 2 of 7)	intron (NM_001127382, intron 2 of 7)	13519.0	NM_001291226	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	15.0	13.0	21.0	383.0	59.5	23.5	18.0	25.0
Merged-chr18-44759233-4	chr18	44759130	44759330	+	981.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001085373, exon 2 of 19)	exon (NM_001085373, exon 2 of 19)	52952.0	NM_001085373	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	19.5	25.0	19.0	220.5	61.0	22.5	14.0	27.5
Merged-chr1-152688192-3	chr1	152688100	152688300	+	779.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346117, intron 1 of 18)	intron (NM_001346117, intron 1 of 18)	-62351.0	NM_001081197	71281.0	Mm.158650	NM_001081197	ENSMUSG00000055547	Apobec4	4933431M11Rik	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative)	protein-coding	5.0	15.5	10.0	163.0	7.5	2.5	11.5	8.0
Merged-chr10-86021851-4	chr10	86021751	86021951	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153195)	promoter-TSS (NM_153195)	-78.0	NM_153195	69754.0	Mm.44236	NM_153195	ENSMUSG00000001786	Fbxo7	2410015K21Rik|A230052G17Rik|AI117679|AW260462|C85118	F-box protein 7	protein-coding	175.0	224.0	176.5	2592.0	384.5	169.0	222.5	154.0
Merged-chr19-28990388-4	chr19	28990287	28990487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302443)	promoter-TSS (NM_001302443)	35.0	NM_025950	67072.0	Mm.78875	NM_025950	ENSMUSG00000024780	Cdc37l1	2700033A15Rik|BB159850|Cdc37l|Harc	cell division cycle 37-like 1	protein-coding	152.0	218.5	125.5	2301.0	394.5	128.0	178.0	135.0
Merged-chr3-152556642-3	chr3	152556543	152556743	+	855.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355635, intron 6 of 8)	intron (NM_001355635, intron 6 of 8)	-110270.0	NR_040386	99542.0	Mm.394921	NR_040386	ENSMUSG00000097745	AI115009	-	expressed sequence AI115009	ncRNA	9.0	5.5	16.5	177.0	17.5	5.5	12.5	7.5
Merged-chr2-104491570-1	chr2	104491470	104491670	+	570.0	f0_balb.idr	intron (NM_010434, intron 1 of 15)	intron (NM_010434, intron 1 of 15)	2919.0	NM_010434	15259.0	Mm.257925	NM_010434	ENSMUSG00000027177	Hipk3	DYRK6|FIST3|PKY|mir-1902	homeodomain interacting protein kinase 3	protein-coding	7.5	5.5	0.0	91.5	12.5	6.5	7.5	6.0
Merged-chr19-42001415-4	chr19	42001317	42001517	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145500, intron 1 of 2)	intron (NM_145500, intron 1 of 2)	19654.0	NM_145500	226122.0	Mm.22948	NM_145500	ENSMUSG00000025171	Ubtd1	BC016129	ubiquitin domain containing 1	protein-coding	56.0	87.5	83.5	1117.0	114.0	38.5	48.5	47.0
Merged-chr2-91947893-4	chr2	91947783	91947983	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166597, intron 1 of 31)	intron (NM_001166597, intron 1 of 31)	2465.0	NM_001166597	104418.0	Mm.314923	NM_138306	ENSMUSG00000040479	Dgkz	E130307B02Rik|F730209L11Rik|mDGK[z]	diacylglycerol kinase zeta	protein-coding	134.0	106.5	109.0	1788.5	203.5	78.0	67.0	90.0
Merged-chr1-23922417-4	chr1	23922325	23922525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028534)	promoter-TSS (NM_028534)	-44.0	NM_028534	98366.0	Mm.329963	NM_028534	ENSMUSG00000026155	Smap1	1700056O10Rik|4921514B13Rik|4921525H11Rik|AI462175	small ArfGAP 1	protein-coding	107.5	132.0	69.5	1038.0	230.0	82.5	93.5	43.5
Merged-chr11-109480043-4	chr11	109479956	109480156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028710, intron 1 of 13)	intron (NM_028710, intron 1 of 13)	-5836.0	NM_001361975	74008.0	Mm.482224	NM_028710	ENSMUSG00000020604	Arsg	6330406P08Rik|AI846872|ASG	arylsulfatase G	protein-coding	37.0	46.0	48.5	453.5	92.5	25.0	39.5	36.5
Merged-chr6-42692279-4	chr6	42692182	42692382	+	993.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355769, intron 1 of 8)	intron (NM_001355769, intron 1 of 8)	818.0	NM_029930	77574.0	Mm.24652	NM_029930	ENSMUSG00000036667	Tcaf1	2810407D09Rik|3321401G04Rik|A230020K05Rik|AI848529|Fam115a	TRPM8 channel-associated factor 1	protein-coding	31.5	42.0	51.5	819.0	50.5	17.5	25.0	21.0
Merged-chr8-60954801-4	chr8	60954711	60954911	+	982.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173876)	promoter-TSS (NM_173876)	-12.0	NM_173876	12725.0	Mm.25263	NM_007711	ENSMUSG00000004319	Clcn3	Clc3	chloride channel, voltage-sensitive 3	protein-coding	22.0	42.5	8.5	457.0	64.5	19.5	37.0	10.0
Merged-chr6-90463135-4	chr6	90463060	90463260	+	873.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355668, intron 1 of 2)	CpG	584.0	NM_023184	66277.0	Mm.38343	NM_023184	ENSMUSG00000030087	Klf15	1810013I09Rik|AV048136|AW494632|CKLF|KKLF	Kruppel-like factor 15	protein-coding	14.5	15.0	15.0	198.0	21.5	8.5	9.5	10.0
Merged-chr1-155070031-3	chr1	155069927	155070127	+	652.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151545, intron 3 of 6)	intron (NR_151545, intron 3 of 6)	13237.0	NR_151545	671336.0	Mm.393476	NR_151545	ENSMUSG00000096950	Gm9530	-	predicted gene 9530	ncRNA	7.5	7.5	11.0	60.0	22.0	9.5	6.5	8.5
Merged-chr4-53062343-2	chr4	53062241	53062441	+	990.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 31 of 49)	intron (NM_013454, intron 31 of 49)	50461.0	NM_025623	66536.0	Mm.38244	NM_025623	ENSMUSG00000015247	Nipsnap3b	2700063N13Rik|Nipsnap3a	nipsnap homolog 3B	protein-coding	4.0	3.0	4.5	71.0	15.0	8.5	4.5	5.5
Merged-chr7-141215768-4	chr7	141215657	141215857	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025886)	promoter-TSS (NM_025886)	-103.0	NM_025886	66985.0	Mm.21202	NM_025886	ENSMUSG00000038618	Rassf7	2400009B11Rik|AW210608	Ras association (RalGDS/AF-6) domain family (N-terminal) member 7	protein-coding	59.5	80.5	35.5	483.0	109.0	51.5	49.5	42.5
Merged-chr2-166694741-4	chr2	166694631	166694831	+	947.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	ORR1B1|LTR|ERVL-MaLR	19101.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	7.0	24.5	14.0	150.5	39.0	16.0	20.0	6.0
Merged-chr16-93833742-4	chr16	93833634	93833834	+	980.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001045529, intron 1 of 16)	intron (NM_001045529, intron 1 of 16)	1613.0	NM_001045529	338467.0	Mm.287329	NM_001045529	ENSMUSG00000039456	Morc3	1110051N18Rik|AI452146|BF318192|D16Jhu32e|NXP2|Zcwcc3	microrchidia 3	protein-coding	16.5	24.0	6.5	154.5	55.5	14.0	26.0	27.0
Merged-chr1-55089022-1	chr1	55088922	55089122	+	680.0	f1_balb.idr	promoter-TSS (NM_001356512)	promoter-TSS (NM_001356512)	-779.0	NM_001356512	15510.0	Mm.1777	NM_010477	ENSMUSG00000025980	Hspd1	60kDa|CPN60|HSP-60|HSP-65|Hsp60	heat shock protein 1 (chaperonin)	protein-coding	1.5	4.5	4.5	57.0	7.5	9.0	6.0	6.5
Merged-chr8-123042424-4	chr8	123042325	123042525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037865)	promoter-TSS (NR_037865)	-141.0	NM_001081379	77087.0	Mm.31567	NM_001081379	ENSMUSG00000035569	Ankrd11	2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod	ankyrin repeat domain 11	protein-coding	309.0	499.0	354.0	3434.0	866.5	396.5	336.0	283.0
Merged-chr1-106796719-4	chr1	106796614	106796814	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009190)	promoter-TSS (NM_009190)	11.0	NM_009190	20479.0	Mm.18705	NM_009190	ENSMUSG00000009907	Vps4b	8030489C12Rik|Skd1	vacuolar protein sorting 4B	protein-coding	241.5	364.0	191.0	2756.0	662.5	266.0	274.0	216.0
Merged-chr2-117080554-4	chr2	117080453	117080653	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40518.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	75.0	124.0	92.0	380.5	157.5	67.5	51.5	43.5
Merged-chr14-66848878-4	chr14	66848784	66848984	+	986.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009955, intron 3 of 13)	intron (NM_009955, intron 3 of 13)	19716.0	NM_009955	12934.0	Mm.352648	NM_009955	ENSMUSG00000022048	Dpysl2	AI851130|Crmp2|DRP2|Musunc33|TOAD-64|Ulip2	dihydropyrimidinase-like 2	protein-coding	18.0	39.5	16.0	219.0	51.0	17.0	25.0	21.0
Merged-chr4-150913984-4	chr4	150913867	150914067	+	993.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4046.0	NM_020569	57320.0	Mm.277349	NM_020569	ENSMUSG00000028964	Park7	DJ-1|Dj1	Parkinson disease (autosomal recessive, early onset) 7	protein-coding	20.0	28.5	13.0	359.0	72.5	14.5	25.0	28.5
Merged-chr17-69199121-2	chr17	69199021	69199221	+	633.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001355736, intron 1 of 21)	intron (NM_001355736, intron 1 of 21)	39765.0	NM_001355735	13823.0	Mm.131135	NM_013813	ENSMUSG00000024044	Epb41l3	4.1B|DAL1P|Dal1|Epb4.1l3|NBL3	erythrocyte membrane protein band 4.1 like 3	protein-coding	5.0	4.5	4.5	26.5	6.5	3.5	4.5	9.0
Merged-chr2-30441235-4	chr2	30441126	30441326	+	993.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138748, intron 8 of 9)	intron (NM_138748, intron 8 of 9)	25176.0	NM_138748	110854.0	Mm.275393	NM_138748	ENSMUSG00000039515	Ptpa	2610042B21Rik|C77440|N28142|PR53|Ppp2r4	protein phosphatase 2 protein activator	protein-coding	16.0	23.5	16.5	234.5	25.5	6.5	16.5	19.0
Merged-chr15-88864035-4	chr15	88863946	88864146	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145478, intron 4 of 5)	intron (NM_145478, intron 4 of 5)	1852.0	NM_145478	223775.0	Mm.400129	NM_145478	ENSMUSG00000035828	Pim3	BC026639|Kid1	proviral integration site 3	protein-coding	203.5	344.5	231.0	2484.0	535.5	192.0	224.5	182.0
Merged-chr5-114690344-4	chr5	114690236	114690436	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019821, intron 1 of 4)	intron (NM_019821, intron 1 of 4)	599.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	34.5	111.5	38.0	413.5	143.0	72.0	52.5	38.5
Merged-chr3-52242675-4	chr3	52242573	52242773	+	783.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MMERGLN-int|LTR|ERV1	-25664.0	NM_019739	56458.0	Mm.29891	NM_019739	ENSMUSG00000044167	Foxo1	AI876417|Afxh|FKHR|Fkhr1|Foxo1a	forkhead box O1	protein-coding	9.0	11.0	5.0	139.0	22.5	7.0	12.0	7.0
Merged-chr15-79075132-4	chr15	79075060	79075260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145139)	promoter-TSS (NM_145139)	-63.0	NM_145139	223691.0	Mm.206404	NM_145139	ENSMUSG00000033047	Eif3l	0610011H21Rik|D15N1e|Eif3eip|Eif3ip|Eif3s6ip|HSP-66Y|PAF67	eukaryotic translation initiation factor 3, subunit L	protein-coding	88.5	138.0	95.0	1347.0	158.0	64.5	76.5	49.5
Merged-chr2-32535215-4	chr2	32535102	32535302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153560)	promoter-TSS (NM_153560)	-157.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	157.0	167.0	95.5	1659.0	328.0	123.0	143.0	120.0
Merged-chr17-31011607-2	chr17	31011472	31011672	+	1000.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_177465)	TTS (NM_177465)	-46122.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	2.5	0.0	3.5	35.5	6.0	9.0	5.0	6.5
Merged-chr8-56071011-4	chr8	56070906	56071106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080438, intron 5 of 9)	RLTR28|LTR|ERVL	130181.0	NM_080438	110304.0	Mm.307061	NM_080438	ENSMUSG00000038257	Glra3	-	glycine receptor, alpha 3 subunit	protein-coding	87.5	147.0	168.5	1924.5	313.0	119.5	143.5	120.0
Merged-chr14-52106924-4	chr14	52106821	52107021	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2900.0	NM_001360180	15381.0	Mm.427321	NM_016884	ENSMUSG00000060373	Hnrnpc	AL022939|D14Wsu171e|Hnrpc|Hnrpc1|Hnrpc2|hnRNPC1|hnRNPC2|hnrnp-C	heterogeneous nuclear ribonucleoprotein C	protein-coding	61.0	42.0	75.5	1265.5	81.0	35.0	57.5	68.5
Merged-chr13-37498210-4	chr13	37498137	37498337	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	152892.0	NM_010745	17084.0	Mm.2639	NM_010745	ENSMUSG00000021423	Ly86	MD-1|MD1|ly86_tv2	lymphocyte antigen 86	protein-coding	86.0	163.5	83.5	910.0	33.5	4.0	11.5	10.0
Merged-chr16-70314214-7	chr16	70314145	70314345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028803, exon 1 of 16)	exon (NM_028803, exon 1 of 16)	296.0	NM_028803	74185.0	Mm.396102	NM_028803	ENSMUSG00000022707	Gbe1	2310045H19Rik|2810426P10Rik|D16Ertd536e	glucan (1,4-alpha-), branching enzyme 1	protein-coding	148.0	280.0	288.5	1989.5	404.5	173.5	159.5	174.0
Merged-chr16-11014728-4	chr16	11014628	11014828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_040518, exon 3 of 3)	non-coding (NR_040518, exon 3 of 3)	5830.0	NR_040518	100043147.0	Mm.489001	NR_040518	ENSMUSG00000097056	Gm4262	-	predicted gene 4262	ncRNA	64.5	65.0	104.0	1683.5	184.0	61.0	101.5	108.0
Merged-chr4-59452688-4	chr4	59452585	59452785	+	983.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR40|LTR|ERVK	-14052.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	27.0	19.0	15.5	367.5	47.0	14.5	17.5	36.5
Merged-chr10-77417207-3	chr10	77417085	77417285	+	876.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024838, intron 1 of 11)	intron (NM_001024838, intron 1 of 11)	1088.0	NM_130895	110532.0	Mm.276815	NM_130895	ENSMUSG00000020262	Adarb1	1700057H01Rik|AW124433|AW558573|Adar2|BB220382|D10Bwg0447e|Red1	adenosine deaminase, RNA-specific, B1	protein-coding	4.5	8.5	5.5	65.0	5.5	1.5	4.5	4.5
Merged-chr1-191092510-7	chr1	191092406	191092606	+	981.095215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5908.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	12.0	13.5	28.5	192.5	23.0	13.0	15.0	18.0
Merged-chr2-177957300-4	chr2	177957217	177957417	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282028)	promoter-TSS (NM_001282028)	-29.0	NM_001190302	665211.0	Mm.441314	NM_001190302	ENSMUSG00000078862	Gm14326	-	predicted gene 14326	protein-coding	50.0	55.0	37.0	401.5	109.5	21.0	60.0	26.0
Merged-chr3-145758920-4	chr3	145758882	145759082	+	764.402771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026993, exon 1 of 6)	exon (NM_026993, exon 1 of 6)	290.0	NM_026993	69219.0	Mm.234247	NM_026993	ENSMUSG00000028194	Ddah1	2410006N07Rik|2510015N06Rik|AI987801|AW050362	dimethylarginine dimethylaminohydrolase 1	protein-coding	11.5	11.0	4.0	177.5	23.5	6.0	10.5	22.0
Merged-chr17-88403490-3	chr17	88403389	88403589	+	898.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37215.0	NM_001355743	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	4.5	18.5	7.0	111.0	4.0	2.5	3.0	4.0
Merged-chr10-127592626-4	chr10	127592532	127592732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 10 of 88)	intron (NM_008512, intron 10 of 88)	28516.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	26.0	24.5	22.5	384.5	44.0	19.5	21.0	22.5
Merged-chr3-157764012-4	chr3	157763914	157764114	+	756.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161049.0	NM_145953	107869.0	Mm.28301	NM_145953	ENSMUSG00000028179	Cth	0610010I13Rik|AI314617|BC019483|CSE|Cys3	cystathionase (cystathionine gamma-lyase)	protein-coding	16.0	7.0	12.5	245.5	16.0	5.0	10.0	10.5
Merged-chr5-29681863-3	chr5	29681764	29681964	+	617.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16_Mm|LTR|ERVK	-54034.0	NM_001359198	23950.0	Mm.290110	NM_011847	ENSMUSG00000029131	Dnajb6	HSJ-2|Mrj|mDj4	DnaJ heat shock protein family (Hsp40) member B6	protein-coding	5.0	9.0	12.0	60.5	9.0	6.5	4.0	3.0
Merged-chr3-108256171-4	chr3	108256072	108256272	+	998.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011967)	promoter-TSS (NM_011967)	-754.0	NM_011967	26442.0	Mm.208883	NM_011967	ENSMUSG00000068749	Psma5	ZETA	proteasome (prosome, macropain) subunit, alpha type 5	protein-coding	51.0	45.0	34.0	307.5	110.0	38.5	37.0	49.0
Merged-chr7-4996148-4	chr7	4996052	4996252	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026741)	promoter-TSS (NM_026741)	-51.0	NM_026741	68490.0	Mm.76400	NM_026741	ENSMUSG00000051550	Zfp579	1110003A17Rik|Znf579	zinc finger protein 579	protein-coding	31.0	46.0	17.5	367.5	45.5	32.5	27.5	31.5
Merged-chr5-102061392-4	chr5	102061285	102061485	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172882, intron 1 of 66)	intron (NM_172882, intron 1 of 66)	8536.0	NM_172882	72145.0	Mm.332522	NM_172882	ENSMUSG00000043940	Wdfy3	2610509D04Rik|ALFY|AW319683|B930017C24|BWF1|Bchs|D5Ertd66e|Ggtb3|ZFYVE25|mKIAA0993	WD repeat and FYVE domain containing 3	protein-coding	21.5	53.0	52.0	621.0	101.0	39.0	42.5	40.0
Merged-chr11-34054566-4	chr11	34054459	34054659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010696, intron 3 of 20)	intron (NM_010696, intron 3 of 20)	7631.0	NM_010696	16822.0	Mm.265350	NM_010696	ENSMUSG00000002699	Lcp2	AI323664|BB161688|SLP-76|SLP76|m1Khoe|twm	lymphocyte cytosolic protein 2	protein-coding	43.5	58.0	27.5	626.0	139.5	52.0	63.5	37.5
Merged-chr19-29393549-4	chr19	29393440	29393640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17379.0	NM_021396	58205.0	Mm.116737	NM_021396	ENSMUSG00000016498	Pdcd1lg2	B7-DC|Btdc|F730015O22Rik|PD-L2	programmed cell death 1 ligand 2	protein-coding	53.0	68.5	62.5	634.5	90.0	26.5	61.5	44.0
Merged-chr18-54848913-4	chr18	54848818	54849018	+	933.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	141262.0	NM_175751	269023.0	Mm.192984	NM_175751	ENSMUSG00000052713	Zfp608	4932417D18Rik|D430007A19Rik|Znf608	zinc finger protein 608	protein-coding	14.0	16.5	19.0	183.5	44.0	12.5	26.0	15.5
Merged-chr15-99392867-4	chr15	99392760	99392960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026669)	promoter-TSS (NM_026669)	-87.0	NM_026669	110213.0	Mm.16769	NM_026669	ENSMUSG00000023010	Tmbim6	5031406P05Rik|Bi1|Tegt	transmembrane BAX inhibitor motif containing 6	protein-coding	166.5	306.0	133.0	2016.5	500.0	161.0	237.5	212.0
Merged-chr11-78262791-3	chr11	78262688	78262888	+	847.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001002004, exon 2 of 39)	exon (NM_001002004, exon 2 of 39)	1034.0	NM_001002004	72503.0	Mm.237103	NM_001002004	ENSMUSG00000010277	2610507B11Rik	AU022687|D11Bhm178e|D11Bhm179e|E1|Kiaa0100|mKIAA0100	RIKEN cDNA 2610507B11 gene	protein-coding	13.0	12.5	4.0	71.0	24.5	5.5	7.0	12.0
Merged-chr18-4256594-4	chr18	4256481	4256681	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	90749.0	NM_026092	67328.0	Mm.158148	NM_026092	ENSMUSG00000024233	Lyzl1	1700038F02Rik|Lyc2|Lyzd1	lysozyme-like 1	protein-coding	47.5	62.0	43.0	802.5	79.5	28.5	32.0	34.5
Merged-chr10-127266292-4	chr10	127266191	127266391	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001190454)	promoter-TSS (NM_001190454)	29.0	NM_001190453	69654.0	Mm.167537	NM_027151	ENSMUSG00000025410	Dctn2	2310042E05Rik|C130077D06Rik|C87049|DCTN-50|GMP23-48K|RBP50|p50	dynactin 2	protein-coding	149.0	198.0	99.5	1780.5	389.5	123.0	166.5	114.0
Merged-chr1-165614980-4	chr1	165614868	165615068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083897, intron 1 of 5)	intron (NM_001083897, intron 1 of 5)	19573.0	NM_001001880	68481.0	Mm.46438	NM_001001880	ENSMUSG00000026566	Mpzl1	1110007A10Rik|PZR	myelin protein zero-like 1	protein-coding	91.0	78.5	101.0	1489.5	133.5	66.5	76.0	78.5
Merged-chr11-60933653-4	chr11	60933520	60933720	+	974.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008928, intron 1 of 11)	intron (NM_008928, intron 1 of 11)	1563.0	NM_008928	26397.0	Mm.18494	NM_008928	ENSMUSG00000018932	Map2k3	AW212142|MEK3|MKK3|Prkmk3|mMKK3b	mitogen-activated protein kinase kinase 3	protein-coding	27.5	24.5	21.5	205.0	37.0	17.0	9.5	10.0
Merged-chr9-89974785-3	chr9	89974688	89974888	+	877.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011245, exon 9 of 27)	exon (NM_011245, exon 9 of 27)	65013.0	NM_001357743	19417.0	Mm.44561	NM_011245	ENSMUSG00000032356	Rasgrf1	AI844718|CDC25|CDC25Mm|Gnrp|Grf1|Grfbeta|P190-A|Ras-GRF1|p190|p190RhoGEF	RAS protein-specific guanine nucleotide-releasing factor 1	protein-coding	10.0	3.5	13.5	85.0	26.0	9.0	9.5	8.5
Merged-chr16-91354761-4	chr16	91354659	91354859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18024.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	140.0	204.5	165.0	1934.5	275.5	101.0	129.0	117.0
Merged-chr8-3659080-4	chr8	3658970	3659170	+	992.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_022984)	TTS (NM_022984)	3300.0	NM_022984	57264.0	Mm.1181	NM_022984	ENSMUSG00000012705	Retn	ADSF|Fizz3|Rstn|Xcp4	resistin	protein-coding	18.5	12.0	25.5	273.0	48.5	20.0	36.0	21.5
Merged-chr3-27192895-2	chr3	27192795	27192995	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 1 of 4)	ORR1A2|LTR|ERVL-MaLR	9891.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	11.5	7.5	8.0	30.5	25.5	5.5	7.5	15.5
Merged-chr9-7567531-4	chr9	7567434	7567634	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008611, exon 10 of 10)	exon (NM_008611, exon 10 of 10)	-3862.0	NM_001310717	234911.0	Mm.334940	NM_001030289	ENSMUSG00000070323	Mmp27	Gm180	matrix metallopeptidase 27	protein-coding	185.0	229.5	196.5	2542.5	375.0	135.0	198.0	176.0
Merged-chr4-8917385-4	chr4	8917274	8917474	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	166050.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	130.5	177.5	165.0	2209.0	620.5	260.5	267.0	228.0
Merged-chr17-27820199-2	chr17	27820099	27820299	+	826.099976	f1_balb.idr|f1_c57bl6.idr	exon (NM_001271511, exon 1 of 4)	exon (NM_001271511, exon 1 of 4)	343.0	NM_001033279	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	12.5	19.5	11.5	106.0	34.5	17.0	16.5	24.0
Merged-chr5-110839869-4	chr5	110839757	110839957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016681)	promoter-TSS (NM_016681)	-80.0	NR_153348	100900.0	Mm.200231	NM_153571	ENSMUSG00000043510	Hscb	AI325508|AW049829|Hsc20	HscB iron-sulfur cluster co-chaperone	protein-coding	201.0	369.0	185.5	2614.0	637.5	212.5	266.0	195.0
Merged-chr10-61715282-4	chr10	61715158	61715358	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001284300)	promoter-TSS (NM_001284300)	-5.0	NM_178058	71361.0	Mm.286309	NM_153779	ENSMUSG00000020085	Aifm2	5430437E11Rik|Amid|D730001I10Rik|PRG3	apoptosis-inducing factor, mitochondrion-associated 2	protein-coding	59.0	61.5	48.0	474.0	99.0	37.0	46.5	39.0
Merged-chr10-19068505-4	chr10	19068395	19068595	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53085.0	NM_009397	21929.0	Mm.116683	NM_009397	ENSMUSG00000019850	Tnfaip3	A20|Tnfip3	tumor necrosis factor, alpha-induced protein 3	protein-coding	32.5	51.5	30.0	369.0	147.5	41.0	47.0	39.5
Merged-chr2-170343884-7	chr2	170343815	170344015	+	961.5476070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12446.0	NR_040610	73303.0	Mm.443297	NR_040610	ENSMUSG00000086999	Bcas1os2	1700040N02Rik	breast carcinoma amplified sequence 1, opposite strand 2	ncRNA	7.0	6.0	9.0	156.5	25.5	14.0	4.5	11.0
Merged-chr6-114869584-3	chr6	114869541	114869741	+	840.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356371, intron 3 of 5)	intron (NM_001356371, intron 3 of 5)	52180.0	NM_177683	232334.0	Mm.268357	NM_177683	ENSMUSG00000030315	Vgll4	BC048841|VGL-4	vestigial like family member 4	protein-coding	6.5	7.5	13.5	105.0	8.5	0.0	3.0	9.5
Merged-chr8-83260597-4	chr8	83260494	83260694	+	830.616699	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111304, intron 15 of 20)	intron (NM_001111304, intron 15 of 20)	-29754.0	NM_009463	22227.0	Mm.4177	NM_009463	ENSMUSG00000031710	Ucp1	AI385626|Slc25a7|Ucp	uncoupling protein 1 (mitochondrial, proton carrier)	protein-coding	7.5	12.0	5.0	121.0	25.0	11.5	12.5	12.5
Merged-chr2-116978402-4	chr2	116978300	116978500	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	78248.0	NR_040335	320975.0	Mm.132509	NR_040335	ENSMUSG00000085316	D330050G23Rik	-	RIKEN cDNA D330050G23 gene	ncRNA	33.5	28.5	52.5	591.0	81.5	20.0	46.0	30.5
Merged-chr2-52857790-4	chr2	52857707	52857907	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172409)	promoter-TSS (NM_172409)	-61.0	NM_172409	71409.0	Mm.394427	NM_172409	ENSMUSG00000036053	Fmnl2	5430425K04Rik|Man	formin-like 2	protein-coding	66.0	94.0	85.5	955.0	120.0	38.0	45.5	33.0
Merged-chr10-17579952-4	chr10	17579854	17580054	+	845.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-143274.0	NM_010828	17684.0	Mm.272321	NM_010828	ENSMUSG00000039910	Cited2	AI835299|ER154-like|Mrg1|Msg2|p35srj	Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2	protein-coding	12.5	19.5	32.0	239.5	26.0	11.5	10.0	5.5
Merged-chr12-91738563-4	chr12	91738455	91738655	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175367, intron 3 of 6)	ORR1D2|LTR|ERVL-MaLR	47881.0	NM_175367	108800.0	Mm.23125	NM_175367	ENSMUSG00000020961	Ston2	4933401N24Rik|AI425999|AW544599	stonin 2	protein-coding	131.5	142.5	196.5	3183.5	175.0	51.5	109.5	74.5
Merged-chr6-8003970-3	chr6	8003881	8004081	+	676.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037865, intron 33 of 34)	intron (NM_001037865, intron 33 of 34)	158757.0	NM_052993	94192.0	Mm.102752	NM_052993	ENSMUSG00000042460	C1galt1	2210410E06Rik|AV284120|T-synthase	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase, 1	protein-coding	8.0	4.5	16.5	150.5	15.5	1.0	6.5	4.0
Merged-chr19-17253012-3	chr19	17252903	17253103	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	86502.0	NM_001136484	14537.0	Mm.244825	NM_010265	ENSMUSG00000038843	Gcnt1	5630400D21Rik|B130048E03|C2 GlcNAcT|C2GNT|IGnT	glucosaminyl (N-acetyl) transferase 1, core 2	protein-coding	3.0	0.5	4.0	16.5	67.0	19.5	36.0	27.0
Merged-chr10-14959288-4	chr10	14959196	14959396	+	984.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	199007.0	NM_008703	18101.0	Mm.487342	NM_008703	ENSMUSG00000019865	Nmbr	BB182387	neuromedin B receptor	protein-coding	50.0	58.5	52.0	1330.0	55.5	12.5	27.5	22.0
Merged-chr6-122811018-4	chr6	122810941	122811141	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9143.0	NM_021899	60611.0	Mm.87142	NM_021899	ENSMUSG00000003154	Foxj2	Fhx	forkhead box J2	protein-coding	266.0	463.0	349.0	4095.0	796.0	294.5	402.5	295.0
Merged-chr1-118472710-4	chr1	118472628	118472828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359330, intron 8 of 39)	intron (NM_001359330, intron 8 of 39)	-13463.0	NR_027901	68204.0	Mm.443536	NR_027901	ENSMUSG00000107722	2900060B14Rik	-	RIKEN cDNA 2900060B14 gene	ncRNA	20.5	47.0	48.0	772.5	83.5	22.5	26.0	3.5
Merged-chr19-6459724-4	chr19	6459629	6459829	+	994.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001205235, intron 6 of 21)	intron (NM_001205235, intron 6 of 21)	40991.0	NM_001205234	18190.0	Mm.329616	NM_020253	ENSMUSG00000033768	Nrxn2	6430591O13Rik|mKIAA0921	neurexin II	protein-coding	36.5	38.0	16.5	312.5	62.0	20.0	37.5	29.5
Merged-chr17-28177305-4	chr17	28177204	28177404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172617)	promoter-TSS (NM_172617)	108.0	NM_001357995	224656.0	Mm.267359	NM_172617	ENSMUSG00000024220	Zfp523	2810027J07|BC025615|Znf76	zinc finger protein 523	protein-coding	55.0	113.5	59.5	673.5	122.0	56.5	59.0	56.0
Merged-chr19-38011562-4	chr19	38011457	38011657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302140, intron 3 of 53)	intron (NM_001302140, intron 3 of 53)	32020.0	NM_001099634	226101.0	Mm.34674	NM_177035	ENSMUSG00000048612	Myof	2310004N10Rik|2310051D19Rik|E030042N20Rik|Fer1l3	myoferlin	protein-coding	90.5	139.0	117.5	1033.5	90.5	51.5	57.5	41.0
Merged-chr4-83327624-3	chr4	83327489	83327689	+	881.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3400.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	6.5	9.0	6.0	128.0	27.5	7.5	6.5	10.5
Merged-chr19-53467529-1	chr19	53467429	53467629	+	783.0	f0_balb.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-2733.0	NR_028427	381232.0	Mm.248624	NR_028427	ENSMUSG00000097636	Mirt1	4833407H14Rik|5430437C04Rik|5830416P10Rik|Gm10758	myocardial infarction associated transcript 1	ncRNA	8.0	4.5	10.0	154.5	5.5	1.0	1.5	0.0
Merged-chr11-118229001-3	chr11	118228908	118229108	+	765.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011180, intron 1 of 12)	PB1D10|SINE|Alu	-16266.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	5.0	7.5	9.0	70.5	10.5	0.5	4.0	5.0
Merged-chr16-13294451-3	chr16	13294373	13294573	+	566.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122667, intron 2 of 16)	intron (NM_001122667, intron 2 of 16)	29394.0	NM_181860	239719.0	Mm.270643	NM_153588	ENSMUSG00000009569	Mkl2	Gt4-1|MRTF-B|Mrtfb|mKIAA1243	MKL/myocardin-like 2	protein-coding	9.5	7.5	5.0	47.5	7.5	1.5	5.0	5.0
Merged-chr7-4532537-4	chr7	4532436	4532636	+	926.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033548)	promoter-TSS (NM_001033548)	-94.0	NM_001033548	436022.0	Mm.425359	NM_001033548	ENSMUSG00000055809	Dnaaf3	6030429G01Rik|b2b1739Clo	dynein, axonemal assembly factor 3	protein-coding	11.5	48.5	11.5	331.0	101.5	27.0	29.0	14.0
Merged-chr12-86950370-2	chr12	86950270	86950470	+	551.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_173735, intron 1 of 3)	intron (NM_173735, intron 1 of 3)	3027.0	NM_001289432	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	5.5	8.5	7.5	67.0	12.0	4.0	2.5	3.5
Merged-chr3-87151664-4	chr3	87151558	87151758	+	968.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170985, intron 1 of 15)	intron (NM_001170985, intron 1 of 15)	23089.0	NM_001170985	170643.0	Mm.89552	NM_130867	ENSMUSG00000041734	Kirrel	6720469N11Rik|Kirrel1|Neph1	kirre like nephrin family adhesion molecule 1	protein-coding	21.0	20.0	23.0	451.5	49.0	16.0	17.5	14.0
Merged-chr12-40565015-4	chr12	40564919	40565119	+	858.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172803, intron 1 of 52)	intron (NM_172803, intron 1 of 52)	118966.0	NM_172803	238130.0	Mm.341423	NM_172803	ENSMUSG00000035954	Dock4	5330406C03|6330411N01Rik|AF263288|C030023J22|mKIAA0716	dedicator of cytokinesis 4	protein-coding	10.0	25.5	13.0	93.5	35.0	13.0	19.5	6.5
Merged-chr11-58092886-6	chr11	58092818	58093018	+	884.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11052.0	NM_026949	69125.0	Mm.28910	NM_026949	ENSMUSG00000020515	Cnot8	1500015I04Rik|1810022F04Rik|AA536816|AU015770|AU043059	CCR4-NOT transcription complex, subunit 8	protein-coding	10.0	9.0	9.0	99.5	11.0	8.0	11.0	8.5
Merged-chr9-37489867-4	chr9	37489775	37489975	+	882.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146222, intron 1 of 3)	CpG	554.0	NM_146222	235184.0	Mm.127892	NM_146222	ENSMUSG00000042138	Msantd2	2810450G17Rik|9530092B10Rik	Myb/SANT-like DNA-binding domain containing 2	protein-coding	4.0	14.0	17.0	196.0	28.5	15.5	11.5	22.5
Merged-chr4-136143371-2	chr4	136143271	136143471	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008321)	promoter-TSS (NM_008321)	-451.0	NM_008321	15903.0	Mm.110	NM_008321	ENSMUSG00000007872	Id3	Hlh462|Idb3|bHLHb25	inhibitor of DNA binding 3	protein-coding	108.0	145.0	80.0	1124.0	258.0	105.0	86.0	111.0
Merged-chr17-10842364-4	chr17	10842257	10842457	+	999.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001317726, intron 1 of 6)	intron (NM_001317726, intron 1 of 6)	1998.0	NM_016694	50873.0	Mm.311110	NM_016694	ENSMUSG00000023826	Park2	PRKN	Parkinson disease (autosomal recessive, juvenile) 2, parkin	protein-coding	29.0	21.5	18.5	205.0	112.5	31.0	39.5	39.0
Merged-chr10-37137933-6	chr10	37137829	37138029	+	924.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008538, intron 1 of 1)	intron (NM_008538, intron 1 of 1)	997.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	19.5	17.5	23.0	225.5	34.5	12.5	18.0	19.5
Merged-chr2-84826970-4	chr2	84826853	84827053	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013899)	promoter-TSS (NM_013899)	-68.0	NM_013899	30059.0	Mm.21826	NM_013899	ENSMUSG00000027076	Timm10	Tim13|Timm13a	translocase of inner mitochondrial membrane 10	protein-coding	32.5	67.0	46.5	806.0	145.5	62.5	87.0	49.5
Merged-chr10-5825038-4	chr10	5824938	5825138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019958)	TTS (NM_019958)	-1095.0	NM_175374	108853.0	Mm.55082	NM_175374	ENSMUSG00000019774	Mtrf1l	9130004K12Rik	mitochondrial translational release factor 1-like	protein-coding	26.5	30.5	24.0	349.5	57.0	28.0	27.5	29.5
Merged-chr5-17843452-4	chr5	17843352	17843552	+	864.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159558, intron 1 of 15)	intron (NM_001159558, intron 1 of 15)	6340.0	NM_001159557	12491.0	Mm.18628	NM_007643	ENSMUSG00000002944	Cd36	FAT|GPIV|Scarb3	CD36 molecule	protein-coding	7.5	17.5	10.5	360.0	22.0	12.0	11.0	12.0
Merged-chr12-70825376-4	chr12	70825220	70825420	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028127)	promoter-TSS (NM_028127)	-194.0	NM_028127	319710.0	Mm.2962	NM_028127	ENSMUSG00000048285	Frmd6	2610019M19Rik|4930488L10Rik|AW212977|Willin	FERM domain containing 6	protein-coding	143.0	195.5	148.5	1855.5	404.5	125.0	228.5	140.0
Merged-chr18-73693661-3	chr18	73693550	73693750	+	762.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008540, intron 1 of 11)	intron (NM_008540, intron 1 of 11)	10091.0	NM_008540	17128.0	Mm.100399	NM_008540	ENSMUSG00000024515	Smad4	AW743858|D18Wsu70e|DPC4|Madh4	SMAD family member 4	protein-coding	10.0	23.0	4.5	49.5	10.5	5.0	4.5	2.0
Merged-chr15-59439557-4	chr15	59439468	59439668	+	987.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164604, intron 3 of 4)	ORR1E|LTR|ERVL-MaLR	65370.0	NM_001164604	68501.0	Mm.27762	NM_026746	ENSMUSG00000059586	Nsmce2	1110014D18Rik|AI661537	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	protein-coding	39.5	40.0	42.0	562.5	32.5	14.0	18.0	29.0
Merged-chr17-40882200-3	chr17	40882074	40882274	+	826.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1616.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	0.0	0.0	4.5	11.0	33.5	11.0	18.0	22.0
Merged-chr4-152432567-2	chr4	152432467	152432667	+	716.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001252655, intron 2 of 14)	intron (NM_001252655, intron 2 of 14)	16288.0	NM_001252655	16498.0	Mm.388924	NM_010598	ENSMUSG00000028931	Kcnab2	F5|I2rf5|Kcnb3|kv-beta-2	potassium voltage-gated channel, shaker-related subfamily, beta member 2	protein-coding	6.0	4.5	5.5	28.5	9.0	1.0	4.0	2.0
Merged-chr11-116110304-4	chr11	116110194	116110394	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172570)	promoter-TSS (NM_172570)	-59.0	NM_172570	217333.0	Mm.347770	NM_172570	ENSMUSG00000020773	Trim47	2210023F24Rik	tripartite motif-containing 47	protein-coding	35.5	57.0	26.5	424.0	66.0	27.5	38.5	36.0
Merged-chr4-88412571-4	chr4	88412467	88412667	+	871.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_025760)	TTS (NM_025760)	26359.0	NM_025760	66775.0	Mm.386788	NM_025760	ENSMUSG00000028497	Hacd4	4933428I03Rik|Hcad4|Ptplad2	3-hydroxyacyl-CoA dehydratase 4	protein-coding	8.5	10.0	10.0	274.0	23.0	8.0	21.5	20.5
Merged-chr13-96433907-3	chr13	96433807	96434007	+	949.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001042714, intron 8 of 13)	intron (NM_001042714, intron 8 of 13)	37253.0	NM_001042714	271144.0	Mm.470057	NM_001042714	ENSMUSG00000047117	Ankdd1b	9330128J19Rik	ankyrin repeat and death domain containing 1B	protein-coding	13.0	18.5	9.5	156.0	13.0	6.0	2.5	4.5
Merged-chr11-53774836-4	chr11	53774725	53774925	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159393, intron 7 of 9)	intron (NM_001159393, intron 7 of 9)	4352.0	NM_001159396	16362.0	Mm.105218	NM_008390	ENSMUSG00000018899	Irf1	AU020929|Irf-1	interferon regulatory factor 1	protein-coding	33.0	41.5	31.0	407.5	104.5	32.5	26.0	24.0
Merged-chr4-150862858-4	chr4	150862771	150862971	+	817.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133753, intron 1 of 3)	intron (NM_133753, intron 1 of 3)	7801.0	NM_133753	74155.0	Mm.318841	NM_133753	ENSMUSG00000028967	Errfi1	1300002F13Rik|AI788755|Mig-6|Mig6|RALT	ERBB receptor feedback inhibitor 1	protein-coding	9.0	21.5	7.0	119.5	28.5	6.5	8.0	10.0
Merged-chr14-73386795-4	chr14	73386694	73386894	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1505.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	23.0	26.5	48.5	754.5	106.5	30.0	36.0	41.0
Merged-chr7-79793002-5	chr7	79792937	79793137	+	800.085693	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008588, exon 1 of 2)	exon (NM_008588, exon 1 of 2)	553.0	NM_008588	17292.0	Mm.1404	NM_008588	ENSMUSG00000030544	Mesp1	bHLHc5	mesoderm posterior 1	protein-coding	2.5	4.0	9.0	83.5	16.5	9.5	7.0	10.5
Merged-chr1-195241706-4	chr1	195241579	195241779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-64964.0	NM_007758	12902.0	Mm.235387	NM_007758	ENSMUSG00000026616	Cr2	C3DR|CD21|CD35|Cr-1|Cr-2|Cr1	complement receptor 2	protein-coding	222.0	312.0	318.5	3726.5	422.5	160.5	235.5	352.0
Merged-chr11-116531774-4	chr11	116531656	116531856	+	848.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172475)	promoter-TSS (NM_001172475)	-155.0	NM_001172475	20698.0	Mm.20944	NM_011451	ENSMUSG00000061878	Sphk1	1110006G24Rik|Sk1|Spk1	sphingosine kinase 1	protein-coding	7.0	24.5	11.0	100.5	22.0	6.5	5.5	22.0
Merged-chr17-50504318-4	chr17	50504228	50504428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5219.0	NM_013880	224860.0	Mm.217362	NM_013880	ENSMUSG00000038910	Plcl2	PLC-L2|PRIP-2|Plce2|mKIAA1092	phospholipase C-like 2	protein-coding	32.0	112.5	19.0	186.0	145.5	75.0	41.5	23.0
Merged-chr5-123694663-4	chr5	123694567	123694767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10306.0	NM_001359222	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	74.0	152.5	74.0	919.0	175.5	79.0	77.0	69.0
Merged-chr2-15054643-2	chr2	15054543	15054743	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029466)	promoter-TSS (NM_029466)	229.0	NM_001165941	74455.0	Mm.478923	NM_028950	ENSMUSG00000026707	Nsun6	4933403D21Rik|4933414E04Rik|NOPD1	NOL1/NOP2/Sun domain family member 6	protein-coding	5.0	14.5	4.5	118.5	32.5	8.5	4.5	20.0
Merged-chr15-9123206-4	chr15	9123118	9123318	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 5 of 9)	intron (NM_013787, intron 5 of 9)	17236.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	27.0	71.5	52.0	904.0	146.5	49.5	74.0	67.5
Merged-chr2-155826703-4	chr2	155826600	155826800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010579, exon 1 of 6)	5' UTR (NM_010579, exon 1 of 6)	225.0	NM_010579	16418.0	Mm.271674	NM_010579	ENSMUSG00000027613	Eif6	1110004P11|AA408895|CAB|Itgb4bp|eIF-6|imc-415|p27(BBP)|p27BBP	eukaryotic translation initiation factor 6	protein-coding	64.0	63.5	40.5	862.0	245.5	70.0	94.0	109.5
Merged-chr10-115312415-4	chr10	115312332	115312532	+	965.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024454, intron 1 of 6)	intron (NM_024454, intron 1 of 6)	3159.0	NM_024454	216344.0	Mm.21936	NM_024454	ENSMUSG00000020132	Rab21	9630024B22	RAB21, member RAS oncogene family	protein-coding	15.0	26.0	14.5	366.5	43.5	23.5	12.5	25.0
Merged-chr13-54789236-4	chr13	54789121	54789321	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028841)	promoter-TSS (NM_028841)	-184.0	NM_028841	74257.0	Mm.32883	NM_028841	ENSMUSG00000025875	Tspan17	2210021G21Rik|AI047581|Fbxo23|Tm4sf17	tetraspanin 17	protein-coding	204.0	334.0	124.0	1982.5	388.0	200.0	182.0	123.5
Merged-chr5-99983873-4	chr5	99983768	99983968	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4930.0	NM_001077267	11991.0	Mm.150231	NM_007516	ENSMUSG00000000568	Hnrnpd	Auf1|Hnrpd	heterogeneous nuclear ribonucleoprotein D	protein-coding	45.5	81.0	69.5	1086.0	128.5	50.5	54.0	47.5
Merged-chr1-57775096-3	chr1	57774996	57775196	+	962.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144882, intron 1 of 13)	CpG	235.0	NM_144882	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	15.0	13.5	24.0	217.5	15.0	7.0	12.0	5.0
Merged-chr12-109525774-4	chr12	109525672	109525872	+	702.416687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15224.0	NR_027652	17263.0	Mm.289645	NM_144513	ENSMUSG00000021268	Meg3	2900016C05Rik|3110050O07Rik|6330408G06Rik|AI425946|AW108224|D12Bwg1266e|Gtl2|R74756|R75394	maternally expressed 3	ncRNA	8.0	15.5	11.5	93.5	35.5	7.5	16.0	4.5
Merged-chr19-29828759-4	chr19	29828661	29828861	+	917.458374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE2b|LTR|ERVL-MaLR	-15787.0	NM_177721	240614.0	Mm.125503	NM_177721	ENSMUSG00000074909	Ranbp6	C630001B19	RAN binding protein 6	protein-coding	11.0	12.0	6.5	213.5	38.5	15.0	13.0	18.5
Merged-chr14-32783245-4	chr14	32783145	32783345	+	885.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2718.0	NM_001163616	69069.0	Mm.261609	NM_001163616	ENSMUSG00000041707	1810011H11Rik	4733401I05Rik	RIKEN cDNA 1810011H11 gene	protein-coding	7.5	10.0	13.0	239.0	18.0	12.5	15.0	4.0
Merged-chr2-84617962-4	chr2	84617884	84618084	+	991.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355064, intron 5 of 18)	intron (NM_001355064, intron 5 of 18)	31496.0	NM_001355065	12388.0	Mm.35738	NM_007615	ENSMUSG00000034101	Ctnnd1	AA409437|AU019353|Catns|Ctnnd|P120|mKIAA0384	catenin (cadherin associated protein), delta 1	protein-coding	21.5	27.0	12.0	272.5	42.0	23.5	18.0	23.5
Merged-chr11-20251420-4	chr11	20251340	20251540	+	979.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CT-rich|Low_complexity|Low_complexity	-2016.0	NM_172260	216543.0	Mm.260314	NM_172260	ENSMUSG00000044066	Cep68	6030463E10Rik|AI481761|BC027174|Kiaa0582	centrosomal protein 68	protein-coding	13.5	24.0	12.0	281.5	78.0	26.0	24.5	18.0
Merged-chr16-94609388-4	chr16	94609295	94609495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113389, intron 1 of 11)	intron (NM_001113389, intron 1 of 11)	-2024.0	NM_001347731	13548.0	Mm.310973	NM_007890	ENSMUSG00000022897	Dyrk1a	2310043O08Rik|D16Ertd272e|D16Ertd493e|Dyrk|Gm10783|Mnbh|Mp86|mmb	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1a	protein-coding	43.0	42.5	38.0	571.0	129.0	47.0	58.5	38.5
Merged-chr1-88225875-2	chr1	88225775	88225975	+	979.900024	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-1145.0	NM_001281466	100040766.0	Mm.386915	NM_001177364	ENSMUSG00000079429	Mroh2a	Heatr7b1	maestro heat-like repeat family member 2A	protein-coding	6.5	3.5	6.0	46.5	18.5	5.0	6.5	10.5
Merged-chr3-159840298-4	chr3	159840189	159840389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356350, intron 1 of 12)	intron (NM_001356350, intron 1 of 12)	639.0	NM_001356350	68151.0	Mm.6766	NM_026582	ENSMUSG00000028173	Wls	5031439A09Rik|AI173978|AI987742|EVI|Gpr177	wntless WNT ligand secretion mediator	protein-coding	32.0	26.5	34.5	382.0	47.5	30.0	35.5	24.5
Merged-chr1-156593506-4	chr1	156593407	156593607	+	966.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001136104, intron 1 of 12)	intron (NM_001136104, intron 1 of 12)	34720.0	NM_001136104	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	9.5	7.5	4.5	154.0	45.0	16.5	7.0	6.0
Merged-chr9-32485506-3	chr9	32485396	32485596	+	880.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	MLT1G1|LTR|ERVL-MaLR	55956.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	9.0	11.0	17.5	209.5	17.5	9.0	19.5	4.0
Merged-chr2-35061113-2	chr2	35061013	35061213	+	928.8333130000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_010406, intron 1 of 40)	intron (NM_010406, intron 1 of 40)	328.0	NM_010406	15139.0	Mm.2168	NM_010406	ENSMUSG00000026874	Hc	C5|C5a|He|Hfib2	hemolytic complement	protein-coding	3.0	1.0	0.5	50.5	7.5	5.5	7.0	4.5
Merged-chr4-149617114-6	chr4	149616983	149617183	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290989, intron 2 of 17)	intron (NM_001290989, intron 2 of 17)	30615.0	NM_023051	65945.0	Mm.38993	NM_023051	ENSMUSG00000039953	Clstn1	1810034E21Rik|Cst-1|Cstn1	calsyntenin 1	protein-coding	25.5	36.5	19.5	322.5	65.0	27.0	22.0	38.5
Merged-chr4-106875800-1	chr4	106875700	106875900	+	548.0	f0_balb.idr	Intergenic	Intergenic	-35670.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	6.5	6.5	7.0	178.5	7.0	7.5	7.5	1.5
Merged-chr1-55049270-4	chr1	55049165	55049365	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3505.0	NM_026424	67876.0	Mm.281019	NM_026424	ENSMUSG00000025981	Coq10b	1500041J02Rik|1700030I21Rik|9530077A17Rik|AV002237|AW742641	coenzyme Q10B	protein-coding	46.5	72.5	60.0	415.5	132.5	37.5	54.5	32.5
Merged-chr11-61950812-2	chr11	61950712	61950912	+	821.833374	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5951.0	NM_001281818	432572.0	Mm.438022	NM_001029936	ENSMUSG00000042331	Specc1	2810012G08Rik|B230396K10Rik|Cytsb	sperm antigen with calponin homology and coiled-coil domains 1	protein-coding	5.5	19.0	1.5	67.0	9.5	10.5	5.0	4.5
Merged-chr4-116708460-4	chr4	116708362	116708562	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025962)	promoter-TSS (NM_025962)	-77.0	NM_025962	67096.0	Mm.252785	NM_025962	ENSMUSG00000028690	Mmachc	1810037K07Rik|CblC	methylmalonic aciduria cblC type, with homocystinuria	protein-coding	174.0	189.5	212.0	2857.0	365.5	124.0	220.0	214.5
Merged-chr15-65737474-1	chr15	65737374	65737574	+	773.0	f0_balb.idr	Intergenic	Intergenic	-49546.0	NM_133766	76740.0	Mm.260647	NM_133766	ENSMUSG00000015002	Efr3a	A130089M23Rik|BB071175|C76891|C920006C10Rik|D030063F01Rik|mKIAA0143	EFR3 homolog A	protein-coding	9.0	6.0	4.5	149.0	0.0	1.0	0.0	0.0
Merged-chr9-35535261-4	chr9	35535161	35535361	+	927.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	23209.0	NM_013932	30959.0	Mm.291723	NM_013932	ENSMUSG00000032101	Ddx25	AW047046|GRTH	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	protein-coding	9.0	17.0	12.5	266.0	37.0	17.0	19.5	13.5
Merged-chr12-112724224-4	chr12	112724113	112724313	+	997.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001024602, intron 1 of 18)	MER45A|DNA|hAT-Tip100	2039.0	NM_001024602	217882.0	Mm.23689	NM_001024602	ENSMUSG00000072825	Cep170b	AI466840|AW555464|Kiaa0284|mKIAA0284	centrosomal protein 170B	protein-coding	22.5	40.0	25.0	184.5	45.0	19.5	20.0	22.0
Merged-chr10-60344323-4	chr10	60344219	60344419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 37 of 68)	intron (NM_001252635, intron 37 of 68)	-2532.0	NM_001159572	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	34.0	50.0	34.5	431.5	52.0	17.0	26.5	21.0
Merged-chr3-137991369-4	chr3	137991276	137991476	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9827.0	NM_011932	26377.0	Mm.254835	NM_011932	ENSMUSG00000028159	Dapp1	Bam32	dual adaptor for phosphotyrosine and 3-phosphoinositides 1	protein-coding	42.5	48.5	19.5	426.5	68.5	34.0	30.0	24.5
Merged-chr9-40783301-6	chr9	40783230	40783430	+	943.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_133733, exon 7 of 7)	3' UTR (NM_133733, exon 7 of 7)	-17943.0	NM_031165	15481.0	Mm.290774	NM_031165	ENSMUSG00000015656	Hspa8	2410008N15Rik|Hsc70|Hsc71|Hsc73|Hsp73|Hspa10	heat shock protein 8	protein-coding	14.0	23.0	9.5	59.5	25.5	13.0	13.5	12.0
Merged-chr4-53198526-4	chr4	53198425	53198625	+	912.841675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-38630.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	18.0	12.5	18.5	111.5	46.5	20.5	15.0	14.5
Merged-chr10-19596798-4	chr10	19596670	19596870	+	900.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010511, intron 1 of 6)	MTEb|LTR|ERVL-MaLR	4821.0	NM_010511	15979.0	Mm.549	NM_010511	ENSMUSG00000020009	Ifngr1	CD119|IFN-gammaR|Ifgr|Ifngr|Nktar	interferon gamma receptor 1	protein-coding	15.0	16.5	11.5	201.0	37.5	12.0	7.5	16.5
Merged-chr11-117176568-3	chr11	117176460	117176660	+	875.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23101.0	NM_001113486	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	8.0	10.0	3.0	21.5	19.0	12.0	7.5	13.0
Merged-chr6-57767293-3	chr6	57767185	57767385	+	727.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146168, intron 3 of 4)	intron (NM_146168, intron 3 of 4)	57840.0	NM_146168	232023.0	Mm.24642	NM_146168	ENSMUSG00000037788	Vopp1	AW146242|Ecop	vesicular, overexpressed in cancer, prosurvival protein 1	protein-coding	9.0	12.5	4.0	72.5	12.0	4.5	8.5	8.5
Merged-chr19-56721215-4	chr19	56721136	56721336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1136.0	NM_007419	11554.0	Mm.46797	NM_007419	ENSMUSG00000035283	Adrb1	Adrb-1|beta-AR	adrenergic receptor, beta 1	protein-coding	44.5	99.5	39.0	596.0	102.0	58.5	38.5	32.0
Merged-chr11-70499843-5	chr11	70499771	70499971	+	908.2333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5403.0	NM_029360	75604.0	Mm.24400	NM_029360	ENSMUSG00000018919	Tm4sf5	2010003F10Rik|AI323987	transmembrane 4 superfamily member 5	protein-coding	11.0	21.0	24.0	128.5	33.0	20.5	11.0	12.5
Merged-chr3-28109519-3	chr3	28109464	28109664	+	834.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008875, intron 20 of 25)	intron (NM_008875, intron 20 of 25)	125393.0	NM_008875	18805.0	Mm.212039	NM_008875	ENSMUSG00000027695	Pld1	AA536939|C85393|Pld1a|Pld1b|mPLD1	phospholipase D1	protein-coding	4.5	6.5	10.0	253.5	13.5	4.5	9.0	5.5
Merged-chr11-69123629-4	chr11	69123552	69123752	+	974.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_033041)	TTS (NM_033041)	-2725.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	13.0	24.5	6.5	128.5	50.0	24.0	14.0	32.5
Merged-chr15-73720949-4	chr15	73720869	73721069	+	906.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2176.0	NM_001166390	19245.0	Mm.390807	NM_008975	ENSMUSG00000059895	Ptp4a3	AV088979|Prl-3|pPtp4a3	protein tyrosine phosphatase 4a3	protein-coding	11.5	23.5	6.5	192.5	47.0	7.5	19.0	14.5
Merged-chr3-55113177-7	chr3	55113066	55113266	+	928.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001144987, intron 1 of 8)	intron (NM_001144987, intron 1 of 8)	1000.0	NM_001144987	229285.0	Mm.235523	NM_144895	ENSMUSG00000036580	Spg20	AI840044|C79168|SPARTIN|Spart|TAHCCP1|mKIAA0610	spastic paraplegia 20, spartin (Troyer syndrome) homolog (human)	protein-coding	8.0	9.5	11.0	104.5	17.0	8.5	5.0	16.0
Merged-chr5-103763162-4	chr5	103763069	103763269	+	891.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080798, intron 1 of 19)	intron (NM_001080798, intron 1 of 19)	8596.0	NM_001080798	17355.0	Mm.6949	NM_133919	ENSMUSG00000029313	Aff1	9630032B01Rik|AW319193|Af4|Mllt2h|Rob	AF4/FMR2 family, member 1	protein-coding	14.5	20.5	12.5	141.0	37.5	9.5	10.0	13.5
Merged-chr2-25608436-4	chr2	25608299	25608499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024616)	promoter-TSS (NM_001024616)	47.0	NM_001024616	227624.0	Mm.29600	NM_001024616	ENSMUSG00000015087	Rabl6	B230208H17Rik|Rbel1|Rbel1a|Rbel1b|parf	RAB, member RAS oncogene family-like 6	protein-coding	33.0	52.5	29.0	348.5	84.0	28.0	29.5	42.0
Merged-chr7-19272247-4	chr7	19272181	19272381	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001282021)	promoter-TSS (NM_001282021)	-427.0	NM_001282022	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	29.5	36.0	18.0	216.5	128.5	47.0	21.5	46.5
Merged-chr16-58475036-4	chr16	58474930	58475130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 7 of 10)	intron (NM_001357433, intron 7 of 10)	48396.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	61.0	122.5	91.0	1087.0	114.0	65.5	73.0	56.0
Merged-chr3-88745606-2	chr3	88745507	88745707	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_018804, exon 4 of 4)	3' UTR (NM_018804, exon 4 of 4)	26992.0	NM_018804	229521.0	Mm.379376	NM_018804	ENSMUSG00000068923	Syt11	1500004A13Rik|3632445O20Rik|5430404N14Rik|6530420C11Rik|AI851970	synaptotagmin XI	protein-coding	4.5	4.5	1.5	50.5	17.5	7.5	5.0	18.0
Merged-chr10-44658437-4	chr10	44658347	44658547	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-199699.0	NM_007548	12142.0	Mm.4800	NM_007548	ENSMUSG00000038151	Prdm1	Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo	PR domain containing 1, with ZNF domain	protein-coding	114.0	119.5	124.5	1451.5	184.5	59.5	53.0	62.5
Merged-chr2-167751756-4	chr2	167751659	167751859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	60582.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	31.0	46.0	25.5	482.5	73.0	20.5	46.5	38.0
Merged-chr5-115530658-4	chr5	115530535	115530735	+	927.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011223, intron 1 of 10)	intron (NM_011223, intron 1 of 10)	23959.0	NM_133915	19303.0	Mm.18714	NM_011223	ENSMUSG00000029528	Pxn	AW108311|AW123232|Pax	paxillin	protein-coding	11.0	5.5	14.0	195.5	32.5	10.5	13.5	22.0
Merged-chr14-20829975-4	chr14	20829872	20830072	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6690.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	68.5	86.5	51.0	750.5	178.5	84.5	52.0	60.5
Merged-chr12-102368257-4	chr12	102368146	102368346	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177620, intron 5 of 9)	intron (NM_177620, intron 5 of 9)	71567.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	67.5	109.0	123.0	1496.0	185.5	64.5	100.5	84.5
Merged-chr5-122637138-3	chr5	122637046	122637246	+	993.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6765.0	NM_001038839	18439.0	Mm.42026	NM_011027	ENSMUSG00000029468	P2rx7	AI467586|P2X(7)|P2X7R	purinergic receptor P2X, ligand-gated ion channel, 7	protein-coding	29.0	40.0	14.5	378.5	12.0	6.5	9.5	5.0
Merged-chr4-118425629-4	chr4	118425558	118425758	+	945.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2435.0	NM_001039175	54325.0	Mm.282096	NM_019422	ENSMUSG00000006390	Elovl1	AA407424|BB151133|Ssc1	elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1	protein-coding	9.5	18.0	15.5	117.0	30.0	12.5	17.5	22.5
Merged-chr11-78745722-4	chr11	78745630	78745830	+	951.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5999.0	NM_197989	69109.0	Mm.341420	NM_197989	ENSMUSG00000049489	Fam58b	1810009O10Rik|Ccnq|Fam58a	family with sequence similarity 58, member B	protein-coding	17.5	21.5	12.0	180.5	31.5	12.5	18.5	16.0
Merged-chr10-126978588-4	chr10	126978500	126978700	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001113470)	promoter-TSS (NM_001113470)	-117.0	NM_001113470	52468.0	Mm.29490	NM_146012	ENSMUSG00000078429	Ctdsp2	AI586070|D10Ertd73e|OS-4|OS4|SCP2	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2	protein-coding	107.0	146.0	94.0	1467.0	297.5	100.5	126.5	131.5
Merged-chr12-112627638-3	chr12	112627533	112627733	+	772.722229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007421, intron 1 of 12)	intron (NM_007421, intron 1 of 12)	7586.0	NM_007421	11565.0	Mm.3440	NM_007421	ENSMUSG00000011148	Adssl1	AI528595|Adss|Adss1	adenylosuccinate synthetase like 1	protein-coding	11.5	9.5	6.5	95.5	11.0	4.0	2.5	6.5
Merged-chr3-79842319-4	chr3	79842235	79842435	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027495, intron 1 of 11)	intron (NM_027495, intron 1 of 11)	327.0	NM_027495	70652.0	Mm.46635	NM_027495	ENSMUSG00000027956	Tmem144	1110057I03Rik|5730537D05Rik	transmembrane protein 144	protein-coding	22.0	35.0	17.5	276.0	83.5	18.0	23.5	23.0
Merged-chr3-108017509-4	chr3	108017370	108017570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010358, intron 1 of 7)	intron (NM_010358, intron 1 of 7)	503.0	NM_010358	14862.0	Mm.37199	NM_010358	ENSMUSG00000058135	Gstm1	Gstb-1|Gstb1	glutathione S-transferase, mu 1	protein-coding	55.0	73.0	34.0	444.5	85.0	51.5	51.5	25.0
Merged-chr16-85801404-3	chr16	85801322	85801522	+	984.8666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009621, intron 1 of 8)	intron (NM_009621, intron 1 of 8)	1691.0	NM_009621	11504.0	Mm.1421	NM_009621	ENSMUSG00000022893	Adamts1	ADAM-TS1|ADAMTS|ADAMTS-1|C3-C5|METH-1|METH1	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 1	protein-coding	11.5	21.0	18.5	216.5	4.0	1.5	4.0	1.5
Merged-chr9-44258464-4	chr9	44258366	44258566	+	946.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178420, intron 6 of 9)	CT-rich|Low_complexity|Low_complexity	-7002.0	NM_133226	170761.0	Mm.29872	NM_133226	ENSMUSG00000032105	Pdzd3	NaPi-Cap2|Pdzk2	PDZ domain containing 3	protein-coding	14.5	20.5	12.5	186.5	44.5	11.5	13.0	26.5
Merged-chr1-105994865-2	chr1	105994765	105994965	+	729.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001122675, intron 1 of 12)	intron (NM_001122675, intron 1 of 12)	4459.0	NM_001122675	227449.0	Mm.210188	NM_001122675	ENSMUSG00000038866	Zcchc2	9930114B20Rik|AW212015	zinc finger, CCHC domain containing 2	protein-coding	6.5	6.5	15.0	49.0	18.5	1.0	1.0	5.5
Merged-chr4-12419441-4	chr4	12419343	12419543	+	907.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-247428.0	NM_026558	68099.0	Mm.25340	NM_026558	ENSMUSG00000028218	Fam92a	6720467C03Rik|Fam92a1	family with sequence similarity 92, member A	protein-coding	13.5	24.5	23.0	366.5	30.0	8.0	13.0	9.5
Merged-chr8-68590749-3	chr8	68590653	68590853	+	992.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172753, intron 2 of 9)	intron (NM_172753, intron 2 of 9)	144393.0	NM_001252623	234356.0	Mm.334569	NM_172753	ENSMUSG00000036356	Csgalnact1	4732435N03Rik|CSGalNAcT-1	chondroitin sulfate N-acetylgalactosaminyltransferase 1	protein-coding	7.5	2.0	3.0	104.0	62.0	30.5	34.0	57.0
Merged-chr11-80156318-4	chr11	80156200	80156400	+	809.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172133, intron 2 of 10)	intron (NM_172133, intron 2 of 10)	2138.0	NM_172133	216991.0	Mm.341520	NM_172133	ENSMUSG00000020709	Adap2	Centa2	ArfGAP with dual PH domains 2	protein-coding	15.5	31.5	5.5	79.0	17.0	19.0	6.0	10.0
Merged-chr10-25427580-3	chr10	25427510	25427710	+	645.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013511, intron 1 of 19)	intron (NM_013511, intron 1 of 19)	19242.0	NM_013511	13822.0	Mm.306026	NM_013511	ENSMUSG00000019978	Epb41l2	4.1G|AW555191|D10Ertd398e|Epb4.1l2|NBL2	erythrocyte membrane protein band 4.1 like 2	protein-coding	4.0	6.0	5.0	83.0	13.0	5.0	5.0	7.0
Merged-chr3-31216112-4	chr3	31215970	31216170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172861, intron 7 of 7)	L1MA4|LINE|L1	66150.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	35.5	31.5	27.0	761.5	51.0	12.5	28.5	35.5
Merged-chr10-81404924-4	chr10	81404729	81404929	+	979.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_008688, exon 8 of 10)	exon (NM_008688, exon 8 of 10)	-4746.0	NR_152732	102634174.0	Mm.392213	NR_152732	ENSMUSG00000085327	Gm16104	-	predicted gene 16104	ncRNA	9.0	11.0	17.5	265.0	12.5	7.0	15.0	11.0
Merged-chr14-19823928-4	chr14	19823842	19824042	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026528)	promoter-TSS (NM_026528)	-119.0	NM_026528	68045.0	Mm.21932	NM_026528	ENSMUSG00000021807	Rtraf	2700060E02Rik	RNA transcription, translation and transport factor	protein-coding	199.0	259.0	165.5	2604.5	435.0	172.0	199.0	195.5
Merged-chr7-133635746-4	chr7	133635648	133635848	+	927.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1927.0	NM_178115	214764.0	Mm.174044	NM_145995	ENSMUSG00000039990	Edrf1	2700050L05Rik|AU022667|AW558805	erythroid differentiation regulatory factor 1	protein-coding	6.0	11.5	15.0	212.0	39.5	8.0	18.5	14.0
Merged-chr14-54894478-1	chr14	54894378	54894578	+	1000.0	f0_balb.idr	exon (NM_019402, exon 1 of 7)	exon (NM_019402, exon 1 of 7)	335.0	NM_019402	54196.0	Mm.7723	NM_019402	ENSMUSG00000022194	Pabpn1	PAB2|Pabp3|mPABII	poly(A) binding protein, nuclear 1	protein-coding	25.0	28.0	36.0	322.0	59.0	23.5	20.5	26.0
Merged-chr16-33917642-4	chr16	33917537	33917737	+	989.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145884, intron 9 of 14)	intron (NM_001145884, intron 9 of 14)	49401.0	NM_001348087	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	33.5	23.5	58.0	990.5	63.0	13.0	43.0	50.0
Merged-chr5-41519141-3	chr5	41519036	41519236	+	900.8110960000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	188555.0	NM_001310592	100972.0	Mm.41555	NM_027295	ENSMUSG00000029128	Rab28	2700023P08Rik|AW496496	RAB28, member RAS oncogene family	protein-coding	1.0	0.0	3.0	15.0	77.0	28.5	19.0	19.0
Merged-chr6-94159443-4	chr6	94159323	94159523	+	929.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_130996, intron 1 of 1)	intron (NR_130996, intron 1 of 1)	78019.0	NR_130996	78178.0	Mm.452749	NR_130996	ENSMUSG00000045095	4930511A08Rik	-	RIKEN cDNA 4930511A08 gene	ncRNA	48.5	126.0	54.5	1536.5	41.5	12.5	13.0	12.5
Merged-chr1-172305401-1	chr1	172305301	172305501	+	713.0	f0_balb.idr	Intergenic	Intergenic	-6966.0	NM_080419	140559.0	Mm.271717	NM_080419	ENSMUSG00000038034	Igsf8	ESTM34|EWI-2|KCT-4|PGRL	immunoglobulin superfamily, member 8	protein-coding	8.5	12.0	6.5	90.5	11.5	0.5	5.0	1.0
Merged-chr7-104370318-4	chr7	104370205	104370405	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11659.0	NM_175648	244183.0	Mm.347647	NM_175648	ENSMUSG00000052749	Trim30b	A530023O14Rik|Trim30-1	tripartite motif-containing 30B	protein-coding	73.0	103.0	63.5	510.0	192.0	68.0	108.0	74.5
Merged-chr2-93334523-4	chr2	93334435	93334635	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183180)	promoter-TSS (NM_183180)	-48.0	NM_183180	241556.0	Mm.274159	NM_183180	ENSMUSG00000027217	Tspan18	2610042G18Rik|6720430O15|BB226562	tetraspanin 18	protein-coding	44.0	29.0	38.5	520.5	67.5	15.5	31.0	26.5
Merged-chr1-173426536-4	chr1	173426443	173426643	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013779, intron 1 of 8)	intron (NM_001013779, intron 1 of 8)	5939.0	NM_001013779	383619.0	Mm.131453	NM_001013779	ENSMUSG00000037860	Aim2	Gm1313|Ifi210	absent in melanoma 2	protein-coding	49.0	93.5	33.5	705.0	112.0	53.5	56.0	63.5
Merged-chr1-46970633-3	chr1	46970535	46970735	+	756.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44859.0	NM_001356417	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	14.0	19.0	14.5	127.5	7.0	3.5	7.5	7.0
Merged-chr14-101594490-4	chr14	101594350	101594550	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081278, intron 1 of 18)	intron (NM_001081278, intron 1 of 18)	14741.0	NM_001081278	210789.0	Mm.320639	NM_173380	ENSMUSG00000033083	Tbc1d4	5930406J04Rik|A930035N22|AV295684|As160	TBC1 domain family, member 4	protein-coding	105.5	111.0	135.0	1722.5	235.5	62.5	93.5	71.0
Merged-chr10-118981281-3	chr10	118981179	118981379	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-54136.0	NR_110482	216377.0	Mm.208936	NR_110482	ENSMUSG00000112854	Gm38403	C230029M16	predicted gene, 38403	ncRNA	35.0	47.5	25.0	361.5	87.5	33.0	34.0	44.0
Merged-chr11-79119020-4	chr11	79118906	79119106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013571, intron 1 of 17)	intron (NM_013571, intron 1 of 17)	27467.0	NM_013571	16706.0	Mm.4745	NM_013571	ENSMUSG00000018334	Ksr1	AW492498|B-KSR1|D11Bhm183e|D11Bhm184e|Ksr|RSU2|hb|mKSR1	kinase suppressor of ras 1	protein-coding	77.5	120.0	58.5	1153.5	174.0	79.5	78.5	82.0
Merged-chr11-96824265-4	chr11	96824144	96824344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130454)	promoter-TSS (NM_001130454)	-117.0	NM_001130451	18023.0	Mm.6743	NM_008686	ENSMUSG00000038615	Nfe2l1	AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11	nuclear factor, erythroid derived 2,-like 1	protein-coding	35.5	62.5	29.5	444.0	129.5	30.5	31.5	33.0
Merged-chr12-99511923-4	chr12	99511822	99512022	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51919.0	NR_136760	102639404.0	Mm.396324	NR_136760	ENSMUSG00000097917	Gm26839	-	predicted gene, 26839	ncRNA	26.5	31.5	30.5	455.5	117.5	24.0	14.0	31.0
Merged-chr5-140206043-4	chr5	140205948	140206148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152617, intron 10 of 16)	intron (NR_152617, intron 10 of 16)	-31130.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	30.0	38.0	48.5	465.0	39.5	24.0	27.0	20.0
Merged-chr2-73372172-3	chr2	73372067	73372267	+	894.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276444, intron 4 of 15)	intron (NM_001276444, intron 4 of 15)	14313.0	NM_001276443	68526.0	Mm.451014	NM_001080707	ENSMUSG00000041762	Gpr155	1110017O10Rik|DEPDC3|F730029F15Rik|PGR22	G protein-coupled receptor 155	protein-coding	8.5	11.5	18.0	102.5	9.5	1.0	4.0	3.0
Merged-chr5-33039607-4	chr5	33039497	33039697	+	869.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	20781.0	NM_011738	22629.0	Mm.332314	NM_011738	ENSMUSG00000018965	Ywhah	-	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide	protein-coding	15.5	19.5	4.5	111.5	36.0	8.0	8.5	11.0
Merged-chr14-73384364-4	chr14	73384247	73384447	+	866.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008410, intron 1 of 5)	intron (NM_008410, intron 1 of 5)	942.0	NM_008410	16432.0	Mm.4266	NM_008410	ENSMUSG00000022108	Itm2b	AI256040|Bri|Bri2|Bricd2b|D14Sel6|E25BMM|imBRI2	integral membrane protein 2B	protein-coding	8.5	3.0	7.0	139.5	21.0	10.0	9.0	8.0
Merged-chr11-55008393-4	chr11	55008299	55008499	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138556, intron 6 of 24)	L2b|LINE|L2	25072.0	NR_138556	11749.0	Mm.265347	NM_013472	ENSMUSG00000018340	Anxa6	AW107198|Anx6|AnxVI|Cabm|Camb	annexin A6	protein-coding	105.5	110.0	97.0	1591.5	187.5	62.0	91.5	93.5
Merged-chr4-109136981-3	chr4	109136882	109137082	+	854.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001355191, exon 1 of 21)	5' UTR (NM_001355191, exon 1 of 21)	931.0	NM_001355191	100273.0	Mm.366315	NM_133885	ENSMUSG00000028559	Osbpl9	2600011I06Rik|AU015843|Orp-9	oxysterol binding protein-like 9	protein-coding	12.5	21.5	19.5	306.5	10.5	4.5	8.0	4.5
Merged-chr13-37803388-4	chr13	37803289	37803489	+	949.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB3|LINE|L1	-22649.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	13.5	29.5	7.0	198.0	45.0	6.0	21.0	18.5
Merged-chr7-34912834-4	chr7	34912741	34912941	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008820, intron 1 of 14)	intron (NM_008820, intron 1 of 14)	434.0	NM_008820	18624.0	Mm.69751	NM_008820	ENSMUSG00000063931	Pepd	Pep-4|Pep4|dal	peptidase D	protein-coding	23.5	43.5	27.5	417.0	86.5	29.5	39.0	25.5
Merged-chr10-37342531-3	chr10	37342434	37342634	+	809.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	-203608.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	19.5	6.5	12.5	215.0	6.0	2.5	7.5	3.0
Merged-chr15-59685588-3	chr15	59685473	59685673	+	866.638916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36919.0	NM_144549	211770.0	Mm.40298	NM_144549	ENSMUSG00000032501	Trib1	A530090O15Rik|TRB-1|Trb1	tribbles pseudokinase 1	protein-coding	9.0	11.5	22.5	157.0	9.0	0.5	8.0	5.0
Merged-chr4-115984276-4	chr4	115984166	115984366	+	777.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	33658.0	NM_010173	14073.0	Mm.256025	NM_010173	ENSMUSG00000034171	Faah	AW412498	fatty acid amide hydrolase	protein-coding	9.0	6.0	4.5	76.0	20.0	9.5	13.5	14.0
Merged-chr19-8819921-4	chr19	8819847	8820047	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027412)	promoter-TSS (NM_027412)	546.0	NM_001081196	68693.0	Mm.476519	NM_001081196	ENSMUSG00000071659	Hnrnpul2	1110031M08Rik|AI465155|Hnrpul2	heterogeneous nuclear ribonucleoprotein U-like 2	protein-coding	190.0	229.0	133.5	1838.0	477.5	160.0	206.5	172.0
Merged-chr6-34945770-3	chr6	34945695	34945895	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001025573, exon 8 of 8)	3' UTR (NM_001025573, exon 8 of 8)	24847.0	NM_009292	20899.0	Mm.5171	NM_009292	ENSMUSG00000029848	Stra8	-	stimulated by retinoic acid gene 8	protein-coding	5.0	9.0	10.5	157.5	4.0	5.0	2.5	4.5
Merged-chr7-28709680-4	chr7	28709584	28709784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-7098.0	NM_001310687	50760.0	Mm.358659	NM_015796	ENSMUSG00000030598	Fbxo17	Fbg4|Fbx17|Fbxo26	F-box protein 17	protein-coding	41.5	40.5	25.5	641.0	79.5	22.5	41.0	41.0
Merged-chr10-118892717-3	chr10	118892613	118892813	+	796.611145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23810.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	6.5	12.5	9.5	170.5	10.5	9.5	12.0	11.5
Merged-chr11-23659058-4	chr11	23658971	23659171	+	958.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023651, intron 1 of 3)	intron (NM_023651, intron 1 of 3)	-6603.0	NM_028956	74467.0	Mm.29536	NM_028304	ENSMUSG00000020280	Pus10	2810013G11Rik|4933435A13Rik|AU014648|C77560|Ccdc139	pseudouridylate synthase 10	protein-coding	21.5	26.5	73.0	1126.5	36.0	11.5	14.5	23.5
Merged-chr11-76479312-4	chr11	76479180	76479380	+	996.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001346670, intron 2 of 21)	intron (NM_001346670, intron 2 of 21)	-10815.0	NM_001291186	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	22.0	23.0	17.5	193.0	28.0	6.0	7.5	10.0
Merged-chr17-28407659-4	chr17	28407569	28407769	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010220, intron 8 of 10)	intron (NM_010220, intron 8 of 10)	-42453.0	NM_021478	22157.0	Mm.42102	NM_021478	ENSMUSG00000037446	Tulp1	Tulp1l	tubby like protein 1	protein-coding	44.5	42.0	33.0	571.5	47.0	23.0	27.5	36.0
Merged-chr1-191069439-3	chr1	191069341	191069541	+	917.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198654, intron 2 of 5)	intron (NM_198654, intron 2 of 5)	6420.0	NM_198654	381318.0	Mm.32504	NM_198654	ENSMUSG00000062510	Nsl1	4833432M17Rik|AI451597|Gm105|Gm984	NSL1, MIS12 kinetochore complex component	protein-coding	1.5	8.0	4.0	59.0	31.0	9.5	5.5	8.5
Merged-chr8-47675234-4	chr8	47675122	47675322	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023503)	promoter-TSS (NM_023503)	-63.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	298.0	338.5	298.0	3656.5	717.0	317.5	366.0	365.5
Merged-chr11-116424257-4	chr11	116424161	116424361	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9833.0	NM_176902	319370.0	Mm.258466	NM_176902	ENSMUSG00000050628	Ubald2	1110014K08Rik|D030012E24Rik|Fam100b	UBA-like domain containing 2	protein-coding	113.0	156.0	88.5	1457.0	312.0	80.0	97.0	84.5
Merged-chr11-78475464-4	chr11	78475365	78475565	+	988.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001168521, intron 7 of 8)	ORR1F|LTR|ERVL-MaLR	9764.0	NM_026740	52466.0	Mm.131618	NM_026740	ENSMUSG00000020829	Slc46a1	1110002C08Rik|D11Ertd18e|HCP1|Pcft	solute carrier family 46, member 1	protein-coding	36.0	23.0	18.0	330.5	78.0	21.5	25.5	10.5
Merged-chr15-102518067-4	chr15	102517980	102518180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009319)	promoter-TSS (NM_009319)	-112.0	NM_001253795	21357.0	Mm.291485	NM_009319	ENSMUSG00000023051	Tarbp2	Prbp|TRBP	TARBP2, RISC loading complex RNA binding subunit	protein-coding	258.0	417.5	236.5	3653.0	692.5	335.5	361.5	301.5
Merged-chr18-5803130-4	chr18	5803028	5803228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	210481.0	NM_001360981	21417.0	Mm.3929	NM_011546	ENSMUSG00000024238	Zeb1	3110032K11Rik|AREB6|BZP|MEB1|Nil2|TCF-8|Tcf18|Tcf8|Tw|ZEB|Zfhep|Zfhx1a|Zfx1a|Zfx1ha|[delta]EF1	zinc finger E-box binding homeobox 1	protein-coding	185.0	300.0	218.0	2475.0	267.5	107.0	135.5	89.5
Merged-chr17-70737625-2	chr17	70737525	70737725	+	882.7999880000001	f1_balb.idr|f1_c57bl6.idr	intron (NM_001347411, intron 9 of 14)	intron (NM_001347411, intron 9 of 14)	109152.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	9.5	7.0	5.5	55.0	16.0	6.5	5.5	5.5
Merged-chr17-48409885-4	chr17	48409801	48410001	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357904)	promoter-TSS (NM_001357904)	-81.0	NM_010913	18044.0	Mm.4929	NM_010913	ENSMUSG00000023994	Nfya	AA407810|Cbf-b|SEZ-10|SEZ10	nuclear transcription factor-Y alpha	protein-coding	300.0	591.5	293.0	3501.5	839.0	382.0	407.0	317.0
Merged-chr10-51531037-4	chr10	51530948	51531148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTRIS3|LTR|ERV1	40150.0	NM_013532	14728.0	Mm.34408	NM_013532	ENSMUSG00000062593	Lilrb4a	CD85K|Gp49b|HM18|ILT3|LIR-5|Lilrb4|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4A	protein-coding	146.5	217.5	233.0	2442.0	366.5	191.5	208.5	213.0
Merged-chr7-98339231-4	chr7	98339124	98339324	+	972.81665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18016.0	NM_001360615	66190.0	Mm.334041	NM_025408	ENSMUSG00000030760	Acer3	1110057L18Rik|5430429L08Rik|AV015045|Phca|aPHC	alkaline ceramidase 3	protein-coding	24.5	27.0	9.5	367.5	48.5	12.5	24.0	32.5
Merged-chr10-14475091-4	chr10	14475008	14475208	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001002268, intron 2 of 24)	intron (NM_001002268, intron 2 of 24)	69928.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	67.5	104.0	94.5	1251.0	165.0	42.5	79.0	84.5
Merged-chr18-80739084-4	chr18	80738979	80739179	+	969.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015805, intron 27 of 28)	intron (NM_015805, intron 27 of 28)	-26008.0	NM_001164110	18018.0	Mm.329560	NM_016791	ENSMUSG00000033016	Nfatc1	2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb	nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1	protein-coding	34.5	33.0	47.0	944.0	26.5	21.5	31.5	31.5
Merged-chr9-119265702-6	chr9	119265616	119265816	+	917.861084	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359582, intron 8 of 18)	intron (NM_001359582, intron 8 of 18)	-34024.0	NR_033303	109280.0	Mm.261557	NM_175420	ENSMUSG00000092212	Slc22a13b-ps	9330176C04Rik|Slc22a13b	solute carrier family 22 (organic cation transporter), member 13b, pseudogene	pseudo	4.0	6.0	10.0	116.0	17.0	10.0	5.5	8.5
Merged-chr5-148956269-4	chr5	148956184	148956384	+	971.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6034.0	NR_040686	71473.0	Mm.90306	NR_040686	ENSMUSG00000079069	8430423G03Rik	-	RIKEN cDNA 8430423G03 gene	ncRNA	20.5	16.5	6.5	203.5	60.5	23.0	29.5	28.0
Merged-chr8-78624220-4	chr8	78624123	78624323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001009981, intron 5 of 10)	intron (NM_001009981, intron 5 of 10)	114895.0	NM_001282108	76775.0	Mm.334631	NM_029736	ENSMUSG00000031684	Slc10a7	2410193C02Rik|P7	solute carrier family 10 (sodium/bile acid cotransporter family), member 7	protein-coding	115.5	97.5	88.5	1482.5	297.0	108.5	118.0	124.0
Merged-chr9-118633038-4	chr9	118632928	118633128	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 3 of 27)	intron (NM_133721, intron 3 of 27)	26319.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	64.0	66.0	46.0	1268.5	113.0	20.5	65.5	57.5
Merged-chr18-36713013-3	chr18	36712954	36713154	+	571.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	13761.0	NM_009841	12475.0	Mm.3460	NM_009841	ENSMUSG00000051439	Cd14	-	CD14 antigen	protein-coding	2.0	1.0	6.0	93.0	14.5	11.0	8.5	12.0
Merged-chr11-83544462-4	chr11	83544338	83544538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13920.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	55.0	102.0	62.0	716.0	131.5	50.0	61.0	30.5
Merged-chr5-130845776-3	chr5	130845632	130845832	+	730.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	396940.0	NM_021371	140904.0	Mm.40875	NM_021371	ENSMUSG00000060371	Caln1	9630012C17Rik|Cabp8|MNCb-0849	calneuron 1	protein-coding	6.0	7.5	5.5	112.0	11.0	6.0	3.5	2.0
Merged-chr9-21287905-6	chr9	21287782	21287982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145416)	promoter-TSS (NM_145416)	87.0	NM_145416	215194.0	Mm.290690	NM_145416	ENSMUSG00000035047	Kri1	-	KRI1 homolog	protein-coding	76.0	176.0	128.5	1514.5	220.5	120.5	111.0	111.5
Merged-chr19-4201703-4	chr19	4201596	4201796	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011237)	promoter-TSS (NM_011237)	-93.0	NM_011237	19367.0	Mm.277629	NM_011237	ENSMUSG00000024824	Rad9a	Rad9	RAD9 checkpoint clamp component A	protein-coding	38.0	56.0	38.0	442.5	99.5	32.0	38.5	27.0
Merged-chr9-59725746-4	chr9	59725642	59725842	+	937.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17978.0	NM_001033498	546134.0	Mm.297580	NM_001033498	ENSMUSG00000074259	Gramd2	BC064463|Gramd2a	GRAM domain containing 2	protein-coding	26.0	17.0	17.0	320.0	48.0	8.0	11.5	25.5
Merged-chr18-23912252-4	chr18	23912163	23912363	+	977.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42425.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	23.0	24.0	27.0	253.5	44.5	13.5	12.5	21.5
Merged-chr12-56428383-2	chr12	56428288	56428488	+	754.5	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	-82494.0	NM_145442	217588.0	Mm.25656	NM_145442	ENSMUSG00000021028	Mbip	4933408E06Rik	MAP3K12 binding inhibitory protein 1	protein-coding	4.5	4.5	9.0	101.5	26.5	5.5	16.0	10.0
Merged-chr18-66410642-4	chr18	66410539	66410739	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47965.0	NM_021451	58801.0	Mm.271878	NM_021451	ENSMUSG00000024521	Pmaip1	Noxa	phorbol-12-myristate-13-acetate-induced protein 1	protein-coding	35.0	46.0	26.0	669.5	81.0	44.0	35.5	54.5
Merged-chr6-116756564-4	chr6	116756459	116756659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39801.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	39.5	65.5	49.5	493.0	56.0	16.0	32.5	31.5
Merged-chr19-5964229-4	chr19	5964125	5964325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008893)	promoter-TSS (NM_008893)	-19.0	NM_008893	18969.0	Mm.209931	NM_008893	ENSMUSG00000024833	Pola2	AI573378	polymerase (DNA directed), alpha 2	protein-coding	47.0	66.0	28.0	451.5	150.0	72.5	43.5	49.0
Merged-chr7-118118127-4	chr7	118118019	118118219	+	955.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_019419)	TTS (NM_019419)	-1972.0	NM_170669	267019.0	Mm.288212	NM_170669	ENSMUSG00000008683	Rps15a	A630031B11Rik	ribosomal protein S15A	protein-coding	13.5	35.0	6.5	214.5	51.0	21.0	19.5	26.5
Merged-chr1-64617744-4	chr1	64617639	64617839	+	950.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025964)	promoter-TSS (NM_025964)	-571.0	NM_025964	67099.0	Mm.46394	NM_025964	ENSMUSG00000025956	Mettl21a	2310038H17Rik|AI464204|Fam119a	methyltransferase like 21A	protein-coding	21.0	19.5	10.0	211.5	50.5	18.5	16.5	35.0
Merged-chr2-157840743-4	chr2	157840651	157840851	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025680, intron 11 of 15)	intron (NM_025680, intron 11 of 15)	-73902.0	NM_198627	277432.0	Mm.441156	NM_198627	ENSMUSG00000037843	Vstm2l	Gm691	V-set and transmembrane domain containing 2-like	protein-coding	54.5	95.5	96.5	1784.0	122.0	48.5	63.0	54.0
Merged-chr5-123664905-4	chr5	123664820	123665020	+	802.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359224, intron 1 of 18)	intron (NM_001359224, intron 1 of 18)	19441.0	NM_019765	56430.0	Mm.241109	NM_019765	ENSMUSG00000049550	Clip1	1110007I12Rik|4631429H07Rik|AV017631|C81039|CLIP-170|CLIP170|CYLN1|Clip50|Rsn|mKIAA4046|restin	CAP-GLY domain containing linker protein 1	protein-coding	10.5	26.5	12.5	208.0	38.5	6.5	14.5	14.5
Merged-chr17-56758271-4	chr17	56758143	56758343	+	704.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008738)	promoter-TSS (NM_008738)	-695.0	NM_008738	18188.0	Mm.8074	NM_008738	ENSMUSG00000039481	Nrtn	NTN	neurturin	protein-coding	11.5	14.0	10.5	53.5	16.5	9.0	10.5	6.5
Merged-chr3-96245318-4	chr3	96245243	96245443	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013549)	promoter-TSS (NM_013549)	-114.0	NM_178212	319192.0	Mm.5220	NM_178212	ENSMUSG00000063954	Hist2h2aa2	H2a-614|H2a-615	histone cluster 2, H2aa2	protein-coding	42.0	58.5	24.5	213.0	278.5	104.0	107.5	118.0
Merged-chr1-119526349-4	chr1	119526240	119526440	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_146103, exon 1 of 1)	5' UTR (NM_146103, exon 1 of 1)	186.0	NM_146103	226351.0	Mm.439806	NM_146103	ENSMUSG00000098923	Tmem185b	2500001K11Rik	transmembrane protein 185B	protein-coding	89.0	159.0	181.5	1690.0	165.5	105.0	105.0	111.5
Merged-chr2-156311008-3	chr2	156310890	156311090	+	820.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_020255)	TTS (NM_020255)	-1483.0	NM_027585	70873.0	Mm.475234	NM_027585	ENSMUSG00000038085	Cnbd2	4921517L17Rik|5430421B09Rik|Cris	cyclic nucleotide binding domain containing 2	protein-coding	8.0	7.5	3.0	22.5	26.0	4.5	11.5	6.5
Merged-chr3-33844320-4	chr3	33844226	33844426	+	994.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026222)	promoter-TSS (NM_026222)	-16.0	NM_026222	51938.0	Mm.275710	NM_026222	ENSMUSG00000027676	Ccdc39	4921507O14Rik|AI447426|AI844750|D3Ertd789e|b2b1304Clo|b2b1735Clo|b2b2025.1Clo|prh	coiled-coil domain containing 39	protein-coding	36.5	43.5	32.0	464.5	83.5	18.5	44.0	39.0
Merged-chr3-89210955-3	chr3	89210856	89211056	+	941.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357367, intron 2 of 6)	intron (NM_001357367, intron 2 of 6)	3379.0	NM_013604	17827.0	Mm.280943	NM_013604	ENSMUSG00000064068	Mtx1	Gcap6|Mtx	metaxin 1	protein-coding	11.0	11.5	5.5	129.5	24.5	6.5	14.0	8.0
Merged-chr12-80116490-3	chr12	80116384	80116584	+	872.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3471.0	NM_007564	12192.0	Mm.235132	NM_007564	ENSMUSG00000021127	Zfp36l1	AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1	zinc finger protein 36, C3H type-like 1	protein-coding	6.0	9.5	2.5	57.5	25.5	8.0	12.0	9.5
Merged-chr6-83115507-4	chr6	83115393	83115593	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_020619)	promoter-TSS (NM_020619)	-13.0	NM_020619	57377.0	Mm.28188	NM_020619	ENSMUSG00000030036	Mogs	1810017N02Rik|AI181835|Gcs1	mannosyl-oligosaccharide glucosidase	protein-coding	120.5	165.5	96.0	1295.5	265.5	129.5	138.0	105.5
Merged-chr16-55820337-4	chr16	55820237	55820437	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159395, intron 2 of 12)	intron (NM_001159395, intron 2 of 12)	1801.0	NM_001159394	80859.0	Mm.247272	NM_030612	ENSMUSG00000035356	Nfkbiz	AA408868|INAP|Mail	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, zeta	protein-coding	19.5	28.5	19.0	140.5	72.5	14.0	34.0	15.5
Merged-chr5-38039968-4	chr5	38039857	38040057	+	886.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359398, intron 1 of 9)	intron (NM_001359398, intron 1 of 9)	727.0	NM_026959	71116.0	Mm.18959	NM_026959	ENSMUSG00000029125	Stx18	1810035L21Rik|4933425D03Rik|AU041562	syntaxin 18	protein-coding	11.0	9.0	10.5	168.5	18.0	11.5	9.5	10.5
Merged-chr3-90251716-4	chr3	90251645	90251845	+	960.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_013901, exon 4 of 4)	exon (NM_013901, exon 4 of 4)	-2113.0	NR_151631	74343.0	Mm.35627	NM_028881	ENSMUSG00000027936	Crtc2	4632407F12Rik|Torc2	CREB regulated transcription coactivator 2	protein-coding	5.0	22.5	15.5	222.0	23.0	1.5	14.5	16.0
Merged-chr3-87338132-4	chr3	87338024	87338224	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8b|LINE|L1	-19757.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	106.0	187.5	106.0	1586.0	275.0	104.0	109.0	159.0
Merged-chr13-83649976-3	chr13	83649854	83650054	+	946.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347576, intron 6 of 10)	intron (NM_001347576, intron 6 of 10)	-71427.0	NR_152244	320203.0	Mm.245636	NM_177100	ENSMUSG00000050334	C130071C03Rik	2810449C10Rik|ECONEXIN|EyeLinc1|Visc-1	RIKEN cDNA C130071C03 gene	ncRNA	14.5	5.5	6.5	178.0	4.5	2.5	3.0	5.0
Merged-chr2-27769349-3	chr2	27769239	27769439	+	781.866699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	58756.0	NM_001290482	20181.0	Mm.24624	NM_011305	ENSMUSG00000015846	Rxra	9530071D11Rik|Nr2b1|RXRalpha1	retinoid X receptor alpha	protein-coding	8.5	43.5	10.0	55.0	10.5	7.5	3.5	11.5
Merged-chr2-34639443-4	chr2	34639347	34639547	+	766.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	115785.0	NM_001356441	66691.0	Mm.156452	NM_025709	ENSMUSG00000026867	Gapvd1	2010005B09Rik|4432404J10Rik|AW108497|Gapex-5|RAP6|RME-6|mKIAA1521	GTPase activating protein and VPS9 domains 1	protein-coding	10.5	12.5	4.5	96.0	19.0	5.0	13.0	2.5
Merged-chr2-32450000-4	chr2	32449903	32450103	+	977.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_194335)	promoter-TSS (NM_194335)	-454.0	NM_194335	71254.0	Mm.102341	NM_194335	ENSMUSG00000039164	Naif1	2310007O20Rik|4933440H19Rik	nuclear apoptosis inducing factor 1	protein-coding	16.0	21.0	27.0	431.0	74.5	15.5	19.0	27.0
Merged-chr4-10912808-4	chr4	10912695	10912895	+	976.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38297.0	NM_026005	67157.0	Mm.440552	NM_026005	ENSMUSG00000059482	2610301B20Rik	AI428449	RIKEN cDNA 2610301B20 gene	protein-coding	39.0	57.0	15.0	464.5	64.0	31.5	18.5	22.0
Merged-chr10-80663770-4	chr10	80663672	80663872	+	943.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6701.0	NM_145361	208198.0	Mm.60720	NM_145361	ENSMUSG00000003344	Btbd2	2610037C03Rik|4930512K17Rik	BTB (POZ) domain containing 2	protein-coding	17.0	68.0	14.5	283.0	61.5	34.0	12.0	16.0
Merged-chr17-80139067-4	chr17	80139018	80139218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176963, intron 2 of 6)	intron (NM_176963, intron 2 of 6)	11647.0	NM_176963	319625.0	Mm.29098	NM_176963	ENSMUSG00000035473	Galm	A530057M15Rik|AU015645|AU020959	galactose mutarotase	protein-coding	19.5	20.5	27.5	403.5	48.0	13.0	19.0	30.5
Merged-chr11-58978720-4	chr11	58978606	58978806	+	997.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053168, intron 1 of 5)	intron (NM_053168, intron 1 of 5)	613.0	NM_053168	94091.0	Mm.248049	NM_053168	ENSMUSG00000020455	Trim11	-	tripartite motif-containing 11	protein-coding	15.5	24.0	12.5	206.0	57.5	17.0	22.0	21.0
Merged-chr1-86214390-4	chr1	86214262	86214462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027456, intron 19 of 20)	intron (NM_027456, intron 19 of 20)	59582.0	NM_001310702	78795.0	Mm.379264	NM_027456	ENSMUSG00000062590	Armc9	3830422A13Rik|4831423D23Rik|4930438O05Rik|5730415N24Rik	armadillo repeat containing 9	protein-coding	76.5	135.0	76.5	1529.5	107.0	46.0	85.5	71.0
Merged-chr17-44345560-3	chr17	44345458	44345658	+	761.116699	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	156986.0	NM_172621	224796.0	Mm.37666	NM_172621	ENSMUSG00000023959	Clic5	5730531E12Rik|B330005L24|Gm322|jbg|nmf318	chloride intracellular channel 5	protein-coding	7.5	16.5	17.5	144.5	9.5	1.0	1.5	4.5
Merged-chr2-181459985-4	chr2	181459930	181460130	+	817.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028125)	promoter-TSS (NM_028125)	-604.0	NM_028125	72147.0	Mm.486504	NM_027656	ENSMUSG00000027583	Zbtb46	2610019F01Rik|4933406L05Rik|BZEL|Btbd4	zinc finger and BTB domain containing 46	protein-coding	12.0	11.5	11.0	157.5	18.0	15.0	11.0	9.0
Merged-chr10-24040321-2	chr10	24040221	24040421	+	720.599976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2707.0	NM_001010835	276742.0	Mm.377870	NM_001010835	ENSMUSG00000100689	Taar7e	Gm697|taR-7e	trace amine-associated receptor 7E	protein-coding	4.5	5.0	11.0	49.0	8.0	4.0	5.0	6.5
Merged-chr12-32292578-3	chr12	32292481	32292681	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	C-rich|Low_complexity|Low_complexity	-83932.0	NM_001146200	30955.0	Mm.101369	NM_020272	ENSMUSG00000020573	Pik3cg	5830428L06Rik|PI3Kgamma|p110gamma	phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit gamma	protein-coding	12.5	14.5	15.5	164.5	45.5	18.5	17.0	19.0
Merged-chr17-34286984-8	chr17	34286883	34287083	+	916.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010378, intron 1 of 4)	intron (NM_010378, intron 1 of 4)	788.0	NM_010378	14960.0	Mm.235338	NM_010378	ENSMUSG00000036594	H2-Aa	Aalpha|H-2Aa|H2Aa|I-Aalpha|IAalpha|Ia-1|Ia1	histocompatibility 2, class II antigen A, alpha	protein-coding	7.0	7.0	4.5	46.0	27.0	9.5	6.0	19.5
Merged-chr1-92216894-4	chr1	92216806	92217006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36565.0	NM_207225	208727.0	Mm.318567	NM_207225	ENSMUSG00000026313	Hdac4	4932408F19Rik|HD4	histone deacetylase 4	protein-coding	109.5	182.5	125.5	1613.5	277.0	94.5	144.5	90.5
Merged-chr10-59235795-1	chr10	59235695	59235895	+	746.0	f0_c57.idr	Intergenic	Intergenic	13873.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	5.5	33.0	6.0	44.5	45.0	12.5	16.0	9.5
Merged-chr18-84671978-3	chr18	84671883	84672083	+	917.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023149, intron 7 of 11)	intron (NM_023149, intron 7 of 11)	10076.0	NM_001289531	66054.0	Mm.29646	NM_023149	ENSMUSG00000024644	Cndp2	0610010E05Rik|C76600|Cn2|Dip-2|Pep-1|Pep1	CNDP dipeptidase 2 (metallopeptidase M20 family)	protein-coding	11.0	19.5	12.5	343.5	16.5	7.5	19.5	5.0
Merged-chr7-68718259-2	chr7	68718159	68718359	+	842.099976	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30979.0	NM_001042592	66412.0	Mm.251199	NM_025549	ENSMUSG00000042659	Arrdc4	2410003C09Rik|AV216361	arrestin domain containing 4	protein-coding	2.5	0.5	1.0	28.5	17.0	8.0	7.0	8.0
Merged-chr16-33056478-4	chr16	33056371	33056571	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021338)	promoter-TSS (NM_021338)	-11.0	NM_001130484	57808.0	Mm.19355	NM_021338	ENSMUSG00000060636	Rpl35a	2810431L15Rik|Rpl35	ribosomal protein L35A	protein-coding	27.0	44.0	15.5	259.5	106.5	37.5	20.0	43.5
Merged-chr9-109054880-4	chr9	109054772	109054972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026381)	promoter-TSS (NM_026381)	6.0	NM_026381	66940.0	Mm.196533	NM_025858	ENSMUSG00000025647	Shisa5	2310008D10Rik|6430628I05Rik|Scotin|mShisa5	shisa family member 5	protein-coding	217.5	404.0	286.5	2858.0	524.5	274.5	221.5	196.0
Merged-chr16-90885573-4	chr16	90885460	90885660	+	959.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027627, intron 4 of 6)	intron (NM_027627, intron 4 of 6)	49289.0	NM_026502	68001.0	Mm.45374	NM_026502	ENSMUSG00000022972	1110004E09Rik	-	RIKEN cDNA 1110004E09 gene	protein-coding	20.5	38.5	25.5	367.0	47.5	11.5	15.5	25.0
Merged-chr11-82101672-4	chr11	82101574	82101774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011331)	promoter-TSS (NM_011331)	-171.0	NM_011331	20293.0	Mm.867	NM_011331	ENSMUSG00000035352	Ccl12	MCP-5|Scya12	chemokine (C-C motif) ligand 12	protein-coding	59.5	144.0	63.0	715.5	151.0	70.5	70.5	49.5
Merged-chr9-64702436-2	chr9	64702336	64702536	+	963.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001134399, intron 23 of 24)	intron (NM_001134399, intron 23 of 24)	35320.0	NM_017382	53869.0	Mm.1387	NM_017382	ENSMUSG00000004771	Rab11a	-	RAB11A, member RAS oncogene family	protein-coding	6.0	14.0	6.5	72.5	13.5	5.0	1.0	10.5
Merged-chr12-108334168-4	chr12	108334066	108334266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010010)	promoter-TSS (NM_010010)	-150.0	NM_010010	13116.0	Mm.41911	NM_010010	ENSMUSG00000021259	Cyp46a1	CH24H|Cyp46	cytochrome P450, family 46, subfamily a, polypeptide 1	protein-coding	100.0	137.5	91.0	1116.5	88.0	39.5	41.0	21.5
Merged-chr7-67426298-3	chr7	67426197	67426397	+	846.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-53439.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	18.0	14.5	12.0	282.5	14.0	4.5	10.5	17.0
Merged-chr4-59823252-2	chr4	59823181	59823381	+	811.0	f0_balb.idr|f0_c57.idr	intron (NM_172468, intron 1 of 8)	L1MB2|LINE|L1	17631.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	5.5	13.5	8.0	191.0	16.5	10.0	4.0	15.5
Merged-chr16-25050824-2	chr16	25050724	25050924	+	793.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8815.0	NR_040374	319487.0	Mm.137341	NR_040374	ENSMUSG00000096960	A230028O05Rik	-	RIKEN cDNA A230028O05 gene	ncRNA	9.0	5.5	4.5	20.0	10.0	6.5	3.0	0.0
Merged-chr6-108168124-3	chr6	108168027	108168227	+	962.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145937, intron 3 of 8)	ORR1E|LTR|ERVL-MaLR	17456.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	5.5	3.5	4.0	147.5	28.5	7.5	20.0	19.0
Merged-chr1-190911096-3	chr1	190911017	190911217	+	974.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178775, intron 1 of 14)	intron (NM_178775, intron 1 of 14)	653.0	NM_178775	320119.0	Mm.220912	NM_178775	ENSMUSG00000089872	Rps6kc1	AA682037|B130003F20Rik|C80612|Rpk118	ribosomal protein S6 kinase polypeptide 1	protein-coding	12.0	28.0	18.0	122.0	12.5	6.0	3.5	5.0
Merged-chr14-79485752-4	chr14	79485657	79485857	+	963.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	L1M3|LINE|L1	-4489.0	NM_018765	22380.0	Mm.476813	NM_018765	ENSMUSG00000022023	Wbp4	AW545037|BB101031|FBP21	WW domain binding protein 4	protein-coding	17.0	43.5	19.0	416.5	60.0	8.0	32.5	44.5
Merged-chr2-85027435-3	chr2	85027352	85027552	+	860.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145526, intron 1 of 11)	intron (NM_145526, intron 1 of 11)	8382.0	NM_145526	228139.0	Mm.440375	NM_145526	ENSMUSG00000027071	P2rx3	4930513E20Rik|P2X3	purinergic receptor P2X, ligand-gated ion channel, 3	protein-coding	7.0	9.0	12.5	159.5	13.5	1.0	11.5	11.5
Merged-chr10-77610338-4	chr10	77610246	77610446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001301673, intron 2 of 3)	L1MC5|LINE|L1	-3363.0	NR_125903	20610.0	Mm.24433	NM_019929	ENSMUSG00000020265	Sumo3	2810014B19Rik|D10Ertd345e|SMT3A|SUMO-3|Smt3h1	small ubiquitin-like modifier 3	protein-coding	48.0	44.0	45.5	962.5	51.5	26.0	26.5	40.5
Merged-chr12-100528503-3	chr12	100528416	100528616	+	692.866638	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7694.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	5.5	10.0	5.5	112.0	6.5	2.5	2.5	1.5
Merged-chr11-53351737-4	chr11	53351611	53351811	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_033565, intron 1 of 20)	intron (NM_033565, intron 1 of 20)	944.0	NM_033565	93736.0	Mm.395281	NM_033565	ENSMUSG00000049470	Aff4	AF5Q31|Alf4|Laf4l|MCEF	AF4/FMR2 family, member 4	protein-coding	34.5	35.5	34.5	380.5	49.5	16.0	22.0	39.0
Merged-chr6-34511616-3	chr6	34511574	34511774	+	917.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35318.0	NM_007563	12183.0	Mm.282863	NM_007563	ENSMUSG00000038871	Bpgm	AI323730|AL022789|C86192	2,3-bisphosphoglycerate mutase	protein-coding	4.0	8.5	2.0	94.0	25.0	8.0	8.0	14.5
Merged-chr11-107378355-4	chr11	107378259	107378459	+	977.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	92361.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	18.0	14.0	33.0	229.0	35.5	23.0	18.5	20.5
Merged-chr9-47595449-4	chr9	47595355	47595555	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025600, intron 1 of 8)	intron (NM_001025600, intron 1 of 8)	65103.0	NM_001025600	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	37.5	52.0	21.0	416.0	89.0	43.5	21.5	39.0
Merged-chr1-156534136-4	chr1	156534001	156534201	+	935.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-24686.0	NM_009595	11352.0	Mm.329515	NM_009595	ENSMUSG00000026596	Abl2	AA536808|Abll|Arg	v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene)	protein-coding	25.0	21.0	13.5	325.5	29.0	7.5	4.5	8.5
Merged-chr4-155802817-4	chr4	155802701	155802901	+	899.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025570)	promoter-TSS (NM_025570)	-77.0	NM_025570	66448.0	Mm.23825	NM_025570	ENSMUSG00000029066	Mrpl20	2610008D01Rik|4930425I20Rik	mitochondrial ribosomal protein L20	protein-coding	10.0	18.0	6.0	170.0	43.0	4.5	5.5	15.5
Merged-chr2-6256436-4	chr2	6256330	6256530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040333, intron 3 of 6)	intron (NR_040333, intron 3 of 6)	-43436.0	NM_024208	67856.0	Mm.38342	NM_024208	ENSMUSG00000039063	Echdc3	2310005D12Rik|AI662097	enoyl Coenzyme A hydratase domain containing 3	protein-coding	51.0	46.5	30.5	811.0	99.0	28.5	52.0	49.0
Merged-chr6-42353391-4	chr6	42353295	42353495	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001289618, intron 4 of 9)	intron (NM_001289618, intron 4 of 9)	3567.0	NM_001289618	22793.0	Mm.282303	NM_011777	ENSMUSG00000029860	Zyx	9530098H06Rik|R75157	zyxin	protein-coding	177.0	168.5	138.0	2448.0	252.0	114.5	168.5	139.0
Merged-chr10-21847201-4	chr10	21847125	21847325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34959.0	NM_001161845	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	38.5	77.0	49.5	746.5	87.5	33.0	33.0	32.5
Merged-chr11-63151933-5	chr11	63151840	63152040	+	992.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302255, intron 4 of 4)	intron (NM_001302255, intron 4 of 4)	19137.0	NM_001302260	18858.0	Mm.1237	NM_008885	ENSMUSG00000018217	Pmp22	22kDa|Gas-3|HNPP|TRE002|Tr|trembler	peripheral myelin protein 22	protein-coding	12.5	30.0	16.0	238.5	49.0	14.5	11.0	10.5
Merged-chr15-53346192-4	chr15	53346108	53346308	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010162)	promoter-TSS (NM_010162)	-25.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	132.0	219.5	124.0	2122.5	308.0	96.5	170.0	108.5
Merged-chr6-54160844-4	chr6	54160732	54160932	+	979.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163640, intron 1 of 12)	intron (NM_001163640, intron 1 of 12)	-104026.0	NM_001311133	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	29.0	35.5	32.0	522.0	35.5	22.5	18.5	27.5
Merged-chr10-8007448-4	chr10	8007349	8007549	+	986.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-51326.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	38.5	82.5	35.5	505.0	90.5	38.5	34.0	17.5
Merged-chr10-45277198-4	chr10	45277086	45277286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12119.0	NM_024286	78977.0	Mm.24748	NM_024286	ENSMUSG00000019848	Popdc3	AA682104|Pop3	popeye domain containing 3	protein-coding	20.0	69.5	44.0	541.0	94.0	22.5	41.0	31.0
Merged-chr9-109058413-8	chr9	109058387	109058587	+	974.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_026381)	TTS (NM_026381)	764.0	NM_001012236	22040.0	Mm.439964	NM_011637	ENSMUSG00000049734	Trex1	AU041952	three prime repair exonuclease 1	protein-coding	7.5	32.0	12.5	72.0	44.5	18.0	6.5	8.5
Merged-chr2-167953147-4	chr2	167953032	167953232	+	846.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011201, intron 1 of 8)	intron (NM_011201, intron 1 of 8)	20805.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	3.0	8.0	11.0	246.5	21.0	6.5	9.0	10.0
Merged-chr5-96856769-4	chr5	96856666	96856866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	63381.0	NM_013470	11745.0	Mm.7214	NM_013470	ENSMUSG00000029484	Anxa3	Anx3	annexin A3	protein-coding	43.0	40.0	34.5	674.5	47.5	20.0	34.5	21.5
Merged-chr4-88788620-1	chr4	88788520	88788720	+	720.75	f0_c57.idr	promoter-TSS (NM_001161609).4	promoter-TSS (NM_001161609).4	-12.0	NM_001161609	545654.0	Mm.478784	NM_001161609	ENSMUSG00000095101	Gm13285	limitin	predicted gene 13285	protein-coding	0.0	0.0	0.0	0.0	29.0	9.0	10.0	12.0
Merged-chr10-20952585-4	chr10	20952486	20952686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026203)	promoter-TSS (NM_026203)	39.0	NM_001358561	52906.0	Mm.253280	NM_026203	ENSMUSG00000019986	Ahi1	1700015F03Rik|Ahi-1|D10Bwg0629e	Abelson helper integration site 1	protein-coding	221.5	304.0	193.0	2679.5	549.0	242.5	255.0	226.0
Merged-chr8-94386386-4	chr8	94386292	94386492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022331)	promoter-TSS (NM_022331)	-37.0	NM_001357205	64209.0	Mm.29151	NM_022331	ENSMUSG00000031770	Herpud1	Herp|Mifl|SUP	homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1	protein-coding	186.0	350.5	184.0	2217.0	509.5	184.0	254.5	178.5
Merged-chr16-50431766-4	chr16	50431674	50431874	+	992.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027444, intron 1 of 16)	CpG	615.0	NM_027444	70508.0	Mm.28940	NM_027444	ENSMUSG00000022641	Bbx	5530401J07Rik|5730403O13Rik	bobby sox HMG box containing	protein-coding	38.0	35.0	25.5	344.0	42.5	16.0	22.0	33.0
Merged-chr9-22054932-4	chr9	22054851	22055051	+	982.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310759)	TTS (NM_001310759)	-2928.0	NM_010487	15571.0	Mm.390167	NM_010487	ENSMUSG00000003410	Elavl3	2600009P04Rik|Huc|PLE21|mHuC	ELAV like RNA binding protein 3	protein-coding	26.0	55.5	22.5	389.5	78.5	16.5	18.5	17.5
Merged-chr5-114699170-4	chr5	114699056	114699256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER54A|LTR|ERVL	-8221.0	NM_019821	56356.0	Mm.275766	NM_019821	ENSMUSG00000011884	Gltp	1110001F24Rik|C76925|C77564	glycolipid transfer protein	protein-coding	152.5	209.0	139.0	2360.5	387.5	162.0	193.5	170.5
Merged-chr14-45251813-4	chr14	45251702	45251902	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027518, intron 3 of 6)	Lx7|LINE|L1	32085.0	NM_027518	70713.0	Mm.343793	NM_027518	ENSMUSG00000049092	Gpr137c	6330416L11Rik|Gm908|TM7SF1L2	G protein-coupled receptor 137C	protein-coding	47.5	36.5	43.0	774.0	66.5	27.0	39.5	35.5
Merged-chr18-46334292-4	chr18	46334184	46334384	+	914.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22356.0	NM_001160399	240261.0	Mm.329416	NM_001160399	ENSMUSG00000071855	Ccdc112	8430438M01Rik|AW108467	coiled-coil domain containing 112	protein-coding	19.0	18.0	9.5	310.0	41.0	14.5	6.0	19.5
Merged-chr13-46728036-4	chr13	46727924	46728124	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175749)	promoter-TSS (NM_175749)	-175.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	120.5	255.0	113.0	1587.0	433.5	156.0	152.0	191.0
Merged-chr9-62933158-4	chr9	62933035	62933235	+	870.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 2 of 13)	intron (NM_019663, intron 2 of 13)	47744.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	27.0	12.0	20.0	489.0	23.0	11.0	10.5	7.5
Merged-chr7-73559325-4	chr7	73559215	73559415	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_037569)	promoter-TSS (NR_037569)	-920.0	NR_037569	69170.0	Mm.34539	NR_037569	ENSMUSG00000101970	1810026B05Rik	-	RIKEN cDNA 1810026B05 gene	ncRNA	27.5	26.0	7.5	425.0	48.5	25.5	27.5	25.0
Merged-chr11-60353107-4	chr11	60353005	60353205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029044)	promoter-TSS (NM_029044)	-200.0	NM_001359810	216810.0	Mm.218875	NM_153080	ENSMUSG00000000538	Tom1l2	2900016I08Rik|A730055F12Rik|AU042072|Srebf1	target of myb1-like 2 (chicken)	protein-coding	360.0	571.5	366.5	4588.5	746.5	367.5	373.0	274.5
Merged-chr14-73324855-7	chr14	73324761	73324961	+	906.285706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009029, intron 1 of 26)	intron (NM_009029, intron 1 of 26)	961.0	NM_009029	19645.0	Mm.273862	NM_009029	ENSMUSG00000022105	Rb1	Rb|Rb-1|pRb|pp105	RB transcriptional corepressor 1	protein-coding	10.0	20.5	19.0	194.5	21.0	4.5	8.5	14.5
Merged-chr17-24708836-4	chr17	24708761	24708961	+	881.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	-1208.0	NM_145396	213773.0	Mm.100353	NM_145396	ENSMUSG00000040688	Tbl3	9430070M15Rik	transducin (beta)-like 3	protein-coding	10.0	14.5	4.0	49.0	66.5	17.0	16.5	19.5
Merged-chr3-87816755-3	chr3	87816659	87816859	+	672.583313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011832)	TTS (NM_011832)	19808.0	NM_011832	23920.0	Mm.42041	NM_011832	ENSMUSG00000005640	Insrr	Irr	insulin receptor-related receptor	protein-coding	3.5	5.5	9.0	39.5	11.5	6.0	8.0	12.5
Merged-chr13-93192393-4	chr13	93192310	93192510	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133905)	promoter-TSS (NM_133905)	7.0	NM_001361536	100715.0	Mm.242865	NM_133905	ENSMUSG00000042167	Papd4	8030446C20Rik|AI649009|GLD-2|Gld2	PAP associated domain containing 4	protein-coding	237.0	363.5	198.0	2828.5	467.0	175.5	195.0	165.0
Merged-chr13-6889095-2	chr13	6888995	6889195	+	562.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13C2|LTR|ERVK	-240324.0	NM_001291071	56421.0	Mm.273874	NM_019703	ENSMUSG00000021196	Pfkp	1200015H23Rik|9330125N24Rik|ATP-PFK|PFK-C|PFK-P	phosphofructokinase, platelet	protein-coding	4.5	6.5	5.0	45.0	23.0	5.5	8.0	5.0
Merged-chr12-100429160-3	chr12	100429045	100429245	+	812.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 5 of 19)	intron (NM_001033213, intron 5 of 19)	91677.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	9.0	27.0	16.0	283.0	8.0	2.0	8.5	9.0
Merged-chr3-53027540-3	chr3	53027441	53027641	+	776.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10318.0	NM_026225	67542.0	Mm.249548	NM_026225	ENSMUSG00000027742	Cog6	4933405E16Rik|AU018618|mKIAA1134	component of oligomeric golgi complex 6	protein-coding	4.5	9.0	10.5	108.5	29.5	2.5	6.5	9.5
Merged-chr11-51926406-4	chr11	51926296	51926496	+	957.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41235.0	NM_029976	52626.0	Mm.289456	NM_029976	ENSMUSG00000020392	Cdkn2aipnl	A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520	CDKN2A interacting protein N-terminal like	protein-coding	4.0	13.0	16.0	141.0	49.5	11.5	18.0	24.5
Merged-chr5-123058980-3	chr5	123058883	123059083	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11967.0	NM_001347456	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	45.5	54.0	25.5	555.0	7.0	6.0	2.0	4.5
Merged-chr6-148444343-4	chr6	148444260	148444460	+	994.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347518)	promoter-TSS (NM_001347518)	-8.0	NM_001347518	387314.0	Mm.137858	NM_198967	ENSMUSG00000030306	Tmtc1	Arg99|BC023818	transmembrane and tetratricopeptide repeat containing 1	protein-coding	16.5	17.5	28.5	482.5	32.0	18.5	27.0	27.5
Merged-chr6-86790617-3	chr6	86790528	86790728	+	807.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013471, intron 1 of 12)	intron (NM_013471, intron 1 of 12)	2956.0	NM_013471	11746.0	Mm.259702	NM_013471	ENSMUSG00000029994	Anxa4	AI265406|AIV|AW106930|Anx4|Xanx-4	annexin A4	protein-coding	17.5	23.5	13.0	340.5	8.0	1.5	0.0	2.0
Merged-chr16-8829303-2	chr16	8829203	8829403	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081400)	promoter-TSS (NM_001081400)	-797.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	30.5	45.5	45.5	551.0	63.0	27.5	26.0	25.0
Merged-chr7-35235490-4	chr7	35235397	35235597	+	794.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20152.0	NM_001024707	435965.0	Mm.333783	NM_001024707	ENSMUSG00000001802	Lrp3	-	low density lipoprotein receptor-related protein 3	protein-coding	15.0	11.5	10.5	66.5	14.0	9.5	14.0	15.0
Merged-chr4-115709994-4	chr4	115709912	115710112	+	800.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-28061.0	NM_172698	230648.0	Mm.283565	NM_172698	ENSMUSG00000034210	Efcab14	4732418C07Rik	EF-hand calcium binding domain 14	protein-coding	9.0	15.5	3.0	40.5	25.0	10.5	13.5	11.0
Merged-chr2-22790532-4	chr2	22790395	22790595	+	929.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019456, intron 1 of 13)	intron (NM_019456, intron 1 of 13)	16168.0	NM_019456	54519.0	Mm.14255	NM_019456	ENSMUSG00000026786	Apbb1ip	9930118P07Rik|Prp48	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	protein-coding	6.0	10.5	14.0	244.0	22.0	9.5	15.0	10.0
Merged-chr5-114667656-4	chr5	114667504	114667704	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-9183.0	NM_022017	63873.0	Mm.266450	NM_022017	ENSMUSG00000014158	Trpv4	0610033B08Rik|OTRPC4|Trp12|VR-OAC|VRL-2|VROAC	transient receptor potential cation channel, subfamily V, member 4	protein-coding	91.0	123.5	75.5	924.5	299.0	84.0	110.0	96.0
Merged-chr2-34790467-4	chr2	34790351	34790551	+	868.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145522, intron 4 of 7)	ORR1A2|LTR|ERVL-MaLR	9461.0	NM_145522	227746.0	Mm.158705	NM_145522	ENSMUSG00000070953	Rabepk	8430412M01Rik|9530020D24Rik|AV073337|C87311|Rab9p40	Rab9 effector protein with kelch motifs	protein-coding	14.0	24.0	3.5	58.0	28.5	11.0	9.0	4.5
Merged-chr5-135468501-4	chr5	135468401	135468601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	intron (NM_146001, intron 1 of 30)	-73955.0	NM_148932	107939.0	Mm.28399	NM_148932	ENSMUSG00000053293	Pom121	2610027A18Rik|C80273|mKIAA0618	nuclear pore membrane protein 121	protein-coding	176.5	272.5	157.0	2764.5	275.0	131.0	93.0	128.5
Merged-chr13-34792775-4	chr13	34792681	34792881	+	951.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	53139.0	NM_138746	108161.0	Mm.41991	NM_138746	ENSMUSG00000038246	Fam50b	D0H6S2654E|X5L|XAP-5-like	family with sequence similarity 50, member B	protein-coding	22.5	28.0	27.0	293.5	32.5	14.0	14.0	13.5
Merged-chr18-70530305-4	chr18	70530201	70530401	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001136090)	promoter-TSS (NM_001136090)	20.0	NM_001136090	26447.0	Mm.244352	NM_011972	ENSMUSG00000038425	Poli	Rad30b	polymerase (DNA directed), iota	protein-coding	210.0	294.0	163.5	3110.0	442.5	153.5	214.0	157.0
Merged-chr10-79755108-4	chr10	79755033	79755233	+	828.891663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023304)	promoter-TSS (NM_023304)	14.0	NM_023304	67112.0	Mm.154211	NM_023304	ENSMUSG00000020327	Fgf22	2210414E06Rik|FGF-22	fibroblast growth factor 22	protein-coding	8.5	12.5	9.0	202.0	25.0	12.5	12.5	11.5
Merged-chr11-69902155-1	chr11	69902055	69902255	+	805.0	f0_balb.idr	exon (NM_001291119, exon 1 of 28)	exon (NM_001291119, exon 1 of 28)	339.0	NM_001013414	216860.0	Mm.268347	NM_001013414	ENSMUSG00000047284	Neurl4	-	neuralized E3 ubiquitin protein ligase 4	protein-coding	6.0	11.5	13.5	129.0	23.0	4.0	8.0	11.5
Merged-chr7-122347617-3	chr7	122347504	122347704	+	690.549988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316672, intron 2 of 16)	intron (NM_001316672, intron 2 of 16)	58479.0	NM_008855	18751.0	Mm.207496	NM_008855	ENSMUSG00000052889	Prkcb	PKC-B|PKC-Beta|Pkcb|Prkcb1|Prkcb2	protein kinase C, beta	protein-coding	5.5	9.0	4.5	106.5	21.0	3.0	7.5	6.0
Merged-chr6-52303644-3	chr6	52303545	52303745	+	840.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-9853.0	NM_007966	14028.0	Mm.389754	NM_007966	ENSMUSG00000005503	Evx1	Evx-1	even-skipped homeobox 1	protein-coding	18.5	22.5	13.0	237.0	13.5	3.5	5.0	6.0
Merged-chr8-10711635-2	chr8	10711535	10711735	+	654.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	170819.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	10.0	6.5	5.0	79.0	13.5	1.5	2.0	3.5
Merged-chr3-95511970-4	chr3	95511870	95512070	+	936.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12760.0	NM_007802	13038.0	Mm.272085	NM_007802	ENSMUSG00000028111	Ctsk	AI323530|MMS10-Q|Ms10q|catK	cathepsin K	protein-coding	33.0	44.5	35.5	568.5	47.5	11.0	14.0	13.5
Merged-chr4-34429845-5	chr4	34429721	34429921	+	909.4266359999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-120794.0	NM_001007589	433693.0	Mm.389532	NM_026019	ENSMUSG00000028291	Akirin2	2700059D21Rik|AA114675|AA522011|AU019887|Akirin-2	akirin 2	protein-coding	5.0	14.5	15.0	130.0	7.0	4.5	6.0	3.5
Merged-chr2-14230051-5	chr2	14229895	14230095	+	843.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008625, intron 1 of 29)	intron (NM_008625, intron 1 of 29)	581.0	NM_008625	17533.0	Mm.2019	NM_008625	ENSMUSG00000026712	Mrc1	AW259686|CD206|MR	mannose receptor, C type 1	protein-coding	4.5	5.0	5.0	113.0	19.5	8.0	5.5	11.0
Merged-chr10-4126572-4	chr10	4126457	4126657	+	966.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170785, intron 26 of 27)	intron (NM_001170785, intron 26 of 27)	86563.0	NR_152620	102632515.0	Mm.416995	NR_152620	ENSMUSG00000111266	Gm30570	-	predicted gene, 30570	ncRNA	29.5	22.0	17.0	460.0	19.0	19.0	19.0	8.0
Merged-chr6-97526329-4	chr6	97526200	97526400	+	723.950012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145148, intron 2 of 23)	intron (NM_145148, intron 2 of 23)	-38480.0	NM_001346637	232288.0	Mm.27789	NM_145148	ENSMUSG00000030064	Frmd4b	6030440G05Rik|C87375|GOBLIN|GRSP1|R74720	FERM domain containing 4B	protein-coding	9.0	9.0	2.0	128.5	27.0	9.0	4.5	7.0
Merged-chr12-113015261-4	chr12	113015194	113015394	+	962.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081170, intron 1 of 23)	intron (NM_001081170, intron 1 of 23)	786.0	NM_001291444	217893.0	Mm.35754	NM_198165	ENSMUSG00000021143	Pacs2	6720425G15Rik|AW208651|AW489976|E230011J22|Pacs1l|mKIAA0602	phosphofurin acidic cluster sorting protein 2	protein-coding	12.0	20.0	9.0	320.0	69.5	17.0	20.5	20.5
Merged-chr17-31088925-4	chr17	31088851	31089051	+	994.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 2 of 14)	intron (NM_009593, intron 2 of 14)	31257.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	21.0	36.0	14.5	228.5	40.5	19.5	20.5	25.5
Merged-chr13-16012451-4	chr13	16012365	16012565	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008380, intron 2 of 4)	intron (NM_008380, intron 2 of 4)	614.0	NM_008380	16323.0	Mm.8042	NM_008380	ENSMUSG00000041324	Inhba	-	inhibin beta-A	protein-coding	42.0	41.5	33.5	498.5	105.5	22.5	40.0	31.0
Merged-chr9-32493825-4	chr9	32493715	32493915	+	793.166687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	47637.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	15.5	11.0	16.5	218.0	24.0	3.0	10.0	14.5
Merged-chr6-123244406-4	chr6	123244280	123244480	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001190321, intron 3 of 4)	intron (NM_001190321, intron 3 of 4)	14537.0	NM_001190321	56620.0	Mm.271782	NM_020001	ENSMUSG00000023349	Clec4n	Clec6a|Clecsf10|Nkcl	C-type lectin domain family 4, member n	protein-coding	71.0	90.0	59.0	659.5	132.0	69.5	54.0	55.5
Merged-chr11-54956082-4	chr11	54955976	54956176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001199275, exon 2 of 19)	5' UTR (NM_001199275, exon 2 of 19)	6864.0	NM_021327	57783.0	Mm.259671	NM_021327	ENSMUSG00000020400	Tnip1	ABIN|ABIN-1|ABIN1|AU018810|Naf1|Nef|VAN	TNFAIP3 interacting protein 1	protein-coding	104.5	206.5	120.0	1216.5	271.0	110.5	113.5	103.5
Merged-chr18-36482214-4	chr18	36482113	36482313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27718.0	NM_026027	67199.0	Mm.30184	NM_026027	ENSMUSG00000024346	Pfdn1	2700086I23Rik|AA408327|AU044714	prefoldin 1	protein-coding	72.0	164.5	112.5	1100.0	103.5	15.0	26.5	6.0
Merged-chr4-118437438-4	chr4	118437337	118437537	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023223)	promoter-TSS (NM_023223)	-94.0	NM_023223	107995.0	Mm.261764	NM_023223	ENSMUSG00000006398	Cdc20	2310042N09Rik|C87100|p55CDC	cell division cycle 20	protein-coding	158.5	211.0	121.5	1848.0	308.5	146.0	159.0	127.0
Merged-chr11-114702813-4	chr11	114702711	114702911	+	914.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 6 of 13)	intron (NM_053273, intron 6 of 13)	-24601.0	NM_001034878	432611.0	Mm.212764	NM_001034878	ENSMUSG00000034706	Dnaic2	C030015H18Rik|Dnai2|Gm728|b2b3405Clo	dynein, axonemal, intermediate chain 2	protein-coding	13.5	6.5	6.0	111.5	55.5	16.0	18.5	14.5
Merged-chr14-76052177-4	chr14	76052081	76052281	+	853.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-41316.0	NM_026816	68705.0	Mm.20415	NM_026816	ENSMUSG00000067995	Gtf2f2	1110031C13Rik|AI326315	general transcription factor IIF, polypeptide 2	protein-coding	7.0	14.0	21.5	75.5	47.0	7.0	25.0	14.0
Merged-chr12-73685431-3	chr12	73685330	73685530	+	745.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008856, intron 2 of 13)	intron (NM_008856, intron 2 of 13)	100634.0	NM_008856	18755.0	Mm.341677	NM_008856	ENSMUSG00000021108	Prkch	Pkch	protein kinase C, eta	protein-coding	12.5	32.0	13.0	33.0	22.5	15.5	7.0	10.0
Merged-chr10-91083538-1	chr10	91083438	91083638	+	1000.0	f0_balb.idr	promoter-TSS (NM_009684)	promoter-TSS (NM_009684)	499.0	NM_026166	67454.0	Mm.252843	NM_026166	ENSMUSG00000019975	Ikbip	1200009F10Rik|1700023M03Rik|D18354|Ikip	IKBKB interacting protein	protein-coding	9.5	12.5	11.5	213.0	18.0	9.0	7.5	9.5
Merged-chr13-75893054-3	chr13	75892958	75893158	+	989.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028493, intron 7 of 11)	intron (NM_028493, intron 7 of 11)	50766.0	NM_028493	73296.0	Mm.276200	NM_028493	ENSMUSG00000021589	Rhobtb3	1700040C17Rik|2610033K01Rik|4930503C18Rik|AI317148|AW208826|mKIAA0878	Rho-related BTB domain containing 3	protein-coding	0.0	8.5	1.0	23.5	119.5	23.0	40.0	33.0
Merged-chr17-46074090-4	chr17	46073984	46074184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36920.0	NM_026768	68565.0	Mm.287443	NM_026768	ENSMUSG00000023967	Mrps18a	1110004O20Rik|C79712	mitochondrial ribosomal protein S18A	protein-coding	40.0	46.5	26.5	437.5	62.5	21.5	29.0	31.0
Merged-chr19-4097646-3	chr19	4097553	4097753	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026373, intron 1 of 3)	intron (NM_026373, intron 1 of 3)	302.0	NM_026373	52004.0	Mm.29609	NM_026373	ENSMUSG00000024856	Cdk2ap2	5830466O21Rik|D19Ertd144e|Doc-1r	CDK2-associated protein 2	protein-coding	63.0	115.0	58.5	718.5	167.0	66.5	56.5	88.5
Merged-chr2-30796653-4	chr2	30796558	30796758	+	911.7000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028487, intron 4 of 6)	intron (NR_028487, intron 4 of 6)	5079.0	NM_198000	73598.0	Mm.34166	NM_198000	ENSMUSG00000044320	1700001O22Rik	1700113K14Rik|4930549G18Rik	RIKEN cDNA 1700001O22 gene	protein-coding	26.5	20.0	10.5	218.0	26.5	16.0	22.0	15.5
Merged-chr7-123430001-4	chr7	123429898	123430098	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355050, intron 6 of 6)	intron (NM_001355050, intron 6 of 6)	22181.0	NM_001355050	30949.0	Mm.260527	NM_025304	ENSMUSG00000030763	Lcmt1	AL033290|LCMT-1|Lcmt	leucine carboxyl methyltransferase 1	protein-coding	61.5	72.5	73.0	1015.5	118.5	35.5	76.5	62.0
Merged-chr18-82765406-4	chr18	82765292	82765492	+	959.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6353.0	NR_045389	76961.0	Mm.396392	NR_045389	ENSMUSG00000101773	2210420H20Rik	-	RIKEN cDNA 2210420H20 gene	ncRNA	24.0	22.0	7.0	154.5	38.5	12.5	13.5	20.0
Merged-chr10-99273223-1	chr10	99273123	99273323	+	850.0	f0_balb.idr	Intergenic	MLT1G1|LTR|ERVL-MaLR	9992.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	15.0	18.5	6.0	27.0	9.5	2.5	5.0	2.0
Merged-chr3-97761346-4	chr3	97761243	97761443	+	916.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039376, intron 8 of 46)	intron (NM_001039376, intron 8 of 46)	6671.0	NM_178080	83679.0	Mm.129840	NM_031401	ENSMUSG00000038170	Pde4dip	4732458A06Rik|9430063L05Rik|C87016|D130016K21Rik|D3Bwg1078e|Usmg4|mKIAA0454	phosphodiesterase 4D interacting protein (myomegalin)	protein-coding	15.5	17.5	19.0	196.5	34.0	6.0	5.5	9.5
Merged-chr13-56334998-4	chr13	56334887	56335087	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27913.0	NR_046061	100038494.0	Mm.370447	NR_046061	ENSMUSG00000074885	Gm10782	-	predicted gene 10782	ncRNA	134.5	127.0	124.0	1407.5	79.5	53.5	78.0	51.0
Merged-chr18-46770481-4	chr18	46770384	46770584	+	946.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009681, intron 3 of 5)	intron (NM_009681, intron 3 of 5)	28608.0	NM_009681	11777.0	Mm.312536	NM_009681	ENSMUSG00000024480	Ap3s1	-	adaptor-related protein complex 3, sigma 1 subunit	protein-coding	13.5	15.5	18.0	336.0	34.5	7.0	24.5	13.0
Merged-chr8-95488891-4	chr8	95488804	95489004	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009974)	promoter-TSS (NM_009974)	-84.0	NM_009974	13000.0	Mm.51136	NM_009974	ENSMUSG00000046707	Csnk2a2	1110035J23Rik|C77789|CK2	casein kinase 2, alpha prime polypeptide	protein-coding	94.5	85.0	45.0	973.0	188.5	68.5	104.0	102.5
Merged-chr3-127560714-4	chr3	127560653	127560853	+	911.7333369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_197997, intron 4 of 25)	intron (NM_197997, intron 4 of 25)	7264.0	NM_197997	71643.0	Mm.274884	NM_197997	ENSMUSG00000051278	Zgrf1	4930422G04Rik|AI448607	zinc finger, GRF-type containing 1	protein-coding	8.5	8.0	11.5	162.5	30.0	6.5	21.0	13.5
Merged-chr18-53862487-1	chr18	53862387	53862587	+	1000.0	f0_balb.idr	5' UTR (NM_152809, exon 1 of 13)	5' UTR (NM_152809, exon 1 of 13)	374.0	NM_152809	70425.0	Mm.368668	NM_152809	ENSMUSG00000073563	Csnk1g3	3300002K07Rik|C330049O21Rik	casein kinase 1, gamma 3	protein-coding	19.0	22.0	15.0	284.0	41.5	20.5	21.5	14.5
Merged-chr12-70974632-4	chr12	70974642	70974842	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001310595, exon 1 of 11)	5' UTR (NM_001310595, exon 1 of 11)	119.0	NM_011184	19167.0	Mm.296338	NM_011184	ENSMUSG00000060073	Psma3	Lmpc8	proteasome (prosome, macropain) subunit, alpha type 3	protein-coding	116.5	265.5	144.0	1172.5	346.0	133.5	159.0	155.0
Merged-chr3-100531136-4	chr3	100531036	100531236	+	920.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER57C2|LTR|ERV1	-41944.0	NM_001142952	74645.0	Mm.226900	NM_001142952	ENSMUSG00000044468	Fam46c	4930431B09Rik|AI449797	family with sequence similarity 46, member C	protein-coding	7.0	6.5	10.5	284.5	88.5	18.5	26.5	37.0
Merged-chr8-13757668-4	chr8	13757560	13757760	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357247)	promoter-TSS (NM_001357247)	4.0	NM_001357247	69957.0	Mm.182412	NM_027276	ENSMUSG00000038416	Cdc16	2700071J12Rik|2810431D22Rik|APC6	CDC16 cell division cycle 16	protein-coding	36.5	39.5	21.0	266.5	103.0	31.0	38.0	29.0
Merged-chr5-138441506-4	chr5	138441441	138441641	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028130)	promoter-TSS (NM_028130)	65.0	NM_028130	72154.0	Mm.20263	NM_028130	ENSMUSG00000036898	Zfp157	2610020C11Rik|A630094N24Rik|AI327407|Roma|mszf12|mszf23-1	zinc finger protein 157	protein-coding	21.5	42.0	19.0	354.5	48.5	27.0	23.5	24.0
Merged-chr6-124894208-4	chr6	124894113	124894313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTB|LTR|ERVL-MaLR	-6013.0	NM_013488	12504.0	Mm.2209	NM_013488	ENSMUSG00000023274	Cd4	L3T4|Ly-4	CD4 antigen	protein-coding	34.0	45.5	46.5	266.0	66.5	27.0	26.0	44.5
Merged-chr11-109473272-4	chr11	109473153	109473353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028710)	promoter-TSS (NM_028710)	-24.0	NM_134038	104681.0	Mm.265874	NM_134038	ENSMUSG00000041920	Slc16a6	AW743111|ESTM12|MCT 6|MCT 7|MCT6	solute carrier family 16 (monocarboxylic acid transporters), member 6	protein-coding	35.5	56.5	44.0	630.5	170.5	38.5	65.0	67.0
Merged-chr14-9487668-4	chr14	9487567	9487767	+	914.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-396428.0	NR_030680	100042415.0	Mm.235938	NR_030680	ENSMUSG00000089686	Mnd1-ps	Gm3833	Mnd1 retrotransposed pseudogene	pseudo	27.0	12.0	15.5	429.0	36.5	17.5	15.5	12.0
Merged-chr17-29478495-4	chr17	29478411	29478611	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur1|SINE|Alu	-12534.0	NM_008842	18712.0	Mm.405293	NM_008842	ENSMUSG00000024014	Pim1	Pim-1	proviral integration site 1	protein-coding	47.0	62.5	36.5	509.5	101.5	43.0	46.0	59.0
Merged-chr10-127292209-4	chr10	127292097	127292297	+	884.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290183, intron 1 of 2)	intron (NM_001290183, intron 1 of 2)	1404.0	NM_001290183	13198.0	Mm.110220	NM_007837	ENSMUSG00000025408	Ddit3	CHOP-10|CHOP10|chop|gadd153	DNA-damage inducible transcript 3	protein-coding	6.5	13.5	6.0	162.5	25.0	8.0	5.0	14.5
Merged-chr1-185331522-3	chr1	185331435	185331635	+	758.777771	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011794)	promoter-TSS (NM_011794)	-624.0	NM_011794	23827.0	Mm.227549	NM_011794	ENSMUSG00000026617	Bpnt1	BPntase	bisphosphate 3'-nucleotidase 1	protein-coding	5.5	11.5	0.5	34.5	22.5	13.0	9.0	6.0
Merged-chr19-4228484-4	chr19	4228410	4228610	+	921.3624880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_132308, intron 2 of 3)	intron (NR_132308, intron 2 of 3)	-3383.0	NM_027196	69745.0	Mm.32518	NM_027196	ENSMUSG00000024854	Pold4	2410012M21Rik|AI463381|AW060307|Polds|p12	polymerase (DNA-directed), delta 4	protein-coding	15.5	18.0	6.5	153.0	25.5	21.0	13.0	24.5
Merged-chr6-125191724-4	chr6	125191605	125191805	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025595)	promoter-TSS (NM_025595)	-119.0	NM_146171	68298.0	Mm.257590	NM_146171	ENSMUSG00000038252	Ncapd2	2810406C15Rik|2810465G24Rik|CAP-D2|CNAP1|mKIAA0159	non-SMC condensin I complex, subunit D2	protein-coding	177.5	218.0	140.0	1874.5	407.5	168.0	202.0	147.0
Merged-chr3-89731179-4	chr3	89731079	89731279	+	833.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146296, intron 1 of 14)	intron (NM_001146296, intron 1 of 14)	461.0	NM_019655	56417.0	Mm.316628	NM_019655	ENSMUSG00000027951	Adar	AV242451|Adar1|Adar1p110|Adar1p150|DRADA|mZaADAR	adenosine deaminase, RNA-specific	protein-coding	6.5	4.5	6.0	146.0	26.5	14.5	6.5	17.0
Merged-chr17-36930458-1	chr17	36930358	36930558	+	873.0	f0_balb.idr	intron (NR_045439, intron 2 of 2)	intron (NR_045439, intron 2 of 2)	6666.0	NR_045439	73286.0	Mm.426884	NR_045439	ENSMUSG00000092239	1700031A10Rik	-	RIKEN cDNA 1700031A10 gene	ncRNA	9.0	5.5	5.5	189.5	1.0	0.0	1.0	0.0
Merged-chr8-95915087-3	chr8	95915026	95915226	+	747.93335	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26761.0	NM_010325	14719.0	Mm.230169	NM_010325	ENSMUSG00000031672	Got2	AL022787|FABP-pm|Got-2|Kyat4|mAspAT	glutamatic-oxaloacetic transaminase 2, mitochondrial	protein-coding	8.5	4.5	6.0	65.5	21.5	3.5	7.0	7.0
Merged-chr8-119926658-4	chr8	119926567	119926767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009462, intron 1 of 13)	B1_Mur4|SINE|Alu	16307.0	NM_001310630	22224.0	Mm.256910	NM_009462	ENSMUSG00000031826	Usp10	2610014N07Rik|UBPO|Uchrp|mKIAA0190	ubiquitin specific peptidase 10	protein-coding	33.0	31.5	26.5	418.5	42.0	6.0	29.5	43.5
Merged-chr7-81849409-4	chr7	81849305	81849505	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9596.0	NR_111910	107769.0	Mm.221412	NM_145375	ENSMUSG00000038623	Tm6sf1	AI428514|BC023123|C630016D09Rik	transmembrane 6 superfamily member 1	protein-coding	167.5	273.5	182.0	2722.0	405.0	174.5	185.0	135.5
Merged-chr9-37529779-3	chr9	37529678	37529878	+	937.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136939, intron 1 of 6)	intron (NR_136939, intron 1 of 6)	1689.0	NM_027102	69524.0	Mm.41751	NM_027102	ENSMUSG00000001946	Esam	2310008D05Rik|Esam1|W117m	endothelial cell-specific adhesion molecule	protein-coding	13.0	16.5	8.5	90.0	23.0	5.5	4.0	8.5
Merged-chr19-34390145-4	chr19	34390061	34390261	+	917.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER76|LTR|ERVL	84974.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	18.0	19.5	23.5	529.5	31.5	10.0	11.5	17.5
Merged-chr12-25100864-1	chr12	25100764	25100964	+	1000.0	f0_c57.idr	Intergenic	CpG	-4772.0	NM_010496	15902.0	Mm.34871	NM_010496	ENSMUSG00000020644	Id2	AI255428|C78922|Idb2|bHLHb26	inhibitor of DNA binding 2	protein-coding	26.0	37.5	30.5	423.0	52.5	35.0	28.5	34.5
Merged-chr9-54555253-4	chr9	54555136	54555336	+	963.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019686, intron 1 of 5)	intron (NM_019686, intron 1 of 5)	4843.0	NM_019686	56506.0	Mm.42192	NM_019686	ENSMUSG00000037493	Cib2	2810434I23Rik|AI449053	calcium and integrin binding family member 2	protein-coding	19.5	44.0	27.0	296.5	46.0	19.5	27.0	17.0
Merged-chr3-54102395-4	chr3	54102270	54102470	+	777.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-53687.0	NM_001253683	22066.0	Mm.10100	NM_016984	ENSMUSG00000027748	Trpc4	CCE1|STRPC4|Trp4|Trrp4	transient receptor potential cation channel, subfamily C, member 4	protein-coding	2.5	17.0	3.0	91.0	80.0	21.5	32.5	22.5
Merged-chr13-36117524-4	chr13	36117430	36117630	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024274)	promoter-TSS (NM_024274)	-113.0	NM_024274	69955.0	Mm.70690	NM_024274	ENSMUSG00000021420	Fars2	Fars1|pheRS	phenylalanine-tRNA synthetase 2 (mitochondrial)	protein-coding	152.0	243.5	179.0	2391.5	314.5	109.5	159.0	134.5
Merged-chr7-4597177-2	chr7	4597077	4597277	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_207270, intron 5 of 19)	intron (NM_207270, intron 5 of 19)	6864.0	NM_207270	545902.0	Mm.188925	NM_207270	ENSMUSG00000035429	Ptprh	R-PTP-H|sap-1	protein tyrosine phosphatase, receptor type, H	protein-coding	4.0	6.5	2.0	105.5	16.5	8.0	13.5	8.0
Merged-chr6-72377138-3	chr6	72377035	72377235	+	924.2000119999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016872, intron 1 of 2)	intron (NM_016872, intron 1 of 2)	3333.0	NM_001080742	53620.0	Mm.440321	NM_016872	ENSMUSG00000073002	Vamp5	AF119384|Camp	vesicle-associated membrane protein 5	protein-coding	19.5	20.5	10.0	401.5	13.0	5.0	6.0	20.0
Merged-chr16-57422281-4	chr16	57422202	57422402	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001040397, intron 1 of 4)	intron (NM_001040397, intron 1 of 4)	69025.0	NM_001040397	78749.0	Mm.328360	NM_001040397	ENSMUSG00000043336	Filip1l	4631422O05Rik|Doc1	filamin A interacting protein 1-like	protein-coding	57.5	95.5	81.5	1441.5	157.0	49.0	73.0	73.5
Merged-chr1-173366189-4	chr1	173366033	173366233	+	630.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053199, intron 1 of 8)	intron (NM_053199, intron 1 of 8)	1562.0	NM_053199	94332.0	Mm.330524	NM_053199	ENSMUSG00000005338	Cadm3	BIgR|Igsf4b|Necl-1|Necl1|SynCAM3|Tsll1	cell adhesion molecule 3	protein-coding	5.5	10.0	5.0	14.0	27.0	3.5	7.5	10.0
Merged-chr13-60897522-4	chr13	60897409	60897609	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001145801)	promoter-TSS (NM_001145801)	-62.0	NM_001145801	13025.0	Mm.30144	NM_007797	ENSMUSG00000074874	Ctla2b	AW545568|Ctla-2b	cytotoxic T lymphocyte-associated protein 2 beta	protein-coding	125.0	177.0	136.5	2153.0	311.0	113.0	168.0	145.5
Merged-chr6-65143623-3	chr6	65143525	65143725	+	886.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019455, intron 1 of 5)	intron (NM_019455, intron 1 of 5)	1105.0	NM_019455	54486.0	Mm.410688	NM_019455	ENSMUSG00000029919	Hpgds	H-PGDS|Ptgds2	hematopoietic prostaglandin D synthase	protein-coding	10.5	9.0	10.5	144.5	22.0	6.0	9.5	7.0
Merged-chr19-44416403-4	chr19	44416302	44416502	+	962.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8693.0	NM_009127	20249.0	Mm.267377	NM_009127	ENSMUSG00000037071	Scd1	AA589638|AI265570|Scd|Scd-1|ab	stearoyl-Coenzyme A desaturase 1	protein-coding	3.5	21.5	21.5	283.0	38.5	9.0	24.0	21.0
Merged-chr9-89066992-1	chr9	89066892	89067092	+	594.0	f0_balb.idr	Intergenic	Intergenic	25843.0	NM_001170884	666747.0	Mm.425592	NM_001170884	ENSMUSG00000079162	Trim43b	EG666747|Gm8269	tripartite motif-containing 43B	protein-coding	11.5	7.0	9.0	91.5	0.0	1.0	3.0	2.0
Merged-chr11-119235812-3	chr11	119235719	119235919	+	744.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175430, intron 3 of 18)	B3A|SINE|B2	7247.0	NM_175430	207607.0	Mm.189885	NM_175430	ENSMUSG00000039963	Ccdc40	B930008I02Rik	coiled-coil domain containing 40	protein-coding	2.5	12.0	2.0	94.5	16.5	5.0	8.0	6.0
Merged-chr4-123962624-4	chr4	123962537	123962737	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(T)n|Simple_repeat|Simple_repeat	45204.0	NM_017475	54170.0	Mm.220922	NM_017475	ENSMUSG00000028646	Rragc	AU041672|Gtr2|RAGC|TIB929|YGR163W	Ras-related GTP binding C	protein-coding	48.0	82.5	89.0	1040.0	146.5	35.0	38.0	63.5
Merged-chr2-153117288-4	chr2	153117153	153117353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172117, intron 1 of 12)	intron (NM_001172117, intron 1 of 12)	8785.0	NM_010407	15162.0	Mm.715	NM_010407	ENSMUSG00000003283	Hck	AI849071|Bmk	hemopoietic cell kinase	protein-coding	132.0	185.5	160.0	2740.0	218.5	51.0	143.0	124.0
Merged-chr10-41809642-4	chr10	41809547	41809747	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001243075)	promoter-TSS (NM_001243075)	16.0	NM_001243075	103268.0	Mm.338605	NM_026643	ENSMUSG00000019813	Cep57l1	2410017P07Rik|4930484D11Rik|AI607327|cep57R	centrosomal protein 57-like 1	protein-coding	31.5	58.0	26.0	465.5	112.5	27.5	60.0	31.0
Merged-chr5-25101372-4	chr5	25101275	25101475	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145401)	promoter-TSS (NM_145401)	400.0	NR_027851	67261.0	Mm.461781	NM_026059	ENSMUSG00000043833	2900005J15Rik	-	RIKEN cDNA 2900005J15 gene	ncRNA	94.5	138.5	93.0	1769.5	76.0	30.0	51.5	42.5
Merged-chr16-92874239-4	chr16	92874119	92874319	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-48145.0	NM_001111022	12394.0	Mm.4081	NM_009821	ENSMUSG00000022952	Runx1	AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b	runt related transcription factor 1	protein-coding	74.5	79.5	48.0	1001.0	114.0	35.0	68.5	53.5
Merged-chr18-64962535-4	chr18	64962381	64962581	+	950.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001114386, intron 1 of 30)	intron (NM_001114386, intron 1 of 30)	-61046.0	NM_031881	83814.0	Mm.98668	NM_031881	ENSMUSG00000024589	Nedd4l	1300012C07Rik|Nedd4-2|Nedd4b	neural precursor cell expressed, developmentally down-regulated gene 4-like	protein-coding	9.0	28.0	9.5	246.5	68.5	16.5	29.0	15.5
Merged-chr2-152806710-1	chr2	152806610	152806810	+	1000.0	f0_balb.idr	intron (NM_009743, intron 2 of 2)	L2|LINE|L2	21779.0	NR_149254	12048.0	Mm.238213	NM_009743	ENSMUSG00000007659	Bcl2l1	Bcl(X)L|Bcl-XL|Bcl2l|BclX|bcl-x|bcl2-L-1	BCL2-like 1	protein-coding	23.5	22.5	20.5	262.0	13.5	10.0	9.5	18.5
Merged-chr10-94355243-4	chr10	94355137	94355337	+	987.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359762, intron 1 of 4)	intron (NM_001359762, intron 1 of 4)	43288.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	14.5	52.5	21.5	330.0	50.5	26.0	19.0	9.5
Merged-chr5-140388034-6	chr5	140387912	140388112	+	858.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172277, intron 1 of 10)	intron (NM_172277, intron 1 of 10)	1296.0	NM_172277	231834.0	Mm.27098	NM_172277	ENSMUSG00000029560	Snx8	B130023O14Rik	sorting nexin 8	protein-coding	19.0	15.0	12.0	109.5	26.0	12.5	7.5	13.5
Merged-chr1-167247189-4	chr1	167247072	167247272	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030724, intron 1 of 6)	intron (NM_030724, intron 1 of 6)	37955.0	NM_030724	80914.0	Mm.280895	NM_030724	ENSMUSG00000026558	Uck2	AA407809|AI481316|AU018180|AU020720|TSA903|UK|UMK|Umpk	uridine-cytidine kinase 2	protein-coding	72.5	64.0	56.0	990.5	74.0	27.5	47.5	39.0
Merged-chr16-90830059-4	chr16	90829957	90830157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_133572)	promoter-TSS (NR_133572)	-802.0	NR_133572	70967.0	Mm.253077	NM_027627	ENSMUSG00000039903	Eva1c	1700092M14Rik|4931408A02Rik|Fam176c	eva-1 homolog C (C. elegans)	protein-coding	52.0	51.0	48.0	689.0	130.5	32.0	68.0	53.0
Merged-chr5-123344411-4	chr5	123344328	123344528	+	849.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029850)	promoter-TSS (NM_029850)	-20.0	NM_029850	77045.0	Mm.151960	NM_029850	ENSMUSG00000029438	Bcl7a	4432415N06Rik|AI448316	B cell CLL/lymphoma 7A	protein-coding	9.0	7.0	7.0	194.0	22.5	2.0	11.0	12.0
Merged-chr5-113771707-6	chr5	113771658	113771858	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_151532, exon 1 of 17)	non-coding (NR_151532, exon 1 of 17)	642.0	NR_151532	53890.0	Mm.29594	NM_016926	ENSMUSG00000018974	Sart3	AU045857|mKIAA0156	squamous cell carcinoma antigen recognized by T cells 3	protein-coding	41.0	31.5	28.0	260.0	63.0	27.0	16.5	31.5
Merged-chr5-122379965-4	chr5	122379871	122380071	+	952.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024216, intron 3 of 7)	intron (NM_024216, intron 3 of 7)	7463.0	NM_024216	68080.0	Mm.266328	NM_024216	ENSMUSG00000029464	Gpn3	A930018B01Rik|Atpbd1c|D5Ertd708e	GPN-loop GTPase 3	protein-coding	17.5	40.0	12.5	209.0	64.0	10.5	22.5	9.5
Merged-chr11-69134458-4	chr11	69134366	69134566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_011786, exon 10 of 15)	exon (NM_011786, exon 10 of 15)	8089.0	NM_011786	23801.0	Mm.41989	NM_011786	ENSMUSG00000020892	Aloxe3	e-LOX-3|eLOX-3	arachidonate lipoxygenase 3	protein-coding	86.5	124.0	82.5	1203.5	230.5	69.0	77.5	103.5
Merged-chr11-5505996-4	chr11	5505910	5506110	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14631.0	NM_013842	22433.0	Mm.469937	NM_013842	ENSMUSG00000020484	Xbp1	D11Ertd39e|TREB-5|TREB5|XBP-1	X-box binding protein 1	protein-coding	59.5	87.0	77.5	1195.5	157.0	58.0	87.0	77.5
Merged-chr17-34693297-3	chr17	34693221	34693421	+	863.444458	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031176, intron 12 of 32)	intron (NM_031176, intron 12 of 32)	22786.0	NM_031176	81877.0	Mm.290527	NM_031176	ENSMUSG00000033327	Tnxb	Tn-mhc|Tnx	tenascin XB	protein-coding	2.0	5.5	2.0	50.0	28.0	7.5	10.0	5.5
Merged-chr11-107512094-4	chr11	107511985	107512185	+	827.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm2|SINE|B2	32557.0	NM_025894	66997.0	Mm.491171	NM_025894	ENSMUSG00000020720	Psmd12	1500002F15Rik|AI480719|P55	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	protein-coding	9.0	18.0	2.0	131.5	43.0	7.0	11.0	13.0
Merged-chr4-83289421-1	chr4	83289321	83289521	+	671.333313	f0_balb.idr	intron (NM_027238, intron 2 of 19)	intron (NM_027238, intron 2 of 19)	34768.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	9.5	11.5	3.5	140.5	10.0	8.0	5.0	5.5
Merged-chr16-32703526-4	chr16	32703437	32703637	+	883.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30383.0	NM_001289443	51789.0	Mm.251115	NM_016788	ENSMUSG00000022791	Tnk2	Ack|Ack-1|Ack1|Cdgip|Pyk1	tyrosine kinase, non-receptor, 2	protein-coding	18.0	12.0	21.0	228.0	16.5	6.0	5.5	11.5
Merged-chr12-12289381-4	chr12	12289268	12289468	+	914.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029758, intron 2 of 12)	intron (NM_029758, intron 2 of 12)	27229.0	NM_001146119	76820.0	Mm.440802	NM_029758	ENSMUSG00000020589	Fam49a	2410157M17Rik|9630047E15|D12Ertd553e	family with sequence similarity 49, member A	protein-coding	10.5	8.5	10.5	114.0	44.0	3.5	20.5	18.5
Merged-chr12-100604661-2	chr12	100604561	100604761	+	658.041626	f1_balb.idr|f1_c57bl6.idr	intron (NM_153587, intron 5 of 17)	intron (NM_153587, intron 5 of 17)	-83839.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	1.0	7.0	2.5	48.0	16.0	5.0	7.5	5.5
Merged-chr6-131277249-3	chr6	131277144	131277344	+	758.361145	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TTTTG)n|Simple_repeat|Simple_repeat	16000.0	NM_001327860	66441.0	Mm.46623	NM_025564	ENSMUSG00000030188	Magohb	2010012C16Rik|Mago|Magoh|Magoh-rs1	mago homolog B, exon junction complex core component	protein-coding	8.0	14.5	14.5	250.5	13.0	8.0	2.5	5.0
Merged-chr5-8623086-4	chr5	8622970	8623170	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_198620)	promoter-TSS (NM_198620)	-118.0	NM_198620	242819.0	Mm.332192	NM_198620	ENSMUSG00000040570	Rundc3b	Gm440	RUN domain containing 3B	protein-coding	39.0	59.5	80.0	1002.5	63.5	14.5	21.5	28.0
Merged-chr7-97155302-4	chr7	97155186	97155386	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162477, intron 1 of 9)	intron (NM_001162477, intron 1 of 9)	73535.0	NM_010248	14389.0	Mm.42033	NM_010248	ENSMUSG00000004508	Gab2	AI463667|D130058I17Rik|p97	growth factor receptor bound protein 2-associated protein 2	protein-coding	36.0	35.0	36.5	520.5	65.0	15.5	31.0	28.5
Merged-chr9-118599932-4	chr9	118599820	118600020	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx2|LINE|L1	-6789.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	49.5	44.5	36.0	485.0	94.5	24.5	44.5	45.0
Merged-chr6-87512450-2	chr6	87512350	87512550	+	712.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001037727, intron 1 of 10)	L1M5|LINE|L1	-16123.0	NM_175476	232201.0	Mm.119564	NM_175476	ENSMUSG00000030047	Arhgap25	A130039I20Rik	Rho GTPase activating protein 25	protein-coding	8.0	4.5	5.0	55.0	5.0	1.0	1.0	4.5
Merged-chr17-81065057-4	chr17	81064956	81065156	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028138)	promoter-TSS (NM_028138)	29.0	NM_028138	72167.0	Mm.273257	NM_028138	ENSMUSG00000024246	Thumpd2	2810025A12Rik	THUMP domain containing 2	protein-coding	124.0	195.0	147.0	1390.5	255.0	105.0	173.0	101.0
Merged-chr7-3645105-4	chr7	3644997	3645197	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146176)	promoter-TSS (NM_146176)	-172.0	NM_146176	232791.0	Mm.358731	NM_146176	ENSMUSG00000035632	Cnot3	A930039N10Rik	CCR4-NOT transcription complex, subunit 3	protein-coding	385.5	571.0	428.0	5602.5	929.5	366.0	428.0	423.5
Merged-chr3-59248136-4	chr3	59248055	59248255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177855, intron 24 of 43)	intron (NM_177855, intron 24 of 43)	14830.0	NM_027571	70839.0	Mm.422675	NM_027571	ENSMUSG00000036353	P2ry12	2900079B22Rik|4921504D23Rik|P2Y12	purinergic receptor P2Y, G-protein coupled 12	protein-coding	93.5	123.5	92.0	1057.0	128.0	54.5	45.0	57.0
Merged-chr15-78572795-4	chr15	78572690	78572890	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009008)	promoter-TSS (NM_009008)	-7.0	NM_009008	19354.0	Mm.1972	NM_009008	ENSMUSG00000033220	Rac2	AI323801|AI452260	Rac family small GTPase 2	protein-coding	32.5	49.0	21.0	476.0	98.0	32.0	50.0	26.0
Merged-chr7-99090725-4	chr7	99090627	99090827	+	668.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178635, intron 4 of 14)	intron (NM_178635, intron 4 of 14)	50417.0	NM_178635	78610.0	Mm.323072	NM_178635	ENSMUSG00000035354	Uvrag	9530039D02Rik|AI648770|BB124205|Uvrag1|Uvragl	UV radiation resistance associated gene	protein-coding	13.0	4.0	15.5	96.5	29.0	6.5	10.0	17.5
Merged-chr17-36061001-3	chr17	36060903	36061103	+	795.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2632.0	NM_001199967	100529082.0	Mm.484641	NM_001199967	ENSMUSG00000079492	Gm11127	-	predicted gene 11127	protein-coding	1.5	7.5	11.5	123.0	12.5	9.0	6.5	9.5
Merged-chr7-80209945-4	chr7	80209849	80210049	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360135, intron 1 of 13)	L4_B_Mam|LINE|RTE-X	11508.0	NM_001360135	20352.0	Mm.275909	NM_013659	ENSMUSG00000030539	Sema4b	SemC|Semac|mKIAA1745	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B	protein-coding	52.0	64.5	102.0	1146.5	128.0	29.5	41.0	62.5
Merged-chr15-98881470-4	chr15	98881363	98881563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026967)	promoter-TSS (NM_026967)	-49.0	NM_026967	69159.0	Mm.259708	NM_026967	ENSMUSG00000023755	Rhebl1	1810036J22Rik|Rheb2	Ras homolog enriched in brain like 1	protein-coding	116.0	155.0	105.5	998.0	347.5	97.5	166.0	85.0
Merged-chr12-76534508-6	chr12	76534420	76534620	+	850.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153804, intron 1 of 18)	intron (NM_153804, intron 1 of 18)	960.0	NM_153804	263406.0	Mm.291854	NM_153804	ENSMUSG00000052609	Plekhg3	BC030417	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	protein-coding	5.5	10.0	13.0	163.0	13.0	4.5	12.0	6.5
Merged-chr11-21241512-4	chr11	21241416	21241616	+	800.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290628, intron 1 of 22)	intron (NM_001290628, intron 1 of 22)	2484.0	NM_001290628	245944.0	Mm.170103	NM_139061	ENSMUSG00000020128	Vps54	Hcc8|Vps54l|mSLP8|wr	VPS54 GARP complex subunit	protein-coding	10.5	7.0	4.5	109.0	41.0	6.5	14.0	6.0
Merged-chr16-57200700-1	chr16	57200600	57200800	+	607.25	f0_balb.idr	intron (NM_026254, intron 5 of 17)	MIRc|SINE|MIR	771.0	NM_001358434	67581.0	Mm.257819	NM_026254	ENSMUSG00000022749	Tbc1d23	4930451A13Rik|AU015720|AU043671|AU043778|D030022P07Rik|W51689	TBC1 domain family, member 23	protein-coding	12.0	16.0	8.5	99.0	2.0	2.0	2.0	0.0
Merged-chr5-117089380-3	chr5	117089301	117089501	+	900.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26592.0	NM_001122666	71954.0	Mm.34456	NM_178622	ENSMUSG00000066900	Suds3	2400003N08Rik|2410008L21Rik|AU067672|mSds3	suppressor of defective silencing 3 homolog (S. cerevisiae)	protein-coding	8.0	10.5	7.0	168.0	19.0	6.0	11.0	4.0
Merged-chr11-33162401-4	chr11	33162301	33162501	+	948.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008722, intron 1 of 10)	intron (NM_008722, intron 1 of 10)	805.0	NM_001252261	18148.0	Mm.485384	NM_008722	ENSMUSG00000057113	Npm1	B23|NO38|Npm	nucleophosmin 1	protein-coding	15.0	59.0	33.0	410.5	37.0	21.0	14.0	17.0
Merged-chr6-122852904-4	chr6	122852826	122853026	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009779, intron 1 of 1)	MTD|LTR|ERVL-MaLR	3231.0	NM_009779	12267.0	Mm.2408	NM_009779	ENSMUSG00000040552	C3ar1	AZ3B|C3AR|HNFAG09	complement component 3a receptor 1	protein-coding	46.0	75.0	47.0	907.5	115.5	42.5	70.5	48.5
Merged-chr4-155206647-3	chr4	155206533	155206733	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011385, intron 1 of 6)	URR1B|DNA|hAT-Charlie	15902.0	NM_011385	20481.0	Mm.28520	NM_011385	ENSMUSG00000029050	Ski	2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088	ski sarcoma viral oncogene homolog (avian)	protein-coding	9.0	11.0	5.5	13.0	56.0	21.5	33.0	33.5
Merged-chr7-127992043-4	chr7	127991936	127992136	+	737.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_023258, exon 3 of 3)	3' UTR (NM_023258, exon 3 of 3)	1831.0	NM_023258	66824.0	Mm.24163	NM_023258	ENSMUSG00000030793	Pycard	9130417A21Rik|Asc|CARD5|TMS-1|TNS1|masc	PYD and CARD domain containing	protein-coding	10.5	25.0	6.5	24.5	35.5	19.0	6.5	12.5
Merged-chr4-134762598-4	chr4	134762496	134762696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145554, intron 1 of 8)	intron (NM_145554, intron 1 of 8)	5408.0	NM_145554	100017.0	Mm.27486	NM_145554	ENSMUSG00000037295	Ldlrap1	AA691260|ARH2|Arh|Arh1|FHCB1|FHCB2	low density lipoprotein receptor adaptor protein 1	protein-coding	75.5	86.0	101.0	1328.0	167.5	45.0	70.0	80.0
Merged-chr1-92640644-4	chr1	92640555	92640755	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163425, intron 1 of 2)	intron (NM_001163425, intron 1 of 2)	1293.0	NR_028108	66915.0	Mm.30179	NM_001163425	ENSMUSG00000073616	Cops9	1110002M09Rik|Myeov2	COP9 signalosome subunit 9	protein-coding	29.5	43.0	45.5	389.5	61.5	31.0	21.0	27.5
Merged-chr2-31061035-4	chr2	31060936	31061136	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355105, intron 6 of 15)	intron (NM_001355105, intron 6 of 15)	35464.0	NM_001177650	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	83.5	99.0	57.0	680.5	137.5	45.5	54.0	46.0
Merged-chr13-23738830-4	chr13	23738722	23738922	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_015786)	promoter-TSS (NM_015786)	15.0	NM_015786	50708.0	Mm.193539	NM_015786	ENSMUSG00000036181	Hist1h1c	0610008C09Rik|H1.2|H1c|H1f2|H1var1|His1a	histone cluster 1, H1c	protein-coding	101.0	113.5	104.0	1431.5	237.5	121.5	133.0	121.5
Merged-chr19-43815965-7	chr19	43815798	43815998	+	910.003967	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013806, intron 16 of 31)	PB1D11|SINE|Alu	-22905.0	NR_033472	100038628.0	Mm.212585	NR_033472	ENSMUSG00000025194	Gm10768	-	predicted gene 10768	ncRNA	7.0	2.5	3.0	54.0	17.0	5.5	6.0	8.5
Merged-chr6-56652402-3	chr6	56652323	56652523	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	52276.0	NM_025520	66373.0	Mm.25642	NM_025520	ENSMUSG00000091625	Lsm5	2010208O10Rik|2310034K10Rik	LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated	protein-coding	7.5	11.5	9.5	72.0	13.0	9.0	7.5	5.0
Merged-chr10-117452335-4	chr10	117452244	117452444	+	861.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4909.0	NR_152734	102634600.0	Mm.399106	NR_152734	ENSMUSG00000112344	Gm32141	-	predicted gene, 32141	ncRNA	5.5	7.5	8.5	124.0	33.5	9.5	8.5	17.0
Merged-chr4-135434257-2	chr4	135434157	135434357	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022980)	promoter-TSS (NM_022980)	-452.0	NM_022980	53902.0	Mm.331970	NM_022980	ENSMUSG00000059713	Rcan3	AU041093|Csp3|Dscr1l2	regulator of calcineurin 3	protein-coding	20.0	19.5	6.5	143.0	65.5	17.0	30.0	23.5
Merged-chr7-35741073-3	chr7	35740963	35741163	+	895.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178704, intron 3 of 18)	B3|SINE|B2	13391.0	NM_178704	233115.0	Mm.257808	NM_178704	ENSMUSG00000043671	Dpy19l3	6030410G08|9330164H19Rik	dpy-19-like 3 (C. elegans)	protein-coding	23.0	23.0	19.0	342.0	23.5	4.0	10.0	11.0
Merged-chr8-72421588-4	chr8	72421503	72421703	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289859)	promoter-TSS (NM_001289859)	-129.0	NM_001289859	13859.0	Mm.288894	NM_007944	ENSMUSG00000006276	Eps15l1	9830147J04Rik|AI593686|Eps15-rs|Eps15R	epidermal growth factor receptor pathway substrate 15-like 1	protein-coding	277.5	418.5	245.0	3332.5	700.0	311.0	301.5	285.0
Merged-chr17-50134551-2	chr17	50134412	50134612	+	872.116699	f1_balb.idr|f1_c57bl6.idr	intron (NM_181397, intron 2 of 9)	intron (NM_181397, intron 2 of 9)	55985.0	NM_181397	76438.0	Mm.41854	NM_181397	ENSMUSG00000039316	Rftn1	2310015N21Rik|AI853526	raftlin lipid raft linker 1	protein-coding	4.5	10.0	7.0	54.0	12.0	10.0	2.5	9.0
Merged-chr3-109480793-4	chr3	109480695	109480895	+	827.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020505, intron 2 of 26)	intron (NM_020505, intron 2 of 26)	-93212.0	NM_146139	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	13.0	11.0	8.0	175.0	28.5	17.0	14.5	12.0
Merged-chr10-121599484-3	chr10	121599350	121599550	+	767.833313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359618, intron 22 of 24)	intron (NM_001359618, intron 22 of 24)	-12656.0	NM_019786	56480.0	Mm.34580	NM_019786	ENSMUSG00000020115	Tbk1	1200008B05Rik|AI462036|AW048562	TANK-binding kinase 1	protein-coding	2.0	0.0	1.0	6.0	31.0	13.0	18.5	21.5
Merged-chr18-34222867-4	chr18	34222760	34222960	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007462, intron 1 of 15)	intron (NM_007462, intron 1 of 15)	-1088.0	NR_040534	633395.0	Mm.414290	NR_040534	ENSMUSG00000073607	Gm10548	-	ribosomal protein L29 pseudogene	pseudo	31.0	43.5	21.5	711.5	124.0	23.0	35.5	55.0
Merged-chr16-35888383-4	chr16	35888284	35888484	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17002.0	NM_001039530	547253.0	Mm.244406	NM_001039530	ENSMUSG00000034422	Parp14	1600029O10Rik|ARTD8|BC021340|CoaSt6|mKIAA1268	poly (ADP-ribose) polymerase family, member 14	protein-coding	36.5	81.0	50.5	563.0	206.0	63.5	60.0	64.5
Merged-chr5-148928810-4	chr5	148928720	148928920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153572)	promoter-TSS (NM_153572)	-173.0	NM_153572	231912.0	Mm.397405	NM_153572	ENSMUSG00000041298	Katnal1	-	katanin p60 subunit A-like 1	protein-coding	60.5	100.5	165.5	940.5	163.5	95.0	128.0	97.5
Merged-chr4-88862781-4	chr4	88862671	88862871	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	12684.0	NM_010502	15962.0	Mm.57127	NM_010502	ENSMUSG00000095498	Ifna1	Ifa1	interferon alpha 1	protein-coding	17.0	24.0	33.0	253.0	18.0	11.0	15.0	12.0
Merged-chr10-13988414-4	chr10	13988287	13988487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358782, intron 1 of 9)	intron (NM_001358782, intron 1 of 9)	22008.0	NM_010437	15273.0	Mm.42157	NM_010437	ENSMUSG00000015501	Hivep2	Gm20114|MIBP-1|MIBP1|Schnurri-2|Shn-2	human immunodeficiency virus type I enhancer binding protein 2	protein-coding	131.0	183.0	116.5	2042.5	288.5	116.5	124.0	115.0
Merged-chr11-120437457-6	chr11	120437274	120437474	+	999.595215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199469, intron 1 of 15)	CpG	326.0	NM_001195023	217365.0	Mm.309520	NM_199469	ENSMUSG00000039703	Nploc4	AK129375|Npl4|mKIAA1499	NPL4 homolog, ubiquitin recognition factor	protein-coding	9.5	33.5	24.0	204.5	46.0	24.0	19.5	37.0
Merged-chr1-172552925-3	chr1	172552812	172553012	+	859.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(TG)n|Simple_repeat|Simple_repeat	-2106.0	NR_040558	71319.0	Mm.123774	NR_040558	ENSMUSG00000085184	4933439K11Rik	-	RIKEN cDNA 4933439K11 gene	ncRNA	5.0	2.0	0.5	23.5	46.0	24.0	20.0	14.0
Merged-chr10-95476138-3	chr10	95476048	95476248	+	794.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25801.0	NM_001359476	67270.0	Mm.30008	NM_026065	ENSMUSG00000062981	Mrpl42	2700009F22Rik|2900055D03Rik|D10Ertd322e|HSPC204|L31mt|L42mt|MRP-L31|MRP-L42|MRP-S32|PTD007|Rpml31|S32mt	mitochondrial ribosomal protein L42	protein-coding	9.5	18.0	13.0	105.5	18.5	3.5	3.5	7.0
Merged-chr2-131530151-2	chr2	131530051	131530251	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32134.0	NM_013460	11550.0	Mm.389380	NM_013460	ENSMUSG00000027335	Adra1d	Adra-1|Adra1|Adra1a|Gpcr8|Spr8|[a]1d|alpha1D-AR	adrenergic receptor, alpha 1d	protein-coding	5.0	6.5	7.0	62.0	20.5	3.5	4.0	5.0
Merged-chr6-124907965-4	chr6	124907863	124908063	+	950.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008479, intron 5 of 7)	intron (NM_008479, intron 5 of 7)	3742.0	NM_008479	16768.0	Mm.4528	NM_008479	ENSMUSG00000030124	Lag3	CD223|LAG-3|Ly66	lymphocyte-activation gene 3	protein-coding	16.5	16.5	8.0	61.5	99.5	38.0	8.5	14.0
Merged-chr5-127624644-1	chr5	127624544	127624744	+	726.666687	f0_balb.idr	Intergenic	B3A|SINE|B2	-7252.0	NM_133895	100561.0	Mm.28506	NM_133895	ENSMUSG00000029416	Slc15a4	AA987064|AW742963|C130069N12Rik|PHT1|PTR4	solute carrier family 15, member 4	protein-coding	8.0	13.0	6.5	124.5	5.5	1.5	1.5	4.5
Merged-chr3-54719150-4	chr3	54719043	54719243	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358017, intron 20 of 24)	intron (NM_001358017, intron 20 of 24)	16221.0	NM_027148	69639.0	Mm.29253	NM_027148	ENSMUSG00000027752	Exosc8	2310032N20Rik|CIP3|mKIAA4013	exosome component 8	protein-coding	53.0	62.5	50.0	1170.5	134.0	39.0	74.0	50.0
Merged-chr11-96837566-3	chr11	96837466	96837666	+	731.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7598.0	NM_008686	18023.0	Mm.6743	NM_008686	ENSMUSG00000038615	Nfe2l1	AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11	nuclear factor, erythroid derived 2,-like 1	protein-coding	1.0	1.0	2.0	15.0	22.0	7.5	7.0	16.0
Merged-chr5-75143461-5	chr5	75143395	75143595	+	781.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045792, intron 3 of 3)	intron (NR_045792, intron 3 of 3)	-8756.0	NR_144636	18595.0	Mm.221403	NM_011058	ENSMUSG00000029231	Pdgfra	AI115593|CD140a|Pdgfr-2	platelet derived growth factor receptor, alpha polypeptide	protein-coding	5.0	11.0	6.5	185.0	16.5	5.0	7.5	6.5
Merged-chr10-121264067-1	chr10	121263967	121264167	+	997.5	f0_balb.idr	3' UTR (NM_029057, exon 12 of 12)	3' UTR (NM_029057, exon 12 of 12)	47329.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	19.0	19.5	23.0	200.5	8.5	6.0	6.0	4.5
Merged-chr7-35150163-3	chr7	35150055	35150255	+	945.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	30862.0	NM_007678	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	23.5	25.0	12.0	157.5	21.0	7.5	6.0	6.5
Merged-chr14-20836200-3	chr14	20836095	20836295	+	930.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008873)	promoter-TSS (NM_008873)	-467.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	5.5	6.5	10.0	105.5	13.5	8.5	4.5	7.0
Merged-chr11-95041440-4	chr11	95041328	95041528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133667)	promoter-TSS (NM_133667)	-57.0	NM_133667	18604.0	Mm.29768	NM_133667	ENSMUSG00000038967	Pdk2	-	pyruvate dehydrogenase kinase, isoenzyme 2	protein-coding	222.5	286.0	200.5	2693.0	487.0	138.5	182.0	161.5
Merged-chr2-60288808-4	chr2	60288705	60288905	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4321.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	52.5	62.5	56.5	689.0	94.0	27.0	49.5	53.0
Merged-chr10-8762938-4	chr10	8762831	8763031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175155, intron 8 of 19)	intron (NM_175155, intron 8 of 19)	123139.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	52.0	70.5	50.0	513.0	203.5	73.0	82.0	41.5
Merged-chr11-77784459-3	chr11	77784367	77784567	+	920.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011586, intron 1 of 39)	intron (NM_011586, intron 1 of 39)	7232.0	NM_001291212	360013.0	Mm.341248	NM_011586	ENSMUSG00000000631	Myo18a	MAJN|MyoPDZ|MysPDZ|SP-R210	myosin XVIIIA	protein-coding	10.5	7.5	9.0	136.0	15.5	5.0	6.5	12.0
Merged-chr7-19269121-1	chr7	19269021	19269221	+	785.0	f0_c57.idr	intron (NM_009499, intron 1 of 12)	MIR|SINE|MIR	2733.0	NM_001282021	22323.0	Mm.9684	NM_009499	ENSMUSG00000030403	Vasp	-	vasodilator-stimulated phosphoprotein	protein-coding	7.5	21.0	7.0	81.5	31.0	14.5	13.5	8.0
Merged-chr8-94205935-4	chr8	94205850	94206050	+	923.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8614.0	NM_001357266	71805.0	Mm.458170	NM_172410	ENSMUSG00000032939	Nup93	2410008G02Rik	nucleoporin 93	protein-coding	10.5	21.0	16.5	177.0	39.5	20.0	28.5	16.5
Merged-chr8-27177345-4	chr8	27177277	27177477	+	862.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2731.0	NM_001080813	75767.0	Mm.205335	NM_029423	ENSMUSG00000031488	Rab11fip1	2010200K21Rik|4833414G05Rik|Rcp	RAB11 family interacting protein 1 (class I)	protein-coding	14.0	9.5	15.5	148.0	27.0	12.5	13.5	17.0
Merged-chr4-6924877-3	chr4	6924783	6924983	+	817.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145711, intron 1 of 8)	intron (NM_145711, intron 1 of 8)	65840.0	NM_145711	252838.0	Mm.435828	NM_145711	ENSMUSG00000041272	Tox	1700007F02Rik	thymocyte selection-associated high mobility group box	protein-coding	6.0	5.0	15.5	167.0	20.5	2.0	3.0	3.5
Merged-chr5-3430694-4	chr5	3430607	3430807	+	993.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009873, intron 4 of 7)	intron (NM_009873, intron 4 of 7)	86814.0	NM_009873	12571.0	Mm.31672	NM_009873	ENSMUSG00000040274	Cdk6	AI504062|Crk2	cyclin-dependent kinase 6	protein-coding	35.5	88.5	30.0	212.5	131.0	45.0	53.5	44.0
Merged-chr2-70842388-3	chr2	70842283	70842483	+	750.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16903.0	NM_172664	228012.0	Mm.136511	NM_172664	ENSMUSG00000041997	Tlk1	4930545J15Rik	tousled-like kinase 1	protein-coding	2.5	7.0	13.0	97.0	8.0	4.5	6.5	9.5
Merged-chr17-42937673-4	chr17	42937571	42937771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61247.0	NM_009847	12488.0	Mm.218637	NM_009847	ENSMUSG00000061665	Cd2ap	AL024079|C78928|METS-1|Mets1	CD2-associated protein	protein-coding	27.5	34.0	31.5	357.5	85.5	31.5	23.5	22.0
Merged-chr10-89407065-5	chr10	89406964	89407164	+	702.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	36903.0	NM_001284344	237436.0	Mm.11982	NM_001033331	ENSMUSG00000074802	Gas2l3	8430435B07Rik|Gm240	growth arrest-specific 2 like 3	protein-coding	4.5	6.0	9.5	128.5	7.5	3.5	3.5	3.5
Merged-chr1-97673639-3	chr1	97673545	97673745	+	698.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mus3|LINE|L1	-11627.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	11.5	5.0	7.0	60.0	17.0	4.0	2.5	4.5
Merged-chr1-157016781-4	chr1	157016678	157016878	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-77152.0	NM_001357391	78255.0	Mm.28376	NM_023884	ENSMUSG00000026594	Ralgps2	1810020P17Rik|2210408F11Rik|4921528G01Rik|9130014M22Rik|AU043409|AW046161	Ral GEF with PH domain and SH3 binding motif 2	protein-coding	29.5	41.0	53.0	752.0	69.0	25.0	38.0	48.0
Merged-chr7-101061419-3	chr7	101061267	101061467	+	935.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-47408.0	NM_001146010	207278.0	Mm.263041	NM_199012	ENSMUSG00000030691	Fchsd2	BC034086|R74866|Sh3md3|mKIAA0769	FCH and double SH3 domains 2	protein-coding	13.0	15.5	14.5	104.5	13.0	6.0	3.5	17.0
Merged-chr1-189657670-3	chr1	189657579	189657779	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081363, exon 12 of 18)	exon (NM_001081363, exon 12 of 18)	30407.0	NM_001081363	108000.0	Mm.129746	NM_001081363	ENSMUSG00000026605	Cenpf	6530404A22Rik|AI325968|CENF|Lek1|PRO1779|mitosin	centromere protein F	protein-coding	6.5	4.5	12.5	193.0	8.0	0.5	2.0	2.0
Merged-chr18-67715282-2	chr18	67715188	67715388	+	553.5	f0_balb.idr|f1_balb.idr	intron (NM_008977, intron 1 of 9)	MTC|LTR|ERVL-MaLR	9333.0	NM_001127177	19255.0	Mm.260433	NM_008977	ENSMUSG00000024539	Ptpn2	AI325124|Ptpt|TC-PTP	protein tyrosine phosphatase, non-receptor type 2	protein-coding	8.5	10.0	9.0	100.5	11.5	1.5	9.0	14.5
Merged-chr7-44246655-4	chr7	44246541	44246741	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025880)	promoter-TSS (NM_025880)	-81.0	NM_025880	668661.0	Mm.274492	NM_025880	ENSMUSG00000045411	2410002F23Rik	-	RIKEN cDNA 2410002F23 gene	protein-coding	40.5	107.5	65.0	736.0	123.5	59.5	67.5	46.0
Merged-chr11-48859223-4	chr11	48859103	48859303	+	745.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12217.0	NM_001355757	15944.0	Mm.29938	NM_008326	ENSMUSG00000046879	Irgm1	Ifggd3|Ifi1|Iigp3|Iipg3|Irgm	immunity-related GTPase family M member 1	protein-coding	4.0	12.0	1.5	104.5	25.0	5.0	5.0	13.5
Merged-chr18-38013935-4	chr18	38013832	38014032	+	968.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14963.0	NM_001205336	106952.0	Mm.247642	NM_139206	ENSMUSG00000024451	Arap3	Centd3|Drag1|E030006K04Rik|cnt-d3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	protein-coding	16.5	24.0	14.0	205.5	37.0	12.5	25.0	15.0
Merged-chr2-31142016-4	chr2	31141922	31142122	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177649)	promoter-TSS (NM_001177649)	-14.0	NM_001038700	14269.0	Mm.52297	NM_019406	ENSMUSG00000075415	Fnbp1	1110057E06Rik|2210010H06Rik|FBP1|Fbp17	formin binding protein 1	protein-coding	47.0	65.5	30.5	367.5	73.0	30.0	37.5	36.5
Merged-chr3-87334180-4	chr3	87334041	87334241	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23740.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	91.0	171.5	209.5	868.5	244.5	95.0	163.5	170.5
Merged-chr4-119119017-4	chr4	119118926	119119126	+	970.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011400, intron 1 of 9)	intron (NM_011400, intron 1 of 9)	10281.0	NM_011400	20525.0	Mm.21002	NM_011400	ENSMUSG00000028645	Slc2a1	Glut-1|Glut1	solute carrier family 2 (facilitated glucose transporter), member 1	protein-coding	19.0	14.0	21.0	493.5	56.0	9.0	31.5	41.0
Merged-chr9-50944926-4	chr9	50944766	50944966	+	859.785706	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178710, intron 3 of 15)	Lx7|LINE|L1	64207.0	NM_178710	235344.0	Mm.104932	NM_178710	ENSMUSG00000037112	Sik2	G630080D20Rik|Snf1lk2	salt inducible kinase 2	protein-coding	5.0	5.0	11.5	78.5	13.5	5.5	1.5	4.0
Merged-chr11-44399095-4	chr11	44398974	44399174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303244)	promoter-TSS (NM_001303244)	-989.0	NM_001303244	16160.0	Mm.239707	NM_008352	ENSMUSG00000004296	Il12b	Il-12b|Il-12p40|Il12p40|p40	interleukin 12b	protein-coding	101.0	185.0	91.0	885.5	200.5	93.0	91.0	54.5
Merged-chr2-119972394-4	chr2	119972311	119972511	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011941)	promoter-TSS (NM_011941)	-288.0	NM_001355293	26390.0	Mm.330501	NM_011941	ENSMUSG00000033902	Mapkbp1	2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596	mitogen-activated protein kinase binding protein 1	protein-coding	112.0	194.0	108.0	1438.0	297.0	112.5	132.0	119.5
Merged-chr1-181230934-1	chr1	181230834	181231034	+	637.333313	f0_balb.idr	Intergenic	Intergenic	-18956.0	NM_145514	226757.0	Mm.289082	NM_145514	ENSMUSG00000038733	Wdr26	1600024A01Rik|AA693241|AI447817|AU044014|C77982|Gid7	WD repeat domain 26	protein-coding	8.0	13.0	8.5	101.5	4.0	4.0	3.0	0.0
Merged-chr8-69089967-4	chr8	69089862	69090062	+	967.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153054)	promoter-TSS (NM_153054)	-740.0	NM_153054	110877.0	Mm.19301	NM_153054	ENSMUSG00000036330	Slc18a1	4832416I10Rik|Vat1|Vmat1	solute carrier family 18 (vesicular monoamine), member 1	protein-coding	17.5	39.5	11.5	284.5	65.5	21.5	21.0	31.5
Merged-chr5-117164763-3	chr5	117164702	117164902	+	792.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081308, intron 1 of 19)	intron (NM_001081308, intron 1 of 19)	31214.0	NM_183306	330177.0	Mm.24343	NM_183306	ENSMUSG00000061288	Taok3	2900006A08Rik|A130052D22|A430105I05Rik	TAO kinase 3	protein-coding	11.0	23.0	20.5	217.5	0.0	0.0	0.0	2.5
Merged-chr5-96980253-4	chr5	96980147	96980347	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17442.0	NM_080708	140780.0	Mm.281490	NM_080708	ENSMUSG00000034663	Bmp2k	4933417M22Rik|AA673486|AV128808|BIKE	BMP2 inducible kinase	protein-coding	95.5	144.0	102.0	1974.0	226.0	99.0	79.5	60.0
Merged-chr13-93498507-3	chr13	93498416	93498616	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_021310, exon 1 of 11)	exon (NM_021310, exon 1 of 11)	1292.0	NM_021310	57748.0	Mm.100273	NM_021310	ENSMUSG00000021690	Jmy	-	junction-mediating and regulatory protein	protein-coding	17.0	24.5	15.0	198.5	30.5	6.0	12.0	17.0
Merged-chr4-8912879-4	chr4	8912778	8912978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	161554.0	NM_001355382	320790.0	Mm.138792	NM_001033395	ENSMUSG00000041235	Chd7	A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis	chromodomain helicase DNA binding protein 7	protein-coding	61.0	101.0	97.0	931.0	211.0	79.5	118.0	77.5
Merged-chr10-54119469-4	chr10	54119348	54119548	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43526.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	169.5	282.0	154.0	2932.0	407.5	131.0	214.0	126.0
Merged-chr13-29838873-3	chr13	29838769	29838969	+	906.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001308486, intron 4 of 5)	intron (NM_001308486, intron 4 of 5)	16804.0	NR_131896	68916.0	Mm.212227	NM_144536	ENSMUSG00000006191	Cdkal1	1190005B03Rik|6620401C13Rik	CDK5 regulatory subunit associated protein 1-like 1	protein-coding	8.0	13.0	1.5	147.0	24.0	7.5	8.0	8.0
Merged-chr11-120749606-4	chr11	120749516	120749716	+	878.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17595.0	NM_007621	12409.0	Mm.21454	NM_007621	ENSMUSG00000025150	Cbr2	MLCR	carbonyl reductase 2	protein-coding	14.5	24.0	11.5	127.0	37.0	8.5	11.5	11.0
Merged-chr13-111941378-1	chr13	111941278	111941478	+	922.0	f0_balb.idr	Intergenic	PB1D10|SINE|Alu	73442.0	NR_130345	102636620.0	Mm.402328	NR_130345	ENSMUSG00000086111	Gm15326	-	predicted gene 15326	ncRNA	5.0	6.5	10.5	97.5	19.5	4.0	4.5	8.0
Merged-chr18-77065066-4	chr18	77064985	77065185	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001164167)	promoter-TSS (NM_001164167)	-123.0	NM_008602	17344.0	Mm.6370	NM_008602	ENSMUSG00000025423	Pias2	6330408K17Rik|AI462206|ARIP3|AU018068|Dib|Miz1|PIASxalpha|PIASxb|PIASxbeta|SIZ2	protein inhibitor of activated STAT 2	protein-coding	67.5	72.0	76.5	729.0	146.0	72.5	86.0	61.0
Merged-chr15-103366118-1	chr15	103366018	103366218	+	841.0	f0_balb.idr	intron (NM_001314041, intron 1 of 30)	CpG	673.0	NM_010577	16402.0	Mm.16234	NM_010577	ENSMUSG00000000555	Itga5	Cd49e|Fnra|VLA5	integrin alpha 5 (fibronectin receptor alpha)	protein-coding	2.0	19.0	18.0	30.0	22.5	6.0	6.0	5.0
Merged-chr10-41571234-4	chr10	41571141	41571341	+	986.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 36 of 47)	intron (NM_001358562, intron 36 of 47)	3225.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	20.0	55.0	38.5	517.0	76.0	37.5	33.0	17.0
Merged-chr8-10858080-4	chr8	10857982	10858182	+	981.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	24372.0	NR_040705	320014.0	Mm.403203	NR_040705	ENSMUSG00000109473	B930025P03Rik	-	RIKEN cDNA B930025P03 gene	ncRNA	25.0	28.5	18.0	561.5	64.0	28.0	24.0	16.0
Merged-chr12-103348722-4	chr12	103348624	103348824	+	862.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023049, intron 1 of 9)	intron (NM_023049, intron 1 of 9)	7277.0	NM_023049	65256.0	Mm.27159	NM_023049	ENSMUSG00000021200	Asb2	1110008E15Rik	ankyrin repeat and SOCS box-containing 2	protein-coding	12.5	16.5	8.0	117.0	36.0	11.0	8.5	14.0
Merged-chr15-100447127-2	chr15	100447023	100447223	+	815.916687	f0_balb.idr|f1_balb.idr	Intergenic	PB1D10|SINE|Alu	-21888.0	NM_001357983	68614.0	Mm.275272	NM_134093	ENSMUSG00000037353	Letmd1	1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr	LETM1 domain containing 1	protein-coding	12.0	25.0	13.5	173.0	5.0	9.0	5.5	6.5
Merged-chr15-91703210-3	chr15	91703115	91703315	+	855.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025730, intron 11 of 50)	intron (NM_025730, intron 11 of 50)	29991.0	NM_025730	66725.0	Mm.37558	NM_025730	ENSMUSG00000036273	Lrrk2	4921513O20Rik|9330188B09Rik|AW561911|D630001M17Rik|Gm927|cI-46	leucine-rich repeat kinase 2	protein-coding	12.5	19.5	12.5	245.0	11.5	8.5	13.5	20.5
Merged-chr17-35076764-2	chr17	35076655	35076855	+	679.333374	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027366)	promoter-TSS (NM_027366)	-187.0	NM_027366	70274.0	Mm.250491	NM_027366	ENSMUSG00000013766	Ly6g6e	2310011I02Rik|G6e	lymphocyte antigen 6 complex, locus G6E	protein-coding	5.5	8.5	1.5	48.5	12.5	6.5	5.5	7.5
Merged-chr6-51556776-4	chr6	51556667	51556867	+	982.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361577, intron 1 of 6)	L1MB2|LINE|L1	11474.0	NM_001361577	71982.0	Mm.294166	NM_028035	ENSMUSG00000038301	Snx10	2410004M09Rik	sorting nexin 10	protein-coding	39.5	53.0	41.5	497.0	62.0	20.5	15.5	17.5
Merged-chr10-22001350-2	chr10	22001250	22001450	+	918.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur2|SINE|Alu	6684.0	NM_011361	20393.0	Mm.28405	NM_011361	ENSMUSG00000019970	Sgk1	Sgk	serum/glucocorticoid regulated kinase 1	protein-coding	4.5	18.5	5.5	94.5	14.5	2.0	3.0	0.5
Merged-chr9-72797252-4	chr9	72797146	72797346	+	990.666626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10028.0	NM_175485	235472.0	Mm.31696	NM_175485	ENSMUSG00000036030	Prtg	A230098A12Rik|Igdcc5	protogenin	protein-coding	20.0	18.5	30.5	406.0	38.5	20.5	30.0	16.0
Merged-chr13-59585213-4	chr13	59585124	59585324	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045633)	promoter-TSS (NR_045633)	-1.0	NR_045633	319469.0	Mm.437992	NR_045633	ENSMUSG00000021557	A230056J06Rik	-	RIKEN cDNA A230056J06 gene	ncRNA	198.0	340.5	199.5	2237.0	610.5	211.0	237.0	189.0
Merged-chr15-86201207-4	chr15	86201095	86201295	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13264.0	NM_145476	223754.0	Mm.28904	NM_145476	ENSMUSG00000051864	Tbc1d22a	BC023106|D15Ertd781e	TBC1 domain family, member 22a	protein-coding	115.0	162.5	141.5	1868.0	202.5	82.0	91.0	74.5
Merged-chr13-49300842-3	chr13	49300745	49300945	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015759, intron 1 of 17)	intron (NM_015759, intron 1 of 17)	8363.0	NM_015759	30938.0	Mm.291089	NM_015759	ENSMUSG00000037946	Fgd3	5830461L01Rik|ZFYVE5	FYVE, RhoGEF and PH domain containing 3	protein-coding	12.5	12.0	8.5	139.0	15.5	6.5	13.5	12.5
Merged-chr7-45305510-4	chr7	45305425	45305625	+	806.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175130, intron 20 of 24)	intron (NM_175130, intron 20 of 24)	-19433.0	NR_110499	100040970.0	Mm.289810	NR_110499	ENSMUSG00000046721	Rpl14-ps1	Gm9811	ribosomal protein L14, pseudogene 1	pseudo	6.5	15.0	8.0	88.0	17.0	10.5	7.5	12.0
Merged-chr12-111432324-4	chr12	111432208	111432408	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_028807)	TTS (NM_028807)	-10353.0	NM_009396	21928.0	Mm.255332	NM_009396	ENSMUSG00000021281	Tnfaip2	B94|Exoc3l3|M-sec|Tnfip2|tnfb94	tumor necrosis factor, alpha-induced protein 2	protein-coding	56.5	91.0	48.0	712.0	139.5	25.5	36.0	39.0
Merged-chr8-71382796-4	chr8	71382698	71382898	+	994.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010150)	promoter-TSS (NM_010150)	-846.0	NM_010150	13864.0	Mm.28989	NM_010150	ENSMUSG00000002393	Nr2f6	AV090102|COUP-TF3|EAR2|Erbal2	nuclear receptor subfamily 2, group F, member 6	protein-coding	21.5	38.5	24.0	199.5	110.5	44.0	21.5	21.0
Merged-chr14-29980647-3	chr14	29980565	29980765	+	783.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027493, intron 1 of 12)	intron (NM_027493, intron 1 of 12)	2328.0	NM_027493	56249.0	Mm.215110	NM_027493	ENSMUSG00000015971	Actr8	5730542K05Rik|ARP8	ARP8 actin-related protein 8	protein-coding	7.0	16.0	9.5	62.5	14.0	15.5	7.5	23.5
Merged-chr18-25538407-4	chr18	25538355	25538555	+	898.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362322, intron 2 of 12)	intron (NM_001362322, intron 2 of 12)	141293.0	NM_001362337	108013.0	Mm.266435	NM_133195	ENSMUSG00000024268	Celf4	A230070D14Rik|BRUNOL-4|Brul4|Brunol4|C130060B05Rik	CUGBP, Elav-like family member 4	protein-coding	2.0	12.0	11.5	124.0	24.0	9.0	15.0	23.0
Merged-chr11-83299006-4	chr11	83298908	83299108	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134025)	promoter-TSS (NM_134025)	-31.0	NM_134025	103737.0	Mm.102205	NM_134025	ENSMUSG00000018733	Pex12	AI451906	peroxisomal biogenesis factor 12	protein-coding	99.0	174.5	87.5	1563.0	312.5	117.0	121.5	116.5
Merged-chr2-129633484-4	chr2	129633382	129633582	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2b|LINE|L2	38020.0	NM_001355160	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	205.0	246.5	240.5	2586.5	367.0	196.5	204.0	199.5
Merged-chr9-44192881-3	chr9	44192787	44192987	+	930.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007619, intron 2 of 15)	L1MB4|LINE|L1	41159.0	NM_007619	12402.0	Mm.266871	NM_007619	ENSMUSG00000034342	Cbl	4732447J05Rik|Cbl-2|c-Cbl|cbl	Casitas B-lineage lymphoma	protein-coding	13.0	6.5	7.5	255.0	21.5	7.0	3.5	13.0
Merged-chr4-55598204-4	chr4	55598091	55598291	+	899.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-65716.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	9.5	14.5	14.0	139.0	31.0	5.0	21.0	15.5
Merged-chr13-117048598-4	chr13	117048503	117048703	+	984.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1N2|LTR|ERVL-MaLR	-23087.0	NM_001081009	52552.0	Mm.274466	NM_027272	ENSMUSG00000021725	Parp8	2810430O08Rik|ARTD16|D13Ertd275e	poly (ADP-ribose) polymerase family, member 8	protein-coding	33.0	60.0	43.0	469.5	66.5	15.0	31.5	16.0
Merged-chr15-55356187-4	chr15	55356106	55356306	+	851.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181277, intron 5 of 47)	intron (NM_181277, intron 5 of 47)	48456.0	NM_181277	12818.0	Mm.297859	NM_181277	ENSMUSG00000022371	Col14a1	5730412L22Rik|AW108078	collagen, type XIV, alpha 1	protein-coding	9.0	15.0	19.0	186.0	10.5	9.5	6.5	15.5
Merged-chr18-34651375-1	chr18	34651275	34651475	+	961.0	f1_balb.idr	intron (NM_178347, intron 2 of 15)	CpG	361.0	NM_178347	52563.0	Mm.196638	NM_178347	ENSMUSG00000024370	Cdc23	6030435O18|D18Ertd243e	CDC23 cell division cycle 23	protein-coding	13.0	7.5	4.0	90.5	9.5	6.5	5.0	13.5
Merged-chr8-117338391-4	chr8	117338275	117338475	+	835.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001163262, intron 1 of 20)	ID_B1|SINE|B4	-10795.0	NM_028941	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	21.5	11.0	8.0	177.5	16.5	6.0	11.5	11.5
Merged-chr9-7222752-4	chr9	7222653	7222853	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38248.0	NM_029775	76863.0	Mm.27293	NM_029775	ENSMUSG00000032002	Dcun1d5	3110001A18Rik|4833420K19Rik|AW060460|D430047L21Rik	DCN1, defective in cullin neddylation 1, domain containing 5 (S. cerevisiae)	protein-coding	122.0	168.5	197.0	1832.5	330.5	133.0	161.5	114.0
Merged-chr6-116735516-4	chr6	116735417	116735617	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER44B|DNA|TcMar-Tigger	-18759.0	NM_178768	319776.0	Mm.133120	NM_178768	ENSMUSG00000048108	Tmem72	C230095G01Rik	transmembrane protein 72	protein-coding	18.0	27.0	25.0	210.0	69.0	19.0	11.0	9.5
Merged-chr16-35752058-4	chr16	35751954	35752154	+	691.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153550, intron 1 of 8)	RLTR13D|LTR|ERVK	17302.0	NM_153550	224132.0	Mm.24094	NM_153550	ENSMUSG00000022848	Dirc2	RCC4	disrupted in renal carcinoma 2 (human)	protein-coding	8.5	6.5	8.5	110.0	13.5	10.5	9.5	12.0
Merged-chr11-26601977-4	chr11	26601856	26602056	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER34A|LTR|ERV1	-8036.0	NM_001252447	69922.0	Mm.285351	NM_027260	ENSMUSG00000064090	Vrk2	2810003O05Rik|AI447698	vaccinia related kinase 2	protein-coding	76.0	110.0	118.5	1485.0	206.5	71.5	84.0	83.0
Merged-chr19-16140269-4	chr19	16140174	16140374	+	983.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008139, intron 1 of 6)	intron (NM_008139, intron 1 of 6)	7443.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	26.0	51.5	26.5	273.5	72.0	27.5	27.0	19.5
Merged-chr4-32170327-3	chr4	32170288	32170488	+	741.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	206281.0	NM_172688	26409.0	Mm.258589	NM_009316	ENSMUSG00000028284	Map3k7	B430101B05|C87327|Tak1	mitogen-activated protein kinase kinase kinase 7	protein-coding	4.0	9.5	8.0	67.5	12.0	8.5	9.0	6.0
Merged-chr14-75183037-1	chr14	75182937	75183137	+	783.333313	f0_balb.idr	intron (NM_008879, intron 2 of 16)	intron (NM_008879, intron 2 of 16)	46612.0	NM_008879	18826.0	Mm.153911	NM_008879	ENSMUSG00000021998	Lcp1	AW536232|D14Ertd310e|LCP-1|Pls2|pp65	lymphocyte cytosolic protein 1	protein-coding	13.0	15.5	8.5	145.5	31.0	5.0	3.0	6.5
Merged-chr6-122565619-4	chr6	122565522	122565722	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	11813.0	NM_009645	11628.0	Mm.391503	NM_009645	ENSMUSG00000040627	Aicda	Aid|Arp2	activation-induced cytidine deaminase	protein-coding	54.0	113.5	37.0	461.5	114.0	56.5	66.0	40.5
Merged-chr6-71438228-4	chr6	71438105	71438305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355745, intron 1 of 9)	intron (NM_001355745, intron 1 of 9)	2432.0	NM_001355745	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	49.5	77.0	78.0	927.5	90.5	22.5	48.0	43.5
Merged-chr8-95166087-4	chr8	95165989	95166189	+	801.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23549.0	NM_001145831	16582.0	Mm.378951	NM_010631	ENSMUSG00000031788	Kifc3	AI325457|BB123200	kinesin family member C3	protein-coding	5.5	13.0	27.0	190.5	38.5	10.5	10.5	13.0
Merged-chr3-76068116-3	chr3	76068017	76068217	+	908.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6444.0	NM_178673	213262.0	Mm.379337	NM_178673	ENSMUSG00000034098	Fstl5	9130207J01Rik	follistatin-like 5	protein-coding	9.5	15.0	2.5	174.0	11.5	8.0	8.0	11.0
Merged-chr7-28312106-4	chr7	28312026	28312226	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025616)	promoter-TSS (NM_025616)	-80.0	NM_025616	66525.0	Mm.167913	NM_025616	ENSMUSG00000003438	Timm50	2810403L02Rik|AU015082|TIM50L	translocase of inner mitochondrial membrane 50	protein-coding	135.5	199.0	104.0	1535.5	261.0	118.0	139.0	86.0
Merged-chr1-33898540-4	chr1	33898439	33898639	+	998.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177235, intron 1 of 6)	intron (NM_177235, intron 1 of 6)	9082.0	NM_177235	320705.0	Mm.336619	NM_177235	ENSMUSG00000042182	Bend6	B230209C24Rik	BEN domain containing 6	protein-coding	30.5	52.5	22.5	468.0	39.0	26.5	19.5	40.5
Merged-chr7-99917617-4	chr7	99917513	99917713	+	787.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164258, exon 19 of 19)	exon (NM_001164258, exon 19 of 19)	58395.0	NM_001164258	446101.0	Mm.440757	NM_001164258	ENSMUSG00000035211	Xrra1	AI449753	X-ray radiation resistance associated 1	protein-coding	6.0	9.0	7.5	30.5	4.5	3.5	1.5	3.0
Merged-chr5-90603547-4	chr5	90603442	90603642	+	926.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_028478, exon 11 of 11)	3' UTR (NM_028478, exon 11 of 11)	36985.0	NM_028478	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	6.0	24.0	10.0	318.5	27.0	13.0	9.5	13.0
Merged-chr10-8926367-6	chr10	8926233	8926433	+	898.7777710000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx7|LINE|L1	-40263.0	NM_175155	70097.0	Mm.338275	NM_175155	ENSMUSG00000015305	Sash1	1100001C18Rik|2500002E12Rik|A330076K04Rik|mKIAA0790	SAM and SH3 domain containing 1	protein-coding	5.5	5.5	4.5	39.5	30.0	8.5	8.5	19.0
Merged-chr1-78666158-4	chr1	78666039	78666239	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001136226, exon 4 of 4)	exon (NM_001136226, exon 4 of 4)	7699.0	NM_001136226	195434.0	Mm.276016	NM_001001981	ENSMUSG00000079470	Utp14b	4932411L21Rik|jsd	UTP14B small subunit processome component	protein-coding	64.0	48.5	75.5	1211.5	47.0	15.0	24.5	7.0
Merged-chr2-30942788-4	chr2	30942669	30942869	+	975.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10232.0	NM_133673	30934.0	Mm.249164	NM_133673	ENSMUSG00000026848	Tor1b	2610016F05Rik|DQ1|torsinB	torsin family 1, member B	protein-coding	16.0	38.0	19.0	270.5	25.5	14.0	10.0	14.5
Merged-chr15-27664329-4	chr15	27664228	27664428	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001242424, intron 4 of 8)	intron (NM_001242424, intron 4 of 8)	17214.0	NM_001242424	223433.0	Mm.266485	NM_198301	ENSMUSG00000056069	Fam105a	9830126M18	family with sequence similarity 105, member A	protein-coding	121.5	182.0	155.0	2233.0	384.5	121.0	233.5	132.5
Merged-chr19-45436249-3	chr19	45436157	45436357	+	849.388916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360127, intron 2 of 13)	intron (NM_001360127, intron 2 of 13)	72523.0	NM_001360126	12234.0	Mm.119717	NM_009771	ENSMUSG00000025217	Btrc	Beta-Trcp1|E3RS-IkappaB|E3RSIkappaB|FWD1|Fbw1a|HOS|SCF b-TRCP|Slimb|b-TrCP|beta-TrCP	beta-transducin repeat containing protein	protein-coding	7.0	6.5	5.5	70.0	19.5	9.5	9.0	9.5
Merged-chr13-30659928-4	chr13	30659831	30660031	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037955)	promoter-TSS (NM_001037955)	-128.0	NM_001037955	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	108.0	128.0	83.5	1261.0	348.0	111.0	145.0	78.0
Merged-chr5-30775232-4	chr5	30775135	30775335	+	910.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023047, intron 2 of 12)	(CCCCAG)n|Simple_repeat|Simple_repeat	-39406.0	NM_133350	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	19.0	37.5	10.0	214.0	71.5	23.0	17.0	25.0
Merged-chr9-46012724-4	chr9	46012600	46012800	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027498)	promoter-TSS (NM_027498)	-10.0	NM_001357241	18475.0	Mm.200859	NM_008775	ENSMUSG00000003131	Pafah1b2	2610005M20Rik|AI747451|AU021353|Pafahb|mus[b]	platelet-activating factor acetylhydrolase, isoform 1b, subunit 2	protein-coding	121.0	158.5	88.0	1125.0	270.5	124.0	117.5	112.0
Merged-chr15-9118756-4	chr15	9118672	9118872	+	963.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 7 of 9)	L2|LINE|L2	21682.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	22.5	14.5	32.5	561.5	29.5	5.0	7.0	18.0
Merged-chr8-34808210-6	chr8	34808093	34808293	+	877.569458	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176933, intron 1 of 3)	CpG-13950	583.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	11.0	10.0	16.5	75.0	28.5	8.0	10.0	17.5
Merged-chr18-32369985-4	chr18	32369902	32370102	+	861.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045403, intron 2 of 2)	Lx9|LINE|L1	-7215.0	NM_001083334	30948.0	Mm.4383	NM_009668	ENSMUSG00000024381	Bin1	ALP-1|Amphl|BRAMP-2|SH3P9	bridging integrator 1	protein-coding	14.0	20.5	11.0	168.0	37.5	7.5	27.0	10.5
Merged-chr7-25577063-1	chr7	25576963	25577163	+	786.75	f0_balb.idr	Intergenic	Intergenic	-37059.0	NM_001113369	26367.0	Mm.439731	NM_007543	ENSMUSG00000054385	Ceacam2	AI267129|Bgp2|Ceacam2-L	carcinoembryonic antigen-related cell adhesion molecule 2	protein-coding	8.5	10.5	8.0	5.0	10.5	4.5	2.0	4.0
Merged-chr1-148903315-4	chr1	148903219	148903419	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	1019120.0	NM_001305632	18783.0	Mm.4186	NM_008869	ENSMUSG00000056220	Pla2g4a	Pla2g4|cPLA2|cPLA2-alpha|cPLA2alpha	phospholipase A2, group IVA (cytosolic, calcium-dependent)	protein-coding	151.5	164.0	154.0	2557.0	324.0	113.5	121.0	107.0
Merged-chr13-23542697-3	chr13	23542565	23542765	+	784.25	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_178197)	TTS (NM_178197)	779.0	NM_178197	319182.0	Mm.352273	NM_178197	ENSMUSG00000114456	Hist1h2bh	H2b-221	histone cluster 1, H2bh	protein-coding	7.5	8.0	7.5	71.5	18.0	6.0	22.0	31.0
Merged-chr17-5174609-3	chr17	5174508	5174708	+	872.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085355, intron 4 of 19)	intron (NM_001085355, intron 4 of 19)	179534.0	NM_001085355	239985.0	Mm.133401	NM_001085355	ENSMUSG00000069729	Arid1b	8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|BAF250B|mKIAA1235	AT rich interactive domain 1B (SWI-like)	protein-coding	4.5	8.0	3.0	170.0	13.5	6.5	5.5	15.0
Merged-chr10-8135398-4	chr10	8135278	8135478	+	907.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-179255.0	NM_138667	68652.0	Mm.193041	NM_138667	ENSMUSG00000015755	Tab2	1110030N06Rik|A530078N03Rik|Map3k7ip2|mKIAA0733	TGF-beta activated kinase 1/MAP3K7 binding protein 2	protein-coding	7.0	6.5	4.0	32.5	89.5	26.5	38.5	23.5
Merged-chr19-12457888-1	chr19	12457788	12457988	+	1000.0	f0_c57.idr	Intergenic	Intergenic	-2891.0	NM_010821	17476.0	Mm.3999	NM_010821	ENSMUSG00000046805	Mpeg1	MPS1|Mpg-1	macrophage expressed gene 1	protein-coding	13.5	32.0	15.0	269.5	52.5	28.0	26.5	28.0
Merged-chr11-68446130-3	chr11	68446052	68446252	+	936.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177320, intron 1 of 18)	URR1B|DNA|hAT-Charlie	14027.0	NM_177320	320207.0	Mm.244960	NM_177320	ENSMUSG00000020901	Pik3r5	AV230647|F730038I15Rik|Foap2|p101	phosphoinositide-3-kinase regulatory subunit 5	protein-coding	12.5	14.5	10.0	117.0	17.5	5.0	8.0	2.0
Merged-chr7-27356085-4	chr7	27355984	27356184	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138676)	promoter-TSS (NM_138676)	-76.0	NM_138676	192192.0	Mm.21297	NM_138676	ENSMUSG00000089832	Shkbp1	B930062H15Rik|Sb1	Sh3kbp1 binding protein 1	protein-coding	193.5	272.5	177.5	2198.5	397.5	166.5	226.0	156.5
Merged-chr17-28207725-4	chr17	28207634	28207834	+	981.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027185)	promoter-TSS (NM_027185)	-44.0	NM_027185	23853.0	Mm.204731	NM_027185	ENSMUSG00000002257	Def6	2410003F05Rik|6430538D02Rik|AV094905|Ibp|Slat|Slat2|Slat6	differentially expressed in FDCP 6	protein-coding	16.0	35.5	20.5	544.0	46.5	13.5	17.5	12.5
Merged-chr8-126566160-4	chr8	126566066	126566266	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27270.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	164.5	229.0	147.0	2241.0	224.5	83.0	87.5	82.5
Merged-chr17-8225376-4	chr17	8225266	8225466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10677.0	NM_001190333	12458.0	Mm.8007	NM_009835	ENSMUSG00000040899	Ccr6	CC-CKR-6|CCR-6|Cmkbr6|KY411	chemokine (C-C motif) receptor 6	protein-coding	44.0	50.5	30.0	363.5	58.5	27.0	23.0	27.0
Merged-chr4-46389330-5	chr4	46389187	46389387	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347095, intron 1 of 4)	CpG	136.0	NM_029086	74753.0	Mm.45973	NM_029086	ENSMUSG00000028331	Trmo	5830415F09Rik|AV014846|Nap1	tRNA methyltransferase O	protein-coding	18.0	25.0	14.5	290.5	231.5	85.0	49.0	89.5
Merged-chr9-55310366-4	chr9	55310250	55310450	+	975.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16563.0	NM_172923	244886.0	Mm.24361	NM_172923	ENSMUSG00000032313	Tmem266	9630029F15|AI118078|HVRP1	transmembrane protein 266	protein-coding	32.0	22.5	52.5	406.5	31.0	23.0	10.0	9.5
Merged-chr4-132514931-4	chr4	132514837	132515037	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4481.0	NM_144907	230784.0	Mm.23608	NM_144907	ENSMUSG00000028893	Sesn2	HI95|SEST2|Ses2	sestrin 2	protein-coding	22.0	28.5	17.0	219.5	58.0	31.0	25.5	31.0
Merged-chr13-30986141-7	chr13	30985997	30986197	+	797.892883	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12050.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	8.0	9.5	5.5	58.0	14.0	5.0	5.5	9.5
Merged-chr7-82649278-3	chr7	82649154	82649354	+	889.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177894)	promoter-TSS (NM_177894)	640.0	NM_175317	101592.0	Mm.238020	NM_175317	ENSMUSG00000038563	Efl1	4932434J20Rik|6030468D11Rik|AI451340|AU019507|AU022896|D7Ertd791e|Eftud1	elongation factor like GPTase 1	protein-coding	13.5	18.5	3.5	83.0	18.0	15.0	7.0	4.5
Merged-chr15-84126627-4	chr15	84126545	84126745	+	917.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3470.0	NM_029427	75772.0	Mm.159565	NM_029427	ENSMUSG00000018868	Pnpla5	4833426H19Rik|GS2L	patatin-like phospholipase domain containing 5	protein-coding	18.5	23.0	21.5	257.0	23.5	14.5	17.0	14.0
Merged-chr7-4925123-4	chr7	4925029	4925229	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173008)	promoter-TSS (NM_173008)	-715.0	NM_173008	269855.0	Mm.44190	NM_173008	ENSMUSG00000035279	Ssc5d	A430110N23Rik|S5D-SRCRB	scavenger receptor cysteine rich family, 5 domains	protein-coding	24.5	28.0	16.5	265.5	86.5	36.5	33.0	32.5
Merged-chr4-41135951-4	chr4	41135869	41136069	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026275)	promoter-TSS (NM_026275)	-52.0	NM_026275	67615.0	Mm.389540	NM_026275	ENSMUSG00000036241	Ube2r2	1200003M11Rik|Cdc34b|Ubc3b	ubiquitin-conjugating enzyme E2R 2	protein-coding	47.0	60.5	55.5	482.0	71.5	45.0	46.0	44.5
Merged-chr8-111732187-4	chr8	111732076	111732276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198839)	promoter-TSS (NM_001198839)	-40.0	NM_001198839	12927.0	Mm.3758	NM_009954	ENSMUSG00000031955	Bcar1	AI385681|Cas|Crkas	breast cancer anti-estrogen resistance 1	protein-coding	172.5	246.0	160.5	2587.5	263.5	60.5	135.0	104.0
Merged-chr9-20973887-4	chr9	20973788	20973988	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010333, intron 1 of 1)	intron (NM_010333, intron 1 of 1)	2905.0	NM_010333	14739.0	Mm.46493	NM_010333	ENSMUSG00000043895	S1pr2	1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2	sphingosine-1-phosphate receptor 2	protein-coding	92.0	108.0	71.5	1510.5	126.5	65.5	80.0	75.5
Merged-chr7-43443509-4	chr7	43443403	43443603	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026695)	promoter-TSS (NM_026695)	-569.0	NM_026695	110826.0	Mm.30200	NM_026695	ENSMUSG00000004610	Etfb	0610009I16Rik|2810441H06Rik	electron transferring flavoprotein, beta polypeptide	protein-coding	52.0	108.0	48.0	909.0	153.5	66.5	102.5	58.0
Merged-chr9-14867185-4	chr9	14867106	14867306	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010287, intron 3 of 3)	intron (NM_010287, intron 3 of 3)	6996.0	NM_010287	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	31.5	43.5	39.5	668.0	63.5	27.0	45.0	25.5
Merged-chr19-21895731-4	chr19	21895625	21895825	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1D2|LTR|ERVL-MaLR	117385.0	NM_031997	83921.0	Mm.329776	NM_031997	ENSMUSG00000024754	Tmem2	-	transmembrane protein 2	protein-coding	66.0	81.0	109.0	1423.5	142.5	40.5	77.0	66.0
Merged-chr4-43040366-4	chr4	43040268	43040468	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001253353)	promoter-TSS (NM_001253353)	-67.0	NM_001253354	230088.0	Mm.260162	NM_172691	ENSMUSG00000036002	Fam214b	B230312A22Rik	family with sequence similarity 214, member B	protein-coding	315.0	465.0	328.0	4028.5	628.0	292.5	364.5	242.0
Merged-chr17-28510629-4	chr17	28510545	28510745	+	976.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20216.0	NM_026290	67645.0	Mm.46170	NM_026290	ENSMUSG00000024223	Armc12	4930511I11Rik|AV041658	armadillo repeat containing 12	protein-coding	42.0	45.5	12.5	223.5	107.0	28.0	24.5	17.5
Merged-chr9-70679521-1	chr9	70679421	70679621	+	970.0	f0_balb.idr	intron (NM_007399, intron 1 of 15)	CpG	539.0	NM_007399	11487.0	Mm.3037	NM_007399	ENSMUSG00000054693	Adam10	1700031C13Rik|MADM|kuz|kuzbanian	a disintegrin and metallopeptidase domain 10	protein-coding	22.5	15.0	11.5	197.0	33.5	22.0	15.0	18.5
Merged-chr17-32319454-4	chr17	32319351	32319551	+	919.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357760, intron 1 of 11)	intron (NM_001357760, intron 1 of 11)	1787.0	NM_001357760	56399.0	Mm.328945	NM_019774	ENSMUSG00000024045	Akap8	1200016A02Rik|AA673585|AKAP-8|AKAP95|AU015639	A kinase (PRKA) anchor protein 8	protein-coding	6.5	27.5	9.0	164.0	30.0	6.0	15.5	2.5
Merged-chr9-21316981-4	chr9	21316878	21317078	+	998.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-3741.0	NM_001359227	68682.0	Mm.148425	NM_152808	ENSMUSG00000057193	Slc44a2	1110028E10Rik|CTL2	solute carrier family 44, member 2	protein-coding	76.5	137.0	54.0	790.0	121.0	52.0	31.0	21.5
Merged-chr16-90461534-4	chr16	90461430	90461630	+	985.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_015755, intron 4 of 10)	intron (NM_015755, intron 4 of 10)	75133.0	NM_015755	26559.0	Mm.125874	NM_015755	ENSMUSG00000053414	Hunk	Bstk1|Mak-v	hormonally upregulated Neu-associated kinase	protein-coding	17.0	45.0	18.5	293.0	32.0	14.0	17.5	21.0
Merged-chr6-145307461-4	chr6	145307363	145307563	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MA4|LINE|L1	56911.0	NR_045598	100039495.0	Mm.121014	NR_045598	ENSMUSG00000086013	Gm15706	-	predicted gene 15706	ncRNA	229.0	296.0	225.0	4107.0	454.5	174.0	250.0	209.5
Merged-chr11-115420034-4	chr11	115419905	115420105	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183285)	promoter-TSS (NM_183285)	-86.0	NM_027862	71679.0	Mm.371641	NM_027862	ENSMUSG00000034566	Atp5h	0610009D10Rik	ATP synthase, H+ transporting, mitochondrial F0 complex, subunit D	protein-coding	128.0	196.5	86.5	1201.5	268.5	111.5	119.5	113.0
Merged-chr11-61749423-4	chr11	61749312	61749512	+	858.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144806, intron 5 of 11)	intron (NM_144806, intron 5 of 11)	12676.0	NM_144806	212627.0	Mm.27703	NM_144806	ENSMUSG00000020528	Prpsap2	A230054F23Rik	phosphoribosyl pyrophosphate synthetase-associated protein 2	protein-coding	12.0	17.0	10.5	252.5	29.5	6.0	10.0	14.0
Merged-chr16-95728992-4	chr16	95728895	95729095	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26588.0	NM_011809	23872.0	Mm.290207	NM_011809	ENSMUSG00000022895	Ets2	AU022856|Ets-2	E26 avian leukemia oncogene 2, 3' domain	protein-coding	284.5	474.5	338.5	3860.0	708.5	299.0	328.0	278.5
Merged-chr5-122769435-4	chr5	122769303	122769503	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001199676, intron 1 of 16)	ID_B1|SINE|B4	10007.0	NM_001199676	207565.0	Mm.289237	NM_145358	ENSMUSG00000029471	Camkk2	6330570N16Rik|AW061083|mKIAA0787	calcium/calmodulin-dependent protein kinase kinase 2, beta	protein-coding	79.5	139.0	84.0	1110.0	157.5	47.0	59.0	62.0
Merged-chr6-125351083-2	chr6	125350986	125351186	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011609, intron 1 of 9)	intron (NM_011609, intron 1 of 9)	1363.0	NM_011609	21937.0	Mm.1258	NM_011609	ENSMUSG00000030341	Tnfrsf1a	CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R	tumor necrosis factor receptor superfamily, member 1a	protein-coding	6.5	6.5	5.5	5.0	18.0	14.5	8.5	13.0
Merged-chr7-126649503-4	chr7	126649369	126649569	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_029339, exon 1 of 10)	5' UTR (NM_029339, exon 1 of 10)	160.0	NM_029339	75565.0	Mm.45686	NM_029339	ENSMUSG00000030714	Sgf29	1700023O11Rik|9530025I05Rik|Ccdc101	SAGA complex associated factor 29	protein-coding	35.5	48.0	34.5	383.5	78.0	44.0	27.5	38.5
Merged-chr15-91191436-4	chr15	91191344	91191544	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001358967, exon 1 of 10)	exon (NM_001358967, exon 1 of 10)	563.0	NM_011994	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	24.0	36.5	22.0	405.5	54.0	24.5	27.5	23.5
Merged-chr6-38939273-4	chr6	38939166	38939366	+	983.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011539, intron 1 of 12)	intron (NM_011539, intron 1 of 12)	20280.0	NM_011539	21391.0	Mm.4054	NM_011539	ENSMUSG00000029925	Tbxas1	CYP5|CYP5A1|THAS|TS|TXAS|TXS	thromboxane A synthase 1, platelet	protein-coding	19.0	28.5	22.5	599.0	68.0	15.0	17.0	24.0
Merged-chr11-100327912-4	chr11	100327779	100327979	+	939.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6528.0	NM_010257	14459.0	Mm.4767	NM_010257	ENSMUSG00000017165	Gast	GAS	gastrin	protein-coding	13.0	7.0	5.5	110.0	30.5	7.0	10.5	11.0
Merged-chr5-112355673-4	chr5	112355580	112355780	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001039228, exon 1 of 1)	exon (NM_001039228, exon 1 of 1)	353.0	NM_001039228	625424.0	Mm.389677	NM_001039228	ENSMUSG00000051503	Gm6583	EG625424	predicted gene 6583	protein-coding	38.5	20.0	52.0	714.5	80.5	20.5	28.5	42.0
Merged-chr13-59867399-4	chr13	59867277	59867477	+	954.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-44230.0	NM_153538	214290.0	Mm.233082	NM_153538	ENSMUSG00000035248	Zcchc6	6030448M23Rik|AA420405	zinc finger, CCHC domain containing 6	protein-coding	10.0	15.0	12.0	282.0	47.5	13.0	15.5	17.5
Merged-chr7-12922227-4	chr7	12922136	12922336	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009095)	promoter-TSS (NM_009095)	-75.0	NM_009095	20103.0	Mm.5291	NM_009095	ENSMUSG00000012848	Rps5	AA617411	ribosomal protein S5	protein-coding	358.0	488.0	302.0	4611.5	802.0	285.5	388.0	312.0
Merged-chr5-122843991-3	chr5	122843891	122844091	+	741.333313	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30B_MM|LTR|ERV1	-6197.0	NM_030564	80751.0	Mm.388529	NM_030564	ENSMUSG00000029474	Rnf34	AW061037|AW536122|BC004042|C88279|RIFF	ring finger protein 34	protein-coding	2.5	7.0	3.5	26.0	45.0	10.0	13.5	14.0
Merged-chr9-118619130-4	chr9	118619028	118619228	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 1 of 27)	intron (NM_133721, intron 1 of 27)	12419.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	72.0	87.5	127.0	1972.5	103.5	30.5	57.0	50.0
Merged-chr3-126611629-3	chr3	126611483	126611683	+	848.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 2 of 18)	intron (NM_001025438, intron 2 of 18)	14632.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	5.0	3.5	6.5	126.0	7.0	8.5	5.0	9.5
Merged-chr15-102395224-4	chr15	102395139	102395339	+	812.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11077.0	NM_013672	20683.0	Mm.4618	NM_013672	ENSMUSG00000001280	Sp1	1110003E12Rik|AA450830|AI845540|Sp1-1	trans-acting transcription factor 1	protein-coding	8.0	6.0	7.5	111.0	17.5	10.5	8.0	14.5
Merged-chr2-60809618-4	chr2	60809547	60809747	+	905.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	71791.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	23.5	19.5	30.0	410.0	11.0	2.5	7.5	11.5
Merged-chr7-80386683-4	chr7	80386575	80386775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010194, intron 3 of 18)	intron (NM_010194, intron 3 of 18)	1271.0	NM_010194	14159.0	Mm.48757	NM_010194	ENSMUSG00000053158	Fes	AI586313|BB137047|FPS|c-fes	feline sarcoma oncogene	protein-coding	108.5	147.0	99.5	1609.5	222.5	80.5	99.0	126.5
Merged-chr14-57395084-4	chr14	57394991	57395191	+	834.208313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030004, intron 1 of 7)	intron (NM_030004, intron 1 of 7)	3392.0	NM_030004	68631.0	Mm.25539	NM_030004	ENSMUSG00000021947	Cryl1	1110025H08Rik|A230106J09Rik|C85932|gul3dh	crystallin, lambda 1	protein-coding	6.0	12.5	10.0	129.5	23.0	17.0	15.5	11.0
Merged-chr6-17675522-4	chr6	17675371	17675571	+	998.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18523.0	NM_001289626	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	15.0	27.5	19.5	353.0	47.5	15.0	15.0	16.5
Merged-chr5-124476002-4	chr5	124475907	124476107	+	974.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030259, intron 1 of 3)	(TG)n|Simple_repeat|Simple_repeat	2228.0	NM_030259	80291.0	Mm.425280	NM_030259	ENSMUSG00000029401	Rilpl2	-	Rab interacting lysosomal protein-like 2	protein-coding	12.0	17.0	17.0	223.0	49.0	29.5	20.5	5.0
Merged-chr10-30773566-3	chr10	30773446	30773646	+	828.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	29780.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	5.0	8.0	12.0	250.0	7.0	6.0	3.0	8.5
Merged-chr16-57309963-1	chr16	57309863	57310063	+	816.333313	f0_c57.idr	intron (NM_025599, intron 6 of 9)	intron (NM_025599, intron 6 of 9)	-17112.0	NM_027651	71027.0	Mm.158563	NM_027651	ENSMUSG00000022753	Tmem30c	4933401B01Rik|4933409A18Rik|Cdc50c	transmembrane protein 30C	protein-coding	0.0	0.5	1.0	11.0	39.0	13.5	7.0	16.5
Merged-chr4-9629365-3	chr4	9629250	9629450	+	649.450012	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001177856, exon 5 of 5)	3' UTR (NM_001177856, exon 5 of 5)	14367.0	NM_001177853	65973.0	Mm.222206	NM_023066	ENSMUSG00000028207	Asph	2310005F16Rik|3110001L23Rik|AI848629|AW261690|AW561901|BAH|C79816|cI-37	aspartate-beta-hydroxylase	protein-coding	4.0	4.0	5.5	87.0	22.0	5.5	14.0	6.0
Merged-chr13-46727268-4	chr13	46727182	46727382	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175749, intron 1 of 21)	CpG	567.0	NM_175749	218210.0	Mm.255398	NM_175749	ENSMUSG00000021374	Nup153	B130015D15Rik|C88147	nucleoporin 153	protein-coding	39.5	61.0	54.5	412.5	104.0	49.5	57.5	57.5
Merged-chr13-119488457-4	chr13	119488364	119488564	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027974)	promoter-TSS (NR_027974)	-80.0	NR_027974	67304.0	Mm.474382	NM_026084	ENSMUSG00000074635	3110070M22Rik	-	RIKEN cDNA 3110070M22 gene	ncRNA	129.0	175.0	140.0	2579.0	436.5	89.0	234.0	110.5
Merged-chr13-47105193-4	chr13	47105076	47105276	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025900, intron 2 of 10)	intron (NM_025900, intron 2 of 10)	1045.0	NM_025900	110052.0	Mm.131150	NM_025900	ENSMUSG00000021377	Dek	1810019E15Rik|D13H6S231E	DEK oncogene (DNA binding)	protein-coding	60.5	109.0	51.0	488.5	171.5	54.5	41.5	40.5
Merged-chr19-16086756-4	chr19	16086647	16086847	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-46084.0	NM_008139	14682.0	Mm.439701	NM_008139	ENSMUSG00000024639	Gnaq	1110005L02Rik|6230401I02Rik|AA408290|AW060788|Dsk1|Dsk10|Galphaq|Gq|GqI	guanine nucleotide binding protein, alpha q polypeptide	protein-coding	50.5	76.0	34.5	382.5	152.0	47.5	45.5	37.5
Merged-chr17-73107963-4	chr17	73107866	73108066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177968)	promoter-TSS (NM_001177968)	-19.0	NM_001177968	225010.0	Mm.329194	NM_001081071	ENSMUSG00000054469	Lclat1	AI181996|Agpat8|Alcat1|Gm91|Lycat	lysocardiolipin acyltransferase 1	protein-coding	157.5	195.5	134.5	2366.0	437.0	159.0	222.5	130.0
Merged-chr2-117114111-3	chr2	117114032	117114232	+	728.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6939.0	NM_001277256	114715.0	Mm.245890	NM_033524	ENSMUSG00000027351	Spred1	5730461F13Rik|AL024345|AW047647	sprouty protein with EVH-1 domain 1, related sequence	protein-coding	7.5	14.5	8.0	162.0	18.5	6.0	5.0	6.0
Merged-chr4-145241088-4	chr4	145240950	145241150	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011610, intron 1 of 9)	intron (NM_011610, intron 1 of 9)	5820.0	NM_011610	21938.0	Mm.235328	NM_011610	ENSMUSG00000028599	Tnfrsf1b	CD120b|TNF-R-II|TNF-R2|TNF-R75|TNF-alphaR2|TNFBR|TNFR80|TNFRII|TNFalpha-R2|Tnfr-1|Tnfr2|p75	tumor necrosis factor receptor superfamily, member 1b	protein-coding	74.0	146.5	123.5	1156.0	246.0	110.0	132.5	120.5
Merged-chr17-8164929-4	chr17	8164846	8165046	+	891.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001197046)	promoter-TSS (NM_001197046)	-572.0	NM_001197046	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	14.0	74.0	17.5	127.5	39.0	19.5	16.0	10.0
Merged-chr10-84146293-3	chr10	84146209	84146409	+	636.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B1|LTR|ERVL-MaLR	-45612.0	NR_152790	102637349.0	Mm.402869	NR_152790	ENSMUSG00000111049	Gm34184	-	predicted gene, 34184	ncRNA	6.0	7.0	7.5	153.5	9.5	4.0	1.0	3.0
Merged-chr11-55453825-4	chr11	55453749	55453949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009720, intron 2 of 3)	intron (NM_009720, intron 2 of 3)	7359.0	NM_009720	11927.0	Mm.217759	NM_009720	ENSMUSG00000018585	Atox1	AI256639|Atx1	antioxidant 1 copper chaperone	protein-coding	91.5	145.0	76.5	822.0	238.0	91.0	82.5	53.5
Merged-chr15-73134759-3	chr15	73134652	73134852	+	563.555542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153178, intron 3 of 18)	MTD|LTR|ERVL-MaLR	44340.0	NM_053068	93696.0	Mm.23095	NM_053068	ENSMUSG00000068391	Chrac1	2410152E03Rik|2810406L04Rik|YCL1	chromatin accessibility complex 1	protein-coding	4.0	5.5	3.5	143.0	17.0	11.0	9.5	7.0
Merged-chr13-67772495-3	chr13	67772393	67772593	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7200.0	NM_028402	72958.0	Mm.53849	NM_028402	ENSMUSG00000090659	Zfp493	2900054J07Rik|Rslcan12	zinc finger protein 493	protein-coding	0.0	0.0	0.0	16.5	157.0	49.5	77.0	81.0
Merged-chr16-90213567-2	chr16	90213467	90213667	+	638.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7175.0	NM_011434	20655.0	Mm.276325	NM_011434	ENSMUSG00000022982	Sod1	B430204E11Rik|Cu/Zn-SOD|CuZnSOD|Ipo-1|Ipo1|SODC|Sod-1	superoxide dismutase 1, soluble	protein-coding	4.5	1.0	2.0	54.5	13.0	6.0	8.5	4.5
Merged-chr11-70475350-4	chr11	70475254	70475454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4|SINE|B4	-15370.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	43.0	76.0	44.0	527.0	104.5	53.0	44.0	47.5
Merged-chr13-9760219-4	chr13	9760125	9760325	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347474, intron 1 of 14)	intron (NM_001347474, intron 1 of 14)	3585.0	NM_001347471	66505.0	Mm.397307	NM_144516	ENSMUSG00000021156	Zmynd11	2210402G22Rik|BS69	zinc finger, MYND domain containing 11	protein-coding	134.0	192.0	219.5	4018.5	412.5	166.5	206.0	204.0
Merged-chr15-73442586-4	chr15	73442494	73442694	+	996.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19403.0	NM_001358045	14083.0	Mm.254494	NM_007982	ENSMUSG00000022607	Ptk2	FADK 1|FAK|FRNK|Fadk|p125FAK	PTK2 protein tyrosine kinase 2	protein-coding	36.5	37.0	30.5	723.0	81.0	18.0	31.0	28.5
Merged-chr3-121818990-2	chr3	121818890	121819090	+	945.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A4|LTR|ERVL-MaLR	-3688.0	NM_008991	19299.0	Mm.399042	NM_008991	ENSMUSG00000028127	Abcd3	AI313901|AU018866|AW146054|PMP68|PMP70|Pxmp1	ATP-binding cassette, sub-family D (ALD), member 3	protein-coding	6.5	6.0	7.0	76.0	7.0	8.5	6.0	6.0
Merged-chr18-3004660-3	chr18	3004567	3004767	+	908.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	118745.0	NM_001167539	100312476.0	Mm.480293	NM_001167539	ENSMUSG00000091539	Vmn1r238	-	vomeronasal 1 receptor, 238	protein-coding	10.0	16.5	34.5	172.5	9.0	3.0	2.0	8.5
Merged-chr14-58319394-1	chr14	58319294	58319494	+	764.0	f0_balb.idr	Intergenic	RSINE1|SINE|B4	246708.0	NM_013518	14180.0	Mm.8846	NM_013518	ENSMUSG00000021974	Fgf9	Eks	fibroblast growth factor 9	protein-coding	9.5	5.5	7.5	125.0	17.5	5.0	3.0	1.0
Merged-chr10-43689290-3	chr10	43689199	43689399	+	766.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-56859.0	NR_040581	69443.0	Mm.484042	NR_040581	ENSMUSG00000111422	1700027J07Rik	-	RIKEN cDNA 1700027J07 gene	ncRNA	8.0	13.5	4.0	141.5	10.0	8.5	7.0	12.0
Merged-chr19-6858242-4	chr19	6858153	6858353	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081291)	promoter-TSS (NM_001081291)	-42.0	NM_001081291	78317.0	Mm.329596	NM_198008	ENSMUSG00000047810	Ccdc88b	2610041P08Rik|Ccdc88	coiled-coil domain containing 88B	protein-coding	39.5	110.5	33.5	390.0	133.0	41.0	53.0	46.0
Merged-chr6-142345738-6	chr6	142345628	142345828	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183165)	promoter-TSS (NM_183165)	31.0	NM_183165	232491.0	Mm.490474	NM_183165	ENSMUSG00000041671	Pyroxd1	-	pyridine nucleotide-disulphide oxidoreductase domain 1	protein-coding	64.5	98.5	119.5	954.5	172.5	75.5	68.5	74.5
Merged-chr5-123865616-4	chr5	123865505	123865705	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030701)	promoter-TSS (NM_030701)	-89.0	NM_030701	80885.0	Mm.440567	NM_030701	ENSMUSG00000045502	Hcar2	Gpr109a|Gpr109b|HM74|Niacr1|PUMA-G|Pumag|mHM74b	hydroxycarboxylic acid receptor 2	protein-coding	45.0	150.5	76.0	516.0	191.0	74.5	45.5	31.5
Merged-chr15-67116871-4	chr15	67116739	67116939	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009177, intron 3 of 8)	intron (NM_009177, intron 3 of 8)	60043.0	NM_009177	20442.0	Mm.248334	NM_009177	ENSMUSG00000013846	St3gal1	5330418N22Rik|AI467004|ST3GalI|Siat4|Siat4a|St3gal-1	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	protein-coding	161.0	315.5	190.5	2010.5	309.5	137.0	160.0	92.0
Merged-chr4-119539567-4	chr4	119539469	119539669	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172699)	promoter-TSS (NM_172699)	-92.0	NM_001290696	230700.0	Mm.259227	NM_172699	ENSMUSG00000032998	Foxj3	C330039G02Rik|Fhd6	forkhead box J3	protein-coding	69.0	133.5	80.5	1026.0	287.5	109.0	112.0	116.5
Merged-chr11-117320143-4	chr11	117320050	117320250	+	951.3958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113486, intron 3 of 11)	intron (NM_001113486, intron 3 of 11)	-11565.0	NM_017380	53860.0	Mm.38450	NM_017380	ENSMUSG00000059248	Sept9	MSF1|Msf|PNUTL4|Sint1	septin 9	protein-coding	39.5	16.5	13.5	520.5	52.0	9.5	26.5	28.0
Merged-chr9-120577322-4	chr9	120577238	120577438	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_073359)	promoter-TSS (NR_073359)	7.0	NR_073359	76100.0	Mm.48212	NR_073359	ENSMUSG00000052658	5830454E08Rik	-	RIKEN cDNA 5830454E08 gene	ncRNA	74.0	115.0	69.5	1188.0	265.5	111.0	122.5	82.5
Merged-chr3-96058466-3	chr3	96058354	96058554	+	581.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013841)	promoter-TSS (NM_013841)	1.0	NM_013841	22365.0	Mm.263185	NM_013841	ENSMUSG00000015747	Vps45	AI462172|AW554165|mVps45	vacuolar protein sorting 45	protein-coding	13.5	9.0	7.5	89.5	6.5	1.5	2.0	4.0
Merged-chr4-41275048-1	chr4	41274948	41275148	+	1000.0	f0_balb.idr	promoter-TSS (NM_026872)	promoter-TSS (NM_026872)	87.0	NM_026872	68926.0	Mm.41864	NM_026872	ENSMUSG00000028433	Ubap2	1190005K07Rik|AA408600|AU045235|UBAP-2|mKIAA1491	ubiquitin-associated protein 2	protein-coding	28.5	46.5	29.5	259.0	52.0	17.5	14.5	24.0
Merged-chr2-158144478-4	chr2	158144380	158144580	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009373, intron 1 of 12)	intron (NM_009373, intron 1 of 12)	1912.0	NM_009373	21817.0	Mm.330731	NM_009373	ENSMUSG00000037820	Tgm2	G[a]h|TG2|TGase2|tTG|tTGas	transglutaminase 2, C polypeptide	protein-coding	75.5	136.0	86.5	1755.0	213.5	68.5	137.5	77.0
Merged-chr9-62970514-4	chr9	62970411	62970611	+	979.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019663, intron 1 of 13)	intron (NM_019663, intron 1 of 13)	10368.0	NM_019663	56469.0	Mm.431253	NM_019663	ENSMUSG00000032405	Pias1	2900068C24Rik|Ddxbp1|GBP	protein inhibitor of activated STAT 1	protein-coding	38.0	65.5	14.5	380.5	92.5	40.0	32.0	14.0
Merged-chr17-26439017-3	chr17	26438941	26439141	+	854.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081656, exon 3 of 5)	exon (NM_001081656, exon 3 of 5)	24076.0	NM_001081656	240055.0	Mm.133211	NM_001081656	ENSMUSG00000034413	Neurl1b	C230078M08Rik|EG240055	neuralized E3 ubiquitin protein ligase 1B	protein-coding	4.5	8.5	7.0	68.5	14.5	6.5	4.5	10.0
Merged-chr18-24020420-4	chr18	24020330	24020530	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357447)	promoter-TSS (NM_001357447)	-60.0	NM_001357447	59057.0	Mm.417427	NM_021559	ENSMUSG00000051469	Zfp24	3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf24	zinc finger protein 24	protein-coding	105.0	181.0	123.5	1833.0	306.0	117.5	193.0	109.0
Merged-chr8-94917613-4	chr8	94917498	94917698	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033533, intron 1 of 8)	CpG	500.0	NM_001033533	234582.0	Mm.277871	NM_001033533	ENSMUSG00000063605	Ccdc102a	BC027663|Gm586	coiled-coil domain containing 102A	protein-coding	111.0	111.0	98.5	1631.0	250.5	93.5	144.5	107.0
Merged-chr7-3275998-4	chr7	3275876	3276076	+	976.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13062.0	NM_001093764	50918.0	Mm.29874	NM_016969	ENSMUSG00000068566	Myadm	D7Wsu62e	myeloid-associated differentiation marker	protein-coding	17.0	23.0	7.5	379.0	55.5	23.0	36.0	23.5
Merged-chr2-118779697-4	chr2	118779612	118779812	+	911.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_170593)	promoter-TSS (NM_170593)	-7.0	NM_170593	214240.0	Mm.221499	NM_170593	ENSMUSG00000040035	Disp2	AI840597|B230210L08Rik|DispB|mKIAA1742	dispatched RND tramsporter family member 2	protein-coding	14.0	21.5	12.5	191.5	27.0	11.0	15.0	16.5
Merged-chr3-69126052-4	chr3	69125932	69126132	+	987.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008467, intron 1 of 16)	intron (NM_008467, intron 1 of 16)	1060.0	NM_008467	16649.0	Mm.30601	NM_008467	ENSMUSG00000027782	Kpna4	1110058D08Rik|IPOA3	karyopherin (importin) alpha 4	protein-coding	12.0	31.0	40.5	280.5	50.5	21.5	24.0	27.0
Merged-chr6-54934066-4	chr6	54933972	54934172	+	987.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001171007, intron 8 of 11)	intron (NM_001171007, intron 8 of 11)	37589.0	NM_001171007	107607.0	Mm.28498	NM_172729	ENSMUSG00000038058	Nod1	C230079P11|Card4|F830007N14Rik|Nlrc1	nucleotide-binding oligomerization domain containing 1	protein-coding	28.0	29.5	25.0	486.5	85.5	30.0	51.5	17.5
Merged-chr5-23132455-3	chr5	23132355	23132555	+	854.805542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029990, intron 2 of 2)	RLTR11B|LTR|ERVK	301898.0	NR_040469	269630.0	Mm.425231	NR_040469	ENSMUSG00000073147	5031425E22Rik	-	RIKEN cDNA 5031425E22 gene	ncRNA	21.5	20.0	7.5	219.5	8.5	15.0	12.0	8.5
Merged-chr9-83957079-4	chr9	83956998	83957198	+	922.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_199195, intron 3 of 10)	intron (NM_199195, intron 3 of 10)	8317.0	NM_199195	12040.0	Mm.12819	NM_199195	ENSMUSG00000032263	Bckdhb	BCKDE1B|BCKDH E1-beta	branched chain ketoacid dehydrogenase E1, beta polypeptide	protein-coding	9.5	23.0	14.0	216.5	44.5	10.0	30.0	12.0
Merged-chr3-51732627-2	chr3	51732527	51732727	+	901.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001004176, intron 2 of 4)	intron (NM_001004176, intron 2 of 4)	71448.0	NM_001310482	211666.0	Mm.24679	NM_174995	ENSMUSG00000074604	Mgst2	GST2|MGST-II	microsomal glutathione S-transferase 2	protein-coding	12.0	7.5	6.0	53.5	9.5	3.0	0.0	0.0
Merged-chr19-47168368-4	chr19	47168254	47168454	+	841.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10466.0	NM_021360	18011.0	Mm.313651	NM_021360	ENSMUSG00000006435	Neurl1a	2410129E16Rik|AI450910|AI481072|Neu1|Neur1|Neurl|Neurl1|Nlz|Rnf67	neuralized E3 ubiquitin protein ligase 1A	protein-coding	6.5	20.5	6.5	103.5	32.5	12.0	11.5	14.0
Merged-chr15-66930521-4	chr15	66930416	66930616	+	742.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008681, exon 16 of 16)	3' UTR (NM_008681, exon 16 of 16)	39123.0	NM_018865	22402.0	Mm.10222	NM_018865	ENSMUSG00000005124	Wisp1	AW146261|CCN4|Elm1	WNT1 inducible signaling pathway protein 1	protein-coding	4.5	7.0	7.5	201.0	23.5	5.0	14.5	5.5
Merged-chr18-63653513-3	chr18	63653406	63653606	+	856.055542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38853.0	NM_016792	53382.0	Mm.19169	NM_016792	ENSMUSG00000024583	Txnl1	32kDa|TRP32|Txnl	thioredoxin-like 1	protein-coding	10.0	11.5	3.5	115.5	22.0	10.0	6.5	8.5
Merged-chr4-88738676-1	chr4	88738576	88738776	+	562.0	f0_balb.idr	Intergenic	B3|SINE|B2	-16168.0	NM_172871	242521.0	Mm.260601	NM_172871	ENSMUSG00000070923	Klhl9	8030469P05|C530050O22Rik|mKIAA1354	kelch-like 9	protein-coding	4.0	10.0	6.5	84.0	28.5	7.5	11.0	5.5
Merged-chr15-6569939-4	chr15	6569827	6570027	+	877.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9920.0	NM_001278269	23880.0	Mm.170905	NM_011815	ENSMUSG00000022148	Fyb	ADAP|B630013F22Rik|FYB-120/130|Fyb1|Slap130|p120/130|p120/p130	FYN binding protein	protein-coding	5.0	19.0	10.0	120.5	28.0	11.5	7.0	7.0
Merged-chr1-106882923-4	chr1	106882838	106883038	+	814.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001360853, exon 8 of 8)	3' UTR (NM_001360853, exon 8 of 8)	21763.0	NM_009257	20724.0	Mm.268618	NM_009257	ENSMUSG00000067006	Serpinb5	1110036M19Rik|AI462524|AI646751|Maspin|PI-5|Spi7|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 5	protein-coding	10.0	9.0	8.5	285.5	20.5	7.0	17.0	9.0
Merged-chr4-155892789-3	chr4	155892660	155892860	+	832.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033490)	promoter-TSS (NM_001033490)	885.0	NM_207223	140500.0	Mm.219591	NM_207223	ENSMUSG00000029033	Acap3	Centb5|Kiaa1716-hp|mKIAA1716	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	protein-coding	8.5	7.5	6.0	89.5	20.0	6.5	11.5	5.5
Merged-chr18-14783924-4	chr18	14783818	14784018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001100449, exon 1 of 15)	exon (NM_001100449, exon 1 of 15)	673.0	NM_001100449	72504.0	Mm.312233	NM_001100449	ENSMUSG00000054321	Taf4b	105kDa|2610524B04Rik|4932409F03Rik|AW987595|TAFII-105|TAFII105|Taf2c2	TATA-box binding protein associated factor 4b	protein-coding	23.5	31.0	46.0	527.0	56.5	21.0	37.5	34.0
Merged-chr5-67264282-4	chr5	67264198	67264398	+	812.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028975, exon 4 of 8)	exon (NM_028975, exon 4 of 8)	3733.0	NM_030108	67878.0	Mm.23217	NM_028975	ENSMUSG00000037720	Tmem33	1110006G02Rik|1600019D15Rik|2410089A21Rik|2700052H22Rik|5430406L04Rik|AA388285|AI314185|AI426615|db83	transmembrane protein 33	protein-coding	7.5	19.5	5.0	254.5	15.0	9.5	6.5	20.0
Merged-chr11-21569332-7	chr11	21569251	21569451	+	967.095215	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001316675, intron 1 of 8)	intron (NM_001316675, intron 1 of 8)	2583.0	NM_008618	17449.0	Mm.212703	NM_008618	ENSMUSG00000020321	Mdh1	B230377B03Rik|D17921|MDH-s|MDHA|Mor-2|Mor2	malate dehydrogenase 1, NAD (soluble)	protein-coding	20.5	22.0	13.5	173.5	34.0	9.5	18.0	36.5
Merged-chr8-122259447-2	chr8	122259358	122259558	+	733.916626	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22683.0	NM_009569	22761.0	Mm.3105	NM_009569	ENSMUSG00000049577	Zfpm1	FOG|Fog1	zinc finger protein, multitype 1	protein-coding	4.5	7.0	4.5	27.0	16.0	3.0	4.0	10.5
Merged-chr5-75981092-3	chr5	75980996	75981196	+	988.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2668.0	NM_010612	16542.0	Mm.285	NM_010612	ENSMUSG00000062960	Kdr	6130401C07|Flk-1|Flk1|Krd-1|Ly73|VEGFR-2|VEGFR2|orv|sVEGFR-2	kinase insert domain protein receptor	protein-coding	18.0	19.5	28.5	253.0	5.5	1.0	4.0	1.5
Merged-chr1-156860021-2	chr1	156859917	156860117	+	904.875	f0_balb.idr|f1_balb.idr	intron (NM_028333, intron 4 of 4)	intron (NM_028333, intron 4 of 4)	20994.0	NM_028333	72713.0	Mm.389206	NM_028333	ENSMUSG00000033544	Angptl1	2810039D03Rik|ANG3|ANGPT3|ANGY|ARP1	angiopoietin-like 1	protein-coding	11.0	17.0	9.0	212.5	10.0	9.0	6.5	10.5
Merged-chr11-47075278-3	chr11	47075129	47075329	+	911.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 6 of 7)	intron (NM_011891, intron 6 of 7)	264430.0	NM_178759	276891.0	Mm.69002	NM_178759	ENSMUSG00000055546	Timd4	B430010N18Rik|TIM-4|Tim4	T cell immunoglobulin and mucin domain containing 4	protein-coding	5.0	6.5	8.0	98.0	19.0	2.5	10.5	4.5
Merged-chr13-41460086-4	chr13	41459976	41460176	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001111324, intron 1 of 7)	intron (NM_001111324, intron 1 of 7)	27284.0	NM_001111324	18003.0	Mm.288980	NM_017464	ENSMUSG00000021365	Nedd9	Cas-L|CasL|HEF1|MEF1|Nedd-9|p105	neural precursor cell expressed, developmentally down-regulated gene 9	protein-coding	37.0	61.0	53.5	584.5	71.5	37.5	30.5	37.0
Merged-chr3-53463244-4	chr3	53463151	53463351	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172501)	promoter-TSS (NM_172501)	7.0	NM_172501	212114.0	Mm.85744	NM_172501	ENSMUSG00000042997	Nhlrc3	4833441N19|8030451K01Rik|mKIAA4083	NHL repeat containing 3	protein-coding	58.5	97.5	70.5	704.5	174.0	65.0	90.0	64.0
Merged-chr4-48100428-4	chr4	48100312	48100512	+	941.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24507.0	NM_026343	67727.0	Mm.171334	NM_026343	ENSMUSG00000061455	Stx17	4833418L03Rik|6330411F21Rik|9030425C21Rik|AW048351	syntaxin 17	protein-coding	25.0	25.5	16.0	244.5	29.5	13.5	27.0	16.0
Merged-chr3-116860552-4	chr3	116860452	116860652	+	875.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001113478, intron 1 of 16)	intron (NM_001113478, intron 1 of 16)	985.0	NM_001113478	20321.0	Mm.66293	NM_009146	ENSMUSG00000033386	Frrs1	AI131732|Sdfr2	ferric-chelate reductase 1	protein-coding	6.0	10.5	11.5	144.5	62.0	12.0	11.0	14.5
Merged-chr13-42051299-2	chr13	42051194	42051394	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_007772)	promoter-TSS (NM_007772)	-727.0	NM_007772	110521.0	Mm.4808	NM_007772	ENSMUSG00000021366	Hivep1	Cryabp1	human immunodeficiency virus type I enhancer binding protein 1	protein-coding	62.0	176.5	73.5	855.5	288.5	108.5	113.0	76.5
Merged-chr6-24965047-4	chr6	24964913	24965113	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CTG)n|Simple_repeat|Simple_repeat	-8888.0	NM_177013	319832.0	Mm.127446	NM_177013	ENSMUSG00000048022	Tmem229a	6332401O19Rik	transmembrane protein 229A	protein-coding	24.0	30.0	45.0	334.0	55.0	21.0	23.5	25.0
Merged-chr11-110987274-4	chr11	110987178	110987378	+	716.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252207, intron 2 of 2)	intron (NM_001252207, intron 2 of 2)	-10209.0	NM_001252209	16517.0	Mm.30176	NM_010604	ENSMUSG00000051497	Kcnj16	6430410F18Rik|AI132396|Kir5.1	potassium inwardly-rectifying channel, subfamily J, member 16	protein-coding	20.0	17.0	12.0	303.5	36.0	13.5	10.0	5.5
Merged-chr4-135054610-1	chr4	135054510	135054710	+	576.0	f0_balb.idr	Intergenic	Intergenic	-66035.0	NM_019732	12399.0	Mm.378894	NM_019732	ENSMUSG00000070691	Runx3	AML2|Cbfa3|Pebp2a3	runt related transcription factor 3	protein-coding	5.0	2.0	8.0	92.5	11.5	8.5	4.5	4.5
Merged-chr6-49269401-4	chr6	49269300	49269500	+	902.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5348.0	NM_001362188	101214.0	Mm.196598	NM_198102	ENSMUSG00000029817	Tra2a	1500010G04Rik|AL022798|G430041M01Rik|mAWMS1	transformer 2 alpha	protein-coding	23.0	22.5	12.0	207.5	26.0	8.0	13.0	14.0
Merged-chr5-27794099-2	chr5	27793986	27794186	+	885.833374	f0_c57.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2536.0	NM_018878	55982.0	Mm.277190	NM_018878	ENSMUSG00000002221	Paxip1	D5Ertd149e|PTIP	PAX interacting (with transcription-activation domain) protein 1	protein-coding	1.0	4.5	6.0	23.5	43.5	14.5	19.5	28.0
Merged-chr1-152809103-4	chr1	152809021	152809221	+	966.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010877, intron 2 of 15)	RSINE1|SINE|B4	8968.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	23.0	39.0	14.0	408.5	71.0	29.0	39.0	43.5
Merged-chr19-32292139-3	chr19	32292014	32292214	+	857.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 2 of 9)	intron (NM_144792, intron 2 of 9)	57202.0	NM_001168525	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	10.0	10.5	8.0	122.0	9.5	6.5	6.5	8.0
Merged-chr15-53399827-4	chr15	53399739	53399939	+	977.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-53656.0	NM_010162	14042.0	Mm.309395	NM_010162	ENSMUSG00000061731	Ext1	AA409028	exostoses (multiple) 1	protein-coding	14.5	34.5	14.5	424.5	62.0	23.0	15.5	29.5
Merged-chr19-46395770-4	chr19	46395685	46395885	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_016860)	promoter-TSS (NM_016860)	-50.0	NM_016860	54130.0	Mm.3118	NM_016860	ENSMUSG00000025228	Actr1a	Arp1|alpha-Arp1	ARP1 actin-related protein 1A, centractin alpha	protein-coding	22.5	48.5	23.5	408.5	75.5	29.5	44.0	34.0
Merged-chr2-141033651-4	chr2	141033555	141033755	+	909.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 5 of 18)	MLT1C|LTR|ERVL-MaLR	-362179.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	6.0	34.5	12.5	72.0	66.0	16.0	12.5	11.0
Merged-chr10-127590480-5	chr10	127590412	127590612	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008512, intron 12 of 88)	intron (NM_008512, intron 12 of 88)	30636.0	NM_008512	16971.0	Mm.271854	NM_008512	ENSMUSG00000040249	Lrp1	A2mr|AI316852|CD91|Lrp|b2b1554Clo	low density lipoprotein receptor-related protein 1	protein-coding	30.5	30.0	43.0	523.5	64.0	24.5	27.0	29.5
Merged-chr5-5334142-4	chr5	5334046	5334246	+	982.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011074, intron 2 of 14)	ORR1D2|LTR|ERVL-MaLR	46105.0	NM_011074	18647.0	Mm.389061	NM_011074	ENSMUSG00000028926	Cdk14	Pftk1|mKIAA0834	cyclin-dependent kinase 14	protein-coding	16.0	19.0	15.0	178.5	46.0	18.0	25.5	31.5
Merged-chr2-29817795-3	chr2	29817695	29817895	+	856.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011989)	TTS (NM_011989)	-9594.0	NM_026615	68205.0	Mm.20273	NM_026615	ENSMUSG00000069020	Urm1	2900073H19Rik	ubiquitin related modifier 1	protein-coding	6.5	11.0	4.5	65.5	17.5	5.0	3.0	9.0
Merged-chr9-14860150-4	chr9	14860094	14860294	+	747.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310734)	promoter-TSS (NM_001310734)	-16.0	NM_001310734	14608.0	Mm.4672	NM_010287	ENSMUSG00000031932	Gpr83	AW045253|Gir|Gpr72|RP105|RP39|RP82	G protein-coupled receptor 83	protein-coding	5.0	8.5	7.0	79.0	13.0	13.5	8.5	11.0
Merged-chr11-117483122-4	chr11	117483030	117483230	+	986.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1238.0	NR_130966	432615.0	Mm.126359	NR_130966	ENSMUSG00000069588	Gm11733	-	predicted gene 11733	ncRNA	22.5	36.5	19.0	246.5	31.0	14.0	8.5	19.0
Merged-chr12-80760667-4	chr12	80760558	80760758	+	789.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001008423)	promoter-TSS (NM_001008423)	57.0	NM_001008423	380768.0	Mm.29367	NM_001008423	ENSMUSG00000062961	Ccdc177	Gm1568	coiled-coil domain containing 177	protein-coding	8.5	13.0	11.5	118.0	24.5	12.5	7.5	5.0
Merged-chr7-89415943-3	chr7	89415859	89416059	+	888.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10347.0	NR_102276	101521.0	Mm.26902	NR_102276	ENSMUSG00000109311	AI314278	-	expressed sequence AI314278	ncRNA	9.0	15.5	12.0	266.0	2.5	3.5	5.5	1.5
Merged-chr2-30133739-4	chr2	30133629	30133829	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146252)	promoter-TSS (NM_146252)	-17.0	NM_146252	70296.0	Mm.19172	NM_146252	ENSMUSG00000039678	Tbc1d13	2600014A06Rik|BC025586	TBC1 domain family, member 13	protein-coding	184.5	223.5	109.0	1748.5	372.5	166.0	157.5	146.0
Merged-chr15-85832282-4	chr15	85832178	85832378	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033337)	promoter-TSS (NM_001033337)	-26.0	NM_001033337	239570.0	Mm.151748	NM_001033337	ENSMUSG00000035944	Ttc38	9030019H09	tetratricopeptide repeat domain 38	protein-coding	51.0	46.0	49.5	586.5	86.0	33.0	58.0	48.0
Merged-chr10-84286315-4	chr10	84286201	84286401	+	972.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	154170.0	NM_001004363	77976.0	Mm.25874	NM_001004363	ENSMUSG00000020032	Nuak1	AU014801|AW494241|B230104P22Rik|Omphk1	NUAK family, SNF1-like kinase, 1	protein-coding	14.5	7.0	17.0	364.0	41.0	1.5	15.0	23.5
Merged-chr3-10307794-4	chr3	10307688	10307888	+	922.224976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6605.0	NM_029310	75497.0	Mm.47052	NM_029310	ENSMUSG00000027530	Fabp12	1700008G05Rik	fatty acid binding protein 12	protein-coding	21.0	15.0	18.0	235.0	39.5	12.5	15.0	24.0
Merged-chr3-27677717-4	chr3	27677611	27677811	+	973.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_173182, intron 1 of 25)	intron (NM_173182, intron 1 of 25)	32741.0	NM_001356953	72007.0	Mm.38832	NM_173182	ENSMUSG00000039286	Fndc3b	1600019O04Rik|AW550168|Fad104|mKIAA4164	fibronectin type III domain containing 3B	protein-coding	20.0	18.5	36.0	493.0	40.0	14.0	14.5	20.5
Merged-chr10-128792193-1	chr10	128792093	128792293	+	565.0	f0_c57.idr	intron (NM_021412, intron 2 of 8)	B2_Mm2|SINE|B2	1238.0	NM_021412	58223.0	Mm.131266	NM_021412	ENSMUSG00000025355	Mmp19	-	matrix metallopeptidase 19	protein-coding	12.0	5.0	6.5	50.0	19.5	11.0	9.0	3.5
Merged-chr7-35156654-4	chr7	35156532	35156732	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29753.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	33.0	46.5	26.5	661.5	91.5	28.5	56.0	32.5
Merged-chr17-79661592-4	chr17	79661547	79661747	+	815.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201361, intron 5 of 10)	intron (NM_201361, intron 5 of 10)	46747.0	NM_201361	381110.0	Mm.209801	NM_201361	ENSMUSG00000036368	Rmdn2	AW061290|Fam82a1|RMD-2|mRMD-2	regulator of microtubule dynamics 2	protein-coding	10.5	8.5	9.5	175.0	19.0	9.5	23.5	9.5
Merged-chr16-38377000-4	chr16	38376901	38377101	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081984, intron 3 of 3)	MTC|LTR|ERVL-MaLR	14811.0	NM_022318	64082.0	Mm.390856	NM_022318	ENSMUSG00000022803	Popdc2	AV006127|Pop2	popeye domain containing 2	protein-coding	41.5	77.5	84.0	895.5	143.0	38.5	79.5	41.0
Merged-chr9-21221136-2	chr9	21221036	21221236	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18196.0	NM_016679	50868.0	Mm.248266	NM_016679	ENSMUSG00000003308	Keap1	INRF2|mKIAA0132	kelch-like ECH-associated protein 1	protein-coding	12.0	15.5	15.0	211.5	45.5	9.5	11.0	13.0
Merged-chr7-141539886-4	chr7	141539778	141539978	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142681)	promoter-TSS (NM_001142681)	-21.0	NM_001142681	68038.0	Mm.245355	NM_026522	ENSMUSG00000025512	Chid1	3110023E09Rik|AI841869	chitinase domain containing 1	protein-coding	122.0	175.5	83.5	1741.0	276.5	74.0	123.5	150.0
Merged-chr18-62250299-4	chr18	62250154	62250354	+	752.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	70154.0	NM_001013754	225609.0	Mm.296917	NM_001013754	ENSMUSG00000054589	Gm9949	EG225609	predicted gene 9949	protein-coding	13.0	22.5	12.0	191.0	31.5	9.0	18.0	11.5
Merged-chr6-54715904-2	chr6	54715807	54716007	+	762.5	f0_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34283.0	NM_001289740	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	12.5	3.0	5.0	72.5	17.0	6.0	16.5	4.5
Merged-chr2-144369586-3	chr2	144369447	144369647	+	835.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166640, intron 1 of 10)	intron (NM_001166640, intron 1 of 10)	512.0	NM_181417	228714.0	Mm.227925	NM_181417	ENSMUSG00000027425	Kat14	2510008M08Rik|ATAC2|AU023459|Csrp2bp|D2Ertd473e|D2Wsu131e|E430020F17	lysine acetyltransferase 14	protein-coding	7.0	5.0	14.0	168.5	12.5	7.5	5.5	7.0
Merged-chr12-111670088-2	chr12	111669988	111670188	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021273, intron 6 of 7)	intron (NM_021273, intron 6 of 7)	2250.0	NM_021273	12709.0	Mm.16831	NM_021273	ENSMUSG00000001270	Ckb	B-CK|Bck|CPK-B|Ck-3|Ck3|Ckbb	creatine kinase, brain	protein-coding	7.0	7.0	2.0	35.0	16.0	6.0	11.0	9.5
Merged-chr14-60765327-3	chr14	60765246	60765446	+	742.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001310594)	TTS (NM_001310594)	-2788.0	NM_183175	239126.0	Mm.319636	NM_183175	ENSMUSG00000071347	C1qtnf9	9130217G22Rik|CTRP9|Ciqtnf9	C1q and tumor necrosis factor related protein 9	protein-coding	6.5	17.0	2.0	84.0	9.0	7.0	4.5	5.0
Merged-chr5-90694656-4	chr5	90694564	90694764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-54137.0	NM_001310656	73246.0	Mm.30172	NM_028478	ENSMUSG00000029370	Rassf6	1600016B17Rik	Ras association (RalGDS/AF-6) domain family member 6	protein-coding	123.5	101.0	162.5	2152.0	189.5	62.0	79.5	88.0
Merged-chr16-78237946-4	chr16	78237848	78238048	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	17506.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	24.0	42.5	38.5	571.0	94.5	30.0	41.5	44.5
Merged-chr14-31665047-3	chr14	31664952	31665152	+	741.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025295, intron 2 of 3)	intron (NM_025295, intron 2 of 3)	23995.0	NM_025295	26363.0	Mm.282679	NM_025295	ENSMUSG00000021900	Btd	-	biotinidase	protein-coding	4.0	17.5	8.5	37.5	20.5	7.0	6.5	7.0
Merged-chr4-16160195-3	chr4	16160101	16160301	+	922.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_138102, intron 1 of 11)	intron (NR_138102, intron 1 of 11)	3442.0	NM_138952	192656.0	Mm.112765	NM_138952	ENSMUSG00000041135	Ripk2	2210420D18Rik|CARD3|CARDIAK|CCK|D4Bwg0615e|RICK|RIP2	receptor (TNFRSF)-interacting serine-threonine kinase 2	protein-coding	16.0	7.5	21.5	293.5	36.5	13.5	13.5	9.5
Merged-chr18-67390705-4	chr18	67390615	67390815	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026473)	promoter-TSS (NM_026473)	-16.0	NM_026473	67951.0	Mm.181860	NM_026473	ENSMUSG00000001473	Tubb6	2310057H16Rik|BB220206	tubulin, beta 6 class V	protein-coding	99.0	198.5	105.0	1575.0	216.5	89.5	134.0	128.5
Merged-chr17-65763721-3	chr17	65763618	65763818	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133685, intron 1 of 6)	B2_Mm1a|SINE|B2	9034.0	NM_133685	106572.0	Mm.29274	NM_133685	ENSMUSG00000056515	Rab31	1700093E07Rik|AI415285|Rab22B	RAB31, member RAS oncogene family	protein-coding	0.0	0.0	0.5	8.5	123.0	30.5	69.0	46.5
Merged-chr1-194989208-4	chr1	194989097	194989297	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12238.0	NR_033564	320400.0	Mm.417608	NR_033564	ENSMUSG00000097325	Gm16897	C030002c11rik	predicted gene, 16897	ncRNA	35.0	28.0	52.0	858.5	41.0	18.5	34.0	35.5
Merged-chr18-10533149-4	chr18	10533081	10533281	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083628, intron 19 of 32)	intron (NM_001083628, intron 19 of 32)	77171.0	NM_001081222	77805.0	Mm.210996	NM_144542	ENSMUSG00000024293	Esco1	A930014I12Rik	establishment of sister chromatid cohesion N-acetyltransferase 1	protein-coding	63.5	107.0	89.5	1508.0	244.5	55.5	99.0	78.0
Merged-chr12-76583046-3	chr12	76582971	76583171	+	910.533325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_013675, exon 36 of 36)	3' UTR (NM_013675, exon 36 of 36)	-35146.0	NR_046044	100504549.0	Mm.440349	NR_046044	ENSMUSG00000112388	AI463170	-	expressed sequence AI463170	ncRNA	13.0	15.5	8.0	124.0	9.5	1.5	5.5	1.5
Merged-chr7-79696733-4	chr7	79696650	79696850	+	993.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_029835, exon 22 of 22)	exon (NM_029835, exon 22 of 22)	17436.0	NM_010626	16576.0	Mm.101633	NM_010626	ENSMUSG00000050382	Kif7	-	kinesin family member 7	protein-coding	16.5	21.0	34.0	336.0	50.5	20.5	29.0	17.0
Merged-chr9-35177970-3	chr9	35177866	35178066	+	840.694458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1979.0	NM_027030	69305.0	Mm.229110	NM_027030	ENSMUSG00000032040	Dcps	1700001E16Rik|AA408441	decapping enzyme, scavenger	protein-coding	10.0	25.5	24.5	434.5	19.0	3.0	9.5	11.5
Merged-chr16-91367269-4	chr16	91367156	91367356	+	997.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5527.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	63.0	38.5	40.0	744.5	51.0	19.0	17.5	25.0
Merged-chr2-167605392-4	chr2	167605289	167605489	+	796.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26616.0	NM_001311146	66589.0	Mm.278783	NM_023230	ENSMUSG00000078923	Ube2v1	0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1	ubiquitin-conjugating enzyme E2 variant 1	protein-coding	7.5	9.5	3.5	114.0	29.5	7.0	8.5	13.0
Merged-chr7-66119048-4	chr7	66118951	66119151	+	953.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081163, intron 1 of 2)	intron (NM_001081163, intron 1 of 2)	9536.0	NM_001081163	269941.0	Mm.333916	NM_001081163	ENSMUSG00000032640	Chsy1	mKIAA0990	chondroitin sulfate synthase 1	protein-coding	14.5	33.0	10.0	176.5	64.5	14.0	13.5	12.0
Merged-chr11-116412579-4	chr11	116412483	116412683	+	913.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027258, intron 1 of 18)	CpG	449.0	NM_027258	217340.0	Mm.426344	NM_027258	ENSMUSG00000052949	Rnf157	2610036E23Rik|A130073L17Rik|mKIAA1917	ring finger protein 157	protein-coding	19.5	19.0	14.0	83.5	29.5	13.5	13.5	17.0
Merged-chr1-152548172-4	chr1	152548076	152548276	+	981.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016846, intron 8 of 17)	MTEb|LTR|ERVL-MaLR	77041.0	NM_016846	19731.0	Mm.245270	NM_016846	ENSMUSG00000026482	Rgl1	Rgl|mKIAA0959	ral guanine nucleotide dissociation stimulator,-like 1	protein-coding	14.0	27.5	20.5	321.0	13.0	8.0	15.0	18.5
Merged-chr11-48823803-4	chr11	48823701	48823901	+	952.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Val-GTY|tRNA|tRNA	-2337.0	NM_053166	94089.0	Mm.390335	NM_053166	ENSMUSG00000040350	Trim7	AI790312	tripartite motif-containing 7	protein-coding	11.0	8.5	7.0	177.5	38.0	8.0	13.5	5.5
Merged-chr3-9881090-4	chr3	9881023	9881223	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-47444.0	NM_001195031	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	19.5	12.5	11.0	117.5	72.0	15.0	45.0	17.0
Merged-chr9-37531051-4	chr9	37530998	37531198	+	829.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_136939, intron 1 of 6)	intron (NR_136939, intron 1 of 6)	3009.0	NM_027102	69524.0	Mm.41751	NM_027102	ENSMUSG00000001946	Esam	2310008D05Rik|Esam1|W117m	endothelial cell-specific adhesion molecule	protein-coding	7.0	15.5	9.5	76.0	11.5	6.0	10.5	12.5
Merged-chr11-58948814-4	chr11	58948700	58948900	+	895.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030082)	promoter-TSS (NM_030082)	-111.0	NM_030082	78303.0	Mm.28022	NM_030082	ENSMUSG00000056895	Hist3h2ba	1500011O09Rik|AI413321	histone cluster 3, H2ba	protein-coding	0.0	8.0	5.5	79.5	79.0	24.0	28.5	23.0
Merged-chr16-91865215-4	chr16	91865078	91865278	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110275, intron 26 of 28)	intron (NM_001110275, intron 26 of 28)	66452.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	23.5	25.0	48.0	742.5	64.5	14.0	40.0	36.5
Merged-chr10-99279729-1	chr10	99279629	99279829	+	583.0	f0_balb.idr	Intergenic	Intergenic	16498.0	NM_026268	67603.0	Mm.1791	NM_026268	ENSMUSG00000019960	Dusp6	1300019I03Rik|MKP-3|MKP3|PYST1	dual specificity phosphatase 6	protein-coding	6.5	8.5	6.5	98.5	2.0	2.5	2.5	6.5
Merged-chr2-60284799-2	chr2	60284693	60284893	+	1000.0	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_001290660)	promoter-TSS (NM_001290660)	-309.0	NM_001290660	66205.0	Mm.227281	NM_025422	ENSMUSG00000060703	Cd302	1110055L24Rik|AI159627	CD302 antigen	protein-coding	39.5	37.0	23.5	398.0	96.5	24.5	33.5	31.5
Merged-chr4-149171696-4	chr4	149171576	149171776	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4971.0	NM_001081274	110208.0	Mm.252080	NM_025801	ENSMUSG00000028961	Pgd	0610042A05Rik|AU019875|C78335	phosphogluconate dehydrogenase	protein-coding	36.5	67.0	39.0	638.5	128.0	44.5	54.5	67.5
Merged-chr18-23430776-1	chr18	23430676	23430876	+	1000.0	f0_balb.idr	intron (NM_001361217, intron 1 of 20)	intron (NM_001361217, intron 1 of 20)	15367.0	NM_001361217	13527.0	Mm.94371	NM_010087	ENSMUSG00000024302	Dtna	2210407P21Rik|DTN-A|Dtn|Gm19389|a-DB-1|adbn	dystrobrevin alpha	protein-coding	6.5	21.0	9.0	158.5	17.0	3.5	3.0	2.0
Merged-chr15-79436768-4	chr15	79436648	79436848	+	965.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359863, intron 2 of 10)	intron (NM_001359863, intron 2 of 10)	5070.0	NM_001289899	27373.0	Mm.30199	NM_013767	ENSMUSG00000022433	Csnk1e	AI426939|AI551861|AW457082|CK1epsilon|CKIe|KC1epsilon|tau	casein kinase 1, epsilon	protein-coding	28.5	14.0	30.5	338.0	38.5	25.0	14.5	20.5
Merged-chr8-125587229-3	chr8	125587124	125587324	+	939.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_015535, intron 2 of 2)	MTE2b|LTR|ERVL-MaLR	2586.0	NR_015535	75930.0	Mm.195663	NR_015535	ENSMUSG00000110629	4930567H12Rik	4930579P07Rik	RIKEN cDNA 4930567H12 gene	ncRNA	7.5	8.5	9.0	130.5	7.5	1.5	4.0	2.5
Merged-chr12-100883377-4	chr12	100883274	100883474	+	974.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177674, intron 2 of 2)	intron (NM_001177674, intron 2 of 2)	16150.0	NM_001177674	238377.0	Mm.32160	NM_175493	ENSMUSG00000047415	Gpr68	BB131428|Ogr1	G protein-coupled receptor 68	protein-coding	28.5	70.5	33.0	625.0	46.0	13.0	30.5	16.0
Merged-chr16-94207417-4	chr16	94207317	94207517	+	796.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 6 of 10)	MTB_Mm|LTR|ERVL-MaLR	82874.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	5.5	11.5	7.0	106.5	23.0	9.0	16.5	15.5
Merged-chr2-112379144-4	chr2	112379009	112379209	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024254)	promoter-TSS (NM_024254)	-102.0	NM_024254	72425.0	Mm.425091	NM_024254	ENSMUSG00000027132	Katnbl1	2410042D21Rik|AA166487|AA473307|AI467442	katanin p80 subunit B like 1	protein-coding	80.0	118.5	64.5	1819.0	204.5	71.5	132.5	91.0
Merged-chr12-91581368-2	chr12	91581268	91581468	+	892.6666869999999	f1_balb.idr|f1_c57bl6.idr	intron (NM_175335, intron 2 of 8)	intron (NM_175335, intron 2 of 8)	8281.0	NM_031391	83602.0	Mm.275728	NM_031391	ENSMUSG00000020962	Gtf2a1	6330549H03Rik|AA536742|AA959775|AW060250|TfIIAa/b|Tfiia1	general transcription factor II A, 1	protein-coding	4.5	4.0	0.5	118.0	12.5	4.5	5.0	6.0
Merged-chr6-57571789-4	chr6	57571723	57571923	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER20C_Mm|LTR|ERVK	-9169.0	NM_025992	67138.0	Mm.297393	NM_025992	ENSMUSG00000029798	Herc6	1700121D12Rik|2510038N07Rik|4930427L17Rik|AI451296|CEB1|Herc5	hect domain and RLD 6	protein-coding	40.0	62.0	38.0	1102.0	152.0	38.5	79.5	55.0
Merged-chr10-41594630-4	chr10	41594505	41594705	+	942.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358562, intron 30 of 47)	MIRb|SINE|MIR	26589.0	NR_045341	70538.0	Mm.399807	NR_045341	ENSMUSG00000091370	5730435O14Rik	-	RIKEN cDNA 5730435O14 gene	ncRNA	14.5	18.5	10.5	291.0	51.5	10.5	11.5	19.5
Merged-chr10-13090847-6	chr10	13090643	13090843	+	761.555542	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_131912)	promoter-TSS (NR_131912)	-45.0	NM_009538	22634.0	Mm.287857	NM_009538	ENSMUSG00000019817	Plagl1	Lot1|Zac1	pleiomorphic adenoma gene-like 1	protein-coding	14.0	11.0	3.5	181.5	14.0	6.5	11.5	12.0
Merged-chr5-76706011-3	chr5	76705940	76706140	+	735.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114326.0	NM_199032	381644.0	Mm.332452	NM_199032	ENSMUSG00000036403	Cep135	BC062951|Cep4|Gm1044	centrosomal protein 135	protein-coding	4.5	14.5	5.0	31.5	17.0	1.5	6.5	9.0
Merged-chr13-112928161-2	chr13	112928061	112928261	+	866.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028151)	promoter-TSS (NM_028151)	368.0	NM_172594	218629.0	Mm.35094	NM_172594	ENSMUSG00000042426	Dhx29	3732415M03|AU043276|Ddxx|E130202M19Rik	DEAH (Asp-Glu-Ala-His) box polypeptide 29	protein-coding	6.5	14.5	23.5	49.0	14.0	11.5	9.0	15.5
Merged-chr2-59055910-4	chr2	59055811	59056011	+	907.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001362394, intron 1 of 13)	L1MA9|LINE|L1	104772.0	NM_001362393	227933.0	Mm.330234	NM_177650	ENSMUSG00000036641	Ccdc148	5830402J09|Gm38473	coiled-coil domain containing 148	protein-coding	9.0	13.5	7.0	221.0	39.5	9.0	16.0	14.0
Merged-chr19-53944108-4	chr19	53944046	53944246	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001355242)	promoter-TSS (NM_001355242)	-160.0	NM_001168505	56392.0	Mm.228669	NM_019658	ENSMUSG00000024976	Shoc2	AU017287|Sur8|mKIAA0862	soc-2 (suppressor of clear) homolog (C. elegans)	protein-coding	167.0	236.5	198.0	2672.5	377.0	162.0	230.5	122.5
Merged-chr3-135612972-4	chr3	135612866	135613066	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008689, intron 11 of 24)	intron (NM_008689, intron 11 of 24)	78581.0	NM_008689	18033.0	Mm.256765	NM_008689	ENSMUSG00000028163	Nfkb1	NF-KB1|NF-kappaB|NF-kappaB1|p105|p50|p50/p105	nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105	protein-coding	36.5	46.0	35.5	633.0	87.0	47.5	47.5	39.0
Merged-chr6-71458520-2	chr6	71458420	71458620	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F2|LTR|ERVL-MaLR	-17883.0	NM_024288	68477.0	Mm.28474	NM_024288	ENSMUSG00000002222	Rmnd5a	1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090	required for meiotic nuclear division 5 homolog A	protein-coding	19.0	9.0	17.0	211.5	41.0	10.5	8.5	21.5
Merged-chr1-194677981-1	chr1	194677881	194678081	+	1000.0	f0_balb.idr	intron (NM_008882, intron 3 of 31)	intron (NM_008882, intron 3 of 31)	58152.0	NM_008882	18845.0	Mm.2251	NM_008882	ENSMUSG00000026640	Plxna2	2810428A13Rik|AA589422|AW457381|OCT|PlexA2|Plxn2|mKIAA0463	plexin A2	protein-coding	5.5	7.0	12.5	190.5	3.5	0.0	1.5	1.5
Merged-chr10-95817592-4	chr10	95817483	95817683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MB4|LINE|L1	-123080.0	NM_001001932	216238.0	Mm.210035	NM_001001932	ENSMUSG00000036499	Eea1	A430109M19Rik|B230358H09Rik|ZFYVE2	early endosome antigen 1	protein-coding	55.0	69.5	71.5	1446.5	93.0	41.0	60.0	67.0
Merged-chr19-7268919-4	chr19	7268828	7269028	+	950.4583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_054048, exon 2 of 13)	5' UTR (NM_054048, exon 2 of 13)	649.0	NM_001320554	104383.0	Mm.283859	NM_054048	ENSMUSG00000024968	Rcor2	1A13|AW122124|CoREST|Rcor|Rcor1	REST corepressor 2	protein-coding	24.5	20.5	12.5	118.0	27.5	14.0	17.5	19.0
Merged-chr19-34152109-4	chr19	34152007	34152207	+	917.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_024204, intron 1 of 5)	intron (NM_024204, intron 1 of 5)	13934.0	NM_024204	52024.0	Mm.183030	NM_024204	ENSMUSG00000024774	Ankrd22	5430429D21Rik|D19Ertd675e	ankyrin repeat domain 22	protein-coding	13.0	14.5	9.0	198.0	37.5	4.5	14.5	21.5
Merged-chr3-88631159-4	chr3	88631071	88631271	+	749.479187	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198913, intron 2 of 21)	intron (NM_001198913, intron 2 of 21)	9777.0	NM_001198912	16800.0	Mm.239329	NM_008487	ENSMUSG00000028059	Arhgef2	AA408978|GEF|GEF-H1|GEFH1|LFP40|Lbcl1|Lfc|P40|mKIAA0651	rho/rac guanine nucleotide exchange factor (GEF) 2	protein-coding	22.5	9.5	27.5	212.0	9.5	12.0	7.5	15.5
Merged-chr17-88529015-4	chr17	88528920	88529120	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B1F|SINE|Alu	-1104.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	54.0	43.5	35.5	581.0	116.5	31.0	32.0	32.5
Merged-chr5-91961111-4	chr5	91961019	91961219	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_073442, intron 1 of 9)	intron (NR_073442, intron 1 of 9)	1437.0	NR_073442	68098.0	Mm.159453	NM_026557	ENSMUSG00000029397	Rchy1	ARNIP|CHIMP|Pirh2|Zfp363|Znf363	ring finger and CHY zinc finger domain containing 1	protein-coding	42.5	54.0	42.5	491.0	109.5	38.5	32.0	58.0
Merged-chr10-34171912-4	chr10	34171816	34172016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172508, intron 2 of 5)	intron (NM_172508, intron 2 of 5)	35635.0	NM_172508	212898.0	Mm.34557	NM_172508	ENSMUSG00000039497	Dse	6030499O08|AI480506|B130024B19Rik|DS-epi1|Sart2	dermatan sulfate epimerase	protein-coding	108.0	151.5	107.5	1486.5	224.5	102.0	127.0	83.5
Merged-chr9-15306211-4	chr9	15306091	15306291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027261)	promoter-TSS (NM_027261)	-23.0	NM_029248	75316.0	Mm.354115	NM_026541	ENSMUSG00000031939	Taf1d	2810003M17Rik|4930553M18Rik|5930426I11Rik|Josd3|TAF(I)41|TAFI41	TATA-box binding protein associated factor, RNA polymerase I, D	protein-coding	156.5	259.0	100.5	1976.5	459.0	151.5	143.0	143.0
Merged-chr11-69759103-4	chr11	69758982	69759182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001291068)	promoter-TSS (NM_001291068)	-449.0	NM_001291068	20020.0	Mm.16533	NM_009089	ENSMUSG00000005198	Polr2a	220kDa|Rpb1|Rpo2-1	polymerase (RNA) II (DNA directed) polypeptide A	protein-coding	48.5	112.5	48.0	762.5	131.5	58.5	78.0	55.5
Merged-chr3-153913005-4	chr3	153912892	153913092	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001163478)	promoter-TSS (NM_001163478)	-26.0	NR_028094	19352.0	Mm.277831	NM_011231	ENSMUSG00000038975	Rabggtb	-	Rab geranylgeranyl transferase, b subunit	protein-coding	163.0	244.5	198.5	2486.0	453.5	216.0	213.0	211.5
Merged-chr17-87321831-2	chr17	87321731	87321931	+	850.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_028639, intron 6 of 19)	B2_Mm2|SINE|B2	38945.0	NM_028639	225049.0	Mm.77396	NM_028639	ENSMUSG00000036918	Ttc7	1110035E02Rik|1700007L07Rik|Ttc7a|fsn|hea	tetratricopeptide repeat domain 7	protein-coding	3.5	8.0	1.5	28.5	13.5	6.0	7.0	5.0
Merged-chr7-102025447-4	chr7	102025343	102025543	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029211, intron 6 of 8)	intron (NM_029211, intron 6 of 8)	-7288.0	NM_010531	16068.0	Mm.422756	NM_010531	ENSMUSG00000070427	Il18bp	IL-18BP|Igifbp|MC54L	interleukin 18 binding protein	protein-coding	240.0	382.5	287.5	3033.0	556.5	221.0	229.5	187.5
Merged-chr6-140614892-4	chr6	140614798	140614998	+	900.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7765.0	NM_178803	11569.0	Mm.86453	NM_009637	ENSMUSG00000030232	Aebp2	AU023766|B230313N05Rik	AE binding protein 2	protein-coding	11.5	22.0	9.0	230.0	56.0	14.0	13.5	13.5
Merged-chr17-87387237-4	chr17	87387131	87387331	+	943.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	40510.0	NM_029298	75467.0	Mm.50108	NM_029298	ENSMUSG00000036557	Stpg4	1700011E24Rik|GSE	sperm tail PG rich repeat containing 4	protein-coding	14.5	15.5	13.0	252.5	37.0	16.0	14.5	25.0
Merged-chr12-85339453-4	chr12	85339366	85339566	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145138)	promoter-TSS (NM_145138)	-104.0	NM_145138	217718.0	Mm.29071	NM_145138	ENSMUSG00000034290	Nek9	C130021H08Rik	NIMA (never in mitosis gene a)-related expressed kinase 9	protein-coding	82.0	111.0	66.0	604.0	138.0	65.5	69.0	59.5
Merged-chr7-141172831-4	chr7	141172727	141172927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172100)	promoter-TSS (NM_001172100)	24.0	NM_001172100	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	69.5	105.5	58.5	1067.5	199.5	80.5	90.0	81.0
Merged-chr10-98896221-4	chr10	98896111	98896311	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18431.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	21.5	29.0	24.5	478.0	84.5	29.5	55.5	32.5
Merged-chr7-125554609-4	chr7	125554515	125554715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001008700, intron 1 of 10)	intron (NM_001008700, intron 1 of 10)	2333.0	NM_001008700	16190.0	Mm.233802	NM_010557	ENSMUSG00000030748	Il4ra	CD124|Il4r	interleukin 4 receptor, alpha	protein-coding	43.0	45.5	40.5	487.0	91.0	45.5	61.5	52.5
Merged-chr12-83987902-4	chr12	83987827	83988027	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134188)	promoter-TSS (NM_134188)	66.0	NM_134188	171210.0	Mm.371675	NM_134188	ENSMUSG00000021226	Acot2	AA571646|MTE-I|Mte1	acyl-CoA thioesterase 2	protein-coding	50.5	59.5	44.0	495.0	89.5	30.0	42.0	57.5
Merged-chr11-35827937-4	chr11	35827797	35827997	+	984.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025936, intron 3 of 14)	intron (NM_025936, intron 3 of 14)	6631.0	NM_025936	104458.0	Mm.284906	NM_025936	ENSMUSG00000018848	Rars	2610011N19Rik|2610037E21Rik|AL033339|AW985894	arginyl-tRNA synthetase	protein-coding	7.5	28.5	35.0	457.5	69.5	10.0	24.5	28.0
Merged-chr15-58861388-3	chr15	58861288	58861488	+	789.222229	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER16C|LTR|ERVK	-11261.0	NM_026642	68260.0	Mm.278805	NM_026642	ENSMUSG00000037085	Trmt12	4632406N01Rik|AI449275|Tyw2	tRNA methyltranferase 12	protein-coding	8.5	8.0	11.5	140.0	13.0	13.0	6.0	7.5
Merged-chr2-31763468-4	chr2	31763373	31763573	+	996.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001283045, intron 1 of 10)	intron (NM_001283045, intron 1 of 10)	3300.0	NM_001283045	11350.0	Mm.1318	NM_009594	ENSMUSG00000026842	Abl1	AI325092|Abl|E430008G22Rik|c-Abl	c-abl oncogene 1, non-receptor tyrosine kinase	protein-coding	30.5	43.5	34.5	496.0	55.0	21.5	24.5	15.0
Merged-chr1-36710098-4	chr1	36710014	36710214	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146107)	promoter-TSS (NM_146107)	-189.0	NM_146107	226977.0	Mm.28521	NM_146107	ENSMUSG00000037351	Actr1b	2310066K23Rik|AA960180|AI851923|Arp1b	ARP1 actin-related protein 1B, centractin beta	protein-coding	150.0	247.5	94.5	2156.5	363.5	112.5	148.5	130.0
Merged-chr4-8515671-4	chr4	8515559	8515759	+	990.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19985.0	NM_021518	59021.0	Mm.397471	NM_021518	ENSMUSG00000047187	Rab2a	9330148M11Rik|C80220|Rab2	RAB2A, member RAS oncogene family	protein-coding	17.0	36.5	23.0	413.5	25.0	15.0	16.0	18.5
Merged-chr5-19897264-4	chr5	19897159	19897359	+	891.229126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001170746, intron 2 of 22)	intron (NM_001170746, intron 2 of 22)	-10259.0	NM_001170745	50791.0	Mm.332231	NM_015823	ENSMUSG00000040003	Magi2	AIP-1|Acvri1|Acvrinp1|Acvrip1|Magi-2|S-SCAM|mKIAA0705	membrane associated guanylate kinase, WW and PDZ domain containing 2	protein-coding	13.5	16.0	21.5	330.5	67.0	22.0	27.0	13.5
Merged-chr11-87771242-2	chr11	87771100	87771300	+	920.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_172449, intron 14 of 31)	intron (NM_172449, intron 14 of 31)	10659.0	NM_172449	207777.0	Mm.342019	NM_172449	ENSMUSG00000034156	Tspoap1	Bzrap1|D230016K05|PRAX-1|mKIAA0612	TSPO associated protein 1	protein-coding	5.0	13.0	0.0	49.0	23.5	5.5	6.0	8.0
Merged-chr8-105226093-3	chr8	105226008	105226208	+	802.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145604, intron 1 of 15)	intron (NM_145604, intron 1 of 15)	920.0	NM_145604	234678.0	Mm.27186	NM_145604	ENSMUSG00000031889	D230025D16Rik	BC006874|Lin10	RIKEN cDNA D230025D16 gene	protein-coding	7.0	9.0	10.5	107.5	11.0	5.5	4.5	5.0
Merged-chr6-97212220-4	chr6	97212134	97212334	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022992, intron 1 of 2)	intron (NM_022992, intron 1 of 2)	1442.0	NM_022992	65106.0	Mm.291014	NM_022992	ENSMUSG00000035199	Arl6ip5	5930404D22Rik|AV001879|Aip-5|Gtrap3-18|addiscin	ADP-ribosylation factor-like 6 interacting protein 5	protein-coding	19.0	32.0	18.5	498.5	66.5	21.0	29.0	29.0
Merged-chr2-32260082-4	chr2	32259963	32260163	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011675)	promoter-TSS (NM_011675)	42.0	NM_011675	22245.0	Mm.425076	NM_011675	ENSMUSG00000002550	Uck1	URK1|Umpk	uridine-cytidine kinase 1	protein-coding	91.5	121.5	68.5	1106.5	233.5	81.0	96.5	82.0
Merged-chr1-107447409-2	chr1	107447309	107447509	+	927.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_027548, intron 5 of 7)	intron (NM_027548, intron 5 of 7)	24720.0	NM_027548	116872.0	Mm.66015	NM_027548	ENSMUSG00000067001	Serpinb7	4631416M05Rik|megsin|ovalbumin	serine (or cysteine) peptidase inhibitor, clade B, member 7	protein-coding	9.0	6.0	5.0	95.5	10.0	5.5	7.0	17.0
Merged-chr6-113077308-4	chr6	113077196	113077396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027008)	promoter-TSS (NR_027008)	-52.0	NR_027008	14910.0	Mm.280950	NR_027008	ENSMUSG00000086429	Gt(ROSA)26Sor	AV258896|Gtrgeo26|Gtrosa26|R26|ROSA26|Thumpd3as1	gene trap ROSA 26, Philippe Soriano	ncRNA	193.5	361.0	221.5	2345.5	538.0	226.5	252.0	179.0
Merged-chr10-81338780-3	chr10	81338684	81338884	+	970.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_148951, intron 4 of 5)	RSINE1|SINE|B4	4482.0	NM_148951	209047.0	Mm.218755	NM_148951	ENSMUSG00000034872	Gipc3	Ahl5|Rgs19ip3	GIPC PDZ domain containing family, member 3	protein-coding	12.5	16.5	6.5	198.5	22.0	6.5	10.0	17.0
Merged-chr11-96889018-3	chr11	96888839	96889039	+	925.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	27575.0	NM_001308183	80280.0	Mm.28297	NM_030248	ENSMUSG00000018669	Cdk5rap3	1810007E24Rik|BC002318|C53|C81486|HSF-27|IC53|LZAP|MST016	CDK5 regulatory subunit associated protein 3	protein-coding	16.5	8.5	7.5	235.0	11.0	1.5	0.5	0.5
Merged-chr12-4592548-2	chr12	4592448	4592648	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198968)	promoter-TSS (NM_001198968)	-460.0	NM_001198969	20403.0	Mm.341204	NM_011365	ENSMUSG00000020640	Itsn2	AI327390|Ese2|Sh3d1B|Sh3p18|mKIAA1256	intersectin 2	protein-coding	16.5	9.5	4.5	140.0	16.5	6.0	6.0	6.0
Merged-chr11-46265578-4	chr11	46265468	46265668	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252459, intron 13 of 30)	Lx8|LINE|L1	30011.0	NM_177075	320116.0	Mm.39600	NM_177075	ENSMUSG00000048721	Fndc9	C030019I05Rik	fibronectin type III domain containing 9	protein-coding	94.5	164.0	90.5	1729.5	279.0	84.5	138.5	66.5
Merged-chr5-137030235-4	chr5	137030149	137030349	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001039385)	promoter-TSS (NM_001039385)	-46.0	NM_001039385	381677.0	Mm.389697	NM_001039385	ENSMUSG00000037428	Vgf	Gm1052	VGF nerve growth factor inducible	protein-coding	47.0	67.5	49.5	576.5	128.5	47.5	60.0	71.0
Merged-chr9-121839445-4	chr9	121839341	121839541	+	911.2291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028384)	promoter-TSS (NM_028384)	20.0	NM_028384	100502861.0	Mm.335550	NM_028384	ENSMUSG00000079235	Ccdc13	2900041A11Rik|Gm188	coiled-coil domain containing 13	protein-coding	9.5	19.5	12.0	148.5	56.0	11.5	26.0	22.5
Merged-chr8-72136391-3	chr8	72136296	72136496	+	858.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001001491, intron 1 of 7)	intron (NM_001001491, intron 1 of 7)	1104.0	NM_001001491	326618.0	Mm.295124	NM_001001491	ENSMUSG00000031799	Tpm4	2610528G24Rik|Tpm4.2|Tpm4.2cy	tropomyosin 4	protein-coding	6.0	9.0	10.5	72.0	16.5	3.5	8.0	8.5
Merged-chr1-53743189-3	chr1	53743096	53743296	+	872.5833130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36412.0	NM_001252070	627872.0	Mm.184692	NM_001252070	ENSMUSG00000096141	Dnah7a	Dnahc7|Dnahc7a|Gm992	dynein, axonemal, heavy chain 7A	protein-coding	3.5	2.0	1.0	14.0	30.5	12.0	16.0	11.0
Merged-chr11-60417169-4	chr11	60417086	60417286	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145427)	promoter-TSS (NM_145427)	41.0	NM_025757	66771.0	Mm.29950	NM_025757	ENSMUSG00000018415	Gid4	4933439F18Rik	GID complex subunit 4, VID24 homolog	protein-coding	229.0	344.5	136.5	2048.5	562.5	217.0	157.5	180.0
Merged-chr16-32402994-4	chr16	32402911	32403111	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001160402, intron 1 of 4)	intron (NM_001160402, intron 1 of 4)	2505.0	NM_001160402	277203.0	Mm.484240	NM_001160402	ENSMUSG00000079625	Tm4sf19	EG277203	transmembrane 4 L six family member 19	protein-coding	43.5	66.0	18.0	485.0	129.5	54.0	48.0	48.5
Merged-chr9-98330334-3	chr9	98330232	98330432	+	979.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357445, intron 1 of 3)	intron (NM_001357445, intron 1 of 3)	33762.0	NM_001357451	74080.0	Mm.294082	NM_144533	ENSMUSG00000032456	Nmnat3	4933408N02Rik|PNAT3	nicotinamide nucleotide adenylyltransferase 3	protein-coding	11.5	10.0	16.5	194.5	13.5	6.0	5.0	9.0
Merged-chr7-126676398-3	chr7	126676296	126676496	+	707.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133670)	promoter-TSS (NM_133670)	22.0	NM_133670	20887.0	Mm.368982	NM_133670	ENSMUSG00000030711	Sult1a1	AI266890|PST|ST1A1|ST1A4|Stp|Stp1|mSTp1	sulfotransferase family 1A, phenol-preferring, member 1	protein-coding	6.0	12.5	6.5	118.5	10.5	6.5	7.0	4.0
Merged-chr14-25378194-5	chr14	25378163	25378363	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-80922.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	19.5	47.5	31.0	362.0	48.5	19.5	20.5	23.5
Merged-chr9-27030673-4	chr9	27030575	27030775	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178027)	promoter-TSS (NM_178027)	500.0	NM_178113	78658.0	Mm.251777	NM_178113	ENSMUSG00000035024	Ncapd3	2810487N22Rik|4632407J06Rik|AI195468|AU018739|B130055D15Rik|mKIAA0056	non-SMC condensin II complex, subunit D3	protein-coding	100.0	162.0	85.5	1659.0	306.0	113.5	145.0	116.5
Merged-chr6-71200743-4	chr6	71200650	71200850	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_017399, intron 1 of 3)	intron (NM_017399, intron 1 of 3)	871.0	NM_017399	14080.0	Mm.22126	NM_017399	ENSMUSG00000054422	Fabp1	Fabpl|L-FABP	fatty acid binding protein 1, liver	protein-coding	38.5	40.0	57.0	381.0	100.5	39.5	40.5	29.0
Merged-chr4-53180693-4	chr4	53180584	53180784	+	866.520874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20789.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	17.5	17.0	15.0	98.5	30.5	16.5	14.5	9.5
Merged-chr12-85146566-3	chr12	85146481	85146681	+	825.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146244, intron 4 of 10)	intron (NM_146244, intron 4 of 10)	4683.0	NM_146244	238323.0	Mm.44829	NM_146244	ENSMUSG00000019235	Rps6kl1	A830084F09Rik|AW046440	ribosomal protein S6 kinase-like 1	protein-coding	15.5	11.0	7.5	170.5	11.0	8.5	6.5	11.0
Merged-chr13-37658743-4	chr13	37658661	37658861	+	726.083313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-167277.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	5.5	9.5	9.0	103.0	21.0	12.5	13.0	14.0
Merged-chr3-88191277-4	chr3	88191162	88191362	+	983.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13477.0	NR_045997	76642.0	Mm.424420	NR_045997	ENSMUSG00000096935	1700113A16Rik	2210408E11Rik|AA408983	RIKEN cDNA 1700113A16 gene	ncRNA	13.5	47.0	16.0	251.0	67.5	16.0	19.0	14.0
Merged-chr7-24546605-3	chr7	24546500	24546700	+	842.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001037143)	promoter-TSS (NM_001037143)	-99.0	NM_009532	22594.0	Mm.4347	NM_009532	ENSMUSG00000051768	Xrcc1	Xrcc-1	X-ray repair complementing defective repair in Chinese hamster cells 1	protein-coding	12.0	10.5	9.0	84.5	17.0	4.0	3.5	13.5
Merged-chr19-34386617-3	chr19	34386489	34386689	+	896.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	88546.0	NM_009890	12642.0	Mm.30824	NM_009890	ENSMUSG00000050370	Ch25h	AI462618|m25OH	cholesterol 25-hydroxylase	protein-coding	5.5	8.5	8.0	192.0	12.5	6.0	7.5	5.0
Merged-chr3-9759291-4	chr3	9759199	9759399	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053182, intron 1 of 7)	intron (NM_053182, intron 1 of 7)	74380.0	NM_053182	94212.0	Mm.23897	NM_053182	ENSMUSG00000027508	Pag1	Cbp|F730007C19Rik|Pag	phosphoprotein associated with glycosphingolipid microdomains 1	protein-coding	82.0	65.0	76.0	1523.0	92.5	34.0	71.5	69.5
Merged-chr17-74440704-4	chr17	74440609	74440809	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033367, intron 5 of 8)	intron (NM_001033367, intron 5 of 8)	18399.0	NM_001033367	268973.0	Mm.311884	NM_001033367	ENSMUSG00000039193	Nlrc4	9530011P19Rik|CLAN|CLAN1|CLANA|CLANB|CLANC|CLAND|Card12|IPAF	NLR family, CARD domain containing 4	protein-coding	62.5	106.0	62.5	907.0	152.0	63.0	56.5	49.5
Merged-chr18-62971391-4	chr18	62971271	62971471	+	843.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6545.0	NM_028017	108123.0	Mm.292687	NM_028017	ENSMUSG00000024581	Napg	2400003O04Rik|SNARE	N-ethylmaleimide sensitive fusion protein attachment protein gamma	protein-coding	22.5	9.5	2.5	154.0	38.0	14.0	13.5	9.5
Merged-chr11-70466872-4	chr11	70466833	70467033	+	941.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_001348337)	TTS (NM_001348337)	-6949.0	NM_023158	66102.0	Mm.425692	NM_023158	ENSMUSG00000018920	Cxcl16	0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo	chemokine (C-X-C motif) ligand 16	protein-coding	0.0	15.5	9.5	188.0	28.5	7.5	21.0	9.5
Merged-chr11-3163821-2	chr11	3163691	3163891	+	1000.0	f0_balb.idr|f1_balb.idr	intron (NM_030207, intron 9 of 32)	RLTR51B_Mm|LTR|ERVK?	29672.0	NM_030207	78887.0	Mm.394071	NM_030207	ENSMUSG00000023764	Sfi1	-	Sfi1 homolog, spindle assembly associated (yeast)	protein-coding	36.0	27.5	37.0	329.5	0.0	0.5	0.0	0.0
Merged-chr1-39536198-2	chr1	39536098	39536298	+	1000.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_028043, exon 1 of 7)	exon (NM_028043, exon 1 of 7)	497.0	NM_028043	52846.0	Mm.259421	NM_028043	ENSMUSG00000003135	Cnot11	2410015L18Rik|C40|D1Bwg0212e	CCR4-NOT transcription complex, subunit 11	protein-coding	12.5	22.5	13.0	188.0	27.0	18.5	10.0	23.0
Merged-chr5-124037094-4	chr5	124037000	124037200	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4840.0	NM_177876	330192.0	Mm.4079	NM_177876	ENSMUSG00000066278	Vps37b	2300007F24Rik|AI415429|BC026744	vacuolar protein sorting 37B	protein-coding	29.5	29.0	33.0	460.5	133.5	23.5	38.0	43.0
Merged-chr9-111553453-3	chr9	111553362	111553562	+	948.466675	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	114381.0	NM_172928	245038.0	Mm.26361	NM_172928	ENSMUSG00000032500	Dclk3	BC056929|C730036H08|Dcamkl3	doublecortin-like kinase 3	protein-coding	5.0	5.0	4.0	119.5	87.5	22.0	30.5	28.5
Merged-chr7-80846940-4	chr7	80846834	80847034	+	942.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR31C_MM|LTR|ERVK	-15174.0	NM_009553	22691.0	Mm.358645	NM_009553	ENSMUSG00000038797	Zscan2	Zfp-29|Zfp29	zinc finger and SCAN domain containing 2	protein-coding	15.5	21.5	8.0	155.5	67.5	18.5	19.0	20.0
Merged-chr19-4398258-1	chr19	4398158	4398358	+	788.200012	f0_balb.idr	Intergenic	CpG	-1181.0	NM_001001984	225876.0	Mm.31941	NM_001001984	ENSMUSG00000054611	Kdm2a	100043628|5530401A10Rik|AA589516|AW536790|Cxxc8|Fbl11|Fbl7|Fbxl11|Gm4560|Jhdm1|Jhdm1a|lalina	lysine (K)-specific demethylase 2A	protein-coding	13.5	12.0	11.0	149.5	26.0	8.5	4.5	19.0
Merged-chr4-141638324-3	chr4	141638208	141638408	+	834.477783	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033150, intron 6 of 19)	intron (NM_001033150, intron 6 of 19)	-14474.0	NM_001013780	384071.0	Mm.295682	NM_001013780	ENSMUSG00000040740	Slc25a34	Gm1369	solute carrier family 25, member 34	protein-coding	0.0	4.0	3.5	81.0	50.0	19.0	15.5	21.0
Merged-chr5-31298820-4	chr5	31298719	31298919	+	908.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144909, intron 3 of 18)	intron (NM_144909, intron 3 of 18)	1238.0	NM_144909	231103.0	Mm.100043	NM_144909	ENSMUSG00000059434	Gckr	GKRP	glucokinase regulatory protein	protein-coding	25.0	14.0	16.0	352.5	41.5	13.0	10.5	10.0
Merged-chr7-118517987-2	chr7	118517887	118518087	+	565.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001304758, intron 5 of 6)	intron (NM_001304758, intron 5 of 6)	15369.0	NM_001304758	12850.0	Mm.20634	NM_009940	ENSMUSG00000030652	Coq7	clk-1	demethyl-Q 7	protein-coding	3.0	13.0	6.5	70.0	11.5	4.5	8.5	4.5
Merged-chr1-74362858-4	chr1	74362800	74363000	+	899.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033345, exon 3 of 10)	exon (NM_001033345, exon 3 of 10)	792.0	NM_001033345	241112.0	Mm.310460	NM_001033345	ENSMUSG00000073650	Catip	Gm216	ciliogenesis associated TTC17 interacting protein	protein-coding	9.0	14.5	7.5	127.0	29.5	13.5	16.5	10.5
Merged-chr2-28698821-4	chr2	28698730	28698930	+	992.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027283, intron 1 of 4)	MIR3|SINE|MIR	821.0	NM_027283	69987.0	Mm.239376	NM_027283	ENSMUSG00000026809	Spaca9	1700026L06Rik|MAST	sperm acrosome associated 9	protein-coding	27.5	22.5	20.5	295.0	46.0	16.0	22.0	17.5
Merged-chr2-157426332-3	chr2	157426231	157426431	+	981.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025395, intron 1 of 13)	intron (NM_001025395, intron 1 of 13)	2038.0	NM_001025395	20779.0	Mm.22845	NM_009271	ENSMUSG00000027646	Src	AW259666|pp60c-src	Rous sarcoma oncogene	protein-coding	17.5	21.5	17.0	159.5	13.5	6.5	10.5	9.0
Merged-chr3-88382102-2	chr3	88382002	88382202	+	690.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2364.0	NM_007541	12096.0	Mm.389459	NM_007541	ENSMUSG00000074483	Bglap	BGP|Bglap1|OC|OG1|mOC-A	bone gamma carboxyglutamate protein	protein-coding	6.0	7.0	5.0	37.0	8.5	6.0	5.0	3.0
Merged-chr5-123573005-4	chr5	123572864	123573064	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029929)	promoter-TSS (NM_029929)	51.0	NM_001359513	77573.0	Mm.41372	NM_029929	ENSMUSG00000029434	Vps33a	3830421M04Rik|AI503300|AW048546|AW554476|bf	VPS33A CORVET/HOPS core subunit	protein-coding	63.5	88.5	31.5	610.0	125.0	43.5	39.0	45.0
Merged-chr6-54655912-1	chr6	54655812	54656012	+	729.666687	f0_balb.idr	Intergenic	Intergenic	-25712.0	NM_001289741	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	18.5	17.0	14.0	102.5	2.5	1.5	1.0	1.0
Merged-chr6-125418953-4	chr6	125418862	125419062	+	961.1458130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-38458.0	NM_198604	213522.0	Mm.333396	NM_198604	ENSMUSG00000038167	Plekhg6	BC026778|Gm155	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	protein-coding	21.5	28.0	13.0	177.5	42.0	14.0	10.0	14.5
Merged-chr6-118562298-4	chr6	118562167	118562367	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081112)	promoter-TSS (NM_001081112)	-11.0	NM_001081112	232339.0	Mm.276116	NM_001081112	ENSMUSG00000007827	Ankrd26	5730521P14Rik|BC008111|mKIAA1074	ankyrin repeat domain 26	protein-coding	36.0	52.5	28.5	537.5	63.0	29.0	52.0	47.5
Merged-chr9-14998785-3	chr9	14998687	14998887	+	896.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	46691.0	NM_019482	55991.0	Mm.142253	NM_019482	ENSMUSG00000031934	Panx1	AI847747	pannexin 1	protein-coding	10.0	12.0	18.5	410.5	10.0	2.0	8.0	7.5
Merged-chr16-8829895-4	chr16	8829790	8829990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001081400)	promoter-TSS (NM_001081400)	-210.0	NM_001081400	69053.0	Mm.390868	NM_001081400	ENSMUSG00000022507	1810013L24Rik	1110017P05Rik|3010002C02Rik|AA792997|AW124177|Gm19906|R74903	RIKEN cDNA 1810013L24 gene	protein-coding	380.5	615.0	432.5	5851.0	1001.5	451.0	478.5	391.0
Merged-chr15-12380739-4	chr15	12380639	12380839	+	902.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081064, intron 18 of 23)	intron (NM_001081064, intron 18 of 23)	59243.0	NM_025673	66629.0	Mm.157655	NM_025673	ENSMUSG00000022200	Golph3	4733401N08Rik|5730410D03Rik|AW413496	golgi phosphoprotein 3	protein-coding	19.5	18.0	14.5	221.5	46.0	19.5	28.5	17.0
Merged-chr3-32397654-4	chr3	32397552	32397752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-31987.0	NM_009517	22401.0	Mm.35705	NM_009517	ENSMUSG00000027663	Zmat3	Wig1	zinc finger matrin type 3	protein-coding	26.5	40.5	43.0	463.5	48.0	22.0	22.0	40.5
Merged-chr12-4198905-4	chr12	4198787	4198987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159537, intron 8 of 21)	intron (NM_001159537, intron 8 of 21)	35078.0	NM_134046	52504.0	Mm.70546	NM_134046	ENSMUSG00000020652	Cenpo	2810429O05Rik|8430427C03Rik|D12Ertd482e	centromere protein O	protein-coding	73.0	72.0	81.5	1255.5	77.0	29.5	41.5	25.0
Merged-chr2-129570395-4	chr2	129570311	129570511	+	959.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-22428.0	NM_001291020	19261.0	Mm.1682	NM_007547	ENSMUSG00000037902	Sirpa	AI835480|Bit|CD172a|P84|Ptpns1|SHP-1|SHPS-1|SIRP	signal-regulatory protein alpha	protein-coding	2.0	24.0	32.5	112.0	64.5	24.0	29.0	24.5
Merged-chr6-113418791-3	chr6	113418737	113418937	+	894.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001346511, exon 2 of 9)	exon (NM_001346511, exon 2 of 9)	503.0	NM_001033204	101122.0	Mm.31204	NM_001033204	ENSMUSG00000051169	Rpusd3	AI527266	RNA pseudouridylate synthase domain containing 3	protein-coding	12.0	18.0	13.5	100.0	10.5	2.5	5.5	11.5
Merged-chr6-54021462-5	chr6	54021406	54021606	+	847.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18426.0	NM_001163640	69993.0	Mm.321147	NM_023543	ENSMUSG00000004633	Chn2	1700026N20Rik|4930557O16Rik|ARHGAP3|Bch	chimerin 2	protein-coding	2.0	3.5	2.5	46.5	16.0	9.0	11.0	22.5
Merged-chr2-102882345-4	chr2	102882256	102882456	+	768.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 1 of 13)	intron (NM_001039150, intron 1 of 13)	19309.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	6.0	18.0	10.0	99.5	30.5	12.5	8.5	16.0
Merged-chr1-133025923-1	chr1	133025823	133026023	+	745.0	f0_balb.idr	promoter-TSS (NM_001302803)	promoter-TSS (NM_001302803)	-507.0	NM_001302801	17248.0	Mm.426531	NM_008575	ENSMUSG00000054387	Mdm4	4933417N07Rik|AA414968|AL023055|AU018793|AU021806|C85810|Mdmx	transformed mouse 3T3 cell double minute 4	protein-coding	7.5	13.0	3.0	172.5	25.5	6.5	5.5	13.5
Merged-chr7-96976208-4	chr7	96976113	96976313	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153591, intron 5 of 13)	ORR1D2|LTR|ERVL-MaLR	24686.0	NM_153591	244141.0	Mm.274864	NM_153591	ENSMUSG00000018995	Nars2	AI875199	asparaginyl-tRNA synthetase 2 (mitochondrial)(putative)	protein-coding	61.0	56.0	72.5	1105.0	80.5	23.0	33.0	43.0
Merged-chr10-121297559-4	chr10	121297436	121297636	+	909.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001361015, intron 6 of 12)	intron (NM_001361015, intron 6 of 12)	13860.0	NM_029057	74694.0	Mm.233833	NM_029057	ENSMUSG00000052302	Tbc1d30	4930505D03Rik|9530013E20Rik	TBC1 domain family, member 30	protein-coding	11.5	21.5	22.5	371.5	9.0	1.0	8.0	7.0
Merged-chr15-102073753-4	chr15	102073638	102073838	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145625)	promoter-TSS (NM_145625)	-35.0	NM_145625	75705.0	Mm.290022	NM_145625	ENSMUSG00000058655	Eif4b	2310046H11Rik|AL024095|C85189|Eif4a2	eukaryotic translation initiation factor 4B	protein-coding	181.0	312.5	160.5	1894.0	485.5	185.0	196.0	145.0
Merged-chr6-86525483-2	chr6	86525382	86525582	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_011865, exon 1 of 1)	exon (NM_011865, exon 1 of 1)	707.0	NM_011865	23983.0	Mm.274146	NM_011865	ENSMUSG00000051695	Pcbp1	WBP17|[a]CP-1|alphaCP-1|hnRNP E1|hnRNP-E1	poly(rC) binding protein 1	protein-coding	11.0	20.5	35.5	305.0	45.0	23.0	26.5	44.5
Merged-chr10-79883884-4	chr10	79883781	79883981	+	956.158325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_011178)	TTS (NM_011178)	-2431.0	NM_015779	50701.0	Mm.262194	NM_015779	ENSMUSG00000020125	Elane	Ela2|F430011M15Rik|NE	elastase, neutrophil expressed	protein-coding	14.5	29.0	17.5	160.0	54.0	23.0	10.0	11.0
Merged-chr5-140829427-5	chr5	140829356	140829556	+	726.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	ID_B1|SINE|B4	975.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	6.0	5.0	8.5	95.0	9.5	4.0	2.0	1.5
Merged-chr1-155417025-3	chr1	155416924	155417124	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011273, intron 1 of 14)	CpG	420.0	NM_011273	19775.0	Mm.266215	NM_011273	ENSMUSG00000026469	Xpr1	Rmc-1|Rmc1|Sxv|Syg1|XR	xenotropic and polytropic retrovirus receptor 1	protein-coding	27.5	47.5	31.5	311.5	53.0	18.5	26.5	29.5
Merged-chr1-34467719-4	chr1	34467584	34467784	+	970.5499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011206, intron 5 of 14)	C-rich|Low_complexity|Low_complexity	7938.0	NM_011206	19253.0	Mm.361	NM_011206	ENSMUSG00000026126	Ptpn18	FLP1|HSCF|PTP-HSCF|PTP-K1|Ptpk1	protein tyrosine phosphatase, non-receptor type 18	protein-coding	33.5	33.0	15.5	324.0	70.0	24.0	14.0	26.5
Merged-chr9-108095785-4	chr9	108095691	108095891	+	764.395813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_007567)	TTS (NM_007567)	-1311.0	NM_146226	235606.0	Mm.219639	NM_146226	ENSMUSG00000032590	Apeh	-	acylpeptide hydrolase	protein-coding	16.5	12.5	8.0	90.0	45.5	7.5	9.0	14.0
Merged-chr7-17056221-4	chr7	17056123	17056323	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016868, intron 2 of 14)	CpG	456.0	NM_016868	53417.0	Mm.135110	NM_016868	ENSMUSG00000004328	Hif3a	Ipas|MOP7|NEPAS|bHLHe17	hypoxia inducible factor 3, alpha subunit	protein-coding	90.0	82.5	71.0	813.0	170.0	52.0	101.0	50.5
Merged-chr10-127289371-4	chr10	127289270	127289470	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_033072)	promoter-TSS (NM_033072)	-352.0	NM_033072	110962.0	Mm.372826	NM_033072	ENSMUSG00000025409	Mbd6	D10Wsu93e	methyl-CpG binding domain protein 6	protein-coding	104.0	143.5	76.0	1520.0	206.5	95.0	85.5	98.0
Merged-chr4-130890256-4	chr4	130890168	130890368	+	865.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23066.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	19.0	17.0	43.5	588.5	28.5	3.5	17.0	6.5
Merged-chr8-108783409-4	chr8	108783322	108783522	+	884.68335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 1 of 9)	intron (NM_007496, intron 1 of 9)	68778.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	17.0	18.5	17.0	460.5	37.5	8.0	13.5	12.0
Merged-chr6-86594840-4	chr6	86594735	86594935	+	952.7291869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTEa|LTR|ERVL-MaLR	-33339.0	NM_026414	67855.0	Mm.183043	NM_026414	ENSMUSG00000033508	Asprv1	2300003P22Rik|AA986851|SASP|SASPase|Taps	aspartic peptidase, retroviral-like 1	protein-coding	13.5	41.5	9.0	236.0	36.5	20.5	11.0	28.5
Merged-chr4-155703631-2	chr4	155703531	155703731	+	778.25	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR14|LTR|ERV1	-1184.0	NM_026899	68991.0	Mm.294770	NM_026899	ENSMUSG00000029038	Ssu72	1190002E22Rik|1500011L16Rik|2610101M12Rik	Ssu72 RNA polymerase II CTD phosphatase homolog (yeast)	protein-coding	3.5	8.0	2.0	47.5	14.0	6.5	4.5	9.0
Merged-chr13-22035732-4	chr13	22035621	22035821	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175665)	promoter-TSS (NM_175665)	-78.0	NM_175659	319168.0	Mm.250564	NM_175659	ENSMUSG00000069302	Hist1h2ah	-	histone cluster 1, H2ah	protein-coding	85.0	119.0	83.0	1743.0	226.0	67.5	129.5	85.5
Merged-chr12-75595565-5	chr12	75595505	75595705	+	878.900024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012024, intron 1 of 13)	CpG	595.0	NM_012024	26932.0	Mm.259626	NM_012024	ENSMUSG00000021051	Ppp2r5e	4633401M22Rik|AI449017|B56beta	protein phosphatase 2, regulatory subunit B', epsilon	protein-coding	5.0	7.0	5.0	86.5	17.5	3.5	11.5	13.0
Merged-chr17-15813910-4	chr17	15813822	15814022	+	796.083374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178615, intron 2 of 2)	intron (NM_178615, intron 2 of 2)	12664.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	12.0	4.5	21.0	355.5	22.5	9.0	8.5	5.5
Merged-chr12-102719787-4	chr12	102719691	102719891	+	847.145874	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14922.0	NM_172584	217837.0	Mm.482192	NM_172584	ENSMUSG00000057963	Itpk1	BC031182	inositol 1,3,4-triphosphate 5/6 kinase	protein-coding	7.0	16.5	6.0	144.0	35.0	18.5	13.0	7.5
Merged-chr6-146674561-3	chr6	146674451	146674651	+	889.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	17333.0	NR_046277	74925.0	Mm.386304	NR_046277	ENSMUSG00000085238	4930479D17Rik	-	RIKEN cDNA 4930479D17 gene	ncRNA	6.0	14.5	13.0	232.5	24.0	3.0	5.5	7.0
Merged-chr11-20741078-4	chr11	20740980	20741180	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_181411, intron 1 of 8)	CpG	476.0	NM_001290545	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	21.0	30.5	31.0	295.0	68.5	26.0	26.5	27.5
Merged-chr5-122285842-3	chr5	122285740	122285940	+	955.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177242, intron 1 of 5)	intron (NM_177242, intron 1 of 5)	1442.0	NM_177242	320717.0	Mm.489670	NM_177242	ENSMUSG00000038582	Pptc7	9130017A15Rik|AA672638|AI848390|TA-PP2C	PTC7 protein phosphatase homolog	protein-coding	11.0	13.0	4.5	159.0	13.5	5.0	13.0	10.5
Merged-chr11-101580044-4	chr11	101579958	101580158	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008676, intron 23 of 23)	intron (NM_008676, intron 23 of 23)	-2184.0	NM_001359326	217203.0	Mm.280559	NM_144830	ENSMUSG00000034947	Tmem106a	0610008L10Rik|AI043106|BC022145	transmembrane protein 106A	protein-coding	60.0	79.5	34.0	646.5	100.5	33.5	27.5	56.0
Merged-chr11-74648160-4	chr11	74648065	74648265	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1330.0	NM_001081158	74148.0	Mm.214574	NM_001081158	ENSMUSG00000020741	Cluh	1300001I01Rik|Kiaa0664|mKIAA0664	clustered mitochondria (cluA/CLU1) homolog	protein-coding	147.0	254.0	146.0	2455.0	282.5	96.0	160.5	123.5
Merged-chr5-43187509-4	chr5	43187404	43187604	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_028417, intron 5 of 7)	ORR1F|LTR|ERVL-MaLR	-45959.0	NM_175937	231207.0	Mm.7233	NM_175937	ENSMUSG00000039782	Cpeb2	A630055H10Rik|Cpe-bp2	cytoplasmic polyadenylation element binding protein 2	protein-coding	50.0	77.0	124.0	1374.5	274.5	90.5	128.0	83.0
Merged-chr2-118883485-4	chr2	118883374	118883574	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-18141.0	NM_001045523	228536.0	Mm.330487	NM_001045523	ENSMUSG00000040007	Bahd1	AL022997|AW541238|Gm117|mKIAA0945	bromo adjacent homology domain containing 1	protein-coding	12.5	31.0	18.5	223.5	44.5	24.0	23.0	23.5
Merged-chr8-54507918-4	chr8	54507825	54508025	+	960.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22073.0	NM_029701	76687.0	Mm.86437	NM_029701	ENSMUSG00000054408	Spcs3	1810011E08Rik|SPC22/23	signal peptidase complex subunit 3 homolog (S. cerevisiae)	protein-coding	16.0	18.0	20.5	492.5	54.5	7.5	19.0	26.0
Merged-chr17-71183451-4	chr17	71183325	71183525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022882)	promoter-TSS (NM_022882)	-107.0	NM_001357791	64898.0	Mm.227924	NM_022882	ENSMUSG00000024052	Lpin2	2610511G02Rik|AI481352|AW742896	lipin 2	protein-coding	104.5	105.0	80.5	1228.5	223.0	75.0	77.5	78.5
Merged-chr15-100125597-3	chr15	100125493	100125693	+	940.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001159361, intron 2 of 37)	intron (NM_001159361, intron 2 of 37)	-28803.0	NM_172819	239667.0	Mm.243658	NM_172819	ENSMUSG00000023026	Dip2b	4932422C22|AI317237|AI854602|mKIAA1463	disco interacting protein 2 homolog B	protein-coding	12.5	8.5	8.0	182.0	13.5	2.5	7.0	7.5
Merged-chr2-131423167-6	chr2	131423076	131423276	+	920.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-68686.0	NM_001177834	228608.0	Mm.136586	NM_145533	ENSMUSG00000027333	Smox	B130066H01Rik|PAO|PAOh1|SMO	spermine oxidase	protein-coding	5.5	21.5	13.0	50.0	14.0	11.0	4.5	11.0
Merged-chr7-19328019-4	chr7	19327925	19328125	+	862.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17046.0	NM_001127324	13870.0	Mm.280913	NM_007948	ENSMUSG00000003549	Ercc1	Ercc-1	excision repair cross-complementing rodent repair deficiency, complementation group 1	protein-coding	11.0	8.5	3.0	106.5	34.0	10.0	7.0	6.5
Merged-chr4-83303667-4	chr4	83303549	83303749	+	923.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027238, intron 1 of 19)	intron (NM_027238, intron 1 of 19)	20540.0	NM_027238	69863.0	Mm.5540	NM_025782	ENSMUSG00000038172	Ttc39b	1810054D07Rik|9130422G05Rik|AI450603|AV103077|AW215585	tetratricopeptide repeat domain 39B	protein-coding	12.0	24.5	15.5	266.0	62.0	9.0	30.0	12.5
Merged-chr2-150218104-6	chr2	150217996	150218196	+	815.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001142411)	promoter-TSS (NM_001142411)	-3.0	NM_001142411	245174.0	Mm.378428	NM_001142411	ENSMUSG00000060336	Zfp937	EG245174|Gm4979|ZIPO-I	zinc finger protein 937	protein-coding	13.5	7.5	16.0	201.0	36.5	14.0	24.5	21.0
Merged-chr16-91405786-4	chr16	91405684	91405884	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008349)	promoter-TSS (NM_008349)	-451.0	NM_008349	16155.0	Mm.4154	NM_008349	ENSMUSG00000022969	Il10rb	6620401D04Rik|AI528744|CRF2-4|Crfb4|D16H21S58|D21S58h|IL-10R2|Il10r2	interleukin 10 receptor, beta	protein-coding	72.0	142.0	36.5	676.5	285.0	89.0	73.5	59.0
Merged-chr11-70447598-4	chr11	70447509	70447709	+	963.6083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4322.0	NM_025397	66172.0	Mm.46424	NM_025397	ENSMUSG00000018923	Med11	1110030J09Rik|AI465144|AW545069	mediator complex subunit 11	protein-coding	28.5	34.5	17.0	291.5	60.5	23.5	24.5	12.5
Merged-chr18-44759843-4	chr18	44759733	44759933	+	947.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085373, intron 1 of 18)	intron (NM_001085373, intron 1 of 18)	52349.0	NM_001085373	328949.0	Mm.312511	NM_001033406	ENSMUSG00000071856	Mcc	D18Ertd451e|E330037C19	mutated in colorectal cancers	protein-coding	41.5	38.5	28.0	746.0	64.5	17.5	17.5	13.5
Merged-chr16-45390025-4	chr16	45389934	45390134	+	958.5125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001358443, intron 4 of 4)	intron (NM_001358443, intron 4 of 4)	19019.0	NM_001358443	17470.0	Mm.245851	NM_010818	ENSMUSG00000022661	Cd200	Mox2|OX2	CD200 antigen	protein-coding	12.0	15.5	8.5	212.5	62.5	14.5	30.0	13.0
Merged-chr19-5689684-4	chr19	5689616	5689816	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144868)	promoter-TSS (NM_144868)	585.0	NM_022012	26403.0	Mm.185026	NM_022012	ENSMUSG00000004054	Map3k11	2610017K16Rik|Mlk3|PTK1|SPRK	mitogen-activated protein kinase kinase kinase 11	protein-coding	125.0	237.5	79.5	976.5	280.0	111.5	89.5	99.5
Merged-chr8-61665215-4	chr8	61665183	61665383	+	879.5125119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	-74114.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	25.5	18.5	25.0	232.5	11.0	7.0	8.0	6.0
Merged-chr2-153543189-4	chr2	153543085	153543285	+	804.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-13214.0	NM_001134300	329540.0	Mm.50600	NM_001001986	ENSMUSG00000061411	Nol4l	4931410H15|8430427H17Rik|AI429157|Gm1636	nucleolar protein 4-like	protein-coding	27.5	18.5	9.5	104.5	39.0	11.5	7.0	3.0
Merged-chr8-36097132-3	chr8	36097007	36097207	+	740.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172911, intron 1 of 5)	intron (NM_172911, intron 1 of 5)	2279.0	NM_172911	244418.0	Mm.244971	NM_172911	ENSMUSG00000050271	Prag1	9830148H23|D8Ertd82e|NACK|Sgk223|mFLJ00269	PEAK1 related kinase activating pseudokinase 1	protein-coding	7.5	8.0	6.5	91.0	8.5	6.0	10.0	4.0
Merged-chr17-40875758-2	chr17	40875652	40875852	+	699.25	f0_c57.idr|f1_c57bl6.idr	3' UTR (NM_027834, exon 2 of 2)	3' UTR (NM_027834, exon 2 of 2)	4806.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	3.0	9.0	7.0	29.0	47.0	11.5	5.5	20.5
Merged-chr11-103992849-4	chr11	103992758	103992958	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	25987.0	NM_007477	11841.0	Mm.5061	NM_007477	ENSMUSG00000062421	Arf2	-	ADP-ribosylation factor 2	protein-coding	65.0	74.0	66.5	758.0	98.5	41.0	44.5	53.5
Merged-chr13-15850556-4	chr13	15850457	15850657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155430, intron 3 of 3)	Arthur1|DNA|hAT-Tip100	43314.0	NR_046131	328190.0	Mm.446957	NR_046131	ENSMUSG00000113338	A530046M15Rik	A530046M15	RIKEN cDNA A530046M15 gene	ncRNA	20.5	26.0	29.5	535.5	101.5	32.0	52.5	57.0
Merged-chr12-40140933-3	chr12	40140828	40141028	+	871.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6700.0	NM_001146196	20259.0	Mm.2416	NM_009132	ENSMUSG00000002565	Scin	AW545522|adseverin	scinderin	protein-coding	5.0	10.0	6.0	238.0	25.0	2.5	11.0	7.5
Merged-chr3-67576454-4	chr3	67576339	67576539	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6329.0	NM_025813	66868.0	Mm.491153	NM_025813	ENSMUSG00000027775	Mfsd1	1200003O06Rik	major facilitator superfamily domain containing 1	protein-coding	75.0	117.0	63.5	1182.5	154.0	89.5	48.5	41.5
Merged-chr16-94250270-4	chr16	94250203	94250403	+	901.90625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001360045, intron 5 of 10)	intron (NM_001360045, intron 5 of 10)	39988.0	NM_001360045	110948.0	Mm.30921	NM_139145	ENSMUSG00000040820	Hlcs	410I21.SP6|D16Jhu34	holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)	protein-coding	2.0	12.0	7.0	104.5	17.0	10.0	14.5	5.5
Merged-chr12-106027007-3	chr12	106026916	106027116	+	809.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001029843, intron 1 of 13)	intron (NM_001029843, intron 1 of 13)	16753.0	NM_001029843	22367.0	Mm.2981	NM_011705	ENSMUSG00000021115	Vrk1	51PK	vaccinia related kinase 1	protein-coding	4.0	9.0	0.0	91.5	5.5	6.0	5.0	5.5
Merged-chr11-4637681-4	chr11	4637571	4637771	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029291)	promoter-TSS (NM_029291)	-122.0	NM_029291	75452.0	Mm.439906	NM_029291	ENSMUSG00000020412	Ascc2	1700011I11Rik|2610034L15Rik|AI482016|ASC1p100|AW046480	activating signal cointegrator 1 complex subunit 2	protein-coding	52.5	61.5	33.0	607.5	129.5	40.0	57.0	51.0
Merged-chr2-102831688-4	chr2	102831570	102831770	+	881.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039150, intron 9 of 13)	intron (NM_001039150, intron 9 of 13)	69995.0	NM_001177785	12505.0	Mm.423621	NM_009851	ENSMUSG00000005087	Cd44	AU023126|AW121933|AW146109|HERMES|Ly-24|Pgp-1	CD44 antigen	protein-coding	15.0	2.5	9.0	158.5	34.0	7.0	16.0	21.5
Merged-chr12-24741780-3	chr12	24741671	24741871	+	860.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	33517.0	NM_009104	20135.0	Mm.99	NM_009104	ENSMUSG00000020649	Rrm2	AA407299|R2	ribonucleotide reductase M2	protein-coding	12.0	15.0	6.5	72.5	7.0	2.0	4.0	4.0
Merged-chr12-71836150-4	chr12	71836059	71836259	+	922.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026102, intron 1 of 25)	intron (NM_026102, intron 1 of 25)	5091.0	NM_172464	208846.0	Mm.87417	NM_026102	ENSMUSG00000034574	Daam1	-	dishevelled associated activator of morphogenesis 1	protein-coding	7.0	21.0	5.0	254.5	24.5	6.0	19.5	8.0
Merged-chr6-72538903-4	chr6	72538806	72539006	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5485.0	NM_007599	12332.0	Mm.18626	NM_007599	ENSMUSG00000056737	Capg	gCap39|mbh1	capping protein (actin filament), gelsolin-like	protein-coding	38.5	44.5	48.0	829.5	146.0	61.0	111.0	62.5
Merged-chr11-83603641-3	chr11	83603525	83603725	+	933.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_036453, intron 2 of 8)	MLT1G|LTR|ERVL-MaLR	-10538.0	NM_009139	20305.0	Mm.137	NM_009139	ENSMUSG00000018927	Ccl6	MRP-1|Scya6|c10	chemokine (C-C motif) ligand 6	protein-coding	9.5	15.0	8.0	143.0	20.0	4.0	4.5	5.0
Merged-chr2-35984079-4	chr2	35983976	35984176	+	850.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4452.0	NM_029774	74410.0	Mm.21591	NM_028921	ENSMUSG00000026885	Ttll11	4932702F08Rik|4933424A20Rik|AU043211|D2Ertd624e	tubulin tyrosine ligase-like family, member 11	protein-coding	18.5	11.5	3.5	141.0	49.0	11.5	10.0	14.0
Merged-chr7-88128665-4	chr7	88128563	88128763	+	990.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001143834, intron 10 of 10)	intron (NM_001143834, intron 10 of 10)	-149422.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	18.0	59.0	29.5	348.0	70.5	30.5	34.5	8.0
Merged-chr12-86924019-4	chr12	86923925	86924125	+	818.766663	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-23016.0	NM_001289431	217732.0	Mm.22337	NM_173735	ENSMUSG00000034157	Cipc	2310044G17Rik|AI842544|AI853744|Kiaa1737|mKIAA1737	CLOCK interacting protein, circadian	protein-coding	7.0	11.0	11.0	175.0	34.5	8.0	11.0	17.0
Merged-chr12-100166404-4	chr12	100166310	100166510	+	774.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER77B|LTR|ERVL	-6757.0	NM_183155	217827.0	Mm.224076	NM_183155	ENSMUSG00000021179	Nrde2	6720454P05Rik	nrde-2 necessary for RNA interference, domain containing	protein-coding	7.0	14.5	13.0	123.5	16.0	8.0	10.5	11.5
Merged-chr14-79503885-4	chr14	79503796	79503996	+	874.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007920, intron 1 of 8)	MTE2a|LTR|ERVL-MaLR	-11778.0	NM_001286412	13709.0	Mm.20938	NM_007920	ENSMUSG00000036461	Elf1	Elf-1|Sts1|mElf-1|p70	E74-like factor 1	protein-coding	8.5	12.5	17.0	322.5	27.0	5.0	16.5	12.0
Merged-chr10-93539960-4	chr10	93539868	93540068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027908)	promoter-TSS (NM_027908)	65.0	NM_027908	71761.0	Mm.244518	NM_027908	ENSMUSG00000015890	Amdhd1	1300019J08Rik	amidohydrolase domain containing 1	protein-coding	71.0	136.5	89.0	1487.5	229.5	89.5	116.5	74.0
Merged-chr19-40402431-3	chr19	40402335	40402535	+	948.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001034964)	promoter-TSS (NM_001034964)	-125.0	NM_001034964	20411.0	Mm.210815	NM_009166	ENSMUSG00000025006	Sorbs1	2310065E01Rik|9530001P15Rik|CAP|SH3P12|Sh3d5|mKIAA1296	sorbin and SH3 domain containing 1	protein-coding	14.5	12.0	11.5	220.5	17.0	2.5	10.5	12.0
Merged-chr10-5208424-3	chr10	5208286	5208486	+	862.849976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347711, intron 86 of 145)	intron (NM_001347711, intron 86 of 145)	-13679.0	NM_001079686	64009.0	Mm.331626	NM_022027	ENSMUSG00000096054	Syne1	8B|A330049M09Rik|BE692247|C130039F11Rik|CPG2|KASH1|Myne1|mKIAA1756|myne-1	spectrin repeat containing, nuclear envelope 1	protein-coding	7.0	7.5	7.5	162.0	6.5	5.0	3.5	1.5
Merged-chr7-118802923-3	chr7	118802825	118803025	+	847.1666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 21 of 30)	intron (NM_027815, intron 21 of 30)	52688.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	6.0	10.5	5.5	142.0	22.0	7.5	12.0	8.0
Merged-chr2-60818305-3	chr2	60818210	60818410	+	776.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001141932, intron 2 of 14)	intron (NM_001141932, intron 2 of 14)	63128.0	NM_001141932	56878.0	Mm.259667	NM_020296	ENSMUSG00000026970	Rbms1	2600014B10Rik|AI255215|MSSP-1|MSSP-2|MSSP-3|YC1	RNA binding motif, single stranded interacting protein 1	protein-coding	4.5	7.0	9.5	113.0	22.0	3.0	2.5	9.0
Merged-chr11-120617931-4	chr11	120617845	120618045	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347615)	promoter-TSS (NM_001347615)	0.0	NM_001347615	68671.0	Mm.21439	NM_024229	ENSMUSG00000025137	Pcyt2	1110033E03Rik|ET	phosphate cytidylyltransferase 2, ethanolamine	protein-coding	87.0	147.0	55.5	1036.5	248.5	91.5	87.5	76.5
Merged-chr10-98882690-4	chr10	98882582	98882782	+	905.6041869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31960.0	NM_001359506	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	17.0	8.0	16.0	356.0	35.5	8.0	11.5	15.5
Merged-chr5-143509961-3	chr5	143509875	143510075	+	884.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347530, intron 3 of 6)	intron (NM_001347530, intron 3 of 6)	18018.0	NM_009007	19353.0	Mm.292510	NM_009007	ENSMUSG00000001847	Rac1	AL023026|D5Ertd559e	Rac family small GTPase 1	protein-coding	6.5	10.5	8.5	120.5	5.0	1.5	5.0	6.5
Merged-chr8-111522205-4	chr8	111522091	111522291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176923)	promoter-TSS (NM_176923)	-84.0	NM_176923	319481.0	Mm.247294	NM_176923	ENSMUSG00000031959	Wdr59	5430401O09Rik|Cdw12	WD repeat domain 59	protein-coding	160.0	264.0	195.5	2426.5	441.5	172.5	214.0	171.5
Merged-chr12-100204090-3	chr12	100203969	100204169	+	921.7777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001313934, intron 3 of 5)	intron (NM_001313934, intron 3 of 5)	3925.0	NM_001313934	12313.0	Mm.285993	NM_009790	ENSMUSG00000001175	Calm1	AI256814|AI327027|AI461935|AL024000|CaM|Calm|Cam1	calmodulin 1	protein-coding	13.0	12.5	16.5	377.0	17.0	7.5	6.0	8.0
Merged-chr13-8839355-4	chr13	8839222	8839422	+	964.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001039388, intron 9 of 13)	intron (NM_001039388, intron 9 of 13)	31722.0	NM_001039389	207615.0	Mm.284654	NM_172445	ENSMUSG00000021147	Wdr37	-	WD repeat domain 37	protein-coding	12.0	8.5	28.5	239.5	43.0	8.5	13.5	29.0
Merged-chr9-44587482-4	chr9	44587393	44587593	+	962.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17399.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	23.0	40.0	22.5	69.5	27.5	11.0	11.5	6.0
Merged-chr13-56176003-3	chr13	56175844	56176044	+	696.900024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001168615, exon 3 of 3)	3' UTR (NM_001168615, exon 3 of 3)	2941.0	NM_145976	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	6.5	6.5	5.5	113.0	7.5	1.0	0.5	2.5
Merged-chr14-34674731-4	chr14	34674618	34674818	+	994.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001004436, intron 1 of 18)	CpG	790.0	NM_001301330	218914.0	Mm.27957	NM_001004436	ENSMUSG00000041408	Wapl	A530089A20Rik|BC037674|DIF-2|FOE|Wapal	WAPL cohesin release factor	protein-coding	19.5	12.5	11.5	170.0	30.5	15.0	22.0	18.5
Merged-chr15-91194756-4	chr15	91194645	91194845	+	966.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx|LINE|L1	-2738.0	NM_001358967	26874.0	Mm.295456	NM_011994	ENSMUSG00000055782	Abcd2	ABC39|ALDL1|ALDR|ALDRP	ATP-binding cassette, sub-family D (ALD), member 2	protein-coding	30.0	37.5	20.5	299.5	86.5	11.0	24.5	36.5
Merged-chr6-115717826-4	chr6	115717715	115717915	+	948.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-41180.0	NM_029780	110157.0	Mm.184163	NM_029780	ENSMUSG00000000441	Raf1	6430402F14Rik|AA990557|BB129353|Craf1|D830050J10Rik|Raf-1|c-Raf|cRaf|v-Raf	v-raf-leukemia viral oncogene 1	protein-coding	30.0	33.0	15.0	331.5	65.0	18.5	13.0	23.0
Merged-chr14-14673460-3	chr14	14673342	14673542	+	836.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-29583.0	NM_001360505	218756.0	Mm.258893	NM_001033270	ENSMUSG00000021733	Slc4a7	E430014N10Rik|NBC3|NBCn1|NBCn1-G|Tg(Thy1-SNCA)12Mjff	solute carrier family 4, sodium bicarbonate cotransporter, member 7	protein-coding	9.0	7.0	13.5	192.0	28.0	3.0	6.5	6.5
Merged-chr18-53236336-4	chr18	53236235	53236435	+	844.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR30D2_MM|LTR|ERV1	-9327.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	4.0	17.0	11.0	196.0	24.5	9.0	6.5	14.5
Merged-chr2-73566293-4	chr2	73566183	73566383	+	897.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_007389, exon 9 of 9)	exon (NM_007389, exon 9 of 9)	14055.0	NM_007389	11435.0	Mm.4583	NM_007389	ENSMUSG00000027107	Chrna1	AI385656|AI608266|Achr-1|Acra	cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle)	protein-coding	17.0	16.5	8.5	117.0	38.5	8.5	12.0	9.5
Merged-chr15-53822089-4	chr15	53822006	53822206	+	782.62915	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177225, intron 2 of 4)	intron (NM_177225, intron 2 of 4)	80330.0	NM_177225	320679.0	Mm.442455	NM_177225	ENSMUSG00000058656	Samd12	A830094I09Rik	sterile alpha motif domain containing 12	protein-coding	10.5	26.5	9.5	275.5	25.5	11.0	14.0	15.0
Merged-chr4-145195028-4	chr4	145194948	145195148	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276465)	promoter-TSS (NM_001276465)	-43.0	NM_001276465	230895.0	Mm.240310	NM_001033190	ENSMUSG00000020220	Vps13d	-	vacuolar protein sorting 13D	protein-coding	46.5	86.5	40.0	747.0	193.0	66.5	90.5	63.5
Merged-chr2-72201679-4	chr2	72201559	72201759	+	746.875	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355478, intron 11 of 26)	intron (NM_001355478, intron 11 of 26)	-83978.0	NM_023057	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	1.5	1.0	0.0	9.0	28.5	7.0	7.0	6.5
Merged-chr3-87361342-4	chr3	87361221	87361421	+	805.474976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009690, intron 2 of 5)	intron (NM_009690, intron 2 of 5)	3440.0	NM_009690	11801.0	Mm.6676	NM_009690	ENSMUSG00000015854	Cd5l	1/6|AAC-11|AI047839|Api6|CT2|Pdp|Sp-alpha|mAIM	CD5 antigen-like	protein-coding	7.5	6.5	15.5	225.5	22.0	8.0	5.5	18.5
Merged-chr13-45444896-4	chr13	45444791	45444991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	55149.0	NM_153789	218203.0	Mm.212855	NM_153789	ENSMUSG00000038175	Mylip	9430057C20Rik|Mir	myosin regulatory light chain interacting protein	protein-coding	59.5	117.0	82.5	999.0	80.0	20.0	29.5	19.0
Merged-chr8-121906645-4	chr8	121906528	121906728	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011404, intron 1 of 9)	intron (NM_011404, intron 1 of 9)	1058.0	NM_011404	20539.0	Mm.22374	NM_011404	ENSMUSG00000040010	Slc7a5	4F2LC|D0H16S474E|LAT1|TA1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 5	protein-coding	42.0	39.0	19.5	585.0	109.5	43.5	52.5	68.5
Merged-chr7-44869288-4	chr7	44869150	44869350	+	998.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133949, intron 1 of 11)	CpG	538.0	NM_133949	84113.0	Mm.42855	NM_133949	ENSMUSG00000038502	Ptov1	1110030G05Rik|AU041779|Gcap3	prostate tumor over expressed gene 1	protein-coding	17.0	30.0	21.0	319.0	37.5	14.0	21.0	25.5
Merged-chr13-95038445-4	chr13	95038356	95038556	+	988.2999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172263, intron 15 of 19)	L1MA4|LINE|L1	62112.0	NM_172590	218460.0	Mm.33856	NM_172590	ENSMUSG00000042015	Wdr41	B830029I03Rik|MSTP048	WD repeat domain 41	protein-coding	46.5	16.5	38.0	583.0	73.5	30.0	23.0	21.5
Merged-chr4-5644122-4	chr4	5644021	5644221	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173426)	promoter-TSS (NM_173426)	31.0	NM_173426	242297.0	Mm.331470	NM_173426	ENSMUSG00000049119	Fam110b	1700012H17Rik|5031405P22|AW049855	family with sequence similarity 110, member B	protein-coding	62.5	51.5	66.5	758.5	99.5	35.0	62.0	52.0
Merged-chr11-107441195-4	chr11	107441109	107441309	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153311, intron 1 of 9)	intron (NR_153311, intron 1 of 9)	29511.0	NR_153311	71795.0	Mm.397413	NM_145823	ENSMUSG00000040430	Pitpnc1	1110020B03Rik|5830436L09Rik|AI662802|AI851387|C330017I21Rik|Dnr411|RDGBB|RDGBB1|mrdgBbeta|rdgB-beta	phosphatidylinositol transfer protein, cytoplasmic 1	protein-coding	73.5	100.5	86.0	929.0	207.5	73.5	75.0	50.5
Merged-chr12-52283779-4	chr12	52283687	52283887	+	890.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029760, intron 7 of 10)	MTC|LTR|ERVL-MaLR	186041.0	NM_029760	76826.0	Mm.244781	NM_029760	ENSMUSG00000035142	Nubpl	2410170E07Rik	nucleotide binding protein-like	protein-coding	9.5	4.5	7.5	214.0	23.0	4.5	10.5	8.5
Merged-chr13-54621748-4	chr13	54621668	54621868	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_178397)	promoter-TSS (NM_178397)	-16.0	NM_178397	76577.0	Mm.194459	NM_178397	ENSMUSG00000025873	Faf2	2210404D11Rik|AI462440|Ubxd8|mKIAA0887	Fas associated factor family member 2	protein-coding	50.0	123.0	54.0	991.0	172.5	72.5	80.0	65.0
Merged-chr3-27234683-4	chr3	27234585	27234785	+	998.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178772, intron 3 of 4)	intron (NM_178772, intron 3 of 4)	51681.0	NM_178772	320024.0	Mm.24576	NM_178772	ENSMUSG00000027698	Nceh1	Aadacl1|B230106I24Rik|CPO-BP|Nceh	neutral cholesterol ester hydrolase 1	protein-coding	23.0	47.0	20.5	177.0	108.0	43.5	16.5	14.5
Merged-chr12-112800631-4	chr12	112800505	112800705	+	905.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8370.0	NM_145450	217887.0	Mm.186678	NM_145450	ENSMUSG00000037594	BC022687	AW050009|C130001I08Rik|Clba1|Flj20080	cDNA sequence BC022687	protein-coding	12.5	26.0	5.5	120.0	29.0	13.5	11.5	11.5
Merged-chr7-135773952-4	chr7	135773849	135774049	+	948.0166630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-57570.0	NM_001081117	17345.0	Mm.4078	NM_001081117	ENSMUSG00000031004	Mki67	D630048A14Rik|Ki-67|Ki67	antigen identified by monoclonal antibody Ki 67	protein-coding	13.5	32.0	20.5	319.0	47.0	20.5	11.5	14.5
Merged-chr7-24507526-4	chr7	24507442	24507642	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_110958, intron 1 of 2)	CpG	455.0	NR_110958	232969.0	Mm.181332	NM_146183	ENSMUSG00000064264	Zfp428	2410005H09Rik|AV271806|AW047854|Znf428	zinc finger protein 428	protein-coding	63.5	110.0	54.0	631.5	168.0	57.0	75.0	54.5
Merged-chr7-127777704-3	chr7	127777615	127777815	+	982.2777710000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178029, intron 1 of 18)	CpG	326.0	NM_178029	233904.0	Mm.435494	NM_010940	ENSMUSG00000042308	Setd1a	BC010250|KMT2F|Nsccn1|mKIAA0339|mNSC1	SET domain containing 1A	protein-coding	26.0	19.5	21.0	190.5	39.0	13.5	9.5	13.5
Merged-chr11-46448063-7	chr11	46447917	46448117	+	913.957153	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6914.0	NM_134250	171285.0	Mm.72168	NM_134250	ENSMUSG00000020399	Havcr2	TIM-3|Tim3|Timd3	hepatitis A virus cellular receptor 2	protein-coding	5.0	8.0	5.0	70.0	22.0	7.5	8.5	4.0
Merged-chr10-80963818-4	chr10	80963719	80963919	+	963.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038655, intron 2 of 3)	intron (NM_001038655, intron 2 of 3)	33728.0	NM_008655	17873.0	Mm.1360	NM_008655	ENSMUSG00000015312	Gadd45b	AI323528|Myd118	growth arrest and DNA-damage-inducible 45 beta	protein-coding	20.5	36.5	19.0	381.0	56.5	20.5	16.5	25.0
Merged-chr15-78582042-4	chr15	78581933	78582133	+	921.1875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_155437)	promoter-TSS (NR_155437)	-444.0	NR_155437	102640742.0	Mm.253544	NR_155437	ENSMUSG00000116097	Gm36738	-	predicted gene, 36738	ncRNA	11.5	11.0	7.5	127.0	38.0	9.0	8.5	15.5
Merged-chr8-113632822-4	chr8	113632728	113632928	+	911.2000119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2758.0	NM_001048143	270096.0	Mm.74689	NM_173015	ENSMUSG00000078908	Mon1b	5031407H10|5033413H12Rik	MON1 homolog B, secretory traffciking associated	protein-coding	6.0	14.0	11.5	256.5	58.0	12.5	11.0	23.5
Merged-chr9-110732797-4	chr9	110732666	110732866	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001083936, intron 1 of 13)	GC_rich|Low_complexity|Low_complexity	9844.0	NM_001083936	19228.0	Mm.3542	NM_011199	ENSMUSG00000032492	Pth1r	PPR|Pthr|Pthr1	parathyroid hormone 1 receptor	protein-coding	112.5	138.5	102.0	2116.5	241.5	92.5	141.5	117.5
Merged-chr1-13372758-5	chr1	13372656	13372856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001302702)	promoter-TSS (NM_001302702)	-327.0	NM_001302702	17978.0	Mm.2537	NM_008678	ENSMUSG00000005886	Ncoa2	D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75	nuclear receptor coactivator 2	protein-coding	104.0	186.0	220.5	1530.0	185.0	100.0	74.0	94.0
Merged-chr10-37280082-4	chr10	37279971	37280171	+	855.8875119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-141145.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	15.0	11.0	8.5	225.0	27.5	10.0	11.5	12.5
Merged-chr2-166688176-4	chr2	166688044	166688244	+	977.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177782, intron 1 of 39)	intron (NM_177782, intron 1 of 39)	25688.0	NM_177782	277360.0	Mm.34420	NM_177782	ENSMUSG00000039621	Prex1	G630042G04|P-REX1|Setd6	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	protein-coding	3.0	12.0	3.5	127.0	30.5	7.0	8.0	9.0
Merged-chr4-139615442-2	chr4	139615331	139615531	+	937.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_001205173, intron 8 of 8)	MTD|LTR|ERVL-MaLR	-7463.0	NM_175438	212647.0	Mm.273571	NM_175438	ENSMUSG00000028737	Aldh4a1	A930035F14Rik|Ahd-1|Ahd1|Aldh4|Aldh5a1|E330022C09|P5cd|P5cdh|P5cdhl|P5cdhs|Ssdh1	aldehyde dehydrogenase 4 family, member A1	protein-coding	3.0	12.0	3.5	20.0	34.5	6.0	22.0	25.5
Merged-chr17-80237057-4	chr17	80236959	80237159	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	12608.0	NM_001355458	67242.0	Mm.279985	NM_026053	ENSMUSG00000055760	Gemin6	2610019B15Rik|2810470M17Rik	gem nuclear organelle associated protein 6	protein-coding	26.0	39.5	26.0	915.5	84.5	29.5	49.0	56.5
Merged-chr3-119814941-4	chr3	119814845	119815045	+	823.6875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31557.0	NM_019550	56195.0	Mm.29966	NM_019550	ENSMUSG00000028134	Ptbp2	Ptb2|brPTB|nPTB	polypyrimidine tract binding protein 2	protein-coding	14.5	12.0	19.0	384.0	28.0	9.5	17.5	16.0
Merged-chr7-27232974-4	chr7	27232878	27233078	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133770)	promoter-TSS (NM_133770)	-35.0	NM_133770	76889.0	Mm.124728	NM_133770	ENSMUSG00000003762	Coq8b	0610012P18Rik|Adck4	coenzyme Q8B	protein-coding	188.0	296.5	117.5	2435.0	439.5	173.5	267.5	159.5
Merged-chr5-72552879-3	chr5	72552736	72552936	+	919.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153351, intron 3 of 21)	intron (NR_153351, intron 3 of 21)	6809.0	NM_001359837	100978.0	Mm.187453	NM_133921	ENSMUSG00000072889	Nfxl1	1700012H24Rik|AW538212|D430033A06Rik|DNABF|GCF|Gm1058|TCF9	nuclear transcription factor, X-box binding-like 1	protein-coding	7.0	7.5	10.5	138.0	9.5	6.0	4.0	3.5
Merged-chr9-35114723-4	chr9	35114632	35114832	+	967.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009178, intron 1 of 10)	intron (NM_009178, intron 1 of 10)	-1996.0	NR_029475	78934.0	Mm.391688	NR_029475	ENSMUSG00000070315	4930581F22Rik	-	RIKEN cDNA 4930581F22 gene	ncRNA	14.5	23.0	30.5	204.0	34.0	19.0	20.0	13.0
Merged-chr2-180967187-4	chr2	180967105	180967305	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001177708)	promoter-TSS (NM_001177708)	-20.0	NM_145760	228998.0	Mm.33765	NM_145760	ENSMUSG00000027575	Arfgap1	AI115377|Arf1gap	ADP-ribosylation factor GTPase activating protein 1	protein-coding	74.5	98.0	68.5	1019.5	156.0	63.0	80.5	82.5
Merged-chr2-35209538-5	chr2	35209534	35209734	+	952.849976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8514.0	NM_026697	68365.0	Mm.198264	NM_026697	ENSMUSG00000026878	Rab14	0610030G24Rik|2810475J17Rik|A830021G03Rik|AI314285|AI649155|D030017L14Rik	RAB14, member RAS oncogene family	protein-coding	16.5	16.5	16.5	69.5	16.0	13.5	6.5	13.0
Merged-chr10-94337764-1	chr10	94337664	94337864	+	843.6666869999999	f0_balb.idr	intron (NM_001359762, intron 1 of 4)	polypurine|Low_complexity|Low_complexity	25815.0	NM_001359762	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	13.0	15.5	12.0	133.0	13.5	7.5	11.0	10.0
Merged-chr10-30772459-1	chr10	30772359	30772559	+	608.0	f0_balb.idr	intron (NM_001358842, intron 1 of 14)	intron (NM_001358842, intron 1 of 14)	30867.0	NM_001358841	211329.0	Mm.297903	NM_172495	ENSMUSG00000039697	Ncoa7	9030406N13Rik	nuclear receptor coactivator 7	protein-coding	4.5	8.5	6.0	130.0	7.5	0.0	4.0	3.0
Merged-chr19-28664059-3	chr19	28663948	28664148	+	588.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175459, intron 2 of 10)	intron (NM_175459, intron 2 of 10)	-14176.0	NR_045330	320176.0	Mm.406716	NR_045330	ENSMUSG00000097735	D930032P07Rik	-	RIKEN cDNA D930032P07 gene	ncRNA	9.0	7.5	7.5	82.5	7.5	1.5	7.5	4.0
Merged-chr10-120812259-3	chr10	120812186	120812386	+	781.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177092, intron 5 of 6)	intron (NM_177092, intron 5 of 6)	-45343.0	NR_038023	100504616.0	Mm.451174	NR_038023	ENSMUSG00000087480	Gm15910	-	predicted gene 15910	ncRNA	5.5	20.0	5.0	99.5	6.5	9.0	5.5	1.0
Merged-chr17-28328358-7	chr17	28328266	28328466	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011287)	promoter-TSS (NM_011287)	-105.0	NM_011287	19896.0	Mm.336955	NM_011287	ENSMUSG00000037805	Rpl10a	CsA-19|Nedd6	ribosomal protein L10A	protein-coding	48.5	95.5	78.0	703.5	131.5	56.0	54.5	62.5
Merged-chr15-89400849-3	chr15	89400733	89400933	+	887.288879	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162880, intron 1 of 2)	MTE-int|LTR|ERVL-MaLR	9430.0	NM_001162882	75459.0	Mm.45462	NM_001162880	ENSMUSG00000078938	Syce3	1700007E06Rik|TSEG-2|TSEG2	synaptonemal complex central element protein 3	protein-coding	9.0	7.5	11.0	169.0	19.5	7.0	12.5	9.0
Merged-chr9-63614767-4	chr9	63614647	63614847	+	922.9833369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151671, intron 1 of 9)	intron (NR_151671, intron 1 of 9)	12101.0	NR_151671	66939.0	Mm.34338	NM_025857	ENSMUSG00000037257	Aagab	2310007F21Rik|p34	alpha- and gamma-adaptin binding protein	protein-coding	22.0	21.5	7.0	251.5	21.0	14.0	17.0	21.5
Merged-chr8-4214551-4	chr8	4214439	4214639	+	980.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_207203, exon 6 of 7)	exon (NM_207203, exon 6 of 7)	2773.0	NM_207203	73072.0	Mm.477379	NM_207203	ENSMUSG00000064125	Prr36	-	proline rich 36	protein-coding	26.0	20.0	36.0	358.5	43.0	14.5	24.5	21.0
Merged-chr1-130428866-4	chr1	130428744	130428944	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151525, intron 2 of 3)	intron (NR_151525, intron 2 of 3)	-5801.0	NM_001317361	13137.0	Mm.436759	NM_007827	ENSMUSG00000026401	Cd55b	AI323748|Daf|Daf-TM|Daf2|TM-DAF	CD55 molecule, decay accelerating factor for complement B	protein-coding	78.5	99.0	46.5	332.0	214.0	75.0	69.0	69.0
Merged-chr6-8412978-4	chr6	8412870	8413070	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001302353, intron 4 of 4)	intron (NM_001302353, intron 4 of 4)	96191.0	NR_040452	320312.0	Mm.374890	NR_040452	ENSMUSG00000087305	A430035B10Rik	2810488G03Rik	RIKEN cDNA A430035B10 gene	ncRNA	83.5	123.0	90.0	2163.5	127.5	32.5	62.0	45.5
Merged-chr5-34370539-4	chr5	34370429	34370629	+	923.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243123, intron 1 of 20)	CpG	596.0	NM_001243123	231128.0	Mm.286885	NM_001030306	ENSMUSG00000037210	Fam193a	-	family with sequence similarity 193, member A	protein-coding	8.5	6.5	7.0	77.0	23.0	8.5	3.5	7.5
Merged-chr10-18048427-4	chr10	18048328	18048528	+	930.041626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR16A|LTR|ERVL	-7512.0	NM_009048	19707.0	Mm.4479	NM_009048	ENSMUSG00000019854	Reps1	BB161292	RalBP1 associated Eps domain containing protein	protein-coding	27.5	51.5	28.5	557.5	28.5	7.5	26.5	19.5
Merged-chr5-116012714-3	chr5	116012616	116012816	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_031869)	TTS (NM_031869)	11712.0	NM_031869	19079.0	Mm.458152	NM_031869	ENSMUSG00000029513	Prkab1	1300015D22Rik|AU021155|E430008F22	protein kinase, AMP-activated, beta 1 non-catalytic subunit	protein-coding	22.0	29.0	34.0	510.5	11.0	3.5	10.5	15.0
Merged-chr15-84232210-7	chr15	84232056	84232256	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_133167, exon 1 of 13)	exon (NM_133167, exon 1 of 13)	113.0	NM_133167	170736.0	Mm.323892	NM_133167	ENSMUSG00000022438	Parvb	AI595373|AW742462|D15Gsk1|affixin	parvin, beta	protein-coding	13.0	25.0	40.0	110.5	51.5	18.5	27.5	29.5
Merged-chr5-32136535-4	chr5	32136457	32136657	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008037)	promoter-TSS (NM_008037)	85.0	NM_008037	14284.0	Mm.24684	NM_008037	ENSMUSG00000029135	Fosl2	Fra-2	fos-like antigen 2	protein-coding	32.5	60.5	40.0	401.5	116.0	48.0	64.5	67.0
Merged-chr9-100546128-5	chr9	100545995	100546195	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010878)	promoter-TSS (NM_010878)	39.0	NM_010878	17973.0	Mm.181485	NM_010878	ENSMUSG00000032475	Nck1	6330586M15Rik|D230010O13Rik|Nck|Nck-1	non-catalytic region of tyrosine kinase adaptor protein 1	protein-coding	134.0	203.5	236.0	2299.0	410.0	167.5	173.5	190.0
Merged-chr16-30065745-2	chr16	30065645	30065845	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_008235, intron 1 of 3)	intron (NM_008235, intron 1 of 3)	388.0	NM_008235	15205.0	Mm.390859	NM_008235	ENSMUSG00000022528	Hes1	Hry|bHLHb39	hes family bHLH transcription factor 1	protein-coding	5.5	17.5	8.5	102.0	29.0	4.5	11.0	14.5
Merged-chr3-152427871-4	chr3	152427751	152427951	+	889.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001287139, exon 4 of 14)	exon (NM_001287139, exon 4 of 14)	31167.0	NM_001287139	108946.0	Mm.379292	NM_198416	ENSMUSG00000039068	Zzz3	3110065C23Rik|6430567E01Rik|AA408566|AI481057|AW556059|R75514	zinc finger, ZZ domain containing 3	protein-coding	5.5	12.0	8.5	332.5	32.5	7.0	12.5	6.0
Merged-chr15-67235238-3	chr15	67235162	67235362	+	887.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045140, intron 1 of 8)	ORR1E|LTR|ERVL-MaLR	8493.0	NR_045140	69334.0	Mm.63770	NR_045140	ENSMUSG00000102069	1700012I11Rik	-	RIKEN cDNA 1700012I11 gene	ncRNA	6.5	10.0	7.0	188.5	10.5	2.0	4.0	8.0
Merged-chr7-140959349-3	chr7	140959252	140959452	+	794.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3391.0	NM_030694	80876.0	Mm.379266	NM_030694	ENSMUSG00000060591	Ifitm2	DSPA2c|Ifitm3l|fragilis3|mil-3	interferon induced transmembrane protein 2	protein-coding	9.0	8.0	5.0	99.5	16.5	11.0	6.5	9.0
Merged-chr3-123236128-2	chr3	123236033	123236233	+	698.0	f0_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_080451)	promoter-TSS (NM_080451)	16.0	NM_080451	118449.0	Mm.34359	NM_080451	ENSMUSG00000050315	Synpo2	1110069I04Rik|2310068J10Rik|9530006G20Rik|AI848603|Myo	synaptopodin 2	protein-coding	4.5	6.5	11.5	110.0	5.5	0.5	1.5	4.0
Merged-chr3-94476535-3	chr3	94476438	94476638	+	762.755554	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1757.0	NM_001289616	78784.0	Mm.44292	NM_172434	ENSMUSG00000028137	Celf3	4930415M08Rik|BRUNOL1|CAGH4|ERDA4|ETR-1|Tnrc4	CUGBP, Elav-like family member 3	protein-coding	12.5	20.5	7.5	179.0	19.5	6.5	6.0	6.0
Merged-chr2-181931238-4	chr2	181931126	181931326	+	739.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-60000.0	NM_001205282	672125.0	Mm.489571	NM_001205282	ENSMUSG00000098505	Gm14496	-	predicted gene 14496	protein-coding	25.0	17.5	32.0	262.5	22.0	14.0	19.0	31.5
Merged-chr2-167892119-4	chr2	167892013	167892213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-40214.0	NM_011201	19246.0	Mm.277916	NM_011201	ENSMUSG00000027540	Ptpn1	PTP-1B|PTP-HA2|PTP1B	protein tyrosine phosphatase, non-receptor type 1	protein-coding	32.5	29.0	29.5	478.5	83.5	26.0	36.5	29.5
Merged-chr17-45620028-4	chr17	45619928	45620128	+	820.18335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17926.0	NM_001177469	653016.0	Mm.45676	NM_001177468	ENSMUSG00000079471	Mymx	EG653016|Esgp|Gm7325|minion|myomerger	myomixer, myoblast fusion factor	protein-coding	27.5	17.5	19.5	190.0	25.5	13.0	12.5	11.0
Merged-chr11-53933505-4	chr11	53933409	53933609	+	877.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-41806.0	NM_011396	20520.0	Mm.42253	NM_011396	ENSMUSG00000018900	Slc22a5	Lstpl|Octn2|jvs	solute carrier family 22 (organic cation transporter), member 5	protein-coding	14.0	14.5	3.0	178.5	21.0	12.0	8.5	13.0
Merged-chr2-155367823-4	chr2	155367754	155367954	+	973.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-10430.0	NM_001004721	228812.0	Mm.5434	NM_001004721	ENSMUSG00000038383	Pigu	5430426F17Rik|BC028278|Cdc91l1	phosphatidylinositol glycan anchor biosynthesis, class U	protein-coding	10.0	27.0	10.5	166.5	124.5	56.0	94.5	78.5
Merged-chr16-31290464-4	chr16	31290358	31290558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR3|SINE|MIR	-15181.0	NM_025800	66849.0	Mm.291593	NM_025800	ENSMUSG00000047714	Ppp1r2	0610025N14Rik|2310007G06Rik|4930440J04Rik|5430408E15Rik|D16Ertd248e|I-2|IPP-2	protein phosphatase 1, regulatory (inhibitor) subunit 2	protein-coding	73.0	80.5	44.0	750.0	176.0	61.5	66.5	75.0
Merged-chr4-141016603-4	chr4	141016502	141016702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008546)	TTS (NM_008546)	5965.0	NM_008546	17150.0	Mm.7386	NM_008546	ENSMUSG00000060572	Mfap2	AI893631|Magp|Magp1	microfibrillar-associated protein 2	protein-coding	46.5	56.0	53.0	677.5	50.0	33.0	20.0	39.0
Merged-chr11-121735205-4	chr11	121735101	121735301	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	32774.0	NM_144797	210029.0	Mm.153566	NM_144797	ENSMUSG00000039208	Metrnl	9430048M07Rik|BC019776	meteorin, glial cell differentiation regulator-like	protein-coding	26.0	36.0	18.0	261.0	61.5	18.5	26.5	24.5
Merged-chr10-60341354-4	chr10	60341289	60341489	+	842.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252635, intron 37 of 68)	MTEb|LTR|ERVL-MaLR	-5462.0	NM_001159572	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	9.0	17.0	10.0	121.0	22.0	12.0	11.0	16.5
Merged-chr15-98089967-4	chr15	98089875	98090075	+	921.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144851, intron 1 of 17)	B2_Mm2|SINE|B2	-2614.0	NM_001163488	18642.0	Mm.272582	NM_021514	ENSMUSG00000033065	Pfkm	AI131669|ATP-PFK|PFK-A|PFK-M|Pfk-4|Pfk4|Pfka|Pfkx	phosphofructokinase, muscle	protein-coding	16.0	18.5	2.5	39.5	33.0	21.0	9.0	14.0
Merged-chr11-33163170-4	chr11	33163022	33163222	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001252261)	promoter-TSS (NM_001252261)	84.0	NM_001252261	18148.0	Mm.485384	NM_008722	ENSMUSG00000057113	Npm1	B23|NO38|Npm	nucleophosmin 1	protein-coding	142.5	244.0	95.0	1372.0	309.0	118.5	175.0	121.0
Merged-chr5-76142055-4	chr5	76141952	76142152	+	993.958374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_020611, intron 1 of 5)	intron (NM_020611, intron 1 of 5)	1779.0	NM_020611	57357.0	Mm.289446	NM_020611	ENSMUSG00000029233	Srd5a3	1110025P14Rik|A430076C09|AV364670|AW987574|D730040M03Rik|H5ar|S5AR 3|Srd5a2l	steroid 5 alpha-reductase 3	protein-coding	13.5	28.5	18.5	353.5	78.0	24.5	28.5	17.0
Merged-chr11-4989328-3	chr11	4989211	4989411	+	968.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001243044, intron 1 of 21)	intron (NM_001243044, intron 1 of 21)	2487.0	NM_001355660	11764.0	Mm.274816	NM_007454	ENSMUSG00000009090	Ap1b1	Adtb1|b2b1660Clo	adaptor protein complex AP-1, beta 1 subunit	protein-coding	14.0	12.0	8.5	273.5	17.0	1.5	7.0	5.0
Merged-chr5-148509402-4	chr5	148509322	148509522	+	943.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359199, intron 4 of 6)	intron (NM_001359199, intron 4 of 6)	42251.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	26.5	26.5	31.0	378.0	30.0	8.5	22.5	12.5
Merged-chr10-63377645-4	chr10	63377520	63377720	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B2_Mm1t|SINE|B2	-4823.0	NM_001253685	30045.0	Mm.32550	NM_013888	ENSMUSG00000036764	Dnajc12	Jdp1|mJDP1	DnaJ heat shock protein family (Hsp40) member C12	protein-coding	34.5	53.5	25.0	370.0	75.5	30.5	37.0	24.5
Merged-chr8-116314824-4	chr8	116314704	116314904	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-190211.0	NM_029297	75465.0	Mm.23114	NM_029297	ENSMUSG00000034467	Dynlrb2	1700009A04Rik|DNLC2B|Dncl2b	dynein light chain roadblock-type 2	protein-coding	36.0	45.5	58.5	569.5	107.0	41.0	35.0	32.5
Merged-chr5-31767370-3	chr5	31767266	31767466	+	993.6666869999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144541, intron 3 of 11)	MTD|LTR|ERVL-MaLR	69316.0	NM_144541	107976.0	Mm.482126	NM_144541	ENSMUSG00000052139	Babam2	6030405P19Rik|AI429776|B830038C02Rik|Bre	BRISC and BRCA1 A complex member 2	protein-coding	19.5	12.0	12.5	139.5	50.5	22.0	17.0	18.0
Merged-chr9-41121203-4	chr9	41121091	41121291	+	805.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_176860, intron 1 of 13)	intron (NM_176860, intron 1 of 13)	36871.0	NM_176860	72828.0	Mm.133615	NM_176860	ENSMUSG00000032020	Ubash3b	2810457I06Rik|BB125008|STS-1|TULA-2|p70	ubiquitin associated and SH3 domain containing, B	protein-coding	10.0	13.5	11.0	159.0	25.5	10.5	6.5	9.5
Merged-chr4-58566908-4	chr4	58566794	58566994	+	917.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13403.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	16.0	4.5	6.5	168.5	37.5	8.5	13.0	12.5
Merged-chr1-64956746-4	chr1	64956619	64956819	+	970.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001039493, exon 1 of 8)	5' UTR (NM_001039493, exon 1 of 8)	105.0	NM_001039493	241075.0	Mm.239534	NM_175509	ENSMUSG00000051344	Plekhm3	9430067K14Rik|A230102O09Rik|AI449570|DAPR|Plekhm1l	pleckstrin homology domain containing, family M, member 3	protein-coding	10.5	19.5	14.5	180.0	40.5	16.5	14.5	16.5
Merged-chr12-55465738-4	chr12	55465639	55465839	+	935.541626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	26908.0	NM_010907	18035.0	Mm.170515	NM_010907	ENSMUSG00000021025	Nfkbia	AI462015|Nfkbi	nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, alpha	protein-coding	13.5	19.0	16.0	195.0	42.0	11.0	7.5	16.5
Merged-chr11-98809695-4	chr11	98809588	98809788	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_138660)	promoter-TSS (NM_138660)	-120.0	NM_138660	192160.0	Mm.40120	NM_138660	ENSMUSG00000078676	Casc3	Btz|Mln51	cancer susceptibility candidate 3	protein-coding	182.5	383.5	186.5	2036.0	532.5	217.0	197.0	164.0
Merged-chr5-121713399-2	chr5	121713299	121713499	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_009125, intron 1 of 24)	intron (NM_009125, intron 1 of 24)	1790.0	NM_009125	20239.0	Mm.260900	NM_009125	ENSMUSG00000042605	Atxn2	9630045M23Rik|ATX2|AW544490|Sca2	ataxin 2	protein-coding	8.5	5.5	13.5	53.5	6.5	6.5	4.5	11.5
Merged-chr5-99411082-2	chr5	99410982	99411182	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NR_030692, intron 2 of 3)	L1_Mur3|LINE|L1	-158155.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	4.0	4.0	8.0	69.5	24.0	7.0	7.5	4.5
Merged-chr11-117655114-1	chr11	117655014	117655214	+	711.0	f0_balb.idr	intron (NM_198022, intron 1 of 21)	CpG	825.0	NM_198022	217351.0	Mm.40272	NM_198022	ENSMUSG00000025571	Tnrc6c	9930033H14Rik|mKIAA1582	trinucleotide repeat containing 6C	protein-coding	12.5	12.0	21.0	67.0	26.0	12.5	10.5	4.5
Merged-chr6-29985237-4	chr6	29985138	29985338	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_040263)	promoter-TSS (NR_040263)	-91.0	NR_040264	76419.0	Mm.84522	NR_040263	ENSMUSG00000045709	Smkr-ps	1700023L04Rik	smal lysine rich protein 1, pseudogene	ncRNA	216.5	352.0	198.0	3153.0	421.5	158.5	198.0	157.0
Merged-chr13-5861269-4	chr13	5861196	5861396	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011803)	promoter-TSS (NM_011803)	-193.0	NM_011803	23849.0	Mm.275036	NM_011803	ENSMUSG00000000078	Klf6	AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9	Kruppel-like factor 6	protein-coding	412.5	664.5	366.5	5618.5	999.5	421.0	431.0	338.0
Merged-chr13-113580079-4	chr13	113579982	113580182	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	38482.0	NM_130796	170625.0	Mm.33721	NM_130796	ENSMUSG00000042364	Snx18	Snag1	sorting nexin 18	protein-coding	25.0	46.0	35.5	705.5	131.5	24.0	38.5	42.0
Merged-chr10-57745631-4	chr10	57745549	57745749	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-39274.0	NM_021272	12140.0	Mm.3644	NM_021272	ENSMUSG00000019874	Fabp7	B-FABP|BFABP|Blbp|MRG	fatty acid binding protein 7, brain	protein-coding	56.5	87.5	70.0	1134.0	121.0	41.0	66.0	56.5
Merged-chr2-32537768-4	chr2	32537660	32537860	+	927.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153560, intron 1 of 10)	MIRb|SINE|MIR	2401.0	NM_153560	98952.0	Mm.4065	NM_153560	ENSMUSG00000039157	Fam102a	AI426465|C230093N12Rik|Eeig1	family with sequence similarity 102, member A	protein-coding	13.5	16.5	11.5	303.0	36.0	6.0	12.0	22.5
Merged-chr11-114683949-4	chr11	114683860	114684060	+	998.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_053273, intron 1 of 13)	ORR1B2|LTR|ERVL-MaLR	8492.0	NM_053273	117160.0	Mm.271934	NM_053273	ENSMUSG00000034714	Ttyh2	1110001A03Rik	tweety family member 2	protein-coding	36.5	59.5	18.0	309.0	149.0	42.5	43.0	40.0
Merged-chr4-36020212-2	chr4	36020112	36020312	+	819.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001166000, intron 7 of 8)	L1Md_F|LINE|L1	-175008.0	NM_175516	242384.0	Mm.132507	NM_175516	ENSMUSG00000045083	Lingo2	B230217C06Rik|Lern3|Lrrn6c	leucine rich repeat and Ig domain containing 2	protein-coding	6.5	12.0	1.0	15.0	14.0	8.0	5.5	5.5
Merged-chr10-94578157-4	chr10	94578030	94578230	+	979.0499880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177026, intron 1 of 3)	intron (NM_177026, intron 1 of 3)	1867.0	NM_177026	319880.0	Mm.23047	NM_172051	ENSMUSG00000020023	Tmcc3	A230066D03Rik|AW488095|C630016B22Rik|C88213|Gm1556|Tmcc1	transmembrane and coiled coil domains 3	protein-coding	72.5	86.5	72.5	886.0	64.5	39.0	25.0	15.0
Merged-chr14-70791612-1	chr14	70791512	70791712	+	617.0	f0_c57.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	17231.0	NM_010071	13449.0	Mm.243323	NM_010071	ENSMUSG00000022102	Dok2	DokR|Frip|dok-R	docking protein 2	protein-coding	1.0	0.0	0.0	0.0	24.0	10.5	17.0	27.0
Merged-chr1-172513123-4	chr1	172513010	172513210	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8020.0	NM_027972	71870.0	Mm.78373	NM_027972	ENSMUSG00000026546	Cfap45	1700028D05Rik|Ccdc19|Nesg1	cilia and flagella associated protein 45	protein-coding	33.0	33.5	42.5	629.0	180.5	68.5	98.5	45.0
Merged-chr13-54503748-4	chr13	54503624	54503824	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_176987)	promoter-TSS (NM_176987)	-81.0	NM_176987	319719.0	Mm.376151	NM_176987	ENSMUSG00000043183	Simc1	4732471D19Rik	SUMO-interacting motifs containing 1	protein-coding	30.0	65.0	51.5	619.0	130.0	44.0	58.0	54.0
Merged-chr8-119575194-4	chr8	119575102	119575302	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026648)	promoter-TSS (NM_026648)	-2.0	NM_175185	72552.0	Mm.36756	NM_175185	ENSMUSG00000034189	Hsdl1	2700067E09Rik	hydroxysteroid dehydrogenase like 1	protein-coding	68.0	123.0	66.0	984.5	192.0	85.5	68.0	71.5
Merged-chr11-110420717-4	chr11	110420612	110420812	+	956.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356352, intron 1 of 11)	intron (NM_001356352, intron 1 of 11)	21610.0	NM_001356353	26399.0	Mm.14487	NM_011943	ENSMUSG00000020623	Map2k6	MAPKK 6|MAPKK6|MEK6|MKK6|Prkmk6|SAPKK3	mitogen-activated protein kinase kinase 6	protein-coding	13.5	16.5	11.5	170.5	34.5	7.0	18.5	9.0
Merged-chr16-14439289-3	chr16	14439201	14439401	+	766.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008576, intron 14 of 30)	intron (NM_008576, intron 14 of 30)	77743.0	NM_008576	17250.0	Mm.196634	NM_008576	ENSMUSG00000023088	Abcc1	Abcc1a|Abcc1b|MRP|Mdrap|Mrp1	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	protein-coding	8.5	6.5	7.0	185.5	6.5	4.5	2.5	8.5
Merged-chr14-63104219-4	chr14	63104100	63104300	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-18262.0	NM_007798	13030.0	Mm.236553	NM_007798	ENSMUSG00000021939	Ctsb	CB	cathepsin B	protein-coding	76.0	83.0	86.5	1401.5	214.5	47.5	67.0	85.5
Merged-chr10-56115315-4	chr10	56115177	56115377	+	988.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001163833, exon 2 of 2)	exon (NM_001163833, exon 2 of 2)	8360.0	NM_001163833	73390.0	Mm.181475	NM_133751	ENSMUSG00000047669	Msl3l2	1700060H10Rik	MSL3 like 2	protein-coding	16.5	22.0	13.5	223.5	35.0	14.5	20.5	30.5
Merged-chr7-126230556-3	chr7	126230458	126230658	+	838.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_131046, intron 2 of 4)	RMER1C|Other|Other	7046.0	NR_131047	76728.0	Mm.76920	NR_131046	ENSMUSG00000108676	1700123J17Rik	Gm44875	RIKEN cDNA 1700123J17 gene	ncRNA	6.0	8.0	3.5	87.5	7.5	4.5	9.5	9.5
Merged-chr9-96631565-4	chr9	96631458	96631658	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_053268)	promoter-TSS (NM_053268)	-55.0	NM_053268	114713.0	Mm.124502	NM_053268	ENSMUSG00000032413	Rasa2	5430433H21Rik|AA517451|AU023900|GAP1m	RAS p21 protein activator 2	protein-coding	73.5	123.5	85.5	1265.5	239.0	80.5	131.5	85.0
Merged-chr2-29623533-6	chr2	29623474	29623674	+	991.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_054050, intron 1 of 23)	intron (NM_054050, intron 1 of 23)	3854.0	NM_001039086	107746.0	Mm.298274	NM_054050	ENSMUSG00000039844	Rapgef1	4932418O06Rik|C3G|Grf2	Rap guanine nucleotide exchange factor (GEF) 1	protein-coding	13.0	19.5	21.5	93.5	19.5	8.5	2.5	13.0
Merged-chr6-72261472-4	chr6	72261374	72261574	+	964.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25897.0	NM_153778	71093.0	Mm.87449	NM_153778	ENSMUSG00000037621	Atoh8	4933425C05Rik|Hath6|Math6|bHLHa21|okadin	atonal bHLH transcription factor 8	protein-coding	13.5	37.5	18.0	184.5	59.5	15.0	21.5	24.0
Merged-chr15-51920605-4	chr15	51920497	51920697	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	43156.0	NM_030132	78581.0	Mm.176347	NM_030132	ENSMUSG00000022313	Utp23	1700010I21Rik|AI662478|BB238373|D530033C11Rik	UTP23 small subunit processome component	protein-coding	45.5	80.5	55.0	971.5	139.0	35.0	52.5	38.0
Merged-chr2-163929049-4	chr2	163928964	163929164	+	920.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx9|LINE|L1	-10381.0	NM_183023	241770.0	Mm.330760	NM_183023	ENSMUSG00000035226	Rims4	6530406L02|Rim4	regulating synaptic membrane exocytosis 4	protein-coding	24.5	22.0	26.5	258.5	20.0	8.0	6.5	11.5
Merged-chr11-95859254-3	chr11	95859174	95859374	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_045187, intron 1 of 1)	CpG	457.0	NR_045187	73906.0	Mm.399894	NR_045187	ENSMUSG00000086015	4833417C18Rik	-	RIKEN cDNA 4833417C18 gene	ncRNA	34.0	51.0	24.5	233.5	98.0	43.5	34.5	41.5
Merged-chr10-39402749-4	chr10	39402633	39402833	+	835.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	MTC|LTR|ERVL-MaLR	32934.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	9.5	6.0	15.5	120.5	38.5	6.0	9.5	14.0
Merged-chr13-74292344-3	chr13	74292232	74292432	+	775.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009644)	promoter-TSS (NM_009644)	-1.0	NM_001317351	11624.0	Mm.290446	NM_009644	ENSMUSG00000021575	Ahrr	mKIAA1234	aryl-hydrocarbon receptor repressor	protein-coding	13.0	21.0	17.0	103.5	25.0	6.0	16.0	7.0
Merged-chr2-6557108-2	chr2	6557008	6557208	+	668.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001110231, intron 13 of 15)	intron (NM_001110231, intron 13 of 15)	164554.0	NM_001310447	14007.0	Mm.398543	NM_010160	ENSMUSG00000002107	Celf2	B230218O03|B230345P09Rik|C88023|CELF-2|CUG-BP2|Cugbp2|D230046B21Rik|Etr-3|Napor|Napor-2|mETR-3	CUGBP, Elav-like family member 2	protein-coding	8.0	4.5	7.0	276.5	11.5	1.0	0.5	5.0
Merged-chr1-82799160-4	chr1	82799067	82799267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER102a|DNA|hAT-Charlie	-30711.0	NM_025453	66261.0	Mm.46325	NM_025453	ENSMUSG00000026149	Tm4sf20	1810018L02Rik	transmembrane 4 L six family member 20	protein-coding	48.0	58.0	40.5	572.0	64.0	41.0	43.0	52.5
Merged-chr15-88178621-1	chr15	88178521	88178721	+	841.25	f0_balb.idr	Intergenic	Intergenic	-136253.0	NR_045281	328579.0	Mm.146839	NR_045281	ENSMUSG00000116331	B230214G05Rik	B230214G05	RIKEN cDNA B230214G05 gene	ncRNA	11.5	18.0	7.5	251.5	2.5	0.0	0.0	1.0
Merged-chr7-118283383-3	chr7	118283284	118283484	+	825.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M3|LINE|L1	39477.0	NR_027879	67745.0	Mm.483404	NM_183267	ENSMUSG00000055159	4930583K01Rik	-	RIKEN cDNA 4930583K01 gene	ncRNA	9.0	5.5	7.5	84.0	8.0	3.0	3.5	2.0
Merged-chr13-49189231-4	chr13	49189090	49189290	+	969.8541869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013610, intron 1 of 3)	intron (NM_013610, intron 1 of 3)	1643.0	NM_013610	18081.0	Mm.18503	NM_013610	ENSMUSG00000037966	Ninj1	AU024536	ninjurin 1	protein-coding	14.5	24.0	25.5	172.5	26.0	15.5	16.5	24.5
Merged-chr16-58507870-4	chr16	58507756	58507956	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357433, intron 1 of 10)	intron (NM_001357433, intron 1 of 10)	15570.0	NM_018784	54613.0	Mm.212742	NM_018784	ENSMUSG00000022747	St3gal6	1700023B24Rik|AI930218|AW552396|Siat10|St3galVI	ST3 beta-galactoside alpha-2,3-sialyltransferase 6	protein-coding	14.0	19.0	26.0	225.5	45.0	29.0	17.5	27.5
Merged-chr7-25755097-8	chr7	25755004	25755204	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001360789)	promoter-TSS (NM_001360789)	-345.0	NM_178089	232989.0	Mm.254223	NM_144922	ENSMUSG00000040725	Hnrnpul1	E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1	heterogeneous nuclear ribonucleoprotein U-like 1	protein-coding	111.0	157.0	136.5	1118.0	263.5	128.0	115.0	105.5
Merged-chr10-111503260-4	chr10	111503163	111503363	+	785.020813	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	2475.0	NR_033603	382421.0	Mm.245643	NR_033603	ENSMUSG00000111997	Gm5176	EG382421	high mobility group box 2 pseudogene	pseudo	9.5	15.0	7.0	101.5	26.5	12.0	4.0	14.0
Merged-chr16-16035731-3	chr16	16035679	16035879	+	916.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355731, intron 7 of 18)	Lx9|LINE|L1	111072.0	NM_001355731	224008.0	Mm.244703	NM_146068	ENSMUSG00000041974	Spidr	2310008H04Rik|Kiaa0146	scaffolding protein involved in DNA repair	protein-coding	5.0	0.0	2.0	124.5	6.5	7.5	5.5	5.5
Merged-chr17-67350598-4	chr17	67350459	67350659	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357625, intron 1 of 32)	intron (NM_001357625, intron 1 of 32)	3900.0	NM_008984	19274.0	Mm.311809	NM_008984	ENSMUSG00000033278	Ptprm	RPTPmu|mKIAA4044	protein tyrosine phosphatase, receptor type, M	protein-coding	145.5	244.5	166.5	2333.0	352.5	152.5	143.0	105.0
Merged-chr7-35163845-4	chr7	35163750	35163950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-22535.0	NM_017394	53896.0	Mm.35567	NM_017394	ENSMUSG00000030495	Slc7a10	AL024237|Asc-1|D7Bwg0847e	solute carrier family 7 (cationic amino acid transporter, y+ system), member 10	protein-coding	28.0	76.0	21.0	279.0	82.0	29.0	36.0	25.5
Merged-chr1-59895592-4	chr1	59895488	59895688	+	911.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17418.0	NM_001037725	72750.0	Mm.258250	NM_001037725	ENSMUSG00000041040	Fam117b	2810425F24Rik|6330416D14Rik|Als2cr13	family with sequence similarity 117, member B	protein-coding	21.5	18.0	29.0	228.5	33.0	8.0	8.5	16.0
Merged-chr5-62751880-1	chr5	62751780	62751980	+	557.0	f0_balb.idr	intron (NM_178407, intron 1 of 32)	intron (NM_178407, intron 1 of 32)	14297.0	NM_178407	212285.0	Mm.244403	NM_178407	ENSMUSG00000037999	Arap2	Centd1|Gm148|mKIAA0580	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	protein-coding	5.5	6.0	7.0	81.5	7.0	2.5	2.5	0.0
Merged-chr9-56076084-4	chr9	56075986	56076186	+	860.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13890.0	NM_011193	19200.0	Mm.2534	NM_011193	ENSMUSG00000032322	Pstpip1	CD2BP1|def-2	proline-serine-threonine phosphatase-interacting protein 1	protein-coding	10.5	18.0	17.0	232.5	36.5	7.5	18.5	31.5
Merged-chr15-98139903-2	chr15	98139803	98140003	+	712.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001170711, intron 3 of 3)	ORR1B1|LTR|ERVL-MaLR	5799.0	NM_030121	78541.0	Mm.200766	NM_030121	ENSMUSG00000048175	Asb8	4930539L19Rik|AI788835|C430011H06Rik	ankyrin repeat and SOCS box-containing 8	protein-coding	4.0	3.5	2.0	23.5	10.0	4.5	7.0	5.5
Merged-chr4-123283124-3	chr4	123283047	123283247	+	851.1555789999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356377, exon 1 of 14)	5' UTR (NM_001356377, exon 1 of 14)	236.0	NM_130881	230721.0	Mm.277091	NM_130881	ENSMUSG00000011257	Pabpc4	-	poly(A) binding protein, cytoplasmic 4	protein-coding	5.0	10.0	5.5	60.5	40.5	15.0	15.5	12.0
Merged-chr1-84924287-4	chr1	84924195	84924395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027921, intron 2 of 4)	intron (NM_027921, intron 2 of 4)	10788.0	NM_027921	71781.0	Mm.158754	NM_027921	ENSMUSG00000026220	Slc16a14	1110004H10Rik	solute carrier family 16 (monocarboxylic acid transporters), member 14	protein-coding	60.0	86.5	63.5	1187.0	95.5	46.5	67.0	48.0
Merged-chr4-132075426-4	chr4	132075328	132075528	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128607)	promoter-TSS (NM_001128607)	-115.0	NM_001128607	269587.0	Mm.30038	NM_183428	ENSMUSG00000028906	Epb41	4.1R|AI415518|D4Ertd442e|Elp-1|Elp1|Epb4.1|mKIAA4056	erythrocyte membrane protein band 4.1	protein-coding	112.5	143.0	93.5	1777.5	336.5	93.5	144.0	121.5
Merged-chr4-150473036-4	chr4	150472960	150473160	+	947.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 6 of 22)	intron (NM_001085492, intron 6 of 22)	179114.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	44.5	28.0	23.5	555.5	41.5	9.0	18.5	17.0
Merged-chr2-102002600-3	chr2	102002510	102002710	+	654.888916	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178886, intron 4 of 5)	intron (NM_178886, intron 4 of 5)	116348.0	NM_029635	76501.0	Mm.330424	NM_029635	ENSMUSG00000027163	Commd9	1810029F08Rik|AA409293	COMM domain containing 9	protein-coding	0.0	2.0	0.0	14.0	23.5	6.0	9.0	7.5
Merged-chr13-37718531-4	chr13	37718415	37718615	+	981.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1B2|LTR|ERVL-MaLR	-107523.0	NM_026830	68750.0	Mm.491109	NM_026830	ENSMUSG00000039087	Rreb1	1110037N09Rik|AA414966|B930013M22Rik	ras responsive element binding protein 1	protein-coding	25.0	41.5	19.5	276.5	50.0	11.5	19.0	31.0
Merged-chr4-123353675-2	chr4	123353575	123353775	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001199137, intron 91 of 92)	intron (NM_001199137, intron 91 of 92)	-10423.0	NM_007558	12163.0	Mm.439749	NM_007558	ENSMUSG00000032726	Bmp8a	Bmp7r1|OP-2|OP2	bone morphogenetic protein 8a	protein-coding	6.5	7.5	1.0	194.5	10.0	6.5	12.0	7.5
Merged-chr18-16686808-2	chr18	16686708	16686908	+	932.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_007664, intron 2 of 15)	ORR1F|LTR|ERVL-MaLR	122438.0	NM_007664	12558.0	Mm.257437	NM_007664	ENSMUSG00000024304	Cdh2	CDHN|N-CAD|Ncad	cadherin 2	protein-coding	1.0	10.0	1.5	56.0	10.0	4.5	5.5	7.0
Merged-chr11-103146592-4	chr11	103146512	103146712	+	927.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	13253.0	NM_027658	71059.0	Mm.273871	NM_027658	ENSMUSG00000043372	Hexim2	4933402L21Rik	hexamethylene bis-acetamide inducible 2	protein-coding	21.0	43.0	10.0	73.5	25.0	8.0	4.5	12.5
Merged-chr4-109337001-1	chr4	109336901	109337101	+	804.5	f0_balb.idr	intron (NM_007943, intron 12 of 24)	intron (NM_007943, intron 12 of 24)	-6055.0	NM_001159964	13858.0	Mm.318250	NM_007943	ENSMUSG00000028552	Eps15	2410112D09Rik	epidermal growth factor receptor pathway substrate 15	protein-coding	8.0	8.0	11.0	182.5	4.0	0.5	1.5	0.0
Merged-chr9-95659591-2	chr9	95659491	95659691	+	643.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_029620, intron 2 of 8)	L1MB7|LINE|L1	21963.0	NM_029620	76477.0	Mm.46016	NM_029620	ENSMUSG00000015354	Pcolce2	2400001O18Rik|Pcpe2	procollagen C-endopeptidase enhancer 2	protein-coding	9.0	4.5	6.0	42.5	2.5	5.5	1.5	7.5
Merged-chr17-46773575-2	chr17	46773475	46773675	+	707.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_025966)	TTS (NM_025966)	940.0	NM_025966	67101.0	Mm.358702	NM_025966	ENSMUSG00000062619	2310039H08Rik	-	RIKEN cDNA 2310039H08 gene	protein-coding	2.0	4.0	2.0	40.0	17.5	5.5	6.0	6.5
Merged-chr10-53928104-4	chr10	53928018	53928218	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008548, intron 8 of 12)	intron (NM_008548, intron 8 of 12)	147678.0	NM_008548	17155.0	Mm.117294	NM_008548	ENSMUSG00000003746	Man1a	Man1a1|PCR1	mannosidase 1, alpha	protein-coding	113.0	139.0	126.0	2503.5	104.5	76.0	94.0	111.0
Merged-chr10-81429765-4	chr10	81429659	81429859	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ZP3AR|Satellite|Satellite	-2586.0	NM_026756	18029.0	Mm.426936	NM_008688	ENSMUSG00000055053	Nfic	1110019L22Rik|1500041O16Rik|AA589446|AI746521|NF1-C	nuclear factor I/C	protein-coding	75.5	116.0	50.0	1085.5	169.5	69.0	77.0	68.0
Merged-chr10-57835635-2	chr10	57835535	57835735	+	979.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	MER21C|LTR|ERVL	41091.0	NM_020561	57319.0	Mm.2379	NM_020561	ENSMUSG00000019872	Smpdl3a	0610010C24Rik|AI529588|ASM3A|ASML3|ASML3A	sphingomyelin phosphodiesterase, acid-like 3A	protein-coding	4.5	9.0	11.5	127.5	4.0	1.0	5.0	11.5
Merged-chr3-101616015-3	chr3	101615903	101616103	+	684.666687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11296.0	NM_144900	11928.0	Mm.193670	NM_144900	ENSMUSG00000033161	Atp1a1	Atpa-1|BC010319	ATPase, Na+/K+ transporting, alpha 1 polypeptide	protein-coding	10.5	1.5	5.5	54.5	19.5	5.5	13.5	10.0
Merged-chr17-56256680-4	chr17	56256572	56256772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010192)	promoter-TSS (NM_010192)	-121.0	NM_010192	14154.0	Mm.290813	NM_010192	ENSMUSG00000043683	Fem1a	AW611390|Fem1aa	feminization 1 homolog a (C. elegans)	protein-coding	269.0	410.5	173.0	3533.0	592.5	214.0	267.5	237.5
Merged-chr15-5446582-4	chr15	5446483	5446683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-49735.0	NR_045274	71432.0	Mm.291087	NR_045274	ENSMUSG00000110018	5430437J10Rik	-	RIKEN cDNA 5430437J10 gene	ncRNA	116.5	166.0	73.5	1622.0	222.5	64.5	76.0	95.5
Merged-chr12-100501439-4	chr12	100501342	100501542	+	897.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033213, intron 1 of 19)	intron (NM_001033213, intron 1 of 19)	19380.0	NM_001033213	104718.0	Mm.295441	NM_001033213	ENSMUSG00000033530	Ttc7b	AA408451|Ttc7l1	tetratricopeptide repeat domain 7B	protein-coding	18.0	15.5	22.0	334.0	23.5	3.0	13.0	18.0
Merged-chr9-60758057-1	chr9	60757957	60758157	+	805.799988	f0_balb.idr	Intergenic	Intergenic	-36385.0	NM_001357408	72565.0	Mm.68819	NM_028283	ENSMUSG00000034485	Uaca	2700059D02Rik|nucling	uveal autoantigen with coiled-coil domains and ankyrin repeats	protein-coding	12.0	18.5	12.0	126.0	14.5	1.0	4.5	11.5
Merged-chr1-157380925-4	chr1	157380832	157381032	+	961.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177644, intron 1 of 17)	intron (NM_177644, intron 1 of 17)	-31420.0	NR_027984	69953.0	Mm.286863	NM_027274	ENSMUSG00000049881	2810025M15Rik	AI429618	RIKEN cDNA 2810025M15 gene	ncRNA	42.5	59.5	45.5	753.0	31.0	7.5	15.0	17.0
Merged-chr5-117872341-4	chr5	117872258	117872458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008712, intron 1 of 27)	intron (NM_008712, intron 1 of 27)	5519.0	NM_008712	18125.0	Mm.44249	NM_008712	ENSMUSG00000029361	Nos1	2310005C01Rik|N-NOS|NC-NOS|NO|NOS|NOS-I|Nos-1|bNOS|nNOS	nitric oxide synthase 1, neuronal	protein-coding	67.5	115.5	68.0	783.5	222.5	92.0	94.0	55.5
Merged-chr2-72366701-4	chr2	72366579	72366779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023057, intron 4 of 19)	intron (NM_023057, intron 4 of 19)	80978.0	NM_178084	65964.0	Mm.304143	NM_023057	ENSMUSG00000004085	Map3k20	AV006891|B230120H23Rik|HCCS-4|MLTK|MLTKalpha|MLTKbeta|Zak	mitogen-activated protein kinase kinase kinase 20	protein-coding	102.5	168.0	135.0	1743.0	239.0	111.5	98.0	123.0
Merged-chr3-62458550-4	chr3	62458436	62458636	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081295, intron 12 of 13)	intron (NM_001081295, intron 12 of 13)	48452.0	NM_028136	72162.0	Mm.224233	NM_028136	ENSMUSG00000027770	Dhx36	2810407E23Rik|AI452301|AU022184|Ddx36|mKIAA1488	DEAH (Asp-Glu-Ala-His) box polypeptide 36	protein-coding	9.5	18.0	27.5	441.0	38.5	12.5	29.0	16.5
Merged-chr9-75361962-4	chr9	75361875	75362075	+	744.541687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14217.0	NM_013479	12049.0	Mm.25988	NM_013479	ENSMUSG00000032191	Bcl2l10	AA420380|AU023065|Boo|C85687|Diva	Bcl2-like 10	protein-coding	4.0	5.5	17.5	84.0	14.5	6.0	5.5	4.5
Merged-chr17-55944956-3	chr17	55944859	55945059	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001310337, intron 1 of 3)	intron (NM_001310337, intron 1 of 3)	300.0	NM_146249	240120.0	Mm.441018	NM_146249	ENSMUSG00000062101	Zfp119b	-	zinc finger protein 119b	protein-coding	14.0	27.0	9.5	119.5	51.5	36.0	28.0	30.0
Merged-chr11-100822586-4	chr11	100822486	100822686	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011489)	promoter-TSS (NM_011489)	-16.0	NM_011489	20851.0	Mm.34064	NM_011489	ENSMUSG00000020919	Stat5b	-	signal transducer and activator of transcription 5B	protein-coding	48.0	80.5	54.5	630.0	110.0	38.5	32.5	41.0
Merged-chr5-140814610-4	chr5	140814505	140814705	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010302, intron 1 of 3)	RMER17C|LTR|ERVK	15826.0	NM_010302	14673.0	Mm.370185	NM_010302	ENSMUSG00000000149	Gna12	AI414047|AI504261|Galpha12	guanine nucleotide binding protein, alpha 12	protein-coding	28.5	23.5	17.5	428.5	52.0	8.0	18.5	16.5
Merged-chr19-12591704-1	chr19	12591604	12591804	+	543.0	f1_c57bl6.idr	intron (NR_015503, intron 1 of 1)	intron (NR_015503, intron 1 of 1)	4862.0	NR_015503	74333.0	Mm.329744	NR_015503	ENSMUSG00000086213	A330040F15Rik	-	RIKEN cDNA A330040F15 gene	ncRNA	4.5	9.0	7.5	61.0	12.0	6.5	3.0	5.5
Merged-chr2-48886212-4	chr2	48886127	48886327	+	629.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007396, intron 4 of 10)	intron (NM_007396, intron 4 of 10)	63040.0	NM_001177313	26428.0	Mm.291059	NM_011958	ENSMUSG00000026761	Orc4	Orc4P|Orc4l|mMmORC4	origin recognition complex, subunit 4	protein-coding	7.5	10.0	3.5	84.0	14.0	11.0	13.5	13.0
Merged-chr5-147894820-4	chr5	147894687	147894887	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027872)	promoter-TSS (NM_027872)	28.0	NM_001357002	71706.0	Mm.153218	NM_027872	ENSMUSG00000029650	Slc46a3	1200006F02Rik	solute carrier family 46, member 3	protein-coding	119.0	123.0	102.0	1645.0	253.5	103.0	102.5	102.0
Merged-chr17-88452606-4	chr17	88452509	88452709	+	968.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355742, intron 1 of 5)	L1Md_F2|LINE|L1	11905.0	NM_001355742	14236.0	Mm.112824	NM_180974	ENSMUSG00000034998	Foxn2	3230402J05Rik|6030465J18Rik|Fkh19|Foxn1|HTLF	forkhead box N2	protein-coding	31.5	62.0	11.5	23.0	65.0	19.5	16.0	7.5
Merged-chr10-95301288-2	chr10	95301188	95301388	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001330138, intron 2 of 2)	intron (NM_001330138, intron 2 of 2)	22421.0	NM_001330138	12905.0	Mm.473739	NM_009950	ENSMUSG00000045867	Cradd	RAIDD	CASP2 and RIPK1 domain containing adaptor with death domain	protein-coding	8.0	7.5	4.5	27.0	9.0	4.0	3.5	4.0
Merged-chr3-89177377-4	chr3	89177241	89177441	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001309909)	promoter-TSS (NM_001309909)	-50.0	NM_001309910	24045.0	Mm.257052	NM_011886	ENSMUSG00000028049	Scamp3	Sc3	secretory carrier membrane protein 3	protein-coding	141.0	175.0	151.5	1778.0	278.5	115.5	98.5	96.0
Merged-chr4-58568478-4	chr4	58568384	58568584	+	973.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14993.0	NM_010336	14745.0	Mm.4772	NM_010336	ENSMUSG00000038668	Lpar1	AI326300|Edg2|Gpcr26|Kdt2|lpA1|vzg-1	lysophosphatidic acid receptor 1	protein-coding	29.5	19.5	32.0	394.0	44.0	12.0	33.5	41.5
Merged-chr11-83942126-4	chr11	83942093	83942293	+	984.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030096, exon 1 of 15)	exon (NM_030096, exon 1 of 15)	103.0	NM_030096	78394.0	Mm.280544	NM_030096	ENSMUSG00000020677	Ddx52	2700029C06Rik|ROK1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 52	protein-coding	31.0	38.0	17.0	354.5	69.5	28.0	33.5	33.0
Merged-chr3-148795986-3	chr3	148795881	148796081	+	839.400024	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	158654.0	NM_001081298	99633.0	Mm.9776	NM_001081298	ENSMUSG00000028184	Adgrl2	AI450192|CIRL-2|Gm619|Lec1|Lphh1|Lphn2|mKIAA0786	adhesion G protein-coupled receptor L2	protein-coding	9.5	8.0	11.0	212.5	22.0	3.0	7.0	11.5
Merged-chr1-153443229-1	chr1	153443129	153443329	+	575.0	f0_balb.idr	intron (NM_001033162, intron 6 of 9)	RLTR40|LTR|ERVK	18020.0	NM_001033162	71836.0	Mm.49460	NM_001033162	ENSMUSG00000042708	Shcbp1l	1700012A16Rik	Shc SH2-domain binding protein 1-like	protein-coding	10.0	9.5	4.5	117.0	10.0	2.0	8.0	0.5
Merged-chr11-116866424-3	chr11	116866340	116866540	+	976.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178620, intron 9 of 12)	intron (NM_178620, intron 9 of 12)	12440.0	NM_001361586	69900.0	Mm.348004	NM_178620	ENSMUSG00000020818	Mfsd11	2600014M03Rik	major facilitator superfamily domain containing 11	protein-coding	9.0	15.0	5.0	235.5	16.0	1.5	3.5	5.0
Merged-chr2-28793126-3	chr2	28793040	28793240	+	896.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033874, intron 11 of 12)	RLTR34C_MM|LTR|ERVK	47220.0	NM_172977	269252.0	Mm.26043	NM_172977	ENSMUSG00000035666	Gtf3c4	5330400C03|AI426938|AU014771|AU017413|KAT12|TFIIIC90	general transcription factor IIIC, polypeptide 4	protein-coding	22.0	20.5	9.5	134.5	15.5	6.5	4.0	15.0
Merged-chr10-25292332-3	chr10	25292271	25292471	+	877.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_018747, intron 1 of 7)	intron (NM_018747, intron 1 of 7)	6792.0	NM_018747	432442.0	Mm.485937	NM_018747	ENSMUSG00000039166	Akap7	6430401D08|AI662165|AKAP15|Akap18|BB170514	A kinase (PRKA) anchor protein 7	protein-coding	13.0	14.5	7.0	130.5	1.5	2.0	1.5	7.0
Merged-chr19-4070925-4	chr19	4070816	4071016	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RodERV21-int|LTR|ERV1	-11469.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	91.5	97.0	102.5	1299.5	167.0	53.0	75.5	64.5
Merged-chr6-37143171-3	chr6	37143079	37143279	+	807.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347104, intron 2 of 32)	intron (NM_001347104, intron 2 of 32)	156797.0	NM_001081206	320127.0	Mm.119469	NM_001081206	ENSMUSG00000038665	Dgki	6430604M11Rik|C130010K08Rik	diacylglycerol kinase, iota	protein-coding	10.0	9.5	7.0	144.5	20.5	6.0	9.0	13.0
Merged-chr1-56100356-3	chr1	56100231	56100431	+	671.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81353.0	NR_126076	69356.0	Mm.393775	NR_126075	ENSMUSG00000100372	1700003I22Rik	-	RIKEN cDNA 1700003I22 gene	ncRNA	10.0	18.0	7.5	297.0	0.5	0.0	0.0	0.5
Merged-chr11-20742471-4	chr11	20742376	20742576	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290545)	promoter-TSS (NM_001290545)	-920.0	NM_181411	216549.0	Mm.356580	NM_181411	ENSMUSG00000049659	Aftph	-	aftiphilin	protein-coding	25.5	28.5	23.0	545.0	79.0	17.0	39.0	38.0
Merged-chr10-59225282-4	chr10	59225147	59225347	+	988.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_172939, exon 1 of 1)	3' UTR (NM_172939, exon 1 of 1)	3325.0	NM_172939	268301.0	Mm.3036	NM_172939	ENSMUSG00000098188	Sowahc	4921515A04Rik|9430099J10Rik|Ankrd57|C820004L04Rik	sosondowah ankyrin repeat domain family member C	protein-coding	21.0	22.0	20.0	152.5	46.5	20.5	31.5	15.5
Merged-chr3-144699790-4	chr3	144699701	144699901	+	960.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019464, intron 5 of 8)	intron (NM_019464, intron 5 of 8)	20534.0	NM_001282042	54673.0	Mm.271775	NM_019464	ENSMUSG00000037062	Sh3glb1	AA409932|AI314629|AU015566|Bif-1|mKIAA0491	SH3-domain GRB2-like B1 (endophilin)	protein-coding	9.0	19.0	7.0	237.0	35.5	12.5	14.5	17.0
Merged-chr4-132212269-4	chr4	132212172	132212372	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145393)	promoter-TSS (NM_145393)	-16.0	NM_145393	213541.0	Mm.23998	NM_145393	ENSMUSG00000040025	Ythdf2	9430020E02Rik|HGRG8|NY-REN-2	YTH domain family 2	protein-coding	142.0	220.0	88.0	1351.5	309.5	152.5	129.5	107.0
Merged-chr13-56634525-4	chr13	56634437	56634637	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_155548, intron 12 of 16)	intron (NR_155548, intron 12 of 16)	24951.0	NR_155548	21810.0	Mm.14455	NM_009369	ENSMUSG00000035493	Tgfbi	68kDa|AI181842|AI747162|Beta-ig|big-h3	transforming growth factor, beta induced	protein-coding	19.5	40.5	22.0	376.5	41.5	22.5	19.0	27.0
Merged-chr1-106214309-1	chr1	106214209	106214409	+	849.0	f0_balb.idr	intron (NM_133821, intron 1 of 16)	intron (NM_133821, intron 1 of 16)	42440.0	NM_133821	98432.0	Mm.24115	NM_133821	ENSMUSG00000044340	Phlpp1	AI836256|Phlpp|Plekhe1|SCOP|mKIAA0606	PH domain and leucine rich repeat protein phosphatase 1	protein-coding	6.0	8.5	13.0	151.5	11.0	2.0	4.5	6.5
Merged-chr19-10831928-8	chr19	10831828	10832028	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-1870.0	NM_009852	12511.0	Mm.290897	NM_009852	ENSMUSG00000024670	Cd6	-	CD6 antigen	protein-coding	57.0	90.5	33.0	638.0	166.5	52.5	69.0	56.5
Merged-chr1-182341139-4	chr1	182341060	182341260	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175127, intron 1 of 4)	CpG	446.0	NM_175127	67948.0	Mm.30737	NM_175127	ENSMUSG00000047539	Fbxo28	4833428J17Rik|5730505P19Rik|D1Ertd578e|Fbx28|mKIAA0483	F-box protein 28	protein-coding	18.0	12.0	18.0	137.5	40.5	21.5	18.5	24.0
Merged-chr5-150156221-4	chr5	150156120	150156320	+	794.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-103710.0	NM_172887	320365.0	Mm.216590	NM_172887	ENSMUSG00000056602	Fry	13CDNA73|9330186A19Rik|AF346502|AI462658|C87180|D930046M03|cg003|mKIAA4143	FRY microtubule binding protein	protein-coding	3.0	17.0	4.0	100.5	18.0	9.0	16.5	12.5
Merged-chr8-83740737-2	chr8	83740637	83740837	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011925, intron 1 of 19)	B3|SINE|B2	574.0	NM_001163029	26364.0	Mm.334648	NM_011925	ENSMUSG00000002885	Adgre5	AA409984|Cd97|TM7LN1	adhesion G protein-coupled receptor E5	protein-coding	66.0	181.5	17.5	221.0	170.5	96.0	56.0	40.0
Merged-chr17-26547969-3	chr17	26547860	26548060	+	748.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13552.0	NM_026170	67458.0	Mm.30496	NM_026170	ENSMUSG00000001576	Ergic1	1200007D18Rik|maa-136	endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1	protein-coding	7.0	4.5	9.5	146.0	23.0	3.0	4.5	6.5
Merged-chr2-59336724-3	chr2	59336624	59336824	+	919.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175464, intron 12 of 20)	intron (NM_175464, intron 12 of 20)	49958.0	NR_040510	76676.0	Mm.110038	NR_040510	ENSMUSG00000087455	5330411J11Rik	-	RIKEN cDNA 5330411J11 gene	ncRNA	6.5	11.0	5.0	122.5	7.0	7.5	11.5	11.5
Merged-chr7-35119255-4	chr7	35119145	35119345	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001287523)	promoter-TSS (NM_001287523)	-48.0	NM_001287521	12606.0	Mm.349667	NM_007678	ENSMUSG00000034957	Cebpa	C/ebpalpha|CBF-A|Cebp	CCAAT/enhancer binding protein (C/EBP), alpha	protein-coding	268.0	431.0	313.5	3644.0	553.0	241.5	283.0	242.0
Merged-chr9-90062079-4	chr9	90061959	90062159	+	856.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007801, intron 3 of 11)	intron (NM_007801, intron 3 of 11)	7792.0	NM_001312649	13036.0	Mm.2277	NM_007801	ENSMUSG00000032359	Ctsh	AL022844	cathepsin H	protein-coding	13.0	12.5	12.0	418.5	38.5	7.5	8.5	8.5
Merged-chr3-83821982-3	chr3	83821884	83822084	+	935.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MC3|LINE|L1	19624.0	NM_011905	24088.0	Mm.87596	NM_011905	ENSMUSG00000027995	Tlr2	Ly105	toll-like receptor 2	protein-coding	7.5	12.5	22.0	286.5	12.0	3.0	19.0	5.0
Merged-chr3-106788774-5	chr3	106788782	106788982	+	885.9799800000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007651, intron 1 of 7)	intron (NM_007651, intron 1 of 7)	1267.0	NM_007651	12508.0	Mm.316861	NM_007651	ENSMUSG00000040747	Cd53	AI323659|Ox-44|Tspan25	CD53 antigen	protein-coding	3.5	9.5	11.5	77.0	20.5	6.0	4.5	10.0
Merged-chr10-14537311-2	chr10	14537205	14537405	+	793.25	f0_balb.idr|f0_c57.idr	intron (NM_001002268, intron 1 of 24)	RLTR40|LTR|ERVK	7731.0	NM_001002268	215798.0	Mm.440142	NM_001002268	ENSMUSG00000039116	Adgrg6	1190004A11Rik|AI449247|AW045736|DREG|Gm222|Gpr126	adhesion G protein-coupled receptor G6	protein-coding	12.0	34.5	2.0	185.5	22.0	6.0	13.5	4.5
Merged-chr1-51931511-3	chr1	51931437	51931637	+	769.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15559.0	NM_010863	17912.0	Mm.3390	NM_010863	ENSMUSG00000018417	Myo1b	AA406997|MIH-L|MMIa	myosin IB	protein-coding	4.0	4.5	3.0	68.5	31.0	12.5	7.0	17.0
Merged-chr12-70145235-3	chr12	70145120	70145320	+	713.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8951.0	NM_001195033	100504285.0	Mm.291105	NM_001195033	ENSMUSG00000090121	Abhd12b	Gm804	abhydrolase domain containing 12B	protein-coding	5.5	10.0	8.5	86.0	17.5	9.5	4.5	5.0
Merged-chr13-52583501-4	chr13	52583390	52583590	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001198977)	promoter-TSS (NM_001198977)	53.0	NM_001198977	20963.0	Mm.375031	NM_011518	ENSMUSG00000021457	Syk	Sykb	spleen tyrosine kinase	protein-coding	57.0	91.5	67.5	914.0	163.0	45.0	77.0	62.5
Merged-chr15-76534153-4	chr15	76534055	76534255	+	851.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	4591.0	NM_013909	30840.0	Mm.275279	NM_013909	ENSMUSG00000022559	Fbxl6	AU021795|Fbl6	F-box and leucine-rich repeat protein 6	protein-coding	9.0	7.0	5.0	131.0	17.5	11.0	5.0	16.0
Merged-chr4-123750975-4	chr4	123750858	123751058	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023423)	promoter-TSS (NM_023423)	-659.0	NM_023423	68050.0	Mm.27903	NM_023423	ENSMUSG00000023075	Akirin1	6330407G11Rik	akirin 1	protein-coding	61.5	97.0	41.0	791.0	93.0	41.0	57.5	35.0
Merged-chr17-8163531-3	chr17	8163424	8163624	+	977.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1994.0	NM_001197046	75296.0	Mm.227250	NM_201230	ENSMUSG00000069135	Fgfr1op	4930553O10Rik|FOP	Fgfr1 oncogene partner	protein-coding	14.0	17.5	7.0	184.5	12.0	6.0	8.5	7.0
Merged-chr7-118802043-3	chr7	118801937	118802137	+	733.733337	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027815, intron 21 of 30)	intron (NM_027815, intron 21 of 30)	53576.0	NM_001168220	66356.0	Mm.482278	NM_023197	ENSMUSG00000030980	Knop1	2310008H09Rik|Tsg118	lysine rich nucleolar protein 1	protein-coding	9.0	7.0	5.0	72.0	19.5	3.0	9.5	11.5
Merged-chr9-32487588-3	chr9	32487514	32487714	+	727.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 1 of 8)	intron (NM_008026, intron 1 of 8)	53838.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	7.5	17.5	8.5	99.0	15.5	8.0	6.0	6.5
Merged-chr10-42275461-6	chr10	42275312	42275512	+	982.388916	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_019740, exon 2 of 4)	exon (NM_019740, exon 2 of 4)	1330.0	NM_019740	56484.0	Mm.338613	NM_019740	ENSMUSG00000048756	Foxo3	1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a	forkhead box O3	protein-coding	15.0	15.5	20.5	209.0	39.0	7.5	13.5	30.5
Merged-chr17-35837054-4	chr17	35836879	35837079	+	976.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011655, intron 1 of 3)	intron (NM_011655, intron 1 of 3)	1322.0	NM_011655	22154.0	Mm.273538	NM_011655	ENSMUSG00000001525	Tubb5	AA408537|AI596182|B130022C14Rik|M(beta)5	tubulin, beta 5 class I	protein-coding	13.0	6.0	19.5	140.0	32.0	12.5	13.5	17.0
Merged-chr4-150570487-3	chr4	150570387	150570587	+	931.3666380000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	81687.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	10.0	16.5	5.5	167.5	22.0	1.5	4.5	3.0
Merged-chr8-61224453-2	chr8	61224353	61224553	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_021506, intron 1 of 11)	CpG	282.0	NM_021506	59009.0	Mm.27949	NM_021506	ENSMUSG00000031642	Sh3rf1	2200003J05Rik|Posh|R75531|Sh3md2	SH3 domain containing ring finger 1	protein-coding	14.5	10.0	21.5	258.5	11.5	10.5	7.5	7.0
Merged-chr1-91366401-4	chr1	91366334	91366534	+	921.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173395)	promoter-TSS (NM_173395)	4.0	NM_173395	227358.0	Mm.389157	NM_173395	ENSMUSG00000047443	Erfe	4832406C22|Fam132b|myonectin	erythroferrone	protein-coding	13.0	27.0	10.0	215.5	28.0	6.0	12.0	18.0
Merged-chr9-119970325-2	chr9	119970225	119970425	+	621.0	f1_balb.idr|f1_c57bl6.idr	TTS (NM_153287)	TTS (NM_153287)	12698.0	NM_001357560	215418.0	Mm.491094	NM_153287	ENSMUSG00000032515	Csrnp1	4931429D10Rik|Axud1|CSRNP-1|URAX1|taip-3	cysteine-serine-rich nuclear protein 1	protein-coding	6.0	16.0	7.0	43.5	10.5	7.5	4.5	3.0
Merged-chr12-75529593-4	chr12	75529492	75529692	+	908.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_012024, intron 2 of 13)	intron (NM_012024, intron 2 of 13)	66608.0	NM_012024	26932.0	Mm.259626	NM_012024	ENSMUSG00000021051	Ppp2r5e	4633401M22Rik|AI449017|B56beta	protein phosphatase 2, regulatory subunit B', epsilon	protein-coding	27.5	34.0	20.0	464.0	24.0	15.0	31.0	15.5
Merged-chr13-20157778-4	chr13	20157664	20157864	+	870.291626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_080288, intron 1 of 21)	intron (NM_080288, intron 1 of 21)	67257.0	NM_080288	140580.0	Mm.342392	NM_080288	ENSMUSG00000041112	Elmo1	6330578D22Rik|C230095H21Rik|CED-12	engulfment and cell motility 1	protein-coding	20.5	11.5	22.0	191.0	20.0	3.0	10.5	15.0
Merged-chr1-97663050-4	chr1	97662947	97663147	+	977.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1029.0	NM_133825	52392.0	Mm.12309	NM_133825	ENSMUSG00000044768	D1Ertd622e	AI987691|AW047450	DNA segment, Chr 1, ERATO Doi 622, expressed	protein-coding	37.5	33.0	36.5	553.0	55.5	14.0	22.0	13.0
Merged-chr19-5803671-4	chr19	5803557	5803757	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_002847)	promoter-TSS (NR_002847)	-985.0	NR_002847	72289.0	Mm.298256	NR_002847	ENSMUSG00000092341	Malat1	2210401K01Rik|9430072K23Rik|AI647968|Neat2	metastasis associated lung adenocarcinoma transcript 1 (non-coding RNA)	ncRNA	151.0	214.0	131.0	1843.5	372.5	143.5	109.5	140.5
Merged-chr4-116821118-4	chr4	116821016	116821216	+	783.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_146256, exon 1 of 1)	exon (NM_146256, exon 1 of 1)	392.0	NM_146256	242642.0	Mm.279897	NM_146256	ENSMUSG00000043155	Hpdl	A830048M07Rik|BC034099|Gloxd1	4-hydroxyphenylpyruvate dioxygenase-like	protein-coding	12.5	12.5	3.0	130.0	13.0	11.5	12.5	7.0
Merged-chr8-26960241-6	chr8	26960105	26960305	+	717.527771	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17131.0	NM_001101502	353310.0	Mm.212469	NM_001101502	ENSMUSG00000085795	Zfp703	1110032O19Rik|AI430822|AL022941|Csmn1|End2|Zeppo1|Znf703|Zpo1	zinc finger protein 703	protein-coding	6.0	6.5	6.0	86.5	15.0	3.0	4.0	2.5
Merged-chr3-146784424-4	chr3	146784322	146784522	+	969.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011100, intron 1 of 9)	intron (NM_011100, intron 1 of 9)	-3006.0	NM_001164200	18749.0	Mm.16766	NM_011100	ENSMUSG00000005034	Prkacb	CbPKA|Pkacb	protein kinase, cAMP dependent, catalytic, beta	protein-coding	13.5	15.5	15.5	195.0	39.0	14.5	18.0	23.0
Merged-chr11-116653833-2	chr11	116653733	116653933	+	971.666626	f1_balb.idr|f1_c57bl6.idr	exon (NM_030206, exon 1 of 4)	exon (NM_030206, exon 1 of 4)	480.0	NM_030206	114886.0	Mm.34598	NM_030206	ENSMUSG00000020810	Cygb	3110001K20Rik|HGb|Staap	cytoglobin	protein-coding	4.5	5.5	18.5	43.0	6.0	2.0	2.0	5.5
Merged-chr1-132417802-1	chr1	132417702	132417902	+	841.0	f1_c57bl6.idr	exon (NM_172516, exon 1 of 13)	exon (NM_172516, exon 1 of 13)	349.0	NM_172516	213452.0	Mm.257120	NM_172516	ENSMUSG00000042046	Dstyk	A930019K20Rik|C430014H23Rik|C820013G01|Ripk5	dual serine/threonine and tyrosine protein kinase	protein-coding	8.0	20.5	18.0	186.0	25.5	5.5	10.5	21.0
Merged-chr1-75192683-4	chr1	75192574	75192774	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001288612)	promoter-TSS (NM_001288612)	514.0	NR_051998	52231.0	Mm.259326	NM_026187	ENSMUSG00000026199	Ankzf1	1300008P06Rik|2810025E10Rik|D1Ertd161e	ankyrin repeat and zinc finger domain containing 1	protein-coding	45.5	138.0	47.0	404.5	195.5	90.5	87.0	41.0
Merged-chr2-25575552-3	chr2	25575463	25575663	+	757.799988	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_029293)	promoter-TSS (NM_029293)	-692.0	NM_029293	75454.0	Mm.458079	NM_029293	ENSMUSG00000036504	Phpt1	1700008C22Rik|PHP|Php14	phosphohistidine phosphatase 1	protein-coding	7.5	7.0	16.5	92.0	27.0	6.0	2.5	11.0
Merged-chr5-20749655-4	chr5	20749547	20749747	+	989.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	132477.0	NM_172992	68770.0	Mm.86410	NM_172992	ENSMUSG00000039987	Phtf2	1110054G21Rik|9530062N20Rik|AI447096|C77923	putative homeodomain transcription factor 2	protein-coding	41.0	33.0	63.5	1087.0	49.5	14.5	34.0	23.5
Merged-chr3-90627611-2	chr3	90627511	90627711	+	666.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER5|LTR|ERV1	14717.0	NM_011313	20200.0	Mm.100144	NM_011313	ENSMUSG00000001025	S100a6	2A9|5B10|CALCYCLIN|Cacy|PRA	S100 calcium binding protein A6 (calcyclin)	protein-coding	1.0	1.5	0.0	11.5	10.5	4.5	9.5	5.5
Merged-chr5-112950988-4	chr5	112950896	112951096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001285806, intron 9 of 20)	intron (NM_001285806, intron 9 of 20)	-54634.0	NM_028901	74376.0	Mm.441903	NM_028901	ENSMUSG00000072720	Myo18b	4932408L24Rik|4933411E19Rik|Gm448	myosin XVIIIb	protein-coding	49.5	88.0	50.5	567.0	96.0	39.5	41.0	33.5
Merged-chr16-23332385-3	chr16	23332294	23332494	+	669.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252505, intron 5 of 7)	L1M4c|LINE|L1	41924.0	NM_001252506	20440.0	Mm.149029	NM_145933	ENSMUSG00000022885	St6gal1	AW742324|Siat1|St6Gal-I|St6gal|St6galI	beta galactoside alpha 2,6 sialyltransferase 1	protein-coding	11.0	5.0	5.0	83.0	18.0	2.0	4.5	9.0
Merged-chr9-106858225-4	chr9	106858120	106858320	+	949.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001015507, exon 14 of 23)	exon (NM_001015507, exon 14 of 23)	28780.0	NM_175402	109095.0	Mm.431589	NM_175402	ENSMUSG00000074102	Rbm15b	1810017N16Rik	RNA binding motif protein 15B	protein-coding	9.0	15.0	14.0	317.0	32.5	7.0	25.5	35.5
Merged-chr11-59787666-3	chr11	59787576	59787776	+	900.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_110894)	promoter-TSS (NR_110894)	-19.0	NM_001290283	194908.0	Mm.344651	NM_183139	ENSMUSG00000043648	Pld6	4933433K01Rik|Gm10|Zuc|mZuc|mitoPLD	phospholipase D family, member 6	protein-coding	6.5	22.5	8.5	223.0	15.5	5.0	11.0	14.5
Merged-chr9-113708106-5	chr9	113707952	113708152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001164677, exon 1 of 18)	exon (NM_001164677, exon 1 of 18)	207.0	NM_001164678	18571.0	Mm.29816	NM_011052	ENSMUSG00000032504	Pdcd6ip	AI480591|AW544830|Aip1|Alix|C76364|Eig2|mKIAA1375	programmed cell death 6 interacting protein	protein-coding	22.5	32.0	25.5	287.0	63.5	35.5	26.0	36.5
Merged-chr11-50262214-3	chr11	50262120	50262320	+	787.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175334, intron 3 of 4)	RSINE1|SINE|B4	-23688.0	NR_132733	17001.0	Mm.245151	NM_008521	ENSMUSG00000020377	Ltc4s	-	leukotriene C4 synthase	protein-coding	10.0	10.0	3.0	107.5	17.0	6.0	9.5	6.0
Merged-chr15-82341292-4	chr15	82341090	82341290	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177391)	promoter-TSS (NM_177391)	11.0	NM_177391	338368.0	Mm.444916	NM_177391	ENSMUSG00000049687	Fam109b	C920005C14Rik|IPIP27B|Ses2	family with sequence similarity 109, member B	protein-coding	16.0	26.0	21.0	214.0	41.5	25.5	12.5	14.0
Merged-chr18-23884669-4	chr18	23884543	23884743	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001162941, intron 7 of 7)	intron (NM_001162941, intron 7 of 7)	-70045.0	NM_027007	69256.0	Mm.218343	NM_027007	ENSMUSG00000024276	Zfp397	2810411K16Rik|6720480F11Rik|AI461664	zinc finger protein 397	protein-coding	362.0	454.0	503.5	5384.5	791.5	311.5	446.5	329.0
Merged-chr7-127967307-4	chr7	127967246	127967446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001347649)	promoter-TSS (NM_001347649)	-133.0	NM_001347649	233908.0	Mm.277680	NM_139149	ENSMUSG00000030795	Fus	D430004D17Rik|D930039C12Rik|Fus1|Tls	fused in sarcoma	protein-coding	89.5	165.0	99.5	1060.0	257.5	122.5	67.0	145.0
Merged-chr5-114813974-4	chr5	114813890	114814090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027817)	promoter-TSS (NR_027817)	-14.0	NR_027817	66236.0	Mm.268546	NR_027817	ENSMUSG00000072694	1500011B03Rik	AI415201|AV141149|AW556386	RIKEN cDNA 1500011B03 gene	ncRNA	48.0	78.5	30.0	462.0	143.0	59.0	39.5	57.5
Merged-chr14-63446106-1	chr14	63446006	63446206	+	692.0	f0_balb.idr	intron (NM_177628, intron 2 of 3)	intron (NM_177628, intron 2 of 3)	9712.0	NM_177628	219148.0	Mm.37882	NM_177628	ENSMUSG00000035095	Fam167a	A030013D21	family with sequence similarity 167, member A	protein-coding	6.0	10.0	8.0	114.5	11.5	3.5	6.5	15.5
Merged-chr4-135267145-4	chr4	135267043	135267243	+	983.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013885, intron 1 of 5)	intron (NM_013885, intron 1 of 5)	5617.0	NM_013885	29876.0	Mm.257765	NM_013885	ENSMUSG00000037242	Clic4	D0Jmb3|TU-74|mc3s5|mtCLIC	chloride intracellular channel 4 (mitochondrial)	protein-coding	14.0	35.5	21.0	308.0	39.0	22.0	24.0	24.5
Merged-chr16-33967473-3	chr16	33967336	33967536	+	656.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009471)	promoter-TSS (NM_009471)	-398.0	NM_009471	22247.0	Mm.13145	NM_009471	ENSMUSG00000022814	Umps	1700095D23Rik|AA408257|AL033308|BB164745	uridine monophosphate synthetase	protein-coding	7.0	12.5	8.0	93.5	16.5	8.5	3.5	2.5
Merged-chr16-10356273-3	chr16	10356163	10356363	+	842.033325	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RSINE1|SINE|B4	-24978.0	NR_126064	381033.0	Mm.263108	NR_126064	ENSMUSG00000116270	Gm1600	Gm1776	predicted gene 1600	ncRNA	5.0	7.0	5.0	91.0	8.5	8.5	4.0	6.5
Merged-chr6-13872335-4	chr6	13872224	13872424	+	995.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001352887)	promoter-TSS (NM_001352887)	755.0	NR_045995	76311.0	Mm.367129	NR_045995	ENSMUSG00000097616	1110019D14Rik	-	RIKEN cDNA 1110019D14 gene	ncRNA	24.5	40.5	24.0	435.0	78.0	24.0	35.0	18.0
Merged-chr17-15803652-4	chr17	15803571	15803771	+	955.150024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	22915.0	NM_178615	68799.0	Mm.293466	NM_178615	ENSMUSG00000048027	Rgmb	1110059F19Rik|DRAGON	repulsive guidance molecule family member B	protein-coding	12.0	11.0	26.5	419.0	41.0	20.0	13.5	16.5
Merged-chr15-83100190-4	chr15	83100082	83100282	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023475)	promoter-TSS (NM_023475)	-23.0	NM_023475	68607.0	Mm.30056	NM_023475	ENSMUSG00000058586	Serhl	0610008B10Rik|1110019M09Rik|AU019786	serine hydrolase-like	protein-coding	199.5	310.0	134.5	2114.5	421.0	181.5	134.0	142.0
Merged-chr18-53268371-4	chr18	53268253	53268453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_029394, intron 1 of 6)	intron (NM_029394, intron 1 of 6)	22691.0	NM_029394	69226.0	Mm.32414	NM_029394	ENSMUSG00000024535	Snx24	2810011K15Rik|5730433I16Rik|AI451341	sorting nexing 24	protein-coding	41.0	38.5	64.5	797.0	102.5	23.0	61.0	46.5
Merged-chr14-121929104-4	chr14	121929005	121929205	+	993.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026861, intron 4 of 8)	intron (NM_026861, intron 4 of 8)	-13331.0	NM_182806	110168.0	Mm.37405	NM_182806	ENSMUSG00000050350	Gpr18	-	G protein-coupled receptor 18	protein-coding	77.5	63.0	32.5	563.5	43.5	15.0	19.0	19.0
Merged-chr5-72818777-4	chr5	72818708	72818908	+	936.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013689, intron 3 of 17)	MIRb|SINE|MIR	49640.0	NM_001113461	21682.0	Mm.319581	NM_013689	ENSMUSG00000029217	Tec	-	tec protein tyrosine kinase	protein-coding	24.5	18.5	25.0	299.5	29.0	7.0	9.5	24.5
Merged-chr11-47275015-2	chr11	47274915	47275115	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_011891, intron 2 of 7)	intron (NM_011891, intron 2 of 7)	104287.0	NM_011891	24052.0	Mm.338890	NM_011891	ENSMUSG00000020354	Sgcd	35kDa|delta-SG	sarcoglycan, delta (dystrophin-associated glycoprotein)	protein-coding	1.0	5.0	6.5	107.5	10.5	8.0	6.0	7.0
Merged-chr17-45736870-4	chr17	45736792	45736992	+	883.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 1 of 4)	(CG)n|Simple_repeat|Simple_repeat	2386.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	23.5	8.0	9.0	122.5	33.5	9.0	15.0	8.0
Merged-chr10-42089305-4	chr10	42089214	42089414	+	880.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-70932.0	NM_001034858	213402.0	Mm.211320	NM_001034858	ENSMUSG00000071324	Armc2	2610018I05Rik	armadillo repeat containing 2	protein-coding	15.0	11.5	14.0	355.0	15.5	9.5	13.0	12.5
Merged-chr16-4684025-4	chr16	4683896	4684096	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023646)	promoter-TSS (NM_023646)	-74.0	NM_023646	83945.0	Mm.248337	NM_023646	ENSMUSG00000004069	Dnaja3	1200003J13Rik|1810053A11Rik|C81173|Tid-1|Tid1l	DnaJ heat shock protein family (Hsp40) member A3	protein-coding	77.0	120.5	117.0	941.0	210.5	94.5	78.5	77.5
Merged-chr17-51099886-3	chr17	51099786	51099986	+	786.166687	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028162, intron 2 of 21)	intron (NM_028162, intron 2 of 21)	59492.0	NM_001285993	72238.0	Mm.120650	NM_028162	ENSMUSG00000023923	Tbc1d5	1600014N05Rik	TBC1 domain family, member 5	protein-coding	11.5	7.0	2.0	59.5	26.0	4.5	12.5	9.5
Merged-chr3-68053793-2	chr3	68053693	68053893	+	688.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_001113419, intron 3 of 10)	intron (NM_001113419, intron 3 of 10)	-11009.0	NM_001113420	30953.0	Mm.331064	NM_013928	ENSMUSG00000027777	Schip1	Nf2ip|Schip-1	schwannomin interacting protein 1	protein-coding	3.5	10.5	1.5	61.5	8.0	9.5	5.0	5.0
Merged-chr5-36713349-4	chr5	36713246	36713446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-17325.0	NM_001081232	320661.0	Mm.26480	NM_177221	ENSMUSG00000029190	D5Ertd579e	9030221A05Rik|A930018H20Rik|Kiaa0232	DNA segment, Chr 5, ERATO Doi 579, expressed	protein-coding	61.0	67.0	60.0	697.5	106.5	41.5	46.0	51.5
Merged-chr14-43933157-2	chr14	43933057	43933257	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	IAPEY4_LTR|LTR|ERVK	-9789.0	NM_053112	93725.0	Mm.429087	NM_053112	ENSMUSG00000090166	Ear10	Raf2	eosinophil-associated, ribonuclease A family, member 10	protein-coding	10.5	8.0	6.0	42.5	16.5	5.0	8.5	8.0
Merged-chr11-98948102-4	chr11	98947980	98948180	+	958.349976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177302, intron 2 of 9)	L1MB8|LINE|L1	8369.0	NM_001177303	19401.0	Mm.439744	NM_009024	ENSMUSG00000037992	Rara	Nr1b1|RAR|RARalpha1	retinoic acid receptor, alpha	protein-coding	21.0	15.5	26.0	377.0	46.5	14.0	17.5	31.5
Merged-chr7-4723865-4	chr7	4723768	4723968	+	984.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_177887, exon 4 of 5)	exon (NM_177887, exon 4 of 5)	1214.0	NM_001142792	330460.0	Mm.361851	NM_177887	ENSMUSG00000046456	Tmem150b	A630041N19|Tmem224	transmembrane protein 150B	protein-coding	15.5	20.0	17.0	208.5	50.0	14.5	19.5	17.5
Merged-chr15-59811748-4	chr15	59811643	59811843	+	966.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16784.0	NR_045076	100503021.0	Mm.402924	NR_045076	ENSMUSG00000115426	Gm19510	-	predicted gene, 19510	ncRNA	13.0	27.0	20.0	255.0	33.5	12.5	19.5	18.0
Merged-chr15-35371356-7	chr15	35371264	35371464	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177151)	promoter-TSS (NM_177151)	-182.0	NM_177151	666173.0	Mm.309250	NM_177151	ENSMUSG00000037646	Vps13b	1810042B05Rik|2310042E16Rik|4732488H20|C330002D13Rik|C87206|Coh1|D230005K13|mKIAA0532|mKIAA5032	vacuolar protein sorting 13B	protein-coding	31.0	32.5	28.0	457.5	64.0	28.5	36.5	32.5
Merged-chr3-118071564-4	chr3	118071447	118071647	+	996.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-202611.0	NM_029655	76561.0	Mm.33824	NM_029655	ENSMUSG00000028007	Snx7	2510028H01Rik	sorting nexin 7	protein-coding	36.0	22.0	20.5	573.5	58.5	26.5	19.0	25.5
Merged-chr1-60668488-3	chr1	60668382	60668582	+	842.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-77906.0	NM_007642	12487.0	Mm.255003	NM_007642	ENSMUSG00000026012	Cd28	-	CD28 antigen	protein-coding	5.0	9.5	7.0	90.0	2.5	2.5	2.5	3.0
Merged-chr8-111876787-4	chr8	111876646	111876846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025781)	promoter-TSS (NM_025781)	-71.0	NM_025781	66817.0	Mm.345350	NM_025781	ENSMUSG00000031953	Tmem170	9030409E16Rik|AA403674|D8Bwg1414e|Tmem170a	transmembrane protein 170	protein-coding	190.5	285.5	205.0	3385.0	474.0	180.5	247.0	209.5
Merged-chr10-118883530-4	chr10	118883470	118883670	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTD|LTR|ERVL-MaLR	-14667.0	NM_001014390	69181.0	Mm.45565	NM_001014390	ENSMUSG00000028630	Dyrk2	1810038L18Rik	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	protein-coding	117.5	261.5	128.0	590.5	354.0	150.5	110.5	67.5
Merged-chr2-126497002-4	chr2	126496912	126497112	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359975, intron 1 of 27)	intron (NM_001359975, intron 1 of 27)	2835.0	NM_001359975	241633.0	Mm.222235	NM_001080944	ENSMUSG00000060131	Atp8b4	Im	ATPase, class I, type 8B, member 4	protein-coding	68.5	96.0	64.5	1200.0	134.5	63.5	67.5	71.5
Merged-chr17-74489497-4	chr17	74489414	74489614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026417)	promoter-TSS (NM_026417)	21.0	NM_026417	67864.0	Mm.41891	NM_026417	ENSMUSG00000024072	Yipf4	2310034L04Rik	Yip1 domain family, member 4	protein-coding	116.0	168.0	123.5	1590.5	281.0	112.0	130.5	110.0
Merged-chr8-11452781-4	chr8	11452680	11452880	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25149.0	NR_126558	102132.0	Mm.37632	NR_126558	ENSMUSG00000096957	E230013L22Rik	AI645545	RIKEN cDNA E230013L22 gene	ncRNA	182.0	321.5	202.5	2923.0	388.0	134.5	156.5	140.0
Merged-chr8-119781735-2	chr8	119781635	119781835	+	740.125	f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1A2|LTR|ERVL-MaLR	-3319.0	NM_028883	74347.0	Mm.358759	NM_028883	ENSMUSG00000034105	Tldc1	4632415K11Rik|Kiaa1609	TBC/LysM associated domain containing 1	protein-coding	6.5	13.5	6.0	41.0	22.5	2.5	6.0	4.5
Merged-chr3-96747076-4	chr3	96747015	96747215	+	807.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026406, intron 1 of 8)	intron (NM_026406, intron 1 of 8)	19504.0	NM_026406	67845.0	Mm.386792	NM_026406	ENSMUSG00000028098	Rnf115	2610028E05Rik|AU042696|Zfp364	ring finger protein 115	protein-coding	8.5	6.0	4.0	202.0	20.5	5.0	9.5	10.5
Merged-chr16-30388840-4	chr16	30388750	30388950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128094)	promoter-TSS (NM_001128094)	-320.0	NM_001128096	224088.0	Mm.8924	NM_001128094	ENSMUSG00000022533	Atp13a3	AU022875|Gm1745|Gm541|Gm542	ATPase type 13A3	protein-coding	110.0	158.5	49.5	1087.0	275.0	118.0	160.0	117.5
Merged-chr13-81741224-4	chr13	81741117	81741317	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028372, intron 1 of 1)	intron (NM_028372, intron 1 of 1)	29800.0	NM_028372	72852.0	Mm.31095	NM_028372	ENSMUSG00000051098	Mblac2	2900024O10Rik	metallo-beta-lactamase domain containing 2	protein-coding	52.0	76.5	108.5	1540.0	217.0	80.0	80.5	70.5
Merged-chr8-109622598-2	chr8	109622498	109622698	+	844.166626	f1_balb.idr|f1_c57bl6.idr	intron (NM_001039700, intron 4 of 33)	intron (NM_001039700, intron 4 of 33)	8081.0	NM_181544	244646.0	Mm.436810	NM_181544	ENSMUSG00000048827	Pkd1l3	-	polycystic kidney disease 1 like 3	protein-coding	7.5	8.0	9.0	71.5	13.0	2.0	5.0	5.0
Merged-chr9-78429065-2	chr9	78428965	78429165	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14172.0	NR_125721	214763.0	Mm.101559	NM_173386	ENSMUSG00000032344	Mb21d1	E330016A19Rik|cGAS	Mab-21 domain containing 1	protein-coding	1.5	2.0	15.0	51.0	8.0	9.5	10.5	14.5
Merged-chr3-142493677-4	chr3	142493558	142493758	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3276.0	NM_153564	229898.0	Mm.459245	NM_153564	ENSMUSG00000105504	Gbp5	5330409J06Rik|Gbp5a	guanylate binding protein 5	protein-coding	37.5	85.0	25.5	533.5	114.5	49.5	52.5	44.5
Merged-chr17-48232704-4	chr17	48232607	48232807	+	966.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021406)	promoter-TSS (NM_021406)	-32.0	NM_001347399	58217.0	Mm.248352	NM_021406	ENSMUSG00000042265	Trem1	-	triggering receptor expressed on myeloid cells 1	protein-coding	22.0	28.0	31.0	491.0	44.5	18.0	35.5	19.0
Merged-chr10-22297435-3	chr10	22297343	22297543	+	953.0833130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009018, intron 6 of 6)	intron (NM_009018, intron 6 of 6)	-9277.0	NR_015465	606736.0	Mm.387042	NR_015465	ENSMUSG00000097352	C920009B18Rik	-	RIKEN cDNA C920009B18 gene	ncRNA	4.5	14.0	14.5	194.5	16.0	3.5	3.0	6.5
Merged-chr4-59455192-4	chr4	59455096	59455296	+	930.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1L|LTR|ERVL-MaLR	-16563.0	NM_001163288	634731.0	Mm.483589	NM_001163288	ENSMUSG00000038578	Susd1	A530080P10|Gm12528	sushi domain containing 1	protein-coding	18.5	32.0	18.5	261.0	26.0	16.5	15.5	7.5
Merged-chr7-45309677-3	chr7	45309574	45309774	+	712.083313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175130, intron 17 of 24)	intron (NM_175130, intron 17 of 24)	-15284.0	NR_110499	100040970.0	Mm.289810	NR_110499	ENSMUSG00000046721	Rpl14-ps1	Gm9811	ribosomal protein L14, pseudogene 1	pseudo	7.0	13.5	5.0	95.5	23.5	2.5	6.5	8.0
Merged-chr13-29984937-4	chr13	29984846	29985046	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001289920)	promoter-TSS (NM_001289920)	-555.0	NM_001359994	13557.0	Mm.268356	NM_010093	ENSMUSG00000016477	E2f3	E2F3b|E2f3a	E2F transcription factor 3	protein-coding	35.0	56.5	37.5	558.5	103.0	54.0	70.0	57.5
Merged-chr8-60632778-4	chr8	60632681	60632881	+	992.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_027756)	promoter-TSS (NM_027756)	-44.0	NM_027756	71306.0	Mm.23242	NM_027756	ENSMUSG00000031647	Mfap3l	4933428A15Rik|5430405D20Rik|AI461995|AW125052|NYD-sp9|mKIAA0626	microfibrillar-associated protein 3-like	protein-coding	62.5	93.0	74.5	1140.5	43.0	13.5	26.5	26.5
Merged-chr5-66075244-4	chr5	66075160	66075360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_139065, intron 2 of 6)	B3|SINE|B2	22919.0	NM_139065	245945.0	Mm.36863	NM_139065	ENSMUSG00000070780	Rbm47	9530077J19Rik	RNA binding motif protein 47	protein-coding	57.0	68.0	73.5	609.5	80.5	51.0	34.5	33.0
Merged-chr2-89117473-4	chr2	89117373	89117573	+	991.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4963.0	NM_146902	258904.0	Mm.330377	NM_146902	ENSMUSG00000075102	Olfr1221	MOR233-3	olfactory receptor 1221	protein-coding	19.0	32.5	30.5	618.0	63.0	27.5	34.0	20.0
Merged-chr9-102636738-3	chr9	102636633	102636833	+	890.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	10437.0	NM_181394	69010.0	Mm.2000	NM_181394	ENSMUSG00000035048	Anapc13	1810004D07Rik|APC13|SWM1	anaphase promoting complex subunit 13	protein-coding	11.0	9.0	15.0	47.5	14.0	11.0	6.5	4.0
Merged-chr7-19304385-2	chr7	19304285	19304485	+	1000.0	f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_008036, exon 4 of 4)	3' UTR (NM_008036, exon 4 of 4)	5660.0	NM_008036	14282.0	Mm.248335	NM_008036	ENSMUSG00000003545	Fosb	-	FBJ osteosarcoma oncogene B	protein-coding	26.0	29.0	2.5	70.0	35.5	21.5	8.5	10.5
Merged-chr17-45752269-4	chr17	45752173	45752373	+	918.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152153, intron 2 of 4)	intron (NR_152153, intron 2 of 4)	17767.0	NR_152153	433111.0	Mm.213441	NR_152153	ENSMUSG00000097727	F630040K05Rik	-	RIKEN cDNA F630040K05 gene	ncRNA	18.5	18.0	21.0	189.5	26.5	11.5	18.5	14.5
Merged-chr9-104277736-3	chr9	104277633	104277833	+	838.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14803.0	NM_001163026	235567.0	Mm.217256	NM_001163026	ENSMUSG00000032560	Dnajc13	D030002L11Rik|Gm1124|RME-8|Rme8|mKIAA0678	DnaJ heat shock protein family (Hsp40) member C13	protein-coding	6.0	8.0	2.5	61.0	13.5	6.0	7.0	8.0
Merged-chr15-79694005-3	chr15	79693920	79694120	+	902.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013818, intron 1 of 11)	intron (NM_013818, intron 1 of 11)	3124.0	NM_013818	14904.0	Mm.19080	NM_013818	ENSMUSG00000042535	Gtpbp1	AL022987|AW045683|C85212|GP-1|Gtpbp	GTP binding protein 1	protein-coding	6.0	12.0	6.0	37.5	26.5	9.0	7.5	13.5
Merged-chr8-123287549-4	chr8	123287454	123287654	+	823.708313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016925, intron 26 of 42)	intron (NM_016925, intron 26 of 42)	31022.0	NM_016925	14087.0	Mm.6536	NM_016925	ENSMUSG00000032815	Fanca	AW208693|FACA	Fanconi anemia, complementation group A	protein-coding	11.5	18.5	10.0	153.5	36.0	14.0	20.5	11.0
Merged-chr12-95741534-3	chr12	95741414	95741614	+	791.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_201518, intron 1 of 1)	intron (NM_201518, intron 1 of 1)	49288.0	NM_201518	399558.0	Mm.341948	NM_201518	ENSMUSG00000047414	Flrt2	-	fibronectin leucine rich transmembrane protein 2	protein-coding	4.5	7.0	7.5	67.5	4.5	1.5	3.0	5.5
Merged-chr14-71334230-4	chr14	71334124	71334324	+	974.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MTE-int|LTR|ERVL-MaLR	82951.0	NR_046076	100043132.0	Mm.399336	NR_046075	ENSMUSG00000115139	Gm4251	-	predicted gene 4251	ncRNA	13.5	33.5	17.5	312.0	68.0	34.5	35.5	24.5
Merged-chr1-139068413-1	chr1	139068313	139068513	+	975.0	f0_balb.idr	intron (NM_001166501, intron 9 of 21)	GA-rich|Low_complexity|Low_complexity	90756.0	NR_108103	78229.0	Mm.437838	NR_108103	ENSMUSG00000104900	4930596I21Rik	-	RIKEN cDNA 4930596I21 gene	ncRNA	11.0	8.0	5.0	165.0	14.5	0.5	3.5	12.0
Merged-chr4-86689513-4	chr4	86689403	86689603	+	793.80835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-19444.0	NM_007408	11520.0	Mm.381	NM_007408	ENSMUSG00000028494	Plin2	AA407157|ADPH|Adfp|Adrp	perilipin 2	protein-coding	8.5	31.5	28.0	441.0	19.5	6.5	6.5	12.5
Merged-chr13-56178743-4	chr13	56178636	56178836	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001168615, exon 1 of 3)	5' UTR (NM_001168615, exon 1 of 3)	149.0	NM_145976	212937.0	Mm.116697	NM_145976	ENSMUSG00000049625	Tifab	-	TRAF-interacting protein with forkhead-associated domain, family member B	protein-coding	58.0	121.5	67.5	1786.0	106.0	41.0	82.0	69.5
Merged-chr15-97182752-4	chr15	97182674	97182874	+	980.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15530.0	NR_155279	102635594.0	Mm.392594	NR_155278	ENSMUSG00000116295	Gm32885	-	predicted gene, 32885	ncRNA	29.0	43.0	24.0	433.5	68.5	12.0	19.0	15.5
Merged-chr2-3526505-4	chr2	3526401	3526601	+	879.06665	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_177647)	TTS (NM_177647)	13436.0	NM_177647	227526.0	Mm.211455	NM_177647	ENSMUSG00000039496	Cdnf	9330140G23|Armetl1	cerebral dopamine neurotrophic factor	protein-coding	26.5	16.0	9.5	255.5	61.0	19.5	19.0	6.0
Merged-chr1-39590390-4	chr1	39590291	39590491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13044.0	NM_001033135	67702.0	Mm.28614	NM_001033135	ENSMUSG00000048234	Rnf149	1600023E10Rik|AV037261|C76763|Gm15832|Greul4	ring finger protein 149	protein-coding	38.0	76.0	45.0	834.0	127.0	42.0	55.5	30.5
Merged-chr1-191125981-4	chr1	191125881	191126081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	27567.0	NM_030060	381319.0	Mm.6922	NM_030060	ENSMUSG00000026630	Batf3	9130211I03Rik|Snft	basic leucine zipper transcription factor, ATF-like 3	protein-coding	70.0	100.0	82.0	779.5	105.5	56.0	55.0	76.0
Merged-chr7-45471156-4	chr7	45471098	45471298	+	826.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4300.0	NM_007527	12028.0	Mm.19904	NM_007527	ENSMUSG00000003873	Bax	-	BCL2-associated X protein	protein-coding	2.0	6.0	8.0	94.5	20.5	8.0	5.5	11.0
Merged-chr11-59142006-4	chr11	59141900	59142100	+	798.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5625.0	NM_199152	380698.0	Mm.339542	NM_199152	ENSMUSG00000061462	Obscn	BC046431|Gm878|UNC89	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	protein-coding	2.5	7.0	8.5	96.5	71.5	22.5	29.5	29.5
Merged-chr2-160214768-4	chr2	160214670	160214870	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2c|LINE|L2	112724.0	NM_001033411	329554.0	Mm.291144	NM_001033411	ENSMUSG00000074623	Gm826	-	predicted gene 826	protein-coding	110.0	152.5	166.5	1768.0	210.5	98.5	129.0	118.5
Merged-chr2-167691106-2	chr2	167691006	167691206	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_015500)	promoter-TSS (NR_015500)	-71.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	12.0	12.5	13.5	247.5	33.5	15.0	11.0	23.0
Merged-chr8-82773731-3	chr8	82773629	82773829	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145600, intron 1 of 9)	intron (NM_145600, intron 1 of 9)	397.0	NM_145600	30932.0	Mm.269248	NM_145600	ENSMUSG00000031711	Zfp330	BC008086|Noa36|Znf330	zinc finger protein 330	protein-coding	26.5	28.0	14.5	210.5	49.5	13.5	22.5	18.0
Merged-chr15-28025148-4	chr15	28024988	28025188	+	942.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081302, intron 1 of 56)	CpG	760.0	NM_001081302	223435.0	Mm.485422	NM_001081302	ENSMUSG00000022263	Trio	6720464I07Rik|AA408740|Solo	triple functional domain (PTPRF interacting)	protein-coding	16.5	15.0	20.5	191.5	27.5	17.0	8.5	30.0
Merged-chr10-115385671-4	chr10	115385559	115385759	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033261, exon 1 of 35)	exon (NM_001033261, exon 1 of 35)	700.0	NM_001033261	216345.0	Mm.207621	NM_001033261	ENSMUSG00000034163	Zfc3h1	BC033596|Ccdc131|Psrc2	zinc finger, C3H1-type containing	protein-coding	40.0	61.0	91.0	775.5	109.5	55.0	66.0	78.0
Merged-chr7-49778346-4	chr7	49778237	49778437	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133740)	promoter-TSS (NM_133740)	-21.0	NM_133740	71974.0	Mm.33202	NM_133740	ENSMUSG00000030505	Prmt3	2010005E20Rik|2410018A17Rik|AL033309|Hrmt1l3	protein arginine N-methyltransferase 3	protein-coding	143.0	237.0	120.5	2465.0	301.0	127.0	148.0	151.5
Merged-chr8-72162798-4	chr8	72162709	72162909	+	999.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023126, intron 1 of 7)	intron (NM_023126, intron 1 of 7)	1609.0	NM_023126	17274.0	Mm.162811	NM_023126	ENSMUSG00000003037	Rab8a	AA409338|Mel	RAB8A, member RAS oncogene family	protein-coding	21.5	19.0	17.0	319.0	76.5	19.5	33.5	43.0
Merged-chr8-3328025-3	chr8	3327927	3328127	+	767.777771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-25388.0	NM_001033378	319493.0	Mm.234565	NM_001033378	ENSMUSG00000074497	A430078G23Rik	-	RIKEN cDNA A430078G23 gene	protein-coding	9.5	2.5	17.0	97.5	15.5	6.0	6.0	6.0
Merged-chr4-59822259-4	chr4	59822102	59822302	+	938.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172468, intron 1 of 8)	RMER6A|LTR|ERVK	16552.0	NM_172468	209131.0	Mm.259705	NM_172468	ENSMUSG00000028385	Snx30	4732481H14Rik|C030041J06Rik	sorting nexin family member 30	protein-coding	30.5	18.0	28.0	309.0	54.0	16.0	8.0	10.5
Merged-chr9-44569750-4	chr9	44569659	44569859	+	708.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35133.0	NM_001110826	13209.0	Mm.267061	NM_007841	ENSMUSG00000032097	Ddx6	1110001P04Rik|C430015D01Rik|E230023J21Rik|HLR2|mRCK/P54|p54|rck	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	protein-coding	4.0	8.0	3.0	71.5	17.5	8.5	12.5	6.0
Merged-chr3-89997991-2	chr3	89997891	89998091	+	1000.0	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_045749)	promoter-TSS (NR_045749)	112.0	NM_001310681	23897.0	Mm.256035	NM_011826	ENSMUSG00000027944	Hax1	HAX-1|HSP1BP-1|Hs1bp1|SIG-111|Silg111|mHAX-1s	HCLS1 associated X-1	protein-coding	6.5	16.0	6.0	53.5	38.5	8.5	8.0	9.0
Merged-chr10-98937930-3	chr10	98937819	98938019	+	732.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359507, intron 1 of 21)	intron (NM_001359507, intron 1 of 21)	22767.0	NM_026482	67972.0	Mm.166944	NM_026482	ENSMUSG00000019943	Atp2b1	2810442I22Rik|E130111D10Rik|Pmca1	ATPase, Ca++ transporting, plasma membrane 1	protein-coding	16.5	17.0	10.0	222.5	21.0	2.0	6.5	7.5
Merged-chr2-75731296-4	chr2	75731209	75731409	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-26646.0	NM_010902	18024.0	Mm.1025	NM_010902	ENSMUSG00000015839	Nfe2l2	Nrf2	nuclear factor, erythroid derived 2, like 2	protein-coding	125.0	205.0	84.0	1299.5	278.5	118.5	116.5	112.5
Merged-chr16-85162972-4	chr16	85162865	85163065	+	893.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 1 of 15)	MTEa|LTR|ERVL-MaLR	10742.0	NM_001198825	11820.0	Mm.277585	NM_007471	ENSMUSG00000022892	App	Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp	amyloid beta (A4) precursor protein	protein-coding	15.0	21.5	23.0	334.0	23.5	2.5	8.5	9.5
Merged-chr10-91154123-4	chr10	91154064	91154264	+	960.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001080129, intron 4 of 8)	intron (NM_001080129, intron 4 of 8)	16386.0	NM_001283048	21917.0	Mm.159684	NM_011605	ENSMUSG00000019961	Tmpo	5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP	thymopoietin	protein-coding	3.5	18.0	15.0	137.0	39.5	6.0	12.0	6.0
Merged-chr14-69823698-4	chr14	69823566	69823766	+	702.791626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16741.0	NM_028560	73523.0	Mm.23509	NM_028526	ENSMUSG00000022085	Pebp4	PEBP-4	phosphatidylethanolamine binding protein 4	protein-coding	9.0	15.5	14.0	112.5	18.5	4.5	5.0	7.0
Merged-chr7-88250579-4	chr7	88250483	88250683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx3A|LINE|L1	-27502.0	NM_009982	13032.0	Mm.89295	NM_009982	ENSMUSG00000030560	Ctsc	AI047818|CatC|DPP1|DPPI	cathepsin C	protein-coding	53.5	97.0	100.0	703.0	181.5	51.5	82.5	82.0
Merged-chr3-87617525-4	chr3	87617401	87617601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001003912)	promoter-TSS (NM_001003912)	-58.0	NM_001360197	213498.0	Mm.287267	NM_001003912	ENSMUSG00000041977	Arhgef11	PDZ-RhoGEF|Prg|RhoGEF|mKIAA0380	Rho guanine nucleotide exchange factor (GEF) 11	protein-coding	29.5	43.0	18.0	347.5	104.5	44.5	64.5	23.5
Merged-chr5-64883668-4	chr5	64883591	64883791	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	49008.0	NM_030682	21897.0	Mm.273024	NM_030682	ENSMUSG00000044827	Tlr1	-	toll-like receptor 1	protein-coding	22.5	44.5	18.0	186.0	98.5	30.0	15.0	34.0
Merged-chr4-156198063-4	chr4	156197991	156198191	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_021604)	promoter-TSS (NM_021604)	-603.0	NM_021604	11603.0	Mm.273098	NM_021604	ENSMUSG00000041936	Agrn	Agrin|nmf380	agrin	protein-coding	115.5	241.0	93.5	1954.5	379.0	144.0	209.5	105.5
Merged-chr2-168112150-3	chr2	168112054	168112254	+	728.111145	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	31150.0	NM_021409	58220.0	Mm.292834	NM_021409	ENSMUSG00000044641	Pard6b	AV025615|Par6b	par-6 family cell polarity regulator beta	protein-coding	7.5	3.5	0.0	35.5	16.0	7.0	4.5	6.0
Merged-chr3-37673970-4	chr3	37673870	37674070	+	906.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	34023.0	NM_011896	24063.0	Mm.330986	NM_011896	ENSMUSG00000037211	Spry1	sprouty1|spry-1	sprouty RTK signaling antagonist 1	protein-coding	13.5	22.5	13.5	388.5	30.5	9.5	21.0	10.0
Merged-chr9-53676329-2	chr9	53676229	53676429	+	872.416626	f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR13D3|LTR|ERVK	-8822.0	NM_027807	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	3.5	7.5	5.0	32.5	29.0	16.5	7.0	8.5
Merged-chr6-66973351-4	chr6	66973274	66973474	+	970.099976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177560, intron 3 of 4)	intron (NM_001177560, intron 3 of 4)	-63225.0	NR_040278	320172.0	Mm.449039	NR_040278	ENSMUSG00000087231	E230016M11Rik	-	RIKEN cDNA E230016M11 gene	ncRNA	14.5	33.5	33.5	504.5	48.0	9.5	48.5	19.0
Merged-chr8-90869648-5	chr8	90869555	90869755	+	864.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_177224, intron 2 of 39)	intron (NM_177224, intron 2 of 39)	40820.0	NM_177224	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	23.0	20.5	22.5	341.0	26.0	6.5	6.0	4.0
Merged-chr14-14003000-4	chr14	14002892	14003092	+	859.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9499.0	NM_139227	246103.0	Mm.133625	NM_139227	ENSMUSG00000021738	Atxn7	A430107N12Rik|AI627028|Sca7|ataxin-7	ataxin 7	protein-coding	11.0	10.0	13.5	234.0	20.5	8.0	10.5	9.0
Merged-chr14-40917860-4	chr14	40917810	40918010	+	917.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145928, intron 3 of 8)	intron (NM_145928, intron 3 of 8)	-24945.0	NM_177816	328381.0	Mm.235694	NM_177816	ENSMUSG00000037833	Sh2d4b	A430109M18Rik|D030001E08	SH2 domain containing 4B	protein-coding	11.5	22.5	5.0	280.0	36.0	10.5	13.5	10.5
Merged-chr5-135537951-4	chr5	135537866	135538066	+	869.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146001, intron 1 of 30)	MTEa|LTR|ERVL-MaLR	7156.0	NM_146001	215114.0	Mm.280805	NM_146001	ENSMUSG00000039959	Hip1	2610109B09Rik|A930014B11Rik|E130315I21Rik|mKIAA4113	huntingtin interacting protein 1	protein-coding	12.5	9.5	7.5	120.5	24.0	9.5	11.0	12.0
Merged-chr4-35099999-4	chr4	35099899	35100099	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178061, intron 1 of 3)	intron (NM_178061, intron 1 of 3)	-52056.0	NM_199157	387510.0	Mm.386929	NM_199157	ENSMUSG00000042993	Ifnk	-	interferon kappa	protein-coding	176.5	243.5	179.0	3583.0	399.5	147.0	204.5	155.5
Merged-chr17-55712647-4	chr17	55712556	55712756	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028370)	promoter-TSS (NM_028370)	-20.0	NR_151542	72836.0	Mm.177073	NM_028370	ENSMUSG00000024174	Pot1b	2810458H16Rik	protection of telomeres 1B	protein-coding	83.0	135.5	78.0	961.0	217.5	97.5	120.5	81.5
Merged-chr9-47529818-3	chr9	47529714	47529914	+	954.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310841)	promoter-TSS (NM_001310841)	-356.0	NM_001310841	54725.0	Mm.234832	NM_018770	ENSMUSG00000032076	Cadm1	2900073G06Rik|3100001I08Rik|AI987920|Bl2|Igsf4|Igsf4a|Necl2|RA175|RA175A|RA175B|RA175C|RA175N|ST17|SgIGSF|SynCam|Tslc1	cell adhesion molecule 1	protein-coding	12.5	15.0	15.5	121.0	29.5	13.5	19.5	20.0
Merged-chr8-79415081-4	chr8	79414978	79415178	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15610.0	NM_008539	17125.0	Mm.223717	NM_008539	ENSMUSG00000031681	Smad1	AI528653|Madh1|Madr1|Mlp1|MusMLP	SMAD family member 1	protein-coding	110.5	77.5	122.5	2507.0	187.0	44.0	76.5	81.0
Merged-chr6-3427287-3	chr6	3427182	3427382	+	930.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-27711.0	NM_010156	209086.0	Mm.196013	NM_010156	ENSMUSG00000047735	Samd9l	AA175286|ESTM25|mKIAA2005	sterile alpha motif domain containing 9-like	protein-coding	12.5	17.5	11.0	149.5	44.5	2.0	8.0	8.0
Merged-chr14-75787045-4	chr14	75786973	75787173	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026232)	promoter-TSS (NM_026232)	-36.0	NM_026232	67554.0	Mm.46067	NM_026232	ENSMUSG00000022003	Slc25a30	4933433D23Rik|AV025504|AV221431|AW319655|KMCP1	solute carrier family 25, member 30	protein-coding	187.0	257.0	179.0	2751.5	463.5	171.0	189.0	141.0
Merged-chr3-31133855-4	chr3	31133757	31133957	+	951.1083369999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B4A|SINE|B4	-16063.0	NM_008770	18417.0	Mm.4425	NM_008770	ENSMUSG00000037625	Cldn11	Claudin-11|Claudin11|Osp|Otm	claudin 11	protein-coding	23.5	16.0	29.0	447.0	31.0	15.0	16.0	25.0
Merged-chr1-160234781-3	chr1	160234680	160234880	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001038621, intron 6 of 8)	RMER6A|LTR|ERVK	-21888.0	NM_009786	12301.0	Mm.10702	NM_009786	ENSMUSG00000014226	Cacybp	SIP	calcyclin binding protein	protein-coding	22.5	35.5	22.0	345.5	2.0	5.5	3.0	6.0
Merged-chr4-141735103-4	chr4	141735003	141735203	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-11572.0	NM_001081408	75986.0	Mm.30032	NM_001081408	ENSMUSG00000040706	Agmat	5033405N08Rik	agmatine ureohydrolase (agmatinase)	protein-coding	54.5	44.5	37.0	591.0	145.5	77.5	83.0	54.5
Merged-chr11-74770800-4	chr11	74770703	74770903	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026197)	promoter-TSS (NM_026197)	-60.0	NM_026197	67493.0	Mm.45748	NM_026197	ENSMUSG00000010554	Mettl16	2610100D03Rik|2810013M15Rik|A830095F14Rik|AI846133|Mett10d	methyltransferase like 16	protein-coding	54.5	107.5	48.5	568.0	173.0	71.0	38.0	77.5
Merged-chr10-75298762-4	chr10	75298653	75298853	+	894.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153406, intron 13 of 15)	intron (NM_153406, intron 13 of 15)	-18124.0	NM_009630	11540.0	Mm.333734	NM_009630	ENSMUSG00000020178	Adora2a	A2AAR|A2aR|AA2AR	adenosine A2a receptor	protein-coding	8.0	21.0	12.5	195.0	25.0	8.5	17.0	12.5
Merged-chr5-4186992-4	chr5	4186883	4187083	+	758.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5384.0	NM_001042670	208595.0	Mm.129815	NM_001042670	ENSMUSG00000053178	Mterf1b	Gm9897	mitochondrial transcription termination factor 1b	protein-coding	8.0	9.0	5.5	75.5	17.5	13.0	13.0	10.0
Merged-chr4-133160430-3	chr4	133160323	133160523	+	907.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153423, intron 1 of 8)	RSINE1|SINE|B4	29790.0	NM_153423	242687.0	Mm.23566	NM_153423	ENSMUSG00000028868	Wasf2	AW742646|D4Ertd13e|WAVE2	WAS protein family, member 2	protein-coding	8.5	8.5	13.0	123.5	14.5	14.5	16.0	5.0
Merged-chr18-12973283-4	chr18	12973162	12973362	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008378, intron 1 of 10)	(CTCGG)n|Simple_repeat|Simple_repeat	-1198.0	NM_001357396	16210.0	Mm.8154	NM_008378	ENSMUSG00000024423	Impact	E430016J11Rik	impact, RWD domain protein	protein-coding	119.0	186.5	122.0	1811.5	336.5	134.5	138.5	102.5
Merged-chr7-31157183-4	chr7	31157065	31157265	+	965.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5193.0	NR_046062	100038516.0	Mm.387223	NR_046062	ENSMUSG00000100985	Gm10640	EG668322	predicted gene 10640	ncRNA	21.5	43.5	13.5	103.5	72.5	17.5	12.5	9.5
Merged-chr5-142908278-4	chr5	142908246	142908446	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1592.0	NM_007393	11461.0	Mm.328431	NM_007393	ENSMUSG00000029580	Actb	Actx|E430023M04Rik|beta-actin	actin, beta	protein-coding	4.0	17.0	4.5	49.0	38.5	16.5	7.0	18.0
Merged-chr3-103587522-4	chr3	103587419	103587619	+	877.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001276681, exon 3 of 8)	exon (NM_001276681, exon 3 of 8)	11393.0	NM_001276681	54524.0	Mm.88818	NM_018800	ENSMUSG00000027849	Syt6	3110037A08Rik|AW048930|sytVI	synaptotagmin VI	protein-coding	2.0	9.5	13.0	261.5	26.0	5.5	7.0	12.0
Merged-chr19-42144281-3	chr19	42144173	42144373	+	992.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3116.0	NM_183195	277010.0	Mm.206250	NM_183195	ENSMUSG00000044345	Marveld1	AI504298|Mrvldc1	MARVEL (membrane-associating) domain containing 1	protein-coding	36.0	70.5	21.5	165.5	10.0	8.0	5.5	9.5
Merged-chr8-117498454-6	chr8	117498401	117498601	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172285, intron 1 of 32)	CpG	226.0	NM_172285	234779.0	Mm.192699	NM_172285	ENSMUSG00000034330	Plcg2	PLC-gamma-2|PLCgamma2|Plcg-2	phospholipase C, gamma 2	protein-coding	25.5	27.5	27.0	378.5	43.5	25.5	14.5	24.0
Merged-chr5-138229739-4	chr5	138229629	138229829	+	971.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001013773, exon 2 of 6)	5' UTR (NM_001013773, exon 2 of 6)	3825.0	NM_001013773	381680.0	Mm.156846	NM_001013773	ENSMUSG00000047592	Nxpe5	-	neurexophilin and PC-esterase domain family, member 5	protein-coding	47.0	43.0	39.5	863.0	68.5	12.0	23.5	24.5
Merged-chr8-11038525-4	chr8	11038420	11038620	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_046017, intron 1 of 4)	intron (NR_046017, intron 1 of 4)	-30090.0	NM_001081212	384783.0	Mm.407207	NM_001081212	ENSMUSG00000038894	Irs2	Irs-2	insulin receptor substrate 2	protein-coding	49.5	59.0	48.0	1071.0	92.5	27.5	50.5	56.0
Merged-chr7-29491211-3	chr7	29491110	29491310	+	955.361084	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081028, intron 2 of 22)	intron (NM_001081028, intron 2 of 22)	14250.0	NM_001081028	74206.0	Mm.447042	NM_001081028	ENSMUSG00000030583	Sipa1l3	2610511M17Rik	signal-induced proliferation-associated 1 like 3	protein-coding	10.5	6.5	5.5	68.0	48.0	15.5	19.0	13.0
Merged-chr12-81657807-4	chr12	81657705	81657905	+	918.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001033149, intron 1 of 2)	intron (NM_001033149, intron 1 of 2)	26556.0	NM_001033149	69480.0	Mm.130002	NM_001033149	ENSMUSG00000042734	Ttc9	-	tetratricopeptide repeat domain 9	protein-coding	13.5	14.5	11.5	143.5	43.5	16.5	9.5	15.5
Merged-chr16-30776462-4	chr16	30776358	30776558	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	176735.0	NM_177632	224093.0	Mm.28244	NM_177632	ENSMUSG00000046546	Fam43a	Tuf1	family with sequence similarity 43, member A	protein-coding	33.0	29.5	74.5	824.0	73.0	9.0	55.5	34.0
Merged-chr6-108165106-4	chr6	108164992	108165192	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145937, intron 3 of 8)	intron (NM_145937, intron 3 of 8)	20491.0	NM_145937	58911.0	Mm.439876	NM_145937	ENSMUSG00000030101	Sumf1	AA543204|AI463102|AI851573|FGE	sulfatase modifying factor 1	protein-coding	45.5	44.0	61.5	830.5	200.0	76.0	100.0	58.5
Merged-chr11-76587547-4	chr11	76587439	76587639	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9800.0	NM_198894	109934.0	Mm.258939	NM_198018	ENSMUSG00000017631	Abr	-	active BCR-related gene	protein-coding	111.5	185.0	117.0	1604.0	265.5	105.5	113.5	108.0
Merged-chr10-63023301-3	chr10	63023194	63023394	+	986.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001079824, intron 1 of 9)	CpG	555.0	NM_001079824	432467.0	Mm.274784	NM_001079824	ENSMUSG00000020069	Hnrnph3	AA693301|AI666703|Hnrph3	heterogeneous nuclear ribonucleoprotein H3	protein-coding	16.0	16.0	17.0	179.5	47.0	11.0	16.5	22.0
Merged-chr8-72712750-4	chr8	72712668	72712868	+	984.6666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_176940, exon 19 of 19)	3' UTR (NM_176940, exon 19 of 19)	-10502.0	NM_001113248	20467.0	Mm.2137	NM_009188	ENSMUSG00000031622	Sin3b	2810430C10Rik	transcriptional regulator, SIN3B (yeast)	protein-coding	23.0	27.5	28.0	333.5	50.5	13.0	47.0	21.5
Merged-chr13-101712223-3	chr13	101712131	101712331	+	752.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077495, intron 2 of 15)	intron (NM_001077495, intron 2 of 15)	-19601.0	NM_001024955	18708.0	Mm.259333	NM_001024955	ENSMUSG00000041417	Pik3r1	PI3K|p50alpha|p55alpha|p85alpha	phosphoinositide-3-kinase regulatory subunit 1	protein-coding	10.5	6.0	11.5	214.0	30.5	7.0	4.0	5.0
Merged-chr5-120887665-2	chr5	120887565	120887765	+	929.1666869999999	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011852)	promoter-TSS (NM_011852)	-52.0	NR_126529	23960.0	Mm.389688	NM_011852	ENSMUSG00000066861	Oas1g	AI449562|L2|Mmu-L|Mmu-L2|Oas1b|Oias-1|Oias1	2'-5' oligoadenylate synthetase 1G	protein-coding	8.5	8.5	11.0	86.5	19.0	2.0	4.0	7.5
Merged-chr18-68300326-4	chr18	68300246	68300446	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026440)	promoter-TSS (NM_026440)	-9.0	NM_026440	67897.0	Mm.27544	NM_026440	ENSMUSG00000009535	Rnmt	2610002P10Rik|AI848273|Rg7mt1|mKIAA0398	RNA (guanine-7-) methyltransferase	protein-coding	163.5	298.5	177.0	3182.5	524.5	196.0	253.0	241.0
Merged-chr7-107594048-4	chr7	107593952	107594152	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008905)	promoter-TSS (NM_008905)	-999.0	NM_008905	19024.0	Mm.2817	NM_008905	ENSMUSG00000036528	Ppfibp2	Cclp1	PTPRF interacting protein, binding protein 2 (liprin beta 2)	protein-coding	69.0	102.0	61.5	1366.0	162.5	50.0	96.0	81.5
Merged-chr5-65577051-3	chr5	65576964	65577164	+	886.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016786, intron 3 of 6)	B1_Mur4|SINE|Alu	39819.0	NM_001310619	53323.0	Mm.319512	NM_016786	ENSMUSG00000029203	Ube2k	AW492011|D5Ertd601e|E2-25k|HIP-2|Hip2|Hypg|Lig	ubiquitin-conjugating enzyme E2K	protein-coding	9.5	10.5	5.5	132.0	15.0	5.0	4.5	8.5
Merged-chr15-96654931-4	chr15	96654818	96655018	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1E|LTR|ERVL-MaLR	-12005.0	NM_001166458	105727.0	Mm.103568	NM_134086	ENSMUSG00000023169	Slc38a1	AA408026|AA409865|AL022800|AU015942|NAT2	solute carrier family 38, member 1	protein-coding	40.0	56.5	57.5	903.0	109.0	37.0	93.5	88.5
Merged-chr11-115700426-4	chr11	115700327	115700527	+	965.166626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001313937)	promoter-TSS (NM_001313937)	-499.0	NM_001313936	14784.0	Mm.439649	NM_008163	ENSMUSG00000059923	Grb2	AA408164|Ash	growth factor receptor bound protein 2	protein-coding	29.0	41.0	19.0	279.5	75.0	33.5	27.5	17.0
Merged-chr12-57464882-3	chr12	57464791	57464991	+	994.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	81220.0	NM_008259	15375.0	Mm.4578	NM_008259	ENSMUSG00000035451	Foxa1	Hnf-3a|Hnf3a|Tcf-3a|Tcf3a	forkhead box A1	protein-coding	15.0	35.0	37.0	467.0	0.0	0.0	1.5	0.0
Merged-chr3-95893869-4	chr3	95893790	95893990	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_146134)	promoter-TSS (NM_146134)	-31.0	NM_146104	226548.0	Mm.306954	NM_146104	ENSMUSG00000015750	Aph1a	6530402N02Rik|APH-1a	aph1 homolog A, gamma secretase subunit	protein-coding	136.0	235.5	108.0	1513.5	286.5	98.5	144.5	100.0
Merged-chr16-84990089-4	chr16	84990002	84990202	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198825, intron 12 of 15)	intron (NM_001198825, intron 12 of 15)	17891.0	NR_045889	100038614.0	Mm.441351	NR_045889	ENSMUSG00000115518	Gm10791	-	predicted gene 10791	ncRNA	60.0	81.0	82.0	1534.5	108.5	27.5	64.5	53.0
Merged-chr17-27820717-4	chr17	27820617	27820817	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001271511)	promoter-TSS (NM_001271511)	-175.0	NM_001271511	224647.0	Mm.196577	NM_001033279	ENSMUSG00000056692	D17Wsu92e	AU020189|C030010A15|C80239	DNA segment, Chr 17, Wayne State University 92, expressed	protein-coding	155.5	295.0	170.0	1737.0	462.5	223.5	191.5	151.5
Merged-chr15-76783823-4	chr15	76783779	76783979	+	801.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_198420, intron 1 of 10)	intron (NM_198420, intron 1 of 10)	34291.0	NM_001168288	223666.0	Mm.322931	NM_198420	ENSMUSG00000033697	Arhgap39	9530053N22|AI843066|D15Wsu169e|Kiaa1688|Porf-2	Rho GTPase activating protein 39	protein-coding	9.0	6.0	17.5	176.5	12.0	6.5	9.0	8.5
Merged-chr11-62693477-2	chr11	62693377	62693577	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	35616.0	NM_133208	170740.0	Mm.339982	NM_133208	ENSMUSG00000005267	Zfp287	B230333C16Rik|SKAT-2|Skat2|Znf287|mszf16|mszf74	zinc finger protein 287	protein-coding	6.0	12.0	6.5	67.0	19.5	7.5	8.0	8.5
Merged-chr8-83442572-4	chr8	83442483	83442683	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019708)	promoter-TSS (NM_019708)	79.0	NM_001285992	56367.0	Mm.246911	NM_019708	ENSMUSG00000063253	Scoc	0610011C06Rik|2810002J11Rik|AA415030|SCOCO	short coiled-coil protein	protein-coding	134.5	168.5	99.0	1694.0	240.5	96.5	123.5	78.0
Merged-chr8-88662522-4	chr8	88662431	88662631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145857, intron 3 of 12)	intron (NM_145857, intron 3 of 12)	15184.0	NM_145857	257632.0	Mm.222633	NM_145857	ENSMUSG00000055994	Nod2	ACUG|BLAU|CD|Card15|F830032C23Rik|IBD1|Nlrc2	nucleotide-binding oligomerization domain containing 2	protein-coding	209.5	336.5	222.5	2916.5	567.5	196.5	278.0	235.0
Merged-chr7-49462686-4	chr7	49462585	49462785	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175272, intron 9 of 37)	intron (NM_175272, intron 9 of 37)	174150.0	NM_001005232	13172.0	Mm.307176	NM_001005232	ENSMUSG00000030507	Dbx1	AI426026|Dbx	developing brain homeobox 1	protein-coding	70.0	116.5	74.0	1469.0	178.5	47.0	43.0	58.5
Merged-chr4-129542782-4	chr4	129542696	129542896	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008228)	promoter-TSS (NM_008228)	-150.0	NM_008228	433759.0	Mm.202504	NM_008228	ENSMUSG00000028800	Hdac1	HD1|Hdac1-ps|MommeD5|RPD3	histone deacetylase 1	protein-coding	141.5	178.5	90.0	1591.5	247.0	82.5	114.0	110.5
Merged-chr4-137609443-3	chr4	137609348	137609548	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355588, intron 6 of 26)	intron (NM_001355588, intron 6 of 26)	15276.0	NM_130879	170707.0	Mm.218478	NM_130879	ENSMUSG00000043411	Usp48	2810449C13Rik|AI115503|BC021769|D330022K21Rik|Usp31	ubiquitin specific peptidase 48	protein-coding	5.5	7.0	11.5	119.0	9.0	5.0	6.5	7.5
Merged-chr11-87073446-3	chr11	87073315	87073515	+	898.4166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025638, intron 1 of 9)	intron (NM_025638, intron 1 of 9)	722.0	NM_025638	66569.0	Mm.281887	NM_025638	ENSMUSG00000061666	Gdpd1	2610020H15Rik	glycerophosphodiester phosphodiesterase domain containing 1	protein-coding	8.0	8.5	6.0	67.0	17.5	7.5	5.0	8.5
Merged-chr11-53463716-2	chr11	53463616	53463816	+	853.0	f1_balb.idr|f1_c57bl6.idr	exon (NM_001290789, exon 2 of 7)	exon (NM_001290789, exon 2 of 7)	6511.0	NM_027917	71774.0	Mm.274370	NM_027917	ENSMUSG00000018387	Shroom1	Apx|Shrm1	shroom family member 1	protein-coding	6.5	5.5	11.0	104.5	14.0	7.5	4.0	5.5
Merged-chr2-11524027-4	chr2	11523932	11524132	+	931.650024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001177758, intron 1 of 14)	intron (NM_001177758, intron 1 of 14)	-21942.0	NM_001177757	170768.0	Mm.19669	NM_133232	ENSMUSG00000026773	Pfkfb3	E330010H22Rik|iPFK-2|uPFK-2	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	protein-coding	23.0	37.5	12.0	99.0	75.5	31.0	38.5	41.5
Merged-chr8-36958122-3	chr8	36957978	36958178	+	721.799988	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	(CCCCCA)n|Simple_repeat|Simple_repeat	-5636.0	NM_001194940	50768.0	Mm.125155	NM_015802	ENSMUSG00000031523	Dlc1	A730069N07Rik|Arhgap7|HP|STARD12|dlc-1	deleted in liver cancer 1	protein-coding	1.0	0.0	1.0	1.5	33.0	12.5	12.5	10.0
Merged-chr12-85305674-4	chr12	85305579	85305779	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145138, intron 19 of 21)	intron (NM_145138, intron 19 of 21)	17088.0	NM_172414	72350.0	Mm.158810	NM_172414	ENSMUSG00000045064	Zc2hc1c	2810002I04Rik|AV046379|Fam164c	zinc finger, C2HC-type containing 1C	protein-coding	21.0	28.5	17.0	399.0	81.5	30.0	22.0	36.0
Merged-chr17-66123637-4	chr17	66123572	66123772	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001348292, exon 1 of 27)	5' UTR (NM_001348292, exon 1 of 27)	152.0	NM_001348292	320209.0	Mm.259605	NM_001003919	ENSMUSG00000035842	Ddx11	4732462I11Rik|CHL1|CHLR1|KRG2|essa15a	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	protein-coding	64.0	90.0	78.5	921.5	123.0	58.5	69.0	69.5
Merged-chr6-13839326-4	chr6	13839234	13839434	+	930.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145066, intron 1 of 3)	intron (NM_145066, intron 1 of 3)	608.0	NM_001330666	64450.0	Mm.167625	NM_145066	ENSMUSG00000048216	Gpr85	2900026B03Rik	G protein-coupled receptor 85	protein-coding	15.5	22.5	9.5	259.0	37.0	8.5	28.0	10.5
Merged-chr4-130915574-4	chr4	130915481	130915681	+	740.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010686, intron 1 of 7)	intron (NM_010686, intron 1 of 7)	2247.0	NM_010686	16792.0	Mm.271868	NM_010686	ENSMUSG00000028581	Laptm5	E3|Stra13	lysosomal-associated protein transmembrane 5	protein-coding	13.5	6.5	5.5	80.0	11.0	5.5	9.5	10.5
Merged-chr11-60935477-4	chr11	60935378	60935578	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008928, intron 1 of 11)	intron (NM_008928, intron 1 of 11)	3421.0	NM_008928	26397.0	Mm.18494	NM_008928	ENSMUSG00000018932	Map2k3	AW212142|MEK3|MKK3|Prkmk3|mMKK3b	mitogen-activated protein kinase kinase 3	protein-coding	80.0	127.5	55.5	924.5	224.0	102.5	87.0	78.0
Merged-chr5-146247863-4	chr5	146247736	146247936	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_153599, intron 1 of 12)	L1MB8|LINE|L1	16586.0	NM_153599	264064.0	Mm.260576	NM_153599	ENSMUSG00000029635	Cdk8	-	cyclin-dependent kinase 8	protein-coding	94.0	145.5	107.0	1524.5	219.5	86.0	112.0	119.5
Merged-chr1-84437757-4	chr1	84437669	84437869	+	802.666687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_152915, intron 8 of 12)	intron (NM_152915, intron 8 of 12)	-153124.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	15.5	13.5	13.0	231.0	43.5	10.5	12.0	18.5
Merged-chr8-117252864-4	chr8	117252750	117252950	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-4169.0	NM_001163262	74440.0	Mm.233181	NM_028941	ENSMUSG00000034390	Cmip	4933407C03Rik|5830471E12Rik|AI314065|AI464126	c-Maf inducing protein	protein-coding	111.0	127.0	90.5	1545.0	260.5	83.0	95.5	97.5
Merged-chr10-126869819-4	chr10	126869729	126869929	+	799.0625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026858, intron 5 of 5)	intron (NM_026858, intron 5 of 5)	31542.0	NM_026858	68876.0	Mm.276769	NM_026858	ENSMUSG00000025436	Atp23	1110068E08Rik|2410012H02Rik|Xrcc6bp1	ATP23 metallopeptidase and ATP synthase assembly factor homolog	protein-coding	7.5	14.5	6.5	185.5	32.0	11.5	7.0	6.0
Merged-chr6-70871678-4	chr6	70871567	70871767	+	967.7999880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010121, intron 2 of 16)	intron (NM_010121, intron 2 of 16)	27152.0	NM_001313918	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	12.5	23.0	20.0	258.0	35.0	9.5	5.5	14.5
Merged-chr10-67766344-2	chr10	67766244	67766444	+	832.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	146318.0	NM_178679	216049.0	Mm.268346	NM_178679	ENSMUSG00000037855	Zfp365	AI839779|AV340892|DBZ|Su48|Znf365|talanin	zinc finger protein 365	protein-coding	5.5	6.0	3.5	72.5	26.0	5.0	7.0	5.5
Merged-chr4-156033681-4	chr4	156033634	156033834	+	935.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7412.0	NM_021985	21936.0	Mm.3180	NM_009400	ENSMUSG00000041954	Tnfrsf18	AITR|Gitr	tumor necrosis factor receptor superfamily, member 18	protein-coding	6.0	9.0	10.5	66.0	28.0	10.0	12.0	22.5
Merged-chr15-97784302-4	chr15	97784195	97784395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026353)	promoter-TSS (NM_026353)	-70.0	NM_026353	67739.0	Mm.28955	NM_026353	ENSMUSG00000081534	Slc48a1	4930570C03Rik	solute carrier family 48 (heme transporter), member 1	protein-coding	70.5	100.0	54.0	812.5	144.5	36.0	102.5	54.5
Merged-chr10-91082880-4	chr10	91082791	91082991	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009684)	promoter-TSS (NM_009684)	-148.0	NM_009684	11783.0	Mm.220289	NM_009684	ENSMUSG00000019979	Apaf1	6230400I06Rik|Apaf-1|Apaf1l|fog|mKIAA0413	apoptotic peptidase activating factor 1	protein-coding	305.5	504.0	352.5	4716.5	745.0	316.5	320.5	272.0
Merged-chr10-9907692-3	chr10	9907575	9907775	+	952.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6635.0	NM_001081344	78808.0	Mm.331751	NM_030191	ENSMUSG00000019790	Stxbp5	0710001E20Rik|4930565N16Rik|AW742610|LGL3|mKIAA1006	syntaxin binding protein 5 (tomosyn)	protein-coding	12.5	18.0	9.0	308.0	17.5	11.0	11.5	8.0
Merged-chr7-141170063-4	chr7	141169965	141170165	+	921.55835	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172100, intron 1 of 9)	RMER5|LTR|ERV1	-1129.0	NM_145135	107702.0	Mm.197493	NM_145135	ENSMUSG00000038650	Rnh1	AW546468|C80305|RNH	ribonuclease/angiogenin inhibitor 1	protein-coding	16.5	26.5	21.5	445.5	44.5	13.0	25.5	22.5
Merged-chr5-99298147-4	chr5	99298056	99298256	+	998.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_030692, exon 4 of 4)	non-coding (NR_030692, exon 4 of 4)	-45229.0	NM_145839	320292.0	Mm.259074	NM_145839	ENSMUSG00000089809	Rasgef1b	4732452O09Rik|GPIgamma4|Gpig4	RasGEF domain family, member 1B	protein-coding	29.0	25.5	22.0	517.0	61.5	23.0	41.5	33.5
Merged-chr1-131931017-4	chr1	131930900	131931100	+	943.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001145804, intron 6 of 6)	intron (NM_001145804, intron 6 of 6)	20542.0	NM_175294	98415.0	Mm.246869	NM_175294	ENSMUSG00000026434	Nucks1	2700010L10Rik|8430423A01Rik|AI647518|C78391|Nucks	nuclear casein kinase and cyclin-dependent kinase substrate 1	protein-coding	12.5	16.5	11.0	162.0	49.0	8.0	14.0	16.0
Merged-chr2-163756002-3	chr2	163755901	163756101	+	907.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5762.0	NM_001272052	11486.0	Mm.388	NM_007398	ENSMUSG00000017697	Ada	-	adenosine deaminase	protein-coding	11.0	13.0	22.5	747.5	2.5	0.5	0.0	3.0
Merged-chr16-91366801-4	chr16	91366716	91366916	+	896.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5967.0	NM_010509	15976.0	Mm.6834	NM_010509	ENSMUSG00000022971	Ifnar2	AI747302|Ifnar-2	interferon (alpha and beta) receptor 2	protein-coding	18.0	12.5	5.5	141.5	27.5	6.0	10.5	12.0
Merged-chr4-129188974-4	chr4	129188856	129189056	+	913.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134151)	promoter-TSS (NM_134151)	586.0	NM_029036	74648.0	Mm.172064	NM_029036	ENSMUSG00000040928	S100pbp	4930429A08Rik|AI851343|S100pbpr	S100P binding protein	protein-coding	12.0	8.5	8.5	47.0	41.0	12.0	20.5	13.0
Merged-chr11-59165873-4	chr11	59165787	59165987	+	999.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2142.0	NM_173785	216792.0	Mm.266175	NM_173785	ENSMUSG00000049287	Iba57	4930543L23Rik|A230051G13Rik|C1orf69	IBA57 homolog, iron-sulfur cluster assembly	protein-coding	41.0	32.0	28.0	489.0	40.0	17.0	26.0	35.5
Merged-chr7-131410580-4	chr7	131410480	131410680	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025826)	promoter-TSS (NM_025826)	-21.0	NM_025826	66885.0	Mm.334274	NM_025826	ENSMUSG00000030861	Acadsb	1300003O09Rik|2-MEBCAD|BB066609|SBCAD	acyl-Coenzyme A dehydrogenase, short/branched chain	protein-coding	211.5	379.5	194.5	2906.0	722.0	274.5	257.0	261.0
Merged-chr7-16257992-4	chr7	16257890	16258090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001173550, intron 1 of 1)	intron (NM_001173550, intron 1 of 1)	1348.0	NM_001173550	12273.0	Mm.247623	NM_007577	ENSMUSG00000049130	C5ar1	C5aR|C5r1|Cd88|D7Msu1	complement component 5a receptor 1	protein-coding	140.0	324.5	210.5	2327.0	430.0	171.5	215.5	91.0
Merged-chr12-74009651-1	chr12	74009551	74009751	+	549.0	f0_balb.idr	intron (NM_172804, intron 1 of 6)	intron (NM_172804, intron 1 of 6)	11890.0	NM_172804	238266.0	Mm.311393	NM_172804	ENSMUSG00000044912	Syt16	6430703N11|Strep14|Syt14l|syt14r	synaptotagmin XVI	protein-coding	9.5	5.0	5.5	69.0	2.5	11.0	2.5	2.0
Merged-chr1-21830117-3	chr1	21830042	21830242	+	768.944458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023872, intron 1 of 13)	intron (NM_023872, intron 1 of 13)	131800.0	NM_001160139	226922.0	Mm.336519	NM_023872	ENSMUSG00000028033	Kcnq5	7730402H11|9230107O05Rik|AA589396|D1Mgi1	potassium voltage-gated channel, subfamily Q, member 5	protein-coding	5.0	10.0	5.0	138.0	18.0	0.5	3.0	4.0
Merged-chr3-109251980-4	chr3	109251890	109252090	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-88693.0	NM_020505	57257.0	Mm.282257	NM_020505	ENSMUSG00000033721	Vav3	A530094I06Rik|AA986410|Idd18.1	vav 3 oncogene	protein-coding	51.0	47.0	34.0	796.5	124.0	39.0	45.0	84.0
Merged-chr9-105122043-1	chr9	105121943	105122143	+	777.75	f0_balb.idr	Intergenic	Intergenic	9762.0	NM_029385	75686.0	Mm.305810	NM_029385	ENSMUSG00000032565	Nudt16	2310041H06Rik|2810047L04Rik|2900006H04Rik|AI851783	nudix (nucleoside diphosphate linked moiety X)-type motif 16	protein-coding	4.5	7.5	5.5	106.5	5.5	2.0	2.5	3.5
Merged-chr18-82693023-4	chr18	82692930	82693130	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_177832)	promoter-TSS (NM_177832)	-296.0	NM_177832	329002.0	Mm.34438	NM_177832	ENSMUSG00000041258	Zfp236	AI447957|Gm335	zinc finger protein 236	protein-coding	31.5	40.5	51.5	584.5	73.5	20.0	26.5	41.0
Merged-chr2-62654729-4	chr2	62654626	62654826	+	877.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-8471.0	NM_001164477	71586.0	Mm.136224	NM_027835	ENSMUSG00000026896	Ifih1	9130009C22Rik|Helicard|Hlcd|MDA5|RLR-2	interferon induced with helicase C domain 1	protein-coding	14.0	14.0	11.0	239.5	30.0	14.0	12.5	15.5
Merged-chr10-120167673-4	chr10	120167561	120167761	+	850.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359184, intron 6 of 11)	RLTR28|LTR|ERVL	33936.0	NM_028679	73914.0	Mm.146194	NM_028679	ENSMUSG00000020227	Irak3	4833428C18Rik|AI563835|IRAK-M	interleukin-1 receptor-associated kinase 3	protein-coding	4.5	13.5	5.0	96.5	53.5	4.5	16.5	17.0
Merged-chr9-99385420-5	chr9	99385232	99385432	+	766.099976	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	TTS (NM_008624)	TTS (NM_008624)	-26802.0	NM_177775	272636.0	Mm.490440	NM_177775	ENSMUSG00000037681	Esyt3	D930024E11|D9Ertd280e|Fam62c|mKIAA4186	extended synaptotagmin-like protein 3	protein-coding	9.5	10.0	5.0	54.0	17.0	6.5	4.5	7.0
Merged-chr4-95053367-4	chr4	95053278	95053478	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1156.0	NM_010591	16476.0	Mm.275071	NM_010591	ENSMUSG00000052684	Jun	AP-1|Junc|c-jun	jun proto-oncogene	protein-coding	90.5	143.5	124.5	1569.5	302.0	98.5	147.0	109.5
Merged-chr14-14348629-7	chr14	14348529	14348729	+	853.81427	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008369, intron 3 of 11)	intron (NM_008369, intron 3 of 11)	2134.0	NM_008369	16188.0	Mm.425857	NM_008369	ENSMUSG00000068758	Il3ra	CD123|CDw123|SUT-1	interleukin 3 receptor, alpha chain	protein-coding	4.0	10.0	5.5	52.5	8.0	8.0	9.0	9.5
Merged-chr16-20694675-4	chr16	20694580	20694780	+	926.033325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133778)	promoter-TSS (NM_133778)	-377.0	NM_133778	78408.0	Mm.196512	NM_133778	ENSMUSG00000050821	Fam131a	2900046G09Rik	family with sequence similarity 131, member A	protein-coding	25.5	43.5	24.5	143.0	42.5	16.0	28.5	15.0
Merged-chr10-68249510-4	chr10	68249424	68249624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023598, intron 2 of 9)	intron (NM_023598, intron 2 of 9)	29202.0	NM_023598	71371.0	Mm.440357	NM_023598	ENSMUSG00000019947	Arid5b	4930580B11|5430435G07Rik|AI467247|Desrt|Mrf2|Mrf2alpha|Mrf2beta	AT rich interactive domain 5B (MRF1-like)	protein-coding	99.0	170.0	115.5	887.5	235.5	89.5	75.5	63.5
Merged-chr15-63540416-4	chr15	63540333	63540533	+	893.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ORR1F|LTR|ERVL-MaLR	-60825.0	NR_045279	432958.0	Mm.255105	NR_045279	ENSMUSG00000115520	Gm20740	-	predicted gene, 20740	ncRNA	46.0	34.0	70.0	1170.5	22.0	6.0	15.0	9.5
Merged-chr17-8468973-1	chr17	8468873	8469073	+	704.333313	f0_balb.idr	Intergenic	Intergenic	34550.0	NM_009309	20997.0	Mm.913	NM_009309	ENSMUSG00000062327	T	Bra|D17Mit170|Low|Lr|T1|Tbxt|Tl2|Tl3|cou|me75	brachyury, T-box transcription factor T	protein-coding	12.0	7.0	10.5	79.5	1.5	3.0	2.0	3.5
Merged-chr16-18626677-4	chr16	18626552	18626752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_213614, intron 2 of 11)	CpG	3286.0	NM_213614	18951.0	Mm.20365	NM_213614	ENSMUSG00000072214	Sept5	Cdcrel-1|Cdcrel1|Pnutl1	septin 5	protein-coding	45.5	72.5	34.0	640.5	60.0	18.5	34.0	29.0
Merged-chr2-137116903-4	chr2	137116839	137117039	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013822)	promoter-TSS (NM_013822)	-419.0	NM_013822	16449.0	Mm.22398	NM_013822	ENSMUSG00000027276	Jag1	ABE2|Gsfabe2|Htu|Ozz|Ser-1	jagged 1	protein-coding	32.0	49.0	78.5	808.0	31.5	22.0	20.5	17.5
Merged-chr4-141161611-4	chr4	141161509	141161709	+	963.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172518, intron 1 of 9)	intron (NM_172518, intron 1 of 9)	13687.0	NM_172518	213499.0	Mm.28865	NM_172518	ENSMUSG00000028920	Fbxo42	6720460I06Rik|mKIAA1332	F-box protein 42	protein-coding	12.5	30.5	42.5	428.0	50.5	11.0	30.0	21.0
Merged-chr17-34028111-4	chr17	34028013	34028213	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013543)	promoter-TSS (NM_013543)	-58.0	NM_013543	14979.0	Mm.275452	NM_013543	ENSMUSG00000073422	H2-Ke6	D17H6S112E|H-2Ke6|Hsd17b8|Ke-6|Ke6|Ring2	H2-K region expressed gene 6	protein-coding	60.5	123.5	60.5	987.0	210.5	51.0	76.0	51.0
Merged-chr4-46087699-2	chr4	46087600	46087800	+	732.666626	f1_balb.idr|f1_c57bl6.idr	intron (NM_021883, intron 4 of 9)	intron (NM_021883, intron 4 of 9)	48478.0	NM_021883	21916.0	Mm.249594	NM_021883	ENSMUSG00000028328	Tmod1	E-Tmod|Tmod	tropomodulin 1	protein-coding	14.5	12.5	5.0	53.0	9.5	1.5	2.5	6.0
Merged-chr9-123991706-3	chr9	123991601	123991801	+	685.633362	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-13293.0	NM_007718	12770.0	Mm.423532	NM_007718	ENSMUSG00000064039	Ccr1l1	Cmkbr1l1	chemokine (C-C motif) receptor 1-like 1	protein-coding	7.5	12.5	7.0	132.0	17.0	1.5	7.0	6.5
Merged-chr18-58568525-4	chr18	58568459	58568659	+	965.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001081072, intron 1 of 9)	intron (NM_001081072, intron 1 of 9)	12319.0	NM_001081072	225579.0	Mm.258517	NM_001081072	ENSMUSG00000024600	Slc27a6	4732438L20Rik|FACVL2|FATP6|VLCS-H1	solute carrier family 27 (fatty acid transporter), member 6	protein-coding	18.5	26.0	18.0	250.0	31.5	12.5	15.0	8.0
Merged-chr8-120078284-3	chr8	120078204	120078404	+	801.666687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	23168.0	NM_133967	102193.0	Mm.240076	NM_133967	ENSMUSG00000031823	Zdhhc7	AL024087|Gramp2	zinc finger, DHHC domain containing 7	protein-coding	5.5	8.0	7.0	85.0	7.5	4.5	14.0	4.5
Merged-chr1-73902466-4	chr1	73902354	73902554	+	815.916687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37988.0	NR_045311	109198.0	Mm.359721	NR_045311	ENSMUSG00000100301	6030407O03Rik	-	RIKEN cDNA 6030407O03 gene	ncRNA	9.0	9.0	8.0	211.0	18.0	9.0	9.0	16.5
Merged-chr8-41017749-4	chr8	41017641	41017841	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_015457, exon 1 of 3)	non-coding (NR_015457, exon 1 of 3)	273.0	NR_015457	78849.0	Mm.440930	NR_015457	ENSMUSG00000084960	B430010I23Rik	-	RIKEN cDNA B430010I23 gene	ncRNA	63.0	101.0	74.0	1352.5	315.5	122.0	153.0	143.5
Merged-chr11-94340395-2	chr11	94340280	94340480	+	666.166626	f0_balb.idr|f0_c57.idr	TTS (NM_146024)	TTS (NM_146024)	12379.0	NM_146024	71452.0	Mm.141054	NM_027799	ENSMUSG00000020864	Ankrd40	1110011C06Rik|5530600A18Rik|Gcap15	ankyrin repeat domain 40	protein-coding	11.5	17.5	3.0	114.5	11.5	5.5	8.5	7.0
Merged-chr14-64187551-4	chr14	64187450	64187650	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001253715, intron 4 of 4)	intron (NM_001253715, intron 4 of 4)	83227.0	NM_028525	73382.0	Mm.481055	NM_028525	ENSMUSG00000021966	Prss52	1700049K14Rik|Tesp3	protease, serine 52	protein-coding	21.0	37.0	25.5	504.5	44.5	21.5	25.5	22.0
Merged-chr12-76370441-4	chr12	76370338	76370538	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001172104)	promoter-TSS (NM_001172104)	172.0	NM_178744	268564.0	Mm.77065	NM_178744	ENSMUSG00000033454	Zbtb1	9430077A12|AI256369|Bsg2|C430003J21Rik	zinc finger and BTB domain containing 1	protein-coding	89.0	125.5	88.5	1433.0	222.5	57.5	134.5	114.0
Merged-chr1-46852859-4	chr1	46852757	46852957	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356416, intron 1 of 10)	CpG	761.0	NM_001356416	227059.0	Mm.233889	NM_172653	ENSMUSG00000025986	Slc39a10	2900042E17Rik|5430433I10|Zip10|mKIAA1265	solute carrier family 39 (zinc transporter), member 10	protein-coding	69.5	60.0	73.0	888.0	165.5	48.5	88.0	66.0
Merged-chr4-43578699-4	chr4	43578584	43578784	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172866)	promoter-TSS (NM_172866)	-51.0	NM_172866	242406.0	Mm.259311	NM_172866	ENSMUSG00000028468	Rgp1	1110029E03Rik|AI527196|F730001J03|mKIAA0258	RAB6A GEF compex partner 1	protein-coding	74.0	91.5	47.5	914.5	115.0	46.5	69.0	63.0
Merged-chr1-82839460-4	chr1	82839357	82839557	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010472)	promoter-TSS (NM_010472)	-3.0	NM_010472	15463.0	Mm.392569	NM_010472	ENSMUSG00000026159	Agfg1	AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip	ArfGAP with FG repeats 1	protein-coding	97.5	135.5	109.0	1708.5	180.0	97.5	82.0	89.0
Merged-chr8-120720069-4	chr8	120719966	120720166	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16292.0	NM_008320	15900.0	Mm.334861	NM_008320	ENSMUSG00000041515	Irf8	AI893568|ICSBP|IRF-8|Icsbp1|Myls	interferon regulatory factor 8	protein-coding	44.0	79.5	54.0	1038.0	124.5	57.5	73.5	37.5
Merged-chr2-38471922-2	chr2	38471822	38472022	+	611.666626	f1_balb.idr|f1_c57bl6.idr	Intergenic	(CA)n|Simple_repeat|Simple_repeat	-39775.0	NM_021606	59126.0	Mm.143818	NM_021606	ENSMUSG00000026749	Nek6	1300007C09Rik	NIMA (never in mitosis gene a)-related expressed kinase 6	protein-coding	8.0	8.0	6.0	52.5	15.0	5.0	6.0	5.0
Merged-chr8-107294408-4	chr8	107294299	107294499	+	979.333374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001286260, intron 1 of 12)	CpG	929.0	NM_133957	54446.0	Mm.390057	NM_018823	ENSMUSG00000003847	Nfat5	AI225870|B130038B15Rik|CAG-8|CAG80|NFATL1|OREBP|TonEBP|mKIAA0827|nfatz	nuclear factor of activated T cells 5	protein-coding	11.5	23.0	22.5	211.0	36.0	9.5	18.5	27.5
Merged-chr5-107611432-3	chr5	107611339	107611539	+	780.222229	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359917, intron 6 of 12)	intron (NM_001359917, intron 6 of 12)	13478.0	NM_001359916	231571.0	Mm.482420	NM_144911	ENSMUSG00000033773	Rpap2	AW060207	RNA polymerase II associated protein 2	protein-coding	4.0	9.5	1.5	30.0	27.5	18.5	9.5	9.0
Merged-chr15-64242148-3	chr15	64242045	64242245	+	907.6666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001276461, intron 3 of 28)	intron (NM_001276461, intron 3 of 28)	70528.0	NM_001276462	13196.0	Mm.277236	NM_010026	ENSMUSG00000022377	Asap1	AV239055|DEF-1|Ddef1|PAP|mKIAA1249|s19	ArfGAP with SH3 domain, ankyrin repeat and PH domain1	protein-coding	14.0	7.0	4.0	107.0	15.5	10.0	9.0	11.0
Merged-chr2-127251841-4	chr2	127251747	127251947	+	859.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175145, intron 2 of 3)	intron (NM_175145, intron 2 of 3)	3872.0	NM_175145	69470.0	Mm.200889	NM_175145	ENSMUSG00000034850	Tmem127	2310003P10Rik|AI314202|AI317350	transmembrane protein 127	protein-coding	14.0	22.0	5.5	109.0	39.0	9.5	9.5	16.5
Merged-chr2-166108522-3	chr2	166108416	166108616	+	816.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252579, intron 3 of 20)	intron (NM_001252579, intron 3 of 20)	46769.0	NM_001355619	72043.0	Mm.1011	NM_028072	ENSMUSG00000006800	Sulf2	2010004N24Rik|AU020235|MSulf-2|mKIAA1247	sulfatase 2	protein-coding	1.0	10.5	3.5	92.5	15.0	6.0	8.0	10.0
Merged-chr19-32225336-3	chr19	32225230	32225430	+	952.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_144792, intron 4 of 9)	intron (NM_144792, intron 4 of 9)	-14317.0	NM_001168526	208449.0	Mm.329810	NM_144792	ENSMUSG00000040451	Sgms1	9530058O11Rik|AI841905|C80702|Mob|Sms1|Sor1|Tmem23	sphingomyelin synthase 1	protein-coding	10.0	14.5	13.0	216.5	19.0	8.0	4.5	9.5
Merged-chr8-90933145-4	chr8	90933055	90933255	+	933.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001310530, exon 1 of 38)	exon (NM_001310530, exon 1 of 38)	906.0	NM_001310530	109151.0	Mm.100615	NM_177224	ENSMUSG00000056608	Chd9	1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308	chromodomain helicase DNA binding protein 9	protein-coding	25.5	18.0	25.5	307.0	25.5	13.5	13.0	16.0
Merged-chr9-32470626-4	chr9	32470520	32470720	+	802.549988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008026, intron 2 of 8)	intron (NM_008026, intron 2 of 8)	70832.0	NM_008026	14247.0	Mm.258908	NM_008026	ENSMUSG00000016087	Fli1	EWSR2|Fli-1|SIC-1|Sic1	Friend leukemia integration 1	protein-coding	4.5	15.5	24.5	521.0	29.5	7.5	9.5	16.5
Merged-chr9-118655101-4	chr9	118654990	118655190	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_133721, intron 5 of 27)	intron (NM_133721, intron 5 of 27)	48381.0	NM_133721	104099.0	Mm.335520	NM_133721	ENSMUSG00000039115	Itga9	(alpha)9|2610002H11Rik|6720458D17Rik|AI461869|D130073C02|D9Ertd428e	integrin alpha 9	protein-coding	36.5	93.0	130.0	1724.5	106.0	25.5	54.0	48.0
Merged-chr11-105363065-4	chr11	105362959	105363159	+	973.1416630000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172568, intron 11 of 11)	CpG	70413.0	NM_008626	17534.0	Mm.235616	NM_008626	ENSMUSG00000020695	Mrc2	Endo180|mKIAA0709|uPARAP	mannose receptor, C type 2	protein-coding	27.0	50.0	10.0	336.0	84.5	26.5	14.5	35.5
Merged-chr4-74252691-4	chr4	74252565	74252765	+	993.708374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356561, intron 1 of 20)	intron (NM_001356561, intron 1 of 20)	786.0	NM_001356561	76804.0	Mm.209059	NM_144787	ENSMUSG00000028397	Kdm4c	2410141F18Rik|AA517467|Gasc1|Jmjd2c	lysine (K)-specific demethylase 4C	protein-coding	10.5	27.0	29.0	311.5	43.0	16.0	23.5	31.5
Merged-chr1-95316162-3	chr1	95316077	95316277	+	849.611084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026321, intron 1 of 2)	intron (NM_026321, intron 1 of 2)	2549.0	NM_026321	67698.0	Mm.272705	NM_026321	ENSMUSG00000051185	Fam174a	2310044D20Rik|Fam174|Naa6|Tmem157	family with sequence similarity 174, member A	protein-coding	9.0	11.0	12.0	108.5	11.0	1.0	5.0	10.5
Merged-chr4-134923032-2	chr4	134922926	134923126	+	737.549988	f0_balb.idr|f0_c57.idr	promoter-TSS (NM_023665)	promoter-TSS (NM_023665)	-599.0	NM_023665	27981.0	Mm.331964	NM_023665	ENSMUSG00000037266	Rsrp1	2700043I21Rik|D4Ucla2|D4Wsu53e	arginine/serine rich protein 1	protein-coding	6.0	15.5	14.5	128.5	25.5	12.0	14.0	12.0
Merged-chr1-133661903-3	chr1	133661768	133661968	+	811.416687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166552)	promoter-TSS (NM_001166552)	-469.0	NM_001276767	70579.0	Mm.245357	NM_144530	ENSMUSG00000102976	Zc3h11a	1110003F06Rik|5730454B08Rik|G630041M05Rik|Zc3hdc11a|Zc3hh11a|mKIAA0663	zinc finger CCCH type containing 11A	protein-coding	6.0	2.5	4.0	109.0	14.5	4.5	6.0	7.5
Merged-chr6-76266898-3	chr6	76266808	76267008	+	906.1333619999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1_Mur3|LINE|L1	-975569.0	NR_155299	74342.0	Mm.292568	NM_028880	ENSMUSG00000060780	Lrrtm1	4632401D06Rik|AW125451	leucine rich repeat transmembrane neuronal 1	protein-coding	12.5	23.5	13.0	261.5	8.5	10.5	3.0	0.5
Merged-chr2-33431521-4	chr2	33431408	33431608	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001276332)	promoter-TSS (NM_001276332)	-184.0	NM_001276332	241311.0	Mm.296512	NM_001085507	ENSMUSG00000068966	Zbtb34	Gm349|mKIAA1993	zinc finger and BTB domain containing 34	protein-coding	28.0	58.5	58.5	404.5	66.5	35.0	29.0	23.0
Merged-chr2-68471314-4	chr2	68471159	68471359	+	934.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_016866, intron 1 of 17)	CpG	722.0	NM_016866	53416.0	Mm.198414	NM_016866	ENSMUSG00000027030	Stk39	AW227544|AW556857|DCHT|RF005|Rnl5|SPAK	serine/threonine kinase 39	protein-coding	8.5	19.0	17.0	154.0	13.0	9.0	10.5	14.0
Merged-chr10-94035978-4	chr10	94035865	94036065	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001304572)	promoter-TSS (NM_001304572)	-36.0	NM_053072	13998.0	Mm.269596	NM_053072	ENSMUSG00000020021	Fgd6	AA123052|Etohd4|ZFYVE24	FYVE, RhoGEF and PH domain containing 6	protein-coding	228.0	353.0	229.5	3011.5	439.5	217.5	197.0	185.0
Merged-chr10-79940915-4	chr10	79940804	79941004	+	974.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001288625, intron 3 of 8)	intron (NM_001288625, intron 3 of 8)	13563.0	NM_001288625	13496.0	Mm.301282	NM_007880	ENSMUSG00000019564	Arid3a	Bright|Dri1|Dril1	AT rich interactive domain 3A (BRIGHT-like)	protein-coding	26.0	52.0	38.5	546.0	32.5	12.0	24.5	32.5
Merged-chr11-11762227-4	chr11	11762112	11762312	+	970.1666869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025597, intron 7 of 7)	intron (NM_001025597, intron 7 of 7)	46750.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	13.0	26.5	15.5	155.5	45.5	25.5	11.0	11.0
Merged-chr5-115237953-4	chr5	115237843	115238043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_026398, exon 2 of 6)	5' UTR (NM_026398, exon 2 of 6)	2092.0	NM_026398	117109.0	Mm.24636	NM_026398	ENSMUSG00000060152	Pop5	1500019J17Rik|2700077E03Rik|AW049989|Rnasep3	processing of precursor 5, ribonuclease P/MRP family (S. cerevisiae)	protein-coding	60.5	128.0	42.0	724.5	160.5	54.0	76.0	51.0
Merged-chr1-84443917-1	chr1	84443817	84444017	+	835.0	f0_balb.idr	intron (NM_152915, intron 8 of 12)	intron (NM_152915, intron 8 of 12)	-159272.0	NM_001003948	98496.0	Mm.187470	NM_001003948	ENSMUSG00000045658	Pid1	5033414K04Rik|NYGGF4|P-CLI1	phosphotyrosine interaction domain containing 1	protein-coding	10.0	7.5	6.0	139.0	3.5	3.5	6.5	1.5
Merged-chr6-143115230-4	chr6	143115160	143115360	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_153819, intron 7 of 8)	intron (NR_153819, intron 7 of 8)	-15108.0	NM_001109688	74741.0	Mm.130260	NM_029081	ENSMUSG00000030279	C2cd5	5730419I09Rik|C030008B15Rik|CDP138	C2 calcium-dependent domain containing 5	protein-coding	43.0	78.5	114.0	1857.5	143.5	35.5	66.5	61.0
Merged-chr11-87421977-4	chr11	87421897	87422097	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_031386, intron 1 of 30)	RMER15|LTR|ERVL	-5594.0	NM_001199293	83560.0	Mm.440758	NM_031386	ENSMUSG00000010342	Tex14	C85585	testis expressed gene 14	protein-coding	19.0	28.0	7.0	264.5	66.0	24.5	31.0	25.5
Merged-chr17-34306593-4	chr17	34306485	34306685	+	962.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010382, intron 1 of 5)	intron (NM_010382, intron 1 of 5)	718.0	NM_010382	14969.0	Mm.22564	NM_010382	ENSMUSG00000060586	H2-Eb1	Eb|H-2Eb|H2Eb|Ia-4|Ia4	histocompatibility 2, class II antigen E beta	protein-coding	37.5	39.0	8.5	168.0	58.5	20.5	24.5	16.5
Merged-chr16-91884357-4	chr16	91884267	91884467	+	827.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_010587, intron 28 of 38)	intron (NM_010587, intron 28 of 38)	47263.0	NM_138597	28080.0	Mm.41	NM_138597	ENSMUSG00000022956	Atp5o	ATPO|D12Wsu28e|OSCP	ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit	protein-coding	3.0	15.5	13.5	92.5	20.5	5.0	10.0	9.0
Merged-chr7-45628895-4	chr7	45628787	45628987	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_028544, exon 3 of 12)	exon (NM_028544, exon 3 of 12)	1350.0	NM_028544	69903.0	Mm.181396	NM_028544	ENSMUSG00000044562	Rasip1	1110025D03Rik|2610025P08Rik|AI853551|Rain	Ras interacting protein 1	protein-coding	64.0	101.5	50.0	944.5	161.5	44.5	59.0	68.0
Merged-chr15-80948430-4	chr15	80948308	80948508	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009634)	promoter-TSS (NM_009634)	-82.0	NM_009634	11564.0	Mm.38151	NM_009634	ENSMUSG00000022407	Adsl	Adl|Asl	adenylosuccinate lyase	protein-coding	23.0	35.0	27.5	364.5	39.5	20.5	24.0	20.0
Merged-chr9-53667090-2	chr9	53667002	53667202	+	1000.0	f0_balb.idr|f0_c57.idr	exon (NM_027807, exon 1 of 19)	exon (NM_027807, exon 1 of 19)	405.0	NM_001161618	75717.0	Mm.218910	NM_027807	ENSMUSG00000032030	Cul5	4921514I20Rik|8430423K24Rik|AI852817|C030032G03Rik|C330021I08Rik|VACM-1|VACM1	cullin 5	protein-coding	45.0	48.0	26.0	547.5	129.5	63.0	42.5	45.0
Merged-chr3-20076834-4	chr3	20076754	20076954	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355097, intron 10 of 25)	B2_Mm2|SINE|B2	18563.0	NR_105047	20585.0	Mm.209650	NM_009210	ENSMUSG00000002428	Hltf	AF010600|BC057116|P113|Smarca3|Snf2l3	helicase-like transcription factor	protein-coding	41.5	69.5	40.5	509.5	114.0	30.0	63.0	39.5
Merged-chr5-140207307-4	chr5	140207265	140207465	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152617, intron 10 of 16)	intron (NR_152617, intron 10 of 16)	-32447.0	NM_001359027	17120.0	Mm.27250	NM_010752	ENSMUSG00000029554	Mad1l1	AI173502|AW550425|Mad1	MAD1 mitotic arrest deficient 1-like 1	protein-coding	40.5	41.0	59.5	1063.0	74.5	31.0	40.5	37.0
Merged-chr5-123142983-4	chr5	123142871	123143071	+	858.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001040398, exon 2 of 17)	exon (NM_001040398, exon 2 of 17)	778.0	NM_001040398	208043.0	Mm.250391	NM_177581	ENSMUSG00000038384	Setd1b	AA516740|BC035291|KMT2G|mKIAA1076	SET domain containing 1B	protein-coding	21.5	5.5	8.0	131.5	21.0	9.5	7.5	13.0
Merged-chr2-167765355-4	chr2	167765258	167765458	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	74181.0	NR_015500	329562.0	Mm.123101	NM_177851	ENSMUSG00000006462	A530013C23Rik	-	RIKEN cDNA A530013C23 gene	ncRNA	164.0	186.5	169.0	2738.0	322.0	110.0	161.0	183.0
Merged-chr17-17625302-4	chr17	17625169	17625369	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172827)	promoter-TSS (NM_172827)	-780.0	NM_172827	240028.0	Mm.328807	NM_172827	ENSMUSG00000023845	Lnpep	2010309L07Rik|4732490P18Rik|CAP|IRAP|PLAP|gp160|vp165	leucyl/cystinyl aminopeptidase	protein-coding	134.5	173.5	223.0	2373.0	336.0	136.0	186.0	141.0
Merged-chr2-38926367-4	chr2	38926253	38926453	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_010264, exon 1 of 11)	5' UTR (NM_010264, exon 1 of 11)	108.0	NM_010264	14536.0	Mm.439703	NM_010264	ENSMUSG00000063972	Nr6a1	1700113M01Rik|Gcnf|NCNF|RTR	nuclear receptor subfamily 6, group A, member 1	protein-coding	89.5	163.0	100.0	1292.0	180.5	91.0	91.5	79.5
Merged-chr4-106908424-4	chr4	106908305	106908505	+	837.962524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L2a|LINE|L2	-3065.0	NM_198438	72475.0	Mm.195635	NM_023672	ENSMUSG00000061887	Ssbp3	2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1	single-stranded DNA binding protein 3	protein-coding	12.5	7.5	19.0	117.5	25.5	4.5	6.5	8.5
Merged-chr1-39906177-3	chr1	39906080	39906280	+	895.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252202, intron 2 of 29)	intron (NM_001252202, intron 2 of 29)	5267.0	NM_008696	26921.0	Mm.491139	NM_008696	ENSMUSG00000026074	Map4k4	9430080K19Rik|AU043147|AU045934|AW046177|HGK|Nik	mitogen-activated protein kinase kinase kinase kinase 4	protein-coding	8.5	6.5	2.0	37.5	23.5	5.0	13.5	7.0
Merged-chr7-143004917-2	chr7	143004817	143005017	+	712.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001128080)	promoter-TSS (NM_001128080)	-129.0	NM_001128080	27027.0	Mm.28172	NM_020286	ENSMUSG00000000244	Tspan32	AW208513|Art-1|BB235973|D7Wsu37e|Phemx|Tssc6	tetraspanin 32	protein-coding	5.5	1.0	0.0	33.0	9.5	5.0	5.0	8.0
Merged-chr6-98329591-3	chr6	98329491	98329691	+	631.888855	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001128092, intron 2 of 3)	intron (NM_001128092, intron 2 of 3)	13163.0	NM_001128092	330390.0	Mm.484161	NM_001128092	ENSMUSG00000090667	Gm765	-	predicted gene 765	protein-coding	2.0	5.0	9.0	105.0	30.0	9.5	16.5	6.5
Merged-chr11-54182018-1	chr11	54181918	54182118	+	569.0	f0_balb.idr	intron (NR_045506, intron 2 of 2)	MER3|DNA|hAT-Charlie	31270.0	NR_045506	71056.0	Mm.56332	NR_045506	ENSMUSG00000086209	4933405E24Rik	-	RIKEN cDNA 4933405E24 gene	ncRNA	5.0	8.0	10.5	76.0	17.0	9.5	4.5	0.0
Merged-chr1-156468692-6	chr1	156468563	156468763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009230, intron 1 of 15)	(CA)n|Simple_repeat|Simple_repeat	5665.0	NM_009230	20652.0	Mm.28099	NM_009230	ENSMUSG00000026600	Soat1	8430426K15Rik|ACAT-1|AW550831|Acact|ald|hid	sterol O-acyltransferase 1	protein-coding	9.5	25.0	23.0	394.0	41.5	15.0	25.0	36.0
Merged-chr7-28344919-2	chr7	28344819	28345019	+	795.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-5770.0	NM_013647	20055.0	Mm.702	NM_013647	ENSMUSG00000037563	Rps16	AA420385|AI317031	ribosomal protein S16	protein-coding	2.5	11.0	6.0	34.5	5.5	6.0	5.0	10.5
Merged-chr6-137825521-4	chr6	137825424	137825624	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172733, intron 6 of 8)	intron (NM_172733, intron 6 of 8)	70947.0	NM_172733	232449.0	Mm.29181	NM_172733	ENSMUSG00000030225	Dera	2010002D22Rik|2500002K03Rik|DEOC	deoxyribose-phosphate aldolase (putative)	protein-coding	56.5	103.5	70.5	1451.0	135.0	47.5	81.5	47.0
Merged-chr12-76306349-4	chr12	76306258	76306458	+	977.8958130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_138745, intron 21 of 27)	intron (NM_138745, intron 21 of 27)	-18533.0	NM_001101471	238276.0	Mm.311452	NM_001101471	ENSMUSG00000021057	Akap5	3526401B18Rik|AKAP 150|AKAP-5|AKAP150|BB098886|Gm258|P150	A kinase (PRKA) anchor protein 5	protein-coding	13.0	25.0	17.0	309.5	37.0	13.5	31.0	32.0
Merged-chr15-61999787-4	chr15	61999681	61999881	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14440.0	NM_001177352	17869.0	Mm.2444	NM_010849	ENSMUSG00000022346	Myc	AU016757|Myc2|Niard|Nird|bHLHe39	myelocytomatosis oncogene	protein-coding	156.0	279.0	197.5	2724.0	325.0	181.0	197.0	173.0
Merged-chr15-9132762-4	chr15	9132644	9132844	+	951.208374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013787, intron 2 of 9)	intron (NM_013787, intron 2 of 9)	7710.0	NM_013787	27401.0	Mm.35584	NM_013787	ENSMUSG00000054115	Skp2	4930500A04Rik|FBXL1|FWD1|p45	S-phase kinase-associated protein 2 (p45)	protein-coding	8.5	19.0	28.0	266.0	28.0	10.0	13.5	19.5
Merged-chr13-23488905-4	chr13	23488816	23489016	+	926.9375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175938)	promoter-TSS (NM_175938)	-59.0	NM_001289614	238555.0	Mm.129668	NM_175938	ENSMUSG00000053216	Btn2a2	Btn2|D030063K05	butyrophilin, subfamily 2, member A2	protein-coding	11.0	22.0	9.0	235.5	51.5	7.5	21.5	12.0
Merged-chr3-108286404-3	chr3	108286303	108286503	+	986.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_019972, intron 1 of 19)	intron (NM_019972, intron 1 of 19)	2339.0	NM_019972	20661.0	Mm.157119	NM_019972	ENSMUSG00000068747	Sort1	2900053A11Rik|AI852375|Ntr3|Ntsr3	sortilin 1	protein-coding	26.0	12.5	6.0	166.0	6.0	2.0	5.0	12.0
Merged-chr7-80018821-6	chr7	80018763	80018963	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-5951.0	NM_001145999	209225.0	Mm.290925	NM_175433	ENSMUSG00000048897	Zfp710	5430400N05Rik|9830165K13|AI324798|Znf710	zinc finger protein 710	protein-coding	16.0	35.5	26.0	175.0	50.5	15.0	20.0	23.0
Merged-chr9-44305772-4	chr9	44305646	44305846	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172162)	promoter-TSS (NM_172162)	-75.0	NM_172162	102423.0	Mm.24570	NM_172162	ENSMUSG00000032119	Hinfp	AA589481|HiNF-P|Mizf	histone H4 transcription factor	protein-coding	217.0	386.0	229.0	3249.5	551.0	260.5	274.0	281.0
Merged-chr1-151571440-4	chr1	151571351	151571551	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_022018)	promoter-TSS (NM_022018)	78.0	NM_022018	63913.0	Mm.157700	NM_022018	ENSMUSG00000026483	Fam129a	AI256368|AU019833|Niban	family with sequence similarity 129, member A	protein-coding	45.5	99.0	46.0	448.5	83.5	37.0	58.0	28.5
Merged-chr13-57022947-4	chr13	57022812	57023012	+	813.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-127123.0	NM_001302373	26946.0	Mm.62409	NM_012035	ENSMUSG00000021541	Trpc7	TRP7|Trrp8	transient receptor potential cation channel, subfamily C, member 7	protein-coding	1.0	8.5	5.0	74.0	27.0	10.0	14.5	25.5
Merged-chr2-75770883-4	chr2	75770780	75770980	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-61297.0	NM_172666	228061.0	Mm.31227	NM_172666	ENSMUSG00000042410	Agps	5832437L22|9930035G10Rik|AW123847|Adaps|Adas|Adhaps|Adps|Aldhpsy|bs2	alkylglycerone phosphate synthase	protein-coding	33.0	73.0	38.0	538.5	118.0	33.0	40.0	36.5
Merged-chr1-180904239-4	chr1	180904144	180904344	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133705)	promoter-TSS (NM_133705)	-30.0	NM_133705	69051.0	Mm.274180	NM_133705	ENSMUSG00000026520	Pycr2	1810018M05Rik|P5cr2	pyrroline-5-carboxylate reductase family, member 2	protein-coding	95.0	100.0	54.5	945.0	223.5	61.0	115.0	92.5
Merged-chr1-58953929-4	chr1	58953829	58954029	+	848.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172406, intron 1 of 15)	intron (NM_172406, intron 1 of 15)	19553.0	NM_172406	70827.0	Mm.222887	NM_172406	ENSMUSG00000026028	Trak2	2900022D04Rik|4733401O11Rik|AI480836|AW046271|Als2cr3|CALS-C|GRIF-1|GRIF1|OIP98|mKIAA0549	trafficking protein, kinesin binding 2	protein-coding	7.5	18.5	8.5	339.5	20.5	3.5	17.0	15.0
Merged-chr13-75823393-4	chr13	75823289	75823489	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16496.0	NM_001360151	93692.0	Mm.25844	NM_053108	ENSMUSG00000021591	Glrx	C86710|D13Wsu156e|Glrx1|Grx1|TTase	glutaredoxin	protein-coding	58.5	101.5	52.5	1529.5	223.5	56.5	82.0	54.0
Merged-chr9-45906925-4	chr9	45906824	45907024	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001310839)	promoter-TSS (NM_001310839)	-13.0	NM_001361112	235315.0	Mm.220945	NM_178709	ENSMUSG00000042790	Rnf214	D130054N24Rik	ring finger protein 214	protein-coding	42.5	98.0	36.0	498.5	108.0	59.5	58.0	38.5
Merged-chr2-36238478-4	chr2	36238370	36238570	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008969, intron 5 of 10)	MamGypLTR3a|LTR|Gypsy	8044.0	NM_008969	19224.0	Mm.275434	NM_008969	ENSMUSG00000047250	Ptgs1	COX1|Cox-1|Cox-3|PGHS-1|PHS 1|Pghs1	prostaglandin-endoperoxide synthase 1	protein-coding	44.0	58.0	105.0	1393.0	122.0	34.0	79.5	86.5
Merged-chr1-132384455-4	chr1	132384348	132384548	+	948.7708130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178874, intron 1 of 4)	intron (NM_178874, intron 1 of 4)	5870.0	NM_001311107	68875.0	Mm.273785	NM_178874	ENSMUSG00000042066	Tmcc2	1110063G11Rik	transmembrane and coiled-coil domains 2	protein-coding	8.5	15.5	18.5	332.0	26.0	8.0	13.5	19.5
Merged-chr13-58205199-4	chr13	58205078	58205278	+	787.825012	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026842, intron 1 of 10)	intron (NM_026842, intron 1 of 10)	10475.0	NM_152234	56085.0	Mm.182053	NM_026842	ENSMUSG00000005312	Ubqln1	1110046H03Rik|1810030E05Rik|AU019746|C77538|D13Ertd372e|Da41|Dsk2|Plic-1|Plic1|Xdrp1	ubiquilin 1	protein-coding	14.0	13.5	15.5	331.5	25.0	11.5	13.0	10.0
Merged-chr14-20082843-4	chr14	20082749	20082949	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_026209, intron 1 of 1)	CpG	323.0	NM_026209	67509.0	Mm.292423	NM_026209	ENSMUSG00000045107	Saysd1	1810063B07Rik|4930488P03Rik	SAYSVFN motif domain containing 1	protein-coding	128.5	212.0	127.0	1849.5	391.5	158.5	185.5	159.0
Merged-chr1-152790353-4	chr1	152790261	152790461	+	979.2083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3|SINE|B2	-9792.0	NM_010877	17970.0	Mm.270307	NM_010877	ENSMUSG00000026480	Ncf2	NOXA2|Ncf-2|p67phox	neutrophil cytosolic factor 2	protein-coding	24.5	40.0	23.0	291.0	66.0	36.0	17.5	31.5
Merged-chr6-87806234-4	chr6	87806135	87806335	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_104478, intron 1 of 2)	intron (NR_104478, intron 1 of 2)	3522.0	NM_133717	69834.0	Mm.37380	NM_133717	ENSMUSG00000030055	Rab43	1810048P08Rik|2500004H21Rik|AW490415	RAB43, member RAS oncogene family	protein-coding	63.0	93.5	28.5	816.0	137.0	46.0	81.0	75.5
Merged-chr9-111049274-4	chr9	111049157	111049357	+	947.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	7987.0	NM_001302377	54199.0	Mm.7336	NM_017466	ENSMUSG00000043953	Ccrl2	1810047I05Rik|Ackr5|CCR11|Cmkbr1l2|E01|L-CCR	chemokine (C-C motif) receptor-like 2	protein-coding	16.5	37.5	19.0	216.5	61.0	6.5	23.0	15.0
Merged-chr11-24357534-3	chr11	24357412	24357612	+	943.64447	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-124397.0	NR_045857	71316.0	Mm.79162	NR_045857	ENSMUSG00000086892	4933430M04Rik	-	RIKEN cDNA 4933430M04 gene	ncRNA	23.5	10.0	9.0	240.0	7.0	7.0	2.0	2.0
Merged-chr5-88554296-4	chr5	88554204	88554404	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_023054)	promoter-TSS (NM_023054)	-158.0	NM_023054	65961.0	Mm.490364	NM_023054	ENSMUSG00000070697	Utp3	2400011K09Rik|AW557551|C87704|Crl-1|Crl1|Crlz1|Sas10	UTP3 small subunit processome component	protein-coding	213.5	366.0	255.5	3396.0	604.5	210.0	232.0	227.0
Merged-chr5-24038401-4	chr5	24038292	24038492	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7702.0	NM_053090	84652.0	Mm.304976	NM_053090	ENSMUSG00000028995	Fam126a	AB030242|Drctnnb1a	family with sequence similarity 126, member A	protein-coding	57.5	72.0	101.5	845.0	139.0	57.0	42.0	62.5
Merged-chr8-105497049-4	chr8	105496957	105497157	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_175160)	promoter-TSS (NM_175160)	-155.0	NM_175160	70796.0	Mm.100917	NM_175160	ENSMUSG00000039199	Zdhhc1	4432412D04Rik|DHHC-1	zinc finger, DHHC domain containing 1	protein-coding	40.0	46.0	42.0	479.0	85.5	32.0	23.0	33.5
Merged-chr4-124645349-4	chr4	124645254	124645454	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12292.0	NM_011141	18991.0	Mm.297371	NM_011141	ENSMUSG00000090125	Pou3f1	Oct-6|Oct6|Otf-6|Otf6|Scip|Test1|Tst-1|Tst1	POU domain, class 3, transcription factor 1	protein-coding	49.0	54.5	40.0	578.5	109.5	24.5	30.0	48.5
Merged-chr5-138995014-4	chr5	138994906	138995106	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_008808)	promoter-TSS (NM_008808)	-53.0	NM_008808	18590.0	Mm.2675	NM_008808	ENSMUSG00000025856	Pdgfa	-	platelet derived growth factor, alpha	protein-coding	36.5	37.0	36.0	564.0	76.0	37.5	43.5	39.5
Merged-chr9-118040881-4	chr9	118040782	118040982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001048146, exon 1 of 7)	5' UTR (NM_001048146, exon 1 of 7)	360.0	NM_013727	27215.0	Mm.92705	NM_013727	ENSMUSG00000039285	Azi2	AA410145|AZ2	5-azacytidine induced gene 2	protein-coding	89.5	112.0	68.0	1197.0	308.5	109.5	167.0	119.0
Merged-chr14-25393111-3	chr14	25393011	25393211	+	974.7222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1M4|LINE|L1	-66074.0	NM_001310666	328365.0	Mm.227484	NM_183208	ENSMUSG00000007817	Zmiz1	BC065120|E330020C23|Gm10397|I920194n01|Rai17|Zimp10	zinc finger, MIZ-type containing 1	protein-coding	19.0	14.0	18.0	227.0	18.0	7.5	4.5	7.5
Merged-chr10-68091976-4	chr10	68091888	68092088	+	996.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	112418.0	NM_001359319	170799.0	Mm.209844	NM_133244	ENSMUSG00000037846	Rtkn2	B130039D23Rik|Mbf|Plekhk1	rhotekin 2	protein-coding	38.0	42.0	26.5	434.0	49.0	15.5	35.0	24.5
Merged-chr17-29389319-3	chr17	29389218	29389418	+	845.577759	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	28404.0	NM_001159538	26382.0	Mm.279187	NM_013710	ENSMUSG00000024013	Fgd2	Tcd-2|Tcd2|ZFYVE4|tcs-2|tcs2	FYVE, RhoGEF and PH domain containing 2	protein-coding	1.0	6.5	15.0	53.5	35.5	8.0	20.0	8.0
Merged-chr15-98510667-4	chr15	98510555	98510755	+	995.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	9179.0	NR_034051	100217417.0	Mm.486440	NR_034051	ENSMUSG00000065336	Snora34	MBI-89	small nucleolar RNA, H/ACA box 34	snoRNA	24.0	28.0	14.5	349.0	88.5	39.0	19.5	26.5
Merged-chr4-105317023-4	chr4	105316914	105317114	+	940.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	159667.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	13.5	30.0	11.0	163.5	35.5	16.0	19.5	13.5
Merged-chr5-141081088-4	chr5	141080972	141081172	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-80476.0	NM_175362	108723.0	Mm.46187	NM_175362	ENSMUSG00000036526	Card11	0610008L17Rik|2410011D02Rik|BIMP3|CARMA1	caspase recruitment domain family, member 11	protein-coding	74.0	77.0	41.0	639.5	130.5	62.5	80.0	55.5
Merged-chr5-21567380-4	chr5	21567272	21567472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028977, intron 2 of 3)	intron (NM_028977, intron 2 of 3)	23845.0	NM_028977	74511.0	Mm.439963	NM_028977	ENSMUSG00000039883	Lrrc17	37kDa|4833425M04Rik|6130400C22Rik|P37nb	leucine rich repeat containing 17	protein-coding	26.5	23.5	35.5	663.5	50.0	18.0	41.0	30.5
Merged-chr2-12314189-4	chr2	12314091	12314291	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12247.0	NM_001001309	241226.0	Mm.329997	NM_001001309	ENSMUSG00000026768	Itga8	AI447669	integrin alpha 8	protein-coding	77.0	115.0	105.5	1437.0	274.0	71.0	157.0	102.0
Merged-chr17-43055488-3	chr17	43055383	43055583	+	844.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178589, intron 3 of 5)	B1_Mus2|SINE|Alu	38928.0	NM_178589	94185.0	Mm.200792	NM_178589	ENSMUSG00000023915	Tnfrsf21	AA959878|DR6|R74815|TR7	tumor necrosis factor receptor superfamily, member 21	protein-coding	9.0	5.5	8.0	150.0	1.5	0.0	1.0	2.0
Merged-chr4-134119929-1	chr4	134119829	134120029	+	600.0	f0_c57.idr	intron (NM_026257, intron 8 of 14)	intron (NM_026257, intron 8 of 14)	8824.0	NM_080559	73723.0	Mm.22240	NM_080559	ENSMUSG00000028843	Sh3bgrl3	1110004L05Rik|AU022188	SH3 domain binding glutamic acid-rich protein-like 3	protein-coding	0.5	2.5	1.0	6.0	22.0	8.5	8.5	5.0
Merged-chr11-98782769-4	chr11	98782643	98782843	+	744.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7366.0	NM_145434	217166.0	Mm.390397	NM_145434	ENSMUSG00000020889	Nr1d1	A530070C09Rik|R75201	nuclear receptor subfamily 1, group D, member 1	protein-coding	8.5	5.0	14.0	72.0	10.5	5.5	7.0	7.5
Merged-chr8-108817401-3	chr8	108817302	108817502	+	766.277771	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007496, intron 3 of 9)	Lx7|LINE|L1	102758.0	NM_007496	11906.0	Mm.416972	NM_007496	ENSMUSG00000038872	Zfhx3	A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228	zinc finger homeobox 3	protein-coding	14.5	19.5	13.0	160.0	7.0	4.0	7.0	0.0
Merged-chr2-30359190-4	chr2	30359067	30359267	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001289710, exon 1 of 10)	exon (NM_001289710, exon 1 of 10)	149.0	NM_139302	227700.0	Mm.33343	NM_139302	ENSMUSG00000026860	Sh3glb2	SPAS-1	SH3-domain GRB2-like endophilin B2	protein-coding	21.5	40.0	29.5	289.5	39.0	13.0	24.5	20.5
Merged-chr1-61042903-1	chr1	61042803	61043003	+	998.0	f0_balb.idr	Intergenic	MLT1K-int|LTR|ERVL-MaLR	64989.0	NM_017480	54167.0	Mm.42044	NM_017480	ENSMUSG00000026009	Icos	AILIM|CCLP|CRP-1|H4|Ly115	inducible T cell co-stimulator	protein-coding	4.5	8.0	11.0	152.0	0.0	0.0	0.0	0.5
Merged-chr19-40831296-4	chr19	40831224	40831424	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172839)	promoter-TSS (NM_172839)	45.0	NM_172839	240665.0	Mm.309	NM_172839	ENSMUSG00000025010	Ccnj	D430039C20Rik	cyclin J	protein-coding	50.0	56.0	65.0	526.5	59.0	35.5	38.5	30.0
Merged-chr1-52113810-4	chr1	52113634	52113834	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	CpG	-5704.0	NM_001357627	20846.0	Mm.277406	NM_009283	ENSMUSG00000026104	Stat1	2010005J02Rik|AA408197	signal transducer and activator of transcription 1	protein-coding	139.5	199.0	124.5	1600.5	279.5	121.5	131.5	118.5
Merged-chr2-22965619-4	chr2	22965511	22965711	+	973.591675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001077190, intron 3 of 10)	intron (NM_001077190, intron 3 of 10)	70089.0	NM_001355467	56075.0	Mm.249752	NM_019501	ENSMUSG00000026784	Pdss1	2610203G20Rik|2700031G06Rik|TPT|TPT 1|Tprt|mDLP1|mSPS1	prenyl (solanesyl) diphosphate synthase, subunit 1	protein-coding	27.5	23.5	22.0	531.0	60.0	12.0	18.0	34.0
Merged-chr7-102771170-4	chr7	102771054	102771254	+	863.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3372.0	NM_147092	259096.0	Mm.377839	NM_147092	ENSMUSG00000073966	Olfr561	MOR14-2	olfactory receptor 561	protein-coding	12.0	10.5	18.0	300.5	24.0	8.0	12.5	14.0
Merged-chr11-118212865-4	chr11	118212772	118212972	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001112700)	promoter-TSS (NM_001112700)	-130.0	NM_001112700	19157.0	Mm.86413	NM_011180	ENSMUSG00000017132	Cyth1	CLM1|CTH-1|CYTIP|Pscd1	cytohesin 1	protein-coding	77.0	80.5	115.0	1625.5	103.0	27.0	60.0	58.5
Merged-chr1-94078497-4	chr1	94078392	94078592	+	911.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER2|LTR|ERV1	-25939.0	NM_008798	18566.0	Mm.5024	NM_008798	ENSMUSG00000026285	Pdcd1	Ly101|PD-1|Pdc1	programmed cell death 1	protein-coding	28.0	20.5	42.0	503.5	22.0	3.0	20.5	14.0
Merged-chr14-20861396-4	chr14	20861298	20861498	+	930.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1D-int|LTR|ERVL-MaLR	24736.0	NM_008873	18792.0	Mm.4183	NM_008873	ENSMUSG00000021822	Plau	u-PA|uPA	plasminogen activator, urokinase	protein-coding	17.0	14.5	11.0	376.0	40.5	16.5	19.0	21.0
Merged-chr19-4060838-4	chr19	4060737	4060937	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIRb|SINE|MIR	-1390.0	NM_001362043	225884.0	Mm.440201	NM_144869	ENSMUSG00000058216	Gstp3	-	glutathione S-transferase pi 3	protein-coding	25.0	49.5	40.5	579.0	83.5	59.5	56.0	40.0
Merged-chr7-29211468-4	chr7	29211375	29211575	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164658, intron 1 of 27)	intron (NM_001164658, intron 1 of 27)	2558.0	NM_001164658	320225.0	Mm.349382	NM_001039721	ENSMUSG00000049676	Catsperg1	A230107C01Rik|Catsperg	cation channel sperm associated auxiliary subunit gamma 1	protein-coding	170.5	219.0	177.5	1740.0	259.5	89.5	88.0	103.0
Merged-chr14-55758656-4	chr14	55758522	55758722	+	842.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009894)	promoter-TSS (NM_009894)	-198.0	NM_009894	12684.0	Mm.466766	NM_009894	ENSMUSG00000022219	Cideb	1110030C18Rik|AI790179|CIDE-B	cell death-inducing DNA fragmentation factor, alpha subunit-like effector B	protein-coding	6.0	6.5	8.5	117.0	19.0	3.0	5.0	8.0
Merged-chr3-22126568-4	chr3	22126455	22126655	+	887.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_030732, intron 1 of 15)	intron (NM_030732, intron 1 of 15)	49903.0	NM_030732	81004.0	Mm.202966	NM_030732	ENSMUSG00000027630	Tbl1xr1	8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1	transducin (beta)-like 1X-linked receptor 1	protein-coding	10.0	9.5	22.5	324.5	34.0	3.0	14.0	14.5
Merged-chr5-30814614-4	chr5	30814515	30814715	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_133350)	promoter-TSS (NM_133350)	-26.0	NM_133350	100732.0	Mm.332295	NM_133350	ENSMUSG00000029166	Mapre3	AI790651|EB2|EB3|EBF3|RP3	microtubule-associated protein, RP/EB family, member 3	protein-coding	58.5	62.0	38.0	421.0	130.5	47.5	56.0	56.0
Merged-chr12-35890884-4	chr12	35890770	35890970	+	913.43335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-34751.0	NM_207531	403205.0	Mm.190508	NM_207531	ENSMUSG00000036231	Agr3	BCMP11|E030025L21Rik|Gm888	anterior gradient 3	protein-coding	24.0	12.5	18.5	190.5	24.5	11.0	9.5	8.0
Merged-chr3-129532322-4	chr3	129532235	129532435	+	920.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_130450)	promoter-TSS (NM_130450)	-51.0	NM_130450	170439.0	Mm.314113	NM_130450	ENSMUSG00000041220	Elovl6	C77826|FAE|LCE	ELOVL family member 6, elongation of long chain fatty acids (yeast)	protein-coding	25.0	20.5	16.5	258.5	26.0	13.0	10.5	9.0
Merged-chr1-128590975-4	chr1	128590938	128591138	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001356509, intron 1 of 1)	CpG	1261.0	NM_009911	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	76.5	97.5	108.0	1270.5	99.0	39.0	49.5	66.5
Merged-chr7-28386187-4	chr7	28386071	28386271	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_026042, exon 4 of 4)	3' UTR (NM_026042, exon 4 of 4)	6519.0	NM_026042	67224.0	Mm.41647	NM_026042	ENSMUSG00000003444	Med29	2810405O22Rik|AU020902|Ixl	mediator complex subunit 29	protein-coding	287.0	383.5	300.5	2731.5	690.0	286.5	266.0	229.0
Merged-chr14-114869538-3	chr14	114869434	114869634	+	974.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	37569.0	NR_045661	75822.0	Mm.410813	NR_045661	ENSMUSG00000115320	4930524C18Rik	-	RIKEN cDNA 4930524C18 gene	ncRNA	6.5	14.0	19.5	357.0	4.5	1.0	7.5	4.5
Merged-chr14-46848395-2	chr14	46848289	46848489	+	848.5	f0_balb.idr|f1_balb.idr	intron (NM_026832, intron 4 of 5)	intron (NM_026832, intron 4 of 5)	16255.0	NM_001360455	68755.0	Mm.343809	NM_026832	ENSMUSG00000055128	Cgrrf1	1110038G02Rik|1810009H17Rik|CGR19	cell growth regulator with ring finger domain 1	protein-coding	9.0	8.0	16.0	196.5	3.0	0.0	1.5	1.0
Merged-chr11-101302311-4	chr11	101302218	101302418	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_019584)	promoter-TSS (NM_019584)	-32.0	NM_001359821	56208.0	Mm.178947	NM_019584	ENSMUSG00000035086	Becn1	Atg6	beclin 1, autophagy related	protein-coding	53.5	63.0	37.5	377.0	132.0	54.5	38.5	59.5
Merged-chr5-103376576-4	chr5	103376472	103376672	+	984.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	29974.0	NR_152117	75519.0	Mm.416851	NR_152117	ENSMUSG00000105426	1700021F02Rik	Gm42618	RIKEN cDNA 1700021F02 gene	ncRNA	17.5	33.5	18.5	281.5	58.5	8.0	22.5	23.0
Merged-chr5-117307855-4	chr5	117307754	117307954	+	963.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-11412.0	NM_001033311	231668.0	Mm.298603	NM_001033311	ENSMUSG00000066894	Vsig10	-	V-set and immunoglobulin domain containing 10	protein-coding	28.5	37.0	31.0	438.5	44.5	14.5	26.5	27.0
Merged-chr18-67278648-4	chr18	67278538	67278738	+	985.0833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10585.0	NM_053261	114663.0	Mm.34079	NM_053261	ENSMUSG00000024525	Impa2	2210415D20Rik|AI326924|AW259601	inositol (myo)-1(or 4)-monophosphatase 2	protein-coding	20.0	23.0	9.5	257.0	49.0	18.0	20.5	23.5
Merged-chr17-74867028-4	chr17	74866940	74867140	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-138489.0	NM_019919	268977.0	Mm.269747	NM_019919	ENSMUSG00000001870	Ltbp1	9430031G15Rik|9830146M04|Ltbp-1|Ltbp1L|TGF-beta1-BP-1|Tgfb|b2b1000Clo	latent transforming growth factor beta binding protein 1	protein-coding	67.0	142.5	63.0	1673.5	348.5	102.5	147.0	116.5
Merged-chr9-123869484-4	chr9	123869389	123869589	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7460.0	NM_011798	23832.0	Mm.390241	NM_011798	ENSMUSG00000060509	Xcr1	Ccxcr1|Gpr5|mXcr1	chemokine (C motif) receptor 1	protein-coding	72.0	135.0	75.0	655.5	219.0	69.0	73.5	49.0
Merged-chr10-130318939-4	chr10	130318829	130319029	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3923.0	NM_183264	67596.0	Mm.131264	NM_183264	ENSMUSG00000034833	Tespa1	5830405N20Rik|A430001F24Rik|AI450549	thymocyte expressed, positive selection associated 1	protein-coding	56.5	72.0	30.5	1190.5	95.5	40.5	35.5	37.5
Merged-chr9-83682142-3	chr9	83682043	83682243	+	891.7999880000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9332.0	NR_046066	100039222.0	Mm.405596	NR_046066	ENSMUSG00000100155	Gm2109	-	predicted gene 2109	ncRNA	7.5	6.0	14.5	244.5	19.0	6.0	16.0	7.0
Merged-chr9-64786105-4	chr9	64786048	64786248	+	896.5416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-24863.0	NM_001162917	102442.0	Mm.222473	NM_176935	ENSMUSG00000053641	Dennd4a	AI115600|AI851943|F730015K02Rik	DENN/MADD domain containing 4A	protein-coding	18.5	15.0	16.0	278.0	24.5	12.5	10.5	9.5
Merged-chr17-31093578-3	chr17	31093479	31093679	+	582.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009593, intron 3 of 14)	intron (NM_009593, intron 3 of 14)	35885.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	11.0	15.0	11.0	100.0	12.5	5.0	7.0	2.5
Merged-chr4-126683283-2	chr4	126683183	126683383	+	555.5	f1_balb.idr|f1_c57bl6.idr	intron (NM_011970, intron 1 of 5)	RMER6A|LTR|ERVK	5640.0	NM_011970	26445.0	Mm.22233	NM_011970	ENSMUSG00000028837	Psmb2	AU045357|AW108089|C7-I|D4Wsu33e|HC7-I	proteasome (prosome, macropain) subunit, beta type 2	protein-coding	3.5	7.0	2.5	15.5	15.0	5.5	6.5	10.0
Merged-chr17-40869385-4	chr17	40869272	40869472	+	863.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MER67C|LTR|ERV1	11186.0	NM_027834	71583.0	Mm.158733	NM_027834	ENSMUSG00000054951	9130008F23Rik	-	RIKEN cDNA 9130008F23 gene	protein-coding	6.0	7.5	11.5	149.5	23.5	13.0	14.0	9.5
Merged-chr1-182951505-3	chr1	182951405	182951605	+	979.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-3283.0	NM_016928	53791.0	Mm.116894	NM_016928	ENSMUSG00000079164	Tlr5	-	toll-like receptor 5	protein-coding	20.0	6.5	14.0	203.0	13.0	4.0	6.0	7.5
Merged-chr3-126696767-4	chr3	126696693	126696893	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025438, intron 3 of 18)	intron (NM_001025438, intron 3 of 18)	99842.0	NM_001293665	108058.0	Mm.255822	NM_023813	ENSMUSG00000053819	Camk2d	2810011D23Rik|8030469K03Rik|CaMK II|[d]-CaMKII	calcium/calmodulin-dependent protein kinase II, delta	protein-coding	39.5	56.0	39.0	929.5	119.0	41.5	55.5	45.5
Merged-chr15-81132829-4	chr15	81132724	81132924	+	793.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001082536, intron 1 of 13)	intron (NM_001082536, intron 1 of 13)	-27777.0	NM_153049	223701.0	Mm.439814	NM_153049	ENSMUSG00000042292	Mkl1	AMKL|Bsac|Mal|Mrtf-A	MKL (megakaryoblastic leukemia)/myocardin-like 1	protein-coding	6.0	2.5	8.5	78.0	26.0	9.5	7.5	25.5
Merged-chr19-32912111-3	chr19	32912027	32912227	+	851.055542	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLTR31C_MM|LTR|ERVK	154550.0	NM_008960	19211.0	Mm.245395	NM_008960	ENSMUSG00000013663	Pten	2310035O07Rik|A130070J02Rik|AI463227|B430203M17Rik|MMAC1|PTENbeta|TEP1	phosphatase and tensin homolog	protein-coding	2.5	5.0	1.0	14.5	49.0	15.5	20.5	29.0
Merged-chr5-100038556-4	chr5	100038513	100038713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_152866, intron 1 of 8)	CpG	609.0	NM_016690	50926.0	Mm.389579	NM_016690	ENSMUSG00000029328	Hnrnpdl	AA407431|AA959857|D5Ertd650e|D5Wsu145e|Hnrnpdl1|Hnrpdl|JKTBP|hnRNP DL|hnRNP-DL	heterogeneous nuclear ribonucleoprotein D-like	protein-coding	27.0	61.5	54.5	516.5	114.0	36.0	40.5	50.5
Merged-chr11-6274956-4	chr11	6274868	6275068	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134020)	promoter-TSS (NM_134020)	-131.0	NM_134020	103694.0	Mm.254495	NM_134020	ENSMUSG00000004394	Tmed4	1110014L17Rik|AI326346	transmembrane p24 trafficking protein 4	protein-coding	84.5	165.5	68.5	1448.5	242.0	72.0	105.5	111.0
Merged-chr14-51064890-5	chr14	51064712	51064912	+	939.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	6630.0	NM_207558	404319.0	Mm.377276	NM_207558	ENSMUSG00000035932	Olfr750	GA_x5J8B7W5WBF-6267395-6266441|GA_x6K02T2PMLR-6808276-6807281|MOR103-18	olfactory receptor 750	protein-coding	42.5	32.0	29.5	105.5	140.5	61.0	46.0	57.5
Merged-chr7-142403830-4	chr7	142403738	142403938	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-15968.0	NM_009983	13033.0	Mm.231395	NM_009983	ENSMUSG00000007891	Ctsd	CD|CatD	cathepsin D	protein-coding	146.0	201.5	159.0	2914.5	334.0	98.5	162.0	182.5
Merged-chr6-17837920-4	chr6	17837838	17838038	+	897.0208130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_022332, intron 3 of 15)	intron (NM_022332, intron 3 of 15)	88768.0	NM_001083315	64213.0	Mm.12051	NM_022332	ENSMUSG00000029534	St7	9430001H04Rik|Fam4a2|HELG|RAY1|SEN4|TSG7	suppression of tumorigenicity 7	protein-coding	16.0	32.5	20.5	361.5	25.0	14.5	12.5	10.0
Merged-chr11-11763528-4	chr11	11763440	11763640	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025597, intron 7 of 7)	intron (NM_001025597, intron 7 of 7)	45422.0	NM_021891	60530.0	Mm.236114	NM_021891	ENSMUSG00000035455	Fignl1	-	fidgetin-like 1	protein-coding	136.0	191.5	168.5	2613.0	292.0	115.5	167.0	129.0
Merged-chr12-51678947-4	chr12	51678844	51679044	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001172098, intron 1 of 15)	RSINE1|SINE|B4	-12022.0	NM_001329699	11782.0	Mm.386749	NM_021710	ENSMUSG00000020955	Ap4s1	AI314282	adaptor-related protein complex AP-4, sigma 1	protein-coding	47.5	54.0	33.0	619.0	98.5	22.0	33.0	24.5
Merged-chr4-128979535-2	chr4	128979435	128979635	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	B1_Mur4|SINE|Alu	-13689.0	NM_016895	11637.0	Mm.29460	NM_016895	ENSMUSG00000028792	Ak2	Ak-2|D4Ertd220e	adenylate kinase 2	protein-coding	8.5	6.0	7.5	44.5	11.5	5.0	1.5	1.5
Merged-chr4-53134271-4	chr4	53134175	53134375	+	915.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013454, intron 2 of 49)	intron (NM_013454, intron 2 of 49)	25620.0	NM_013454	11303.0	Mm.277376	NM_013454	ENSMUSG00000015243	Abca1	ABC-1|Abc1	ATP-binding cassette, sub-family A (ABC1), member 1	protein-coding	24.5	34.5	35.5	487.5	22.5	11.5	15.0	6.0
Merged-chr15-102279500-4	chr15	102279431	102279631	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_134100)	promoter-TSS (NM_134100)	75.0	NM_134100	106073.0	Mm.287740	NM_134100	ENSMUSG00000045665	Mfsd5	AA409375|AW556797|D15Mgi27	major facilitator superfamily domain containing 5	protein-coding	100.0	132.5	81.5	1152.5	161.5	60.5	86.5	96.5
Merged-chr16-4902562-4	chr16	4902472	4902672	+	818.174988	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357062, intron 1 of 17)	intron (NM_001357062, intron 1 of 17)	16472.0	NM_001357061	17237.0	Mm.291326	NM_029657	ENSMUSG00000022517	Mgrn1	2610042J20Rik|mKIAA0544|md|nc	mahogunin, ring finger 1	protein-coding	13.0	13.0	9.5	239.0	30.0	14.5	17.0	5.0
Merged-chr17-34556414-4	chr17	34556307	34556507	+	882.0416869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-7888.0	NM_010929	18132.0	Mm.173813	NM_010929	ENSMUSG00000015468	Notch4	Int-3|Int3|N4	notch 4	protein-coding	5.0	9.0	9.0	190.0	29.0	9.5	8.0	19.0
Merged-chr4-116074293-2	chr4	116074193	116074393	+	972.5	f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153521)	promoter-TSS (NM_153521)	777.0	NM_025641	66576.0	Mm.181721	NM_025641	ENSMUSG00000063882	Uqcrh	2210416J04Rik|2310021J10Rik|2610041P16Rik	ubiquinol-cytochrome c reductase hinge protein	protein-coding	4.5	3.0	4.0	58.0	15.5	4.5	13.0	8.5
Merged-chr3-104701150-4	chr3	104701043	104701243	+	971.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	62479.0	NM_009196	20501.0	Mm.9086	NM_009196	ENSMUSG00000032902	Slc16a1	AL022710|Mct1	solute carrier family 16 (monocarboxylic acid transporters), member 1	protein-coding	19.5	33.5	14.0	277.0	38.5	22.0	20.0	20.5
Merged-chr3-95015609-4	chr3	95015513	95015713	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_030074)	promoter-TSS (NM_030074)	-156.0	NM_001357863	78266.0	Mm.389478	NM_030074	ENSMUSG00000019338	Zfp687	4931408L03Rik|Znf687|mKIAA1441	zinc finger protein 687	protein-coding	283.0	474.0	310.0	4617.5	755.5	285.5	426.0	258.5
Merged-chr9-21030328-4	chr9	21030218	21030418	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_023892, intron 2 of 2)	intron (NM_023892, intron 2 of 2)	945.0	NM_023892	78369.0	Mm.30220	NM_023892	ENSMUSG00000001014	Icam4	1810015M19Rik|Cd242|ICAM-4	intercellular adhesion molecule 4, Landsteiner-Wiener blood group	protein-coding	13.5	13.5	2.5	49.5	28.0	7.5	9.5	12.5
Merged-chr4-154159180-4	chr4	154159036	154159236	+	958.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_151647, intron 3 of 3)	intron (NR_151647, intron 3 of 3)	1548.0	NR_151647	67808.0	Mm.288737	NM_026388	ENSMUSG00000029030	Tprgl	1200015A19Rik|Svap30|Tprg1l|mover	transformation related protein 63 regulated like	protein-coding	18.5	33.5	14.5	192.0	23.0	9.0	13.5	10.5
Merged-chr4-41636751-3	chr4	41636654	41636854	+	651.166687	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175138, intron 19 of 19)	MIR3|SINE|MIR	3548.0	NM_027147	69638.0	Mm.372459	NM_027147	ENSMUSG00000028445	Enho	1110065P19Rik|2310040A07Rik	energy homeostasis associated	protein-coding	8.5	16.0	11.5	143.5	15.5	5.5	5.5	11.5
Merged-chr8-34744879-4	chr8	34744782	34744982	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-62728.0	NM_176933	319520.0	Mm.170276	NM_176933	ENSMUSG00000031530	Dusp4	2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2	dual specificity phosphatase 4	protein-coding	3.0	1.5	12.5	131.0	217.0	49.5	100.5	39.0
Merged-chr10-30618437-4	chr10	30618334	30618534	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_025798)	promoter-TSS (NM_025798)	-68.0	NM_025798	66847.0	Mm.46218	NM_025798	ENSMUSG00000019791	Hint3	0610010I17Rik|AV009015|HINT-3|HINT-4|HINT4	histidine triad nucleotide binding protein 3	protein-coding	222.5	286.5	276.5	2795.0	513.0	244.0	284.0	244.0
Merged-chr4-99211837-4	chr4	99211737	99211937	+	979.7916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175029, intron 1 of 10)	intron (NM_175029, intron 1 of 10)	17690.0	NM_001145967	242557.0	Mm.241663	NM_175029	ENSMUSG00000028550	Atg4c	Apg4-C|Apg4c|Atg4cl|Autl1	autophagy related 4C, cysteine peptidase	protein-coding	18.0	19.5	19.5	395.5	47.0	13.0	20.0	18.5
Merged-chr5-92254695-4	chr5	92254597	92254797	+	935.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_011148, intron 1 of 16)	intron (NM_011148, intron 1 of 16)	1581.0	NM_011148	19023.0	Mm.87155	NM_011148	ENSMUSG00000029410	Ppef2	-	protein phosphatase, EF hand calcium-binding domain 2	protein-coding	30.5	69.5	21.5	591.5	21.0	12.0	24.0	18.5
Merged-chr7-27198591-4	chr7	27198471	27198671	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001290513, intron 2 of 7)	PB1D7|SINE|Alu	-2300.0	NM_001285825	53607.0	Mm.386890	NM_015782	ENSMUSG00000061479	Snrpa	C430021M15Rik|Rnu1a-1|Rnu1a1|U1-A|U1A	small nuclear ribonucleoprotein polypeptide A	protein-coding	82.0	149.0	110.5	1503.5	220.5	99.0	112.0	79.5
Merged-chr10-34281532-3	chr10	34281408	34281608	+	873.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009433)	promoter-TSS (NM_009433)	-682.0	NM_009433	22110.0	Mm.20445	NM_009433	ENSMUSG00000047514	Tspyl1	Tspyl	testis-specific protein, Y-encoded-like 1	protein-coding	7.5	6.0	8.5	129.0	14.0	9.0	13.5	9.5
Merged-chr7-99674430-3	chr7	99674369	99674569	+	938.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_175316, intron 7 of 13)	intron (NM_175316, intron 7 of 13)	21340.0	NM_001252531	101488.0	Mm.11249	NM_175316	ENSMUSG00000030737	Slco2b1	AI060904|AI852653|OATP-B|Slc21a9	solute carrier organic anion transporter family, member 2b1	protein-coding	7.5	12.0	5.0	155.5	16.0	4.0	1.0	5.5
Merged-chr12-34674407-4	chr12	34674309	34674509	+	812.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001271386, intron 3 of 27)	B4|SINE|B4	-145520.0	NM_024124	79221.0	Mm.310551	NM_024124	ENSMUSG00000004698	Hdac9	AV022454|D030072B18Rik|HD7B|HD9|HDRP|Hdac7b|Mitr|mKIAA0744	histone deacetylase 9	protein-coding	15.0	14.5	8.0	76.0	60.5	11.5	10.0	21.0
Merged-chr10-68301176-2	chr10	68301109	68301309	+	607.833374	f0_balb.idr|f0_c57.idr	Intergenic	Intergenic	19933.0	NR_045357	75148.0	Mm.23505	NR_045357	ENSMUSG00000112157	4930545H06Rik	-	RIKEN cDNA 4930545H06 gene	ncRNA	6.0	6.5	3.0	83.0	12.5	10.5	13.0	16.5
Merged-chr3-41563720-4	chr3	41563617	41563817	+	941.916626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001130185)	promoter-TSS (NM_001130185)	-34.0	NM_001130185	269424.0	Mm.286285	NM_172303	ENSMUSG00000025764	Jade1	AU041499|D530048A03Rik|Phf17|mKIAA1807	jade family PHD finger 1	protein-coding	24.5	29.0	14.0	268.5	37.0	11.5	22.5	20.0
Merged-chr1-171268421-3	chr1	171268334	171268534	+	1000.0	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RMER6A|LTR|ERVK	-1894.0	NM_020579	57370.0	Mm.274011	NM_020579	ENSMUSG00000052423	B4galt3	9530061M23Rik|AA104562|AW125175|ESTM26|ESTM6|R74981	UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 3	protein-coding	2.5	1.5	0.0	0.0	144.5	47.5	66.0	84.0
Merged-chr17-48408585-3	chr17	48408438	48408638	+	958.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001110832, intron 1 of 9)	intron (NM_001110832, intron 1 of 9)	1282.0	NM_001110832	18044.0	Mm.4929	NM_010913	ENSMUSG00000023994	Nfya	AA407810|Cbf-b|SEZ-10|SEZ10	nuclear transcription factor-Y alpha	protein-coding	8.5	7.0	13.5	145.5	20.5	15.0	6.0	16.0
Merged-chr9-110624503-3	chr9	110624382	110624582	+	730.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026012)	promoter-TSS (NM_026012)	-89.0	NM_026012	67169.0	Mm.46680	NM_026012	ENSMUSG00000032491	Nradd	2610311B09Rik|BB104149|NRDD|NRH2|PLAIDD	neurotrophin receptor associated death domain	protein-coding	5.0	6.5	5.0	99.5	12.0	3.5	6.0	8.0
Merged-chr1-57639267-3	chr1	57639162	57639362	+	970.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-135599.0	NM_144882	67198.0	Mm.159989	NM_144882	ENSMUSG00000038305	Spats2l	2810022L02Rik|A230104H11Rik|AA987173|AI480531|AI842453|AW413586	spermatogenesis associated, serine-rich 2-like	protein-coding	13.5	6.0	20.0	635.0	17.5	2.5	26.5	12.0
Merged-chr11-78512189-4	chr11	78512103	78512303	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026389)	promoter-TSS (NM_026389)	-35.0	NM_199199	195040.0	Mm.383431	NM_199199	ENSMUSG00000051232	Tmem199	AI316787|AI848469|R74819	transmembrane protein 199	protein-coding	89.0	101.5	70.0	796.5	195.0	103.0	110.5	77.0
Merged-chr5-103927617-4	chr5	103927501	103927701	+	974.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-16342.0	NM_001359986	246293.0	Mm.179871	NM_178741	ENSMUSG00000029312	Klhl8	2310001P09Rik|D5Ertd431e	kelch-like 8	protein-coding	13.0	23.5	14.0	250.0	57.5	14.0	14.5	23.0
Merged-chr10-52294300-3	chr10	52294215	52294415	+	695.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025705, intron 5 of 10)	intron (NM_025705, intron 5 of 10)	60696.0	NM_025705	66686.0	Mm.62982	NM_025705	ENSMUSG00000019891	Dcbld1	4631413K11Rik	discoidin, CUB and LCCL domain containing 1	protein-coding	8.5	9.5	15.0	86.5	10.5	3.0	3.0	4.0
Merged-chr11-96278963-4	chr11	96278857	96279057	+	715.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-2948.0	NM_010461	15416.0	Mm.4822	NM_010461	ENSMUSG00000056648	Hoxb8	Hox-2.4	homeobox B8	protein-coding	5.5	11.0	3.0	91.0	34.0	9.0	19.5	6.0
Merged-chr4-55623580-4	chr4	55623479	55623679	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-91104.0	NM_010637	16600.0	Mm.4325	NM_010637	ENSMUSG00000003032	Klf4	EZF|Gklf|Zie	Kruppel-like factor 4 (gut)	protein-coding	186.5	297.5	166.5	2477.5	381.0	143.0	171.5	133.5
Merged-chr9-106369101-4	chr9	106369051	106369251	+	861.212524	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_153459, exon 1 of 3)	exon (NM_153459, exon 1 of 3)	519.0	NM_153459	235584.0	Mm.275584	NM_153459	ENSMUSG00000053716	Dusp7	AU015694|Mkpx|Pyst2	dual specificity phosphatase 7	protein-coding	6.5	8.0	12.0	60.5	22.0	6.5	8.0	20.0
Merged-chr9-41951249-4	chr9	41951168	41951368	+	984.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	125945.0	NM_001357261	20660.0	Mm.121920	NM_011436	ENSMUSG00000049313	Sorl1	2900010L19Rik|AI596264|AW261561|LR11|SorLA|gp250|mSorLA	sortilin-related receptor, LDLR class A repeats-containing	protein-coding	21.0	39.5	26.0	280.0	52.5	13.5	19.5	18.0
Merged-chr16-11418471-4	chr16	11418364	11418564	+	961.5	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028964, intron 9 of 20)	intron (NM_028964, intron 9 of 20)	12816.0	NM_001290148	74478.0	Mm.325831	NM_028964	ENSMUSG00000071669	Snx29	4933437K13Rik|Gm11170|Gm1737|Gm930|Rundc2a	sorting nexin 29	protein-coding	25.0	39.0	14.0	312.0	37.5	11.5	23.0	15.0
Merged-chr6-50305129-4	chr6	50305016	50305216	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027881, intron 18 of 21)	intron (NM_027881, intron 18 of 21)	-43347.0	NM_018769	54722.0	Mm.248361	NM_018769	ENSMUSG00000029821	Gsdme	2310037D07Rik|4932441K13Rik|Dfna5|Dfna5h|EG14210|Fin15	gasdermin E	protein-coding	204.0	310.0	235.0	2615.0	536.0	178.0	200.0	191.5
Merged-chr7-45454868-12	chr7	45454771	45454971	+	993.7222289999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_030678, exon 15 of 16)	exon (NM_030678, exon 15 of 16)	5015.0	NM_010240	14325.0	Mm.30357	NM_010240	ENSMUSG00000050708	Ftl1	Ftl|Ftl-1|L-ferritin	ferritin light polypeptide 1	protein-coding	24.5	42.5	33.5	372.5	94.5	31.0	23.0	46.5
Merged-chr7-67484930-4	chr7	67484840	67485040	+	856.716675	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-112082.0	NM_001357324	17258.0	Mm.132788	NM_001033713	ENSMUSG00000030557	Mef2a	A430079H05Rik	myocyte enhancer factor 2A	protein-coding	7.0	14.5	17.5	362.0	28.0	18.5	19.0	19.0
Merged-chr11-76243765-4	chr11	76243677	76243877	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_026029)	promoter-TSS (NM_026029)	41.0	NM_183263	67390.0	Mm.24886	NM_183263	ENSMUSG00000038046	Mrm3	4833420N02Rik|AI255153|HC90|Rnmtl1	mitochondrial rRNA methyltransferase 3	protein-coding	25.5	64.0	24.5	316.5	128.5	40.0	27.5	35.5
Merged-chr2-124617552-4	chr2	124617428	124617628	+	818.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001291000, intron 1 of 18)	intron (NM_001291000, intron 1 of 18)	7232.0	NM_172537	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	10.5	9.5	12.0	104.5	18.5	1.5	4.0	9.0
Merged-chr4-124682450-3	chr4	124682347	124682547	+	812.833313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_026031, exon 5 of 8)	exon (NM_026031, exon 5 of 8)	11107.0	NM_026031	67205.0	Mm.259121	NM_026031	ENSMUSG00000028907	Utp11	2700082D03Rik|CGI-94|Cgi94|Utp11l	UTP11 small subunit processome component	protein-coding	8.0	13.5	0.5	80.5	16.5	5.0	6.5	6.5
Merged-chr17-70846411-4	chr17	70846305	70846505	+	943.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001164077, exon 1 of 2)	5' UTR (NM_001164077, exon 1 of 2)	372.0	NM_001164077	21815.0	Mm.101034	NM_009372	ENSMUSG00000047407	Tgif1	AA959811|AI462167|Tgif	TGFB-induced factor homeobox 1	protein-coding	12.0	43.5	16.0	172.5	60.5	23.5	20.0	16.5
Merged-chr7-4753060-4	chr7	4752960	4753160	+	956.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_183406)	promoter-TSS (NM_183406)	34.0	NR_110411	333182.0	Mm.29625	NM_183405	ENSMUSG00000051811	Cox6b2	1700067P11Rik|BC048670|COXVIB2	cytochrome c oxidase subunit VIb polypeptide 2	protein-coding	24.5	45.0	18.5	198.0	37.0	10.0	21.5	10.0
Merged-chr7-47056475-4	chr7	47056380	47056580	+	982.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	5840.0	NM_026436	67893.0	Mm.27338	NM_026436	ENSMUSG00000010307	Tmem86a	1810054O13Rik|AI414959|AW742698	transmembrane protein 86A	protein-coding	44.5	34.5	22.0	525.0	59.5	13.0	20.0	24.5
Merged-chr8-120436061-4	chr8	120435965	120436165	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-52801.0	NM_198671	382034.0	Mm.334856	NM_198671	ENSMUSG00000031822	Gse1	2210013I18Rik|mKIAA0182	genetic suppressor element 1, coiled-coil protein	protein-coding	98.5	148.0	124.0	1476.5	234.5	39.5	80.5	63.0
Merged-chr5-25498597-4	chr5	25498485	25498685	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001081383, exon 1 of 59)	5' UTR (NM_001081383, exon 1 of 59)	198.0	NM_001081383	231051.0	Mm.332268	NM_001081383	ENSMUSG00000038056	Kmt2c	E330008K23Rik|HALR|Mll3|mKIAA1506	lysine (K)-specific methyltransferase 2C	protein-coding	14.0	19.5	42.5	311.0	49.0	26.0	19.0	29.0
Merged-chr11-121808428-4	chr11	121808328	121808528	+	951.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21790.0	NM_029049	74675.0	Mm.61213	NM_029049	ENSMUSG00000039198	Ptchd3	4930451E13Rik|4933440L20Rik|RNDEu-3	patched domain containing 3	protein-coding	7.5	21.5	9.5	158.5	44.5	15.5	18.0	19.0
Merged-chr2-102500206-3	chr2	102500118	102500318	+	868.2222289999999	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx5|LINE|L1	-48426.0	NM_010218	14221.0	Mm.29730	NM_010218	ENSMUSG00000075012	Fjx1	-	four jointed box 1	protein-coding	3.5	6.5	5.0	64.5	28.5	13.5	8.0	12.0
Merged-chr19-3283002-4	chr19	3282905	3283105	+	996.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_009212)	promoter-TSS (NM_009212)	5.0	NM_009212	20589.0	Mm.3179	NM_009212	ENSMUSG00000024831	Ighmbp2	AEP|Catf1|RIPE3b1|Smbp-2|Smbp2|Smubp2|nmd|sma	immunoglobulin mu binding protein 2	protein-coding	13.0	32.0	15.5	222.0	45.0	35.5	23.5	25.0
Merged-chr2-164389755-4	chr2	164389651	164389851	+	964.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001252563, intron 10 of 10)	CpG	-13443.0	NM_009036	19668.0	Mm.473794	NM_009036	ENSMUSG00000017007	Rbpjl	RBP-L|Rbpsuhl	recombination signal binding protein for immunoglobulin kappa J region-like	protein-coding	18.0	27.5	16.5	217.5	45.5	13.5	15.0	11.0
Merged-chr10-77581656-4	chr10	77581563	77581763	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145925)	promoter-TSS (NM_145925)	8.0	NM_145925	108705.0	Mm.28853	NM_145925	ENSMUSG00000009291	Pttg1ip	1810010L20Rik|AI314311|AU018448|C79540|PBF	pituitary tumor-transforming 1 interacting protein	protein-coding	198.5	287.0	156.0	2182.0	417.0	166.5	193.0	178.5
Merged-chr12-102450638-4	chr12	102450554	102450754	+	997.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10841.0	NM_011175	19141.0	Mm.17185	NM_011175	ENSMUSG00000021190	Lgmn	AEP|AI746452|AU022324|Prsc1	legumain	protein-coding	80.5	84.5	182.0	2839.5	37.0	12.0	35.0	35.5
Merged-chr2-160068080-4	chr2	160067974	160068174	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	51421.0	NR_040499	71613.0	Mm.98139	NR_040499	ENSMUSG00000086653	9130015L21Rik	-	RIKEN cDNA 9130015L21 gene	ncRNA	96.5	83.0	68.0	1096.0	50.0	45.0	31.5	30.5
Merged-chr2-156324876-3	chr2	156324778	156324978	+	869.8333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027585, intron 2 of 12)	RMER21B|LTR|ERV1	-12174.0	NM_020255	19018.0	Mm.389346	NM_020255	ENSMUSG00000046229	Scand1	2310003H23Rik|Leap1|PGC-2|Ppargc2	SCAN domain-containing 1	protein-coding	2.0	1.0	4.5	33.0	24.5	14.0	17.0	16.0
Merged-chr14-98873597-3	chr14	98873533	98873733	+	846.7333369999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	172503.0	NM_175245	76789.0	Mm.38912	NM_175245	ENSMUSG00000033186	Mzt1	2410129H14Rik|AI120158|Mozart1	mitotic spindle organizing protein 1	protein-coding	27.0	21.0	12.0	357.0	16.5	3.0	8.0	3.5
Merged-chr2-165997776-4	chr2	165997671	165997871	+	824.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008679, intron 1 of 22)	B1_Mur1|SINE|Alu	5134.0	NM_008679	17979.0	Mm.469663	NM_008679	ENSMUSG00000027678	Ncoa3	2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip	nuclear receptor coactivator 3	protein-coding	14.0	20.5	18.5	214.5	28.5	12.0	10.5	18.0
Merged-chr8-120686732-2	chr8	120686632	120686832	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	18412.0	NM_001293559	12857.0	Mm.386758	NM_009941	ENSMUSG00000031818	Cox4i1	AL024441|COX|COX IV-1|COXIV|Cox4|Cox4a|IV-1	cytochrome c oxidase subunit 4I1	protein-coding	8.5	10.0	8.0	143.5	27.5	15.0	1.0	12.0
Merged-chr19-11093501-4	chr19	11093406	11093606	+	776.833313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-12403.0	NM_022430	64381.0	Mm.34460	NM_022430	ENSMUSG00000024730	Ms4a8a	2010004L09Rik|AI481240|CD20L5|Ms4a8	membrane-spanning 4-domains, subfamily A, member 8A	protein-coding	6.0	16.0	19.0	108.5	15.0	11.5	12.5	3.5
Merged-chr6-70844315-4	chr6	70844197	70844397	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_010121)	promoter-TSS (NM_010121)	-218.0	NM_010121	13666.0	Mm.247167	NM_010121	ENSMUSG00000031668	Eif2ak3	Pek|Perk	eukaryotic translation initiation factor 2 alpha kinase 3	protein-coding	366.0	513.0	469.0	6013.0	835.5	396.5	419.5	398.5
Merged-chr14-51253754-4	chr14	51253639	51253839	+	888.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR25B|LTR|ERVK	2373.0	NM_053113	93726.0	Mm.153688	NM_053113	ENSMUSG00000047222	Rnase2a	Ear11	ribonuclease, RNase A family, 2A (liver, eosinophil-derived neurotoxin)	protein-coding	12.0	26.5	23.5	321.0	25.5	8.0	9.5	5.0
Merged-chr15-65787139-4	chr15	65787055	65787255	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001356582, exon 1 of 23)	5' UTR (NM_001356582, exon 1 of 23)	135.0	NM_001356582	76740.0	Mm.260647	NM_133766	ENSMUSG00000015002	Efr3a	A130089M23Rik|BB071175|C76891|C920006C10Rik|D030063F01Rik|mKIAA0143	EFR3 homolog A	protein-coding	132.0	205.5	246.5	2645.0	299.5	129.0	158.0	138.5
Merged-chr16-59460793-2	chr16	59460679	59460879	+	701.5	f0_c57.idr|f1_c57bl6.idr	intron (NM_001081190, intron 8 of 8)	B3A|SINE|B2	8459.0	NR_040568	75636.0	Mm.490522	NR_040568	ENSMUSG00000099983	1700022E09Rik	-	RIKEN cDNA 1700022E09 gene	ncRNA	0.5	0.0	0.0	0.0	56.0	14.0	16.0	17.5
Merged-chr17-31021044-4	chr17	31020934	31021134	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-36660.0	NM_009593	11307.0	Mm.15691	NM_009593	ENSMUSG00000024030	Abcg1	AW413978|Abc8|White	ATP binding cassette subfamily G member 1	protein-coding	51.5	81.0	65.5	1022.5	71.0	28.0	32.5	28.5
Merged-chr11-103281924-4	chr11	103281834	103282034	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14533.0	NM_016896	53859.0	Mm.158981	NM_016896	ENSMUSG00000020941	Map3k14	Nik|aly	mitogen-activated protein kinase kinase kinase 14	protein-coding	112.5	132.0	113.5	1593.5	230.5	82.0	112.0	116.0
Merged-chr16-27399632-4	chr16	27399525	27399725	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001025615, intron 1 of 9)	intron (NM_001025615, intron 1 of 9)	10669.0	NM_001289436	67501.0	Mm.258985	NM_026202	ENSMUSG00000038127	Ccdc50	C3orf6	coiled-coil domain containing 50	protein-coding	29.5	38.0	20.0	320.0	69.0	25.5	29.0	27.0
Merged-chr5-72173205-1	chr5	72173105	72173305	+	790.5	f0_balb.idr	Intergenic	Intergenic	-5016.0	NM_001356614	27784.0	Mm.44223	NM_178599	ENSMUSG00000029213	Commd8	C77770|D5Buc26e	COMM domain containing 8	protein-coding	8.5	11.0	11.0	114.0	11.5	6.0	3.5	4.0
Merged-chr10-88740049-3	chr10	88739957	88740157	+	682.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_025859, intron 4 of 5)	ORR1D2|LTR|ERVL-MaLR	8643.0	NM_025859	104303.0	Mm.291247	NM_025859	ENSMUSG00000060904	Arl1	2310008D22Rik|AU019749	ADP-ribosylation factor-like 1	protein-coding	8.0	11.5	6.5	123.0	13.0	7.0	10.0	18.5
Merged-chr7-128312504-4	chr7	128312396	128312596	+	985.9500119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14365.0	NM_145590	233913.0	Mm.220880	NM_145590	ENSMUSG00000030780	BC017158	-	cDNA sequence BC017158	protein-coding	17.0	22.0	11.0	125.5	49.5	28.0	11.5	21.5
Merged-chr6-92127327-3	chr6	92127284	92127484	+	918.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001347342, intron 2 of 14)	intron (NM_001347342, intron 2 of 14)	34951.0	NM_001347342	22026.0	Mm.87062	NM_011630	ENSMUSG00000005893	Nr2c2	TAK1|Tr4|mKIAA4145	nuclear receptor subfamily 2, group C, member 2	protein-coding	11.0	10.0	5.0	117.5	9.5	4.0	4.0	2.5
Merged-chr8-47676041-1	chr8	47675941	47676141	+	1000.0	f0_balb.idr	promoter-TSS (NM_023503)	promoter-TSS (NM_023503)	-882.0	NM_023503	69260.0	Mm.430733	NM_023503	ENSMUSG00000063049	Ing2	2810011M06Rik|Ing1l|Ing2b|P33ING2	inhibitor of growth family, member 2	protein-coding	19.5	35.5	16.0	184.5	73.0	23.5	26.5	19.0
Merged-chr12-70911182-4	chr12	70911077	70911277	+	881.9583130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MIR|SINE|MIR	-26680.0	NM_019785	56444.0	Mm.29317	NM_019785	ENSMUSG00000021076	Actr10	Actr11|Arp11	ARP10 actin-related protein 10	protein-coding	19.0	24.0	21.0	137.0	20.0	9.5	17.5	12.0
Merged-chr3-131868411-4	chr3	131868305	131868505	+	914.4375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-216887.0	NM_020265	56811.0	Mm.103593	NM_020265	ENSMUSG00000028031	Dkk2	-	dickkopf WNT signaling pathway inhibitor 2	protein-coding	9.5	8.5	16.0	233.5	36.5	10.0	24.5	16.0
Merged-chr4-105557687-4	chr4	105557608	105557808	+	995.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1F-int|LTR|ERVL-MaLR	400361.0	NM_080555	67916.0	Mm.348326	NM_080555	ENSMUSG00000028517	Plpp3	1110003O22Rik|2610002D05Rik|AV025606|D4Bwg0538e|D4Bwg1535e|Lpp3|Ppab2b|Ppap2b	phospholipid phosphatase 3	protein-coding	31.0	25.0	35.5	458.0	56.0	21.5	20.5	13.5
Merged-chr8-61590087-2	chr8	61589987	61590187	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001293772, intron 10 of 21)	intron (NM_001293772, intron 10 of 21)	1082.0	NM_001293774	72333.0	Mm.29933	NM_001081390	ENSMUSG00000058056	Palld	2410003B16Rik|6030492A02	palladin, cytoskeletal associated protein	protein-coding	11.0	8.5	5.0	69.0	9.5	4.0	0.0	2.0
Merged-chr8-71597026-4	chr8	71596933	71597133	+	868.75	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001166213)	promoter-TSS (NM_001166213)	-613.0	NM_001166213	100037278.0	Mm.482159	NM_001166213	ENSMUSG00000043243	Fam129c	Bcnp1	family with sequence similarity 129, member C	protein-coding	13.5	30.5	5.5	92.0	55.0	11.0	14.0	6.0
Merged-chr12-80758405-3	chr12	80758336	80758536	+	892.5	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001008423, exon 2 of 2)	exon (NM_001008423, exon 2 of 2)	2279.0	NM_001008423	380768.0	Mm.29367	NM_001008423	ENSMUSG00000062961	Ccdc177	Gm1568	coiled-coil domain containing 177	protein-coding	4.0	13.5	6.5	122.5	18.5	10.0	7.0	8.0
Merged-chr2-140784816-4	chr2	140784728	140784928	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001013802, intron 3 of 18)	Lx5|LINE|L1	-113352.0	NM_178382	71436.0	Mm.426781	NM_178382	ENSMUSG00000051379	Flrt3	5530600M07Rik|C430047I10Rik|mKIAA1469	fibronectin leucine rich transmembrane protein 3	protein-coding	87.5	141.5	83.0	1242.0	209.5	90.0	112.0	78.0
Merged-chr15-68269827-2	chr15	68269728	68269928	+	762.366699	f1_balb.idr|f1_c57bl6.idr	Intergenic	MTC|LTR|ERVL-MaLR	-10972.0	NM_198644	380993.0	Mm.309526	NM_198644	ENSMUSG00000022335	Zfat	Gm922|Zfat1|Zfp406	zinc finger and AT hook domain containing	protein-coding	5.5	16.0	8.5	41.0	10.5	3.0	5.0	5.0
Merged-chr9-63132941-4	chr9	63132809	63133009	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	14071.0	NM_172446	207667.0	Mm.36349	NM_172446	ENSMUSG00000022245	Skor1	AV273001|C230094B15Rik|Corl1|Lbxcor1	SKI family transcriptional corepressor 1	protein-coding	90.0	130.0	45.0	1372.5	152.5	54.5	69.5	48.0
Merged-chr14-47351643-3	chr14	47351557	47351757	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	RLTR1B|LTR|ERV1	-22203.0	NM_010705	16854.0	Mm.248615	NM_010705	ENSMUSG00000050335	Lgals3	GBP|L-34|Mac-2|gal3	lectin, galactose binding, soluble 3	protein-coding	42.0	73.5	47.5	476.5	7.0	2.0	7.0	8.0
Merged-chr16-17249279-4	chr16	17249196	17249396	+	909.3333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_178922, intron 1 of 2)	intron (NM_178922, intron 1 of 2)	15709.0	NM_178922	58180.0	Mm.261602	NM_178922	ENSMUSG00000050240	Hic2	AA409108|HRG22|mKIAA1020	hypermethylated in cancer 2	protein-coding	10.5	9.5	9.5	162.0	28.0	6.0	13.0	16.5
Merged-chr4-32280558-4	chr4	32280483	32280683	+	902.7083130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-136852.0	NM_001109661	12014.0	Mm.491223	NM_007521	ENSMUSG00000040270	Bach2	E030004N02Rik	BTB and CNC homology, basic leucine zipper transcription factor 2	protein-coding	21.0	22.0	24.5	313.0	19.5	9.0	12.5	15.5
Merged-chr4-150593994-4	chr4	150593917	150594117	+	987.5833130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001085492, intron 12 of 22)	intron (NM_001085492, intron 12 of 22)	58157.0	NM_001355737	242773.0	Mm.29280	NM_173774	ENSMUSG00000039838	Slc45a1	C230078B22|Dnb5	solute carrier family 45, member 1	protein-coding	28.5	35.0	17.0	545.5	79.0	21.5	28.5	22.0
Merged-chr4-43383406-4	chr4	43383315	43383515	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001037709, intron 1 of 11)	intron (NM_001037709, intron 1 of 11)	1433.0	NM_001037709	100213.0	Mm.235730	NM_199057	ENSMUSG00000035969	Rusc2	AI840675|mKIAA0375	RUN and SH3 domain containing 2	protein-coding	43.5	55.0	30.5	572.5	90.5	23.5	32.5	26.5
Merged-chr6-125165686-4	chr6	125165564	125165764	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_008084, exon 1 of 7)	5' UTR (NM_008084, exon 1 of 7)	109.0	NM_008084	14433.0	Mm.304088	NM_008084	ENSMUSG00000057666	Gapdh	Gapd	glyceraldehyde-3-phosphate dehydrogenase	protein-coding	152.5	231.0	126.5	2214.0	505.0	167.5	234.0	192.5
Merged-chr10-51422441-1	chr10	51422341	51422541	+	1000.0	f0_balb.idr	Intergenic	RLTR13D3|LTR|ERVK	-58171.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	13.5	20.0	11.5	180.5	24.5	11.0	11.0	10.5
Merged-chr11-116624295-4	chr11	116624195	116624395	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001167680)	promoter-TSS (NM_001167680)	-43.0	NM_001167680	217344.0	Mm.89695	NM_172572	ENSMUSG00000020806	Rhbdf2	4732465I17Rik|Rhbdl6|cub	rhomboid 5 homolog 2	protein-coding	86.5	165.5	77.0	810.5	244.5	95.0	78.0	89.0
Merged-chr13-67728789-4	chr13	67728668	67728868	+	957.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NR_027969)	promoter-TSS (NR_027969)	405.0	NM_145622	235907.0	Mm.440123	NM_145622	ENSMUSG00000071281	Zfp65	KRAB5|Zfp71-rs1|pz114	zinc finger protein 65	protein-coding	11.5	19.5	38.0	260.5	37.0	8.5	13.0	18.0
Merged-chr16-87652671-3	chr16	87652568	87652768	+	878.3333130000001	f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	MLT1B|LTR|ERVL-MaLR	-46286.0	NM_007520	12013.0	Mm.26147	NM_007520	ENSMUSG00000025612	Bach1	6230421P05Rik|AI323795	BTB and CNC homology 1, basic leucine zipper transcription factor 1	protein-coding	5.0	9.5	15.0	106.5	22.0	4.5	11.0	3.0
Merged-chr11-16629842-4	chr11	16629717	16629917	+	895.2916869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Lx8|LINE|L1	-121333.0	NM_001109971	20335.0	Mm.325350	NM_011343	ENSMUSG00000078974	Sec61g	-	SEC61, gamma subunit	protein-coding	12.0	12.5	16.5	302.0	23.0	1.0	8.0	10.5
Merged-chr10-13300395-4	chr10	13300291	13300491	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001195065, intron 1 of 12)	intron (NM_001195065, intron 1 of 12)	23898.0	NM_001195096	215789.0	Mm.283359	NM_001033257	ENSMUSG00000062866	Phactr2	AV158170|BC012871	phosphatase and actin regulator 2	protein-coding	90.0	137.0	85.0	1203.0	186.5	67.5	113.5	76.5
Merged-chr16-49699146-4	chr16	49699045	49699245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_028680)	promoter-TSS (NM_028680)	-149.0	NM_028680	73916.0	Mm.241276	NM_028680	ENSMUSG00000032965	Ift57	4833420A15Rik|Esrrbl1|Hippi|MHS4R2	intraflagellar transport 57	protein-coding	291.0	430.0	285.5	3759.0	652.0	250.5	343.0	285.0
Merged-chr9-61960986-4	chr9	61960893	61961093	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028748, intron 7 of 7)	MER5A|DNA|hAT-Charlie	-14194.0	NM_024245	71819.0	Mm.259374	NM_024245	ENSMUSG00000032254	Kif23	3110001D19Rik|C87313|CHO1|Knsl5|MKLP-1|MKLP1	kinesin family member 23	protein-coding	51.0	51.0	48.5	696.0	120.0	30.0	49.0	41.0
Merged-chr5-53929249-2	chr5	53929149	53929349	+	734.5	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69274.0	NM_001081103	116873.0	Mm.265985	NM_054083	ENSMUSG00000039156	Stim2	-	stromal interaction molecule 2	protein-coding	12.5	8.0	7.5	138.5	6.5	7.5	4.5	8.0
Merged-chr13-30994079-2	chr13	30993979	30994179	+	636.75	f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-20032.0	NM_025588	66482.0	Mm.293510	NM_025588	ENSMUSG00000021357	Exoc2	2410030I24Rik|AI648199|Sec5|Sec5l1	exocyst complex component 2	protein-coding	0.0	7.0	3.0	34.5	15.5	4.5	8.0	9.0
Merged-chr2-112255333-4	chr2	112255228	112255428	+	935.4166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172521, intron 2 of 6)	intron (NM_172521, intron 2 of 6)	3963.0	NM_172521	213765.0	Mm.78965	NM_172521	ENSMUSG00000041358	Nutm1	4932438M10|Nut	NUT midline carcinoma, family member 1	protein-coding	14.0	6.5	13.0	160.0	36.5	4.0	17.0	11.5
Merged-chr12-111908144-4	chr12	111908075	111908275	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011625)	promoter-TSS (NM_011625)	-120.0	NM_011625	21981.0	Mm.313076	NM_011625	ENSMUSG00000021285	Ppp1r13b	AI449786|ASPP1|AW545810|Tp53bp2|Trp53bp2|p85	protein phosphatase 1, regulatory (inhibitor) subunit 13B	protein-coding	82.5	107.5	64.0	1057.5	205.0	88.0	88.5	67.5
Merged-chr10-79726336-4	chr10	79726237	79726437	+	951.125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_008226, intron 3 of 7)	intron (NM_008226, intron 3 of 7)	9703.0	NM_008226	15166.0	Mm.12956	NM_008226	ENSMUSG00000020331	Hcn2	BCNG2|HAC1|trls	hyperpolarization-activated, cyclic nucleotide-gated K+ 2	protein-coding	11.0	18.0	13.0	195.0	41.5	17.5	19.5	26.5
Merged-chr5-148464629-4	chr5	148464567	148464767	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-64763.0	NM_007513	11987.0	Mm.275489	NM_007513	ENSMUSG00000041313	Slc7a1	4831426K01Rik|AI447493|Atrc-1|Atrc1|Cat1|Rec-1|Rev-1|mCAT-1	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	protein-coding	81.5	99.0	105.5	1666.5	139.0	48.5	66.5	53.0
Merged-chr11-119603103-6	chr11	119603045	119603245	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	5' UTR (NM_001306081, exon 1 of 33)	5' UTR (NM_001306081, exon 1 of 33)	240.0	NM_028898	74370.0	Mm.209933	NM_028898	ENSMUSG00000025583	Rptor	4932417H02Rik|Rap|Raptor|mKIAA1303	regulatory associated protein of MTOR, complex 1	protein-coding	14.5	16.0	22.0	170.0	62.0	13.0	10.5	27.5
Merged-chr2-124858764-4	chr2	124858656	124858856	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	205175.0	NM_199239	214968.0	Mm.330536	NM_172537	ENSMUSG00000027200	Sema6d	1110067B02Rik|AA409156|D330011G23|mKIAA1479	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D	protein-coding	40.5	70.5	62.0	698.0	101.5	55.5	29.5	50.5
Merged-chr9-37347773-4	chr9	37347693	37347893	+	909.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001081429, exon 2 of 16)	exon (NM_001081429, exon 2 of 16)	599.0	NM_001081429	245902.0	Mm.390150	NM_001081429	ENSMUSG00000034303	Ccdc15	A630039F14Rik|D030074L19	coiled-coil domain containing 15	protein-coding	9.0	22.0	3.0	47.5	66.5	23.5	7.5	21.0
Merged-chr5-147076639-4	chr5	147076552	147076752	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_181730)	promoter-TSS (NM_181730)	-80.0	NM_080795	140887.0	Mm.272203	NM_080795	ENSMUSG00000016520	Lnx2	9630046H24|AW209022	ligand of numb-protein X 2	protein-coding	137.5	170.5	116.5	2492.0	447.0	173.5	268.0	179.5
Merged-chr10-21159858-3	chr10	21159759	21159959	+	660.388916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001198914, intron 1 of 15)	CpG	1125.0	NM_001198914	17863.0	Mm.52109	NM_010848	ENSMUSG00000019982	Myb	AI550390|M16449|c-myb	myeloblastosis oncogene	protein-coding	12.0	9.0	8.5	93.0	8.0	2.5	4.0	5.5
Merged-chr10-37359241-5	chr10	37359230	37359430	+	940.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-220404.0	NM_008538	17118.0	Mm.30059	NM_008538	ENSMUSG00000069662	Marcks	Macs|PKCSL	myristoylated alanine rich protein kinase C substrate	protein-coding	7.0	7.5	8.5	180.5	14.0	3.0	4.5	5.0
Merged-chr6-147799201-3	chr6	147799101	147799301	+	1000.0	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	108960.0	NR_033636	100039727.0	Mm.396220	NR_033636	ENSMUSG00000085077	1700049E15Rik	Gm15761	RIKEN cDNA 1700049E15 gene	ncRNA	45.5	58.5	35.5	810.0	8.0	12.5	7.0	2.0
Merged-chr13-38528408-4	chr13	38528325	38528525	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_145367)	promoter-TSS (NM_145367)	59.0	NM_145367	105245.0	Mm.28622	NM_145367	ENSMUSG00000038991	Txndc5	AL022641|ERp46|PC-TRP	thioredoxin domain containing 5	protein-coding	46.0	67.0	79.0	586.0	82.0	33.5	22.0	49.5
Merged-chr18-77774038-4	chr18	77773939	77774139	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001357532)	promoter-TSS (NM_001357532)	-154.0	NM_001357531	225745.0	Mm.39293	NM_146089	ENSMUSG00000041840	Haus1	BC024400|Ccdc5|HEI-C	HAUS augmin-like complex, subunit 1	protein-coding	64.5	96.5	98.0	832.0	137.5	53.5	74.0	87.0
Merged-chr10-80087664-4	chr10	80087551	80087751	+	905.8250119999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001359637, intron 1 of 3)	ID_B1|SINE|B4	-12212.0	NM_001359636	216161.0	Mm.262102	NM_183426	ENSMUSG00000035673	Sbno2	BC019206|F730040C21|Sno|Stno	strawberry notch 2	protein-coding	18.0	16.0	14.5	388.5	26.5	11.5	13.0	20.0
Merged-chr1-127225863-3	chr1	127225763	127225963	+	862.444458	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_145128, intron 1 of 17)	intron (NM_145128, intron 1 of 17)	20877.0	NM_145128	107895.0	Mm.214682	NM_145128	ENSMUSG00000036155	Mgat5	4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV	mannoside acetylglucosaminyltransferase 5	protein-coding	9.0	6.5	7.0	95.5	15.0	4.5	2.5	8.5
Merged-chr2-45280532-4	chr2	45280433	45280633	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-163091.0	NM_001355288	24136.0	Mm.440702	NM_015753	ENSMUSG00000026872	Zeb2	9130203F04Rik|D130016B08Rik|SIP1|Zfhx1b|Zfx1b|Zfxh1b	zinc finger E-box binding homeobox 2	protein-coding	32.5	30.5	21.5	439.0	57.5	19.0	27.5	26.0
Merged-chr18-35747080-4	chr18	35746956	35747156	+	844.6124880000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6502.0	NM_001289592	72512.0	Mm.45995	NM_028261	ENSMUSG00000024349	Tmem173	2610307O08Rik|ERIS|MPYS|Mita|STING	transmembrane protein 173	protein-coding	7.0	14.0	12.0	90.0	9.5	13.0	9.0	9.0
Merged-chr10-45045496-3	chr10	45045408	45045608	+	625.333313	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-21706.0	NM_011156	19072.0	Mm.10281	NM_011156	ENSMUSG00000019849	Prep	AI047692|AI450383|D10Wsu136e|PEP|Pop	prolyl endopeptidase	protein-coding	4.0	12.5	6.0	89.0	18.5	4.5	7.5	10.5
Merged-chr1-34855850-4	chr1	34855745	34855945	+	959.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001357425, intron 2 of 8)	(TTTTG)n|Simple_repeat|Simple_repeat	5856.0	NM_001357425	226971.0	Mm.292751	NM_145516	ENSMUSG00000026123	Plekhb2	2310009M15Rik|AU018239|Evt2|Phdc|evt-2	pleckstrin homology domain containing, family B (evectins) member 2	protein-coding	9.0	6.0	5.5	156.5	56.0	10.5	16.5	11.5
Merged-chr7-19910940-3	chr7	19910829	19911029	+	913.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027514, intron 4 of 7)	intron (NM_027514, intron 4 of 7)	10214.0	NM_027514	52118.0	Mm.227506	NM_027514	ENSMUSG00000040511	Pvr	3830421F03Rik|CD155|D7Ertd458e|HVED|PVS|Taa1|Tage4|mE4|necl-5	poliovirus receptor	protein-coding	3.5	12.0	10.0	111.0	11.0	4.5	11.0	6.5
Merged-chr17-47743208-2	chr17	47743101	47743301	+	955.833374	f1_balb.idr|f1_c57bl6.idr	intron (NM_001161723, intron 1 of 8)	B3|SINE|B2	5270.0	NM_001161723	21425.0	Mm.2305	NM_011549	ENSMUSG00000023990	Tfeb	Tcfeb|bHLHe35	transcription factor EB	protein-coding	1.5	2.5	3.0	52.0	12.5	5.0	11.5	4.5
Merged-chr6-38636891-8	chr6	38636929	38637129	+	839.1726070000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001033171, exon 1 of 5)	exon (NM_001033171, exon 1 of 5)	210.0	NM_001033171	74253.0	Mm.121859	NM_001033171	ENSMUSG00000071537	Klrg2	2310020F24Rik	killer cell lectin-like receptor subfamily G, member 2	protein-coding	5.5	9.5	13.5	125.5	17.0	11.0	9.0	10.5
Merged-chr11-117870799-4	chr11	117870708	117870908	+	879.8333130000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_027919, intron 3 of 6)	intron (NM_027919, intron 3 of 6)	2718.0	NM_027919	71776.0	Mm.3200	NM_027919	ENSMUSG00000017713	Tha1	1300017K07Rik|GLY1	threonine aldolase 1	protein-coding	18.0	12.5	13.0	84.0	49.5	16.0	20.5	13.5
Merged-chr4-141823148-4	chr4	141823030	141823230	+	814.5625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_007919, intron 2 of 7)	MTD|LTR|ERVL-MaLR	2875.0	NM_007919	13706.0	Mm.45316	NM_007919	ENSMUSG00000058579	Cela2a	Ela-2|Ela2|Ela2a	chymotrypsin-like elastase family, member 2A	protein-coding	9.0	20.0	11.0	96.0	75.5	27.5	65.5	37.5
Merged-chr5-100614275-4	chr5	100614171	100614371	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-42066.0	NM_139198	231507.0	Mm.34609	NM_139198	ENSMUSG00000029322	Plac8	C15|D5Wsu111e	placenta-specific 8	protein-coding	98.0	165.5	72.0	883.5	244.0	101.0	104.0	56.5
Merged-chr4-135679584-3	chr4	135679494	135679694	+	939.2222289999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-6863.0	NM_174851	242700.0	Mm.259623	NM_174851	ENSMUSG00000062157	Ifnlr1	CRF2-12|Il28ra	interferon lambda receptor 1	protein-coding	7.5	19.0	16.0	79.5	45.5	3.0	6.0	10.5
Merged-chr3-58982967-2	chr3	58982867	58983067	+	691.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	LTR41B|LTR|ERVL	-24011.0	NM_177855	329650.0	Mm.240059	NM_177855	ENSMUSG00000056476	Med12l	A130035F20|A630079M02|AU044581|TRALPUSH	mediator complex subunit 12-like	protein-coding	5.5	7.0	5.0	35.0	8.5	1.5	1.0	1.0
Merged-chr13-45974828-4	chr13	45974727	45974927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-9836.0	NM_009124	20238.0	Mm.342683	NM_009124	ENSMUSG00000046876	Atxn1	2900016G23Rik|Atx1|C85907|Gm10786|Sca1	ataxin 1	protein-coding	45.5	48.0	56.5	507.5	83.0	52.0	37.5	27.0
Merged-chr12-33010217-3	chr12	33010102	33010302	+	921.555542	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56016.0	NM_198710	19027.0	Mm.246304	NM_013635	ENSMUSG00000020570	Sypl	AI314763|AI604763|D12Ertd446e|PanI|Pphn|Sypl1	synaptophysin-like protein	protein-coding	10.5	12.0	10.0	152.5	13.0	4.5	9.0	17.5
Merged-chr10-54118561-4	chr10	54118492	54118692	+	831.291687	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	42670.0	NR_038016	100502920.0	Mm.403982	NR_038016	ENSMUSG00000097069	Gm16998	-	predicted gene, 16998	ncRNA	9.0	12.0	4.5	153.5	22.5	12.0	8.5	10.5
Merged-chr1-106162762-4	chr1	106162637	106162837	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NR_040630, intron 2 of 2)	B3A|SINE|B2	8787.0	NR_040630	626049.0	Mm.247410	NR_040630	ENSMUSG00000101583	Gm20753	-	predicted gene, 20753	ncRNA	34.0	33.0	42.0	496.5	87.5	37.0	32.0	38.0
Merged-chr3-88335197-3	chr3	88335107	88335307	+	908.25	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_024246)	promoter-TSS (NM_024246)	-774.0	NM_024246	71913.0	Mm.34256	NM_024246	ENSMUSG00000001420	Tmem79	2310042N02Rik|2310074C17Rik|Matt|ma	transmembrane protein 79	protein-coding	10.0	10.5	7.5	116.0	34.0	1.0	7.0	10.5
Merged-chr13-22015868-4	chr13	22015756	22015956	+	921.599976	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	tRNA-Val-GTY|tRNA|tRNA	-6115.0	NM_019429	54373.0	Mm.32043	NM_019429	ENSMUSG00000006179	Prss16	AI448615|TSSP	protease, serine 16 (thymus)	protein-coding	33.0	45.0	36.5	173.5	31.5	14.0	13.0	13.0
Merged-chr11-119040261-3	chr11	119040158	119040358	+	891.1666869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_013926, intron 2 of 4)	intron (NM_013926, intron 2 of 4)	655.0	NM_013926	30951.0	Mm.99953	NM_013926	ENSMUSG00000025578	Cbx8	Pc3	chromobox 8	protein-coding	16.5	16.5	7.0	117.0	28.0	5.5	10.0	6.5
Merged-chr10-39417804-4	chr10	39417720	39417920	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001122892, intron 2 of 12)	intron (NM_001122892, intron 2 of 12)	48021.0	NM_001122893	14360.0	Mm.4848	NM_008054	ENSMUSG00000019843	Fyn	AI448320|AW552119	Fyn proto-oncogene	protein-coding	38.0	54.5	62.5	1064.0	80.0	23.5	87.0	47.5
Merged-chr3-35732441-4	chr3	35732321	35732521	+	924.537476	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	B3A|SINE|B2	-21642.0	NR_151626	76295.0	Mm.239416	NM_029570	ENSMUSG00000037400	Atp11b	1110019I14Rik|ATPIF|ATPIR|mKIAA0956	ATPase, class VI, type 11B	protein-coding	10.5	11.5	9.0	126.5	18.5	18.0	9.5	14.0
Merged-chr18-10725545-4	chr18	10725436	10725636	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_144860)	promoter-TSS (NM_144860)	-89.0	NM_144860	225164.0	Mm.21500	NM_144860	ENSMUSG00000024294	Mib1	DIP-1|E430019M12Rik|Mib|mKIAA1323	mindbomb E3 ubiquitin protein ligase 1	protein-coding	292.5	439.5	310.5	4725.0	666.0	266.0	373.5	295.5
Merged-chr5-103387587-4	chr5	103387513	103387713	+	806.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-37579.0	NM_011204	19249.0	Mm.3414	NM_011204	ENSMUSG00000034573	Ptpn13	AI324989|PTP-BL|PTPL1|Ptpri|RIP	protein tyrosine phosphatase, non-receptor type 13	protein-coding	11.0	17.5	10.5	138.0	24.0	4.0	7.0	9.5
Merged-chr8-126628826-4	chr8	126628750	126628950	+	933.8125	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-35414.0	NM_001164598	270110.0	Mm.334918	NM_001164598	ENSMUSG00000051495	Irf2bp2	E130305N23Rik|IRF-2BP2	interferon regulatory factor 2 binding protein 2	protein-coding	28.5	33.5	19.0	569.5	33.0	13.0	17.0	11.0
Merged-chr5-123058594-2	chr5	123058494	123058694	+	1000.0	f1_balb.idr|f1_c57bl6.idr	Intergenic	ID_B1|SINE|B4	-11578.0	NM_001347456	74890.0	Mm.141383	NM_029112	ENSMUSG00000029477	Morn3	4930438O03Rik	MORN repeat containing 3	protein-coding	5.0	5.5	4.5	47.5	3.5	0.5	8.0	4.0
Merged-chr12-38931944-4	chr12	38931847	38932047	+	910.375	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	148236.0	NM_001163154	14009.0	Mm.4866	NM_007960	ENSMUSG00000004151	Etv1	ER81|Etsrp81	ets variant 1	protein-coding	13.0	23.5	19.5	391.5	32.0	13.0	21.5	16.0
Merged-chr11-44544241-4	chr11	44544165	44544365	+	838.533325	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001166553, intron 4 of 5)	RSINE1|SINE|B4	24888.0	NM_001166553	74315.0	Mm.156771	NM_028862	ENSMUSG00000019189	Rnf145	3732413I11Rik|TMRF1	ring finger protein 145	protein-coding	9.5	9.5	4.5	146.0	25.5	10.0	11.0	13.5
Merged-chr9-54676754-4	chr9	54676651	54676851	+	795.583313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-14866.0	NM_053178	94180.0	Mm.20592	NM_053178	ENSMUSG00000032281	Acsbg1	BG1|Bgm|E230019G03Rik|GR-LACS|Lpd|R75185	acyl-CoA synthetase bubblegum family member 1	protein-coding	1.5	19.0	17.0	84.0	14.5	12.0	9.0	5.0
Merged-chr10-56228831-4	chr10	56228727	56228927	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033385)	promoter-TSS (NM_001033385)	-138.0	NM_001033385	544696.0	Mm.411188	NM_001033385	ENSMUSG00000038122	Tbc1d32	Bromi|C6orf170|D630037F22Rik|b2b2284Clo	TBC1 domain family, member 32	protein-coding	79.5	94.5	120.5	1264.5	164.0	64.5	70.5	79.0
Merged-chr1-180246382-4	chr1	180246277	180246477	+	990.9166869999999	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_011183)	promoter-TSS (NM_011183)	-427.0	NM_011183	19165.0	Mm.330850	NM_011183	ENSMUSG00000010609	Psen2	ALG-3|Ad4h|Alg3|PS-2|PS2|Psnl2|STM2	presenilin 2	protein-coding	17.0	31.5	27.0	524.5	26.0	24.0	31.5	22.5
Merged-chr4-122991383-4	chr4	122991263	122991463	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	HAL1|LINE|L1	-4568.0	NM_001303121	16918.0	Mm.1055	NM_008506	ENSMUSG00000028654	Mycl	AW536278|L-myc|Lmyc-1|Lmyc1|Mycl1|bHLHe38	v-myc avian myelocytomatosis viral oncogene lung carcinoma derived	protein-coding	37.5	91.5	39.0	448.5	169.0	60.0	46.5	60.0
Merged-chr14-31158272-2	chr14	31158172	31158372	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_138672, intron 18 of 68)	RMER17C|LTR|ERVK	10369.0	NM_138672	192187.0	Mm.220821	NM_138672	ENSMUSG00000042286	Stab1	FEEL-1|FELE-1|MFEEL-1|MS-1|STAB-1|mKIAA0246	stabilin 1	protein-coding	4.0	8.5	11.5	60.0	12.5	5.0	10.0	6.0
Merged-chr10-51480209-1	chr10	51480109	51480309	+	1000.0	f0_balb.idr	promoter-TSS (NM_001291893)	promoter-TSS (NM_001291893)	-403.0	NM_008147	14727.0	Mm.439661	NM_008147	ENSMUSG00000112023	Lilr4b	Gp49a|gp49	leukocyte immunoglobulin-like receptor, subfamily B, member 4B	protein-coding	29.5	33.5	12.0	280.5	63.0	17.5	16.5	25.5
Merged-chr4-107876196-4	chr4	107876068	107876268	+	863.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	non-coding (NR_033496, exon 21 of 21)	non-coding (NR_033496, exon 21 of 21)	-3587.0	NM_001282737	17149.0	Mm.808	NM_001282737	ENSMUSG00000028609	Magoh	Mago-m|Mos2	mago homolog, exon junction complex core component	protein-coding	13.5	19.5	10.0	100.5	31.5	9.5	12.5	6.5
Merged-chr1-128811061-1	chr1	128810961	128811161	+	794.0	f0_balb.idr	Intergenic	B4A|SINE|B4	-218762.0	NM_001356509	12767.0	Mm.1401	NM_009911	ENSMUSG00000045382	Cxcr4	CD184|CXC-R4|CXCR-4|Cmkar4|LESTR|PB-CKR|PBSF/SDF-1|Sdf1r|b2b220Clo	chemokine (C-X-C motif) receptor 4	protein-coding	9.0	7.0	4.5	160.5	23.0	3.5	4.0	8.5
Merged-chr15-73000030-4	chr15	72999935	73000135	+	794.93335	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_180662, exon 8 of 22)	exon (NM_180662, exon 8 of 22)	55777.0	NM_029640	76510.0	Mm.158902	NM_029640	ENSMUSG00000047921	Trappc9	1810044A24Rik|2900005P22Rik|4632408O18Rik|Ibp|Nibp|TRS130|mKIAA1882	trafficking protein particle complex 9	protein-coding	12.5	30.0	10.0	83.5	32.0	13.0	22.5	8.5
Merged-chr1-151312681-4	chr1	151312594	151312794	+	978.625	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-31792.0	NM_001359262	117198.0	Mm.33764	NM_028582	ENSMUSG00000023150	Ivns1abp	1190004M08Rik|1700126I16Rik|AA960440|HSPC068|ND1|NS-1|NS1-BP|Nd1-L|Nd1-S|mKIAA0850	influenza virus NS1A binding protein	protein-coding	26.5	27.5	17.0	374.5	38.0	19.5	23.0	20.0
Merged-chr4-144893591-5	chr4	144893553	144893753	+	907.0399779999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	exon (NM_001172424, exon 2 of 7)	exon (NM_001172424, exon 2 of 7)	516.0	NM_001357277	20148.0	Mm.14063	NM_011303	ENSMUSG00000066026	Dhrs3	Rsdr1|retSDR1	dehydrogenase/reductase (SDR family) member 3	protein-coding	8.5	8.0	6.5	87.0	10.0	3.0	3.5	9.0
Merged-chr6-124733179-4	chr6	124733085	124733285	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_013545)	promoter-TSS (NM_013545)	-31.0	NM_013545	15170.0	Mm.271799	NM_013545	ENSMUSG00000004266	Ptpn6	70Z-SHP|Hcph|PTPTY-42|Ptp1C|SH-PTP1|SHP-1|hcp|me	protein tyrosine phosphatase, non-receptor type 6	protein-coding	149.5	214.0	143.0	2067.0	375.0	128.0	155.0	138.5
Merged-chr10-60350938-4	chr10	60350843	60351043	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028732, intron 1 of 6)	intron (NM_028732, intron 1 of 6)	4092.0	NM_028732	74048.0	Mm.273584	NM_028732	ENSMUSG00000020101	Vsir	4632428N05Rik|Dies1|PD-1H|VISTA	V-set immunoregulatory receptor	protein-coding	52.0	47.5	20.0	478.5	119.5	43.5	61.0	38.5
Merged-chr4-102655564-4	chr4	102655451	102655651	+	887.25	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	65708.0	NM_001177981	18578.0	Mm.20181	NM_019840	ENSMUSG00000028525	Pde4b	Dpde4|R74983|dunce	phosphodiesterase 4B, cAMP specific	protein-coding	19.5	20.0	38.5	347.5	40.5	6.0	8.5	6.5
Merged-chr4-24620588-4	chr4	24620499	24620699	+	978.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001355618, intron 9 of 9)	intron (NM_001355618, intron 9 of 9)	124148.0	NM_199467	212377.0	Mm.120919	NM_199467	ENSMUSG00000045751	Mms22l	F730047E07Rik|Gm134	MMS22-like, DNA repair protein	protein-coding	20.0	21.0	17.0	396.5	40.5	18.5	28.5	14.0
Merged-chr13-85359368-4	chr13	85359262	85359462	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-69876.0	NM_145452	218397.0	Mm.259653	NM_145452	ENSMUSG00000021549	Rasa1	Gap|RasGAP|Rasa	RAS p21 protein activator 1	protein-coding	75.5	56.0	47.0	1137.5	146.5	71.0	80.0	75.5
Merged-chr4-83486579-4	chr4	83486496	83486696	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001290527)	promoter-TSS (NM_001290527)	-133.0	NM_001347143	101739.0	Mm.105331	NM_133948	ENSMUSG00000028484	Psip1	AA408851|AU015605|Dfs70|Ledgfa|Ledgfb|Psip2	PC4 and SFRS1 interacting protein 1	protein-coding	114.5	145.0	152.0	1412.5	144.0	86.5	74.0	82.0
Merged-chr17-88545465-4	chr17	88545394	88545594	+	923.7160640000001	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_028658, intron 3 of 21)	intron (NM_028658, intron 3 of 21)	15370.0	NM_028658	73825.0	Mm.271817	NM_028658	ENSMUSG00000034709	Ppp1r21	1110018J12Rik|AI426045|AW550781|Ccdc128|Klraq1	protein phosphatase 1, regulatory subunit 21	protein-coding	19.5	9.5	20.0	278.0	24.5	10.0	18.0	18.0
Merged-chr15-31531103-4	chr15	31531005	31531205	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_172606)	promoter-TSS (NM_172606)	-68.0	NM_172606	223455.0	Mm.272185	NM_172606	ENSMUSG00000039100	March6	3830408G03|F830029L24Rik|mKIAA0597	membrane-associated ring finger (C3HC4) 6	protein-coding	131.0	202.0	88.0	1860.5	376.0	131.5	182.0	141.5
Merged-chr7-72306522-3	chr7	72306463	72306663	+	889.8333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001024703)	promoter-TSS (NM_001024703)	32.0	NM_001024703	244049.0	Mm.217412	NM_001024703	ENSMUSG00000032776	Mctp2	Gm489	multiple C2 domains, transmembrane 2	protein-coding	27.5	14.0	24.0	207.0	5.0	6.0	0.5	5.5
Merged-chr12-79797236-4	chr12	79797129	79797329	+	783.416626	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009014, intron 9 of 10)	intron (NM_009014, intron 9 of 10)	127504.0	NR_131075	77290.0	Mm.395042	NR_131073	ENSMUSG00000112765	9430078K24Rik	-	RIKEN cDNA 9430078K24 gene	ncRNA	15.0	8.0	14.0	174.0	20.5	6.0	13.5	16.0
Merged-chr18-46198963-4	chr18	46198881	46199081	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001170855)	promoter-TSS (NM_001170855)	-163.0	NM_001170855	28105.0	Mm.277382	NM_178872	ENSMUSG00000033949	Trim36	D18Wsu100e|haprin	tripartite motif-containing 36	protein-coding	85.0	105.0	145.5	1508.0	175.5	58.0	71.5	83.5
Merged-chr11-9011154-4	chr11	9011070	9011270	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001303532)	promoter-TSS (NM_001303532)	21.0	NM_001303610	15574.0	Mm.42201	NM_008316	ENSMUSG00000020413	Hus1	-	HUS1 checkpoint clamp component	protein-coding	34.5	52.0	29.0	385.5	97.5	33.0	41.0	44.5
Merged-chr1-135660311-3	chr1	135660201	135660401	+	967.3333130000001	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-59762.0	NM_001360782	13007.0	Mm.196484	NM_007791	ENSMUSG00000026421	Csrp1	AA408841|AA959891|AW545626|CRP1|Csrp	cysteine and glycine-rich protein 1	protein-coding	12.0	17.5	9.5	180.5	9.5	8.5	7.5	10.0
Merged-chr16-78197639-4	chr16	78197559	78197759	+	997.875	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	57795.0	NR_045698	100503619.0	Mm.387531	NR_045698	ENSMUSG00000109841	E330011O21Rik	-	RIKEN cDNA E330011O21 gene	ncRNA	18.0	27.0	16.0	400.5	95.5	31.5	37.5	22.5
Merged-chr15-39840850-3	chr15	39840749	39840949	+	923.9166869999999	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001164466, intron 4 of 9)	intron (NM_001164466, intron 4 of 9)	16621.0	NM_001164466	64705.0	Mm.275974	NM_022722	ENSMUSG00000022304	Dpys	1200017I10Rik|1300004I01Rik|DHP|DHPase	dihydropyrimidinase	protein-coding	9.0	20.5	5.5	167.0	11.0	4.5	7.5	12.0
Merged-chr7-44960257-2	chr7	44960171	44960371	+	883.75	f1_balb.idr|f1_c57bl6.idr	intron (NM_001357670, intron 16 of 18)	intron (NM_001357670, intron 16 of 18)	14580.0	NM_001357670	78070.0	Mm.231465	NM_153679	ENSMUSG00000007783	Cpt1c	6530437J22Rik|9630004I06Rik|CPT I-C|CPT IC|CPT1-B|CPTI-B	carnitine palmitoyltransferase 1c	protein-coding	7.0	5.5	7.5	29.0	10.0	3.0	2.0	1.0
Merged-chr11-22287164-4	chr11	22287063	22287263	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_153078)	promoter-TSS (NM_153078)	-368.0	NM_001252515	216565.0	Mm.491265	NM_153078	ENSMUSG00000042302	Ehbp1	AF424697|Flj21950|NACSIN	EH domain binding protein 1	protein-coding	348.0	474.5	357.0	6088.0	647.5	215.5	341.5	259.5
Merged-chr9-56265670-4	chr9	56265589	56265789	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_172924, intron 3 of 6)	Lx7|LINE|L1	-104619.0	NM_019793	56434.0	Mm.28484	NM_019793	ENSMUSG00000032324	Tspan3	1700055K04Rik|TM4-A|Tm4sf8	tetraspanin 3	protein-coding	26.0	41.5	32.5	551.5	67.5	26.0	35.0	31.5
Merged-chr4-128655518-2	chr4	128655418	128655618	+	1000.0	f1_balb.idr|f1_c57bl6.idr	intron (NM_001195130, intron 1 of 14)	intron (NM_001195130, intron 1 of 14)	816.0	NM_001195130	54383.0	Mm.473738	NM_018774	ENSMUSG00000028796	Phc2	A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36	polyhomeotic 2	protein-coding	6.0	6.5	9.5	85.0	16.5	4.0	6.5	3.5
Merged-chr17-5589139-4	chr17	5589024	5589224	+	960.833374	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_146073, intron 1 of 8)	intron (NM_146073, intron 1 of 8)	96524.0	NM_146073	224454.0	Mm.487663	NM_146073	ENSMUSG00000034265	Zdhhc14	B530001K09Rik|New1cp	zinc finger, DHHC domain containing 14	protein-coding	23.5	18.5	19.5	232.0	40.5	17.5	15.5	12.5
Merged-chr1-105801384-4	chr1	105801287	105801487	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_009399, intron 1 of 9)	intron (NM_009399, intron 1 of 9)	20664.0	NM_009399	21934.0	Mm.6251	NM_009399	ENSMUSG00000026321	Tnfrsf11a	Ly109|ODFR|OFE|Rank|TRANCE-R|mRANK	tumor necrosis factor receptor superfamily, member 11a, NFKB activator	protein-coding	33.0	42.0	33.0	748.0	69.0	35.0	25.0	41.5
Merged-chr1-36941356-4	chr1	36941245	36941445	+	803.729126	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-1818.0	NM_018872	56030.0	Mm.186943	NM_018872	ENSMUSG00000026116	Tmem131	2610524E03Rik|CC28|D1Bwg0491e|Neg|RW1|YR-23|mKIAA0257	transmembrane protein 131	protein-coding	15.0	16.5	7.5	106.0	28.0	10.0	12.0	5.5
Merged-chr13-30702387-4	chr13	30702277	30702477	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_134068, intron 4 of 7)	intron (NM_134068, intron 4 of 7)	42318.0	NM_134068	105352.0	Mm.289646	NM_134068	ENSMUSG00000069255	Dusp22	JKAP|JSP1|LMW-DSP2|MKPX	dual specificity phosphatase 22	protein-coding	53.0	70.0	38.0	276.0	61.0	15.0	32.0	25.0
Merged-chr4-155892246-4	chr4	155892189	155892389	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_001033490)	promoter-TSS (NM_001033490)	414.0	NM_207223	140500.0	Mm.219591	NM_207223	ENSMUSG00000029033	Acap3	Centb5|Kiaa1716-hp|mKIAA1716	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	protein-coding	38.0	40.5	24.0	380.0	99.5	24.5	39.5	17.5
Merged-chr14-33158475-4	chr14	33158401	33158601	+	860.400024	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	intron (NM_001146022, intron 2 of 58)	intron (NM_001146022, intron 2 of 58)	26565.0	NM_001146022	545030.0	Mm.318345	NM_001146022	ENSMUSG00000051506	Wdfy4	Gm18810	WD repeat and FYVE domain containing 4	protein-coding	16.5	19.5	8.5	171.5	21.5	14.5	13.0	8.0
Merged-chr6-120452604-4	chr6	120452502	120452702	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-10595.0	NM_008359	16172.0	Mm.4481	NM_008359	ENSMUSG00000002897	Il17ra	AW538159|Cdw217|Il17r|VDw217	interleukin 17 receptor A	protein-coding	45.0	52.5	34.0	661.0	84.0	33.5	56.5	35.0
Merged-chr6-54644546-3	chr6	54644433	54644633	+	852.111084	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	3' UTR (NM_001164361, exon 14 of 14)	3' UTR (NM_001164361, exon 14 of 14)	-37091.0	NM_001289741	68235.0	Mm.233860	NM_026629	ENSMUSG00000038065	Mturn	2410066E13Rik|AI448550|B230212L03Rik	maturin, neural progenitor differentiation regulator homolog (Xenopus)	protein-coding	15.5	10.0	12.0	165.0	12.5	1.5	4.0	3.5
Merged-chr11-83535908-3	chr11	83535881	83536081	+	928.888916	f0_balb.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	-5463.0	NM_013653	20304.0	Mm.284248	NM_013653	ENSMUSG00000035042	Ccl5	MuRantes|RANTES|SISd|Scya5|TCP228	chemokine (C-C motif) ligand 5	protein-coding	20.0	16.0	4.5	84.5	31.5	9.0	5.5	3.0
Merged-chr5-148494791-4	chr5	148494696	148494896	+	794.958313	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	Intergenic	56877.0	NM_001359201	24109.0	Mm.21846	NM_011908	ENSMUSG00000001687	Ubl3	AW108023|HCG|MUB|mmMUB	ubiquitin-like 3	protein-coding	6.0	7.0	7.5	53.0	26.5	13.0	10.0	13.5
Merged-chr2-118246154-1	chr2	118246054	118246254	+	618.0	f1_c57bl6.idr	intron (NM_027759, intron 5 of 10)	intron (NM_027759, intron 5 of 10)	10812.0	NM_027759	71313.0	Mm.85046	NM_027759	ENSMUSG00000027344	Fsip1	1700012M13Rik|4933432K11Rik	fibrous sheath-interacting protein 1	protein-coding	6.0	2.0	6.0	103.0	12.0	6.0	8.5	4.5
Merged-chr7-80115382-4	chr7	80115272	80115472	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	promoter-TSS (NM_173011)	promoter-TSS (NM_173011)	-22.0	NM_173011	269951.0	Mm.246432	NM_173011	ENSMUSG00000030541	Idh2	E430004F23|IDPm|Idh-2	isocitrate dehydrogenase 2 (NADP+), mitochondrial	protein-coding	57.5	99.0	85.0	1168.0	138.5	57.0	97.5	92.5
Merged-chr13-63112216-1	chr13	63112116	63112316	+	863.0	f0_balb.idr	intron (NM_001289926, intron 5 of 15)	intron (NM_001289926, intron 5 of 15)	-127813.0	NR_110520	72061.0	Mm.188105	NM_028079	ENSMUSG00000021458	2010111I01Rik	2300006M17Rik|AP-O|AW742919|Aopep|ApO|mir-23b|mir-24-1|mir-27b	RIKEN cDNA 2010111I01 gene	protein-coding	17.5	5.5	9.5	230.5	3.5	2.0	1.0	4.5
Merged-chr8-80948933-2	chr8	80948846	80949046	+	1000.0	f0_c57.idr|f1_balb.idr	Intergenic	Intergenic	65960.0	NM_027554	74841.0	Mm.246018	NM_027554	ENSMUSG00000038250	Usp38	4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891	ubiquitin specific peptidase 38	protein-coding	69.5	119.5	76.5	932.5	189.5	88.5	89.0	67.5
Merged-chr1-74373514-4	chr1	74373414	74373614	+	1000.0	f0_balb.idr|f0_c57.idr|f1_balb.idr|f1_c57bl6.idr	Intergenic	L1MD1|LINE|L1	-1689.0	NM_013612	18173.0	Mm.2913	NM_013612	ENSMUSG00000026177	Slc11a1	Bcg|Ity|Ity1|Lsh|Nramp|Nramp1|ity	solute carrier family 11 (proton-coupled divalent metal ion transporters), member 1	protein-coding	118.5	164.5	107.5	1695.5	228.0	67.5	107.5	79.5